Query         gi|254781206|ref|YP_003065619.1| hypothetical protein CLIBASIA_05565 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 1246
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 39220
Date          Tue May 31 16:24:06 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254781206.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 pfam03469 XH XH domain. The XH  85.1    0.65 1.7E-05   25.0   2.3   86  903-989    19-118 (135)
  2 KOG2007 consensus               82.8     3.1   8E-05   20.0  10.8   16  944-959   541-556 (586)
  3 PHA00661 hypothetical protein   80.5    0.44 1.1E-05   26.2   0.0   83 1153-1235  641-730 (734)
  4 COG0275 Predicted S-adenosylme  77.2     4.2 0.00011   19.1   4.1  217  684-935     6-229 (314)
  5 KOG3088 consensus               68.5     3.9  0.0001   19.3   2.3   68  561-628    60-139 (313)
  6 TIGR02401 trehalose_TreY malto  53.2      13 0.00033   15.5   3.2   37  845-881   869-906 (971)
  7 KOG0760 consensus               47.9     7.4 0.00019   17.3   0.8   22  801-822   111-132 (302)
  8 TIGR01793 cit_synth_euk citrat  44.7       8  0.0002   17.1   0.6   17  519-535   128-144 (430)
  9 TIGR02858 spore_III_AA stage I  44.7      14 0.00036   15.3   1.8   27  799-825     8-36  (282)
 10 TIGR03549 conserved hypothetic  44.6      18 0.00045   14.6   2.8   60  679-738   335-406 (718)
 11 pfam08355 EF_assoc_1 EF hand a  41.9     6.8 0.00017   17.6  -0.1   26  645-670     9-34  (75)
 12 TIGR00441 gmhA phosphoheptose   38.0     4.3 0.00011   19.0  -1.7   56  641-715    80-135 (186)
 13 PRK06770 hypothetical protein;  37.2      22 0.00057   13.8   5.3   61  133-194    77-137 (185)
 14 pfam07886 BA14K BA14K-like pro  37.1      15 0.00037   15.2   1.0   21  618-638     4-24  (31)
 15 KOG1302 consensus               36.0      23 0.00059   13.7   1.8   23  736-758   195-217 (600)
 16 KOG1831 consensus               35.1      24 0.00062   13.6   4.1   58  214-271   382-443 (1591)
 17 pfam07159 DUF1394 Protein of u  33.5      10 0.00026   16.3  -0.3   17  642-658   131-147 (304)
 18 pfam01582 TIR TIR domain. The   32.9      26 0.00067   13.3   2.2   99  953-1061   10-123 (139)
 19 COG0279 GmhA Phosphoheptose is  32.4      12 0.00031   15.8  -0.1   66  632-716    72-138 (176)
 20 pfam06265 DUF1027 Protein of u  32.1      11 0.00027   16.1  -0.4   11   54-64     31-41  (86)
 21 TIGR02622 CDP_4_6_dhtase CDP-g  31.8      15 0.00038   15.1   0.3   31  984-1014   94-124 (361)
 22 TIGR03354 VI_FHA type VI secre  30.7      28 0.00072   13.1   1.7   31  677-707   299-329 (396)
 23 COG3102 Uncharacterized protei  30.5      20  0.0005   14.2   0.7   64 1032-1097  111-174 (185)
 24 KOG1029 consensus               30.4      29 0.00073   13.1   4.3   39  389-427   325-363 (1118)
 25 PRK11700 hypothetical protein;  28.1      29 0.00074   13.0   1.3   52 1032-1085  110-161 (186)
 26 TIGR01330 bisphos_HAL2 3'(2'),  27.8      32  0.0008   12.8   4.3   59 1133-1196  134-192 (382)
 27 KOG2874 consensus               26.8      33 0.00084   12.6   2.8   90  921-1020  127-223 (356)
 28 pfam01591 6PF2K 6-phosphofruct  25.7      34 0.00087   12.5   1.8   24  608-631   157-180 (223)
 29 pfam07852 DUF1642 Protein of u  23.5      18 0.00047   14.5  -0.5   16  844-859   114-131 (136)
 30 TIGR01026 fliI_yscN ATPase Fli  23.4      38 0.00096   12.2   3.3   45  632-691   409-455 (455)
 31 KOG2830 consensus               23.4      38 0.00096   12.2   2.7   26  449-479   249-274 (324)
 32 KOG4003 consensus               23.3     5.8 0.00015   18.1  -3.1   39  659-698    60-101 (223)
 33 pfam02572 CobA_CobO_BtuR ATP:c  23.1      30 0.00076   12.9   0.5   45   72-116    94-138 (172)
 34 TIGR02924 ICDH_alpha isocitrat  23.0      21 0.00052   14.1  -0.3  233  642-926    78-333 (481)
 35 KOG0616 consensus               22.9      32 0.00082   12.7   0.7   34  764-806    90-123 (355)
 36 pfam06593 RBDV_coat Raspberry   22.9      37 0.00095   12.2   1.0   23 1134-1156  225-247 (274)
 37 pfam05565 Sipho_Gp157 Siphovir  22.5      23 0.00058   13.8  -0.2   31   20-50     22-52  (162)
 38 pfam03846 SulA Cell division i  21.9      38 0.00097   12.2   0.9   18  701-718    96-113 (119)
 39 KOG4682 consensus               21.9      40   0.001   12.0   4.9   79  665-756   126-215 (488)
 40 pfam04227 Indigoidine_A Indigo  21.5      16  0.0004   15.0  -1.2   34   85-118   145-178 (293)
 41 PHA00652 hypothetical protein   21.5      41   0.001   11.9   5.5   11   71-81     16-26  (128)
 42 TIGR02790 nickel_nikC nickel A  21.2      34 0.00088   12.5   0.5   11  986-996    38-48  (258)
 43 pfam09568 RE_MjaI MjaI restric  21.2     6.6 0.00017   17.7  -3.2   53  918-974     2-59  (201)
 44 COG4710 Predicted DNA-binding   20.8      42  0.0011   11.8   2.4   55   64-118    16-73  (80)
 45 cd01820 PAF_acetylesterase_lik  20.7      42  0.0011   11.8   1.4   19  674-692   190-208 (214)

No 1  
>pfam03469 XH XH domain. The XH (rice gene X Homology) domain is found in a family of plant proteins including gene X. The molecular function of these proteins is unknown. However these proteins usually contain an XS domain that is also found in the PTGS protein SGS3. This domain contains a conserved glutamate residue that may be functionally important.
Probab=85.11  E-value=0.65  Score=24.95  Aligned_cols=86  Identities=31%  Similarity=0.468  Sum_probs=61.4

Q ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHHHHH----HHHHCCCCCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHCCCCCCC
Q ss_conf             6633211388999999998899999999----986200013878870178999999999----99999766642664200
Q gi|254781206|r  903 AKKYKESNDERIVSFIRSEFEREIKELK----SVIEADAKENPNPNKNQKKLQKTREKL----VAQLSSRLKELNIDNAY  974 (1246)
Q Consensus       903 akkykesnderivsfirsefereikelk----svieadakenpnpnknqkklqktrekl----vaqlssrlkelnidnay  974 (1246)
                      -+||-+..-+--.+.+.|..+.+|+...    -||..+.++-.--|.+..+||.-++.+    ..-...-|.|+|--|+-
T Consensus        19 k~k~~~~~~~~~a~~l~S~Wq~~ikdp~whPFkvv~~~g~~~evi~edDekL~~Lk~e~Geevy~aV~~AL~E~nEyN~s   98 (135)
T pfam03469        19 KRKYVEEDAEVRAAELCSLWEENIKDPDWHPFKVVETGEIEKEVVDEDDEKLKKLKEEWGEEVYNAVKKALLEMNEYNPS   98 (135)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             86678116889999999999998348887861686219857774058709999999998599999999999999850878


Q ss_pred             C------HHHHHHHHHHHHCC
Q ss_conf             0------03667765653015
Q gi|254781206|r  975 G------LWNEYKEDFKASFE  989 (1246)
Q Consensus       975 g------lwneykedfkasfe  989 (1246)
                      |      ||| |||+-||+..
T Consensus        99 Gry~v~ELWN-fke~RKATlk  118 (135)
T pfam03469        99 GRYPTPELWN-FKEGRKATLK  118 (135)
T ss_pred             CCCCCCCCCC-CCCCCCCCHH
T ss_conf             8877521345-5345645599


No 2  
>KOG2007 consensus
Probab=82.77  E-value=3.1  Score=20.01  Aligned_cols=16  Identities=44%  Similarity=0.667  Sum_probs=8.6

Q ss_pred             CHHHHHHHHHHHHHHH
Q ss_conf             7017899999999999
Q gi|254781206|r  944 NKNQKKLQKTREKLVA  959 (1246)
Q Consensus       944 nknqkklqktreklva  959 (1246)
                      +|.++|.+..|+++.+
T Consensus       541 ~K~~~k~d~~~~~~~~  556 (586)
T KOG2007         541 NKDKEKSDRIREELAA  556 (586)
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             7777778999999987


