Query         gi|254780311|ref|YP_003064724.1| hypothetical protein CLIBASIA_00980 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 177
No_of_seqs    109 out of 1613
Neff          7.5 
Searched_HMMs 39220
Date          Sun May 29 16:10:47 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780311.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 COG0678 AHP1 Peroxiredoxin [Po 100.0       0       0  317.1  14.0  161    1-172     4-165 (165)
  2 cd03013 PRX5_like Peroxiredoxi 100.0       0       0  304.5  12.7  150   15-170     1-155 (155)
  3 KOG0541 consensus              100.0       0       0  275.7  11.0  155   12-172     8-171 (171)
  4 COG1225 Bcp Peroxiredoxin [Pos 100.0 1.2E-32 3.1E-37  195.8  12.4  152   11-176     2-156 (157)
  5 cd03015 PRX_Typ2cys Peroxiredo 100.0 3.1E-31 7.9E-36  188.3  13.2  145   15-176     1-157 (173)
  6 TIGR03137 AhpC peroxiredoxin.  100.0 6.2E-31 1.6E-35  186.7  12.5  148   11-176     1-156 (187)
  7 PTZ00253 tryparedoxin peroxida 100.0 1.4E-30 3.7E-35  184.7  14.2  148   12-176     5-164 (199)
  8 PRK13190 putative peroxiredoxi 100.0 7.5E-31 1.9E-35  186.2  12.0  148   12-176     1-154 (202)
  9 PRK00522 tpx thiol peroxidase; 100.0 1.1E-30 2.7E-35  185.4  12.1  148   12-174    18-168 (168)
 10 PTZ00137 2-Cys peroxiredoxin;  100.0 1.4E-30 3.6E-35  184.7  12.5  149   11-176     1-160 (194)
 11 PRK09437 bcp thioredoxin-depen 100.0 1.4E-30 3.7E-35  184.7  11.9  149   12-176     3-156 (156)
 12 cd03016 PRX_1cys Peroxiredoxin 100.0 3.5E-30   9E-35  182.6  13.6  148   15-176     1-154 (203)
 13 PRK13189 peroxiredoxin; Provis 100.0 8.6E-30 2.2E-34  180.5  13.4  148   14-176     3-156 (215)
 14 cd03014 PRX_Atyp2cys Peroxired 100.0 5.8E-30 1.5E-34  181.4  12.1  140   14-171     1-143 (143)
 15 PRK10382 alkyl hydroperoxide r 100.0 2.5E-29 6.4E-34  178.0  13.5  145   15-176     4-156 (187)
 16 PRK13599 putative peroxiredoxi 100.0 5.4E-29 1.4E-33  176.2  13.6  149   13-176     2-156 (215)
 17 PRK13191 putative peroxiredoxi 100.0 1.7E-28 4.4E-33  173.5  13.9  147   15-176    10-162 (230)
 18 COG0450 AhpC Peroxiredoxin [Po 100.0 3.7E-28 9.4E-33  171.7  12.1  149   11-176     1-161 (194)
 19 cd03018 PRX_AhpE_like Peroxire  99.9 3.3E-27 8.3E-32  166.6  11.8  145   13-174     1-149 (149)
 20 cd02971 PRX_family Peroxiredox  99.9 1.1E-26 2.7E-31  163.9  11.6  138   18-169     1-140 (140)
 21 cd03017 PRX_BCP Peroxiredoxin   99.9 3.5E-24 8.9E-29  150.3  11.8  138   17-170     1-140 (140)
 22 KOG0855 consensus               99.9   8E-23   2E-27  143.0  11.0  149   11-174    61-210 (211)
 23 pfam08534 Redoxin Redoxin. Thi  99.9 1.1E-21 2.9E-26  136.8  11.9  139   15-169     1-142 (142)
 24 KOG0852 consensus               99.8 4.6E-18 1.2E-22  117.4  11.2  149   11-176     2-161 (196)
 25 COG2077 Tpx Peroxiredoxin [Pos  99.8 2.2E-18 5.6E-23  119.1   9.2  131   13-150    18-151 (158)
 26 KOG0854 consensus               99.8 1.2E-17 3.1E-22  115.1  11.3  153   12-176     5-168 (224)
 27 pfam00578 AhpC-TSA AhpC/TSA fa  99.7 4.1E-17   1E-21  112.2   9.8  122   15-145     1-124 (124)
 28 cd02970 PRX_like2 Peroxiredoxi  99.6 2.5E-15 6.4E-20  102.6  11.2  128   18-148     1-148 (149)
 29 PRK03147 thiol-disulfide oxido  99.6 3.5E-14 8.8E-19   96.5  10.6  143    6-174    29-174 (176)
 30 cd02969 PRX_like1 Peroxiredoxi  99.4   4E-12   1E-16   85.3   9.3  116   16-146     1-126 (171)
 31 cd03010 TlpA_like_DsbE TlpA-li  98.7 1.3E-07 3.4E-12   61.0   9.6  113   17-147     1-118 (127)
 32 cd02966 TlpA_like_family TlpA-  98.7 1.4E-07 3.5E-12   60.9   9.3  111   21-147     1-115 (116)
 33 cd03011 TlpA_like_ScsD_MtbDsbE  98.4 2.3E-06 5.9E-11   54.3   9.5  106   20-144     1-108 (123)
 34 cd03012 TlpA_like_DipZ_like Tl  98.2 1.2E-05 3.1E-10   50.4   9.4  114   20-149     1-125 (126)
 35 cd02968 SCO SCO (an acronym fo  98.2   2E-05 5.2E-10   49.2   9.3  126   18-146     1-140 (142)
 36 cd02967 mauD Methylamine utili  98.1 1.6E-05 4.2E-10   49.7   7.1  109   20-145     1-111 (114)
 37 TIGR00385 dsbE periplasmic pro  97.9 0.00013 3.3E-09   44.9   8.8  117   15-147    37-157 (175)
 38 pfam02630 SCO1-SenC SCO1/SenC.  97.7 0.00026 6.7E-09   43.2   8.2  125   20-146    18-156 (159)
 39 cd03009 TryX_like_TryX_NRX Try  97.6 0.00038 9.7E-09   42.4   8.0  111   21-145     1-115 (131)
 40 cd02964 TryX_like_family Trypa  97.0  0.0047 1.2E-07   36.5   8.2  106   26-146     5-116 (132)
 41 TIGR02661 MauD methylamine deh  97.0   0.004   1E-07   36.9   7.2  132   15-174    48-180 (189)
 42 COG1999 Uncharacterized protei  96.9   0.015 3.8E-07   33.8   9.9  141   21-175    49-203 (207)
 43 pfam05988 DUF899 Bacterial pro  95.4     0.2   5E-06   27.8   9.3  119   21-149    48-175 (211)
 44 PTZ00256 glutathione peroxidas  94.0    0.46 1.2E-05   25.8  11.1  142   17-174    18-179 (183)
 45 KOG2792 consensus               93.6    0.21 5.5E-06   27.6   5.6  145   21-176   121-279 (280)
 46 pfam09695 YtfJ_HI0045 Bacteria  87.1     2.3   6E-05   22.0   7.9  145    6-174     6-173 (174)
 47 KOG4498 consensus               84.8     3.1 7.9E-05   21.3  10.2  137   26-173    37-195 (197)
 48 cd00340 GSH_Peroxidase Glutath  75.1     6.7 0.00017   19.5   6.3  123   20-147     3-140 (152)
 49 pfam00837 T4_deiodinase Iodoth  49.1      22 0.00056   16.7   9.4  142   13-174    73-235 (237)
 50 pfam08747 DUF1788 Domain of un  39.7      24 0.00062   16.5   2.4   43    8-53     62-104 (125)
 51 TIGR01626 ytfJ_HI0045 conserve  39.3      32 0.00081   15.9   5.3  135   13-175    23-182 (184)
 52 pfam07830 PP2C_C Protein serin  38.5      17 0.00044   17.3   1.5   35   42-79      2-36  (81)
 53 pfam01123 Stap_Strp_toxin Stap  37.8      22 0.00056   16.8   1.9   33   23-55     38-70  (86)
 54 pfam05176 ATP-synt_10 ATP10 pr  37.7      34 0.00086   15.7   3.8  113   29-146   114-236 (255)
 55 PRK11316 bifunctional heptose   32.0      41  0.0011   15.3   2.6   18  156-173   253-271 (473)
 56 cd04104 p47_IIGP_like p47 (47-  30.6      44  0.0011   15.1   2.9   48   39-92     51-98  (197)
 57 PRK10606 btuE putative glutath  28.9      48  0.0012   14.9   9.0   84   17-105     3-95  (183)
 58 pfam08468 MTS_N Methyltransfer  28.4      37 0.00095   15.5   1.8   23   31-53      5-27  (155)
 59 KOG4044 consensus               27.3      30 0.00077   16.0   1.2   46   27-82     91-136 (201)
 60 cd02172 RfaE_N RfaE is a prote  27.1      52  0.0013   14.7   3.0   43   38-88      2-44  (143)
 61 TIGR01405 polC_Gram_pos DNA po  26.2      29 0.00075   16.1   1.0   40    3-42    758-802 (1264)
 62 cd03008 TryX_like_RdCVF Trypar  26.2      54  0.0014   14.6   7.2   69   33-104    19-95  (146)
 63 KOG2501 consensus               25.4      56  0.0014   14.6   4.7   73   24-100    17-94  (157)
 64 TIGR02403 trehalose_treC alpha  21.1      53  0.0013   14.7   1.5   35   46-80     10-46  (555)
 65 TIGR00314 cdhA CO dehydrogenas  20.7      70  0.0018   14.0   2.1   53   32-91    531-592 (795)

No 1  
>COG0678 AHP1 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=100.00  E-value=0  Score=317.06  Aligned_cols=161  Identities=50%  Similarity=0.985  Sum_probs=152.5

Q ss_pred             CCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             97671881599995367068840368884023589838974999982288787410010104653112455310110234
Q gi|254780311|r    1 MIRFQIPQVVFHMRVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYC   80 (177)
Q Consensus         1 ~~~~~ip~~~~~ikvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~   80 (177)
                      |.|+|+|.++|+.+++|.-|     ....++++.++|+|||||||++||||||+||..|+|+|.++.++|+++|+|.|+|
T Consensus         4 ~vg~klP~vtf~tr~~~~~~-----~~~~~~ts~~lf~gKkVvlf~lPGAFTPTCS~~hlPgY~~~~d~f~~kGVD~I~c   78 (165)
T COG0678           4 MVGKKLPAVTFKTRVGDETA-----DGWVDVTTDDLFKGKKVVLFSLPGAFTPTCSSSHLPGYLELADEFKAKGVDEIYC   78 (165)
T ss_pred             CCCCCCCCEEEEEEECCCCC-----CCCCCCCHHHHCCCCEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEE
T ss_conf             45880773076776414467-----7762122888528987999948876588766022846788799999749966999


Q ss_pred             EECCCCHHHHHHHCCCCCC-EEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCC
Q ss_conf             3035401136652235875-278610367154333200224765434410015999987996999997488777877777
Q gi|254780311|r   81 LSVNDAFVMNAWGKKLEIK-NVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDP  159 (177)
Q Consensus        81 ~s~~d~~~~~aw~~~~~~~-~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~  159 (177)
                      +|+||+|+|+||+++.+.. ++.+++|++++|++++|++.+.++.|+|.|||||+|+|+||+|+++++|+      +.+|
T Consensus        79 VSVND~FVm~AWak~~g~~~~I~fi~Dg~geFTk~~Gm~~d~~~~g~G~RS~RYsmvV~nGvV~~~~iE~------p~~~  152 (165)
T COG0678          79 VSVNDAFVMNAWAKSQGGEGNIKFIPDGNGEFTKAMGMLVDKSDLGFGVRSWRYSMVVENGVVEKLFIEP------PGDP  152 (165)
T ss_pred             EEECCHHHHHHHHHHCCCCCCEEEECCCCCHHHHHCCCEEECCCCCCCEEEEEEEEEEECCEEEEEEECC------CCCC
T ss_conf             9958299887888753888667994179814545337356315677543120477888578689998638------9995


Q ss_pred             CCCCCHHHHHHHH
Q ss_conf             3248999999999
Q gi|254780311|r  160 YEISSPENVLKVI  172 (177)
Q Consensus       160 ~~vs~ae~iL~~L  172 (177)
                      +++|+|++||++|
T Consensus       153 ~~vS~a~~mL~~L  165 (165)
T COG0678         153 FTVSSADTMLAQL  165 (165)
T ss_pred             EEECCHHHHHHCC
T ss_conf             1004899997509


No 2  
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=100.00  E-value=0  Score=304.48  Aligned_cols=150  Identities=47%  Similarity=0.792  Sum_probs=139.8

Q ss_pred             ECCCCCCCCCC----CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHH
Q ss_conf             36706884036----88840235898389749999822887874100101046531124553101102343035401136
Q gi|254780311|r   15 VATVLPDGSKA----FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMN   90 (177)
Q Consensus        15 vGd~~Pd~tl~----~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~   90 (177)
                      |||++|++++.    +..++++++++|++|||||||+||||||+||.+|+|+|+++++.++++|+|+|+|+|+||||+|+
T Consensus         1 vGd~iP~~~l~~~~~~~~~~~~l~d~f~~kkvvl~~vPgAFTp~Cs~~HlP~~i~~~~~~~~kGvd~I~~isvnD~fv~~   80 (155)
T cd03013           1 VGDKLPNVTLFEYVPGPPNPVNLSELFKGKKVVIFGVPGAFTPTCSAQHLPGYVENADELKAKGVDEVICVSVNDPFVMK   80 (155)
T ss_pred             CCCCCCCCEEEEECCCCCEEEEHHHHHCCCEEEEEECCCCCCCCCCHHHCCHHHHHHHHHHHCCCCEEEEEEECCHHHHH
T ss_conf             98878871899762999768878998499819999824667886534658547776999997699689999809999999


Q ss_pred             HHHCCCCCC-EEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             652235875-2786103671543332002247654344100159999879969999974887778777773248999999
Q gi|254780311|r   91 AWGKKLEIK-NVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDPYEISSPENVL  169 (177)
Q Consensus        91 aw~~~~~~~-~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL  169 (177)
                      ||+++++.. ++++|+|++++|++++|+..+....|||.||+||+|||+||+|+++++|+++      +.+++|+||+||
T Consensus        81 AW~~~~~~~~~i~~lsD~~~~f~~~lGl~~d~~~~g~g~Rs~R~a~iv~dg~I~~~~vE~~~------~~~~vS~ae~iL  154 (155)
T cd03013          81 AWGKALGAKDKIRFLADGNGEFTKALGLTLDLSAAGGGIRSKRYALIVDDGKVKYLFVEEDP------GDVEVSSAENVL  154 (155)
T ss_pred             HHHHHHCCCCCEEEEECCCHHHHHHHCCEECCCCCCCCCCCEEEEEEEECCEEEEEEEECCC------CCCEEECHHHHH
T ss_conf             99996098773599546747999972980625678780021008999999989999982799------976556878951


Q ss_pred             H
Q ss_conf             9
Q gi|254780311|r  170 K  170 (177)
Q Consensus       170 ~  170 (177)
                      +
T Consensus       155 k  155 (155)
T cd03013         155 K  155 (155)
T ss_pred             C
T ss_conf             9


No 3  
>KOG0541 consensus
Probab=100.00  E-value=0  Score=275.66  Aligned_cols=155  Identities=42%  Similarity=0.764  Sum_probs=143.0

Q ss_pred             EEEECCCCCCCCC------CCCCC--CEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             9953670688403------68884--023589838974999982288787410010104653112455310110234303
Q gi|254780311|r   12 HMRVATVLPDGSK------AFQWK--DVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSV   83 (177)
Q Consensus        12 ~ikvGd~~Pd~tl------~~~~~--~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~   83 (177)
                      ++.|||.+|+.+.      +.+++  +++++++|+|||+|||++||||||+|+.+|+|+|+++.++++.+|+|+|+|+|+
T Consensus         8 ~i~vGd~~p~~~is~~~~~~~~~~~~tv~~~~l~~GKKvIifGvPgAFtPtCs~sHvPGyi~~a~elksKGvd~IicvSV   87 (171)
T KOG0541           8 PIAVGDTLPSGTISLFEDEPEQLQGNTVNVSSLFKGKKVILFGVPGAFTPTCSSSHVPGYIEKADELKSKGVDEIICVSV   87 (171)
T ss_pred             CCCCCCCCCCCCCHHHCCCCCCCCCCEEEHHHHHCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEEEC
T ss_conf             30246746666310011683101342477678407864999848876488541012836887788887568867999963


Q ss_pred             CCCHHHHHHHCCCCC-CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             540113665223587-5278610367154333200224765434410015999987996999997488777877777324
Q gi|254780311|r   84 NDAFVMNAWGKKLEI-KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDPYEI  162 (177)
Q Consensus        84 ~d~~~~~aw~~~~~~-~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~~~v  162 (177)
                      ||||++++|.+.++. ..+.+++|++|+|++++|+.++....++|.||+||+++++||+|++.++|+++.+      +++
T Consensus        88 nDpFv~~aW~k~~g~~~~V~f~aD~~g~ftk~lgleld~~d~~~g~RS~R~a~vvengkV~~~nvE~~g~~------~t~  161 (171)
T KOG0541          88 NDPFVMKAWAKSLGANDHVKFVADPAGEFTKSLGLELDLSDKLLGVRSRRYALVVENGKVTVVNVEEGGTD------FTV  161 (171)
T ss_pred             CCHHHHHHHHHHCCCCCEEEEEECCCCCEEEECCCEEEECCCCCCCCCCCEEEEEECCEEEEEEECCCCCC------EEE
T ss_conf             86899888875257665589986588753100461454022567401240789983886999994368861------577


Q ss_pred             CCHHHHHHHH
Q ss_conf             8999999999
Q gi|254780311|r  163 SSPENVLKVI  172 (177)
Q Consensus       163 s~ae~iL~~L  172 (177)
                      |+||+||+.|
T Consensus       162 ssae~il~~l  171 (171)
T KOG0541         162 SSAEDILKQL  171 (171)
T ss_pred             ECHHHHHHCC
T ss_conf             5178784329


No 4  
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=100.00  E-value=1.2e-32  Score=195.84  Aligned_cols=152  Identities=22%  Similarity=0.263  Sum_probs=123.0

Q ss_pred             EEEEECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHH
Q ss_conf             999536706884036888-4023589838974999982288787410010104653112455310110234303540113
Q gi|254780311|r   11 FHMRVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVM   89 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~   89 (177)
                      |++++||.+|||+|++++ ..++++|+ +||+|||||||+||||+||.|.|.+++++ .+|.+.+. +|+.+|.+++..+
T Consensus         2 ~~l~~G~~aPdF~Lp~~~g~~v~Lsd~-~Gk~VVLyFYPk~~TpgCT~Ea~~Frd~~-~ef~~~~a-~V~GIS~Ds~~~~   78 (157)
T COG1225           2 MMLKVGDKAPDFELPDQDGETVSLSDL-RGKPVVLYFYPKDFTPGCTTEACDFRDLL-EEFEKLGA-VVLGISPDSPKSH   78 (157)
T ss_pred             CCCCCCCCCCCEEEECCCCCEEEHHHH-CCCCEEEEECCCCCCCCCHHHHHHHHHHH-HHHHHCCC-EEEEEECCCHHHH
T ss_conf             857799918875835699999854883-69828999878899985169999999989-99986797-8999808998999


Q ss_pred             HHHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCC-CCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHH
Q ss_conf             665223587527861036715433320022476543-4410015999987-99699999748877787777732489999
Q gi|254780311|r   90 NAWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVG-FGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPEN  167 (177)
Q Consensus        90 ~aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g-~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~  167 (177)
                      ++|.++.+.. +.+|||++++++++||+.......| ....+.|.+|||+ +|+|.++|....+          ..++++
T Consensus        79 ~~F~~k~~L~-f~LLSD~~~~v~~~ygv~~~k~~~gk~~~~~~R~TfvId~dG~I~~~~~~v~~----------~~h~~~  147 (157)
T COG1225          79 KKFAEKHGLT-FPLLSDEDGEVAEAYGVWGEKKMYGKEYMGIERSTFVIDPDGKIRYVWRKVKV----------KGHADE  147 (157)
T ss_pred             HHHHHHHCCC-CEEEECCCHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCCEEEEEECCCCC----------CCCHHH
T ss_conf             9999982998-55667973789998486631345764233223348998999869999658997----------661999


Q ss_pred             HHHHHHHHC
Q ss_conf             999998616
Q gi|254780311|r  168 VLKVIRESK  176 (177)
Q Consensus       168 iL~~Lk~~~  176 (177)
                      +|+.|++.+
T Consensus       148 vl~~l~~l~  156 (157)
T COG1225         148 VLAALKKLA  156 (157)
T ss_pred             HHHHHHHHC
T ss_conf             999999752


No 5  
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric 
Probab=99.97  E-value=3.1e-31  Score=188.28  Aligned_cols=145  Identities=25%  Similarity=0.352  Sum_probs=118.7

Q ss_pred             ECCCCCCCCCC----CC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHH
Q ss_conf             36706884036----88-84023589838974999982288787410010104653112455310110234303540113
Q gi|254780311|r   15 VATVLPDGSKA----FQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVM   89 (177)
Q Consensus        15 vGd~~Pd~tl~----~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~   89 (177)
                      |||.||||+++    ++ ..+++++|+ +||||||+|||+||||+|+.|. +.+.+.+++|++.++ +|+++|+|+++.+
T Consensus         1 vGd~aP~F~l~~~~~~~~~~~v~lsd~-~Gk~vvL~FyP~dfTp~Ct~E~-~~f~~~~~ef~~~g~-~vigIS~Ds~~sh   77 (173)
T cd03015           1 VGKKAPDFKATAVVPNGEFKEISLSDY-KGKWVVLFFYPLDFTFVCPTEI-IAFSDRYEEFKKLNA-EVLGVSTDSHFSH   77 (173)
T ss_pred             CCCCCCCCEEECCCCCCCCCEEEHHHH-CCCEEEEEEECCCCCCCCHHHH-HHHHHHHHHHHHCCC-EEEEECCCCHHHH
T ss_conf             958689876024228987408768996-8982999998178995227999-999999999984696-7998607988999


