Query gi|254780760|ref|YP_003065173.1| hypothetical protein CLIBASIA_03235 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 330
No_of_seqs 200 out of 2688
Neff 6.3
Searched_HMMs 39220
Date Sun May 29 19:01:03 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780760.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00057 TIGR00057 Sua5/YciO/ 100.0 0 0 460.7 16.4 196 10-207 11-215 (215)
2 COG0009 SUA5 Putative translat 100.0 0 0 444.9 18.5 203 2-207 2-209 (211)
3 PRK11630 hypothetical protein; 100.0 0 0 392.7 16.5 189 7-200 12-203 (206)
4 PRK10634 putative ribosome mat 100.0 0 0 368.6 16.9 182 7-195 5-190 (190)
5 pfam01300 Sua5_yciO_yrdC yrdC 100.0 0 0 371.5 14.3 176 17-195 1-178 (178)
6 KOG3051 consensus 100.0 0 0 338.8 8.1 230 9-241 16-252 (261)
7 pfam03481 SUA5 SUA5 domain. Th 100.0 5.1E-29 1.3E-33 208.4 11.5 125 197-323 1-143 (144)
8 COG0068 HypF Hydrogenase matur 99.7 8.5E-17 2.2E-21 129.2 14.5 182 8-194 196-380 (750)
9 TIGR00143 hypF [NiFe] hydrogen 99.7 8E-17 2E-21 129.4 11.3 152 9-169 198-353 (799)
10 COG2192 Predicted carbamoyl tr 96.5 0.069 1.8E-06 32.6 10.6 26 1-27 1-26 (555)
11 pfam02543 CmcH_NodU Carbamoylt 80.1 5 0.00013 20.6 5.6 10 135-144 193-202 (360)
12 TIGR02089 TTC tartrate dehydro 72.2 1.9 4.8E-05 23.3 1.4 145 21-195 3-174 (355)
13 PRK00311 panB 3-methyl-2-oxobu 62.5 11 0.00027 18.4 3.6 39 276-315 159-197 (266)
14 cd06557 KPHMT-like Ketopantoat 60.7 11 0.00027 18.4 3.3 39 276-315 154-192 (254)
15 pfam02548 Pantoate_transf Keto 60.6 12 0.00032 18.0 3.6 39 276-315 158-196 (261)
16 TIGR01124 ilvA_2Cterm threonin 59.4 10 0.00025 18.6 3.0 81 10-119 80-161 (508)
17 TIGR02340 chap_CCT_alpha T-com 58.7 15 0.00037 17.5 4.2 176 14-208 173-390 (540)
18 TIGR02852 spore_dpaB dipicolin 57.6 11 0.00029 18.2 3.0 20 199-218 53-72 (188)
19 PRK12318 methionine aminopepti 50.7 14 0.00036 17.6 2.6 38 53-90 31-73 (291)
20 PRK12897 methionine aminopepti 50.4 18 0.00047 16.9 3.2 11 112-122 107-117 (248)
21 TIGR02068 cya_phycin_syn cyano 44.9 23 0.00058 16.3 2.9 32 104-135 200-233 (876)
22 cd06556 ICL_KPHMT Members of t 44.8 24 0.00062 16.1 3.5 42 273-315 149-190 (240)
23 TIGR02346 chap_CCT_theta T-com 44.6 12 0.00031 18.1 1.5 130 61-210 258-399 (554)
24 cd03114 ArgK-like The function 44.0 25 0.00064 16.0 5.1 36 267-302 65-100 (148)
25 TIGR00873 gnd 6-phosphoglucona 42.1 18 0.00045 17.0 2.0 10 163-172 93-102 (480)
26 pfam01612 3_5_exonuc 3'-5' exo 41.5 27 0.00069 15.8 3.1 26 6-31 4-29 (172)
27 pfam05785 CNF1 Rho-activating 40.7 16 0.00042 17.2 1.7 80 104-207 98-177 (281)
28 pfam03308 ArgK ArgK protein. T 40.2 28 0.00073 15.7 4.0 60 138-204 98-162 (267)
29 PRK09435 arginine/ornithine tr 38.4 30 0.00077 15.5 4.2 57 139-202 119-180 (325)
30 TIGR01919 hisA-trpF bifunction 36.6 30 0.00076 15.5 2.5 25 282-306 154-178 (246)
31 PRK00098 ribosome-associated G 36.0 4.5 0.00012 20.8 -1.8 113 62-200 76-198 (298)
32 PRK08305 spoVFB dipicolinate s 35.8 33 0.00085 15.2 4.0 44 12-55 23-68 (195)
33 PRK05451 dihydroorotase; Provi 35.0 31 0.00079 15.4 2.3 35 106-146 104-140 (345)
34 TIGR01081 mpl UDP-N-acetylmura 34.7 11 0.00028 18.3 0.0 27 226-253 181-207 (459)
35 COG0646 MetH Methionine syntha 34.4 35 0.00089 15.1 3.0 33 149-183 136-168 (311)
36 COG3054 Predicted transcriptio 33.1 37 0.00094 14.9 3.1 32 177-208 147-178 (184)
37 COG1794 RacX Aspartate racemas 32.9 37 0.00094 14.9 3.4 20 175-196 188-207 (230)
38 COG1041 Predicted DNA modifica 31.9 30 0.00075 15.6 1.8 32 43-74 20-54 (347)
39 KOG0738 consensus 31.8 39 0.00098 14.8 2.8 80 226-318 299-397 (491)
40 TIGR01946 rnfD electron transp 30.8 34 0.00086 15.2 1.9 20 32-51 105-125 (346)
41 PRK06196 oxidoreductase; Provi 30.2 17 0.00044 17.1 0.4 66 11-97 39-105 (316)
42 cd04737 LOX_like_FMN L-Lactate 29.4 42 0.0011 14.5 5.5 14 125-138 95-108 (351)
43 cd03332 LMO_FMN L-Lactate 2-mo 29.1 43 0.0011 14.5 5.3 30 120-155 101-132 (383)
44 PRK01792 ribB 3,4-dihydroxy-2- 28.1 45 0.0011 14.4 6.2 63 7-74 11-79 (214)
45 TIGR02719 repress_PhaQ poly-be 27.7 33 0.00084 15.3 1.4 14 281-294 59-72 (138)
46 PRK09798 antitoxin MazE; Provi 27.6 26 0.00067 15.9 1.0 20 113-132 11-30 (82)
47 TIGR01465 cobM_cbiF precorrin- 27.6 21 0.00054 16.5 0.5 27 226-252 175-202 (252)
48 pfam03193 DUF258 Protein of un 25.8 19 0.00048 16.8 -0.1 65 125-200 5-69 (161)
49 pfam11808 DUF3329 Domain of un 25.3 50 0.0013 14.1 3.5 37 279-319 45-81 (90)
50 TIGR02452 TIGR02452 conserved 25.0 51 0.0013 14.0 3.9 24 277-300 197-220 (275)
51 TIGR01579 MiaB-like-C MiaB-lik 24.6 27 0.0007 15.8 0.6 13 42-54 52-64 (492)
52 COG0489 Mrp ATPases involved i 24.5 51 0.0013 14.0 1.9 70 138-207 142-212 (265)
53 PRK10456 arginine succinyltran 23.7 29 0.00074 15.6 0.6 54 111-172 199-258 (344)
54 COG3186 Phenylalanine-4-hydrox 23.6 54 0.0014 13.9 2.8 31 107-137 68-103 (291)
55 pfam00162 PGK Phosphoglycerate 23.3 33 0.00084 15.2 0.8 16 154-170 205-220 (383)
56 TIGR02584 cas_NE0113 CRISPR-as 21.7 13 0.00032 17.9 -1.6 48 80-128 65-121 (224)
57 pfam04958 AstA Arginine N-succ 21.6 32 0.00081 15.3 0.4 53 111-172 200-259 (338)
58 TIGR03244 arg_catab_AstA argin 21.5 27 0.0007 15.8 0.1 13 159-172 244-256 (336)
59 TIGR03245 arg_AOST_alph argini 21.4 31 0.00079 15.4 0.3 53 111-172 198-257 (336)
60 PRK12896 methionine aminopepti 21.1 60 0.0015 13.5 3.6 14 190-204 140-153 (254)
61 PRK11915 glycerol-3-phosphate 20.8 61 0.0016 13.5 3.8 10 163-172 197-206 (621)
62 TIGR03243 arg_catab_AOST argin 20.7 29 0.00073 15.6 0.1 53 111-172 197-256 (335)
63 TIGR00089 TIGR00089 RNA modifi 20.7 36 0.00091 15.0 0.5 31 269-302 317-347 (455)
64 COG1129 MglA ABC-type sugar tr 20.4 62 0.0016 13.5 1.7 45 276-322 434-478 (500)
65 pfam08351 DUF1726 Domain of un 20.0 63 0.0016 13.4 2.8 28 5-32 21-48 (92)
No 1
>TIGR00057 TIGR00057 Sua5/YciO/YrdC/YwlC family protein; InterPro: IPR004388 This entry includes the Sua5, YciO, YrdC and YwlC proteins. The yrdC family of genes codes for proteins that occur both independently and as a domain in proteins that have been implicated in regulation. An example for the latter case is the sua5 gene from yeast. Sua5 was identified as a suppressor of a translation initiation defect in cytochrome c and is required for normal growth in yeast . However, the function of the Sua5 protein remains unknown; Sua5 could act either at the transcriptional or the post-transcriptional levels to compensate for an aberrant translation start codon in the cyc gene. The crystal structure of the YrdC protein from Escherichia coli was determined at a resolution of 2.0 A. It structure suggests that YrdC may be a nucleic acid binding protein. An investigation of YrdC's binding affinities for single- and double-stranded RNA and DNA fragments as well as tRNAs demonstrates that YrdC binds preferentially to double-stranded RNA . .
Probab=100.00 E-value=0 Score=460.65 Aligned_cols=196 Identities=40% Similarity=0.590 Sum_probs=185.7
Q ss_pred HHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH-CCCHHHHHHHHCC
Q ss_conf 999999999975985999077800040279999999999997088810654999679899776420-0520468998505
Q gi|254780760|r 10 NALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS-VDPLSLHLAKLFW 88 (330)
Q Consensus 10 ~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~-~~~~~~~l~~~fw 88 (330)
+.|++|++.|++|++|+|||||||||||||+|++||+|||++||||.+|||++||+|++++++|+. +++.|.+||++||
T Consensus 11 ~~i~~A~~~l~~G~ivv~PTDTvYGiGa~a~ne~AV~r~~~iK~R~~~kPl~v~v~d~~~i~~~~~~v~~~A~~Lm~~f~ 90 (215)
T TIGR00057 11 KVIEQAVKILRKGGIVVYPTDTVYGIGADATNEDAVKRLYEIKGRPSNKPLIVLVSDLSEIEKLAEDVPDDAKKLMKKFL 90 (215)
T ss_pred HHHHHHHHHHHCCCEEEECCCCHHHHCCCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHCCCCCHHHHHHHHHCC
T ss_conf 89999999997494798718545540467547688999998616898697799973735644431165557999998608
Q ss_pred CCCEEEEECCCCCCCCCCCCCC--CCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCC--HHHHHHHHHHCCCC
Q ss_conf 8871886146787811655544--457633224156-676664201421212343334854330--17777664406554
Q gi|254780760|r 89 PGPLTLVLDLLSTTDIHPLSTA--NLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISIT--NVKHILSSSICKEI 163 (330)
Q Consensus 89 PGplT~il~~~~~~~i~~~~t~--~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt--~a~~v~~~~~~~~i 163 (330)
|||||+||+.++...+|+.++. .++|||||||+| ++++|++.+|.||++||||+||+||++ +.+|+. ++|+++|
T Consensus 91 PGplT~vL~~~~da~~p~~~~~G~~r~tvgiR~P~~~ia~~L~~~~g~Pi~~~SANlsg~p~~~~s~~e~~~-~~L~~~V 169 (215)
T TIGR00057 91 PGPLTLVLKKTPDALIPRLVSGGSKRGTVGIRVPDHPIALELLEELGKPIVAPSANLSGKPSATMSDVEEIV-DELDKLV 169 (215)
T ss_pred CCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCHHHHH-HHHCCEE
T ss_conf 996248870366643664001678877027860885799999996389867622678856876557889999-8613703
Q ss_pred CCCCCCCC---CCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCC
Q ss_conf 21127664---566767306996269824344248878888774227
Q gi|254780760|r 164 PLIIDGGI---SKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAIS 207 (330)
Q Consensus 164 ~~ildgg~---~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~ 207 (330)
|+|||||+ |..|.|||||||| +.+++|||+|.++.++|+++++
T Consensus 170 d~iid~g~nkd~~~~~~STi~dlt-~~~p~~LR~G~~~k~~i~~~l~ 215 (215)
T TIGR00057 170 DLIIDGGPNKDCLGGEPSTIVDLT-EDTPKVLREGKVSKEEIEKVLG 215 (215)
T ss_pred EEEEECCCCCCCCCCCCCEEEECC-CCCEEEEECCCCCHHHHHHHHC
T ss_conf 478807855332573342267314-6840688359840212576619
No 2
>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=0 Score=444.88 Aligned_cols=203 Identities=43% Similarity=0.648 Sum_probs=188.0
Q ss_pred EEECCCC----HHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCC
Q ss_conf 4431799----999999999997598599907780004027999999999999708881065499967989977642005
Q gi|254780760|r 2 QIMSITD----SNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHASVD 77 (330)
Q Consensus 2 ~~~~~~d----~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~~~ 77 (330)
++..++. +..+++|++.|++|++|+||||||||||||++|++||+|||++|+||.+||||+|++|+++++.|+.++
T Consensus 2 ~~~~~~~~~~~~~~~~~a~~~l~~G~vVa~PTeTVYGLg~~~~~~~Av~~i~~~K~Rp~~kpLil~~~~~~~l~~~~~~~ 81 (211)
T COG0009 2 QIFMIHPENPQPRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYEIKQRPSDKPLILHVASLEQLKEYADVP 81 (211)
T ss_pred CEEECCCCCCCHHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHCCC
T ss_conf 32422766621589999999997699899876644301127898999999999838998998799958999999884489
Q ss_pred CHHHHHHHHCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHH
Q ss_conf 204689985058871886146787811655544457633224156-6766642014212123433348543301777766
Q gi|254780760|r 78 PLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISITNVKHILS 156 (330)
Q Consensus 78 ~~~~~l~~~fwPGplT~il~~~~~~~i~~~~t~~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~ 156 (330)
+.+++++++|||||||+|||.++.... +++++|.+|||||||+| ++++||+++|.||++||||+||+||+|+++|+.
