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(-) Description

Title :  PROBING THE N-TERMINAL BETA-SHEET CONVERSION IN THE CRYSTAL STRUCTURE OF THE FULL-LENGTH HUMAN PRION PROTEIN BOUND TO A NANOBODY
 
Authors :  R. N. N Abskharon, G. Giachin, A. Wohlkonig, S. H. Soror, E. Pardon, G. L J. Steyaert
Date :  08 May 13  (Deposition) - 19 Feb 14  (Release) - 19 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Prion-Like Fold, Antibody, Nanobody, Membrane Protein-Protein Binding Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. N. Abskharon, G. Giachin, A. Wohlkonig, S. H. Soror, E. Pardon, G. Legname, J. Steyaert
Probing The N-Terminal Beta-Sheet Conversion In The Crystal Structure Of The Human Prion Protein Bound To A Nanobody.
J. Am. Chem. Soc. V. 136 937 2014
PubMed-ID: 24400836  |  Reference-DOI: 10.1021/JA407527P

(-) Compounds

Molecule 1 - MAJOR PRION PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: PET28A
    Gene: PRIP, PRNP, PRP
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PRP, ASCR, PRP27-30, PRP33-35C
 
Molecule 2 - NANOBODY
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: LLAMA
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4KML)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:179 -A:214
2B:22 -B:96

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KML)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KML)

(-) 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:109
                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeee............hhhhhhhhhhhhhhh....ee.hhhhh.hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 4kml A 117 AAGAVVGGLGGYMLGSAMSRPIIHFGSDYEDRYYRENMHRYPNQVYYRPMDEYSNQNNFVHDCVNITIKQHTVTTTTKGENFTETDVKMMERVVEQMCITQYERESQAY 225
                                   126       136       146       156       166       176       186       196       206       216         


Chain B from PDB  Type:PROTEIN  Length:123
                                                                                                                                                           
               SCOP domains d4kmlb_ B: automated matches                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee.....eeeeeee...hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeeee.......hhh.ee.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kml B   1 AVQLQESGGGLVQPGGSLRLSCAASGRTFSSYNMGWFRQAPGKGREFVASITSSGDKSDYTDSVKGRFTISRDNAKNTMYLQMNNLKPEDTATYYCARGLGIYIIRARGGYDHWGQGTQVTVS 123
                                    10        20        30        40        50        60        70        80        90       100       110       120
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (43, 43)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        PRIO_HUMAN | P04156: 1e1g 1e1j 1e1p 1e1s 1e1u 1e1w 1fkc 1fo7 1h0l 1hjm 1hjn 1i4m 1oeh 1oei 1qlx 1qlz 1qm0 1qm1 1qm2 1qm3 2iv4 2iv5 2iv6 2k1d 2kun 2lbg 2lej 2lft 2lsb 2lv1 2m8t 2ol9 2w9e 3haf 3hak 3heq 3her 3hes 3hj5 3hjx 3md4 3md5 3nhc 3nhd 3nvf 4dgi 4e1h 4e1i 4n9o 5l6r

(-) Related Entries Specified in the PDB File

4n9o