Query 042087
Match_columns 118
No_of_seqs 15 out of 17
Neff 1.6
Searched_HMMs 46136
Date Fri Mar 29 02:44:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042087.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042087hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02672 methionine S-methyltr 99.8 1.4E-19 2.9E-24 165.1 2.6 103 1-114 145-247 (1082)
2 PF13659 Methyltransf_26: Meth 97.0 0.00019 4.1E-09 45.8 0.6 57 1-83 26-83 (117)
3 COG2890 HemK Methylase of poly 96.4 0.0012 2.6E-08 51.9 0.8 51 1-81 137-187 (280)
4 TIGR01244 conserved hypothetic 92.9 0.055 1.2E-06 38.0 1.4 66 5-73 64-130 (135)
5 TIGR00536 hemK_fam HemK family 91.9 0.094 2E-06 40.2 1.6 54 1-82 141-194 (284)
6 PRK01544 bifunctional N5-gluta 91.3 0.13 2.9E-06 43.5 2.1 57 1-85 165-221 (506)
7 PRK11783 rlmL 23S rRNA m(2)G24 90.8 0.11 2.4E-06 45.6 1.2 54 1-79 564-617 (702)
8 PF12847 Methyltransf_18: Meth 90.6 0.079 1.7E-06 33.3 0.1 51 1-78 28-78 (112)
9 PRK09328 N5-glutamine S-adenos 90.0 0.17 3.7E-06 37.0 1.4 53 1-82 135-187 (275)
10 PF05175 MTS: Methyltransferas 89.2 0.15 3.3E-06 36.1 0.6 50 1-79 58-107 (170)
11 TIGR03533 L3_gln_methyl protei 88.6 0.24 5.1E-06 38.6 1.4 51 1-79 148-198 (284)
12 PRK11805 N5-glutamine S-adenos 88.3 0.27 5.9E-06 39.0 1.6 51 1-79 160-210 (307)
13 PRK11783 rlmL 23S rRNA m(2)G24 87.7 0.25 5.4E-06 43.4 1.1 23 1-23 259-281 (702)
14 PF06325 PrmA: Ribosomal prote 86.3 0.28 6E-06 39.7 0.6 25 1-25 187-211 (295)
15 PF02384 N6_Mtase: N-6 DNA Met 86.1 0.36 7.9E-06 36.6 1.1 26 1-26 80-105 (311)
16 TIGR03534 RF_mod_PrmC protein- 86.1 0.65 1.4E-05 33.2 2.3 65 1-94 114-178 (251)
17 PRK15128 23S rRNA m(5)C1962 me 85.6 0.38 8.2E-06 39.9 1.1 50 1-75 246-298 (396)
18 PRK03522 rumB 23S rRNA methylu 85.4 0.47 1E-05 37.0 1.5 48 1-75 198-245 (315)
19 PF02475 Met_10: Met-10+ like- 85.3 0.38 8.3E-06 36.8 0.9 24 1-24 128-151 (200)
20 smart00650 rADc Ribosomal RNA 84.7 0.72 1.6E-05 32.3 2.0 43 51-96 59-101 (169)
21 TIGR02085 meth_trns_rumB 23S r 83.9 0.51 1.1E-05 38.1 1.1 23 1-23 258-280 (374)
22 TIGR00080 pimt protein-L-isoas 82.1 1 2.3E-05 32.8 2.0 19 1-19 105-123 (215)
23 COG4123 Predicted O-methyltran 81.9 0.69 1.5E-05 37.3 1.1 58 1-85 71-129 (248)
24 PF10672 Methyltrans_SAM: S-ad 81.5 0.48 1E-05 38.3 0.1 50 1-75 149-200 (286)
25 PRK04338 N(2),N(2)-dimethylgua 80.0 0.99 2.1E-05 37.3 1.4 24 1-24 84-107 (382)
26 PRK14967 putative methyltransf 79.5 1.1 2.5E-05 32.8 1.5 22 1-22 62-83 (223)
27 COG2264 PrmA Ribosomal protein 79.1 0.74 1.6E-05 38.1 0.4 25 1-25 188-212 (300)
28 PRK10909 rsmD 16S rRNA m(2)G96 78.4 1.2 2.5E-05 33.7 1.3 48 1-75 79-126 (199)
29 PF13847 Methyltransf_31: Meth 77.6 1.8 3.9E-05 29.4 1.9 49 1-77 31-80 (152)
30 PRK05031 tRNA (uracil-5-)-meth 77.4 0.98 2.1E-05 36.5 0.7 23 1-23 231-253 (362)
31 TIGR00537 hemK_rel_arch HemK-r 77.4 1.2 2.6E-05 31.2 1.1 22 1-22 44-65 (179)
32 smart00138 MeTrc Methyltransfe 76.4 0.72 1.5E-05 35.6 -0.3 70 1-76 135-209 (264)
33 PRK03612 spermidine synthase; 76.0 1.8 3.9E-05 36.8 1.9 59 1-80 324-383 (521)
34 COG1092 Predicted SAM-dependen 74.3 1.5 3.1E-05 37.4 0.9 50 1-75 243-295 (393)
35 TIGR02469 CbiT precorrin-6Y C5 74.0 1.8 4E-05 27.1 1.1 20 1-20 46-65 (124)
36 PRK13168 rumA 23S rRNA m(5)U19 73.1 2.1 4.6E-05 35.1 1.6 23 1-23 322-344 (443)
37 PRK11727 23S rRNA mA1618 methy 73.1 2.2 4.8E-05 35.0 1.7 23 1-23 141-164 (321)
