Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)

(-) Description

Title :  THE CRYSTAL STRUCTURE OF THE BIFUNCTIONAL N-ACETYLGLUCOSAMINE-1-PHOSPHATE URIDYLTRANSFERASE/GLUCOSAMINE-1-PHOSPHATE ACETYLTRANSFERASE FROM YERSINIA PESTIS CO92
 
Authors :  R. Zhang, M. Gu, J. Stam, W. Anderson, A. Joachimiak, Center For Struc Genomics Of Infectious Diseases (Csgid)
Date :  19 Jan 09  (Deposition) - 24 Mar 09  (Release) - 25 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (6x)
Keywords :  N-Acetylglucosamine-1-Phosphate Uridyltransferase/Glucosamine-1- Phosphate Acetyltransferase, Structural Genomics, Csgid, Acyltransferase, Cell Shape, Cell Wall Biogenesis/Degradation, Magnesium, Metal-Binding, Multifunctional Enzyme, Nucleotidyltransferase, Peptidoglycan Synthesis, Transferase, Center For Structural Genomics Of Infectious Diseases (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. Zhang, M. Gu, W. Anderson, A. Joachimiak
The Crystal Structure Of The Bifunctional N-Acetylglucosamine-1-Phosphate Uridyltransferase/Glucosamine-1-Phosphate Acetyltransferase From Yersinia Pestis Co92
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BIFUNCTIONAL PROTEIN GLMU
    ChainsA
    EC Number2.7.7.23, 2.3.1.157
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPMCSG7
    Expression System StrainBL21
    Expression System Taxid562
    Expression System Vector TypePLASMID
    Organism ScientificYERSINIA PESTIS PESTOIDES F
    Organism Taxid386656
    StrainCO92
    SynonymUDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE, N- ACETYLGLUCOSAMINE-1-PHOSPHATE URIDYLTRANSFERASE, GLUCOSAMINE-1- PHOSPHATE N-ACETYLTRANSFERASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (6x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3FWW)

(-) Sites  (0, 0)

(no "Site" information available for 3FWW)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:327 -Pro A:328
2Ala A:411 -Pro A:412

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HEXAPEP_TRANSFERASESPS00101 Hexapeptide-repeat containing-transferases signature.GLMU_YERPP403-431  1A:403-431
Biological Unit 1 (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HEXAPEP_TRANSFERASESPS00101 Hexapeptide-repeat containing-transferases signature.GLMU_YERPP403-431  6A:403-431

(-) Exons   (0, 0)

(no "Exon" information available for 3FWW)

(-) 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:445
 aligned with GLMU_YERPP | A4TSJ5 from UniProtKB/Swiss-Prot  Length:456

    Alignment length:449
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443         
           GLMU_YERPP     4 SSMSVVILAAGKGTRMYSDLPKVLHPLAGKPMVQHVIDAAMKLGAQHVHLVYGHGGELLKKTLADPSLNWVLQAEQLGTGHAMQQAAPHFADDEDILMLYGDVPLISVDTLQRLLAAKPEGGIGLLTVKLDNPSGYGRIVRENGDVVGIVEHKDASDAQREINEINTGILVANGRDLKRWLSLLDNNNAQGEFYITDIIALAHADGKKIATVHPTRLSEVEGVNNRLQLSALERVFQTEQAEKLLLAGVMLLDPSRFDLRGELTHGRDITIDTNVIIEGHVILGDRVRIGTGCVLKNCVIGDDSEISPYTVLEDARLDANCTVGPFARLRPGAELAEGAHVGNFVEIKKARLGKGSKAGHLSYLGDAEIGAGVNIGAGTITCNYDGANKFKTIIGDDVFVGSDTQLVAPVTVANGATIGAGTTVTRDVAENELVISRVKQVHIQGWKRP 452
               SCOP domains d3fwwa1 A:4-251 automated matches                                                                                                                                                                                                                       d3fwwa2 A:252-452 automated matches                                                                                                                                                                       SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee....hhhhh...hhhh.ee..eehhhhhhhhhhhhh...eeee...hhhhhhhhh.....eee......hhhhhhhhhhhhh....eeeeee......hhhhhhhhh........eeeeee........eeee....eeeee.......hhhhh.eeeeeee..hhhhhhhhhh.....--....hhhhhhhhhhh.....eee...hhhhhh...hhhhhhhhhhhhhhhhhhhhhhh..ee.....eeeeeeeee....ee...eeeeeeeee....ee....eee..ee....ee....eee..ee....ee...eee....ee....eeee.eeeeeeee....eeee..eeeeeee....ee....eee...--....eee....ee....eee..eee....ee....ee........ee............... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------HEXAPEP_TRANSFERASES         --------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3fww A   4 SSMSVVILAAGKGTRMYSDLPKVLHPLAGKPMVQHVIDAAMKLGAQHVHLVYGHGGELLKKTLADPSLNWVLQAEQLGTGHAMQQAAPHFADDEDILMLYGDVPLISVDTLQRLLAAKPEGGIGLLTVKLDNPSGYGRIVRENGDVVGIVEHKDASDAQREINEINTGILVANGRDLKRWLSLLDNN--QGEFYITDIIALAHADGKKIATVHPTRLSEVEGVNNRLQLSALERVFQTEQAEKLLLAGVMLLDPSRFDLRGELTHGRDITIDTNVIIEGHVILGDRVRIGTGCVLKNCVIGDDSEISPYTVLEDARLDANCTVGPFARLRPGAELAEGAHVGNFVEIKKARLGKGSKAGHLSYLGDAEIGAGVNIGAGTITCNYD--NKFKTIIGDDVFVGSDTQLVAPVTVANGATIGAGTTVTRDVAENELVISRVKQVHIQGWKRP 452
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183      |193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383    |  393       403       413       423       433       443         
                                                                                                                                                                                                                    190  |                                                                                                                                                                                                388  |                                                             
                                                                                                                                                                                                                       193                                                                                                                                                                                                   391                                                             

   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 Unit

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)
Chain A   (GLMU_YERPP | A4TSJ5)
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: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.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 3fww)
 
  Sites
(no "Sites" information available for 3fww)
 
  Cis Peptide Bonds
    Ala A:411 - Pro A:412   [ RasMol ]  
    Gly A:327 - Pro A:328   [ RasMol ]  
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3fww
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  GLMU_YERPP | A4TSJ5
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.3.1.157
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
  2.7.7.23
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  GLMU_YERPP | A4TSJ5
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 3FWW)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3FWW)