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3HXZ
Asym. Unit
Info
Asym.Unit (349 KB)
Biol.Unit 1 (91 KB)
Biol.Unit 2 (91 KB)
Biol.Unit 3 (91 KB)
Biol.Unit 4 (90 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF CATALYTIC FRAGMENT OF E. COLI ALARS G237A IN COMPLEX WITH ALASA
Authors
:
M. Guo, X. -L. Yang, P. Schimmel
Date
:
22 Jun 09 (Deposition) - 15 Dec 09 (Release) - 12 Jan 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.99
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Aminoacyl-Trna Synthetase, Ligase, Protein Biosynthesis, Nucleotide- Binding, Amino Acid-Binding, Atp-Binding, Metal-Binding, Zinc-Finger
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Guo, Y. E. Chong, R. Shapiro, K. Beebe, X. L. Yang, P. Schimmel
Paradox Of Mistranslation Of Serine For Alanine Caused By Alars Recognition Dilemma.
Nature V. 462 808 2009
[
close entry info
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Hetero Components
(3, 16)
Info
All Hetero Components
1a: '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADEN... (A5Aa)
1b: '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADEN... (A5Ab)
1c: '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADEN... (A5Ac)
1d: '5'-O-(N-(L-ALANYL)-SULFAMOYL)ADEN... (A5Ad)
2a: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEa)
2b: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEb)
2c: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEc)
2d: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ET... (EPEd)
3a: 2-HYDROXYETHYL DISULFIDE (HEDa)
3b: 2-HYDROXYETHYL DISULFIDE (HEDb)
3c: 2-HYDROXYETHYL DISULFIDE (HEDc)
3d: 2-HYDROXYETHYL DISULFIDE (HEDd)
3e: 2-HYDROXYETHYL DISULFIDE (HEDe)
3f: 2-HYDROXYETHYL DISULFIDE (HEDf)
3g: 2-HYDROXYETHYL DISULFIDE (HEDg)
3h: 2-HYDROXYETHYL DISULFIDE (HEDh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
A5A
4
Ligand/Ion
'5'-O-(N-(L-ALANYL)-SULFAMOYL)ADENOSINE
2
EPE
4
Ligand/Ion
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
3
HED
8
Ligand/Ion
2-HYDROXYETHYL DISULFIDE
[
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]
Sites
(16, 16)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:69 , ASP A:76 , ARG A:85 , HIS A:86 , HIS A:87 , PHE A:90 , MET A:92 , TRP A:170 , GLU A:209 , ILE A:210 , ASN A:212 , VAL A:214 , ASP A:235 , ALA A:237 , GLY A:239 , ARG A:242 , HOH A:456 , HOH A:463 , HOH A:465 , HOH A:554 , HOH A:918
BINDING SITE FOR RESIDUE A5A A 442
02
AC2
SOFTWARE
LYS A:124 , GLU A:125 , ARG A:152 , HOH A:824 , HOH A:1187 , HOH A:1481 , HOH A:1640 , SER C:25 , GLU C:346 , ASP C:347 , HOH C:1109
BINDING SITE FOR RESIDUE EPE A 443
03
AC3
SOFTWARE
SER A:25 , ARG A:66 , GLU A:346 , ASP A:347 , HOH A:848 , HOH A:908 , HOH A:1236 , HOH A:2080 , HOH A:2115 , GLU D:125 , ARG D:152
BINDING SITE FOR RESIDUE EPE A 444
04
AC4
SOFTWARE
LYS A:18 , ARG A:60 , ASP A:100 , TYR A:101 , ASP A:105 , PHE A:109 , HOH A:764 , ARG C:396 , ARG C:434
BINDING SITE FOR RESIDUE HED A 445
05
AC5
SOFTWARE
PRO A:34 , ASN A:304 , HOH A:2378 , HOH A:2402
BINDING SITE FOR RESIDUE HED A 446
06
AC6
SOFTWARE
