Query         gi|254780512|ref|YP_003064925.1| flagellar biosynthesis protein FlhA [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 692
No_of_seqs    160 out of 1034
Neff          5.9 
Searched_HMMs 23785
Date          Tue May 31 20:37:07 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780512.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3mix_A Flagellar biosynthesis  100.0       0       0  769.9  31.7  375  316-692     2-381 (382)
  2 3a5i_A Flagellar biosynthesis  100.0       0       0  751.2  32.7  338  348-692    48-387 (389)
  3 3myd_A Flagellar biosynthesis  100.0       0       0  729.5  37.0  343  346-692    17-363 (365)
  4 2x49_A INVA, invasion protein  100.0       0       0  688.5  27.7  323  366-691     9-333 (333)
  5 2hbt_A EGL nine homolog 1; pro  49.0      10 0.00043   15.6   3.0   33  156-188     7-49  (247)
  6 2pl1_A Transcriptional regulat  48.6     3.5 0.00015   19.0   0.4   14  627-640   105-118 (121)
  7 3ol3_A Putative uncharacterize  41.5      13 0.00055   14.8   5.9   74  503-579    11-96  (107)
  8 2qxy_A Response regulator; reg  39.8     3.7 0.00015   18.9  -0.7   44  477-520     9-52  (142)
  9 2kvc_A Putative uncharacterize  38.5      15 0.00061   14.4   6.2   72  504-579     7-87  (103)
 10 2yvy_A MGTE, Mg2+ transporter   38.1      15 0.00062   14.4   2.2   29  647-675   209-237 (278)
 11 3crn_A Response regulator rece  36.8     4.9 0.00021   18.0  -0.4   49  592-645    76-126 (132)
 12 1qle_D Cytochrome AA3, ccytoch  36.2      14 0.00058   14.6   1.8   19  197-215    18-36  (43)
 13 1h16_A Formate acetyltransfera  34.6      17  0.0007   14.0   2.4   11  659-669   684-694 (759)
 14 1xhf_A DYE resistance, aerobic  34.0     6.6 0.00028   17.0  -0.1   44  477-520     8-51  (123)
 15 2ebk_A RWD domain-containing p  33.0      18 0.00074   13.8   2.9   52  453-522    73-124 (128)
 16 3c8y_A Iron hydrogenase 1; dit  32.4      18 0.00075   13.8   4.6   87  453-543   239-338 (574)
 17 2zy9_A Mg2+ transporter MGTE;   31.1      14 0.00059   14.5   1.2   24  530-553   355-378 (473)
 18 1r71_A Transcriptional repress  30.2      19 0.00081   13.5   5.1   52  496-547     4-55  (178)
 19 1wi9_A Protein C20ORF116 homol  27.7      21 0.00089   13.2   3.7   52  133-204    12-63  (72)
 20 2rhf_A DNA helicase RECQ; HRDC  27.6      21 0.00089   13.2   2.5   27  375-403     3-29  (77)
 21 1dvo_A FINO, fertility inhibit  25.5      22 0.00092   13.1   1.3   44  503-546    39-82  (152)
 22 3cfy_A Putative LUXO repressor  25.4       4 0.00017   18.7  -2.5   10  629-638   111-120 (137)
 23 2job_A Antilipopolysaccharide   24.7      24   0.001   12.8   1.6   30  481-510    71-101 (102)
 24 3bej_E Nuclear receptor coacti  24.5      24   0.001   12.8   2.4   19  528-546     6-24  (26)
 25 2hqv_A AGR_C_4470P; NESG, ATR9  24.5      15 0.00063   14.3   0.4   17  422-438   101-117 (195)
 26 1zgz_A Torcad operon transcrip  24.1      14  0.0006   14.5   0.2   15  626-640   105-119 (122)
 27 1jhn_A Calnexin; jelly-roll, b  21.0      28  0.0012   12.3   3.3   23  410-432   201-223 (424)
 28 1zh2_A KDP operon transcriptio  20.8      11 0.00045   15.4  -1.0   14  627-640   105-118 (121)
 29 2rjn_A Response regulator rece  20.8      25  0.0011   12.7   0.9   44  477-520    12-55  (154)
 30 2bw2_A Bypass of forespore C;   20.6      28  0.0012   12.3   1.1   23  456-479   102-124 (140)

No 1  
>3mix_A Flagellar biosynthesis protein FLHA; flagella biosynthesis, protein transport, type III secretion; 2.30A {Bacillus subtilis}
Probab=100.00  E-value=0  Score=769.90  Aligned_cols=375  Identities=26%  Similarity=0.418  Sum_probs=349.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCC---CCCCCCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             99999999886443222210011000---2356676753001002460122101-1111234575526889999999999
Q gi|254780512|r  316 GFFACAGFYVPYKNELQRLAKVAQIQ---EASKQNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFA  391 (692)
Q Consensus       316 ~~l~~~a~~~~r~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la  391 (692)
                      +++++.||+++|+.+.++..+....+   ......++++......|++++++|| ++++++.+++++|.+||+++||+++
T Consensus         2 g~~~~~ay~~~k~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~l~vd~i~lelG~~Li~lvd~~~gg~L~~rI~~iRk~ia   81 (382)
T 3mix_A            2 GHHHHHAYTLSKSGKEKEEVDEILEEEAEVDELKSPESVVQLLHIDPIEFEFGYGLIPLADANQGGDLLDRIVMIRRQLA   81 (382)
T ss_dssp             ---------------------CHHHHHHHHSCCCSHHHHGGGSCCCSEEEEECGGGHHHHHSSSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCEEEEEECCCHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             86421566413523335567777754420003478531344357760799965064977484559749999999999999


Q ss_pred             HHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHH
Q ss_conf             98098788324454377898716999748245348841783413305888767887410147668830343978845888
Q gi|254780512|r  392 VQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLR  471 (692)
Q Consensus       392 ~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~  471 (692)
                      .|+||++|+||||||++|+||+|+|+|+|+++++|+++||++||+++++....++|++++||+||+||+||+++++++|+
T Consensus        82 ~elG~v~P~IrIrDn~~L~~~~Y~I~i~gv~v~~g~l~~~~lLai~~~~~~~~~~g~~~~ePafgl~a~WI~~~~~~~a~  161 (382)
T 3mix_A           82 LELGLVIPVVRIRDNIALQPNEYRLKIKGNEVAKGELLLDHYLAMSPTPEDDLIEGIETVEPSFGLPAKWISEAVKDEAD  161 (382)
T ss_dssp             HHHSCCCCCCEEEECTTSCTTEEEEEETTEEEEEEECCTTCCBC------------------------------------
T ss_pred             HHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEECCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHH
T ss_conf             97198789469997877888859999988998641356661111178765445788303278888751775776787999


Q ss_pred             HCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             28990705889999999999998799987299999999997666489999863115998999999999997498654699
Q gi|254780512|r  472 RQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLP  551 (692)
Q Consensus       472 ~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr  551 (692)
                      .+|||||||.+||+||+++++|+||+||+||||||+|+|.++++||+||||++|+++|++.+|+|||+||+|+|||||++
T Consensus       162 ~~G~tvvd~~~ViaTHL~evir~~a~ellgrqevq~LLd~l~~~~p~LVeelvp~~l~l~~i~~VLq~LL~E~VsIRdl~  241 (382)
T 3mix_A          162 MLGYTVVDPASVVSTHITEKIKQHAHELIGRQETKQLIDHLKESYPVLVEEVTPNPLSVGDIQKVLAKLLKEKVSIRNLV  241 (382)
T ss_dssp             ----CCBCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHCHHHHHHHTTTTCCHHHHHHHHHHHHHTTCCCCCHH
T ss_pred             HCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             77985763344899999999999699996999999999999877579999875557798999999999987786353599


