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(-) Description

Title :  STRUCTURAL BASIS FOR UTP SPECIFICITY OF RNA EDITING TUTASES FROM TRYPANOSOMA BRUCEI
 
Authors :  J. Deng, N. L. Ernst, S. Turley, K. D. Stuart, W. G. Hol
Date :  26 Sep 05  (Deposition) - 22 Nov 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Tbret2, Tbmp57, Rna Editing, Terminal Uridylyl Transferase, Trypanosoma Brucei, Editosome, Transferase/Rna Binding Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Deng, N. L. Ernst, S. Turley, K. D. Stuart, W. G. Hol
Structural Basis For Utp Specificity Of Rna Editing Tutases From Trypanosoma Brucei.
Embo J. V. 24 4007 2005
PubMed-ID: 16281058  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600861
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RNA EDITING COMPLEX PROTEIN MP57
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEX HTA
    Expression System Strain: BL21 GOLD DE3
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: TBRET2
    Gene: TBMP57
    Mutation: YES
    Organism Scientific: TRYPANOSOMA BRUCEI
    Organism Taxid: 5691

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 16)

Asymmetric/Biological Unit (2, 16)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION
2MSE15Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:285 , HIS A:286 , GLY A:288 , PRO A:289 , HOH A:516 , HOH A:696 , HOH A:701BINDING SITE FOR RESIDUE K A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B4V)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:234 -Pro A:235

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B4V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B4V)

(-) Exons   (0, 0)

(no "Exon" information available for 2B4V)

(-) 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:437
 aligned with Q86MV5_9TRYP | Q86MV5 from UniProtKB/TrEMBL  Length:487

    Alignment length:442
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469  
         Q86MV5_9TRYP    30 NPSPDHYAVWGKAIMAENNRRVGPEHMFRTAIRAQQQLQGLADKWTPDAKVYCCGSMVTYGQMEWGSDLDLACMFDDPYPSHEVQAKRTDKLWTVIKRYVPHYLRNNLLGLTEARTPVVKLRFANDEKVARARYTPLSEEEDRKARTALLDVRNQCVGDNDVEYIAEKMGRDNVEGIWVDRTTYGCRIAIQCTSKEQMIEAIGFFPDGKIMTRGMREDYTRDVLDVRFVPEMFMYRWDISFVGYGVKNSYLIRHYLHNGPVAARHTAMAVKAWGKATNVGAGSGAMLTSYAVTVMFIYYLLVTRQVLWVDPWSLPHPAHLPRYPDFSPLYDCDPTELGRLLHGFFIFYAHHFDYEREVVSLNRNRRSYRSDIGWNFPQNKKGTFSYNFCIEDPYEDVGTGGLNLVRHLHPAKFQLVKQEFLRAAQCMERFLPTNAPEKSILG 471
               SCOP domains d2b4va2 A:30-288 RNA editing terminal uridyl transferase 2, TUTase 2, RET2                                                                                                                                                                                         d2b4va1 A:289-471 R     NA editing terminal uridyl transferase 2, TUTase 2, RET2                                                                                                        SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhhh.......eeeeee......hhhhhhhhhhhhhhhhhh..hhhhhh.eeee......eeee...hhhhhhhhhhh..hhhhhhhhheeeeeee....hhhhhhhhhhhhh...eeeeeee....eeeeeeee.hhhhhhhhhh........hhhhhh.eeeee......hhhhh..eeee..hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..-----....hhhhhhhhhhhhhhhh......hhhhh.hhhhh............hhhhhhhhhhhhhhhhhhh.....ee........eehhhhh..hhh.ee..ee.......................hhhhhhhhhhhhhhhhhhhhhh.......hhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b4v A  30 NPSPDHYAVWGKAImAENNRRVGPEHmFRTAIRAQQQLQGLADKWTPDAKVYCCGSmVTYGQmERGSDLDLACmFDDPYPSHEVQAKRTDKLRTVIKRYVPHYLRNNLLGLTEARTPVVKLRFANDEKVARARYTPLSEEEDRKARTALLDVRNQCVGDNDVEYIAEKmGRDNVEGIRVDRTTYGCRIAIQCTSKEQmIEAIGFFPDGKImTRGmREDYTRDVLDVRFVPEmFmYRWDISFVGYGVKNSYLIRHYLHNGPVAARHTAmAVKAWGKATN-----GAmLTSYAVTVmFIYYLLVTRQVLWVDPWSLPHPAHLPRYPDFSPLYDCDPTELGRLLHGFFIFYAHHFDYEREVVSLNRNRRSYRSDIGWNFPQNKKGTFSYNFCIEDPYEDVGTGGLNLVRHLHPAKFQLVKQEFLRAAQCmERFLPTNAPEKSILG 471
                                    39    |   49      | 59        69        79      | 89  |     99   |   109       119       129       139       149       159       169       179       189       199       209       219       229       239|   |  249       259 | |   269       279       289       299       | -   | | 319    |  329       339       349       359       369       379       389       399       409       419       429       439       449      |459       469  
                                         44-MSE      56-MSE                        86-MSE |        103-MSE                                                                                        198-MSE                      227-MSE      240-MSE              261-MSE                             297-MSE   307   313 |      324-MSE                                                                                                                             456-MSE           
                                                                                         92-MSE                                                                                                                                                 244-MSE            263-MSE                                             315-MSE
   Legend:   → Mismatch (orange background)
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    → 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  (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 2B4V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B4V)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2B4V)

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 Related Entries

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UniProtKB/TrEMBL
        Q86MV5_9TRYP | Q86MV5: 2b51 2b56

(-) Related Entries Specified in the PDB File

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