Query gi|254781175|ref|YP_003065588.1| UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 296
No_of_seqs 133 out of 1538
Neff 5.4
Searched_HMMs 39220
Date Tue May 31 16:56:39 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254781175.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13186 lpxC UDP-3-O-[3-hydro 100.0 0 0 804.1 29.3 284 8-294 2-285 (299)
2 pfam03331 LpxC UDP-3-O-acyl N- 100.0 0 0 779.7 28.4 275 8-285 1-276 (276)
3 COG0774 LpxC UDP-3-O-acyl-N-ac 100.0 0 0 775.9 26.8 284 8-294 2-288 (300)
4 PRK13188 bifunctional UDP-3-O- 100.0 0 0 767.5 28.3 275 6-283 1-300 (465)
5 PRK13187 UDP-3-O-[3-hydroxymyr 100.0 0 0 734.7 26.5 282 8-295 9-304 (305)
6 TIGR00325 lpxC UDP-3-0-acyl N- 100.0 0 0 444.0 17.5 283 8-293 2-289 (307)
7 cd01684 Tet_like_IV EF-G_domai 93.5 0.67 1.7E-05 26.3 8.1 96 9-120 3-102 (115)
8 cd01680 EFG_like_IV Elongation 85.2 3.3 8.5E-05 21.9 7.8 95 9-120 1-103 (116)
9 TIGR01021 rpsE_bact ribosomal 83.9 1.3 3.3E-05 24.5 3.4 48 2-63 63-111 (157)
10 TIGR03365 Bsubt_queE 7-cyano-7 83.5 2.7 6.9E-05 22.5 4.9 88 18-126 12-101 (238)
11 cd01434 EFG_mtEFG1_IV EFG_mtEF 76.8 6.5 0.00017 20.1 8.3 96 9-121 1-104 (116)
12 pfam03719 Ribosomal_S5_C Ribos 69.9 3.9 0.0001 21.5 2.6 17 29-45 7-23 (74)
13 PRK00550 rpsE 30S ribosomal pr 66.6 7.9 0.0002 19.6 3.6 36 3-44 66-101 (156)
14 COG0098 RpsE Ribosomal protein 66.4 11 0.00029 18.6 4.4 39 2-45 83-121 (181)
15 PRK04044 rps5p 30S ribosomal p 65.7 5.3 0.00014 20.7 2.5 18 134-151 54-71 (211)
16 TIGR01020 rpsE_arch ribosomal 63.9 5.8 0.00015 20.4 2.5 68 16-97 138-205 (220)
17 COG5257 GCD11 Translation init 62.5 5.2 0.00013 20.7 2.0 42 79-123 125-167 (415)
18 CHL00138 rps5 ribosomal protei 59.1 8.4 0.00022 19.4 2.6 16 29-44 101-116 (139)
19 TIGR01008 rpsC_E_A ribosomal p 57.2 4.1 0.0001 21.4 0.7 65 41-113 29-93 (204)
20 PTZ00070 40S ribosomal protein 57.2 8.9 0.00023 19.3 2.4 21 106-126 118-138 (261)
21 cd04166 CysN_ATPS CysN_ATPS su 55.5 17 0.00043 17.5 3.6 46 74-122 110-155 (208)
22 COG1685 Archaeal shikimate kin 53.8 13 0.00033 18.2 2.8 69 69-138 40-112 (278)
23 PRK00049 elongation factor Tu; 53.3 19 0.00049 17.2 3.7 55 48-103 81-137 (397)
24 COG1859 KptA RNA:NAD 2'-phosph 52.7 19 0.0005 17.1 4.4 49 80-128 75-142 (211)
25 KOG2097 consensus 50.3 9.2 0.00024 19.2 1.6 94 173-278 183-286 (397)
26 COG1854 LuxS LuxS protein invo 50.3 6.8 0.00017 20.0 0.9 20 78-97 51-70 (161)
27 cd01693 mtEFG2_like_IV mtEF-G2 48.2 23 0.00058 16.7 7.4 96 9-119 3-105 (120)
28 COG1526 FdhD Uncharacterized p 45.2 25 0.00065 16.4 3.8 64 198-268 142-206 (266)
29 pfam06123 CreD Inner membrane 44.0 14 0.00037 18.0 1.8 72 94-170 154-231 (430)
30 COG2872 Predicted metal-depend 43.0 28 0.0007 16.2 3.2 29 78-106 96-135 (241)
31 PRK00724 formate dehydrogenase 42.1 20 0.0005 17.1 2.2 79 194-281 137-216 (262)
32 TIGR02461 osmo_MPG_phos mannos 41.1 16 0.00041 17.7 1.7 68 94-166 5-84 (248)
33 cd01884 EF_Tu EF-Tu subfamily. 40.5 30 0.00077 16.0 4.6 58 43-108 65-131 (195)
34 pfam08781 DP Transcription fac 40.3 30 0.00077 15.9 3.2 48 150-213 59-106 (141)
35 pfam02664 LuxS S-Ribosylhomocy 39.5 11 0.00027 18.8 0.6 19 78-96 50-68 (158)
36 PRK04000 translation initiatio 38.9 25 0.00063 16.5 2.3 31 74-105 117-148 (410)
37 pfam01688 Herpes_gI Alphaherpe 38.6 25 0.00064 16.5 2.3 11 158-168 79-89 (161)
38 TIGR00888 guaA_Nterm GMP synth 36.8 34 0.00088 15.6 3.0 69 182-278 19-87 (195)
39 PRK02260 S-ribosylhomocysteina 35.4 14 0.00035 18.1 0.6 19 78-96 51-69 (163)
40 TIGR00049 TIGR00049 iron-sulfu 34.5 5.9 0.00015 20.4 -1.4 32 96-127 56-87 (105)
41 PRK10536 hypothetical protein; 33.8 30 0.00077 16.0 2.1 109 84-225 65-184 (262)
42 PRK11715 hypothetical protein; 29.5 40 0.001 15.2 2.2 72 94-170 155-232 (427)
43 PRK00807 50S ribosomal protein 27.3 35 0.0009 15.5 1.6 16 35-50 9-24 (52)
44 pfam02562 PhoH PhoH-like prote 27.3 25 0.00064 16.4 0.8 101 99-227 21-129 (205)
45 cd01888 eIF2_gamma eIF2-gamma 27.3 39 0.001 15.2 1.8 33 74-107 116-149 (203)
46 PRK10693 response regulator of 27.2 39 0.001 15.3 1.8 59 65-125 19-77 (337)
47 TIGR01546 GAPDH-II_archae glyc 26.3 13 0.00033 18.2 -0.8 101 113-228 50-178 (335)
48 COG3718 IolB Uncharacterized e 26.3 35 0.00089 15.6 1.4 48 180-235 183-230 (270)
49 PRK10841 hybrid sensory kinase 26.2 38 0.00097 15.3 1.6 16 270-285 832-847 (947)
50 cd02128 PA_TfR PA_TfR: Proteas 26.0 46 0.0012 14.8 1.9 15 94-108 79-93 (183)
51 PRK05481 lipoyl synthase; Prov 25.7 53 0.0013 14.4 4.6 44 80-125 81-125 (289)
52 cd02121 PA_GCPII_like PA_GCPII 25.4 45 0.0012 14.8 1.8 22 112-133 85-106 (220)
53 TIGR00877 purD phosphoribosyla 25.1 54 0.0014 14.4 3.2 43 79-128 53-95 (459)
54 KOG4158 consensus 24.9 42 0.0011 15.1 1.6 19 93-111 367-385 (598)
55 COG2075 RPL24A Ribosomal prote 24.7 38 0.00097 15.3 1.3 14 36-49 12-25 (66)
56 pfam07146 DUF1389 Protein of u 24.1 33 0.00084 15.7 0.9 52 79-130 83-139 (311)
57 PRK12928 lipoyl synthase; Prov 24.1 57 0.0014 14.2 4.7 42 82-125 91-133 (290)
58 pfam11376 DUF3179 Protein of u 23.8 57 0.0015 14.2 2.4 23 25-48 55-77 (261)
59 KOG0460 consensus 23.3 59 0.0015 14.2 3.1 46 74-120 150-223 (449)
60 TIGR01836 PHA_synth_III_C poly 23.2 18 0.00046 17.3 -0.5 76 138-216 81-158 (367)
61 PRK05293 glgC glucose-1-phosph 23.1 45 0.0012 14.8 1.5 38 80-117 35-74 (381)
62 PTZ00327 eukaryotic translatio 23.1 59 0.0015 14.1 2.3 29 74-103 153-182 (460)
63 pfam06415 iPGM_N BPG-independe 22.2 62 0.0016 14.0 4.9 68 54-124 13-89 (223)
64 TIGR00009 L28 ribosomal protei 22.2 29 0.00074 16.1 0.3 19 19-37 26-44 (70)
65 KOG2052 consensus 22.1 45 0.0012 14.8 1.3 42 9-51 205-257 (513)
66 PRK10512 selenocysteinyl-tRNA- 21.7 63 0.0016 13.9 4.2 141 10-170 176-342 (615)
67 cd04487 RecJ_OBF2_like RecJ_OB 21.5 62 0.0016 14.0 1.9 45 104-148 15-62 (73)
68 PRK13277 5-formaminoimidazole- 21.1 65 0.0017 13.9 4.3 50 93-145 96-155 (363)
69 PRK09014 rfaH transcriptional 20.9 65 0.0017 13.8 2.0 61 23-92 37-98 (162)
70 PRK05434 phosphoglyceromutase; 20.8 66 0.0017 13.8 3.6 99 22-124 53-171 (511)
71 pfam02861 Clp_N Clp amino term 20.7 53 0.0014 14.4 1.4 14 79-92 11-24 (53)
72 PRK12736 elongation factor Tu; 20.6 66 0.0017 13.8 3.3 56 48-104 80-137 (394)
73 PHA00442 host recBCD nuclease 20.6 46 0.0012 14.8 1.1 17 85-101 30-46 (59)
74 PRK12271 rps10p 30S ribosomal 20.4 67 0.0017 13.8 2.4 31 97-127 3-33 (102)
75 COG3254 Uncharacterized conser 20.3 67 0.0017 13.8 2.6 23 84-106 27-49 (105)
76 COG4308 LimA Limonene-1,2-epox 20.3 27 0.00069 16.3 -0.2 23 80-102 9-31 (130)
77 PRK05784 phosphoribosylamine-- 20.1 68 0.0017 13.7 3.2 41 80-127 55-95 (485)
78 TIGR01049 rpsJ_bact ribosomal 20.0 68 0.0017 13.7 3.3 50 97-146 2-57 (99)
No 1
>PRK13186 lpxC UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=100.00 E-value=0 Score=804.10 Aligned_cols=284 Identities=46% Similarity=0.751 Sum_probs=277.9
Q ss_pred CCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHH
Q ss_conf 01711075199999970379778999983788871899980568888626310998666322013476315886489989
Q gi|254781175|r 8 RLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLM 87 (296)
Q Consensus 8 ~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLL 87 (296)
++|+||+++++|+|+|||||+.|+|+++||++|+||+|+|+|+++ ++.|||+++||++|.|||+|++++++|+||||||
T Consensus 2 ~~Q~Ti~~~v~~~GiGLHsG~~~~v~l~PA~~~tGI~F~R~Dl~~-~~~I~A~~~~V~~t~~~T~L~~~g~~V~TVEHLL 80 (299)
T PRK13186 2 IKQRTLKKIVSATGVGLHSGKKVTLTLRPAPANTGIVFRRTDLDP-PVEIPARADNVGDTRLCTTLGNGGVRVSTVEHLM 80 (299)
T ss_pred CCCCCCCCCEEEEEEEECCCCEEEEEEEECCCCCCEEEEECCCCC-CCEEEEEHHHCCCCCCCCEEECCCEEEEEHHHHH
T ss_conf 986357872799989925797888999948999758999914899-8279987410567776378805984997499999
Q ss_pred HHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEE
Q ss_conf 99987200059999648878300582899999885445544478751477046349981771465414766337899970
Q gi|254781175|r 88 AALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGESWAEFSPHCSMRFEISIEF 167 (296)
Q Consensus 88 AAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf 167 (296)
|||+|||||||+||+||+|+|||||||++||++|++||+++|+++|++++|++||+|+++++|+.+.|+++|+|+|+|||
T Consensus 81 AAL~glgIDN~~Ieidg~EvPIlDGSA~~fv~~i~~aGi~~q~~~r~~~~I~~~i~v~~~~~~i~~~P~~~l~i~~~idf 160 (299)
T PRK13186 81 AALAGLGIDNAIIEVDGPEVPIMDGSAAPFVFLIQSAGIVEQNAPKKFIRIKKPVRVEDGDKFAELLPYDGFRLDFTIDF 160 (299)
T ss_pred HHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHCCCEECCCCCCEEEECCEEEEEECCEEEEEECCCCEEEEEEEEC
T ss_conf 99985787418999688627601586699999987448450467420489577099996999999937997799999987
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHH
Q ss_conf 88431300023455457789851465032220257888642000321334645641377331067747899720011489
Q gi|254781175|r 168 KNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTL 247 (296)
Q Consensus 168 ~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiL 247 (296)
++++||+|++++++++++|.+||||||||||++|+|+|+++||+|||||+||+|++ +++|+|++||||+ |||||||+|
T Consensus 161 ~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~f~~eve~l~~~Gl~kGgsl~NaiVi~-~~~vlN~~gLR~~-dE~vRHKiL 238 (299)
T PRK13186 161 DHPAIGRQRYSLDFSPESFVREIARARTFGFMKDVEYLRAAGLALGGSLDNAIVLD-DDRVLNPDGLRFE-DEFVRHKIL 238 (299)
T ss_pred CCCCCCCEEEEECCCHHHHHHHCCCCCEEECHHHHHHHHHCCCCCCCCCHHEEEEC-CCCEECCCCCCCC-CCCCCCCCH
T ss_conf 99768338867205817788750257346727869999878963444501158853-8807479887688-814153303
Q ss_pred HHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCEEEECC
Q ss_conf 99898997599646899997788089999999998096671566207
Q gi|254781175|r 248 DAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYEIVDDH 294 (296)
Q Consensus 248 DlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~~v~~~ 294 (296)
|+||||||+|+|++|||+|+|+||++|++|+|+||+|++|||+++..
T Consensus 239 DliGDL~L~G~pi~g~i~a~~~GH~ln~~l~~~l~~~~~~~~~~~~~ 285 (299)
T PRK13186 239 DAIGDLYLLGHPIIGHFTAYKSGHALNNKLLRALLADQDAWEIVTFE 285 (299)
T ss_pred HHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCEEEEEEC
T ss_conf 54445776489617999998687199999999997398855999935
No 2
>pfam03331 LpxC UDP-3-O-acyl N-acetylglycosamine deacetylase. The enzymes in this family catalyse the second step in the biosynthetic pathway for lipid A.
