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1JRQ
Asym. Unit
Info
Asym.Unit (264 KB)
Biol.Unit 1 (258 KB)
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(1)
Title
:
X-RAY STRUCTURE ANALYSIS OF THE ROLE OF THE CONSERVED TYROSINE-369 IN ACTIVE SITE OF E. COLI AMINE OXIDASE
Authors
:
J. M. Murray, C. R. Kurtis, W. Tambarajah, C. G. Saysell, C. M. Wilmot, M. R. Parsons, S. E. V. Phillips, P. F. Knowles, M. J. Mcpherson
Date
:
14 Aug 01 (Deposition) - 21 Nov 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Copper Amine Oxidase, Tpq, Mutant, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. M. Murray, C. R. Kurtis, W. Tambyrajah, C. G. Saysell, C. M. Wilmot, M. R. Parsons, S. E. Phillips, P. F. Knowles, M. J. Mcpherson
Conserved Tyrosine-369 In The Active Site Of Escherichia Coli Copper Amine Oxidase Is Not Essential.
Biochemistry V. 40 12808 2001
(for further references see the
PDB file header
)
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Hetero Components
(3, 8)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
2a: COPPER (II) ION (CUa)
2b: COPPER (II) ION (CUb)
3a: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQa)
3b: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
4
Ligand/Ion
CALCIUM ION
2
CU
2
Ligand/Ion
COPPER (II) ION
3
TPQ
2
Mod. Amino Acid
5-(2-CARBOXY-2-AMINOETHYL)-2-HYDROXY-1,4-BENZOQUINONE
[
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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)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:524 , HIS A:526 , HIS A:689 , HOH A:1216
BINDING SITE FOR RESIDUE CU A 801
2
AC2
SOFTWARE
LYS A:133 , ASP A:533 , LEU A:534 , ASP A:535 , ASP A:678 , ALA A:679 , HOH A:948
BINDING SITE FOR RESIDUE CA A 802
3
AC3
SOFTWARE
GLU A:573 , TYR A:667 , GLU A:672 , HOH A:974 , HOH A:979 , HOH A:1523
BINDING SITE FOR RESIDUE CA A 803
4
AC4
SOFTWARE
HIS B:524 , HIS B:526 , HIS B:689 , HOH B:1017 , HOH B:1201
BINDING SITE FOR RESIDUE CU B 801
5
AC5
SOFTWARE
ASP B:533 , LEU B:534 , ASP B:535 , ASP B:678 , ALA B:679 , HOH B:981
BINDING SITE FOR RESIDUE CA B 802
6
AC6
SOFTWARE
GLU B:573 , TYR B:667 , GLU B:672 , HOH B:1007 , HOH B:1012
BINDING SITE FOR RESIDUE CA B 803
[
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SAPs(SNPs)/Variants
(2, 4)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_AMO_ECOLI_001 (K12E, chain A/B, )
2: VAR_AMO_ECOLI_002 (L29I, chain A/B, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_AMO_ECOLI_001
*
K
42
E
AMO_ECOLI
---
---
A/B
K
12
E
2
UniProt
VAR_AMO_ECOLI_002
*
L
59
I
AMO_ECOLI
---
---
A/B
L
29
I
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: COPPER_AMINE_OXID_1 (A:455-468,B:455-468)
2: COPPER_AMINE_OXID_2 (A:684-697,B:684-697)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
COPPER_AMINE_OXID_1
PS01164
Copper amine oxidase topaquinone signature.
AMO_ECOLI
485-498
2
A:455-468
B:455-468
2
COPPER_AMINE_OXID_2
PS01165
Copper amine oxidase copper-binding site signature.
AMO_ECOLI
714-727
2
A:684-697
B:684-697
[
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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.
