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.
1UEB
Biol. Unit 2
Info
Asym.Unit (70 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (34 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 TRANSLATION ELONGATION FACTOR P FROM THERMUS THERMOPHILUS HB8
Authors
:
K. Hanawa-Suetsugu, S. Sekine, H. Sakai, C. Hori-Takemoto, T. Terada, S. Kuramitsu, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
09 May 03 (Deposition) - 25 May 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Beta Barrel, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics, Rna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Hanawa-Suetsugu, S. Sekine, H. Sakai, C. Hori-Takemoto, T. Terada, S. Unzai, J. R. H. Tame, S. Kuramitsu, M. Shirouzu, S. Yokoyama
Crystal Structure Of Elongation Factor P From Thermus Thermophilus Hb8
Proc. Natl. Acad. Sci. Usa V. 101 9595 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: EFP (B:349-368)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EFP
PS01275
Elongation factor P signature.
EFP_THET8
149-168
1
-
B:349-368
[
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, 6)
Info
All SCOP Domains
1a: SCOP_d1ueba2 (A:64-126)
1b: SCOP_d1ueba3 (A:127-184)
1c: SCOP_d1uebb2 (B:264-326)
1d: SCOP_d1uebb3 (B:327-384)
2a: SCOP_d1ueba1 (A:1-63)
2b: SCOP_d1uebb1 (B:201-263)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
OB-fold
(1179)
Superfamily
:
Nucleic acid-binding proteins
(590)
Family
:
Cold shock DNA-binding domain-like
(310)
Protein domain
:
Elongation factor P middle and C-terminal domains
(1)
Thermus thermophilus HB8 [TaxId: 300852]
(1)
1a
d1ueba2
A:64-126
1b
d1ueba3
A:127-184
1c
d1uebb2
B:264-326
1d
d1uebb3
B:327-384
Fold
:
SH3-like barrel
(1035)
Superfamily
:
Translation proteins SH3-like domain
(251)
Family
:
eIF5a N-terminal domain-like
(8)
Protein domain
:
Elongation factor P N-terminal domain
(1)
Thermus thermophilus HB8 [TaxId: 300852]
(1)
2a
d1ueba1
A:1-63
2b
d1uebb1
B:201-263
[
close SCOP info
]
CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_1uebA02 (A:64-126)
1b: CATH_1uebB02 (B:264-326)
1c: CATH_1uebA03 (A:127-184)
1d: CATH_1uebB03 (B:327-384)
2a: CATH_1uebA01 (A:1-63)
2b: CATH_1uebB01 (B:201-263)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
OB fold (Dihydrolipoamide Acetyltransferase, E2P)
(1040)
Homologous Superfamily
:
Nucleic acid-binding proteins
(483)
Thermus thermophilus. Organism_taxid: 274.
(5)
1a
1uebA02
A:64-126
1b
1uebB02
B:264-326
1c
1uebA03
A:127-184
1d
1uebB03
B:327-384
Architecture
:
Roll
(1513)
Topology
:
SH3 type barrels.
(648)
Homologous Superfamily
:
[code=2.30.30.30, no name defined]
(111)
Thermus thermophilus. Organism_taxid: 274.
(1)
2a
1uebA01
A:1-63
2b
1uebB01
B:201-263
[
close CATH info
]
Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_EFP_N_1uebB01 (B:203-260)
1b: PFAM_EFP_N_1uebB02 (B:203-260)
2a: PFAM_EFP_1uebB03 (B:267-320)
2b: PFAM_EFP_1uebB04 (B:267-320)
3a: PFAM_Elong_fact_P_C_1uebB05 (B:328-383)
3b: PFAM_Elong_fact_P_C_1uebB06 (B:328-383)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
KOW
(56)
Family
:
EFP_N
(3)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
1a
EFP_N-1uebB01
B:203-260
1b
EFP_N-1uebB02
B:203-260
Clan
:
OB
(224)
Family
:
EFP
(3)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
2a
EFP-1uebB03
B:267-320
2b
EFP-1uebB04
B:267-320
Clan
:
no clan defined [family: Elong-fact-P_C]
(3)
Family
:
Elong-fact-P_C
(3)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(1)
3a
Elong-fact-P_C-1uebB05
B:328-383
3b
Elong-fact-P_C-1uebB06
B:328-383
[
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 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 (70 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
Biol.Unit 2 (34 KB)
Header - Biol.Unit 2
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
1UEB
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
