Query         gi|254780683|ref|YP_003065096.1| lipoprotein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 84
No_of_seqs    112 out of 5508
Neff          6.5 
Searched_HMMs 39220
Date          Tue May 31 15:06:25 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780683.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK11637 hypothetical protein; 100.0 3.5E-33   9E-38  195.7   8.8   80    1-81    325-404 (404)
  2 PRK10871 nlpD lipoprotein NlpD 100.0 3.8E-31 9.7E-36  185.0   9.3   81    1-82    294-374 (374)
  3 PRK11649 hypothetical protein; 100.0 6.9E-29 1.8E-33  173.1   8.3   77    1-78    312-388 (418)
  4 COG4942 Membrane-bound metallo  99.9 2.5E-27 6.4E-32  164.8   3.8   80    1-81    341-420 (420)
  5 COG0739 NlpD Membrane proteins  99.9 1.7E-25 4.4E-30  155.1   8.8   82    1-82    183-267 (277)
  6 pfam01551 Peptidase_M23 Peptid  99.9 6.1E-23 1.5E-27  141.7   7.9   74    1-75     23-96  (96)
  7 PRK06148 hypothetical protein;  98.8 1.7E-08 4.3E-13   65.3   6.3   59   10-68    474-541 (1015)
  8 PRK06149 hypothetical protein;  96.4  0.0046 1.2E-07   36.6   4.0   54   10-70    455-508 (972)
  9 TIGR01843 type_I_hlyD type I s  90.6    0.21 5.5E-06   27.8   2.7   39   12-55     40-78  (434)
 10 pfam00529 HlyD HlyD family sec  88.8     0.2 5.1E-06   28.0   1.4   26   29-54     11-36  (304)
 11 TIGR02971 heterocyst_DevB ABC   87.3    0.26 6.7E-06   27.3   1.2   42   13-54     11-53  (363)
 12 cd00210 PTS_IIA_glc PTS_IIA, P  86.9    0.83 2.1E-05   24.7   3.6   42   12-54     52-104 (124)
 13 TIGR01349 PDHac_trf_mito pyruv  86.8     0.6 1.5E-05   25.4   2.8   38   29-70     14-51  (584)
 14 pfam00358 PTS_EIIA_1 phosphoen  86.6    0.92 2.4E-05   24.5   3.7   42   12-54     57-109 (133)
 15 PRK09578 periplasmic multidrug  84.6    0.48 1.2E-05   25.9   1.5   26   29-54     72-97  (385)
 16 PRK03598 hypothetical protein;  84.5    0.45 1.2E-05   26.1   1.3   24   31-54     54-77  (331)
 17 PRK09439 glucose-specific PTS   84.4     1.5 3.7E-05   23.4   3.8   42   12-54     74-126 (169)
 18 PRK11556 multidrug efflux syst  84.2     0.5 1.3E-05   25.9   1.4   26   29-54     96-121 (415)
 19 PRK11578 macrolide transporter  82.5    0.66 1.7E-05   25.2   1.5   23   31-53     49-71  (347)
 20 COG0511 AccB Biotin carboxyl c  82.1       1 2.6E-05   24.2   2.3   44   33-76     83-132 (140)
 21 PRK09859 multidrug efflux syst  81.7    0.71 1.8E-05   25.1   1.4   23   31-53     72-94  (385)
 22 PRK06302 acetyl-CoA carboxylas  81.7    0.87 2.2E-05   24.6   1.8   23   32-54     98-120 (155)
 23 cd06850 biotinyl_domain The bi  81.7    0.74 1.9E-05   25.0   1.5   25   31-55     10-34  (67)
 24 PRK10476 multidrug resistance   80.7    0.78   2E-05   24.8   1.3   26   29-54     59-84  (348)
 25 PRK07051 hypothetical protein;  78.2     1.3 3.4E-05   23.6   1.9   45   32-76     22-72  (80)
 26 TIGR01945 rnfC electron transp  76.5       1 2.6E-05   24.2   0.9   21   33-53     44-64  (444)
 27 TIGR01995 PTS-II-ABC-beta PTS   76.1     1.1 2.7E-05   24.1   0.9   42   12-54    563-615 (660)
 28 cd06252 M14_ASTE_ASPA_like_2 A  75.5     4.4 0.00011   20.9   3.9   40   15-54    235-277 (316)
 29 cd06254 M14_ASTE_ASPA_like_4 A  74.4     2.1 5.4E-05   22.6   2.0   25   30-54    232-256 (288)
 30 PRK11892 pyruvate dehydrogenas  74.0     1.7 4.4E-05   23.0   1.5   27   29-55     17-43  (464)
 31 PRK05352 Na(+)-translocating N  73.7     1.7 4.3E-05   23.0   1.4   22   33-54     43-64  (448)
 32 PRK08225 acetyl-CoA carboxylas  73.2     1.8 4.6E-05   22.9   1.4   24   31-54     12-35  (70)
 33 TIGR03309 matur_yqeB selenium-  73.1     5.8 0.00015   20.2   4.0   29   27-55    167-198 (256)
 34 PRK10255 N-acetyl glucosamine   72.7     5.8 0.00015   20.2   3.9   42   12-54    552-604 (648)
 35 PRK05889 putative acetyl-CoA c  72.6     1.9 4.8E-05   22.8   1.4   21   33-53     15-35  (71)
 36 TIGR00830 PTBA PTS system, glu  72.5     1.9 4.9E-05   22.8   1.5   21   34-54     92-112 (129)
 37 cd06663 Biotinyl_lipoyl_domain  72.5       2   5E-05   22.7   1.5   27   29-55     14-40  (73)
 38 cd06255 M14_ASTE_ASPA_like_5 A  72.2     2.3 5.9E-05   22.3   1.8   27   28-54    238-264 (293)
 39 PRK09824 beta-glucoside-specif  71.0       7 0.00018   19.8   4.0   42   12-54    530-582 (625)
 40 PRK10559 p-hydroxybenzoic acid  69.8     2.5 6.3E-05   22.2   1.5   19   33-51     60-78  (310)
 41 cd06253 M14_ASTE_ASPA_like_3 A  69.7     5.7 0.00015   20.3   3.4   33   22-54    227-262 (298)
 42 PRK05305 phosphatidylserine de  67.5     6.7 0.00017   19.9   3.3   40   14-53    133-179 (214)
 43 TIGR01043 ATP_syn_A_arch ATP s  67.3     3.2 8.2E-05   21.6   1.7   23   34-56    121-143 (584)
 44 pfam06898 YqfD Putative stage   67.0     7.2 0.00018   19.7   3.4   41   17-57    192-235 (383)
 45 cd06849 lipoyl_domain Lipoyl d  66.1     3.6 9.2E-05   21.3   1.7   27   29-55     15-41  (74)
 46 COG2190 NagE Phosphotransferas  64.7      11 0.00028   18.8   4.0   40   13-53     60-110 (156)
 47 cd06251 M14_ASTE_ASPA_like_1 A  64.7     5.3 0.00014   20.4   2.4   30   25-54    220-252 (287)
 48 PRK09282 pyruvate carboxylase   64.3     3.4 8.6E-05   21.5   1.3   22   32-53    523-544 (580)
 49 pfam00364 Biotin_lipoyl Biotin  63.8       4  0.0001   21.1   1.6   23   33-55     18-40  (73)
 50 TIGR01348 PDHac_trf_long pyruv  63.4     3.7 9.5E-05   21.3   1.4   24   31-54     54-77  (655)
 51 pfam01333 Apocytochr_F_C Apocy  61.6     9.9 0.00025   19.0   3.3   40   13-53     23-65  (118)
 52 pfam05896 NQRA Na(+)-transloca  61.3     3.3 8.5E-05   21.5   0.8   22   33-54     42-63  (257)
 53 PRK05035 electron transport co  61.2     4.2 0.00011   21.0   1.4   21   33-53     56-76  (725)
 54 PRK05641 putative acetyl-CoA c  60.9     4.5 0.00012   20.8   1.5   23   32-54     91-113 (148)
 55 PTZ00144 dihydrolipoamide succ  60.0     5.4 0.00014   20.4   1.7   27   29-55     72-98  (430)
 56 TIGR01394 TypA_BipA GTP-bindin  59.7     4.8 0.00012   20.6   1.4   41   14-54    495-540 (609)
 57 COG0845 AcrA Membrane-fusion p  57.7     5.5 0.00014   20.4   1.4   25   30-54     76-100 (372)
 58 TIGR02644 Y_phosphoryl pyrimid  57.1       8  0.0002   19.5   2.2   21   34-54    386-406 (425)
 59 COG1726 NqrA Na+-transporting   56.9      15 0.00039   18.0   3.6   27   28-54     36-63  (447)
 60 TIGR02013 rpoB DNA-directed RN  56.1     5.5 0.00014   20.4   1.2   22   33-54    851-872 (1449)
 61 TIGR01347 sucB 2-oxoglutarate   56.0     6.3 0.00016   20.1   1.5   40   14-53     33-76  (435)
 62 PRK12999 pyruvate carboxylase;  55.3     6.1 0.00015   20.1   1.3   21   33-53   1090-1110(1147)
 63 pfam07831 PYNP_C Pyrimidine nu  54.6       7 0.00018   19.8   1.5   21   34-54     36-56  (75)
 64 PRK06549 acetyl-CoA carboxylas  54.2     6.8 0.00017   19.9   1.4   24   31-54     74-97  (132)
 65 cd06250 M14_PaAOTO_like An unc  49.8     9.5 0.00024   19.1   1.6   32   23-54    288-322 (359)
 66 COG0508 AceF Pyruvate/2-oxoglu  49.5      11 0.00028   18.8   1.8   26   30-55     55-80  (404)
 67 cd01134 V_A-ATPase_A V/A-type   49.0      11 0.00028   18.8   1.8   22   34-55     53-74  (369)
 68 COG4656 RnfC Predicted NADH:ub  48.6     7.5 0.00019   19.6   0.9   21   33-53     46-66  (529)
 69 COG1155 NtpA Archaeal/vacuolar  48.6      11 0.00028   18.8   1.8   21   35-55    121-141 (588)
 70 PRK03934 phosphatidylserine de  48.2     9.6 0.00025   19.1   1.4   15   39-53    220-234 (267)
 71 pfam02666 PS_Dcarbxylase Phosp  45.8      12  0.0003   18.6   1.6   39   15-53    124-169 (201)
 72 PRK11856 branched-chain alpha-  45.7      12 0.00031   18.5   1.6   21   31-51     55-75  (324)
 73 PRK05704 dihydrolipoamide succ  45.0      17 0.00042   17.8   2.2   26   30-55     55-80  (406)
 74 COG3608 Predicted deacylase [G  44.3      11 0.00028   18.8   1.2   26   30-55    265-290 (331)
 75 KOG0557 consensus               44.3      17 0.00045   17.7   2.3   35   32-70     56-90  (470)
 76 cd05830 Sortase_D_5 Sortase D   42.8      20  0.0005   17.4   2.3   36    5-42     36-72  (137)
 77 TIGR01846 type_I_sec_HlyB type  39.8      18 0.00045   17.7   1.7   18   40-57    486-503 (703)
 78 TIGR02876 spore_yqfD sporulati  38.7      30 0.00077   16.5   2.7   42   12-55    191-240 (406)
 79 PRK11855 dihydrolipoamide acet  38.6      23 0.00059   17.1   2.2   22   31-52    171-192 (549)
 80 COG1038 PycA Pyruvate carboxyl  35.4      15 0.00038   18.1   0.8   21   33-53   1092-1112(1149)
 81 TIGR02211 LolD_lipo_ex lipopro  35.4       9 0.00023   19.2  -0.4   24   40-63     26-49  (221)
 82 COG1566 EmrA Multidrug resista  35.1      20  0.0005   17.4   1.3   30   15-50    209-238 (352)
 83 PRK06748 hypothetical protein;  34.3      41   0.001   15.7   3.7   45   10-54     28-77  (84)
 84 COG4770 Acetyl/propionyl-CoA c  33.1      23 0.00058   17.1   1.4   21   33-53    588-608 (645)
 85 TIGR02712 urea_carbox urea car  32.7      43  0.0011   15.6   2.8   36   19-54   1152-1191(1226)
 86 PRK09783 copper/silver efflux   32.4      24 0.00061   17.0   1.4   31   24-54    207-241 (407)
 87 PRK04350 thymidine phosphoryla  31.7      26 0.00065   16.8   1.5   21   34-54    455-475 (502)
 88 PRK05820 deoA thymidine phosph  31.4      26 0.00067   16.8   1.5   22   34-55    385-406 (440)
 89 PRK12784 hypothetical protein;  30.9      47  0.0012   15.4   3.7   45   10-54     28-77  (84)
 90 TIGR02645 ARCH_P_rylase putati  30.8      22 0.00057   17.1   1.0   37   17-53    422-476 (499)
 91 TIGR01235 pyruv_carbox pyruvat  30.7      19 0.00048   17.6   0.6   45   33-79   1113-1165(1169)
 92 TIGR00078 nadC nicotinate-nucl  30.4      30 0.00077   16.5   1.6   21   34-54     64-84  (276)
 93 PRK02693 apocytochrome f; Revi  30.3      48  0.0012   15.4   2.9   40   13-53    217-259 (312)
 94 PRK06078 pyrimidine-nucleoside  30.2      29 0.00073   16.6   1.5   21   34-54    380-400 (434)
 95 TIGR00653 GlnA glutamine synth  30.1      39 0.00099   15.9   2.2   61   10-73    209-294 (486)
 96 PRK10218 GTP-binding protein;   29.7      37 0.00094   16.0   2.0   41   14-54    485-530 (607)
 97 TIGR02386 rpoC_TIGR DNA-direct  29.6      29 0.00074   16.5   1.5   18   34-51   1191-1208(1552)
 98 PRK04192 V-type ATP synthase s  29.5      30 0.00076   16.5   1.5   22   35-56    123-144 (585)
 99 TIGR02770 nickel_nikD nickel i  28.9      37 0.00095   16.0   1.9   36   41-76      8-57  (239)
100 PRK11854 aceF dihydrolipoamide  28.7      35 0.00089   16.1   1.7   23   31-53    157-179 (630)
101 cd06165 Sortase_A_1 Sortase A   28.6      52  0.0013   15.2   2.6   59    5-77     34-93  (127)
102 KOG0559 consensus               28.4      26 0.00067   16.8   1.1   23   31-53    126-148 (457)
103 TIGR01936 nqrA NADH:ubiquinone  27.2      19 0.00048   17.5   0.2   43   28-72     36-85  (466)
104 TIGR01448 recD_rel helicase, R  26.1     4.1  0.0001   21.0  -3.4   52    1-57    367-418 (769)
105 TIGR03327 AMP_phos AMP phospho  25.6      38 0.00098   15.9   1.5   21   34-54    452-472 (500)
106 pfam02749 QRPTase_N Quinolinat  25.2      39 0.00099   15.9   1.5   20   34-53     49-68  (88)
107 TIGR01108 oadA oxaloacetate de  25.2      26 0.00067   16.8   0.6   46   31-78    562-615 (616)
108 TIGR02203 MsbA_lipidA lipid A   24.5      46  0.0012   15.5   1.7   30   24-57    366-400 (603)
109 COG0444 DppD ABC-type dipeptid  24.5      50  0.0013   15.3   1.9   17   40-56     26-42  (316)
110 cd03237 ABC_RNaseL_inhibitor_d  24.1      45  0.0012   15.5   1.6   28   27-56      9-36  (246)
111 TIGR00998 8a0101 efflux pump m  22.7      30 0.00076   16.5   0.5   30   16-51    246-275 (379)
112 cd04493 BRCA2DBD_OB1 BRCA2DBD_  22.6      68  0.0017   14.6   5.6   59   13-72     20-90  (100)
113 PRK00044 psd phosphatidylserin  22.6      45  0.0011   15.5   1.4   14   41-54    239-254 (291)
114 COG1217 TypA Predicted membran  22.4      62  0.0016   14.8   2.0   45   10-54    480-529 (603)
115 COG0213 DeoA Thymidine phospho  22.3      59  0.0015   14.9   1.9   20   34-53    381-400 (435)
116 PRK03140 phosphatidylserine de  21.9      44  0.0011   15.6   1.2   18   36-53    207-224 (259)
117 KOG0369 consensus               21.9      34 0.00088   16.2   0.6   20   33-52   1119-1138(1176)
118 KOG2419 consensus               21.5      61  0.0016   14.8   1.9   21   34-54    898-918 (975)
119 CHL00117 rpoC2 RNA polymerase   21.2      55  0.0014   15.1   1.6   21   33-53    408-428 (1350)
120 PRK00624 glycine cleavage syst  20.7      58  0.0015   14.9   1.6   22   36-57     39-60  (113)

No 1  
>PRK11637 hypothetical protein; Provisional
Probab=100.00  E-value=3.5e-33  Score=195.73  Aligned_cols=80  Identities=28%  Similarity=0.497  Sum_probs=77.4

