Query psy7376
Match_columns 180
No_of_seqs 195 out of 1640
Neff 7.7
Searched_HMMs 46136
Date Fri Aug 16 16:40:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7376.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7376hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK14901 16S rRNA methyltransf 100.0 1.5E-29 3.2E-34 221.0 14.5 167 12-180 92-300 (434)
2 PRK14903 16S rRNA methyltransf 100.0 3.5E-29 7.6E-34 218.5 14.1 156 12-180 91-285 (431)
3 TIGR00563 rsmB ribosomal RNA s 99.9 7.2E-27 1.6E-31 203.7 13.7 158 12-180 86-285 (426)
4 PRK14902 16S rRNA methyltransf 99.9 4E-26 8.6E-31 199.9 15.4 163 12-180 94-298 (444)
5 PRK10901 16S rRNA methyltransf 99.9 2.1E-26 4.6E-31 200.8 13.5 160 11-180 90-291 (427)
6 PRK14904 16S rRNA methyltransf 99.9 1.8E-24 3.9E-29 189.6 13.2 164 11-180 93-298 (445)
7 COG0144 Sun tRNA and rRNA cyto 99.9 2.8E-22 6.1E-27 171.2 14.0 159 13-180 3-205 (355)
8 PRK11933 yebU rRNA (cytosine-C 99.8 8E-20 1.7E-24 160.8 13.1 115 65-180 2-161 (470)
9 KOG1122|consensus 99.6 3.3E-14 7.2E-19 121.7 12.0 175 6-180 73-289 (460)
10 PF01189 Nol1_Nop2_Fmu: NOL1/N 99.6 1.2E-14 2.6E-19 120.9 9.0 93 87-180 1-133 (283)
11 TIGR00446 nop2p NOL1/NOP2/sun 99.0 2.1E-09 4.5E-14 88.5 8.8 80 99-180 1-119 (264)
12 cd00620 Methyltransferase_Sun 97.1 0.00024 5.3E-09 52.0 1.3 32 12-43 91-125 (126)
13 KOG2360|consensus 97.0 0.00066 1.4E-08 58.4 3.8 97 80-178 115-259 (413)
14 cd00447 NusB_Sun RNA binding d 96.9 0.00033 7.1E-09 51.2 0.8 32 12-43 94-128 (129)
15 TIGR01951 nusB transcription a 96.9 0.00034 7.4E-09 51.2 0.9 32 12-43 95-129 (129)
16 cd00619 Terminator_NusB Transc 96.9 0.0004 8.7E-09 51.0 1.0 32 12-43 95-129 (130)
17 PRK00202 nusB transcription an 96.7 0.00024 5.2E-09 52.7 -1.1 34 12-45 97-133 (137)
18 KOG2198|consensus 94.9 0.063 1.4E-06 46.3 5.8 106 75-180 32-206 (375)
19 COG2242 CobL Precorrin-6B meth 90.6 0.28 6.1E-06 38.5 3.2 30 151-180 52-81 (187)
20 PRK09328 N5-glutamine S-adenos 85.6 4.8 0.0001 32.6 7.6 39 69-109 9-48 (275)
21 PF04031 Las1: Las1-like ; In 79.1 2.5 5.3E-05 32.1 3.3 37 29-74 84-120 (154)
22 PF08704 GCD14: tRNA methyltra 76.0 3.7 8.1E-05 33.6 3.7 50 128-179 38-87 (247)
23 KOG2904|consensus 75.8 2.5 5.5E-05 35.5 2.7 29 151-180 167-195 (328)
24 PRK00377 cbiT cobalt-precorrin 74.8 3.7 7.9E-05 31.9 3.3 29 151-179 59-87 (198)
25 PLN02781 Probable caffeoyl-CoA 69.5 6 0.00013 31.9 3.5 36 144-179 77-115 (234)
26 COG4122 Predicted O-methyltran 69.0 6.7 0.00015 31.6 3.6 36 144-179 68-106 (219)
27 PRK13944 protein-L-isoaspartat 66.5 8.1 0.00018 30.2 3.6 38 142-179 79-119 (205)
28 KOG2425|consensus 65.5 6 0.00013 35.6 2.9 38 28-74 104-141 (599)
29 PF01596 Methyltransf_3: O-met 65.4 8.9 0.00019 30.4 3.7 36 144-179 54-92 (205)
30 PRK13942 protein-L-isoaspartat 62.3 11 0.00024 29.7 3.7 38 142-179 83-123 (212)
31 PRK04266 fibrillarin; Provisio 60.1 11 0.00023 30.4 3.2 27 151-178 91-117 (226)
32 PRK07402 precorrin-6B methylas 59.2 11 0.00024 29.1 3.1 25 155-179 62-86 (196)
33 TIGR00080 pimt protein-L-isoas 58.8 13 0.00028 29.2 3.5 38 142-179 84-124 (215)
34 PLN02476 O-methyltransferase 57.4 14 0.0003 30.9 3.6 36 144-179 127-165 (278)
35 TIGR00138 gidB 16S rRNA methyl 55.0 13 0.00029 28.6 3.0 27 153-179 62-88 (181)
36 TIGR02469 CbiT precorrin-6Y C5 52.5 18 0.00039 24.9 3.1 28 151-179 38-65 (124)
37 PTZ00146 fibrillarin; Provisio 51.5 17 0.00036 30.7 3.1 33 141-173 138-173 (293)
38 COG2263 Predicted RNA methylas 51.1 19 0.00042 28.5 3.3 29 151-180 63-91 (198)
39 PRK11873 arsM arsenite S-adeno 50.1 19 0.00041 29.2 3.3 28 151-178 96-123 (272)
40 PRK08287 cobalt-precorrin-6Y C 47.7 22 0.00048 27.1 3.1 25 155-179 53-77 (187)
41 PF13847 Methyltransf_31: Meth 46.2 29 0.00062 25.4 3.5 29 151-179 22-50 (152)
42 PF12847 Methyltransf_18: Meth 45.7 29 0.00063 23.5 3.3 22 156-177 24-45 (112)
43 COG2890 HemK Methylase of poly 45.0 26 0.00057 29.0 3.4 25 156-180 133-157 (280)
44 COG2519 GCD14 tRNA(1-methylade 44.1 41 0.00089 27.8 4.3 50 128-179 92-141 (256)
45 PF02108 FliH: Flagellar assem 43.8 73 0.0016 22.3 5.2 48 89-138 62-113 (128)
46 TIGR00308 TRM1 tRNA(guanine-26 41.9 53 0.0011 28.6 4.9 55 82-137 295-359 (374)
47 PLN02589 caffeoyl-CoA O-methyl 41.5 43 0.00094 27.3 4.1 36 144-179 88-126 (247)
48 PF01135 PCMT: Protein-L-isoas 41.4 14 0.00031 29.3 1.2 38 142-179 79-119 (209)
49 PRK04148 hypothetical protein; 40.9 20 0.00044 26.6 1.9 20 158-177 40-59 (134)
50 PRK04338 N(2),N(2)-dimethylgua 40.0 61 0.0013 28.2 5.0 71 66-137 274-368 (382)
51 PF09119 SicP-binding: SicP bi 40.0 21 0.00046 24.2 1.7 31 70-100 42-74 (81)
52 TIGR02752 MenG_heptapren 2-hep 39.3 40 0.00086 26.4 3.5 28 151-178 64-91 (231)
53 PRK00107 gidB 16S rRNA methylt 37.9 36 0.00079 26.4 3.0 37 142-179 52-91 (187)
54 TIGR02499 HrpE_YscL_not type I 37.6 1E+02 0.0022 22.8 5.4 52 85-138 104-159 (166)
55 PF02005 TRM: N2,N2-dimethylgu 36.7 34 0.00073 29.8 2.9 24 155-178 72-95 (377)
56 TIGR00536 hemK_fam HemK family 36.6 40 0.00086 27.8 3.2 24 156-179 137-160 (284)
57 PF08241 Methyltransf_11: Meth 36.5 49 0.0011 21.2 3.1 23 156-178 18-40 (95)
58 COG4803 Predicted membrane pro 36.4 11 0.00024 28.7 -0.1 20 1-20 1-20 (170)
59 PF02475 Met_10: Met-10+ like- 35.9 33 0.00071 27.1 2.5 25 155-179 123-147 (200)
60 PRK15128 23S rRNA m(5)C1962 me 35.3 41 0.00089 29.4 3.2 28 152-179 238-265 (396)
61 PF09189 DUF1952: Domain of un 35.1 31 0.00067 23.0 1.8 17 65-81 7-23 (78)
62 PRK13943 protein-L-isoaspartat 34.0 53 0.0011 27.9 3.6 29 151-179 99-127 (322)
63 PF01963 TraB: TraB family; I 33.7 1.6E+02 0.0035 23.2 6.3 57 68-124 201-258 (259)
64 PRK00121 trmB tRNA (guanine-N( 33.3 42 0.00092 26.1 2.7 24 156-179 63-86 (202)
65 PF01209 Ubie_methyltran: ubiE 32.2 53 0.0011 26.4 3.2 28 151-178 66-93 (233)
66 PRK06032 fliH flagellar assemb 31.3 1.6E+02 0.0034 23.0 5.7 54 83-138 116-177 (199)
67 PF02005 TRM: N2,N2-dimethylgu 31.1 74 0.0016 27.7 4.1 54 82-136 303-366 (377)
68 TIGR03533 L3_gln_methyl protei 29.8 59 0.0013 26.9 3.2 24 156-179 144-167 (284)
69 KOG2915|consensus 29.8 1.2E+02 0.0027 25.6 4.9 49 128-178 103-151 (314)
70 PRK11805 N5-glutamine S-adenos 29.5 59 0.0013 27.3 3.1 24 156-179 156-179 (307)
71 PF10930 DUF2737: Protein of u 29.4 27 0.00059 21.6 0.8 36 3-39 16-51 (54)
72 PRK00517 prmA ribosomal protei 29.2 81 0.0018 25.3 3.8 22 158-179 143-164 (250)
73 COG1867 TRM1 N2,N2-dimethylgua 28.4 53 0.0011 28.7 2.7 21 159-179 78-98 (380)
74 COG2520 Predicted methyltransf 27.9 55 0.0012 28.2 2.7 20 159-178 213-232 (341)
75 PF07063 DUF1338: Domain of un 27.5 1.8E+02 0.0039 24.6 5.6 40 84-123 175-216 (302)
76 PF13659 Methyltransf_26: Meth 27.5 72 0.0016 21.7 2.9 23 157-179 23-45 (117)
77 PF05175 MTS: Methyltransferas 27.2 72 0.0016 24.0 3.0 25 155-179 53-77 (170)
78 cd04882 ACT_Bt0572_2 C-termina 26.7 93 0.002 18.6 3.0 24 95-122 41-64 (65)
79 KOG2899|consensus 25.8 1.1E+02 0.0023 25.6 3.8 70 92-178 31-103 (288)
80 PRK14967 putative methyltransf 25.4 74 0.0016 25.0 2.9 23 157-179 59-81 (223)
81 PF13344 Hydrolase_6: Haloacid 25.3 1.1E+02 0.0023 21.1 3.4 40 85-124 20-60 (101)
82 PRK00050 16S rRNA m(4)C1402 me 25.2 93 0.002 26.2 3.6 28 151-178 38-65 (296)
83 PF04614 Pex19: Pex19 protein 25.1 1.6E+02 0.0034 24.1 4.8 81 29-123 124-216 (248)
84 PRK09098 type III secretion sy 25.0 3.7E+02 0.008 21.7 7.9 46 92-139 148-201 (233)
85 PRK06937 type III secretion sy 24.8 1.8E+02 0.0038 22.8 4.9 19 86-104 122-140 (204)
86 PRK11036 putative S-adenosyl-L 24.6 78 0.0017 25.4 2.9 36 143-178 52-87 (255)
87 COG2264 PrmA Ribosomal protein 23.8 79 0.0017 26.7 2.9 29 151-179 179-207 (300)
88 TIGR00406 prmA ribosomal prote 23.0 1.1E+02 0.0023 25.3 3.6 23 157-179 182-204 (288)
89 cd04883 ACT_AcuB C-terminal AC 22.5 1.3E+02 0.0028 18.5 3.2 26 96-123 44-69 (72)
90 PF03602 Cons_hypoth95: Conser 22.2 60 0.0013 25.1 1.7 25 156-180 64-88 (183)
91 PRK15451 tRNA cmo(5)U34 methyl 22.1 1E+02 0.0022 24.7 3.2 24 155-178 80-103 (247)
92 TIGR03704 PrmC_rel_meth putati 21.9 1.1E+02 0.0023 24.8 3.3 23 157-179 110-132 (251)
93 PF09133 SANTA: SANTA (SANT As 21.3 1.4E+02 0.0031 20.5 3.3 29 62-91 64-92 (93)
94 TIGR00091 tRNA (guanine-N(7)-) 21.1 91 0.002 24.0 2.6 25 155-179 38-62 (194)
95 COG2226 UbiE Methylase involve 21.1 1E+02 0.0023 25.1 3.0 27 151-178 70-96 (238)
96 PRK05687 fliH flagellar assemb 20.7 3.6E+02 0.0079 21.6 6.1 42 95-138 176-221 (246)
97 PF00403 HMA: Heavy-metal-asso 20.5 1.9E+02 0.0041 17.4 3.6 26 96-121 37-62 (62)
98 PRK14966 unknown domain/N5-glu 20.2 1.1E+02 0.0025 27.1 3.2 24 156-179 274-297 (423)
99 TIGR00308 TRM1 tRNA(guanine-26 20.1 1E+02 0.0022 26.8 2.9 23 157-179 69-91 (374)
No 1
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=99.96 E-value=1.5e-29 Score=221.04 Aligned_cols=167 Identities=22% Similarity=0.302 Sum_probs=142.9
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHHH
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSFL 88 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~il 88 (180)
|...-++|.|+++|.+ ..+||||||||++.|..+...... ...++..+++++||+|.||+++|.+.||.+++++++
T Consensus 92 p~~aavneaVelak~~~~~~~~~fVNgVLr~~~r~~~~~~~~~-~~~~~~~~l~~~~s~P~wl~~~~~~~~g~~~~~~~~ 170 (434)
T PRK14901 92 PASAAVNTTVELAKQNGLGGLAGVVNGILRQYLRAREAGDPLP-LPEDPIERLAILHSFPDWLVKLWLEWLGLEEAEQLC 170 (434)
T ss_pred CcHHHHHHHHHHHHHcCchhhhhhcCHHHHHHHHhhhcccccc-CCcChHHHHHHHhCCcHHHHHHHHHHhCHHHHHHHH
Confidence 8888899999999987 368999999999999744211000 112345678999999999999999999999999999
Q ss_pred HHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH------------------
Q psy7376 89 EASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG------------------ 150 (180)
Q Consensus 89 ~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~------------------ 150 (180)
++++++||+++||||+|++++++.+.|++.|+.++++ +++|+++++.....++..+|+|.+
T Consensus 171 ~~~~~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~-~~~~~~~~~~~~~~~~~~~~~f~~g~~~~qd~~s~l~~~~l~ 249 (434)
T PRK14901 171 KWFNQPPSLDLRINPLRTSLEEVQAALAEAGITATPI-PGLPQGLRLTGNPGSIRQLPGYEEGWWTVQDRSAQLVAPLLD 249 (434)
T ss_pred HHhCCCCCeEEEECCCCCCHHHHHHHHHHCCCceEEC-CCCCCeEEecCCCCccccChHHhCCeEEEECHHHHHHHHHhC
Confidence 9999999999999999999999999999999999987 899999999753235778888875
Q ss_pred ---------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ---------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ---------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|++.|+|+|+|++++|++.+++|++|+
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~ 300 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRL 300 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHc
Confidence 677788899999999999999999999874
No 2
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=99.96 E-value=3.5e-29 Score=218.47 Aligned_cols=156 Identities=22% Similarity=0.336 Sum_probs=137.7
Q ss_pred CChHHhhccCChhHHHHHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHHHHHh
Q psy7376 12 PSEEEADKVLSIPDVEQRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSFLEAS 91 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~il~a~ 91 (180)
|...-+++.|+++|....+||||||||++.|+.. ..++++.||+|.||+++|.+.||.+++++|++++
T Consensus 91 p~~aavneaV~lak~~~~~~fVNaVLr~~~r~~~------------~~~l~~~~s~P~wl~~~~~~~~g~~~~~~~~~~~ 158 (431)
T PRK14903 91 PDYAAVSETVKLVKNENFKKLVNAVLRRLRTVPE------------PKELHLKYSHPKWLVNYWRSFLPEEAVLRIMEWN 158 (431)
T ss_pred CcceeHHHHHHHHhccchHHHHHHHHHHHHHhhc------------chhhhhhhcCcHHHHHHHHHHcCHHHHHHHHHHh
Confidence 6666788899999987778999999999998511 1357999999999999999999999999999999
Q ss_pred CCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH---------------------
Q psy7376 92 ETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG--------------------- 150 (180)
Q Consensus 92 ~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~--------------------- 150 (180)
+++||+++|||++|++++++.+.|++.|+.+.++ +++|+++++.+...++..+++|++
T Consensus 159 ~~~~~~~~RvN~~k~~~~~~~~~l~~~g~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~G~~~~Qd~~s~~~~~~l~~~~ 237 (431)
T PRK14903 159 QEPLPTMLRVNSLAITREEVIKILAEEGTEAVPG-KHSPFSLIVRKLGVNMNDSRVIKDGLATVQGESSQIVPLLMELEP 237 (431)
T ss_pred cCCCCeeEEeeCCcCCHHHHHHHHHHCCCeeEEC-CCCCceEEEcCCCCCcccChHHHCCeEEEECHHHHHHHHHhCCCC
Confidence 9999999999999999999999999999999887 899999988753235677777775
Q ss_pred ------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|+++|+|+|+|++++|++.+++|++|+
T Consensus 238 g~~VLD~cagpGgkt~~la~~~~~~g~V~a~Dis~~rl~~~~~n~~r~ 285 (431)
T PRK14903 238 GLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRL 285 (431)
T ss_pred CCEEEEeCCCccHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHHc
Confidence 677888899999999999999999999874
No 3
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=99.94 E-value=7.2e-27 Score=203.70 Aligned_cols=158 Identities=20% Similarity=0.263 Sum_probs=134.7
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHHH
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSFL 88 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~il 88 (180)
|..--++|.|+++|-+ ..+||||||||++.|+.+.. .+..++++++||+|.||+++|.+.|+ +++++++
T Consensus 86 p~~aainEaVelaK~~~~~~~~~fVNgVLr~i~r~~~~~-------~~~~~~l~~~~s~P~wl~~~~~~~~~-~~~~~~l 157 (426)
T TIGR00563 86 PAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQREQEEL-------LAEFNALDARYLHPEWLVKRLQKAYP-GQWQSIC 157 (426)
T ss_pred CCEehHHHHHHHHHhcCCccchhhHHHHHHHHhhcchhh-------cchhHhHHHHcCCCHHHHHHHHHHhH-HHHHHHH
Confidence 6777788899999986 35899999999999974421 12346789999999999999999997 6678999
Q ss_pred HHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH------------------
Q psy7376 89 EASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG------------------ 150 (180)
Q Consensus 89 ~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~------------------ 150 (180)
++++++||+++|||++|++++++.+.|++.|+.+.+. +++|+++++..+ ..+..+++|+.
