Query         gi|254780855|ref|YP_003065268.1| NADH dehydrogenase subunit D [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 396
No_of_seqs    127 out of 1943
Neff          9.2 
Searched_HMMs 13730
Date          Wed Jun  1 10:33:22 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780855.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 d2fug41 e.18.1.2 (4:35-409) NA 100.0       0       0  643.1  13.5  375   18-396     1-375 (375)
  2 d1yq9h1 e.18.1.1 (H:7-536) Nic 100.0       0       0  590.1  29.7  382   10-394     2-528 (530)
  3 d1cc1l_ e.18.1.1 (L:) Nickel-i 100.0       0       0  586.4  31.1  383    9-394     1-485 (487)
  4 d1frfl_ e.18.1.1 (L:) Nickel-i 100.0       0       0  585.9  30.9  385    7-394     6-541 (543)
  5 d1wuil1 e.18.1.1 (L:19-552) Ni 100.0       0       0  579.7  31.9  386    6-394     2-532 (534)
  6 d1e3db_ e.18.1.1 (B:) Nickel-i 100.0       0       0  570.2  32.4  384    7-394     6-535 (537)
  7 d1ffvc1 d.87.2.1 (C:178-287) C  76.9     1.8 0.00013   19.2   6.1   35   26-60     23-63  (110)
  8 d1vqza1 d.224.1.3 (A:242-329)   74.7     1.6 0.00011   19.6   3.8   49   22-71     16-68  (88)
  9 d1t3qc1 d.87.2.1 (C:177-285) Q  64.0     3.4 0.00025   17.3   4.5   36   26-61     21-62  (109)
 10 d1v97a4 d.87.2.1 (A:415-528) X  62.9     3.6 0.00026   17.1   6.1   36   26-61     24-67  (114)
 11 d1xjsa_ d.224.1.2 (A:) NifU {B  61.2     3.3 0.00024   17.4   3.1   51   23-101    44-94  (147)
 12 d1jroa3 d.87.2.1 (A:346-462) X  54.9     4.9 0.00035   16.2   4.6   38   25-62     22-65  (117)
 13 d1n62c1 d.87.2.1 (C:178-286) C  53.1     5.2 0.00038   16.0   6.9   35   26-60     23-63  (109)
 14 d1x2ga1 d.224.1.3 (A:247-337)   47.2     6.3 0.00046   15.4   7.2   65   22-104    16-84  (91)
 15 d1rm6b1 d.87.2.1 (B:217-323) 4  42.6       6 0.00044   15.6   2.0   37   24-60     22-62  (107)
 16 d1ufia_ a.30.4.1 (A:) Dimerisa  38.6     6.5 0.00048   15.3   1.7   13  106-118    27-39  (48)
 17 d1wfza_ d.224.1.2 (A:) Iron-su  37.9     8.7 0.00063   14.4   4.2   41   22-66     35-86  (130)
 18 d1su0b_ d.224.1.2 (B:) IscU ho  36.6     9.1 0.00066   14.3   4.6   52   23-102    38-89  (136)
 19 d1r9pa_ d.224.1.2 (A:) NifU-li  35.8     9.4 0.00068   14.2   4.1   39   23-65     40-89  (134)
 20 d1jpma2 d.54.1.1 (A:1-125) L-A  35.0     9.6  0.0007   14.1   4.3   38   49-88     70-107 (125)
 21 d2ntka1 d.153.2.1 (A:1-202) Hy  29.6     6.9  0.0005   15.2   0.6   14  368-381   167-180 (202)
 22 d1t8ka_ a.28.1.1 (A:) Acyl car  28.5      12 0.00089   13.4   2.0   57   55-112    16-75  (77)
 23 d1u07a_ d.212.1.2 (A:) TonB {E  26.8      13 0.00095   13.2   3.4   27  338-364    25-51  (90)
 24 d2chra2 d.54.1.1 (A:1-126) Chl  26.4      13 0.00096   13.2   1.9   38   49-88     71-108 (126)
 25 d1o98a1 c.105.1.1 (A:77-310) 2  24.9      14   0.001   13.0   1.5   67  109-175    46-127 (234)
 26 d1yeya2 d.54.1.1 (A:2-140) RTS  21.3      16  0.0012   12.5   4.1   47   24-70     34-90  (139)
 27 d1ah9a_ b.40.4.5 (A:) Translat  21.0      17  0.0012   12.5   1.4   40   14-55     10-49  (71)

No 1  
>d2fug41 e.18.1.2 (4:35-409) NADH-quinone oxidoreductase chain 4, Nqo4 {Thermus thermophilus [TaxId: 274]}
Probab=100.00  E-value=0  Score=643.13  Aligned_cols=375  Identities=45%  Similarity=0.805  Sum_probs=339.1

Q ss_pred             CCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf             66677559999983998999998804115788987409898785544312123448889999999999983885788899
Q gi|254780855|r   18 PAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQ   97 (396)
Q Consensus        18 ~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~gi~vp~~a~   97 (396)
                      |..|||+|++++||||+|+||++++|++|||||+||+||+|+|++.||+|||||||+||++|+++|+|+|+|++||++++
T Consensus         1 p~~hG~~r~~~~v~ge~V~~a~~~ig~~~RGfEk~l~Gr~~~da~~i~~RICGIC~~aH~~A~~~AlE~a~gv~~p~~a~   80 (375)
T d2fug41           1 PSTHGVLRLMVTLSGEEVLEVVPHIGYLHTGFEKTMEHRTYLQNITYTPRMDYLHSFAHDLAYALAVEKLLGAVVPPRAE   80 (375)
T ss_dssp             CEEECSSSCEEEECCSSSCCEEEECCTTCCCHHHHGGGSCHHHHHHHGGGTTSSSHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             CCCCCEEEEEEEECCCEEEEEEEEECCCCHHHHHHHCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHH
T ss_conf             99885289999976988999898306652689998749996882212063111038799999999999991998899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHH
Q ss_conf             99999999999998899987433430564189999999999997899755976476336536200078989999999999
Q gi|254780855|r   98 LIRVLYSEIGRILSHLLNVTTQAMDVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWC  177 (396)
Q Consensus        98 llR~Ll~~~e~i~sH~~h~~~l~~~~~~~~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~~~~~~~~~~~~~  177 (396)
                      ++|+|++++|+||||++|||+++.+++....+...+++++.++++++.++|+++|+++++|||+++.++...+..+...+
T Consensus        81 ~lR~l~~~~e~i~sH~l~~~~l~~~~~~~~~~~~~~~~r~~~~~~~~~~~G~~~h~~~~~~gG~~~~~~~~~~~~~~~~~  160 (375)
T d2fug41          81 TIRVILNELSRLASHLVFLGTGLLDLGALTPFFYAFRERETILDLFEWVTGQRFHHNYIRIGGVKEDLPEEFVPELKKLL  160 (375)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHTSSSSSCCCEETTEESSCCCTTHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEECCEECCCEEECCCHHHHHHHHHHH
T ss_conf             99999999988767999999834520024388899999899999999846865520521202302279867889999998


Q ss_pred             HHHHHHHHHHHHHHHCCHHHHHHHCCEEEECCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCEEECCCCCHH
Q ss_conf             99999999999998448333442122112303333102356651013676010210175443346775400101232012
Q gi|254780855|r  178 DSFPSALNDISDLLTGNRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAWDLRKSQPYECYSELDFDIPIGKHGDCYD  257 (396)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~~~g~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~  257 (396)
                      +...+.+.+..+++...+.+..++...+..........+..|+..+.+|.+.+.++..++..+...++...+...+++++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~  240 (375)
T d2fug41         161 EVLPHRIDEYEALFAESPIFYERARGVGVIPPEVAIDLGLTGGSLRASGVNYDVRKAYPYSGYETYTFDVPLGERGDVFD  240 (375)
T ss_dssp             TTTTTTTHHHHHHHSSCSCCTTSCSCCCCSSSCSTTTTTTCCSSCCSSCCTTTTTCCSSCCCC-----CCCCCCSSSSHH
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             76088778898740367500002577533451023315765554555642133120067554556565534424776432


Q ss_pred             HHHCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCC
Q ss_conf             21100011687589999999621035786720111123030448999975675430575557776158974899998895
Q gi|254780855|r  258 RYLVRMMEMRESVKIIRQCVNRLLGKNKVGPVSASDPKIVPPKRADMKRSMESLIHHFKLYTEGYHVPVGEVYAAVEAPK  337 (396)
Q Consensus       258 ~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~~~~~~~~~~~~~~G~GvG~vEAPR  337 (396)
                      +...+..+..++..+..+...+..................    ..+....+..........+.+++|+|+|+|+|||||
T Consensus       241 ~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~G~g~g~vEApR  316 (375)
T d2fug41         241 RMLVRIREMRESVKIIKQALERLEPGPVRDPNPQITPPPR----HLLETSMEAVIYHFKHYTEGFHPPKGEVYVPTESAR  316 (375)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSCCCSCCBCCCTTTSCCCT----TCTTTCTTHHHHHHHHHHSCCCCCSCCCCCCBCCSS
T ss_pred             CCHHHHHHHHCCHHHHHHHHHHCCCCCCCCCCHHHCCHHH----HHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCC
T ss_conf             1021344442146899989974889874434411033569----999755454101344456677689957999997488


Q ss_pred             CEEEEEEEECCCCCEEEEEEECCCCCCHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCC
Q ss_conf             11799999879980889998358756868899997088057599989760912055359
Q gi|254780855|r  338 GEFGVYLISDGGNKPYRCKIRAPGYAHLQAMEFLCKGHQLADVSAILGSLDIVFGEVDR  396 (396)
Q Consensus       338 G~L~H~~~~~~~g~i~~~~ii~PT~~N~~~~e~al~G~~i~D~~~iirSfDpC~sC~dr  396 (396)
                      |+|+|||++|++|+|++||||+||+||++++|++|+|++++|+++++||||||+|||||
T Consensus       317 G~L~H~~~~d~~g~i~~~~ii~PT~~N~~~~e~al~G~~i~D~~~iirSfDpC~sC~dr  375 (375)
T d2fug41         317 GELGYYIVSDGGSMPYRVKVRAPSFVNLQSLPYACKGEQVPDMVAIIASLDPVMGDVDR  375 (375)
T ss_dssp             SCBCEEEECCSSSSCSEEEECCSHHHHTTTHHHHTTTSCGGGTTHHHHTTCCCHHHHHC
T ss_pred             EEEEEEEEECCCCCEEEEEEECCCHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCCC
T ss_conf             67999999989981899999898877999999996799167899998567976447898


