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1KYA
Biol. Unit 1
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)
]
)
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
(3, 10)
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
2
Ligand/Ion
TETRAHYDROPYRAN
4
XYD
1
Ligand/Ion
2,5-DIMETHYLANILINE
[
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]
Sites
(14, 14)
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: DC1 (SOFTWARE)
09: DC2 (SOFTWARE)
10: DC3 (SOFTWARE)
11: DC4 (SOFTWARE)
12: EC8 (SOFTWARE)
13: EC9 (SOFTWARE)
14: FC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:153 , ALA A:155 , LEU A:158 , NAG A:506 , PYE A:508
BINDING SITE FOR RESIDUE NAG A 505
02
AC2
SOFTWARE
GLN A:23 , ASN A:54 , THR A:56 , MET A:57 , ALA A:155 , LEU A:158 , NAG A:505
BINDING SITE FOR RESIDUE NAG A 506
03
AC3
SOFTWARE
NAG A:512
BINDING SITE FOR RESIDUE NAG A 507
04
AC4
SOFTWARE
ASN A:333 , ASN A:336 , PHE A:338 , NAG A:511
BINDING SITE FOR RESIDUE NAG A 510
05
AC5
SOFTWARE
NAG A:510
BINDING SITE FOR RESIDUE NAG A 511
06
AC6
SOFTWARE
ASN A:327 , SER A:383 , PRO A:385 , ASN A:436 , NAG A:507 , HOH A:1063
BINDING SITE FOR RESIDUE NAG A 512
07
AC7
SOFTWARE
ASN A:217
BINDING SITE FOR RESIDUE NAG A 513
08
DC1
SOFTWARE
HIS A:395 , CYS A:453 , ILE A:455 , HIS A:458 , PHE A:463
BINDING SITE FOR RESIDUE CU A 500
09
DC2
SOFTWARE
HIS A:111 , HIS A:398 , HIS A:400 , HIS A:452 , HOH A:1505
BINDING SITE FOR RESIDUE CU A 501
10
DC3
SOFTWARE
HIS A:66 , HIS A:109 , HIS A:454 , HOH A:1505
BINDING SITE FOR RESIDUE CU A 502
11
DC4
SOFTWARE
HIS A:64 , HIS A:398 , HIS A:400 , HOH A:1540
BINDING SITE FOR RESIDUE CU A 503
12
EC8
SOFTWARE
NAG A:505 , PYE A:509
BINDING SITE FOR RESIDUE PYE A 508
13
EC9
SOFTWARE
PYE A:508
BINDING SITE FOR RESIDUE PYE A 509
14
FC1
SOFTWARE
PHE A:162 , LEU A:164 , ASP A:206 , PHE A:265 , HIS A:458
BINDING SITE FOR RESIDUE XYD A 514
[
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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
;
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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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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
[
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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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)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
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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Asymmetric Unit 1
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Asym.Unit (339 KB)
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Biol.Unit 1 (87 KB)
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Biol.Unit 2 (88 KB)
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Biol.Unit 3 (87 KB)
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