Probab=100.00 E-value=0 Score=779.66 Aligned_cols=275 Identities=41% Similarity=0.691 Sum_probs=268.4
Q ss_pred CCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHH
Q ss_conf 01711075199999970379778999983788871899980568888626310998666322013476315886489989
Q gi|254781175|r 8 RLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLM 87 (296)
Q Consensus 8 ~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLL 87 (296)
++|+||+++++|+|+|||||++|+|+++|||+|+||+|+|+|+++ ++.|||+++||++|.|||+|++++++|+||||||
T Consensus 1 mkQ~Ti~~~v~~~GiGLHsG~~v~v~l~PA~~~tGI~F~R~Dl~~-~~~I~a~~~~V~~t~~~T~l~~~~~~V~TvEHLl 79 (276)
T pfam03331 1 MKQRTLKRPVSVSGVGLHTGKKSTLTLEPAKENTGIVFQRTDLSP-YPIIPARPENVRDTMLSTTLGNDGARISTVEHLL 79 (276)
T ss_pred CCCCCCCCEEEEEEEECCCCCEEEEEEEECCCCCCEEEEEECCCC-CCEEEECHHHCCCHHHHCEEECCCCEEEEHHHHH
T ss_conf 976356870799999835796888999958999858999924999-9379855667116002103405995997299999
Q ss_pred HHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEE
Q ss_conf 99987200059999648878300582899999885445544478751477046349981771465414766337899970
Q gi|254781175|r 88 AALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGESWAEFSPHCSMRFEISIEF 167 (296)
Q Consensus 88 AAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf 167 (296)
|||+|||||||+||+||+|+|||||||++||++|++||+++|+++|++++|++||+|+++++|+.+.|+++|+|+|+|||
T Consensus 80 AAL~glgIDN~~Ieidg~EvPIlDGSa~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~~~i~~~idf 159 (276)
T pfam03331 80 AALAGLGIDNLIIEVDGPEIPIMDGSALPFVELIDQAGIKEQEAAKKIIRIKEPVYVQDGDKFLAAFPSDGLKISYTIDF 159 (276)
T ss_pred HHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEC
T ss_conf 99997698639999799788833787899999999709876677541478556089998999999976899779999987
Q ss_pred CCCCCC-CCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHH
Q ss_conf 884313-0002345545778985146503222025788864200032133464564137733106774789972001148
Q gi|254781175|r 168 KNSIIG-FQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKT 246 (296)
Q Consensus 168 ~~~~Ig-~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKi 246 (296)
++++|| +|++++++++++|.+||||||||||++|+|+|+++||+||||||||+|+++ ++|+|++||||+ |||||||+
T Consensus 160 ~~~~ig~~Q~~~~~~~~~~f~~eIa~ARTF~f~~eve~L~~~GL~kGgsl~NaiVi~~-~~vlN~~gLR~~-dE~vRHKi 237 (276)
T pfam03331 160 KHPAIGKSQWYSFVFSQESFRKEIAPARTFGFMREIEYLRSKGLIKGGSLENAIVFDD-DKVLNPPGLRFE-DEPVRHKI 237 (276)
T ss_pred CCCCCCCCEEEEEEECCHHHHHHHHCCCEEEEHHHHHHHHHCCCCCCCCHHHEEEECC-CCCCCCCCCCCC-CCCCCHHH
T ss_conf 9976575238999766514687750665255099999998779502336789367348-838489887787-81116558
Q ss_pred HHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf 999898997599646899997788089999999998096
Q gi|254781175|r 247 LDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADK 285 (296)
Q Consensus 247 LDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~ 285 (296)
||+||||||+|+|++|||+|+||||++|++|+|+||+|+
T Consensus 238 LDlIGDL~L~G~pi~G~i~a~k~GH~ln~~l~k~l~~dk 276 (276)
T pfam03331 238 LDLIGDLYLLGVPVIGHFIAYKSGHSLNNQLVQKILADQ 276 (276)
T ss_pred HHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHCCC
T ss_conf 888878986599836999998787699999999987389
No 3
>COG0774 LpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=0 Score=775.87 Aligned_cols=284 Identities=48% Similarity=0.797 Sum_probs=276.4
Q ss_pred CCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCC-EEEEEEHHHH
Q ss_conf 017110751999999703797789999837888718999805688886263109986663220134763-1588648998
Q gi|254781175|r 8 RLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSS-SCQVRTIEHL 86 (296)
Q Consensus 8 ~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~-~~~V~TVEHL 86 (296)
++|+||+++|+++|||||||++++++|+||++|+||+|+|+|+++ .+.|||.+++|.+|.+||+|+++ +++|+|||||
T Consensus 2 ~~Q~Tlk~~v~~~GVGlHsG~~v~ltl~Pa~a~tGIvF~R~dl~~-~~~ipA~~~~V~~T~l~T~L~~~~~~~I~TVEHL 80 (300)
T COG0774 2 MKQRTLKRIVSLTGVGLHSGKKVTLTLRPAPANTGIVFRRTDLNP-PVEIPADAENVRDTMLSTTLGNDHGVRISTVEHL 80 (300)
T ss_pred CHHHHHHCCEEEEEEEECCCCEEEEEEEECCCCCCEEEEECCCCC-CCCCCCCHHHHHCCCEEEEECCCCCCEEEEHHHH
T ss_conf 203222211588878841695789998635899817999825997-6433566888313520334148888468539999
Q ss_pred HHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEE
Q ss_conf 99998720005999964887830058289999988544554447875147704634998177146541476633789997
Q gi|254781175|r 87 MAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGESWAEFSPHCSMRFEISIE 166 (296)
Q Consensus 87 LAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~id 166 (296)
||||+||||||++||+||||+|||||||.+||++|++||+++|+++++|++|++||+|+++++|+.+.|+|+++++|+||
T Consensus 81 maAl~~lgIDN~~Iev~g~EiPImDGSa~~Fv~li~~aGi~~q~a~~~~irI~~pV~v~~gdk~~~~~P~dg~r~~~~Id 160 (300)
T COG0774 81 MAALAGLGIDNLIIEVDGPEIPIMDGSAAPFVELIDEAGIKEQNAKKKFIRIKKPVRVEDGDKWAEFTPYDGFRLSYTID 160 (300)
T ss_pred HHHHHHCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHCCHHHCCCCCEEEEECCEEEEECCEEEEEECCCCCEEEEEEE
T ss_conf 99998579864899965886764578628999999971831110620069971468996099899986078827999996
Q ss_pred ECCCCCCC--CCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHH
Q ss_conf 08843130--0023455457789851465032220257888642000321334645641377331067747899720011
Q gi|254781175|r 167 FKNSIIGF--QKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRH 244 (296)
Q Consensus 167 f~~~~Ig~--Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRH 244 (296)
|+||+||+ |+|+++.+.++|.+|||+||||||++|+|+||++||++|||||||+|+++ ++|+|++||||+ ||||||
T Consensus 161 F~~p~Ig~~~q~~~~~~~~~sf~~eIa~ARTFGF~~dvE~L~~~gLalGGSleNaiVidd-~~vlN~~gLRf~-dEfVRH 238 (300)
T COG0774 161 FDHPAIGRQWQSFEFDFSAESFRKEIARARTFGFMRDVEYLRSKGLALGGSLENAIVIDD-DRVLNPEGLRFE-DEFVRH 238 (300)
T ss_pred CCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEECC-CCEECCCCCCCC-CCCHHH
T ss_conf 478454774325688404467898864430420299999999769554554343499778-842678676478-851256
Q ss_pred HHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCEEEECC
Q ss_conf 48999898997599646899997788089999999998096671566207
Q gi|254781175|r 245 KTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYEIVDDH 294 (296)
Q Consensus 245 KiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~~v~~~ 294 (296)
|+||+||||||+|+|++|||.|||+||++|++|+|+|++|+.+||+|+-.
T Consensus 239 KiLDaiGDL~l~G~p~~g~f~ayk~gH~lN~~l~k~iLad~~a~e~v~~~ 288 (300)
T COG0774 239 KILDAIGDLYLLGHPIIGAFTAYKSGHALNNALLKAILADQTAYEIVTFA 288 (300)
T ss_pred HHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHHCCCHHEEEECC
T ss_conf 67776524876388634789986042077899999987173010787458
No 4
>PRK13188 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed
Probab=100.00 E-value=0 Score=767.50 Aligned_cols=275 Identities=37% Similarity=0.564 Sum_probs=261.1
Q ss_pred CCCCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHH
Q ss_conf 00017110751999999703797789999837888718999805688886263109986663220134763158864899
Q gi|254781175|r 6 IGRLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEH 85 (296)
Q Consensus 6 ~~~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEH 85 (296)
|-.+|+||+++++|+|||||||++|+|+|+|||+||||+|+|+|+++ .+.|+|+++||++|.|||+|+++|++|+||||
T Consensus 1 Mm~~Q~Ti~~~vs~~GiGLHsG~~v~ltl~PA~~~tGIvF~R~Dl~~-~~~I~A~~~~V~~t~l~TtL~~~g~~V~TVEH 79 (465)
T PRK13188 1 MMIKQRTLKEEVSLSGKGLHTGKEVTITFKPAPVNHGYKFKRTDLEG-QPEIPALVDNVVDVLRGTTIGKNGVKVHTVEH 79 (465)
T ss_pred CCCCCCCCCCCEEEEEEEECCCCEEEEEEEECCCCCCEEEEECCCCC-CCEEEECHHHCCCCCCCCEECCCCEEEEEHHH
T ss_conf 98664356872799999806895788999948999868999845899-96788536542467552387579979974899
Q ss_pred HHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECC--EEEEEECCCCCEEEE
Q ss_conf 899998720005999964887830058289999988544554447875147704634998177--146541476633789
Q gi|254781175|r 86 LMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGE--SWAEFSPHCSMRFEI 163 (296)
Q Consensus 86 LLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~--~~i~~~P~~~l~i~~ 163 (296)
|||||+|||||||+||+||+|+|||||||.+||++|++||+++|+++|++++|++||+|++++ +++.+.|+++|+++|
T Consensus 80 LmAAL~glgIDN~~IEidg~EvPIlDGSA~~Fv~~I~~aGi~eq~~~rk~~~I~~pv~v~d~~~~~~i~~~P~d~~~it~ 159 (465)
T PRK13188 80 VLAALYGLGIDNCLIELNGPEPPIMDGSSMPFVEAIERAGIVEQDAPRNYYVIKETIEYHDEENGSSIIALPLDNFRVTV 159 (465)
T ss_pred HHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHHCCEECCCCCEEEEECCCEEEEECCCCEEEEECCCCCEEEEE
T ss_conf 99999858971599997998388537878999999997286204576305996575499948995899984788728999
Q ss_pred EEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECC------------------
Q ss_conf 99708843130002345545778985146503222025788864200032133464564137------------------
Q gi|254781175|r 164 SIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISED------------------ 225 (296)
Q Consensus 164 ~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~------------------ 225 (296)
+|||++++||+|+ ++..++++|.+|||+||||||++|+|+|+++||+||||||||+|+.++
T Consensus 160 ~Idf~~~~ig~Q~-~~~~~~~~f~~eIa~ARTF~f~~eve~L~~~GL~kGGSLdNAiVi~d~~i~~~~~~~l~~~~~~~~ 238 (465)
T PRK13188 160 MVDYKSPVLGSQF-ATLFDLSEFKKEIAPSRTFVFLSEVEPLLEQGLIKGGDLDNAIVIVDKEMSQEELDKLAKKMGVDH 238 (465)
T ss_pred EEECCCCCCCEEE-EEECCHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCC
T ss_conf 9978997221236-452384667998642362433999999997697557776660687166456567888888609872
Q ss_pred -----CCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHC
Q ss_conf -----7331067747899720011489998989975996468999977880899999999980
Q gi|254781175|r 226 -----DQVMNHGGLRYSGEEFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFA 283 (296)
Q Consensus 226 -----~~i~n~~~LR~~~dE~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~ 283 (296)
++++|+++|||+ |||||||+||+||||||+|+||+|||+|+||||++|++|+|+|.+
T Consensus 239 ~~v~~~giln~~~LRf~-dE~vRHKiLDlIGDLaL~G~pi~G~iiA~k~GH~lN~~~~k~l~k 300 (465)
T PRK13188 239 LDVGENGILNNRPLRFP-NEPARHKLLDLIGDLALLGKPIKGRIIATRPGHASNVEFAKKLKK 300 (465)
T ss_pred EEECCCEEECCCCCCCC-CCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHH
T ss_conf 66347727768988887-842013576766669864886079999988883899999999999
No 5
>PRK13187 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed
Probab=100.00 E-value=0 Score=734.66 Aligned_cols=282 Identities=33% Similarity=0.554 Sum_probs=267.1
Q ss_pred CCCHHHCCEEEEEEEEECCCCEEEEEEEECCCC---CCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCC-CEEEEEEH
Q ss_conf 017110751999999703797789999837888---71899980568888626310998666322013476-31588648
Q gi|254781175|r 8 RLQHTIADSITITGIGIHSGKRANLKLCPAPEG---VGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGS-SSCQVRTI 83 (296)
Q Consensus 8 ~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~---~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~-~~~~V~TV 83 (296)
.+|+||+++++|+|||||||++|+|+|+|||+| +||+|+|+|.+...+.|||.+.++.+|.+||+|.+ ++++|+||
T Consensus 9 ~kQ~Ti~~~vs~~GiGLHsG~~v~v~l~PA~~~~~~tGI~F~R~d~~~~~~~ipa~~~~~~~t~l~T~l~~~~gv~V~TV 88 (305)
T PRK13187 9 TSQGTLARPLTIDGHGLHTGRRVGVRILPARPEDGVTGIVFRRVEQGRTLATLPVDPALRRAQPLCTMLRNADGVGVRTV 88 (305)
T ss_pred CCCCCCCCCEEEEEEEECCCCEEEEEEEECCCCCCCEEEEEEEECCCCCCCEEECCCCEECCCCCEEEEECCCCCEEEEH
T ss_conf 87736487079999982579778899996998989766999990599976154242103456512436555898699619
Q ss_pred HHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCE----EEEEECCCCC
Q ss_conf 998999987200059999648878300582899999885445544478751477046349981771----4654147663
Q gi|254781175|r 84 EHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGES----WAEFSPHCSM 159 (296)
Q Consensus 84 EHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~----~i~~~P~~~l 159 (296)
|||||||+|||||||+||+||+|+|||||||++||++|++||+++|+++|++++|++||+|+++++ ++.++|+++|
T Consensus 89 EHLmAAL~glgIDN~~Ieidg~EvPIlDGSa~~fv~~i~~aGi~~q~~~r~~~~i~kpi~v~~~~~~~~~~i~~~P~~~~ 168 (305)
T PRK13187 89 EHLLASLLACEIDHAIVELDAEEVPILDGSATPWVDAIRACGRVALDAPKRFIRVLRTVVVTDGEGEQRREMRIEPAPRY 168 (305)
T ss_pred HHHHHHHHHCCCCEEEEEECCCCCCCCCCCHHHHHHHHHHCCCEECCCCCEEEEECCCEEEEECCCCEEEEEEECCCCCC
T ss_conf 99999999759845999958997871368629999998744856458862069988609999589520137997468984
Q ss_pred EEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHH------HHHCCCCCCCCCCCCEEEECCCCEECCCC
Q ss_conf 378999708843130002345545778985146503222025788------86420003213346456413773310677
Q gi|254781175|r 160 RFEISIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVER------YRKAGCALGASLENSVVISEDDQVMNHGG 233 (296)
Q Consensus 160 ~i~~~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~------L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~ 233 (296)
+++|++||++ ||+|+|++.+++++|.+|||+||||||++|++. |+++||++||||+||+|+.+ ++++| |
T Consensus 169 ~it~~id~~~--ig~q~~~~~~~~~~f~~eIa~ARTFgf~~~v~~l~~~g~l~~~~L~~Ggsl~na~v~~~-~~vln--g 243 (305)
T PRK13187 169 ELSVRNDLRG--FGEMHWDGALTPAAFATEIAPSRSYGRVKWAVPAILAGYLRGVPILRGARPSCTASIVG-KRVLG--G 243 (305)
T ss_pred EEEEEECCCC--CCEEEEEEEECHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCEEEEEC-CCEEC--C
T ss_conf 7999960445--45174014317256665403343278799889887644553051552767444189868-84306--7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCEEEECCC
Q ss_conf 47899720011489998989975996468999977880899999999980966715662078
Q gi|254781175|r 234 LRYSGEEFVRHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYEIVDDHG 295 (296)
Q Consensus 234 LR~~~dE~vRHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~~v~~~~ 295 (296)
|||+ |||||||+||+||||||+|+|++|||+|+|+||++|++|+|+||+|++|||+||..-
T Consensus 244 LR~~-dE~vRHKiLDlIGDL~L~G~pi~G~i~a~k~GH~lN~~l~~~l~~~~~~~~~v~~~~ 304 (305)
T PRK13187 244 MRLP-DEFVRHRVLDLVGDLALAGAPLLARVSALRPSHEMNFRLVDALLAEPGAWQWADFSE 304 (305)
T ss_pred CCCC-CCCCCHHHHHHHHHHHHCCCCEEEEEEEECCCHHHHHHHHHHHHCCCCCEEEEEECC
T ss_conf 7477-815042467776679864997079999986865999999999973987558998026
No 6
>TIGR00325 lpxC UDP-3-0-acyl N-acetylglucosamine deacetylase; InterPro: IPR004463 UDP-3-O-N-acetylglucosamine deacetylases are zinc-dependent metalloamidases that catalyse the second and committed step in the biosynthesis of lipid A. Lipid A anchors lipopolysaccharide (the major constituent of the outer membrane) into the membrane in Gram negative bacteria. LpxC shows no homology to mammalian metalloamidases and is essential for cell viability, making it an important target for the development of novel antibacterial compounds . The structure of UDP-3-O-N-acetylglucosamine deacetylase (LpxC) from Aquifex aeolicus has a two-layer alpha/beta structure similar to that of the second domain of ribosomal protein S5, only in LpxC there is a duplication giving two structural repeats of this fold, each repeat being elaborated with additional structures forming the active site. LpxC contains a zinc-binding motif, which resides at the base of an active site cleft and adjacent to a hydrophobic tunnel occupied by a fatty acid . This tunnel accounts for the specificity of LpxC toward substrates and inhibitors bearing appropriately positioned 3-O-fatty acid substituents . This entry represents the UDP-3-O-N-acetylglucosamine deacetylase family of proteins.; GO: 0008759 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase activity, 0009245 lipid A biosynthetic process.
Probab=100.00 E-value=0 Score=444.00 Aligned_cols=283 Identities=38% Similarity=0.655 Sum_probs=275.7
Q ss_pred CCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCC-EEEEEEHHHH
Q ss_conf 017110751999999703797789999837888718999805688886263109986663220134763-1588648998
Q gi|254781175|r 8 RLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSS-SCQVRTIEHL 86 (296)
Q Consensus 8 ~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~-~~~V~TVEHL 86 (296)
..|+|++.++...|+|+|+|.+++++++|+.+++|++|.|+|+++ .+.+|+...++.++.+||.+++. +.+++|+||+
T Consensus 2 ~~~~~~~~~~~~~g~g~~~g~~~~~~~~p~~~~~g~~~~~~d~~~-~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (307)
T TIGR00325 2 LKGRTLKAPLELTGVGLHSGVPVTLTLRPLGANTGVVFYRTDLGP-PVNLPADPEWVRDTLLCTELGNPHGARISTVEHL 80 (307)
T ss_pred CCCCCCCCCEEEEEECCCCCCEEEEEEECCCCCCCEEEEECCCCC-CCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHH
T ss_conf 643000120134420012573047886204667733787425786-4346665135666666554314346420357777
Q ss_pred HHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCC--CCCCEEEECCCEEEEECCEEEEEECCCCCEEEEE
Q ss_conf 99998720005999964887830058289999988544554447--8751477046349981771465414766337899
Q gi|254781175|r 87 MAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLT--AKRRYLRIIKSVRITSGESWAEFSPHCSMRFEIS 164 (296)
Q Consensus 87 LAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~--~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~ 164 (296)
++++.++||||+.|+++++|+|++|||+.+|+.++.++|+.+++ .+++++.+++++.++++++|+.+.|+.+++++|+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~p~~dg~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~p~~~~~~~~~ 160 (307)
T TIGR00325 81 LAALAGLGIDNLKIEVDGPEIPLLDGSALPFLYLLLDAGIKELNKKAPKKPIRIKDPVRVEDGDKFVEFKPYNGLRLDFT 160 (307)
T ss_pred HHHHHHCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHCCCCHHHHHCCCCEEEEECEEEECCCCCEEEECCCCCCEEEEE
T ss_conf 77775426342378526763421145224677777650642001110112033201012102332112204554124432
Q ss_pred EEECCCCCCC--CCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCC
Q ss_conf 9708843130--00234554577898514650322202578886420003213346456413773310677478997200
Q gi|254781175|r 165 IEFKNSIIGF--QKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFV 242 (296)
Q Consensus 165 idf~~~~Ig~--Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~v 242 (296)
+||+++.+++ |++.+..+.+.|..++++||||||.++++++++.|+++||+++|++++ ++.+|+|++||||+ ||++
T Consensus 161 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~g~~~gg~~~~~~~~-d~~~~~~~~g~~~~-~~~~ 238 (307)
T TIGR00325 161 IDFNHPPIGKDNQWYTWNFSAEAFAEQIAPARTFGFLDDIEYLRSAGLVKGGSLDNALVL-DDYRWLNPDGLRFE-DEFV 238 (307)
T ss_pred ECCCCCCCCCCCCCEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEE-CCCCCCCCCCCCCC-HHHH
T ss_conf 045632234332100103215678877554444344788888764000114654431452-11000375666563-1456
Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHCCCCCCEEEEC
Q ss_conf 114899989899759964689999778808999999999809667156620
Q gi|254781175|r 243 RHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMALCTLFADKDSYEIVDD 293 (296)
Q Consensus 243 RHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~~~l~~~~~~~~~v~~ 293 (296)
|||+||++||++++|.++.|++.++++||.+|.+++++++++..+|+++..