No 2  
>d1yq9h1 e.18.1.1 (H:7-536) Nickel-iron hydrogenase, large subunit {Desulfovibrio gigas [TaxId: 879]}
Probab=100.00  E-value=0  Score=590.06  Aligned_cols=382  Identities=16%  Similarity=0.130  Sum_probs=306.3

Q ss_pred             EEEECCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             98406868666775599999839989999988041157889874098987855443121234488899999999999838
Q gi|254780855|r   10 TINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLLG   89 (396)
Q Consensus        10 ~~~~gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~g   89 (396)
                      +|.|+|++ ++|||+++++++|||+|++|++ +|++|||||+||+||+|+|++.||+|||||||++|++|+++|+|+|+|
T Consensus         2 ki~I~Pit-RiEGh~~l~l~vd~g~V~~a~~-~~~~~RGfEk~l~Gr~~~d~~~it~RICGiC~~aH~~a~~~AvE~a~g   79 (530)
T d1yq9h1           2 KIVVDPIT-RIEGHLRIEVEVEGGKIKNAWS-MSTLFRGLEMILKGRDPRDAQHFTQRACGVCTYVHALASVRAVDNCVG   79 (530)
T ss_dssp             EEEECSCC-SSBSCEEEEEEEETTEEEEEEE-EECBCCCHHHHHTTSCGGGHHHHHHTTCSSSTTHHHHHHHHHHHHHHT
T ss_pred             CEEECCCC-CEEEEEEEEEEEECCEEEEEEE-CCCCCCHHHHHHCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHC
T ss_conf             52846877-2243389999983998999998-136662699997799988988774112114686899999999999819


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-------------------------------------------
Q ss_conf             8578889999999999999998899987433430564-------------------------------------------
Q gi|254780855|r   90 IEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL-------------------------------------------  126 (396)
Q Consensus        90 i~vp~~a~llR~Ll~~~e~i~sH~~h~~~l~~~~~~~-------------------------------------------  126 (396)
                      |+||++|++||+|++++|+||||++|||+|+.+|+..                                           
T Consensus        80 i~vp~~a~~lR~L~~~~e~i~sH~l~~~~l~~pD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (530)
T d1yq9h1          80 VKIPENATLMRNLTMGAQYMHDHLVHFYHLHALDWVNVANALNADPAKAARLANDLSPRKTTTESLKAVQAKVKALVESG  159 (530)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGTCCSGGGGGCCHHHHHHHHHHHCSSCCCHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             98898799999999999999999999998844100255334422768899875321743355589999999998887630


Q ss_pred             ----------------------------HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCC--HHHHHHHHHH
Q ss_conf             ----------------------------1899999999999978997559764763365362000789--8999999999
Q gi|254780855|r  127 ----------------------------TPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIP--PELVEDIGCW  176 (396)
Q Consensus       127 ----------------------------~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~~--~~~~~~~~~~  176 (396)
                                                  ..+.+++++|+.++++++.++|+++|+++++|||+++.++  ++.+.++...
T Consensus       160 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~al~~r~~~~~~~~~~~G~~~h~~~~v~GGv~~~~~~~~~~~~~~~~~  239 (530)
T d1yq9h1         160 QLGIFTNAYFLGGHPAYVLPAEVDLIATAHYLEALRVQVKAARAMAIFGAKNPHTQFTVVGGCTNYDSLRPERIAEFRKL  239 (530)
T ss_dssp             CCGGGTTCTTTTCCTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSSCCCEETTEECCGGGGSHHHHHHHHHH
T ss_pred             HCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEECEECCCCCCCHHHHHHHHHH
T ss_conf             02422354445788630156200023568899999999999999999848876567146571503466788999999999


Q ss_pred             HHHHHHHHHHHHHHHHC---------------------------CHHHHHHHCCEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99999999999999844---------------------------833344212211230333310235665101367601
Q gi|254780855|r  177 CDSFPSALNDISDLLTG---------------------------NRIFKQRNVNIGTVKLEDAWGWGFSGVMIRGSGAAW  229 (396)
Q Consensus       177 ~~~~~~~~~~~~~~~~~---------------------------~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~~~g~~~  229 (396)
                      ++...++.+...+.+..                           ......++...|.........+...|+..+.+++.+
T Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~~~G~~~~~~~~~~~~~~~~~~~e~v~~  319 (530)
T d1yq9h1         240 YKEVREFIEQVYITDLLAVAGFYKNWAGIGKTSNFLTCGEFPTDEYDLNSRYTPQGVIWGNDLSKVDDFNPDLIEEHVKY  319 (530)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTGGGGGSSCCCCEEECCBCCSSTTCGGGSSBCCEEECTTCTTCCBCCCGGGEEEECTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHCCCCCEEECCCCCCCCCCCHHHEEECCCH
T ss_conf             99999999987777899888888767764154432203655445552445136763378764231545673461421666


Q ss_pred             HHHHC----CCCCCCCCCCCCCEEECCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCCC-------------------CC
Q ss_conf             02101----75443346775400101232012211000116875899999996210357-------------------86
Q gi|254780855|r  230 DLRKS----QPYECYSELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGKN-------------------KV  286 (396)
Q Consensus       230 ~~r~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~-------------------~~  286 (396)
                      +.++.    +||..+....+.......+++|++.+.+....+++++++|+.+.......                   ..
T Consensus       320 s~~~~~~~~~p~~~~t~~~~~~~~~~~~ys~~k~p~~~~~~~evGplAR~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~  399 (530)
T d1yq9h1         320 SWYEGADAHHPYKGVTKPKWTEFHGEDRYSWMKAPRYKGEAFEVGPLASVLVAYAKKHEPTVKAVDLVLKTLGVGPEALF  399 (530)
T ss_dssp             TTBSSSCCBCGGGCCCCBCCCCTTGGGCCCSSCEEEETTBCCBCSHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCGGGGS
T ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCEECCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             87547754486456677775545666784012231245763202278999864033570479999998987188865568


Q ss_pred             CCCCCCCHHHCC--HHHHHHHHHHHHHHCCC-----CCCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCEEEEEEEC
Q ss_conf             720111123030--44899997567543057-----55577761589748999988951179999987998088999835
Q gi|254780855|r  287 GPVSASDPKIVP--PKRADMKRSMESLIHHF-----KLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRA  359 (396)
Q Consensus       287 ~~~~~~~~~~~~--~~~~~~~~~~e~l~~~~-----~~~~~~~~~~~G~GvG~vEAPRG~L~H~~~~~~~g~i~~~~ii~  359 (396)
                      .......++.+.  .+...+.++++.+....     +...+...+++|+|+|+||||||+|+||+++ +||+|++||||+
T Consensus       400 ~~~~r~~aR~~E~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~~GeG~G~vEApRG~L~H~~~~-~~G~I~~~~ii~  478 (530)
T d1yq9h1         400 STLGRTAARGIQCLTAAQEVEVWLDKLEANVKAGKDDLYTDWQYPTESQGVGFVNAPRGMLSHWIVQ-RGGKIENFQLVV  478 (530)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCBCCCCCCSEEEEEEEEEETTEEEEEEEEE-ETTEEEEEEEEC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCEEEEEEE-CCCEEEEEEEEC
T ss_conf             6054399999999999999999998413125556775446788999738999998877027999997-799899888989


Q ss_pred             CCCCCH---------HHHHHHHCCCCCCH------HHHHHHHCCCCCCCC
Q ss_conf             875686---------88999970880575------999897609120553
Q gi|254780855|r  360 PGYAHL---------QAMEFLCKGHQLAD------VSAILGSLDIVFGEV  394 (396)
Q Consensus       360 PT~~N~---------~~~e~al~G~~i~D------~~~iirSfDpC~sC~  394 (396)
                      ||+||+         +++|++|+|++++|      ++++|||||||+||+
T Consensus       479 PT~~N~~p~~~~~~~~~~e~al~g~~~~d~~~~~~i~~~iRs~DPC~sCa  528 (530)
T d1yq9h1         479 PSTWNLGPRCAEGKLSAVEQALIGTPIADPKRPVEILRTVHSYDPCIACG  528 (530)
T ss_dssp             HHHHHHCCCCTTCCCCHHHHHHTTCBCSCTTSCHHHHHHHHHTCCBHHHH
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCCC
T ss_conf             87111364444446039999836998788521766757861167750320


No 3  
>d1cc1l_ e.18.1.1 (L:) Nickel-iron hydrogenase, large subunit {Desulfomicrobium baculatum [TaxId: 899]}
Probab=100.00  E-value=0  Score=586.39  Aligned_cols=383  Identities=17%  Similarity=0.137  Sum_probs=293.4

Q ss_pred             EEEEECCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99840686866677559999983998999998804115788987409898785544312123448889999999999983
Q gi|254780855|r    9 FTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLL   88 (396)
Q Consensus         9 ~~~~~gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~   88 (396)
                      ++|.++|++ ++|||+++++++|||+|++|+++ +++|||||+||+||+|+|++.||+|||||||++|++|+++|+|+|+
T Consensus         1 ~kI~IdPvt-RiEGh~~l~v~vd~g~V~~a~~~-~~~~RGfEk~l~Gr~~~d~~~i~~RICGiC~~aH~lA~~~AvE~a~   78 (487)
T d1cc1l_           1 VKISIDPLT-RVEGHLKIEVEVKDGKVVDAKCS-GGMFRGFEQILRGRDPRDSSQIVQRICGVCPTAHCTASVMAQDDAF   78 (487)
T ss_dssp             CEEEESSCC-SSBSCEEEEEEEETTEEEEEEEE-ECBCCCHHHHTTTSCGGGHHHHGGGGCSSSHHHHHHHHHHHHHHHH
T ss_pred             CEEEECCCC-EEEEEEEEEEEECCCEEEEEEEC-CCCCCHHHHHHCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
T ss_conf             937968856-37536899999849989999981-3214269999779998898888504211358689999999999980


