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Asym. Unit
Info
Asym.Unit (317 KB)
Biol.Unit 1 (107 KB)
Biol.Unit 2 (106 KB)
Biol.Unit 3 (107 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF TRYPTOPHANYL-TRNA SYNTHETASE COMPLEXED WITH TRYPTOPHAN IN AN OPEN CONFORMATION
Authors
:
P. Retailleau, X. Huang, Y. Yin, M. Hu, V. Weinreb, P. Vachette, C. Vonrhein, G. Bricogne, P. Roversi, V. Ilyin, C. W. Carter Jr.
Date
:
02 Aug 02 (Deposition) - 07 Jan 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,D (1x)
Biol. Unit 2: B,E (1x)
Biol. Unit 3: C,F (1x)
Keywords
:
Aminoacyl-Trna Synthetase, Rossmann Fold, Amino Acid Binding Site, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Retailleau, X. Huang, Y. Yin, M. Hu, V. Weinreb, P. Vachette, C. Vonrhein, G. Bricogne, P. Roversi, V. Ilyin, C. W. Carter
Interconversion Of Atp Binding And Conformational Free Energies By Tryptophanyl-Trna Synthetase: Structures Of Atp Bound To Open And Closed, Pre-Transition-State Conformations.
J. Mol. Biol. V. 325 39 2003
(for further references see the
PDB file header
)
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: TRYPTOPHAN (TRPa)
1b: TRYPTOPHAN (TRPb)
1c: TRYPTOPHAN (TRPc)
1d: TRYPTOPHAN (TRPd)
1e: TRYPTOPHAN (TRPe)
1f: TRYPTOPHAN (TRPf)
View:
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No.
Name
Count
Type
Full Name
1
TRP
6
Mod. Amino Acid
TRYPTOPHAN
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:5 , GLY A:7 , VAL A:40 , HIS A:43 , MET A:129 , ASP A:132 , VAL A:143 , GLN A:147
BINDING SITE FOR RESIDUE TRP A 400
2
AC2
SOFTWARE
PHE B:5 , GLY B:7 , GLN B:9 , VAL B:40 , HIS B:43 , MET B:129 , ASP B:132 , GLN B:147
BINDING SITE FOR RESIDUE TRP B 401
3
AC3
SOFTWARE
PHE C:5 , GLY C:7 , VAL C:40 , HIS C:43 , MET C:129 , ASP C:132 , VAL C:143 , GLN C:147
BINDING SITE FOR RESIDUE TRP C 402
4
AC4
SOFTWARE
PHE D:5 , GLY D:7 , GLN D:9 , VAL D:40 , HIS D:43 , MET D:129 , ASP D:132 , VAL D:141 , GLN D:147
BINDING SITE FOR RESIDUE TRP D 403
5
AC5
SOFTWARE
PHE E:5 , GLY E:7 , HIS E:43 , MET E:129 , ASP E:132 , VAL E:143 , GLN E:147
BINDING SITE FOR RESIDUE TRP E 404
6
AC6
SOFTWARE
PHE F:5 , GLY F:7 , GLN F:9 , HIS F:43 , MET F:129 , ASP F:132 , VAL F:143 , GLN F:147
BINDING SITE FOR RESIDUE TRP F 405
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: AA_TRNA_LIGASE_I (A:10-19,B:10-19,C:10-19,D:10-19,E:...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AA_TRNA_LIGASE_I
PS00178
Aminoacyl-transfer RNA synthetases class-I signature.
SYW_GEOSE
10-19
6
A:10-19
B:10-19
C:10-19
D:10-19
E:10-19
F:10-19
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Exons
(0, 0)
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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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1mb2a_ (A:)
1b: SCOP_d1mb2b_ (B:)
1c: SCOP_d1mb2c_ (C:)
1d: SCOP_d1mb2d_ (D:)
1e: SCOP_d1mb2e_ (E:)
1f: SCOP_d1mb2f_ (F:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
:
Tryptophanyl-tRNA synthetase (TrpRS)
(28)
Bacillus stearothermophilus [TaxId: 1422]
(11)
1a
d1mb2a_
A:
1b
d1mb2b_
B:
1c
d1mb2c_
C:
1d
d1mb2d_
D:
1e
d1mb2e_
E:
1f
d1mb2f_
F:
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CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_1mb2A01 (A:1-182,A:294-326)
1b: CATH_1mb2B01 (B:1-182,B:294-326)
1c: CATH_1mb2C01 (C:1-182,C:294-326)
1d: CATH_1mb2D01 (D:1-182,D:294-326)
1e: CATH_1mb2E01 (E:1-182,E:294-326)
1f: CATH_1mb2F01 (F:1-182,F:294-326)
2a: CATH_1mb2A02 (A:183-293)
2b: CATH_1mb2B02 (B:183-293)
2c: CATH_1mb2C02 (C:183-293)
2d: CATH_1mb2D02 (D:183-293)
2e: CATH_1mb2E02 (E:183-293)
2f: CATH_1mb2F02 (F:183-293)
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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)
Geobacillus stearothermophilus. Organism_taxid: 1422.
(4)
1a
1mb2A01
A:1-182,A:294-326
1b
1mb2B01
B:1-182,B:294-326
1c
1mb2C01
C:1-182,C:294-326
1d
1mb2D01
D:1-182,D:294-326
1e
1mb2E01
E:1-182,E:294-326
1f
1mb2F01
F:1-182,F:294-326
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Tyrosyl-Transfer RNA Synthetase
(70)
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase
(70)
Geobacillus stearothermophilus. Organism_taxid: 1422.
(4)
2a
1mb2A02
A:183-293
2b
1mb2B02
B:183-293
2c
1mb2C02
C:183-293
2d
1mb2D02
D:183-293
2e
1mb2E02
E:183-293
2f
1mb2F02
F:183-293
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Pfam Domains
(0, 0)
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Asym.Unit (317 KB)
Header - Asym.Unit
Biol.Unit 1 (107 KB)
Header - Biol.Unit 1
Biol.Unit 2 (106 KB)
Header - Biol.Unit 2
Biol.Unit 3 (107 KB)
Header - Biol.Unit 3
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