Query         gi|254781063|ref|YP_003065476.1| hypothetical protein CLIBASIA_04825 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 129
No_of_seqs    105 out of 1277
Neff          5.8 
Searched_HMMs 39220
Date          Mon May 30 04:44:03 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781063.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 TIGR02945 SUF_assoc FeS assemb 100.0 4.4E-40 1.1E-44  261.8   8.8   96   34-129     1-96  (96)
  2 TIGR03406 FeS_long_SufT probab 100.0 4.8E-37 1.2E-41  243.5  13.5  120    9-128    48-174 (174)
  3 COG2151 PaaD Predicted metal-s 100.0 9.5E-32 2.4E-36  211.7  12.4  105   25-129     6-111 (111)
  4 TIGR02159 PA_CoA_Oxy4 phenylac  99.9 2.2E-25 5.6E-30  173.5   8.7   86   43-129     1-88  (152)
  5 pfam01883 DUF59 Domain of unkn  99.9 6.5E-23 1.7E-27  158.6   8.9   76   32-107     1-76  (76)
  6 PRK11670 putative ATPase; Prov  99.6   2E-15   5E-20  113.7  11.2   87   25-112     6-92  (369)
  7 KOG3381 consensus               98.2 3.7E-06 9.4E-11   58.0   6.1  106    1-108     4-120 (161)
  8 COG5133 Uncharacterized conser  96.9  0.0015 3.9E-08   42.3   4.8   78   31-108    54-140 (181)
  9 TIGR03341 YhgI_GntY IscR-regul  94.2     0.3 7.7E-06   28.5   7.2   73   29-104   103-177 (190)
 10 PRK11190 putative DNA uptake p  88.8     2.2 5.5E-05   23.4   6.7   73   29-104   104-179 (192)
 11 TIGR02052 MerP mercuric transp  84.7    0.43 1.1E-05   27.6   1.3   28   75-108    32-59  (92)
 12 COG0694 Thioredoxin-like prote  74.0     8.1 0.00021   19.9   7.0   74   29-105     7-83  (93)
 13 pfam01106 NifU NifU-like domai  69.6      10 0.00026   19.3   6.2   61   38-103     3-65  (68)
 14 TIGR02187 GlrX_arch Glutaredox  66.8     6.2 0.00016   20.6   3.0   30   64-93    146-175 (237)
 15 TIGR00411 redox_disulf_1 redox  65.9     2.5 6.3E-05   23.0   0.9   33   70-102     4-36  (82)
 16 PRK10503 multidrug efflux syst  61.8      15 0.00037   18.4   7.3   32   73-104   677-708 (1040)
 17 pfam07350 DUF1479 Protein of u  50.9      22 0.00057   17.3   3.8   91   38-128   309-408 (408)
 18 pfam09650 PHA_gran_rgn Putativ  50.6      23 0.00057   17.3   3.8   69   27-96     12-85  (87)
 19 pfam00873 ACR_tran AcrB/AcrD/A  50.3      23 0.00058   17.2   7.2   37   69-105   671-707 (1021)
 20 cd02973 TRX_GRX_like Thioredox  49.0      22 0.00057   17.3   3.4   39   68-109     2-40  (67)
 21 TIGR02830 spore_III_AG stage I  46.0      27 0.00068   16.8   3.8   28   83-110    65-92  (193)
 22 cd00371 HMA Heavy-metal-associ  41.9      22 0.00057   17.3   2.5   34   87-120    13-53  (63)
 23 pfam00403 HMA Heavy-metal-asso  40.5      27 0.00069   16.8   2.7   23   86-108    12-34  (62)
 24 COG2608 CopZ Copper chaperone   39.4      30 0.00075   16.5   2.8   35   71-108     4-38  (71)
 25 PRK00435 ef1B elongation facto  37.9      36 0.00091   16.1   6.3   72   24-108    14-85  (88)
 26 PRK10775 cell division protein  37.4      35 0.00089   16.1   2.9   23   87-109    93-115 (274)
 27 KOG4656 consensus               35.1      40   0.001   15.8   3.9   24   84-107    18-41  (247)
 28 pfam03612 EIIBC-GUT_N Sorbitol  35.0      18 0.00045   17.9   1.1   75   30-109    36-120 (182)
 29 cd00958 DhnA Class I fructose-  33.2      42  0.0011   15.6   3.1   89   35-125    22-115 (235)
 30 TIGR01608 citD citrate lyase a  31.9      45  0.0011   15.5   4.7   48   61-109    19-67  (95)
 31 pfam05768 DUF836 Glutaredoxin-  29.5      49  0.0013   15.2   3.2   40   73-113     3-42  (76)
 32 PRK07226 fructose-bisphosphate  28.6      45  0.0012   15.4   2.3   89   35-125    40-132 (266)
 33 TIGR00003 TIGR00003 copper ion  27.1      38 0.00097   15.9   1.7   22   87-108    15-36  (66)
 34 pfam09129 Chol_subst-bind Chol  25.6      58  0.0015   14.8   3.8   43   72-114   222-264 (321)
 35 PRK08744 consensus              25.5      58  0.0015   14.8   4.6   72   35-114  1123-1195(1195)
 36 COG3963 Phospholipid N-methylt  24.9      46  0.0012   15.4   1.8   25   36-60     36-60  (194)
 37 COG3732 SrlE Phosphotransferas  24.3      51  0.0013   15.1   1.9   61   45-110    61-122 (328)
 38 pfam03780 DUF322 Protein of un  23.6      63  0.0016   14.6   6.2   45   63-107    54-102 (108)
 39 pfam08478 POTRA_1 POTRA domain  23.6      63  0.0016   14.6   3.1   31   79-109    26-56  (67)
 40 pfam02700 PurS Phosphoribosylf  23.6      63  0.0016   14.6   3.5   53   52-108    25-79  (80)
 41 TIGR02794 tolA_full protein To  23.5      63  0.0016   14.6   5.1   68   28-98    354-426 (452)
 42 cd03026 AhpF_NTD_C TRX-GRX-lik  23.1      64  0.0016   14.5   2.8   28   63-90     10-37  (89)
 43 TIGR02346 chap_CCT_theta T-com  23.0      65  0.0017   14.5   2.8   71   35-107   325-406 (554)
 44 COG4492 PheB ACT domain-contai  22.4      67  0.0017   14.4   2.9   47   55-106   101-147 (150)
 45 PRK10555 aminoglycoside/multid  22.4      67  0.0017   14.4   8.0   78   27-106    98-178 (1037)
 46 TIGR00904 mreB cell shape dete  20.7      53  0.0014   15.0   1.4   28   30-58    261-288 (337)
 47 PRK05783 hypothetical protein;  20.7      72  0.0018   14.2   3.0   65   42-108    14-82  (84)
 48 pfam02084 Bindin Bindin.        20.5      31 0.00078   16.4   0.2   39   29-67     96-140 (239)

No 1  
>TIGR02945 SUF_assoc FeS assembly SUF system protein; InterPro: IPR014291   Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] . FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems.   The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins , . It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly .   The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA . SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA , acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets.   In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins . Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen .   This entry is a subset of the larger DUF59 family. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here are all found as part of the FeS assembly SUF system locus, in a subset of SUF-positive proteobacteria. .
Probab=100.00  E-value=4.4e-40  Score=261.75  Aligned_cols=96  Identities=61%  Similarity=1.145  Sum_probs=94.5

Q ss_pred             HHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCC
Q ss_conf             99999972088888998433204013215603996999999658988517899999999997099866169999977889
Q gi|254781063|r   34 NDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFDPPW  113 (129)
Q Consensus        34 ~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W  113 (129)
                      ++|.+|||+|||||||+||+||||||+|.|.++|+|+|.||||+|+||.++.|...|++|+..++||++|+|+++|+|||
T Consensus         1 ~~~i~alktVYDPEIPvnIYeLGLIY~i~i~Dd~~V~I~MTLTaPgCPvAgemP~~V~~aV~~v~GV~~v~VelvwdPPW   80 (96)
T TIGR02945         1 EEVIEALKTVYDPEIPVNIYELGLIYKIEISDDRHVHIDMTLTAPGCPVAGEMPGWVEDAVGQVPGVSSVEVELVWDPPW   80 (96)
T ss_pred             CHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEEEECCCCCCCCCCCHHHHHHHHCCCCCCCEEEEEEEECCCC
T ss_conf             92455420268998876610358675887658986788775178568422452268899733388985025776767866


Q ss_pred             CCCCCCHHHHHHCCCC
Q ss_conf             8330698999960799
Q gi|254781063|r  114 TPDLMSEEAQIATGYY  129 (129)
Q Consensus       114 ~~~~is~~~r~~lG~~  129 (129)
                      +++|||++||++||||
T Consensus        81 ~~~RMSdeArL~Lg~~   96 (96)
T TIGR02945        81 DMDRMSDEARLELGMF   96 (96)
T ss_pred             CCCCCCHHHHHHCCCC
T ss_conf             9233677899841579


No 2  
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=100.00  E-value=4.8e-37  Score=243.51  Aligned_cols=120  Identities=40%  Similarity=0.700  Sum_probs=107.0

