Query 009487
Match_columns 533
No_of_seqs 161 out of 205
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 13:42:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009487.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009487hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2165 Anaphase-promoting com 100.0 4.3E-69 9.2E-74 582.0 31.2 405 28-523 7-424 (765)
2 PF15469 Sec5: Exocyst complex 40.4 65 0.0014 30.7 5.8 49 403-462 134-182 (182)
3 KOG2796 Uncharacterized conser 35.6 4.6E+02 0.01 28.2 11.3 61 411-477 254-317 (366)
4 PF08361 TetR_C_2: MAATS-type 34.1 3.4E+02 0.0074 24.2 9.7 98 354-453 5-109 (121)
5 KOG0183 20S proteasome, regula 32.0 44 0.00096 34.1 3.2 36 439-474 146-197 (249)
6 PRK07921 RNA polymerase sigma 31.7 2.6E+02 0.0055 29.7 9.0 79 389-467 74-163 (324)
7 PRK07408 RNA polymerase sigma 27.8 2.3E+02 0.005 28.6 7.6 53 414-466 42-102 (256)
8 PRK07122 RNA polymerase sigma 26.6 1.1E+02 0.0024 31.1 5.1 59 405-467 52-117 (264)
9 TIGR02885 spore_sigF RNA polym 26.0 1.9E+02 0.004 28.3 6.4 51 413-463 27-84 (231)
10 TIGR02393 RpoD_Cterm RNA polym 25.8 1.4E+02 0.003 29.6 5.6 53 413-465 16-75 (238)
11 PF10691 DUF2497: Protein of u 23.1 2.8E+02 0.006 23.6 6.0 62 17-81 5-72 (73)
12 PRK12427 flagellar biosynthesi 22.8 2.5E+02 0.0054 28.0 6.7 61 402-463 24-90 (231)
13 PRK09210 RNA polymerase sigma 20.6 2E+02 0.0044 30.8 5.9 57 411-467 143-206 (367)
No 1
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.3e-69 Score=582.01 Aligned_cols=405 Identities=35% Similarity=0.503 Sum_probs=324.6
Q ss_pred HhhhhhhhhhcccCCCCCc-----cchhhHHHHHHHHHhcCchHHHHHHHHHHHHHHHHhcchhhhhhccccccchhhhh
Q 009487 28 SYNGFCATTNSLLNGGRDI-----AVGKEFVTHVRSLCKHGLQSLAHGHFLRSLEETFERTFVSKFWRHFDVYSKVAVLE 102 (533)
Q Consensus 28 aw~~~~~~~~~l~~~~~~~-----~~~~~~~~~~~~L~~~gL~~~v~~~f~~~le~~lr~~i~P~FW~~f~~~~~~~~~~ 102 (533)
.|+++ ++ ++|--|++ ++++++ +..++.||+.++..++|+.++|..++.++. ||+||.++...+...
