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

(-) Description

Title :  HIN GLMU BOUND TO WG188
 
Authors :  P. Doig, S. L. Kazmirski, P. A. Boriack-Sjodin
Date :  10 May 13  (Deposition) - 15 Oct 14  (Release) - 17 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Beta Helix, Cell Wall Biosynthesis, Inhibitor Bound, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Doig, P. A. Boriack-Sjodin, J. Dumas, J. Hu, K. Itoh, K. Johnson, S. Kazmirski, T. Kinoshita, S. Kuroda, T. O. Sato, K. Sugimoto, K. Tohyama, H. Aoi, K. Wakamatsu, H. Wang
Rational Design Of Inhibitors Of The Bacterial Cell Wall Synthetic Enzyme Glmu Using Virtual Screening And Lead-Hopping.
Bioorg. Med. Chem. V. 22 6256 2014
PubMed-ID: 25262942  |  Reference-DOI: 10.1016/J.BMC.2014.08.017

(-) Compounds

Molecule 1 - BIFUNCTIONAL PROTEIN GLMU
    Chains: A
    EC Number: 2.7.7.23, 2.3.1.157
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GLMU, HI_0642
    Organism Scientific: HAEMOPHILUS INFLUENZAE
    Organism Taxid: 727
    Synonym: UDP-N-ACETYLGLUCOSAMINE PYROPHOSPHORYLASE, N- ACETYLGLUCOSAMINE-1-PHOSPHATE URIDYLTRANSFERASE, GLUCOSAMINE-1- PHOSPHATE N-ACETYLTRANSFERASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 10)

Asymmetric Unit (4, 10)
No.NameCountTypeFull Name
11S81Ligand/IonN-{4-[(2-BENZYL-7-HYDROXY-6-METHOXYQUINAZOLIN-4-YL)AMINO]PHENYL}BENZAMIDE
2MG2Ligand/IonMAGNESIUM ION
3PG42Ligand/IonTETRAETHYLENE GLYCOL
4SO45Ligand/IonSULFATE ION
Biological Unit 1 (3, 24)
No.NameCountTypeFull Name
11S83Ligand/IonN-{4-[(2-BENZYL-7-HYDROXY-6-METHOXYQUINAZOLIN-4-YL)AMINO]PHENYL}BENZAMIDE
2MG-1Ligand/IonMAGNESIUM ION
3PG46Ligand/IonTETRAETHYLENE GLYCOL
4SO415Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELEU A:11 , ALA A:12 , ALA A:13 , GLY A:14 , THR A:82 , TYR A:103 , ASP A:105 , ASN A:169 , THR A:170 , VAL A:223 , HOH A:937 , HOH A:1017 , HOH A:1018BINDING SITE FOR RESIDUE 1S8 A 501
02AC2SOFTWAREASN A:72 , TYR A:387 , ASP A:388 , GLY A:422 , ALA A:423 , ILE A:438 , HOH A:998 , HOH A:999 , HOH A:1000BINDING SITE FOR RESIDUE PG4 A 502
03AC3SOFTWAREASP A:157 , ASN A:159 , GLN A:162 , ASN A:189 , ASN A:190 , ASN A:191 , ALA A:192 , GLN A:193 , GLY A:194 , HOH A:968BINDING SITE FOR RESIDUE PG4 A 503
04AC4SOFTWAREASP A:406 , HOH A:605BINDING SITE FOR RESIDUE MG A 504
05AC5SOFTWAREASP A:406 , HOH A:994BINDING SITE FOR RESIDUE MG A 505
06AC6SOFTWARELYS A:15 , GLY A:16 , THR A:17 , LYS A:25 , HOH A:815 , HOH A:877BINDING SITE FOR RESIDUE SO4 A 506
07AC7SOFTWAREARG A:333 , PRO A:334 , HOH A:790BINDING SITE FOR RESIDUE SO4 A 507
08AC8SOFTWARELYS A:360 , ASN A:362 , HIS A:363 , HOH A:624 , HOH A:823 , HOH A:993BINDING SITE FOR RESIDUE SO4 A 508
09AC9SOFTWAREHIS A:57 , GLY A:58 , HOH A:730BINDING SITE FOR RESIDUE SO4 A 509
10BC1SOFTWAREARG A:18 , ASN A:227 , GLN A:231BINDING SITE FOR RESIDUE SO4 A 510

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Glu A:145 -Asn A:146
2Gly A:327 -Pro A:328
3Ala A:411 -Pro A:412

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KNR)

(-) 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:450
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee....hhhhh...hhhh.ee..eehhhhhhhhhhhh....eeeee..hhhhhhhhh.....eeee.....hhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhh....eeeeeee........eeee....eeeeehhhhh........eeeeeeeeeehhhhhhhhh.............hhhhhhhhh....eeeee..hhhhh....hhhhhhhhhhhhhhhhhhhhhhh..ee.hhh.eeeeeeeee....ee...eeeeeeeee....ee....eeeeeee....ee....eeeeeee....ee...eee....ee....eeeeeeeee..ee....eeeeeeeee.eee....ee....eeee........eee....ee....eeee.eee....ee....ee........ee................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4knr A   4 KALSAVILAAGKGTRMYSDLPKVLHTIAGKPMVKHVIDTAHQLGSENIHLIYGHGGDLMRTHLANEQVNWVLQTEQLGTAHAVQQAAPFFKDNENIVVLYGDAPLITKETLEKLIEAKPENGIALLTVNLDNPTGYGRIIRENGNVVAIVEQKDANAEQLNIKEVNTGVMVSDGASFKKWLARVGNNNAQGEYYLTDLIALANQDNCQVVAVQATDVMEVEGANNRLQLAALERYFQNKQASKLLLEGVMIYDPARFDLRGTLEHGKDVEIDVNVIIEGNVKLGDRVKIGTGCVLKNVVIGNDVEIKPYSVLEDSIVGEKAAIGPFSRLRPGAELAAETHVGNFVEIKKSTVGKGSKVNHLTYVGDSEIGSNCNIGAGVITCNYDGANKFKTIIGDDVFVGSDTQLVAPVKVANGATIGAGTTITRDVGENELVITRVAQRHIQGWQRPI 453
                                    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       453
   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 4KNR)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

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
    1S8  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MG  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    PG4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Ala A:411 - Pro A:412   [ RasMol ]  
    Glu A:145 - Asn A:146   [ 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
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites 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
  4knr
    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
  GLMU_HAEIN | P43889
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  2.3.1.157
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
  2.7.7.23
    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
  GLMU_HAEIN | P43889
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        GLMU_HAEIN | P43889: 2v0h 2v0i 2v0j 2v0k 2v0l 2vd4 2w0v 2w0w 4e1k 4knx 4kpx 4kpz 4kql

(-) Related Entries Specified in the PDB File

4knx HIN GLMU BOUND TO WG176
4kpx HIN GLMU BOUND TO WG766
4kpz HIN GLMU BOUND TO SMALL MOLECULE FRAGMENT
4kql HIN GLMU BOUND TO WG578