Q ss_pred             CCCCCCCCCCCCCCCC---CCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEE----CCCEEEEEEEECCCCCC
Q ss_conf             3210000268988778---8565358999999997208888899843320401321560----39969999996589885
Q gi|254781063|r    9 ENNIADKIALSPESTI---PPEDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVE----NDYMVKILMTLTAPGCP   81 (129)
Q Consensus         9 ~~~~~d~~~~~~~~~~---~~~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~----~~g~V~V~l~lT~~~CP   81 (129)
                      ....+|+++..+....   ...+....+++||++||+|+|||||+|||||||||++.++    +++.|.|.||||+||||
T Consensus        48 ~g~DaDAlG~~~~~~~~~~~~~~~~~~E~~vweaLk~V~DPEIpVnIVdLGLIY~v~i~~~~~~~~~V~I~MTLTapgCp  127 (174)
T TIGR03406        48 DGKDADALGKEPPPPLDLPENADGEDNEDQVWEQLRTVYDPEIPVNIVDLGLVYGCRVEKLGEGQFRVDIEMTLTAPGCG  127 (174)
T ss_pred             CCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEEEEEEEEEEECCCCCCEEEEEEECCCCCCC
T ss_conf             57486661899776556788888742099999998415598887544863025799987647889779999960479998


Q ss_pred             HHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCHHHHHHCCC
Q ss_conf             17899999999997099866169999977889833069899996079
Q gi|254781063|r   82 VAGDMPKWIENAVGAVEGISGVEVSITFDPPWTPDLMSEEAQIATGY  128 (129)
Q Consensus        82 ~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W~~~~is~~~r~~lG~  128 (129)
                      +++.|.++++++++.++||.+|+|+++|+|||+++|||++||++||+
T Consensus       128 mg~~i~~dv~~~v~~v~~v~~v~VelV~dPpW~~dmmSeeakl~LGm  174 (174)
T TIGR03406       128 MGPVLVEDVEDKVLAVPNVDEVEVELVFDPPWSREMMSEAAKLELGM  174 (174)
T ss_pred             CCHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCHHHCCHHHHHHCCC
T ss_conf             31799999999997799966499999988998933477999987389


No 3  
>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]
Probab=99.98  E-value=9.5e-32  Score=211.69  Aligned_cols=105  Identities=49%  Similarity=0.835  Sum_probs=99.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEEC-CCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             85653589999999972088888998433204013215603-99699999965898851789999999999709986616
Q gi|254781063|r   25 PPEDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVEN-DYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGV  103 (129)
Q Consensus        25 ~~~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~-~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V  103 (129)
                      .......+.++|+++|++|+|||+|+|||+|||||++.+++ +|.++|.|+||++|||+++.|.++++++++.++|++++
T Consensus         6 ~~~~~~~~~~~i~~aL~~V~DPEi~idIvdLGLVy~v~i~~~~~~v~v~mtlT~~gCP~~~~i~~~v~~al~~~~~v~~v   85 (111)
T COG2151           6 EEEAIKVTLEDILEALKTVIDPEIGIDIVDLGLVYEVDIDDVDGLVKVKMTLTSPGCPLAEVIADQVEAALEEIPGVEDV   85 (111)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCEEEEEEECCCCEEEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEE
T ss_conf             12123666999999853477966660357631079999726774699999517888882078899999999846881307


Q ss_pred             EEEEEECCCCCCCCCCHHHHHHCCCC
Q ss_conf             99999778898330698999960799
Q gi|254781063|r  104 EVSITFDPPWTPDLMSEEAQIATGYY  129 (129)
Q Consensus       104 ~V~~~~~p~W~~~~is~~~r~~lG~~  129 (129)
                      +|+++|+|||+++|||++||.++|++
T Consensus        86 ~V~l~~~p~Wt~~~ms~ear~~~g~~  111 (111)
T COG2151          86 EVELTLSPPWTPDRMSEEARRALGIT  111 (111)
T ss_pred             EEEEEEECCCCHHHCCHHHHHHHCCC
T ss_conf             99999707966554389899862789


No 4  
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit; InterPro: IPR011883 Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation , . Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA .    .
Probab=99.92  E-value=2.2e-25  Score=173.45  Aligned_cols=86  Identities=34%  Similarity=0.602  Sum_probs=81.0

Q ss_pred             CCCCCCC-CCEEEECCEEEEEEECCCEEEEE-EEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCH
Q ss_conf             8888899-84332040132156039969999-996589885178999999999970998661699999778898330698
Q gi|254781063|r   43 VYDPEIP-CDIFELGLIYKIDVENDYMVKIL-MTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFDPPWTPDLMSE  120 (129)
Q Consensus        43 V~DPEl~-v~IvdLGlV~~i~i~~~g~V~V~-l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W~~~~is~  120 (129)
                      |.||||| ++|+|||||++|+++++| +.|. ||+||+|||+.++|.++|++||+++.++..|+|++..+|+||.|+|+|
T Consensus         1 VPDPEiPv~s~~DLGmVR~V~v~g~G-~~v~s~tPTySGCPA~~~i~~~i~~A~~~~GW~~~VeV~~~L~P~WTTdwITe   79 (152)
T TIGR02159         1 VPDPEIPVVSVTDLGMVREVEVDGEG-VVVKSFTPTYSGCPALEVIRQDIRDALRALGWVEEVEVKTSLDPAWTTDWITE   79 (152)
T ss_pred             CCCCCCCEEEEECCCEEEEEEECCCC-EEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCC
T ss_conf             98888770221106534357864794-79888745877723689999999999974789751158877189878400270


Q ss_pred             HHHHHCCCC
Q ss_conf             999960799
Q gi|254781063|r  121 EAQIATGYY  129 (129)
Q Consensus       121 ~~r~~lG~~  129 (129)
                      +||.+|--|
T Consensus        80 ~are~Lr~y   88 (152)
T TIGR02159        80 DAREKLREY   88 (152)
T ss_pred             HHHHHHHHC
T ss_conf             036888850


No 5  
>pfam01883 DUF59 Domain of unknown function DUF59. This family includes prokaryotic proteins of unknown function. The family also includes PhaH from Pseudomonas putida. PhaH forms a complex with PhaF, PhaG, and PhaI, which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid. So members of this family may all be components of ring hydroxylating complexes.
Probab=99.89  E-value=6.5e-23  Score=158.63  Aligned_cols=76  Identities=45%  Similarity=0.804  Sum_probs=72.9

Q ss_pred             HHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEE
Q ss_conf             9999999972088888998433204013215603996999999658988517899999999997099866169999
Q gi|254781063|r   32 ISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSI  107 (129)
Q Consensus        32 l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~  107 (129)
                      ++++|+++|++|+|||+|+|||+|||||+++++++|.|+|.|+||+++||+++.|.+++++++++++||.+|+|++
T Consensus         1 l~e~I~~aL~~V~DPEl~~~Iv~LGlI~~i~v~~~g~v~I~~~lT~~~CP~~~~i~~~i~~~l~~v~gv~~V~V~l   76 (76)
T pfam01883         1 LKEAILEALKTVIDPELPVDIVDLGLVYEVDIDDDGNVKVKMTLTTPGCPLADLIALDVREALLELPGVEDVEVEL   76 (76)
T ss_pred             CHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEC
T ss_conf             9789999982778999997800245368999857984999999589999837899999999998399940789979


No 6  
>PRK11670 putative ATPase; Provisional
Probab=99.65  E-value=2e-15  Score=113.71  Aligned_cols=87  Identities=8%  Similarity=0.133  Sum_probs=80.3

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             85653589999999972088888998433204013215603996999999658988517899999999997099866169
Q gi|254781063|r   25 PPEDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVE  104 (129)
Q Consensus        25 ~~~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~  104 (129)
                      .+..++.++++|+++|++|.||+++.|||+||||+++.++ ++.|.|.+++|+++||..+.|.+++++++++++|+.+|+
T Consensus         6 ~~~~~~~l~~~v~~~L~~v~dP~~~~~iv~lg~v~~i~i~-~~~v~i~l~l~~~~~~~~~~~~~~~~~~l~~~~~~~~v~   84 (369)
T PRK11670          6 QAKSPEALRAMVAGTLANFQHPTLKHNLTTLKALHHVAWM-DDTLHIELVMPFVWNSAFEELKEQCSAELLRITGAKAID   84 (369)
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCEEEEEEE-CCEEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             7888189999999998077798999880037970169997-999999999688898879999999999998578974589


Q ss_pred             EEEEECCC
Q ss_conf             99997788
Q gi|254781063|r  105 VSITFDPP  112 (129)
Q Consensus       105 V~~~~~p~  112 (129)
                      |.++.+..
T Consensus        85 ~~~~~~~~   92 (369)
T PRK11670         85 WKLSHNIA   92 (369)
T ss_pred             EEEEECCC
T ss_conf             99974045


No 7  
>KOG3381 consensus
Probab=98.21  E-value=3.7e-06  Score=58.00  Aligned_cols=106  Identities=24%  Similarity=0.338  Sum_probs=74.0

Q ss_pred             CCCCCCCCCCC--CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEE------CC--CEEE
Q ss_conf             98887986321--00002689887788565358999999997208888899843320401321560------39--9699
Q gi|254781063|r    1 MKQKNPDTENN--IADKIALSPESTIPPEDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVE------ND--YMVK   70 (129)
Q Consensus         1 ~~~~~P~~~~~--~~d~~~~~~~~~~~~~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~------~~--g~V~   70 (129)
                      |.++||.-+..  ...+...+.+....+  .....+.+.+.++.+.|||-|.++-+|+.|+.-.|+      ++  ..|+
T Consensus         4 l~N~np~v~~~~~~~~r~~~s~~d~~~~--~~~~~~~~~dlir~I~DPEhP~TLeqL~VV~ee~v~V~d~~~~~~~s~V~   81 (161)
T KOG3381           4 LQNENPLVYPTRSRERRVTASEEDELLP--DSEDAEEIFDLIRDIRDPEHPLTLEQLNVVSEEGVEVDDPNVGDEESYVR   81 (161)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCHHHHHHHHHHHCCCCCCCCCCHHHCCCEEECCEEEECCCCCCCCEEEE
T ss_conf             4348962024445441025556664458--60367899999861689888865887062422056764577788513899