No 3  
>PHA00661 hypothetical protein
Probab=80.54  E-value=0.44  Score=26.16  Aligned_cols=83  Identities=19%  Similarity=0.190  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHH----HHCCC---CCCCCEEEEECCCCCCCHHEEEEECCCCEE
Q ss_conf             23443211357998887874000010211034432088----85599---866715888217787772018886488547
Q gi|254781206|r 1153 SFNSTMGKKRRIFKVVVRVINTADLEVGILGFPIVPVE----ELRGK---PKTGEFEVLVPSDASLNPEIIIRQKTGGYF 1225 (1246)
Q Consensus      1153 sfnstmgkkrrifkvvvrvintadlevgilgfpivpve----elrgk---pktgefevlvpsdaslnpeiiirqktggyf 1225 (1246)
                      .-.+.+|++|||-.|++|+-+|-.+.||--+-.+.++.    +--+.   +.||..++.+++.-+-.+.|.|+|-.-=-+
T Consensus       641 ~~G~~~G~~krI~~v~~rl~~T~g~~vg~~~~~l~~~~~r~~~~~~~p~~~~tg~~~v~~~~g~~~~g~i~i~Q~~PLPl  720 (734)
T PHA00661        641 DGSFGQGKVKNINKLWLRVHRSSGIFAGPHADALTEVKQRESEPYGSPPALKSEEVPLVLSSKWGDSGQLFVRQADPLPL  720 (734)
T ss_pred             CCCCCCCEEEEEEEEEEEEEECCCEEECCCCCCCEECCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEEECCCCCE
T ss_conf             87744662489999999998013579789867425656556322368986566746756378978786189994799876


Q ss_pred             EEEEECCCCC
Q ss_conf             7652011222
Q gi|254781206|r 1226 CLTSITAHTQ 1235 (1246)
Q Consensus      1226 cltsitahtq 1235 (1246)
                      -+-+|...-.
T Consensus       721 tvLai~~~v~  730 (734)
T PHA00661        721 MILSMSPELA  730 (734)
T ss_pred             EEEEEEEEEE
T ss_conf             9998899998


No 4  
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=77.17  E-value=4.2  Score=19.12  Aligned_cols=217  Identities=23%  Similarity=0.294  Sum_probs=118.0

Q ss_pred             HHHHHHHHHHHHHHHCCHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             999999999986521261378--88898876216656665588764200020-233778999999988886663612242
Q gi|254781206|r  684 QKLDVLFRHCIENLRANKNAV--DAMSKAVEAGESSVRKHSFEVLSSKHQKS-VIAVNNFIKEITHHTRRLVKEDPKRGK  760 (1246)
Q Consensus       684 qkldvlfrhcienlranknav--damskaveagessvrkhsfevlsskhqks-viavnnfikeithhtrrlvkedpkrgk  760 (1246)
                      ...-||...||++|..+.+++  |+.        -..--||-..|+.--... +|+..-=-.-|..-..+|..-++.-.-
T Consensus         6 ~HipVLl~E~i~~L~~~~~giyiD~T--------lG~GGHS~~iL~~l~~~~~li~~DrD~~Ai~~a~~~l~~~~~r~~~   77 (314)
T COG0275           6 RHIPVLLNEVVELLAPKPDGIYIDGT--------LGAGGHSRAILEKLPDLGRLIGIDRDPQAIAIAKERLKEFDGRVTL   77 (314)
T ss_pred             CCCCHHHHHHHHHCCCCCCCEEEEEC--------CCCCHHHHHHHHHCCCCCEEEEECCCHHHHHHHHHHHHCCCCCEEE
T ss_conf             76211799999852648994799823--------7774768999985898870899768989999999985303784899


Q ss_pred             HHHHHHHHHHHHHHHHHHEEEEEEEEEEEEHHHHCCCCCCCEEEEECCCCHHCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             14578999999998531100026655522013317532798268831851010376357986434102320035888998
Q gi|254781206|r  761 SESYLSDIRSELQKVNKTVMDIRIKLRLYGIFQDIPQEQPPLYTIISGSEKILQGDYTFPPLSSLDVQSKFDSSYSKLFE  840 (1246)
Q Consensus       761 sesylsdirselqkvnktvmdiriklrlygifqdipqeqpplytiisgsekilqgdytfpplssldvqskfdssysklfe  840 (1246)
                      -.+-.+++...|...+.+        ..-||.-|+----|-|-.-        .-.+.|---..||..-.-++..|    
T Consensus        78 v~~~F~~l~~~l~~~~i~--------~vDGiL~DLGVSS~QLD~~--------eRGFSf~~d~pLDMRMd~~~~ls----  137 (314)
T COG0275          78 VHGNFANLAEALKELGIG--------KVDGILLDLGVSSPQLDDA--------ERGFSFRKDGPLDMRMDQTQGLS----  137 (314)
T ss_pred             EECCHHHHHHHHHHCCCC--------CEEEEEEECCCCCCCCCCC--------CCCCCCCCCCCCCCCCCCCCCCC----
T ss_conf             957687899888763887--------2227999536783202887--------67860278898656748888978----


Q ss_pred             HHHCCCCCCCCCCCCEEEEEEE--EHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH-HHH-HCCHHHHHH
Q ss_conf             8831123221000120231110--033200111235688752033087743011899999887666-332-113889999
Q gi|254781206|r  841 IFYGDWTNNAIKEERYWTIYAF--ERSLKNQAHLNAEVERLSGLAQQPSDSTADLKELQTQLSRAK-KYK-ESNDERIVS  916 (1246)
Q Consensus       841 ifygdwtnnaikeerywtiyaf--erslknqahlnaeverlsglaqqpsdstadlkelqtqlsrak-kyk-esnderivs  916 (1246)
                        --||-|+.-.++-.|-+|-|  ||--+--|  .+-|++-.   .+|-.+|.+|.|+-.+...++ +++ -.--.|+.-
T Consensus       138 --A~evvN~~~e~~L~~I~~~yGEEr~arrIA--~aIv~~R~---~~pi~tT~eLaeiI~~~~p~~~~~k~~hPAtr~FQ  210 (314)
T COG0275         138 --AAEVVNTYSEEDLARIFKEYGEERFAKRIA--RAIVERRK---KKPIETTKELAEIIKSAIPAKEKRKKIHPATRTFQ  210 (314)
T ss_pred             --HHHHHHCCCHHHHHHHHHHHCCHHHHHHHH--HHHHHHHC---CCCCCCHHHHHHHHHHHCCCHHCCCCCCCCHHHHH
T ss_conf             --999985599999999999845176689999--99999862---69876699999999986770111367895066563


Q ss_pred             HHHHHHHHHHHHHHHHHHC
Q ss_conf             9999889999999998620
Q gi|254781206|r  917 FIRSEFEREIKELKSVIEA  935 (1246)
Q Consensus       917 firsefereikelksviea  935 (1246)
                      -||-+..+|..+|+..+++
T Consensus       211 AiRI~VNdEL~~L~~~L~~  229 (314)
T COG0275         211 AIRIYVNDELEELEEALEA  229 (314)
T ss_pred             HHEEEEHHHHHHHHHHHHH
T ss_conf             4100005679999999999


No 5  
>KOG3088 consensus
Probab=68.46  E-value=3.9  Score=19.30  Aligned_cols=68  Identities=28%  Similarity=0.445  Sum_probs=40.9

Q ss_pred             CEECHHHHHHHHHHHCCHHHH--HHHH-HHCCH--HHHHHHHHHHHHHHCCCCH-------HHHHHHHHHHHHHHHHCCC
Q ss_conf             011012688787784330999--9876-31124--5666753221564405897-------8999999999988751357
Q gi|254781206|r  561 IKLTKKEKELQEQEENLRVAE--IIQQ-SRMQS--EDLQEKAWDSYKEWKSLSP-------DEIKQRFQKYAKVFYRSYS  628 (1246)
Q Consensus       561 ikltkkekelqeqeenlrvae--iiqq-srmqs--edlqekawdsykewkslsp-------deikqrfqkyakvfyrsys  628 (1246)
                      -.+.+|++|||.++|.||--|  +-.. ..||.  --.+++-|-..-.|-..-|       .||-..|||-.|+.|..+-
T Consensus        60 ~~~~~kq~eL~~rqeEL~Rke~ELdRREr~~a~~g~~~~~nNWPPLP~~~pv~PcfyqD~s~EIPv~~Qk~vk~~yylwm  139 (313)
T KOG3088          60 KDLAKKQAELLKKQEELRRKEQELDRRERALARAGIVIRENNWPPLPSFIPVFPCFYQDISNEIPVEFQKLVKRAYYLWM  139 (313)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             68999999999999999878988737899986246766546899997778755500113322268999999999999999


No 6  
>TIGR02401 trehalose_TreY malto-oligosyltrehalose synthase; InterPro: IPR012767    This enzyme, formally named (1->4)-alpha-D-glucan 1-alpha-D-glucosylmutase, is the TreY enzyme of the TreYZ pathway of trehalose biosynthesis, an alternative to the OtsAB pathway. Trehalose may be incorporated into more complex compounds but is best known as compatible solute. It is one of the most effective osmoprotectants, and unlike the various betaines does not require nitrogen for its synthesis..
Probab=53.23  E-value=13  Score=15.52  Aligned_cols=37  Identities=27%  Similarity=0.175  Sum_probs=16.0

