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1GPM
Asym. Unit
Info
Asym.Unit (348 KB)
Biol.Unit 1 (341 KB)
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(1)
Title
:
ESCHERICHIA COLI GMP SYNTHETASE COMPLEXED WITH AMP AND PYROPHOSPHATE
Authors
:
J. J. G. Tesmer
Date
:
04 Apr 95 (Deposition) - 29 Jan 96 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Class I Glutamine Amidotransferase, N-Type Atp Pyrophosphatase, Transferase (Glutamine Amidotransferase)
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. J. Tesmer, T. J. Klem, M. L. Deras, V. J. Davisson, J. L. Smith
The Crystal Structure Of Gmp Synthetase Reveals A Novel Catalytic Triad And Is A Structural Paradigm For Two Enzyme Families.
Nat. Struct. Biol. V. 3 74 1996
(for further references see the
PDB file header
)
[
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Hetero Components
(5, 19)
Info
All Hetero Components
1a: ADENOSINE MONOPHOSPHATE (AMPa)
1b: ADENOSINE MONOPHOSPHATE (AMPb)
1c: ADENOSINE MONOPHOSPHATE (AMPc)
1d: ADENOSINE MONOPHOSPHATE (AMPd)
2a: CITRIC ACID (CITa)
2b: CITRIC ACID (CITb)
2c: CITRIC ACID (CITc)
2d: CITRIC ACID (CITd)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
4c: PHOSPHATE ION (PO4c)
4d: PHOSPHATE ION (PO4d)
5a: PYROPHOSPHATE 2- (POPa)
5b: PYROPHOSPHATE 2- (POPb)
5c: PYROPHOSPHATE 2- (POPc)
5d: PYROPHOSPHATE 2- (POPd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AMP
4
Ligand/Ion
ADENOSINE MONOPHOSPHATE
2
CIT
4
Ligand/Ion
CITRIC ACID
3
MG
3
Ligand/Ion
MAGNESIUM ION
4
PO4
4
Ligand/Ion
PHOSPHATE ION
5
POP
4
Ligand/Ion
PYROPHOSPHATE 2-
[
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]
Sites
(23, 23)
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)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: GAA (AUTHOR)
21: GBA (AUTHOR)
22: GCA (AUTHOR)
23: GDA (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:517 , THR A:521 , ILE A:522 , GLU A:523 , HOH A:732
BINDING SITE FOR RESIDUE PO4 A 528
02
AC2
SOFTWARE
LYS B:517 , THR B:521 , ILE B:522 , GLU B:523
BINDING SITE FOR RESIDUE PO4 B 528
03
AC3
SOFTWARE
POP B:526 , AMP B:527 , HOH B:609
BINDING SITE FOR RESIDUE MG B 530
04
AC4
SOFTWARE
LYS C:517 , THR C:521 , ILE C:522 , GLU C:523
BINDING SITE FOR RESIDUE PO4 C 528
05
AC5
SOFTWARE
POP C:526 , AMP C:527 , HOH C:712
BINDING SITE FOR RESIDUE MG C 530
06
AC6
SOFTWARE
LYS D:517 , THR D:521 , ILE D:522 , GLU D:523
BINDING SITE FOR RESIDUE PO4 D 528
07
AC7
SOFTWARE
POP D:526 , AMP D:527
BINDING SITE FOR RESIDUE MG D 530
08
AC8
SOFTWARE
SER A:235 , GLY A:237 , VAL A:238 , ASP A:239 , SER A:240 , LYS A:381 , AMP A:527 , HOH A:538
BINDING SITE FOR RESIDUE POP A 526
09
AC9
SOFTWARE
GLY A:233 , LEU A:234 , SER A:235 , VAL A:258 , VAL A:260 , PHE A:315 , POP A:526 , HOH A:622
