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1FFY
Asym. Unit
Info
Asym.Unit (196 KB)
Biol.Unit 1 (188 KB)
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(1)
Title
:
INSIGHTS INTO EDITING FROM AN ILE-TRNA SYNTHETASE STRUCTURE WITH TRNA(ILE) AND MUPIROCIN
Authors
:
L. F. Silvian, J. Wang, T. A. Steitz
Date
:
26 Jul 00 (Deposition) - 07 Aug 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,T
Biol. Unit 1: A,T (1x)
Keywords
:
Staphylococcus Aureus, Protein-Rna Complex, Metal Ions, Editing Trna Synthetase, Double-Sieve, Ligase/Rna, Mupirocin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. F. Silvian, J. Wang, T. A. Steitz
Insights Into Editing From An Ile-Trna Synthetase Structure With Trnaile And Mupirocin.
Science V. 285 1074 1999
(for further references see the
PDB file header
)
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Hetero Components
(4, 14)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
2i: MAGNESIUM ION (MGi)
2j: MAGNESIUM ION (MGj)
3a: MUPIROCIN (MRCa)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
1
Ligand/Ion
POTASSIUM ION
2
MG
10
Ligand/Ion
MAGNESIUM ION
3
MRC
1
Ligand/Ion
MUPIROCIN
4
ZN
2
Ligand/Ion
ZINC ION
[
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Sites
(14, 14)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
C T:32 , U T:33 , U T:36 , A T:38 , HOH T:1267
BINDING SITE FOR RESIDUE K T 301
02
AC2
SOFTWARE
CYS A:886 , CYS A:889 , CYS A:906 , CYS A:909
BINDING SITE FOR RESIDUE ZN A 1001
03
AC3
SOFTWARE
ASP A:13 , HIS A:201 , HIS A:770 , HOH A:2070
BINDING SITE FOR RESIDUE ZN A 1992
04
AC4
SOFTWARE
HOH T:1292 , HOH T:1293 , HOH T:1294 , HOH T:1295 , HOH T:1296 , HOH T:1297
BINDING SITE FOR RESIDUE MG T 1201
05
AC5
SOFTWARE
HOH T:1298 , HOH T:1299 , HOH T:1300 , HOH T:1301 , HOH T:1302 , HOH T:1303
BINDING SITE FOR RESIDUE MG T 1202
06
AC6
SOFTWARE
HOH A:2198 , A T:14 , HOH T:1304 , HOH T:1305 , HOH T:1306 , HOH T:1307
BINDING SITE FOR RESIDUE MG T 1203
07
AC7
SOFTWARE
G T:26 , G T:43 , A T:44 , HOH T:1218 , HOH T:1308 , HOH T:1309 , HOH T:1310 , HOH T:1311
BINDING SITE FOR RESIDUE MG T 1204
08
AC8
SOFTWARE
ASN A:713 , ASN A:718 , HOH A:2199 , C T:25 , HOH T:1312 , HOH T:1313 , HOH T:1314
BINDING SITE FOR RESIDUE MG T 1205
09
AC9
SOFTWARE
U T:8 , A T:9 , HOH T:1315 , HOH T:1316 , HOH T:1317 , HOH T:1318
BINDING SITE FOR RESIDUE MG T 1206
10
BC1
SOFTWARE
G T:16 , G T:19 , G T:59 , U T:60 , HOH T:1250 , HOH T:1319 , HOH T:1320
BINDING SITE FOR RESIDUE MG T 1207
11
BC2
SOFTWARE
ASN A:703 , HOH A:2200 , HOH A:2201 , C T:13 , A T:14 , HOH T:1321 , HOH T:1322
BINDING SITE FOR RESIDUE MG T 1208
12
BC3
SOFTWARE
U T:47 , C T:48 , G T:50 , HOH T:1323 , HOH T:1324 , HOH T:1325 , HOH T:1326
BINDING SITE FOR RESIDUE MG T 1209
13
BC4
SOFTWARE
U T:8 , U T:12 , HOH T:1318 , HOH T:1327 , HOH T:1328 , HOH T:1329 , HOH T:1330
BINDING SITE FOR RESIDUE MG T 1210
14
BC5
SOFTWARE
PRO A:56 , PRO A:57 , TYR A:58 , HIS A:64 , GLY A:66 , ASN A:70 , GLU A:554 , GLY A:555 , ASP A:557 , GLN A:558 , HIS A:585 , GLY A:586 , PHE A:587 , VAL A:588 , MET A:596 , SER A:597 , HOH A:2085 , HOH A:2116 , HOH A:2138
BINDING SITE FOR RESIDUE MRC A 1993
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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, 1)
Info
All PROSITE Patterns/Profiles
1: AA_TRNA_LIGASE_I (A:57-68)
;
View:
Select:
Label:
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.
SYI1_STAAU
57-68
1
A:57-68
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1ffya1 (A:645-917)
2a: SCOP_d1ffya2 (A:201-394)
3a: SCOP_d1ffya3 (A:1-200,A:395-644)
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
(48)
Superfamily
:
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
(48)
Family
:
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
(30)
Protein domain
:
Isoleucyl-tRNA synthetase (IleRS)
(6)
Staphylococcus aureus [TaxId: 1280]
(3)
1a
d1ffya1
A:645-917
Class
:
All beta proteins
(24004)
Fold
:
ValRS/IleRS/LeuRS editing domain
(19)
Superfamily
:
ValRS/IleRS/LeuRS editing domain
(19)
Family
:
ValRS/IleRS/LeuRS editing domain
(19)
Protein domain
:
Isoleucyl-tRNA synthetase (IleRS)
(9)
Staphylococcus aureus [TaxId: 1280]
(3)
2a
d1ffya2
A:201-394
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
:
Isoleucyl-tRNA synthetase (IleRS)
(6)
Staphylococcus aureus [TaxId: 1280]
(3)
3a
d1ffya3
A:1-200,A:395-644
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(0, 0)
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Sorry, no Info available
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Chain A
Chain T
Asymmetric Unit 1
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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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select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
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show SS bonds with a radius of 100 units (=0.4Å)
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Asym.Unit (196 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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