HHsearch alignment for GI: 254781170 and conserved domain: TIGR03556
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=0 Score=1058.96 Aligned_cols=460 Identities=36% Similarity=0.658 Sum_probs=406.8
Q ss_pred CEEEEEECCCCCCCCCHHHHHHHHHCCCCEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf 42688835867556778999999957982999997383784788899899999999999999999975980999965753
Q gi|254781170|r 8 SVHLVWLRNDLRITDNKALYAACHNSDAKVIAVFIATPEQWRQHGISARQSHFIYASLLQVQKSLSQKGIVFQYHQCSNF 87 (483)
Q Consensus 8 ~~~IvWfRrDLRl~DN~aL~~A~~~~~~~vlpvyi~dp~~~~~~~~~~~~~~Fl~esL~~L~~~L~~~g~~L~v~~~~~~ 87 (483)
T Consensus 1 ~~vlvWfRrDLRl~DN~aL~~A~~~~~-~vi~vyi~dp~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~lg~~L~v~~---- 75 (471)
T TIGR03556 1 ALILFWHRRDLRLSDNIGLAAARQQSA-KVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRYQQAGSQLLILQ---- 75 (471)
T ss_pred CEEEEEECCCCCCCHHHHHHHHHHCCC-CEEEEEEECHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEE----
T ss_conf 989999089975324799999995799-499999988256357998889999999999999999998799569998----
Q ss_pred CCHHHHHHHHHHHCCCCCEEEECCCCCHHHHCCHHHHHHHH-HCCCCEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 50899999999870976142100111001100102688875-20000002234345557600237864432101479988
Q gi|254781170|r 88 DDSIEWLDSYCLQQRVTKLFYNRQYEINEVRRDKLLEKRLQ-HRVICKSFDDSVLLPPGSILNHALQMYKVYTPFRKALI 166 (483)
Q Consensus 88 g~~~~~L~~l~~~~~i~~v~~n~~~~~~~~~rd~~i~~~l~-~~~~~~~~~~~~l~~p~~i~~~~~~~~~vftpf~k~~~ 166 (483)
T Consensus 76 G~~~~vl~~l~~~~~i~~V~~n~~~~~~~~~RD~~v~~~l~~~gi~~~~~~~~~l~~p~~i~~~~~~~y~vftpf~k~~~ 155 (471)
T TIGR03556 76 GDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGNPYTVYTPFWKNWS 155 (471)
T ss_pred CCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCEEECCCCCCCCCCCHHHHHHH
T ss_conf 07899999999973987898616778489999999999998669734884653346867448999997664689999998
Q ss_pred HHCCCCCCCCCCCC-------CCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCC
Q ss_conf 63156632212455-------44567766755575323476434-55468887643332211111110110120268654
Q gi|254781170|r 167 QNLVQADLRSLPVP-------AIRLTGPVTPSNIPRFFDYPFQA-IDPMFPIGEQNALHILRKFCKEKVYYYVEQRDIPA 238 (483)
Q Consensus 167 ~~~~~~~~~~~p~~-------~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~gGe~~A~~~L~~Fl~~~l~~Y~~~Rn~p~ 238 (483)
T Consensus 156 ~~~~~~p~~-~p~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~GE~~A~~~L~~Fl~~~~~~Y~~~Rn~P~ 234 (471)
T TIGR03556 156 SLPKPTPVA-TPTELEGLTEAELEAAAPLGVIALPTAKDLGFDWDGDLILEPGETAAQARLEEFCDRAIADYQEQRNFPA 234 (471)
T ss_pred HCCCCCCCC-CCHHCCCCCHHHHHHCCCCCCCCCCCHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 566678888-8310056884555213545544589978808775668878954999999999999856765223035867
Q ss_pred CCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHC-CCCCCCCHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHCCCHH
Q ss_conf 566654461111464879999999999864311-1234772001023202468887888633578886153011012000
Q gi|254781170|r 239 IQGTSQLSPYLSIGVLSPRQCWNRLKEEFVDLL-IKPKSGAFSWLNELIWREFYRHLMAFYPSVCMGKPFIPWTEKIEWN 317 (483)
Q Consensus 239 ~~~tSrLSPyL~~G~IS~R~v~~~~~~~~~~~~-~~~~~~~~~fl~eL~WRef~~~~~~~~P~~~~~~~~~~~~~~~~w~ 317 (483)
T Consensus 235 ~~~tSrLSPyL~fG~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~eL~WRef~~~~l~~~P~~~~-~~~~~~~~~~~w~ 313 (471)
T TIGR03556 235 LDGTSQLSPALKFGVIGIRTVWQATQEAHENSRSEEARNSIRTWQQELAWREFYQHALYHFPELAD-GPYRSLFQNFPWE 313 (471)
T ss_pred CCCCCCCCHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHHC-CCCCCHHCCCCCC
T ss_conf 668887788881787779999999999987322544333589999999988999999985837442-7664111036776
Q ss_pred CCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHCCCCCCCEEEE
Q ss_conf 10467899872278886889999999971676358999999999984104700223347766413311147456100201
Q gi|254781170|r 318 KDSHLLQAWKQGYTGFPIIDAAMRQLNTIGWMHNRLRMITASFLVKDLLVDWRIGEEYFMSQLLDGDLASNNGGWQWAAS 397 (483)
Q Consensus 318 ~~~~~~~aW~~G~TG~PlVDA~MR~L~~tG~mhnr~Rm~vaSfl~~~L~idWr~g~~~f~~~llD~d~~~n~~~wq~~a~ 397 (483)
T Consensus 314 ~~~~~~~aW~~G~TG~P~VDA~MR~L~~TGwmhnR~R~~vaSFl~~~L~idWr~G~~~f~~~liD~D~a~n~~~Wqw~a~ 393 (471)
T TIGR03556 314 NNEAHFQAWCEGRTGYPIVDAAMRQLNETGWMHNRCRMIVASFLTKDLIINWQWGEKYFMQKLIDGDLAANNGGWQWSAS 393 (471)
T ss_pred CCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHCHHCCCEEEC
T ss_conf 88799702378999998363899999975896889999999999860599837899999986425662114122622214
Q ss_pred CCCCCCCCCCCCCHHHHHHHHCCCCCEEHCCCHHHHCCCHHHHCCHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 2789847022046458988724899783300824327997780495540131257899997631899999999999999
Q gi|254781170|r 398 TGNDSVPYFRIFNPTIQGKRFDPQGTFIRHWLPELNNVPTQYIHAPHSWLDKNDLSLNYPLPIVDHKKACHHTLNQYYA 476 (483)
Q Consensus 398 ~G~d~~~~~Ri~np~~q~~~~Dp~g~~ir~wvPeL~~~p~~~ih~p~~~~~~~~~~~~YP~pivd~~~~~~~a~~~~~~ 476 (483)
T Consensus 394 ~G~d~~~-~Rifnp~~q~~~~Dp~g~fir~wvPEL~~~p~~~i~~~~~~~~~-~~~~~YP~PiVd~~~~r~~a~~~~~~ 470 (471)
T TIGR03556 394 SGMDPKP-LRIFNPASQAQKFDPEAEYIRRWLPELRSVDTKDLVTGKITPLE-RRAVGYPLPIVDHNQQQQLFKQLYQQ 470 (471)
T ss_pred CCCCCCC-CEEECHHHHHHHHCCCCCEEHHHCHHHCCCCHHHHCCCCCCCHH-HCCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf 6789997-72108889899859898870462886327998883697679033-30269983338789999999999732