Q ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHH
Q ss_conf             9999998753357998999999999989998652077-884899988878999999983037778846456698899999
Q gi|254780512|r  552 LILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMF  630 (692)
Q Consensus       552 ~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l  630 (692)
                      +|||||+||++++|||+.||||||++|+||||++|.+ +|.|+|++|+|+||++++++++++++|++  +++||+..+++
T Consensus       242 tIlEtLad~a~~~kd~~~LtE~VR~~L~r~I~~~~~~~~~~L~vi~L~p~lE~~l~~s~~~~~~g~~--l~l~P~~~~~l  319 (382)
T 3mix_A          242 TIFETLADYGKLTTDSDLLTEYTRQALAKQITAQFAKENEVLKVVTCSGRVEKAIADGVQQTEHGNY--LSLEPDISESI  319 (382)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHTHHHHHHHHCCTTSCEECBEECHHHHHHHHHHBC------C--BCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCCC--CCCCHHHHHHH
T ss_conf             9999999872147999999999999999999998568987158997398999999998762378885--56598999999


Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             99999999999956998799828335489999988644898189440178996579888609
Q gi|254780512|r  631 SENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       631 ~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      ++++++.++++...|.+|||+|||++||++|+|+++++|+++||||+||+++++++++|+|+
T Consensus       320 ~~~~~~~~~~~~~~g~~pVllvs~~iR~~l~~l~~~~~p~l~VLS~~EI~~~~~i~~ig~V~  381 (382)
T 3mix_A          320 VRSVAKEAEQLSLRQETAILLCSPPVRMYVKQLLERYFPDLPVLSYNELEANVEVQSIGVVD  381 (382)
T ss_dssp             HHHHHHHHHHHHHTTCCCCEEECHHHHHHHHHHHTTTCTTCCEEEGGGSCTTCCEECSCEEC
T ss_pred             HHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHCCCCEEEEHHHCCCCCCEEEEEEEE
T ss_conf             99999999999964998599978106799999999868998697055459998158999997


No 2  
>3a5i_A Flagellar biosynthesis protein FLHA; four domains, thioredoxin-like fold, bacterial flagellum BIO bacterial flagellum protein export; 2.80A {Salmonella typhimurium}
Probab=100.00  E-value=0  Score=751.23  Aligned_cols=338  Identities=25%  Similarity=0.435  Sum_probs=328.0

Q ss_pred             CCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEE
Q ss_conf             6753001002460122101-111123457552688999999999998098788324454377898716999748245348
Q gi|254780512|r  348 QHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAIS  426 (692)
Q Consensus       348 ~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~g  426 (692)
                      +.+|+.....|++++++|| +++++|.+++++|++||+++||++|+||||++|+||||||++|+||+|+|+|+|+++++|
T Consensus        48 e~sw~dv~~vd~i~levGy~Li~lvd~~~gg~Ll~RI~~iRk~~a~elG~vvP~I~IrDnl~L~p~~Y~I~i~Gv~va~g  127 (389)
T 3a5i_A           48 EATWNDVQLEDSLGMEVGYRLIPMVDFQQDGELLGRIRSIRKKFAQDMGFLPPVVHIRDNMDLQPARYRILMKGVEIGSG  127 (389)
T ss_dssp             CCCGGGCCCCCSEEEEECGGGTTTTCSSSCCHHHHHHHHHHHHHHHHTSSCCCCEEEEECTTSCTTEEEEEETTEEEEEE
T ss_pred             CCCHHHCCCCCEEEEEECCCHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEE
T ss_conf             56621166555079997414286638778970899999999999997198789568971798999868999998999998


Q ss_pred             EECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             84178341330588876788741014766883034397884588828990705889999999999998799987299999
Q gi|254780512|r  427 ELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVK  506 (692)
Q Consensus       427 ei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq  506 (692)
                      +++||++||+++++....++|++++||+||+||+||+++++++|+..|||||||.+||+||+++++|+||+||||+||||
T Consensus       128 ~l~p~~~Lai~~~~~~~~l~G~~t~ePafGl~A~WI~~~~~~~A~~~Gytvvd~~tViaTHL~evlr~~a~eLlgrqevq  207 (389)
T 3a5i_A          128 DAYPGRWLAINPGTAAGTLPGEKTVDPAFGLDAIWIESALKEQAQIQGFTVVEASTVVATHLNHLIGQFSAELFGRQEAQ  207 (389)
T ss_dssp             ECCTTEEEEECCSSCCCCCSSEEEECSSSCCEEEEEESTTHHHHHHTTCEEEEHHHHHHHHHHHHHHHTTTTTCCHHHHH
T ss_pred             EECCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHH
T ss_conf             86377079888998757778732455689987288688777688767987971687999999999998699882899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999766648999986311599899999999999749865469999999987533579989999999999899986520
Q gi|254780512|r  507 NLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDL  586 (692)
Q Consensus       507 ~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~  586 (692)
                      +|||+++++||+||||++|+++|++.+|+|||+||+|+||||||++|||||+||++++|||+.||||||++|+||||++|
T Consensus       208 ~LLd~l~~~~p~LVeelvp~~lsl~~i~~VLq~LL~E~VsIRdl~tIlEtLae~a~~~kd~~~LtE~VR~aL~r~I~~~~  287 (389)
T 3a5i_A          208 QLLDRVSQEMPKLTEDLVPGVVTLTTLHKVLQNLLAEKVPIRDMRTILETLAEHAPLQSDPHELTAVVRVALGRAITQQW  287 (389)
T ss_dssp             HHHHHHHTTCHHHHHTTTTTTSCHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHGGGCCCHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999876657999975305779999999999999789628789999999998731579999999999999999999986


Q ss_pred             CC-CCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHH
Q ss_conf             77-88489998887899999998303777884645669889999999999999999956998799828335489999988
Q gi|254780512|r  587 AP-TGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILE  665 (692)
Q Consensus       587 ~~-~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle  665 (692)
                      .+ +|.|+|++|+|+||+++++++++++       +++|+..++++++++++++++...|.+|||+|||++||++|++++
T Consensus       288 ~~~~g~L~vi~L~p~lE~~l~~si~~~~-------~L~P~~~~~l~~~~~~~~~~~~~~g~~pVLlvs~~iR~~l~~ll~  360 (389)
T 3a5i_A          288 FPGNEEVQVIGLDTALERLLLQALQGGG-------GLEPGLADRLLAQTQEALSRQEMLGAPPVLLVNHALRPLLSRFLR  360 (389)
T ss_dssp             SCTTCCEECBCCCTTHHHHHHHHHHSSS-------CCCTTHHHHHHHHHHHHHHHHHHHTCCCEEEECTTTHHHHHHHHT
T ss_pred             CCCCCCEEEEEECHHHHHHHHHHHCCCC-------CCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHH
T ss_conf             1767713899978799999999750568-------899799999999999999999965999799928517899999999


