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(-) Description

Title :  CRYSTAL STRUCTURE OF ADC-1 BETA-LACTAMASE
 
Authors :  M. Bhattacharya, M. Toth, N. T. Antunes, C. A. Smith, S. B. Vakulenko
Date :  30 Oct 13  (Deposition) - 12 Mar 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Beta-Lactamase, Antibiotic Resistance, Apo Enzyme, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Bhattacharya, M. Toth, N. T. Antunes, C. A. Smith, S. B. Vakulenko
Structure Of The Extended-Spectrum Class C Beta-Lactamase Adc-1 From Acinetobacter Baumannii.
Acta Crystallogr. , Sect. D V. 70 760 2014
PubMed-ID: 24598745  |  Reference-DOI: 10.1107/S1399004713033014

(-) Compounds

Molecule 1 - AMPC
    Chains: A, B
    EC Number: 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: AMPC
    Organism Scientific: ACINETOBACTER BAUMANNII
    Organism Taxid: 470
    Synonym: BETA-LACTAMASE CLASS C

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2NO34Ligand/IonNITRATE ION
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NO33Ligand/IonNITRATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2NO31Ligand/IonNITRATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:162 , PHE A:172 , LEU A:219 , PRO A:222 , HOH A:555 , HOH A:641 , HOH A:787BINDING SITE FOR RESIDUE NO3 A 401
2AC2SOFTWARETYR A:78 , LYS A:82 , LYS A:84 , MET A:168 , LYS A:170 , HOH A:982BINDING SITE FOR RESIDUE NO3 A 402
3AC3SOFTWARELYS A:245 , TYR A:246 , GLN A:292 , LYS A:296 , PRO A:297 , HOH A:708 , HOH A:882BINDING SITE FOR RESIDUE NO3 A 403
4AC4SOFTWAREASN A:144 , SER A:145 , GLU A:148 , TYR A:149 , PRO A:247 , ALA A:248 , HOH A:540 , HOH A:682 , HOH A:760BINDING SITE FOR RESIDUE GOL A 404
5AC5SOFTWAREPRO B:247 , ALA B:248 , ASN B:319 , ARG B:320 , LYS B:341 , ARG B:342BINDING SITE FOR RESIDUE NO3 B 401
6AC6SOFTWAREASP B:26 , HIS B:238 , LYS B:245 , TYR B:246 , HOH B:670BINDING SITE FOR RESIDUE GOL B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4NET)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Tyr A:278 -Pro A:279
2Tyr B:278 -Pro B:279

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NET)

(-) Exons   (0, 0)

(no "Exon" information available for 4NET)

(-) 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:357
                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains d4neta_ A: automated matches                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhh...eeeeeeee..eeeeeeeeeee....ee.....eee...hhhhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhh...............hhhhhhhhhhhh........ee..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........hhhhhhhh..ee.....ee.......hhhhhh.eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..eee....eeee...hhhhhhhhhhhhhhhh.ee..........eeeeee.....eeeeeehhh.eeeeeee....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4net A   3 NTPKDQEIKKLVDQNFKPLLEKYDVPGMAVGVIQNNKKYEMYYGLQSVQDKKAVNSSTIFELGSVSKLFTATAGGYAKNKGKISFDDTPGKYWKELKNTPIDQVNLLQLATYTSGNLALQFPDEVKTDQQVLTFFKDWKPKNSIGEYRQYSNPSIGLFGKVVALSMNKPFDQVLEKTIFPALGLKHSYVNVPKTQMQNYAFGYNQENQPIRVNPGPLGAPAYGVKSTLPDMLSFIHANLNPQKYPADIQRAINETHQGRYQVNTMYQALGWEEFSYPATLQTLLDSNSEQIVMKPNKVTAISKEPSVKMYHKTGNRFGTYVVFIPKENIGLVMLTNKRIPNEERIKAAYAVLNAIKK 361
                                    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       282       292       302       312   ||  324       334       344       354       
                                                                                                                                                                                                                                                                                                                                                   316|                                          
                                                                                                                                                                                                                                                                                                                                                    319                                          


Chain B from PDB  Type:PROTEIN  Length:344
                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains d4netb_ B: automated matches                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh..eeeeeeee..eeeeeeee...............ee...hhhhhhhhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhh...............hhhhhhhhhhh.........ee..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.........hhhhhhhh....hhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee..eee....eeee...hhhhhhhh.hhhhhhh.ee..........eeeeeeee....eeeeeeehhh.eeeeeee....hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4net B   3 NTPKDQEIKKLVDQNFKPLLEKYDVPGMAVGVIQNNKKYEMYYGLQSVQDKKAVNSSTIFELGSVSKLFTATAGGYAKNKGKISFDDTPGKYWKELKNTPIDQVNLLQLATYTSGNLALQFPDEVKTDQQVLTFFKDWKPKNSIGEYRQYSNPSIGLFGKVVALSMNKPFDQVLEKTIFPALGLKHSYVNVPKTQMQNYAGPLGAPAYGVKSTLPDMLSFIHANLNPQKYPADIQRAINETHQGRYQVNTMYQALGWEEFSYPATLQTLLDSNSEQIVMKPNKVTAISKEPSVKMYHKTGSTNRFGTYVVFIPKENIGLVMLTNKRIPNEERIKAAYAVLNAIK 360
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202|      226       236       246       256       266       276       286       296       306       316       326       336       346       356    
                                                                                                                                                                                                                                 202|                                                                                                                                               
                                                                                                                                                                                                                                  217
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric Unit
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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