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2CFD
Asym. Unit
Info
Asym.Unit (390 KB)
Biol.Unit 1 (379 KB)
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(1)
Title
:
AGAO IN COMPLEX WITH WC4L3 (RU-WIRE INHIBITOR, 4-CARBON LINKER, LAMBDA ENANTIOMER, DATA SET 3)
Authors
:
D. B. Langley, A. P. Duff, H. C. Freeman, J. M. Guss, G. A. Juda, D. M. Doole S. M. Contakes, N. W. Halpern-Manners, A. R. Dunn, H. B. Gray
Date
:
20 Feb 06 (Deposition) - 01 May 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Amine Oxidase, Arthrobacter Globiformis, Copper Containing, Oxidoreductase, Tpq, Quinone, Ruthenium Diimine Wires, Competitive Inhibition, Metal-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. B. Langley, D. E. Brown, L. E. Cheruzel, S. M. Contakes, A. P. Duff, K. M. Hilmer, D. M. Dooley, H. B. Gray, J. M. Guss, H. C. Freeman
Enantiomer-Specific Binding Of Ruthenium(Ii) Molecular Wires By The Amine Oxidase Of Arthrobacter Globiformis.
J. Am. Chem. Soc. V. 130 8069 2008
[
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Hetero Components
(6, 17)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
4a: BIS[1H,1'H-2,2'-BIPYRIDINATO(2-)-K... (R4Aa)
4b: BIS[1H,1'H-2,2'-BIPYRIDINATO(2-)-K... (R4Ab)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
6a: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQa)
6b: 5-(2-CARBOXY-2-AMINOETHYL)-2-HYDRO... (TPQb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
2
Ligand/Ion
COPPER (II) ION
2
GOL
7
Ligand/Ion
GLYCEROL
3
NA
2
Ligand/Ion
SODIUM ION
4
R4A
2
Ligand/Ion
BIS[1H,1'H-2,2'-BIPYRIDINATO(2-)-KAPPA~2~N~1~,N~1'~]{3-[4-(1,10-DIHYDRO-1,10-PHENANTHROLIN-4-YL-KAPPA~2~N~1~,N~10~)BUTOXY]-N,N-DIMETHYLANILINATO(2-)}RUTHENIUM
5
SO4
2
Ligand/Ion
SULFATE ION
6
TPQ
2
Mod. Amino Acid
5-(2-CARBOXY-2-AMINOETHYL)-2-HYDROXY-1,4-BENZOQUINONE
[
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Sites
(15, 15)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:431 , HIS A:433 , HIS A:592 , HOH A:2129
BINDING SITE FOR RESIDUE CU A 701
02
AC2
SOFTWARE
ASP A:440 , MET A:441 , ASP A:581 , ILE A:582 , HOH A:2156
BINDING SITE FOR RESIDUE NA A 703
03
AC3
SOFTWARE
GLY A:350 , ARG A:367 , HOH A:2264 , HOH A:2265 , ASP B:316 , CYS B:317 , LEU B:318 , HIS B:345 , GOL B:725 , HOH B:2214
BINDING SITE FOR RESIDUE SO4 A 710
04
AC4
SOFTWARE
HIS B:431 , HIS B:433 , HIS B:592 , HOH B:2218 , HOH B:2242
BINDING SITE FOR RESIDUE CU B 701
05
AC5
SOFTWARE
ASP B:440 , MET B:441 , ASP B:581 , ILE B:582 , HOH B:2248
BINDING SITE FOR RESIDUE NA B 703
06
AC6
SOFTWARE
ASP A:316 , CYS A:317 , LEU A:318 , GOL A:725 , GLY B:350 , ARG B:367 , HOH B:2379 , HOH B:2380 , HOH B:2381
BINDING SITE FOR RESIDUE SO4 B 710
07
AC7
SOFTWARE
GLU A:102 , PHE A:105 , ALA A:135 , PRO A:136 , TYR A:302 , GLN A:306 , TYR A:307 , ASN A:309 , ARG A:336 , GLY A:380 , ASN A:381 , TPQ A:382 , SER B:356 , ASP B:357 , LEU B:358
BINDING SITE FOR RESIDUE R4A A 705
08
AC8
SOFTWARE
SER A:356 , ASP A:357 , LEU A:358 , GLU B:102 , PHE B:105 , ALA B:135 , PRO B:136 , LEU B:137 , TRP B:168 , TYR B:302 , GLN B:306 , TYR B:307 , ASN B:309 , ARG B:336 , GLY B:380 , ASN B:381 , TPQ B:382