Q ss_pred             CCCCCCCCCCCEEEEEEEEHHHCCHHH-HHHHHHHHHH
Q ss_conf             123221000120231110033200111-2356887520
Q gi|254781206|r  845 DWTNNAIKEERYWTIYAFERSLKNQAH-LNAEVERLSG  881 (1246)
Q Consensus       845 dwtnnaikeerywtiyaferslknqah-lnaeverlsg  881 (1246)
                      |+----+.-.+-=-+-||.|+..+|+- +-.-|.||+-
T Consensus       869 dY~Pl~~~G~~a~HviAF~R~~~~~~~s~iv~v~Rl~~  906 (971)
T TIGR02401       869 DYRPLEASGPGAAHVIAFARGTDRQALSAIVVVTRLSL  906 (971)
T ss_pred             CCEEEECCCCCCCEEEEEEECCCCCCEEEEEEEECCCH
T ss_conf             81256445766325888710688854577887502103


No 7  
>KOG0760 consensus
Probab=47.86  E-value=7.4  Score=17.31  Aligned_cols=22  Identities=36%  Similarity=0.484  Sum_probs=9.3

Q ss_pred             CEEEEECCCCHHCCCCCCCCCC
Q ss_conf             8268831851010376357986
Q gi|254781206|r  801 PLYTIISGSEKILQGDYTFPPL  822 (1246)
Q Consensus       801 plytiisgsekilqgdytfppl  822 (1246)
                      ||-+-|||.--.+-.|.-+-|+
T Consensus       111 ~la~aisG~~At~~sDAvm~P~  132 (302)
T KOG0760         111 PLAYAISGACATLISDAVMNPF  132 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHCCHH
T ss_conf             7898987889999988756989


No 8  
>TIGR01793 cit_synth_euk citrate (Si)-synthase, eukaryotic; InterPro: IPR010109   Citrate synthase 2.3.3.1 from EC is a member of a small family of enzymes that can directly form a carbon-carbon bond without the presence of metal ion cofactors. It catalyses the first reaction in the Krebs' cycle, namely the conversion of oxaloacetate and acetyl-coenzyme A into citrate and coenzyme A. This reaction is important for energy generation and for carbon assimilation. The reaction proceeds via a non-covalently bound citryl-coenzyme A intermediate in a 2-step process (aldol-Claisen condensation followed by the hydrolysis of citryl-CoA).    Citrate synthase enzymes are found in two distinct structural types: type I enzymes (found in eukaryotes, Gram-positive bacteria and archaea) form homodimers and have shorter sequences than type II enzymes, which are found in Gram-negative bacteria and are hexameric in structure. In both types, the monomer is composed of two domains: a large alpha-helical domain consisting of two structural repeats, where the second repeat is interrupted by a small alpha-helical domain. The cleft between these domains forms the active site, where both citrate and acetyl-coenzyme A bind. The enzyme undergoes a conformational change upon binding of the oxaloacetate ligand, whereby the active site cleft closes over in order to form the acetyl-CoA binding site . The energy required for domain closure comes from the interaction of the enzyme with the substrate. Type II enzymes possess an extra N-terminal beta-sheet domain, and some type II enzymes are allosterically inhibited by NADH .   This entry includes both mitochondrial and peroxisomal forms of citrate synthase. Peroxisomal forms of the enzyme, recognized by the C-terminal targeting motif SKL, act in the glyoxylate cycle. Eukaryotic homologs include a Tetrahymena thermophila citrate synthase that doubles as a filament protein, a putative citrate synthase from Plasmodium falciparum (no TCA cycle), and a methylcitrate synthase from Aspergillus nidulans (Emericella nidulans).; GO: 0004108 citrate (Si)-synthase activity, 0044262 cellular carbohydrate metabolic process.
Probab=44.74  E-value=8  Score=17.06  Aligned_cols=17  Identities=29%  Similarity=0.403  Sum_probs=7.6

Q ss_pred             CCCCCCCCCHHHHCCCC
Q ss_conf             67766788046530430
Q gi|254781206|r  519 AIPTAKAPPAQAHKGIQ  535 (1246)
Q Consensus       519 aiptakappaqahkgiq  535 (1246)
                      ++|..--|-||---+|.
T Consensus       128 ~~P~tlHPMaQF~~av~  144 (430)
T TIGR01793       128 ALPSTLHPMAQFALAVA  144 (430)
T ss_pred             HCCCCCCHHHHHHHHHH
T ss_conf             05743572789999999


No 9  
>TIGR02858 spore_III_AA stage III sporulation protein AA; InterPro: IPR014217   Proteins in this entry include the stage III sporulation protein AA that is encoded by one of several genes in the spoIIIA locus. This protein is only found in species that are capable of endospore formation..
Probab=44.68  E-value=14  Score=15.27  Aligned_cols=27  Identities=26%  Similarity=0.370  Sum_probs=20.5

Q ss_pred             CCCEEEEECCCCHHCC--CCCCCCCCCCC
Q ss_conf             7982688318510103--76357986434
Q gi|254781206|r  799 QPPLYTIISGSEKILQ--GDYTFPPLSSL  825 (1246)
Q Consensus       799 qpplytiisgsekilq--gdytfpplssl  825 (1246)
                      +-||--|..|.+.++.  |.|||-|-++.
T Consensus         8 grPl~l~~~~~~~~~~~~Gelt~~~~~~y   36 (282)
T TIGR02858         8 GRPLELVFDGEEVFVTTDGELTAESDSDY   36 (282)
T ss_pred             CCCEEEEECCCCEEECCCCEEEECCCCCC
T ss_conf             88579986795278758820320588771


No 10 
>TIGR03549 conserved hypothetical protein TIGR03549. This family consists of remarkably well-conserved proteins from gamma and beta Proteobacteria, heavily skewed towards organisms of marine environments. This family has an OsmC-like N-terminal domain. It shares a central domain, modeled by pfam02624 and TIGR00702, with other families of smaller proteins. The function is unknown. Fifteen of the first sixteen members of this family are from selenouridine-positive genomes, but this correlation may be fortuitous.
Probab=44.61  E-value=18  Score=14.60  Aligned_cols=60  Identities=25%  Similarity=0.257  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH--------HCCHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHCCCHHHHHH
Q ss_conf             9999999999999998652--------126137888898876216656665588764----20002023377
Q gi|254781206|r  679 VEAVYQKLDVLFRHCIENL--------RANKNAVDAMSKAVEAGESSVRKHSFEVLS----SKHQKSVIAVN  738 (1246)
Q Consensus       679 veavyqkldvlfrhcienl--------ranknavdamskaveagessvrkhsfevls----skhqksviavn  738 (1246)
                      .||-.|-|.-.|...+.|-        -.--..|-+--..+.+|-...+.+.|.|+.    ---|-.|++|.
T Consensus       335 ~EArVQ~LSEIFER~VK~~II~e~isLP~IP~eVlaryP~I~~~I~~Le~~Gfpv~v~DASLGG~fPVmcVt  406 (718)
T TIGR03549       335 AEAQVQCLSEIFERAVKKEIIEEEIVLPDVPQEVLAKYPGILAGIKALEEQGFPVLVKDASLGGQFPVMCVT  406 (718)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCCHHHHHHHHHHCCCCEEEEECCCCCCCCEEEEE
T ss_conf             999999999999999999998614788887699998573099999999867982799854568977558999


No 11 
>pfam08355 EF_assoc_1 EF hand associated. This region typically appears on the C-terminus of EF hands in GTP-binding proteins such as Arht/Rhot (may be involved in mitochondrial homeostasis and apoptosis). The EF hand associated region is found in yeast, vertebrates and plants.
Probab=41.89  E-value=6.8  Score=17.56  Aligned_cols=26  Identities=31%  Similarity=0.668  Sum_probs=19.8

Q ss_pred             HHHHHCCCHHHHHHHHHHHCCCCCEE
Q ss_conf             87652663068898786304744113
Q gi|254781206|r  645 NHFLDNDFGYYRIHNFLSQWSPLGLM  670 (1246)
Q Consensus       645 nhfldndfgyyrihnflsqwsplglm  670 (1246)
                      +...-|+-|+--.+.||+||+-.-++
T Consensus         9 ~s~~~n~~G~lTl~G~LaqW~l~T~l   34 (75)
T pfam08355         9 DSTVTNEDGYLTLQGWLAQWSLTTLL   34 (75)
T ss_pred             CCEEECCCCCEEHHHHHHHHHHHHHH
T ss_conf             72477377877156699987999984


No 12 
>TIGR00441 gmhA phosphoheptose isomerase; InterPro: IPR004515 Phosphoheptose isomerase is involved in lipopolysaccharide biosynthesis, and more specifically in the synthesis of glyceromannoheptose 7-phosphate. It may also have a role in virulence in Haemophilus ducreyi.; GO: 0008968 phosphoheptose isomerase activity, 0009244 lipopolysaccharide core region biosynthetic process, 0005737 cytoplasm.
Probab=37.97  E-value=4.3  Score=19.04  Aligned_cols=56  Identities=34%  Similarity=0.462  Sum_probs=39.8