T Consensus 239 ~~~~~d~~gd~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (307)
T TIGR00325 239 RHKLLDALGDLSLLGKPPLGKFTAYKGGHKLNNKLLKAVLADYEAWEFLTF 289 (307)
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHCEEEEE
T ss_conf 777777642355514310100111002102468899988631211023441
No 7
>cd01684 Tet_like_IV EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit the accommodation of aminoacyl-tRNA into ribosomal A site and therefore prevent the addition of new amino acids to the growing polypeptide. RPPs Tet(M) confer tetracycline resistance by releasing tetracycline from the ribosome and thereby freeing the ribosome from inhibitory effects of the drug, such that aa-tRNA can bind to the A site and protein synthesis can continue.
Probab=93.53 E-value=0.67 Score=26.27 Aligned_cols=96 Identities=16% Similarity=0.204 Sum_probs=61.1
Q ss_pred CCHHHCCEEEEEEEEECCC----CEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHH
Q ss_conf 1711075199999970379----778999983788871899980568888626310998666322013476315886489
Q gi|254781175|r 9 LQHTIADSITITGIGIHSG----KRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIE 84 (296)
Q Consensus 9 ~Q~Ti~~~v~~~GiGLHsG----~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVE 84 (296)
++-||.+++.-.|.=-..| -.+.+++.|.+.++|+.|.- .+.+. .||..+-.-+......++.++
T Consensus 3 YrETI~~~~eg~~~~~~~g~~~fa~V~l~veP~~~g~G~~F~~-~i~gg--~iP~~f~~ave~Gv~eal~~G-------- 71 (115)
T cd01684 3 YKERPLGTGEGVEHIEVPPNPFWATVGLRVEPLPRGSGLQYES-EVSLG--SLPRSFQNAVEETVRETLQQG-------- 71 (115)
T ss_pred EEECCCCCEEEEEEEECCCCCCCEEEEEEEEECCCCCCCEEEE-EEECC--CCCHHHHHHHHHHHHHHHHCC--------
T ss_conf 7811487288999981599983169999998899999888988-76088--479889999999999999529--------
Q ss_pred HHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHH
Q ss_conf 989999872000599996488783005828999998
Q gi|254781175|r 85 HLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEV 120 (296)
Q Consensus 85 HLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~ 120 (296)
+.|+-+.++.|.+-....=-.|-|+..|-.+
T Consensus 72 -----v~Gypv~DvkVtL~dG~~h~vdSs~~aF~~A 102 (115)
T cd01684 72 -----LYGWEVTDCKVTLTYGRYHSPVSTAADFREL 102 (115)
T ss_pred -----CCCCCEEEEEEEEEECCCCCCCCCHHHHHHH
T ss_conf -----8888774589999816304887888899999
No 8
>cd01680 EFG_like_IV Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily conserved U5 snRNP-specific protein (U5-116kD). In complex with GTP, EF-G/EF-2 promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site of the small subunit of ribosome and the mRNA is shifted one codon relative to the ribosome. It has been shown that EF-G/EF-2_IV domain mimics the shape of anticodon arm of the tRNA in the structurally homologous ternary complex of Petra, EF-Tu (another transcriptional elongation factor) and GTP analog. The tip portion of this domain is found in a position that overlaps the anticodon arm of the A-site tRNA, implying that EF-G/EF-2 displaces the A-site tRNA to the P-site by physical interaction with the anticodon arm.
Probab=85.20 E-value=3.3 Score=21.94 Aligned_cols=95 Identities=17% Similarity=0.225 Sum_probs=61.0
Q ss_pred CCHHHCCEEEEEEEEECCC--------CEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEE
Q ss_conf 1711075199999970379--------77899998378887189998056888862631099866632201347631588
Q gi|254781175|r 9 LQHTIADSITITGIGIHSG--------KRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQV 80 (296)
Q Consensus 9 ~Q~Ti~~~v~~~GiGLHsG--------~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V 80 (296)
|+-||.+++..+| .|.- ..|.+++.|.+.+.|+.|. ....+ ..||..+-..+.....-.+..|
T Consensus 1 YRETI~~~~~~~~--~~~rq~gg~~q~a~V~l~veP~~~g~g~~f~-~~~~~--~~ip~~~~~ave~gv~~~~~~G---- 71 (116)
T cd01680 1 YRETIRKSVEATG--EFERELGGKPQFGEVTLRVEPLERGSGVRVV-DPVDE--ELLPAELKEAVEEGIRDACASG---- 71 (116)
T ss_pred CCCCCCCCEEEEE--EEEECCCCCCCEEEEEEEEEECCCCCCCEEE-ECCCC--CCCCHHHHHHHHHHHHHHHHCC----
T ss_conf 9666786179999--9840459998478999999989889874896-14778--8479999999999999999759----
Q ss_pred EEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHH
Q ss_conf 6489989999872000599996488783005828999998
Q gi|254781175|r 81 RTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEV 120 (296)
Q Consensus 81 ~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~ 120 (296)
-|.|+-+.|+.|.|-+.+.--.|=|...|--+
T Consensus 72 --------~l~G~Pv~dvkV~L~~g~~h~~dSse~aF~~A 103 (116)
T cd01680 72 --------PLTGYPLTDVRVTVLDVPYHEGVSTEAGFRAA 103 (116)
T ss_pred --------CCCCCCEEEEEEEEEECCCCCCCCCHHHHHHH
T ss_conf --------81588266079999945887898899999999
No 9
>TIGR01021 rpsE_bact ribosomal protein S5; InterPro: IPR005712 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This family includes chloroplast ribosomal protein S5 as well as bacterial ribosomal protein S5. A candidate mitochondrial form (Saccharomyces cerevisiae YBR251W and its homolog) differs substantially and is not included in this model.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=83.87 E-value=1.3 Score=24.51 Aligned_cols=48 Identities=25% Similarity=0.499 Sum_probs=33.9
Q ss_pred CCCCCCCCCH-HHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHH
Q ss_conf 4111000171-1075199999970379778999983788871899980568888626310998
Q gi|254781175|r 2 EMLQIGRLQH-TIADSITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSN 63 (296)
Q Consensus 2 ~~~~~~~~Q~-Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~ 63 (296)
+|+.+...+. ||.-+|. |-|.+ ++|-|+||.++|||+= ++ .++|..+.
T Consensus 63 nl~~Vp~~~~~tI~H~V~----G~~~a--a~vllkPA~~GTGvIA-----GG---a~RavlE~ 111 (157)
T TIGR01021 63 NLIKVPLVKGNTIPHEVI----GKSGA--AKVLLKPASPGTGVIA-----GG---AVRAVLEL 111 (157)
T ss_pred CEEEEEEECCCEEECCEE----EEECC--EEEEEECCCCCCCEEE-----CC---CHHHHHHH
T ss_conf 517888608974502148----87778--2899865899895794-----77---45788775
No 10
>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE. This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.
Probab=83.52 E-value=2.7 Score=22.48 Aligned_cols=88 Identities=18% Similarity=0.294 Sum_probs=57.7
Q ss_pred EEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCC-CCEEEEEEHHHHHHHHHHHHHE
Q ss_conf 999997037977899998378887189998056888862631099866632201347-6315886489989999872000
Q gi|254781175|r 18 TITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIG-SSSCQVRTIEHLMAALYAYGID 96 (296)
Q Consensus 18 ~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~-~~~~~V~TVEHLLAAL~glgID 96 (296)
|++|=|.+.|+++ +|+|. .+.+ +...| .||..+-.=. ++.....|+|.+++.+..++-+
T Consensus 12 SiQGEG~~~G~p~-------------vFvR~--~GCn--l~C~~---CDT~y~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 71 (238)
T TIGR03365 12 TIQGEGMVIGQKT-------------MFVRT--GGCD--YRCSW---CDSLFTWDGSAKDTWRPMTAEEVWQELKALGGG 71 (238)
T ss_pred CCCCCCCCCCCEE-------------EEEEE--CCCC--CCCCC---CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf 5567881337318-------------99940--8989--86765---898876178788775637899999999983489
Q ss_pred EE-EEEECCCCCCCCCCCHHHHHHHHHHCCC
Q ss_conf 59-9996488783005828999998854455
Q gi|254781175|r 97 NV-IIEIDSTEVPIMDGSAKAFVEVIERIGI 126 (296)
Q Consensus 97 N~-~Ieidg~EiPIlDGSA~~fv~~i~~aGi 126 (296)
+. .|.+-|.|+ .|--.-.++++.+.+.|.
T Consensus 72 ~~~~V~iTGGEP-llq~~~~~L~~~l~~~g~ 101 (238)
T TIGR03365 72 TPLHVSLSGGNP-ALQKPLGELIDLGKAKGY 101 (238)
T ss_pred CCCEEEECCCCH-HHHCCHHHHHHHHHHCCC
T ss_conf 861899459983-444189999999985798
No 11
>cd01434 EFG_mtEFG1_IV EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provi
Probab=76.79 E-value=6.5 Score=20.10 Aligned_cols=96 Identities=19% Similarity=0.282 Sum_probs=64.0
Q ss_pred CCHHHCCEEEEEEEEEC------CCC--EEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEE
Q ss_conf 17110751999999703------797--7899998378887189998056888862631099866632201347631588
Q gi|254781175|r 9 LQHTIADSITITGIGIH------SGK--RANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQV 80 (296)
Q Consensus 9 ~Q~Ti~~~v~~~GiGLH------sG~--~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V 80 (296)
++-||.+++.+++ .| .|. .|.+++.|.+.++|+.|. ..+.+. .||..+-..+.......+..+
T Consensus 1 YRETI~~~~~~~~--~~~kq~GG~gqfa~V~l~ieP~~~g~g~~F~-~~i~gg--~iP~e~i~avekGv~ea~~~G---- 71 (116)
T cd01434 1 YRETITKPAEFEY--RHKKQSGGAGQYGHVVLEIEPLPRGSGFEFV-NKIVGG--AIPKEYIPAVEKGFREALEKG---- 71 (116)
T ss_pred CCCCCCCCEEEEE--EEEECCCCCCCEEEEEEEEEECCCCCCCEEE-EECCCC--CCCHHHHHHHHHHHHHHHHCC----
T ss_conf 9656666468989--9976159997325999999988899974898-632699--699999999999999998268----
Q ss_pred EEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHH
Q ss_conf 64899899998720005999964887830058289999988
Q gi|254781175|r 81 RTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVI 121 (296)
Q Consensus 81 ~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i 121 (296)
-|.|+-+.|+.|.|-+.+.=-.|-|.+.|--+=
T Consensus 72 --------~l~G~pv~dvkv~L~dG~~H~vdSse~AF~~Aa 104 (116)
T cd01434 72 --------PLAGYPVVDVKVTLYDGSYHDVDSSEMAFKIAA 104 (116)
T ss_pred --------CCCCCEEEEEEEEEECCCCCCCCCCHHHHHHHH
T ss_conf --------744752789999997155123878888999999
No 12
>pfam03719 Ribosomal_S5_C Ribosomal protein S5, C-terminal domain.
Probab=69.87 E-value=3.9 Score=21.48 Aligned_cols=17 Identities=41% Similarity=0.706 Sum_probs=14.9
Q ss_pred EEEEEEEECCCCCCEEE
Q ss_conf 78999983788871899
Q gi|254781175|r 29 RANLKLCPAPEGVGILF 45 (296)
Q Consensus 29 ~~~i~l~PA~~~~GI~F 45 (296)
.++|.++|||+++||+=
T Consensus 7 s~~V~l~PAp~GtGiia 23 (74)
T pfam03719 7 AVKVLLKPAPPGTGIIA 23 (74)
T ss_pred CEEEEEEECCCCCEEEE
T ss_conf 28999998899972880
No 13
>PRK00550 rpsE 30S ribosomal protein S5; Validated
Probab=66.63 E-value=7.9 Score=19.60 Aligned_cols=36 Identities=33% Similarity=0.616 Sum_probs=18.2
Q ss_pred CCCCCCCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEE
Q ss_conf 111000171107519999997037977899998378887189
Q gi|254781175|r 3 MLQIGRLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGIL 44 (296)
Q Consensus 3 ~~~~~~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~ 44 (296)
|+.+.+.-+||-.++. |=+.+ ++|.++|||.++|++
T Consensus 66 l~~V~~~~~Tiph~v~----gk~~~--~kV~l~Pap~G~Gl~ 101 (156)
T PRK00550 66 MIKVPLVGGTIPHEVK----GKHGA--AKVLLKPASEGTGVI 101 (156)
T ss_pred EEEEEECCCEEEEEEE----EEECC--EEEEEEECCCCCCEE
T ss_conf 8999913998988898----89863--899999679995578
No 14
>COG0098 RpsE Ribosomal protein S5 [Translation, ribosomal structure and biogenesis]
Probab=66.43 E-value=11 Score=18.63 Aligned_cols=39 Identities=33% Similarity=0.560 Sum_probs=21.5
Q ss_pred CCCCCCCCCHHHCCEEEEEEEEECCCCEEEEEEEECCCCCCEEE
Q ss_conf 41110001711075199999970379778999983788871899
Q gi|254781175|r 2 EMLQIGRLQHTIADSITITGIGIHSGKRANLKLCPAPEGVGILF 45 (296)
Q Consensus 2 ~~~~~~~~Q~Ti~~~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F 45 (296)
+|+.+.+.+. .++.++-.|=|.+ +++.|.|||+++||+=
T Consensus 83 nii~V~~~~~---~Tiph~v~Gk~g~--~~V~L~PA~~GtGiiA 121 (181)
T COG0098 83 NIIEVPRGNG---HTIPHEVIGKHGA--VKVLLKPAPEGTGIIA 121 (181)
T ss_pred CEEEEECCCC---CEEEEEEEEEECC--EEEEEEECCCCCEEEE
T ss_conf 7699854799---6462687888784--8999987899854884
No 15
>PRK04044 rps5p 30S ribosomal protein S5P; Reviewed
Probab=65.67 E-value=5.3 Score=20.66 Aligned_cols=18 Identities=22% Similarity=0.158 Sum_probs=8.0
Q ss_pred CEEEECCCEEEEECCEEE
Q ss_conf 147704634998177146
Q gi|254781175|r 134 RYLRIIKSVRITSGESWA 151 (296)
Q Consensus 134 ~~~~i~~~v~v~~~~~~i 151 (296)
+.+.|...-.+.++++..
