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1ONW
Biol. Unit 1
Info
Asym.Unit (137 KB)
Biol.Unit 1 (510 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ISOASPARTYL DIPEPTIDASE FROM E. COLI
Authors
:
J. B. Thoden, R. Marti-Arbona, F. M. Raushel, H. M. Holden
Date
:
02 Mar 03 (Deposition) - 06 May 03 (Release) - 16 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (4x)
Keywords
:
Amidohydrolase, Hydrolase, Metalloprotease
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
J. B. Thoden, R. Marti-Arbona, F. M. Raushel, H. M. Holden
High Resolution X-Ray Structure Of Isoaspartyl Dipeptidase From Escherichia Coli
Biochemistry V. 42 4874 2003
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Hetero Components
(2, 20)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
3a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
3b: LYSINE NZ-CARBOXYLIC ACID (KCXb)
4a: MAGNESIUM ION (MGa)
5a: SODIUM ION (NAa)
6a: ZINC ION (ZNa)
6b: ZINC ION (ZNb)
6c: ZINC ION (ZNc)
6d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
EDO
12
Ligand/Ion
1,2-ETHANEDIOL
3
KCX
8
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
4
MG
-1
Ligand/Ion
MAGNESIUM ION
5
NA
-1
Ligand/Ion
SODIUM ION
6
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(12, 12)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:68 , HIS A:70 , KCX A:162 , ASP A:285 , ZN A:801 , HOH A:841
BINDING SITE FOR RESIDUE ZN A 800
02
AC2
SOFTWARE
TYR A:137 , KCX A:162 , HIS A:201 , HIS A:230 , ZN A:800 , HOH A:841
BINDING SITE FOR RESIDUE ZN A 801
03
AC3
SOFTWARE
HIS B:68 , HIS B:70 , KCX B:162 , ASP B:285 , ZN B:803 , HOH B:864
BINDING SITE FOR RESIDUE ZN B 802
04
AC4
SOFTWARE
TYR B:137 , KCX B:162 , HIS B:201 , HIS B:230 , ZN B:802 , HOH B:864
BINDING SITE FOR RESIDUE ZN B 803
05
AC5
SOFTWARE
HOH B:978 , HOH B:979 , HOH B:991 , HOH B:1003
BINDING SITE FOR RESIDUE MG B 804
06
AC6
SOFTWARE
HOH A:886 , GLY B:193 , EDO B:807 , HOH B:869 , HOH B:998 , HOH B:1052 , HOH B:1107
BINDING SITE FOR RESIDUE NA B 805
07
AC7
SOFTWARE
LEU A:89 , GLY A:385 , HOH A:918
BINDING SITE FOR RESIDUE CL A 802
08
AC8
SOFTWARE
ALA B:88 , LEU B:89 , GLY B:385
BINDING SITE FOR RESIDUE CL B 806
09
AC9
SOFTWARE
ASP A:167 , HIS A:168 , ASP A:204
BINDING SITE FOR RESIDUE CL A 803
10
BC1
SOFTWARE
ALA A:153 , LEU A:191 , HOH A:839 , HOH A:964 , ALA B:118 , ARG B:121
BINDING SITE FOR RESIDUE EDO A 804
11
BC2
SOFTWARE
LEU A:117 , ALA A:118 , ARG A:121 , HOH A:848 , HOH A:970 , ALA B:153 , LEU B:191
BINDING SITE FOR RESIDUE EDO A 805
12
BC3
SOFTWARE
TRP B:131 , GLY B:193 , PRO B:195 , ASN B:341 , LEU B:342 , NA B:805 , HOH B:869 , HOH B:989
BINDING SITE FOR RESIDUE EDO B 807
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1onwa1 (A:1-62,A:347-389)
1b: SCOP_d1onwb1 (B:1-62,B:347-389)
2a: SCOP_d1onwa2 (A:63-346)
2b: SCOP_d1onwb2 (B:63-346)
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Protein Domains
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)
(
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Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Composite domain of metallo-dependent hydrolases
(103)
Superfamily
:
Composite domain of metallo-dependent hydrolases
(103)
Family
:
Isoaspartyl dipeptidase
(5)
Protein domain
:
Isoaspartyl dipeptidase
(5)
Escherichia coli [TaxId: 562]
(5)
1a
d1onwa1
A:1-62,A:347-389
1b
d1onwb1
B:1-62,B:347-389
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
Isoaspartyl dipeptidase, catalytic domain
(5)
Protein domain
:
Isoaspartyl dipeptidase, catalytic domain
(5)
Escherichia coli [TaxId: 562]
(5)
2a
d1onwa2
A:63-346
2b
d1onwb2
B:63-346
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1onwB02 (B:64-342)
1b: CATH_1onwA02 (A:64-342)
2a: CATH_1onwA01 (A:1-63,A:343-389)
2b: CATH_1onwB01 (B:1-63,B:343-389)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Metal-dependent hydrolases
(190)
Escherichia coli. Organism_taxid: 562.
(27)
1a
1onwB02
B:64-342
1b
1onwA02
A:64-342
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Urease, subunit C; domain 1
(95)
Homologous Superfamily
:
Urease, subunit C, domain 1
(95)
Escherichia coli. Organism_taxid: 562.
(12)
2a
1onwA01
A:1-63,A:343-389
2b
1onwB01
B:1-63,B:343-389
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Amidohydro_5_1onwB01 (B:28-100)
1b: PFAM_Amidohydro_5_1onwB02 (B:28-100)
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Clan
:
Amidohydrolase
(126)
Family
:
Amidohydro_5
(8)
Escherichia coli (strain K12)
(6)
1a
Amidohydro_5-1onwB01
B:28-100
1b
Amidohydro_5-1onwB02
B:28-100
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Asym.Unit (137 KB)
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