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(-) Description

Title :  STRUCTURAL BASIS OF OCTANOIC ACID RECOGNITION BY LIPOATE-PROTEIN LIGASE B
 
Authors :  D. J. Kim, S. J. Lee, H. S. Kim, K. H. Kim, H. H. Lee, H. J. Yoon, S. W. Suh
Date :  02 Jul 07  (Deposition) - 26 Feb 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Globular Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. J. Kim, S. J. Lee, H. S. Kim, K. H. Kim, H. H. Lee, H. J. Yoon, S. W. Suh
Structural Basis Of Octanoic Acid Recognition By Lipoate-Protein Ligase B
Proteins V. 70 1620 2008
PubMed-ID: 18076036  |  Reference-DOI: 10.1002/PROT.21843

(-) Compounds

Molecule 1 - LIPOYLTRANSFERASE
    Chains: A
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: ROSETTA2 (DE3) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TTC 1746
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8
    Synonym: LIPB, LIPOYL-[ACYL-CARRIER-PROTEIN]-PROTEIN- N- LIPOYLTRANSFERASE, LIPOATE-PROTEIN LIGASE B

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1OYA1Ligand/IonOCTANAL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:75 , GLY A:77 , ASP A:78 , ALA A:139 , ILE A:140 , GLY A:141 , GLY A:152 , PHE A:153BINDING SITE FOR RESIDUE OYA A 1001

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:170 -A:170

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QHU)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QHU)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BPL_LPL_CATALYTICPS51733 Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL) catalytic domain profile.LIPB_THET830-209  1A:30-209
2LIPBPS01313 Lipoate-protein ligase B signature.LIPB_THET875-90  1A:75-90

(-) Exons   (0, 0)

(no "Exon" information available for 2QHU)

(-) 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:210
 aligned with LIPB_THET8 | Q5SLQ3 from UniProtKB/Swiss-Prot  Length:217

    Alignment length:210
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
           LIPB_THET8     1 MEFLVEDLGLVPYGEAWAYQKRVHREVVAGNRPPTLLLLEHPRVITLGRKATGENLLFPESWYRENGFELYWVERGGDVTYHGPGQLVGYPIFPVGREVRRFLRQIEEAIVRVAAGYGISAYPTPGYAGVWVGEDKLCAIGVAVKEGVSFHGFALNVNTDLNDFTVIVPCGLKGKGVTSLEKLLGRKVPMEEAKARVVAAFAEVFGLRPV 210
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains -----------------------------------------------BPL_LplA_LipB-2qhuA01 A:48-160                                                                                   -------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee.hhhhhhhhhhhhhhhhhh.....eeeeee...eeee....hhhhh..hhhhhhhh..eeee......eeee...eeeeeee.....hhhhhhhhhhhhhhhhhhhh............eee..eeeeeeeeeee..eeeeeeeee...hhhhhhhh........ee.hhhhhhh...hhhhhhhhhhhhhhhhhh.eee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------------------------BPL_LPL_CATALYTIC  PDB: A:30-209 UniProt: 30-209                                                                                                                                    - PROSITE (1)
                PROSITE (2) --------------------------------------------------------------------------LIPB            ------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2qhu A   1 MEFLVEDLGLVPYGEAWAYQKRVHREVVAGNRPPTLLLLEHPRVITLGRKATGENLLFPESWYRENGFELYWVERGGDVTYHGPGQLVGYPIFPVGREVRRFLRQIEEAIVRVAAGYGISAYPTPGYAGVWVGEDKLCAIGVAVKEGVSFHGFALNVNTDLNDFTVIVPCGLKGKGVTSLEKLLGRKVPMEEAKARVVAAFAEVFGLRPV 210
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   Legend:   → Mismatch (orange background)
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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 2QHU)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2QHU)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: tRNA_synt_II (64)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (LIPB_THET8 | Q5SLQ3)
molecular function
    GO:0033819    lipoyl(octanoyl) transferase activity    Catalysis of the reaction: octanoyl-[acyl-carrier protein] + protein = protein N6-(octanoyl)lysine + acyl-carrier protein.
    GO:0016415    octanoyltransferase activity    Catalysis of the transfer of an octanoyl (CH3-[CH2]6-CO-) group to an acceptor molecule.
    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:0006464    cellular protein modification process    The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications) occurring at the level of an individual cell. Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
    GO:0009107    lipoate biosynthetic process    The chemical reactions and pathways resulting in the formation of lipoate, 1,2-dithiolane-3-pentanoate, the anion derived from lipoic acid.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  2qhu
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 Related Entries

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

UniProtKB/Swiss-Prot
        LIPB_THET8 | Q5SLQ3: 2qhs 2qht 2qhv

(-) Related Entries Specified in the PDB File

2qhs 2qht 2qhv