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(-) Description

Title :  CRYSTAL STRUCTURE OF A BETA-LACTAMASE-LIKE PROTEIN FROM BRUCELLA MELITENSIS BOUND TO AMP
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  11 Dec 10  (Deposition) - 29 Dec 10  (Release) - 21 Sep 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ssgcid, Beta-Lactamase Like, Brucella Melitensis, Gmp, Amp, Mn Centre, Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Abendroth, B. Sankaran, T. E. Edwards, A. S. Gardberg, S. Dieterich J. Bhandari, A. J. Napuli, W. C. Van Voorhis, B. L. Staker, P. J. Myler, L. J. Stewart
Braba. 11339. A: Anomalous Diffraction And Ligand Binding Guide Towards The Elucidation Of The Function Of A `Putativ Beta-Lactamase-Like Protein From Brucella Melitensis.
Acta Crystallogr. , Sect. F V. 67 1106 2011
PubMed-ID: 21904058  |  Reference-DOI: 10.1107/S1744309111010220

(-) Compounds

Molecule 1 - BETA-LACTAMASE-LIKE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BAB1_1016
    Organism Scientific: BRUCELLA MELITENSIS BIOVAR ABORTUS
    Organism Taxid: 359391
    Strain: 2308

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric Unit (4, 5)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2K1Ligand/IonPOTASSIUM ION
3MN2Ligand/IonMANGANESE (II) ION
4TLA1Ligand/IonL(+)-TARTARIC ACID
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2K-1Ligand/IonPOTASSIUM ION
3MN-1Ligand/IonMANGANESE (II) ION
4TLA2Ligand/IonL(+)-TARTARIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:90 , HIS A:91 , ASP A:188 , HIS A:241 , MN A:301 , AMP A:303 , HOH A:321BINDING SITE FOR RESIDUE MN A 300
2AC2SOFTWAREHIS A:86 , HIS A:88 , HIS A:170 , ASP A:188 , MN A:300 , AMP A:303 , HOH A:321BINDING SITE FOR RESIDUE MN A 301
3AC3SOFTWAREMET A:252 , THR A:255 , PRO A:256 , VAL A:259BINDING SITE FOR RESIDUE K A 302
4AC4SOFTWARESER A:18 , PRO A:87 , HIS A:88 , ALA A:89 , ASP A:90 , ASP A:96 , ARG A:99 , TYR A:127 , TYR A:137 , HIS A:170 , ASP A:188 , HIS A:219 , HIS A:241 , MN A:300 , MN A:301 , HOH A:321 , HOH A:342 , HOH A:394 , HOH A:421 , HOH A:525 , HOH A:556BINDING SITE FOR RESIDUE AMP A 303
5AC5SOFTWAREARG A:23 , LYS A:30 , GLN A:212 , HIS A:216 , HIS A:243 , HOH A:314 , HOH A:318 , HOH A:319 , HOH A:439BINDING SITE FOR RESIDUE TLA A 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PY5)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Val A:21 -Pro A:22

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PY5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PY5)

(-) Exons   (0, 0)

(no "Exon" information available for 3PY5)

(-) Sequences/Alignments

Asymmetric 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:270
 aligned with Q2YQ74_BRUA2 | Q2YQ74 from UniProtKB/TrEMBL  Length:272

    Alignment length:270
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272
         Q2YQ74_BRUA2     3 SPRNCLRFTLLGCGSSPGVPRINGDWGKCDPKNPKNRRRRASLLVERYDAEGNNTVVVIDTGPDFRMQMIDSGVHMLDAAVYTHPHADHIHGIDDLRTYVVDNGRLMDVYANRLTRNRLYDTFGYCFETPVGSSYPPILSMHDIAPETPFSIEGAGGAIRFEPFSQVHGDIESLGFRIGSVVYCTDVSAFPEQSLQYIKDADVLIIGALQYRPHPSHFSLGEALEWIEKLSPKRAILTHMHVPLDYETVMRETPHHVEPGYDGLRFEVAV 272
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------Lactamase_B_2-3py5A01 A:57-242                                                                                                                                                            ------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeee....................hhhhh....eeeeeee.....eeeeee....hhhhhhhhhh.....eee....hhhhhhhhhhhhhhhhhhh..eeeeehhhhhhhhhhhhhhhh...........eeeee......eee......eeeeeeeeee..eeeeeeee..eeee......hhhhhhhhh...eeeee...........hhhhhhhhhhhhh..eeeee......hhhhhhhhh...eee....eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3py5 A   3 SPRNCLRFTLLGCGSSPGVPRINGDWGKCDPKNPKNRRRRASLLVERYDAEGNNTVVVIDTGPDFRMQMIDSGVHMLDAAVYTHPHADHIHGIDDLRTYVVDNGRLMDVYANRLTRNRLYDTFGYCFETPVGSSYPPILSMHDIAPETPFSIEGAGGAIRFEPFSQVHGDIESLGFRIGSVVYCTDVSAFPEQSLQYIKDADVLIIGALQYRPHPSHFSLGEALEWIEKLSPKRAILTHMHVPLDYETVMRETPHHVEPGYDGLRFEVAV 272
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272
   Legend:   → Mismatch (orange background)
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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 3PY5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PY5)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Metallo-HOrase (67)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q2YQ74_BRUA2 | Q2YQ74)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

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 Related Entries

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

UniProtKB/TrEMBL
        Q2YQ74_BRUA2 | Q2YQ74: 3md7 3py6 3qh8

(-) Related Entries Specified in the PDB File

3md7 CRYSTAL STRUCTURE OF A BETA-LACTAMASE-LIKE PROTEIN BOUND TO GMP FROM BRUCELLA MELITENSIS RELATED ID: BRABA.11339.A RELATED DB: TARGETDB