PDB ID : 3pef [A4]

Color

ARa IRb





 a AR:All Residues
 b IR:Interface Residues

Style





Secondary Structure


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Slab plane

Direction Proportion
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Chain
Chain name Ribbon Spacefill Cαonly
OLIGAMI PDB
AA
BC
CB
DD
Title
CRYSTAL STRUCTURE OF GAMMA-HYDROXYBUTYRATE DEHYDROGENASE FROM GEOBACTER METALLIREDUCENS IN COMPLEX WITH NADP+

Structure Summary
PDB ID Mutant OPM Pub Med Method/Resolution HETNAM
3pef
24878278 X-RAY DIFFRACTION/2.07 CSO:S-HYDROXYCYSTEINE
EDO:1,2-ETHANEDIOL
GOL:GLYCEROL
NAP:NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
PEG:DI(HYDROXYETHYL)ETHER
Chain Formula
Amino Acid sequence SCOPe Family Level CATH Homology Level
[A4] [A4] [A4]

Structual Classification
SCOPe
SCOPe ID Chain Class Fold Superfamily Family Protein Domain Species
233233 A:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
233235 A:163-287All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239607 B:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239608 B:163-287All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239609 C:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239610 C:163-287All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239611 D:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239612 D:163-286All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239613 E:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239614 E:163-286All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239616 F:163-286All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239615 F:2-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239617 G:1-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239618 G:163-287All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239620 H:163-287All alpha proteins6-phosphogluconate dehydrogenase C-terminal domain-like6-phosphogluconate dehydrogenase C-terminal domain-likeautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]
239619 H:2-162Alpha and beta proteins (a/b)NAD(P)-binding Rossmann-fold domainsNAD(P)-binding Rossmann-fold domainsautomated matchesautomated matchesGeobacter metallireducens [TaxId: 28232]

CATH
CATH ID Node Class Architecture Topology Homology
3pefA013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefA021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefB013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefB021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefC013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefC021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefD013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefD021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefE013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefE021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefF013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefF021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefG013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefG021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2
3pefH013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3pefH021.10.1040.10:Orthogonal Bundle:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2:N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2