Q ss_pred             HHHHCCC------CCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             6652235------875278610367154333200224765434410015999987-996999997488777877777324
Q gi|254780311|r   90 NAWGKKL------EIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEI  162 (177)
Q Consensus        90 ~aw~~~~------~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~v  162 (177)
                      ++|.+..      +...+++|||++++++++||+..+.  .|+   +.|.++||+ ||+|+++++......         
T Consensus        78 ~~~~~~~~~~~~~~~l~fplLsD~~~~v~~~yGv~~~~--~g~---~~R~tfiID~~g~Ir~~~~~~~~~g---------  143 (173)
T cd03015          78 LAWRNTPRKEGGLGKINFPLLADPKKKISRDYGVLDEE--EGV---ALRGTFIIDPEGIIRHITVNDLPVG---------  143 (173)
T ss_pred             HHHHHHHHHHCCCCCCCCCEEECCHHHHHHHHCCCCCC--CCC---CCEEEEEECCCCEEEEEEECCCCCC---------
T ss_conf             99987689756877644676777636999981997565--687---7517999899986999997389989---------


Q ss_pred             CCHHHHHHHHHHHC
Q ss_conf             89999999998616
Q gi|254780311|r  163 SSPENVLKVIRESK  176 (177)
Q Consensus       163 s~ae~iL~~Lk~~~  176 (177)
                      .++++||+.|++.|
T Consensus       144 r~~~EiLr~l~aLq  157 (173)
T cd03015         144 RSVDETLRVLDALQ  157 (173)
T ss_pred             CCHHHHHHHHHHHH
T ss_conf             89999999999862


No 6  
>TIGR03137 AhpC peroxiredoxin. This gene contains two invariant cysteine residues, one near the N-terminus and one near the C-terminus, each followed immediately by a proline residue.
Probab=99.97  E-value=6.2e-31  Score=186.67  Aligned_cols=148  Identities=23%  Similarity=0.416  Sum_probs=120.8

Q ss_pred             EEEEECCCCCCCCCCC----CCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             9995367068840368----884023589838974999982288787410010104653112455310110234303540
Q gi|254780311|r   11 FHMRVATVLPDGSKAF----QWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDA   86 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl~~----~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~   86 (177)
                      |.+ ||+++|||++..    +.++++++|+ +|||+||||||+||||+|++|. ..+.+.+++|++.++ +++++|+|+.
T Consensus         1 M~l-vG~~aPdF~~~a~~~g~~~~isl~d~-~Gkw~VLffyP~DFTpVCttEl-~~~~~~~~eF~~~n~-~vlgiS~Ds~   76 (187)
T TIGR03137         1 MSL-INTEIKPFKATAYHNGEFVEVTDEDV-KGKWSVFFFYPADFTFVCPTEL-EDLADKYAELKKLGV-EVYSVSTDTH   76 (187)
T ss_pred             CCC-CCCCCCCCEEEEEECCEEEEEEHHHH-CCCEEEEEEEECCCCCCCHHHH-HHHHHHHHHHHHCCC-EEEEEECCCH
T ss_conf             985-68889998887787892689758996-9975999995068888770899-999999999997799-7999855988


Q ss_pred             HHHHHHHCCC---CCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             1136652235---875278610367154333200224765434410015999987-996999997488777877777324
Q gi|254780311|r   87 FVMNAWGKKL---EIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEI  162 (177)
Q Consensus        87 ~~~~aw~~~~---~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~v  162 (177)
                      +.+.+|.+..   +...++++||++++.+++||++.+.  .|.   +.|.++||| +|+|+++.+-.-..++        
T Consensus        77 ~sH~aW~~~~~~~g~i~fPllaD~~~~vs~~yGvl~~~--~g~---a~Ra~FIIDp~g~Ir~~~~~~~~vGR--------  143 (187)
T TIGR03137        77 FVHKAWHDTSEAIGKITYPMLGDPTGVLTRNFGVLIEE--AGL---ADRGTFVIDPEGVIQAVEITDNGIGR--------  143 (187)
T ss_pred             HHHHHHHHHHHHHCCCCCCEECCCCCHHHHHCCCCCCC--CCC---CEEEEEEECCCCEEEEEEECCCCCCC--------
T ss_conf             99999974276427723304428862589982975378--886---14689999999909999978998785--------


Q ss_pred             CCHHHHHHHHHHHC
Q ss_conf             89999999998616
Q gi|254780311|r  163 SSPENVLKVIRESK  176 (177)
Q Consensus       163 s~ae~iL~~Lk~~~  176 (177)
                       +.+++|..|++.|
T Consensus       144 -n~~EiLR~l~AlQ  156 (187)
T TIGR03137       144 -DASELLRKIKAAQ  156 (187)
T ss_pred             -CHHHHHHHHHHHH
T ss_conf             -9999999999877


No 7  
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=99.97  E-value=1.4e-30  Score=184.71  Aligned_cols=148  Identities=19%  Similarity=0.294  Sum_probs=121.1

Q ss_pred             EEEECCCCCCCCC----CC-CCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             9953670688403----68-884023589838974999982288787410010104653112455310110234303540
Q gi|254780311|r   12 HMRVATVLPDGSK----AF-QWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDA   86 (177)
Q Consensus        12 ~ikvGd~~Pd~tl----~~-~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~   86 (177)
                      ..|||++||||++    ++ ..++++++|+ +||||||||||++|||+|++|.+ .+.+.+++|++.+. +++.+|+|+.
T Consensus         5 ~arIG~~APdF~~~a~~~~~~~~~vsLsdy-~GkwvvL~fyP~dfT~vCttEl~-~~~~~~~eF~~~~~-~vigiS~Ds~   81 (199)
T PTZ00253          5 DAKINHPAPSFEEVALMPNGSFKKISLSSY-KGKWVVLFFYPLDFTFVCPTEII-QFSDSVKRFNELNC-EVLACSMDSE   81 (199)
T ss_pred             CCCCCCCCCCCEEEEECCCCCEEEEEHHHH-CCCEEEEEEEECCCCCCCCHHHH-HHHHHHHHHHHCCC-EEEEEECCCH
T ss_conf             665599399984055717995568851896-99859999810667886727999-99999999977797-8999978838


Q ss_pred             HHHHHHHCCC------CCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCC
Q ss_conf             1136652235------875278610367154333200224765434410015999987-996999997488777877777
Q gi|254780311|r   87 FVMNAWGKKL------EIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDP  159 (177)
Q Consensus        87 ~~~~aw~~~~------~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~  159 (177)
                      +.+.+|....      +...+++++|.+++.+++||++.+.  .|.   +.|.+|||+ +|+|+++.+-....++     
T Consensus        82 ~sH~aW~~~~~~~~g~~~i~fPliaD~~~~is~~yGvl~e~--~G~---a~Ra~FIIDp~giIr~~~v~~~~vGR-----  151 (199)
T PTZ00253         82 YAHLQWTLQERKKGGLGTMAIPMLADKTKSIARSYGVLEEE--QGV---AYRGLFIIDPKGMLRQITVNDMPVGR-----  151 (199)
T ss_pred             HHHHHHHCCHHHHCCCCCCEEEEEECCCCHHHHHCCCCCCC--CCC---EEEEEEEECCCCEEEEEEECCCCCCC-----
T ss_conf             78998840707558857601215757865688971960266--895---26789998899849999977987685-----


Q ss_pred             CCCCCHHHHHHHHHHHC
Q ss_conf             32489999999998616
Q gi|254780311|r  160 YEISSPENVLKVIRESK  176 (177)
Q Consensus       160 ~~vs~ae~iL~~Lk~~~  176 (177)
                          +.+++|..|++.|
T Consensus       152 ----nv~EiLR~l~AlQ  164 (199)
T PTZ00253        152 ----NVEEVLRLLEAFQ  164 (199)
T ss_pred             ----CHHHHHHHHHHHH
T ss_conf             ----9999999999876


No 8  
>PRK13190 putative peroxiredoxin; Provisional
Probab=99.97  E-value=7.5e-31  Score=186.21  Aligned_cols=148  Identities=20%  Similarity=0.366  Sum_probs=122.9

Q ss_pred             EEEECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             99536706884036888402358983897499998228878741001010465311245531011023430354011366
Q gi|254780311|r   12 HMRVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        12 ~ikvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      .|+|||.+|||++....++++++|+ +|||+||||||+||||+||+|. ..+.+.+++|++.++ +++++|+|+.+.+.+
T Consensus         1 pL~iG~~aPdF~~~t~~g~i~l~dy-~Gkw~vlffyP~DfTpvCttEl-~~f~~~~~eF~~~~~-~vigiS~Ds~~sH~a   77 (202)
T PRK13190          1 PVKLGQKAPDFTVNTTKGPIDLSKY-KGKWVLLFSHPADFTPVCTTEF-IAFSRRYEDFKKLGV-ELVGLSVDSIYSHIA   77 (202)
T ss_pred             CCCCCCCCCCCEECCCCCCEEEHHH-CCCEEEEEEECCCCCCCCHHHH-HHHHHHHHHHHHCCC-EEEEEECCCHHHHHH
T ss_conf             9978888988686168883972885-9987999995378898671799-999998999997698-899996753999999


Q ss_pred             HHCC----CCC-CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCH
Q ss_conf             5223----587-5278610367154333200224765434410015999987-996999997488777877777324899
Q gi|254780311|r   92 WGKK----LEI-KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSP  165 (177)
Q Consensus        92 w~~~----~~~-~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~a  165 (177)
                      |.+.    .+. ..+++++|++++.+++||++.+.  .|.   +.|.+|||+ +|+|+++.+-.-..+.         +.
T Consensus        78 W~~~~~~~~G~~v~fPliaD~~~~is~~yG~l~~~--~g~---a~R~~FIIDp~g~Ir~~~~~~~~vGR---------n~  143 (202)
T PRK13190         78 WLRDIEERFGIKIPFPVIADIDKELAREYNLIDEN--SGA---TVRGVFIIDPNQIVRWMIYYPAETGR---------NI  143 (202)
T ss_pred             HHHCHHHHCCCCCCCCCCCCCCCHHHHHCCCEECC--CCC---EEEEEEEECCCCEEEEEEECCCCCCC---------CH
T ss_conf             85687985693312234338950578974980078--896---57799999999849999975889602---------78


Q ss_pred             HHHHHHHHHHC
Q ss_conf             99999998616
Q gi|254780311|r  166 ENVLKVIRESK  176 (177)
Q Consensus       166 e~iL~~Lk~~~  176 (177)
                      +++|..|++.|
T Consensus       144 ~EiLR~ldAlq  154 (202)
T PRK13190        144 DEIIRITKALQ  154 (202)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999887


No 9  
>PRK00522 tpx thiol peroxidase; Provisional
Probab=99.97  E-value=1.1e-30  Score=185.38  Aligned_cols=148  Identities=20%  Similarity=0.209  Sum_probs=118.9

Q ss_pred             EEEECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHH
Q ss_conf             99536706884036888-40235898389749999822887874100101046531124553101102343035401136
Q gi|254780311|r   12 HMRVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMN   90 (177)
Q Consensus        12 ~ikvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~   90 (177)
                      +++|||++|||+|.+++ ++++++|+ +||++||+|||.+|||+|+.|.+.+.. ....+  .+ ..++++|+|.|+.++
T Consensus        18 ~~~VGd~APdF~l~~~~~~~v~Lsd~-~Gk~vVL~f~P~~~TpvC~~e~~~f~~-~~~~~--~~-~~v~gIS~D~~~a~~   92 (168)
T PRK00522         18 LPQVGSKAPDFTLVAKDLSDVSLSQF-AGKRKVLNIFPSIDTGVCAASVRKFNQ-LAAEL--DN-TVVLCVSADLPFAQS   92 (168)
T ss_pred             CCCCCCCCCCCEEECCCCCEEEHHHH-CCCEEEEEEEECCCCCHHHHHHHHHHH-HHHHC--CC-CEEEEEECCCHHHHH
T ss_conf             99888999881888899999865883-998599999736888652778988999-99863--59-749999689989999


Q ss_pred             HHHCCCCCCEEEEEECC-CHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             65223587527861036-7154333200224765434410015999987-996999997488777877777324899999
Q gi|254780311|r   91 AWGKKLEIKNVKLLPDG-SGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENV  168 (177)
Q Consensus        91 aw~~~~~~~~~~~l~D~-~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~i  168 (177)
                      +|+++++...+.+|+|. .+++.++||++... +...|. +.|.++||| +|+|+|.++-+...+        ..++|++
T Consensus        93 ~f~~~~~~~~~~~lsd~~~~~~~~~yGvl~~~-~~~~g~-~~Ra~FVID~~G~I~y~e~v~~~~~--------~pdyd~~  162 (168)
T PRK00522         93 RFCGAEGLENVITLSTFRDAEFGQDYGVAIAD-GPLKGL-LARAVVVLDEDDNVIYSELVDEITT--------EPDYDAA  162 (168)
T ss_pred             HHHHHCCCCCCEECCCCCCCHHHHHCCCEECC-CCCCCC-EEEEEEEECCCCEEEEEEECCCCCC--------CCCHHHH
T ss_conf             99986499886670416776389970957514-622594-7518999999997999998788888--------9899999


Q ss_pred             HHHHHH
Q ss_conf             999986
Q gi|254780311|r  169 LKVIRE  174 (177)
Q Consensus       169 L~~Lk~  174 (177)
                      |++||+
T Consensus       163 l~alka  168 (168)
T PRK00522        163 LAALKA  168 (168)
T ss_pred             HHHHCC
T ss_conf             998619


No 10 
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=99.97  E-value=1.4e-30  Score=184.73  Aligned_cols=149  Identities=25%  Similarity=0.326  Sum_probs=122.6

Q ss_pred             EEEEECCCCCCCCCC----CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             999536706884036----8884023589838974999982288787410010104653112455310110234303540
Q gi|254780311|r   11 FHMRVATVLPDGSKA----FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDA   86 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl~----~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~   86 (177)
                      |+..||+++|||++.    +..++++++|+.++|||||||||+||||+|++|.+ .+...+++|++.+. +++++|+|+.
T Consensus         1 M~~liG~~aPdF~~~a~~~~~~~~i~lsdy~g~kwvvLffyP~dFT~VCttEl~-~~~~~~~eF~~~~~-~v~giS~Ds~   78 (194)
T PTZ00137          1 MSSLVGKEAPSFKAEAVFGDNFGEFNLSDYFGDSYVLLVFYPLDFTFVCPSELL-GFSKRLDEFEERNV-KVLGCSVDSK   78 (194)
T ss_pred             CCHHHCCCCCCCEEEEEECCCEEEEEHHHHCCCCEEEEEEECCCCCCCCCHHHH-HHHHHHHHHHHCCC-EEEEEECCCH
T ss_conf             925649839998926662895008863997799679999803778875508999-99999999997598-8999967838


Q ss_pred             HHHHHHHCC------CCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCC
Q ss_conf             113665223------5875278610367154333200224765434410015999987-996999997488777877777
Q gi|254780311|r   87 FVMNAWGKK------LEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDP  159 (177)
Q Consensus        87 ~~~~aw~~~------~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~  159 (177)
                      +.+.+|.+.      .+...+++++|.+++.+++||++.+   .|   .+.|.++||+ +|+|+++.+-..+.++     
T Consensus        79 ~sH~aW~~~~~~~~gi~~i~fPllaD~~~~ia~~yGvl~~---~G---~a~RatFiIDp~g~Ir~~~v~~~~vGR-----  147 (194)
T PTZ00137         79 FSHLAWKKTDLRKGGVGNLKHPLFSDITRSISKSFGLLRD---DG---FSLRASVLIDKAGVVQHLAVNDLGIGR-----  147 (194)
T ss_pred             HHHHHHHHCHHHHCCCCCCCCCEEECCCCHHHHHCCCCCC---CC---CEEEEEEEECCCCEEEEEEECCCCCCC-----
T ss_conf             8899996234865886773344563673358997698636---88---216789999999979999977987684-----


Q ss_pred             CCCCCHHHHHHHHHHHC
Q ss_conf             32489999999998616
Q gi|254780311|r  160 YEISSPENVLKVIRESK  176 (177)
Q Consensus       160 ~~vs~ae~iL~~Lk~~~  176 (177)
                          +++++|..|++.|
T Consensus       148 ----nv~EiLR~l~Alq  160 (194)
T PTZ00137        148 ----SVDETLRIFDAVQ  160 (194)
T ss_pred             ----CHHHHHHHHHHHH
T ss_conf             ----9899999999866


No 11 
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=99.97  E-value=1.4e-30  Score=184.70  Aligned_cols=149  Identities=23%  Similarity=0.324  Sum_probs=120.8

Q ss_pred             EEEECCCCCCCCCCCCCC-CEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHH
Q ss_conf             995367068840368884-0235898389749999822887874100101046531124553101102343035401136
Q gi|254780311|r   12 HMRVATVLPDGSKAFQWK-DVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMN   90 (177)
Q Consensus        12 ~ikvGd~~Pd~tl~~~~~-~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~   90 (177)
                      +++|||.||||+|+++++ .++++|+ +||+|||+|||+++||+|+.|.+ .+.+.++.+++.|+ +|+.+|.+.+..+.
T Consensus         3 ~l~vG~~aPdF~l~~~~g~~v~L~d~-~gk~vvl~Fyp~~~tp~C~~e~~-~f~d~~~~f~~~g~-~VigIS~D~~~~~~   79 (156)
T PRK09437          3 PLKAGDIAPKFSLPDQDGEQVSLTDF-QGKKVLVYFYPKAMTPGCTVQAC-GLRDNMDELKKAGV-VVLGISPDKPEKLS   79 (156)
T ss_pred             CCCCCCCCCCEEEECCCCCEEEHHHH-CCCEEEEEEECCCCCCCCHHHHH-HHHHHHHHHHCCCE-EEEEECCCCHHHHH
T ss_conf             89997999870848899999877996-89979999976878998746889-99999987532581-89987688899999


Q ss_pred             HHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCC---CCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHH
Q ss_conf             6522358752786103671543332002247654---34410015999987-9969999974887778777773248999
Q gi|254780311|r   91 AWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNV---GFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPE  166 (177)
Q Consensus        91 aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~---g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae  166 (177)
                      +|.+..+.. +++|+|++++++++||+.......   ..|  ..|.++||+ +|+|.++|.+-.+          .++++
T Consensus        80 ~f~~~~~l~-f~lLsD~~~~v~~~ygv~~~~~~~g~~~~g--~~R~tfiID~~G~I~~v~~~v~~----------~~h~~  146 (156)
T PRK09437         80 KFAEKELLN-FTLLSDEDHQVAEQFGVWGEKKFMGKTYDG--IHRISFLIDEDGKIEHVFDKFKT----------KDHHD  146 (156)
T ss_pred             HHHHHHCCC-CCEEECCCHHHHHHCCCCCCCCCCCCCCCC--CCEEEEEECCCCEEEEEECCCCC----------CCCHH
T ss_conf             999970999-748988980699984997544235654478--85069999999989999789998----------75399


Q ss_pred             HHHHHHHHHC
Q ss_conf             9999998616
Q gi|254780311|r  167 NVLKVIRESK  176 (177)
Q Consensus       167 ~iL~~Lk~~~  176 (177)
                      +||+.||++.
T Consensus       147 ~vL~~Lk~~~  156 (156)
T PRK09437        147 VVLDYLKENA  156 (156)
T ss_pred             HHHHHHHHHC
T ss_conf             9999998529


No 12 
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=99.97  E-value=3.5e-30  Score=182.60  Aligned_cols=148  Identities=17%  Similarity=0.276  Sum_probs=121.9

Q ss_pred             ECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHC
Q ss_conf             36706884036888402358983897499998228878741001010465311245531011023430354011366522
Q gi|254780311|r   15 VATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGK   94 (177)
Q Consensus        15 vGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~   94 (177)
                      |||.+|||++..+.++++++|+.++|||||||||+||||+|++|.+ .+.+.+++|++.++ +++.+|+|..+.+.+|.+
T Consensus         1 vG~~aPdF~~~~~~g~i~l~dy~G~k~vvlffyP~dfT~vCttEl~-~~~~~~~eF~~~~~-~vlgiS~Ds~~sH~aW~~   78 (203)
T cd03016           1 LGDTAPNFEADTTHGPIKFHDYLGDSWGILFSHPADFTPVCTTELG-AFAKLAPEFKKRNV-KLIGLSVDSVESHIKWIE   78 (203)
T ss_pred             CCCCCCCCEEECCCCCEEHHHHCCCCEEEEEECCCCCCCCCCHHHH-HHHHHHHHHHHCCC-EEEEEECCCHHHHHHHHH
T ss_conf             9785898786457785978997799789999666668987837899-99998999997498-799973786887888865


Q ss_pred             CC----C-CCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             35----8-75278610367154333200224765434410015999987-996999997488777877777324899999
Q gi|254780311|r   95 KL----E-IKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENV  168 (177)
Q Consensus        95 ~~----~-~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~i  168 (177)
                      ..    + ...++++||..++.+++||++....  |.+ .+.|.++||| +|+|+++.+-.-+.++         +.+++
T Consensus        79 ~~~~~~g~~v~fPllaD~~~~ia~~yGvl~~~~--g~~-~a~R~~FIIDp~g~Ir~~~v~~~~vGR---------nvdEi  146 (203)
T cd03016          79 DIEEYTGVEIPFPIIADPDREVAKLLGMIDPDA--GST-LTVRAVFIIDPDKKIRLILYYPATTGR---------NFDEI  146 (203)
T ss_pred             CHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCC--CCC-CEEEEEEEECCCCEEEEEEECCCCCCC---------CHHHH
T ss_conf             889756966231422278625888734437134--886-336789998999839999975877666---------88999


