3f2b_A : 3D-footprint complex

3D-footprint cannot reliably estimate the specificity of 'Nucleic acid-binding proteins', as they bind to single-stranded DNA and thus accumulate more base contacts.

Dendrogram of similar interfaces ?

matrix format

structure name	DNA POLYMERASE POLC FROM GEOBACILLUS KAUSTOPHILUS COMPLEX WITH DNA, DGTP, MG AND ZN (DNA-DIRECTED DNA POLYMERASE III ALPHA CHAIN)
reference	Christensen et al. Proc.Natl.Acad.Sci.USA 105 20695 2008
source	GEOBACILLUS KAUSTOPHILUS
experiment	X-ray (resolution=2.39, R-factor=0.231)
structural superfamily	PHP domain-like;Nucleic acid-binding proteins;
sequence family	Bacterial DNA polymerase III alpha sub; PHP domain; OBfold nucleic acid binding domain;
redundant complexes	3f2c_A 3f2d_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3f2b_A interface=443,601,707,736,888, vrrletiveeerrvvvqgyvfdaevselksgrtlltmkitdytnsilvkmfsrdkedaelmsgvkkgmwvkvrgsvqndtfvrdlviiandlneiaanerqdtapegekrvelhlhtpmsqmdavtsvtklieqakkwghpaiavtdhavvqsfpeaysaakkhgmkviygleanivddpfhvtllaqnetglknlfklvslshiqyfhrvpriprsvlvkhrdgllvgsgcdkgelfdnvediarfydflevhppdvykplyvkdeemikniirsivalgekldipvvatgnvhylnpedkiyrkilihsqgganplnrhelpdvyfrttnemldcfsflgpekakeivvdntqkiasligdvkpikdelytpriegadeeiremsyrrakeiygdplpklveerlekelksiighgfaviylishklvkkslddgylvgsRgsvgssfvatmteitevnplpphyvcpnckhseffndgsvgsgfdlpdkncprcgtkykkdghdipfetflgfkgdkvpdidlnfsgeyqprahnytkvlfgednvyragtigtvadktaygfvkayasdhnlelrgaeidrlaagctgvkrttgqhPggiivvpdymeiydftpiqypaddtssewrtthfdfhsihdnllkldilghddptvirmlqdlsgidpktiptddpdvmgifssteplgvtpeqimcnvgtigipEfgtrfvrqmleetrpktfselvqisglsHgtdvwlgnaqeliqngtctlsevigcrddimvyliyrglepslafkimesvrkgkgltpefeaemrkhdvpewyidsckkikymfpkahaaayvlmavriayfkvhhpllyyasyftvraedfdldamikgsaairkrieeinakgiqataKekslltvlevalemcergfsfknidlyrsqatefvidgnslippfnaipglgtnvaqaivrareegeflskedlqqrgklsktlleylesrgcldslpdhnqlslf

  
  --------------------------------------------------------------RC----------PA--RAFAQAHCTCLAYCITKG                            +-----------3f2b_A    
                                                                                                             +----------------2 
  ----------------------------------------------------------------RGMGTCRTYA--YG------------------           !                +-----------5m1s_A    
                                                                                                           +-4 
  --RTTTKT--------TTATTT--ATFT--NT----------------------------------------------------------------   L     ! !                        +---6bhx_B    
                                                                                                           ! !          +-------------1 
  KTNT----------TTAT------TTWT--RT------RTITYTET--------------------------------------------------   L   +-5 +----------3             +---6irq_A    
                                                                                                         ! !            ! 
  --NT--DT--------------QTTTWT--------------------------------------------------------------------   L   ! !            +-----------------5odn_B    
                                                                                                       --6 ! 
  --------STTTDT--------------QC--HCFTKT--------TGRCYCLGKG----------------------------------------   L   ! +-----------------------------7cuh_A    
                                                                                                         ! 
  --------------------------------------------------------KCACRC----------------------------------       +-----------------------------7k30_A

home
updated Tue Dec 19 07:17:19 2023