Query         gi|254780355|ref|YP_003064768.1| type II citrate synthase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 429
No_of_seqs    205 out of 1887
Neff          6.1 
Searched_HMMs 39220
Date          Sun May 29 15:20:38 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780355.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK05614 gltA type II citrate  100.0       0       0 1157.7  42.7  412    5-417     1-414 (414)
  2 cd06114 EcCS_like Escherichia  100.0       0       0 1054.7  41.0  399   17-416     1-400 (400)
  3 TIGR01800 cit_synth_II 2-methy 100.0       0       0 1059.3  33.5  376   45-428     2-386 (386)
  4 cd06115 AthCS_per_like Arabido 100.0       0       0 1048.4  39.3  398   21-424     2-410 (410)
  5 cd06116 CaCS_like Chloroflexus 100.0       0       0 1040.2  40.7  384   38-425     1-384 (384)
  6 cd06107 EcCS_AthCS-per_like Es 100.0       0       0  977.6  39.9  375   38-416     1-382 (382)
  7 PRK12351 methylcitrate synthas 100.0       0       0  970.1  39.9  371   41-428     7-377 (377)
  8 cd06112 citrate_synt_like_1_1  100.0       0       0  940.6  38.8  372   42-425     1-373 (373)
  9 COG0372 GltA Citrate synthase  100.0       0       0  942.8  37.0  388   27-428     2-390 (390)
 10 PRK12349 citrate synthase 3; P 100.0       0       0  921.5  37.9  360   42-418     4-364 (365)
 11 cd06111 DsCS_like Cold-active  100.0       0       0  901.9  38.8  362   44-422     1-362 (362)
 12 cd06113 citrate_synt_like_1_2  100.0       0       0  891.7  39.0  370   35-416     7-406 (406)
 13 cd06110 BSuCS-II_like Bacillus 100.0       0       0  893.4  37.6  356   44-416     1-356 (356)
 14 cd06117 Ec2MCS_like_1 Subgroup 100.0       0       0  891.8  37.9  364   45-425     2-366 (366)
 15 cd06103 ScCS-like Saccharomyce 100.0       0       0  891.0  35.7  375   26-416    14-424 (426)
 16 TIGR01798 cit_synth_I citrate  100.0       0       0  897.8  30.1  411   12-422     1-413 (413)
 17 cd06105 ScCit1-2_like Saccharo 100.0       0       0  887.7  33.7  368   37-420    28-426 (427)
 18 cd06108 Ec2MCS_like Escherichi 100.0       0       0  880.3  38.6  361   45-425     2-363 (363)
 19 pfam00285 Citrate_synt Citrate 100.0       0       0  878.7  38.2  352   45-410     1-352 (352)
 20 cd06118 citrate_synt_like_1 Ci 100.0       0       0  876.5  38.3  358   44-414     1-358 (358)
 21 cd06109 BsCS-I_like Bacillus s 100.0       0       0  869.1  35.9  347   44-416     1-349 (349)
 22 PRK09569 type I citrate syntha 100.0       0       0  860.8  33.0  359   45-420    41-429 (437)
 23 PRK12350 citrate synthase 2; P 100.0       0       0  852.7  30.3  345   42-421     1-350 (352)
 24 cd06106 ScCit3_like Saccharomy 100.0       0       0  792.8  36.3  358   45-415    39-425 (428)
 25 cd06101 citrate_synt Citrate s 100.0       0       0  698.3  26.7  263   44-414     1-265 (265)
 26 cd06102 citrate_synt_like_2 Ci 100.0       0       0  637.6  25.9  266   48-416    17-282 (282)
 27 KOG2617 consensus              100.0       0       0  589.0  20.9  394   12-429    39-457 (458)
 28 TIGR01793 cit_synth_euk citrat 100.0       0       0  522.7  23.1  348   51-415    50-427 (430)
 29 cd06099 CS_ACL-C_CCL Citrate s 100.0       0       0  509.9  20.7  211  192-414     1-213 (213)
 30 PRK06224 citrate synthase; Pro 100.0       0       0  438.6  21.7  243   51-422     8-264 (265)
 31 cd06100 CCL_ACL-C Citryl-CoA l 100.0       0       0  432.1  18.5  198  190-403    10-214 (227)
 32 KOG1254 consensus               99.5 2.2E-14 5.5E-19  119.4   3.6  217  180-409   353-590 (600)
 33 cd06100 CCL_ACL-C Citryl-CoA l  97.7  0.0071 1.8E-07   39.8  15.5   43   70-112     1-43  (227)
 34 COG3383 Uncharacterized anaero  81.2     1.6   4E-05   23.6   3.0   55    1-62      1-59  (978)
 35 KOG2617 consensus               80.1    0.96 2.5E-05   25.1   1.6   25   51-78     71-95  (458)
 36 PRK07569 bidirectional hydroge  78.6     2.7   7E-05   21.9   3.6   55    1-64      1-59  (236)
 37 TIGR01025 rpsS_arch ribosomal   77.6     1.5 3.9E-05   23.7   2.0   95   66-190     5-101 (136)
 38 PRK04038 rps19p 30S ribosomal   76.9     2.8 7.1E-05   21.9   3.2   91   62-186     3-93  (134)
 39 TIGR01882 peptidase-T peptidas  75.6     1.6   4E-05   23.6   1.7   90  310-399   292-408 (413)
 40 PTZ00096 40S ribosomal protein  73.4       3 7.7E-05   21.6   2.6   90   66-186    16-105 (144)
 41 KOG3041 consensus               71.9     3.9 9.9E-05   20.9   2.9   68   14-86    104-184 (225)
 42 KOG1182 consensus               71.7     2.8 7.1E-05   21.9   2.1   19   62-80    146-164 (432)
 43 PRK08493 NADH dehydrogenase su  71.4     4.2 0.00011   20.6   3.0   52    6-62      2-55  (819)
 44 PRK07860 NADH dehydrogenase su  71.0     5.1 0.00013   20.0   3.4   66    3-75     14-83  (809)
 45 PRK13866 plasmid partitioning   69.2     3.9 9.9E-05   20.9   2.4   24  382-407   311-334 (336)
 46 pfam07249 Cerato-platanin Cera  64.8     6.7 0.00017   19.2   2.9   32   40-72      3-34  (119)
 47 TIGR03454 partition_RepB plasm  58.7     6.5 0.00017   19.3   2.0   10  187-196   157-166 (325)
 48 PRK09129 NADH dehydrogenase su  54.5      13 0.00034   17.2   3.0   10  261-270   505-514 (777)
 49 KOG4183 consensus               53.4      16 0.00042   16.6   8.4   15   61-75     62-76  (413)
 50 KOG0416 consensus               53.1     6.4 0.00016   19.4   1.1   18    1-19     17-34  (189)
 51 PTZ00295 glucosamine-fructose-  51.3     5.4 0.00014   19.9   0.6   32   45-77     71-112 (691)
 52 pfam07583 PSCyt2 Protein of un  50.3      12  0.0003   17.6   2.1   45   75-124    20-64  (200)
 53 PRK08166 NADH dehydrogenase su  50.2      10 0.00026   18.0   1.8   18   62-79    258-275 (858)
 54 COG1034 NuoG NADH dehydrogenas  50.0      18 0.00045   16.3   3.0   50    6-62      2-55  (693)
 55 TIGR01135 glmS glucosamine--fr  49.1     4.4 0.00011   20.5  -0.2   72  210-293   390-465 (628)
 56 TIGR01330 bisphos_HAL2 3'(2'),  45.9     9.4 0.00024   18.2   1.1  175  104-281    10-247 (382)
 57 PRK07440 hypothetical protein;  44.9      17 0.00044   16.4   2.3   17    1-18      1-17  (70)
 58 pfam07587 PSD1 Protein of unkn  44.9      22 0.00056   15.7   3.6   19  172-190    23-41  (258)
 59 PRK10528 multifunctional acyl-  43.7      23 0.00058   15.5   7.1   82  280-368    93-175 (191)
 60 TIGR00588 ogg 8-oxoguanine DNA  42.7      24  0.0006   15.4   3.6   33  286-332   219-251 (379)
 61 TIGR02123 TRAP_fused TRAP tran  42.3      10 0.00025   18.0   0.8   34  235-271   225-265 (681)
 62 pfam02332 Phenol_Hydrox Methan  40.2      26 0.00066   15.2   4.7  105  211-343    67-174 (233)
 63 pfam00591 Glycos_transf_3 Glyc  39.9      24 0.00062   15.4   2.4   10  221-230   143-152 (254)
 64 COG0343 Tgt Queuine/archaeosin  39.8      17 0.00044   16.4   1.6   23  285-307   225-247 (372)
 65 KOG0138 consensus               39.3      27 0.00068   15.1   3.4   49  242-292   276-332 (432)
 66 PRK00112 tgt queuine tRNA-ribo  37.9      22 0.00056   15.7   1.9   50  258-307   183-252 (366)
 67 KOG0205 consensus               37.7      18 0.00046   16.2   1.5   63    2-64    332-421 (942)
 68 PRK11780 isoprenoid biosynthes  33.8       7 0.00018   19.1  -1.1   75   69-146    72-146 (217)
 69 PRK09130 NADH dehydrogenase su  33.7      32 0.00082   14.5   3.0   17  384-400   660-676 (680)
 70 TIGR02335 hydr_PhnA phosphonoa  33.5      30 0.00076   14.7   2.1   44    5-52     15-65  (408)
 71 TIGR01495 ETRAMP early transcr  32.7      21 0.00054   15.8   1.2   14  248-261    66-80  (99)
 72 KOG0898 consensus               32.0      34 0.00087   14.3   4.3   24   66-90     22-45  (152)
 73 TIGR01851 argC_other N-acetyl-  32.0     7.5 0.00019   18.9  -1.2   22   58-83      5-28  (314)
 74 PRK10624 L-1,2-propanediol oxi  31.5      35 0.00089   14.3   3.2   48  232-279   243-290 (381)
 75 pfam01795 Methyltransf_5 MraW   31.4      35 0.00089   14.3   7.2   55   69-123   131-188 (310)
 76 TIGR01245 trpD anthranilate ph  31.1      21 0.00055   15.7   1.0   17  230-246    84-100 (331)
 77 pfam01702 TGT Queuine tRNA-rib  30.9      31 0.00078   14.7   1.8   50  258-307    56-125 (238)
 78 PRK13222 phosphoglycolate phos  30.8      35 0.00088   14.3   2.0   77  207-293   146-226 (228)
 79 TIGR02358 thia_cytX probable h  29.8      37 0.00095   14.1   2.8   15  175-189   164-178 (415)
 80 cd03133 GATase1_ES1 Type 1 glu  29.2     8.4 0.00021   18.6  -1.4   75   69-146    69-143 (213)
 81 PRK02955 small acid-soluble sp  29.2      26 0.00067   15.1   1.2   27  279-305    16-42  (69)
 82 COG0177 Nth Predicted EndoIII-  28.7      39 0.00099   13.9   2.2   16  300-315   179-194 (211)
 83 TIGR03092 SASP_sspI small, aci  27.8      29 0.00074   14.8   1.2   27  279-305    13-39  (65)
 84 TIGR02365 dha_L_ycgS dihydroxy  27.8      38 0.00097   14.0   1.8   43  251-293    64-109 (200)
 85 TIGR02344 chap_CCT_gamma T-com  27.8      40   0.001   13.8   2.4   56  304-362    58-116 (527)
 86 TIGR03233 DNA_S_dndB DNA sulfu  27.2      34 0.00087   14.4   1.5   48   68-116   113-162 (355)
 87 PRK09860 putative alcohol dehy  27.1      41  0.0011   13.8   6.9   55  232-286   245-299 (383)
 88 KOG0962 consensus               26.9      42  0.0011   13.7   3.5   56   37-104    10-65  (1294)
 89 KOG0193 consensus               26.7      21 0.00055   15.7   0.4   63   67-129   385-462 (678)
 90 TIGR02815 agaS_fam putative su  26.6      24 0.00061   15.4   0.6   19  259-277   223-241 (374)
 91 TIGR02044 CueR Cu(I)-responsiv  26.5      42  0.0011   13.7   4.1   50   80-129    58-117 (127)
 92 TIGR01148 mtrC tetrahydrometha  26.3      18 0.00046   16.2  -0.1   10  285-294   166-175 (276)
 93 cd00529 RuvC_resolvase Hollida  25.7      44  0.0011   13.6   5.8   44   39-87      2-45  (154)
 94 TIGR02728 spore_gerQ spore coa  24.9      14 0.00035   17.1  -0.9   18  190-207     4-21  (82)
 95 pfam09350 DUF1992 Domain of un  24.6      46  0.0012   13.5   6.3   61  284-345     2-62  (70)
 96 TIGR01807 CM_P2 chorismate mut  24.5      36 0.00092   14.2   1.2   26  154-179     8-33  (79)
 97 PRK01237 triphosphoribosyl-dep  24.3      46  0.0012   13.4   4.4   49  307-361   221-269 (292)
 98 PRK12677 xylose isomerase; Pro  24.0      47  0.0012   13.4   6.0   33  181-215   176-218 (389)
 99 pfam00465 Fe-ADH Iron-containi  24.0      47  0.0012   13.4   2.1   11  370-380   277-287 (312)
100 TIGR03293 PhnG_redo phosphonat  23.7      48  0.0012   13.3   2.0   64  303-366    75-139 (144)
101 pfam08235 LNS2 LNS2 (Lipin/Ned  23.4      48  0.0012   13.3   4.8  113  244-378    11-142 (156)
102 PRK13224 consensus              23.1      20 0.00051   15.9  -0.3   80  200-292   132-215 (216)
103 pfam10694 DUF2500 Protein of u  22.5      36 0.00091   14.2   0.8   13   59-71     88-100 (107)
104 TIGR00422 valS valyl-tRNA synt  22.4     6.6 0.00017   19.3  -2.9   22  180-201   658-679 (970)
105 PRK10246 exonuclease subunit S  22.4      36 0.00091   14.2   0.8   14  387-400  1007-1020(1047)
106 PRK01008 queuine tRNA-ribosylt  22.2      51  0.0013   13.2   2.3   22  286-307   246-267 (372)
107 TIGR00713 hemL glutamate-1-sem  22.0      51  0.0013   13.1   3.2   75  307-400   324-416 (434)
108 TIGR01859 fruc_bis_ald_ fructo  21.7      52  0.0013   13.1   3.2   11  251-261   180-190 (339)
109 pfam09370 TIM-br_sig_trns TIM-  21.4      53  0.0013   13.0   2.5   43  236-278    26-75  (268)
110 PRK11552 putative DNA-binding   21.3      53  0.0013   13.0   4.2   35  210-246    10-44  (224)
111 TIGR02111 PQQ_syn_pqqC coenzym  21.3      39 0.00099   14.0   0.8   47  244-293   128-176 (239)
112 KOG1741 consensus               21.1      53  0.0014   13.0   4.7   36  105-140    30-69  (103)
113 PRK10254 hypothetical protein;  20.9      40   0.001   13.9   0.8   20  260-279    50-69  (137)
114 PRK09300 tRNA splicing endonuc  20.9      54  0.0014   13.0   1.5   20   80-99     36-55  (334)
115 TIGR01069 mutS2 MutS2 family p  20.6      35 0.00088   14.3   0.5   26  216-241   383-411 (834)
116 TIGR00987 himA integration hos  20.6      54  0.0014   12.9   1.8   43  272-314     9-59  (96)
117 cd04762 HTH_MerR-trunc Helix-T  20.5      21 0.00054   15.8  -0.7   30  280-312    13-42  (49)
118 pfam05788 Orbi_VP1 Orbivirus R  20.2      47  0.0012   13.4   1.1   62   65-134   622-687 (1301)
119 KOG4448 consensus               20.2      26 0.00066   15.2  -0.3   59   49-113   105-163 (374)
120 pfam01997 Translin Translin fa  20.1      44  0.0011   13.6   0.9   14  250-263   107-120 (186)

No 1  
>PRK05614 gltA type II citrate synthase; Reviewed
Probab=100.00  E-value=0  Score=1157.70  Aligned_cols=412  Identities=66%  Similarity=1.122  Sum_probs=402.7

Q ss_pred             EEEEEEC-CEEEEEEEECCCCCCCCEEECCCC-CCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCH
Q ss_conf             6999989-989997523077787510100115-58618988887862387875654334477789899319999750898
Q gi|254780355|r    5 FAKLHLG-HEEIDLPIKEGSLGSSVLDISFLH-KNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDF   82 (429)
Q Consensus         5 ~~~l~~~-~~~~~lpi~~~~~~~~~~d~~~l~-~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sF   82 (429)
                      ++||+++ ||+|||||++||+|+++|||++|+ +||++||||||+||++|||+||||||++|+|+||||||||||++++|
T Consensus         1 ~a~l~~~~g~~~~~pi~~~t~g~~~idi~~l~~~tG~~t~DpG~~nt~~c~S~It~IDGe~GiL~YRGY~IedLa~~~sF   80 (414)
T PRK05614          1 KATLTLEGGKSVELPILKGTLGPDVIDIRKLYGQTGYFTYDPGFTSTASCESKITYIDGDKGILLYRGYPIEQLAEKSDF   80 (414)
T ss_pred             CCEEEECCCCEEEECEECCCCCCCEEEHHHHHCCCCCEEECCCCCCCCEEEEEEEEEECCCCEEEECCCCHHHHHHCCCH
T ss_conf             93699589967980201288898634667653237968878887762147653058736653798899179999853999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             99999998187999899999999886406899899999985124765257899999998752068557678788988899
Q gi|254780355|r   83 LEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSL  162 (429)
Q Consensus        83 eEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~  162 (429)
                      ||||||||||+|||++||++|+.+|++++.+|+++.+++++||+++|||++|+++|++|+++|++..+..++++....++
T Consensus        81 eEvayLLl~G~LPt~~el~~F~~~l~~~~~lpe~v~~~l~~~P~~ahPM~~L~~~vsaL~~~~~~~~d~~~~~~~~~~a~  160 (414)
T PRK05614         81 LEVCYLLLYGELPTAEQKKEFDTTVTRHTMVHEQLKRFFRGFRRDAHPMAVLCGVVGALSAFYHDSLDINDPEHREIAAI  160 (414)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
T ss_conf             99999997898999999999999999725585999998851677777489999999998765104578899899999999


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHH
Q ss_conf             99999999999999972798534888642468877876428984101479699999875635013678763015555442
Q gi|254780355|r  163 RMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAG  242 (429)
Q Consensus       163 rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~va  242 (429)
                      |||||+|+|+|++||++.|+++++||+++||+||||+||+|.+.++++++|..+|+||++|||||||||||||||+|||+
T Consensus       161 rliAk~pti~A~~yr~~~G~~~i~P~~~ls~aeNFL~Ml~g~~~~~~~~~p~~~~ald~~LiLhADHe~NaSTft~Rvva  240 (414)
T PRK05614        161 RLIAKMPTLAAMAYKYSIGQPFVYPRNDLSYAENFLHMMFATPCEEYEVNPVLVRALDRIFILHADHEQNASTSTVRLAG  240 (414)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHEEC
T ss_conf             99989999999999995799887899874699999998548985345799899999999999987426771135430000


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHH
Q ss_conf             05654246776755421002220352899999862155351279999998214786143027743555540346899999
Q gi|254780355|r  243 SSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETM  322 (429)
Q Consensus       243 St~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~  322 (429)
                      ||+||+||||+|||+||||||||||||+|++||++|++++++++||++++++++++|||||||||||++||||++||+++
T Consensus       241 ST~ad~ysav~aaI~aL~GPLHGGAne~vl~mL~~Ig~~~~v~~~i~~~~~k~~~~rlmGFGHRVYk~~DPRA~ilk~~~  320 (414)
T PRK05614        241 SSGANPFACIAAGIAALWGPAHGGANEAVLKMLEEIGSVDNIPEFIAKAKDKNDGFRLMGFGHRVYKNYDPRAKIMRETC  320 (414)
T ss_pred             CCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             37887899999999965688787868999999999488454899999998523688504778876889992689999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99888608776517999999999996115314579877844788999998499966858999999998999999999707
Q gi|254780355|r  323 YEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVD  402 (429)
Q Consensus       323 ~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~  402 (429)
                      ++++++.+. ++|++++|.++|++|++|+||++|+||||||||||++|++||||++||||+||+||++||+|||+||+++
T Consensus       321 ~~l~~~~~~-~~~l~~ia~~lE~~al~d~yf~~r~lypNVDfYsg~vy~~lGiP~~~fT~lFAi~R~~GW~AH~~Eq~~~  399 (414)
T PRK05614        321 HEVLKELGL-DDPLLEVAMELEEIALEDEYFIERKLYPNVDFYSGIILKALGIPTSMFTVIFALARTVGWIAHWNEMHSD  399 (414)
T ss_pred             HHHHHHHCC-CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999998378-8669999999999985112126789888713479999998098867778999999999999999999838


Q ss_pred             CCCCCCCCCCCCCCC
Q ss_conf             898300456210588
Q gi|254780355|r  403 PSRRIGRPRQLYTGA  417 (429)
Q Consensus       403 ~~~ri~RP~~~Y~G~  417 (429)
                      +.+||+||||+|||.
T Consensus       400 ~~~rI~RP~~~Y~G~  414 (414)
T PRK05614        400 PEQKIGRPRQLYTGY  414 (414)
T ss_pred             CCCCEECCCCCCCCC
T ss_conf             788465887524496


No 2  
>cd06114 EcCS_like Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA.  There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the active site.  Type II CSs are unique to gram-negative bacteria and are homohexamers of identical subunits (approximated as a trimer of dimers).  Some typ
Probab=100.00  E-value=0  Score=1054.75  Aligned_cols=399  Identities=63%  Similarity=1.080  Sum_probs=390.4

Q ss_pred             EEEECCCCCCCCEEECCCC-CCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCC
Q ss_conf             7523077787510100115-586189888878623878756543344777898993199997508989999999818799
Q gi|254780355|r   17 LPIKEGSLGSSVLDISFLH-KNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELA   95 (429)
Q Consensus        17 lpi~~~~~~~~~~d~~~l~-~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLP   95 (429)
                      |||+.||+|+++||+++|+ ++|++||||||.||++|||+||+|||++|+|+||||||+||+++++||||+||||+|+||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~g~~~~dPGL~~v~a~eT~Is~iDg~~G~L~YRGy~I~dLa~~~~FEEvayLLl~G~LP   80 (400)
T cd06114           1 LPVLEGTEGEKVIDISSLRKKTGVFTYDPGFMNTASCESAITYIDGEKGILRYRGYPIEQLAEKSSFLEVCYLLLYGELP   80 (400)
T ss_pred             CCCCCCCCCCCEEEHHHHHHHCCCEEECCCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCC
T ss_conf             98024788997145165586369687788878722687657015077857988991599986169999999999679798


Q ss_pred             CHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98999999998864068998999999851247652578999999987520685576787889888999999999999999
Q gi|254780355|r   96 NVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMI  175 (429)
Q Consensus        96 t~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~  175 (429)
                      |++||++|+.+|.+++.+|+.+.++++.+|+++|||++|+++|++|++++++..+..+++...+.++||+|++|+|+|++
T Consensus        81 t~~el~~f~~~L~~~~~lp~~v~~~i~~~P~~~hPM~~L~t~vs~L~~~~~~~~~~~~~~~~~~~a~rLiA~~p~i~A~~  160 (400)
T cd06114          81 TAEQLQEFREEITRHTLVHEQMKRFFNGFPRDAHPMAILSAMVNALSAFYPDSLDVNDPEQRELAAIRLIAKVPTIAAMA  160 (400)
T ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999998568999999988513888785999999999988518655688999999999999998999999999


Q ss_pred             HHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             99727985348886424688778764289841014796999998756350136787630155554420565424677675
Q gi|254780355|r  176 YKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAG  255 (429)
Q Consensus       176 yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~ag  255 (429)
                      ||+++|++++.||+++||++|||+||+|.++..++|++..+|+||++||||||||+||||||+|||+||++|+||||+||
T Consensus       161 ~r~~~g~~~~~p~~~ls~a~NfL~Ml~g~~~~~~~p~~~~~~~ld~~LiLhADHe~NaSTFaarvvaSTlsD~ysai~aa  240 (400)
T cd06114         161 YRYSIGQPFIYPDNDLSYVENFLHMMFAVPYEPYEVDPVVVKALDTILILHADHEQNASTSTVRMVGSSGANLFASISAG  240 (400)
T ss_pred             HHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             99875998667998636999999998288764579999999999999988862367623776655424788788999999


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCH
Q ss_conf             54210022203528999998621553512799999982147861430277435555403468999999988860877651
Q gi|254780355|r  256 VACLGGRAHGGANEEALNMLMEIGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDP  335 (429)
Q Consensus       256 i~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~  335 (429)
                      |+||||||||||||+|++||++|++++++++||++.++++++.|||||||||||.+||||.+||++++++.++.+. +++
T Consensus       241 IgaLkGPLHGGAne~v~~ml~eIg~~~~~~~~i~~~~~~~~~~rimGfGHrVYk~~DPRa~~lk~~~~~l~~~~~~-~~~  319 (400)
T cd06114         241 IAALWGPLHGGANEAVLEMLEEIGSVGNVDKYIAKAKDKNDPFRLMGFGHRVYKNYDPRAKILKKTCDEVLAELGK-DDP  319 (400)
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC-CCH
T ss_conf             9864788777689999999998578651999999998647986302678776888994389999999999988377-537


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             79999999999961153145798778447889999984999668589999999989999999997078983004562105
Q gi|254780355|r  336 IAQVAIELERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYT  415 (429)
Q Consensus       336 ~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~  415 (429)
                      +++++.++|+++++++||.+|+|+||||||||++|++||||+++|||||++||++||+|||+||+.++.||||||+++||
T Consensus       320 ~~~ia~~ie~~a~~~~~~~~r~l~pNVDfysg~ly~~lGip~dlfT~iFaisR~~GW~AH~~Eq~~~~~nrliRP~~~Yv  399 (400)
T cd06114         320 LLEIAMELEEIALKDDYFIERKLYPNVDFYSGIILRALGIPTEMFTVLFALGRTPGWIAQWREMHEDPELKIGRPRQLYT  399 (400)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCC
T ss_conf             99999999999850011367898777035899999981988676369999999999999999998589986548878057


Q ss_pred             C
Q ss_conf             8
Q gi|254780355|r  416 G  416 (429)
Q Consensus       416 G  416 (429)
                      |
T Consensus       400 G  400 (400)
T cd06114         400 G  400 (400)
T ss_pred             C
T ss_conf             9


No 3  
>TIGR01800 cit_synth_II 2-methylcitrate synthase/citrate synthase II; InterPro: IPR011278   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 represents type I homodimeric citrate synthase enzymes (predominantly from Gram-positive bacteria and archaea), as well as 2-methylcitrate synthase; some enzyme in this entry may be bifunctional citrate synthase/2-methylcitrate synthase enzymes. Members of this family appear as a second citrate synthase isozyme but typically are associated with propionate metabolism and synthesise 2-methylcitrate from propionyl-CoA; citrate synthase activity may be incidental. A number of species, including Thermoplasma acidophilum, Pyrococcus furiosus, and the Antarctic bacterium DS2-3R have a bifunctional member of this family as the only citrate synthase isozyme . 2-methylcitrate (2.3.3.5 from EC) synthase catalyses the conversion of oxaloacetate and propanoyl-CoA into (2R,3S)-2-hydroxybutane-1,2,3-tricarboxylate and coenzyme A. This enzyme is induced during bacterial growth on propionate, while type II hexameric citrate synthase is constitutive . ; GO: 0046912 transferase activity transferring acyl groups acyl groups converted into alkyl on transfer, 0044262 cellular carbohydrate metabolic process, 0005737 cytoplasm.
Probab=100.00  E-value=0  Score=1059.30  Aligned_cols=376  Identities=36%  Similarity=0.620  Sum_probs=365.4

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCC-HHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             8786238787565433447778989931999975089-899999998187999899999999886406899899999985
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSD-FLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~s-FeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      ||..+.+|+|+||+|||++|+|.||||+|+|||++|+ ||||+||||||+|||++||++|+++|+++|.||++|+.+|+.
T Consensus         2 GLegV~~~~T~ls~i~~~~g~L~Y~GY~i~DLa~~a~qFEEv~YLLl~G~LPt~~EL~~fk~~l~~~R~lP~~vi~~~~~   81 (386)
T TIGR01800         2 GLEGVLADETSLSTIDGEEGILTYRGYDIEDLAEKASQFEEVAYLLLHGKLPTKEELEKFKTELAKLRGLPDEVIELLES   81 (386)
T ss_pred             CCCCCCCCCEEEEEEECCCCEEEECCCCHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             76774211100004627887025637658999962264189999998205988889999989999751898989999986


Q ss_pred             HCC-CCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC--HHHHHHHHHH
Q ss_conf             124-7652578999999987520685576787889888999999999999999997279853488864--2468877876
Q gi|254780355|r  124 FPS-SAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSD--LDYASNFLHM  200 (429)
Q Consensus       124 ~p~-~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~--lsyaeNfL~M  200 (429)
                      +|+ ++|||++|||+||+|++++++.....+++..+..+.||+||+|+|+|++||+++|++.|.|+.+  +|||+|||||
T Consensus        82 LP~~~~HPM~~LRTAvS~LG~~d~~G~~~~t~~~~r~~a~~l~A~~P~Iva~~~R~~~g~~~v~P~~~s~~s~A~nFL~m  161 (386)
T TIGR01800        82 LPAEESHPMAVLRTAVSYLGALDPEGAETRTPEEARDIAKRLLAKLPTIVAAWYRIRNGLEIVAPREDSDLSIAANFLYM  161 (386)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf             03025898999999999984358777767898889888788774444999999976436885688435565356778876


Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCC
Q ss_conf             42898410147969999987563501367876301555544205654246776755421002220352899999862155
Q gi|254780355|r  201 CFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGS  280 (429)
Q Consensus       201 l~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~  280 (429)
                      ++|+.+..-+|++..+|+||..||||||||+||||||+||++||+||+||||+||||||+|||||||||.||+||+||++
T Consensus       162 L~GeddGsv~P~~~~~~a~~~aLiLyAeHe~NASTFaarv~aSTLSD~YSaitaAIGALkGPLHGGAnE~vm~~l~ei~~  241 (386)
T TIGR01800       162 LHGEDDGSVEPSKEEEKAMDIALILYAEHELNASTFAARVIASTLSDIYSAITAAIGALKGPLHGGANEAVMKMLDEIGD  241 (386)
T ss_pred             HCCCCCCCCCCCHHHHHHHCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCC
T ss_conf             41787788788979998613001134223885667999999988888999999999970687503189999999975238


Q ss_pred             C-CHHHHHHHHHHHC-CCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             3-5127999999821-4786143027743555540346899999998886087765179999999999961153145798
Q gi|254780355|r  281 L-ERIPHYIMRAKDK-NDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKL  358 (429)
Q Consensus       281 ~-~~v~~~i~~~~~~-~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l  358 (429)
                      | +++++||.++|++ |+  |||||||||||++|||+++||+++++|.+..|.  ..|++++.+||+++.  +++.+|+|
T Consensus       242 pd~~aE~~~~~~l~~GKE--riMGFGHRVYk~~DPRa~~lk~~a~~L~~~~G~--~K~Yei~~~~E~~~~--~~~g~Kgl  315 (386)
T TIGR01800       242 PDDKAEAWIRKKLENGKE--RIMGFGHRVYKTYDPRAKILKEYAKKLSAKKGE--SKWYEISERIEDVME--KALGEKGL  315 (386)
T ss_pred             HHHHHHHHHHHHHHHCCC--EEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHH--HHHCCCCC
T ss_conf             444588999999970896--684057532468996278999999999841688--723688899999999--97214788


Q ss_pred             CCCCCHHHHHHHHHCCCCHH--HHHHHHHHHHHHHHHHHHHHHHH-CCCCCCCCCCCCCCCCCCCCCCCHHHC
Q ss_conf             77844788999998499966--85899999999899999999970-789830045621058876870685542
Q gi|254780355|r  359 YPNVDFYSGITLRALGFPTN--LFTVLFAVARTAGWVSQWTEMIV-DPSRRIGRPRQLYTGALKRDYVPLEER  428 (429)
Q Consensus       359 ~pNvDfysg~i~~~lGip~~--~ft~iFa~~R~~Gw~AH~~Eq~~-~~~~ri~RP~~~Y~G~~~r~y~pi~~R  428 (429)
                      +||||||||.+|+.||||.+  +||||||+||+.||+||++||++ +  |||||||+.||||..|+||||++|
T Consensus       316 ~PNvDFySa~vY~~lGiP~~nnlFTpiFa~sRvsGW~AH~~Eq~~e~--NRLIRPrA~YvG~~~r~~vPi~~R  386 (386)
T TIGR01800       316 YPNVDFYSASVYYSLGIPVDNNLFTPIFAMSRVSGWTAHIIEQYEEN--NRLIRPRAEYVGPEERKYVPIEER  386 (386)
T ss_pred             CCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             98886145899874688853344405899987777687545413205--631177522467566620670139


No 4  
>cd06115 AthCS_per_like Arabidopsis thaliana (Ath) peroxisomal (Per) CS_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains three Arabidopsis peroxisomal CS proteins, CYS1, -2, and -3 which are involved in the glyoxylate cycle. AthCYS1, in addition to a peroxisomal targeting sequence, has a predicted secretory signal peptide; it may be targeted to both the secretory pathway and the peroxisomes and is thought to be located in the extracellular matrix. AthCSY1 is expr
Probab=100.00  E-value=0  Score=1048.39  Aligned_cols=398  Identities=47%  Similarity=0.823  Sum_probs=379.3

Q ss_pred             CCCCCCCCEEECCCC----CCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCC
Q ss_conf             077787510100115----5861898888786238787565433447778989931999975089899999998187999
Q gi|254780355|r   21 EGSLGSSVLDISFLH----KNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELAN   96 (429)
Q Consensus        21 ~~~~~~~~~d~~~l~----~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt   96 (429)
                      ++|+  ++.|++++.    ++|++||||||.||++|||+||||||++|+|+||||||+|||++++||||+||||+|+|||
T Consensus         2 ~~~~--~~~~~~~i~~~~~~~G~~~~dPGl~~v~~~eS~Is~iDg~~G~L~YRGy~I~dLa~~~~FeEvayLLl~G~LPt   79 (410)
T cd06115           2 HGTV--KATDFKKIKAGKDDKGLRLYDPGYLNTAVVRSKISYIDGDKGILRYRGYPIEELAEKSTFLEVAYLLIYGNLPT   79 (410)
T ss_pred             CCCE--EHHHHHHHCCCCCCCCCEEECCCCCCEEEEEEECEEECCCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCC
T ss_conf             9823--05666653246678892765887687016777680062888489889922999845698999999997697959


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCC-------CCHHHHHHHHHHHHHHHH
Q ss_conf             8999999998864068998999999851247652578999999987520685576-------787889888999999999
Q gi|254780355|r   97 VSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGV-------QDLEQCVNVSLRMIAKIS  169 (429)
Q Consensus        97 ~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~-------~d~~~~~~~a~rLiA~~p  169 (429)
                      ++|+++|+.+|++++.||+.+.++++.||+++|||++|+++|++|++++++..+.       .+.+...+.++||+|++|
T Consensus        80 ~~el~~f~~~l~~~~~lp~~v~~~l~~~p~~~hPM~~L~~~vsal~~~~p~~~~~~~~~~~~~~~~~~~~~~irLiAk~p  159 (410)
T cd06115          80 KSQLSDWEFAVSQHTAVPTGVLDMIKSFPHDAHPMGMLVSAISALSAFHPEANPALAGQDIYKNKQVRDKQIVRILGKAP  159 (410)
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             99999999999984579877788875389888957999999999860186545322223334667788899999999999


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHH
Q ss_conf             99999999727985348886424688778764289841014796999998756350136787630155554420565424
Q gi|254780355|r  170 TIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPF  249 (429)
Q Consensus       170 ~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adly  249 (429)
                      +|+|++||++.|++++.|++++||++|||+||++.....++|+|..+|+||++||||||||+||||||+|||+||+||+|
T Consensus       160 ~i~A~~yr~~~g~~~~~P~~~ls~a~NfL~Ml~~~~~~~~~p~~~~~~ald~~LILhADHe~NaSTftarvvaST~sD~y  239 (410)
T cd06115         160 TIAAAAYRRRAGRPPNLPSQDLSYTENFLYMLDSLGERKYKPNPRLARALDILFILHAEHEMNCSTAAVRHLASSGVDVY  239 (410)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHEEHHCCCCCHH
T ss_conf             99999999965998888997636998999997078866689898999999999999873157741142112004788889