T Consensus 82 ~~~~~l~~~fwPGPlT~Il~~~~~~~~-~~~~~~~~TiavRvP~hpi~~~Li~~~G~Pl~stSANlsG~ps~tt~~ev~- 159 (211)
T COG0009 82 DVARKLLKAFWPGPLTFILPATKEVPR-RLVTAGLSTIAVRVPDHPIALALIEALGEPLASTSANLSGQPSPTTAEEVR- 159 (211)
T ss_pred HHHHHHHHHHCCCCEEEEEECCCCCCH-HHHCCCCCEEEEECCCCHHHHHHHHHHCCCEEECCCCCCCCCCCCCHHHHH-
T ss_conf 999999997199975999868888972-432589970899888999999999984992487676768988989999999-
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCC
Q ss_conf 440655421127664566767306996269824344248878888774227
Q gi|254780760|r 157 SSICKEIPLIIDGGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAIS 207 (330)
Q Consensus 157 ~~~~~~i~~ildgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~ 207 (330)
++|++++++|+|||+|..|.||||||++. ++++|||+|+++.++|+++++
T Consensus 160 ~~~~~~v~~iidgg~~~~g~pSTIiDlt~-~~~~ilR~G~i~~~~i~~~~~ 209 (211)
T COG0009 160 ADFGGQVDLIIDGGPCRGGLPSTIIDLTD-DPPRILRPGAISLEEIEKLLG 209 (211)
T ss_pred HHHCCCCEEEEECCCCCCCCCCEEEECCC-CCCEEEECCCCCHHHHHHHHC
T ss_conf 98551471998088667999736897789-974798389988999998726
No 3
>PRK11630 hypothetical protein; Provisional
Probab=100.00 E-value=0 Score=392.70 Aligned_cols=189 Identities=23% Similarity=0.358 Sum_probs=170.4
Q ss_pred CCHHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCHHHHHHHH
Q ss_conf 99999999999997598599907780004027999999999999708881065499967989977642005204689985
Q gi|254780760|r 7 TDSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHASVDPLSLHLAKL 86 (330)
Q Consensus 7 ~d~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~~~~~~~~l~~~ 86 (330)
.+++.|++|+++|++|++|+||||||||||||++|.+||+|||++|+||.+|||+++++|++++..|+.+++.+++|+++
T Consensus 12 p~~~~I~~A~~~L~~Ggvv~~PTdTvYGlg~d~~n~~Av~ki~~iK~R~~~kpl~ll~~~~~~~~~~~~~~~~~~~l~~~ 91 (206)
T PRK11630 12 PQQRLINQAVDIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSYVDNVAFRLMKN 91 (206)
T ss_pred CCHHHHHHHHHHHHCCCEEEEECCCHHHHEECCCCHHHHHHHHHHHCCCCCCCCCEECCCHHHHHHHCCCCHHHHHHHHH
T ss_conf 89899999999997799899967754652255899899999998658997898621348999999772589999999984
Q ss_pred CCCCCEEEEECCCCCCCCC-CCCCCCCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCC-CCCHHHHHHHHHHCCCC
Q ss_conf 0588718861467878116-55544457633224156-676664201421212343334854-33017777664406554
Q gi|254780760|r 87 FWPGPLTLVLDLLSTTDIH-PLSTANLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQI-SITNVKHILSSSICKEI 163 (330)
Q Consensus 87 fwPGplT~il~~~~~~~i~-~~~t~~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~-Spt~a~~v~~~~~~~~i 163 (330)
|||||||+||+.++ .++ .+++++.+|||||||+| ++++|++++|.||++||||+||++ +.++.+++ .+.|++.+
T Consensus 92 ~wPGplT~Il~~~~--~~p~~l~~~~~~tvgvRiP~~~~~~~L~~~~g~Pl~sTSAN~sG~~~~~~~~~~i-~~~~~~~v 168 (206)
T PRK11630 92 NTPGNYTFILKGTK--EVPRRLLQEKRKTIGLRVPSNPIALALLEALGEPMLSTSLMLPGSDFTESDPEEI-KDRLEKQV 168 (206)
T ss_pred CCCCCEEEEEECCC--CCCHHHHCCCCCEEEEECCCCHHHHHHHHHHCCCEEECCCCCCCCCCCCCCHHHH-HHHHCCCC
T ss_conf 69998489850666--6757764799872789668999999999981998888544467898898999999-99857874
Q ss_pred CCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHH
Q ss_conf 2112766456676730699626982434424887888
Q gi|254780760|r 164 PLIIDGGISKIGLESTIVNVQCEKKVRILRPGGLEIE 200 (330)
Q Consensus 164 ~~ildgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~ 200 (330)
|+|+|||.+. +.+||||||+. ++++|||+|+....
T Consensus 169 D~iidgg~~~-~~pSTIvdlt~-~~~~IlR~Gagd~~ 203 (206)
T PRK11630 169 DLIIHGGYLG-QQPTTVIDLTD-DTPVVVREGVGDVT 203 (206)
T ss_pred CEEEECCCCC-CCCCEEEEEEC-CCEEEEECCCCCCC
T ss_conf 5899699858-86787999339-95089827877676
No 4
>PRK10634 putative ribosome maturation factor; Provisional
Probab=100.00 E-value=0 Score=368.58 Aligned_cols=182 Identities=26% Similarity=0.386 Sum_probs=164.8
Q ss_pred CCHHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH---CCCHHHHH
Q ss_conf 999999999999975985999077800040279999999999997088810654999679899776420---05204689
Q gi|254780760|r 7 TDSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS---VDPLSLHL 83 (330)
Q Consensus 7 ~d~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~---~~~~~~~l 83 (330)
-+.++|++|+++|++|++|+|||||||||||||+|++||+|||++|+||.+|||++++++++++.+|++ +++...++
T Consensus 5 ~~~~ai~~Av~~L~~GgvV~~PTdTvYGlg~da~~~~Av~~i~~iK~R~~~kpl~~l~~~~~~l~~~~~~~~~~~~~~~~ 84 (190)
T PRK10634 5 LQGDAIAAAVDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKPYIDDSMLTDAQRET 84 (190)
T ss_pred CCHHHHHHHHHHHHCCCEEEEECCCHHHEEECCCCHHHHHHHHHHCCCCCCCCCEEEECCHHHHHHHHHHCCCCHHHHHH
T ss_conf 57899999999997699899926874430255899999999999758988899689979999999987523189999999
Q ss_pred HHHCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCC
Q ss_conf 985058871886146787811655544457633224156-6766642014212123433348543301777766440655
Q gi|254780760|r 84 AKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKE 162 (330)
Q Consensus 84 ~~~fwPGplT~il~~~~~~~i~~~~t~~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~ 162 (330)
+.+|||||+|+|++.+ ..+|.+++++.+|||||||+| ++++|++.+|.||++||||+||++++++++++. +.|+++
T Consensus 85 ~~~~wPGplT~Il~~~--~~~p~~l~~~~~tIgvRiP~~~~~~~L~~~~g~Pl~sTSAN~sG~~~~~~~~ei~-~~f~~~ 161 (190)
T PRK10634 85 IFSCWPGPVTFVFPAP--ATTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSANLSGLPPCRTVEEVR-AQFGAA 161 (190)
T ss_pred HHHCCCCCEEEEEECC--CCCCHHHCCCCCCEEEECCCCHHHHHHHHHHCCEEEECCCCCCCCCCCCCHHHHH-HHHCCC
T ss_conf 9715999849998788--7767522389996027766999999999983997898987768998989999999-985788
Q ss_pred CCCCCCCCCCCCCCCCEEEEEECCCCEEEEECC
Q ss_conf 421127664566767306996269824344248
Q gi|254780760|r 163 IPLIIDGGISKIGLESTIVNVQCEKKVRILRPG 195 (330)
Q Consensus 163 i~~ildgg~~~~GieSTiid~~~~~~~~IlR~G 195 (330)
+++ ++|+....+.+|||+|+++ + +|||+|
T Consensus 162 v~i-v~g~~~~~~~pStIvD~~~-g--eilR~G 190 (190)
T PRK10634 162 FPV-VPGETGGRLNPSEIRDALT-G--ELFRQG 190 (190)
T ss_pred CEE-EECCCCCCCCCCEEEECCC-C--CEECCC
T ss_conf 569-9578788889937598999-9--875187
No 5
>pfam01300 Sua5_yciO_yrdC yrdC domain. This domain has been shown to preferentially bind to dsRNA. The domain is found in SUA5 as well as HypF and YrdC.
Probab=100.00 E-value=0 Score=371.46 Aligned_cols=176 Identities=40% Similarity=0.635 Sum_probs=165.6
Q ss_pred HHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH-CCCHHHHHHHHCCCCCEEEE
Q ss_conf 99975985999077800040279999999999997088810654999679899776420-05204689985058871886
Q gi|254780760|r 17 EFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS-VDPLSLHLAKLFWPGPLTLV 95 (330)
Q Consensus 17 ~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~-~~~~~~~l~~~fwPGplT~i 95 (330)
++|++|++|+|||||||||||||+|++||+|||++|+||.+|||+++++|++++.+|+. +++.+++|+++|||||+|+|
T Consensus 1 e~L~~G~vi~~PTdtvYgl~~~a~~~~Av~ki~~iK~R~~~kpl~ll~~s~~~~~~~~~~~~~~~~~l~~~~wPGPlT~i 80 (178)
T pfam01300 1 EALRQGGIVAYPTDTVYGLGCDATNEEAVERLREIKGRPRDKPLAVMVADLEQLKEYADEVEEAALKLAERFWPGPITLI 80 (178)
T ss_pred CHHHCCCEEEEECCCEEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCHHHHHHHHHHCCCCCEEEE
T ss_conf 91433988999779740488817998999999997089877883401587999998730156999999972589986998
Q ss_pred ECCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 146787811655544457633224156-6766642014212123433348543301777766440655421127664566
Q gi|254780760|r 96 LDLLSTTDIHPLSTANLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKI 174 (330)
Q Consensus 96 l~~~~~~~i~~~~t~~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ildgg~~~~ 174 (330)
+|.+ +..++.+++++.++||||+|+| ++++|++.+|.||++||||+||++++++.+++. +.|++.+|+|+|+|.|..
T Consensus 81 ~~~~-~~~~~~~~~~~~~~igvRvp~~~~~~~L~~~~g~Pl~~TSAN~sG~~~~~~~~ei~-~~~~~~vd~i~d~g~~~~ 158 (178)
T pfam01300 81 LPAS-KSKLPKLVTPGLGTVGVRLPDHPLARLLLEALGEPLVATSANLSGEPSATDAEEVL-EELGGIVDLILDGGRIPV 158 (178)
T ss_pred ECCC-CCCCCCCCCCCCCCEEEECCCHHHHHHHHHHHHHHEEECCCCCCCCCCCCCHHHHH-HHHCCCCEEEEECCCCCC
T ss_conf 4266-66665202799983358604779999999986333288234679998989999999-983787619997998789
Q ss_pred CCCCEEEEEECCCCEEEEECC
Q ss_conf 767306996269824344248
Q gi|254780760|r 175 GLESTIVNVQCEKKVRILRPG 195 (330)
Q Consensus 175 GieSTiid~~~~~~~~IlR~G 195 (330)
|.+|||||+++ +.++|+|+|
T Consensus 159 ~~~STIvd~~~-~~~~ilR~G 178 (178)
T pfam01300 159 GVDSTVVDLTD-GPPEILRRG 178 (178)
T ss_pred CCCCEEEEEEC-CCEEEECCC
T ss_conf 99981499589-914897359
No 6
>KOG3051 consensus
Probab=100.00 E-value=0 Score=338.75 Aligned_cols=230 Identities=37% Similarity=0.571 Sum_probs=202.9
Q ss_pred HHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHH-H-CCCHHHHHHHH
Q ss_conf 999999999997598599907780004027999999999999708881065499967989977642-0-05204689985
Q gi|254780760|r 9 SNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHA-S-VDPLSLHLAKL 86 (330)
Q Consensus 9 ~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~-~-~~~~~~~l~~~ 86 (330)
+..+.-|.-+-+.++.|+||||||||+|+.++++.|+.++|++|.||.+|||++|+++..+++... . ++.....|++.
T Consensus 16 ~~~~~aa~~~r~~~~~va~pT~t~yg~g~~~~~~~av~~v~~~K~rP~~~pL~~~~~s~~~~~~v~~~~i~~~~~~L~~~ 95 (261)
T KOG3051 16 PALYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVHVSSVDQLKRVVAINIPSLYLPLASY 95 (261)
T ss_pred HHHHHHHHHEECCCCCEECCCHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHCCHHHHHHHHHH
T ss_conf 55542023202168824347353432235553334404346552276445243244518788888750451455677764
Q ss_pred CCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCC
Q ss_conf 058871886146787811655544457633224156-6766642014212123433348543301777766440655421
Q gi|254780760|r 87 FWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPL 165 (330)
Q Consensus 87 fwPGplT~il~~~~~~~i~~~~t~~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ 165 (330)
|||||+|++|+... ..++..++.++.++|+|||+| ++++++++++.|+++||||.||++|||.+.|++ ++|..++++
T Consensus 96 l~PGPltlll~~~~-~~l~~~~~~~~~svAvRiP~~~~a~~li~~~~~Pla~tSAN~Ssr~s~tlai~~~-~Dl~~~i~l 173 (261)
T KOG3051 96 LWPGPLTLLLERAD-ECLSKLTNPGLPSVAVRIPDHPVASALIPKLGVPLALTSANASSRPSPTLAIHVF-ADLQPKIPL 173 (261)
T ss_pred CCCCCEEEEEECCH-HHCCCCCCCCCCCEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHH-HHHCCCHHH
T ss_conf 37775588742230-2203101678751368746878899999874887322444313688986204666-662512121
Q ss_pred CCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCCCEECCCC----CCCCCCCCCCCCCCCCCCCCCHHHHCC
Q ss_conf 1276645667673069962698243442488788887742273001333----344332233332100124531011101
Q gi|254780760|r 166 IIDGGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAISVELEYCV----DETSTPQSPGMLKSHYAPRSQVRLRAI 241 (330)
Q Consensus 166 ildgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~~~v~~~~----~~~~~~~SPG~~~~HYAP~~~V~L~~~ 241 (330)
|+|||.|..|+|||+++... +++.|+|+|+++.+++...-|..++... ....+++.|||+|+||+|.+++.+...
T Consensus 174 ilDgG~c~~g~~~~~~~g~~-~p~~i~~pgG~~~~~~vv~gGca~~~t~~~~~~~~~~~~~pG~~~~h~s~~~~~~~f~~ 252 (261)
T KOG3051 174 ILDGGACGSGVESTVVEGST-DPVDILRPGGITGEDIVVRGGCAVESTKVDMTEPGEKVITPGMKYRHYSPTAKVDLFVL 252 (261)
T ss_pred EECCCCCCCCCCCEEECCCC-CCCEEECCCCCCCEEEEEECCCCCEEEEECCCCCCCEEECCCCCCCCCCHHHHHHHHCC
T ss_conf 12476444476860103666-76544036886412578856832035530125776324268865354450234455434
No 7
>pfam03481 SUA5 SUA5 domain. The function of this domain is unknown, it is found in Saccharomyces cerevisiae SUA5 and its relatives. It is found to the C-terminus of pfam01300
Probab=99.96 E-value=5.1e-29 Score=208.42 Aligned_cols=125 Identities=31% Similarity=0.478 Sum_probs=98.8
Q ss_pred CCHHHHHHHCCCEEC------CCCCCCCCCCCCCCCCCCCCCCCCHHHHCCC------------CCCCCCEEEECCCCCC
Q ss_conf 788887742273001------3333443322333321001245310111013------------5777000002022235
Q gi|254780760|r 197 LEIETLKRAISVELE------YCVDETSTPQSPGMLKSHYAPRSQVRLRAIH------------VNPREALIRFGNVPIK 258 (330)
Q Consensus 197 i~~~~i~~~l~~~v~------~~~~~~~~~~SPG~~~~HYAP~~~V~L~~~~------------~~~~e~ll~~~~~~~~ 258 (330)
||.|+|++++|..+. ......+.|+||||+|+||||++||+|.+.. ...+.+++.+......
