2QYP	Lipid Binding Protein	date	Aug 15, 2007
title	Orthorhombic Crystal Structure Of Human Saposin C Dimer In Open Conformation
authors	M.Rossmann, W.Saenger, T.Maier
compound		source
Molecule: Proactivator Polypeptide Chain: A, B Fragment: Saposin-C Domain Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Psap, Glba, Sap1 Expression_system: Pichia Pastoris Expression_system_taxid: 4922 Expression_system_strain: Gs115 Expression_system_vector_type: Plasmid Expression_system_plasmid: Ppic9k
symmetry	Space Group: C 2 2 21	R_factor 0.229 R_Free 0.290
crystal cell	length a length b length c angle alpha angle beta angle gamma 57.008 88.904 93.465 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.45 Å
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structures of human saposins C and d: implications for lipid recognition and membrane interactions., Rossmann M, Schultz-Heienbrok R, Behlke J, Remmel N, Alings C, Sandhoff K, Saenger W, Maier T, Structure. 2008 May;16(5):809-17. PMID:18462685

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk] Biological Unit Coordinates (2qyp.pdb1.gz) 26 Kb CSU: Contacts of Structural Units for 2QYP Likely Quarternary Molecular Structure file(s) for 2QYP Structure Factors (139 Kb) Retrieve 2QYP in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2QYP from S2C, [Save to disk] Re-refined 2qyp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2QYP 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 2QYP

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 2QYP, from MSDmotif at EBI Fold representative 2qyp from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2qyp_B] [2qyp_A] [2qyp] SWISS-PROT database: [P07602] Belongs to the amoebapore (amoebapore) family according to TCDB. Domain organization of [SAP_HUMAN] by SWISSPFAM Domain found in 2QYP: [SapB ] by SMART Alignments of the sequence of 2QYP with the sequences similar proteins can be viewed for 2QYP's classification [SAP_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [SAP_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2QYP

Community annotation for 2QYP at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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