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(-) Description

Title :  STRUCTURE OF GEOBACILLUS KAUSTOPHILUS LACTONASE, MUTANT E101N WITH BOUND N-BUTYRYL-DL-HOMOSERINE LACTONE
 
Authors :  B. Xue, J. Y. Chow, W. S. Yew, R. C. Robinson
Date :  24 Sep 12  (Deposition) - 07 Nov 12  (Release) - 22 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  (Beta/Alpha)8 Barrel, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Xue, J. Y. Chow, A. Baldansuren, L. L. Yap, Y. H. Gan, S. A. Dikanov, R. C. Robinson, W. S. Yew
Structural Evidence Of A Productive Active Site Architectur For An Evolved Quorum-Quenching Gkl Lactonase.
Biochemistry V. 52 2359 2013
PubMed-ID: 23461395  |  Reference-DOI: 10.1021/BI4000904

(-) Compounds

Molecule 1 - PHOSPHOTRIESTERASE
    Chains: A, B
    EC Number: 3.5.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-15B, MODIFIED
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: GK1506
    Mutation: YES
    Organism Scientific: GEOBACILLUS KAUSTOPHILUS
    Organism Taxid: 235909
    Strain: HTA426

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 8)

Asymmetric/Biological Unit (4, 8)
No.NameCountTypeFull Name
1FE2Ligand/IonFE (III) ION
2HL42Ligand/IonN-[(3S)-2-OXOTETRAHYDROFURAN-3-YL]BUTANAMIDE
3KCX2Mod. Amino AcidLYSINE NZ-CARBOXYLIC ACID
4MN2Ligand/IonMANGANESE (II) ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:23 , HIS A:25 , KCX A:145 , ASN A:266 , MN A:402 , HOH A:670BINDING SITE FOR RESIDUE FE A 401
2AC2SOFTWAREKCX A:145 , HIS A:178 , HIS A:206 , FE A:401 , HOH A:641BINDING SITE FOR RESIDUE MN A 402
3AC3SOFTWARETYR A:30 , ASN A:266 , VAL A:268 , TRP A:271 , TRP A:289 , HOH A:670BINDING SITE FOR RESIDUE HL4 A 403
4AC4SOFTWAREHIS B:23 , HIS B:25 , KCX B:145 , ASN B:266 , MN B:402 , HL4 B:403BINDING SITE FOR RESIDUE FE B 401
5AC5SOFTWAREKCX B:145 , HIS B:178 , HIS B:206 , FE B:401 , HL4 B:403BINDING SITE FOR RESIDUE MN B 402
6AC6SOFTWAREHIS B:25 , TYR B:30 , TYR B:99 , ASN B:266 , VAL B:268 , TRP B:271 , FE B:401 , MN B:402 , HOH B:629BINDING SITE FOR RESIDUE HL4 B 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4H9T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4H9T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4H9T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4H9T)

(-) Exons   (0, 0)

(no "Exon" information available for 4H9T)

(-) 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:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4h9ta_ A: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee.hhh..ee...eeee...hhhhhh.....hhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeeeeee....hhhhhhhhhh.hhhhhhhhhhhhhhhh..........eeeee......hhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhh.eee....eeee.......hhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9t A   3 EMVETVCGPVPVEQLGKTLIHEHFLFGYPGFQGDVTRGTFREDESLRVAVEAAEKMKRHGIQTVVDPTPNDCGRNPAFLRRVAEETGLNIICATGYYYAPPYFQFRRLLGTAEDDIYDMFMAELTEGIADTGIKAGVIkLASSKGRITEYEKMFFRAAARAQKETGAVIITHTQEGTMGPEQAAYLLEHGADPKKIVIGHMCGNTDPDYHRKTLAYGVYIAFDRFGIQGMVGAPTDEERVRTLLALLRDGYEKQIMLSHNTVNVWLGRPFTLPEPFAEMMKNWHVEHLFVNIIPALKNEGIRDEVLEQMFIGNPAALFS 325
                                    12        22        32        42        52        62        72        82        92       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316         
                                                                                                                           100|                                     145-KCX                                                                                                                                                                                
                                                                                                                            105                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:319
                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4h9tb_ B: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee.hhh..ee...eeee...hhhhhh.....hhhhhhhhhhhhhhhhhhh...eeee........hhhhhhhhhhhhh.eeeeeee....hhhhhhhhhh.hhhhhhhhhhhhhhhh..........eeeee......hhhhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhh..hhh.eee.hhhhh.hhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhh.eee....eeee.......hhhhhhhh.....hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h9t B   3 EMVETVCGPVPVEQLGKTLIHEHFLFGYPGFQGDVTRGTFREDESLRVAVEAAEKMKRHGIQTVVDPTPNDCGRNPAFLRRVAEETGLNIICATGYYYAPPYFQFRRLLGTAEDDIYDMFMAELTEGIADTGIKAGVIkLASSKGRITEYEKMFFRAAARAQKETGAVIITHTQEGTMGPEQAAYLLEHGADPKKIVIGHMCGNTDPDYHRKTLAYGVYIAFDRFGIQGMVGAPTDEERVRTLLALLRDGYEKQIMLSHNTVNVWLGRPFTLPEPFAEMMKNWHVEHLFVNIIPALKNEGIRDEVLEQMFIGNPAALFS 325
                                    12        22        32        42        52        62        72        82        92       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316         
                                                                                                                           100|                                     145-KCX                                                                                                                                                                                
                                                                                                                            105
   Legend:   → Mismatch (orange background)
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    → 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/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4H9T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4H9T)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)

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  4h9t
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 Related Entries

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

UniProtKB/TrEMBL
        Q5KZU5_GEOKA | Q5KZU5: 3ojg 3orw 3tn3 3tn4 3tn5 3tn6 3tnb 4h9u 4h9v 4h9x 4h9y 4h9z 4ha0 4wvx 5ch9

(-) Related Entries Specified in the PDB File

4h9u 4h9v 4h9x 4h9y 4h9z 4ha0