Q ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCCCCEEEEEEE
Q ss_conf             999965898851789999999999-70998661699999
Q gi|254781063|r   71 ILMTLTAPGCPVAGDMPKWIENAV-GAVEGISGVEVSIT  108 (129)
Q Consensus        71 V~l~lT~~~CP~~~~i~~~i~~al-~~~~gv~~V~V~~~  108 (129)
                      |.+|+|.|+|.++..|---|+-+| +.++.-..|.|.++
T Consensus        82 i~ftPTipHCSmaTlIGLcIrVkl~RsLp~rfkvdV~I~  120 (161)
T KOG3381          82 ITFTPTIPHCSMATLIGLCIRVKLLRSLPPRFKVDVYIK  120 (161)
T ss_pred             EEECCCCCCCHHHHHHHHEEEEEEEECCCCCEEEEEEEC
T ss_conf             995368875227766422026655304887426899975


No 8  
>COG5133 Uncharacterized conserved protein [Function unknown]
Probab=96.94  E-value=0.0015  Score=42.30  Aligned_cols=78  Identities=24%  Similarity=0.309  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCEEEECCEEE--EEEEC----C--CEEEEEEEECCCCCCHHHHHHHHHHHHHHCC-CCCC
Q ss_conf             899999999720888889984332040132--15603----9--9699999965898851789999999999709-9866
Q gi|254781063|r   31 RISNDIIAALKTVYDPEIPCDIFELGLIYK--IDVEN----D--YMVKILMTLTAPGCPVAGDMPKWIENAVGAV-EGIS  101 (129)
Q Consensus        31 ~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~--i~i~~----~--g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~-~gv~  101 (129)
                      ...++|++.++.+.|||-|.++-.||.|.-  |.+.+    +  .-|+|.+++|.|.|.++..|---|+..+++. +.-.
T Consensus        54 id~qeiydLia~I~DPEHPltL~QLsVV~lEdi~v~D~~~~n~i~~v~v~itPTIpHCSmatlIGLcIrvrleR~lpprF  133 (181)
T COG5133          54 IDQQEIYDLIADIRDPEHPLTLEQLSVVSLEDISVPDGIAPNVIRCVKVVITPTIPHCSMATLIGLCIRVRLERHLPPRF  133 (181)
T ss_pred             CCHHHHHHHHHHCCCCCCCCCHHHCCEEEECCCCCCCCCCCCEEEEEEEEECCCCCCHHHHHHHHHHEEEEEHHCCCCCE
T ss_conf             68899999998607988874076601352025534678887704789999635887206887764320332000379841


Q ss_pred             EEEEEEE
Q ss_conf             1699999
Q gi|254781063|r  102 GVEVSIT  108 (129)
Q Consensus       102 ~V~V~~~  108 (129)
                      .|.|.+.
T Consensus       134 ~v~v~ik  140 (181)
T COG5133         134 HVQVHIK  140 (181)
T ss_pred             EEEEEEE
T ss_conf             6899981


No 9  
>TIGR03341 YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.
Probab=94.15  E-value=0.3  Score=28.51  Aligned_cols=73  Identities=14%  Similarity=0.278  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHC-CCCCCEEE
Q ss_conf             35899999999720888889984332040132156039969999996589885178-999999999970-99866169
Q gi|254781063|r   29 LERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAG-DMPKWIENAVGA-VEGISGVE  104 (129)
Q Consensus        29 ~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~-~i~~~i~~al~~-~~gv~~V~  104 (129)
                      ..+++++|.+.|..=+-|-|.-   +=|-|.=+.|+++|.|.+.|.=.+.+||+.. -|+..|+++|+. +|++..|.
T Consensus       103 d~~l~~~i~~vl~~ei~P~l~~---hGG~v~lv~i~~~~~v~~~~~G~C~gC~~s~~Tlk~gvE~~l~~~~Pei~~V~  177 (190)
T TIGR03341       103 DAPLEERINYVLQSEINPQLAS---HGGKVTLVEITDDGVAVLQFGGGCNGCSMVDVTLKDGVEKTLLERFPELKGVR  177 (190)
T ss_pred             CCCHHHHHHHHHHHHCCHHHHH---CCCEEEEEEEECCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             7689999999998602935763---69989999990797899995754899836899999999999998698753588


No 10 
>PRK11190 putative DNA uptake protein; Provisional
Probab=88.79  E-value=2.2  Score=23.36  Aligned_cols=73  Identities=15%  Similarity=0.300  Sum_probs=55.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHH-HHHHHHHHHH-HCCCC-CCEEE
Q ss_conf             35899999999720888889984332040132156039969999996589885178-9999999999-70998-66169
Q gi|254781063|r   29 LERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAG-DMPKWIENAV-GAVEG-ISGVE  104 (129)
Q Consensus        29 ~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~-~i~~~i~~al-~~~~g-v~~V~  104 (129)
                      ..+++++|...|.+=+-|-|..+   =|-|.=+.|.++|.+.|.|.=.+.|||+.. -++..|+..| +.+|| ++.|.
T Consensus       104 d~~l~~~i~~vl~~~i~P~l~~h---GG~v~l~~i~~~~~~~~~~~G~C~gC~~~~~Tlk~gvE~~l~~~~P~ei~~V~  179 (192)
T PRK11190        104 DAPLMERVEYVLQSQINPQLAGH---GGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIEKQLLNEFPGELKGVR  179 (192)
T ss_pred             CCCHHHHHHHHHHHHCCHHHHHC---CCEEEEEEECCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCHHHCEEE
T ss_conf             75599999999987319567637---98799999827988999966657898688999999999999986978670578


No 11 
>TIGR02052 MerP mercuric transport protein periplasmic component; InterPro: IPR011795    This entry represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding . MerP is related to a larger family of metal binding proteins.; GO: 0015097 mercury ion transmembrane transporter activity, 0045340 mercury ion binding, 0015694 mercury ion transport, 0046689 response to mercury ion, 0042597 periplasmic space.
Probab=84.68  E-value=0.43  Score=27.56  Aligned_cols=28  Identities=29%  Similarity=0.720  Sum_probs=21.7

Q ss_pred             ECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             6589885178999999999970998661699999
Q gi|254781063|r   75 LTAPGCPVAGDMPKWIENAVGAVEGISGVEVSIT  108 (129)
Q Consensus        75 lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~  108 (129)
                      +|+..||..      |+.||.+++||..++|.+-
T Consensus        32 MtC~aCPiT------V~~AL~kVdGV~Kaev~f~   59 (92)
T TIGR02052        32 MTCAACPIT------VKTALKKVDGVEKAEVDFK   59 (92)
T ss_pred             CCCCCCCHH------HHHHCCCCCCCCCEEEECC
T ss_conf             866678501------7740643888000000121


No 12 
>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]
Probab=74.05  E-value=8.1  Score=19.91  Aligned_cols=74  Identities=16%  Similarity=0.273  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEEC-CCEEEEEEEECCCCCCHHH-HHHHHHHHHHHCC-CCCCEEEE
Q ss_conf             3589999999972088888998433204013215603-9969999996589885178-9999999999709-98661699
Q gi|254781063|r   29 LERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVEN-DYMVKILMTLTAPGCPVAG-DMPKWIENAVGAV-EGISGVEV  105 (129)
Q Consensus        29 ~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~-~g~V~V~l~lT~~~CP~~~-~i~~~i~~al~~~-~gv~~V~V  105 (129)
                      ...+.++|.++|.+=+-|-+-.   |=|=|.=+.+++ +|.|.+.+-=.+.+||... .++..|++.|+.. +++..|..
T Consensus         7 ~~~~~e~v~~~l~~~irP~l~~---dGGdve~~~i~~~~g~V~l~l~GaC~gC~sS~~TLk~gIE~~L~~~i~ev~~V~~   83 (93)
T COG0694           7 DAELLERVEEVLDEKIRPQLAM---DGGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQLKEEIPEVKEVEQ   83 (93)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEE---CCCEEEEEEEECCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             2899999999998445710210---4980899987568986999967757899662899999999999966886516997


No 13 
>pfam01106 NifU NifU-like domain. This is an alignment of the carboxy-terminal domain. This is the only common region between the NifU protein from nitrogen-fixing bacteria and rhodobacterial species. The biochemical function of NifU is unknown.
Probab=69.57  E-value=10  Score=19.29  Aligned_cols=61  Identities=20%  Similarity=0.235  Sum_probs=38.3

