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(-) Description

Title :  CRYSTAL STRUCTURE OF N-ACETYLGLUCOSAMINE 1-PHOSPHATE URIDYLTRANSFERASE BOUND TO UDP-GLCNAC
 
Authors :  K. Brown, F. Pompeo, S. Dixon, D. Mengin-Lecreulx, C. Cambillau, Y. Bourne
Date :  25 Sep 00  (Deposition) - 18 Oct 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (3x)
Keywords :  Acetyltransferase, Bifunctional, Crystallography, Drug Design, Pyrophosphorylase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Brown, F. Pompeo, S. Dixon, D. Mengin-Lecreulx, C. Cambillau, Y. Bourne
Crystal Structure Of The Bifunctional N-Acetylglucosamine 1-Phosphate Uridyltransferase From Escherichia Coli: A Paradigm For The Related Pyrophosphorylase Superfamily.
Embo J. V. 18 4096 1999
PubMed-ID: 10428949  |  Reference-DOI: 10.1093/EMBOJ/18.15.4096
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE
    ChainsA, B
    EC Number2.7.7.23
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-22B
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentTRUNCATED FORM AFTER R331
    Organism ScientificESCHERICHIA COLI
    Organism Taxid562
    SynonymN-ACETYLGLUCOSAMINE-1-PHOSPHATE URIDYLTRANSFERASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2SO44Ligand/IonSULFATE ION
3UD12Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
Biological Unit 1 (3, 12)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2SO46Ligand/IonSULFATE ION
3UD13Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
Biological Unit 2 (3, 12)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2SO46Ligand/IonSULFATE ION
3UD13Ligand/IonURIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:144 , GLY A:147 , LYS A:148 , VAL A:149 , VAL A:213 , ALA A:214BINDING SITE FOR RESIDUE SO4 A 951
2AC2SOFTWAREGLN A:231BINDING SITE FOR RESIDUE SO4 A 952
3AC3SOFTWAREARG B:144 , GLY B:147 , VAL B:213 , ALA B:214BINDING SITE FOR RESIDUE SO4 B 953
4AC4SOFTWAREASN B:227 , GLN B:231 , HOH B:638BINDING SITE FOR RESIDUE SO4 B 954
5AC5SOFTWARELEU A:11 , ALA A:13 , GLY A:14 , GLN A:76 , GLN A:79 , LEU A:80 , GLY A:81 , THR A:82 , TYR A:103 , ASP A:105 , TYR A:139 , GLY A:140 , GLU A:154 , ASN A:169 , TYR A:197 , ILE A:198 , THR A:199 , HOH A:607BINDING SITE FOR RESIDUE UD1 A 501
6AC6SOFTWARELEU B:11 , ALA B:13 , GLY B:14 , GLN B:76 , GLN B:79 , LEU B:80 , GLY B:81 , THR B:82 , TYR B:103 , ASP B:105 , TYR B:139 , GLY B:140 , GLU B:154 , ASN B:169 , TYR B:197 , THR B:199 , HOH B:594 , HOH B:603BINDING SITE FOR RESIDUE UD1 B 502
7AC7SOFTWARETYR A:139 , VAL A:223 , GLU A:224 , HOH A:524BINDING SITE FOR RESIDUE EDO A 901
8AC8SOFTWARETYR B:139 , THR B:170 , VAL B:223 , HOH B:563BINDING SITE FOR RESIDUE EDO B 902

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:307 -A:324
2B:307 -B:324

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1FWY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1FWY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1FWY)

(-) Exons   (0, 0)

(no "Exon" information available for 1FWY)

(-) 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:326
 aligned with GLMU_ECOLI | P0ACC7 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:326
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322      
           GLMU_ECOLI     3 NNAMSVVILAAGKGTRMYSDLPKVLHTLAGKAMVQHVIDAANELGAAHVHLVYGHGGDLLKQALKDDNLNWVLQAEQLGTGHAMQQAAPFFADDEDILMLYGDVPLISVETLQRLRDAKPQGGIGLLTVKLDDPTGYGRITRENGKVTGIVEHKDATDEQRQIQEINTGILIANGADMKRWLAKLTNNNAQGEYYITDIIALAYQEGREIVAVHPQRLSEVEGVNNRLQLSRLERVYQSEQAEKLLLAGVMLRDPARFDLRGTLTHGRDVEIDTNVIIEGNVTLGHRVKIGTGCVIKNSVIGDDCEISPYTVVEDANLAAACTIGP 328
               SCOP domains d1fwya2 A:3-251 N-acetylglucosamine 1-phosphate uridyltransferase GlmU, N-terminal domain                                                                                                                                                                d1fwya1 A:252-328                                                             SCOP domains
               CATH domains 1fwyA01 A:3-236 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                              1fwyA02 A:237-328 Hexapeptide repeat proteins                                                CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhh...hhhh.......hhhhhhhhhhhh....eeeee..hhhhhhhhh....eeeee.....hhhhhhhhhhhhh..eeeeeeee......hhhhhhhhhhhh....eeeeeee........eeeee..eeeeeehhhhh..hhhhh.eeeeeeeeeehhhhhhhhhh..........hhhhhhhhhhhh...ee.....hhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.eeee....eeee..eeee..eeee..eeee..eeee..eeee..eeee.eeee..eeee..eeee.eeee..eeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fwy A   3 NNAMSVVILAAGKGTRMYSDLPKVLHTLAGKAMVQHVIDAANELGAAHVHLVYGHGGDLLKQALKDDNLNWVLQAEQLGTGHAMQQAAPFFADDEDILMLYGDVPLISVETLQRLRDAKPQGGIGLLTVKLDDPTGYGRITRENGKVTGIVEHKDATDEQRQIQEINTGILIANGADMKRWLAKLTNNNAQGEYYITDIIALAYQEGREIVAVHPQRLSEVEGVNNRLQLSRLERVYQSEQAEKLLLAGVMLRDPARFDLRGTLTHGRDVEIDTNVIIEGNVTLGHRVKIGTGCVIKNSVIGDDCEISPYTVVEDANLAAACTIGP 328
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322      

