Query         gi|254780392|ref|YP_003064805.1| leucyl aminopeptidase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 494
No_of_seqs    253 out of 1989
Neff          7.4 
Searched_HMMs 39220
Date          Sun May 29 15:56:11 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780392.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK00913 leucyl aminopeptidase 100.0       0       0 1186.0  41.9  478   11-494     6-491 (491)
  2 cd00433 Peptidase_M17 Cytosol  100.0       0       0 1136.7  40.4  461   15-488     1-468 (468)
  3 COG0260 PepB Leucyl aminopepti 100.0       0       0 1137.2  37.7  447   37-493    36-485 (485)
  4 pfam00883 Peptidase_M17 Cytoso 100.0       0       0  940.8  20.0  307  178-486     1-312 (312)
  5 PRK05015 aminopeptidase B; Pro 100.0       0       0  921.2  30.4  379   85-490    35-423 (424)
  6 KOG2597 consensus              100.0       0       0  865.4  28.6  468   12-493    22-512 (513)
  7 pfam02789 Peptidase_M17_N Cyto  99.7 3.2E-16 8.1E-21  134.5  11.5  118   23-140     7-126 (126)
  8 PRK06837 acetylornithine deace  95.3    0.28 7.1E-06   29.1  10.5  135  175-316    20-174 (427)
  9 PRK06915 acetylornithine deace  94.8    0.38 9.8E-06   28.1   9.0  135  175-316    17-170 (422)
 10 PRK07522 acetylornithine deace  91.0     1.4 3.5E-05   24.2   9.3   40  176-215     6-47  (387)
 11 PRK13013 succinyl-diaminopimel  89.2     1.4 3.5E-05   24.2   5.9  125  175-314    14-157 (427)
 12 cd00986 PDZ_LON_protease PDZ d  88.5    0.16 4.2E-06   30.7   0.8   51  307-368    10-60  (79)
 13 PRK13004 peptidase; Reviewed    85.3     3.1 7.8E-05   21.7   7.0  115  175-310    15-138 (397)
 14 PRK04443 acetyl-lysine deacety  83.3     3.7 9.5E-05   21.1  10.2   36  177-212     8-44  (352)
 15 PRK07906 hypothetical protein;  78.3     5.4 0.00014   20.0   9.9   14   39-52     40-53  (437)
 16 PRK05111 acetylornithine deace  75.4     6.4 0.00016   19.4   9.4   12  480-491   369-380 (383)
 17 TIGR01910 DapE-ArgE acetylorni  75.1     6.6 0.00017   19.4   6.9   90  209-305   144-241 (427)
 18 cd00987 PDZ_serine_protease PD  72.0     1.7 4.4E-05   23.4   1.1   59  299-368    17-77  (90)
 19 PRK13983 diaminopimelate amino  71.6     7.9  0.0002   18.8  10.0   33  284-316   120-154 (399)
 20 PRK00466 acetyl-lysine deacety  71.1     8.1 0.00021   18.7   6.3   12   39-50     34-45  (345)
 21 PRK13009 succinyl-diaminopimel  70.8     8.2 0.00021   18.7   7.3   16  390-405   264-279 (375)
 22 cd00991 PDZ_archaeal_metallopr  69.1     2.5 6.3E-05   22.4   1.4   59  304-373     9-68  (79)
 23 PRK07338 hypothetical protein;  67.9     9.4 0.00024   18.3   8.3  132  175-315    17-164 (407)
 24 pfam00122 E1-E2_ATPase E1-E2 A  65.2     6.2 0.00016   19.6   2.8   64  294-374    24-87  (222)
 25 TIGR02037 degP_htrA_DO proteas  64.5     1.7 4.4E-05   23.5  -0.2   31  307-337   418-449 (484)
 26 PRK13034 serine hydroxymethylt  63.8      11 0.00028   17.8   5.2   58  342-400   196-258 (422)
 27 PRK10942 serine endoprotease;   61.3     2.4 6.2E-05   22.4   0.1   28  310-337   317-345 (474)
 28 TIGR00093 TIGR00093 conserved   60.7     2.1 5.3E-05   22.9  -0.3   30  102-132    67-96  (185)
 29 cd05017 SIS_PGI_PMI_1 The memb  60.1     5.1 0.00013   20.2   1.6   62  282-358     5-68  (119)
 30 TIGR01043 ATP_syn_A_arch ATP s  59.8     5.9 0.00015   19.7   1.9  136   67-231   250-388 (584)
 31 KOG0884 consensus               59.2     3.9 9.9E-05   21.0   0.9   57  402-465    60-119 (161)
 32 PRK06031 phosphoribosyltransfe  57.4     7.3 0.00019   19.1   2.0   26  166-191   162-187 (233)
 33 KOG1349 consensus               56.4      15 0.00038   16.9   4.1   16  288-303    47-62  (309)
 34 PRK06931 diaminobutyrate--2-ox  56.3     8.8 0.00023   18.5   2.3   97  189-305   234-343 (454)
 35 TIGR01515 branching_enzym 1,4-  55.4       6 0.00015   19.7   1.3   23   85-107   149-171 (608)
 36 PRK08652 acetylornithine deace  54.5      16  0.0004   16.7   9.7   16   37-52     24-39  (349)
 37 PRK08554 peptidase; Reviewed    54.0      16 0.00041   16.6   5.3   14   39-52     31-44  (438)
 38 PRK04155 chaperone protein Hch  53.9       6 0.00015   19.6   1.1   26   47-77     34-59  (288)
 39 PRK08596 acetylornithine deace  53.7      16 0.00041   16.6  10.4   40  176-215    14-57  (421)
 40 PRK06133 glutamate carboxypept  51.5      18 0.00045   16.4  13.0  119  176-316    46-180 (418)
 41 PRK07473 carboxypeptidase; Pro  51.4      18 0.00045   16.4  10.0  117  179-315    15-147 (376)
 42 KOG0780 consensus               51.3      18 0.00045   16.3   7.8  171   62-263    95-278 (483)
 43 PRK08674 bifunctional phosphog  50.5      14 0.00037   16.9   2.6   15  178-192   181-195 (328)
 44 PRK13007 dipeptidase; Reviewed  49.6      19 0.00048   16.2   6.6   27  176-202     9-35  (354)
 45 pfam10447 EXOSC1 Exosome compo  49.2     3.5   9E-05   21.3  -0.7   12  319-330    56-67  (72)
 46 COG1155 NtpA Archaeal/vacuolar  48.9      19 0.00049   16.1   4.3  151   55-234   236-390 (588)
 47 cd00989 PDZ_metalloprotease PD  48.9     3.9 9.9E-05   21.0  -0.5   29  309-337    16-45  (79)
 48 COG1921 SelA Selenocysteine sy  48.0      20  0.0005   16.0   4.5  109  287-402    93-248 (395)
 49 COG4386 Mu-like prophage tail   47.9      20 0.00051   16.0   5.2   15  235-249   276-290 (487)
 50 PRK10898 serine endoprotease;   47.7       5 0.00013   20.2  -0.1   54  307-371   282-336 (355)
 51 cd05791 S1_CSL4 S1_CSL4: CSL4,  47.5       4  0.0001   20.9  -0.6   13  319-331    58-70  (92)
 52 COG3896 Chloramphenicol 3-O-ph  47.0      12  0.0003   17.6   1.7   33  189-221   121-160 (205)
 53 TIGR02149 glgA_Coryne glycogen  46.9     9.2 0.00024   18.3   1.2   40  208-248   147-195 (416)
 54 PRK10139 serine endoprotease;   46.4     6.1 0.00015   19.6   0.2   24  313-336   398-422 (455)
 55 KOG3846 consensus               43.2     9.1 0.00023   18.4   0.7   39  380-418   401-446 (465)
 56 COG2222 AgaS Predicted phospho  41.9      10 0.00025   18.1   0.7   64  209-278   194-263 (340)
 57 TIGR01139 cysK cysteine syntha  41.6      24 0.00062   15.3   3.3   29  284-312   272-301 (312)
 58 cd03450 NodN NodN (nodulation   38.8      26 0.00067   15.1   2.5   21  112-134    22-42  (149)
 59 PRK08087 L-fuculose phosphate   38.4      27  0.0007   15.0   5.9   59  153-212   156-214 (215)
 60 KOG2367 consensus               37.8      23 0.00059   15.5   2.0   63  185-251   221-290 (560)
 61 pfam09264 Sial-lect-inser Vibr  37.1      16 0.00041   16.7   1.1   31  323-353   112-149 (197)
 62 COG0381 WecB UDP-N-acetylgluco  36.9      25 0.00064   15.2   2.1   22  292-315   226-247 (383)
 63 PRK00911 dihydroxy-acid dehydr  36.0      30 0.00076   14.7   5.6  114  270-400   306-422 (557)
 64 cd00988 PDZ_CTP_protease PDZ d  35.4      10 0.00026   18.0  -0.0   32  307-338    15-47  (85)
 65 cd07144 ALDH_ALD2-YMR170C Sacc  34.4      31  0.0008   14.6   4.7   93  357-459   387-484 (484)
 66 TIGR00587 nfo apurinic endonuc  33.2     6.9 0.00018   19.2  -1.2   45  231-280   179-229 (318)
 67 PRK07334 threonine dehydratase  33.1      33 0.00084   14.4   2.8   54  285-354   177-230 (399)
 68 COG0248 GppA Exopolyphosphatas  32.9      33 0.00085   14.4   5.3   81  177-272    80-165 (492)
 69 PRK05639 4-aminobutyrate amino  32.3      34 0.00086   14.3   3.1   94  190-303   237-343 (457)
 70 TIGR02198 rfaE_dom_I rfaE bifu  32.1      32 0.00082   14.5   2.0  153   39-228    77-249 (321)
 71 TIGR00195 exoDNase_III exodeox  31.8      20  0.0005   16.0   0.9   11  129-139   222-232 (281)
 72 cd00136 PDZ PDZ domain, also c  31.5      12  0.0003   17.6  -0.3   43  306-356    14-57  (70)
 73 TIGR01752 flav_long flavodoxin  31.3      35 0.00089   14.2   4.4   52   41-108    76-127 (176)
 74 COG4942 Membrane-bound metallo  30.5      36 0.00092   14.1   2.4   85  289-394   290-374 (420)
 75 PRK08526 threonine dehydratase  30.5      26 0.00067   15.1   1.3   42  285-328   177-219 (403)
 76 PRK12890 allantoate amidohydro  30.0      37 0.00094   14.1   6.8  136  274-427   230-369 (412)
 77 COG0036 Rpe Pentose-5-phosphat  29.9      21 0.00053   15.8   0.8   27  176-202   100-126 (220)
 78 pfam00926 DHBP_synthase 3,4-di  29.9      35 0.00089   14.2   1.9   44  183-229    27-70  (193)
 79 COG4043 Preprotein translocase  29.9      20 0.00051   16.0   0.7   14   93-106    60-73  (111)
 80 cd04461 S1_Rrp5_repeat_hs8_sc7  29.7      37 0.00095   14.0   3.1   48  302-350    34-82  (83)
 81 pfam02112 PDEase_II cAMP phosp  29.2      38 0.00097   14.0   2.4   30  331-367   231-260 (323)
 82 PRK10717 cysteine synthase A;   28.9      38 0.00098   14.0   3.6   42  284-327   184-225 (334)
 83 TIGR01163 rpe ribulose-phospha  28.7      33 0.00084   14.4   1.6   48   84-134   151-202 (216)
 84 pfam05666 Fels1 Fels-1 Prophag  28.4      21 0.00053   15.8   0.5   19  255-273    19-37  (45)
 85 PRK09374 rplB 50S ribosomal pr  28.3      39   0.001   13.9   2.8   25  237-267    75-99  (276)
 86 smart00228 PDZ Domain present   28.2      19 0.00048   16.1   0.3   31  307-337    28-59  (85)
 87 PRK08588 succinyl-diaminopimel  27.9      40   0.001   13.8   9.8   15   38-52     25-39  (378)
 88 cd07143 ALDH_AldA_AN0554 Asper  27.4      41   0.001   13.8   4.6   93  357-459   384-481 (481)
 89 pfam04767 Pox_F17 DNA-binding   27.4      28 0.00071   15.0   1.0   13  335-348     5-17  (98)
 90 PRK08198 threonine dehydratase  27.1      41   0.001   13.7   4.9   57  284-354   180-236 (406)
 91 PRK07495 4-aminobutyrate amino  26.9      42  0.0011   13.7   3.2   61  189-269   210-271 (422)
 92 PRK08091 ribulose-phosphate 3-  26.6      32 0.00082   14.5   1.2   16   94-109    31-46  (235)
 93 PRK00326 cell division protein  26.5      11 0.00029   17.7  -1.1   28  325-353    70-97  (147)
 94 PRK13590 putative bifunctional  26.3      43  0.0011   13.6   8.3  136  274-428   407-546 (590)
 95 PRK09521 exosome complex RNA-b  26.3      14 0.00035   17.1  -0.7   13  319-331   117-129 (187)
 96 TIGR01477 RIFIN variant surfac  25.6      27 0.00069   15.0   0.7   20  185-204   241-260 (395)
 97 PRK06382 threonine dehydratase  25.6      42  0.0011   13.7   1.7   43  285-329   176-219 (400)
 98 PRK00910 ribB 3,4-dihydroxy-2-  25.5      34 0.00086   14.3   1.2   60  183-245    43-102 (218)
 99 PRK12394 putative metallo-depe  25.4      27 0.00068   15.1   0.7   47  320-373   204-251 (387)
100 PRK05581 ribulose-phosphate 3-  25.2      41   0.001   13.8   1.6   14   96-109    24-37  (220)
101 cd00990 PDZ_glycyl_aminopeptid  25.2      23 0.00059   15.5   0.3   31  307-337    14-45  (80)
102 TIGR03240 arg_catab_astD succi  25.2      45  0.0011   13.5   3.1   97  357-463   372-473 (484)
103 KOG3332 consensus               25.1      28 0.00071   14.9   0.7   22  181-202   108-129 (247)
104 PRK06833 L-fuculose phosphate   24.9      45  0.0011   13.5   6.0   54  153-208   158-211 (214)
105 pfam03123 CAT_RBD CAT RNA bind  24.1      46  0.0012   13.4   1.6   15  252-266    19-33  (55)
106 KOG1352 consensus               23.9      47  0.0012   13.3   2.9  121   66-211   269-396 (618)
107 PRK06446 hypothetical protein;  23.9      47  0.0012   13.3   8.0   16  478-493   417-432 (433)
108 PRK09290 allantoate amidohydro  23.7      47  0.0012   13.3   6.9  136  274-427   229-368 (412)
109 TIGR01664 DNA-3'-Pase DNA 3'-p  23.5      48  0.0012   13.3   2.2   31   33-65     51-81  (239)
110 cd00378 SHMT Serine-glycine hy  23.3      48  0.0012   13.3   6.3   80  342-423   186-286 (402)
111 pfam00595 PDZ PDZ domain (Also  23.2      32 0.00082   14.5   0.7   31  309-339    28-59  (80)
112 PRK06082 4-aminobutyrate amino  23.1      49  0.0012   13.2   3.1   94  192-305   246-354 (460)
113 cd02903 Macro_BAL_like Macro d  22.6      50  0.0013   13.2   9.6  108    1-109     1-113 (137)
114 TIGR00918 2A060602 transmembra  22.6      50  0.0013   13.2   1.8  181  172-354   105-331 (1215)
115 TIGR03320 ygeY M20/DapE family  22.2      50  0.0013   13.1  10.7   34  176-209    14-48  (395)
116 pfam11330 DUF3132 Protein of u  22.2      50  0.0013   13.1   3.2   60  300-359    53-113 (124)
117 COG1949 Orn Oligoribonuclease   22.2      51  0.0013   13.1   4.4   61  346-407     7-68  (184)
118 pfam11161 DUF2944 Protein of u  22.1      51  0.0013   13.1   1.9   24   38-61     49-72  (178)
119 PRK08088 4-aminobutyrate amino  22.1      51  0.0013   13.1   2.7   62  189-270   214-276 (426)
120 TIGR01736 FGAM_synth_II phosph  22.0      37 0.00095   14.0   0.9   18   90-107   488-505 (763)
121 TIGR00936 ahcY adenosylhomocys  21.9      51  0.0013   13.1   1.5   20  326-348   324-343 (422)
122 cd06325 PBP1_ABC_uncharacteriz  21.9      51  0.0013   13.1   3.2   14  410-423   211-224 (281)
123 PRK08005 ribulose-phosphate 3-  21.7      47  0.0012   13.3   1.3   15   95-109    20-34  (210)
124 KOG3857 consensus               21.1      16 0.00041   16.6  -1.1  116  242-380   266-392 (465)
125 TIGR00470 sepS O-phosphoseryl-  20.8      54  0.0014   12.9   2.0   50   94-146   235-284 (558)
126 pfam04393 DUF535 Protein of un  20.7      37 0.00095   14.0   0.6   69  352-423   190-263 (287)
127 COG1692 Calcineurin-like phosp  20.6      50  0.0013   13.1   1.3   45  185-229   119-166 (266)
128 PTZ00125 ornithine aminotransf  20.5      55  0.0014   12.9   3.8   96  189-304   211-321 (415)
129 PRK01792 ribB 3,4-dihydroxy-2-  20.4      55  0.0014   12.9   2.1   59  183-244    42-100 (214)
130 COG3480 SdrC Predicted secrete  20.3      55  0.0014   12.9   2.7  165  284-478   108-279 (342)
131 KOG3425 consensus               20.2      55  0.0014   12.8   1.9   55  433-487    42-102 (128)
132 pfam09182 PuR_N Bacterial puri  20.2      53  0.0013   13.0   1.3   53  178-231     7-60  (70)

No 1  
>PRK00913 leucyl aminopeptidase; Provisional
Probab=100.00  E-value=0  Score=1186.01  Aligned_cols=478  Identities=41%  Similarity=0.667  Sum_probs=441.0

Q ss_pred             CCCCCCEEEEEECCCCCCC--CCCCCCCCHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHCCHH-HH
Q ss_conf             8776771699962686632--22212388889999998089983678789984378887445999944881558999-99
Q gi|254780392|r   11 PSIKQEGLAILLKTSFSDV--AGLSLIGSPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDANFS-WL   87 (494)
Q Consensus        11 ~~~~~d~lvV~~~~~~~~~--~~~~~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~~~~-~~   87 (494)
                      ...++|+++|++.++....  ....+....+.|+++++..+|+||.||++.++.+.+..++||+|||||++++++.+ +|
T Consensus         6 ~~~~aD~LVvgV~e~~~l~~~~~~LD~~~~g~I~~lik~~~F~GK~Ge~~~l~~~~g~~a~rVlLVGLGk~~~ls~~~~R   85 (491)
T PRK00913          6 EKQKADCLVVGVFEPRRLSGAAEQLDKASDGYISALLKRGDFKGKAGQTLLLHHVPGVLAERVLLVGLGKEEELDEDQLR   85 (491)
T ss_pred             HHHCCCEEEEEECCCCCCCHHHHHHHHHCCCHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCCCCCCHHHHH
T ss_conf             55207989999678986698999999972519999996599998879989985799987788999926872318999999


Q ss_pred             HHHHHHHHHHHHCCCEEEEECCCCCCCC---HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             9999999985316974899417789999---8999999999971477754444364333232100013332245773789
Q gi|254780392|r   88 KAGGSIASYIEEDKNIEIFVDVPEYPIT---KAEIRDLVLGFMLKTYTFDQYKTKKRESSSPRSKENISVTIVTEMIQQS  164 (494)
Q Consensus        88 ra~a~~~~~l~~~~~~~v~i~l~~~~~~---~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~  164 (494)
                      ++++++++.++..+.+++.+.++.....   ...+++++||+.|++|+|++|||++++.....     .+.+........
T Consensus        86 ~a~a~aar~l~~~~~~~i~v~l~~~~~~~~~~~~a~a~aEG~~Lg~Y~Fd~yKs~k~~~~~~~-----~~~v~~~~~~~a  160 (491)
T PRK00913         86 KAAGKAARALKKTKSKEAVLFLTELHVKGRDTKVAAAVAEGALLGAYRFDRYKSKKKEPRRPL-----VFNVPTRELTEA  160 (491)
T ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCE-----EEEEECCCHHHH
T ss_conf             999999999976798089997765454566599999999999966844564567887776642-----699605874889


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEE
Q ss_conf             9999999999999998642021254030299999999986-113321000011100013458988742025778506886
Q gi|254780392|r  165 SQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVM  243 (494)
Q Consensus       165 ~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l  243 (494)
                      ++++++++++++|+|+||||+|+|||+|||++||++++++ ++++++|+|+++++|+++|||+||+|||||.+|||||+|
T Consensus       161 ~~a~~~g~aiae~~~~aRdL~n~P~n~~tP~~~a~~a~~~~~~~~~~v~v~~~~~l~~~gmg~~laVg~GS~~~p~li~l  240 (491)
T PRK00913        161 EKAIAHGEAIAEGVNLARDLVNEPPNILTPAYLAERAKELAKEYGLEVEVLDEKEMEKLGMGALLAVGQGSANPPRLIVL  240 (491)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEECHHHHHHCCCCCEEEECCCCCCCCCEEEE
T ss_conf             99999999999999999998647870189999999999987650978999639999866997332562576899847999


Q ss_pred             ECCCCCCCCCCEEEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCC
Q ss_conf             20578865651266302112006631003333200232211235689999999987087872899864102668999747
Q gi|254780392|r  244 KWEGGDSEEQPLAFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQR  323 (494)
Q Consensus       244 ~Y~g~~~~~~piaLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~  323 (494)
                      +|+|++++++||+|||||||||||||||||+.+|++||+||||||+|+|+|+++++|++|+||++++|+|||||||+|||
T Consensus       241 ~y~g~~~~~~~i~lVGKGvtFDsGG~slKp~~~m~~Mk~Dm~Gaa~v~g~~~a~a~l~~~~nv~~~~~~~ENm~~g~a~~  320 (491)
T PRK00913        241 EYKGGPKDAKPIALVGKGLTFDSGGISLKPAAGMDEMKYDMGGAAAVLGTMRALAELKLPVNVVGVVAACENMPSGNAYR  320 (491)
T ss_pred             EECCCCCCCCEEEEECCEEEEECCCCCCCCCCCHHHHHCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEHHHCCCCCCCCC
T ss_conf             96789987622898435047506874568766878775564106899999999998499956999986121388888999


Q ss_pred             HHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHH
Q ss_conf             07763024895888634786640365236788752079613552111200235431776057870898999999998998
Q gi|254780392|r  324 PGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLS  403 (494)
Q Consensus       324 pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~  403 (494)
                      ||||||+||||||||.||||||||||||+|+|| ++|+|+.|||+|||||||++|||++++|+|||||+|++++++||+.
T Consensus       321 pgDvi~~~~GktvEi~nTDAEGRLvLaD~l~ya-~~~~p~~iiD~ATLTGa~~vaLG~~~~g~~~n~~~l~~~~~~a~~~  399 (491)
T PRK00913        321 PGDVLTSMSGKTIEVLNTDAEGRLVLADALTYA-ERFKPDAIIDVATLTGACVVALGHHTAGLMSNNDELADELLKAGEE  399 (491)
T ss_pred             CCCEEEECCCCEEEECCCCCCCEEEEHHHHHHH-HHCCCCEEEEEHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHH
T ss_conf             855578069947983068852036640188888-6539978987121220115331787369971999999999999998


Q ss_pred             HCCCCCCCCCCHHHHHHHCCCCCCEECCCCCCHHHHHHHHHHHHHCCC-CCEEEEEEEECCCCCCCCCCCCCCCCCCCHH
Q ss_conf             569717677686788861798641701888746799999999872388-6769994000011678888889986543589
Q gi|254780392|r  404 TGELLWRMPMNEEYNKLIESKFADMKNIGGRGAGSIVAAQFLEKFVQD-ASWAHIDIAGVATGGYPKEINQSWASGFGVR  482 (494)
Q Consensus       404 ~ge~~w~lPl~~~y~~~~~s~~AD~~n~~~~~~g~~~aa~fl~~f~~~-~~w~HlDiag~a~~~~~~~~~~~g~tg~~vr  482 (494)
                      +||++||||||++|+++|||++|||+|+|+|+||+||||+||+|||++ +||+|||||||||++++++|.|+|+||||||
T Consensus       400 ~ge~~W~lPl~~~y~~~l~S~~AD~~N~g~~~~g~itAa~FL~~Fv~~~~~W~HlDiAg~a~~~~~~~~~~~gatG~~vr  479 (491)
T PRK00913        400 SGERAWRLPLGDEYQEQLKSPIADMANIGGRPGGSITAACFLSRFVEKGYPWAHLDIAGTAWNSKKGGGKPKGATGRGVR  479 (491)
T ss_pred             HCCCEECCCCCHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             19977608899889967799720230789995578999999999728998869996777662688888999986533299


Q ss_pred             HHHHHHHHHCCC
Q ss_conf             999999976689
Q gi|254780392|r  483 LLDEFVRAFYEK  494 (494)
Q Consensus       483 ~l~~~~~~~~~~  494 (494)
                      ||+|||+++.|+
T Consensus       480 ~l~~~~~~~~~~  491 (491)
T PRK00913        480 LLVQFLLNRAEE  491 (491)
T ss_pred             HHHHHHHHHHCC
T ss_conf             999999986319


No 2  
>cd00433 Peptidase_M17 Cytosol aminopeptidase family, N-terminal and catalytic domains.  Family M17 contains zinc- and manganese-dependent exopeptidases ( EC  3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and play a key role in protein degradation and in the metabolism of biologically active peptides. They do not contain HEXXH motif (which is used as one of the signature patterns to group the peptidase families) in the metal-binding site. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase. The enzyme is a hexamer, with the catalytic domains clustered around the three-fold axis, and the two trimers related to one another by a two-fold rotation. The N-terminal domain is structurally similar to the ADP-ribose binding Macro domain. This family includes proteins from bacteria, archaea, animals and plants.
Probab=100.00  E-value=0  Score=1136.74  Aligned_cols=461  Identities=43%  Similarity=0.701  Sum_probs=420.8

Q ss_pred             CCEEEEEECCC---CCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHCCHH-HHHHH
Q ss_conf             77169996268---663222212388889999998089983678789984378887445999944881558999-99999
Q gi|254780392|r   15 QEGLAILLKTS---FSDVAGLSLIGSPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDANFS-WLKAG   90 (494)
Q Consensus        15 ~d~lvV~~~~~---~~~~~~~~~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~~~~-~~ra~   90 (494)
                      .|++++++...   +.......+....+.+.++++..+|+||.||++.++.+.+ ...||++||||+.++.+.+ +++++
T Consensus         1 ~d~LVvgv~~~~~~l~~~~~~ld~~~~g~l~~ll~~~~~~Gk~Ge~~~l~~~~~-~~~rvllvGLG~~~~~~~~~~r~a~   79 (468)
T cd00433           1 ADGLVLGVFEGEGGLPPAAEKLDAASSGALAALLKASGFKGKAGETLLLPALGG-GAKRVALVGLGKEEDLDVENLRKAA   79 (468)
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCC-CCCEEEEEECCCCCCCCHHHHHHHH
T ss_conf             978999998899976889999989734699999974999988688899807999-7477999914874549999999999


Q ss_pred             HHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             99999853169748994177899998999999999971477754444364333232100013332245773789999999
Q gi|254780392|r   91 GSIASYIEEDKNIEIFVDVPEYPITKAEIRDLVLGFMLKTYTFDQYKTKKRESSSPRSKENISVTIVTEMIQQSSQVVAD  170 (494)
Q Consensus        91 a~~~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~  170 (494)
                      ++++++++..+..++.+..+.   ..+.++++++|+.|++|+|++||++++......       ..........++.+++
T Consensus        80 a~aa~~l~~~~~~~i~v~~~~---~~~~~~~~aeGa~Lg~Y~f~~yKs~~~~~~~~~-------~~~~~~~~~~~~~~~~  149 (468)
T cd00433          80 GAAARALKKLGSKSVAVDLPT---LAEDAEAAAEGALLGAYRFDRYKSKKKKTPLLV-------VLELGNDKAAEAALER  149 (468)
T ss_pred             HHHHHHHHHCCCCEEEEECCC---CHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCE-------EEECCCCHHHHHHHHH
T ss_conf             999999854797089992899---589999999999965676101457898887503-------5632675789999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCC
Q ss_conf             9999999998642021254030299999999986-113321000011100013458988742025778506886205788
Q gi|254780392|r  171 IQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGD  249 (494)
Q Consensus       171 ~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~  249 (494)
                      ++++++|+++||||+|+|||+|||++||++++++ +++|++|+|+|+++|+++|||+||+|||||.+|||||+|+|+|.+
T Consensus       150 ~~aia~gv~laRdLvn~P~N~ltP~~lA~~a~~la~~~g~~v~Vld~~~l~~~gmg~llaVg~GS~~~p~li~l~y~~~~  229 (468)
T cd00433         150 GEAIAEGVNLARDLVNTPANDLTPTYLAEEAKELAKELGVKVEVLDEKELEELGMGALLAVGKGSEEPPRLIVLEYKGKG  229 (468)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEHHHHHHCCCCHHHEECCCCCCCCEEEEEEECCCC
T ss_conf             99999999999997448960169999999999986407987999709999875995021010256899717999856888


Q ss_pred             CCCCCEEEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHC
Q ss_conf             65651266302112006631003333200232211235689999999987087872899864102668999747077630
Q gi|254780392|r  250 SEEQPLAFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVR  329 (494)
Q Consensus       250 ~~~~piaLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~  329 (494)
                      ++++||+|||||||||||||||||+.+|++||+||||||+|+|+|+++++|++|+||++++|+|||||||+|||||||||
T Consensus       230 ~~~~~~~lVGKGitfDsGG~~lKp~~~m~~Mk~Dm~Gaa~v~g~~~a~a~l~~~~~v~~~~~~~EN~~~~~a~rpgDvi~  309 (468)
T cd00433         230 ASKKPIALVGKGITFDTGGLSLKPAAGMDGMKYDMGGAAAVLGAMKAIAELKLPVNVVGVLPLAENMISGNAYRPGDVIT  309 (468)
T ss_pred             CCCCCEEEECCEEEECCCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEHHHCCCCCCCCCCCCEEE
T ss_conf             88775588611378516874557734288864232236899999999998589927999986231487888989846588


Q ss_pred             CCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCC
Q ss_conf             24895888634786640365236788752079613552111200235431776057870898999999998998569717
Q gi|254780392|r  330 SMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLW  409 (494)
Q Consensus       330 ~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w  409 (494)
                      +||||||||.||||||||||||+|+||+ +|+|+.|||+|||||||++|||++++|+|+|||+|++++++||+.+||++|
T Consensus       310 ~~~GktvEi~nTDAEGRLvLaD~l~ya~-~~~p~~iiD~ATLTGa~~vaLG~~~~g~~~n~~~l~~~l~~a~~~~ge~~w  388 (468)
T cd00433         310 SRSGKTVEILNTDAEGRLVLADALTYAQ-EFKPDLIIDIATLTGAAVVALGHDYAGLFTNDDELAKQLLAAGEASGERVW  388 (468)
T ss_pred             CCCCCEEEEECCCCCHHEEEHHHHHHHH-HCCCCEEEEECCCCCCEEEECCCCCEEEECCCHHHHHHHHHHHHHHCCCEE
T ss_conf             2799689996688403111145888886-429977776144202110220787679954999999999999998099787


