1ND0	Immune System	date	Dec 05, 2002
title	Cationic Cyclization Antibody 4c6 Complex With Transition St
authors	X.Zhu, I.A.Wilson
compound		source
Molecule: Immunoglobulin Igg2a Chain: A, C, E, G Fragment: Immunoglobulin Fab Fragment, Light Chain		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: 129g1x+ Other_details: Purified From Ascitic Fluid
Molecule: Immunoglobulin Igg2a Chain: B, D, F, H Fragment: Immunoglobulin Fab Fragment, Heavy Chain		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Strain: 129g1x+ Other_details: Purified From Ascitic Fluid
symmetry	Space Group: P 1	R_factor 0.242 R_Free 0.286
crystal cell	length a length b length c angle alpha angle beta angle gamma 36.572 95.164 141.058 75.51 88.64 89.28
method	X-Ray Diffraction	resolution	2.45 Å
ligand	DP4, SO4	enzyme
related structures	by homologous chain: 1FL3, 1IC4, 1IGJ
Gene Ontology	Chain Function Process Component A, C, G, E
Primary reference	Structural basis for antibody catalysis of a cationic cyclization reaction., Zhu X, Heine A, Monnat F, Houk KN, Janda KD, Wilson IA, J Mol Biol 2003 May 23;329(1):69-83. PMID:12742019

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (284 Kb) [Save to disk] Biological Unit Coordinates (1nd0.pdb1.gz) 142 Kb Biological Unit Coordinates (1nd0.pdb2.gz) 142 Kb Biological Unit Coordinates (1nd0.pdb3.gz) 74 Kb Biological Unit Coordinates (1nd0.pdb4.gz) 74 Kb Biological Unit Coordinates (1nd0.pdb5.gz) 74 Kb Biological Unit Coordinates (1nd0.pdb6.gz) 74 Kb LPC: Ligand-Protein Contacts for 1ND0 CSU: Contacts of Structural Units for 1ND0 Likely Quarternary Molecular Structure file(s) for 1ND0 Structure Factors (433 Kb) Retrieve 1ND0 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1ND0 from S2C, [Save to disk] Re-refined 1nd0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1ND0 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 1ND0

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 1ND0, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1nd0a1, region A:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1nd0a2, region A:108-214 [Jmol] [rasmolscript] [script source]     - Domain d1nd0b1, region B:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1nd0b2, region B:114-231 [Jmol] [rasmolscript] [script source]     - Domain d1nd0c1, region C:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1nd0c2, region C:108-214 [Jmol] [rasmolscript] [script source]     - Domain d1nd0d1, region D:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1nd0d2, region D:114-231 [Jmol] [rasmolscript] [script source]     - Domain d1nd0e1, region E:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1nd0e2, region E:108-214 [Jmol] [rasmolscript] [script source]     - Domain d1nd0f1, region F:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1nd0f2, region F:114-231 [Jmol] [rasmolscript] [script source]     - Domain d1nd0g1, region G:1-107 [Jmol] [rasmolscript] [script source]     - Domain d1nd0g2, region G:108-214 [Jmol] [rasmolscript] [script source]     - Domain d1nd0h1, region H:1-113 [Jmol] [rasmolscript] [script source]     - Domain d1nd0h2, region H:114-231 [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: [1nd0_C] [1nd0] [1nd0_B] [1nd0_G] [1nd0_D] [1nd0_F] [1nd0_E] [1nd0_H] [1nd0_A] SWISS-PROT database: [P01865] Domain organization of [GCAM_MOUSE] by SWISSPFAM Domains found in 1ND0: [IG_like] [IGv ] by SMART

Other resources with information on 1ND0

Community annotation for 1ND0 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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