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3ZXI
Asym. Unit
Info
Asym.Unit (219 KB)
Biol.Unit 1 (212 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN MITOCHONDRIAL TYROSYL-TRNA SYNTHETASE IN COMPLEX WITH A TYROSYL-ADENYLATE ANALOG
Authors
:
L. Bonnefond, M. Frugier, J. Rudinger-Thirion, C. Balg, R. Chenevert, R. Giege, C. Sauter
Date
:
11 Aug 11 (Deposition) - 16 Nov 11 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Aminoacyl-Trna Synthetase, Protein-Substrate Complex, Atp-Binding, Ligase, Protein Biosynthesis
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Bonnefond, P. Schellenberger, J. Basquin, G. Demangeat, C. Ritzenthaler, R. Chenevert, C. Balg, M. Frugier, J. Rudinger-Thirion, R. Giege, B. Lorber, C. Sauter
Exploiting Protein Engineering And Crystal Polymorphism For Successful X-Ray Structure Determination
Cryst. Growth Des. V. 11 4334 2011
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: PHOSPHORIC ACID 2-AMINO-3-(4-HYDRO... (TYAa)
1b: PHOSPHORIC ACID 2-AMINO-3-(4-HYDRO... (TYAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
TYA
2
Ligand/Ion
PHOSPHORIC ACID 2-AMINO-3-(4-HYDROXY-PHENYL)-PROPYL ESTER ADENOSIN-5'YL ESTER
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:77 , GLY A:79 , ASP A:81 , HIS A:88 , GLY A:90 , HIS A:91 , LEU A:111 , THR A:116 , ASP A:121 , TYR A:221 , GLN A:225 , ASP A:228 , GLY A:243 , GLY A:244 , ASP A:246 , GLN A:247 , PRO A:272 , LEU A:273 , ILE A:274
BINDING SITE FOR RESIDUE TYA A1374
2
AC2
SOFTWARE
TYR B:77 , GLY B:79 , ASP B:81 , HIS B:88 , GLY B:90 , HIS B:91 , ALA B:94 , LEU B:111 , THR B:116 , ASP B:121 , TYR B:221 , GLN B:225 , ASP B:228 , GLN B:241 , GLY B:243 , GLY B:244 , ASP B:246 , GLN B:247 , PRO B:272 , LEU B:273 , ILE B:274
BINDING SITE FOR RESIDUE TYA B1374
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SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_068646 (G46D, chain A/B, )
2: VAR_064188 (F52L, chain A/B, )
3: VAR_034534 (G191V, chain A/B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_068646
G
46
D
SYYM_HUMAN
Disease (MLASA2)
---
A/B
G
46
D
2
UniProt
VAR_064188
F
52
L
SYYM_HUMAN
Disease (MLASA2)
---
A/B
F
52
L
3
UniProt
VAR_034534
G
191
V
SYYM_HUMAN
Polymorphism
11539445
A/B
G
191
V
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: AA_TRNA_LIGASE_I (A:82-92,B:82-92)
;
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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.
SYYM_HUMAN
82-92
2
A:82-92
B:82-92
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Exons
(4, 8)
Info
All Exons
Exon 1.1 (A:37-260 (gaps) | B:37-260 (gaps))
Exon 1.2 (A:260-316 (gaps) | B:260-316 (gaps...)
Exon 1.3 (A:316-368 | B:316-368)
Exon 1.4 (A:368-374 | B:368-374)
View:
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5
View:
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000324868
1
ENSE00000936513
chr12:
32908874-32908030
845
SYYM_HUMAN
1-260
260
2
A:37-260 (gaps)
B:37-260 (gaps)
224
224
1.2
ENST00000324868
2
ENSE00000936514
chr12:
32907019-32906852
168
SYYM_HUMAN
260-316
57
2
A:260-316 (gaps)
B:260-316 (gaps)
57
57
1.3
ENST00000324868
3
ENSE00000936515
chr12:
32903808-32903653
156
SYYM_HUMAN
316-368
53
2
A:316-368
B:316-368
53
53
1.4
ENST00000324868
4
ENSE00000936516
chr12:
32903041-32902871
171
SYYM_HUMAN
368-425
58
2
A:368-374
B:368-374
7
7
1.5
ENST00000324868
5
ENSE00001266823
chr12:
32900297-32899479
819
SYYM_HUMAN
425-477
53
0
-
-
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3zxia_ (A:)
1b: SCOP_d3zxib_ (B:)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Nucleotidylyl transferase
(325)
Family
:
automated matches
(67)
Protein domain
:
automated matches
(67)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d3zxia_
A:
1b
d3zxib_
B:
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(0, 0)
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Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (219 KB)
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