1BY2	Extracellular Module	date	Oct 23, 1998
title	Structure Of M2bp Scavenger Receptor Cysteine-Rich Domain
authors	E.Hohenester, T.Sasaki, R.Timpl
compound		source
Molecule: Mac-2 Binding Protein Chain: A Fragment: Scavenger Receptor Cysteine-Rich (Srcr) Domain Synonym: Tumor-Associated Antigen 90k Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Cell_line: 293-Ebna Organ: Kidney Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: 293-Ebna Expression_system_vector_type: Pcep-Pu
symmetry	Space Group: P 43 21 2	R_factor 0.186 R_Free 0.218
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.630 44.630 134.540 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of a scavenger receptor cysteine-rich domain sheds light on an ancient superfamily., Hohenester E, Sasaki T, Timpl R, Nat Struct Biol 1999 Mar;6(3):228-32. PMID:10074941

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (22 Kb) [Save to disk] Biological Unit Coordinates (1by2.pdb1.gz) 19 Kb LPC: Ligand-Protein Contacts for 1BY2 CSU: Contacts of Structural Units for 1BY2 Likely Quarternary Molecular Structure file(s) for 1BY2 Retrieve 1BY2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1BY2 from S2C, [Save to disk]

View 1BY2 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 1BY2

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1BY2, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1by2__, region [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: [1by2_A] [1by2] SWISS-PROT database: [Q08380] Domain organization of [LG3BP_HUMAN] by SWISSPFAM Domain found in 1BY2: [SR ] by SMART

Other resources with information on 1BY2

Community annotation for 1BY2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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