6AH0
The Cryo-EM Structure of the Precusor of Human Pre-catalytic Spliceosome (pre-B complex)
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
B [auth D] | SCOP2B Superfamily | E set domains | 8055093 | 3000070 | SCOP2B (2022-06-29) |
B [auth D] | SCOP2B Superfamily | Brl domain-like | 8036193 | 3000115 | SCOP2B (2022-06-29) |
D [auth a] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041749 | 3000419 | SCOP2B (2022-06-29) |
VA [auth P] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041749 | 3000419 | SCOP2B (2022-06-29) |
Z [auth k] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041749 | 3000419 | SCOP2B (2022-06-29) |
CA [auth n] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063468 | 3000419 | SCOP2B (2022-06-29) |
YA [auth S] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063468 | 3000419 | SCOP2B (2022-06-29) |
G [auth d] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063468 | 3000419 | SCOP2B (2022-06-29) |
H [auth e] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041751 | 3000419 | SCOP2B (2022-06-29) |
W [auth h] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041751 | 3000419 | SCOP2B (2022-06-29) |
ZA [auth T] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041751 | 3000419 | SCOP2B (2022-06-29) |
AB [auth U] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041747 | 3000419 | SCOP2B (2022-06-29) |
I [auth f] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041747 | 3000419 | SCOP2B (2022-06-29) |
X [auth i] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041747 | 3000419 | SCOP2B (2022-06-29) |
KA [auth 5] | SCOP2B Superfamily | RNA-binding domain, RBD | 8040695 | 3000110 | SCOP2B (2022-06-29) |
QA [auth L] | SCOP2B Superfamily | Nop domain | 8033305 | 3001551 | SCOP2B (2022-06-29) |
SA [auth O] | SCOP2B Superfamily | Thioredoxin-like | 8044390 | 3000031 | SCOP2B (2022-06-29) |
BB [auth V] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041748 | 3000419 | SCOP2B (2022-06-29) |
J [auth g] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041748 | 3000419 | SCOP2B (2022-06-29) |
Y [auth j] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8041748 | 3000419 | SCOP2B (2022-06-29) |
M [auth r] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063456 | 3000419 | SCOP2B (2022-06-29) |
N [auth s] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063488 | 3000419 | SCOP2B (2022-06-29) |
O [auth t] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063472 | 3000419 | SCOP2B (2022-06-29) |
P [auth x] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063442 | 3000419 | SCOP2B (2022-06-29) |
Q [auth y] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063466 | 3000419 | SCOP2B (2022-06-29) |
R [auth z] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063492 | 3000419 | SCOP2B (2022-06-29) |
U [auth o] | SCOP2B Superfamily | L domain-like | 8043993 | 3001010 | SCOP2B (2022-06-29) |
V [auth p] | SCOP2B Superfamily | RNA-binding domain, RBD | 8035327 | 3000110 | SCOP2B (2022-06-29) |
IA [auth 3] | SCOP2B Superfamily | WD40 repeat-like | 8052534 | 3001694 | SCOP2B (2022-06-29) |
IA [auth 3] | SCOP2B Superfamily | WD40 repeat-like | 8052535 | 3001694 | SCOP2B (2022-06-29) |
IA [auth 3] | SCOP2B Superfamily | WD40 repeat-like | 8051197 | 3001694 | SCOP2B (2022-06-29) |
IA [auth 3] | SCOP2B Superfamily | WD40 repeat-like | 8052534 | 3001694 | SCOP2B (2022-06-29) |
JA [auth 4] | SCOP2B Superfamily | RNA-binding domain, RBD | 8090834 | 3000110 | SCOP2B (2022-06-29) |
LA [auth 6] | SCOP2B Superfamily | Triquetra zinc finger motif | 8051848 | 3002040 | SCOP2B (2022-06-29) |
RA [auth M] | SCOP2B Superfamily | L30e-like | 8043738 | 3001739 | SCOP2B (2022-06-29) |
DB [auth A] | SCOP2B Superfamily | JAB1/MPN domain-like | 8053277 | 3001105 | SCOP2B (2022-06-29) |
DB [auth A] | SCOP2B Superfamily | Ribonuclease H-like | 8041105 | 3000143 | SCOP2B (2022-06-29) |
AA [auth m] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063452 | 3000419 | SCOP2B (2022-06-29) |
