8FDU | pdb_00008fdu

Engineered human dynein motor domain in the microtubule-unbound state with LIS1 complex in the buffer containing ATP-Vi (local refined on AAA3-AAA5 and LIS1)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
CSCOP2B SuperfamilyWD40 repeat-like 8103390 3001694 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyWD40 repeat-like 8103390 3001694 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B, C
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PF22597Dynein heavy chain, ATPase lid domain (DYN_lid)Dynein heavy chain, ATPase lid domainDyneins are microtubule-based AAA(+) motor complexes that power ciliary beating, cell division, cell migration and intracellular transport and comprise cytoplasmic and axonemal isoforms. They consist of a motor domain that contains a ring-shaped head ...Dyneins are microtubule-based AAA(+) motor complexes that power ciliary beating, cell division, cell migration and intracellular transport and comprise cytoplasmic and axonemal isoforms. They consist of a motor domain that contains a ring-shaped head with six AAA-domains, a coiled-coil stalk with a microtubule binding domain (MTBD) and a linker [1-5] This entry represents the lid domain found at the C-terminal of the third AAA+ ATPase domain in dyneins [1-5].
Domain
PF12775P-loop containing dynein motor region (AAA_7)P-loop containing dynein motor regionThis domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliophathies. Dyneins share a conserved motor domain that couples cycles of ATP hydr ...This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliophathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs) [1].
Domain
PF12781ATP-binding dynein motor region (AAA_9)ATP-binding dynein motor regionThis domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydro ...This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the fifth AAA+ domain subdomain AAA5S. Structural analysis reveal that it is the coiled-coil buttress interface. The relative movement of AAA5S together with the stalk (AAA4S), is coupled to rearrangements in the AAA+ ring. Closure of the AAA1 site and the rigid body movement of AAA2-AAA4 force the AAA4/AAA5 interface to close and the AAA6L subdomain to rotate towards the ring centre. The AAA5S subdomain rotates as a unit together with AAA6L, and this movement pulls the buttress relative to the stalk [1].
Domain
PF12780P-loop containing dynein motor region D4 (AAA_8)P-loop containing dynein motor region D4The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures describ ...The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D4 ATP-binding region of the motor [1].
Domain
PF12777Microtubule-binding stalk of dynein motor (MT)Microtubule-binding stalk of dynein motorthe 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures describ ...the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This family is the region between D4 and D5 and is the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B, C
Platelet-activating factor acetylhydrolase IB subunit beta,Platelet-activating factor acetylhydrolase IB subunit beta,human LIS1 protein with a SNAP tag
Cytoplasmic dynein 1 heavy chain 1,Serine--tRNA ligase

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
B, C
IPR019775WD40 repeat, conserved siteConserved Site
B, C
IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
B, C
IPR006594LIS1 homology motifConserved Site
B, C
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
B, C
IPR037190LIS1, N-terminalHomologous Superfamily
B, C
IPR050349WD repeat LIS1/nudF dynein regulationFamily
B, C
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
B, C
IPR056795PAC1-like, LisH-like dimerisation domainDomain
B, C
IPR001680WD40 repeatRepeat
B, C
IPR017252Dynein regulator LIS1Family
IPR026983Dynein heavy chainFamily
IPR013602Dynein heavy chain, linkerDomain
IPR041658Dynein heavy chain, AAA lid domainDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR042222Dynein heavy chain, domain 2, N-terminalHomologous Superfamily
IPR043160Dynein heavy chain, C-terminal domain, barrel regionHomologous Superfamily
IPR042219Dynein heavy chain, AAA lid domain superfamilyHomologous Superfamily
IPR035706Dynein heavy chain, ATP-binding dynein motor regionDomain
IPR041228Dynein heavy chain, C-terminal domainDomain
IPR054354Dynein 2 heavy chain 1, cytoplasmic, ATPase lid domainDomain
IPR003593AAA+ ATPase domainDomain
IPR041466Dynein heavy chain, AAA 5 extension domainDomain
IPR042228Dynein heavy chain, linker, subdomain 3Homologous Superfamily
IPR035699Dynein heavy chain, hydrolytic ATP-binding dynein motor regionDomain
IPR024743Dynein heavy chain, coiled coil stalkDomain
IPR013594Dynein heavy chain, tailDomain
IPR043157Dynein heavy chain, AAA1 domain, small subdomainHomologous Superfamily
IPR004273Dynein heavy chain, D6 P-loop domainDomain
IPR024317Dynein heavy chain, AAA module D4Domain
IPR045864Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)Homologous Superfamily
IPR042103Serine-tRNA synthetase, type1, N-terminal domain superfamilyHomologous Superfamily
IPR002317Serine-tRNA ligase, type1Family
IPR015866Serine-tRNA synthetase, type1, N-terminalDomain
IPR006195Aminoacyl-tRNA synthetase, class IIDomain
IPR002314Aminoacyl-tRNA synthetase, class II (G/ P/ S/T)Domain
IPR010978Class I and II aminoacyl-tRNA synthetase, tRNA-binding armHomologous Superfamily
IPR033729Serine-tRNA ligase catalytic core domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
B, C
PharosP43034
PharosQ14204