OCA Atlas for 1JB7

1JB7

Dna-Binding Protein Dna

date

Jun 02, 2001

title

Dna G-Quartets In A 1.86 A Resolution Structure Of An Oxytri Telomeric Protein-Dna Complex

authors

M.P.Horvath, S.C.Schultz

compound

source

Molecule: 5'-D(Gpgpgpgptptptptpgpgpgpg)-3'
Chain: D, G, H
Engineered: Yes
Other_details: Chain D Is Single Strand Dna. Chains G And H Quartet Linked Dna Dimer;

Synthetic: Yes
Other_details: 3' Terminal Single Strand Dna Sequence Of Macronuclear Telomeres;

Molecule: Telomere-Binding Protein Alpha Subunit
Chain: A
Engineered: Yes
Other_details: Alanine Version

Organism_scientific: Sterkiella Nova
Organism_taxid: 200597
Gene: Mac-56a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkkt7

Molecule: Telomere-Binding Protein Beta Subunit
Chain: B
Fragment: 28 Kda N-Terminal Core
Engineered: Yes

Organism_scientific: Sterkiella Nova
Organism_taxid: 200597
Gene: Mac-41a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkkt7

symmetry

Space Group: P 61 2 2

R_factor

0.230

R_Free

0.246

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
93.100	93.100	421.800	90.00	90.00	120.00

method

X-Ray Diffraction

resolution

1.86 Å

ligand

CL, NA

enzyme

related structures

by homologous chain: 1PH6

Gene
Ontology

Chain	Function	Process	Component
A
B

Primary reference

DNA G-quartets in a 1.86 A resolution structure of an Oxytricha nova telomeric protein-DNA complex., Horvath MP, Schultz SC, J Mol Biol 2001 Jul 6;310(2):367-77. PMID:11428895

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (147 Kb) [Save to disk]

Biological Unit Coordinates (1jb7.pdb1.gz) 140 Kb

LPC: Ligand-Protein Contacts for 1JB7

CSU: Contacts of Structural Units for 1JB7

Likely Quarternary Molecular Structure file(s) for 1JB7

Structure Factors (844 Kb)

Retrieve 1JB7 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 1JB7 from S2C, [Save to disk]

Re-refined 1jb7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1JB7 in 3D

Proteopedia, because life has more than 2D.

On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.

On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 1JB7

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 1JB7, from MSDmotif at EBI

Classification of representative domains in scop (Structural Classification of Proteins)
- Domain d1jb7a2, region A:205-328 [Jmol] [rasmolscript] [script source]
- Domain d1jb7a3, region A:329-495 [Jmol] [rasmolscript] [script source]
- Domain d1jb7a1, region A:36-204 [Jmol] [rasmolscript] [script source]
- Domain d1jb7b_, region B [Jmol] [rasmolscript] [script source]

Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH

Summaries and structural analyses of PDB data files from PDBSum

Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1jb7_G] [1jb7_D] [1jb7_B] [1jb7_A] [1jb7_H] [1jb7]

SWISS-PROT database: [P29549] [P16458]

Domain organization of [TEBA_OXYNO] [TEBB_OXYNO] by SWISSPFAM

Domain found in 1JB7: [Telo_bind ] by SMART

Other resources with information on 1JB7

Community annotation for 1JB7 at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]