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(-) Description

Title :  BIOTIN PROTEIN LIGASE FROM AQUIFEX AEOLICUS IN COMPLEX WITH BIOTIN AND ATP
 
Authors :  C. M. Tron, I. W. Mcnae, M. D. Walkinshaw, R. L. Baxter, D. J. Campopiano
Date :  10 Sep 08  (Deposition) - 09 Jun 09  (Release) - 09 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Bpl Atp Biotin Complex, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Tron, I. W. Mcnae, M. Nutley, D. J. Clarke, A. Cooper, M. D. Walkinshaw, R. L. Baxter, D. J. Campopiano
Structural And Functional Studies Of The Biotin Protein Ligase From Aquifex Aeolicus Reveal A Critical Role For A Conserved Residue In Target Specificity
J. Mol. Biol. V. 387 129 2009
PubMed-ID: 19385043
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BIOTIN [ACETYL-COA-CARBOXYLASE] LIGASE
    Chains: A, B
    EC Number: 6.3.4.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: AQUIFEX AEOLICUS
    Organism Taxid: 63363
    Synonym: 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  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1ATP2Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2BTN2Ligand/IonBIOTIN
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2BTN1Ligand/IonBIOTIN
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2BTN1Ligand/IonBIOTIN
3SO41Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:40 , ARG A:43 , LYS A:44 , TRP A:45 , LEU A:46 , LYS A:92 , TYR A:98 , LYS A:103 , ASN A:123 , ILE A:133 , ALA A:137 , SER A:229 , LEU A:230 , ARG A:231 , BTN A:2001 , HOH A:2022 , LYS B:192 , SER B:233BINDING SITE FOR RESIDUE ATP A 1001
2AC2SOFTWARESER A:13 , THR A:14 , GLN A:15 , GLN A:34 , GLY A:37 , ARG A:38 , GLY A:39 , ARG A:40 , TRP A:45 , SER A:55 , LYS A:103 , ILE A:120 , GLY A:121 , ATP A:1001BINDING SITE FOR RESIDUE BTN A 2001
3AC3SOFTWAREARG A:33 , GLN A:48 , GLU A:49BINDING SITE FOR RESIDUE SO4 A 2002
4AC4SOFTWARELYS A:61 , ASN A:125 , ARG A:150 , HOH A:2069 , HOH A:2079BINDING SITE FOR RESIDUE SO4 A 2003
5AC5SOFTWARELYS A:192 , SER A:233 , ARG B:40 , ARG B:43 , TRP B:45 , LEU B:46 , ASP B:96 , TYR B:98 , LYS B:103 , ASN B:123 , ALA B:137 , SER B:229 , BTN B:2001 , HOH B:2057BINDING SITE FOR RESIDUE ATP B 1001
6AC6SOFTWARESER B:13 , THR B:14 , GLN B:15 , GLN B:34 , GLY B:37 , ARG B:38 , GLY B:39 , ARG B:40 , TRP B:45 , PHE B:54 , SER B:55 , LYS B:103 , GLY B:106 , ILE B:120 , GLY B:121 , ATP B:1001BINDING SITE FOR RESIDUE BTN B 2001
7AC7SOFTWAREARG B:33 , GLN B:48 , GLU B:49BINDING SITE FOR RESIDUE SO4 B 2002

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Trp A:93 -Pro A:94
2Trp B:93 -Pro B:94

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3EFS)

(-) 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:232
 aligned with O66837_AQUAE | O66837 from UniProtKB/TrEMBL  Length:233

    Alignment length:232
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  
         O66837_AQUAE     2 FKNLIWLKEVDSTQERLKEWNVSYGTALVADRQTKGRGRLGRKWLSQEGGLYFSFLLNPKEFENLLQLPLVLGLSVSEALEEITEIPFSLKWPNDVYFQEKKVSGVLCELSKDKLIVGIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEKSFKEFKGKIESKMLYLGEEVKLLGEGKITGKLVGLSEKGGALILTEEGIKEILSGEFSLRRS 233
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.hhhhhhhhh.....eeeeeeee.................eeeeeee........hhhhhhhhhhhhhhhhhhhh...eee...eeee..eeeeeeeeee....eeeeeee.......hhhhhh...hhhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.....eeeee...eeeeeeeee.....eeeee..eeeee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3efs A   2 FKNLIWLKEVDSTQERLKEWNVSYGTALVADRQTKGRGRLGRKWLSQEGGLYFSFLLNPKEFENLLQLPLVLGLSVSEALEEITEIPFSLKWPNDVYFQEKKVSGVLRELSKDKLIVGIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEKSFKEFKGKIESKMLYLGEEVKLLGEGKITGKLVGLSEKGGALILTEEGIKEILSGEFSLRRS 233
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  


Chain B from PDB  Type:PROTEIN  Length:232
 aligned with O66837_AQUAE | O66837 from UniProtKB/TrEMBL  Length:233

    Alignment length:232
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231  
         O66837_AQUAE     2 FKNLIWLKEVDSTQERLKEWNVSYGTALVADRQTKGRGRLGRKWLSQEGGLYFSFLLNPKEFENLLQLPLVLGLSVSEALEEITEIPFSLKWPNDVYFQEKKVSGVLCELSKDKLIVGIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEKSFKEFKGKIESKMLYLGEEVKLLGEGKITGKLVGLSEKGGALILTEEGIKEILSGEFSLRRS 233
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....hhhhhhhhh.....eeeee....................eeeeeee........hhhhhhhhhhhhhhhhhhhh...eee...eeee..eeeeeeeeeee..eeeeeeee................hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh......eeeee...eeeeeeeee.....eeeee..eeeee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3efs B   2 FKNLIWLKEVDSTQERLKEWNVSYGTALVADRQTKGRGRLGRKWLSQEGGLYFSFLLNPKEFENLLQLPLVLGLSVSEALEEITEIPFSLKWPNDVYFQEKKVSGVLRELSKDKLIVGIGINVNQREIPEEIKDRATTLYEITGKDWDRKEVLLKVLKRISENLKKFKEKSFKEFKGKIESKMLYLGEEVKLLGEGKITGKLVGLSEKGGALILTEEGIKEILSGEFSLRRS 233
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231
   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 3EFS)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (O66837_AQUAE | O66837)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0004077    biotin-[acetyl-CoA-carboxylase] ligase activity    Catalysis of the reaction: ATP + biotin + apo-(acetyl-CoA:carbon-dioxide ligase (ADP forming)) = AMP + diphosphate + (acetyl-CoA:carbon-dioxide ligase (ADP forming)).
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
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).

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 Related Entries

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

UniProtKB/TrEMBL
        O66837_AQUAE | O66837: 2eay 3efr 3fjp

(-) Related Entries Specified in the PDB File

1wpy 2dto 2eay 3efr