1MCZ	Lyase	date	Aug 06, 2002
title	Benzoylformate Decarboxylase From Pseudomonas Putida Complex Inhibitor, R-Mandelate
authors	E.S.Polovnikova, A.K.Bera, M.S.Hasson
compound		source
Molecule: Benzoylformate Decarboxylase Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P Synonym: Bfd, Bfdc Ec: 4.1.1.7 Engineered: Yes		Organism_scientific: Pseudomonas Putida Organism_taxid: 303 Gene: Mdlc Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm105 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pkk233-2
symmetry	Space Group: P 1 21 1	R_factor 0.200 R_Free 0.220
crystal cell	length a length b length c angle alpha angle beta angle gamma 134.800 209.600 163.400 90.00 97.10 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	MG, RMN, TDP, TPP	enzyme	Lyase E.C.4.1.1.7 BRENDA
related structures	by homologous chain: 1BFD
Gene Ontology	Chain Function Process Component F, N, K, E, M, C, L, A, J, O, P, B, H, D, I, G
Primary reference	Structural and kinetic analysis of catalysis by a thiamin diphosphate-dependent enzyme, benzoylformate decarboxylase., Polovnikova ES, McLeish MJ, Sergienko EA, Burgner JT, Anderson NL, Bera AK, Jordan F, Kenyon GL, Hasson MS, Biochemistry 2003 Feb 25;42(7):1820-30. PMID:12590569

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1305 Kb) [Save to disk] Biological Unit Coordinates (1mcz.pdb1.gz) 329 Kb Biological Unit Coordinates (1mcz.pdb2.gz) 330 Kb Biological Unit Coordinates (1mcz.pdb3.gz) 329 Kb Biological Unit Coordinates (1mcz.pdb4.gz) 330 Kb LPC: Ligand-Protein Contacts for 1MCZ CSU: Contacts of Structural Units for 1MCZ Likely Quarternary Molecular Structure file(s) for 1MCZ Structure Factors (2306 Kb) Retrieve 1MCZ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1MCZ from S2C, [Save to disk] Re-refined 1mcz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1MCZ 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 1MCZ

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 1MCZ, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1mcza1, region A:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mcza2, region A:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mcza3, region A:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczb1, region B:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczb2, region B:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczb3, region B:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczc1, region C:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczc2, region C:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczc3, region C:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczd1, region D:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczd2, region D:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczd3, region D:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mcze1, region E:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mcze2, region E:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mcze3, region E:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczf1, region F:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczf2, region F:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczf3, region F:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczg1, region G:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczg2, region G:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczg3, region G:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczh1, region H:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczh2, region H:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczh3, region H:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczi1, region I:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczi2, region I:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczi3, region I:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczj1, region J:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczj2, region J:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczj3, region J:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczk1, region K:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczk2, region K:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczk3, region K:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczl1, region L:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczl2, region L:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczl3, region L:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczm1, region M:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczm2, region M:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczm3, region M:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczn1, region N:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczn2, region N:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczn3, region N:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczo1, region O:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczo2, region O:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczo3, region O:342-525 [Jmol] [rasmolscript] [script source]     - Domain d1mczp1, region P:182-341 [Jmol] [rasmolscript] [script source]     - Domain d1mczp2, region P:2-181 [Jmol] [rasmolscript] [script source]     - Domain d1mczp3, region P:342-525 [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: [1mcz_C] [1mcz_F] [1mcz] [1mcz_L] [1mcz_B] [1mcz_H] [1mcz_O] [1mcz_I] [1mcz_K] [1mcz_A] [1mcz_E] [1mcz_G] [1mcz_N] [1mcz_P] [1mcz_M] [1mcz_J] [1mcz_D] SWISS-PROT database: [P20906] Domain organization of [MDLC_PSEPU] by SWISSPFAM

Other resources with information on 1MCZ

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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