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-----------------------------------HHHHHHH
Q ss_conf             88578889999999999999998899987433430564-----------------------------------1899999
Q gi|254780855|r   89 GIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL-----------------------------------TPPLWGF  133 (396)
Q Consensus        89 gi~vp~~a~llR~Ll~~~e~i~sH~~h~~~l~~~~~~~-----------------------------------~~~~~~~  133 (396)
                      ||+||++|+++|+|++++|+||||++|||+|+.+++..                                   ..+.+++
T Consensus        79 gi~vp~~a~~lR~l~~~~e~i~sH~lh~~~l~~pD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~al  158 (487)
T d1cc1l_          79 GVKVTTNGRITRNLIFGANYLQSHILHFYHLAALDYVKGPDVSPFVPRYANADLLTDRIKDGAKADATNTYGLNQYLKAL  158 (487)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGTSCCCSSTTSCSCCTTCCCHHHHCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
T ss_conf             99889789999999999999999898898750203215644340000000046677776512332012346779999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HCCHHH-H---------HHHC
Q ss_conf             9999999789975597647633653620007898999999999999999999999998-448333-4---------4212
Q gi|254780855|r  134 EEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDIGCWCDSFPSALNDISDLL-TGNRIF-K---------QRNV  202 (396)
Q Consensus       134 ~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~---------~~~~  202 (396)
                      ++|+.++++++++||+++||++++|||++++++.+.+.++...++...+++....... .....+ .         ....
T Consensus       159 ~~r~~~~~i~~~~gG~~~h~~~~~pGGv~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (487)
T d1cc1l_         159 EIRRICHEMVAMFGGRMPHVQGMVVGGATEIPTADKVAEYAARFKEVQKFVIEEYLPLIYTLGSVYTDLFETGIGWKNVI  238 (487)
T ss_dssp             HHHHHHHHHHHHHHSSSSSCSSEETTEESSCCCHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHCGGGGSSCCCCCCEE
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             99999999999974998676864368747789999999999999999999997658999999987555654277732136


Q ss_pred             CEEEECCCCC--CCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCC--------------CEEECCCCCHHHHHCCCHHH
Q ss_conf             2112303333--1023566510136760102101754433467754--------------00101232012211000116
Q gi|254780855|r  203 NIGTVKLEDA--WGWGFSGVMIRGSGAAWDLRKSQPYECYSELDFD--------------IPIGKHGDCYDRYLVRMMEM  266 (396)
Q Consensus       203 ~~g~~~~~~~--~~~~~~G~~~~~~g~~~~~r~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~  266 (396)
                      ..|.+.....  ......|....+++..+|.+...+|..+...++.              ......+++|.+.+.+....
T Consensus       239 ~~g~~~~~~~~~~~~~~~g~~~~g~~~~~D~~~i~e~~~~~~~~~~~~~~~~~~~~~t~p~~~~~~~ys~~k~p~y~~~~  318 (487)
T d1cc1l_         239 AFGVFPEDDDYKTFLLKPGVYIDGKDEEFDSKLVKEYVGHSFFDHSAPGGLHYSVGETNPNPDKPGAYSFVKAPRYKDKP  318 (487)
T ss_dssp             ECCEEESSTTSCCEEECCEEEETTEEECCCGGGEEEECTTBTBCCSSSSCEEGGGCCCCBCTTCTTCCBSCCEEEETTBC
T ss_pred             EEECCCCCCCHHHHCCCCCEEECCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCEECCCCCCCCCCCHHCCCCCCCCC
T ss_conf             73022465434553247814765976044476640146603553367665575344111346765433100262017862


Q ss_pred             HHHHHHHHHHHHHHC-------------CCC----------CCCCCCCCCHHHCC--HHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             875899999996210-------------357----------86720111123030--44899997567543057555777
Q gi|254780855|r  267 RESVKIIRQCVNRLL-------------GKN----------KVGPVSASDPKIVP--PKRADMKRSMESLIHHFKLYTEG  321 (396)
Q Consensus       267 ~~s~~~~~~~~~~~~-------------~~~----------~~~~~~~~~~~~~~--~~~~~~~~~~e~l~~~~~~~~~~  321 (396)
                      +++++++|..+....             ...          .........++...  .+...+.++++.+..........
T Consensus       319 ~evGPlAR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~aR~~E~~~~~~~i~~~l~~~~~~~~~~~~~  398 (487)
T d1cc1l_         319 CEVGPLARMWVQNPELSPVGQKLLKELYGIEAKKFRDLGDKAFSIMGRHVLRAEETWLTAVAVEKWLKQVQPGAETYVKS  398 (487)
T ss_dssp             CBCSHHHHHHHHCCBCCHHHHHHHHHHHCCCCSBGGGGGGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHCCTTCCCBCCC
T ss_pred             CCCCHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             00379899986502127147999988643122321567764358699999999999999999999987378999744578


Q ss_pred             CCCCCCCEEEEEECCCCEEEEEEEECCCCCEEEEEEECCCCCCHH---------HHHHHHCCCCCCH------HHHHHHH
Q ss_conf             615897489999889511799999879980889998358756868---------8999970880575------9998976
Q gi|254780855|r  322 YHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRCKIRAPGYAHLQ---------AMEFLCKGHQLAD------VSAILGS  386 (396)
Q Consensus       322 ~~~~~G~GvG~vEAPRG~L~H~~~~~~~g~i~~~~ii~PT~~N~~---------~~e~al~G~~i~D------~~~iirS  386 (396)
                      ..+++|+|+|+||||||+|+|||+++ ||+|++||||+||+||++         ++|++|.|++++|      ++++|||
T Consensus       399 ~~p~~g~GvG~vEApRG~L~H~~~i~-~g~i~~~~ii~PT~~N~~p~~~~~~~~~~e~~l~g~~v~d~~~~~~~~~iirs  477 (487)
T d1cc1l_         399 EIPDAAEGTGFTEAPRGALLHYLKIK-DKKIENYQIVSATLWNANPRDDMGQRGPIEEALIGVPVPDIKNPVNVGRLVRS  477 (487)
T ss_dssp             CCCSSEEEEEEEEETTEEEEEEEEEE-TTEEEEEEEEETHHHHSCCCCTTCCCCHHHHHHTTCBCSCTTSCHHHHHHHHH
T ss_pred             CCCCCCEEEEEEECCCHHEEEEEEEE-CCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHC
T ss_conf             99999489999988970269999997-99898989988873235433422353399998479987785215679889731


Q ss_pred             CCCCCCCC
Q ss_conf             09120553
Q gi|254780855|r  387 LDIVFGEV  394 (396)
Q Consensus       387 fDpC~sC~  394 (396)
                      ||||+||+
T Consensus       478 ~DPCisCa  485 (487)
T d1cc1l_         478 YDPCLGCA  485 (487)
T ss_dssp             TCCBHHHH
T ss_pred             CCCCCCCC
T ss_conf             88651531


No 4  
>d1frfl_ e.18.1.1 (L:) Nickel-iron hydrogenase, large subunit {Desulfovibrio fructosovorans [TaxId: 878]}
Probab=100.00  E-value=0  Score=585.92  Aligned_cols=385  Identities=15%  Similarity=0.106  Sum_probs=290.5

Q ss_pred             CEEEEEECCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             15998406868666775599999839989999988041157889874098987855443121234488899999999999
Q gi|254780855|r    7 RSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEK   86 (396)
Q Consensus         7 ~~~~~~~gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~   86 (396)
                      .|-.|.|+|++ ++|||++++++||||+|++|+++ +++|||||+||+||+|+|++.||+|||||||++|++|+++|+|+
T Consensus         6 ~~~~I~IdPit-RiEGh~~l~v~vd~g~V~~a~~~-~~~~RGfEk~l~Gr~~~~~~~it~RICGIC~~aH~~A~~~AvE~   83 (543)
T d1frfl_           6 FTGPIVVDPIT-RIEGHLRIMVEVENGKVKDAWSS-SQLFRGLEIILKGRDPRDAQHFTQRACGVCTYVHALASSRCVDD   83 (543)
T ss_dssp             CCEEEEESSCC-SSBSCEEEEEEEETTEEEEEEEE-ECBCCCTHHHHTTSCGGGHHHHHGGGCSSSTTHHHHHHHHHHHH
T ss_pred             CCCCEEECCCC-CEEEEEEEEEEEECCEEEEEEEE-CCCCCHHHHHHCCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_conf             52026977877-32314899999839989999990-36675098986799988978775034310776899999999999


Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----------------------------------------
Q ss_conf             8388578889999999999999998899987433430564----------------------------------------
Q gi|254780855|r   87 LLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL----------------------------------------  126 (396)
Q Consensus        87 a~gi~vp~~a~llR~Ll~~~e~i~sH~~h~~~l~~~~~~~----------------------------------------  126 (396)
                      |+||+||++|++||+|++++++||||++|||+|+.+++..                                        
T Consensus        84 a~gi~vp~~A~~lR~L~~~~e~I~sH~lh~~~l~~pD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~  163 (543)
T d1frfl_          84 AVKVSIPANARMMRNLVMASQYLHDHLVHFYHLHALDWVDVTAALKADPNKAAKLAASIDTARTGNSEKALKAVQDKLKA  163 (543)
T ss_dssp             HHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHTTTGGGTCCGGGGGTSCHHHHHHHHHHHSCCCGGGSHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             82999897899999999999999988989998625042054112323411788986245655677757889999999998


Q ss_pred             ---------------------------------HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCC--CHHHHH
Q ss_conf             ---------------------------------189999999999997899755976476336536200078--989999
Q gi|254780855|r  127 ---------------------------------TPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDI--PPELVE  171 (396)
Q Consensus       127 ---------------------------------~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~--~~~~~~  171 (396)
                                                       ..+.+++++|+.++++++++||+++||++++|||+++++  +.+.+.
T Consensus       164 ~~~~g~~g~~~~~~~~gg~~~~~~~~~~~~~~~~~~~~a~~~r~~~~~i~~~l~G~~~h~~~~v~GGv~~~~~~~~~~~~  243 (543)
T d1frfl_         164 FVESGQLGIFTNAYFLGGHKAYYLPPEVNLIATAHYLEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLA  243 (543)
T ss_dssp             HHTTTCCGGGTTCTTTTCCTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSSCCCEETTEECCGGGGSHHHHH
T ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCEECCCCCCHHHHH
T ss_conf             87504456455433457872201773321013477899999999999999997499744572586617125668999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHH-HCCHHHHHHHCCEEE---------ECCCCCCCC-------CCCCCCC------------
Q ss_conf             99999999999999999998-448333442122112---------303333102-------3566510------------
Q gi|254780855|r  172 DIGCWCDSFPSALNDISDLL-TGNRIFKQRNVNIGT---------VKLEDAWGW-------GFSGVMI------------  222 (396)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~g~---------~~~~~~~~~-------~~~G~~~------------  222 (396)
                      +++..++...+++.+.+... .....+...+..++.         +........       ..+|...            
T Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~l~~g~~~~~~~~~~~~~~~~~~~~gv~~~~~~~~~~~~d~  323 (543)
T d1frfl_         244 NYLALSKEVCQFVNECYIPDLLAVAGFYKDWGGIGGTSNYLAFGEFATDDSSPEKHLATSQFPSGVITGRDLGKVDNVDL  323 (543)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHHHHHHTGGGGGSSCCSCEEECCEEESCCSSHHHHHHHEEECCEEECTTCTTCCBCCCT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCH
T ss_conf             99999999999999988889999999888776517854331121234666554345664335675276452654430456


