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(-) Description

Title :  KSHV LANA (ORF73) C-TERMINAL DOMAIN, DECAMERIC RING: ORTHORHOMBIC CRYSTAL FORM
 
Authors :  J. Hellert, J. Krausze, T. Luhrs
Date :  02 Nov 12  (Deposition) - 13 Nov 13  (Release) - 29 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J
Biol. Unit 1:  I,J  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  A,B  (1x)
Biol. Unit 4:  G,H  (1x)
Biol. Unit 5:  E,F  (1x)
Keywords :  Viral Protein, Latency-Associated Nuclear Antigen, Lana-1, Dna-Binding Domain, Origin-Binding Domain, Oligomerization Domain, Kaposi'S Sarcoma-Associated Herpesvirus, Gammaherpesvirus, Rhadinovirus, Primary Effusion Lymphoma, Multicentric Castleman'S Disease, Tumor Virus, Cancer, Murid Herpesvirus 4, Muhv-4, Murid Herpesvirus 68, Mhv-68 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Hellert, M. Weidner-Glunde, J. Krausze, U. Richter, H. Adler, R. Fedorov, M. Pietrek, J. Ruckert, C. Ritter, T. F. Schulz, T. Luhrs
A Structural Basis For Brd2/4-Mediated Host Chromatin Interaction And Oligomer Assembly Of Kaposi Sarcoma- Associated Herpesvirus And Murine Gammaherpesvirus Lana Proteins.
Plos Pathog. V. 9 3640 2013
PubMed-ID: 24146614  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1003640

(-) Compounds

Molecule 1 - KSHV LANA
    Chains: A, B, C, D, E, F, G, H, I, J
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET BASED
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN, RESIDUES 1013-1149
    Organism Scientific: HUMAN HERPESVIRUS 8 TYPE M
    Organism Taxid: 435895

 Structural Features

(-) Chains, Units

  12345678910
Asymmetric Unit : ABCDEFGHIJ
Biological Unit 1 (1x):         IJ
Biological Unit 2 (1x):   CD      
Biological Unit 3 (1x): AB        
Biological Unit 4 (1x):       GH  
Biological Unit 5 (1x):     EF    

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2YPZ)

(-) Sites  (0, 0)

(no "Site" information available for 2YPZ)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2YPZ)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gln E:1147 -Pro E:1148

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2YPZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2YPZ)

(-) Exons   (0, 0)

(no "Exon" information available for 2YPZ)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  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:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.....hhhhhhhhhhhhhh..........eeeeeee..hhhhhhhhhh.....eeeeeeee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz A 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     


Chain B from PDB  Type:PROTEIN  Length:134
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:134
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143    
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQ 1147
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.....hhhhhhhhhhhhhhh.......eeeeeeeee..hhhhhhhh.......eee...ee............eeeeeee..hhhhhhhhhhhhhhh.........eeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz B 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQ 1147
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143    


Chain C from PDB  Type:PROTEIN  Length:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh..hhhhhhhhhhhhhhhhhh.......eeeeeeeee..hhhhhhhhhh.....eee...ee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz C 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     


Chain D from PDB  Type:PROTEIN  Length:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.....hhhhhhhhhhhhhhh.........eeeeeee..hhhhhhhhhh.....eee...ee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz D 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     


Chain E from PDB  Type:PROTEIN  Length:133
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.....hhhhhhhhhhhhhh..........eeeeeee..hhhhhhhhhh.....eee...ee......--....eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz E 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGP--SPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093  |   1103      1113      1123      1133      1143     
                                                                                                        1093  |                                                    
                                                                                                           1096                                                    


Chain F from PDB  Type:PROTEIN  Length:137
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:137
                                  1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121      1131      1141       
         Q76SB0_HHV8   1012 PRYQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....................hhhhhhhhhhhhhh..........eeeeeee..hhhhhhhhhh.....eee...eee..........eeeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz F 1012 SRYQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1021      1031      1041      1051      1061      1071      1081      1091      1101      1111      1121      1131      1141       


Chain G from PDB  Type:PROTEIN  Length:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.....hhhhhhhhhhh.............eeeeeee..hhhhhhhhhh.....eee...ee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz G 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     


Chain H from PDB  Type:PROTEIN  Length:133
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:133
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143   
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLT 1146
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh..hhhhhhhhhhhhhhhhh........eeeeeeeee..hhhhhhhhhh......ee...ee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz H 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLT 1146
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143   


Chain I from PDB  Type:PROTEIN  Length:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh..hhhhhhhhhhhhhhhhhh.........eeeeeee..hhhhhhhhhh.....eee...ee............eeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz I 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     


Chain J from PDB  Type:PROTEIN  Length:135
 aligned with Q76SB0_HHV8 | Q76SB0 from UniProtKB/TrEMBL  Length:1162

    Alignment length:135
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143     
         Q76SB0_HHV8   1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh..hhhhhhhhhhhhhhhhh..........eeeeeee..hhhhhhhhhh......eeeeeeee..........eeeeeeee..hhhhhhhhhhhhhhhhh.......eeeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2ypz J 1014 YQQPPVPYRQIDDCPAKARPQHIFYRRFLGKDGRRDPKCQWKFAVIFWGNDPYGLKKLSQAFQFGGVKAGPVSCLPHPGPDQSPITYCVYVYCQNKDTSKKVQMARLAWEASHPLAGNLQSSIVKFKKPLPLTQP 1148
                                  1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 2YPZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2YPZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2YPZ)

(-) Gene Ontology  (0, 0)

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    Gln E:1147 - Pro E:1148   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q76SB0_HHV8 | Q76SB0: 4uzb 4uzc 5a76
UniProtKB/TrEMBL
        Q76SB0_HHV8 | Q76SB0: 2ypy 2yq0

(-) Related Entries Specified in the PDB File

2ypy KSHV LANA (ORF73) C-TERMINAL DOMAIN, DECAMERIC RING: MONOCLINIC CRYSTAL FORM
2yq0 KSHV LANA (ORF73) C-TERMINAL DOMAIN, OCTAMERIC RING: CUBIC CRYSTAL FORM
2yq1 MHV-68 LANA (ORF73) C-TERMINAL DOMAIN: TRICLINIC CRYSTAL FORM