Q ss_pred             HHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             644898189440178996579888609
Q gi|254780512|r  666 RNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       666 ~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      +++|+++||||+||+++++|+++|+|+
T Consensus       361 ~~~p~l~VLS~~EI~~~~~i~~vg~Ig  387 (389)
T 3a5i_A          361 RSLPQLVVLSNLELSDNRHIRMTATIG  387 (389)
T ss_dssp             TTCTTCEEEETTTSCTTCCEECCCCCS
T ss_pred             HHCCCCEEECHHHCCCCCEEEEEEEEC
T ss_conf             868998796355459997069999836


No 3  
>3myd_A Flagellar biosynthesis protein FLHA; flagellar export, type III secretion, cytoplasmic FRAG protein transport; 2.40A {Helicobacter pylori}
Probab=100.00  E-value=0  Score=729.51  Aligned_cols=343  Identities=27%  Similarity=0.450  Sum_probs=328.7

Q ss_pred             CCCCCCCHHHCCCCCHHHHCC-CCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEE
Q ss_conf             676753001002460122101-1111234575526889999999999980987883244543778987169997482453
Q gi|254780512|r  346 QNQHSAQLNFITSGVELVLGS-LVSNRLLSSQEDLFLRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVA  424 (692)
Q Consensus       346 ~~~~~~~~~~~~~~i~l~lg~-li~l~~~~~~~~L~~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va  424 (692)
                      +.+..+......|++++++|| +++++|.+++++|.+||+++||+++.||||++|+||||||.+|+||+|+|+|+|++++
T Consensus        17 ~~e~~~~~~l~vd~l~le~Gy~Li~lvd~~~g~~L~~rI~~iR~~la~elG~~lP~Irirdn~~L~~~~Y~I~i~gv~v~   96 (365)
T 3myd_A           17 EEEQAIDEVLKIEFLELALGYQLISLADMKQGGDLLERIRGIRKKIASDYGFLMPQIRIRDNLQLPPTHYEIKLKGIVIG   96 (365)
T ss_dssp             -CCCHHHHHHCCCCEEEEECGGGGGGTCGGGTCCHHHHHHTHHHHHHHHHCCCCCCCEEEECTTSCTTEEEEEETTEEEE
T ss_pred             CCCCCHHHCCCCCEEEEEECCCHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEE
T ss_conf             43158655356670799975462855185669858999999999999980998895689857989998789998865676


Q ss_pred             EEEECCCCEEEECCCCCCCCCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             48841783413305888767887410147668830343978845888289907058899999999999987999872999
Q gi|254780512|r  425 ISELRVGEVLVILGSGQKPTFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKD  504 (692)
Q Consensus       425 ~gei~~~~lLai~~~~~~~~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qE  504 (692)
                      +|+++||++||+++++....++|++++||+||++|+||+++++++|+.+|||+|||++|++||+++++|+||+||||+||
T Consensus        97 ~g~l~~~~~lai~~~~~~~~i~G~~~~eP~fgl~a~WI~~~~~~~a~~~G~tvvd~~~Vi~tHl~evi~~~a~ellgrqE  176 (365)
T 3myd_A           97 EGMVMPDKFLAMNTGFVNREIEGIPTKEPAFGMDALWIDAKNKEEAIIQGYTIIDPSTVIATHTSELVKKYAEDFITKDE  176 (365)
T ss_dssp             EEECCTTSEEEECSSCCSSCCCSEEEECTTTCCEEEEECGGGHHHHHHTTCEEECHHHHHHHHHHHHHHHTGGGGCCHHH
T ss_pred             EEECCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHH
T ss_conf             52036874773078765555788655687777661247876589999759858858999999999999996999859999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHH
Q ss_conf             99999997666489999863115998999999999997498654699999999875335-79989999999999899986
Q gi|254780512|r  505 VKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPH-SRKTSHIVEQVRIRMAQQIC  583 (692)
Q Consensus       505 vq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~-~kD~~~LtE~VR~aL~R~I~  583 (692)
                      ||+|+|+++++||+||||  |+++|++++|+|||+||+|+|||||+++|||||+||+++ +||++.||||||++|+||||
T Consensus       177 v~~LLd~l~~~~p~LVeE--p~~v~l~~i~~VLq~LL~E~VsIRdl~~IlEaLad~a~~~~~d~~~LtE~VR~aL~r~I~  254 (365)
T 3myd_A          177 VKSLLERLAKDYPTIVEE--SKKIPTGAIRSVLQALLHEKIPIKDMLTILETITDIAPLVQNDVNILTEQVRARLSRVIT  254 (365)
T ss_dssp             HHHHHHHHHTTCHHHHHH--GGGSCHHHHHHHHHHHHHTTCCCCCHHHHHHHHHHHGGGGTTCHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHCHHHHHH--HHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             999999997668688731--320889999999999997687073789999999987301469999999999999999999


Q ss_pred             HHHC-CCCEEEEEEECHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCE-EEEECHHHHHHHH
Q ss_conf             5207-7884899988878999999983037778846456698899999999999999999569987-9982833548999
Q gi|254780512|r  584 GDLA-PTGILNILKLGNHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPL-TIVTLPEIRSYIR  661 (692)
Q Consensus       584 ~~~~-~~g~L~vi~L~p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~p-VLl~s~~iRr~lr  661 (692)
                      ++|. ++|+|+|++|+|+||++++++++++++|++  ++++|+..+++++++++.++++...|..| ||+|||++||++|
T Consensus       255 ~~~~~~~g~L~vi~L~p~lE~~l~~~i~~~~~g~~--l~l~p~~~~~li~~v~~~~~~~~~~g~~pvVLl~s~~iRr~l~  332 (365)
T 3myd_A          255 NAFKSEDGRLKFLTFSTDSEQFLLNKLRENGTSKS--LLLNVGELQKLIEGVSEEAMKVLQKGIAPVILIVEPNLRKALS  332 (365)
T ss_dssp             HHHCCTTSEEEEEEECHHHHHHHHHTEEEETTEEE--ECCCHHHHHHHHHHHHHHHHHHHHTTCCSEEEEECHHHHHHHH
T ss_pred             HHHCCCCCCEEEEECCHHHHHHHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHHH
T ss_conf             98558888359998188999999998742577775--4579899999999999999999965899989988887899999


Q ss_pred             HHHHHHCCCCCEEEECCCCCCCEEEEEEEEC
Q ss_conf             9988644898189440178996579888609
Q gi|254780512|r  662 MILERNFPSLAVLSHMEIAKGLKVNILGTIS  692 (692)
Q Consensus       662 ~lle~~~p~l~VLS~~EI~~~~~i~~iG~Is  692 (692)
                      +++++++|+++||||+||+++++++++|+|+
T Consensus       333 ~ll~~~~p~l~VLS~~EI~~~~~v~~~g~V~  363 (365)
T 3myd_A          333 NQMEQARIDVVVLSHAELDPNSNFEALGTIH  363 (365)
T ss_dssp             HHHHHHTCCEEEEEGGGCCTTSEEEEEEEEC
T ss_pred             HHHHHHCCCCEEECHHHCCCCCEEEEEEEEE
T ss_conf             9999877998696214249997058999996


No 4  
>2x49_A INVA, invasion protein INVA; protein transport, transport, pathogenesis; 1.50A {Salmonella enterica subsp} PDB: 2x4a_A* 3lw9_A
Probab=100.00  E-value=0  Score=688.54  Aligned_cols=323  Identities=24%  Similarity=0.366  Sum_probs=314.9