ARG B:69 , ASP B:76 , ARG B:85 , HIS B:86 , HIS B:87 , PHE B:90 , MET B:92 , TRP B:170 , GLU B:209 , ILE B:210 , ASN B:212 , ASP B:235 , ALA B:237 , GLY B:239 , ARG B:242 , HOH B:459 , HOH B:467 , HOH B:527 , HOH B:598 , HOH B:931
BINDING SITE FOR RESIDUE A5A B 442
07
AC7
SOFTWARE
GLU B:125 , ARG B:152 , HOH B:897 , HOH B:1139 , HOH B:1589 , HOH B:1829 , SER D:25 , GLU D:346 , ASP D:347 , HOH D:1137
BINDING SITE FOR RESIDUE EPE B 443
08
AC8
SOFTWARE
SER B:25 , ARG B:66 , GLU B:346 , ASP B:347 , HOH B:1118 , HOH B:1144 , HOH B:1201 , HOH B:1821 , HOH B:2418 , LYS C:124 , GLU C:125 , ARG C:152
BINDING SITE FOR RESIDUE EPE B 444
09
AC9
SOFTWARE
LYS B:18 , ARG B:60 , PHE B:109 , HOH B:989 , HOH B:1287 , HOH B:2204 , ARG D:434
BINDING SITE FOR RESIDUE HED B 445
10
BC1
SOFTWARE
PRO B:34 , ARG B:305 , HOH B:1485 , HOH B:1503 , HOH B:2059
BINDING SITE FOR RESIDUE HED B 446
11
BC2
SOFTWARE
ARG C:69 , ASP C:76 , ARG C:85 , HIS C:86 , HIS C:87 , PHE C:90 , MET C:92 , TRP C:170 , GLU C:209 , ILE C:210 , ASN C:212 , VAL C:214 , ASP C:235 , ALA C:237 , GLY C:239 , ARG C:242 , HOH C:446 , HOH C:456 , HOH C:460 , HOH C:511 , HOH C:1127
BINDING SITE FOR RESIDUE A5A C 442
12
BC3
SOFTWARE
ARG A:434 , LYS C:18 , ARG C:60 , PHE C:109 , HOH C:1173 , HOH C:1486 , HOH C:1783
BINDING SITE FOR RESIDUE HED C 443
13
BC4
SOFTWARE
PRO C:34 , ASN C:304 , ARG C:305 , HOH C:1470 , HOH C:2205
BINDING SITE FOR RESIDUE HED C 444
14
BC5
SOFTWARE
ARG D:69 , ASP D:76 , ARG D:85 , HIS D:86 , HIS D:87 , PHE D:90 , MET D:92 , TRP D:170 , GLU D:183 , GLU D:209 , ILE D:210 , ASN D:212 , VAL D:214 , ASP D:235 , ALA D:237 , GLY D:239 , ARG D:242 , HOH D:446 , HOH D:453 , HOH D:555 , HOH D:593 , HOH D:1085
BINDING SITE FOR RESIDUE A5A D 442
15
BC6
SOFTWARE
ARG B:396 , ARG B:434 , LYS D:18 , ARG D:60 , ASP D:100 , PHE D:109 , HOH D:687 , HOH D:1879
BINDING SITE FOR RESIDUE HED D 443
16
BC7
SOFTWARE
PRO D:34 , HOH D:2361
BINDING SITE FOR RESIDUE HED D 444
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: AA_TRNA_LIGASE_II_ALA (A:2-441,B:2-441,C:2-441,D:2-441)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
AA_TRNA_LIGASE_II_ALA
PS50860
Alanyl-transfer RNA synthetases family profile.
SYA_ECOLI
3-709
4
A:2-441
B:2-441
C:2-441
D:2-441
[
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Exons
(0, 0)
Info
All Exons
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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
(0, 0)
Info
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein & NOT Site
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Chain A
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Chain C
Chain D
Asymmetric Unit 1
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Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
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Show PDB file:
Asym.Unit (349 KB)
Header - Asym.Unit
Biol.Unit 1 (91 KB)
Header - Biol.Unit 1
Biol.Unit 2 (91 KB)
Header - Biol.Unit 2
Biol.Unit 3 (91 KB)
Header - Biol.Unit 3
Biol.Unit 4 (90 KB)
Header - Biol.Unit 4
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