T Consensus 7 ~~~~~---~~-i~~~~g~~~s~~s~~e~~~---~~~~~~~~~~s~s~~~~~~vl~~~~~~~~~--fw~~i~~~~~~~~~~ 77 (765)
T KOG2165|consen 7 LWQTV---SS-IFPILGDLNSVLSPMEDND---FKSLSQLGLPSLSIENFIKVLQFNNQKTIP--FWSAINQSLAKSIVA 77 (765)
T ss_pred HHHHH---HH-HhhhccchhhhcCcCchHH---HHHHHhcccchhhHHHHHHHHHHHHhhcch--HHHHHHHHHHhcchh
Confidence 67777 33 44433332 377777 889999999999999999999999999996 999998775553222
Q ss_pred cccc--ccchhhHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhcCccccccCCCCCCchhhHHHHHHHHHHHHHHhhcCCC
Q 009487 103 KNKP--LIYDDEVHEVLCKALEEICMEIQYQEKCLFMLVHAIESPRDCSLEGKPILDSEVHLFAKYQLMVSSVLMASLPP 180 (533)
Q Consensus 103 ~~~~--~~~~~~~~~~l~~al~eL~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~v~a~Ll~slP~ 180 (533)
++.. ++....+.+.... | + ..++++++.. . +.+ .++++|+|..+++++|+
T Consensus 78 ~~i~~l~d~~~ll~~~~~~----------y----i--~~~~l~~~l~-----~--g~~-----~~i~~~~r~~~~~~lP~ 129 (765)
T KOG2165|consen 78 KNIENLLDKTGLLSSFKDF----------Y----I--FQVRLRFFLL-----F--GNG-----DRIKDCLRWELYYELPL 129 (765)
T ss_pred hhHHHHHhHHhHHHHHHHH----------H----H--HHHHHHHHHH-----h--Ccc-----cHHHHHHHHHHHHhcch
Confidence 2211 1111122222222 2 1 1111111000 0 111 23999999999999999
Q ss_pred CHHHHHHHHHhHhHHHhhhhhcccccCCCCCCCCcccchhhcccccCCCCCccccccccccchhHHHHHHHHHHHHHHHh
Q 009487 181 HFPEMLYWYFKGRLEELSTIMDGELEDGNDSQDKDDMDLDEKGKQRTGEMDIDQSNNHGKFSEKSKLVKHIGKVVHDLRT 260 (533)
Q Consensus 181 ~F~~il~~fy~~~~~~~~~~~~~~~~~~~~s~~~d~~e~de~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~L~~ 260 (533)
+|.+++..||+..|.+++.+|....+..+ .++|.+ ..||......|+|...+++++++++.|.+
T Consensus 130 ~f~~vl~~~~~~~l~~~~~~~~~~~~~~d-----~~~dl~-----------~~gc~t~~~k~~cd~~~~~f~~l~~~Lk~ 193 (765)
T KOG2165|consen 130 RFIEVLDVYFNEHLLELNKAMHLLLTRND-----HDIDLD-----------LQGCSTRKDKLICDQLVDLFNQLVQKLKS 193 (765)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhcccCCC-----cccCcc-----------ccccCchHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999974332211 113322 25777777788888999999999999999
Q ss_pred cCchhhhHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHhchhhHHHHHHHHhcCCCCCCCCCCCCCCCCCCCCC
Q 009487 261 LGFTSMTENAYASAIFSLLKAKVHNLAGEDYRSSVLEPIKAWIQAVPLQFLNALLAYLGESESYDSPTAGLKSPLASRPL 340 (533)
Q Consensus 261 lgl~~~~e~~~~svl~~~Ik~~V~~~~~g~~~~s~L~~l~~Wi~~V~~~wl~~Vl~~~g~~~~~~~~s~~~~s~~~~~~s 340 (533)
+||.+++.++++++++.+|++++++.|+|.|++++++++.+||++|+.+|+..|+.+
T Consensus 194 ~~l~~~~~ea~~s~l~l~l~~~l~d~~~~~~~~s~l~s~~~wI~~~~~~wl~~V~~~----------------------- 250 (765)
T KOG2165|consen 194 LNLSSVSTEAIVSVLYLKLKAFLEDRCSGVWDRSVLESFNKWINTVWGQWLKLVFSQ----------------------- 250 (765)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-----------------------
Confidence 999889999999999999999999999999999999999999999999999998421
Q ss_pred CCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccCCCchhHHHHHHHHHhhcCchhHHHHHHHHHHHHhcccC
Q 009487 341 CCPGTHNPSEGLVRWRLRLEYFAYETLQDLRIAKLFEIIVDYPESSPAIEDLKQCLEYTGQHSKLVESFISALKYRLLTA 420 (533)
