1F58	Viral Protein Immune System	date	Oct 21, 1998
title	Igg1 Fab Fragment (58.2) Complex With 24-Residue Peptide (Re 308-333 Of Hiv-1 Gp120 (Mn Isolate) With Ala To Aib Substit Position 323
authors	R.L.Stanfield, E.Cabezas, A.C.Satterthwait, E.A.Stura, A.T.Profy I.A.Wilson
compound		source
Molecule: Protein (Igg1 Antibody 58.2 (Light Chain)) Chain: L Synonym: Fab 58.2		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balb-C
Molecule: Protein (Igg1 Antibody 58.2 (Heavy Chain)) Chain: H Synonym: Fab 58.2		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: Balb-C
Molecule: Envelope Glycoprotein Gp120 Chain: P Fragment: Residues 308-332 From Hiv-1 Gp120 Synonym: Env Polyprotein Engineered: Yes		Synthetic: Yes Organism_scientific: Human Immunodeficiency Virus Type 1 Gr Subtype B; Organism_common: Isolate Mn Organism_taxid: 11696 Other_details: The Molecule Was Chemically Synthesized
symmetry	Space Group: C 1 2 1	R_factor 0.196 R_Free 0.256
crystal cell	length a length b length c angle alpha angle beta angle gamma 72.890 71.910 88.250 90.00 98.31 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	AIB	enzyme
related structures	by homologous chain: 1HIL, 1YEG
Gene Ontology	Chain Function Process Component L P
Primary reference	Dual conformations for the HIV-1 gp120 V3 loop in complexes with different neutralizing fabs., Stanfield R, Cabezas E, Satterthwait A, Stura E, Profy A, Wilson I, Structure Fold Des 1999 Feb 15;7(2):131-42. PMID:10368281

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk] Biological Unit Coordinates (1f58.pdb1.gz) 73 Kb LPC: Ligand-Protein Contacts for 1F58 CSU: Contacts of Structural Units for 1F58 Likely Quarternary Molecular Structure file(s) for 1F58 Structure Factors (230 Kb) Retrieve 1F58 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1F58 from S2C, [Save to disk] Re-refined 1f58 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1F58 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 1F58

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 1F58, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1f58h1, region H:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1f58h2, region H:114-230 [Jmol] [rasmolscript] [script source]     - Domain d1f58l1, region L:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1f58l2, region L:108-212 [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: [1f58_L] [1f58_P] [1f58_H] [1f58] SWISS-PROT database: [P05877] [P01869] [P01666] [Q99LC4] Domain organization of [ENV_HV1MN] [IGH1M_MOUSE] [KV3AE_MOUSE] [Q99LC4_MOUSE] by SWISSPFAM Domains found in 1F58: [IG_like] [IGv ] by SMART

Other resources with information on 1F58

Community annotation for 1F58 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1F58 from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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