Q ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             67767554210022203528999998621553512799999982147861430277435555403468999999988860
Q gi|254780355|r  250 ACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVT  329 (429)
Q Consensus       250 sai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~  329 (429)
                      |||+|||+||||||||||||+|++||++|++++++++||++++++++  |||||||||||++||||++||++++++.+..
T Consensus       240 saisaaIgaLkGPLHGGAne~v~~ml~ei~s~~~v~~~i~~~l~~~~--rimGfGHrVYk~~DPRa~ilk~~~~~l~~~~  317 (410)
T cd06115         240 TAVAGAVGALYGPLHGGANEAVLRMLAEIGTVENIPAFIEGVKNRKR--KLSGFGHRVYKNYDPRAKIIKKLADEVFEIV  317 (410)
T ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHC
T ss_conf             99999998657887777889999999996472237999999871678--7677898768888827799999999999874


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             87765179999999999961153145798778447889999984999668589999999989999999997078983004
Q gi|254780355|r  330 GRFNDPIAQVAIELERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGR  409 (429)
Q Consensus       330 ~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~R  409 (429)
                      +  ++++++++.++|+++++++||.+|+||||||||||++|++||||++|||+||++||++||+|||+||+.+++|||||
T Consensus       318 ~--~~~l~~ia~~ie~~~~~~~~~~~k~l~pNVDfysg~v~~~lGip~~~fT~iFa~sR~~GW~AH~~Eq~~~~~~rliR  395 (410)
T cd06115         318 G--KDPLIEIAVALEKAALSDEYFVKRKLYPNVDFYSGLIYRAMGFPTDFFPVLFAIPRMAGYLAHWRESLDDPDTKIMR  395 (410)
T ss_pred             C--CCHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEC
T ss_conf             9--86179999999999998763556799878236899999980989366689999999999999999998388985768


Q ss_pred             CCCCCCCCCCCCCCC
Q ss_conf             562105887687068
Q gi|254780355|r  410 PRQLYTGALKRDYVP  424 (429)
Q Consensus       410 P~~~Y~G~~~r~y~p  424 (429)
                      |+|+||||.+|+|+|
T Consensus       396 P~~~YvG~~~r~y~P  410 (410)
T cd06115         396 PQQLYTGVWLRHYVP  410 (410)
T ss_pred             CCCEEECCCCCCCCC
T ss_conf             986003899988898


No 5  
>cd06116 CaCS_like Chloroflexus aurantiacus (Ca) citrate synthase (CS)_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group is similar to gram-negative Escherichia coli (Ec) CS (type II, gltA) and Arabidopsis thaliana (Ath) peroxisomal (Per) CS. However EcCS and AthPerCS are not found in this group. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA.   There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers w
Probab=100.00  E-value=0  Score=1040.24  Aligned_cols=384  Identities=56%  Similarity=0.979  Sum_probs=376.5

Q ss_pred             CEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHH
Q ss_conf             61898888786238787565433447778989931999975089899999998187999899999999886406899899
Q gi|254780355|r   38 GIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENM  117 (429)
Q Consensus        38 G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v  117 (429)
                      |++||||||.||++|||+||||||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.+|++++.+|+.+
T Consensus         1 G~~~~dPGl~~~~~~eT~Is~iDg~~G~L~YRGy~I~dLa~~~sfeEvayLLl~G~LPt~~el~~f~~~l~~~~~l~~~v   80 (384)
T cd06116           1 GLMTYDPAYLNTASCKSAITYIDGEKGILRYRGYPIEQLAEQSSYLEVAYLLLHGELPTKERLAQWVYDITRHTMTHENL   80 (384)
T ss_pred             CCEECCCCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHH
T ss_conf             96304787687216876683586898779888835999861499999999997798949999999999999854797789


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH
Q ss_conf             99998512476525789999999875206855767878898889999999999999999972798534888642468877
Q gi|254780355|r  118 SRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNF  197 (429)
Q Consensus       118 ~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNf  197 (429)
                      .++++.||+++|||++|+++|++|++++++..+..+++.....++||+|++|+|+|++||++.|++++.||+++||++||
T Consensus        81 ~~~i~~~p~~~hPM~~L~~~vsal~~~~~~~~~~~~~~~~~~~~~rliA~~p~i~A~~~r~~~g~~~~~pd~~ls~a~Nf  160 (384)
T cd06116          81 KKFMDGFRYDAHPMGILISSVAALSTFYPEAKNIGDEEQRNKQIIRLIGKMPTIAAFAYRHRLGLPYVLPDNDLSYTGNF  160 (384)
T ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHH
T ss_conf             99983588888947889999999985185444689978889999999999999999999996699977889874789999


Q ss_pred             HHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             87642898410147969999987563501367876301555544205654246776755421002220352899999862
Q gi|254780355|r  198 LHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLME  277 (429)
Q Consensus       198 L~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~  277 (429)
                      |+||++.....++++|..+|+||++||||||||+||||||+|||+||+||+||||+|||+||||||||||||+|++||++
T Consensus       161 L~Ml~~~~~~~~~p~~~~~~~ld~~LiLhADHe~NaSTftarvvaST~sD~ysai~aaI~aL~GPLHGGAne~v~~ml~e  240 (384)
T cd06116         161 LSMLFKMTEPKYEPNPVLAKALDVLFILHADHEQNCSTSAMRSVGSSRADPYTAVAAAVAALYGPLHGGANEAVLRMLQQ  240 (384)
T ss_pred             HHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH
T ss_conf             99970787766789989999999999997147776567888887615888899999999864788777889999999999


Q ss_pred             CCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf             15535127999999821478614302774355554034689999999888608776517999999999996115314579
Q gi|254780355|r  278 IGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERK  357 (429)
Q Consensus       278 I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~  357 (429)
                      |++++++++|+++.+++++  |||||||||||++||||++||+++++++++.+  ++++++++.++|+++++++||++|+
T Consensus       241 I~~~~~v~~~v~~~~~~~~--rimGfGHrVYk~~DPRa~ilk~~~~~l~~~~~--~~~~~~~a~~ie~~~~~~~~~~~k~  316 (384)
T cd06116         241 IGSPKNIPDFIETVKQGKE--RLMGFGHRVYKNYDPRARIIKKIADEVFEATG--RNPLLDIAVELEKIALEDEYFISRK  316 (384)
T ss_pred             HCCCCCHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             6794208999999984788--65677887688899268999999999998628--7727899999999998877445689


Q ss_pred             CCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             87784478899999849996685899999999899999999970789830045621058876870685
Q gi|254780355|r  358 LYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPL  425 (429)
Q Consensus       358 l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi  425 (429)
                      ||||||||||++|++||||++|||++|++||++||+|||+||++++.+||+||+|+||||.+|+|+||
T Consensus       317 l~pNVDfysg~l~~~lGip~~~fT~iFa~sR~~GW~AH~~E~~~~~~~riiRP~~~Y~G~~~r~y~Pi  384 (384)
T cd06116         317 LYPNVDFYSGLIYQALGFPTEAFTVLFAIPRTSGWLAQWIEMLRDPEQKIARPRQVYTGPRDRDYVPI  384 (384)
T ss_pred             CCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCCCCCC
T ss_conf             88781048999999819893666799999999999999999982878864288752139899998889


No 6  
>cd06107 EcCS_AthCS-per_like Escherichia coli (Ec) citrate synthase (CS) gltA and Arabidopsis thaliana (Ath) peroxisomal (Per) CS_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA.   There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the active site.  Type II CSs are unique to gram-negative bacteria and are homohexamers of ide
Probab=100.00  E-value=0  Score=977.63  Aligned_cols=375  Identities=55%  Similarity=0.935  Sum_probs=364.3

Q ss_pred             CEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHH
Q ss_conf             61898888786238787565433447778989931999975089899999998187999899999999886406899899
Q gi|254780355|r   38 GIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENM  117 (429)
Q Consensus        38 G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v  117 (429)
                      |+++|||||.||++|||+||+|||++|+|+||||||+||+++++||||+||||||+|||++|+++|+.++.+++.+|+.+
T Consensus         1 g~~~~dpGL~~v~~~es~Is~iDg~~G~L~YRGy~i~dLa~~~~fEeva~LLl~G~lPt~~el~~f~~~l~~~~~lp~~v   80 (382)
T cd06107           1 GLRVYDPGYLNTAVCESSITYIDGDKGILLYRGYPIEQLAESSTYEEVAYLLLWGELPTQEQYDEFQRRLSEHMMVPESV   80 (382)
T ss_pred             CCEEECCCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHH
T ss_conf             97643798888437775682365788879889914999850599999999997597979999999999999825898799


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCC-------CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             9999851247652578999999987520685576-------787889888999999999999999997279853488864
Q gi|254780355|r  118 SRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGV-------QDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSD  190 (429)
Q Consensus       118 ~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~-------~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~  190 (429)
                      .++++.+|+++|||++|++++++|++++++..+.       .+++...+.++||+|++|+|+|++||++.|+++++|+++
T Consensus        81 ~~~i~~~P~~~hPM~~l~~~vsal~~~~~~~~~~~~~~~~~~~~~~~~~~~~rliA~~p~i~a~~~r~~~g~~~~~p~~~  160 (382)
T cd06107          81 HRLIQTFPRDAHPMGILCAGLSALSAFYPEAIPAHTGDLYQNNPEVRDKQIIRTLAKMPTIAAAAYCHRIGRPFVYPRAN  160 (382)
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf             99998368878858999999999860395433211233333787789999999998999999999999669998889988


Q ss_pred             HHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHH
Q ss_conf             24688778764289841014796999998756350136787630155554420565424677675542100222035289
Q gi|254780355|r  191 LDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEE  270 (429)
Q Consensus       191 lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~  270 (429)
                      ++|++|||+||++.+...++++|..+++||++||||||||+||||||+|||+||++|+||||+|||+||||||||||||+
T Consensus       161 l~~a~nfl~ml~~~~~~~~~~~~~~~~~ld~~LiLhADHe~NaSTFtarvvaST~aD~ysav~aai~aL~GPlHGGAn~~  240 (382)
T cd06107         161 LSYIENFLYMMGYVDQEPYEPNPRLARALDRLWILHADHEMNCSTSAARHTGSSLADPISCMAAAIAALYGPLHGGANEA  240 (382)
T ss_pred             CCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHH
T ss_conf             57888899987068766678998999999999878612577712455433323788889999999997478887639999


Q ss_pred             HHHHHHHCCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99998621553512799999982147861430277435555403468999999988860877651799999999999611
Q gi|254780355|r  271 ALNMLMEIGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALED  350 (429)
Q Consensus       271 v~~ml~~I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d  350 (429)
                      |++||++|++++++++||++.+++++  |||||||||||++||||++|+++++++..+.+  ++++++++.++|++++++
T Consensus       241 v~~ml~ei~~~~~v~~~i~~~l~~~~--ri~GfGHrVYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~a~~ie~~a~~~  316 (382)
T cd06107         241 ALKMLREIGTPENVPAFIERVKNGKR--RLMGFGHRVYKNYDPRAKVIREILHEVLTEVE--KDPLLKVAMELERIALED  316 (382)
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHH
T ss_conf             99999984883147999999763678--64577876688899448999999999988648--866999999999999732


Q ss_pred             HHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             531457987784478899999849996685899999999899999999970789830045621058
Q gi|254780355|r  351 EYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTG  416 (429)
Q Consensus       351 ~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G  416 (429)
                      +||.+|++|||||||||++|++||||++|||+||++||++||+|||+||+.++.+||||||++|||
T Consensus       317 ~~~~~k~l~pNVDfysg~l~~~lGip~~~ft~lFa~sR~~GW~AH~~Eq~~~~~~rliRP~~~Y~G  382 (382)
T cd06107         317 EYFVSRKLYPNVDFYSGFIYKALGFPPEFFTVLFAVARTSGWMAHWREMMEDPLQRIWRPRQVYTG  382 (382)
T ss_pred             HHCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCC
T ss_conf             433678998680168999999929693677899999999999999999972888857588781569


No 7  
>PRK12351 methylcitrate synthase; Provisional
Probab=100.00  E-value=0  Score=970.08  Aligned_cols=371  Identities=39%  Similarity=0.659  Sum_probs=358.7

Q ss_pred             EECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf             98888786238787565433447778989931999975089899999998187999899999999886406899899999
Q gi|254780355|r   41 TYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRF  120 (429)
Q Consensus        41 ~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~  120 (429)
                      .++|||.||++|+|+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.++++++.+|+++.++
T Consensus         7 ~~~~GL~gv~v~~S~Is~IDg~~G~L~YRGy~i~dLa~~~~fEEva~LL~~G~LPt~~el~~f~~~l~~~~~lp~~v~~~   86 (377)
T PRK12351          7 KVSKGLEGVVAGNTAISTVGGSGGDLTYRGYDIEDLAENCSFEEVAYLLLHGELPTKAELAAFKEKLRALRGLPAAVKDV   86 (377)
T ss_pred             CCCCCCCCCEEEEEECCEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHH
T ss_conf             88988899815576581464789889998934999982499999999997797939999999999999727999999999


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             98512476525789999999875206855767878898889999999999999999972798534888642468877876
Q gi|254780355|r  121 FMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHM  200 (429)
Q Consensus       121 i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~M  200 (429)
                      ++.||+++|||++|+++|++|++++++..+ .+++...+.++||+|++|+|+|++||+++|++++.|++++||++|||+|
T Consensus        87 l~~~p~~~hPM~~L~~~vs~L~~~~~~~~~-~~~~~~~~~a~rliA~~p~i~a~~~r~~~g~~~i~p~~~ls~a~NfL~m  165 (377)
T PRK12351         87 LESLPASAHPMDVLRTGVSALGLFDPEAED-HSPEAARDIADRLLAKLPTIVAYWYRYRHGGDPIEPRDDLSIAANFLYM  165 (377)
T ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             985788898078999999998732867566-9989999999999999999999999997799887898520399999998


Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCC
Q ss_conf             42898410147969999987563501367876301555544205654246776755421002220352899999862155
Q gi|254780355|r  201 CFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGS  280 (429)
Q Consensus       201 l~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~  280 (429)
                      |+|.     ++++..+|+||++||||||||+||||||+||||||++|||+||+|||+||||||||||||+|++||++|++
T Consensus       166 l~g~-----~p~~~~~~~l~~~LiL~ADHe~NaSTfaaRvvaST~ad~ysav~agi~aL~GPlHGGAn~~v~~ml~eI~~  240 (377)
T PRK12351        166 LHGE-----EPSELWVKAMDVSLILYAEHEFNASTFTARVIASTLSDMYSAITAAIGALKGPLHGGANEAVMEMLEEIGS  240 (377)
T ss_pred             HCCC-----CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             4589-----99989999999999987237888058999999705987899999988863676444667999999999589


Q ss_pred             CCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             35127999999821478614302774355554034689999999888608776517999999999996115314579877
Q gi|254780355|r  281 LERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYP  360 (429)
Q Consensus       281 ~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~p  360 (429)
                      ++++++||++++++++  |||||||||||++||||++|+++++++.+..+  ++++++++.++|+++.+     .||+||
T Consensus       241 ~~~v~~~i~~~l~~~~--rl~GFGHrvYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~a~~ie~~~~~-----~~~l~p  311 (377)
T PRK12351        241 PEEAEAYLRKRLANKE--KIMGFGHRVYKVSDPRAKILKELAEKLAKEKG--DEKLYDIAERLEKVMWE-----EKGIFP  311 (377)
T ss_pred             CHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHH-----HCCCCC
T ss_conf             2577999999985589--76577876578999368999999999987349--84799999999999997-----379998


Q ss_pred             CCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHC
Q ss_conf             84478899999849996685899999999899999999970789830045621058876870685542
Q gi|254780355|r  361 NVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPLEER  428 (429)
Q Consensus       361 NvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi~~R  428 (429)
                      |||||||++|++||||.+|||+||++||++||+|||+||+++  +|||||||+|||+.+|+|+||++|
T Consensus       312 NVDfys~~l~~~lGip~~~ft~iFa~~R~~GW~AH~~Eq~~~--~~liRP~~~YvG~~~r~y~p~~~R  377 (377)
T PRK12351        312 NVDFYSGVVYHMMGIPTDLFTPIFAISRVAGWLAHIIEQRED--NRIIRPSANYVGPEDRKYVPIEER  377 (377)
T ss_pred             CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             712689999999398866788999999999999999999847--970077640149999888771129


No 8  
>cd06112 citrate_synt_like_1_1 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, an
Probab=100.00  E-value=0  Score=940.58  Aligned_cols=372  Identities=42%  Similarity=0.755  Sum_probs=357.9

Q ss_pred             ECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHH
Q ss_conf             88887862387875654334477789899319999750898999999981879998999999998864068998999999
Q gi|254780355|r   42 YDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFF  121 (429)
Q Consensus        42 ~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i  121 (429)
                      |||||.||++|+|+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.+|.+++.+|+.+.+++
T Consensus         1 ~~pGL~gv~v~~T~Is~Idg~~G~L~YRGy~i~dLa~~~~fEeva~LL~~G~LP~~~el~~f~~~l~~~~~l~~~v~~~~   80 (373)
T cd06112           1 YIPGLAGVPAAESSISYIDGKNGILEYRGYDIEELAEYSSFEEVALLLLDGDLPTAAELEEFDKELRQHRRVKYNIRDMM   80 (373)
T ss_pred             CCCCCCCCCEEEEECEEEECCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             98977898145776817737888798899049998635999999999976989699999999999998456875789998


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHCCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             8512476525789999999875206855-767878898889999999999999999972798534888642468877876
Q gi|254780355|r  122 MGFPSSAHPMAMLVSAVGALSSFYYSPS-GVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHM  200 (429)
Q Consensus       122 ~~~p~~ahPM~~L~~~vsaL~a~~~~~~-~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~M  200 (429)
                      +.||+++|||++|++++++|++++++.. +..+++...+.++||+|++|+|+|++||++.|++++.|+++++|++|||+|
T Consensus        81 ~~~p~~~hpm~~l~~~vs~l~~~~~~~~~~~~~~~~~~~~~~rliA~~p~i~A~~~r~~~g~~~i~p~~~l~~a~nfl~m  160 (373)
T cd06112          81 KCFPETGHPMDMLQATVAALGMFYPKPEVLKPNPDYIDAATVKLIAKMPTLVAMWARIRNGDDPIEPRPDLDYAENFLYM  160 (373)
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             70875479588999999998732865334689999999999999999999999999997699988899630499999999


Q ss_pred             HCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCC
Q ss_conf             42898410147969999987563501367876301555544205654246776755421002220352899999862155
Q gi|254780355|r  201 CFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGS  280 (429)
Q Consensus       201 l~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~  280 (429)
                      ++|.     ++++..+++||++||||||||+||||||+|||+||++|+|+||+|||+||||||||||||+|++||++|++
T Consensus       161 l~g~-----~p~~~~~~~ld~~LiL~ADHe~NaSTfa~RvvaST~ad~ysav~aai~aL~GPLHGGAn~~v~~ml~ei~~  235 (373)
T cd06112         161 LFGE-----EPDPATAKILDACLILHAEHTMNASTFSALVTGSTLADPYAVISSAIGTLSGPLHGGANEDVLEMLEEIGS  235 (373)
T ss_pred             HHCC-----CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             7078-----99999999999999687116775789999999658888899999999864687555789999999998499


Q ss_pred             CCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             35127999999821478614302774355554034689999999888608776517999999999996115314579877
Q gi|254780355|r  281 LERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYP  360 (429)
Q Consensus       281 ~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~p  360 (429)
                      ++++++||++++++|+  |||||||||||++||||++|+++++++.++.+. .+++++++.++|+++  .++|.+||+||
T Consensus       236 ~~~~~~~i~~~l~~~~--~i~GFGHrvYk~~DPRa~~L~~~~~~l~~~~~~-~~~~~~~a~~ie~~~--~e~~~~k~l~p  310 (373)
T cd06112         236 PENVKAYLDKKLANKQ--KIWGFGHRVYKTKDPRATILQKLAEDLFAKMGE-LSKLYEIALEVERLC--EELLGHKGVYP  310 (373)
T ss_pred             HHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHH--HHHHCCCCCCC
T ss_conf             8889999999872688--778888765788994289999999999886177-567999999999999--99741479986


Q ss_pred             CCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             84478899999849996685899999999899999999970789830045621058876870685
Q gi|254780355|r  361 NVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPL  425 (429)
Q Consensus       361 NvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi  425 (429)
                      |||||||++|++||||+++||+||++||++||+|||+||+++  +||||||++||||.+|+||||
T Consensus       311 NVDfys~~l~~~lGip~~~~t~iFa~sR~~GW~AH~~Eq~~~--~~liRP~~~Y~G~~~~~~~p~  373 (373)
T cd06112         311 NVDFYSGIVYKELGIPADLFTPIFAVARVAGWLAHWKEQLGD--NRIFRPTQIYIGEIDRKYVPL  373 (373)
T ss_pred             CHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCC
T ss_conf             737799999999297957788999999999999999998647--985177660359998898999


No 9  
>COG0372 GltA Citrate synthase [Energy production and conversion]
Probab=100.00  E-value=0  Score=942.81  Aligned_cols=388  Identities=52%  Similarity=0.862  Sum_probs=370.1

Q ss_pred             CCEEECCCCCCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             51010011558618988887862387875654334477789899319999750898999999981879998999999998
Q gi|254780355|r   27 SVLDISFLHKNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDK  106 (429)
Q Consensus        27 ~~~d~~~l~~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~  106 (429)
                      +.+++++ ..++.++|+||+.+|.+|+|+||+|||++|+|+||||+|+||+++++||||+||||+|+|||.+|+++|..+
T Consensus         2 ~~~~~~~-~~~~~~~~~~Gl~~v~a~~t~is~id~~~g~L~yrGy~i~dla~~~~feev~~LLl~G~lPt~~el~~~~~~   80 (390)
T COG0372           2 DVIDIRT-SDVGRFTYDPGLEGVAACETAISYIDGDGGILRYRGYDIEDLAEKSSFEEVAYLLLYGELPTKAELAAFFAK   80 (390)
T ss_pred             CCCCCCC-CCCCCCCCCCCCCCCCEEEEEEEEECCCCCEEEECCCCHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             8424467-776642147754554246655346658876478888068999750679999999980778971779999999


Q ss_pred             HHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             86406899899999985124765257899999998752068557678788988899999999999999999727985348
Q gi|254780355|r  107 ISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVY  186 (429)
Q Consensus       107 l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~  186 (429)
                      +..++.+|+++.+++..+|+++|||++|++++++|++++++..+.++   ..+.+.||+|++|+|+|++||++.|.+++.
T Consensus        81 ~~~~~~~~~~~~~~~~~~p~~~hpm~~l~~~vs~l~~~~~~~~~~~~---~~~~a~rlia~~pti~a~~yr~~~g~~~i~  157 (390)
T COG0372          81 LAARRTLPEQVIRLLESLPRDAHPMAVLRTAVSALSAFYPDKLDLND---RREAALRLIAKLPTIAAAVYRYSRGEPPIA  157 (390)
T ss_pred             HHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCCH---HHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99866666889999985777668679999999984012421134423---478888899875589999999753898766


Q ss_pred             CCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             88642468877876428984101479699999875635013678763015555442056542467767554210022203
Q gi|254780355|r  187 PRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGG  266 (429)
Q Consensus       187 Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGG  266 (429)
                      |+++++|++|||+|+++.++++    |..+|+||++||||||||+||||||+||++||++||||||+|||+|||||||||
T Consensus       158 p~~~~s~a~nfL~ml~g~~p~~----~~~~~a~d~~LiL~ADHe~NASTftarvvaST~sd~ys~i~agi~aL~GPlHGG  233 (390)
T COG0372         158 PDPDLSYAENFLYMLFGEPPSP----PVEARAMDRALILHADHELNASTFTARVVASTGSDLYACIAAGIGALKGPLHGG  233 (390)
T ss_pred             CCCCCCHHHHHHHHHCCCCCCC----HHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCC
T ss_conf             8988669999999970889996----799999999998983168871888999998617868999999998757876667


Q ss_pred             CCHHHHHHHHHCCCCCH-HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             52899999862155351-27999999821478614302774355554034689999999888608776517999999999
Q gi|254780355|r  267 ANEEALNMLMEIGSLER-IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELER  345 (429)
Q Consensus       267 Ane~v~~ml~~I~~~~~-v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~  345 (429)
                      |||+|++||+||++..+ +++||+++|++|+  |||||||||||++||||++||++++++.++.|  +++++++|.++|+
T Consensus       234 Ane~v~~ml~ei~~~~~~~~~~v~~~l~~~~--~imGFGHRVYk~~DPRa~~lk~~a~~l~~~~g--~~~~~~~a~~~e~  309 (390)
T COG0372         234 ANEAVMKMLEEIGSSGESAEAYVRKALDRKE--RIMGFGHRVYKNYDPRAKVLKELAEKLGKELG--DLKLYEIAEELEE  309 (390)
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHH
T ss_conf             5899999999962132329999999985699--76788977678999559999999999887537--5059999999999


Q ss_pred             HHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             99611531457987784478899999849996685899999999899999999970789830045621058876870685
Q gi|254780355|r  346 IALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPL  425 (429)
Q Consensus       346 ~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi  425 (429)
                      +++++.+| +|+||||||||||++|++||||.+|||+||++||++||+|||+||+.++ |||+||||.|+|+.+|+|+||
T Consensus       310 ~~l~~~~~-~k~l~PNvDfysg~v~~~lGiP~~~fT~lFa~aR~~GW~AH~~Eq~~~~-~riiRPr~~Y~G~~~r~~~~~  387 (390)
T COG0372         310 IALEDLGF-EKKLYPNVDFYSGIVYRALGIPTDMFTPLFAIARTVGWIAHWIEQKEDG-NKIIRPRALYTGPEERDYVPI  387 (390)
T ss_pred             HHHHHHCC-CCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCHHHHCCCCCCCCCCC
T ss_conf             99973322-4588877414379999981998777310455445789999999999745-884578044258665446576


Q ss_pred             HHC
Q ss_conf             542
Q gi|254780355|r  426 EER  428 (429)
Q Consensus       426 ~~R  428 (429)
                      ++|
T Consensus       388 ~~r  390 (390)
T COG0372         388 EER  390 (390)
T ss_pred             CCC
T ss_conf             779


No 10 
>PRK12349 citrate synthase 3; Provisional
Probab=100.00  E-value=0  Score=921.48  Aligned_cols=360  Identities=30%  Similarity=0.547  Sum_probs=346.2

Q ss_pred             ECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHH
Q ss_conf             88887862387875654334477789899319999750898999999981879998999999998864068998999999
Q gi|254780355|r   42 YDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFF  121 (429)
Q Consensus        42 ~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i  121 (429)
                      |||||.||++|||+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.+|.+++.+|+.+.+++
T Consensus         4 ~~pGL~gv~~~et~Is~iDg~~G~L~YRGy~i~dLa~~~sfeEva~LLl~G~LPt~~el~~f~~~l~~~~~lp~~v~~~i   83 (365)
T PRK12349          4 FSPGLDGIVAAETKISFLDTVKGEIVIQGYDLIELSKTKEYLDIVHLLLEGHLPNEDEKATLEKKLKEEYAVPEGVFNIL   83 (365)
T ss_pred             CCCCCCCCCEEEEECCCEECCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             99976897156887811557998799989259998306999999999987989698999999999998637977899999


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             85124765257899999998752068557678788988899999999999999999727985348886424688778764
Q gi|254780355|r  122 MGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMC  201 (429)
Q Consensus       122 ~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml  201 (429)
                      +.||+++|||++|+++|++|++++++..+ .+.+...+.++||+|++|+|+|++||+++|++++.|+++++|++|||+||
T Consensus        84 ~~lp~~~hPm~~L~~~vs~l~~~d~~~~~-~~~~~~~~~a~~lia~~p~i~a~~~r~~~g~~~~~p~~~~~~a~nfl~ml  162 (365)
T PRK12349         84 KALPKETHPMDGLRTGVSALAGYDNDIED-RSLEVNKSRAYKLLGKVPNIVANSYHILNNEEPIEPLKELSYSANFLYML  162 (365)
T ss_pred             HHCCCCCCCHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             71798998078999999998704976555-89799999999998789999999999976998889984316899988751


Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCC
Q ss_conf             28984101479699999875635013678763015555442056542467767554210022203528999998621553
Q gi|254780355|r  202 FSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSL  281 (429)
Q Consensus       202 ~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~  281 (429)
                      +|.     +|++..+|+||++||||||||+||||||+|||+||++||||||+|||+||||||||||||+|++||++|+++
T Consensus       163 ~g~-----~p~~~~~~~ld~~LiL~ADHe~naSTfaaRvvaST~ad~ysai~aai~aL~GPLHGGAne~v~~ml~ei~~~  237 (365)
T PRK12349        163 TGK-----KPTELEEKIFDRSLVLYSEHEMPNSTFTARVIASTQSDLYGALTGAVASLKGSLHGGANEAVMYMLLEAGTV  237 (365)
T ss_pred             CCC-----CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCH
T ss_conf             489-----886699999999999855566753789999997158888999999998667876678789999999982888


Q ss_pred             CHHHHHHHHHHHCCCCCEEECCCCCCC-CCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             512799999982147861430277435-5554034689999999888608776517999999999996115314579877
Q gi|254780355|r  282 ERIPHYIMRAKDKNDPFRIMGFGHRVY-RNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYP  360 (429)
Q Consensus       282 ~~v~~~i~~~~~~~~~~ri~GfGHrvy-k~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~p  360 (429)
                      +++++||++.+++++  |||||||||| |.+||||++|++++.++.+..+  ++++++++.++|+++.+     +|||||
T Consensus       238 ~~~~~~i~~~l~~~~--~i~GFGHrVY~k~~DPRa~~l~~~~~~l~~~~~--~~~l~~~~~~~e~~~~~-----~k~l~p  308 (365)
T PRK12349        238 EKFEELLQKKLYNKE--KIMGFGHRVYMKKMDPRALMMKEALKQLCDVKG--DYTLYEMCEAGEKIMEK-----EKGLYP  308 (365)
T ss_pred             HHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHHH-----HCCCCC
T ss_conf             779999999871799--611578755578899549999999999976347--61699999999999987-----039996


Q ss_pred             CCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf             8447889999984999668589999999989999999997078983004562105887
Q gi|254780355|r  361 NVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGAL  418 (429)
Q Consensus       361 NvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~  418 (429)
                      |||||||++|++||||+++||+||++||++||+|||+||+++  +|||||+++||||.
T Consensus       309 NvDfys~~l~~~lGip~d~ft~iFa~sR~~Gw~AH~~Eq~~~--~~liRP~~~YvG~~  364 (365)
T PRK12349        309 NLDYYAAPVYWMLGIPIQLYTPIFFSSRTVGLCAHVIEQHAN--NRLFRPRVNYIGER  364 (365)
T ss_pred             CHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCC
T ss_conf             758789999998097924668999999999999999999638--97338878306999


No 11 
>cd06111 DsCS_like Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2-methylcitrate synthase (2MCS) catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. DsCS, compared with CS from the hyperthermophile Pyrococcus furiosus (not included in this group), has an increase in the size of surface loops, a higher proline content in the loop regions, a more accessible active site, and a highe
Probab=100.00  E-value=0  Score=901.85  Aligned_cols=362  Identities=31%  Similarity=0.538  Sum_probs=347.1

Q ss_pred             CCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             88786238787565433447778989931999975089899999998187999899999999886406899899999985
Q gi|254780355|r   44 PAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        44 pG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      -|+.++.+|||+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.++..++.+|+.+.++++.
T Consensus         1 ~GL~gv~~~et~Is~idg~~g~L~YRGy~i~dLa~~~~fEeva~LL~~G~LPt~~el~~f~~~l~~~~~lp~~v~~~l~~   80 (362)
T cd06111           1 KGLAGVVADTTAISKVMPETNSLTYRGYPVQDLAENCSFEEVAYLLWNGELPNAAQLAEFSQRERSYRRLDRNLLSLIAS   80 (362)
T ss_pred             CCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             99898566133582576899879998932999973499999999996898969999999999999827997999999986


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             12476525789999999875206855767878898889999999999999999972798534888642468877876428
Q gi|254780355|r  124 FPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       124 ~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      ||+++|||++|++++++|++++++..+ .+++...+.++||+|++|+|+|++||++.|++++.|+++++|++|||+||+|
T Consensus        81 ~p~~~hpm~~l~~~vs~l~~~d~~~~~-~~~~~~~~~a~~lia~~p~i~a~~~r~~~g~~~~~p~~~ls~a~nfl~ml~g  159 (362)
T cd06111          81 LPKNCHPMDVLRTAVSVLGAEDSETDD-SSPDANLAKAIRLLAQLPTVVAADIRRRKGLDPIPPDSDLGIAENFLHMCFG  159 (362)
T ss_pred             HCCCCCCHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             388878377899999998634976121-8979999999986508999999999996699987899407689999998637


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      .     +++|..+|+||++||||||||+||||||+|||+||++|+|+||+|||+||||||||||||+|++||++|+++++
T Consensus       160 ~-----~p~~~~~ral~~~LiL~ADHg~NaSTfaaRvvaST~ad~ysav~aal~aL~GPLHGGAn~~v~~ml~ei~~~~~  234 (362)
T cd06111         160 E-----VPSPEVVRAFDVSLILYAEHSFNASTFTARVITSTLSDIYSAITGAIGALKGPLHGGANEAVMHMMLEIDDPEK  234 (362)
T ss_pred             C-----CCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHH
T ss_conf             9-----99899999999999997243687389999999658888899999999872788765678999999998378122


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999996115314579877844
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVD  363 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvD  363 (429)
                      +++||++.+++|+  |||||||||||++||||++|+++++++.+..+  ..++++++.++|+++.     ..||+|||||
T Consensus       235 ~~~~i~~~l~~~~--~i~GFGHrvYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~~~~~e~~~~-----~~k~l~pNVD  305 (362)
T cd06111         235 AAQWMLDALARKE--KVMGFGHRVYKSGDSRVPTMEKALRRVAAVHD--GQKWLAMYDALEDAMV-----AAKGIKPNLD  305 (362)
T ss_pred             HHHHHHHHHHCCC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHHH-----HHCCCCCCCH
T ss_conf             6999999984688--77888875577889505999999999876228--7069999999999999-----8479998821


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             78899999849996685899999999899999999970789830045621058876870
Q gi|254780355|r  364 FYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDY  422 (429)
Q Consensus       364 fysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y  422 (429)
                      ||||++|++||||+++||++|++||++||+|||+||+++  +|||||||+||||.+|+.
T Consensus       306 fys~~l~~~lGip~~~~t~lFa~sR~~GW~AH~~Eq~~~--~~liRP~~~YvGp~~r~~  362 (362)
T cd06111         306 FPAGPAYYLMGFDIDFFTPIFVMARITGWTAHIMEQRAD--NALIRPLSEYNGPEQRPV  362 (362)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCC
T ss_conf             689999999198856778999999999999999999867--985389871429799999


No 12 
>cd06113 citrate_synt_like_1_2 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) a carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) h
Probab=100.00  E-value=0  Score=891.67  Aligned_cols=370  Identities=33%  Similarity=0.527  Sum_probs=331.6

Q ss_pred             CCCCEEEECCCCCCEEEEEEEEEEEECCC----CEEEECCEEHHHHHHHCC------HHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             55861898888786238787565433447----778989931999975089------89999999818799989999999
Q gi|254780355|r   35 HKNGIFTYDPAFSSTASCKSKITFIDGNN----GILLYRGYPIEQLSEKSD------FLEVCYLLLHGELANVSQQKDFN  104 (429)
Q Consensus        35 ~~~G~~~~dpG~~~ta~ceS~IT~IDG~~----G~L~YRGY~IedLa~~~s------FeEVayLLl~GeLPt~~el~~F~  104 (429)
                      +.+|++.   |.+++ +|-..+++|||++    |+|+||||||+|||++++      ||||+||||||+|||++||++|+
T Consensus         7 ~g~gvia---~~t~i-~~v~g~~~~~ge~~p~~G~L~YRGY~IedLa~~~t~~~~~~FeEvayLLl~G~LPt~~eL~~f~   82 (406)
T cd06113           7 DGTGVLA---GLTNI-SDVVGYKIIDGEKVPCPGKLYYRGYDVEDLVNGAQKENRFGFEETAYLLLFGYLPNKEELEEFC   82 (406)
T ss_pred             CCCEEEE---CCCEE-EEEEEEEEECCCCCCCCCEEEECCCCHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             9997887---44312-2357676246858899873888992199998237767678899999999878798999999999


Q ss_pred             HHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH----C
Q ss_conf             988640689989999998512476525789999999875206855767878898889999999999999999972----7
Q gi|254780355|r  105 DKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYS----I  180 (429)
Q Consensus       105 ~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~----~  180 (429)
                      .+|++++.||+++.+.+..+++++|||++|+++|++|+++++++.+ .+.+...+.++||+|++|+|+|++||..    .
T Consensus        83 ~~l~~~r~lp~~~~~~~~~~~p~~~pM~~L~~~vs~L~~~~~~~~~-~~~~~~~~~~irliAk~pti~a~~yr~~~~~~~  161 (406)
T cd06113          83 EILSSYRTLPDNFVEDVILKAPSKDIMNKLQRSVLALYSYDDKPDD-ISLENVLRQSIQLIARLPTIAVYAYQAKRHYYD  161 (406)
T ss_pred             HHHHHCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             9999817899999999974188877399999999998646877677-999999999999998746999999999850036