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
Q ss_conf             678887652663068898786304744113202232459999999999999998652126137888898876216
Q gi|254781206|r  641 DKAINHFLDNDFGYYRIHNFLSQWSPLGLMYEKDELHGVEAVYQKLDVLFRHCIENLRANKNAVDAMSKAVEAGE  715 (1246)
Q Consensus       641 dkainhfldndfgyyrihnflsqwsplglmyekdelhgveavyqkldvlfrhcienlranknavdamskaveage  715 (1246)
                      |-.+=--.-|||||-+|..                 .-|||+=|+=|||+-  |-.----+|-+.|..+|++-|-
T Consensus        80 D~S~Ltai~NDygyd~vF~-----------------RqVEAlG~~GDVL~G--iSTSGNS~NvlkA~~~Ak~~gm  135 (186)
T TIGR00441        80 DISILTAIANDYGYDEVFS-----------------RQVEALGQEGDVLLG--ISTSGNSKNVLKAIEAAKDKGM  135 (186)
T ss_pred             HHHHHHHCCCHHHHHHHHH-----------------HHHHHCCCCCCEEEE--EECCCCCHHHHHHHHHHHHCCC
T ss_conf             2353232001102567877-----------------776632889868887--4247670889999998845796


No 13 
>PRK06770 hypothetical protein; Provisional
Probab=37.21  E-value=22  Score=13.82  Aligned_cols=61  Identities=31%  Similarity=0.389  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             57759999888754886024588899988876135378899999988654310234456654
Q gi|254781206|r  133 HKINKQVRDALESAGFDLESTQENIRKVESALINNNMKDAFRFLELAQKSKETADSHIIEAI  194 (1246)
Q Consensus       133 hkinkqvrdalesagfdlestqenirkvesalinnnmkdafrflelaqksketadshiieai  194 (1246)
                      |+...|---|-+--|| .+-||+||.++-+++-++|++.--.+|....+-+.--=|+++|.-
T Consensus        77 H~MtHQKV~A~~KwG~-i~mt~e~ie~l~~ii~~sn~~~k~~~l~Il~RW~~gDFS~~vedH  137 (185)
T PRK06770         77 HKMTHQKVKADEKWGF-IEMTQENIEKLKDIINSSNFVQKEELLAILERWEKGDFSKIVEDH  137 (185)
T ss_pred             HHHHHHHHHHHCCCCC-EECCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             9987788775113254-545799999999998623546499999999988516724788998


No 14 
>pfam07886 BA14K BA14K-like protein. The sequences found in this family are similar to the BA14K proteins expressed by Brucella abortus and by Brucella suis. BA14K was found to be strongly immunoreactive; it induces both humoral and cellular responses in hosts throughout the infective process.
Probab=37.11  E-value=15  Score=15.16  Aligned_cols=21  Identities=48%  Similarity=0.953  Sum_probs=16.3

Q ss_pred             HHHHHHHHCCCCCCCCCCCCH
Q ss_conf             999887513576776544530
Q gi|254781206|r  618 KYAKVFYRSYSPVDGSYKGTQ  638 (1246)
Q Consensus       618 kyakvfyrsyspvdgsykgtq  638 (1246)
                      .|-.--||||-|.||+|.|-.
T Consensus         4 ~~C~~rYrSy~p~~~Ty~~~~   24 (31)
T pfam07886         4 AYCSRRYRSYDPSDGTYQGYD   24 (31)
T ss_pred             HHHHHHHCCCCCCCCCCCCCC
T ss_conf             899988635788998562888


No 15 
>KOG1302 consensus
Probab=36.02  E-value=23  Score=13.71  Aligned_cols=23  Identities=13%  Similarity=0.237  Sum_probs=10.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             37789999999888866636122
Q gi|254781206|r  736 AVNNFIKEITHHTRRLVKEDPKR  758 (1246)
Q Consensus       736 avnnfikeithhtrrlvkedpkr  758 (1246)
                      ...++-|..-++-+++-.|.+-.
T Consensus       195 g~G~~ak~~~~l~~~l~~e~~t~  217 (600)
T KOG1302         195 GKGECAKRVWELLKKLEREEATE  217 (600)
T ss_pred             ECCHHHHHHHHHHHHHHHCCCCC
T ss_conf             14488999999999975321445


No 16 
>KOG1831 consensus
Probab=35.07  E-value=24  Score=13.59  Aligned_cols=58  Identities=19%  Similarity=0.287  Sum_probs=26.3

Q ss_pred             HHHHHCCCHHHHHHHHHHHHH----HHHCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
Q ss_conf             888613660477999999999----9741025324443100000034546799999998755
Q gi|254781206|r  214 KVLLKSNNMQDVVFTKIKEVV----KKHVNAELGHRKLRGLAFDHTYFNDKLNQFLKEIKNH  271 (1246)
Q Consensus       214 kvllksnnmqdvvftkikevv----kkhvnaelghrklrglafdhtyfndklnqflkeiknh  271 (1246)
                      |++.--||.--.-|++-.+-|    +.++-..+.|+-..+-+--.--|.+-.++|+-+|+|-
T Consensus       382 kilF~lNNlsq~N~~qKvdevk~~ltp~y~~Wfs~YiV~qR~S~E~Nf~~LY~kFi~ai~n~  443 (1591)
T KOG1831         382 KILFPLNNLSQLNFNQKVDEVKEILTPEYYPWFSQYIVTQRVSKEINFHELYSKFISAIKNS  443 (1591)
T ss_pred             HHEEEECHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
T ss_conf             12002222766416788999999747655899998874423202445699999999997475


No 17 
>pfam07159 DUF1394 Protein of unknown function (DUF1394). This family consists of several hypothetical eukaryotic proteins of around 320 residues in length. The function of this family is unknown.
Probab=33.50  E-value=10  Score=16.27  Aligned_cols=17  Identities=47%  Similarity=0.774  Sum_probs=13.2

Q ss_pred             HHHHHHHHCCCHHHHHH
Q ss_conf             78887652663068898
Q gi|254781206|r  642 KAINHFLDNDFGYYRIH  658 (1246)
Q Consensus       642 kainhfldndfgyyrih  658 (1246)
                      |.-|-++.|||.|||-.
T Consensus       131 Km~nPaIQNDFSYYRRt  147 (304)
T pfam07159       131 KMTNPAIQNDFSYYRRT  147 (304)
T ss_pred             CCCCCCCCCHHHHHHHH
T ss_conf             15781002206899988


No 18 
>pfam01582 TIR TIR domain. The Toll/interleukin-1 receptor (TIR) homology domain is an intracellular signalling domain found in MyD88, interleukin 1 receptor and the Toll receptor. It contains three highly-conserved regions, and mediates protein-protein interactions between the Toll-like receptors (TLRs) and signal-transduction components. TIR-like motifs are also found in plant proteins thought to be involved in resistance to disease. When activated, TIR domains recruit cytoplasmic adaptor proteins MyD88 and TOLLIP (Toll interacting protein). In turn, these associate with various kinases to set off signalling cascades.
Probab=32.89  E-value=26  Score=13.35  Aligned_cols=99  Identities=25%  Similarity=0.387  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCH----HHHHH--------HHH
Q ss_conf             999999999976664266420000366776565301577654535788777545430305----56889--------988
Q gi|254781206|r  953 TREKLVAQLSSRLKELNIDNAYGLWNEYKEDFKASFEYPLGTYEPAILGAMKDMDRLHPI----YSVSK--------TIQ 1020 (1246)
Q Consensus       953 treklvaqlssrlkelnidnayglwneykedfkasfeyplgtyepailgamkdmdrlhpi----ysvsk--------tiq 1020 (1246)
                      +++..+..|...|.+-   ..|-++-. ..|+.     |-+..-+.|+.++..-.+.-.|    |..|.        ..+
T Consensus        10 ~~~~f~~~L~~~L~~~---~g~~~~~~-~rd~~-----~G~~i~~~i~~aI~~Sr~~ivVlS~~y~~S~wcl~El~~~~~   80 (139)
T pfam01582        10 DRDTFVSHLLKELEEK---QGIKLCID-DRDEL-----PGESILENLFEAIEKSRRAIVIFSSNYASSEWCLDELVEAMK   80 (139)
T ss_pred             CHHHHHHHHHHHHHHC---CCEEEEEE-CCCCC-----CCCCHHHHHHHHHHHHCCHHEEEECCCCCCHHHHHHHHHHHH
T ss_conf             3777999999999718---99068853-77777-----998459999999997080450433411257024999999999


Q ss_pred             ---HCCCCHHEECCHHHCCHHHHHCCCCHHHHHHHHHHHCCCCC
Q ss_conf             ---60898110401322687675305726799999987231420
Q gi|254781206|r 1021 ---KAGGDPSLMMDYEKVEPSDVMAGLPDDLAKRFKALLSWKGW 1061 (1246)
Q Consensus      1021 ---kaggdpslmmdyekvepsdvmaglpddlakrfkallswkgw 1061 (1246)
                         .-|++.-.+.-+++|+|+||+ -.-...++.|...+-|.|-
T Consensus        81 ~~~~~~~~~~Ilpvfy~V~p~~v~-~q~g~~~~~f~~~~~~~~~  123 (139)
T pfam01582        81 CALEQGNKKVILPIFYKVDPSDVR-KQSGKFGKAFLKTLKWSGD  123 (139)
T ss_pred             HHHHCCCCEEEEEEECCCCHHHHH-HHHHHHHHHHHHHHCCCCC
T ss_conf             998569980899985277855402-1307999999999604365


No 19 
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=32.38  E-value=12  Score=15.76  Aligned_cols=66  Identities=32%  Similarity=0.377  Sum_probs=41.0

