2YXD	Transferase	date	Apr 26, 2007
title	Crystal Structure Of Cobalamin Biosynthesis Precorrin 8w Dec (Cbit)
authors	B.Padmanabhan, Y.Bessho, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Probable Cobalt-Precorrin-6y C(15)-Methyltransfer [Decarboxylating]; Chain: A, B Synonym: Cobalamin Biosynthesis Precorrin 8w Decarboxylases Ec: 2.1.1.- Engineered: Yes		Organism_scientific: Methanocaldococcus Jannaschii Organism_taxid: 243232 Strain: Dsm 2661 Gene: Cbit Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21-Codonplus (De3)-Ril-X Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-21a
symmetry	Space Group: P 41 21 2	R_factor 0.198 R_Free 0.273
crystal cell	length a length b length c angle alpha angle beta angle gamma 93.442 93.442 81.042 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	MES, MSE, SO4	enzyme	Transferase E.C.2.1.1 BRENDA
Gene Ontology	Chain Function Process Component A, B protein methyltransferase ac...

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk] Biological Unit Coordinates (2yxd.pdb1.gz) 59 Kb Biological Unit Coordinates (2yxd.pdb2.gz) 117 Kb LPC: Ligand-Protein Contacts for 2YXD CSU: Contacts of Structural Units for 2YXD Likely Quarternary Molecular Structure file(s) for 2YXD Retrieve 2YXD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YXD from S2C, [Save to disk]

View 2YXD 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 2YXD

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2YXD, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yxd] [2yxd_A] [2yxd_B] SWISS-PROT database: [Q57836] Domain organization of [CBIT_METJA] by SWISSPFAM

Other resources with information on 2YXD

Community annotation for 2YXD at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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