T Consensus 54 eVl~I~~VqK~T~~Grr~ 71 (211)
T PRK04044 54 EVLDINMVQRMTDSGRRV 71 (211)
T ss_pred HEEEEEEEEEEEECCCCE
T ss_conf 348875567875078513
No 16
>TIGR01020 rpsE_arch ribosomal protein S5; InterPro: IPR005711 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This model finds eukaryotic ribosomal protein S2 as well as archaeal ribosomal protein S5.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=63.94 E-value=5.8 Score=20.42 Aligned_cols=68 Identities=25% Similarity=0.287 Sum_probs=39.7
Q ss_pred EEEEEEEEECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHH
Q ss_conf 19999997037977899998378887189998056888862631099866632201347631588648998999987200
Q gi|254781175|r 16 SITITGIGIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMAALYAYGI 95 (296)
Q Consensus 16 ~v~~~GiGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLAAL~glgI 95 (296)
|+.++|. || .|.|+|.|||-+.|++- -|... .-.--|-++-|++.+++-|=. |+==-+|++.+|--
T Consensus 138 PfkV~Gk---~G-SV~V~LiPAP~G~GLVa--GDV~K-~~L~LAGI~DVWt~T~G~T~T-------t~NFAkAtF~Al~~ 203 (220)
T TIGR01020 138 PFKVSGK---SG-SVRVRLIPAPKGVGLVA--GDVAK-KVLRLAGIKDVWTQTRGETRT-------TVNFAKATFEALKK 203 (220)
T ss_pred CEEEEEC---CC-EEEEEEECCCCCCEEEE--CCHHH-HHHHHCCCCEEEECCCCCCCC-------CCHHHHHHHHHHHH
T ss_conf 4565000---00-48999874999623887--46446-887745962354045560223-------30388999999987
Q ss_pred EE
Q ss_conf 05
Q gi|254781175|r 96 DN 97 (296)
Q Consensus 96 DN 97 (296)
.|
T Consensus 204 t~ 205 (220)
T TIGR01020 204 TY 205 (220)
T ss_pred HH
T ss_conf 42
No 17
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=62.53 E-value=5.2 Score=20.71 Aligned_cols=42 Identities=38% Similarity=0.455 Sum_probs=27.9
Q ss_pred EEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCC-CCHHHHHHHHHH
Q ss_conf 886489989999872000599996488783005-828999998854
Q gi|254781175|r 79 QVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMD-GSAKAFVEVIER 123 (296)
Q Consensus 79 ~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlD-GSA~~fv~~i~~ 123 (296)
+=+|.|||| ||.-+||.|+.|--+- +-+.+ -.|++-++.|++
T Consensus 125 QPQT~EHl~-AleIigik~iiIvQNK--IDlV~~E~AlE~y~qIk~ 167 (415)
T COG5257 125 QPQTREHLM-ALEIIGIKNIIIVQNK--IDLVSRERALENYEQIKE 167 (415)
T ss_pred CCCHHHHHH-HHHHHCCCEEEEEECC--CCEECHHHHHHHHHHHHH
T ss_conf 973187788-7766265339999523--011159998887999999
No 18
>CHL00138 rps5 ribosomal protein S5; Validated
Probab=59.11 E-value=8.4 Score=19.41 Aligned_cols=16 Identities=31% Similarity=0.640 Sum_probs=8.8
Q ss_pred EEEEEEEECCCCCCEE
Q ss_conf 7899998378887189
Q gi|254781175|r 29 RANLKLCPAPEGVGIL 44 (296)
Q Consensus 29 ~~~i~l~PA~~~~GI~ 44 (296)
.+.|.+.|||+++||+
T Consensus 101 s~~V~l~Pap~G~Gli 116 (139)
T CHL00138 101 AAKVILRPSAPGSGVI 116 (139)
T ss_pred CEEEEEEECCCCCCEE
T ss_conf 3899999899998688
No 19
>TIGR01008 rpsC_E_A ribosomal protein S3; InterPro: IPR005703 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . Ribosomal protein S3 is one of the proteins from the small ribosomal subunit. This family describes ribosomal protein S3 of the eukaryotic cytosol and of the archaea.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=57.19 E-value=4.1 Score=21.37 Aligned_cols=65 Identities=18% Similarity=0.354 Sum_probs=47.3
Q ss_pred CCEEEEEEECCCCCCEEECCHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCC
Q ss_conf 7189998056888862631099866632201347631588648998999987200059999648878300582
Q gi|254781175|r 41 VGILFKCTQSGGITDSLSALWSNVLRTTLSTTIGSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGS 113 (296)
Q Consensus 41 ~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGS 113 (296)
+|.--++|-++- +-+|-|. .=+-.||.+|.+|+-.-.+|.--+-+|+.|--|+++-.|-|-||--
T Consensus 29 sgvdv~~TPlGT-~vii~Ae-------rPg~VIGr~G~rIr~LT~~l~~Rf~Fg~enPqi~V~~v~~P~L~A~ 93 (204)
T TIGR01008 29 SGVDVRKTPLGT-KVIIYAE-------RPGLVIGRGGRRIRELTEKLQKRFKFGLENPQIDVEEVENPELNAK 93 (204)
T ss_pred CCCEEEECCCCC-EEEEEEE-------CCCCEECCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCHH
T ss_conf 755168777896-7999983-------6863772797218899999987520589996587641789898888
No 20
>PTZ00070 40S ribosomal protein S2; Provisional
Probab=57.17 E-value=8.9 Score=19.25 Aligned_cols=21 Identities=19% Similarity=0.082 Sum_probs=14.2
Q ss_pred CCCCCCCCHHHHHHHHHHCCC
Q ss_conf 783005828999998854455
Q gi|254781175|r 106 EVPIMDGSAKAFVEVIERIGI 126 (296)
Q Consensus 106 EiPIlDGSA~~fv~~i~~aGi 126 (296)
-|=+--|.|++-..+|++|-+
T Consensus 118 ~VGlG~~kskEV~~AIrkAi~ 138 (261)
T PTZ00070 118 HIGLGAKVAKEVALAIRGAMI 138 (261)
T ss_pred CCCCCCCCCCHHHHHHHHHHH
T ss_conf 515551211014788999999
No 21
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=55.55 E-value=17 Score=17.52 Aligned_cols=46 Identities=20% Similarity=0.355 Sum_probs=32.2
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHH
Q ss_conf 7631588648998999987200059999648878300582899999885
Q gi|254781175|r 74 GSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIE 122 (296)
Q Consensus 74 ~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~ 122 (296)
+..|..-.|.||++.|- .+||.+++|.++--+. .|=|-.-|-+...
T Consensus 110 a~~G~~~QT~eh~~~~~-~lgi~~iIv~vNKmD~--v~~~e~~f~~i~~ 155 (208)
T cd04166 110 ARKGVLEQTRRHSYILS-LLGIRHVVVAVNKMDL--VDYSEEVFEEIVA 155 (208)
T ss_pred CCCCCCHHHHHHHHHHH-HCCCCEEEEEEECCCC--CCCCHHHHHHHHH
T ss_conf 58887278999999999-7499839999988576--8999899999999
No 22
>COG1685 Archaeal shikimate kinase [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=53.84 E-value=13 Score=18.22 Aligned_cols=69 Identities=26% Similarity=0.390 Sum_probs=48.4
Q ss_pred HHCCCCCCEEEEEEHHHHHHHH-HHHHHE-EEEEEECCCCCCCCCC--CHHHHHHHHHHCCCCCCCCCCCEEEE
Q ss_conf 2013476315886489989999-872000-5999964887830058--28999998854455444787514770
Q gi|254781175|r 69 LSTTIGSSSCQVRTIEHLMAAL-YAYGID-NVIIEIDSTEVPIMDG--SAKAFVEVIERIGIKTLTAKRRYLRI 138 (296)
Q Consensus 69 ~~T~L~~~~~~V~TVEHLLAAL-~glgID-N~~Ieidg~EiPIlDG--SA~~fv~~i~~aGi~eq~~~r~~~~i 138 (296)
.++..+......+-+|+++..+ .-+|+. ++.+++++ |+|+--| ||..++.++-+|=.+....+.+.+.+
T Consensus 40 ~~~~~~~~~~d~~li~~~~~~v~e~~g~~~~~~v~v~S-eiP~~~GLkSSSA~~nAlv~A~~~~~g~~~~~~~i 112 (278)
T COG1685 40 EGKVRGEPEGDTRLIERCVERVREKYGIPLGVEVEVES-EIPVGSGLKSSSAASNALVKAVLKALGEEIDDFEI 112 (278)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEEC-CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHH
T ss_conf 65313677787479999999999872988655999825-78766674245899999999999971898881488
No 23
>PRK00049 elongation factor Tu; Reviewed
Probab=53.29 E-value=19 Score=17.20 Aligned_cols=55 Identities=13% Similarity=0.243 Sum_probs=32.6
Q ss_pred EECCCCCCEEECCHHHHHHHHHHC-CC-CCCEEEEEEHHHHHHHHHHHHHEEEEEEEC
Q ss_conf 056888862631099866632201-34-763158864899899998720005999964
Q gi|254781175|r 48 TQSGGITDSLSALWSNVLRTTLST-TI-GSSSCQVRTIEHLMAALYAYGIDNVIIEID 103 (296)
Q Consensus 48 ~dl~~~~~~I~A~~~~V~~t~~~T-~L-~~~~~~V~TVEHLLAAL~glgIDN~~Ieid 103 (296)
.|.|+-...|+.-..-......+- .+ +++|..-+|-||++-|. .|||.++.|.++
T Consensus 81 iD~PGH~~fiknmI~Ga~~~D~alLVV~A~~G~~~QT~EHl~l~~-~LGv~~~iV~vn 137 (397)
T PRK00049 81 VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLAR-QVGVPYIVVFLN 137 (397)
T ss_pred ECCCCHHHHHHHHHHHHCCCCEEEEEEECCCCCCHHHHHHHHHHH-HHCCCEEEEEEE
T ss_conf 517863888999873012156799999748886652899999999-809982799998
No 24
>COG1859 KptA RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]
Probab=52.67 E-value=19 Score=17.14 Aligned_cols=49 Identities=24% Similarity=0.291 Sum_probs=35.4
Q ss_pred EEEHHHHHHHHHHHHH-----------------EEEEEEECCCCCC--CCCCCHHHHHHHHHHCCCCC
Q ss_conf 8648998999987200-----------------0599996488783--00582899999885445544
Q gi|254781175|r 80 VRTIEHLMAALYAYGI-----------------DNVIIEIDSTEVP--IMDGSAKAFVEVIERIGIKT 128 (296)
Q Consensus 80 V~TVEHLLAAL~glgI-----------------DN~~Ieidg~EiP--IlDGSA~~fv~~i~~aGi~e 128 (296)
=.|.|||.+......- =++.++..+.+.| ..-|+|..+++.|.+.||..
T Consensus 75 ~~~~~~l~~iV~~d~K~Rf~l~~~~IRA~yGHSi~V~l~~~~~~~p~~LyhGTs~~~l~~I~~~Gi~P 142 (211)
T COG1859 75 WLTRELLLAVVATDDKGRFELKEGKIRARYGHSIPVDLRLPEAEPPAVLYHGTSPEFLPSILEEGLKP 142 (211)
T ss_pred CCCHHHHHHHHHCCCCCEEEECCCCEEECCCCCEEEECCCCCCCCCCEEEECCCHHHHHHHHHHCCCC
T ss_conf 77999999998428875068416626640475357751477778986777357722357899846865
No 25
>KOG2097 consensus
Probab=50.31 E-value=9.2 Score=19.17 Aligned_cols=94 Identities=23% Similarity=0.239 Sum_probs=54.8
Q ss_pred CCCCCCCCCCHHHHHHHHCCCCEEEEEH----HH-----HHHHHCCCCCCCCCCCCEEEECCCCEECC-CCCCCCCCCCC
Q ss_conf 3000234554577898514650322202----57-----88864200032133464564137733106-77478997200
Q gi|254781175|r 173 GFQKWAGDLTQTVFRNEIYAARTFGFLR----DV-----ERYRKAGCALGASLENSVVISEDDQVMNH-GGLRYSGEEFV 242 (296)
Q Consensus 173 g~Q~~~~~~~~~~f~~eIa~ARTF~~~~----ei-----e~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~-~~LR~~~dE~v 242 (296)
+.|+|+++....-=.++||.-|.|-|+. |. .-|++-|.-+- -| |+..+.++ -|| .+|+.+ ++-|
T Consensus 183 n~~fw~~~di~nL~id~iaa~psFlFlW~gs~egl~lgrnclkkwgfRRc--Ed--icwvktnk-~np~ptl~~d-~ktv 256 (397)
T KOG2097 183 NMQFWTWDDIQNLPIDEIAAKPSFLFLWCGSGEGLDLGRNCLKKWGFRRC--ED--ICWVKTNK-NNPGPTLDLD-PKTV 256 (397)
T ss_pred CCEEECHHHHHCCCHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHCCCCH--HC--EEEEECCC-CCCCCCCCCC-HHHH
T ss_conf 74573388840575666416885399992683568888999988544221--01--57886367-8999765778-4999
Q ss_pred HHHHHHHHHHHHHCCCCEEEEEEEECCCCHHHHHHH
Q ss_conf 114899989899759964689999778808999999
Q gi|254781175|r 243 RHKTLDAIGDIALAGYPVIGCYRSCRGSHEINHMAL 278 (296)
Q Consensus 243 RHKiLDlIGDL~L~G~pi~g~i~a~k~GH~ln~~l~ 278 (296)
=.|.- .--|.| |+|.+.-.--||.+|...-
T Consensus 257 fqrtk----eHClMg--IkGTVrRSTDGh~IHaNVD 286 (397)
T KOG2097 257 FQRTK----EHCLMG--IKGTVRRSTDGHFIHANVD 286 (397)
T ss_pred HHHHH----HHHHHC--CCCEEEECCCCCEEEEECC
T ss_conf 99887----765330--2214773368865873045
No 26
>COG1854 LuxS LuxS protein involved in autoinducer AI2 synthesis [Signal transduction mechanisms]
Probab=50.27 E-value=6.8 Score=20.01 Aligned_cols=20 Identities=25% Similarity=0.519 Sum_probs=15.4
Q ss_pred EEEEEHHHHHHHHHHHHHEE
Q ss_conf 58864899899998720005
Q gi|254781175|r 78 CQVRTIEHLMAALYAYGIDN 97 (296)
Q Consensus 78 ~~V~TVEHLLAAL~glgIDN 97 (296)
..++|+|||||-+.--.++-
T Consensus 51 ~~iHTlEHL~A~~iR~h~~g 70 (161)
T COG1854 51 AGIHTLEHLLAGFIRNHLNG 70 (161)
T ss_pred CCHHHHHHHHHHHHHHCCCC
T ss_conf 21306999999999852457
No 27
>cd01693 mtEFG2_like_IV mtEF-G2 domain IV. This subfamily is a part the of mitochondrial transcriptional elongation factor, mtEF-G2. Mitochondrial translation is crucial for maintaining mitochondrial function and mutations in this system lead to a breakdown in the respiratory chain-oxidative phosphorylation system and to impaired maintenance of mitochondrial DNA. In complex with GTP, EF-G promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site of the small subunit of ribosome and the mRNA is shifted one codon relative to the ribosome.
Probab=48.23 E-value=23 Score=16.71 Aligned_cols=96 Identities=10% Similarity=0.192 Sum_probs=54.7
Q ss_pred CCHHHCCEEEEEEE------EECCCCEEEEEEEECCCCCCEEEEEEECCC-CCCEEECCHHHHHHHHHHCCCCCCEEEEE
Q ss_conf 17110751999999------703797789999837888718999805688-88626310998666322013476315886
Q gi|254781175|r 9 LQHTIADSITITGI------GIHSGKRANLKLCPAPEGVGILFKCTQSGG-ITDSLSALWSNVLRTTLSTTIGSSSCQVR 81 (296)
Q Consensus 9 ~Q~Ti~~~v~~~Gi------GLHsG~~~~i~l~PA~~~~GI~F~R~dl~~-~~~~I~A~~~~V~~t~~~T~L~~~~~~V~ 81 (296)
|+-||.++++.++. |-.--..+++++.|.+.+.|-.|. ..++. ....||..|-..+.......+.+|
T Consensus 3 YRETI~~~~~~~~~~~kq~GG~~q~a~V~l~veP~~~~~g~~~~-~~~~~~~~~~ip~~~i~AvekG~~~a~~~G----- 76 (120)
T cd01693 3 YRETILEPARATDTLEKVIGDKKHSVTVTMEVRPNQASSSPVEL-IELANSAIEVLLKRIQEAVENGVHSALLQG----- 76 (120)
T ss_pred CCCCCCCCEEEEEEEEEECCCCCCEEEEEEEEEECCCCCCCEEE-EEECCCCCCCCCHHHHHHHHHHHHHHHHCC-----
T ss_conf 30035752578999998649998489999999999899986379-974265588689889899999999999668-----
Q ss_pred EHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHH
Q ss_conf 48998999987200059999648878300582899999
Q gi|254781175|r 82 TIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVE 119 (296)
Q Consensus 82 TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~ 119 (296)
.|.|+-+.|+.|.|.+.+.= +|||-..+.
T Consensus 77 -------pl~GyPv~dv~v~L~~~~~~--~~sS~~~f~ 105 (120)
T cd01693 77 -------PLLGFPVQDVAITLHSLTIG--PGTSPTMIS 105 (120)
T ss_pred -------CCCCCCEEEEEEEEEECCCC--CCCCHHHHH
T ss_conf -------74688476389999824605--999799999
No 28
>COG1526 FdhD Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]
Probab=45.15 E-value=25 Score=16.41 Aligned_cols=64 Identities=22% Similarity=0.349 Sum_probs=44.0
Q ss_pred EEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHHH-HHHHHHHCCCCEEEEEEEEC
Q ss_conf 202578886420003213346456413773310677478997200114899-98989975996468999977
Q gi|254781175|r 198 FLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTLD-AIGDIALAGYPVIGCYRSCR 268 (296)
Q Consensus 198 ~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiLD-lIGDL~L~G~pi~g~i~a~k 268 (296)
.++.++..+..+- +-|++.+|..++.+|..+- .| .---||-.|| ++|-+.+-|.+..++|..+-
T Consensus 142 ~~~~l~~~q~~~~-~TG~~H~Aal~~~~g~l~~---~~---EDVGRHNAvDKliG~~~~~G~~~~~~vl~tS 206 (266)
T COG1526 142 ALKALEKAQPLYR-KTGGVHAAALFDPDGELLL---VR---EDVGRHNAVDKLIGRALLEGIPLSGKVLVTS 206 (266)
T ss_pred HHHHHHHHHHHHH-HHCCEEEEEEECCCCCEEE---EE---EECCCHHHHHHHHHHHHHCCCCCCCEEEEEC
T ss_conf 9999998548777-5275866889848997899---99---7434026899999999877997478699991
No 29
>pfam06123 CreD Inner membrane protein CreD. This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with an Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA.
