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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ESCHERICHIA COLI LPXC/LPC-009 COMPLEX
 
Authors :  C. -J Lee, P. Zhou
Date :  04 Oct 10  (Deposition) - 05 Jan 11  (Release) - 16 Mar 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A
Keywords :  Lipid A Biosynthesis, Lipid A Synthesis, Lpxc, Baab Sandwich, Hydrolase, Deacetylation, Antibiotic, Acyl Udp-Glcnac, Hydroxamate, Lpc-009 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. J. Lee, X. Liang, X. Chen, D. Zeng, S. H. Joo, H. S. Chung, A. W. Barb, S. M. Swanson, R. A. Nicholas, Y. Li, E. J. Toone, C. R. Raetz, P. Zhou
Species-Specific And Inhibitor-Dependent Conformations Of Lpxc: Implications For Antibiotic Design.
Chem. Biol. V. 18 38 2011
PubMed-ID: 21167751  |  Reference-DOI: 10.1016/J.CHEMBIOL.2010.11.011

(-) Compounds

Molecule 1 - UDP-3-O-[3-HYDROXYMYRISTOYL] N-ACETYLGLUCOSAMINE DEACETYLASE
    Chains: A
    EC Number: 3.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: ECOK1_0097, ENVA, LPXC
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 714962
    Strain: IHE3034 / EXPEC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric/Biological Unit (5, 9)
No.NameCountTypeFull Name
13P31Ligand/IonN-[(1S,2R)-2-HYDROXY-1-(HYDROXYCARBAMOYL)PROPYL]-4-(4-PHENYLBUTA-1,3-DIYN-1-YL)BENZAMIDE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3SO45Ligand/IonSULFATE ION
4UKW1Ligand/Ion4-ETHYNYL-N-[(1S,2R)-2-HYDROXY-1-(OXOCARBAMOYL)PROPYL]BENZAMIDE
5ZN1Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:79 , HIS A:238 , ASP A:242 , 3P3 A:401BINDING SITE FOR RESIDUE ZN A 301
2AC2SOFTWARELEU A:62 , CYS A:63 , GLU A:78 , HIS A:79 , THR A:191 , MET A:195 , ILE A:198 , GLN A:202 , GLY A:210 , SER A:211 , PHE A:212 , HIS A:238 , LYS A:239 , ASP A:242 , HIS A:265 , ZN A:301 , SO4 A:506 , HOH A:1118BINDING SITE FOR RESIDUE 3P3 A 401
3AC3SOFTWARELYS A:22 , LYS A:23 , HOH A:1170 , HOH A:1278BINDING SITE FOR RESIDUE SO4 A 501
4AC4SOFTWARELYS A:22 , GLU A:122 , ASN A:124 , HOH A:1057BINDING SITE FOR RESIDUE SO4 A 502
5AC5SOFTWAREARG A:29 , ARG A:40 , HOH A:1081 , HOH A:1161BINDING SITE FOR RESIDUE SO4 A 504
6AC6SOFTWARELYS A:8 , ARG A:9 , GLY A:119 , ARG A:204 , GLN A:288 , ASP A:289 , HOH A:1175BINDING SITE FOR RESIDUE SO4 A 505
7AC7SOFTWAREASP A:59 , LYS A:239 , GLY A:264 , HIS A:265 , 3P3 A:401 , HOH A:1070 , HOH A:1110BINDING SITE FOR RESIDUE SO4 A 506
8AC8SOFTWAREPHE A:161 , PHE A:192BINDING SITE FOR RESIDUE DMS A 701
9AC9SOFTWARETYR A:113 , LEU A:116 , MET A:183 , ARG A:184 , SER A:187 , ARG A:188 , PHE A:194 , ASP A:197 , LEU A:201 , HOH A:1194 , HOH A:1224BINDING SITE FOR RESIDUE UKW A 801

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3P3G)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asn A:45 -Pro A:46

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3P3G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3P3G)

(-) Exons   (0, 0)

(no "Exon" information available for 3P3G)

(-) Sequences/Alignments

Asymmetric/Biological 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:300
                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee...eeeeee......eeeeeee.......eeeee......eeee.hhh.ee......eee.....eee.hhhhhhhhhhhh...eeeee...........hhhhhhhhhhhheeeeeee..eeee...eeeee..eeeeee....eeeeee........hhhh.eeeee.hhhhhhhhh.....eeehhhhhhhhhh...........eee..............hhhhhhhhhhhhhhhhhhh..eeeeeeee..hhhhhhhhhhhhhhh...eeee...hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3p3g A   1 MIKQRTLKRIVQATGVGLHTGKKVTLTLRPAPANTGVIYRRTDLNPPVDFPADAKSVRDTMLCTCLVNEHDVRISTVEHLNAALAGLGIDNIVIEVNAPEIPIMDGSAAPFVYLLLDAGIDELNCAKKFVRIKETVRVEDGDKWAEFKPYNGFSLDFTIDFNHPAIDSSNQRYAMNFSADAFMRQISRARTFGFMRDIEYLQSRGLCLGGSFDCAIVVDDYRVLNEDGLRFEDEFVRHKMLDAIGDLFMCGHNIIGAFTAYKSGHALNNKLLQAVLAKQEAWEYVTFQDDAELPLAFKAP 300
                                    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
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  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 3P3G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3P3G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3P3G)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3P3G)

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    Asn A:45 - Pro A:46   [ RasMol ]  
 

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

3p3c CRYSTAL STRUCTURE OF THE AQUIFEX AEOLICUS LPXC/LPC-009 COMPLEX
3p3e CRYSTAL STRUCTURE OF THE PSEUDOMONAS AERUGINOSA LPXC/LPC- 009 COMPLEX
3p3g CRYSTAL STRUCTURE OF THE ESCHERICHIA COLI LPXC/LPC-009 COMPLEX