Q ss_pred             CCC--CCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCC-CCCCHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             985--3488864246887787642898410147969999987563501367-8763015555442056542467767554
Q gi|254780355|r  181 GQP--FVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADH-EQNASTSTVRLAGSSGADPFACIAAGVA  257 (429)
Q Consensus       181 G~~--~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADH-e~NaSTft~R~vaSt~adlysai~agi~  257 (429)
                      +++  +..||+++||++|||+||++.    .+++|..+|+||++||||||| ||||||||+||||||+||+||||+|||+
T Consensus       162 ~~~~~~~~pd~~ls~a~NFL~Ml~~~----~~~~~~~~rald~~LILhADH~~~NaSTftaRvvaST~sD~ysaisaaIg  237 (406)
T cd06113         162 GESLYIHHPQPELSTAENILSMLRPD----KKYTELEAKLLDLCLVLHAEHGGGNNSTFTTRVVSSSGTDTYSAIAAAIG  237 (406)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHCCC----CCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             88866478986546899999983699----99997999999999999624377760166655553478878999999998


Q ss_pred             HHHHHHHCCCCHHHHHHHHHC-------CCCCHHHHHHHHHHHCCC---CCEEECCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             210022203528999998621-------553512799999982147---8614302774355554034689999999888
Q gi|254780355|r  258 CLGGRAHGGANEEALNMLMEI-------GSLERIPHYIMRAKDKND---PFRIMGFGHRVYRNHDPRCRIMRETMYEVLE  327 (429)
Q Consensus       258 aL~GPlHGGAne~v~~ml~~I-------~~~~~v~~~i~~~~~~~~---~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~  327 (429)
                      ||||||||||||+|++||++|       +++++|++|+++.++++.   ..+||||||||||++||||++||+++++|.+
T Consensus       238 aL~GPLHGGAne~vl~ml~eI~~~~~~~~~~~~v~~~i~~~~~k~~~~~~~~imGFGHRVYK~~DPRa~ilk~~a~~l~~  317 (406)
T cd06113         238 SLKGPRHGGANIKVMEMLEDIKENVKDWTDEDEVRAYLRKILNKEAFDKSGLIYGMGHAVYTLSDPRAVVLKKYARSLAK  317 (406)
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             64686545848999999999998524789778999999999853302456764257887789999318999999999987


Q ss_pred             HCCCCCCHHHHHHHHHHHHH---HHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             60877651799999999999---611531457987784478899999849996685899999999899999999970789
Q gi|254780355|r  328 VTGRFNDPIAQVAIELERIA---LEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPS  404 (429)
Q Consensus       328 ~~~~~~~~~~~~a~~le~~a---~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~  404 (429)
                      +.+.  +++++++.++|+++   +.++||+.|+||||||||||++|++||||++||||||++||++||+|||+||+.++ 
T Consensus       318 ~~g~--~~~~~~~~~~e~~a~~~l~~~~~~~r~l~pNVDfYsg~v~~~lGip~~~fT~iFaisR~~GW~AH~~Eq~~~~-  394 (406)
T cd06113         318 EKGR--EEEFALYERIERLAPEVIAEERGIGKTVCANVDFYSGFVYKMLGIPQELYTPLFAVARIVGWCAHRIEELLNS-  394 (406)
T ss_pred             HCCC--CHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-
T ss_conf             6188--6279999999999999999874556898878016899999981979245479999999999999999997478-


Q ss_pred             CCCCCCCCCCCC
Q ss_conf             830045621058
Q gi|254780355|r  405 RRIGRPRQLYTG  416 (429)
Q Consensus       405 ~ri~RP~~~Y~G  416 (429)
                      ||||||+|+|||
T Consensus       395 nriiRP~~~YvG  406 (406)
T cd06113         395 GRIIRPAYKYVG  406 (406)
T ss_pred             CCEECCCCCCCC
T ss_conf             974588872679


No 13 
>cd06110 BSuCS-II_like Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains proteins similar to BsCS-II, the major CS of the gram-positive bacterium Bacillus subtilis. A mutation in the gene which encodes BsCS-II (citZ gene) has been described which resulted in a significant loss of CS activity, partial glutamate auxotrophy, and a sporulation deficiency, a
Probab=100.00  E-value=0  Score=893.44  Aligned_cols=356  Identities=37%  Similarity=0.624  Sum_probs=342.1

Q ss_pred             CCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             88786238787565433447778989931999975089899999998187999899999999886406899899999985
Q gi|254780355|r   44 PAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        44 pG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      -||.||++|+|+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+.++++++.+|+++.++++.
T Consensus         1 ~Gl~gv~~~~s~is~idg~~G~L~YRGy~i~~La~~~~fEeva~LLl~G~lP~~~el~~f~~~l~~~~~lp~~~~~~l~~   80 (356)
T cd06110           1 KGLEGVIAADSKISYIDGDAGILIYRGYDIHDLAENSTFEEVAYLLWNGELPTAEELDAFKAQLAAERELPAEIIDLLKL   80 (356)
T ss_pred             CCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
T ss_conf             99899716578681686898889898923999861699999999997899969999999999998767899989999985


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             12476525789999999875206855767878898889999999999999999972798534888642468877876428
Q gi|254780355|r  124 FPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       124 ~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      +|+++|||++|++++++|++++++..+. +++...+.++||+|++|+|+|++||+++|++++.|+++++|++|||+||++
T Consensus        81 ~p~~~hpm~~l~~~vs~l~~~~~~~~~~-~~~~~~~~a~~lia~~p~i~a~~~r~~~g~~~~~p~~~l~~a~nfl~ml~g  159 (356)
T cd06110          81 LPKDAHPMDVLRTAVSALALYDPEADDM-SREANLRKAIRLIAKMPTIVAAFHRIRNGLEPVAPDPDLSHAANFLYMLTG  159 (356)
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             7766663679999999987329545446-848999999986609999999999996799988999315499999987438


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      +     +|++..+++||++||||||||+||||||+||||||++|||+||+|||+||||||||||||+|++||++|+++++
T Consensus       160 ~-----~p~~~~~~~l~~~LiL~ADHe~NaSTfaaRvvaSt~ad~ysav~agi~aL~GPlHGGAn~~v~~ml~~i~~~~~  234 (356)
T cd06110         160 E-----KPSEEAARAFDVALILHADHELNASTFAARVVASTLSDMYSAVTAAIGALKGPLHGGANERVMKMLLEIGSVDN  234 (356)
T ss_pred             C-----CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHH
T ss_conf             8-----99989999999999997147777066888998468887378999999981687633589999999998488667


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999996115314579877844
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVD  363 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvD  363 (429)
                      +++||++++++++  |||||||||||++||||++|+++++++.+..+  ++++++++.++|+++.+     +|++|||||
T Consensus       235 v~~~i~~~l~~~~--~i~GFGHrvY~~~DPRa~~l~~~~~~l~~~~~--~~~l~~~a~~ie~~~~~-----~k~~~pNVD  305 (356)
T cd06110         235 VAAYVKDKLANKE--KIMGFGHRVYKTGDPRAKHLREMSRRLGKETG--EPKWYEMSEAIEQAMRD-----EKGLNPNVD  305 (356)
T ss_pred             HHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHH-----HHCCCCCHH
T ss_conf             9999999983789--88888876688889579999999999976038--85799999999999999-----858997818


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             78899999849996685899999999899999999970789830045621058
Q gi|254780355|r  364 FYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTG  416 (429)
Q Consensus       364 fysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G  416 (429)
                      ||||++|++||||++|||++|++||++||+|||+||+++  +|||||||+|||
T Consensus       306 fysg~l~~~lGip~~~~t~lFa~~R~~GW~AH~~Eq~~~--~~iiRP~~~YvG  356 (356)
T cd06110         306 FYSASVYYMLGIPVDLFTPIFAISRVSGWCAHILEQYFN--NRLIRPRAEYVG  356 (356)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCC
T ss_conf             899999999494945668999999999999999999728--987587770679


No 14 
>cd06117 Ec2MCS_like_1 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and OAA to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group contains proteins similar to the E. coli 2MCS, EcPrpC.  EcPrpC is one of two CS isozymes in the gram-negative E. coli. EcPrpC is a dimeric (type I ) CS; it is induced during growth on propionate and prefers PrCoA as a substrate, but has a partial CS activity with AcCoA. This group also includes Salmonella typhimurium PrpC and Ralstonia eutropha (Re) 2-MCS1 which are also induced during growth on propionate, prefer PrCoA as substrate, but can also can use AcCoA. Re 2-MCS1 at a low rate can use butyryl-CoA and valeryl-CoA. A second Ralstonia eu
Probab=100.00  E-value=0  Score=891.82  Aligned_cols=364  Identities=31%  Similarity=0.520  Sum_probs=344.3

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             87862387875654334477789899319999750898999999981879998999999998864068998999999851
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGF  124 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~  124 (429)
                      |+.++.+|||+||+|||++|+|+||||||+|||++++||||+||||+|+|||++|+++|+.+|++++.+|+.+.++++.+
T Consensus         2 GL~gv~~~~t~is~vdg~~g~L~YRGy~i~dLa~~~~fEEva~LLl~G~LP~~~el~~f~~~L~~~~~lp~~v~~~i~~l   81 (366)
T cd06117           2 ALSGVAAGNTALCTVGRSGNDLHYRGYDILDLAEKCEFEEVAHLLVHGKLPTKSELAAYKTKLKSLRGLPANVKTALEQL   81 (366)
T ss_pred             CCCCEEECCCCCCEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf             98985651123322508899899998659998614989999999978989599999999999998348989999999836


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCCCCHHHHHHHHHHHCC
Q ss_conf             2476525789999999875206855767878898889999999999999999972798-534888642468877876428
Q gi|254780355|r  125 PSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQ-PFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       125 p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~-~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      |+++|||++|+++|++|++++++..+. +.+...+.+.||+|++|+|++++|+++.+. ++..|.++++|++|||+|++|
T Consensus        82 p~~~hPm~~L~t~vs~l~~~~~~~~~~-~~~~~~~~a~~lia~~~~i~a~~~~~~~~g~~~~~~~~~~~~~~nfl~ml~g  160 (366)
T cd06117          82 PAAAHPMDVMRTGVSVLGCVLPEKEDH-PVSGARDIADRLMASLGSILLYWYHYSHNGKRIEVETDDDSIGGHFLHLLHG  160 (366)
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf             777884889999999985428432349-8489999999999988999999999980898578898643199999998669


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      .     ++++..+|+||++||||||||+||||||+|||+||++|+||||+|||+||||||||||||.|++|+++|+++++
T Consensus       161 ~-----~p~~~~~~~ld~~LiL~ADHe~NaSTFaaRvvaSt~adlysai~aai~aL~GPlHGGAne~v~~ml~~i~~~~~  235 (366)
T cd06117         161 E-----KPSESWEKAMHISLILYAEHEFNASTFTARVIAGTGSDMYSAITGAIGALRGPKHGGANEVAFEIQQRYESADE  235 (366)
T ss_pred             C-----CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHH
T ss_conf             9-----99889999999989887205687036889988616888899999999875788766668999999998378776


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999996115314579877844
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVD  363 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvD  363 (429)
                      +++||++++++|+  +||||||||||++||||++||++++++.++.+  +.++++++.++|+++.+     +|++|||||
T Consensus       236 ~~~~i~~~l~~~~--~i~GFGHrvYk~~DPRa~~lk~~~~~l~~~~~--~~~~~~i~~~ie~~~~~-----~k~l~pNvD  306 (366)
T cd06117         236 AEADIRRRVENKE--VVIGFGHPVYTIADPRNQVIKEVAKQLSKEGG--DMKMFDIAERLETVMWE-----EKKMFPNLD  306 (366)
T ss_pred             HHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHH-----HCCCCCCHH
T ss_conf             7999999861799--88787877688999368999999999875107--77599999999999998-----469987869


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             78899999849996685899999999899999999970789830045621058876870685
Q gi|254780355|r  364 FYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPL  425 (429)
Q Consensus       364 fysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi  425 (429)
                      ||||++|++||||+++||+||++||++||+|||+||+++  +|||||+++||||.+|+||||
T Consensus       307 fys~~l~~~lGip~d~ft~iFa~sR~~GW~AH~~Eq~~~--~~liRP~~~YvGp~~~~y~pi  366 (366)
T cd06117         307 WFSAVSYHMMGVPTAMFTPLFVIARTTGWSAHIIEQRQD--GKIIRPSANYTGPEDLKFVPI  366 (366)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCC
T ss_conf             999999999298856677999999999999999999756--996686550218999998889


No 15 
>cd06103 ScCS-like Saccharomyces cerevisiae (Sc) citrate synthase (CS)-like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS proteins function as 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homo
Probab=100.00  E-value=0  Score=890.97  Aligned_cols=375  Identities=29%  Similarity=0.416  Sum_probs=338.8

Q ss_pred             CCCEEECCCCCC---CEEEECC---CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHH---------CCHHHHHHHHH
Q ss_conf             751010011558---6189888---87862387875654334477789899319999750---------89899999998
Q gi|254780355|r   26 SSVLDISFLHKN---GIFTYDP---AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEK---------SDFLEVCYLLL   90 (429)
Q Consensus        26 ~~~~d~~~l~~~---G~~~~dp---G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~---------~sFeEVayLLl   90 (429)
                      +...++++.+.+   |.+|+||   |+.+|.+|.|.||||||++|+ +||||+|+||+++         ..||||+||||
T Consensus        14 ~~~~~l~~~~g~~~ig~~Tv~~~~gGmrg~~~~~~eis~iD~~~Gi-~yRGy~I~el~e~~~~~~~~~~~~fEevayLLl   92 (426)
T cd06103          14 ARIKELRKKYGNTKLGQITVDQVIGGMRGMKGLVYETSVLDPDEGI-RFRGKTIPECQELLPKADGGGEPLPEGLFWLLL   92 (426)
T ss_pred             HHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEECEEECCCCCE-EECCCCHHHHHHHCCCCCCCCCCCHHHHHHHHH
T ss_conf             9999999985997420166453225314786100007478576533-579964999997563445788885899999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH------HCCCCC--CCCHHHHHHHHH
Q ss_conf             187999899999999886406899899999985124765257899999998752------068557--678788988899
Q gi|254780355|r   91 HGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSF------YYSPSG--VQDLEQCVNVSL  162 (429)
Q Consensus        91 ~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~------~~~~~~--~~d~~~~~~~a~  162 (429)
                      ||+|||++|+++|+.+|++++.+|+++.+++++||+++|||++|+++|++|+++      |.+...  ...++..++.++
T Consensus        93 ~GeLPt~~el~~f~~~l~~~~~lp~~v~~~l~~~P~~aHPM~~L~~~vsaL~~~s~f~~~y~~~~~~~~~~~e~~~~~~~  172 (426)
T cd06103          93 TGEVPTEEQVDELSKEWAKRAEVPSHVVKMIDNLPRNLHPMTQLSAAILALQSESKFAKAYAEGKINKTTYWEYVYEDAM  172 (426)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCHHHHCCCCCCCCCHHHHHHHHHHH
T ss_conf             08798999999999999982689899999998589879909999999998435530243237434574036788899999


Q ss_pred             HHHHHHHHHHHHHHHHH--CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCC-CCHHHHHH
Q ss_conf             99999999999999972--7985348886424688778764289841014796999998756350136787-63015555
Q gi|254780355|r  163 RMIAKISTIAAMIYKYS--IGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQ-NASTSTVR  239 (429)
Q Consensus       163 rLiA~~p~i~A~~yr~~--~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~-NaSTft~R  239 (429)
                      |||||+|+|+|++||++  .|.++++||++++|++|||+||+       .+++..+++||++||||||||+ ||||||+|
T Consensus       173 ~LiAk~PtIaA~~Yr~~~~~g~~~~~~d~~l~~a~NFl~Ml~-------~~~~~~~~~ld~~liLHADHE~gNaSTft~r  245 (426)
T cd06103         173 DLIAKLPVVAAKIYRRKYRKGGEIGAIDSKLDWSANFAHMLG-------YEDEEFTDLMRLYLTLHSDHEGGNVSAHTSH  245 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCC-------CCCHHHHHHHHHHHHHHHHCCCCCCCHHHHH
T ss_conf             999998999999999993789987889986559999999808-------9982899999999989643148872057776


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHC----C---CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCC
Q ss_conf             442056542467767554210022203528999998621----5---535127999999821478614302774355554
Q gi|254780355|r  240 LAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEI----G---SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHD  312 (429)
Q Consensus       240 ~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I----~---~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~D  312 (429)
                      +|+||+||||+||+|||+||||||||||||+|++||.+|    |   +.+++++|+++.+++++  +||||||||||++|
T Consensus       246 vv~St~sD~ysaisAai~aL~GPLHGGANe~Vl~ml~~i~~~~g~~~s~e~v~~~v~~~l~~~~--~imGfGHrVYk~~D  323 (426)
T cd06103         246 LVGSALSDPYLSFSAALNGLAGPLHGLANQEVLKWLLKMQKELGKDVSDEELEKYIWDTLNSGR--VVPGYGHAVLRKTD  323 (426)
T ss_pred             HHHCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCC--CCCCCCCCCCCCCC
T ss_conf             6634688799999999887158876772899999999999872888888999999999871699--43267876577899


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH--HHHCCCCCCCCCCCHHHHHHHHHCCCC-HHHHHHHHHHHHH
Q ss_conf             0346899999998886087765179999999999961--153145798778447889999984999-6685899999999
Q gi|254780355|r  313 PRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALE--DEYFIERKLYPNVDFYSGITLRALGFP-TNLFTVLFAVART  389 (429)
Q Consensus       313 PRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~--d~~~~~r~l~pNvDfysg~i~~~lGip-~~~ft~iFa~~R~  389 (429)
                      |||+++|+++.++++     ++|+++++.++++++.+  +++|+.|+||||||||||++|++|||| ++|||||||+||+
T Consensus       324 PRa~ilk~~a~~~~~-----~d~~~~l~~~l~~i~~~~l~e~~~~k~lyPNVDfySG~iy~~lGipe~~~fT~lFaisR~  398 (426)
T cd06103         324 PRFTCQREFALKHLP-----DDPLFKLVAQCYKIIPGVLKEHGKVKNPYPNVDAHSGVLLQHYGMTEPQYYTVLFGVSRA  398 (426)
T ss_pred             CHHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             469999999998648-----884899999999999999998563479988837578999998499930122699999999


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             899999999970789830045621058
Q gi|254780355|r  390 AGWVSQWTEMIVDPSRRIGRPRQLYTG  416 (429)
Q Consensus       390 ~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G  416 (429)
                      +||+|||+||+... .+|.||||+|+.
T Consensus       399 ~GW~Ah~iw~r~~~-~pI~RPrsi~~~  424 (426)
T cd06103         399 LGVLAQLVWSRALG-LPIERPKSMSTE  424 (426)
T ss_pred             HHHHHHHHHHHHCC-CCCCCCCCCCCC
T ss_conf             99999999999669-998899866447


No 16 
>TIGR01798 cit_synth_I citrate synthase I; InterPro: IPR010953   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 represents type II homohexameric citrate synthase enzymes, which are predominantly found in Gram-negative bacteria . These enzymes are allosterically inhibited by NADH in Escherichia coli, Acinetobacter calcoaceticus subsp. anitratus, Azotobacter vinelandii, Pseudomonas aeruginosa, etc . However, other type II enzymes in this entry do not display allosteric regulation. ; GO: 0004108 citrate (Si)-synthase activity, 0044262 cellular carbohydrate metabolic process, 0005737 cytoplasm.
Probab=100.00  E-value=0  Score=897.77  Aligned_cols=411  Identities=65%  Similarity=1.132  Sum_probs=404.8

Q ss_pred             CEEEEEEEECCCCCCCCEEECCCC-CCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHH
Q ss_conf             989997523077787510100115-5861898888786238787565433447778989931999975089899999998
Q gi|254780355|r   12 HEEIDLPIKEGSLGSSVLDISFLH-KNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLL   90 (429)
Q Consensus        12 ~~~~~lpi~~~~~~~~~~d~~~l~-~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl   90 (429)
                      ++++||||.++++|+++||+++|. +.|.++|||||.+|++|+|+||||||++|+|.||||+|++||++++|.||||||+
T Consensus         1 ~~~~~l~~~~~~~G~~v~d~~~l~~~~G~f~~d~Gf~~ta~C~s~it~idG~~G~l~~rGy~i~~la~~~~~le~Cylll   80 (413)
T TIGR01798         1 NKEVELPIYSGTLGKDVIDIKKLYKNSGLFTFDPGFTSTASCESKITFIDGDKGILLYRGYPIDQLAEKSDYLEVCYLLL   80 (413)
T ss_pred             CCCCEEEECCCCCCCHHHHHHHHHHCCCCEEECCCCCEECCCCEEEEEEECCCCEEEECCCCHHHHHHCCCHHHHHHHHH
T ss_conf             97510000134346204557778630674332355320022330357864675256544743788850133555556555


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             18799989999999988640689989999998512476525789999999875206855767878898889999999999
Q gi|254780355|r   91 HGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKIST  170 (429)
Q Consensus        91 ~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~  170 (429)
                      +|++|+++|.++|..++.+|+.+++++..++.+|.+++|||+++...|.+|++||++..++.++.++.-...|||+|+|+
T Consensus        81 ~~~~P~~~~~~~f~~~~~~ht~v~~q~~~~~~~f~~dahPma~~~~~~Gal~afy~~~~~i~~~~~r~~~~~rl~~k~Pt  160 (413)
T TIGR01798        81 NGELPTKEQKDEFDDKVKEHTMVHEQLTRFFRGFRRDAHPMAVMVGVVGALSAFYHDALDINDPKHREIAAIRLIAKIPT  160 (413)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             14788556789999999987899999999999731135347889999988998764432012134568999999874368


Q ss_pred             HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCC-CCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHH
Q ss_conf             999999972798534888642468877876428984101-4796999998756350136787630155554420565424
Q gi|254780355|r  171 IAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEY-QVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPF  249 (429)
Q Consensus       171 i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~-~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adly  249 (429)
                      ++|..|++..|+|+++|+.+++|++|||+|+|..+.+++ +++|...++||+++|||||||+|+||.|+|+++|++++|+
T Consensus       161 ~~a~~y~y~~G~P~~yP~~~l~y~~nfl~m~f~~~~~~~~~~~P~l~~a~d~i~~lhadheqnast~tvr~aGs~~~nP~  240 (413)
T TIGR01798       161 LAAMSYKYSIGQPFVYPRNDLSYAENFLHMMFATPCEEYYKVNPVLARALDRIFILHADHEQNASTSTVRLAGSSGANPF  240 (413)
T ss_pred             HHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEECCCCCCCHH
T ss_conf             88876632168853152144568889999876033222224561689875455112023111233222453146676437


Q ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             67767554210022203528999998621553512799999982147861430277435555403468999999988860
Q gi|254780355|r  250 ACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVT  329 (429)
Q Consensus       250 sai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~  329 (429)
                      +||+|||++||||.||||||++++||++|++.+++.+|+.+++++++.+|||||||||||++||||++|++.|.+++++.
T Consensus       241 a~i~aGi~~lWG~ahGGanea~l~ml~~i~~~~~~~~~~~~~k~~~~~~~lmGfGhrvy~n~dPra~~~~~~C~~vl~~~  320 (413)
T TIGR01798       241 ACIAAGIAALWGPAHGGANEAVLKMLEEIGSVEKIAEFIKKVKDKNDEVRLMGFGHRVYKNYDPRAKVMRETCHEVLKEL  320 (413)
T ss_pred             HHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCEEEEEECHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             88886577630466774568999999852027789999999740346635553021312047827899999999999972


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             87765179999999999961153145798778447889999984999668589999999989999999997078983004
Q gi|254780355|r  330 GRFNDPIAQVAIELERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGR  409 (429)
Q Consensus       330 ~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~R  409 (429)
                      |..+++.+++|.+||+++++|+||++|+||||||||||+++.++|||.+|||+||+++|++||++||.|+..++..+|.|
T Consensus       321 G~~~~~~~~~a~~le~ial~d~yf~~~klyPnvdfysG~~~~a~G~P~~mft~~fal~r~vGWi~~W~em~~~~~~~~~r  400 (413)
T TIGR01798       321 GKEDDPLLKLALELEKIALEDDYFIERKLYPNVDFYSGIILKALGIPTEMFTVIFALARTVGWISHWSEMISDPEQKIGR  400 (413)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHCCC
T ss_conf             33320578899889876305620100024666114666898861574689999999985444688788863164001025


Q ss_pred             CCCCCCCCCCCCC
Q ss_conf             5621058876870
Q gi|254780355|r  410 PRQLYTGALKRDY  422 (429)
Q Consensus       410 P~~~Y~G~~~r~y  422 (429)
                      |||+|+|...|++
T Consensus       401 Prqly~G~~~r~~  413 (413)
T TIGR01798       401 PRQLYTGEEKRDV  413 (413)
T ss_pred             CHHHHCCCHHCCC
T ss_conf             2455346221169


No 17 
>cd06105 ScCit1-2_like Saccharomyces cerevisiae (Sc) citrate synthases Cit1-2_like. Citrate synthases (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) with oxaloacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). Some CS proteins function as 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-neg
Probab=100.00  E-value=0  Score=887.74  Aligned_cols=368  Identities=31%  Similarity=0.450  Sum_probs=336.6

Q ss_pred             CCEEEECCCCCCEEEEEEEEE---EEECCCCEEEECCEEHHHHHHHC---------CHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             861898888786238787565---43344777898993199997508---------989999999818799989999999
Q gi|254780355|r   37 NGIFTYDPAFSSTASCKSKIT---FIDGNNGILLYRGYPIEQLSEKS---------DFLEVCYLLLHGELANVSQQKDFN  104 (429)
Q Consensus        37 ~G~~~~dpG~~~ta~ceS~IT---~IDG~~G~L~YRGY~IedLa~~~---------sFeEVayLLl~GeLPt~~el~~F~  104 (429)
                      +|.+|+||||.||.+|+|.||   ||||++|| +||||+|+||+++.         .+|||+||||||+|||++||++|+
T Consensus        28 ~g~iT~~~~~gg~rg~~~~i~e~S~lD~e~GI-ryRGy~I~el~e~l~~~~~~~~~~~EeV~yLLl~GeLPt~~ql~~f~  106 (427)
T cd06105          28 VGEVTVDMVYGGMRGIKGLVWETSVLDPEEGI-RFRGLSIPECQKLLPKAPGGEEPLPEGLFWLLLTGEVPTKEQVSALS  106 (427)
T ss_pred             EEEEECCHHHCCCCCCCCCEECCEEECCCCCE-EECCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             45465163325666888312247137435484-57897589999875457788888789999999818798999999999


Q ss_pred             HHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH------HCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             9886406899899999985124765257899999998752------068557-678788988899999999999999999
Q gi|254780355|r  105 DKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSF------YYSPSG-VQDLEQCVNVSLRMIAKISTIAAMIYK  177 (429)
Q Consensus       105 ~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~------~~~~~~-~~d~~~~~~~a~rLiA~~p~i~A~~yr  177 (429)
                      .+|++++.+|+++.++|++||+++|||++|+++|++|++.      +.+... ...++..++.++||||++|+|+|++||
T Consensus       107 ~~l~~~~~lp~~v~~~i~~~P~~~HPM~~L~~~vsaL~~~s~f~~~y~~~~~~~~~~e~~~e~~~~LiAk~Pti~A~~yr  186 (427)
T cd06105         107 KEWAARAALPSHVVTMLDNFPTNLHPMSQLSAAITALNSESKFAKAYAEGIHKSKYWEYVYEDSMDLIAKLPCVAAKIYR  186 (427)
T ss_pred             HHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99998458869999999858998886999999999844665213330012552014666789999999999999999999


Q ss_pred             HH-CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCC-CCCHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             72-798534888642468877876428984101479699999875635013678-7630155554420565424677675
Q gi|254780355|r  178 YS-IGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHE-QNASTSTVRLAGSSGADPFACIAAG  255 (429)
Q Consensus       178 ~~-~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe-~NaSTft~R~vaSt~adlysai~ag  255 (429)
                      +. .|.++++||++++|++|||+||+.       .+|..+++||.+|||||||| +||||||+|+|+||+||+|+||+||
T Consensus       187 ~~~~g~~~~~pd~~l~~a~NFl~Ml~~-------~~p~~~~~l~~~liLHADHEG~N~ST~t~rvvgStlsd~ysaiaag  259 (427)
T cd06105         187 NLYRGGKIIAIDSNLDWSANFANMLGY-------TDPQFTELMRLYLTIHSDHEGGNVSAHTTHLVGSALSDPYLSFAAA  259 (427)
T ss_pred             HHHCCCCCCCCCCCCCHHHHHHHHCCC-------CCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCHHHHHHHH
T ss_conf             985699978999887899999998279-------9940999999999997650378700678888862587488999998


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHC----C---CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             54210022203528999998621----5---5351279999998214786143027743555540346899999998886
Q gi|254780355|r  256 VACLGGRAHGGANEEALNMLMEI----G---SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEV  328 (429)
Q Consensus       256 i~aL~GPlHGGAne~v~~ml~~I----~---~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~  328 (429)
                      |+||||||||||||+|++||++|    |   +++++++||++.+++++  |||||||||||++|||++++|+++.+++. 
T Consensus       260 i~aL~GPLHGGANq~Vl~ml~~i~~~~G~~~s~e~v~~~v~~~l~~~~--~imGfGHrVYk~~DPRa~ilk~~a~~~~~-  336 (427)
T cd06105         260 MNGLAGPLHGLANQEVLVWLTKLQKEVGKDVSDEQLREYVWKTLNSGR--VVPGYGHAVLRKTDPRYTCQREFALKHLP-  336 (427)
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHCC-
T ss_conf             887068765675899999999999971888878999999998654698--42478866478999548999999998648-


Q ss_pred             CCCCCCHHHHHHHHHHHHH--HHHHHCCCCCCCCCCCHHHHHHHHHCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf             0877651799999999999--61153145798778447889999984999-66858999999998999999999707898
Q gi|254780355|r  329 TGRFNDPIAQVAIELERIA--LEDEYFIERKLYPNVDFYSGITLRALGFP-TNLFTVLFAVARTAGWVSQWTEMIVDPSR  405 (429)
Q Consensus       329 ~~~~~~~~~~~a~~le~~a--~~d~~~~~r~l~pNvDfysg~i~~~lGip-~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~  405 (429)
                          +||+++++.++|+++  ..+++|+.|++|||||||||++|+++||| .+||||||++||++||+|||+|++... .
T Consensus       337 ----~d~~~~ia~~leeia~~~~~e~~~~k~~yPNVDfySG~iy~~lGipe~~~fT~lFaisR~~Gw~Ah~iw~r~~~-~  411 (427)
T cd06105         337 ----NDPLFKLVSQLYKIVPPVLTEQGKAKNPWPNVDAHSGVLLQYYGLTEMNYYTVLFGVSRALGVLSQLIWDRALG-L  411 (427)
T ss_pred             ----CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC-C
T ss_conf             ----88399999999999999999853026998773656899999849997433328999999999999999999648-9


Q ss_pred             CCCCCCCCCCCCCCC
Q ss_conf             300456210588768
Q gi|254780355|r  406 RIGRPRQLYTGALKR  420 (429)
Q Consensus       406 ri~RP~~~Y~G~~~r  420 (429)
                      +|.||||+|||+..|
T Consensus       412 pI~RPrsiytg~l~~  426 (427)
T cd06105         412 PLERPKSVSTDGLEK  426 (427)
T ss_pred             CCCCCCCCCCCHHHC
T ss_conf             988988665307534


No 18 
>cd06108 Ec2MCS_like Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and OAA to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). This group contains proteins similar to the E. coli 2MCS, EcPrpC.  EcPrpC is one of two CS isozymes in the gram-negative E. coli. EcPrpC is a dimeric (type I ) CS; it is induced during growth on propionate and prefers PrCoA as a substrate though it has partial CS activity with AcCoA. This group also includes Salmonella typhimurium PrpC and Ralstonia eutropha (Re) 2-MCS1 which are also induced during growth on propionate and prefer PrCoA as substrate, but can also use AcCoA. Re 2-MCS1 can use butyryl-CoA and valeryl-CoA at a lower rate. A second Ralstonia eutropha 2MC
Probab=100.00  E-value=0  Score=880.32  Aligned_cols=361  Identities=31%  Similarity=0.536  Sum_probs=342.5

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             87862387875654334477789899319999750898999999981879998999999998864068998999999851
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGF  124 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~  124 (429)
                      ||.||++|||+||+|||++|.|+||||||+||+++++||||+||||+|+|||++|+++|+.+|..++.+|+.+.++++.+
T Consensus         2 Gl~gv~~~et~is~id~~~g~L~YRGy~i~dLa~~~sfEEva~LL~~G~lP~~~el~~f~~~l~~~~~lp~~v~~~~~~~   81 (363)
T cd06108           2 GLAGVVAGQTAISTVGKGGKGLTYRGYDIEDLAENATFEEVAYLLLYGKLPTRKQLDAYKTKLVALRRLPAALKTVLELI   81 (363)
T ss_pred             CCCCCEEEEEECEEEECCCCEEEECCEEHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf             98983375767805738999789989119998605999999999976979699999999999998369979999999747


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             24765257899999998752068557678788988899999999999999999727-98534888642468877876428
Q gi|254780355|r  125 PSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSI-GQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       125 p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~-G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      |+++|||++|++++++|++++++.    +++...+.++||+|++|+|++++||++. |.++..|+++++|++|||+|+++
T Consensus        82 p~~~~pm~~l~~~vs~l~~~~~~~----~~~~~~~~a~~lia~~p~i~a~~~~~~~~~~~~~~~~~~~~~a~nfl~ml~g  157 (363)
T cd06108          82 PKDSHPMDVMRTGCSMLGCLEPEN----EFSQQYEIAIRLLAIFPSILLYWYHYSHSGKRIETETDEDSIAGHFLHLLHG  157 (363)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCC----CCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             667777999999999972858778----8188999999999998799999999982899888998310389999998508


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      .     ++++..+|+||++||||||||+|+||||+||++||++|+|+||+|||+||||||||||||+|++||++|+++++
T Consensus       158 ~-----~p~~~~~~~ld~~LiL~ADHe~NaSTFtaRvvaST~ad~ysav~aai~aL~GPlHGGA~~~v~~~l~ei~~~~~  232 (363)
T cd06108         158 K-----KPGELEIKAMDVSLILYAEHEFNASTFAARVTASTLSDFYSAITGAIGTLRGPLHGGANEAAMELIERFKSPEE  232 (363)
T ss_pred             C-----CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCHHH
T ss_conf             9-----99789999999999887116787357888988547878899999999874687545757899999997288778


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999996115314579877844
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVD  363 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvD  363 (429)
                      +++||++++++|+  |||||||||||++||||++|+++++++.+..+  +.++++++.++|+++.+     +|++|||||
T Consensus       233 ~~~~i~~~l~~~~--~i~GfGHrvYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~~~~ie~~~~~-----~k~l~pNVD  303 (363)
T cd06108         233 AEQGLLEKLERKE--LIMGFGHRVYKEGDPRSDIIKKWSKKLSEEGG--DPLLYQISERIEEVMWE-----EKKLFPNLD  303 (363)
T ss_pred             HHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHH-----CCCCCCCHH
T ss_conf             9999999984678--77666864367899479999999999986149--84799999999999986-----389996829


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCH
Q ss_conf             78899999849996685899999999899999999970789830045621058876870685
Q gi|254780355|r  364 FYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRDYVPL  425 (429)
Q Consensus       364 fysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi  425 (429)
                      ||||++|++||||.++||+||++||++||+|||+||+++  +||||||++||||.+|+|+||
T Consensus       304 fys~~l~~~lGip~~~~t~iFa~sR~~GW~AH~~Eq~~~--~~liRP~~~YvG~~~r~y~p~  363 (363)
T cd06108         304 FYSASAYHFCGIPTELFTPIFVMSRVTGWAAHIMEQRAN--NRLIRPSADYIGPEPRPFVPI  363 (363)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCC
T ss_conf             899999999298866788999999999999999999747--985487650359999999989


No 19 
>pfam00285 Citrate_synt Citrate synthase.
Probab=100.00  E-value=0  Score=878.75  Aligned_cols=352  Identities=46%  Similarity=0.767  Sum_probs=340.6

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             87862387875654334477789899319999750898999999981879998999999998864068998999999851
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGF  124 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~  124 (429)
                      ||.||.+|+|+||+|||++|+|+||||+|+||+++++||||+||||+|+|||++|+++|+.++.+++.+|+.+.++++.|
T Consensus         1 Gl~gv~~~~s~is~iDg~~G~L~YRGy~i~dLa~~~sfEeva~LL~~G~lP~~~el~~f~~~l~~~~~lp~~~~~~l~~~   80 (352)
T pfam00285         1 GLRGVVACETEISYIDGEKGILRYRGYDIEDLAEKSSFEEVAYLLLYGELPTAEELAEFSSELAARRALPEDVKEVIDAL   80 (352)
T ss_pred             CCCCCEEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf             99998155674826747888798889149998725999999999977989699999999999987147987899999867