Q ss_pred             CCCCCHHHHHHHCCCCCCEECCCCC-CHHHHHHHHHHHHHCCC-CCEEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             6776867888617986417018887-46799999999872388-676999400001167888888998654358999999
Q gi|254780392|r  410 RMPMNEEYNKLIESKFADMKNIGGR-GAGSIVAAQFLEKFVQD-ASWAHIDIAGVATGGYPKEINQSWASGFGVRLLDEF  487 (494)
Q Consensus       410 ~lPl~~~y~~~~~s~~AD~~n~~~~-~~g~~~aa~fl~~f~~~-~~w~HlDiag~a~~~~~~~~~~~g~tg~~vr~l~~~  487 (494)
                      |||||++|+++|||++|||+|+++| +||+||||+||+|||++ +||+|||||||+|.+++. |.|+|+||||||||+||
T Consensus       389 ~lPl~~~y~~~l~s~~AD~~N~~~~~~~g~~~aa~FL~~Fv~~~~~W~HlDiAg~a~~~~~~-~~~~g~TG~gvr~l~~~  467 (468)
T cd00433         389 RLPLWEEYREQLKSDIADLKNIGGRGPAGSITAALFLKEFVGDGIPWAHLDIAGTAWKSKPG-YLPKGATGFGVRLLVEF  467 (468)
T ss_pred             CCCCCHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCC-CCCCCCCCHHHHHHHHH
T ss_conf             08899888937799836767789899534899999999970989987899767867667899-89998353769999976


Q ss_pred             H
Q ss_conf             9
Q gi|254780392|r  488 V  488 (494)
Q Consensus       488 ~  488 (494)
                      |
T Consensus       468 l  468 (468)
T cd00433         468 L  468 (468)
T ss_pred             C
T ss_conf             9


No 3  
>COG0260 PepB Leucyl aminopeptidase [Amino acid transport and metabolism]
Probab=100.00  E-value=0  Score=1137.18  Aligned_cols=447  Identities=45%  Similarity=0.745  Sum_probs=411.8

Q ss_pred             CHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHCCH-HHHHHHHHHHHHHHHCCCEEEEECCCCCCCC
Q ss_conf             888999999808998367878998437888744599994488155899-9999999999985316974899417789999
Q gi|254780392|r   37 SPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDANF-SWLKAGGSIASYIEEDKNIEIFVDVPEYPIT  115 (494)
Q Consensus        37 ~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~~~-~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~  115 (494)
                      ....++...+..+|+||.|+++.++.+. ....|+++||||+.+ .+. .++++.+.+.+.++..+..++.+.++.++ .
T Consensus        36 ~~~~~~~~~~~~~~~g~~g~~~~~~~~~-~~~~~~~~vglg~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-~  112 (485)
T COG0260          36 SEGILSWLLKAGEFSGKAGQVLLLPGSV-GSVKRVLLVGLGKRK-LSEDTLRRAAGAAARALKKGKAWEVTLLLPELP-A  112 (485)
T ss_pred             HHHHHHHHHHHHCCCCCCCCEEEEECCC-CCCCEEEEEEECCCC-CCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCC-H
T ss_conf             1456899987414435677269840567-760168999716876-777789999999999742267336898346632-6


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHH
Q ss_conf             89999999999714777544443643332321000133322457737899999999999999998642021254030299
Q gi|254780392|r  116 KAEIRDLVLGFMLKTYTFDQYKTKKRESSSPRSKENISVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTD  195 (494)
Q Consensus       116 ~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~  195 (494)
                      .+.+..+++|+.+++|+|++||+.+++...+.    ..+.+.... ...++.+++++++++||++||||+|+|||+|||+
T Consensus       113 ~~~~~~~~~g~~~~~Y~f~~yk~~k~~~~~~~----~~v~~~~~~-~~~~~~~~~~~ai~~~v~~aRdLvN~P~n~l~P~  187 (485)
T COG0260         113 AEIAAAAVEGFLLGSYRFDRYKSEKKEPDKEL----PKVTLLVPA-KSAEKAIREGEAIAEGVNLARDLVNTPANILTPE  187 (485)
T ss_pred             HHHHHHHHHHHHHCCCCHHHCCCCCCCCCCCC----CEEEEECCC-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHH
T ss_conf             89999999998751451433045544544454----237883265-0467789999999999999998763896337999


Q ss_pred             HHHHHHHHHHC-CCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCCCCCCCCC
Q ss_conf             99999998611-33210000111000134589887420257785068862057886565126630211200663100333
Q gi|254780392|r  196 EFCKQVRKLES-LGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTGGISIKPS  274 (494)
Q Consensus       196 ~lA~~a~~l~~-~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtGGislKp~  274 (494)
                      +||++++.|++ .+++|+|+++++|+++|||+||+|||||.+|||||+|+|+|.+++++|++|||||||||||||||||+
T Consensus       188 ~la~~a~~la~~~~v~veVl~~~~l~~~gmg~llaVg~GS~~~Prlivl~y~g~~~~~~~iaLVGKGitFDsGGisiKp~  267 (485)
T COG0260         188 ELAERAELLAKLGGVKVEVLDEKDLEKLGMGALLAVGKGSARPPRLIVLEYNGKGKAKKPIALVGKGITFDSGGISIKPA  267 (485)
T ss_pred             HHHHHHHHHHHCCCCEEEEECHHHHHHCCCCEEEEECCCCCCCCEEEEEECCCCCCCCCEEEEECCCEEECCCCCCCCCC
T ss_conf             99999999865378169993599998759951664356778898489997379988886499975703465898567775


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHH
Q ss_conf             32002322112356899999999870878728998641026689997470776302489588863478664036523678
Q gi|254780392|r  275 HGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALW  354 (494)
Q Consensus       275 ~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~  354 (494)
                      .+|++||+||||||+|+|+|.++|++++|+||++++|+|||||||+|||||||||+||||||||+||||||||||||||+
T Consensus       268 ~~M~~MK~DMgGAAaV~g~~~a~a~l~l~vnv~~vl~~~ENm~~g~A~rPGDVits~~GkTVEV~NTDAEGRLVLADaLt  347 (485)
T COG0260         268 AGMDTMKYDMGGAAAVLGAMRALAELKLPVNVVGVLPAVENMPSGNAYRPGDVITSMNGKTVEVLNTDAEGRLVLADALT  347 (485)
T ss_pred             CCHHHHHCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCCCCCEEEECCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             54333122644499999999999971999349999761315878789999876780597089974567027787788899


Q ss_pred             HHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCCC-
Q ss_conf             8752079613552111200235431776057870898999999998998569717677686788861798641701888-
Q gi|254780392|r  355 YCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADMKNIGG-  433 (494)
Q Consensus       355 ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~~-  433 (494)
                      ||++ +||+.|||+|||||||+||||++++|+|||||+|+++|.+|++.+||++|||||+++|+++|+|+||||+|+++ 
T Consensus       348 YA~~-~kp~~iID~ATLTGA~~vALG~~~~g~fs~dd~La~~l~~As~~~gE~~WrLPl~~~y~~~l~S~~ADl~N~~~~  426 (485)
T COG0260         348 YAEE-LKPDLIIDVATLTGAAVVALGNDYTGLFSNDDELANQLLAASEETGEPLWRLPLHEEYRKQLKSNFADLANIGGG  426 (485)
T ss_pred             HHHH-CCCCEEEEEHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHCCCCCHHHHCCCCC
T ss_conf             9987-199879981205767998707875233328999999999999871983205879878896468962012147899


Q ss_pred             CCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             746799999999872388676999400001167888888998654358999999997668
Q gi|254780392|r  434 RGAGSIVAAQFLEKFVQDASWAHIDIAGVATGGYPKEINQSWASGFGVRLLDEFVRAFYE  493 (494)
Q Consensus       434 ~~~g~~~aa~fl~~f~~~~~w~HlDiag~a~~~~~~~~~~~g~tg~~vr~l~~~~~~~~~  493 (494)
                      |+|||||||+||+|||+++||+|||||||+|.+... +.|+||||+|||||++|++++++
T Consensus       427 ~~gGaitAA~FL~~Fv~~~~WaHlDIAGta~~~~~~-~~~~GAtG~~VrtL~~~l~~~~~  485 (485)
T COG0260         427 RFGGAITAALFLSEFVENVPWAHLDIAGTAWKSGSP-YWPKGATGVGVRTLAQFLLNRAE  485 (485)
T ss_pred             CCCCHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCC-CCCCCCEECCHHHHHHHHHHHCC
T ss_conf             987479999999987189986999843412347887-68998740129999999998629


No 4  
>pfam00883 Peptidase_M17 Cytosol aminopeptidase family, catalytic domain. The two associated zinc ions and the active site are entirely enclosed within the C-terminal catalytic domain in leucine aminopeptidase.
Probab=100.00  E-value=0  Score=940.82  Aligned_cols=307  Identities=52%  Similarity=0.872  Sum_probs=295.2

Q ss_pred             HHHHHHHCCCCCEEECHHHHHHHHHHH-HCC-CCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCC-CCCCC
Q ss_conf             998642021254030299999999986-113-321000011100013458988742025778506886205788-65651
Q gi|254780392|r  178 VNLARDIINEPANVLGTDEFCKQVRKL-ESL-GVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGD-SEEQP  254 (494)
Q Consensus       178 v~lARDLvN~PaN~ltP~~lA~~a~~l-~~~-gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~-~~~~p  254 (494)
                      ||+||||+|+|||+|||++|+++++++ ++. +++|+|+++++|+++|||+||+|||||.+|||||+|+|+|.+ ++++|
T Consensus         1 VnlaRdLvn~P~N~ltP~~~a~~~~~~~~~~~~~~v~v~~~~~l~~~gmg~llaVg~GS~~~P~lv~l~y~~~~~~~~~~   80 (312)
T pfam00883         1 VNLARDLVNTPANILTPAVLAEEAEKLASNYSDVKIEVLDEEELEELGMGGLLAVNKGSENPPRFIVLSYKGNKKEDKKK   80 (312)
T ss_pred             CHHHHHHHCCCHHHCCHHHHHHHHHHHHHHCCCCEEEEEEHHHHHHCCCCCEEEEECCCCCCCCEEEEEECCCCCCCCCE
T ss_conf             92677400379455499999999999986569928999619999858997477662356889832799988988877762


Q ss_pred             EEEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCC
Q ss_conf             26630211200663100333320023221123568999999998708787289986410266899974707763024895
Q gi|254780392|r  255 LAFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQ  334 (494)
Q Consensus       255 iaLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~  334 (494)
                      |+|||||||||||||||||+.+|++||+||||||+|+|+|++++++++|+||++++|+||||||++|||||||||+||||
T Consensus        81 i~lVGKGvTFDtGGl~lKp~~~M~~Mk~DM~GAA~v~g~~~aia~l~l~v~v~~i~~l~EN~is~~A~rPgDVi~s~~Gk  160 (312)
T pfam00883        81 LALVGKGITFDSGGISIKPGAGMDLMKYDMGGAAAVLGAIKALAQLKPPVNVVAVLALTENMISGTAMRPGDIITAMNGK  160 (312)
T ss_pred             EEEECCCEEECCCCCCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCCEEEECCCC
T ss_conf             89953760633665788066226565455315899999999999849986479998701037899889999778917997


Q ss_pred             EEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             88863478664036523678875207961355211120023543177605787089899999999899856971767768
Q gi|254780392|r  335 TIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMN  414 (494)
Q Consensus       335 tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~  414 (494)
                      ||||.||||||||||||+|+||+ +|+|+.|||+|||||||++|||.+++|+|+|||+++++++++|+.+||++||||||
T Consensus       161 TVEI~NTDAEGRLvLADaL~ya~-~~~p~~iiD~ATLTGa~~~ALG~~~ag~~sn~~~l~~~~~~a~~~~ge~~W~lPl~  239 (312)
T pfam00883       161 TVEVNNTDAEGRLVLADALTYAC-ELNPEVIIDVATLTGACVVALGTTYTGIFSNDDELANELIKAAEESGEKVWRMPLH  239 (312)
T ss_pred             EEEEECCCCCCEEEEHHHHHHHH-CCCCCEEEEECCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEECCCC
T ss_conf             89862698650145455777875-14986576500225467825087640121599999999999999717828988788


Q ss_pred             HHHHHHHCCCCCCEECCCCC-CHHHHHHHHHHHHHCCC-CCEEEEEEEECCCCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf             67888617986417018887-46799999999872388-67699940000116788888899865435899999
Q gi|254780392|r  415 EEYNKLIESKFADMKNIGGR-GAGSIVAAQFLEKFVQD-ASWAHIDIAGVATGGYPKEINQSWASGFGVRLLDE  486 (494)
Q Consensus       415 ~~y~~~~~s~~AD~~n~~~~-~~g~~~aa~fl~~f~~~-~~w~HlDiag~a~~~~~~~~~~~g~tg~~vr~l~~  486 (494)
                      ++|+++++|++||++|++++ .+|+|+||+||+|||++ +||+|||||||+|++. .++.|+|+||||||||+|
T Consensus       240 ~~y~~~l~S~~AD~~N~~~~~~~g~i~AA~FL~~Fv~~~~~W~HlDiAg~a~~~~-~~~~~~G~TG~gvr~Lve  312 (312)
T pfam00883       240 EDYKKQLKSKVADLANIGGRRGAGAITAALFLKEFVEEGVPWAHLDIAGTAWNKK-KNQWPKGATGYGVRTLVE  312 (312)
T ss_pred             HHHHHHCCCCHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEECCCCCCCCC-CCCCCCCCCCCCCCCCCC
T ss_conf             8999754897201105898898327899999999659998879897578654589-999999965557040049


No 5  
>PRK05015 aminopeptidase B; Provisional
Probab=100.00  E-value=0  Score=921.20  Aligned_cols=379  Identities=34%  Similarity=0.521  Sum_probs=331.8

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf             99999999999853169748994177899998999999999971477754444364333232100013332245773789
Q gi|254780392|r   85 SWLKAGGSIASYIEEDKNIEIFVDVPEYPITKAEIRDLVLGFMLKTYTFDQYKTKKRESSSPRSKENISVTIVTEMIQQS  164 (494)
Q Consensus        85 ~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~  164 (494)
                      +.++....++|++...+++.+.+.-.  ...-+..-+|..|+    |      +-|...         .+....- ....
T Consensus        35 ~~~~~iq~aarkl~~qgi~~v~l~g~--~w~~e~~waf~qgf----~------~~k~~~---------~~~~~~l-~~~~   92 (424)
T PRK05015         35 DDLGLIQRAARKLDGQGIKQVALAGE--GWDLERCWAFWQGF----R------TPKGTR---------KVEWPDL-DDAQ   92 (424)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCC--CCCHHHHHHHHHCC----C------CCCCCC---------EEECCCC-CHHH
T ss_conf             73799999998765268441686167--66688878988514----4------678884---------3436878-9889


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HC---CCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEE
Q ss_conf             9999999999999998642021254030299999999986-11---3321000011100013458988742025778506
Q gi|254780392|r  165 SQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ES---LGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYL  240 (494)
Q Consensus       165 ~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~---~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prl  240 (494)
                      +   ++..+-.+++.++|||+|+|||+++|+.||++|.++ ++   ..++++|+++++|+++|||+|++|||||.+||||
T Consensus        93 ~---~~l~~~~~~~~~~R~liN~p~~~l~P~~lA~~a~~~~~~~~~~~v~~~ii~ge~L~e~G~gGi~aVG~GS~~pPrl  169 (424)
T PRK05015         93 Q---AELDARLKIIDWVRDTINAPAEELGPEQLAQRAADLISSVAGDAVSYRIIKGEDLREQGYMGIHTVGRGSERPPVL  169 (424)
T ss_pred             H---HHHHHHHHHHHHHHHHHCCCHHHCCHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHCCCCCEEEECCCCCCCCEE
T ss_conf             9---9999999999999987459946649999999999999873646547999617999867984136664778999868


Q ss_pred             EEEECCCCCCCCCCE--EEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCC
Q ss_conf             886205788656512--663021120066310033332002322112356899999999870878728998641026689
Q gi|254780392|r  241 AVMKWEGGDSEEQPL--AFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPG  318 (494)
Q Consensus       241 i~l~Y~g~~~~~~pi--aLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~  318 (494)
                      |+|+|+|.++.++|+  ||||||||||||||||||+.+|++||+||||||+|+|+|.+++++++|+||++++|++|||||
T Consensus       170 v~L~Y~P~g~~~a~v~~aLVGKGITFDSGGlsLKps~~M~~MK~DMgGAAaV~ga~~~a~~~~l~~~V~~il~~aENm~s  249 (424)
T PRK05015        170 LALDYNPTGDPDAPVSACLVGKGITFDSGGYSIKPSAGMDSMKSDMGGAATVTGALALAITRGLNKRVKLFLCCAENLIS  249 (424)
T ss_pred             EEEEECCCCCCCCCCEEEEECCCEEEECCCCCCCCCCCHHHHHCCCHHHHHHHHHHHHHHHCCCCCEEEEEEEEECCCCC
T ss_conf             99996689987775218997662107089867376231545146552799999999999972999608999885505778


Q ss_pred             CCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHH
Q ss_conf             99747077630248958886347866403652367887520796135521112002354317760578708989999999
Q gi|254780392|r  319 SSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLL  398 (494)
Q Consensus       319 ~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~  398 (494)
                      |+|||||||||+||||||||.||||||||||||+|+||+ +++|+.|||+|||||||++|||.+++|+|||||+++++++
T Consensus       250 g~A~rPGDVit~~nGkTVEI~NTDAEGRLVLADaL~yA~-~~~p~~IID~ATLTGA~~vALG~~~aglfsndd~l~~~l~  328 (424)
T PRK05015        250 GNAFKLGDIITYKNGKTVEVMNTDAEGRLVLADGLIDAS-EQGAPLIIDAATLTGAAKMALGNDYHALFSFDDELAQRLL  328 (424)
T ss_pred             CCCCCCHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHH-HHCCCEEEEECCCHHHHHHHCCCCCEEEECCCHHHHHHHH
T ss_conf             778883888976399779984488502320288999987-4099789872220788998718654145439999999999


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCC--CCCHHHHHHHHHHHHHCCC--CCEEEEEEEECCCCCCCCCCCCC
Q ss_conf             9899856971767768678886179864170188--8746799999999872388--67699940000116788888899
Q gi|254780392|r  399 SSGLSTGELLWRMPMNEEYNKLIESKFADMKNIG--GRGAGSIVAAQFLEKFVQD--ASWAHIDIAGVATGGYPKEINQS  474 (494)
Q Consensus       399 ~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~--~~~~g~~~aa~fl~~f~~~--~~w~HlDiag~a~~~~~~~~~~~  474 (494)
                      ++++.+||++|||||+++|+++++|++|||+|++  ++.||+||||+||+|||++  .||+||||||+ |.++++++.|+
T Consensus       329 ~a~~~~gE~~W~lPL~~~y~~~l~S~vADl~N~~~g~~~~Ga~tAA~FL~~FV~d~~~~W~HlDIAGt-~~~~~~~~~~~  407 (424)
T PRK05015        329 ASAAQENEPFWRLPLAEFHRSQLPSNFADLANSGSGAYAAGASTAAGFLSHFVENYQQGWLHIDCSAT-YRKSAVDLWAA  407 (424)
T ss_pred             HHHHHCCCCEECCCCCHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCC-CCCCCCCCCCC
T ss_conf             99997089567288998899677998210106889999534899999999980899998899985545-76689988999


Q ss_pred             CCCCCCHHHHHHHHHH
Q ss_conf             8654358999999997
Q gi|254780392|r  475 WASGFGVRLLDEFVRA  490 (494)
Q Consensus       475 g~tg~~vr~l~~~~~~  490 (494)
                      |+||||||||++||.+
T Consensus       408 GaTG~GVRtL~~~L~~  423 (424)
T PRK05015        408 GATGLGVRTIANLLLA  423 (424)
T ss_pred             CCEEHHHHHHHHHHHH
T ss_conf             9760759999999840


No 6  
>KOG2597 consensus
Probab=100.00  E-value=0  Score=865.35  Aligned_cols=468  Identities=32%  Similarity=0.480  Sum_probs=397.2

Q ss_pred             CCCCCEEEEEECCCCCCC--------CCCCCCCCHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHC-
Q ss_conf             776771699962686632--------22212388889999998089983678789984378887445999944881558-
Q gi|254780392|r   12 SIKQEGLAILLKTSFSDV--------AGLSLIGSPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDA-   82 (494)
Q Consensus        12 ~~~~d~lvV~~~~~~~~~--------~~~~~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~-   82 (494)
                      ....+.++|.+.+...+.        ....+....+.+...++..+++++.|+...+..+. ....++.++|+|++... 
T Consensus        22 ~~~~~~lvVG~~~~~~~~~~~~~~~~~~~~d~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~-~~~~~~a~vg~gk~~~~~  100 (513)
T KOG2597          22 EAKADGLVVGVYSKEGDKKSKKKTPAGEKFDDKLGGKLIELIRESGVDGKLGYGRVLELVD-PEYDVVAVVGLGKEGAGP  100 (513)
T ss_pred             CCCCCEEEEEEECCCCCCCCCCCCCCHHHCCCCCCCCHHEEEECCCCCCCCCEEEEEEECC-CCCCHHHHHHHHHHHCCC
T ss_conf             4448558998740001232000154112215534663011442578888643036898137-775510124666643276


Q ss_pred             ------C--HH-HHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             ------9--99-99999999998531697489941778999989999999999714777544443643332321000133
Q gi|254780392|r   83 ------N--FS-WLKAGGSIASYIEEDKNIEIFVDVPEYPITKAEIRDLVLGFMLKTYTFDQYKTKKRESSSPRSKENIS  153 (494)
Q Consensus        83 ------~--~~-~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~~~~~~~~  153 (494)
                            .  .+ .+.+.+..++.+.......+.++.+     ....++.++|..|+.|+|+.+|++++....++.     
T Consensus       101 ~~~~~~~e~~~~v~~a~~~~~~al~~~~~~~~~v~s~-----~~~~e~aa~g~~l~~~~~~~~~~~~~~~~~~~i-----  170 (513)
T KOG2597         101 NAKEGLDEGMEFVRVAARFGARALVLALGRLVPVYSP-----MDYAEQAAEGAALALWRYNRNKSKKNRPSLPKI-----  170 (513)
T ss_pred             CHHHHCCCHHHHHHHHCCCCHHHHHHHHCCEEECCCC-----CCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEE-----
T ss_conf             4032114124554553042068999733433111342-----235888642453221223332221345454226-----


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHHHHHHHHHHHC
Q ss_conf             322457737899999999999999998642021254030299999999986-1133210000111000134589887420
Q gi|254780392|r  154 VTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKLGMNALLAVAQ  232 (494)
Q Consensus       154 i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~klGMg~llaVgq  232 (494)
                       .+....  ...+.++++...++++|+||+|+++|+|.|||..|+++++.+ ++.+++++|.+++|+++++||+|++|++
T Consensus       171 -~~~~~~--~~~~~~k~~~~~~~~~~lar~l~d~PaN~Mtp~~fae~a~~~~~~~~v~v~V~~~~~i~~~~~~~~l~V~k  247 (513)
T KOG2597         171 -DLYGSG--DGEDAWKRGLFKAAAQNLARRLGDTPANRMTPTQFAEEAVDVLCPLGVTVEVRDEEWIEEQGMNSFLAVAK  247 (513)
T ss_pred             -EEECCC--CCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHCCCCCEEEEECHHHHHHCCCCCEEEECC
T ss_conf             -641687--61178888888877888887752488100688899999998613247428994247776544650023214


Q ss_pred             CCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEE
Q ss_conf             25778506886205788656512663021120066310033332002322112356899999999870878728998641
Q gi|254780392|r  233 GSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLAL  312 (494)
Q Consensus       233 GS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~  312 (494)
                      ||++||+|++++|+|.++.++||+||||||||||||+||||+.+|++||.||+|||+|+|+|+++++|++|+|+++++|+
T Consensus       248 ~s~~pP~ll~lsY~g~~~~~~~i~lvGKGvtfDsGGl~iK~~~~M~~mr~dm~GAA~v~~~~~a~~~l~~~in~~~v~pl  327 (513)
T KOG2597         248 ASCEPPRLLELSYKGTSGADKTILLVGKGVTFDSGGLSIKPKTGMDGMRRDMGGAAVVLGAFRAAAQLSLPINVHAVLPL  327 (513)
T ss_pred             CCCCCCEEEEEEECCCCCCCCEEEEEECCEEEECCCCCCCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCEEEEEEE
T ss_conf             56889879999962898775527998421587358720257777566532124627999999999861899752799750


Q ss_pred             CCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHH
Q ss_conf             02668999747077630248958886347866403652367887520796135521112002354317760578708989
Q gi|254780392|r  313 VENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDV  392 (494)
Q Consensus       313 ~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~  392 (494)
                      |||||||+|||||||||++|||||||.||||||||||||+|+||+++|+|++|+|+||||||+.+|||..++|+|+|++.
T Consensus       328 cENm~sg~A~kpgDVit~~nGKtveI~NTDAEGRLiLADaL~Ya~~~~~~~~I~d~aTLTGa~~ialG~~~~gi~Tns~~  407 (513)
T KOG2597         328 CENMPSGNATKPGDVITLRNGKTVEINNTDAEGRLVLADALLYAQETLKPKLIVDIATLTGAMRIALGEGAAGIFTNSEE  407 (513)
T ss_pred             ECCCCCCCCCCCCCEEEECCCCEEEECCCCCCCEEEECCHHHHHHHHCCCCEEEEECHHHHHHHHHCCCCEEEEECCHHH
T ss_conf             00588755789874788127867875144765538950277886651399889982000225676527640688728399


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCHHHHHHH-CCCCCCEECCCC-CCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCC-CCC
Q ss_conf             99999998998569717677686788861-798641701888-746799999999872388676999400001167-888
Q gi|254780392|r  393 LAEQLLSSGLSTGELLWRMPMNEEYNKLI-ESKFADMKNIGG-RGAGSIVAAQFLEKFVQDASWAHIDIAGVATGG-YPK  469 (494)
Q Consensus       393 ~~~~~~~a~~~~ge~~w~lPl~~~y~~~~-~s~~AD~~n~~~-~~~g~~~aa~fl~~f~~~~~w~HlDiag~a~~~-~~~  469 (494)
                      ||+++++||..+|||+||||||.+|..++ ++..+|++|++. +.+++||||+||++||++..|+|||||||...+ ...
T Consensus       408 l~k~~~~Ag~~tGD~vwrmplf~~~~~~v~~~~~~D~~n~g~~~~s~~~~aAAfL~~~v~~~~W~HlDiag~~~~~~~~~  487 (513)
T KOG2597         408 LWKRLQKAGIETGDRVWRMPLFSYYYKAVADSGLADLNNTGSGRASRSCTAAAFLKEFVPCLDWAHLDIAGPGHTDIGGT  487 (513)
T ss_pred             HHHHHHHHHHHHCCCEEECHHHHHHHHHHHCCCHHHHCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCEECCCCCC
T ss_conf             99999997776198233216899999987414123321478888762147999997505764146530357400178888


Q ss_pred             CCCCCC-CCCCCHHHHHHHHHHHCC
Q ss_conf             888998-654358999999997668
Q gi|254780392|r  470 EINQSW-ASGFGVRLLDEFVRAFYE  493 (494)
Q Consensus       470 ~~~~~g-~tg~~vr~l~~~~~~~~~  493 (494)
                      +|..++ +||||+|||+||+.++-.
T Consensus       488 ~y~~~~~mTg~p~~Tlve~l~q~s~  512 (513)
T KOG2597         488 PYLHKGLMTGRPTRTLVEFLYQMSC  512 (513)
T ss_pred             CCCCCCCCCCCCCEEHHHHHHHHCC
T ss_conf             6644456468974136999997538


No 7  
>pfam02789 Peptidase_M17_N Cytosol aminopeptidase family, N-terminal domain.
Probab=99.69  E-value=3.2e-16  Score=134.49  Aligned_cols=118  Identities=23%  Similarity=0.314  Sum_probs=100.0

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHCCHH-HHHHHHHHHHHHHHCC
Q ss_conf             268663222212388889999998089983678789984378887445999944881558999-9999999999853169
Q gi|254780392|r   23 KTSFSDVAGLSLIGSPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDANFS-WLKAGGSIASYIEEDK  101 (494)
Q Consensus        23 ~~~~~~~~~~~~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~~~~-~~ra~a~~~~~l~~~~  101 (494)
                      ...+.+.....+....+.|+++++..+|+||.||++.++.+++...+||++||||+.++++.+ .+++++++++.+++.+
T Consensus         7 ~~~l~~~~~~ld~~~~g~i~~~~~~~~f~Gk~G~~~~l~~~~~~~~~rillvGlG~~~~~~~~~~r~a~~~~~~~l~~~~   86 (126)
T pfam02789         7 DGKLSPAAEKLDEALDGLLSELLKEGDFSGKAGETLLLPSLPGVKAKRVLLVGLGKEEELSAEALRKAAGAAARALKGLK   86 (126)
T ss_pred             CCCCCHHHHHHHHHHCCHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCC
T ss_conf             98668799998698551999999838998777728998578998744899997156553167999999999999997489


Q ss_pred             CEEEEECCCCCCCC-HHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             74899417789999-8999999999971477754444364
Q gi|254780392|r  102 NIEIFVDVPEYPIT-KAEIRDLVLGFMLKTYTFDQYKTKK  140 (494)
Q Consensus       102 ~~~v~i~l~~~~~~-~~~~~~~~eG~~L~~Y~Fd~yKskk  140 (494)
                      .+++.+.+++.... .+.+++++||+.|++|+||+|||+|
T Consensus        87 ~~~i~~~l~~~~~~~~~~~~~~aeg~~L~~Y~f~~ykskk  126 (126)
T pfam02789        87 VKTVAVDLPTLNIDAAEDARAAAEGALLGAYRFDRYKSKK  126 (126)
T ss_pred             CCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCC
T ss_conf             8779998787787849999999999997447467546798


No 8  
>PRK06837 acetylornithine deacetylase; Provisional
Probab=95.33  E-value=0.28  Score=29.05  Aligned_cols=135  Identities=16%  Similarity=0.208  Sum_probs=73.8

Q ss_pred             HHHHHHHHHHCCCCCEEECHHHHHHHHHH-HHCCCCCHHHHCCC--CCCHH-HHHHHHHHHCCCCCCCEEEEEECCCCCC
Q ss_conf             99999864202125403029999999998-61133210000111--00013-4589887420257785068862057886
Q gi|254780392|r  175 VKGVNLARDIINEPANVLGTDEFCKQVRK-LESLGVAVEILDKE--AMHKL-GMNALLAVAQGSSRPPYLAVMKWEGGDS  250 (494)
Q Consensus       175 aegv~lARDLvN~PaN~ltP~~lA~~a~~-l~~~gl~v~Vld~~--~L~kl-GMg~llaVgqGS~~~Prli~l~Y~g~~~  250 (494)
                      .+-+.|+++|+..|+.-=.-...++.+.+ |++.|++++.+..+  .+... |++-   +.-+.+..| -|+-.|+++..
T Consensus        20 de~v~ll~~Lv~ipS~~g~e~~~~~~l~~~l~~~G~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-nvv~~~~~~~~   95 (427)
T PRK06837         20 DAQVAFTQDLVRFPSTRGAEAPCQDFLADAFRARGYEVDRFHIDVDDLADHPGAGP---IEIDYSGAP-IVVGTYRPSTG   95 (427)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHCCCCCC---CCCCCCCCC-EEEEEECCCCC
T ss_conf             88999999996899969764999999999999779936997516355542467675---332346775-08998347899


