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(-) Description

Title :  CRYSTAL STRUCTURE OF 5'- CTTATAAATTTATAAG IN A HOST-GUEST COMPLEX
 
Authors :  M. M. Georgiadis, I. Singh
Date :  16 Jan 15  (Deposition) - 27 May 15  (Release) - 11 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.68
Chains :  Asym./Biol. Unit :  A,B,G
Keywords :  Host-Guest Complex B-Dna Non-Natural Nucleobase Pair Synthetic Biology, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. M. Georgiadis, I. Singh, W. F. Kellett, S. Hoshika, S. A. Benner, N. G. Richards
Structural Basis For A Six Nucleotide Genetic Alphabet.
J. Am. Chem. Soc. V. 137 6947 2015
PubMed-ID: 25961938  |  Reference-DOI: 10.1021/JACS.5B03482

(-) Compounds

Molecule 1 - REVERSE TRANSCRIPTASE
    Chains: A
    EC Number: 2.7.7.49, 2.7.7.7, 3.1.26.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GAG-POL
    Organism Common: MOMLV
    Organism Scientific: MOLONEY MURINE LEUKEMIA VIRUS (ISOLATE SHINNICK)
    Organism Taxid: 928306
    Strain: ISOLATE SHINNICK
    Synonym: PR180GAG-POL
 
Molecule 2 - DNA (5'-D(*CP*TP*TP*AP*TP*AP*AP*A)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(P*TP*TP*TP*AP*TP*AP*AP*G)-3')
    Chains: G
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABG

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:163 , PRO A:166 , LEU A:167 , HOH A:410 , HOH A:425 , HOH A:460 , HOH A:543binding site for residue EDO A 301
2AC2SOFTWARELEU A:41 , ALA A:54 , GLY A:85 , ARG A:159 , THR A:186 , ARG A:187 , HOH A:416binding site for residue EDO A 302
3AC3SOFTWAREASP A:153 , ALA A:154 , PHE A:155 , PHE A:156 , GLN A:190 , HOH A:462binding site for residue EDO A 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XPC)

(-) 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:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh...hhhhhh............................hhhhhhhhhhhhhhhhhh..eeee...................hhhhhh..........hhhhhhh.......eeeeee...hhhhh.....hhhhhheee.....eeeee........hhhhhhhhhhhhhhhhhhhhh...eeeee..eeeeee.hhhhhhhhhhhhhhhhhhhh........eeee.eeee..eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xpc A  24 TWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPESGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQR 278
                                    33        43        53        63        73        83        93       108       118       128       138       148       158       168       181       191       201       211       221       231       241       251       261       271       
                                                                                                        102|                                                                 176|                                                                                                  
                                                                                                         108                                                                  180                                                                                                  


Chain B from PDB  Type:DNA  Length:8
                                        
                 4xpc B   1 CTTATAAA   8


Chain G from PDB  Type:DNA  Length:8
                                        
                 4xpc G   9 TTTATAAG  16
   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 4XPC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (36, 36)

Asymmetric/Biological Unit(hide GO term definitions)

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  4xpc
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  POL_MLVMS | P03355
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  2.7.7.49
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  2.7.7.7
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    Pathway: KEGG | MetaCyc
  3.1.26.4
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 Related Entries

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

UniProtKB/Swiss-Prot
        POL_MLVMS | P03355: 1d0e 1d1u 1i6j 1mml 1n4l 1nnd 1qai 1qaj 1ztt 1ztw 2fjv 2fjw 2fjx 2fvp 2fvq 2fvr 2fvs 2hb5 2m9u 2mqv 2ms0 2ms1 2r2r 2r2s 2r2t 2r2u 3fsi 3nnq 4m94 4m95 4mh8 4nzg 4xo0 4xpe 5dmq 5dmr

(-) Related Entries Specified in the PDB File

4xno 4xo0 4xpe