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf             24765257899999998752068557678788988899999999999999999727985348886424688778764289
Q gi|254780355|r  125 PSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSV  204 (429)
Q Consensus       125 p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~  204 (429)
                      |+++|||++|++++++|++++++..+ .+++...+.++||+|++|+|+|++||+++|++++.|+++++|++|||+|+++.
T Consensus        81 p~~~hpm~~L~~~vs~l~~~~~~~~~-~~~~~~~~~a~~lia~~p~i~a~~~r~~~g~~~~~p~~~~~~a~nfl~ml~~~  159 (352)
T pfam00285        81 PKDAHPMAVLRAAVSALAAYDPMLYD-ESPEDVLEDAIRLIAKLPTIAAAIYRHRKGLPPIAPDPDLSYAENFLYMLFGE  159 (352)
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf             88888399999999997601866557-99899999999999888999999999977999889995043999999983688


Q ss_pred             CCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHH
Q ss_conf             84101479699999875635013678763015555442056542467767554210022203528999998621553512
Q gi|254780355|r  205 PCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLERI  284 (429)
Q Consensus       205 ~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v  284 (429)
                           +++|..+++||++||||||||+||||||+|||+||++|+|+||+|||+||||||||||||+|++||++|++++++
T Consensus       160 -----~~~~~~~~~l~~~LiL~ADHe~NaSTfaaRvvaSt~ad~ys~v~agi~aL~GPlHGGAn~~v~~ml~~i~~~~~~  234 (352)
T pfam00285       160 -----EPDPEEARALDLALILHADHELNASTFTARVVASTLSDLYSAISAAIGALKGPLHGGANEAVLEMLEEIGSPENV  234 (352)
T ss_pred             -----CCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCHHH
T ss_conf             -----999899999999999983067880499999998258878999999998634865556689999999995581668


Q ss_pred             HHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCH
Q ss_conf             79999998214786143027743555540346899999998886087765179999999999961153145798778447
Q gi|254780355|r  285 PHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVDF  364 (429)
Q Consensus       285 ~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDf  364 (429)
                      ++||++++++++  |||||||||||++||||++|+++++++.++.+  ++++++++.++|+++.++  +.+||+||||||
T Consensus       235 ~~~i~~~l~~~~--~i~GFGHrvYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~a~~~e~~~~~~--~~~~~l~pNvDf  308 (352)
T pfam00285       235 EEYIEKALDKGE--RLMGFGHRVYKTYDPRARILKKFARELAAELG--DDPLLEIAEKIEEVALED--LKEKKLYPNVDF  308 (352)
T ss_pred             HHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHH--HHHCCCCCCHHH
T ss_conf             999999984689--77678976688899569999999999998559--855999999999999999--985699978288


Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             8899999849996685899999999899999999970789830045
Q gi|254780355|r  365 YSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRP  410 (429)
Q Consensus       365 ysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP  410 (429)
                      |+|++|++||||.++||+||++||++||+|||+||+++  +|||||
T Consensus       309 ys~~l~~~lGip~~~~t~lFa~sR~~GW~AH~~Eq~~~--~~liRP  352 (352)
T pfam00285       309 YSGVLYKALGIPTELFTPLFAVSRVVGWLAHIIEQREN--NKLIRP  352 (352)
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCC
T ss_conf             99999998198935557999999999999999999857--988797


No 20 
>cd06118 citrate_synt_like_1 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and 
Probab=100.00  E-value=0  Score=876.48  Aligned_cols=358  Identities=46%  Similarity=0.743  Sum_probs=344.8

Q ss_pred             CCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             88786238787565433447778989931999975089899999998187999899999999886406899899999985
Q gi|254780355|r   44 PAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        44 pG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      |||.||.+|+|+||+|||++|+|+||||+|+||+++++||||+||||+|+|||++|+++|+.++.+++.+|+.+.++++.
T Consensus         1 pGl~gv~~~~t~is~id~~~G~L~YRG~~i~dLa~~~~fEeva~LL~~G~lP~~~el~~f~~~l~~~~~lp~~v~~~l~~   80 (358)
T cd06118           1 PGLEGVKAKETSISYIDGDEGILRYRGYDIEELAEKSSFEEVAYLLLYGKLPTKEELAEFKKKLASHRALPEHVVEILDL   80 (358)
T ss_pred             CCCCCCCEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99898733467570686898879888904999860599999999997898979999999999999844675999999996


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             12476525789999999875206855767878898889999999999999999972798534888642468877876428
Q gi|254780355|r  124 FPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       124 ~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      +|+++|||++|++++++|++++++..+ .+++...+.+++|+|++|+|+|++||+++|.+++.|+++++|++|||+||++
T Consensus        81 ~p~~~~pm~~l~~~v~~l~~~~~~~~~-~~~~~~~~~a~~lia~~p~i~a~~~~~~~g~~~~~p~~~~~~a~nfl~ml~g  159 (358)
T cd06118          81 LPKNAHPMDVLRTAVSALGSFDPFARD-KSPEARYEKAIRLIAKLPTIAANIYRNREGLEIIAPDPDLSYAENFLYMLFG  159 (358)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             257865488999999998732865446-9989999999998625889999999995699887889415399999997538


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      .     ++++..+++||++||||||||+||||||+||++||++|+|+||+|||+|||||||||||++|++||++|+++++
T Consensus       160 ~-----~~~~~~~~~l~~~LiL~ADHe~NaSTfa~RvvaSt~ad~ysav~agl~aL~GPlHGgAn~~v~~~l~~i~~~~~  234 (358)
T cd06118         160 E-----EPDPEEAKAMDLALILHADHEGNASTFTARVVASTLSDMYSAIAAAIAALKGPLHGGANEAVLKMLLEIGTPEN  234 (358)
T ss_pred             C-----CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHH
T ss_conf             9-----99999999999989786257887059999999823678899999999981686541578999999999688565


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999996115314579877844
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVD  363 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvD  363 (429)
                      +++||++.+++++  |||||||||||++||||.+|+++++++.++.+  ++++++++.++|+++.+.  +..||++||||
T Consensus       235 ~~~~i~~~l~~~~--~i~GFGHrvYk~~DPRa~~l~~~~~~l~~~~~--~~~~~~~~~~ie~~~~~~--~~~r~l~pNvD  308 (358)
T cd06118         235 VEAYIWKKLANKR--RIMGFGHRVYKTYDPRAKILKELAEELAEEKG--DDKLFEIAEELEEIALEV--LGEKGIYPNVD  308 (358)
T ss_pred             HHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHH--HCCCCCCCCHH
T ss_conf             8999999740467--77787876578899558999999999875038--876999999999999986--47689987739


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             788999998499966858999999998999999999707898300456210
Q gi|254780355|r  364 FYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLY  414 (429)
Q Consensus       364 fysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y  414 (429)
                      ||+|++|+++|||+++||++|++||++||+|||+||++++ .||||||++|
T Consensus       309 fy~~~l~~~lgip~~~~t~lFa~aR~~Gw~AH~~Eq~~~~-~kiiRP~~~Y  358 (358)
T cd06118         309 FYSGVVYKALGFPTELFTPLFAVSRAVGWLAHIIEYRENN-QRLIRPRAEY  358 (358)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCC
T ss_conf             8999999993979566789999999999999999999679-9844888879


No 21 
>cd06109 BsCS-I_like Bacillus subtilis (Bs) citrate synthase CS-I_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and OAA to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. This group contains proteins similar to BsCS-I, one of two CS isozymes in the gram-positive B. subtilis. The majority of CS activity in B. subtilis is provided by the other isozyme, BsCS-II (not included in this group). BsCS-
Probab=100.00  E-value=0  Score=869.15  Aligned_cols=347  Identities=31%  Similarity=0.516  Sum_probs=329.8

Q ss_pred             CCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             88786238787565433447778989931999975089899999998187999899999999886406899899999985
Q gi|254780355|r   44 PAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        44 pG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      |||.||++|||+||+|||++|+|+||||||+||+++++||||+||||+|+|||++|+++|+..+++++.+|+.+.++++.
T Consensus         1 PGl~gv~v~~s~Is~idg~~G~L~YRG~~i~dLa~~~~fEeva~LL~~G~lPt~~el~~f~~~l~~~~~lp~~~~~~~~~   80 (349)
T cd06109           1 PGLEGVVAAETVLSDVDGEAGRLIIRGYSVEDLAGSASFEDVAALLWNGFFPDLPELEEFRAALAAARALPDVVAALLPA   80 (349)
T ss_pred             CCCCCCEEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99898505577682563899889898911999972499999999996898979899999999999723674999999974


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             12476525789999999875206855767878898889999999999999999972798534888642468877876428
Q gi|254780355|r  124 FPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       124 ~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                      + +..|||+++++++++++.           +...+.++||+|++|+|+|++||++.|++++.|+++++|++|||+||++
T Consensus        81 ~-~~~~pm~~l~~~~s~l~~-----------~~~~~~a~~liA~~p~i~a~~~r~~~g~~~~~p~~~~~~a~nfl~ml~g  148 (349)
T cd06109          81 L-AGLDPMDALRALLALLPD-----------SPDLATALRLLAAAPVITAALLRLSRGKQPIAPDPSLSHAADYLRMLTG  148 (349)
T ss_pred             C-CCCCHHHHHHHHHHHCCC-----------CCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCC
T ss_conf             6-456869999999885598-----------5428999999989999999999997699988998530489999987238


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCH
Q ss_conf             98410147969999987563501367876301555544205654246776755421002220352899999862155351
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLER  283 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~  283 (429)
                      .     ++++..+++||++||||||||+||||||+||+|||++|+|+||+|||+||||||||||||+|++||++|+++++
T Consensus       149 ~-----~~~~~~~~~ld~~liL~ADHe~NaSTftarvvAST~ad~ys~v~aai~aL~GPlHGgA~~~v~~~l~ei~~~~~  223 (349)
T cd06109         149 E-----PPSEAHVRALDAYLVTVADHGMNASTFTARVIASTEADLTSAVLGAIGALKGPLHGGAPGPVLDMLDAIGTPEN  223 (349)
T ss_pred             C-----CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHH
T ss_conf             9-----99999999999999998215665057777887515753999999888634788657767999999999588346


Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH--HHHCCCCCCCCC
Q ss_conf             279999998214786143027743555540346899999998886087765179999999999961--153145798778
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALE--DEYFIERKLYPN  361 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~--d~~~~~r~l~pN  361 (429)
                      +++||++++++++  |||||||||||++|||+++|+++++++..     ++++++++.++|+++.+  +++|..|+||||
T Consensus       224 ~~~~i~~~l~~~~--~i~GfGHrvY~~~DPRa~~l~~~~~~l~~-----~~~~~~~~~~i~~~a~~~l~~~~~~~~l~pN  296 (349)
T cd06109         224 AEAWLREALARGE--RLMGFGHRVYRVRDPRADVLKAAAERLGA-----PDERLEFAEAVEQAALALLREYKPGRPLETN  296 (349)
T ss_pred             HHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHCC-----CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             9999999983578--75378988789999449999999998737-----8728999999999999999984577898748


Q ss_pred             CCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             4478899999849996685899999999899999999970789830045621058
Q gi|254780355|r  362 VDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTG  416 (429)
Q Consensus       362 vDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G  416 (429)
                      ||||+|++|++||||+++||+||++||++||+|||+||+.+  +||||||++|||
T Consensus       297 VDf~s~~l~~~lG~p~~~~t~lFa~~R~~GW~AH~~Eq~~~--~~liRP~~~YvG  349 (349)
T cd06109         297 VEFYTALLLEALGLPREAFTPTFAAGRTAGWTAHVLEQART--GRLIRPQSRYVG  349 (349)
T ss_pred             CHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCC
T ss_conf             27889999998198855667999999999999999999867--997588780679


No 22 
>PRK09569 type I citrate synthase; Reviewed
Probab=100.00  E-value=0  Score=860.78  Aligned_cols=359  Identities=28%  Similarity=0.418  Sum_probs=327.7

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHH---------HHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf             87862387875654334477789899319999---------750898999999981879998999999998864068998
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQL---------SEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNE  115 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedL---------a~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe  115 (429)
                      |+.++.+|-|.||||||++|| +||||+|+||         ++..+||||+||||||+|||++|+++|+.++++++.+|+
T Consensus        41 Gmrg~~~~~~~~S~lD~~~GI-ryRGy~I~el~~~lp~a~~~~~~~fEev~yLLl~GeLPt~~ql~~f~~~l~~~~~lp~  119 (437)
T PRK09569         41 GARDIRSLVTDISYLDPQEGI-RFRGKTIPETFEALPKAPGSEYPTVESFWYFLLTGEVPTPEQVSEVVAEFKTRQNVPQ  119 (437)
T ss_pred             CCCCCCEEEEECCEECCCCCE-EECCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCH
T ss_conf             425887102216147334383-3799428999976557778898879999999984889599999999999998467879


Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHH------HHHCCCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCCCC
Q ss_conf             999999851247652578999999987------5206855--767878898889999999999999999972-7985348
Q gi|254780355|r  116 NMSRFFMGFPSSAHPMAMLVSAVGALS------SFYYSPS--GVQDLEQCVNVSLRMIAKISTIAAMIYKYS-IGQPFVY  186 (429)
Q Consensus       116 ~v~~~i~~~p~~ahPM~~L~~~vsaL~------a~~~~~~--~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~-~G~~~i~  186 (429)
                      ++.++|++||+++|||++|+++|++|+      .+|++..  ....++..++.++||||++|+|+|++||++ .|.++++
T Consensus       120 ~v~~~i~~~P~~~HPM~~L~~av~al~~~s~~~~~y~~~~~~~~~~~e~~~e~~~~LiAklPtIaA~~yr~~~~g~~~i~  199 (437)
T PRK09569        120 YVIDAIRALPRDSHPMVMLSAGILAMQRDSKFAKFYNSGKFNKMDAWEYMYEDASDLVARIPVIAAFIYNLKYKGDKQIA  199 (437)
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             99999985899789689999999984245520001563334621014678999999999889999999999846998678


Q ss_pred             CCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCC-CCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             886424688778764289841014796999998756350136787-6301555544205654246776755421002220
Q gi|254780355|r  187 PRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQ-NASTSTVRLAGSSGADPFACIAAGVACLGGRAHG  265 (429)
Q Consensus       187 Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~-NaSTft~R~vaSt~adlysai~agi~aL~GPlHG  265 (429)
                      ||++++|++|||+||++.+        ...++++.+||||||||+ ||||||+|+|+||+||||+||+|||+||||||||
T Consensus       200 ~d~~l~~a~NFl~Ml~~~~--------~~~~~~rl~liLHADHE~gN~STft~rvv~StlsD~y~siaagi~aL~GPLHG  271 (437)
T PRK09569        200 SDPQLDLGANFAHMIGQPK--------PYDDVARMYFILHSDHESGNVSAHTTHLVASALSDAYYAYSAGLNGLAGPLHG  271 (437)
T ss_pred             CCCCCCHHHHHHHHCCCCC--------CHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCC
T ss_conf             9999899999999878998--------65999999998972136787117888877515876899999999983587656


Q ss_pred             CCCHHHHHHHHHC----C----CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             3528999998621----5----5351279999998214786143027743555540346899999998886087765179
Q gi|254780355|r  266 GANEEALNMLMEI----G----SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIA  337 (429)
Q Consensus       266 GAne~v~~ml~~I----~----~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~  337 (429)
                      ||||+|++|+.++    +    +.+++++||++.+++++  |||||||||||++|||++++|+++++++.     +||++
T Consensus       272 gANq~vl~~l~~~~e~i~~~~~~~e~i~~~i~~~l~~g~--~i~GfGHrVyk~~DPRa~ilk~~a~~~~~-----~d~l~  344 (437)
T PRK09569        272 LANQEVLGWIQQFQEKLNGVEPTKEELTRALWDTLNAGQ--VIPGYGHAVLRKTDPRYTAQREFCLKYLK-----DDPLF  344 (437)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHC-----CCCHH
T ss_conf             705899999999999806863559999999997233488--22466864356789368999999999813-----38368


Q ss_pred             HHHHHHHHHH--HHHHHCCCCCCCCCCCHHHHHHHHHCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             9999999999--61153145798778447889999984999-66858999999998999999999707898300456210
Q gi|254780355|r  338 QVAIELERIA--LEDEYFIERKLYPNVDFYSGITLRALGFP-TNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLY  414 (429)
Q Consensus       338 ~~a~~le~~a--~~d~~~~~r~l~pNvDfysg~i~~~lGip-~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y  414 (429)
                      +++.++++++  ..+++|+.|++|||||||||++|+++||| .+||||||++||++||+|||+|++.. +++|.||||+|
T Consensus       345 ~l~~~l~eia~~~l~e~~k~k~~yPNVDfySG~iy~~~Gip~~~~fTvlFaisR~~Gw~Ahiiw~r~~-~~pI~RPrsiy  423 (437)
T PRK09569        345 KLVAMIFEVAPGVLTEHGKTKNPWPNVDAQSGVIQWYYGVREWDFYTVLFGVGRALGCMANITWDRGL-GYAIERPKSVT  423 (437)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCCCCC
T ss_conf             99999999999999985422699888165799999982999041233899999999999999999856-99977988553


Q ss_pred             CCCCCC
Q ss_conf             588768
Q gi|254780355|r  415 TGALKR  420 (429)
Q Consensus       415 ~G~~~r  420 (429)
                      ||..+|
T Consensus       424 t~~~~~  429 (437)
T PRK09569        424 TEMLEK  429 (437)
T ss_pred             CHHHHH
T ss_conf             579998


No 23 
>PRK12350 citrate synthase 2; Provisional
Probab=100.00  E-value=0  Score=852.66  Aligned_cols=345  Identities=28%  Similarity=0.445  Sum_probs=305.4

Q ss_pred             ECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCC---CCHHHHHHHHHHHHHCCCCCHHHH
Q ss_conf             88887862387875654334477789899319999750898999999981879---998999999998864068998999
Q gi|254780355|r   42 YDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGEL---ANVSQQKDFNDKISRHALLNENMS  118 (429)
Q Consensus        42 ~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeL---Pt~~el~~F~~~l~~~~~lpe~v~  118 (429)
                      |||||.||++|||+||+|||++|+|+||||||+|||++++|||||||||+|+|   |+.+|...+...+...   +.++.
T Consensus         1 ~~PGL~gv~~~es~Is~idg~~G~L~YRGy~i~dLa~~~tfEEva~LLl~G~l~~~~~~~e~~~~~~~~~~~---~~~~~   77 (352)
T PRK12350          1 FVPGLEGVVAFETEIAEPDGEGGALRYRGVDIEDLVGRVTFGDVWALLVDGFFGPGLPPAEPFPLPVHLGDA---RVDVQ   77 (352)
T ss_pred             CCCCCCCCEEEEEECEEEECCCCEEEECCCCHHHHHHCCCHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH---HHHHH
T ss_conf             989889961566056017589988998891299986059999999999788778876755666789879999---98677


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHH
Q ss_conf             99985124765257899999998752068557678788988899999999999999999727985348886424688778
Q gi|254780355|r  119 RFFMGFPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFL  198 (429)
Q Consensus       119 ~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL  198 (429)
                      ..+..+    +||+.+++.+           +..    ..+.+.||++++|+|++++||++.|.+++.|++++||++|||
T Consensus        78 ~~~~~l----~~~~~~~~~~-----------~~~----~~~~~~~l~~~~~~i~a~~~r~~~g~~~i~p~~~ls~a~nfl  138 (352)
T PRK12350         78 AGLAML----APIWGYRALL-----------DID----DLTARLQLARASVVALSAVAQSARGYQPAVPQREIDHAATVL  138 (352)
T ss_pred             HHHHHC----CHHHHHCCCC-----------CCC----CHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHH
T ss_conf             887742----7275423347-----------866----578999999899999999999976999888998867789999


Q ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHC
Q ss_conf             76428984101479699999875635013678763015555442056542467767554210022203528999998621
Q gi|254780355|r  199 HMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEI  278 (429)
Q Consensus       199 ~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I  278 (429)
                      +||+..  ...+|++..+|+||++||||||||+||||||+||++||++|+||||+|||+||||||||||||+|++||++|
T Consensus       139 ~ml~~~--~~~~p~~~~~~ald~~LIL~ADHe~NaSTFaaRvvaST~adlysai~aaI~aL~GPLHGGAne~v~~ml~~i  216 (352)
T PRK12350        139 RMFMTR--WGGEPDPRHVEALDAYWVTAAEHGMNASTFTARVIASTGADLAAALSAAIGALSGPLHGGAPGRVLPMLDAI  216 (352)
T ss_pred             HHHHHC--CCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf             997635--589989999999999999971046781347676554268788999999998626875567799999999984


Q ss_pred             CCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH--HHCCCC
Q ss_conf             553512799999982147861430277435555403468999999988860877651799999999999611--531457
Q gi|254780355|r  279 GSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALED--EYFIER  356 (429)
Q Consensus       279 ~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d--~~~~~r  356 (429)
                      ++++++++||++++++|+  |||||||||||++||||++||++++++.+       +.++++.++|+++.+.  ++|.+|
T Consensus       217 ~~~~~~~~~i~~~l~~~~--rimGFGHrVYk~~DPRa~~lk~~~~~l~~-------~~~~~a~~ie~~~~~~~~~~~~~r  287 (352)
T PRK12350        217 ERTGDARGWVKGALDRGE--RLMGFGHRVYRAEDPRARVLRAAAKRLGA-------PRYEVAEAVEQAALAELRERRPDR  287 (352)
T ss_pred             CCCCCHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             670028999999985367--65567887788899358999999999744-------248999999999999999856888


Q ss_pred             CCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf             98778447889999984999668589999999989999999997078983004562105887687
Q gi|254780355|r  357 KLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTGALKRD  421 (429)
Q Consensus       357 ~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G~~~r~  421 (429)
                      +||||||||||++|++||||++|||+||++||++||+|||+||+++  ||||||+++||||.+|.
T Consensus       288 ~l~~NvDfys~~v~~~lGip~~~ft~iFa~~R~~GW~AH~~Eq~~~--~rliRP~a~YvGp~~R~  350 (352)
T PRK12350        288 PLETNVEFWTAVLLDFAGVPAHMFTAMFTCGRTAGWCAHILEQKRT--GRLVRPSARYVGPGPRA  350 (352)
T ss_pred             CCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCC
T ss_conf             9860703669999999395945567999999999999999998426--98648778046999999


No 24 
>cd06106 ScCit3_like Saccharomyces cerevisiae (Sc) 2-methylcitrate synthase Cit3-like. 2-methylcitrate synthase (2MCS) catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxaloacetate (OAA) to form 2-methylcitrate and CoA. Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) with OAA to form citrate and CoA, the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the hydrolysis of citryl-CoA to produce citrate and CoA. There are two types of CSs: type I CS and type II CSs.  Type I CSs are found in eukarya, gram-positive bacteria, archaea, and in some gram-negative bacteria and are homodimers with both subunits participating in the a
Probab=100.00  E-value=0  Score=792.80  Aligned_cols=358  Identities=28%  Similarity=0.407  Sum_probs=320.4

Q ss_pred             CCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHH---------CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf             87862387875654334477789899319999750---------898999999981879998999999998864068998
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEK---------SDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNE  115 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~---------~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe  115 (429)
                      |..++-++-+.+|++|+++|+ +||||+|.||++.         ..||||+||||+|+|||++|+++|+++|++++.+|+
T Consensus        39 Gmrg~~~l~~e~S~ld~~~Gi-~yRG~~I~el~~~lp~~~~~~~~lpEev~yLLl~GeLPt~~ql~~f~~~l~~~~~lp~  117 (428)
T cd06106          39 GMRGLKSMLWEGSVLDAEEGI-RFHGKTIPECQKELPKAPIGGEMLPESMLWLLLTGKVPTFEQARGLSKELAERGKLPH  117 (428)
T ss_pred             CCCCCCEEEECCCEECCCCCE-EECCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCH
T ss_conf             426887325417334688784-7889518999987646778898778999999981889799999999999998347729


Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHH------HHCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH--CCCCCCC
Q ss_conf             9999998512476525789999999875------2068557-67878898889999999999999999972--7985348
Q gi|254780355|r  116 NMSRFFMGFPSSAHPMAMLVSAVGALSS------FYYSPSG-VQDLEQCVNVSLRMIAKISTIAAMIYKYS--IGQPFVY  186 (429)
Q Consensus       116 ~v~~~i~~~p~~ahPM~~L~~~vsaL~a------~~~~~~~-~~d~~~~~~~a~rLiA~~p~i~A~~yr~~--~G~~~i~  186 (429)
                      ++.++|++||+++|||++|+++|++|++      .|.+... ...++..++.+++|||++|+|+|++||++  .|.++..
T Consensus       118 ~v~~~l~~lP~~~hPM~~L~~avsaL~~~s~f~~~y~~g~~~~~~we~~~ed~i~LiAklP~I~A~iyr~~~~~g~~~~~  197 (428)
T cd06106         118 YIEKLLDSLPKTLHPMTQLSIGVAALNHDSKFAAAYEKGIKKTEYWEPTLEDSLNLIARLPALAARIYRNVYGEGHGLGK  197 (428)
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             99999985888668389999999984345420334202677310246789999999999999999999998379988888


Q ss_pred             CCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCC-CCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             88642468877876428984101479699999875635013678-76301555544205654246776755421002220
Q gi|254780355|r  187 PRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHE-QNASTSTVRLAGSSGADPFACIAAGVACLGGRAHG  265 (429)
Q Consensus       187 Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe-~NaSTft~R~vaSt~adlysai~agi~aL~GPlHG  265 (429)
                      ||++++|++|||+||+.      ++++..+++||.+|||||||| +||||||+|+|+||+||||+|++|||+||||||||
T Consensus       198 ~d~~ld~a~Nfl~Mlg~------~~~~~~~~~l~l~liLHADHeG~N~Stft~rvv~StlsD~Yssiaaai~aL~GPLHG  271 (428)
T cd06106         198 IDPEVDWSYNFTSMLGY------GDNLDFVDLLRLYIALHGDHEGGNVSAHTTHLVGSALSDPYLSYSAGLMGLAGPLHG  271 (428)
T ss_pred             CCCCCCHHHHHHHHHCC------CCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCC
T ss_conf             99864699999998379------997899999999898862136887317777666347886899999988872687657


Q ss_pred             CCCHHHHHHHH----HCCCC---CHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             35289999986----21553---512799999982147861430277435555403468999999988860877651799
Q gi|254780355|r  266 GANEEALNMLM----EIGSL---ERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQ  338 (429)
Q Consensus       266 GAne~v~~ml~----~I~~~---~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~  338 (429)
                      ||||+|++|+.    +||++   +++++|+++.+++++  +||||||||||++|||+.++|++++++.+.   .+||+++
T Consensus       272 gANq~Vl~~l~~m~~~ig~~~~~e~v~~yv~~~l~~g~--~i~GfGHrVyk~~DPRa~~lk~~a~~~~~~---~~d~~~~  346 (428)
T cd06106         272 LAAQEVLRWILEMQKNIGSKATDQDIRDYLWKTLKSGR--VVPGYGHAVLRKPDPRFTALMEFAQTRPEL---ENDPVVQ  346 (428)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCC--EEECCCEECCCCCCCHHHHHHHHHHHHHHC---CCCHHHH
T ss_conf             75899999999999980898768999999998544698--632026010357994799999999998731---4882999


Q ss_pred             HHHHHHHHH--HHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             999999999--61153145798778447889999984999668-589999999989999999997078983004562105
Q gi|254780355|r  339 VAIELERIA--LEDEYFIERKLYPNVDFYSGITLRALGFPTNL-FTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYT  415 (429)
Q Consensus       339 ~a~~le~~a--~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~-ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~  415 (429)
                      ++.++++++  ..+++++.||+|||||||||++|+++|||+++ |||||++||++||+|||+|++..+ .+|.||+|+=+
T Consensus       347 l~~~l~eia~~vl~e~~k~k~~~PNVDfySG~l~~~lGi~~~~fyT~lFavsR~~GwlAhiiw~r~~g-~pI~RPks~~~  425 (428)
T cd06106         347 LVQKLSEIAPGVLTEHGKTKNPFPNVDAASGVLFYHYGIREFLYYTVIFGVSRALGPLTQLVWDRILG-LPIERPKSLSL  425 (428)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCHHCCCHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCC
T ss_conf             99999999999999856547998881657999999849990103418999999999999999999738-99889885672


No 25 
>cd06101 citrate_synt Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and c) the 
Probab=100.00  E-value=0  Score=698.32  Aligned_cols=263  Identities=51%  Similarity=0.825  Sum_probs=251.1

Q ss_pred             CCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             88786238787565433447778989931999975089899999998187999899999999886406899899999985
Q gi|254780355|r   44 PAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMG  123 (429)
Q Consensus        44 pG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~  123 (429)
                      |||.||++|||+||+|||++|+|+||||||+||+++++||||+||||+|+||                            
T Consensus         1 pGl~~~~~~~s~Is~idg~~g~L~yRGy~i~dLa~~~sfeeva~LL~~G~LP----------------------------   52 (265)
T cd06101           1 PGLRGVAALESEISVIDGDEGGLRYRGYPIEELAENSSFEEVAYLLLTGELP----------------------------   52 (265)
T ss_pred             CCCCCCCEEEEECEEEECCCCEEEECCEEHHHHHHCCCHHHHHHHHHCCCCC----------------------------
T ss_conf             9988850566456277189998989995899987359999999999479899----------------------------


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCC
Q ss_conf             12476525789999999875206855767878898889999999999999999972798534888642468877876428
Q gi|254780355|r  124 FPSSAHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFS  203 (429)
Q Consensus       124 ~p~~ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~  203 (429)
                                                                                          +|++|||+||++
T Consensus        53 --------------------------------------------------------------------~~a~nfl~ml~g   64 (265)
T cd06101          53 --------------------------------------------------------------------SYAENFLYMLGG   64 (265)
T ss_pred             --------------------------------------------------------------------CCHHHHHHHHCC
T ss_conf             --------------------------------------------------------------------828789998548


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCC--
Q ss_conf             984101479699999875635013678763015555442056542467767554210022203528999998621553--
Q gi|254780355|r  204 VPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSL--  281 (429)
Q Consensus       204 ~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~--  281 (429)
                      .     +|+|..+|+||++||||||||+|+||||+|+++||++|+|+||+|||++||||+||||||+|++||++|+++  
T Consensus        65 ~-----~p~~~~~~~ld~~Lil~aDH~~n~STfaaRvvaSt~adl~~avaagi~aL~GplHGGA~e~~~~~l~ei~~~~~  139 (265)
T cd06101          65 E-----EPDPEFAKAMDLALILHADHEGNASTFTARVVGSTLSDPYSAIAAAIAALKGPLHGGANEAVLKMLEEIGTPKN  139 (265)
T ss_pred             C-----CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCC
T ss_conf             9-----99989999999999998315776048887877525987899998778756787777838999999998578654


Q ss_pred             CHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             51279999998214786143027743555540346899999998886087765179999999999961153145798778
Q gi|254780355|r  282 ERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPN  361 (429)
Q Consensus       282 ~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pN  361 (429)
                      +++..|+.+.+++++  |||||||||||++||||++|+++++++.++.+  ++++++++.++|+++.++.++  |+|+||
T Consensus       140 ~~a~~~v~~~~~~~~--~i~GFGHrvYk~~DPRa~~L~~~~~~l~~~~~--~~~~~~~a~~~e~~~~~~~~~--k~l~pN  213 (265)
T cd06101         140 EPAEAYIRKKLNSKR--VLMGFGHRVYKKYDPRATVLKKFAEKLLKEKG--LDPMFELAAELEKIAPEVLYE--KKLYPN  213 (265)
T ss_pred             CHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHCC--CCCCCC
T ss_conf             379999998773488--64467887789999618999999999987518--636999999999998862222--688765


Q ss_pred             CCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             44788999998499966858999999998999999999707898300456210
Q gi|254780355|r  362 VDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLY  414 (429)
Q Consensus       362 vDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y  414 (429)
                      ||||+|++|++||||+++||+||++||++||+|||+||++++ +||+||||+|
T Consensus       214 vD~~~a~l~~~lG~p~~~~t~iFaisR~~Gw~AH~~Eq~~~~-~ri~RP~~~Y  265 (265)
T cd06101         214 VDFYSGVLYKAMGFPTELFTPLFAVSRAVGWLAHLIEQREDG-QRIIRPRAEY  265 (265)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCC
T ss_conf             799999999990979436779999999999999999999779-9856886769


No 26 
>cd06102 citrate_synt_like_2 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. This group also includes CS proteins which functions as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. This group contains proteins which functions exclusively as either a CS or a 2MCS, as well as those with relaxed specificity which have dual functions as both a CS and a 2MCS. The overall CS reaction is thought to proceed through three partial reactions and involves both closed and open conformational forms of the enzyme: a) the carbanion or equivalent is generated from AcCoA by base abstraction of a proton, b) the nucleophilic attack of this carbanion on OAA to generate citryl-CoA, and 
Probab=100.00  E-value=0  Score=637.55  Aligned_cols=266  Identities=31%  Similarity=0.434  Sum_probs=232.8

Q ss_pred             CEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCC
Q ss_conf             62387875654334477789899319999750898999999981879998999999998864068998999999851247
Q gi|254780355|r   48 STASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSS  127 (429)
Q Consensus        48 ~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~  127 (429)
                      ...+.+|+||.||+  |.|.||||+|+|||+++||||||||||+|++|                                
T Consensus        17 G~pv~~S~Is~i~~--g~L~YRG~~~~~LAe~asfEevA~LLw~g~~p--------------------------------   62 (282)
T cd06102          17 GEPVLESAITLITE--GRLFYRGRDAVELAETATLEEVAALLWDGDEA--------------------------------   62 (282)
T ss_pred             CCEEEECEEEEEEC--CEEEECCCCHHHHHHCCCHHHHHHHHHCCCCH--------------------------------
T ss_conf             78143010059879--98689991399998239899999999779876--------------------------------


Q ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCC
Q ss_conf             65257899999998752068557678788988899999999999999999727985348886424688778764289841
Q gi|254780355|r  128 AHPMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCA  207 (429)
Q Consensus       128 ahPM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~  207 (429)
                         +++|++.++++....++.                                          .+..+++.++.      
T Consensus        63 ---~~~lr~~~~~~~~~~~~~------------------------------------------~~~~~~l~~~~------   91 (282)
T cd06102          63 ---ARLLRLLAAALLGAAPSD------------------------------------------APVHRRLARAW------   91 (282)
T ss_pred             ---HHHHHHHHHHHCCCCCCC------------------------------------------CHHHHHHHHHC------
T ss_conf             ---799999999845789874------------------------------------------56999999981------


Q ss_pred             CCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHH
Q ss_conf             01479699999875635013678763015555442056542467767554210022203528999998621553512799
Q gi|254780355|r  208 EYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPHY  287 (429)
Q Consensus       208 ~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~  287 (429)
                        +.+|..+++||++||||||||+||||||+||++||++|+||||+|||+||||||||||||+|++||++|++++++++|
T Consensus        92 --~~~~~~~~~l~~aLiL~ADH~~naSTfaaRv~aST~ad~ysav~agi~aL~GPlHGGAne~v~~ml~ei~~~~~~~~~  169 (282)
T cd06102          92 --GLDPAAADLLRRALVLLADHELNASTFAARVAASTGASLYAAVLAGLAALSGPRHGGATARVEALLDEALRAGDAEAA  169 (282)
T ss_pred             --CCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCCHHHH
T ss_conf             --799507899999897853568756999999999249978999999998766976678799999999985586448999


Q ss_pred             HHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             99998214786143027743555540346899999998886087765179999999999961153145798778447889
Q gi|254780355|r  288 IMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVDFYSG  367 (429)
Q Consensus       288 i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg  367 (429)
                      |.+.+++++  +||||||||||++||||++|++.++++..       +.++.+.++++++.+     .++++||||||+|
T Consensus       170 i~~~l~~~~--~i~GFGHrvYk~~DPRA~~L~~~~~~l~~-------~~~~~~~~~~~~~~~-----~~~~~pNVDfys~  235 (282)
T cd06102         170 VRERLRRGE--ALPGFGHPLYPDGDPRAAALLAALRPLGP-------AAPPAARALIEAARA-----LTGARPNIDFALA  235 (282)
T ss_pred             HHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHCC-------CHHHHHHHHHHHHHH-----HHCCCCCHHHHHH
T ss_conf             999997699--86688887689899439999999998641-------058999999999999-----7589998187899


Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf             9999849996685899999999899999999970789830045621058
Q gi|254780355|r  368 ITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYTG  416 (429)
Q Consensus       368 ~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~G  416 (429)
                      ++|+.||||+++||+||++||++||+|||+||+++  +||||||++|||
T Consensus       236 ~l~~~lGip~~~~t~iFai~R~~GW~AH~~Eq~~~--~~liRPr~~YvG  282 (282)
T cd06102         236 ALTRALGLPAGAAFALFALGRSAGWIAHALEQRAQ--GKLIRPRARYVG  282 (282)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCCCCC
T ss_conf             99998499903112699999999999999999857--985588771469