Probab=43.99 E-value=14 Score=17.97 Aligned_cols=72 Identities=15% Similarity=0.278 Sum_probs=43.2
Q ss_pred HHEEE-EEEECCCCCCCCCCCHHHHHHHHHHCCCCCCC----CCCCEEEECCCEEEEECCEEEEEEC-CCCCEEEEEEEE
Q ss_conf 00059-99964887830058289999988544554447----8751477046349981771465414-766337899970
Q gi|254781175|r 94 GIDNV-IIEIDSTEVPIMDGSAKAFVEVIERIGIKTLT----AKRRYLRIIKSVRITSGESWAEFSP-HCSMRFEISIEF 167 (296)
Q Consensus 94 gIDN~-~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~----~~r~~~~i~~~v~v~~~~~~i~~~P-~~~l~i~~~idf 167 (296)
||++. .++++|.+++..-|++.+. ...|+..+- .....+...=.+.. +|...+.+.| .+..+++.+-|+
T Consensus 154 Gi~~~~~~~~~g~~l~~~pG~~~~~----~~~gi~~~l~~~~~~~~~~~f~~~l~L-~Gs~~l~~~P~G~~t~v~l~S~W 228 (430)
T pfam06123 154 GIRSVPKLELNGKSLAFEPGTGLDL----LGSGIHAPLPDLSLKKAPLTFSFDLQL-NGSGSLSVVPVGRTTEVTLKSDW 228 (430)
T ss_pred HHCCCCCEEECCEEEEECCCCCCCC----CCCCEEEECCHHHCCCCCCEEEEEEEE-CCCCCEEEEECCCCCEEEEECCC
T ss_conf 5025763558995643037887666----678606206611102577149999996-47453778851664378987689
Q ss_pred CCC
Q ss_conf 884
Q gi|254781175|r 168 KNS 170 (296)
Q Consensus 168 ~~~ 170 (296)
|||
T Consensus 229 phP 231 (430)
T pfam06123 229 PHP 231 (430)
T ss_pred CCC
T ss_conf 599
No 30
>COG2872 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]
Probab=42.99 E-value=28 Score=16.20 Aligned_cols=29 Identities=28% Similarity=0.518 Sum_probs=23.5
Q ss_pred EEEEEHHHHHHHHH---------HHHH--EEEEEEECCCC
Q ss_conf 58864899899998---------7200--05999964887
Q gi|254781175|r 78 CQVRTIEHLMAALY---------AYGI--DNVIIEIDSTE 106 (296)
Q Consensus 78 ~~V~TVEHLLAAL~---------glgI--DN~~Ieidg~E 106 (296)
.+-+|..|||||.. |++| |-+.|.+|+++
T Consensus 96 mr~HTa~Hlls~~~~~~~~~~~~g~~i~~d~~~iD~~~e~ 135 (241)
T COG2872 96 MRMHTALHLLSAVLYKVYGALTTGFEIGEDYARIDFDGED 135 (241)
T ss_pred HHHHHHHHHHHHHHHCCCCCEEECCEECCCCCCCCCCCCC
T ss_conf 7560799999987501246313112003663020246663
No 31
>PRK00724 formate dehydrogenase accessory protein; Reviewed
Probab=42.10 E-value=20 Score=17.12 Aligned_cols=79 Identities=16% Similarity=0.256 Sum_probs=47.8
Q ss_pred CEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHHH-HHHHHHHCCCCEEEEEEEECCCCH
Q ss_conf 0322202578886420003213346456413773310677478997200114899-989899759964689999778808
Q gi|254781175|r 194 RTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTLD-AIGDIALAGYPVIGCYRSCRGSHE 272 (296)
Q Consensus 194 RTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiLD-lIGDL~L~G~pi~g~i~a~k~GH~ 272 (296)
.-|.+++++...+.. ..+-|.+..|.+++.++.++- +. +--=||..+| +||-..+-|.++..++.. -+| +
T Consensus 137 ~i~~~~~~l~~~q~l-f~~TGg~H~Aal~~~~g~il~-----~~-EDIGRHNAvDKviG~~l~~g~~~~~~~l~-~SG-R 207 (262)
T PRK00724 137 DLLAAMDQLQQAQPL-FQLTGGVHAAALFDPDGELLA-----VR-EDVGRHNALDKLIGALARAGIPLRDGALL-VSG-R 207 (262)
T ss_pred HHHHHHHHHHHHCHH-HHHHCCEEEEEEECCCCCEEE-----EE-EECCCHHHHHHHHHHHHHCCCCCCCEEEE-EEC-C
T ss_conf 999999999863854-675387889999908998999-----98-10781277899999999859986780999-907-6
Q ss_pred HHHHHHHHH
Q ss_conf 999999999
Q gi|254781175|r 273 INHMALCTL 281 (296)
Q Consensus 273 ln~~l~~~l 281 (296)
+..+++.|-
T Consensus 208 ~s~emV~Ka 216 (262)
T PRK00724 208 ASSEMVQKA 216 (262)
T ss_pred CHHHHHHHH
T ss_conf 639999999
No 32
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase; InterPro: IPR012813 Members of this family are mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC). It acts sequentially after mannosyl-3-phosphoglycerate synthase (2.4.1.217 from EC) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.; GO: 0050531 mannosyl-3-phosphoglycerate phosphatase activity, 0051479 mannosylglycerate biosynthetic process, 0005737 cytoplasm.
Probab=41.09 E-value=16 Score=17.67 Aligned_cols=68 Identities=16% Similarity=0.309 Sum_probs=47.3
Q ss_pred HHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCC----------CCCCCCCEEEECCC--EEEEECCEEEEEECCCCCEE
Q ss_conf 0005999964887830058289999988544554----------44787514770463--49981771465414766337
Q gi|254781175|r 94 GIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIK----------TLTAKRRYLRIIKS--VRITSGESWAEFSPHCSMRF 161 (296)
Q Consensus 94 gIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~----------eq~~~r~~~~i~~~--v~v~~~~~~i~~~P~~~l~i 161 (296)
.+||=++.+.+-|+ |-|.+-++.+++-|+. ||...|+.+-|+-| |-+.++++-|.+ |.+-|.+
T Consensus 5 DLD~TLl~~~~ye~----~pA~e~~~~L~~~G~~~Vf~ssKTr~E~~~YR~~Lgv~~PeriFI~ENGgaIyi-Prgyf~~ 79 (248)
T TIGR02461 5 DLDGTLLDLETYEP----GPAREALEELKDLGFPIVFVSSKTRAEQEYYREELGVKDPERIFIVENGGAIYI-PRGYFAF 79 (248)
T ss_pred CCCCCCCCCCCCCH----HHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHCCCCCCCEEEEEECCCEEEC-CCCCCCC
T ss_conf 26621177778880----026899999996697387505534899999998638999865898722733204-7776147
Q ss_pred EEEEE
Q ss_conf 89997
Q gi|254781175|r 162 EISIE 166 (296)
Q Consensus 162 ~~~id 166 (296)
.+..+
T Consensus 80 p~~~~ 84 (248)
T TIGR02461 80 PVEAG 84 (248)
T ss_pred CCCCC
T ss_conf 63468
No 33
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=40.45 E-value=30 Score=15.96 Aligned_cols=58 Identities=12% Similarity=0.172 Sum_probs=37.0
Q ss_pred EEEEEEECCCCCCEEECCHHHHHHHHHHCCC---------CCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCC
Q ss_conf 8999805688886263109986663220134---------76315886489989999872000599996488783
Q gi|254781175|r 43 ILFKCTQSGGITDSLSALWSNVLRTTLSTTI---------GSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVP 108 (296)
Q Consensus 43 I~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L---------~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiP 108 (296)
..|.-+|.|| +.+++....++... +.+|..-+|.||++.|.. +||.++.|-++--..+
T Consensus 65 ~~~~~IDtPG-------H~dF~~~~i~g~~~~D~aiLVVdA~eGv~~QT~eh~~la~~-lgi~~iiV~iNK~D~~ 131 (195)
T cd01884 65 RHYAHVDCPG-------HADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQ-VGVPYIVVFLNKADMV 131 (195)
T ss_pred EEEEECCCCC-------HHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH-HCCCCEEEEEECCCCC
T ss_conf 1699626896-------07788899863511362689985277874789999999998-0999627999687789
No 34
>pfam08781 DP Transcription factor DP. DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer and negatively regulates the G1-S transition.
Probab=40.29 E-value=30 Score=15.94 Aligned_cols=48 Identities=23% Similarity=0.302 Sum_probs=34.2
Q ss_pred EEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCC
Q ss_conf 4654147663378999708843130002345545778985146503222025788864200032
Q gi|254781175|r 150 WAEFSPHCSMRFEISIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALG 213 (296)
Q Consensus 150 ~i~~~P~~~l~i~~~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~G 213 (296)
||.+.-+....|.|.|.-+ +|.+.|+++. ||-.-.|++-|+++|+..|
T Consensus 59 FIiV~T~~~t~IeceIS~D-----~~~~~FdFn~-----------tFeIhDD~~vLK~Mg~~~g 106 (141)
T pfam08781 59 FILVNTSKKAVIECEISED-----KSEYHFDFNS-----------TFEIHDDIEVLKRMGLALG 106 (141)
T ss_pred EEEEECCCCCEEEEEEECC-----CEEEEECCCC-----------CEEEECHHHHHHHHHHHHC
T ss_conf 7899669998889897057-----0057733899-----------8565441999998002523
No 35
>pfam02664 LuxS S-Ribosylhomocysteinase (LuxS). This family consists of the LuxS protein involved in autoinducer AI2 synthesis and its hypothetical relatives. S-ribosylhomocysteinase (LuxS) catalyses the cleavage of the thioether bond in S-ribosylhomocysteine (SRH) to produce homocysteine and 4,5-dihydroxy-2,3-pentanedione (DPD), the precursor of type II bacterial quorum sensing molecule.
Probab=39.54 E-value=11 Score=18.78 Aligned_cols=19 Identities=26% Similarity=0.455 Sum_probs=13.9
Q ss_pred EEEEEHHHHHHHHHHHHHE
Q ss_conf 5886489989999872000
Q gi|254781175|r 78 CQVRTIEHLMAALYAYGID 96 (296)
Q Consensus 78 ~~V~TVEHLLAAL~glgID 96 (296)
..++|+|||+|.+.--..+
T Consensus 50 ~alHTlEHL~At~lRn~~~ 68 (158)
T pfam02664 50 AGIHTLEHLFAGFIRNHAN 68 (158)
T ss_pred CCHHHHHHHHHHHHHCCCC
T ss_conf 4226999987887553755
No 36
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=38.95 E-value=25 Score=16.51 Aligned_cols=31 Identities=39% Similarity=0.584 Sum_probs=24.2
Q ss_pred CCCEE-EEEEHHHHHHHHHHHHHEEEEEEECCC
Q ss_conf 76315-886489989999872000599996488
Q gi|254781175|r 74 GSSSC-QVRTIEHLMAALYAYGIDNVIIEIDST 105 (296)
Q Consensus 74 ~~~~~-~V~TVEHLLAAL~glgIDN~~Ieidg~ 105 (296)
.++|+ .=+|.||| .++..+||.++.|-++-.
T Consensus 117 A~eG~p~pQT~EHl-~i~~~lgi~~~iV~lnK~ 148 (410)
T PRK04000 117 ANEPCPQPQTKEHL-MALDIIGIKNIVIVQNKI 148 (410)
T ss_pred CCCCCCCCCHHHHH-HHHHHCCCCCEEEEEECC
T ss_conf 57787677149999-999980998379999625
No 37
>pfam01688 Herpes_gI Alphaherpesvirus glycoprotein I. This family consists of glycoprotein I form various members of the alphaherpesvirinae these include herpesvirus, varicella-zoster virus and pseudorabies virus. Glycoprotein I (gI) is important during natural infection, mutants lacking gI produce smaller lesions at the site of infection and show reduced neuronal spread. gI forms a heterodimeric complex with gE; this complex displays Fc receptor activity (binds to the Fc region of immunoglobulin). Glycoproteins are also important in the production of virus-neutralising antibodies and cell mediated immunity. The alphaherpesvirinae have a dsDNA gnome and have no RNA stage during viral replication.
Probab=38.57 E-value=25 Score=16.47 Aligned_cols=11 Identities=27% Similarity=0.359 Sum_probs=4.8
Q ss_pred CCEEEEEEEEC
Q ss_conf 63378999708
Q gi|254781175|r 158 SMRFEISIEFK 168 (296)
Q Consensus 158 ~l~i~~~idf~ 168 (296)
-+++-+.+.|.
T Consensus 79 Cy~v~~~~~y~ 89 (161)
T pfam01688 79 CYRVLQVIEYT 89 (161)
T ss_pred CCCEEEEEEEC
T ss_conf 66077677421
No 38
>TIGR00888 guaA_Nterm GMP synthase, N-terminal domain; InterPro: IPR004739 The N-terminal region of GMP synthase 6.3.5.2 from EC is recognised by this signature. GMP synthase catalyzes the synthesis of GMP from XMP , . ATP + xanthosine 5'-phosphate + L-glutamine + H(2)O = AMP + diphosphate + GMP + L-glutamate ; GO: 0003922 GMP synthase (glutamine-hydrolyzing) activity, 0005524 ATP binding, 0006177 GMP biosynthetic process.
Probab=36.80 E-value=34 Score=15.60 Aligned_cols=69 Identities=19% Similarity=0.243 Sum_probs=49.6
Q ss_pred CHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEE
Q ss_conf 45778985146503222025788864200032133464564137733106774789972001148999898997599646
Q gi|254781175|r 182 TQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLRYSGEEFVRHKTLDAIGDIALAGYPVI 261 (296)
Q Consensus 182 ~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR~~~dE~vRHKiLDlIGDL~L~G~pi~ 261 (296)
-+-.=..||-|.+| -.+||....=.|++++|+- +.|.+ +|. +-+-++|+| ||.||.
T Consensus 19 RE~gVysE~~p~t~--~~eeI~~~~P~GiILSGGP--~sv~~-~n~------------~~~~~~if~-------LgVPvL 74 (195)
T TIGR00888 19 RELGVYSEIVPNTT--PLEEIKEKNPKGIILSGGP--ASVYA-ENA------------PEADEKIFE-------LGVPVL 74 (195)
T ss_pred EECCCEEEEEECCC--CHHHHHHCCCCEEEEECCC--CCCCC-CCC------------HHHHHHHHH-------CCCCEE
T ss_conf 10141357840778--7799861298679972788--76467-885------------022488862-------799688
Q ss_pred EEEEEECCCCHHHHHHH
Q ss_conf 89999778808999999
Q gi|254781175|r 262 GCYRSCRGSHEINHMAL 278 (296)
Q Consensus 262 g~i~a~k~GH~ln~~l~ 278 (296)
| +|=||.+-++.+
T Consensus 75 G----ICYG~Ql~A~~l 87 (195)
T TIGR00888 75 G----ICYGMQLMAKQL 87 (195)
T ss_pred E----EEHHHHHHHHHH
T ss_conf 7----624578999982
No 39
>PRK02260 S-ribosylhomocysteinase; Provisional
Probab=35.40 E-value=14 Score=18.08 Aligned_cols=19 Identities=32% Similarity=0.569 Sum_probs=13.8
Q ss_pred EEEEEHHHHHHHHHHHHHE
Q ss_conf 5886489989999872000
Q gi|254781175|r 78 CQVRTIEHLMAALYAYGID 96 (296)
Q Consensus 78 ~~V~TVEHLLAAL~glgID 96 (296)
..++|+|||+|-+.=--.|
T Consensus 51 ~~~HTlEHL~A~~lRnh~~ 69 (163)
T PRK02260 51 AGLHTLEHLLAGFMRNHLD 69 (163)
T ss_pred CHHHHHHHHHHHHHHHCCC
T ss_conf 2056999999999874721
No 40
>TIGR00049 TIGR00049 iron-sulfur cluster assembly accessory protein; InterPro: IPR016092 This family includes HesB which may be involved in nitrogen fixation; the hesB gene is expressed only under nitrogen fixation conditions . Other members of this family include various hypothetical proteins that also contain the NifU-like domain (IPR001075 from INTERPRO). NifU-like proteins are found in species as divergent as humans and H. influenzae suggesting that these proteins perform some basic cellular function .; GO: 0005198 structural molecule activity, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly.
Probab=34.52 E-value=5.9 Score=20.40 Aligned_cols=32 Identities=31% Similarity=0.602 Sum_probs=26.2
Q ss_pred EEEEEEECCCCCCCCCCCHHHHHHHHHHCCCC
Q ss_conf 05999964887830058289999988544554
Q gi|254781175|r 96 DNVIIEIDSTEVPIMDGSAKAFVEVIERIGIK 127 (296)
Q Consensus 96 DN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~ 127 (296)
+++.|-||.-=.|.|+|+-++|++.+..+|.+
T Consensus 56 ~Gv~v~vD~~S~~~l~G~~~Dyv~~l~~sgF~ 87 (105)
T TIGR00049 56 DGVKVVVDPKSLPYLNGSEIDYVEELEGSGFT 87 (105)
T ss_pred CCEEEEECCCCHHHHCCCEEEEEECCCCCCCE
T ss_conf 88289881541454258777787356778337
No 41
>PRK10536 hypothetical protein; Provisional
Probab=33.80 E-value=30 Score=15.95 Aligned_cols=109 Identities=16% Similarity=0.164 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCC-CEEE
Q ss_conf 998999987200059999648878300582899999885445544478751477046349981771465414766-3378
Q gi|254781175|r 84 EHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGESWAEFSPHCS-MRFE 162 (296)
Q Consensus 84 EHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~-l~i~ 162 (296)
++++.|+.- |-++-..|| -||.+-|+-.-..+-... ++..+-+.+.+|+.- -+ .-+-.+|.+- =|+.
