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2RAB
Asym. Unit
Info
Asym.Unit (157 KB)
Biol.Unit 1 (149 KB)
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(1)
Title
:
STRUCTURE OF GLUTATHIONE AMIDE REDUCTASE FROM CHROMATIUM GRACILE IN COMPLEX WITH NAD
Authors
:
F. Van Petegem, D. De Vos, S. Savvides, B. Vergauwen, J. Van Beeumen
Date
:
14 Sep 07 (Deposition) - 19 Feb 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Glutathione, Substrate Analog, Nad, Fad, Redox, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
F. Van Petegem, D. De Vos, S. Savvides, B. Vergauwen, J. Van Beeumen
Understanding Nicotinamide Dinucleotide Cofactor And Substrate Specificity In Class I Flavoprotein Disulfide Oxidoreductases: Crystallographic Analysis Of A Glutathione Amide Reductase.
J. Mol. Biol. V. 374 883 2007
[
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Hetero Components
(4, 16)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
2a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
2b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
4a: NICKEL (II) ION (NIa)
4b: NICKEL (II) ION (NIb)
4c: NICKEL (II) ION (NIc)
4d: NICKEL (II) ION (NId)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
8
Ligand/Ion
CHLORIDE ION
2
FAD
2
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
3
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
4
NI
4
Ligand/Ion
NICKEL (II) ION
[
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Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:11 , GLY A:13 , SER A:14 , GLY A:15 , ILE A:33 , GLU A:34 , SER A:35 , GLY A:40 , THR A:41 , VAL A:45 , GLY A:46 , CYS A:47 , LYS A:50 , GLY A:112 , HIS A:113 , ALA A:114 , ALA A:137 , THR A:138 , GLY A:139 , ARG A:262 , LEU A:269 , GLY A:301 , ASP A:302 , GLN A:308 , LEU A:309 , THR A:310 , PRO A:311 , NAD A:600 , HOH A:601 , HOH A:605 , HOH A:608 , HOH A:645 , HOH A:776 , HOH A:795 , HOH A:806 , HIS B:437 , PRO B:438
BINDING SITE FOR RESIDUE FAD A 500
02
AC2
SOFTWARE
LYS A:50 , ILE A:172 , ALA A:174 , GLY A:175 , TYR A:176 , ILE A:177 , GLU A:180 , ALA A:196 , LEU A:197 , GLU A:198 , PHE A:228 , ALA A:229 , VAL A:230 , VAL A:260 , GLY A:261 , GLN A:308 , LEU A:309 , VAL A:341 , PHE A:343 , FAD A:500 , HOH A:705 , HOH A:805 , HOH A:840 , HOH A:863
BINDING SITE FOR RESIDUE NAD A 600
03
AC3
SOFTWARE
ARG A:104 , HOH A:819 , SER B:280
BINDING SITE FOR RESIDUE CL A 464
04
AC4
SOFTWARE
ARG A:115
BINDING SITE FOR RESIDUE CL A 465
05
AC5
SOFTWARE
HIS A:120 , HIS A:383 , HOH A:812 , HOH A:857 , HOH A:858 , HOH A:859
BINDING SITE FOR RESIDUE NI A 466
06
AC6
SOFTWARE
HOH A:860
BINDING SITE FOR RESIDUE CL A 467
07
AC7
SOFTWARE
THR A:2 , GLN A:3 , HIS A:4
BINDING SITE FOR RESIDUE NI A 468
08
AC8
SOFTWARE
HIS A:345
BINDING SITE FOR RESIDUE CL A 469
09
AC9
SOFTWARE
HIS A:437 , PRO A:438 , GLY B:11 , GLY B:13 , SER B:14 , GLY B:15 , GLU B:34 , SER B:35 , GLY B:40 , THR B:41 , CYS B:42 , VAL B:45 , GLY B:46 , CYS B:47 , LYS B:50 , GLY B:112 , HIS B:113 , ALA B:114 , ALA B:137 , THR B:138 , GLY B:139 , ARG B:262 , LEU B:269 , GLY B:301 , ASP B:302 , GLN B:308 , LEU B:309 , THR B:310 , PRO B:311 , NAD B:600 , HOH B:686 , HOH B:703 , HOH B:742 , HOH B:750 , HOH B:751 , HOH B:778
BINDING SITE FOR RESIDUE FAD B 500
10
BC1
SOFTWARE
LYS B:50 , ILE B:172 , ALA B:174 , GLY B:175 , TYR B:176 , ILE B:177 , GLU B:180 , ALA B:196 , LEU B:197 , GLU B:198 , PHE B:228 , VAL B:230 , VAL B:260 , GLY B:261 , GLN B:308 , LEU B:309 , VAL B:341 , PHE B:343 , FAD B:500 , HOH B:659 , HOH B:663 , HOH B:743
BINDING SITE FOR RESIDUE NAD B 600
11
BC2
SOFTWARE
SER A:280 , ARG B:104
BINDING SITE FOR RESIDUE CL B 464
12
BC3
SOFTWARE
ARG B:115
BINDING SITE FOR RESIDUE CL B 465
13
BC4
SOFTWARE
HIS B:120 , HIS B:383 , HOH B:800 , HOH B:801 , HOH B:802
BINDING SITE FOR RESIDUE NI B 466
14
BC5
SOFTWARE
THR B:2 , GLN B:3 , HIS B:4
BINDING SITE FOR RESIDUE NI B 468
15
BC6
SOFTWARE
HIS B:345
BINDING SITE FOR RESIDUE CL B 469
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PYRIDINE_REDOX_1 (A:39-49,B:39-49)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRIDINE_REDOX_1
PS00076
Pyridine nucleotide-disulphide oxidoreductases class-I active site.
GASHR_MARGR
39-49
2
A:39-49
B:39-49
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2rabA03 (A:337-448)
1b: CATH_2rabB03 (B:337-448)
2a: CATH_2rabA01 (A:2-142,A:261-336)
2b: CATH_2rabB01 (B:2-142,B:261-336)
2c: CATH_2rabA02 (A:143-260)
2d: CATH_2rabB02 (B:143-260)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
[code=3.30.390.30, no name defined]
(99)
Marichromatium gracile. Organism_taxid: 1048.
(2)
1a
2rabA03
A:337-448
1b
2rabB03
B:337-448
Architecture
:
3-Layer(bba) Sandwich
(528)
Topology
:
FAD/NAD(P)-binding domain
(373)
Homologous Superfamily
:
[code=3.50.50.60, no name defined]
(373)
Marichromatium gracile. Organism_taxid: 1048.
(2)
2a
2rabA01
A:2-142,A:261-336
2b
2rabB01
B:2-142,B:261-336
2c
2rabA02
A:143-260
2d
2rabB02
B:143-260
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Pfam Domains
(0, 0)
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all PFAM domains
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Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
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