No 27 
>KOG2617 consensus
Probab=100.00  E-value=0  Score=588.96  Aligned_cols=394  Identities=33%  Similarity=0.461  Sum_probs=352.4

Q ss_pred             CEEEEEEE-ECCCCCCCCEEECCCC----CCCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHH
Q ss_conf             98999752-3077787510100115----586189888878623878756543344777898993199997508989999
Q gi|254780355|r   12 HEEIDLPI-KEGSLGSSVLDISFLH----KNGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVC   86 (429)
Q Consensus        12 ~~~~~lpi-~~~~~~~~~~d~~~l~----~~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVa   86 (429)
                      +++|.-++ -+|++  +.|++.+..    ..|...+||++.++.   +.|.|+|+..++++||+|++++.++. .+|+++
T Consensus        39 ~~~~k~~~~ehG~v--g~v~i~~i~gGmrg~~~~~~e~s~Ld~~---~gI~frg~~i~e~q~~lp~~~~~~e~-lpe~~~  112 (458)
T KOG2617          39 GDEYKKFVSEHGTV--GNVTLKKIYGGMRGKGLLLWETSVLDPE---EGIRFRGGDIPECQKRLPPAEEGAEP-LPEELF  112 (458)
T ss_pred             HHHHHHHHHHCCCC--CCEEHHHHHCCCCCCCCEEECCCCCCHH---HCEEECCCCHHHHHHHCCCCCCCCCC-CHHHHH
T ss_conf             77762228644810--2256888644657777402037643610---07013489779998537887567767-789999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCC------C-CCCHHHHHH
Q ss_conf             999818799989999999988640689989999998512476525789999999875206855------7-678788988
Q gi|254780355|r   87 YLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYYSPS------G-VQDLEQCVN  159 (429)
Q Consensus        87 yLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~~~~------~-~~d~~~~~~  159 (429)
                      |||++|++||++|+++|+.++++++.+|+.+.++|+++|.+.|||.++.+++++|..+.+...      + ...++..++
T Consensus       113 wLL~tG~vPt~~Q~~~~~~~~a~rsavP~~v~~~idsmP~d~HPM~q~~~a~~al~~~s~fa~ay~~G~~k~~yw~~~~e  192 (458)
T KOG2617         113 WLLLTGNVPTQSQVAALSFELAQRSAVPQGVLDMIDSMPKDLHPMAQLAAAVLALKIFSPFAKAYLRGIGKYKYWQYTYE  192 (458)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHCCCHHHCCCCCHH
T ss_conf             99995799978999999999987355638899999718831016999999998626356101466604331101322188


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCC-CCHHHHH
Q ss_conf             899999999999999999727985348886424688778764289841014796999998756350136787-6301555
Q gi|254780355|r  160 VSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQ-NASTSTV  238 (429)
Q Consensus       160 ~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~-NaSTft~  238 (429)
                      ++++|||+.|+|+|.+|+..-+.+.+-||++++|++||++|+...       +|..++.|+.++++|+|||+ |.|..|.
T Consensus       193 d~l~Liak~p~iAa~iY~~~~~dg~~~~~~~~dys~Nf~~mlg~~-------~~~f~~lmrly~~iHadHE~gnVsAh~~  265 (458)
T KOG2617         193 DCLVLIAKLPTIAAAIYRNIYADGIPKPDPNLDYSANFARMLGSR-------QPDFAQLMRLYVGIHADHEGGNVSAHTG  265 (458)
T ss_pred             HHHHHHHHCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCCC-------CHHHHHHHHHEEEEECCCCCCCHHHHHC
T ss_conf             999999743088899999985379888876544567689997358-------7679998777046421034672877741


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHH----HCC---CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCC
Q ss_conf             54420565424677675542100222035289999986----215---53512799999982147861430277435555
Q gi|254780355|r  239 RLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLM----EIG---SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNH  311 (429)
Q Consensus       239 R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~----~I~---~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~  311 (429)
                      ++++|.+ |||-+++||+++|.|||||+|||+|++||.    ||+   +.+++++||+..+++++  +++||||+|||++
T Consensus       266 HLvGSal-dpYls~aa~~~GLaGPLHGlAnqEvl~~L~~~~~Eig~~~s~e~ikeyiw~~lnsgr--vvpGyGHaVlrkt  342 (458)
T KOG2617         266 HLVGSAL-DPYLSFAAGMNGLAGPLHGLANQEVLRFLGKLIEEIGKDLSKENIKEYIWKTLNSGR--VVPGYGHAVLRKT  342 (458)
T ss_pred             CCCCCCC-CHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCC--CCCCCCCCCCCCC
T ss_conf             4434566-526777776325403454676699999999868876344416565465476444575--3347675102068


Q ss_pred             CHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--HHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHH-HHHHHHHH
Q ss_conf             403468999999988860877651799999999999--611531457987784478899999849996685-89999999
Q gi|254780355|r  312 DPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIA--LEDEYFIERKLYPNVDFYSGITLRALGFPTNLF-TVLFAVAR  388 (429)
Q Consensus       312 DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a--~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~f-t~iFa~~R  388 (429)
                      |||..++++++.+.+     .+||++++..++++++  ..+++++.||+|||||+|||++++++|++...| |++|+++|
T Consensus       343 DPR~~~qrefA~kh~-----~~dpl~~lv~~l~kiap~vl~e~gk~kNp~PNVD~hSGvll~~yGl~e~~fyTVLFgVsR  417 (458)
T KOG2617         343 DPRYKVQREFALKHL-----PDDPLFLLVSALYKIAPGVLTEHGKVKNPYPNVDAHSGVLLQYYGLPELFFYTVLFGVSR  417 (458)
T ss_pred             CCHHHHHHHHHHHCC-----CCCCCHHHHHHHHHHCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             804899999998638-----988404423778764658888874505899765667778998707718988999987766


Q ss_pred             HHHHHHH--HHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHCC
Q ss_conf             9899999--9999707898300456210588768706855429
Q gi|254780355|r  389 TAGWVSQ--WTEMIVDPSRRIGRPRQLYTGALKRDYVPLEERE  429 (429)
Q Consensus       389 ~~Gw~AH--~~Eq~~~~~~ri~RP~~~Y~G~~~r~y~pi~~R~  429 (429)
                      +.|.++|  |.+.+..|   |.||.+.|++...+.+.++.+|+
T Consensus       418 a~Gvlsqliw~ralg~p---ieRPks~~t~~~~~~~~~~~~~~  457 (458)
T KOG2617         418 ALGVLSQLIWDRALGLP---IERPKSVSTDWLHRFTNMVRERD  457 (458)
T ss_pred             HHHHHHHHHHHHHHCCC---CCCCCCCCHHHHHHHHHHHHCCC
T ss_conf             67889999999870786---44730033589999998752036


No 28 
>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=100.00  E-value=0  Score=522.71  Aligned_cols=348  Identities=31%  Similarity=0.452  Sum_probs=309.8

Q ss_pred             EEEEEEEEEECCCCEEEECCEEHHHHH------HH---CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHH
Q ss_conf             878756543344777898993199997------50---898999999981879998999999998864068998999999
Q gi|254780355|r   51 SCKSKITFIDGNNGILLYRGYPIEQLS------EK---SDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFF  121 (429)
Q Consensus        51 ~ceS~IT~IDG~~G~L~YRGY~IedLa------~~---~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i  121 (429)
                      +.||  |-+|.|+|| |+|||+|-|=-      +.   ==-|-..|||++|+.||++|.++++++++.++.||+.|.++|
T Consensus        50 vwEt--SvLDpEEGI-RFRGlsIPECQKLLPkAkgGeEPLPEgl~WLLlTG~VPse~Qv~alsaEw~aRadlP~hv~~~i  126 (430)
T TIGR01793        50 VWET--SVLDPEEGI-RFRGLSIPECQKLLPKAKGGEEPLPEGLLWLLLTGEVPSEEQVDALSAEWRARADLPKHVVKLI  126 (430)
T ss_pred             EEEC--CCCCCCCCE-ECCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             2204--302665460-1278864114410777456579746899999845899808899999999985500278999998


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHH---H----HCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH--HHCCCCCCCCCCCHH
Q ss_conf             8512476525789999999875---2----068557678788988899999999999999999--727985348886424
Q gi|254780355|r  122 MGFPSSAHPMAMLVSAVGALSS---F----YYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYK--YSIGQPFVYPRSDLD  192 (429)
Q Consensus       122 ~~~p~~ahPM~~L~~~vsaL~a---~----~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr--~~~G~~~i~Pd~~ls  192 (429)
                      +.||.+.|||+++.++|.||..   |    ...-....-++..+|+++.||||+|+|+|.+||  +++|+..+.-|++++
T Consensus       127 D~~P~tlHPMaQF~~av~AL~~eS~FakAyakGi~K~~YWeytyEDS~dLiAkLPtvAA~IYRn~ykdG~~v~~id~~kD  206 (430)
T TIGR01793       127 DALPSTLHPMAQFALAVAALEVESEFAKAYAKGIAKKKYWEYTYEDSMDLIAKLPTVAAKIYRNLYKDGKAVASIDDKKD  206 (430)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCC
T ss_conf             50574357278999999988741045336772554112457304447999984369999999866128805773167654


Q ss_pred             HHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCC-CCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             68877876428984101479699999875635013678-76301555544205654246776755421002220352899
Q gi|254780355|r  193 YASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHE-QNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEA  271 (429)
Q Consensus       193 yaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe-~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v  271 (429)
                      |.+||-+||+-      .-+|..++.|+.+|++|.||| +|.|++|.++|||++||||-+.+||++.|.|||||-|||+|
T Consensus       207 ysaNfa~~LGy------aD~p~f~ELMRLYltIHsDHEGGNVSAHT~HLVgSALSdPyLSfaAalnGLAGPLHGLANQEV  280 (430)
T TIGR01793       207 YSANFASMLGY------ADDPSFAELMRLYLTIHSDHEGGNVSAHTSHLVGSALSDPYLSFAAALNGLAGPLHGLANQEV  280 (430)
T ss_pred             CHHHHHHHCCC------CCCHHHHHHHHHHHEEEECCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             01216751575------678758988662300120148886102457888877316568999986311220113688999


Q ss_pred             HHHHHHC----C----CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             9998621----5----5351279999998214786143027743555540346899999998886087765179999999
Q gi|254780355|r  272 LNMLMEI----G----SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIEL  343 (429)
Q Consensus       272 ~~ml~~I----~----~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~l  343 (429)
                      +-+|.+|    |    +.+++.+||++.|+.++  .+|||||.|.|++|||=.+=|++|-+.+     +|||+|++.-.+
T Consensus       281 L~wl~~~v~e~G~~n~t~eqlKdy~WktLnsG~--VVPGYGHaVLRkTDPRY~cQREFALk~L-----PdDplFkLVS~l  353 (430)
T TIGR01793       281 LVWLKEVVKEVGEDNLTEEQLKDYVWKTLNSGK--VVPGYGHAVLRKTDPRYICQREFALKHL-----PDDPLFKLVSQL  353 (430)
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC--EECCCCCCCCCCCCCCCCCHHHHHHHCC-----CCCHHHHHHHHH
T ss_conf             999998877517887747678999997605895--4257665202688988431288883317-----896156886410


Q ss_pred             HHHH--HHHHHCCCCCCCCCCCHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf             9999--6115314579877844788999998499-9668589999999989999999997078983004562105
Q gi|254780355|r  344 ERIA--LEDEYFIERKLYPNVDFYSGITLRALGF-PTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLYT  415 (429)
Q Consensus       344 e~~a--~~d~~~~~r~l~pNvDfysg~i~~~lGi-p~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y~  415 (429)
                      -+|+  +-.|..+.||+|||||-.||+++...|+ ...+||++|.+||..|.+.|-+-.|.-+ -.|-||.+.=+
T Consensus       354 yki~PgiLtE~GK~KNPwPNVDaHSGVLLqyyGlTE~~yYTVLFGVSRAlG~lsQLiwdRa~G-lPlERPKS~st  427 (430)
T TIGR01793       354 YKIVPGILTELGKVKNPWPNVDAHSGVLLQYYGLTEARYYTVLFGVSRALGVLSQLIWDRALG-LPLERPKSFST  427 (430)
T ss_pred             HCCCCCCEECCCCCCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCC
T ss_conf             101685000478757867787520116764024000021034334668874436899986568-98568866534


No 29 
>cd06099 CS_ACL-C_CCL Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) from citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate cycle. Some CS proteins function as a 2-methylcitrate synthase (2MCS). 2MCS catalyzes the condensation of propionyl-CoA (PrCoA) and OAA to form 2-methylcitrate and CoA during propionate metabolism. CCL cleaves citryl-CoA (CiCoA) to AcCoA and OAA. ACLs catalyze an ATP- and a CoA- dependant cleavage of citrate to form AcCoA and OAA; they do this in a multistep reaction, the final step of which is likely to involve the cleavage of CiCoA to generate AcCoA and OAA. The overall CS reaction is thought to proceed through three partial reactions and i
Probab=100.00  E-value=0  Score=509.88  Aligned_cols=211  Identities=52%  Similarity=0.841  Sum_probs=198.5

Q ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHH
Q ss_conf             46887787642898410147969999987563501367876301555544205654246776755421002220352899
Q gi|254780355|r  192 DYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEA  271 (429)
Q Consensus       192 syaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v  271 (429)
                      ||++|||+|++|+     +|+|..+++||++||||||||+|+||||+|+++||++|+|+||+|||++|+||+||||||+|
T Consensus         1 S~~~nfl~ml~g~-----~P~~~~~~~ld~~Lvl~aDHg~n~St~aaR~~aSt~ad~~~av~agl~al~GplhGGA~e~~   75 (213)
T cd06099           1 SYAENFLYMLGGE-----EPDPEFARAMDLALILHADHEGNASTFTARVVGSTGSDPYSAIAAAIGALKGPLHGGANEAV   75 (213)
T ss_pred             CHHHHHHHHHCCC-----CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHH
T ss_conf             9899999996699-----99989999999999998145886059999998535897889999999981586346819999


Q ss_pred             HHHHHHCCCC--CHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             9998621553--51279999998214786143027743555540346899999998886087765179999999999961
Q gi|254780355|r  272 LNMLMEIGSL--ERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALE  349 (429)
Q Consensus       272 ~~ml~~I~~~--~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~  349 (429)
                      ++||++|+++  +++++||.+.+++++  |||||||||||+.|||+++|+++++++.+..+  ++++++++.++|+++.+
T Consensus        76 ~~~l~ei~~~~~~~~~~~v~~~~~~~~--~ipGFGH~vy~~~DPRa~~L~~~a~~l~~~~~--~~~~~~~~~~~e~~~~~  151 (213)
T cd06099          76 LKMLEEIGTPKNEPAEAYIRKKLESKR--VIMGFGHRVYKKYDPRATVLKKFAEELLKEDG--DDPMFELAAELEKIAEE  151 (213)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHH
T ss_conf             999998565566539999999884489--65578987789999609999999999987438--87799999999999998


Q ss_pred             HHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             15314579877844788999998499966858999999998999999999707898300456210
Q gi|254780355|r  350 DEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPSRRIGRPRQLY  414 (429)
Q Consensus       350 d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~~ri~RP~~~Y  414 (429)
                      +.+  +|+|+||||||+|++|+.||||+++||++|++||++||+|||+||++++ .||+|||++|
T Consensus       152 ~~~--~k~l~~Nvd~~~a~l~~~lG~p~~~~~~lf~i~R~~Gw~AH~~Eq~~~~-~~i~RP~~~Y  213 (213)
T cd06099         152 VLY--EKKLYPNVDFYSGVLYKAMGFPTELFTPLFAVARAVGWLAHLIEQLEDN-FKIIRPRSEY  213 (213)
T ss_pred             HHC--CCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCC
T ss_conf             644--4799867599999999991988655789999999999999999999779-9876886769


No 30 
>PRK06224 citrate synthase; Provisional
Probab=100.00  E-value=0  Score=438.61  Aligned_cols=243  Identities=28%  Similarity=0.389  Sum_probs=211.3

Q ss_pred             EEEEEEEEEECCCCEEEECCEE-HHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCC
Q ss_conf             8787565433447778989931-999975089899999998187999899999999886406899899999985124765
Q gi|254780355|r   51 SCKSKITFIDGNNGILLYRGYP-IEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAH  129 (429)
Q Consensus        51 ~ceS~IT~IDG~~G~L~YRGY~-IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ah  129 (429)
                      .-+|+|+.+++++  ++||||| ++||..+.+|-|+.||||.|++|+++|                              
T Consensus         8 ~~~T~i~~~~~~~--i~~rG~dl~~dLig~~sf~~~~~ll~~G~~P~~~q------------------------------   55 (265)
T PRK06224          8 WWRTSIGDTTPEE--IYVRGYDLLEDLIGKISFVDMIFLLLRGRLPTPGE------------------------------   55 (265)
T ss_pred             HHHCCCCCCCCCE--EEECCCCHHHHHHCCCCHHHHHHHHHHCCCCCHHH------------------------------
T ss_conf             7511000467996--78858640999854789999999998288999999------------------------------


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf             25789999999875206855767878898889999999999999999972798534888642468877876428984101
Q gi|254780355|r  130 PMAMLVSAVGALSSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVYPRSDLDYASNFLHMCFSVPCAEY  209 (429)
Q Consensus       130 PM~~L~~~vsaL~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~Pd~~lsyaeNfL~Ml~~~~~~~~  209 (429)
                                                                                                      
T Consensus        56 --------------------------------------------------------------------------------   55 (265)
T PRK06224         56 --------------------------------------------------------------------------------   55 (265)
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCC-------
Q ss_conf             479699999875635013678763015555442056-542467767554210022203528999998621553-------
Q gi|254780355|r  210 QVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSG-ADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSL-------  281 (429)
Q Consensus       210 ~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~-adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~-------  281 (429)
                            +|+||++||++||||+|+|||++|+++|++ +++++||+||++++ ||+||||||.|++||+++...       
T Consensus        56 ------arllda~Lv~~adHG~~pSt~aaR~~as~g~~~~~~avaAgl~~~-G~~hgGA~e~~~~~l~~~~~~~~~~~~~  128 (265)
T PRK06224         56 ------ARMLDAVLVSLVDHGLTPSAAAARMTASGGPESLQAAVAAGLLGA-GSVFGGAGENAAELLQEIAARADDGDDL  128 (265)
T ss_pred             ------HHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHCC-CCCCCCHHHHHHHHHHHHHHHCCCCCCH
T ss_conf             ------999999999955779982799999999628504789999999634-6301373589999999997530256559


Q ss_pred             -CHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             -5127999999821478614302774355554034689999999888608776517999999999996115314579877
Q gi|254780355|r  282 -ERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYP  360 (429)
Q Consensus       282 -~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~p  360 (429)
                       +.+.++|.+.+.+++  |||||||||||+.|||++.|+++++++.     ...++++++.++|+.+.+.   .+|+|++
T Consensus       129 ~~~a~~~v~~~~~~~~--~ipGfGHrvyk~~DPRa~~L~~la~e~~-----~~g~~~~~a~~ve~~~~~~---~gk~l~~  198 (265)
T PRK06224        129 DAAARALVAEYRAAGR--RVPGFGHPLHKPGDPRAPRLLALARELG-----VAGRHCALAEALEAALDAA---KGKPLPL  198 (265)
T ss_pred             HHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHH---CCCCCCC
T ss_conf             9999999999997499--8688898888999951799999999837-----6777999999999999984---0899860


Q ss_pred             CCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCCCCC---CCCCCCCCC
Q ss_conf             84478899999849996685899999999899999999970789-830045621---058876870
Q gi|254780355|r  361 NVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDPS-RRIGRPRQL---YTGALKRDY  422 (429)
Q Consensus       361 NvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~~-~ri~RP~~~---Y~G~~~r~y  422 (429)
                      |||||+|++|..||||+++|+++|+++|++||+||++||+++|. +|+++|.+.   |+|+.+|+.
T Consensus       199 Nvdg~~aav~~dlG~p~~~~~~lf~l~R~~G~~AH~~Eq~~~~~~~~~~~~~~~~i~Y~g~~~r~~  264 (265)
T PRK06224        199 NADGAIAAILADMGFPPALARGLAVISRAAGLVAHVLEERQQPIGFRIWDPVEEAIEYDGPPPREL  264 (265)
T ss_pred             CHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHCCCCCCCCCCCC
T ss_conf             679999999998597978873699999999999999999618568777885654531269999999


No 31 
>cd06100 CCL_ACL-C Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA). ACL catalyzes an ATP- and a CoA- dependant cleavage of citrate to form AcCoA and OAA in a multistep reaction, the final step of which is likely to involve the cleavage of CiCoA to generate AcCoA and OAA. In fungi, yeast, plants, and animals ACL is cytosolic and generates AcCoA for lipogenesis. ACL may be required for fruiting body maturation in the filamentous fungus Sordaria macrospore. In several groups of autotrophic prokaryotes and archaea, ACL carries out the citrate-cleavage reaction of the reductive tricarboxylic acid (rTCA) cycle. In the family Aquificaceae this latter reaction in the rTCA cycle is carried out via a two enzyme system the second enzyme of which is CCL; the first enzyme is citryl-CoA synthetase (CC
Probab=100.00  E-value=0  Score=432.14  Aligned_cols=198  Identities=26%  Similarity=0.360  Sum_probs=180.7

Q ss_pred             CHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCC-CCHHHHHHHHHCCCC-CHHHHHHHHHHHHHHHHHCCC
Q ss_conf             424688778764289841014796999998756350136787-630155554420565-424677675542100222035
Q gi|254780355|r  190 DLDYASNFLHMCFSVPCAEYQVNPLLARAMNRIFILHADHEQ-NASTSTVRLAGSSGA-DPFACIAAGVACLGGRAHGGA  267 (429)
Q Consensus       190 ~lsyaeNfL~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~-NaSTft~R~vaSt~a-dlysai~agi~aL~GPlHGGA  267 (429)
                      ++||++||++|++|+     +|++..+|+||++||||||||+ |+||||+|+++||++ +++++++||++++ ||+||||
T Consensus        10 ~~s~~e~~~~m~~G~-----~P~~~~~r~ld~~Lvl~adHg~~~~St~aaRv~as~g~~~~~~~vaag~~~~-GplHGGA   83 (227)
T cd06100          10 KISFGDVLYLLLKGR-----LPTPYEARLLEALLVALADHGPATPSAHAARLTASAGPEDLQSAVAAGLLGI-GDRFGGA   83 (227)
T ss_pred             CCCHHHHHHHHHHCC-----CCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHCC-CCCCCCH
T ss_conf             188999999998189-----9998999999999999828799864899999999348238999999999655-7743575


Q ss_pred             CHHHHHHHHHCC-----CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             289999986215-----535127999999821478614302774355554034689999999888608776517999999
Q gi|254780355|r  268 NEEALNMLMEIG-----SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIE  342 (429)
Q Consensus       268 ne~v~~ml~~I~-----~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~  342 (429)
                      ||.|++|++++.     .++++++|+.+.+++++  |||||||||||++|||+++|+++++++..     ..++++++.+
T Consensus        84 ~e~~~~ml~~~~~~~~~~~~~~~~~v~~~~~~~~--~ipGfGH~vyk~~DPRa~~L~~~a~~~~~-----~~~~~~~a~~  156 (227)
T cd06100          84 GEGAARLFKEAVDSGDALDAAAAEFVAEYRAAKK--RIPGFGHPVHKNPDPRVPRLLELARELGP-----AGPHLDYALA  156 (227)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHCC-----CCHHHHHHHH
T ss_conf             6999999999986477628899999999986599--77788988799999459999999998566-----6659999999


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             9999961153145798778447889999984999668589999999989999999997078
Q gi|254780355|r  343 LERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFTVLFAVARTAGWVSQWTEMIVDP  403 (429)
Q Consensus       343 le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~~~~  403 (429)
                      +|+++.++   .+|+|+||||||+|++|..||||+++||++|+++|++||+|||+||++++
T Consensus       157 ~e~~~~~~---~~~~l~~NvD~~~a~v~~~lG~p~~~~~~lF~~aR~~Gw~AH~~Eq~~~~  214 (227)
T cd06100         157 VEKALTAA---KGKPLPLNVDGAIAAILLDLGFPPGALRGLFVLGRSPGLIAHALEEKRLG  214 (227)
T ss_pred             HHHHHHHH---CCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             99999982---38998605498899999984978668989999999999999999999848


No 32 
>KOG1254 consensus
Probab=99.48  E-value=2.2e-14  Score=119.42  Aligned_cols=217  Identities=22%  Similarity=0.314  Sum_probs=152.4

Q ss_pred             CCCCCCCCCC--CHHHHHHHH-HHHCCCCCCCCCCCHHHHHHHHHHHHEECCCCCCCHHHH-HHHHHCCCCCHHHHHHHH
Q ss_conf             7985348886--424688778-764289841014796999998756350136787630155-554420565424677675
Q gi|254780355|r  180 IGQPFVYPRS--DLDYASNFL-HMCFSVPCAEYQVNPLLARAMNRIFILHADHEQNASTST-VRLAGSSGADPFACIAAG  255 (429)
Q Consensus       180 ~G~~~i~Pd~--~lsyaeNfL-~Ml~~~~~~~~~~~~~~~~ald~~LILhADHe~NaSTft-~R~vaSt~adlysai~ag  255 (429)
                      .|.+.+|.+.  ++.|++..= +--.+....+.+.-+-..+.+|.++.+.|||+-.+|-.- .-+.+-+++|+++++++|
T Consensus       353 rGaeviYA~~p~~~~~a~elG~gg~~Sllw~~~~lp~Ya~kfie~~~m~~aDhgp~Vsga~ntI~~~ra~kdl~sslv~g  432 (600)
T KOG1254         353 RGAEVIYADVPISLGYASELGNGGVYSLLWFQRRLPQYARKFIEICTMLTADHGPAVSGAGNTIANFRAGKDLFSSLVRG  432 (600)
T ss_pred             CCCEEEECCCHHHHHHHHHCCCCCEECCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCEEEECCHHHHHHHHHHH
T ss_conf             87403655860555567650666057144134411789999999884216898854674167168732589999999998


Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHC-CCCCHHHHHHHHHHHCCCCCEEECCCCCCC--CCCCHHHHHHHHHHHHHHHHCCCC
Q ss_conf             54210022203528999998621-553512799999982147861430277435--555403468999999988860877
Q gi|254780355|r  256 VACLGGRAHGGANEEALNMLMEI-GSLERIPHYIMRAKDKNDPFRIMGFGHRVY--RNHDPRCRIMRETMYEVLEVTGRF  332 (429)
Q Consensus       256 i~aL~GPlHGGAne~v~~ml~~I-~~~~~v~~~i~~~~~~~~~~ri~GfGHrvy--k~~DPRa~~l~~~~~~l~~~~~~~  332 (429)
                      +... |+.-|||-..+.+++.+- ++.-.+-+++.+.+  +.+.+|||.|||+-  -+.|-|..++++++++-+.     
T Consensus       433 Llti-gdRfggald~aaR~f~~ayd~GL~~m~fv~~~~--k~~~~V~Gighriksi~n~d~rv~~lk~~~~~~fp-----  504 (600)
T KOG1254         433 LLTI-GDRFGGALDIAARRFGPAYDKGLAPMRFVGKMR--KVPIEVYGIGHRIKSINNPDKRVEILKAFARKNFP-----  504 (600)
T ss_pred             HHHH-HHHHCCHHHHHHHHCCHHHHCCCHHHHHHHHHH--CCCCEECCCCCEEECCCCCCCCHHHHHHHHHHHCC-----
T ss_conf             8551-012143226998861845434660788776764--78846317865444147855300328999985198-----


Q ss_pred             CCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCHHHHH--------------HHHHHHHHHHHHHHHHH
Q ss_conf             6517999999999996115314579877844788999998499966858--------------99999999899999999
Q gi|254780355|r  333 NDPIAQVAIELERIALEDEYFIERKLYPNVDFYSGITLRALGFPTNLFT--------------VLFAVARTAGWVSQWTE  398 (429)
Q Consensus       333 ~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~i~~~lGip~~~ft--------------~iFa~~R~~Gw~AH~~E  398 (429)
                      ..|+++.|.++|++...    ++-||..|||-.-|++|-.|==-..|||              .+|+++|..|++.|+..
T Consensus       505 ~~~~~~yal~ve~~t~~----k~~nlilnvdg~i~~~fvd~l~~~g~ft~~e~~e~i~ig~lng~fvl~rsig~igh~~d  580 (600)
T KOG1254         505 ATPLLDYALEVEKITTS----KKPNLILNVDGAIAVLFVDLLRNSGMFTKEEADEYINIGALNGLFVLGRSIGFIGHYLD  580 (600)
T ss_pred             CCHHHHHHHHHEEEECC----CCCCEEEECCCHHHHHHHHHHHCCCCCCHHHHHHHEECCCCCCEEEEEEECCHHHHHCC
T ss_conf             73277866532023215----78877996242278999999844687507765454320230215884201021121213


Q ss_pred             HHHCCCCCCCC
Q ss_conf             97078983004
Q gi|254780355|r  399 MIVDPSRRIGR  409 (429)
Q Consensus       399 q~~~~~~ri~R  409 (429)
                      |..-.+ -|+|
T Consensus       581 qkrlkq-~lyr  590 (600)
T KOG1254         581 QKRLKQ-GLYR  590 (600)
T ss_pred             HHHHHC-CCCC
T ss_conf             766637-5323


No 33 
>cd06100 CCL_ACL-C Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA). ACL catalyzes an ATP- and a CoA- dependant cleavage of citrate to form AcCoA and OAA in a multistep reaction, the final step of which is likely to involve the cleavage of CiCoA to generate AcCoA and OAA. In fungi, yeast, plants, and animals ACL is cytosolic and generates AcCoA for lipogenesis. ACL may be required for fruiting body maturation in the filamentous fungus Sordaria macrospore. In several groups of autotrophic prokaryotes and archaea, ACL carries out the citrate-cleavage reaction of the reductive tricarboxylic acid (rTCA) cycle. In the family Aquificaceae this latter reaction in the rTCA cycle is carried out via a two enzyme system the second enzyme of which is CCL; the first enzyme is citryl-CoA synthetase (CC
Probab=97.65  E-value=0.0071  Score=39.78  Aligned_cols=43  Identities=30%  Similarity=0.427  Sum_probs=40.0

Q ss_pred             CEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             9319999750898999999981879998999999998864068
Q gi|254780355|r   70 GYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHAL  112 (429)
Q Consensus        70 GY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~  112 (429)
                      ||++.||..+.+|-|+.||||.|++|++.|.+.|..-|.-+..
T Consensus         1 G~~~~elig~~s~~e~~~~m~~G~~P~~~~~r~ld~~Lvl~ad   43 (227)
T cd06100           1 GYDLSDLIGKISFGDVLYLLLKGRLPTPYEARLLEALLVALAD   43 (227)
T ss_pred             CCCHHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC
T ss_conf             9978999841889999999981899998999999999999828


No 34 
>COG3383 Uncharacterized anaerobic dehydrogenase [General function prediction only]
Probab=81.17  E-value=1.6  Score=23.57  Aligned_cols=55  Identities=25%  Similarity=0.557  Sum_probs=40.1

Q ss_pred             CCCCEEEEEECCEEEEEEEECCCCCCCCEEECCCCCCC----EEEECCCCCCEEEEEEEEEEEECC
Q ss_conf             99876999989989997523077787510100115586----189888878623878756543344
Q gi|254780355|r    1 MTDKFAKLHLGHEEIDLPIKEGSLGSSVLDISFLHKNG----IFTYDPAFSSTASCKSKITFIDGN   62 (429)
Q Consensus         1 M~~~~~~l~~~~~~~~lpi~~~~~~~~~~d~~~l~~~G----~~~~dpG~~~ta~ceS~IT~IDG~   62 (429)
                      |+.|..++++||++++-+  +   |...++  .+...|    -+.|.|++.-..+|.+-+--|||.
T Consensus         1 m~~~~i~vtidg~~~~v~--~---G~tiL~--a~~~~gI~iP~iCy~~~l~pi~sCd~ClVEidG~   59 (978)
T COG3383           1 MAEKMITVTIDGRSIEVE--E---GTTILR--AANRNGIEIPHICYHESLGPIGSCDTCLVEIDGK   59 (978)
T ss_pred             CCCEEEEEEECCEEEECC--C---CHHHHH--HHHHCCCCCCCEECCCCCCCCCCCCEEEEEECCC
T ss_conf             973069999878687527--8---708999--9996598555122367878655553689985682


No 35 
>KOG2617 consensus
Probab=80.13  E-value=0.96  Score=25.06  Aligned_cols=25  Identities=24%  Similarity=0.456  Sum_probs=21.0

Q ss_pred             EEEEEEEEEECCCCEEEECCEEHHHHHH
Q ss_conf             8787565433447778989931999975
Q gi|254780355|r   51 SCKSKITFIDGNNGILLYRGYPIEQLSE   78 (429)
Q Consensus        51 ~ceS~IT~IDG~~G~L~YRGY~IedLa~   78 (429)
                      .||+  |++|.++|| +|||++|.++-.
T Consensus        71 ~~e~--s~Ld~~~gI-~frg~~i~e~q~   95 (458)
T KOG2617          71 LWET--SVLDPEEGI-RFRGGDIPECQK   95 (458)
T ss_pred             EECC--CCCCHHHCE-EECCCCHHHHHH
T ss_conf             2037--643610070-134897799985


No 36 
>PRK07569 bidirectional hydrogenase complex protein HoxU; Validated
Probab=78.60  E-value=2.7  Score=21.91  Aligned_cols=55  Identities=16%  Similarity=0.313  Sum_probs=38.4

Q ss_pred             CCCCEEEEEECCEEEEEEEECCCCCCCCEEECCCCCCC----EEEECCCCCCEEEEEEEEEEEECCCC
Q ss_conf             99876999989989997523077787510100115586----18988887862387875654334477
Q gi|254780355|r    1 MTDKFAKLHLGHEEIDLPIKEGSLGSSVLDISFLHKNG----IFTYDPAFSSTASCKSKITFIDGNNG   64 (429)
Q Consensus         1 M~~~~~~l~~~~~~~~lpi~~~~~~~~~~d~~~l~~~G----~~~~dpG~~~ta~ceS~IT~IDG~~G   64 (429)
                      |+-  +||+|||++++.|     .|...+|...  +.|    .+-|+|++...++|.-=+--|+|...
T Consensus         1 M~m--vtltIdG~~v~v~-----~G~tILeaa~--~~Gi~IP~LCy~~~l~~~G~CR~C~VEveG~~~   59 (236)
T PRK07569          1 MSV--KTLTIDDQLVSAR-----EGETILQAAR--EAGIPIPTLCHLEGVSDVGACRLCLVEVEGSNK   59 (236)
T ss_pred             CCE--EEEEECCEEEEEC-----CCCHHHHHHH--HCCCCCCEECCCCCCCCCCCCCCCEEEECCCCC
T ss_conf             973--8999999999968-----9895999999--859984725468993988866732799899853


No 37 
>TIGR01025 rpsS_arch ribosomal protein S19; InterPro: IPR005713   Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits.    Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , .    This family represents eukaryotic ribosomal protein S15 and its archaeal equivalent. It excludes bacterial and organellar ribosomal protein S19. The nomenclature for the archaeal members is unresolved and given variously as S19 (after the more distant bacterial homologs) or S15.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=77.59  E-value=1.5  Score=23.66  Aligned_cols=95  Identities=17%  Similarity=0.277  Sum_probs=50.7

Q ss_pred             EEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             89899319999750898999999981879998999999998864068998999999851247652578999999987520
Q gi|254780355|r   66 LLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFY  145 (429)
Q Consensus        66 L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~  145 (429)
                      ..||||++|+|. +-+++|++-||=      +.|-..+..      -+.++-.+++..+..          +--      
T Consensus         5 F~YrG~~Le~L~-~M~~~~l~kL~~------aR~RR~l~R------Gl~~~~~~ll~k~rk----------~k~------   55 (136)
T TIGR01025         5 FRYRGYTLEELL-DMSLEELAKLLP------ARQRRRLKR------GLTPKQKKLLKKLRK----------AKK------   55 (136)
T ss_pred             CCCCCCCHHHHH-CCCHHHHHHHCC------CCCCCCCCC------CCCHHHHHHHHHHHH----------HHH------
T ss_conf             100364579874-147888998706------333421102------877447899999999----------887------


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC--CCCC
Q ss_conf             68557678788988899999999999999999727985348--8864
Q gi|254780355|r  146 YSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVY--PRSD  190 (429)
Q Consensus       146 ~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~--Pd~~  190 (429)
                       +.............-+|=+-.+|.+++...-..+|++|+.  -.|+
T Consensus        56 -e~~~~g~~P~~~rTH~RdmiilPeMvG~~~~v~NGK~F~~V~i~PE  101 (136)
T TIGR01025        56 -EAKPKGEKPEVIRTHCRDMIILPEMVGLTVGVYNGKEFVEVEIKPE  101 (136)
T ss_pred             -HHHCCCCCCCEEEECCCCEEECCCCCCCEEEEECCCEEEEEEEEEE
T ss_conf             -4321468886002124421576423360778720865556774200


