HHsearch alignment for GI: 254781062 and conserved domain: TIGR03403

>TIGR03403 nifS_epsilon cysteine desulfurase, NifS family, epsilon proteobacteria type. Members of this family are the NifS-like cysteine desulfurase of the epsilon division of the Proteobacteria, similar to the NifS protein of nitrogen-fixing bacteria. Like NifS, and unlike IscS, this protein is found as part of a system of just two proteins, a cysteine desulfurase and a scaffold, for iron-sulfur cluster biosynthesis. This protein is called NifS by Olsen, et al. (PMID:11123951), so we use this designation.
Probab=100.00  E-value=0  Score=599.51  Aligned_cols=363  Identities=29%  Similarity=0.429  Sum_probs=333.2

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~~~~~Vi~~~~~~~~~~~~Np~-s~h~~~~~a~~~~e~aR~~ia~~l~a~~~~eIvFTsg~Tea~N~~~~g   79 (382)
T TIGR03403         1 VYLDNNATTMLDPKVKELMDPFFCDIYGNPN-SLHQFGTATHPAIAEALDKLYKGINARDLDDIIITSCATESNNWVLKG   79 (382)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHH
T ss_conf             9463735689999999999999986689963-253999999999999999999975969978699938758999999999


Q ss_pred             HHHHHH--HCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             344432--013443454011000010000122223222222222222210257887510233443322222222333333
Q gi|254781062|r  105 WGARHI--STGDEIVLSVMEHHSNIIPWYFLRQRRGASLVWVPIDNQGFFHIDEFKNRLTERTKLIAITHMSNVLGTVIP  182 (406)
Q Consensus       105 ~~~~~~--~~gd~Vi~s~~eh~s~~~~~~~~~~~~G~~v~~i~~~~~g~id~~~l~~~i~~~t~lv~i~~~~~~tG~~~p  182 (406)
T Consensus        80 l~~~~~~~~~~~~ii~s~~EH~sv~~~~~~l-~~~G~~v~~~~~d~~G~~d~~~l~~~l~~~T~LVai~~anN~tG~i~p  158 (382)
T TIGR03403        80 VYFDEILKGGKNHIITTEVEHPAVRATCAFL-ESLGVEVTYLPINEQGTITAEQVREAITEKTALVSVMWANNETGMIFP  158 (382)
T ss_pred             HHHHHHHCCCCCEEEEECCCCHHHHHHHHHH-HHCCCEEEEECCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCCC
T ss_conf             9999863689999999556515389999999-965978999775999858899999760146606776314767777787


Q ss_pred             CCCEECCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCEEECCCCEEEEEEECC
Q ss_conf             32100023444431012332000111000011001122234322235444310002566631001211453034332024
Q gi|254781062|r  183 IKEICRIAHERNIPVLVDGSQGSVHNFVDVQDIDCDWYIITGHKLYGPSGIGGLYSKESRLNEMDPFMGGSEMIADVTQD  262 (406)
Q Consensus       183 i~~I~~~~~~~g~~~~vD~aq~~g~~~id~~~~~~D~~~~S~hK~~Gp~G~G~l~~~~~~~~~~~p~~~g~~~~~~~~~~  262 (406)
T Consensus       159 v~~I~~~~~~~g~~~~vDa~Q~~g~~pidv~~l~~D~l~~S~HK~~GP~GiG~L~ir~~~--~l~P~~~Gg~~~------  230 (382)
T TIGR03403       159 IKEIGEICKERGVLFHTDAVQAIGKIPVDVQKAGVDFLSFSAHKFHGPKGVGGLYIRKGV--ELTPLFHGGEHM------  230 (382)
T ss_pred             HHHHHHHHHHCCCEEEEEHHHHCCCCCCCCCCCCCCEEEEEHHHCCCCCCEEEEEECCCC--CCCCCCCCCCCC------
T ss_conf             999999998729879967134135646432323465245310103688834999986777--658765898774------


Q ss_pred             CCCCCCCHHCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCC-EEEEEECC
Q ss_conf             53003310000012212024566421012332222222222222222222222222210132268521586-79998089
Q gi|254781062|r  263 MVTYADLPYRFEPGTPPISQAIALGVALDYVEKIDRKSIFSYERELARYVRSRLKEVRGMQLVNESLEDSP-IISFRLGN  341 (406)
Q Consensus       263 ~~~~~~~~~r~e~Gt~~~~~~~al~~al~~~~~~g~~~i~~~~~~l~~~l~~~L~~~~g~~i~~~~~~~~~-iv~~~~~~  341 (406)
T Consensus       231 --------~~~r~GT~n~~~i~~l~~A~~~~~~~-~~~~~~~~~~L~~~l~~~L~~i~~~~i~g~~~~r~p~~~~~~~~~  301 (382)
T TIGR03403       231 --------GGRRSGTLNVPYIVAMGEAMRLANEY-LDFEKSHVRRLRDRLEDALLELPDVFVVGDREHRVPNTILISIKG  301 (382)
T ss_pred             --------CCCCCCCCCHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHCCCCEEECCHHHCCCCEEEEECCC
T ss_conf             --------76127986788999999999999998-999999999999999999981779467168332588579862799


Q ss_pred             CCHHHHHHHHHHCCCEEEECCHHH------HHHHHHCCCC-----CEEEEEECCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             999999999987896999752112------7889972899-----5799993588899999999999999999719
Q gi|254781062|r  342 IHPYDLALFLDGEGIAIRAGTHCA------NPLLKFLGID-----SLCRASLAMYNTYEEADKFIETLKKSIQFFQ  406 (406)
Q Consensus       342 ~~~~~v~~~L~~~gI~v~~G~~ca------~~~~~~~g~~-----~~iRiS~~~~nt~edid~~i~~l~~~i~~l~  406 (406)
T Consensus       302 i~~~~~~~~L~~~gI~v~~GsaCas~~~~~s~vl~a~g~~~~~~~~~vR~S~~~ynT~eeId~~i~~l~~~v~~lr  377 (382)
T TIGR03403       302 VEGEAMLWDLNKAGIAASTGSACASEDLEANPVMVAIGADKELAHTAIRLSLSRFTTEEEIDYTIEVFKKAVQRLR  377 (382)
T ss_pred             CCHHHHHHHHCCCCEEEECHHHHCCCCCCCCHHHHHCCCCHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             8989999984709979975577289988758999971998544595799975899999999999999999999998