6ymv_A : 3D-footprint complex

structure name	CRYO-EM STRUCTURE OF YEAST MITOCHONDRIAL RNA POLYMERASE PARTIALLY- MELTED TRANSCRIPTION INITIATION COMPLEX (PMIC)
experiment	NMR
structural superfamily	DNA/RNA polymerases;
sequence family	DNAdependent RNA polymerase;
multimeric complexes	6ymv_AB 6ymw_AB 8ap1_AB 8att_AB 8atv_AB 8atw_AB 8c5s_AB 8c5u_AB 8q63_AB
redundant complexes	8atw_A 8q63_A 6ymw 8ap1 8att 8atv 8c5s 8c5u
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6ymv_A interface=225,226,229,230,688,697,710, inffeiynslptleekkafesalnifnqdrqkvlenrateaarerwkhdfeeakargdisieknlnvklwkwynemlplvkeeinhcrsllseklsdkkglnkvdtnrlgygpyltlidpgkmcvitilellklnstggviegmrtaravisvgkaiemefrseqvlksesqakilwpqsirarigsvlismliqvakvsvqgvdpvtkakvhgeapafahgyqYHngSKlgvlkihktlirqlngerliasvqpqllpmlvepkpwvnwrsggyhytqstllrtkdspeqvaylkaasdngdidrvydglnvlgrtpwtvnrkvfdvvsqvwnkgegfldipgaqdemvlppappknsdpsilrawklqvktiankfssdrsnrcdtnykleiaraflgeklyfphnldfrgrayplsphfnhlgndmsrgllifwhgkklgpsglkwlkihlsnlfgfdklplkdrvafteshlqdikdsaenpltgdrwwttadkpwqalatcfelnevmkmdnpeefishqpvhqdgtcnglqhyaalggdvegatqvnlvpsdkpqdvyahvarlvqkrleiaaekgdenakilkdkitrkvvkqtvmtnvygfskyltkhvfsairelfhsahliqdwlgesakrisksirldvdeksfkngnkpdfmssviwttplglpivqpyreeskkQvetnlqtvFisdpfavnpvnaRrqkaglppnfihsldashmllsaaecgkqgldfasvhdsywthasdidtmnvvlreqfiklhevdlvlrlkeefdqryknyvkigklkrstdlaqkiirirkdlsrklgrsttladeiyfekkrqellneditdldalelengnsgmsvllplrlpeippkgdfdvtvlrnsqyffs
interface signature	YHSKQFR

Estimated binding specificities ?

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# IC=3.220 IC/col=0.460 n_of_columns=7

specificity:

A |  13  27  24  24  96   0  60
C |  13  22  24  24   0   0  12
G |  56  25  24  24   0   0  12
T |  14  22  24  24   0  96  12

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Dendrogram of similar interfaces ?

matrix format

  
  --------------------------YTHASAKT--------------------------------------QAFTRG------   L                          +-----------6ymv_A    
                                                                                                         +----------1 
  --------QG--------------SC--RG----IC----------SC----EG------------QGTGYG----RG------   L         +-----2          +-----------4boc_A    
                                                                                                   !     ! 
  ------------------------------------RGATYTDGKG----------RCRCYC------------------HT--   L       +-3     +----------------------1msw_D    
                                                                                                 ! ! 
  ------------------------------------------------KT----YG--RG--NG--------------QA--HG         +-4 +----------------------------4yfu_D    
                                                                                               ! ! 
  KTATFCRC--DCSCWCRAITNTNG------------------------------------------------------------   L   +-5 +-----------------------------4lup_A    
                                                                                             ! ! 
  ------------------------------------------------KC----------RT----------------------     --6 +-----------------------------6fbc_A    
                                                                                             ! 
  --------------------------------------------------RC------RA--NGNG------------------   L   +-----------------------------6vdd_A

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updated Sun Aug 3 14:33:10 2025