Q ss_pred             CCCCCCCCCCCCCHH--HHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCEEEECCCCCCC
Q ss_conf             111112345755268--899999999999809878832445437789871699974824534884178341330588876
Q gi|254780512|r  366 SLVSNRLLSSQEDLF--LRVSKIRRKFAVQYGFIVPEIKVTTDISLPEKGYTIRVYGTTVAISELRVGEVLVILGSGQKP  443 (692)
Q Consensus       366 ~li~l~~~~~~~~L~--~rI~~iRk~la~elG~~iP~IrIrDn~~L~~~~Y~I~I~Gv~va~gei~~~~lLai~~~~~~~  443 (692)
                      +++++++.+++++|.  .+|+++||+++.|+||++|+||||||.+|+||+|+|+|+|+++++|+++||++||+++++...
T Consensus         9 PLi~lv~~~~~~~l~~~~~i~~iR~~la~elG~vlP~IrirDn~~L~~~~Y~I~i~gv~va~g~~~~~~lla~~~~~~~~   88 (333)
T 2x49_A            9 PLILLVPKSRREDLEKAQLAERLRSQFFIDYGVRLPEVLLRDGEGLDDNSIVLLINEIRVEQFTVYFDLMRVVNYSDEVV   88 (333)
T ss_dssp             CEEEEECHHHHHHHHHTTHHHHHHHHHHHHHSSCCCCEEEEECTTCCTTEEEEEETTEEEEEEECCTTSEEETTCCTHHH
T ss_pred             CEEEECCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCEEEEEECCEEEEEEEECCCCCCCCCCCCCCC
T ss_conf             52684174340445676799999999999819878827997579899987999988899999996578414568876544


Q ss_pred             CCCCCEEECCCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78874101476688303439788458882899070588999999999999879998729999999999766648999986
Q gi|254780512|r  444 TFPGDEVKEPAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEET  523 (692)
Q Consensus       444 ~l~G~~~~eP~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~El  523 (692)
                      .++|++++||+||+||+||+++++++|+.+|||++||.+|++||+++++|+|++||+|+||||+|+|+++++||+||||+
T Consensus        89 ~~~g~~~~~p~~g~~a~WI~~~~~~~a~~~G~tvvd~~~vi~tHl~evl~~~a~ellgrqev~~LLd~l~~~~P~LVeEl  168 (333)
T 2x49_A           89 SFGINPTIHQQGSSQYFWVTHEEGEKLRELGYVLRNALDELYHCLAVTLARNVNEYFGIQETKHMLDQLEAKFPDLLKEV  168 (333)
T ss_dssp             HTTCCCEEEEETTEEEEEECHHHHHHHHTTTCCEEEHHHHHHHHHHHHHHHTGGGTCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             57887666778886459737435899986798676346679999999999979998189999999998876648999876


Q ss_pred             HHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECHHHHH
Q ss_conf             31159989999999999974986546999999998753357998999999999989998652077884899988878999
Q gi|254780512|r  524 CSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQVRIRMAQQICGDLAPTGILNILKLGNHWDM  603 (692)
Q Consensus       524 vp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~VR~aL~R~I~~~~~~~g~L~vi~L~p~lE~  603 (692)
                      +| ++|++++|+|||+||+|+|||||+++|+|||+||++++|||+.||||||++|+||||++|+++|.|+|++|+|+||+
T Consensus       169 ~~-~v~l~~i~~VLq~LL~E~VsIRdl~~IlEtLad~~~~~~d~~~LtE~VR~aL~r~I~~~~~~~g~l~vi~l~p~lE~  247 (333)
T 2x49_A          169 LR-HATVQRISEVLQRLLSERVSVRNMKLIMEALALWAPREKDVINLVEHIRGAMARYICHKFANGGELRAVMVSAEVED  247 (333)
T ss_dssp             HT-TSCHHHHHHHHHHHHTTTCCCCCHHHHHHHHHHHTTTCCCHHHHHHHHHHHTHHHHHHHHHTTSCEEEEECCHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECHHHHH
T ss_conf             44-79989999999999858973755999999999873136999999999999999999997467995589991879999


Q ss_pred             HHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHCCCCCEEEECCCCCCC
Q ss_conf             99998303777884645669889999999999999999956998799828335489999988644898189440178996
Q gi|254780512|r  604 IFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKGIPLTIVTLPEIRSYIRMILERNFPSLAVLSHMEIAKGL  683 (692)
Q Consensus       604 ~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g~~pVLl~s~~iRr~lr~lle~~~p~l~VLS~~EI~~~~  683 (692)
                      .++++++++++|++  +++||+..+++++++++.++++..+|.+||++|||++||++|+++++++|+++||||+||++++
T Consensus       248 ~l~~~i~~~~~~~~--l~l~p~~~~~l~~~~~~~~~~~~~~g~~pVll~s~~iRr~l~~ll~~~~~~l~VLS~~EI~~~~  325 (333)
T 2x49_A          248 VIRKGIRQTSGSTF--LSLDPEASANLMDLITLKLDDLLIAHKDLVLLTSVDVRRFIKKMIEGRFPDLEVLSFGEIADSK  325 (333)
T ss_dssp             HHHHHEEECSSCEE--ECCCHHHHHHHHHHHHHHHTTCCSCGGGCEEEECTTTHHHHHHHHTTTCTTCEEEETGGGTTCC
T ss_pred             HHHHHHHCCCCCCC--CCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHCCCCEEECHHHCCCCC
T ss_conf             99986531478875--5779699999999999999999964999799988888999999999868998696035459997


Q ss_pred             EEEEEEEE
Q ss_conf             57988860
Q gi|254780512|r  684 KVNILGTI  691 (692)
Q Consensus       684 ~i~~iG~I  691 (692)
                      +++++|+|
T Consensus       326 ~v~vvg~I  333 (333)
T 2x49_A          326 SVNVIKTI  333 (333)
T ss_dssp             CEEEEEEC
T ss_pred             EEEEEEEC
T ss_conf             24898869


No 5  
>2hbt_A EGL nine homolog 1; prolyl hydroxylase, hypoxia inducible factor, HIF, 2- oxoglutarate, oxygenase, oxidoreductase; HET: UN9; 1.60A {Homo sapiens} PDB: 2hbu_A* 2g1m_A* 3hqu_A* 3hqr_A* 2g19_A*
Probab=48.98  E-value=10  Score=15.57  Aligned_cols=33  Identities=12%  Similarity=0.347  Sum_probs=26.4

Q ss_pred             CCCCHHHHHHHH---HHHC-------CCCCHHHHHHHHHHHHH
Q ss_conf             037603454787---8764-------89998999999999986
Q gi|254780512|r  156 DAIPGKQMAIDA---DLSS-------GLIEEEEAKRRRKELEE  188 (692)
Q Consensus       156 DamPGKQMaIDa---Dl~a-------G~I~~~eA~~rR~~l~~  188 (692)
                      .-||-.||++|.   +|++       +.++++++++-|++++.
T Consensus         7 ~~~~~~~~~~~~~~~~L~~~Gy~VIDnFL~~e~~~~l~~e~~~   49 (247)
T 2hbt_A            7 HHLPALKLALEYIVPCMNKHGICVVDDFLGKETGQQIGDEVRA   49 (247)
T ss_dssp             --CCHHHHHHHTHHHHHHHTSEEEESSSSCHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCHHHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHH
T ss_conf             5688010369999999974899999998999999999999998


