1OD9	Lectin Immune System	date	Feb 14, 2003
title	N-Terminal Of Sialoadhesin In Complex With Me-A-9-N-Benzoyl- Deoxy-Neu5ac (Benz Compound)
authors	N.R.Zaccai, K.Maenaka, T.Maenaka, P.R.Crocker, R.Brossmer, S.Kelm E.Y.Jones
compound		source
Molecule: Sialoadhesin Chain: A Fragment: Domain One, Ig-Like V-Type Domain, Residues 20-13 Synonym: Snd1, Sialic Acid Binding Ig-Like Lectin-1, Siglec Engineered: Yes Other_details: Bound To Me-A-N-Benzoyl-Amino-9-Deoxy-Neu5ac Coordinate System Origx Origx Matrix (M) Origx Vector (V)		Organism_scientific: Mus Musculus Organism_common: Mouse Organism_taxid: 10090 Expression_system: Cricetulus Griseus Expression_system_taxid: 10029 Expression_system_cell_line: Cho Cell Expression_system_plasmid: Pee14 Other_details: Cho Cell Stable Expression With Pee14 Plasmi
symmetry	Space Group: P 43 21 2	R_factor 0.209 R_Free 0.253
crystal cell	length a length b length c angle alpha angle beta angle gamma 67.860 67.860 69.247 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	BND, SO4	enzyme
related structures	by homologous chain: 1QFO, 1URL
Primary reference	Structure-guided design of sialic acid-based Siglec inhibitors and crystallographic analysis in complex with sialoadhesin., Zaccai NR, Maenaka K, Maenaka T, Crocker PR, Brossmer R, Kelm S, Jones EY, Structure (Camb) 2003 May;11(5):557-67. PMID:12737821

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk] Biological Unit Coordinates (1od9.pdb1.gz) 22 Kb LPC: Ligand-Protein Contacts for 1OD9 CSU: Contacts of Structural Units for 1OD9 Likely Quarternary Molecular Structure file(s) for 1OD9 Retrieve 1OD9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1OD9 from S2C, [Save to disk]

View 1OD9 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 1OD9

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1OD9, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1od9a_, region A [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: [1od9_A] [1od9] SWISS-PROT database: [Q62230] Domain organization of [SN_MOUSE] by SWISSPFAM Domain found in 1OD9: [IG ] by SMART

Other resources with information on 1OD9

Community annotation for 1OD9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

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

---