Q ss_pred             -------CCCCCCCHHHHCCCCCCCCCCCCCCEEECCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCC------------
Q ss_conf             -------1367601021017544334677540010123201221100011687589999999621035------------
Q gi|254780855|r  223 -------RGSGAAWDLRKSQPYECYSELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGK------------  283 (396)
Q Consensus       223 -------~~~g~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~------------  283 (396)
                             ..|....+.....||......++.......+++|++.+.+.....++++++|+........            
T Consensus       324 ~~i~E~~~~s~y~~~~~~~~p~~~~t~p~~~~~~~~~~ys~~k~~~~~~~~~evGPlAR~~~~~~~~~~~~~~~~~~~~~  403 (543)
T d1frfl_         324 GAIYEDVKYSWYAPGGDGKHPYDGVTDPKYTKLDDKDHYSWMKAPRYKGKAMEVGPLARTFIAYAKGQPDFKKVVDMVLG  403 (543)
T ss_dssp             TTCEEECTTBTBCTTCTTBCGGGCCCCBCCCCTTCSSSCBSSCEEESSSSCCEESHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHCEECCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCHHHCCCEEECCHHHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             44364256401046766577645778777554444466302112333586011008899852010268434889987676


Q ss_pred             -------CCCCCCCCCCHHHCC--HHHHHHHHHHHHHH----CCCCCCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCC
Q ss_conf             -------786720111123030--44899997567543----05755577761589748999988951179999987998
Q gi|254780855|r  284 -------NKVGPVSASDPKIVP--PKRADMKRSMESLI----HHFKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGN  350 (396)
Q Consensus       284 -------~~~~~~~~~~~~~~~--~~~~~~~~~~e~l~----~~~~~~~~~~~~~~G~GvG~vEAPRG~L~H~~~~~~~g  350 (396)
                             ..........+++++  .+...+.++++.+.    ...........+++|+|+|+||||||+|+||++++ ||
T Consensus       404 ~~~~~~~~~~~~~~R~~AR~~E~~~s~~~i~~~i~~l~~~~~~~~~~~~~~~~p~~GeG~G~vEAPRG~L~H~~~i~-~G  482 (543)
T d1frfl_         404 KLSVPATALHSTLGRTAARGIETAIVCANMEKWIKEMADSGAKDNTLCAKWEMPEESKGVGLADAPRGSLSHWIRIK-GK  482 (543)
T ss_dssp             HHTCCSGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCBCCCCCCSSEEEEEEEEETTEEEEEEEEEE-TT
T ss_pred             HCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCHHCCCCCCCCCCCCCCCCCEEEEEEEECCCCCEEEEEEEE-CC
T ss_conf             41777665689499999999999999999999998433057778862577889997389999988870369999992-99


Q ss_pred             CEEEEEEECCCCCCHH---------HHHHHHCCCCCCH------HHHHHHHCCCCCCCC
Q ss_conf             0889998358756868---------8999970880575------999897609120553
Q gi|254780855|r  351 KPYRCKIRAPGYAHLQ---------AMEFLCKGHQLAD------VSAILGSLDIVFGEV  394 (396)
Q Consensus       351 ~i~~~~ii~PT~~N~~---------~~e~al~G~~i~D------~~~iirSfDpC~sC~  394 (396)
                      +|++||||+||+||++         ++|++|+|++++|      ++++|||||||+||+
T Consensus       483 ~I~~y~ii~PTt~N~~p~~~~~~~~~~e~al~g~~i~d~~~~~~i~~~iRs~DPC~sCa  541 (543)
T d1frfl_         483 KIDNFQLVVPSTWNLGPRGPQGDKSPVEEALIGTPIADPKRPVEILRTVHAFDPCIACG  541 (543)
T ss_dssp             EEEEEEEECHHHHHHCCCCTTCCCCHHHHHHTTCBCSCTTSCHHHHHHHHHTCCBHHHH
T ss_pred             EEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCCCCC
T ss_conf             89998898877021254444455459999847998788741777868883468760421


No 5  
>d1wuil1 e.18.1.1 (L:19-552) Nickel-iron hydrogenase, large subunit {Desulfovibrio vulgaris [TaxId: 881]}
Probab=100.00  E-value=0  Score=579.72  Aligned_cols=386  Identities=15%  Similarity=0.104  Sum_probs=287.9

Q ss_pred             CCEEEEEECCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             61599840686866677559999983998999998804115788987409898785544312123448889999999999
Q gi|254780855|r    6 SRSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVE   85 (396)
Q Consensus         6 ~~~~~~~~gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE   85 (396)
                      +.|-.|.|+|+. ++|||+++++++|||+|++|++. |++|||||+||+||+|+|++.||+|||||||++|++|+++|+|
T Consensus         2 ~~~~~i~IdPit-RiEG~~~l~l~~d~g~V~~a~~~-~~~~RGfEk~l~gr~~~d~~~it~RICGiC~~aH~~a~~~AvE   79 (534)
T d1wuil1           2 SYSGPIVVDPVT-RIEGHLRIEVEVENGKVKNAYSS-STLFRGLEIILKGRDPRDAQHFTQRTCGVCTYTHALASTRCVD   79 (534)
T ss_dssp             CCCEEEEESSCC-SSBSCEEEEEEEETTEEEEEEEE-ECBCCCHHHHHTTSCGGGHHHHHHTTCSSSTTHHHHHHHHHHH
T ss_pred             CCCCCEEECCCC-EEEEEEEEEEEEECCEEEEEEEC-CCCCCHHHHHHCCCCHHHHHHHHCCCEEECHHHHHHHHHHHHH
T ss_conf             856647977856-26545899999839989999982-4566319898679997896655341003178689999999999


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC---------------------------------------
Q ss_conf             98388578889999999999999998899987433430564---------------------------------------
Q gi|254780855|r   86 KLLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL---------------------------------------  126 (396)
Q Consensus        86 ~a~gi~vp~~a~llR~Ll~~~e~i~sH~~h~~~l~~~~~~~---------------------------------------  126 (396)
                      +|+||+||++|++||+|++++|+||||++|||+|+.+++..                                       
T Consensus        80 ~a~Gi~vP~~a~~lR~L~~~~e~I~sH~l~~~~l~~pD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~  159 (534)
T d1wuil1          80 NAVGVHIPKNATYIRNLVLGAQYLHDHIVHFYHLHALDFVDVTAALKADPAKAAKVASSISPRKTTAADLKAVQDKLKTF  159 (534)
T ss_dssp             HHHTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGTCCTGGGGGCCHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH
T ss_conf             99399879889999999999999999999999874530024532333575779998753165323426799988999888


Q ss_pred             --------------------------------HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCC--CHHHHHH
Q ss_conf             --------------------------------189999999999997899755976476336536200078--9899999
Q gi|254780855|r  127 --------------------------------TPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDI--PPELVED  172 (396)
Q Consensus       127 --------------------------------~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~--~~~~~~~  172 (396)
                                                      .++.+++++|+.++++++++||+++||++++|||+++.+  +...++.
T Consensus       160 ~~~~~~~p~~~~~~~~g~~~~~~~~~~~~~~~~~~~~a~~~r~~~~~i~~~~~G~~~h~~~~~pGGv~~~~~~~~~~~~~  239 (534)
T d1wuil1         160 VETGQLGPFTNAYFLGGHPAYYLDPETNLIATAHYLEALRLQVKAARAMAVFGAKNPHTQFTVVGGVTCYDALTPQRIAE  239 (534)
T ss_dssp             HHTTCCGGGTTCTTTTCCTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSSSCCCEETTEECCGGGGSHHHHHH
T ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCHHCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCCHHHHHH
T ss_conf             76411477665434578751346701011356789999999999999999982887444521026522578899899999


Q ss_pred             HHHHHHHHHHHHHHHHHHH-----HCCHHHH----------------------HHHCCEEEECCCCCCCCCCCCCCCCCC
Q ss_conf             9999999999999999998-----4483334----------------------421221123033331023566510136
Q gi|254780855|r  173 IGCWCDSFPSALNDISDLL-----TGNRIFK----------------------QRNVNIGTVKLEDAWGWGFSGVMIRGS  225 (396)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~----------------------~~~~~~g~~~~~~~~~~~~~G~~~~~~  225 (396)
                      +...++....+.....+..     ..+..+.                      .++...|.............++....+
T Consensus       240 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~G~~~~~~~~~~~~~d~~~i~e  319 (534)
T d1wuil1         240 FEALWKETKAFVDEVYIPDLLVVAAAYKDWTQYGGTDNFITFGEFPKDEYDLNSRFFKPGVVFKRDFKNIKPFDKMQIEE  319 (534)
T ss_dssp             HHHHHHHHHHHHHHTHHHHHHHHHHHTGGGGGSCCCSCEEEEEEEESSTTCGGGEEEEEEEESTTCTTSCBCCCGGGEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHCCCCCCCCCCCCCCCCCCCHHHCEECCCEEECCCCCEECCCCHHHHEE
T ss_conf             99999999999999888899998775401565178644120100456555301121037568868765112457256101


Q ss_pred             CCCCHHH----HCCCCCCCCCCCCCCEEECCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCCC--------------C---
Q ss_conf             7601021----017544334677540010123201221100011687589999999621035--------------7---
Q gi|254780855|r  226 GAAWDLR----KSQPYECYSELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLGK--------------N---  284 (396)
Q Consensus       226 g~~~~~r----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~--------------~---  284 (396)
                      ++..+..    ..+||.......+.......+++|++.+.+....++.++++|.........              .   
T Consensus       320 ~v~~s~y~~~~~~~P~~~~t~p~~~~~~~~~~ysw~kapry~g~~~evGPlAR~~~~~~~~~~~~~~~~~~~~~~~~~~~  399 (534)
T d1wuil1         320 HVRHSWYEGAEARHPWKGQTQPKYTDLHGDDRYSWMKAPRYMGEPMETGPLAQVLIAYSQGHPKVKAVTDAVLAKLGVGP  399 (534)
T ss_dssp             ECTTBTBSSSCCBCGGGCCCCBCCCCTTBTTBCBSSCEEEETTBCCBCSHHHHHHHHHHTTCHHHHHHHHHHHHHHTCCG
T ss_pred             CCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCC
T ss_conf             47188744775457666777766333465555323115522785303028899986655338211678787898529886