No 6  
>2pl1_A Transcriptional regulatory protein PHOP; CHEY-like fold, response regulator, beryllium fluoride, transcription factor, activated, virulence; 1.90A {Escherichia coli} SCOP: c.23.1.1 PDB: 2pkx_A
Probab=48.62  E-value=3.5  Score=19.03  Aligned_cols=14  Identities=14%  Similarity=0.223  Sum_probs=6.2

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780512|r  627 VEMFSENATNSIRQ  640 (692)
Q Consensus       627 ~~~l~~~i~~~~~~  640 (692)
                      .+.+...++..+++
T Consensus       105 ~~~L~~~i~~~lrR  118 (121)
T 2pl1_A          105 IEEVMARMQALMRR  118 (121)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999999757


No 7  
>3ol3_A Putative uncharacterized protein; tuberculosis, RV0543C, ortholog, iodide ION S phasing, structural genomics; HET: PG4 PGE; 1.95A {Mycobacterium smegmatis} PDB: 3ol4_A
Probab=41.48  E-value=13  Score=14.76  Aligned_cols=74  Identities=14%  Similarity=0.217  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf             9999999997666489---------99986311599899999999999749---86546999999998753357998999
Q gi|254780512|r  503 KDVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLAEH---VSIRNLPLILESIAEVAPHSRKTSHI  570 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~E~---VsIRdlr~IlEaLad~a~~~kD~~~L  570 (692)
                      .-.++.+++|+.-||+         |+ -++.+.++-.++.+|-+.|++++   -+| +---|=+.|.+...+...++. 
T Consensus        11 ~~l~siv~WLRAGYP~GVP~~D~vPLL-ALLrR~LtedeV~~Va~~l~~~~~~~~~i-~~~dI~~~I~~vt~~~P~~eD-   87 (107)
T 3ol3_A           11 TFMDNVLGWLHKGYPEGVPPKDYFALL-ALLKRSLTEDEVVRAAQAILRSTDGQSPV-TDDDIRNAVHQIIEKEPTAEE-   87 (107)
T ss_dssp             HHHHHHHHHHHHHCTTCBCGGGHHHHH-HHHTCCCCHHHHHHHHHHHHHHCCSSSCB-CHHHHHHHHHHHHSSCCCHHH-
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCCHHHH-HHHHCCCCHHHHHHHHHHHHHCCCCCCCC-CHHHHHHHHHHHHCCCCCHHH-
T ss_conf             999999999986899999988608999-99833499999999999997523788987-899999999998746989899-


Q ss_pred             HHHHHHHHH
Q ss_conf             999999989
Q gi|254780512|r  571 VEQVRIRMA  579 (692)
Q Consensus       571 tE~VR~aL~  579 (692)
                      .+.||.+|+
T Consensus        88 I~RV~arLa   96 (107)
T 3ol3_A           88 INQVAARLA   96 (107)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
T ss_conf             999999998


No 8  
>2qxy_A Response regulator; regulation of transcription, NYSGXRC, protein structure initiative II (PSI II), structural genomics; 1.95A {Thermotoga maritima}
Probab=39.78  E-value=3.7  Score=18.92  Aligned_cols=44  Identities=11%  Similarity=0.153  Sum_probs=19.0

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             70588999999999999879998729999999999766648999
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA  520 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV  520 (692)
                      +||....+...+.+.+++.-.+...-..-+.-++.+++..|.+|
T Consensus         9 iVDD~~~~~~~l~~~L~~~G~~v~~a~~g~eal~~l~~~~~dlv   52 (142)
T 2qxy_A            9 VVDESRITFLAVKNALEKDGFNVIWAKNEQEAFTFLRREKIDLV   52 (142)
T ss_dssp             EECSCHHHHHHHHHHHGGGTCEEEEESSHHHHHHHHTTSCCSEE
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEE
T ss_conf             99898999999999999879999998999999999985799999


No 9  
>2kvc_A Putative uncharacterized protein; structural genomics, seattle structural genomics center for infectious disease, ssgcid; NMR {Mycobacterium tuberculosis}
Probab=38.47  E-value=15  Score=14.43  Aligned_cols=72  Identities=19%  Similarity=0.203  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHH---------HHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             999999997666489---------99986311599899999999999749865469999999987533579989999999
Q gi|254780512|r  504 DVKNLISRLDPEYQK---------LAEETCSSHISYSGIQAVLKLLLAEHVSIRNLPLILESIAEVAPHSRKTSHIVEQV  574 (692)
Q Consensus       504 Evq~LLd~L~~~~P~---------LV~Elvp~~v~l~~i~~VLq~LL~E~VsIRdlr~IlEaLad~a~~~kD~~~LtE~V  574 (692)
                      -+++.+++|+.-||+         |+ -++.+.++=.++.+|-+.|.+++- | |-.-|=+.|.+...++..++. .+.|
T Consensus         7 ~l~siv~WLRAGYP~GVP~~D~~PLl-ALL~rrLtdeev~~Va~~L~~~~~-i-~~~dI~~~I~~vt~~~P~~eD-I~RV   82 (103)
T 2kvc_A            7 FLTSIVAWLRAGYPEGIPPTDSFAVL-ALLCRRLSHDEVKAVANELMRLGD-F-DQIDIGVVITHFTDELPSPED-VERV   82 (103)
T ss_dssp             HHHHHHHHHHHHCTTCCCHHHHHHHH-HHHTTTSCHHHHHHHHHHHHHHTS-S-CSSCHHHHHHSCCSSCSCHHH-HHHH
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCHHHH-HHHCCCCCHHHHHHHHHHHHHCCC-C-CHHHHHHHHHHHHCCCCCHHH-HHHH
T ss_conf             99999999986899998987708999-996588999999999999985289-8-799999999998636989899-9999


Q ss_pred             HHHHH
Q ss_conf             99989
Q gi|254780512|r  575 RIRMA  579 (692)
Q Consensus       575 R~aL~  579 (692)
                      |.+|+
T Consensus        83 ~arLa   87 (103)
T 2kvc_A           83 RARLA   87 (103)
T ss_dssp             HHHHG
T ss_pred             HHHHH
T ss_conf             99998


No 10 
>2yvy_A MGTE, Mg2+ transporter MGTE; membrane protein, transport protein; 2.30A {Thermus thermophilus HB8} PDB: 2yvz_A
Probab=38.11  E-value=15  Score=14.40  Aligned_cols=29  Identities=17%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             CEEEEECHHHHHHHHHHHHHHCCCCCEEE
Q ss_conf             87998283354899999886448981894
Q gi|254780512|r  647 PLTIVTLPEIRSYIRMILERNFPSLAVLS  675 (692)
Q Consensus       647 ~pVLl~s~~iRr~lr~lle~~~p~l~VLS  675 (692)
                      .+.+-...++.-..+.|.+..+..+||+-
T Consensus       209 ~~~v~~~~~~~eaa~~~~~~~l~~lPVVD  237 (278)
T 2yvy_A          209 VVYVRTDTDQEEVARLMADYDFTVLPVVD  237 (278)
T ss_dssp             CCCEETTSBHHHHHHHHHHHTCSEEEEEC
T ss_pred             CCEECCCCCHHHHHHHHHHCCCCEEEEEC
T ss_conf             73478999799999999974998898983


No 11 
>3crn_A Response regulator receiver domain protein, CHEY- like; structural genomics, signal regulator receiver domain; HET: PHD; 1.58A {Methanospirillum hungatei jf-1}
Probab=36.81  E-value=4.9  Score=17.96  Aligned_cols=49  Identities=6%  Similarity=0.158  Sum_probs=21.9

