Query 040494
Match_columns 217
No_of_seqs 238 out of 1077
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 09:01:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040494.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040494hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11081 tRNA guanosine-2'-O-m 100.0 3.3E-40 7.1E-45 282.6 17.4 144 2-146 18-164 (229)
2 COG0566 SpoU rRNA methylases [ 100.0 4.2E-39 9.1E-44 280.7 16.0 142 3-146 109-256 (260)
3 PF00588 SpoU_methylase: SpoU 100.0 6.4E-39 1.4E-43 254.9 12.9 135 4-141 2-142 (142)
4 PRK11181 23S rRNA (guanosine-2 100.0 2E-38 4.3E-43 274.1 16.7 142 3-146 95-241 (244)
5 TIGR00186 rRNA_methyl_3 rRNA m 100.0 9.8E-38 2.1E-42 268.7 17.4 142 3-146 90-236 (237)
6 PRK10864 putative methyltransf 100.0 3.6E-37 7.7E-42 277.2 17.1 142 3-146 198-343 (346)
7 TIGR00185 rRNA_methyl_2 rRNA m 100.0 8.4E-37 1.8E-41 247.0 15.7 138 4-146 2-146 (153)
8 PRK10358 putative rRNA methyla 100.0 2.1E-34 4.6E-39 234.1 16.7 139 4-147 2-148 (157)
9 TIGR00050 rRNA_methyl_1 RNA me 100.0 5.4E-32 1.2E-36 232.6 14.3 137 2-145 2-155 (233)
10 PRK15114 tRNA (cytidine/uridin 100.0 3.2E-31 7E-36 229.3 15.5 139 2-145 3-158 (245)
11 PRK10433 putative RNA methyltr 100.0 5E-30 1.1E-34 219.6 15.0 139 2-145 1-157 (228)
12 COG0219 CspR Predicted rRNA me 100.0 1.7E-27 3.7E-32 190.6 15.3 144 3-150 2-152 (155)
13 COG0565 LasT rRNA methylase [T 99.9 1.4E-26 3E-31 198.3 12.9 139 2-145 3-158 (242)
14 KOG2506 SpoU rRNA Methylase fa 99.9 1.1E-25 2.3E-30 197.5 7.2 139 3-145 217-369 (371)
15 KOG0838 RNA Methylase, SpoU fa 99.9 1.2E-24 2.7E-29 186.6 11.9 142 4-145 112-269 (271)
16 KOG0839 RNA Methylase, SpoU fa 99.9 4.3E-22 9.4E-27 195.4 8.5 144 3-147 1326-1475(1477)
17 PF09936 Methyltrn_RNA_4: SAM- 98.9 5.7E-09 1.2E-13 86.2 7.7 122 17-143 30-182 (185)
18 KOG0838 RNA Methylase, SpoU fa 98.7 3.4E-10 7.3E-15 97.9 -4.8 197 5-215 51-268 (271)
19 PRK03958 tRNA 2'-O-methylase; 98.7 1.4E-07 3E-12 77.8 10.8 116 20-145 22-149 (176)
20 COG4080 SpoU rRNA Methylase fa 98.3 7.7E-06 1.7E-10 64.8 10.5 138 2-145 1-145 (147)
21 COG4752 Uncharacterized protei 98.0 8E-06 1.7E-10 65.8 4.5 127 15-143 29-183 (190)
22 PF09895 DUF2122: RecB-family 96.6 0.021 4.5E-07 43.6 8.5 85 53-143 21-106 (106)
23 COG1303 Uncharacterized protei 96.4 0.055 1.2E-06 44.2 10.3 113 20-144 23-147 (179)
24 PRK12703 tRNA 2'-O-methylase; 95.9 0.14 3E-06 46.8 11.9 143 20-180 21-174 (339)
25 PRK02135 hypothetical protein; 92.7 0.63 1.4E-05 39.4 7.7 77 58-143 114-194 (201)
26 PF14419 SPOUT_MTase_2: AF2226 92.6 0.43 9.3E-06 39.1 6.3 121 16-143 18-169 (173)
27 PF01994 Trm56: tRNA ribose 2' 92.5 0.52 1.1E-05 36.7 6.4 82 54-144 7-93 (120)
28 PF04013 Methyltrn_RNA_2: Puta 92.5 0.59 1.3E-05 39.6 7.2 77 58-143 113-194 (199)
29 PF04407 DUF531: Protein of un 83.1 3.6 7.7E-05 33.8 5.6 49 92-143 119-167 (173)
30 COG1385 Uncharacterized protei 80.7 13 0.00028 32.4 8.7 133 4-141 79-238 (246)
31 PF04452 Methyltrans_RNA: RNA 79.9 14 0.0003 31.3 8.6 130 5-141 63-221 (225)
32 PRK00103 rRNA large subunit me 79.7 3.8 8.3E-05 33.3 4.8 48 93-146 98-145 (157)
33 COG4075 Uncharacterized conser 77.9 5.6 0.00012 30.1 4.8 61 12-78 11-73 (110)
34 PF02590 SPOUT_MTase: Predicte 75.4 3.8 8.3E-05 33.2 3.7 69 70-146 66-145 (155)
35 COG1772 Uncharacterized protei 72.0 7.2 0.00016 31.7 4.4 46 92-140 119-164 (178)
36 TIGR00246 tRNA_RlmH_YbeA rRNA 64.4 9 0.0002 31.0 3.6 47 93-145 95-141 (153)
37 COG2379 GckA Putative glycerat 59.7 37 0.00079 31.9 7.0 70 59-141 259-343 (422)
38 COG1901 Uncharacterized conser 59.3 37 0.0008 28.7 6.3 78 58-144 112-193 (197)
39 cd06167 LabA_like LabA_like pr 53.0 48 0.001 25.5 6.0 95 15-119 52-148 (149)
40 PF13380 CoA_binding_2: CoA bi 50.7 43 0.00093 25.3 5.2 45 12-76 63-107 (116)
41 COG1576 Uncharacterized conser 49.9 39 0.00084 27.6 4.9 51 69-120 65-123 (155)
42 PF10126 Nit_Regul_Hom: Unchar 47.3 49 0.0011 25.4 4.8 62 12-79 11-74 (110)
43 PRK04171 ribosome biogenesis p 46.3 87 0.0019 27.0 6.8 84 51-144 129-216 (222)
44 TIGR00288 conserved hypothetic 44.9 42 0.00092 27.4 4.5 30 92-122 128-157 (160)
45 PRK03094 hypothetical protein; 44.7 50 0.0011 23.9 4.3 23 57-79 7-29 (80)
46 PRK11713 16S ribosomal RNA met 43.7 2E+02 0.0044 24.4 10.3 99 8-114 79-198 (234)
47 COG2106 Uncharacterized conser 43.5 22 0.00048 31.6 2.8 24 14-37 25-48 (272)
48 TIGR00046 RNA methyltransferas 42.7 2.1E+02 0.0046 24.3 10.3 106 6-115 79-206 (240)
49 PF02598 Methyltrn_RNA_3: Puta 39.5 57 0.0012 29.1 4.8 60 46-107 176-245 (291)
50 PF03698 UPF0180: Uncharacteri 39.3 49 0.0011 23.9 3.6 22 58-79 8-29 (80)
51 COG2242 CobL Precorrin-6B meth 38.7 1.8E+02 0.0039 24.4 7.4 88 13-101 67-185 (187)
52 PF02571 CbiJ: Precorrin-6x re 38.4 1.5E+02 0.0033 25.7 7.3 61 19-89 84-145 (249)
53 PRK01889 GTPase RsgA; Reviewed 36.2 2.6E+02 0.0057 25.4 8.8 36 3-38 114-152 (356)
54 cd04909 ACT_PDH-BS C-terminal 35.5 98 0.0021 20.4 4.6 64 6-74 4-69 (69)
55 PRK07206 hypothetical protein; 34.1 1.7E+02 0.0038 26.5 7.4 73 1-76 1-75 (416)
56 PF02598 Methyltrn_RNA_3: Puta 33.8 33 0.00072 30.6 2.4 21 17-37 24-44 (291)
57 PRK06769 hypothetical protein; 33.0 1.2E+02 0.0026 24.3 5.5 50 28-79 3-52 (173)
58 PF06849 DUF1246: Protein of u 29.8 1.6E+02 0.0035 23.1 5.3 66 58-124 7-74 (124)
59 PF15050 SCIMP: SCIMP protein 29.7 50 0.0011 25.9 2.5 26 132-162 19-44 (133)
60 cd06281 PBP1_LacI_like_5 Ligan 29.5 3.2E+02 0.007 22.5 8.5 18 61-78 69-86 (269)
61 cd04906 ACT_ThrD-I_1 First of 28.8 2.1E+02 0.0045 20.1 7.2 68 4-78 2-73 (85)
62 PF06880 DUF1262: Protein of u 28.4 76 0.0016 24.2 3.2 46 84-131 29-74 (104)
63 COG0794 GutQ Predicted sugar p 27.5 3.8E+02 0.0083 22.7 10.2 101 6-134 42-150 (202)
64 PRK13936 phosphoheptose isomer 26.7 42 0.0009 27.8 1.7 55 69-124 110-169 (197)
65 KOG0025 Zn2+-binding dehydroge 26.3 1.3E+02 0.0029 27.4 4.9 118 12-150 166-288 (354)
66 PF01936 NYN: NYN domain; Int 25.6 59 0.0013 24.6 2.3 28 92-120 118-145 (146)
67 cd04882 ACT_Bt0572_2 C-termina 25.5 1.8E+02 0.004 18.4 6.2 63 7-75 3-65 (65)
68 cd01423 MGS_CPS_I_III Methylgl 24.9 1.6E+02 0.0035 21.8 4.6 65 58-124 13-82 (116)
69 COG3876 Uncharacterized protei 24.5 2.8E+02 0.0061 25.6 6.6 66 94-171 105-171 (409)
70 TIGR02990 ectoine_eutA ectoine 24.1 1.5E+02 0.0032 25.6 4.7 45 17-78 108-152 (239)
71 COG2176 PolC DNA polymerase II 24.1 2.5E+02 0.0055 30.4 7.0 83 15-114 352-444 (1444)
72 KOG3040 Predicted sugar phosph 23.8 1.7E+02 0.0037 25.5 4.9 57 57-114 73-130 (262)
73 PF13407 Peripla_BP_4: Peripla 23.5 3.4E+02 0.0074 22.2 6.8 54 8-79 35-88 (257)
74 PRK11337 DNA-binding transcrip 22.6 3.5E+02 0.0076 23.3 6.9 53 69-125 186-243 (292)
75 PRK10886 DnaA initiator-associ 22.6 1.3E+02 0.0028 25.1 4.0 55 69-124 108-167 (196)
76 PRK13938 phosphoheptose isomer 22.4 2.4E+02 0.0052 23.5 5.6 68 69-144 112-184 (196)
77 PRK12288 GTPase RsgA; Reviewed 22.3 4.8E+02 0.01 23.7 7.9 93 3-107 122-219 (347)
78 COG3142 CutC Uncharacterized p 22.3 2.3E+02 0.0049 24.8 5.4 59 21-79 79-149 (241)
79 PRK08591 acetyl-CoA carboxylas 22.1 3.1E+02 0.0067 25.3 6.8 72 1-75 1-78 (451)
80 cd06299 PBP1_LacI_like_13 Liga 22.0 4.4E+02 0.0095 21.4 8.7 18 62-79 69-86 (265)
81 COG3870 Uncharacterized protei 21.5 3.2E+02 0.0069 20.8 5.4 51 53-109 6-56 (109)
82 COG0826 Collagenase and relate 21.3 1.5E+02 0.0032 27.2 4.4 76 3-78 64-144 (347)
83 TIGR00715 precor6x_red precorr 21.2 5.1E+02 0.011 22.5 7.6 52 18-78 82-136 (256)
84 PRK09989 hypothetical protein; 20.3 3.7E+02 0.0081 22.6 6.5 60 1-78 1-60 (258)
85 PF10096 DUF2334: Uncharacteri 20.2 3.1E+02 0.0067 23.5 5.9 70 4-77 2-74 (243)
86 PF04015 DUF362: Domain of unk 20.2 2.2E+02 0.0048 23.3 4.9 28 11-38 19-46 (206)
No 1
>PRK11081 tRNA guanosine-2'-O-methyltransferase; Provisional
Probab=100.00 E-value=3.3e-40 Score=282.59 Aligned_cols=144 Identities=29% Similarity=0.412 Sum_probs=134.3
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCC-C--CccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRD-F--NAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~-~--~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~ 78 (217)
++++||||+|+||+|+|+|+|||+|||++.|+++.+.. + ..++|+|+.+|+++.++.++.++++.|++.|+.|++++
T Consensus 18 ~~l~vvLd~V~~p~NlGAIiRta~AfGv~~V~~v~~~~~~~~~~~~s~Ga~~wv~i~~~~~~~~~i~~lk~~g~~i~at~ 97 (229)
T PRK11081 18 PDLTVCMEQVHKPHNVSAIIRTADAVGVHEVHAVWPGSRMRTMGSTAAGSNSWVQVKTHRTIGDAVAHLKGQGMQILATH 97 (229)
T ss_pred CCeEEEEeCCCCcchHHHHHHHHHHhCCCeEEEecCCCccchhhhhcCCchheEEEEEeCCHHHHHHHHHhCCCEEEEEe
Confidence 67999999999999999999999999999999986542 2 23689999999999999999999999999999999999
Q ss_pred ecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 79 ITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 79 ~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
..+++.++.++++++|++||||||+.|||+++++.||..|+|||.|+ ++|||||||+||+|||+.++
T Consensus 98 ~~~~a~~l~~~d~~~p~alV~GnE~~GlS~e~l~~~D~~v~IPM~G~-v~SLNVSvAaaIiLyE~~Rq 164 (229)
T PRK11081 98 LSDTAVDFREIDYTRPTCILMGQEKTGISQEALALADQDIIIPMIGM-VQSLNVSVASALILYEAQRQ 164 (229)
T ss_pred CCCCCccHhHhcccCCeEEEECCCCCCCCHHHHhcCCCEEEEeCCCC-CCceeHHHHHHHHHHHHHHh
Confidence 87888999999999999999999999999999999999999999996 99999999999999999554
No 2
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.2e-39 Score=280.72 Aligned_cols=142 Identities=35% Similarity=0.449 Sum_probs=130.7
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC--CCCc---cccCCCccceeeEEeC-CHHHHHHHhhhCCCcEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR--DFNA---FGSHGSTSHVNFRHFH-SLSDARVFLKSKDCDICG 76 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~--~~~~---~~s~Ga~~~~~i~~~~-s~~~~l~~l~~~g~~v~~ 76 (217)
.++|+||+|+||+|+|+|+|||+|||+++|++.+++ .+++ |+|+|+.+++|+.+.. +..++++.+++.||+|++
T Consensus 109 ~l~lvLd~V~DP~NlGaIiRtA~a~Gv~~Vi~~~~~~~~~~~~v~r~s~Ga~~~vp~~~~~n~~~~~~~~~~~~G~~v~~ 188 (260)
T COG0566 109 PLLLVLDGVTDPHNLGAIIRTADAFGVDGVILPKRRADPLNPKVIRASAGAAFHVPVIRVTNLARTLLELLKEAGFWVVA 188 (260)
T ss_pred CEEEEEecCcCCcchhhHHhhHHHhCCCEEEECCCccCCccceeEEecCChheeceeEEEeccHHHHHHHHHHcCeEEEE
Confidence 689999999999999999999999999999998754 3555 7899999999988887 677888888889999999
Q ss_pred EEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 77 VEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 77 ~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
++. .+..++++.++++|++||||||+.|||+++++.||..|+|||.|. ++|||||||+||+|||+.++
T Consensus 189 t~~-~~~~~~~~~~~~~~~aLvlG~Eg~Gls~~~~~~~D~~v~IPm~G~-v~SLNVsvAagI~Lye~~rq 256 (260)
T COG0566 189 TSL-DGEVDLYETDLPKKTALVLGNEGEGLSRLLLEHADQLVRIPMAGK-VESLNVSVAAGILLYEARRQ 256 (260)
T ss_pred ECC-CCCcchhhccccCCEEEEECCCCCCcCHHHHhhCCEEEEecCCCC-cchhHHHHHHHHHHHHHHHh
Confidence 997 447899999999999999999999999999999999999999996 99999999999999999665
No 3
>PF00588 SpoU_methylase: SpoU rRNA Methylase family; InterPro: IPR001537 The spoU gene of Escherichia coli codes for a protein that shows strong similarities to previously characterised 2'-O-methyltransferases [, ]. The Pet56 protein of Saccharomyces cerevisiae has been shown to be required for ribose methylation at a universally conserved nucleotide in the peptidyl transferase centre of the mitochondrial large ribosomal RNA (21S rRNA). Cells reduced in this activity were deficient in formation of functional large subunits of the mitochondrial ribosome. The Pet56 protein catalyzes the site-specific formation of 2'-O-methylguanosine on in vitro transcripts of both mitochondrial 21S rRNA and E. coli 23S rRNA providing evidence for an essential modified nucleotide in rRNA [].; GO: 0003723 RNA binding, 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 3N4J_A 3N4K_A 1IPA_A 3ONP_A 3NK6_A 3NK7_A 3IC6_A 1GZ0_D 1MXI_A 1J85_A ....
