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3I01
Biol. Unit 2
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Asym.Unit (911 KB)
Biol.Unit 1 (464 KB)
Biol.Unit 2 (451 KB)
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(1)
Title
:
NATIVE STRUCTURE OF BIFUNCTIONAL CARBON MONOXIDE DEHYDROGENASE/ACETYL-COA SYNTHASE FROM MOORELLA THERMOACETICA, WATER-BOUND C-CLUSTER.
Authors
:
Y. Kung, T. I. Doukov, C. L. Drennan
Date
:
24 Jun 09 (Deposition) - 01 Sep 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D,M,N,O,P
Biol. Unit 1: A,B,M,N (1x)
Biol. Unit 2: C,D,O,P (1x)
Keywords
:
Protein-Protein Complex, Carbon Dioxide Fixation, Electron Transport, Iron, Iron-Sulfur, Metal-Binding, Nickel, Oxidoreductase, Transport, Transferase, Oxidoreductase-Transferase Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Kung, T. I. Doukov, J. Seravalli, S. W. Ragsdale, C. L. Drennan
Crystallographic Snapshots Of Cyanide- And Water-Bound C-Clusters From Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-Coa Synthase.
Biochemistry V. 48 7432 2009
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Hetero Components
(5, 13)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: COPPER (I) ION (CU1a)
2b: COPPER (I) ION (CU1b)
2c: COPPER (I) ION (CU1c)
2d: COPPER (I) ION (CU1d)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
5a: NICKEL (II) ION (NIa)
5b: NICKEL (II) ION (NIb)
5c: NICKEL (II) ION (NIc)
5d: NICKEL (II) ION (NId)
6a: IRON/SULFUR CLUSTER (SF4a)
6b: IRON/SULFUR CLUSTER (SF4b)
6c: IRON/SULFUR CLUSTER (SF4c)
6d: IRON/SULFUR CLUSTER (SF4d)
6e: IRON/SULFUR CLUSTER (SF4e)
6f: IRON/SULFUR CLUSTER (SF4f)
6g: IRON/SULFUR CLUSTER (SF4g)
6h: IRON/SULFUR CLUSTER (SF4h)
6i: IRON/SULFUR CLUSTER (SF4i)
6j: IRON/SULFUR CLUSTER (SF4j)
7a: FE(4)-NI(1)-S(4) CLUSTER (XCCa)
7b: FE(4)-NI(1)-S(4) CLUSTER (XCCb)
7c: FE(4)-NI(1)-S(4) CLUSTER (XCCc)
7d: FE(4)-NI(1)-S(4) CLUSTER (XCCd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
2
Ligand/Ion
ACETATE ION
2
CU1
2
Ligand/Ion
COPPER (I) ION
3
GOL
2
Ligand/Ion
GLYCEROL
4
NA
-1
Ligand/Ion
SODIUM ION
5
NI
-1
Ligand/Ion
NICKEL (II) ION
6
SF4
5
Ligand/Ion
IRON/SULFUR CLUSTER
7
XCC
2
Ligand/Ion
FE(4)-NI(1)-S(4) CLUSTER
[
close Hetero Component info
]
Sites
(17, 17)
Info
All Sites
01: AC8 (SOFTWARE)
02: AC9 (SOFTWARE)
03: BC1 (SOFTWARE)
04: BC2 (SOFTWARE)
05: BC3 (SOFTWARE)
06: BC4 (SOFTWARE)
07: BC5 (SOFTWARE)
08: CC7 (SOFTWARE)
09: CC8 (SOFTWARE)
10: CC9 (SOFTWARE)
11: DC1 (SOFTWARE)
12: DC2 (SOFTWARE)
13: DC3 (SOFTWARE)
14: DC4 (SOFTWARE)
15: DC5 (SOFTWARE)
16: DC6 (SOFTWARE)
17: DC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC8
SOFTWARE
CYS C:59 , GLY C:62 , CYS C:67 , ARG C:69 , CYS D:59 , GLY D:62 , CYS D:67 , ARG D:69
BINDING SITE FOR RESIDUE SF4 C 700
02
AC9
SOFTWARE
CYS C:68 , CYS C:71 , CYS C:76 , GLY C:88 , CYS C:90 , ARG C:100 , MET C:221
BINDING SITE FOR RESIDUE SF4 C 750
03
BC1
SOFTWARE