No 38 
>PRK04038 rps19p 30S ribosomal protein S19P; Provisional
Probab=76.91  E-value=2.8  Score=21.88  Aligned_cols=91  Identities=16%  Similarity=0.255  Sum_probs=50.3

Q ss_pred             CCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             47778989931999975089899999998187999899999999886406899899999985124765257899999998
Q gi|254780355|r   62 NNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGAL  141 (429)
Q Consensus        62 ~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL  141 (429)
                      .+....||||+++||- +-++||.+-||      ++.|-..|.      +-+...-..+++.+...-          .. 
T Consensus         3 r~k~FtYRG~~leeL~-~m~~eel~~Ll------paR~RR~l~------RGl~~~~~~Ll~klrkak----------~~-   58 (134)
T PRK04038          3 RRKEFTYRGYTLEELQ-EMSLEEFAELL------PARQRRSLK------RGLTPEQRKLLEKIRKAK----------RL-   58 (134)
T ss_pred             CCCEEEECCCCHHHHH-CCCHHHHHHHC------CHHHHHHHC------CCCCHHHHHHHHHHHHHH----------HC-
T ss_conf             6524576586699997-48999998761------467764540------377878999999999866----------43-


Q ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             752068557678788988899999999999999999727985348
Q gi|254780355|r  142 SSFYYSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVY  186 (429)
Q Consensus       142 ~a~~~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~  186 (429)
                       .  ..+..+       ..-+|=+-.+|.+++...-..+|+.++.
T Consensus        59 -~--~kp~~i-------kTh~R~~iIlPemvG~~i~VynGk~f~~   93 (134)
T PRK04038         59 -K--NKGRVI-------RTHCRDMIILPEMVGLTIAVYNGKEFVP   93 (134)
T ss_pred             -C--CCCCCE-------EEECCCCEECHHHCCCEEEEECCCEEEE
T ss_conf             -5--799862-------6733676868646471898963864788


No 39 
>TIGR01882 peptidase-T peptidase T; InterPro: IPR010161   Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site . The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases .   Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins.   Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule.    This entry represents metallopeptidases belonging to MEROPS peptidase family M20 (clan MH), subfamily M20B. They are tripeptide aminopeptidases commonly known as Peptidase T, which have a substrate preference for hydrophobic peptides.; GO: 0008270 zinc ion binding, 0016285 cytosol alanyl aminopeptidase activity, 0045148 tripeptide aminopeptidase activity, 0006518 peptide metabolic process, 0005737 cytoplasm.
Probab=75.63  E-value=1.6  Score=23.55  Aligned_cols=90  Identities=17%  Similarity=0.321  Sum_probs=57.9

Q ss_pred             CCCHHHHHHHHHHHHHHHHCCCC------CCHHHHHHHHHHHHH----HHHHHCCCCCCCCCCCHHH----HHHHHHCCC
Q ss_conf             55403468999999988860877------651799999999999----6115314579877844788----999998499
Q gi|254780355|r  310 NHDPRCRIMRETMYEVLEVTGRF------NDPIAQVAIELERIA----LEDEYFIERKLYPNVDFYS----GITLRALGF  375 (429)
Q Consensus       310 ~~DPRa~~l~~~~~~l~~~~~~~------~~~~~~~a~~le~~a----~~d~~~~~r~l~pNvDfys----g~i~~~lGi  375 (429)
                      +..-|-..||+.++++-++.|+.      +|-++..|.+||+.+    ++......-+|-||+|=-=    |-=+..||+
T Consensus       292 ~f~eRK~l~k~iv~kmn~E~G~~Rikl~~nDQYYNMa~~iek~~~IvdiAk~Amenlgiep~i~PiRGGTDGSqlsyMGL  371 (413)
T TIGR01882       292 KFEERKELMKEIVEKMNDEYGQDRIKLDMNDQYYNMAEKIEKDMEIVDIAKKAMENLGIEPKIEPIRGGTDGSQLSYMGL  371 (413)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHHCCCCEEECCCCCCCCCCCCEECCC
T ss_conf             52568999999999987651756423352632112587515643024788999985699610045457876121001678


Q ss_pred             C-HHHHH------------HHHHHHHHHHHHHHHHHH
Q ss_conf             9-66858------------999999998999999999
Q gi|254780355|r  376 P-TNLFT------------VLFAVARTAGWVSQWTEM  399 (429)
Q Consensus       376 p-~~~ft------------~iFa~~R~~Gw~AH~~Eq  399 (429)
                      | |++|+            ++=.+-.++-.+-.+++|
T Consensus       372 PtPNiFaGgENmHGrfEy~sv~~M~KaVdv~~eia~l  408 (413)
T TIGR01882       372 PTPNIFAGGENMHGRFEYVSVESMVKAVDVLVEIAKL  408 (413)
T ss_pred             CCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHH
T ss_conf             7876455886776516888754505589999999998


No 40 
>PTZ00096 40S ribosomal protein S15; Provisional
Probab=73.39  E-value=3  Score=21.63  Aligned_cols=90  Identities=20%  Similarity=0.246  Sum_probs=45.8

Q ss_pred             EEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             89899319999750898999999981879998999999998864068998999999851247652578999999987520
Q gi|254780355|r   66 LLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFY  145 (429)
Q Consensus        66 L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~  145 (429)
                      ..||||+++||- .-+++|.+-||      .+.|-..|.      +-+...-..+++.+..          +-... ...
T Consensus        16 FtYRG~~leeL~-~m~~eel~~L~------pAR~RR~l~------RGl~~~~~~Ll~klrk----------ak~~~-~~~   71 (144)
T PTZ00096         16 FTYRGLELEKLL-ALSEEELVELL------RARQRRRIS------RHLKRRAPNLLKKLRK----------AKKEV-KPG   71 (144)
T ss_pred             EEECCCCHHHHH-CCCHHHHHHHH------HHHHHHHHC------CCCCHHHHHHHHHHHH----------HHHHC-CCC
T ss_conf             445267699997-48999998771------245643530------4998899999999999----------77635-456


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             68557678788988899999999999999999727985348
Q gi|254780355|r  146 YSPSGVQDLEQCVNVSLRMIAKISTIAAMIYKYSIGQPFVY  186 (429)
Q Consensus       146 ~~~~~~~d~~~~~~~a~rLiA~~p~i~A~~yr~~~G~~~i~  186 (429)
                      ..+..       ...-+|=+-.+|.+++......+|+.++.
T Consensus        72 eKp~~-------ikTh~R~~iIlPemvG~~v~VynGk~f~~  105 (144)
T PTZ00096         72 EKPKP-------VKTHLRNMVIVPEMVGSIVGVYNGRQFNN  105 (144)
T ss_pred             CCCCC-------EEECCCCCEECCHHCCEEEEEECCCEEEE
T ss_conf             78976-------47704777768201360898864851576


No 41 
>KOG3041 consensus
Probab=71.87  E-value=3.9  Score=20.85  Aligned_cols=68  Identities=26%  Similarity=0.427  Sum_probs=34.3

Q ss_pred             EEEEEE--ECCCCCCCCEEECCCC-CCC----------EEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHC
Q ss_conf             999752--3077787510100115-586----------189888878623878756543344777898993199997508
Q gi|254780355|r   14 EIDLPI--KEGSLGSSVLDISFLH-KNG----------IFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKS   80 (429)
Q Consensus        14 ~~~lpi--~~~~~~~~~~d~~~l~-~~G----------~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~   80 (429)
                      .+|||-  ++..+....--+|.|. +||          ....||||+|+--|-+... |||+.-.   --.|..+|- .-
T Consensus       104 ciElPAGLiD~ge~~~~aAiREl~EEtGy~gkv~~~s~~~f~DPGltn~~~~iv~v~-idg~~pE---nqrp~q~le-dg  178 (225)
T KOG3041         104 CIELPAGLIDDGEDFEGAAIRELEEETGYKGKVDMVSPTVFLDPGLTNCNLCIVVVD-IDGDVPE---NQRPVQQLE-DG  178 (225)
T ss_pred             EEECCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECCCCEECCCCCCCCCEEEEEEE-ECCCCCC---CCCCCCCCC-CC
T ss_conf             897235543489766788899888874855314412630772798888715899999-4388710---158665678-88


Q ss_pred             CHHHHH
Q ss_conf             989999
Q gi|254780355|r   81 DFLEVC   86 (429)
Q Consensus        81 sFeEVa   86 (429)
                      .|.||.
T Consensus       179 EfIev~  184 (225)
T KOG3041         179 EFIEVF  184 (225)
T ss_pred             CEEEEE
T ss_conf             569999


No 42 
>KOG1182 consensus
Probab=71.69  E-value=2.8  Score=21.85  Aligned_cols=19  Identities=32%  Similarity=0.878  Sum_probs=17.1

Q ss_pred             CCCEEEECCEEHHHHHHHC
Q ss_conf             4777898993199997508
Q gi|254780355|r   62 NNGILLYRGYPIEQLSEKS   80 (429)
Q Consensus        62 ~~G~L~YRGY~IedLa~~~   80 (429)
                      +.|.|.||||++|+.+++|
T Consensus       146 EaGVLlwRgftle~f~~qC  164 (432)
T KOG1182         146 EAGVLLWRGFTLEEFMNQC  164 (432)
T ss_pred             CCCEEEECCCCHHHHHHHH
T ss_conf             5736888485299999874


No 43 
>PRK08493 NADH dehydrogenase subunit G; Validated
Probab=71.38  E-value=4.2  Score=20.63  Aligned_cols=52  Identities=19%  Similarity=0.288  Sum_probs=22.4

Q ss_pred             EEEEECCEEEEEEEECCCCCCCCEEECCCCC--CCEEEECCCCCCEEEEEEEEEEEECC
Q ss_conf             9999899899975230777875101001155--86189888878623878756543344
Q gi|254780355|r    6 AKLHLGHEEIDLPIKEGSLGSSVLDISFLHK--NGIFTYDPAFSSTASCKSKITFIDGN   62 (429)
Q Consensus         6 ~~l~~~~~~~~lpi~~~~~~~~~~d~~~l~~--~G~~~~dpG~~~ta~ceS~IT~IDG~   62 (429)
                      ++++|||++++.|     .|...+|.-+-..  -=.+.|+|++.-+++|..=+--|||+
T Consensus         2 v~i~Idg~~~~~~-----~g~til~aa~~~gi~IP~lCy~~~l~p~g~Cr~C~VEv~G~   55 (819)
T PRK08493          2 ITININGKEIECQ-----EGEYILNAARRNGIFIPAICYLSGCSPTLACRLCMVEADGK   55 (819)
T ss_pred             CEEEECCEEEEEC-----CCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEECCC
T ss_conf             1899999999969-----99979999997399856144899929688776638987894


No 44 
>PRK07860 NADH dehydrogenase subunit G; Validated
Probab=71.03  E-value=5.1  Score=20.03  Aligned_cols=66  Identities=17%  Similarity=0.358  Sum_probs=37.8

Q ss_pred             CCEEEEEECCEEEEEEEECCCCCCCCEEECCCCCCC----EEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHH
Q ss_conf             876999989989997523077787510100115586----1898888786238787565433447778989931999
Q gi|254780355|r    3 DKFAKLHLGHEEIDLPIKEGSLGSSVLDISFLHKNG----IFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQ   75 (429)
Q Consensus         3 ~~~~~l~~~~~~~~lpi~~~~~~~~~~d~~~l~~~G----~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~Ied   75 (429)
                      .+.+||+||||+++.|  +   |...++.-  .+.|    .|.|+|.+...++|.-=+--|+|..+..-=.--++.|
T Consensus        14 ~~mv~l~Idg~~v~v~--~---g~til~aa--~~~Gi~IP~fC~h~~L~~~g~CR~ClVev~g~~~~~~sC~tpv~~   83 (809)
T PRK07860         14 PELVTLTIDGVEVSVP--K---GTLVIRAA--ELIGIQIPRFCDHPLLDPVGACRQCLVEVEGQRKPLASCTTTVTD   83 (809)
T ss_pred             CCCEEEEECCEEEEEC--C---CCHHHHHH--HHCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCC
T ss_conf             8806999999999969--9---99899999--974998565679999598886645289989996788061876899


No 45 
>PRK13866 plasmid partitioning protein RepB; Provisional
Probab=69.23  E-value=3.9  Score=20.87  Aligned_cols=24  Identities=8%  Similarity=0.109  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             99999999899999999970789830
Q gi|254780355|r  382 VLFAVARTAGWVSQWTEMIVDPSRRI  407 (429)
Q Consensus       382 ~iFa~~R~~Gw~AH~~Eq~~~~~~ri  407 (429)
                      .=|...|...+.+.|.++.  ++.++
T Consensus       311 ~~fL~~~L~~Ly~eF~~~~--Gg~~~  334 (336)
T PRK13866        311 GEYVADQLDSLYAQFIETN--GGGKL  334 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHC--CCCCC
T ss_conf             9999988999999999864--89877


No 46 
>pfam07249 Cerato-platanin Cerato-platanin. This family contains a number of fungal cerato-platanin phytotoxic proteins approximately 150 residues long. Cerato-platanin contains four cysteine residues that form two disulphide bonds.
Probab=64.84  E-value=6.7  Score=19.23  Aligned_cols=32  Identities=28%  Similarity=0.717  Sum_probs=23.7

Q ss_pred             EEECCCCCCEEEEEEEEEEEECCCCEEEECCEE
Q ss_conf             898888786238787565433447778989931
Q gi|254780355|r   40 FTYDPAFSSTASCKSKITFIDGNNGILLYRGYP   72 (429)
Q Consensus        40 ~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~   72 (429)
                      ++||++|-+-...-+..+--||.+| |.=|||+
T Consensus         3 vsYD~~YD~~~~sl~~vaCSdG~nG-L~tk~~~   34 (119)
T pfam07249         3 VSYDPGYDDANRSMGSVSCSDGDNG-LMTKYWP   34 (119)
T ss_pred             EEECCCCCCCCCEEEEEEECCCCCC-CEECCCC
T ss_conf             7743876778872425886499875-2416632


No 47 
>TIGR03454 partition_RepB plasmid partitioning protein RepB. Members of this family are the RepB protein involved in replicon partitioning. RepB is found, in general, as part of a repABC operon in plasmids and small chromosomes, separate from the main chromosome, in various bacteria. This model describes a rather narrow clade of proteins; it should be noted that additional homologs scoring below the trusted cutoff have very similar functions, although they may be named differently.
Probab=58.70  E-value=6.5  Score=19.30  Aligned_cols=10  Identities=30%  Similarity=0.627  Sum_probs=5.3

Q ss_pred             CCCCHHHHHH
Q ss_conf             8864246887
Q gi|254780355|r  187 PRSDLDYASN  196 (429)
Q Consensus       187 Pd~~lsyaeN  196 (429)
                      .+.+|||.|-
T Consensus       157 ~R~dLSfIEr  166 (325)
T TIGR03454       157 ARRDLSFIER  166 (325)
T ss_pred             HCCCCCHHHH
T ss_conf             2146779999


No 48 
>PRK09129 NADH dehydrogenase subunit G; Validated
Probab=54.52  E-value=13  Score=17.16  Aligned_cols=10  Identities=30%  Similarity=0.205  Sum_probs=5.4

Q ss_pred             HHHHCCCCHH
Q ss_conf             0222035289
Q gi|254780355|r  261 GRAHGGANEE  270 (429)
Q Consensus       261 GPlHGGAne~  270 (429)
                      |.+.+|+|..
T Consensus       505 g~l~~~~N~~  514 (777)
T PRK09129        505 GFLTEAANSV  514 (777)
T ss_pred             CCCCCCCHHH
T ss_conf             4279854037


No 49 
>KOG4183 consensus
Probab=53.40  E-value=16  Score=16.55  Aligned_cols=15  Identities=27%  Similarity=0.386  Sum_probs=9.0

Q ss_pred             CCCCEEEECCEEHHH
Q ss_conf             447778989931999
Q gi|254780355|r   61 GNNGILLYRGYPIEQ   75 (429)
Q Consensus        61 G~~G~L~YRGY~Ied   75 (429)
                      |+.-+|.|-||.--+
T Consensus        62 geteRleyvg~n~s~   76 (413)
T KOG4183          62 GETERLEYVGNNFST   76 (413)
T ss_pred             CCCCEEEEEECCCCH
T ss_conf             787526887046534


No 50 
>KOG0416 consensus
Probab=53.10  E-value=6.4  Score=19.39  Aligned_cols=18  Identities=11%  Similarity=0.115  Sum_probs=7.0

Q ss_pred             CCCCEEEEEECCEEEEEEE
Q ss_conf             9987699998998999752
Q gi|254780355|r    1 MTDKFAKLHLGHEEIDLPI   19 (429)
Q Consensus         1 M~~~~~~l~~~~~~~~lpi   19 (429)
                      ||+-.++ .+||+.-|+-|
T Consensus        17 ~s~yeV~-~ind~m~ef~V   34 (189)
T KOG0416          17 MSDYEVT-IINDGMQEFYV   34 (189)
T ss_pred             HCCCEEE-EECCCCCEEEE
T ss_conf             5387688-86586408899


No 51 
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=51.32  E-value=5.4  Score=19.86  Aligned_cols=32  Identities=41%  Similarity=0.679  Sum_probs=18.8

Q ss_pred             CCCCEEEEEEEEEEEECCC--------C--EEEECCEEHHHHH
Q ss_conf             8786238787565433447--------7--7898993199997
Q gi|254780355|r   45 AFSSTASCKSKITFIDGNN--------G--ILLYRGYPIEQLS   77 (429)
Q Consensus        45 G~~~ta~ceS~IT~IDG~~--------G--~L~YRGY~IedLa   77 (429)
                      .-.|+|+|.-=|-|+ |.+        |  +|.|||||=.=+|
T Consensus        71 ~~~~~~~~CGIvGyv-g~~~a~~iLl~GL~rLEYRGYDSAGIA  112 (691)
T PTZ00295         71 SVPNKASCCGIIGYV-GNRDASKILLDGIEILQNRGYDSCGMS  112 (691)
T ss_pred             CCCCCCCCEEEEEEE-ECCCCHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             368988731079999-087748999998888611552604489


No 52 
>pfam07583 PSCyt2 Protein of unknown function (DUF1549). A family of paralogues in the planctomyces.
Probab=50.32  E-value=12  Score=17.56  Aligned_cols=45  Identities=11%  Similarity=0.115  Sum_probs=31.8

Q ss_pred             HHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             99750898999999981879998999999998864068998999999851
Q gi|254780355|r   75 QLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGF  124 (429)
Q Consensus        75 dLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~  124 (429)
                      ..|...+|.==+||=+.|.+||.+|.++|...     .-|+.-.++++.+
T Consensus        20 ~~a~d~~flRRv~LDl~G~iPt~~E~~~Fl~d-----~~~~kr~~lID~L   64 (200)
T pfam07583        20 PEADDATLLRRVSLDLTGLPPTPEEVRAFLAD-----QSPDAREKLVDRL   64 (200)
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCHHHHHHHHCC-----CCHHHHHHHHHHH
T ss_conf             88888899999999983889699999988706-----9789999999999


No 53 
>PRK08166 NADH dehydrogenase subunit G; Validated
Probab=50.15  E-value=10  Score=17.96  Aligned_cols=18  Identities=22%  Similarity=-0.068  Sum_probs=11.1

Q ss_pred             CCCEEEECCEEHHHHHHH
Q ss_conf             477789899319999750
Q gi|254780355|r   62 NNGILLYRGYPIEQLSEK   79 (429)
Q Consensus        62 ~~G~L~YRGY~IedLa~~   79 (429)
                      ++|.|.-||+---|..++
T Consensus       258 N~g~LC~KGrf~~~~v~~  275 (858)
T PRK08166        258 NGYFLCDRGRFGYGYVNL  275 (858)
T ss_pred             CCCCCCCCCCCHHHHHCC
T ss_conf             677657332413655357


No 54 
>COG1034 NuoG NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]
Probab=49.97  E-value=18  Score=16.33  Aligned_cols=50  Identities=26%  Similarity=0.628  Sum_probs=31.6

Q ss_pred             EEEEECCEEEEEEEECCCCCCCCEEECCCCCCC----EEEECCCCCCEEEEEEEEEEEECC
Q ss_conf             999989989997523077787510100115586----189888878623878756543344
Q gi|254780355|r    6 AKLHLGHEEIDLPIKEGSLGSSVLDISFLHKNG----IFTYDPAFSSTASCKSKITFIDGN   62 (429)
Q Consensus         6 ~~l~~~~~~~~lpi~~~~~~~~~~d~~~l~~~G----~~~~dpG~~~ta~ceS~IT~IDG~   62 (429)
                      +||++||++++.|=     |..++..-  ++.|    .|.|.|++..++.|.==.-.++|.
T Consensus         2 ~tI~IDG~ei~v~~-----g~tvLqAa--~~aGi~IP~fCyh~~ls~~GaCRmClVEveg~   55 (693)
T COG1034           2 VTITIDGKEIEVPE-----GETVLQAA--REAGIDIPTFCYHPRLSIAGACRMCLVEVEGA   55 (693)
T ss_pred             EEEEECCEEEECCC-----CCHHHHHH--HHCCCCCCCCCCCCCCCCCCCEEEEEEEECCC
T ss_conf             39998998986189-----72899999--98599877210357887445325779996688


No 55 
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase, isomerizing; InterPro: IPR005855    Glucosamine:fructose-6-phosphate aminotransferase (2.6.1.16 from EC) catalyses the formation of glucosamine 6-phosphate and is the first and rate-limiting enzyme of the hexosamine biosynthetic pathway. The final product of the hexosamine pathway, UDP-N-acetyl glucosamine, is an active precursor of numerous macromolecules containing amino sugars.   This family of sequences belong to the MEROPS peptidase family C44 (clan PB(C)), and are classified as non-peptidase homologs.; GO: 0004360 glutamine-fructose-6-phosphate transaminase (isomerizing) activity, 0016051 carbohydrate biosynthetic process, 0005737 cytoplasm.
Probab=49.11  E-value=4.4  Score=20.52  Aligned_cols=72  Identities=21%  Similarity=0.250  Sum_probs=40.7

Q ss_pred             CCCHHHHHHHHHHHHEECCCC-CCCH--HHHHHHHHCCCCCHHHHHHHHHHHHHHHH-HCCCCHHHHHHHHHCCCCCHHH
Q ss_conf             479699999875635013678-7630--15555442056542467767554210022-2035289999986215535127
Q gi|254780355|r  210 QVNPLLARAMNRIFILHADHE-QNAS--TSTVRLAGSSGADPFACIAAGVACLGGRA-HGGANEEALNMLMEIGSLERIP  285 (429)
Q Consensus       210 ~~~~~~~~ald~~LILhADHe-~NaS--Tft~R~vaSt~adlysai~agi~aL~GPl-HGGAne~v~~ml~~I~~~~~v~  285 (429)
                      .+.-...|--|..|-+||==| +=||  |||+-+++      ...++..++-..|-+ +.   +.+-+..+.+   ...|
T Consensus       390 v~gS~l~Re~D~~L~t~AGpEIGVAsTKaFt~Ql~~------L~~L~~~~a~~~g~~~~~---~~~~~~~~~L---~~lP  457 (628)
T TIGR01135       390 VPGSTLTREADHTLYTRAGPEIGVASTKAFTAQLTV------LYLLALALAKARGTLSDA---EEEAELVDAL---RRLP  457 (628)
T ss_pred             CCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH------HHHHHHHHHHHCCCCCCH---HHHHHHHHHH---HHHH
T ss_conf             687533578778776506971114545889999999------999999999853755587---8999999998---7506


Q ss_pred             HHHHHHHH
Q ss_conf             99999982
Q gi|254780355|r  286 HYIMRAKD  293 (429)
Q Consensus       286 ~~i~~~~~  293 (429)
                      +.+++.+.
T Consensus       458 ~~~~~~l~  465 (628)
T TIGR01135       458 ELVEQVLK  465 (628)
T ss_pred             HHHHHHHH
T ss_conf             99999870


No 56 
>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=45.91  E-value=9.4  Score=18.23  Aligned_cols=175  Identities=14%  Similarity=0.194  Sum_probs=77.7

Q ss_pred             HHHHHHCCCCCHHHHHHHHHH--------CCCCCHHHH----HHHHH-HHHHHHHCC-CCCC---CCHHHHHH-HHHHHH
Q ss_conf             998864068998999999851--------247652578----99999-998752068-5576---78788988-899999
Q gi|254780355|r  104 NDKISRHALLNENMSRFFMGF--------PSSAHPMAM----LVSAV-GALSSFYYS-PSGV---QDLEQCVN-VSLRMI  165 (429)
Q Consensus       104 ~~~l~~~~~lpe~v~~~i~~~--------p~~ahPM~~----L~~~v-saL~a~~~~-~~~~---~d~~~~~~-~a~rLi  165 (429)
                      .+-.+..+.|.+.|.+-+-.-        -.|-.|.++    -++.| ..|..-.++ +..+   +|.+...+ .+..++
T Consensus        10 ~~av~~AS~Lt~kvq~~l~~~k~~~~~~sK~D~SPVTvaDyG~QAiv~~~L~~~f~~~~lSiVaEEdS~~L~~~~S~~~~   89 (382)
T TIGR01330        10 VKAVRLASLLTKKVQEKLIKEKDAADVLSKDDKSPVTVADYGAQAIVILVLKEEFPDDPLSIVAEEDSEDLREDDSADTL   89 (382)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHCHHHHHHHH
T ss_conf             99999988878999998626555676301368768001003589999999998568997268986165200221356899


Q ss_pred             HHHHHHHHHHHHHHC--CC-CCCCCCC---CHHHHHHHHHHHC------CCCCCCCCCCHH-----------HHHHHHHH
Q ss_conf             999999999999727--98-5348886---4246887787642------898410147969-----------99998756
Q gi|254780355|r  166 AKISTIAAMIYKYSI--GQ-PFVYPRS---DLDYASNFLHMCF------SVPCAEYQVNPL-----------LARAMNRI  222 (429)
Q Consensus       166 A~~p~i~A~~yr~~~--G~-~~i~Pd~---~lsyaeNfL~Ml~------~~~~~~~~~~~~-----------~~~ald~~  222 (429)
                      ..+--++.-.-.+..  ++ +|...+.   -+| ++.+|..+-      |.....|..||+           .+=|  .+
T Consensus        90 ~~v~~~v~~~~~~~~~Y~~~dflftn~~~~~~S-~~d~l~~Id~G~y~GGr~GR~W~LDPiDGTkGFlRG~QYAva--LA  166 (382)
T TIGR01330        90 GRVSELVNETLAEAKNYKKDDFLFTNELVKLKS-AEDLLKIIDRGNYEGGRKGRHWVLDPIDGTKGFLRGDQYAVA--LA  166 (382)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCC-HHHHHHHHHCCCCCCCCCCCEEEECCCCCCCCCCCHHHHHHH--HH
T ss_conf             999998765788886258865044246667568-899999862578898889875771675676556225689999--87


Q ss_pred             HH--------------EECCC--CCCCHHHHHHHHHCCCCCHHHHHHHHH---H-HHHHHHHCC--CCHHHHHHHHHCCC
Q ss_conf             35--------------01367--876301555544205654246776755---4-210022203--52899999862155
Q gi|254780355|r  223 FI--------------LHADH--EQNASTSTVRLAGSSGADPFACIAAGV---A-CLGGRAHGG--ANEEALNMLMEIGS  280 (429)
Q Consensus       223 LI--------------LhADH--e~NaSTft~R~vaSt~adlysai~agi---~-aL~GPlHGG--Ane~v~~ml~~I~~  280 (429)
                      ||              |--+.  .+|--.-+.+.=+-++++...||-.|.   | |.-=+||-+  +.+.+.=-+.++.+
T Consensus       167 Lie~Gkv~lg~lGCPNlp~~~~~~~~~~nqamktK~~~g~~~~G~i~~A~rg~Gqaf~y~L~~~Gi~~s~~~v~v~~v~d  246 (382)
T TIGR01330       167 LIENGKVVLGVLGCPNLPLKSEAAQNEKNQAMKTKAKAGSESKGCIFYAVRGSGQAFMYSLSSEGIKESPVKVHVSSVED  246 (382)
T ss_pred             HHHCCCEEEEEEECCCCCHHHHCCCCHHHHHHHHHHCCCCCCCCEEEEEEECCCCEEEECCCCCCCCCCCEEEEEEECCC
T ss_conf             65279079998606885101102683023455421004677641589866368721520666687046735787741468


Q ss_pred             C
Q ss_conf             3
Q gi|254780355|r  281 L  281 (429)
Q Consensus       281 ~  281 (429)
                      +
T Consensus       247 t  247 (382)
T TIGR01330       247 T  247 (382)
T ss_pred             C
T ss_conf             1


No 57 
>PRK07440 hypothetical protein; Provisional
Probab=44.92  E-value=17  Score=16.40  Aligned_cols=17  Identities=18%  Similarity=0.188  Sum_probs=15.2

Q ss_pred             CCCCEEEEEECCEEEEEE
Q ss_conf             998769999899899975
Q gi|254780355|r    1 MTDKFAKLHLGHEEIDLP   18 (429)
Q Consensus         1 M~~~~~~l~~~~~~~~lp   18 (429)
                      ||+ +.++++|||+++++
T Consensus         1 m~~-~i~I~vNGe~~~~~   17 (70)
T PRK07440          1 MSN-PITLQVNGETRTCS   17 (70)
T ss_pred             CCC-CCEEEECCEEEECC
T ss_conf             998-41999999887859


No 58 
>pfam07587 PSD1 Protein of unknown function (DUF1553). A family of proteins found in Rhodopirellula baltica.
Probab=44.85  E-value=22  Score=15.67  Aligned_cols=19  Identities=16%  Similarity=0.280  Sum_probs=7.6

Q ss_pred             HHHHHHHHCCCCCCCCCCC
Q ss_conf             9999997279853488864
Q gi|254780355|r  172 AAMIYKYSIGQPFVYPRSD  190 (429)
Q Consensus       172 ~A~~yr~~~G~~~i~Pd~~  190 (429)
                      +--++.+.-|..++.|=++
T Consensus        23 vNR~W~~~fG~GlV~pvdd   41 (258)
T pfam07587        23 VNRVWQHLFGRGLVDTVDD   41 (258)
T ss_pred             HHHHHHHHCCCCCCCCHHH
T ss_conf             9999999729977388566


No 59 
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=43.68  E-value=23  Score=15.55  Aligned_cols=82  Identities=16%  Similarity=0.175  Sum_probs=49.9

Q ss_pred             CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCCHH-HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             53512799999982147861430277435555403-46899999998886087765179999999999961153145798
Q gi|254780355|r  280 SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHDPR-CRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKL  358 (429)
Q Consensus       280 ~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPR-a~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l  358 (429)
                      ..+|..+-|++.++++-...|+|.-  +-.++.+| ......+..+++++.+.   +++...  ++.++........-++
T Consensus        93 ~~~NL~~ii~~~~~~g~~vlL~g~~--~p~n~g~~y~~~f~~iy~~lA~e~~v---~l~pf~--l~~v~~~~~~~q~Dgi  165 (191)
T PRK10528         93 TEQTLRQIIQDVKAANAQPLLMQIR--LPANYGRRYNEAFSAIYPKLAKEFDI---PLLPFF--MEEVYLKPQWMQDDGI  165 (191)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEECC--CCCCCCHHHHHHHHHHHHHHHHHHCC---CEEHHH--HHHHCCCHHHCCCCCC
T ss_conf             9999999999999889978997065--67551266788899999999998099---741378--8756359755288889


Q ss_pred             CCCCCHHHHH
Q ss_conf             7784478899
Q gi|254780355|r  359 YPNVDFYSGI  368 (429)
Q Consensus       359 ~pNvDfysg~  368 (429)
                      |||.+-|.-+
T Consensus       166 HPN~~G~~~i  175 (191)
T PRK10528        166 HPNRDAQPFI  175 (191)
T ss_pred             CCCHHHHHHH
T ss_conf             9598899999


No 60 
>TIGR00588 ogg 8-oxoguanine DNA-glycosylase (ogg); InterPro: IPR004577 All proteins in this family for which functions are known are 8-oxo-guanaine DNA glycosylases that function in base excision repair. The enzyme incises DNA at 8-oxoG residues, and excises 7,8-dihydro-8-oxoguanine from damaged DNA. It has beta-lyase activity that nicks DNA 3' to the lesion.; GO: 0008534 oxidized purine base lesion DNA N-glycosylase activity, 0006281 DNA repair, 0005634 nucleus.
Probab=42.66  E-value=24  Score=15.44  Aligned_cols=33  Identities=33%  Similarity=0.516  Sum_probs=23.9

Q ss_pred             HHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC
Q ss_conf             99999982147861430277435555403468999999988860877
Q gi|254780355|r  286 HYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRF  332 (429)
Q Consensus       286 ~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~  332 (429)
                      +|--+.|      |=.|||-        ||+.+.+.++.++++.+..
T Consensus       219 dfsfn~L------R~lG~GY--------RA~Yi~~tar~l~ee~~~~  251 (379)
T TIGR00588       219 DFSFNHL------RKLGLGY--------RARYIRETARALLEEQGGR  251 (379)
T ss_pred             CCCHHHH------HHCCCCC--------CCHHHHHHHHHHHHHCCCC
T ss_conf             3462657------5248875--------4068999999988412664


No 61 
>TIGR02123 TRAP_fused TRAP transporter, 4TM/12TM fusion protein; InterPro: IPR011853    In some species, the 12-transmembrane spanning and 4-transmembrane spanning components of tripartite ATP-independent periplasmic (TRAP)-type transporters are fused. This entry describes such transporters, found in the archaea and in bacteria..
Probab=42.29  E-value=10  Score=18.03  Aligned_cols=34  Identities=26%  Similarity=0.188  Sum_probs=15.4

Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHH-------HHHHHHCCCCHHH
Q ss_conf             155554420565424677675542-------1002220352899
Q gi|254780355|r  235 TSTVRLAGSSGADPFACIAAGVAC-------LGGRAHGGANEEA  271 (429)
Q Consensus       235 Tft~R~vaSt~adlysai~agi~a-------L~GPlHGGAne~v  271 (429)
                      .+-.-+.+|+=||   .|++|.-+       -..|.--||-|++
T Consensus       225 al~G~~sGSsvAN---vVttG~fTIPlMKr~Gy~~~fAgAvEAa  265 (681)
T TIGR02123       225 ALMGMISGSSVAN---VVTTGSFTIPLMKRAGYKPEFAGAVEAA  265 (681)
T ss_pred             HHHHHHHHHHHHH---HHHHHCCHHHHHHHCCCCCCCHHHHHHH
T ss_conf             7887789999988---8852000035676377797741666887


No 62 
>pfam02332 Phenol_Hydrox Methane/Phenol/Toluene Hydroxylase. Bacterial phenol hydroxylase is a multicomponent enzyme that catabolizes phenol and some of its methylated derivatives. This Pfam family contains both the P1 and P3 polypeptides of phenol hydroxylase and the alpha and beta chain of methane hydroxylase protein A.
Probab=40.17  E-value=26  Score=15.19  Aligned_cols=105  Identities=23%  Similarity=0.365  Sum_probs=59.6

Q ss_pred             CCHHHHHHHHHHH--HEECCCCCC-CHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHH
Q ss_conf             7969999987563--501367876-3015555442056542467767554210022203528999998621553512799
Q gi|254780355|r  211 VNPLLARAMNRIF--ILHADHEQN-ASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPHY  287 (429)
Q Consensus       211 ~~~~~~~ald~~L--ILhADHe~N-aSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~~  287 (429)
                      .+|...+.|-..|  +-|+||+.+ ++.+.+|..-|+.                    =.|-.++.+++++.-.. ...+
T Consensus        67 l~~~w~~~l~~~l~~~~~~E~ga~~~~a~~~r~~~~~~--------------------~~n~~~~~a~DelR~~Q-~~~~  125 (233)
T pfam02332        67 LDPGWRETLKRHYGPLRYVEYGANMANAYIARFAPAPT--------------------IRNCATFQALDELRHLQ-RQAY  125 (233)
T ss_pred             CCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCHH--------------------HHHHHHHHHHHHHHHHH-HHHH
T ss_conf             99999999999970121899999998999998658899--------------------99999998879999999-9999


Q ss_pred             HHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             99998214786143027743555540346899999998886087765179999999
Q gi|254780355|r  288 IMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIEL  343 (429)
Q Consensus       288 i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~l  343 (429)
                      ....+.+..+  =++++||-+-..||--..+|+++++++...    | +++....+
T Consensus       126 ~~~~l~~~~~--~~~~~~k~~w~~dp~wq~~R~~~E~~~~~~----D-w~E~~va~  174 (233)
T pfam02332       126 FLHELAKADP--DFDWGQRAYWTNDPAWQGLRRLFEDILVTQ----D-WVEAFIAL  174 (233)
T ss_pred             HHHHHHHCCC--CCCHHHHHHHHHCCHHHHHHHHHHHHHHHC----C-HHHHHHHH
T ss_conf             9987752288--868489998861833789999999888607----8-99999999


