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(-) Description

Title :  STRUCTURAL INSIGHT INTO THE TRANSGLYCOSYLATION STEP OF BACTERIAL CELL WALL BIOSYNTHESIS : APOENZYME
 
Authors :  A. L. Lovering, L. H. De Castro, D. Lim, N. C. Strynadka
Date :  19 Jan 07  (Deposition) - 20 Mar 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Transpeptidase Fold Glycosyltransferase Family 51, Lysozyme Fold, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. L. Lovering, L. H. De Castro, D. Lim, N. C. Strynadka
Structural Insight Into The Transglycosylation Step Of Bacterial Cell-Wall Biosynthesis.
Science V. 315 1402 2007
PubMed-ID: 17347437  |  Reference-DOI: 10.1126/SCIENCE.1136611

(-) Compounds

Molecule 1 - PENICILLIN-BINDING PROTEIN 2
    Chains: A
    EC Number: 2.3.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET41A
    Expression System Strain: ROSETTA LAMBDA DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 60-727
    Gene: PBP2
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 13)

Asymmetric/Biological Unit (2, 13)
No.NameCountTypeFull Name
1EDO1Ligand/Ion1,2-ETHANEDIOL
2MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:242 , LYS A:244 , ALA A:245 , ASP A:659BINDING SITE FOR RESIDUE EDO A 728

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OLU)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ile A:673 -Pro A:674

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OLU)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OLU)

(-) Exons   (0, 0)

(no "Exon" information available for 2OLU)

(-) 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:608
 aligned with Q9R744_STAAU | Q9R744 from UniProtKB/TrEMBL  Length:727

    Alignment length:625
                                    77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687     
         Q9R744_STAAU    68 KLQDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
               SCOP domains d2olua1 A:68-292 Penicillin-binding protein 2, PBP2                                                                                                                                                                              d2olua2 A:293-692 Penicillin-binding protein 2, PBP2                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee.....eeee..........hhhhhhhhhhhhhhhhhh......hhhhh-------------.......hhhhhhhhhhh..----....hhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh...hhhhhhhhhh.hhhhhh...hhhhhhh.....hhhhhhhhhhhhhhhh........hhhhhh....eeee..hhhhhhhhhhhhhhh.......eeeeeeeee.....eeeee.................ee.hhhhhhhhhhhhhhhhh......eee....eee..eee.........eeehhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhh.....eehhhhhhhhhhhhhh..eee....eeeee.....eee....eee..hhhhhhhhhhhhhhhhh...............eeeeeee..hhhhhhhh.....ee.eeeeeee...eeeeeeeee...hhhhh..eehhhhhhhhhhhhhhhhhhhh............ee......ee.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2olu A  68 KLQDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSmKDAVLATEDNRFYEHGALDY-------------GFGSEGASTLTQQVVKDAFL----SIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLmHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELmNNKAFKDENLGNVLQSGIKIYTNmDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENmKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAmSDYTAYmLAEmLKGTFKPYGSAYGHGVSGVNmGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTmSVWmGFSKVKQYGENSFVGHSQQEYPQFLYENVmSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
                                    77        87        97       107       117        |-         -  |    147       157 |    |167       177       187       197       207       217       227       237       247       257       267       277       287       297       307   |   317       327       337       347       357       367       377       387       397       407     | 417       427       437       447       457       467       477       487       497       507       517       527       537       547|      557 |     567       577  |    587       597       607       617|   |  627       637       647    |  657       667       677       687     
                                                                106-MSE             126           140                159  164                                                                                          257-MSE                                               311-MSE                 335-MSE                                                                       413-MSE                                                                                                                                548-MSE  |   |                  580-MSE                               618-MSE                           652-MSE                                    
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 555-MSE                                                            622-MSE                                                                  
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     559-MSE
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OLU)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2OLU)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9R744_STAAU | Q9R744)
molecular function
    GO:0008658    penicillin binding    Interacting selectively and non-covalently with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9R744_STAAU | Q9R744: 2olv

(-) Related Entries Specified in the PDB File

2olv STRUCTURAL INSIGHT INTO THE TRANSGLYCOSYLATION STEP OF BACTERIAL CELL WALL BIOSYNTHESIS