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(-) Description

Title :  MINOR EDITOSOME-ASSOCIATED TUTASE 1 WITH BOUND UTP AND MG
 
Authors :  J. Stagno, H. Luecke
Date :  20 May 09  (Deposition) - 12 May 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Tutase, Nucleotidyltransferase, Trypanosoma, Editosome, Rna Editing, Utp-Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Stagno, I. Aphasizheva, J. Bruystens, H. Luecke, R. Aphasizhev
Structure Of The Mitochondrial Editosome-Like Complex Associated Tutase 1 Reveals Divergent Mechanisms Of Utp Selection And Domain Organization.
J. Mol. Biol. V. 399 464 2010
PubMed-ID: 20403364  |  Reference-DOI: 10.1016/J.JMB.2010.04.021

(-) Compounds

Molecule 1 - MINOR EDITOSOME-ASSOCIATED TUTASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21B
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TB927.1.1330
    Organism Scientific: TRYPANOSOMA BRUCEI
    Organism Taxid: 5691

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric Unit (3, 28)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION
2MSE24Mod. Amino AcidSELENOMETHIONINE
3UTP2Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 1 (2, 13)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2MSE12Mod. Amino AcidSELENOMETHIONINE
3UTP1Ligand/IonURIDINE 5'-TRIPHOSPHATE
Biological Unit 2 (2, 13)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
2MSE12Mod. Amino AcidSELENOMETHIONINE
3UTP1Ligand/IonURIDINE 5'-TRIPHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:52 , GLY A:53 , SER A:54 , SER A:64 , ASP A:65 , ASP A:67 , GLY A:138 , ASN A:141 , SER A:142 , LYS A:164 , LYS A:168 , ASN A:181 , SER A:182 , PHE A:183 , ASP A:335 , CYS A:342 , ARG A:345 , HOH A:395 , HOH A:398 , MG A:401 , HOH A:415 , HOH A:416 , HOH A:423 , HOH A:430 , HOH A:450BINDING SITE FOR RESIDUE UTP A 501
2AC2SOFTWAREPHE B:52 , GLY B:53 , SER B:54 , SER B:64 , ASP B:65 , ASP B:67 , GLY B:138 , ASN B:141 , SER B:142 , LYS B:164 , LYS B:168 , ASN B:181 , SER B:182 , PHE B:183 , ASP B:335 , CYS B:342 , ARG B:345 , MG B:402 , HOH B:408 , HOH B:425 , HOH B:437 , HOH B:442 , HOH B:445 , HOH B:457BINDING SITE FOR RESIDUE UTP B 502
3AC3SOFTWARESER A:54 , ASP A:65 , ASP A:67 , UTP A:501BINDING SITE FOR RESIDUE MG A 401
4AC4SOFTWAREASP B:65 , ASP B:67 , HOH B:457 , UTP B:502BINDING SITE FOR RESIDUE MG B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:307 -Pro A:308
2Gly B:307 -Pro B:308

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3HIY)

(-) 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:382
 aligned with Q4GZ86_TRYB2 | Q4GZ86 from UniProtKB/TrEMBL  Length:406