Probab=100.00 E-value=6.4e-39 Score=254.89 Aligned_cols=135 Identities=39% Similarity=0.567 Sum_probs=121.0
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc------cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA------FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~------~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
++|+|++|++|+|+|+|+|+|++||+++|+++++.++++ ++|+|+.+++|+..+.+++++++.++..||+++++
T Consensus 2 l~vvl~~~~~p~NlG~i~Rta~afG~~~v~l~~~~~~~~~~~~~~r~s~g~~~~~~~~~~~~~~~~l~~~~~~g~~i~~~ 81 (142)
T PF00588_consen 2 LIVVLDNVQDPGNLGAIIRTAAAFGVDGVILVGPRCADPYNPKVLRASAGAHEHLPIRRVDDLEEALKDLKENGYTIVAT 81 (142)
T ss_dssp EEEEEES-SSHHHHHHHHHHHHHTTESEEEEESSSSSTTTSHHHHHHTTTGHHCSHEEEESSHHHHHHHHHHTTEEEEEE
T ss_pred EEEEEeCCCCcCcHHHHHHHHHHhCCchhheeccccccccccccccccCChhhhhheeeeehhhhhccccccccccccee
Confidence 689999999999999999999999999999998766544 67999999999999999999999999999999999
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHH
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLH 141 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~ 141 (217)
+. +++++++++|+++++||||||+.|||+++++.||.+|+|||.|. ++|||||+|++|+||
T Consensus 82 ~~--~~~~~~~~~~~~~~~lv~G~E~~Gls~~~~~~~d~~v~IP~~~~-~~SLNva~A~~I~ly 142 (142)
T PF00588_consen 82 SP--GATPLYELDFPKKVALVFGNESRGLSEEVLELCDHRVSIPMYGG-VDSLNVAVAAAIALY 142 (142)
T ss_dssp ST--TSCEGGGSHTTSSEEEEEEBTTTBS-HHHHHTSSEEEE---STT-SSS--HHHHHHHHHH
T ss_pred ee--ccccccccccccceEEEEcCcCCCCCcccccccceEEEEcCCCC-CCeeEHHHHHHHHHC
Confidence 86 77899999999999999999999999999999999999999995 999999999999998
No 4
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=100.00 E-value=2e-38 Score=274.10 Aligned_cols=142 Identities=28% Similarity=0.383 Sum_probs=131.0
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC--CCCc---cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR--DFNA---FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~--~~~~---~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
.++|+||+|+||+|+|+|+|||++||+++|++.+.. .+++ ++|+|+.+|+|+.++.++.++++.|++.|++++++
T Consensus 95 ~~~lvLd~v~dp~NlGai~Rta~a~G~~~vi~~~~~~~~~~~~~~r~s~Ga~~~l~~~~~~~~~~~l~~l~~~g~~i~~t 174 (244)
T PRK11181 95 PFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAETVPLIRVTNLARTMRMLQEKNIWIVGT 174 (244)
T ss_pred CEEEEEcCCCCcchHHHHHHHHHHcCCCEEEECCCCCCCCCCceEEecCCHHHcCeEEEcCCHHHHHHHHHHCCCEEEEE
Confidence 479999999999999999999999999999987644 3555 68999999999999999999999999999999999
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
+. +++.++++.++++|++||||||+.|||+++++.||.+|+|||.|. ++|||||+|+||+|||+.++
T Consensus 175 ~~-~~~~~~~~~~~~~~~alv~G~E~~Gls~~~~~~~d~~v~IPm~g~-~~SLNvsvAaaI~lye~~rq 241 (244)
T PRK11181 175 AG-EADHTLYQSKLTGPLALVMGAEGEGMRRLTREHCDELISIPMAGS-VSSLNVSVATGICLFEAVRQ 241 (244)
T ss_pred eC-CCCcchhhcCCCCCEEEEECCCCCCcCHHHHHhCCEEEEEcCCCC-CceeeHHHHHHHHHHHHHHh
Confidence 85 556778889999999999999999999999999999999999996 99999999999999999754
No 5
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=100.00 E-value=9.8e-38 Score=268.68 Aligned_cols=142 Identities=34% Similarity=0.475 Sum_probs=129.7
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC--CCCc---cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR--DFNA---FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~--~~~~---~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
+++|+||+|+||+|+|+|+|||++||+++|++++.. .+++ |+|+|+.+|+|+.++.++.++++.++++||.++++
T Consensus 90 ~~~lvLd~v~dp~NlGaI~Rta~afG~~~vil~~~~~~~~~~~~~r~s~Ga~~~l~~~~~~~~~~~l~~l~~~g~~i~~~ 169 (237)
T TIGR00186 90 PFLLILDEITDPHNLGAILRTAEAFGVDGVILPKRRSAPLNSTVVKTSSGAVEYVPLARVTNLSRTITKLKESGFWTVGT 169 (237)
T ss_pred CEEEEEcCCCCCccHHHHHHHHHHcCCCEEEECCCCcCCCCCceeeeeccccceeEEEEeCCHHHHHHHHHHCCCEEEEE
Confidence 579999999999999999999999999999998754 2455 78999999999999999999999999999999999
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
+.... ..+++.++++|++||||||+.|||+++++.||.+|+|||.|. ++|||||+|+||+|||+.++
T Consensus 170 ~~~~~-~~~~~~~~~~~~~lv~GnE~~Gls~~~l~~~d~~v~IP~~g~-~~SLNVsvAaaI~lye~~rq 236 (237)
T TIGR00186 170 DLDAQ-DTLYQVKLTKPLALVVGNEGEGVSRLIKENCDFLIKIPMAGK-VDSLNVSVAAGILLFEIKRQ 236 (237)
T ss_pred ecCCC-ccccccccCCCEEEEECCCCCCcCHHHHHhCCEEEEECCCCC-CCcchHHHHHHHHHHHHHhc
Confidence 96443 446778899999999999999999999999999999999996 99999999999999999664
No 6
>PRK10864 putative methyltransferase; Provisional
Probab=100.00 E-value=3.6e-37 Score=277.16 Aligned_cols=142 Identities=22% Similarity=0.280 Sum_probs=130.6
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCC-CCc---cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRD-FNA---FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~-~~~---~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~ 78 (217)
.++|+||+|+||+|+|+|+|||++||+++|++.+... +++ ++|+|+.+++|+..+.++.++++.|++.||+|++++
T Consensus 198 ~~vlvLd~I~DP~NlGaIiRTA~afGv~~Vil~~~~~~~~~kvvRaS~Ga~~~v~i~~~~nl~~~L~~lk~~G~~Iv~t~ 277 (346)
T PRK10864 198 DCVLALEDVGNPHNLGGIMRSCAHFGVKGVVVQDAALLESGAAIRTAEGGAEHVQPITGDSFVDVLDDFRQAGYTIVTTS 277 (346)
T ss_pred CeEEEEeCCCCCCcHHHHHHHHHHhCCCEEEECCCCCCCchhHHHHhcChhhcceEEEeCCHHHHHHHHHHCCCEEEEEe
Confidence 4799999999999999999999999999999986432 344 679999999999999999999999999999999998
Q ss_pred ecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 79 ITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 79 ~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
. .+..++++++++++++||||||+.|||+++++.||.+|+|||.|. ++|||||+|+||+|||++++
T Consensus 278 ~-~~~~~l~~~~~~~k~aLV~GnE~~GLs~~vl~~~D~~V~IPm~G~-veSLNVSvAaaI~LyE~~Rq 343 (346)
T PRK10864 278 S-HKGTPLFKASLPAKMVLVLGQEYDGLSDAARQQGDLSVSIDGTGN-VESLNVSVATGVLLAEWWRQ 343 (346)
T ss_pred C-CCCcchhhcccCCCeEEEECCCCCCCCHHHHHhCCEEEEECCCCC-CCCeEHHHHHHHHHHHHHHh
Confidence 6 445789999999999999999999999999999999999999996 99999999999999999654
No 7
>TIGR00185 rRNA_methyl_2 rRNA methylase, putative, group 2. this is part of the trmH (spoU) family of rRNA methylases
Probab=100.00 E-value=8.4e-37 Score=246.98 Aligned_cols=138 Identities=17% Similarity=0.148 Sum_probs=121.9
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCC---c---cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFN---A---FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~---~---~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
+.|||++|+||+|+|+|+|||++||++.+++ .+.+++ + ++++|+.+++|+.++.++.++++.|++.| ++++
T Consensus 2 ~~vvL~~v~dP~NlG~iiRta~afGv~~vi~-~~~~~~~~~~~~~ra~~~~~~~~~~~~~~~~~~~l~~l~~~g--v~~~ 78 (153)
T TIGR00185 2 LNIVLYEPEIPPNTGNIARTCAATGTRLHLI-EPLGFFLDDKRLKRAGLDYWEFVQLFYHKSWEEFLEAEKPQK--LFAL 78 (153)
T ss_pred eEEEEcCCCCCChHHHHHHHHHHhCCEEEEE-CCCCCCCccHHHHhhccchHhcCCeEEeCCHHHHHHhCcCCC--EEEE
Confidence 5799999999999999999999999975655 443332 2 56888899999999999999999999888 7777
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhC-CcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEIC-DFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~c-D~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
+. .++.++++++++.|.+||||||+.|||+++++.| |..|+|||.|. ++|||||+|++|+|||+.++
T Consensus 79 ~~-~~~~~~~~~~~~~~~alv~GnE~~Gls~~~l~~~~d~~v~IP~~g~-~~SLNvavA~aI~lye~~rq 146 (153)
T TIGR00185 79 TK-KGTPAHSQVTYKLGDYLMFGPETRGLPQSILDNMMEQKIRIPMTNN-VRSLNLSNSVAIVVYEAWRQ 146 (153)
T ss_pred eC-CCCCcceeeccCCCCEEEECCCCCCCCHHHHhhCCCCEEEEcCCCC-CcchHHHHHHHHHHHHHHHc
Confidence 75 4677788889999999999999999999999999 99999999996 99999999999999999765
No 8
>PRK10358 putative rRNA methylase; Provisional
Probab=100.00 E-value=2.1e-34 Score=234.06 Aligned_cols=139 Identities=14% Similarity=0.166 Sum_probs=114.1
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC--CCCcc--ccCCCc--cceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR--DFNAF--GSHGST--SHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~--~~~~~--~s~Ga~--~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
+.|||++|+||+|+|+|+|||+|||++ ++++.+. .++++ .++|+. .++++..+.++.++++.+ .+++++++
T Consensus 2 ~~ivL~~~~dPgNlGti~Rta~a~G~~-~viv~~~~d~~~~k~~raag~~~~~~~~~~~~~~l~~~l~~~--~~~~v~~~ 78 (157)
T PRK10358 2 LNIVLFEPEIPPNTGNIIRLCANTGFR-LHIIEPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYAAFLEAE--NPQRLFAL 78 (157)
T ss_pred eEEEEeCCCCcChHHHHHHHHHHhCCE-EEEECCCCCCCChHHHHhcccccccceeeEEcCCHHHHHHhC--CCceEEEE
Confidence 679999999999999999999999996 5555554 35552 124555 444566778999888743 35789999
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhh--CCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhcc
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEI--CDFFVYIPQYGGGTASLNVTVAASIVLHHFGVWA 147 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~--cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~ 147 (217)
+. .+...+.+.+++++.+||||||++|||+++++. ||..|+|||.|. ++|||||+|++|+|||+.++.
T Consensus 79 ~~-~~~~~~~~~~~~~~~~lvfGnE~~GLs~~~~~~~~~d~~v~IPm~~~-~eSLNvAvA~aI~lyE~~rqr 148 (157)
T PRK10358 79 TT-KGTPAHSAVSYQDGDYLMFGPETRGLPASILDALPAEQKIRIPMMPD-SRSMNLSNAVSVVVYEAWRQL 148 (157)
T ss_pred eC-CCCCCccccccCCCcEEEECCCCCCCCHHHHhcCCCCeEEEEcCCCC-CccchHHHHHHHHHHHHHHhh
Confidence 86 455566777788899999999999999999998 899999999995 999999999999999997653
No 9
>TIGR00050 rRNA_methyl_1 RNA methyltransferase, TrmH family, group 1. This is part of the trmH (spoU) family of S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases, and is now characterized, in E. coli, as a tRNA:Cm32/Um32 methyltransferase. It may be named TrMet(Xm32), or TrmJ, according to the nomenclature style chosen
Probab=99.98 E-value=5.4e-32 Score=232.64 Aligned_cols=137 Identities=21% Similarity=0.354 Sum_probs=116.6
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCC-CCc---cccCCCccceee-EEeCCHHHHHHHhhhCCCcEEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRD-FNA---FGSHGSTSHVNF-RHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~-~~~---~~s~Ga~~~~~i-~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
+++.|||++|++|+|+|+|+|+|++||++.+++++|++ +++ +.|+|+.++++. ..+++++++++.+. .+++
T Consensus 2 ~~i~vvL~~~~~p~NiGaiaR~~~~fG~~~l~lv~p~~~~~~~a~~~a~ga~~~l~~~~v~~~l~eal~~~~----~vv~ 77 (233)
T TIGR00050 2 ENIRIVLVEPSHSGNIGSIARAMKNMGLTELCLVNPKSHLEEEAYALAAGARDILDNAKVVDDLDEALDDCD----LVVG 77 (233)
T ss_pred CCeEEEEECCCCCCCHHHHHHHHHhCCCCEEEEeCCCcCCCHHHHHHhCChHHhhccCEEECCHHHHHhcCC----EEEE
Confidence 45789999999999999999999999999999998875 344 689999999986 55789999987542 5788
Q ss_pred EEecCCccccccc------------CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHH
Q 040494 77 VEITDNAVDVTQH------------PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFG 144 (217)
Q Consensus 77 ~~~~~~~~~l~~~------------~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~ 144 (217)
++.. +..+... ++.++++||||||+.||++++++.||.+|+|||.+. ++|||||+|++|+|||+.
T Consensus 78 tt~~--~~~~~~~~~~~~~~~~~~~~~~~~~aLvFG~E~~GL~~~~l~~cd~~v~IP~~~~-~~SLNla~Av~I~lye~~ 154 (233)
T TIGR00050 78 TSAR--SRNLQRPLLTPRELAPKLVAYKGKIAIVFGREDSGLTNEELLKCHVLVSIPTSEE-YPSLNLSHAVAVILYELR 154 (233)
T ss_pred ECCC--cCCCCCCcCCHHHHHHHHHhhcCCEEEEECCCCCCCCHHHHHhCCEEEEecCCCC-CCeeeHHHHHHHHHHHHH
Confidence 7742 2333221 256799999999999999999999999999999995 999999999999999986
Q ss_pred h
Q 040494 145 V 145 (217)
Q Consensus 145 ~ 145 (217)
+
T Consensus 155 ~ 155 (233)
T TIGR00050 155 M 155 (233)
T ss_pred H
Confidence 5
No 10
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional
Probab=99.97 E-value=3.2e-31 Score=229.33 Aligned_cols=139 Identities=18% Similarity=0.281 Sum_probs=114.3
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCC--Cc--cccCCCcccee-eEEeCCHHHHHHHhhhCCCcEEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDF--NA--FGSHGSTSHVN-FRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~--~~--~~s~Ga~~~~~-i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
..+.|||++|+||+|+|+|+|+|++||+++++++.|++. ++ +.++|+.+.++ ...+.+++++++.+. .++|
T Consensus 3 ~~i~vVLv~~~~pgNiGaiaRa~~~fG~~~l~lv~p~~~~~~~a~~~a~GA~~~l~~a~i~~~l~eal~~~~----~vva 78 (245)
T PRK15114 3 QNIRIVLVETSHTGNMGSVARAMKTMGLTNLWLVNPLVKPDSQAIALAAGASDVIGNATIVDTLDEALAGCS----LVVG 78 (245)
T ss_pred CCeEEEEeCCCCCCcHHHHHHHHHhcCCCEEEEeCCCCCCcCHHHHHcCCchhhcccCeEecCHHHHHhcCC----EEEE
Confidence 578899999999999999999999999999999987642 22 57899987554 334689999887653 5889
Q ss_pred EEecCCcccc------------cccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHH
Q 040494 77 VEITDNAVDV------------TQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFG 144 (217)
Q Consensus 77 ~~~~~~~~~l------------~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~ 144 (217)
++........ ....+.++++||||||++||+++.++.||..|+|||.+. ++|||||+|++|+|||+.
T Consensus 79 tt~r~~~~~~~~~~~~~~~~~~~~~~~~~~~alVFG~E~~GLs~e~l~~cd~~v~IP~~~~-~~SLNla~AvaI~lYE~~ 157 (245)
T PRK15114 79 TSARSRTLPWPMLDPRECGLKSVAEAANAPVALVFGRERVGLTNDELQKCHYHVAIAANPE-YSSLNLAMAVQVIAYEVR 157 (245)
T ss_pred EcCCccCCcccccCHHHHHHHHHhhccCCCEEEEECCCCCCCCHHHHHhCCeEEEecCCCC-CCcccHHHHHHHHHHHHH
Confidence 8854322111 112457899999999999999999999999999999995 999999999999999986
Q ss_pred h
Q 040494 145 V 145 (217)
Q Consensus 145 ~ 145 (217)
+
T Consensus 158 ~ 158 (245)
T PRK15114 158 M 158 (245)
T ss_pred H
Confidence 4
No 11
>PRK10433 putative RNA methyltransferase; Provisional
Probab=99.97 E-value=5e-30 Score=219.57 Aligned_cols=139 Identities=21% Similarity=0.307 Sum_probs=115.6
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc----cccCCCcccee-eEEeCCHHHHHHHhhhCCCcEEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA----FGSHGSTSHVN-FRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~----~~s~Ga~~~~~-i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
+++.|||+++++|+|+|+++|+|++||+++++++.|+++.. +.++|+..+++ ...+++++++++.+. .+++
T Consensus 1 ~~i~vVLv~p~~p~NiGaiaRam~nfG~~~L~lV~p~~~~~~~a~~~A~gA~d~L~~a~v~~tL~eAl~d~~----~vig 76 (228)
T PRK10433 1 MRLTIILVAPARAENVGAAARAMKTMGFSELRIVDSQAHLEPAARWVAHGSGDILDNAKVFDTLAEALHDVD----FTVA 76 (228)
T ss_pred CceEEEEEcCCCCccHHHHHHHHHHCCCCEEEEeCCCCCCcHHHHHHhccHHHHhcCceEECCHHHHHHhCC----eEEE
Confidence 46889999999999999999999999999999998875532 57899999998 556789999998854 5666
Q ss_pred EEecCCc--cccc----------cc-CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHH
Q 040494 77 VEITDNA--VDVT----------QH-PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHF 143 (217)
Q Consensus 77 ~~~~~~~--~~l~----------~~-~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~ 143 (217)
++...+. .++. +. ++.++++||||+|+.||+++.++.||..|+|||.+. ++|||||+|++|++||+
T Consensus 77 ttar~~~~~~~~~~p~~~~~~l~~~~~~~~~~alvfG~E~~Gl~~~~l~~c~~~~~IP~~~~-~~SLNla~A~~i~~ye~ 155 (228)
T PRK10433 77 TTARSRAKFHYYATPAELVPLLEEKSSWMSHAALVFGREDSGLTNEELALADVLTGVPMAAD-YPSLNLGQAVMVYCYQL 155 (228)
T ss_pred EccCCCCCCCcccCHHHHHHHHHhhhcccCCEEEEECCCCCCCCHHHHHhCCcEEEecCCCC-CcceeHHHHHHHHHHHH
Confidence 6643332 1111 11 235889999999999999999999999999999995 99999999999999998
Q ss_pred Hh
Q 040494 144 GV 145 (217)
Q Consensus 144 ~~ 145 (217)
.+
T Consensus 156 ~~ 157 (228)
T PRK10433 156 AG 157 (228)
T ss_pred HH
Confidence 65
No 12
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.7e-27 Score=190.55 Aligned_cols=144 Identities=21% Similarity=0.239 Sum_probs=127.6
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc------cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA------FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~------~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
-+.|||.+|+.|+|.|+|+|+|+++|+ .+++++|-.|+. |+.+-.+..+.+..++||+++++..+. |-++++
T Consensus 2 ~~~IvL~~PeIP~NTGNI~R~ca~tga-~LhlI~PlGF~l~dk~lkRAGlDY~~~~~l~~h~s~e~fl~~~~~-~~rl~~ 79 (155)
T COG0219 2 MLNIVLYQPEIPPNTGNIIRTCAATGA-ELHLIEPLGFDLDDKRLKRAGLDYHEKASLTEHDSLEAFLEAEPI-GGRLFA 79 (155)
T ss_pred ccEEEEECCCCCCchhHHHHHHHhcCC-eEEEEccCCCccchhhhhhcccchHhhcceEEeCCHHHHHhhccC-CceEEE
Confidence 367999999999999999999999998 599998876643 556667888899999999999999887 789999
Q ss_pred EEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCc-EEEEcCCCCCCCcccHHHHHHHHHHHHHhccCch
Q 040494 77 VEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDF-FVYIPQYGGGTASLNVTVAASIVLHHFGVWAGFS 150 (217)
Q Consensus 77 ~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~-~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~~~~ 150 (217)
++ +.+..++.+..|+..-.||||.|..||++++++.... +|+|||.+ +..|||+|.+++|++||..|+.+++
T Consensus 80 ~t-t~~~~~~~~~~f~~~d~llFG~Es~GLP~~i~~~~~~~~irIPm~~-~~RSLNLsnsvavv~yEa~RQ~~~~ 152 (155)
T COG0219 80 LT-TKGTTTYTDVSFQKGDYLLFGPESRGLPEEILDAAPDRCIRIPMRP-GVRSLNLSNTVAVVLYEALRQLGFA 152 (155)
T ss_pred EE-eccccccccccCCCCCEEEECCCCCCCCHHHHHhCccceEEeccCC-CCccchHHHHHHHHHHHHHHHhCCc
Confidence 98 4788899999999888999999999999999987655 59999997 5899999999999999999887765
No 13
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.4e-26 Score=198.27 Aligned_cols=139 Identities=24% Similarity=0.342 Sum_probs=115.2
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCC-Cc---cccCCCccce-eeEEeCCHHHHHHHhhhCCCcEEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDF-NA---FGSHGSTSHV-NFRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~-~~---~~s~Ga~~~~-~i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
..+.|||.+++.|+|||+++|.|++||++.+++|+|++- +. ..++|+.+.+ +...++++++++..+. .++|
T Consensus 3 ~~i~iVLVep~~~gNIG~vARaMKNfGl~eL~LV~Pr~~~~eeA~a~A~gA~dile~A~i~~tL~eAl~d~~----~v~a 78 (242)
T COG0565 3 ENIRIVLVEPSHPGNIGSVARAMKNFGLSELRLVNPRAGLDEEARALAAGARDILENAKIVDTLEEALADCD----LVVA 78 (242)
T ss_pred CccEEEEEcCCCCccHHHHHHHHHhCCcceEEEECCCCCCCHHHHHHhccchhhhccCeeecCHHHHhcCCC----EEEE
Confidence 467899999999999999999999999999999998763 44 3467776666 5677899999998776 7788
Q ss_pred EEecCCccc-ccccCC-----------CCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHH
Q 040494 77 VEITDNAVD-VTQHPF-----------KKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFG 144 (217)
Q Consensus 77 ~~~~~~~~~-l~~~~~-----------~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~ 144 (217)
|+....... ....|+ .++++||||+|..||+++.++.||.+|+||+.+. +.|||+|+|++|++||+.
