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.
4NBS
Asym. Unit
Info
Asym.Unit (80 KB)
Biol.Unit 1 (75 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 AIF2GAMMA SUBUNIT H20F FROM ARCHAEON SULFOLOBUS SOLFATARICUS COMPLEXED WITH GDPCP
Authors
:
O. V. Kravchenko, O. S. Nikonov, V. I. Arhipova, E. A. Stolboushkina, A. G. Gabdulkhakov, A. D. Nikulin, M. B. Garber, S. V. Nikonov
Date
:
23 Oct 13 (Deposition) - 29 Oct 14 (Release) - 29 Oct 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.31
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Translation Initiation, Rna-Binding, Gtp-Binding, Translation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. V. Kravchenko, O. S. Nikonov, V. I. Arhipova, E. A. Stolboushkina, A. G. Gabdulkhakov, A. D. Nikulin, M. B. Garber, S. V. Nikonov
The Structure Of Aif2Gamma Subunit H20F From Archaeon Sulfolobus Solfataricus Complexed With Gdpcp
To Be Published
[
close entry info
]
Hetero Components
(4, 19)
Info
All Hetero Components
1a: FORMIC ACID (FMTa)
1b: FORMIC ACID (FMTb)
1c: FORMIC ACID (FMTc)
1d: FORMIC ACID (FMTd)
1e: FORMIC ACID (FMTe)
1f: FORMIC ACID (FMTf)
1g: FORMIC ACID (FMTg)
1h: FORMIC ACID (FMTh)
1i: FORMIC ACID (FMTi)
1j: FORMIC ACID (FMTj)
1k: FORMIC ACID (FMTk)
1l: FORMIC ACID (FMTl)
1m: FORMIC ACID (FMTm)
1n: FORMIC ACID (FMTn)
1o: FORMIC ACID (FMTo)
2a: PHOSPHOMETHYLPHOSPHONIC ACID GUANY... (GCPa)
3a: MAGNESIUM ION (MGa)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FMT
15
Ligand/Ion
FORMIC ACID
2
GCP
1
Ligand/Ion
PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
3
MG
1
Ligand/Ion
MAGNESIUM ION
4
NA
2
Ligand/Ion
SODIUM 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
VAL A:18 , ASP A:19 , PHE A:20 , GLY A:21 , LYS A:22 , THR A:23 , THR A:24 , MET A:45 , THR A:46 , GLY A:96 , ASN A:149 , LYS A:150 , ASP A:152 , VAL A:153 , SER A:184 , ALA A:185 , LEU A:186 , MG A:502 , HOH A:601 , HOH A:608 , HOH A:625 , HOH A:629 , HOH A:630 , HOH A:724 , HOH A:779 , HOH A:789 , HOH A:797 , HOH A:864
BINDING SITE FOR RESIDUE GCP A 501
02
AC2
SOFTWARE
THR A:23 , THR A:46 , GCP A:501 , HOH A:601 , HOH A:797
BINDING SITE FOR RESIDUE MG A 502
03
AC3
SOFTWARE
LYS A:212 , GLN A:244 , TRP A:389 , SER A:390
BINDING SITE FOR RESIDUE FMT A 503
04
AC4
SOFTWARE
PHE A:221
BINDING SITE FOR RESIDUE FMT A 504
05
AC5
SOFTWARE
ARG A:219 , ALA A:296 , HOH A:709
BINDING SITE FOR RESIDUE FMT A 505
06
AC6
SOFTWARE
LEU A:312 , SER A:364 , THR A:365 , HOH A:640 , HOH A:660
BINDING SITE FOR RESIDUE FMT A 506
07
AC7
SOFTWARE
THR A:366 , LEU A:367 , ARG A:383 , ARG A:384
BINDING SITE FOR RESIDUE FMT A 507
08
AC8
SOFTWARE
ARG A:43 , VAL A:99 , HOH A:691 , HOH A:713
BINDING SITE FOR RESIDUE FMT A 508
09
AC9
SOFTWARE
VAL A:223 , ARG A:280 , HOH A:674
BINDING SITE FOR RESIDUE FMT A 509
10
BC1
SOFTWARE
HOH A:857 , HOH A:893
BINDING SITE FOR RESIDUE FMT A 510
11
BC2
SOFTWARE
ARG A:352 , LYS A:354
BINDING SITE FOR RESIDUE FMT A 511
12
BC3
SOFTWARE
LYS A:347 , VAL A:348 , ASP A:349 , ARG A:399
BINDING SITE FOR RESIDUE FMT A 512
13
BC4
SOFTWARE
ARG A:130 , FMT A:515 , HOH A:787
BINDING SITE FOR RESIDUE FMT A 513
14
BC5
SOFTWARE
TRP A:33 , SER A:35 , GLU A:40 , GLY A:44 , MET A:45 , THR A:46 , HOH A:797
BINDING SITE FOR RESIDUE FMT A 514
15
BC6
SOFTWARE
ARG A:130 , ASP A:250 , LYS A:275 , FMT A:513 , HOH A:842
BINDING SITE FOR RESIDUE FMT A 515
16
BC7
SOFTWARE
GLU A:252 , GLU A:344 , MET A:345
BINDING SITE FOR RESIDUE FMT A 516
17
BC8
SOFTWARE
THR A:103 , HOH A:857 , HOH A:885
BINDING SITE FOR RESIDUE FMT A 517
18
BC9
SOFTWARE
VAL A:151 , VAL A:154 , TRP A:327 , ASN A:328 , HOH A:605 , HOH A:616
BINDING SITE FOR RESIDUE NA A 518
19
CC1
SOFTWARE
THR A:54 , THR A:70 , HOH A:641 , HOH A:653 , HOH A:712 , HOH A:848
BINDING SITE FOR RESIDUE NA A 519
[
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
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (80 KB)
Header - Asym.Unit
Biol.Unit 1 (75 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
4NBS
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
