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.
4WUC
Biol. Unit 1
Info
Asym.Unit (134 KB)
Biol.Unit 1 (254 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
N-TERMINAL 43 KDA FRAGMENT OF THE E. COLI DNA GYRASE B SUBUNIT GROWN FROM 100 MM NACL CONDITION
Authors
:
S. J. Hearnshaw, T. T. Chung, C. E. M. Stevenson, A. Maxwell, D. M. Lawson
Date
:
31 Oct 14 (Deposition) - 08 Apr 15 (Release) - 22 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Dna Gyrase, Atpase Domain, Atpase Activity, Ghkl Superfamily, Monovalent Cations, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. J. Hearnshaw, T. T. Chung, C. E. M. Stevenson, A. Maxwell, D. M. Lawso
The Role Of Monovalent Cations In The Atpase Reaction Of Dn Gyrase
Acta Crystallogr. , Sect. D V. 71 996 2015
[
close entry info
]
Hetero Components
(1, 2)
Info
All Hetero Components
1a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
2a: CHLORIDE ION (CLa)
3a: MAGNESIUM ION (MGa)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ANP
2
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
MG
-1
Ligand/Ion
MAGNESIUM ION
4
NA
-1
Ligand/Ion
SODIUM ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:5 , ILE A:10 , GLU A:42 , ASN A:46 , GLU A:50 , ASP A:73 , ILE A:78 , ILE A:94 , ALA A:100 , GLY A:101 , GLY A:102 , LYS A:103 , TYR A:109 , GLY A:114 , LEU A:115 , HIS A:116 , GLY A:117 , VAL A:118 , GLY A:119 , VAL A:120 , THR A:165 , GLN A:335 , LYS A:337 , MG A:402 , NA A:403 , HOH A:532 , HOH A:551 , HOH A:552 , HOH A:558 , HOH A:559 , HOH A:566
binding site for residue ANP A 401
2
AC2
SOFTWARE
ASN A:46 , ANP A:401 , HOH A:551 , HOH A:552
binding site for residue MG A 402
3
AC3
SOFTWARE
ILE A:94 , VAL A:97 , ALA A:100 , GLY A:117 , SER A:121 , ANP A:401
binding site for residue NA A 403
4
AC4
SOFTWARE
LYS A:103 , ASP A:105 , HOH A:537 , HOH A:542 , HOH A:581 , HOH A:589
binding site for residue NA A 404
5
AC5
SOFTWARE
ASP A:6 , SER A:7 , THR A:80 , GLY A:81 , ARG A:136
binding site for residue CL A 405
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
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
Asymmetric Unit 2
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 (134 KB)
Header - Asym.Unit
Biol.Unit 1 (254 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
4WUC
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