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCHHHHHH
Q ss_conf             59996069865511999998998899841156344112002203124899805788888569999978689805269875
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDPIKFLE   80 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP~~~l~   80 (84)
                      .|+|++| +++||++|||+||+||+|+|+||+++.|++||.|++||+||+||+||.+++||||||||++|+++||++||.
T Consensus       325 ~Vv~a~~-~~gyG~~ViIdHG~g~~TlYah~s~l~v~~Gq~V~~Gq~Ig~vG~tG~s~g~~LhFEir~~g~~vnP~~wL~  403 (404)
T PRK11637        325 RVILADW-LQGYGLVVVVEHGKGDMSLYGYNQSALVSVGAQVRAGQPIALVGSSGGQGRPSLYFEIRRQGQAVNPQPWLG  403 (404)
T ss_pred             EEEEEEE-CCCCCCEEEEECCCCCEEECCCCCCCCCCCCCEECCCCEEEEEECCCCCCCCEEEEEEEECCEEECHHHHHC
T ss_conf             9999114-088885799986994657152889588899799899996987326899999658999998999847588628


Q ss_pred             C
Q ss_conf             0
Q gi|254780683|r   81 E   81 (84)
Q Consensus        81 ~   81 (84)
                      .
T Consensus       404 r  404 (404)
T PRK11637        404 R  404 (404)
T ss_pred             C
T ss_conf             2


No 2  
>PRK10871 nlpD lipoprotein NlpD; Provisional
Probab=99.97  E-value=3.8e-31  Score=184.99  Aligned_cols=81  Identities=35%  Similarity=0.714  Sum_probs=78.0

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCHHHHHH
Q ss_conf             59996069865511999998998899841156344112002203124899805788888569999978689805269875
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDPIKFLE   80 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP~~~l~   80 (84)
                      .|+|+|+.+++|||+|||+|+++|.|.|+|++++.|++||.|++||.||++|++|.+. +|||||||++|+++||+.||+
T Consensus       294 ~VvyaG~~l~gyGnliiIkH~~~~lsaYahn~~~lVkeg~~V~~Gq~Ia~~G~tg~~~-~~LHFEiR~~g~pvdP~~yLP  372 (374)
T PRK10871        294 RVVYAGNALRGYGNLIIIKHNDDYLSAYAHNDTMLVREQQEVKAGQKIATMGSTGTSS-TRLHFEIRYKGKSVNPLRYLP  372 (374)
T ss_pred             EEEEECCCCCCCCEEEEEECCCCCEEEEECCCCCCCCCCCEECCCCEEEEECCCCCCC-CEEEEEEEECCEECCHHHHCC
T ss_conf             8999247878776289998499867861676626678889988999898643789998-308999977998669489764


Q ss_pred             CC
Q ss_conf             03
Q gi|254780683|r   81 EK   82 (84)
Q Consensus        81 ~k   82 (84)
                      +|
T Consensus       373 kR  374 (374)
T PRK10871        373 QR  374 (374)
T ss_pred             CC
T ss_conf             99


No 3  
>PRK11649 hypothetical protein; Provisional
Probab=99.96  E-value=6.9e-29  Score=173.07  Aligned_cols=77  Identities=35%  Similarity=0.580  Sum_probs=74.4

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCHHHH
Q ss_conf             599960698655119999989988998411563441120022031248998057888885699999786898052698
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDPIKF   78 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP~~~   78 (84)
                      +|+++|+. .+|||+|+|+|+++|.|.|+||+++.|+.||.|++||+||++|+||.++|||||||+|.+|+++||+..
T Consensus       312 ~V~~ag~~-~~yG~~V~I~H~~~~~T~Y~HLs~~~V~~Gq~V~~Gq~Ig~vGsTG~sTGPHLHyEv~~ng~~vnPl~v  388 (418)
T PRK11649        312 EVVVAKRS-GAAGNYVAIRHGRQYTTRYMHLRKLLVKPGQKVKRGDRIALSGNTGRSTGPHLHYEVWINQQAVNPLTA  388 (418)
T ss_pred             EEEEEEEC-CCCCCEEEEECCCCEEEEEECCCCCCCCCCCEECCCCEEEEECCCCCCCCCEEEEEEEECCEECCCCCC
T ss_conf             99997881-899977999819930999617684777994999989989802688378897338999999979599534


No 4  
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=99.93  E-value=2.5e-27  Score=164.81  Aligned_cols=80  Identities=28%  Similarity=0.502  Sum_probs=76.9

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCHHHHHH
Q ss_conf             59996069865511999998998899841156344112002203124899805788888569999978689805269875
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDPIKFLE   80 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP~~~l~   80 (84)
                      .|+||+| +.+||.+|||+||+||.++|++|++|.|++|+.|.+||+||.||++|....|-||||||++|+|+||.+||.
T Consensus       341 ~VvyA~~-l~GYG~vvIldhG~gy~slyg~~~~i~v~~G~~V~AGepIa~~G~sgg~~~p~LYfEiR~~G~pvnP~pW~~  419 (420)
T COG4942         341 RVVYADW-LRGYGLVVILDHGGGYHSLYGGNQSILVNPGQFVKAGEPIALVGSSGGQGRPALYFEIRRQGQPVNPQPWLR  419 (420)
T ss_pred             EEEECHH-HCCCCEEEEEECCCCCEEEECCCCEEEECCCCEEECCCCHHHCCCCCCCCCCCHHHHHHHCCCCCCCHHHHC
T ss_conf             6995433-256756999974885378861664221068977556971532267789998410021460597479512220


Q ss_pred             C
Q ss_conf             0
Q gi|254780683|r   81 E   81 (84)
Q Consensus        81 ~   81 (84)
                      .
T Consensus       420 ~  420 (420)
T COG4942         420 R  420 (420)
T ss_pred             C
T ss_conf             9


No 5  
>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]
Probab=99.92  E-value=1.7e-25  Score=155.12  Aligned_cols=82  Identities=39%  Similarity=0.771  Sum_probs=77.1

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCE---ECCHHH
Q ss_conf             59996069865511999998998899841156344112002203124899805788888569999978689---805269
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAI---AMDPIK   77 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~---~vdP~~   77 (84)
                      +|+++++...+|||+|+|+|++|+.|+|+||+++.|+.||.|++||.||++|+||.+++||||||++++++   ++||..
T Consensus       183 ~V~~~~~~~~~yGn~v~i~H~~g~~t~Y~Hl~~~~V~~G~~V~~G~~Ig~~G~tG~stgphLHfev~~~g~~~~~~~p~~  262 (277)
T COG0739         183 VVVFAGNGGWGYGNLVIIKHGDGYVTVYAHLSSILVKEGQKVKAGQVIGYVGSTGRSTGPHLHFEVRKNGKLVPPVNPAR  262 (277)
T ss_pred             EEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCCEEECCCEEEECCCCCCCCCCEEEEEEEECCCCCCCCCHHH
T ss_conf             89997047666770899974896588996065013158978846978997257677579758898875870367578556


Q ss_pred             HHHCC
Q ss_conf             87503
Q gi|254780683|r   78 FLEEK   82 (84)
Q Consensus        78 ~l~~k   82 (84)
                      ||..+
T Consensus       263 ~l~~~  267 (277)
T COG0739         263 YLPKG  267 (277)
T ss_pred             HCCCC
T ss_conf             22444


No 6  
>pfam01551 Peptidase_M23 Peptidase family M23. Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins, for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.
Probab=99.88  E-value=6.1e-23  Score=141.66  Aligned_cols=74  Identities=36%  Similarity=0.714  Sum_probs=70.5

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCH
Q ss_conf             599960698655119999989988998411563441120022031248998057888885699999786898052
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDP   75 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP   75 (84)
                      .|+++++. .++|++|+|+|++++.++|+||+++.|++||.|++||.||++|+++.+++||||||||++++++||
T Consensus        23 ~V~~~~~~-~~~G~~v~i~h~~g~~~~Y~hl~~~~V~~G~~V~~G~~IG~~G~sg~~~~~hLHfei~~~~~~vdP   96 (96)
T pfam01551        23 VVVFAGYL-GGYGNLVIIDHGNGYETLYAHLSKILVKVGQRVKAGQVIGTVGSTGRSTGPHLHFEIRKNGKPVDP   96 (96)
T ss_pred             EEEEEEEC-CCCCEEEEEEECCCCEEEECCCEEEEECCCCCHHHCCEEEEECCCCCCCCEEEEEEEEECCEECCC
T ss_conf             99998983-998859999938987699836446779589890139999986789998980899999999999877


No 7  
>PRK06148 hypothetical protein; Provisional
Probab=98.77  E-value=1.7e-08  Score=65.33  Aligned_cols=59  Identities=20%  Similarity=0.546  Sum_probs=49.3

Q ss_pred             CCCCEEEEEECC----CCEEEEEECCCCC---CCCCCEEEECCEEEEEECCCCCCC--CCEEEEEEEE
Q ss_conf             655119999989----9889984115634---411200220312489980578888--8569999978
Q gi|254780683|r   10 VELGNTILIRHD----DSIVTVYSHIDTP---YVQKGQKVSRGHTIGLSGKSGNAQ--HPQVHFELRK   68 (84)
Q Consensus        10 ~~~G~~V~I~h~----~g~~t~Y~hl~~i---~v~~G~~V~~G~~IG~vg~tg~~~--g~hLhfei~~   68 (84)
                      .+||-+|+++|.    +-++|+|+||+..   .++.||.|++||.||.+|+....-  .|||||++..
T Consensus       474 l~yGg~iiL~h~~~~~~~F~tLyGhl~~~~~~~l~~G~~i~~G~~ig~~G~~~~nggw~phlh~Ql~~  541 (1015)
T PRK06148        474 LGYGGLIALEHEPPGCPPFYTLWGHLAHEAVSRLKPGDRLAAGELVGHMGDAHENGGWAPHLHFQIST  541 (1015)
T ss_pred             CCCCCEEEEEECCCCCCCEEEEECCCCHHHHHCCCCCCCCCCCCEEEECCCCCCCCCCCCCEEEEEEE
T ss_conf             56775489984258887505652357725531268888504677123426654468877615898851


No 8  
>PRK06149 hypothetical protein; Provisional
Probab=96.35  E-value=0.0046  Score=36.62  Aligned_cols=54  Identities=19%  Similarity=0.225  Sum_probs=41.1

Q ss_pred             CCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECC
Q ss_conf             6551199999899889984115634411200220312489980578888856999997868
Q gi|254780683|r   10 VELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNA   70 (84)
Q Consensus        10 ~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g   70 (84)
                      ..+|..++++|..-..|+|+...+  ++.|+.|++||.||..++.|     +|||++....
T Consensus       455 ~~~~g~~~l~~~~~~~~L~g~~~~--~~~g~~i~~G~~ig~~~~~g-----~l~~ql~~~~  508 (972)
T PRK06149        455 RDGDGRLTLRGDAWELHLTGVEPA--VADGAAVEAGQPLGSASALG-----FLRVQLCPVA  508 (972)
T ss_pred             ECCCCEEEEECCCEEEEEECCCCC--CCCCCEEECCCCCCCCCCCC-----CEEEEEECCC
T ss_conf             716964898517548998256776--67767520677003366688-----4799972167


No 9  
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family; InterPro: IPR010129   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    Type I secretion is an ABC transporter that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C terminus of the transported protein. This entry represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This entry selects a group of sequences closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.; GO: 0015031 protein transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=90.65  E-value=0.21  Score=27.80  Aligned_cols=39  Identities=18%  Similarity=0.337  Sum_probs=28.9

Q ss_pred             CCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             51199999899889984115634411200220312489980578
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      -|+.-.|+|-.|     +=+.+|.|++||.|++||++..+..+.
T Consensus        40 ~g~~k~vQhleg-----Gi~~~I~V~EG~~V~~Gq~L~~Ld~t~   78 (434)
T TIGR01843        40 SGNVKVVQHLEG-----GIVREILVREGDRVKAGQVLVELDATS   78 (434)
T ss_pred             CCCEEEEECCCC-----CEEEEEEECCCCEECCCCCCEEECHHH
T ss_conf             074779966865-----344135522586420377013541357


No 10 
>pfam00529 HlyD HlyD family secretion protein.
Probab=88.78  E-value=0.2  Score=27.98  Aligned_cols=26  Identities=15%  Similarity=0.221  Sum_probs=21.4

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             11563441120022031248998057
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-+.++.|+.||.|++||+|..+..+
T Consensus        11 G~V~~i~V~~Gd~VkkGq~L~~lD~~   36 (304)
T pfam00529        11 GIVIRILVKEGDRVKAGDVLVRLDPT   36 (304)
T ss_pred             EEEEEEECCCCCEECCCCEEEEECCH
T ss_conf             79999986890998899989999868


No 11 
>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family; InterPro: IPR014315   Members of this protein are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. (strain PCC 7120) is partially characterised as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. which has seven members..
Probab=87.25  E-value=0.26  Score=27.34  Aligned_cols=42  Identities=17%  Similarity=0.249  Sum_probs=28.3

Q ss_pred             CEEEEEECCCCEEEEEECCCCCC-CCCCEEEECCEEEEEECCC
Q ss_conf             11999998998899841156344-1120022031248998057
Q gi|254780683|r   13 GNTILIRHDDSIVTVYSHIDTPY-VQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        13 G~~V~I~h~~g~~t~Y~hl~~i~-v~~G~~V~~G~~IG~vg~t   54 (84)
                      |.++-+--+.+-+.-=--++++. |++||.|.+||+|+...+-
T Consensus        11 G~v~~v~aP~~Gf~g~~Ri~~LlPV~eGD~V~~Gq~lA~Ld~~   53 (363)
T TIGR02971        11 GEVVAVAAPSSGFAGTDRIKKLLPVAEGDRVKAGQVLAELDSR   53 (363)
T ss_pred             CCEEEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCEEEEECCC
T ss_conf             8668841478888775315550677888701157536764570


No 12 
>cd00210 PTS_IIA_glc PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation.
Probab=86.90  E-value=0.83  Score=24.69  Aligned_cols=42  Identities=29%  Similarity=0.355  Sum_probs=29.8

Q ss_pred             CCEEEEEECCCCEEEEEECC--C---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             51199999899889984115--6---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSHI--D---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~hl--~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+..+.|+..+|... .-|+  +         +..|++||+|++||+|.++...
T Consensus        52 T~HAigi~t~~G~ev-LiHiGiDTV~L~G~gF~~~v~~Gd~V~~G~~L~~~D~~  104 (124)
T cd00210          52 TKHAIGIESDSGVEI-LIHIGIDTVKLNGEGFTSHVEEGQRVKQGDKLLEFDLP  104 (124)
T ss_pred             CCCEEEEEECCCCEE-EEEEEECCCCCCCCCEEEEECCCCEECCCCEEEEECHH
T ss_conf             896999996899899-99973042014895318997488999899999998599


No 13 
>TIGR01349 PDHac_trf_mito pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase; InterPro: IPR006257   This group of sequences represent one of several closely related clades of the dihydrolipoamide acetyltransferase subunit of the pyruvate dehydrogenase complex. It includes sequences from mitochondria and from alpha and beta branches of the proteobacteria, as well as from some other bacteria, but not the Gram-positive bacteria.; GO: 0004742 dihydrolipoyllysine-residue acetyltransferase activity, 0006090 pyruvate metabolic process, 0045254 pyruvate dehydrogenase complex.
Probab=86.79  E-value=0.6  Score=25.43  Aligned_cols=38  Identities=21%  Similarity=0.326  Sum_probs=25.1

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECC
Q ss_conf             115634411200220312489980578888856999997868
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNA   70 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g   70 (84)
                      |+|-+-..|+||+|+.||+|+++..+. +   -+-||-..+|
T Consensus        14 Gnla~W~KKeGDkv~~GDViaEIETDK-A---tm~~e~~~eG   51 (584)
T TIGR01349        14 GNLAKWLKKEGDKVKPGDVIAEIETDK-A---TMEFEAQEEG   51 (584)
T ss_pred             CCCEEEEECCCCEECCCCEEEEEECCC-C---EEEEEECCCC
T ss_conf             621024411377716887698874584-2---6745762685


No 14 
>pfam00358 PTS_EIIA_1 phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1.
Probab=86.58  E-value=0.92  Score=24.46  Aligned_cols=42  Identities=21%  Similarity=0.340  Sum_probs=29.7

Q ss_pred             CCEEEEEECCCCEEEEEECC--C---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             51199999899889984115--6---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSHI--D---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~hl--~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+..+.|+..+|.. +.-|+  +         +..|++||+|++||+|.++...
T Consensus        57 T~HAigi~~~~G~e-iLiHiGiDTV~L~G~gF~~~v~~Gd~V~~G~~L~~~D~~  109 (133)
T pfam00358        57 TKHAIGIESDGGVE-ILIHVGIDTVKLNGEGFESHVEEGDRVKQGDKLLEFDLP  109 (133)
T ss_pred             CCCEEEEEECCCCE-EEEEECCCCEECCCCCEEEEECCCCEECCCCEEEEECHH
T ss_conf             99799999689989-999986452233896318997589999899999998599


