1DQL	Immune System	date	Jan 04, 2000
title	Crystal Structure Of An Unliganded (Native) Fv From A Human Peptide Antibody
authors	P.A.Ramsland, L.Shan, C.R.Moomaw, C.A.Slaughter, L.W.Guddat, A.B.
compound		source
Molecule: Igm Mez Immunoglobulin Chain: L Fragment: Light Chain Variable Domain Fragment		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
Molecule: Igm Mez Immunoglobulin Chain: H Fragment: Heavy Chain Variable Domain Fragment		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: P 1 21 1	R_factor 0.181 R_Free 0.261
crystal cell	length a length b length c angle alpha angle beta angle gamma 53.570 61.130 42.200 90.00 96.90 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	PCA	enzyme
related structures	by homologous chain: 1I9J, 1IGC
Primary reference	An unusual human IgM antibody with a protruding HCDR3 and high avidity for its peptide ligands., Ramsland PA, Shan L, Moomaw CR, Slaughter CA, Fan Z, Guddat LW, Edmundson AB, Mol Immunol 2000 Apr;37(6):295-310. PMID:11000403

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk] Biological Unit Coordinates (1dql.pdb1.gz) 36 Kb LPC: Ligand-Protein Contacts for 1DQL CSU: Contacts of Structural Units for 1DQL Likely Quarternary Molecular Structure file(s) for 1DQL Structure Factors (71 Kb) Retrieve 1DQL in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DQL from S2C, [Save to disk] Re-refined 1dql structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1DQL 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 1DQL

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 1DQL, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1dqlh_, region H [Jmol] [rasmolscript] [script source]     - Domain d1dqll_, region L [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: [1dql_H] [1dql_L] [1dql] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 1DQL: [IGv ] by SMART

Other resources with information on 1DQL

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

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