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4E36
Biol. Unit 2
Info
Asym.Unit (302 KB)
Biol.Unit 1 (150 KB)
Biol.Unit 2 (149 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HUMAN ENDOPLASMIC RETICULUM AMINOPEPTIDASE 2 VARIANT N392K
Authors
:
J. R. Birtley, E. Saridakis, P. Pegias, E. Stratikos, I. M. Mavridis
Date
:
09 Mar 12 (Deposition) - 29 Aug 12 (Release) - 17 Oct 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.22
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Thermolysin-Like Catalytic Domain, Hydrolase, Aminopeptidase, Zinc Binding, Glycosylation, Endoplasmic Reticulum
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. Evnouchidou, J. Birtley, S. Seregin, A. Papakyriakou, E. Zervoudi M. Samiotaki, G. Panayotou, P. Giastas, O. Petrakis, D. Georgiadis, A. Amalfitano, E. Saridakis, I. M. Mavridis, E. Stratikos
A Common Single Nucleotide Polymorphism In Endoplasmic Reticulum Aminopeptidase 2 Induces A Specificity Switch Tha Leads To Altered Antigen Processing.
J. Immunol. V. 189 2383 2012
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Hetero Components
(4, 9)
Info
All Hetero Components
1a: LYSINE (LYSa)
1b: LYSINE (LYSb)
2a: ALPHA-D-MANNOSE (MANa)
2b: ALPHA-D-MANNOSE (MANb)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
3b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
LYS
1
Mod. Amino Acid
LYSINE
2
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
3
MES
1
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4
NAG
5
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(10, 10)
Info
All Sites
01: BC2 (SOFTWARE)
02: BC3 (SOFTWARE)
03: BC4 (SOFTWARE)
04: BC5 (SOFTWARE)
05: BC6 (SOFTWARE)
06: BC7 (SOFTWARE)
07: BC8 (SOFTWARE)
08: BC9 (SOFTWARE)
09: CC1 (SOFTWARE)
10: CC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
BC2
SOFTWARE
ARG A:293 , MAN B:1002 , NAG B:1004 , HOH B:1135
BINDING SITE FOR RESIDUE MAN B 1001
02
BC3
SOFTWARE
MAN B:1001
BINDING SITE FOR RESIDUE MAN B 1002
03
BC4
SOFTWARE
HIS B:83 , ASN B:85 , GLU B:227 , NAG B:1004
BINDING SITE FOR RESIDUE NAG B 1003
04
BC5
SOFTWARE
ARG A:293 , MAN B:1001 , NAG B:1003
BINDING SITE FOR RESIDUE NAG B 1004
05
BC6
SOFTWARE
ASP B:198 , GLU B:200 , PRO B:333 , GLU B:337 , HIS B:370 , GLU B:371 , HIS B:374 , LYS B:392 , GLU B:393 , TYR B:455 , ZN B:1006 , MES B:1010 , HOH B:1122
BINDING SITE FOR RESIDUE LYS B 1005
06
BC7
SOFTWARE
HIS B:370 , HIS B:374 , GLU B:393 , LYS B:1005
BINDING SITE FOR RESIDUE ZN B 1006
07
BC8
SOFTWARE
HIS B:77 , ASN B:219 , VAL B:257 , LYS B:258 , NAG B:1008
BINDING SITE FOR RESIDUE NAG B 1007
08
BC9
SOFTWARE
NAG B:1007
BINDING SITE FOR RESIDUE NAG B 1008
09
CC1
SOFTWARE
ASN B:431
BINDING SITE FOR RESIDUE NAG B 1009
10
CC2
SOFTWARE
PRO B:333 , GLY B:334 , ASP B:451 , GLU B:452 , TYR B:455 , TYR B:892 , LYS B:1005
BINDING SITE FOR RESIDUE MES B 1010
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SAPs(SNPs)/Variants
(4, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_038285 (P214L, chain B, )
2: VAR_038286 (K392N, chain B, )
3: VAR_051569 (L411R, chain B, )
4: VAR_038287 (L669Q, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_038285
P
214
L
ERAP2_HUMAN
Polymorphism
3733905
B
P
214
L
2
UniProt
VAR_038286
K
392
N
ERAP2_HUMAN
Polymorphism
2549782
B
K
392
N
3
UniProt
VAR_051569
L
411
R
ERAP2_HUMAN
Polymorphism
34261036
B
L
411
R
4
UniProt
VAR_038287
L
669
Q
ERAP2_HUMAN
Polymorphism
17408150
B
L
669
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZINC_PROTEASE (B:367-376)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZINC_PROTEASE
PS00142
Neutral zinc metallopeptidases, zinc-binding region signature.
ERAP2_HUMAN
367-376
1
-
B:367-376
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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.
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SCOP Domains
(0, 0)
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CATH Domains
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Pfam Domains
(0, 0)
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Chain B
Asymmetric Unit 1
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Asym.Unit (302 KB)
Header - Asym.Unit
Biol.Unit 1 (150 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
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