No 15 
>PRK09578 periplasmic multidrug efflux lipoprotein precursor; Reviewed
Probab=84.58  E-value=0.48  Score=25.93  Aligned_cols=26  Identities=15%  Similarity=0.212  Sum_probs=19.5

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             11563441120022031248998057
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.+.++.|++||.|++||+|+++..+
T Consensus        72 G~v~~v~v~~Gd~V~kGq~La~lD~~   97 (385)
T PRK09578         72 GIVTARTYEEGQEVKQGAVLFRIDPA   97 (385)
T ss_pred             EEEEEEEECCCCEECCCCEEEEECCH
T ss_conf             69999980799987389889998534


No 16 
>PRK03598 hypothetical protein; Provisional
Probab=84.51  E-value=0.45  Score=26.09  Aligned_cols=24  Identities=21%  Similarity=0.405  Sum_probs=15.4

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             563441120022031248998057
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.++.|++||.|++||+|.....+
T Consensus        54 V~~v~V~eGd~Vk~Gq~La~LD~~   77 (331)
T PRK03598         54 LASLAVDEGDAVKAGQVLGELDHA   77 (331)
T ss_pred             EEEEECCCCCEECCCCEEEEECCH
T ss_conf             999986897987799889998808


No 17 
>PRK09439 glucose-specific PTS system component; Provisional
Probab=84.40  E-value=1.5  Score=23.41  Aligned_cols=42  Identities=21%  Similarity=0.315  Sum_probs=29.9

Q ss_pred             CCEEEEEECCCCEEEEEECC--C---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             51199999899889984115--6---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSHI--D---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~hl--~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+.-+-|+..+|... .-|+  +         +..|++||.|++||+|.++...
T Consensus        74 T~HAigi~~~~G~ei-LIHiGiDTV~L~G~gF~~~v~~Gd~Vk~G~~L~~~D~~  126 (169)
T PRK09439         74 TNHAFSIESDSGVEL-FVHFGIDTVELKGEGFKRIAEEGQRVKVGDPIIEFDLE  126 (169)
T ss_pred             CCCEEEEECCCCCEE-EEEECCCCEECCCCCEEEEEECCCEECCCCEEEEECHH
T ss_conf             893899992899899-99976240233896726999276998899999998699


No 18 
>PRK11556 multidrug efflux system subunit MdtA; Provisional
Probab=84.23  E-value=0.5  Score=25.85  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=20.6

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             11563441120022031248998057
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-+.++.|++||.|++||+|+++..+
T Consensus        96 G~I~~i~v~~Gd~VkkGqvLa~iD~~  121 (415)
T PRK11556         96 GQLMALHFQEGQQVKAGDLLAEIDPS  121 (415)
T ss_pred             EEEEEEECCCCCEECCCCEEEEECCH
T ss_conf             29999985898997899999998835


No 19 
>PRK11578 macrolide transporter subunit MacA; Provisional
Probab=82.49  E-value=0.66  Score=25.22  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=15.0

Q ss_pred             CCCCCCCCCEEEECCEEEEEECC
Q ss_conf             56344112002203124899805
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.++.|++||.|++||+|.....
T Consensus        49 I~~i~v~~Gd~V~kGqvL~~ld~   71 (347)
T PRK11578         49 LKTLSVAIGDKVKKDQLLGVIDP   71 (347)
T ss_pred             EEEEECCCCCEECCCCEEEEECH
T ss_conf             99999899398889999999874


No 20 
>COG0511 AccB Biotin carboxyl carrier protein [Lipid metabolism]
Probab=82.14  E-value=1  Score=24.23  Aligned_cols=44  Identities=25%  Similarity=0.314  Sum_probs=28.1

Q ss_pred             CCCCCCCEEEECCEEEEEECCCC-----CCCCCEEEEEEE-ECCEECCHH
Q ss_conf             34411200220312489980578-----888856999997-868980526
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKSG-----NAQHPQVHFELR-KNAIAMDPI   76 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~tg-----~~~g~hLhfei~-~~g~~vdP~   76 (84)
                      +++|++||.|++||.+..+-.-.     .+...-.==+|. ++|.++++-
T Consensus        83 ~~~V~vGd~V~~Gq~l~IiEAMKmeneI~A~~~G~V~~Ilv~~G~~Ve~G  132 (140)
T COG0511          83 KPFVEVGDTVKAGQTLAIIEAMKMENEIEAPADGVVKEILVKNGDPVEYG  132 (140)
T ss_pred             EEEECCCCEECCCCEEEEEEEEECCCEECCCCCCEEEEEEECCCCCCCCC
T ss_conf             98765799975899999998200155322899968999994489852689


No 21 
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=81.73  E-value=0.71  Score=25.07  Aligned_cols=23  Identities=22%  Similarity=0.253  Sum_probs=16.0

Q ss_pred             CCCCCCCCCEEEECCEEEEEECC
Q ss_conf             56344112002203124899805
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.++.|++||.|++||+|++...
T Consensus        72 v~~~~v~~Gd~VkkGq~La~LD~   94 (385)
T PRK09859         72 IIKRNFIEGDKVNQGDSLYQIDP   94 (385)
T ss_pred             EEEEECCCCCEEECCCEEEEECC
T ss_conf             99998389998848988998284


No 22 
>PRK06302 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=81.72  E-value=0.87  Score=24.59  Aligned_cols=23  Identities=26%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             CCCCCCCCEEEECCEEEEEECCC
Q ss_conf             63441120022031248998057
Q gi|254780683|r   32 DTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        32 ~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.-+|+.||.|++||+|+.+-.-
T Consensus        98 ~~pFV~vGd~V~~Gq~v~iIEaM  120 (155)
T PRK06302         98 APPFVEVGDTVKEGQTLCIIEAM  120 (155)
T ss_pred             CCCCCCCCCEECCCCEEEEEEEC
T ss_conf             99742468672489889999842


No 23 
>cd06850 biotinyl_domain The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, oxaloacetate decarboxylase, methylmalonyl-CoA decarboxylase, transcarboxylase and urea amidolyase. This domain functions in transferring CO2 from one subsite to another, allowing carboxylation, decarboxylation, or transcarboxylation. During this process, biotin is covalently attached to a specific lysine.
Probab=81.66  E-value=0.74  Score=24.95  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=20.7

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             5634411200220312489980578
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +.++.|+.||.|++||.|+.+....
T Consensus        10 v~~~~V~~Gd~V~~G~~l~~iE~mK   34 (67)
T cd06850          10 VVKVLVKEGDKVEAGQPLAVLEAMK   34 (67)
T ss_pred             EEEEEECCCCEECCCCEEEEEEECC
T ss_conf             9999957999997899999999366


No 24 
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=80.72  E-value=0.78  Score=24.84  Aligned_cols=26  Identities=19%  Similarity=0.125  Sum_probs=17.9

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             11563441120022031248998057
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.+.++.|+.||.|++||+|.++..+
T Consensus        59 G~V~~V~V~egq~VkkGq~L~~LD~~   84 (348)
T PRK10476         59 GRIVELAVTENQAVKKGDLLFRIDPR   84 (348)
T ss_pred             EEEEEEEECCCCEECCCCEEEEECCH
T ss_conf             59999994699986489789997768


No 25 
>PRK07051 hypothetical protein; Validated
Probab=78.21  E-value=1.3  Score=23.59  Aligned_cols=45  Identities=22%  Similarity=0.343  Sum_probs=27.4

Q ss_pred             CCCCCCCCEEEECCEEEEEECCCCC-----CCCCEEEEEEE-ECCEECCHH
Q ss_conf             6344112002203124899805788-----88856999997-868980526
Q gi|254780683|r   32 DTPYVQKGQKVSRGHTIGLSGKSGN-----AQHPQVHFELR-KNAIAMDPI   76 (84)
Q Consensus        32 ~~i~v~~G~~V~~G~~IG~vg~tg~-----~~g~hLhfei~-~~g~~vdP~   76 (84)
                      ...+|++||.|++||.|+.+-...-     +.-.-.=-++. .+|.++++-
T Consensus        22 ~~pfV~~Gd~V~~G~~v~iiEaMKm~~~V~A~~~G~V~~ilv~~G~~V~~G   72 (80)
T PRK07051         22 APPYVEVGDTVAAGDVVGLVEVMKQFSEVEAEVAGRVVRFLVDDGEPVDAG   72 (80)
T ss_pred             CCCCCCCCCEECCCCEEEEEEECCCCCEEECCCCCEEEEEEECCCCEECCC
T ss_conf             998136799988999999997002774672699829999995698986799


No 26 
>TIGR01945 rnfC electron transport complex, RnfABCDGE type, C subunit; InterPro: IPR010208   The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation . A closely related complex in Escherichia coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized . This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase (IPR003667 from INTERPRO), but is distinct. This entry describes the C subunit.; GO: 0051539 4 iron 4 sulfur cluster binding, 0006118 electron transport, 0016020 membrane.
Probab=76.49  E-value=1  Score=24.19  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=18.1

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +..|++||+|.+||.||.-..
T Consensus        44 ~p~V~~GD~VLkGq~Ia~~~G   64 (444)
T TIGR01945        44 EPIVKVGDKVLKGQLIAKADG   64 (444)
T ss_pred             CCEECCCCEEECCCEECCCCC
T ss_conf             730027865206611006774


No 27 
>TIGR01995 PTS-II-ABC-beta PTS system, beta-glucoside-specific IIABC component; InterPro: IPR011297   The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) ,  is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars.   The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC . These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII).    The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site.    An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose , , , .    This entry represents a family of PTS enzyme II proteins in which all three domains are found in the same polypeptide chain and which appear to have a broad specificity for beta-glucosides including salicin (beta-D-glucose-1-salicylate) and arbutin (hydroquinone-O-beta-D-glucopyranoside) . These are distinct from the closely related sucrose-specific and trehalose-specific PTS transporters.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system.
Probab=76.06  E-value=1.1  Score=24.12  Aligned_cols=42  Identities=29%  Similarity=0.332  Sum_probs=30.1

Q ss_pred             CCEEEEEECCCCEEEEEEC--CC---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             5119999989988998411--56---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSH--ID---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~h--l~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+.-+=|+..||..- .=|  +|         ++.|++||+|++||.++++.-+
T Consensus       563 T~HAiGi~~~nG~E~-LIHvGIDTV~L~G~~Fe~~V~~Gd~v~~Gq~L~~~D~d  615 (660)
T TIGR01995       563 TKHAIGIRSDNGVEI-LIHVGIDTVELKGEYFEILVKVGDKVKAGQLLLTFDLD  615 (660)
T ss_pred             CCCEEEECCCCCEEE-EEEEEEEEEEECCEEEEEEEEECCEEEECCCCCEEEHH
T ss_conf             862274126897289-99841234565450122214566787506631221068


No 28 
>cd06252 M14_ASTE_ASPA_like_2 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=75.45  E-value=4.4  Score=20.90  Aligned_cols=40  Identities=25%  Similarity=0.289  Sum_probs=25.5

Q ss_pred             EEEEECCCCEEEEEECCC---CCCCCCCEEEECCEEEEEECCC
Q ss_conf             999998998899841156---3441120022031248998057
Q gi|254780683|r   15 TILIRHDDSIVTVYSHID---TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        15 ~V~I~h~~g~~t~Y~hl~---~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ...+.-.+....+++.-+   ...++.||.|++||+||++-+.
T Consensus       235 ~~~~~~~~~~~~v~Ap~~Gif~~~v~lG~~V~kGq~lg~I~dp  277 (316)
T cd06252         235 TRALDVPDARCYVFAPHPGLFEPLVDLGDEVSAGQVAGRIHFP  277 (316)
T ss_pred             EEEEEECCCCEEEECCCCEEEEEECCCCCEECCCCEEEEEECC
T ss_conf             2788706897799769986999917889997799999999688


No 29 
>cd06254 M14_ASTE_ASPA_like_4 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=74.37  E-value=2.1  Score=22.56  Aligned_cols=25  Identities=24%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             CCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             1563441120022031248998057
Q gi|254780683|r   30 HIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        30 hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+=...++.||.|++||+||++-+.
T Consensus       232 Gl~~~~v~~G~~V~~Gq~lg~I~dp  256 (288)
T cd06254         232 GLWYPFVKAGDTVQKGALLGYVTDY  256 (288)
T ss_pred             EEEEEECCCCCEECCCCEEEEEECC
T ss_conf             4999936889997689999999689


No 30 
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=74.02  E-value=1.7  Score=23.00  Aligned_cols=27  Identities=19%  Similarity=0.228  Sum_probs=22.3

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             115634411200220312489980578
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +.|.+-.+|+||.|++||+|+.+..+.
T Consensus        17 g~l~kw~~~~gd~v~~gd~~aeietdk   43 (464)
T PRK11892         17 GTLAKWLKKEGDKVKSGDVIAEIETDK   43 (464)
T ss_pred             CCCEEEECCCCCCCCCCCEEEEEEECC
T ss_conf             712146446897525786689975065


No 31 
>PRK05352 Na(+)-translocating NADH-quinone reductase subunit A; Provisional
Probab=73.74  E-value=1.7  Score=23.05  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=18.8

Q ss_pred             CCCCCCCEEEECCEEEEEECCC
Q ss_conf             3441120022031248998057
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +..||+||.|++||+|.....+
T Consensus        43 kl~VkeGD~V~~Gq~Lf~dK~~   64 (448)
T PRK05352         43 TMKVKEGDKVKKGQPLFEDKKN   64 (448)
T ss_pred             CEEECCCCEECCCCEEEECCCC
T ss_conf             5685579997479855653898


No 32 
>PRK08225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=73.21  E-value=1.8  Score=22.93  Aligned_cols=24  Identities=17%  Similarity=0.215  Sum_probs=18.5

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             563441120022031248998057
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-++.|+.||.|++||.|..+-.-
T Consensus        12 V~~v~V~~Gd~V~~G~~l~vlEAM   35 (70)
T PRK08225         12 VWKIVVKVGDTVEEGQDVVILESM   35 (70)
T ss_pred             EEEEEECCCCEECCCCEEEEEEEC
T ss_conf             999992898998999999999711


No 33 
>TIGR03309 matur_yqeB selenium-dependent molybdenum hydroxylase system protein, YqeB family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes with labile selenium-containing centers, different from selenocysteine-containing proteins.
Probab=73.11  E-value=5.8  Score=20.22  Aligned_cols=29  Identities=28%  Similarity=0.410  Sum_probs=21.3

Q ss_pred             EEECCC---CCCCCCCEEEECCEEEEEECCCC
Q ss_conf             841156---34411200220312489980578
Q gi|254780683|r   27 VYSHID---TPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        27 ~Y~hl~---~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +|+..+   ...++-|+.|++||+||.++...
T Consensus       167 i~Ap~~G~~~~~~~IGd~V~kG~vig~v~~~p  198 (256)
T TIGR03309       167 LRAPADGIVTPTKAIGDSVKKGDVIATVGDVP  198 (256)
T ss_pred             EECCCCCCEECHHHCCCEEECCCEEEEECCEE
T ss_conf             97587853854144189686796899989988


No 34 
>PRK10255 N-acetyl glucosamine specific PTS system components IIABC; Provisional
Probab=72.69  E-value=5.8  Score=20.23  Aligned_cols=42  Identities=21%  Similarity=0.290  Sum_probs=28.9

Q ss_pred             CCEEEEEECCCCEEEEEEC--CC---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             5119999989988998411--56---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSH--ID---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~h--l~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ++.-+-|+..+|... .-|  +|         +..|++||+|++||.|.+..-+
T Consensus       552 T~HA~gi~~~~G~Ei-LiHiGiDTV~L~G~gF~~~v~~Gd~Vk~G~~l~~~D~~  604 (648)
T PRK10255        552 TNHAFCLETEKGAEI-VVHMGIDTVALEGKGFKRLVEEGAQVSAGQPILEMDLD  604 (648)
T ss_pred             CCCEEEEECCCCCEE-EEEEEECCEEECCCCCEEEECCCCEECCCCEEEEECHH
T ss_conf             885799984898189-99954452421780534883485996799988997499


No 35 
>PRK05889 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Provisional
Probab=72.61  E-value=1.9  Score=22.81  Aligned_cols=21  Identities=24%  Similarity=0.404  Sum_probs=12.0

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ++.|++||.|++||.|..+..
T Consensus        15 ~v~V~~Gd~V~~Gd~l~vlEA   35 (71)
T PRK05889         15 EVVVNEGDQIGEGDTLVLLES   35 (71)
T ss_pred             EEEECCCCEECCCCEEEEEEH
T ss_conf             999799999889999999982


No 36 
>TIGR00830 PTBA PTS system, glucose subfamily, IIA component; InterPro: IPR001127   The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) ,  is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars.   The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC . These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII).    The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site.    An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose , , , .     ; GO: 0005351 sugar:hydrogen ion symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane.
Probab=72.54  E-value=1.9  Score=22.77  Aligned_cols=21  Identities=24%  Similarity=0.314  Sum_probs=17.9