T Consensus 158 ~~~~~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~G~~~~Qd~~s~~~~~~L~ 235 (426)
T TIGR00563 158 EANNQRPPMWLRINRTKHSRDEWLALLAEAGMKGFPH-DLAPDAVRLETP-AAVHALPGFEEGWVTVQDASAQWVATWLA 235 (426)
T ss_pred HHhCCCCCeEEEEcCCcCCHHHHHHHHHhcCCceeeC-CCCCCeEEECCC-CCcccCchhhCCeEEEECHHHHHHHHHhC
Confidence 9999999999999999999999999999999999887 789999988653 35667777764
Q ss_pred ---------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ---------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ---------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|+++. +|+|+|+|++++|++.+++|++|+
T Consensus 236 ~~~g~~VLDlcag~G~kt~~la~~~~-~~~v~a~D~~~~~l~~~~~n~~r~ 285 (426)
T TIGR00563 236 PQNEETILDACAAPGGKTTHILELAP-QAQVVALDIHEHRLKRVYENLKRL 285 (426)
T ss_pred CCCCCeEEEeCCCccHHHHHHHHHcC-CCeEEEEeCCHHHHHHHHHHHHHc
Confidence 55565 789999999999999999999874
No 4
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=99.94 E-value=4e-26 Score=199.93 Aligned_cols=163 Identities=26% Similarity=0.282 Sum_probs=139.7
Q ss_pred CChHHhhccCChhHHHH---HHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHHH
Q psy7376 12 PSEEEADKVLSIPDVEQ---RIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSFL 88 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~~---~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~il 88 (180)
|.-.-++|.|+++|.+. .+||||||||++.+....... ...++..+++++||+|.||+++|.+.||.+.+++++
T Consensus 94 p~~~~ineav~lak~~~~~~~~~fVNaVL~~i~~~~~~~~~---~~~~~~~~~~~~~~~P~w~~~~~~~~~g~~~~~~~l 170 (444)
T PRK14902 94 PDHAAVNEAVEIAKKRGHKGIAKFVNGVLRNILREGLPDID---EIKDPVKRLSIKYSHPVWLVKRWIDQYGEEKAEKIL 170 (444)
T ss_pred CCceeHHHHHHHHHHhCCCchhHHHHHHHHHHhhccccccc---cccCHHHHHHHHhCChHHHHHHHHHHhCHHHHHHHH
Confidence 66666788899999874 589999999999997532111 123456779999999999999999999999999999
Q ss_pred HHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH------------------
Q psy7376 89 EASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG------------------ 150 (180)
Q Consensus 89 ~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~------------------ 150 (180)
++++++||+++|||+.|++++++.+.|++.|+.+.+. +++|+++.+.. .++..+++|+.
T Consensus 171 ~~~~~~~~~~~Rvn~~k~~~~~~~~~l~~~g~~~~~~-~~~~~~~~~~~--~~~~~~~~~~~G~~~~qd~~s~lv~~~l~ 247 (444)
T PRK14902 171 ESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEES-LLSPEALVIEK--GNIAGTDLFKDGLITIQDESSMLVAPALD 247 (444)
T ss_pred HHcCCCCCeEEEEcCCCCCHHHHHHHHHHcCceeEEc-CCCCCeEEEeC--CCcccChHHhCceEEEEChHHHHHHHHhC
Confidence 9999999999999999999999999999999999987 89999999975 35778888775
Q ss_pred ---------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ---------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ---------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|+.+++.|+|+|+|+++.+++.+++|++|+
T Consensus 248 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~ 298 (444)
T PRK14902 248 PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRL 298 (444)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHc
Confidence 556667899999999999999999999864
No 5
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=99.94 E-value=2.1e-26 Score=200.81 Aligned_cols=160 Identities=19% Similarity=0.311 Sum_probs=135.3
Q ss_pred CCChHHhhccCChhHHH---HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHH
Q psy7376 11 FPSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSF 87 (180)
Q Consensus 11 ~~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~i 87 (180)
.|...-+++.|+++|.. ..+||||||||++.|..+.+.. .....+++.||+|.||+++|.+.|| +++++|
T Consensus 90 iP~~a~vneaVelak~~~~~~~~~fVNaVLr~i~~~~~~~~~------~~~~~~~~~~s~P~wl~~~~~~~~~-~~~~~~ 162 (427)
T PRK10901 90 IPAHAAVDETVEAAKALKRPWAKGLVNAVLRRFQREQEELLA------ELQADPVARYNHPSWLIKRLKKAYP-EQWQAI 162 (427)
T ss_pred CCcchHHHHHHHHHHhcCCccchhhHHHHHHHhhhhhhhhhh------hhhhchHhHhcCCHHHHHHHHHHhH-HHHHHH
Confidence 38888889999999876 4689999999999986443211 1234679999999999999999997 678999
Q ss_pred HHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH-----------------
Q psy7376 88 LEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG----------------- 150 (180)
Q Consensus 88 l~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~----------------- 150 (180)
+++++++||+++|||++|++++++.+.|++.|+.+++. +++|+++.+... ..+..+++|++
T Consensus 163 ~~~~~~~~~~~~Rvn~~k~~~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~G~~~iQd~~s~~~~~~l 240 (427)
T PRK10901 163 LAANNQRPPMWLRVNRRHHSRDAYLALLAEAGIEAFPH-AVGPDAIRLETP-VPVHQLPGFAEGWVSVQDAAAQLAATLL 240 (427)
T ss_pred HHHcCCCCCeEEEEcCCCCCHHHHHHHHHhCCCceeec-CCCCCeEEECCC-CCcccCchhhCceEEEECHHHHHHHHHc
Confidence 99999999999999999999999999999999999987 799999988753 35777888775
Q ss_pred ----------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ----------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ----------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
++.+.+ |+|+|+|+++++++.+++|++|+
T Consensus 241 ~~~~g~~VLDlgaG~G~~t~~la~~~~~-~~v~a~D~s~~~l~~~~~n~~~~ 291 (427)
T PRK10901 241 APQNGERVLDACAAPGGKTAHILELAPQ-AQVVALDIDAQRLERVRENLQRL 291 (427)
T ss_pred CCCCCCEEEEeCCCCChHHHHHHHHcCC-CEEEEEeCCHHHHHHHHHHHHHc
Confidence 444433 89999999999999999999873
No 6
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=99.92 E-value=1.8e-24 Score=189.60 Aligned_cols=164 Identities=18% Similarity=0.140 Sum_probs=127.9
Q ss_pred CCChHHhhccCChhHHH---HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHH
Q psy7376 11 FPSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSF 87 (180)
Q Consensus 11 ~~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~i 87 (180)
.|...-++|.|+++|-+ ..++|||||||++.++........ ...+...+++++||+|.||+++|.+.||.+++.++
T Consensus 93 ~p~~a~vneaVelak~~~~~~~~~fVNgVLr~i~~~~~~~~~~~-~~~~~~~~l~~~~s~P~wl~~~~~~~~g~~~~~~~ 171 (445)
T PRK14904 93 VPRWAAVNECVKLARKYKGEHMAKLVNGVLRNISPETISLDEWL-KGMPEAERLSLLYSHPEWLLERWIARYGEERTEAM 171 (445)
T ss_pred CCCeeeHHHHHHHHHHhCCCccccchHHHHHHHHHhhccccccc-cccchHHHHHHHhCCCHHHHHHHHHHhChHHHHHH
Confidence 37888889999999987 358999999999999753321100 01123557899999999999999999999999999
Q ss_pred HHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH-----------------
Q psy7376 88 LEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG----------------- 150 (180)
Q Consensus 88 l~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~----------------- 150 (180)
+++++++|++++|||++|.+++++.+.|...|+...+. ++ + ++++... .....|.|..
T Consensus 172 ~~~~~~~~~~~~Rvn~~~~~~~~~~~~l~~~~~~~~~~-~~-~-~~~~~~~--~~~~~~~~~~G~~~vqd~~s~l~~~~l 246 (445)
T PRK14904 172 LSYNNQAPLFGFRINRLKTTPEKFLAAPADASVTFEKS-GL-P-NFFLSKD--FSLFEPFLKLGLVSVQNPTQALACLLL 246 (445)
T ss_pred HHHhCCCCCceeEeCCCCCCHHHHHHHHHhCCCceEEc-Cc-c-eEEEecc--ccccChHHhCcEEEEeCHHHHHHHHhc
Confidence 99999999999999999999999999999999987764 32 2 4444321 1111133332
Q ss_pred ----------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ----------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ----------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
++++.+.|+|+|+|+|++|++.+++|++|+
T Consensus 247 ~~~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~ 298 (445)
T PRK14904 247 NPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASAL 298 (445)
T ss_pred CCCCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHh
Confidence 566677789999999999999999999874
No 7
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=2.8e-22 Score=171.17 Aligned_cols=159 Identities=29% Similarity=0.333 Sum_probs=129.9
Q ss_pred ChHHhhccCChhHHH----HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHHHHHHHH
Q psy7376 13 SEEEADKVLSIPDVE----QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLDELMSFL 88 (180)
Q Consensus 13 ~~~~~~~~~~~~~~~----~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e~~~~il 88 (180)
.-.-+++.++.++.. ...+|||++||++.|......... ... .+.|++|.|++++|.+.||.++++.++
T Consensus 3 ~~a~~~~~~~~a~~~~~~~~~~~~~n~~lr~~~r~~~~~~~~~------~~~-~~~~~~p~w~~~~~~~~~~~~~~~~~~ 75 (355)
T COG0144 3 PHAAVDETVEAAKERLGKDRAAKFVNAVLRRLERSEEALLEEI------LRP-AFRYSHPEWLVEKLPDALGEDEAEAIA 75 (355)
T ss_pred cHHHHHHHHHHHHhcccchhhhhhhhhhHhhhhhccchhhhhh------hcc-cccccCcHHHHHHHHHHcChHHHHHHH
Confidence 334455566677633 479999999999999876653211 011 167999999999999999988899999
Q ss_pred HHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH------------------
Q psy7376 89 EASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG------------------ 150 (180)
Q Consensus 89 ~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~------------------ 150 (180)
.+++.++++++|||++|++++++.+.|+..|+...+. .+.+.++++... .++..+++|..
T Consensus 76 ~a~~~~~~~~~Rvn~lk~~~~~~~~~l~~~~~~~~~~-~~~~~~~~i~~~-~~~~~~~~~~~G~~~vQd~sS~l~a~~L~ 153 (355)
T COG0144 76 AALLRPPPRSLRVNTLKADVEELLEALEEAGVLDEKP-WVLDEVLRIEAS-GPIGRLPEFAEGLIYVQDEASQLPALVLD 153 (355)
T ss_pred HHcCCCCCeeEEEcCccCCHHHHHHHHhhcccccccC-CccccEEEecCC-CCcccChhhhceEEEEcCHHHHHHHHHcC
Confidence 9999999999999999999999999999988876664 456677777764 47778888886
Q ss_pred ---------------------HhcCCCCceE-EEEcCChHHHHHHHHhhccC
Q psy7376 151 ---------------------AALMKNTGVL-FANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ---------------------A~lm~~~G~v-~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|.|+|.+ +|+|+|++|++.|++|++||
T Consensus 154 p~pge~VlD~cAAPGGKTthla~~~~~~~~iV~A~D~~~~Rl~~l~~nl~Rl 205 (355)
T COG0144 154 PKPGERVLDLCAAPGGKTTHLAELMENEGAIVVAVDVSPKRLKRLRENLKRL 205 (355)
T ss_pred CCCcCEEEEECCCCCCHHHHHHHhcCCCCceEEEEcCCHHHHHHHHHHHHHc
Confidence 8999997655 99999999999999999997
No 8
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=99.82 E-value=8e-20 Score=160.76 Aligned_cols=115 Identities=31% Similarity=0.485 Sum_probs=103.7
Q ss_pred hcCcHHHHHHHHHhCCH-HHHHHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEecc---CC
Q psy7376 65 FSYNEFLMERIMQIFPL-DELMSFLEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNS---TV 140 (180)
Q Consensus 65 yS~P~Wlv~~~~~~~G~-e~~~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~---~~ 140 (180)
..+|.||+++|...||. +++++|+++++++++.+|||||+|++.+++.+.|++.|+.++++ +|+++|+++... ..