Q Consensus 341 ~~~~~~~~~~~l~~w~~~L~~~~~~~~~~lRi~elFdIIvdyPdS~pai~DLr~cL~~t~~r~~Lv~s~~~~~~~RLLhp 420 (533)
++..+|+.+++|++|++|+++||+++|+||+|||+|.|||+|||+||+++++|.+|+++|+++++.|||||
T Consensus 251 ---------e~~~~~~~~l~~~~~~~fa~lr~~~~f~Iv~dyPdS~~aiedLK~cle~t~qr~~ltesfi~~l~~riL~a 321 (765)
T KOG2165|consen 251 ---------ESDHAFKLTLDYFFYEIFARLRINEIFDIVLDYPDSKPAIEDLKYCLERTDQRVYLTESFISDLKTRILTA 321 (765)
T ss_pred ---------ccccceeeeeHHHHHHHHHHHHHhhHHHHHHhCCccchhHHHHHHHHHHhcchHHHHHHHHHHHHhhhcCC
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHHHhHHHhhCCCccchhhhcchhHHhhccCCChHHHHHHHhcCCCCCCCCCCCCChhhHHHHhccCcc
Q 009487 421 GASTNDILHQYVSTIKALRTIDPTGVFLEAVGEPIRDYLRGRKDTIKCIVTMLTDGTGGNPNGSGNAGDSLLEELNRDEE 500 (533)
Q Consensus 421 Ga~T~dIL~~YIstIkal~iLDPsGvlL~~V~~PIr~YLr~R~DtVr~IV~~Ltd~~~~~~~~~~~~~~~L~~EL~~~~~ 500 (533)
||+|+|||++||+||||||+|||+||+|++||.|||+|||+|+|||+|||++|||.++.++ . .+|+.||++.+.
T Consensus 322 sv~T~DIL~~YVstIkalr~lDptgV~Le~v~~pIR~YLr~R~DtVk~iVs~lt~~~k~~~-----~-~Dl~~els~~d~ 395 (765)
T KOG2165|consen 322 SVDTVDILLRYVSTIKALRVLDPTGVILEKVTEPIRDYLRERKDTVKQIVSGLTDLPKSEG-----E-KDLSAELSKVDT 395 (765)
T ss_pred CCcHHHHHHHHHHHHHHHHhhCCcceehHHhhHhHHHHHhhCccHHHHHHHHHhcCCccCC-----c-ccHHHHHhccCc
Confidence 9999999999999999999999999999999999999999999999999999998753211 2 279999999764
Q ss_pred -cccccCCCCCCCCC---Chh--hhcccc
Q 009487 501 -NQENIGVDDGFNID---DKQ--AWINAV 523 (533)
Q Consensus 501 -~~~~~~~~dd~~~d---d~e--~W~~~~ 523 (533)
.+++.+.++|.-.| .|+ +|+|+|
T Consensus 396 ~~~e~i~~n~D~~td~~~~~e~~~W~PdP 424 (765)
T KOG2165|consen 396 LHDEDIGENDDSPTDDFMNYEILNWMPDP 424 (765)
T ss_pred cchhhcccCcCCCcchhhhhhhhhccCCC
Confidence 34556666665333 344 788887
No 2
>PF15469 Sec5: Exocyst complex component Sec5
Probab=40.43 E-value=65 Score=30.67 Aligned_cols=49 Identities=24% Similarity=0.463 Sum_probs=41.9
Q ss_pred hHHHHHHHHHHHHhcccCCCChHHHHHHHHHHHhHHHhhCCCccchhhhcchhHHhhccC
Q 009487 403 SKLVESFISALKYRLLTAGASTNDILHQYVSTIKALRTIDPTGVFLEAVGEPIRDYLRGR 462 (533)
Q Consensus 403 ~~Lv~s~~~~~~~RLLhpGa~T~dIL~~YIstIkal~iLDPsGvlL~~V~~PIr~YLr~R 462 (533)
...+..++..+..||+-|..+. ..+..+|+-|.-|+|.| .||=.||.+|
T Consensus 134 e~ii~~~r~~l~~~L~~~~~s~----~~~~~~i~~Ll~L~~~~-------dPi~~~l~~q 182 (182)
T PF15469_consen 134 EKIIEEFREKLWEKLLSPPSSQ----EEFLKLIRKLLELNVEE-------DPIWYWLESQ 182 (182)
T ss_pred HHHHHHHHHHHHHHHhCCCCCH----HHHHHHHHHHHhCCCCC-------CHHHHHHHcC
Confidence 3578899999999999999776 56888999999999987 8998888765
No 3
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.62 E-value=4.6e+02 Score=28.15 Aligned_cols=61 Identities=16% Similarity=0.248 Sum_probs=45.5
Q ss_pred HHHHHhcccCCCChHHHHHHHHHHHhHH---HhhCCCccchhhhcchhHHhhccCCChHHHHHHHhcCCC
Q 009487 411 SALKYRLLTAGASTNDILHQYVSTIKAL---RTIDPTGVFLEAVGEPIRDYLRGRKDTIKCIVTMLTDGT 477 (533)
Q Consensus 411 ~~~~~RLLhpGa~T~dIL~~YIstIkal---~iLDPsGvlL~~V~~PIr~YLr~R~DtVr~IV~~Ltd~~ 477 (533)
--..+|++|-|++. |+++.+.+ -+.||+..+-.-=-.-+.-||+.=.|.|+.|-+++-...