Q ss_pred             CCCCEEEEECCEEECCCCCC----------CCC----CCCCHHHHHHHHHHHHHHHHHHHHHHCCC--CCCEEEEEEECC
Q ss_conf             56512663021120066310----------033----33200232211235689999999987087--872899864102
Q gi|254780392|r  251 EEQPLAFIGKGVVFDTGGIS----------IKP----SHGMEEMKGDLGGAAAVTGLLHVLAERKA--KINAIGVLALVE  314 (494)
Q Consensus       251 ~~~piaLVGKGvTFDtGGis----------lKp----~~~M~~Mk~DM~GaAav~g~~~aia~l~~--~v~v~~~~~~~E  314 (494)
                      ..+++.|-|-==|...|-.+          ++-    +.|--+||   ||-|+.+-+++++.+++.  +-+|+.....=|
T Consensus        96 ~G~~l~l~gH~DvVP~g~~~~W~~dPF~~~i~dg~lyGRGa~DmK---gg~aa~l~A~~~l~~~~~~~~~~i~l~~v~dE  172 (427)
T PRK06837         96 TGRSLILQGHIDVVPEGPLEMWSTPPFEPVIRDGWMYGRGAQDMK---AGLAAMLFALDAIRAAGLAPAARVHFQSVVEE  172 (427)
T ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCEEEECCEEECCCHHHCC---HHHHHHHHHHHHHHHHCCCCCCCEEEEEEECC
T ss_conf             998899926887069998766746997509989999857757502---10899999999999728898997789985323


Q ss_pred             CC
Q ss_conf             66
Q gi|254780392|r  315 NM  316 (494)
Q Consensus       315 N~  316 (494)
                      -.
T Consensus       173 E~  174 (427)
T PRK06837        173 ES  174 (427)
T ss_pred             CC
T ss_conf             33


No 9  
>PRK06915 acetylornithine deacetylase; Validated
Probab=94.82  E-value=0.38  Score=28.08  Aligned_cols=135  Identities=19%  Similarity=0.236  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHCCCCCEEECHHHHHHHHHH-HHCCCCCHHHHCCC--CCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCC
Q ss_conf             99999864202125403029999999998-61133210000111--0001345898874202577850688620578865
Q gi|254780392|r  175 VKGVNLARDIINEPANVLGTDEFCKQVRK-LESLGVAVEILDKE--AMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSE  251 (494)
Q Consensus       175 aegv~lARDLvN~PaN~ltP~~lA~~a~~-l~~~gl~v~Vld~~--~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~  251 (494)
                      .+-+.+.++||+.|+---.....++.+.+ |++.|++++++.-.  ++..  .+.+.+.-..-..-| =|+-+++|.++ 
T Consensus        17 ~e~i~ll~~LV~i~S~sg~e~~~~~~i~~~l~~~G~~~e~~~~~~~~~~~--~~~~~~~~~~~~~~~-nvia~~~g~~~-   92 (422)
T PRK06915         17 EESVKLLKRLIQEKSVSGDESGAQAIVIEKLRELGLDLDIWEPSFSKLKD--HPYFVSPRTSFSDSP-NIVATLKGSGD-   92 (422)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHCC--CCCCCCCCCCCCCCC-EEEEEECCCCC-
T ss_conf             98999999995799989787889999999999779958863124101024--764334444568887-49999668899-


Q ss_pred             CCCEEEEECCEEECCC---CCCCCC-----------CCCCHHHHHHHHHHHHHHHHHHHHHHCCCC--CCEEEEEEECCC
Q ss_conf             6512663021120066---310033-----------332002322112356899999999870878--728998641026
Q gi|254780392|r  252 EQPLAFIGKGVVFDTG---GISIKP-----------SHGMEEMKGDLGGAAAVTGLLHVLAERKAK--INAIGVLALVEN  315 (494)
Q Consensus       252 ~~piaLVGKGvTFDtG---GislKp-----------~~~M~~Mk~DM~GaAav~g~~~aia~l~~~--v~v~~~~~~~EN  315 (494)
                      .+.+.|.|-==|-..|   +-+-.|           +.|-.+||   ||-|+.+-+++++.+.+.+  .+|+.+.-.-|-
T Consensus        93 g~~lll~gH~DvVP~gd~~~W~~~PF~~~i~dg~lyGRGa~DmK---gg~aa~l~a~~~l~~~g~~~~~~v~~~~~~dEE  169 (422)
T PRK06915         93 GKSMILNGHIDVVPEGDVKQWDHHPYSGERIGGRIYGRGTTDMK---GGNVALMLAMEALIESGIELKGDIYFQSVIEEE  169 (422)
T ss_pred             CCEEEEECCCCCCCCCCCCCCCCCCCCCEEECCEEECCCCCCCC---CCHHHHHHHHHHHHHCCCCCCCCEEEEEEEEEC
T ss_conf             98899968778679998665768998758879999767865555---419999999999997099999982799998542


Q ss_pred             C
Q ss_conf             6
Q gi|254780392|r  316 M  316 (494)
Q Consensus       316 ~  316 (494)
                      .
T Consensus       170 ~  170 (422)
T PRK06915        170 S  170 (422)
T ss_pred             C
T ss_conf             3


No 10 
>PRK07522 acetylornithine deacetylase; Provisional
Probab=91.03  E-value=1.4  Score=24.20  Aligned_cols=40  Identities=13%  Similarity=0.299  Sum_probs=25.4

Q ss_pred             HHHHHHHHHCCCCCEEECHH-HHHHHHHH-HHCCCCCHHHHC
Q ss_conf             99998642021254030299-99999998-611332100001
Q gi|254780392|r  176 KGVNLARDIINEPANVLGTD-EFCKQVRK-LESLGVAVEILD  215 (494)
Q Consensus       176 egv~lARDLvN~PaN~ltP~-~lA~~a~~-l~~~gl~v~Vld  215 (494)
                      +.+.+.|+||.-|+---.++ ..++..++ |++.|++++++.
T Consensus         6 ~~v~ll~~LV~i~Svs~~~~~~~~~~l~~~l~~~G~~~~~~~   47 (387)
T PRK07522          6 SSLDILERLVAFDTVSRDSNLALIEWVRDYLAAHGIESELIH   47 (387)
T ss_pred             CHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             899999998099895998459999999999997799189997


No 11 
>PRK13013 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=89.17  E-value=1.4  Score=24.17  Aligned_cols=125  Identities=22%  Similarity=0.241  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHCCCCCEE---ECHHHHHHHHHH-HHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEE-EEEECCCCC
Q ss_conf             99999864202125403---029999999998-6113321000011100013458988742025778506-886205788
Q gi|254780392|r  175 VKGVNLARDIINEPANV---LGTDEFCKQVRK-LESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYL-AVMKWEGGD  249 (494)
Q Consensus       175 aegv~lARDLvN~PaN~---ltP~~lA~~a~~-l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prl-i~l~Y~g~~  249 (494)
                      .+=+.+.|+||..|+=-   ......++...+ |++.|+++++++..-.          .|.. ..-||. ++.+++|+.
T Consensus        14 de~v~ll~~LV~ipSv~p~g~~~~~~a~~l~~~l~~~G~~~~~~~~~g~----------~g~~-~~~~r~Nlva~~~g~~   82 (427)
T PRK13013         14 DDLVALTQDLIRIPTLNPPGRNYREICEMLAARLAPRGFEVELIRAHGA----------PGDS-ETYPRWNLVARRQGAR   82 (427)
T ss_pred             HHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCC----------CCCC-CCCCCEEEEEEECCCC
T ss_conf             8799999999589998989959899999999999977994899965788----------7754-5565237999967999


Q ss_pred             CCCCCEEE--------EECCEEECCCCCCCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHCCCC--CCEEEEEEECC
Q ss_conf             65651266--------3021120066310033----332002322112356899999999870878--72899864102
Q gi|254780392|r  250 SEEQPLAF--------IGKGVVFDTGGISIKP----SHGMEEMKGDLGGAAAVTGLLHVLAERKAK--INAIGVLALVE  314 (494)
Q Consensus       250 ~~~~piaL--------VGKGvTFDtGGislKp----~~~M~~Mk~DM~GaAav~g~~~aia~l~~~--v~v~~~~~~~E  314 (494)
                      . .+.|.|        +|.|=|+|-=+-.+|-    +.|-.+||   ||-|+.+-+++++.+++++  -+|+.+...-|
T Consensus        83 ~-~~~l~l~gH~DvVp~gd~W~~dPf~~~i~dg~lYGRGa~DmK---gg~aa~l~A~~~l~~~~~~~~g~v~~~~~~dE  157 (427)
T PRK13013         83 P-GDCVHFNSHHDVVEVGHGWTRDPFGGEVEDGRIYGRGACDMK---GGLAASIIAAEAFIAVYPDFAGAIEISATADE  157 (427)
T ss_pred             C-CCEEEEECCCCCCCCCCCCCCCCCCCEEECCEEECCCCCCCC---CCHHHHHHHHHHHHHHCCCCCCEEEEEEEECC
T ss_conf             9-877999688586389998877999767889999876620036---86799999999999746566861899999633


No 12 
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand  is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=88.53  E-value=0.16  Score=30.70  Aligned_cols=51  Identities=20%  Similarity=0.342  Sum_probs=36.4

Q ss_pred             EEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEE
Q ss_conf             99864102668999747077630248958886347866403652367887520796135521
Q gi|254780392|r  307 IGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDL  368 (494)
Q Consensus       307 ~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~  368 (494)
                      +-+....+|+|...+.++||||++-+|+.|.=          ..|-..|. ...+|---|.+
T Consensus        10 v~V~~V~~gsPA~~~Lk~GDvI~~vdGk~v~~----------~~~l~~~i-~~~~~Gd~V~l   60 (79)
T cd00986          10 VYVTSVVEGMPAAGKLKAGDHIIAVDGKPFKE----------AEELIDYI-QSKKEGDTVKL   60 (79)
T ss_pred             EEEEEECCCCCHHHCCCCCCEEEEECCEECCC----------HHHHHHHH-HCCCCCCEEEE
T ss_conf             89999679997377077899999999989579----------99999999-65999998999


No 13 
>PRK13004 peptidase; Reviewed
Probab=85.33  E-value=3.1  Score=21.70  Aligned_cols=115  Identities=16%  Similarity=0.224  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHCCCCCEEECHHHHHHHHHH-HHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEEC---CCCCC
Q ss_conf             99999864202125403029999999998-611332100001110001345898874202577850688620---57886
Q gi|254780392|r  175 VKGVNLARDIINEPANVLGTDEFCKQVRK-LESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKW---EGGDS  250 (494)
Q Consensus       175 aegv~lARDLvN~PaN~ltP~~lA~~a~~-l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y---~g~~~  250 (494)
                      .+-+.+.++||..|+--..-...++..++ |++.|++....|       ++|-+++.-.+  .+|+++..-+   -|.+.
T Consensus        15 ~e~v~ll~~LV~ipS~sg~E~~~a~~l~~~l~~~G~~~~~~d-------~~~nv~a~~~~--g~~~ill~gH~DvVP~g~   85 (397)
T PRK13004         15 ADMTRFLRDLIAIPSESGDEKRVVHRIKEEMEKVGFDKVEID-------PMGNVLGYIGH--GKRLIAMDAHIDTVGVGD   85 (397)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEC-------CCCEEEEEECC--CCCEEEEECCCCCCCCCC
T ss_conf             999999999818999498999999999999987799779988-------99709999589--997799987517889998


Q ss_pred             -C---CCCEEE-EECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf             -5---651266-30211200663100333320023221123568999999998708787289986
Q gi|254780392|r  251 -E---EQPLAF-IGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVL  310 (494)
Q Consensus       251 -~---~~piaL-VGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~  310 (494)
                       .   ..|... +--|.-|         +.|-.+||   ||.|+.+.+++++.+++++.+..-++
T Consensus        86 ~~~W~~dPf~~~~~dg~ly---------GRGa~DmK---g~~aa~l~A~~~l~~~~~~~~~~l~~  138 (397)
T PRK13004         86 IKNWDFDPFEGMETDGRIY---------GRGTSDQK---GGMASMVYAGKIIKDLGLEDEYTLYV  138 (397)
T ss_pred             CCCCCCCCCCCEEECCEEE---------ECCCCCCC---CCHHHHHHHHHHHHHCCCCCCCEEEE
T ss_conf             6668569966589899999---------46865454---64899999999999629999826999


No 14 
>PRK04443 acetyl-lysine deacetylase; Provisional
Probab=83.32  E-value=3.7  Score=21.12  Aligned_cols=36  Identities=22%  Similarity=0.294  Sum_probs=15.3

Q ss_pred             HHHHHHHHCCCCCEEECHHHHHHHHHH-HHCCCCCHH
Q ss_conf             999864202125403029999999998-611332100
Q gi|254780392|r  177 GVNLARDIINEPANVLGTDEFCKQVRK-LESLGVAVE  212 (494)
Q Consensus       177 gv~lARDLvN~PaN~ltP~~lA~~a~~-l~~~gl~v~  212 (494)
                      .+.|.++|+..|+---.-...|+...+ |++.|+++.
T Consensus         8 ~v~ll~~Li~i~S~sg~E~~~a~~l~~~l~~~G~~~~   44 (352)
T PRK04443          8 AVELLKRLVEIPSPSGKEAEAAEFLVEFMESLGFDAF   44 (352)
T ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCEE
T ss_conf             9999999829999194889999999999986899269


No 15 
>PRK07906 hypothetical protein; Provisional
Probab=78.31  E-value=5.4  Score=19.97  Aligned_cols=14  Identities=7%  Similarity=-0.002  Sum_probs=7.4

Q ss_pred             HHHHHHHHCCCCCC
Q ss_conf             89999998089983
Q gi|254780392|r   39 SIVMRAVSVKNFIG   52 (494)
Q Consensus        39 ~~L~~~i~~~~F~G   52 (494)
                      ..|.++++..+|+-
T Consensus        40 ~~l~~~l~~~G~~~   53 (437)
T PRK07906         40 EYVAEQLAEVGLEP   53 (437)
T ss_pred             HHHHHHHHHCCCCE
T ss_conf             99999999779957


No 16 
>PRK05111 acetylornithine deacetylase; Provisional
Probab=75.43  E-value=6.4  Score=19.44  Aligned_cols=12  Identities=25%  Similarity=0.517  Sum_probs=6.7

Q ss_pred             CHHHHHHHHHHH
Q ss_conf             589999999976
Q gi|254780392|r  480 GVRLLDEFVRAF  491 (494)
Q Consensus       480 ~vr~l~~~~~~~  491 (494)
                      .++.+.++|++|
T Consensus       369 ~~~i~~~~I~~f  380 (383)
T PRK05111        369 TRELLRQLIHHF  380 (383)
T ss_pred             HHHHHHHHHHHH
T ss_conf             999999999987


No 17 
>TIGR01910 DapE-ArgE acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; InterPro: IPR010182   This group of sequences contains annotations for both acetylornithine deacetylase and succinyl-diaminopimelate desuccinylase, but does not contain any members with experimental characterization. Bacillus, Staphylococcus and Sulfolobus species contain multiple hits to this subfamily and each may have a separate activity. Determining which is which must await further laboratory research.; GO: 0009014 succinyl-diaminopimelate desuccinylase activity, 0046872 metal ion binding, 0009085 lysine biosynthetic process.
Probab=75.06  E-value=6.6  Score=19.37  Aligned_cols=90  Identities=13%  Similarity=0.164  Sum_probs=48.1

Q ss_pred             CCH-HHHCCCCCCHHHHHHHHHHHCCCCC------CCEEEEEECCCCCCCCCCEEEEECCEEECCCCCCCCC-CCCCHHH
Q ss_conf             210-0001110001345898874202577------8506886205788656512663021120066310033-3320023
Q gi|254780392|r  209 VAV-EILDKEAMHKLGMNALLAVAQGSSR------PPYLAVMKWEGGDSEEQPLAFIGKGVVFDTGGISIKP-SHGMEEM  280 (494)
Q Consensus       209 l~v-~Vld~~~L~klGMg~llaVgqGS~~------~Prli~l~Y~g~~~~~~piaLVGKGvTFDtGGislKp-~~~M~~M  280 (494)
                      +.+ .|.||++- .-|.|+...+-||-..      ++-.+++.=-++.+ ...++.==||+.-=.=...=|. .++|.  
T Consensus       144 ~~l~~V~dEE~~-~g~~G~~~~~~~G~~~~faivaD~d~~li~EPsgek-~~~~~~~~kG~~~~~~~v~Gk~~H~s~p--  219 (427)
T TIGR01910       144 IILQAVVDEEET-SGEAGTLYLLQKGYFKDFAIVADADGVLIPEPSGEK-GDKIVIGQKGSIWFKVKVKGKQAHASTP--  219 (427)
T ss_pred             EEEEEECCHHCC-CCCHHHHHHHHHHHHHCCEEECCHHHEEECCCCCCC-CCEEEEEEEEEEEEEEEEEEEEECCCCC--
T ss_conf             799885370105-522568999997654134233472000743888876-5525665313689999962023024576--


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             2211235689999999987087872
Q gi|254780392|r  281 KGDLGGAAAVTGLLHVLAERKAKIN  305 (494)
Q Consensus       281 k~DM~GaAav~g~~~aia~l~~~v~  305 (494)
                         --|.=|+.-+++.+.+|+==..
T Consensus       220 ---~~G~nAi~~~~k~~~~l~~~~~  241 (427)
T TIGR01910       220 ---EEGVNAIEKLAKLITELEELEE  241 (427)
T ss_pred             ---CCHHHHHHHHHHHHHHHHHHHH
T ss_conf             ---5238899999999999988876


No 18 
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=72.02  E-value=1.7  Score=23.44  Aligned_cols=59  Identities=20%  Similarity=0.346  Sum_probs=39.2

Q ss_pred             HCCCC-CCEEEEEEECCCCCCCCC-CCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEE
Q ss_conf             70878-728998641026689997-47077630248958886347866403652367887520796135521
Q gi|254780392|r  299 ERKAK-INAIGVLALVENMPGSSA-QRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDL  368 (494)
Q Consensus       299 ~l~~~-v~v~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~  368 (494)
                      +++++ .+=+.+....+|.|..+| .+|||||+..||+.|+=.+          |-..+ ..+++|...+.+
T Consensus        17 ~~~~~~~~Gv~V~~V~~~spA~~aGl~~GDiI~~ing~~i~~~~----------~~~~~-l~~~~~g~~v~~   77 (90)
T cd00987          17 ELGLKDTKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVA----------DLRRA-LAELKPGDKVTL   77 (90)
T ss_pred             HCCCCCCCEEEEEEECCCCHHHHCCCCCCCEEEEECCEECCCHH----------HHHHH-HHHCCCCCEEEE
T ss_conf             84989997799999899995998299999899999999938999----------99999-982699987999


No 19 
>PRK13983 diaminopimelate aminotransferase; Provisional
Probab=71.62  E-value=7.9  Score=18.82  Aligned_cols=33  Identities=18%  Similarity=-0.065  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHHHHCCC--CCCEEEEEEECCCC
Q ss_conf             1235689999999987087--87289986410266
Q gi|254780392|r  284 LGGAAAVTGLLHVLAERKA--KINAIGVLALVENM  316 (494)
Q Consensus       284 M~GaAav~g~~~aia~l~~--~v~v~~~~~~~EN~  316 (494)
                      ++|-|+.+-+++++.+.+.  +.+|..+.-..|-.
T Consensus       120 Kgg~aa~l~A~~~l~~~~~~~~~~i~~~~~~dEE~  154 (399)
T PRK13983        120 GQGIVSSLLAAKALMELGIRPKYNLGLAFVSDEET  154 (399)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCC
T ss_conf             40389999999999984899997189998624035


No 20 
>PRK00466 acetyl-lysine deacetylase; Validated
Probab=71.06  E-value=8.1  Score=18.73  Aligned_cols=12  Identities=17%  Similarity=0.158  Sum_probs=5.2

Q ss_pred             HHHHHHHHCCCC
Q ss_conf             899999980899
Q gi|254780392|r   39 SIVMRAVSVKNF   50 (494)
Q Consensus        39 ~~L~~~i~~~~F   50 (494)
                      ..|.++++..+|
T Consensus        34 ~~l~~~l~~~g~   45 (345)
T PRK00466         34 DFFEKIASELNL   45 (345)
T ss_pred             HHHHHHHHHCCC
T ss_conf             999999998799


No 21 
>PRK13009 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=70.80  E-value=8.2  Score=18.70  Aligned_cols=16  Identities=13%  Similarity=0.061  Sum_probs=7.7

Q ss_pred             CHHHHHHHHHHHHHHC
Q ss_conf             9899999999899856
Q gi|254780392|r  390 NDVLAEQLLSSGLSTG  405 (494)
Q Consensus       390 ~~~~~~~~~~a~~~~g  405 (494)
                      .+++.+++.+.-+..+
T Consensus       264 ~e~v~~~i~~~~~~~~  279 (375)
T PRK13009        264 AESLKARVEAILDKHG  279 (375)
T ss_pred             HHHHHHHHHHHHHHCC
T ss_conf             9999999999998749


No 22 
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=69.11  E-value=2.5  Score=22.38  Aligned_cols=59  Identities=19%  Similarity=0.371  Sum_probs=43.8

Q ss_pred             CCEEEEEEECCCCCCC-CCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCH
Q ss_conf             7289986410266899-974707763024895888634786640365236788752079613552111200
Q gi|254780392|r  304 INAIGVLALVENMPGS-SAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTG  373 (494)
Q Consensus       304 v~v~~~~~~~EN~~~~-~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTG  373 (494)
                      ++=+-+....++.|.. .-.+|||||++.||+.|+          -+.|-..+. .+++|.--|.+-.|-+
T Consensus         9 ~~Gv~V~~V~~gsPA~~AGL~~GDVI~~Ing~~I~----------~~~d~~~~l-~~~~pG~~v~v~v~R~   68 (79)
T cd00991           9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPIT----------TLEDFMEAL-KPTKPGEVITVTVLPS   68 (79)
T ss_pred             CCCEEEEEECCCCHHHHCCCCCCCEEEEECCEECC----------CHHHHHHHH-HCCCCCCEEEEEEEEC
T ss_conf             59779999678996998699988899998999987----------999999999-6189999899999989


No 23 
>PRK07338 hypothetical protein; Provisional
Probab=67.86  E-value=9.4  Score=18.28  Aligned_cols=132  Identities=10%  Similarity=0.072  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHCCCCCEEECHHHHHHHHHH----HHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCC
Q ss_conf             99999864202125403029999999998----61133210000111000134589887420257785068862057886
Q gi|254780392|r  175 VKGVNLARDIINEPANVLGTDEFCKQVRK----LESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDS  250 (494)
Q Consensus       175 aegv~lARDLvN~PaN~ltP~~lA~~a~~----l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~  250 (494)
                      .+-+.+-++|||..+---+++-..+.+.-    |+..|++++.++.......+..+.    -+...-...++.+++|++ 
T Consensus        17 ~~~l~~l~~lV~i~S~S~~~~gv~~v~~~l~~~l~~lg~~v~~~~~~~~~~~~~~g~----~~~~~~g~~l~~~~~~~~-   91 (407)
T PRK07338         17 AAMVDQLHAWCAINSGSGNLDGLARMAETLADAFAALPGEIELITLPPVEVIDADGR----VVEQSHGPALHVRVRPEA-   91 (407)
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCC----CCCCCCCCEEEEEECCCC-
T ss_conf             999999999947889999999999999999999986799589971687432255675----233566866998626999-


Q ss_pred             CCCCEEEEECCEE-ECCCCCCCCC---------CCCCHHHHHHHHHHHHHHHHHHHHHHCCCC--CCEEEEEEECCC
Q ss_conf             5651266302112-0066310033---------332002322112356899999999870878--728998641026
Q gi|254780392|r  251 EEQPLAFIGKGVV-FDTGGISIKP---------SHGMEEMKGDLGGAAAVTGLLHVLAERKAK--INAIGVLALVEN  315 (494)
Q Consensus       251 ~~~piaLVGKGvT-FDtGGislKp---------~~~M~~Mk~DM~GaAav~g~~~aia~l~~~--v~v~~~~~~~EN  315 (494)
                       .++|.|.|-==| |-.|-.-=+|         +.|-.+||   +|-|+.+.+++++.+.+..  .+|..++-.-|-
T Consensus        92 -~~~lll~gH~DTV~p~g~~~~~~~~~~~grlyG~G~~DmK---gGla~~l~Al~al~~~~~~~~~~i~v~~t~DEE  164 (407)
T PRK07338         92 -PRQVLLTGHMDTVYPADHPFQTLSLLDDGTLNGPGVADMK---GGIAVMLAALAAFENSPLADRLGYDVLINSDEE  164 (407)
T ss_pred             -CCEEEEECCCCEECCCCCCCCCCEEECCCEEECCCCCCCC---CCHHHHHHHHHHHHHCCCCCCCCEEEEEEEEEC
T ss_conf             -8228998115666799986768547249989836702254---209999999999985687788748999973034


No 24 
>pfam00122 E1-E2_ATPase E1-E2 ATPase.
Probab=65.21  E-value=6.2  Score=19.56  Aligned_cols=64  Identities=27%  Similarity=0.296  Sum_probs=33.6

Q ss_pred             HHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCH
Q ss_conf             99998708787289986410266899974707763024895888634786640365236788752079613552111200
Q gi|254780392|r  294 LHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTG  373 (494)
Q Consensus       294 ~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTG  373 (494)
                      ++.+..+.++.-+..+=-=-+-.++.+-.+|||+|.-..|-+|-     |.||++            ..+..+|-+.|||
T Consensus        24 ~~~L~~l~p~~~~~V~rdG~~~~v~~~~l~~GDiv~v~~G~~IP-----aDg~vi------------~g~~~vdes~lTG   86 (222)
T pfam00122        24 LKALKKLLPPTAVTVIRDGKEEEIPADELVVGDIVLLKPGDRVP-----ADGRII------------EGSLEVDESALTG   86 (222)
T ss_pred             HHHHHHCCCCCEEEEEECCEEEEEEHHHCCCCCEEEECCCCEEE-----CCCEEE------------CCCEEEEEHHHCC
T ss_conf             99986249580189998999999888997889999989999962-----174575------------1838997222068


Q ss_pred             H
Q ss_conf             2
Q gi|254780392|r  374 A  374 (494)
Q Consensus       374 a  374 (494)
                      -
T Consensus        87 E   87 (222)
T pfam00122        87 E   87 (222)
T ss_pred             C
T ss_conf             6


No 25 
>TIGR02037 degP_htrA_DO protease Do; InterPro: IPR011782   Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes . They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence . Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases .   Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base . The geometric orientations of the catalytic residues are similar between families, despite different protein folds . The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) , .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This family consists serine peptidases belonging to MEROPS peptidase family S1, subfamily S1C (protease Do, clan PA(S)). They are variously designated DegP, DegQ, heat shock protein HtrA, MucD and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in Escherichia coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens . The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures .; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis.
Probab=64.54  E-value=1.7  Score=23.50  Aligned_cols=31  Identities=26%  Similarity=0.531  Sum_probs=14.7

Q ss_pred             EEEEEECCCCCCC-CCCCHHHHHCCCCCCEEE
Q ss_conf             9986410266899-974707763024895888
Q gi|254780392|r  307 IGVLALVENMPGS-SAQRPGDIVRSMSGQTIE  337 (494)
Q Consensus       307 ~~~~~~~EN~~~~-~a~~pgdvi~~~~G~tve  337 (494)
                      |.+.-...+.|.. .-.||||||.+-|++-|.
T Consensus       418 v~V~~v~~~s~Aa~~Gl~~GDvI~~vN~~~V~  449 (484)
T TIGR02037       418 VVVTKVVSGSPAARAGLQPGDVILSVNQQPVS  449 (484)
T ss_pred             EEEEEECCCCHHHHCCCCCCCEEEEECCCCCC
T ss_conf             89997338888997178766189950880146


No 26 
>PRK13034 serine hydroxymethyltransferase; Reviewed
Probab=63.83  E-value=11  Score=17.76  Aligned_cols=58  Identities=21%  Similarity=0.256  Sum_probs=27.3

Q ss_pred             CCCCEEEEEHHHHHH----HH-HCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHH
Q ss_conf             866403652367887----52-079613552111200235431776057870898999999998
Q gi|254780392|r  342 DAEGRLILADALWYC----RT-HYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSS  400 (494)
Q Consensus       342 DAEGRlvLaD~l~ya----~~-~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a  400 (494)
                      |.-|-++|+|.=..+    .. .-+|=---|+-|-|-+-. --|++-.-+|+||+++++++..|
T Consensus       196 d~vGA~l~~D~AHiaGLIA~g~~psP~~~ADvvT~TTHKT-LrGPrGGiIl~~~~el~~kId~a  258 (422)
T PRK13034        196 DSVGAILMVDMAHIAGLVAAGRHPNPVPHAHVVTTTTHKT-LRGPRGGMILTNDEEIAKKINSA  258 (422)
T ss_pred             HHHCCEEEECHHHHHHHHCCCCCCCCCCCCEEEECCCCCC-CCCCCCCEEECCHHHHHHHHHCC
T ss_conf             8729779811565545410333699877752886775147-78988435752669999986433


No 27 
>PRK10942 serine endoprotease; Provisional
Probab=61.25  E-value=2.4  Score=22.42  Aligned_cols=28  Identities=25%  Similarity=0.529  Sum_probs=17.1

Q ss_pred             EEECCCCCCCCC-CCHHHHHCCCCCCEEE
Q ss_conf             641026689997-4707763024895888
Q gi|254780392|r  310 LALVENMPGSSA-QRPGDIVRSMSGQTIE  337 (494)
Q Consensus       310 ~~~~EN~~~~~a-~~pgdvi~~~~G~tve  337 (494)
                      .-..+|.|..+| .|+||||++.||+.|+
T Consensus       317 ~~V~~~sPA~kAGL~~GDVI~~vdG~~I~  345 (474)
T PRK10942        317 SQVLPNSSAAKAGIKAGDVITSLNGKPIS  345 (474)
T ss_pred             EECCCCCCHHHCCCCCCCEEEEECCEECC
T ss_conf             20177993677699989999998998968


No 28 
>TIGR00093 TIGR00093 conserved hypothetical protein; InterPro: IPR000748   Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. Several bacterial proteins from the Rsu family of pseudouridine synthases  have been shown to share regions of similarities, including Escherichia coli and Haemophilus influenzae 16S pseudouridylate 516 synthase (gene rsuA); E. coli hypothetical proteins yciL and ymfC and the corresponding H. influenzae proteins HI1199 and HI0694 respectively; Aquifex aeolicus hypothetical proteins AQ_554 and AQ_1464; Bacillus subtilis hypothetical proteins ypuL and ytzF; Borrelia burgdorferi hypothetical protein BB0129; Helicobacter pylori hypothetical protein HP1459; and Synechocystis sp. (strain PCC 6803) hypothetical proteins slr0361 and slr0612. These are proteins of from 25 to 40 kD which contain a number of conserved regions in their central section.; GO: 0003723 RNA binding, 0004730 pseudouridylate synthase activity, 0001522 pseudouridine synthesis.
Probab=60.67  E-value=2.1  Score=22.91  Aligned_cols=30  Identities=23%  Similarity=0.354  Sum_probs=14.1