T Consensus 2 ~~lP~~fv~~~~~~lg~~ee~~~~l~a~~~~~~~~lRvN~lK~~~~~~~~~L~~~g~~~~~~-p~~~~g~~~~~~~~~~~ 80 (470)
T PRK11933 2 VYLPDAFLTQMREAMPSHLSMDDFIAACQRPLRRSIRVNTLKISVADFLQLMAPYGWTLTPI-PWCEEGFWIERDDEDAL 80 (470)
T ss_pred CcChHHHHHHHHHHhCCcHHHHHHHHHcCCCCCeEEEEcCCcCCHHHHHHHHHhCCCceeEC-CCCCceEEEecCccccC
Confidence 35899999999999996 68999999999999999999999999999999999999999997 899999998742 12
Q ss_pred CCCCCHHHHH-----------------------------------------HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 141 PIGATPEYLG-----------------------------------------AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 141 ~l~~~p~f~~-----------------------------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+..+|.|.+ |++|+++|.|+|+|+|++|++.|++|++|
T Consensus 81 ~~~~~~~~~~G~~yvQd~sS~l~~~~L~~~~~pg~~VLD~CAAPGgKTt~la~~l~~~g~lvA~D~~~~R~~~L~~nl~r 160 (470)
T PRK11933 81 PLGNTAEHLSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASRVKVLHANISR 160 (470)
T ss_pred CcccChHHHCCcEEEECHHHHHHHHHhccCCCCCCEEEEeCCCccHHHHHHHHHcCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 4677888775 78899999999999999999999999998
Q ss_pred C
Q psy7376 180 L 180 (180)
Q Consensus 180 L 180 (180)
+
T Consensus 161 ~ 161 (470)
T PRK11933 161 C 161 (470)
T ss_pred c
Confidence 5
No 9
>KOG1122|consensus
Probab=99.56 E-value=3.3e-14 Score=121.68 Aligned_cols=175 Identities=58% Similarity=0.956 Sum_probs=133.8
Q ss_pred cccccCCChHHh---hccCChhHHHHHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHHHHHhCCHH
Q psy7376 6 HEVFAFPSEEEA---DKVLSIPDVEQRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMERIMQIFPLD 82 (180)
Q Consensus 6 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~~~~~~G~e 82 (180)
++.|.+|..++- ++..+|..+..+..-+--+|..+...+.+-.....+.......++..|++-..+...+.+.+...
T Consensus 73 ~~~l~lp~~~~~~~~~~~P~L~~v~~~~~~~~~~l~dfk~l~~~~~~~~~~~~~l~~~~~~~y~y~~~l~~~~~e~~~~~ 152 (460)
T KOG1122|consen 73 GDPLLLPTLEEEEEKDSVPDLQNVDLRIVELVPVLGDFKNLKEPGRLRSEYCGQLKKDGAHYYAYGVFLAEKLMELFPLV 152 (460)
T ss_pred cccccCcccccccccccCCccchhhHHhhhhhhhhcchhcccccccchhhHHHHHHhcccceechHHHHHHHhcccccHH
Confidence 456777755433 32344444444444444445444333322111111223345678889999999999999999999
Q ss_pred HHHHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH------------
Q psy7376 83 ELMSFLEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG------------ 150 (180)
Q Consensus 83 ~~~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~------------ 150 (180)
++.++++++..++|+++|.||+|.-+.+++..|...|+...+.++|...|+.+..+...++.+|.|.+
T Consensus 153 ev~~~~e~~~~~rp~tir~ntlk~~rrd~~~~L~nrgv~~~pl~~ws~vgl~v~~s~vpigat~e~lag~~~LQ~~sS~L 232 (460)
T KOG1122|consen 153 EVYEFLEANEKPRPVTIRTNTLKTRRRDLAVELSNRGVNLDPLGKWSKVGLVVFDSVVPIGATPEYLAGHYMLQNASSFL 232 (460)
T ss_pred HHHHHHHhhcCCCCeeEEecccchhhhhHHHHHHhcccCcccccccccceEEEecCccccCCchhhcccceeeccCcccc
Confidence 99999999999999999999999999999999999999887766799999988765456777777765
Q ss_pred ---------------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ---------------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ---------------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|.|+|.|+|+|.+.+|++.|+.|+.||
T Consensus 233 pv~aL~Pq~gERIlDmcAAPGGKTt~IAalMkn~G~I~AnD~n~~r~~~l~~n~~rl 289 (460)
T KOG1122|consen 233 PVMALDPQPGERILDMCAAPGGKTTHIAALMKNTGVIFANDSNENRLKSLKANLHRL 289 (460)
T ss_pred eeeecCCCCCCeecchhcCCCchHHHHHHHHcCCceEEecccchHHHHHHHHHHHHh
Confidence 999999999999999999999999999986
No 10
>PF01189 Nol1_Nop2_Fmu: NOL1/NOP2/sun family; InterPro: IPR001678 This domain is found in archaeal, bacterial and eukaryotic proteins. In the archaea and bacteria, they are annotated as putative nucleolar protein, Sun (Fmu) family protein or tRNA/rRNA cytosine-C5-methylase. The majority have the S-adenosyl methionine (SAM) binding domain and are related to Escherichia coli Fmu (Sun) protein (16S rRNA m5C 967 methyltransferase) whose structure has been determined []. In the eukaryota, the majority are annotated as being 'hypothetical protein', nucleolar protein or the Nop2/Sun (Fmu) family. Unlike their bacterial homologues, few of the eukaryotic members in this family have a the SAM binding signature. Despite this, Saccharomyces cerevisiae (Baker's yeast) Nop2p is a probable RNA m5C methyltransferase []. It is essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis []; localized to the nucleolus and is essential for viability []. Reduced Nop2p expression limits yeast growth and decreases levels of mature 60S ribosomal subunits while altering rRNA processing []. There is substantial identity between Nop2p and Homo sapiens (Human) p120 (NOL1), which is also called the proliferation-associated nucleolar antigen [, ].; PDB: 3M4X_A 2FRX_B 2YXL_A 1IXK_A 1SQG_A 1SQF_A 3M6U_B 3M6V_B 3M6W_A 3M6X_A ....
Probab=99.56 E-value=1.2e-14 Score=120.87 Aligned_cols=93 Identities=41% Similarity=0.601 Sum_probs=79.5
Q ss_pred HHHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEe-ccCCCCCCCHHHHH---------------
Q psy7376 87 FLEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIY-NSTVPIGATPEYLG--------------- 150 (180)
Q Consensus 87 il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~-~~~~~l~~~p~f~~--------------- 150 (180)
||+++|++||+++|||++|++++++.+.|++.|+.+++. ++.++++++. ....++..++.|+.
T Consensus 1 il~~~n~~~~~~iRvN~~k~~~~~~~~~L~~~g~~~~~~-~~~~~~~~~~~~~~~~i~~l~~~~~G~~~vQd~sS~l~~~ 79 (283)
T PF01189_consen 1 ILEANNCPPPVTIRVNTLKISREELLEELEEEGIQLEPI-PRSPDALRVIGKSPYSICSLPEFKNGLFYVQDESSQLVAL 79 (283)
T ss_dssp HHHHCTS--GEEEEE-TTTSSHHHHHHHHHHTTHEEEEE-TSTTCEEEEEEECSSCGGGSHHHHTTSEEEHHHHHHHHHH
T ss_pred CccccCCCCCeEEEECcCcCCHHHHHHHHhhcccceEEc-ccccchhccccccccchhhchhhhCCcEEecccccccccc
Confidence 689999999999999999999999999999999999987 7888883332 22357888899886
Q ss_pred ------------------------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 ------------------------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 ------------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|.++|.|+|+|+|.+|+++|++|++|+
T Consensus 80 ~L~~~~~~~VLD~CAapGgKt~~la~~~~~~g~i~A~D~~~~Rl~~l~~~~~r~ 133 (283)
T PF01189_consen 80 ALDPQPGERVLDMCAAPGGKTTHLAELMGNKGEIVANDISPKRLKRLKENLKRL 133 (283)
T ss_dssp HHTTTTTSEEEESSCTTSHHHHHHHHHTTTTSEEEEEESSHHHHHHHHHHHHHT
T ss_pred cccccccccccccccCCCCceeeeeecccchhHHHHhccCHHHHHHHHHHHHhc
Confidence 899999999999999999999999999986
No 11
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=98.99 E-value=2.1e-09 Score=88.50 Aligned_cols=80 Identities=49% Similarity=0.690 Sum_probs=66.0
Q ss_pred EEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH----------------------------
Q psy7376 99 IRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG---------------------------- 150 (180)
Q Consensus 99 lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~---------------------------- 150 (180)
||||++|++++++++.|++.|+.+.+. + .+.++.+......+..++.|..
T Consensus 1 ~RvN~lk~~~~~~~~~l~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~G~~~~qd~~s~~~~~~l~~~~g~~VLDl 78 (264)
T TIGR00446 1 IRVNTLKISVADLLQRLENRGVTLIPW-C-EEGFFEVNESPLPIGSTPEYLSGLYYIQEASSMIPPLALEPDPPERVLDM 78 (264)
T ss_pred CeecCCCCCHHHHHHHHHhCCCceeec-C-CCceEEEeCCCCCcccChhHhCCeEEEECHHHHHHHHHhCCCCcCEEEEE
Confidence 699999999999999999999988764 2 5566666543235777787775
Q ss_pred -----------HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 -----------AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 -----------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|++|.+.|.|+|+|++++|++.+++|++|+
T Consensus 79 ~ag~G~kt~~la~~~~~~g~v~a~D~~~~~l~~~~~n~~~~ 119 (264)
T TIGR00446 79 AAAPGGKTTQISALMKNEGAIVANEFSKSRTKVLIANINRC 119 (264)
T ss_pred CCCchHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHc
Confidence 677888899999999999999999999874
No 12
>cd00620 Methyltransferase_Sun N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.
Probab=97.06 E-value=0.00024 Score=51.98 Aligned_cols=32 Identities=25% Similarity=0.375 Sum_probs=28.3
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhc
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQY 43 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~ 43 (180)
|.-.-++|.|+++|.. ..+||||||||++.|+
T Consensus 91 p~~avvneaVelak~~~~~~~~~fVNaVLr~i~r~ 125 (126)
T cd00620 91 PPHAAVDETVEIAKIRKDLGRAGLVNAVLRRFERE 125 (126)
T ss_pred CchHHHHHHHHHHHHhCCCchhhHHHHHHHHHhcc
Confidence 7888889999999987 4689999999999985
No 13
>KOG2360|consensus
Probab=97.02 E-value=0.00066 Score=58.44 Aligned_cols=97 Identities=18% Similarity=0.172 Sum_probs=63.1
Q ss_pred CHHHHHHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEecc---------CCCCCCCHHHHH
Q psy7376 80 PLDELMSFLEASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNS---------TVPIGATPEYLG 150 (180)
Q Consensus 80 G~e~~~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~---------~~~l~~~p~f~~ 150 (180)
+.+..+++....+.+.|-++|+||++.+.++.+..|..++..... ...|+-+++... +-.+...+.|+.
T Consensus 115 ~~~~~~~l~~t~~~~~pr~vRINtlk~~~~e~~~~L~~e~~~~~~--~l~p~~~~~D~~~~~ll~~~~~n~i~~~~ly~~ 192 (413)
T KOG2360|consen 115 KVKSLRELKLTMKIPLPRYVRINTLKGTTDEALDYLDYEKWKMIT--ELKPDEFYVDPHVENLIIFPPSNFIVEHELYKN 192 (413)
T ss_pred hHHHHHHhhccCCCCCceeEEeecccCchhhhhhhhhhhhhhhhh--hcCCcceeccccchhhcccCCCcceeecccccc
Confidence 345555666555568889999999999888888888777654211 122222222210 001112222222
Q ss_pred ---------------------------------------HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 ---------------------------------------AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 ---------------------------------------A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
|.+|.|+|.|+|.|.++.|.+.+++.++
T Consensus 193 g~~ilqd~asclpA~ll~p~~g~~v~d~caapg~KTsH~a~i~~n~gki~afe~d~~r~~tl~~~l~ 259 (413)
T KOG2360|consen 193 GKFILQDKASCLPAHLLDPRPGSRVIDTCAAPGNKTSHLAAIMRNQGKIYAFERDAKRAATLRKLLK 259 (413)
T ss_pred CceEEechhhcchhhhcCCCCCCceeeeccccccchhhHHHHhhccCCcchhhhhhHHHHHHHHHHH
Confidence 8899999999999999999999988764
No 14
>cd00447 NusB_Sun RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-specific 5-methylcytidine transferase (m5C-methyltransferase) Sun. The NusB protein plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation. The m5C-methyltransferase Sun shares the
Probab=96.90 E-value=0.00033 Score=51.24 Aligned_cols=32 Identities=16% Similarity=0.082 Sum_probs=28.5
Q ss_pred CChHHhhccCChhHHHH---HHhHHHHHHhhhhhc
Q psy7376 12 PSEEEADKVLSIPDVEQ---RIKDVLMVLGNFKQY 43 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~~---~~~~VNaVLR~~~r~ 43 (180)
|.-.-++|.|+++|... .+||||||||++.|+
T Consensus 94 p~~~vineaVelak~~~~~~~~~fVNaVLr~~~r~ 128 (129)
T cd00447 94 PPPVAINEAVELAKRFGDDDSAKFVNGVLRRIAKE 128 (129)
T ss_pred CchhHHHHHHHHHHHHCCCCcchhHHHHHHHHhhc
Confidence 88888999999999873 689999999999875
No 15
>TIGR01951 nusB transcription antitermination factor NusB. A transcription antitermination complex active in many bacteria was designated N-utilization substance (Nus) in E. coli because of its interaction with phage lambda protein N. This model represents NusB. Other components are NusA and NusG. NusE is, in fact, ribosomal protein S10.
Probab=96.89 E-value=0.00034 Score=51.23 Aligned_cols=32 Identities=16% Similarity=0.081 Sum_probs=27.3
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhc
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQY 43 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~ 43 (180)
|.-.-++|.|+++|.. ...||||||||++.|.
T Consensus 95 p~~avineaV~lak~~~~~~~~~fVNaVLr~i~r~ 129 (129)
T TIGR01951 95 PYKVVINEAVELAKKFGDEDSHKFVNGVLDKIAKE 129 (129)
T ss_pred CCcchHHHHHHHHHHHCCCCchhhHHHHHHHHhhC
Confidence 7777889999999976 3589999999999863
No 16
>cd00619 Terminator_NusB Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus factors (NusA, NusE/S10 and NusG) forms the core complex with the boxA element of the nut site of the rRNA operons. These interactions help RNA polymerase to counteract polarity during transcription of rRNA operons and allow stable antitermination. The transcription antitermination system can be appropriated by some bacteriophages such as lambda, which use the system to switch between the lysogenic and lytic modes of phage propagation.