E [auth b] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063452 | 3000419 | SCOP2B (2022-06-29) |
WA [auth Q] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063452 | 3000419 | SCOP2B (2022-06-29) |
BA [auth l] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063476 | 3000419 | SCOP2B (2022-06-29) |
F [auth c] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063476 | 3000419 | SCOP2B (2022-06-29) |
XA [auth R] | SCOP2B Superfamily | Sm-like ribonucleoproteins | 8063476 | 3000419 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
B [auth D] | Sec63_3rd | e6ah0D8 | A: beta sandwiches | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: Sec63_3rd | ECOD (1.6) |
B [auth D] | KOG0952 | e6ah0D9 | A: alpha arrays | X: HTH | H: HTH | T: winged | F: KOG0952 | ECOD (1.6) |
B [auth D] | Sec63_2nd_1 | e6ah0D15 | A: alpha arrays | X: HhH/H2TH | H: SAM-like subdomain in Sec63-like proteins (From Topology) | T: SAM-like subdomain in Sec63-like proteins | F: Sec63_2nd_1 | ECOD (1.6) |
B [auth D] | Sec63_2nd | e6ah0D3 | A: alpha arrays | X: HhH/H2TH | H: SAM-like subdomain in Sec63-like proteins (From Topology) | T: SAM-like subdomain in Sec63-like proteins | F: Sec63_2nd | ECOD (1.6) |
B [auth D] | Sec63_1st | e6ah0D11 | A: alpha arrays | X: Sec63 N-terminal subdomain-like (From Topology) | H: Sec63 N-terminal subdomain-like (From Topology) | T: Sec63 N-terminal subdomain-like | F: Sec63_1st | ECOD (1.6) |
B [auth D] | KOG0951_1st | e6ah0D7 | A: alpha arrays | X: PWI domain-like | H: PWI domain (From Topology) | T: PWI domain | F: KOG0951_1st | ECOD (1.6) |
B [auth D] | EUF08005 | e6ah0D6 | A: alpha arrays | X: PWI domain-like | H: Pre-mRNA-splicing helicase BRR2 plug domain (From Topology) | T: Pre-mRNA-splicing helicase BRR2 plug domain | F: EUF08005 | ECOD (1.6) |
B [auth D] | DEAD_1 | e6ah0D1 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: DEAD_1 | ECOD (1.6) |
B [auth D] | Helicase_C_5 | e6ah0D10 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: Helicase_C_5 | ECOD (1.6) |
B [auth D] | KOG0951_2nd | e6ah0D2 | A: extended segments | X: Pre-mRNA-splicing helicase BRR2 NC-clamp (From Topology) | H: Pre-mRNA-splicing helicase BRR2 NC-clamp (From Topology) | T: Pre-mRNA-splicing helicase BRR2 NC-clamp | F: KOG0951_2nd | ECOD (1.6) |
D [auth a] | LSM | e6ah0a1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
VA [auth P] | LSM | e6ah0P1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
Z [auth k] | LSM | e6ah0k1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
CA [auth n] | LSM | e6ah0n1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
YA [auth S] | LSM | e6ah0S1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
G [auth d] | LSM | e6ah0d1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
H [auth e] | LSM | e6ah0e1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
W [auth h] | LSM | e6ah0h1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
ZA [auth T] | LSM | e6ah0T1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
AB [auth U] | LSM | e6ah0U1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
I [auth f] | LSM | e6ah0f1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
X [auth i] | LSM | e6ah0i1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
DA [auth u] | Surp | e6ah0u1 | A: alpha bundles | X: Surp module (SWAP domain) (From Topology) | H: Surp module (SWAP domain) (From Topology) | T: Surp module (SWAP domain) | F: Surp | ECOD (1.6) |
KA [auth 5] | RRM_1_2 | e6ah051 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: RRM_1_2 | ECOD (1.6) |
QA [auth L] | Nop_C | e6ah0L1 | A: alpha arrays | X: HhH/H2TH | H: SAM/DNA-glycosylase | T: Nop C-terminal domain | F: Nop_C | ECOD (1.6) |
QA [auth L] | Nop_N | e6ah0L2 | A: alpha complex topology | X: Nop N-terminal domain (From Topology) | H: Nop N-terminal domain (From Topology) | T: Nop N-terminal domain | F: Nop_N | ECOD (1.6) |
