HHsearch alignment for GI: 254780916 and conserved domain: TIGR01243
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily; InterPro: IPR005938 The ATPase Cdc48 is required for membrane fusion and protein degradation. It possesses chaperone-like activities and can functionally interact with Hsc70. Yeast CDC48 plays a role in cell division control whereas eukaryotic homologues are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.; GO: 0016787 hydrolase activity.
Probab=96.80 E-value=0.0019 Score=43.92 Aligned_cols=126 Identities=21% Similarity=0.291 Sum_probs=59.2
Q ss_pred CCEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC---CCCEEE
Q ss_conf 32048873277743679999998426754332101234655421002433112555532211100123446---671475
Q gi|254780916|r 162 CAIPIMIQGEFGVGKKRLSRFIHESGKRAFFPFFIVNCGMIDQDKIEKFLFGDVDLQTKNSAQFLGKFIEA---NGGTIV 238 (482)
Q Consensus 162 ~~~~vli~Ge~GtGK~~~A~~iH~~s~r~~~~fi~v~c~~~~~~~~e~~lFG~~~~~~~~~~~~~g~~~~a---~~Gtl~ 238 (482)
T Consensus 239 PPkG~ll~GPPGtGktllaka~ane---~~a~f~~inGPe-----imsky~Ge~e------~~lr~if~eaeenaP~iif 304 (980)
T TIGR01243 239 PPKGVLLYGPPGTGKTLLAKAVANE---AGAYFIAINGPE-----IMSKYYGESE------ERLREIFKEAEENAPSIIF 304 (980)
T ss_pred CCCCEEEECCCCCCHHHHHHHHHHH---CCCEEEEECCCH-----HHHHHCCCCH------HHHHHHHHHHHHCCCCEEE
T ss_conf 9873587558986178999998753---055178850603-----4433136307------8999999865305870787
Q ss_pred ECCCCHHHHH-------HHHH----HHHHHHHHHCCCCCCCCCCCCCCEEEEECCCC--C-CCCCCHHHHHHHHHHHHHH
Q ss_conf 1664200188-------9998----88877642001123553212343156521433--2-1111112333799988654
Q gi|254780916|r 239 LEEPDALPLA-------VQGR----IYNFIETGKIEFFDSRGAIRLDVRLIFLTEKN--L-LPQVKSHVFRKDLYYRISV 304 (482)
Q Consensus 239 l~ei~~L~~~-------~Q~~----Ll~~l~~~~~~~~g~~~~~~~~~RiIa~t~~~--L-~~~~~~g~fr~dLy~rL~~ 304 (482)
T Consensus 305 ideidaiaPkr~e~~Geve~r~v~qlltlmd--------Glk~rG-~v~viGatnrP~a~dPalrrPGrfdre------- 368 (980)
T TIGR01243 305 IDEIDAIAPKREEVTGEVEKRVVAQLLTLMD--------GLKGRG-KVIVIGATNRPDALDPALRRPGRFDRE------- 368 (980)
T ss_pred EECHHHCCCCCCCHHHHHHHHHHHHHHHHHH--------HHCCCC-EEEEEECCCCCCCCCHHHCCCCCCCCE-------
T ss_conf 4121100764100001688999999999974--------002487-289981468850026224278864433-------
Q ss_pred HHHHHHHHHHHHH
Q ss_conf 3344677877442
Q gi|254780916|r 305 FLINISTLRSRSE 317 (482)
Q Consensus 305 ~~i~iPpLReR~e 317 (482)
T Consensus 369 i~~~~Pd~~~r~e 381 (980)
T TIGR01243 369 IEIGVPDKEGRKE 381 (980)
T ss_pred EEECCCCHHHHHH
T ss_conf 5741885456788