Q ss_pred             CEEEEECCCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             7489941778999989999999999714777
Q gi|254780392|r  102 NIEIFVDVPEYPITKAEIRDLVLGFMLKTYT  132 (494)
Q Consensus       102 ~~~v~i~l~~~~~~~~~~~~~~eG~~L~~Y~  132 (494)
                      .+++.|.+.+ ....+.++++.+|+.|..+.
T Consensus        67 eK~Y~V~v~g-~v~~~~~~~~~~Gv~L~~~~   96 (185)
T TIGR00093        67 EKTYLVTVEG-PVTDEDLEALRKGVQLEDGK   96 (185)
T ss_pred             CCEEEEEECC-CCCHHHHHHHHCCCEECCCC
T ss_conf             9669999559-85888998987176005873


No 29 
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=60.13  E-value=5.1  Score=20.17  Aligned_cols=62  Identities=27%  Similarity=0.254  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHH--HHCCCCCCEEEEECCCCCCEEEEEHHHHHHHH
Q ss_conf             211235689999999987087872899864102668999747077--63024895888634786640365236788752
Q gi|254780392|r  282 GDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGD--IVRSMSGQTIEVINTDAEGRLILADALWYCRT  358 (494)
Q Consensus       282 ~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgd--vi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~  358 (494)
                      .-|||+|.+--.++++..-..++.|...-.  -+.|.  -..+.|  |..||||-|-|.++           ++-.|.+
T Consensus         5 ~GmGGS~i~gd~l~~~~~~~~~vPv~v~rd--y~lP~--~v~~~~lvi~~S~SGnTeEtl~-----------~~~~a~~   68 (119)
T cd05017           5 LGMGGSGIGGDLLESLLLDEAKIPVYVVKD--YTLPA--FVDRKTLVIAVSYSGNTEETLS-----------AVEQAKE   68 (119)
T ss_pred             EECCHHHHHHHHHHHHHHCCCCCCEEEECC--CCCCC--CCCCCCEEEEECCCCCCHHHHH-----------HHHHHHH
T ss_conf             956388899999999970579988798489--98987--5587878999928979689999-----------9999998


No 30 
>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit; InterPro: IPR005726   ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (F-, V- and A-ATPases contain rotary motors) and in the type of ions they transport , .  F-ATPases (F1F0-ATPases) in mitochondria, chloroplasts and bacterial plasma membranes are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases) are primarily found in eukaryotic vacuoles, catalysing ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases) are found in Archaea and function like F-ATPases. P-ATPases (E1E2-ATPases) are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP.   A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases . A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore . The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C . A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species.    This entry represents the alpha subunit from the A1 complex of A-ATPases. The A1 complex contains three copies each of subunits alpha (or A) and beta (or B) (IPR005724 from INTERPRO), both of which form the headpiece that participates in nucleotide binding. However, only the alpha subunit is catalytic, the beta subunit being regulatory in function .   More information about this protein can be found at Protein of the Month: ATP Synthases .; GO: 0016820 hydrolase activity acting on acid anhydrides catalyzing transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0016021 integral to membrane, 0016469 proton-transporting two-sector ATPase complex.
Probab=59.83  E-value=5.9  Score=19.70  Aligned_cols=136  Identities=13%  Similarity=0.132  Sum_probs=69.9

Q ss_pred             CCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHH--HHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf             744599994488155899999999999998531697489941778999989999--999999714777544443643332
Q gi|254780392|r   67 VWDRLVVAGIGDPRDANFSWLKAGGSIASYIEEDKNIEIFVDVPEYPITKAEIR--DLVLGFMLKTYTFDQYKTKKRESS  144 (494)
Q Consensus        67 ~~~rViLVGLG~~~~~~~~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~~~--~~~eG~~L~~Y~Fd~yKskk~~~~  144 (494)
                      .++-|+.||||+.-.--.+.++-.-.+-.---+.....-++.+.+.++-...++  .+-.|+.++-|==|.         
T Consensus       250 ~a~ivvYiGCGERGNEMt~vl~~FP~l~dp~TG~pLm~RT~LiANTSNMPVAAREas~Y~GiTiAEYfRD~---------  320 (584)
T TIGR01043       250 DADIVVYIGCGERGNEMTEVLEEFPELEDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDM---------  320 (584)
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHCCCCCCCCCCHHHHHCCEEEECCCCCCHHHHHHHHHHCCHHHHHHHCC---------
T ss_conf             47379996168875258999984878688635315654205335267875344011232110253344116---------


Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHHH
Q ss_conf             321000133322457737899999999999999998642021254030299999999986-1133210000111000134
Q gi|254780392|r  145 SPRSKENISVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKLG  223 (494)
Q Consensus       145 ~~~~~~~~~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~klG  223 (494)
                            -..+.+..+....-.+++++         +.-+|=.+|+..=+|.|||.+..++ .+.|.-.++-.+++     
T Consensus       321 ------GYdv~L~ADSTSRWAEA~Re---------isgRlEEMPgEEGyPaYLasrLaefYERAG~~~~l~~~~~-----  380 (584)
T TIGR01043       321 ------GYDVALMADSTSRWAEALRE---------ISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEER-----  380 (584)
T ss_pred             ------CCCEEEEECCCCHHHHHHHH---------HHHHHCCCCCCCCCHHHHHHHHHHHHHHCCEEEECCCCCC-----
T ss_conf             ------85168872475217899987---------5202102778788624688888776651460223168874-----


Q ss_pred             HHHHHHHH
Q ss_conf             58988742
Q gi|254780392|r  224 MNALLAVA  231 (494)
Q Consensus       224 Mg~llaVg  231 (494)
                      .|++.-||
T Consensus       381 ~gsv~v~g  388 (584)
T TIGR01043       381 EGSVTVVG  388 (584)
T ss_pred             EEEEEEEE
T ss_conf             47899996


No 31 
>KOG0884 consensus
Probab=59.19  E-value=3.9  Score=20.97  Aligned_cols=57  Identities=23%  Similarity=0.416  Sum_probs=41.5

Q ss_pred             HHHCCCCCCCCCCHHHHHHHCCCCC---CEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCC
Q ss_conf             9856971767768678886179864---170188874679999999987238867699940000116
Q gi|254780392|r  402 LSTGELLWRMPMNEEYNKLIESKFA---DMKNIGGRGAGSIVAAQFLEKFVQDASWAHIDIAGVATG  465 (494)
Q Consensus       402 ~~~ge~~w~lPl~~~y~~~~~s~~A---D~~n~~~~~~g~~~aa~fl~~f~~~~~w~HlDiag~a~~  465 (494)
                      .+-|+.+|--|+.+||.+-||.++-   -|.|.|...-|+.       -|+--..-.|||+--+.|.
T Consensus        60 grgg~siwg~~fede~~~~lkh~~rg~vsmanngp~tn~sq-------ffity~kq~hldmkytvfg  119 (161)
T KOG0884          60 GRGGNSIWGKKFEDEYSEYLKHNVRGVVSMANNGPNTNGSQ-------FFITYGKQPHLDMKYTVFG  119 (161)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCCCCCCCE-------EEEEECCCCCCCEEEEEEE
T ss_conf             88875424874328899987506310687132799988756-------8999357766430566541


No 32 
>PRK06031 phosphoribosyltransferase; Provisional
Probab=57.38  E-value=7.3  Score=19.06  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=12.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCEE
Q ss_conf             99999999999999864202125403
Q gi|254780392|r  166 QVVADIQSVVKGVNLARDIINEPANV  191 (494)
Q Consensus       166 ~~i~~~~aiaegv~lARDLvN~PaN~  191 (494)
                      +.+..|..|..+..|-+.-+-+|.-+
T Consensus       162 DVISSG~Si~a~l~LL~~~G~e~v~i  187 (233)
T PRK06031        162 DVISSGASIVAALRLLATCGIEPAGI  187 (233)
T ss_pred             CHHCCCHHHHHHHHHHHHCCCCEEEE
T ss_conf             12215565999999999759973788


No 33 
>KOG1349 consensus
Probab=56.37  E-value=15  Score=16.89  Aligned_cols=16  Identities=13%  Similarity=0.067  Sum_probs=5.8

Q ss_pred             HHHHHHHHHHHHCCCC
Q ss_conf             6899999999870878
Q gi|254780392|r  288 AAVTGLLHVLAERKAK  303 (494)
Q Consensus       288 Aav~g~~~aia~l~~~  303 (494)
                      |.|++.-+.+-+|+.|
T Consensus        47 aNvl~~YrsvKrlGip   62 (309)
T KOG1349          47 ANVLSVYRSVKRLGIP   62 (309)
T ss_pred             HHHHHHHHHHHHCCCC
T ss_conf             8899999999980898


No 34 
>PRK06931 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional
Probab=56.31  E-value=8.8  Score=18.46  Aligned_cols=97  Identities=18%  Similarity=0.313  Sum_probs=52.8

Q ss_pred             CEEECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCC
Q ss_conf             40302999999999861-13321000011100013458988742025778506886205788656512663021120066
Q gi|254780392|r  189 ANVLGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTG  267 (494)
Q Consensus       189 aN~ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtG  267 (494)
                      +-+..|..|-+.+++++ ++|+ +=|+||-+.==-.-|.+.+             .++-|-.   +.|.-+|||+   +|
T Consensus       234 G~~~~p~~yl~~lr~lc~~~gi-llI~DEV~tGfGRTG~~fa-------------~e~~gv~---PDIi~~gKgl---gg  293 (454)
T PRK06931        234 GVVPAPVSWLQKIREVTQKHGI-LLIVDEVQAGFARSGKMFA-------------FEHAGIE---PDIVVMSKAV---GG  293 (454)
T ss_pred             CCCCCCHHHHHHHHHHHHHCCE-EEEECCCCCCCCCCCCCCH-------------HCCCCCC---CCEEEEHHHH---CC
T ss_conf             9761888998899987511681-8995034437786778412-------------1025889---8960021532---48


Q ss_pred             CCCC------------CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             3100------------3333200232211235689999999987087872
Q gi|254780392|r  268 GISI------------KPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKIN  305 (494)
Q Consensus       268 Gisl------------Kp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~  305 (494)
                      |+-+            .|+....++-..--++|+.+.++..+-+.++.-|
T Consensus       294 G~P~a~~~~~~~~~~~~~~~h~~T~~Gnpla~Aaala~L~~i~~e~l~~~  343 (454)
T PRK06931        294 GLPLAVLGIKKEFDAWQPAGHTGTFRGNQLAMATGLATLKILRDENLAQN  343 (454)
T ss_pred             CCCEEEEEEHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHH
T ss_conf             88548998755552467888664568984788999999999986249999


No 35 
>TIGR01515 branching_enzym 1,4-alpha-glucan branching enzyme; InterPro: IPR006407   This entry represents the core region of the glycogen branching enzymes, which are responsible for the transfer of chains of approximately seven alpha(1,4)-linked glucosyl residues to other similar chains (in new alpha-(1,6) linkages) in the biosynthesis of glycogen . The branching enzyme is responsible for the degree of alpha(1,6) branch linkages found in polysaccharides .; GO: 0003844 14-alpha-glucan branching enzyme activity, 0005978 glycogen biosynthetic process.
Probab=55.35  E-value=6  Score=19.66  Aligned_cols=23  Identities=17%  Similarity=0.241  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             99999999999853169748994
Q gi|254780392|r   85 SWLKAGGSIASYIEEDKNIEIFV  107 (494)
Q Consensus        85 ~~~ra~a~~~~~l~~~~~~~v~i  107 (494)
                      .+++++-++.-.+|..+-+-+-+
T Consensus       149 SY~eL~~~L~pYvK~~GFTHiEL  171 (608)
T TIGR01515       149 SYRELADQLIPYVKELGFTHIEL  171 (608)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             27888631015787508712541


No 36 
>PRK08652 acetylornithine deacetylase; Provisional
Probab=54.50  E-value=16  Score=16.68  Aligned_cols=16  Identities=6%  Similarity=-0.037  Sum_probs=10.1

Q ss_pred             CHHHHHHHHHCCCCCC
Q ss_conf             8889999998089983
Q gi|254780392|r   37 SPSIVMRAVSVKNFIG   52 (494)
Q Consensus        37 ~~~~L~~~i~~~~F~G   52 (494)
                      ....|.++++..+|+-
T Consensus        24 ~a~~l~~~l~~~G~~~   39 (349)
T PRK08652         24 IALYIMEFLHSLGYDV   39 (349)
T ss_pred             HHHHHHHHHHHCCCEE
T ss_conf             9999999999779948


No 37 
>PRK08554 peptidase; Reviewed
Probab=53.96  E-value=16  Score=16.63  Aligned_cols=14  Identities=0%  Similarity=0.019  Sum_probs=8.8

Q ss_pred             HHHHHHHHCCCCCC
Q ss_conf             89999998089983
Q gi|254780392|r   39 SIVMRAVSVKNFIG   52 (494)
Q Consensus        39 ~~L~~~i~~~~F~G   52 (494)
                      ..|..+++..+|+-
T Consensus        31 ~~l~~~l~~~G~~~   44 (438)
T PRK08554         31 AFIKDTLESWGIES   44 (438)
T ss_pred             HHHHHHHHHCCCCE
T ss_conf             99999999779906


No 38 
>PRK04155 chaperone protein HchA; Provisional
Probab=53.92  E-value=6  Score=19.65  Aligned_cols=26  Identities=8%  Similarity=0.028  Sum_probs=12.5

Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCEEEEEECC
Q ss_conf             0899836787899843788874459999448
Q gi|254780392|r   47 VKNFIGESKSHLNILAPVDCVWDRLVVAGIG   77 (494)
Q Consensus        47 ~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG   77 (494)
                      ..||+|-...     .+....-.+|++|..-
T Consensus        34 ktd~~g~~y~-----~~y~g~~~kiL~i~te   59 (288)
T PRK04155         34 KTDLDGVDYP-----KPYRGGKWKILMIAAD   59 (288)
T ss_pred             CCCCCCCCCC-----CCCCCCCCEEEEEEEC
T ss_conf             6477898787-----8667887169999843


No 39 
>PRK08596 acetylornithine deacetylase; Validated
Probab=53.72  E-value=16  Score=16.60  Aligned_cols=40  Identities=18%  Similarity=0.214  Sum_probs=22.1

Q ss_pred             HHHHHHHHHCCCCCEEE---CHHHHHHHHHH-HHCCCCCHHHHC
Q ss_conf             99998642021254030---29999999998-611332100001
Q gi|254780392|r  176 KGVNLARDIINEPANVL---GTDEFCKQVRK-LESLGVAVEILD  215 (494)
Q Consensus       176 egv~lARDLvN~PaN~l---tP~~lA~~a~~-l~~~gl~v~Vld  215 (494)
                      +-+.+.++||.-|+---   .-...++...+ |++.|+++++++
T Consensus        14 e~i~ll~~LV~i~S~sp~g~~~~~~~~~l~~~l~~~G~~~~~~~   57 (421)
T PRK08596         14 ELLELTKTLIRFETPAPPARNTNEAQQFIAEFLRKRNFSVDKWD   57 (421)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEEE
T ss_conf             99999999958999898986878999999999997799289998


No 40 
>PRK06133 glutamate carboxypeptidase; Reviewed
Probab=51.50  E-value=18  Score=16.36  Aligned_cols=119  Identities=18%  Similarity=0.320  Sum_probs=75.8

Q ss_pred             HHHHHHHHHCCCCCEEECHHHHHHHH----HHHHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCC
Q ss_conf             99998642021254030299999999----98611332100001110001345898874202577850688620578865
Q gi|254780392|r  176 KGVNLARDIINEPANVLGTDEFCKQV----RKLESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSE  251 (494)
Q Consensus       176 egv~lARDLvN~PaN~ltP~~lA~~a----~~l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~  251 (494)
                      +...+-|+|||.-+.-.+.+-..+.+    ++|+..|++++++....                 ..--.++.+|+|.+  
T Consensus        46 ~~l~~l~~lVni~Sgt~~~~gv~~v~~~~~~~l~~~G~~v~~~~~~~-----------------~~g~~l~a~~~g~g--  106 (418)
T PRK06133         46 AYLDTLRELVSIESGSGDAEGLKQVAALLAERLKALGATVELVPATP-----------------SAGDMVVATFKGTG--  106 (418)
T ss_pred             HHHHHHHHHEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCC-----------------CCCCEEEEEECCCC--
T ss_conf             99999998735078999768999999999999997799589964788-----------------86887999978999--


Q ss_pred             CCCEEEEECC-EEECCCCCCCCC---------CCCCHHHHHHHHHHHHHHHHHHHHHHCCCC--CCEEEEEEECCCC
Q ss_conf             6512663021-120066310033---------332002322112356899999999870878--7289986410266
Q gi|254780392|r  252 EQPLAFIGKG-VVFDTGGISIKP---------SHGMEEMKGDLGGAAAVTGLLHVLAERKAK--INAIGVLALVENM  316 (494)
Q Consensus       252 ~~piaLVGKG-vTFDtGGislKp---------~~~M~~Mk~DM~GaAav~g~~~aia~l~~~--v~v~~~~~~~EN~  316 (494)
                      +++|.|+|-= ..|.-|...-.|         +.|--+||   +|-|+.+.+++++.+.+.+  .+|+.+.-.-|-.
T Consensus       107 ~~~ilL~gH~DTVfp~g~~~~~Pf~~eggr~YGrGv~DMK---gGla~~L~Al~aL~~~g~~~~~~i~v~~t~DEE~  180 (418)
T PRK06133        107 KRKIMLIAHMDTVYLPGSLATQPFRIDGERAYGPGIADDK---GGVAVILHALAILQQQGFKDYGTLTVLFNPDEET  180 (418)
T ss_pred             CCCEEEEEECCCCCCCCCCCCCCEEEECCEEECCCHHHCC---HHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCC
T ss_conf             8878999436887999965679869889999807656510---7699999999999963998897089999878887


No 41 
>PRK07473 carboxypeptidase; Provisional
Probab=51.40  E-value=18  Score=16.35  Aligned_cols=117  Identities=15%  Similarity=0.198  Sum_probs=60.8

Q ss_pred             HHHHHHCCCCCEEECHHHHHHHHH----HHHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCC
Q ss_conf             986420212540302999999999----8611332100001110001345898874202577850688620578865651
Q gi|254780392|r  179 NLARDIINEPANVLGTDEFCKQVR----KLESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQP  254 (494)
Q Consensus       179 ~lARDLvN~PaN~ltP~~lA~~a~----~l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~p  254 (494)
                      ..-++|||.-+.-.+++-..+.+.    +++..|++++.+...+    +.+             -.++.+|.+.++..+.
T Consensus        15 ~~L~~lV~i~S~s~~~~gv~~~~~~~~~~l~~lG~~ve~~~~~~----~~~-------------~~~~~~~~~~~~g~p~   77 (376)
T PRK07473         15 QGLRPWVECESPTWDAAAVNRMLDLAARDMAIMGATIERIAGRQ----GFA-------------DCVRARFPHPRQGEPG   77 (376)
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEECCCC----CCC-------------CEEEEEECCCCCCCCC
T ss_conf             99999964879999999999999999999986498489956777----778-------------6089981689999987


Q ss_pred             EEEEECC-EEECCCCCCCCC---------CCCCHHHHHHHHHHHHHHHHHHHHHHCCC--CCCEEEEEEECCC
Q ss_conf             2663021-120066310033---------33200232211235689999999987087--8728998641026
Q gi|254780392|r  255 LAFIGKG-VVFDTGGISIKP---------SHGMEEMKGDLGGAAAVTGLLHVLAERKA--KINAIGVLALVEN  315 (494)
Q Consensus       255 iaLVGKG-vTFDtGGislKp---------~~~M~~Mk~DM~GaAav~g~~~aia~l~~--~v~v~~~~~~~EN  315 (494)
                      |.|.|-= ..|..|...-.|         +.|--+||   +|-++.+.+++++.+.+.  +.+|..++-.-|-
T Consensus        78 ill~gH~DTV~p~g~~~~~p~r~eg~r~yGpGv~DMK---gGla~~l~Al~aL~~~g~~~~~~i~~~~t~DEE  147 (376)
T PRK07473         78 ILIAGHLDTVHPVGTLEKLPFRREGNKCYGPGILDMK---GGNYLALEAIRQLARASFTTPLPITVLFTPDEE  147 (376)
T ss_pred             EEEEECCCCCCCCCCCCCCCEEEECCEEECCCCCCCC---CCHHHHHHHHHHHHHCCCCCCCCEEEEEECCCC
T ss_conf             8999256888899966678779879999888721254---459999999999997278889758999973787


No 42 
>KOG0780 consensus
Probab=51.27  E-value=18  Score=16.34  Aligned_cols=171  Identities=21%  Similarity=0.262  Sum_probs=81.0

Q ss_pred             CCCCCCCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHH-HHHHHHHHHH---CCCCCCCCC
Q ss_conf             378887445999944881558999999999999985316974899417789999899-9999999971---477754444
Q gi|254780392|r   62 APVDCVWDRLVVAGIGDPRDANFSWLKAGGSIASYIEEDKNIEIFVDVPEYPITKAE-IRDLVLGFML---KTYTFDQYK  137 (494)
Q Consensus        62 ~~~g~~~~rViLVGLG~~~~~~~~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~-~~~~~eG~~L---~~Y~Fd~yK  137 (494)
                      .|......-|++|||--.-+.+     ..++.+..+++.+.+...+.-+.+-..+.+ +.+-++-...   ++|.--++-
T Consensus        95 ~~~K~kpsVimfVGLqG~GKTT-----tc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv  169 (483)
T KOG0780          95 QPKKGKPSVIMFVGLQGSGKTT-----TCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPV  169 (483)
T ss_pred             CCCCCCCCEEEEEECCCCCCCE-----EHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHCCEEEECCCCCCHH
T ss_conf             6156897089998305788630-----08999999984687245776022453068999987674077068403665558


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEE------CHHHHHHHHHHHHC-CC
Q ss_conf             3643332321000133322457--737899999999999999998642021254030------29999999998611-33
Q gi|254780392|r  138 TKKRESSSPRSKENISVTIVTE--MIQQSSQVVADIQSVVKGVNLARDIINEPANVL------GTDEFCKQVRKLES-LG  208 (494)
Q Consensus       138 skk~~~~~~~~~~~~~i~~~~~--~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~l------tP~~lA~~a~~l~~-~g  208 (494)
                      .-..+....-+++.+.+.+...  -.+.....+++-..+.++++        |-|++      +-..-+.+++++++ .+
T Consensus       170 ~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~--------Pd~vi~VmDasiGQaae~Qa~aFk~~vd  241 (483)
T KOG0780         170 KIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIK--------PDEIIFVMDASIGQAAEAQARAFKETVD  241 (483)
T ss_pred             HHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCC--------CCEEEEEEECCCCHHHHHHHHHHHHHHC
T ss_conf             99999999888639728998278730124899999999985159--------8738999856200767999998877615


Q ss_pred             CCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEE
Q ss_conf             2100001110001345898874202577850688620578865651266302112
Q gi|254780392|r  209 VAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVV  263 (494)
Q Consensus       209 l~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvT  263 (494)
                      +---|+.+=+=...|=|+|-+|.                  ..+.||.|||-|=-
T Consensus       242 vg~vIlTKlDGhakGGgAlSaVa------------------aTksPIiFIGtGEh  278 (483)
T KOG0780         242 VGAVILTKLDGHAKGGGALSAVA------------------ATKSPIIFIGTGEH  278 (483)
T ss_pred             CCEEEEEECCCCCCCCCEEEEHH------------------HHCCCEEEEECCCC
T ss_conf             40379972256777773453035------------------40798799816755


No 43 
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=50.52  E-value=14  Score=16.95  Aligned_cols=15  Identities=20%  Similarity=0.180  Sum_probs=6.3

Q ss_pred             HHHHHHHCCCCCEEE
Q ss_conf             998642021254030
Q gi|254780392|r  178 VNLARDIINEPANVL  192 (494)
Q Consensus       178 v~lARDLvN~PaN~l  192 (494)
                      -.+|+.|.+..|=+.
T Consensus       181 k~LA~~l~~~~piiy  195 (328)
T PRK08674        181 KRLASKIYGRIPVIY  195 (328)
T ss_pred             HHHHHHHCCCCCEEE
T ss_conf             999999638986899


No 44 
>PRK13007 dipeptidase; Reviewed
Probab=49.62  E-value=19  Score=16.17  Aligned_cols=27  Identities=11%  Similarity=0.161  Sum_probs=11.8

Q ss_pred             HHHHHHHHHCCCCCEEECHHHHHHHHH
Q ss_conf             999986420212540302999999999
Q gi|254780392|r  176 KGVNLARDIINEPANVLGTDEFCKQVR  202 (494)
Q Consensus       176 egv~lARDLvN~PaN~ltP~~lA~~a~  202 (494)
                      +-+.|.|+|+..|+---.-...|+...
T Consensus         9 d~i~Ll~~LV~i~S~sg~E~~~a~~l~   35 (354)
T PRK13007          9 DLAELTAALVDIPSVSGHEKALADAVE   35 (354)
T ss_pred             HHHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf             899999997299992978899999999


No 45 
>pfam10447 EXOSC1 Exosome component EXOSC1/CSL4. This family of proteins are components of the exosome 3'-5' exoribonuclease complex. The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions.
Probab=49.20  E-value=3.5  Score=21.26  Aligned_cols=12  Identities=58%  Similarity=0.916  Sum_probs=6.1

Q ss_pred             CCCCCHHHHHCC
Q ss_conf             997470776302
Q gi|254780392|r  319 SSAQRPGDIVRS  330 (494)
Q Consensus       319 ~~a~~pgdvi~~  330 (494)
                      ..+|||||||.+
T Consensus        56 ~~~FrPGDiVrA   67 (72)
T pfam10447        56 YECFRPGDIVRA   67 (72)
T ss_pred             HHCCCCCCEEEE
T ss_conf             468399989999


No 46 
>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]
Probab=48.93  E-value=19  Score=16.09  Aligned_cols=151  Identities=9%  Similarity=0.082  Sum_probs=69.6

Q ss_pred             CCEEEEECCCC-CCCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHH--HHHHHHHHHCCC
Q ss_conf             87899843788-874459999448815589999999999999853169748994177899998999--999999971477
Q gi|254780392|r   55 KSHLNILAPVD-CVWDRLVVAGIGDPRDANFSWLKAGGSIASYIEEDKNIEIFVDVPEYPITKAEI--RDLVLGFMLKTY  131 (494)
Q Consensus        55 Ge~l~l~~~~g-~~~~rViLVGLG~~~~~~~~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~~--~~~~eG~~L~~Y  131 (494)
                      |+++..+.... ..++-|+.+|||+...--.+.+.-.-.+-.--........++...+..+-...+  ..+-.|+.++-|
T Consensus       236 GKTV~qh~laK~sdadiVVyigCGERGNEmtevL~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtGiTiaEY  315 (588)
T COG1155         236 GKTVSQHTLSKLADGDIVIYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEY  315 (588)
T ss_pred             CCEEHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             83752435656406888999815776523899998686666899997120003676257666188866435322319998


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCCCC
Q ss_conf             7544443643332321000133322457737899999999999999998642021254030299999999986-113321
Q gi|254780392|r  132 TFDQYKTKKRESSSPRSKENISVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLGVA  210 (494)
Q Consensus       132 ~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~gl~  210 (494)
                      -.|.=.               .+.+..+....-++++.+         +.-+|..+|+..-+|.||+.+..++ .+.|..
T Consensus       316 ~RDmGy---------------~v~lmADSTSRWAEAlRE---------isgRleEmPgeegyPaYL~srlA~fYERaG~v  371 (588)
T COG1155         316 YRDMGY---------------DVALMADSTSRWAEALRE---------ISGRLEEMPGEEGYPAYLGSRLAEFYERAGRV  371 (588)
T ss_pred             HHHHHH---------------HHHHHHCHHHHHHHHHHH---------HHCCCCCCCCCCCCCHHHHHHHHHHHHHCCEE
T ss_conf             876302---------------567750138999999998---------73350028864444167899999999854723


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHCCC
Q ss_conf             000011100013458988742025
Q gi|254780392|r  211 VEILDKEAMHKLGMNALLAVAQGS  234 (494)
Q Consensus       211 v~Vld~~~L~klGMg~llaVgqGS  234 (494)
                      .. +...+    ..|++--+|-.|
T Consensus       372 ~~-~~~~~----r~GsvtV~gaVS  390 (588)
T COG1155         372 RL-VSPEE----RFGSITVIGAVS  390 (588)
T ss_pred             EE-CCCCC----CEEEEEEECCCC
T ss_conf             42-27886----258999825778


No 47 
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=48.89  E-value=3.9  Score=20.99  Aligned_cols=29  Identities=28%  Similarity=0.511  Sum_probs=23.6

Q ss_pred             EEEECCCCCCCCC-CCHHHHHCCCCCCEEE
Q ss_conf             8641026689997-4707763024895888
Q gi|254780392|r  309 VLALVENMPGSSA-QRPGDIVRSMSGQTIE  337 (494)
Q Consensus       309 ~~~~~EN~~~~~a-~~pgdvi~~~~G~tve  337 (494)
                      +-...+|+|...| .+|||+|.+-||+.|.
T Consensus        16 V~~V~~~spA~~AGl~~GD~I~~ing~~v~   45 (79)
T cd00989          16 IGEVVPGSPAAKAGLKAGDRILAINGQKIK   45 (79)
T ss_pred             EEEECCCCHHHHCCCCCCCEEEEECCEECC
T ss_conf             999899998998599999999999999958


No 48 
>COG1921 SelA Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]
Probab=47.97  E-value=20  Score=15.99  Aligned_cols=109  Identities=31%  Similarity=0.320  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCC----------------------C
Q ss_conf             568999999998708787289986410266899974707763024895888634786----------------------6
Q gi|254780392|r  287 AAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDA----------------------E  344 (494)
Q Consensus       287 aAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDA----------------------E  344 (494)
                      +++|+-+..+.++   +..|  ++..-|+-+ |-+++-.|++..-+++-+||.+|--                      +
T Consensus        93 ~aAVll~~~al~~---~~Ev--Vis~g~lV~-gg~~~v~d~~~~aG~~l~EvG~tn~t~~~d~~~AIne~ta~llkV~s~  166 (395)
T COG1921          93 AAAVLLTLNALAE---GKEV--VVSRGELVE-GGAFRVPDIIRLAGAKLVEVGTTNRTHLKDYELAINENTALLLKVHSS  166 (395)
T ss_pred             HHHHHHHHHHHCC---CCEE--EEECCCCCC-CCCCCHHHHHHHCCCEEEEECCCCCCCHHHHHHHHCCCCEEEEEEEEC
T ss_conf             8999998763205---7717--997131156-889986679997197799815657677888998854587058999503


