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1CQJ
Asym. Unit
Info
Asym.Unit (216 KB)
Biol.Unit 1 (211 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF DEPHOSPHORYLATED E. COLI SUCCINYL-COA SYNTHETASE
Authors
:
M. A. Joyce, M. E. Fraser, M. N. G. James, W. A. Bridger, W. T. Wolodko
Date
:
06 Aug 99 (Deposition) - 10 Jan 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,B,D,E (1x)
Keywords
:
Atp-Grasp Fold, Rossmann Fold, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Joyce, M. E. Fraser, M. N. James, W. A. Bridger, W. T. Wolodko
Adp-Binding Site Of Escherichia Coli Succinyl-Coa Synthetase Revealed By X-Ray Crystallography.
Biochemistry V. 39 17 2000
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 7)
Info
All Hetero Components
1a: COENZYME A (COAa)
1b: COENZYME A (COAb)
1c: COENZYME A (COAc)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
COA
3
Ligand/Ion
COENZYME A
2
PO4
4
Ligand/Ion
PHOSPHATE ION
[
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY B:52 , GLY B:53 , ARG B:54 , GLY B:55 , LYS B:56 , ASP B:213
BINDING SITE FOR RESIDUE PO4 B 904
2
AC2
SOFTWARE
GLY E:53 , ARG E:54 , GLY E:55 , LYS E:56 , ASP E:213 , HOH E:936 , HOH E:973
BINDING SITE FOR RESIDUE PO4 E 905
3
AC3
SOFTWARE
SER A:153 , GLY A:154 , THR A:155 , HIS A:246 , HOH A:962 , GLY B:265 , ALA B:266 , GLY B:267
BINDING SITE FOR RESIDUE PO4 A 906
4
AC4
SOFTWARE
SER D:153 , GLY D:154 , THR D:155 , HIS D:246 , GLY E:265 , ALA E:266 , GLY E:267
BINDING SITE FOR RESIDUE PO4 D 907
5
AC5
SOFTWARE
GLY A:14 , THR A:16 , GLY A:17 , SER A:18 , GLN A:19 , VAL A:38 , PRO A:40 , LYS A:42 , TYR A:71 , VAL A:72 , PRO A:73 , SER A:80 , ILE A:95 , THR A:96 , GLU A:97 , ASN A:122 , CYS A:123 , PRO A:124 , ILE A:136 , HOH A:911 , HOH A:912 , HOH A:913 , HOH A:927 , HOH A:968 , ARG E:29 , GLU E:33 , SER E:36 , LYS E:66 , HOH E:991
BINDING SITE FOR RESIDUE COA A 901
6
AC6
SOFTWARE
GLU B:33 , SER B:36 , LYS B:66 , GLY D:14 , THR D:16 , GLY D:17 , SER D:18 , GLN D:19 , VAL D:38 , PRO D:40 , LYS D:42 , TYR D:71 , VAL D:72 , PRO D:73 , ILE D:95 , THR D:96 , GLU D:97 , ASN D:122 , CYS D:123 , PRO D:124 , ILE D:136 , HOH D:909 , HOH D:910 , HOH D:923 , HOH D:964 , HOH D:967
BINDING SITE FOR RESIDUE COA D 902
7
AC7
SOFTWARE
GLY B:320 , GLY B:321 , VAL B:323 , CYS B:325 , GLU B:350 , ASN B:352 , HOH B:905 , HOH B:1013
BINDING SITE FOR RESIDUE COA B 903
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: SUCCINYL_COA_LIG_1 (A:151-180,D:151-180,A:151-180,D:15...)
2: SUCCINYL_COA_LIG_2 (A:235-248,D:235-248,A:235-248,D:23...)
3: SUCCINYL_COA_LIG_3 (B:257-282,E:257-282,B:257-282,E:25...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SUCCINYL_COA_LIG_1
PS01216
ATP-citrate lyase / succinyl-CoA ligases family signature 1.
SUCD_ECO57
152-181
2
A:151-180
D:151-180
SUCD_ECOL6
152-181
2
A:151-180
D:151-180
SUCD_ECOLI
152-181
2
A:151-180
D:151-180
2
SUCCINYL_COA_LIG_2
PS00399
ATP-citrate lyase / succinyl-CoA ligases family active site.