Q ss_pred             CCCCCCHHH-HHHHHHHHHCCCHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf             654453013-6788876526630688987863047441132022324599999999999999986521261378888988
Q gi|254781206|r  632 GSYKGTQES-DKAINHFLDNDFGYYRIHNFLSQWSPLGLMYEKDELHGVEAVYQKLDVLFRHCIENLRANKNAVDAMSKA  710 (1246)
Q Consensus       632 gsykgtqes-dkainhfldndfgyyrihnflsqwsplglmyekdelhgveavyqkldvlfrhcienlranknavdamska  710 (1246)
                      -+|..---+ |-++..-+-|||||-.+.                 -+.|||+-|.=|||+-  |-..--.+|-+.|+.+|
T Consensus        72 ~~lpaIaLt~dsS~lTai~NDy~yd~vF-----------------sRqveA~g~~GDvLig--ISTSGNS~nVi~Ai~~A  132 (176)
T COG0279          72 PSLPAIALSTDSSVLTAIANDYGYDEVF-----------------SRQVEALGQPGDVLIG--ISTSGNSKNVLKAIEAA  132 (176)
T ss_pred             CCCCEEEEECCCHHHHHHHCCCCHHHHH-----------------HHHHHHCCCCCCEEEE--EECCCCCHHHHHHHHHH
T ss_conf             8987368642637776565045588999-----------------9999952788878999--81799977899999999


Q ss_pred             HHHHHH
Q ss_conf             762166
Q gi|254781206|r  711 VEAGES  716 (1246)
Q Consensus       711 veages  716 (1246)
                      ++-|-.
T Consensus       133 k~~gm~  138 (176)
T COG0279         133 KEKGMT  138 (176)
T ss_pred             HHCCCE
T ss_conf             876987


No 20 
>pfam06265 DUF1027 Protein of unknown function (DUF1027). This family consists of several hypothetical bacterial proteins of unknown function.
Probab=32.05  E-value=11  Score=16.13  Aligned_cols=11  Identities=64%  Similarity=1.123  Sum_probs=6.2

Q ss_pred             CCCHHHHHCCH
Q ss_conf             11000001108
Q gi|254781206|r   54 KDRYDYIVGPI   64 (1246)
Q Consensus        54 kdrydyivgpi   64 (1246)
                      -++||||||-+
T Consensus        31 L~kYDYIVGDw   41 (86)
T pfam06265        31 LDKYDYIVGDW   41 (86)
T ss_pred             HHHCCEEEECC
T ss_conf             87389587645


No 21 
>TIGR02622 CDP_4_6_dhtase CDP-glucose 4,6-dehydratase; InterPro: IPR013445    This entry contains CDP-glucose 4,6-dehydratases from a variety of Gram-negative and Gram-positive bacteria. Members are typically encoded next to a gene that encodes a glucose-1-phosphate cytidylyltransferase, which produces the substrate CDP-D-glucose. This is used by the proteins in this entry to produce CDP-4-keto-6-deoxyglucose..
Probab=31.77  E-value=15  Score=15.09  Aligned_cols=31  Identities=26%  Similarity=0.569  Sum_probs=23.6

Q ss_pred             HHHHCCCCCCCCCHHHHHHHHHHHHHCCHHH
Q ss_conf             6530157765453578877754543030556
Q gi|254781206|r  984 FKASFEYPLGTYEPAILGAMKDMDRLHPIYS 1014 (1246)
Q Consensus       984 fkasfeyplgtyepailgamkdmdrlhpiys 1014 (1246)
                      .+.|++.|++||+--++|.+.=++-+.-+-+
T Consensus        94 Vr~SY~~P~~Tf~TNVmGT~~lLea~r~~~~  124 (361)
T TIGR02622        94 VRKSYADPLETFETNVMGTVNLLEAIRAIKS  124 (361)
T ss_pred             HHHHHHCHHHHEEEHHHHHHHHHHHHHHCCC
T ss_conf             8986732020222003222577889974699


No 22 
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=30.74  E-value=28  Score=13.10  Aligned_cols=31  Identities=23%  Similarity=0.204  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Q ss_conf             4599999999999999986521261378888
Q gi|254781206|r  677 HGVEAVYQKLDVLFRHCIENLRANKNAVDAM  707 (1246)
Q Consensus       677 hgveavyqkldvlfrhcienlranknavdam  707 (1246)
                      .+..||-+-+.-+-.|-+-.+.|-.-|++.|
T Consensus       299 s~~~Ai~eaf~Di~~Hq~a~~~a~~~Al~~~  329 (396)
T TIGR03354       299 SAEAAIEEAFRDLRAHQVALLAAVRAALRRM  329 (396)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9899999999879999999999999999999


No 23 
>COG3102 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.49  E-value=20  Score=14.22  Aligned_cols=64  Identities=31%  Similarity=0.385  Sum_probs=46.4

Q ss_pred             HHHCCHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEHHHCCCHHHHCCCCCCCHHHH
Q ss_conf             322687675305726799999987231420015778756786300120168877035433210199
Q gi|254781206|r 1032 YEKVEPSDVMAGLPDDLAKRFKALLSWKGWHQLTPAPKISTPSFEVSSYVNPKRMHADTESDIYFE 1097 (1246)
Q Consensus      1032 yekvepsdvmaglpddlakrfkallswkgwhqltpapkistpsfevssyvnpkrmhadtesdiyfe 1097 (1246)
                      +|.+|  -||.|+|..|..|.-+|++--+--++.-.-|.|.|.-|--...||.-.-.|...-|-|.
T Consensus       111 WEHIE--iVlP~~p~el~~~~~~l~~~~~l~~~gi~vk~ssp~ge~erl~nptlav~~~~~~ik~h  174 (185)
T COG3102         111 WEHIE--IVLPGDPEELNARALALLNDEFLWELGISVKLSSPQGEHERLPNPTLAVTDGKTTIKFH  174 (185)
T ss_pred             CEEEE--EECCCCHHHHHHHHHHHCCHHHCCCCCEEEEECCCCCCCCCCCCCCEEEECCCCEEEEC
T ss_conf             34689--97579928888788865225432557607872598776652799827873188469962


No 24 
>KOG1029 consensus
Probab=30.41  E-value=29  Score=13.06  Aligned_cols=39  Identities=38%  Similarity=0.559  Sum_probs=26.5

Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             543555303216899988888887664776456888765
Q gi|254781206|r  389 KQATVLARANAQEEKQRREQEAKEKADREKADKEAKEKA  427 (1246)
Q Consensus       389 kqatvlaranaqeekqrreqeakekadrekadkeakeka  427 (1246)
                      -|+-.--|-.+-+|.||||+|-+++-.||..+|.-+|.-
T Consensus       325 GqaELerRRq~leeqqqreree~eqkEreE~ekkererq  363 (1118)
T KOG1029         325 GQAELERRRQALEEQQQREREEVEQKEREEEEKKERERQ  363 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             247799999999988899999998877778888788888


No 25 
>PRK11700 hypothetical protein; Provisional
Probab=28.14  E-value=29  Score=13.01  Aligned_cols=52  Identities=35%  Similarity=0.357  Sum_probs=36.6

Q ss_pred             HHHCCHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEHHHCCCHHH
Q ss_conf             322687675305726799999987231420015778756786300120168877
Q gi|254781206|r 1032 YEKVEPSDVMAGLPDDLAKRFKALLSWKGWHQLTPAPKISTPSFEVSSYVNPKR 1085 (1246)
Q Consensus      1032 yekvepsdvmaglpddlakrfkallswkgwhqltpapkistpsfevssyvnpkr 1085 (1246)
                      +|.||  -|+.+.|..+..+-.+|++|-++-+..-.-|+|.|.-|---..||.-
T Consensus       110 WEHIE--~Vlp~~~~t~~~~~~~ll~~~~~~~~~ikvK~SsPkge~ErL~NPTi  161 (186)
T PRK11700        110 WEHIE--IVLPGDPETLEARALALLSDEGLSLPGIKVKTSSPKGEGERLPNPTI  161 (186)
T ss_pred             CEEEE--EEECCCCCCHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCCCCEE
T ss_conf             45899--99538976899999997567650588964770387666764799807


No 26 
>TIGR01330 bisphos_HAL2 3'(2'),5'-bisphosphate nucleotidase; InterPro: IPR006239    Sulphate is incorporated into 3-phosphoadenylylsulphate, PAPS, for utilization in pathways such as methionine biosynthesis. Transfer of sulphate from PAPS to an acceptor leaves adenosine 3'-5'-bisphosphate, APS. In plants these sequences represent a form of the enzyme, 3'(2'),5'-bisphosphate nucleotidase, which removes the 3'-phosphate from APS to regenerate AMP and help drive the cycle. Sensitivity of this essential enzyme to sodium and other metal ions results is responsible for characterization of this enzyme as a salt tolerance protein . Some members of this family are active also as inositol 1-monophosphatase. ; GO: 0008441 3'(2')5'-bisphosphate nucleotidase activity, 0006790 sulfur metabolic process.
Probab=27.79  E-value=32  Score=12.75  Aligned_cols=59  Identities=24%  Similarity=0.531  Sum_probs=50.3

