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(-)Asym./Biol. Unit
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(-) Description

Title :  SYMPORTIN 1 CHAPERONES 5S RNP ASSEMBLY DURING RIBOSOME BIOGENESIS BY OCCUPYING AN ESSENTIAL RRNA BINDING SITE
 
Authors :  F. R. Calvino, S. Kharde, K. Wild, G. Bange, I. Sinning
Date :  21 Jan 15  (Deposition) - 15 Apr 15  (Release) - 15 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Chaperone, Ribosome Biogenesis, Alpha Solenoid. (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. R. Calvino, S. Kharde, A. Ori, A. Hendricks, K. Wild, D. Kressler, G. Bange, E. Hurt, M. Beck, I. Sinning
Symportin 1 Chaperones 5S Rnp Assembly During Ribosome Biogenesis By Occupying An Essential Rrna-Binding Site.
Nat. Commun. V. 6 6510 2015
PubMed-ID: 25849277  |  Reference-DOI: 10.1038/NCOMMS7510

(-) Compounds

Molecule 1 - SYMPORTIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CHAETOMIUM THERMOPHILUM
    Organism Taxid: 209285
 
Molecule 2 - RIBOSOMAL PROTEIN L5
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: N-TERMINUS LINEAR MOTIF, UNP RESIDUES 1-41
    Organism Scientific: CHAETOMIUM THERMOPHILUM
    Organism Taxid: 209285
 
Molecule 3 - RIBOSOMAL PROTEIN L11
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CHAETOMIUM THERMOPHILUM
    Organism Taxid: 209285

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

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

(-) Sites  (0, 0)

(no "Site" information available for 5AFF)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Pro A:140 -Pro A:141
2Asp A:569 -Pro A:570
3Thr A:648 -Gln A:649

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AFF)

(-) 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:568
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhh....hhhhhhhhhhhh...hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh....hhhhhhh....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aff A  26 PELAKLREDKILPVLKDLKSPDAKSRTTAAGAIANIVQDAKCRKLLLREQVVHIVLTETLTDNNIDSRAAGWEILKVLAQEEEADFCVHLYRLDVLTAIEHAAKAVLETLTTSEPPFSKLLKAQQRLVWDITGSLLVLIGLLALARDEIHEAVATKQTILRLLFRLISADIAPQDIYEEAISCLTTLSEDNLKVGQAITDDQETHVYDVLLKLATGTDPRAVMACGVLHNVFTSLQWMDHSPGKDGACDAILIPTLTRALEHVVYANITLLALVTLASIGTDFQETLVKGNSITSEMQADMERVVGADGTDDGDLEDLPTLRELIQTAVPQLIRLSNLPIDSDESLTIQSHALSALNNISWTISCLEFANGENANIHNAWYPTAKKIWRKTILPILEADSADLKLATQVTSLAWAVARVLHGETPTDGNPHRKFISLYHSSKEDPFQGLGVKCIGVVGSLAHDPAPIEVNREVGVFLVTLLRQSNNVPPAEIVEALNQLFDIYGDEELACDKEVFWKDGFLKHLEEFLPKMRTLTKGIDKRTQPELRTRADEALLNLGRFVQYKKKHA 674
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285   ||  306       316       326||     393       403       413       423       433       443       453       463       473       483       493       503       513       523       533 ||    556       566       576       586       596       606       616       626       636       646       656       666        
                                                                                                                                                                                                                                                                                                 289|                       327|                                                                                                                                                   535|                                                                                                                             
                                                                                                                                                                                                                                                                                                  301                        385                                                                                                                                                    549                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:27
                                                           
               SCOP domains --------------------------- SCOP domains
               CATH domains --------------------------- CATH domains
               Pfam domains --------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) --------------------------- SAPs(SNPs)
                    PROSITE --------------------------- PROSITE
                 Transcript --------------------------- Transcript
                 5aff B   2 AFHKLVKNSAYYSRFQTKFKRRKTDYY  30
                                    11        21 ||    
                                                23|    
                                                 26    


Chain C from PDB  Type:PROTEIN  Length:117
                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....hhhhhhhhhhhhhhhh...ee..eeeeeeehhhhhhhhhhhhhhh..............eeeee..................eeeee....hhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 5aff C  15 IQKLVLNISVGESGDRLTRAAKVLEQLSGQTPVYSIAVHVTVRGPKAEEILERGLKVKEYELRRRNFSETGNFGFGISEHIDLGIKYDPSIGIYGMDFYCCMTRTREETIRWFKQRF 167
                                    24        34        44    ||  70        80        90       100       110       120       130   ||  160       
                                                             49|                                                                 134|            
                                                              66                                                                  155
   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 5AFF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:569 - Pro A:570   [ RasMol ]  
    Pro A:140 - Pro A:141   [ RasMol ]  
    Thr A:648 - Gln A:649   [ RasMol ]  
 

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 Related Entries

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UniProtKB/TrEMBL
        G0S5S6_CHATD | G0S5S6: 4gmn 4gmo
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(-) Related Entries Specified in the PDB File

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