Probab=96.85 E-value=0.0004 Score=50.98 Aligned_cols=32 Identities=16% Similarity=0.088 Sum_probs=27.1
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhc
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQY 43 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~ 43 (180)
|.-.-++|.|+++|-. ..+||||||||++.|+
T Consensus 95 p~~~vinEaV~lak~~~~~~~~~fVNaVLr~i~r~ 129 (130)
T cd00619 95 PHPVVINEAIELAKRFGGDDSHKFVNGVLDKIAKD 129 (130)
T ss_pred CCcchHHHHHHHHHHHCCCcchhHHHHHHHHHhhc
Confidence 6666788899999886 4699999999999875
No 17
>PRK00202 nusB transcription antitermination protein NusB; Reviewed
Probab=96.71 E-value=0.00024 Score=52.74 Aligned_cols=34 Identities=15% Similarity=0.062 Sum_probs=28.3
Q ss_pred CChHHhhccCChhHHH---HHHhHHHHHHhhhhhccc
Q psy7376 12 PSEEEADKVLSIPDVE---QRIKDVLMVLGNFKQYRD 45 (180)
Q Consensus 12 ~~~~~~~~~~~~~~~~---~~~~~VNaVLR~~~r~~~ 45 (180)
|.-.-++|.|+++|.. ..+||||||||++.|+..
T Consensus 97 p~~~vinEaV~lak~~~~~~~~~fVNaVLr~i~r~~~ 133 (137)
T PRK00202 97 PYKVVINEAIELAKKFGDEDSHKFVNGVLDKIAKELR 133 (137)
T ss_pred CCcchHHHHHHHHHHHCCCCcchhHHHHHHHHHHHhh
Confidence 6667788899999976 358999999999998643
No 18
>KOG2198|consensus
Probab=94.94 E-value=0.063 Score=46.26 Aligned_cols=106 Identities=25% Similarity=0.337 Sum_probs=66.3
Q ss_pred HHHhCC-HHHHHHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHHC-----------C--CceeecCCCCcceEEEeccC-
Q psy7376 75 IMQIFP-LDELMSFLEASETQRPLTIRTNTLKTRRRDLAQALVNR-----------G--VNLDPIGKWSKVGLVIYNST- 139 (180)
Q Consensus 75 ~~~~~G-~e~~~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~-----------G--i~~~~~~~~~~~~l~l~~~~- 139 (180)
..+.|. .+++..+.+.+..+-|.++|+.......+++...+++. | ++.....+|+|+++.+....
T Consensus 32 ~l~~f~~~~e~~~~~~~ir~~Lps~fr~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~e~~~~~p~~p~~~a~~~~~~ 111 (375)
T KOG2198|consen 32 ALDHFDKEDEFGDFWETIRKPLPSTFRYTALVNNADALLSIFEEYEFESLKDRVIEGLKFEAPFELPWYPDNLAFEKDVK 111 (375)
T ss_pred HHhcCcchHHHHHHHHHHHhccchhhhHHHhccchHHHHHHHhhccchhhhhhhccccccCccccCCCCcccchhhhcCc
Confidence 344454 67888899999888899999877655554444333322 3 22211126777776555321
Q ss_pred -------CCCCCCHHHHH-----------------------------------------HhcCC------CCceEEEEcC
Q psy7376 140 -------VPIGATPEYLG-----------------------------------------AALMK------NTGVLFANDV 165 (180)
Q Consensus 140 -------~~l~~~p~f~~-----------------------------------------A~lm~------~~G~v~A~Di 165 (180)
..+...++|.. +++++ +.|.|+|+|+
T Consensus 112 ~~~~r~~~~l~rf~~fl~~e~~vg~i~rqeavSmlPvL~L~v~p~~~VLDmCAAPG~Kt~qLLeal~~~~~~g~vvaND~ 191 (375)
T KOG2198|consen 112 LDEIRKSPPLSRFHGFLKLETGVGNIYRQEAVSMLPVLALGVKPGDKVLDMCAAPGGKTAQLLEALHKDPTRGYVVANDV 191 (375)
T ss_pred ccccccCCchhhcchHhhhhcccccchhhhhhhccchhhcccCCCCeeeeeccCCCccHHHHHHHHhcCCCCCeeEeccc
Confidence 01223444443 33332 3689999999
Q ss_pred ChHHHHHHHHhhccC
Q psy7376 166 SKERSKAIVGNFHRL 180 (180)
Q Consensus 166 ~~~Rl~~l~~n~~RL 180 (180)
+.+|+..|...++|+
T Consensus 192 d~~R~~~L~~q~~~l 206 (375)
T KOG2198|consen 192 DPKRLNMLVHQLKRL 206 (375)
T ss_pred CHHHHHHHHHHHhcc
Confidence 999999999988875
No 19
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=90.58 E-value=0.28 Score=38.54 Aligned_cols=30 Identities=27% Similarity=0.228 Sum_probs=27.2
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
++++.+.|+|+|.|-++.+++.++.|++|+
T Consensus 52 ~a~~~p~~~v~AIe~~~~a~~~~~~N~~~f 81 (187)
T COG2242 52 WALAGPSGRVIAIERDEEALELIERNAARF 81 (187)
T ss_pred HHHhCCCceEEEEecCHHHHHHHHHHHHHh
Confidence 347789999999999999999999999885
No 20
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=85.59 E-value=4.8 Score=32.57 Aligned_cols=39 Identities=10% Similarity=-0.018 Sum_probs=28.9
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHhCCCCCceEEEcCCCC-CHH
Q psy7376 69 EFLMERIMQIFPLDELMSFLEASETQRPLTIRTNTLKT-RRR 109 (180)
Q Consensus 69 ~Wlv~~~~~~~G~e~~~~il~a~~~~pp~~lRvN~~k~-~~~ 109 (180)
.|..++|.+ +..+++.|+......++..++.|..+. +.+
T Consensus 9 ~~~~~~l~~--~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~ 48 (275)
T PRK09328 9 REATARLAS--PRLDAELLLAHVLGLSRTDLLLNPEEELTPE 48 (275)
T ss_pred HHHHHHHhC--cHHHHHHHHHHHHCcCHHHHhhcccCCCCHH
Confidence 566666665 667888888888888888888887654 443
No 21
>PF04031 Las1: Las1-like ; InterPro: IPR007174 Las1 is an essential nuclear protein involved in cell morphogenesis and cell surface growth [].
Probab=79.08 E-value=2.5 Score=32.14 Aligned_cols=37 Identities=11% Similarity=0.066 Sum_probs=26.4
Q ss_pred HHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHH
Q psy7376 29 RIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMER 74 (180)
Q Consensus 29 ~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~ 74 (180)
...||||++=..+..... .+...++-...+|.|||+.
T Consensus 84 ivRfVNgl~D~~Q~~~~a---------~si~~~A~~iglP~~lVdl 120 (154)
T PF04031_consen 84 IVRFVNGLVDPSQQGKYA---------RSIASLAKEIGLPSWLVDL 120 (154)
T ss_pred HHHHHHHhhhHhhccchh---------hhHHHHHHHcCCCHHHHHH
Confidence 489999999776532211 2445578889999999975
No 22
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=75.97 E-value=3.7 Score=33.61 Aligned_cols=50 Identities=22% Similarity=0.283 Sum_probs=35.0
Q ss_pred CCcceEEEeccCCCCCCCHHHHHHhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 128 WSKVGLVIYNSTVPIGATPEYLGAALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 128 ~~~~~l~l~~~~~~l~~~p~f~~A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..|....++.+- .-+.+-.+. |..+++.|+|+..|+++.|++..++|+++
T Consensus 38 i~pG~~VlEaGt-GSG~lt~~l-~r~v~p~G~v~t~E~~~~~~~~A~~n~~~ 87 (247)
T PF08704_consen 38 IRPGSRVLEAGT-GSGSLTHAL-ARAVGPTGHVYTYEFREDRAEKARKNFER 87 (247)
T ss_dssp --TT-EEEEE---TTSHHHHHH-HHHHTTTSEEEEEESSHHHHHHHHHHHHH
T ss_pred CCCCCEEEEecC-CcHHHHHHH-HHHhCCCeEEEccccCHHHHHHHHHHHHH
Confidence 345666777652 224445555 66678899999999999999999999876
No 23
>KOG2904|consensus
Probab=75.79 E-value=2.5 Score=35.46 Aligned_cols=29 Identities=31% Similarity=0.165 Sum_probs=24.9
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
++-+. +++++|.|+|+.-+++..+|++|+
T Consensus 167 l~~L~-~~~v~AiD~S~~Ai~La~eN~qr~ 195 (328)
T KOG2904|consen 167 LHGLP-QCTVTAIDVSKAAIKLAKENAQRL 195 (328)
T ss_pred HhcCC-CceEEEEeccHHHHHHHHHHHHHH
Confidence 33343 799999999999999999999985
No 24
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=74.81 E-value=3.7 Score=31.92 Aligned_cols=29 Identities=21% Similarity=0.276 Sum_probs=24.2
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
|..+.+.++|+++|+++.+++..++|+++
T Consensus 59 a~~~~~~~~v~avD~~~~~~~~a~~n~~~ 87 (198)
T PRK00377 59 SLLVGETGKVYAVDKDEKAINLTRRNAEK 87 (198)
T ss_pred HHHhCCCCEEEEEECCHHHHHHHHHHHHH
Confidence 44556678999999999999999998764
No 25
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=69.52 E-value=6 Score=31.87 Aligned_cols=36 Identities=19% Similarity=0.169 Sum_probs=28.1
Q ss_pred CCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 144 ATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 144 ~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..-||.. |..+.+.|+|+++|+++..++..++|+++
T Consensus 77 t~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~ 115 (234)
T PLN02781 77 VFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKK 115 (234)
T ss_pred CcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHH
Confidence 3445543 55566689999999999999999999865
No 26
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=69.02 E-value=6.7 Score=31.59 Aligned_cols=36 Identities=19% Similarity=0.248 Sum_probs=28.8
Q ss_pred CCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 144 ATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 144 ~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..-||.. |.-+...|+|+++|+++.+.+..++|+++
T Consensus 68 T~~GySal~mA~~l~~~g~l~tiE~~~e~~~~A~~n~~~ 106 (219)
T COG4122 68 TAIGYSALWMALALPDDGRLTTIERDEERAEIARENLAE 106 (219)
T ss_pred cccCHHHHHHHhhCCCCCeEEEEeCCHHHHHHHHHHHHH
Confidence 4455654 55555579999999999999999999875
No 27
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=66.51 E-value=8.1 Score=30.23 Aligned_cols=38 Identities=21% Similarity=0.397 Sum_probs=28.9
Q ss_pred CCCCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 142 IGATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 142 l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
++.-.||.. +++++..|+|+++|+++.-++..++|+++
T Consensus 79 iG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~ 119 (205)
T PRK13944 79 VGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIER 119 (205)
T ss_pred ECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 344556654 56666678999999999999988888764
No 28
>KOG2425|consensus
Probab=65.48 E-value=6 Score=35.59 Aligned_cols=38 Identities=11% Similarity=0.100 Sum_probs=27.5
Q ss_pred HHHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHHHHH
Q psy7376 28 QRIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFLMER 74 (180)
Q Consensus 28 ~~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wlv~~ 74 (180)
....||||++-...+....+ +..-++-...+|.|||+.
