12E8	Immunoglobulin	date	Mar 14, 1998
title	2e8 Fab Fragment
authors	B.Rupp, S.Trakhanov
compound		source
Molecule: Igg1-Kappa 2e8 Fab (Light Chain) Chain: L, M Fragment: Fab Fragment		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balbc Cell_line: 2e8 Hybridoma Organ: Spleen Cell: Lymphocyte-Plasma Cell
Molecule: Igg1-Kappa 2e8 Fab (Heavy Chain) Chain: H, P Fragment: Fab Fragment		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balbc Cell_line: 2e8 Hybridoma Organ: Spleen Cell: Lymphocyte-Plasma Cell
symmetry	Space Group: P 1 21 1	R_factor 0.221 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 66.560 65.570 103.220 90.00 97.04 90.00
method	X-Ray Diffraction	resolution	1.90 Å
related structures	by homologous chain: 1CE1, 1KN2, 1ORS
Primary reference	Structure of a monoclonal 2E8 Fab antibody fragment specific for the low-density lipoprotein-receptor binding region of apolipoprotein E refined at 1.9 A., Trakhanov S, Parkin S, Raffai R, Milne R, Newhouse YM, Weisgraber KH, Rupp B, Acta Crystallogr D Biol Crystallogr 1999 Jan;55 ( Pt 1):122-8. PMID:10089402

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk] Biological Unit Coordinates (12e8.pdb1.gz) 76 Kb Biological Unit Coordinates (12e8.pdb2.gz) 75 Kb CSU: Contacts of Structural Units for 12E8 Likely Quarternary Molecular Structure file(s) for 12E8 Structure Factors (429 Kb) Retrieve 12E8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 12E8 from S2C, [Save to disk] Re-refined 12e8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 12E8 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 12E8

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 12E8, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d12e8h1, region H:1-114 [Jmol] [rasmolscript] [script source]     - Domain d12e8h2, region H:115-214 [Jmol] [rasmolscript] [script source]     - Domain d12e8l1, region L:1-107 [Jmol] [rasmolscript] [script source]     - Domain d12e8l2, region L:108-214 [Jmol] [rasmolscript] [script source]     - Domain d12e8m1, region M:1-107 [Jmol] [rasmolscript] [script source]     - Domain d12e8m2, region M:108-214 [Jmol] [rasmolscript] [script source]     - Domain d12e8p1, region P:1-114 [Jmol] [rasmolscript] [script source]     - Domain d12e8p2, region P:115-214 [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: [12e8_M] [12e8_H] [12e8] [12e8_P] [12e8_L] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 12E8: [IG_like] [IGv ] by SMART

Other resources with information on 12E8

Community annotation for 12E8 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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