HHsearch alignment for GI: 254781062 and conserved domain: TIGR03402
>TIGR03402 FeS_nifS cysteine desulfurase NifS. Members of this protein family are NifS, one of several related families of cysteine desulfurase involved in iron-sulfur (FeS) cluster biosynthesis. NifS is part of the NIF system, usually associated with other nif genes involved in nitrogenase expression and nitrogen fixation. The protein family is given a fairly broad interpretation here. It includes a clade nearly always found in extended nitrogen fixation genomic regions, plus a second clade more closely related to the first than to IscS and also part of NifS-like/NifU-like systems. This model does not extend to a more distantly clade found in the epsilon proteobacteria such as Helicobacter pylori, also named NifS in the literature, built instead in TIGR03403.
Probab=100.00 E-value=0 Score=588.97 Aligned_cols=361 Identities=26% Similarity=0.448 Sum_probs=330.0
Q ss_pred EEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf 99766888898989999999999861498660267999999999999999999982879765433468768987654322
Q gi|254781062|r 25 IYFDNAASAQKPQDVIDSIMCTYSHEYANIHRGLHYMANAVTDKYEKARDKVRRFINASSVKEIIFTRSATESINLVSYG 104 (406)
Q Consensus 25 iYld~a~~~~~~~~V~~a~~~~~~~~~~n~~~~~~~~~~~~~~~~~~aR~~ia~~lga~~~~~v~ft~~~Te~~n~~~~~ 104 (406)
T Consensus 1 IYlD~AAtt~~~~~V~~a~~~~~~~~~~np~-~~h~~~~~a~~~~e~aR~~iA~~lga~~-~eIvFt~~~T~a~n~~i~~ 78 (379)
T TIGR03402 1 IYLDNNATTRVDPEVLEAMLPYFTEYFGNPS-SMHSFGGEVGKAVEEAREQVAKLLGAEP-DEIIFTSGGTESDNTAIKS 78 (379)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHCCCC-CCEEEECCHHHHHHHHHHH
T ss_conf 9441766588999999999999996589977-6589999999999999999999829996-7399928879999999999
Q ss_pred HHHHHHHCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 34443201344345401100001000012222322222222222221025788751023344332222222233333332
Q gi|254781062|r 105 WGARHISTGDEIVLSVMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIPIK 184 (406)
Q Consensus 105 ~~~~~~~~gd~Vi~s~~eh~s~~~~~~~~~~~~G~~v~~i~~~~~g~id~~~l~~~i~~~t~lv~i~~~~~~tG~~~pi~ 184 (406)
T Consensus 79 ~~-~~~~~~d~Ii~s~~eH~a~~~~~~~l~-~~g~~v~~~~~~~~g~id~~~l~~~l~~~T~lvs~~~~sn~tG~i~pv~ 156 (379)
T TIGR03402 79 AL-AAQPEKRHIITTAVEHPAVLSLCQHLE-KQGYKVTYLPVDEEGRLDLEELRAAITDDTALVSVMWANNETGTIFPIE 156 (379)
T ss_pred HH-HHCCCCCEEEEECCHHHHHHHHHHHHH-HCCCEEEEEECCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCCHHHHHH
T ss_conf 99-867999999980131045667999999-6598899970378982642667887267862899612578887017899
Q ss_pred CEECCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCEEECCCCEEEEEEECCCC
Q ss_conf 10002344443101233200011100001100112223432223544431000256663100121145303433202453
Q gi|254781062|r 185 EICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFMGGSEMIADVTQDMV 264 (406)
Q Consensus 185 ~I~~~~~~~g~~~~vD~aq~~g~~~id~~~~~~D~~~~S~hK~~Gp~G~G~l~~~~~~~~~~~p~~~g~~~~~~~~~~~~ 264 (406)
T Consensus 157 ~I~~~~~~~g~~~~vDa~Q~~g~~pidv~~~~~D~~~~S~hK~~GP~G~G~Ly~r~~~--~~~P~~~Gg~~--------- 225 (379)
T TIGR03402 157 EIGEIAKERGALFHTDAVQAVGKIPIDLKEMNIDMLSLSGHKLHGPKGVGALYIRKGT--RFRPLLRGGHQ--------- 225 (379)
T ss_pred HHHHHHHHCCCEEEEECCCCCCCCCCCHHHHCCCCEECCHHHCCCCCCEEEEEECCCC--CCCCCCCCCCC---------
T ss_conf 9999997639889945311246646403441577212021113688725999982676--66876788887---------
Q ss_pred CCCCCHHCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCEEEECCCCCCCCC-EEEEEECCC
Q ss_conf 003310000012212024566421012332222222222222222222222-222210132268521586-799980899
Q gi|254781062|r 265 TYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSR-LKEVRGMQLVNESLEDSP-IISFRLGNI 342 (406)
Q Consensus 265 ~~~~~~~r~e~Gt~~~~~~~al~~al~~~~~~g~~~i~~~~~~l~~~l~~~-L~~~~g~~i~~~~~~~~~-iv~~~~~~~ 342 (406)
T Consensus 226 -----e~~~~~GT~n~~~i~gl~~a~~~~~~-~~~~~~~~~~~l~~~l~~~ll~~~~~~~i~g~~~~r~p~~~~~~~~~~ 299 (379)
T TIGR03402 226 -----ERGRRAGTENVPGIVGLGKAAELATE-HLEEENTRVRALRDRLEAGLLARIPDARLNGDPTKRLPNTVNISFEYI 299 (379)
T ss_pred -----CCCCCCCCHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCHHHCCCCCEEECCCCC
T ss_conf -----77767897129999999999999997-599999999999999999998508982754786664887303236998
Q ss_pred CHHHHHHHHHHCCCEEEECCHHH------HHHHHHCCCC-----CEEEEEECCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 99999999987896999752112------7889972899-----5799993588899999999999999999719
Q gi|254781062|r 343 HPYDLALFLDGEGIAIRAGTHCA------NPLLKFLGID-----SLCRASLAMYNTYEEADKFIETLKKSIQFFQ 406 (406)
Q Consensus 343 ~~~~v~~~L~~~gI~v~~G~~ca------~~~~~~~g~~-----~~iRiS~~~~nt~edid~~i~~l~~~i~~l~ 406 (406)
T Consensus 300 ~~~~i~~~L~~~gI~v~~G~~Ca~~~~~ps~vL~a~g~~~~~~~g~iRvS~~~ynT~edId~li~aL~~iv~~lr 374 (379)
T TIGR03402 300 EGEAILLLLDMEGICASSGSACTSGSLEPSHVLRAMGVPHTAAHGSIRFSLSRYNTEEDIDYVLEVLPPIIARLR 374 (379)
T ss_pred CHHHHHHHHCCCCEEEECCHHCCCCCCCHHHHHHHCCCCHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 999999984518929975032159998624999975998333395699973899999999999999999999998