SA [auth O] | DIM1 | e6ah0O1 | A: a+b three layers | X: Thioredoxin-like | H: Thioredoxin-like (From Topology) | T: Thioredoxin-like | F: DIM1 | ECOD (1.6) |
CB [auth X] | DEAD | e6ah0X2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: DEAD | ECOD (1.6) |
CB [auth X] | Helicase_C_1 | e6ah0X1 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: Helicase_C_1 | ECOD (1.6) |
EB [auth C] | GTP_EFTU_D2_2 | e6ah0C1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: GTP_EFTU_D2_2 | ECOD (1.6) |
EB [auth C] | EFG_IV | e6ah0C5 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: EFG_IV | ECOD (1.6) |
EB [auth C] | EFG_C | e6ah0C3 | A: a+b two layers | X: Alpha-beta plaits | H: EF-G C-terminal domain-like (From Topology) | T: EF-G C-terminal domain-like | F: EFG_C | ECOD (1.6) |
EB [auth C] | EFG_II | e6ah0C4 | A: a+b two layers | X: Alpha-beta plaits | H: EF-G C-terminal domain-like (From Topology) | T: EF-G C-terminal domain-like | F: EFG_II | ECOD (1.6) |
EB [auth C] | MnmE_helical_2nd | e6ah0C2 | A: a/b three-layered sandwiches | X: P-loop domains-like | H: P-loop domains-related | T: P-loop containing nucleoside triphosphate hydrolases | F: MnmE_helical_2nd | ECOD (1.6) |
BB [auth V] | LSM | e6ah0V1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
J [auth g] | LSM | e6ah0g1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
Y [auth j] | LSM | e6ah0j1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
L [auth q] | LSM | e6ah0q1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
M [auth r] | LSM | e6ah0r1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
N [auth s] | LSM | e6ah0s1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
O [auth t] | LSM | e6ah0t1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
P [auth x] | LSM | e6ah0x1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
Q [auth y] | LSM | e6ah0y1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
R [auth z] | LSM | e6ah0z1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
U [auth o] | LRR_9 | e6ah0o1 | A: beta duplicates or obligate multimers | X: Single-stranded right-handed beta-helix | H: Leucine-rich repeats (From Topology) | T: Leucine-rich repeats | F: LRR_9 | ECOD (1.6) |
V [auth p] | RRM_1_2 | e6ah0p1 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: RRM_1_2 | ECOD (1.6) |
EA [auth v] | SF3A2 | e6ah0v1 | A: beta sandwiches | X: HSP20-like | H: Pre-mRNA-splicing factor PRP11 C-terminal domain (From Topology) | T: Pre-mRNA-splicing factor PRP11 C-terminal domain | F: SF3A2 | ECOD (1.6) |
FA [auth w] | PRP9_N | e6ah0w1 | A: alpha bundles | X: Pre-mRNA-splicing factor PRP9 (From Topology) | H: Pre-mRNA-splicing factor PRP9 (From Topology) | T: Pre-mRNA-splicing factor PRP9 | F: PRP9_N | ECOD (1.6) |
IA [auth 3] | CPSF_A_N | e6ah033 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: CPSF_A_N | ECOD (1.6) |
IA [auth 3] | MMS1_N_C | e6ah032 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: MMS1_N_C | ECOD (1.6) |
IA [auth 3] | MMS1_N_N | e6ah034 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: MMS1_N_N | ECOD (1.6) |
IA [auth 3] | CPSF_A_C | e6ah031 | A: alpha arrays | X: HTH | H: HTH | T: tri-helical | F: CPSF_A_C | ECOD (1.6) |
JA [auth 4] | RRM_1_1 | e6ah041 | A: a+b two layers | X: Alpha-beta plaits | H: RNA-binding domain, RBD (From Topology) | T: RNA-binding domain, RBD | F: RRM_1_1 | ECOD (1.6) |
C [auth E] | ANAPC4_WD40_7 | e6ah0E1 | A: beta duplicates or obligate multimers | X: beta-propeller-like | H: beta-propeller | T: 7-bladed | F: ANAPC4_WD40_7 | ECOD (1.6) |
LA [auth 6] | PHF5 | e6ah061 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: PHD finger-like domain-containing protein 5A | F: PHF5 | ECOD (1.6) |
MA [auth 7] | SF3b10 | e6ah071 | A: alpha arrays | X: RDS3 complex subunit 10 (From Topology) | H: RDS3 complex subunit 10 (From Topology) | T: RDS3 complex subunit 10 | F: SF3b10 | ECOD (1.6) |
PA [auth N] | TPR_15 | e6ah0N1 | A: alpha superhelices | X: Repetitive alpha hairpins | H: ARM repeat (From Topology) | T: ARM repeat | F: TPR_15 | ECOD (1.6) |