Q ss_pred             EEEEEEC--HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             8999888--78999999983037778846456698899999999999999999569
Q gi|254780512|r  592 LNILKLG--NHWDMIFYQAIQRDSKGECVDFNVEPRAVEMFSENATNSIRQYIDKG  645 (692)
Q Consensus       592 L~vi~L~--p~lE~~l~~~i~~t~~G~~~~l~l~P~~~~~l~~~i~~~~~~~~~~g  645 (692)
                      +|++.++  .+.+... .+++... -.|.   .-|-..+.+.+.+++.+++...+|
T Consensus        76 ~piI~lT~~~~~~~~~-~a~~~Ga-~~yl---~KP~~~~~L~~~i~~~L~~~~~eG  126 (132)
T 3crn_A           76 MKKIMVTGYASLENSV-FSLNAGA-DAYI---MKPVNPRDLLEKIKEKLDEQEKEG  126 (132)
T ss_dssp             SEEEEEESCCCHHHHH-HHHHTTC-SEEE---ESSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCHHHHH-HHHHCCC-CEEE---ECCCCHHHHHHHHHHHHHHHHCCC
T ss_conf             9899997659999999-9998799-8999---897999999999999999996179


No 12 
>1qle_D Cytochrome AA3, ccytochrome C oxidase; oxidoreductase/immune system, complex (oxidoreductase/antibody), electron transport; HET: HEA PC1; 3.0A {Paracoccus denitrificans} SCOP: f.23.8.1
Probab=36.21  E-value=14  Score=14.59  Aligned_cols=19  Identities=26%  Similarity=0.079  Sum_probs=14.1

Q ss_pred             CCHHHHHCCHHHHHHHHHH
Q ss_conf             2013453010589999999
Q gi|254780512|r  197 DGASKFVRGDAIASIIITA  215 (692)
Q Consensus       197 DGA~KFVkGDAiAgiiI~~  215 (692)
                      ||=+|||+--+|+-+.+++
T Consensus        18 ~gFik~~t~~~i~~i~~li   36 (43)
T 1qle_D           18 AGFIKGATWVSILSIAVLV   36 (43)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
T ss_conf             8999999999999999999


No 13 
>1h16_A Formate acetyltransferase 1; lyase, glycyl radical enzyme, acyltransferase, acetylation; HET: COA PG4; 1.53A {Escherichia coli} SCOP: c.7.1.1 PDB: 1h17_A* 1h18_A* 1mzo_A* 2pfl_A 3pfl_A 1cm5_A 1qhm_A
Probab=34.64  E-value=17  Score=14.01  Aligned_cols=11  Identities=9%  Similarity=0.277  Sum_probs=6.8

Q ss_pred             HHHHHHHHHCC
Q ss_conf             99999886448
Q gi|254780512|r  659 YIRMILERNFP  669 (692)
Q Consensus       659 ~lr~lle~~~p  669 (692)
                      -+..+++.+|-
T Consensus       684 ~L~~llk~yf~  694 (759)
T 1h16_A          684 NLAGLMDGYFH  694 (759)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHC
T ss_conf             99999999971


No 14 
>1xhf_A DYE resistance, aerobic respiration control protein ARCA; two-component system, gene regulation, transcription factor, anoxic redox control; 2.15A {Escherichia coli} SCOP: c.23.1.1 PDB: 1xhe_A
Probab=34.03  E-value=6.6  Score=17.01  Aligned_cols=44  Identities=11%  Similarity=0.082  Sum_probs=17.8

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             70588999999999999879998729999999999766648999
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA  520 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV  520 (692)
                      +||....+...+.+.++.+-++...-...+.-++.+++..|.++
T Consensus         8 iVdDd~~~~~~l~~~L~~~g~~v~~a~~~~~al~~l~~~~~dli   51 (123)
T 1xhf_A            8 IVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSEYDINLV   51 (123)
T ss_dssp             EECSCHHHHHHHHHHHHTTTCEEEEESSHHHHHHHHHHSCCSEE
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE
T ss_conf             99699999999999999879999998999999999970899999


No 15 
>2ebk_A RWD domain-containing protein 3; alpha+beta sandwich fold, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=33.04  E-value=18  Score=13.83  Aligned_cols=52  Identities=13%  Similarity=0.219  Sum_probs=40.0

Q ss_pred             CCCCCCEEECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             7668830343978845888289907058899999999999987999872999999999976664899998
Q gi|254780512|r  453 PAFGMPAFAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLAEE  522 (692)
Q Consensus       453 P~fgl~A~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV~E  522 (692)
                      |.|.+.+.|+++.+...                  +.+.+...+.+++|-.-+=.|++++++.-.+++++
T Consensus        73 P~i~l~~~~L~~~~~~~------------------L~~~l~~~~~~~~G~~mif~lv~~lqe~l~~~i~~  124 (128)
T 2ebk_A           73 PGISINSEQLTRAQCVT------------------VKEKLLEQAESLLSEPMVHELVLWIQQNLRHILSQ  124 (128)
T ss_dssp             CCCCCCCSSSCHHHHHH------------------HHHHHHHHHHHTTTSCHHHHHHHHHTTSHHHHHCC
T ss_pred             CEEEEECCCCCHHHHHH------------------HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf             68999768799999999------------------99999999997289219999999999999998638


No 16 
>3c8y_A Iron hydrogenase 1; dithiomethylether, H-cluster, 4Fe-4S, iron-sulfur, metal-binding, oxidoreductase; HET: HCN; 1.39A {Clostridium pasteurianum} SCOP: c.96.1.1 d.15.4.2 d.58.1.5 PDB: 1c4c_A* 1c4a_A* 1feh_A*
Probab=32.37  E-value=18  Score=13.75  Aligned_cols=87  Identities=17%  Similarity=0.220  Sum_probs=51.1

Q ss_pred             CCCCCCE-EECCHHHHHHHHHCCCEEECHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH
Q ss_conf             7668830-34397884588828990705889999999999998799987299999-----------99999766648999
Q gi|254780512|r  453 PAFGMPA-FAIMESFSDDLRRQGFHPIDNLAVVLTHLSEVIRNNLSQLLSYKDVK-----------NLISRLDPEYQKLA  520 (692)
Q Consensus       453 P~fgl~A-~WI~~~~~~~a~~~G~tvvdp~~ViatHl~evir~~a~ellg~qEvq-----------~LLd~L~~~~P~LV  520 (692)
                      +.||++. ..........+...|+..|-..+.- ..+  ++...+.||+-|-+-+           .++.-.++.||+|+
T Consensus       239 ~~fg~~~~~~~~~kl~~aLk~lGf~~V~dt~~g-adl--~i~e~~~E~~~r~~~~~~~P~itS~CPg~V~~iEk~~Peli  315 (574)
T 3c8y_A          239 ELFNMGFGVDVTGKIYTALRQLGFDKIFDINFG-ADM--TIMEEATELVQRIENNGPFPMFTSCCPGWVRQAENYYPELL  315 (574)
T ss_dssp             GGGTCCSSCCCHHHHHHHHHHHTCSEEEEHHHH-HHH--HHHHHHHHHHHHHHHTCSCCEECCCCHHHHHHHHHHCGGGG
T ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCCEEEECHHH-HHH--HHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCHHHC
T ss_conf             651998315579999999998199799972478-899--99999999999986379987042479999999998680103