Q ss_pred             -----CEEEEEHHHHHHHHHCCCCEEEEECC---------CCHHHH-----------HHCCCCCEEEEECCHHHHHHHHH
Q ss_conf             -----40365236788752079613552111---------200235-----------43177605787089899999999
Q gi|254780392|r  345 -----GRLILADALWYCRTHYNPHLMIDLAT---------LTGAMV-----------VSLGNIYAGLFANNDVLAEQLLS  399 (494)
Q Consensus       345 -----GRlvLaD~l~ya~~~~~p~~iid~AT---------LTGa~~-----------~alG~~~~g~~~n~~~~~~~~~~  399 (494)
                           |-|-+.|...-|. .++--.++|.|-         |..++-           -.||.-.+|++.-..+|..+++.
T Consensus       167 ~~~f~~~l~~~~l~~ia~-~~~lpvivD~aSg~~v~~e~~l~~~la~GaDLV~~SgdKllgGPqaGii~GkKelI~~lq~  245 (395)
T COG1921         167 NYGFTGMLSEEELVEIAH-EKGLPVIVDLASGALVDKEPDLREALALGADLVSFSGDKLLGGPQAGIIVGKKELIEKLQS  245 (395)
T ss_pred             CCCCCCCCCHHHHHHHHH-HCCCCEEEECCCCCCCCCCCCHHHHHHCCCCEEEEECCHHCCCCCCCEEECHHHHHHHHHH
T ss_conf             666146455999999998-7699779966776300355445688860797899754011279854337424999999976


Q ss_pred             HHH
Q ss_conf             899
Q gi|254780392|r  400 SGL  402 (494)
Q Consensus       400 a~~  402 (494)
                      .+-
T Consensus       246 ~~l  248 (395)
T COG1921         246 HPL  248 (395)
T ss_pred             HHH
T ss_conf             213


No 49 
>COG4386 Mu-like prophage tail sheath protein gpL [General function prediction only]
Probab=47.89  E-value=20  Score=15.98  Aligned_cols=15  Identities=7%  Similarity=-0.090  Sum_probs=6.9

Q ss_pred             CCCCEEEEEECCCCC
Q ss_conf             778506886205788
Q gi|254780392|r  235 SRPPYLAVMKWEGGD  249 (494)
Q Consensus       235 ~~~Prli~l~Y~g~~  249 (494)
                      .+.-++..+-|++.+
T Consensus       276 rNd~~~t~~~~~~ap  290 (487)
T COG4386         276 RNDGHATCAWIHGAP  290 (487)
T ss_pred             CCCCEEEEEECCCCC
T ss_conf             257437775316999


No 50 
>PRK10898 serine endoprotease; Provisional
Probab=47.66  E-value=5  Score=20.20  Aligned_cols=54  Identities=15%  Similarity=0.191  Sum_probs=35.9

Q ss_pred             EEEEEECCCCCCCCC-CCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCC
Q ss_conf             998641026689997-47077630248958886347866403652367887520796135521112
Q gi|254780392|r  307 IGVLALVENMPGSSA-QRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATL  371 (494)
Q Consensus       307 ~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATL  371 (494)
                      +-+....++.|..+| .||||||++.+|+.|+=.          .|.+.+ ..+++|.--+.+--+
T Consensus       282 v~V~~V~~~sPA~~AGL~~GDvI~~idg~~v~~~----------~~l~~~-l~~~~pGd~v~l~v~  336 (355)
T PRK10898        282 IVVNEVSPDGPAANAGIQVNDLIISVNNKPAISA----------LETMDQ-VAEIRPGSVIPVVVM  336 (355)
T ss_pred             CEEEEECCCCHHHHCCCCCCCEEEEECCEECCCH----------HHHHHH-HHHCCCCCEEEEEEE
T ss_conf             2898879999589859998999999899893899----------999999-971899798999999


No 51 
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=47.54  E-value=4  Score=20.87  Aligned_cols=13  Identities=54%  Similarity=0.807  Sum_probs=7.1

Q ss_pred             CCCCCHHHHHCCC
Q ss_conf             9974707763024
Q gi|254780392|r  319 SSAQRPGDIVRSM  331 (494)
Q Consensus       319 ~~a~~pgdvi~~~  331 (494)
                      .++|||||||++.
T Consensus        58 ~~~FrpGDIVrA~   70 (92)
T cd05791          58 YKCFRPGDIVRAK   70 (92)
T ss_pred             HHCCCCCCEEEEE
T ss_conf             1354999899999


No 52 
>COG3896 Chloramphenicol 3-O-phosphotransferase [Defense mechanisms]
Probab=47.03  E-value=12  Score=17.57  Aligned_cols=33  Identities=21%  Similarity=0.296  Sum_probs=19.3

Q ss_pred             CEEECHHHHHHHHHHHH--C---CCCCH--HHHCCCCCCH
Q ss_conf             40302999999999861--1---33210--0001110001
Q gi|254780392|r  189 ANVLGTDEFCKQVRKLE--S---LGVAV--EILDKEAMHK  221 (494)
Q Consensus       189 aN~ltP~~lA~~a~~l~--~---~gl~v--~Vld~~~L~k  221 (494)
                      .-++|-..|.+.++-|.  +   .|+.|  |++.+.+++.
T Consensus       121 dv~~~r~~L~Dc~r~l~g~~v~~VGV~~p~E~~~~Re~rr  160 (205)
T COG3896         121 DVIWTREWLVDCLRVLEGCRVWMVGVHVPDEEGARRELRR  160 (205)
T ss_pred             HCCCCHHHHHHHHHHHHCCCEEEEEEECCHHHHHHHHHHC
T ss_conf             1056466677899998189658998416488999987525


No 53 
>TIGR02149 glgA_Coryne glycogen synthase, Corynebacterium family; InterPro: IPR011875    This entry describes Corynebacterium glutamicum GlgA and closely related proteins in other species. This enzyme is required for glycogen biosynthesis and appears to replace the distantly related IPR011835 from INTERPRO, family of ADP-glucose type glycogen synthase in Corynebacterium glutamicum, Mycobacterium tuberculosis, Bifidobacterium longum, and Streptomyces coelicolor ..
Probab=46.95  E-value=9.2  Score=18.32  Aligned_cols=40  Identities=13%  Similarity=0.166  Sum_probs=23.2

Q ss_pred             CCCHHHHCCCCCCHHHHHHHHHHHCCCC---------CCCEEEEEECCCC
Q ss_conf             3210000111000134589887420257---------7850688620578
Q gi|254780392|r  208 GVAVEILDKEAMHKLGMNALLAVAQGSS---------RPPYLAVMKWEGG  248 (494)
Q Consensus       208 gl~v~Vld~~~L~klGMg~llaVgqGS~---------~~Prli~l~Y~g~  248 (494)
                      |.++.-|-|+.--+- -..+.||++||.         -+|-.|+.-|||-
T Consensus       147 GY~lSsW~EktA~~a-Ad~vIAVS~amr~DiL~~YP~lD~~kv~Vv~NGI  195 (416)
T TIGR02149       147 GYKLSSWAEKTAIEA-ADRVIAVSGAMREDILKVYPDLDPEKVHVVYNGI  195 (416)
T ss_pred             CCCCCHHHHHHHHHH-CCCEEEHHHHCHHHHHCCCCCCCCCCEEEEECCC
T ss_conf             742024788889985-0406531110335583158688846468886476


No 54 
>PRK10139 serine endoprotease; Provisional
Probab=46.44  E-value=6.1  Score=19.61  Aligned_cols=24  Identities=17%  Similarity=0.404  Sum_probs=11.4

Q ss_pred             CCCCCCCCC-CCHHHHHCCCCCCEE
Q ss_conf             026689997-470776302489588
Q gi|254780392|r  313 VENMPGSSA-QRPGDIVRSMSGQTI  336 (494)
Q Consensus       313 ~EN~~~~~a-~~pgdvi~~~~G~tv  336 (494)
                      ..+.|..++ .||||||++-|++.|
T Consensus       398 ~~gS~Aa~aGLr~GDVI~~VN~~~V  422 (455)
T PRK10139        398 VKGSPAAQAGLQKDDVIIGVNRDRV  422 (455)
T ss_pred             CCCCHHHHCCCCCCCEEEEECCEEC
T ss_conf             7899899869999999997799873


No 55 
>KOG3846 consensus
Probab=43.22  E-value=9.1  Score=18.38  Aligned_cols=39  Identities=13%  Similarity=0.254  Sum_probs=15.2

Q ss_pred             CCCCEEEEECC-HHHHHHHHHHHHHHCC------CCCCCCCCHHHH
Q ss_conf             77605787089-8999999998998569------717677686788
Q gi|254780392|r  380 GNIYAGLFANN-DVLAEQLLSSGLSTGE------LLWRMPMNEEYN  418 (494)
Q Consensus       380 G~~~~g~~~n~-~~~~~~~~~a~~~~ge------~~w~lPl~~~y~  418 (494)
                      |-..+--||.. +...+.+.+-|-....      |+-+.||+..|.
T Consensus       401 GcQLsl~Fssp~~~vfqeL~krGv~~DkR~PNvIRvAPvpLYN~f~  446 (465)
T KOG3846         401 GCQLSLYFSSPTPKVFQELHKRGVIGDKRRPNVIRVAPVPLYNTFS  446 (465)
T ss_pred             CCEEEEEECCCCHHHHHHHHHCCEECCCCCCCCEEEECCHHHCCHH
T ss_conf             6469999679951889999873701325588832861420000189


No 56 
>COG2222 AgaS Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]
Probab=41.87  E-value=10  Score=18.09  Aligned_cols=64  Identities=19%  Similarity=0.324  Sum_probs=35.5

Q ss_pred             CCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCC------CCCCEEEEECCEEECCCCCCCCCCCCCH
Q ss_conf             210000111000134589887420257785068862057886------5651266302112006631003333200
Q gi|254780392|r  209 VAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDS------EEQPLAFIGKGVVFDTGGISIKPSHGME  278 (494)
Q Consensus       209 l~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~------~~~piaLVGKGvTFDtGGislKp~~~M~  278 (494)
                      +-.+..+.+-+-=+|.|.+.++++-+.-.  |..|.|-....      -.-|..||++|+-|    +-+++.+...
T Consensus       194 ~~~~~~~~~~i~~lGsG~~~g~A~e~aLk--l~E~~~~~s~a~~s~E~~HGp~elv~~~~pv----i~~~~~d~tr  263 (340)
T COG2222         194 FAEEYADEDRIYTLGSGPLYGAAYEAALK--LKEMQWIHSEAISSGEFRHGPKELVEEGTPV----LLFVSEDETR  263 (340)
T ss_pred             HHHHHCCCCEEEEECCCCCHHHHHHHHHH--HHHHCCCCCEEEECCCCCCCCHHHCCCCCEE----EEEECCCCCH
T ss_conf             99973589779997785217999999999--9987040015511341014759773799529----9994487404


No 57 
>TIGR01139 cysK cysteine synthase A; InterPro: IPR005859    This model discriminates cysteine synthase A (CysK) and cysteine synthase B (CysM) from cystathionine beta-synthase, a protein found primarily in eukaryotes and carrying a C-terminal CBS domain lacking from this protein. Bacterial proteins lacking the CBS domain but otherwise showing resemblance to cystathionine beta-synthases and considerable phylogenetic distance from known cysteine synthases were excluded.    Cysteine synthase (O-acetylserine (thiol)-lyase, 2.5.1.47 from EC) is the enzyme responsible for the formation of cysteine from O-acetyl-serine and hydrogen sulphide with the concomitant release of acetic acid. In bacteria such two forms of the enzyme are known (genes cysK and cysM). CysK differs from CysM in that it can also use sulphide instead of thiosulphate, to produce cysteine instead of cysteine thiosulphonate. ; GO: 0004124 cysteine synthase activity, 0006535 cysteine biosynthetic process from serine.
Probab=41.61  E-value=24  Score=15.33  Aligned_cols=29  Identities=17%  Similarity=0.190  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHCC-CCCCEEEEEEE
Q ss_conf             123568999999998708-78728998641
Q gi|254780392|r  284 LGGAAAVTGLLHVLAERK-AKINAIGVLAL  312 (494)
Q Consensus       284 M~GaAav~g~~~aia~l~-~~v~v~~~~~~  312 (494)
                      ++..|+|++|.+..-+++ +..+||+++|-
T Consensus       272 ISSGA~vaAAl~~Ak~~~n~dK~iV~i~Ps  301 (312)
T TIGR01139       272 ISSGAAVAAALKLAKRLENPDKLIVVILPS  301 (312)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCEEEEEECC
T ss_conf             557899999999987324889889998278


No 58 
>cd03450 NodN NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.  Rhizobium and related species form nodules on the roots of their legume hosts, a symbiotic process that requires production of Nod factors, which are signal molecules involved in root hair deformation and meristematic cell division.  The nodulation gene products, including NodN, are involved in producing the Nod factors, however the role played by NodN is unclear.
Probab=38.80  E-value=26  Score=15.13  Aligned_cols=21  Identities=5%  Similarity=0.026  Sum_probs=10.5

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             99998999999999971477754
Q gi|254780392|r  112 YPITKAEIRDLVLGFMLKTYTFD  134 (494)
Q Consensus       112 ~~~~~~~~~~~~eG~~L~~Y~Fd  134 (494)
                      .....+.+.+|++-.  +.++|=
T Consensus        22 ~~i~Q~~I~~FA~~T--~D~qwI   42 (149)
T cd03450          22 VTVDQERIDQFADAT--GDHQWI   42 (149)
T ss_pred             EEECHHHHHHHHHHH--CCCCCC
T ss_conf             898999999999974--898764


No 59 
>PRK08087 L-fuculose phosphate aldolase; Provisional
Probab=38.36  E-value=27  Score=14.99  Aligned_cols=59  Identities=14%  Similarity=0.275  Sum_probs=43.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHHHCCCCCHH
Q ss_conf             332245773789999999999999999864202125403029999999998611332100
Q gi|254780392|r  153 SVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKLESLGVAVE  212 (494)
Q Consensus       153 ~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l~~~gl~v~  212 (494)
                      .+...+.+...+-......+..++-...|+-+ ..|.+.|+++.+++.++.++.+|.+.+
T Consensus       156 G~~~~G~~l~eA~~~~~~lE~~A~i~l~a~~~-G~p~~~Lsdeei~~~~~~~~~yg~~~~  214 (215)
T PRK08087        156 GLIACEVNLEKALWLAHEVEVLAQLYLKTLAI-TDPVPVLSDEEIAVVLEKFKTYGLRIE  214 (215)
T ss_pred             CCEEECCCHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf             75663799999999999999999999999971-999999999999999999998486656


No 60 
>KOG2367 consensus
Probab=37.80  E-value=23  Score=15.52  Aligned_cols=63  Identities=13%  Similarity=0.144  Sum_probs=35.8

Q ss_pred             CCCCCE--EECHHHHHHHHHHHHC--C---CCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCC
Q ss_conf             212540--3029999999998611--3---32100001110001345898874202577850688620578865
Q gi|254780392|r  185 INEPAN--VLGTDEFCKQVRKLES--L---GVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSE  251 (494)
Q Consensus       185 vN~PaN--~ltP~~lA~~a~~l~~--~---gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~  251 (494)
                      +|.|.-  +-+|..|++.++-++.  .   .+-+++.-..++-=-=-+++++--    -..|.|.-.-.|.++.
T Consensus       221 vnipdTVgia~P~~y~dLI~y~~tn~~~~e~v~Is~HcHND~G~a~Ant~~g~~----AGA~~VE~~i~GiGER  290 (560)
T KOG2367         221 VNIPDTVGIATPNEYGDLIEYLKTNTPGREKVCISTHCHNDLGCATANTELGLL----AGARQVEVTINGIGER  290 (560)
T ss_pred             CCCCCEECCCCHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCHHHHHHHHHHH----CCCCEEEEEEECCCCC
T ss_conf             067640203683889999999970688730689987514874278888888775----2865688986224444


No 61 
>pfam09264 Sial-lect-inser Vibrio cholerae sialidase, lectin insertion. Members of this family are predominantly found in Vibrio cholerae sialidase, and adopt a beta sandwich structure consisting of 12-14 strands arranged in two beta-sheets. They bind to lectins with high affinity helping to target the protein to sialic acid-rich environments, thereby enhancing the catalytic efficiency of the enzyme.
Probab=37.11  E-value=16  Score=16.66  Aligned_cols=31  Identities=29%  Similarity=0.505  Sum_probs=21.6

Q ss_pred             CHHHHHCCCCC-----CEEEEECCCC--CCEEEEEHHH
Q ss_conf             70776302489-----5888634786--6403652367
Q gi|254780392|r  323 RPGDIVRSMSG-----QTIEVINTDA--EGRLILADAL  353 (494)
Q Consensus       323 ~pgdvi~~~~G-----~tvei~nTDA--EGRlvLaD~l  353 (494)
                      .-|-+|++.+|     ++|+-.||||  .|||-++|-.
T Consensus       112 VDg~~vaTwSGe~sssk~I~fGnada~~dgrlh~~~i~  149 (197)
T pfam09264       112 VDGQQITTWAGEVSQENNIQFGNADAQIDGRLHVQKIV  149 (197)
T ss_pred             ECCEEEEEECCCCCCCCEEEECCCCCCCCCEEEEEEEE
T ss_conf             87818988607526765368626565535447777665


No 62 
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=36.91  E-value=25  Score=15.25  Aligned_cols=22  Identities=18%  Similarity=0.172  Sum_probs=12.2

Q ss_pred             HHHHHHHHCCCCCCEEEEEEECCC
Q ss_conf             999999870878728998641026
Q gi|254780392|r  292 GLLHVLAERKAKINAIGVLALVEN  315 (494)
Q Consensus       292 g~~~aia~l~~~v~v~~~~~~~EN  315 (494)
                      -++.-+++..  -++..+.|.--|
T Consensus       226 ~al~~i~~~~--~~~~viyp~H~~  247 (383)
T COG0381         226 EALREIAEEY--PDVIVIYPVHPR  247 (383)
T ss_pred             HHHHHHHHHC--CCCEEEEECCCC
T ss_conf             9999999867--895699747997


No 63 
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=35.96  E-value=30  Score=14.74  Aligned_cols=114  Identities=20%  Similarity=0.283  Sum_probs=52.2

Q ss_pred             CCCCCCC--CHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEE
Q ss_conf             0033332--00232211235689999999987087872899864102668999747077630248958886347866403
Q gi|254780392|r  270 SIKPSHG--MEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRL  347 (494)
Q Consensus       270 slKp~~~--M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRl  347 (494)
                      +|||++.  |++.. .-||-.+|+--+.-...|...+--+-=-.+.||.-+-......|||++.+--      -..+|-|
T Consensus       306 ~l~P~G~~~~~d~~-~aGGv~~v~k~L~~~glL~~d~~TVtG~tl~e~l~~~~~~~d~~VIr~~~~P------~~~~Ggl  378 (557)
T PRK00911        306 DLKPSGRYVMEDLH-EAGGIPAVMKELLDAGLLHGDCLTVTGKTLAENLADVPPIPDQDVIRPLDNP------ISPTGGL  378 (557)
T ss_pred             EECCCCCHHHHHHH-HCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCEEECCCCC------CCCCCCE
T ss_conf             62468643599988-6479999999999769967888757788899998439888994778046546------4787887


Q ss_pred             EEEHHHHHHHHHCCCC-EEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHH
Q ss_conf             6523678875207961-3552111200235431776057870898999999998
Q gi|254780392|r  348 ILADALWYCRTHYNPH-LMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSS  400 (494)
Q Consensus       348 vLaD~l~ya~~~~~p~-~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a  400 (494)
                      ..-    +.  .+-|+ .||-++-...-.    =...|-||.+.+++.+.+..-
T Consensus       379 ~vL----~G--NLap~GaViK~sav~~~~----~~GpA~VF~see~~~~ai~~g  422 (557)
T PRK00911        379 AIL----KG--NLAPEGAVVKIAGVKPPM----FTGPARVFDSEEEAMAAILAG  422 (557)
T ss_pred             EEE----CC--CCCCCCEEEEEECCCCCE----EEEEEEEECCHHHHHHHHHCC
T ss_conf             862----37--756776068740477645----776468858999999998689


No 64 
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=35.39  E-value=10  Score=17.97  Aligned_cols=32  Identities=19%  Similarity=0.508  Sum_probs=21.9

Q ss_pred             EEEEEECCCCCCCCC-CCHHHHHCCCCCCEEEE
Q ss_conf             998641026689997-47077630248958886
Q gi|254780392|r  307 IGVLALVENMPGSSA-QRPGDIVRSMSGQTIEV  338 (494)
Q Consensus       307 ~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tvei  338 (494)
                      +-+.-..+|.|...| .+|||+|.+-||+.|.=
T Consensus        15 ~~V~~v~~gsPA~~aGl~~GD~I~~Vng~~v~~   47 (85)
T cd00988          15 LVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDG   47 (85)
T ss_pred             EEEEEECCCCHHHHHCCCCCCEEEEECCEECCC
T ss_conf             999996899958980899999999999999789


No 65 
>cd07144 ALDH_ALD2-YMR170C Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c)-like. NAD(P)+-dependent Saccharomyces cerevisiae aldehyde dehydrogenase 2 (YMR170c, ALD5, EC=1.2.1.5) and other similar sequences, are present in this CD.
Probab=34.43  E-value=31  Score=14.58  Aligned_cols=93  Identities=18%  Similarity=0.258  Sum_probs=60.4

Q ss_pred             HHHCCCCE-EEEECCCCHHHHHHCCCC---CEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCC
Q ss_conf             52079613-552111200235431776---05787089899999999899856971767768678886179864170188
Q gi|254780392|r  357 RTHYNPHL-MIDLATLTGAMVVSLGNI---YAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADMKNIG  432 (494)
Q Consensus       357 ~~~~~p~~-iid~ATLTGa~~~alG~~---~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~  432 (494)
                      .+-|.|-+ |+-+.++--|+-.|=...   .+++||+|...+..+.+.= ++|--.+--+.    .....-++.-+|++|
T Consensus       387 eE~FGPVl~v~~~~d~eEAi~~aN~s~yGL~a~V~t~d~~~a~~~a~~l-~~G~V~iN~~~----~~~~~~PfGG~K~SG  461 (484)
T cd07144         387 EEIFGPVVVISKFKTYEEAIKKANDTTYGLAAAVFTKDIRRAHRVAREL-EAGMVWINSSN----DSDVGVPFGGFKMSG  461 (484)
T ss_pred             CCCCCCEEEEEECCCHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHC-CCCEEEECCCC----CCCCCCCCCCCCCCC
T ss_conf             5344627999960999999999858999866999848999999999858-84369986999----877898828745061


Q ss_pred             -CCCHHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             -874679999999987238867699940
Q gi|254780392|r  433 -GRGAGSIVAAQFLEKFVQDASWAHIDI  459 (494)
Q Consensus       433 -~~~~g~~~aa~fl~~f~~~~~w~HlDi  459 (494)
                       ||.+|.    -=|++|+ ..+++|+++
T Consensus       462 ~Gre~G~----~gl~~ft-~~K~v~i~l  484 (484)
T cd07144         462 IGRELGE----YGLETYT-QTKAVHINL  484 (484)
T ss_pred             CCCHHHH----HHHHHHC-CEEEEEEEC
T ss_conf             7814379----9999834-722999929


No 66 
>TIGR00587 nfo apurinic endonuclease (APN1); InterPro: IPR001719   DNA damaging agents such as the anti-tumour drugs bleomycin and neocarzinostatin or those that generate oxygen radicals produce a variety of lesions in DNA. Amongst these is base-loss which forms apurinic/apyrimidinic (AP) sites or strand breaks with atypical 3' termini. DNA repair at the AP sites is initiated by specific endonuclease cleavage of the phosphodiester backbone. Such endonucleases are also generally capable of removing blocking groups from the 3' terminus of DNA strand breaks.   AP endonucleases can be classified into two families based on sequence similarity. Family 2 groups the enzymes listed below , .  Bacterial endonuclease IV (3.1.21.2 from EC) (gene nfo). Mycobacterium leprae probable endonuclease (gene end) . Yeast apurinic endonuclease APN1 (4.2.99.18 from EC). Caenorhabditis elegans hypothetical protein APN-1 or T05H10.2.     Escherichia coli endonuclease IV and its Saccharomyces cerevisiae homologue Apn1 have been shown to be transition metalloproteins that require zinc and manganese for activity .; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0006281 DNA repair, 0005622 intracellular.
Probab=33.23  E-value=6.9  Score=19.21  Aligned_cols=45  Identities=22%  Similarity=0.400  Sum_probs=34.4

Q ss_pred             HCCCCCCCEEEEEECCCCC-CCCCCEEEEECCEEECC-----CCCCCCCCCCCHHH
Q ss_conf             2025778506886205788-65651266302112006-----63100333320023
Q gi|254780392|r  231 AQGSSRPPYLAVMKWEGGD-SEEQPLAFIGKGVVFDT-----GGISIKPSHGMEEM  280 (494)
Q Consensus       231 gqGS~~~Prli~l~Y~g~~-~~~~piaLVGKGvTFDt-----GGislKp~~~M~~M  280 (494)
                      ||||.-...|-.|.|==.+ +.+.+|     |||+||     .||+|......+.-
T Consensus       179 G~Gn~~G~~f~eLk~iI~~i~~~~r~-----GVClDTCH~FAaGYDI~T~~~~~~v  229 (318)
T TIGR00587       179 GQGNEIGRSFEELKYIIDGIKDKSRI-----GVCLDTCHTFAAGYDIRTVEDFEKV  229 (318)
T ss_pred             CCCCCCCCCHHHHHHHHHHHEECCCE-----EEECCHHHHHHCCCCCCCHHHHHHH
T ss_conf             75667788889999998532004730-----4522222041214677777779999


No 67 
>PRK07334 threonine dehydratase; Provisional
Probab=33.10  E-value=33  Score=14.43  Aligned_cols=54  Identities=22%  Similarity=0.409  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHH
Q ss_conf             2356899999999870878728998641026689997470776302489588863478664036523678
Q gi|254780392|r  285 GGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALW  354 (494)
Q Consensus       285 ~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~  354 (494)
                      ||..-.-|+-.++-.+++.++|+|+=|  |+.|        +...+..|+.++.. .|     .+||++.
T Consensus       177 GGGGLisGia~a~K~~~P~ikViGVEp--e~a~--------~m~~sl~~~~~~~~-~~-----TiADGla  230 (399)
T PRK07334        177 GGGGLISGIATAAKALKPDIEIIGVQT--ELYP--------SMYAALKGVALPCG-GS-----TIAEGIA  230 (399)
T ss_pred             CCCHHHHHHHHHHHCCCCCCEEEEECC--CCCH--------HHHHHHCCCCCCCC-CC-----CCCCCCC
T ss_conf             860479999999960499978999765--8776--------99998469998899-87-----3201224


No 68 
>COG0248 GppA Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]
Probab=32.88  E-value=33  Score=14.41  Aligned_cols=81  Identities=27%  Similarity=0.376  Sum_probs=54.0

Q ss_pred             HHHHHHHHCCCCCEEECHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEE
Q ss_conf             99986420212540302999999999861133210000111000134589887420257785068862057886565126
Q gi|254780392|r  177 GVNLARDIINEPANVLGTDEFCKQVRKLESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLA  256 (494)
Q Consensus       177 gv~lARDLvN~PaN~ltP~~lA~~a~~l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~pia  256 (494)
                      ++.-+|+-.|.       +.|-++++  +..|++++|+++++=..   =.+++|..+-...++.+++.-=|+.- +  ++
T Consensus        80 ATsA~R~A~N~-------~eFl~rv~--~~~G~~ievIsGeeEAr---l~~lGv~~~~~~~~~~lv~DIGGGSt-E--l~  144 (492)
T COG0248          80 ATSALRDAPNG-------DEFLARVE--KELGLPIEVISGEEEAR---LIYLGVASTLPRKGDGLVIDIGGGST-E--LV  144 (492)
T ss_pred             HHHHHHCCCCH-------HHHHHHHH--HHHCCCEEEECCHHHHH---HHHHHHHHCCCCCCCEEEEEECCCEE-E--EE
T ss_conf             26887718998-------99999999--98699638716077889---99988872478778879998068737-9--99


Q ss_pred             EE-----ECCEEECCCCCCCC
Q ss_conf             63-----02112006631003
Q gi|254780392|r  257 FI-----GKGVVFDTGGISIK  272 (494)
Q Consensus       257 LV-----GKGvTFDtGGislK  272 (494)
                      ++     ++++.++=|.++|.
T Consensus       145 ~g~~~~~~~~~Sl~~G~v~lt  165 (492)
T COG0248         145 LGDNFEIGLLISLPLGCVRLT  165 (492)
T ss_pred             EECCCCCCEEEEEECCEEEEE
T ss_conf             713774224678633608724


No 69 
>PRK05639 4-aminobutyrate aminotransferase; Provisional
Probab=32.28  E-value=34  Score=14.34  Aligned_cols=94  Identities=20%  Similarity=0.332  Sum_probs=49.6

Q ss_pred             EEECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCCC
Q ss_conf             0302999999999861-133210000111000134589887420257785068862057886565126630211200663
Q gi|254780392|r  190 NVLGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTGG  268 (494)
Q Consensus       190 N~ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtGG  268 (494)
                      -+..|..|-+.+++++ ++|+ +=|+||-+.==-.-|.+.+             .+|-|-   ++.|.-.|||+   +||
T Consensus       237 ~~~~~~~yl~~lr~lc~~~gi-llI~DEV~tGfGRtG~~fa-------------~e~~gv---~PDii~~gKgl---~~G  296 (457)
T PRK05639        237 IVVPPENFFKELKKLLNELGI-LLVMDEVQTGIGRTGKWFA-------------SEWFSV---KPDMIIFGKGV---ASG  296 (457)
T ss_pred             CCCCCHHHHHHHHHHHHHCCC-EEEEECCCCCCCCCCCHHH-------------HHCCCC---CCCEEEECCHH---CCC
T ss_conf             862898998899999976398-6873103227762565456-------------643799---99999977221---079


Q ss_pred             CCC------------CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             100------------33332002322112356899999999870878
Q gi|254780392|r  269 ISI------------KPSHGMEEMKGDLGGAAAVTGLLHVLAERKAK  303 (494)
Q Consensus       269 isl------------Kp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~  303 (494)
                      +.|            .++..+.++-.+--++|+.+.++..+-+-++-
T Consensus       297 ~plsav~~~~~i~~~~~g~~~~T~~gnpla~Aaa~a~L~~i~~~~l~  343 (457)
T PRK05639        297 MGLSGVIGRKEIMDITSGSALLTPAANPVISAAAEATLEIIEEENLL  343 (457)
T ss_pred             CCCEEEEECHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHH
T ss_conf             87079998488775405765557886529999999999999965599


No 70 
>TIGR02198 rfaE_dom_I rfaE bifunctional protein, domain I; InterPro: IPR011913    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 some other genome. The longer, N-terminal domain I (this family) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (IPR011914 from INTERPRO) adds ADP to yield ADP-D-glycero-D-manno-heptose .; GO: 0016773 phosphotransferase activity alcohol group as acceptor, 0016779 nucleotidyltransferase activity, 0005975 carbohydrate metabolic process.
Probab=32.11  E-value=32  Score=14.50  Aligned_cols=153  Identities=10%  Similarity=0.111  Sum_probs=69.8

