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1KYA
Biol. Unit 3
Info
Asym.Unit (339 KB)
Biol.Unit 1 (87 KB)
Biol.Unit 2 (88 KB)
Biol.Unit 3 (87 KB)
Biol.Unit 4 (87 KB)
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(1)
Title
:
ACTIVE LACCASE FROM TRAMETES VERSICOLOR COMPLEXED WITH 2,5-XYLIDINE
Authors
:
T. Bertrand, C. Jolivalt, P. Briozzo, E. Caminade, N. Joly, C. Madzak, C
Date
:
04 Feb 02 (Deposition) - 19 Jun 02 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Blue-Copper, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
T. Bertrand, C. Jolivalt, P. Briozzo, E. Caminade, N. Joly, C. Madzak, C. Mougin
Crystal Structure Of A Four-Copper Laccase Complexed With A Arylamine: Insights Into Substrate Recognition And Correlation With Kinetics.
Biochemistry V. 41 7325 2002
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
1c: COPPER (II) ION (CUc)
1d: COPPER (II) ION (CUd)
1e: COPPER (II) ION (CUe)
1f: COPPER (II) ION (CUf)
1g: COPPER (II) ION (CUg)
1h: COPPER (II) ION (CUh)
1i: COPPER (II) ION (CUi)
1j: COPPER (II) ION (CUj)
1k: COPPER (II) ION (CUk)
1l: COPPER (II) ION (CUl)
1m: COPPER (II) ION (CUm)
1n: COPPER (II) ION (CUn)
1o: COPPER (II) ION (CUo)
1p: COPPER (II) ION (CUp)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
2aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
2b: N-ACETYL-D-GLUCOSAMINE (NAGb)
2c: N-ACETYL-D-GLUCOSAMINE (NAGc)
2d: N-ACETYL-D-GLUCOSAMINE (NAGd)
2e: N-ACETYL-D-GLUCOSAMINE (NAGe)
2f: N-ACETYL-D-GLUCOSAMINE (NAGf)
2g: N-ACETYL-D-GLUCOSAMINE (NAGg)
2h: N-ACETYL-D-GLUCOSAMINE (NAGh)
2i: N-ACETYL-D-GLUCOSAMINE (NAGi)
2j: N-ACETYL-D-GLUCOSAMINE (NAGj)
2k: N-ACETYL-D-GLUCOSAMINE (NAGk)
2l: N-ACETYL-D-GLUCOSAMINE (NAGl)
2m: N-ACETYL-D-GLUCOSAMINE (NAGm)
2n: N-ACETYL-D-GLUCOSAMINE (NAGn)
2o: N-ACETYL-D-GLUCOSAMINE (NAGo)
2p: N-ACETYL-D-GLUCOSAMINE (NAGp)
2q: N-ACETYL-D-GLUCOSAMINE (NAGq)
2r: N-ACETYL-D-GLUCOSAMINE (NAGr)
2s: N-ACETYL-D-GLUCOSAMINE (NAGs)
2t: N-ACETYL-D-GLUCOSAMINE (NAGt)
2u: N-ACETYL-D-GLUCOSAMINE (NAGu)
2v: N-ACETYL-D-GLUCOSAMINE (NAGv)
2w: N-ACETYL-D-GLUCOSAMINE (NAGw)
2x: N-ACETYL-D-GLUCOSAMINE (NAGx)
2y: N-ACETYL-D-GLUCOSAMINE (NAGy)
2z: N-ACETYL-D-GLUCOSAMINE (NAGz)
3a: TETRAHYDROPYRAN (PYEa)
3b: TETRAHYDROPYRAN (PYEb)
3c: TETRAHYDROPYRAN (PYEc)
3d: TETRAHYDROPYRAN (PYEd)
3e: TETRAHYDROPYRAN (PYEe)
3f: TETRAHYDROPYRAN (PYEf)
3g: TETRAHYDROPYRAN (PYEg)
3h: TETRAHYDROPYRAN (PYEh)
3i: TETRAHYDROPYRAN (PYEi)
4a: 2,5-DIMETHYLANILINE (XYDa)
4b: 2,5-DIMETHYLANILINE (XYDb)
4c: 2,5-DIMETHYLANILINE (XYDc)
4d: 2,5-DIMETHYLANILINE (XYDd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
