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2PNL
Biol. Unit 5
Info
Asym.Unit (339 KB)
Biol.Unit 1 (39 KB)
Biol.Unit 10 (39 KB)
Biol.Unit 2 (40 KB)
Biol.Unit 3 (40 KB)
Biol.Unit 4 (39 KB)
Biol.Unit 5 (40 KB)
Biol.Unit 6 (38 KB)
Biol.Unit 7 (38 KB)
Biol.Unit 8 (40 KB)
Biol.Unit 9 (39 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF VP4 PROTEASE FROM INFECTIOUS PANCREATIC NECROSIS VIRUS (IPNV) IN SPACE GROUP P1
Authors
:
M. Paetzel, J. Lee, A. R. Feldman, B. Delmas
Date
:
24 Apr 07 (Deposition) - 05 Jun 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.21
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: I (1x)
Biol. Unit 10: J (1x)
Keywords
:
Acyl-Enzyme, Protease, Ser/Lys Dyad, Viral Protease, Substrate Complex, Product Complex, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Lee, A. R. Feldman, B. Delmas, M. Paetzel
Crystal Structure Of The Vp4 Protease From Infectious Pancreatic Necrosis Virus Reveals The Acyl-Enzyme Complex For An Intermolecular Self-Cleavage Reaction.
J. Biol. Chem. V. 282 24928 2007
(for further references see the
PDB file header
)
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: GUANIDINE (GAIa)
1b: GUANIDINE (GAIb)
1c: GUANIDINE (GAIc)
1d: GUANIDINE (GAId)
1e: GUANIDINE (GAIe)
1f: GUANIDINE (GAIf)
1g: GUANIDINE (GAIg)
1h: GUANIDINE (GAIh)
1i: GUANIDINE (GAIi)
1j: GUANIDINE (GAIj)
1k: GUANIDINE (GAIk)
1l: GUANIDINE (GAIl)
1m: GUANIDINE (GAIm)
1n: GUANIDINE (GAIn)
1o: GUANIDINE (GAIo)
1p: GUANIDINE (GAIp)
1q: GUANIDINE (GAIq)
2a: SELENOMETHIONINE (MSEa)
2aa: SELENOMETHIONINE (MSEaa)
2ab: SELENOMETHIONINE (MSEab)
2ac: SELENOMETHIONINE (MSEac)
2ad: SELENOMETHIONINE (MSEad)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
2x: SELENOMETHIONINE (MSEx)
2y: SELENOMETHIONINE (MSEy)
2z: SELENOMETHIONINE (MSEz)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GAI
2
Ligand/Ion
GUANIDINE
2
MSE
3
Mod. Amino Acid
SELENOMETHIONINE
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: BC1 (SOFTWARE)
3: BC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU A:524 , ASN A:528 , HIS A:547 , HOH A:2006 , HOH A:2037 , HOH A:2039 , HOH E:2033
BINDING SITE FOR RESIDUE GAI A 2002
2
BC1
SOFTWARE
LEU E:524 , ASN E:528 , HIS E:547 , PHE E:557 , HOH E:2016 , HOH E:2018 , HOH E:2044 , HOH E:2104
BINDING SITE FOR RESIDUE GAI E 2007
3
BC2
SOFTWARE
HIS E:581 , PRO J:536 , ASN J:616 , ASN J:618 , HOH J:2026
BINDING SITE FOR RESIDUE GAI E 2015
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_POLS_IPNVS_027 (P565R, chain E, )
2: VAR_POLS_IPNVS_028 (D672A, chain E, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_POLS_IPNVS_027
*
P
565
R
POLS_IPNVS
---
---
E
P
565
R
2
UniProt
VAR_POLS_IPNVS_028
*
D
672
A
POLS_IPNVS
---
---
E
D
672
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(, 0)
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;
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
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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, 10)
Info
all PFAM domains
1a: PFAM_Birna_VP4_2pnlJ01 (J:514-706)
1b: PFAM_Birna_VP4_2pnlJ02 (J:514-706)
1c: PFAM_Birna_VP4_2pnlJ03 (J:514-706)
1d: PFAM_Birna_VP4_2pnlJ04 (J:514-706)
1e: PFAM_Birna_VP4_2pnlJ05 (J:514-706)
1f: PFAM_Birna_VP4_2pnlJ06 (J:514-706)
1g: PFAM_Birna_VP4_2pnlJ07 (J:514-706)
1h: PFAM_Birna_VP4_2pnlJ08 (J:514-706)
1i: PFAM_Birna_VP4_2pnlJ09 (J:514-706)
1j: PFAM_Birna_VP4_2pnlJ10 (J:514-706)
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(
)
Clan
:
no clan defined [family: Birna_VP4]
(2)
Family
:
Birna_VP4
(2)
Infectious pancreatic necrosis virus (strain Sp) (IPNV)
(2)
1a
Birna_VP4-2pnlJ01
J:514-706
1b
Birna_VP4-2pnlJ02
J:514-706
1c
Birna_VP4-2pnlJ03
J:514-706
1d
Birna_VP4-2pnlJ04
J:514-706
1e
Birna_VP4-2pnlJ05
J:514-706
1f
Birna_VP4-2pnlJ06
J:514-706
1g
Birna_VP4-2pnlJ07
J:514-706
1h
Birna_VP4-2pnlJ08
J:514-706
1i
Birna_VP4-2pnlJ09
J:514-706
1j
Birna_VP4-2pnlJ10
J:514-706
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Chain E
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (339 KB)
Header - Asym.Unit
Biol.Unit 1 (39 KB)
Header - Biol.Unit 1
Biol.Unit 10 (39 KB)
Header - Biol.Unit 10
Biol.Unit 2 (40 KB)
Header - Biol.Unit 2
Biol.Unit 3 (40 KB)
Header - Biol.Unit 3
Biol.Unit 4 (39 KB)
Header - Biol.Unit 4
Biol.Unit 5 (40 KB)
Header - Biol.Unit 5
Biol.Unit 6 (38 KB)
Header - Biol.Unit 6
Biol.Unit 7 (38 KB)
Header - Biol.Unit 7
Biol.Unit 8 (40 KB)
Header - Biol.Unit 8
Biol.Unit 9 (39 KB)
Header - Biol.Unit 9
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