HHsearch alignment for GI: 254780766 and conserved domain: cd03240
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=99.67 E-value=9.3e-16 Score=122.06 Aligned_cols=81 Identities=26% Similarity=0.343 Sum_probs=57.9
Q ss_pred HCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCHHCCCHHHHHH-HHHHHHH----CCCCEEEEECCHHHHHHHHC
Q ss_conf 122058999999999999999998708997899801220159899999-9999741----79809998069678543212
Q gi|254780766|r 286 HGSTGEQKVVLVGIFLAHARLISNTTGFAPILLLDEISAHLDEDKRNA-LFRIVTD----IGSQIFMTGTDKSVFDSLNE 360 (375)
Q Consensus 286 ~~S~Gqqk~~~l~l~La~~~~~~~~~~~~pilLiDdi~s~LD~~~~~~-ll~~l~~----~~~Qv~iTt~~~~~~~~~~~ 360 (375)
T Consensus 115 ~LSgGqkq~~~l~~RlalAraL~---~~p~lllLDEPTs~LD~~~~~~~l~~ll~~~~~~~~~tiIivtHd~e~~~-~aD 190 (204)
T cd03240 115 RCSGGEKVLASLIIRLALAETFG---SNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVD-AAD 190 (204)
T ss_pred HCCHHHCCCCHHHHHHHHHHHHH---CCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHH-HCC
T ss_conf 27864307230756999999984---59998998187666997899999999999998569989999944989998-499
Q ss_pred CEEEEEE-CCCEE
Q ss_conf 6007997-28968
Q gi|254780766|r 361 TAKFMRI-SNHQA 372 (375)
Q Consensus 361 ~~~~~~i-~~g~~ 372 (375)
T Consensus 191 ~--vv~i~kdG~~ 201 (204)
T cd03240 191 H--IYRVEKDGRQ 201 (204)
T ss_pred E--EEEEECCCCC
T ss_conf 5--9999589883