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(-) Description

Title :  CRYSTAL STRUCTURE OF BIOTIN PROTEIN LIGASE (RV3279C) OF MYCOBACTERIUM TUBERCULOSIS, COMPLEXED WITH BIOTINYL-5'-AMP
 
Authors :  Q. Ma, M. Wilmanns, Y. Akhter
Date :  04 Feb 14  (Deposition) - 30 Apr 14  (Release) - 02 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Bira, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Q. Ma, Y. Akhter, M. Wilmanns, M. T. Ehebauer
Active Site Conformational Changes Upon Reaction Intermediate Biotinyl-5'-Amp Binding In Biotin Protein Ligase From Mycobacterium Tuberculosis.
Protein Sci. V. 23 932 2014
PubMed-ID: 24723382  |  Reference-DOI: 10.1002/PRO.2475

(-) Compounds

Molecule 1 - BIRA BIFUNCTIONAL PROTEIN
    Chains: A, B
    EC Number: 6.3.4.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETM11
    Expression System Strain: ROSETTA(DE3)PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BIRA, MT3379, RV3279C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV
    Synonym: BIOTIN OPERON REPRESSOR + BIOTIN--[ACETYL-COA-CARBOXYLASE] SYNTHETASE (BIOTIN--PROTEIN LIGASE)

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1BT52Ligand/IonBIOTINYL-5-AMP
2SO41Ligand/IonSULFATE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1BT51Ligand/IonBIOTINYL-5-AMP
2SO4-1Ligand/IonSULFATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1BT51Ligand/IonBIOTINYL-5-AMP
2SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:38 , THR A:39 , ASN A:40 , GLN A:63 , GLY A:66 , ARG A:67 , GLY A:68 , ARG A:69 , ARG A:72 , GLY A:73 , TRP A:74 , ALA A:75 , GLN A:81 , ILE A:83 , LEU A:84 , ASN A:130 , LYS A:138 , GLY A:141 , ILE A:142 , LEU A:143 , VAL A:155 , GLY A:156 , ASN A:158 , VAL A:166 , ASP A:167 , ALA A:170 , HOH A:441 , HOH A:580 , HOH A:586BINDING SITE FOR RESIDUE BT5 A 301
2AC2SOFTWARESER B:38 , THR B:39 , ASN B:40 , GLN B:63 , GLY B:66 , ARG B:67 , GLY B:68 , ARG B:69 , ARG B:72 , GLY B:73 , TRP B:74 , ALA B:75 , GLN B:81 , ILE B:83 , LEU B:84 , ASN B:130 , LYS B:138 , GLY B:141 , ILE B:142 , VAL B:155 , GLY B:156 , ASN B:158 , VAL B:166 , ASP B:167 , ALA B:170 , SO4 B:302 , HOH B:404 , HOH B:484 , HOH B:504BINDING SITE FOR RESIDUE BT5 B 301
3AC3SOFTWAREARG B:72 , GLY B:73 , BT5 B:301 , HOH B:545 , HOH B:575BINDING SITE FOR RESIDUE SO4 B 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OP0)

(-) Cis Peptide Bonds  (7, 7)

Asymmetric Unit
No.Residues
1Asp A:92 -Val A:93
2Val A:93 -Pro A:94
3Trp A:128 -Pro A:129
4Gln A:148 -Pro A:149
5Val B:95 -Gln B:96
6Trp B:128 -Pro B:129
7Gln B:148 -Pro B:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OP0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OP0)

(-) Exons   (0, 0)

(no "Exon" information available for 4OP0)

(-) 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:259
                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh.....hhhhhhhhhhhh.....eeeeeeee.hhhhhhhhhhhh......eeeeeeee..ee.....ee......eeeeeeeee.........hhhhhhhhhhhhhhhh....eee...eeee..eeeeeeeeeee..eeeeeeeee...hhhhhh.....hhhhh....hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.....eeeeee...eeeeeeeeee.....eeeee..eeeee...eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4op0 A   1 MADRDRLRPPLDERSLRDQLIGAGSGWRQLDVVAQTGSTNADLLARAASGADIDGVVLIAEHQTAGRGRHGRGWAATARAQIILSVGVRVVDVPVQAWGWLSLAAGLAVLDSVAPLITGLKWPNDVLARGGKLAGILAEVAQPFVVLGVGLNVTQAPEEVDPDATSLLDLGVAAPDRNRIASRLLRELEARIIQWRNANPQLAADYRARSLTIGSRVRVELPGGQDVVGIARDIDDQGRLCLDVGGRTVVVSAGDVVHL 265
                                    10        20        30        40        50        60        70        80        90       100       110      |126       136       146       156       166       176       186       196       206       216       226       236       246       256         
                                                                                                                                              117|                                                                                                                                             
                                                                                                                                               124                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:257
                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...hhhhhhhhhh.....eeeeeeee.hhhhhhhhhhhh......eeeeeeee..ee.....ee......eeeeeeeee......hhhhhhhhhhhhhhhhhhhhhh..eeee...eeee..eeeeeeeeeee..eeeeeeeee...hhhhhh..............hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh.....eeeeee...eeeeeeeeee.....eeeee..eeeee...eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4op0 B   3 DRDRLRPPLDERSLRDQLIGSGWRQLDVVAQTGSTNADLLARAASGADIDGVVLIAEHQTAGRGRHGRGWAATARAQIILSVGVRVVDVPVQAWGWLSLAAGLAVLDSVAPLIAETGLKWPNDVLARGGKLAGILAEVAQPFVVLGVGLNVTQAPEEVDPDATSLLDLGVAAPDRNRIASRLLRELEARIIQWRNANPQLAADYRARSLTIGSRVRVELPGGQDVVGIARDIDDQGRLCLDVGGRTVVVSAGDVVHL 265
                                    12        24        34        44        54        64        74        84        94       104       114  ||   128       138       148       158       168       178       188       198       208       218       228       238       248       258       
                                             21|                                                                                          117|                                                                                                                                               
                                              24                                                                                           122
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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 4OP0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OP0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OP0)

(-) Gene Ontology  (6, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        I6YFP0_MYCTU | I6YFP0: 4xtu 4xtv 4xtw 4xtx 4xty 4xtz 4xu0 4xu1 4xu2 4xu3
        P96884_MYCTO | P96884: 2cgh 3l1a 3l2z 3rux

(-) Related Entries Specified in the PDB File

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