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ..|++||+|++||.|.++...
T Consensus        92 ~~v~~G~~V~~Gd~l~efD~~  112 (129)
T TIGR00830        92 SHVEEGDKVKKGDPLLEFDLP  112 (129)
T ss_pred             EEEEECCEECCCCEEEEECHH
T ss_conf             876438787179779995669


No 37 
>cd06663 Biotinyl_lipoyl_domains Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl, or methylamine, respectively, between components of the complex/protein via a biotinyl or lipoyl group, which is covalently attached to a highly conserved lysine residue.
Probab=72.48  E-value=2  Score=22.74  Aligned_cols=27  Identities=15%  Similarity=0.155  Sum_probs=20.9

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             115634411200220312489980578
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +-+.++.+++||.|++||.|..+-...
T Consensus        14 g~I~~~~v~~Gd~V~~Gd~l~~iEa~K   40 (73)
T cd06663          14 GTVVKWLKKVGDKVKKGDVLAEIEAMK   40 (73)
T ss_pred             EEEEEEEECCCCEECCCCEEEEEEEEE
T ss_conf             999999926999997999999999500


No 38 
>cd06255 M14_ASTE_ASPA_like_5 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=72.20  E-value=2.3  Score=22.34  Aligned_cols=27  Identities=19%  Similarity=0.288  Sum_probs=21.2

Q ss_pred             EECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             411563441120022031248998057
Q gi|254780683|r   28 YSHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        28 Y~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+.+=...++.||.|++||+||++-+.
T Consensus       238 ~~Gl~~~~v~~G~~V~kGq~lg~I~dp  264 (293)
T cd06255         238 HGGLFEPSVPAGDTIPAGQPLGRVVDL  264 (293)
T ss_pred             CCEEEEEECCCCCEECCCCEEEEEECC
T ss_conf             985999837889997799999999899


No 39 
>PRK09824 beta-glucoside-specific PTS system components IIABC; Provisional
Probab=70.98  E-value=7  Score=19.81  Aligned_cols=42  Identities=26%  Similarity=0.301  Sum_probs=29.3

Q ss_pred             CCEEEEEECCCCEEEEEECC--C---------CCCCCCCEEEECCEEEEEECCC
Q ss_conf             51199999899889984115--6---------3441120022031248998057
Q gi|254780683|r   12 LGNTILIRHDDSIVTVYSHI--D---------TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        12 ~G~~V~I~h~~g~~t~Y~hl--~---------~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+.-+-|+..+|... .-|+  |         +..|++||+|++||.+.+..-.
T Consensus       530 t~HAig~~~~~G~e~-liHiGidTV~l~G~~F~~~v~~g~~V~~g~~l~~~d~~  582 (625)
T PRK09824        530 TLHAIGIESDDGVEI-LIHVGIDTVKLDGKFFSAHVNVGDKVNTGDRLISFDIP  582 (625)
T ss_pred             CCCEEEEECCCCCEE-EEEECCCCCCCCCCCCEEEECCCCEECCCCEEEEECHH
T ss_conf             896789972898189-99966165010891541674678996799989997499


No 40 
>PRK10559 p-hydroxybenzoic acid efflux subunit AaeA; Provisional
Probab=69.82  E-value=2.5  Score=22.19  Aligned_cols=19  Identities=21%  Similarity=0.202  Sum_probs=7.5

Q ss_pred             CCCCCCCEEEECCEEEEEE
Q ss_conf             3441120022031248998
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLS   51 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~v   51 (84)
                      ++.|+.||.|++||+|..+
T Consensus        60 eV~V~dnq~VkkGdvL~~I   78 (310)
T PRK10559         60 QVNVHDNQLVKKGQVLFTI   78 (310)
T ss_pred             EEECCCCCEECCCCEEEEE
T ss_conf             9991794987699889998


No 41 
>cd06253 M14_ASTE_ASPA_like_3 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=69.71  E-value=5.7  Score=20.27  Aligned_cols=33  Identities=27%  Similarity=0.357  Sum_probs=23.6

Q ss_pred             CCEEEEEECCC---CCCCCCCEEEECCEEEEEECCC
Q ss_conf             98899841156---3441120022031248998057
Q gi|254780683|r   22 DSIVTVYSHID---TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        22 ~g~~t~Y~hl~---~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+...+|+--+   ...++.||.|++||+||++-+.
T Consensus       227 ~~~~~i~Ap~~Gl~~~~~~lG~~V~~G~~lg~I~dp  262 (298)
T cd06253         227 RDVVYVNAETSGIFVPAKHLGDIVKRGDVIGEIVDP  262 (298)
T ss_pred             CCEEEEECCCCEEEEEECCCCCEECCCCEEEEEECC
T ss_conf             870899659998999946889988789999999688


No 42 
>PRK05305 phosphatidylserine decarboxylase; Provisional
Probab=67.46  E-value=6.7  Score=19.92  Aligned_cols=40  Identities=28%  Similarity=0.411  Sum_probs=25.9

Q ss_pred             EEEEEECCCCEEEEEECCC-----C--CCCCCCEEEECCEEEEEECC
Q ss_conf             1999998998899841156-----3--44112002203124899805
Q gi|254780683|r   14 NTILIRHDDSIVTVYSHID-----T--PYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        14 ~~V~I~h~~g~~t~Y~hl~-----~--i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ..+.|++.+|.........     +  ..+++||.+++||.+|.+.-
T Consensus       133 ~~i~i~~~~g~~i~~~qIaG~~ARrIv~~~~~g~~l~~G~r~G~I~f  179 (214)
T PRK05305        133 NAVVIETADGGEIGVVQIAGLVARRIVCYVEEGDELERGERFGLIRF  179 (214)
T ss_pred             EEEEEECCCCCEEEEEECCCHHHHHEEECCCCCCEEECCCEEEEEEC
T ss_conf             79999848998899999253213224622678978853777737960


No 43 
>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=67.28  E-value=3.2  Score=21.60  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=20.0

Q ss_pred             CCCCCCEEEECCEEEEEECCCCC
Q ss_conf             44112002203124899805788
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKSGN   56 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~tg~   56 (84)
                      -.|+.||.|..|++||.|..|..
T Consensus       121 P~v~~Gd~V~~Gd~~G~V~ET~~  143 (584)
T TIGR01043       121 PTVKEGDKVEGGDIIGVVQETSL  143 (584)
T ss_pred             CEECCCCEECCCCEEEEECCCCC
T ss_conf             21226864347615877637650


No 44 
>pfam06898 YqfD Putative stage IV sporulation protein YqfD. This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis is known to be essential for efficient sporulation although its exact function is unknown.
Probab=66.97  E-value=7.2  Score=19.75  Aligned_cols=41  Identities=32%  Similarity=0.579  Sum_probs=28.2

Q ss_pred             EEECCCC-EEEEEECCCCCCCCCCEEEECCEEE--EEECCCCCC
Q ss_conf             9998998-8998411563441120022031248--998057888
Q gi|254780683|r   17 LIRHDDS-IVTVYSHIDTPYVQKGQKVSRGHTI--GLSGKSGNA   57 (84)
Q Consensus        17 ~I~h~~g-~~t~Y~hl~~i~v~~G~~V~~G~~I--G~vg~tg~~   57 (84)
                      ++.-.+| ...++..-....|++||.|++||++  |.++..+..
T Consensus       192 iVA~k~GvI~~i~v~~G~p~Vk~GD~VkkGqiLVsG~i~~e~~~  235 (383)
T pfam06898       192 IVAKKDGIITRMYVTKGTAVVKVGDVVKKGDILVSGQIGKEGNE  235 (383)
T ss_pred             EEECCCCEEEEEEECCCEEEECCCCEECCCCEEEEEEECCCCCC
T ss_conf             58999979999996477177658998778989996356578981


No 45 
>cd06849 lipoyl_domain Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid dehydrogenase (BCDH), contain at least three different enzymes, 2-oxo acid dehydrogenase (E1), dihydrolipoyl acyltransferase (E2) and dihydrolipoamide dehydrogenase (E3) and play a key role in redox regulation. E2, the central component of the complex, catalyzes the transfer of the acyl group of CoA from E1 to E3 via reductive acetylation of a lipoyl group covalently attached to a lysine residue.
Probab=66.10  E-value=3.6  Score=21.33  Aligned_cols=27  Identities=19%  Similarity=0.236  Sum_probs=20.7

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             115634411200220312489980578
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +-+.+..++.||.|++||.|..+-.+.
T Consensus        15 g~i~~w~v~~Gd~V~~gd~l~~vEt~K   41 (74)
T cd06849          15 GTIVEWLVKEGDSVEEGDVLAEVETDK   41 (74)
T ss_pred             EEEEEEEECCCCEECCCCEEEEEECCC
T ss_conf             999999927989997899999998585


No 46 
>COG2190 NagE Phosphotransferase system IIA components [Carbohydrate transport and metabolism]
Probab=64.73  E-value=11  Score=18.78  Aligned_cols=40  Identities=28%  Similarity=0.365  Sum_probs=26.5

Q ss_pred             CEEEEEECCCCEEEEEEC--CC---------CCCCCCCEEEECCEEEEEECC
Q ss_conf             119999989988998411--56---------344112002203124899805
Q gi|254780683|r   13 GNTILIRHDDSIVTVYSH--ID---------TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        13 G~~V~I~h~~g~~t~Y~h--l~---------~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.-+-|+..+|... .-|  ++         +..|++||.|++||.|-+..-
T Consensus        60 kHAigi~t~~GvEi-LiHiGiDTV~L~GegF~~~v~~Gd~Vk~Gd~Li~fDl  110 (156)
T COG2190          60 KHAIGIETDEGVEI-LIHIGIDTVKLNGEGFESLVKEGDKVKAGDPLLEFDL  110 (156)
T ss_pred             CCEEEEECCCCCEE-EEEECEEEEEECCCCEEEEEECCCEECCCCEEEEECH
T ss_conf             84799983899599-9995640586889324787507998815989899979


No 47 
>cd06251 M14_ASTE_ASPA_like_1 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=64.66  E-value=5.3  Score=20.44  Aligned_cols=30  Identities=23%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             EEEEECCC---CCCCCCCEEEECCEEEEEECCC
Q ss_conf             99841156---3441120022031248998057
Q gi|254780683|r   25 VTVYSHID---TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        25 ~t~Y~hl~---~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ..+++.-+   ...++.|+.|++||+||++-+.
T Consensus       220 ~~v~A~~~Gl~~~~~~~G~~V~~Gq~lg~I~dp  252 (287)
T cd06251         220 VWVRAPQGGLLRSLVKLGDKVKKGQLLATITDP  252 (287)
T ss_pred             EEEECCCCCEEEECCCCCCEECCCCEEEEEECC
T ss_conf             799769998798858988994799989999789


No 48 
>PRK09282 pyruvate carboxylase subunit B; Validated
Probab=64.31  E-value=3.4  Score=21.47  Aligned_cols=22  Identities=23%  Similarity=0.320  Sum_probs=18.8

Q ss_pred             CCCCCCCCEEEECCEEEEEECC
Q ss_conf             6344112002203124899805
Q gi|254780683|r   32 DTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        32 ~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      -++.|++||.|++||.|..+..
T Consensus       523 ~~V~Vk~Gd~V~~Gd~L~vlEA  544 (580)
T PRK09282        523 VKVLVKEGDKVKEGDVLLILEA  544 (580)
T ss_pred             EEEEECCCCEECCCCEEEEEEH
T ss_conf             9999789998789998999851


No 49 
>pfam00364 Biotin_lipoyl Biotin-requiring enzyme. This family covers two Prosite entries, the conserved lysine residue binds biotin in one group and lipoic acid in the other. Note that the model may not recognize the Glycine cleavage system H proteins.
Probab=63.78  E-value=4  Score=21.12  Aligned_cols=23  Identities=22%  Similarity=0.188  Sum_probs=19.8

Q ss_pred             CCCCCCCEEEECCEEEEEECCCC
Q ss_conf             34411200220312489980578
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +..+++||.|++||.|..+....
T Consensus        18 ~w~v~~Gd~V~~g~~l~~iEt~K   40 (73)
T pfam00364        18 EWLVKVGDKVKAGQVLCEVEAMK   40 (73)
T ss_pred             EEEECCCCEECCCCEEEEEEECC
T ss_conf             48658989992899899999665


No 50 
>TIGR01348 PDHac_trf_long pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase; InterPro: IPR006256   This group of sequences are a subset of pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase specifically close by both phylogenetic and percent identity (UPGMA) trees. Members contain two or three copies of the lipoyl-binding domain. Escherichia coli AceF is included in this set while mitochondrial and some other bacterial forms are excluded.  dihydrolipoyllysine-residue acetyltransferase E2 component of pyruvate dehydrogenase complex; GO: 0004742 dihydrolipoyllysine-residue acetyltransferase activity, 0006096 glycolysis, 0045254 pyruvate dehydrogenase complex.
Probab=63.37  E-value=3.7  Score=21.25  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=16.8

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             563441120022031248998057
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .++|+||+||+++.|++|...+..
T Consensus        54 ik~ikvkVGDt~~~G~~i~~l~~~   77 (655)
T TIGR01348        54 IKEIKVKVGDTLKEGDVIALLEVS   77 (655)
T ss_pred             EEEEEEEECCCCCCCCEEEEECCC
T ss_conf             788975446654778789997166


No 51 
>pfam01333 Apocytochr_F_C Apocytochrome F, C-terminal. This is a sub-family of cytochrome C. See pfam00034.
Probab=61.56  E-value=9.9  Score=19.01  Aligned_cols=40  Identities=20%  Similarity=0.208  Sum_probs=28.2

Q ss_pred             CEEEEEECCCCEEEE---EECCCCCCCCCCEEEECCEEEEEECC
Q ss_conf             119999989988998---41156344112002203124899805
Q gi|254780683|r   13 GNTILIRHDDSIVTV---YSHIDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        13 G~~V~I~h~~g~~t~---Y~hl~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      |..|.|+..||-...   =..+ ++.|++||.|++||.+-.-.|
T Consensus        23 ~~~vtI~t~dG~~v~~~IP~Gp-eliV~~G~~V~~dqpLT~nPN   65 (118)
T pfam01333        23 GYEVTIETADGETVVETIPAGP-ELIVSEGQTVKADQPLTNNPN   65 (118)
T ss_pred             CEEEEEECCCCCEEEEECCCCC-EEEECCCCEEECCCCCCCCCC
T ss_conf             5799998699989988539997-489738988866984445998


No 52 
>pfam05896 NQRA Na(+)-translocating NADH-quinone reductase subunit A (NQRA). This family consists of several bacterial Na(+)-translocating NADH-quinone reductase subunit A (NQRA) proteins. The Na(+)-translocating NADH: ubiquinone oxidoreductase (Na(+)-NQR) generates an electrochemical Na(+) potential driven by aerobic respiration.
Probab=61.34  E-value=3.3  Score=21.51  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=18.6

Q ss_pred             CCCCCCCEEEECCEEEEEECCC
Q ss_conf             3441120022031248998057
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +..|++||.|++||+|=.--++
T Consensus        42 kl~VkeGD~Vk~G~pLF~dK~n   63 (257)
T pfam05896        42 KMLVKEGDKVKAGQPLFEDKKN   63 (257)
T ss_pred             EEEEECCCEEECCCEEEEEECC
T ss_conf             6998349998558757997369


No 53 
>PRK05035 electron transport complex protein RnfC; Provisional
Probab=61.24  E-value=4.2  Score=20.96  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=18.2

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ...|++||.|.+||.||....
T Consensus        56 ~p~VkvGD~VlkGQ~I~~~~g   76 (725)
T PRK05035         56 ELLVSVGDRVLKGQPLTQGDG   76 (725)
T ss_pred             CCCCCCCCEECCCCEEEECCC
T ss_conf             141478999768887454698


No 54 
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=60.91  E-value=4.5  Score=20.80  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=18.9

Q ss_pred             CCCCCCCCEEEECCEEEEEECCC
Q ss_conf             63441120022031248998057
Q gi|254780683|r   32 DTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        32 ~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      -++.|++||.|++||.+..+-..
T Consensus        91 ~~v~v~~Gd~V~~g~~l~vlEaM  113 (148)
T PRK05641         91 LKILVKEGDQVKTGQGLLILEAM  113 (148)
T ss_pred             EEEEECCCCEECCCCEEEEEEHH
T ss_conf             99996899998799999999943


No 55 
>PTZ00144 dihydrolipoamide succinyltransferase; Provisional
Probab=60.03  E-value=5.4  Score=20.41  Aligned_cols=27  Identities=15%  Similarity=0.116  Sum_probs=17.3

Q ss_pred             ECCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             115634411200220312489980578
Q gi|254780683|r   29 SHIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        29 ~hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +-+.+-.|++||.|++||.|..+.++.
T Consensus        72 G~Iv~WlvkeGD~V~~gd~L~EVETDK   98 (430)
T PTZ00144         72 GTLSEWKKKVGDYVKVDETIAIVETDK   98 (430)
T ss_pred             EEEEEEECCCCCEECCCCCEEEEECCC
T ss_conf             999799818999868999089998588