Q ss_pred             HHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEE------EEEECCCHHH--CCHHH-HHHHHHHHHHHHHCCCEEEEECC
Q ss_conf             899999980899836787899843788874459------9994488155--89999-99999999985316974899417
Q gi|254780392|r   39 SIVMRAVSVKNFIGESKSHLNILAPVDCVWDRL------VVAGIGDPRD--ANFSW-LKAGGSIASYIEEDKNIEIFVDV  109 (494)
Q Consensus        39 ~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rV------iLVGLG~~~~--~~~~~-~ra~a~~~~~l~~~~~~~v~i~l  109 (494)
                      ..|...++..+.. .....+....-+-..--||      =|+=+..++.  ++.+. .++...+..++...+..=++=+-
T Consensus        77 ~~L~~ll~~~g~~-~~~~l~~d~~rpT~~K~Rv~a~~~QQllR~D~E~~~~~~~~~~~~L~~~~~~~l~~~d~VvLSDYa  155 (321)
T TIGR02198        77 KALEALLKEEGID-DTSGLIRDKSRPTTTKTRVLARANQQLLRVDFEERKPINAEEEARLLAAIKEQLASADAVVLSDYA  155 (321)
T ss_pred             HHHHHHHHHCCCC-CCCCEEEECCCCCEEEEEEEECCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECC
T ss_conf             9999999745864-330027768989448888860465058997410277689778999999999972328789998668


Q ss_pred             CCCCCCHHHHHHHHHHHHHC---------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78999989999999999714---------777544443643332321000133322457737899999999999999998
Q gi|254780392|r  110 PEYPITKAEIRDLVLGFMLK---------TYTFDQYKTKKRESSSPRSKENISVTIVTEMIQQSSQVVADIQSVVKGVNL  180 (494)
Q Consensus       110 ~~~~~~~~~~~~~~eG~~L~---------~Y~Fd~yKskk~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~~aiaegv~l  180 (494)
                       .......-++.+..-+.-.         .=.|.+|+..               ++...+.++.+               
T Consensus       156 -KGvLt~~v~~~~I~~Ar~~~~pVlVDPKg~df~~Y~GA---------------tl~TPN~~E~~---------------  204 (321)
T TIGR02198       156 -KGVLTPSVVQEVIAAAREAGKPVLVDPKGKDFSRYRGA---------------TLITPNRKEAE---------------  204 (321)
T ss_pred             -CCCCCHHHHHHHHHHHHHCCCCEEEECCCCCHHHHCCC---------------CCCCCCHHHHH---------------
T ss_conf             -76358578999999999668919980787623451466---------------42366879999---------------


Q ss_pred             HHHHCCCCC-EEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHHHHHHHH
Q ss_conf             642021254-030299999999986-113321000011100013458988
Q gi|254780392|r  181 ARDIINEPA-NVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKLGMNALL  228 (494)
Q Consensus       181 ARDLvN~Pa-N~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~klGMg~ll  228 (494)
                        ..+-.|. ..-++..+.+.+++| .++.++-=++.+.|   .||=.|.
T Consensus       205 --~avG~~~~~~~~~~~~~~aa~~L~~~~~l~alLvTRsE---~GMtL~~  249 (321)
T TIGR02198       205 --AAVGIKFIACENEAELVKAAEKLLEELDLEALLVTRSE---KGMTLFT  249 (321)
T ss_pred             --HHHCCCCHHCCCCHHHHHHHHHHHHHCCCCEEEEEECC---CCCEEEC
T ss_conf             --98588701105817899999999997099679995077---6206676


No 71 
>TIGR00195 exoDNase_III exodeoxyribonuclease III; InterPro: IPR000097 DNA damaging agents such as the antitumor drugs bleomycin and neocarzinostatin or those that generate oxygen radicals produce a variety of lesions in DNA. Amongst these is base-loss which forms apurinic/apyrimidinic (AP) sites or strand breaks with atypical 3' termini. DNA repair at the AP sites is initiated by specific endonuclease cleavage of the phosphodiester backbone. Such endonucleases are also generally capable of removing blocking groups from the 3' terminus of DNA strand breaks.   AP endonucleases can be classified into two families based on sequence similarity. This family contains members of AP endonuclease family 1. Except for Rrp1 and arp, these enzymes are proteins of about 300 amino-acid residues. Rrp1 and arp both contain additional and unrelated sequences in their N-terminal section (about 400 residues for Rrp1 and 270 for arp). The proteins contain glutamate which has been shown , in the Escherichia coli enzyme to bind a divalent metal ion such as magnesium or manganese.; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0006281 DNA repair, 0005622 intracellular.
Probab=31.78  E-value=20  Score=16.00  Aligned_cols=11  Identities=36%  Similarity=0.752  Sum_probs=7.3

Q ss_pred             CCCCCCCCCCC
Q ss_conf             47775444436
Q gi|254780392|r  129 KTYTFDQYKTK  139 (494)
Q Consensus       129 ~~Y~Fd~yKsk  139 (494)
                      +.|+|-.|+++
T Consensus       222 ~~YtWwdYR~~  232 (281)
T TIGR00195       222 GAYTWWDYRTR  232 (281)
T ss_pred             CCCCEEECCCC
T ss_conf             94003311336


No 72 
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=31.55  E-value=12  Score=17.58  Aligned_cols=43  Identities=21%  Similarity=0.394  Sum_probs=28.9

Q ss_pred             EEEEEEECCCCCCCCC-CCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHH
Q ss_conf             8998641026689997-47077630248958886347866403652367887
Q gi|254780392|r  306 AIGVLALVENMPGSSA-QRPGDIVRSMSGQTIEVINTDAEGRLILADALWYC  356 (494)
Q Consensus       306 v~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya  356 (494)
                      .+-+....+|.|...| .+|||.|.+-||+.|+=.+        +.++..+-
T Consensus        14 ~i~V~~v~~~spA~~aGL~~GD~I~~ing~~v~~~~--------~~~~~~~l   57 (70)
T cd00136          14 GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLT--------LEDVAELL   57 (70)
T ss_pred             CEEEEECCCCCHHHHCCCCCCCEEEEECCEECCCCC--------HHHHHHHH
T ss_conf             899998099897998799989999999999968998--------99999996


No 73 
>TIGR01752 flav_long flavodoxin; InterPro: IPR010086   Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They function as electron transfer agents in a variety of microbial metabolic processes, including nitrogen fixation by nitrogenase , sulphite reduction , and light-dependent NADP+ reduction during photosynthesis . This entry describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in Escherichia coli .; GO: 0010181 FMN binding, 0006118 electron transport.
Probab=31.34  E-value=35  Score=14.23  Aligned_cols=52  Identities=12%  Similarity=0.166  Sum_probs=43.1

Q ss_pred             HHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCCCEEEEEC
Q ss_conf             99999808998367878998437888744599994488155899999999999998531697489941
Q gi|254780392|r   41 VMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGIGDPRDANFSWLKAGGSIASYIEEDKNIEIFVD  108 (494)
Q Consensus        41 L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGLG~~~~~~~~~~ra~a~~~~~l~~~~~~~v~i~  108 (494)
                      +-..++.-+|+||.                |-|+|||+....+..+.-+.+.+...++..+.+-+-..
T Consensus        76 ~~~~L~~~dl~GK~----------------VAlfGlGDQ~~Ysd~F~dgmg~L~d~~~~~Ga~~VG~w  127 (176)
T TIGR01752        76 FLSDLEELDLKGKT----------------VALFGLGDQEGYSDTFCDGMGILYDKIKARGAKVVGFW  127 (176)
T ss_pred             HHHHHHHCCCCCCE----------------EEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECC
T ss_conf             76544202358876----------------89972588461106678778899999851588077514


No 74 
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=30.51  E-value=36  Score=14.14  Aligned_cols=85  Identities=21%  Similarity=0.309  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEE
Q ss_conf             89999999987087872899864102668999747077630248958886347866403652367887520796135521
Q gi|254780392|r  289 AVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDL  368 (494)
Q Consensus       289 av~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~  368 (494)
                      .++|.+  ..+|.+||+=.-+--.=++++++ ..-+|.||.+-.|-||.=   =|-||.|+||-|-    -|.-=+||| 
T Consensus       290 ~~~~~~--~G~l~~PV~G~il~rFG~~~~gg-~~wkG~vi~a~~Ga~V~A---~AdG~VvyA~~l~----GYG~vvIld-  358 (420)
T COG4942         290 GGFGAL--RGQLAWPVTGRILRRFGQADGGG-LRWKGMVIGASAGATVKA---IADGRVVYADWLR----GYGLVVILD-  358 (420)
T ss_pred             CCCCCC--CCCCCCCCCCHHHHHHCCCCCCC-CCCCCEEEECCCCCEEEE---CCCCEEEECHHHC----CCCEEEEEE-
T ss_conf             532002--57768887870787734567887-610675873599982562---0695699543325----675699997-


Q ss_pred             CCCCHHHHHHCCCCCEEEEECCHHHH
Q ss_conf             11200235431776057870898999
Q gi|254780392|r  369 ATLTGAMVVSLGNIYAGLFANNDVLA  394 (494)
Q Consensus       369 ATLTGa~~~alG~~~~g~~~n~~~~~  394 (494)
                                .|..|-.||++++.+.
T Consensus       359 ----------hG~gy~slyg~~~~i~  374 (420)
T COG4942         359 ----------HGGGYHSLYGGNQSIL  374 (420)
T ss_pred             ----------CCCCCEEEECCCCEEE
T ss_conf             ----------4885378861664221


No 75 
>PRK08526 threonine dehydratase; Provisional
Probab=30.50  E-value=26  Score=15.14  Aligned_cols=42  Identities=24%  Similarity=0.412  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCC-CCCCCHHHHH
Q ss_conf             2356899999999870878728998641026689-9974707763
Q gi|254780392|r  285 GGAAAVTGLLHVLAERKAKINAIGVLALVENMPG-SSAQRPGDIV  328 (494)
Q Consensus       285 ~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~-~~a~~pgdvi  328 (494)
                      ||..-.-|+..++-.+++.++|+|+=|  |+.|+ -.|.+.|.++
T Consensus       177 GGGGLisGia~a~K~~~P~ikViGVEp--e~a~~m~~Sl~~g~~v  219 (403)
T PRK08526        177 GGGGLISGIASAAKQINPNIKIIGVGA--KGAPAMKESFHAKKIK  219 (403)
T ss_pred             CCCCHHHHHHHHHHHHCCCCCEEEECC--CCCHHHHHHHHCCCCE
T ss_conf             886168999999986299883899664--7876899998769945


No 76 
>PRK12890 allantoate amidohydrolase; Reviewed
Probab=30.03  E-value=37  Score=14.09  Aligned_cols=136  Identities=16%  Similarity=0.135  Sum_probs=93.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHH
Q ss_conf             33200232211235689999999987087872899864102668999747077630248958886347866403652367
Q gi|254780392|r  274 SHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADAL  353 (494)
Q Consensus       274 ~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l  353 (494)
                      +-.|..=|-=|.+||-.+-.+..++.... -..++.++-.+.-|+....-||.|.     -|++|.+.|.+-+--+...+
T Consensus       230 tTPM~~R~DAl~aAa~~i~~i~~~a~~~~-~~~v~TVG~i~v~P~~~NvIPg~v~-----f~lDiRs~d~~~l~~~~~~i  303 (412)
T PRK12890        230 TTPMDLRRDALVAAAEVVTAVERRARALP-GELVATVGRLDVEPNAINVIPGRAV-----FTVDLRSPDDAVLEAAEAAL  303 (412)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHCC-CCEEEEEEEEEECCCCCCEECCEEE-----EEEEEECCCHHHHHHHHHHH
T ss_conf             88832134899999999999999998539-8718998679842775542087589-----99991079999999999999


Q ss_pred             HHHH----HHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCC
Q ss_conf             8875----2079613552111200235431776057870898999999998998569717677686788861798641
Q gi|254780392|r  354 WYCR----THYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFAD  427 (494)
Q Consensus       354 ~ya~----~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD  427 (494)
                      --..    .+.+-.  +++-.+.-.-          -..-|+.+.+.+.++.+..|-+..+||-.--++-+.=+.+.+
T Consensus       304 ~~~~~~ia~~~gv~--~~~~~~~~~~----------pv~~d~~l~~~~~~aa~~~g~~~~~m~SGAGHDA~~~a~~~P  369 (412)
T PRK12890        304 LAELEAIAARRGVR--IDLERTSRSR----------PVPCDPALVDAVEAAAARLGYASRRLPSGAGHDAAAIARIAP  369 (412)
T ss_pred             HHHHHHHHHHCCCE--EEEEEEEECC----------CCCCCHHHHHHHHHHHHHCCCCCCEECCCHHHHHHHHHHHCC
T ss_conf             99999999974984--9999988478----------757799999999999997599972527505699999970588


No 77 
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=29.89  E-value=21  Score=15.83  Aligned_cols=27  Identities=11%  Similarity=0.181  Sum_probs=13.0

Q ss_pred             HHHHHHHHHCCCCCEEECHHHHHHHHH
Q ss_conf             999986420212540302999999999
Q gi|254780392|r  176 KGVNLARDIINEPANVLGTDEFCKQVR  202 (494)
Q Consensus       176 egv~lARDLvN~PaN~ltP~~lA~~a~  202 (494)
                      +-+.+-|+++=.++=.++|.+=.+..+
T Consensus       100 r~i~~Ik~~G~kaGv~lnP~Tp~~~i~  126 (220)
T COG0036         100 RTIQLIKELGVKAGLVLNPATPLEALE  126 (220)
T ss_pred             HHHHHHHHCCCEEEEEECCCCCHHHHH
T ss_conf             999999975985779978999778999


No 78 
>pfam00926 DHBP_synthase 3,4-dihydroxy-2-butanone 4-phosphate synthase. 3,4-Dihydroxy-2-butanone 4-phosphate is biosynthesized from ribulose 5-phosphate and serves as the biosynthetic precursor for the xylene ring of riboflavin. Sometimes found as a bifunctional enzyme with pfam00925.
Probab=29.88  E-value=35  Score=14.24  Aligned_cols=44  Identities=18%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             HHCCCCCEEECHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHHHHH
Q ss_conf             20212540302999999999861133210000111000134589887
Q gi|254780392|r  183 DIINEPANVLGTDEFCKQVRKLESLGVAVEILDKEAMHKLGMNALLA  229 (494)
Q Consensus       183 DLvN~PaN~ltP~~lA~~a~~l~~~gl~v~Vld~~~L~klGMg~lla  229 (494)
                      ||+ .|+..+||+.++-..+.  -.|+=|-.+.++.++++|.+.+..
T Consensus        27 dlv-~~Ae~~t~e~i~fm~~~--~~Glic~a~~~~~~~~LgLp~m~~   70 (193)
T pfam00926        27 DLV-IAAEKVTPESVNFMIRH--ARGLICVALTEERADRLGLPPMVD   70 (193)
T ss_pred             CEE-EEHHHCCHHHHHHHHHH--CCCCEEEECCHHHHHHCCCCCCCC
T ss_conf             489-78444999999999995--897779716999997669956555


No 79 
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular    trafficking, secretion, and vesicular transport]
Probab=29.88  E-value=20  Score=15.96  Aligned_cols=14  Identities=7%  Similarity=0.249  Sum_probs=6.3

Q ss_pred             HHHHHHHCCCEEEE
Q ss_conf             99985316974899
Q gi|254780392|r   93 IASYIEEDKNIEIF  106 (494)
Q Consensus        93 ~~~~l~~~~~~~v~  106 (494)
                      +-..+....+.++.
T Consensus        60 F~~mlreepiE~v~   73 (111)
T COG4043          60 FEEMLREEPIENVL   73 (111)
T ss_pred             HHHHHHHCCHHHHC
T ss_conf             99999854866518


No 80 
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits.  Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=29.67  E-value=37  Score=14.04  Aligned_cols=48  Identities=17%  Similarity=0.075  Sum_probs=31.3

Q ss_pred             CCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCC-CEEEEE
Q ss_conf             7872899864102668999747077630248958886347866-403652
Q gi|254780392|r  302 AKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAE-GRLILA  350 (494)
Q Consensus       302 ~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAE-GRlvLa  350 (494)
                      +.-++.|++|..|=. ...-..|.+.++--.=.++.|.+.|.| +|+.|.
T Consensus        34 l~~~v~Glv~~s~ls-~~~~~~~~~~~~vGq~V~~~V~~iD~e~~ri~LS   82 (83)
T cd04461          34 FLGGLTGLAPKSYIS-DEFVTDPSFGFKKGQSVTAKVTSVDEEKQRFLLS   82 (83)
T ss_pred             ECCCCEEEEEHHHCC-CCCCCCHHHHCCCCCEEEEEEEEEECCCCEEEEE
T ss_conf             569948998999968-6422698994559999999999995898878875


No 81 
>pfam02112 PDEase_II cAMP phosphodiesterases class-II.
Probab=29.15  E-value=38  Score=13.98  Aligned_cols=30  Identities=23%  Similarity=0.446  Sum_probs=16.1

Q ss_pred             CCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEE
Q ss_conf             4895888634786640365236788752079613552
Q gi|254780392|r  331 MSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMID  367 (494)
Q Consensus       331 ~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid  367 (494)
                      ++|.-||.-.+|.     -.|...|.  ++.|+.+|+
T Consensus       231 Lk~I~IEcS~~n~-----~~d~~LyG--HLtP~~Li~  260 (323)
T pfam02112       231 LKAILIECSFPNE-----IPDNELFG--HLTPRLLIN  260 (323)
T ss_pred             CCEEEEEECCCCC-----CCCCCCCC--CCCHHHHHH
T ss_conf             4789999679999-----98440245--798499999


No 82 
>PRK10717 cysteine synthase A; Provisional
Probab=28.89  E-value=38  Score=13.95  Aligned_cols=42  Identities=19%  Similarity=0.264  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHH
Q ss_conf             12356899999999870878728998641026689997470776
Q gi|254780392|r  284 LGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDI  327 (494)
Q Consensus       284 M~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdv  327 (494)
                      +||+....|+.+++-+.++.++|+++-|  ++++--.+++.|+.
T Consensus       184 vGtGG~i~Gi~~~lk~~~p~~~vi~vep--~gS~~~~~~~~g~~  225 (334)
T PRK10717        184 VGTGGTLAGVSRYLKETNPKIRIVLADP--TGSALYSYYKTGEL  225 (334)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCEEEEEEC--CCCCCHHHHHCCCC
T ss_conf             1586238999999997599988999801--78631023205864


No 83 
>TIGR01163 rpe ribulose-phosphate 3-epimerase; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Alcaligenes eutrophus two copies of the gene coding for PPE are known , one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process.
Probab=28.75  E-value=33  Score=14.41  Aligned_cols=48  Identities=15%  Similarity=0.192  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCHHHHHHHHH-H---HHHCCCCCC
Q ss_conf             99999999999985316974899417789999899999999-9---971477754
Q gi|254780392|r   84 FSWLKAGGSIASYIEEDKNIEIFVDVPEYPITKAEIRDLVL-G---FMLKTYTFD  134 (494)
Q Consensus        84 ~~~~ra~a~~~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~e-G---~~L~~Y~Fd  134 (494)
                      .+..|...+...++.......+.+  ++ ..+..+++.+++ |   +..|||-|.
T Consensus       151 ~~Kir~~R~~id~~~~~~~~~ieV--DG-Gv~~~ni~~~~~AGAD~~VaGSaiF~  202 (216)
T TIGR01163       151 LEKIRELRKMIDKLELGLSILIEV--DG-GVNEDNIAEVAEAGADILVAGSAIFG  202 (216)
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEE--CC-CCCHHHHHHHHHCCCCEEEEEEEEEC
T ss_conf             999999999998602799558997--17-98976799999758989998310208


No 84 
>pfam05666 Fels1 Fels-1 Prophage Protein-like.
Probab=28.42  E-value=21  Score=15.83  Aligned_cols=19  Identities=32%  Similarity=0.294  Sum_probs=13.6

Q ss_pred             EEEEECCEEECCCCCCCCC
Q ss_conf             2663021120066310033
Q gi|254780392|r  255 LAFIGKGVVFDTGGISIKP  273 (494)
Q Consensus       255 iaLVGKGvTFDtGGislKp  273 (494)
                      ++=+--.+|.||+|||+.-
T Consensus        19 ~CD~~~~~C~ds~giS~~l   37 (45)
T pfam05666        19 LCDRKERLCADSGGISRAL   37 (45)
T ss_pred             EECCCCCEEECCCCCCHHH
T ss_conf             5647567563688767889


No 85 
>PRK09374 rplB 50S ribosomal protein L2; Validated
Probab=28.30  E-value=39  Score=13.89  Aligned_cols=25  Identities=12%  Similarity=0.442  Sum_probs=17.3

Q ss_pred             CCEEEEEECCCCCCCCCCEEEEECCEEECCC
Q ss_conf             8506886205788656512663021120066
Q gi|254780392|r  237 PPYLAVMKWEGGDSEEQPLAFIGKGVVFDTG  267 (494)
Q Consensus       237 ~Prli~l~Y~g~~~~~~piaLVGKGvTFDtG  267 (494)
                      +...+.+||-|..  ...||||    .|..|
T Consensus        75 ~~~V~~IeYDPnR--sa~IALv----~y~dG   99 (276)
T PRK09374         75 PAKVERIEYDPNR--SANIALL----HYADG   99 (276)
T ss_pred             CEEEEEEEECCCC--CCEEEEE----ECCCC
T ss_conf             6699999867998--8338999----85899


No 86 
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=28.23  E-value=19  Score=16.13  Aligned_cols=31  Identities=26%  Similarity=0.535  Sum_probs=21.4

Q ss_pred             EEEEEECCCCCCCCC-CCHHHHHCCCCCCEEE
Q ss_conf             998641026689997-4707763024895888
Q gi|254780392|r  307 IGVLALVENMPGSSA-QRPGDIVRSMSGQTIE  337 (494)
Q Consensus       307 ~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tve  337 (494)
                      +-+.-..++.|...+ .+|||+|.+-||..++
T Consensus        28 v~I~~v~~~s~A~~~Gl~~GD~I~~vng~~v~   59 (85)
T smart00228       28 VVVSSVVPGSPAAKAGLKVGDVILEVNGTSVE   59 (85)
T ss_pred             EEEEEECCCCHHHHCCCCCCCEEEEECCEECC
T ss_conf             99999879994787689899999999999989


No 87 
>PRK08588 succinyl-diaminopimelate desuccinylase; Reviewed
Probab=27.93  E-value=40  Score=13.84  Aligned_cols=15  Identities=0%  Similarity=-0.020  Sum_probs=9.3

Q ss_pred             HHHHHHHHHCCCCCC
Q ss_conf             889999998089983
Q gi|254780392|r   38 PSIVMRAVSVKNFIG   52 (494)
Q Consensus        38 ~~~L~~~i~~~~F~G   52 (494)
                      ...|..+++..+|.-
T Consensus        25 ~~~l~~~l~~~G~~~   39 (378)
T PRK08588         25 ANYLQDLFAKHGIES   39 (378)
T ss_pred             HHHHHHHHHHCCCCE
T ss_conf             999999999889967


No 88 
>cd07143 ALDH_AldA_AN0554 Aspergillus nidulans aldehyde dehydrogenase, AldA (AN0554)-like. NAD(P)+-dependent aldehyde dehydrogenase (AldA) of Aspergillus nidulans (locus AN0554), and other similar sequences, are present in this CD.
Probab=27.45  E-value=41  Score=13.78  Aligned_cols=93  Identities=22%  Similarity=0.262  Sum_probs=57.3

Q ss_pred             HHHCCCCE-EEEECCCCHHHHHHCCCC---CEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCC
Q ss_conf             52079613-552111200235431776---05787089899999999899856971767768678886179864170188
Q gi|254780392|r  357 RTHYNPHL-MIDLATLTGAMVVSLGNI---YAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADMKNIG  432 (494)
Q Consensus       357 ~~~~~p~~-iid~ATLTGa~~~alG~~---~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~  432 (494)
                      .+-|.|-+ |+-+.++-=|+-.|=...   .+++||+|...+.++.+.= ++|--.+--...  +  ...-++.-+|++|
T Consensus       384 eEiFGPVl~i~~~~~~eEAi~~aN~t~yGL~a~VfT~d~~~a~~~a~~l-~~G~v~IN~~~~--~--~~~~PfGG~K~SG  458 (481)
T cd07143         384 EEIFGPVVAVIKFKTEEEAIKRANDSTYGLAAAVFTNNINNAIRVANAL-KAGTVWVNCYNL--L--HHQVPFGGYKQSG  458 (481)
T ss_pred             CCCCCCEEEEEEECCHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHC-CEEEEEECCCCC--C--CCCCCCCCCCCCC
T ss_conf             5566757999996999999999868999876999858999999999868-871799879988--7--8898837635271


Q ss_pred             -CCCHHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             -874679999999987238867699940
Q gi|254780392|r  433 -GRGAGSIVAAQFLEKFVQDASWAHIDI  459 (494)
Q Consensus       433 -~~~~g~~~aa~fl~~f~~~~~w~HlDi  459 (494)
                       ||.+|.-    -|++|+ .++|+|+++
T Consensus       459 ~Gre~G~~----gl~~ft-~~K~v~i~l  481 (481)
T cd07143         459 IGRELGEY----ALENYT-QIKAVHINL  481 (481)
T ss_pred             CCCHHHHH----HHHHHC-CCEEEEEEC
T ss_conf             77242899----999833-601999949


No 89 
>pfam04767 Pox_F17 DNA-binding 11 kDa phosphoprotein. Family of poxvirus proteins required for virus morphogenesis. Protein function necessary for proteolytic processing of the major viral structural proteins, P4a and P4b.
Probab=27.41  E-value=28  Score=14.96  Aligned_cols=13  Identities=54%  Similarity=0.708  Sum_probs=8.3

Q ss_pred             EEEEECCCCCCEEE
Q ss_conf             88863478664036
Q gi|254780392|r  335 TIEVINTDAEGRLI  348 (494)
Q Consensus       335 tvei~nTDAEGRlv  348 (494)
                      |==|+||| |||..
T Consensus         5 ~PFiint~-eGRyL   17 (98)
T pfam04767         5 TPFIINTK-EGRYL   17 (98)
T ss_pred             CCEEEECC-CCEEE
T ss_conf             87588725-76088


No 90 
>PRK08198 threonine dehydratase; Provisional
Probab=27.10  E-value=41  Score=13.74  Aligned_cols=57  Identities=25%  Similarity=0.486  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHH
Q ss_conf             12356899999999870878728998641026689997470776302489588863478664036523678
Q gi|254780392|r  284 LGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALW  354 (494)
Q Consensus       284 M~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~  354 (494)
                      .||..-.-|+..++..+++.++|+|+=|  |+.|+       =..--.+|+-|++...|     .+||++.
T Consensus       180 vGGGGLiaGia~a~K~~~P~ikViGVEp--e~a~~-------~~~Sl~ag~~v~~~~~~-----tiADGia  236 (406)
T PRK08198        180 IGGGGLISGVATAVKALRPNVRVIGVQA--EGAPA-------MPLSLAAGRPVELESVD-----TIADGIA  236 (406)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCEEEEEE--CCCHH-------HHHHHHCCCCEECCCCC-----EEECCCC
T ss_conf             7862688999999998689970899965--78768-------99999849956559999-----7971144


No 91 
>PRK07495 4-aminobutyrate aminotransferase; Provisional
Probab=26.89  E-value=42  Score=13.72  Aligned_cols=61  Identities=23%  Similarity=0.281  Sum_probs=35.3

Q ss_pred             CEEECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCC
Q ss_conf             40302999999999861-13321000011100013458988742025778506886205788656512663021120066
Q gi|254780392|r  189 ANVLGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTG  267 (494)
Q Consensus       189 aN~ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtG  267 (494)
                      +.+..|..|-+.+++++ ++|+ +=|+||-+.==-..|-+.+             .+|-+-   ++.|+-+|||++   |
T Consensus       210 G~~~~~~~yl~~lr~lc~~~gi-llI~DEV~TGfGRtG~~fa-------------~e~~gv---~PDiv~~gKgl~---g  269 (422)
T PRK07495        210 GFYPAPAAFMKALRELCDQHGI-LLIADEVQTGFARTGKLFA-------------MEHHEV---AADLTTMAKSLA---G  269 (422)
T ss_pred             CCEECCHHHHHHHHHHHHHCCC-EEECCCCCCCCCCCCCCHH-------------HHCCCC---CCCEEEECHHHH---C
T ss_conf             8663888999999999987396-6877630108876655026-------------544899---980999641542---8


Q ss_pred             CC
Q ss_conf             31
Q gi|254780392|r  268 GI  269 (494)
Q Consensus       268 Gi  269 (494)
                      |+
T Consensus       270 G~  271 (422)
T PRK07495        270 GF  271 (422)
T ss_pred             CC
T ss_conf             87


No 92 
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=26.59  E-value=32  Score=14.50  Aligned_cols=16  Identities=13%  Similarity=0.135  Sum_probs=6.5

Q ss_pred             HHHHHHCCCEEEEECC
Q ss_conf             9985316974899417
Q gi|254780392|r   94 ASYIEEDKNIEIFVDV  109 (494)
Q Consensus        94 ~~~l~~~~~~~v~i~l  109 (494)
                      .+.+...+...+.++.
T Consensus        31 i~~l~~~g~d~lHiDI   46 (235)
T PRK08091         31 LQQLEALNQPLLHFDI   46 (235)
T ss_pred             HHHHHHCCCCEEEECC
T ss_conf             9999977999999818


No 93 
>PRK00326 cell division protein MraZ; Reviewed
Probab=26.50  E-value=11  Score=17.68  Aligned_cols=28  Identities=29%  Similarity=0.553  Sum_probs=15.1

Q ss_pred             HHHHCCCCCCEEEEECCCCCCEEEEEHHH
Q ss_conf             77630248958886347866403652367
Q gi|254780392|r  325 GDIVRSMSGQTIEVINTDAEGRLILADAL  353 (494)
Q Consensus       325 gdvi~~~~G~tvei~nTDAEGRlvLaD~l  353 (494)
                      .+..+.+.+.+.|+ ..|..||++|-+.|
T Consensus        70 ~~~~r~~~~~a~~~-~~D~~GRi~lP~~l   97 (147)
T PRK00326         70 RAFQRLLLGGAVEV-ELDKQGRILIPPNL   97 (147)
T ss_pred             HHHHHHHHCCCCEE-EECCCCCEECCHHH
T ss_conf             99999984377050-06798718689999


No 94 
>PRK13590 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional
Probab=26.29  E-value=43  Score=13.64  Aligned_cols=136  Identities=14%  Similarity=0.135  Sum_probs=94.0

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHH
Q ss_conf             33200232211235689999999987087872899864102668999747077630248958886347866403652367
Q gi|254780392|r  274 SHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADAL  353 (494)
Q Consensus       274 ~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l  353 (494)
                      +--|..=|-=|.+||-++-.+.-++....  +.++.++-.+--|+..-.-||.|.     -||+|.+.|.+-|--+.+.+
T Consensus       407 TTPM~~RrDAl~aAAelil~ve~~a~~~~--~~VaTVG~i~v~Pns~NVIPG~v~-----ftlDiR~~~d~~~~~~~~~i  479 (590)
T PRK13590        407 TTPMDRRRDAATAVAELALYVEQRAAADG--DSVGTVGMLEVPGGSINVVPGRCR-----FSLDLRAPTDAQRDALAADV  479 (590)
T ss_pred             CCCHHHHCCHHHHHHHHHHHHHHHHHHCC--CEEEEEEEEEECCCCCCEECCEEE-----EEEECCCCCHHHHHHHHHHH
T ss_conf             88745522399999999999999986379--869999999606997541687489-----99982489989999999999


