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1WBQ
Asym. Unit
Info
Asym.Unit (306 KB)
Biol.Unit 1 (299 KB)
Biol.Unit 2 (295 KB)
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(1)
Title
:
ZN MG SUBSTITUTED AMINOPEPTIDASE P FROM E. COLI
Authors
:
S. C. Graham, C. S. Bond, H. C. Freeman, J. M. Guss
Date
:
05 Nov 04 (Deposition) - 29 Sep 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (2x)
Biol. Unit 2: C,D (2x)
Keywords
:
Hydrolase, Proline-Specific Peptidase, Metalloenzyme, Pita-Bread Fold, Dinuclear Hydrolase, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
S. C. Graham, C. S. Bond, H. C. Freeman, J. M. Guss
Structural And Functional Implications Of Metal Ion Selection In Aminopeptidase P, A Metalloprotease With A Dinuclear Metal Center.
Biochemistry V. 44 13820 2005
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Hetero Components
(4, 18)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
3a: CYSTEINESULFONIC ACID (OCSa)
3b: CYSTEINESULFONIC ACID (OCSb)
3c: CYSTEINESULFONIC ACID (OCSc)
3d: CYSTEINESULFONIC ACID (OCSd)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
MG
6
Ligand/Ion
MAGNESIUM ION
3
OCS
4
Mod. Amino Acid
CYSTEINESULFONIC ACID
4
ZN
4
Ligand/Ion
ZINC ION
[
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Sites
(14, 14)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:271 , HIS A:354 , THR A:381 , GLU A:383 , GLU A:406 , MG A:1441 , HOH A:2191
BINDING SITE FOR RESIDUE ZN A1440
02
AC2
SOFTWARE
TYR A:229 , ASP A:260 , ASP A:271 , THR A:273 , GLU A:406 , ZN A:1440 , HOH A:2134 , HOH A:2191
BINDING SITE FOR RESIDUE MG A1441
03
AC3
SOFTWARE
ARG A:79 , VAL A:80 , SER A:111
BINDING SITE FOR RESIDUE CL A1442
04
AC4
SOFTWARE
ASP B:271 , HIS B:354 , THR B:381 , GLU B:383 , GLU B:406 , MG B:1441 , HOH B:2285
BINDING SITE FOR RESIDUE ZN B1440
05
AC5
SOFTWARE
TYR B:229 , ASP B:260 , ASP B:271 , THR B:273 , GLU B:406 , ZN B:1440 , HOH B:2198 , HOH B:2285
BINDING SITE FOR RESIDUE MG B1441
06
AC6
SOFTWARE
HOH B:2254 , HOH B:2255 , HOH B:2257 , HOH B:2258 , HOH D:2155 , HOH D:2158
BINDING SITE FOR RESIDUE MG B1442
07
AC7
SOFTWARE
ARG B:79 , VAL B:80 , SER B:111
BINDING SITE FOR RESIDUE CL B1443
08
AC8
SOFTWARE
ASP C:271 , HIS C:354 , THR C:381 , GLU C:383 , GLU C:406 , MG C:1441
BINDING SITE FOR RESIDUE ZN C1440
09
AC9
SOFTWARE
ASP C:260 , ASP C:271 , THR C:273 , GLU C:406 , ZN C:1440
BINDING SITE FOR RESIDUE MG C1441
10
BC1
SOFTWARE
VAL C:80 , PHE C:110 , SER C:111
BINDING SITE FOR RESIDUE CL C1442
11
BC2
SOFTWARE
ASP D:271 , HIS D:354 , THR D:381 , GLU D:383 , GLU D:406 , MG D:1441 , HOH D:2256
BINDING SITE FOR RESIDUE ZN D1440
12
BC3
SOFTWARE
TYR D:229 , ASP D:260 , ASP D:271 , THR D:273 , GLU D:406 , ZN D:1440 , HOH D:2172 , HOH D:2256
BINDING SITE FOR RESIDUE MG D1441
13
BC4
SOFTWARE
HOH B:2184 , HOH D:2062 , HOH D:2225 , HOH D:2228 , HOH D:2231 , HOH D:2232
BINDING SITE FOR RESIDUE MG D1442
14
BC5
SOFTWARE
VAL D:80 , SER D:111
BINDING SITE FOR RESIDUE CL D1443
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: PROLINE_PEPTIDASE (A:350-362,B:350-362,C:350-362,D:35...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROLINE_PEPTIDASE
PS00491
Aminopeptidase P and proline dipeptidase signature.