Q ss_pred             HHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHH-HHHHHHHHHH-CCCCCCEE
Q ss_conf             997208888899843320401321560399699999965898851789-9999999997-09986616
Q gi|254781063|r   38 AALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGD-MPKWIENAVG-AVEGISGV  103 (129)
Q Consensus        38 eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~-i~~~i~~al~-~~~gv~~V  103 (129)
                      ++|.. +-|-+..   |=|-|.=+.++ ++.|.|.|.=.+.+||+... +..-|++.|+ .++.+..|
T Consensus         3 ~~le~-IRP~l~~---dGGdvelv~v~-~~~v~v~l~GaC~gC~~s~~Tlk~~Ie~~L~~~vpev~~V   65 (68)
T pfam01106         3 EVIDE-IRPMLQR---DGGDIELVDVD-GDIVKVRLQGACGGCMSSTMTLKGGIERKLRERLGESLRV   65 (68)
T ss_pred             HHHHH-HCHHHHH---CCCCEEEEEEE-CCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCCEE
T ss_conf             79987-5648885---59928999986-9999999812898981089999999999999878997669


No 14 
>TIGR02187 GlrX_arch Glutaredoxin-like domain protein; InterPro: IPR011903   Glutaredoxins , , , also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system .    Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond . It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond.   Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed  that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro.    This entry of archaeal proteins contains a C-terminal domain with homology to bacterial and eukaryotic glutaredoxins, including a CPYC motif. There is an N-terminal domain which has even more distant homology to glutaredoxins. The name "glutaredoxin" may be inappropriate in the sense of working in tandem with glutathione and glutathione reductase which may not be present in the archaea. The overall domain structure appears to be related to bacterial alkylhydroperoxide reductases, but the homology may be distant enough that the function of this family is wholly different..
Probab=66.77  E-value=6.2  Score=20.62  Aligned_cols=30  Identities=27%  Similarity=0.359  Sum_probs=23.7

Q ss_pred             ECCCEEEEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             039969999996589885178999999999
Q gi|254781063|r   64 ENDYMVKILMTLTAPGCPVAGDMPKWIENA   93 (129)
Q Consensus        64 ~~~g~V~V~l~lT~~~CP~~~~i~~~i~~a   93 (129)
                      +..=.+.|-+|+|+|=||.+-.|+...--+
T Consensus       146 ~~~v~I~vfVTPtCPYCP~AV~mAH~fA~~  175 (237)
T TIGR02187       146 DEPVRIEVFVTPTCPYCPRAVLMAHKFALA  175 (237)
T ss_pred             CCCEEEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             983599999856899725799999999983


No 15 
>TIGR00411 redox_disulf_1 redox-active disulfide protein 1; InterPro: IPR004502 This group of proteins includes thioredoxins, glutaredoxins, protein-disulphide isomerases, and others, some of which have several such domains. The sequence of proteins in this group at the redox-active disufide site, CPYC, matches glutaredoxins rather than thioredoxins, although overall the sequence seems closer to thioredoxins. Proteins may be involved in a ribonucleotide-reducing system component distinct from thioredoxin or glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis.
Probab=65.92  E-value=2.5  Score=23.02  Aligned_cols=33  Identities=18%  Similarity=0.375  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCE
Q ss_conf             999996589885178999999999970998661
Q gi|254781063|r   70 KILMTLTAPGCPVAGDMPKWIENAVGAVEGISG  102 (129)
Q Consensus        70 ~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~  102 (129)
                      ++-=-+|+|.||.+....+++.......-.+..
T Consensus         4 ~lFTSPtCPyCP~A~~VV~~vakE~gd~~~v~~   36 (82)
T TIGR00411         4 ELFTSPTCPYCPKAEKVVEEVAKEEGDLVEVEK   36 (82)
T ss_pred             EEECCCCCCCCCCHHHHHHHHHCCCCCEEEEEE
T ss_conf             551188768885436889887405897343222


No 16 
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=61.83  E-value=15  Score=18.38  Aligned_cols=32  Identities=19%  Similarity=0.158  Sum_probs=12.5

Q ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCCCCEEE
Q ss_conf             99658988517899999999997099866169
Q gi|254781063|r   73 MTLTAPGCPVAGDMPKWIENAVGAVEGISGVE  104 (129)
Q Consensus        73 l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~  104 (129)
                      +.+..+.--....+.+++++++++.+|+.+|+
T Consensus       677 i~l~g~d~~~L~~~a~~l~~~L~~~~gv~~V~  708 (1040)
T PRK10503        677 FTLQATSLDALSTWVPKLMNKLQQLPQLSDVS  708 (1040)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHCCCCCEEEE
T ss_conf             99947999999999999999986599935632


No 17 
>pfam07350 DUF1479 Protein of unknown function (DUF1479). This family consists of several hypothetical Enterobacterial proteins, of around 420 residues in length. Members of this family are often known as YbiU. The function of this family is unknown.
Probab=50.91  E-value=22  Score=17.28  Aligned_cols=91  Identities=19%  Similarity=0.183  Sum_probs=56.5

Q ss_pred             HHHHCCCCCCCC-CCEEEECCEEEEEEE--CCCEEEEEEEECCCCCCH-HHHHHHHHHHHHHCCCC--CCEEE--EEEEE
Q ss_conf             997208888899-843320401321560--399699999965898851-78999999999970998--66169--99997
Q gi|254781063|r   38 AALKTVYDPEIP-CDIFELGLIYKIDVE--NDYMVKILMTLTAPGCPV-AGDMPKWIENAVGAVEG--ISGVE--VSITF  109 (129)
Q Consensus        38 eaL~~V~DPEl~-v~IvdLGlV~~i~i~--~~g~V~V~l~lT~~~CP~-~~~i~~~i~~al~~~~g--v~~V~--V~~~~  109 (129)
                      +.|-.|.+=+=| .-.-..-+|..|.-.  +++.-.|...+.+|.|+. ..++..+-+..++..++  ...-.  -+..|
T Consensus       309 ~~mv~iP~v~pGD~V~WHcD~iH~V~~~h~g~~~ssV~Yipa~Pl~~~N~~Yl~~Qr~aFl~G~~ppDF~~~~~~gE~~~  388 (408)
T pfam07350       309 ETMVSIPDVEPGDYVFWHCDLIHAVDPEHNGKGDSSVMYIPAAPLCETNAAYLARQREAFLRGSPPPDFPSDGGGGESEF  388 (408)
T ss_pred             CCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCC
T ss_conf             25333788799986787677544446556888866048851698847899999999999866999888887899754476


Q ss_pred             CCCCCCCCCCHH-HHHHCCC
Q ss_conf             788983306989-9996079
Q gi|254781063|r  110 DPPWTPDLMSEE-AQIATGY  128 (129)
Q Consensus       110 ~p~W~~~~is~~-~r~~lG~  128 (129)
                      .--.+.+.+++. ||.+||+
T Consensus       389 ~gr~~~~dl~~~~G~ramGl  408 (408)
T pfam07350       389 AGRATPEDLTEHGGLRAMGL  408 (408)
T ss_pred             CCCCCHHHHCCHHHHHHCCC
T ss_conf             89889667211002653088


No 18 
>pfam09650 PHA_gran_rgn Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn). Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins found at the surface of PHA granules. These proteins have so far been found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=50.63  E-value=23  Score=17.25  Aligned_cols=69  Identities=13%  Similarity=0.166  Sum_probs=48.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCC-----CCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHC
Q ss_conf             65358999999997208888899-----84332040132156039969999996589885178999999999970
Q gi|254781063|r   27 EDLERISNDIIAALKTVYDPEIP-----CDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGA   96 (129)
Q Consensus        27 ~~~~~l~~~V~eaL~~V~DPEl~-----v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~   96 (129)
                      .......+++.+.|+.-++=+.-     +++--.|.--.+.++ ++.|.+.+.|..-.-|+...|.++|.+.|..
T Consensus        12 ~~ar~~ae~la~~l~~~~g~~~~w~gd~l~F~~~Gv~G~l~v~-~~~v~v~i~Lg~ll~~fkg~Ie~eIe~~LD~   85 (87)
T pfam09650        12 DQARAAAEKLAEKLAEEYGLECEWEGDTLSFKRSGVKGTLHVT-EDKIRVDLKLGFLLSAFKGRIEQEIEKNLDK   85 (87)
T ss_pred             HHHHHHHHHHHHHHHHHHCCEEEEECCEEEEEECCCCEEEEEC-CCEEEEEEECHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999999999859751883689999717754699982-7779999992888887676899999998872


No 19 
>pfam00873 ACR_tran AcrB/AcrD/AcrF family. Members of this family are integral membrane proteins. Some are involved in drug resistance. AcrB cooperates with a membrane fusion protein, AcrA, and an outer membrane channel TolC. The structure shows the AcrB forms a homotrimer.
Probab=50.33  E-value=23  Score=17.23  Aligned_cols=37  Identities=14%  Similarity=0.224  Sum_probs=20.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEE
Q ss_conf             9999996589885178999999999970998661699
Q gi|254781063|r   69 VKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEV  105 (129)
Q Consensus        69 V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V  105 (129)
                      ..|.+.+..+.--....+++++++.+++.+|+.+++-
T Consensus       671 ~~i~i~l~G~d~~~L~~~a~~v~~~L~~~~gv~~v~~  707 (1021)
T pfam00873       671 SDLQVKIFGDGLDALDEARNQILAALAQLPGLADVRP  707 (1021)
T ss_pred             EEEEEEECCCCHHHHHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             2799994799999999999999999835998178754


No 20 
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=48.95  E-value=22  Score=17.26  Aligned_cols=39  Identities=21%  Similarity=0.252  Sum_probs=26.3

