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
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  ACTIVITY AND CRYSTAL STRUCTURE OF FRANCISELLA NOVICIDA UDP-N-ACETYLGLUCOSAMINE ACYLTRANSFERASE
 
Authors :  S. H. Joo, C. R. H. Raetz
Date :  03 Dec 15  (Deposition) - 12 Oct 16  (Release) - 12 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.06
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (3x)
Keywords :  Left-Handed Parallel Beta Helix, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Joo, H. S. Chung
Crystal Structure And Activity Of Francisella Novicida Udp-N-Acetylglucosamine Acyltransferase
Biochem. Biophys. Res. Commun. V. 478 1223 2016
PubMed-ID: 27545601  |  Reference-DOI: 10.1016/J.BBRC.2016.08.098

(-) Compounds

Molecule 1 - ACYL-[ACYL-CARRIER-PROTEIN]--UDP-N-ACETYLGLUCOSAMINE O- ACYLTRANSFERASE
    Chains: A, B
    EC Number: 2.3.1.129
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LPXA, FTN_1478
    Organism Scientific: FRANCISELLA TULARENSIS SUBSP. NOVICIDA (STRAIN U112)
    Organism Taxid: 401614
    Strain: U112
    Synonym: UDP-N-ACETYLGLUCOSAMINE ACYLTRANSFERASE

 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5F42)

(-) Sites  (0, 0)

(no "Site" information available for 5F42)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5F42)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5F42)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5F42)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5F42)

(-) Exons   (0, 0)

(no "Exon" information available for 5F42)

(-) 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:276
                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......ee....ee....ee....ee....ee....ee....ee....ee....ee....eeee.............eeee....ee....eee........eeee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee.......eeee......eeeeehhhhhhhh..hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhhh.........hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5f42 A   1 MIHSLAVVHESAKIADSAIIGPFCVIGKNVVIGENTELKSHVTIGDNAVIGKNNRIFQYASIGDDPIDYTYKKGDFSQVVIGDNNIIRECATIHGGTAKEIGVTSVGNNNIIMCYVHIGHDCKIGSYINLVNGVGLAGHVHIDDYAILSSNVGVHQFCRVGKHAFIAHAALVGKDVPPYLMVTAVNAGSTPCGINTEGLKRRGFTPEEMKKIKEVYKVLYRKGLMMKEAFEIIKEMAKEDKVLEPFVDVIGTSRRGILRDPNSSSVDKLAAALEHH 276
                                    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      


Chain B from PDB  Type:PROTEIN  Length:276
                                                                                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......ee....ee....ee....ee....ee....ee....ee....ee....ee....eeee.............eeee....ee....eee........eeee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee....ee.......eeee......eeeeehhhhhhhh..hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhhh.........hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5f42 B   1 MIHSLAVVHESAKIADSAIIGPFCVIGKNVVIGENTELKSHVTIGDNAVIGKNNRIFQYASIGDDPIDYTYKKGDFSQVVIGDNNIIRECATIHGGTAKEIGVTSVGNNNIIMCYVHIGHDCKIGSYINLVNGVGLAGHVHIDDYAILSSNVGVHQFCRVGKHAFIAHAALVGKDVPPYLMVTAVNAGSTPCGINTEGLKRRGFTPEEMKKIKEVYKVLYRKGLMMKEAFEIIKEMAKEDKVLEPFVDVIGTSRRGILRDPNSSSVDKLAAALEHH 276
                                    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
   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  (0, 0)

(no "SCOP Domain" information available for 5F42)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5F42)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5F42)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)

 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 5f42)
 
  Sites
(no "Sites" information available for 5f42)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 5f42)
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Biol. Unit 1 PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  5f42
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  A0Q7Y0_FRATN | A0Q7Y0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  2.3.1.129
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  A0Q7Y0_FRATN | A0Q7Y0
    Protein Disorder Prediction: DisEMBL | 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 5F42)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5F42)