T Consensus 65 ~~yi~~i~~----~~ivf~~Gp-----AGTGKT~lA~a~Al~~l~-~~~~~kIIltRP~V~-~g-e~lGfLPGdl~EK~~ 132 (262)
T PRK10536 65 LHYLKAIES----KQLIFATGE-----AGCGKTWISAAKAAEALI-HKDVDRIIVTRPVLQ-AD-EDLGFLPGDIAEKFA 132 (262)
T ss_pred HHHHHHHHH----CCEEEEECC-----CCCCHHHHHHHHHHHHHH-HCCCCEEEEECCCCC-CC-CCCCCCCCCHHHHHH
T ss_conf 999999861----983999899-----987589999999999998-588868999667875-67-666769898799887
Q ss_pred EEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHH----------HCCCCCCCCCCCCEEEECC
Q ss_conf 99970884313000234554577898514650322202578886----------4200032133464564137
Q gi|254781175|r 163 ISIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYR----------KAGCALGASLENSVVISED 225 (296)
Q Consensus 163 ~~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~----------~~Gl~~Ggsl~NaiVi~~~ 225 (296)
| | +..-.+.+.+-+.. +.++++. ...+.+|-|++||+||.|+
T Consensus 133 -------P------y-l~Pi~D~L~~~lg~-------~~~~~~~~~e~G~Iei~PlafmRGrTf~na~IIvDE 184 (262)
T PRK10536 133 -------P------Y-FRPVYDVLVRRLGA-------SFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDE 184 (262)
T ss_pred -------H------H-HHHHHHHHHHHHCH-------HHHHHHHHHHCCCEEEEEHHHHCCCCCCCEEEEEEH
T ss_conf -------8------8-87899999999685-------999999873059489987587447751442899841
No 42
>PRK11715 hypothetical protein; Provisional
Probab=29.51 E-value=40 Score=15.17 Aligned_cols=72 Identities=13% Similarity=0.218 Sum_probs=41.6
Q ss_pred HHEEE-EEEECCCCCCCCCCCHHHHHHHHHHCCCCCCC----CCCCEEEECCCEEEEECCEEEEEEC-CCCCEEEEEEEE
Q ss_conf 00059-99964887830058289999988544554447----8751477046349981771465414-766337899970
Q gi|254781175|r 94 GIDNV-IIEIDSTEVPIMDGSAKAFVEVIERIGIKTLT----AKRRYLRIIKSVRITSGESWAEFSP-HCSMRFEISIEF 167 (296)
Q Consensus 94 gIDN~-~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~----~~r~~~~i~~~v~v~~~~~~i~~~P-~~~l~i~~~idf 167 (296)
||++. .++++|.+++.--|++.+. ...|+..+- .....+...=.+.. +|...+.+.| .+..+++.+-|+
T Consensus 155 Gi~~~~~~~~~g~~~~~~pG~~~~~----~~~Gih~~l~~~~~~~~~~~f~~~l~L-~Gs~~l~~~P~G~~t~v~l~S~W 229 (427)
T PRK11715 155 GIGAVPKLEVNGKALTFEPGTGLEQ----LGQGVHAPLPLLDLAKANLDFDFALNL-RGSGSLSVVPLGRNTEVTLTSNW 229 (427)
T ss_pred HCCCCCEEEECCEEEECCCCCCCCC----CCCCEEEECCCCCCCCCCEEEEEEEEE-CCCCCEEEEECCCCCEEEEECCC
T ss_conf 4036750778996743158987664----567526755731000577059999995-47453777741664278987689
Q ss_pred CCC
Q ss_conf 884
Q gi|254781175|r 168 KNS 170 (296)
Q Consensus 168 ~~~ 170 (296)
|||
T Consensus 230 phP 232 (427)
T PRK11715 230 PHP 232 (427)
T ss_pred CCC
T ss_conf 599
No 43
>PRK00807 50S ribosomal protein L24e; Validated
Probab=27.33 E-value=35 Score=15.54 Aligned_cols=16 Identities=13% Similarity=0.239 Sum_probs=12.9
Q ss_pred EECCCCCCEEEEEEEC
Q ss_conf 8378887189998056
Q gi|254781175|r 35 CPAPEGVGILFKCTQS 50 (296)
Q Consensus 35 ~PA~~~~GI~F~R~dl 50 (296)
.|-++++|+.|+|.|-
T Consensus 9 ~~I~PG~G~~~Vr~Dg 24 (52)
T PRK00807 9 KEIEPGTGKMYVRKDG 24 (52)
T ss_pred CEECCCCCEEEEECCC
T ss_conf 8005997879997488
No 44
>pfam02562 PhoH PhoH-like protein. PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation.
Probab=27.31 E-value=25 Score=16.44 Aligned_cols=101 Identities=16% Similarity=0.225 Sum_probs=49.3
Q ss_pred EEEECCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEECCCCCCCCCCC
Q ss_conf 99964887830058289999988544554447875147704634998177146541476633789997088431300023
Q gi|254781175|r 99 IIEIDSTEVPIMDGSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRITSGESWAEFSPHCSMRFEISIEFKNSIIGFQKWA 178 (296)
Q Consensus 99 ~Ieidg~EiPIlDGSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf~~~~Ig~Q~~~ 178 (296)
++-+.|| -||.+-|+-+-...-.....+.++. .+.+|+. ..++ -+-.+|.+--. + .+-|.
T Consensus 21 iv~~~Gp-----AGtGKT~la~~~al~~l~~~~~~ki-ii~Rp~v-~~g~-~iGfLPG~~~e---------K---~~p~~ 80 (205)
T pfam02562 21 IVFGIGP-----AGTGKTYLAVAAAVDALKDGKVKRI-ILTRPAV-EAGE-KLGFLPGDLEE---------K---VDPYL 80 (205)
T ss_pred EEEEECC-----CCCCHHHHHHHHHHHHHHHCCCCEE-EEEECCC-CCCC-CCCCCCCCHHH---------H---HHHHH
T ss_conf 0799899-----9860999999999999971894379-9975771-2577-54558897899---------9---99999
Q ss_pred CCCCHHHHHHHHCCCCEEEEEHHHHHHHHCC--------CCCCCCCCCCEEEECCCC
Q ss_conf 4554577898514650322202578886420--------003213346456413773
Q gi|254781175|r 179 GDLTQTVFRNEIYAARTFGFLRDVERYRKAG--------CALGASLENSVVISEDDQ 227 (296)
Q Consensus 179 ~~~~~~~f~~eIa~ARTF~~~~eie~L~~~G--------l~~Ggsl~NaiVi~~~~~ 227 (296)
. .-.+++.+-+ . .+.++.|.+.| .++|-|++|++||.|+-+
T Consensus 81 ~-p~~d~l~~~~-~------~~~~~~l~~~~~Ie~~pl~~iRGrTf~n~~iIvDEaQ 129 (205)
T pfam02562 81 R-PLYDALYDML-G------AEKVEKLIERGVIEIAPLAYMRGRTLNDAFIILDEAQ 129 (205)
T ss_pred H-HHHHHHHHHH-C------HHHHHHHHHCCCEEECCHHHHCCCCCCCCEEEEECHH
T ss_conf 9-9999999872-8------9999999975975661467655476256889997221
No 45
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=27.29 E-value=39 Score=15.24 Aligned_cols=33 Identities=33% Similarity=0.574 Sum_probs=24.1
Q ss_pred CCCEE-EEEEHHHHHHHHHHHHHEEEEEEECCCCC
Q ss_conf 76315-88648998999987200059999648878
Q gi|254781175|r 74 GSSSC-QVRTIEHLMAALYAYGIDNVIIEIDSTEV 107 (296)
Q Consensus 74 ~~~~~-~V~TVEHLLAAL~glgIDN~~Ieidg~Ei 107 (296)
.+.|. .=+|.||++ .+..+||.++.|-++--..
T Consensus 116 A~eG~~~~QT~eH~~-l~~~lgv~~iIV~vNKmDl 149 (203)
T cd01888 116 ANEPCPQPQTSEHLA-ALEIMGLKHIIIVQNKIDL 149 (203)
T ss_pred CCCCCCHHHHHHHHH-HHHHCCCCCEEEEEECCCC
T ss_conf 366775077999999-9998499863677507777
No 46
>PRK10693 response regulator of RpoS; Provisional
Probab=27.18 E-value=39 Score=15.25 Aligned_cols=59 Identities=24% Similarity=0.220 Sum_probs=38.6
Q ss_pred HHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCC
Q ss_conf 6632201347631588648998999987200059999648878300582899999885445
Q gi|254781175|r 65 LRTTLSTTIGSSSCQVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIG 125 (296)
Q Consensus 65 ~~t~~~T~L~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aG 125 (296)
....++..|...|..|.+.+.-..|+..+.-...-+-+---.+|.||| .++++.|++.+
T Consensus 19 ~r~~l~~~L~~~G~~V~~A~nG~eAl~~l~~~~pDLIi~Dl~MP~mdG--lell~~lr~~~ 77 (337)
T PRK10693 19 FRSLLDSWFSSLGATTVLAADGVDALELLGGFTPDLMICDIAMPRMNG--LKFVEHLRNRG 77 (337)
T ss_pred HHHHHHHHHHHCCCEEEEECCHHHHHHHHHCCCCCEEEEECCCCCCCH--HHHHHHHHHHC
T ss_conf 999999999978999999899999999986589999999689999998--99999999858
No 47
>TIGR01546 GAPDH-II_archae glyceraldehyde-3-phosphate dehydrogenase, type II; InterPro: IPR006436 This family describes the type II glyceraldehyde-3-phosphate dehydrogenases which are limited to archaea. These enzymes catalyze the interconversion of 1,3-diphosphoglycerate and glyceraldehyde-3-phosphate, a central step in glycolysis and gluconeogenesis. In archaea, either NAD or NADP may be utilised as the cofactor.; GO: 0008943 glyceraldehyde-3-phosphate dehydrogenase activity, 0050661 NADP binding, 0051287 NAD binding, 0006096 glycolysis, 0005737 cytoplasm.
Probab=26.30 E-value=13 Score=18.23 Aligned_cols=101 Identities=19% Similarity=0.231 Sum_probs=58.4
Q ss_pred CHHHHHHHHHHCCCC------------------------CCCCCCCEEEECCCEEEEECCEEEEEECCCCCEEEEEEEEC
Q ss_conf 289999988544554------------------------44787514770463499817714654147663378999708
Q gi|254781175|r 113 SAKAFVEVIERIGIK------------------------TLTAKRRYLRIIKSVRITSGESWAEFSPHCSMRFEISIEFK 168 (296)
Q Consensus 113 SA~~fv~~i~~aGi~------------------------eq~~~r~~~~i~~~v~v~~~~~~i~~~P~~~l~i~~~idf~ 168 (296)
|+..|...+++||+. +|.++--|.+.-..=.+|-|++.=.+ +++++...+|+
T Consensus 50 ~~~e~~~~FEeaGi~V~GT~edL~ek~DIvVD~TP~G~GaknK~G~Yek~g~kAiFQGGEKaeva----~~SF~a~~NY~ 125 (335)
T TIGR01546 50 AAEEFLKKFEEAGIKVAGTVEDLLEKVDIVVDATPEGVGAKNKEGIYEKLGLKAIFQGGEKAEVA----DISFSALANYE 125 (335)
T ss_pred CCHHHHHHHHHCCCEEECCHHHHHHHCCEEEECCCCCCCCCCCCHHHHHHCCEEEEECCCCHHHH----HHHHHHHHHHH
T ss_conf 67044312543687044257873104288885687874432311036650761364378301244----21255551067
Q ss_pred CCCCCCCCCCC-CCCHHHHHHHHCCCCEEEEEHHH---HHHHHCCCCCCCCCCCCEEEECCCCE
Q ss_conf 84313000234-55457789851465032220257---88864200032133464564137733
Q gi|254781175|r 169 NSIIGFQKWAG-DLTQTVFRNEIYAARTFGFLRDV---ERYRKAGCALGASLENSVVISEDDQV 228 (296)
Q Consensus 169 ~~~Ig~Q~~~~-~~~~~~f~~eIa~ARTF~~~~ei---e~L~~~Gl~~Ggsl~NaiVi~~~~~i 228 (296)
. +||+.+... .++.. +=+||.|-.+|+ ++-|+-=.=||+ -.+-+ +.|||
T Consensus 126 ~-alGKdY~RVVSCNTT------gL~RTln~ind~~~v~kVrAv~vRRaA-Dp~~v---KkGPI 178 (335)
T TIGR01546 126 E-ALGKDYVRVVSCNTT------GLVRTLNAINDLSKVEKVRAVMVRRAA-DPKEV---KKGPI 178 (335)
T ss_pred H-HHCCCEEEEEEECHH------HHHHHHHHHHHHCCCCEEEEEEEECCC-CHHHC---CCCCC
T ss_conf 6-317863899841626------788766433233061058999985378-93342---61873
No 48
>COG3718 IolB Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]
Probab=26.27 E-value=35 Score=15.57 Aligned_cols=48 Identities=17% Similarity=0.331 Sum_probs=37.2
Q ss_pred CCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCCCCCCEEEECCCCEECCCCCC
Q ss_conf 55457789851465032220257888642000321334645641377331067747
Q gi|254781175|r 180 DLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGASLENSVVISEDDQVMNHGGLR 235 (296)
Q Consensus 180 ~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggsl~NaiVi~~~~~i~n~~~LR 235 (296)
..-+++|..++.|+--|||.+-.-.- +|||-++.+.+.+-++-|.|..
T Consensus 183 s~LEEtYYHrlnP~QGF~fQRVYTdd--------rsLDEtmaV~~~dvvlVP~GYH 230 (270)
T COG3718 183 SYLEETYYHRLNPPQGFAFQRVYTDD--------RSLDETMAVENGDVVLVPKGYH 230 (270)
T ss_pred HHHHHHHHHCCCCCCCCEEEEEECCC--------CCCCCEEEEECCCEEEECCCCC
T ss_conf 03433232003863141688987688--------7600102660688898268767
No 49
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=26.18 E-value=38 Score=15.33 Aligned_cols=16 Identities=25% Similarity=0.320 Sum_probs=8.8
Q ss_pred CCHHHHHHHHHHHCCC
Q ss_conf 8089999999998096
Q gi|254781175|r 270 SHEINHMALCTLFADK 285 (296)
Q Consensus 270 GH~ln~~l~~~l~~~~ 285 (296)
.|.+|.++++++++.-
T Consensus 832 DNpINq~VL~~~L~~L 847 (947)
T PRK10841 832 DHPINRRLLADQLGSL 847 (947)
T ss_pred CCHHHHHHHHHHHHHC
T ss_conf 7899999999999976
No 50
>cd02128 PA_TfR PA_TfR: Protease-associated domain containing proteins like transferrin receptor (TfR). This group contains various PA domain-containing proteins similar to human TfR1 and TfR2. TfR1 and TfR2 are type II membrane proteins, belonging to the peptidase M28 family. TfR1 is homodimeric, widely expressed, and a key player in the uptake of iron-loaded transferrin (Tf) into cells. The TfR1 homodimer binds two molecules of Tf and this complex is internalized. In addition to its role in iron uptake, TfR1 may participate in cell growth and proliferation. TfR2 also binds Tf but with a significantly lower affinity than does TfR1. TfR2 is expressed chiefly in hepatocytes, hematopoietic cells, and duodenal crypt cells; its expression overlaps with that of hereditary hemochromatosis protein (HFE). TfR2 is involved in iron homeostasis. HFE and TfR2 interact in cells. By one model for serum iron sensing, at low or basal iron concentrations, HFE and TFR1 form a complex at the plasma membra
Probab=25.98 E-value=46 Score=14.83 Aligned_cols=15 Identities=33% Similarity=0.541 Sum_probs=6.7
Q ss_pred HHEEEEEEECCCCCC
Q ss_conf 000599996488783
Q gi|254781175|r 94 GIDNVIIEIDSTEVP 108 (296)
Q Consensus 94 gIDN~~Ieidg~EiP 108 (296)
|.--++|.-|-.+.|
T Consensus 79 Ga~gvliysDP~D~~ 93 (183)
T cd02128 79 GAVGVLIYPDPADFP 93 (183)
T ss_pred CCEEEEEECCHHHCC
T ss_conf 973999927867758
No 51
>PRK05481 lipoyl synthase; Provisional
Probab=25.68 E-value=53 Score=14.43 Aligned_cols=44 Identities=32% Similarity=0.551 Sum_probs=38.4
Q ss_pred EEEHHHHHHHHHHHHHEEEEEE-ECCCCCCCCCCCHHHHHHHHHHCC
Q ss_conf 8648998999987200059999-648878300582899999885445
Q gi|254781175|r 80 VRTIEHLMAALYAYGIDNVIIE-IDSTEVPIMDGSAKAFVEVIERIG 125 (296)
Q Consensus 80 V~TVEHLLAAL~glgIDN~~Ie-idg~EiPIlDGSA~~fv~~i~~aG 125 (296)
-.--+++--|...||+..+.|. ||-.++| ||-|..|++.|++..
T Consensus 81 ~~EP~~vA~av~~m~Lk~vViTSV~RDDL~--DgGA~hfa~~I~~Ir 125 (289)
T PRK05481 81 PDEPERVAEAVARMGLKYVVITSVDRDDLP--DGGAQHFAETIRAIR 125 (289)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEEECCCCCC--CCCHHHHHHHHHHHH
T ss_conf 030799999999828976999634166665--655499999999998
No 52
>cd02121 PA_GCPII_like PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to the peptidase M28 family. GCPII is also known N-acetylated-alpha-linked acidic dipeptidase (NAALDase1), folate hydrolase or prostate-specific membrane antigen (PSMA). GCPII is found in various human tissues including prostate, small intestine, and the central nervous system. In the brain, GCPII is known as NAALDase1, it functions as a NAALDase hydrolyzing the neuropeptide N-acetyl-L-aspartyl-L-glutamate (alpha-NAAG), to release free glutamate. In the small intestine, GCPII releases the terminal glutamate from poly-gamma-glutamated folates. GCPII (PSMA) is a useful cancer marker; its expression is markedly increased in prostate cancer and in tumor-associated neovasculature. GCPIII hydrolyzes alpha-NAAG with a lower
Probab=25.41 E-value=45 Score=14.85 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=9.0
Q ss_pred CCHHHHHHHHHHCCCCCCCCCC
Q ss_conf 8289999988544554447875
Q gi|254781175|r 112 GSAKAFVEVIERIGIKTLTAKR 133 (296)
Q Consensus 112 GSA~~fv~~i~~aGi~eq~~~r 133 (296)
|.-....+....+|+.-...|.
