1P7K	Immune System	date	May 02, 2003
title	Crystal Structure Of An Anti-Ssdna Antigen-Binding Fragment Bound To 4-(2-Hydroxyethyl)Piperazine-1-Ethanesulfonic Acid
authors	J.P.Schuermann, M.T.Henzl, S.L.Deutscher, J.J.Tanner
compound		source
Molecule: Antibody Light Chain Fab Chain: L, A Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Dh12s Expression_system_vector_type: Plasmid Expression_system_plasmid: Pcomb36-His
Molecule: Antibody Heavy Chain Fab Chain: H, B Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Dh12s Expression_system_vector_type: Plasmid Expression_system_plasmid: Pcomb36-His
symmetry	Space Group: P 21 21 2	R_factor 0.197 R_Free 0.230
crystal cell	length a length b length c angle alpha angle beta angle gamma 107.666 156.703 61.003 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.75 Å
ligand	1PE, EPE, GOL, PEG, SO4	enzyme
related structures	by homologous chain: 1G7J, 1MVU, 1Q9W, 1RUA
Primary reference	Structure of an anti-DNA fab complexed with a non-DNA ligand provides insights into cross-reactivity and molecular mimicry., Schuermann JP, Henzl MT, Deutscher SL, Tanner JJ, Proteins 2004 Nov 1;57(2):269-78. PMID:15340914

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (159 Kb) [Save to disk] Biological Unit Coordinates (1p7k.pdb1.gz) 79 Kb Biological Unit Coordinates (1p7k.pdb2.gz) 77 Kb LPC: Ligand-Protein Contacts for 1P7K CSU: Contacts of Structural Units for 1P7K Likely Quarternary Molecular Structure file(s) for 1P7K Structure Factors (817 Kb) Retrieve 1P7K in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1P7K from S2C, [Save to disk] Re-refined 1p7k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1P7K 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 1P7K

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 1P7K, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1p7ka1, region A:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1p7ka2, region A:108-214 [Jmol] [rasmolscript] [script source]     - Domain d1p7kb1, region B:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1p7kb2, region B:114-214 [Jmol] [rasmolscript] [script source]     - Domain d1p7kh1, region H:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1p7kh2, region H:114-215 [Jmol] [rasmolscript] [script source]     - Domain d1p7kl1, region L:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1p7kl2, region L:108-213 [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: [1p7k_L] [1p7k_A] [1p7k] [1p7k_H] [1p7k_B] SWISS-PROT database: [P01837] [Q9JL75] Domain organization of [IGKC_MOUSE] [Q9JL75_MOUSE] by SWISSPFAM Domains found in 1P7K: [IG_like] [IGv ] by SMART

Other resources with information on 1P7K

Community annotation for 1P7K at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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