T Consensus 1 IT~e~ie~vlG~~~~~~~~~~~~~~~~~~pksPGmk~rHYaP~~~v~L~~~~~~~~~~~~~~~~~~~~~~vl~~~~~~~~ 80 (144)
T pfam03481 1 ITAEELEAVLGEVLIDPALLRKKEADAEAPKAPGMKYRHYAPKAPVRLVEVAEKIRELVDELAAKGKKVGVLATEEETAL 80 (144)
T ss_pred CCHHHHHHHHCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCCCCC
T ss_conf 98899998629851372330345666778889997653569997079844578899999973412899899986775455
Q ss_pred CCCCCCEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf 65665179975999999999998999999999779989999638887610899989998405832
Q gi|254780760|r 259 NIENAIISLNLSKTGKLKEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRLERAAAPRN 323 (330)
Q Consensus 259 ~~~~~~~~~~Ls~~gd~~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL~RAA~~r~ 323 (330)
......+.++..+|++|+|+|||+.||++|+.++++|+++.+|++|+|.||||||+|||++|-
T Consensus 81 --~~~~~~~~l~~~~d~~e~A~~Ly~~LR~lD~~~~~~I~ve~~~~~g~g~Ai~dRL~RAA~~~~ 143 (144)
T pfam03481 81 --FDKNPVIVLGSRGDLEEAARNLFAALRELDEAGVDVILVEGFPEEGLGLAIMNRLRKAAGPRI 143 (144)
T ss_pred --CCCCCEEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHCCCC
T ss_conf --576636884699999999999999999986579998999848997808999989998706886
No 8
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=8.5e-17 Score=129.24 Aligned_cols=182 Identities=21% Similarity=0.270 Sum_probs=130.2
Q ss_pred CHHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCHHHHHHHHC
Q ss_conf 99999999999975985999077800040279999999999997088810654999679899776420052046899850
Q gi|254780760|r 8 DSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHASVDPLSLHLAKLF 87 (330)
Q Consensus 8 d~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~~~~~~~~l~~~f 87 (330)
+.++|..|++.|+.|++||+--=--|.|+|||+|+++|+++.+.|+||. ||+-||+.|+++++.|++++....++...-
T Consensus 196 ~~~ai~~a~klL~~G~IvAIKGiGGFhLaCda~~~~aV~~LR~rk~Rp~-KPFAvM~kdl~~i~~~a~~~~~E~~lL~S~ 274 (750)
T COG0068 196 ANEAIRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLRKRKNRPL-KPFAVMAKDLETIEEFAEVNDEEEELLTSP 274 (750)
T ss_pred HHHHHHHHHHHHHHCCEEEEEECCCEEEEECCCCHHHHHHHHHHCCCCC-CCCEEEECCHHHHHHHHCCCHHHHHHHCCC
T ss_conf 3699999999986288799961574455414872689999998518988-883465064887877624567889874586
Q ss_pred CCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHH-HHHHH-HCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCC
Q ss_conf 5887188614678781165554445763322415667-66642-014212123433348543301777766440655421
Q gi|254780760|r 88 WPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCGFT-KKLIE-TYGHPLAIPSANRSGQISITNVKHILSSSICKEIPL 165 (330)
Q Consensus 88 wPGplT~il~~~~~~~i~~~~t~~~~tvavRiP~h~~-~~ll~-~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ 165 (330)
--|+. +|++++...+++.+..|+++|||-.|-... .-|++ ....|+++||||++|+|-..+-++.+ +.+.+--|+
T Consensus 275 -~rPIV-ll~Kk~~~~~~~~iAP~l~~iGVMLPYtpLhhLLl~~~~~~~~VmTSaNl~g~Pm~~dN~eal-~kL~~IADy 351 (750)
T COG0068 275 -SRPIV-LLKKKKVFLLESNIAPGLHTIGVMLPYTPLHHLLLQESLDIPYVMTSANLPGEPMAIDNEEAL-EKLKGIADY 351 (750)
T ss_pred -CCCEE-EECCCCCCCCCCCCCCCCCCCCEEECCCCHHHHHHHHCCCCEEEEECCCCCCCCCCCCCHHHH-HHHHHHHHE
T ss_conf -67679-863666666412258999875266227816665433136832998058888998556878999-875412242
Q ss_pred CCCCC-CCCCCCCCEEEEEECCCCEEEEEC
Q ss_conf 12766-456676730699626982434424
Q gi|254780760|r 166 IIDGG-ISKIGLESTIVNVQCEKKVRILRP 194 (330)
Q Consensus 166 ildgg-~~~~GieSTiid~~~~~~~~IlR~ 194 (330)
.|.-. .+..-..-+||...++. ...+|.
T Consensus 352 fL~HNR~I~~r~DDSVVrvV~g~-~~~iRr 380 (750)
T COG0068 352 FLLHNREIVNRCDDSVVRVVAGR-IAFIRR 380 (750)
T ss_pred EEECCHHHCCCCCCCEEEEECCC-EEEEEH
T ss_conf 45326311564687605787794-523404
No 9
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF; InterPro: IPR004421 The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesized as a precursor devoid of the metalloenzyme active site. This precursor then undergoes a complex post-translational maturation process that requires a number of accessory proteins , , . Members of the HypF family are accessory proteins involved in hydrogenase maturation. They contain the following domains: acylphosphatase, zinc fingers (2 repeats), a YrdC-like domain, and a C-terminal domain with a putative O-carbamoyltransferase motif. The presence of CO and CN- ligands of the active site iron atoms is essential for [NiFe]-hydrogenase enzyme activity . Both ligands have been suggested to originate from carbamoylphosphate , which is required for maturation of [NiFe]-hydrogenases . Escherichia coli HypF interacts with carbamoylphosphate as a substrate and releases inorganic phosphate . In addition, HypF also cleaves ATP into AMP and pyrophosphate in the presence of carbamoylphosphate. This, and the fact that HypF catalyzes a carbamoylphosphate-dependent pyrophosphate ATP exchange reaction, suggest that the protein catalyzes the activation of carbamoylphosphate . The mechanism of action of HypF, as well as of its individual domains, is not yet clear. Mutations in any of the three major signature motifs, the acylphosphatase, the zinc fingers, and the O-carbamoyltransferase motif, can block carbamoylphosphate phosphatase activity. This indicates an integrated cooperativity between these domains in the cleavage reaction . The N-terminal acylphosphatase (ACP) domain is thought to support the conversion of carbamoylphosphate into CO and CN- , . Biochemical results demonstrating its ACP activity are not available , . ACPs are small enzymes that specifically catalyze the hydrolysis of carboxylphosphate bonds in acylphosphates, including carbamoylphosphate . Zinc fingers have been implicated in bivalent cation binding or as part of a chaperone domain interacting with the large subunit precursor, but experimental studies on such a function are lacking thus far. The YrdC-like domain is present in protein families with regulatory functions (IPR012200 from INTERPRO, IPR010923 from INTERPRO) and has been implicated in RNA binding . It is not clear what function it may have in members of the HypF family. A C-terminal domain is distantly related to peptidase M22, but contains a conserved O-carbamoyltransferase motif required for the carbamoylphosphate phosphatase activity . The function of this domain is not clear. Nomenclature note: the following names are used as synonyms of HypF: HupY in Azotobacter chroococcum, HupN in Rhizobium leguminosarum, HydA in Escherichia coli. In other organisms, these names are used to designate various "hydrogenase cluster" proteins unrelated to the members of this family. ; GO: 0030528 transcription regulator activity.
Probab=99.72 E-value=8e-17 Score=129.40 Aligned_cols=152 Identities=28% Similarity=0.391 Sum_probs=115.1
Q ss_pred HHHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCHHH-HHHHHC
Q ss_conf 9999999999975985999077800040279999999999997088810654999679899776420052046-899850
Q gi|254780760|r 9 SNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHASVDPLSL-HLAKLF 87 (330)
Q Consensus 9 ~~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~~~~~~~-~l~~~f 87 (330)
+++|..|++.|+.|++||+-==--|-|+|++.|.++|+++...|+||. |||-||+.++++++.++++++... .|...
T Consensus 198 ~~al~~a~~~L~~G~IiAiKGiGGfHL~C~a~~~~~V~~LR~~k~RP~-kPfAvM~~~l~~~~~~A~~~~~E~~~L~S~- 275 (799)
T TIGR00143 198 DDALKEAAKLLKKGKIIAIKGIGGFHLACDARDDEVVERLRLRKNRPA-KPFAVMSPDLESIEEHAELNNLEKELLLSP- 275 (799)
T ss_pred CHHHHHHHHHHCCCCEEEEECCCCEEEEECCCCHHHHHHHHHHCCCCC-CCCEECCCCCCCHHHHHCCCHHHHHHHCCC-
T ss_conf 736899999840797799856864488653886489999986457889-751441530200155505586899851166-
Q ss_pred CCCCEEEEECCCCC-CCCCCCCCCCCCCCCCCCHHHHH-HHHHH-HCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCC
Q ss_conf 58871886146787-81165554445763322415667-66642-01421212343334854330177776644065542
Q gi|254780760|r 88 WPGPLTLVLDLLST-TDIHPLSTANLKTACFRVPCGFT-KKLIE-TYGHPLAIPSANRSGQISITNVKHILSSSICKEIP 164 (330)
Q Consensus 88 wPGplT~il~~~~~-~~i~~~~t~~~~tvavRiP~h~~-~~ll~-~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~ 164 (330)
--|+=++ ++|+. ....+.+-.|+++|||-.|-... .-|++ ....|+|+||||++|.|-..+-++++ +. +.
T Consensus 276 -aaPIVl~-~Kk~dy~~~~~~iAp~l~~iGVMLPYtPLHhLLL~~~~~~p~VmTSaNl~G~P~~idn~~~l-~~----L~ 348 (799)
T TIGR00143 276 -AAPIVLL-RKKKDYIKLFENIAPNLDTIGVMLPYTPLHHLLLQELLAKPLVMTSANLPGEPMAIDNEEIL-EK----LQ 348 (799)
T ss_pred -CCCEEEE-ECCCCCCCCCCCCCCCCCCEEEECCCCHHHHHHHHHHCCCCEEEECCCCCCCCCCCCHHHHH-HH----HC
T ss_conf -4776776-15757443560116796932586488645789867622777166026788988865779998-86----12
Q ss_pred CCCCC
Q ss_conf 11276
Q gi|254780760|r 165 LIIDG 169 (330)
Q Consensus 165 ~ildg 169 (330)
.|.||
T Consensus 349 gIaDg 353 (799)
T TIGR00143 349 GIADG 353 (799)
T ss_pred CCCCC
T ss_conf 24150
No 10
>COG2192 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.069 Score=32.60 Aligned_cols=26 Identities=27% Similarity=0.365 Sum_probs=15.1
Q ss_pred CEEECCCCHHHHHHHHHHHHCCCEEEE
Q ss_conf 944317999999999999975985999
Q gi|254780760|r 1 MQIMSITDSNALRKACEFLDAGLPIAI 27 (330)
Q Consensus 1 m~~~~~~d~~~i~~a~~~L~~G~~v~~ 27 (330)
|+|+-+++.. =+.++..+++|++|+-
T Consensus 1 m~ILGis~~~-HD~aaaLv~Dg~iVaA 26 (555)
T COG2192 1 MYILGISDGY-HDAAAALVRDGEIVAA 26 (555)
T ss_pred CEEEEECCCC-CCCCEEEEECCEEEEE
T ss_conf 9799843677-7750178857828987
No 11
>pfam02543 CmcH_NodU Carbamoyltransferase. This family consists of NodU from Rhizobium and CmcH from Nocardia lactamdurans. NodU a Rhizobium nodulation protein involved in the synthesis of nodulation factors has 6-O-carbamoyltransferase-like activity. CmcH is involved in cephamycin (antibiotic) biosynthesis and has 3-hydroxymethylcephem carbamoyltransferase activity, EC:2.1.3.7 catalysing the reaction: Carbamoyl phosphate + 3-hydroxymethylceph-3-EM-4-carboxylate <= phosphate + 3-carbamoyloxymethylcephem.
Probab=80.13 E-value=5 Score=20.55 Aligned_cols=10 Identities=40% Similarity=0.571 Sum_probs=5.0
Q ss_pred EECCCCCCCC
Q ss_conf 2123433348
Q gi|254780760|r 135 LAIPSANRSG 144 (330)
Q Consensus 135 iaa~SAN~sG 144 (330)
-+-|+++=.|
T Consensus 193 fV~Pa~~D~G 202 (360)
T pfam02543 193 WVPPAMNDSG 202 (360)
T ss_pred EECCCCCCHH
T ss_conf 3178988515
No 12
>TIGR02089 TTC tartrate dehydrogenase; InterPro: IPR011829 Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate . These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in IPR004429 from INTERPRO and IPR011828 from INTERPRO, respectively.; GO: 0009027 tartrate dehydrogenase activity, 0051287 NAD binding.
Probab=72.19 E-value=1.9 Score=23.28 Aligned_cols=145 Identities=15% Similarity=0.170 Sum_probs=69.5
Q ss_pred CCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHH-HHH----H-HCCCHHHHHHHHC---CCCC
Q ss_conf 59859990778000402799999999999970888106549996798997-764----2-0052046899850---5887
Q gi|254780760|r 21 AGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMV-KKH----A-SVDPLSLHLAKLF---WPGP 91 (330)
Q Consensus 21 ~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~-~~~----~-~~~~~~~~l~~~f---wPGp 91 (330)
+=++-++|-| |+|-.-. +.|.+-+-.+-++.-+ |.+|...++.= .+| . .+|++-...+++| +=|.