HIS C:283 , CYS C:316 , CYS C:317 , PHE C:334 , CYS C:355 , GLY C:469 , CYS C:470 , CYS C:500 , CYS C:550 , SER C:585 , LYS C:587 , HOH C:1436
BINDING SITE FOR RESIDUE XCC C 800
04
BC2
SOFTWARE
ALA C:94 , SER C:613 , ASP C:614 , LEU C:615 , HIS O:27
BINDING SITE FOR RESIDUE GOL C 863
05
BC3
SOFTWARE
CYS D:68 , CYS D:71 , GLY D:74 , CYS D:76 , GLY D:88 , CYS D:90 , ARG D:100
BINDING SITE FOR RESIDUE SF4 D 750
06
BC4
SOFTWARE
HIS D:283 , CYS D:316 , CYS D:317 , PHE D:334 , CYS D:355 , GLY D:469 , CYS D:470 , CYS D:500 , CYS D:550 , SER D:585 , LYS D:587 , HOH D:1443
BINDING SITE FOR RESIDUE XCC D 800
07
BC5
SOFTWARE
ALA D:94 , TRP D:95 , SER D:613 , ASP D:614 , LEU D:615 , HIS P:27
BINDING SITE FOR RESIDUE GOL D 863
08
CC7
SOFTWARE
ILE O:146 , CYS O:506 , LEU O:508 , CYS O:509 , HIS O:516 , CYS O:518 , LEU O:527 , CYS O:528 , CU1 O:950
BINDING SITE FOR RESIDUE SF4 O 900
09
CC8
SOFTWARE
CYS O:509 , CYS O:595 , CYS O:597 , SF4 O:900 , NI O:951 , ACT O:953
BINDING SITE FOR RESIDUE CU1 O 950
10
CC9
SOFTWARE
LEU O:527 , CYS O:595 , GLY O:596 , CYS O:597 , PHE O:598 , CU1 O:950 , ACT O:953
BINDING SITE FOR RESIDUE NI O 951
11
DC1
SOFTWARE
VAL O:149 , PHE O:229 , CYS O:509 , CYS O:595 , CU1 O:950 , NI O:951
BINDING SITE FOR RESIDUE ACT O 953
12
DC2
SOFTWARE
PHE O:328 , GLU O:331 , ASN O:412 , GLY O:414 , GLY O:416 , LEU O:417 , HOH O:1433
BINDING SITE FOR RESIDUE NA O 730
13
DC3
SOFTWARE
CYS P:506 , CYS P:509 , CYS P:518 , GLY P:526 , LEU P:527 , CYS P:528 , VAL P:531 , CYS P:597 , CU1 P:950
BINDING SITE FOR RESIDUE SF4 P 900
14
DC4
SOFTWARE
CYS P:509 , CYS P:595 , CYS P:597 , SF4 P:900 , NI P:951 , ACT P:953
BINDING SITE FOR RESIDUE CU1 P 950
15
DC5
SOFTWARE
CYS P:595 , GLY P:596 , CYS P:597 , PHE P:598 , CU1 P:950 , ACT P:953
BINDING SITE FOR RESIDUE NI P 951
16
DC6
SOFTWARE
GLY P:145 , VAL P:149 , PHE P:229 , CYS P:509 , CYS P:597 , CU1 P:950 , NI P:951
BINDING SITE FOR RESIDUE ACT P 953
17
DC7
SOFTWARE
PHE P:328 , GLU P:331 , ASN P:412 , GLY P:414 , LEU P:417 , HOH P:1434
BINDING SITE FOR RESIDUE NA P 730
[
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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
(, 0)
Info
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;
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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, 8)
Info
All SCOP Domains
1a: SCOP_d3i01m_ (M:)
1b: SCOP_d3i01n_ (N:)
1c: SCOP_d3i01o_ (O:)
1d: SCOP_d3i01p_ (P:)
2a: SCOP_d3i01a_ (A:)
2b: SCOP_d3i01b_ (B:)
2c: SCOP_d3i01c_ (C:)
2d: SCOP_d3i01d_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Multi-domain proteins (alpha and beta)
(2421)
Fold
:
Prismane protein-like
(31)
Superfamily
:
Prismane protein-like
(31)
Family
:
Acetyl-CoA synthase
(6)
Protein domain
:
automated matches
(3)
Moorella thermoacetica [TaxId: 1525]
(3)
1a
d3i01m_
M:
1b
d3i01n_
N:
1c
d3i01o_
O:
1d
d3i01p_
P:
Family
:
Carbon monoxide dehydrogenase
(15)
Protein domain
:
automated matches
(3)
Moorella thermoacetica [TaxId: 1525]
