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1LVN
Asym. Unit
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Asym.Unit (267 KB)
Biol.Unit 1 (261 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF E. COLI AMINE OXIDASE COMPLEXED WITH TRANYLCYPROMINE
Authors
:
C. M. Wilmot, S. E. Phillips
Date
:
28 May 02 (Deposition) - 05 Aug 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Inhibitor Complex, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. M. Wilmot, C. G. Saysell, A. Blessington, D. A. Conn, C. R. Kurtis, M. J. Mcpherson, P. F. Knowles, S. E. Phillips
Medical Implications From The Crystal Structure Of A Copper-Containing Amine Oxidase Complexed With The Antidepressant Drug Tranylcypromine.
Febs Lett. V. 576 301 2004
(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: TYROSINE DERIVATIVE (TYTa)
3b: TYROSINE DERIVATIVE (TYTb)
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
TYT
2
Mod. Amino Acid
TYROSINE DERIVATIVE
[
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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:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:524 , HIS A:526 , HIS A:689 , HOH A:1466
BINDING SITE FOR RESIDUE CU A 801
2
AC2
SOFTWARE
ASP A:533 , LEU A:534 , ASP A:535 , ASP A:678 , ALA A:679 , HOH A:1142
BINDING SITE FOR RESIDUE CA A 802
3
AC3
SOFTWARE
GLU A:573 , TYR A:667 , GLU A:672 , HOH A:1305
BINDING SITE FOR RESIDUE CA A 803
4
AC4
SOFTWARE
HIS B:524 , HIS B:526 , HIS B:689 , HOH B:2423
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:2151
BINDING SITE FOR RESIDUE CA B 802
6
AC6
SOFTWARE
GLU B:573 , TYR B:667 , GLU B:672 , HOH B:2176 , HOH B:2180
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:
Select:
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
View:
Label:
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_d1lvna1 (A:301-724)
1b: SCOP_d1lvnb1 (B:301-725)
2a: SCOP_d1lvna2 (A:91-185)
2b: SCOP_d1lvna3 (A:186-300)
2c: SCOP_d1lvnb2 (B:91-185)
2d: SCOP_d1lvnb3 (B:186-300)
3a: SCOP_d1lvna4 (A:7-90)
3b: SCOP_d1lvnb4 (B:6-90)
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Classes
(
)
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)
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)
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)
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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
d1lvna1
A:301-724
1b
d1lvnb1
B:301-725
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
d1lvna2
A:91-185
2b
d1lvna3
A:186-300
2c
d1lvnb2
B:91-185
2d
d1lvnb3
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
d1lvna4
A:7-90
3b
d1lvnb4
B:6-90
[
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CATH Domains
(3, 8)
Info
all CATH domains
1a: CATH_1lvnB01 (B:6-84)
1b: CATH_1lvnA01 (A:7-84)
2a: CATH_1lvnA02 (A:86-186)
2b: CATH_1lvnB02 (B:86-186)
2c: CATH_1lvnA04 (A:187-292)
2d: CATH_1lvnB04 (B:187-292)
3a: CATH_1lvnA03 (A:314-723)
3b: CATH_1lvnB03 (B:314-723)
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)
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(
)
(
)
Homologous Superfamilies
(
)
(
)
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.
(7)
1a
1lvnB01
B:6-84
1b
1lvnA01
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.
(7)
2a
1lvnA02
A:86-186
2b
1lvnB02
B:86-186
2c
1lvnA04
A:187-292
2d
1lvnB04
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.
(7)
3a
1lvnA03
A:314-723
3b
1lvnB03
B:314-723
[
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Pfam Domains
(4, 8)
Info
all PFAM domains
1a: PFAM_Cu_amine_oxidN2_1lvnB01 (B:94-180)
1b: PFAM_Cu_amine_oxidN2_1lvnB02 (B:94-180)
2a: PFAM_Cu_amine_oxidN3_1lvnB03 (B:185-287)
2b: PFAM_Cu_amine_oxidN3_1lvnB04 (B:185-287)
3a: PFAM_Cu_amine_oxidN1_1lvnB05 (B:6-91)
3b: PFAM_Cu_amine_oxidN1_1lvnB06 (B:6-91)
4a: PFAM_Cu_amine_oxid_1lvnB07 (B:305-725)
4b: PFAM_Cu_amine_oxid_1lvnB08 (B:305-725)
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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_oxidN2-1lvnB01
B:94-180
1b
Cu_amine_oxidN2-1lvnB02
B:94-180
Family
:
Cu_amine_oxidN3
(37)
Escherichia coli (strain K12)
(12)
2a
Cu_amine_oxidN3-1lvnB03
B:185-287
2b
Cu_amine_oxidN3-1lvnB04
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_oxidN1-1lvnB05
B:6-91
3b
Cu_amine_oxidN1-1lvnB06
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-1lvnB07
B:305-725
4b
Cu_amine_oxid-1lvnB08
B:305-725
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