T Consensus 104 ai~RfVNglid~tqqsq~aV---------pla~lA~~IgiP~wfVDL 141 (599)
T KOG2425|consen 104 AIVRFVNGLIDPTQQSQAAV---------PLACLAQEIGIPDWFVDL 141 (599)
T ss_pred HHHHHHHhccCHHhhhhhcc---------cHHHHHHHcCCcHHHHHh
Confidence 45889999997776654444 334567788899999874
No 29
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=65.40 E-value=8.9 Score=30.40 Aligned_cols=36 Identities=19% Similarity=0.349 Sum_probs=29.1
Q ss_pred CCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 144 ATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 144 ~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..-||.. |.-+.+.|+|+++|+++.+.+..++++++
T Consensus 54 t~~GySal~la~~l~~~g~i~tiE~~~~~~~~A~~~~~~ 92 (205)
T PF01596_consen 54 TFTGYSALWLAEALPEDGKITTIEIDPERAEIARENFRK 92 (205)
T ss_dssp TTTSHHHHHHHHTSTTTSEEEEEESSHHHHHHHHHHHHH
T ss_pred cccccHHHHHHHhhcccceEEEecCcHHHHHHHHHHHHh
Confidence 3455554 66666789999999999999999998875
No 30
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=62.34 E-value=11 Score=29.74 Aligned_cols=38 Identities=16% Similarity=0.287 Sum_probs=29.4
Q ss_pred CCCCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 142 IGATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 142 l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
++.-.||.. +++++..|+|+++|+++.-++..++|+++
T Consensus 83 IG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~ 123 (212)
T PRK13942 83 IGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKK 123 (212)
T ss_pred ECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 344556654 56666678999999999999999998764
No 31
>PRK04266 fibrillarin; Provisional
Probab=60.06 E-value=11 Score=30.39 Aligned_cols=27 Identities=11% Similarity=0.337 Sum_probs=21.8
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
|.... .|+|+|+|+++..++.+.++++
T Consensus 91 a~~v~-~g~V~avD~~~~ml~~l~~~a~ 117 (226)
T PRK04266 91 SDIVE-EGVVYAVEFAPRPMRELLEVAE 117 (226)
T ss_pred HHhcC-CCeEEEEECCHHHHHHHHHHhh
Confidence 55554 7899999999999998776654
No 32
>PRK07402 precorrin-6B methylase; Provisional
Probab=59.23 E-value=11 Score=29.08 Aligned_cols=25 Identities=24% Similarity=0.203 Sum_probs=21.9
Q ss_pred CCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+.++|+++|+++..++.+++|+++
T Consensus 62 ~~~~~V~~vD~s~~~~~~a~~n~~~ 86 (196)
T PRK07402 62 CPKGRVIAIERDEEVVNLIRRNCDR 86 (196)
T ss_pred CCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 4568999999999999999999864
No 33
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=58.78 E-value=13 Score=29.23 Aligned_cols=38 Identities=16% Similarity=0.304 Sum_probs=28.3
Q ss_pred CCCCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 142 IGATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 142 l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
++.-.||.. |.+....|+|+++|+++.-++..++|+++
T Consensus 84 iG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~ 124 (215)
T TIGR00080 84 IGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRK 124 (215)
T ss_pred ECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 344555553 45555568999999999999999998865
No 34
>PLN02476 O-methyltransferase
Probab=57.38 E-value=14 Score=30.85 Aligned_cols=36 Identities=14% Similarity=0.207 Sum_probs=28.6
Q ss_pred CCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 144 ATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 144 ~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..-||.. |..|.++|.|+++|+++.+++..++|+++
T Consensus 127 T~tGySal~lA~al~~~G~V~TiE~d~e~~~~Ar~n~~~ 165 (278)
T PLN02476 127 VYTGYSSLAVALVLPESGCLVACERDSNSLEVAKRYYEL 165 (278)
T ss_pred CCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHH
Confidence 3444444 66677789999999999999999999875
No 35
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=54.97 E-value=13 Score=28.56 Aligned_cols=27 Identities=4% Similarity=-0.086 Sum_probs=22.2
Q ss_pred cCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 153 LMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 153 lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+.+.++|+++|+++..++.+++++++
T Consensus 62 ~~~~~~~V~~iD~s~~~~~~a~~~~~~ 88 (181)
T TIGR00138 62 IARPELKLTLLESNHKKVAFLREVKAE 88 (181)
T ss_pred HHCCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 345568999999999999998888764
No 36
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=52.51 E-value=18 Score=24.89 Aligned_cols=28 Identities=29% Similarity=0.351 Sum_probs=22.1
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+..+ +.++|+++|+++..++..+.++++
T Consensus 38 ~~~~-~~~~v~~vD~s~~~~~~a~~~~~~ 65 (124)
T TIGR02469 38 ARLV-PNGRVYAIERNPEALRLIERNARR 65 (124)
T ss_pred HHHC-CCceEEEEcCCHHHHHHHHHHHHH
Confidence 4444 347999999999999999888754
No 37
>PTZ00146 fibrillarin; Provisional
Probab=51.53 E-value=17 Score=30.68 Aligned_cols=33 Identities=21% Similarity=0.357 Sum_probs=23.4
Q ss_pred CCCCCHHHHH---HhcCCCCceEEEEcCChHHHHHH
Q psy7376 141 PIGATPEYLG---AALMKNTGVLFANDVSKERSKAI 173 (180)
Q Consensus 141 ~l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l 173 (180)
++...+++.. |.++.++|+|+|+|+++.-++.|
T Consensus 138 DLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dL 173 (293)
T PTZ00146 138 YLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDL 173 (293)
T ss_pred EeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHH
Confidence 3456676654 77888889999999996544333
No 38
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=51.14 E-value=19 Score=28.49 Aligned_cols=29 Identities=28% Similarity=0.296 Sum_probs=24.7
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhccC
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
|.+++. -+|+|+|+++.=++..++|+.++
T Consensus 63 a~~lGa-~~V~~vdiD~~a~ei~r~N~~~l 91 (198)
T COG2263 63 AALLGA-SRVLAVDIDPEALEIARANAEEL 91 (198)
T ss_pred HHhcCC-cEEEEEecCHHHHHHHHHHHHhh
Confidence 666665 49999999999999999999863
No 39
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=50.09 E-value=19 Score=29.17 Aligned_cols=28 Identities=21% Similarity=0.165 Sum_probs=23.8
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+..+...++|+++|+++.+++..+++.+
T Consensus 96 a~~~g~~~~v~gvD~s~~~l~~A~~~~~ 123 (272)
T PRK11873 96 ARRVGPTGKVIGVDMTPEMLAKARANAR 123 (272)
T ss_pred HHHhCCCCEEEEECCCHHHHHHHHHHHH
Confidence 5556677899999999999999998764
No 40
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=47.68 E-value=22 Score=27.09 Aligned_cols=25 Identities=16% Similarity=0.017 Sum_probs=21.7
Q ss_pred CCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+.++|+++|+++..++..++|+++
T Consensus 53 ~~~~~v~~vD~s~~~~~~a~~n~~~ 77 (187)
T PRK08287 53 FPSLQVTAIERNPDALRLIKENRQR 77 (187)
T ss_pred CCCCEEEEEECCHHHHHHHHHHHHH
Confidence 4568999999999999999998764
No 41
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=46.16 E-value=29 Score=25.38 Aligned_cols=29 Identities=14% Similarity=0.087 Sum_probs=23.6
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+..+.+.++++++|+++.-++..++++++
T Consensus 22 ~~~~~~~~~i~gvD~s~~~i~~a~~~~~~ 50 (152)
T PF13847_consen 22 AKELNPGAKIIGVDISEEMIEYAKKRAKE 50 (152)
T ss_dssp HHHSTTTSEEEEEESSHHHHHHHHHHHHH
T ss_pred HHhcCCCCEEEEEECcHHHHHHhhccccc
Confidence 43445578999999999999999997764
No 42
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=45.75 E-value=29 Score=23.51 Aligned_cols=22 Identities=14% Similarity=0.013 Sum_probs=20.5
Q ss_pred CCceEEEEcCChHHHHHHHHhh
Q psy7376 156 NTGVLFANDVSKERSKAIVGNF 177 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~ 177 (180)
+.++|+++|+|+.-++..++++
T Consensus 24 ~~~~v~gvD~s~~~~~~a~~~~ 45 (112)
T PF12847_consen 24 PGARVVGVDISPEMLEIARERA 45 (112)
T ss_dssp TTSEEEEEESSHHHHHHHHHHH
T ss_pred CCCEEEEEeCCHHHHHHHHHHH
Confidence 6679999999999999999988
No 43
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=44.99 E-value=26 Score=29.03 Aligned_cols=25 Identities=20% Similarity=0.115 Sum_probs=22.3
Q ss_pred CCceEEEEcCChHHHHHHHHhhccC
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
+..+|+|.|||+.=++.-++|+++.
T Consensus 133 ~~~~V~a~Dis~~Al~~A~~Na~~~ 157 (280)
T COG2890 133 PDAEVIAVDISPDALALARENAERN 157 (280)
T ss_pred cCCeEEEEECCHHHHHHHHHHHHHc
Confidence 4569999999999999999999873
No 44
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=44.07 E-value=41 Score=27.78 Aligned_cols=50 Identities=22% Similarity=0.229 Sum_probs=34.3
Q ss_pred CCcceEEEeccCCCCCCCHHHHHHhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 128 WSKVGLVIYNSTVPIGATPEYLGAALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 128 ~~~~~l~l~~~~~~l~~~p~f~~A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+|....++.+- .-+.+..|. |-..++.|+|+..|+++.+++.-++|++.
T Consensus 92 i~pg~rVlEAGt-GSG~lt~~L-a~~vg~~G~v~tyE~r~d~~k~A~~Nl~~ 141 (256)
T COG2519 92 ISPGSRVLEAGT-GSGALTAYL-ARAVGPEGHVTTYEIREDFAKTARENLSE 141 (256)
T ss_pred CCCCCEEEEccc-CchHHHHHH-HHhhCCCceEEEEEecHHHHHHHHHHHHH
Confidence 345555555431 113334444 55567889999999999999999999864
No 45
>PF02108 FliH: Flagellar assembly protein FliH; InterPro: IPR018035 This entry represents a region found in the flagellar assembly protein FliH, as well as in type III secretion system protein HrpE. Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export []. The sequence of fliH has been deduced and shown to encode a protein of molecular mass of 25,782 Da. Bacterial HrpE proteins are belived to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) [].
Probab=43.79 E-value=73 Score=22.29 Aligned_cols=48 Identities=19% Similarity=0.102 Sum_probs=28.3
Q ss_pred HHhCCCCCceEEEcCCCCCHHHHHHHHH----HCCCceeecCCCCcceEEEecc
Q psy7376 89 EASETQRPLTIRTNTLKTRRRDLAQALV----NRGVNLDPIGKWSKVGLVIYNS 138 (180)
Q Consensus 89 ~a~~~~pp~~lRvN~~k~~~~~l~~~L~----~~Gi~~~~~~~~~~~~l~l~~~ 138 (180)
.......++.||||+. +.+.+.+.+. ..|+.+.+.+...++++++..+
T Consensus 62 ~~~~~~~~v~I~v~p~--d~~~l~~~~~~~~~~~~~~l~~D~~l~~G~c~iet~ 113 (128)
T PF02108_consen 62 ELPRDEEKVTIRVHPD--DYEALEELLEDELPELGWELVADPSLAPGDCRIETE 113 (128)
T ss_pred HhhccCCCeEEEECHH--HHHHHHHHHHHHHhhcCCEEEecCCCCCCCEEEEEC
Confidence 4445677899999983 3333443333 4456555543455666777754
No 46
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=41.85 E-value=53 Score=28.57 Aligned_cols=55 Identities=13% Similarity=0.213 Sum_probs=37.7
Q ss_pred HHHHHHHHHhCCC---CCceEEEcC----C---CCCHHHHHHHHHHCCCceeecCCCCcceEEEec
Q psy7376 82 DELMSFLEASETQ---RPLTIRTNT----L---KTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYN 137 (180)
Q Consensus 82 e~~~~il~a~~~~---pp~~lRvN~----~---k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~ 137 (180)
....+++..+.+. ||.+.++.. + -...+.+++.|.+.|+.+..+ ...|.|+....
T Consensus 295 ~~~~~lL~~~~~E~~~~p~~y~~~~i~~~~k~~~p~~~~~~~~L~~~Gy~as~t-H~~p~~iKTdA 359 (374)
T TIGR00308 295 KRVLKMLSLIKNELSDPPGYYSPHHIASVLKLSVPPLKDVVAGLKSLGFEASRT-HYQPSGIKTDA 359 (374)
T ss_pred HHHHHHHHHHHhccCCCCeEEeHHHHHHhcCCCCCCHHHHHHHHHHCCCeEEee-eeCCCcEecCC
Confidence 3566777666543 455544331 1 255788999999999999986 67889987643
No 47
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=41.51 E-value=43 Score=27.33 Aligned_cols=36 Identities=17% Similarity=0.220 Sum_probs=28.1
Q ss_pred CCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 144 ATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 144 ~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..-||.. |.-+.++|+|+++|+++.+.+.-++++++
T Consensus 88 T~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ 126 (247)
T PLN02589 88 VYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQK 126 (247)
T ss_pred ChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 3455554 55566789999999999999998888764
No 48
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=41.43 E-value=14 Score=29.30 Aligned_cols=38 Identities=24% Similarity=0.323 Sum_probs=30.3
Q ss_pred CCCCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 142 IGATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 142 l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
++.-.||.. |.+.+..|+|+++|+++.-++..++|+++
T Consensus 79 IGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~ 119 (209)
T PF01135_consen 79 IGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLAR 119 (209)
T ss_dssp ES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHH
T ss_pred ecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHH
Confidence 345567775 66777889999999999999999998875
No 49
>PRK04148 hypothetical protein; Provisional
Probab=40.94 E-value=20 Score=26.56 Aligned_cols=20 Identities=5% Similarity=-0.155 Sum_probs=17.0
Q ss_pred ceEEEEcCChHHHHHHHHhh
Q psy7376 158 GVLFANDVSKERSKAIVGNF 177 (180)
Q Consensus 158 G~v~A~Di~~~Rl~~l~~n~ 177 (180)
..|+|.|+++++++..+++.
T Consensus 40 ~~ViaIDi~~~aV~~a~~~~ 59 (134)
T PRK04148 40 FDVIVIDINEKAVEKAKKLG 59 (134)
T ss_pred CEEEEEECCHHHHHHHHHhC
Confidence 49999999999998887653
No 50
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=40.04 E-value=61 Score=28.20 Aligned_cols=71 Identities=14% Similarity=0.220 Sum_probs=46.5
Q ss_pred cCcHHH--------HHHHHHh----CC-HHHHHHHHHHhCCC----CCceEEEc-------CCCCCHHHHHHHHHHCCCc
Q psy7376 66 SYNEFL--------MERIMQI----FP-LDELMSFLEASETQ----RPLTIRTN-------TLKTRRRDLAQALVNRGVN 121 (180)
Q Consensus 66 S~P~Wl--------v~~~~~~----~G-~e~~~~il~a~~~~----pp~~lRvN-------~~k~~~~~l~~~L~~~Gi~ 121 (180)
+=|-|+ ++.+.+. +| .++..++++.+.+. +|.+.++. ..-.+.+.+++.|.+.|+.
T Consensus 274 ~GPlW~G~l~d~~fl~~~~~~~~~~~~~~~~~~~ll~~~~~E~~~~~p~~y~~~~i~~~~k~~~p~~~~~~~~L~~~Gy~ 353 (382)
T PRK04338 274 AGPLWLGPLHDKEFVEEMLEEAAKELGTSKKALKLLKTIEEESKLDTPTFYDLHELAKKLKVSAPPMDEILEALREAGFE 353 (382)
T ss_pred ccccccCccCCHHHHHHHHHHhhhhccchHHHHHHHHHHHhccCCCCCcEEcHHHHHhhcCCCCCCHHHHHHHHHHCCCe
Confidence 347776 5555543 22 35677788777644 34444332 1125678999999999999
Q ss_pred eeecCCCCcceEEEec
Q psy7376 122 LDPIGKWSKVGLVIYN 137 (180)
Q Consensus 122 ~~~~~~~~~~~l~l~~ 137 (180)
+..+ ...|.|+....
T Consensus 354 as~t-H~~p~~iKTdA 368 (382)
T PRK04338 354 ASRT-HFSPTGFKTDA 368 (382)
T ss_pred EEee-EECCCcEecCC
Confidence 9986 67888987643
No 51
>PF09119 SicP-binding: SicP binding; InterPro: IPR015203 Members of this family bind the chaperone SicP, which is required both to maintain the stability of SptP, as well as to ensure the eventual secretion of the protein. The domain is found in the Salmonella effector protein SptP, which interacts with SicP chaperone dimers mainly through four regions of its chaperone-binding domain. The structure of the SptP-SicP complex contains four molecules of SicP, aligned in a linear fashion and arranged in two sets of tightly bound homodimers that bind two SptP molecules. The SicP homodimers do not interact with each other, but are held together by a molecular interface formed between two SptP molecules. Each SptP molecule is wrapped around by three SicP chaperones (two chaperones from one homodimer and a third one from the opposite homodimer pair) []. ; GO: 0005615 extracellular space; PDB: 1JYO_F.
Probab=40.00 E-value=21 Score=24.15 Aligned_cols=31 Identities=19% Similarity=0.307 Sum_probs=20.5
Q ss_pred HHHHHHHHhCCHHHHHHHHHH--hCCCCCceEE
Q psy7376 70 FLMERIMQIFPLDELMSFLEA--SETQRPLTIR 100 (180)
Q Consensus 70 Wlv~~~~~~~G~e~~~~il~a--~~~~pp~~lR 100 (180)
=|.+.+.+.||++.+.+++.. ++...|++-|
T Consensus 42 vFl~ALa~~YGe~~a~~~~~~~~ls~~tPLt~r 74 (81)
T PF09119_consen 42 VFLEALAERYGEETANKVLDKMDLSGGTPLTQR 74 (81)
T ss_dssp HHHHHHHHTTSCHHHHHHHHHHHH-----GGGS
T ss_pred HHHHHHHHHHhHHHHHHHHHHhccCCCCCccHH
Confidence 367889999999999888877 5555666644
No 52
>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase. MenG is a generic term for a methyltransferase that catalyzes the last step in menaquinone biosynthesis; the exact enzymatic activity differs for different MenG because the menaquinone differ in their prenoid side chains in different species. Members of this MenG protein family are 2-heptaprenyl-1,4-naphthoquinone methyltransferase, and are found together in operons with the two subunits of the heptaprenyl diphosphate synthase in Bacillus subtilis and related species.