Q ss_pred             HHHHHHHC
Q ss_conf             99998616
Q gi|254780311|r  169 LKVIRESK  176 (177)
Q Consensus       169 L~~Lk~~~  176 (177)
                      |..|++.|
T Consensus       147 LR~ldAlQ  154 (203)
T cd03016         147 LRVVDALQ  154 (203)
T ss_pred             HHHHHHHH
T ss_conf             99999998


No 13 
>PRK13189 peroxiredoxin; Provisional
Probab=99.97  E-value=8.6e-30  Score=180.51  Aligned_cols=148  Identities=21%  Similarity=0.400  Sum_probs=123.6

Q ss_pred             EECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHH
Q ss_conf             53670688403688840235898389749999822887874100101046531124553101102343035401136652
Q gi|254780311|r   14 RVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWG   93 (177)
Q Consensus        14 kvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~   93 (177)
                      .||+.+|||++....++++++++++|||+||||||+||||+|++|. ..+.+.+++|++.++ +++++|+|+.+.+.+|.
T Consensus         3 ~iG~~aPdF~~~~~~G~~~l~~~~~gkwvvLffyP~DFT~VCttEl-~~~~~~~~eF~~~~~-~vigiS~Ds~~sH~aW~   80 (215)
T PRK13189          3 LIGDKFPEFEVKTTHGPIKLPDDYKGKWFVLFSHPADFTPVCTTEF-VAFQKRYDEFRKLNT-ELIGLSIDQVFSHIKWV   80 (215)
T ss_pred             CCCCCCCCCEEECCCCCEEEHHHHCCCEEEEEECCCCCCCCCCHHH-HHHHHHHHHHHHHCC-EEEEEECCCHHHHHHHH
T ss_conf             6878899988861579688579839988999978777898684599-999999999987197-79999468586899985


Q ss_pred             CC----CCC-CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHH
Q ss_conf             23----587-5278610367154333200224765434410015999987-99699999748877787777732489999
Q gi|254780311|r   94 KK----LEI-KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPEN  167 (177)
Q Consensus        94 ~~----~~~-~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~  167 (177)
                      +.    .+. ..+++++|.+++.+++||++....    |..+-|.+|||+ +|+|+++.+-..+.++         +.++
T Consensus        81 ~~~~~~~G~~i~fPliaD~~~~Is~~yGvl~~~~----~~~a~R~~FIIDp~g~Ir~~~v~~~~vGR---------nvdE  147 (215)
T PRK13189         81 EWIKEKLGVEIEFPIIADDDGEIAKKLGMIHPGK----GTNTVRAVFVVDPKGIIRAILYYPQEVGR---------NMDE  147 (215)
T ss_pred             HCHHHHCCCCEEEEEEECCCCHHHHHCCCCCCCC----CCCEEEEEEEECCCCEEEEEEECCCCCCC---------CHHH
T ss_conf             1878746965034478667264889749802588----87467479999999869999983888655---------8999


Q ss_pred             HHHHHHHHC
Q ss_conf             999998616
Q gi|254780311|r  168 VLKVIRESK  176 (177)
Q Consensus       168 iL~~Lk~~~  176 (177)
                      +|..|++.|
T Consensus       148 iLR~ldAlQ  156 (215)
T PRK13189        148 ILRLVKALQ  156 (215)
T ss_pred             HHHHHHHHH
T ss_conf             999999998


No 14 
>cd03014 PRX_Atyp2cys Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial periplasmic peroxidase which differs from other PRXs in that it shows substrate specificity toward alkyl hydroperoxides over hydrogen peroxide. As with all other PRXs, the peroxidatic cysteine (N-terminal) of Tpx is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Tpx is able to resolve this intermediate by forming an intramolecular disulfide bond with a conserved C-terminal cysteine (the resolving cysteine), which can then be reduced by thioredoxin. This differs from the typical 2-cys PRX which resolves the oxidized cysteine by forming an intermolecular disulfide bond with the resolving cysteine from the other subunit of the homodimer. Atypical 2-cys PRX homodimers have a loop-based 
Probab=99.97  E-value=5.8e-30  Score=181.44  Aligned_cols=140  Identities=23%  Similarity=0.262  Sum_probs=112.9

Q ss_pred             EECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHH
Q ss_conf             536706884036888-4023589838974999982288787410010104653112455310110234303540113665
Q gi|254780311|r   14 RVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAW   92 (177)
Q Consensus        14 kvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw   92 (177)
                      ||||++|||+|.+++ +.++++|+ +|||+||+|||+||||+|+.|.+.+ .+.++.+.  ++ +++++|+|.++.+++|
T Consensus         1 kVGd~aPdF~l~~~~~~~v~lsd~-~Gk~~Vl~fyP~~~T~vC~~e~~~f-~~~~~~f~--~~-~v~gIS~Ds~~s~~~f   75 (143)
T cd03014           1 KVGDKAPDFTLVTSDLSEVSLADF-AGKVKVISVFPSIDTPVCATQTKRF-NKEAAKLD--NT-VVLTISADLPFAQKRW   75 (143)
T ss_pred             CCCCCCCCEEEECCCCCEEEHHHH-CCCEEEEEEEECCCCCCCCCHHHHH-HHHHHHCC--CC-EEEEEECCCHHHHHHH
T ss_conf             999888883988899999876995-9986999998078998453159999-99987358--96-8999978999999999


Q ss_pred             HCCCCCCEEEEEEC-CCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             22358752786103-67154333200224765434410015999987-99699999748877787777732489999999
Q gi|254780311|r   93 GKKLEIKNVKLLPD-GSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENVLK  170 (177)
Q Consensus        93 ~~~~~~~~~~~l~D-~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL~  170 (177)
                      .++.+...+.+||| ..++++++||+....  .|+   +.|.++||+ +|+|+|+++-+.+.+        ..+.+.+|+
T Consensus        76 ~~~~~l~~~~lLSD~~~~~~~~~yGv~~~~--~g~---~~R~tfiID~~G~I~~~e~~~~~~~--------epd~~~~~~  142 (143)
T cd03014          76 CGAEGVDNVTTLSDFRDHSFGKAYGVLIKD--LGL---LARAVFVIDENGKVIYVELVPEITD--------EPDYEAALA  142 (143)
T ss_pred             HHHCCCCCCEEEECCCCCCHHHHHCCEECC--CCC---EEEEEEEECCCCEEEEEEECCCCCC--------CCCHHHHHC
T ss_conf             987699896484649997367872905501--794---2218999999998999996788678--------989899951


Q ss_pred             H
Q ss_conf             9
Q gi|254780311|r  171 V  171 (177)
Q Consensus       171 ~  171 (177)
                      +
T Consensus       143 a  143 (143)
T cd03014         143 A  143 (143)
T ss_pred             C
T ss_conf             9


No 15 
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=99.96  E-value=2.5e-29  Score=178.02  Aligned_cols=145  Identities=19%  Similarity=0.342  Sum_probs=118.8

Q ss_pred             ECCCCCCCCCC----CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHH
Q ss_conf             36706884036----88840235898389749999822887874100101046531124553101102343035401136
Q gi|254780311|r   15 VATVLPDGSKA----FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMN   90 (177)
Q Consensus        15 vGd~~Pd~tl~----~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~   90 (177)
                      ||.++|+|+..    ++.++++++|+ +|||+||||||++|||+|++|. ..+.+.+++|++.++ +++++|+|+.+.+.
T Consensus         4 vg~~ap~F~~~a~~~g~~~~v~l~d~-~Gkw~VLffyP~DFT~VCtTEl-~~~~~~~~eF~~~n~-~vigiS~Ds~~sH~   80 (187)
T PRK10382          4 INTKIKPFKNQAFKNGEFIEVTEKDT-EGRWSVFFFYPADFTFVCPTEL-GDVADHYEELQKLGV-DVYSVSTDTHFTHK   80 (187)
T ss_pred             CCCCCCCCEEEEEECCEEEEEEHHHH-CCCEEEEEEECCCCCCCCHHHH-HHHHHHHHHHHHCCC-EEEEEECCCHHHHH
T ss_conf             57709998776676997789856995-9987999982799898598999-999988999997499-79999259889999


Q ss_pred             HHHCCC---CCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHH
Q ss_conf             652235---875278610367154333200224765434410015999987-9969999974887778777773248999
Q gi|254780311|r   91 AWGKKL---EIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPE  166 (177)
Q Consensus        91 aw~~~~---~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae  166 (177)
                      +|.+..   +...+++++|.+++.+++||++...  .|+   +.|.++||| +|+|+++.+-..+.++         +++
T Consensus        81 aW~~~~~~~~~i~fPlisD~~~~is~~ygvl~~~--~g~---a~Ra~FIIDp~g~Ir~~~~~~~~vGR---------n~~  146 (187)
T PRK10382         81 AWHSSSETIAKIKYAMIGDPTGALTRNFDNMRED--EGL---ADRATFVVDPQGIIQAIEVTAEGIGR---------DAS  146 (187)
T ss_pred             HHHHHHHHCCCCCCCEEECCCCHHHHHCCCCCCC--CCE---EEEEEEEECCCCEEEEEEECCCCCCC---------CHH
T ss_conf             9986453315878865788865799982996678--880---57789998899849999978999886---------999


Q ss_pred             HHHHHHHHHC
Q ss_conf             9999998616
Q gi|254780311|r  167 NVLKVIRESK  176 (177)
Q Consensus       167 ~iL~~Lk~~~  176 (177)
                      ++|..|++.|
T Consensus       147 EiLR~l~AlQ  156 (187)
T PRK10382        147 DLLRKIKAAQ  156 (187)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999877


No 16 
>PRK13599 putative peroxiredoxin; Provisional
Probab=99.96  E-value=5.4e-29  Score=176.22  Aligned_cols=149  Identities=17%  Similarity=0.277  Sum_probs=122.7

Q ss_pred             EEECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHH
Q ss_conf             95367068840368884023589838974999982288787410010104653112455310110234303540113665
Q gi|254780311|r   13 MRVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAW   92 (177)
Q Consensus        13 ikvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw   92 (177)
                      ..|||.+|||++.++.+...+++.++|||+||||||+||||+||+|.+ .+.+.+++|++.++ +++.+|+|+.+.+.+|
T Consensus         2 ~~vGd~aPdF~l~tt~G~~~~~~d~~Gkw~VLffyP~DfTpvCttEl~-~f~~~~~eF~~~n~-~vigiS~Ds~~sH~~W   79 (215)
T PRK13599          2 KLLGEKFPSMEVVTTQGVKRLPEDYAGKWFVLFSHPADFTPVCTTEFV-EFARKANDFKELNT-ELIGLSVDQVFSHIKW   79 (215)
T ss_pred             CCCCCCCCCCEEECCCCCEECHHHHCCCEEEEEEEECCCCCCCHHHHH-HHHHHHHHHHHCCC-EEEEEECCCHHHHHHH
T ss_conf             857875898786268997851899599889999820799985668899-99999999997598-8999847878899999


Q ss_pred             HCC----CC-CCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHH
Q ss_conf             223----58-75278610367154333200224765434410015999987-9969999974887778777773248999
Q gi|254780311|r   93 GKK----LE-IKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPE  166 (177)
Q Consensus        93 ~~~----~~-~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae  166 (177)
                      .+.    .+ ...+++++|++++.+++||++...    .|..+-|.+|||+ +|+|+++.+-+-+.++         +.+
T Consensus        80 ~~~i~~~~g~~i~FPiiaD~~~~ia~~yGml~~~----~g~~t~R~~FiIDp~~~ir~~~~yp~~vGR---------nvd  146 (215)
T PRK13599         80 VEWIKDNTNIAIPFPVIADDLGKVSNQLGMIHPG----KGTNTVRAVFIVDDKGTIRLIMYYPQEVGR---------NVD  146 (215)
T ss_pred             HHHHHHHCCCCCCEEEEECCCCHHHHHHCCCCCC----CCCCEEEEEEEECCCCCEEEEEECCCCCCC---------CHH
T ss_conf             8538875697751225515406599984982678----887577589998999948999978987786---------999


Q ss_pred             HHHHHHHHHC
Q ss_conf             9999998616
Q gi|254780311|r  167 NVLKVIRESK  176 (177)
Q Consensus       167 ~iL~~Lk~~~  176 (177)
                      ++|..|++.|
T Consensus       147 EiLR~ldAlQ  156 (215)
T PRK13599        147 EILRALKALQ  156 (215)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999998


No 17 
>PRK13191 putative peroxiredoxin; Provisional
Probab=99.96  E-value=1.7e-28  Score=173.48  Aligned_cols=147  Identities=20%  Similarity=0.372  Sum_probs=121.3

Q ss_pred             ECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHC
Q ss_conf             36706884036888402358983897499998228878741001010465311245531011023430354011366522
Q gi|254780311|r   15 VATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGK   94 (177)
Q Consensus        15 vGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~   94 (177)
                      +||.+|||++....++++++|+++|||+||||||++|||+||+|.+ .+.+.+++|++.++ +++.+|+|..+.+.+|.+
T Consensus        10 iG~~aPdF~~~tt~G~i~l~d~~~gkw~VLffyP~DFTpVCtTEl~-~f~~~~~eF~k~n~-~vlg~S~Ds~~sH~aW~~   87 (230)
T PRK13191         10 IGEKFPEMEVITTHGKIKLPDDYKGKWFVLFSHPGDFTPVCTTEFY-SFAKRYEDFKKLNT-ELIGLSVDSNISHIEWVN   87 (230)
T ss_pred             CCCCCCCCEEECCCCCEEEHHHHCCCEEEEEECCCCCCCCCHHHHH-HHHHHHHHHHHCCC-EEEEEECCCHHHHHHHHH
T ss_conf             7992899881436895873898199889999788988995979999-99988999997599-899997896888999987


Q ss_pred             ----CCCC-CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             ----3587-5278610367154333200224765434410015999987-996999997488777877777324899999
Q gi|254780311|r   95 ----KLEI-KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENV  168 (177)
Q Consensus        95 ----~~~~-~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~i  168 (177)
                          ..+. ..+++++|++++.++.||++.. +.   +..+-|.+|||+ +|+|++..+-....+.         +.+++
T Consensus        88 ~i~~~~g~~i~fPiiaD~~~~ia~~yGml~~-e~---~~~tvRavFIIDP~g~Ir~~~~yp~~vGR---------NvdEi  154 (230)
T PRK13191         88 WIEKNLKVEIPFPIIADPMGNVAKRLGMIHA-ES---STSTVRAVFIVDDKGTVRLIMYYPLEIGR---------NIDEI  154 (230)
T ss_pred             HHHHHCCCCCCEEEEECCCCHHHHHCCCCCC-CC---CCCEEEEEEEECCCCEEEEEEECCCCCCC---------CHHHH
T ss_conf             6898359775302665686779998598144-77---86436689999999829999967977685---------98999


Q ss_pred             HHHHHHHC
Q ss_conf             99998616
Q gi|254780311|r  169 LKVIRESK  176 (177)
Q Consensus       169 L~~Lk~~~  176 (177)
                      |..|.+.|
T Consensus       155 LRvldALQ  162 (230)
T PRK13191        155 LRAIKALQ  162 (230)
T ss_pred             HHHHHHHH
T ss_conf             99999998


No 18 
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.96  E-value=3.7e-28  Score=171.72  Aligned_cols=149  Identities=24%  Similarity=0.407  Sum_probs=123.2

Q ss_pred             EEEEECCCCCCCCCCCC-C----CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             99953670688403688-8----402358983897499998228878741001010465311245531011023430354
Q gi|254780311|r   11 FHMRVATVLPDGSKAFQ-W----KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVND   85 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl~~~-~----~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d   85 (177)
                      |+..||+++|||+...- .    .+++++|+.+ ||+||||||++|||+|++| +..+.+.+++|++.|+ +++.+|+|+
T Consensus         1 ~~~lIg~~aP~F~~~a~~~~~~~~~i~l~~~~g-kw~VLff~P~DFTfVCpTE-i~af~~~~~eF~~~g~-eVigvS~Ds   77 (194)
T COG0450           1 MMSLIGKKAPDFTANAVLGGEIFEEITLSDYYG-KWVVLFFYPADFTFVCPTE-IIAFAKRYEEFQKRGV-EVIGVSTDS   77 (194)
T ss_pred             CCCCCCCCCCCCEEEEEECCCEEEEEECHHHCC-CEEEEEECCCCCCCCCCCH-HHHHHHHHHHHHHCCC-EEEEEECCC
T ss_conf             955358758983888785685036786366568-5799991468878558401-9999765288998599-899996684


Q ss_pred             CHHHHHHHCC----CCC--CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCC
Q ss_conf             0113665223----587--5278610367154333200224765434410015999987-99699999748877787777
Q gi|254780311|r   86 AFVMNAWGKK----LEI--KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATD  158 (177)
Q Consensus        86 ~~~~~aw~~~----~~~--~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d  158 (177)
                      .|++.+|.+.    .+.  ..+++++|.+++.++.||++....+  .   +-|.++||| +|+|+++.+...+.+.    
T Consensus        78 ~fsH~aW~~~~~~~~gi~~i~~P~iaD~~~~vs~~ygvl~~~~g--~---a~R~~FIIDp~g~ir~~~v~~~~iGR----  148 (194)
T COG0450          78 VFSHKAWKATIREAGGIGKIKFPMIADPKGEIARAYGVLHPEEG--L---ALRGTFIIDPDGVIRHILVNPLTIGR----  148 (194)
T ss_pred             HHHHHHHHHCHHHCCCCCCEECCEEECCCHHHHHHCCCCCCCCC--C---CEEEEEEECCCCEEEEEEEECCCCCC----
T ss_conf             89899997367750983542006687682268897098056777--2---04689999999829999972687775----


Q ss_pred             CCCCCCHHHHHHHHHHHC
Q ss_conf             732489999999998616
Q gi|254780311|r  159 PYEISSPENVLKVIRESK  176 (177)
Q Consensus       159 ~~~vs~ae~iL~~Lk~~~  176 (177)
                           +++++|..|++.|
T Consensus       149 -----n~dEilR~idAlq  161 (194)
T COG0450         149 -----NVDEILRVIDALQ  161 (194)
T ss_pred             -----CHHHHHHHHHHHH
T ss_conf             -----7899999999988


No 19 
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=99.95  E-value=3.3e-27  Score=166.63  Aligned_cols=145  Identities=24%  Similarity=0.363  Sum_probs=118.8

Q ss_pred             EEECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             9536706884036888-402358983897499998228878741001010465311245531011023430354011366
Q gi|254780311|r   13 MRVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        13 ikvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      |+|||++|+|+|.+.+ +.++++|+.++|+|||+|||++|||+|+.+ ++.+.+.++.+++.++ .|+.+|.+++..+++
T Consensus         1 l~vGd~aP~F~l~~~~g~~v~L~d~~g~~~vvl~F~p~~~cp~C~~e-~~~~~~~~~~~~~~~v-~Vv~IS~D~~~~~~~   78 (149)
T cd03018           1 LEVGDKAPDFELPDQNGQEVRLSEFRGRKPVVLVFFPLAFTPVCTKE-LCALRDSLELFEAAGA-EVLGISVDSPFSLRA   78 (149)
T ss_pred             CCCCCCCCCEEEECCCCCEEEHHHHCCCCEEEEEEECCCCCCCCCHH-HHHHHHHHHHHHCCCE-EEEEECCCCHHHHHH
T ss_conf             98979886979499998998689976998099999888899975878-9888888887634783-999636999999999


Q ss_pred             HHCCCCCCEEEEEEC--CCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHH
Q ss_conf             522358752786103--67154333200224765434410015999987-996999997488777877777324899999
Q gi|254780311|r   92 WGKKLEIKNVKLLPD--GSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENV  168 (177)
Q Consensus        92 w~~~~~~~~~~~l~D--~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~i  168 (177)
                      |.++.+.. +++|+|  +.++++++||+....  .|+   +.|.++||+ +|+|+|.|+.+.         ++.++..++
T Consensus        79 f~~~~~l~-fpllsD~~~~~~va~~ygv~~~~--~g~---~~r~tfiID~~G~V~~~~v~~~---------~~~r~~~~~  143 (149)
T cd03018          79 WAEENGLT-FPLLSDFWPHGEVAKAYGVFDED--LGV---AERAVFVIDRDGIIRYAWVSDD---------GEPRDLPDY  143 (149)
T ss_pred             HHHHHCCC-CEEEEECCCCCCHHHHCCCCCCC--CCC---CCCEEEEECCCCEEEEEEEECC---------CCCCCHHHH
T ss_conf             99987999-61999689870249886995067--798---4488999979998999999079---------967885799


Q ss_pred             HHHHHH
Q ss_conf             999986
Q gi|254780311|r  169 LKVIRE  174 (177)
Q Consensus       169 L~~Lk~  174 (177)
                      |+.|.+
T Consensus       144 ~~~l~a  149 (149)
T cd03018         144 DEALDA  149 (149)
T ss_pred             HHHHCC
T ss_conf             999659


No 20 
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a 
Probab=99.94  E-value=1.1e-26  Score=163.86  Aligned_cols=138  Identities=31%  Similarity=0.403  Sum_probs=117.7

