HHsearch alignment for GI: 255764460 and conserved domain: TIGR00416
>TIGR00416 sms DNA repair protein RadA; InterPro: IPR004504 RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC .; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.
Probab=99.73 E-value=6.6e-17 Score=126.47 Aligned_cols=173 Identities=27% Similarity=0.333 Sum_probs=130.3
Q ss_pred CCCCCCCCCCCHHHHHHHCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCCC--HHHHHHHC---
Q ss_conf 3465501477278999723897268807999706872378999999875200898799997388556--68899819---
Q gi|255764460|r 42 FEGIEVVSSGSLGLDIALGIGGFPKGRIVEIYGPESSGKTTLALHTIAQSQKTGGTCAFVDAEHALD--SIYARKLG--- 116 (363)
Q Consensus 42 ~~~~~~i~TG~~~lD~~Lg~GG~p~Gri~ei~G~~~sGKTtlal~~~a~~qk~g~~~~~iD~E~~~~--~~~a~~~G--- 116 (363)
T Consensus 79 ~~e~~rf~s~~~ElDrVLG-GGivpGsliLiGG~PG~GKSTLLLqV~~~LA~~~~~~LYVsGEES~~Q~klRA~RLGit~ 157 (481)
T TIGR00416 79 LEEEPRFSSGFGELDRVLG-GGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNSMKVLYVSGEESLQQIKLRATRLGITD 157 (481)
T ss_pred HCCCCEEECCCCCCCEEEC-CCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHCCCCC
T ss_conf 2067605306641001106-722244169846889963567899999998404881689972301677888875455324
Q ss_pred CCHH--------------HEEEEECCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf 8833--------------44897258489999999999744897689981433322026554345553022478887677
Q gi|255764460|r 117 VDLK--------------NLLISQPDTGEQALEITDMLVRSGAVDIIVIDSVAALTPRAEIEGDMGESLPGMQARLMSQA 182 (363)
Q Consensus 117 vd~~--------------~l~~~~~~~~E~~~~i~~~li~~~~~~liViDSi~al~p~~Eie~~~~d~~~g~~ar~ms~~ 182 (363)
T Consensus 158 ~~~~sqaqdGinnlahdG~L~~L~Et~~e~I~~~~e----~~~P~~~ViDSIQ~ly-~~di~SaPG--SV-sQVRE~t~~ 229 (481)
T TIGR00416 158 LVEPSQAQDGINNLAHDGNLYVLSETNLEQICAEIE----ELNPQVVVIDSIQTLY-LPDISSAPG--SV-SQVRECTAE 229 (481)
T ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHH----HHCCCEEEEECCCCCC-CHHHCCCCC--CH-HHHHHHHHH
T ss_conf 787023443245430267532157579899999998----5299489991421000-000025888--42-388899999
Q ss_pred HHHHHHHHCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf 6777764201781899986341145665466512565531111112489750
Q gi|255764460|r 183 LRKLTSSISRSKCILVFINQMRMKIGVMFGSPETTTGGNALKFYSSVRLDIR 234 (363)
Q Consensus 183 lrkl~~~~~k~~~~~i~iNQ~r~~ig~m~g~p~~~~GG~al~~~aS~rl~i~ 234 (363)
T Consensus 230 Lmr~A---Kt~~iaifiVGHVT-KeGsi-------AGPkvLEH~vD~vLyfe 270 (481)
T TIGR00416 230 LMRLA---KTRGIAIFIVGHVT-KEGSI-------AGPKVLEHMVDTVLYFE 270 (481)
T ss_pred HHHHH---HHCCCCEEEEEEEC-CCCCC-------CCCHHHHHHHHHHEECC
T ss_conf 98765---21686579970043-56754-------34046663433110115