-1
Ligand/Ion
COPPER (II) ION
2
NAG
7
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
3
PYE
-1
Ligand/Ion
TETRAHYDROPYRAN
4
XYD
1
Ligand/Ion
2,5-DIMETHYLANILINE
[
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]
Sites
(12, 12)
Info
All Sites
01: BC6 (SOFTWARE)
02: BC7 (SOFTWARE)
03: BC8 (SOFTWARE)
04: BC9 (SOFTWARE)
05: CC1 (SOFTWARE)
06: CC2 (SOFTWARE)
07: CC3 (SOFTWARE)
08: DC9 (SOFTWARE)
09: EC1 (SOFTWARE)
10: EC2 (SOFTWARE)
11: EC3 (SOFTWARE)
12: FC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC6
SOFTWARE
ARG C:22 , HIS C:153 , NAG C:706 , HOH C:1486
BINDING SITE FOR RESIDUE NAG C 705
02
BC7
SOFTWARE
GLN C:23 , ASN C:54 , THR C:56 , MET C:57 , ALA C:155 , NAG C:705 , HOH C:1783
BINDING SITE FOR RESIDUE NAG C 706
03
BC8
SOFTWARE
ASN C:327 , SER C:383 , PRO C:385 , ASN C:436 , NAG C:708
BINDING SITE FOR RESIDUE NAG C 707
04
BC9
SOFTWARE
NAG C:707
BINDING SITE FOR RESIDUE NAG C 708
05
CC1
SOFTWARE
NAG C:710
BINDING SITE FOR RESIDUE NAG C 709
06
CC2
SOFTWARE
ASN C:333 , ASN C:336 , PHE C:338 , NAG C:709
BINDING SITE FOR RESIDUE NAG C 710
07
CC3
SOFTWARE
ASN C:217 , HOH C:1744
BINDING SITE FOR RESIDUE NAG C 711
08
DC9
SOFTWARE
HIS C:395 , CYS C:453 , ILE C:455 , HIS C:458 , PHE C:463
BINDING SITE FOR RESIDUE CU C 500
09
EC1
SOFTWARE
HIS C:111 , HIS C:398 , HIS C:400 , HIS C:452 , HOH C:1492
BINDING SITE FOR RESIDUE CU C 501
10
EC2
SOFTWARE
HIS C:64 , HIS C:66 , HIS C:109 , HIS C:454 , HOH C:1492
BINDING SITE FOR RESIDUE CU C 502
11
EC3
SOFTWARE
HIS C:64 , HIS C:398 , HIS C:400 , HOH C:1748
BINDING SITE FOR RESIDUE CU C 503
12
FC7
SOFTWARE
PHE C:162 , LEU C:164 , ASP C:206 , PHE C:265 , HIS C:458
BINDING SITE FOR RESIDUE XYD C 712
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1kyaa1 (A:1-130)
1b: SCOP_d1kyaa2 (A:131-300)
1c: SCOP_d1kyad2 (D:131-300)
1d: SCOP_d1kyad3 (D:301-499)
1e: SCOP_d1kyaa3 (A:301-499)
1f: SCOP_d1kyab1 (B:1-130)
1g: SCOP_d1kyab2 (B:131-300)
1h: SCOP_d1kyab3 (B:301-499)
1i: SCOP_d1kyac1 (C:1-130)
1j: SCOP_d1kyac2 (C:131-300)
1k: SCOP_d1kyac3 (C:301-499)
1l: SCOP_d1kyad1 (D:1-130)
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(
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(
)
Organisms
(
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Multidomain cupredoxins
(146)
Protein domain
:
Laccase
(13)
Trametes versicolor, laccase 1 [TaxId: 5325]
(1)
1a
d1kyaa1
A:1-130
1b
d1kyaa2
A:131-300
1c
d1kyad2
D:131-300
1d
d1kyad3
D:301-499
1e
d1kyaa3
A:301-499
1f
d1kyab1
B:1-130
1g
d1kyab2
B:131-300
1h
d1kyab3
B:301-499
1i
d1kyac1
C:1-130
1j
d1kyac2