T Consensus 79 Ttar~r~~~~~~~~P~e~~~~l~~~~~~~~vAlvFGRE~~GLtNeEl~~c~~~v~IP~~p~-Y~sLNLa~AV~ii~YEl~ 157 (242)
T COG0565 79 TTARSRDLLRPLRTPREAAPELLEKAKGGKVALVFGRERVGLTNEELALCDVLVTIPANPD-YPSLNLAQAVQVILYELR 157 (242)
T ss_pred eccccCcccccccCHHHHHHHHHHHhcCCCeEEEECCccCCCCHHHHHhhhEEEecCCCCc-cccccHHHHHHHHHHHHH
Confidence 874332211 111111 3799999999999999999999999999999995 999999999999999996
Q ss_pred h
Q 040494 145 V 145 (217)
Q Consensus 145 ~ 145 (217)
+
T Consensus 158 ~ 158 (242)
T COG0565 158 K 158 (242)
T ss_pred H
Confidence 5
No 14
>KOG2506 consensus SpoU rRNA Methylase family protein [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=1.1e-25 Score=197.55 Aligned_cols=139 Identities=26% Similarity=0.382 Sum_probs=107.8
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc------cccCCCccceeeEEeCCHHHHHHHhhh---CCCc
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA------FGSHGSTSHVNFRHFHSLSDARVFLKS---KDCD 73 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~------~~s~Ga~~~~~i~~~~s~~~~l~~l~~---~g~~ 73 (217)
+..||+|+++||+|+|||+|||++|++++++++. .|+|| |+++|+.|++||+- .+|+++--.+-. ..+.
T Consensus 217 p~~lvcdnirdpgnlgti~rsaaa~~cs~v~lt~-gccdpwe~kalrag~ga~fr~pi~~-~~w~~l~l~~pp~~ad~c~ 294 (371)
T KOG2506|consen 217 PRVLVCDNIRDPGNLGTIVRSAAAFNCSGVFLTP-GCCDPWEDKALRAGRGASFRLPIVS-GNWNHLKLLEPPFQADLCA 294 (371)
T ss_pred CeEEEeccCCCCcchHHHHHHHhhCCCcceeecC-CcCCccchhhhhccCCcceecceec-CchhhhhccCChhHHhhhc
Confidence 6789999999999999999999999999999985 45555 78999999999986 488876544432 2222
Q ss_pred EEEEEecCCccccccc-----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHh
Q 040494 74 ICGVEITDNAVDVTQH-----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGV 145 (217)
Q Consensus 74 v~~~~~~~~~~~l~~~-----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~ 145 (217)
++..+.+..-.+.+.. ....+.+||+|.|++|+|++.++.|. .|.|||.+ +++|||||+|++|+|||+.+
T Consensus 295 ~~~a~t~qr~~~~~k~~e~ad~~~ap~~liigge~~gvseea~~~~~-lvgip~a~-g~dslnva~a~~illfel~r 369 (371)
T KOG2506|consen 295 GHPATTTQRLKPVSKLVEFADSLAAPLCLIIGGEGNGVSEEARKVCV-LVGIPMAG-GFDSLNVAVAGGILLFELQR 369 (371)
T ss_pred CchHhhhhhhccchhhhHHHhhccCceEEEEccCcCCcCHHHHHHHH-HcCCcccC-CcchhhhHHHHHHHHHHHhh
Confidence 2222222222222211 12478999999999999999999995 57899999 69999999999999999854
No 15
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=99.92 E-value=1.2e-24 Score=186.58 Aligned_cols=142 Identities=27% Similarity=0.380 Sum_probs=124.7
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCC--CCc---cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEE
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRD--FNA---FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~--~~~---~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~ 78 (217)
+++.|+++.||+|+|+|+|+|++||++.++++.... ..| ++|+|+.+++|+.++++..++++..++.|+.++++.
T Consensus 112 l~vylde~tDp~n~gaI~rsA~~lg~~~v~lv~~n~s~lS~~vskss~gale~l~I~q~~~~~efl~vsvaaG~~l~~t~ 191 (271)
T KOG0838|consen 112 LCVYLDEVTDPQNIGAIIRSAYFLGADGVLLVKGNSSPLSPVVSKSSAGALEVLPIRQVDNPLEFLNVSVAAGIRLHGTC 191 (271)
T ss_pred EEeeccCccCCcchHHHHHhHHHhcCCceEEEeccCCCCchhHHHhhhchhheeeHHHcCCHHHHHHHHHhCceEEEEee
Confidence 579999999999999999999999999999986443 222 789999999999999999999999999999999987
Q ss_pred ecCC------cccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCC----C-CCCcccHHHHHHHHHHHHHh
Q 040494 79 ITDN------AVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYG----G-GTASLNVTVAASIVLHHFGV 145 (217)
Q Consensus 79 ~~~~------~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g----~-~~~SLNVsvAaaIvL~e~~~ 145 (217)
...+ ...+..+.+..|+++|+|||+.|+++.++..||..+.||+.| . .++|||||+|+++++|++..
T Consensus 192 ~~~~~~~~~~~~~l~~~~~~~Pv~lv~Gneg~Gi~~~vl~~~d~~~si~~n~~~~d~~~v~SlNvSvaa~ll~~~~~~ 269 (271)
T KOG0838|consen 192 SWAPASKTISAVSLKFIDPEEPVALVLGNEGAGIRPGVLELCDLRVSIPGNGFEKDNGAVDSLNVSVAAGLLLYHFLN 269 (271)
T ss_pred cCcCCcccccchhhhhcCCCCCeEEEecccccccChhhhhccceeEecCCCccccCCcceeeccchHHHHHHHHHHhh
Confidence 4333 455677888999999999999999999999999999999932 2 15899999999999999853
No 16
>KOG0839 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=99.86 E-value=4.3e-22 Score=195.42 Aligned_cols=144 Identities=26% Similarity=0.353 Sum_probs=129.5
Q ss_pred ceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc----cccCCCccceeeEEe--CCHHHHHHHhhhCCCcEEE
Q 040494 3 ESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA----FGSHGSTSHVNFRHF--HSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~----~~s~Ga~~~~~i~~~--~s~~~~l~~l~~~g~~v~~ 76 (217)
.++||..=|.+|.|+|.|+|||+-||++-++|-+-.+.+. .-|+.|..|+|++.+ +++..+++..|.+||+|+|
T Consensus 1326 sLIVVASLVDKppNLgGicRTcEVFgvs~LvVad~~vi~DkQFk~lSVtAE~W~pieeVk~~~L~~fLq~kK~EGyTiIg 1405 (1477)
T KOG0839|consen 1326 SLIVVASLVDKPPNLGGICRTCEVFGVSLLVVADIKVINDKQFKNLSVTAERWMPIEEVKLDELASFLQEKKKEGYTIIG 1405 (1477)
T ss_pred eEEEEeecccCCCccchhhhhhhhhCcceEEEeeeeeecchhhhheeeeHHhccchhccChHHHHHHHHHhhhcCcEEEe
Confidence 5789999999999999999999999998666543333333 368999999999865 6788888888999999999
Q ss_pred EEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhcc
Q 040494 77 VEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVWA 147 (217)
Q Consensus 77 ~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~ 147 (217)
++.+..+..++++.||+|.++|+|+|..|+|-.++..-|.+|.|||.|- ++||||-|++|+++|+++++.
T Consensus 1406 lEQTakSV~Ld~fqFPkKslilLG~EkEGIPvnLl~~LD~cvEIpQ~Gv-iRSLNVHVsgAl~iweYTrQq 1475 (1477)
T KOG0839|consen 1406 LEQTAKSVKLDNFQFPKKSLILLGTEKEGIPVNLLSELDLCVEIPQFGV-IRSLNVHVSGALIIWEYTRQQ 1475 (1477)
T ss_pred ehhcccccccccccCCcceeEEecccccCCcHHHHHHHhHheeccccce-eeeeeeehhHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999995 999999999999999998774
No 17
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=98.89 E-value=5.7e-09 Score=86.21 Aligned_cols=122 Identities=25% Similarity=0.398 Sum_probs=68.1
Q ss_pred HHHHHHHhHHHCCCcEEEeCCCC--------------------CCccccCCCccceeeEEeCCHHHHHHHhhh-CCC--c
Q 040494 17 VGTLARSATAFGVSEMILVGRRD--------------------FNAFGSHGSTSHVNFRHFHSLSDARVFLKS-KDC--D 73 (217)
Q Consensus 17 lG~I~Rsa~afGv~~v~lv~~~~--------------------~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~-~g~--~ 73 (217)
+=-|.|+|..||+++.+++.|-. +|| ...-|...+ ....+++++++.+.+ .|- .
T Consensus 30 lHDIAR~~rTYgv~~yyiVtPl~~Q~~l~~ril~hW~~G~G~~yNp-~R~eAl~~v--~~~~sle~a~~~I~~~~G~~P~ 106 (185)
T PF09936_consen 30 LHDIARSARTYGVKGYYIVTPLEAQRELAERILGHWQEGYGAEYNP-DRKEALSLV--RVVDSLEEAIEDIEEEEGKRPL 106 (185)
T ss_dssp HHHHHHHHHHTT-SEEEEE---HHHHHHHHHHHHHHHTSGGGGT-S-SSHHHHTTE--EEESSHHHHHHHHHHHHSS--E
T ss_pred HHhhhhhhhccCCcCEEEecchHHHHHHHHHHHHhcccCCCcCcCc-CHHHHHhHh--ccHhhHHHHHHHHHHHhCCCCE
Confidence 45699999999999999997631 222 111122333 345899999999873 443 5
Q ss_pred EEEEEec--CCccccccc-----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCC-CCCcccHHHHHHHHHHHH
Q 040494 74 ICGVEIT--DNAVDVTQH-----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGG-GTASLNVTVAASIVLHHF 143 (217)
Q Consensus 74 v~~~~~~--~~~~~l~~~-----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~-~~~SLNVsvAaaIvL~e~ 143 (217)
+++|+.. ++..++.++ .-.+|..|+||. ++||++|+++.||.++. |..|. +++.|.|-.|+||+|-.+
T Consensus 107 ~v~TsAr~~~~~is~~~lr~~l~~~~~P~LllFGT-GwGL~~ev~~~~D~iLe-PI~g~~~YNHLSVRsAvAIiLDRL 182 (185)
T PF09936_consen 107 LVATSARKYPNTISYAELRRMLEEEDRPVLLLFGT-GWGLAPEVMEQCDYILE-PIRGAGDYNHLSVRSAVAIILDRL 182 (185)
T ss_dssp EEE--SS--SS-B-HHHHHHHHHH--S-EEEEE---TT---HHHHTT-SEEB---TTTTSS-----HHHHHHHHHHHH
T ss_pred EEEecCcCCCCCcCHHHHHHHHhccCCeEEEEecC-CCCCCHHHHHhcCeeEc-ccccCCCCccchHHHHHHHHHHHH
Confidence 6666643 222333222 246899999999 99999999999998877 55543 488999999999999654
No 18
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification]
Probab=98.72 E-value=3.4e-10 Score=97.87 Aligned_cols=197 Identities=26% Similarity=0.240 Sum_probs=140.9
Q ss_pred EEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEe---cC
Q 040494 5 YVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEI---TD 81 (217)
Q Consensus 5 ~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~---~~ 81 (217)
+++.-......|.|..++.+..|++..++++....++..+.++...+..+. .+...++..+. -+
T Consensus 51 v~~al~~~kR~~~~~~~~~~~~~~~~e~~~v~~~~~~~~s~h~L~~~t~~r-------------~h~g~~leasl~vyld 117 (271)
T KOG0838|consen 51 VLAALSNGKRDCRGLLLQSATDFRSTEFELVLRRDIEAVSKHDLNSLTDFR-------------PHNGILLEASLCVYLD 117 (271)
T ss_pred hHHHHhcccccceeeeeccccccCcceeeehhhhhhhccChhhHHHHHhhc-------------cccceEEeeEEEeecc
Confidence 344455667888999999999999988888876544433333333222222 11112222210 01
Q ss_pred Cccccc---------ccCCCCCEEEEEcCCCCCCCHHHHh---hCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhccCc
Q 040494 82 NAVDVT---------QHPFKKSTAFLLGNEGMGLSAKECE---ICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVWAGF 149 (217)
Q Consensus 82 ~~~~l~---------~~~~~~~~alV~GnE~~GLs~~~l~---~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~~~ 149 (217)
+-++.+ .+=...++.++-||+ .++|+...+ .|+.++.||+.+...+||||++|++|.++....|+..
T Consensus 118 e~tDp~n~gaI~rsA~~lg~~~v~lv~~n~-s~lS~~vskss~gale~l~I~q~~~~~efl~vsvaaG~~l~~t~~~~~~ 196 (271)
T KOG0838|consen 118 EVTDPQNIGAIIRSAYFLGADGVLLVKGNS-SPLSPVVSKSSAGALEVLPIRQVDNPLEFLNVSVAAGIRLHGTCSWAPA 196 (271)
T ss_pred CccCCcchHHHHHhHHHhcCCceEEEeccC-CCCchhHHHhhhchhheeeHHHcCCHHHHHHHHHhCceEEEEeecCcCC
Confidence 111111 122367899999998 889888775 5788999999998899999999999999998888765
Q ss_pred -hhhhhcCCcceecccccccccCCCCCCChHHHHHHHHHHHHhccCCCCCCCC-----CCCCchhhhhhhcc
Q 040494 150 -SERTRDGNKYVVAERSARQVRRSFCAEKPESIIEMRRSRRENASNGFFDGSG-----NDVSSSSLLDALFT 215 (217)
Q Consensus 150 -~~R~r~g~kf~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~ 215 (217)
+.+...+.|+++.++|+++..+....--...+.+.+..+.+.+-+||++|++ +...++.+|+-.|.
T Consensus 197 ~~~~~~~~l~~~~~~~Pv~lv~Gneg~Gi~~~vl~~~d~~~si~~n~~~~d~~~v~SlNvSvaa~ll~~~~~ 268 (271)
T KOG0838|consen 197 SKTISAVSLKFIDPEEPVALVLGNEGAGIRPGVLELCDLRVSIPGNGFEKDNGAVDSLNVSVAAGLLLYHFL 268 (271)
T ss_pred cccccchhhhhcCCCCCeEEEecccccccChhhhhccceeEecCCCccccCCcceeeccchHHHHHHHHHHh
Confidence 4788899999999999999987776666777999999999999999988887 33445666665554
No 19
>PRK03958 tRNA 2'-O-methylase; Reviewed
Probab=98.72 E-value=1.4e-07 Score=77.83 Aligned_cols=116 Identities=13% Similarity=0.131 Sum_probs=82.4
Q ss_pred HHHHhHHHCCCcEEEeCCCCCC-----c-cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEecCCc--ccccccC-
Q 040494 20 LARSATAFGVSEMILVGRRDFN-----A-FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEITDNA--VDVTQHP- 90 (217)
Q Consensus 20 I~Rsa~afGv~~v~lv~~~~~~-----~-~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~--~~l~~~~- 90 (217)
++|||.+||+++++++.+..-- . ...-|..+. +....+|.++++.++..| .++-++.+... ..+.++.
T Consensus 22 vartARafGa~~~yiv~~~~~q~~~v~~I~~~WGg~fn--v~~~~s~~~~i~~~k~~G-~vvhLtmyga~~~~~~~~ir~ 98 (176)
T PRK03958 22 VGLTARALGADKIILASNDEHVKESVEDIVERWGGPFE--VEVTKSWKKEIREWKDGG-IVVHLTMYGENIQDVEPEIRE 98 (176)
T ss_pred HHHHHHHcCCceEEEecCcHHHHHHHHHHHHhcCCceE--EEEcCCHHHHHHHHHhCC-cEEEEEEecCCccchHHHHHH
Confidence 7899999999999999763200 0 112266666 555699999999999655 44444332221 1222331
Q ss_pred ---CCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHh
Q 040494 91 ---FKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGV 145 (217)
Q Consensus 91 ---~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~ 145 (217)
-..|..+||| ++||+.++.+.||..| ..|. ++. .|-.|+||+|-.|..
