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(-) Description

Title :  LARGE FRAGMENT OF TAQ DNA POLYMERASE BOUND TO DCTP
 
Authors :  Y. Li, Y. Kong, S. Korolev, G. Waksman
Date :  22 Sep 98  (Deposition) - 30 Sep 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Large Fragement Of Taq Dna Polymerase I, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Li, Y. Kong, S. Korolev, G. Waksman
Crystal Structures Of The Klenow Fragment Of Thermus Aquaticus Dna Polymerase I Complexed With Deoxyribonucleoside Triphosphates.
Protein Sci. V. 7 1116 1998
PubMed-ID: 9605316
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (DNA POLYMERASE I)
    Chains: A
    EC Number: 2.7.7.7
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PWB254
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TAQ
    Organism Scientific: THERMUS AQUATICUS
    Organism Taxid: 271
    Strain: X7029

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1DCP1Ligand/Ion2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:613 , HIS A:639 , ARG A:659 , LYS A:663 , PHE A:667BINDING SITE FOR RESIDUE DCP A 901

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KTQ)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Trp A:299 -Pro A:300
2Asp A:578 -Pro A:579

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5KTQ)

(-) 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:534
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains d5ktqa1 A:290-422 Exonuclease domain of prokaryotic DNA polymerase                                                                   d5ktqa2 A:423-832 DNA polymerase I (Klenow fragment)                                                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 5ktqA01 A:290-446  [code=3.30.420.10, no name defined]                                                                                                       5ktqA02 A:447-563 Taq DNA Polymerase; Chain T, domain 4                                                     5ktqA03 A:564-613,A:758-831                       5ktqA04 A:614-757 5' to 3' exonuclease, C-terminal subdomain                                                                                    5ktqA03 A:564-613,A:758-831  [code=3.30.70.370, no name defined]          - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ................eeeeee.........eeeeeee..........hhhhhh.........hhhhhhhhhh..........hhhhhhhh......hhhhhhhh.......hhhhhhhhhhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhh..............hhhhh..........hhhhhhhhhhhhh...hhhh............................hhh.......hhhhhhh......eeeeeeee..hhhhhhhhhh..hhhhhhhh....hhhhhhhhhh..........hhhhhhhhhhhhhh...hhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh.eee.....eee........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee..eeeeeee...hhhhhhhhhhhhh..........eeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5ktq A 290 SPKALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARRYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAHMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDELGLPAISTSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQRIRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETASWMFGVPREAVDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE 832
                                   299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499   ||  518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788       798       808       818       828    
                                                                                                                                                                                                                                               503|                                                                                                                                                                                                                                                                                                                               
                                                                                                                                                                                                                                                513
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (4, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  DPO1_THEAQ | P19821
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 Related Entries

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

UniProtKB/Swiss-Prot
        DPO1_THEAQ | P19821: 1bgx 1jxe 1ktq 1qss 1qsy 1qtm 1taq 1tau 2ktq 3ktq 3lwl 3lwm 3m8r 3m8s 3ojs 3oju 3po4 3po5 3py8 3rr7 3rr8 3rrg 3rrh 3rtv 3sv3 3sv4 3syz 3sz2 3t3f 4bwj 4bwm 4c8k 4c8l 4c8m 4c8n 4c8o 4cch 4df4 4df8 4dfj 4dfk 4dfm 4dfp 4dle 4dlg 4elt 4elu 4elv 4ktq 4n56 4n5s 4xiu 5e41 5nkl 5szt

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5KTQ)