Q ss_pred             CCCCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCC
Q ss_conf             0688403688-840235898389749999822887874100101046531124553101102343035401136652235
Q gi|254780311|r   18 VLPDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKKL   96 (177)
Q Consensus        18 ~~Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~~   96 (177)
                      +||+|+|.+. .+.++++++ +||+|||+|+|++|||+|+.| +|.+.+.++.+.+.++ .++++|.|++..+++|.+..
T Consensus         1 kAP~f~l~~~~g~~~~l~~~-~gk~vvl~f~p~~~~p~C~~e-~~~~~~~~~~~~~~g~-~vv~Is~d~~~~~~~~~~~~   77 (140)
T cd02971           1 KAPDFTLPATDGGEVSLSDF-KGKWVVLFFYPKDFTPVCTTE-LCAFRDLAEEFAKGGA-EVLGVSVDSPFSHKAWAEKE   77 (140)
T ss_pred             CCCCEEEECCCCCEEEHHHH-CCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHHCCCC-EEEEECCCCHHHHHHHHHHH
T ss_conf             99988958899999867997-989499999999889996144-6889999887504771-68776289999999999984


Q ss_pred             CCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             875278610367154333200224765434410015999987-9969999974887778777773248999999
Q gi|254780311|r   97 EIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENVL  169 (177)
Q Consensus        97 ~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL  169 (177)
                      +...+++++|++++++++||+..+...  ++.++.|+++||+ +|+|++++++..+         ..++++++|
T Consensus        78 ~~~~f~~l~D~~~~~~~~ygv~~~~~~--~~~~~~r~tfvId~~G~I~~~~i~~~~---------~~~~~~~~l  140 (140)
T cd02971          78 GGLNFPLLSDPDGEFAKAYGVLIEKSA--GGGLAARATFIIDPDGKIRYVEVEPLP---------TGRNAEELL  140 (140)
T ss_pred             CCCCCEEEECCCHHHHHHCCCCCCCCC--CCCCCCCEEEEECCCCEEEEEEECCCC---------CCCCHHHHC
T ss_conf             588865888686899998399734655--789521089999999989999988999---------997957709


No 21 
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of  thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein,  Dot5p (for disrupter of telomere silencing protein 5), w
Probab=99.92  E-value=3.5e-24  Score=150.31  Aligned_cols=138  Identities=23%  Similarity=0.296  Sum_probs=112.4

Q ss_pred             CCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCC
Q ss_conf             706884036888-4023589838974999982288787410010104653112455310110234303540113665223
Q gi|254780311|r   17 TVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKK   95 (177)
Q Consensus        17 d~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~   95 (177)
                      |+||||++.+.+ +.++++| ++||+|||+|||+++||+|+.| ++.+.+.++.+++.|+ .++.+|.+++..+.+|.+.
T Consensus         1 d~APdF~l~~~~G~~~~L~d-~~Gk~vvl~F~p~~~~p~C~~e-~~~~~~~~~~~~~~g~-~vv~IS~d~~~~~~~~~~~   77 (140)
T cd03017           1 DKAPDFTLPDQDGETVSLSD-LRGKPVVLYFYPKDDTPGCTKE-ACDFRDLYEEFKALGA-VVIGVSPDSVESHAKFAEK   77 (140)
T ss_pred             CCCCCEEEECCCCCEEEHHH-HCCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHHHCCC-EEEEECCCCHHHHHHHHHH
T ss_conf             98898486889989987899-7998499999668789978899-9999999999874198-4899827889999999998


Q ss_pred             CCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             5875278610367154333200224765434410015999987-99699999748877787777732489999999
Q gi|254780311|r   96 LEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPENVLK  170 (177)
Q Consensus        96 ~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL~  170 (177)
                      .+.. +++|+|++++++++||+.....+.  .....|+++||+ +|+|+++|..-.+.          .+++++|+
T Consensus        78 ~~~~-fp~l~D~~~~v~~~ygv~~~~~~~--~~~~~R~tfvId~~G~I~~i~~~~~~~----------~~~~~~l~  140 (140)
T cd03017          78 YGLP-FPLLSDPDGKLAKAYGVWGEKKKK--YMGIERSTFLIDPDGKIVKVWRKVKPK----------GHAEEVLE  140 (140)
T ss_pred             HCCC-CEEEEECCHHHHHHCCCCCCCCCC--CCCEEEEEEEECCCCEEEEEECCCCCC----------CHHHHHHC
T ss_conf             6998-379994973999986998657666--674767999998999899998589945----------48989629


No 22 
>KOG0855 consensus
Probab=99.89  E-value=8e-23  Score=142.99  Aligned_cols=149  Identities=23%  Similarity=0.297  Sum_probs=117.6

Q ss_pred             EEEEECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHH
Q ss_conf             999536706884036888-4023589838974999982288787410010104653112455310110234303540113
Q gi|254780311|r   11 FHMRVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVM   89 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~   89 (177)
                      .++.+||.+|||||.+++ ..+++.++-++|.||||+||.|-||+||.+.|.++++| +.+++.+. +++.+|-+|+-.+
T Consensus        61 ~~v~~Gd~iPD~tL~dedg~sisLkkit~nk~vV~f~YP~asTPGCTkQaCgFRDnY-~k~kka~a-eV~GlS~D~s~sq  138 (211)
T KOG0855          61 LKVNKGDAIPDFTLKDEDGKSISLKKITGNKPVVLFFYPAASTPGCTKQACGFRDNY-EKFKKAGA-EVIGLSGDDSASQ  138 (211)
T ss_pred             EEEECCCCCCCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCCCCCCCCCCCH-HHHHHCCC-EEEEECCCCHHHH
T ss_conf             024327747872212679986560232378727999821678998531124420248-98863585-5886325736777


Q ss_pred             HHHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             66522358752786103671543332002247654344100159999879969999974887778777773248999999
Q gi|254780311|r   90 NAWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDPYEISSPENVL  169 (177)
Q Consensus        90 ~aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL  169 (177)
                      +++....+.. ..+|+|+.+++.+.||...+..    |..+.|..+|.++|.++.++.+....      | +| +.++.|
T Consensus       139 KaF~sKqnlP-YhLLSDpk~e~ik~lGa~k~p~----gg~~~Rsh~if~kg~~k~~ik~~~is------P-ev-svd~a~  205 (211)
T KOG0855         139 KAFASKQNLP-YHLLSDPKNEVIKDLGAPKDPF----GGLPGRSHYIFDKGGVKQLIKNNQIS------P-EV-SVDEAL  205 (211)
T ss_pred             HHHHHHCCCC-EEEECCCCHHHHHHHCCCCCCC----CCCCCCEEEEEECCCEEEEEEECCCC------C-CC-CHHHHH
T ss_conf             8764122587-0542074212788718988887----88534147999569737998723547------5-10-088898


Q ss_pred             HHHHH
Q ss_conf             99986
Q gi|254780311|r  170 KVIRE  174 (177)
Q Consensus       170 ~~Lk~  174 (177)
                      +.|++
T Consensus       206 k~~~~  210 (211)
T KOG0855         206 KFLKA  210 (211)
T ss_pred             HHHHC
T ss_conf             88752


No 23 
>pfam08534 Redoxin Redoxin. This family of redoxins includes peroxiredoxin, thioredoxin and glutaredoxin proteins.
Probab=99.87  E-value=1.1e-21  Score=136.75  Aligned_cols=139  Identities=32%  Similarity=0.416  Sum_probs=109.1

Q ss_pred             ECCCCCCCCCCC---CCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             367068840368---88402358983897499998228878741001010465311245531011023430354011366
Q gi|254780311|r   15 VATVLPDGSKAF---QWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        15 vGd~~Pd~tl~~---~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      .||.+|+|+|.+   +++.+++++ |+||++||+|+|++++|.|..+ ++.+.+.++.+...+++.+.+.+.+++....+
T Consensus         1 ~G~~aP~f~l~~~~~dg~~~~l~~-~~Gk~vvl~f~~~~wCp~C~~e-~~~l~~~~~~~~~~~~~iv~I~~~~~~~~~~~   78 (142)
T pfam08534         1 AGDKAPDFTLPDVALDGKTVSLSD-FKGKKVVLNFWPGAFCPTCSAE-HPYLEKLSKLYKAKGVDVVAVNASNDPFFVMN   78 (142)
T ss_pred             CCCCCCCEECCCCCCCCCEECHHH-HCCCEEEEEEECCCCCCCCCCH-HHHHHHHHHHHCCCCEEEEEEECCCCHHHHHH
T ss_conf             909994718127578996971999-8999699999789889264563-56566778874165338998833760788999


Q ss_pred             HHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCCHHHHH
Q ss_conf             522358752786103671543332002247654344100159999879969999974887778777773248999999
Q gi|254780311|r   92 WGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDPYEISSPENVL  169 (177)
Q Consensus        92 w~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL  169 (177)
                      |.++.+.. +++++|++++++++||+..+   .+++  ..++++|..||+|.+.++.+.+        .+.++++++|
T Consensus        79 ~~~~~~~~-fp~l~D~~~~~~~~~gv~~~---~~~~--~p~~~lId~~G~I~~~~~g~~~--------~~~~~~~~~l  142 (142)
T pfam08534        79 FWAKEGLK-YPVLADGDGAFTKAYGLTED---AGLR--TPRYFLIDEDGKVVYLEVGPDP--------GDVSDAEAVL  142 (142)
T ss_pred             HHHHHCCC-CEEEECCCHHHHHHCCCCCC---CCCE--EEEEEEECCCCEEEEEEECCCC--------CCCCCHHHHC
T ss_conf             99986997-07998696499998299744---6630--7689999279979999977998--------8885869869


No 24 
>KOG0852 consensus
Probab=99.77  E-value=4.6e-18  Score=117.37  Aligned_cols=149  Identities=24%  Similarity=0.328  Sum_probs=114.6

Q ss_pred             EEEEECCCCCCCCC----CCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             99953670688403----68884023589838974999982288787410010104653112455310110234303540
Q gi|254780311|r   11 FHMRVATVLPDGSK----AFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDA   86 (177)
Q Consensus        11 ~~ikvGd~~Pd~tl----~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~   86 (177)
                      |++.+..++|+|.-    ....++++++|| +||+|+|+|||++||-+|.+|-. .|...+.+|++.+- +++.+|++..
T Consensus         2 ~~~~~~~p~p~fk~~aVVdG~f~e~~L~dy-~gkyvvlfFyplDftfVcPteIi-afSd~~~eF~~~n~-eVig~S~DS~   78 (196)
T KOG0852           2 MMEVVFKPAPDFKGTAVVDGEFKEIKLSDY-KGKYVVLFFYPLDFTFVCPTEII-AFSDRAPEFRKLNT-EVLGISTDSV   78 (196)
T ss_pred             CCCCCCCCCCCCCEEEEECCCCEEEEEHHH-CCCEEEEEECCCCEEEECCHHHH-HHHHHHHHHHHCCC-EEEEEECCCH
T ss_conf             744457888876325897680017750010-56389998558741047754664-56565788886297-5999863324


Q ss_pred             HHHHHHHCC------CCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCC
Q ss_conf             113665223------5875278610367154333200224765434410015999987-996999997488777877777
Q gi|254780311|r   87 FVMNAWGKK------LEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDP  159 (177)
Q Consensus        87 ~~~~aw~~~------~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~  159 (177)
                      |.+-||...      .+...+++++|.+.+.++.||++...++.     +-|-.+||+ +|+++++-+..-+.+.     
T Consensus        79 fshlAW~ntprk~gGlg~~~iPllsD~~~~IsrdyGvL~~~~G~-----~lRglfIId~~gi~R~it~NDlpvgR-----  148 (196)
T KOG0852          79 FSHLAWINTPRKQGGLGPLNIPLLSDLNHEISRDYGVLKEDEGI-----ALRGLFIIDPDGILRQITINDLPVGR-----  148 (196)
T ss_pred             HHHHHHHCCCHHHCCCCCCCCCEEECCCHHHHHHCCCEECCCCC-----CEEEEEEECCCCCEEEEEECCCCCCC-----
T ss_conf             33466765854438967656633316324567761846347884-----12116898466515776532567773-----


Q ss_pred             CCCCCHHHHHHHHHHHC
Q ss_conf             32489999999998616
Q gi|254780311|r  160 YEISSPENVLKVIRESK  176 (177)
Q Consensus       160 ~~vs~ae~iL~~Lk~~~  176 (177)
                          +.+++|..+++-|
T Consensus       149 ----SVdE~lRLvqAfQ  161 (196)
T KOG0852         149 ----SVDETLRLVQAFQ  161 (196)
T ss_pred             ----CHHHHHHHHHHHH
T ss_conf             ----3899999998873


No 25 
>COG2077 Tpx Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=99.77  E-value=2.2e-18  Score=119.08  Aligned_cols=131  Identities=23%  Similarity=0.254  Sum_probs=104.1

Q ss_pred             EEECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             9536706884036888-402358983897499998228878741001010465311245531011023430354011366
Q gi|254780311|r   13 MRVATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        13 ikvGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      ++|||++|||++.+.+ +++++.+ |+||+.||.-+|.-.||+|..+.- -|   .+...+.+...++|+|+|-||++.+
T Consensus        18 ~~vGd~ap~ftl~~~dL~~v~l~~-~~gk~~vi~v~PSiDT~VC~~qvr-~F---n~~aa~~~~~~Vl~IS~DLPFAq~R   92 (158)
T COG2077          18 PQVGDKAPDFTLVGKDLNDVSLAD-FAGKKKVISVFPSIDTPVCATQVR-KF---NEEAAKLGNTVVLCISMDLPFAQKR   92 (158)
T ss_pred             CCCCCCCCCEEEECCCCCCEECCC-CCCCEEEEEECCCCCCCHHHHHHH-HH---HHHHHCCCCCEEEEEECCCHHHHHH
T ss_conf             766886875489757410102233-588569999825898734468899-99---9998425992799996789658763


Q ss_pred             HHCCCCCCEEEEEECCCH-HHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEECCC
Q ss_conf             522358752786103671-54333200224765434410015999987-996999997488
Q gi|254780311|r   92 WGKKLEIKNVKLLPDGSG-EFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFVEEG  150 (177)
Q Consensus        92 w~~~~~~~~~~~l~D~~~-~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~  150 (177)
                      |+...++..+..+||... +|-+.||+.+....  |-....|.++++| +|+|.|.-.-+.
T Consensus        93 fC~aeGi~nv~~lSd~r~~~Fge~yGv~I~egp--L~gLlARaV~V~De~g~V~y~elv~e  151 (158)
T COG2077          93 FCGAEGIENVITLSDFRDRAFGENYGVLINEGP--LAGLLARAVFVLDENGKVTYSELVPE  151 (158)
T ss_pred             HHHHCCCCCCEEHHHHHHHHHHHHHCEEECCCC--CCCEEEEEEEEECCCCCEEEEECCCH
T ss_conf             666528665167155302456575277852564--24703569999838993999871404


No 26 
>KOG0854 consensus
Probab=99.75  E-value=1.2e-17  Score=115.08  Aligned_cols=153  Identities=22%  Similarity=0.353  Sum_probs=120.7

Q ss_pred             EEEECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             99536706884036888402358983897499998228878741001010465311245531011023430354011366
Q gi|254780311|r   12 HMRVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        12 ~ikvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      .+++||.+|+|+....-..+..+|++++.|.|||+.|++|||+||+| +..+..+..+|.+.++ ..+..|+++-..+..
T Consensus         5 ~l~lgd~~PNfea~Tt~g~i~fhd~~gdSW~vLFSHPaDFTPVCTTE-lgr~Akl~pEF~KRnv-KlialS~d~vesH~~   82 (224)
T KOG0854           5 RLRLGDTVPNFEADTTVGKIKFHDYLGDSWGVLFSHPADFTPVCTTE-LGRFAKLAPEFDKRNV-KLIALSVDDVESHKD   82 (224)
T ss_pred             CCCCCCCCCCCCCCCCCCCEEHHHHCCCCEEEEECCCCCCCCCHHHH-HHHHHHHCHHHHHCCC-EEEEEEHHHHHHHHH
T ss_conf             31026757875122432624553530660589741766677510577-7788863726664586-578865316777889


Q ss_pred             HHCCC--------CCCEEEEEECCCHHHHHHHHCCCCC--CCCCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCC
Q ss_conf             52235--------8752786103671543332002247--65434410015999987-9969999974887778777773
Q gi|254780311|r   92 WGKKL--------EIKNVKLLPDGSGEFTRKMGMLVYK--DNVGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPY  160 (177)
Q Consensus        92 w~~~~--------~~~~~~~l~D~~~~~~~~~g~~~~~--~~~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~  160 (177)
                      |-+..        ..-.+++++|++.+.+-.++|+-..  ...|+|. .-|.++|++ +-+|+-.+.-+...+.      
T Consensus        83 Wi~DIks~~~~~~~~~~yPIIaD~~rela~~l~MlD~~e~~~~~~~~-T~Ravfvi~pdkKirLs~lYP~ttGR------  155 (224)
T KOG0854          83 WIKDIKSYAKVKNHSVPYPIIADPNRELAFLLNMLDPEEKKNIGDGK-TVRAVFVIDPDKKIRLSFLYPSTTGR------  155 (224)
T ss_pred             HHHHHHHHHHCCCCCCCCCEECCCCHHHHHHHCCCCHHHCCCCCCCC-EEEEEEEECCCCEEEEEEECCCCCCC------
T ss_conf             99999998742677789875458715465653456976748877883-67899997887617999971355676------


Q ss_pred             CCCCHHHHHHHHHHHC
Q ss_conf             2489999999998616
Q gi|254780311|r  161 EISSPENVLKVIRESK  176 (177)
Q Consensus       161 ~vs~ae~iL~~Lk~~~  176 (177)
                         .-++||..|-+.|
T Consensus       156 ---N~dEiLRvidsLq  168 (224)
T KOG0854         156 ---NFDEILRVIDSLQ  168 (224)
T ss_pred             ---CHHHHHHHHHHHH
T ss_conf             ---8899999998875


No 27 
>pfam00578 AhpC-TSA AhpC/TSA family. This family contains proteins related to alkyl hydroperoxide reductase (AhpC) and thiol specific antioxidant (TSA).
Probab=99.72  E-value=4.1e-17  Score=112.24  Aligned_cols=122  Identities=30%  Similarity=0.478  Sum_probs=101.4

Q ss_pred             ECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHH
Q ss_conf             36706884036888-40235898389749999822887874100101046531124553101102343035401136652
Q gi|254780311|r   15 VATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWG   93 (177)
Q Consensus        15 vGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~   93 (177)
                      ||+.+|+|++.+.. +.+++++ ++||++||.|+++.+.|.|.. ++|.+.+.++.++++++ .++.++.+++..+.+|.
T Consensus         1 iG~~aP~f~l~d~~G~~~~l~~-~~gk~~vl~f~~~~wC~~C~~-~~~~l~~~~~~~~~~~~-~vv~is~d~~~~~~~~~   77 (124)
T pfam00578         1 VGDKAPDFELPDLDGKEVSLSD-YKGKWVVLFFYPKDFTPVCTT-ELPALADLYEEFKKLGV-EVLGVSVDSPESHKKFA   77 (124)
T ss_pred             CCCCCCCCEEECCCCCEEEHHH-HCCCEEEEEEECCCCCCCHHH-HHHHHHHHHHHHHCCCC-EEEEECCCCHHHHHHHH
T ss_conf             9789986187989969984999-899919999988999927299-99999874432313587-46678589999999999


Q ss_pred             CCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEE
Q ss_conf             235875278610367154333200224765434410015999987-9969999
Q gi|254780311|r   94 KKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESW  145 (177)
Q Consensus        94 ~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~  145 (177)
                      +..+.. +++++|.++..++++|+......     .+.++++||+ ||+|.|+
T Consensus        78 ~~~~~~-~~~l~D~~~~~~~~~gv~~~~~~-----~~~P~~~lID~~G~I~yi  124 (124)
T pfam00578        78 EKLGLP-FPLLSDPDGEVARAYGVLNEEAG-----GALRTTFVIDPDGKIRYI  124 (124)
T ss_pred             HHHCCC-CEEEEECCCHHHHHCCCCCCCCC-----CEEEEEEEECCCCEEEEC
T ss_conf             985999-47999597499998599846679-----882489999899979879


No 28 
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=99.64  E-value=2.5e-15  Score=102.59  Aligned_cols=128  Identities=16%  Similarity=0.139  Sum_probs=100.4

Q ss_pred             CCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCC
Q ss_conf             06884036888-40235898389749999822887874100101046531124553101102343035401136652235
Q gi|254780311|r   18 VLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKKL   96 (177)
Q Consensus        18 ~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~~   96 (177)
                      .+|||+|++.. +.++++++.+++++||+||++++.|.|.. +++.+...++.+.+.|+ .++.++.+++....++.+..
T Consensus         1 ~APdf~L~~~~G~~v~l~~~~~~~~vvl~F~R~~~Cp~C~~-~l~~l~~~~~~~~~~gv-~vvaIs~~~~~~~~~~~~~~   78 (149)
T cd02970           1 TAPDFELPDAGGETVTLSALLGEGPVVVVFYRGFGCPFCRE-YLRALSKLLPELDALGV-ELVAVGPESPEKLEAFDKGK   78 (149)
T ss_pred             CCCCEEEECCCCCEEECHHHCCCCCEEEEEECCCCCCCCCC-CHHHHHHHHHHHHHCCC-EEEEEECCCHHHHHHHHHHC
T ss_conf             99970857899898976798099979999977899942147-19899988999987696-59999279999999999865


Q ss_pred             CCCEEEEEECCCHHHHHHHHCCCCCCCCC----------------C--CEEEEEEEEEEC-CCEEEEEEEC
Q ss_conf             87527861036715433320022476543----------------4--410015999987-9969999974
Q gi|254780311|r   97 EIKNVKLLPDGSGEFTRKMGMLVYKDNVG----------------F--GLRSWRYGALIK-DMVVESWFVE  148 (177)
Q Consensus        97 ~~~~~~~l~D~~~~~~~~~g~~~~~~~~g----------------~--g~rs~R~a~Ii~-dG~I~~~~~E  148 (177)
                      +.. +++++|++.+.++++|+........                .  ......-++||+ ||+|.+.+++
T Consensus        79 ~~~-f~vl~D~~~~~~~~~Gl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pg~fvi~~~g~I~~~h~~  148 (149)
T cd02970          79 FLP-FPVYADPDRKLYRALGLVRSLPWSNTPRALWKNAAIGFRGNDEGDGLQLPGVFVIGPDGTILFAHVD  148 (149)
T ss_pred             CCC-CEEEECCCHHHHHHCCCEEECCHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEECCCCEEEEEEEC
T ss_conf             998-3699849779999869558763666467887354335678989876746779999999989999817


