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(-) Description

Title :  CRYSTAL STRUCTURE OF A. FULGIDUS RIO2 SERINE PROTEIN KINASE BOUND TO ATP
 
Authors :  N. Laronde-Leblanc, A. Wlodawer
Date :  17 Jun 04  (Deposition) - 28 Sep 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Serine Kinase, Ribosome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Laronde-Leblanc, A. Wlodawer
Crystal Structure Of A. Fulgidus Rio2 Defines A New Family Of Serine Protein Kinases
Structure V. 12 1585 2004
PubMed-ID: 15341724  |  Reference-DOI: 10.1016/J.STR.2004.06.016

(-) Compounds

Molecule 1 - CONSERVED HYPOTHETICAL PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST14
    Expression System Strain: ROSETTA-PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: RIO2
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 224325
    Strain: DSM 4304
    Synonym: RIO2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1ATP1Ligand/IonADENOSINE-5'-TRIPHOSPHATE
2MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMSE A:98 , GLY A:101 , LYS A:102 , GLU A:103 , SER A:104 , LYS A:120 , PRO A:167 , MSE A:179 , GLU A:180 , ILE A:182 , GLU A:186 , TYR A:222 , ASN A:223 , ILE A:234 , ASP A:235 , HOH A:285 , HOH A:307 , HOH A:367 , HOH A:402 , HOH A:409BINDING SITE FOR RESIDUE ATP A 283

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1TQP)

(-) Exons   (0, 0)

(no "Exon" information available for 1TQP)

(-) 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:269
 aligned with RIO2_ARCFU | O30245 from UniProtKB/Swiss-Prot  Length:282

    Alignment length:282
                                    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  
           RIO2_ARCFU     1 MNIAELYGKMGKHSWRIMDAIFKNLWDYEYVPLQLISSHARIGEEKARNILKYLSDLRVVQNRQKDYEGSTFTFIGLSLYSLHRLVRSGKVDAIGKLMGEGKESAVFNCYSEKFGECVVKFHKVGHTSFKKVKEKRDYGDLHFSVLAIRSARNEFRALQKLQGLAVPKVYAWEGNAVLMELIDAKELYRVRVENPDEVLDMILEEVAKFYHRGIVHGDLSQYNVLVSEEGIWIIDFPQSVEVGEEGWREILERDVRNIITYFSRTYRTEKDINSAIDRILQE 282
               SCOP domains d1tqpa1 A:1-90 Rio2 serine protein kinase N-terminal domain                               d1tqpa2 A:91-282 Rio2 serine prote      in k       inase C-terminal domain                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------Rio2_N-1tqpA01 A:7-88                                                             ----------------RIO1-1tqpA02 A:105-2      75                                                                                                                                               ------- Pfam domains
         Sec.struct. author .hhhhhhhh.hhhhhhhhhhhhh.......eehhhhhhhhh.hhhhhhhhhhhhhhh..eeee.....eeeehhhhhhhhhhhhhhhh....eeeeeeee...eeeeeeee...eeeeeeee..------....-------hhhhhhhhhhhhhhhhhhhh.......eeeee..eeeee....ee.hhh...hhhhhhhhhhhhhhhhhhh.ee........eeee..eeee......ee....hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1tqp A   1 mNIAELYGKmGKHSWRImDAIFKNLWDYEYVPLQLISSHARIGEEKARNILKYLSDLRVVQNRQKDYEGSTFTFIGLSLYSLHRLVRSGKVDAIGKLmGEGKESAVFNCYSEKFGECVVKFHKV------KVKE-------HFSVLAIRSARNEFRALQKLQGLAVPKVYAWEGNAVLmELIDAKELYRVRVENPDEVLDmILEEVAKFYHRGIVHGDLSQYNVLVSEEGIWIIDFPQSVEVGEEGWREILERDVRNIITYFSRTYRTEKDINSAIDRILQE 282
                            |       10       |20        30        40        50        60        70        80        90       100       110       120   |     -|  |     - |     150       160       170       180       190       200|      210       220       230       240       250       260       270       280  
                            |       10-MSE  18-MSE                                                                          98-MSE                   124    131  |     142                                  179-MSE               201-MSE                                                                             
                            1-MSE                                                                                                                              134
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  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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: HTH (544)
(-)
Clan: PKinase (934)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RIO2_ARCFU | O30245)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004674    protein serine/threonine kinase activity    Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
    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.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RIO2_ARCFU | O30245: 1tqi 1tqm 1zao 1zar

(-) Related Entries Specified in the PDB File

1tqi CRYSTAL STRUCTURE OF A.FULGIDUS RIO2- NO BOUND NUCLEOTIDE
1tqm CRYSTAL STRUCTURE OF A.FULGIDUS RIO2 - BOUND AMPPNP