>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three RNA binding domains (RBD's). The RBD's include one S1 domain and two KH domains that form an RNA binding surface. DNA transcription by RNA polymerase (RNAP) includes three phases - initiation, elongation, and termination. During initiation, sigma factors bind RNAP and target RNAP to specific promoters. During elongation, N-utilization substances (NusA, B, E, and G) replace sigma factors and regulate pausing, termination, and antitermination. NusA is cold-shock-inducible.

Probab=99.78 E-value=7e-19 Score=158.01 Aligned_cols=67 Identities=52% Similarity=1.003 Sum_probs=65.9 Q ss_pred HHCCCEEEEEEEECCCCEEEEEECCCEEEEEHHHCCCCCCCCCCCEEEEEEEEECCCCCEEEEEEEC Q ss_conf 5208389999984057638999579358744787488751152766999997611358702898715 Q gi|254780788|r 136 DKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRPGDRVKSYIYDVRREQRGPQVLLSR 202 (526) Q Consensus 136 ~r~Geiv~G~V~r~e~~~iiVdlg~~ea~Lp~~e~ip~E~~~~Gdrika~i~~V~~~~rgpqi~lSR 202 (526) T Consensus 1 ~k~geiv~G~V~r~~~~~v~vdlg~~eailp~~eqip~E~~~~Gdrik~~i~~V~~~~kgp~i~lSR 67 (67) T cd04455 1 DREGEIVTGIVKRVDRGNVIVDLGKVEAILPKKEQIPGESYRPGDRIKAYVLEVRKTSKGPQIILSR 67 (67) T ss_pred CCCCCEEEEEEEEEECCCEEEEECCCEEECCHHHCCCCCCCCCCCEEEEEEEEEEECCCCCEEEEEC T ss_conf 9878889999999808979999899489737899578866399998999999987469988899839

HHsearch alignment for GI: 254780788 and conserved domain: cd04455