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(-) Description

Title :  CRYSTAL STRUCTURE OF THE PNEUMOCOCCAL O-GLCNAC TRANSFERASE GTFA IN COMPLEX WITH UDP AND GLCNAC
 
Authors :  W. W. Shi, Y. L. Jiang, F. Zhu, Y. H. Yang, H. Wu, Y. M. Ren, Y. Chen, C. Z. Zho
Date :  03 Mar 14  (Deposition) - 18 Jun 14  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A (1x),B (1x)
Keywords :  O-Glcnac Transferase, Gt-B Fold, Rossmann Fold, Gtfb, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. W. Shi, Y. L. Jiang, F. Zhu, Y. H. Yang, Q. Y. Shao, H. B. Yang, Y. M. Ren, H. Wu, Y. Chen, C. Z. Zhou
Structure Of A Novel O-Linked N-Acetyl-D-Glucosamine (O-Glcnac) Transferase, Gtfa, Reveals Insights Into The Glycosylation Of Pneumococcal Serine-Rich Repeat Adhesins.
J. Biol. Chem. V. 289 20898 2014
PubMed-ID: 24936067  |  Reference-DOI: 10.1074/JBC.M114.581934

(-) Compounds

Molecule 1 - GLYCOSYLTRANSFERASE GTF1
    Chains: A, B
    EC Number: 2.4.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: GTF1, SP_1758
    Organism Scientific: STREPTOCOCCUS PNEUMONIAE
    Organism Taxid: 170187
    Strain: TIGR4

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): A (1x)B (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2UDP2Ligand/IonURIDINE-5'-DIPHOSPHATE
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
2UDP1Ligand/IonURIDINE-5'-DIPHOSPHATE
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
2UDP1Ligand/IonURIDINE-5'-DIPHOSPHATE
Biological Unit 3 (2, 2)
No.NameCountTypeFull Name
1NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
2UDP1Ligand/IonURIDINE-5'-DIPHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:16 , TYR A:19 , ARG A:328 , LYS A:333 , TYR A:357 , GLY A:358 , GLY A:383 , HIS A:384 , ALA A:385 , LEU A:387 , GLY A:407 , LEU A:408 , THR A:409 , GLU A:412 , NAG A:602 , HOH A:722 , HOH A:732 , HOH A:736BINDING SITE FOR RESIDUE UDP A 601
2AC2SOFTWAREGLY A:16 , VAL A:17 , HIS A:242 , ALA A:243 , VAL A:305 , SER A:403 , GLU A:404 , GLY A:405 , PHE A:406 , GLY A:407 , LEU A:408 , UDP A:601 , HOH A:707 , HOH A:813 , HOH A:841BINDING SITE FOR RESIDUE NAG A 602
3AC3SOFTWARESER B:15 , GLY B:16 , TYR B:19 , ARG B:328 , LYS B:333 , TYR B:357 , GLY B:358 , HIS B:384 , ALA B:385 , LEU B:387 , GLY B:407 , LEU B:408 , THR B:409 , GLU B:412 , NAG B:602 , HOH B:706 , HOH B:717 , HOH B:729 , HOH B:747 , HOH B:964 , HOH B:993BINDING SITE FOR RESIDUE UDP B 601
4AC4SOFTWAREGLY B:16 , VAL B:17 , HIS B:242 , ALA B:243 , VAL B:305 , SER B:403 , GLU B:404 , GLY B:405 , PHE B:406 , GLY B:407 , LEU B:408 , UDP B:601 , HOH B:722 , HOH B:742 , HOH B:885BINDING SITE FOR RESIDUE NAG B 602

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Pro A:426 -Tyr A:427
2Gln B:109 -Asp B:110
3Pro B:426 -Tyr B:427

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PQG)

(-) 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:506
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.......hhhhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhh.hhh.eeehhhhh..........hhhhhhh.....eeeeeee..eeeeee....eeeeeee.......eeeeeeee..eeeeeeee...eeeeeeeeee..eeeeeeeeee.....eeeeeeee..eeeeee....eeehhhhhhhhhhhhh......eeee.....hhhhhhhhhh..eeeee.....................hhhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh.....eee...................eeeee...hhhhhhhhhhhhhhhhh......eeeee....hhhhhhhhhhhh.....eeeee......hhhhh.eee........hhhhhhhhhh...eeee...hhhhhhh.....eeee......hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pqg A  -2 HHHMTIYNINLGIGWASSGVEYAQAYRAGVFRKLNLSSKFIFTDMILADNIQHLTANIGFDDNQVIWLYNHFTDIKIAPTSVTVDDVLAYFGGEESHREKNGKVLRVFFFDQDKFVTCYLVDENKDLVQHAEYVFKGNLIRKDYFSYTRYCSEYFAPKDNVAVLYQRTFYNEDGTPVYDILMNQGKEEVYHFKDKIFYGKQAFVRAFMKSLNLNKSDLVILDRETGIGQVVFEEAQTAHLAVVVHAEHYSENATNEDYILWNNYYDYQFTNADKVDFFIVSTDRQNEVLQEQFAKYTQHQPKIVTIPVGSIDSLTDSSQGRKPFSLITASRLAKEKHIDWLVKAVIEAHKELPELTFDIYGSGGEDSLLREIIANHQAEDYIQLKGHAELSQIYSQYEVYLTASTSEGFGLTLMEAIGSGLPLIGFDVPYGNQTFIEDGQNGYLIPSSSDHVEDQIKQAYAAKICQLYQENRLEAMRAYSYQIAEGFLTKEILEKWKKTVEEVLHD 503
                                     7        17        27        37        47        57        67        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      


Chain B from PDB  Type:PROTEIN  Length:501
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......hhhhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhh.hhh.eeehhhhh..........hhhhhhh.....eeeeeee..eeeeee....eeeeeee.......eeeeeeee..eeeeeeee...eeeeeeeeee..eeeeeeeeee.....eeeeeeee..eeeeeee...eeehhhhhhhhhhhhh......eeee.....hhhhhhhhh...eeeee.....................hhhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh.....eee...................eeeee...hhhhhhhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhh.....eeeee......hhhhh.eee........hhhhhhhhhh...eeee...hhhhhhh.....eeee......hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pqg B   1 MTIYNINLGIGWASSGVEYAQAYRAGVFRKLNLSSKFIFTDMILADNIQHLTANIGFDDNQVIWLYNHFTDIKIAPTSVTVDDVLAYFGGEESHREKNGKVLRVFFFDQDKFVTCYLVDENKDLVQHAEYVFKGNLIRKDYFSYTRYCSEYFAPKDNVAVLYQRTFYNEDGTPVYDILMNQGKEEVYHFKDKIFYGKQAFVRAFMKSLNLNKSDLVILDRETGIGQVVFEEAQTAHLAVVVHAEHYSENATNEDYILWNNYYDYQFTNADKVDFFIVSTDRQNEVLQEQFAKYTQHQPKIVTIPVGSIDSLTDSSQGRKPFSLITASRLAKEKHIDWLVKAVIEAHKELPELTFDIYGSGGEDSLLREIIANHQAEDYIQLKGHAELSQIYSQYEVYLTASTSEGFGLTLMEAIGSGLPLIGFDVPYGNQTFIEDGQNGYLIPSSSDHVEDQIKQAYAAKICQLYQENRLEAMRAYSYQIAEGFLTKEILEKWKKTVEEVL 501
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500
   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 4PQG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4PQG)

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    Gln B:109 - Asp B:110   [ RasMol ]  
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