Q ss_pred             --CCCCCCCCCHHHCC--HHHHHHHHHHHHHHCC----CCCCCCCC-CCCCCCEEEEEECCCCEEEEEEEECCCCCEEEE
Q ss_conf             --86720111123030--4489999756754305----75557776-158974899998895117999998799808899
Q gi|254780855|r  285 --KVGPVSASDPKIVP--PKRADMKRSMESLIHH----FKLYTEGY-HVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRC  355 (396)
Q Consensus       285 --~~~~~~~~~~~~~~--~~~~~~~~~~e~l~~~----~~~~~~~~-~~~~G~GvG~vEAPRG~L~H~~~~~~~g~i~~~  355 (396)
                        .........+++.+  .+...++++++.+...    ...+..+. .+++|+|+|++|||||+|+||++++ ||+|++|
T Consensus       400 ~~~~~~~~R~~aR~~E~~~s~~~~~~~l~~l~~~~~~~~~~~~~p~~~p~~GeG~g~vEApRG~L~H~~~i~-~G~I~~y  478 (534)
T d1wuil1         400 EALFSTLGRTAARGIETAVIAEYVGVMLQEYKDNIAKGDNVICAPWEMPKQAEGVGFVNAPRGGLSHWIRIE-DGKIGNF  478 (534)
T ss_dssp             GGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCBCCCCCCSSEEEEEEEEETTEEEEEEEEEE-TTEEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCEEEEEEEE-CCEEEEE
T ss_conf             556888999999999999999999999997464034578640278779997189999988874289999980-9989898


Q ss_pred             EEECCCCCCHH---------HHHHHHCCCCCCH------HHHHHHHCCCCCCCC
Q ss_conf             98358756868---------8999970880575------999897609120553
Q gi|254780855|r  356 KIRAPGYAHLQ---------AMEFLCKGHQLAD------VSAILGSLDIVFGEV  394 (396)
Q Consensus       356 ~ii~PT~~N~~---------~~e~al~G~~i~D------~~~iirSfDpC~sC~  394 (396)
                      |||+||+||++         ++|++|+|++++|      ++++|||||||+||+
T Consensus       479 ~ii~PT~~N~~p~~~~~~~~~~e~~l~g~~v~d~~~~~~i~~~iRsfDPCisCa  532 (534)
T d1wuil1         479 QLVVPSTWTLGPRCDKNKLSPVEASLIGTPVADAKRPVEILRTVHSFDPCIACG  532 (534)
T ss_dssp             EEECHHHHHHCCCCTTCCCCHHHHHHTTCBCSCTTSCHHHHHHHHHTCCBHHHH
T ss_pred             EEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCCC
T ss_conf             897977010553332455449999827998788630665656640057861532


No 6  
>d1e3db_ e.18.1.1 (B:) Nickel-iron hydrogenase, large subunit {Desulfovibrio desulfuricans [TaxId: 876]}
Probab=100.00  E-value=0  Score=570.15  Aligned_cols=384  Identities=15%  Similarity=0.126  Sum_probs=277.8

Q ss_pred             CEEEEEECCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             15998406868666775599999839989999988041157889874098987855443121234488899999999999
Q gi|254780855|r    7 RSFTINFGPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEK   86 (396)
Q Consensus         7 ~~~~~~~gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~   86 (396)
                      .|-.|.|.|++ ++|||+++++++|||+|++|+++ +++|||||+||+||+|+|+++||+|||||||++|++|+++|+|+
T Consensus         6 ~~~~I~I~P~t-RiEGh~~l~v~~d~g~V~~a~~~-~~~~RGfEk~l~Gr~~~~~~~it~RICGIC~~sH~~a~~~AvE~   83 (537)
T d1e3db_           6 YTGPIVVDPLT-RIEGHLRIEVEVEGGVIKEARSC-ATLFRGIETILKGRDPRDAQHFTQRTCGVCTYTHALASTRCLED   83 (537)
T ss_dssp             CCEEEEESSCC-SSBSCEEEEEEEETTEEEEEEEE-ECBCCCHHHHHTTSCGGGHHHHHHTTCSTTTTHHHHHHHHHHHH
T ss_pred             CCCCEEECCCC-CEEEEEEEEEEEECCEEEEEEEE-EECCCHHHHHHCCCCHHHHHHHHCCHHEECHHHHHHHHHHHHHH
T ss_conf             64025987866-32335899999829989999992-20463198986799978977663412140886899999999999


Q ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----------------------------------------
Q ss_conf             8388578889999999999999998899987433430564----------------------------------------
Q gi|254780855|r   87 LLGIEIPIRGQLIRVLYSEIGRILSHLLNVTTQAMDVGAL----------------------------------------  126 (396)
Q Consensus        87 a~gi~vp~~a~llR~Ll~~~e~i~sH~~h~~~l~~~~~~~----------------------------------------  126 (396)
                      |+|++||++|++||+|++++|+||||++|||+|+.+++..                                        
T Consensus        84 a~gi~~P~~a~~lR~L~~~~e~i~sH~lh~~~l~~pD~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (537)
T d1e3db_          84 AINKPIPANATYIRNLVLGNQFMHDHLVHFYHLHALDFVDVTSALLADPAKAAKLANSISPRKATTEEFAAVQAKLKTFV  163 (537)
T ss_dssp             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGTCCTTGGGGSCHHHHHHHHHHHCSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             80999998899999999999999999999998725211034334435736799986402752246388999877777776


Q ss_pred             -------------------------------HHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCC--CCCHHHHHHH
Q ss_conf             -------------------------------1899999999999978997559764763365362000--7898999999
Q gi|254780855|r  127 -------------------------------TPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQ--DIPPELVEDI  173 (396)
Q Consensus       127 -------------------------------~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~--~~~~~~~~~~  173 (396)
                                                     ..+.+++++|+.++++++++||+++||++++|||+++  .++.+.++++
T Consensus       164 ~~g~~~p~~~~~~~~g~~~~~~~~~~~~~~~~~~l~al~~r~~~~~i~~~~gG~~~h~~~~~pGGv~~~~~l~~~~l~~~  243 (537)
T d1e3db_         164 ASGQLGPFTNAYFLGGHEGYYMDPEANLVCTAHYLQALRAQVEVAKGMAVFGAKNPHTQFTVAGGVTCYEALTPERIKQF  243 (537)
T ss_dssp             HTSCCGGGTTCTTTTCCTTCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCSSSCCCEETTEECCGGGGSHHHHHHH
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEECCCEECCCCCCHHHHHHH
T ss_conf             53013765320002676201367022146788899999999999999998617877703143475612666999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH--HCCHHHHHHHCCEEE---------ECCCCCCC-----CCCCCCC-CC--CCCCCCHHH--
Q ss_conf             999999999999999998--448333442122112---------30333310-----2356651-01--367601021--
Q gi|254780855|r  174 GCWCDSFPSALNDISDLL--TGNRIFKQRNVNIGT---------VKLEDAWG-----WGFSGVM-IR--GSGAAWDLR--  232 (396)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~g~---------~~~~~~~~-----~~~~G~~-~~--~~g~~~~~r--  232 (396)
                      ...++...++.+..+...  .....+.+ +...|.         +.......     +...|.. .+  .....+|..  
T Consensus       244 ~~~l~~~~~~~e~~~~~d~~~~~~~~~~-~~~~g~~~~~~s~g~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~d~~~i  322 (537)
T d1e3db_         244 RELYVKARAFIEEVYIPDLLLVASYYKD-WGKIGGTNNFMAFGEFPAPGGERDLNSRWYKPGVIYDRKVGSVQPFDPSKI  322 (537)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHCGG-GGGSSCCSCEEEEEECCCTTCTTCGGGSSEEEEEECTTCGGGCBCCCGGGE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCCCCEEEECCCCCCCCCCCHHHHCCCCCEEEECCCCCCCCCCHHHC
T ss_conf             9999999999999888999999987666-875278454022335346665542122012686688257773012568864


Q ss_pred             -HCCCCCCCC-----------CCCCCCEEECCCCCHHHHHCCCHHHHHHHHHHHHHHHHHCC------------------
Q ss_conf             -017544334-----------67754001012320122110001168758999999962103------------------
Q gi|254780855|r  233 -KSQPYECYS-----------ELDFDIPIGKHGDCYDRYLVRMMEMRESVKIIRQCVNRLLG------------------  282 (396)
Q Consensus       233 -~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~------------------  282 (396)
                       ++.++++|.           ...+........++|...+.+....++.++++|........                  
T Consensus       323 ~e~v~~s~y~~~~~~p~~~~t~P~~~~~~~~~~ys~~k~~~y~g~~~evGPlAR~~~~~~~~~~~~~~~~~~~~~~~~~~  402 (537)
T d1e3db_         323 EEHVRHSWYEGKARAPFEGETNPHFTFMGDTDKYSWNKAPRYDGHAVETGPLAQMLVAYGHNHKTIKPTIDAVLGKLNLG  402 (537)
T ss_dssp             EEECTTBTBCSCCBCGGGCCCCBCCCCTTCSSSCBSSCEEEETTBCCBCSHHHHHHHHHHTTCTTHHHHHHHHHHHHTCC
T ss_pred             CCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHCCCC
T ss_conf             14564233056666886676567743345333542022411148865346998876255547500006678899871988


Q ss_pred             -CCCCCCCCCCCHHHCC--HHHHHHHHHHHHHHCC----CCCCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCEEEE
Q ss_conf             -5786720111123030--4489999756754305----75557776158974899998895117999998799808899
Q gi|254780855|r  283 -KNKVGPVSASDPKIVP--PKRADMKRSMESLIHH----FKLYTEGYHVPVGEVYAAVEAPKGEFGVYLISDGGNKPYRC  355 (396)
Q Consensus       283 -~~~~~~~~~~~~~~~~--~~~~~~~~~~e~l~~~----~~~~~~~~~~~~G~GvG~vEAPRG~L~H~~~~~~~g~i~~~  355 (396)
                       ...........+++++  .+...+.++++.+...    .+.......+++|+|+|++|||||+|+||++++ ||+|++|
T Consensus       403 ~~~~~~~~~R~~aR~~E~~~~~e~~~~~l~~l~~~~~~~~~~~~~~~~p~~G~G~G~vEAPRG~L~H~~~~~-~G~I~~~  481 (537)
T d1e3db_         403 PEALFSTLGRTAARGIQTLVIAQQMENWLNEYENNIVKDKQIVEDYAVPTSARGVGFADVSRGGLSHWMTIE-DGKIDNF  481 (537)
T ss_dssp             GGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCBCCCCCCSSEEEEEEEEETTEEEEEEEEEE-TTEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEEEC-CCEEEEE
T ss_conf             655788175499999999999999999998776258889823177889998679999998786589999983-9989899