(3)
2a
d3i01a_
A:
2b
d3i01b_
B:
2c
d3i01c_
C:
2d
d3i01d_
D:
[
close SCOP info
]
CATH Domains
(6, 32)
Info
all CATH domains
1a: CATH_3i01M03 (M:318-493)
1b: CATH_3i01N03 (N:318-493)
1c: CATH_3i01O03 (O:318-493)
1d: CATH_3i01P03 (P:318-493)
2a: CATH_3i01M05 (M:600-728)
2b: CATH_3i01N05 (N:600-728)
2c: CATH_3i01O05 (O:600-728)
2d: CATH_3i01P05 (P:600-728)
3a: CATH_3i01M04 (M:494-584)
3b: CATH_3i01N04 (N:494-584)
3c: CATH_3i01O04 (O:494-584)
3d: CATH_3i01P04 (P:494-584)
4a: CATH_3i01A02 (A:260-430)
4b: CATH_3i01B02 (B:260-430)
4c: CATH_3i01C03 (C:433-660)
4d: CATH_3i01D03 (D:433-660)
4e: CATH_3i01M02 (M:122-311)
4f: CATH_3i01N02 (N:122-311)
4g: CATH_3i01O02 (O:122-311)
4h: CATH_3i01P02 (P:122-311)
4i: CATH_3i01C02 (C:260-430)
4j: CATH_3i01D02 (D:260-430)
4k: CATH_3i01A03 (A:433-660)
4l: CATH_3i01B03 (B:433-660)
5a: CATH_3i01M01 (M:2-121)
5b: CATH_3i01N01 (N:2-121)
5c: CATH_3i01O01 (O:2-121)
5d: CATH_3i01P01 (P:2-121)
6a: CATH_3i01A01 (A:83-259)
6b: CATH_3i01B01 (B:83-259)
6c: CATH_3i01C01 (C:83-259)
6d: CATH_3i01D01 (D:83-259)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
(6)
Homologous Superfamily
:
Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
(6)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
1a
3i01M03
M:318-493
1b
3i01N03
N:318-493
1c
3i01O03
O:318-493
1d
3i01P03
P:318-493
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
(6)
Homologous Superfamily
:
Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
(6)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
2a
3i01M05
M:600-728
2b
3i01N05
N:600-728
2c
3i01O05
O:600-728
2d
3i01P05
P:600-728
Topology
:
Ribonuclease HI; Chain A
(10)
Homologous Superfamily
:
Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
(6)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
3a
3i01M04
M:494-584
3b
3i01N04
N:494-584
3c
3i01O04
O:494-584
3d
3i01P04
P:494-584
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.2030, no name defined]
(25)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
4a
3i01A02
A:260-430
4b
3i01B02
B:260-430
4c
3i01C03
C:433-660
4d
3i01D03
D:433-660
4e
3i01M02
M:122-311
4f
3i01N02
N:122-311
4g
3i01O02
O:122-311
4h
3i01P02
P:122-311
4i
3i01C02
C:260-430
4j
3i01D02
D:260-430
4k
3i01A03
A:433-660
4l
3i01B03
B:433-660
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
(6)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
5a
3i01M01
M:2-121
5b
3i01N01
N:2-121
5c
3i01O01
O:2-121
5d
3i01P01
P:2-121
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)
Clostridium thermoaceticum (Moorella thermoacetica)
(2)
6a
3i01A01
A:83-259
6b
3i01B01
B:83-259
6c
3i01C01
C:83-259
6d
3i01D01
D:83-259
[
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]
Pfam Domains
(0, 0)
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Asym.Unit (911 KB)
Header - Asym.Unit
Biol.Unit 1 (464 KB)
Header - Biol.Unit 1
Biol.Unit 2 (451 KB)
Header - Biol.Unit 2
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