T Consensus 3 ~~~IA~IPGD---GIG~eV~-~aa~~VL~A~a~~hG~--~~l~~~~FpWSs~dYY~~hG~MMP~DG~e~l~~fdAIflGA 76 (355)
T TIGR02089 3 QYRIAAIPGD---GIGKEVV-AAALQVLEAAAKKHGG--LSLEFTEFPWSSCDYYKEHGKMMPEDGLEKLKKFDAIFLGA 76 (355)
T ss_pred CEEEEEECCC---CCCHHHH-HHHHHHHHHHHHHCCC--EEEEECCCCCCCHHHHHHCCCCCCHHHHHHHCCCCEEEECC
T ss_conf 4068751488---9865379-9999999999974198--48740258986338888607788634698623757378614
Q ss_pred EEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCC-CEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCC---
Q ss_conf 18861467878116555444576332241566766642014-21212343334854330177776644065542112---
Q gi|254780760|r 92 LTLVLDLLSTTDIHPLSTANLKTACFRVPCGFTKKLIETYG-HPLAIPSANRSGQISITNVKHILSSSICKEIPLII--- 167 (330)
Q Consensus 92 lT~il~~~~~~~i~~~~t~~~~tvavRiP~h~~~~ll~~~~-~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~il--- 167 (330)
.=.. ..|||-++ -=|.|+| +.|++-..++ +|.=. ++|=.||-...- - +++|+++
T Consensus 77 VG~P------~~VPDhiS----LWGlLlk--iRr~F~qy~N~RP~k~----lpGv~sPL~~~g-----P-~D~D~~vvRE 134 (355)
T TIGR02089 77 VGWP------ALVPDHIS----LWGLLLK--IRREFDQYINLRPAKL----LPGVTSPLKNRG-----P-GDFDFVVVRE 134 (355)
T ss_pred CCCC------CCCCCCEE----EHHHHHH--HHHHHHCEECCCCEEE----CCCCCCCCCCCC-----C-CCEEEEEEEE
T ss_conf 3780------20688355----0524545--6233300220276100----578787202487-----8-9455899864
Q ss_pred --------CCC------CCCCCCCCEEEEEECCCCEEEEECC
Q ss_conf --------766------4566767306996269824344248
Q gi|254780760|r 168 --------DGG------ISKIGLESTIVNVQCEKKVRILRPG 195 (330)
Q Consensus 168 --------dgg------~~~~GieSTiid~~~~~~~~IlR~G 195 (330)
-|| +-++++|.||. |..+-=||||.+
T Consensus 135 NsEGEYS~~GGR~h~G~d~E~a~~~~if--TR~GveRilrFA 174 (355)
T TIGR02089 135 NSEGEYSGVGGRIHRGTDEEVAIQNAIF--TRKGVERILRFA 174 (355)
T ss_pred CCCCCCCCCCCEECCCCCCEEEEECEEE--ECHHHHHHHHHH
T ss_conf 5875202788400068986167602134--300146888999
No 13
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=62.49 E-value=11 Score=18.39 Aligned_cols=39 Identities=28% Similarity=0.445 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHH
Q ss_conf 9999989999999997799899996388876108999899
Q gi|254780760|r 276 KEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRL 315 (330)
Q Consensus 276 ~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL 315 (330)
.+-|..|+.--+.+++.|+..|++|.+|++ +...|.+++
T Consensus 159 ~~ea~~l~~dA~~le~AGaf~ivlE~Vp~~-la~~It~~l 197 (266)
T PRK00311 159 EEAAEQLLEDAKALEEAGAFALVLECVPAE-LAKEITEAL 197 (266)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCCHH-HHHHHHHCC
T ss_conf 999999999999998479549999558699-999999648
No 14
>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a precursor to coenzyme A and is required for penicillin biosynthesis.
Probab=60.66 E-value=11 Score=18.40 Aligned_cols=39 Identities=23% Similarity=0.376 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHH
Q ss_conf 9999989999999997799899996388876108999899
Q gi|254780760|r 276 KEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRL 315 (330)
Q Consensus 276 ~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL 315 (330)
.+.|..|+..-+.+++.|+..|++|.+|++ ++..|.+++
T Consensus 154 ~~ea~~l~~dA~~le~AGaf~ivlE~vp~~-la~~It~~~ 192 (254)
T cd06557 154 EEEAERLLEDALALEEAGAFALVLECVPAE-LAKEITEAL 192 (254)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEECCHHH-HHHHHHHCC
T ss_conf 999999999999998479559999567099-999998578
No 15
>pfam02548 Pantoate_transf Ketopantoate hydroxymethyltransferase. Ketopantoate hydroxymethyltransferase (EC:2.1.2.11) is the first enzyme in the pantothenate biosynthesis pathway.
Probab=60.56 E-value=12 Score=17.99 Aligned_cols=39 Identities=26% Similarity=0.453 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHH
Q ss_conf 9999989999999997799899996388876108999899
Q gi|254780760|r 276 KEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRL 315 (330)
Q Consensus 276 ~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL 315 (330)
.+-|..|+.--+.+++.|+..|++|.+|++ +...|.+++
T Consensus 158 ~~ea~~l~~dA~~le~AGa~~ivlE~vp~~-la~~It~~~ 196 (261)
T pfam02548 158 EEEAEQLLEDAKALEEAGAFALVLECVPAE-LAKEITEKL 196 (261)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCHHH-HHHHHHHCC
T ss_conf 999999999999998468748999667099-999999648
No 16
>TIGR01124 ilvA_2Cterm threonine ammonia-lyase, biosynthetic; InterPro: IPR005787 Serine and threonine dehydratases , are functionally and structurally related pyridoxal-phosphate dependent enzymes. L-serine dehydratase () and D-serine dehydratase () catalyze the dehydratation of L-serine (respectively D-serine) into ammonia and pyruvate. Threonine dehydratase () (TDH) catalyzes the dehydratation of threonine into alpha-ketobutarate and ammonia. In Escherichia coli and other microorganisms, two classes of TDH are known to exist. One is involved in the biosynthesis of isoleucine, the other in hydroxamino acid catabolism. Threonine synthase () is also a pyridoxal-phosphate enzyme, it catalyzes the transformation of homoserine-phosphate into threonine. It has been shown that threonine synthase is distantly related to the serine/threonine dehydratases. In all these enzymes, the pyridoxal-phosphate group is attached to a lysine residue. This family describes a form of threonine dehydratase, with two copies of the threonine dehydratase C-terminal domain IPR001721 from INTERPRO. Members with known function participate in isoleucine biosynthesis and are inhibited by isoleucine.; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process.
Probab=59.36 E-value=10 Score=18.60 Aligned_cols=81 Identities=20% Similarity=0.231 Sum_probs=54.7
Q ss_pred HHHHHHHHHHHCCCEEEEECCCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH-CCCHHHHHHHHCC
Q ss_conf 999999999975985999077800040279999999999997088810654999679899776420-0520468998505
Q gi|254780760|r 10 NALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS-VDPLSLHLAKLFW 88 (330)
Q Consensus 10 ~~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~-~~~~~~~l~~~fw 88 (330)
..+.-.++.|=---+|+.|+-| +. =|+=.+|+|=.. .++|=.|.++++.++. +.+..
T Consensus 80 QGVAlsa~~LG~~A~IVMP~tT-------P~-----IKV~AVk~~Gge--VvLhG~~y~~A~~~A~eL~q~~-------- 137 (508)
T TIGR01124 80 QGVALSAEKLGLKAVIVMPETT-------PD-----IKVDAVKAFGGE--VVLHGDNYDDAKDHAIELAQEK-------- 137 (508)
T ss_pred HHHHHHHHHCCCCEEEECCCCC-------CC-----CCHHHEECCCCE--EEEECCCHHHHHHHHHHHHHHC--------
T ss_conf 8998766317972698788888-------22-----001203126987--9973798579999999999736--------
Q ss_pred CCCEEEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8871886146787811655544457633224
Q gi|254780760|r 89 PGPLTLVLDLLSTTDIHPLSTANLKTACFRV 119 (330)
Q Consensus 89 PGplT~il~~~~~~~i~~~~t~~~~tvavRi 119 (330)
-||+|-|-. .+.|-+||+|||+=|
T Consensus 138 --GlTfi~PFD-----dPlVIAGQGT~alEi 161 (508)
T TIGR01124 138 --GLTFIHPFD-----DPLVIAGQGTVALEI 161 (508)
T ss_pred --CCEEECCCC-----CCCEECCCHHHHHHH
T ss_conf --886527888-----864032510666876
No 17
>TIGR02340 chap_CCT_alpha T-complex protein 1, alpha subunit; InterPro: IPR012715 Members of this eukaryotic family are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacteria, GroEL/GroES. This family consists exclusively of the CCT alpha chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=58.73 E-value=15 Score=17.52 Aligned_cols=176 Identities=16% Similarity=0.200 Sum_probs=99.4
Q ss_pred HHHHHHHCCCEEEEECCCH------------------HEEECCCCCHHHHHHHHHHH---------CCCCCCCEEEEECC
Q ss_conf 9999997598599907780------------------00402799999999999970---------88810654999679
Q gi|254780760|r 14 KACEFLDAGLPIAIPTETV------------------YGLAVDSRNPTAIRRLYEIK---------KRPAMNPLICHVSD 66 (330)
Q Consensus 14 ~a~~~L~~G~~v~~PTeTv------------------YGlg~~a~~~~av~~I~~~K---------~Rp~~~Pli~~v~~ 66 (330)
.+++.-+.-|-.-||-+.| |.|-|..-+..==.+|-.+| +--..=...+.|.|
T Consensus 173 ~~vk~~~~~g~~~YPik~vniLKaHG~S~~eS~L~~GYALnc~~Asq~Mp~~i~~aKIA~LDF~L~K~k~~lGv~i~v~D 252 (540)
T TIGR02340 173 LAVKVTNEKGETKYPIKAVNILKAHGKSARESVLVKGYALNCTVASQQMPKRIKKAKIACLDFNLQKAKMALGVQIVVDD 252 (540)
T ss_pred HHHHHCCCCCCEECCCCCCCEECCCCCCHHCCCCCCCCHHHHHHHHHCCCHHHHCCCEEEEECCHHHHHHHCCEEEEECC
T ss_conf 87643057887007701332022888431026322651134356653051111011303220351322110533887258
Q ss_pred HHHHHHHHH-CCC----HHHHHHHHCCCCCEEEEECCCCCCCCCCCCCC---CCCCCCC-CCHHHHHHHHHHHCCCEEEC
Q ss_conf 899776420-052----04689985058871886146787811655544---4576332-24156676664201421212
Q gi|254780760|r 67 ISMVKKHAS-VDP----LSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTA---NLKTACF-RVPCGFTKKLIETYGHPLAI 137 (330)
Q Consensus 67 ~~~~~~~~~-~~~----~~~~l~~~fwPGplT~il~~~~~~~i~~~~t~---~~~tvav-RiP~h~~~~ll~~~~~Piaa 137 (330)
+++++.+=. ..+ ..+++++. | =++||-. ..|-++.+- ..+-+|| ||..+-.+.+.+..|.-|+.
T Consensus 253 p~~LE~IR~~E~dI~k~Ri~~il~A---G-AnVvLTT---~GIDD~c~K~fVEag~mavRR~~K~DLk~iAKATG~~l~~ 325 (540)
T TIGR02340 253 PAKLEKIRQREADITKERIKKILKA---G-ANVVLTT---GGIDDLCLKYFVEAGAMAVRRCKKEDLKRIAKATGGTLVS 325 (540)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC---C-CCEEECC---CCHHHHHHHHHHHCCEEEEECCCHHHHHHHHHHHCCHHHH
T ss_conf 5788999888888999999999974---9-9189807---7745676124532460478504778889887662511301
Q ss_pred CCCCCCCCCC--C---CHHHHHHHHHHCCCCCCC-CCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCCC
Q ss_conf 3433348543--3---017777664406554211-276645667673069962698243442488788887742273
Q gi|254780760|r 138 PSANRSGQIS--I---TNVKHILSSSICKEIPLI-IDGGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAISV 208 (330)
Q Consensus 138 ~SAN~sG~~S--p---t~a~~v~~~~~~~~i~~i-ldgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~~ 208 (330)
|=||+.|.-+ | =.|++|.++.++++ ++| +.|..... -|.|| +++-|.+ -.+|.++-+.-
T Consensus 326 tlA~leG~E~f~~s~LG~a~Ev~~eri~Dd-e~IlikG~k~~~--~~SII-LRGAN~~--------~lDEmeRSlHD 390 (540)
T TIGR02340 326 TLADLEGEETFDASYLGFADEVVEERIADD-ECILIKGTKKRK--SASII-LRGANDF--------MLDEMERSLHD 390 (540)
T ss_pred HHCCCCCCCCCCHHHCCCCCEEEEEEECCC-CEEEEECCCCCC--EEEEE-ECCCCCH--------HHHHHHHHHHH
T ss_conf 320677500157200787310344344466-468841789763--24468-6166511--------55466677777
No 18
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit; InterPro: IPR014214 Members of this entry represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation..
Probab=57.62 E-value=11 Score=18.23 Aligned_cols=20 Identities=10% Similarity=0.119 Sum_probs=9.6
Q ss_pred HHHHHHHCCCEECCCCCCCC
Q ss_conf 88877422730013333443
Q gi|254780760|r 199 IETLKRAISVELEYCVDETS 218 (330)
Q Consensus 199 ~~~i~~~l~~~v~~~~~~~~ 218 (330)
.++||++.|.+.-....+.|
T Consensus 53 i~~~E~iTG~~~i~ti~~AE 72 (188)
T TIGR02852 53 IKKIEEITGKKAINTIVEAE 72 (188)
T ss_pred HHHHHHHCCCHHHHCCCCCC
T ss_conf 99988630631130034554
No 19
>PRK12318 methionine aminopeptidase; Provisional
Probab=50.74 E-value=14 Score=17.64 Aligned_cols=38 Identities=13% Similarity=0.052 Sum_probs=18.1
Q ss_pred CCCCCCCE-EEEECCHHHHHHH---HHCCCHHH-HHHHHCCCC
Q ss_conf 88810654-9996798997764---20052046-899850588
Q gi|254780760|r 53 KRPAMNPL-ICHVSDISMVKKH---ASVDPLSL-HLAKLFWPG 90 (330)
Q Consensus 53 ~Rp~~~Pl-i~~v~~~~~~~~~---~~~~~~~~-~l~~~fwPG 90 (330)
.|+..++. =+++-|.++++.. +.+...+. .+++..=||
T Consensus 31 ~~~~~~~~~~i~IKs~eEIe~mR~A~~I~a~~~~~~~~~ikpG 73 (291)
T PRK12318 31 LRQLYASQYDIIIKTPEQIEKIRKACQITARILDALCEAAKEG 73 (291)
T ss_pred HCCCCCCCCCCEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 4566567688576899999999999999999999998368799
No 20
>PRK12897 methionine aminopeptidase; Reviewed
Probab=50.37 E-value=18 Score=16.87 Aligned_cols=11 Identities=9% Similarity=-0.323 Sum_probs=4.4
Q ss_pred CCCCCCCCHHH
Q ss_conf 57633224156
Q gi|254780760|r 112 LKTACFRVPCG 122 (330)
Q Consensus 112 ~~tvavRiP~h 122 (330)
..|+.|-=|++
T Consensus 107 tRT~~vG~~~~ 117 (248)
T PRK12897 107 AWTYRVGKVSD 117 (248)
T ss_pred CCCCCCCCCCH
T ss_conf 33556787788
No 21
>TIGR02068 cya_phycin_syn cyanophycin synthetase; InterPro: IPR011810 Cyanophycin is an insoluble storage polymer for carbon, nitrogen, and energy, found in most Cyanobacteria. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine. The polymer is made by this enzyme, cyanophycin synthetase, and degraded by cyanophycinase. Heterologously expressed cyanophycin synthetase in Escherichia coli produces a closely related, water-soluble polymer with some Arg replaced by Lys. It is unclear whether enzymes that produce soluble cyanophycin-like polymers in vivo in non-Cyanobacterial species should be designated as cyanophycin synthetase itself or as a related enzyme. Cyanophycin synthesis is analogous to polyhydroxyalkanoic acid (PHA) biosynthesis, except that PHA polymers lack nitrogen and may be made under nitrogen-limiting conditions .; GO: 0005524 ATP binding, 0016874 ligase activity, 0009059 macromolecule biosynthetic process.