Q ss_pred             HHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHCCCC
Q ss_conf             1027777405860346530123443211357998887874000010211034432088855998
Q gi|254781206|r 1133 EYEGGANERYVCIPSMDTSESFNSTMGKKRRIFKVVVRVINTADLEVGILGFPIVPVEELRGKP 1196 (1246)
Q Consensus      1133 eyegganeryvcipsmdtsesfnstmgkkrrifkvvvrvintadlevgilgfpivpveelrgkp 1196 (1246)
                      .|+||.|-|+-|+-..|-..-|-     .---|-|..-.|.-.-.-+|.||.|=.|+...-+.|
T Consensus       134 ~y~GGr~GR~W~LDPiDGTkGFl-----RG~QYAvaLALie~Gkv~lg~lGCPNlp~~~~~~~~  192 (382)
T TIGR01330       134 NYEGGRKGRHWVLDPIDGTKGFL-----RGDQYAVALALIENGKVVLGVLGCPNLPLKSEAAQN  192 (382)
T ss_pred             CCCCCCCCCEEEECCCCCCCCCC-----CHHHHHHHHHHHHCCCEEEEEEECCCCCHHHHCCCC
T ss_conf             88988898757716756765562-----256899998765279079998606885101102683


No 27 
>KOG2874 consensus
Probab=26.77  E-value=33  Score=12.63  Aligned_cols=90  Identities=26%  Similarity=0.457  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHHHCCCCCCCCC---
Q ss_conf             88999999999862000138788701789999999999999976664266-42000036677656530157765453---
Q gi|254781206|r  921 EFEREIKELKSVIEADAKENPNPNKNQKKLQKTREKLVAQLSSRLKELNI-DNAYGLWNEYKEDFKASFEYPLGTYE---  996 (1246)
Q Consensus       921 efereikelksvieadakenpnpnknqkklqktreklvaqlssrlkelni-dnayglwneykedfkasfeyplgtye---  996 (1246)
                      -|+..++-|..-+-.|.-.--|--.|....-|.|..||..-++.||.|.| .+.|-|-..       .---.+|.|.   
T Consensus       127 p~eqAvkiLqDev~CdiIkIgn~V~nkerFvKRRqRLiGpng~TLKAlelLT~CYilVqG-------~TVsaiGpfkGlk  199 (356)
T KOG2874         127 PFEQAVKILQDEVACDIIKIGNLVRNKERFVKRRQRLIGPNGSTLKALELLTNCYILVQG-------NTVSAIGPFKGLK  199 (356)
T ss_pred             CHHHHHHHHHHCCCEEEEEHHHHHCCHHHHHHHHHHHCCCCCHHHHHHHHHHHCEEEEEC-------CEEEEECCCCHHH
T ss_conf             889999997203020246452353117999998887318882057999997521798607-------6777634730089


Q ss_pred             ---HHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             ---578877754543030556889988
Q gi|254781206|r  997 ---PAILGAMKDMDRLHPIYSVSKTIQ 1020 (1246)
Q Consensus       997 ---pailgamkdmdrlhpiysvsktiq 1020 (1246)
                         -.++..   |...||||.+-.-.-
T Consensus       200 evr~IV~Dc---M~NiHPiY~IK~Lmi  223 (356)
T KOG2874         200 EVRKIVEDC---MKNIHPIYNIKTLMI  223 (356)
T ss_pred             HHHHHHHHH---HHCCCHHHHHHHHHH
T ss_conf             999999999---852550788999999


No 28 
>pfam01591 6PF2K 6-phosphofructo-2-kinase. This enzyme occurs as a bifunctional enzyme with fructose-2,6-bisphosphatase. The bifunctional enzyme catalyses both the synthesis and degradation of fructose-2,6-bisphosphate, a potent regulator of glycolysis. This enzyme contains a P-loop motif.
Probab=25.67  E-value=34  Score=12.49  Aligned_cols=24  Identities=29%  Similarity=0.650  Sum_probs=10.9

Q ss_pred             CHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             978999999999988751357677
Q gi|254781206|r  608 SPDEIKQRFQKYAKVFYRSYSPVD  631 (1246)
Q Consensus       608 spdeikqrfqkyakvfyrsyspvd  631 (1246)
                      +|++....|.+-...+...|.|++
T Consensus       157 ~~e~A~~DF~~Ri~~ye~~Yepl~  180 (223)
T pfam01591       157 PPEEAIDDFMKRLECYEKQYEPLD  180 (223)
T ss_pred             CHHHHHHHHHHHHHHHHCCEECCC
T ss_conf             999999999999997534242388


No 29 
>pfam07852 DUF1642 Protein of unknown function (DUF1642). The sequences making up this family are derived from various hypothetical phage and prophage proteins. The region in question is approximately 140 amino acids long.
Probab=23.48  E-value=18  Score=14.47  Aligned_cols=16  Identities=38%  Similarity=0.632  Sum_probs=11.4

Q ss_pred             CCCCCCCCCC--CCEEEE
Q ss_conf             1123221000--120231
Q gi|254781206|r  844 GDWTNNAIKE--ERYWTI  859 (1246)
Q Consensus       844 gdwtnnaike--erywti  859 (1246)
                      .-.|-..||.  +|||-.
T Consensus       114 ~k~TE~EIk~ide~yW~F  131 (136)
T pfam07852       114 LKLTEQEIKSIDEFYWQF  131 (136)
T ss_pred             HHHCHHHHHCCCHHHCCC
T ss_conf             230599885375312663


No 30 
>TIGR01026 fliI_yscN ATPase FliI/YscN family; InterPro: IPR005714    Proteins in this entry show extensive homology to the ATP synthase F1 beta subunit, and are involved in type III protein secretion. They fall into the two separate functional groups outlined below.   The first group, exemplified by the Salmonella typhimurium FliI protein (P26465 from SWISSPROT), is needed for flagellar assembly. Most structural components of the bacterial flagellum are translocated through the central channel of the growing flagellar structure by the type III flagellar protein-export apparatus in an ATPase-driven manner, to be assembled at the growing end. FliI is the ATPase that couples ATP hydrolysis to the translocation reaction , .   The second group couples ATP hydrolysis to protein translocation in non-flagellar type III secretion systems. Often these systems are involved in virulence and pathogenicity. YscN (P40290 from SWISSPROT) from pathogenic Yersinia species, for example, energises the injection of antihost factors directly into eukaryotic cells, thus overcoming host defences .; GO: 0016887 ATPase activity, 0009058 biosynthetic process, 0015031 protein transport, 0005737 cytoplasm.
Probab=23.41  E-value=38  Score=12.20  Aligned_cols=45  Identities=36%  Similarity=0.535  Sum_probs=27.7

Q ss_pred             CCCCC--CHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHH
Q ss_conf             65445--3013678887652663068898786304744113202232459999999999999
Q gi|254781206|r  632 GSYKG--TQESDKAINHFLDNDFGYYRIHNFLSQWSPLGLMYEKDELHGVEAVYQKLDVLFR  691 (1246)
Q Consensus       632 gsykg--tqesdkainhfldndfgyyrihnflsqwsplglmyekdelhgveavyqkldvlfr  691 (1246)
                      |.|+.  -.|-|+||++       |-.+-+||.|=        .+|..--|.-.|.|+-+|+
T Consensus       409 G~Y~~GSd~e~D~AI~~-------~~~le~FL~Qg--------~~E~~~fE~s~~~L~~I~~  455 (455)
T TIGR01026       409 GAYKKGSDKELDKAIAK-------YPKLERFLKQG--------INEKVNFEESLQQLEEILS  455 (455)
T ss_pred             CCCCCCCCHHHHHHHHH-------HHHHHHHHCCC--------CCCCCHHHHHHHHHHHHCC
T ss_conf             02558788668999857-------99988875479--------4346308999999987349


No 31 
>KOG2830 consensus
Probab=23.38  E-value=38  Score=12.20  Aligned_cols=26  Identities=46%  Similarity=0.816  Sum_probs=19.2

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             3315776775531278856788998740001
Q gi|254781206|r  449 FGLGLPSVPTHSVKLPPKEEELEEVKDEGKK  479 (1246)
Q Consensus       449 fglglpsvpthsvklppkeeeleevkdegkk  479 (1246)
                      ||+|-|+.||-||     +|-+.++-.+|.-
T Consensus       249 fG~Gyp~lPtMsv-----dE~~~~~~~~g~a  274 (324)
T KOG2830         249 FGLGYPGLPTMTV-----DEFLDQEFEEGIA  274 (324)
T ss_pred             HHCCCCCCCCCCH-----HHHHHHHHHHHHC
T ss_conf             4067889862009-----9999999984010


No 32 
>KOG4003 consensus
Probab=23.28  E-value=5.8  Score=18.08  Aligned_cols=39  Identities=18%  Similarity=0.310  Sum_probs=20.3

Q ss_pred             HHHHHCCCCCEEEEHHHHHHHHHH--HHHHHHHH-HHHHHHHH
Q ss_conf             786304744113202232459999--99999999-99986521
Q gi|254781206|r  659 NFLSQWSPLGLMYEKDELHGVEAV--YQKLDVLF-RHCIENLR  698 (1246)
Q Consensus       659 nflsqwsplglmyekdelhgveav--yqkldvlf-rhcienlr  698 (1246)
                      .|++|-+- ..||++++.|..++-  -|++.+|+ -|||+|--
T Consensus        60 SF~~~h~~-~~p~~~~t~~~~~~~d~V~~~~vl~p~HCv~ntw  101 (223)
T KOG4003          60 SFAKNHKD-KEPYSTYTYHSPRPGDDVTQEGILWPVHCVKNTW  101 (223)
T ss_pred             EHHHHCCC-CCCCCCCCCCCCCCCCCEEEEEECCHHHHHCCCC
T ss_conf             04443367-8788777553677677414675315114200588


