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(-) Description

Title :  MEMBERSHIP IN THE ASKHA SUPERFAMILY: ENZYMOLOGICAL PROPERTIES AND CRYSTAL STRUCTURE OF BUTYRATE KINASE 2 FROM THERMOTOGA MARITIMA
 
Authors :  J. Diao, D. R. Cooper, D. A. Sanders, M. S. Hasson
Date :  09 Feb 04  (Deposition) - 29 Mar 05  (Release) - 22 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (8x)
Keywords :  Askha (Acetate And Sugar Kinases, Hsc70, Actin) Superfamily, Butyrate Kinase, Acetate Kinase, Isobutyrate Kinase, Two Similar Domains, Amppcp, Butyrate, Isobutyrate, Disulfide Bond, Enzyme Mechanism, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Diao, M. S. Hasson
Crystal Structure Of Butyrate Kinase 2 From Thermotoga Maritima, A Member Of The Askha Superfamily Of Phosphotransferases.
J. Bacteriol. V. 191 2521 2009
PubMed-ID: 19201797  |  Reference-DOI: 10.1128/JB.00906-08
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROBABLE BUTYRATE KINASE 2
    Chains: A
    EC Number: 2.7.2.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30A(+)
    Expression System Strain: B834 MET- (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PT7-7
    Gene: BUK2, TM1756
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Synonym: BK 2, BRANCHED-CHAIN CARBOXYLIC ACID KINASE 2

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (8x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric Unit (4, 18)
No.NameCountTypeFull Name
1ACP1Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
2FMT4Ligand/IonFORMIC ACID
3MSE12Mod. Amino AcidSELENOMETHIONINE
4NA1Ligand/IonSODIUM ION
Biological Unit 1 (3, 136)
No.NameCountTypeFull Name
1ACP8Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER
2FMT32Ligand/IonFORMIC ACID
3MSE96Mod. Amino AcidSELENOMETHIONINE
4NA-1Ligand/IonSODIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:142 , SER A:215 , GLY A:216 , THR A:217BINDING SITE FOR RESIDUE NA A 390
2AC2SOFTWAREGLU A:22 , HIS A:154 , HIS A:182 , GLY A:184 , GLY A:185 , GLY A:186 , ARG A:214 , SER A:254 , ASP A:255 , ALA A:256 , ARG A:257 , GLY A:304 , LEU A:305 , HIS A:307 , HOH A:436BINDING SITE FOR RESIDUE ACP A 399
3AC3SOFTWAREARG A:74 , ASP A:128 , LEU A:156 , GLU A:334BINDING SITE FOR RESIDUE FMT A 401
4AC4SOFTWAREPHE A:2 , ARG A:257BINDING SITE FOR RESIDUE FMT A 402
5AC5SOFTWAREASN A:177 , LYS A:194BINDING SITE FOR RESIDUE FMT A 403
6AC6SOFTWAREARG A:275 , TRP A:315 , ARG A:319BINDING SITE FOR RESIDUE FMT A 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1SAZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1SAZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SAZ)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ACETATE_KINASE_1PS01075 Acetate and butyrate kinases family signature 1.BUK2_THEMA4-15  1A:4-15
2ACETATE_KINASE_2PS01076 Acetate and butyrate kinases family signature 2.BUK2_THEMA178-195  1A:178-195
Biological Unit 1 (2, 16)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ACETATE_KINASE_1PS01075 Acetate and butyrate kinases family signature 1.BUK2_THEMA4-15  8A:4-15
2ACETATE_KINASE_2PS01076 Acetate and butyrate kinases family signature 2.BUK2_THEMA178-195  8A:178-195

(-) Exons   (0, 0)

(no "Exon" information available for 1SAZ)

(-) 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:375
 aligned with BUK2_THEMA | Q9X278 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:375
                                    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       310       320       330       340       350       360       370     
           BUK2_THEMA     1 MFRILTINPGSTSTKLSIFEDERMVKMQNFSHSPDELGRFQKILDQLEFREKIARQFVEETGYSLSSFSAFVSRGGLLDPIPGGVYLVDGLMIKTLKSGKNGEHASNLGAIIAHRFSSETGVPAYVVDPVVVDEMEDVARVSGHPNYQRKSIFHALNQKTVAKEVARMMNKRYEEMNLVVAHMGGGISIAAHRKGRVIDVNNALDGDGPFTPERSGTLPLTQLVDLCFSGKFTYEEMKKRIVGNGGLVAYLGTSDAREVVRRIKQGDEWAKRVYRAMAYQIAKWIGKMAAVLKGEVDFIVLTGGLAHEKEFLVPWITKRVSFIAPVLVFPGSNEEKALALSALRVLRGEEKPKNYSEESRRWRERYDSYLDGILR 375
               SCOP domains d1saza1 A:1-172 butyrate kinase 2                                                                                                                                           d1saza2 A:173-375 butyrate kinase 2                                                                                                                                                                         SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --Acetate_kinase-1sazA01 A:3-337                                                                                                                                                                                                                                                                                                                 -------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...eeeeeeee..eeeeeeeee.hhhhhhh..hhhhhhhhhhhhhhhhhhh...hhhhh.eeeee..........eee.hhhhhhhhhhh......hhhhhhhhhhhhhhhh..eeee........hhhhh.............hhhhhhhhhhhhhhhh..hhhh.eeeeeee...eeeeeee..eeeee.hhhhh............hhhhhhhhhh......hhhhh......hhhhhhh..hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeehhhhh..hhhhhhhhhhh....eeeee..hhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---ACETATE_KINA------------------------------------------------------------------------------------------------------------------------------------------------------------------ACETATE_KINASE_2  ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1saz A   1 mFRILTINPGSTSTKLSIFEDERmVKmQNFSHSPDELGRFQKILDQLEFREKIARQFVEETGYSLSSFSAFVSRGGLLDPIPGGVYLVDGLmIKTLKSGKNGEHASNLGAIIAHRFSSETGVPAYVVDPVVVDEmEDVARVSGHPNYQRKSIFHALNQKTVAKEVARmmNKRYEEmNLVVAHmGGGISIAAHRKGRVIDVNNALDGDGPFTPERSGTLPLTQLVDLCFSGKFTYEEmKKRIVGNGGLVAYLGTSDAREVVRRIKQGDEWAKRVYRAmAYQIAKWIGKmAAVLKGEVDFIVLTGGLAHEKEFLVPWITKRVSFIAPVLVFPGSNEEKALALSALRVLRGEEKPKNYSEESRRWRERYDSYLDGILR 375
                            |       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       310       320       330       340       350       360       370     
                            |                     24-MSE                                                              92-MSE                                    135-MSE                          168-MSE   |      |                                                   237-MSE                                 277-MSE    288-MSE                                                                                   
                            1-MSE                    27-MSE                                                                                                                                       169-MSE  |      |                                                                                                                                                                                                
                                                                                                                                                                                                         176-MSE  |                                                                                                                                                                                                
                                                                                                                                                                                                                183-MSE
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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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1SAZ)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Actin_ATPase (173)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A   (BUK2_THEMA | Q9X278)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0047761    butyrate kinase activity    Catalysis of the reaction: ATP + butanoate = ADP + butanoyl phosphate + H(+).
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    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.
    GO:0016774    phosphotransferase activity, carboxyl group as acceptor    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to a carboxyl group (acceptor).
    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.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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 Related Entries

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

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        BUK2_THEMA | Q9X278: 1x9j

(-) Related Entries Specified in the PDB File

1g99 ACETATE KINASE FROM METHANOSARCINA THERMOPHILA