T Consensus 99 ~~~~~~p~LIvvG--g~gvp~evye~aDynl---gvg~-qpH-SvrAAlAI~LDRL~~ 149 (176)
T PRK03958 99 AHRKGEPLLIVVG--AEKVPREVYELADWNV---AVGN-QPH-SEVAALAVFLDRLFE 149 (176)
T ss_pred hhccCCcEEEEEc--CCCCCHHHHhhCCEEe---ccCC-CCh-HHHHHHHHHHHHhcC
Confidence 1678999999 8999999999999998 3453 566 899999999988743
No 20
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only]
Probab=98.32 E-value=7.7e-06 Score=64.79 Aligned_cols=138 Identities=20% Similarity=0.219 Sum_probs=94.9
Q ss_pred CceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCC-----ccc-cCCCccceeeEEeCCHHHHHHHhhhCCCcEE
Q 040494 2 IESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFN-----AFG-SHGSTSHVNFRHFHSLSDARVFLKSKDCDIC 75 (217)
Q Consensus 2 ~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~-----~~~-s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~ 75 (217)
++++++++|+..++-+=-+.|.++.||++.++++....-. |.. -+.--.-.|+..+++++++++-|+..-...+
T Consensus 1 ~ev~vvlHN~~S~~rv~e~ariaygfg~k~lV~tka~g~AAQsGIp~~~kla~k~G~~vlvf~dL~DAlevL~P~v~ll~ 80 (147)
T COG4080 1 MEVIVVLHNVSSVQRVLEFARIAYGFGAKRLVLTKAKGSAAQSGIPEVLKLAFKLGKPVLVFPDLDDALEVLRPDVTLLV 80 (147)
T ss_pred CcEEEEEecCCchHHHHHHHHHHcccCccEEEEEecccHhhhhccHHHHHHHHHhCCcEEEehhHHHHHHhcCCceEEEe
Confidence 4789999999999999999999999999999888643110 000 0000112578889999999999996422222
Q ss_pred EEEecCCccccc-ccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHh
Q 040494 76 GVEITDNAVDVT-QHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGV 145 (217)
Q Consensus 76 ~~~~~~~~~~l~-~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~ 145 (217)
+.. ..+.+++. .-...+++++||+.=..|+++..++.-+...|| .... +.+ --++||+||++.+
T Consensus 81 ~~~-~~~ek~~dp~e~ie~~vliVf~ga~~gl~k~El~lg~~~~y~-ve~~-VG~---~g~lAi~Lyell~ 145 (147)
T COG4080 81 GSA-SEGEKKLDPNEKIEGRVLIVFSGAEPGLTKRELELGADLRYI-VEAD-VGE---LGALAIFLYELLK 145 (147)
T ss_pred cCc-ccccccCCccccccceEEEEEecCCCCcChhhcccCCcEEEE-Eecc-chH---HHHHHHHHHHHHc
Confidence 211 22222222 112246999999999999999999987778888 3332 333 3578999999853
No 21
>COG4752 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.00 E-value=8e-06 Score=65.78 Aligned_cols=127 Identities=19% Similarity=0.280 Sum_probs=84.1
Q ss_pred ccHHHHHHHhHHHCCCcEEEeCCCCCCc----------cccCCC------ccceeeEE-eCCHHHHHHHhh-hCCCc--E
Q 040494 15 HNVGTLARSATAFGVSEMILVGRRDFNA----------FGSHGS------TSHVNFRH-FHSLSDARVFLK-SKDCD--I 74 (217)
Q Consensus 15 ~NlG~I~Rsa~afGv~~v~lv~~~~~~~----------~~s~Ga------~~~~~i~~-~~s~~~~l~~l~-~~g~~--v 74 (217)
..+-.|+|+|.++.+++.+++.|-.... ....|. .+.+.+.. -.+++++++... .+|-+ +
T Consensus 29 ~D~HDIaR~artYeikgYyiV~pidAQ~~~~~r~i~yW~~g~G~~yNp~R~e~~~lv~l~~~le~ViEdIEk~eG~rPLi 108 (190)
T COG4752 29 MDLHDIARPARTYEIKGYYIVQPIDAQRIVIQRQINYWLSGEGRKYNPTRYEIVQLVRLAYTLEEVIEDIEKEEGRRPLI 108 (190)
T ss_pred ccHhhhcccccceeeccEEEEeecHHHHHHHHHHHHHHhcccCCcCCcCHHHHHHHHhHHHHHHHHHHHHHhhcCCCceE
Confidence 3467899999999999999996532111 111121 11222222 146778888775 45553 4
Q ss_pred EEEEec--CCcccccc-----cCCCCCEEEEEcCCCCCCCHHHHhhCCcEEE-EcCCCCCCCcccHHHHHHHHHHHH
Q 040494 75 CGVEIT--DNAVDVTQ-----HPFKKSTAFLLGNEGMGLSAKECEICDFFVY-IPQYGGGTASLNVTVAASIVLHHF 143 (217)
Q Consensus 75 ~~~~~~--~~~~~l~~-----~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~-IP~~g~~~~SLNVsvAaaIvL~e~ 143 (217)
++++.. ++..++.. +.-.++..++||. ++||++++++..|.++. |-..+. ...|.|-.|+||+|-.+
T Consensus 109 ~~TsAr~~~N~isy~~lr~~I~e~dkp~LilfGT-GwGlpde~m~~sDYiLEPIra~sd-~NHLSVRaAvAIIlDRL 183 (190)
T COG4752 109 VGTSARTYPNTISYSWLRNEIQERDKPWLILFGT-GWGLPDELMNTSDYILEPIRAASD-WNHLSVRAAVAIILDRL 183 (190)
T ss_pred EeccccccCCcccHHHHHHHHhhcCCcEEEEecC-CCCCCHHHHHHhhHhhhhhhccCC-cchhhHHHHHHHHHHHH
Confidence 555431 12223222 1235899999999 99999999999999887 555554 88999999999999766
No 22
>PF09895 DUF2122: RecB-family nuclease (DUF2122); InterPro: IPR018665 This family of archaeal proteins include RecB nuclease-like proteins as well as proteins of no known function.
Probab=96.56 E-value=0.021 Score=43.63 Aligned_cols=85 Identities=18% Similarity=0.204 Sum_probs=60.8
Q ss_pred eeEEeCCHHHHHHHhhhCCCcEEEEEecCC-cccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCccc
Q 040494 53 NFRHFHSLSDARVFLKSKDCDICGVEITDN-AVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLN 131 (217)
Q Consensus 53 ~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~-~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLN 131 (217)
++..+.++.|+++-|+.. .|+.++.... ...+......+++++||+....|+|+..++.-+ .++|..... .+-
T Consensus 21 ~livlpdl~DAiEvl~p~--~V~~i~~~~~~~~~~~~~~~~~rvllVf~G~d~gfsk~El~~g~-~v~~~~v~~---~iG 94 (106)
T PF09895_consen 21 SLIVLPDLKDAIEVLKPD--VVYLISRSGEEEEKLEFLKIEGRVLLVFSGSDPGFSKIELELGE-AVYIRGVER---DIG 94 (106)
T ss_pred cEEEeCCHHHHHHhcCCc--EEEEEcCcccccccccccCcCCcEEEEEeCCCCCCChhHhcCCc-eEEeeccCc---CcC
Confidence 466678999999999854 6676664222 222345667789999999999999999999964 566654432 344
Q ss_pred HHHHHHHHHHHH
Q 040494 132 VTVAASIVLHHF 143 (217)
Q Consensus 132 VsvAaaIvL~e~ 143 (217)
--..+||+||++
T Consensus 95 ~~g~~ai~Ly~L 106 (106)
T PF09895_consen 95 PIGEAAIILYEL 106 (106)
T ss_pred hHHHHHHHHhcC
Confidence 456778899864
No 23
>COG1303 Uncharacterized protein conserved in archaea [Function unknown]
Probab=96.38 E-value=0.055 Score=44.20 Aligned_cols=113 Identities=19% Similarity=0.249 Sum_probs=78.1
Q ss_pred HHHHhHHHCCCcEEEeCCCCC---Cc----cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEecCCcccccccC--
Q 040494 20 LARSATAFGVSEMILVGRRDF---NA----FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEITDNAVDVTQHP-- 90 (217)
Q Consensus 20 I~Rsa~afGv~~v~lv~~~~~---~~----~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~-- 90 (217)
++-||.|||++++++.+...- .. -.+-|..|.+... .+|...++.+++ |-.++-++. -..++.++.
T Consensus 23 V~LtARAfGA~gil~~~e~De~v~esv~dVv~rwGG~F~v~~~--~nw~~~i~~wk~-gG~vvHLTM--YG~~i~dv~~e 97 (179)
T COG1303 23 VALTARAFGADGILLDGEEDEKVVESVEDVVERWGGPFFVKFG--VNWRKVIREWKE-GGIVVHLTM--YGLNIDDVIDE 97 (179)
T ss_pred hhhhhHhhCCceEEEcCcccHHHHHHHHHHHHhcCCCEEEEEc--ccHHHHHHHhhc-CCEEEEEEe--cCCcchhhhHH
Confidence 566899999999999864311 11 1355666655544 799999999988 666666664 223444432
Q ss_pred ---CCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHH
Q 040494 91 ---FKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFG 144 (217)
Q Consensus 91 ---~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~ 144 (217)
..+...+|+|.|. ++.++.+.||..|.|-..+. | =-.|.||+|..+.
T Consensus 98 i~~~~k~~lvvVGaeK--Vp~evYelADyNV~VgnQPH---S--EVaaLAvFLDRl~ 147 (179)
T COG1303 98 IRESKKDVLVVVGAEK--VPGEVYELADYNVSVGNQPH---S--EVAALAVFLDRLF 147 (179)
T ss_pred HHhcCCcEEEEEcccc--CCHHHhhhcccceecCCCcc---H--HHHHHHHHHHHHh
Confidence 2344789999985 89999999999999976663 2 2357788887664
No 24
>PRK12703 tRNA 2'-O-methylase; Reviewed
Probab=95.95 E-value=0.14 Score=46.76 Aligned_cols=143 Identities=17% Similarity=0.164 Sum_probs=90.6
Q ss_pred HHHHhHHHCCCcEEEeCCCC--CCc----cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEecCCccccc----cc
Q 040494 20 LARSATAFGVSEMILVGRRD--FNA----FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEITDNAVDVT----QH 89 (217)
Q Consensus 20 I~Rsa~afGv~~v~lv~~~~--~~~----~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~----~~ 89 (217)
+.-||-|||++++++.+... .+. -..-|..|++.+ ..+|...++.. .| .|+-++. -..++. ++
T Consensus 21 v~l~ara~ga~~~~~~~~d~~~~~~~~~v~~~~gg~f~~~~--~~~~~~~~~~~--~g-~vvhltm--yg~~~~~~~~~i 93 (339)
T PRK12703 21 VALTARAFGASSILVDERDETLENTIKKVVDNFGGSFEIKT--GIEWKSEFKKF--HG-IRVHLTM--YGRPIEDVIDEI 93 (339)
T ss_pred HHHHHHHhcCCeeEecCCcHhHHHHHHHHHHhcCCCeEEEe--ccCHHHHHHhc--CC-EEEEEec--CCCchHHHHHHH
Confidence 45578899999998875321 010 235677776665 47888888776 34 7766664 223333 33
Q ss_pred C-CCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhccCchhhhhcCCcceeccccccc
Q 040494 90 P-FKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVWAGFSERTRDGNKYVVAERSARQ 168 (217)
Q Consensus 90 ~-~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~~~~~R~r~g~kf~~~~~~~r~ 168 (217)
. ...+..+|+|.|. ++.++.+.||..|.|-..+. . =..|.||+|..+..-..+ .+...+ |+.+ -|..+
T Consensus 94 ~~~~~~~~~vvg~~k--vp~~~y~~ad~nv~v~~qph-s----evaala~fld~~~~g~~~-~~~~~~-~~~v--~P~~~ 162 (339)
T PRK12703 94 RESGKDVMVLVGSEK--VPIEAYEIADYNVSVTNQPI-S----EVSALAIFLDRYFDGKEL-EKSFEG-KINV--VPMER 162 (339)
T ss_pred hccCCCEEEEECCCc--CCHHHHhhcccceeeCCCCh-H----HHHHHHHHHHHhccchhh-hhccCC-cEEE--eeccc
Confidence 3 3478999999985 99999999999999977663 2 246788999888533222 334445 5544 34444
Q ss_pred ccCCCCCCChHH
Q 040494 169 VRRSFCAEKPES 180 (217)
Q Consensus 169 ~~~~~~~~~~~~ 180 (217)
+++=...+++++
T Consensus 163 gk~v~~ip~~ee 174 (339)
T PRK12703 163 GKLVKIIPDEDQ 174 (339)
T ss_pred cccccCCCCHHH
Confidence 443334555555
No 25
>PRK02135 hypothetical protein; Provisional
Probab=92.70 E-value=0.63 Score=39.44 Aligned_cols=77 Identities=14% Similarity=0.310 Sum_probs=63.7
Q ss_pred CCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhC----CcEEEEcCCCCCCCcccHH
Q 040494 58 HSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEIC----DFFVYIPQYGGGTASLNVT 133 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~c----D~~v~IP~~g~~~~SLNVs 133 (217)
.+++++++.+ .+|+++|.+. +...++.+..++.+.+||+|- ..|++++..+.- +..|+| | ..||=.+
T Consensus 114 ~~fe~ll~~~-~e~~~l~~L~--e~G~~i~~~~~~~~~~FvLgD-H~~~~~ee~~~L~~~ga~~iSl---G--P~~l~As 184 (201)
T PRK02135 114 RGFEDLLEEL-AEGKTLYYLH--EDGEDIRDVEFPENPVFVLGD-HIGFTEEEENLLKRLGAEKISL---G--PKMLHAD 184 (201)
T ss_pred CCHHHHHHHH-hcCCcEEEEe--CCCCchhhccCCCCCEEEEeC-CCCCCHHHHHHHHHhCCeEEEe---C--cHHHHHH
Confidence 7899999998 7889999987 456788888888888899995 999999877543 456766 3 3589999
Q ss_pred HHHHHHHHHH
Q 040494 134 VAASIVLHHF 143 (217)
Q Consensus 134 vAaaIvL~e~ 143 (217)
++..++-+++
T Consensus 185 hcI~~vhn~L 194 (201)
T PRK02135 185 HCITLIHNEL 194 (201)
T ss_pred HHHHHHHHHH
Confidence 9999999887
No 26
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=92.61 E-value=0.43 Score=39.06 Aligned_cols=121 Identities=19% Similarity=0.234 Sum_probs=76.0
Q ss_pred cHH-HHHHHhHHHCCCcEEEeCCCCCCc---------------------cccCCC-ccceeeEEeCCHHHHHHHhhhCCC
Q 040494 16 NVG-TLARSATAFGVSEMILVGRRDFNA---------------------FGSHGS-TSHVNFRHFHSLSDARVFLKSKDC 72 (217)
Q Consensus 16 NlG-~I~Rsa~afGv~~v~lv~~~~~~~---------------------~~s~Ga-~~~~~i~~~~s~~~~l~~l~~~g~ 72 (217)
++| .|-|.+.+|.+..+++......|. +.|-|- ...+|+.. .++-+.+.. ..+-
T Consensus 18 ~mGerIGRaaQ~FEV~eLiiap~~~vda~eL~~Fl~gV~~G~eSRy~iQ~ksY~r~v~kvpV~V-~DlYQ~vRd--R~~~ 94 (173)
T PF14419_consen 18 KMGERIGRAAQAFEVKELIIAPKEKVDAYELMEFLRGVREGQESRYQIQRKSYGREVRKVPVYV-QDLYQVVRD--RKGE 94 (173)
T ss_pred HHHHHHhHHHhhcchheEEEeccCccCHHHHHHHHHHHHHhHHHHHHHHHHhcCCeeeEeeeeH-HHHHHHHHh--cCCC
Confidence 444 477999999999999875444443 123443 35666654 345555544 3455
Q ss_pred cEEEEEecCCcccccc--------cCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHH
Q 040494 73 DICGVEITDNAVDVTQ--------HPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHF 143 (217)
Q Consensus 73 ~v~~~~~~~~~~~l~~--------~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~ 143 (217)
.++.+++ ...++.+ +...+.+.+++|+ ..|++.-+...||.+|-+--+-. +..=-+.-|+.|+|+..
T Consensus 95 ~lIvtdP--kG~~is~vk~~L~~~~r~~~eV~v~iGS-ReGiP~GlfRfAd~VvDlaP~~t-~aTe~~ipsaliAl~~v 169 (173)
T PF14419_consen 95 PLIVTDP--KGDPISEVKDKLAEDLRYAKEVVVFIGS-REGIPRGLFRFADYVVDLAPGVT-FATEHAIPSALIALWTV 169 (173)
T ss_pred eEEEECC--CCCcHHHHHHHHHHHHhhCcEEEEEEEc-ccCCChhHHHHhhhhhhcCCceE-EeehhhhHHHHHHHHHH
Confidence 6777775 3344443 3456788899999 89999999999999887643321 22333344455555543
No 27
>PF01994 Trm56: tRNA ribose 2'-O-methyltransferase, aTrm56; InterPro: IPR002845 This entry represents tRNA ribose 2'-O-methyltransferase aTrm56, which specifically catalyzes the AdoMet-dependent 2'-O-ribose methylation of cytidine at position 56 in tRNAs. The crystal structure of Pyrococcus horikoshii aTrm56 complexed with S-adenosyl-L-methionine has been determined to 2.48 A resolution. aTrm56 consists of the SPOUT domain, which contains the characteristic deep trefoil knot, and a unique C-terminal beta-hairpin []. A conserved cytidine at position 56 of tRNA contributes to the maintenance of the L-shaped tertiary structure. aTrm56 catalyzes the 2'-O-methylation of the cytidine residue in archaeal tRNA, using S-adenosyl-L-methionine. Biochemical assays showed that aTrm56 forms a dimer and prefers the L-shaped tRNA to the lambda form as its substrate [, ].; GO: 0008175 tRNA methyltransferase activity, 0002128 tRNA nucleoside ribose methylation, 0005737 cytoplasm; PDB: 2YY8_A 2O3A_B.
Probab=92.53 E-value=0.52 Score=36.67 Aligned_cols=82 Identities=13% Similarity=0.096 Sum_probs=53.0
Q ss_pred eEEeCCHHHHHHHhhhCCCcEEEEEecCCccccc----ccC-CCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCC
Q 040494 54 FRHFHSLSDARVFLKSKDCDICGVEITDNAVDVT----QHP-FKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTA 128 (217)
Q Consensus 54 i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~----~~~-~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~ 128 (217)
+....+|...++..|+.|..|+-++. -..++. ++. -..+..+|+|.|. ++.++.+.||.-|.|-..+. .
T Consensus 7 ve~~~~w~~~i~~wK~~~G~VVHLTM--YG~~i~dvi~~Ir~~~~~~lvVVGaeK--VP~evYe~ADyNVaVgnQPH-S- 80 (120)
T PF01994_consen 7 VEYGVSWKSYIREWKEKGGKVVHLTM--YGENIDDVIDEIRESCKDLLVVVGAEK--VPGEVYELADYNVAVGNQPH-S- 80 (120)
T ss_dssp EEEES-HHHHHHC----SSEEEEE-T--TSEEHHHCHHHHHHCTSEEEEEE-SS-----CCHHHHSSEEEESSSS-----
T ss_pred EEECCCHHHHHHHhcccCCeEEEEEe--cCCchHHHHHHHhccCCCEEEEECCCc--CCHHHHhhCCcceeeCCCCh-H-
Confidence 34458999999999998999988875 233333 333 5678999999985 89999999999999976663 2
Q ss_pred cccHHHHHHHHHHHHH
Q 040494 129 SLNVTVAASIVLHHFG 144 (217)
Q Consensus 129 SLNVsvAaaIvL~e~~ 144 (217)
=..|.||+|..+.
T Consensus 81 ---EVAALAvFLDrl~ 93 (120)
T PF01994_consen 81 ---EVAALAVFLDRLF 93 (120)
T ss_dssp ---HHHHHHHHHHHHC
T ss_pred ---HHHHHHHHHHHhc
Confidence 2468889998874
No 28
>PF04013 Methyltrn_RNA_2: Putative SAM-dependent RNA methyltransferase; InterPro: IPR007158 The proteins in this family are around 200 amino acids long with the exception of O29206 from SWISSPROT that has an additional 100 amino acids at its N terminus. The function of these bacterial protein is unknown, however, they do contain several conserved histidines and aspartates that might form a metal-binding site.; PDB: 2QMM_A 3AIA_A 3AI9_X 2QWV_B.
Probab=92.47 E-value=0.59 Score=39.58 Aligned_cols=77 Identities=19% Similarity=0.324 Sum_probs=54.6
Q ss_pred CCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCC-CEEEEEcCCCCCCCHHHHhhC----CcEEEEcCCCCCCCcccH
Q 040494 58 HSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKK-STAFLLGNEGMGLSAKECEIC----DFFVYIPQYGGGTASLNV 132 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~-~~alV~GnE~~GLs~~~l~~c----D~~v~IP~~g~~~~SLNV 132 (217)
.++++.++.++.. +++|-+. +...++.++.++. ..+||+|- ..|++++..+.- +..|+| | ..||=.
