OCA Atlas for 2OJZ

2OJZ

Immune System

date

Jan 15, 2007

title

Anti-Dna Antibody Ed10

authors

R.L.Stanfield, S.Sanguineti, I.A.Wilson, G.De Prat-Gay

compound

source

Molecule: Fab Ed10 Light Chain
Chain: L, M

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

Molecule: Fab Ed10 Heavy Chain
Chain: H, I

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090

symmetry

Space Group: P 21 21 2

R_factor

0.201

R_Free

0.264

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
87.899	194.045	61.174	90.00	90.00	90.00

method

X-Ray Diffraction

resolution

2.73 Å

Gene
Ontology

Chain	Function	Process	Component
M, L

Primary reference

Specific recognition of a DNA immunogen by its elicited antibody., Sanguineti S, Centeno Crowley JM, Lodeiro Merlo MF, Cerutti ML, Wilson IA, Goldbaum FA, Stanfield RL, de Prat-Gay G, J Mol Biol. 2007 Jun 29;370(1):183-95. Epub 2007 Apr 24. PMID:17512945

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]

Biological Unit Coordinates (2ojz.pdb1.gz) 68 Kb

Biological Unit Coordinates (2ojz.pdb2.gz) 68 Kb

CSU: Contacts of Structural Units for 2OJZ

Likely Quarternary Molecular Structure file(s) for 2OJZ

Structure Factors (190 Kb)

Retrieve 2OJZ in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 2OJZ from S2C, [Save to disk]

Re-refined 2ojz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2OJZ 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 2OJZ

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 2OJZ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2ojz_I] [2ojz_M] [2ojz_L] [2ojz] [2ojz_H]

SWISS-PROT database: [A2NHM3]

Domain organization of [A2NHM3_MOUSE] by SWISSPFAM

Domains found in 2OJZ: [IG_like] [IGv ] by SMART

Other resources with information on 2OJZ

Community annotation for 2OJZ at PDBWiki (http://pdbwiki.org)

MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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