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(-) Description

Title :  IFIT1 MONOMERIC MUTANT (L457E/L464E) WITH PPP-AAAA
 
Authors :  Y. M. Abbas, S. Martinez-Montero, M. J. Damha, B. Nagar
Date :  27 Dec 16  (Deposition) - 01 Mar 17  (Release) - 22 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Mrna Cap, Triphosphate Rna, Tetratricopeptide Repeat, Rna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. M. Abbas, B. T. Laudenbach, S. Martinez-Montero, R. Cencic, M. Habjan, A. Pichlmair, M. J. Damha, J. Pelletier, B. Nagar
Structure Of Human Ifit1 With Capped Rna Reveals Adaptable Mrna Binding And Mechanisms For Sensing N1 And N2 Ribose 2'-O Methylations.
Proc. Natl. Acad. Sci. V. 114 E2106 2017 U. S. A.
PubMed-ID: 28251928  |  Reference-DOI: 10.1073/PNAS.1612444114

(-) Compounds

Molecule 1 - INTERFERON-INDUCED PROTEIN WITH TETRATRICOPEPTIDE REPEATS 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: IFIT1, G10P1, IFI56, IFNAI1, ISG56
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IFIT-1,INTERFERON-INDUCED 56 KDA PROTEIN,P56
 
Molecule 2 - RNA (5'-D(*(ATP))-R(P*AP*AP*A)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: UNIDENTIFIED
    Organism Taxid: 32644
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 7)

Asymmetric/Biological Unit (5, 7)
No.NameCountTypeFull Name
1ATP1Mod. NucleotideADENOSINE-5'-TRIPHOSPHATE
2CA2Ligand/IonCALCIUM ION
3EDO1Ligand/Ion1,2-ETHANEDIOL
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5PGE2Ligand/IonTRIETHYLENE GLYCOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:42 , LEU A:46 , THR A:48 , TRP A:147 , LYS A:151 , PEG A:502 , HOH A:616 , ATP B:1 , HOH B:102binding site for residue PGE A 501
2AC2SOFTWAREALA A:179 , ASN A:216 , PGE A:501 , EDO A:503binding site for residue PEG A 502
3AC3SOFTWAREASP A:47 , ASP A:215 , ASN A:216 , GLY A:217 , TYR A:218 , SER A:248 , SER A:249 , PEG A:502 , HOH A:832binding site for residue EDO A 503
4AC4SOFTWAREHIS A:63 , HIS A:107 , PHE A:445 , HOH A:628 , HOH A:632 , HOH A:711 , HOH A:846binding site for residue PGE A 504
5AC5SOFTWAREASP A:47 , HOH A:722 , HOH A:765 , HOH A:858binding site for residue CA A 505
6AC6SOFTWAREGLU A:77 , HOH A:854 , HOH A:859 , HOH A:867 , HOH A:912binding site for residue CA A 506

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5UDK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5UDK)

(-) 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:461
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh...hhhhh....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5udk A   8 HQVKDSLEQLRCHFTWELSIDDDEMPDLENRVLDQIEFLDTKYSVGIHNLLAYVKHLKGQNEEALKSLKEAENLMQEEHDNQANVRSLVTWGNFAWMYYHMGRLAEAQTYLDKVENICKKLSNPFRYRMECPEIDCEEGWALLKCGGKNYERAKACFEKVLEVDPENPESSAGYAISAYRLDGFKLATKNHKPFSLLPLRQAVRLNPDNGYIKVLLALKLQDEGQEAEGEKYIEEALANMSSQTYVFRYAAKFYRRKGSVDKALELLKKALQETPTSVLLHHQIGLCYKAQMIQIKEATKGQPRGQNREKLDKMIRSAIFHFESAVEKKPTFEVAHLDLARMYIEAGNHRKAEENFQKLLCMKPVVEETMQDIHFHYGRFQEFQKKSDVNAIIHYLKAIKIEQASLTRDKSINSLKKLVLRKLRRKALDLESLSLLGFVYKLEGNMNEAEEYYERAERLAA 468
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467 


Chain B from PDB  Type:RNA  Length:4
                                    
                 5udk B   1 xAAA   4
                            |   
                            1-ATP
   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 5UDK)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (20, 20)

Asymmetric/Biological Unit(hide GO term definitions)

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  IFIT1_HUMAN | P09914
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 Related Entries

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

UniProtKB/Swiss-Prot
        IFIT1_HUMAN | P09914: 4hou 5udi 5udj 5udl 5w5i

(-) Related Entries Specified in the PDB File

5udi 5udj 5udl