OLIGAMI : Oligomer Architecture and Molecular Interface

PDB ID : 1yba [A4]

Color

AR^a IR^b

Chain(OLIGAMI)
Chain(PDB)
Domain
CPK
Secondary Structure
Polar(blue)/
Nonpolar(white)

^a AR:All Residues
^b IR:Interface Residues

Style

Secondary Structure

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Chain

Chain name		Ribbon	Spacefill	Cαonly
OLIGAMI	PDB
A	A
B	B
C	C
D	D

Title

THE ACTIVE FORM OF PHOSPHOGLYCERATE DEHYDROGENASE

Structure Summary

PDB ID	Mutant	OPM	Pub Med	Method/Resolution	HETNAM
1yba			15823035	X-RAY DIFFRACTION/2.24	AKG:2-OXOGLUTARIC ACID MSE:SELENOMETHIONINE NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE PO4:PHOSPHATE ION UNL:UNKNOWN LIGAND

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
122872	A:108-295	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122874	A:327-410	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Escherichia coli [TaxId: 562]
122873	A:7-107 A:296-326	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122875	B:108-295	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122877	B:327-410	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Escherichia coli [TaxId: 562]
122876	B:7-107 B:296-326	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122878	C:108-295	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122880	C:327-410	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Escherichia coli [TaxId: 562]
122879	C:7-107 C:296-326	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122881	D:108-295	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Formate/glycerate dehydrogenases, NAD-domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]
122883	D:327-410	Alpha and beta proteins (a+b)	Ferredoxin-like	ACT-like	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain	Escherichia coli [TaxId: 562]
122882	D:7-107 D:296-326	Alpha and beta proteins (a/b)	Flavodoxin-like	Formate/glycerate dehydrogenase catalytic domain-like	Formate/glycerate dehydrogenases, substrate-binding domain	Phosphoglycerate dehydrogenase	Escherichia coli [TaxId: 562]

CATH

CATH ID	Node	Class	Architecture	Topology	Homology
1ybaA01	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaA02	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaA03	3.30.70.260		:2-Layer Sandwich	:Alpha-Beta Plaits	:
1ybaB01	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaB02	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaB03	3.30.70.260		:2-Layer Sandwich	:Alpha-Beta Plaits	:
1ybaC01	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaC02	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaC03	3.30.70.260		:2-Layer Sandwich	:Alpha-Beta Plaits	:
1ybaD01	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaD02	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
1ybaD03	3.30.70.260		:2-Layer Sandwich	:Alpha-Beta Plaits	: