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1QF6
Asym. Unit
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Asym.Unit (151 KB)
Biol.Unit 1 (145 KB)
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(1)
Title
:
STRUCTURE OF E. COLI THREONYL-TRNA SYNTHETASE COMPLEXED WITH ITS COGNATE TRNA
Authors
:
R. Sankaranarayanan, A. C. Dock-Bregeon, B. Rees, D. Moras
Date
:
06 Apr 99 (Deposition) - 06 May 99 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.90
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Threonyl-Trna Synthetase, Trna(Thr), Amp, Mrna, Aminoacylation, Translational Regulation, Protein/Rna, Ligase-Rna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Sankaranarayanan, A. C. Dock-Bregeon, P. Romby, J. Caillet, M. Springer, B. Rees, C. Ehresmann, B. Ehresmann, D. Moras
The Structure Of Threonyl-Trna Synthetase-Trna(Thr) Complex Enlightens Its Repressor Activity And Reveals An Essential Zinc Ion In The Active Site
Cell(Cambridge, Mass. ) V. 97 371 1999
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Hetero Components
(7, 9)
Info
All Hetero Components
1a: 5-METHYLURIDINE 5'-MONOPHOSPHATE (5MUa)
2a: N-[N-(9-B-D-RIBOFURANOSYLPURIN-6-Y... (AETa)
3a: ADENOSINE MONOPHOSPHATE (AMPa)
4a: N7-METHYL-GUANOSINE-5'-MONOPHOSPHA... (G7Ma)
5a: 5,6-DIHYDROURIDINE-5'-MONOPHOSPHAT... (H2Ua)
5b: 5,6-DIHYDROURIDINE-5'-MONOPHOSPHAT... (H2Ub)
5c: 5,6-DIHYDROURIDINE-5'-MONOPHOSPHAT... (H2Uc)
6a: PSEUDOURIDINE-5'-MONOPHOSPHATE (PSUa)
7a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
5MU
1
Mod. Nucleotide
5-METHYLURIDINE 5'-MONOPHOSPHATE
2
AET
1
Mod. Nucleotide
N-[N-(9-B-D-RIBOFURANOSYLPURIN-6-YL)METHYLCARBAMOYL]THREONINE-5'-MONOPHOSPHATE
3
AMP
1
Ligand/Ion
ADENOSINE MONOPHOSPHATE
4
G7M
1
Mod. Nucleotide
N7-METHYL-GUANOSINE-5'-MONOPHOSPHATE
5
H2U
3
Mod. Nucleotide
5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
6
PSU
1
Mod. Nucleotide
PSEUDOURIDINE-5'-MONOPHOSPHATE
7
ZN
1
Ligand/Ion
ZINC ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:334 , HIS A:385 , HIS A:511 , HOH A:1123
BINDING SITE FOR RESIDUE ZN A 1001
2
AC2
SOFTWARE
ARG A:363 , GLU A:365 , MET A:374 , ARG A:375 , VAL A:376 , PHE A:379 , GLN A:381 , GLN A:479 , CYS A:480 , THR A:482 , GLY A:516 , SER A:517 , ARG A:520 , HOH A:1118 , A B:76
BINDING SITE FOR RESIDUE AMP A 1002
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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;
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End label:
Sorry, no Info available
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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, 4)
Info
All SCOP Domains
1a: SCOP_d1qf6a2 (A:2-62)
2a: SCOP_d1qf6a4 (A:242-532)
3a: SCOP_d1qf6a3 (A:63-241)
4a: SCOP_d1qf6a1 (A:533-642)
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(
)
(
)
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)
(
)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
beta-Grasp (ubiquitin-like)
(1032)
Superfamily
:
TGS-like
(13)
Family
:
TGS domain
(7)
Protein domain
:
Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain
