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1E5V
Biol. Unit 2
Info
Asym.Unit (258 KB)
Biol.Unit 1 (128 KB)
Biol.Unit 2 (128 KB)
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(1)
Title
:
OXIDIZED DMSO REDUCTASE EXPOSED TO HEPES BUFFER
Authors
:
S. Bailey, B. Bennett, B. Adams, A. T. Smith, R. C. Bray
Date
:
03 Aug 00 (Deposition) - 25 Aug 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A (1x)
Biol. Unit 2: C (1x)
Keywords
:
Oxidoreductase, Reductase, Dmso, Molybdopterin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. C. Bray, B. Adams, A. T. Smith, B. Bennett, S. Bailey
Reversible Dissociation Of Thiolate Ligands From Molybdenum In An Enzyme Of The Dimethyl Sulfoxide Reductase Family
Biochemistry V. 39 11258 2000
[
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Hetero Components
(3, 4)
Info
All Hetero Components
1a: MOLYBDENUM (IV)OXIDE (2MOa)
1b: MOLYBDENUM (IV)OXIDE (2MOb)
2a: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,... (PGDa)
2b: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,... (PGDb)
2c: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,... (PGDc)
2d: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,... (PGDd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2MO
1
Ligand/Ion
MOLYBDENUM (IV)OXIDE
2
PGD
2
Ligand/Ion
2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE
3
SO4
1
Ligand/Ion
SULFATE ION
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Sites
(4, 4)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC6 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
LYS C:117 , ARG C:121 , ASN C:124 , TRP C:196 , HOH C:2046
BINDING SITE FOR RESIDUE SO4 C 901
2
AC6
SOFTWARE
TYR C:114 , GLY C:115 , TRP C:116 , LYS C:117 , SER C:118 , TYR C:146 , SER C:147 , ARG C:326 , GLY C:432 , GLY C:433 , ASN C:434 , HIS C:438 , GLN C:440 , HIS C:458 , ASP C:459 , PHE C:460 , THR C:463 , ALA C:475 , ARG C:481 , ASP C:511 , ALA C:641 , HIS C:643 , HIS C:649 , SER C:650 , GLN C:651 , GLU C:715 , ASN C:737 , GLY C:754 , GLN C:755 , PGD C:802 , 2MO C:803 , HOH C:2157 , HOH C:2180 , HOH C:2203 , HOH C:2204 , HOH C:2205
BINDING SITE FOR RESIDUE PGD C 801
3
AC7
SOFTWARE
MET C:41 , TRP C:116 , SER C:147 , ALA C:185 , LYS C:190 , THR C:191 , GLN C:193 , ILE C:194 , ILE C:220 , ASP C:221 , PRO C:222 , PRO C:240 , GLN C:241 , ASP C:243 , GLY C:321 , TRP C:322 , SER C:323 , ARG C:326 , MET C:327 , HIS C:359 , SER C:642 , HIS C:643 , PRO C:644 , PHE C:645 , ARG C:647 , LEU C:648 , HIS C:649 , GLN C:755 , PGD C:801 , 2MO C:803 , HOH C:2063 , HOH C:2065 , HOH C:2177 , HOH C:2206
BINDING SITE FOR RESIDUE PGD C 802
4
AC8
SOFTWARE
TYR C:114 , TRP C:116 , TYR C:146 , SER C:147 , PGD C:801 , PGD C:802
BINDING SITE FOR RESIDUE 2MO C 803
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: MOLYBDOPTERIN_PROK_2 (C:463-480)
2: MOLYBDOPTERIN_PROK_3 (C:676-703)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MOLYBDOPTERIN_PROK_2
PS00490
Prokaryotic molybdopterin oxidoreductases signature 2.
DSTOR_RHOCA
505-522
1
-
C:463-480
2
MOLYBDOPTERIN_PROK_3
PS00932
Prokaryotic molybdopterin oxidoreductases signature 3.
DSTOR_RHOCA
718-745
1
-
C:676-703
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Exons
(0, 0)
Info
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Note:
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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1e5va1 (A:626-781)
1b: SCOP_d1e5vc1 (C:626-781)
2a: SCOP_d1e5va2 (A:3-625)
2b: SCOP_d1e5vc2 (C:3-625)
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Classes
(
)
(
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(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Double psi beta-barrel
(111)
Superfamily
:
ADC-like
(88)
Family
:
Formate dehydrogenase/DMSO reductase, C-terminal domain
(41)
Protein domain
:
Dimethylsulfoxide reductase (DMSO reductase)
(11)
Rhodobacter capsulatus [TaxId: 1061]
(10)
1a
d1e5va1
A:626-781
1b
d1e5vc1
C:626-781
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Superfamily
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Family
:
Formate dehydrogenase/DMSO reductase, domains 1-3
(53)
Protein domain
:
Dimethylsulfoxide reductase (DMSO reductase)
(11)
Rhodobacter capsulatus [TaxId: 1061]
(10)
2a
d1e5va2
A:3-625
2b
d1e5vc2
C:3-625
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CATH Domains
(4, 8)
Info
all CATH domains
1a: CATH_1e5vA02 (A:147-366,A:579-604)
1b: CATH_1e5vC02 (C:147-366,C:579-604)
2a: CATH_1e5vA01 (A:54-145,A:378-481,A:507-529)
2b: CATH_1e5vC01 (C:54-145,C:378-481,C:507-529)
3a: CATH_1e5vA03 (A:5-32,A:482-499,A:530-570)
3b: CATH_1e5vC03 (C:5-32,C:482-499,C:530-570)
4a: CATH_1e5vA04 (A:612-774)
4b: CATH_1e5vC04 (C:612-774)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Dimethylsulfoxide Reductase; domain 2
(37)
Homologous Superfamily
:
Dimethylsulfoxide Reductase, domain 2
(37)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: h123.
(9)
1a
1e5vA02
A:147-366,A:579-604
1b
1e5vC02
C:147-366,C:579-604
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.740, no name defined]
(37)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: h123.
(9)
2a
1e5vA01
A:54-145,A:378-481,A:507-529
2b
1e5vC01
C:54-145,C:378-481,C:507-529
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Dimethylsulfoxide Reductase; domain 3
(12)
Homologous Superfamily
:
Dimethylsulfoxide Reductase, domain 3
(12)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: h123.
(9)
3a
1e5vA03
A:5-32,A:482-499,A:530-570
3b
1e5vC03
C:5-32,C:482-499,C:530-570
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Barwin-like endoglucanases
(75)
Homologous Superfamily
:
[code=2.40.40.20, no name defined]
(63)
Rhodobacter capsulatus. Organism_taxid: 1061. Strain: h123.
(9)
4a
1e5vA04
A:612-774
4b
1e5vC04
C:612-774
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain C
Asymmetric Unit 1
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Asym.Unit (258 KB)
Header - Asym.Unit
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