PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
3NQ1
Asym. Unit
Info
Asym.Unit (106 KB)
Biol.Unit 1 (99 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF TYROSINASE FROM BACILLUS MEGATERIUM IN COMPLEX WITH INHIBITOR KOJIC ACID
Authors
:
M. Sendovski, M. Kanteev, N. Adir, A. Fishman
Date
:
29 Jun 10 (Deposition) - 17 Nov 10 (Release) - 26 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Tyrosinase, Type3 Copper Proteins, Bacillus Megaterium, Oxidoreductase, Kojic Acid, Oxidoreductase-Oxidoreductase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Sendovski, M. Kanteev, V. Shuster Ben-Yosef, N. Adir, A. Fishman
First Structures Of An Active Bacterial Tyrosinase Reveal Copper Plasticity.
J. Mol. Biol. V. 405 227 2011
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 19)
Info
All Hetero Components
1a: COPPER (II) ION (CUa)
1b: COPPER (II) ION (CUb)
1c: COPPER (II) ION (CUc)
1d: COPPER (II) ION (CUd)
2a: 5-HYDROXY-2-(HYDROXYMETHYL)-4H-PYR... (KOJa)
2b: 5-HYDROXY-2-(HYDROXYMETHYL)-4H-PYR... (KOJb)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
3g: ZINC ION (ZNg)
3h: ZINC ION (ZNh)
3i: ZINC ION (ZNi)
3j: ZINC ION (ZNj)
3k: ZINC ION (ZNk)
3l: ZINC ION (ZNl)
3m: ZINC ION (ZNm)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CU
4
Ligand/Ion
COPPER (II) ION
2
KOJ
2
Ligand/Ion
5-HYDROXY-2-(HYDROXYMETHYL)-4H-PYRAN-4-ONE
3
ZN
13
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(19, 19)
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)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:42 , HIS A:60 , HOH A:353 , HOH A:354 , CU A:502
BINDING SITE FOR RESIDUE CU A 501
02
AC2
SOFTWARE
HIS A:204 , HIS A:208 , HIS A:231 , HOH A:354 , CU A:501
BINDING SITE FOR RESIDUE CU A 502
03
AC3
SOFTWARE
HIS A:13 , HOH A:304 , HOH A:306 , HOH A:357
BINDING SITE FOR RESIDUE ZN A 503
04
AC4
SOFTWARE
GLY A:196 , PHE A:197 , GLY A:200 , ASN A:205 , ARG A:209 , HOH A:335 , HOH A:356 , HOH A:373
BINDING SITE FOR RESIDUE KOJ A 1351
05
AC5
SOFTWARE
ASP A:16 , ASP B:16 , ASP B:112
BINDING SITE FOR RESIDUE ZN A 504
06
AC6
SOFTWARE
GLU A:71 , ARG A:75 , HOH A:364 , HOH A:381
BINDING SITE FOR RESIDUE ZN A 505
07
AC7
SOFTWARE
GLU A:95 , HOH A:321
BINDING SITE FOR RESIDUE ZN A 506
08
AC8
SOFTWARE
ASP A:112 , ASP B:16
BINDING SITE FOR RESIDUE ZN A 507
09
AC9
SOFTWARE
ASP A:166 , ASP B:123
BINDING SITE FOR RESIDUE ZN A 508
10
BC1
SOFTWARE
HIS A:245 , HOH A:369
BINDING SITE FOR RESIDUE ZN A 509
11
BC2
SOFTWARE
HIS A:279 , HOH A:359
BINDING SITE FOR RESIDUE ZN A 510
12
BC3
SOFTWARE
HIS B:42 , HIS B:60 , HOH B:407 , CU B:502
BINDING SITE FOR RESIDUE CU B 501
13
BC4
SOFTWARE
HIS B:204 , HIS B:208 , HIS B:231 , HOH B:407 , CU B:501
BINDING SITE FOR RESIDUE CU B 502
14
BC5
SOFTWARE
HIS B:13 , HOH B:363 , HOH B:371
BINDING SITE FOR RESIDUE ZN B 503
15
BC6
SOFTWARE
GLY B:196 , PHE B:197 , GLY B:200 , PRO B:201 , ASN B:205 , ARG B:209
BINDING SITE FOR RESIDUE KOJ B 1351
16
BC7
SOFTWARE
HOH A:363 , HIS B:49
BINDING SITE FOR RESIDUE ZN B 504
17
BC8
SOFTWARE
GLU B:95 , HOH B:364
BINDING SITE FOR RESIDUE ZN B 505
18
BC9
SOFTWARE
THR B:175 , HIS B:245 , HOH B:388
BINDING SITE FOR RESIDUE ZN B 506
19
CC1
SOFTWARE
HIS B:279 , HOH B:383
BINDING SITE FOR RESIDUE ZN B 507
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3nq1a_ (A:)
1b: SCOP_d3nq1b_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Di-copper centre-containing domain
(47)
Superfamily
:
Di-copper centre-containing domain
(47)
Family
:
automated matches
(12)
Protein domain
:
automated matches
(12)
Bacillus megaterium [TaxId: 1404]
(12)
1a
d3nq1a_
A:
1b
d3nq1b_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Tyrosinase_3nq1B01 (B:32-244)
1b: PFAM_Tyrosinase_3nq1B02 (B:32-244)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Di-copper
(13)
Family
:
Tyrosinase
(10)
Bacillus megaterium
(6)
1a
Tyrosinase-3nq1B01
B:32-244
1b
Tyrosinase-3nq1B02
B:32-244
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (106 KB)
Header - Asym.Unit
Biol.Unit 1 (99 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
3NQ1
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
