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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2I0Q
Asym. Unit
Info
Asym.Unit (129 KB)
Biol.Unit 1 (123 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 A TELOMERE SINGLE-STRAND DNA-PROTEIN COMPLEX FROM O. NOVA WITH FULL-LENGTH ALPHA AND BETA TELOMERE PROTEINS
Authors
:
M. P. Horvath, P. Buczek
Date
:
11 Aug 06 (Deposition) - 22 Aug 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.91
Chains
:
Asym. Unit : A,B,D
Biol. Unit 1: A,B,D (1x)
Keywords
:
Single Strand Dna-Protein Complex, Structural Protein/Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
P. Buczek, M. P. Horvath
Structural Reorganization And The Cooperative Binding Of Single-Stranded Telomere Dna In Sterkiella Nova.
J. Biol. Chem. V. 281 40124 2006
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 9)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
[
close Hetero Component info
]
Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:157
BINDING SITE FOR RESIDUE CL A 496
2
AC2
SOFTWARE
ARG A:481 , ASN A:483 , GLY A:484 , LYS B:182 , GLY B:183
BINDING SITE FOR RESIDUE CL A 497
3
AC3
SOFTWARE
GLN A:423 , HOH A:635 , GLN B:149 , ARG B:152
BINDING SITE FOR RESIDUE CL A 498
4
AC4
SOFTWARE
THR A:126 , ARG A:128 , ASN A:137 , LYS A:447
BINDING SITE FOR RESIDUE CL A 499
5
AC5
SOFTWARE
HIS A:234 , GLU A:235 , VAL A:334 , TYR A:474 , HOH A:553 , HOH A:615
BINDING SITE FOR RESIDUE EDO A 500
6
AC6
SOFTWARE
SER A:208 , TYR A:211 , HOH A:647 , HOH A:702
BINDING SITE FOR RESIDUE EDO A 501
7
AC7
SOFTWARE
THR A:82 , LEU A:83 , TYR A:84 , LEU A:85 , ASP A:96
BINDING SITE FOR RESIDUE EDO A 502
8
AC8
SOFTWARE
GLU A:379 , PRO A:380 , SER A:381 , GLY B:166 , ASP B:167 , ASN B:168
BINDING SITE FOR RESIDUE EDO B 386
9
AC9
SOFTWARE
ARG A:370 , GLN A:372
BINDING SITE FOR RESIDUE EDO A 503
[
close Site info
]
SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_TEBB_STENO_001 (A110S, chain B, )
2: VAR_TEBA_STENO_002 (A311S, chain A, )
3: VAR_TEBA_STENO_003 (D456E, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_TEBB_STENO_001
*
A
110
S
TEBB_STENO
---
---
B
A
110
S
2
UniProt
VAR_TEBA_STENO_002
*
A
311
S
TEBA_STENO
---
---
A
A
311
S
3
UniProt
VAR_TEBA_STENO_003
*
D
456
E
TEBA_STENO
---
---
A
D
456
E
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2i0qb1 (B:9-224)
2a: SCOP_d2i0qa1 (A:35-204)
2b: SCOP_d2i0qa2 (A:205-328)
2c: SCOP_d2i0qa3 (A:329-495)
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
:
Single strand DNA-binding domain, SSB
(96)
Protein domain
:
Core domain of telomere end binding protein beta subunit
(14)
Oxytricha nova [TaxId: 200597]
(14)
1a
d2i0qb1
B:9-224
Protein domain
:
Telomere end binding protein alpha subunit
(16)
Oxytricha nova [TaxId: 200597]
(16)
2a
d2i0qa1
A:35-204
2b
d2i0qa2
A:205-328
2c
d2i0qa3
A:329-495
[
close SCOP info
]
CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2i0qA02 (A:211-326)
1b: CATH_2i0qA01 (A:37-210)
1c: CATH_2i0qA03 (A:327-495)
2a: CATH_2i0qB00 (B:9-224)
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)
[unclassified]
(49)
1a
2i0qA02
A:211-326
1b
2i0qA01
A:37-210
1c
2i0qA03
A:327-495
Topology
:
Telomere-binding Protein Beta Subunit; Chain B
(14)
Homologous Superfamily
:
Telomere-binding Protein Beta Subunit; Chain
(14)
[unclassified]
(14)
2a
2i0qB00
B:9-224
[
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 D
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 (129 KB)
Header - Asym.Unit
Biol.Unit 1 (123 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
2I0Q
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help