1GVM	Choline-Binding Domain	date	Feb 15, 2002
title	Choline Binding Domain Of The Major Autolysin (C-Lyta) From Streptococcus Pneumoniae
authors	C.Fernandez-Tornero, R.Lopez, E.Garcia, G.Gimenez-Gallego, A.Rom
compound		source
Molecule: Autolysin Chain: A, B, C, D, E, F Synonym: Major Autolysin, N-Acetylmuramoyl-L-Alanine Amidas Hydrolase, Mucopeptide Aminohydrolase, Cell Wall Hydrolase; Ec: 3.5.1.28 Engineered: Yes		Organism_scientific: Streptococcus Pneumoniae Organism_common: Pneumococcus Organism_taxid: 1313 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rb791 Expression_system_plasmid: Pce17
symmetry	Space Group: C 1 2 1	R_factor 0.226 R_Free 0.294
crystal cell	length a length b length c angle alpha angle beta angle gamma 56.717 85.390 204.136 90.00 96.54 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	CHT, DDQ, TRS	enzyme	Hydrolase E.C.3.5.1.28 BRENDA
related structures	by homologous chain: 1HCX
Primary reference	Two new crystal forms of the choline-binding domain of the major pneumococcal autolysin: insights into the dynamics of the active homodimer., Fernandez-Tornero C, Garcia E, Lopez R, Gimenez-Gallego G, Romero A, J Mol Biol 2002 Aug 2;321(1):163-73. PMID:12139941

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (139 Kb) [Save to disk] Biological Unit Coordinates (1gvm.pdb1.gz) 47 Kb Biological Unit Coordinates (1gvm.pdb2.gz) 46 Kb Biological Unit Coordinates (1gvm.pdb3.gz) 46 Kb LPC: Ligand-Protein Contacts for 1GVM CSU: Contacts of Structural Units for 1GVM Likely Quarternary Molecular Structure file(s) for 1GVM Structure Factors (181 Kb) Retrieve 1GVM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1GVM from S2C, [Save to disk] Re-refined 1gvm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1GVM 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 1GVM

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 1GVM, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1gvma_, region A [Jmol] [rasmolscript] [script source]     - Domain d1gvmb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1gvmc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1gvmd_, region D [Jmol] [rasmolscript] [script source]     - Domain d1gvme_, region E [Jmol] [rasmolscript] [script source]     - Domain d1gvmf_, region F [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1gvm_A] [1gvm_D] [1gvm_B] [1gvm_E] [1gvm] [1gvm_F] [1gvm_C] SWISS-PROT database: [P06653] Domain organization of [ALYS_STRPN] by SWISSPFAM

Other resources with information on 1GVM

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

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