Q ss_pred             EEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf             699999965898851789999999999709986616999997
Q gi|254781063|r   68 MVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITF  109 (129)
Q Consensus        68 ~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~  109 (129)
                      ++++-++||.|.||..-...+.+.  +. -+.+..--|+...
T Consensus         2 ~i~vfvS~sCp~CP~~v~~~~~~a--~~-n~~I~~~~id~~~   40 (67)
T cd02973           2 NIEVFVSPTCPYCPDAVQAANRIA--AL-NPNISAEMIDAAE   40 (67)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHH--HH-CCCEEEEEEECCC
T ss_conf             699997699999789999999999--76-8980899999954


No 21 
>TIGR02830 spore_III_AG stage III sporulation protein AG; InterPro: IPR014195    This entry represents the stage III sporulation protein AG, which is encoded in a spore formation operon: spoIIIAABCDEFGH under the control of sigma G . A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species..
Probab=45.96  E-value=27  Score=16.81  Aligned_cols=28  Identities=18%  Similarity=0.413  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCEEEEEEEEC
Q ss_conf             7899999999997099866169999977
Q gi|254781063|r   83 AGDMPKWIENAVGAVEGISGVEVSITFD  110 (129)
Q Consensus        83 ~~~i~~~i~~al~~~~gv~~V~V~~~~~  110 (129)
                      -..+..+-++.|..+.||.+|.|.+.+.
T Consensus        65 E~~~e~~Lk~~Le~I~GVg~V~V~vnL~   92 (193)
T TIGR02830        65 EKEYENELKEILEKIEGVGDVTVMVNLD   92 (193)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEEEEEEC
T ss_conf             9999999999864203756148999965


No 22 
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=41.94  E-value=22  Score=17.27  Aligned_cols=34  Identities=32%  Similarity=0.582  Sum_probs=24.1

Q ss_pred             HHHHHHHHHCCCCCCEEEEE-------EEECCCCCCCCCCH
Q ss_conf             99999999709986616999-------99778898330698
Q gi|254781063|r   87 PKWIENAVGAVEGISGVEVS-------ITFDPPWTPDLMSE  120 (129)
Q Consensus        87 ~~~i~~al~~~~gv~~V~V~-------~~~~p~W~~~~is~  120 (129)
                      +..|+++|++++||.+++|+       +.|++.++++.+-.
T Consensus        13 ~~~Ie~~l~~~~GV~~~~vn~~~~~v~V~~~~~~~~~~i~~   53 (63)
T cd00371          13 VSKIEKALEKLPGVESVEVDLETGKATVEYDPEVSPEELLE   53 (63)
T ss_pred             HHHHHHHHCCCCCCEEEEEECCCCEEEEEECCCCCHHHHHH
T ss_conf             99999997079995799998889999999899999999999


No 23 
>pfam00403 HMA Heavy-metal-associated domain.
Probab=40.46  E-value=27  Score=16.77  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             99999999970998661699999
Q gi|254781063|r   86 MPKWIENAVGAVEGISGVEVSIT  108 (129)
Q Consensus        86 i~~~i~~al~~~~gv~~V~V~~~  108 (129)
                      -...|+++|.+++||.++.|++.
T Consensus        12 C~~~Ie~~l~~~~GV~~v~v~~~   34 (62)
T pfam00403        12 CAKKVEKALSKLPGVSSVSVDLE   34 (62)
T ss_pred             HHHHHHHHHHCCCCCEEEEEECC
T ss_conf             99999999855999549999878


No 24 
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=39.40  E-value=30  Score=16.54  Aligned_cols=35  Identities=23%  Similarity=0.448  Sum_probs=25.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             99996589885178999999999970998661699999
Q gi|254781063|r   71 ILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSIT  108 (129)
Q Consensus        71 V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~  108 (129)
                      ..+......|...   ...++++|..++||.+|+|++.
T Consensus         4 ~~l~v~~MtC~~C---~~~V~~al~~v~gv~~v~v~l~   38 (71)
T COG2608           4 TTLKVEGMTCGHC---VKTVEKALEEVDGVASVDVDLE   38 (71)
T ss_pred             EEEEECCCCCHHH---HHHHHHHHHCCCCCEEEEEECC
T ss_conf             6997779294899---9999998843898239999522


No 25 
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=37.93  E-value=36  Score=16.06  Aligned_cols=72  Identities=24%  Similarity=0.307  Sum_probs=43.3

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             88565358999999997208888899843320401321560399699999965898851789999999999709986616
Q gi|254781063|r   24 IPPEDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGV  103 (129)
Q Consensus        24 ~~~~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V  103 (129)
                      .+..+.+.++++|.+.|..-+      .   ++-+..--+ .-|...+.+....+.   .....+.+..++.++.||.++
T Consensus        14 s~evDle~L~e~ik~~l~~~~------~---i~~~e~ePi-AFGLkaL~v~vv~~D---~eG~tD~~Ee~~~~iegV~sv   80 (88)
T PRK00435         14 SPEVDLDELKEKIKEKLPEGY------E---INRIEEEPI-AFGLKALKLYVIMPD---EEGGTDPVEEAFAAVEGVESV   80 (88)
T ss_pred             CCCCCHHHHHHHHHHHCCCCC------E---EEEEEEEEE-ECCCEEEEEEEEEEC---CCCCCHHHHHHHHCCCCCCEE
T ss_conf             988699999999997575876------4---746678845-645232799999975---886837999998546896579


Q ss_pred             EEEEE
Q ss_conf             99999
Q gi|254781063|r  104 EVSIT  108 (129)
Q Consensus       104 ~V~~~  108 (129)
                      +|.-+
T Consensus        81 eV~~v   85 (88)
T PRK00435         81 EVEEV   85 (88)
T ss_pred             EEEEE
T ss_conf             99988


No 26 
>PRK10775 cell division protein FtsQ; Provisional
Probab=37.39  E-value=35  Score=16.10  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=16.8

Q ss_pred             HHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf             99999999709986616999997
Q gi|254781063|r   87 PKWIENAVGAVEGISGVEVSITF  109 (129)
Q Consensus        87 ~~~i~~al~~~~gv~~V~V~~~~  109 (129)
                      .++++++++++|+|.+|.|+-.|
T Consensus        93 l~~iq~~le~lPWV~~asVRR~W  115 (274)
T PRK10775         93 VNIIQQQIERLPWIKQVSVRKQW  115 (274)
T ss_pred             HHHHHHHHHHCCCEEEEEEEEEC
T ss_conf             99999999849993378899848


No 27 
>KOG4656 consensus
Probab=35.10  E-value=40  Score=15.78  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHHHCCCCCCEEEEEE
Q ss_conf             899999999997099866169999
Q gi|254781063|r   84 GDMPKWIENAVGAVEGISGVEVSI  107 (129)
Q Consensus        84 ~~i~~~i~~al~~~~gv~~V~V~~  107 (129)
                      +.-..+++.+|+.++|+.+|+|.+
T Consensus        18 escvnavk~~L~~V~Gi~~vevdl   41 (247)
T KOG4656          18 ESCVNAVKACLKGVPGINSVEVDL   41 (247)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEEH
T ss_conf             778899999860688710478771


No 28 
>pfam03612 EIIBC-GUT_N Sorbitol phosphotransferase enzyme II N-terminus.
Probab=35.04  E-value=18  Score=17.89  Aligned_cols=75  Identities=16%  Similarity=0.165  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHH---------HCCCCCCCCCCEEEECCEEEEEEEC-CCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             58999999997---------2088888998433204013215603-9969999996589885178999999999970998
Q gi|254781063|r   30 ERISNDIIAAL---------KTVYDPEIPCDIFELGLIYKIDVEN-DYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEG   99 (129)
Q Consensus        30 ~~l~~~V~eaL---------~~V~DPEl~v~IvdLGlV~~i~i~~-~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~g   99 (129)
                      .++.++|-+..         ..+.|-|+..-|+|.|---++-+-. .+.-+|.+.+|.+.-|++..|.++|--     .+
T Consensus        36 ~~i~~kiaeltG~e~vdgFk~~~p~eei~~~viDCGGTlRcGiYPkk~IpTini~ptg~sGPLA~~I~ediyV-----S~  110 (182)
T pfam03612        36 PPVVDKIAELTGAEAVDGFKTSIPDEEIALVVIDCGGTLRCGLYPKKRIPTINVLPTGKSGPLAKFITEDIYV-----SG  110 (182)
T ss_pred             CHHHHHHHHHHCCEECCCCCCCCCHHHEEEEEECCCCEEEECCCCCCCCCEEEECCCCCCCHHHHHHCCCCEE-----EE
T ss_conf             8799999997698033670689983786999990687057423345788627632489985066662026447-----40


Q ss_pred             CCEEEEEEEE
Q ss_conf             6616999997
Q gi|254781063|r  100 ISGVEVSITF  109 (129)
Q Consensus       100 v~~V~V~~~~  109 (129)
                      |..-.|++..
T Consensus       111 V~~~~I~l~d  120 (182)
T pfam03612       111 VTPEQISLVD  120 (182)
T ss_pred             CCHHHEEECC
T ss_conf             3677868825


No 29 
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II  (metal dependent) aldolase subfamilies.
Probab=33.25  E-value=42  Score=15.60  Aligned_cols=89  Identities=16%  Similarity=0.157  Sum_probs=59.4