No 63 
>pfam00591 Glycos_transf_3 Glycosyl transferase family, a/b domain. This family includes anthranilate phosphoribosyltransferase (TrpD), thymidine phosphorylase. All these proteins can transfer a phosphorylated ribose substrate.
Probab=39.89  E-value=24  Score=15.35  Aligned_cols=10  Identities=20%  Similarity=0.567  Sum_probs=4.1

Q ss_pred             HHHHEECCCC
Q ss_conf             5635013678
Q gi|254780355|r  221 RIFILHADHE  230 (429)
Q Consensus       221 ~~LILhADHe  230 (429)
                      ..||.|-+-|
T Consensus       143 ~a~vV~g~dG  152 (254)
T pfam00591       143 RALVVHGGDG  152 (254)
T ss_pred             EEEEEECCCC
T ss_conf             5899971799


No 64 
>COG0343 Tgt Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]
Probab=39.75  E-value=17  Score=16.40  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=15.0

Q ss_pred             HHHHHHHHHCCCCCEEECCCCCC
Q ss_conf             79999998214786143027743
Q gi|254780355|r  285 PHYIMRAKDKNDPFRIMGFGHRV  307 (429)
Q Consensus       285 ~~~i~~~~~~~~~~ri~GfGHrv  307 (429)
                      -.++...+-.+++..+||.||+.
T Consensus       225 l~~~~~~Lp~~kPryLmGvG~P~  247 (372)
T COG0343         225 LEATKPLLPEDKPRYLMGVGHPE  247 (372)
T ss_pred             HHHHHCCCCCCCCEEEECCCCHH
T ss_conf             99864008999987755687989


No 65 
>KOG0138 consensus
Probab=39.31  E-value=27  Score=15.10  Aligned_cols=49  Identities=24%  Similarity=0.311  Sum_probs=33.6

Q ss_pred             HCCCCCHHHHHHHH-HHHHHHHHHCCCCHHHHHHHHH-------CCCCCHHHHHHHHHH
Q ss_conf             20565424677675-5421002220352899999862-------155351279999998
Q gi|254780355|r  242 GSSGADPFACIAAG-VACLGGRAHGGANEEALNMLME-------IGSLERIPHYIMRAK  292 (429)
Q Consensus       242 aSt~adlysai~ag-i~aL~GPlHGGAne~v~~ml~~-------I~~~~~v~~~i~~~~  292 (429)
                      +++..+|+.|+.-+ ++--|||+  ||.|.|++|-..       .|.|-...+.+.+.+
T Consensus       276 ~~s~qgpf~cLnnaR~giAWg~l--Gase~c~~~arqY~ldRkQFG~PLAanQL~Q~Kl  332 (432)
T KOG0138         276 ASSLQGPFGCLNNARYGIAWGAL--GASEFCLHTARQYTLDRKQFGRPLAANQLIQKKL  332 (432)
T ss_pred             CCCCCCCHHHHHHHHHHEEEHHC--HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             31137836555333441010002--0678999999999888887587126778999999


No 66 
>PRK00112 tgt queuine tRNA-ribosyltransferase; Provisional
Probab=37.89  E-value=22  Score=15.67  Aligned_cols=50  Identities=34%  Similarity=0.424  Sum_probs=26.6

Q ss_pred             HHHHHHHCCCCHHH----HHHHHH-------CC--C---C-C---HHHHHHHHHHHCCCCCEEECCCCCC
Q ss_conf             21002220352899----999862-------15--5---3-5---1279999998214786143027743
Q gi|254780355|r  258 CLGGRAHGGANEEA----LNMLME-------IG--S---L-E---RIPHYIMRAKDKNDPFRIMGFGHRV  307 (429)
Q Consensus       258 aL~GPlHGGAne~v----~~ml~~-------I~--~---~-~---~v~~~i~~~~~~~~~~ri~GfGHrv  307 (429)
                      +|+|+.+||-.+..    .+-+.+       ||  +   + +   ++-+++...+..+++.-|||-||+.
T Consensus       183 ~lfgiVQGG~~~dLR~~Sa~~l~~~~f~G~aIGGlsvGe~~~~~~~il~~~~~~LP~~kPryLmGvG~P~  252 (366)
T PRK00112        183 ALFGIVQGGVYEDLREESAKGLVEIDFDGYAIGGLSVGEPKEEMYRILEHTAPLLPEDKPRYLMGVGTPE  252 (366)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHCCCCEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEECCCCHH
T ss_conf             3887415766799999999999848984885467456778999999999987448877755653589989


No 67 
>KOG0205 consensus
Probab=37.73  E-value=18  Score=16.24  Aligned_cols=63  Identities=22%  Similarity=0.290  Sum_probs=37.1

Q ss_pred             CCCEEEEEECCEEEE--EE-EE-C---------------CCCCCCCEEECC---CC--C---CCEEEECCCCCCEEEEEE
Q ss_conf             987699998998999--75-23-0---------------777875101001---15--5---861898888786238787
Q gi|254780355|r    2 TDKFAKLHLGHEEID--LP-IK-E---------------GSLGSSVLDISF---LH--K---NGIFTYDPAFSSTASCKS   54 (429)
Q Consensus         2 ~~~~~~l~~~~~~~~--lp-i~-~---------------~~~~~~~~d~~~---l~--~---~G~~~~dpG~~~ta~ceS   54 (429)
                      |||+.|||.|.-+.+  || +. +               .-+|.++||-.-   |.  +   .|+...+===.|-.+-++
T Consensus       332 SDKTGTLTlNkLSvdknl~ev~v~gv~~D~~~L~A~rAsr~en~DAID~A~v~~L~dPKeara~ikevhF~PFnPV~Krt  411 (942)
T KOG0205         332 SDKTGTLTLNKLSVDKNLIEVFVKGVDKDDVLLTAARASRKENQDAIDAAIVGMLADPKEARAGIKEVHFLPFNPVDKRT  411 (942)
T ss_pred             ECCCCCEEECCEECCCCCCEEEECCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCHHHHHHCCEEEEECCCCCCCCCE
T ss_conf             26867156300303767642452678866889999988644272168899998735978886086589513678645305


Q ss_pred             EEEEEECCCC
Q ss_conf             5654334477
Q gi|254780355|r   55 KITFIDGNNG   64 (429)
Q Consensus        55 ~IT~IDG~~G   64 (429)
                      ++||||++--
T Consensus       412 a~ty~d~dG~  421 (942)
T KOG0205         412 ALTYIDPDGN  421 (942)
T ss_pred             EEEEECCCCC
T ss_conf             7999989997


No 68 
>PRK11780 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional
Probab=33.78  E-value=7  Score=19.11  Aligned_cols=75  Identities=19%  Similarity=0.301  Sum_probs=41.3

Q ss_pred             CCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             993199997508989999999818799989999999988640689989999998512476525789999999875206
Q gi|254780355|r   69 RGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYY  146 (429)
Q Consensus        69 RGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~  146 (429)
                      || +|.+|++ .+-++--.|++=|-.--+.-|.+|..+- ....+.++|.++++.|-...-|+..++.+-..++..++
T Consensus        72 RG-~I~~l~~-~~~~d~DaLI~PGGfGaAKNLs~fA~~G-~~~~V~p~V~~~i~~f~~a~KPiG~iCIaP~l~a~vl~  146 (217)
T PRK11780         72 RG-EIKDLAE-ADAEDFDALIVPGGFGAAKNLSNFAFKG-AECSVDPEVKALARAFHQAGKPIGFICIAPAMLPKILG  146 (217)
T ss_pred             CC-CCCCHHH-CCHHHCCEEEECCCCHHHHCCCCHHHCC-CCCEECHHHHHHHHHHHHHCCCEEEECHHHHHHHHHCC
T ss_conf             15-8667456-9975678799678620443110165349-98648789999999999809998986076899999728


No 69 
>PRK09130 NADH dehydrogenase subunit G; Validated
Probab=33.75  E-value=32  Score=14.51  Aligned_cols=17  Identities=12%  Similarity=0.257  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHH
Q ss_conf             99999989999999997
Q gi|254780355|r  384 FAVARTAGWVSQWTEMI  400 (429)
Q Consensus       384 Fa~~R~~Gw~AH~~Eq~  400 (429)
                      =.|||..--||.+-...
T Consensus       660 ~~Isr~S~tM~~cs~~~  676 (680)
T PRK09130        660 NPIARASATMAECSALA  676 (680)
T ss_pred             CHHHHCCHHHHHHHHHH
T ss_conf             77666029999988554


No 70 
>TIGR02335 hydr_PhnA phosphonoacetate hydrolase; InterPro: IPR012710   This family consists of examples of phosphonoacetate hydrolase, an enzyme specific for the cleavage of the C-P bond in phosphonoacetate. Phosphonates are organic compounds with a direct C-P bond that is far less labile than the C-O-P bonds of phosphate attachment sites. Phosphonates may be degraded for phosphorus and energy by broad spectrum C-P lyase encoded by a large operon or by specific enzymes for some of the more common phosphonates in nature. This family represents an enzyme from the latter category. It may be found encoded near genes for phosphonate transport and for other specific phosphonatases ..
Probab=33.47  E-value=30  Score=14.74  Aligned_cols=44  Identities=20%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             EEEEEECCE--EE-EEEEECCCCCCCCEEECCCCCCCEEE----ECCCCCCEEEE
Q ss_conf             699998998--99-97523077787510100115586189----88887862387
Q gi|254780355|r    5 FAKLHLGHE--EI-DLPIKEGSLGSSVLDISFLHKNGIFT----YDPAFSSTASC   52 (429)
Q Consensus         5 ~~~l~~~~~--~~-~lpi~~~~~~~~~~d~~~l~~~G~~~----~dpG~~~ta~c   52 (429)
                      ++.+|+||.  || +=-|-+|.. |.   |..|.+.|+..    -=|.|+||=-.
T Consensus        15 tvViC~DGcdpEYi~rgIadGv~-P~---ia~l~~~G~v~tadcvvPsfTNpNN~   65 (408)
T TIGR02335        15 TVVICVDGCDPEYIERGIADGVL-PA---IAELTEAGYVATADCVVPSFTNPNNV   65 (408)
T ss_pred             EEEEEECCCCHHHHHHHHHCCCC-CH---HHHHHCCCCEEEECCCCCCCCCCCCE
T ss_conf             79998159887899988750666-15---88875078035540012776688870


No 71 
>TIGR01495 ETRAMP early transcribed membrane protein (ETRAMP) family; InterPro: IPR006389   These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii . A homolog from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane . Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes..
Probab=32.73  E-value=21  Score=15.75  Aligned_cols=14  Identities=43%  Similarity=0.669  Sum_probs=9.7

Q ss_pred             HHH-HHHHHHHHHHH
Q ss_conf             246-77675542100
Q gi|254780355|r  248 PFA-CIAAGVACLGG  261 (429)
Q Consensus       248 lys-ai~agi~aL~G  261 (429)
                      +|| +|++||++|-|
T Consensus        66 lySl~~as~lAlL~g   80 (99)
T TIGR01495        66 LYSLSIASGLALLVG   80 (99)
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             998999999999999


No 72 
>KOG0898 consensus
Probab=32.04  E-value=34  Score=14.33  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=19.9

Q ss_pred             EEECCEEHHHHHHHCCHHHHHHHHH
Q ss_conf             8989931999975089899999998
Q gi|254780355|r   66 LLYRGYPIEQLSEKSDFLEVCYLLL   90 (429)
Q Consensus        66 L~YRGY~IedLa~~~sFeEVayLLl   90 (429)
                      ..|||.+.++|.+ -++|+.+-|.-
T Consensus        22 ftyrGVdld~Lld-ms~~~~~~l~~   45 (152)
T KOG0898          22 FTYRGVDLDQLLD-MSTEQLVKLFP   45 (152)
T ss_pred             CCCCCCCHHHHHC-CCHHHHHHHHH
T ss_conf             0125778899864-77999999878


No 73 
>TIGR01851 argC_other N-acetyl-gamma-glutamyl-phosphate reductase; InterPro: IPR010136   N -Acetylglutamate (NAG) fulfils distinct biological roles in lower and higher organisms. In prokaryotes, lower eukaryotes and plants it is the first intermediate in the biosynthesis of arginine, whereas in ureotelic (excreting nitrogen mostly in the form of urea) vertebrates, it is an essential allosteric cofactor for carbamyl phosphate synthetase I (CPSI), the first enzyme of the urea cycle. The pathway that leads from glutamate to arginine in lower organisms employs eight steps, starting with the acetylation of glutamate to form NAG. In these species, NAG can be produced by two enzymatic reactions: one catalysed by NAG synthase (NAGS) and the other by ornithine acetyltransferase (OAT). In ureotelic species, NAG is produced exclusively by NAGS. In lower organisms, NAGS is feedback-inhibited by L-arginine, whereas mammalian NAGS activity is significantly enhanced by this amino acid. The NAGS genes of bacteria, fungi and mammals are more diverse than other arginine-biosynthesis and urea-cycle genes. The evolutionary relationship between the distinctly different roles of NAG and its metabolism in lower and higher organisms remains to be determined .   The pathway from glutamate to arginine is:   NAGS; N-acetylglutamate synthase (2.3.1.1 from EC) (glutamate to N-acetylglutamate) NAGK; N-acetylglutamate kinase (2.7.2.8 from EC) (N-acetylglutamate to N-acetylglutamate-5P) NAGSA; N-acetyl-gamma-glutamyl-phosphate reductase (1.2.1.38 from EC) (N-acetylglutamate-5P to N-acetylglumate semialdehyde) Acetylornithine aminotransferase (2.6.1.11 from EC) (N-acetylglumate semialdehyde to N-acetylornithine) Acetylornithine deacetylase (3.5.1.16 from EC) (N-acetylornithine to ornithine) Arginase (3.5.3.1 from EC) (ornithine to arginine)   This entry represents bacterial N-acetyl-gamma-glutamyl-phosphate reductases, an enzyme catalysing the third step of arginine biosynthesis from glutamate.; GO: 0003942 N-acetyl-gamma-glutamyl-phosphate reductase activity, 0006526 arginine biosynthetic process, 0005737 cytoplasm.
Probab=31.96  E-value=7.5  Score=18.89  Aligned_cols=22  Identities=45%  Similarity=0.685  Sum_probs=16.3

Q ss_pred             EEECCCCE--EEECCEEHHHHHHHCCHH
Q ss_conf             43344777--898993199997508989
Q gi|254780355|r   58 FIDGNNGI--LLYRGYPIEQLSEKSDFL   83 (429)
Q Consensus        58 ~IDG~~G~--L~YRGY~IedLa~~~sFe   83 (429)
                      |||||+|.  |+-|-|    |+++.+.|
T Consensus         5 FiDGeaGTTGLqi~~r----L~~R~Dle   28 (314)
T TIGR01851         5 FIDGEAGTTGLQIRER----LSGRDDLE   28 (314)
T ss_pred             EECCCCCCHHHHHHHH----HCCCCCHH
T ss_conf             6417888626789886----24776200


No 74 
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=31.49  E-value=35  Score=14.27  Aligned_cols=48  Identities=17%  Similarity=0.057  Sum_probs=34.6

Q ss_pred             CCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf             630155554420565424677675542100222035289999986215
Q gi|254780355|r  232 NASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIG  279 (429)
Q Consensus       232 NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~  279 (429)
                      ++|+.+.....+++...--+++-+|+++.+--||-++--++--.-+..
T Consensus       243 ~as~lag~a~~~~g~g~~Hal~h~lg~~~~vpHG~~~aillP~v~~~n  290 (381)
T PRK10624        243 LGQYVAGMGFSNVGLGLVHGMAHPLGAFYNTPHGVANAILLPHVMRYN  290 (381)
T ss_pred             HHHHHHHHHHCCCCCCCHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             999999777616452111304465344756770888898779999986


No 75 
>pfam01795 Methyltransf_5 MraW methylase family. Members of this family are probably SAM dependent methyltransferases based on Escherichia coli mraW. This family appears to be related to pfam01596.
Probab=31.43  E-value=35  Score=14.26  Aligned_cols=55  Identities=5%  Similarity=0.035  Sum_probs=36.1

Q ss_pred             CCEEHHHHHHHCCHHHHHHHHH-CCCCCCHHHHHHHHHHHHHCCCC--CHHHHHHHHH
Q ss_conf             9931999975089899999998-18799989999999988640689--9899999985
Q gi|254780355|r   69 RGYPIEQLSEKSDFLEVCYLLL-HGELANVSQQKDFNDKISRHALL--NENMSRFFMG  123 (429)
Q Consensus        69 RGY~IedLa~~~sFeEVayLLl-~GeLPt~~el~~F~~~l~~~~~l--pe~v~~~i~~  123 (429)
                      .|.++.|+.++.+-+|.+.+|+ |||.+.+...+..--+-++...+  ..++.+++..
T Consensus       131 ~~~tA~~iln~~~e~eL~~il~~yGEe~~a~~IA~~Iv~~R~~~~i~tT~~L~~iI~~  188 (310)
T pfam01795       131 AGLTAAEVLNTYSEEDLARIFKKYGEERFSKRIARAIVERRKKKPIETTKELAEIIKK  188 (310)
T ss_pred             CCCCHHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             9984999985089999999999857745699999999999986277779999999998


No 76 
>TIGR01245 trpD anthranilate phosphoribosyltransferase; InterPro: IPR005940    In many widely different species, including Escherichia coli, Thermotoga maritima, and Archaeoglobus fulgidus, this enzyme is a C-terminal part of a multifunctional protein together with glutamine amidotransferase; the fusion protein is designated anthranilate synthase component II (4.1.3.27 from EC).; GO: 0004048 anthranilate phosphoribosyltransferase activity, 0000162 tryptophan biosynthetic process.
Probab=31.12  E-value=21  Score=15.74  Aligned_cols=17  Identities=29%  Similarity=0.370  Sum_probs=10.0

Q ss_pred             CCCCHHHHHHHHHCCCC
Q ss_conf             87630155554420565
Q gi|254780355|r  230 EQNASTSTVRLAGSSGA  246 (429)
Q Consensus       230 e~NaSTft~R~vaSt~a  246 (429)
                      -+|.||.++-|+|+.|.
T Consensus        84 T~NiST~sAfVaAaaGv  100 (331)
T TIGR01245        84 TINISTASAFVAAAAGV  100 (331)
T ss_pred             CCHHHHHHHHHHHHCCC
T ss_conf             11166899999985678


No 77 
>pfam01702 TGT Queuine tRNA-ribosyltransferase. This is a family of queuine tRNA-ribosyltransferases EC:2.4.2.29, also known as tRNA-guanine transglycosylase and guanine insertion enzyme. Queuine tRNA-ribosyltransferase modifies tRNAs for asparagine, aspartic acid, histidine and tyrosine with queuine. It catalyses the exchange of guanine-34 at the wobble position with 7-aminomethyl-7-deazaguanine, and the addition of a cyclopentenediol moiety to 7-aminomethyl-7-deazaguanine-34 tRNA; giving a hypermodified base queuine in the wobble position. The aligned region contains a zinc binding motif C-x-C-x2-C-x29-H, and important tRNA and 7-aminomethyl-7deazaguanine binding residues.
Probab=30.89  E-value=31  Score=14.67  Aligned_cols=50  Identities=28%  Similarity=0.405  Sum_probs=24.0

Q ss_pred             HHHHHHHCCCCHH----HHHHHHH-------CCC------CCHH---HHHHHHHHHCCCCCEEECCCCCC
Q ss_conf             2100222035289----9999862-------155------3512---79999998214786143027743
Q gi|254780355|r  258 CLGGRAHGGANEE----ALNMLME-------IGS------LERI---PHYIMRAKDKNDPFRIMGFGHRV  307 (429)
Q Consensus       258 aL~GPlHGGAne~----v~~ml~~-------I~~------~~~v---~~~i~~~~~~~~~~ri~GfGHrv  307 (429)
                      +|.||.+||-...    +.+.+.+       ||.      .++.   -+++...+..+++.-|||.||+.
T Consensus        56 ~lfgivqGG~~~dlR~~s~~~l~~~~~~GyaIgGl~~ge~~~~~~~~l~~~~~~Lp~~kPr~l~G~g~P~  125 (238)
T pfam01702        56 ALFGIVQGGLYEDLREESAEELAELDFDGYAIGGLSVGEEKEEMLELVDAVTPLLPEDKPRYLMGVGTPE  125 (238)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCCEEECCCCCHH
T ss_conf             6996157979899999999997448998798568777889999999999998558877856406999999


No 78 
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=30.81  E-value=35  Score=14.30  Aligned_cols=77  Identities=18%  Similarity=0.195  Sum_probs=39.1

Q ss_pred             CCCCCCHHHH-HHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHH-H--CCCCC
Q ss_conf             1014796999-998756350136787630155554420565424677675542100222035289999986-2--15535
Q gi|254780355|r  207 AEYQVNPLLA-RAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLM-E--IGSLE  282 (429)
Q Consensus       207 ~~~~~~~~~~-~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~-~--I~~~~  282 (429)
                      ...+|+|..- ++++++       +.++  .-+-+|+-|..|+-+|-.||+-+. |-..|-.....++... +  |.+..
T Consensus       146 ~~~KP~P~~~~~a~~~l-------g~~p--~e~l~VGDs~~Di~aA~~aG~~~i-~v~~G~~~~~~l~~~~ad~vi~~~~  215 (228)
T PRK13222        146 PNKKPDPAPLLLACEKL-------GIDP--EQMLFVGDSRNDIQAAKAAGCPSV-GVTYGYNYGEDIALSEPDVVIDHFA  215 (228)
T ss_pred             CCCCCCHHHHHHHHHHC-------CCCC--CCEEEEECCHHHHHHHHHCCCEEE-EECCCCCCHHHHHHCCCCEEECCHH
T ss_conf             77787869999999981-------9793--434898068889999999699499-9878999977897689999989999


Q ss_pred             HHHHHHHHHHH
Q ss_conf             12799999982
Q gi|254780355|r  283 RIPHYIMRAKD  293 (429)
Q Consensus       283 ~v~~~i~~~~~  293 (429)
                      +..+++-=++.
T Consensus       216 eL~~~Lg~~~~  226 (228)
T PRK13222        216 ELLPALGLALS  226 (228)
T ss_pred             HHHHHHCHHCC
T ss_conf             99998553202


No 79 
>TIGR02358 thia_cytX probable hydroxymethylpyrimidine transporter CytX; InterPro: IPR012732   On the basis of a phylogenomic study of thiamine biosynthetic, salvage, and transporter genes and a highly conserved RNA element THI, this protein family has been identified as a probable transporter of hydroxymethylpyrimidine (HMP). ThiD phosphorylates hydroxymethylpyrimidine and when joined (by ThiE) to hydroxyethylthiazole phosphate creates thiamine phosphate..
Probab=29.76  E-value=37  Score=14.07  Aligned_cols=15  Identities=0%  Similarity=-0.026  Sum_probs=5.4

Q ss_pred             HHHHHCCCCCCCCCC
Q ss_conf             999727985348886
Q gi|254780355|r  175 IYKYSIGQPFVYPRS  189 (429)
Q Consensus       175 ~yr~~~G~~~i~Pd~  189 (429)
                      ++.....-+...|+-
T Consensus       164 ~F~k~~~~e~~~~~G  178 (415)
T TIGR02358       164 VFSKASLSELWNREG  178 (415)
T ss_pred             HHHCCCCCCEECCCC
T ss_conf             983568550004688


No 80 
>cd03133 GATase1_ES1 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1. Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1. This group includes, proteins similar to ES1, Escherichia coli enhancing lycopene biosynthesis protein 2, Azospirillum brasilense iaaC and, human HES1.  The catalytic triad typical of GATase1domains is not conserved in this GATase1-like domain. However, in common with GATase1domains a reactive cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. Zebrafish ES1 is expressed specifically in adult photoreceptor cells and appears to be a cytoplasmic protein. A. brasilense iaaC is involved in controlling IAA biosynthesis.
Probab=29.24  E-value=8.4  Score=18.55  Aligned_cols=75  Identities=19%  Similarity=0.289  Sum_probs=36.2

Q ss_pred             CCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHC
Q ss_conf             993199997508989999999818799989999999988640689989999998512476525789999999875206
Q gi|254780355|r   69 RGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALLNENMSRFFMGFPSSAHPMAMLVSAVGALSSFYY  146 (429)
Q Consensus        69 RGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ahPM~~L~~~vsaL~a~~~  146 (429)
                      || +|.+|.+ .+-++--.|++=|-.--+.-|.+|..+- ....+.++|.++++.|-...-|+..++.+-..++..++
T Consensus        69 RG-~I~~l~~-~~~~d~DaLiiPGGfGaAKNLs~fA~~g-~~~~v~~~V~~~i~~f~~a~KPiG~iCIAP~l~a~vl~  143 (213)
T cd03133          69 RG-NIKDLAK-LKAADFDALIFPGGFGAAKNLSDFAVKG-ADCTVNPEVERLVREFHQAGKPIGAICIAPALAAKILG  143 (213)
T ss_pred             CC-CCCCHHH-CCHHHCCEEEECCCHHHHHHHHHHHCCC-CCCEECHHHHHHHHHHHHCCCCEEEECHHHHHHHHHCC
T ss_conf             25-8556456-9986789899788514555310021058-87569899999999999849999997578999999818


No 81 
>PRK02955 small acid-soluble spore protein SspI; Provisional
Probab=29.18  E-value=26  Score=15.12  Aligned_cols=27  Identities=22%  Similarity=0.306  Sum_probs=22.4

Q ss_pred             CCCCHHHHHHHHHHHCCCCCEEECCCC
Q ss_conf             553512799999982147861430277
Q gi|254780355|r  279 GSLERIPHYIMRAKDKNDPFRIMGFGH  305 (429)
Q Consensus       279 ~~~~~v~~~i~~~~~~~~~~ri~GfGH  305 (429)
                      .+.+.+++.|..+..+++..-|||.|-
T Consensus        16 ~s~~elk~tI~daI~sgEEk~LPGLGV   42 (69)
T PRK02955         16 NSQEQLEETIVDAIQSGEEKMLPGLGV   42 (69)
T ss_pred             CCHHHHHHHHHHHHHCCCHHCCCCCHH
T ss_conf             999999999999986463013774067


No 82 
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=28.65  E-value=39  Score=13.94  Aligned_cols=16  Identities=25%  Similarity=0.752  Sum_probs=7.0

Q ss_pred             EECCCCCCCCCCCHHH
Q ss_conf             4302774355554034
Q gi|254780355|r  300 IMGFGHRVYRNHDPRC  315 (429)
Q Consensus       300 i~GfGHrvyk~~DPRa  315 (429)
                      +-+||-.+-+...||.
T Consensus       179 lI~~GR~iC~ar~P~C  194 (211)
T COG0177         179 LILHGRYICKARKPRC  194 (211)
T ss_pred             HHHHHHHHCCCCCCCC
T ss_conf             9996053116899986


No 83 
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=27.83  E-value=29  Score=14.84  Aligned_cols=27  Identities=19%  Similarity=0.277  Sum_probs=22.3

Q ss_pred             CCCCHHHHHHHHHHHCCCCCEEECCCC
Q ss_conf             553512799999982147861430277
Q gi|254780355|r  279 GSLERIPHYIMRAKDKNDPFRIMGFGH  305 (429)
Q Consensus       279 ~~~~~v~~~i~~~~~~~~~~ri~GfGH  305 (429)
                      .+.+.+++.|..+..+++..-|||.|-
T Consensus        13 ~s~~elk~tI~daI~sgEEk~LPGLGV   39 (65)
T TIGR03092        13 NTKEQLEATIVDAIQSGEEKMLPGLGV   39 (65)
T ss_pred             CCHHHHHHHHHHHHHCCCHHCCCCCHH
T ss_conf             999999999999986473003774067


No 84 
>TIGR02365 dha_L_ycgS dihydroxyacetone kinase, L subunit; InterPro: IPR012737    Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated 2.7.1.29 from EC. By contract, Escherichia coli and many other bacterial species have a multisubunit form (2.7.1 from EC) with a phosphoprotein donor related to PTS transport proteins. The sequences in this entry represent the subunit homologous to the E. coli YcgS subunit..
Probab=27.83  E-value=38  Score=14.02  Aligned_cols=43  Identities=19%  Similarity=0.166  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHH---CCCCCHHHHHHHHHHH
Q ss_conf             776755421002220352899999862---1553512799999982
Q gi|254780355|r  251 CIAAGVACLGGRAHGGANEEALNMLME---IGSLERIPHYIMRAKD  293 (429)
Q Consensus       251 ai~agi~aL~GPlHGGAne~v~~ml~~---I~~~~~v~~~i~~~~~  293 (429)
                      ++.+-+|.-||||-|=|=-++-..+.+   +-++++..+.++.-++
T Consensus        64 ~LiS~VGGASGPLYGT~Fl~as~a~~~~~~~~~~~~l~~~l~~g~~  109 (200)
T TIGR02365        64 ALISKVGGASGPLYGTAFLKASKALKDKEEILDAEDLAEILEAGLE  109 (200)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf             8852203201577999999999986230126898899999999999


No 85 
>TIGR02344 chap_CCT_gamma T-complex protein 1, gamma subunit; InterPro: IPR012719   The TCP-1 protein ,  (Tailless Complex Polypeptide 1) was first identified in mice where it is especially abundant in testis but present in all cell types. It has since been found and characterised in many other animal species, as well as in yeast, plants and protists. TCP-1 is a highly conserved protein of about 60 kDa (556 to 560 residues) which participates in a hetero-oligomeric 900 kDa double-torus shaped particle  with 6 to 8 other different subunits. These subunits, the chaperonin containing TCP-1 (CCT) subunit beta, gamma, delta, epsilon, zeta and eta are evolutionary related to TCP-1 itself , . The CCT is known to act as a molecular chaperone for tubulin, actin and probably some other proteins.   The TCP-1 family of proteins are weakly, but significantly , related to the cpn60/groEL chaperonin family (see IPR001844 from INTERPRO).    Proteins in this entry consist exclusively of the CCT gamma chain from animals, plants, fungi, and other eukaryotes.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=27.77  E-value=40  Score=13.84  Aligned_cols=56  Identities=23%  Similarity=0.319  Sum_probs=24.9

Q ss_pred             CCCCCCC---CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             7743555---5403468999999988860877651799999999999611531457987784
Q gi|254780355|r  304 GHRVYRN---HDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNV  362 (429)
Q Consensus       304 GHrvyk~---~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNv  362 (429)
                      ||.+.|.   .-|=|+-|-++++--=||.|.-.....=+|-|+=..   .+.|.++++||-|
T Consensus        58 GnaILREi~v~HPAAKSmiElsR~qDEEVGDGTTSViiLAGE~L~~---A~~f~~~~iHP~i  116 (527)
T TIGR02344        58 GNAILREIDVAHPAAKSMIELSRTQDEEVGDGTTSVIILAGEMLSA---AEPFLEQNIHPTI  116 (527)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHH---HHHHHHCCCCCEE
T ss_conf             8657755312785245688762145741257502123446899999---9998723899665


No 86 
>TIGR03233 DNA_S_dndB DNA sulfur modification protein DndB. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=27.20  E-value=34  Score=14.36  Aligned_cols=48  Identities=15%  Similarity=0.249  Sum_probs=20.0

Q ss_pred             ECCEEHHHHHH-HCCH-HHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHH
Q ss_conf             89931999975-0898-9999999818799989999999988640689989
Q gi|254780355|r   68 YRGYPIEQLSE-KSDF-LEVCYLLLHGELANVSQQKDFNDKISRHALLNEN  116 (429)
Q Consensus        68 YRGY~IedLa~-~~sF-eEVayLLl~GeLPt~~el~~F~~~l~~~~~lpe~  116 (429)
                      +|-.-||+.-+ +-.. .|..-.+++-+. .=++.+.+-.+|.++..-|..
T Consensus       113 HRraaIe~al~~~p~l~~e~I~Vv~f~d~-gL~r~QQmFaDlN~~a~kPs~  162 (355)
T TIGR03233       113 HRRAAIEEALKEDPELGDETISVVFFHDK-GLERSQQMFADLNRHAVKPSS  162 (355)
T ss_pred             HHHHHHHHHHHHCCCCCCCCEEEEEEECC-CHHHHHHHHHHHHHCCCCCCH
T ss_conf             78999999986296656684459998448-788999999998844688817


No 87 
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=27.08  E-value=41  Score=13.76  Aligned_cols=55  Identities=13%  Similarity=-0.012  Sum_probs=36.1

Q ss_pred             CCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHH
Q ss_conf             6301555544205654246776755421002220352899999862155351279
Q gi|254780355|r  232 NASTSTVRLAGSSGADPFACIAAGVACLGGRAHGGANEEALNMLMEIGSLERIPH  286 (429)
Q Consensus       232 NaSTft~R~vaSt~adlysai~agi~aL~GPlHGGAne~v~~ml~~I~~~~~v~~  286 (429)
                      .+|+.+.....+++..+--+++-.|++.++--||-+|--.+--..+.......++
T Consensus       245 ~as~lag~a~~~~~~g~~Hai~h~lg~~~~vpHG~~~aillP~v~~~n~~~~~~r  299 (383)
T PRK09860        245 YAQFLAGMAFNNASLGYVHAMAHQLGGFYNLPHGVCNAVLLPHVQVFNSKVAAAR  299 (383)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999986689953000323302113087759999999999999834314899


No 88 
>KOG0962 consensus
Probab=26.86  E-value=42  Score=13.73  Aligned_cols=56  Identities=30%  Similarity=0.362  Sum_probs=43.0

Q ss_pred             CCEEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             86189888878623878756543344777898993199997508989999999818799989999999
Q gi|254780355|r   37 NGIFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFN  104 (429)
Q Consensus        37 ~G~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~  104 (429)
                      .|+++||+-=.+|.---|-.|.|+|.+|-            .+-||.|..---.+|+||.-.--..|-
T Consensus        10 ~GIRSf~~~d~~~i~F~sPlTLIvG~NG~------------GKTTiIEcLKyatTG~lPpnsk~~~Fi   65 (1294)
T KOG0962          10 RGIRSFDDKDRNTIEFFSPLTLIVGANGT------------GKTTIIECLKYATTGELPPNSKGGSFI   65 (1294)
T ss_pred             HCCCCCCCCCCCEEEECCCEEEEECCCCC------------CCHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf             21014687665536511770567668887------------716699998888648489987677777


No 89 
>KOG0193 consensus
Probab=26.72  E-value=21  Score=15.74  Aligned_cols=63  Identities=17%  Similarity=0.142  Sum_probs=41.1

Q ss_pred             EECCEEHHHHH-----HHCCHHHHHHHHHCC---------CCCCHHHHHHHHHHHHHCCC-CCHHHHHHHHHHCCCCC
Q ss_conf             98993199997-----508989999999818---------79998999999998864068-99899999985124765
Q gi|254780355|r   67 LYRGYPIEQLS-----EKSDFLEVCYLLLHG---------ELANVSQQKDFNDKISRHAL-LNENMSRFFMGFPSSAH  129 (429)
Q Consensus        67 ~YRGY~IedLa-----~~~sFeEVayLLl~G---------eLPt~~el~~F~~~l~~~~~-lpe~v~~~i~~~p~~ah  129 (429)
                      .|--.+++|+-     ..-+|--|--=.|||         +-||++|+++|+.+++..+. =|+++.-++..+-...+
T Consensus       385 ~~WeIp~~ev~l~~rIGsGsFGtV~Rg~whGdVAVK~Lnv~~pt~~qlqaFKnEVa~lkkTRH~NIlLFMG~~~~p~~  462 (678)
T KOG0193         385 EEWEIPPEEVLLGERIGSGSFGTVYRGRWHGDVAVKLLNVDDPTPEQLQAFKNEVAVLKKTRHENILLFMGACMNPPL  462 (678)
T ss_pred             CCCCCCHHHHHCCCEECCCCCCCEEECCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCHHHHEEEEHHHCCCCE
T ss_conf             121468778510340046654115641040423799981578999999999999998752121120111121148860


No 90 
>TIGR02815 agaS_fam putative sugar isomerase, AgaS family; InterPro: IPR014180   Some members of this protein family are found in genic regions associated with N-acetyl-galactosamine and galactosamine utilisation and are suggested to be isomerases..
Probab=26.60  E-value=24  Score=15.40  Aligned_cols=19  Identities=37%  Similarity=0.323  Sum_probs=16.8

Q ss_pred             HHHHHHCCCCHHHHHHHHH
Q ss_conf             1002220352899999862
Q gi|254780355|r  259 LGGRAHGGANEEALNMLME  277 (429)
Q Consensus       259 L~GPlHGGAne~v~~ml~~  277 (429)
                      -||++.|-|-|.++|+|+=
T Consensus       223 GSGgl~GlA~EsALK~LEL  241 (374)
T TIGR02815       223 GSGGLQGLARESALKVLEL  241 (374)
T ss_pred             CCCHHHHHHHHHHHHHHHH
T ss_conf             8851368998876776643