BINDING SITE FOR RESIDUE AMP A 527
10
BC1
SOFTWARE
SER A:17 , GLN A:18 , GLY A:58 , GLY A:59 , PRO A:60 , CYS A:86 , TYR A:87 , SER A:142 , HIS A:181 , HOH A:653
BINDING SITE FOR RESIDUE CIT A 529
11
BC2
SOFTWARE
SER B:235 , GLY B:237 , VAL B:238 , ASP B:239 , SER B:240 , LYS B:381 , AMP B:527 , MG B:530 , HOH B:557 , HOH B:609
BINDING SITE FOR RESIDUE POP B 526
12
BC3
SOFTWARE
GLY B:233 , LEU B:234 , SER B:235 , SER B:240 , VAL B:258 , VAL B:260 , PHE B:315 , POP B:526 , MG B:530 , HOH B:609 , HOH B:635
BINDING SITE FOR RESIDUE AMP B 527
13
BC4
SOFTWARE
SER B:17 , GLN B:18 , GLY B:58 , GLY B:59 , PRO B:60 , CYS B:86 , TYR B:87 , SER B:142 , HIS B:181
BINDING SITE FOR RESIDUE CIT B 529
14
BC5
SOFTWARE
SER C:235 , GLY C:237 , VAL C:238 , ASP C:239 , SER C:240 , LYS C:381 , AMP C:527 , MG C:530 , HOH C:712
BINDING SITE FOR RESIDUE POP C 526
15
BC6
SOFTWARE
GLY C:233 , LEU C:234 , SER C:235 , SER C:240 , VAL C:258 , VAL C:260 , PHE C:315 , POP C:526 , MG C:530 , HOH C:569 , HOH C:637 , HOH C:660
BINDING SITE FOR RESIDUE AMP C 527
16
BC7
SOFTWARE
SER C:17 , GLN C:18 , GLY C:58 , GLY C:59 , PRO C:60 , CYS C:86 , TYR C:87 , SER C:142 , HIS C:181
BINDING SITE FOR RESIDUE CIT C 529
17
BC8
SOFTWARE
SER D:235 , GLY D:237 , VAL D:238 , ASP D:239 , SER D:240 , LYS D:381 , AMP D:527 , MG D:530 , HOH D:646 , HOH D:668
BINDING SITE FOR RESIDUE POP D 526
18
BC9
SOFTWARE
GLY D:233 , LEU D:234 , SER D:235 , VAL D:258 , VAL D:260 , PHE D:315 , GLY D:405 , POP D:526 , MG D:530 , HOH D:667
BINDING SITE FOR RESIDUE AMP D 527
19
CC1
SOFTWARE
SER D:17 , GLN D:18 , GLY D:58 , GLY D:59 , PRO D:60 , CYS D:86 , TYR D:87 , PHE D:108 , SER D:142 , HIS D:181
BINDING SITE FOR RESIDUE CIT D 529
20
GAA
AUTHOR
CYS A:86 , HIS A:181 , GLU A:183
G-TYPE GLUTAMINE AMIDOTRANSFERASE ACTIVE SITE. THESE RESIDUES ARE ARRANGED IN A CATALYTIC TRIAD SIMILAR TO THOSE FOUND IN OTHER HYDROLYTIC ENZYMES
21
GBA
AUTHOR
CYS B:86 , HIS B:181 , GLU B:183
G-TYPE GLUTAMINE AMIDOTRANSFERASE ACTIVE SITE. THESE RESIDUES ARE ARRANGED IN A CATALYTIC TRIAD SIMILAR TO THOSE FOUND IN OTHER HYDROLYTIC ENZYMES
22
GCA
AUTHOR
CYS C:86 , HIS C:181 , GLU C:183
G-TYPE GLUTAMINE AMIDOTRANSFERASE ACTIVE SITE. THESE RESIDUES ARE ARRANGED IN A CATALYTIC TRIAD SIMILAR TO THOSE FOUND IN OTHER HYDROLYTIC ENZYMES
23
GDA
AUTHOR
CYS D:86 , HIS D:181 , GLU D:183
G-TYPE GLUTAMINE AMIDOTRANSFERASE ACTIVE SITE. THESE RESIDUES ARE ARRANGED IN A CATALYTIC TRIAD SIMILAR TO THOSE FOUND IN OTHER HYDROLYTIC ENZYMES
[
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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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: GMPS_ATP_PPASE (A:208-400,B:208-400,C:208-400,D:20...)
