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(-) Description

Title :  PIE12 D-PEPTIDE AGAINST HIV ENTRY
 
Authors :  B. D. Welch, J. S. Redman, S. Paul, F. G. Whitby, M. T. Weinstock, J. D. Ree Y. S. Lie, D. M. Eckert, C. P. Hill, M. J. Root, M. S. Kay
Date :  16 Dec 09  (Deposition) - 03 Nov 10  (Release) - 03 Nov 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A,B,C,H,K,L
Keywords :  Coiled-Coil, D-Peptide Inhibitor, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. D. Welch, J. N. Francis, J. S. Redman, S. Paul, M. T. Weinstock, J. D. Reeves, Y. S. Lie, F. G. Whitby, D. M. Eckert, C. P. Hill, M. J. Root, M. S. Kay
Design Of A Potent D-Peptide Hiv-1 Entry Inhibitor With A Strong Barrier To Resistance.
J. Virol. V. 84 11235 2010
PubMed-ID: 20719956  |  Reference-DOI: 10.1128/JVI.01339-10

(-) Compounds

Molecule 1 - GP41 N-PEPTIDE
    Chains: A, B, C
    Engineered: YES
    Other Details: L-PEPTIDE WITH N-TERMINAL ACETYL GROUP AND C-TERMINAL AMIDE GROUP
    Synthetic: YES
 
Molecule 2 - HIV ENTRY INHIBITOR PIE12
    Chains: H, K, L
    Engineered: YES
    Other Details: D-PEPTIDE WITH N-TERMINAL ACETYL GROUP AND C-TERMINAL AMIDE GROUP
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCHKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (12, 55)

Asymmetric/Biological Unit (12, 55)
No.NameCountTypeFull Name
1ACE5Mod. Amino AcidACETYL GROUP
2DAS3Mod. Amino AcidD-ASPARTIC ACID
3DCY6Mod. Amino AcidD-CYSTEINE
4DGL6Mod. Amino AcidD-GLUTAMIC ACID
5DGN3Mod. Amino AcidD-GLUTAMINE
6DHI3Mod. Amino AcidD-HISTIDINE
7DLE6Mod. Amino AcidD-LEUCINE
8DLY2Mod. Amino AcidD-LYSINE
9DPR6Mod. Amino AcidD-PROLINE
10DTR6Mod. Amino AcidD-TRYPTOPHAN
11DTY3Mod. Amino AcidD-TYROSINE
12NH26Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 3L35)

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1H:5 -H:14
2K:5 -K:14
3L:5 -L:14

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3L35)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L35)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L35)

(-) Exons   (0, 0)

(no "Exon" information available for 3L35)

(-) 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:47
                                                                              
               SCOP domains ----------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                  3l35 A  0 xRMKQIEDKIEEIESKQKKIENEIARIKKLLQLTVWGIKQLQARILx 46
                            |        9        19        29        39      |
                            |                                            46-NH2
                            0-ACE                                          


Chain B from PDB  Type:PROTEIN  Length:47
                                                                              
               SCOP domains ----------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                  3l35 B  0 xRMKQIEDKIEEIESKQKKIENEIARIKKLLQLTVWGIKQLQARILx 46
                            |        9        19        29        39      |
                            |                                            46-NH2
                            0-ACE                                          


Chain C from PDB  Type:PROTEIN  Length:47
                                                                              
               SCOP domains ----------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                  3l35 C  0 xRMKQIEDKIEEIESKQKKIENEIARIKKLLQLTVWGIKQLQARILx 46
                            |        9        19        29        39      |
                            |                                            46-NH2
                            0-ACE                                          


Chain H from PDB  Type:PROTEIN  Length:18
                                                 
               SCOP domains ------------------ SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                  3l35 H  0 xxGxxxxxxxxxxxxxxx 17
                            || ||||||9||||||||
                            || ||||||9-DGL||||
                            0-ACE||||10-DTR|||
                             1-DLY||| 11-DGN||
                               3-DHI|  12-DTR|
                                4-DPR   13-DLE
                                 5-DCY   14-DCY
                                  6-DAS   15-DGL
                                   7-DTY   16-DLE
                                    8-DPR   17-NH2


Chain K from PDB  Type:PROTEIN  Length:18
                                                 
               SCOP domains ------------------ SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                  3l35 K  0 xxGxxxxxxxxxxxxxxx 17
                            || ||||||9||||||||
                            || ||||||9-DGL||||
                            0-ACE||||10-DTR|||
                             1-DLY||| 11-DGN||
                               3-DHI|  12-DTR|
                                4-DPR   13-DLE
                                 5-DCY   14-DCY
                                  6-DAS   15-DGL
                                   7-DTY   16-DLE
                                    8-DPR   17-NH2


Chain L from PDB  Type:PROTEIN  Length:16
                                               
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                  3l35 L  2 Gxxxxxxxxxxxxxxx 17
                             |||||||11||||||
                             |||||||11-DGN||
                             3-DHI|||12-DTR|
                              4-DPR|| 13-DLE
                               5-DCY|  14-DCY
                                6-DAS   15-DGL
                                 7-DTY   16-DLE
                                  8-DPR   17-NH2
                                   9-DGL    
                                   10-DTR
   Legend:   → Mismatch (orange background)
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    → 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 3L35)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L35)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3L35)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3L35)

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

2r5d PIE7 IS A RELATED D-PEPTIDE INHIBITOR
3l35 PIE12-IQN17 IN ANOTHER CRYSTAL FORM
3l36 PIE12-IQN17 IN ANOTHER CRYSTAL FORM