No 29 
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=99.56  E-value=3.5e-14  Score=96.46  Aligned_cols=143  Identities=20%  Similarity=0.253  Sum_probs=101.8

Q ss_pred             CCCEEEEEEECCCCCCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             8815999953670688403688-840235898389749999822887874100101046531124553101102343035
Q gi|254780311|r    6 IPQVVFHMRVATVLPDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVN   84 (177)
Q Consensus         6 ip~~~~~ikvGd~~Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~   84 (177)
                      ..+-..+++||+.||+|++.+. ++.++++| ++||.|||.|. +.+-|.|..|+ |.....++.++..++ .++.++.+
T Consensus        29 ~~~~~~~~~iG~~aP~f~l~~l~G~~v~lsd-~kGK~vll~FW-AtWC~pC~~E~-P~L~~l~~~~~~~~v-~vi~i~~d  104 (176)
T PRK03147         29 FFADKEKMQVGKEAPNFVLTDLEGKKIELKD-LKGKGVFLNFW-GTWCKPCEKEM-PYMNELYPKYKEKGV-EIIAVNVD  104 (176)
T ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCEEEHHH-HCCCEEEEEEE-CCCCCCHHHHH-HHHHHHHHHHHCCCE-EEEEECCC
T ss_conf             7778752337990897162789989871899-69997999997-89792754671-559999998530644-78522078


Q ss_pred             CCH-HHHHHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf             401-13665223587527861036715433320022476543441001599998-7996999997488777877777324
Q gi|254780311|r   85 DAF-VMNAWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESWFVEEGFSDNCATDPYEI  162 (177)
Q Consensus        85 d~~-~~~aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~~~E~~~~~~~~~d~~~v  162 (177)
                      +.. ...++.+..+. .++.+.|.++..+..+|..           +..++++| .+|+|++.++-+          .+.
T Consensus       105 ~~~~~v~~f~~~~~~-~~pv~~D~~~~~~~~~~v~-----------~~P~t~lId~~G~I~~~~~G~----------i~~  162 (176)
T PRK03147        105 ETDIAVKNFVNQYGL-KFPVAIDKGRQVIDAYGVG-----------PLPTTFLIDKDGKVVKVITGE----------MTE  162 (176)
T ss_pred             CCHHHHHHHHHHCCC-CCEEEECCCCHHHHHCCCC-----------CCCEEEEECCCCEEEEEEECC----------CCH
T ss_conf             878889888987099-6228987973589876999-----------888699997999799999789----------999


Q ss_pred             CCHHHHHHHHHH
Q ss_conf             899999999986
Q gi|254780311|r  163 SSPENVLKVIRE  174 (177)
Q Consensus       163 s~ae~iL~~Lk~  174 (177)
                      ...+++|+.|++
T Consensus       163 ~~l~~~i~~lk~  174 (176)
T PRK03147        163 EMLEEYLNKIKP  174 (176)
T ss_pred             HHHHHHHHHHHC
T ss_conf             999999998744


No 30 
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=99.37  E-value=4e-12  Score=85.33  Aligned_cols=116  Identities=17%  Similarity=0.120  Sum_probs=84.7

Q ss_pred             CCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCC--------C
Q ss_conf             6706884036888-402358983897499998228878741001010465311245531011023430354--------0
Q gi|254780311|r   16 ATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVND--------A   86 (177)
Q Consensus        16 Gd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d--------~   86 (177)
                      |++||||+|.+.+ +.++++|+ +++++|++++.+.+.|.|.. ..|.+...+..+...|+ .++.+++|+        +
T Consensus         1 G~~APdF~L~d~~G~~~~Lsd~-~~~k~vvl~F~~~~CP~c~~-~~p~l~~l~~~~~~~gv-~~lgVn~~~~~~~~~ds~   77 (171)
T cd02969           1 GSPAPDFSLPDTDGKTYSLADF-ADGKALVVMFICNHCPYVKA-IEDRLNRLAKEYGAKGV-AVVAINSNDIEAYPEDSP   77 (171)
T ss_pred             CCCCCCCEEECCCCCEEEHHHH-CCCCEEEEEEECCCCHHHHH-HHHHHHHHHHHHHCCCE-EEEEEECCCCCCCCCCCH
T ss_conf             9899762713799899868997-79998999995899917888-88765567767634782-899996687443755699


Q ss_pred             HHHHHHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEE
Q ss_conf             1136652235875278610367154333200224765434410015999987-99699999
Q gi|254780311|r   87 FVMNAWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWF  146 (177)
Q Consensus        87 ~~~~aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~  146 (177)
                      ..+.++.+..+.. +++|.|+.++.+++||.....           .++||+ +|+|.|--
T Consensus        78 ~~~~~~~~~~~~~-fPvL~D~~g~va~~yg~~~tP-----------~~fvID~~G~i~YrG  126 (171)
T cd02969          78 ENMKAKAKEHGYP-FPYLLDETQEVAKAYGAACTP-----------DFFLFDPDGKLVYRG  126 (171)
T ss_pred             HHHHHHHHHHCCC-CEEEEECCCHHHHHCCCCCCC-----------EEEEECCCCEEEEEC
T ss_conf             9999999870237-179995897499974996488-----------079988999899868


No 31 
>cd03010 TlpA_like_DsbE TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c maturation (Ccm) factor with a redox active CXXC motif. Assembly of cytochrome c requires the ligation of heme to reduced thiols of the apocytochrome. In bacteria, this assembly occurs in the periplasm. The reductase activity of DsbE in the oxidizing environment of the periplasm is crucial in the maturation of cytochrome c.
Probab=98.72  E-value=1.3e-07  Score=60.99  Aligned_cols=113  Identities=19%  Similarity=0.233  Sum_probs=77.9

Q ss_pred             CCCCCCCCCCCC---CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECC-CCHHHHHH
Q ss_conf             706884036888---40235898389749999822887874100101046531124553101102343035-40113665
Q gi|254780311|r   17 TVLPDGSKAFQW---KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVN-DAFVMNAW   92 (177)
Q Consensus        17 d~~Pd~tl~~~~---~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~-d~~~~~aw   92 (177)
                      ..||+|++.+.+   +.++++| |+||.|||.|. +.+-|.|-.|+ |...+.+   ++.++ .++.++.. ++....+|
T Consensus         1 kpAP~f~l~~ldG~~~~ls~~d-~kGk~vvl~FW-AtWC~pC~~e~-P~l~~l~---~~~~~-~vv~v~~~d~~~~~~~~   73 (127)
T cd03010           1 KPAPAFSLPALPGPDKTLTSAD-LKGKPYLLNVW-ASWCAPCREEH-PVLMALA---RQGRV-PIYGINYKDNPENALAW   73 (127)
T ss_pred             CCCCCEECCCCCCCCEEECHHH-HCCCEEEEEEE-CCCCHHHHHHC-CHHHHHH---HCCCE-EEEEEECCCCHHHHHHH
T ss_conf             9899627117789952856999-29998999999-89586688868-1078884---25835-89986347899999999


Q ss_pred             HCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEEEE
Q ss_conf             223587527861036715433320022476543441001599998-7996999997
Q gi|254780311|r   93 GKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESWFV  147 (177)
Q Consensus        93 ~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~~~  147 (177)
                      .+..+......+.|..+..++.++..      |+     =+++|| .+|+|.+.++
T Consensus        74 ~~~~~~~~~~~~~D~~~~~~~~~~v~------~~-----Ptt~liD~~G~I~~~~~  118 (127)
T cd03010          74 LARHGNPYAAVGFDPDGRVGIDLGVY------GV-----PETFLIDGDGIIRYKHV  118 (127)
T ss_pred             HHHHCCCCCEEEECCCCCHHHHCCCC------CC-----CCEEEEECCCEEEEEEE
T ss_conf             99839986447755886322307855------47-----81999919997999998


No 32 
>cd02966 TlpA_like_family TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=98.71  E-value=1.4e-07  Score=60.93  Aligned_cols=111  Identities=28%  Similarity=0.402  Sum_probs=79.1

Q ss_pred             CCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCC--CHHHHHHHCCCC
Q ss_conf             84036888-402358983897499998228878741001010465311245531011023430354--011366522358
Q gi|254780311|r   21 DGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVND--AFVMNAWGKKLE   97 (177)
Q Consensus        21 d~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d--~~~~~aw~~~~~   97 (177)
                      ||++.+.. +.++++++ +||.+||+|. +.+-|.|.. ++|...+.++.++..++ .++.++.++  +-..+.|.+..+
T Consensus         1 df~l~d~~G~~~~l~~~-~gk~~vl~f~-a~wC~~C~~-~~~~l~~~~~~~~~~~v-~vi~i~~~~~~~~~~~~~~~~~~   76 (116)
T cd02966           1 DFSLPDLDGKPVSLSDL-KGKVVLVNFW-ASWCPPCRA-EMPELEALAKEYKDDGV-EVVGVNVDDDDPAAVKAFLKKYG   76 (116)
T ss_pred             CCCEECCCCCEEEHHHH-CCCEEEEEEE-CCCCCCCCC-CCCCEEEEECCCCCCCC-EEEEEECCCCCHHHHHHHHHHCC
T ss_conf             92158799299859997-9995999999-278997545-36420233013445641-38999788788899999887439


Q ss_pred             CCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEEEE
Q ss_conf             7527861036715433320022476543441001599998-7996999997
Q gi|254780311|r   98 IKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESWFV  147 (177)
Q Consensus        98 ~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~~~  147 (177)
                      . .++++.|..+++.+.++..           +--+++|+ .+|+|.+.++
T Consensus        77 ~-~~p~~~D~~~~~~~~~~v~-----------~~P~~~iid~~G~i~~~~~  115 (116)
T cd02966          77 I-TFPVLLDPDGELAKAYGVR-----------GLPTTFLIDRDGRIRARHV  115 (116)
T ss_pred             C-CEEEEECCCCHHHHHCCCC-----------CCCEEEEECCCCEEEEEEE
T ss_conf             8-3389986985289984998-----------0457999999999999997


No 33 
>cd03011 TlpA_like_ScsD_MtbDsbE TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif. The Salmonella typhimurium ScsD is a thioredoxin-like protein which confers copper tolerance to copper-sensitive mutants of E. coli. MtbDsbE has been characterized as an oxidase in vitro, catalyzing the disulfide bond formation of substrates like hirudin. The reduced form of MtbDsbE is more stable than its oxidized form, consistent with an oxidase function. This is in contrast to the function of DsbE from gram-negative bacteria which is a specific reductase of apocytochrome c.
Probab=98.44  E-value=2.3e-06  Score=54.30  Aligned_cols=106  Identities=14%  Similarity=0.188  Sum_probs=68.9

Q ss_pred             CCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCCCC
Q ss_conf             884036888-4023589838974999982288787410010104653112455310110234303540113665223587
Q gi|254780311|r   20 PDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKKLEI   98 (177)
Q Consensus        20 Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~~~~   98 (177)
                      |+|++.+.+ +.+++++ ++||.|||.|. +..-|.|-.+ +|...+..+.+.    ...+.+..++.-..+++.+..+.
T Consensus         1 P~ftl~~ldG~~~~l~~-~~Gk~vvl~FW-AtWC~pC~~e-~P~l~~l~~~~~----~v~v~~~~~~~~~v~~f~~~~~~   73 (123)
T cd03011           1 PLFTATTLDGEQFDLES-LSGKPVLVYFW-ATWCPVCRFT-SPTVNQLAADYP----VVSVALRSGDDGAVARFMQKKGY   73 (123)
T ss_pred             CCEEEECCCCCEEEHHH-HCCCEEEEEEE-CCCCCCHHHH-CHHHHHHHHHCC----EEEEEEECCCHHHHHHHHHHCCC
T ss_conf             96175779989984899-69998999999-3878136563-833888873387----88788603868888877651188


Q ss_pred             CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEE
Q ss_conf             5278610367154333200224765434410015999987-996999
Q gi|254780311|r   99 KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVES  144 (177)
Q Consensus        99 ~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~  144 (177)
                       .++.+.|.+++.++++++.      ++     =+++|++ +|+|.+
T Consensus        74 -~fp~~~D~~~~~~~~y~v~------~~-----Pt~~liD~~GiV~~  108 (123)
T cd03011          74 -GFPVINDPDGVISARWGVS------VT-----PAIVIVDPGGIVFV  108 (123)
T ss_pred             -CCEEEECCCCCHHHHCCCC------CC-----CEEEEEECCCEEEE
T ss_conf             -7328988997626547977------16-----77999919998999


No 34 
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=98.24  E-value=1.2e-05  Score=50.45  Aligned_cols=114  Identities=18%  Similarity=0.102  Sum_probs=75.6

Q ss_pred             CCCCCC----CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEEC------CCCHHH
Q ss_conf             884036----8884023589838974999982288787410010104653112455310110234303------540113
Q gi|254780311|r   20 PDGSKA----FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSV------NDAFVM   89 (177)
Q Consensus        20 Pd~tl~----~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~------~d~~~~   89 (177)
                      |||+-.    +.+++++++|+ +||.|||-|. +..-|.|-.+ +|.....++.++..++ .++.+.+      .++-..
T Consensus         1 p~~~~~~~wlN~~~~vsL~~~-kGK~Vll~FW-atwC~pC~~e-~P~l~~l~~~~~~~gv-~vigV~~~~~~~e~~~~~~   76 (126)
T cd03012           1 PEFEGILQWLNTDKPLSLAQL-RGKVVLLDFW-TYCCINCLHT-LPYLTDLEQKYKDDGL-VVIGVHSPEFAFERDLANV   76 (126)
T ss_pred             CCCCCCCCCCCCCCCCCHHHH-CCCEEEEEEE-CCCCHHHHHH-HHHHHHHHHHCCCCCC-EEEEEECCCCCCCCCHHHH
T ss_conf             988876741269983758994-9998999872-2419378877-2999999997065881-7999844544430259999


Q ss_pred             HHHHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEEEECC
Q ss_conf             665223587527861036715433320022476543441001599998-799699999748
Q gi|254780311|r   90 NAWGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESWFVEE  149 (177)
Q Consensus        90 ~aw~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~~~E~  149 (177)
                      .++.+..+.. ++.+.|..+...++++..      ++     =+++|| .+|+|++.++=|
T Consensus        77 ~~~~~~~~i~-~pv~~D~~~~~~~~~~v~------~~-----Pt~~lID~~G~i~~~~~Ge  125 (126)
T cd03012          77 KSAVLRYGIT-YPVANDNDYATWRAYGNQ------YW-----PALYLIDPTGNVRHVHFGE  125 (126)
T ss_pred             HHHHHHHCCC-CEEEECCCHHHHHHCCCC------CC-----CEEEEECCCCCEEEEEECC
T ss_conf             9999985997-428985817889857998------23-----8799998998299999578


No 35 
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=98.17  E-value=2e-05  Score=49.22  Aligned_cols=126  Identities=19%  Similarity=0.173  Sum_probs=76.2

Q ss_pred             CCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHC--CCEEEEEEC----CCCHHHH
Q ss_conf             06884036888-4023589838974999982288787410010104653112455310--110234303----5401136
Q gi|254780311|r   18 VLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEG--IEEVYCLSV----NDAFVMN   90 (177)
Q Consensus        18 ~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~--~~~i~~~s~----~d~~~~~   90 (177)
                      .+|+|+|.++. +.++++++ +||+++|+|.---=..+|... +....+..+.+...+  -..++.+|+    |+|-+++
T Consensus         1 ~~p~f~L~d~~G~~~~~~~~-~gk~~lv~F~yt~Cp~~Cp~~-~~~l~~~~~~l~~~~~~~v~~v~ISvDP~rDtpe~L~   78 (142)
T cd02968           1 IGPDFTLTDQDGRPVTLSDL-KGKPVLVYFGYTHCPDVCPTT-LANLAQALKQLGADGGDDVQVVFISVDPERDTPEVLK   78 (142)
T ss_pred             CCCCEEEECCCCCEEEHHHH-CCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHH
T ss_conf             97986999199899827997-998899998746799934899-9999999998644325857999999088889999999


Q ss_pred             HHHCCCCCCEEEEEEC---CCHHHHHHHHCCCCCCCC----CCCEEEEEEEEEECCCEEEEEE
Q ss_conf             6522358752786103---671543332002247654----3441001599998799699999
Q gi|254780311|r   91 AWGKKLEIKNVKLLPD---GSGEFTRKMGMLVYKDNV----GFGLRSWRYGALIKDMVVESWF  146 (177)
Q Consensus        91 aw~~~~~~~~~~~l~D---~~~~~~~~~g~~~~~~~~----g~g~rs~R~a~Ii~dG~I~~~~  146 (177)
                      +|.+..+ ....+|.-   ....+++++|+.......    +.-.-+.++++|..+|.|..++
T Consensus        79 ~y~~~~~-~~w~~Ltg~~~~i~~l~~~~gv~~~~~~~~~~~~~~~Hs~~~~lid~~G~i~~~~  140 (142)
T cd02968          79 AYAKAFG-PGWIGLTGTPEEIEALAKAFGVYYEKVPEDDGDYLVDHSAAIYLVDPDGKLVRYY  140 (142)
T ss_pred             HHHHHHC-CCCEEEECCHHHHHHHHHHCCEEEEECCCCCCCCEEECCCEEEEECCCCCEEEEE
T ss_conf             9999736-5846998999999999997695899767888887887303899997998599994


No 36 
>cd02967 mauD Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for the biosynthesis of methylamine dehydrogenase (MADH), the enzyme that catalyzes the oxidation of methylamine and other primary amines. MADH possesses an alpha2beta2 subunit structure; the alpha subunit is also referred to as the large subunit. Each beta (small) subunit contains a tryptophan tryptophylquinone (TTQ) prosthetic group. Accessory proteins are essential for the proper transport of MADH to the periplasm, TTQ synthesis and the formation of several structural disulfide bonds. Bacterial mutants containing an insertion on the mauD gene were unable to grow on methylamine as a sole carbon source, were found to lack the MADH small subunit and had decreased amounts of the MADH large subunit.
Probab=98.07  E-value=1.6e-05  Score=49.73  Aligned_cols=109  Identities=16%  Similarity=0.143  Sum_probs=70.7

Q ss_pred             CCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCCCC
Q ss_conf             88403688-84023589838974999982288787410010104653112455310110234303540113665223587
Q gi|254780311|r   20 PDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKKLEI   98 (177)
Q Consensus        20 Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~~~~   98 (177)
                      |+|+|.+- ++.++++++..||.++| .+=+.+=|.|-.+ +|.....+....  ..-.++.++..+.-.+.++.+..+.
T Consensus         1 P~f~l~~ldG~~v~L~~~~~gk~vll-~FwatwCP~Ck~e-mP~l~~~~~~~~--~~~~vv~~sdg~~~~~~~f~~~~~l   76 (114)
T cd02967           1 PTFDLTTIDGAPVRIGGISPGRPTLL-FFLSPTCPVCKKL-LPVIRSIARAEA--DWLDVVLASDGEKAEHQRFLKKHGL   76 (114)
T ss_pred             CCCEEECCCCCEEEECCCCCCCEEEE-EEECCCCHHHHHH-HHHHHHHHHHHC--CCEEEEEEECCCHHHHHHHHHHCCC
T ss_conf             95374538998698055369984999-9978988678777-778999999717--8679999978997999999997598


Q ss_pred             CEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEE
Q ss_conf             5278610367154333200224765434410015999987-9969999
Q gi|254780311|r   99 KNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESW  145 (177)
Q Consensus        99 ~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~  145 (177)
                      ..++.+-|.  +...+|++.           .-=++++|| +|+|.+.
T Consensus        77 ~~~p~~~~~--e~~~ay~V~-----------~lP~~~liD~~G~I~~k  111 (114)
T cd02967          77 EAFPYVLSA--ELGMAYQVS-----------KLPYAVLLDEAGVIAAK  111 (114)
T ss_pred             CCCCEEECH--HHHHHCCCC-----------CEEEEEEECCCCEEEEC
T ss_conf             778798137--787544455-----------14359999899839955


No 37 
>TIGR00385 dsbE periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; InterPro: IPR004799 Periplasmic protein thiol:disulphide oxidoreductase is involved in the biogenesis of c-type cytochromes as well as in disulphide bond formation in some periplasmic proteins. This group defines the DsbE subfamily.; GO: 0015036 disulfide oxidoreductase activity, 0017004 cytochrome complex assembly, 0030288 outer membrane-bounded periplasmic space.
Probab=97.87  E-value=0.00013  Score=44.93  Aligned_cols=117  Identities=17%  Similarity=0.205  Sum_probs=90.1

Q ss_pred             ECCCCCCCCCCCCC--CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCC-HHHHH
Q ss_conf             36706884036888--4023589838974999982288787410010104653112455310110234303540-11366
Q gi|254780311|r   15 VATVLPDGSKAFQW--KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDA-FVMNA   91 (177)
Q Consensus        15 vGd~~Pd~tl~~~~--~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~-~~~~a   91 (177)
                      ||..+|.+.+....  ....+.|.|...+++|+=|=+.+=|+|-.||.-     ..++.+.|--.||.+.=-|. -..=.
T Consensus        37 igkpvP~~~~a~L~~~~q~~~~~~~~qG~~~LlNVWAsWCp~CraEHp~-----L~eLak~Grl~ivG~dYKD~~~~Al~  111 (175)
T TIGR00385        37 IGKPVPAFGLAALREPLQLYTADIFRQGKPVLLNVWASWCPPCRAEHPY-----LNELAKEGRLPIVGVDYKDQSQNALK  111 (175)
T ss_pred             CCCCCCCCHHHHCCCCCCCCCHHHHHCCCEEEEEEEECCCCCCHHCCHH-----HHHHHHCCCCEEEEEECCCCCHHHHH
T ss_conf             3889885112202467861364453089606998840368883100057-----89997539730788634788457888