;
View:
Select:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GMPS_ATP_PPASE
PS51553
GMP synthetase ATP pyrophosphatase (GMPS ATP-PPase) domain profile.
GUAA_ECOLI
208-400
4
A:208-400
B:208-400
C:208-400
D:208-400
[
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Exons
(0, 0)
Info
All Exons
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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
(3, 12)
Info
All SCOP Domains
1a: SCOP_d1gpma3 (A:405-525)
1b: SCOP_d1gpmb3 (B:405-525)
1c: SCOP_d1gpmc3 (C:405-525)
1d: SCOP_d1gpmd3 (D:405-525)
2a: SCOP_d1gpma1 (A:208-404)
2b: SCOP_d1gpmb1 (B:208-404)
2c: SCOP_d1gpmc1 (C:208-404)
2d: SCOP_d1gpmd1 (D:208-404)
3a: SCOP_d1gpma2 (A:3-207)
3b: SCOP_d1gpmb2 (B:3-207)
3c: SCOP_d1gpmc2 (C:3-207)
3d: SCOP_d1gpmd2 (D:3-207)
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Classes
(
)
(
)
Folds
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)
(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Alpha-lytic protease prodomain-like
(115)
Superfamily
:
GMP synthetase C-terminal dimerisation domain
(6)
Family
:
GMP synthetase C-terminal dimerisation domain
(3)
Protein domain
:
GMP synthetase C-terminal dimerisation domain
(3)
Escherichia coli [TaxId: 562]
(1)
1a
d1gpma3
A:405-525
1b
d1gpmb3
B:405-525
1c
d1gpmc3
C:405-525
1d
d1gpmd3
D:405-525
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Adenine nucleotide alpha hydrolases-like
(110)
Family
:
N-type ATP pyrophosphatases
(44)
Protein domain
:
GMP synthetase, central domain
(3)
Escherichia coli [TaxId: 562]
(1)
2a
d1gpma1
A:208-404
2b
d1gpmb1
B:208-404
2c
d1gpmc1
C:208-404
2d
d1gpmd1
D:208-404
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Class I glutamine amidotransferase-like
(173)
Family
:
Class I glutamine amidotransferases (GAT)
(48)
Protein domain
:
GMP synthetase
(3)
Escherichia coli [TaxId: 562]
(1)
3a
d1gpma2
A:3-207
3b
d1gpmb2
B:3-207
3c
d1gpmc2
C:3-207
3d
d1gpmd2
D:3-207
[
close SCOP info
]
CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_1gpmA03 (A:417-524)
1b: CATH_1gpmB03 (B:417-524)
1c: CATH_1gpmC03 (C:417-524)
1d: CATH_1gpmD03 (D:417-524)
2a: CATH_1gpmA01 (A:9-206)
2b: CATH_1gpmB01 (B:9-206)
2c: CATH_1gpmC01 (C:9-206)
2d: CATH_1gpmD01 (D:9-206)
3a: CATH_1gpmA02 (A:207-400)
3b: CATH_1gpmC02 (C:207-400)
3c: CATH_1gpmB02 (B:207-400)
3d: CATH_1gpmD02 (D:207-400)
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(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
GMP Synthetase; Chain A, domain 3
(192)
Homologous Superfamily
:
[code=3.30.300.10, no name defined]
(22)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(1)
1a
1gpmA03
A:417-524
1b
1gpmB03
B:417-524
1c
1gpmC03
C:417-524
1d
1gpmD03
D:417-524
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.880, no name defined]
(97)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(2)
2a
1gpmA01
A:9-206
2b
1gpmB01
B:9-206
2c
1gpmC01
C:9-206
2d
1gpmD01
D:9-206
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Escherichia coli k12. Organism_taxid: 83333. Strain: k12.
(3)
3a
1gpmA02
A:207-400
3b
1gpmC02
C:207-400
3c
1gpmB02
B:207-400
3d
1gpmD02
D:207-400
[
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]
Pfam Domains
(0, 0)
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all PFAM domains
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