Probab=39.34 E-value=40 Score=26.40 Aligned_cols=28 Identities=14% Similarity=0.063 Sum_probs=22.9
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
++...+.+.|+++|+++..++..+++++
T Consensus 64 a~~~~~~~~v~gvD~s~~~~~~a~~~~~ 91 (231)
T TIGR02752 64 AEAVGPEGHVIGLDFSENMLSVGRQKVK 91 (231)
T ss_pred HHHhCCCCEEEEEECCHHHHHHHHHHHH
Confidence 4455567899999999999998888764
No 53
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=37.87 E-value=36 Score=26.41 Aligned_cols=37 Identities=11% Similarity=0.059 Sum_probs=26.6
Q ss_pred CCCCHHHHH---HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 142 IGATPEYLG---AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 142 l~~~p~f~~---A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
++.-+|+.. |. ..+.++|+++|+++..++..++++++
T Consensus 52 iGcGtG~~al~la~-~~~~~~V~giD~s~~~l~~A~~~~~~ 91 (187)
T PRK00107 52 VGSGAGFPGIPLAI-ARPELKVTLVDSLGKKIAFLREVAAE 91 (187)
T ss_pred EcCCCCHHHHHHHH-HCCCCeEEEEeCcHHHHHHHHHHHHH
Confidence 444555443 22 23568999999999999999988764
No 54
>TIGR02499 HrpE_YscL_not type III secretion apparatus protein, HrpE/YscL family. This model is related to Pfam model pfam06188, but is broader. pfam06188 describes HrpE-like proteins, components of bacterial type III secretion systems primarily in bacteria that infect plants. This model includes also the homologous proteins of animal pathogens, such as YscL of Yersinia pestis. This model excludes the related protein FliH of the bacterial flagellar apparatus (see pfam02108)
Probab=37.59 E-value=1e+02 Score=22.78 Aligned_cols=52 Identities=23% Similarity=0.286 Sum_probs=29.8
Q ss_pred HHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHHC----CCceeecCCCCcceEEEecc
Q psy7376 85 MSFLEASETQRPLTIRTNTLKTRRRDLAQALVNR----GVNLDPIGKWSKVGLVIYNS 138 (180)
Q Consensus 85 ~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~~----Gi~~~~~~~~~~~~l~l~~~ 138 (180)
.+.+........++||||+. +.+.+.+.+... |+.+.+.+...++|+++...
T Consensus 104 ~~al~~~~~~~~v~I~v~P~--d~~~l~~~l~~~~~~~~~~i~~D~~l~~G~c~vet~ 159 (166)
T TIGR02499 104 RQLLRAVANQGRLTLRVHPE--QLDEVREALAERLALEPWELEPDASLAPGACVLETE 159 (166)
T ss_pred HHHHHhCCCCCceEEEECHH--HHHHHHHHHHHHhccCCeEEeeCCCCCCCCEEEEeC
Confidence 34455566678899999984 333444444332 23444432356677777654
No 55
>PF02005 TRM: N2,N2-dimethylguanosine tRNA methyltransferase; InterPro: IPR002905 This enzyme 2.1.1.32 from EC uses S-adenosyl-L-methionine to methylate tRNA: S-AdoMet + tRNA = S-adenosyl-L-homocysteine + tRNA containing N2-methylguanine The TRM1 gene of Saccharomyces cerevisiae is necessary for the N2,N2-dimethylguanosine modification of both mitochondrial and cytoplasmic tRNAs []. The enzyme is found in both eukaryotes and archaea [].; GO: 0003723 RNA binding, 0004809 tRNA (guanine-N2-)-methyltransferase activity, 0008033 tRNA processing; PDB: 2YTZ_B 2DUL_A 2EJU_A 2EJT_A 3AXT_A 3AXS_A.
Probab=36.71 E-value=34 Score=29.79 Aligned_cols=24 Identities=29% Similarity=0.322 Sum_probs=20.0
Q ss_pred CCCceEEEEcCChHHHHHHHHhhc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
.+...|+++|+|+.-++.|+.|++
T Consensus 72 ~~~~~v~~NDi~~~a~~~i~~N~~ 95 (377)
T PF02005_consen 72 AGVDKVTANDISPEAVELIKRNLE 95 (377)
T ss_dssp SSECEEEEEES-HHHHHHHHHHHH
T ss_pred CCCCEEEEecCCHHHHHHHHHhHh
Confidence 344599999999999999999976
No 56
>TIGR00536 hemK_fam HemK family putative methylases. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.
Probab=36.56 E-value=40 Score=27.76 Aligned_cols=24 Identities=17% Similarity=0.160 Sum_probs=21.4
Q ss_pred CCceEEEEcCChHHHHHHHHhhcc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+..+|+|+|+|+..++..++|+++
T Consensus 137 ~~~~v~avDis~~al~~a~~n~~~ 160 (284)
T TIGR00536 137 PNAEVIAVDISPDALAVAEENAEK 160 (284)
T ss_pred CCCEEEEEECCHHHHHHHHHHHHH
Confidence 456999999999999999999875
No 57
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=36.46 E-value=49 Score=21.18 Aligned_cols=23 Identities=13% Similarity=0.105 Sum_probs=18.9
Q ss_pred CCceEEEEcCChHHHHHHHHhhc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+...|+++|+++..++..+++..
T Consensus 18 ~~~~v~~~D~~~~~~~~~~~~~~ 40 (95)
T PF08241_consen 18 GGASVTGIDISEEMLEQARKRLK 40 (95)
T ss_dssp TTCEEEEEES-HHHHHHHHHHTT
T ss_pred cCCEEEEEeCCHHHHHHHHhccc
Confidence 35799999999999999988765
No 58
>COG4803 Predicted membrane protein [Function unknown]
Probab=36.39 E-value=11 Score=28.69 Aligned_cols=20 Identities=40% Similarity=0.685 Sum_probs=17.5
Q ss_pred CCccccccccCCChHHhhcc
Q psy7376 1 MNIADHEVFAFPSEEEADKV 20 (180)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~ 20 (180)
||++|--|++||++++++++
T Consensus 1 ~~Ms~Livi~f~~e~~Aeev 20 (170)
T COG4803 1 LNMSDLIVIAFDDEDKAEEV 20 (170)
T ss_pred CchhheEEEEcCCcchHHHH
Confidence 68899999999999988854
No 59
>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family. Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.
Probab=35.90 E-value=33 Score=27.13 Aligned_cols=25 Identities=12% Similarity=0.198 Sum_probs=20.0
Q ss_pred CCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.....|+|+|+++.=.+.|++|+++
T Consensus 123 ~~~~~V~A~d~Np~a~~~L~~Ni~l 147 (200)
T PF02475_consen 123 GKAKRVYAVDLNPDAVEYLKENIRL 147 (200)
T ss_dssp T-SSEEEEEES-HHHHHHHHHHHHH
T ss_pred cCccEEEEecCCHHHHHHHHHHHHH
Confidence 3445899999999999999999864
No 60
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=35.25 E-value=41 Score=29.43 Aligned_cols=28 Identities=25% Similarity=0.198 Sum_probs=23.0
Q ss_pred hcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 152 ALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 152 ~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.++.+.++|+++|+++..++..++|+++
T Consensus 238 aa~~ga~~V~~VD~s~~al~~a~~N~~~ 265 (396)
T PRK15128 238 ALMGGCSQVVSVDTSQEALDIARQNVEL 265 (396)
T ss_pred HHhCCCCEEEEEECCHHHHHHHHHHHHH
Confidence 3444555999999999999999999864
No 61
>PF09189 DUF1952: Domain of unknown function (DUF1952); InterPro: IPR015272 In Escherichia coli, the MoaD protein plays a central role in the conversion of precursor Z to molybdopterin (MPT) during molybdenum cofactor biosynthesis. MoaD has a fold similar to that of ubiquitin and contains a highly conserved C-terminal Gly-Gly motif, which in its active form contains a transferrable sulphur in the form of a thiocarboxylate group []. This entry represents a domain found in MoaD-related proteins, but with a different structure from the MoaD domain; this domain consists of a TBP-like fold of beta/apha/beta(4)/alpha. These proteins are found in Thermus thermophilus and contain a ubiquitin-like MoaD domain at their N-terminal, and the domain represented by this entry at their C-terminal. One of these proteins is threonine synthase (4.2.3.1 from EC), which catalyses the conversion of O-phospho-L-homoserine to L-threonine and phosphate. ; PDB: 1V8C_B.
Probab=35.09 E-value=31 Score=23.00 Aligned_cols=17 Identities=12% Similarity=0.063 Sum_probs=12.9
Q ss_pred hcCcHHHHHHHHHhCCH
Q psy7376 65 FSYNEFLMERIMQIFPL 81 (180)
Q Consensus 65 yS~P~Wlv~~~~~~~G~ 81 (180)
+.+|.|+.+.+..++|-
T Consensus 7 g~~P~wlle~Yl~~wGG 23 (78)
T PF09189_consen 7 GAVPPWLLEEYLFSWGG 23 (78)
T ss_dssp ET--HHHHHHHHHHTT-
T ss_pred cCCCHHHHHHHHHHhCC
Confidence 67899999999999983
No 62
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=34.00 E-value=53 Score=27.93 Aligned_cols=29 Identities=14% Similarity=0.283 Sum_probs=23.6
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
|...+..|.|+++|+++..++..++++++
T Consensus 99 A~~~~~~g~VvgVDis~~~l~~Ar~~l~~ 127 (322)
T PRK13943 99 SRVVGEKGLVVSVEYSRKICEIAKRNVRR 127 (322)
T ss_pred HHhcCCCCEEEEEECCHHHHHHHHHHHHH
Confidence 55555568999999999999988887754
No 63
>PF01963 TraB: TraB family; InterPro: IPR002816 In prokaryotes, for example Enterococcus faecalis (Streptococcus faecalis), the conjugative transfer of certain plasmids is controlled by peptide pheromones []. Plasmid free recipient cells secret plasmid specific oligopeptides, termed sex pheromones. They induce bacterial clumping and specifically activate the conjugative transfer of the corresponding plasmid. Once recipient cells acquire the plasmid they start to produce a pheromone inhibitor to block the activity of the pheromone and to prevent plasmid containing cells from clumping; they also become donor cells able to transfer the plasmid to plasmid free recipient cells. Examples of such plasmid-pheromone systems are bacteriocin plasmid pPD1 [], haemolysin/bacteriocin plasmid, pAD1 [], tetracycline-resistance plasmid, pCF10 [], and the haemolysin/bacteriocin plasmid, pOB1 []. TraB in combination with another factor contributes to pheromone shutdown in cells that have acquired a plasmid. It exact function has not yet been determined [, ]. This entry also contains plant and mammalian proteins, suggesting that these Trab-related proteins may have a somewhat wider or different function in eukaryotes.
Probab=33.71 E-value=1.6e+02 Score=23.24 Aligned_cols=57 Identities=11% Similarity=0.040 Sum_probs=36.8
Q ss_pred cHHHHHHHHHhCCHHHHHHHHHHhCCCCCceEEEcCCC-CCHHHHHHHHHHCCCceee
Q psy7376 68 NEFLMERIMQIFPLDELMSFLEASETQRPLTIRTNTLK-TRRRDLAQALVNRGVNLDP 124 (180)
Q Consensus 68 P~Wlv~~~~~~~G~e~~~~il~a~~~~pp~~lRvN~~k-~~~~~l~~~L~~~Gi~~~~ 124 (180)
-+++.+.+...=-..-+..|.+.+..+.++.+=|-... ...+.+++.|+++|+++++
T Consensus 201 ~p~~~~~ll~~RN~~~~~~i~~~l~~~~~~fvvVGa~HL~G~~gvl~lLr~~Gy~V~~ 258 (259)
T PF01963_consen 201 FPELYEVLLDERNRRWAEKIEELLKEGGTVFVVVGAGHLPGEDGVLDLLRKKGYTVEP 258 (259)
T ss_pred CHHHHHHHHHHHhHHHHHHHHHHHhcCCCEEEEEcchhccchhhHHHHHHhCCceeec
Confidence 44455555443333345556666666657777776654 5577899999999998875
No 64
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=33.35 E-value=42 Score=26.08 Aligned_cols=24 Identities=4% Similarity=-0.015 Sum_probs=20.6
Q ss_pred CCceEEEEcCChHHHHHHHHhhcc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+.+.|+++|+++..++..++++++
T Consensus 63 p~~~v~gVD~s~~~i~~a~~~~~~ 86 (202)
T PRK00121 63 PDINFIGIEVHEPGVGKALKKIEE 86 (202)
T ss_pred CCccEEEEEechHHHHHHHHHHHH
Confidence 457999999999999999988753
No 65
>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []. Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.
Probab=32.24 E-value=53 Score=26.43 Aligned_cols=28 Identities=14% Similarity=0.126 Sum_probs=20.0
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+...++.|+|+++|+|+.=|+..++.++
T Consensus 66 ~~~~~~~~~v~~vD~s~~ML~~a~~k~~ 93 (233)
T PF01209_consen 66 ARRVGPNGKVVGVDISPGMLEVARKKLK 93 (233)
T ss_dssp GGGSS---EEEEEES-HHHHHHHHHHHH
T ss_pred HHHCCCccEEEEecCCHHHHHHHHHHHH
Confidence 5556678999999999999999887764
No 66
>PRK06032 fliH flagellar assembly protein H; Validated
Probab=31.35 E-value=1.6e+02 Score=23.03 Aligned_cols=54 Identities=11% Similarity=0.000 Sum_probs=29.6
Q ss_pred HHHHHHHHhCCCCCceEEEcCCCCCHHHHHHHHHH----CC----CceeecCCCCcceEEEecc
Q psy7376 83 ELMSFLEASETQRPLTIRTNTLKTRRRDLAQALVN----RG----VNLDPIGKWSKVGLVIYNS 138 (180)
Q Consensus 83 ~~~~il~a~~~~pp~~lRvN~~k~~~~~l~~~L~~----~G----i~~~~~~~~~~~~l~l~~~ 138 (180)
...+.+......|.+.||||+. +.+.+.+.+.. .| +.+...+...+.+.++..+
T Consensus 116 ~v~eal~~l~~~~~v~I~v~P~--d~~~l~~~l~~~~~~~~~~~~~~l~~D~~L~~G~c~vet~ 177 (199)
T PRK06032 116 AVRDCLRHLVATPHLVVRVNDA--LVEAARERLERLARESGFEGRLVVLADPDMAPGDCRLEWA 177 (199)
T ss_pred HHHHHHHHhcCCCcEEEEECHH--HHHHHHHHHHHHHHhcCcCccEEEeeCCCCCCCCeEEEeC
Confidence 3445566676777899999985 33333333332 24 2233322355666666643
No 67
>PF02005 TRM: N2,N2-dimethylguanosine tRNA methyltransferase; InterPro: IPR002905 This enzyme 2.1.1.32 from EC uses S-adenosyl-L-methionine to methylate tRNA: S-AdoMet + tRNA = S-adenosyl-L-homocysteine + tRNA containing N2-methylguanine The TRM1 gene of Saccharomyces cerevisiae is necessary for the N2,N2-dimethylguanosine modification of both mitochondrial and cytoplasmic tRNAs []. The enzyme is found in both eukaryotes and archaea [].; GO: 0003723 RNA binding, 0004809 tRNA (guanine-N2-)-methyltransferase activity, 0008033 tRNA processing; PDB: 2YTZ_B 2DUL_A 2EJU_A 2EJT_A 3AXT_A 3AXS_A.