    Alignment length:382
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382  
         Q4GZ86_TRYB2     3 VAKREFIRGMMAHYRASLPPPEHSVVIHELQKRVLDIGMLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGMERVDEQNNKRMTRFGKEASAMGMEDVRYIRARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILCAIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTMALMVLQELGLLPVFSKPTGEFGELTVADAEMLLQEFKLPPIYDSLHDDDEKLGEAVFFCLQRFAEYYAKYDFSAGTVSLIHPRRHRTVYERVVRRHLELLGSRKRLEWEKHIAEHKEDGPLDENDFSASMQNETTQRPSNSPYVVEDFVNYVNCGRRVQASRVRHIQQEFNRLREMLIDKESELKFDEVFRESDTV 384
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhh.......eeeeee....hhhhh.hhhhhhhhhhhhhhhhhhhhhhh.eeeeee.....eeeee......eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhh................hhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......................hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hiy A   3 VAKREFIRGmmAHYRASLPPPEHSVVIHELQKRVLDIGmLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGmERVDEQNNKRmTRFGKEASAmGmEDVRYIRARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILCAIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTmALmVLQELGLLPVFSKPTGEFGELTVADAEmLLQEFKLPPIYDSLHDDDEKLGEAVFFCLQRFAEYYAKYDFSAGTVSLIHPRRHRTVYERVVRRHLELLGSRKRLEWEKHIAEHKEDGPLDENDFSASmQNETTQRPSNSPYVVEDFVNYVNCGRRVQASRVRHIQQEFNRLREmLIDKESELKFDEVFRESDTV 384
                                    12|       22        32        42        52        62        72        82        92|      102| |    112       122       132       142       152       162       172       182     | 192       202       212      |222       232       242       252       262       272       282       292       302       312     | 322       332       342       352       362 |     372       382  
                                    12-MSE                       41-MSE                                   82-MSE     93-MSE   103-MSE                                                                              188-MSE                        219-MSE                                                                                            318-MSE                                       364-MSE                
                                     13-MSE                                                                                     105-MSE                                                                               191-MSE                                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:382
 aligned with Q4GZ86_TRYB2 | Q4GZ86 from UniProtKB/TrEMBL  Length:406

    Alignment length:382
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382  
         Q4GZ86_TRYB2     3 VAKREFIRGMMAHYRASLPPPEHSVVIHELQKRVLDIGMLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGMERVDEQNNKRMTRFGKEASAMGMEDVRYIRARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILCAIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTMALMVLQELGLLPVFSKPTGEFGELTVADAEMLLQEFKLPPIYDSLHDDDEKLGEAVFFCLQRFAEYYAKYDFSAGTVSLIHPRRHRTVYERVVRRHLELLGSRKRLEWEKHIAEHKEDGPLDENDFSASMQNETTQRPSNSPYVVEDFVNYVNCGRRVQASRVRHIQQEFNRLREMLIDKESELKFDEVFRESDTV 384
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh...eeeeehhhhhh.......eeeeee....hhhhh.hhhhhhhhhhhhhhhhhhhhhhh.eeeeee.....eeeee......eeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh..hhhhhhhhhhhhhhhh................hhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh......................hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hiy B   3 VAKREFIRGmmAHYRASLPPPEHSVVIHELQKRVLDIGmLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGmERVDEQNNKRmTRFGKEASAmGmEDVRYIRARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILCAIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTmALmVLQELGLLPVFSKPTGEFGELTVADAEmLLQEFKLPPIYDSLHDDDEKLGEAVFFCLQRFAEYYAKYDFSAGTVSLIHPRRHRTVYERVVRRHLELLGSRKRLEWEKHIAEHKEDGPLDENDFSASmQNETTQRPSNSPYVVEDFVNYVNCGRRVQASRVRHIQQEFNRLREmLIDKESELKFDEVFRESDTV 384
                                    12|       22        32        42        52        62        72        82        92|      102| |    112       122       132       142       152       162       172       182     | 192       202       212      |222       232       242       252       262       272       282       292       302       312     | 322       332       342       352       362 |     372       382  
                                    12-MSE                       41-MSE                                   82-MSE     93-MSE   103-MSE                                                                              188-MSE                        219-MSE                                                                                            318-MSE                                       364-MSE                
                                     13-MSE                                                                                     105-MSE                                                                               191-MSE
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 3HIY)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q4GZ86_TRYB2 | Q4GZ86)
molecular function
    GO:0050265    RNA uridylyltransferase activity    Catalysis of the reaction: UTP + RNA(n) = diphosphate + RNA(n+1).
biological process
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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 Related Entries

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UniProtKB/TrEMBL
        Q4GZ86_TRYB2 | Q4GZ86: 3hj1 3hj4

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