4V4D | pdb_00004v4d

Crystal Structure of Pyrogallol-Phloroglucinol Transhydroxylase from Pelobacter acidigallici complexed with pyrogallol

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
X	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
X	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
V	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
V	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	4Fe-4S ferredoxins	8041469	3000020	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cna B-type domain-like	8041466	3000862	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
W	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
W	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
U	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
U	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	ADC-like	8041462	3001132	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8041464	3001453	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ADC-like	8041462	3001132	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)
X	P22_portal	e4v4dX1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
V	P22_portal	e4v4dV1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
T	P22_portal	e4v4dT1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
R	P22_portal	e4v4dR1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
P	P22_portal	e4v4dP1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
N	P22_portal	e4v4dN1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
L	P22_portal	e4v4dL1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
J	P22_portal	e4v4dJ1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
H	P22_portal	e4v4dH1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
F	P22_portal	e4v4dF1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
D	P22_portal	e4v4dD1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
B	P22_portal	e4v4dB1	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
I	TAFII55_N	e4v4dI1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)
W	P22_portal	e4v4dW2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
W	YkuD	e4v4dW3	A: alpha arrays	X: Cytidine deaminase-like	H: KorB C-terminal domain	T: KorB C-terminal domain	F: YkuD	ECOD (v295)
U	P22_portal	e4v4dU2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
U	YkuD	e4v4dU3	A: alpha arrays	X: Cytidine deaminase-like	H: KorB C-terminal domain	T: KorB C-terminal domain	F: YkuD	ECOD (v295)
S	P22_portal	e4v4dS2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
S	YkuD	e4v4dS3	A: alpha arrays	X: Cytidine deaminase-like	H: KorB C-terminal domain	T: KorB C-terminal domain	F: YkuD	ECOD (v295)
Q	P22_portal	e4v4dQ2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
Q	YkuD	e4v4dQ3	A: alpha arrays	X: Cytidine deaminase-like	H: KorB C-terminal domain	T: KorB C-terminal domain	F: YkuD	ECOD (v295)
O	TAFII55_N	e4v4dO1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)
M	TAFII55_N	e4v4dM1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)
K	P22_portal	e4v4dK2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
K	YkuD	e4v4dK3	A: alpha arrays	X: Cytidine deaminase-like	H: KorB C-terminal domain	T: KorB C-terminal domain	F: YkuD	ECOD (v295)
G	TAFII55_N	e4v4dG1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)
E	P22_portal	e4v4dE2	A: alpha arrays	X: VP4 membrane interaction domain	H: VP4 membrane interaction domain	T: VP4 membrane interaction domain	F: P22_portal	ECOD (v295)
E	LRR_8	e4v4dE3	A: alpha arrays	X: Hsp90 co-chaperone CDC37 middle domain	H: Lysozyme-like	T: Lysozyme-like	F: LRR_8	ECOD (v295)
C	TAFII55_N	e4v4dC1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)
A	TAFII55_N	e4v4dA1	A: alpha arrays	X: omega toxin-like	H: HTH	T: Three-helical HTH	F: TAFII55_N	ECOD (v295)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	Pyrogallol hydroxytransferase small subunit	oxidoreductase activity pyrogallol hydroxytransferase activity catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	-	-
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	Pyrogallol hydroxytransferase large subunit	cation binding transition metal ion binding molybdenum ion binding ion binding binding metal ion binding small molecule binding molybdopterin cofactor binding oxidoreductase activity pyrogallol hydroxytransferase activity catalytic activity electron transfer activity	cellular respiration energy derivation by oxidation of organic compounds metabolic process cellular process generation of precursor metabolites and energy anaerobic respiration	cellular anatomical structure extracellular region outer membrane-bounded periplasmic space cell envelope periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
B, D, F, H, J B, D, F, H, J, L, N, P, R, T, V, X	IPR050954	Electron transfer iron-sulfur cluster-binding protein	Family
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR050612	Prokaryotic Molybdopterin Oxidoreductases	Family
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR006657	Molybdopterin dinucleotide-binding domain	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR049032	Pyrogallol hydroxytransferase large subunit-like, N-terminal domain	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR006656	Molybdopterin oxidoreductase	Domain
A, C, E, G, I A, C, E, G, I, K, M, O, Q, S, U, W	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.