Probab=31.07 E-value=74 Score=27.71 Aligned_cols=54 Identities=15% Similarity=0.234 Sum_probs=37.4
Q ss_pred HHHHHHHHHhCCC---CCceEEEcCC-------CCCHHHHHHHHHHCCCceeecCCCCcceEEEe
Q psy7376 82 DELMSFLEASETQ---RPLTIRTNTL-------KTRRRDLAQALVNRGVNLDPIGKWSKVGLVIY 136 (180)
Q Consensus 82 e~~~~il~a~~~~---pp~~lRvN~~-------k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~ 136 (180)
.+...+++...+. +|++.++..+ -...+++++.|.+.|+.+..+ ...|.|+...
T Consensus 303 ~ri~~lL~~i~eE~~~~P~yY~l~~ias~lk~~~P~~~~ii~aL~~~Gy~aSrT-H~~p~giKTd 366 (377)
T PF02005_consen 303 KRIEKLLETIKEELIDPPFYYDLHEIASRLKCNPPPLDKIISALRNAGYRASRT-HFDPNGIKTD 366 (377)
T ss_dssp HHHHHHHHHHHHCHS-SSS-EEHHHHHHHHT-SC--HHHHHHHHHHTTTTEEEE-TTCCCEEEES
T ss_pred HHHhhhcchhhhhcccceeEEeHHHHHHhcCCCCCCHHHHHHHHhhcceEEEec-ccCCCcEecC
Confidence 4667777776665 6665543211 145788999999999999997 7889998764
No 68
>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific. Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.
Probab=29.82 E-value=59 Score=26.86 Aligned_cols=24 Identities=21% Similarity=0.098 Sum_probs=21.3
Q ss_pred CCceEEEEcCChHHHHHHHHhhcc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+.++|+|+|+|+.-++..++|+++
T Consensus 144 ~~~~v~avDis~~al~~A~~n~~~ 167 (284)
T TIGR03533 144 PEAEVDAVDISPDALAVAEINIER 167 (284)
T ss_pred CCCEEEEEECCHHHHHHHHHHHHH
Confidence 457999999999999999999864
No 69
>KOG2915|consensus
Probab=29.77 E-value=1.2e+02 Score=25.60 Aligned_cols=49 Identities=18% Similarity=0.288 Sum_probs=34.9
Q ss_pred CCcceEEEeccCCCCCCCHHHHHHhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 128 WSKVGLVIYNSTVPIGATPEYLGAALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 128 ~~~~~l~l~~~~~~l~~~p~f~~A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
..|....++++.++ +.+--+. |--.++.|+|+..|.|..|.+...+..+
T Consensus 103 i~PGsvV~EsGTGS-GSlShai-araV~ptGhl~tfefH~~Ra~ka~eeFr 151 (314)
T KOG2915|consen 103 IRPGSVVLESGTGS-GSLSHAI-ARAVAPTGHLYTFEFHETRAEKALEEFR 151 (314)
T ss_pred CCCCCEEEecCCCc-chHHHHH-HHhhCcCcceEEEEecHHHHHHHHHHHH
Confidence 45667777765322 3444444 5556799999999999999998887765
No 70
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=29.53 E-value=59 Score=27.29 Aligned_cols=24 Identities=21% Similarity=0.099 Sum_probs=21.4
Q ss_pred CCceEEEEcCChHHHHHHHHhhcc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+..+|+++|+|+.-++..++|+++
T Consensus 156 p~~~V~avDis~~al~~A~~n~~~ 179 (307)
T PRK11805 156 PDAEVDAVDISPDALAVAEINIER 179 (307)
T ss_pred CCCEEEEEeCCHHHHHHHHHHHHH
Confidence 457999999999999999999864
No 71
>PF10930 DUF2737: Protein of unknown function (DUF2737); InterPro: IPR020295 The proteins in this entry are uncharacterised.
Probab=29.40 E-value=27 Score=21.59 Aligned_cols=36 Identities=31% Similarity=0.337 Sum_probs=21.2
Q ss_pred ccccccccCCChHHhhccCChhHHHHHHhHHHHHHhh
Q psy7376 3 IADHEVFAFPSEEEADKVLSIPDVEQRIKDVLMVLGN 39 (180)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VNaVLR~ 39 (180)
|+++.+--+|+-||.-+-=....+- .-++.|+.||.
T Consensus 16 v~r~r~~PmPsREELlkRnSFpsvn-~NkYLN~m~~~ 51 (54)
T PF10930_consen 16 VIRQRFKPMPSREELLKRNSFPSVN-NNKYLNRMLGK 51 (54)
T ss_pred HHHhcCCCCCCHHHHHhhcCCCCCc-hhHHHHHHHhc
Confidence 3456677788888876432222222 25677777764
No 72
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=29.15 E-value=81 Score=25.34 Aligned_cols=22 Identities=18% Similarity=0.134 Sum_probs=19.5
Q ss_pred ceEEEEcCChHHHHHHHHhhcc
Q psy7376 158 GVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 158 G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+.|+++|+++..++..++|+++
T Consensus 143 ~~v~giDis~~~l~~A~~n~~~ 164 (250)
T PRK00517 143 KKVLAVDIDPQAVEAARENAEL 164 (250)
T ss_pred CeEEEEECCHHHHHHHHHHHHH
Confidence 4799999999999999998764
No 73
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=28.45 E-value=53 Score=28.69 Aligned_cols=21 Identities=24% Similarity=0.249 Sum_probs=19.8
Q ss_pred eEEEEcCChHHHHHHHHhhcc
Q psy7376 159 VLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 159 ~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.|+++|||++=.++|++|+++
T Consensus 78 ~v~lNDisp~Avelik~Nv~~ 98 (380)
T COG1867 78 KVVLNDISPKAVELIKENVRL 98 (380)
T ss_pred EEEEccCCHHHHHHHHHHHHh
Confidence 899999999999999999875
No 74
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=27.90 E-value=55 Score=28.20 Aligned_cols=20 Identities=15% Similarity=0.313 Sum_probs=18.9
Q ss_pred eEEEEcCChHHHHHHHHhhc
Q psy7376 159 VLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 159 ~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+|+|+|+++.=.+.|++|++
T Consensus 213 ~V~A~diNP~A~~~L~eNi~ 232 (341)
T COG2520 213 KVYAIDINPDAVEYLKENIR 232 (341)
T ss_pred eEEEEecCHHHHHHHHHHHH
Confidence 49999999999999999986
No 75
>PF07063 DUF1338: Domain of unknown function (DUF1338); InterPro: IPR009770 This domain is found in a variety of bacterial and fungal hypothetical proteins of unknown function. The structure of this domain has been solved by structural genomics. The structure implies a zinc-binding function, so it is a putative metal hydrolase (information derived from TOPSAN for PDB:3iuz).; PDB: 3LHO_A 3IUZ_A 2RJB_C.
Probab=27.45 E-value=1.8e+02 Score=24.61 Aligned_cols=40 Identities=20% Similarity=0.185 Sum_probs=27.2
Q ss_pred HHHHHHHhCCCCCceEEEcCCC--CCHHHHHHHHHHCCCcee
Q psy7376 84 LMSFLEASETQRPLTIRTNTLK--TRRRDLAQALVNRGVNLD 123 (180)
Q Consensus 84 ~~~il~a~~~~pp~~lRvN~~k--~~~~~l~~~L~~~Gi~~~ 123 (180)
+--++.....--.+++|||.++ .+.+++.+.|++.|+...
T Consensus 175 aAWi~~~G~~~NH~T~~v~~l~~~~dI~~v~~~l~~~G~~~n 216 (302)
T PF07063_consen 175 AAWIAAHGYHINHFTPRVNRLKKFLDIDAVNAFLKERGIPMN 216 (302)
T ss_dssp HHHHHHHTCS-SEEEEETTT-TT-S-HHHHHHHHHHTT--B-
T ss_pred HHhhcccccccceeeceeecccccccHHHHHHHHHHcCCCcc
Confidence 3334555556667999999999 888999999999998875
No 76
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=27.45 E-value=72 Score=21.70 Aligned_cols=23 Identities=17% Similarity=0.180 Sum_probs=20.6
Q ss_pred CceEEEEcCChHHHHHHHHhhcc
Q psy7376 157 TGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 157 ~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..+++++|+++..++..+.|+.+
T Consensus 23 ~~~~~gvdi~~~~~~~a~~~~~~ 45 (117)
T PF13659_consen 23 AARVTGVDIDPEAVELARRNLPR 45 (117)
T ss_dssp TCEEEEEESSHHHHHHHHHHCHH
T ss_pred CCeEEEEEECHHHHHHHHHHHHH
Confidence 57999999999999999998764
No 77
>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....
Probab=27.20 E-value=72 Score=23.96 Aligned_cols=25 Identities=16% Similarity=0.106 Sum_probs=21.7
Q ss_pred CCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+..+|+++|+++.=++..++|+++
T Consensus 53 ~~~~~v~~vDi~~~a~~~a~~n~~~ 77 (170)
T PF05175_consen 53 GPDAKVTAVDINPDALELAKRNAER 77 (170)
T ss_dssp STCEEEEEEESBHHHHHHHHHHHHH
T ss_pred CCCCEEEEEcCCHHHHHHHHHHHHh
Confidence 4556899999999999999999875
No 78
>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=26.66 E-value=93 Score=18.64 Aligned_cols=24 Identities=33% Similarity=0.430 Sum_probs=18.5
Q ss_pred CCceEEEcCCCCCHHHHHHHHHHCCCce
Q psy7376 95 RPLTIRTNTLKTRRRDLAQALVNRGVNL 122 (180)
Q Consensus 95 pp~~lRvN~~k~~~~~l~~~L~~~Gi~~ 122 (180)
..+.+|+++ .+.+.+.|++.|+.+
T Consensus 41 ~~v~~~ve~----~~~~~~~L~~~G~~v 64 (65)
T cd04882 41 ALLIFRTED----IEKAIEVLQERGVEL 64 (65)
T ss_pred EEEEEEeCC----HHHHHHHHHHCCceE
Confidence 346788865 778999999999854
No 79
>KOG2899|consensus
Probab=25.77 E-value=1.1e+02 Score=25.60 Aligned_cols=70 Identities=13% Similarity=0.140 Sum_probs=43.2
Q ss_pred CCCCCceEEEcCCCCCHHHHHHHHHHCCCceeecCCCCcceEEEeccCCCCCCCHHHHH---HhcCCCCceEEEEcCChH
Q psy7376 92 ETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLG---AALMKNTGVLFANDVSKE 168 (180)
Q Consensus 92 ~~~pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~~~~~~~~~l~l~~~~~~l~~~p~f~~---A~lm~~~G~v~A~Di~~~ 168 (180)
|-.....+|-|+.- .+..+..|+. +|+.....+ +++..-|+.. |...+. -.|+++||++.
T Consensus 31 Nf~~YY~~r~~~~~--~D~rLk~L~~---------~~f~~~~~L-----DIGCNsG~lt~~iak~F~~-r~iLGvDID~~ 93 (288)
T KOG2899|consen 31 NFDNYYGFRLNPGD--SDPRLKVLEK---------DWFEPKQAL-----DIGCNSGFLTLSIAKDFGP-RRILGVDIDPV 93 (288)
T ss_pred CccchhhcccCCCC--CChhhhhccc---------cccCcceeE-----eccCCcchhHHHHHHhhcc-ceeeEeeccHH
Confidence 34445567766643 3445555522 455544444 4556666665 333333 37999999999
Q ss_pred HHHHHHHhhc
Q psy7376 169 RSKAIVGNFH 178 (180)
Q Consensus 169 Rl~~l~~n~~ 178 (180)
+++..+.+++
T Consensus 94 LI~~Ark~~r 103 (288)
T KOG2899|consen 94 LIQRARKEIR 103 (288)
T ss_pred HHHHHHHhcc
Confidence 9999998875
No 80
>PRK14967 putative methyltransferase; Provisional
Probab=25.39 E-value=74 Score=25.00 Aligned_cols=23 Identities=22% Similarity=0.169 Sum_probs=20.0
Q ss_pred CceEEEEcCChHHHHHHHHhhcc
Q psy7376 157 TGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 157 ~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.++|+++|+++..++..++|+++
T Consensus 59 ~~~v~~vD~s~~~l~~a~~n~~~ 81 (223)
T PRK14967 59 AGSVTAVDISRRAVRSARLNALL 81 (223)
T ss_pred CCeEEEEECCHHHHHHHHHHHHH
Confidence 35999999999999999988764
No 81
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=25.32 E-value=1.1e+02 Score=21.07 Aligned_cols=40 Identities=25% Similarity=0.423 Sum_probs=25.9
Q ss_pred HHHHHHhCCC-CCceEEEcCCCCCHHHHHHHHHHCCCceee
Q psy7376 85 MSFLEASETQ-RPLTIRTNTLKTRRRDLAQALVNRGVNLDP 124 (180)
Q Consensus 85 ~~il~a~~~~-pp~~lRvN~~k~~~~~l~~~L~~~Gi~~~~ 124 (180)
.++++.+... .++.+=-|...-+++++.+.|...|+.+.+
T Consensus 20 ~e~l~~L~~~g~~~~~lTNns~~s~~~~~~~L~~~Gi~~~~ 60 (101)
T PF13344_consen 20 VEALDALRERGKPVVFLTNNSSRSREEYAKKLKKLGIPVDE 60 (101)
T ss_dssp HHHHHHHHHTTSEEEEEES-SSS-HHHHHHHHHHTTTT--G
T ss_pred HHHHHHHHHcCCCEEEEeCCCCCCHHHHHHHHHhcCcCCCc
Confidence 3344444333 567777888888899999999999987643
No 82
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=25.20 E-value=93 Score=26.18 Aligned_cols=28 Identities=18% Similarity=0.146 Sum_probs=22.5
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
++...+.|+|+|+|.++.-++..+++++
T Consensus 38 l~~~~~~g~VigiD~D~~al~~ak~~L~ 65 (296)
T PRK00050 38 LERLGPKGRLIAIDRDPDAIAAAKDRLK 65 (296)
T ss_pred HHhCCCCCEEEEEcCCHHHHHHHHHhhc
Confidence 5555567999999999999988887653
No 83
>PF04614 Pex19: Pex19 protein family; InterPro: IPR006708 Peroxisome(s) form an intracellular compartment, bounded by a typical lipid bilayer membrane. Peroxisome functions are often specialised by organism and cell type; two widely distributed and well-conserved functions are H2O2-based respiration and fatty acid beta-oxidation. Other functions include ether lipid (plasmalogen) synthesis and cholesterol synthesis in animals, the glyoxylate cycle in germinating seeds ("glyoxysomes"), photorespiration in leaves, glycolysis in trypanosomes ("glycosomes"), and methanol and/or amine oxidation and assimilation in some yeasts. PEX genes encode the machinery ("peroxins") required to assemble the peroxisome. Membrane assembly and maintenance requires three of these (peroxins 3, 16, and 19) and may occur without the import of the matrix (lumen) enzymes. Matrix protein import follows a branched pathway of soluble recycling receptors, with one branch for each class of peroxisome targeting sequence (two are well characterised), and a common trunk for all. At least one of these receptors, Pex5p, enters and exits peroxisomes as it functions. Proliferation of the organelle is regulated by Pex11p. Peroxisome biogenesis is remarkably conserved among eukaryotes. A group of fatal, inherited neuropathologies are recognised as peroxisome biogenesis diseases. ; GO: 0005777 peroxisome; PDB: 2WL8_B 2W85_B.
