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(-) Description

Title :  D(ATCCGTTATAACGGAT) COMPLEXED WITH MOLONEY MURINE LEUKEMIA VIRUS REVERSE TRANSCRIPTASE CATALYTIC FRAGMENT
 
Authors :  I. Singh
Date :  14 Aug 13  (Deposition) - 12 Mar 14  (Release) - 02 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.14
Chains :  Asym./Biol. Unit :  A,B,G
Keywords :  Protein-Dna Complex, Reverse Transcriptase, Dna Binding, Spore Photoproduct, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Singh, Y. Lian, L. Li, M. M. Georgiadis
The Structure Of An Authentic Spore Photoproduct Lesion In Dna Suggests A Basis For Recognition.
Acta Crystallogr. , Sect. D V. 70 752 2014
PubMed-ID: 24598744  |  Reference-DOI: 10.1107/S1399004713032987

(-) Compounds

Molecule 1 - GAG-POL POLYPROTEIN
    Chains: A
    EC Number: 3.4.23.-, 2.7.7.49, 2.7.7.7, 3.1.26.4
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 683-937
    Gene: GAG-POL, REVERSE TRANSCRIPTASE
    Organism Common: MOMLV
    Organism Scientific: MOLONEY MURINE LEUKEMIA VIRUS ISOLATE SHINNICK
    Organism Taxid: 928306
    Synonym: PR180GAG-POL, MATRIX PROTEIN P15, MA, RNA-BINDING PHOSPHOPROTEIN P12, PP12, CAPSID PROTEIN P30, CA, NUCLEOCAPSID PROTEIN P10, NC-POL, PROTEASE P14, PR, REVERSE TRANSCRIPTASE/RIBONUCLEASE H P80, RT, INTEGRASE P46, IN
 
Molecule 2 - 5' D(ATCCGTTA) 3'
    Chains: B
    Engineered: YES
    Other Details: POLYDEOXYRIBONUCLEOTIDE
    Synthetic: YES
 
Molecule 3 - 5' D(TAACGGAT) 3'
    Chains: G
    Engineered: YES
    Other Details: POLYDEOXYRIBONUCLEOTIDE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABG

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
2QBT1Mod. Nucleotide[(2R,3S,5R)-3-HYDROXY-5-[(5S)-5-METHYL-2,4-DIOXO-1,3-DIAZINAN-1-YL]OXOLAN-2-YL]METHYL DIHYDROGEN PHOSPHATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:153 , ALA A:154 , PHE A:155 , PHE A:156 , GLN A:190BINDING SITE FOR RESIDUE EDO A 301
2AC2SOFTWAREGLN A:63 , GLU A:171 , TRP A:172 , ARG A:173BINDING SITE FOR RESIDUE EDO A 302
3AC3SOFTWAREPRO A:111 , PHE A:156 , TRP A:185 , EDO A:304 , HOH A:428BINDING SITE FOR RESIDUE EDO A 303
4AC4SOFTWAREHIS A:77 , ARG A:80 , EDO A:303BINDING SITE FOR RESIDUE EDO A 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M94)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4M94)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M94)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M94)

(-) Exons   (0, 0)

(no "Exon" information available for 4M94)

(-) 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:252
                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh............................hhhhhhhhhhhhhhhhhh..eeee.......eeee.....eeee.hhhhhh..........hhhhhhh.......eeeeee...hhhhh.....hhhhhhee..hhhhh...eeee........hhhhhhhhhhhhhhhhhhhhh...eeeee..eeeeee.hhhhhhhhhhhhhhhhhhhh........eeee.eeee..eeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4m94 A  24 TWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQR 278
                                    33        43        53        63        73        83        93       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276  
                                                                                                        102|                                                                                                                                                                            
                                                                                                         106                                                                                                                                                                            


Chain B from PDB  Type:DNA  Length:8
                                        
                 4m94 B   1 ATCCGtTA   8
                                 |  
                                 6-QBT


Chain G from PDB  Type:DNA  Length:8
                                        
                 4m94 G   9 TAACGGAT  16
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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 4M94)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M94)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M94)

(-) Gene Ontology  (36, 36)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  4m94
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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 4m95 4mh8 4nzg 4xo0 4xpc 4xpe 5dmq 5dmr

(-) Related Entries Specified in the PDB File

4m9e