1M54	Lyase	date	Jul 08, 2002
title	Cystathionine-Beta Synthase: Reduced Vicinal Thiols
authors	S.Taoka, B.W.Lepore, O.Kabil, S.Ojha, D.Ringe, R.Banerjee
compound		source
Molecule: Cystathionine Beta-Synthase Chain: A, B, C, D, E, F Fragment: Residues 44-406 Synonym: Serine Sulfhydrase, Beta-Thionase Ec: 4.2.1.22 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Blood Gene: Cbs Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pcbs-Deltan43deltac143
symmetry	Space Group: P 1	R_factor 0.271 R_Free 0.365
crystal cell	length a length b length c angle alpha angle beta angle gamma 85.740 85.626 97.082 102.01 101.53 112.60
method	X-Ray Diffraction	resolution	2.90 Å
ligand	HEM, PLP	enzyme	Lyase E.C.4.2.1.22 BRENDA
related structures	by homologous chain: 1JBQ
Gene Ontology	Chain Function Process Component F, A, D, C, E, B
Primary reference	Human cystathionine beta-synthase is a heme sensor protein. Evidence that the redox sensor is heme and not the vicinal cysteines in the CXXC motif seen in the crystal structure of the truncated enzyme., Taoka S, Lepore BW, Kabil O, Ojha S, Ringe D, Banerjee R, Biochemistry 2002 Aug 20;41(33):10454-61. PMID:12173932

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (339 Kb) [Save to disk] Biological Unit Coordinates (1m54.pdb1.gz) 111 Kb Biological Unit Coordinates (1m54.pdb2.gz) 110 Kb Biological Unit Coordinates (1m54.pdb3.gz) 111 Kb LPC: Ligand-Protein Contacts for 1M54 CSU: Contacts of Structural Units for 1M54 Likely Quarternary Molecular Structure file(s) for 1M54 Structure Factors (714 Kb) Retrieve 1M54 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1M54 from S2C, [Save to disk] Re-refined 1m54 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1M54 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 1M54

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 1M54, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1m54a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1m54b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1m54c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1m54d_, region D [Jmol] [rasmolscript] [script source]     - Domain d1m54e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1m54f_, region F [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: [1m54_C] [1m54_B] [1m54_A] [1m54_F] [1m54] [1m54_E] [1m54_D] SWISS-PROT database: [P35520] Domain organization of [CBS_HUMAN] by SWISSPFAM

Other resources with information on 1M54

Community annotation for 1M54 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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