No 56 
>TIGR01394 TypA_BipA GTP-binding protein TypA; InterPro: IPR006298   This bacterial (and Arabidopsis) protein, termed TypA or BipA, is a GTP-binding protein. It is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.; GO: 0005525 GTP binding, 0005622 intracellular.
Probab=59.66  E-value=4.8  Score=20.65  Aligned_cols=41  Identities=27%  Similarity=0.498  Sum_probs=31.1

Q ss_pred             EEEEEECCCCEEEEEE--CCC---CCCCCCCEEEECCEEEEEECCC
Q ss_conf             1999998998899841--156---3441120022031248998057
Q gi|254780683|r   14 NTILIRHDDSIVTVYS--HID---TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        14 ~~V~I~h~~g~~t~Y~--hl~---~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      |=++|...+|..+.||  +|+   .++|.+|+.|-+|++||.=...
T Consensus       495 ~GsLVs~~~G~a~~YaL~nLqeRG~~Fv~pG~~VY~GMIiGEhsR~  540 (609)
T TIGR01394       495 NGSLVSMEDGTATAYALWNLQERGRLFVSPGTEVYEGMIIGEHSRE  540 (609)
T ss_pred             CCEEEEECCCCHHHHHHHHHHHCCCEEECCCCCEECCEEEEECCCC
T ss_conf             4158992688106676873875384330788626334788723886


No 57 
>COG0845 AcrA Membrane-fusion protein [Cell envelope biogenesis, outer membrane]
Probab=57.68  E-value=5.5  Score=20.37  Aligned_cols=25  Identities=20%  Similarity=0.369  Sum_probs=21.4

Q ss_pred             CCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             1563441120022031248998057
Q gi|254780683|r   30 HIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        30 hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      -+.++.|++||.|++||.+....++
T Consensus        76 ~v~~i~v~~G~~Vk~Gq~L~~ld~~  100 (372)
T COG0845          76 IVAEILVKEGDRVKKGQLLARLDPS  100 (372)
T ss_pred             EEEEEEECCCCEEECCCEEEEECCH
T ss_conf             7989983689888359748995532


No 58 
>TIGR02644 Y_phosphoryl pyrimidine-nucleoside phosphorylase; InterPro: IPR000053   Two highly similar activities are represented in this group: thymidine phosphorylase (TP, gene deoA, 2.4.2.4 from EC) and pyrimidine-nucleoside phosphorylase (PyNP, gene pdp, 2.4.2.2 from EC). Both are dimeric enzymes that function in the salvage pathway to catalyse the reversible phosphorolysis of pyrimidine nucleosides to the free base and sugar moieties. In the case of thymidine phosphorylase, thymidine (and to a lesser extent, 2'-deoxyuridine) is lysed to produce thymine (or uracil) and 2'-deoxyribose-1-phosphate. Pyrimidine-nucleoside phosphorylase performs the analogous reaction on thymidine (to produce the same products) and uridine (to produce uracil and ribose-1-phosphate). PyNP is typically the only pyrimidine nucleoside phosphorylase encoded by Gram positive bacteria, while eukaryotes and proteobacteria encode two: TP, and the unrelated uridine phosphorylase. In humans, TP was originally characterised as platelet-derived endothelial cell growth factor and gliostatin . Structurally, the enzymes are homodimers, each composed of a rigid all alpha-helix lobe and a mixed alpha-helix/beta-sheet lobe, which are connected by a flexible hinge , . Prior to substrate binding, the lobes are separated by a large cleft. A functional active site and subsequent catalysis occurs upon closing of the cleft. The active site, composed of a phosphate binding site and a (deoxy)ribonucleotide binding site within the cleft region, is highly conserved between the two enzymes of this group. Active site residues (Escherichia coli DeoA numbering) include the phosphate binding Lys84 and Ser86 (close to a glycine-rich loop), Ser113, and Thr123, and the pyrimidine nucleoside-binding Arg171, Ser186, and Lys190. Sequence comparison between the active site residues for both enzymes reveals only one difference , which has been proposed to partially mediate substrate specificity. In TP, position 111 is a methionine, while the analogous position in PyNP is lysine. It should be noted that the uncharacterised archaeal members of this family differ in a number of respects from either of the characterised activities. The residue at position 108 is lysine, indicating the activity might be PyNP-like (though the determinants of substrate specificity have not been fully elucidated). Position 171 is glutamate (negative charge side chain) rather than arginine (positive charge side chain). In addition, a large loop that may "lock in" the substrates within the active site is much smaller than in the characterised members. It is not clear what effect these and other differences have on activity and specificity.; GO: 0006206 pyrimidine base metabolic process.
Probab=57.14  E-value=8  Score=19.51  Aligned_cols=21  Identities=29%  Similarity=0.271  Sum_probs=18.0

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +..+.||.|++||+|.++=.+
T Consensus       386 l~~k~Gd~V~~Gd~~~tlY~~  406 (425)
T TIGR02644       386 LHKKVGDKVKKGDPIATLYSS  406 (425)
T ss_pred             EECCCCCEEECCCEEEEEECC
T ss_conf             765668753237579998628


No 59 
>COG1726 NqrA Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrA [Energy production and conversion]
Probab=56.90  E-value=15  Score=18.01  Aligned_cols=27  Identities=22%  Similarity=0.373  Sum_probs=21.2

Q ss_pred             EECCC-CCCCCCCEEEECCEEEEEECCC
Q ss_conf             41156-3441120022031248998057
Q gi|254780683|r   28 YSHID-TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        28 Y~hl~-~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      |..|. +..|++||.|++||++.+-...
T Consensus        36 y~gmrp~mkV~~gD~VkkGq~LfEdKkn   63 (447)
T COG1726          36 YVGMRPSMKVREGDAVKKGQVLFEDKKN   63 (447)
T ss_pred             CCCCCCCCEECCCCEEECCCEEEECCCC
T ss_conf             4688874153347722026531121568


No 60 
>TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit; InterPro: IPR010243   DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel.   RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise:  RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors.  RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs.  Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits.   This entry describes orthologues of the beta subunit of bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006350 transcription.
Probab=56.09  E-value=5.5  Score=20.38  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=18.0

Q ss_pred             CCCCCCCEEEECCEEEEEECCC
Q ss_conf             3441120022031248998057
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ...|++||+|.+||+||=-.+|
T Consensus       851 ~PiV~~GDrV~~GdvlADGPsT  872 (1449)
T TIGR02013       851 RPIVSVGDRVEAGDVLADGPST  872 (1449)
T ss_pred             EEECCCCCEECCCCEEECCCCC
T ss_conf             3550148681021277347666


No 61 
>TIGR01347 sucB 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; InterPro: IPR006255   These sequences describe the TCA cycle 2-oxoglutarate system E2 component, dihydrolipoamide succinyltransferase. It is closely related to the pyruvate dehydrogenase E2 component, dihydrolipoamide acetyltransferase. Members include the mitochondrial and Gram-negative bacterial forms. Mycobacterial candidates are highly derived, differ in having and extra copy of the lipoyl-binding domain at the N-terminus and are generally excluded from this group of sequences as are all examples of dihydrolipoamide acetyltransferase. ; GO: 0004149 dihydrolipoyllysine-residue succinyltransferase activity, 0006099 tricarboxylic acid cycle, 0045252 oxoglutarate dehydrogenase complex.
Probab=55.97  E-value=6.3  Score=20.07  Aligned_cols=40  Identities=15%  Similarity=0.283  Sum_probs=27.9

Q ss_pred             EEEEEECCCCEEEEE----ECCCCCCCCCCEEEECCEEEEEECC
Q ss_conf             199999899889984----1156344112002203124899805
Q gi|254780683|r   14 NTILIRHDDSIVTVY----SHIDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        14 ~~V~I~h~~g~~t~Y----~hl~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.|.|..+.=-.=+-    |=|++|..++|++|..||.||.+..
T Consensus        33 ~iveiETDKV~lEV~Sp~dGvl~~~~~~eG~TV~~g~~La~~~E   76 (435)
T TIGR01347        33 LIVEIETDKVVLEVPSPADGVLQEILEKEGDTVTSGQVLAVLEE   76 (435)
T ss_pred             EEEEEECCCEEEEEECCCCCHHHHHHCCCCCEECCCEEEEEEEC
T ss_conf             68975207446788288530217430689888505507788823


No 62 
>PRK12999 pyruvate carboxylase; Reviewed
Probab=55.28  E-value=6.1  Score=20.13  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=18.4

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ++.|++||.|++||.|-.+..
T Consensus      1090 kV~Vk~GD~VkkGd~LlvlEA 1110 (1147)
T PRK12999       1090 TVAVKEGDEVKAGDPLLVIEA 1110 (1147)
T ss_pred             EEEECCCCEECCCCEEEEEEH
T ss_conf             999689998789998999851


No 63 
>pfam07831 PYNP_C Pyrimidine nucleoside phosphorylase C-terminal domain. This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases. It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside phosphorylase (PYNP) there is an added three-stranded anti-parallel beta sheet as compared to other members of the family, such as E. coli thymidine phosphorylase (TP). The domain contains an alpha/ beta hammerhead fold and residues in this domain seem to be important in formation of the homodimer.
Probab=54.61  E-value=7  Score=19.82  Aligned_cols=21  Identities=19%  Similarity=0.229  Sum_probs=17.6

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +..+.||.|++||+|.++=.+
T Consensus        36 l~~k~Gd~V~~g~pl~~i~~~   56 (75)
T pfam07831        36 LHKKVGDKVKKGDPLATIYAN   56 (75)
T ss_pred             EECCCCCEECCCCEEEEEECC
T ss_conf             024689996699939999779


No 64 
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=54.15  E-value=6.8  Score=19.86  Aligned_cols=24  Identities=17%  Similarity=0.173  Sum_probs=19.2

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             563441120022031248998057
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-++.|+.||.|++||.|..+-..
T Consensus        74 v~~i~v~~Gd~V~~g~~l~vlEAM   97 (132)
T PRK06549         74 ILKVLVAVGDQVTENQPLLILEAM   97 (132)
T ss_pred             EEEEEECCCCEECCCCEEEEEEEH
T ss_conf             999993899998799989999801


No 65 
>cd06250 M14_PaAOTO_like An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD. The gene encoding 
Probab=49.75  E-value=9.5  Score=19.11  Aligned_cols=32  Identities=13%  Similarity=0.146  Sum_probs=22.8

Q ss_pred             CEEEEEEC---CCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             88998411---563441120022031248998057
Q gi|254780683|r   23 SIVTVYSH---IDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        23 g~~t~Y~h---l~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +...+++-   +=...++.|+.|++||+||++-+.
T Consensus       288 ~~~~v~Ap~~Gi~~~~~~~G~~V~~G~~la~I~dP  322 (359)
T cd06250         288 GVEMLYAPAGGMVVYRAAPGDWVEAGDVLAEILDP  322 (359)
T ss_pred             CCEEEECCCCEEEEECCCCCCEECCCCEEEEEECC
T ss_conf             66799569986898727999997799989999489


No 66 
>COG0508 AceF Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]
Probab=49.49  E-value=11  Score=18.81  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=19.1

Q ss_pred             CCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             15634411200220312489980578
Q gi|254780683|r   30 HIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        30 hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      -|.+|.+++|+.|.-|++|++++..+
T Consensus        55 ~l~~i~~~~G~~V~Vg~~I~~i~~~~   80 (404)
T COG0508          55 VLAKILVEEGDTVPVGAVIARIEEEG   80 (404)
T ss_pred             EEEEEECCCCCEECCCCEEEEEECCC
T ss_conf             99676205898875898589993377


No 67 
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction.  The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase).  A similar protein is also found in a few bacteria.
Probab=49.02  E-value=11  Score=18.78  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=18.8

Q ss_pred             CCCCCCEEEECCEEEEEECCCC
Q ss_conf             4411200220312489980578
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      ..+++||.|+.||++|++-.+.
T Consensus        53 p~v~~Gd~V~~GDi~G~V~E~~   74 (369)
T cd01134          53 PLVKVGDHVTGGDILGTVPENS   74 (369)
T ss_pred             CCCCCCCEECCCCEEEEEECCC
T ss_conf             0267799962786799985578


No 68 
>COG4656 RnfC Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]
Probab=48.62  E-value=7.5  Score=19.64  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=17.8

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      .+.|++||+|.+||+|+.-..
T Consensus        46 ~~~Vkvgd~V~~GQ~l~~~~g   66 (529)
T COG4656          46 ILLVKVGDKVLKGQPLTRGEG   66 (529)
T ss_pred             CEEEEECCEEECCCEEECCCC
T ss_conf             448830888850864203678


No 69 
>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]
Probab=48.57  E-value=11  Score=18.77  Aligned_cols=21  Identities=29%  Similarity=0.482  Sum_probs=18.1

Q ss_pred             CCCCCEEEECCEEEEEECCCC
Q ss_conf             411200220312489980578
Q gi|254780683|r   35 YVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        35 ~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      .+++||.|..||+||+|-.+.
T Consensus       121 ~~~~Gd~V~~GdvlGtV~Et~  141 (588)
T COG1155         121 AVKKGDTVYPGDVLGTVQETS  141 (588)
T ss_pred             CCCCCCEECCCCEEEEECCCC
T ss_conf             666698752685489860677


No 70 
>PRK03934 phosphatidylserine decarboxylase; Provisional
Probab=48.25  E-value=9.6  Score=19.08  Aligned_cols=15  Identities=20%  Similarity=0.333  Sum_probs=9.9

Q ss_pred             CEEEECCEEEEEECC
Q ss_conf             002203124899805
Q gi|254780683|r   39 GQKVSRGHTIGLSGK   53 (84)
Q Consensus        39 G~~V~~G~~IG~vg~   53 (84)
                      ...+++||.+|.---
T Consensus       220 ~~~~~KGdElG~F~~  234 (267)
T PRK03934        220 NLKLKKGEELGNFEM  234 (267)
T ss_pred             CCEECCCCEEEEECC
T ss_conf             864732138223067


No 71 
>pfam02666 PS_Dcarbxylase Phosphatidylserine decarboxylase. This is a family of phosphatidylserine decarboxylases, EC:4.1.1.65. These enzymes catalyse the reaction: Phosphatidyl-L-serine <= phosphatidylethanolamine + CO2. Phosphatidylserine decarboxylase plays a central role in the biosynthesis of aminophospholipids by converting phosphatidylserine to phosphatidylethanolamine.
Probab=45.80  E-value=12  Score=18.60  Aligned_cols=39  Identities=23%  Similarity=0.420  Sum_probs=22.2

Q ss_pred             EEEEECCCCEEEEE--E--CCCCC--CC-CCCEEEECCEEEEEECC
Q ss_conf             99999899889984--1--15634--41-12002203124899805
Q gi|254780683|r   15 TILIRHDDSIVTVY--S--HIDTP--YV-QKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        15 ~V~I~h~~g~~t~Y--~--hl~~i--~v-~~G~~V~~G~~IG~vg~   53 (84)
                      ++.|+...|...+-  +  ...+|  .. ++|+.+++||.+|..--
T Consensus       124 ~~~i~~~~G~v~~v~Vga~~v~~I~~~~~~~g~~v~kG~e~G~f~f  169 (201)
T pfam02666       124 VIVIETKFGKVAVVQVGALNVGSIVLYFKEEGDEVKKGDELGYFKF  169 (201)
T ss_pred             EEEEECCCCCEEEEEECCCCCCEEEEEECCCCCEEECCCEEEEEEC
T ss_conf             9999948970999995530136789997158979845748807962


No 72 
>PRK11856 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed
Probab=45.69  E-value=12  Score=18.53  Aligned_cols=21  Identities=24%  Similarity=0.387  Sum_probs=11.0

Q ss_pred             CCCCCCCCCEEEECCEEEEEE
Q ss_conf             563441120022031248998
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLS   51 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~v   51 (84)
                      |.++.+++|+.|.-|++|+.+
T Consensus        55 l~~i~~~~G~~v~VG~~ia~i   75 (324)
T PRK11856         55 LRKILVEEGDVVPVGAPIAVI   75 (324)
T ss_pred             EEEEECCCCCEECCCCEEEEE
T ss_conf             989960897995799989994


No 73 
>PRK05704 dihydrolipoamide succinyltransferase; Validated
Probab=45.05  E-value=17  Score=17.82  Aligned_cols=26  Identities=15%  Similarity=0.354  Sum_probs=18.1

Q ss_pred             CCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             15634411200220312489980578
Q gi|254780683|r   30 HIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        30 hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      -|.++.+++|+.|.-|++|+.++..+
T Consensus        55 ~l~ki~~~eGd~v~VG~~ia~I~~~~   80 (406)
T PRK05704         55 VLSEILAEEGDTVTVGQVLGRIDEGA   80 (406)
T ss_pred             EEEEEEECCCCEECCCCEEEEEECCC
T ss_conf             99998308989966899899982688