Q ss_pred             HHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC-CCEEEEEEE
Q ss_conf             52235875278610367154333200224765434410015999987-996999997
Q gi|254780311|r   92 WGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK-DMVVESWFV  147 (177)
Q Consensus        92 w~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~-dG~I~~~~~  147 (177)
                      |-+.+|+.....+.|++|++.-.||+.--.+           +|||+ ||+|.|-+.
T Consensus       112 ~LkelGNPy~~~~~D~~G~~glDlGV~GaPE-----------Tflvdg~G~I~YRha  157 (175)
T TIGR00385       112 FLKELGNPYQLILADPKGKLGLDLGVYGAPE-----------TFLVDGNGVILYRHA  157 (175)
T ss_pred             HHHHCCCCEEEEEECCCCCEEEECCCCCCCC-----------CEEECCCCEEEEEEC
T ss_conf             8764489066888789984653226688985-----------478679865877743


No 38 
>pfam02630 SCO1-SenC SCO1/SenC. This family is involved in biogenesis of respiratory and photosynthetic systems. SCO1 is required for a post-translational step in the accumulation of subunits COXI and COXII of cytochrome c oxidase. SenC is required for optimal cytochrome c oxidase activity and maximal induction of genes encoding the light-harvesting and reaction centre complexes of R. capsulatus.
Probab=97.71  E-value=0.00026  Score=43.24  Aligned_cols=125  Identities=14%  Similarity=0.108  Sum_probs=77.0

Q ss_pred             CCCCCCCCCCC-EEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCC-CEEEEEECC----CCHHHHHHH
Q ss_conf             88403688840-235898389749999822887874100101046531124553101-102343035----401136652
Q gi|254780311|r   20 PDGSKAFQWKD-VNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGI-EEVYCLSVN----DAFVMNAWG   93 (177)
Q Consensus        20 Pd~tl~~~~~~-~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~-~~i~~~s~~----d~~~~~aw~   93 (177)
                      =+|+|.+++++ +++.+ ++||++|++|.--.=..+|... +.-.....+.+...+. ..++++|+|    .|-+++++.
T Consensus        18 g~F~L~dq~G~~~t~~~-l~Gk~~lv~FgfT~CpdiCP~~-~~~l~~~~~~l~~~~~~v~~v~iTvDPerDTpe~L~~Y~   95 (159)
T pfam02630        18 GPFTLIDQNGKNFTSEN-LKGKLSLIYFGFTNCPDICPPA-LDRLTDIIKKLKAENIDVQPVFISVDPERDTPKVLKEYL   95 (159)
T ss_pred             CCEEEEECCCCEECHHH-HCCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHHHCCCCEEEEEEEECCCCCCHHHHHHHH
T ss_conf             98289828999976799-5998899999888999645899-999999999853047755999999624889999999999


Q ss_pred             CCCCCC--EEEEEECCCHHHHHHHHCCCCCC----CCC--CCEEEEEEEEEECCCEEEEEE
Q ss_conf             235875--27861036715433320022476----543--441001599998799699999
Q gi|254780311|r   94 KKLEIK--NVKLLPDGSGEFTRKMGMLVYKD----NVG--FGLRSWRYGALIKDMVVESWF  146 (177)
Q Consensus        94 ~~~~~~--~~~~l~D~~~~~~~~~g~~~~~~----~~g--~g~rs~R~a~Ii~dG~I~~~~  146 (177)
                      +..+..  .+........++++++++.....    ..+  .-.-|.++++|..+|.|+.+|
T Consensus        96 ~~f~~~~~~ltg~~~~i~~l~~~~~v~~~~~~~~~~~~~y~v~Hs~~~~LiD~~G~i~~~y  156 (159)
T pfam02630        96 KNFHPSFIGLTGTTDEIKSVAKKFKVFYSKVIVDKPEQDYLVDHSSFFYLIDPDGKILKHY  156 (159)
T ss_pred             HHCCCCCCEEECCHHHHHHHHHHHCCEEEECCCCCCCCCCEEECCCEEEEECCCCCEEEEC
T ss_conf             9729985534899999999999718608964656899885475577799996999897451


No 39 
>cd03009 TryX_like_TryX_NRX Tryparedoxin (TryX)-like family, TryX and nucleoredoxin (NRX) subfamily; TryX and NRX are thioredoxin (TRX)-like protein disulfide oxidoreductases that alter the redox state of target proteins via the reversible oxidation of an active center CXXC motif. TryX is involved in the regulation of oxidative stress in parasitic trypanosomatids by reducing TryX peroxidase, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. TryX derives reducing equivalents from reduced trypanothione, a polyamine peptide conjugate unique to trypanosomatids, which is regenerated by the NADPH-dependent flavoprotein trypanothione reductase. Vertebrate NRX is a 400-amino acid nuclear protein with one redox active TRX domain containing a CPPC active site motif followed by one redox inactive TRX-like domain. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. Plant NRX, longer than the 
Probab=97.62  E-value=0.00038  Score=42.38  Aligned_cols=111  Identities=19%  Similarity=0.225  Sum_probs=64.5

Q ss_pred             CCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCC-EEEEEECCCCH-HHHHHHCCCCC
Q ss_conf             84036888402358983897499998228878741001010465311245531011-02343035401-13665223587
Q gi|254780311|r   21 DGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIE-EVYCLSVNDAF-VMNAWGKKLEI   98 (177)
Q Consensus        21 d~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~-~i~~~s~~d~~-~~~aw~~~~~~   98 (177)
                      ||.+.++++.++++|+ +||.|+| -+=+-+-|.|-.+ +|...+.++.++..+.+ +|+.++.++.. ....+......
T Consensus         1 ~f~l~~dG~~v~Lsd~-kGK~vll-~FWATWC~PC~~e-~P~L~~ly~~~~~~~~~~~vi~Is~d~~~~~~~~~~~~~~~   77 (131)
T cd03009           1 DFLLRNDGGKVPVSSL-EGKTVGL-YFSASWCPPCRAF-TPKLVEFYEKLKESGKNFEIVFISWDRDEESFNDYFSKMPW   77 (131)
T ss_pred             CEEECCCCCEEEHHHC-CCCEEEE-EEECCCCHHHHHH-HHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHCCC
T ss_conf             9038899979889994-7988999-9987578666526-58999999998613887799998558777999999985761


Q ss_pred             CEEEEEECC-CHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEE
Q ss_conf             527861036-715433320022476543441001599998-79969999
Q gi|254780311|r   99 KNVKLLPDG-SGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESW  145 (177)
Q Consensus        99 ~~~~~l~D~-~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~  145 (177)
                      ..+++..+. .....+.+++           ++-=+++|| .+|+|..-
T Consensus        78 ~~~p~~~~~~~~~l~~~y~v-----------~giPt~~lId~~G~IV~~  115 (131)
T cd03009          78 LAVPFSDRERRSRLNRTFKI-----------EGIPTLIILDADGEVVTT  115 (131)
T ss_pred             EEEECCCCCHHHHHHHHCCC-----------CCCCEEEEECCCCCEEHH
T ss_conf             10112551067899997698-----------877848999999979817


No 40 
>cd02964 TryX_like_family Tryparedoxin (TryX)-like family; composed of TryX and related proteins including nucleoredoxin (NRX), rod-derived cone viability factor (RdCVF) and the nematode homolog described as a 16-kD class of TRX. Most members of this family, except RdCVF, are protein disulfide oxidoreductases containing an active site CXXC motif, similar to TRX.
Probab=97.05  E-value=0.0047  Score=36.48  Aligned_cols=106  Identities=18%  Similarity=0.216  Sum_probs=57.2

Q ss_pred             CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCC-CEEEEEECCCCHH-HHHHHCCCCCCEEEE
Q ss_conf             88840235898389749999822887874100101046531124553101-1023430354011-366522358752786
Q gi|254780311|r   26 FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGI-EEVYCLSVNDAFV-MNAWGKKLEIKNVKL  103 (177)
Q Consensus        26 ~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~-~~i~~~s~~d~~~-~~aw~~~~~~~~~~~  103 (177)
                      +..+.++++| |+||.|+|.| =+.+-|.|-.+ +|...+.++.++..+. -+++.++.++... ..++.+.+. ..+.+
T Consensus         5 ~~~~~v~ls~-lkGK~vll~F-WAsWC~pCr~e-~P~L~~ly~~~~~~~~~~~vi~is~D~~~~~~~~~~~~~~-~~~~l   80 (132)
T cd02964           5 DGEGVVPVSA-LEGKTVGLYF-SASWCPPCRAF-TPKLVEFYEKLKEEGKNFEIVFVSRDRSEESFNEYFSEMP-PWLAV   80 (132)
T ss_pred             CCCCEEEHHH-HCCCEEEEEE-ECCCCHHHHHH-CHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHCC-CCEEE
T ss_conf             6998988999-0898899999-84568204310-5899999999874188689999767899999999999649-85034


Q ss_pred             E-ECC--CHHHHHHHHCCCCCCCCCCCEEEEEEEEEE-CCCEEEEEE
Q ss_conf             1-036--715433320022476543441001599998-799699999
Q gi|254780311|r  104 L-PDG--SGEFTRKMGMLVYKDNVGFGLRSWRYGALI-KDMVVESWF  146 (177)
Q Consensus       104 l-~D~--~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii-~dG~I~~~~  146 (177)
                      . .|.  ...+++.+++.      |+     =+++|| .+|+|..-.
T Consensus        81 p~~~~~~~~~l~~~y~V~------gi-----Pt~~lid~~Gkiv~~~  116 (132)
T cd02964          81 PFEDEELRELLEKQFKVE------GI-----PTLVVLKPDGDVVTTN  116 (132)
T ss_pred             ECCCHHHHHHHHHHCCCC------CC-----CEEEEECCCCCEECHH
T ss_conf             136778889999973888------89-----8789998999897032


No 41 
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD; InterPro: IPR013478    MauD appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulphide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulphide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded .; GO: 0030416 methylamine metabolic process.
Probab=96.97  E-value=0.004  Score=36.87  Aligned_cols=132  Identities=20%  Similarity=0.193  Sum_probs=86.2

Q ss_pred             ECCCCCCCCCCCCC-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHH
Q ss_conf             36706884036888-40235898389749999822887874100101046531124553101102343035401136652
Q gi|254780311|r   15 VATVLPDGSKAFQW-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWG   93 (177)
Q Consensus        15 vGd~~Pd~tl~~~~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~   93 (177)
                      |||.+|.|++++-+ ..|..----..++--|.-+-+.--|+|.+ .+|-...-...   ... .|+.+|.=.+--++++-
T Consensus        48 vG~~aP~F~l~~f~G~~V~iG~~~a~~R~~LLMFTaPsCPvC~K-L~PiIkSia~~---E~~-~Vv~ISDG~~~EHr~FL  122 (189)
T TIGR02661        48 VGDAAPIFNLPDFDGEPVRIGGSIALGRPTLLMFTAPSCPVCDK-LLPIIKSIARA---EEI-DVVLISDGTPEEHRRFL  122 (189)
T ss_pred             CCCCCCEECCCCCCCCEEEECCCCCCCCCEEEEECCCCCCHHHH-HHHHHHHHHHH---HCC-CEEEEECCCCHHHHHHH
T ss_conf             45558710576667864561175567775035443888853224-32789888867---253-25897279927999886


Q ss_pred             CCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf             23587527861036715433320022476543441001599998799699999748877787777732489999999998
Q gi|254780311|r   94 KKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEEGFSDNCATDPYEISSPENVLKVIR  173 (177)
Q Consensus        94 ~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~~~~~~~d~~~vs~ae~iL~~Lk  173 (177)
                      +++...+..+.-      +...|+.+...+.-+|      +++..+|+|.-.-    -.|++       -|.|+.|+..|
T Consensus       123 ~~H~L~~~~YVV------SAE~GM~fQV~KiPYG------VLLD~~G~I~AKG----L~NTR-------EHlESLlEa~r  179 (189)
T TIGR02661       123 KDHELGEERYVV------SAEIGMAFQVGKIPYG------VLLDQDGVIRAKG----LTNTR-------EHLESLLEADR  179 (189)
T ss_pred             HCCCCCCEEEEE------EECCCCCCCCCCCCCE------EEECCCCEEEECC----CCCHH-------HHHHHHHHHCC
T ss_conf             428888713788------6202210011225622------5667997477426----76438-------88999886200


Q ss_pred             H
Q ss_conf             6
Q gi|254780311|r  174 E  174 (177)
Q Consensus       174 ~  174 (177)
                      +
T Consensus       180 ~  180 (189)
T TIGR02661       180 E  180 (189)
T ss_pred             C
T ss_conf             3


No 42 
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=96.94  E-value=0.015  Score=33.83  Aligned_cols=141  Identities=16%  Similarity=0.128  Sum_probs=80.4

Q ss_pred             CCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHH-HHCCCE-EEEEECC----CCHHHHHHHC
Q ss_conf             840368884023589838974999982288787410010104653112455-310110-2343035----4011366522
Q gi|254780311|r   21 DGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLR-CEGIEE-VYCLSVN----DAFVMNAWGK   94 (177)
Q Consensus        21 d~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~-~~~~~~-i~~~s~~----d~~~~~aw~~   94 (177)
                      +|+|-+++++....+.++||.++++|-=--=.-+|... +.......+.+. ..+.+. ++.+++|    .|-+++++..
T Consensus        49 ~f~l~d~~G~~~~~~~l~Gk~~lv~FgyT~CpdVCP~~-l~~l~~~~~~l~~~~~~~v~vv~itvDPerDtp~~lk~Y~~  127 (207)
T COG1999          49 DFELTDQDGKPFTLKDLKGKPSLVFFGYTHCPDVCPTT-LAELKALLKKLGEGEGDDVQVVFITVDPERDTPEVLKKYAE  127 (207)
T ss_pred             CEEEECCCCCEEECCCCCCCEEEEEEECCCCCCCCHHH-HHHHHHHHHHHCCCCCCCEEEEEEEECCCCCCHHHHHHHHC
T ss_conf             65788689988612356798899997556789747579-99999999973643478489999987999998999999732


Q ss_pred             -CCCC--CEEEEEECCCHHHHHHHHCCC---CCCCCCCCEEEE-EEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHH
Q ss_conf             -3587--527861036715433320022---476543441001-5999987-9969999974887778777773248999
Q gi|254780311|r   95 -KLEI--KNVKLLPDGSGEFTRKMGMLV---YKDNVGFGLRSW-RYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPE  166 (177)
Q Consensus        95 -~~~~--~~~~~l~D~~~~~~~~~g~~~---~~~~~g~g~rs~-R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae  166 (177)
                       .-..  ..+.-..+...+..+++++..   ...+..-....+ -.+++++ +|.+...+.-.             ..++
T Consensus       128 ~~~~~~~~~ltg~~~~~~~~~k~~~V~~~~v~~~~~~~y~~~Hs~~~~lid~~G~~~~~~~~~-------------~~~~  194 (207)
T COG1999         128 LNFDPRWIGLTGTPEQIEEVAKAYGVFYSKVPLDDSQNYTIDHSAGFYLIDADGRFLGTYDYG-------------EPPE  194 (207)
T ss_pred             CCCCCCEEEEECCHHHHHHHHHHHCEEEEEECCCCCCCCEEECCEEEEEECCCCEEEEEECCC-------------CCHH
T ss_conf             168888626508988999999961614565124777762241440699988998299984589-------------9869


Q ss_pred             HHHHHHHHH
Q ss_conf             999999861
Q gi|254780311|r  167 NVLKVIRES  175 (177)
Q Consensus       167 ~iL~~Lk~~  175 (177)
                      .+++.|+..
T Consensus       195 ~i~~~l~~l  203 (207)
T COG1999         195 EIAADLKKL  203 (207)
T ss_pred             HHHHHHHHH
T ss_conf             999999998


No 43 
>pfam05988 DUF899 Bacterial protein of unknown function (DUF899). This family consists of several uncharacterized bacterial proteins of unknown function.
Probab=95.39  E-value=0.2  Score=27.78  Aligned_cols=119  Identities=15%  Similarity=0.155  Sum_probs=72.3

Q ss_pred             CCCCCCCCCCEEHHHHHCCCEEEEEE----ECCCCCCCCCHHHCHHHHHHH----HHHHHHCCCEEEEEECCCCHHH-HH
Q ss_conf             84036888402358983897499998----228878741001010465311----2455310110234303540113-66
Q gi|254780311|r   21 DGSKAFQWKDVNTQDLFAGKRVFLFA----LPGAFTPTCSDHQLPGFEKIY----DDLRCEGIEEVYCLSVNDAFVM-NA   91 (177)
Q Consensus        21 d~tl~~~~~~~~~~d~f~gKkVvL~~----~P~AfTp~Ct~~~~~~~~~~~----~~~~~~~~~~i~~~s~~d~~~~-~a   91 (177)
                      +..+-...++++++|+|.|+.-+|+-    -|+. .-+|..  |.+...+.    .-+...  |.-+.+++..|... .+
T Consensus        48 ~Y~F~gp~G~v~L~dLF~GR~qLivYhfMf~P~~-~~~C~g--CS~~~D~~~g~l~hL~~r--d~t~a~vsraP~~~l~~  122 (211)
T pfam05988        48 DYRFDGPDGPVTLADLFGGRSQLIVYHFMFGPGW-EAGCPG--CSFLADHFDGALAHLAAR--DVALAAVSRAPLAELVA  122 (211)
T ss_pred             CEEEECCCCCEEHHHHHCCCCEEEEEEEECCCCC-CCCCCC--CHHHHHCCCCHHHHHHHC--CCEEEEEECCCHHHHHH
T ss_conf             7587689985328998099742899997027898-899997--222452756137788727--83699993798999999


Q ss_pred             HHCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEECC
Q ss_conf             5223587527861036715433320022476543441001599998799699999748
Q gi|254780311|r   92 WGKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIKDMVVESWFVEE  149 (177)
Q Consensus        92 w~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~dG~I~~~~~E~  149 (177)
                      +++.+|=. ++..|.....|...++......+..-|.    .+|+-++|.|-+-|--.
T Consensus       123 ~k~rmGW~-~pw~Ss~~s~Fn~D~~v~~~~~~e~pg~----svF~rd~g~Vfhtyst~  175 (211)
T pfam05988       123 YKRRMGWT-FPWYSSVGSDFNRDFGVSFTEEGERPGL----SVFLRDGGRVFHTYSTY  175 (211)
T ss_pred             HHHHCCCC-CEEEECCCCCCCCCCCCCCCCCCCCCCE----EEEEECCCEEEEEECCC
T ss_conf             99975997-1478658976653147521787877615----89997699899965258


No 44 
>PTZ00256 glutathione peroxidase; Provisional
Probab=93.98  E-value=0.46  Score=25.80  Aligned_cols=142  Identities=12%  Similarity=0.195  Sum_probs=71.9

Q ss_pred             CCCCCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCH--------
Q ss_conf             70688403688-840235898389749999822887874100101046531124553101102343035401--------
Q gi|254780311|r   17 TVLPDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAF--------   87 (177)
Q Consensus        17 d~~Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~--------   87 (177)
                      ..+=||++.+- ++.++++++ +||+|+|+ +--|.-=+-|.+|.....+.++.++..|. +|+..-.|+.-        
T Consensus        18 ks~ydf~~~~i~G~~~~L~~y-~Gk~vliv-VNvAS~CG~T~q~Y~~L~~L~~~y~~~Gl-~IL~FPcNqF~~QEpg~~~   94 (183)
T PTZ00256         18 KSFFDFELNDIDGQKTQLSKF-QGKKAYIC-VNVACSCGLTSSNYSELVELYKQYSAQGL-EILGFPCNQFMNQESKPEP   94 (183)
T ss_pred             CCEEEEEEECCCCCEEEHHHC-CCCEEEEE-EEECCCCCCCCCCHHHHHHHHHHHHHCCC-EEEEEECCCCCCCCCCCHH
T ss_conf             655621644599899528995-99879999-98156778983618999999999850898-8998666442556999889


Q ss_pred             HHHHHHCCCCCCEEEEEE--CCCHHHHHH-HHCCCCCC------CCCCCEEEEEE-EEEE-CCCEEEEEEECCCCCCCCC
Q ss_conf             136652235875278610--367154333-20022476------54344100159-9998-7996999997488777877
Q gi|254780311|r   88 VMNAWGKKLEIKNVKLLP--DGSGEFTRK-MGMLVYKD------NVGFGLRSWRY-GALI-KDMVVESWFVEEGFSDNCA  156 (177)
Q Consensus        88 ~~~aw~~~~~~~~~~~l~--D~~~~~~~~-~g~~~~~~------~~g~g~rs~R~-a~Ii-~dG~I~~~~~E~~~~~~~~  156 (177)
                      -...+........+++..  +-+|.-+.- |..+....      ....+...|-| =++| .||.+.+.|--        
T Consensus        95 eI~~f~~~~ygv~Fp~f~Ki~VnG~~~hPly~~LK~~~~~~~~~~~~~~~I~WNF~KFLId~~G~vv~rf~p--------  166 (183)
T PTZ00256         95 EIKEFVIQKYGVSFPLFQKIEVNGQNTHEIYRYLRLNSELLKVNKNEAKEVPWNFGKFLLDSQGNVVNFYCP--------  166 (183)
T ss_pred             HHHHHHHHCCCCCEEEEEEEECCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEECCCCCEEEEECC--------
T ss_conf             999999857898536667673579987868999985365555675679977866577999999829989798--------


