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1GYT
Biol. Unit 1
Info
Asym.Unit (1012 KB)
Biol.Unit 1 (509 KB)
Biol.Unit 2 (509 KB)
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(1)
Title
:
E. COLI AMINOPEPTIDASE A (PEPA)
Authors
:
N. Straeter
Date
:
29 Apr 02 (Deposition) - 06 Jun 02 (Release) - 12 Jul 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Keywords
:
Hydrolase, Peptidase, Dna Recombination, Aminopeptidase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Straeter, D. J. Sherratt, S. D. Colloms
X-Ray Structure Of Aminopeptidase A From Escherichia Coli And A Model For The Nucleoprotein Complex In Xer Site-Specific Recombination
Embo J. V. 18 4513 1999
[
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: CARBONATE ION (CO3a)
2b: CARBONATE ION (CO3b)
2c: CARBONATE ION (CO3c)
2d: CARBONATE ION (CO3d)
2e: CARBONATE ION (CO3e)
2f: CARBONATE ION (CO3f)
2g: CARBONATE ION (CO3g)
2h: CARBONATE ION (CO3h)
2i: CARBONATE ION (CO3i)
2j: CARBONATE ION (CO3j)
2k: CARBONATE ION (CO3k)
2l: CARBONATE ION (CO3l)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
3i: ZINC ION (ZNi)
3j: ZINC ION (ZNj)
3k: ZINC ION (ZNk)
3l: ZINC ION (ZNl)
3m: ZINC ION (ZNm)
3n: ZINC ION (ZNn)
3o: ZINC ION (ZNo)
3p: ZINC ION (ZNp)
3q: ZINC ION (ZNq)
3r: ZINC ION (ZNr)
3s: ZINC ION (ZNs)
3t: ZINC ION (ZNt)
3u: ZINC ION (ZNu)
3v: ZINC ION (ZNv)
3w: ZINC ION (ZNw)
3x: ZINC ION (ZNx)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
CO3
6
Ligand/Ion
CARBONATE ION
3
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(19, 19)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: EC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:270 , ASP A:275 , ASP A:293 , GLU A:354 , ZN A:602 , HOH A:760
BINDING SITE FOR RESIDUE ZN A 600
02
AC2
SOFTWARE
ASP A:275 , ASP A:352 , GLU A:354 , ZN A:601 , HOH A:760
BINDING SITE FOR RESIDUE ZN A 601
03
AC3
SOFTWARE
LYS A:270 , ASP A:352 , ALA A:353 , GLU A:354 , GLY A:355 , ARG A:356 , LEU A:380
BINDING SITE FOR RESIDUE CO3 A 700
04
AC4
SOFTWARE
LYS B:270 , ASP B:275 , ASP B:293 , GLU B:354 , ZN B:602 , CO3 B:603 , HOH B:845
BINDING SITE FOR RESIDUE ZN B 600
05
AC5
SOFTWARE
ASP B:275 , ASP B:352 , GLU B:354 , ZN B:601 , HOH B:845
BINDING SITE FOR RESIDUE ZN B 601
06
AC6
SOFTWARE
LYS B:270 , ALA B:353 , GLU B:354 , GLY B:355 , ARG B:356 , LEU B:380 , ZN B:601
BINDING SITE FOR RESIDUE CO3 B 700
07
AC7
SOFTWARE
LYS C:270 , ASP C:275 , ASP C:293 , GLU C:354 , ZN C:602 , CO3 C:603 , HOH C:764
BINDING SITE FOR RESIDUE ZN C 600
08
AC8
SOFTWARE
ASP C:275 , ASP C:352 , GLU C:354 , ZN C:601 , HOH C:764
BINDING SITE FOR RESIDUE ZN C 601
09
AC9
SOFTWARE
LYS C:270 , ALA C:353 , GLU C:354 , GLY C:355 , ARG C:356 , LEU C:380 , ZN C:601 , HOH C:764
BINDING SITE FOR RESIDUE CO3 C 700
10
BC1