SCOP Domains
(3, 8)
Info
All SCOP Domains
1a: SCOP_d1jrqa1 (A:301-724)
1b: SCOP_d1jrqb1 (B:301-726)
2a: SCOP_d1jrqa2 (A:91-185)
2b: SCOP_d1jrqa3 (A:186-300)
2c: SCOP_d1jrqb2 (B:91-185)
2d: SCOP_d1jrqb3 (B:186-300)
3a: SCOP_d1jrqa4 (A:7-90)
3b: SCOP_d1jrqb4 (B:6-90)
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)
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)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Supersandwich
(271)
Superfamily
:
Amine oxidase catalytic domain
(65)
Family
:
Amine oxidase catalytic domain
(65)
Protein domain
:
Copper amine oxidase, domain 3
(62)
Escherichia coli [TaxId: 562]
(16)
1a
d1jrqa1
A:301-724
1b
d1jrqb1
B:301-726
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cystatin-like
(403)
Superfamily
:
Amine oxidase N-terminal region
(65)
Family
:
Amine oxidase N-terminal region
(65)
Protein domain
:
Copper amine oxidase, domains 1 and 2
(62)
Escherichia coli [TaxId: 562]
(16)
2a
d1jrqa2
A:91-185
2b
d1jrqa3
A:186-300
2c
d1jrqb2
B:91-185
2d
d1jrqb3
B:186-300
Fold
:
N domain of copper amine oxidase-like
(44)
Superfamily
:
Copper amine oxidase, domain N
(16)
Family
:
Copper amine oxidase, domain N
(16)
Protein domain
:
Copper amine oxidase, domain N
(16)
Escherichia coli [TaxId: 562]
(16)
3a
d1jrqa4
A:7-90
3b
d1jrqb4
B:6-90
[
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CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_1jrqB01 (B:6-84)
1b: CATH_1jrqA01 (A:7-84)
2a: CATH_1jrqA02 (A:86-186)
2b: CATH_1jrqB02 (B:86-186)
2c: CATH_1jrqA04 (A:187-292)
2d: CATH_1jrqB04 (B:187-292)
3a: CATH_1jrqA03 (A:314-723)
3b: CATH_1jrqB03 (B:314-723)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Copper Amine Oxidase; Chain A, domain 1
(16)
Homologous Superfamily
:
[code=3.30.457.10, no name defined]
(16)
Escherichia coli. Organism_taxid: 562. Strain: dh5a.
(1)
1a
1jrqB01
B:6-84
1b
1jrqA01
A:7-84
Architecture
:
Roll
(3276)
Topology
:
Nuclear Transport Factor 2; Chain: A,
(517)
Homologous Superfamily
:
[code=3.10.450.40, no name defined]
(77)
Escherichia coli. Organism_taxid: 562. Strain: dh5a.
(1)
2a
1jrqA02
A:86-186
2b
1jrqB02
B:86-186
2c
1jrqA04
A:187-292
2d
1jrqB04
B:187-292
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Beta-galactosidase; Chain A, domain 5
(250)
Homologous Superfamily
:
Copper amine oxidase, Domain 3
(74)
Escherichia coli. Organism_taxid: 562. Strain: dh5a.
(1)
3a
1jrqA03
A:314-723
3b
1jrqB03
B:314-723
[
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Pfam Domains
(4, 8)
Info
all PFAM domains
1a: PFAM_Cu_amine_oxidN2_1jrqB01 (B:94-180)
1b: PFAM_Cu_amine_oxidN2_1jrqB02 (B:94-180)
2a: PFAM_Cu_amine_oxidN3_1jrqB03 (B:185-287)
2b: PFAM_Cu_amine_oxidN3_1jrqB04 (B:185-287)
3a: PFAM_Cu_amine_oxidN1_1jrqB05 (B:6-91)
3b: PFAM_Cu_amine_oxidN1_1jrqB06 (B:6-91)
4a: PFAM_Cu_amine_oxid_1jrqB07 (B:305-726)
4b: PFAM_Cu_amine_oxid_1jrqB08 (B:305-726)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
CuAO_N2_N3
(40)
Family
:
Cu_amine_oxidN2
(27)
Escherichia coli (strain K12)
(12)
1a
Cu_amine_oxidN2-1jrqB01
B:94-180
1b
Cu_amine_oxidN2-1jrqB02
B:94-180
Family
:
Cu_amine_oxidN3
(37)
Escherichia coli (strain K12)
(12)
2a
Cu_amine_oxidN3-1jrqB03
B:185-287
2b
Cu_amine_oxidN3-1jrqB04
B:185-287
Clan
:
no clan defined [family: Cu_amine_oxidN1]
(12)
Family
:
Cu_amine_oxidN1
(12)
Escherichia coli (strain K12)
(12)
3a
Cu_amine_oxidN1-1jrqB05
B:6-91
3b
Cu_amine_oxidN1-1jrqB06
B:6-91
Clan
:
no clan defined [family: Cu_amine_oxid]
(40)
Family
:
Cu_amine_oxid
(40)
Escherichia coli (strain K12)
(12)
4a
Cu_amine_oxid-1jrqB07
B:305-726
4b
Cu_amine_oxid-1jrqB08
B:305-726
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