T Consensus 85 g~Kv~~A~~~GA~GviiysDP~ 106 (220)
T cd02121 85 GLKVKNAQLAGAVGVIIYSDPA 106 (220)
T ss_pred HHHHHHHHHCCCEEEEEECCHH
T ss_conf 8999999985963999956814
No 53
>TIGR00877 purD phosphoribosylamine--glycine ligase; InterPro: IPR000115 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) catalyzes the second step in the de novo biosynthesis of purine: ATP + 5-phosphoribosylamine + glycine = ADP + P_i + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART.; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process.
Probab=25.08 E-value=54 Score=14.36 Aligned_cols=43 Identities=35% Similarity=0.529 Sum_probs=35.5
Q ss_pred EEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCC
Q ss_conf 88648998999987200059999648878300582899999885445544
Q gi|254781175|r 79 QVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIKT 128 (296)
Q Consensus 79 ~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~e 128 (296)
.|+-+|+|.+=-.=.+||=+.| |||.|.--| -|++++++||.-
T Consensus 53 ~~~d~~~~~~FA~~~~idL~~i---GPE~PL~~G----~vd~le~~Gi~~ 95 (459)
T TIGR00877 53 DVRDIEALVEFAKKKKIDLAVI---GPEAPLVLG----LVDALEEAGIPV 95 (459)
T ss_pred CHHHHHHHHHHHHHCCCCEEEE---CCCCCHHHH----HHHHHHHCCCCE
T ss_conf 6300899999998469754880---874101201----477898679514
No 54
>KOG4158 consensus
Probab=24.86 E-value=42 Score=15.07 Aligned_cols=19 Identities=32% Similarity=0.670 Sum_probs=11.5
Q ss_pred HHHEEEEEEECCCCCCCCC
Q ss_conf 2000599996488783005
Q gi|254781175|r 93 YGIDNVIIEIDSTEVPIMD 111 (296)
Q Consensus 93 lgIDN~~Ieidg~EiPIlD 111 (296)
+-=||++||+|-.|+|.|=
T Consensus 367 lKSDNiL~ElddD~~P~LV 385 (598)
T KOG4158 367 LKSDNILLELDDDEIPQLV 385 (598)
T ss_pred CCCCCEEEEECCCCCCEEE
T ss_conf 4556468873688785788
No 55
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=24.71 E-value=38 Score=15.31 Aligned_cols=14 Identities=21% Similarity=0.482 Sum_probs=11.7
Q ss_pred ECCCCCCEEEEEEE
Q ss_conf 37888718999805
Q gi|254781175|r 36 PAPEGVGILFKCTQ 49 (296)
Q Consensus 36 PA~~~~GI~F~R~d 49 (296)
+-++++|+.|+|.|
T Consensus 12 ~I~PGtG~m~Vr~D 25 (66)
T COG2075 12 KIEPGTGIMYVRND 25 (66)
T ss_pred CCCCCCEEEEEECC
T ss_conf 44799427999559
No 56
>pfam07146 DUF1389 Protein of unknown function (DUF1389). This family consists of several hypothetical bacterial proteins which seem to be specific to Chlamydia pneumoniae. Members of this family are typically around 400 residues in length. The function of this family is unknown.
Probab=24.11 E-value=33 Score=15.71 Aligned_cols=52 Identities=17% Similarity=0.313 Sum_probs=43.2
Q ss_pred EEEEHHHHHHHHHHHHHEEEEEEECCCCCCCCC-----CCHHHHHHHHHHCCCCCCC
Q ss_conf 886489989999872000599996488783005-----8289999988544554447
Q gi|254781175|r 79 QVRTIEHLMAALYAYGIDNVIIEIDSTEVPIMD-----GSAKAFVEVIERIGIKTLT 130 (296)
Q Consensus 79 ~V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlD-----GSA~~fv~~i~~aGi~eq~ 130 (296)
...--++|=.++...||||+..++++.++|.|| -.-..|...+-++|-++..
T Consensus 83 ~~~ls~~Lr~kle~FGi~~l~~~~~~~~Lp~le~iLlknCPlYwL~kFI~lg~~~~~ 139 (311)
T pfam07146 83 LNNLSPKLREKLEDFGIDRLQSDCESIDLPSLDKILLKNCPLYWLSKFIDLGPREVP 139 (311)
T ss_pred CCCCCHHHHHHHHHCCHHHHHHHHHHCCCCCHHHHHHHCCCHHHHHHHHHHCCCCCC
T ss_conf 467899999999981948898762015798789999875979999999872785567
No 57
>PRK12928 lipoyl synthase; Provisional
Probab=24.09 E-value=57 Score=14.24 Aligned_cols=42 Identities=31% Similarity=0.543 Sum_probs=37.2
Q ss_pred EHHHHHHHHHHHHHEEEEEE-ECCCCCCCCCCCHHHHHHHHHHCC
Q ss_conf 48998999987200059999-648878300582899999885445
Q gi|254781175|r 82 TIEHLMAALYAYGIDNVIIE-IDSTEVPIMDGSAKAFVEVIERIG 125 (296)
Q Consensus 82 TVEHLLAAL~glgIDN~~Ie-idg~EiPIlDGSA~~fv~~i~~aG 125 (296)
--+++--|...||+..+.|. ||-.++| ||-|..|++.|++..
T Consensus 91 EP~rvA~av~~m~LkyvVITSV~RDDL~--DgGA~hfa~~I~~Ir 133 (290)
T PRK12928 91 EPERVAEAVAALGLRYVVLTSVARDDLP--DGGAAHFVATIAAIR 133 (290)
T ss_pred HHHHHHHHHHHHCCCEEEEEEECCCCCC--CCCHHHHHHHHHHHH
T ss_conf 4799999999838976898412367886--645299999999998
No 58
>pfam11376 DUF3179 Protein of unknown function (DUF3179). This family of proteins has no known function.
Probab=23.82 E-value=57 Score=14.21 Aligned_cols=23 Identities=22% Similarity=0.507 Sum_probs=19.8
Q ss_pred CCCCEEEEEEEECCCCCCEEEEEE
Q ss_conf 379778999983788871899980
Q gi|254781175|r 25 HSGKRANLKLCPAPEGVGILFKCT 48 (296)
Q Consensus 25 HsG~~~~i~l~PA~~~~GI~F~R~ 48 (296)
-.|+++.||.+| -.|+|++|-|.
T Consensus 55 igg~pv~vTyCp-Lc~s~~~f~~~ 77 (261)
T pfam11376 55 LGGRPVAVTYCP-LCGSAMAFDRR 77 (261)
T ss_pred ECCEEEEEEECC-CCCCCEEEECC
T ss_conf 789878998677-67873486223
No 59
>KOG0460 consensus
Probab=23.35 E-value=59 Score=14.15 Aligned_cols=46 Identities=28% Similarity=0.449 Sum_probs=35.4
Q ss_pred CCCEEEEEEHHHHHHHHHHHHHEEEEEEE----------------------------CCCCCCCCCCCHHHHHHH
Q ss_conf 76315886489989999872000599996----------------------------488783005828999998
Q gi|254781175|r 74 GSSSCQVRTIEHLMAALYAYGIDNVIIEI----------------------------DSTEVPIMDGSAKAFVEV 120 (296)
Q Consensus 74 ~~~~~~V~TVEHLLAAL~glgIDN~~Iei----------------------------dg~EiPIlDGSA~~fv~~ 120 (296)
+.+|.-=.|=||||-|- -.||+|+.|-+ ||...||.-|||+--++.
T Consensus 150 atDG~MPQTrEHlLLAr-QVGV~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL~ALeg 223 (449)
T KOG0460 150 ATDGPMPQTREHLLLAR-QVGVKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGDNTPVIRGSALCALEG 223 (449)
T ss_pred CCCCCCCCHHHHHHHHH-HCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCHHHHHCC
T ss_conf 47898840688888898-728764999971202468889999999999999997299988787663201222227
No 60
>TIGR01836 PHA_synth_III_C poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; InterPro: IPR010125 This entry represents the PhaC subunit of a heterodimeric form of polyhydroxyalkanoic acid (PHA) synthase. Excepting the PhaC of Bacillus megaterium (which needs PhaR), all members require PhaE (IPR010123 from INTERPRO) for activity and are designated class III. This enzyme builds ester polymers for carbon and energy storage that accumulate in inclusions, and both this enzyme and the depolymerase associate with the inclusions. Class III enzymes polymerise short-chain-length hydroxyalkanoates.; GO: 0008415 acyltransferase activity, 0042619 poly-hydroxybutyrate biosynthetic process.
Probab=23.23 E-value=18 Score=17.32 Aligned_cols=76 Identities=7% Similarity=-0.033 Sum_probs=38.5
Q ss_pred ECCCEEE--EECCEEEEEECCCCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEHHHHHHHHCCCCCCCC
Q ss_conf 0463499--81771465414766337899970884313000234554577898514650322202578886420003213
Q gi|254781175|r 138 IIKSVRI--TSGESWAEFSPHCSMRFEISIEFKNSIIGFQKWAGDLTQTVFRNEIYAARTFGFLRDVERYRKAGCALGAS 215 (296)
Q Consensus 138 i~~~v~v--~~~~~~i~~~P~~~l~i~~~idf~~~~Ig~Q~~~~~~~~~~f~~eIa~ARTF~~~~eie~L~~~Gl~~Ggs 215 (296)
|+||-.+ +.+.|+|+-+=..|+-| |.||...|--.-.+.+++---..|..+.+. --|-.++++++-=.|.++||+
T Consensus 81 vNrPYm~DLQ~drSlv~~LL~~G~DV-YLiDWGyP~~~D~~ltLdDY~~~YI~~cV~--~i~~~~~~d~i~lLG~CqGGT 157 (367)
T TIGR01836 81 VNRPYMLDLQEDRSLVRGLLERGQDV-YLIDWGYPDRADRYLTLDDYVNGYIDKCVD--YICRTSKLDQISLLGICQGGT 157 (367)
T ss_pred CCCCCCEEECCCCHHHHHHHHCCCCE-EEEECCCCCHHHHCCCHHHHHHHHHHHHHH--HHHHHCCCCCCCEEEEECCHH
T ss_conf 06451023248816888888569848-996068987333114046667677899999--998650789610431431047
Q ss_pred C
Q ss_conf 3
Q gi|254781175|r 216 L 216 (296)
Q Consensus 216 l 216 (296)
.
T Consensus 158 f 158 (367)
T TIGR01836 158 F 158 (367)
T ss_pred H
T ss_conf 8
No 61
>PRK05293 glgC glucose-1-phosphate adenylyltransferase; Provisional
Probab=23.13 E-value=45 Score=14.84 Aligned_cols=38 Identities=16% Similarity=0.219 Sum_probs=25.8
Q ss_pred EEEHHHHHHHHHHHHHEEEEEEECCCCCCCCC--CCHHHH
Q ss_conf 86489989999872000599996488783005--828999
Q gi|254781175|r 80 VRTIEHLMAALYAYGIDNVIIEIDSTEVPIMD--GSAKAF 117 (296)
Q Consensus 80 V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlD--GSA~~f 117 (296)
...++|.|+++.-.||+++.|-+.-..-.|.| |++.+|
T Consensus 35 ~~lId~~L~~~~~~gI~~v~v~~~~~~~~i~~h~g~g~~w 74 (381)
T PRK05293 35 YRIIDFTLSNCANSGIYTVGVLTQYQPLELNNHIGIGSPW 74 (381)
T ss_pred CCCHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHCCCCCC
T ss_conf 5128999999998699999998689979999987176503
No 62
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=23.09 E-value=59 Score=14.12 Aligned_cols=29 Identities=34% Similarity=0.504 Sum_probs=22.8
Q ss_pred CCCEE-EEEEHHHHHHHHHHHHHEEEEEEEC
Q ss_conf 76315-8864899899998720005999964
Q gi|254781175|r 74 GSSSC-QVRTIEHLMAALYAYGIDNVIIEID 103 (296)
Q Consensus 74 ~~~~~-~V~TVEHLLAAL~glgIDN~~Ieid 103 (296)
++++. .=+|-|||++ +.-+||.|+.|-++
T Consensus 153 a~eg~P~pQT~EHl~~-~~~~gi~~~iv~~n 182 (460)
T PTZ00327 153 ANESCPQPQTSEHLAA-VEIMKLKHIIILQN 182 (460)
T ss_pred CCCCCCCCHHHHHHHH-HHHHCCCEEEEEEC
T ss_conf 6888876468999999-99728971999953
No 63
>pfam06415 iPGM_N BPG-independent PGAM N-terminus (iPGM_N). This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (EC:5.4.2.1). The family is found in conjunction with pfam01676 (located in the C-terminal region of the protein).
Probab=22.21 E-value=62 Score=14.01 Aligned_cols=68 Identities=28% Similarity=0.376 Sum_probs=43.9
Q ss_pred CCEEECCHHHHHHHHH----HCCCCCCEEEEEEHHHHHHHHHH---HHHEEEEEE--ECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf 8626310998666322----01347631588648998999987---200059999--64887830058289999988544
Q gi|254781175|r 54 TDSLSALWSNVLRTTL----STTIGSSSCQVRTIEHLMAALYA---YGIDNVIIE--IDSTEVPIMDGSAKAFVEVIERI 124 (296)
Q Consensus 54 ~~~I~A~~~~V~~t~~----~T~L~~~~~~V~TVEHLLAAL~g---lgIDN~~Ie--idg~EiPIlDGSA~~fv~~i~~a 124 (296)
++.+....+++..+.- .--++.||+. +.++||.|.+.. .|+.++.|- .||-.+| -.||..|++.|++.
T Consensus 13 n~~l~~~~~~~k~~~~~lHL~GL~SdGGVH-ShidHl~al~~~a~~~gv~~v~lH~f~DGRDt~--P~Sa~~yl~~l~~~ 89 (223)
T pfam06415 13 NPALLAAIDHVKKNNGALHLIGLLSDGGVH-SHIDHLFALLKLAKERGVKKVYIHAFTDGRDVA--PKSAKGFLEELEAF 89 (223)
T ss_pred CHHHHHHHHHHHHCCCEEEEEEEECCCCCC-CCHHHHHHHHHHHHHHCCCEEEEEEEECCCCCC--CHHHHHHHHHHHHH
T ss_conf 999999999999739859999941499763-247999999999997188708999860688888--36799999999997
No 64
>TIGR00009 L28 ribosomal protein L28; InterPro: IPR001383 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . The ribosomal L28 protein family include proteins from bacteria and chloroplasts. The L24 protein from yeast, found in the large subunit of the mitochodrial ribosome, contains a region similar to the bacterial L28 protein.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome.
Probab=22.19 E-value=29 Score=16.05 Aligned_cols=19 Identities=26% Similarity=0.550 Sum_probs=16.2
Q ss_pred EEEEEECCCCEEEEEEEEC
Q ss_conf 9999703797789999837
Q gi|254781175|r 19 ITGIGIHSGKRANLKLCPA 37 (296)
Q Consensus 19 ~~GiGLHsG~~~~i~l~PA 37 (296)
--|||+||...+.=++.|=
T Consensus 26 kgG~G~Hs~~~tkRrf~PN 44 (70)
T TIGR00009 26 KGGVGRHSHRKTKRRFKPN 44 (70)
T ss_pred CCCCCCCCCCCCCEEECCC
T ss_conf 4871601046632243666
No 65
>KOG2052 consensus
Probab=22.08 E-value=45 Score=14.84 Aligned_cols=42 Identities=26% Similarity=0.343 Sum_probs=33.5
Q ss_pred CCHHHCCEEEEEEE-----------EECCCCEEEEEEEECCCCCCEEEEEEECC
Q ss_conf 17110751999999-----------70379778999983788871899980568
Q gi|254781175|r 9 LQHTIADSITITGI-----------GIHSGKRANLKLCPAPEGVGILFKCTQSG 51 (296)
Q Consensus 9 ~Q~Ti~~~v~~~Gi-----------GLHsG~~~~i~l~PA~~~~GI~F~R~dl~ 51 (296)
-|+||++-|.+.++ |..-|+.|.|++.-+ -+.--||+-+++-
T Consensus 205 VQRTiarqI~L~e~IGkGRyGEVwrG~wrGe~VAVKiF~s-rdE~SWfrEtEIY 257 (513)
T KOG2052 205 VQRTIARQIVLQEIIGKGRFGEVWRGRWRGEDVAVKIFSS-RDERSWFRETEIY 257 (513)
T ss_pred HHHHHHHEEEEEEEECCCCCCCEEECCCCCCCEEEEEECC-CCHHHHHHHHHHH
T ss_conf 7776544068898862766520530311277268998414-6436555378898
No 66
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=21.69 E-value=63 Score=13.95 Aligned_cols=141 Identities=14% Similarity=0.150 Sum_probs=65.7
Q ss_pred CHHHCCEEEEEEEE------ECCCCEE---EEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHH---HHHHCCCCCCE
Q ss_conf 71107519999997------0379778---999983788871899980568888626310998666---32201347631
Q gi|254781175|r 10 QHTIADSITITGIG------IHSGKRA---NLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLR---TTLSTTIGSSS 77 (296)
Q Consensus 10 Q~Ti~~~v~~~GiG------LHsG~~~---~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~---t~~~T~L~~~~ 77 (296)
.=-|-+.+++.|.| ++||.-. ++.++|+..-. |+. .|+++-..|-. .+| +.|.-.|
T Consensus 176 RL~IDRvFsvkG~GTVVTGTl~sG~v~~GD~l~i~P~~~~~-----rVR------~iQ~h~~~v~~a~aG~R-~AlNL~G 243 (615)
T PRK10512 176 RLAIDRAFTVKGAGLVVTGTALSGEVKVGDTLWLTGVNKPM-----RVR------ALHAQNQPTETAHAGQR-IALNIAG 243 (615)
T ss_pred EEEEEEEEECCCCCEEEEEEEECCEECCCCEEEECCCCCEE-----EEE------EHHHCCCCCCEECCCCE-EEEEECC
T ss_conf 78831189626885699999814714269989986999679-----873------47767981557327745-9996125
Q ss_pred -EEEEEHH---HHHHHHHHHHHEEEEEEECCCCCCCCC--------CCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEE
Q ss_conf -5886489---989999872000599996488783005--------8289999988544554447875147704634998
Q gi|254781175|r 78 -CQVRTIE---HLMAALYAYGIDNVIIEIDSTEVPIMD--------GSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRIT 145 (296)
Q Consensus 78 -~~V~TVE---HLLAAL~glgIDN~~Ieidg~EiPIlD--------GSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~ 145 (296)
+...-|+ -|.+.=....-+-+.+.++.+ -|+-. |++.-... + .-.+..--.++..+|+.+.