No 74 
>COG3608 Predicted deacylase [General function prediction only]
Probab=44.33  E-value=11  Score=18.75  Aligned_cols=26  Identities=19%  Similarity=0.202  Sum_probs=21.1

Q ss_pred             CCCCCCCCCCEEEECCEEEEEECCCC
Q ss_conf             15634411200220312489980578
Q gi|254780683|r   30 HIDTPYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        30 hl~~i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      .+=+..|+.||+|.+||+++++-..+
T Consensus       265 G~v~~~v~lGd~VeaG~~la~i~~~~  290 (331)
T COG3608         265 GLVEFLVDLGDKVEAGDVLATIHDPP  290 (331)
T ss_pred             CEEEEEECCCCCCCCCCEEEEEECCC
T ss_conf             54877416788021787679973688


No 75 
>KOG0557 consensus
Probab=44.29  E-value=17  Score=17.71  Aligned_cols=35  Identities=14%  Similarity=0.153  Sum_probs=23.3

Q ss_pred             CCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECC
Q ss_conf             634411200220312489980578888856999997868
Q gi|254780683|r   32 DTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNA   70 (84)
Q Consensus        32 ~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g   70 (84)
                      -+-.-|+||.+.+||+|..+..+..    .+-||...+|
T Consensus        56 vsW~kKeGdkls~GDvl~EVETDKA----tmd~E~~ddG   90 (470)
T KOG0557          56 VSWKKKEGDKLSAGDVLLEVETDKA----TMDVEAQDDG   90 (470)
T ss_pred             EEEEECCCCCCCCCCEEEEEECCCC----EEEEEECCCC
T ss_conf             6675225775688865899960451----2334403677


No 76 
>cd05830 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5 represented by Streptomyces avermitilis SAV4337. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=42.80  E-value=20  Score=17.44  Aligned_cols=36  Identities=17%  Similarity=0.329  Sum_probs=22.8

Q ss_pred             ECCCCCC-CCEEEEEECCCCEEEEEECCCCCCCCCCEEE
Q ss_conf             6069865-5119999989988998411563441120022
Q gi|254780683|r    5 VGNDLVE-LGNTILIRHDDSIVTVYSHIDTPYVQKGQKV   42 (84)
Q Consensus         5 ~g~~~~~-~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V   42 (84)
                      .++.++| -||+++--|.+.+-..+.+|+++  ++||.|
T Consensus        36 ~~t~~PG~~Gn~viaGHr~~~~~~F~~L~~l--~~GD~I   72 (137)
T cd05830          36 PETAMPGEVGNFAVAGHRTTYGAPFNDLDKL--RPGDKI   72 (137)
T ss_pred             CCCCCCCCCCEEEEEECCCCCCCCCCCHHCC--CCCCEE
T ss_conf             5888899997199997228977556013538--999999


No 77 
>TIGR01846 type_I_sec_HlyB type I secretion system ATPase; InterPro: IPR010132   Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This entry contains one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N terminus, but rather carry signals located toward the extreme C terminus to direct type I secretion.; GO: 0005524 ATP binding, 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane.
Probab=39.83  E-value=18  Score=17.70  Aligned_cols=18  Identities=33%  Similarity=0.682  Sum_probs=14.5

Q ss_pred             EEEECCEEEEEECCCCCC
Q ss_conf             022031248998057888
Q gi|254780683|r   40 QKVSRGHTIGLSGKSGNA   57 (84)
Q Consensus        40 ~~V~~G~~IG~vg~tg~~   57 (84)
                      =.+++||.||-+|.||..
T Consensus       486 L~I~~Ge~IGIvGpSGSG  503 (703)
T TIGR01846       486 LDIKPGEVIGIVGPSGSG  503 (703)
T ss_pred             CCCCCCEEEEEECCCCCC
T ss_conf             765786579987278986


No 78 
>TIGR02876 spore_yqfD sporulation protein YqfD; InterPro: IPR010690   This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis (P54469 from SWISSPROT) is known to be essential for efficient sporulation although its exact function is unknown ..
Probab=38.68  E-value=30  Score=16.47  Aligned_cols=42  Identities=33%  Similarity=0.552  Sum_probs=28.2

Q ss_pred             CCEEEEEECCCC-EEEEEECCCCCCCCCCEEEECCEEE--EEE-----CCCC
Q ss_conf             511999998998-8998411563441120022031248--998-----0578
Q gi|254780683|r   12 LGNTILIRHDDS-IVTVYSHIDTPYVQKGQKVSRGHTI--GLS-----GKSG   55 (84)
Q Consensus        12 ~G~~V~I~h~~g-~~t~Y~hl~~i~v~~G~~V~~G~~I--G~v-----g~tg   55 (84)
                      ..|.|.=+  +| ..-+|---.+.-|+.||.|++||++  |..     |..+
T Consensus       191 p~niVAkk--~G~i~~~~v~~G~~~Vk~GD~VkkGd~Li~G~~rYWaGG~e~  240 (406)
T TIGR02876       191 PRNIVAKK--DGVIKRVYVTSGEAVVKKGDVVKKGDLLISGILRYWAGGKEG  240 (406)
T ss_pred             CCCEEEEC--CEEEEEEEEECCEEEECCCCEECCCCEEEEECCCCCCCCCCC
T ss_conf             72326633--408888655111648548887657717871110010588898


No 79 
>PRK11855 dihydrolipoamide acetyltransferase; Reviewed
Probab=38.62  E-value=23  Score=17.07  Aligned_cols=22  Identities=27%  Similarity=0.219  Sum_probs=9.6

Q ss_pred             CCCCCCCCCEEEECCEEEEEEC
Q ss_conf             5634411200220312489980
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSG   52 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg   52 (84)
                      +.++.+++|+.|..|++|+.++
T Consensus       171 l~ki~v~eGd~v~VG~~ia~i~  192 (549)
T PRK11855        171 VKEIKVKVGDKVSVGSLLFKIE  192 (549)
T ss_pred             EEEEEECCCCCCCCCCEEEEEE
T ss_conf             4476505898045798789972


No 80 
>COG1038 PycA Pyruvate carboxylase [Energy production and conversion]
Probab=35.40  E-value=15  Score=18.06  Aligned_cols=21  Identities=29%  Similarity=0.479  Sum_probs=18.1

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ++.|++||.|++||.+..+..
T Consensus      1092 ~v~V~~G~~Vk~Gd~l~~ieA 1112 (1149)
T COG1038        1092 EVKVKKGDKVKKGDVLAVIEA 1112 (1149)
T ss_pred             EEEECCCCCCCCCCEEEEEHH
T ss_conf             999745873047986533022


No 81 
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein; InterPro: IPR011924   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This entry represents LolD, a member of the ABC transporter family. LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on the residue immediately following the modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. Excluded from this entry are homologs from the archaeal genus Methanosarcina .; GO: 0005524 ATP binding, 0006810 transport, 0016020 membrane.
Probab=35.39  E-value=9  Score=19.23  Aligned_cols=24  Identities=21%  Similarity=0.570  Sum_probs=16.6

Q ss_pred             EEEECCEEEEEECCCCCCCCCEEE
Q ss_conf             022031248998057888885699
Q gi|254780683|r   40 QKVSRGHTIGLSGKSGNAQHPQVH   63 (84)
Q Consensus        40 ~~V~~G~~IG~vg~tg~~~g~hLh   63 (84)
                      =.|.+||.+|.||+||...-+=||
T Consensus        26 l~i~~GE~~~IvG~SGSGKSTLLH   49 (221)
T TIGR02211        26 LSIGKGEIVAIVGSSGSGKSTLLH   49 (221)
T ss_pred             CEEECCCEEEEECCCCCCHHHHHH
T ss_conf             123066337987367871689999


No 82 
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=35.15  E-value=20  Score=17.43  Aligned_cols=30  Identities=33%  Similarity=0.311  Sum_probs=13.9

Q ss_pred             EEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEE
Q ss_conf             999998998899841156344112002203124899
Q gi|254780683|r   15 TILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGL   50 (84)
Q Consensus        15 ~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~   50 (84)
                      +.+.---+|+.+      +..++.||.|.+|..+-.
T Consensus       209 T~IrAP~dG~V~------~~~v~~G~~V~~G~~l~a  238 (352)
T COG1566         209 TVIRAPVDGYVT------NLSVRVGQYVSAGTPLMA  238 (352)
T ss_pred             CEEECCCCCEEE------EECCCCCCEECCCCCEEE
T ss_conf             899877896697------003557875048973499


No 83 
>PRK06748 hypothetical protein; Validated
Probab=34.35  E-value=41  Score=15.75  Aligned_cols=45  Identities=18%  Similarity=0.135  Sum_probs=32.5

Q ss_pred             CCCCEEEEEECCCCEEE-----EEECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             65511999998998899-----8411563441120022031248998057
Q gi|254780683|r   10 VELGNTILIRHDDSIVT-----VYSHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        10 ~~~G~~V~I~h~~g~~t-----~Y~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.|-+...|+..||-.-     +=++...+.|.+||.|..+..+.++-.+
T Consensus        28 yEWEkL~~I~~~dg~le~v~vGisG~I~~v~Ve~Gq~i~~~~lL~~vedD   77 (84)
T PRK06748         28 YEWEKLALIETIDKQKVEIKVGISGYIESLEVVEGQAIADQKLLITVRDD   77 (84)
T ss_pred             EEEEEEEEEEECCCCEEEEEEEEEEEEEEEEEECCCEECCCCEEEEEECC
T ss_conf             86423457750698289999821427889886228465377389998714


No 84 
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=33.08  E-value=23  Score=17.12  Aligned_cols=21  Identities=29%  Similarity=0.363  Sum_probs=18.0

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ++.|++||.|.+||.+-.+..
T Consensus       588 ~v~V~~G~~V~~G~~lvvlEA  608 (645)
T COG4770         588 SVAVKEGQEVSAGDLLVVLEA  608 (645)
T ss_pred             EEEECCCCEECCCCEEEEEEE
T ss_conf             999368977547986788671


No 85 
>TIGR02712 urea_carbox urea carboxylase; InterPro: IPR014084   Members of this family are ATP-dependent urea carboxylases, including characterised members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae (Baker's yeast). The allophanate hydrolase domain of the yeast enzyme is not included in this entry and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from O. sagaranensis was shown to be highly active on acetamide and formamide as well as urea..
Probab=32.67  E-value=43  Score=15.62  Aligned_cols=36  Identities=19%  Similarity=0.276  Sum_probs=28.3

Q ss_pred             ECCCCEEEEEECCC----CCCCCCCEEEECCEEEEEECCC
Q ss_conf             98998899841156----3441120022031248998057
Q gi|254780683|r   19 RHDDSIVTVYSHID----TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        19 ~h~~g~~t~Y~hl~----~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-.+|-..+++++.    ++.|..||.|++||.|-.+...
T Consensus      1152 ~~~~g~~~V~s~~~G~~WK~~V~~G~~V~~G~~l~i~EaM 1191 (1226)
T TIGR02712      1152 DLPEGAVQVESEVAGNVWKVLVEVGDRVEAGQPLVIIEAM 1191 (1226)
T ss_pred             CCCCCCEEEEEECEEEEEEEEECCCCEEECCCEEEEEEEC
T ss_conf             3657714898502014656652126632048738999435


No 86 
>PRK09783 copper/silver efflux system membrane fusion protein CusB; Provisional
Probab=32.38  E-value=24  Score=16.99  Aligned_cols=31  Identities=13%  Similarity=0.177  Sum_probs=17.1

Q ss_pred             EEEEEECCC----CCCCCCCEEEECCEEEEEECCC
Q ss_conf             899841156----3441120022031248998057
Q gi|254780683|r   24 IVTVYSHID----TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        24 ~~t~Y~hl~----~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ..++|+-.+    +..+.+|+.|.+|+.|-++.+-
T Consensus       207 ~~ti~AP~sGvV~~~~v~~G~~V~~G~~Lf~IaDL  241 (407)
T PRK09783        207 RFTLKAPIDGVITAFDLRAGMNIAKDNVVAKIQGM  241 (407)
T ss_pred             EEEEECCCCCEEEEEECCCCCEECCCCEEEEEECC
T ss_conf             38997688807999744789566799806999647


No 87 
>PRK04350 thymidine phosphorylase; Provisional
Probab=31.66  E-value=26  Score=16.82  Aligned_cols=21  Identities=19%  Similarity=0.140  Sum_probs=16.0

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.+|.||.|++||+|.++=.+
T Consensus       455 l~~KvGd~V~kGdpL~tIhA~  475 (502)
T PRK04350        455 LHKKIGDKVKKGDPLYTIYAE  475 (502)
T ss_pred             EEECCCCEECCCCEEEEEECC
T ss_conf             960487996799849999669


No 88 
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=31.36  E-value=26  Score=16.76  Aligned_cols=22  Identities=14%  Similarity=0.218  Sum_probs=18.6

Q ss_pred             CCCCCCEEEECCEEEEEECCCC
Q ss_conf             4411200220312489980578
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKSG   55 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~tg   55 (84)
                      +.++.||.|++||+|.++-.+.
T Consensus       385 l~~k~Gd~V~kGdpl~~iya~~  406 (440)
T PRK05820        385 LHARLGDRVDAGEPLATLHADD  406 (440)
T ss_pred             EECCCCCEECCCCEEEEEECCC
T ss_conf             8515889967999499997499


No 89 
>PRK12784 hypothetical protein; Provisional
Probab=30.91  E-value=47  Score=15.43  Aligned_cols=45  Identities=16%  Similarity=0.213  Sum_probs=32.3

Q ss_pred             CCCCEEEEEECCCCEEE-----EEECCCCCCCCCCEEEECCEEEEEECCC
Q ss_conf             65511999998998899-----8411563441120022031248998057
Q gi|254780683|r   10 VELGNTILIRHDDSIVT-----VYSHIDTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        10 ~~~G~~V~I~h~~g~~t-----~Y~hl~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.|-+...|+..||-.-     +=++...+.|.+||.|..+..+.++-.+
T Consensus        28 YEWEkL~~I~~~dg~le~v~vGiSG~I~~v~Ve~Gq~i~~~tlL~~~edD   77 (84)
T PRK12784         28 YEWEKLMMIRKNNGELEKVAVGISGNIRLVNVVVGQQIHTDTLLVRLEDD   77 (84)
T ss_pred             EEEEEEEEEEECCCCEEEEEEEEEEEEEEEEEECCCEECCCCEEEEEECC
T ss_conf             86423457750698289999820116899986228543477189998603


No 90 
>TIGR02645 ARCH_P_rylase putative thymidine phosphorylase; InterPro: IPR013466    Proteins in this entry are closely related to characterised examples of thymidine phosphorylase (2.4.2.4 from EC) and pyrimidine nucleoside phosphorylase (2.4.2.2 from EC). Most examples are found in the archaea, but other examples are found in bacteria such as Legionella pneumophila (strain Paris) and Rhodopseudomonas palustris CGA009.; GO: 0009032 thymidine phosphorylase activity.
Probab=30.80  E-value=22  Score=17.15  Aligned_cols=37  Identities=22%  Similarity=0.194  Sum_probs=27.6

Q ss_pred             EEECCCCEEEEEECCC------------------CCCCCCCEEEECCEEEEEECC
Q ss_conf             9998998899841156------------------344112002203124899805
Q gi|254780683|r   17 LIRHDDSIVTVYSHID------------------TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        17 ~I~h~~g~~t~Y~hl~------------------~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      |.-.-|||.|..-+..                  ++.||.|++|++|++|=++=.
T Consensus       422 I~A~~DG~Vt~IDN~~i~~IAr~AGAP~DKgAGv~lhvK~G~~Vk~GdPL~TIyA  476 (499)
T TIGR02645       422 IHAETDGYVTEIDNKRITRIARLAGAPNDKGAGVELHVKVGDKVKKGDPLYTIYA  476 (499)
T ss_pred             EEECCCCEEHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCEEECCCCCEEEEC
T ss_conf             8736886150423889999998718887676843888654677203870158850


No 91 
>TIGR01235 pyruv_carbox pyruvate carboxylase; InterPro: IPR005930    In the postabsorptive state, blood glucose concentration is kept constant by a combination of glycogenolysis and gluconeogenesis. During prolonged fasting, when hepatic glycogen is exhausted, gluconeogenesis becomes the only source of plasma glucose. Gluconeogenesis (the production of new glucose molecules) occurs mainly in liver and, to a small extent, in kidneys.    Pyruvate carboxylase (6.4.1.1 from EC), a member of the biotin-dependent enzyme family, catalyses the ATP-dependent carboxylation of pyruvate to oxaloacetate, thus playing a crucial role in gluconeogenesis.  ATP + pyruvate + HCO3- = ADP + phosphate + oxaloacetate  Most well characterised forms of active enzyme consist of four identical subunits arranged in a tetrahedron-like structure. Each subunit contains three functional domains: the biotin carboxylation domain, the transcarboxylation domain and the biotin carboxyl carrier domain.; GO: 0004736 pyruvate carboxylase activity, 0006094 gluconeogenesis, 0005737 cytoplasm.
Probab=30.66  E-value=19  Score=17.55  Aligned_cols=45  Identities=22%  Similarity=0.251  Sum_probs=27.7