Q ss_pred             EEECCCCCCH---------HHHHHHHCCCCCCH------HHHHHHHCCCCCCCC
Q ss_conf             9835875686---------88999970880575------999897609120553
Q gi|254780855|r  356 KIRAPGYAHL---------QAMEFLCKGHQLAD------VSAILGSLDIVFGEV  394 (396)
Q Consensus       356 ~ii~PT~~N~---------~~~e~al~G~~i~D------~~~iirSfDpC~sC~  394 (396)
                      |||+||+||+         +++|.+|.|++++|      ++++|||||||+||+
T Consensus       482 ~ii~PT~~N~~p~~~~~~~~~~e~~l~g~~~~d~~~~~~i~~~iRs~DPC~sCa  535 (537)
T d1e3db_         482 QLVVPTTWNLGPRDDKGVPSAAEAALVGTPVADPKRPVEILRTIHSFDPCIACS  535 (537)
T ss_dssp             EEECHHHHHTCCCCTTCCCCHHHHHHTTCBCSCTTSCHHHHHHHHHTCCBHHHH
T ss_pred             EEECCCHHHCCCCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCC
T ss_conf             998977100463201466429999848998788530655657862167650100


No 7  
>d1ffvc1 d.87.2.1 (C:178-287) Carbon monoxide (CO) dehydrogenase flavoprotein, C-terminal domain {Hydrogenophaga pseudoflava [TaxId: 47421]}
Probab=76.88  E-value=1.8  Score=19.16  Aligned_cols=35  Identities=14%  Similarity=0.288  Sum_probs=24.5

Q ss_pred             EEEEEECCEEEEEEEEECCC------HHHHHHHHCCCCHHH
Q ss_conf             99998399899999880411------578898740989878
Q gi|254780855|r   26 LILELDGEIVERVDPHIGLL------HRGTEKLIETKTFLQ   60 (396)
Q Consensus        26 ~~~~v~~~~V~~a~~~~g~~------~RGfE~il~Gr~~~d   60 (396)
                      +.++++|++|.++++..|.+      ....|++|.|+++.+
T Consensus        23 ~~~~~~~~~i~~~ria~ggv~~~P~r~~~~e~~L~G~~~~~   63 (110)
T d1ffvc1          23 VVMRKSGNTVSHIRIALTNVAPTALRAEAAEAALLGKAFTK   63 (110)
T ss_dssp             EEEEEETTEEEEEEEEEESSSSSCEECHHHHHTTBTSBCCH
T ss_pred             EEEEEECCEEEEEEEEEECCCCEEEEEHHHHHHHCCCCCCH
T ss_conf             68997299798999998536875676044443303776666


No 8  
>d1vqza1 d.224.1.3 (A:242-329) LplA-like protein SP1160, C-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}
Probab=74.71  E-value=1.6  Score=19.65  Aligned_cols=49  Identities=6%  Similarity=0.167  Sum_probs=31.3

Q ss_pred             CCEEEEEEEECCEEEEEEEEECCCH----HHHHHHHCCCCHHHHHHHHHHHHHH
Q ss_conf             7559999983998999998804115----7889874098987855443121234
Q gi|254780855|r   22 GVLRLILELDGEIVERVDPHIGLLH----RGTEKLIETKTFLQAVPYFDRLDYV   71 (396)
Q Consensus        22 g~l~~~~~v~~~~V~~a~~~~g~~~----RGfE~il~Gr~~~da~~it~RICGI   71 (396)
                      |.+.+.+.|++|+|.++++..-.+.    .-+|..|.|..+.. -.|.+.++.+
T Consensus        16 G~vev~l~V~~G~I~~iki~GDff~~~~i~~le~~L~G~~y~~-~~i~~~L~~~   68 (88)
T d1vqza1          16 GKVEVFANVTESKIQDIKIYGDFFGIEDVAAVEDVLRGVKYER-EDVLKALKTI   68 (88)
T ss_dssp             EEEEEEEEEETTEEEEEEEEESCCCSSCTHHHHHHHTTCBSSH-HHHHHHHTTS
T ss_pred             CEEEEEEEEECCEEEEEEEEECCCCCHHHHHHHHHHCCCCCCH-HHHHHHHHHC
T ss_conf             6799999981898979999804799312999999976997789-9999999848


No 9  
>d1t3qc1 d.87.2.1 (C:177-285) Quinoline 2-oxidoreductase medium subunit QorM {Pseudomonas putida [TaxId: 303]}
Probab=63.99  E-value=3.4  Score=17.26  Aligned_cols=36  Identities=11%  Similarity=0.083  Sum_probs=23.4

Q ss_pred             EEEEEECCEEEEEEEEECC------CHHHHHHHHCCCCHHHH
Q ss_conf             9999839989999988041------15788987409898785
Q gi|254780855|r   26 LILELDGEIVERVDPHIGL------LHRGTEKLIETKTFLQA   61 (396)
Q Consensus        26 ~~~~v~~~~V~~a~~~~g~------~~RGfE~il~Gr~~~da   61 (396)
                      +.++++|++|.++++..|.      ...+.|..|+|+++.+.
T Consensus        21 ~~~~~~~g~i~~~ria~G~v~~~p~r~~~~E~~L~G~~~~~~   62 (109)
T d1t3qc1          21 AGLSMQGGRCVAARIALGAVEERAHQAIRANDFLVGKVIDES   62 (109)
T ss_dssp             EEEEEETTEEEEEEEEEESSSSSCEECHHHHHHHTTCCCCHH
T ss_pred             EEEEEECCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCCHHH
T ss_conf             279985998989999997768814657999998728974157


No 10 
>d1v97a4 d.87.2.1 (A:415-528) Xanthine oxidase, domain 4 (?) {Cow (Bos taurus) [TaxId: 9913]}
Probab=62.90  E-value=3.6  Score=17.13  Aligned_cols=36  Identities=11%  Similarity=0.015  Sum_probs=25.1

Q ss_pred             EEEEEEC--CEEEEEEEEECCCH------HHHHHHHCCCCHHHH
Q ss_conf             9999839--98999998804115------788987409898785
Q gi|254780855|r   26 LILELDG--EIVERVDPHIGLLH------RGTEKLIETKTFLQA   61 (396)
Q Consensus        26 ~~~~v~~--~~V~~a~~~~g~~~------RGfE~il~Gr~~~da   61 (396)
                      +.+.+|+  ++|.++++..|.+-      .-.|.+|.|+...+.
T Consensus        24 ~~v~l~~~~~~i~~~ria~Ggva~~p~r~~~~E~~L~Gk~~~~~   67 (114)
T d1v97a4          24 MRVLFQPGSMQVKELALCYGGMADRTISALKTTQKQLSKFWNEK   67 (114)
T ss_dssp             EEEEESTTSSBEEEEEEEEESSSSSCEECHHHHHTTTTCBSSHH
T ss_pred             EEEEEECCCCEEEEEEEEEECCCCCCCHHHHHHHHHCCCCCCHH
T ss_conf             78999869998989999876377644039999998707988999


No 11 
>d1xjsa_ d.224.1.2 (A:) NifU {Bacillus subtilis [TaxId: 1423]}
Probab=61.18  E-value=3.3  Score=17.36  Aligned_cols=51  Identities=22%  Similarity=0.351  Sum_probs=31.1

Q ss_pred             CEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             5599999839989999988041157889874098987855443121234488899999999999838857888999999
Q gi|254780855|r   23 VLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRV  101 (396)
Q Consensus        23 ~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~gi~vp~~a~llR~  101 (396)
                      .+++.+.+++++|+++.+..    +|                    |.+|-.    +++...|.+-|-++.....+...
T Consensus        44 ~i~i~l~i~~~~I~d~~f~~----~G--------------------Cai~~A----Sasil~e~~~gk~~~~a~~l~~~   94 (147)
T d1xjsa_          44 RIRLTMKLDGDIVEDAKFEG----EG--------------------CSISMA----SASMMTQAIKGKDIETALSMSKI   94 (147)
T ss_dssp             EEEEEEECCSSBCCEEEEEE----ES--------------------SHHHHH----HHHHHHHHHTTSBHHHHHHHHHH
T ss_pred             EEEEEEEECCCCEEEEEEEE----CC--------------------CHHHHH----HHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             89999998588137877664----24--------------------578888----99999999828989999999999


No 12 
>d1jroa3 d.87.2.1 (A:346-462) Xanthine dehydrogenase chain A, domain 4 {Rhodobacter capsulatus [TaxId: 1061]}
Probab=54.86  E-value=4.9  Score=16.21  Aligned_cols=38  Identities=21%  Similarity=0.235  Sum_probs=27.6

Q ss_pred             EEEEEEECCEEEEEEEEECCC------HHHHHHHHCCCCHHHHH
Q ss_conf             999998399899999880411------57889874098987855
Q gi|254780855|r   25 RLILELDGEIVERVDPHIGLL------HRGTEKLIETKTFLQAV   62 (396)
Q Consensus        25 ~~~~~v~~~~V~~a~~~~g~~------~RGfE~il~Gr~~~da~   62 (396)
                      =+.++++|++|.++++..|.+      ....|..|.|+++.+..
T Consensus        22 A~~~~~~~~~i~~~ria~G~v~~~P~r~~~~e~~L~gk~~~~~~   65 (117)
T d1jroa3          22 CLNLTLKGSKIETARIAFGGMAGVPKRAAAFEAALIGQDFREDT   65 (117)
T ss_dssp             EEEEEEETTEEEEEEEEEESSSSSCEECHHHHHHHTTSBCSHHH
T ss_pred             EEEEEECCCCEEEEEEEECCCCCEEEEHHHHHHHHCCCCCCHHH
T ss_conf             58999758956789998424587576569999997068887678