Q ss_pred             HHHH----HHCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCE
Q ss_conf             8875----20796135521112002354317760578708989999999989985697176776867888617986417
Q gi|254780392|r  354 WYCR----THYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADM  428 (494)
Q Consensus       354 ~ya~----~~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~  428 (494)
                      .-..    .+.+-.  +++-.+.-..         . ..-|..+.+.+.++.+..|-+.++||-.-.++-+.=+.+.+.
T Consensus       480 ~~~~~~Ia~~rgl~--~~~e~~~~~~---------p-~~~d~~l~~~le~aa~~lG~~~~~m~SGAGHDA~~ma~i~Pt  546 (590)
T PRK13590        480 LAQLEAIAERRGLH--YTLEETMRAA---------A-APSAPAWQRRWEAAVAALGLPVHRMPSGAGHDAMKLHEIMPQ  546 (590)
T ss_pred             HHHHHHHHHHCCCC--EEEEEEECCC---------C-CCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCCE
T ss_conf             99999999984993--7999985179---------9-779999999999999976999740187726999999754887


No 95 
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=26.28  E-value=14  Score=17.08  Aligned_cols=13  Identities=46%  Similarity=0.641  Sum_probs=7.9

Q ss_pred             CCCCCHHHHHCCC
Q ss_conf             9974707763024
Q gi|254780392|r  319 SSAQRPGDIVRSM  331 (494)
Q Consensus       319 ~~a~~pgdvi~~~  331 (494)
                      .++|||||||+++
T Consensus       117 ~d~fr~gDIVrAk  129 (187)
T PRK09521        117 TDAFKIGDIVRAK  129 (187)
T ss_pred             HHHCCCCCEEEEE
T ss_conf             7524878689999


No 96 
>TIGR01477 RIFIN variant surface antigen, rifin family; InterPro: IPR006373   Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see .   This entry represents the rifin family of variant surface antigens, encoded by the rif (short for "repetetive interspersed family") genes. This is the largest variant surface antigen family in P. falciparum, with roughly 150 genes present in the genome of this parasite . The function of these proteins is not yet known, but rifins are strongly immunogenic and high levels of anti-rifin antibodies are correlated with rapid parasite clearance and asymptomatic infections . .
Probab=25.59  E-value=27  Score=15.01  Aligned_cols=20  Identities=15%  Similarity=0.122  Sum_probs=13.1

Q ss_pred             CCCCCEEECHHHHHHHHHHH
Q ss_conf             21254030299999999986
Q gi|254780392|r  185 INEPANVLGTDEFCKQVRKL  204 (494)
Q Consensus       185 vN~PaN~ltP~~lA~~a~~l  204 (494)
                      +=.|.|.-+|..|.+.+.+.
T Consensus       241 i~~~~nY~~~~~l~~~i~~~  260 (395)
T TIGR01477       241 IINASNYTNPSLLSDAIYKE  260 (395)
T ss_pred             CCCCCCCCCHHHHHHHHHHH
T ss_conf             04765654167899999998


No 97 
>PRK06382 threonine dehydratase; Provisional
Probab=25.57  E-value=42  Score=13.66  Aligned_cols=43  Identities=23%  Similarity=0.417  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCC-CCCCHHHHHC
Q ss_conf             23568999999998708787289986410266899-9747077630
Q gi|254780392|r  285 GGAAAVTGLLHVLAERKAKINAIGVLALVENMPGS-SAQRPGDIVR  329 (494)
Q Consensus       285 ~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~-~a~~pgdvi~  329 (494)
                      ||..-+-|+-.++..+++.++|+|+=|  |+.|+- .|.+.|-+++
T Consensus       176 GGGGLisGia~a~K~~~P~ikViGVEp--e~a~~~~~sl~~g~~v~  219 (400)
T PRK06382        176 GGGGLISGIALAAKHINPNVKIIGIES--ELSDSMKASLREGKIVA  219 (400)
T ss_pred             CCCHHHHHHHHHHHHHCCCCEEEEECC--CCCHHHHHHHHCCCCCC
T ss_conf             871588999999998599975999796--89878999987799620


No 98 
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=25.50  E-value=34  Score=14.34  Aligned_cols=60  Identities=17%  Similarity=0.298  Sum_probs=32.8

Q ss_pred             HHCCCCCEEECHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEEC
Q ss_conf             202125403029999999998611332100001110001345898874202577850688620
Q gi|254780392|r  183 DIINEPANVLGTDEFCKQVRKLESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKW  245 (494)
Q Consensus       183 DLvN~PaN~ltP~~lA~~a~~l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y  245 (494)
                      ||+ .|+..+||+.++-.++.  ..|+-|-.+.++.++++|.+.+..-+..+...+..|-+.+
T Consensus        43 Dlv-~aAe~~t~e~i~fm~~~--~~GliC~~~~~~~~~~L~Lp~mv~~~~~~~~taftvsvda  102 (218)
T PRK00910         43 DII-YSVEHLTNAQMALMIRE--CSGIVCLCLTDEQANKLELPPMVVNNNSANQTAFTVSIEA  102 (218)
T ss_pred             CEE-EEHHHCCHHHHHHHHHH--CCCCEEEECCHHHHHHCCCCCCCCCCCCCCCCCCEEEEEE
T ss_conf             168-67664999999999995--9971996479999977799865678888788762688760


No 99 
>PRK12394 putative metallo-dependent hydrolase; Provisional
Probab=25.43  E-value=27  Score=15.07  Aligned_cols=47  Identities=19%  Similarity=0.356  Sum_probs=28.7

Q ss_pred             CCCCHHHHHCC-CCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCH
Q ss_conf             97470776302-4895888634786640365236788752079613552111200
Q gi|254780392|r  320 SAQRPGDIVRS-MSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTG  373 (494)
Q Consensus       320 ~a~~pgdvi~~-~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTG  373 (494)
                      .-+|||||+|- ++|+.=.|.+-|  |+++  ..+.-|   .+.-.++|+..=++
T Consensus       204 ~~lr~GDI~tH~f~~~~~~i~~~~--g~v~--~~v~~A---~~rGv~fDvghG~~  251 (387)
T PRK12394        204 SLLRRGDIIAHAFHGKGSTILTDE--GAVL--AEVRQA---RERGVIFDAANGRS  251 (387)
T ss_pred             HHHCCCCEEEEECCCCCCCEECCC--CCCH--HHHHHH---HCCCEEEEECCCCC
T ss_conf             874569889862158888646888--7482--999987---50876899358888


No 100
>PRK05581 ribulose-phosphate 3-epimerase; Validated
Probab=25.20  E-value=41  Score=13.76  Aligned_cols=14  Identities=36%  Similarity=0.242  Sum_probs=5.5

Q ss_pred             HHHHCCCEEEEECC
Q ss_conf             85316974899417
Q gi|254780392|r   96 YIEEDKNIEIFVDV  109 (494)
Q Consensus        96 ~l~~~~~~~v~i~l  109 (494)
                      .+...+...+.+++
T Consensus        24 ~l~~~g~~~lHiDI   37 (220)
T PRK05581         24 AVEAAGADWIHVDV   37 (220)
T ss_pred             HHHHCCCCEEEEEC
T ss_conf             99976999899957


No 101
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=25.20  E-value=23  Score=15.53  Aligned_cols=31  Identities=19%  Similarity=0.290  Sum_probs=24.3

Q ss_pred             EEEEEECCCCCCCCC-CCHHHHHCCCCCCEEE
Q ss_conf             998641026689997-4707763024895888
Q gi|254780392|r  307 IGVLALVENMPGSSA-QRPGDIVRSMSGQTIE  337 (494)
Q Consensus       307 ~~~~~~~EN~~~~~a-~~pgdvi~~~~G~tve  337 (494)
                      +-|.-..+|.|...| .+|||+|.+.||..|.
T Consensus        14 ~~V~~V~~~sPA~~AGl~~GD~IvaidG~~v~   45 (80)
T cd00990          14 GKVTFVRDDSPADKAGLVAGDELVAVNGWRVD   45 (80)
T ss_pred             EEEEEECCCCHHHHCCCCCCCEEEEECCEEEH
T ss_conf             99999888996998599989999999999923


No 102
>TIGR03240 arg_catab_astD succinylglutamic semialdehyde dehydrogenase. Members of this protein family are succinylglutamic semialdehyde dehydrogenase (EC 1.2.1.71), the fourth enzyme in the arginine succinyltransferase (AST) pathway for arginine catabolism.
Probab=25.15  E-value=45  Score=13.50  Aligned_cols=97  Identities=18%  Similarity=0.356  Sum_probs=62.1

Q ss_pred             HHHCCCCE-EEEECCCCHHHHHHCCCC---CEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCC
Q ss_conf             52079613-552111200235431776---05787089899999999899856971767768678886179864170188
Q gi|254780392|r  357 RTHYNPHL-MIDLATLTGAMVVSLGNI---YAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADMKNIG  432 (494)
Q Consensus       357 ~~~~~p~~-iid~ATLTGa~~~alG~~---~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~  432 (494)
                      ++-|.|-. |+-+-++--|+-.|=...   .+++||+|..-+..+.+. -++|--.|--|....   ...-++.=+|++|
T Consensus       372 eEiFGPVl~V~~~~~~dEAI~~aN~t~yGL~a~V~t~d~~~a~~~a~~-l~aG~V~iN~~~~~~---~~~~PFGG~K~SG  447 (484)
T TIGR03240       372 EEHFGPLLQVIRYDDFDEAIAIANNTRFGLSAGLLSDDRELYDRFLLE-IRAGIVNWNKPLTGA---SSAAPFGGIGASG  447 (484)
T ss_pred             CCCCCCEEEEEEECCHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHH-CCEEEEEEECCCCCC---CCCCCCCCCCCCC
T ss_conf             887471489998399999999984899888599984899999999986-882079998998888---8799878765285


Q ss_pred             -CCCHHHHHHHHHHHHHCCCCCEEEEEEEECC
Q ss_conf             -8746799999999872388676999400001
Q gi|254780392|r  433 -GRGAGSIVAAQFLEKFVQDASWAHIDIAGVA  463 (494)
Q Consensus       433 -~~~~g~~~aa~fl~~f~~~~~w~HlDiag~a  463 (494)
                       ||.+|.-.    +..|+.  ||+||.+--.+
T Consensus       448 ~GRe~g~~~----~d~~~~--~~~~~~~~~~~  473 (484)
T TIGR03240       448 NHRPSAYYA----ADYCAY--PVASLEADSLT  473 (484)
T ss_pred             CCCCCCHHH----HHHHHH--HHHEECCCCCC
T ss_conf             898876688----886331--15202056445


No 103
>KOG3332 consensus
Probab=25.12  E-value=28  Score=14.94  Aligned_cols=22  Identities=9%  Similarity=0.069  Sum_probs=13.1

Q ss_pred             HHHHCCCCCEEECHHHHHHHHH
Q ss_conf             6420212540302999999999
Q gi|254780392|r  181 ARDIINEPANVLGTDEFCKQVR  202 (494)
Q Consensus       181 ARDLvN~PaN~ltP~~lA~~a~  202 (494)
                      ++++-+-|.....|+.+++...
T Consensus       108 ~~~f~Dg~~~~Wd~~~v~~~l~  129 (247)
T KOG3332         108 TPFFQDGPGEDWDPDAVASILL  129 (247)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHH
T ss_conf             7767778544468889999999


No 104
>PRK06833 L-fuculose phosphate aldolase; Provisional
Probab=24.85  E-value=45  Score=13.47  Aligned_cols=54  Identities=13%  Similarity=0.203  Sum_probs=42.5

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHHHCCC
Q ss_conf             33224577378999999999999999986420212540302999999999861133
Q gi|254780392|r  153 SVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKLESLG  208 (494)
Q Consensus       153 ~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l~~~g  208 (494)
                      .+...+.+..++-......+-.++-...||.|+  .++.+.++.+.+..++++.+|
T Consensus       158 Gvi~~G~~l~eA~~~~~~lE~~a~~~~~a~~~G--~~~~l~~e~i~~~~~~~~~yg  211 (214)
T PRK06833        158 GLLAGANNLKNAFNIAEEIEFCAEIYYQTKSIG--EPKLLPEDEMENMAKKFKGYG  211 (214)
T ss_pred             CEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCC--CCCCCCHHHHHHHHHHHHCCC
T ss_conf             527868999999999999999999999998459--997499999999999985659


No 105
>pfam03123 CAT_RBD CAT RNA binding domain. This RNA binding domain is found at the amino terminus of transcriptional antitermination proteins such as BglG, SacY and LicT. These proteins control the expression of sugar metabolising operons in Gram+ and Gram- bacteria. This domain has been called the CAT (Co-AntiTerminator) domain. It binds as a dimer to short Ribonucleotidic Anti-Terminator (RAT) hairpin, each monomer interacting symmetrically with both strands of the RAT hairpin. In the full-length protein, CAT is followed by two phosphorylatable PTS regulation domains (pfam00874) that modulate the RNA binding activity of CAT. Upon activation, the dimeric proteins bind to RAT targets in the nascent mRNA, thereby preventing abortive dissociation of the RNA polymerase from the DNA template.
Probab=24.09  E-value=46  Score=13.42  Aligned_cols=15  Identities=27%  Similarity=0.709  Sum_probs=10.6

Q ss_pred             CCCEEEEECCEEECC
Q ss_conf             651266302112006
Q gi|254780392|r  252 EQPLAFIGKGVVFDT  266 (494)
Q Consensus       252 ~~piaLVGKGvTFDt  266 (494)
                      .+-+.+.||||-|-.
T Consensus        19 ~~E~Iv~GkGIgF~k   33 (55)
T pfam03123        19 GNEVIVMGKGIAFNK   33 (55)
T ss_pred             CCEEEEEECCEEECC
T ss_conf             999999976602288


No 106
>KOG1352 consensus
Probab=23.93  E-value=47  Score=13.35  Aligned_cols=121  Identities=12%  Similarity=0.145  Sum_probs=56.0

Q ss_pred             CCCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCC--C-EEEEECCCCCCCCHHHH--HHHHHHHHHCCCCCCCCCCCC
Q ss_conf             874459999448815589999999999999853169--7-48994177899998999--999999971477754444364
Q gi|254780392|r   66 CVWDRLVVAGIGDPRDANFSWLKAGGSIASYIEEDK--N-IEIFVDVPEYPITKAEI--RDLVLGFMLKTYTFDQYKTKK  140 (494)
Q Consensus        66 ~~~~rViLVGLG~~~~~~~~~~ra~a~~~~~l~~~~--~-~~v~i~l~~~~~~~~~~--~~~~eG~~L~~Y~Fd~yKskk  140 (494)
                      ++.+.|+.||||+...--.+.++-.-.+.-......  + +...+ +.+..+-...+  +.+-.|+.|+-|--|.-+   
T Consensus       269 SNSD~iiYVGCGERGNEMsEVL~dFPeLt~ev~G~~esiMKRT~L-VANTSNMPVAAREASIYTGITlsEYfRDmG~---  344 (618)
T KOG1352         269 SNSDAIIYVGCGERGNEMSEVLMDFPELTMEVDGKTESIMKRTAL-VANTSNMPVAAREASIYTGITLSEYFRDMGY---  344 (618)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCHHHEEECCCCCHHHHHHHHH-HHCCCCCCHHHHHHHHHHCEEHHHHHHHCCC---
T ss_conf             578769997366652158999873712286348842145544122-1047888504432023315069999986276---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECHHHHHHHHHHH-HCCC-CCH
Q ss_conf             3332321000133322457737899999999999999998642021254030299999999986-1133-210
Q gi|254780392|r  141 RESSSPRSKENISVTIVTEMIQQSSQVVADIQSVVKGVNLARDIINEPANVLGTDEFCKQVRKL-ESLG-VAV  211 (494)
Q Consensus       141 ~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~~aiaegv~lARDLvN~PaN~ltP~~lA~~a~~l-~~~g-l~v  211 (494)
                                  ++....+....-.+++++         ..-+|..+|+.--+|.||..+...+ .+.| ++|
T Consensus       345 ------------nVsMmADStSRWAEALRE---------ISGRLaEMPADsGyPAYLgArLAsFYERAG~vkc  396 (618)
T KOG1352         345 ------------NVSMMADSTSRWAEALRE---------ISGRLAEMPADSGYPAYLGARLASFYERAGRVKC  396 (618)
T ss_pred             ------------CEEEEECCHHHHHHHHHH---------HHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCEEE
T ss_conf             ------------445541544689999998---------6305641867679727888899999986470254


No 107
>PRK06446 hypothetical protein; Provisional
Probab=23.93  E-value=47  Score=13.35  Aligned_cols=16  Identities=25%  Similarity=0.509  Sum_probs=12.7

Q ss_pred             CCCHHHHHHHHHHHCC
Q ss_conf             4358999999997668
Q gi|254780392|r  478 GFGVRLLDEFVRAFYE  493 (494)
Q Consensus       478 g~~vr~l~~~~~~~~~  493 (494)
                      -.+++.+.+||++||-
T Consensus       417 ~k~i~~~~~~i~~y~~  432 (433)
T PRK06446        417 YKAIEHTKEFLREYYH  432 (433)
T ss_pred             HHHHHHHHHHHHHHCC
T ss_conf             9999999999998748


No 108
>PRK09290 allantoate amidohydrolase; Reviewed
Probab=23.70  E-value=47  Score=13.32  Aligned_cols=136  Identities=15%  Similarity=0.179  Sum_probs=94.9

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHH
Q ss_conf             33200232211235689999999987087872899864102668999747077630248958886347866403652367
Q gi|254780392|r  274 SHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADAL  353 (494)
Q Consensus       274 ~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l  353 (494)
                      .-.|+.=|-=|.+||-++-.+..++... .-..++.++-.+.-|+....-||-|.     -|+||.+.|.|-+--+.+.+
T Consensus       229 ttPM~~R~DAl~aaa~~i~~v~~~a~~~-~~~~vaTvG~i~~~P~a~NvIPg~v~-----ftvDiRs~~~~~l~~~~~~i  302 (412)
T PRK09290        229 TTPMALRRDALLAAAEIILAVERIAAAH-GPDLVATVGRLEVYPNSRNVIPGEVT-----FTLDIRHPDDAVLDAMVAEL  302 (412)
T ss_pred             CCCHHHCCCHHHHHHHHHHHHHHHHHHH-CCCCEEEEEEEEECCCCCCCCCCEEE-----EEEEECCCCHHHHHHHHHHH
T ss_conf             8963534079999999999999999972-99838987899835874642188689-----99982278999999999999


Q ss_pred             HHHHH----HCCCCEEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCC
Q ss_conf             88752----079613552111200235431776057870898999999998998569717677686788861798641
Q gi|254780392|r  354 WYCRT----HYNPHLMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFAD  427 (494)
Q Consensus       354 ~ya~~----~~~p~~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD  427 (494)
                      .-..+    +.+-.  +++-.+.        ...+..|  |+.+.+.+.++.+..|-+.-+||-.--++-+.=+.+.+
T Consensus       303 ~~~~~~ia~~~g~~--~e~~~~~--------~~~pv~~--d~~l~~~~~~aa~~~g~~~~~m~SGAGHDA~~~a~~~P  368 (412)
T PRK09290        303 RAAAEAIAARRGVG--IEIELIS--------DFAPVPF--DPALVAALERAAEALGLSYRRLPSGAGHDAQILAAVVP  368 (412)
T ss_pred             HHHHHHHHHHHCCE--EEEEEEE--------ECCCCCC--CHHHHHHHHHHHHHCCCCCEECCCCHHHHHHHHHCCCC
T ss_conf             99999999972976--9999998--------3598567--99999999999997599951405506789999865188


No 109
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase; InterPro: IPR006551   These proteins catalyse the dephosphorylation of DNA 3'-phosphates. It is believed that this activity is important for the repair of single-strand breaks in DNA caused by radiation or oxidative damage. This region is often , , but not always linked to a DNA 5'-kinase domain , . As is common in this superfamily, DNA 3-phosphatase is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the usual site which may indicate a slightly different fold in this region..
Probab=23.54  E-value=48  Score=13.30  Aligned_cols=31  Identities=6%  Similarity=0.050  Sum_probs=13.7

Q ss_pred             CCCCCHHHHHHHHHCCCCCCCCCCEEEEECCCC
Q ss_conf             123888899999980899836787899843788
Q gi|254780392|r   33 SLIGSPSIVMRAVSVKNFIGESKSHLNILAPVD   65 (494)
Q Consensus        33 ~~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g   65 (494)
                      .....+..|.+++..-  .-+.|-.+.|.+.+.
T Consensus        51 ~~~~~p~kL~~LCnii--d~~~gY~iVIftNQ~   81 (239)
T TIGR01664        51 LFKEVPEKLKELCNII--DEDEGYKIVIFTNQS   81 (239)
T ss_pred             CCCCCHHHHHHHHHHH--CCCCCEEEEEEECCC
T ss_conf             2554147999885441--035870799987146


No 110
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=23.33  E-value=48  Score=13.27  Aligned_cols=80  Identities=21%  Similarity=0.145  Sum_probs=44.0

Q ss_pred             CCCCEEEEEHHHHHHH----H-HCCCCEEEEECCCCHHHHHHC-CCCCEEEEECCHHHHHHHHHHH--------------
Q ss_conf             8664036523678875----2-079613552111200235431-7760578708989999999989--------------
Q gi|254780392|r  342 DAEGRLILADALWYCR----T-HYNPHLMIDLATLTGAMVVSL-GNIYAGLFANNDVLAEQLLSSG--------------  401 (494)
Q Consensus       342 DAEGRlvLaD~l~ya~----~-~~~p~~iid~ATLTGa~~~al-G~~~~g~~~n~~~~~~~~~~a~--------------  401 (494)
                      |.-|-++++|+=.++-    . .-+|=.--|+-|=|-+-  .| |+.-.-+|+|+++++++|.++-              
T Consensus       186 d~vgA~l~~D~aHi~GLIA~g~~p~Pl~~ADvvt~tTHK--TlrGPrGGiIl~~~~~~~~kId~avfPg~qggph~h~iA  263 (402)
T cd00378         186 DEVGAYLLVDMAHVAGLVAGGVFPNPLPGADVVTTTTHK--TLRGPRGGLILTRKGELAKKINSAVFPGLQGGPHLHVIA  263 (402)
T ss_pred             HHCCCEEEEEHHHHHHHEECCCCCCCCCCCEEEECCCCC--CCCCCCCEEEEECCHHHHHHHHHHHCCCCCCCHHHHHHH
T ss_conf             870988985501234430356579976876577446434--578998408995427899885465098644674566789


Q ss_pred             -HHHCCCCCCCCCCHHHHHHHCC
Q ss_conf             -9856971767768678886179
Q gi|254780392|r  402 -LSTGELLWRMPMNEEYNKLIES  423 (494)
Q Consensus       402 -~~~ge~~w~lPl~~~y~~~~~s  423 (494)
                       ...-=.-+.-|-+++|.+|+-.
T Consensus       264 a~Aval~Ea~~~~f~~Ya~qVv~  286 (402)
T cd00378         264 AKAVALKEALEPEFKAYAKQVVE  286 (402)
T ss_pred             HHHHHHHHHHCHHHHHHHHHHHH
T ss_conf             99999999868668999999999


No 111
>pfam00595 PDZ PDZ domain (Also known as DHR or GLGF). PDZ domains are found in diverse signaling proteins.
Probab=23.24  E-value=32  Score=14.48  Aligned_cols=31  Identities=23%  Similarity=0.360  Sum_probs=20.4

Q ss_pred             EEEECCCCCCCCC-CCHHHHHCCCCCCEEEEE
Q ss_conf             8641026689997-470776302489588863
Q gi|254780392|r  309 VLALVENMPGSSA-QRPGDIVRSMSGQTIEVI  339 (494)
Q Consensus       309 ~~~~~EN~~~~~a-~~pgdvi~~~~G~tvei~  339 (494)
                      +.-...|.|...+ .+|||+|..-||..|+=.
T Consensus        28 V~~V~~~~~A~~~gL~~GD~Il~VNg~~v~~~   59 (80)
T pfam00595        28 VSEVLPGGAAEAGGLQVGDRILSINGQDLENM   59 (80)
T ss_pred             EEEECCCCCHHHCCCCCCCEEEEECCEECCCC
T ss_conf             99977898055487999999999999998999


No 112
>PRK06082 4-aminobutyrate aminotransferase; Provisional
Probab=23.10  E-value=49  Score=13.24  Aligned_cols=94  Identities=18%  Similarity=0.212  Sum_probs=44.4

Q ss_pred             ECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCCCC-
Q ss_conf             02999999999861-1332100001110001345898874202577850688620578865651266302112006631-
Q gi|254780392|r  192 LGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTGGI-  269 (494)
Q Consensus       192 ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtGGi-  269 (494)
                      ..|..|-+.+++++ ++|+ .-|+||-+.-=-..|-+.+             .++-+-   .+.|...|||++   ||+ 
T Consensus       246 ~P~~~yl~~lr~lc~~~gi-LlI~DEVqtGfGRTG~~fa-------------~e~~gv---~PDIv~~gKglg---gG~~  305 (460)
T PRK06082        246 VPSKAYWKRIREICDKHNV-LLIIDDIPNGMGRSGEWFT-------------HQAFDI---EPDILCIGKGLG---GGLV  305 (460)
T ss_pred             CCCHHHHHHHHHHHHHCCC-EEECCCCCCCCCCCCCHHH-------------HHCCCC---CCCEEEECHHHH---CCCC
T ss_conf             6898999999999997298-5760332028875443446-------------631799---982899881643---8977


Q ss_pred             CC-----C----CCC--CC--HHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             00-----3----333--20--0232211235689999999987087872
Q gi|254780392|r  270 SI-----K----PSH--GM--EEMKGDLGGAAAVTGLLHVLAERKAKIN  305 (494)
Q Consensus       270 sl-----K----p~~--~M--~~Mk~DM~GaAav~g~~~aia~l~~~v~  305 (494)
                      -+     +    ...  .+  .+.-..--++|+.+.++..+-+-++.-|
T Consensus       306 Pisav~~~~~~~~~~~~~~g~~T~~gnPl~cAaAlA~L~iie~e~l~~~  354 (460)
T PRK06082        306 PIAAMITKDKYNTAAQISLGHYTHEKSPIGCAAALATMEAIEQEGLLDK  354 (460)
T ss_pred             CEEEEEEHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHH
T ss_conf             6389987488552015776543678987999999999999972578899


No 113
>cd02903 Macro_BAL_like Macro domain, BAL_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases).  Some macro domains recognize poly ADP-ribose as a ligand. Previously identified as displaying an Appr-1"-p (ADP-ribose-1"-monophosphate) processing activity, the macro domain may play roles in distinct ADP-ribose pathways, such as the ADP-ribosylation of proteins, an important post-translational modification which occurs in DNA repair, transcription, chromatin biology, and long-term memory formation, among other processes. Members of this family show similarity to BAL (B-aggressive lymphoma) proteins, which contain one to three macro domains. Most BAL family macro domains belong to this family except for the most N-terminal domain in multiple-domain containing proteins. Most BAL proteins also contain a C-termin
Probab=22.61  E-value=50  Score=13.17  Aligned_cols=108  Identities=6%  Similarity=-0.027  Sum_probs=54.3

Q ss_pred             CEEEEEEECCCCCCCCEEEEEECCCCCCCCC-CC---CCCCHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCEEEEEEC
Q ss_conf             9069995077877677169996268663222-21---2388889999998089983678789984378887445999944
Q gi|254780392|r    1 MDIKFSFAKNPSIKQEGLAILLKTSFSDVAG-LS---LIGSPSIVMRAVSVKNFIGESKSHLNILAPVDCVWDRLVVAGI   76 (494)
Q Consensus         1 M~mkis~~~~~~~~~d~lvV~~~~~~~~~~~-~~---~~~~~~~L~~~i~~~~F~GK~Ge~l~l~~~~g~~~~rViLVGL   76 (494)
                      |++++--.+....+.|++|-..+..+..... ..   ...-...+.+.+....-.-..|++. +....+.+.++|+.+-.
T Consensus         1 i~i~v~~GDIt~~~~DaIVNsan~~l~~~~ggv~~aI~~aaG~~l~~e~~~~~~~~~~g~v~-~T~gg~L~~k~ViH~v~   79 (137)
T cd02903           1 LTLQVAKGDIEDETTDVIVNSVNPDLFLLKGGVSKAILRKAGPELQKELDKAKLGQTVGSVI-VTKGGNLPCKYVYHVVL   79 (137)
T ss_pred             CEEEEEECCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHCHHHHHHHHHHCCCCCCCCEE-ECCCCCCCCCEEEEECC
T ss_conf             98999947566176899992987554788887999999946889999999964899899489-86356888889999727


Q ss_pred             CCHHHCCHH-HHHHHHHHHHHHHHCCCEEEEECC
Q ss_conf             881558999-999999999985316974899417
Q gi|254780392|r   77 GDPRDANFS-WLKAGGSIASYIEEDKNIEIFVDV  109 (494)
Q Consensus        77 G~~~~~~~~-~~ra~a~~~~~l~~~~~~~v~i~l  109 (494)
                      ..-.....+ .+++..+..+.....+.+++.+..
T Consensus        80 p~~~~~~~~~l~~~~~~~L~~A~~~~~~SIAfPa  113 (137)
T cd02903          80 PNWSNGALKILKDIVSECLEKCEELSYTSISFPA  113 (137)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             8788756999999999999999986997899905


No 114
>TIGR00918 2A060602 transmembrane receptor Patched; InterPro: IPR004766   Patched (Ptc) is a Drosophila melanogaster (Fruit fly) membrane protein that plays a critical role in patterning embryonic and imaginal tissues. It constitutively inactivates the transcription of genes wingless, decapentaplegic, and patched itself. The secreted protein, hedgehog (Hh) induces transcription of genes by opposing the patched signaling pathway .    In humans, mutations affecting patched (Ptc) or smoothened (Smo) homologues that trigger ligand-independent activity of the Hedgehog (Hh) signalling pathway are associated with tumours such as basal cell carcinoma (BCC) and medulloblastoma .   Patched is associated with a complex belonging to the hedgehog pathway. Members of the complex include cubitus interruptus, sex-lethal, patched and smoothened. The complex is present at the plasma membrane and the association of patched changes depending on the activation state of the pathway . ; GO: 0008158 hedgehog receptor activity, 0016021 integral to membrane.
Probab=22.56  E-value=50  Score=13.17  Aligned_cols=181  Identities=19%  Similarity=0.211  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHH-C----CCCCEEECHHHHHHHHHHH-HCCCCCHHHHCCCCCCHH--HHHHHHHHHCC-C-----C-C
Q ss_conf             9999999986420-2----1254030299999999986-113321000011100013--45898874202-5-----7-7
Q gi|254780392|r  172 QSVVKGVNLARDI-I----NEPANVLGTDEFCKQVRKL-ESLGVAVEILDKEAMHKL--GMNALLAVAQG-S-----S-R  236 (494)
Q Consensus       172 ~aiaegv~lARDL-v----N~PaN~ltP~~lA~~a~~l-~~~gl~v~Vld~~~L~kl--GMg~llaVgqG-S-----~-~  236 (494)
                      +.|+|--.++..| +    ++-.|+|||+.|-.+...+ +-..++|..+|++|-.+.  .|.+-+..=.+ -     + -
T Consensus       105 ~kiGEea~~~~QllIQT~~~~g~nvLt~eAL~~HL~~a~~As~V~V~lY~~~W~L~~~Cyksg~p~~E~~y~ieqile~L  184 (1215)
T TIGR00918       105 KKIGEEAMFTPQLLIQTPHQEGANVLTPEALLQHLDSALKASRVKVYLYNREWDLEDLCYKSGEPLTEGGYYIEQILEKL  184 (1215)
T ss_pred             HHCCHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHCCEEEEEEECCCCCHHHHCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             52052342173201026788878535189999999998743744689746854657650488864202036899999852