RA [auth M] | Ribosomal_L7Ae_1 | e6ah0M1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae_1 | ECOD (1.6) |
TA [auth W] | UCH | e6ah0W1 | A: a+b complex topology | X: Cysteine proteinases-like | H: Cysteine proteinases (From Topology) | T: Cysteine proteinases | F: UCH | ECOD (1.6) |
TA [auth W] | zf-UBP | e6ah0W2 | A: few secondary structure elements | X: RING/U-box-like | H: RING/U-box-like | T: RING/U-box | F: zf-UBP | ECOD (1.6) |
DB [auth A] | U5_2-snRNA_bdg | e6ah0A4 | A: alpha bundles | X: helical bundle domain in reverse transcriptase-like polymerases (From Topology) | H: helical bundle domain in reverse transcriptase-like polymerases (From Topology) | T: helical bundle domain in reverse transcriptase-like polymerases | F: U5_2-snRNA_bdg | ECOD (1.6) |
DB [auth A] | PROCN_C,PROCN_N | e6ah0A2 | A: alpha complex topology | X: Pre-mRNA-splicing factor 8 N-terminal domain (From Topology) | H: Pre-mRNA-splicing factor 8 N-terminal domain (From Topology) | T: Pre-mRNA-splicing factor 8 N-terminal domain | F: PROCN_C,PROCN_N | ECOD (1.6) |
DB [auth A] | RRM_4 | e6ah0A6 | A: a+b two layers | X: Alpha-beta plaits | H: Adenylyl and guanylyl cyclase catalytic domain-like | T: Adenylyl and guanylyl cyclase catalytic domain-like | F: RRM_4 | ECOD (1.6) |
DB [auth A] | PROCT | e6ah0A1 | A: a+b three layers | X: Cytidine deaminase-like (From Topology) | H: Cytidine deaminase-like (From Topology) | T: Cytidine deaminase-like | F: PROCT | ECOD (1.6) |
DB [auth A] | U6-snRNA_bdg | e6ah0A3 | A: a/b three-layered sandwiches | X: Restriction endonuclease-like | H: Restriction endonuclease-like (From Topology) | T: Restriction endonuclease-like | F: U6-snRNA_bdg | ECOD (1.6) |
DB [auth A] | PRP8_domainIV | e6ah0A5 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PRP8_domainIV | ECOD (1.6) |
AA [auth m] | LSM | e6ah0m1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
E [auth b] | LSM | e6ah0b1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
WA [auth Q] | LSM | e6ah0Q1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
BA [auth l] | LSM | e6ah0l1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
F [auth c] | LSM | e6ah0c1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
XA [auth R] | LSM | e6ah0R1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: LSM | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
B [auth D] | PF02889 | Sec63 Brl domain (Sec63) | Sec63 Brl domain | - | Family |
B [auth D] | PF21188 | Pre-mRNA-splicing helicase BRR2 plug domain (BRR2_plug) | Pre-mRNA-splicing helicase BRR2 plug domain | This entry represents the Plug domain from the Brr2 RNA helicase protein. The Brr2 helicase provides the key remodelling activity for spliceosome catalytic activation, during which it disrupts the U4/U6 di-snRNP (small nuclear RNA protein) [2]. The p ... | Domain |
B [auth D] | PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain |
B [auth D] | PF00271 | Helicase conserved C-terminal domain (Helicase_C) | Helicase conserved C-terminal domain | The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. | Domain |
B [auth D] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
D [auth a], VA [auth P], Z [auth k] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ... | Domain |
D [auth a], VA [auth P], Z [auth k] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
CA [auth n], G [auth d], YA [auth S] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
H [auth e], W [auth h], ZA [auth T] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
AB [auth U], I [auth f], X [auth i] | PF01805 | Surp module (Surp) | Surp module | - | Family |
AB [auth U], I [auth f], X [auth i] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
KA [auth 5] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ... | Domain |
QA [auth L] | PF01798 | snoRNA binding domain, fibrillarin (Nop) | snoRNA binding domain, fibrillarin | - | Family |
QA [auth L] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
