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1JQK
Biol. Unit 1
Info
Asym.Unit (553 KB)
Biol.Unit 1 (186 KB)
Biol.Unit 2 (186 KB)
Biol.Unit 3 (187 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CARBON MONOXIDE DEHYDROGENASE FROM RHODOSPIRILLUM RUBRUM
Authors
:
C. L. Drennan, J. Heo, M. D. Sintchak, E. Schreiter, P. W. Ludden
Date
:
07 Aug 01 (Deposition) - 17 Oct 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Rossmann Fold, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. L. Drennan, J. Heo, M. D. Sintchak, E. Schreiter, P. W. Ludden
Life On Carbon Monoxide: X-Ray Structure Of Rhodospirillum Rubrum Ni-Fe-S Carbon Monoxide Dehydrogenase.
Proc. Natl. Acad. Sci. Usa V. 98 11973 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 9)
Info
All Hetero Components
1a: FE (II) ION (FE2a)
1b: FE (II) ION (FE2b)
1c: FE (II) ION (FE2c)
1d: FE (II) ION (FE2d)
1e: FE (II) ION (FE2e)
1f: FE (II) ION (FE2f)
2a: IRON/SULFUR CLUSTER (SF4a)
2b: IRON/SULFUR CLUSTER (SF4b)
2c: IRON/SULFUR CLUSTER (SF4c)
2d: IRON/SULFUR CLUSTER (SF4d)
2e: IRON/SULFUR CLUSTER (SF4e)
2f: IRON/SULFUR CLUSTER (SF4f)
2g: IRON/SULFUR CLUSTER (SF4g)
2h: IRON/SULFUR CLUSTER (SF4h)
2i: IRON/SULFUR CLUSTER (SF4i)
3a: UNKNOWN ATOM OR ION (UNXa)
3b: UNKNOWN ATOM OR ION (UNXb)
3c: UNKNOWN ATOM OR ION (UNXc)
3d: UNKNOWN ATOM OR ION (UNXd)
3e: UNKNOWN ATOM OR ION (UNXe)
3f: UNKNOWN ATOM OR ION (UNXf)
4a: FE(3)-NI(1)-S(4) CLUSTER (WCCa)
4b: FE(3)-NI(1)-S(4) CLUSTER (WCCb)
4c: FE(3)-NI(1)-S(4) CLUSTER (WCCc)
4d: FE(3)-NI(1)-S(4) CLUSTER (WCCd)
4e: FE(3)-NI(1)-S(4) CLUSTER (WCCe)
4f: FE(3)-NI(1)-S(4) CLUSTER (WCCf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE2
2
Ligand/Ion
FE (II) ION
2
SF4
3
Ligand/Ion
IRON/SULFUR CLUSTER
3
UNX
2
Ligand/Ion
UNKNOWN ATOM OR ION
4
WCC
2
Ligand/Ion
FE(3)-NI(1)-S(4) CLUSTER
[
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
5: AC9 (SOFTWARE)
6: BC1 (SOFTWARE)
7: BC2 (SOFTWARE)
8: BC3 (SOFTWARE)
9: BC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:265 , CYS A:300 , CYS A:531 , WCC A:800
BINDING SITE FOR RESIDUE FE2 A 801
2
AC2
SOFTWARE
HIS B:265 , CYS B:300 , CYS B:531 , WCC B:800
BINDING SITE FOR RESIDUE FE2 B 801
3
AC7
SOFTWARE
CYS A:41 , GLY A:44 , CYS A:49 , CYS B:41 , GLY B:44 , CYS B:49 , ARG B:51
BINDING SITE FOR RESIDUE SF4 A 700
4
AC8
SOFTWARE
CYS A:50 , CYS A:53 , CYS A:58 , CYS A:72
BINDING SITE FOR RESIDUE SF4 A 750
5
AC9
SOFTWARE
HIS A:265 , CYS A:300 , CYS A:338 , GLY A:450 , CYS A:451 , CYS A:481 , CYS A:531 , SER A:566 , LYS A:568 , FE2 A:801 , UNX A:802
BINDING SITE FOR RESIDUE WCC A 800
6
BC1
SOFTWARE
CYS A:531 , WCC A:800
BINDING SITE FOR RESIDUE UNX A 802
7
BC2
SOFTWARE
CYS B:50 , CYS B:53 , CYS B:58 , CYS B:72
BINDING SITE FOR RESIDUE SF4 B 750
8
BC3
SOFTWARE
HIS B:265 , CYS B:300 , CYS B:338 , GLY B:450 , CYS B:451 , CYS B:481 , CYS B:531 , SER B:566 , LYS B:568 , FE2 B:801 , UNX B:802