Q ss_pred             CCEEEEE----ECCCCCC--CCCCEEEEECCEEECCCCCCCCCCCCCHHHHHHHHH---HHHHHHHHHH--HHHCCCC-C
Q ss_conf             8506886----2057886--565126630211200663100333320023221123---5689999999--9870878-7
Q gi|254780392|r  237 PPYLAVM----KWEGGDS--EEQPLAFIGKGVVFDTGGISIKPSHGMEEMKGDLGG---AAAVTGLLHV--LAERKAK-I  304 (494)
Q Consensus       237 ~Prli~l----~Y~g~~~--~~~piaLVGKGvTFDtGGislKp~~~M~~Mk~DM~G---aAav~g~~~a--ia~l~~~-v  304 (494)
                      =|++|+=    =|.|.+=  .+-.+.|-||-  =|===+|+-|..-|++||.=|.-   +=-+=+.=+.  =|+-+-- +
T Consensus       185 ~PC~iiTPLDCFWEGakL~gPeg~~ylpG~n--p~l~WtnldP~~~l~elk~~~s~ekisfd~e~~ee~l~kA~vG~gYm  262 (1215)
T TIGR00918       185 FPCLIITPLDCFWEGAKLQGPEGTAYLPGKN--PPLQWTNLDPASLLEELKQLASQEKISFDVESWEELLKKAAVGQGYM  262 (1215)
T ss_pred             CCCEEECCCCCCCCCCCCCCCCCCEEECCCC--CCCCEEECCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCC
T ss_conf             8852645775310012033886216706888--86412107989999996333222000001143899987741054213


Q ss_pred             CEEEEEEECC----CCCCCCCCCHHHHHCCCCCC---------------EEEEECCCCCCEEEEEHHHH
Q ss_conf             2899864102----66899974707763024895---------------88863478664036523678
Q gi|254780392|r  305 NAIGVLALVE----NMPGSSAQRPGDIVRSMSGQ---------------TIEVINTDAEGRLILADALW  354 (494)
Q Consensus       305 ~v~~~~~~~E----N~~~~~a~~pgdvi~~~~G~---------------tvei~nTDAEGRlvLaD~l~  354 (494)
                      +==|+=|.==    -.|.-++++|=||=.-+||=               -|==..-|-.|.|+=|.||=
T Consensus       263 ~rPCLnP~dp~CP~~APNknst~p~dVa~~LsGGCyG~s~K~MHWqEELivGG~~rn~sG~L~~AqALQ  331 (1215)
T TIGR00918       263 ERPCLNPADPDCPDTAPNKNSTQPPDVAAVLSGGCYGLSAKYMHWQEELIVGGTKRNRSGKLLKAQALQ  331 (1215)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCHHHHCCCCCCCHHHHHCCCCEECCCCCCCHHHHHH
T ss_conf             878886775643478878667886441001046513331335777045441773057877510368887


No 115
>TIGR03320 ygeY M20/DapE family protein YgeY. Members of this protein family, including the YgeY protein of Escherichia coli, typically are found in extended genomic regions associated with purine catabolism. Homologs include peptidases and deacylases of the M20/M25 /M40 and DapE/ArgE families. The function is unknown.
Probab=22.20  E-value=50  Score=13.12  Aligned_cols=34  Identities=18%  Similarity=0.453  Sum_probs=16.1

Q ss_pred             HHHHHHHHHCCCCCEEECHHHHHHHHHH-HHCCCC
Q ss_conf             9999864202125403029999999998-611332
Q gi|254780392|r  176 KGVNLARDIINEPANVLGTDEFCKQVRK-LESLGV  209 (494)
Q Consensus       176 egv~lARDLvN~PaN~ltP~~lA~~a~~-l~~~gl  209 (494)
                      +-+.+.++||..|+---.-...++..++ |++.|+
T Consensus        14 e~v~ll~~LV~ipS~sg~e~~~a~~l~~~l~~~G~   48 (395)
T TIGR03320        14 DMIRFLRDLVAIPSESGDEKRVAERIKEEMEKLGF   48 (395)
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             89999999828999397889999999999987899


No 116
>pfam11330 DUF3132 Protein of unknown function (DUF3132). This viral family of proteins are 55kDa. No function is currently known.
Probab=22.19  E-value=50  Score=13.12  Aligned_cols=60  Identities=18%  Similarity=0.314  Sum_probs=44.5

Q ss_pred             CCCCCCEEEEEEE-CCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHH
Q ss_conf             0878728998641-02668999747077630248958886347866403652367887520
Q gi|254780392|r  300 RKAKINAIGVLAL-VENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTH  359 (494)
Q Consensus       300 l~~~v~v~~~~~~-~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~  359 (494)
                      ..+.-|+..+.-+ -|..++|.-+--+||+--..|.-|-|++.--|||+-.-|-+|--..+
T Consensus        53 qslgdnilsytllkeeghidgmrtagddvllekdgevvmildsrdegrmwikddvwaevte  113 (124)
T pfam11330        53 QSLGDNILSYTLLKEEGHIDGMRTAGDDVLLEKDGEVVMILDSRDEGRMWIKDDVWAEVTE  113 (124)
T ss_pred             CCCCCHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCEEEEEECCCCCCEEEECHHHHHHHH
T ss_conf             4334001321022341563440026870688038829999824655745662016888876


No 117
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification]
Probab=22.16  E-value=51  Score=13.11  Aligned_cols=61  Identities=18%  Similarity=0.029  Sum_probs=40.8

Q ss_pred             EEEEEHHHHHHHHHCCCCEEEEECCC-CHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCC
Q ss_conf             03652367887520796135521112-002354317760578708989999999989985697
Q gi|254780392|r  346 RLILADALWYCRTHYNPHLMIDLATL-TGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGEL  407 (494)
Q Consensus       346 RlvLaD~l~ya~~~~~p~~iid~ATL-TGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~  407 (494)
                      +||--|.=--.. ..+-+.||.+||+ |-+-..-|+...--++.-+++....+-+--.+++.+
T Consensus         7 nLiWIDlEMTGL-d~~~drIIEiA~iVTD~~Lnilaegp~~~Ihq~~e~L~~Mdew~~~~H~~   68 (184)
T COG1949           7 NLIWIDLEMTGL-DPERDRIIEIATIVTDANLNILAEGPVIAIHQSDEQLAKMDEWNTETHGR   68 (184)
T ss_pred             CEEEEEEEECCC-CCCCCEEEEEEEEEECCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCC
T ss_conf             628996320268-86764278888877547632103585578867999999889999971454


No 118
>pfam11161 DUF2944 Protein of unknown function (DUF2946). This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=22.10  E-value=51  Score=13.10  Aligned_cols=24  Identities=0%  Similarity=-0.140  Sum_probs=12.2

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEE
Q ss_conf             889999998089983678789984
Q gi|254780392|r   38 PSIVMRAVSVKNFIGESKSHLNIL   61 (494)
Q Consensus        38 ~~~L~~~i~~~~F~GK~Ge~l~l~   61 (494)
                      ...|..+|..+--.-..|.-.+-.
T Consensus        49 H~~L~~FI~RNY~~D~~G~WfFQN   72 (178)
T pfam11161        49 HPALIEFIARNYECDAQGRWFFQN   72 (178)
T ss_pred             CHHHHHHHHHCCCCCCCCCEEEEC
T ss_conf             489999998446767777678635


No 119
>PRK08088 4-aminobutyrate aminotransferase; Validated
Probab=22.05  E-value=51  Score=13.10  Aligned_cols=62  Identities=21%  Similarity=0.289  Sum_probs=35.3

Q ss_pred             CEEECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCC
Q ss_conf             40302999999999861-13321000011100013458988742025778506886205788656512663021120066
Q gi|254780392|r  189 ANVLGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTG  267 (494)
Q Consensus       189 aN~ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtG  267 (494)
                      +-+..|..|-+.+++++ ++|+ .=|+||-+.-=-..|.+.+             .++-|-   .+.|.-+|||++   |
T Consensus       214 G~~~~~~~yl~~lr~lc~~~g~-llI~DEV~tGfGRtG~~fa-------------~~~~gv---~PDii~~gK~l~---g  273 (426)
T PRK08088        214 GFYAASPAFMQRLRALCDQHGI-MLIADEVQTGAGRTGTFFA-------------MEQMGV---AADLTTFAKSIA---G  273 (426)
T ss_pred             CCEECCHHHHHHHHHHHHHCCC-EEECCCCCCCCCCCCCHHH-------------HHHCCC---CCCEEEHHHHHC---C
T ss_conf             8663887999999999987690-5876330228776674135-------------664198---976201214403---8


Q ss_pred             CCC
Q ss_conf             310
Q gi|254780392|r  268 GIS  270 (494)
Q Consensus       268 Gis  270 (494)
                      |+.
T Consensus       274 G~P  276 (426)
T PRK08088        274 GFP  276 (426)
T ss_pred             CCC
T ss_conf             887


No 120
>TIGR01736 FGAM_synth_II phosphoribosylformylglycinamidine synthase II; InterPro: IPR010074   Phosphoribosylformylglycinamidine synthase is a single, long polypeptide in most bacteria. Three proteins are required in Bacillus subtilis and many other species. This is the longest of the three and is designated PurL, phosphoribosylformylglycinamidine synthase II, or FGAM synthase II.; GO: 0004642 phosphoribosylformylglycinamidine synthase activity, 0006189 'de novo' IMP biosynthetic process, 0005737 cytoplasm.
Probab=22.02  E-value=37  Score=14.04  Aligned_cols=18  Identities=0%  Similarity=-0.151  Sum_probs=7.8

Q ss_pred             HHHHHHHHHHCCCEEEEE
Q ss_conf             999999853169748994
Q gi|254780392|r   90 GGSIASYIEEDKNIEIFV  107 (494)
Q Consensus        90 ~a~~~~~l~~~~~~~v~i  107 (494)
                      .+.++|-|...+..-+++
T Consensus       488 vaEa~RNLa~vGA~PLa~  505 (763)
T TIGR01736       488 VAEAYRNLAAVGAEPLAI  505 (763)
T ss_pred             HHHHHHCEEEECCEEEEE
T ss_conf             774311256408754888


No 121
>TIGR00936 ahcY adenosylhomocysteinase; InterPro: IPR000043 S-adenosyl-L-homocysteine hydrolase (3.3.1.1 from EC) (AdoHcyase) is an enzyme of the activated methyl cycle, responsible for the reversible hydration of S-adenosyl-L-homocysteine into adenosine and homocysteine. AdoHcyase is an ubiquitous enzyme which binds and requires NAD^+ as a cofactor. AdoHcyase is a highly conserved protein  of about 430 to 470 amino acids. The family contains a glycine-rich region in the central part of AdoHcyase; a region thought to be involved in NAD-binding.; GO: 0004013 adenosylhomocysteinase activity, 0006730 one-carbon compound metabolic process.
Probab=21.87  E-value=51  Score=13.11  Aligned_cols=20  Identities=40%  Similarity=0.647  Sum_probs=8.8

Q ss_pred             HHHCCCCCCEEEEECCCCCCEEE
Q ss_conf             76302489588863478664036
Q gi|254780392|r  326 DIVRSMSGQTIEVINTDAEGRLI  348 (494)
Q Consensus       326 dvi~~~~G~tvei~nTDAEGRlv  348 (494)
                      |-....+|+.|-++   ||||||
T Consensus       324 ~~Y~L~dGr~i~lL---aeGRLV  343 (422)
T TIGR00936       324 DEYKLKDGRRIYLL---AEGRLV  343 (422)
T ss_pred             CEEECCCCCEEEEE---ECCCEE
T ss_conf             34463889789998---277332


No 122
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=21.86  E-value=51  Score=13.07  Aligned_cols=14  Identities=7%  Similarity=0.444  Sum_probs=8.1

Q ss_pred             CCCCCHHHHHHHCC
Q ss_conf             67768678886179
Q gi|254780392|r  410 RMPMNEEYNKLIES  423 (494)
Q Consensus       410 ~lPl~~~y~~~~~s  423 (494)
                      ++|.+-.+...++.
T Consensus       211 ~iPv~~~~~~~v~~  224 (281)
T cd06325         211 KIPVIASDDDMVKR  224 (281)
T ss_pred             CCCEEECCHHHHHC
T ss_conf             99889367788616


No 123
>PRK08005 ribulose-phosphate 3-epimerase; Validated
Probab=21.69  E-value=47  Score=13.31  Aligned_cols=15  Identities=7%  Similarity=0.208  Sum_probs=6.8

Q ss_pred             HHHHHCCCEEEEECC
Q ss_conf             985316974899417
Q gi|254780392|r   95 SYIEEDKNIEIFVDV  109 (494)
Q Consensus        95 ~~l~~~~~~~v~i~l  109 (494)
                      +.+...+...+.++.
T Consensus        20 ~~l~~~g~d~lHiDI   34 (210)
T PRK08005         20 TALHDAPLGSLHLDI   34 (210)
T ss_pred             HHHHHCCCCEEEEEC
T ss_conf             999977999899828


No 124
>KOG3857 consensus
Probab=21.13  E-value=16  Score=16.60  Aligned_cols=116  Identities=20%  Similarity=0.192  Sum_probs=47.9

Q ss_pred             EEECCCCCCCC-----CCEEEEECCEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCC
Q ss_conf             86205788656-----5126630211200663100333320023221123568999999998708787289986410266
Q gi|254780392|r  242 VMKWEGGDSEE-----QPLAFIGKGVVFDTGGISIKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKINAIGVLALVENM  316 (494)
Q Consensus       242 ~l~Y~g~~~~~-----~piaLVGKGvTFDtGGislKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v~v~~~~~~~EN~  316 (494)
                      .=.|+|..+..     +-+-||+|=..     -+++-+ -=++-+.||+=|-...|.---=|.+      +-.-++. --
T Consensus       266 rp~yqgsNPIsD~wA~~al~li~kyl~-----rAv~~p-~d~eARt~M~~As~~aG~gFgNAgv------hlcHgls-yp  332 (465)
T KOG3857         266 RPLYQGSNPISDAWALKALELINKYLV-----RAVKDP-KDEEARTDMHYASYLAGMGFGNAGV------HLCHGLS-YP  332 (465)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHH-----HHHCCC-CCHHHHHHHHHHHHHHCCCCCCCCC------CCEEECC-CC
T ss_conf             642136883388999999999999999-----874187-5477887778998861134576540------0000025-55


Q ss_pred             CCC--CCCCHHHHHC----CCCCCEEEEECCCCCCEEEEEHHHHHHHHHCCCCEEEEECCCCHHHHHHCC
Q ss_conf             899--9747077630----248958886347866403652367887520796135521112002354317
Q gi|254780392|r  317 PGS--SAQRPGDIVR----SMSGQTIEVINTDAEGRLILADALWYCRTHYNPHLMIDLATLTGAMVVSLG  380 (494)
Q Consensus       317 ~~~--~a~~pgdvi~----~~~G~tvei~nTDAEGRlvLaD~l~ya~~~~~p~~iid~ATLTGa~~~alG  380 (494)
                      +||  ++|||.|--.    ---|..|-|          ++-+..-....--|+.-...|-+-||...-+|
T Consensus       333 isg~vk~~kakdy~~dh~liPHGlsv~v----------~~pavfeft~~~cP~rhl~aaq~LGa~~~h~~  392 (465)
T KOG3857         333 ISGQVKSYKAKDYYHDHNLIPHGLSVAV----------LLPAVFEFTAAACPDRHLEAAQRLGAIARHFG  392 (465)
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHHH----------HHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC
T ss_conf             5675232444455665566775133331----------20666631400185357899987505764144


No 125
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase; InterPro: IPR005246   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   All known phenylalanyl-tRNA synthetases, excepting a monomeric mitochondrial form, have an alpha 2 beta 2 heterotetrameric structure. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains but is longer and of unknown function; more generally, it resembles class 2 aminoacyl tRNA ligases. .
Probab=20.83  E-value=54  Score=12.93  Aligned_cols=50  Identities=16%  Similarity=0.297  Sum_probs=28.5

Q ss_pred             HHHHHHCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf             99853169748994177899998999999999971477754444364333232
Q gi|254780392|r   94 ASYIEEDKNIEIFVDVPEYPITKAEIRDLVLGFMLKTYTFDQYKTKKRESSSP  146 (494)
Q Consensus        94 ~~~l~~~~~~~v~i~l~~~~~~~~~~~~~~eG~~L~~Y~Fd~yKskk~~~~~~  146 (494)
                      .++|-...+.+-.+.  +...+-.+-.+++||+ |...-|.+||=++++++++
T Consensus       235 ~shLmtYhSASCVvV--deevsvDdGKaVAEgL-L~qfGF~~FrFrpDEKkSK  284 (558)
T TIGR00470       235 ASHLMTYHSASCVVV--DEEVSVDDGKAVAEGL-LEQFGFEKFRFRPDEKKSK  284 (558)
T ss_pred             CCCCCCEEEEEEEEE--CCCCCCCCCHHHHHHH-HHHHCCCCCCCCCCCCCCC
T ss_conf             310011345466785--7712436426889999-9870854475057646454


No 126
>pfam04393 DUF535 Protein of unknown function (DUF535). Family member Shigella flexneri VirK is a virulence protein required for the expression, or correct membrane localisation of IcsA (VirG) on the bacterial cell surface. This family also includes Pasteurella haemolytica lapB, which is thought to be membrane-associated.
Probab=20.72  E-value=37  Score=14.05  Aligned_cols=69  Identities=17%  Similarity=0.190  Sum_probs=43.6

Q ss_pred             HHHHHHHHCCCCEEEEECCCCHHHHHHCCCC---CEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHH--HHHCC
Q ss_conf             6788752079613552111200235431776---057870898999999998998569717677686788--86179
Q gi|254780392|r  352 ALWYCRTHYNPHLMIDLATLTGAMVVSLGNI---YAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYN--KLIES  423 (494)
Q Consensus       352 ~l~ya~~~~~p~~iid~ATLTGa~~~alG~~---~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~--~~~~s  423 (494)
                      ++..-...++-+.|+-|.. .|++..++-..   -.-+..|=|++|+++-  |+...+.+|+||+..+=+  +.|+|
T Consensus       190 ~l~~lA~~l~i~~i~aVsn-~~Hiy~~~ry~~~k~~~~~adYD~fW~e~g--G~~~~~~~~~LPl~~~RK~leeI~S  263 (287)
T pfam04393       190 ALKLLAAALGVEQILAVSN-KGHIYRRLRYRKKKRKRILADYDEFWQELG--GELINRGFYALPLAIERKDLEDIAS  263 (287)
T ss_pred             HHHHHHHHCCCCEEEEECC-CCCCHHHHHHHHHHCCEEECCHHHHHHHCC--CEECCCCEEECCCCCCCCCHHHCCC
T ss_conf             9999999839865999567-750012565544205718743799999768--9988899486888735599556674


No 127
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=20.56  E-value=50  Score=13.13  Aligned_cols=45  Identities=13%  Similarity=0.127  Sum_probs=17.1

Q ss_pred             CCCCCEEECHHHHHHHHHHHHCCC---CCHHHHCCCCCCHHHHHHHHH
Q ss_conf             212540302999999999861133---210000111000134589887
Q gi|254780392|r  185 INEPANVLGTDEFCKQVRKLESLG---VAVEILDKEAMHKLGMNALLA  229 (494)
Q Consensus       185 vN~PaN~ltP~~lA~~a~~l~~~g---l~v~Vld~~~L~klGMg~lla  229 (494)
                      +++|+..=+|=.=+++.-.-.+.+   +=|.-.-|.--||+-||-++-
T Consensus       119 v~m~~~~d~PF~~~d~l~~~~~~~~~~iiVDFHAEtTSEK~a~g~yld  166 (266)
T COG1692         119 VFMPPALDNPFKAADKLLDEIKLGTDLIIVDFHAETTSEKNAFGWYLD  166 (266)
T ss_pred             CCCCCCCCCHHHHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHEEEC
T ss_conf             358600179789999999747468964999812652155520106886


No 128
>PTZ00125 ornithine aminotransferase; Provisional
Probab=20.49  E-value=55  Score=12.88  Aligned_cols=96  Identities=26%  Similarity=0.371  Sum_probs=51.9

Q ss_pred             CEEECHHHHHHHHHHHH-CCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCEEEEECCEEECCC
Q ss_conf             40302999999999861-13321000011100013458988742025778506886205788656512663021120066
Q gi|254780392|r  189 ANVLGTDEFCKQVRKLE-SLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMKWEGGDSEEQPLAFIGKGVVFDTG  267 (494)
Q Consensus       189 aN~ltP~~lA~~a~~l~-~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~Y~g~~~~~~piaLVGKGvTFDtG  267 (494)
                      +-+..|+.|-+.+++++ ++|+ +=|+||-+.   ||      ||-.    ++--.+|-|-.   +.|..+|||+   +|
T Consensus       211 G~~~p~~~yl~~lr~lc~~~gi-llI~DEV~t---Gf------GRtG----~~fa~e~~gv~---PDiv~~gKgl---~g  270 (415)
T PTZ00125        211 GVIVPDEGYLKQVYSLCKKYNV-LLVADEVQT---GL------GRTG----KLLAVDHEGVK---PDIVLLGKAL---SG  270 (415)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCC-EEECCCCEE---CC------CCCC----CCCCCCCCCCC---CCEEEECCCC---CC
T ss_conf             8426999999999999998487-676452241---67------7567----62120178979---9821003144---68


Q ss_pred             CC-C-------------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             31-0-------------0333320023221123568999999998708787
Q gi|254780392|r  268 GI-S-------------IKPSHGMEEMKGDLGGAAAVTGLLHVLAERKAKI  304 (494)
Q Consensus       268 Gi-s-------------lKp~~~M~~Mk~DM~GaAav~g~~~aia~l~~~v  304 (494)
                      |+ -             ++|+..-.++-.+--++|+.+.++..+-+-++.-
T Consensus       271 G~~Plsav~~~~~i~~~~~~~~h~~T~~gnpla~Aaa~a~L~~i~~~~l~~  321 (415)
T PTZ00125        271 GHLPISAVLANDDVMLTIKPGEHGSTYGGNPLAAAVCKEALEVLSEEKLAE  321 (415)
T ss_pred             CCCCCEEEECCHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHH
T ss_conf             877620353349999632689988899818999999999999998646999


No 129
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=20.42  E-value=55  Score=12.87  Aligned_cols=59  Identities=15%  Similarity=0.370  Sum_probs=30.9

Q ss_pred             HHCCCCCEEECHHHHHHHHHHHHCCCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEEE
Q ss_conf             20212540302999999999861133210000111000134589887420257785068862
Q gi|254780392|r  183 DIINEPANVLGTDEFCKQVRKLESLGVAVEILDKEAMHKLGMNALLAVAQGSSRPPYLAVMK  244 (494)
Q Consensus       183 DLvN~PaN~ltP~~lA~~a~~l~~~gl~v~Vld~~~L~klGMg~llaVgqGS~~~Prli~l~  244 (494)
                      ||+ .|+..+||+.++-..+.  -.|+=|-.++++.++++|.+-+...+....+.+..+-+.
T Consensus        42 Dlv-~aAe~~T~e~i~fm~~~--~~GliCva~~~~~~~~L~Lp~mv~~n~~~~~taFtvsvd  100 (214)
T PRK01792         42 DLI-FPAETITPEQMAKLIRY--GSGIVCLCITDELCQQLDLPPMVQHNTSVNKTAFTVTIE  100 (214)
T ss_pred             CEE-EEHHHCCHHHHHHHHHH--CCCCEEEECCHHHHHHCCCCCCCCCCCCCCCCCEEEEEE
T ss_conf             679-68554999999999995--897789736999997779902146677888887799996


No 130
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=20.29  E-value=55  Score=12.85  Aligned_cols=165  Identities=18%  Similarity=0.244  Sum_probs=94.6

Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCEEE----EEEECCCCCCCCCCCHHHHHCCCCCCEEEEECCCCCCEEEEEHHHHHHHHH
Q ss_conf             1235689999999987087872899----864102668999747077630248958886347866403652367887520
Q gi|254780392|r  284 LGGAAAVTGLLHVLAERKAKINAIG----VLALVENMPGSSAQRPGDIVRSMSGQTIEVINTDAEGRLILADALWYCRTH  359 (494)
Q Consensus       284 M~GaAav~g~~~aia~l~~~v~v~~----~~~~~EN~~~~~a~~pgdvi~~~~G~tvei~nTDAEGRlvLaD~l~ya~~~  359 (494)
                      -+=.+|+..+   .-.++-|+++.-    ++-..||||.-.-..+||-|++-+|+.++-          ..|.+.|..+ 
T Consensus       108 ~Sq~~A~y~A---~~~a~~pv~~~y~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~s----------~~e~i~~v~~-  173 (342)
T COG3480         108 TSQNAAIYAA---YKYAGKPVEVTYAGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFTS----------SDELIDYVSS-  173 (342)
T ss_pred             HHHHHHHHHH---HHHCCCCEEEEEEEEEEEECCCCCCHHCEECCCCEEEEECCEECCC----------HHHHHHHHHC-
T ss_conf             5156799999---9974995589983279997147863102232687688558944578----------8999999854-


Q ss_pred             CCCC--EEEEECCCCHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEECCCCCCHH
Q ss_conf             7961--35521112002354317760578708989999999989985697176776867888617986417018887467
Q gi|254780392|r  360 YNPH--LMIDLATLTGAMVVSLGNIYAGLFANNDVLAEQLLSSGLSTGELLWRMPMNEEYNKLIESKFADMKNIGGRGAG  437 (494)
Q Consensus       360 ~~p~--~iid~ATLTGa~~~alG~~~~g~~~n~~~~~~~~~~a~~~~ge~~w~lPl~~~y~~~~~s~~AD~~n~~~~~~g  437 (494)
                      -+|-  .-|++.---+.--.+-+.    +..+|+ --...+-.+-....++|--|-       +..   +..|+||..+|
T Consensus       174 ~k~Gd~VtI~~~r~~~~~~~~~~t----l~~~~~-~g~~giGIsl~d~~~v~~~~~-------V~~---~~~~IGGPSAG  238 (342)
T COG3480         174 KKPGDEVTIDYERHNETPEIVTIT----LIKNDD-NGKAGIGISLVDAPEVWAPPD-------VDF---NTENIGGPSAG  238 (342)
T ss_pred             CCCCCEEEEEEEECCCCCCEEEEE----EEEECC-CCCCEEEEEEECCCCCCCCCC-------EEE---ECCCCCCCCHH
T ss_conf             688976999999516987268999----996046-886412158634765456872-------675---12447997543


Q ss_pred             HHHHHHHHHHHC-CCCCEEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf             999999998723-88676999400001167888888998654
Q gi|254780392|r  438 SIVAAQFLEKFV-QDASWAHIDIAGVATGGYPKEINQSWASG  478 (494)
Q Consensus       438 ~~~aa~fl~~f~-~~~~w~HlDiag~a~~~~~~~~~~~g~tg  478 (494)
                      -...=....++. +|..| -..||||..-+.+-...|=|+-.
T Consensus       239 LMFSL~Iy~qlt~~DL~~-g~~IAGTGTI~~DG~VG~IGGI~  279 (342)
T COG3480         239 LMFSLAIYDQLTKGDLTG-GRFIAGTGTIEVDGKVGPIGGID  279 (342)
T ss_pred             HEEEHHHHHHCCCCCCCC-CEEEECCEEECCCCCCCCCCCHH
T ss_conf             335298886405311358-66984111334688335745476


No 131
>KOG3425 consensus
Probab=20.22  E-value=55  Score=12.84  Aligned_cols=55  Identities=15%  Similarity=0.039  Sum_probs=22.1

Q ss_pred             CCCHHHHHHHHH-----HHHHCCCCCEEEEEEEEC-CCCCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf             874679999999-----987238867699940000-1167888888998654358999999
Q gi|254780392|r  433 GRGAGSIVAAQF-----LEKFVQDASWAHIDIAGV-ATGGYPKEINQSWASGFGVRLLDEF  487 (494)
Q Consensus       433 ~~~~g~~~aa~f-----l~~f~~~~~w~HlDiag~-a~~~~~~~~~~~g~tg~~vr~l~~~  487 (494)
                      ..|.--|.+|.=     |+++-++...+|.|.--- -|-+.+.++...-.+=-+|.||++|
T Consensus        42 qSWCPdCV~AEPvi~~alk~ap~~~~~v~v~VG~rp~Wk~p~n~FR~d~~~lt~vPTLlrw  102 (128)
T KOG3425          42 QSWCPDCVAAEPVINEALKHAPEDVHFVHVYVGNRPYWKDPANPFRKDPGILTAVPTLLRW  102 (128)
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCCCCCCCEEECCEEEEE
T ss_conf             8378218776389999997387761799997068774148998543498741403343687


No 132
>pfam09182 PuR_N Bacterial purine repressor, N-terminal. The N-terminal domain of the bacterial purine repressor PuR is a winged-helix domain, a subdivision of the HTH structural family. It consists of a canonical arrangement of secondary structures: a1-b1-a2-T-a3-b2-W-b3, where a2-T-a3 is the HTH motif, a3 is the recognition helix, and W is the wing. The domain allows for recognition of a conserved CGAA sequence in the centre of a DNA PurBox, resulting in binding to the major groove of DNA.
Probab=20.16  E-value=53  Score=12.99  Aligned_cols=53  Identities=17%  Similarity=0.358  Sum_probs=35.4

Q ss_pred             HHHHHHHCCCCCEEECHHHHHHHHHHHHCC-CCCHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             998642021254030299999999986113-321000011100013458988742
Q gi|254780392|r  178 VNLARDIINEPANVLGTDEFCKQVRKLESL-GVAVEILDKEAMHKLGMNALLAVA  231 (494)
Q Consensus       178 v~lARDLvN~PaN~ltP~~lA~~a~~l~~~-gl~v~Vld~~~L~klGMg~llaVg  231 (494)
                      +.+++-|.+-|--..+=.+|+++-...|.. .=++. +-++-+++.|||-+--|.
T Consensus         7 v~mt~~Ll~~P~~li~L~~Fae~~~~AKSsISEDl~-iik~~~~~~g~G~leTi~   60 (70)
T pfam09182         7 VAMTKYLLENPNKLIPLTYFAERFGSAKSSISEDLV-IIKETFEKFGLGKLETIP   60 (70)
T ss_pred             HHHHHHHHHCCCCEECHHHHHHHHCCCCCHHHHHHH-HHHHHHHHCCCCEEEEEC
T ss_conf             999999982998557499999986601020375799-999999873986299845


Done!