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(-) Description

Title :  CRYSTAL STRUCTURE OF AN EVOLVED PUTATIVE PENICILLIN-BINDING PROTEIN HOMOLOG, RV2911, FROM MYCOBACTERIUM TUBERCULOSIS
 
Authors :  I. Krieger, M. Yu, E. Bursey, L. -W. Hung, T. C. Terwilliger, Tb Structu Genomics Consortium (Tbsgc)
Date :  21 Feb 14  (Deposition) - 12 Mar 14  (Release) - 14 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Penicillin-Binding Protein, Dd-2 Carboxypeptidase, Directed Evolution, Structural Genomics, Psi, Protein Structure Initiative, Tb Structural Genomics Consortium, Tbsgc, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. M. Prigozhin, I. V. Krieger, J. P. Huizar, D. Mavrici, G. S. Waldo, L. Hung, J. C. Sacchettini, T. C. Terwilliger, T. Alber
Subfamily-Specific Adaptations In The Structures Of Two Penicillin-Binding Proteins From Mycobacterium Tuberculosis
Plos One V. 9 16249 2014
PubMed-ID: 25551456  |  Reference-DOI: 10.1371/JOURNAL.PONE.0116249

(-) Compounds

Molecule 1 - D-ALANYL-D-ALANINE CARBOXYPEPTIDASE
    Chains: A
    EC Number: 3.4.16.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 25-291
    Gene: DACB, DACB2, MT2979, RV2911
    Mutation: YES
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: PROBABLE PENICILLIN-BINDING PROTEIN DACB2 (D-ALANYL-D- ALANINE CARBOXYPEPTIDASE) (DD-PEPTIDASE) (DD-CARBOXYPEPTIDASE) (PBP) (DD-TRANSPEPTIDASE) (SERINE-TYPE D-ALA-D-ALA CARBOXYPEPTIDASE) (D- AMINO ACID HYDROLASE)

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
2SEB1Mod. Amino AcidO-BENZYLSULFONYL-SERINE

(-) Sites  (0, 0)

(no "Site" information available for 4P0M)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:100 -A:102

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Cys A:100 -Asn A:101
2Asp A:208 -Gly A:209

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4P0M)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 4P0M)

(-) 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eeeeee....eeeeee.......hhhhhhhhhhhhhhhhh....eee.hhhhhh............eeehhhhhhhhhhh.hhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhhhhhhhhh.eeeeee..eeeeee...hhhhhh..eeeeeeeee...eeeeeeeeee..eeeeeeeeee.......hhhhhhhhhhhhhhhh......ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4p0m A  29 VQPAGSVPIPDGPAQTWIVADLDSGQVLAGRDQNVAHPPAsTIKVLLALVALDELDLNSTVVADVADTQAECNCVGVKPGRSYTVRQLLDGLLLVSGNDAANTLAHmLGGQDVTVAKmNAKAATLGATSTHATTPSGLDGPGGSGASTAHDLVVIFRAAmANPVFAQIIAEPSAmFPSDDGEQLIVNQDELLQRYPGAIGGKTGYTNAARKTFVGAAARGGRRLVIAmmYGLVKEGGPTYWDQAATLFDWGFALNPQASVDSL 291
                                    38        48        58        68|       78        88        98       108       118       128      |138       148       158       168       178       188       198    |  208       218       228       238       248       258       268       278       288   
                                                                   69-SEB                                                           135-MSE    146-MSE                                   188-MSE        203-MSE                                              256-MSE                               
                                                                                                                                                                                                                                                              257-MSE
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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 4P0M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4P0M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4P0M)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:208 - Gly A:209   [ RasMol ]  
    Cys A:100 - Asn A:101   [ RasMol ]  
 

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  4p0m
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 Related Entries

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