SA [auth O] | PF02966 | Mitosis protein DIM1 (DIM1) | Mitosis protein DIM1 | - | Domain |
CB [auth X] | PF00270 | DEAD/DEAH box helicase (DEAD) | DEAD/DEAH box helicase | Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ... | Domain |
CB [auth X] | PF00271 | Helicase conserved C-terminal domain (Helicase_C) | Helicase conserved C-terminal domain | The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. | Domain |
CB [auth X] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
EB [auth C] | PF00679 | Elongation factor G C-terminus (EFG_C) | Elongation factor G C-terminus | This domain includes the carboxyl terminal regions of Elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopt a ferredoxin-like fold. | Domain |
EB [auth C] | PF00009 | Elongation factor Tu GTP binding domain (GTP_EFTU) | Elongation factor Tu GTP binding domain | This domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. | Domain |
EB [auth C] | PF14492 | Elongation Factor G, domain III (EFG_III) | Elongation Factor G, domain III | This domain is found in Elongation Factor G. It shares a similar structure with domain V (Pfam:PF00679). Structural studies in drosophila indicate this is domain 3 [1]. | Domain |
EB [auth C] | PF03144 | Elongation factor Tu domain 2 (GTP_EFTU_D2) | Elongation factor Tu domain 2 | Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ... | Domain |
EB [auth C] | PF03764 | Elongation factor G, domain IV (EFG_IV) | Elongation factor G, domain IV | This domain is found in elongation factor G, elongation factor 2 and some tetracycline resistance proteins and adopts a ribosomal protein S5 domain 2-like fold. | Domain |
EB [auth C] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
A [auth B] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
BB [auth V], J [auth g], Y [auth j] | PF16835 | Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11) (SF3A2) | Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11) | SF3A2 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp2 ... | Domain |
BB [auth V], J [auth g], Y [auth j] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
K [auth F] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
S [auth G] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
T [auth H] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
GA [auth 1] | PF22646 | PPP2R1A-like HEAT repeat (PPP2R1A-like_HEAT) | PPP2R1A-like HEAT repeat | - | Repeat |
HA [auth 2] | PF04037 | Domain of unknown function (DUF382) (DUF382) | Domain of unknown function (DUF382) | - | Family |
HA [auth 2] | PF04046 | PSP (PSP) | PSP | - | Family |
IA [auth 3] | PF10433 | Mono-functional DNA-alkylating methyl methanesulfonate N-term (MMS1_N) | Mono-functional DNA-alkylating methyl methanesulfonate N-term | - | Repeat |
IA [auth 3] | PF03178 | CPSF A subunit region (CPSF_A) | CPSF A subunit region | - | Repeat |
JA [auth 4] | PF00076 | RNA recognition motif (RRM_1) | RNA recognition motif | The RRM motif (a.k.a. RRM, RBD, or RNP domain) is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and pro ... | Domain |
C [auth E] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
C [auth E] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
NA [auth J] | PF06544 | Small nuclear ribonucleoprotein Prp3, C-terminal domain (Prp3_C) | Small nuclear ribonucleoprotein Prp3, C-terminal domain | This domain is found at the C-terminal end of U4/U6 and U4/U5/U6- small nuclear ribonucleoprotein Prp3, part of the tri-RNA complex that form the spliceosome. Prp3 plays a key role in the recognition of the snRNA duplex. This binding domain, highly c ... | Domain |
NA [auth J] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
OA [auth K] | PF00400 | WD domain, G-beta repeat (WD40) | WD domain, G-beta repeat | - | Repeat |
OA [auth K] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