C:131-300
1k
d1kyac3
C:301-499
1l
d1kyad1
D:1-130
[
close SCOP info
]
CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_1kyaA01 (A:1-132)
1b: CATH_1kyaB01 (B:1-132)
1c: CATH_1kyaC03 (C:310-499)
1d: CATH_1kyaD03 (D:310-499)
1e: CATH_1kyaC01 (C:1-132)
1f: CATH_1kyaD01 (D:1-132)
1g: CATH_1kyaA02 (A:133-309)
1h: CATH_1kyaB02 (B:133-309)
1i: CATH_1kyaC02 (C:133-309)
1j: CATH_1kyaD02 (D:133-309)
1k: CATH_1kyaA03 (A:310-499)
1l: CATH_1kyaB03 (B:310-499)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Trametes versicolor. Organism_taxid: 5325. Strain: atcc 32745
(1)
1a
1kyaA01
A:1-132
1b
1kyaB01
B:1-132
1c
1kyaC03
C:310-499
1d
1kyaD03
D:310-499
1e
1kyaC01
C:1-132
1f
1kyaD01
D:1-132
1g
1kyaA02
A:133-309
1h
1kyaB02
B:133-309
1i
1kyaC02
C:133-309
1j
1kyaD02
D:133-309
1k
1kyaA03
A:310-499
1l
1kyaB03
B:310-499
[
close CATH info
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Pfam Domains
(3, 12)
Info
all PFAM domains
1a: PFAM_Cu_oxidase_1kyaD01 (D:142-284)
1b: PFAM_Cu_oxidase_1kyaD02 (D:142-284)
1c: PFAM_Cu_oxidase_1kyaD03 (D:142-284)
1d: PFAM_Cu_oxidase_1kyaD04 (D:142-284)
2a: PFAM_Cu_oxidase_2_1kyaD05 (D:344-473)
2b: PFAM_Cu_oxidase_2_1kyaD06 (D:344-473)
2c: PFAM_Cu_oxidase_2_1kyaD07 (D:344-473)
2d: PFAM_Cu_oxidase_2_1kyaD08 (D:344-473)
3a: PFAM_Cu_oxidase_3_1kyaD09 (D:9-131)
3b: PFAM_Cu_oxidase_3_1kyaD10 (D:9-131)
3c: PFAM_Cu_oxidase_3_1kyaD11 (D:9-131)
3d: PFAM_Cu_oxidase_3_1kyaD12 (D:9-131)
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Clans
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)
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(
)
(
)
Clan
:
CU_oxidase
(192)
Family
:
Cu-oxidase
(74)
Trametes versicolor (White-rot fungus) (Coriolus versicolor)
(1)
1a
Cu-oxidase-1kyaD01
D:142-284
1b
Cu-oxidase-1kyaD02
D:142-284
1c
Cu-oxidase-1kyaD03
D:142-284
1d
Cu-oxidase-1kyaD04
D:142-284
Family
:
Cu-oxidase_2
(24)
Trametes versicolor (White-rot fungus) (Coriolus versicolor)
(1)
2a
Cu-oxidase_2-1kyaD05
D:344-473
2b
Cu-oxidase_2-1kyaD06
D:344-473
2c
Cu-oxidase_2-1kyaD07
D:344-473
2d
Cu-oxidase_2-1kyaD08
D:344-473
Family
:
Cu-oxidase_3
(79)
Trametes versicolor (White-rot fungus) (Coriolus versicolor)
(1)
3a
Cu-oxidase_3-1kyaD09
D:9-131
3b
Cu-oxidase_3-1kyaD10
D:9-131
3c
Cu-oxidase_3-1kyaD11
D:9-131
3d
Cu-oxidase_3-1kyaD12
D:9-131
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Asym.Unit (339 KB)
Header - Asym.Unit
Biol.Unit 1 (87 KB)
Header - Biol.Unit 1
Biol.Unit 2 (88 KB)
Header - Biol.Unit 2
Biol.Unit 3 (87 KB)
Header - Biol.Unit 3
Biol.Unit 4 (87 KB)
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