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(-) Description

Title :  BINARY COMPLEX STRUCTURE OF KLENOW FRAGMENT OF TAQ DNA POLYMERASE I707L MUTANT (CS3C KLENTAQ) WITH DNA
 
Authors :  E. Y. Wu
Date :  09 Oct 13  (Deposition) - 21 Jan 15  (Release) - 11 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Dna Polymerase, Dntp, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. Y. Wu, A. R. Walsh, E. C. Materne, E. P. Hiltner, B. Zielinski, B. R. Miller, L. Mawby, E. Modeste, C. A. Parish, W. M. Barnes, M. B. Kermekchiev
A Conservative Isoleucine To Leucine Mutation Causes Major Rearrangements And Cold Sensitivity In Klentaq1 Dna Polymerase.
Biochemistry V. 54 881 2015
PubMed-ID: 25537790  |  Reference-DOI: 10.1021/BI501198F

(-) Compounds

Molecule 1 - 5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'
    ChainsB
    EngineeredYES
    Other DetailsPRIMER STRAND
    SyntheticYES
 
Molecule 2 - 5'-D(*AP*AP*AP*GP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'
    ChainsC
    EngineeredYES
    Other DetailsTEMPLATE STRAND
    SyntheticYES
 
Molecule 3 - DNA POLYMERASE I, THERMOSTABLE
    ChainsA
    EC Number2.7.7.7
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentKLENOW FRAGMENT (UNP RESIDUES 281-832)
    GenePOLA, POL1
    MutationYES
    Organism ScientificTHERMUS AQUATICUS
    Organism Taxid271
    SynonymTAQ POLYMERASE 1

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1DOC1Mod. Nucleotide2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE
2GOL1Ligand/IonGLYCEROL
3MG1Ligand/IonMAGNESIUM ION
4MN1Ligand/IonMANGANESE (II) ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREDG C:204 , DG C:205BINDING SITE FOR RESIDUE MN C 301
2AC2SOFTWARETHR A:544 , PRO A:579 , ASN A:580 , ASN A:583 , DC C:209 , DC C:210BINDING SITE FOR RESIDUE GOL A 901
3AC3SOFTWAREASP A:610 , GLU A:786BINDING SITE FOR RESIDUE MG A 902

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4N56)

(-) 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 4N56)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N56)

(-) Exons   (0, 0)

(no "Exon" information available for 4N56)

(-) 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:494
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee........eeeeee.........eeeeeeee..eeee..hhhhhhh........hhhhhhhhhhhh........hhhhhhhhhh....hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh.........eee.........eee..........hhhhhhhhh.ee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhh......hhhhhhhhhhhhhhhhhheee.....eee.hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeee...eeeeeee..hhhhhhhhhhhhhhh.........eeeeee.hhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n56 A 294 LEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLKEARGLLAKDLSVLALREGLGLPPGDDPMLLAYLLDPSNTTPEGVARRYGGEWTEEAGERAALSERLFANLWGRLEGEERLLWLYREVERPLSAVLAHMEATGVRLDVAYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDELGLPAIGKTEKTGKRSTSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDLIHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQRIRRAFIAEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGRDIHTETAAKTINFGVLYGFPKVRAWLEKTLEEGRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFPRLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVPLEVEVGIGEDWLSAKE 832
                                   303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       661       671||     708       718       728       738       748       758       768       778       788       798       808       818       828    
                                                                                                                                                                                                                                                                                                                                                                                      642|        672|                                                                                                                                    
                                                                                                                                                                                                                                                                                                                                                                                       661         700                                                                                                                                    

Chain B from PDB  Type:DNA  Length:12
                                            
                 4n56 B 101 GACCACGGCGCc 112
                                   110 |
                                     112-DOC

Chain C from PDB  Type:DNA  Length:15
                                               
                 4n56 C 202 AAGGGCGCCGTGGTC 216
                                   211     

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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 4N56)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N56)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N56)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asp A:578 - Pro A:579   [ RasMol ]  
    Trp A:299 - Pro A:300   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        DPO1_THEAQ | P198211bgx 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 4n5s 4xiu 5e41 5ktq 5nkl 5szt

(-) Related Entries Specified in the PDB File

4n5s CS3C KLENTAQ-DNA COMPLEX WITH BOUND DCTP