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(-) Description

Title :  NOP9, A NEW PUF-LIKE PROTEIN, PREVENTS PREMATURE PRE-RRNA CLEAVAGE TO CORRECTLY PROCESS MATURE 18S RRNA
 
Authors :  J. Zhang, C. Qiu, T. Hall
Date :  05 Aug 16  (Deposition) - 26 Oct 16  (Release) - 26 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Nop9, Puf-Like Proteins, Its1 Ribosome Biogenesis, Rna-Binding Protein, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Zhang, K. L. Mccann, C. Qiu, L. E. Gonzalez, S. J. Baserga, T. M. Hall
Nop9 Is A Puf-Like Protein That Prevents Premature Cleavage To Correctly Process Pre-18S Rrna.
Nat Commun V. 7 13085 2016
PubMed-ID: 27725644  |  Reference-DOI: 10.1038/NCOMMS13085

(-) Compounds

Molecule 1 - NUCLEOLAR PROTEIN 9
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PSMT3
    Expression System Strain: BL21 DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 46-645
    Gene: NOP9, YJL010C, J1357
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: PUMILIO DOMAIN-CONTAINING PROTEIN NOP9

 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5SVD)

(-) Sites  (0, 0)

(no "Site" information available for 5SVD)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5SVD)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Ser A:279 -Arg A:280
2Arg A:280 -Ser A:281
3Ser A:281 -Asp A:282
4Gln A:285 -Ser A:286
5Arg B:159 -Glu B:160

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5SVD)

(-) 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:543
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh..hhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhh......hhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.......hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5svd A  50 QMFFGVLDREELEYFKQAESTLQLDAFEAPEEKFQFVTSIIEEAKGKELKLVTSQITSKLMERVILECDETQLKDIFQSFNGVFFGLSCHKYASHVLETLFVRSAALVERELLTYVTMENMFLFMLNELKPHLKTMMNHQYASHVLRLLILILSSKTLPVYQTPESFKSELRDIITTLYKGFTNGAESRSDISQSTITKFREYSVDKVASPVIQLIIQVEGIFDRDRSFWRLVFNTADEKDPKEESFLEYLLSDPVGSHFLENVIGSARLKYVERLYRLYMKDRIVKLAKRDTTGAFVVRALLEHLKEKDVKQILDAVVPELSMLLNSNMDFGTAIINTSNKQGGYLRDDVIAQLIQKYYPEKSDAKNILESCLLLSASTLGNTRDDWPTAEERRRSVFLEQLIDYDDKFLNITIDSMLALPEERLIQMCYHGVFSHVVEHVLQTTRVDIIKRKMLLNILSKESVNLACNVYGSHIMDKLWEFTAKLTLYKERIARALVLETEKVKNSIYGRQVWKNWKLELYVRKMWDWKKLIKEQEFEIFP 634
                                    59        69        79        89        99       109       119       129       139       149       159   ||  180       190       200       210       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631   
                                                                                                                                           163|                                         219|                                                                                                                                                                                                                                                                                                                                                                                               
                                                                                                                                            175                                          251                                                                                                                                                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:534
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhh......hhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh.......hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh......hhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5svd B  50 QMFFGVLDREELEYFKQAESTLQLDAFEAPEEKFQFVTSIIEEAKGKELKLVTSQITSKLMERVILECDETQLKDIFQSFNGVFFGLSCHKYASHVLETLFVRSAALVEREVTMENMFLFMLNELKPHLKTMMNHQYASHVLRLLILILSSKTLPESFKSELRDIITTLYKGFTNGAESRSDISQSTITKFREYSVDKVASPVIQLIIQVEGIFDRDRSFWRLVFNTADEKDPKEESFLEYLLSDPVGSHFLENVIGSARLKYVERLYRLYMKDRIVKLAKRDTTGAFVVRALLEHLKEKDVKQILDAVVPELSMLLNSNMDFGTAIINTSNKQGGYLRDDVIAQLIQKYYPEKSDAKNILESCLLLSASTLGNTRDDWPTAEERRRSVFLEQLIDYDDKFLNITIDSMLALPEERLIQMCYHGVFSHVVEHVLQTTRVDIIKRKMLLNILSKESVNLACNVYGSHIMDKLWEFTAKLTLYKERIARALVLETEKVKNSIYGRQVWKNWKLELYVRKMWDWKKLIKEQEFEIFP 634
                                    59        69        79        89        99       109       119       129       139       149       159||     184       194       204       214   ||  260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630    
                                                                                                                                        160|                                       218|                                                                                                                                                                                                                                                                                                                                                                                           
                                                                                                                                         176                                        255
   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 5SVD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

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  Cis Peptide Bonds
    Arg A:280 - Ser A:281   [ RasMol ]  
    Arg B:159 - Glu B:160   [ RasMol ]  
    Gln A:285 - Ser A:286   [ RasMol ]  
    Ser A:279 - Arg A:280   [ RasMol ]  
    Ser A:281 - Asp A:282   [ RasMol ]  
 
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  5svd
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  NOP9_YEAST | P47077
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 Related Entries

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        NOP9_YEAST | P47077: 5wtx 5wty

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