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(-) Description

Title :  KSHV SOX RNA COMPLEX
 
Authors :  T. E. Barrett
Date :  26 Jan 16  (Deposition) - 01 Feb 17  (Release) - 17 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Kshv, Exonuclease, Endonuclease, Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Lee, A. O. M. Patschull, C. Bagneris, H. Ryan, C. M. Sanderson, B. Ebrahimi, I. Nobeli, T. E. Barrett
Kshv Sox Mediated Host Shutoff: The Molecular Mechanism Underlying Mrna Transcript Processing.
Nucleic Acids Res. V. 45 4756 2017
PubMed-ID: 28132029  |  Reference-DOI: 10.1093/NAR/GKW1340

(-) Compounds

Molecule 1 - ORF 37
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: HUMAN HERPESVIRUS 8 TYPE M
    Organism Taxid: 435895
 
Molecule 2 - RNA (5'- R(P*UP*CP*UP*UP*GP*AP*AP*GP*CP*AP*GP*CP*UP*UP*CP*CP*AP*G)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: HUMAN HERPESVIRUS 8
    Organism Taxid: 37296
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:139 , SER A:144 , SER A:145 , SER A:146 , PHE A:207 , SER A:219binding site for residue ACT A 501

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:183 -A:247

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Met A:59 -Pro A:60

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5HSW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5HSW)

(-) Exons   (0, 0)

(no "Exon" information available for 5HSW)

(-) 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:428
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............hhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhhhhhhh.hhhhhhhhhhhhhhhh......hhhhhhhh..ee..hhhhhhhh..............hhhhhhhhhhhhh.....ee.....ee......eee...eee..ee....ee.....eeeeeee.hhhh......hhhhhhhhhhhh..hhhhhhhhhh.....................ee..hhhhh...hhhhhhhhhhhh...eeeeee........ee.eeeeeee..ee...hhhhhhhhhhhhhhhhhhh..eeeeeeeeee.........eee..eee.....eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh........hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hsw A   6 TPADLFSEDAVLASLSFSKFLKHAKVRDWCAQAKIQPSMPALRMAYNYFLFSKVGEFIGSEDVCNFFVDRVFGGVRLLDVASVYAACSQMNAHQRHHICCLVERATSSQSLNPVWDALRDGIISSSKFHWAVKQQNKIFSPPLAFGLRCEEVVKTLLATLLHPDETNCLDYGFMQSPQNGIFGVSLDFAANVKTDTGRLQFDPNCKVYSIKCRFKYTFAKMECDPIYAAYQRLYEAPGKLALKDFFYSISKPAVEYVGLGKLPSESDYLVAYDQEWEACLHNLIRECILHNSTTESDVYVLTDPQDTRGQISIKARFKANLFVNVRHSYFYQVLLQSSIVEEYIGSPKYYIATGFFRKRGYQDPVNCTIGGDALDPHVEIPTLLIVTPVYFPRGAKHRLLHQAANFWSRSAKDTFPYIKWDFSYLSAN 481
                                    30        40        50        60        70        80        90       100       110       120       130       140       150     ||163||     184       194       204       214       224     ||235       245       255       265       275       285       295       305       324       334       344       354       364       374       384    || 403       413       423       433       443       453       463       473        
                                   14|                                                                                                                           156| 164|                                                   230|                                                                               314|                                                              389|                                                                                  
                                    30                                                                                                                            160  176                                                    232                                                                                324                                                               399                                                                                  


Chain B from PDB  Type:RNA  Length:18
                                                  
                 5hsw B   3 UCUUGAAGCAGCUUCCAG  28
                              ||    20        
                              5|   18|        
                              13    20
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → 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  (0, 0)

(no "SCOP Domain" information available for 5HSW)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5HSW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5HSW)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  5hsw
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 Related Entries

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

UniProtKB/TrEMBL
        P88925_HHV8 | P88925: 3fhd 3pov

(-) Related Entries Specified in the PDB File

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