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(-) Description

Title :  CRYSTAL STRUCTURE OF THE RIO2 KINASE-ADP/MG2+-PHOSPHOASPARTATE COMPLEX FROM CHAETOMIUM THERMOPHILUM
 
Authors :  S. Ferreira-Cerca, V. Sagar, T. Schafer, M. Diop, A. M. Wesseling, H. Lu E. Hurt, N. Laronde-Leblanc
Date :  05 Sep 12  (Deposition) - 17 Oct 12  (Release) - 26 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein Kinase, Adp Complex, Phosphoaspartate, Acyl-Phosphate, Ribosome Biogenesis, Ser/Thr Protein Kinase, Ribosome Biogenesis; Ribosomal Rna Processing; Pre-40S Maturation, Pre-40S, Phosphorylation, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Ferreira-Cerca, V. Sagar, T. Schafer, M. Diop, A. M. Wesseling, H. Lu, E. Chai, E. Hurt, N. Laronde-Leblanc
Atpase-Dependent Role Of The Atypical Kinase Rio2 On The Evolving Pre-40S Ribosomal Subunit.
Nat. Struct. Mol. Biol. V. 19 1316 2012
PubMed-ID: 23104056  |  Reference-DOI: 10.1038/NSMB.2403

(-) Compounds

Molecule 1 - RIO2 KINASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT7
    Expression System Strain: ROSETTA(TM) PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: CTHT_0033330, RIO2
    Organism Scientific: CHAETOMIUM THERMOPHILUM
    Organism Taxid: 759272
    Strain: DSM 1495 / CBS 144.50 / IMI 039719

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric/Biological Unit (4, 5)
No.NameCountTypeFull Name
1ADP1Ligand/IonADENOSINE-5'-DIPHOSPHATE
2EDO2Ligand/Ion1,2-ETHANEDIOL
3MG1Ligand/IonMAGNESIUM ION
4PHD1Mod. Amino AcidASPARTYL PHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:108 , ILE A:110 , LYS A:124 , PRO A:177 , MET A:189 , SER A:190 , VAL A:192 , PRO A:196 , PHE A:233 , ASN A:234 , ILE A:256 , PHD A:257 , MG A:402 , HOH A:510 , HOH A:523 , HOH A:532 , HOH A:543 , HOH A:565 , HOH A:566BINDING SITE FOR RESIDUE ADP A 401
2AC2SOFTWAREASN A:234 , PHD A:257 , ADP A:401 , HOH A:523 , HOH A:543BINDING SITE FOR RESIDUE MG A 402
3AC3SOFTWARETYR A:78 , HIS A:126 , ARG A:127 , LEU A:128 , TYR A:142 , SER A:155 , HIS A:185BINDING SITE FOR RESIDUE EDO A 403
4AC4SOFTWAREARG A:156 , GLN A:182 , ARG A:184BINDING SITE FOR RESIDUE EDO A 404

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Arg A:44 -Gly A:45
2Gly A:45 -Gly A:46
3Ser A:47 -Ser A:48
4Gly A:296 -Pro A:297
5Val A:306 -Gly A:307

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GYI)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh.hhhhhhhhhhhhhhh.....eehhhhhhhhh......hhhhhhhhhhhh..eeeee....eeeeehhhhhhhhhhhhhhhh....eeeeeeee...eeeeeee.....eeeeeee...ee.......ee....hhhhhhhhhhhhhhhhhhhhhhhhhh......eeeee..eeeee....ee.hhh....hhhhhhhhhhhhhhhhhhh.ee........eeeeeee.......eeeeeee......ee....hhhhhhhhhhhhhhhhhhhhhh........hhhhhhh........hhhhh......hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gyi A   2 KLDTRAMRHLTAEDWRVLTAVEMGSKNHEIVPTPLIEKIARLRGGSSGVHKSIATLAKAGLIARMKEAKYDGYRLTYGGLDYLALHTHAARKDVYSVGSRIGVGKESDIMIVADEKGKQKVLKIHRLGRISFRTVKRDYLRNRSTGSWMYLSRLAAIKEFAFMKALYEEGFPVPEPIAQSRHTIVMSLVDALPMRQVSSVPDPASLYADLIALILRLAKHGLIHGDFNEFNILIREEKDAEDPSSITLTPIIIdFPQMVSMDHPNAEMYFDRDVQCIKRFFERRFHFVSTTPGPFYKDAKKTVGKDGAKRLDAALEASGFTKKMAKDLEAAIREQQESR 342
                                    11        21        31        41        51        61        71        81        91       101       111       121       131     ||143       153       163       173       183       193       203       213       223       233       243       253   |   263       273       283       293       303       313       323       333         
                                                                                                                                                                 137|                                                                                                                  257-PHD                                                                                 
                                                                                                                                                                  140
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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 4GYI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Arg A:44 - Gly A:45   [ RasMol ]  
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 Related Entries

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        G0S5R3_CHATD | G0S5R3: 4gyg

(-) Related Entries Specified in the PDB File

4gyg CRYSTAL STRUCTURE OF APO-RIO2 KINASE FROM C. THERMOPHILUM