(7)
Escherichia coli [TaxId: 562]
(5)
1a
d1qf6a2
A:2-62
Fold
:
Class II aaRS and biotin synthetases
(165)
Superfamily
:
Class II aaRS and biotin synthetases
(165)
Family
:
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain
(103)
Protein domain
:
Threonyl-tRNA synthetase (ThrRS)
(7)
Escherichia coli [TaxId: 562]
(5)
2a
d1qf6a4
A:242-532
Fold
:
RRF/tRNA synthetase additional domain-like
(47)
Superfamily
:
ThrRS/AlaRS common domain
(14)
Family
:
Threonyl-tRNA synthetase (ThrRS), second 'additional' domain
(7)
Protein domain
:
Threonyl-tRNA synthetase (ThrRS), second 'additional' domain
(7)
Escherichia coli [TaxId: 562]
(5)
3a
d1qf6a3
A:63-241
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Anticodon-binding domain-like
(97)
Superfamily
:
Class II aaRS ABD-related
(40)
Family
:
Anticodon-binding domain of Class II aaRS
(33)
Protein domain
:
Threonyl-tRNA synthetase (ThrRS), C-terminal domain
(7)
Escherichia coli [TaxId: 562]
(5)
4a
d1qf6a1
A:533-642
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CATH Domains
(5, 5)
Info
all CATH domains
1a: CATH_1qf6A04 (A:239-534)
2a: CATH_1qf6A03 (A:130-181)
3a: CATH_1qf6A02 (A:65-129,A:193-233)
4a: CATH_1qf6A05 (A:540-641)
5a: CATH_1qf6A01 (A:2-64)
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(
)
(
)
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
BirA Bifunctional Protein; domain 2
(111)
Homologous Superfamily
:
Bira Bifunctional Protein; Domain 2
(111)
Escherichia coli. Organism_taxid: 562.
(1)
1a
1qf6A04
A:239-534
Topology
:
Replication Terminator Protein; Chain A, domain 2
(9)
Homologous Superfamily
:
[code=3.30.54.20, no name defined]
(5)
Escherichia coli. Organism_taxid: 562.
(1)
2a
1qf6A03
A:130-181
Topology
:
Threonyl-tRNA Synthetase; Chain A, domain 2
(6)
Homologous Superfamily
:
Threonyl-trna Synthetase; Chain A, domain 2
(5)
Escherichia coli. Organism_taxid: 562.
(1)
3a
1qf6A02
A:65-129,A:193-233
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.800, no name defined]
(40)
Escherichia coli. Organism_taxid: 562.
(1)
4a
1qf6A05
A:540-641
Architecture
:
Roll
(3276)
Topology
:
Ubiquitin-like (UB roll)
(674)
Homologous Superfamily
:
[code=3.10.20.30, no name defined]
(153)
Escherichia coli. Organism_taxid: 562.
(1)
5a
1qf6A01
A:2-64
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Pfam Domains
(4, 4)
Info
all PFAM domains
1a: PFAM_HGTP_anticodon_1qf6A01 (A:541-631)
2a: PFAM_TGS_1qf6A02 (A:2-61)
3a: PFAM_tRNA_SAD_1qf6A03 (A:171-219)
4a: PFAM_tRNA_synt_2b_1qf6A04 (A:273-440)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
IIaaRS-ABD
(13)
Family
:
HGTP_anticodon
(13)
Escherichia coli (strain K12)
(4)
1a
HGTP_anticodon-1qf6A01
A:541-631
Clan
:
Ubiquitin
(279)
Family
:
TGS
(10)
Escherichia coli (strain K12)
(5)
2a
TGS-1qf6A02
A:2-61
Clan
:
no clan defined [family: tRNA_SAD]
(15)
Family
:
tRNA_SAD
(15)
Escherichia coli (strain K12)
(5)
3a
tRNA_SAD-1qf6A03
A:171-219
Clan
:
tRNA_synt_II
(64)
Family
:
tRNA-synt_2b
(25)
Escherichia coli (strain K12)
(4)
4a
tRNA-synt_2b-1qf6A04
A:273-440
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