T Consensus 244 ~v~~~~i~RGd~L~~~~~~~~~~~~~v~l~~~-~~lk~~~~v~l~~Gt~~v~~r----v--~ll~~~~aqL~Le~pv~~~ 316 (615)
T PRK10512 244 DAEKEQINRGDWLLADAPPEPFTRVIVELQTH-TPLTQWQPLHIHHAASHVTGR----V--SLLEDNLAELVFDTPLWLA 316 (615)
T ss_pred CCCHHHCCCCCEEECCCCCCCEEEEEEEECCC-CCCCCCCEEEEEECCCCEEEE----E--EECCCCEEEEEECCCEEEE
T ss_conf 44672317866892388877535999995789-986589379999645102799----9--9548846999978945455
Q ss_pred ECCEEEEEECCCCCEEEEE--EEECCC
Q ss_conf 1771465414766337899--970884
Q gi|254781175|r 146 SGESWAEFSPHCSMRFEIS--IEFKNS 170 (296)
Q Consensus 146 ~~~~~i~~~P~~~l~i~~~--idf~~~ 170 (296)
-|++||--.+|..-.|--. +| +++
T Consensus 317 ~GDRfIlR~~Sp~~TIGGG~VLd-~~~ 342 (615)
T PRK10512 317 DNDRLVLRDISARNTLAGARVVM-LNP 342 (615)
T ss_pred CCCEEEEECCCCCEEEEEEEEEC-CCC
T ss_conf 39768996288882676279968-888
No 67
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=21.55 E-value=62 Score=14.00 Aligned_cols=45 Identities=13% Similarity=0.302 Sum_probs=30.1
Q ss_pred CC-CCCCCCCCHHHHHHHHHHCCCCCCCCC--CCEEEECCCEEEEECC
Q ss_conf 88-783005828999998854455444787--5147704634998177
Q gi|254781175|r 104 ST-EVPIMDGSAKAFVEVIERIGIKTLTAK--RRYLRIIKSVRITSGE 148 (296)
Q Consensus 104 g~-EiPIlDGSA~~fv~~i~~aGi~eq~~~--r~~~~i~~~v~v~~~~ 148 (296)
|| =.-|-|||...|+-++.+||.+....- -...++.-.+...++.
T Consensus 15 GPTIFti~Detg~v~~AAFeeaGvRAyPev~~gdiV~v~G~V~~r~g~ 62 (73)
T cd04487 15 GPTIFTLRDETGTVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEPRDGQ 62 (73)
T ss_pred CCEEEEEECCCCCEEHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCE
T ss_conf 999999975999698205130674128887889889999899970885
No 68
>PRK13277 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase-like protein; Provisional
Probab=21.12 E-value=65 Score=13.87 Aligned_cols=50 Identities=22% Similarity=0.342 Sum_probs=32.1
Q ss_pred HHHEEEEEEECCCCCCCCC----------CCHHHHHHHHHHCCCCCCCCCCCEEEECCCEEEE
Q ss_conf 2000599996488783005----------8289999988544554447875147704634998
Q gi|254781175|r 93 YGIDNVIIEIDSTEVPIMD----------GSAKAFVEVIERIGIKTLTAKRRYLRIIKSVRIT 145 (296)
Q Consensus 93 lgIDN~~Ieidg~EiPIlD----------GSA~~fv~~i~~aGi~eq~~~r~~~~i~~~v~v~ 145 (296)
+|+||+. +.-.+|++- .--..+..++++||+.--..-+.+=.|.+||.|+
T Consensus 96 ~G~d~iE---~~~~VP~FGNR~lLrwEer~~~~~~~~LLe~Agi~~Pk~~~~PeeIDr~VIVK 155 (363)
T PRK13277 96 VGYDAIE---NEFPVPIFGNRYLLRWEERTGEKNYYRLLEKAGIPRPRTFKPPEEIDRPVIVK 155 (363)
T ss_pred ECHHHHH---CCCCCCEECCHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCHHHCCCCEEEE
T ss_conf 4488885---06888711475663223451167899999867999870059966678526997
No 69
>PRK09014 rfaH transcriptional activator RfaH; Provisional
Probab=20.92 E-value=65 Score=13.85 Aligned_cols=61 Identities=18% Similarity=0.053 Sum_probs=32.0
Q ss_pred EECCCCEEEEEEEECCCCCCEEEEEEECCCCCCEEECCHHHHHHHHHHCCC-CCCEEEEEEHHHHHHHHHH
Q ss_conf 703797789999837888718999805688886263109986663220134-7631588648998999987
Q gi|254781175|r 23 GIHSGKRANLKLCPAPEGVGILFKCTQSGGITDSLSALWSNVLRTTLSTTI-GSSSCQVRTIEHLMAALYA 92 (296)
Q Consensus 23 GLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~~~~I~A~~~~V~~t~~~T~L-~~~~~~V~TVEHLLAAL~g 92 (296)
-.++|+...+ ..| -=.|++|+|.|.+.. +|..+.+|.-.+.+ ..++.-..--+..+.+|..
T Consensus 37 ~~~~~k~~~~-~~p--LFPgYlFv~~~~~~~------~~~~I~~t~GV~~~v~~g~~p~~v~~~~I~~l~~ 98 (162)
T PRK09014 37 KIVRGKRTEV-SEP--LFPNYLFVEFDPEVI------HTTTIRATRGVSHFVRFGAQPAIVPSDVIYQLKA 98 (162)
T ss_pred EEECCEEEEE-EEE--CCCCEEEEEECCCCC------CEEEEECCCCCCEEECCCCEECCCCHHHHHHHHH
T ss_conf 9979918999-896--467179999635767------7010406899058977899934189999999871
No 70
>PRK05434 phosphoglyceromutase; Provisional
Probab=20.81 E-value=66 Score=13.83 Aligned_cols=99 Identities=21% Similarity=0.337 Sum_probs=52.1
Q ss_pred EEECCCCEEEEEEEECCCCCCEEEEEEECCCC-----------CCEEECCHHHHHHHH----HHCCCCCCEEEEEEHHHH
Q ss_conf 97037977899998378887189998056888-----------862631099866632----201347631588648998
Q gi|254781175|r 22 IGIHSGKRANLKLCPAPEGVGILFKCTQSGGI-----------TDSLSALWSNVLRTT----LSTTIGSSSCQVRTIEHL 86 (296)
Q Consensus 22 iGLHsG~~~~i~l~PA~~~~GI~F~R~dl~~~-----------~~~I~A~~~~V~~t~----~~T~L~~~~~~V~TVEHL 86 (296)
|||-.|+-=+=.+==-.-+.|.++. .|+.-. ++.+...++++..+. +.--++.+|+. +.++||
T Consensus 53 VGLP~GqMGNSEVGHlniGAGRiv~-Qdl~rIn~aI~~gsf~~n~~l~~~i~~~k~~~~~lHl~GLlSdGGVH-SH~~Hl 130 (511)
T PRK05434 53 VGLPDGQMGNSEVGHLNIGAGRIVY-QDLTRINKAIEDGSFFENPALLDAIDKAKKNGGALHLMGLLSDGGVH-SHIDHL 130 (511)
T ss_pred CCCCCCCCCCHHHHHHCCCCCEEEC-CCHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCEEEEEEECCCCCC-CCHHHH
T ss_conf 5998888654566441016662361-54499999986498335999999999999739816999852388431-337899
Q ss_pred HHHHHH---HHHEEEEEE--ECCCCCCCCCCCHHHHHHHHHHC
Q ss_conf 999987---200059999--64887830058289999988544
Q gi|254781175|r 87 MAALYA---YGIDNVIIE--IDSTEVPIMDGSAKAFVEVIERI 124 (296)
Q Consensus 87 LAAL~g---lgIDN~~Ie--idg~EiPIlDGSA~~fv~~i~~a 124 (296)
.|-+.. .|+.++.|- .||-.+| -.||..|++.+++.
T Consensus 131 ~al~~~a~~~gv~~v~vH~f~DGRDt~--P~Sa~~yl~~le~~ 171 (511)
T PRK05434 131 FALLELAAKEGVKKVYLHAFLDGRDTP--PKSALGYLEELEAK 171 (511)
T ss_pred HHHHHHHHHCCCCCEEEEEECCCCCCC--CHHHHHHHHHHHHH
T ss_conf 999999997088848999851688888--42589999999998
No 71
>pfam02861 Clp_N Clp amino terminal domain. This short domain is found in one or two copies at the amino terminus of ClpA and ClpB proteins from bacteria and eukaryotes. The function of these domains is uncertain but they may form a protein binding site.
Probab=20.75 E-value=53 Score=14.40 Aligned_cols=14 Identities=43% Similarity=0.456 Sum_probs=10.5
Q ss_pred EEEEHHHHHHHHHH
Q ss_conf 88648998999987
Q gi|254781175|r 79 QVRTIEHLMAALYA 92 (296)
Q Consensus 79 ~V~TVEHLLAAL~g 92 (296)
.--++||||.||..
T Consensus 11 ~~i~~EHlLlall~ 24 (53)
T pfam02861 11 QYIGTEHLLLALLE 24 (53)
T ss_pred CCCCHHHHHHHHHH
T ss_conf 85349999999986
No 72
>PRK12736 elongation factor Tu; Reviewed
Probab=20.61 E-value=66 Score=13.81 Aligned_cols=56 Identities=13% Similarity=0.236 Sum_probs=33.1
Q ss_pred EECCCCCCEEECCHHHHHHHHHHCC-C-CCCEEEEEEHHHHHHHHHHHHHEEEEEEECC
Q ss_conf 0568888626310998666322013-4-7631588648998999987200059999648
Q gi|254781175|r 48 TQSGGITDSLSALWSNVLRTTLSTT-I-GSSSCQVRTIEHLMAALYAYGIDNVIIEIDS 104 (296)
Q Consensus 48 ~dl~~~~~~I~A~~~~V~~t~~~T~-L-~~~~~~V~TVEHLLAAL~glgIDN~~Ieidg 104 (296)
.|.|+-...++.-..-......+-- + +++|..=+|.|||+-+ ..|||.++.|.|+-
T Consensus 80 iD~PGH~~fi~nmi~Ga~~~D~alLVV~A~~G~~~QT~EHl~l~-~~lgv~~~IV~vnK 137 (394)
T PRK12736 80 VDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLA-RQVGVPYIVVFLNK 137 (394)
T ss_pred EECCCCHHHHCCEEEEECCCCEEEEEEECCCCCHHHHHHHHHHH-HHHCCCCEEEEEEC
T ss_conf 88897254311044435346658999985877467799999999-98299915999988
No 73
>PHA00442 host recBCD nuclease inhibitor
Probab=20.57 E-value=46 Score=14.82 Aligned_cols=17 Identities=35% Similarity=0.307 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHEEEEEE
Q ss_conf 98999987200059999
Q gi|254781175|r 85 HLMAALYAYGIDNVIIE 101 (296)
Q Consensus 85 HLLAAL~glgIDN~~Ie 101 (296)
..|-||.+||+||--=.
T Consensus 30 efL~al~acgvdnwdgy 46 (59)
T PHA00442 30 EFLKALKACGVDNWDGY 46 (59)
T ss_pred HHHHHHHHCCCCCHHHH
T ss_conf 99999997287651456
No 74
>PRK12271 rps10p 30S ribosomal protein S10P; Reviewed
Probab=20.43 E-value=67 Score=13.78 Aligned_cols=31 Identities=26% Similarity=0.452 Sum_probs=27.5
Q ss_pred EEEEEECCCCCCCCCCCHHHHHHHHHHCCCC
Q ss_conf 5999964887830058289999988544554
Q gi|254781175|r 97 NVIIEIDSTEVPIMDGSAKAFVEVIERIGIK 127 (296)
Q Consensus 97 N~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~ 127 (296)
-+.|.+.+-....||.|+...++..++.|..
T Consensus 3 kiRIkL~S~d~~~Ld~~~~~I~~~ak~tg~~ 33 (102)
T PRK12271 3 KARIRLSGTNPEDLDGVCNQIKEIAEKTGVK 33 (102)
T ss_pred EEEEEEEECCHHHHHHHHHHHHHHHHHCCCE
T ss_conf 3999999778889999999999999973997
No 75
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=20.33 E-value=67 Score=13.77 Aligned_cols=23 Identities=39% Similarity=0.437 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHEEEEEEECCCC
Q ss_conf 99899998720005999964887
Q gi|254781175|r 84 EHLMAALYAYGIDNVIIEIDSTE 106 (296)
Q Consensus 84 EHLLAAL~glgIDN~~Ieidg~E 106 (296)
.-++|+|..+||.|--|-+|++|
T Consensus 27 PE~~a~lk~agi~nYSIfLde~~ 49 (105)
T COG3254 27 PELLALLKEAGIRNYSIFLDEEE 49 (105)
T ss_pred HHHHHHHHHCCCCEEEEEECCCC
T ss_conf 89999999849850368864876
No 76
>COG4308 LimA Limonene-1,2-epoxide hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.25 E-value=27 Score=16.25 Aligned_cols=23 Identities=30% Similarity=0.426 Sum_probs=17.7
Q ss_pred EEEHHHHHHHHHHHHHEEEEEEE
Q ss_conf 86489989999872000599996
Q gi|254781175|r 80 VRTIEHLMAALYAYGIDNVIIEI 102 (296)
Q Consensus 80 V~TVEHLLAAL~glgIDN~~Iei 102 (296)
++||||.|+||--.+-|++.=.+
T Consensus 9 i~~V~aF~aA~~~~d~~~avr~~ 31 (130)
T COG4308 9 IRTVEAFLAALQEDDGDAAVRRL 31 (130)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHH
T ss_conf 79999999987763754888871
No 77
>PRK05784 phosphoribosylamine--glycine ligase; Provisional
Probab=20.09 E-value=68 Score=13.74 Aligned_cols=41 Identities=20% Similarity=0.304 Sum_probs=28.3
Q ss_pred EEEHHHHHHHHHHHHHEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCC
Q ss_conf 864899899998720005999964887830058289999988544554
Q gi|254781175|r 80 VRTIEHLMAALYAYGIDNVIIEIDSTEVPIMDGSAKAFVEVIERIGIK 127 (296)
Q Consensus 80 V~TVEHLLAAL~glgIDN~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~ 127 (296)
+.-++.+....--.+||=+.| |||.|+.+|= ++.++++|+.
T Consensus 55 ~~d~~~i~~fa~~~~IDLvvV---GPE~PL~~Gi----~D~l~~~gi~ 95 (485)
T PRK05784 55 PTSPGEVVKAAEEVSPDLVVI---GPEEPLFAGV----ADALREEGFP 95 (485)
T ss_pred CCCHHHHHHHHHHCCCCEEEE---CCHHHHHHHH----HHHHHHCCCC
T ss_conf 779999999999819999998---9738876125----8999737990
No 78
>TIGR01049 rpsJ_bact ribosomal protein S10; InterPro: IPR005731 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . Included in the family are one member each from Saccharomyces cerevisiae and Schizosaccharomyces pombe. These proteins lack an N-terminal mitochondrial transit peptide but contain additional sequence C-terminal to the ribosomal S10 protein region.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=20.02 E-value=68 Score=13.73 Aligned_cols=50 Identities=26% Similarity=0.375 Sum_probs=37.1
Q ss_pred EEEEEECCCCCCCCCCCHHHHHHHHHHCCCC-----CCCCCCCEEE-ECCCEEEEE
Q ss_conf 5999964887830058289999988544554-----4478751477-046349981
Q gi|254781175|r 97 NVIIEIDSTEVPIMDGSAKAFVEVIERIGIK-----TLTAKRRYLR-IIKSVRITS 146 (296)
Q Consensus 97 N~~Ieidg~EiPIlDGSA~~fv~~i~~aGi~-----eq~~~r~~~~-i~~~v~v~~ 146 (296)
-+.|.+.|=+-.+||-|+..-|+..++.|.. .+...++.|. ++.|....+
T Consensus 2 kiRIkLksyD~~~LD~s~~~Iv~t~~~~ga~~~GPiPLPTk~~~~TVLRSPHv~K~ 57 (99)
T TIGR01049 2 KIRIKLKSYDHRLLDQSAKKIVETVKRTGAKVKGPIPLPTKKERYTVLRSPHVNKD 57 (99)
T ss_pred CEEEEEEECCHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCEEEEEECCCCCCCC
T ss_conf 52677520583578899999999888618802478989975137887237751666
Done!