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(-) Description

Title :  STRUCTURE OF STREPTOCOCCUS PARASANGUNINI GTF3 GLYCOSYLTRANSFERASE
 
Authors :  F. Zhu, H. Erlandsen, Y. Huang, L. Ding, M. Zhou, X. Liang, J. -B. Ma, H. Wu
Date :  01 Feb 11  (Deposition) - 08 Jun 11  (Release) - 10 Aug 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Gt-B Fold, Glycosyltransferase, Nucleotide Sugar Synthetase-Like Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Zhu, H. Erlandsen, L. Ding, J. Li, Y. Huang, M. Zhou, X. Liang, J. Ma, H. Wu
Structural And Functional Analysis Of A New Subfamily Of Glycosyltransferases Required For Glycosylation Of Serine-Rich Streptococcal Adhesins.
J. Biol. Chem. V. 286 27048 2011
PubMed-ID: 21653318  |  Reference-DOI: 10.1074/JBC.M110.208629

(-) Compounds

Molecule 1 - NUCLEOTIDE SUGAR SYNTHETASE-LIKE PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-SUMO-GTF3
    Expression System Strain: BL21 GOLD (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NSS
    Organism Scientific: STREPTOCOCCUS PARASANGUINIS
    Organism Taxid: 1318

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1UDP4Ligand/IonURIDINE-5'-DIPHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:16 , HIS A:156 , PRO A:174 , ARG A:179 , TYR A:195 , TYR A:211 , ARG A:212 , ASP A:214 , SER A:244 , TYR A:245 , LYS A:246 , SER A:249BINDING SITE FOR RESIDUE UDP A 400
2AC2SOFTWARETHR B:16 , PRO B:174 , ARG B:179 , TYR B:195 , TYR B:211 , ARG B:212 , ASP B:214 , SER B:244 , TYR B:245 , LYS B:246 , SER B:249BINDING SITE FOR RESIDUE UDP B 400
3AC3SOFTWARETHR C:16 , PRO C:174 , ARG C:179 , TYR C:195 , TYR C:211 , ARG C:212 , ASP C:214 , SER C:244 , TYR C:245 , LYS C:246 , SER C:249BINDING SITE FOR RESIDUE UDP C 400
4AC4SOFTWARETHR D:16 , PRO D:174 , ARG D:179 , TYR D:195 , TYR D:211 , ARG D:212 , ASP D:214 , SER D:244 , TYR D:245 , LYS D:246 , SER D:249 , HOH D:340BINDING SITE FOR RESIDUE UDP D 400

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Thr A:72 -Pro A:73
2Thr B:72 -Pro B:73
3Thr C:72 -Pro C:73
4Thr D:72 -Pro D:73
5Gly D:109 -Asn D:110

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QKW)

(-) 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:328
 aligned with B5A7L9_STRPA | B5A7L9 from UniProtKB/TrEMBL  Length:330

    Alignment length:330
                             1                                                                                                                                                                                                                                                                                                                                        
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329
         B5A7L9_STRPA     - -MRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeee.....hhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhh...eeeeee......--..hhhhhhhhhhhhh...eeee.hhhhhhhhhhh.....eeee...............eeeeeeee..................eeeee.........eeeee..hhhhhhhhhh.eeeeee.....hhhhhhhh.hhhhhhhhhhh..eeee....hhhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3qkw A   0 CMRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPL--SGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
                                     9        19        29        39        49        59        69        79        89        99     | 109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329
                                                                                                                                   105  |                                                                                                                                                                                                                             
                                                                                                                                      108                                                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:324
 aligned with B5A7L9_STRPA | B5A7L9 from UniProtKB/TrEMBL  Length:330

    Alignment length:331
                              1                                                                                                                                                                                                                                                                                                                                        
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328 
         B5A7L9_STRPA     - --MRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.....hhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhhhhhh...eeee.hhhhhhhhhh......eeee...............eeeeeeee..hhhhhhhhhh......eeeee.........eeeee..hhhhhhhhhh.eeeeee..-------.....hhhhhhhhhhh..eeee....hhhhhhhhh.eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qkw B  -1 ACMRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWM-------QSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228  |      -|      248       258       268       278       288       298       308       318       328 
                                                                                                                                                                                                                                                                  231     239                                                                                          


Chain C from PDB  Type:PROTEIN  Length:329
 aligned with B5A7L9_STRPA | B5A7L9 from UniProtKB/TrEMBL  Length:330

    Alignment length:331
                             1                                                                                                                                                                                                                                                                                                                                         
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329 
         B5A7L9_STRPA     - -MRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAICD 330
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee.....hhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhh....eeeeee.......hhhhhhhhhhhhhhhh...eeee.hhhhhhhhhhh.....eeee...............eeeeeeee......hhhhh.......eeeee..--.....eeeee..hhhhhhhhhh.eeeeee..hhhhhhhhh...hhhhhhhhhhh..eeee....hhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qkw C   0 CMRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQ--ELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAICD 330
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189        |- |     209       219       229       239       249       259       269       279       289       299       309       319       329 
                                                                                                                                                                                                                                198  |                                                                                                                                 
                                                                                                                                                                                                                                   201                                                                                                                                 


Chain D from PDB  Type:PROTEIN  Length:326
 aligned with B5A7L9_STRPA | B5A7L9 from UniProtKB/TrEMBL  Length:330

    Alignment length:331
                              1                                                                                                                                                                                                                                                                                                                                        
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328 
         B5A7L9_STRPA     - --MRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPLMFSGNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNVELPQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee.....hhhhhhhhhhhhhhhhh..eeeeee..hhhhhhhhhhhhhhhhhh.......eeeeee....hhhhhhhhhhhhh....eeeeee......---....hhhhhhhhhh...eeee.hhhhhhhhhhh.....eeee...............eeeeeeee......hhhhh.......eeeee....--...eeeee..hhhhhhhhhh.eeeeee.......hhhhh..hhhhhhhhhhh..eeee....hhhhhhhh..eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qkw D  -1 ACMRVYITNINGQSIQSTAQLCQNTVTDVAVSLGYRELGIYCYQIHTDSESELSKRLDGIVAGLRHGDVVIFQTPTWNTTEFDEKLMNKLKLYDIKIVLFIHDVVPL---GNFYLMDRTIAYYNKADVVVAPSQKMIDKLRDFGMNVSKTVVQGMWDHPTQAPMFPAGLKREIHFPGNPERFSFVKEWKYDIPLKVYTWQNV--PQNVHKINYRPDEQLLMEMSQGGFGLVWMDDKDKEYQSLYCSYKLGSFLAAGIPVIVQEGIANQELIENNGLGWIVKDVEEAIMKVKNVNEDEYIELVKNVRSFNPILRKGFFTRRLLTESVFQAIC 329
                                     8        18        28        38        48        58        68        78        88        98      |  -|      118       128       138       148       158       168       178       188       198 |  |  208       218       228       238       248       258       268       278       288       298       308       318       328 
                                                                                                                                    105 109                                                                                        200  |                                                                                                                              
                                                                                                                                                                                                                                      203
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 3QKW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3QKW)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (B5A7L9_STRPA | B5A7L9)
molecular function
    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.
    GO:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).

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  3qkw
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 Related Entries

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

UniProtKB/TrEMBL
        B5A7L9_STRPA | B5A7L9: 3rhz

(-) Related Entries Specified in the PDB File

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