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(-) Description

Title :  STRUCTURE OF BURKHOLDERIA THAILANDENSIS NUCLEOSIDE KINASE (BTHNK) IN COMPLEX WITH ADP-INOSINE
 
Authors :  Y. Yasutake, H. Ota, E. Hino, S. Sakasegawa, T. Tamura
Date :  05 Jul 11  (Deposition) - 02 Nov 11  (Release) - 18 Apr 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Rossmann Fold, Kinase, Atp Binding, Mg Binding, Nucleoside Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Yasutake, H. Ota, E. Hino, S. Sakasegawa, T. Tamura
Structures Of Burkholderia Thailandensis Nucleoside Kinase: Implications For The Catalytic Mechanism And Nucleoside Selectivity
Acta Crystallogr. , Sect. D V. 67 945 2011
PubMed-ID: 22101821  |  Reference-DOI: 10.1107/S0907444911038777

(-) Compounds

Molecule 1 - RIBOKINASE, PUTATIVE
    Chains: A
    EC Number: 2.7.1.143
    Engineered: YES
    Expression System: RHODOCOCCUS ERYTHROPOLIS
    Expression System Plasmid: PTIP-QC2
    Expression System Strain: L88
    Expression System Taxid: 1833
    Expression System Vector Type: PLASMID
    Gene: BTH_I1158
    Organism Scientific: BURKHOLDERIA THAILANDENSIS
    Organism Taxid: 271848
    Strain: E264
    Synonym: NUCLEOSIDE KINASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2NA1Ligand/IonSODIUM ION
3NOS1Ligand/IonINOSINE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2NA-1Ligand/IonSODIUM ION
3NOS2Ligand/IonINOSINE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:8 , ASP A:12 , SER A:36 , GLY A:47 , GLY A:48 , CYS A:49 , ASN A:52 , PHE A:117 , MET A:122 , PRO A:143 , GLN A:169 , ASP A:253 , HOH A:372BINDING SITE FOR RESIDUE NOS A 401
2AC2SOFTWAREHIS A:31 , ASN A:111 , ASN A:192 , THR A:220 , ARG A:221 , GLY A:222 , GLU A:223 , GLY A:225 , VAL A:240 , CYS A:251 , GLY A:252 , SER A:277 , GLY A:280 , ILE A:284 , HOH A:333 , HOH A:345 , HOH A:353 , HOH A:368 , HOH A:371 , HOH A:376 , HOH A:383 , HOH A:425 , HOH A:469 , HOH A:473BINDING SITE FOR RESIDUE ADP A 402
3AC3SOFTWAREILE A:183 , GLU A:184 , ALA A:186 , ARG A:213 , HOH A:330BINDING SITE FOR RESIDUE NA A 327

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3B1P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3B1P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3B1P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3B1P)

(-) Exons   (0, 0)

(no "Exon" information available for 3B1P)

(-) 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:319
 aligned with Q2SZE4_BURTA | Q2SZE4 from UniProtKB/TrEMBL  Length:312

    Alignment length:319
                                                                                                                                                                                                                                                                                                                                                312        
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311|        
         Q2SZE4_BURTA     2 ATLICGSIAYDNIMTFEGRFREHILPDQVHLINLSFLVPTMRREFGGCAGNIAYALNLLGGDARMMGTLGAVDAQPYLDRMDALGLSREYVRVLPDTYSAQAMITTDLDNNQITAFHPGAMMQSHVNHAGEAKDIKLAIVGPDGFQGMVQHTEELAQAGVPFIFDPGQGLPLFDGATLRRSIELATYIAVNDYEAKLVCDKTGWSEDEIASRVQALIITRGEHGATIRHRDGTEQIPAVRAERVIDPTGCGDAFRGGLLYGIEHGFDWATAGRLASLMGALKIAHQGPQTYAPTRAEIDARFETAFGYRPK--------   -
               SCOP domains d3b1pa_ A: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...eeeeeee...hhhhhh..................eeeehhhhhhhhhhhhh...eeeeeeee...hhhhhhhhhhhh.eeeeeeee.....eeeeeee......eeeeehhhhhhhhhhhhhhh....eeee...hhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhhhhh.eeeeehhhhhhhhhhhh.hhhhhhh...eeeee.hhh.eeeee..eeeee............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3b1p A   2 ATLICGSIAYDNIMTFEGRFREHILPDQVHLINLSFLVPTMRREFGGCAGNIAYALNLLGGDARMMGTLGAVDAQPYLDRMDALGLSREYVRVLPDTYSAQAMITTDLDNNQITAFHPGAMMQSHVNHAGEAKDIKLAIVGPDGFQGMVQHTEELAQAGVPFIFDPGQGLPLFDGATLRRSIELATYIAVNDYEAKLVCDKTGWSEDEIASRVQALIITRGEHGATIRHRDGTEQIPAVRAERVIDPTGCGDAFRGGLLYGIEHGFDWATAGRLASLMGALKIAHQGPQTYAPTRAEIDARFETAFGYRPKGSKLRSLE 320
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311
   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  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3B1P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3B1P)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q2SZE4_BURTA | Q2SZE4)
molecular function
    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:0016773    phosphotransferase activity, alcohol group as acceptor    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to an alcohol 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: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.

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 Related Entries

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        Q2SZE4_BURTA | Q2SZE4: 3b1n 3b1o 3b1q 3b1r

(-) Related Entries Specified in the PDB File

3b1n 3b1o 3b1q 3b1r