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(-) Description

Title :  STRUCTURAL TUNING OF CD81LEL (SPACE GROUP P64)
 
Authors :  N. G. A. Abrescia
Date :  17 Oct 16  (Deposition) - 14 Dec 16  (Release) - 18 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Human Cellular Receptor For Hepatitis C Virus, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. S. Cunha, P. Sfriso, A. L. Rojas, A. Hospital, M. Orozco, N. G. Abrescia
Mechanism Of Structural Tuning Of The Hepatitis C Virus Human Cellular Receptor Cd81 Large Extracellular Loop.
Structure V. 25 53 2017
PubMed-ID: 27916518  |  Reference-DOI: 10.1016/J.STR.2016.11.003
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CD81 ANTIGEN
    Chains: A, B
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: HEK293T
    Expression System Common: HUMAN
    Expression System Taxid: 9606
    Expression System Vector: PHLSEC
    Expression System Vector Type: PLASMID
    Fragment: LEL DOMAIN, UNP RESIDUES 112-201
    Gene: CD81, TAPA1, TSPAN28
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: 26 KDA CELL SURFACE PROTEIN TAPA-1,TARGET OF THE ANTIPROLIFERATIVE ANTIBODY 1,TETRASPANIN-28,TSPAN-28

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric/Biological Unit (2, 9)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2EDO6Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:170 , ASN A:173 , CYS A:175binding site for residue CL A 301
2AC2SOFTWARELYS A:116binding site for residue CL A 302
3AC3SOFTWARETHR A:161 , LEU A:162 , THR A:163 , HOH A:408 , ASN B:172binding site for residue CL A 303
4AC4SOFTWAREGLN A:129 , GLN A:133binding site for residue EDO A 304
5AC5SOFTWARELYS A:193 , ASP A:196 , LEU A:197 , GLY A:202 , EDO A:306 , THR B:153binding site for residue EDO A 305
6AC6SOFTWARELYS A:193 , GLY A:202 , EDO A:305binding site for residue EDO A 306
7AC7SOFTWAREASN B:172 , ASN B:173 , CYS B:175 , PRO B:176 , GLY B:178 , SER B:179binding site for residue EDO B 301
8AC8SOFTWAREGLN B:129 , GLN B:133 , ASN B:142binding site for residue EDO B 302
9AC9SOFTWARESER B:159 , ASP B:189 , HIS B:191binding site for residue EDO B 303

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:156 -A:190
2A:157 -A:175
3B:156 -B:190
4B:157 -B:175

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5M3T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5M3T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5M3T)

(-) Exons   (0, 0)

(no "Exon" information available for 5M3T)

(-) 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:89
                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh......hhhhhhhhhhh.......hhhhhhh..hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                 5m3t A 114 VNKDQIAKDVKQFYDQALQQAVVDDDANNAKAVVKTFHETLDCCGSSTLTALTTSVLKNNLCPSGSNIISNLFKEDCHQKIDDLFSGKG 202
                                   123       133       143       153       163       173       183       193         


Chain B from PDB  Type:PROTEIN  Length:93
                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh......hhhhhh.hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------- Transcript
                 5m3t B 112 GFVNKDQIAKDVKQFYDQALQQAVVDDDANNAKAVVKTFHETLDCCGSSTLTALTTSVLKNNLCPSGSNIISNLFKEDCHQKIDDLFSGKGTK 204
                                   121       131       141       151       161       171       181       191       201
   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 5M3T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5M3T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5M3T)

(-) Gene Ontology  (34, 34)

Asymmetric/Biological Unit(hide GO term definitions)

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  CD81_HUMAN | P60033
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 Related Entries

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

UniProtKB/Swiss-Prot
        CD81_HUMAN | P60033: 1g8q 1iv5 2avz 3x0e 5dfv 5dfw 5m2c 5m33 5m3d 5m4r 5tcx

(-) Related Entries Specified in the PDB File

1g8q PREVIOUS PUBBLICATION: KITADOKORO ET AL., 2001
1iv5 PREVIOUS PUBBLICATION: KITADOKORO ET AL., 2002
5m2c SAME PUBBLICATION
5m33 SAME PUBBLICATION
5m3d SAME PUBBLICATION
5m4r SAME PUBBLICATION