Q ss_pred             HHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCC--C---CHHHHHHHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf             999997208888899843320401321560399699999965898--8---51789999999999709986616999997
Q gi|254781063|r   35 DIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPG--C---PVAGDMPKWIENAVGAVEGISGVEVSITF  109 (129)
Q Consensus        35 ~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~--C---P~~~~i~~~i~~al~~~~gv~~V~V~~~~  109 (129)
                      .....++.+.+....-=+...|+++...-.-.+.+.+.+.++...  .   +....+.-.+++|++-  |...|.+.+-|
T Consensus        22 d~~~~i~~~~~~g~dai~~~~G~~~~~~~~~~~~~~li~~ls~~t~~~~~~~~~~~l~~sVeeAvrl--GAdaV~~~v~~   99 (235)
T cd00958          22 DPEETVKLAAEGGADAVALTKGIARAYGREYAGDIPLIVKLNGSTSLSPKDDNDKVLVASVEDAVRL--GADAVGVTVYV   99 (235)
T ss_pred             CHHHHHHHHHHCCCCEEEECHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCCCHHHHHCCHHHHHHC--CCCEEEEEEEC
T ss_conf             9899999998649999998888997515321578766999646764578885177665169999835--55679999868


Q ss_pred             CCCCCCCCCCHHHHHH
Q ss_conf             7889833069899996
Q gi|254781063|r  110 DPPWTPDLMSEEAQIA  125 (129)
Q Consensus       110 ~p~W~~~~is~~~r~~  125 (129)
                      --+-..+|+.+-+|..
T Consensus       100 Gs~~E~~~l~~l~~v~  115 (235)
T cd00958         100 GSEEEREMLEELARVA  115 (235)
T ss_pred             CCCHHHHHHHHHHHHH
T ss_conf             9816899999999999


No 30 
>TIGR01608 citD citrate lyase acyl carrier protein; InterPro: IPR006495    This group of sequences represent the acyl carrier protein (gamma subunit) of the holoenzyme citrate lyase (4.1.3.6 from EC) composed of alpha (2.8.3.10 from EC), beta (4.1.3.34 from EC), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The acyl carrier protein covalently binds the coenzyme of citrate lyase. The set contains an experimentally characterised member from Leuconostoc mesenteroides . The sequences come from a wide range of Gram-positive bacteria. For Gram-negative bacteria, it appears that only sequences from the gamma proteobacteria are included..
Probab=31.89  E-value=45  Score=15.46  Aligned_cols=48  Identities=17%  Similarity=0.264  Sum_probs=32.9

Q ss_pred             EEEECCCEEEEEEEECCCCC-CHHHHHHHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf             15603996999999658988-51789999999999709986616999997
Q gi|254781063|r   61 IDVENDYMVKILMTLTAPGC-PVAGDMPKWIENAVGAVEGISGVEVSITF  109 (129)
Q Consensus        61 i~i~~~g~V~V~l~lT~~~C-P~~~~i~~~i~~al~~~~gv~~V~V~~~~  109 (129)
                      |.+++..+.-|.+-|++.=. =++..|.+-|++.|..+ ||+++.|+++.
T Consensus        19 v~v~pa~~~Gi~~~l~S~VkkQFg~~I~~~vkeTL~~l-Gv~~a~v~v~D   67 (95)
T TIGR01608        19 VSVEPAAQVGIEIDLSSSVKKQFGDEIEKVVKETLKEL-GVENAVVKVVD   67 (95)
T ss_pred             EEECCCCCCCEEEEEECHHHHHHHHHHHHHHHHHHHHC-CCCEEEEEEEC
T ss_conf             77324888847887520177775799999999989865-94435688724


No 31 
>pfam05768 DUF836 Glutaredoxin-like domain (DUF836). These proteins are related to the pfam00462 family.
Probab=29.51  E-value=49  Score=15.22  Aligned_cols=40  Identities=18%  Similarity=0.244  Sum_probs=25.1

Q ss_pred             EEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCC
Q ss_conf             99658988517899999999997099866169999977889
Q gi|254781063|r   73 MTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFDPPW  113 (129)
Q Consensus        73 l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W  113 (129)
                      .-.|.++|++.+....-+...... .++.=..|++.-++.|
T Consensus         3 ~Ly~r~gChLCe~a~~~L~~~~~~-~~~~~~~vdI~~d~~L   42 (76)
T pfam05768         3 TLYGKPGCHLCEGAKEVLAELEAA-LGFDLERIDIDDDEEL   42 (76)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHC-CCCEEEEEECCCCHHH
T ss_conf             999189957389999999987534-5955999988899899


No 32 
>PRK07226 fructose-bisphosphate aldolase; Provisional
Probab=28.65  E-value=45  Score=15.42  Aligned_cols=89  Identities=17%  Similarity=0.224  Sum_probs=56.7

Q ss_pred             HHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCC--C--CHHHHHHHHHHHHHHCCCCCCEEEEEEEEC
Q ss_conf             999997208888899843320401321560399699999965898--8--517899999999997099866169999977
Q gi|254781063|r   35 DIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPG--C--PVAGDMPKWIENAVGAVEGISGVEVSITFD  110 (129)
Q Consensus        35 ~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~--C--P~~~~i~~~i~~al~~~~gv~~V~V~~~~~  110 (129)
                      .....++.+.+-...-=+..+|+++...-.-.+.+-+.+.++...  .  +....+...+++|++  -|...|.+.+-|-
T Consensus        40 d~~~~i~~~~~~g~dai~~~~G~~~~~~~~~~~~~~lil~l~~~t~~~~~~~~~~~~~sVeeAvr--lGAdaV~~~v~~G  117 (266)
T PRK07226         40 DMRETVNKVAEGGADAVLMHKGLARHGHRGYGRDVGLIVHLSASTSLSPDPNDKVLVGTVEDAIK--LGADAVSVHVNVG  117 (266)
T ss_pred             CHHHHHHHHHHCCCCEEEECHHHHHHCCCCCCCCCCEEEEECCCCCCCCCCCHHEEECCHHHHHH--CCCCEEEEEEECC
T ss_conf             99999999986399999967677864352215788749994377314788640101214999985--5877899985479


Q ss_pred             CCCCCCCCCHHHHHH
Q ss_conf             889833069899996
Q gi|254781063|r  111 PPWTPDLMSEEAQIA  125 (129)
Q Consensus       111 p~W~~~~is~~~r~~  125 (129)
                      -+-..+++.+-++..
T Consensus       118 s~~E~~~l~~l~~l~  132 (266)
T PRK07226        118 SETEAEMLEDLGRIA  132 (266)
T ss_pred             CCCHHHHHHHHHHHH
T ss_conf             983799999999999


No 33 
>TIGR00003 TIGR00003 copper ion binding protein; InterPro: IPR006122    Proteins that transport heavy metals in micro-organisms and eukaryotes share similarities in their sequences and structures.    These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases .    A conserved 30-residue domain has been found in a number of these heavy metal transport or detoxification proteins . The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. This sub-domain is found in copper-binding proteins. ; GO: 0005507 copper ion binding, 0006825 copper ion transport.
Probab=27.08  E-value=38  Score=15.88  Aligned_cols=22  Identities=41%  Similarity=0.607  Sum_probs=19.1

Q ss_pred             HHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             9999999970998661699999
Q gi|254781063|r   87 PKWIENAVGAVEGISGVEVSIT  108 (129)
Q Consensus        87 ~~~i~~al~~~~gv~~V~V~~~  108 (129)
                      .+.|+.++.+++||..|.|++.
T Consensus        15 V~~iE~~VGel~GVs~v~v~L~   36 (66)
T TIGR00003        15 VDKIEKFVGELEGVSAVKVQLE   36 (66)
T ss_pred             HHHHHHHCCEECCCEEEEEEEE
T ss_conf             7765410470037306766763


No 34 
>pfam09129 Chol_subst-bind Cholesterol oxidase, substrate-binding. The substrate-binding domain found in Cholesterol oxidase is composed of an eight-stranded mixed beta-pleated sheet and six alpha-helices. This domain is positioned over the isoalloxazine ring system of the FAD cofactor bound by FAD_binding_4 (PF:PF01565) and forms the roof of the active site cavity, allowing for catalysis of oxidation and isomerisation of cholesterol to cholest-4-en-3-one.
Probab=25.62  E-value=58  Score=14.80  Aligned_cols=43  Identities=19%  Similarity=0.224  Sum_probs=32.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCC
Q ss_conf             9996589885178999999999970998661699999778898
Q gi|254781063|r   72 LMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFDPPWT  114 (129)
Q Consensus        72 ~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W~  114 (129)
                      .=.||-||-|.+..+-.++++-+.+...-....|+.-|+.-|.
T Consensus       222 ldiLtlPGTp~a~~FyrEiEqwm~~~y~g~yAtvRpEWSKGWa  264 (321)
T pfam09129       222 LDILGVPGTPGANEFYREMEQWMRSHYSGDYATFRPEWSKGWG  264 (321)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHCCCCCCCEECCCCCCCCC
T ss_conf             5323688984577899999999983257876336312035644


No 35 
>PRK08744 consensus
Probab=25.45  E-value=58  Score=14.78  Aligned_cols=72  Identities=11%  Similarity=0.248  Sum_probs=42.3

