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2CV2
Asym. Unit
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Asym.Unit (231 KB)
Biol.Unit 1 (115 KB)
Biol.Unit 2 (115 KB)
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(1)
Title
:
GLUTAMYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS IN COMPLEX WITH TRNA(GLU) AND AN ENZYME INHIBITOR, GLU-AMS
Authors
:
S. Sekine, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
31 May 05 (Deposition) - 05 Sep 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.69
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Ligase, Rna, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Ligase/Rna Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
S. Sekine, M. Shichiri, S. Bernier, R. Chenevert, J. Lapointe, S. Yokoyama
Structural Bases Of Transfer Rna-Dependent Amino Acid Recognition And Activation By Glutamyl-Trna Synthetase
Structure V. 14 1791 2006
(for further references see the
PDB file header
)
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: O5'-(L-GLUTAMYL-SULFAMOYL)-ADENOSI... (GSUa)
2b: O5'-(L-GLUTAMYL-SULFAMOYL)-ADENOSI... (GSUb)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
GSU
2
Ligand/Ion
O5'-(L-GLUTAMYL-SULFAMOYL)-ADENOSINE
3
MG
2
Ligand/Ion
MAGNESIUM ION
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
A C:546 , HOH C:1340
BINDING SITE FOR RESIDUE MG C 902
2
AC2
SOFTWARE
HIS B:15 , LYS B:246
BINDING SITE FOR RESIDUE CL B 903
3
AC3
SOFTWARE
HIS A:15 , LYS A:246
BINDING SITE FOR RESIDUE CL A 904
4
AC4
SOFTWARE
ARG A:5 , ALA A:7 , SER A:9 , GLY A:17 , TYR A:20 , ILE A:21 , GLU A:41 , TYR A:187 , ASN A:191 , ARG A:205 , ALA A:206 , GLU A:208 , TRP A:209 , LEU A:235 , LEU A:236 , ILE A:244 , HOH A:1012 , HOH A:1153 , HOH A:1195 , A C:576
BINDING SITE FOR RESIDUE GSU A 601
5
AC5
SOFTWARE
ARG B:5 , ALA B:7 , SER B:9 , TYR B:20 , ILE B:21 , GLU B:41 , TYR B:187 , ASN B:191 , ARG B:205 , ALA B:206 , GLU B:208 , TRP B:209 , PRO B:234 , LEU B:235 , LEU B:236 , ILE B:244 , HOH B:1004 , HOH B:1024 , HOH B:1387 , A D:576
BINDING SITE FOR RESIDUE GSU B 602
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: AA_TRNA_LIGASE_I (A:8-19,B:8-19)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AA_TRNA_LIGASE_I
PS00178
Aminoacyl-transfer RNA synthetases class-I signature.
SYE_THET8
8-19
2
A:8-19
B:8-19
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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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2cv2a1 (A:306-468)
1b: SCOP_d2cv2b1 (B:306-468)
2a: SCOP_d2cv2a2 (A:1-305)
2b: SCOP_d2cv2b2 (B:1-305)
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Superfamilies
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)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
An anticodon-binding domain of class I aminoacyl-tRNA synthetases
(17)
Superfamily
:
An anticodon-binding domain of class I aminoacyl-tRNA synthetases
(17)
Family
:
C-terminal domain of glutamyl-tRNA synthetase (GluRS)
(11)
Protein domain
:
C-terminal domain of glutamyl-tRNA synthetase (GluRS)
(11)
Thermus thermophilus [TaxId: 274]
(11)
1a
d2cv2a1
A:306-468
1b
d2cv2b1
B:306-468
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Nucleotidylyl transferase
(325)
Family
:
Class I aminoacyl-tRNA synthetases (RS), catalytic domain
(137)
Protein domain
:
Glutamyl-tRNA synthetase (GluRS)
(11)
Thermus thermophilus [TaxId: 274]
(11)
2a
d2cv2a2
A:1-305
2b
d2cv2b2
B:1-305
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CATH Domains
(5, 10)
Info
all CATH domains
1a: CATH_2cv2A01 (A:1-70,A:187-237)
1b: CATH_2cv2B01 (B:1-70,B:187-237)
2a: CATH_2cv2A02 (A:71-186)
2b: CATH_2cv2B02 (B:71-186)
3a: CATH_2cv2A05 (A:371-468)
3b: CATH_2cv2B05 (B:371-468)
4a: CATH_2cv2A03 (A:238-322)
4b: CATH_2cv2B03 (B:238-322)
5a: CATH_2cv2A04 (A:323-370)
5b: CATH_2cv2B04 (B:323-370)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
[unclassified]
(27)
1a
2cv2A01
A:1-70,A:187-237
1b
2cv2B01
B:1-70,B:187-237
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Glutamyl-tRNA Synthetase; domain 3
(29)
Homologous Superfamily
:
Glutamyl-tRNA Synthetase; Domain 3
(29)
[unclassified]
(14)
2a
2cv2A02
A:71-186
2b
2cv2B02
B:71-186
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
[code=1.10.10.350, no name defined]
(13)
[unclassified]
(7)
3a
2cv2A05
A:371-468
3b
2cv2B05
B:371-468
Topology
:
Glutamyl-tRNA Synthetase; domain 2
(29)
Homologous Superfamily
:
Glutamyl-trna Synthetase; Domain 2
(29)
[unclassified]
(14)
4a
2cv2A03
A:238-322
4b
2cv2B03
B:238-322
Topology
:
Helicase, Ruva Protein; domain 3
(218)
Homologous Superfamily
:
[code=1.10.8.70, no name defined]
(12)
[unclassified]
(7)
5a
2cv2A04
A:323-370
5b
2cv2B04
B:323-370
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Pfam Domains
(0, 0)
Info
all PFAM domains
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (231 KB)
Header - Asym.Unit
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