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2EAV
Asym. Unit
Info
Asym.Unit (59 KB)
Biol.Unit 1 (55 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE C-TERMINAL PEPTIDOGLYCAN-BINDING DOMAIN OF HUMAN PEPTIDOGLYCAN RECOGNITION PROTEIN IBETA
Authors
:
S. Cho, R. A. Mariuzza
Date
:
03 Feb 07 (Deposition) - 18 Sep 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Alpha/Beta Mix, Sugar Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Cho, Q. Wang, C. P. Swaminathan, D. Hesek, M. Lee, G. J. Boons, S. Mobashery, R. A. Mariuzza
Structural Insights Into The Bactericidal Mechanism Of Huma Peptidoglycan Recognition Proteins
Proc. Natl. Acad. Sci. Usa V. 104 8761 2007
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: NICKEL (II) ION (NIa)
1b: NICKEL (II) ION (NIb)
1c: NICKEL (II) ION (NIc)
1d: NICKEL (II) ION (NId)
1e: NICKEL (II) ION (NIe)
1f: NICKEL (II) ION (NIf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NI
6
Ligand/Ion
NICKEL (II) ION
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ARG A:353 , HIS A:370 , HOH B:114 , ASP B:328 , GLN B:331
BINDING SITE FOR RESIDUE NI B 500
2
AC2
SOFTWARE
CYS A:210 , ASP A:328 , HIS B:370
BINDING SITE FOR RESIDUE NI A 501
3
AC3
SOFTWARE
HOH B:41 , ILE B:239 , HIS B:348 , SER B:356
BINDING SITE FOR RESIDUE NI B 502
4
AC4
SOFTWARE
ASN A:247 , GLU A:251 , HIS B:225
BINDING SITE FOR RESIDUE NI B 503
5
AC5
SOFTWARE
HIS A:373 , GLU B:324
BINDING SITE FOR RESIDUE NI A 504
6
AC6
SOFTWARE
GLU A:324 , PHE B:371 , HIS B:373
BINDING SITE FOR RESIDUE NI B 505
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_031588 (I213I, chain A/B, )
2: VAR_031589 (D301N, chain A/B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_031588
V
213
I
PGRP4_HUMAN
Polymorphism
12063091
A/B
I
213
I
2
UniProt
VAR_031589
D
301
N
PGRP4_HUMAN
Polymorphism
35347202
A/B
D
301
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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Exons
(3, 6)
Info
All Exons
Exon 1.7 (A:210-275 | B:210-275)
Exon 1.8 (A:275-315 | B:275-315)
Exon 1.9 (A:315-373 | B:315-373)
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All Exon Boundaries
1: Boundary 1.6/1.7
2: Boundary 1.7/1.8
3: Boundary 1.8/1.9
4: Boundary 1.9/-
View:
Label:
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
1.1b
ENST00000359650
1b
ENSE00001912151
chr1:
153321022-153321004
19
PGRP4_HUMAN
-
0
0
-
-
1.2
ENST00000359650
2
ENSE00002157762
chr1:
153320454-153320360
95
PGRP4_HUMAN
1-17
17
0
-
-
1.3
ENST00000359650
3
ENSE00001176998
chr1:
153318667-153318578
90
PGRP4_HUMAN
17-47
31
0
-
-
1.4a
ENST00000359650
4a
ENSE00001409622
chr1:
153317858-153317645
214
PGRP4_HUMAN
47-118
72
0
-
-
1.5
ENST00000359650
5
ENSE00001784702
chr1:
153315684-153315566
119
PGRP4_HUMAN
118-158
41
0
-
-
1.6
ENST00000359650
6
ENSE00001072550
chr1:
153314255-153314103
153
PGRP4_HUMAN
158-209
52
0
-
-
1.7
ENST00000359650
7
ENSE00001426683
chr1:
153313055-153312857
199
PGRP4_HUMAN
209-275
67
2
A:210-275
B:210-275
66
66
1.8
ENST00000359650
8
ENSE00001202772
chr1:
153309775-153309657
119
PGRP4_HUMAN
275-315
41
2
A:275-315
B:275-315
41
41
1.9
ENST00000359650
9
ENSE00001512647
chr1:
153303421-153302596
826
PGRP4_HUMAN
315-373
59
2
A:315-373
B:315-373
59
59
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2eava_ (A:)
1b: SCOP_d2eavb_ (B:)
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Classes
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d2eava_
A:
1b
d2eavb_
B:
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CATH Domains
(0, 0)
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all CATH domains
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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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Asymmetric Unit 1
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