SOFTWARE
LYS D:270 , ASP D:275 , ASP D:293 , GLU D:354 , ZN D:602 , CO3 D:603 , HOH D:826
BINDING SITE FOR RESIDUE ZN D 600
11
BC2
SOFTWARE
ASP D:275 , ASP D:352 , GLU D:354 , ZN D:601 , HOH D:826
BINDING SITE FOR RESIDUE ZN D 601
12
BC3
SOFTWARE
LYS D:270 , ALA D:353 , GLU D:354 , GLY D:355 , ARG D:356 , LEU D:380 , ZN D:601 , HOH D:826
BINDING SITE FOR RESIDUE CO3 D 700
13
BC4
SOFTWARE
LYS E:270 , ASP E:275 , ASP E:293 , GLU E:354 , ZN E:602 , HOH E:778
BINDING SITE FOR RESIDUE ZN E 600
14
BC5
SOFTWARE
ASP E:275 , ASP E:352 , GLU E:354 , ZN E:601 , HOH E:778
BINDING SITE FOR RESIDUE ZN E 601
15
BC6
SOFTWARE
LYS E:270 , ALA E:353 , GLU E:354 , GLY E:355 , ARG E:356 , LEU E:380
BINDING SITE FOR RESIDUE CO3 E 700
16
BC7
SOFTWARE
LYS F:270 , ASP F:275 , ASP F:293 , GLU F:354 , ZN F:602 , CO3 F:603 , HOH F:862
BINDING SITE FOR RESIDUE ZN F 600
17
BC8
SOFTWARE
ASP F:275 , ASP F:352 , GLU F:354 , ZN F:601 , HOH F:862
BINDING SITE FOR RESIDUE ZN F 601
18
BC9
SOFTWARE
LYS F:270 , ASP F:352 , ALA F:353 , GLU F:354 , GLY F:355 , ARG F:356 , LEU F:380 , ZN F:601 , HOH F:862
BINDING SITE FOR RESIDUE CO3 F 700
19
EC1
SOFTWARE
ARG B:330
BINDING SITE FOR RESIDUE CL Z 1
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 18)
Info
All PROSITE Patterns/Profiles
1: CYTOSOL_AP (A:350-357,B:350-357,C:350-357,D:35...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTOSOL_AP
PS00631
Cytosol aminopeptidase signature.
AMPA_ECOLI
350-357
6
A:350-357
B:350-357
C:350-357
D:350-357
E:350-357
F:350-357
-
-
-
-
-
-
AMPA_ECO57
350-357
6
A:350-357
B:350-357
C:350-357
D:350-357
E:350-357
F:350-357
-
-
-
-
-
-
AMPA_ECOL6
350-357
6
A:350-357
B:350-357
C:350-357
D:350-357
E:350-357
F:350-357
-
-
-
-
-
-
[
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]
Exons
(0, 0)
Info
All Exons
View:
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Label:
All Exon Boundaries
View:
Label:
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, 24)
Info
All SCOP Domains
1a: SCOP_d1gyta1 (A:1-178)
1b: SCOP_d1gytb1 (B:1-178)
1c: SCOP_d1gytk1 (K:1-178)
1d: SCOP_d1gytl1 (L:1-178)
1e: SCOP_d1gytc1 (C:1-178)
1f: SCOP_d1gytd1 (D:1-178)
1g: SCOP_d1gyte1 (E:1-178)
1h: SCOP_d1gytf1 (F:1-178)
1i: SCOP_d1gytg1 (G:1-178)
1j: SCOP_d1gyth1 (H:1-178)
1k: SCOP_d1gyti1 (I:1-178)
1l: SCOP_d1gytj1 (J:1-178)
2a: SCOP_d1gyta2 (A:179-503)
2b: SCOP_d1gytb2 (B:179-503)
2c: SCOP_d1gytk2 (K:179-503)
2d: SCOP_d1gytl2 (L:179-503)
2e: SCOP_d1gytc2 (C:179-503)
2f: SCOP_d1gytd2 (D:179-503)
2g: SCOP_d1gyte2 (E:179-503)
2h: SCOP_d1gytf2 (F:179-503)
2i: SCOP_d1gytg2 (G:179-503)
2j: SCOP_d1gyth2 (H:179-503)
2k: SCOP_d1gyti2 (I:179-503)
2l: SCOP_d1gytj2 (J:179-503)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Macro domain-like
(42)
Superfamily
:
Macro domain-like
(42)
