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3B3C
Asym. Unit
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Asym.Unit (57 KB)
Biol.Unit 1 (52 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE M180A MUTANT OF THE AMINOPEPTIDASE FROM VIBRIO PROTEOLYTICUS IN COMPLEX WITH LEUCINE PHOSPHONIC ACID
Authors
:
N. J. Ataie, Q. Q. Hoang, G. A. Petsko, D. Ringe
Date
:
19 Oct 07 (Deposition) - 27 Nov 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.46
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Alpha Beta, Aminopeptidase, Hydrolase, Metal-Binding, Protease, Secreted, Zinc, Zymogen
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
N. J. Ataie, Q. Q. Hoang, M. P. Zahniser, Y. Tu, A. Milne, G. A. Petsko, D. Ringe
Zinc Coordination Geometry And Ligand Binding Affinity: The Structural And Kinetic Analysis Of The Second-Shell Serine 228 Residue And The Methionine 180 Residue Of The Aminopeptidase From Vibrio Proteolyticus.
Biochemistry V. 47 7673 2008
(for further references see the
PDB file header
)
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Hetero Components
(5, 11)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
2e: SODIUM ION (NAe)
2f: SODIUM ION (NAf)
3a: LEUCINE PHOSPHONIC ACID (PLUa)
4a: THIOCYANATE ION (SCNa)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
View:
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No.
Name
Count
Type
Full Name
1
K
1
Ligand/Ion
POTASSIUM ION
2
NA
6
Ligand/Ion
SODIUM ION
3
PLU
1
Ligand/Ion
LEUCINE PHOSPHONIC ACID
4
SCN
1
Ligand/Ion
THIOCYANATE ION
5
ZN
2
Ligand/Ion
ZINC ION
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Sites
(11, 11)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:117 , GLU A:152 , HIS A:256 , PLU A:500
BINDING SITE FOR RESIDUE ZN A 501
02
AC2
SOFTWARE
HIS A:97 , ASP A:117 , ASP A:179 , PLU A:500
BINDING SITE FOR RESIDUE ZN A 502
03
AC3
SOFTWARE
GLU A:151 , CYS A:227 , PLU A:500 , HOH A:672 , HOH A:680
BINDING SITE FOR RESIDUE K A 600
04
AC4
SOFTWARE
THR A:194 , THR A:202 , GLN A:203 , LEU A:262 , HOH A:641
BINDING SITE FOR RESIDUE SCN A 601
05
AC5
SOFTWARE
GLN A:6 , THR A:9
BINDING SITE FOR RESIDUE NA A 602
06
AC6
SOFTWARE
GLY A:24 , SER A:27 , SER A:28 , ASN A:200 , HOH A:806
BINDING SITE FOR RESIDUE NA A 603
07
AC7
SOFTWARE
TYR A:73 , ASN A:74
BINDING SITE FOR RESIDUE NA A 604
08
AC8
SOFTWARE
ALA A:55 , SER A:71 , HOH A:704
BINDING SITE FOR RESIDUE NA A 605
09
AC9
SOFTWARE
LEU A:213 , PRO A:214 , SER A:215 , HOH A:852
BINDING SITE FOR RESIDUE NA A 606
10
BC1
SOFTWARE
ALA A:19 , LYS A:273
BINDING SITE FOR RESIDUE NA A 607
11
BC2
SOFTWARE
HIS A:97 , ASP A:117 , GLU A:151 , GLU A:152 , ASP A:179 , CYS A:227 , PHE A:248 , TYR A:251 , HIS A:256 , ZN A:501 , ZN A:502 , K A:600 , HOH A:645 , HOH A:662 , HOH A:713
BINDING SITE FOR RESIDUE PLU A 500
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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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.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3b3ca_ (A:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Phosphorylase/hydrolase-like
(558)
Superfamily
:
Zn-dependent exopeptidases
(214)
Family
:
Bacterial dinuclear zinc exopeptidases
(55)
Protein domain
:
Aminopeptidase
(22)
Aeromonas proteolytica [TaxId: 671]
(17)
1a
d3b3ca_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3b3cA00 (A:1-291)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aminopeptidase
(284)
Homologous Superfamily
:
Zn peptidases
(137)
Vibrio proteolyticus. Organism_taxid: 671. Strain: dsm 30189 / ifo 13287 / lmg 3772 / ncimb 1326.
(7)
1a
3b3cA00
A:1-291
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Pfam Domains
(0, 0)
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Chain A
Asymmetric Unit 1
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