BINDING SITE FOR RESIDUE WCC B 800
9
BC4
SOFTWARE
CYS B:531 , WCC B:800
BINDING SITE FOR RESIDUE UNX B 802
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
Info
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All Exon Boundaries
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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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1jqka_ (A:)
1b: SCOP_d1jqkb_ (B:)
1c: SCOP_d1jqkc_ (C:)
1d: SCOP_d1jqkd_ (D:)
1e: SCOP_d1jqke_ (E:)
1f: SCOP_d1jqkf_ (F:)
View:
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Classes
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)
(
)
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)
(
)
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Prismane protein-like
(31)
Superfamily
:
Prismane protein-like
(31)
Family
:
Carbon monoxide dehydrogenase
(15)
Protein domain
:
Ni-containing carbon monoxide dehydrogenase
(10)
Rhodospirillum rubrum [TaxId: 1085]
(1)
1a
d1jqka_
A:
1b
d1jqkb_
B:
1c
d1jqkc_
C:
1d
d1jqkd_
D:
1e
d1jqke_
E:
1f
d1jqkf_
F:
[
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CATH Domains
(2, 18)
Info
all CATH domains
1a: CATH_1jqkA02 (A:238-406)
1b: CATH_1jqkB02 (B:238-406)
1c: CATH_1jqkE01 (E:409-636)
1d: CATH_1jqkF01 (F:409-636)
1e: CATH_1jqkC02 (C:238-406)
1f: CATH_1jqkD02 (D:238-406)
1g: CATH_1jqkE02 (E:238-406)
1h: CATH_1jqkF02 (F:238-406)
1i: CATH_1jqkA01 (A:409-636)
1j: CATH_1jqkB01 (B:409-636)
1k: CATH_1jqkC01 (C:409-636)
1l: CATH_1jqkD01 (D:409-636)
2a: CATH_1jqkA03 (A:63-237)
2b: CATH_1jqkB03 (B:63-237)
2c: CATH_1jqkC03 (C:63-237)
2d: CATH_1jqkD03 (D:63-237)
2e: CATH_1jqkE03 (E:63-237)
2f: CATH_1jqkF03 (F:63-237)
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(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.2030, no name defined]
(25)
Rhodospirillum rubrum. Organism_taxid: 1085.
(1)
1a
1jqkA02
A:238-406
1b
1jqkB02
B:238-406
1c
1jqkE01
E:409-636
1d
1jqkF01
F:409-636
1e
1jqkC02
C:238-406
1f
1jqkD02
D:238-406
1g
1jqkE02
E:238-406
1h
1jqkF02
F:238-406
1i
1jqkA01
A:409-636
1j
1jqkB01
B:409-636
1k
1jqkC01
C:409-636
1l
1jqkD01
D:409-636
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Substrate Binding Domain Of Dnak; Chain:A; Domain 2
(103)
Homologous Superfamily
:
[code=1.20.1270.30, no name defined]
(14)
Rhodospirillum rubrum. Organism_taxid: 1085.
(1)
2a
1jqkA03
A:63-237
2b
1jqkB03
B:63-237
2c
1jqkC03
C:63-237
2d
1jqkD03
D:63-237
2e
1jqkE03
E:63-237
2f
1jqkF03
F:63-237
[
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]
Pfam Domains
(0, 0)
Info
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Asymmetric Unit 1
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Asym.Unit (553 KB)
Header - Asym.Unit
Biol.Unit 1 (186 KB)
Header - Biol.Unit 1
Biol.Unit 2 (186 KB)
Header - Biol.Unit 2
Biol.Unit 3 (187 KB)
Header - Biol.Unit 3
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