No 33 
>pfam02572 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin adenosyltransferase, EC:2.5.1.17, involved in cobalamin (vitamin B12) biosynthesis. These enzymes catalyse the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=23.13  E-value=30  Score=12.94  Aligned_cols=45  Identities=31%  Similarity=0.472  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCC
Q ss_conf             999998763003666542477799998999987622546652663
Q gi|254781206|r   72 SERYERVVSRDLTLVIEAGLKDLKEVGDTLKRLAETGEVILSDKS  116 (1246)
Q Consensus        72 seryervvsrdltlvieaglkdlkevgdtlkrlaetgevilsdks  116 (1246)
                      +..|.-||--.+...+..||-+..+|-+.|+.-.+.-||||+-..
T Consensus        94 ~~~~dlvVLDEi~~ai~~gli~~~~v~~~l~~rp~~~evVlTGr~  138 (172)
T pfam02572        94 SGSYDLVVLDELNYALKYGYLDLEEVLELLRNRPEGQHVVLTGRG  138 (172)
T ss_pred             CCCCCEEEEHHHHHHHHCCCCCHHHHHHHHHHCCCCCEEEEECCC
T ss_conf             889899973557999755996899999999828998779998999


No 34 
>TIGR02924 ICDH_alpha isocitrate dehydrogenase; InterPro: IPR014273   This entry represents a group of isocitrate dehydrogenases found mainly in the alphaproteobacteria. Many of the species containing these proteins appear to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 from EC vs. NADPH -- 1.1.1.42 from EC) is unclear..
Probab=22.95  E-value=21  Score=14.10  Aligned_cols=233  Identities=28%  Similarity=0.441  Sum_probs=134.8

Q ss_pred             HHHHHHHHCCCHHHH-------HHHHHHHCCC-CCEE----EEHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
Q ss_conf             788876526630688-------9878630474-4113----202232459999999999999998652126137888898
Q gi|254781206|r  642 KAINHFLDNDFGYYR-------IHNFLSQWSP-LGLM----YEKDELHGVEAVYQKLDVLFRHCIENLRANKNAVDAMSK  709 (1246)
Q Consensus       642 kainhfldndfgyyr-------ihnflsqwsp-lglm----yekdelhgveavyqkldvlfrhcienlranknavdamsk  709 (1246)
                      |-.|--|-...|.|-       -|-|+..-+| |-+.    -|-|---|+|-                |-..|+-.+.--
T Consensus        78 KSLNVtlRK~LGLyANiRPCvsyhP~i~t~~p~ldiVivRENEEDlYtGiEY----------------R~T~d~Y~c~K~  141 (481)
T TIGR02924        78 KSLNVTLRKTLGLYANIRPCVSYHPVIETKYPNLDIVIVRENEEDLYTGIEY----------------RQTQDTYECTKV  141 (481)
T ss_pred             EEHHHHHHHHCCCEEECCCCCCCCCEECCCCCCCCEEEEEECCCCCCCCEEE----------------EECCCCEEEEEE
T ss_conf             4124464322475041266530035241677983469998356423255114----------------305781025553


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCHHHHH--HHHHH---HHHHHHH-HHHHHCCCCCCHHHHHHHHHHHHHHHHHHEEEEE
Q ss_conf             8762166566655887642000202337--78999---9999888-8666361224214578999999998531100026
Q gi|254781206|r  710 AVEAGESSVRKHSFEVLSSKHQKSVIAV--NNFIK---EITHHTR-RLVKEDPKRGKSESYLSDIRSELQKVNKTVMDIR  783 (1246)
Q Consensus       710 aveagessvrkhsfevlsskhqksviav--nnfik---eithhtr-rlvkedpkrgksesylsdirselqkvnktvmdir  783 (1246)
                      --+.|---.-.-.||---..|.|-|-..  .|-.|   -|-|..= ..-+|=|. =++|-|.-||-.-----+-+-.|+=
T Consensus       142 ITrsgsEkIcrYAF~YA~~~nRKkVTCl~KDNIMK~TDGiFHk~F~~IA~eYPd-I~~EhyIvDIG~Ar~A~~PE~FDVI  220 (481)
T TIGR02924       142 ITRSGSEKICRYAFEYARKHNRKKVTCLIKDNIMKLTDGIFHKIFDKIAKEYPD-IESEHYIVDIGMARIATNPENFDVI  220 (481)
T ss_pred             EECCCCHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHCCCC-CCCCCEEEECCHHHHCCCCCCCCEE
T ss_conf             406862578999989877649868999620371301223678778997431788-5416406810334113679865458


Q ss_pred             EEEEEEE-HHHHCCCCCCCEEEEECCCCHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEE
Q ss_conf             6555220-133175327982688318510103763579864341023200358889988831123221000120231110
Q gi|254781206|r  784 IKLRLYG-IFQDIPQEQPPLYTIISGSEKILQGDYTFPPLSSLDVQSKFDSSYSKLFEIFYGDWTNNAIKEERYWTIYAF  862 (1246)
Q Consensus       784 iklrlyg-ifqdipqeqpplytiisgsekilqgdytfpplssldvqskfdssysklfeifygdwtnnaikeerywtiyaf  862 (1246)
                      +-.-||| |.-||--|       ||||--. -|            -+-..++|. .||-.-|-=.+-|=|          
T Consensus       221 VT~NLYGDIlSDvaA~-------~SGSvGL-aG------------SaNIG~~YA-MFEAVHGSAPdIAGk----------  269 (481)
T TIGR02924       221 VTPNLYGDILSDVAAE-------ISGSVGL-AG------------SANIGEEYA-MFEAVHGSAPDIAGK----------  269 (481)
T ss_pred             ECCCCCCCHHHHHHHH-------HHCCHHH-HH------------HHHHCCCCC-EEEEECCCCCCCCCC----------
T ss_conf             7477676547778887-------6142222-23------------441246886-045432778541566----------


Q ss_pred             EHHHCCH-HHHHHHHHHHHHHHHCCCCC---HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             0332001-11235688752033087743---0118999998876663321138899999999889999
Q gi|254781206|r  863 ERSLKNQ-AHLNAEVERLSGLAQQPSDS---TADLKELQTQLSRAKKYKESNDERIVSFIRSEFEREI  926 (1246)
Q Consensus       863 erslknq-ahlnaeverlsglaqqpsds---tadlkelqtqlsrakkykesnderivsfirseferei  926 (1246)
                        .+-|- .-|||-|.-|.-+.|.---+   -|=||-|.--..-|-=|+|-+-..-|+-  .||-.++
T Consensus       270 --nIANPSGLLNAAi~MLvyigQ~d~A~liynAwLKTLEdGvHTADIy~~k~Sk~KVgT--keFA~aV  333 (481)
T TIGR02924       270 --NIANPSGLLNAAIQMLVYIGQKDIAQLIYNAWLKTLEDGVHTADIYNEKTSKKKVGT--KEFAEAV  333 (481)
T ss_pred             --CCCCHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHCCCCHHHHCCCCCCCCCCCC--HHHHHHH
T ss_conf             --766700579999998640045468999987764442137431332123366666652--5799999


No 35 
>KOG0616 consensus
Probab=22.92  E-value=32  Score=12.70  Aligned_cols=34  Identities=26%  Similarity=0.524  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHHHHHHEEEEEEEEEEEEHHHHCCCCCCCEEEEE
Q ss_conf             7899999999853110002665552201331753279826883
Q gi|254781206|r  764 YLSDIRSELQKVNKTVMDIRIKLRLYGIFQDIPQEQPPLYTII  806 (1246)
Q Consensus       764 ylsdirselqkvnktvmdiriklrlygifqdipqeqpplytii  806 (1246)
                      -..+-++-|+.+.-     -.-.+||+-|+|--    -||-|.
T Consensus        90 H~~nEk~vL~~v~~-----PFlv~l~~t~kd~~----~lymvm  123 (355)
T KOG0616          90 HTHNEKRVLKAVSH-----PFLVKLYGTFKDNS----NLYMVM  123 (355)
T ss_pred             HHHHHHHHHHHCCC-----CEEEEEEEEECCCC----EEEEEE
T ss_conf             77618989754048-----73778878641377----789998


No 36 
>pfam06593 RBDV_coat Raspberry bushy dwarf virus coat protein. This family consists of several Raspberry bushy dwarf virus coat proteins.
Probab=22.88  E-value=37  Score=12.23  Aligned_cols=23  Identities=39%  Similarity=0.420  Sum_probs=17.6

Q ss_pred             HCCCCCCEEEEECCCCCCHHHHH
Q ss_conf             02777740586034653012344
Q gi|254781206|r 1134 YEGGANERYVCIPSMDTSESFNS 1156 (1246)
Q Consensus      1134 yegganeryvcipsmdtsesfns 1156 (1246)
                      ...-.|||-|||-.-|++.||--
T Consensus       225 i~sllnerkvci~~~d~~ssfyi  247 (274)
T pfam06593       225 IPSLLNERKVCVFQNDDSSSFYI  247 (274)
T ss_pred             HHHHHCCCEEEEEECCCCCCHHH
T ss_conf             78774433379995288751049