Q ss_pred             HHHHHHHCCCCCCC-CCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCC
Q ss_conf             99999720888889-98433204013215603996999999658988517899999999997099866169999977889
Q gi|254781063|r   35 DIIAALKTVYDPEI-PCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFDPPW  113 (129)
Q Consensus        35 ~V~eaL~~V~DPEl-~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~p~W  113 (129)
                      ..++.|+.+..|.- |..=|.+.+++...   .+.+...+.|.....   -...++...+|++++|+.+  |++.++|||
T Consensus      1123 ~~~~~l~~~l~~~~~g~~~v~~~~~~~~~---~~~~~~~l~l~~~~~---v~~~~~l~~~l~~~~g~~~--v~~~y~~~~ 1194 (1195)
T PRK08744       1123 QAWSRIDALLAKHRPGKTPLRLDLLLRSP---SGGVAGMLDLNGSHS---VRIDQQLMDSLRADPAVRT--LKVKYSPPW 1194 (1195)
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEEEEEECC---CCCEEEEEECCCCCC---CCCCHHHHHHHHHCCCCCE--EEEEECCCC
T ss_conf             58999999998338999864899999627---887579997388575---3789999999985328552--899848999


Q ss_pred             C
Q ss_conf             8
Q gi|254781063|r  114 T  114 (129)
Q Consensus       114 ~  114 (129)
                      .
T Consensus      1195 ~ 1195 (1195)
T PRK08744       1195 A 1195 (1195)
T ss_pred             C
T ss_conf             9


No 36 
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=24.88  E-value=46  Score=15.37  Aligned_cols=25  Identities=28%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             HHHHHHCCCCCCCCCCEEEECCEEE
Q ss_conf             9999720888889984332040132
Q gi|254781063|r   36 IIAALKTVYDPEIPCDIFELGLIYK   60 (129)
Q Consensus        36 V~eaL~~V~DPEl~v~IvdLGlV~~   60 (129)
                      .-+++..++|||-|..|.|||==.+
T Consensus        36 lA~~M~s~I~pesglpVlElGPGTG   60 (194)
T COG3963          36 LARKMASVIDPESGLPVLELGPGTG   60 (194)
T ss_pred             HHHHHHHCCCCCCCCEEEEECCCCC
T ss_conf             9999984348445976477769866


No 37 
>COG3732 SrlE Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]
Probab=24.34  E-value=51  Score=15.10  Aligned_cols=61  Identities=20%  Similarity=0.239  Sum_probs=47.0

Q ss_pred             CCCCCCCEEEECCEEEEEEEC-CCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEEEC
Q ss_conf             888998433204013215603-996999999658988517899999999997099866169999977
Q gi|254781063|r   45 DPEIPCDIFELGLIYKIDVEN-DYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSITFD  110 (129)
Q Consensus        45 DPEl~v~IvdLGlV~~i~i~~-~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~~  110 (129)
                      +-|+..-++|.|---++-+-. .+.-+|.+.+|.+.-|+++.|.+|+-     +.||+.-++.++-.
T Consensus        61 e~ei~~vvidCgGt~RcGvYP~kripTini~~t~~sGPLaq~I~Ediy-----VSgVk~~~i~l~d~  122 (328)
T COG3732          61 EEEIGCVVIDCGGTLRCGVYPKKRIPTINILPTGKSGPLAQFIVEDIY-----VSGVKPENITLVDG  122 (328)
T ss_pred             CCEEEEEEEECCCEEEECCCCCCCCCEEEECCCCCCCCHHHHHHHHCE-----ECCCCHHHEEEECC
T ss_conf             642689999058704632434467862662358888607887644301-----10356788587247


No 38 
>pfam03780 DUF322 Protein of unknown function (DUF322). This is a family of small proteins. It includes a protein identified as an alkaline shock protein so may be involved in stress response.
Probab=23.56  E-value=63  Score=14.56  Aligned_cols=45  Identities=24%  Similarity=0.308  Sum_probs=29.5

Q ss_pred             EECCCEEEEEEEECC-CCCC---HHHHHHHHHHHHHHCCCCCCEEEEEE
Q ss_conf             603996999999658-9885---17899999999997099866169999
Q gi|254781063|r   63 VENDYMVKILMTLTA-PGCP---VAGDMPKWIENAVGAVEGISGVEVSI  107 (129)
Q Consensus        63 i~~~g~V~V~l~lT~-~~CP---~~~~i~~~i~~al~~~~gv~~V~V~~  107 (129)
                      +++++.+.|++.+.. .|+|   .+..+++.++.+++...|++-.+|++
T Consensus        54 ~~~~~~v~v~l~v~v~YG~~i~~v~~~iq~~V~~~v~~mtgl~V~~VnV  102 (108)
T pfam03780        54 VGEEGQVAIDLYVIVEYGVNIPEVAKNIQEKVKYAVENMTGLEVSEVNV  102 (108)
T ss_pred             ECCCCEEEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCEEEEEEE
T ss_conf             8679869999999997799889999999999999999987986789999


No 39 
>pfam08478 POTRA_1 POTRA domain, FtsQ-type. FtsQ/DivIB bacterial division proteins (pfam03799) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts.
Probab=23.55  E-value=63  Score=14.56  Aligned_cols=31  Identities=16%  Similarity=0.110  Sum_probs=23.7

Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf             8851789999999999709986616999997
Q gi|254781063|r   79 GCPVAGDMPKWIENAVGAVEGISGVEVSITF  109 (129)
Q Consensus        79 ~CP~~~~i~~~i~~al~~~~gv~~V~V~~~~  109 (129)
                      +-++...=.+++++.+++.++|.+|.|+-.|
T Consensus        26 ~~~~~~i~~~~i~~~l~~~p~I~~a~V~r~~   56 (67)
T pfam08478        26 GTSFFSVDLNAIEDRLEKLPWIKSASVRRQW   56 (67)
T ss_pred             CCCEEEECHHHHHHHHHCCCCEEEEEEEEEC
T ss_conf             9927999899999987478872699999977


No 40 
>pfam02700 PurS Phosphoribosylformylglycinamidine (FGAM) synthase. This family forms a component of the de novo purine biosynthesis pathway.
Probab=23.55  E-value=63  Score=14.56  Aligned_cols=53  Identities=17%  Similarity=0.147  Sum_probs=33.9

Q ss_pred             EEEECC--EEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             332040--132156039969999996589885178999999999970998661699999
Q gi|254781063|r   52 IFELGL--IYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVSIT  108 (129)
Q Consensus        52 IvdLGl--V~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~~~  108 (129)
                      +..||+  |.++++   |. .+.+++-....-.+....+++-+.|.+-+=+.+.++++.
T Consensus        25 L~~lG~~~v~~vr~---GK-~iel~i~~~~~e~a~~~v~~~c~~lLaNpVIE~y~i~i~   79 (80)
T pfam02700        25 LHRLGYEGVEDVRI---GK-YIELTLEAEDEEEAEEQVEEMCDKLLANPVIEDYRIELE   79 (80)
T ss_pred             HHHCCCCCCCEEEE---EE-EEEEEECCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEEE
T ss_conf             98648644222774---12-999998689989999999999998638875466999997


No 41 
>TIGR02794 tolA_full protein TolA; InterPro: IPR014161   TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cut-offs are based largely on conserved operon structure. The Tol-Pal complex is required for maintaining outer membrane integrity, and is also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins OmpC, PhoE and LamB..
Probab=23.54  E-value=63  Score=14.56  Aligned_cols=68  Identities=18%  Similarity=0.230  Sum_probs=42.1

Q ss_pred             CHHHHHHHHHHHHHC---CCCCCCCCCEEEECCEEEEEEECCCEEEEEE--EECCCCCCHHHHHHHHHHHHHHCCC
Q ss_conf             535899999999720---8888899843320401321560399699999--9658988517899999999997099
Q gi|254781063|r   28 DLERISNDIIAALKT---VYDPEIPCDIFELGLIYKIDVENDYMVKILM--TLTAPGCPVAGDMPKWIENAVGAVE   98 (129)
Q Consensus        28 ~~~~l~~~V~eaL~~---V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l--~lT~~~CP~~~~i~~~i~~al~~~~   98 (129)
                      +.+.....|......   ++++.   +.-.+=-+..|++..||.|.|.=  .-.++|||+=..+.+.+..+|....
T Consensus       354 e~~~Y~~~~~~~i~~~~~~~~~~---s~~g~~c~~~i~l~pdG~~~~~~~r~~~~sG~PYd~~~c~Aa~~AV~~~~  426 (452)
T TIGR02794       354 EVDKYAAIIKQAIQQNKNLYDDP---SFRGKTCTVRIRLAPDGTVTLLSARVTKSSGAPYDPALCQAALAAVAKAA  426 (452)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCH---HCCCCEEEEEEEECCCCCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHC
T ss_conf             78899999999988642356731---01798899988874898578853167536888998677699999999827


No 42 
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=23.10  E-value=64  Score=14.51  Aligned_cols=28  Identities=11%  Similarity=0.265  Sum_probs=20.0

Q ss_pred             EECCCEEEEEEEECCCCCCHHHHHHHHH
Q ss_conf             6039969999996589885178999999
Q gi|254781063|r   63 VENDYMVKILMTLTAPGCPVAGDMPKWI   90 (129)
Q Consensus        63 i~~~g~V~V~l~lT~~~CP~~~~i~~~i   90 (129)
                      ++..-++++-++||++.||-.-+..+.+
T Consensus        10 i~~~~~i~vfVSlsC~~CP~vV~a~~~~   37 (89)
T cd03026          10 LNGPINFETYVSLSCHNCPDVVQALNLM   37 (89)
T ss_pred             CCCCEEEEEEECCCCCCCHHHHHHHHHH
T ss_conf             6997689999828999978999999999