Probab=25.10 E-value=1.6e+02 Score=24.09 Aligned_cols=81 Identities=15% Similarity=0.083 Sum_probs=43.5
Q ss_pred HHhHHHHHHhhhhhccccccchhhhhhHHhhhhhhhhcCcHHH-----------HHHHHHhCCHHHHHHHHHHhCCCCCc
Q psy7376 29 RIKDVLMVLGNFKQYRDPARSRCEYTSLLLKDLCTYFSYNEFL-----------MERIMQIFPLDELMSFLEASETQRPL 97 (180)
Q Consensus 29 ~~~~VNaVLR~~~r~~~~~~~~~~~~~~~~~~lsi~yS~P~Wl-----------v~~~~~~~G~e~~~~il~a~~~~pp~ 97 (180)
..+++.+++..+.... ..-.+.+.+.-+ ||.|| .+|+.++| +-..+||.-+..+++-
T Consensus 124 ~~~~l~~mm~qL~SKe--------vLYePmKel~~k--yP~wL~~n~~~l~~ed~~rY~~Q~--~~v~~I~~~fE~~~~~ 191 (248)
T PF04614_consen 124 FDKMLQGMMQQLLSKE--------VLYEPMKELRDK--YPEWLEENKSKLSAEDYERYEKQY--ELVKEICAIFEKPPYD 191 (248)
T ss_dssp -HHHHHHHHHHHTSHH--------HHHHHHHHHHHH--HHHHHHHHCCCS-HHHHHHHHHHH--HHHHHHHHHHHH--TT
T ss_pred HHHHHHHHHHHhccHh--------hhhhhHHHHHHH--hHHHHHhCcCcCCHHHHHHHHHHH--HHHHHHHHHHcCCCCC
Confidence 4567777777775321 112356666666 49999 56677776 4577889888776653
Q ss_pred eE-EEcCCCCCHHHHHHHHHHCCCcee
Q psy7376 98 TI-RTNTLKTRRRDLAQALVNRGVNLD 123 (180)
Q Consensus 98 ~l-RvN~~k~~~~~l~~~L~~~Gi~~~ 123 (180)
.- +-+. ...-+++..+++.|-...
T Consensus 192 d~~~~~~--~~i~~lmqemQ~~G~PP~ 216 (248)
T PF04614_consen 192 DEDPERR--EKIMELMQEMQELGQPPE 216 (248)
T ss_dssp --HHHHH--HHHHHHHHHHHHT----G
T ss_pred cccHHHH--HHHHHHHHHHHHcCCCcH
Confidence 20 0000 112346778888886543
No 84
>PRK09098 type III secretion system protein HrpB; Validated
Probab=25.01 E-value=3.7e+02 Score=21.68 Aligned_cols=46 Identities=15% Similarity=0.010 Sum_probs=25.4
Q ss_pred CCCCCceEEEcCCCCCHHHHHHH----HHHCCCc----eeecCCCCcceEEEeccC
Q psy7376 92 ETQRPLTIRTNTLKTRRRDLAQA----LVNRGVN----LDPIGKWSKVGLVIYNST 139 (180)
Q Consensus 92 ~~~pp~~lRvN~~k~~~~~l~~~----L~~~Gi~----~~~~~~~~~~~l~l~~~~ 139 (180)
...+.++|||||.. .+.+... +...|.. +.+.+...|.|+++....
T Consensus 148 ~~~~~v~IrV~P~D--~~~v~~~~~~~~~~~g~~~~l~Iv~Dp~L~~GgCviET~~ 201 (233)
T PRK09098 148 DGASYLTVRVHPAD--LDAARAAFGAAAAAGGRNVPVEVVGDPRLAPGACVCEWDF 201 (233)
T ss_pred ccCCcEEEEECHHH--HHHHHHHHHHHHHhcCCCcceEEEeCCCCCCCCeEEEeCC
Confidence 55678999999843 3333332 2234433 333324556777777543
No 85
>PRK06937 type III secretion system protein; Reviewed
Probab=24.81 E-value=1.8e+02 Score=22.76 Aligned_cols=19 Identities=21% Similarity=0.267 Sum_probs=13.4
Q ss_pred HHHHHhCCCCCceEEEcCC
Q psy7376 86 SFLEASETQRPLTIRTNTL 104 (180)
Q Consensus 86 ~il~a~~~~pp~~lRvN~~ 104 (180)
+.+......+.++||||+.
T Consensus 122 ~al~~l~~~~~v~I~V~P~ 140 (204)
T PRK06937 122 EALALVSNQKQVVVRVNPD 140 (204)
T ss_pred HHHHhcccCCeEEEEECHH
Confidence 3445555668899999983
No 86
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=24.60 E-value=78 Score=25.39 Aligned_cols=36 Identities=14% Similarity=0.020 Sum_probs=24.0
Q ss_pred CCCHHHHHHhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 143 GATPEYLGAALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 143 ~~~p~f~~A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+...|+....+......|+++|+|+.-++..+++++
T Consensus 52 GcG~G~~a~~la~~g~~v~~vD~s~~~l~~a~~~~~ 87 (255)
T PRK11036 52 GGGEGQTAIKLAELGHQVILCDLSAEMIQRAKQAAE 87 (255)
T ss_pred CCCchHHHHHHHHcCCEEEEEECCHHHHHHHHHHHH
Confidence 344554432222223589999999999999888764
No 87
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=23.78 E-value=79 Score=26.74 Aligned_cols=29 Identities=17% Similarity=0.074 Sum_probs=23.3
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
|+..-+-+.++|+|+++.=++.-++|+++
T Consensus 179 Aa~kLGA~~v~g~DiDp~AV~aa~eNa~~ 207 (300)
T COG2264 179 AAAKLGAKKVVGVDIDPQAVEAARENARL 207 (300)
T ss_pred HHHHcCCceEEEecCCHHHHHHHHHHHHH
Confidence 33333456999999999999999999875
No 88
>TIGR00406 prmA ribosomal protein L11 methyltransferase. Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.
Probab=23.00 E-value=1.1e+02 Score=25.27 Aligned_cols=23 Identities=9% Similarity=0.008 Sum_probs=20.2
Q ss_pred CceEEEEcCChHHHHHHHHhhcc
Q psy7376 157 TGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 157 ~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.++|+|+|+++..++..++|+++
T Consensus 182 ~~~V~avDid~~al~~a~~n~~~ 204 (288)
T TIGR00406 182 AAKVVGIDIDPLAVESARKNAEL 204 (288)
T ss_pred CCeEEEEECCHHHHHHHHHHHHH
Confidence 46999999999999999998763
No 89
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.50 E-value=1.3e+02 Score=18.51 Aligned_cols=26 Identities=23% Similarity=0.289 Sum_probs=19.9
Q ss_pred CceEEEcCCCCCHHHHHHHHHHCCCcee
Q psy7376 96 PLTIRTNTLKTRRRDLAQALVNRGVNLD 123 (180)
Q Consensus 96 p~~lRvN~~k~~~~~l~~~L~~~Gi~~~ 123 (180)
.+.||+.+ .+.+++.+.|++.|+.+.
T Consensus 44 ~v~i~v~~--~~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 44 ILVFRVQT--MNPRPIIEDLRRAGYEVL 69 (72)
T ss_pred EEEEEEec--CCHHHHHHHHHHCCCeee
Confidence 36788876 456789999999998653
No 90
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=22.25 E-value=60 Score=25.10 Aligned_cols=25 Identities=16% Similarity=0.218 Sum_probs=20.3
Q ss_pred CCceEEEEcCChHHHHHHHHhhccC
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHRL 180 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~RL 180 (180)
+-..|+.+|.+.+-++.+++|++.+
T Consensus 64 GA~~v~fVE~~~~a~~~i~~N~~~l 88 (183)
T PF03602_consen 64 GAKSVVFVEKNRKAIKIIKKNLEKL 88 (183)
T ss_dssp T-SEEEEEES-HHHHHHHHHHHHHH
T ss_pred CCCeEEEEECCHHHHHHHHHHHHHh
Confidence 3459999999999999999999753
No 91
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=22.11 E-value=1e+02 Score=24.65 Aligned_cols=24 Identities=13% Similarity=0.040 Sum_probs=21.0
Q ss_pred CCCceEEEEcCChHHHHHHHHhhc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
.+.++|+++|+|+.-++..+++++
T Consensus 80 ~~~~~v~gvD~S~~ml~~A~~~~~ 103 (247)
T PRK15451 80 HDNCKIIAIDNSPAMIERCRRHID 103 (247)
T ss_pred CCCCeEEEEeCCHHHHHHHHHHHH
Confidence 467899999999999999988875
No 92
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=21.91 E-value=1.1e+02 Score=24.83 Aligned_cols=23 Identities=17% Similarity=0.128 Sum_probs=20.4
Q ss_pred CceEEEEcCChHHHHHHHHhhcc
Q psy7376 157 TGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 157 ~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
..+|+++|+|+.-++..++|+++
T Consensus 110 ~~~v~~vDis~~al~~A~~N~~~ 132 (251)
T TIGR03704 110 GIELHAADIDPAAVRCARRNLAD 132 (251)
T ss_pred CCEEEEEECCHHHHHHHHHHHHH
Confidence 35899999999999999999864
No 93
>PF09133 SANTA: SANTA (SANT Associated); InterPro: IPR015216 The SANTA domain (SANT associated) is approximately 90 amino acids in length and is conserved in eukaryotes. It is sometimes found in association with the SANT domain (IPR001005 from INTERPRO, also known as the Myb-like DNA-binding domain) implying a putative function in regulating chromatin remodelling. Sequence analysis has showed that the SANTA domain is likely to form four central beta-sheets with three flanking alpha-helices. Many conserved hydrophobic residues are present which implies a possible role in protein-protein interactions.
Probab=21.28 E-value=1.4e+02 Score=20.50 Aligned_cols=29 Identities=10% Similarity=0.293 Sum_probs=24.7
Q ss_pred hhhhcCcHHHHHHHHHhCCHHHHHHHHHHh
Q psy7376 62 CTYFSYNEFLMERIMQIFPLDELMSFLEAS 91 (180)
Q Consensus 62 si~yS~P~Wlv~~~~~~~G~e~~~~il~a~ 91 (180)
..+..+|.++++++..-|+ +.+++++..+
T Consensus 64 ~~~nGfp~~v~~~F~~GFP-~~W~~~~~~~ 92 (93)
T PF09133_consen 64 MRENGFPSEVIKKFMNGFP-ENWEEYINEF 92 (93)
T ss_pred HHHcCCCHHHHHHHhcCCC-HHHHHHHHhh
Confidence 5577899999999999998 7788888754
No 94
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=21.08 E-value=91 Score=23.96 Aligned_cols=25 Identities=4% Similarity=0.005 Sum_probs=20.8
Q ss_pred CCCceEEEEcCChHHHHHHHHhhcc
Q psy7376 155 KNTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 155 ~~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
.+.+.++++|++...++..+.++++
T Consensus 38 ~p~~~v~gvD~~~~~l~~a~~~~~~ 62 (194)
T TIGR00091 38 NPDKNFLGIEIHTPIVLAANNKANK 62 (194)
T ss_pred CCCCCEEEEEeeHHHHHHHHHHHHH
Confidence 4678999999999999988877653
No 95
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=21.06 E-value=1e+02 Score=25.05 Aligned_cols=27 Identities=19% Similarity=0.196 Sum_probs=21.6
Q ss_pred HhcCCCCceEEEEcCChHHHHHHHHhhc
Q psy7376 151 AALMKNTGVLFANDVSKERSKAIVGNFH 178 (180)
Q Consensus 151 A~lm~~~G~v~A~Di~~~Rl~~l~~n~~ 178 (180)
+...+ .|+|+++|+|+.-|+.-++.+.
T Consensus 70 ~k~~g-~g~v~~~D~s~~ML~~a~~k~~ 96 (238)
T COG2226 70 AKSVG-TGEVVGLDISESMLEVAREKLK 96 (238)
T ss_pred HHhcC-CceEEEEECCHHHHHHHHHHhh
Confidence 34444 8999999999999998887654
No 96
>PRK05687 fliH flagellar assembly protein H; Validated
Probab=20.67 E-value=3.6e+02 Score=21.56 Aligned_cols=42 Identities=19% Similarity=0.045 Sum_probs=24.6
Q ss_pred CCceEEEcCCCCCHHHHHH----HHHHCCCceeecCCCCcceEEEecc
Q psy7376 95 RPLTIRTNTLKTRRRDLAQ----ALVNRGVNLDPIGKWSKVGLVIYNS 138 (180)
Q Consensus 95 pp~~lRvN~~k~~~~~l~~----~L~~~Gi~~~~~~~~~~~~l~l~~~ 138 (180)
..++||||+. +.+-+.+ .+...|+.+.......+.|++|...
T Consensus 176 ~~v~i~v~P~--D~~~v~~~~~~~~~~~~~~l~~D~~l~~Ggc~iet~ 221 (246)
T PRK05687 176 GKPQLRVNPD--DLELVEQLLGAELSLHGWRLLADPSLHRGGCRISAE 221 (246)
T ss_pred CCceEEECHH--HHHHHHHHHhhHHHhCCeEEEeCCCcCCCCeEEEeC
Confidence 5689999984 3333333 2334566665543455667777654
No 97
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=20.47 E-value=1.9e+02 Score=17.36 Aligned_cols=26 Identities=19% Similarity=0.275 Sum_probs=19.5
Q ss_pred CceEEEcCCCCCHHHHHHHHHHCCCc
Q psy7376 96 PLTIRTNTLKTRRRDLAQALVNRGVN 121 (180)
Q Consensus 96 p~~lRvN~~k~~~~~l~~~L~~~Gi~ 121 (180)
.+++..++..++.+++.+.+++.|++
T Consensus 37 ~v~v~~~~~~~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 37 TVTVTYDPDKTSIEKIIEAIEKAGYE 62 (62)
T ss_dssp EEEEEESTTTSCHHHHHHHHHHTTSE
T ss_pred EEEEEEecCCCCHHHHHHHHHHhCcC
Confidence 45666666667778999999988863
No 98
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=20.20 E-value=1.1e+02 Score=27.10 Aligned_cols=24 Identities=17% Similarity=0.087 Sum_probs=21.5
Q ss_pred CCceEEEEcCChHHHHHHHHhhcc
Q psy7376 156 NTGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 156 ~~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
+.++|+|+|+|+.-++..++|+++
T Consensus 274 p~a~VtAVDiS~~ALe~AreNa~~ 297 (423)
T PRK14966 274 PDAFVRASDISPPALETARKNAAD 297 (423)
T ss_pred CCCEEEEEECCHHHHHHHHHHHHH
Confidence 567999999999999999999865
No 99
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=20.06 E-value=1e+02 Score=26.80 Aligned_cols=23 Identities=26% Similarity=0.397 Sum_probs=20.5
Q ss_pred CceEEEEcCChHHHHHHHHhhcc
Q psy7376 157 TGVLFANDVSKERSKAIVGNFHR 179 (180)
Q Consensus 157 ~G~v~A~Di~~~Rl~~l~~n~~R 179 (180)
-..|+++|+++.-++.+++|++.
T Consensus 69 a~~Vv~nD~n~~Av~~i~~N~~~ 91 (374)
T TIGR00308 69 VREVFANDINPKAVESIKNNVEY 91 (374)
T ss_pred CCEEEEEeCCHHHHHHHHHHHHH
Confidence 35899999999999999999863
Done!