Q ss_pred             CCCCCCCEEEECCEEEEEECCCC-------CCCCCEEEEEEE-ECCEECCHHHHH
Q ss_conf             34411200220312489980578-------888856999997-868980526987
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGKSG-------NAQHPQVHFELR-KNAIAMDPIKFL   79 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~tg-------~~~g~hLhfei~-~~g~~vdP~~~l   79 (84)
                      +|.|+.|+.|++||++.....-.       -..|  .==|+. ++|..||-.+.|
T Consensus      1113 ~v~v~~G~~v~kGd~l~~~~AMKME~~v~ap~~G--~vk~v~v~~G~~i~~~DLL 1165 (1169)
T TIGR01235      1113 EVKVEAGQKVNKGDPLVVLEAMKMETVVQAPKDG--TVKEVLVKDGEKIDAKDLL 1165 (1169)
T ss_pred             EEEEECCCEECCCCEEEEEECCCCCCEEECCCCC--EEEEEEECCCCCCCCCCEE
T ss_conf             9994138730167848996037632046678997--2468883588703512113


No 92 
>TIGR00078 nadC nicotinate-nucleotide pyrophosphorylase; InterPro: IPR004393   Nicotinate-nucleotide pyrophosphorylase (2.4.2.19 from EC), also known as quinolinate phosphoribosyltransferase (decarboxylating), catalyses the conversion of nicotinate D-ribonucleotide, pyrophosphate and carbon dioxide into pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate. This enzyme is a type II phosphoribosyltransferase which provides the de novo source of nicotinate mononucleotide (NAMN) for NAD biosynthesis in both prokaryotes and eukaryotes , .   Structural studies have shown that the active form of this enzyme is a homodimer with an unsual fold , , . The N-terminal forms a mixed alpha/beta domain, while the C-terminal region forms a multi-stranded, open alpha/beta barrel. The active site is found at the C-terminal ends of the beta strands of the alpha/beta barrel, and is bordered by the N-terminal domain of the second subunit of the dimer. It contains several conserved charged residues thought to be important determinants of substrate binding and catalysis. ; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0019363 pyridine nucleotide biosynthetic process.
Probab=30.36  E-value=30  Score=16.45  Aligned_cols=21  Identities=19%  Similarity=0.278  Sum_probs=17.5

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      ..++.|+.|++||.|+++--+
T Consensus        64 ~~~~DG~~~~~G~~v~~~~G~   84 (276)
T TIGR00078        64 WLVKDGDEVEAGEVVAEVEGP   84 (276)
T ss_pred             EECCCCCEECCCCEEEEEECC
T ss_conf             103788774477389999746


No 93 
>PRK02693 apocytochrome f; Reviewed
Probab=30.31  E-value=48  Score=15.37  Aligned_cols=40  Identities=18%  Similarity=0.229  Sum_probs=27.2

Q ss_pred             CEEEEEECCCCEEE---EEECCCCCCCCCCEEEECCEEEEEECC
Q ss_conf             11999998998899---841156344112002203124899805
Q gi|254780683|r   13 GNTILIRHDDSIVT---VYSHIDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        13 G~~V~I~h~~g~~t---~Y~hl~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      |..|.|...+|-..   +-... ++.|++||.|++||.+-.-.|
T Consensus       217 ~~~v~I~t~~G~~v~~~iP~Gp-~liV~~G~~v~~~qpLT~nPN  259 (312)
T PRK02693        217 SYVVTITTEDGEVVTETIPAGP-ELIVKEGDAVEAGAPLTNDPN  259 (312)
T ss_pred             CEEEEEECCCCCEEEEECCCCC-EEEECCCCEEECCCCCCCCCC
T ss_conf             6799998899999988529998-589727988856986667998


No 94 
>PRK06078 pyrimidine-nucleoside phosphorylase; Reviewed
Probab=30.16  E-value=29  Score=16.56  Aligned_cols=21  Identities=14%  Similarity=0.148  Sum_probs=18.0

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.++.||.|++||+|.++-.+
T Consensus       380 l~~k~Gd~V~kGdpL~tiya~  400 (434)
T PRK06078        380 LRKKVGDSVKKGESLVTIYAN  400 (434)
T ss_pred             EECCCCCEECCCCEEEEEECC
T ss_conf             725695995799949999748


No 95 
>TIGR00653 GlnA glutamine synthetase, type I; InterPro: IPR004809   Glutamine synthetase type I (or glutamate-ammonia ligase) has a dodecameric form, which can be subdivided into 1-alpha and 1-beta forms. The phylogeny of the 1-alpha and 1-beta forms appears polyphyletic. Escherichia coli, Synechocystis sp. (strain PCC 6803) , Aquifex aeolicus, and the crenarcheon Sulfolobus acidocaldarius have form 1-beta, while Bacillus subtilis, Thermotoga maritima, and various euryarchaea has form 1-alpha. The 1-beta dodecamer from the crenarcheon S. acidocaldarius differs from that in E. coli in that it is not regulated by adenylation. ; GO: 0004356 glutamate-ammonia ligase activity, 0009399 nitrogen fixation, 0005737 cytoplasm.
Probab=30.11  E-value=39  Score=15.87  Aligned_cols=61  Identities=13%  Similarity=0.078  Sum_probs=37.8

Q ss_pred             CCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECC------------------C---CCCCCCEEEEEEEE
Q ss_conf             65511999998998899841156344112002203124899805------------------7---88888569999978
Q gi|254780683|r   10 VELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGK------------------S---GNAQHPQVHFELRK   68 (84)
Q Consensus        10 ~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~------------------t---g~~~g~hLhfei~~   68 (84)
                      ..+|-.|..-|   ..-.=+.-.+|.+|-.+-|+++|-|=+.--                  .   -+.+|=|.|++||+
T Consensus       209 ~~~G~~~E~~H---HEVA~aGQ~Eid~kf~~l~~~AD~~~~yKyvvK~vA~~~Gk~ATFMPKPlfGdNGSGMH~H~SLWK  285 (486)
T TIGR00653       209 EQLGLDVEVHH---HEVATAGQHEIDFKFDTLLKTADDIQTYKYVVKNVAKKHGKTATFMPKPLFGDNGSGMHCHQSLWK  285 (486)
T ss_pred             HHCCCEEEEEE---CCCCCCCCEEEECCHHHHHHHHCCEEEHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCEEEEEEEE
T ss_conf             86598288860---101478742530464789874050451478998999983887974587887726685548355632


Q ss_pred             ----CCEEC
Q ss_conf             ----68980
Q gi|254780683|r   69 ----NAIAM   73 (84)
Q Consensus        69 ----~g~~v   73 (84)
                          +|+++
T Consensus       286 ~ePf~Genl  294 (486)
T TIGR00653       286 GEPFDGENL  294 (486)
T ss_pred             CCCCCCCEE
T ss_conf             778888400


No 96 
>PRK10218 GTP-binding protein; Provisional
Probab=29.66  E-value=37  Score=16.00  Aligned_cols=41  Identities=22%  Similarity=0.507  Sum_probs=28.1

Q ss_pred             EEEEEECCCCEEEEEE--CCC---CCCCCCCEEEECCEEEEEECCC
Q ss_conf             1999998998899841--156---3441120022031248998057
Q gi|254780683|r   14 NTILIRHDDSIVTVYS--HID---TPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        14 ~~V~I~h~~g~~t~Y~--hl~---~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +-++|....|-.|.|+  +|+   .++|.+|+.|-.|++||.-..+
T Consensus       485 ~G~lis~~~g~~t~yal~~lq~rg~lfv~pg~~vy~GmivGe~~r~  530 (607)
T PRK10218        485 NGVLISNGQGKAVAFALFGLQDRGKLFLGHGAEVYEGQIIGIHSRS  530 (607)
T ss_pred             CEEEEECCCCEEHHHHHHHHHHCCCEEECCCCCEECCEEEEEECCC
T ss_conf             5137975776178987753875453673699966887586760786


No 97 
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit; InterPro: IPR012754   DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel.   RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise:  RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors.  RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs.  Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits.   This entry represents the beta-prime subunit, RpoC, found in most bacteria. It excludes some, mainly cyanobacterial, species where RpoC is replaced by two homologous proteins that include an additional domain. One arm of the "claw" is predominantly formed by this subunit, the other being predominantly formed by the beta subunit. The active site of the enzyme is defined by three invariant aspartate residues within the beta-prime subunit .; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006350 transcription.
Probab=29.62  E-value=29  Score=16.55  Aligned_cols=18  Identities=28%  Similarity=0.381  Sum_probs=8.4

Q ss_pred             CCCCCCEEEECCEEEEEE
Q ss_conf             441120022031248998
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLS   51 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~v   51 (84)
                      |.|+.|+.|++|+.||+.
T Consensus      1191 i~V~~g~~V~~G~~~aef 1208 (1552)
T TIGR02386      1191 ILVEDGDAVKEGQRIAEF 1208 (1552)
T ss_pred             EEEECCCCCCCCCEEEEE
T ss_conf             886158620588757884


No 98 
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=29.46  E-value=30  Score=16.49  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=18.4

Q ss_pred             CCCCCEEEECCEEEEEECCCCC
Q ss_conf             4112002203124899805788
Q gi|254780683|r   35 YVQKGQKVSRGHTIGLSGKSGN   56 (84)
Q Consensus        35 ~v~~G~~V~~G~~IG~vg~tg~   56 (84)
                      .++.||.|..|+.||++-.++.
T Consensus       123 ~~~~Gd~v~~Gdilg~V~Et~~  144 (585)
T PRK04192        123 TVKVGDKVVAGDVLGTVQETGS  144 (585)
T ss_pred             CCCCCCCCCCCCEEEEEECCCC
T ss_conf             1355874157865788504665


No 99 
>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD; InterPro: IPR014138   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).    This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are related families..
Probab=28.91  E-value=37  Score=15.96  Aligned_cols=36  Identities=22%  Similarity=0.345  Sum_probs=25.6

Q ss_pred             EEECCEEEEEECCCCCC--------------CCCEEEEEEEECCEECCHH
Q ss_conf             22031248998057888--------------8856999997868980526
Q gi|254780683|r   41 KVSRGHTIGLSGKSGNA--------------QHPQVHFELRKNAIAMDPI   76 (84)
Q Consensus        41 ~V~~G~~IG~vg~tg~~--------------~g~hLhfei~~~g~~vdP~   76 (84)
                      .++.|+++|.+|.||..              .-..--=||+-+|++++|.
T Consensus         8 ~lk~G~~~aLvG~SGSGKS~tc~A~Lg~L~~~~~~~~G~i~l~G~~~~~~   57 (239)
T TIGR02770         8 SLKRGEVLALVGESGSGKSLTCLAILGLLPPGLTQTSGEILLDGRPLLAL   57 (239)
T ss_pred             EEECCEEEEEECCCCCCHHHHHHHHHCCCCCCCEEEEEEEEECCCCCCCC
T ss_conf             03324378887487875899999985035865223102667717231458


No 100
>PRK11854 aceF dihydrolipoamide acetyltransferase; Validated
Probab=28.69  E-value=35  Score=16.13  Aligned_cols=23  Identities=30%  Similarity=0.283  Sum_probs=11.6

Q ss_pred             CCCCCCCCCEEEECCEEEEEECC
Q ss_conf             56344112002203124899805
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.+|.+++|+.|..|+.|+.++.
T Consensus       157 ~~~i~~~~g~~v~~g~~i~~i~~  179 (630)
T PRK11854        157 VKEIKVNVGDKVSTGSLIMVFEV  179 (630)
T ss_pred             EEEECCCCCCEECCCCEEEEECC
T ss_conf             88712689988447976788536


No 101
>cd06165 Sortase_A_1 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal (usually a pentapeptide motif), and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. This group contains a subset of Class A (subfamily-1) sortases, excluding SrtA from Staphylococcus aureus. Sortase A cleaves between threonine and glycine of the LPXTG motif in a wide range of protein substrates. It affects the ability of a pathogen to establish successful infection. Sortase A contains an N-terminal region that functions as both a signal peptide for secretion and a stop-tra
Probab=28.56  E-value=52  Score=15.22  Aligned_cols=59  Identities=19%  Similarity=0.264  Sum_probs=30.4

Q ss_pred             ECCCCCCCCEEEEEECCCCE-EEEEECCCCCCCCCCEEEECCEEEEEECCCCCCCCCEEEEEEEECCEECCHHH
Q ss_conf             60698655119999989988-99841156344112002203124899805788888569999978689805269
Q gi|254780683|r    5 VGNDLVELGNTILIRHDDSI-VTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNAQHPQVHFELRKNAIAMDPIK   77 (84)
Q Consensus         5 ~g~~~~~~G~~V~I~h~~g~-~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~~g~hLhfei~~~g~~vdP~~   77 (84)
                      .++...+-||+++--|..++ -+.+.+|+++.  +||.|      =.....     ....|++... +.++|.+
T Consensus        34 ~~~~~~G~gN~viaGH~~~~~~~~F~~L~~l~--~GD~I------~v~~~~-----~~~~Y~V~~~-~iV~p~d   93 (127)
T cd06165          34 KEDQKMGKGNYALAGHNMRNKGVLFSPLYKVK--VGDKI------YLTDKD-----NVYEYKVTSK-KIVDPTR   93 (127)
T ss_pred             CCCCCCCCCCEEEEECCCCCCCCCCCCHHHCC--CCCEE------EEEECC-----CEEEEEEEEE-EEECCCC
T ss_conf             58766998869999365886765466765689--99999------999899-----3999999489-9999887


No 102
>KOG0559 consensus
Probab=28.42  E-value=26  Score=16.76  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=15.3

Q ss_pred             CCCCCCCCCEEEECCEEEEEECC
Q ss_conf             56344112002203124899805
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +.++.|+.||+|+.||.++.+..
T Consensus       126 i~e~lvk~gdtV~~g~~la~i~~  148 (457)
T KOG0559         126 ITELLVKDGDTVTPGQKLAKISP  148 (457)
T ss_pred             EEEEECCCCCCCCCCCEEEEECC
T ss_conf             45774078975047864577358


No 103
>TIGR01936 nqrA NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; InterPro: IPR008703 This family consists of several bacterial Na^+-translocating NADH-quinone reductase subunit A (NQRA) proteins. The Na^+-translocating NADH: ubiquinone oxidoreductase (Na^+-NQR) generates an electrochemical Na^+ potential driven by aerobic respiration .; GO: 0016655 oxidoreductase activity acting on NADH or NADPH quinone or similar compound as acceptor, 0006814 sodium ion transport.
Probab=27.24  E-value=19  Score=17.54  Aligned_cols=43  Identities=16%  Similarity=0.202  Sum_probs=27.4

Q ss_pred             EECCC-CCCCCCCEEEECCEEEEEECCCCC------CCCCEEEEEEEECCEE
Q ss_conf             41156-344112002203124899805788------8885699999786898
Q gi|254780683|r   28 YSHID-TPYVQKGQKVSRGHTIGLSGKSGN------AQHPQVHFELRKNAIA   72 (84)
Q Consensus        28 Y~hl~-~i~v~~G~~V~~G~~IG~vg~tg~------~~g~hLhfei~~~g~~   72 (84)
                      |..|. ++.|++||.|++||+|..--.-..      .+|  -=.+|+++.|.
T Consensus        36 f~g~~p~~~v~~GD~V~~G~~L~~~K~~P~v~fTsPvsG--~V~ai~RG~KR   85 (466)
T TIGR01936        36 FEGLRPKMKVRPGDKVKAGQVLFEDKKNPGVKFTSPVSG--EVVAINRGAKR   85 (466)
T ss_pred             CCCCCCEEEEEECCEEEECCHHHHHCCCCCCEEECCCCC--EEEEEECCCCC
T ss_conf             878665067700770100222333026898568617775--69997418972


No 104
>TIGR01448 recD_rel helicase, RecD/TraA family; InterPro: IPR006345   These sequences represent a family similar to RecD, the exodeoxyribonuclease V alpha chain of IPR006344 from INTERPRO. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD. .
Probab=26.14  E-value=4.1  Score=21.02  Aligned_cols=52  Identities=23%  Similarity=0.383  Sum_probs=43.5

Q ss_pred             CEEEECCCCCCCCEEEEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEECCCCCC
Q ss_conf             599960698655119999989988998411563441120022031248998057888
Q gi|254780683|r    1 MVIYVGNDLVELGNTILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLSGKSGNA   57 (84)
Q Consensus         1 VVv~~g~~~~~~G~~V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~~   57 (84)
                      |++.+|  .+|+|++-+|+   +...+|.-++......-+.|.-.+.|....=||++
T Consensus       367 v~iLTG--GPGTGKtT~t~---~i~~~~~~~~gl~l~~~~~vndd~~v~LaAPTGrA  418 (769)
T TIGR01448       367 VVILTG--GPGTGKTTITK---AIIELYEELKGLDLDKDDYVNDDLPVVLAAPTGRA  418 (769)
T ss_pred             EEEEEC--CCCCCHHHHHH---HHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCHHH
T ss_conf             899857--78886168999---99999987168775531245677648873774378