No 13 
>d1n62c1 d.87.2.1 (C:178-286) Carbon monoxide (CO) dehydrogenase flavoprotein, C-terminal domain {Oligotropha carboxidovorans, formerly Pseudomonas carboxydovorans [TaxId: 40137]}
Probab=53.08  E-value=5.2  Score=16.02  Aligned_cols=35  Identities=9%  Similarity=0.139  Sum_probs=22.6

Q ss_pred             EEEEEECCEEEEEEEEECCC------HHHHHHHHCCCCHHH
Q ss_conf             99998399899999880411------578898740989878
Q gi|254780855|r   26 LILELDGEIVERVDPHIGLL------HRGTEKLIETKTFLQ   60 (396)
Q Consensus        26 ~~~~v~~~~V~~a~~~~g~~------~RGfE~il~Gr~~~d   60 (396)
                      +.+.+||++|.++++..|.+      ....|+.|.|+.+.+
T Consensus        23 ~~~~~d~g~i~~~ria~ggv~~~p~r~~~~e~~L~g~~~~~   63 (109)
T d1n62c1          23 VVLTMSGGKCVTASIGLTNVANTPLWAEEAGKVLVGTALDK   63 (109)
T ss_dssp             EEEEEETTEEEEEEEEEESSSSSCEECHHHHHHHTTSCCCH
T ss_pred             EEEEEECCEEEEEEEEEECCCCEEEEHHHHHHHHCCCCCHH
T ss_conf             48999699099999999756671552677788870775106


No 14 
>d1x2ga1 d.224.1.3 (A:247-337) Two-domain LplA, C-terminal domain {Escherichia coli [TaxId: 562]}
Probab=47.22  E-value=6.3  Score=15.41  Aligned_cols=65  Identities=12%  Similarity=0.159  Sum_probs=39.6

Q ss_pred             CCEEEEEEEECCEEEEEEEEECCCH----HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf             7559999983998999998804115----788987409898785544312123448889999999999983885788899
Q gi|254780855|r   22 GVLRLILELDGEIVERVDPHIGLLH----RGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQ   97 (396)
Q Consensus        22 g~l~~~~~v~~~~V~~a~~~~g~~~----RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~gi~vp~~a~   97 (396)
                      |.+.+.+.|++|+|.++.+-.-.+.    .-+|..|.|.++.                  ..++..+=+.+.++-|....
T Consensus        16 G~ve~~l~V~~G~I~~~~i~gDfl~~~~i~~le~~L~G~~y~------------------~~~i~~~l~~~~~~~~~~~~   77 (91)
T d1x2ga1          16 GGVELHFDVEKGHITRAQVFTDSLNPAPLEALAGRLQGCLYR------------------ADMLQQECEALLVDFPEQEK   77 (91)
T ss_dssp             EEEEEEEEEETTEEEEEEEEECCSCCHHHHHHHHHHTTCBSS------------------HHHHHHHHHHTGGGCGGGHH
T ss_pred             CEEEEEEEEECCEEEEEEEECCCCCCHHHHHHHHHHCCCCCC------------------HHHHHHHHHHHHHHCHHHHH
T ss_conf             169999997279898999986889927899999997699868------------------99999999998765876899


Q ss_pred             HHHHHHH
Q ss_conf             9999999
Q gi|254780855|r   98 LIRVLYS  104 (396)
Q Consensus        98 llR~Ll~  104 (396)
                      .++++.-
T Consensus        78 ~l~e~~~   84 (91)
T d1x2ga1          78 ELRELSA   84 (91)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
T ss_conf             9999999


No 15 
>d1rm6b1 d.87.2.1 (B:217-323) 4-hydroxybenzoyl-CoA reductase beta subunit HrcB, C-terminal domain {Thauera aromatica [TaxId: 59405]}
Probab=42.62  E-value=6  Score=15.58  Aligned_cols=37  Identities=11%  Similarity=0.012  Sum_probs=27.9

Q ss_pred             EEEEEEEECCEEEEEEEEECCC----HHHHHHHHCCCCHHH
Q ss_conf             5999998399899999880411----578898740989878
Q gi|254780855|r   24 LRLILELDGEIVERVDPHIGLL----HRGTEKLIETKTFLQ   60 (396)
Q Consensus        24 l~~~~~v~~~~V~~a~~~~g~~----~RGfE~il~Gr~~~d   60 (396)
                      .-+.+.+||++|.++++..|.+    .|--|..|.|+.+.+
T Consensus        22 vAv~~~~~~g~i~~~ria~ggv~~~P~r~~e~~l~G~~~~~   62 (107)
T d1rm6b1          22 VAAALQRDGDRIAGLRVAITGSNSAPLMVPVDALLGGNWDD   62 (107)
T ss_dssp             EEEEEEEETTEEEEEEEEEESSSSSCEECCCGGGTTSCCSH
T ss_pred             HHHEEEECCCCEEEEEEEEECCCCCEEEHHHHHHCCCCCCC
T ss_conf             75238974996889999860567812540765754898881


No 16 
>d1ufia_ a.30.4.1 (A:) Dimerisation domain of CENP-B {Human (Homo sapiens) [TaxId: 9606]}
Probab=38.59  E-value=6.5  Score=15.31  Aligned_cols=13  Identities=31%  Similarity=0.516  Sum_probs=9.5

Q ss_pred             HHHHHHHHHHHHH
Q ss_conf             9999988999874
Q gi|254780855|r  106 IGRILSHLLNVTT  118 (396)
Q Consensus       106 ~e~i~sH~~h~~~  118 (396)
                      -+++|||++|+-.
T Consensus        27 d~rvqshilhleh   39 (48)
T d1ufia_          27 DDRVQSHILHLEH   39 (48)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
T ss_conf             4899988988520


No 17 
>d1wfza_ d.224.1.2 (A:) Iron-sulfur cluster protein U (IscU) {Mouse (Mus musculus), mitochondrial [TaxId: 10090]}
Probab=37.90  E-value=8.7  Score=14.45  Aligned_cols=41  Identities=17%  Similarity=0.246  Sum_probs=27.2

Q ss_pred             CCEEEEEEEEC-CEEEEEEEEECCCHHH----------HHHHHCCCCHHHHHHHHH
Q ss_conf             75599999839-9899999880411578----------898740989878554431
Q gi|254780855|r   22 GVLRLILELDG-EIVERVDPHIGLLHRG----------TEKLIETKTFLQAVPYFD   66 (396)
Q Consensus        22 g~l~~~~~v~~-~~V~~a~~~~g~~~RG----------fE~il~Gr~~~da~~it~   66 (396)
                      -.+++.+.|++ ++|+++.+..    .|          +=.+++||+..++..|+.
T Consensus        35 D~i~i~l~v~~~~~I~di~F~~----~GC~is~AsaS~~tel~~Gkt~~ea~~i~~   86 (130)
T d1wfza_          35 DVMKLQIQVDEKGKIVDARFKT----FGCGSAIASSSLATEWVKGKTVEEALTIKN   86 (130)
T ss_dssp             EEEEEEEEECSSSBEEEEEEEC----CSCHHHHHHHHHHHHHHTTSBHHHHHHCCH
T ss_pred             CEEEEEEEECCCCEEEEEEEEE----ECCCHHHHHHHHHHHHHHCCCHHHHHHCCC
T ss_conf             5899999955899398999984----278354779999999986168899873173


No 18 
>d1su0b_ d.224.1.2 (B:) IscU homolog SPy0289 {Streptococcus pyogenes [TaxId: 1314]}
Probab=36.57  E-value=9.1  Score=14.31  Aligned_cols=52  Identities=13%  Similarity=0.232  Sum_probs=34.4

Q ss_pred             CEEEEEEEECCEEEEEEEEECCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             55999998399899999880411578898740989878554431212344888999999999998388578889999999
Q gi|254780855|r   23 VLRLILELDGEIVERVDPHIGLLHRGTEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLLGIEIPIRGQLIRVL  102 (396)
Q Consensus        23 ~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~gi~vp~~a~llR~L  102 (396)
                      -+++.+.+++++|+++.+..    +|                    |++|-.    +++...|.+-|..+.....+...+
T Consensus        38 ~i~i~l~i~~~~I~di~f~~----~G--------------------Cai~~A----Sasil~e~i~gk~~~e~~~l~~~~   89 (136)
T d1su0b_          38 VISLTVKFDEDKIEDIAFAG----NG--------------------CTISTA----SSSMMTDAVIGKSKEEALALADIF   89 (136)
T ss_dssp             EEEEEEEESSSSEEEEEEEE----EC--------------------CHHHHH----HHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             EEEEEEEECCCEEEEEEEEE----CC--------------------CHHHHH----HHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             79999997588146778775----16--------------------779899----999999999578999999999999


No 19 
>d1r9pa_ d.224.1.2 (A:) NifU-like protein HI0377 {Haemophilus influenzae [TaxId: 727]}
Probab=35.81  E-value=9.4  Score=14.23  Aligned_cols=39  Identities=21%  Similarity=0.320  Sum_probs=28.1

Q ss_pred             CEEEEEEEECC-EEEEEEEEECCCHHH----------HHHHHCCCCHHHHHHHH
Q ss_conf             55999998399-899999880411578----------89874098987855443
Q gi|254780855|r   23 VLRLILELDGE-IVERVDPHIGLLHRG----------TEKLIETKTFLQAVPYF   65 (396)
Q Consensus        23 ~l~~~~~v~~~-~V~~a~~~~g~~~RG----------fE~il~Gr~~~da~~it   65 (396)
                      -++|.+.++++ .|+|+.+..    +|          +=.+++|++..+|..|+
T Consensus        40 ~v~i~l~i~~~~~I~di~f~~----~GCais~Asas~~~e~i~Gkt~~ea~~i~   89 (134)
T d1r9pa_          40 VMQLQIKVDDNGIIEDAKFKT----YGCGSAIASSSLITEWVKGKSLEEAGAIK   89 (134)
T ss_dssp             EEEEEEEECSSSBEEEEEEEE----ESSSSHHHHHHHHHHHSSSSBHHHHTTSH
T ss_pred             EEEEEEEECCCCEEEEEEEEE----CCCCCCHHHHHHHHHHHHHCCHHHHHHHC
T ss_conf             799999976985277788983----06860076999999999727898999850


No 20 
>d1jpma2 d.54.1.1 (A:1-125) L-Ala-D/L-Glu epimerase {Bacillus subtilis [TaxId: 1423]}
Probab=35.01  E-value=9.6  Score=14.14  Aligned_cols=38  Identities=16%  Similarity=0.078  Sum_probs=21.8