T Consensus 113 ~~fe~ll~~~~~~-~~l~~L~--e~G~di~~~~~~~~d~~FVLgD-H~g~~~eee~~L~~~~a~kiSl---G--P~~lhA 183 (199)
T PF04013_consen 113 GGFEDLLEELAEE-YPLYYLH--EDGEDIRDVEFPGNDPVFVLGD-HIGFTEEEEELLERLGAEKISL---G--PKSLHA 183 (199)
T ss_dssp --HHHHHHHHHCT-SEEEEES--TTSEEGGGS---S-SEEEEEE--TT-SHHHHHHHHHCTTSEEEES------SS---H
T ss_pred CCHHHHHHHHhcC-CcEEEEc--CCCCcHhhcccCCCCCeEEEeC-CCCCCHHHHHHHHHccCceEEe---C--CHHHHH
Confidence 6899999999876 8999876 5778999999998 99999998 899998866543 455554 2 358999
Q ss_pred HHHHHHHHHHH
Q 040494 133 TVAASIVLHHF 143 (217)
Q Consensus 133 svAaaIvL~e~ 143 (217)
+++..|+-+++
T Consensus 184 dhcI~ivhn~L 194 (199)
T PF04013_consen 184 DHCITIVHNEL 194 (199)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999987
No 29
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=83.13 E-value=3.6 Score=33.80 Aligned_cols=49 Identities=22% Similarity=0.297 Sum_probs=42.0
Q ss_pred CCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHH
Q 040494 92 KKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHF 143 (217)
Q Consensus 92 ~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~ 143 (217)
.++..|++|=-.+||+.++++.+.+.+-|-..| =||-...|.+++-..+
T Consensus 119 ~~s~~~liGLGR~GLPkei~k~a~yHLDITgkg---iSLETCTAiG~Ipa~i 167 (173)
T PF04407_consen 119 GKSFLLLIGLGRHGLPKEIFKMAKYHLDITGKG---ISLETCTAIGAIPARI 167 (173)
T ss_pred CCceEEEEecCCCCCcHHHHHhchhceeecCCc---eeeehhhHHhhHHHHH
Confidence 467889999999999999999999999888555 3999999999886544
No 30
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.74 E-value=13 Score=32.40 Aligned_cols=133 Identities=18% Similarity=0.158 Sum_probs=79.6
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC-C---CCc-c-------------c-cCCCcccee-eEEeCCHHHH
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR-D---FNA-F-------------G-SHGSTSHVN-FRHFHSLSDA 63 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~-~---~~~-~-------------~-s~Ga~~~~~-i~~~~s~~~~ 63 (217)
.+-+.-.+.++-++=.|++-|.-+|++.++.+... + ++. + + -+....++| +....++.++
T Consensus 79 ~i~l~~~i~kg~k~d~iiqkatELGv~~i~p~~ter~~~k~~~~~~~kler~~ki~ieAaEQs~R~~vP~I~~~~~~~~~ 158 (246)
T COG1385 79 KITLAQAIPKGDKLELIIQKATELGVSKIIPLITERSVVKLDGKKAAKLERWQKIAIEAAEQSGRNVVPEIKPPESLKEL 158 (246)
T ss_pred eEEEEEEcCccHHHHHHHHHHHHhCcceEEEEeeeeeEEeccccchhHHHHHHHHHHHHHHhcCCCcCCeeechhhHHHH
Confidence 34455667777889999999999999999987532 1 111 1 0 112233444 5556788888
Q ss_pred HHHhhhCCCcEEEEEecCCcccccc-----cCCCCCEEEEEcCCCCCCCHHHHhhCC--cEEEEcCCCCCCCcccHHHHH
Q 040494 64 RVFLKSKDCDICGVEITDNAVDVTQ-----HPFKKSTAFLLGNEGMGLSAKECEICD--FFVYIPQYGGGTASLNVTVAA 136 (217)
Q Consensus 64 l~~l~~~g~~v~~~~~~~~~~~l~~-----~~~~~~~alV~GnE~~GLs~~~l~~cD--~~v~IP~~g~~~~SLNVsvAa 136 (217)
++.........+.... ........ ....+++++++|.| -|+|++.++... .+..|+..+ .=|=.-+|+
T Consensus 159 l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~iiIGPE-GGfs~~Ei~~l~~~g~~~v~LGp---rILRtETAa 233 (246)
T COG1385 159 LKEIDDEDALKLIYEE-KAKEGLLALPLLEALPEGKVLLIIGPE-GGFSEDEIELLREAGFTPVSLGP---RILRTETAA 233 (246)
T ss_pred HHhcccchhhhheecc-ccccccccchhhhcccCCcEEEEECCC-CCCCHHHHHHHHHCCCeEeccCC---ceehhhHHH
Confidence 8877644422233321 12222222 23579999999999 699999887532 244555543 345555554
Q ss_pred HHHHH
Q 040494 137 SIVLH 141 (217)
Q Consensus 137 aIvL~ 141 (217)
-.+|.
T Consensus 234 l~ala 238 (246)
T COG1385 234 LAALA 238 (246)
T ss_pred HHHHH
Confidence 44443
No 31
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules. The transfer of the methyl group from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms. The reaction is catalyzed by Mtases and modifies DNA, RNA, proteins or small molecules, such as catechol, for regulatory purposes. Proteins in this entry belong to the RsmE family of Mtases, this is supported by crystal structural studying, which show a close structural homology to other known methyltransferases []. This entry contains RsmE of Escherichia coli, which specifically methylates the uridine in position 1498 of 16S rRNA in the fully assembled 30S ribosomal subunit [, ].; GO: 0008168 methyltransferase activity, 0006364 rRNA processing; PDB: 1NXZ_B 1VHY_B 2EGW_A 2EGV_A 2Z0Y_A 2CX8_A 3KW2_A 1VHK_D 1Z85_B 1V6Z_A ....
Probab=79.94 E-value=14 Score=31.30 Aligned_cols=130 Identities=22% Similarity=0.180 Sum_probs=67.9
Q ss_pred EEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC-CCC---c--------c-------c--cCCCccceeeEEeCCHHHH
Q 040494 5 YVVVHNIAKRHNVGTLARSATAFGVSEMILVGRR-DFN---A--------F-------G--SHGSTSHVNFRHFHSLSDA 63 (217)
Q Consensus 5 ~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~-~~~---~--------~-------~--s~Ga~~~~~i~~~~s~~~~ 63 (217)
+.++-.+-++..+=-|++-|.-+|++.++.+... +.. . | + -.|......+....++.++
T Consensus 63 i~L~~al~K~~~~d~il~katELGv~~i~p~~s~rsv~k~~~~~~~~k~~R~~~i~~eA~kQs~r~~~P~i~~~~~l~~~ 142 (225)
T PF04452_consen 63 ITLAQALPKGDRMDWILQKATELGVSRIIPVISERSVVKSDGKKSDKKLERWQRIAIEAAKQSGRTRLPEIEPPISLKEL 142 (225)
T ss_dssp EEEEEE--STTHHHHHHHHHHHTT-SEEEEEE-TTSSS---HHHHHHHHHHHHHHHHHHHHHHT-SS--EEEEEEEHHHH
T ss_pred EEEEEEEEcCccHHHHHHHHHhcCCCEEEEEEeeeeeeeccchhhHHHHHHHHHHHHHHHHhcCCCccceeeccccHHHH
Confidence 5566677788999999999999999999998533 211 0 0 1 1233344445566799999
Q ss_pred HHHhhhCCCcEEEEEecCCccccccc---CCC--C-CEEEEEcCCCCCCCHHHHhhCC--cEEEEcCCCCCCCcccHHHH
Q 040494 64 RVFLKSKDCDICGVEITDNAVDVTQH---PFK--K-STAFLLGNEGMGLSAKECEICD--FFVYIPQYGGGTASLNVTVA 135 (217)
Q Consensus 64 l~~l~~~g~~v~~~~~~~~~~~l~~~---~~~--~-~~alV~GnE~~GLs~~~l~~cD--~~v~IP~~g~~~~SLNVsvA 135 (217)
++.+..... +++-. .+...+..+ ... . ++++++|.| -|.|++.++..- .+..|-..+ .=|=.-+|
T Consensus 143 l~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~i~i~IGPE-GGfs~~E~~~~~~~g~~~vsLG~---~ILR~ETA 215 (225)
T PF04452_consen 143 LEDIPDEDL-LILDE--DEEPSLSSLSEILNSEKSFSIAIIIGPE-GGFSEEEIEFLKEAGFQPVSLGP---RILRTETA 215 (225)
T ss_dssp HHHSSECSE-EEE-T--TTTCBGGGCSHTTSCHHC-EEEEEE--T-T---HHHHHHHHHCTEEEEB-SS---S---HHHH
T ss_pred hhccccCCE-EEEcc--cccccccchhhhhhcccCCcEEEEECCC-CCCCHHHHHHHHHCCCEEEEcCC---CEEehHHH
Confidence 988775544 33332 222222222 111 1 899999999 699999887543 344444432 24555555
Q ss_pred HHHHHH
Q 040494 136 ASIVLH 141 (217)
Q Consensus 136 aaIvL~ 141 (217)
+-.++.
T Consensus 216 ai~als 221 (225)
T PF04452_consen 216 AIAALS 221 (225)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 544443
No 32
>PRK00103 rRNA large subunit methyltransferase; Provisional
Probab=79.74 E-value=3.8 Score=33.28 Aligned_cols=48 Identities=17% Similarity=0.214 Sum_probs=36.3
Q ss_pred CCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhc
Q 040494 93 KSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVW 146 (217)
Q Consensus 93 ~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~ 146 (217)
++++||+|. ..|+++++++.||..+++--- .++=-.|--|++-+++|.
T Consensus 98 ~~i~F~IGG-a~G~~~~v~~~a~~~lSLS~m-----TfpH~larlvL~EQlYRa 145 (157)
T PRK00103 98 SDVAFVIGG-ADGLSPAVKKRADQSLSLSKL-----TLPHQLVRVLLAEQLYRA 145 (157)
T ss_pred ccEEEEEcC-ccccCHHHHHhcCceEEeccC-----CCcHHHHHHHHHHHHHHH
Confidence 479999999 899999999999998886321 244556667777766543
No 33
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=77.89 E-value=5.6 Score=30.05 Aligned_cols=61 Identities=15% Similarity=0.199 Sum_probs=45.0
Q ss_pred CCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhh--CCCcEEEEE
Q 040494 12 AKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKS--KDCDICGVE 78 (217)
Q Consensus 12 ~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~--~g~~v~~~~ 78 (217)
-.+.|+|-.+-.++--|+.+.++...+..+| ..|-.+..-.+.+.+++.+++ ..--++++.
T Consensus 11 Ve~eNvGkaiN~mad~GiTGFfl~eYrGvsP------d~wkgf~~~EDpE~aik~i~D~s~~AVlI~tV 73 (110)
T COG4075 11 VEEENVGKAINIMADAGITGFFLHEYRGVSP------DKWKGFSKEEDPESAIKAIRDLSDKAVLIGTV 73 (110)
T ss_pred ecHHHHHHHHHHHHhcCcceEEEEEecCcCh------hHhcCcccccCHHHHHHHHHHhhhceEEEEEe
Confidence 4689999999999999999999998877777 445555555788888877763 333444444
No 34
>PF02590 SPOUT_MTase: Predicted SPOUT methyltransferase; InterPro: IPR003742 This family of proteins are predicted to be SPOUT methyltransferases []. ; GO: 0008168 methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1VH0_E 4FAK_A 1TO0_G 1O6D_A 1NS5_B.
Probab=75.41 E-value=3.8 Score=33.18 Aligned_cols=69 Identities=14% Similarity=0.199 Sum_probs=38.4
Q ss_pred CCCcEEEEEecCCcccccccCC-----------CCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHH
Q 040494 70 KDCDICGVEITDNAVDVTQHPF-----------KKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASI 138 (217)
Q Consensus 70 ~g~~v~~~~~~~~~~~l~~~~~-----------~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaI 138 (217)
.+..+++++. ..+.++...| ..+++|++|. ..|+++++++.||..+++--- .+.=-.|--|
T Consensus 66 ~~~~~i~Ld~--~Gk~~sS~~fA~~l~~~~~~g~~~i~F~IGG-~~G~~~~~~~~a~~~lSLS~m-----TfpH~larlv 137 (155)
T PF02590_consen 66 PNDYVILLDE--RGKQLSSEEFAKKLERWMNQGKSDIVFIIGG-ADGLSEEVRKRADEKLSLSKM-----TFPHQLARLV 137 (155)
T ss_dssp TTSEEEEE-T--TSEE--HHHHHHHHHHHHHTTS-EEEEEE-B-TTB--HHHHHH-SEEEES-SS--------HHHHHHH
T ss_pred CCCEEEEEcC--CCccCChHHHHHHHHHHHhcCCceEEEEEec-CCCCCHHHHhhcCceEEEecC-----CCcHHHHHHH
Confidence 5666777764 4444444322 3579999999 799999999999988876322 2334455666
Q ss_pred HHHHHHhc
Q 040494 139 VLHHFGVW 146 (217)
Q Consensus 139 vL~e~~~~ 146 (217)
++-++.|.
T Consensus 138 L~EQiYRA 145 (155)
T PF02590_consen 138 LLEQIYRA 145 (155)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 66666543
No 35
>COG1772 Uncharacterized protein conserved in archaea [Function unknown]
Probab=72.04 E-value=7.2 Score=31.70 Aligned_cols=46 Identities=26% Similarity=0.329 Sum_probs=39.7
Q ss_pred CCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHH
Q 040494 92 KKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVL 140 (217)
Q Consensus 92 ~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL 140 (217)
.+...|++|--.+||+.++++.|-+.+-|-..|- ||-...|.+++=
T Consensus 119 ~ks~~~~iGLGr~GLPke~~~~~~YHLDiT~kgv---SLETcTAIGaIp 164 (178)
T COG1772 119 GKSFTFLIGLGRHGLPKEMFKSAKYHLDITDKGV---SLETCTAIGAIP 164 (178)
T ss_pred CCceEEEEecCCCCCcHHHHhhceeeeeeccCcc---eeeehhhhcchH
Confidence 4677899999999999999999998888887664 999999988773
No 36
>TIGR00246 tRNA_RlmH_YbeA rRNA large subunit m3Psi methyltransferase RlmH. This protein, in the SPOUT methyltransferase family, previously designated YbeA in E. coli, was shown to be responsible for a further modification, a methylation, to a pseudouridine base in ribosomal large subunit RNA.
Probab=64.43 E-value=9 Score=31.00 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=35.0
Q ss_pred CCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHh
Q 040494 93 KSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGV 145 (217)
Q Consensus 93 ~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~ 145 (217)
.+++||+|. ..|+++++++.||..+++--- .+.=-.|--|++-+++|
T Consensus 95 ~~i~FvIGG-a~G~~~~v~~~a~~~lSLS~m-----TfpH~larlvL~EQiYR 141 (153)
T TIGR00246 95 RDVTLLIGG-PEGLSPTCKAAAEQSWSLSKL-----TLPHPLVRVIVAESLYR 141 (153)
T ss_pred CeEEEEEcC-CCcCCHHHHHhcCceEEeecC-----CCcHHHHHHHHHHHHHH
Confidence 469999999 899999999999998886321 24445566666666644
No 37
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=59.67 E-value=37 Score=31.85 Aligned_cols=70 Identities=24% Similarity=0.278 Sum_probs=49.9
Q ss_pred CHHHHHHHhhhCCCcEEEEE--ecCCc-------------ccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCC
Q 040494 59 SLSDARVFLKSKDCDICGVE--ITDNA-------------VDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQY 123 (217)
Q Consensus 59 s~~~~l~~l~~~g~~v~~~~--~~~~~-------------~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~ 123 (217)
+++.+.+.+++.||+.+-++ +...+ ...+..||.+|++||+|.| .+|+|...
T Consensus 259 sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~Pf~~P~~llsGGE-------------TTVTvrG~ 325 (422)
T COG2379 259 SLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRPFKKPVVLLSGGE-------------TTVTVRGN 325 (422)
T ss_pred HHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCCCCCCEEEEECCc-------------eEEEecCC
Confidence 46677777789999755544 32222 2235679999999999999 57999998
Q ss_pred CCCCCcccHHHHHHHHHH
Q 040494 124 GGGTASLNVTVAASIVLH 141 (217)
Q Consensus 124 g~~~~SLNVsvAaaIvL~ 141 (217)
|.+-.-..+.-+.++.+-
T Consensus 326 gkGGRN~E~~Ls~~~~~~ 343 (422)
T COG2379 326 GKGGRNQEFLLSFAIAIE 343 (422)
T ss_pred CCCCccHHHHHHHHHHhc
Confidence 876666777766666654
No 38
>COG1901 Uncharacterized conserved protein [Function unknown]
Probab=59.29 E-value=37 Score=28.67 Aligned_cols=78 Identities=13% Similarity=0.254 Sum_probs=59.2
Q ss_pred CCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHh----hCCcEEEEcCCCCCCCcccHH
Q 040494 58 HSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECE----ICDFFVYIPQYGGGTASLNVT 133 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~----~cD~~v~IP~~g~~~~SLNVs 133 (217)
.++++++..+. +++.+|.+. ++..++.++.+...-+||+|. ..|++++..+ ..+..|++ | --||=..
T Consensus 112 ~~~e~ll~~l~-~~~~ly~L~--E~G~DI~~v~~~~np~FIlGD-H~g~t~e~~k~L~r~~~~~ISl---G--P~~lha~ 182 (197)
T COG1901 112 GGFEALLAELA-EGRSLYYLH--EDGRDISEVDLIPNPVFILGD-HIGLTEEDEKLLERHAAKKISL---G--PLSLHAD 182 (197)
T ss_pred CCHHHHHHHHh-ccCcEEEEc--cCCccHhhcccCCCceEEeeC-CCCCCHHHHHHHHHhhCceeEe---C--chHHHHH
Confidence 57777777774 577888887 456788898888888999998 8999988665 35566655 2 2378888
Q ss_pred HHHHHHHHHHH
Q 040494 134 VAASIVLHHFG 144 (217)
Q Consensus 134 vAaaIvL~e~~ 144 (217)
++..++=+++-
T Consensus 183 hcit~~h~~LD 193 (197)
T COG1901 183 HCITLLHNLLD 193 (197)
T ss_pred HHHHHHHHHHh
Confidence 88888887763
No 39
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=53.05 E-value=48 Score=25.46 Aligned_cols=95 Identities=16% Similarity=0.091 Sum_probs=50.5
Q ss_pred ccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEecCCc-cc-ccccCCC
Q 040494 15 HNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEITDNA-VD-VTQHPFK 92 (217)
Q Consensus 15 ~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~-~~-l~~~~~~ 92 (217)
.+...........|+.-+.... ... ...-.++...+ ..++++.+..+++..+.+-..++. .| +..+.-.
T Consensus 52 ~~~~~~~~~L~~~g~~~~~~~~-~~~-~~~~~~~D~~l-------~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~ 122 (149)
T cd06167 52 ERQRGFLDALRRLGFEPIQKPL-RTR-GSGKKGVDVAL-------AIDALELAYKRRIDTIVLVSGDSDFVPLVERLREL 122 (149)
T ss_pred hhHHHHHHHHHHCCcEEEEEcc-eec-CCcccCccHHH-------HHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHc
Confidence 4677788888888986444432 111 00111111111 124444444445543333322221 11 2233334
Q ss_pred CCEEEEEcCCCCCCCHHHHhhCCcEEE
Q 040494 93 KSTAFLLGNEGMGLSAKECEICDFFVY 119 (217)
Q Consensus 93 ~~~alV~GnE~~GLs~~~l~~cD~~v~ 119 (217)
++.++|+|.+ ...|.++.+.||.++.
T Consensus 123 G~~V~v~~~~-~~~s~~L~~~~d~f~~ 148 (149)
T cd06167 123 GKRVIVVGFE-AKTSRELRKAADRFID 148 (149)
T ss_pred CCEEEEEccC-ccChHHHHHhCCcccc
Confidence 7788888886 8899999999996553
No 40
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=50.74 E-value=43 Score=25.35 Aligned_cols=45 Identities=16% Similarity=0.169 Sum_probs=33.2
Q ss_pred CCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEE
Q 040494 12 AKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 12 ~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
..|..+..+++-|.+.|++.+++... ..-+++++.+++.|+++++
T Consensus 63 ~~~~~~~~~v~~~~~~g~~~v~~~~g--------------------~~~~~~~~~a~~~gi~vig 107 (116)
T PF13380_consen 63 VPPDKVPEIVDEAAALGVKAVWLQPG--------------------AESEELIEAAREAGIRVIG 107 (116)
T ss_dssp S-HHHHHHHHHHHHHHT-SEEEE-TT--------------------S--HHHHHHHHHTT-EEEE
T ss_pred cCHHHHHHHHHHHHHcCCCEEEEEcc--------------------hHHHHHHHHHHHcCCEEEe
Confidence 45778999999999999999998743 4557888888999999886
No 41
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=49.89 E-value=39 Score=27.55 Aligned_cols=51 Identities=20% Similarity=0.270 Sum_probs=34.8
Q ss_pred hCCCcEEEEEecCCccc-------ccccCC-CCCEEEEEcCCCCCCCHHHHhhCCcEEEE
Q 040494 69 SKDCDICGVEITDNAVD-------VTQHPF-KKSTAFLLGNEGMGLSAKECEICDFFVYI 120 (217)
Q Consensus 69 ~~g~~v~~~~~~~~~~~-------l~~~~~-~~~~alV~GnE~~GLs~~~l~~cD~~v~I 120 (217)
..|-.++.++......+ +..... -+.++|++|. ..||++++++.+|..++.