Probab=44.88 E-value=23 Score=16.27 Aligned_cols=32 Identities=25% Similarity=0.526 Sum_probs=16.3
Q ss_pred CCCCCCCCCCCCCCCCHH-H-HHHHHHHHCCCEE
Q ss_conf 165554445763322415-6-6766642014212
Q gi|254780760|r 104 IHPLSTANLKTACFRVPC-G-FTKKLIETYGHPL 135 (330)
Q Consensus 104 i~~~~t~~~~tvavRiP~-h-~~~~ll~~~~~Pi 135 (330)
|.--.|...+-+|+-+.. . .+.+||+.+|.|+
T Consensus 200 i~at~td~Ts~iav~iA~DK~lTK~iL~~~GvPV 233 (876)
T TIGR02068 200 IQATETDRTSAIAVEIACDKDLTKKILKAAGVPV 233 (876)
T ss_pred EEEECCCCCCEEEHHHHCCHHHHHHHHHHCCCCC
T ss_conf 4320025765010122236378999998478988
No 22
>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).
Probab=44.79 E-value=24 Score=16.10 Aligned_cols=42 Identities=24% Similarity=0.221 Sum_probs=31.8
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHH
Q ss_conf 9999999989999999997799899996388876108999899
Q gi|254780760|r 273 GKLKEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRL 315 (330)
Q Consensus 273 gd~~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL 315 (330)
|.-.+.++.|+.--+.+++.|+..|++|.+|.+ +..-|-+.+
T Consensus 149 Gk~~~~a~~l~~dA~ale~AGa~~ivlE~vp~~-la~~It~~~ 190 (240)
T cd06556 149 YRGDEAGEQLIADALAYAPAGADLIVMECVPVE-LAKQITEAL 190 (240)
T ss_pred CCCHHHHHHHHHHHHHHHHCCCEEEEEECCCHH-HHHHHHHCC
T ss_conf 276899999999999998479849987458499-999999569
No 23
>TIGR02346 chap_CCT_theta T-complex protein 1, theta subunit; InterPro: IPR012721 Members of this eukaryotic family are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT theta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=44.61 E-value=12 Score=18.08 Aligned_cols=130 Identities=17% Similarity=0.270 Sum_probs=64.5
Q ss_pred EEEECCHHHHHHHHHC-CCHHHHHHHHCCCCCEEEEECCCCCCCCCCCCC---CCCCCCCCCCHHHH-HHHHHHHCCCEE
Q ss_conf 9996798997764200-520468998505887188614678781165554---44576332241566-766642014212
Q gi|254780760|r 61 ICHVSDISMVKKHASV-DPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLST---ANLKTACFRVPCGF-TKKLIETYGHPL 135 (330)
Q Consensus 61 i~~v~~~~~~~~~~~~-~~~~~~l~~~fwPGplT~il~~~~~~~i~~~~t---~~~~tvavRiP~h~-~~~ll~~~~~Pi 135 (330)
.|++.+-+++-.|.-- -......+++|-=--.-+|+- +-.|++++. ..-+-.=|||+|.| .|+||+.+|
T Consensus 258 TVLihnA~ELlny~KgEE~~~e~~iK~iad~Gv~VIv~---gG~v~d~AlHy~~~Y~im~~k~~SKFELrRlCk~~g--- 331 (554)
T TIGR02346 258 TVLIHNAEELLNYSKGEENQIEALIKAIADSGVKVIVT---GGSVGDMALHYVEKYNIMVLKIPSKFELRRLCKTVG--- 331 (554)
T ss_pred CHHHCCHHHHCCCCCCHHHHHHHHHHHHHHCCCEEEEE---CCCHHHHHHHHHHHCCEEEEEECCCHHHHHHHHHHC---
T ss_conf 00012478660557026899999878998689859994---684889999878155826999778265889998807---
Q ss_pred ECCCCCCCCCCCCCHHHHH---HHHHHCC-CCCCCCC---CCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCCC
Q ss_conf 1234333485433017777---6644065-5421127---6645667673069962698243442488788887742273
Q gi|254780760|r 136 AIPSANRSGQISITNVKHI---LSSSICK-EIPLIID---GGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAISV 208 (330)
Q Consensus 136 aa~SAN~sG~~Spt~a~~v---~~~~~~~-~i~~ild---gg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~~ 208 (330)
|++-=+=|.|+|-..-+| .-++.|+ +|- |+. ++-|.+ |||| |++-. .. -+++||+++.-
T Consensus 332 -A~~l~rL~~P~PEe~G~vds~~v~EIG~~~VT-vf~~e~~di~~~---~TIi-LRGsT-~N-------~LDDiERAiDD 397 (554)
T TIGR02346 332 -ATPLARLGAPQPEELGYVDSVYVSEIGGQKVT-VFKQENGDISKI---STII-LRGST-KN-------LLDDIERAIDD 397 (554)
T ss_pred -CCCCCCCCCCCHHHCCCEEEEEEEEECCCEEE-EEEEECCCCCCC---CCEE-ECCCC-CC-------HHHHHHHHHHC
T ss_conf -77735183458226442007999998584889-997303775432---1167-52300-00-------13444444304
Q ss_pred EE
Q ss_conf 00
Q gi|254780760|r 209 EL 210 (330)
Q Consensus 209 ~v 210 (330)
.|
T Consensus 398 GV 399 (554)
T TIGR02346 398 GV 399 (554)
T ss_pred CH
T ss_conf 31
No 24
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=44.02 E-value=25 Score=16.03 Aligned_cols=36 Identities=17% Similarity=0.230 Sum_probs=21.5
Q ss_pred EECCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECC
Q ss_conf 975999999999998999999999779989999638
Q gi|254780760|r 267 LNLSKTGKLKEAAFNLFNYMKIADDSGASSIAFSSI 302 (330)
Q Consensus 267 ~~Ls~~gd~~eaA~nLY~~LR~lD~~~~~~I~ve~i 302 (330)
..+...+..-..++.++..++.+|..++|.|++|.+
T Consensus 65 Rs~atrg~~ggla~~~~~~i~~l~~~g~D~IiIETv 100 (148)
T cd03114 65 RSLATRGFLGGLSRATPEVIRVLDAAGFDVIIVETV 100 (148)
T ss_pred EECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf 634666654204688999999999759998999748
No 25
>TIGR00873 gnd 6-phosphogluconate dehydrogenase, decarboxylating; InterPro: IPR006113 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) , . Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved . The protein is a homodimer in which the monomers act independently : each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet . NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket . This model does not specify whether the cofactor is NADP only, NAD only, or both.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0050661 NADP binding, 0006098 pentose-phosphate shunt.
Probab=42.13 E-value=18 Score=16.98 Aligned_cols=10 Identities=60% Similarity=0.763 Sum_probs=4.6
Q ss_pred CCCCCCCCCC
Q ss_conf 4211276645
Q gi|254780760|r 163 IPLIIDGGIS 172 (330)
Q Consensus 163 i~~ildgg~~ 172 (330)
=|.|||||.+
T Consensus 93 GDiIIDGGNS 102 (480)
T TIGR00873 93 GDIIIDGGNS 102 (480)
T ss_pred CCEEECCCCC
T ss_conf 9888758878
No 26
>pfam01612 3_5_exonuc 3'-5' exonuclease. This domain is responsible for the 3'-5' exonuclease proofreading activity of E. coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D). Werner syndrome is a human genetic disorder causing premature aging; the WRN protein has helicase activity in the 3'-5' direction. The FFA-1 protein is required for formation of a replication foci and also has helicase activity; it is a homologue of the WRN protein. RNase D is a 3'-5' exonuclease involved in tRNA processing. Also found in this family is the autoantigen PM/Scl thought to be involved in polymyositis-scleroderma overlap syndrome.
Probab=41.49 E-value=27 Score=15.78 Aligned_cols=26 Identities=31% Similarity=0.298 Sum_probs=23.9
Q ss_pred CCCHHHHHHHHHHHHCCCEEEEECCC
Q ss_conf 79999999999999759859990778
Q gi|254780760|r 6 ITDSNALRKACEFLDAGLPIAIPTET 31 (330)
Q Consensus 6 ~~d~~~i~~a~~~L~~G~~v~~PTeT 31 (330)
+++++.++++++.|.+.++|+|=|||
T Consensus 4 I~~~~~l~~~~~~l~~~~~ia~DtEt 29 (172)
T pfam01612 4 VTTEDELEDLIEELLNAKVVAVDTET 29 (172)
T ss_pred ECCHHHHHHHHHHHHCCCCEEEEEEC
T ss_conf 88899999999999409908998062
No 27
>pfam05785 CNF1 Rho-activating domain of cytotoxic necrotizing factor. This family consists of several bacterial cytotoxic necrotizing factor proteins as well as related dermonecrotic toxin (DNT) from Bordetella species. Cytotoxic necrotizing factor 1 (CNF1) causes necrosis of rabbit skin and re-organisation of the actin cytoskeleton in cultured cells. Bordetella dermonecrotic toxin (DNT) stimulates the assembly of actin stress fibres and focal adhesions by deamidating or polyaminating Gln63 of the small GTPase Rho. DNT is an A-B toxin which is composed of an N-terminal receptor-binding (B) domain and a C-terminal enzymatically active (A) domain.
Probab=40.74 E-value=16 Score=17.21 Aligned_cols=80 Identities=21% Similarity=0.154 Sum_probs=42.3
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 16555444576332241566766642014212123433348543301777766440655421127664566767306996
Q gi|254780760|r 104 IHPLSTANLKTACFRVPCGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNV 183 (330)
Q Consensus 104 i~~~~t~~~~tvavRiP~h~~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ildgg~~~~GieSTiid~ 183 (330)
+-....+..+++|+||+- +=++ -|.||..||-++||- |+.-.+ -++. -++.-.|... |
T Consensus 98 ii~V~NG~rGt~Giki~L----~~i~-~g~pviitsG~LSGC---T~v~A~----K~~~-ly~~HtGk~~--------~- 155 (281)
T pfam05785 98 IIRVSNGARGTNGIKIAL----SEVP-EGKPLIITSGALSGC---TTVVAR----KDNY-LYAYHTGKSN--------D- 155 (281)
T ss_pred EEEECCCCCCCEEEEEEH----HHCC-CCCEEEEECCCCCCC---EEEEEE----CCCE-EEEEECCCCC--------C-
T ss_conf 899448877532578778----8867-897289967765686---799997----2875-8999726888--------8-
Q ss_pred ECCCCEEEEECCCCCHHHHHHHCC
Q ss_conf 269824344248878888774227
Q gi|254780760|r 184 QCEKKVRILRPGGLEIETLKRAIS 207 (330)
Q Consensus 184 ~~~~~~~IlR~G~i~~~~i~~~l~ 207 (330)
..+|+-=|.|+-+..+-.+.|.
T Consensus 156 --~~~w~T~~~Gv~~~~~~~~~L~ 177 (281)
T pfam05785 156 --LSGWKTSTDGVAKIYQSHEALT 177 (281)
T ss_pred --CCCCCCCCHHHHHHHHHHHHHC
T ss_conf --8885305478999999999863
No 28
>pfam03308 ArgK ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems.
Probab=40.24 E-value=28 Score=15.65 Aligned_cols=60 Identities=28% Similarity=0.291 Sum_probs=28.0
Q ss_pred CCCCCCCCCCCCHHHHHH-HHHHCCCCCCC-CC---CCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHH
Q ss_conf 343334854330177776-64406554211-27---664566767306996269824344248878888774
Q gi|254780760|r 138 PSANRSGQISITNVKHIL-SSSICKEIPLI-ID---GGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKR 204 (330)
Q Consensus 138 ~SAN~sG~~Spt~a~~v~-~~~~~~~i~~i-ld---gg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~ 204 (330)
+|-+-.|..|+.+.+.+. -+-+|- |.| +. -|++ |-.|.++. +--+-++=||.=..-|..|
T Consensus 98 ~srg~lGGls~~t~~~i~lleaaGf--D~IivETVGVGQs----E~~v~~~a-D~~llv~~Pg~GDeiQ~iK 162 (267)
T pfam03308 98 PSRGALGGLSRATREAILLLDAAGF--DVIIIETVGVGQS----EVDIANMA-DTFVLVTIPGGGDDLQGIK 162 (267)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHCCC--CEEEEECCCCCCC----CHHHHHHC-CEEEEEECCCCCHHHHHHH
T ss_conf 7788888714769999999997799--9999924777753----03555415-7689995588760888987
No 29
>PRK09435 arginine/ornithine transport system ATPase; Provisional
Probab=38.41 E-value=30 Score=15.47 Aligned_cols=57 Identities=16% Similarity=0.188 Sum_probs=25.0
Q ss_pred CCCCCCCCCCCHHHHHH-HHHHCCCCCCC-CC---CCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHH
Q ss_conf 43334854330177776-64406554211-27---6645667673069962698243442488788887
Q gi|254780760|r 139 SANRSGQISITNVKHIL-SSSICKEIPLI-ID---GGISKIGLESTIVNVQCEKKVRILRPGGLEIETL 202 (330)
Q Consensus 139 SAN~sG~~Spt~a~~v~-~~~~~~~i~~i-ld---gg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i 202 (330)
|-...|..|..+.+.+. .+-+|- |.| +. -|++ |..|+++. +.-+-++-||.=..-|-
T Consensus 119 srg~lgg~~~~~~~~~~~~~a~g~--d~i~iETvGvGQ~----e~~v~~~~-d~~~~~~~p~~GD~~Q~ 180 (325)
T PRK09435 119 SSGTLGGVARKTRETMLLCEAAGF--DVILVETVGVGQS----ETAVAGMV-DFFLLLQLPGAGDELQG 180 (325)
T ss_pred CCCCCCCCCHHHHHHHHHHHHCCC--CEEEEEECCCCHH----HHHHHHHC-CEEEEEECCCCCCHHHH
T ss_conf 788867733549999999997799--9899970677714----88998742-66888835887608899
No 30
>TIGR01919 hisA-trpF bifunctional HisA/TrpF protein; InterPro: IPR010188 This entry represents a bifunctional protein possessing both hisA (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) and trpF (N-(5'phosphoribosyl)anthranilate isomerase) activities . Thus, it is involved in both the histidine and tryptophan biosynthetic pathways. Enzymes with this property have been described only in the Actinobacteria (High-GC Gram-positive). The enzyme is closely related to the monofunctional HisA proteins and in Actinobacteria, the classical monofunctional TrpF is generally absent.; GO: 0003949 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity, 0004640 phosphoribosylanthranilate isomerase activity, 0000105 histidine biosynthetic process, 0000162 tryptophan biosynthetic process, 0005737 cytoplasm.
