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(-) Description

Title :  CRYSTAL STRUCTURE OF V30M MUTATED TRANSTHYRETIN IN COMPLEX WITH 3-ISOMANGOSTIN
 
Authors :  T. Yokoyama, M. Mizuguchi
Date :  17 Feb 15  (Deposition) - 09 Sep 15  (Release) - 09 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.89
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Transthyretin, Inhibitor, Natural Product, Mangostin, Transporter, Amyloidosis, Kinetic Stabilizer, Transport Protein-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Yokoyama, M. Ueda, Y. Ando, M. Mizuguchi
Discovery Of Gamma-Mangostin As An Amyloidogenesis Inhibito
Sci Rep V. 5 13570 2015
PubMed-ID: 26310724  |  Reference-DOI: 10.1038/SREP13570

(-) Compounds

Molecule 1 - TRANSTHYRETIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE-30
    Expression System Strain: M30
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TTR, PALB
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ATTR,PREALBUMIN,TBPA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1MKU2Ligand/Ion5,9-DIHYDROXY-8-METHOXY-2,2-DIMETHYL-7-(3-METHYLBUT-2-EN-1-YL)-3,4-DIHYDRO-2H,6H-PYRANO[3,2-B]XANTHEN-6-ONE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1MKU4Ligand/Ion5,9-DIHYDROXY-8-METHOXY-2,2-DIMETHYL-7-(3-METHYLBUT-2-EN-1-YL)-3,4-DIHYDRO-2H,6H-PYRANO[3,2-B]XANTHEN-6-ONE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:15 , LEU A:17 , THR A:106 , ALA A:108 , LEU A:110 , SER A:117 , THR A:119 , VAL A:121 , HOH A:313binding site for residue MKU A 201
2AC2SOFTWARELYS B:15 , LEU B:17 , THR B:106 , ALA B:108 , ALA B:109 , LEU B:110 , SER B:117 , THR B:119 , VAL B:121 , HOH B:303binding site for residue MKU B 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4Y9G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4Y9G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Y9G)

(-) Exons   (0, 0)

(no "Exon" information available for 4Y9G)

(-) 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    
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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:116
                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....ee....eeeeeee.....eeeeeeee.....ee...........eeeeeeehhhhhhhhh........eeeeeee......eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 4y9g A  10 CPLMVKVLDAVRGSPAINVAMHVFRKAADDTWEPFASGKTSESGELHGLTTEEEFVEGIYKVEIDTKSYWKALGISPFHEHAEVVFTANDSGPRRYTIAALLSPYSYSTTAVVTNP 125
                                    19        29        39        49        59        69        79        89        99       109       119      


Chain B from PDB  Type:PROTEIN  Length:115
                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....ee....eeeeeee.....eeeeeeee.....ee...........eeeeeeehhhhhhhhhh.......eeeeeee......eeeeeeeee..eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 4y9g B  10 CPLMVKVLDAVRGSPAINVAMHVFRKAADDTWEPFASGKTSESGELHGLTTEEEFVEGIYKVEIDTKSYWKALGISPFHEHAEVVFTANDSGPRRYTIAALLSPYSYSTTAVVTN 124
                                    19        29        39        49        59        69        79        89        99       109       119
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  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 4Y9G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Y9G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Y9G)

(-) Gene Ontology  (15, 15)

Asymmetric Unit(hide GO term definitions)

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  TTHY_HUMAN | P02766
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 Related Entries

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

UniProtKB/Swiss-Prot
        TTHY_HUMAN | P02766: 1bm7 1bmz 1bz8 1bzd 1bze 1dvq 1dvs 1dvt 1dvu 1dvx 1dvy 1dvz 1e3f 1e4h 1e5a 1eta 1etb 1f41 1f64 1f86 1fh2 1fhn 1g1o 1gko 1ict 1iii 1iik 1ijn 1qab 1qwh 1rlb 1sok 1soq 1tha 1thc 1tlm 1tsh 1tt6 1tta 1ttb 1ttc 1ttr 1tyr 1tz8 1u21 1x7s 1x7t 1y1d 1z7j 1zcr 1zd6 2b14 2b15 2b16 2b77 2b9a 2f7i 2f8i 2fbr 2flm 2g3x 2g3z 2g4e 2g4g 2g5u 2g9k 2gab 2h4e 2m5n 2nbo 2nbp 2noy 2pab 2qel 2qgb 2qgc 2qgd 2qge 2rox 2roy 2trh 2try 2wqa 3a4d 3a4e 3a4f 3b56 3bsz 3bt0 3cbr 3cfm 3cfn 3cfq 3cft 3cn0 3cn1 3cn2 3cn3 3cn4 3cxf 3d2t 3d7p 3dgd 3did 3djr 3djs 3djt 3djz 3dk0 3dk2 3do4 3esn 3eso 3esp 3fc8 3fcb 3glz 3gps 3grb 3grg 3gs0 3gs4 3gs7 3hj0 3i9a 3i9i 3i9p 3imr 3ims 3imt 3imu 3imv 3imw 3ipb 3ipe 3kgs 3kgt 3kgu 3m1o 3nee 3neo 3nes 3nex 3ng5 3ozk 3ozl 3p3r 3p3s 3p3t 3p3u 3ssg 3tct 3tfb 3u2i 3u2j 3w3b 4abq 4abu 4abv 4abw 4ac2 4ac4 4act 4ank 4d7b 4der 4des 4det 4deu 4dew 4fi6 4fi7 4fi8 4hiq 4his 4hjs 4hjt 4hju 4i85 4i87 4i89 4iiz 4ik6 4ik7 4iki 4ikj 4ikk 4ikl 4ky2 4l1s 4l1t 4mas 4mrb 4mrc 4n85 4n86 4n87 4pm1 4pme 4pmf 4pvl 4pvm 4pvn 4pwe 4pwf 4pwg 4pwh 4pwi 4pwj 4pwk 4qrf 4qxv 4qya 4tkw 4tl4 4tl5 4tlk 4tls 4tlt 4tlu 4tm9 4tne 4tnf 4tng 4tq8 4tqh 4tqi 4tqp 4wnj 4wns 4wo0 4y9b 4y9c 4y9e 4y9f 4ydm 4ydn 5a6i 5aks 5akt 5akv 5al0 5al8 5ayt 5boj 5clx 5cly 5clz 5cm1 5cn3 5cnh 5cr1 5dej 5dwp 5e23 5e4a 5e4o 5en3 5ezp 5fo2 5fw6 5fw7 5fw8 5h0v 5h0w 5h0x 5h0y 5h0z 5hjg 5ihh 5jid 5jim 5jiq 5k1j 5k1n 5l4f 5l4i 5l4j 5l4m 5lll 5llv 5ttr 5tzl

(-) Related Entries Specified in the PDB File

4pwe 4y9b 4y9c 4y9e 4y9f