T Consensus 254 V~~n~a~i~lg~nn------~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P 317 (366)
T KOG2796|consen 254 VLMNSAFLHLGQNN------FAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDP 317 (366)
T ss_pred HHhhhhhheecccc------hHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 34568899999976 77777776 456888765544445567899999999999988885433
No 4
>PF08361 TetR_C_2: MAATS-type transcriptional repressor, C-terminal region; InterPro: IPR013572 This entry is named after the various transcriptional regulatory proteins that it contains, including MtrR (Q6RV06 from SWISSPROT), AcrR (P34000 from SWISSPROT), ArpR (Q9KJC4 from SWISSPROT), TtgR (Q9AIU0 from SWISSPROT) and SmeT (Q8KLP4 from SWISSPROT). These are members of the TetR (tetracycline resistance) family of transcriptional repressors, that are involved in the control of expression of multidrug resistance proteins [, , ]. ; GO: 0003677 DNA binding; PDB: 3BCG_B 2QOP_A 2UXP_B 2XDN_C 2UXH_A 2UXI_B 2UXO_A 2UXU_B 2WUI_A 2W53_A ....
Probab=34.10 E-value=3.4e+02 Score=24.15 Aligned_cols=98 Identities=18% Similarity=0.177 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhc---cCCCchhHHHH-HHHHHhhcCchhHHHHHHHHHHHHhcccCCCChHHHHH
Q 009487 354 RWRLRLEYFAYETLQDLRIAKLFEIIV---DYPESSPAIED-LKQCLEYTGQHSKLVESFISALKYRLLTAGASTNDILH 429 (533)
Q Consensus 354 ~w~~~L~~~~~~~~~~lRi~elFdIIv---dyPdS~pai~D-Lr~cL~~t~~r~~Lv~s~~~~~~~RLLhpGa~T~dIL~ 429 (533)
+-+..+.+.+-..-.+-|...+|+|+- +|-+...++.+ -+.+.. ..+..+...|..+..+..|+|+.+....-.
T Consensus 5 ~Lr~~~~~~l~~l~~d~~~Rrv~~I~~~kcE~~~e~~~~~~r~~~~~~--~~~~~i~~~l~~A~~~g~L~~~ld~~~AA~ 82 (121)
T PF08361_consen 5 RLREALIEALRRLAEDERQRRVFEILFHKCEYVEEMAPVRERRREAQR--EALARIERLLRRAQARGQLPADLDPRLAAI 82 (121)
T ss_dssp HHHHHHHHHHHHHHHSHHHHHHHHHHHHS--SSTTTHHHHHHHHHHHH--HHHHHHHHHHHHHHHTTSS-TTB-HHHHHH
T ss_pred HHHHHHHHHHHHHhhCHHHHHHHHHHHHhcccCCcccHHHHHHHHHHH--HHHHHHHHHHHHHHHcCCCCCCCCHHHHHH
Confidence 334455566666667789999999986 78776665655 344433 346778889999999999999999876544
Q ss_pred H---HHHHHhHHHhhCCCccchhhhcc
Q 009487 430 Q---YVSTIKALRTIDPTGVFLEAVGE 453 (533)
Q Consensus 430 ~---YIstIkal~iLDPsGvlL~~V~~ 453 (533)
. |+..+=.-=.++|...=|...+.