No 37 
>pfam05565 Sipho_Gp157 Siphovirus Gp157. This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophages. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage.
Probab=22.49  E-value=23  Score=13.79  Aligned_cols=31  Identities=29%  Similarity=0.347  Sum_probs=15.0

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             7847899888877876999999887750478
Q gi|254781206|r   20 IPSEDVAKTLTSIQDNIKHLREFIIAWSSDL   50 (1246)
Q Consensus        20 ipsedvaktltsiqdnikhlrefiiawssdl   50 (1246)
                      +..|.++.||-+|++.+.---+-|+.|--++
T Consensus        22 ~D~e~~~DTLe~i~~~~~~K~~~i~~~iknl   52 (162)
T pfam05565        22 LDPEALADTLESIEEEFEDKVENIAKVIKNL   52 (162)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9989999999999999999999999999832


No 38 
>pfam03846 SulA Cell division inhibitor SulA.
Probab=21.92  E-value=38  Score=12.18  Aligned_cols=18  Identities=33%  Similarity=0.565  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHHHHHHHH
Q ss_conf             137888898876216656
Q gi|254781206|r  701 KNAVDAMSKAVEAGESSV  718 (1246)
Q Consensus       701 knavdamskaveagessv  718 (1246)
                      -..||||-||...|..||
T Consensus        96 ~~tv~aMeKAL~tGNySv  113 (119)
T pfam03846        96 LHTVESMERALRTGNYSV  113 (119)
T ss_pred             HHHHHHHHHHHHCCCCEE
T ss_conf             638999999997099448


No 39 
>KOG4682 consensus
Probab=21.90  E-value=40  Score=12.00  Aligned_cols=79  Identities=30%  Similarity=0.415  Sum_probs=53.0

Q ss_pred             CCCCEEEEH------HHHHHHH--HHHHHHHHHHHHHHHHHHCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             744113202------2324599--99999999999998652126---137888898876216656665588764200020
Q gi|254781206|r  665 SPLGLMYEK------DELHGVE--AVYQKLDVLFRHCIENLRAN---KNAVDAMSKAVEAGESSVRKHSFEVLSSKHQKS  733 (1246)
Q Consensus       665 splglmyek------delhgve--avyqkldvlfrhcienlran---knavdamskaveagessvrkhsfevlsskhqks  733 (1246)
                      +.+|-||-.      +.+-||-  |.|-.||-||..|.|-.-++   |+|+.-..-+..-|+-+|++.++|+|-      
T Consensus       126 ~a~gsLY~dEveI~l~dv~gvlAaA~~lqldgl~qrC~evMie~lspkta~~yYea~ckYgle~vk~kc~ewl~------  199 (488)
T KOG4682         126 VAFGSLYRDEVEIKLSDVVGVLAAACLLQLDGLIQRCGEVMIETLSPKTACGYYEAACKYGLESVKKKCLEWLL------  199 (488)
T ss_pred             HHHHHHHHHHEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
T ss_conf             99876532012214999999998768886604999999999975380546778788877416888787999999------


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             23377899999998888666361
Q gi|254781206|r  734 VIAVNNFIKEITHHTRRLVKEDP  756 (1246)
Q Consensus       734 viavnnfikeithhtrrlvkedp  756 (1246)
                          +||.+   +.+.++.+|-|
T Consensus       200 ----~nl~~---i~~~q~l~ei~  215 (488)
T KOG4682         200 ----NNLMT---IQNVQLLKEIS  215 (488)
T ss_pred             ----HHHHH---HHHHHHHHHCC
T ss_conf             ----86675---41077786648


No 40 
>pfam04227 Indigoidine_A Indigoidine synthase A like protein. Indigoidine is a blue pigment synthesized by Erwinia chrysanthemi implicated in pathogenicity and protection from oxidative stress. IdgA is involved in indigoidine biosynthesis, but its specific function is unknown.
Probab=21.47  E-value=16  Score=14.98  Aligned_cols=34  Identities=26%  Similarity=0.402  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCHH
Q ss_conf             6654247779999899998762254665266315
Q gi|254781206|r   85 LVIEAGLKDLKEVGDTLKRLAETGEVILSDKSDR  118 (1246)
Q Consensus        85 lvieaglkdlkevgdtlkrlaetgevilsdksdr  118 (1246)
                      .|+-+|.|..-.++-||..|-.-|--++.-++|.
T Consensus       145 ~VVcaG~KsILDi~~TlE~LET~GV~V~gy~td~  178 (293)
T pfam04227       145 AVVCAGAKSILDIPKTLEYLETQGVPVIGYGTDE  178 (293)
T ss_pred             EEEECCCHHHHCCHHHHHHHHHCCCEEEEECCCC
T ss_conf             9994260765054468999997594389745876


No 41 
>PHA00652 hypothetical protein
Probab=21.45  E-value=41  Score=11.93  Aligned_cols=11  Identities=64%  Similarity=1.011  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHH
Q ss_conf             99999987630
Q gi|254781206|r   71 VSERYERVVSR   81 (1246)
Q Consensus        71 vseryervvsr   81 (1246)
                      .-|+||||+|-
T Consensus        16 mvEkYERVi~Y   26 (128)
T PHA00652         16 IVERYERVISY   26 (128)
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999999


No 42 
>TIGR02790 nickel_nikC nickel ABC transporter, permease subunit NikC; InterPro: IPR014157   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 the NikC family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikB. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases..
Probab=21.20  E-value=34  Score=12.47  Aligned_cols=11  Identities=64%  Similarity=1.023  Sum_probs=6.3

Q ss_pred             HHCCCCCCCCC
Q ss_conf             30157765453
Q gi|254781206|r  986 ASFEYPLGTYE  996 (1246)
Q Consensus       986 asfeyplgtye  996 (1246)
                      -|.||||||-+
T Consensus        38 pS~~YpLGTD~   48 (258)
T TIGR02790        38 PSMEYPLGTDH   48 (258)
T ss_pred             CCCCCCCCCCC
T ss_conf             96547898875


No 43 
>pfam09568 RE_MjaI MjaI restriction endonuclease. This family includes the MjaI (recognizes CTAG but cleavage site unknown) restriction endonuclease.
Probab=21.17  E-value=6.6  Score=17.69  Aligned_cols=53  Identities=34%  Similarity=0.290  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCC-----CCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             9998899999999986200013878-----87017899999999999999766642664200
Q gi|254781206|r  918 IRSEFEREIKELKSVIEADAKENPN-----PNKNQKKLQKTREKLVAQLSSRLKELNIDNAY  974 (1246)
Q Consensus       918 irsefereikelksvieadakenpn-----pnknqkklqktreklvaqlssrlkelnidnay  974 (1246)
                      ||-+++|||+|+.+--    -+-|.     -|-...--|-||-|.|.|+|--.+|.+-...+
T Consensus         2 i~~~~~~~~~~~~~~~----~efPKY~tQiINLAN~~a~gTrPkvVGQmSelIkef~~~~g~   59 (201)
T pfam09568         2 IRFDEEDEIKEIPGKE----VEFPKYASQIINLANIFAQGTRPKVVGQMSDLIHEFRKCGDK   59 (201)
T ss_pred             CCCHHHHHHHHCCCCC----CCCCHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCCC
T ss_conf             5403778997467888----785245888987740145677875021389999998733885


No 44 
>COG4710 Predicted DNA-binding protein with an HTH domain [General function prediction only]
Probab=20.85  E-value=42  Score=11.85  Aligned_cols=55  Identities=24%  Similarity=0.331  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHCCCEEECCCCHH
Q ss_conf             899999999999987630036665424777999---9899998762254665266315
Q gi|254781206|r   64 IEQRLKKVSERYERVVSRDLTLVIEAGLKDLKE---VGDTLKRLAETGEVILSDKSDR  118 (1246)
Q Consensus        64 ieqrlkkvseryervvsrdltlvieaglkdlke---vgdtlkrlaetgevilsdksdr  118 (1246)
                      .++||+..|++-.|.-+--+.-.||+++.+...   .-+.|.|+-...+-+.|.+-++
T Consensus        16 ~~eRL~~Ls~~tgrtkayyvrEaIE~~ieemED~ylA~~aler~k~G~~q~~Sa~~~~   73 (80)
T COG4710          16 LKERLDNLSKNTGRTKAYYVREAIEAYIEEMEDFYLAVNALERLKDGDYQKASAKIDK   73 (80)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             9999999987048854699999999999999999999999999873278887799999


No 45 
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues.  In addition,  PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=20.69  E-value=42  Score=11.83  Aligned_cols=19  Identities=32%  Similarity=0.275  Sum_probs=8.6

Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q ss_conf             2324599999999999999
Q gi|254781206|r  674 DELHGVEAVYQKLDVLFRH  692 (1246)
Q Consensus       674 delhgveavyqkldvlfrh  692 (1246)
                      |-||--++-|+...-..+-
T Consensus       190 DgLHln~~GY~~w~~~i~p  208 (214)
T cd01820         190 DYLHLTAAGYRKWADALHP  208 (214)
T ss_pred             CCCCCCHHHHHHHHHHHHH
T ss_conf             8889999999999999999


Done!