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.
1WXW
Biol. Unit 2
Info
Asym.Unit (252 KB)
Biol.Unit 1 (125 KB)
Biol.Unit 2 (127 KB)
Biol.Unit 3 (127 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 TT1595, A PUTATIVE SAM-DEPENDENT METHYLTRANSFERASE FROM THERMUS THERMOPHILLUS HB8
Authors
:
A. A. Pioszak, K. Murayama, N. Nakagawa, A. Ebihara, S. Kuramitsu, M. Sh S. Yokoyama, Riken Structural Genomics/Proteomics Initiative
Date
:
02 Feb 05 (Deposition) - 02 Aug 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.55
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C (2x)
Biol. Unit 3: D (2x)
Keywords
:
Thermus Thermophillus, Methyltransferase, Adomet, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Pioszak, K. Murayama, N. Nakagawa, A. Ebihara, S. Kuramitsu, M. Shirouzu, S. Yokoyama
Structures Of A Putative Rna 5-Methyluridine Methyltransferase, Thermus Thermophilus Ttha1280, And Its Complex With S-Adenosyl-L-Homocysteine.
Acta Crystallogr. , Sect. F V. 61 867 2005
[
close entry info
]
Hetero Components
(2, 10)
Info
All Hetero Components
1a: HEXANE-1,6-DIOL (HEZa)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEZ
2
Ligand/Ion
HEXANE-1,6-DIOL
2
MSE
8
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER C:15
BINDING SITE FOR RESIDUE HEZ C 400
[
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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1wxwa1 (A:1-64)
1b: SCOP_d1wxwb1 (B:1-64)
1c: SCOP_d1wxwc1 (C:1-64)
1d: SCOP_d1wxwd1 (D:1-64)
2a: SCOP_d1wxwa2 (A:65-382)
2b: SCOP_d1wxwb2 (B:65-382)
2c: SCOP_d1wxwc2 (C:65-382)
2d: SCOP_d1wxwd2 (D:65-382)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
PUA domain-like
(96)
Superfamily
:
PUA domain-like
(96)
Family
:
Hypothetical RNA methyltransferase domain (HRMD)
(6)
Protein domain
:
Hypothetical protein TTHA1280, N-terminal domain
(3)
Thermus thermophilus [TaxId: 274]
(3)
1a
d1wxwa1
A:1-64
1b
d1wxwb1
B:1-64
1c
d1wxwc1
C:1-64
1d
d1wxwd1
D:1-64
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Superfamily
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Family
:
hypothetical RNA methyltransferase
(7)
Protein domain
:
Hypothetical protein TTHA1280, middle and C-terminal domains
(3)
Thermus thermophilus [TaxId: 274]
(3)
2a
d1wxwa2
A:65-382
2b
d1wxwb2
B:65-382
2c
d1wxwc2
C:65-382
2d
d1wxwd2
D:65-382
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1wxwB03 (B:172-382)
1b: CATH_1wxwC03 (C:172-382)
1c: CATH_1wxwD03 (D:172-382)
1d: CATH_1wxwA03 (A:172-382)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Vaccinia Virus protein VP39
(378)
Thermus thermophilus hb8. Organism_taxid: 300852. Strain: hb8.
(2)
1a
1wxwB03
B:172-382
1b
1wxwC03
C:172-382
1c
1wxwD03
D:172-382
1d
1wxwA03
A:172-382
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Methyltrans_SAM_1wxwD01 (D:95-365)
1b: PFAM_Methyltrans_SAM_1wxwD02 (D:95-365)
1c: PFAM_Methyltrans_SAM_1wxwD03 (D:95-365)
1d: PFAM_Methyltrans_SAM_1wxwD04 (D:95-365)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
Methyltrans_SAM
(3)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(2)
1a
Methyltrans_SAM-1wxwD01
D:95-365
1b
Methyltrans_SAM-1wxwD02
D:95-365
1c
Methyltrans_SAM-1wxwD03
D:95-365
1d
Methyltrans_SAM-1wxwD04
D:95-365
[
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 C
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 (252 KB)
Header - Asym.Unit
Biol.Unit 1 (125 KB)
Header - Biol.Unit 1
Biol.Unit 2 (127 KB)
Header - Biol.Unit 2
Biol.Unit 3 (127 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
1WXW
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
