HHsearch results for GI: 254781187 and protein with PDBid: 3dmq_A
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Probab=98.22 E-value=2.7e-05 Score=50.13 Aligned_cols=169 Identities=13% Similarity=0.128 Sum_probs=88.5
Q ss_pred CCCCCCCC----CCHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCH
Q ss_conf 88443666----84289999999888875124555554112477614886788999999999999708997799971537
Q gi|254781187|r 42 GKPLEHFS----QPHRWQLEFMEAVDVHCHSNVNNSNPTIFKCAISAGRGIGKTTLNAWMMLWLISTRPGMSIICIANSE 117 (367)
Q Consensus 42 ~~~~~~~~----~p~~wq~~~l~~~~~~~~~~~~~~~~~~~~~~v~sgrg~GKS~~~a~~~lw~~~~~~~~~v~~~A~t~ 117 (367)
..|+.+.. .|.+.|.+.++.+.. + + ..|+.++--=|.|||..+..++..++...+..++++++|+.
T Consensus 141 ~~~~~~l~~~~~~l~phQ~~~~~~~l~---~----~---~~r~LLADevGlGKTiea~~il~~l~~~g~~~r~LIvvP~s 210 (968)
T 3dmq_A 141 RMPYSGLRGQRTSLIPHQLNIAHDVGR---R----H---APRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPET 210 (968)
T ss_dssp TCSSCSSSCCSSCCCHHHHHHHHHHHH---S----S---SCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCTT
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHH---C----C---CCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCEEEEECHH
T ss_conf 588644345888877589999999984---7----8---99999887898119999999999999838999499998878
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf 99999999999999986231211233332100012333221111345776126621013544556521011358628999
Q gi|254781187|r 118 TQLKNTLWAEVSKWLSMLPHRHWFEMQSLSLHPSGWYAELLEQSMGIDSKHYTITCRTYSEERPDTFVGPHNTHGMAVFN 197 (367)
Q Consensus 118 ~Q~~~~lw~ei~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~ea~~g~h~~~~~l~iv 197 (367)
+..-.-.|+.++....... .... .... ...............+.....-..+.....-+......++|+
T Consensus 211 --L~~QW~~El~~~f~~~~~~--~~~~---~~~~----~~~~~~~~~~~~~~vi~s~~~l~~~~~~~~~l~~~~~dlvIv 279 (968)
T 3dmq_A 211 --LQHQWLVEMLRRFNLRFAL--FDDE---RYAE----AQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVV 279 (968)
T ss_dssp --THHHHHHHHHHHSCCCCEE--CCHH---HHHH----HHHTTCSSSTTCSEEEECHHHHHTSTTTTHHHHTSCCCEEEE
T ss_pred --HHHHHHHHHHHHCCCCEEE--EECC---CHHH----HHHHHHHHHCCCCEEEEEHHHHHCCHHHHHHHHCCCCCEEEE
T ss_conf --8999999999973998699--8246---4266----767654231059999972899840899998873579888998
Q ss_pred ECCCCCCH------HHHHHHHHHHHCCCCCEEEEEEECCCCC
Q ss_conf 75455998------8999989874069882589998078999
Q gi|254781187|r 198 DEASGTPD------IINKSILGFFTELNPNRFWIMTSNTRRL 233 (367)
Q Consensus 198 DEAsgI~d------~i~e~i~g~Lt~~~~~~~~i~igNP~r~ 233 (367)
|||..+.+ ..+..+.. ++..... .+++++||-.+
T Consensus 280 DEAH~l~n~~~~~s~~~~~~~~-l~~~~~~-~llLTaTP~~n 319 (968)
T 3dmq_A 280 DEAHHLVWSEDAPSREYQAIEQ-LAEHVPG-VLLLTATPEQL 319 (968)
T ss_dssp CCSSCCCCBTTBCCHHHHHHHH-HHTTCSS-EEESCSSCSSS
T ss_pred ECHHHHCCCCCHHHHHHHHHHH-HHHCCCE-EEEEECCCCCC
T ss_conf 3666531666488899999998-7530462-89841425778