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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MERCURY-BOUND FORM OF MERB2
 
Authors :  H. M. Wahba, L. Lecoq, M. Stevenson, A. Mansour, L. Cappadocia, J. Lafra Vanasse, K. J. Wilkinson, J. Sygusch, D. E. Wilcox, J. G. Omichinski
Date :  13 Jun 15  (Deposition) - 03 Feb 16  (Release) - 02 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.24
Chains :  Asym./Biol. Unit :  A
Keywords :  Bacterial Proteins, Cysteine, Lyases, Mercury, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. M. Wahba, L. Lecoq, M. Stevenson, A. Mansour, L. Cappadocia, J. Lafrance-Vanasse, K. J. Wilkinson, J. Sygusch, D. E. Wilcox, J. G. Omichinski
Structural And Biochemical Characterization Of A Copper-Binding Mutant Of The Organomercurial Lyase Merb: Insight Into The Key Role Of The Active Site Aspartic Acid In Hg-Carbon Bond Cleavage And Metal Binding Specificity.
Biochemistry V. 55 1070 2016
PubMed-ID: 26820485  |  Reference-DOI: 10.1021/ACS.BIOCHEM.5B01298

(-) Compounds

Molecule 1 - MERB2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MERB2
    Organism Scientific: BACILLUS MEGATERIUM
    Organism Taxid: 1404

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1DTV1Ligand/Ion(2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL
2GOL1Ligand/IonGLYCEROL
3HG1Ligand/IonMERCURY (II) ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:102 , SER A:105 , CYS A:165 , DTV A:303 , HOH A:569binding site for residue HG A 301
2AC2SOFTWAREARG A:27 , PHE A:31 , THR A:88 , LYS A:166 , HIS A:169 , HOH A:408 , HOH A:421 , HOH A:501 , HOH A:524 , HOH A:576binding site for residue GOL A 302
3AC3SOFTWAREPHE A:154 , ASP A:155 , TRP A:160 , THR A:164 , HG A:301 , HOH A:414 , HOH A:569binding site for residue DTV A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5C17)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Thr A:143 -Pro A:144

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C17)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C17)

(-) Exons   (0, 0)

(no "Exon" information available for 5C17)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:206
                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhh..eee.....eeee..ee.....eeeee..eeeee.hhhhhhhhhhhhh..eeeeee......eeeeeee..eeeeee....eeee...........hhhhhheee.hhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c17 A   4 KTELKKFYELLLAKLPKESVPILRTIFFSIRDGQAVTESSLINQTGINTKTVQSVVKILAQRQMIVREADQKIVGALGLSIIPTTNQIHLGGRTLFAWCAISTLELSTALVADVDIHSRCAYTGEPIEVTVRNGKLAKTTPDSTVIWTVPFDSEAPWAGGTCKQIHYFSSVEHANKWKEEHPKLQGEIMTLEQALSFGNELKKFLS 209
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5C17)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C17)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C17)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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  5c17
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

3f0p ORGANOMERCURIALLYASE MERB2 HAS 22% SEQUENCE IDENTITY WITH ORGANOMERCURIALLYASE MERB 3F0P
5c0t
5c0u
5dsf