Q ss_pred             CCCCCCCCHHHHHHHHHH
Q ss_conf             777324899999999986
Q gi|254780311|r  157 TDPYEISSPENVLKVIRE  174 (177)
Q Consensus       157 ~d~~~vs~ae~iL~~Lk~  174 (177)
                           .++++++.+.|++
T Consensus       167 -----~t~P~~l~~~Ie~  179 (183)
T PTZ00256        167 -----DQKPNEMMQDIEK  179 (183)
T ss_pred             -----CCCHHHHHHHHHH
T ss_conf             -----9999999999999


No 45 
>KOG2792 consensus
Probab=93.57  E-value=0.21  Score=27.56  Aligned_cols=145  Identities=14%  Similarity=0.143  Sum_probs=65.2

Q ss_pred             CCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHH-HHHCCCEE-EEEECCC----CHHHHHHHC
Q ss_conf             84036888402358983897499998228878741001010465311245-53101102-3430354----011366522
Q gi|254780311|r   21 DGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDL-RCEGIEEV-YCLSVND----AFVMNAWGK   94 (177)
Q Consensus        21 d~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~-~~~~~~~i-~~~s~~d----~~~~~aw~~   94 (177)
                      .|+|.+..++..+...|.|||++|||==-----+|..|. .--....+.+ ...++..+ +.|++|.    +.+++..-+
T Consensus       121 pF~L~d~~Gk~~te~df~Gkw~LiYFGFThCPDICPdEL-eKm~~~Vd~i~~~~~~~~~PlFIsvDPeRD~~~~~~eY~~  199 (280)
T KOG2792         121 PFSLVDHDGKRVTEKDFLGKWSLIYFGFTHCPDICPDEL-EKMSAVVDEIEAKPGLPPVPLFISVDPERDSVEVVAEYVS  199 (280)
T ss_pred             CEEEEECCCCEECCCCCCCCEEEEEECCCCCCCCCHHHH-HHHHHHHHHHHCCCCCCCCCEEEEECCCCCCHHHHHHHHH
T ss_conf             647772589761030234516999952568997696999-9999999998525899862259984766487999999998


Q ss_pred             CCCC--CEEEEEECCCHHHHHHHHCCCCCCC-----CCCCEEEEEEEEEEC-CCEEEEEEECCCCCCCCCCCCCCCCCHH
Q ss_conf             3587--5278610367154333200224765-----434410015999987-9969999974887778777773248999
Q gi|254780311|r   95 KLEI--KNVKLLPDGSGEFTRKMGMLVYKDN-----VGFGLRSWRYGALIK-DMVVESWFVEEGFSDNCATDPYEISSPE  166 (177)
Q Consensus        95 ~~~~--~~~~~l~D~~~~~~~~~g~~~~~~~-----~g~g~rs~R~a~Ii~-dG~I~~~~~E~~~~~~~~~d~~~vs~ae  166 (177)
                      ....  .++.=-.+.....+++|-+-+....     ..+=.-| -+.++++ +|....++     +.|.+.+    +-++
T Consensus       200 eF~pkllGLTGT~eqvk~vak~yRVYfs~gp~d~~~DYlVDHS-i~mYLidPeg~Fvd~~-----GrN~~~~----~~~~  269 (280)
T KOG2792         200 EFHPKLLGLTGTTEQVKQVAKKYRVYFSTGPKDEDQDYLVDHS-IFMYLIDPEGEFVDYY-----GRNYDAD----ELAD  269 (280)
T ss_pred             HCCHHHHCCCCCHHHHHHHHHHHEEEECCCCCCCCCCEEEEEE-EEEEEECCCCCEEHHH-----CCCCCHH----HHHH
T ss_conf             5086650566889999999988078614689877888565415-8999988986300653-----4668888----9999


Q ss_pred             HHHHHHHHHC
Q ss_conf             9999998616
Q gi|254780311|r  167 NVLKVIRESK  176 (177)
Q Consensus       167 ~iL~~Lk~~~  176 (177)
                      .|++++++.+
T Consensus       270 ~I~~~v~~y~  279 (280)
T KOG2792         270 SILKHVASYR  279 (280)
T ss_pred             HHHHHHHHCC
T ss_conf             9999988316


No 46 
>pfam09695 YtfJ_HI0045 Bacterial protein of unknown function (YtfJ_HI0045). These are sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ.
Probab=87.10  E-value=2.3  Score=21.98  Aligned_cols=145  Identities=15%  Similarity=0.193  Sum_probs=73.9

Q ss_pred             CCCEEEE--EEECCCCCCCCCCCC------C-----CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHH-HH
Q ss_conf             8815999--953670688403688------8-----40235898389749999822887874100101046531124-55
Q gi|254780311|r    6 IPQVVFH--MRVATVLPDGSKAFQ------W-----KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDD-LR   71 (177)
Q Consensus         6 ip~~~~~--ikvGd~~Pd~tl~~~------~-----~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~-~~   71 (177)
                      +|...|.  +++|+..|.-++.+.      .     +.=++.. +.| ||-++.|-++-++.-... -|..+....+ |.
T Consensus         6 ~p~~a~Ahn~~~g~~~P~V~v~d~GEl~l~~~~~~y~~W~S~~-L~G-KVrviq~iAGr~sakelN-~~l~~Aikaa~fp   82 (174)
T pfam09695         6 LPTLAFAHNLQLGQPVPPVTVADKGELVLNGDKFSYQPWSSAQ-LAG-KVRVIQHIAGRSSAKELN-APLIEAIKAAKFP   82 (174)
T ss_pred             CCHHHHHCCCCCCCCCCCEEECCCCEEEECCCCEEEEECCHHH-CCC-CEEEEEEECCCCCHHHHH-HHHHHHHHHHCCC
T ss_conf             3077764015358928955855785598738946221247021-588-689999833688667773-8999999970798


Q ss_pred             HHCCCEEEEEECCC------CHHHHHH-HCCCCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEE--CCCEE
Q ss_conf             31011023430354------0113665-223587527861036715433320022476543441001599998--79969
Q gi|254780311|r   72 CEGIEEVYCLSVND------AFVMNAW-GKKLEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALI--KDMVV  142 (177)
Q Consensus        72 ~~~~~~i~~~s~~d------~~~~~aw-~~~~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii--~dG~I  142 (177)
                      ..--..+-++-.+|      +|+...- ..+.....-.+.-|.+|...++|++.-+.           .++||  .+|+|
T Consensus        83 ~~~YqtttIIN~ddAiwgtg~fV~ss~e~~Kk~fP~S~~VlD~~G~v~~aW~L~~~s-----------SaIiVlDk~G~V  151 (174)
T pfam09695        83 RDKYQTTTIINLDDAIWGTGSFVKSSAEDSKKEFPWSQFVLDSNGVVQKAWDLQEES-----------SAIIVLDKQGKV  151 (174)
T ss_pred             HHHCCEEEEEECCCCEECCHHHHHHHHHHCCCCCCCCEEEEECCCCHHHCCCCCCCC-----------CEEEEECCCCCE
T ss_conf             100420789836765322448875567651331887269991787153402689778-----------659999588878


Q ss_pred             EEEEECCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             99997488777877777324899999999986
Q gi|254780311|r  143 ESWFVEEGFSDNCATDPYEISSPENVLKVIRE  174 (177)
Q Consensus       143 ~~~~~E~~~~~~~~~d~~~vs~ae~iL~~Lk~  174 (177)
                      .+..  +        |..+-...+.++..|++
T Consensus       152 ~f~k--d--------G~Lt~~ev~~vi~li~~  173 (174)
T pfam09695       152 LFVK--E--------GALTPAEIQQVIGLIKK  173 (174)
T ss_pred             EEEE--C--------CCCCHHHHHHHHHHHHH
T ss_conf             9987--6--------88999999999999862


No 47 
>KOG4498 consensus
Probab=84.80  E-value=3.1  Score=21.32  Aligned_cols=137  Identities=11%  Similarity=0.068  Sum_probs=82.6

Q ss_pred             CCCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCCCCCEEEEEE
Q ss_conf             88840235898389749999822887874100101046531124553101102343035401136652235875278610
Q gi|254780311|r   26 FQWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAWGKKLEIKNVKLLP  105 (177)
Q Consensus        26 ~~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw~~~~~~~~~~~l~  105 (177)
                      .....+...++|+....++.|+---=--.|-.+ -..+-.+.+.+++.|+..|.+... ...-....+++.+... ....
T Consensus        37 ~rg~~vp~~~L~~~~~avV~~vRrpgCvlCR~~-aadLa~l~~~ld~~Gv~Li~vg~g-~~~~~~~f~~q~~f~g-evyl  113 (197)
T KOG4498          37 SRGESVPVTSLFKERSAVVAFVRRPGCVLCREE-AADLASLKDLLDELGVVLIAVGPG-SHVQFEDFWDQTYFSG-EVYL  113 (197)
T ss_pred             HCCCEEEHHHHHHCCCEEEEEECCCCEEEEHHH-HHHHHHHHHHHHHHCCEEEEEECC-CEEECCHHHCCCCCCE-EEEE
T ss_conf             057542368866407718998525768772788-887887888998739779998044-1021020111467632-4898


Q ss_pred             CCCHHHHHHHHCCCCC-CCC--------------CCC------EEEEEEEEEECC-CEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf             3671543332002247-654--------------344------100159999879-969999974887778777773248
Q gi|254780311|r  106 DGSGEFTRKMGMLVYK-DNV--------------GFG------LRSWRYGALIKD-MVVESWFVEEGFSDNCATDPYEIS  163 (177)
Q Consensus       106 D~~~~~~~~~g~~~~~-~~~--------------g~g------~rs~R~a~Ii~d-G~I~~~~~E~~~~~~~~~d~~~vs  163 (177)
                      |++..+++.+++.... ...              |++      .+..+-.++|.. +.|-.+++|+..+|+.        
T Consensus       114 D~~~~~Y~~le~k~~~~g~l~~g~~~~~~Ka~~~gv~gn~~gd~~~~gG~~~V~~G~~il~~h~dk~~gD~~--------  185 (197)
T KOG4498         114 DPHRGFYKPLEFKRAEMGFLRPGTDAAAVKAKAVGVEGNLEGDGLLSGGVLVVGRGKKILFIHVDKETGDHV--------  185 (197)
T ss_pred             CCCCCEECHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCHHHHCCEEEEECCCEEEEEEECCCCCCCC--------
T ss_conf             576550203454301233335553788888864355777554757748839995598079998137878776--------


Q ss_pred             CHHHHHHHHH
Q ss_conf             9999999998
Q gi|254780311|r  164 SPENVLKVIR  173 (177)
Q Consensus       164 ~ae~iL~~Lk  173 (177)
                      +.++||+.+.
T Consensus       186 ~i~~Vl~v~~  195 (197)
T KOG4498         186 PIDSVLQVVG  195 (197)
T ss_pred             CHHHHHHHHH
T ss_conf             8999999861


No 48 
>cd00340 GSH_Peroxidase Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per subunit, which is involved in catalysis. Different isoenzymes are known in mammals,which are involved in protection against reactive oxygen species, redox regulation of many metabolic processes, peroxinitrite scavenging, and modulation of inflammatory processes.
Probab=75.14  E-value=6.7  Score=19.51  Aligned_cols=123  Identities=18%  Similarity=0.162  Sum_probs=62.5

Q ss_pred             CCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCH--------HHH
Q ss_conf             88403688-840235898389749999822887874100101046531124553101102343035401--------136
Q gi|254780311|r   20 PDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAF--------VMN   90 (177)
Q Consensus        20 Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~--------~~~   90 (177)
                      -||++.+- .+.++++++ +||-|+++-+  |.--+. +.|.....+.++.++.+|. .|+..-.|+.-        ...
T Consensus         3 yd~~~~~idG~~~~l~~y-~GkvvLiVNv--AS~Cg~-t~qy~~L~~L~~ky~~~gl-~Il~fPcnqFg~QEp~~~~eI~   77 (152)
T cd00340           3 YDFSVKDIDGEPVSLSKY-KGKVLLIVNV--ASKCGF-TPQYEGLEALYEKYKDRGL-VVLGFPCNQFGGQEPGSNEEIK   77 (152)
T ss_pred             CCEEEECCCCCEECHHHC-CCCEEEEEEC--CCCCCC-CCCHHHHHHHHHHHCCCCE-EEEEEEHHHHHCCCCCCHHHHH
T ss_conf             113766799899458993-9978999966--778888-7248899999998412884-9996366886134999789999


Q ss_pred             HHHCCCCCCEEEEEE--CCCHHHHH-HHHCCCCCCCCCC-CEEEEEE-EEEE-CCCEEEEEEE
Q ss_conf             652235875278610--36715433-3200224765434-4100159-9998-7996999997
Q gi|254780311|r   91 AWGKKLEIKNVKLLP--DGSGEFTR-KMGMLVYKDNVGF-GLRSWRY-GALI-KDMVVESWFV  147 (177)
Q Consensus        91 aw~~~~~~~~~~~l~--D~~~~~~~-~~g~~~~~~~~g~-g~rs~R~-a~Ii-~dG~I~~~~~  147 (177)
                      .+.+......+++..  +-+|.-+. .+..+........ +.-.|-| =++| .+|.+.+-|-
T Consensus        78 ~f~~~~y~v~Fpv~~K~~VnG~~~hply~~Lk~~~~~~~~~~i~WNF~KfLid~~G~vv~rf~  140 (152)
T cd00340          78 EFCETNYGVTFPMFAKIDVNGENAHPLYKYLKEEAPGLLGKDIKWNFTKFLVDRDGEVVKRFA  140 (152)
T ss_pred             HHHHHCCCCCCCEEEEEECCCCCCCHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCEEEEEC
T ss_conf             999970687622276650679876889999997579887898762138999989998998879


No 49 
>pfam00837 T4_deiodinase Iodothyronine deiodinase. Iodothyronine deiodinase converts thyroxine (T4) to 3,5,3'-triiodothyronine (T3).
Probab=49.08  E-value=22  Score=16.74  Aligned_cols=142  Identities=14%  Similarity=0.216  Sum_probs=67.0

Q ss_pred             EEECCCCCCCCCCCC-C-CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHH-----CCCEEEEEECCC
Q ss_conf             953670688403688-8-402358983897499998228878741001010465311245531-----011023430354
Q gi|254780311|r   13 MRVATVLPDGSKAFQ-W-KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCE-----GIEEVYCLSVND   85 (177)
Q Consensus        13 ikvGd~~Pd~tl~~~-~-~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~-----~~~~i~~~s~~d   85 (177)
                      .++|..|||-.+..- + ...++.|+.+|++=++.-+     .-||   ||.|....+.|+..     .+.....+=...
T Consensus        73 a~~G~~APns~vV~l~g~~~~~ildf~~g~RPLVlnF-----GScT---CPpFm~~l~~F~rlv~~f~dvADFl~VYIeE  144 (237)
T pfam00837        73 AHLGGLAPNSEVVRLSGQRGCHILDFAQGNRPLVLNF-----GSCT---UPPFMARLDAFQRLVEDFCSTADFLIIYIEE  144 (237)
T ss_pred             HHCCCCCCCCCEEEECCCCCEEHHHHHCCCCCEEEEC-----CCCC---CCHHHHHHHHHHHHHHHHHHHHHEEEEEEEC
T ss_conf             7457889999638545743000666605898758862-----6767---8558888999999999976033446665311


Q ss_pred             CHHHHHHHCCCCC---CEEEEEECCCHHHHHHHH-------CCCCC----CCCCCCEEEEEEEEEECCCEEEEEEECCCC
Q ss_conf             0113665223587---527861036715433320-------02247----654344100159999879969999974887
Q gi|254780311|r   86 AFVMNAWGKKLEI---KNVKLLPDGSGEFTRKMG-------MLVYK----DNVGFGLRSWRYGALIKDMVVESWFVEEGF  151 (177)
Q Consensus        86 ~~~~~aw~~~~~~---~~~~~l~D~~~~~~~~~g-------~~~~~----~~~g~g~rs~R~a~Ii~dG~I~~~~~E~~~  151 (177)
                      .+....|.-..+.   ...+-+.|-- +.++.+.       +..|.    .+.-+|.-.-| .+|+.+|+|.|.-     
T Consensus       145 AHpsDGW~~~~n~~~I~~Hr~ledRl-~AA~~l~~~~p~cpvvvDtMdN~an~aYgA~peR-LYIiq~gkV~Y~G-----  217 (237)
T pfam00837       145 AHPSDGWAFTDNSYNIPTHQTLQDRL-QAARLLLQRAPGCRVVADTMRNQSSQAYGAYFER-LYVIQEGKILYQG-----  217 (237)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCHHHHH-HHHHHHHHHCCCCCEEEECCCCHHHHHHCCCCCE-EEEEECCEEEECC-----
T ss_conf             36777610169843257767879999-9999999509999889861467667873667344-8999748799727-----


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             77877777324899999999986
Q gi|254780311|r  152 SDNCATDPYEISSPENVLKVIRE  174 (177)
Q Consensus       152 ~~~~~~d~~~vs~ae~iL~~Lk~  174 (177)
                          ..||..- ..+++-+.|++
T Consensus       218 ----g~GP~~Y-~~~Evr~wLek  235 (237)
T pfam00837       218 ----GRGPWGY-HPEEVRAWLEK  235 (237)
T ss_pred             ----CCCCCCC-CHHHHHHHHHH
T ss_conf             ----8898878-98999999997


No 50 
>pfam08747 DUF1788 Domain of unknown function (DUF1788). Putative uncharacterized domain in proteins of length around 200 amino acids.
Probab=39.69  E-value=24  Score=16.51  Aligned_cols=43  Identities=19%  Similarity=0.291  Sum_probs=25.7

Q ss_pred             CEEEEEEECCCCCCCCCCCCCCCEEHHHHHCCCEEEEEEECCCCCC
Q ss_conf             1599995367068840368884023589838974999982288787
Q gi|254780311|r    8 QVVFHMRVATVLPDGSKAFQWKDVNTQDLFAGKRVFLFALPGAFTP   53 (177)
Q Consensus         8 ~~~~~ikvGd~~Pd~tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp   53 (177)
                      ++.+-.-||...|=.-.-.-.+  .++..++.+++|+ ||||.++.
T Consensus        62 dvvfltGvG~vyP~iR~h~lLn--~L~~~~~~~P~v~-FyPG~y~g  104 (125)
T pfam08747        62 DIVFLTGVGEVYPLIRSHNLLN--NLHSVMGDVPLVM-FYPGEYDG  104 (125)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHHHHHCCCCEEE-ECCCCCCC
T ss_conf             4899937742150686899999--8888754881899-75874268


No 51 
>TIGR01626 ytfJ_HI0045 conserved hypothetical protein YtfJ-family, TIGR01626; InterPro: IPR006513   These are sequences from gamma proteobacteria that are related to the E. coli protein, YtfJ. .
Probab=39.26  E-value=32  Score=15.88  Aligned_cols=135  Identities=15%  Similarity=0.199  Sum_probs=73.9

Q ss_pred             EEECCCCCCC--------CCCC---CCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHH--------
Q ss_conf             9536706884--------0368---88402358983897499998228878741001010465311245531--------
Q gi|254780311|r   13 MRVATVLPDG--------SKAF---QWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCE--------   73 (177)
Q Consensus        13 ikvGd~~Pd~--------tl~~---~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~--------   73 (177)
                      ++|++.+|--        +|.+   .+++=.+.++.+.=||| --+-|=   +.+.|.=...++-.+.-+..        
T Consensus        23 L~v~q~vP~Vgv~~~GEivL~~~~~~yq~W~SA~LaGKVRV~-~hiAGR---tsaKE~Na~li~aIkaakfp~~~YQTTT   98 (184)
T TIGR01626        23 LEVEQSVPAVGVEERGEIVLSDDDISYQKWRSAELAGKVRVV-LHIAGR---TSAKEKNASLIEAIKAAKFPAEKYQTTT   98 (184)
T ss_pred             CCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHH-HHHHCC---CHHHHCCCCHHHHHHHHCCCCCCCCCCE
T ss_conf             124885897111354016752784001587415564157765-654155---1001137618999986337876775211


Q ss_pred             ---CCCEEEEEECCCCHHHHHHHCC-CCCCEEEEEECCCHHHHHHHHCCCCCCCCCCCEEEEEEEEEEC--CCEEEEEEE
Q ss_conf             ---0110234303540113665223-5875278610367154333200224765434410015999987--996999997
Q gi|254780311|r   74 ---GIEEVYCLSVNDAFVMNAWGKK-LEIKNVKLLPDGSGEFTRKMGMLVYKDNVGFGLRSWRYGALIK--DMVVESWFV  147 (177)
Q Consensus        74 ---~~~~i~~~s~~d~~~~~aw~~~-~~~~~~~~l~D~~~~~~~~~g~~~~~~~~g~g~rs~R~a~Ii~--dG~I~~~~~  147 (177)
                         ..|.|...   ..||...-.+. ..+..=.++-|..|....+|++--.           ..|+||-  +|+|.  |+
T Consensus        99 IiN~DDAI~Gt---gmFVkssa~~~Kke~PwSq~vlD~~g~v~nAWqL~~e-----------~SAiIVlDK~G~V~--fV  162 (184)
T TIGR01626        99 IINADDAIVGT---GMFVKSSAKKSKKEYPWSQVVLDEKGVVKNAWQLKEE-----------DSAIIVLDKDGKVK--FV  162 (184)
T ss_pred             EEECCCCEECC---CHHEECCHHCCCCCCCEEEEEECCHHHHHHHHCCCCC-----------CCEEEEECCCCCEE--EE
T ss_conf             45068850068---5010100210772378011788654688754214556-----------86588972777355--77