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8987409898785544312123448889999999999983
Q gi|254780855|r   49 TEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLL   88 (396)
Q Consensus        49 fE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~   88 (396)
                      |...++|+++.+...+..++....+..+  ++.-|+|.|+
T Consensus        70 ~~p~l~g~~~~~~~~~~~~l~~~~~~~~--~a~aaid~Al  107 (125)
T d1jpma2          70 LKPALLGKSLAGYEAILHDIQHLLTGNM--SAKAAVEMAL  107 (125)
T ss_dssp             HHHHHTTCBGGGHHHHHHHHHHSSSSCH--HHHHHHHHHH
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHHCCCCC--HHHHHHHHHH
T ss_conf             7766515671259999998666505863--8999999999


No 21 
>d2ntka1 d.153.2.1 (A:1-202) Hypothetical protein MTH1020 {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]}
Probab=29.58  E-value=6.9  Score=15.15  Aligned_cols=14  Identities=36%  Similarity=0.643  Sum_probs=6.4

Q ss_pred             HHHHHCCCCCCHHH
Q ss_conf             99997088057599
Q gi|254780855|r  368 MEFLCKGHQLADVS  381 (396)
Q Consensus       368 ~e~al~G~~i~D~~  381 (396)
                      -+.++-|.++.++|
T Consensus       167 a~~~~dg~~~~~FE  180 (202)
T d2ntka1         167 AEFILKGGEFAAFT  180 (202)
T ss_dssp             HHHHHHSGGGGGSC
T ss_pred             HHHHHCCCCCCCCC
T ss_conf             99875679650137


No 22 
>d1t8ka_ a.28.1.1 (A:) Acyl carrier protein {Escherichia coli [TaxId: 562]}
Probab=28.48  E-value=12  Score=13.41  Aligned_cols=57  Identities=16%  Similarity=0.081  Sum_probs=35.3

Q ss_pred             CCCHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCCCCCHHH-HHHHHHHHHHHHHHHH
Q ss_conf             9898785544312--12344888999999999998388578889-9999999999999988
Q gi|254780855|r   55 TKTFLQAVPYFDR--LDYVAPMNQEHAYALAVEKLLGIEIPIRG-QLIRVLYSEIGRILSH  112 (396)
Q Consensus        55 Gr~~~da~~it~R--ICGIC~~aH~~Aa~~AiE~a~gi~vp~~a-~llR~Ll~~~e~i~sH  112 (396)
                      |.++.+...=+.-  --|+-|.. .+--+.++|+.||+++|+.. .-++.+-....+|++|
T Consensus        16 ~i~~~~i~~~~~l~~dLg~DSl~-~~el~~~iE~~f~i~i~~~~~~~~~Tv~dlv~~i~~~   75 (77)
T d1t8ka_          16 GVKQEEVTNNASFVEDLGADSLD-TVELVMALEEEFDTEIPDEEAEKITTVQAAIDYINGH   75 (77)
T ss_dssp             TCCGGGCCTTCBTTTTTCCCHHH-HHHHHHHHHHHHTCCCCHHHHTTCCBHHHHHHHHHHT
T ss_pred             CCCHHHCCCCCCCHHCCCCCHHH-HHHHHHHHHHHHCCCCCHHHHHHCCCHHHHHHHHHHC
T ss_conf             88987769998601202446248-9999999999868998999987189999999999876


No 23 
>d1u07a_ d.212.1.2 (A:) TonB {Escherichia coli [TaxId: 562]}
Probab=26.82  E-value=13  Score=13.22  Aligned_cols=27  Identities=15%  Similarity=0.091  Sum_probs=20.2

Q ss_pred             CEEEEEEEECCCCCEEEEEEECCCCCC
Q ss_conf             117999998799808899983587568
Q gi|254780855|r  338 GEFGVYLISDGGNKPYRCKIRAPGYAH  364 (396)
Q Consensus       338 G~L~H~~~~~~~g~i~~~~ii~PT~~N  364 (396)
                      |.....+.++++|+|.+++|+-.|-.+
T Consensus        25 G~V~v~f~I~~~G~v~~~~v~~ssg~~   51 (90)
T d1u07a_          25 GQVKVKFDVTPDGRVDNVQILSAKPAN   51 (90)
T ss_dssp             EEEEEEEEECTTSCEEEEEEEEEESSS
T ss_pred             EEEEEEEEEECCCCEEEEEEEECCCCH
T ss_conf             799999999389989689999888965


No 24 
>d2chra2 d.54.1.1 (A:1-126) Chlormuconate cycloisomerase {Alcaligenes eutrophus [TaxId: 106590]}
Probab=26.45  E-value=13  Score=13.17  Aligned_cols=38  Identities=13%  Similarity=0.022  Sum_probs=25.3

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             8987409898785544312123448889999999999983
Q gi|254780855|r   49 TEKLIETKTFLQAVPYFDRLDYVAPMNQEHAYALAVEKLL   88 (396)
Q Consensus        49 fE~il~Gr~~~da~~it~RICGIC~~aH~~Aa~~AiE~a~   88 (396)
                      +...|.|+++.+...+.++++.-+...  -.+.-|+|.|+
T Consensus        71 l~p~lig~~~~~~~~~~~~~~~~~~~~--~~A~aaid~Al  108 (126)
T d2chra2          71 LAPHLLGTDAFNVSGALQTMARAVTGN--ASAKAAVEMAL  108 (126)
T ss_dssp             THHHHTTSCTTCHHHHHHHHHTTCSSC--HHHHHHHHHHH
T ss_pred             HCCCCCCCCCCCHHHHHHHHHHCCCCC--HHHHHHHHHHH
T ss_conf             450101346012999999865302443--28899999999


No 25 
>d1o98a1 c.105.1.1 (A:77-310) 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain {Bacillus stearothermophilus [TaxId: 1422]}
Probab=24.94  E-value=14  Score=12.99  Aligned_cols=67  Identities=13%  Similarity=-0.063  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHHH---------------HHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCHHHHHHH
Q ss_conf             9988999874334---------------3056418999999999999789975597647633653620007898999999
Q gi|254780855|r  109 ILSHLLNVTTQAM---------------DVGALTPPLWGFEEREKLMVFYERASGSRMHAAYFRPGGVHQDIPPELVEDI  173 (396)
Q Consensus       109 i~sH~~h~~~l~~---------------~~~~~~~~~~~~~~r~~~~~~~~~~gG~~~Hp~~~vpGGv~~~~~~~~~~~~  173 (396)
                      +|||+-|++.|..               .+|....-..+...-++..+.+...+.-.+-.+.-+==.+-++-.++..+..
T Consensus        46 VHSh~~Hl~al~~~a~~~gv~~V~iH~~~DGRDt~p~s~~~~l~~l~~~~~~~~~~~IASv~GRyyaMDRD~rWeR~~~a  125 (234)
T d1o98a1          46 VHSHIHHLYALLRLAAKEGVKRVYIHGFLDGRDVGPQTAPQYIKELQEKIKEYGVGEIATLSGRYYSMDRDKRWDRVEKA  125 (234)
T ss_dssp             SSCCHHHHHHHHHHHHHTTCCCEEEEEEECSSSSCTTCHHHHHHHHHHHHHHHTCCEEEEEEEHHHHTCCSCCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECCCEECCCCCCHHHHHHH
T ss_conf             33415778999999997088741789973377888246899999999975314643687760643421555668899999


Q ss_pred             HH
Q ss_conf             99
Q gi|254780855|r  174 GC  175 (396)
Q Consensus       174 ~~  175 (396)
                      ..
T Consensus       126 y~  127 (234)
T d1o98a1         126 YR  127 (234)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             99


No 26 
>d1yeya2 d.54.1.1 (A:2-140) RTS beta protein {Xanthomonas campestris pv. campestris [TaxId: 340]}
Probab=21.32  E-value=16  Score=12.51  Aligned_cols=47  Identities=9%  Similarity=0.023  Sum_probs=27.5

Q ss_pred             EEEEEEEECC--EEEEEEEEE-C-C------CHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf             5999998399--899999880-4-1------15788987409898785544312123
Q gi|254780855|r   24 LRLILELDGE--IVERVDPHI-G-L------LHRGTEKLIETKTFLQAVPYFDRLDY   70 (396)
Q Consensus        24 l~~~~~v~~~--~V~~a~~~~-g-~------~~RGfE~il~Gr~~~da~~it~RICG   70 (396)
                      .-++++.|++  ..-.+.... + +      +.+.|...+.|++|.+...+-+++--
T Consensus        34 ~~V~i~td~g~~g~G~~~~~~~~~~~~~~~~~~~~l~p~liG~~~~~~~~~~~~~~~   90 (139)
T d1yeya2          34 AYVVLRTDGAEDLAGYGLVFTIGRGNDVQTAAVAALAEHVVGLSVDKVIADLGAFAR   90 (139)
T ss_dssp             EEEEEEESSCTTCEEEEEEEECSTTHHHHHHHHHTTHHHHTTCBHHHHHHCHHHHHH
T ss_pred             EEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             589999989995799998706787179999999999998518772128888999998


No 27 
>d1ah9a_ b.40.4.5 (A:) Translational initiation factor 1, IF1 {Escherichia coli [TaxId: 562]}
Probab=20.95  E-value=17  Score=12.46  Aligned_cols=40  Identities=13%  Similarity=0.142  Sum_probs=26.8

Q ss_pred             CCCCCCCCCCEEEEEEEECCEEEEEEEEECCCHHHHHHHHCC
Q ss_conf             686866677559999983998999998804115788987409
Q gi|254780855|r   14 GPQHPAAHGVLRLILELDGEIVERVDPHIGLLHRGTEKLIET   55 (396)
Q Consensus        14 gp~~~~~~g~l~~~~~v~~~~V~~a~~~~g~~~RGfE~il~G   55 (396)
                      |-+. ...|..++++.++|+..+-|.++ |-|-+.--+++.|
T Consensus        10 G~V~-e~lg~~~f~V~l~ng~~~~a~i~-Gkmrk~ri~i~~G   49 (71)
T d1ah9a_          10 GTVL-ETLPNTMFRVELENGHVVTAHIS-GKMRKNYIRILTG   49 (71)
T ss_dssp             EEEE-EECSSSEEEEEETTSCEEEEEEC-SSGGGTTCCCCTT
T ss_pred             EEEE-EECCCCEEEEEECCCCEEEEECC-CHHHEEEEEECCC
T ss_conf             9999-98699889999679979999846-4343027996499


Done!