T Consensus 83 ~l~a~~~Gl~~~WL~~p~~fdL~~~a~ 109 (121)
T PF08361_consen 83 MLHALLSGLIQNWLLDPESFDLAEQAE 109 (121)
T ss_dssp HHHHHHHHHHHHHHHSTTTS-HHHHHH
T ss_pred HHHHHHHHHHHHHHcCCccCCHHHHHH
Confidence 4 44444444456777655554443
No 5
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=31.96 E-value=44 Score=34.06 Aligned_cols=36 Identities=28% Similarity=0.564 Sum_probs=27.7
Q ss_pred HhhCCCccchh-------hhcchhHHhhcc---------CCChHHHHHHHhc
Q 009487 439 RTIDPTGVFLE-------AVGEPIRDYLRG---------RKDTIKCIVTMLT 474 (533)
Q Consensus 439 ~iLDPsGvlL~-------~V~~PIr~YLr~---------R~DtVr~IV~~Lt 474 (533)
=..||+|.+-+ +-..|+|+||-+ +.|||+-+|.+|+
T Consensus 146 yqtePsG~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~Ll 197 (249)
T KOG0183|consen 146 YQTEPSGIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALL 197 (249)
T ss_pred EeeCCCcchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHH
Confidence 35688887654 445799999977 5689999998885
No 6
>PRK07921 RNA polymerase sigma factor SigB; Reviewed
Probab=31.68 E-value=2.6e+02 Score=29.72 Aligned_cols=79 Identities=19% Similarity=0.249 Sum_probs=51.8
Q ss_pred HHHHHHHHhhc-CchhHHHHHH---HHHHHHhcccCCCChHHHHH-HHHHHHhHHHhhCC-Ccc-----chhhhcchhHH
Q 009487 389 IEDLKQCLEYT-GQHSKLVESF---ISALKYRLLTAGASTNDILH-QYVSTIKALRTIDP-TGV-----FLEAVGEPIRD 457 (533)
Q Consensus 389 i~DLr~cL~~t-~~r~~Lv~s~---~~~~~~RLLhpGa~T~dIL~-~YIstIkal~iLDP-sGv-----lL~~V~~PIr~ 457 (533)
..+|+.-+..- ..+..|+... ...+-.|+.+.|+.-.|+++ .+|..+++..-.|| .|+ -.-.|-.-|.+
T Consensus 74 ~~~l~~~~~~~~~A~~~Lv~~~~~lV~~iA~r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~ 153 (324)
T PRK07921 74 KRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITR 153 (324)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHH
Confidence 34454444322 2355666553 35567788888999999975 67899999999999 454 33345556777
Q ss_pred hhccCCChHH
Q 009487 458 YLRGRKDTIK 467 (533)
Q Consensus 458 YLr~R~DtVr 467 (533)
|++...-+||
T Consensus 154 ~i~~~~r~vr 163 (324)
T PRK07921 154 GMADQSRTIR 163 (324)
T ss_pred HHHHcCCCcc
Confidence 7776554443
No 7
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=27.78 E-value=2.3e+02 Score=28.59 Aligned_cols=53 Identities=23% Similarity=0.423 Sum_probs=36.6
Q ss_pred HHhcccC-CCChHHHH-HHHHHHHhHHHhhCCC-c-----cchhhhcchhHHhhccCCChH
Q 009487 414 KYRLLTA-GASTNDIL-HQYVSTIKALRTIDPT-G-----VFLEAVGEPIRDYLRGRKDTI 466 (533)
Q Consensus 414 ~~RLLhp-Ga~T~dIL-~~YIstIkal~iLDPs-G-----vlL~~V~~PIr~YLr~R~DtV 466 (533)
-.|..+. +..-.|++ ..+|..++|+.-.||+ | -+...|-.-|..|||...-+|
T Consensus 42 a~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~Ir~~i~~~lr~~~~~v 102 (256)
T PRK07408 42 AHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEIQHYLRDKSPTV 102 (256)
T ss_pred HHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHcCCee
Confidence 4444433 55567775 5789999999999993 3 345667777889999755443
No 8
>PRK07122 RNA polymerase sigma factor SigF; Reviewed
Probab=26.55 E-value=1.1e+02 Score=31.14 Aligned_cols=59 Identities=17% Similarity=0.314 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHhcccCCCChHHHHH-HHHHHHhHHHhhCCC-ccch-----hhhcchhHHhhccCCChHH
Q 009487 405 LVESFISALKYRLLTAGASTNDILH-QYVSTIKALRTIDPT-GVFL-----EAVGEPIRDYLRGRKDTIK 467 (533)
Q Consensus 405 Lv~s~~~~~~~RLLhpGa~T~dIL~-~YIstIkal~iLDPs-GvlL-----~~V~~PIr~YLr~R~DtVr 467 (533)
||.++...+. +.|+.-.|+++ .+|..|||+.-.||+ |+=+ -.|-.-|.+|||.+.-+||
T Consensus 52 LV~~iA~~y~----~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~~~~ir 117 (264)
T PRK07122 52 LADHIARRFD----GRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDNSWSVK 117 (264)
T ss_pred HHHHHHHHHH----hCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHcCCccc
Confidence 5555555544 44888889876 589999999999996 5433 3455668899988766543
No 9
>TIGR02885 spore_sigF RNA polymerase sigma-F factor. Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore.
Probab=26.02 E-value=1.9e+02 Score=28.33 Aligned_cols=51 Identities=20% Similarity=0.376 Sum_probs=39.1
Q ss_pred HHHhcccCCCChHHHHH-HHHHHHhHHHhhCCC-c-----cchhhhcchhHHhhccCC
Q 009487 413 LKYRLLTAGASTNDILH-QYVSTIKALRTIDPT-G-----VFLEAVGEPIRDYLRGRK 463 (533)
Q Consensus 413 ~~~RLLhpGa~T~dIL~-~YIstIkal~iLDPs-G-----vlL~~V~~PIr~YLr~R~ 463 (533)
+-.|..+.+....|+++ .++..++++.-.||. | -+...+-.-|.+|+|...
T Consensus 27 ~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~~lr~~~ 84 (231)
T TIGR02885 27 IVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKRFLRDDG 84 (231)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHHHHHhCC
Confidence 44566778899999977 899999999999985 3 344555677788998754
No 10
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain. This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc.
Probab=25.78 E-value=1.4e+02 Score=29.56 Aligned_cols=53 Identities=17% Similarity=0.279 Sum_probs=37.2
Q ss_pred HHHhcccCCCChHHHHH-HHHHHHhHHHhhCCC-ccchhh-----hcchhHHhhccCCCh
Q 009487 413 LKYRLLTAGASTNDILH-QYVSTIKALRTIDPT-GVFLEA-----VGEPIRDYLRGRKDT 465 (533)
Q Consensus 413 ~~~RLLhpGa~T~dIL~-~YIstIkal~iLDPs-GvlL~~-----V~~PIr~YLr~R~Dt 465 (533)
+-.|..+.|+...|+++ .+|..++|+.-.||+ |.=+.. |-.-|+.|++...-+
T Consensus 16 ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~ 75 (238)
T TIGR02393 16 IAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQART 75 (238)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCc
Confidence 33455566888888875 689999999999996 544433 556666777665543
No 11
>PF10691 DUF2497: Protein of unknown function (DUF2497) ; InterPro: IPR019632 Members of this family belong to the Alphaproteobacteria. The function of the family is not known.