No 91 
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator; InterPro: IPR011789    This entry represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system . This protein is a member of the MerR family of transcriptional activators and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue .; GO: 0003677 DNA binding, 0005507 copper ion binding, 0016563 transcription activator activity, 0045941 positive regulation of transcription.
Probab=26.55  E-value=42  Score=13.70  Aligned_cols=50  Identities=14%  Similarity=0.191  Sum_probs=22.6

Q ss_pred             CCHHHHHHHH--HCCCCC--------CHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCC
Q ss_conf             8989999999--818799--------9899999999886406899899999985124765
Q gi|254780355|r   80 SDFLEVCYLL--LHGELA--------NVSQQKDFNDKISRHALLNENMSRFFMGFPSSAH  129 (429)
Q Consensus        80 ~sFeEVayLL--l~GeLP--------t~~el~~F~~~l~~~~~lpe~v~~~i~~~p~~ah  129 (429)
                      .|.||+--||  ||..==        |-+.+++...+|.+-..+-+++..++++-|.|..
T Consensus        58 FSLeEc~~ll~L~ndp~R~SAdVK~rtl~k~~E~~~kI~eL~~m~~qL~~la~~C~GD~~  117 (127)
T TIGR02044        58 FSLEECKELLSLWNDPNRTSADVKARTLEKVAELERKISELQEMKDQLEELAEACPGDDK  117 (127)
T ss_pred             CCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf             988999999875228889887889999988999999999998899999999985788543


No 92 
>TIGR01148 mtrC tetrahydromethanopterin S-methyltransferase, subunit C; InterPro: IPR005865    This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit C in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane.
Probab=26.32  E-value=18  Score=16.23  Aligned_cols=10  Identities=10%  Similarity=-0.090  Sum_probs=3.6

Q ss_pred             HHHHHHHHHC
Q ss_conf             7999999821
Q gi|254780355|r  285 PHYIMRAKDK  294 (429)
Q Consensus       285 ~~~i~~~~~~  294 (429)
                      .+++++++++
T Consensus       166 ~~~~~~via~  175 (276)
T TIGR01148       166 QAVISYVIAN  175 (276)
T ss_pred             HHHHHHHHHH
T ss_conf             9999999862


No 93 
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination.  HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's.  These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR.  RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=25.74  E-value=44  Score=13.60  Aligned_cols=44  Identities=18%  Similarity=0.196  Sum_probs=27.1

Q ss_pred             EEEECCCCCCEEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHH
Q ss_conf             1898888786238787565433447778989931999975089899999
Q gi|254780355|r   39 IFTYDPAFSSTASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCY   87 (429)
Q Consensus        39 ~~~~dpG~~~ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVay   87 (429)
                      ++-.|||+.+|+-+     .||.+.+.+.+-.|-......+.++.+=..
T Consensus         2 ILGIDPGl~~~G~a-----iie~~~~~~~~l~~g~I~t~~~~~~~~RL~   45 (154)
T cd00529           2 ILGIDPGSRNTGYG-----VIEQEGRKLIYLASGVIRTSSDAPLPSRLK   45 (154)
T ss_pred             EEEECCCCCCCEEE-----EEEEECCEEEEEEEEEEECCCCCCHHHHHH
T ss_conf             69987566871599-----999579978999988896699999899999


No 94 
>TIGR02728 spore_gerQ spore coat protein GerQ; InterPro: IPR014099   Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase..
Probab=24.87  E-value=14  Score=17.08  Aligned_cols=18  Identities=22%  Similarity=0.324  Sum_probs=14.0

Q ss_pred             CHHHHHHHHHHHCCCCCC
Q ss_conf             424688778764289841
Q gi|254780355|r  190 DLDYASNFLHMCFSVPCA  207 (429)
Q Consensus       190 ~lsyaeNfL~Ml~~~~~~  207 (429)
                      +.||.||+|+|-+|..+.
T Consensus         4 ~~SyiENILR~NRG~~aT   21 (82)
T TIGR02728         4 EQSYIENILRMNRGKTAT   21 (82)
T ss_pred             CCCEEEEEEECCCCCEEE
T ss_conf             521001000116886157


No 95 
>pfam09350 DUF1992 Domain of unknown function (DUF1992). This family of proteins are functionally uncharacterized.
Probab=24.60  E-value=46  Score=13.46  Aligned_cols=61  Identities=16%  Similarity=0.163  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHCCCCCEEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             27999999821478614302774355554034689999999888608776517999999999
Q gi|254780355|r  284 IPHYIMRAKDKNDPFRIMGFGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELER  345 (429)
Q Consensus       284 v~~~i~~~~~~~~~~ri~GfGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~  345 (429)
                      |+..|.++.++++..-|+|.|-++=...|+-...-.....++.+..|. --|+++.-.++.+
T Consensus         2 ~e~~I~eA~~~GeFd~LpG~GKPL~~~~~~~~~~~~~~~~~ilk~ag~-lP~~i~l~kEi~~   62 (70)
T pfam09350         2 AERRIREAMERGEFDNLPGAGKPLPLDDDSDPPEELRMGYRILKNAGV-LPPEIELRKEIAE   62 (70)
T ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCC-CCHHHHHHHHHHH
T ss_conf             789999999849855799999879875556898999999999987699-9879999999999


No 96 
>TIGR01807 CM_P2 chorismate mutase; InterPro: IPR010957   This entry primarily represents the chorismate mutase domain of the gamma and beta and epsilonproteobacterial 'P-protein', which contains an N-terminal chorismate mutase domain and a C-terminal prephenate dehydratase domain.; GO: 0004106 chorismate mutase activity, 0009094 L-phenylalanine biosynthetic process, 0005737 cytoplasm.
Probab=24.47  E-value=36  Score=14.19  Aligned_cols=26  Identities=8%  Similarity=0.192  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78898889999999999999999972
Q gi|254780355|r  154 LEQCVNVSLRMIAKISTIAAMIYKYS  179 (429)
Q Consensus       154 ~~~~~~~a~rLiA~~p~i~A~~yr~~  179 (429)
                      .+..++..++||..=...+-.+-...
T Consensus         8 IDaiD~~ILdLL~eRA~~a~~vGElK   33 (79)
T TIGR01807         8 IDAIDDRILDLLSERAKLAQAVGELK   33 (79)
T ss_pred             HCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             03389999998999999999987652


No 97 
>PRK01237 triphosphoribosyl-dephospho-CoA synthase; Validated
Probab=24.33  E-value=46  Score=13.42  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=32.5

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf             3555540346899999998886087765179999999999961153145798778
Q gi|254780355|r  307 VYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPN  361 (429)
Q Consensus       307 vyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pN  361 (429)
                      ++|.+-+....+++.++++++..|.......+...++      |..|++|||.|-
T Consensus       221 l~R~G~~~L~~vq~~A~~~L~~Gg~~~~~g~~~l~~l------d~~~i~rnlSPG  269 (292)
T PRK01237        221 LKRAGNPGLEAMQQGAQAVLDLGGSATLAGRRALREL------NQDLLELNASPG  269 (292)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH------HHHHHHCCCCCC
T ss_conf             1158999999999999999980798887899999999------999998798963


No 98 
>PRK12677 xylose isomerase; Provisional
Probab=23.96  E-value=47  Score=13.38  Aligned_cols=33  Identities=18%  Similarity=0.119  Sum_probs=14.6

Q ss_pred             CCCCCCCCCC----------HHHHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf             9853488864----------2468877876428984101479699
Q gi|254780355|r  181 GQPFVYPRSD----------LDYASNFLHMCFSVPCAEYQVNPLL  215 (429)
Q Consensus       181 G~~~i~Pd~~----------lsyaeNfL~Ml~~~~~~~~~~~~~~  215 (429)
                      |+=.|+|.|+          -+++-.||.-..  .....+.+++.
T Consensus       176 ~~f~IEPKP~EP~~hqyd~d~~t~laFl~~~~--l~~~~klNiE~  218 (389)
T PRK12677        176 LRFALEPKPNEPRGDILLPTVGHALAFIETLE--HPELVGVNPEV  218 (389)
T ss_pred             CEEEECCCCCCCCCCCCCCCHHHHHHHHHHHC--CHHHCCCCHHH
T ss_conf             51885579979987752751999999999819--84552406016


No 99 
>pfam00465 Fe-ADH Iron-containing alcohol dehydrogenase.
Probab=23.96  E-value=47  Score=13.38  Aligned_cols=11  Identities=27%  Similarity=0.407  Sum_probs=5.9

Q ss_pred             HHHCCCCHHHH
Q ss_conf             99849996685
Q gi|254780355|r  370 LRALGFPTNLF  380 (429)
Q Consensus       370 ~~~lGip~~~f  380 (429)
                      +..+|++.+.+
T Consensus       277 L~~~gv~~~~l  287 (312)
T pfam00465       277 LSELGVTEEDL  287 (312)
T ss_pred             HHHHCCCHHHH
T ss_conf             99929899999


No 100
>TIGR03293 PhnG_redo phosphonate C-P lyase system protein PhnG. PhnH is a component of the C-P lyase system (GenProp0232) for the catabolism of phosphonate compounds. The specific function of this component is unknown. This model is based on pfam06754.2, and has been broadened to include sequences missed by that model which are clearly true positive hits based on genome context.
Probab=23.69  E-value=48  Score=13.34  Aligned_cols=64  Identities=17%  Similarity=0.146  Sum_probs=33.7

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH-HHHCCCCCCCCCCCHHH
Q ss_conf             27743555540346899999998886087765179999999999961-15314579877844788
Q gi|254780355|r  303 FGHRVYRNHDPRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALE-DEYFIERKLYPNVDFYS  366 (429)
Q Consensus       303 fGHrvyk~~DPRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~-d~~~~~r~l~pNvDfys  366 (429)
                      .||...-..|++...+-.+++.++........-+-++...++....+ +.....+--..-|||++
T Consensus        75 ~G~~yv~Grd~~~A~~~Av~DAllq~~~~~~~~~~~~i~pl~~~~~~~~~~~~~~~aaTkVdFfT  139 (144)
T TIGR03293        75 EGYAYVLGRDKRHAELLAVLDALLQAPLLHDELIADLIAPLAQRLAERRARRQAEAAATRVDFFT  139 (144)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             36899827899999999999999769962236999998899999999999999998585253660


No 101
>pfam08235 LNS2 LNS2 (Lipin/Ned1/Smp2). This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain (Pfam: PF04571) and phosphatidylinositol transfer proteins. SMP2 (also known as PAH1) is involved in plasmid maintenance and respiration, and has been identified as a Mg2+-dependent phosphatidate phosphatase (EC:3.1.3.4) that contains a haloacid dehalogenase (HAD)-like domain. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=23.43  E-value=48  Score=13.31  Aligned_cols=113  Identities=22%  Similarity=0.349  Sum_probs=59.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH-----------CCCCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCC
Q ss_conf             5654246776755421002220352899999862-----------15535127999999821478614302774355554
Q gi|254780355|r  244 SGADPFACIAAGVACLGGRAHGGANEEALNMLME-----------IGSLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHD  312 (429)
Q Consensus       244 t~adlysai~agi~aL~GPlHGGAne~v~~ml~~-----------I~~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~D  312 (429)
                      |.+|...-+..-+|.=  -.|-|+.+..-++-+.           |+..+...+|+.+....+.  ++|- | +|.-..|
T Consensus        11 TkSd~~Ghi~~~~G~D--wth~Gva~ly~~i~~nGY~ilYLTaR~i~qa~~Tr~yL~~~~Q~~~--~LP~-G-Pv~lsp~   84 (156)
T pfam08235        11 TASDALGHILSIMGKD--WVHAGVVDLVRKIQENGYLIIYLTARPDGQADRTRAYLSQHKQDGY--NLPH-G-PVILSPD   84 (156)
T ss_pred             EHHHHHHCHHHCCCCC--CCCCCHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHHCCCC--CCCC-C-CEEECCH
T ss_conf             7425552334303899--7630199999999978936999834256668999999998351885--3889-9-8897763


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHH--------HHHHHCCCCHH
Q ss_conf             0346899999998886087765179999999999961153145798778447889--------99998499966
Q gi|254780355|r  313 PRCRIMRETMYEVLEVTGRFNDPIAQVAIELERIALEDEYFIERKLYPNVDFYSG--------ITLRALGFPTN  378 (429)
Q Consensus       313 PRa~~l~~~~~~l~~~~~~~~~~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg--------~i~~~lGip~~  378 (429)
                      .   .+..+.+|+...    +-..|+++. |..+.   ..|..++     -||+|        +.|.+.|+|++
T Consensus        85 ~---l~~al~rEvi~k----~p~~FKi~~-L~di~---~lfp~~~-----pfyAgFGNr~tD~~aY~~vgip~~  142 (156)
T pfam08235        85 R---LFAALHREVILK----KPLVFKIAC-LRDIR---QLFPNRN-----PFYAGFGNRIKDVIVYRSVGVPPS  142 (156)
T ss_pred             H---HHHHHHHHHHCC----CCHHHHHHH-HHHHH---HHCCCCC-----CEEECCCCCHHHHHHHHHCCCCHH
T ss_conf             3---788756355507----908999999-99999---8768889-----826616896537999997699941


No 102
>PRK13224 consensus
Probab=23.10  E-value=20  Score=15.93  Aligned_cols=80  Identities=16%  Similarity=0.124  Sum_probs=45.8

Q ss_pred             HHCCCCCCCCCCCHHHH-HHHHHHHHEECCCCCCCHHHHHHHHHCCCCCHHHHHHHHH---HHHHHHHHCCCCHHHHHHH
Q ss_conf             64289841014796999-9987563501367876301555544205654246776755---4210022203528999998
Q gi|254780355|r  200 MCFSVPCAEYQVNPLLA-RAMNRIFILHADHEQNASTSTVRLAGSSGADPFACIAAGV---ACLGGRAHGGANEEALNML  275 (429)
Q Consensus       200 Ml~~~~~~~~~~~~~~~-~ald~~LILhADHe~NaSTft~R~vaSt~adlysai~agi---~aL~GPlHGGAne~v~~ml  275 (429)
                      ...+......+|+|... ++++         .+|++-  +-+|+-|-.|+-+|.+||+   +..||--.. .-+.. .--
T Consensus       132 iv~~d~v~~~KP~Pe~~l~a~~---------~l~~~~--~l~VGDs~~D~~aA~~AGi~~i~v~~Gy~~~-~~~~~-~~~  198 (216)
T PRK13224        132 VIGGDSLPQRKPDPAPLRAAFA---------ALGDEP--VLYVGDSEVDAETAENAGVPFLLFTEGYRKA-PVHEL-PHH  198 (216)
T ss_pred             EECCCCCCCCCCCHHHHHHHHH---------HCCCCC--EEEECCCHHHHHHHHHHCCCEEEECCCCCCC-CHHHC-CCC
T ss_conf             6544668999999999999997---------379999--8997598878999999499889977797998-96773-846


Q ss_pred             HHCCCCCHHHHHHHHHH
Q ss_conf             62155351279999998
Q gi|254780355|r  276 MEIGSLERIPHYIMRAK  292 (429)
Q Consensus       276 ~~I~~~~~v~~~i~~~~  292 (429)
                      --|.+..+.++.|.+.|
T Consensus       199 ~~i~~~~el~~~l~~l~  215 (216)
T PRK13224        199 GAFDDHAELPDLVARLL  215 (216)
T ss_pred             CHHCCHHHHHHHHHHHH
T ss_conf             26179998999999984


No 103
>pfam10694 DUF2500 Protein of unknown function (DUF2500). The members of this family are largely confined to the Gammaproteobacteria. The function is not known.
Probab=22.54  E-value=36  Score=14.22  Aligned_cols=13  Identities=38%  Similarity=0.787  Sum_probs=9.7

Q ss_pred             EECCCCEEEECCE
Q ss_conf             3344777898993
Q gi|254780355|r   59 IDGNNGILLYRGY   71 (429)
Q Consensus        59 IDG~~G~L~YRGY   71 (429)
                      .-|++|.|.|+|-
T Consensus        88 ~eGd~G~Lt~QGt  100 (107)
T pfam10694        88 NEGDKGKLTYQGT  100 (107)
T ss_pred             CCCCEEEEEEECC
T ss_conf             9996899999046


No 104
>TIGR00422 valS valyl-tRNA synthetase; InterPro: IPR002303   The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases .   Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=22.42  E-value=6.6  Score=19.29  Aligned_cols=22  Identities=18%  Similarity=0.279  Sum_probs=9.0

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHH
Q ss_conf             7985348886424688778764
Q gi|254780355|r  180 IGQPFVYPRSDLDYASNFLHMC  201 (429)
Q Consensus       180 ~G~~~i~Pd~~lsyaeNfL~Ml  201 (429)
                      .|+++.---.++-++.||++=+
T Consensus       658 ~G~Di~f~~~~v~~~~nF~NKl  679 (970)
T TIGR00422       658 PGDDINFDWKRVESARNFANKL  679 (970)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHH
T ss_conf             8986421189887676776788


No 105
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=22.41  E-value=36  Score=14.20  Aligned_cols=14  Identities=29%  Similarity=0.356  Sum_probs=7.2

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             99989999999997
Q gi|254780355|r  387 ARTAGWVSQWTEMI  400 (429)
Q Consensus       387 ~R~~Gw~AH~~Eq~  400 (429)
                      +|++|.|.|+-|..
T Consensus      1007 gR~VGIISHV~ELk 1020 (1047)
T PRK10246       1007 GKTIGVISHVEAMK 1020 (1047)
T ss_pred             CCEEEEECCHHHHH
T ss_conf             89899988878899


No 106
>PRK01008 queuine tRNA-ribosyltransferase; Provisional
Probab=22.24  E-value=51  Score=13.15  Aligned_cols=22  Identities=18%  Similarity=0.375  Sum_probs=14.9

Q ss_pred             HHHHHHHHCCCCCEEECCCCCC
Q ss_conf             9999998214786143027743
Q gi|254780355|r  286 HYIMRAKDKNDPFRIMGFGHRV  307 (429)
Q Consensus       286 ~~i~~~~~~~~~~ri~GfGHrv  307 (429)
                      +++...+..+++.-|||-||+.
T Consensus       246 ~~~~~~LP~~kPRyLmGvG~p~  267 (372)
T PRK01008        246 DITTSNLSKERPVHLLGIGDLP  267 (372)
T ss_pred             HHHHHHCCCCCCEEEECCCCHH
T ss_conf             9998468999875870589879


No 107
>TIGR00713 hemL glutamate-1-semialdehyde-2,1-aminomutase; InterPro: IPR004639   Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway . The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin .   The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA.   The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III.   Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) .   This entry represents glutamate-1-semialdehyde (GSA) aminotransferase (5.4.3.8 from EC), which catalyse a transamination reaction to produce 5-aminoaevulinic acid during the first stage of tetrapyrrole biosynthesis by the C5 pathway , . This enzyme has a high degree of similarity to amino acid transaminases, and is classed as a class III aminotransferase.; GO: 0042286 glutamate-1-semialdehyde 21-aminomutase activity, 0033014 tetrapyrrole biosynthetic process.
Probab=22.03  E-value=51  Score=13.12  Aligned_cols=75  Identities=25%  Similarity=0.321  Sum_probs=39.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCC------------------HHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHH
Q ss_conf             3555540346899999998886087765------------------1799999999999611531457987784478899
Q gi|254780355|r  307 VYRNHDPRCRIMRETMYEVLEVTGRFND------------------PIAQVAIELERIALEDEYFIERKLYPNVDFYSGI  368 (429)
Q Consensus       307 vyk~~DPRa~~l~~~~~~l~~~~~~~~~------------------~~~~~a~~le~~a~~d~~~~~r~l~pNvDfysg~  368 (429)
                      +|+.-|--++.|.+-+++++++.+.+..                  .-++-|++.+.     +.|.        .||...
T Consensus       324 ~Y~~l~~~~~~L~~g~~e~l~~~gip~~~~~~gSMf~~FFtd~~~V~ny~~A~~SD~-----e~F~--------~Ff~~m  390 (434)
T TIGR00713       324 VYTELDELAKRLAEGLSEVLEDKGIPHTVNRVGSMFSLFFTDEEEVTNYADAKKSDT-----ELFA--------KFFHEM  390 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCEEEEEECCCCCCCCHHHHHHHHH-----HHHH--------HHHHHH
T ss_conf             348999999999999999998279858995044004566577889878899988618-----9889--------999999


Q ss_pred             HHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99984999668589999999989999999997
Q gi|254780355|r  369 TLRALGFPTNLFTVLFAVARTAGWVSQWTEMI  400 (429)
Q Consensus       369 i~~~lGip~~~ft~iFa~~R~~Gw~AH~~Eq~  400 (429)
                      +-+-.=+|+.-|-+.|.-.      ||=-|..
T Consensus       391 L~~GVylpPS~FEa~F~S~------AH~~E~i  416 (434)
T TIGR00713       391 LEKGVYLPPSQFEACFISA------AHTEEDI  416 (434)
T ss_pred             HHCCCCCCCCCHHHHHHCC------CCCHHHH
T ss_conf             8588878987211555167------7772117


No 108
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II; InterPro: IPR011289   Fructose-1,6-bisphosphate (FBP) aldolases reversibly cleave FBP to two triose phosphates, glycerone phophate and D-glyceraldehyde 3-phosphate. They play a key role in both glycolysis (FBP cleavage) and gluconeogenesis (FBP synthesis). These enzymes can be divide into two classes based on their mode of catalysis. Class I FBP aldolases form a Schiff-base intermediate between glycerone phophate and an active site lysine residue, while the class II enzymes use a divalent cation such as Zn(2+) for catalysis .   This entry represents class II FBP aldolases found in Gram-positive bacteria, a variety of Gram-negative baceria, and amitochondriate protists. These enzymes are homotetramers where each momomer forms a TIM barrel fold .; GO: 0004332 fructose-bisphosphate aldolase activity, 0008270 zinc ion binding, 0006096 glycolysis, 0030388 fructose 16-bisphosphate metabolic process.
Probab=21.68  E-value=52  Score=13.08  Aligned_cols=11  Identities=27%  Similarity=0.419  Sum_probs=4.0

Q ss_pred             HHHHHHHHHHH
Q ss_conf             77675542100
Q gi|254780355|r  251 CIAAGVACLGG  261 (429)
Q Consensus       251 ai~agi~aL~G  261 (429)
                      ++++|||+-.|
T Consensus       180 ~LA~aIGt~HG  190 (339)
T TIGR01859       180 YLAAAIGTSHG  190 (339)
T ss_pred             EECCCCCCCCC
T ss_conf             54010035023


No 109
>pfam09370 TIM-br_sig_trns TIM-barrel signal transduction protein. This domain is likely to have a TIM barrel fold related to IGPS. Although this family of proteins are functionally uncharacterized this domain is found as an N-terminal domain of sigma 54 -dependent transcriptional activators (enhancer-binding proteins) suggesting a potential role in signal recognition/receiving and signal transduction.
Probab=21.35  E-value=53  Score=13.03  Aligned_cols=43  Identities=30%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             HHHHHHHCCCCCHHHHHHHH------HHHHHHHH-HCCCCHHHHHHHHHC
Q ss_conf             55554420565424677675------54210022-203528999998621
Q gi|254780355|r  236 STVRLAGSSGADPFACIAAG------VACLGGRA-HGGANEEALNMLMEI  278 (429)
Q Consensus       236 ft~R~vaSt~adlysai~ag------i~aL~GPl-HGGAne~v~~ml~~I  278 (429)
                      .++++.-..|+|+.-...+|      .++|.|-+ -|-||+-|++|-.||
T Consensus        26 lsAK~ae~gGaDlIi~ynsGrfRm~G~gSlagllpygdaN~iv~ema~Ev   75 (268)
T pfam09370        26 LSAKCEEAGGADLILIYNSGRYRMAGRGSLAGLLPYGNANEIVLEMAREV   75 (268)
T ss_pred             HHHHHHHHCCCCEEEEECCCHHHHCCCCCHHHHCCCCCHHHHHHHHHHHH
T ss_conf             65789985798699861540344358831312013565769999999888


No 110
>PRK11552 putative DNA-binding transcriptional regulator; Provisional
Probab=21.34  E-value=53  Score=13.03  Aligned_cols=35  Identities=11%  Similarity=0.129  Sum_probs=22.4

Q ss_pred             CCCHHHHHHHHHHHHEECCCCCCCHHHHHHHHHCCCC
Q ss_conf             4796999998756350136787630155554420565
Q gi|254780355|r  210 QVNPLLARAMNRIFILHADHEQNASTSTVRLAGSSGA  246 (429)
Q Consensus       210 ~~~~~~~~ald~~LILhADHe~NaSTft~R~vaSt~a  246 (429)
                      +....-.+.++..+-+-++||+++||  -.++..+|.
T Consensus        10 r~e~tr~~ll~aA~~~F~~~G~~att--r~Ia~~Ag~   44 (224)
T PRK11552         10 KGEQAKQQLIAAALAQFGEYGLHATT--RDIAAQAGQ   44 (224)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCHHH--HHHHHHHCC
T ss_conf             58999999999999999884914009--999998399


No 111
>TIGR02111 PQQ_syn_pqqC coenzyme PQQ biosynthesis protein C; InterPro: IPR011845    This entry describes the coenzyme PQQ (pyrrolo-quinoline-quinone) biosynthesis protein PqqC. Pyrroloquinoline quinone (PQQ) is the prosthetic group of several bacterial enzymes, including methanol dehydrogenase of methylotrophs and the glucose dehydrogenase of a number of bacteria . PQQC has been found to be required in the synthesis of PQQ but its function is unclear. This entry does not include related proteins likely to be functionally distinct from PqqC, such as homologs found in the Chlamydias.; GO: 0018189 pyrroloquinoline quinone biosynthetic process.
Probab=21.34  E-value=39  Score=13.96  Aligned_cols=47  Identities=15%  Similarity=0.186  Sum_probs=21.3

Q ss_pred             CCCCHHHHHHHHHHHHHHHH-HCCCCHHHHHHHHHCCCCC-HHHHHHHHHHH
Q ss_conf             56542467767554210022-2035289999986215535-12799999982
Q gi|254780355|r  244 SGADPFACIAAGVACLGGRA-HGGANEEALNMLMEIGSLE-RIPHYIMRAKD  293 (429)
Q Consensus       244 t~adlysai~agi~aL~GPl-HGGAne~v~~ml~~I~~~~-~v~~~i~~~~~  293 (429)
                      ....+--||+|.|.=|.-|. |   .+.+-.|++.-.=.+ +.=+|.+++|.
T Consensus       128 r~~sl~EA~aSSLTELFAP~I~---~~R~ag~l~hY~fi~~~~l~YF~~RL~  176 (239)
T TIGR02111       128 REKSLLEAIASSLTELFAPQIH---SERVAGLLQHYDFIDDAALAYFRKRLT  176 (239)
T ss_pred             HCCCHHHHHHHHHHHHHCCHHH---HHHHHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             3042789998877863060257---887641341366568668999987632


No 112
>KOG1741 consensus
Probab=21.09  E-value=53  Score=13.00  Aligned_cols=36  Identities=19%  Similarity=0.346  Sum_probs=29.3

Q ss_pred             HHHHHCCCCCHHHHH----HHHHHCCCCCHHHHHHHHHHH
Q ss_conf             988640689989999----998512476525789999999
Q gi|254780355|r  105 DKISRHALLNENMSR----FFMGFPSSAHPMAMLVSAVGA  140 (429)
Q Consensus       105 ~~l~~~~~lpe~v~~----~i~~~p~~ahPM~~L~~~vsa  140 (429)
                      +.+.....||+.+..    -++++|+++||.-+...||..
T Consensus        30 k~i~knp~LP~~~r~ea~~kl~alPrns~ptrI~NRCv~T   69 (103)
T KOG1741          30 KEISKNPILPEKLRDEAAEKLQALPRNSAPTRIKNRCVFT   69 (103)
T ss_pred             HHHHHCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHC
T ss_conf             9998188612999998999985276565429999888843


No 113
>PRK10254 hypothetical protein; Provisional
Probab=20.90  E-value=40  Score=13.88  Aligned_cols=20  Identities=30%  Similarity=0.370  Sum_probs=16.0

Q ss_pred             HHHHHCCCCHHHHHHHHHCC
Q ss_conf             00222035289999986215
Q gi|254780355|r  260 GGRAHGGANEEALNMLMEIG  279 (429)
Q Consensus       260 ~GPlHGGAne~v~~ml~~I~  279 (429)
                      +|-|||||+-+-.+.+-.+.
T Consensus        50 ~G~LHGGa~~aLAEt~~s~a   69 (137)
T PRK10254         50 FGLLHGGASAALAETLGSMA   69 (137)
T ss_pred             CCEEECHHHHHHHHHHHHHH
T ss_conf             43750013558999998775


No 114
>PRK09300 tRNA splicing endonuclease; Reviewed
Probab=20.85  E-value=54  Score=12.96  Aligned_cols=20  Identities=25%  Similarity=0.408  Sum_probs=15.9

Q ss_pred             CCHHHHHHHHHCCCCCCHHH
Q ss_conf             89899999998187999899
Q gi|254780355|r   80 SDFLEVCYLLLHGELANVSQ   99 (429)
Q Consensus        80 ~sFeEVayLLl~GeLPt~~e   99 (429)
                      -+.+|++||++.|.++-..+
T Consensus        36 LspvEa~yL~~rg~i~~~d~   55 (334)
T PRK09300         36 LSPVEAAYLLFRGKIEIEDG   55 (334)
T ss_pred             ECHHHHHHHHCCCCCCCCCC
T ss_conf             74899547502486613466


No 115
>TIGR01069 mutS2 MutS2 family protein; InterPro: IPR005747   Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication . MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base . MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch . MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level . Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA.    MutS is a modular protein with a complex structure , and is composed of:    N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts.    Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions . Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts .    This entry represents a family of MutS proteins.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0045005 maintenance of fidelity during DNA-dependent DNA replication.
Probab=20.65  E-value=35  Score=14.29  Aligned_cols=26  Identities=31%  Similarity=0.303  Sum_probs=18.6

Q ss_pred             HHHHHHHHHEECCC---CCCCHHHHHHHH
Q ss_conf             99987563501367---876301555544
Q gi|254780355|r  216 ARAMNRIFILHADH---EQNASTSTVRLA  241 (429)
Q Consensus       216 ~~ald~~LILhADH---e~NaSTft~R~v  241 (429)
                      ...|+..|+---|=   ++|-|||++|++
T Consensus       383 ~p~F~~ifaDIGDEQSi~qnLSTFS~Hm~  411 (834)
T TIGR01069       383 LPLFEEIFADIGDEQSIEQNLSTFSSHMK  411 (834)
T ss_pred             CHHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             11012120135884242433778999999


No 116
>TIGR00987 himA integration host factor, alpha subunit; InterPro: IPR005684   Integration host factor (IHF) is a heterodimeric protein consisting of alpha and beta (IPR005685 from INTERPRO) subunits. IHF binds the minor groove of DNA in a sequence-specific manner to induce a large bend. This bending stabilises distinct DNA conformations that are required during several bacterial processes, such as recombination, transposition, replication and transcription .; GO: 0003677 DNA binding, 0005694 chromosome.
Probab=20.64  E-value=54  Score=12.93  Aligned_cols=43  Identities=21%  Similarity=0.404  Sum_probs=25.7

Q ss_pred             HHHHHHCCC-CCH----HH---HHHHHHHHCCCCCEEECCCCCCCCCCCHH
Q ss_conf             999862155-351----27---99999982147861430277435555403
Q gi|254780355|r  272 LNMLMEIGS-LER----IP---HYIMRAKDKNDPFRIMGFGHRVYRNHDPR  314 (429)
Q Consensus       272 ~~ml~~I~~-~~~----v~---~~i~~~~~~~~~~ri~GfGHrvyk~~DPR  314 (429)
                      -.+++++|= ..+    |+   +-|.++|.+++..+|-|||.=-.++..-|
T Consensus         9 E~~f~~~GLs~~ea~~LVE~~~~~~~~AL~~gE~VKlS~FG~F~~RDK~~R   59 (96)
T TIGR00987         9 EALFRELGLSKREAKELVELFLEEIRDALERGEQVKLSGFGNFDLRDKTQR   59 (96)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCC
T ss_conf             999998288855778999999999999986388465303655210107778


No 117
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=20.49  E-value=21  Score=15.79  Aligned_cols=30  Identities=30%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             CCCHHHHHHHHHHHCCCCCEEECCCCCCCCCCC
Q ss_conf             535127999999821478614302774355554
Q gi|254780355|r  280 SLERIPHYIMRAKDKNDPFRIMGFGHRVYRNHD  312 (429)
Q Consensus       280 ~~~~v~~~i~~~~~~~~~~ri~GfGHrvyk~~D  312 (429)
                      ++..+..|..+-+-+  +.|.+| |||.|...|
T Consensus        13 s~~TlrrW~~~G~i~--~~rt~~-GhRry~~~d   42 (49)
T cd04762          13 SPSTLRRWVKEGKLK--AIRTPG-GHRRFPEED   42 (49)
T ss_pred             CHHHHHHHHHCCCCC--EEECCC-CCEEECHHH
T ss_conf             999999999879943--158899-877618999


No 118
>pfam05788 Orbi_VP1 Orbivirus RNA-dependent RNA polymerase (VP1). This family consists of the RNA-dependent RNA polymerase protein VP1 from the Orbiviruses. VP1 may have both enzymatic and structural roles in the virus life cycle.
Probab=20.22  E-value=47  Score=13.37  Aligned_cols=62  Identities=26%  Similarity=0.387  Sum_probs=39.1

Q ss_pred             EEEECCEEHHHHHHHCCHHH--HHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHH--HHHHHHCCCCCHHHHH
Q ss_conf             78989931999975089899--9999981879998999999998864068998999--9998512476525789
Q gi|254780355|r   65 ILLYRGYPIEQLSEKSDFLE--VCYLLLHGELANVSQQKDFNDKISRHALLNENMS--RFFMGFPSSAHPMAML  134 (429)
Q Consensus        65 ~L~YRGY~IedLa~~~sFeE--VayLLl~GeLPt~~el~~F~~~l~~~~~lpe~v~--~~i~~~p~~ahPM~~L  134 (429)
                      -|+|-||.++||.+ ..|-|  |+--||+|+-      .-|+..+..+-.|++.-+  .-++ -|+..+|..-+
T Consensus       622 ~lrYeG~t~~elie-fGYGeGRv~~tlWnGkR------~v~k~~~d~Y~~L~~~~r~~g~Fr-~P~GV~pvr~~  687 (1301)
T pfam05788       622 DLRYEGYTLDELIE-FGYGEGRVVNTLWNGKR------RVFKMLFDKYLSLSEEERIQGPFK-SPPGVKPIRNI  687 (1301)
T ss_pred             HCCCCCCCHHHHHH-HCCCCCHHHHHHHCCCH------HHHHCCCHHHHCCCHHHHCCCCCC-CCCCCEEECHH
T ss_conf             15637855999998-51565301231303404------553156044322787660268988-99971341117


No 119
>KOG4448 consensus
Probab=20.21  E-value=26  Score=15.17  Aligned_cols=59  Identities=19%  Similarity=0.274  Sum_probs=31.1

Q ss_pred             EEEEEEEEEEEECCCCEEEECCEEHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             23878756543344777898993199997508989999999818799989999999988640689
Q gi|254780355|r   49 TASCKSKITFIDGNNGILLYRGYPIEQLSEKSDFLEVCYLLLHGELANVSQQKDFNDKISRHALL  113 (429)
Q Consensus        49 ta~ceS~IT~IDG~~G~L~YRGY~IedLa~~~sFeEVayLLl~GeLPt~~el~~F~~~l~~~~~l  113 (429)
                      --+|-|.|--.--++|+-.|--.+|---...+.|--| |+.+|     ..+...|...++.+..|
T Consensus       105 Lkv~asglk~~h~qe~l~ly~ahrityc~a~~~~pkv-f~wiy-----rhegk~~~~~lrchaVL  163 (374)
T KOG4448         105 LKVEASGLKAFHEQEGLTLYWAHRITYCRAPSGYPKV-FCWIY-----RHEGKQLKSELRCHAVL  163 (374)
T ss_pred             EEEECCCCEEEECCCCCEEEEEEEEEEEECCCCCCEE-EEEEE-----ECCHHHHHHCCCEEEEE
T ss_conf             9971354356513576036663003563068789768-99998-----52224541214211256


No 120
>pfam01997 Translin Translin family. Members of this family include Translin that interacts with DNA and forms a ring around the DNA. This family also includes Translin-associated protein X, which was found to interact with translin with yeast two-hybrid screen.
Probab=20.11  E-value=44  Score=13.60  Aligned_cols=14  Identities=21%  Similarity=0.128  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHH
Q ss_conf             67767554210022
Q gi|254780355|r  250 ACIAAGVACLGGRA  263 (429)
Q Consensus       250 sai~agi~aL~GPl  263 (429)
                      .....||+-|.|-|
T Consensus       107 ~dYL~Gl~DltGEL  120 (186)
T pfam01997       107 EDYLLGLFDLTGEL  120 (186)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             99998999878799


Done!