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.
2E6B
Biol. Unit 2
Info
Asym.Unit (157 KB)
Biol.Unit 1 (151 KB)
Biol.Unit 2 (297 KB)
Biol.Unit 3 (298 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 THE STATIONARY PHASE SURVIVAL PROTEIN SURE FROM THERMUS THERMOPHILUS HB8 IN COMPLEX WITH MAGNESIUM AND TUNGSTATE
Authors
:
W. Iwasaki, K. Miki
Date
:
26 Dec 06 (Deposition) - 28 Aug 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,B,C,D (2x)
Biol. Unit 3: A,B,C,D (2x)
Keywords
:
Sure Protein, Complex With Magnesium And Tungstate Ions, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. Iwasaki, K. Miki
Crystal Structure Of The Stationary Phase Survival Protein Sure With Metal Ion And Amp
J. Mol. Biol. V. 371 123 2007
[
close entry info
]
Hetero Components
(3, 32)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
4a: TUNGSTATE(VI)ION (WO4a)
4b: TUNGSTATE(VI)ION (WO4b)
4c: TUNGSTATE(VI)ION (WO4c)
4d: TUNGSTATE(VI)ION (WO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
4
Ligand/Ion
GLYCEROL
2
MG
-1
Ligand/Ion
MAGNESIUM ION
3
SO4
20
Ligand/Ion
SULFATE ION
4
WO4
8
Ligand/Ion
TUNGSTATE(VI)ION
[
close Hetero Component info
]
Sites
(20, 20)
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)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:8 , ASP A:9 , ASN A:96 , WO4 A:302
BINDING SITE FOR RESIDUE MG A 301
02
AC2
SOFTWARE
ASP A:8 , ASN A:96 , ASN A:100 , SER A:108 , GLY A:109 , THR A:110 , MG A:301
BINDING SITE FOR RESIDUE WO4 A 302
03
AC3
SOFTWARE
GLY A:102 , HIS A:103 , SER A:178 , VAL A:179 , ARG A:180 , TYR A:182 , ARG A:214 , HOH A:513
BINDING SITE FOR RESIDUE SO4 A 401
04
AC4
SOFTWARE
ARG A:180 , ARG A:214
BINDING SITE FOR RESIDUE SO4 A 402
05
AC5
SOFTWARE
ARG A:228 , LEU A:229 , ASP A:230
BINDING SITE FOR RESIDUE SO4 A 403
06
AC6
SOFTWARE
THR A:235 , ARG A:236 , PRO A:239 , THR A:240 , HOH A:510
BINDING SITE FOR RESIDUE SO4 A 404
07
AC7
SOFTWARE
ASP B:8 , ASP B:9 , ASN B:96 , WO4 B:1302
BINDING SITE FOR RESIDUE MG B 1301
08
AC8
SOFTWARE
ASP B:8 , ASN B:96 , ASN B:100 , SER B:108 , GLY B:109 , THR B:110 , MG B:1301 , HOH B:1427
BINDING SITE FOR RESIDUE WO4 B 1302
09
AC9
SOFTWARE
GLY B:102 , HIS B:103 , SER B:178 , ARG B:180 , TYR B:182 , ARG B:214
BINDING SITE FOR RESIDUE SO4 B 1401
10
BC1
SOFTWARE
ARG B:180 , HOH B:1430
BINDING SITE FOR RESIDUE SO4 B 1402
11
BC2
SOFTWARE
ILE A:45 , GLN A:116 , HIS B:103 , PRO B:202
BINDING SITE FOR RESIDUE SO4 B 1403
12
BC3
SOFTWARE
ASP C:8 , ASP C:9 , ASN C:96 , WO4 C:2302
BINDING SITE FOR RESIDUE MG C 2301
13
BC4
SOFTWARE
ASP C:8 , ASN C:96 , ASN C:100 , SER C:108 , GLY C:109 , THR C:110 , MG C:2301
BINDING SITE FOR RESIDUE WO4 C 2302
14
BC5
SOFTWARE
GLY C:102 , HIS C:103 , SER C:178 , ARG C:180 , TYR C:182 , ARG C:214 , HOH C:2416
BINDING SITE FOR RESIDUE SO4 C 2401
15
BC6
SOFTWARE
ASP D:8 , ASP D:9 , ASN D:96 , WO4 D:3302
BINDING SITE FOR RESIDUE MG D 3301
16
BC7
SOFTWARE
ASP D:8 , ASN D:96 , ASN D:100 , SER D:108 , GLY D:109 , THR D:110 , MG D:3301
BINDING SITE FOR RESIDUE WO4 D 3302
17
BC8
SOFTWARE
GLY D:102 , HIS D:103 , SER D:178 , ARG D:180 , TYR D:182 , ARG D:214
BINDING SITE FOR RESIDUE SO4 D 3401
18
BC9
SOFTWARE
ARG D:180
BINDING SITE FOR RESIDUE SO4 D 3402
19
CC1
SOFTWARE
SER A:24 , VAL A:29 , HIS A:64 , PRO A:66
BINDING SITE FOR RESIDUE GOL A 501
20
CC2
SOFTWARE
VAL B:29 , PRO B:55 , HIS B:64
BINDING SITE FOR RESIDUE GOL B 502
[
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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2e6ba_ (A:)
1b: SCOP_d2e6bb_ (B:)
1c: SCOP_d2e6bc_ (C:)
1d: SCOP_d2e6bd_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
SurE-like
(17)
Superfamily
:
SurE-like
(17)
Family
:
automated matches
(12)
Protein domain
:
automated matches
(12)
Thermus thermophilus HB8 [TaxId: 300852]
(6)
1a
d2e6ba_
A:
1b
d2e6bb_
B:
1c
d2e6bc_
C:
1d
d2e6bd_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2e6bA00 (A:1-242)
1b: CATH_2e6bC00 (C:1-238)
1c: CATH_2e6bD00 (D:1-237)
1d: CATH_2e6bB00 (B:1-241)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Stationary-phase Survival Protein Sure Homolog; Chain: A,
(14)
Homologous Superfamily
:
[code=3.40.1210.10, no name defined]
(14)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(6)
1a
2e6bA00
A:1-242
1b
2e6bC00
C:1-238
1c
2e6bD00
D:1-237
1d
2e6bB00
B:1-241
[
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
Chain B
Chain C
Chain D
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 (157 KB)
Header - Asym.Unit
Biol.Unit 1 (151 KB)
Header - Biol.Unit 1
Biol.Unit 2 (297 KB)
Header - Biol.Unit 2
Biol.Unit 3 (298 KB)
Header - Biol.Unit 3
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
2E6B
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