Q ss_pred             HHHHHCCCCHHHHH-HHHHHHHHC
Q ss_conf             98631159989999-999999974
Q gi|254780512|r  521 EETCSSHISYSGIQ-AVLKLLLAE  543 (692)
Q Consensus       521 ~Elvp~~v~l~~i~-~VLq~LL~E  543 (692)
                      .-+. ...|++.++ ..+++.+.+
T Consensus       316 p~Ls-~vkSP~~~~g~liK~~~~~  338 (574)
T 3c8y_A          316 NNLS-SAKSPQQIFGTASKTYYPS  338 (574)
T ss_dssp             GGBC-CBCCHHHHHHHHHTTHHHH
T ss_pred             CCCC-CCCCHHHHHHHHHHHHHHH
T ss_conf             7667-6401799999999997687


No 17 
>2zy9_A Mg2+ transporter MGTE; membrane protien, metal transport; 2.94A {Thermus thermophilus HB8} PDB: 2yvx_A
Probab=31.10  E-value=14  Score=14.54  Aligned_cols=24  Identities=8%  Similarity=0.281  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             899999999999749865469999
Q gi|254780512|r  530 YSGIQAVLKLLLAEHVSIRNLPLI  553 (692)
Q Consensus       530 l~~i~~VLq~LL~E~VsIRdlr~I  553 (692)
                      -|..+-+.|.|--.++..+|...+
T Consensus       355 tQs~tv~iR~la~g~i~~~~~~~~  378 (473)
T 2zy9_A          355 NQSATLIIRALATRDLDLRDWRRV  378 (473)
T ss_dssp             HHHHHHHHHHHHTTSSCGGGHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             999999999999715882139999


No 18 
>1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} SCOP: a.4.14.1
Probab=30.21  E-value=19  Score=13.50  Aligned_cols=52  Identities=15%  Similarity=0.069  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCH
Q ss_conf             9998729999999999766648999986311599899999999999749865
Q gi|254780512|r  496 LSQLLSYKDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVSI  547 (692)
Q Consensus       496 a~ellg~qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~VsI  547 (692)
                      |+.+.|...+..+++......-.|++.+--+-++.-....-+++|+.++.+-
T Consensus         4 A~~~ag~~~ipa~v~~~~~~~~~l~EN~qR~~l~~~e~A~~~~~l~~~g~t~   55 (178)
T 1r71_A            4 GSKWAGKKSIPAFIDNDYNEADQVIENLQRNELTPREIADFIGRELAKGKKK   55 (178)
T ss_dssp             -------------------CCHHHHHHHHTTCCCHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHCCCCCCCEEECCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCH
T ss_conf             8988499844458637755699999986506899999999999999817889


No 19 
>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.4.5.47
Probab=27.72  E-value=21  Score=13.20  Aligned_cols=52  Identities=23%  Similarity=0.412  Sum_probs=42.7

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHC
Q ss_conf             999988645751466655454420376034547878764899989999999999865222201220134530
Q gi|254780512|r  133 TINFIVITKGATRIAEVGARFTLDAIPGKQMAIDADLSSGLIEEEEAKRRRKELEEESAFFGAMDGASKFVR  204 (692)
Q Consensus       133 ivqfiVItkGa~RvaEV~ARFtLDamPGKQMaIDaDl~aG~I~~~eA~~rR~~l~~Es~fyGaMDGA~KFVk  204 (692)
                      -||||. .|---.+-|.||.|-|                   ..+++..|=++|+.+--..|-||---||+-
T Consensus        12 FI~~Ik-~~Kvv~LedLA~~F~l-------------------ktqd~i~RIq~Le~~g~ltGViDDRGKfIy   63 (72)
T 1wi9_A           12 FINYIK-KSKVVLLEDLAFQMGL-------------------RTQDAINRIQDLLTEGTLTGVIDDRGKFIY   63 (72)
T ss_dssp             HHHHHH-HCSEECHHHHHHHHCS-------------------CHHHHHHHHHHHHHHSSSCEEECTTCCEEE
T ss_pred             HHHHHH-HCCEEEHHHHHHHCCC-------------------CHHHHHHHHHHHHHCCCEEEEECCCCCEEE
T ss_conf             999999-8787639999988199-------------------759999999999987986557858988799


No 20 
>2rhf_A DNA helicase RECQ; HRDC, D. radiodurans, ATP-binding, hydrolase, nucleotide-binding; HET: DNA; 1.10A {Deinococcus radiodurans R1}
Probab=27.65  E-value=21  Score=13.19  Aligned_cols=27  Identities=22%  Similarity=0.414  Sum_probs=20.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             75526889999999999980987883244
Q gi|254780512|r  375 SQEDLFLRVSKIRRKFAVQYGFIVPEIKV  403 (692)
Q Consensus       375 ~~~~L~~rI~~iRk~la~elG~~iP~IrI  403 (692)
                      ...+|.++.+..|+++|.+.|+  |+..|
T Consensus         3 ~d~~L~~~L~~~R~~~A~~~~v--p~~~I   29 (77)
T 2rhf_A            3 HNADLSEALRELRRELMKETGY--SAFVV   29 (77)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCC--CHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHCCC--CCEEE
T ss_conf             4799999999999999987698--96565


No 21 
>1dvo_A FINO, fertility inhibition protein O; repressor, bacterial conjugation, X-RAY crystallography, transcription; 2.00A {Escherichia coli} SCOP: a.136.1.1
Probab=25.53  E-value=22  Score=13.11  Aligned_cols=44  Identities=9%  Similarity=0.181  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             99999999976664899998631159989999999999974986
Q gi|254780512|r  503 KDVKNLISRLDPEYQKLAEETCSSHISYSGIQAVLKLLLAEHVS  546 (692)
Q Consensus       503 qEvq~LLd~L~~~~P~LV~Elvp~~v~l~~i~~VLq~LL~E~Vs  546 (692)
                      +.++..+..|.+.||.+...--|+.+-+|..+++++.+-.++.+
T Consensus        39 ~~~~~ai~~L~~~~P~~F~~~~~kPLkiGI~edl~~~l~~~~~~   82 (152)
T 1dvo_A           39 PTLDEAVNTLKPWWPGLFDGDTPRLLACGIRDVLLEDVAQRNIP   82 (152)
T ss_dssp             CCHHHHHHHHTTTCGGGEETTEECCBCTTHHHHHHHHHHHTTCS
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             98999999999877875499999785054999999998851478


No 22 
>3cfy_A Putative LUXO repressor protein; structural genomics, unknown function, uncharacterized protein, signal receiver domain; 2.50A {Vibrio parahaemolyticus rimd 2210633}
Probab=25.37  E-value=4  Score=18.68  Aligned_cols=10  Identities=0%  Similarity=0.052  Sum_probs=3.4

Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999999
Q gi|254780512|r  629 MFSENATNSI  638 (692)
Q Consensus       629 ~l~~~i~~~~  638 (692)
                      .+...++..+
T Consensus       111 ~L~~~i~~~l  120 (137)
T 3cfy_A          111 RLKTSVALHL  120 (137)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9999999999


No 23 
>2job_A Antilipopolysaccharide factor; ALF, lipid A binding protein, endotoxin, lipid binding protein; NMR {Penaeus monodon}
Probab=24.71  E-value=24  Score=12.82  Aligned_cols=30  Identities=17%  Similarity=0.248  Sum_probs=14.3