T Consensus 65 ~~~~~vi~Ld~~Gk~~sSe~fA~~l~~~~~~G~~i~f~IGG-~~Gl~~~~~~~a~~~~sl 123 (155)
T COG1576 65 PKGSYVVLLDIRGKALSSEEFADFLERLRDDGRDISFLIGG-ADGLSEAVKARADQVLSL 123 (155)
T ss_pred CCCCeEEEEecCCCcCChHHHHHHHHHHHhcCCeEEEEEeC-cccCCHHHHHHHhhheec
Confidence 35668888886333221 111111 2579999999 899999999999987764
No 42
>PF10126 Nit_Regul_Hom: Uncharacterized protein, homolog of nitrogen regulatory protein PII; InterPro: IPR019296 This family consists of various hypothetical archaeal proteins. It includes a putative nitrogen regulatory protein PII homolog.
Probab=47.32 E-value=49 Score=25.40 Aligned_cols=62 Identities=13% Similarity=0.157 Sum_probs=45.3
Q ss_pred CCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhh--CCCcEEEEEe
Q 040494 12 AKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKS--KDCDICGVEI 79 (217)
Q Consensus 12 ~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~--~g~~v~~~~~ 79 (217)
-+..|+|-.+-...--|+.+.++...+..+| ..|-.+..-.+.+.+++..++ +..-++++-.
T Consensus 11 Ve~eNlGKaINaLte~GITGFyl~eYkGmSP------~~wkgf~l~EDpe~ai~~I~d~s~~aV~I~TVV 74 (110)
T PF10126_consen 11 VESENLGKAINALTEGGITGFYLHEYKGMSP------QDWKGFLLDEDPEMAIKAINDLSENAVLIGTVV 74 (110)
T ss_pred EehhHHHHHHHHHHhcCccEEEeEeecCCCh------HHhcCcccccCHHHHHHHHHHhccCcEEEEEEE
Confidence 3578999999999999999999998776666 444445444788888887774 3344555543
No 43
>PRK04171 ribosome biogenesis protein; Provisional
Probab=46.26 E-value=87 Score=27.01 Aligned_cols=84 Identities=15% Similarity=0.063 Sum_probs=56.5
Q ss_pred ceeeEEeCCHHHHHHHhhhCC--CcEEEEEecCCcccccccC-CCCCEEEEEcCCCCC-CCHHHHhhCCcEEEEcCCCCC
Q 040494 51 HVNFRHFHSLSDARVFLKSKD--CDICGVEITDNAVDVTQHP-FKKSTAFLLGNEGMG-LSAKECEICDFFVYIPQYGGG 126 (217)
Q Consensus 51 ~~~i~~~~s~~~~l~~l~~~g--~~v~~~~~~~~~~~l~~~~-~~~~~alV~GnE~~G-Ls~~~l~~cD~~v~IP~~g~~ 126 (217)
-+.+.. .++.+.+ ..+ ..+++++.......+.++- ...++++|+|.=.+| .+.+..+..|..++|-.+
T Consensus 129 Llkv~k-~~l~~~l----~~~~~~~~i~lS~~g~~~~~~~~~~~~~~~~~vIGaf~hG~f~~~~~~~~~~~iSIs~~--- 200 (222)
T PRK04171 129 LLEIEN-KSLEELL----EEIGPDRIILLSEKGELVKPKELGKENENIAVGIGGFPHGDFSEKVLELAKKKYSIYGE--- 200 (222)
T ss_pred hheeec-CcHHHhc----cccCCCcEEEECCCCcccCHHHHhhccCCcEEEEccccCCCcchhhHhhcCeEEEEeCC---
Confidence 444443 5555544 233 6788888533333433432 367899999998888 466677888999999754
Q ss_pred CCcccHHHHHHHHHHHHH
Q 040494 127 TASLNVTVAASIVLHHFG 144 (217)
Q Consensus 127 ~~SLNVsvAaaIvL~e~~ 144 (217)
+|-.+++++-+++++-
T Consensus 201 --pLsa~~v~~ri~~a~E 216 (222)
T PRK04171 201 --PLTAWTVVCRVIAAYE 216 (222)
T ss_pred --ChHHHHHHHHHHHHHH
Confidence 5888888888888773
No 44
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=44.94 E-value=42 Score=27.42 Aligned_cols=30 Identities=17% Similarity=0.307 Sum_probs=26.1
Q ss_pred CCCEEEEEcCCCCCCCHHHHhhCCcEEEEcC
Q 040494 92 KKSTAFLLGNEGMGLSAKECEICDFFVYIPQ 122 (217)
Q Consensus 92 ~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~ 122 (217)
.++.++++|-| .+.|.++.+.||.+++|.-
T Consensus 128 ~G~~V~v~g~~-~~ts~~L~~acd~FI~L~~ 157 (160)
T TIGR00288 128 NGKETIVIGAE-PGFSTALQNSADIAIILGE 157 (160)
T ss_pred CCCEEEEEeCC-CCChHHHHHhcCeEEeCCC
Confidence 58999999975 5889999999999998864
No 45
>PRK03094 hypothetical protein; Provisional
Probab=44.66 E-value=50 Score=23.94 Aligned_cols=23 Identities=26% Similarity=0.333 Sum_probs=19.7
Q ss_pred eCCHHHHHHHhhhCCCcEEEEEe
Q 040494 57 FHSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 57 ~~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
-.++.+.-++|+++||.|+-+..
T Consensus 7 E~~Ls~i~~~L~~~GYeVv~l~~ 29 (80)
T PRK03094 7 EQSLTDVQQALKQKGYEVVQLRS 29 (80)
T ss_pred ecCcHHHHHHHHHCCCEEEecCc
Confidence 36899999999999999987753
No 46
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional
Probab=43.73 E-value=2e+02 Score=24.36 Aligned_cols=99 Identities=19% Similarity=0.219 Sum_probs=57.4
Q ss_pred EeCCCCcccHHHHHHHhHHHCCCcEEEeCCC-C---CC--c------c-------cc-CCCccceee-EEeCCHHHHHHH
Q 040494 8 VHNIAKRHNVGTLARSATAFGVSEMILVGRR-D---FN--A------F-------GS-HGSTSHVNF-RHFHSLSDARVF 66 (217)
Q Consensus 8 Ld~v~~p~NlG~I~Rsa~afGv~~v~lv~~~-~---~~--~------~-------~s-~Ga~~~~~i-~~~~s~~~~l~~ 66 (217)
+-.+-++..+=.+++-|.-+|++.++.+... + +. . | ++ +....++|- ....++.++++.
T Consensus 79 ~~al~k~~~~e~il~k~tELGV~~i~p~~sers~~~~~~~~~~~k~~r~~~i~~~A~~Qs~r~~~P~i~~~~~~~~~l~~ 158 (234)
T PRK11713 79 AQALPKGDRLELILQKATELGVSAIIPLISERSVVKLDGERADKKLERWQKIAIEAAEQSGRTRIPEVRPPISLKEFLEE 158 (234)
T ss_pred EEeecCCccHHHHHHHHHHhCcCeEEEEEeccceecccchhhHHHHHHHHHHHHHHHHhcCCCCCCEEcCcCCHHHHHhh
Confidence 3346678899999999999999999998432 1 11 0 0 11 122345553 334677776655
Q ss_pred hhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhC
Q 040494 67 LKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEIC 114 (217)
Q Consensus 67 l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~c 114 (217)
..... + .. +....++. .-.+++++++|.| -|.|++.++..
T Consensus 159 ~~~~~--~--~~--~~~~~l~~-~~~~~i~viIGPE-GGfs~~Ei~~l 198 (234)
T PRK11713 159 LLPAD--L--KA--GLKLVLHP-EAGGKVLLLIGPE-GGFSPEEIELL 198 (234)
T ss_pred ccccc--c--ch--hhhhhcCc-CCCCeEEEEECCC-CCCCHHHHHHH
Confidence 43211 1 00 00011111 1124689999999 69999988754
No 47
>COG2106 Uncharacterized conserved protein [Function unknown]
Probab=43.49 E-value=22 Score=31.55 Aligned_cols=24 Identities=38% Similarity=0.587 Sum_probs=20.9
Q ss_pred cccHHHHHHHhHHHCCCcEEEeCC
Q 040494 14 RHNVGTLARSATAFGVSEMILVGR 37 (217)
Q Consensus 14 p~NlG~I~Rsa~afGv~~v~lv~~ 37 (217)
..=+|.|+|+|+-|+++.|++..+
T Consensus 25 T~Kvg~IARaaaiF~V~eIii~~D 48 (272)
T COG2106 25 TYKVGQIARAAAIFRVDEIIIYED 48 (272)
T ss_pred HHHHHHHHHHHHhhcccEEEEEeC
Confidence 345899999999999999999854
No 48
>TIGR00046 RNA methyltransferase, RsmE family. Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
Probab=42.72 E-value=2.1e+02 Score=24.35 Aligned_cols=106 Identities=16% Similarity=0.172 Sum_probs=63.2
Q ss_pred EEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCC-C---CC----cc----------cc-CCCccceeeE-EeCCHHHHHH
Q 040494 6 VVVHNIAKRHNVGTLARSATAFGVSEMILVGRR-D---FN----AF----------GS-HGSTSHVNFR-HFHSLSDARV 65 (217)
Q Consensus 6 vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~-~---~~----~~----------~s-~Ga~~~~~i~-~~~s~~~~l~ 65 (217)
.++-.+-++.-+=.|++-|.-+|++.++.+... + ++ .+ ++ +....++|-. ...++.++++
T Consensus 79 ~l~~al~K~~~~d~il~katELGv~~i~p~~s~rs~~~~~~~~~~k~~rw~~i~~eA~~Q~~r~~lP~i~~~~~l~~~l~ 158 (240)
T TIGR00046 79 HLAIVLIKGKKMEFIIRKLTELGVSKIIPFNAERSVVKLDIEAIKKLERWQKIAIEAAEQSGRNIVPEIKPPKNLKEKCA 158 (240)
T ss_pred EEEEeecCCccHHHHHHHHHHcCCCEEEEEEeccceeccCchHHHHHHHHHHHHHHHHHhcCCCCCCEECCcCCHHHHHh
Confidence 344456678899999999999999999987432 1 21 10 11 1223455544 3467888776
Q ss_pred HhhhCCCcEEEEEecCCcccc-cccC-CCCCEEEEEcCCCCCCCHHHHhhCC
Q 040494 66 FLKSKDCDICGVEITDNAVDV-TQHP-FKKSTAFLLGNEGMGLSAKECEICD 115 (217)
Q Consensus 66 ~l~~~g~~v~~~~~~~~~~~l-~~~~-~~~~~alV~GnE~~GLs~~~l~~cD 115 (217)
........++. . ++..+. ..+. ..+++++++|.| -|.|++.++.+.
T Consensus 159 ~~~~~~~~~~~-~--~~~~~~~~~l~~~~~~v~~~IGPE-GGfs~~Ei~~~~ 206 (240)
T TIGR00046 159 EAYEEALKLNF-H--PEASPLSANLPIPAGNIVIIIGPE-GGFSEKEIQLLK 206 (240)
T ss_pred hCcCCCeEEEE-C--CcccchhhhhccCCCcEEEEECCC-CCCCHHHHHHHH
Confidence 54432222332 2 222222 1121 234699999999 699999987653
No 49
>PF02598 Methyltrn_RNA_3: Putative RNA methyltransferase; InterPro: IPR003750 This entry describes proteins of unknown function.; PDB: 1K3R_B.
Probab=39.52 E-value=57 Score=29.13 Aligned_cols=60 Identities=18% Similarity=0.114 Sum_probs=27.3
Q ss_pred CCCccceeeEEeCCHHHHHHHhh-hCCCc-EEEEEecCCcccccccC------CCCCEEEEEc--CCCCCCC
Q 040494 46 HGSTSHVNFRHFHSLSDARVFLK-SKDCD-ICGVEITDNAVDVTQHP------FKKSTAFLLG--NEGMGLS 107 (217)
Q Consensus 46 ~Ga~~~~~i~~~~s~~~~l~~l~-~~g~~-v~~~~~~~~~~~l~~~~------~~~~~alV~G--nE~~GLs 107 (217)
.|..+--.++...++.++++.+. +.||. +++++. ...++.+.. -.+++++||| .-..|+-
T Consensus 176 ~g~YwGY~VR~a~sl~~v~~~~~~~~GYd~~IgtS~--~G~~~~~~~~~~~~~~~~~~LiVFGg~~~~~~~~ 245 (291)
T PF02598_consen 176 AGYYWGYSVRIASSLSEVFTECPYPEGYDLIIGTSE--RGEPISSSELEIKSSSFKHLLIVFGGWSPLEGAD 245 (291)
T ss_dssp --S----EEEEECEHHHHHHHC------SEEEEE-T--TS-BTTTSHHHHHHHT-SEEEEE-----SSS---
T ss_pred CCccCCeEEEEeCCHHHHHhcCCcccccceEEEECC--CCeeCchhhcccccCCCCcEEEEEecCHHHhhcc
Confidence 56666667777899999999988 78985 777763 233333221 3478999999 4334433
No 50
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=39.34 E-value=49 Score=23.92 Aligned_cols=22 Identities=23% Similarity=0.395 Sum_probs=19.6
Q ss_pred CCHHHHHHHhhhCCCcEEEEEe
Q 040494 58 HSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
.++.+..++|+++||.|+-+..
T Consensus 8 ~~Ls~v~~~L~~~GyeVv~l~~ 29 (80)
T PF03698_consen 8 EGLSNVKEALREKGYEVVDLEN 29 (80)
T ss_pred CCchHHHHHHHHCCCEEEecCC
Confidence 6889999999999999998774
No 51
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=38.73 E-value=1.8e+02 Score=24.39 Aligned_cols=88 Identities=17% Similarity=0.187 Sum_probs=57.0
Q ss_pred CcccHHHHHHHhHHHCCCcEEEeCCCC------C-Cc--------------------cccCCCccceeeEEeCCHHHHHH
Q 040494 13 KRHNVGTLARSATAFGVSEMILVGRRD------F-NA--------------------FGSHGSTSHVNFRHFHSLSDARV 65 (217)
Q Consensus 13 ~p~NlG~I~Rsa~afGv~~v~lv~~~~------~-~~--------------------~~s~Ga~~~~~i~~~~s~~~~l~ 65 (217)
|+.=+..+-|.|..||++.+.++.... . .| +-..|..-.++.....+...+++
T Consensus 67 ~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~daiFIGGg~~i~~ile~~~~~l~~ggrlV~naitlE~~~~a~~ 146 (187)
T COG2242 67 DEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDAIFIGGGGNIEEILEAAWERLKPGGRLVANAITLETLAKALE 146 (187)
T ss_pred CHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCEEEECCCCCHHHHHHHHHHHcCcCCeEEEEeecHHHHHHHHH
Confidence 555678899999999999999985321 1 12 01344555667777788888889
Q ss_pred HhhhCCC-cEEEEEecCCcccccc---cCCCCCEEEEEcC
Q 040494 66 FLKSKDC-DICGVEITDNAVDVTQ---HPFKKSTAFLLGN 101 (217)
Q Consensus 66 ~l~~~g~-~v~~~~~~~~~~~l~~---~~~~~~~alV~Gn 101 (217)
.+++.|+ .++-+... .+.++.. +....|+.++.|-
T Consensus 147 ~~~~~g~~ei~~v~is-~~~~lg~~~~~~~~nPv~i~~g~ 185 (187)
T COG2242 147 ALEQLGGREIVQVQIS-RGKPLGGGTMFRPVNPVFIISGV 185 (187)
T ss_pred HHHHcCCceEEEEEee-cceeccCeeEeecCCCEEEEEEe
Confidence 9999888 66655542 2333332 3345677666653
No 52
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=38.43 E-value=1.5e+02 Score=25.70 Aligned_cols=61 Identities=11% Similarity=0.162 Sum_probs=35.2
Q ss_pred HHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCC-CcEEEEEecCCccccccc
Q 040494 19 TLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKD-CDICGVEITDNAVDVTQH 89 (217)
Q Consensus 19 ~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g-~~v~~~~~~~~~~~l~~~ 89 (217)
++...|...|+.-+.+-.+. +.+ ...-++..+.|++++.+.+.+.+ -+|+.+. |++.+..+
T Consensus 84 na~~a~~~~~ipylR~eRp~-~~~------~~~~~~~~v~~~~eA~~~l~~~~~~~ifltt---Gsk~L~~f 145 (249)
T PF02571_consen 84 NAIEACRELGIPYLRFERPS-WQP------EPDDNWHYVDSYEEAAELLKELGGGRIFLTT---GSKNLPPF 145 (249)
T ss_pred HHHHHHhhcCcceEEEEcCC-ccc------CCCCeEEEeCCHHHHHHHHhhcCCCCEEEeC---chhhHHHH
Confidence 34455555555555444321 111 11223777899999999998777 5676665 44555444
No 53
>PRK01889 GTPase RsgA; Reviewed
Probab=36.19 E-value=2.6e+02 Score=25.37 Aligned_cols=36 Identities=17% Similarity=0.323 Sum_probs=25.0
Q ss_pred ceEEEEeCCCCcccHHHHHHH---hHHHCCCcEEEeCCC
Q 040494 3 ESYVVVHNIAKRHNVGTLARS---ATAFGVSEMILVGRR 38 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rs---a~afGv~~v~lv~~~ 38 (217)
+.++++..+..+.|..-|=|. |.+.|+.-++++...
T Consensus 114 D~vliV~s~~p~~~~~~ldr~L~~a~~~~i~piIVLNK~ 152 (356)
T PRK01889 114 DTVFIVCSLNHDFNLRRIERYLALAWESGAEPVIVLTKA 152 (356)
T ss_pred CEEEEEEecCCCCChhHHHHHHHHHHHcCCCEEEEEECh
Confidence 456666677667777777666 667888887777543
No 54
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=35.52 E-value=98 Score=20.36 Aligned_cols=64 Identities=11% Similarity=0.049 Sum_probs=39.5
Q ss_pred EEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEE--eCCHHHHHHHhhhCCCcE
Q 040494 6 VVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRH--FHSLSDARVFLKSKDCDI 74 (217)
Q Consensus 6 vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~--~~s~~~~l~~l~~~g~~v 74 (217)
+.+.-...||++..+++.....|+.=.-+.... ... +....+.+.. -.+.+.+.+.|++.||.|
T Consensus 4 ~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~---~~~--~~~~~~~i~v~~~~~~~~~~~~L~~~G~~v 69 (69)
T cd04909 4 LYVDVPDEPGVIAEVTQILGDAGISIKNIEILE---IRE--GIGGILRISFKTQEDRERAKEILKEAGYEV 69 (69)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEE---eec--CCcEEEEEEECCHHHHHHHHHHHHHcCCcC
Confidence 455667789999999999999998643332111 000 1111122221 145788999999999874
No 55
>PRK07206 hypothetical protein; Provisional
Probab=34.12 E-value=1.7e+02 Score=26.51 Aligned_cols=73 Identities=14% Similarity=0.179 Sum_probs=41.9
Q ss_pred CCceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCc--cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEE
Q 040494 1 MIESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNA--FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICG 76 (217)
Q Consensus 1 ~~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~--~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~ 76 (217)
||+.+++|+.-.. --.+++++...|++-+++......++ ..+.-......+....+.+++++.+++.+...+-
T Consensus 1 ~~k~~liv~~~~~---~~~~~~a~~~~G~~~v~v~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~d~vi 75 (416)
T PRK07206 1 MMKKVVIVDPFSS---GKFLAPAFKKRGIEPIAVTSSCLLDPYYYASFDTSDFIEVIINGDIDDLVEFLRKLGPEAII 75 (416)
T ss_pred CCCeEEEEcCCch---HHHHHHHHHHcCCeEEEEEcCCCCchhhhcccCcccchhhhcCCCHHHHHHHHHHcCCCEEE
Confidence 8888888887322 23688999999998666654322211 1111111111112226778888888877765444
No 56
>PF02598 Methyltrn_RNA_3: Putative RNA methyltransferase; InterPro: IPR003750 This entry describes proteins of unknown function.; PDB: 1K3R_B.
