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3QV4
Asym. Unit
Info
Asym.Unit (122 KB)
Biol.Unit 1 (116 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE COMPLEX OF PEPTIDOGLYCAN RECOGNITION PROTEIN (PGRP-S) WITH DIPEPTIDE L-ALA D-GLU AT 2.7 A RESOLUTION
Authors
:
P. K. Shukla, P. Sharma, M. Sinha, P. Kaur, S. Sharma, T. P. Singh
Date
:
25 Feb 11 (Deposition) - 30 Mar 11 (Release) - 30 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Immune Response, Secreted, Antimicrobial, Pgrp, Antibiotic, Peptidoglycan Binding, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. K. Shukla, P. Sharma, M. Sinha, P. Kaur, S. Sharma, T. P. Singh
Crystal Structure Of The Complex Of Peptidoglycan Recognition Protein (Pgrp-S) With Dipeptide L-Ala D-Glu At 2. 7 A Resolution
To Be Published
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Hetero Components
(7, 11)
Info
All Hetero Components
1a: ALANINE (ALAa)
2a: TRIACETYLCHITOTRIOSE (CTOa)
3a: D-GLUTAMIC ACID (DGLa)
4a: 1,2-ETHANEDIOL (EDOa)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
6a: DI(HYDROXYETHYL)ETHER (PEGa)
7a: S,R MESO-TARTARIC ACID (SRTa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ALA
1
Mod. Amino Acid
ALANINE
2
CTO
1
Ligand/Ion
TRIACETYLCHITOTRIOSE
3
DGL
1
Ligand/Ion
D-GLUTAMIC ACID
4
EDO
1
Ligand/Ion
1,2-ETHANEDIOL
5
GOL
5
Ligand/Ion
GLYCEROL
6
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
7
SRT
1
Ligand/Ion
S,R MESO-TARTARIC ACID
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Sites
(10, 10)
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)
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:77 , ARG A:114 , ARG A:119
BINDING SITE FOR RESIDUE GOL A 172
02
AC2
SOFTWARE
SER A:139 , TRP D:98 , ILE D:101
BINDING SITE FOR RESIDUE GOL A 174
03
AC3
SOFTWARE
THR A:38 , VAL A:56 , HOH A:273 , HOH A:288 , HOH A:295 , HOH A:300
BINDING SITE FOR RESIDUE GOL A 175
04
AC4
SOFTWARE
ALA A:129 , HOH A:197
BINDING SITE FOR RESIDUE EDO A 3318
05
AC5
SOFTWARE
HIS B:37 , THR B:38 , ALA B:39 , HIS B:60 , TYR B:71 , ASN B:110 , LEU B:153 , ASP C:2
BINDING SITE FOR RESIDUE CTO B 2735
06
AC6
SOFTWARE
HOH A:197 , ASP B:2 , ALA B:5 , ARG D:31 , ARG D:138
BINDING SITE FOR RESIDUE PEG B 6073
07
AC7
SOFTWARE
ASN A:140 , TRP C:66 , DGL C:2992 , THR D:97
BINDING SITE FOR RESIDUE ALA C 2991
08
AC8
SOFTWARE
TRP C:66 , ARG C:85 , GLY C:91 , ALA C:92 , HOH C:184 , ALA C:2991 , PRO D:96 , GLN D:150
BINDING SITE FOR RESIDUE DGL C 2992
09
AC9
SOFTWARE
PRO C:151 , THR C:152 , HIS D:37 , ALA D:39 , TYR D:71 , HIS D:146 , SRT D:172
BINDING SITE FOR RESIDUE GOL D 503
10
BC1
SOFTWARE
HIS C:37 , ALA C:39 , THR C:152 , LEU C:153 , HIS D:37 , ALA D:39 , LEU D:153 , SER D:154 , HOH D:190 , GOL D:503
BINDING SITE FOR RESIDUE SRT D 172
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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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, 4)
Info
All SCOP Domains
1a: SCOP_d3qv4a_ (A:)
1b: SCOP_d3qv4b_ (B:)
1c: SCOP_d3qv4c_ (C:)
1d: SCOP_d3qv4d_ (D:)
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Protein Domains
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(
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Organisms
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)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
N-acetylmuramoyl-L-alanine amidase-like
(59)
Superfamily
:
N-acetylmuramoyl-L-alanine amidase-like
(59)
Family
:
N-acetylmuramoyl-L-alanine amidase-like
(53)
Protein domain
:
automated matches
(30)
Camel (Camelus dromedarius) [TaxId: 9838]
(27)
1a
d3qv4a_
A:
1b
d3qv4b_
B:
1c
d3qv4c_
C:
1d
d3qv4d_
D:
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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
(1, 4)
Info
all PFAM domains
1a: PFAM_Amidase_2_3qv4D01 (D:22-158)
1b: PFAM_Amidase_2_3qv4D02 (D:22-158)
1c: PFAM_Amidase_2_3qv4D03 (D:22-158)
1d: PFAM_Amidase_2_3qv4D04 (D:22-158)
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Clans
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Clan
:
no clan defined [family: Amidase_2]
(23)
Family
:
Amidase_2
(23)
Camelus dromedarius (Dromedary) (Arabian camel)
(12)
1a
Amidase_2-3qv4D01
D:22-158
1b
Amidase_2-3qv4D02
D:22-158
1c
Amidase_2-3qv4D03
D:22-158
1d
Amidase_2-3qv4D04
D:22-158
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Asymmetric Unit 1
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