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.
2V8A
Asym. Unit
Info
Asym.Unit (52 KB)
Biol.Unit 1 (135 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE STRUCTURE OF THERMOSYNECHOCOCCUS ELONGATUS ALLOPHYCOCYANIN AT 3.5 ANGSTROEMS.
Authors
:
J. W. Murray, K. Maghlaoui, J. Barber
Date
:
06 Aug 07 (Deposition) - 11 Dec 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (3x)
Keywords
:
Antenna, Transport, Chromophore, Methylation, Bile Pigment, Phycobilisome, Photosynthesis, Light-Harvesting, Electron Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. W. Murray, K. Maghlaoui, J. Barber
The Structure Of Allophycocyanin From Thermosynechococcus Elongatus At 3. 5 A Resolution.
Acta Crystallogr. , Sect. F V. 63 998 2007
[
close entry info
]
Hetero Components
(2, 3)
Info
All Hetero Components
1a: PHYCOCYANOBILIN (CYCa)
1b: PHYCOCYANOBILIN (CYCb)
2a: N-METHYL ASPARAGINE (MENa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CYC
2
Ligand/Ion
PHYCOCYANOBILIN
2
MEN
1
Mod. Amino Acid
N-METHYL ASPARAGINE
[
close Hetero Component info
]
Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL A:65 , ASN A:71 , ALA A:72 , MET A:77 , THR A:80 , CYS A:81 , ARG A:83 , ASP A:84 , TYR A:87 , TYR A:88 , ILE A:107 , GLY A:108 , MET A:115 , TYR A:116 , THR A:121 , PRO A:122 , ALA A:125 , VAL A:126 , TYR B:62 , THR B:66 , TYR B:73 , THR B:74
BINDING SITE FOR RESIDUE CYC A1081
2
AC2
SOFTWARE
MEN B:71 , MET B:72 , ARG B:76 , ARG B:77 , CYS B:81 , ARG B:83 , ASP B:84 , LEU B:85 , ARG B:107 , VAL B:121 , PRO B:122 , THR B:126
BINDING SITE FOR RESIDUE CYC B1081
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2v8aB00 (B:1-161)
1b: CATH_2v8aA00 (A:2-161)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Globin-like
(786)
Homologous Superfamily
:
Phycocyanins
(32)
Thermosynechococcus elongatus. Organism_taxid: 197221. Strain: bp-1.
(1)
1a
2v8aB00
B:1-161
1b
2v8aA00
A:2-161
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Phycobilisome_2v8aA01 (A:5-161)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Globin
(291)
Family
:
Phycobilisome
(15)
Thermosynechococcus elongatus (strain BP-1)
(4)
1a
Phycobilisome-2v8aA01
A:5-161
[
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 (52 KB)
Header - Asym.Unit
Biol.Unit 1 (135 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
2V8A
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
