3BIC	Isomerase	date	Nov 30, 2007
title	Crystal Structure Of Human Methylmalonyl-Coa Mutase
authors	E.Ugochukwu, G.Kochan, N.Pantic, E.Parizotto, E.S.Pilka, A.C.W.Pi O.Gileadi, F.Von Delft, C.H.Arrowsmith, J.Weigelt, A.M.Edwards, U.Oppermann, Structural Genomics Consortium (Sgc)
compound		source
Molecule: Methylmalonyl-Coa Mutase, Mitochondrial Precursor Chain: A, B Fragment: Residues 12-750 Synonym: Mcm, Methylmalonyl-Coa Isomerase Ec: 5.4.99.2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Mut Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)-R3-Prare2 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pnic-Cthf
symmetry	Space Group: P 1 21 1	R_factor 0.217 R_Free 0.243
crystal cell	length a length b length c angle alpha angle beta angle gamma 103.750 95.150 119.160 90.00 108.31 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	CL	enzyme	Isomerase E.C.5.4.99.2 BRENDA
Gene Ontology	Chain Function Process Component A, B methylmalonyl-CoA mutase act... isomerase activity cobalamin binding metal ion binding modified amino acid binding fatty acid beta-oxidation post-embryonic development short-chain fatty acid catab... cellular lipid metabolic pro... small molecule metabolic pro... homocysteine metabolic proce... mitochondrion mitochondrial matrix
Primary reference	Structures of the human GTPase MMAA and vitamin B12-dependent methylmalonyl-coa mutase and insight into their complex formation., Froese DS, Kochan G, Muniz J, Wu X, Gileadi C, Ugochukwu E, Krysztofinska E, Gravel RA, Oppermann U, Yue WW, J Biol Chem. 2010 Sep 28. PMID:20876572

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (221 Kb) [Save to disk] Biological Unit Coordinates (3bic.pdb1.gz) 109 Kb Biological Unit Coordinates (3bic.pdb2.gz) 109 Kb Biological Unit Coordinates (3bic.pdb3.gz) 214 Kb LPC: Ligand-Protein Contacts for 3BIC CSU: Contacts of Structural Units for 3BIC Likely Quarternary Molecular Structure file(s) for 3BIC Structure Factors (1022 Kb) Retrieve 3BIC in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BIC from S2C, [Save to disk] Re-refined 3bic structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BIC 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3BIC

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Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3BIC, from MSDmotif at EBI Fold representative 3bic from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bic_A] [3bic_B] SWISS-PROT database: [P22033] Domain organization of [MUTA_HUMAN] by SWISSPFAM Alignments of the sequence of 3BIC with the sequences similar proteins can be viewed for 3BIC's classification [MUTA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [MUTA_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3BIC

Community annotation for 3BIC at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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