BINDING SITE FOR RESIDUE R4A B 705
09
AC9
SOFTWARE
GLY A:445 , PHE A:446 , THR A:447 , ASN A:499
BINDING SITE FOR RESIDUE GOL A 723
10
BC1
SOFTWARE
GLU A:347 , ARG A:370 , LYS A:401 , HOH A:2112 , HOH A:2136 , HOH A:2266 , SO4 B:710 , HOH B:2204 , HOH B:2380
BINDING SITE FOR RESIDUE GOL A 725
11
BC2
SOFTWARE
ARG B:532 , ARG B:533 , THR B:554 , HIS B:561 , SER B:562 , GLY B:563 , GLY B:564 , ALA B:565 , HOH B:2327
BINDING SITE FOR RESIDUE GOL B 720
12
BC3
SOFTWARE
ASN B:126 , ASP B:161 , VAL B:197 , ALA B:199 , HOH B:2382 , HOH B:2383
BINDING SITE FOR RESIDUE GOL B 721
13
BC4
SOFTWARE
ASP B:444 , GLY B:445 , PHE B:446 , THR B:447 , ASN B:499
BINDING SITE FOR RESIDUE GOL B 723
14
BC5
SOFTWARE
TRP A:349 , GLY A:350 , SO4 A:710 , GLU B:347 , ARG B:370 , LYS B:401 , HOH B:2384 , HOH B:2385
BINDING SITE FOR RESIDUE GOL B 725
15
BC6
SOFTWARE
HOH A:2247 , ASN B:368 , TYR B:391 , ASP B:393 , LYS B:610 , HOH B:2224 , HOH B:2386
BINDING SITE FOR RESIDUE GOL B 726
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: COPPER_AMINE_OXID_1 (A:371-384,B:371-384)
2: COPPER_AMINE_OXID_2 (A:587-600,B:587-600)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
COPPER_AMINE_OXID_1
PS01164
Copper amine oxidase topaquinone signature.
PAOX_ARTGO
371-384
2
A:371-384
B:371-384
2
COPPER_AMINE_OXID_2
PS01165
Copper amine oxidase copper-binding site signature.
PAOX_ARTGO
587-600
2
A:587-600
B:587-600
[
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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
(2, 6)
Info
All SCOP Domains
1a: SCOP_d2cfda1 (A:212-627)
1b: SCOP_d2cfdb1 (B:212-627)
2a: SCOP_d2cfda2 (A:9-96)
2b: SCOP_d2cfda3 (A:97-211)
2c: SCOP_d2cfdb2 (B:9-96)
2d: SCOP_d2cfdb3 (B:97-211)
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)
(
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(
)
Superfamilies
(
)
(
)
Families
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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)
Arthrobacter globiformis [TaxId: 1665]
(40)
1a
d2cfda1
A:212-627
1b
d2cfdb1
B:212-627
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)
Arthrobacter globiformis [TaxId: 1665]
(40)
2a
d2cfda2
A:9-96
2b
d2cfda3
A:97-211
2c
d2cfdb2
B:9-96
2d
d2cfdb3
B:97-211
[
close SCOP info
]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2cfdA02 (A:102-203)
1b: CATH_2cfdB02 (B:102-203)
1c: CATH_2cfdA01 (A:9-95)
1d: CATH_2cfdB01 (B:9-95)
2a: CATH_2cfdA03 (A:204-627)
2b: CATH_2cfdB03 (B:204-627)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Nuclear Transport Factor 2; Chain: A,
(517)
Homologous Superfamily
:
[code=3.10.450.40, no name defined]
(77)
Arthrobacter globiformis. Organism_taxid: 1665.
(34)
1a
2cfdA02
A:102-203
1b
2cfdB02
B:102-203
1c
2cfdA01
A:9-95
1d
2cfdB01
B:9-95
Class
:
Mainly Beta
(13760)
Architecture
:
Distorted Sandwich
(506)
Topology
:
Beta-galactosidase; Chain A, domain 5
(250)
Homologous Superfamily
:
Copper amine oxidase, Domain 3
(74)
Arthrobacter globiformis. Organism_taxid: 1665.
(34)
2a
2cfdA03
A:204-627
2b
2cfdB03
B:204-627
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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