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3PCO
Asym. Unit
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Asym.Unit (702 KB)
Biol.Unit 1 (694 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF E. COLI PHENYLALANINE-TRNA SYNTHETASE COMPLEXED WITH PHENYLALANINE AND AMP
Authors
:
I. Mermershtain, I. Finarov, L. Klipcan, N. Kessler, H. Rozenberg, M. G
Date
:
21 Oct 10 (Deposition) - 02 Mar 11 (Release) - 02 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.02
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Aminoacylation, Trna-Binding, Dna-Binding Domain, Four-Helix Bundle, Aminoacyl-Trna Synthetase, Atp-Binding, Ligase, Nucleotide-Binding, Protein Biosynthesis
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
I. Mermershtain, I. Finarov, L. Klipcan, N. Kessler, H. Rozenberg, M. G. Safro
Idiosyncrasy And Identity In The Prokaryotic Phe-System: Crystal Structure Of E. Coli Phenylalanyl-Trna Synthetase Complexed With Phenylalanine And Amp.
Protein Sci. V. 20 160 2011
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: ADENOSINE MONOPHOSPHATE (AMPa)
1b: ADENOSINE MONOPHOSPHATE (AMPb)
2a: PHENYLALANINE (PHEa)
2b: PHENYLALANINE (PHEb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AMP
2
Ligand/Ion
ADENOSINE MONOPHOSPHATE
2
PHE
2
Mod. Amino Acid
PHENYLALANINE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:169 , SER A:171 , GLN A:208 , GLU A:210 , PHE A:248 , PHE A:250 , GLY A:271 , CYS A:272 , PHE A:295 , GLY A:296 , AMP A:992
BINDING SITE FOR RESIDUE PHE A 980
2
AC2
SOFTWARE
GLN C:169 , SER C:171 , ARG C:195 , GLN C:208 , GLU C:210 , PHE C:248 , GLY C:271 , CYS C:272 , GLY C:273 , ALA C:294 , PHE C:295 , GLY C:296 , AMP C:999
BINDING SITE FOR RESIDUE PHE C 990
3
AC3
SOFTWARE
ARG A:195 , HIS A:202 , THR A:203 , PHE A:206 , GLN A:208 , GLU A:268 , ARG A:301 , LEU A:312 , PHE A:980
BINDING SITE FOR RESIDUE AMP A 992
4
AC4
SOFTWARE
ARG C:195 , THR C:201 , HIS C:202 , THR C:203 , PHE C:206 , GLN C:208 , GLU C:268 , ARG C:301 , LEU C:312 , PHE C:990
BINDING SITE FOR RESIDUE AMP C 999
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_SYFA_ECOLI_001 (G98D, chain A/C, )
2: VAR_SYFA_ECOLI_002 (G191D, chain A/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_SYFA_ECOLI_001
*
G
98
D
SYFA_ECOLI
---
---
A/C
G
98
D
2
UniProt
VAR_SYFA_ECOLI_002
*
G
191
D
SYFA_ECOLI
---
---
A/C
G
191
D
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: TRBD (B:39-148,D:39-148)
2: B5 (B:401-476,D:401-476)
3: FDX_ACB (B:701-794,D:701-794)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRBD
PS50886
tRNA-binding domain profile.
SYFB_ECOLI
39-148
2
B:39-148
D:39-148
2
B5
PS51483
B5 domain profile.
SYFB_ECOLI
401-476
2
B:401-476
D:401-476
3
FDX_ACB
PS51447
Ferredoxin-fold anticodon binding (FDX-ACB) domain profile.
SYFB_ECOLI
701-794
2
B:701-794
D:701-794
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(2, 3)
Info
All SCOP Domains
1a: SCOP_d3pcoc1 (C:5-90)
2a: SCOP_d3pcoa_ (A:)
2b: SCOP_d3pcoc2 (C:91-327)
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Classes
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Folds
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Protein Domains
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(
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Organisms
(
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(
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Class
:
All alpha proteins
(14657)
Fold
:
Long alpha-hairpin
(315)
Superfamily
:
tRNA-binding arm
(11)
Family
:
automated matches
(1)
Protein domain
:
automated matches
(1)
Escherichia coli [TaxId: 562]
(1)
1a
d3pcoc1
C:5-90
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Class II aaRS and biotin synthetases
(165)
Superfamily
:
Class II aaRS and biotin synthetases
(165)
Family
:
automated matches
(17)
Protein domain
:
automated matches
(17)
Escherichia coli [TaxId: 562]
(1)
2a
d3pcoa_
A:
2b
d3pcoc2
C:91-327
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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Pfam Domains
(4, 8)
Info
all PFAM domains
1a: PFAM_tRNA_bind_3pcoD01 (D:45-146)
1b: PFAM_tRNA_bind_3pcoD02 (D:45-146)
2a: PFAM_B3_4_3pcoD03 (D:212-385)
2b: PFAM_B3_4_3pcoD04 (D:212-385)
3a: PFAM_B5_3pcoD05 (D:403-471)
3b: PFAM_B5_3pcoD06 (D:403-471)
4a: PFAM_FDX_ACB_3pcoD07 (D:701-794)
4b: PFAM_FDX_ACB_3pcoD08 (D:701-794)
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Clans
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Families
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(
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Organisms
(
)
(
)
Clan
:
OB
(224)
Family
:
tRNA_bind
(10)
Escherichia coli (strain K12)
(1)
1a
tRNA_bind-3pcoD01
D:45-146
1b
tRNA_bind-3pcoD02
D:45-146
Clan
:
PheT-TilS
(7)
Family
:
B3_4
(6)
Escherichia coli (strain K12)
(1)
2a
B3_4-3pcoD03
D:212-385
2b
B3_4-3pcoD04
D:212-385
Clan
:
no clan defined [family: B5]
(6)
Family
:
B5
(6)
Escherichia coli (strain K12)
(1)
3a
B5-3pcoD05
D:403-471
3b
B5-3pcoD06
D:403-471
Clan
:
no clan defined [family: FDX-ACB]
(5)
Family
:
FDX-ACB
(5)
Escherichia coli (strain K12)
(1)
4a
FDX-ACB-3pcoD07
D:701-794
4b
FDX-ACB-3pcoD08
D:701-794
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Asym.Unit (702 KB)
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