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q ss_conf             899999999999987-999872999999999
Q gi|254780512|r  481 LAVVLTHLSEVIRNN-LSQLLSYKDVKNLIS  510 (692)
Q Consensus       481 ~~ViatHl~evir~~-a~ellg~qEvq~LLd  510 (692)
                      ..++-.-....+++- .+.|++.+|.+.+|+
T Consensus        71 sgvv~~a~rDFV~KA~~~gLiTeedA~~wL~  101 (102)
T 2job_A           71 SGVAGKTAKDFVRKAFQKGLISQQEANQWLS  101 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             0025468999999999848865999998864


No 24 
>3bej_E Nuclear receptor coactivator 1; FXR, BAR, NR1H4, bIle acid receptor, NHR, alternative splicing, DNA-binding, metal-binding nucleus, repressor; HET: MUF; 1.90A {Homo sapiens} PDB: 1fm9_B* 1k74_B* 1fm6_B* 1p8d_C* 1rdt_B* 1nrl_C* 3ipq_B* 3ips_C* 3ipu_C* 3kmg_B* 2hfp_B* 1k7l_B*
Probab=24.53  E-value=24  Score=12.80  Aligned_cols=19  Identities=26%  Similarity=0.254  Sum_probs=15.3

Q ss_pred             CCHHHHHHHHHHHHHCCCC
Q ss_conf             9989999999999974986
Q gi|254780512|r  528 ISYSGIQAVLKLLLAEHVS  546 (692)
Q Consensus       528 v~l~~i~~VLq~LL~E~Vs  546 (692)
                      -++..-+++|.|||+|+-|
T Consensus         6 ~sl~erhkilhrllqe~~p   24 (26)
T 3bej_E            6 SSLTERHKILHRLLQEGSP   24 (26)
T ss_pred             CHHHHHHHHHHHHHHCCCC
T ss_conf             0288999999999982699


No 25 
>2hqv_A AGR_C_4470P; NESG, ATR92, Q7CX01_AGRT5, structural genomics, PSI-2, protein structure initiative; 2.00A {Agrobacterium tumefaciens str} SCOP: e.62.1.2
Probab=24.52  E-value=15  Score=14.31  Aligned_cols=17  Identities=6%  Similarity=-0.185  Sum_probs=7.4

Q ss_pred             EEEEEEECCCCEEEECC
Q ss_conf             45348841783413305
Q gi|254780512|r  422 TVAISELRVGEVLVILG  438 (692)
Q Consensus       422 ~va~gei~~~~lLai~~  438 (692)
                      ++-.+....+.+-.+++
T Consensus       101 ~~~~~~~~~g~~Nl~~~  117 (195)
T 2hqv_A          101 HLPEGTESHGWFNIHGD  117 (195)
T ss_dssp             CCCCEEEETTEEEECSS
T ss_pred             CCCCCEECCCEEEEECC
T ss_conf             67895015744676258


No 26 
>1zgz_A Torcad operon transcriptional regulatory protein TORR; two-component system, gene regulation, transcription factor, TMAO respiratory system; 1.80A {Escherichia coli} SCOP: c.23.1.1
Probab=24.11  E-value=14  Score=14.47  Aligned_cols=15  Identities=7%  Similarity=0.096  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHHHHH
Q ss_conf             999999999999999
Q gi|254780512|r  626 AVEMFSENATNSIRQ  640 (692)
Q Consensus       626 ~~~~l~~~i~~~~~~  640 (692)
                      ..+.+...+++.+++
T Consensus       105 ~~~~L~~~i~~~l~R  119 (122)
T 1zgz_A          105 ELRELVVRVKNLLWR  119 (122)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
T ss_conf             999999999999987


No 27 
>1jhn_A Calnexin; jelly-roll, beta sandwich, chaperone; 2.90A {Canis lupus familiaris} SCOP: b.29.1.12 b.104.1.1
Probab=20.98  E-value=28  Score=12.31  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=19.5

Q ss_pred             CCCEEEEEECCEEEEEEEECCCC
Q ss_conf             98716999748245348841783
Q gi|254780512|r  410 PEKGYTIRVYGTTVAISELRVGE  432 (692)
Q Consensus       410 ~~~~Y~I~I~Gv~va~gei~~~~  432 (692)
                      +.++|.|+|+|..+.+|.+.-+.
T Consensus       201 pdntyeI~IDg~~v~~GsL~~df  223 (424)
T 1jhn_A          201 PDNSFEILVDQSIVNSGNLLNDM  223 (424)
T ss_dssp             TTTEEEEEETTEEEEEEC-----
T ss_pred             CCCEEEEEECCCEEECCCCHHCC
T ss_conf             99839999788063145440014


No 28 
>1zh2_A KDP operon transcriptional regulatory protein KDPE; two-component system, gene regulation, transcription factor, KDP potassium transport system; 2.00A {Escherichia coli} SCOP: c.23.1.1 PDB: 1zh4_A
Probab=20.83  E-value=11  Score=15.43  Aligned_cols=14  Identities=7%  Similarity=0.223  Sum_probs=5.6

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99999999999999
Q gi|254780512|r  627 VEMFSENATNSIRQ  640 (692)
Q Consensus       627 ~~~l~~~i~~~~~~  640 (692)
                      .+.+...++..+++
T Consensus       105 ~~~L~~~i~~~lrr  118 (121)
T 1zh2_A          105 IGELQARLRVALRR  118 (121)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99999999999887


No 29 
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD subdomain; structural genomics, oceanospirillum SP. MED92, PSI-2; 2.10A {Neptuniibacter caesariensis}
Probab=20.78  E-value=25  Score=12.65  Aligned_cols=44  Identities=14%  Similarity=0.261  Sum_probs=17.9

Q ss_pred             EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             70588999999999999879998729999999999766648999
Q gi|254780512|r  477 PIDNLAVVLTHLSEVIRNNLSQLLSYKDVKNLISRLDPEYQKLA  520 (692)
Q Consensus       477 vvdp~~ViatHl~evir~~a~ellg~qEvq~LLd~L~~~~P~LV  520 (692)
                      +||....+...+.+.+++.-.+...-...+.-++.+++..|.+|
T Consensus        12 iVDDd~~~~~~l~~~L~~~g~~v~~a~~~~~Al~~l~~~~~dli   55 (154)
T 2rjn_A           12 LVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLV   55 (154)
T ss_dssp             EECSCHHHHHHHHHHHHTTTCEEEEESCHHHHHHHHTTSCCSEE
T ss_pred             EEECCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEE
T ss_conf             99799999999999999879989998999999999862899889


No 30 
>2bw2_A Bypass of forespore C; sporulation, signaling protein, BOFC, sigmak checkpoint; NMR {Bacillus subtilis}
Probab=20.59  E-value=28  Score=12.31  Aligned_cols=23  Identities=9%  Similarity=0.078  Sum_probs=9.6

Q ss_pred             CCCEEECCHHHHHHHHHCCCEEEC
Q ss_conf             883034397884588828990705
Q gi|254780512|r  456 GMPAFAIMESFSDDLRRQGFHPID  479 (692)
Q Consensus       456 gl~A~WI~~~~~~~a~~~G~tvvd  479 (692)
                      ..+.--.++..+++++. |+.+-+
T Consensus       102 ~I~v~~Lp~~~qe~L~~-GI~~~s  124 (140)
T 2bw2_A          102 QIDLERLESHMQKNLLK-GIPFRT  124 (140)
T ss_dssp             CCCTTTSCHHHHHHHHH-CCSCCC
T ss_pred             CCCHHHCCHHHHHHHHC-CCCCCC
T ss_conf             51669889879999988-986299


Done!