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(-) Description

Title :  STRUCTURE OF HUMAN ARGONAUTE-1 BOUND TO ENDOGENOUS SF9 RNA
 
Authors :  C. R. Faehnle, E. Elkayam, L. Joshua-Tor
Date :  16 May 13  (Deposition) - 19 Jun 13  (Release) - 17 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,R
Keywords :  Eukaryotic Argonaute, Gene Regulation, Rnai, Slicer, Transcription- Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. R. Faehnle, E. Elkayam, A. D. Haase, G. J. Hannon, L. Joshua-Tor
The Making Of A Slicer: Activation Of Human Argonaute-1.
Cell Rep V. 3 1901 2013
PubMed-ID: 23746446  |  Reference-DOI: 10.1016/J.CELREP.2013.05.033

(-) Compounds

Molecule 1 - PROTEIN ARGONAUTE-1
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Plasmid: MULTI-BAC, PFL
    Expression System Strain: SF9
    Expression System Taxid: 7108
    Expression System Vector Type: BACULOVIRUS
    Gene: AGO1, EIF2C1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ARGONAUTE1, HAGO1, EUKARYOTIC TRANSLATION INITIATION FACTOR 2C 1, EIF-2C 1, EIF2C 1, PUTATIVE RNA-BINDING PROTEIN Q99
 
Molecule 2 - RNA (5'- R(P*AP*AP*UP*AP*UP*UP*AP*AP*A*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3')
    Chains: R
    Organism Scientific: SPODOPTERA FRUGIPERDA
    Organism Taxid: 7108
    Other Details: ENDOGENOUS SF9 RNA
    Other Details - Source: MIXTURE OF CO-PURIFIED ENDOGENOUS SF9 RNA

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AR

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4KRE)

(-) Sites  (0, 0)

(no "Site" information available for 4KRE)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4KRE)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys A:60 -Pro A:61
2His A:619 -Pro A:620

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4KRE)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4KRE)

(-) Exons   (0, 0)

(no "Exon" information available for 4KRE)

(-) 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:799
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeeeee.eeeee....eeeeeeeeee....hhhhhhhhhhhhhhhhhhhh....ee....eeee........eeeee....eeeeeeeeeeeehhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhheee..eee........eee..eeeeeeeeeeeee....eeeeeeeeeeeee...hhhhhhhhhhh.......hhhhhhhhhhhhh..eeee......eeeeeeeeeee....eeeee.....eeeeehhhhhhhhhh........eeeee..eeee...eee..........hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh..ee....eeeeeee.....ee.......ee......................eeeee.......hhhhhhhhhhhhhhhhhhh.........eeee..hhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhh.....eeeeehhhhhh.hhhhhhhhhhhhhhhh.....ee.hhhhhhhhhh.eeeeeeeee......eeeeeeee.......eeeeeeee........hhhhhhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhhhhhhhhh.....eeeeeeee......eee.hhhhh..........eee..........eeeee...........eeeeeeee....hhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kre A  18 QQVFQAPRRPGIGTVGKPIKLLANYFEVDIPKIDVYHYEVDIKPDKCPRRVNREVVEYMVQHFKIFGDRKPVYDGKKNIYTVTALPIGERVDFEVTRIFKVSIKWLAIVSWRMLHEALVSGQIPVPLESVQALDVAMRHLASMRYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWKMMLNIDVSATAFYKAQPVIEFMCEVLDIRQPKPLTDSQRVRFTKEIKGLKVEVTHCGKRKYRVCNVTRRPASHQTFPLQLESGQTVECTVAQYFKQKYNLQLKYPHLPCLQVGHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLMKNASYNLDPYIQEFGIKVKDDMTEVTGRVLPAPILQYGGRNRAIATPNQGVWDMRGKQFYNGIEIKVWAIACFAPQKQCREEVLKNFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYSGLQLIIVILPGKTPVYAEVKRVGDTLLGMATQCVQVKNVVKTSPQTLSNLCLKINVKLGGINNILVPHQRSAVFQQPVIFLGADVTHPPKKPSITAVVGSMDAHPSRYCATVRVQRPRQEIIEDLSYMVRELLIQFYKSTRFKPTRIIFYRDGVPEGQLPQILHYELLAIRDACIKLEKDYQPGITYIVVQKRHHTRLFCADKNERIGKSGNIPAGTTVDTNITHPFEFDFYLCSHAGIQGTSRPSHYYVLWDDNRFTADELQILTYQLCHTYVRCTRSVSIPAPAYYARLVAFRARYHLVDRDPQALAKAVQVHQDTLRTMYFA 857
                                    27        37        47        57        67        77   ||   89        99       110     ||127       137       147       157       167       177       187       197       207       217       227       237 ||    251       261       271|      283       293       303       313       323     ||337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597  ||   611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791       801       811     ||838       848         
                                                                                          81|                    107|    116|                                                                                                                239|                        271|                                                    329|                                                                                                                                                                                                                                                                       600|                                                                                                                                                                                                                 817|                      
                                                                                           84                     109     124                                                                                                                 244                         274                                                     334                                                                                                                                                                                                                                                                        605                                                                                                                                                                                                                  835                      


Chain R from PDB  Type:RNA  Length:11
                                           
                 4kre R   1 AAUAUUAAAAA  20
                                    19 
                                    9| 
                                    19
   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 4KRE)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4KRE)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4KRE)

(-) Gene Ontology  (39, 39)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    His A:619 - Pro A:620   [ RasMol ]  
    Lys A:60 - Pro A:61   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        AGO1_HUMAN | Q9UL18: 1si2 1si3 4krf 4kxt

(-) Related Entries Specified in the PDB File

4krf