4EDX	Immune System	date	Mar 27, 2012
title	Nerve Growth Factor In Complex With Fab From Mouse Mab 911
authors	C.Eigenbrot, M.Ultsch
compound		source
Molecule: Beta-Nerve Growth Factor Chain: W, V Synonym: Beta-Ngf Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ngf, Ngfb Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Light Chain Of Fab Of Murine Anti-Ngf Chain: A, L Engineered: Yes		Organism_scientific: Mus Musculus Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Heavy Chain Of Fab Of Murine Anti-Ngf Chain: B, H Engineered: Yes		Organism_scientific: Mus Musculus Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1	R_factor 0.208 R_Free 0.258
crystal cell	length a length b length c angle alpha angle beta angle gamma 57.748 69.931 83.736 104.34 94.13 110.42
method	X-Ray Diffraction	resolution	2.50 Å
Gene Ontology	Chain Function Process Component W, V
Primary reference	Generation of a high-fidelity antibody against nerve growth factor using library scanning mutagenesis and validation with structures of the initial and optimized Fab-antigen complexes., La Porte SL, Eigenbrot C, Ultsch M, Ho WH, Foletti D, Forgie A, Lindquist KC, Shelton DL, Pons J, MAbs. 2014 Jul-Aug;6(4):1059-68. PMID:24830649

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (353 Kb) [Save to disk] Biological Unit Coordinates (4edx.pdb1.gz) 346 Kb CSU: Contacts of Structural Units for 4EDX Structure Factors (491 Kb) Retrieve 4EDX in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4EDX from S2C, [Save to disk] Re-refined 4edx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4EDX 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 4EDX

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 4EDX, from MSDmotif at EBI Fold representative 4edx from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4edx] [4edx_L] [4edx_B] [4edx_A] [4edx_H] [4edx_W] [4edx_V] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4EDX: [IG_like] [IGv] [NGF ] by SMART

Other resources with information on 4EDX

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