AMPP_ECOLI
351-363
4
A:350-362
B:350-362
C:350-362
D:350-362
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Exons
(0, 0)
Info
All Exons
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1wbqa2 (A:177-440)
1b: SCOP_d1wbqb2 (B:177-439)
1c: SCOP_d1wbqc2 (C:177-439)
1d: SCOP_d1wbqd2 (D:177-439)
2a: SCOP_d1wbqa1 (A:1-176)
2b: SCOP_d1wbqb1 (B:1-176)
2c: SCOP_d1wbqc1 (C:1-176)
2d: SCOP_d1wbqd1 (D:1-176)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Creatinase/aminopeptidase
(103)
Superfamily
:
Creatinase/aminopeptidase
(103)
Family
:
Creatinase/aminopeptidase
(99)
Protein domain
:
Aminopeptidase P, C-terminal domain
(20)
Escherichia coli [TaxId: 562]
(19)
1a
d1wbqa2
A:177-440
1b
d1wbqb2
B:177-439
1c
d1wbqc2
C:177-439
1d
d1wbqd2
D:177-439
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Creatinase/prolidase N-terminal domain
(30)
Family
:
Creatinase/prolidase N-terminal domain
(29)
Protein domain
:
Aminopeptidase P
(20)
Escherichia coli [TaxId: 562]
(19)
2a
d1wbqa1
A:1-176
2b
d1wbqb1
B:1-176
2c
d1wbqc1
C:1-176
2d
d1wbqd1
D:1-176
[
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1wbqA01 (A:1-173)
1b: CATH_1wbqB01 (B:1-173)
1c: CATH_1wbqC01 (C:1-173)
1d: CATH_1wbqD01 (D:1-173)
2a: CATH_1wbqB02 (B:174-439)
2b: CATH_1wbqC02 (C:174-439)
2c: CATH_1wbqD02 (D:174-439)
2d: CATH_1wbqA02 (A:174-440)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Creatine Amidinohydrolase; Chain A, domain 1
(35)
Homologous Superfamily
:
Creatine Amidinohydrolase, subunit A, domain 1
(35)
Escherichia coli. Organism_taxid: 562.
(4)
1a
1wbqA01
A:1-173
1b
1wbqB01
B:1-173
1c
1wbqC01
C:1-173
1d
1wbqD01
D:1-173
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Creatine Amidinohydrolase
(114)
Homologous Superfamily
:
Creatinase/methionine aminopeptidase superfamily
(114)
Escherichia coli. Organism_taxid: 562.
(14)
2a
1wbqB02
B:174-439
2b
1wbqC02
C:174-439
2c
1wbqD02
D:174-439
2d
1wbqA02
A:174-440
[
close CATH info
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_AMP_N_1wbqD01 (D:3-138)
1b: PFAM_AMP_N_1wbqD02 (D:3-138)
1c: PFAM_AMP_N_1wbqD03 (D:3-138)
1d: PFAM_AMP_N_1wbqD04 (D:3-138)
2a: PFAM_Peptidase_M24_1wbqD05 (D:182-413)
2b: PFAM_Peptidase_M24_1wbqD06 (D:182-413)
2c: PFAM_Peptidase_M24_1wbqD07 (D:182-413)
2d: PFAM_Peptidase_M24_1wbqD08 (D:182-413)
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Organisms
(
)
(
)
Clan
:
AMP_N-like
(22)
Family
:
AMP_N
(11)
Escherichia coli (strain K12)
(10)
1a
AMP_N-1wbqD01
D:3-138
1b
AMP_N-1wbqD02
D:3-138
1c
AMP_N-1wbqD03
D:3-138
1d
AMP_N-1wbqD04
D:3-138
Clan
:
no clan defined [family: Peptidase_M24]
(23)
Family
:
Peptidase_M24
(23)
Escherichia coli (strain K12)
(10)
2a
Peptidase_M24-1wbqD05
D:182-413
2b
Peptidase_M24-1wbqD06
D:182-413
2c
Peptidase_M24-1wbqD07
D:182-413
2d
Peptidase_M24-1wbqD08
D:182-413
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