No 43 
>TIGR02346 chap_CCT_theta T-complex protein 1, theta subunit; InterPro: IPR012721    Members of this eukaryotic family are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT theta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=23.00  E-value=65  Score=14.49  Aligned_cols=71  Identities=14%  Similarity=0.148  Sum_probs=50.3

Q ss_pred             HHHHHHHCCCCCCCCC-CEEEECCEEEEEEECCCEEEEEEEECCCC--C--------CHHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             9999972088888998-43320401321560399699999965898--8--------51789999999999709986616
Q gi|254781063|r   35 DIIAALKTVYDPEIPC-DIFELGLIYKIDVENDYMVKILMTLTAPG--C--------PVAGDMPKWIENAVGAVEGISGV  103 (129)
Q Consensus        35 ~V~eaL~~V~DPEl~v-~IvdLGlV~~i~i~~~g~V~V~l~lT~~~--C--------P~~~~i~~~i~~al~~~~gv~~V  103 (129)
                      ++=..+....=|-|+. +--|||.|..|.+.+=|..+|++.=---.  |        .+.+-+-+||+||+.  +||..+
T Consensus       325 RlCk~~gA~~l~rL~~P~PEe~G~vds~~v~EIG~~~VTvf~~e~~di~~~~TIiLRGsT~N~LDDiERAiD--DGVN~~  402 (554)
T TIGR02346       325 RLCKTVGATPLARLGAPQPEELGYVDSVYVSEIGGQKVTVFKQENGDISKISTIILRGSTKNLLDDIERAID--DGVNVI  402 (554)
T ss_pred             HHHHHHCCCCCCCCCCCCHHHCCCEEEEEEEEECCCEEEEEEEECCCCCCCCCEEECCCCCCHHHHHHHHHH--CCHHHH
T ss_conf             999880777735183458226442007999998584889997303775432116752300001344444430--431210


Q ss_pred             EEEE
Q ss_conf             9999
Q gi|254781063|r  104 EVSI  107 (129)
Q Consensus       104 ~V~~  107 (129)
                      +.-+
T Consensus       403 K~L~  406 (554)
T TIGR02346       403 KALV  406 (554)
T ss_pred             HEEE
T ss_conf             1000


No 44 
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=22.36  E-value=67  Score=14.42  Aligned_cols=47  Identities=17%  Similarity=0.217  Sum_probs=32.1

Q ss_pred             ECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             0401321560399699999965898851789999999999709986616999
Q gi|254781063|r   55 LGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAVGAVEGISGVEVS  106 (129)
Q Consensus        55 LGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al~~~~gv~~V~V~  106 (129)
                      |-....+-+  +|.+.+++.+-++   ..+.=.+.+-.+++.+.+|..|++-
T Consensus       101 LTI~Q~ipl--~g~Anvtlsi~~s---sm~~~V~~ii~kl~k~e~V~kVeiv  147 (150)
T COG4492         101 LTIHQTIPL--QGRANVTLSIDTS---SMEKDVDKIIEKLRKVEGVEKVEIV  147 (150)
T ss_pred             EEEECCCCC--CCEEEEEEEEECH---HHHHHHHHHHHHHHCCCCEEEEEEE
T ss_conf             998604443--7642589999713---3242299999998521554689985


No 45 
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=22.35  E-value=67  Score=14.42  Aligned_cols=78  Identities=13%  Similarity=0.262  Sum_probs=40.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCCCEEEECCEEEEEEECCCEEEEEEEECCCCCC---HHHHHHHHHHHHHHCCCCCCEE
Q ss_conf             6535899999999720888889984332040132156039969999996589885---1789999999999709986616
Q gi|254781063|r   27 EDLERISNDIIAALKTVYDPEIPCDIFELGLIYKIDVENDYMVKILMTLTAPGCP---VAGDMPKWIENAVGAVEGISGV  103 (129)
Q Consensus        27 ~~~~~l~~~V~eaL~~V~DPEl~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP---~~~~i~~~i~~al~~~~gv~~V  103 (129)
                      .+.+...++|++++.++. +.+|-++-+-+... ....+.....+.+..+...-.   +.+.++++++..++.++||.+|
T Consensus        98 ~d~~~a~~~v~~~v~~~~-~~LP~~~~~p~i~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~L~~v~GV~~V  175 (1037)
T PRK10555         98 TDPDEAVQQVQNQLQSAM-RKLPQAVQNQGVTV-RKTGDTNILTIAFVSTDGSMDKQDIADYVASNIQDPLSRVNGVGDI  175 (1037)
T ss_pred             CCHHHHHHHHHHHHHHHH-HCCCCCCCCCCCEE-CCCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             998999999999999888-53997546786441-1468740799999917999799999999999999997369993698


Q ss_pred             EEE
Q ss_conf             999
Q gi|254781063|r  104 EVS  106 (129)
Q Consensus       104 ~V~  106 (129)
                      ++.
T Consensus       176 ~~~  178 (1037)
T PRK10555        176 DAY  178 (1037)
T ss_pred             EEC
T ss_conf             733


No 46 
>TIGR00904 mreB cell shape determining protein, MreB/Mrl family; InterPro: IPR004753   Bacterial cell shape varies greatly between species, and characteristic morphologies are used for identification purposes. In addition to individual cell shape, the way in which groups of cells are arranged is also typical of some bacterial species, especially Gram-positive coccoids. For many years, it was believed that micro-organisms with other than spheroidal cell shapes maintained morphology by means of their external cell walls. Recently, however, studies of the Gram-positive rod Bacillus subtilis have revealed two related genes that are essential for the integrity of cell morphogenesis . Termed mreB and mbl, the gene products localise close to the cell surface, forming filamentous helical structures. Many homologues have been found in diverse bacterial groups, suggesting a common ancestor .    The crystal structure of MreB from Thermotoga maritima has been resolved using X-ray crystallography . It consists of 19 beta-strands and 15 alpha- helices, and shows remarkable structural similarity to eukaryotic actin. MreB crystals also contain proto-filaments, with individual proteins assembling into polymers like F-actin, in the same orientation. It is hypothesised therefore, that MreB was the forerunner of actin in early eukaryotes .; GO: 0000902 cell morphogenesis.
Probab=20.73  E-value=53  Score=15.00  Aligned_cols=28  Identities=29%  Similarity=0.605  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCEEEECCE
Q ss_conf             58999999997208888899843320401
Q gi|254781063|r   30 ERISNDIIAALKTVYDPEIPCDIFELGLI   58 (129)
Q Consensus        30 ~~l~~~V~eaL~~V~DPEl~v~IvdLGlV   58 (129)
                      ...-+.|+-+|..+ -|||.-||+|=|+|
T Consensus       261 ~~IV~aVk~tLE~t-PPELA~DIveRGiV  288 (337)
T TIGR00904       261 NQIVEAVKSTLEKT-PPELAADIVERGIV  288 (337)
T ss_pred             HHHHHHHHHHHHCC-CCCHHHHHHHCCEE
T ss_conf             89999999875168-87046577646937


No 47 
>PRK05783 hypothetical protein; Provisional
Probab=20.66  E-value=72  Score=14.20  Aligned_cols=65  Identities=17%  Similarity=0.171  Sum_probs=37.4

Q ss_pred             CCCCCCC---CCCEEEECCEEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHH-HCCCCCCEEEEEEE
Q ss_conf             0888889---9843320401321560399699999965898851789999999999-70998661699999
Q gi|254781063|r   42 TVYDPEI---PCDIFELGLIYKIDVENDYMVKILMTLTAPGCPVAGDMPKWIENAV-GAVEGISGVEVSIT  108 (129)
Q Consensus        42 ~V~DPEl---~v~IvdLGlV~~i~i~~~g~V~V~l~lT~~~CP~~~~i~~~i~~al-~~~~gv~~V~V~~~  108 (129)
                      .|.|||=   ..+++.+|+-+-..+-. |.. +.+++....---+....+++-..+ ..-|-|+.+.|++.
T Consensus        14 gi~DPeG~TI~~~L~~~g~~~v~~vR~-GK~-l~~~iea~s~eeA~~~v~~ic~~lrL~NPvI~~~~i~v~   82 (84)
T PRK05783         14 GIRDPEGETIQRYVLERMLGYSIEVRA-GKC-LVFRIEASSPEEAQELALKLAKEMRLGNPIVHKIVVRVE   82 (84)
T ss_pred             CCCCCCHHHHHHHHHHHCCCCEEEEEE-EEE-EEEEEECCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEEE
T ss_conf             775963379999999855896489871-049-999994799899999999999862034985289999996


No 48 
>pfam02084 Bindin Bindin.
Probab=20.52  E-value=31  Score=16.44  Aligned_cols=39  Identities=28%  Similarity=0.549  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHCCCCC---CCCCCE---EEECCEEEEEEECCC
Q ss_conf             358999999997208888---899843---320401321560399
Q gi|254781063|r   29 LERISNDIIAALKTVYDP---EIPCDI---FELGLIYKIDVENDY   67 (129)
Q Consensus        29 ~~~l~~~V~eaL~~V~DP---El~v~I---vdLGlV~~i~i~~~g   67 (129)
                      ...+..+|++.+|.|.--   +|||||   +||||.-+--....+
T Consensus        96 etTIsAkvm~~IKAVLGATKIDLPVDINDPYDLGLLLRHLRHHSN  140 (239)
T pfam02084        96 DTTISADVMEKIKAVLGATKIDLPVDINDPYDLGLLLRHLRHHSN  140 (239)
T ss_pred             CCEEEHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             753509999989998575434674436873367899999887777


Done!