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1YBQ
Biol. Unit 1
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Asym.Unit (129 KB)
Biol.Unit 1 (483 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ESCHERICHIA COLI ISOASPARTYL DIPEPTIDASE MUTANT D285N COMPLEXED WITH BETA-ASPARTYLHISTIDINE
Authors
:
R. Marti-Arbona, V. Fresquet, J. B. Thoden, M. L. Davis, H. M. Holden, F.
Date
:
21 Dec 04 (Deposition) - 26 Apr 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (4x)
Keywords
:
Hydrolase, Dipeptidase
(Keyword Search:
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Reference
:
R. Marti-Arbona, V. Fresquet, J. B. Thoden, M. L. Davis, H. M. Holden, F. M. Raushel
Mechanism Of The Reaction Catalyzed By Isoaspartyl Dipeptidase From Escherichia Coli.
Biochemistry V. 44 7115 2005
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Hetero Components
(2, 12)
Info
All Hetero Components
1a: L-BETA-ASPARTYLHISTIDINE (BDHa)
1b: L-BETA-ASPARTYLHISTIDINE (BDHb)
2a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
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No.
Name
Count
Type
Full Name
1
BDH
8
Ligand/Ion
L-BETA-ASPARTYLHISTIDINE
2
KCX
4
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
3
ZN
-1
Ligand/Ion
ZINC 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)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:68 , HIS A:70 , ASN A:285 , ZN A:392 , BDH A:393 , HOH A:508
BINDING SITE FOR RESIDUE ZN A 391
2
AC2
SOFTWARE
TYR A:137 , HIS A:201 , HIS A:230 , ZN A:391 , BDH A:393 , HOH A:508
BINDING SITE FOR RESIDUE ZN A 392
3
AC3
SOFTWARE
GLY A:74 , GLY A:75 , GLU A:77 , GLY A:105 , THR A:106 , TYR A:137 , ARG A:169 , HIS A:201 , ARG A:233 , ASN A:285 , GLY A:288 , SER A:289 , PRO A:291 , ZN A:391 , ZN A:392 , HOH A:414
BINDING SITE FOR RESIDUE BDH A 393
4
AC4
SOFTWARE
HIS B:68 , HIS B:70 , KCX B:162 , ASN B:285 , ZN B:392 , BDH B:393
BINDING SITE FOR RESIDUE ZN B 391
5
AC5
SOFTWARE
TYR B:137 , KCX B:162 , HIS B:201 , HIS B:230 , ZN B:391 , BDH B:393
BINDING SITE FOR RESIDUE ZN B 392
6
AC6
SOFTWARE
HIS B:70 , GLY B:74 , GLY B:75 , GLU B:77 , GLY B:105 , THR B:106 , TYR B:137 , KCX B:162 , ARG B:169 , HIS B:201 , HIS B:230 , ARG B:233 , ASN B:285 , SER B:289 , PRO B:291 , ZN B:391 , ZN B:392 , HOH B:483
BINDING SITE FOR RESIDUE BDH B 393
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SAPs(SNPs)/Variants
(0, 0)
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PROSITE Patterns/Profiles
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Exons
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SCOP Domains
(0, 0)
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1ybqA02 (A:64-342)
1b: CATH_1ybqB02 (B:64-342)
2a: CATH_1ybqA01 (A:1-63,A:343-389)
2b: CATH_1ybqB01 (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
1ybqA02
A:64-342
1b
1ybqB02
B: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
1ybqA01
A:1-63,A:343-389
2b
1ybqB01
B:1-63,B:343-389
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Amidohydro_5_1ybqB01 (B:28-100)
1b: PFAM_Amidohydro_5_1ybqB02 (B:28-100)
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(
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Organisms
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)
(
)
Clan
:
Amidohydrolase
(126)
Family
:
Amidohydro_5
(8)
Escherichia coli (strain K12)
(6)
1a
Amidohydro_5-1ybqB01
B:28-100
1b
Amidohydro_5-1ybqB02
B:28-100
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Asym.Unit (129 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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