1D5I	Immune System	date	Oct 07, 1999
title	Unliganded Germline Precursor Of An Oxy-Cope Catalytic Antib
authors	E.C.Mundorff, M.A.Hanson, P.G.Schultz, R.C.Stevens
compound		source
Molecule: Chimeric Germline Precursor Of Oxy-Cope Catalytic Az-28 (Light Chain); Chain: L Fragment: Chimeric Fab Fragment (Unp Q7ts98 Reisues 23-129, Residues 1-104); Synonym: Ig Kappa Chain C Region,Ig Kappa Chain C Region Ag Chain C Region Cum,Ig Kappa Chain C Region Eu,Ig Kappa Chai Ou,Ig Kappa Chain C Region Roy,Ig Kappa Chain C Region Ti; Engineered: Yes Other_details: The Protein Was Produced As A Chimeric Fab F The Variable Domains (Chains A,L 1-107, Chains B,H 1-113) A The Constant Domains (Chains A, L 108-211 And Chains B,H 11 Human.;		Organism_scientific: Mus Musculus, Homo Sapiens Organism_common: Mouse, Human Organism_taxid: 10090, 9606 Gene: Igkc Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Paz-28
Molecule: Chimeric Germline Precursor Of Oxy-Cope Catalytic Az-28 (Heavy Chain); Chain: H Fragment: Chimeric Fab Fragment (Unp K7t9i5 Residues 1-112, Residues 120-220); Synonym: Immunoglobulin Gamma-1 Heavy Chain Nie Engineered: Yes Other_details: The Protein Was Produced As A Chimeric Fab F The Variable Domains (Chains A,L 1-107, Chains B,H 1-113) A The Constant Domains (Chains A, L 108-211 And Chains B,H 11 Human.		Organism_scientific: Mus Musculus, Homo Sapiens Organism_common: Mouse, Human Organism_taxid: 10090, 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Paz-28
symmetry	Space Group: P 1 21 1	R_factor 0.216 R_Free 0.263
crystal cell	length a length b length c angle alpha angle beta angle gamma 53.170 64.130 75.950 90.00 99.53 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	CD	enzyme
related structures	by homologous chain: 1BRE, 1G7L, 35C8
Gene Ontology	Chain Function Process Component L
Primary reference	Conformational effects in biological catalysis: an antibody-catalyzed oxy-cope rearrangement., Mundorff EC, Hanson MA, Varvak A, Ulrich H, Schultz PG, Stevens RC, Biochemistry 2000 Feb 1;39(4):627-32. PMID:10651626

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk] Biological Unit Coordinates (1d5i.pdb1.gz) 72 Kb LPC: Ligand-Protein Contacts for 1D5I CSU: Contacts of Structural Units for 1D5I Likely Quarternary Molecular Structure file(s) for 1D5I Structure Factors (252 Kb) Retrieve 1D5I in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1D5I from S2C, [Save to disk] Re-refined 1d5i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1D5I 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 1D5I

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 1D5I, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1d5ih1, region H:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1d5ih2, region H:114-214 [Jmol] [rasmolscript] [script source]     - Domain d1d5il1, region L:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1d5il2, region L:108-211 [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: [1d5i] [1d5i_L] [1d5i_H] SWISS-PROT database: [P01857] [P01834] Domain organization of [IGHG1_HUMAN] [IGKC_HUMAN] by SWISSPFAM Domains found in 1D5I: [IG_like] [IGv ] by SMART

Other resources with information on 1D5I

Community annotation for 1D5I at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Domain movements in 1D5I from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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

---