Probab=36.57 E-value=30 Score=15.52 Aligned_cols=25 Identities=20% Similarity=0.490 Sum_probs=18.6
Q ss_pred HHHHHHHHHHCCCCEEEEECCCCCC
Q ss_conf 9999999997799899996388876
Q gi|254780760|r 282 LFNYMKIADDSGASSIAFSSIPNHG 306 (330)
Q Consensus 282 LY~~LR~lD~~~~~~I~ve~ip~~g 306 (330)
||..|..+|..||.+-+|..+..+|
T Consensus 154 Lwevl~~LDS~GCsRfVVTDv~KDG 178 (246)
T TIGR01919 154 LWEVLERLDSEGCSRFVVTDVAKDG 178 (246)
T ss_pred HHHHHHHHCCCCCCCEEEEECCCCC
T ss_conf 8999987434885403785012378
No 31
>PRK00098 ribosome-associated GTPase; Reviewed
Probab=36.04 E-value=4.5 Score=20.82 Aligned_cols=113 Identities=16% Similarity=0.159 Sum_probs=59.5
Q ss_pred EEECCHHHHHHHHHC--CCHHHHHHHHC----C-CC-CEEEEECCCCCCCCCCCCCCCCCCCCCCCHHH--HHHHHHHHC
Q ss_conf 996798997764200--52046899850----5-88-71886146787811655544457633224156--676664201
Q gi|254780760|r 62 CHVSDISMVKKHASV--DPLSLHLAKLF----W-PG-PLTLVLDLLSTTDIHPLSTANLKTACFRVPCG--FTKKLIETY 131 (330)
Q Consensus 62 ~~v~~~~~~~~~~~~--~~~~~~l~~~f----w-PG-plT~il~~~~~~~i~~~~t~~~~tvavRiP~h--~~~~ll~~~ 131 (330)
+..++++++--.+.. |+....++++| | =| +-.+||. |.+ + +. -... ...+..+.+
T Consensus 76 ~iAANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~pvivln--K~D-L----------~~--~~~~~~~~~~~y~~~ 140 (298)
T PRK00098 76 LIAANVDQAVIVFAAKEPDFSTDLLDRFLVLAEANDIKPIIVLN--KID-L----------VD--DLEEARERLALYRAI 140 (298)
T ss_pred EEEEECCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEE--CCC-C----------CC--CHHHHHHHHHHHHHC
T ss_conf 27874478999985688989989999999999986995899964--245-6----------47--799999999999878
Q ss_pred CCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHH
Q ss_conf 421212343334854330177776644065542112766456676730699626982434424887888
Q gi|254780760|r 132 GHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNVQCEKKVRILRPGGLEIE 200 (330)
Q Consensus 132 ~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ildgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~ 200 (330)
|.|+...||..-- ..++ +.+.|.++...++ |++.+| -||.|..-.. . ..++-|.|+..
T Consensus 141 gy~v~~~S~~~~~-----g~~~-L~~~l~~k~sv~~--G~SGVG-KSSLiN~L~~-~-~~~~t~~is~~ 198 (298)
T PRK00098 141 GYDVLELSAKEGP-----GLDE-LKPLLAGKVTVLA--GQSGVG-KSTLLNALVP-E-LELKTGEISEA 198 (298)
T ss_pred CCCEEEEECCCCC-----CHHH-HHHHHCCCEEEEE--CCCCCC-HHHHHHHHCC-H-HHHHHHHHHHH
T ss_conf 9978999689998-----9999-9998579869998--789887-8888876071-4-44566755665
No 32
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=35.85 E-value=33 Score=15.21 Aligned_cols=44 Identities=16% Similarity=0.097 Sum_probs=21.8
Q ss_pred HHHHHHHHHCC-CEEEEECCCHHEEECCC-CCHHHHHHHHHHHCCC
Q ss_conf 99999999759-85999077800040279-9999999999970888
Q gi|254780760|r 12 LRKACEFLDAG-LPIAIPTETVYGLAVDS-RNPTAIRRLYEIKKRP 55 (330)
Q Consensus 12 i~~a~~~L~~G-~~v~~PTeTvYGlg~~a-~~~~av~~I~~~K~Rp 55 (330)
++.+-+..+.| .|..+=|++++-+-..- .-.+-++++..+-|++
T Consensus 23 ~~~ir~L~~~GA~V~~ImS~~a~~~~Trfg~~~~~~~~le~iTg~~ 68 (195)
T PRK08305 23 MPQIEKLVAEGAEVRPIVSYTVQTTDTRFGEGEEWIKKIEEITGFK 68 (195)
T ss_pred HHHHHHHHHCCCEEEEEECHHHHHCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 9999999987996999975447750566752788999999985995
No 33
>PRK05451 dihydroorotase; Provisional
Probab=35.01 E-value=31 Score=15.41 Aligned_cols=35 Identities=20% Similarity=0.151 Sum_probs=18.7
Q ss_pred CCCCCCCCCCCCCCHHH--HHHHHHHHCCCEEECCCCCCCCCC
Q ss_conf 55544457633224156--676664201421212343334854
Q gi|254780760|r 106 PLSTANLKTACFRVPCG--FTKKLIETYGHPLAIPSANRSGQI 146 (330)
Q Consensus 106 ~~~t~~~~tvavRiP~h--~~~~ll~~~~~Piaa~SAN~sG~~ 146 (330)
..+|.|.+ -||.--.. .+++.+++.|.||. +.|+.
T Consensus 104 aGaTTNS~-~GV~~~~~~~~~le~m~~~g~pLl-----iHGEv 140 (345)
T PRK05451 104 AGATTNSD-AGVTDIEKIYPVLEAMQKIGMPLL-----VHGEV 140 (345)
T ss_pred CCCCCCCC-CCHHHHHHHHHHHHHHHHCCCCEE-----ECCCC
T ss_conf 77535674-214239999999999997599045-----21454
No 34
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase; InterPro: IPR005757 The tripeptide L-ananyl-gamma-D-glutamyl-meso-diaminopimelic acid is efficiently re-cycled during the formation of bacterial cell wall murein. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase is an essential enzyme in this process which links the tripeptide to UDP-N-acetylmuramate.; GO: 0016874 ligase activity, 0007047 cell wall organization and biogenesis.
Probab=34.67 E-value=11 Score=18.31 Aligned_cols=27 Identities=22% Similarity=0.383 Sum_probs=18.1
Q ss_pred CCCCCCCCCCHHHHCCCCCCCCCEEEEC
Q ss_conf 2100124531011101357770000020
Q gi|254780760|r 226 LKSHYAPRSQVRLRAIHVNPREALIRFG 253 (330)
Q Consensus 226 ~~~HYAP~~~V~L~~~~~~~~e~ll~~~ 253 (330)
|..||.|||-| |+..+.+..+.+-...
T Consensus 181 KFVHY~PRTlv-lNNleFDHADIFddL~ 207 (459)
T TIGR01081 181 KFVHYRPRTLV-LNNLEFDHADIFDDLK 207 (459)
T ss_pred CEEECCCCEEE-EECCCCCHHHHHHHHH
T ss_conf 31202760014-5155544455787689
No 35
>COG0646 MetH Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]
Probab=34.43 E-value=35 Score=15.07 Aligned_cols=33 Identities=21% Similarity=0.398 Sum_probs=17.0
Q ss_pred CHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 01777766440655421127664566767306996
Q gi|254780760|r 149 TNVKHILSSSICKEIPLIIDGGISKIGLESTIVNV 183 (330)
Q Consensus 149 t~a~~v~~~~~~~~i~~ildgg~~~~GieSTiid~ 183 (330)
++.+++. +-|...++..+|||.--+=+ -|+-|.
T Consensus 136 v~fd~l~-~ay~eq~~~Li~gG~D~iLi-ET~~D~ 168 (311)
T COG0646 136 VTFDELV-EAYREQVEGLIDGGADLILI-ETIFDT 168 (311)
T ss_pred CCHHHHH-HHHHHHHHHHHHCCCCEEEE-EHHCCH
T ss_conf 3599999-99999999998378758997-522168
No 36
>COG3054 Predicted transcriptional regulator [General function prediction only]
Probab=33.13 E-value=37 Score=14.93 Aligned_cols=32 Identities=19% Similarity=0.447 Sum_probs=27.6
Q ss_pred CCEEEEEECCCCEEEEECCCCCHHHHHHHCCC
Q ss_conf 73069962698243442488788887742273
Q gi|254780760|r 177 ESTIVNVQCEKKVRILRPGGLEIETLKRAISV 208 (330)
Q Consensus 177 eSTiid~~~~~~~~IlR~G~i~~~~i~~~l~~ 208 (330)
+|-||=++.++.++-..+|+++.+++..+++.
T Consensus 147 ~SavvVlDk~G~VkfvkeGaLt~aevQ~Vi~l 178 (184)
T COG3054 147 SSAVVVLDKDGRVKFVKEGALTQAEVQQVIDL 178 (184)
T ss_pred CCEEEEECCCCCEEEEECCCCCHHHHHHHHHH
T ss_conf 63599984888689986387558999999999
No 37
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=32.92 E-value=37 Score=14.91 Aligned_cols=20 Identities=25% Similarity=0.416 Sum_probs=10.3
Q ss_pred CCCCEEEEEECCCCEEEEECCC
Q ss_conf 7673069962698243442488
Q gi|254780760|r 175 GLESTIVNVQCEKKVRILRPGG 196 (330)
Q Consensus 175 GieSTiid~~~~~~~~IlR~G~ 196 (330)
|.|..|..|| +-+. +|.+.-
T Consensus 188 Gae~vIlGCT-Ei~l-ll~~~d 207 (230)
T COG1794 188 GAEGVILGCT-EIPL-LLSQDD 207 (230)
T ss_pred CCCEEEEECC-CHHE-EECCCC
T ss_conf 9988999433-1104-564666
No 38
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=31.85 E-value=30 Score=15.55 Aligned_cols=32 Identities=19% Similarity=0.176 Sum_probs=12.5
Q ss_pred HHHHHHHHHHCCC--CCCC-EEEEECCHHHHHHHH
Q ss_conf 9999999970888--1065-499967989977642
Q gi|254780760|r 43 TAIRRLYEIKKRP--AMNP-LICHVSDISMVKKHA 74 (330)
Q Consensus 43 ~av~~I~~~K~Rp--~~~P-li~~v~~~~~~~~~~ 74 (330)
+|+.+++.+.-+. ...| +.+.+.+.++...+.
T Consensus 20 ~al~~~~~l~~~~~~~~d~~~~~~v~~~~d~~~~~ 54 (347)
T COG1041 20 KALADIENLGFRVSEERDPFSYVEVASIEDAYKWF 54 (347)
T ss_pred HHHHHHHCCCEEEEECCCCEEEEEECCCHHHHHHH
T ss_conf 99987743550687625760589971626788899
No 39
>KOG0738 consensus
Probab=31.84 E-value=39 Score=14.80 Aligned_cols=80 Identities=21% Similarity=0.354 Sum_probs=39.8
Q ss_pred CCCCCCCCCCHHHHCCCC--------CCC--------CCEEEECCCCCCCCCCCCEEEECCC---CCCHHHHHHHHHHHH
Q ss_conf 210012453101110135--------777--------0000020222356566517997599---999999999899999
Q gi|254780760|r 226 LKSHYAPRSQVRLRAIHV--------NPR--------EALIRFGNVPIKNIENAIISLNLSK---TGKLKEAAFNLFNYM 286 (330)
Q Consensus 226 ~~~HYAP~~~V~L~~~~~--------~~~--------e~ll~~~~~~~~~~~~~~~~~~Ls~---~gd~~eaA~nLY~~L 286 (330)
+.+||||.+ +++.+... ..- |.++....+. +.......++.|.. ++|+.|| .+
T Consensus 299 mARfyAPSt-IFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~-~t~e~~k~VmVLAATN~PWdiDEA------lr 370 (491)
T KOG0738 299 MARFYAPST-IFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQ-GTLENSKVVMVLAATNFPWDIDEA------LR 370 (491)
T ss_pred HHHHHCCCE-EEHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHCCC-CCCCCCEEEEEEECCCCCCCHHHH------HH
T ss_conf 998748853-5335677887257986503678888889999863344-444565169998436898205799------99
Q ss_pred HHHHHCCCCEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf 99997799899996388876108999899984
Q gi|254780760|r 287 KIADDSGASSIAFSSIPNHGLGIAINNRLERA 318 (330)
Q Consensus 287 R~lD~~~~~~I~ve~ip~~glg~AI~DRL~RA 318 (330)
|+++++ |||. +|+.+.-.++.+++.|-
T Consensus 371 RRlEKR----IyIP-LP~~~~R~~Li~~~l~~ 397 (491)
T KOG0738 371 RRLEKR----IYIP-LPDAEARSALIKILLRS 397 (491)
T ss_pred HHHHHH----EEEE-CCCHHHHHHHHHHHHCC
T ss_conf 987630----3312-87878999999976235
No 40
>TIGR01946 rnfD electron transport complex, RnfABCDGE type, D subunit; InterPro: IPR011303 The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation . A closely related complex in Escherichia coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized . This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This entry describes the D subunit.; GO: 0006118 electron transport, 0016021 integral to membrane.
Probab=30.76 E-value=34 Score=15.18 Aligned_cols=20 Identities=25% Similarity=0.479 Sum_probs=14.7
Q ss_pred HHE-EECCCCCHHHHHHHHHH
Q ss_conf 000-40279999999999997
Q gi|254780760|r 32 VYG-LAVDSRNPTAIRRLYEI 51 (330)
Q Consensus 32 vYG-lg~~a~~~~av~~I~~~ 51 (330)
+|| ||+|.+||.=|-+.+-+
T Consensus 105 lYGGLGqN~FNPAmvGyv~LL 125 (346)
T TIGR01946 105 LYGGLGQNIFNPAMVGYVVLL 125 (346)
T ss_pred HCCCCCCCCCCHHHHHHHHHH
T ss_conf 406668874317999999999
No 41
>PRK06196 oxidoreductase; Provisional
Probab=30.17 E-value=17 Score=17.08 Aligned_cols=66 Identities=17% Similarity=0.300 Sum_probs=30.2
Q ss_pred HHHHHHHHHHCCCEEEEECCCHHEEECCCCCH-HHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHCCCHHHHHHHHCCC
Q ss_conf 99999999975985999077800040279999-99999999708881065499967989977642005204689985058
Q gi|254780760|r 11 ALRKACEFLDAGLPIAIPTETVYGLAVDSRNP-TAIRRLYEIKKRPAMNPLICHVSDISMVKKHASVDPLSLHLAKLFWP 89 (330)
Q Consensus 11 ~i~~a~~~L~~G~~v~~PTeTvYGlg~~a~~~-~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~~~~~~~~~l~~~fwP 89 (330)
..+.|.+..+.|.-|++. |. |. ++-+.+-++++ -..+.+-++|++.+++++ ..+.+++
T Consensus 39 G~~tA~~La~~Ga~Vil~--------~R--~~~k~~~a~~~i~~---~~~~~lDLs~~~sVr~~a------~~~~~~~-- 97 (316)
T PRK06196 39 GLETTRALAQAGAHVVVP--------AR--RPDAAREALAGIDG---VEVVALDLADLASVRAFA------ERFLDSG-- 97 (316)
T ss_pred HHHHHHHHHHCCCEEEEE--------EC--CHHHHHHHHHHHCC---CCEEECCCCCHHHHHHHH------HHHHHHC--
T ss_conf 999999999789989999--------49--99999999987417---857983688999999999------9999757--
Q ss_pred CCEEEEEC
Q ss_conf 87188614
Q gi|254780760|r 90 GPLTLVLD 97 (330)
Q Consensus 90 GplT~il~ 97 (330)
++|-+++.