SUCD_ECO57
236-249
2
A:235-248
D:235-248
SUCD_ECOL6
236-249
2
A:235-248
D:235-248
SUCD_ECOLI
236-249
2
A:235-248
D:235-248
3
SUCCINYL_COA_LIG_3
PS01217
ATP-citrate lyase / succinyl-CoA ligases family signature 3.
SUCC_ECO57
257-282
2
B:257-282
E:257-282
SUCC_ECOL6
257-282
2
B:257-282
E:257-282
SUCC_ECOLI
257-282
2
B:257-282
E:257-282
SUCC_SHIFL
257-282
2
B:257-282
E:257-282
[
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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.
SCOP Domains
(4, 8)
Info
All SCOP Domains
1a: SCOP_d1cqjb2 (B:1-238)
1b: SCOP_d1cqje2 (E:1-238)
2a: SCOP_d1cqja2 (A:122-286)
2b: SCOP_d1cqjd2 (D:122-286)
3a: SCOP_d1cqjb1 (B:239-385)
3b: SCOP_d1cqje1 (E:239-385)
4a: SCOP_d1cqja1 (A:1-121)
4b: SCOP_d1cqjd1 (D:1-121)
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ATP-grasp
(191)
Superfamily
:
Glutathione synthetase ATP-binding domain-like
(158)
Family
:
Succinyl-CoA synthetase, beta-chain, N-terminal domain
(17)
Protein domain
:
Succinyl-CoA synthetase, beta-chain, N-terminal domain
(17)
Escherichia coli [TaxId: 562]
(11)
1a
d1cqjb2
B:1-238
1b
d1cqje2
E:1-238
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Succinyl-CoA synthetase domains
(39)
Family
:
Succinyl-CoA synthetase domains
(38)
Protein domain
:
Succinyl-CoA synthetase, alpha-chain, C-terminal domain
(20)
Escherichia coli [TaxId: 562]
(11)
2a
d1cqja2
A:122-286
2b
d1cqjd2
D:122-286
Protein domain
:
Succinyl-CoA synthetase, beta-chain, C-terminal domain
(17)
Escherichia coli [TaxId: 562]
(11)
3a
d1cqjb1
B:239-385
3b
d1cqje1
E:239-385
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
CoA-binding domain
(29)
Protein domain
:
Succinyl-CoA synthetase, alpha-chain, N-terminal (CoA-binding) domain
(20)
Escherichia coli [TaxId: 562]
(11)
4a
d1cqja1
A:1-121
4b
d1cqjd1
D:1-121
[
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CATH Domains
(4, 10)
Info
all CATH domains
1a: CATH_1cqjB01 (B:1-20,B:105-239)
1b: CATH_1cqjE01 (E:1-20,E:105-239)
2a: CATH_1cqjB02 (B:21-104)
2b: CATH_1cqjE02 (E:21-104)
3a: CATH_1cqjA02 (A:123-286)
3b: CATH_1cqjB03 (B:240-385)
3c: CATH_1cqjE03 (E:240-385)
3d: CATH_1cqjD02 (D:123-286)
4a: CATH_1cqjA01 (A:1-122)
4b: CATH_1cqjD01 (D:1-122)
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
D-amino Acid Aminotransferase; Chain A, domain 1
(175)
Homologous Superfamily
:
ATP-grasp fold, B domain
(118)
Escherichia coli. Organism_taxid: 562.
(16)
1a
1cqjB01
B:1-20,B:105-239
1b
1cqjE01
E:1-20,E:105-239
Topology
:
Dna Ligase; domain 1
(375)
Homologous Superfamily
:
ATP-grasp fold, A domain
(109)
Escherichia coli. Organism_taxid: 562.
(21)
2a
1cqjB02
B:21-104
2b
1cqjE02
E:21-104
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.261, no name defined]
(20)
Escherichia coli. Organism_taxid: 562.
(4)
3a
1cqjA02
A:123-286
3b
1cqjB03
B:240-385
3c
1cqjE03
E:240-385
3d
1cqjD02
D:123-286
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Escherichia coli. Organism_taxid: 562.
(49)
4a
1cqjA01
A:1-122
4b
1cqjD01
D:1-122
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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