No 105
>TIGR03327 AMP_phos AMP phosphorylase. This enzyme family is found, so far, strictly in the Archaea, and only in those with a type III Rubisco enzyme. Most of the members previously were annotated as thymidine phosphorylase, or DeoA. The AMP metabolized by this enzyme may be produced by ADP-dependent sugar kinases.
Probab=25.62  E-value=38  Score=15.91  Aligned_cols=21  Identities=24%  Similarity=0.240  Sum_probs=15.0

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.+|.||.|++||+|.++=.+
T Consensus       452 l~~k~Gd~V~~GdpL~tiha~  472 (500)
T TIGR03327       452 LHVKVGEKVKKGDPLYTIYAE  472 (500)
T ss_pred             EECCCCCEECCCCEEEEEECC
T ss_conf             843687987799939999779


No 106
>pfam02749 QRPTase_N Quinolinate phosphoribosyl transferase, N-terminal domain. Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase EC:2.4.2.19 is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide. The QA substrate is bound between the C-terminal domain of one subunit, and the N-terminal domain of the other. The N-terminal domain has an alpha/beta hammerhead fold.
Probab=25.20  E-value=39  Score=15.87  Aligned_cols=20  Identities=25%  Similarity=0.243  Sum_probs=16.6

Q ss_pred             CCCCCCEEEECCEEEEEECC
Q ss_conf             44112002203124899805
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~   53 (84)
                      ..++.|+.|++||+|.++-.
T Consensus        49 ~~~~dG~~v~~g~~i~~i~G   68 (88)
T pfam02749        49 WLVKDGERVEAGDVILEIEG   68 (88)
T ss_pred             EECCCCCEECCCCEEEEEEE
T ss_conf             99688999179999999998


No 107
>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit; InterPro: IPR005776    This family describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea . The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.; GO: 0008948 oxaloacetate decarboxylase activity, 0006814 sodium ion transport.
Probab=25.15  E-value=26  Score=16.77  Aligned_cols=46  Identities=20%  Similarity=0.199  Sum_probs=26.1

Q ss_pred             CCCCCCCCCEEEECCEEEEEECCCC-----CC--CCCEEE-EEEEECCEECCHHHH
Q ss_conf             5634411200220312489980578-----88--885699-999786898052698
Q gi|254780683|r   31 IDTPYVQKGQKVSRGHTIGLSGKSG-----NA--QHPQVH-FELRKNAIAMDPIKF   78 (84)
Q Consensus        31 l~~i~v~~G~~V~~G~~IG~vg~tg-----~~--~g~hLh-fei~~~g~~vdP~~~   78 (84)
                      .=++.|+.||.|++||++=-+..-.     .+  .| -++ |-+ +.|..|+|-+.
T Consensus       562 i~~~~V~~G~~V~~G~vlL~~EAMKME~Ei~A~~aG-~V~~i~v-~~Gd~V~~gqV  615 (616)
T TIGR01108       562 IVKITVSEGDEVKEGEVLLVVEAMKMETEIKAAAAG-IVEEILV-KKGDKVSPGQV  615 (616)
T ss_pred             EEEEEECCCCEECCCCEEEEEECCCCCHHHCCCCCC-CEEEEEE-CCCCEECCCCC
T ss_conf             699983578743157758853100111220054357-0112344-57875088667


No 108
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA; InterPro: IPR011917   ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs.   ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain .    The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , .   The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , .   Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1).     This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes .; GO: 0005524 ATP binding, 0006869 lipid transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=24.54  E-value=46  Score=15.48  Aligned_cols=30  Identities=30%  Similarity=0.503  Sum_probs=20.3

Q ss_pred             EEEEEEC-----CCCCCCCCCEEEECCEEEEEECCCCCC
Q ss_conf             8998411-----563441120022031248998057888
Q gi|254780683|r   24 IVTVYSH-----IDTPYVQKGQKVSRGHTIGLSGKSGNA   57 (84)
Q Consensus        24 ~~t~Y~h-----l~~i~v~~G~~V~~G~~IG~vg~tg~~   57 (84)
                      ....|..     |++|+    =.|++|+.+|.||.||..
T Consensus       366 v~~~Yp~~~~~aL~~i~----l~~~~G~~vALVGRSGSG  400 (603)
T TIGR02203       366 VTFRYPGRDRPALDSIS----LVVEPGETVALVGRSGSG  400 (603)
T ss_pred             EEEEECCCCHHHHCCCC----CEECCCCEEEEECCCCCH
T ss_conf             66653788724123666----511587359987068853


No 109
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=24.48  E-value=50  Score=15.30  Aligned_cols=17  Identities=29%  Similarity=0.751  Sum_probs=14.2

Q ss_pred             EEEECCEEEEEECCCCC
Q ss_conf             02203124899805788
Q gi|254780683|r   40 QKVSRGHTIGLSGKSGN   56 (84)
Q Consensus        40 ~~V~~G~~IG~vg~tg~   56 (84)
                      =.|++|+.+|.+|.||.
T Consensus        26 ~~i~~GE~lgiVGESGs   42 (316)
T COG0444          26 FELKKGEILGIVGESGS   42 (316)
T ss_pred             EEECCCCEEEEECCCCC
T ss_conf             88758968999838978


No 110
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor.  The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids.  RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family.  Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft.  RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%.  The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=24.11  E-value=45  Score=15.52  Aligned_cols=28  Identities=25%  Similarity=0.430  Sum_probs=20.0

Q ss_pred             EEECCCCCCCCCCEEEECCEEEEEECCCCC
Q ss_conf             841156344112002203124899805788
Q gi|254780683|r   27 VYSHIDTPYVQKGQKVSRGHTIGLSGKSGN   56 (84)
Q Consensus        27 ~Y~hl~~i~v~~G~~V~~G~~IG~vg~tg~   56 (84)
                      ++.+++ +.++.| .+++|+.+|.+|.+|.
T Consensus         9 ~l~~~s-L~i~~G-ti~~GEiv~liGpNGa   36 (246)
T cd03237           9 TLGEFT-LEVEGG-SISESEVIGILGPNGI   36 (246)
T ss_pred             ECCEEE-EEECCC-CCCCCCEEEEECCCCC
T ss_conf             615068-985688-4657989999979997


No 111
>TIGR00998 8a0101 efflux pump membrane protein; InterPro: IPR005694    emrA and emrB confer resistance to carbonylcyanide m-chlorophenylhydrazone, nalidixic acid, and a number of other toxic compounds. EmrB encodes a highly hydrophobic 56.2-kDa peptide, with 14 potential alpha-helices to span the inner membrane. EmrA encodes a putative 42.7-kDa peptide containing a single hydrophobic domain and a large C-terminal hydrophilic domain.; GO: 0015238 drug transporter activity, 0006855 multidrug transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=22.73  E-value=30  Score=16.47  Aligned_cols=30  Identities=30%  Similarity=0.206  Sum_probs=17.3

Q ss_pred             EEEECCCCEEEEEECCCCCCCCCCEEEECCEEEEEE
Q ss_conf             999989988998411563441120022031248998
Q gi|254780683|r   16 ILIRHDDSIVTVYSHIDTPYVQKGQKVSRGHTIGLS   51 (84)
Q Consensus        16 V~I~h~~g~~t~Y~hl~~i~v~~G~~V~~G~~IG~v   51 (84)
                      .++.-=+|+.+      +..|++||.|++|++|=.+
T Consensus       246 ~iraP~dG~Va------~r~vqvG~~vS~g~p~ma~  275 (379)
T TIGR00998       246 EIRAPFDGYVA------RRKVQVGQVVSPGQPLMAV  275 (379)
T ss_pred             EEECCCCCEEE------EEECCCCCEECCCCCEEEE
T ss_conf             64367220587------7630788611589725777


No 112
>cd04493 BRCA2DBD_OB1 BRCA2DBD_OB1: A subfamily of OB folds corresponding to the first OB fold (OB1) of the 800-amino acid C-terminal ssDNA binding domain (DBD) of BRCA2 (breast cancer susceptibility gene 2) protein, called BRCA2DBD. BRCA2 participates in homologous recombination-mediated repair of double-strand DNA breaks. It stimulates the displacement of Replication protein A (RPA), the most abundant eukaryotic ssDNA binding protein. It also facilitates filament formation. Mutations that map throughout the BRCA2 protein are associated with breast cancer susceptibility. BRCA2 is a large nuclear protein and its most conserved region is the C-terminal BRCA2DBD. BRCA2DBD binds ssDNA in vitro, and is composed of five structural domains, three of which are OB folds (OB1, OB2, and OB3). BRCA2DBD OB2 and OB3 are arranged in tandem, and their mode of binding can be considered qualitatively similar to two OB folds of RPA1, DBD-A and DBD-B (the major DBDs of RPA). BRCA2DBD OB1 binds DNA weakly.
Probab=22.62  E-value=68  Score=14.59  Aligned_cols=59  Identities=22%  Similarity=0.457  Sum_probs=39.7

Q ss_pred             CEEEEEECCCCEEEEEECCCCCC---CCCCEEEECCEEEEEECCC--CCC-------CCCEEEEEEEECCEE
Q ss_conf             11999998998899841156344---1120022031248998057--888-------885699999786898
Q gi|254780683|r   13 GNTILIRHDDSIVTVYSHIDTPY---VQKGQKVSRGHTIGLSGKS--GNA-------QHPQVHFELRKNAIA   72 (84)
Q Consensus        13 G~~V~I~h~~g~~t~Y~hl~~i~---v~~G~~V~~G~~IG~vg~t--g~~-------~g~hLhfei~~~g~~   72 (84)
                      ..+-+|.-.|||+++.+.||...   +++|. +.-||.|...|..  +..       ....+.+.+..|+..
T Consensus        20 ~~~~~ieltDGWY~i~a~lD~~L~~~l~~Gk-l~vGqKL~i~GA~L~g~~~~~sple~~~~~~L~i~~Nstr   90 (100)
T cd04493          20 PHMPIIELTDGWYSIRAQLDPPLTNLVRKGK-LRVGQKLRICGAELLGSANPCSPLEAPDSVRLKINANSTR   90 (100)
T ss_pred             CCCCEEEEECCCEEEEEECCHHHHHHHHCCC-CCCCCEEEEECCEEECCCCCCCCCCCCCCEEEEEECCCCC
T ss_conf             8536799954818986872998999998597-2147589998878645889858415624439999647630


No 113
>PRK00044 psd phosphatidylserine decarboxylase; Reviewed
Probab=22.61  E-value=45  Score=15.55  Aligned_cols=14  Identities=21%  Similarity=0.596  Sum_probs=9.5

Q ss_pred             EEECCEEEEE--ECCC
Q ss_conf             2203124899--8057
Q gi|254780683|r   41 KVSRGHTIGL--SGKS   54 (84)
Q Consensus        41 ~V~~G~~IG~--vg~t   54 (84)
                      .+++||.+|.  .|+|
T Consensus       239 ~l~KGeElG~F~~GST  254 (291)
T PRK00044        239 ALEKGQEMGRFKLGST  254 (291)
T ss_pred             CCCCCCEEEEECCCCE
T ss_conf             3134327327547881


No 114
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=22.35  E-value=62  Score=14.82  Aligned_cols=45  Identities=22%  Similarity=0.380  Sum_probs=31.4

Q ss_pred             CCCCEEEEEECCCCEEEEEECC-----CCCCCCCCEEEECCEEEEEECCC
Q ss_conf             6551199999899889984115-----63441120022031248998057
Q gi|254780683|r   10 VELGNTILIRHDDSIVTVYSHI-----DTPYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        10 ~~~G~~V~I~h~~g~~t~Y~hl-----~~i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      .+--|-+.|...+|-.+.|+-.     ..+++.+|+.|-.|.+||.-..+
T Consensus       480 ~~R~nGvLiS~~~G~a~~yal~~lqdRG~~Fi~pG~~vYeGmiiG~hsR~  529 (603)
T COG1217         480 GGRHNGVLISNETGKAVAYALFNLQDRGKLFIEPGTKVYEGMIIGEHSRD  529 (603)
T ss_pred             CCCCCCEEEECCCCCCHHHHHHHHHHCCCEEECCCCCEEEEEEEEEECCC
T ss_conf             55545159976898434765535875375664599726501698530675


No 115
>COG0213 DeoA Thymidine phosphorylase [Nucleotide transport and metabolism]
Probab=22.34  E-value=59  Score=14.90  Aligned_cols=20  Identities=20%  Similarity=0.232  Sum_probs=17.0

Q ss_pred             CCCCCCEEEECCEEEEEECC
Q ss_conf             44112002203124899805
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~   53 (84)
                      +..|.|+.|++|++|.++-.
T Consensus       381 l~kk~ge~Vk~Gd~l~tiya  400 (435)
T COG0213         381 LHKKLGEKVKKGDPLATIYA  400 (435)
T ss_pred             EEECCCCEECCCCEEEEEEC
T ss_conf             98317983026974799862


No 116
>PRK03140 phosphatidylserine decarboxylase; Provisional
Probab=21.93  E-value=44  Score=15.60  Aligned_cols=18  Identities=11%  Similarity=0.241  Sum_probs=14.1

Q ss_pred             CCCCEEEECCEEEEEECC
Q ss_conf             112002203124899805
Q gi|254780683|r   36 VQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        36 v~~G~~V~~G~~IG~vg~   53 (84)
                      ...++.|++||.+|.---
T Consensus       207 t~~~~~v~KGdE~G~F~~  224 (259)
T PRK03140        207 THERDTVQKGEEMAYFSF  224 (259)
T ss_pred             ECCCCEECCCCEEEEECC
T ss_conf             579971711428423257


No 117
>KOG0369 consensus
Probab=21.86  E-value=34  Score=16.16  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=17.0

Q ss_pred             CCCCCCCEEEECCEEEEEEC
Q ss_conf             34411200220312489980
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSG   52 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg   52 (84)
                      +|.|++|++|++||+|.-..
T Consensus      1119 eikvk~G~kV~Kgqpl~VLS 1138 (1176)
T KOG0369        1119 EIKVKEGAKVKKGQPLAVLS 1138 (1176)
T ss_pred             EEEEECCCEECCCCCEEEEE
T ss_conf             99983075103798357612


No 118
>KOG2419 consensus
Probab=21.55  E-value=61  Score=14.82  Aligned_cols=21  Identities=19%  Similarity=0.324  Sum_probs=17.4

Q ss_pred             CCCCCCEEEECCEEEEEECCC
Q ss_conf             441120022031248998057
Q gi|254780683|r   34 PYVQKGQKVSRGHTIGLSGKS   54 (84)
Q Consensus        34 i~v~~G~~V~~G~~IG~vg~t   54 (84)
                      +.+++|+.|++||.+|+-.--
T Consensus       898 lt~kEgd~V~~gdELGYFkFG  918 (975)
T KOG2419         898 LTRKEGDHVKKGDELGYFKFG  918 (975)
T ss_pred             EEEECCCCCCCCCCCCEEEEC
T ss_conf             996057601246600047507


No 119
>CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed
Probab=21.20  E-value=55  Score=15.08  Aligned_cols=21  Identities=24%  Similarity=0.102  Sum_probs=17.9

Q ss_pred             CCCCCCCEEEECCEEEEEECC
Q ss_conf             344112002203124899805
Q gi|254780683|r   33 TPYVQKGQKVSRGHTIGLSGK   53 (84)
Q Consensus        33 ~i~v~~G~~V~~G~~IG~vg~   53 (84)
                      -+.|+.||.|+++|+||.+-.
T Consensus       408 lL~V~n~q~V~s~QvIAEi~~  428 (1350)
T CHL00117        408 LLLVQNDQYVESEQVIAEIRA  428 (1350)
T ss_pred             EEEEECCCEEECCCEEEEEEC
T ss_conf             899989958751618999705


No 120
>PRK00624 glycine cleavage system protein H; Provisional
Probab=20.69  E-value=58  Score=14.94  Aligned_cols=22  Identities=18%  Similarity=0.178  Sum_probs=18.5

Q ss_pred             CCCCEEEECCEEEEEECCCCCC
Q ss_conf             1120022031248998057888
Q gi|254780683|r   36 VQKGQKVSRGHTIGLSGKSGNA   57 (84)
Q Consensus        36 v~~G~~V~~G~~IG~vg~tg~~   57 (84)
                      -+.|+.|++|+.+|.+.+....
T Consensus        39 p~~G~~v~~g~~~~~iEs~K~~   60 (113)
T PRK00624         39 PSVGSFCKEGEVLVILESSKSA   60 (113)
T ss_pred             CCCCCEEECCCEEEEEEECCEE
T ss_conf             9999988479859999965244


Done!