Chain B from PDB  Type:PROTEIN  Length:324
 aligned with GLMU_ECOLI | P0ACC7 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:324
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322    
           GLMU_ECOLI     3 NNAMSVVILAAGKGTRMYSDLPKVLHTLAGKAMVQHVIDAANELGAAHVHLVYGHGGDLLKQALKDDNLNWVLQAEQLGTGHAMQQAAPFFADDEDILMLYGDVPLISVETLQRLRDAKPQGGIGLLTVKLDDPTGYGRITRENGKVTGIVEHKDATDEQRQIQEINTGILIANGADMKRWLAKLTNNNAQGEYYITDIIALAYQEGREIVAVHPQRLSEVEGVNNRLQLSRLERVYQSEQAEKLLLAGVMLRDPARFDLRGTLTHGRDVEIDTNVIIEGNVTLGHRVKIGTGCVIKNSVIGDDCEISPYTVVEDANLAAACTI 326
               SCOP domains d1fwyb2 B:3-251 N-acetylglucosamine 1-phosphate uridyltransferase GlmU, N-terminal domain                                                                                                                                                                d1fwyb1 B:252-326                                                           SCOP domains
               CATH domains 1fwyB01 B:3-236 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                              1fwyB02 B:237-326 Hexapeptide repeat proteins                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeee....hhhhh...hhhh.......hhhhhhhhhhhhh...eeeee..hhhhhhhhh....eeeee.....hhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhh....eeeeeee........eeeee..eeeeeehhhhhhhhhhh..eeeeeeeeeehhhhhhhhhh............hhhhhhhhhh...eeee...hhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.eeeehhh.eeee..eeee..eeee..eeee..eeee..eeee..eeee.eeee..eeee..eeee.eeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1fwy B   3 NNAMSVVILAAGKGTRMYSDLPKVLHTLAGKAMVQHVIDAANELGAAHVHLVYGHGGDLLKQALKDDNLNWVLQAEQLGTGHAMQQAAPFFADDEDILMLYGDVPLISVETLQRLRDAKPQGGIGLLTVKLDDPTGYGRITRENGKVTGIVEHKDATDEQRQIQEINTGILIANGADMKRWLAKLTNNNAQGEYYITDIIALAYQEGREIVAVHPQRLSEVEGVNNRLQLSRLERVYQSEQAEKLLLAGVMLRDPARFDLRGTLTHGRDVEIDTNVIIEGNVTLGHRVKIGTGCVIKNSVIGDDCEISPYTVVEDANLAAACTI 326
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322    

   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, 4)

Asymmetric Unit

(-) CATH Domains  (2, 4)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1FWY)

(-) Gene Ontology  (19, 19)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (GLMU_ECOLI | P0ACC7)
molecular function
    GO:0003977    UDP-N-acetylglucosamine diphosphorylase activity    Catalysis of the reaction: N-acetyl-alpha-D-glucosamine 1-phosphate + UTP = diphosphate + UDP-N-acetyl-alpha-D-glucosamine.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0019134    glucosamine-1-phosphate N-acetyltransferase activity    Catalysis of the reaction: alpha-D-glucosamine 1-phosphate + acetyl-CoA = N-acetyl-alpha-D-glucosamine 1-phosphate + CoA + H(+).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0006048    UDP-N-acetylglucosamine biosynthetic process    The chemical reactions and pathways resulting in the formation of UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate.
    GO:0000902    cell morphogenesis    The developmental process in which the size or shape of a cell is generated and organized.
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0009245    lipid A biosynthetic process    The chemical reactions and pathways resulting in the formation of lipid A, the glycolipid group of bacterial lipopolysaccharides, consisting of four to six fatty acyl chains linked to two glucosamine residues. Further modifications of the backbone are common.
    GO:0009103    lipopolysaccharide biosynthetic process    The chemical reactions and pathways resulting in the formation of lipopolysaccharides, any of a group of related, structurally complex components of the outer membrane of Gram-negative bacteria.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0009252    peptidoglycan biosynthetic process    The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
    GO:0008360    regulation of cell shape    Any process that modulates the surface configuration of a cell.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GLMU_ECOLI | P0ACC71fxj 1hv9 2oi5 2oi6 2oi7 3twd 4aa7

(-) Related Entries Specified in the PDB File

1fxj 1FXJ IS CRYSTAL STRUCTURE OF N-ACETYLGLUCOSAMINE 1- PHOSPHATE URIDYLTRANSFERASE