Probab=33.76 E-value=33 Score=30.61 Aligned_cols=21 Identities=33% Similarity=0.627 Sum_probs=17.0
Q ss_pred HHHHHHHhHHHCCCcEEEeCC
Q 040494 17 VGTLARSATAFGVSEMILVGR 37 (217)
Q Consensus 17 lG~I~Rsa~afGv~~v~lv~~ 37 (217)
+|-|+|+|.-|+|+.|++-..
T Consensus 24 ~gqIARaaaiF~VdEIvVydd 44 (291)
T PF02598_consen 24 AGQIARAAAIFRVDEIVVYDD 44 (291)
T ss_dssp HHHHHHHHHHTT--EEEEEE-
T ss_pred HHHHHHHHHeecCcEEEEEcc
Confidence 699999999999999999865
No 57
>PRK06769 hypothetical protein; Validated
Probab=32.97 E-value=1.2e+02 Score=24.30 Aligned_cols=50 Identities=10% Similarity=0.038 Sum_probs=31.5
Q ss_pred CCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEe
Q 040494 28 GVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 28 Gv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
|++.|++-.....++..+ -...-.+..+....++++.|+++|++++.++.
T Consensus 3 ~~~~~~~d~d~~~~~~~~--~~~~~~~~~~pgv~e~L~~Lk~~G~~l~I~Tn 52 (173)
T PRK06769 3 NIQAIFIDRDGTIGGDTT--IHYPGSFTLFPFTKASLQKLKANHIKIFSFTN 52 (173)
T ss_pred CCcEEEEeCCCcccCCCC--CCCHHHeEECCCHHHHHHHHHHCCCEEEEEEC
Confidence 555555543334544221 11112345578999999999999999888874
No 58
>PF06849 DUF1246: Protein of unknown function (DUF1246); InterPro: IPR010672 The last two steps of de novo purine biosynthesis are: i) conversion of 5-aminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (AICAR) to 5-formaminoimidazole-4-carboxamide-1-beta-D-ribofuranosyl 5'-monophosphate (FAICAR) ii) conversion of FAICAR to inosine5'-monophopsphate (IMP) In bacteria and eukaryotes, these steps are catalysed by the well-characterised bifunctional enzyme PurH []. Archaea do not appear to posses PurH, however, and perform these reactions by a different mecahnism []. In archaea, step i) is catalysed by the well-conserved PurP protein, while step ii) is catalysed by the PurO enzyme in some (though not all) species [, ]. This entry represents the N-terminal domain of PurP. Its function is not known, though it is almost always found in association with IPR009720 from INTERPRO.; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0016879 ligase activity, forming carbon-nitrogen bonds, 0006188 IMP biosynthetic process; PDB: 2PBZ_C 2R85_B 2R87_E 2R84_A 2R86_A 2R7L_A 2R7N_A 2R7K_A 2R7M_A.
Probab=29.77 E-value=1.6e+02 Score=23.12 Aligned_cols=66 Identities=15% Similarity=0.046 Sum_probs=46.9
Q ss_pred CCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhh--CCcEEEEcCCC
Q 040494 58 HSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEI--CDFFVYIPQYG 124 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~--cD~~v~IP~~g 124 (217)
+|.-+.+...|++|++-+++.......+|..+++... ++++-+-..=+++++.+. .+..|-||...
T Consensus 7 HSALqIl~GAk~EGFrT~~ic~~~r~~~Y~~f~~iDe-~i~~d~f~di~~~~~q~~L~~~N~I~VPhgS 74 (124)
T PF06849_consen 7 HSALQILDGAKDEGFRTIAICQKGREKFYRRFPFIDE-VIVLDSFSDILSEEVQEKLREMNAIFVPHGS 74 (124)
T ss_dssp TTHHHHHHHHHHTT--EEEEEETTCHHHHHTTTT-SE-EEEESSCGHCCSHHHHHHHHHTTEEE--BTT
T ss_pred hHHHHHhhhHHHcCCcEEEEECCCCcchhhhcCcCcE-EEEeCCHHHHHhHHHHHHHHHCCeEEecCCC
Confidence 5677888889999999888887667778888886544 688888777777777764 36789999843
No 59
>PF15050 SCIMP: SCIMP protein
Probab=29.74 E-value=50 Score=25.91 Aligned_cols=26 Identities=31% Similarity=0.621 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhccCchhhhhcCCcceec
Q 040494 132 VTVAASIVLHHFGVWAGFSERTRDGNKYVVA 162 (217)
Q Consensus 132 VsvAaaIvL~e~~~~~~~~~R~r~g~kf~~~ 162 (217)
||+..|++||-+.|| --|.|+|+..+
T Consensus 19 vS~~lglIlyCvcR~-----~lRqGkkweia 44 (133)
T PF15050_consen 19 VSVVLGLILYCVCRW-----QLRQGKKWEIA 44 (133)
T ss_pred HHHHHHHHHHHHHHH-----HHHccccceec
Confidence 678888999988776 34678887554
No 60
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.50 E-value=3.2e+02 Score=22.48 Aligned_cols=18 Identities=22% Similarity=0.095 Sum_probs=10.9
Q ss_pred HHHHHHhhhCCCcEEEEE
Q 040494 61 SDARVFLKSKDCDICGVE 78 (217)
Q Consensus 61 ~~~l~~l~~~g~~v~~~~ 78 (217)
...++.+++.+.+++.+.
T Consensus 69 ~~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 69 PELVDALASLDLPIVLLD 86 (269)
T ss_pred HHHHHHHHhCCCCEEEEe
Confidence 345556666666666665
No 61
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.79 E-value=2.1e+02 Score=20.09 Aligned_cols=68 Identities=10% Similarity=0.065 Sum_probs=39.5
Q ss_pred eEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCC----HHHHHHHhhhCCCcEEEEE
Q 040494 4 SYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHS----LSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 4 ~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s----~~~~l~~l~~~g~~v~~~~ 78 (217)
.++.+.=+..||++..++..-. |+. |.-+....... ..+.-.+- ....+ .+++++.|++.||++.-.+
T Consensus 2 ~vl~v~ipD~PG~L~~ll~~l~--~an-I~~~~y~~~~~---~~~~v~i~-ie~~~~~~~~~~i~~~L~~~G~~~~~~~ 73 (85)
T cd04906 2 ALLAVTIPERPGSFKKFCELIG--PRN-ITEFNYRYADE---KDAHIFVG-VSVANGAEELAELLEDLKSAGYEVVDLS 73 (85)
T ss_pred eEEEEecCCCCcHHHHHHHHhC--CCc-eeEEEEEccCC---CeeEEEEE-EEeCCcHHHHHHHHHHHHHCCCCeEECC
Confidence 3556666788999999888666 432 32222111111 11111122 23345 8899999999999987544
No 62
>PF06880 DUF1262: Protein of unknown function (DUF1262); InterPro: IPR010683 This family represents a conserved region within a number of proteins of unknown function that seem to be specific to Arabidopsis thaliana. Note that some family members contain more than one copy of this region.
Probab=28.42 E-value=76 Score=24.17 Aligned_cols=46 Identities=22% Similarity=0.304 Sum_probs=33.8
Q ss_pred ccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCccc
Q 040494 84 VDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLN 131 (217)
Q Consensus 84 ~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLN 131 (217)
..+..+|||++..|-+.- ..|..+...-..|.++.||-.+. --|-|
T Consensus 29 ~~v~~LPFPQN~~Ltv~~-~~~~~~~~~t~~d~V~FIPVl~Q-PLSSn 74 (104)
T PF06880_consen 29 TRVRGLPFPQNKNLTVRY-SSGHGENTTTYSDPVVFIPVLNQ-PLSSN 74 (104)
T ss_pred CccccCCCCCCCEEEEEE-ccCCCccceeecccEEEEEcCCC-cCcCC
Confidence 457889999877776664 44555555566899999999985 66766
No 63
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=27.46 E-value=3.8e+02 Score=22.71 Aligned_cols=101 Identities=16% Similarity=0.203 Sum_probs=58.0
Q ss_pred EEEeCCCCcccHHH-HHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEE-------eCCHHHHHHHhhhCCCcEEEE
Q 040494 6 VVVHNIAKRHNVGT-LARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRH-------FHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 6 vvLd~v~~p~NlG~-I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~-------~~s~~~~l~~l~~~g~~v~~~ 77 (217)
|++.++...+=+|. ++-+-..+|.. .++++|.... .+-.|....-++.. ...+..++..+|+.|.+|+++
T Consensus 42 v~V~G~GkSG~Igkk~Aa~L~s~G~~-a~fv~p~ea~-hgdlg~i~~~DvviaiS~SGeT~el~~~~~~aK~~g~~liai 119 (202)
T COG0794 42 VFVTGVGKSGLIGKKFAARLASTGTP-AFFVGPAEAL-HGDLGMITPGDVVIAISGSGETKELLNLAPKAKRLGAKLIAI 119 (202)
T ss_pred EEEEcCChhHHHHHHHHHHHHccCCc-eEEecCchhc-cCCccCCCCCCEEEEEeCCCcHHHHHHHHHHHHHcCCcEEEE
Confidence 66677777777764 44455677876 4445544211 12222222222221 134556667778888888888
Q ss_pred EecCCcccccccCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHH
Q 040494 78 EITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTV 134 (217)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsv 134 (217)
+..+++ .+-+.+|.++.||-... ..-+|++-
T Consensus 120 T~~~~S-------------------------sLak~aDvvl~ip~~~e-~~p~~l~p 150 (202)
T COG0794 120 TSNPDS-------------------------SLAKAADVVLVIPVKTE-ACPLGLAP 150 (202)
T ss_pred eCCCCC-------------------------hHHHhcCeEEEccCccc-cCcccCCc
Confidence 753332 24567888888888774 66666444
No 64
>PRK13936 phosphoheptose isomerase; Provisional
Probab=26.68 E-value=42 Score=27.83 Aligned_cols=55 Identities=15% Similarity=0.120 Sum_probs=28.6
Q ss_pred hCCCcEEEEEecCCcccccc-c----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCC
Q 040494 69 SKDCDICGVEITDNAVDVTQ-H----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYG 124 (217)
Q Consensus 69 ~~g~~v~~~~~~~~~~~l~~-~----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g 124 (217)
..|--+++++.+.....+-+ . ...-+++.|-|+.+.=|++ +...||..+.||...
T Consensus 110 ~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~-l~~~ad~~l~v~~~~ 169 (197)
T PRK13936 110 QPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMAS-LLLPEDVEIRVPAER 169 (197)
T ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhh-hhccCCEEEEeCCCc
Confidence 34555566664333322221 1 1234666666664433333 334589889888854
No 65
>KOG0025 consensus Zn2+-binding dehydrogenase (nuclear receptor binding factor-1) [Transcription; Energy production and conversion]
Probab=26.27 E-value=1.3e+02 Score=27.41 Aligned_cols=118 Identities=19% Similarity=0.173 Sum_probs=65.5
Q ss_pred CCcccHH---HHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEecCCcccccc
Q 040494 12 AKRHNVG---TLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEITDNAVDVTQ 88 (217)
Q Consensus 12 ~~p~NlG---~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~ 88 (217)
||..|-| +++-.|.++|++.|=++..+ .+++++.+.|+.-|-+.+-++..-.......
T Consensus 166 QNganS~VG~~ViQlaka~GiktinvVRdR-------------------~~ieel~~~Lk~lGA~~ViTeeel~~~~~~k 226 (354)
T KOG0025|consen 166 QNGANSGVGQAVIQLAKALGIKTINVVRDR-------------------PNIEELKKQLKSLGATEVITEEELRDRKMKK 226 (354)
T ss_pred ecCcccHHHHHHHHHHHHhCcceEEEeecC-------------------ccHHHHHHHHHHcCCceEecHHHhcchhhhh
Confidence 4444433 57889999999999988655 6889999999998888777763212111111
Q ss_pred --cCCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHHHhccCch
Q 040494 89 --HPFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHFGVWAGFS 150 (217)
Q Consensus 89 --~~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~~~~~~~~ 150 (217)
..++++ -|-|-.=+---+.++...-+.-=..-.|| +..=--|.++++.+.|.=....+||
T Consensus 227 ~~~~~~~p-rLalNcVGGksa~~iar~L~~GgtmvTYG-GMSkqPv~~~ts~lIFKdl~~rGfW 288 (354)
T KOG0025|consen 227 FKGDNPRP-RLALNCVGGKSATEIARYLERGGTMVTYG-GMSKQPVTVPTSLLIFKDLKLRGFW 288 (354)
T ss_pred hhccCCCc-eEEEeccCchhHHHHHHHHhcCceEEEec-CccCCCcccccchheeccceeeeee
Confidence 122222 23333322223444445444333333444 2333455666666666544445554
No 66
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=25.63 E-value=59 Score=24.56 Aligned_cols=28 Identities=18% Similarity=0.211 Sum_probs=19.8
Q ss_pred CCCEEEEEcCCCCCCCHHHHhhCCcEEEE
Q 040494 92 KKSTAFLLGNEGMGLSAKECEICDFFVYI 120 (217)
Q Consensus 92 ~~~~alV~GnE~~GLs~~~l~~cD~~v~I 120 (217)
.++.+.|+|. ....|+++.+.||.++.|
T Consensus 118 ~g~~V~v~~~-~~~~s~~L~~~ad~f~~~ 145 (146)
T PF01936_consen 118 RGKRVIVVGA-EDSASEALRSAADEFISI 145 (146)
T ss_dssp H--EEEEEE--GGGS-HHHHHHSSEEEE-
T ss_pred cCCEEEEEEe-CCCCCHHHHHhcCEEEeC
Confidence 4677788884 678999999999999887
No 67
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.54 E-value=1.8e+02 Score=18.38 Aligned_cols=63 Identities=11% Similarity=0.134 Sum_probs=39.1
Q ss_pred EEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEE
Q 040494 7 VVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDIC 75 (217)
Q Consensus 7 vLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~ 75 (217)
.+.=+..|+.+..++......|+.=..+.. +.... .| ...+ ..+.++.+.+.+.|++.||.++
T Consensus 3 ~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~---~~~~~-~~-~~~v-~~~ve~~~~~~~~L~~~G~~v~ 65 (65)
T cd04882 3 AVEVPDKPGGLHEILQILSEEGINIEYMYA---FVEKK-GG-KALL-IFRTEDIEKAIEVLQERGVELV 65 (65)
T ss_pred EEEeCCCCcHHHHHHHHHHHCCCChhheEE---EccCC-CC-eEEE-EEEeCCHHHHHHHHHHCCceEC
Confidence 344456789999999988888886332321 11100 11 1222 2334679999999999999863
No 68
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=24.91 E-value=1.6e+02 Score=21.85 Aligned_cols=65 Identities=12% Similarity=0.019 Sum_probs=35.4
Q ss_pred CCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHHHHh-----hCCcEEEEcCCC
Q 040494 58 HSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAKECE-----ICDFFVYIPQYG 124 (217)
Q Consensus 58 ~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~~l~-----~cD~~v~IP~~g 124 (217)
..+.+..+.|.+.||+|+++.. .+..+.+.-.+-..+.-+...+.+-.+.+++ ..|.+|.||..+
T Consensus 13 ~~~~~~a~~l~~~G~~i~aT~g--Ta~~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~~~ 82 (116)
T cd01423 13 PELLPTAQKLSKLGYKLYATEG--TADFLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPSNR 82 (116)
T ss_pred hhHHHHHHHHHHCCCEEEEccH--HHHHHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCCCC
Confidence 3467778888899999999863 2333433333222222121111111243333 467888888765
No 69
>COG3876 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.54 E-value=2.8e+02 Score=25.61 Aligned_cols=66 Identities=20% Similarity=0.323 Sum_probs=49.2
Q ss_pred CEEEEEcCCCCCCCHHHHhhCCcEEE-EcCCCCCCCcccHHHHHHHHHHHHHhccCchhhhhcCCcceecccccccccC
Q 040494 94 STAFLLGNEGMGLSAKECEICDFFVY-IPQYGGGTASLNVTVAASIVLHHFGVWAGFSERTRDGNKYVVAERSARQVRR 171 (217)
Q Consensus 94 ~~alV~GnE~~GLs~~~l~~cD~~v~-IP~~g~~~~SLNVsvAaaIvL~e~~~~~~~~~R~r~g~kf~~~~~~~r~~~~ 171 (217)
++.=++|. ..--++++++.||.+|+ |.-.| ++|+.---+.+-+|-. -...++.|+|-+||+-.+.+
T Consensus 105 pvySLyg~-~~~Pt~emle~~DV~vfDiQDvG--~R~Ytyiytm~yameA---------s~e~~k~fiVLDRPNP~gG~ 171 (409)
T COG3876 105 PVYSLYGV-KEKPTKEMLEDCDVFVFDIQDVG--VRSYTYIYTMAYAMEA---------SAENGKEFIVLDRPNPMGGN 171 (409)
T ss_pred eEEEeeec-ccCCCHHHHhcCCEEEEechhcc--ceehhHHHHHHHHHHH---------HHHcCCceEEeCCCCCCCCc
Confidence 45556665 56667999999999888 44444 8898877666666642 34568999999999998874
No 70
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=24.11 E-value=1.5e+02 Score=25.63 Aligned_cols=45 Identities=11% Similarity=0.256 Sum_probs=34.0
Q ss_pred HHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEE
Q 040494 17 VGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 17 lG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~ 78 (217)
.+++++...++|++.|-++.| |.+ .--+...+++.+.|+.|+...
T Consensus 108 ~~A~~~AL~alg~~RIalvTP--Y~~---------------~v~~~~~~~l~~~G~eV~~~~ 152 (239)
T TIGR02990 108 SSAAVDGLAALGVRRISLLTP--YTP---------------ETSRPMAQYFAVRGFEIVNFT 152 (239)
T ss_pred HHHHHHHHHHcCCCEEEEECC--CcH---------------HHHHHHHHHHHhCCcEEeeee
Confidence 578999999999999999865 432 122445667889999988774
No 71
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=24.08 E-value=2.5e+02 Score=30.38 Aligned_cols=83 Identities=22% Similarity=0.330 Sum_probs=58.3
Q ss_pred ccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCc-EEEEEe--cCCcccc----c
Q 040494 15 HNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCD-ICGVEI--TDNAVDV----T 87 (217)
Q Consensus 15 ~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~-v~~~~~--~~~~~~l----~ 87 (217)
..++.++-.|.-.|.+.|-+++.. .+.+..++.+..++.|++ |+|++. .+...|+ .
