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2GCG
Biol. Unit 2
Info
Asym.Unit (230 KB)
Biol.Unit 1 (111 KB)
Biol.Unit 2 (109 KB)
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(1)
Title
:
TERNARY CRYSTAL STRUCTURE OF HUMAN GLYOXYLATE REDUCTASE/HYDROXYPYRUVATE REDUCTASE
Authors
:
M. P. S. Booth, R. Conners, G. Rumsby, R. L. Brady
Date
:
14 Mar 06 (Deposition) - 18 Jul 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Nad(P) Rossmann Fold, Formate/Glycerate Dehydrogenase Substrate- Binding Domain, Oxidoreductase
(Keyword Search:
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Reference
:
M. P. S. Booth, R. Conners, G. Rumsby, R. L. Brady
Structural Basis Of Substrate Specificity In Human Glyoxylate Reductase/Hydroxypyruvate Reductase
J. Mol. Biol. V. 360 178 2006
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Hetero Components
(3, 7)
Info
All Hetero Components
1a: (2R)-2,3-DIHYDROXYPROPANOIC ACID (DGYa)
1b: (2R)-2,3-DIHYDROXYPROPANOIC ACID (DGYb)
2a: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPa)
2b: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPb)
2c: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPc)
2d: NADPH DIHYDRO-NICOTINAMIDE-ADENINE... (NDPd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
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Label:
No.
Name
Count
Type
Full Name
1
DGY
1
Ligand/Ion
(2R)-2,3-DIHYDROXYPROPANOIC ACID
2
NDP
2
Ligand/Ion
NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE
3
SO4
4
Ligand/Ion
SULFATE ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC8 (SOFTWARE)
6: AC9 (SOFTWARE)
7: BC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY C:150 , THR C:152 , GLN C:153 , SER C:154 , ARG D:300
BINDING SITE FOR RESIDUE SO4 C 1001
2
AC2
SOFTWARE
ASP C:37 , LEU D:144 , SO4 D:1003
BINDING SITE FOR RESIDUE SO4 D 1002
3
AC3
SOFTWARE
ARG D:125 , LEU D:144 , TRP D:145 , LEU D:146 , SO4 D:1002 , HOH D:2033 , HOH D:2100 , HOH D:2120
BINDING SITE FOR RESIDUE SO4 D 1003
4
AC4
SOFTWARE
ARG C:300 , GLY D:150 , THR D:152 , GLN D:153 , SER D:154 , HOH D:2067
BINDING SITE FOR RESIDUE SO4 D 1004
5
AC8
SOFTWARE
VAL C:83 , THR C:111 , ILE C:159 , GLY C:160 , GLY C:162 , ARG C:163 , ILE C:164 , THR C:183 , GLY C:184 , ARG C:185 , ARG C:188 , ALA C:215 , CYS C:216 , SER C:217 , THR C:222 , ILE C:243 , SER C:244 , ARG C:245 , ASP C:269 , HIS C:293 , GLY C:295 , SER C:296 , DGY C:3002 , HOH C:3008 , HOH C:3012 , HOH C:3020 , HOH C:3022 , HOH C:3040 , HOH C:3078
BINDING SITE FOR RESIDUE NDP C 2003
6
AC9
SOFTWARE
VAL D:83 , THR D:111 , GLY D:162 , ARG D:163 , ILE D:164 , GLY D:184 , ARG D:185 , ARG D:188 , ALA D:215 , CYS D:216 , SER D:217 , THR D:222 , ILE D:243 , SER D:244 , ARG D:245 , ASP D:269 , HIS D:293 , GLY D:295 , SER D:296 , HOH D:2014 , HOH D:2096 , HOH D:2104 , HOH D:2107
BINDING SITE FOR RESIDUE NDP D 2004
7
BC2
SOFTWARE
LEU C:59 , SER C:82 , VAL C:83 , GLY C:84 , LEU C:107 , ARG C:245 , HIS C:293 , SER C:296 , NDP C:2003 , TRP D:141
BINDING SITE FOR RESIDUE DGY C 3002
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_032762 (R170Q, chain C/D, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_032762
R
170
Q
GRHPR_HUMAN
Polymorphism
12002324
C/D
R
170
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: D_2_HYDROXYACID_DH_3 (C:234-250,D:234-250)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
D_2_HYDROXYACID_DH_3
PS00671
D-isomer specific 2-hydroxyacid dehydrogenases signature 3.
GRHPR_HUMAN
234-250
2
-
-
C:234-250
D:234-250
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2gcgA02 (A:106-294)
1b: CATH_2gcgB02 (B:106-294)
1c: CATH_2gcgC02 (C:106-294)
1d: CATH_2gcgD02 (D:106-294)
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Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
1a
2gcgA02
A:106-294
1b
2gcgB02
B:106-294
1c
2gcgC02
C:106-294
1d
2gcgD02
D:106-294
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (230 KB)
Header - Asym.Unit
Biol.Unit 1 (111 KB)
Header - Biol.Unit 1
Biol.Unit 2 (109 KB)
Header - Biol.Unit 2
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