Probab=23.15 E-value=2.8e+02 Score=23.64 Aligned_cols=62 Identities=6% Similarity=0.172 Sum_probs=35.6
Q ss_pred cccchHHHHHHHhhhhhhhhhccc--CCCCCccch----hhHHHHHHHHHhcCchHHHHHHHHHHHHHHHH
Q 009487 17 LNDESVQEIIESYNGFCATTNSLL--NGGRDIAVG----KEFVTHVRSLCKHGLQSLAHGHFLRSLEETFE 81 (533)
Q Consensus 17 ~~~~~~~~~~~aw~~~~~~~~~l~--~~~~~~~~~----~~~~~~~~~L~~~gL~~~v~~~f~~~le~~lr 81 (533)
+|+..++.+..+.+.+ +..+. .++++.+.+ +-|+..+.-=-...|-.+|++.+-+.|++..|
T Consensus 5 is~~~~~~~~~~f~~L---~~~~~~~~~~~~~TlE~lvremLRPmLkeWLD~nLP~lVErlVr~EIeRi~r 72 (73)
T PF10691_consen 5 ISPETAEAVASAFAKL---ASAIRQISPSSGRTLEDLVREMLRPMLKEWLDENLPGLVERLVREEIERIAR 72 (73)
T ss_pred cChhHHHHHHHHHHHH---HHHHHhccccccccHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhc
Confidence 4556667777777766 55554 234455533 33444444444456777777777777766544
No 12
>PRK12427 flagellar biosynthesis sigma factor; Provisional
Probab=22.79 E-value=2.5e+02 Score=27.98 Aligned_cols=61 Identities=18% Similarity=0.214 Sum_probs=42.1
Q ss_pred hhHHHHHHHHHHHHhcccCCCChHHHH-HHHHHHHhHHHhhCCC-c----cchhhhcchhHHhhccCC
Q 009487 402 HSKLVESFISALKYRLLTAGASTNDIL-HQYVSTIKALRTIDPT-G----VFLEAVGEPIRDYLRGRK 463 (533)
Q Consensus 402 r~~Lv~s~~~~~~~RLLhpGa~T~dIL-~~YIstIkal~iLDPs-G----vlL~~V~~PIr~YLr~R~ 463 (533)
+..||..+...+..+ +.+++...|++ ..+|..++++.-.||. | -+...|..-|.+|||...
T Consensus 24 y~~lV~~la~~~~~~-~~~~~~~eDLvQeg~igL~~a~~~fd~~~~~F~tYa~~~Ir~~il~~lr~~~ 90 (231)
T PRK12427 24 YLPLVKKVVRQLAFQ-ADSVIDREDMEQIALMGLLEALRRYGHPDEQFAAYAVHRIRGAILDELRELD 90 (231)
T ss_pred HHHHHHHHHHHHHhh-CCCCCCHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHHHHHhcC
Confidence 344555555555443 45678889985 4788999999999973 3 345566677788888744
No 13
>PRK09210 RNA polymerase sigma factor RpoD; Validated
Probab=20.56 E-value=2e+02 Score=30.80 Aligned_cols=57 Identities=18% Similarity=0.296 Sum_probs=41.8
Q ss_pred HHHHHhcccCCCChHHHHH-HHHHHHhHHHhhCCC-ccchhh-----hcchhHHhhccCCChHH
Q 009487 411 SALKYRLLTAGASTNDILH-QYVSTIKALRTIDPT-GVFLEA-----VGEPIRDYLRGRKDTIK 467 (533)
Q Consensus 411 ~~~~~RLLhpGa~T~dIL~-~YIstIkal~iLDPs-GvlL~~-----V~~PIr~YLr~R~DtVr 467 (533)
..+-.|+.+.|..-.|+++ .++..++++.-.||+ |.=+.. |-.-|++|++...-+||
T Consensus 143 ~~iA~~~~~~~~~~eDLiQEg~igL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~ir 206 (367)
T PRK09210 143 VSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIR 206 (367)
T ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCcee
Confidence 4456677788999999965 789999999999996 654444 66677777766544443
Done!