5XP1	Immune System	date	May 31, 2017
title	Structure Of Monomeric Mutant Of Rei Immunoglobulin Light Ch Variable Domain Crystallized At Ph 6
authors	S.Mine, T.Nakamura, K.Uegaki, D.Hamada
compound		source
Molecule: Immunoglobulin Kappa Variable 1d-33 Chain: A, B, C, D, E, F, G, H Fragment: Unp Residues 22-117 Synonym: Ig Kappa Chain V-I Region Ag,Ig Kappa Chain V-I Re Kappa Chain V-I Region Lay,Ig Kappa Chain V-I Region Ni,Ig Chain V-I Region Rei,Ig Kappa Chain V-I Region Roy,Ig Kappa Region Scw,Ig Kappa Chain V-I Region Wat; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Igkv1d-33 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pet28a
symmetry	Space Group: P 4	R_factor 0.257 R_Free 0.297
crystal cell	length a length b length c angle alpha angle beta angle gamma 130.760 130.760 92.140 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.88 Å
Gene Ontology	Chain Function Process Component F, A, E, B, H, C, D, G
Primary reference	Heat-induced native dimerization prevents amyloid formation by variable domain from immunoglobulin light-chain REI., Nawata M, Tsutsumi H, Kobayashi Y, Unzai S, Mine S, Nakamura T, Uegaki K, Kamikubo H, Kataoka M, Hamada D, FEBS J. 2017 Sep;284(18):3114-3127. doi: 10.1111/febs.14181. Epub 2017 Aug 13. PMID:28736891

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (140 Kb) [Save to disk] Biological Unit Coordinates (5xp1.pdb1.gz) 20 Kb Biological Unit Coordinates (5xp1.pdb2.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb3.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb4.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb5.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb6.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb7.gz) 19 Kb Biological Unit Coordinates (5xp1.pdb8.gz) 19 Kb CSU: Contacts of Structural Units for 5XP1 Structure Factors (771 Kb) Retrieve 5XP1 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5XP1 from S2C, [Save to disk] Re-refined 5xp1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5XP1 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 5XP1

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5xp1_D] [5xp1_E] [5xp1_F] [5xp1_C] [5xp1_H] [5xp1_B] [5xp1_G] [5xp1_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5XP1

Community annotation for 5XP1 at PDBWiki (http://pdbwiki.org)

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---