T Consensus 352 ~sv~~~vk~A~kwghkaIAITDh~-----------------~VqafP~~y~~akK~giK~IyG~EanlvdD~vpiv~N~~ 414 (1444)
T COG2176 352 TSVEELVKQAKKWGHKAIAITDHG-----------------VVQAFPEAYKAAKKYGIKAIYGLEANLVDDGVPIVYNPD 414 (1444)
T ss_pred CCHHHHHHHHHHcCCceEEEecCc-----------------chhhchHHHHhhhhcCceEEEeeeeeeccCCCceecCcc
Confidence 357888999999999988887643 124566777777888885 678773 2233333 3
Q ss_pred ccCCCCCEEEEEcCCCCCCCH---HHHhhC
Q 040494 88 QHPFKKSTAFLLGNEGMGLSA---KECEIC 114 (217)
Q Consensus 88 ~~~~~~~~alV~GnE~~GLs~---~~l~~c 114 (217)
+.++..-+-+||-=|.+|||+ ++++.+
T Consensus 415 d~~l~datyVVfDiETTGLs~~~d~iIE~a 444 (1444)
T COG2176 415 DQKLDDATYVVFDIETTGLSPVYDEIIEIA 444 (1444)
T ss_pred ccccccccEEEEEeecCCcCcccchhhhhe
Confidence 456667788999999999995 444443
No 72
>KOG3040 consensus Predicted sugar phosphatase (HAD superfamily) [General function prediction only]
Probab=23.83 E-value=1.7e+02 Score=25.45 Aligned_cols=57 Identities=21% Similarity=0.255 Sum_probs=41.2
Q ss_pred eCCHHHHHHHhhhCCCcEEEEEecCCcc-cccccCCCCCEEEEEcCCCCCCCHHHHhhC
Q 040494 57 FHSLSDARVFLKSKDCDICGVEITDNAV-DVTQHPFKKSTAFLLGNEGMGLSAKECEIC 114 (217)
Q Consensus 57 ~~s~~~~l~~l~~~g~~v~~~~~~~~~~-~l~~~~~~~~~alV~GnE~~GLs~~~l~~c 114 (217)
+.++..+.+++++++++.+-+-. +++. ....++-..|-|+|+|--..|.+-+.+..+
T Consensus 73 ~tsl~aa~~~~~~~~lrP~l~v~-d~a~~dF~gidTs~pn~VViglape~F~y~~ln~A 130 (262)
T KOG3040|consen 73 FTSLPAARQYLEENQLRPYLIVD-DDALEDFDGIDTSDPNCVVIGLAPEGFSYQRLNRA 130 (262)
T ss_pred cCccHHHHHHHHhcCCCceEEEc-ccchhhCCCccCCCCCeEEEecCcccccHHHHHHH
Confidence 46777888888888887776653 3332 233345567889999999999998887765
No 73
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=23.53 E-value=3.4e+02 Score=22.15 Aligned_cols=54 Identities=15% Similarity=0.035 Sum_probs=38.8
Q ss_pred EeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEe
Q 040494 8 VHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 8 Ld~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
.+.-.|+...-..++.+-.-|++.|++.... .....+.++.+++.|.+|+.+..
T Consensus 35 ~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~------------------~~~~~~~l~~~~~~gIpvv~~d~ 88 (257)
T PF13407_consen 35 FDAQNDPEEQIEQIEQAISQGVDGIIVSPVD------------------PDSLAPFLEKAKAAGIPVVTVDS 88 (257)
T ss_dssp EESTTTHHHHHHHHHHHHHTTESEEEEESSS------------------TTTTHHHHHHHHHTTSEEEEESS
T ss_pred CCCCCCHHHHHHHHHHHHHhcCCEEEecCCC------------------HHHHHHHHHHHhhcCceEEEEec
Confidence 4666777777777777777777777665321 14567888889999999998874
No 74
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=22.61 E-value=3.5e+02 Score=23.33 Aligned_cols=53 Identities=9% Similarity=0.082 Sum_probs=30.1
Q ss_pred hCCCcEEEEEecCCccccccc-----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCC
Q 040494 69 SKDCDICGVEITDNAVDVTQH-----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGG 125 (217)
Q Consensus 69 ~~g~~v~~~~~~~~~~~l~~~-----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~ 125 (217)
..+-.++.++.+.....+-+. ...-+++.|-++... .+.+.||..+.+|..+.
T Consensus 186 ~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~~ii~IT~~~~s----~la~~ad~~l~~~~~~~ 243 (292)
T PRK11337 186 QEGDVVLVVSHSGRTSDVIEAVELAKKNGAKIICITNSYHS----PIAKLADYVICSTAQGS 243 (292)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCC----hhHHhCCEEEEcCCCCc
Confidence 344456666643333222211 223567777776533 55668999999997653
No 75
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=22.60 E-value=1.3e+02 Score=25.11 Aligned_cols=55 Identities=18% Similarity=0.152 Sum_probs=29.0
Q ss_pred hCCCcEEEEEecCCccccccc-----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCC
Q 040494 69 SKDCDICGVEITDNAVDVTQH-----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYG 124 (217)
Q Consensus 69 ~~g~~v~~~~~~~~~~~l~~~-----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g 124 (217)
..|--+++++.+.++..+-+. ...-+++.+-|+.. +-=.+.+..||..|+||...
T Consensus 108 ~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~-s~l~~l~~~~D~~i~ip~~~ 167 (196)
T PRK10886 108 HAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDG-GELAGLLGPQDVEIRIPSHR 167 (196)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC-ChhhhccccCCEEEEcCCCc
Confidence 455556666654444333221 12345666666543 22222333589999999754
No 76
>PRK13938 phosphoheptose isomerase; Provisional
Probab=22.36 E-value=2.4e+02 Score=23.46 Aligned_cols=68 Identities=13% Similarity=0.310 Sum_probs=37.9
Q ss_pred hCCCcEEEEEecCCcccccc-c----CCCCCEEEEEcCCCCCCCHHHHhhCCcEEEEcCCCCCCCcccHHHHHHHHHHHH
Q 040494 69 SKDCDICGVEITDNAVDVTQ-H----PFKKSTAFLLGNEGMGLSAKECEICDFFVYIPQYGGGTASLNVTVAASIVLHHF 143 (217)
Q Consensus 69 ~~g~~v~~~~~~~~~~~l~~-~----~~~~~~alV~GnE~~GLs~~~l~~cD~~v~IP~~g~~~~SLNVsvAaaIvL~e~ 143 (217)
..+-.+++++.+.....+-+ . ...-+++.+-|+.. ..+.+.||..+.+|.... ..+--+--+++|-+
T Consensus 112 ~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~----s~La~~aD~~l~v~~~e~----~~v~e~h~~~~h~l 183 (196)
T PRK13938 112 RPGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESG----GQLAEFADFLINVPSRDT----GRIQESHIVFIHAI 183 (196)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC----ChhhhhCCEEEEeCCCch----hhHHHHHHHHHHHH
Confidence 44555666665443333221 1 22356777777754 334557999999997653 34544444555544
Q ss_pred H
Q 040494 144 G 144 (217)
Q Consensus 144 ~ 144 (217)
.
T Consensus 184 ~ 184 (196)
T PRK13938 184 S 184 (196)
T ss_pred H
Confidence 3
No 77
>PRK12288 GTPase RsgA; Reviewed
Probab=22.29 E-value=4.8e+02 Score=23.74 Aligned_cols=93 Identities=12% Similarity=0.234 Sum_probs=49.1
Q ss_pred ceEEEEeCCCCcccHHHHHHH---hHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEe
Q 040494 3 ESYVVVHNIAKRHNVGTLARS---ATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG~I~Rs---a~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
+.++|+..+..+.|...|-|. +...|+.-+++.......+.. . ...+.++++.++..|+.++.++.
T Consensus 122 D~vlIV~s~~p~~s~~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~~-----~------~~~~~~~~~~y~~~g~~v~~vSA 190 (347)
T PRK12288 122 DQIVIVSAVLPELSLNIIDRYLVACETLGIEPLIVLNKIDLLDDE-----G------RAFVNEQLDIYRNIGYRVLMVSS 190 (347)
T ss_pred cEEEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEECccCCCcH-----H------HHHHHHHHHHHHhCCCeEEEEeC
Confidence 345666667777777776555 666677767666433221100 0 01123444555566777777764
Q ss_pred cCCccccccc--CCCCCEEEEEcCCCCCCC
Q 040494 80 TDNAVDVTQH--PFKKSTAFLLGNEGMGLS 107 (217)
Q Consensus 80 ~~~~~~l~~~--~~~~~~alV~GnE~~GLs 107 (217)
..+ ..+.++ .+.+++++++|.=+-|=|
T Consensus 191 ~tg-~GideL~~~L~~ki~~~vG~sgVGKS 219 (347)
T PRK12288 191 HTG-EGLEELEAALTGRISIFVGQSGVGKS 219 (347)
T ss_pred CCC-cCHHHHHHHHhhCCEEEECCCCCCHH
Confidence 222 222221 123556777887666644
No 78
>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]
Probab=22.27 E-value=2.3e+02 Score=24.78 Aligned_cols=59 Identities=20% Similarity=0.143 Sum_probs=45.3
Q ss_pred HHHhHHHCCCcEEEeCC---CCCCc---------cccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEEe
Q 040494 21 ARSATAFGVSEMILVGR---RDFNA---------FGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVEI 79 (217)
Q Consensus 21 ~Rsa~afGv~~v~lv~~---~~~~~---------~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~~ 79 (217)
++.+.-+|+++|++-.- ...|- ...++..||.-|-...+..++++++-+.|+.-+-|+-
T Consensus 79 I~~~~~lG~~GVV~G~lt~dg~iD~~~le~Li~aA~gL~vTFHrAFD~~~d~~~ale~li~~Gv~RILTsG 149 (241)
T COG3142 79 IRLARELGVQGVVLGALTADGNIDMPRLEKLIEAAGGLGVTFHRAFDECPDPLEALEQLIELGVERILTSG 149 (241)
T ss_pred HHHHHHcCCCcEEEeeecCCCccCHHHHHHHHHHccCCceeeehhhhhcCCHHHHHHHHHHCCCcEEecCC
Confidence 57888999999988421 12332 2466778888888888999999999999998887763
No 79
>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=22.11 E-value=3.1e+02 Score=25.32 Aligned_cols=72 Identities=10% Similarity=0.171 Sum_probs=39.4
Q ss_pred CCceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceee------EEeCCHHHHHHHhhhCCCcE
Q 040494 1 MIESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNF------RHFHSLSDARVFLKSKDCDI 74 (217)
Q Consensus 1 ~~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i------~~~~s~~~~l~~l~~~g~~v 74 (217)
|++.+|+|.+ ...--.++|+|.-+|++-+.+......++....-+...+.+ ..+.+.+.+++.+++.++..
T Consensus 1 ~~k~iLi~g~---g~~a~~i~~aa~~~G~~vv~~~~~~d~~a~~~~~ad~~~~~~~~~~~~~y~d~~~l~~~a~~~~id~ 77 (451)
T PRK08591 1 MFDKILIANR---GEIALRIIRACKELGIKTVAVHSTADRDALHVQLADEAVCIGPAPSKKSYLNIPAIISAAEITGADA 77 (451)
T ss_pred CcceEEEECC---CHHHHHHHHHHHHcCCeEEEEcChhhccCCCHhHCCEEEEeCCCCcccccCCHHHHHHHHHHhCCCE
Confidence 6777788744 33456789999999997555533221111111112222211 12345667777777666655
Q ss_pred E
Q 040494 75 C 75 (217)
Q Consensus 75 ~ 75 (217)
+
T Consensus 78 I 78 (451)
T PRK08591 78 I 78 (451)
T ss_pred E
Confidence 4
No 80
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=22.02 E-value=4.4e+02 Score=21.45 Aligned_cols=18 Identities=11% Similarity=-0.025 Sum_probs=13.2
Q ss_pred HHHHHhhhCCCcEEEEEe
Q 040494 62 DARVFLKSKDCDICGVEI 79 (217)
Q Consensus 62 ~~l~~l~~~g~~v~~~~~ 79 (217)
..++.+++.|++++.+..
T Consensus 69 ~~~~~l~~~~ipvV~~~~ 86 (265)
T cd06299 69 EQLEDLLKRGIPVVFVDR 86 (265)
T ss_pred HHHHHHHhCCCCEEEEec
Confidence 456777788888887763
No 81
>COG3870 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.49 E-value=3.2e+02 Score=20.84 Aligned_cols=51 Identities=18% Similarity=0.135 Sum_probs=37.0
Q ss_pred eeEEeCCHHHHHHHhhhCCCcEEEEEecCCcccccccCCCCCEEEEEcCCCCCCCHH
Q 040494 53 NFRHFHSLSDARVFLKSKDCDICGVEITDNAVDVTQHPFKKSTAFLLGNEGMGLSAK 109 (217)
Q Consensus 53 ~i~~~~s~~~~l~~l~~~g~~v~~~~~~~~~~~l~~~~~~~~~alV~GnE~~GLs~~ 109 (217)
-++.-.+..++.+.|.++||+.--+..+.+ +=-.+++-|+||-|..-++.-
T Consensus 6 aivqd~da~~l~~~L~d~~fraTkLAsTGG------FlkaGNTTfliGved~~vd~~ 56 (109)
T COG3870 6 AIVQDQDANELEDALTDKNFRATKLASTGG------FLKAGNTTFLIGVEDDRVDAL 56 (109)
T ss_pred EEEecccHHHHHHHHHhCCceeEEeeccCc------eeecCCeEEEEecccchhHHH
Confidence 344456778899999999998655544333 223588999999999888754
No 82
>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]
Probab=21.28 E-value=1.5e+02 Score=27.18 Aligned_cols=76 Identities=14% Similarity=0.173 Sum_probs=43.4
Q ss_pred ceEEEEeCCCCcccHH---HHHHHhHHHCCCcEEEeCCCCCCccccCC--CccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 3 ESYVVVHNIAKRHNVG---TLARSATAFGVSEMILVGRRDFNAFGSHG--STSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 3 ~~~vvLd~v~~p~NlG---~I~Rsa~afGv~~v~lv~~~~~~~~~s~G--a~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
+++|++.-.-...++. ..++-+...|++.|++-++.-+.--...+ -..|+......+-.+.++++++.|...+..
T Consensus 64 k~~V~~N~~~~~~~~~~~~~~l~~l~e~GvDaviv~Dpg~i~l~~e~~p~l~ih~S~q~~v~N~~~~~f~~~~G~~rvVl 143 (347)
T COG0826 64 KVYVAVNTLLHNDELETLERYLDRLVELGVDAVIVADPGLIMLARERGPDLPIHVSTQANVTNAETAKFWKELGAKRVVL 143 (347)
T ss_pred eEEEEeccccccchhhHHHHHHHHHHHcCCCEEEEcCHHHHHHHHHhCCCCcEEEeeeEecCCHHHHHHHHHcCCEEEEe
Confidence 4667777777777776 67888889999999887553111001111 222332222233445566777777665555
Q ss_pred E
Q 040494 78 E 78 (217)
Q Consensus 78 ~ 78 (217)
.
T Consensus 144 ~ 144 (347)
T COG0826 144 P 144 (347)
T ss_pred C
Confidence 4
No 83
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=21.15 E-value=5.1e+02 Score=22.51 Aligned_cols=52 Identities=6% Similarity=0.022 Sum_probs=35.7
Q ss_pred HHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhh---CCCcEEEEE
Q 040494 18 GTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKS---KDCDICGVE 78 (217)
Q Consensus 18 G~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~---~g~~v~~~~ 78 (217)
.++.+.|...|+.-+.+-.+. +. .+-.+..+.|++++.+.+++ .+-+|+.++
T Consensus 82 ~~a~~a~~~~~ipylR~eR~~-~~--------~~~~~~~v~~~~ea~~~~~~~~~~~~~i~ltt 136 (256)
T TIGR00715 82 TNATAVCKELGIPYVRFERPP-LA--------LGKNIIEVPDIEEATRVAYQPYLRGKRVFLTA 136 (256)
T ss_pred HHHHHHHHHhCCcEEEEECCC-CC--------CCCCeEEeCCHHHHHHHhhhccccCCcEEEec
Confidence 467788888898877776432 21 11235667899999998876 455777766
No 84
>PRK09989 hypothetical protein; Provisional
Probab=20.34 E-value=3.7e+02 Score=22.63 Aligned_cols=60 Identities=8% Similarity=-0.073 Sum_probs=47.3
Q ss_pred CCceEEEEeCCCCcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEEE
Q 040494 1 MIESYVVVHNIAKRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGVE 78 (217)
Q Consensus 1 ~~~~~vvLd~v~~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~~ 78 (217)
||++.+-|+=+-....+-..++.++.+|+++|=+..+. + .+.+++.+.+++.|..+.++.
T Consensus 1 ~~~~~~~~~~~~~~~~l~~~l~~~~~~Gfd~VEl~~~~--~----------------~~~~~~~~~l~~~Gl~v~~~~ 60 (258)
T PRK09989 1 MPRFAANLSMMFTEVPFIERFAAARKAGFDAVEFLFPY--D----------------YSTLQIQKQLEQNHLTLALFN 60 (258)
T ss_pred CCceeeehhhhhcCCCHHHHHHHHHHcCCCEEEECCcc--c----------------CCHHHHHHHHHHcCCcEEEec
Confidence 66777777777777889999999999999999875321 0 246788888999999988765
No 85
>PF10096 DUF2334: Uncharacterized protein conserved in bacteria (DUF2334); InterPro: IPR018763 This group of proteins has no known function.
Probab=20.17 E-value=3.1e+02 Score=23.51 Aligned_cols=70 Identities=11% Similarity=0.168 Sum_probs=46.2
Q ss_pred eEEEEeCCC---CcccHHHHHHHhHHHCCCcEEEeCCCCCCccccCCCccceeeEEeCCHHHHHHHhhhCCCcEEEE
Q 040494 4 SYVVVHNIA---KRHNVGTLARSATAFGVSEMILVGRRDFNAFGSHGSTSHVNFRHFHSLSDARVFLKSKDCDICGV 77 (217)
Q Consensus 4 ~~vvLd~v~---~p~NlG~I~Rsa~afGv~~v~lv~~~~~~~~~s~Ga~~~~~i~~~~s~~~~l~~l~~~g~~v~~~ 77 (217)
.+|.|++|. +...+-.|.......|+.-.+.+-|.-.++.... .+++.....+.+.++++..+|..|+--
T Consensus 2 ~lirleDVsP~~~~~~l~~i~d~l~~~~ipf~v~vIP~~~d~~~~~----~~~l~~~~~f~~~L~~~~~~Gg~I~lH 74 (243)
T PF10096_consen 2 ALIRLEDVSPFSDLEKLKEIADYLYKYGIPFSVAVIPVYVDPNGGI----TVNLSDNPEFVEYLRYLQARGGEIVLH 74 (243)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHHHHHCCCCEEEEEEecccCCCCcc----cccchhhHHHHHHHHHHHhcCCEEEEE
Confidence 467777774 4566667777888889986666666545552211 334444456778888888999887743
No 86
>PF04015 DUF362: Domain of unknown function (DUF362) ; InterPro: IPR007160 This domain is found in some iron-sulphur proteins.
Probab=20.15 E-value=2.2e+02 Score=23.27 Aligned_cols=28 Identities=14% Similarity=0.196 Sum_probs=22.8
Q ss_pred CCCcccHHHHHHHhHHHCCCcEEEeCCC
Q 040494 11 IAKRHNVGTLARSATAFGVSEMILVGRR 38 (217)
Q Consensus 11 v~~p~NlG~I~Rsa~afGv~~v~lv~~~ 38 (217)
..+|.=+-++++.....|+..+++....
T Consensus 19 ~T~P~vv~avv~~l~~~g~~~i~i~e~~ 46 (206)
T PF04015_consen 19 TTHPEVVRAVVEMLKEAGAKEIIIAESP 46 (206)
T ss_pred cCCHHHHHHHHHHHHHcCCCceEEEeCC
Confidence 4677788999999999999888877543
Done!