T Consensus 98 ~~lDvLIn 105 (316)
T PRK06196 98 RRIDILIN 105 (316)
T ss_pred CCCEEEEE
T ss_conf 98329995
No 42
>cd04737 LOX_like_FMN L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate dehydrogenase (MDH), and long chain hydroxyacid oxidase (LCHAO).
Probab=29.43 E-value=42 Score=14.54 Aligned_cols=14 Identities=14% Similarity=0.259 Sum_probs=6.8
Q ss_pred HHHHHHCCCEEECC
Q ss_conf 66642014212123
Q gi|254780760|r 125 KKLIETYGHPLAIP 138 (330)
Q Consensus 125 ~~ll~~~~~Piaa~ 138 (330)
.+-..+.|.|...+
T Consensus 95 AraA~~~gi~~~lS 108 (351)
T cd04737 95 ARGMAEVGSLFSIS 108 (351)
T ss_pred HHHHHHCCCCEEEC
T ss_conf 99999759863405
No 43
>cd03332 LMO_FMN L-Lactate 2-monooxygenase (LMO) FMN-binding domain. LMO is a FMN-containing enzyme that catalyzes the conversion of L-lactate and oxygen to acetate, carbon dioxide, and water. LMO is a member of the family of alpha-hydroxy acid oxidases. It is thought to be a homooctamer with two- and four- fold axes in the center of the octamer.
Probab=29.11 E-value=43 Score=14.50 Aligned_cols=30 Identities=20% Similarity=0.418 Sum_probs=15.8
Q ss_pred HHH-H-HHHHHHHCCCEEECCCCCCCCCCCCCHHHHHH
Q ss_conf 156-6-76664201421212343334854330177776
Q gi|254780760|r 120 PCG-F-TKKLIETYGHPLAIPSANRSGQISITNVKHIL 155 (330)
Q Consensus 120 P~h-~-~~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~ 155 (330)
|+- . +.+-+.+.|.|...+|. |.++.++|.
T Consensus 101 p~gE~~~AraA~~~g~~~~lSt~------ss~slEeva 132 (383)
T cd03332 101 PDAELATARAAAELGVPYILSTA------SSSSIEDVA 132 (383)
T ss_pred CCHHHHHHHHHHHHCCCEECCCC------CCCCHHHHH
T ss_conf 97789999999983586220577------678899999
No 44
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=28.09 E-value=45 Score=14.39 Aligned_cols=63 Identities=11% Similarity=0.178 Sum_probs=45.9
Q ss_pred CCHHHHHHHHHHHHCCCEEEEEC------CCHHEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHH
Q ss_conf 99999999999997598599907------780004027999999999999708881065499967989977642
Q gi|254780760|r 7 TDSNALRKACEFLDAGLPIAIPT------ETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHA 74 (330)
Q Consensus 7 ~d~~~i~~a~~~L~~G~~v~~PT------eTvYGlg~~a~~~~av~~I~~~K~Rp~~~Pli~~v~~~~~~~~~~ 74 (330)
+..+.+++|.+.|++|+.|++=- |+-+-++|..-.++.|.-..+ ....|+|..-+.+.++++.
T Consensus 11 ~~~~~V~~Ai~alr~G~~Viv~Dd~dREnEgDlv~aAe~~T~e~i~fm~~-----~~~GliCva~~~~~~~~L~ 79 (214)
T PRK01792 11 TSEERVINAINAFKQGNGVLVLDDEDRENEGDLIFPAETITPEQMAKLIR-----YGSGIVCLCITDELCQQLD 79 (214)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEEHHHCCHHHHHHHHH-----HCCCCEEEECCHHHHHHCC
T ss_conf 97889999999998799699982899876406796855499999999999-----5897789736999997779
No 45
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor; InterPro: IPR014091 Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family..
Probab=27.67 E-value=33 Score=15.26 Aligned_cols=14 Identities=7% Similarity=0.339 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHCCC
Q ss_conf 89999999997799
Q gi|254780760|r 281 NLFNYMKIADDSGA 294 (330)
Q Consensus 281 nLY~~LR~lD~~~~ 294 (330)
|.|.+||++++.+.
T Consensus 59 NVYRTLR~LEK~NL 72 (138)
T TIGR02719 59 NVYRTLRKLEKDNL 72 (138)
T ss_pred HHHHHHHHHHHHHC
T ss_conf 37789888766513
No 46
>PRK09798 antitoxin MazE; Provisional
Probab=27.64 E-value=26 Score=15.86 Aligned_cols=20 Identities=15% Similarity=0.315 Sum_probs=13.0
Q ss_pred CCCCCCCHHHHHHHHHHHCC
Q ss_conf 76332241566766642014
Q gi|254780760|r 113 KTACFRVPCGFTKKLIETYG 132 (330)
Q Consensus 113 ~tvavRiP~h~~~~ll~~~~ 132 (330)
++.|||+|..++.++--..|
T Consensus 11 NS~avRIP~~i~~~l~l~~~ 30 (82)
T PRK09798 11 NSPAVRIPATLMQALNLNID 30 (82)
T ss_pred CCHHHHCCHHHHHHCCCCCC
T ss_conf 66856347999998499999
No 47
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase; InterPro: IPR006362 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase . In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase . There are at least two distinct cobalamin biosynthetic pathways in bacteria : Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway ; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis ; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) . There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobM and CibF precorrin-4 C11-methyltransferase (2.1.1.133 from EC), both as stand-alone enzymes and when CobJ forms part of a bifunctional enzyme. In the aerobic pathway, CobM catalyses the methylation of precorrin-4 at C-11 to yield precorrin-5. The extruded acyl group is then removed in the subsequent step catalysed by CobF. In the anaerobic pathway, CibF catalyses the methylation of cobalt-precorrin-4 to cobalt-precoriin-5 . Nomenclature note: occasionally precorrin-4 C11-methyltransferase is one of two methyltransferases often referred to as precorrin-3 methylase (the other is precorrin-3 methylase (the other is precorrin-4 C11-methyltransferase, 2.1.1.131 from EC). ; GO: 0046026 precorrin-4 C11-methyltransferase activity, 0009236 cobalamin biosynthetic process.
Probab=27.60 E-value=21 Score=16.46 Aligned_cols=27 Identities=22% Similarity=0.244 Sum_probs=21.0
Q ss_pred CCCC-CCCCCCHHHHCCCCCCCCCEEEE
Q ss_conf 2100-12453101110135777000002
Q gi|254780760|r 226 LKSH-YAPRSQVRLRAIHVNPREALIRF 252 (330)
Q Consensus 226 ~~~H-YAP~~~V~L~~~~~~~~e~ll~~ 252 (330)
+..| |+|.|||.++-...+++|.+.+-
T Consensus 175 L~~~GY~~DTPV~vVyratWPDE~I~Rg 202 (252)
T TIGR01465 175 LIEGGYSEDTPVAVVYRATWPDEKIVRG 202 (252)
T ss_pred HHHCCCCCCCCEEEEEEECCCCCEEEEC
T ss_conf 9837768888789898514875658971
No 48
>pfam03193 DUF258 Protein of unknown function, DUF258.
Probab=25.76 E-value=19 Score=16.79 Aligned_cols=65 Identities=23% Similarity=0.365 Sum_probs=40.5
Q ss_pred HHHHHHCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHH
Q ss_conf 6664201421212343334854330177776644065542112766456676730699626982434424887888
Q gi|254780760|r 125 KKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNVQCEKKVRILRPGGLEIE 200 (330)
Q Consensus 125 ~~ll~~~~~Piaa~SAN~sG~~Spt~a~~v~~~~~~~~i~~ildgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~ 200 (330)
.+..+.+|.|+...||.- + ...++ +.+.|.+++.+++ |++.+| -||+|..-... ..++-|.|+..
T Consensus 5 ~~~Y~~lGy~v~~~S~~~-~----~g~~~-L~~~l~~k~sv~~--G~SGVG-KSTLiN~L~~~--~~~~t~~iS~~ 69 (161)
T pfam03193 5 LEIYEAIGYEVLVVSAKT-G----EGIEE-LKPLLKGKTSVLA--GQSGVG-KSTLLNALLPE--LDLRTGEISEK 69 (161)
T ss_pred HHHHHHCCCCEEEEECCC-C----CCHHH-HHHHHCCCEEEEE--CCCCCC-HHHHHHHHCCH--HHHHHHHHHHH
T ss_conf 999998799089964799-8----79999-9998679859998--899988-99999885634--43577753588
No 49
>pfam11808 DUF3329 Domain of unknown function (DUF3329). This family of proteins are functionally uncharacterized. This family is only found in bacteria.
Probab=25.31 E-value=50 Score=14.07 Aligned_cols=37 Identities=8% Similarity=0.043 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHH
Q ss_conf 99899999999977998999963888761089998999840
Q gi|254780760|r 279 AFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRLERAA 319 (330)
Q Consensus 279 A~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL~RAA 319 (330)
-.+||...+++++..-+ ++++..|.|..|.|.|.|--
T Consensus 45 ~~~l~rL~~WL~~~~~~----~PP~~~G~Wg~if~~lYrlq 81 (90)
T pfam11808 45 YYQLYRLHDWLWQDRSL----TPPEGSGSWEELFDGIYRLQ 81 (90)
T ss_pred HHHHHHHHHHHCCCCCC----CCCCCCCCHHHHHHHHHHHH
T ss_conf 99999999997678889----98999855999999999999
No 50
>TIGR02452 TIGR02452 conserved hypothetical protein TIGR02452; InterPro: IPR012664 Members of this uncharacterised protein family are found in Streptomyces, Nostoc sp. PCC7120, Clostridium acetobutylicum, Lactobacillus johnsonii NCC533, Deinococcus radiodurans, and Pirellula sp. for a broad but sparse phylogenetic distribution that at least suggests lateral gene transfer..
Probab=24.97 E-value=51 Score=14.03 Aligned_cols=24 Identities=13% Similarity=0.286 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEEE
Q ss_conf 999989999999997799899996
Q gi|254780760|r 277 EAAFNLFNYMKIADDSGASSIAFS 300 (330)
Q Consensus 277 eaA~nLY~~LR~lD~~~~~~I~ve 300 (330)
....+.+..|+-+.+++++.++.=
T Consensus 197 ~l~~R~~~vl~~A~~q~~~~LVLG 220 (275)
T TIGR02452 197 TLKNRIKKVLKLAEDQNVKALVLG 220 (275)
T ss_pred HHHHHHHHHHHHHHHCCCCEEEEC
T ss_conf 999999999999984789899853
No 51
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme; InterPro: IPR006467 This clade of sequences is closely related to MiaB, a modifier of isopentenylated adenosine-37 of certain eukaryotic and bacterial tRNAs (see IPR006463 from INTERPRO). Sequence alignments suggest that these sequences perform the same chemical transformation as MiaB, perhaps on a different (or differently modified) tRNA base substrate. This clade represents a subfamily that spans low GC Gram-positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium , , ..
Probab=24.56 E-value=27 Score=15.75 Aligned_cols=13 Identities=23% Similarity=0.263 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHCC
Q ss_conf 9999999997088
Q gi|254780760|r 42 PTAIRRLYEIKKR 54 (330)
Q Consensus 42 ~~av~~I~~~K~R 54 (330)
.++=+-|++++.+
T Consensus 52 ~~~R~~ir~~~r~ 64 (492)
T TIGR01579 52 RKARRAIRRAKRE 64 (492)
T ss_pred HHHHHHHHHHHHC
T ss_conf 8899999999820
No 52
>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=24.47 E-value=51 Score=14.02 Aligned_cols=70 Identities=19% Similarity=0.253 Sum_probs=36.9
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHCCCCCCC-CCCCCCCCCCCCEEEEEECCCCEEEEECCCCCHHHHHHHCC
Q ss_conf 34333485433017777664406554211-27664566767306996269824344248878888774227
Q gi|254780760|r 138 PSANRSGQISITNVKHILSSSICKEIPLI-IDGGISKIGLESTIVNVQCEKKVRILRPGGLEIETLKRAIS 207 (330)
Q Consensus 138 ~SAN~sG~~Spt~a~~v~~~~~~~~i~~i-ldgg~~~~GieSTiid~~~~~~~~IlR~G~i~~~~i~~~l~ 207 (330)
++.|..|--......+.+.+..++..|++ +|..+.......|++.--.++-+.+-|+|....++.++.+.
T Consensus 142 ~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~i~~~~~~g~viVt~p~~~~~~~v~ka~~ 212 (265)
T COG0489 142 VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADATVLQRIPDGVVIVTTPGKTALEDVKKAID 212 (265)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf 99894677633899999999745688889996999864277788751388599996677355999999999
No 53
>PRK10456 arginine succinyltransferase; Provisional
Probab=23.69 E-value=29 Score=15.58 Aligned_cols=54 Identities=17% Similarity=0.238 Sum_probs=25.7
Q ss_pred CCCCCCCCCHHH-HHHHHHHHCCCEEECCCCCCCCCCCCCH--HHHHHHH---HHCCCCCCCCCCCCC
Q ss_conf 457633224156-6766642014212123433348543301--7777664---406554211276645
Q gi|254780760|r 111 NLKTACFRVPCG-FTKKLIETYGHPLAIPSANRSGQISITN--VKHILSS---SICKEIPLIIDGGIS 172 (330)
Q Consensus 111 ~~~tvavRiP~h-~~~~ll~~~~~Piaa~SAN~sG~~Spt~--a~~v~~~---~~~~~i~~ildgg~~ 172 (330)
++..|+==||.| +-..||..--.-+ -|+|-|.+ |...++. .+.+-|| |.|||||
T Consensus 199 ~k~FIaeLmP~~PiYv~lLp~~Aq~v-------IG~vH~~t~pA~~lLe~EGF~~~gyVD-IFDaGP~ 258 (344)
T PRK10456 199 QKAFIAELMPKHPIYTHFLSEEAQAV-------IGQVHPQTAPARAVLEKEGFRYRNYID-IFDGGPT 258 (344)
T ss_pred CCEEHHHHCCCCCEEHHCCCHHHHHH-------HCCCCCCCHHHHHHHHHCCCCCCCCEE-CCCCCCE
T ss_conf 75008876899863210499999998-------399696779999999974897689554-4478845
No 54
>COG3186 Phenylalanine-4-hydroxylase [Amino acid transport and metabolism]
Probab=23.61 E-value=54 Score=13.86 Aligned_cols=31 Identities=16% Similarity=0.158 Sum_probs=19.2
Q ss_pred CCCCCCCCCCC---CCHHH--HHHHHHHHCCCEEEC
Q ss_conf 55444576332---24156--676664201421212
Q gi|254780760|r 107 LSTANLKTACF---RVPCG--FTKKLIETYGHPLAI 137 (330)
Q Consensus 107 ~~t~~~~tvav---RiP~h--~~~~ll~~~~~Piaa 137 (330)
....|.+..|+ |+|++ +.+.|-++.|.-+++
T Consensus 68 ~fLdgle~lgL~~~~ipd~~~in~~l~~~Tgw~v~~ 103 (291)
T COG3186 68 EFLDGLEALGLPLSRIPDFDEINRVLQRETGWQVVA 103 (291)
T ss_pred HHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCEEEE
T ss_conf 998799972997012777799999999850967985
No 55
>pfam00162 PGK Phosphoglycerate kinase.