PA [auth N] | PF06424 | PRP1 splicing factor, N-terminal (PRP1_N) | PRP1 splicing factor, N-terminal | This domain is specific to the N-terminal part of the prp1 splicing factor, which is involved in mRNA splicing (and possibly also poly(A)+ RNA nuclear export and cell cycle progression). This domain is specific to the N terminus of the RNA splicing f ... | Domain |
PA [auth N] | PF13432 | Tetratricopeptide repeat (TPR_16) | Tetratricopeptide repeat | - | Repeat |
PA [auth N] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
RA [auth M] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ... | Domain |
RA [auth M] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
TA [auth W] | PF16837 | Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9 (SF3A3) | Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9 | SF3A3 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp2 ... | Domain |
TA [auth W] | PF13297 | Replication stress response SDE2 C-terminal (SDE2_2C) | Replication stress response SDE2 C-terminal | This domain represents the C-terminal region of the Replication stress response SDE2, a genome surveillance factor. It contains the DNA-binding SAP domain, frequently found in proteins involved in DNA repair. SDE2 C-terminal domain must be cleaved fr ... | Domain |
TA [auth W] | PF02148 | Zn-finger in ubiquitin-hydrolases and other protein (zf-UBP) | Zn-finger in ubiquitin-hydrolases and other protein | - | Domain |
TA [auth W] | PF00443 | Ubiquitin carboxyl-terminal hydrolase (UCH) | Ubiquitin carboxyl-terminal hydrolase | - | Family |
TA [auth W] | PF12108 | Splicing factor SF3a60 binding domain (SF3a60_bindingd) | Splicing factor SF3a60 binding domain | This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is th ... | Domain |
UA [auth I] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
DB [auth A] | PF10597 | U5-snRNA binding site 2 of PrP8 (U5_2-snRNA_bdg) | U5-snRNA binding site 2 of PrP8 | The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis [1]. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that ... | Domain |
DB [auth A] | PF10598 | RNA recognition motif of the spliceosomal PrP8 (RRM_4) | RNA recognition motif of the spliceosomal PrP8 | The large RNA-protein complex of the spliceosome catalyses pre-mRNA splicing. One of the most conserved core proteins is PrP8 which occupies a central position in the catalytic core of the spliceosome, and has been implicated in several crucial molec ... | Domain |
DB [auth A] | PF10596 | U6-snRNA interacting domain of PrP8 (U6-snRNA_bdg) | U6-snRNA interacting domain of PrP8 | This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome, and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 ... | Domain |
DB [auth A] | PF12134 | PRP8 domain IV core (PRP8_domainIV) | PRP8 domain IV core | This domain is found in eukaryotes, and is about 20 amino acids in length. It is found associated with Pfam:PF10597, Pfam:PF10596, Pfam:PF10598, Pfam:PF08083, Pfam:PF08082, Pfam:PF01398, Pfam:PF08084. There is a conserved LILR sequence motif. The dom ... | Domain |
DB [auth A] | PF08082 | PRO8NT (NUC069), PrP8 N-terminal domain (PRO8NT) | PRO8NT (NUC069), PrP8 N-terminal domain | The PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family [1]. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly va ... | Domain |
DB [auth A] | PF08083 | PROCN (NUC071) domain (PROCN) | PROCN (NUC071) domain | The PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family [1]. | Domain |
DB [auth A] | PF08084 | PROCT (NUC072) domain (PROCT) | PROCT (NUC072) domain | The PROCT domain is the C-terminal domain in pre-mRNA splicing factors of PRO8 family [1]. | Domain |
DB [auth A] | PF01398 | JAB1/Mov34/MPN/PAD-1 ubiquitin protease (JAB) | JAB1/Mov34/MPN/PAD-1 ubiquitin protease | - | Family |
DB [auth A] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
AA [auth m], E [auth b], WA [auth Q] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |
BA [auth l], F [auth c], XA [auth R] | PF01423 | LSM domain (LSM) | LSM domain | The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ... | Domain |