Q ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             4887778777773248999999999861
Q gi|254780311|r  148 EEGFSDNCATDPYEISSPENVLKVIRES  175 (177)
Q Consensus       148 E~~~~~~~~~d~~~vs~ae~iL~~Lk~~  175 (177)
                      .||        ..+-++..+|+..|++.
T Consensus       163 KeG--------aL~~~diQtV~~L~~~l  182 (184)
T TIGR01626       163 KEG--------ALSEADIQTVVDLVQKL  182 (184)
T ss_pred             ECC--------CCCHHHHHHHHHHHHHH
T ss_conf             557--------66813577899999763


No 52 
>pfam07830 PP2C_C Protein serine/threonine phosphatase 2C, C-terminal domain. Protein phosphatase 2C (PP2C) is involved in regulating cellular responses to stress in various eukaryotes. It consists of two domains: an N-terminal catalytic domain and a C-terminal domain characteristic of mammalian PP2Cs. This domain consists of three antiparallel alpha helices, one of which packs against two corresponding alpha-helices of the N-terminal domain. The C-terminal domain does not seem to play a role in catalysis, but it may provide protein substrate specificity due to the cleft that is created between it and the catalytic domain.
Probab=38.51  E-value=17  Score=17.32  Aligned_cols=35  Identities=26%  Similarity=0.428  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEE
Q ss_conf             99998228878741001010465311245531011023
Q gi|254780311|r   42 VFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVY   79 (177)
Q Consensus        42 VvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~   79 (177)
                      +||+.+|||  |.=+.+++.--.+....+.... .+++
T Consensus         2 iILv~fpgA--Pkv~~EAv~kE~eLd~~le~~v-~Eii   36 (81)
T pfam07830         2 IILICFPGA--PKVSEEAVKKEAELDKYLEQRV-EEII   36 (81)
T ss_pred             EEEEECCCC--CCCCHHHHHHHHHHHHHHHHHH-HHHH
T ss_conf             788855998--9999999999999999999999-9999


No 53 
>pfam01123 Stap_Strp_toxin Staphylococcal/Streptococcal toxin, OB-fold domain.
Probab=37.76  E-value=22  Score=16.75  Aligned_cols=33  Identities=18%  Similarity=0.315  Sum_probs=25.3

Q ss_pred             CCCCCCCCEEHHHHHCCCEEEEEEECCCCCCCC
Q ss_conf             036888402358983897499998228878741
Q gi|254780311|r   23 SKAFQWKDVNTQDLFAGKRVFLFALPGAFTPTC   55 (177)
Q Consensus        23 tl~~~~~~~~~~d~f~gKkVvL~~~P~AfTp~C   55 (177)
                      .+..+.....+++.|+||+|=||++|--++.-+
T Consensus        38 ~l~~ef~~~~~a~~fKgkkVDIfg~~Y~~~c~~   70 (86)
T pfam01123        38 DLKVEFDSKDLAKFFKGKKVDIFGLSYYYNCYG   70 (86)
T ss_pred             HHHHHHCCHHHHHHHCCCEEEEEECCCCCCCCC
T ss_conf             552012779888862797467974420330325


No 54 
>pfam05176 ATP-synt_10 ATP10 protein. ATP 10 is essential for the assembly of a functional mitochondrial ATPase complex.
Probab=37.71  E-value=34  Score=15.74  Aligned_cols=113  Identities=19%  Similarity=0.212  Sum_probs=51.1

Q ss_pred             CCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHH---HHHHHHHHC-CCEEEEEECCCCHHHHHHHCCC--CCCEEE
Q ss_conf             4023589838974999982288787410010104653---112455310-1102343035401136652235--875278
Q gi|254780311|r   29 KDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEK---IYDDLRCEG-IEEVYCLSVNDAFVMNAWGKKL--EIKNVK  102 (177)
Q Consensus        29 ~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~---~~~~~~~~~-~~~i~~~s~~d~~~~~aw~~~~--~~~~~~  102 (177)
                      ...++.+.+.||--|+--+-.++.-.|    +..|..   ..+.++... ..+++=+..-+.+. ++|--..  +...-.
T Consensus       114 ~~~~tt~~l~GKvSvV~lfSs~~gE~~----~~sf~~n~~l~~~l~~~~~~~Q~v~IN~~en~l-K~~lvklf~~~lr~~  188 (255)
T pfam05176       114 PPQNTTDLLRGKVSVVRLFSSAWGEKQ----ARSYFKNPFLKDYLKEDYGDAQIVEINVEENWL-KAWLVKLFMGNLRKK  188 (255)
T ss_pred             CCCCCCHHHCCCEEEEEEEHHHHHHHH----HHHHHCCCCHHHHHHCCCCCCEEEEEECCHHHH-HHHHHHHHHHHHHHH
T ss_conf             876640221696689998510778999----887615962889972578872399984507899-999999987666632


Q ss_pred             EEECCCHHHHHH-HHCCCC--CCCCCCCEEEEEEEEEEC-CCEEEEEE
Q ss_conf             610367154333-200224--765434410015999987-99699999
Q gi|254780311|r  103 LLPDGSGEFTRK-MGMLVY--KDNVGFGLRSWRYGALIK-DMVVESWF  146 (177)
Q Consensus       103 ~l~D~~~~~~~~-~g~~~~--~~~~g~g~rs~R~a~Ii~-dG~I~~~~  146 (177)
                      +...-....+-. .+...+  .+..|+.+..--|+++|| +|+|++.-
T Consensus       189 vP~~~~~~Yf~~~~~~~~~~iRe~lg~~N~~vGYvyLvD~~~rIRWag  236 (255)
T pfam05176       189 VPEERHERYFIVRKGQLPFDIRESLGILNSLVGYVYLVDHNCRIRWAG  236 (255)
T ss_pred             CCHHHCCEEEEEECCCCCHHHHHHHCCCCCCEEEEEEECCCCCEEEEC
T ss_conf             899773806998788788779987576431035899987987187410


No 55 
>PRK11316 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional
Probab=32.03  E-value=41  Score=15.25  Aligned_cols=18  Identities=22%  Similarity=0.630  Sum_probs=11.3

Q ss_pred             CCCCCCCCCH-HHHHHHHH
Q ss_conf             7777324899-99999998
Q gi|254780311|r  156 ATDPYEISSP-ENVLKVIR  173 (177)
Q Consensus       156 ~~d~~~vs~a-e~iL~~Lk  173 (177)
                      ...++++|.| |++++.|-
T Consensus       253 a~eV~DVTGAGDTfiAala  271 (473)
T PRK11316        253 AREVYDVTGAGDTVISVLA  271 (473)
T ss_pred             CCCCCCCCCCHHHHHHHHH
T ss_conf             8988888682299999999


No 56 
>cd04104 p47_IIGP_like p47 (47-kDa) family.  The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1.  They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens.  p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma).  ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis.  TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro.  IRG-47 is involved in resistance to T. gondii infection.  LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections.  IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues.  In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=30.61  E-value=44  Score=15.09  Aligned_cols=48  Identities=13%  Similarity=0.128  Sum_probs=29.7

Q ss_pred             CCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHH
Q ss_conf             974999982288787410010104653112455310110234303540113665
Q gi|254780311|r   39 GKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFVMNAW   92 (177)
Q Consensus        39 gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~~~aw   92 (177)
                      -..|+|+-+||+-|+.|..+   .|.+   ..+....|.++++++.-.-....|
T Consensus        51 ~pnv~lwDlPG~Gt~~f~~~---~Yl~---~~~~~~yD~fiiiss~rf~~nd~~   98 (197)
T cd04104          51 FPNVTLWDLPGIGSTAFPPD---DYLE---EMKFSEYDFFIIISSTRFSSNDVK   98 (197)
T ss_pred             CCCCEEECCCCCCCCCCCHH---HHHH---HCCCCCCCEEEEEECCCCCHHHHH
T ss_conf             99876972899998765989---9998---658554578999838864142699


No 57 
>PRK10606 btuE putative glutathione peroxidase; Provisional
Probab=28.90  E-value=48  Score=14.92  Aligned_cols=84  Identities=10%  Similarity=0.081  Sum_probs=45.6

Q ss_pred             CCCCCCCCCCC-CCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHH-------
Q ss_conf             70688403688-8402358983897499998228878741001010465311245531011023430354011-------
Q gi|254780311|r   17 TVLPDGSKAFQ-WKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFV-------   88 (177)
Q Consensus        17 d~~Pd~tl~~~-~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~-------   88 (177)
                      +.+=||++.+- ++.++++++ +||-|+++=+--  -=+.|. +.....+.++.++..|. +|+..-.|+..-       
T Consensus         3 ~siydf~~~~idG~~~~l~~y-~GKvvLIVNvAS--~CG~T~-qY~~L~~L~~~y~~~Gl-~ILgFPcNqF~~QEp~~~~   77 (183)
T PRK10606          3 DSILTTVVTTIDGEVTTLEKY-AGNVLLIVNVAS--KCGLTP-QYEQLENIQKAWADQGF-VVLGFPCNQFLGQEPGSDE   77 (183)
T ss_pred             CCEECEEEECCCCCEECHHHC-CCCEEEEEECCC--CCCCCH-HHHHHHHHHHHHHCCCE-EEEEEEHHHHHHCCCCCHH
T ss_conf             751220777689989348993-996899997775--578807-79999999998411883-8997420666651999889


Q ss_pred             -HHHHHCCCCCCEEEEEE
Q ss_conf             -36652235875278610
Q gi|254780311|r   89 -MNAWGKKLEIKNVKLLP  105 (177)
Q Consensus        89 -~~aw~~~~~~~~~~~l~  105 (177)
                       ...+++....-.+++.+
T Consensus        78 eI~~fc~~~ygv~Fp~f~   95 (183)
T PRK10606         78 EIKTYCRTTWGVTFPMFS   95 (183)
T ss_pred             HHHHHHHHCCCCCCEEEE
T ss_conf             999999867998510167


No 58 
>pfam08468 MTS_N Methyltransferase small domain N-terminal. This domain is found to the N-terminus of the methyltransferase small domain (pfam05175) in bacterial proteins.
Probab=28.45  E-value=37  Score=15.50  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=18.3

Q ss_pred             EEHHHHHCCCEEEEEEECCCCCC
Q ss_conf             23589838974999982288787
Q gi|254780311|r   31 VNTQDLFAGKRVFLFALPGAFTP   53 (177)
Q Consensus        31 ~~~~d~f~gKkVvL~~~P~AfTp   53 (177)
                      .+-.++|.||.|++.+.|.+--|
T Consensus         5 lR~~~~f~gk~VL~ag~~~D~l~   27 (155)
T pfam08468         5 LRHLELFEGKHVLFAGEIADDLP   27 (155)
T ss_pred             HHHHHHHCCCCEEEECCCCCHHH
T ss_conf             11399878980899538640258


No 59 
>KOG4044 consensus
Probab=27.34  E-value=30  Score=15.98  Aligned_cols=46  Identities=26%  Similarity=0.384  Sum_probs=27.9

Q ss_pred             CCCCEEHHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEE
Q ss_conf             88402358983897499998228878741001010465311245531011023430
Q gi|254780311|r   27 QWKDVNTQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLS   82 (177)
Q Consensus        27 ~~~~~~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s   82 (177)
                      +...-++.++|.+|.|||||+-   |-+|-.+      -.+ .+-+.|++.-++.+
T Consensus        91 p~v~~s~~~i~~~k~VvL~GiE---thvCv~q------Ta~-dLl~rgl~VhvVaD  136 (201)
T KOG4044          91 PPVEDSLKDIFGGKTVVLFGIE---THVCVLQ------TAL-DLLERGLNVHVVAD  136 (201)
T ss_pred             CHHHHHHHHCCCCCEEEEEECC---HHEEHHH------HHH-HHHHCCCEEEEEEE
T ss_conf             2678888753599749998310---0000488------799-99867964999854


No 60 
>cd02172 RfaE_N RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in other organisms. Domain I  is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .
Probab=27.11  E-value=52  Score=14.74  Aligned_cols=43  Identities=33%  Similarity=0.288  Sum_probs=24.4

Q ss_pred             CCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHHHCCCEEEEEECCCCHH
Q ss_conf             897499998228878741001010465311245531011023430354011
Q gi|254780311|r   38 AGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRCEGIEEVYCLSVNDAFV   88 (177)
Q Consensus        38 ~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~~~~~~i~~~s~~d~~~   88 (177)
                      +||+||+       |.+|-.-.-++..++.+..++.|...|+.+.+ |.++
T Consensus         2 ~gkkiv~-------~~G~FDl~H~GHi~~l~~Ak~~gd~LiVgv~s-D~~i   44 (143)
T cd02172           2 EGKKVVL-------THGCFDLLHAGHVRHLLAARSLGDILVVGLTS-DRSV   44 (143)
T ss_pred             CCCEEEE-------ECCEECCCCHHHHHHHHHHHHCCCEEEEEEEC-CHHH
T ss_conf             8898999-------92733778999999999999749989999968-9889


No 61 
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha subunit, Gram-positive type; InterPro: IPR006308   These are the polypeptide chains of DNA polymerase III. Full-length homologs of this protein are restricted to the Gram-positive lineages, including the Mycoplasmas. This protein is designated alpha chain and given the gene symbol polC, but is not a full-length homolog of other polC genes. The N-terminal region of about 200 amino acids is rich in low-complexity sequence and poorly alignable. ; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0005737 cytoplasm.
Probab=26.24  E-value=29  Score=16.06  Aligned_cols=40  Identities=20%  Similarity=0.289  Sum_probs=22.7

Q ss_pred             CCCCCCEEEEEEECCCCCCCCCCC--CCCCE---EHHHHHCCCEE
Q ss_conf             671881599995367068840368--88402---35898389749
Q gi|254780311|r    3 RFQIPQVVFHMRVATVLPDGSKAF--QWKDV---NTQDLFAGKRV   42 (177)
Q Consensus         3 ~~~ip~~~~~ikvGd~~Pd~tl~~--~~~~~---~~~d~f~gKkV   42 (177)
                      |+.||.-||.===||++||..|++  .+|..   -+.++|+.+.+
T Consensus       758 G~~IPFETFLGF~GDKVPDIDLNFSGEYQ~~AH~~vk~lFGe~~~  802 (1264)
T TIGR01405       758 GQDIPFETFLGFKGDKVPDIDLNFSGEYQAKAHNYVKELFGEDHT  802 (1264)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCE
T ss_conf             369985001677888468644678722477888999986089722


No 62 
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=26.17  E-value=54  Score=14.64  Aligned_cols=69  Identities=14%  Similarity=0.261  Sum_probs=35.2

Q ss_pred             HHHHHCCCEEEEEEECCCCCCCCCHHHCHHHHHHHHHHHH-------HCCCEEEEEECC-CCHHHHHHHCCCCCCEEEEE
Q ss_conf             5898389749999822887874100101046531124553-------101102343035-40113665223587527861
Q gi|254780311|r   33 TQDLFAGKRVFLFALPGAFTPTCSDHQLPGFEKIYDDLRC-------EGIEEVYCLSVN-DAFVMNAWGKKLEIKNVKLL  104 (177)
Q Consensus        33 ~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~~~~~~~~~~~~-------~~~~~i~~~s~~-d~~~~~aw~~~~~~~~~~~l  104 (177)
                      +-+.+.||-|.|| +-+.+-|.|-.. -|-..+.|..++.       ... +|+.+|+| +.-........+....+-+.
T Consensus        19 ~vs~L~GKvVgLY-FSA~WCpPCr~F-TP~L~~fY~~l~~~~~~~~~~~f-EIVfVS~Drse~~f~~y~~~MP~~WlAlP   95 (146)
T cd03008          19 IVARLENRVLLLF-FGAVVSPQCQLF-APKLKDFFVRLTDEFYVDRSAQL-ALVYVSMDQSEQQQESFLKDMPKKWLFLP   95 (146)
T ss_pred             HHHHCCCCEEEEE-EECCCCCHHHHH-HHHHHHHHHHHHHHHHHCCCCCE-EEEEEECCCCHHHHHHHHHHCCCCEEECC
T ss_conf             9998189999999-747868148767-78999999999876544037877-99998368999999999997798726657


No 63 
>KOG2501 consensus
Probab=25.38  E-value=56  Score=14.56  Aligned_cols=73  Identities=21%  Similarity=0.213  Sum_probs=36.5

Q ss_pred             CCCCCC-CEEHHHHHCCCEEEEEEECCCCCCCCCH---HHCHHHHHHHHHHHHHCCCEEEEEECC-CCHHHHHHHCCCCC
Q ss_conf             368884-0235898389749999822887874100---101046531124553101102343035-40113665223587
Q gi|254780311|r   24 KAFQWK-DVNTQDLFAGKRVFLFALPGAFTPTCSD---HQLPGFEKIYDDLRCEGIEEVYCLSVN-DAFVMNAWGKKLEI   98 (177)
Q Consensus        24 l~~~~~-~~~~~d~f~gKkVvL~~~P~AfTp~Ct~---~~~~~~~~~~~~~~~~~~~~i~~~s~~-d~~~~~aw~~~~~~   98 (177)
                      |..++. .+-..+.+.||-|.||| -+.+-|.|-.   ..+++|.+-.+..+  -. +|+.+|.+ +..-+......+..
T Consensus        17 l~~~~~~~~~~~~~l~gKvV~lyF-sA~wC~pCR~FTP~Lk~fYe~l~~~~~--~f-EVvfVS~D~~~~~~~~y~~~~~~   92 (157)
T KOG2501          17 LRKQDGTEVLASEALQGKVVGLYF-SAHWCPPCRDFTPILKDFYEELKDNAA--PF-EVVFVSSDRDEESLDEYMLEHHG   92 (157)
T ss_pred             EECCCCCCCHHHHHHCCCEEEEEE-EEEECCCHHHCCCHHHHHHHHHHHCCC--CE-EEEEEECCCCHHHHHHHHHHCCC
T ss_conf             103687424376862786899998-878778356488668999999973689--66-99999568877899999996399


Q ss_pred             CE
Q ss_conf             52
Q gi|254780311|r   99 KN  100 (177)
Q Consensus        99 ~~  100 (177)
                      ..
T Consensus        93 ~W   94 (157)
T KOG2501          93 DW   94 (157)
T ss_pred             CE
T ss_conf             86


No 64 
>TIGR02403 trehalose_treC alpha,alpha-phosphotrehalase; InterPro: IPR012769    Trehalose is a glucose disaccharide that serves in many biological systems as a compatible solute for protection against hyperosmotic and thermal stress. This family describes trehalose-6-phosphate hydrolase, product of the treC (or treA) gene, which is often found together with a trehalose uptake transporter and a trehalose operon repressor.; GO: 0008788 alphaalpha-phosphotrehalase activity, 0005993 trehalose catabolic process, 0005737 cytoplasm.
Probab=21.11  E-value=53  Score=14.70  Aligned_cols=35  Identities=23%  Similarity=0.394  Sum_probs=22.3

Q ss_pred             EECCCCCCCCCHHH--CHHHHHHHHHHHHHCCCEEEE
Q ss_conf             82288787410010--104653112455310110234
Q gi|254780311|r   46 ALPGAFTPTCSDHQ--LPGFEKIYDDLRCEGIEEVYC   80 (177)
Q Consensus        46 ~~P~AfTp~Ct~~~--~~~~~~~~~~~~~~~~~~i~~   80 (177)
                      =||+.|..+-..-.  +.|.++..+.++++|||.|..
T Consensus        10 IYPkSF~D~~g~G~GDl~GII~KLDYLk~LGvD~iWL   46 (555)
T TIGR02403        10 IYPKSFYDSTGDGTGDLRGIIEKLDYLKELGVDYIWL   46 (555)
T ss_pred             ECCCCEECCCCCEECCCCCHHHHHHHHHHHCCCEEEE
T ss_conf             5056323379713215102433446778618877852


No 65 
>TIGR00314 cdhA CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit; InterPro: IPR004460 Acetyl-CoA decarbonylase/synthase (ACDS) is a multienzyme complex (carbon monoxide dehydrogenase is a synonym). The ACDS complex carries out an unusual reaction involving the reversible cleavage and synthesis of acetyl-CoA in methanogens. The family contains the 4Fe-4S ferredoxin domain [C-x(2)-C-x(2)-C-x(3)-C-[PEG]] between residues 448-462 of the model.; GO: 0018492 carbon-monoxide dehydrogenase (acceptor) activity, 0006084 acetyl-CoA metabolic process.
Probab=20.67  E-value=70  Score=14.04  Aligned_cols=53  Identities=13%  Similarity=0.248  Sum_probs=35.7

Q ss_pred             EHHHHHCCCEEEEEEECCCCCCCCCHHHCH---------HHHHHHHHHHHHCCCEEEEEECCCCHHHHH
Q ss_conf             358983897499998228878741001010---------465311245531011023430354011366
Q gi|254780311|r   32 NTQDLFAGKRVFLFALPGAFTPTCSDHQLP---------GFEKIYDDLRCEGIEEVYCLSVNDAFVMNA   91 (177)
Q Consensus        32 ~~~d~f~gKkVvL~~~P~AfTp~Ct~~~~~---------~~~~~~~~~~~~~~~~i~~~s~~d~~~~~a   91 (177)
                      -+.+++.-+.+|+       |.+|.+....         .|++|...|..+|+..+-+..+|.+..=+|
T Consensus       531 i~~EFl~R~YIVV-------ttGC~Am~ig~~kDe~G~TlYEKY~g~FdagGlVn~GSCvaN~Hi~GAA  592 (795)
T TIGR00314       531 IAKEFLERNYIVV-------TTGCAAMDIGMYKDEEGKTLYEKYPGEFDAGGLVNIGSCVANAHIAGAA  592 (795)
T ss_pred             HHHHHHCCCEEEE-------ECCHHHHHHHHHCCCCCCEEEECCCCEECCCCEEECCCHHHHHHHHHHH
T ss_conf             9998641870898-------2426777654320378888752368740365345034101212320258


Done!