HHsearch alignment for GI: 254780332 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=95.92 E-value=0.095 Score=32.76 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=40.1
Q ss_pred HHHHHCCCCCCCEEEECCHHHCCCCCCCC-CHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCC
Q ss_conf 88640224447467767135325664432-11378899999999999988279199977138220168999984010143
Q gi|254780332|r 334 RARRLKRQRGLDLLIVDYIQLMTTSKKIE-ENRVLEITGITMALKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRE 412 (504)
Q Consensus 334 ~~r~~~~~~gi~~vvIDYLqli~~~~~~~-~~r~~~i~~is~~lK~lA~e~~ipvi~lsQLnR~~e~r~~krP~lsDLr~ 412 (504)
T Consensus 132 lAraL~--~~p~lllLD-----EPTs~LD~~~~~~~---l~~ll~~~~~~~~~tiIivtHd-~----------------- 183 (204)
T cd03240 132 LAETFG--SNCGILALD-----EPTTNLDEENIEES---LAEIIEERKSQKNFQLIVITHD-E----------------- 183 (204)
T ss_pred HHHHHH--CCCCEEEEE-----CCCCCCCHHHHHHH---HHHHHHHHHHCCCCEEEEEECC-H-----------------
T ss_conf 999984--599989981-----87666997899999---9999999985699899999449-8-----------------
Q ss_pred CCHHHHHCCEEEEEECHH
Q ss_conf 242233138788972556
Q gi|254780332|r 413 SGSIEQDADVVLFVIRDE 430 (504)
Q Consensus 413 Sg~IEqdAD~v~~l~R~~ 430 (504)
T Consensus 184 --e~~~~aD~vv~i~kdG 199 (204)
T cd03240 184 --ELVDAADHIYRVEKDG 199 (204)
T ss_pred --HHHHHCCEEEEEECCC
T ss_conf --9998499599995898