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(-) Description

Title :  CRYSTAL STRUCTURE OF SERRATIA FONTICOLA CARBAPENEMASE SFC-1 S70A-MEROPENEM COMPLEX
 
Authors :  F. Fonseca, J. Spencer
Date :  25 Apr 12  (Deposition) - 23 May 12  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.08
Chains :  Asym./Biol. Unit :  A
Keywords :  Carbapenemase, Hydrolase, Antibiotic Resistance, Beta-Lactamase Complex, Hydrolase-Antibiotic Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Fonseca, E. I. Chudyk, M. W. Van Der Kamp, A. Correia, A. J. Mulholland, J. Spencer
The Basis For Carbapenem Hydrolysis By Class A Beta-Lactamases: A Combined Investigation Using Crystallography And Simulations.
J. Am. Chem. Soc. V. 134 18275 2012
PubMed-ID: 23030300  |  Reference-DOI: 10.1021/JA304460J

(-) Compounds

Molecule 1 - CARBAPENEM-HYDROLIZING BETA-LACTAMASE SFC-1
    Chains: A
    EC Number: 3.5.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET26-B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 27-309
    Gene: BLASFC-1, SFC-1
    Mutation: YES
    Organism Scientific: SERRATIA FONTICOLA
    Organism Taxid: 47917
    Strain: UTAD54

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric/Biological Unit (4, 13)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
2HAR1Mod. Amino AcidN-OMEGA-HYDROXY-L-ARGININE
3MEM1Ligand/Ion(4R,5S,6S)-3-{[(3S,5S)-5-(DIMETHYLCARBAMOYL)PYRROLIDIN-3-YL]SULFANYL}-6-[(1R)-1-HYDROXYETHYL]-4-METHYL-7-OXO-1-AZABICYCLO[3.2.0]HEPT-2-ENE-2-CARBOXYLIC ACID
4NA7Ligand/IonSODIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREALA A:70 , LYS A:73 , HIS A:105 , SER A:130 , ASN A:132 , THR A:216 , LYS A:234 , THR A:235 , THR A:237 , HOH A:612 , HOH A:627 , HOH A:634 , HOH A:841BINDING SITE FOR RESIDUE MEM A 401
02AC2SOFTWAREPHE A:57 , SER A:289 , HOH A:618 , HOH A:636 , HOH A:780 , HOH A:993BINDING SITE FOR RESIDUE EDO A 402
03AC3SOFTWAREGLY A:156 , ASN A:158 , ALA A:185 , GLU A:188 , HOH A:611 , HOH A:916BINDING SITE FOR RESIDUE EDO A 403
04AC4SOFTWAREARG A:61 , ALA A:62 , ASN A:63 , GLU A:64 , HAR A:100 , HOH A:625 , HOH A:662BINDING SITE FOR RESIDUE EDO A 404
05AC5SOFTWAREARG A:94 , GLN A:112 , THR A:115 , GLY A:116 , GLU A:121 , HOH A:1019BINDING SITE FOR RESIDUE EDO A 405
06AC6SOFTWARESER A:84 , GLU A:203 , HOH A:836 , HOH A:844BINDING SITE FOR RESIDUE NA A 406
07AC7SOFTWAREARG A:43 , PRO A:174 , HOH A:694 , HOH A:778 , HOH A:816 , HOH A:861BINDING SITE FOR RESIDUE NA A 407
08AC8SOFTWAREGLU A:121 , ALA A:125 , HOH A:689 , HOH A:714 , HOH A:938 , HOH A:985BINDING SITE FOR RESIDUE NA A 408
09AC9SOFTWAREPRO A:67 , ARG A:178 , ASP A:179 , THR A:180 , HOH A:637 , HOH A:643 , HOH A:664BINDING SITE FOR RESIDUE NA A 409
10BC1SOFTWARELEU A:167 , HOH A:977 , HOH A:1012BINDING SITE FOR RESIDUE NA A 410
11BC2SOFTWARELYS A:32 , HOH A:914 , HOH A:1022BINDING SITE FOR RESIDUE NA A 411
12BC3SOFTWARESER A:275 , HOH A:1080BINDING SITE FOR RESIDUE NA A 412

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:69 -A:238

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:166 -Leu A:167

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4EUZ)

(-) 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:270
                                                                                                                                                                                                                                                                                                               
               SCOP domains d4euza_ A: automated matches                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhh.eeeeeeee.....eeee.....ee...hhhhhhhhhhhhhhhhh.hhhh.ee............hhhhh....eehhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh...........hhhhh........eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhh....eeeeeeee......eeeeeeee......eeeeeeee........hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4euz A   22 ASQPPQVTVDKLKRLENDFGGRIGVYAIDTGSNKTFGYRANERFPLCASFKGFLAAAVLSKSQQQEGLLNQRIRYDNrVMEPHSPVTEKQITTGMTVAELSAATLQYSDNGAANLLLEKLIGGPEGMTSFMRSIGDNVFRLDRWELELNSAIPGDDRDTSTPKAVAESMQKLAFGNVLGLTERHQLMDWFKGNTTGGARIRASVPANWVVGDKTGTCGVYGTANDYAVIWPVAHAPIVLAVYTSKPDRNSKHSDAVIADASRIVLESFNI  292
                                    31        41        51     || 62        72        82        92       102       112       122       132       141       151       161       171       181       191       201       211       221       231       241       251||     262       272       282       292
                                                              57|                                      100-HAR                                 140A                                                                                                             252|                                      
                                                               59                                                                                                                                                                                                254
   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  (1, 1)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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    Glu A:166 - Leu A:167   [ RasMol ]  
 

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 Related Entries

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        Q6JP75_SERFO | Q6JP75: 4eqi 4ev4

(-) Related Entries Specified in the PDB File

4eqi STRUCTURE OF SFC-1 BETA-LACTAMASE
4ev4 CRYSTAL STRUCTURE OF SERRATIA FONTICOLA CARBAPENEMASE SFC-1 E166A MUTANT WITH THE ACYLENZYME INTERMEDIATE OF MEROPENEM