Probab=23.33 E-value=33 Score=15.24 Aligned_cols=16 Identities=13% Similarity=0.528 Sum_probs=8.1
Q ss_pred HHHHHHCCCCCCCCCCC
Q ss_conf 76644065542112766
Q gi|254780760|r 154 ILSSSICKEIPLIIDGG 170 (330)
Q Consensus 154 v~~~~~~~~i~~ildgg 170 (330)
++.. |-.++|.|+=||
T Consensus 205 ~l~~-L~~k~D~iiigG 220 (383)
T pfam00162 205 VIEN-LLDKVDKLLIGG 220 (383)
T ss_pred HHHH-HHHHCCEEEECC
T ss_conf 9999-998587789772
No 56
>TIGR02584 cas_NE0113 CRISPR-associated protein, NE0113 family; InterPro: IPR013413 Members of this minor CRISPR-associated (Cas) protein family are encoded in cas gene clusters in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, Mannheimia succiniciproducens MBEL55E, and Verrucomicrobium spinosum..
Probab=21.69 E-value=13 Score=17.92 Aligned_cols=48 Identities=21% Similarity=0.220 Sum_probs=20.5
Q ss_pred HHHHHHHCCCCCE------EEEECCCCCCCCCCCCCCCCCCC-CCCCH-HH-HHHHHH
Q ss_conf 4689985058871------88614678781165554445763-32241-56-676664
Q gi|254780760|r 80 SLHLAKLFWPGPL------TLVLDLLSTTDIHPLSTANLKTA-CFRVP-CG-FTKKLI 128 (330)
Q Consensus 80 ~~~l~~~fwPGpl------T~il~~~~~~~i~~~~t~~~~tv-avRiP-~h-~~~~ll 128 (330)
..+|.+.+.-+|. ++-+= +.--.+|+..+...+.+ -+|-| +| -+-++|
T Consensus 65 l~~L~~d~~~~~~~~~~e~~i~li-~rvidlPdaa~~~~~p~~D~Rt~~~n~AaA~~I 121 (224)
T TIGR02584 65 LEKLLHDYFQLPLPRFDEKSIYLI-PRVIDLPDAADAQEKPLADIRTPADNEAAAEFI 121 (224)
T ss_pred HHHHHHHHHCCCCCCCCCCEEEEE-CCEECCCCCHHHCCCCHHHCCCHHHHHHHHHHH
T ss_conf 999987543268873466625651-100117540101058522227963678899899
No 57
>pfam04958 AstA Arginine N-succinyltransferase beta subunit. Arginine N-succinyltransferase EC:2.3.1.109 catalyses the transfer of succinyl-CoA to arginine to produce succinylarginine. This is the first step in arginine catabolism by the arginine succinyltransferase pathway.
Probab=21.63 E-value=32 Score=15.33 Aligned_cols=53 Identities=19% Similarity=0.164 Sum_probs=24.3
Q ss_pred CCCCCCCCCHHH-HHHHHHH-HCCCEEECCCCCCCCCCCCCH--HHHHHHH---HHCCCCCCCCCCCCC
Q ss_conf 457633224156-6766642-014212123433348543301--7777664---406554211276645
Q gi|254780760|r 111 NLKTACFRVPCG-FTKKLIE-TYGHPLAIPSANRSGQISITN--VKHILSS---SICKEIPLIIDGGIS 172 (330)
Q Consensus 111 ~~~tvavRiP~h-~~~~ll~-~~~~Piaa~SAN~sG~~Spt~--a~~v~~~---~~~~~i~~ildgg~~ 172 (330)
++..|+==||.| +-..|+. ++..- -|+|-|.+ |...++. .+.+.|| |.|||||
T Consensus 200 ~k~FIaeLmP~~PIYv~LLp~~Aq~v--------IG~vH~~t~pA~~lLe~EGF~~~gyVD-IFDgGP~ 259 (338)
T pfam04958 200 NKQFIAELMPKYPIYVPLLPEEAQAV--------IGQVHPNTRPALRLLEREGFRYRGYVD-IFDGGPT 259 (338)
T ss_pred CCHHHHHHCCCCCEEHHCCCHHHHHH--------HCCCCCCCHHHHHHHHHCCCCCCCCEE-CCCCCCE
T ss_conf 61218875899864300499999998--------499382649999999975897689654-4478844
No 58
>TIGR03244 arg_catab_AstA arginine N-succinyltransferase. In many bacteria, the arginine succinyltransferase (ast) pathway operon consists of five genes, including this protein, arginine N-succinyltransferase (EC 2.3.1.109). In a few species, such as Pseudomonas aeruginosa, the member of this family is encoded adjacent to a paralog, and the two polypeptides form a heterodimeric enzyme, active on both arginine and ornithine. In such species, this polypeptide may be treated as the beta subunit of an enzyme that may be named either arginine N-succinyltransferase (AST) or arginine and orthithine N-succinyltransferase (AOST).
Probab=21.47 E-value=27 Score=15.77 Aligned_cols=13 Identities=23% Similarity=0.289 Sum_probs=8.7
Q ss_pred HCCCCCCCCCCCCC
Q ss_conf 06554211276645
Q gi|254780760|r 159 ICKEIPLIIDGGIS 172 (330)
Q Consensus 159 ~~~~i~~ildgg~~ 172 (330)
+.+.|| |.|||||
T Consensus 244 ~~gyVD-IFDgGP~ 256 (336)
T TIGR03244 244 YQGYVD-IFDAGPT 256 (336)
T ss_pred CCCCEE-CCCCCCE
T ss_conf 589653-4368845
No 59
>TIGR03245 arg_AOST_alph arginine/ornithine succinyltransferase, alpha subunit. In some bacteria, including Pseudomonas aeruginosa, the astB gene (arginine N-succinyltransferase) is replaced by tandem paralogs that form a heterodimer. This heterodimer from P. aeruginosa is characterized as arginine and ornithine N-2 succinyltransferase (AOST). Members of this protein family represent the less widespread paralog, designated AruI, or arginine/ornithine succinyltransferase, alpha subunit.
Probab=21.36 E-value=31 Score=15.42 Aligned_cols=53 Identities=21% Similarity=0.153 Sum_probs=23.5
Q ss_pred CCCCCCCCCHHH-HHHHHHH-HCCCEEECCCCCCCCCCCCCH--HHHHHHH---HHCCCCCCCCCCCCC
Q ss_conf 457633224156-6766642-014212123433348543301--7777664---406554211276645
Q gi|254780760|r 111 NLKTACFRVPCG-FTKKLIE-TYGHPLAIPSANRSGQISITN--VKHILSS---SICKEIPLIIDGGIS 172 (330)
Q Consensus 111 ~~~tvavRiP~h-~~~~ll~-~~~~Piaa~SAN~sG~~Spt~--a~~v~~~---~~~~~i~~ildgg~~ 172 (330)
++..|+==||.| +-..||. ++..- -|+|-|.+ |...++. .+.+-|| |.|||||
T Consensus 198 ~k~FIaeLmP~~PiYv~lLp~~Aq~v--------IG~vH~~t~pA~~lLe~EGF~~~gyVD-IFDgGP~ 257 (336)
T TIGR03245 198 SKTFIAELMPPYPIYVPLLPDDAQDA--------IGQPHPHARDNCQILNREGFEMDRYID-IFDGGPT 257 (336)
T ss_pred CCHHHHHHCCCCCEECCCCCHHHHHH--------HCCCCCCCHHHHHHHHHCCCCCCCCEE-CCCCCCE
T ss_conf 73338865889975300499999998--------488385678999999973897689642-4368855
No 60
>PRK12896 methionine aminopeptidase; Reviewed
Probab=21.09 E-value=60 Score=13.54 Aligned_cols=14 Identities=14% Similarity=0.468 Sum_probs=5.6
Q ss_pred EEEECCCCCHHHHHH
Q ss_conf 344248878888774
Q gi|254780760|r 190 RILRPGGLEIETLKR 204 (330)
Q Consensus 190 ~IlR~G~i~~~~i~~ 204 (330)
..+|+| .+..++..
T Consensus 140 ~~ikPG-~~~~di~~ 153 (254)
T PRK12896 140 KQVKAG-RPLNDIGR 153 (254)
T ss_pred HHHCCC-CCHHHHHH
T ss_conf 983599-80899999
No 61
>PRK11915 glycerol-3-phosphate acyltransferase; Reviewed
Probab=20.84 E-value=61 Score=13.51 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=4.1
Q ss_pred CCCCCCCCCC
Q ss_conf 4211276645
Q gi|254780760|r 163 IPLIIDGGIS 172 (330)
Q Consensus 163 i~~ildgg~~ 172 (330)
+.+.+.||.+
T Consensus 197 lEffiEGgRS 206 (621)
T PRK11915 197 LTWSIEGGRT 206 (621)
T ss_pred EEEEECCCCC
T ss_conf 5897157736
No 62
>TIGR03243 arg_catab_AOST arginine and ornithine succinyltransferase subunits. In many bacteria, the sole member of this protein family is arginine N-succinyltransferase (EC 2.3.1.109), the AstA protein of the arginine succinyltransferase (ast) pathway. However, in Pseudomonas aeruginosa and several other species, a tandem gene pair encodes alpha and beta subunits of a heterodimer that is designated arginine and ornithine succinyltransferase (AOST).
Probab=20.68 E-value=29 Score=15.62 Aligned_cols=53 Identities=17% Similarity=0.136 Sum_probs=23.8
Q ss_pred CCCCCCCCCHHH-HHHHHHH-HCCCEEECCCCCCCCCCCCCH--HHHHHHH---HHCCCCCCCCCCCCC
Q ss_conf 457633224156-6766642-014212123433348543301--7777664---406554211276645
Q gi|254780760|r 111 NLKTACFRVPCG-FTKKLIE-TYGHPLAIPSANRSGQISITN--VKHILSS---SICKEIPLIIDGGIS 172 (330)
Q Consensus 111 ~~~tvavRiP~h-~~~~ll~-~~~~Piaa~SAN~sG~~Spt~--a~~v~~~---~~~~~i~~ildgg~~ 172 (330)
++..|+==||.| +-..|+. ++..- -|+|-+.+ |...++. .+.+.|| |.|||||
T Consensus 197 ~k~FIaeLmP~~PIYv~lLp~~Aq~v--------IG~vH~~t~pA~~lLe~EGF~~~gyVD-IFDgGP~ 256 (335)
T TIGR03243 197 SKTFIAELMPKYPIYVPLLPEEAQDV--------IGQVHPDTRPARAMLESEGFRYQGYVD-IFDAGPT 256 (335)
T ss_pred CCHHHHHHCCCCCEEEECCCHHHHHH--------HCCCCCCCHHHHHHHHHCCCCCCCCEE-CCCCCCE
T ss_conf 72448876889975420599899997--------298484679999999973997689654-4478846
No 63
>TIGR00089 TIGR00089 RNA modification enzyme, MiaB family; InterPro: IPR005839 This entry represents a family defined on the basis of sequence similarity. Most of these proteins are not yet characterised, but those that are include CDK5 regulatory subunit-associated protein 1, which specifically inhibits CDK5 activation by CDK5R1 . MiaB, a tRNA modification enzyme . The size of proteins in this entry ranges from 47 to 61 kDa and they contain six conserved cysteines, three of which are clustered. .
Probab=20.65 E-value=36 Score=15.02 Aligned_cols=31 Identities=6% Similarity=0.097 Sum_probs=19.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECC
Q ss_conf 5999999999998999999999779989999638
Q gi|254780760|r 269 LSKTGKLKEAAFNLFNYMKIADDSGASSIAFSSI 302 (330)
Q Consensus 269 Ls~~gd~~eaA~nLY~~LR~lD~~~~~~I~ve~i 302 (330)
.+-+|.-+|- +=++|.-+++-+++.+++-..
T Consensus 317 VGFPGETeEd---F~~Tl~l~~ev~F~~~~~F~Y 347 (455)
T TIGR00089 317 VGFPGETEED---FEETLDLVEEVKFDKLHSFIY 347 (455)
T ss_pred ECCCCCCHHH---HHHHHHHHHHCCCCEEEEECC
T ss_conf 8289998899---999999985238443431205
No 64
>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]
Probab=20.44 E-value=62 Score=13.45 Aligned_cols=45 Identities=13% Similarity=0.180 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHHCCC
Q ss_conf 99999899999999977998999963888761089998999840583
Q gi|254780760|r 276 KEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRLERAAAPR 322 (330)
Q Consensus 276 ~eaA~nLY~~LR~lD~~~~~~I~ve~ip~~glg~AI~DRL~RAA~~r 322 (330)
-.+=+..|..+|++-++|...|++.. +-.+-..+.||+.=-..||
T Consensus 434 VGAK~eIy~li~~lA~~G~ail~iSS--ElpEll~~~DRIlVm~~Gr 478 (500)
T COG1129 434 VGAKAEIYRLIRELAAEGKAILMISS--ELPELLGLSDRILVMREGR 478 (500)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEEEC--CHHHHHHHCCEEEEEECCE
T ss_conf 14589999999999977998999949--7599884097799998998
No 65
>pfam08351 DUF1726 Domain of unknown function (DUF1726). This domain of unknown function is found at the C-terminus of a putative ATPase (pfam05127).
Probab=20.03 E-value=63 Score=13.40 Aligned_cols=28 Identities=18% Similarity=0.128 Sum_probs=19.8
Q ss_pred CCCCHHHHHHHHHHHHCCCEEEEECCCH
Q ss_conf 1799999999999997598599907780
Q gi|254780760|r 5 SITDSNALRKACEFLDAGLPIAIPTETV 32 (330)
Q Consensus 5 ~~~d~~~i~~a~~~L~~G~~v~~PTeTv 32 (330)
..-+++.+...++.++.||++++=|.+.
T Consensus 21 ~~~~Pn~l~~~~gtv~gGGllill~p~~ 48 (92)
T pfam08351 21 EDLTPNDLGRLVETVRGGGLIILLLPPL 48 (92)
T ss_pred CCCCHHHHHHHHHHEECCEEEEEECCCH
T ss_conf 5899889999874321570899984877
Done!