Family
:
Leucine aminopeptidase (Aminopeptidase A), N-terminal domain
(8)
Protein domain
:
Leucine aminopeptidase (Aminopeptidase A), N-terminal domain
(8)
Escherichia coli, PepA [TaxId: 562]
(1)
1a
d1gyta1
A:1-178
1b
d1gytb1
B:1-178
1c
d1gytk1
K:1-178
1d
d1gytl1
L:1-178
1e
d1gytc1
C:1-178
1f
d1gytd1
D:1-178
1g
d1gyte1
E:1-178
1h
d1gytf1
F:1-178
1i
d1gytg1
G:1-178
1j
d1gyth1
H:1-178
1k
d1gyti1
I:1-178
1l
d1gytj1
J:1-178
Fold
:
Phosphorylase/hydrolase-like
(558)
Superfamily
:
Zn-dependent exopeptidases
(214)
Family
:
Leucine aminopeptidase, C-terminal domain
(10)
Protein domain
:
Leucine aminopeptidase, C-terminal domain
(8)
Escherichia coli, PepA [TaxId: 562]
(1)
2a
d1gyta2
A:179-503
2b
d1gytb2
B:179-503
2c
d1gytk2
K:179-503
2d
d1gytl2
L:179-503
2e
d1gytc2
C:179-503
2f
d1gytd2
D:179-503
2g
d1gyte2
E:179-503
2h
d1gytf2
F:179-503
2i
d1gytg2
G:179-503
2j
d1gyth2
H:179-503
2k
d1gyti2
I:179-503
2l
d1gytj2
J:179-503
[
close SCOP info
]
CATH Domains
(2, 24)
Info
all CATH domains
1a: CATH_1gytL02 (L:181-498)
1b: CATH_1gytA02 (A:179-498)
1c: CATH_1gytJ02 (J:179-498)
1d: CATH_1gytK02 (K:179-498)
1e: CATH_1gytB02 (B:179-498)
1f: CATH_1gytC02 (C:179-498)
1g: CATH_1gytD02 (D:179-498)
1h: CATH_1gytE02 (E:179-498)
1i: CATH_1gytF02 (F:179-498)
1j: CATH_1gytG02 (G:179-498)
1k: CATH_1gytH02 (H:179-498)
1l: CATH_1gytI02 (I:179-498)
2a: CATH_1gytL01 (L:1-180)
2b: CATH_1gytA01 (A:1-161)
2c: CATH_1gytJ01 (J:1-161)
2d: CATH_1gytK01 (K:1-161)
2e: CATH_1gytB01 (B:1-161)
2f: CATH_1gytC01 (C:1-161)
2g: CATH_1gytD01 (D:1-161)
2h: CATH_1gytE01 (E:1-161)
2i: CATH_1gytF01 (F:1-161)
2j: CATH_1gytG01 (G:1-161)
2k: CATH_1gytH01 (H:1-161)
2l: CATH_1gytI01 (I:1-161)
View:
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Classes
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)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aminopeptidase
(284)
Homologous Superfamily
:
Zn peptidases
(137)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(1)
1a
1gytL02
L:181-498
1b
1gytA02
A:179-498
1c
1gytJ02
J:179-498
1d
1gytK02
K:179-498
1e
1gytB02
B:179-498
1f
1gytC02
C:179-498
1g
1gytD02
D:179-498
1h
1gytE02
E:179-498
1i
1gytF02
F:179-498
1j
1gytG02
G:179-498
1k
1gytH02
H:179-498
1l
1gytI02
I:179-498
Topology
:
Leucine Aminopeptidase, subunit E; domain 1
(21)
Homologous Superfamily
:
Leucine Aminopeptidase, subunit E, domain 1
(21)
Escherichia coli. Organism_taxid: 83333. Strain: k12.
(1)
2a
1gytL01
L:1-180
2b
1gytA01
A:1-161
2c
1gytJ01
J:1-161
2d
1gytK01
K:1-161
2e
1gytB01
B:1-161
2f
1gytC01
C:1-161
2g
1gytD01
D:1-161
2h
1gytE01
E:1-161
2i
1gytF01
F:1-161
2j
1gytG01
G:1-161
2k
1gytH01
H:1-161
2l
1gytI01
I:1-161
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Asym.Unit (1012 KB)
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