38 COG2263 Predicted RNA methylas 71.7 1.2 2.7E-05 35.6 -0.1 38 1-66 71-108 (198)
39 TIGR03704 PrmC_rel_meth putati 71.6 1.9 4.1E-05 33.1 0.9 21 1-21 113-133 (251)
40 TIGR00479 rumA 23S rRNA (uraci 69.9 2.1 4.5E-05 34.6 0.8 23 1-23 317-339 (431)
41 PRK14966 unknown domain/N5-glu 69.6 3.1 6.7E-05 36.0 1.9 54 1-82 278-331 (423)
42 PRK15001 SAM-dependent 23S rib 69.1 2.4 5.2E-05 35.5 1.1 51 1-77 255-305 (378)
43 COG2520 Predicted methyltransf 68.4 1.6 3.4E-05 36.7 -0.1 26 1-26 214-239 (341)
44 TIGR00308 TRM1 tRNA(guanine-26 64.0 3.9 8.5E-05 34.0 1.4 23 1-23 72-94 (374)
45 PRK00377 cbiT cobalt-precorrin 63.3 4 8.7E-05 29.4 1.2 22 1-22 68-89 (198)
46 TIGR02143 trmA_only tRNA (urac 62.5 3.6 7.9E-05 33.2 0.9 23 1-23 222-244 (353)
47 PF01170 UPF0020: Putative RNA 59.9 2.4 5.1E-05 31.0 -0.5 19 1-19 64-82 (179)
48 PF09445 Methyltransf_15: RNA 59.3 3.9 8.5E-05 30.9 0.6 53 1-79 24-78 (163)
49 TIGR02021 BchM-ChlM magnesium 56.6 7 0.00015 28.2 1.5 18 1-18 80-97 (219)
50 PLN02781 Probable caffeoyl-CoA 55.8 5.2 0.00011 30.3 0.7 23 1-23 96-118 (234)
51 PTZ00338 dimethyladenosine tra 54.3 6.8 0.00015 31.3 1.2 62 1-93 61-122 (294)
52 PRK09489 rsmC 16S ribosomal RN 54.2 11 0.00024 30.7 2.4 23 1-23 223-245 (342)
53 PRK11873 arsM arsenite S-adeno 53.7 13 0.00028 27.7 2.5 18 1-18 105-122 (272)
54 PRK13255 thiopurine S-methyltr 53.4 4.5 9.7E-05 30.7 0.0 13 1-13 62-74 (218)
55 PRK04457 spermidine synthase; 53.0 5.5 0.00012 30.8 0.5 18 1-18 93-110 (262)
56 PF02005 TRM: N2,N2-dimethylgu 51.7 6.1 0.00013 32.9 0.6 25 1-25 77-101 (377)
57 TIGR00406 prmA ribosomal prote 51.4 5.3 0.00011 30.9 0.2 24 1-24 185-208 (288)
58 COG2813 RsmC 16S RNA G1207 met 50.5 6.5 0.00014 32.9 0.6 44 2-75 186-229 (300)
59 TIGR00138 gidB 16S rRNA methyl 49.5 11 0.00023 27.6 1.5 18 1-18 69-86 (181)
60 PRK00517 prmA ribosomal protei 49.3 5.8 0.00013 29.8 0.1 23 1-23 145-167 (250)
61 PLN03075 nicotianamine synthas 48.0 8.4 0.00018 31.7 0.8 49 1-75 152-200 (296)
62 PRK13944 protein-L-isoaspartat 47.8 9.5 0.00021 27.9 1.0 20 1-20 100-119 (205)
63 PF05958 tRNA_U5-meth_tr: tRNA 47.3 5.7 0.00012 32.1 -0.2 24 1-24 221-244 (352)
64 PHA03411 putative methyltransf 45.0 7.7 0.00017 32.0 0.2 48 1-82 91-138 (279)
65 PRK14968 putative methyltransf 44.3 14 0.00029 25.1 1.3 23 1-23 48-70 (188)
66 PRK00121 trmB tRNA (guanine-N( 44.2 18 0.00038 26.5 1.9 22 1-22 67-88 (202)
67 COG0286 HsdM Type I restrictio 44.0 8.6 0.00019 32.7 0.3 25 1-25 217-241 (489)
68 PF01739 CheR: CheR methyltran 43.3 5.5 0.00012 30.2 -0.8 88 1-93 67-158 (196)
69 smart00195 DSPc Dual specifici 43.3 20 0.00042 23.8 1.9 27 13-39 64-90 (138)
70 PLN02336 phosphoethanolamine N 42.7 21 0.00046 28.9 2.4 18 1-18 292-309 (475)
71 PRK01581 speE spermidine synth 41.5 23 0.00049 30.5 2.4 59 1-79 177-235 (374)
72 PF08242 Methyltransf_12: Meth 40.5 7.7 0.00017 24.2 -0.4 14 1-14 23-36 (99)
73 PRK10611 chemotaxis methyltran 39.8 12 0.00026 30.3 0.5 28 49-76 202-229 (287)
74 cd01990 Alpha_ANH_like_I This 38.7 26 0.00055 25.0 2.0 61 55-116 132-195 (202)
75 TIGR01177 conserved hypothetic 38.6 12 0.00026 29.4 0.3 23 1-23 207-229 (329)
76 PF14489 QueF: QueF-like prote 37.9 6.3 0.00014 27.2 -1.1 38 33-72 15-59 (80)
77 PF04273 DUF442: Putative phos 37.9 14 0.00031 25.9 0.6 38 9-49 68-105 (110)
78 PF05724 TPMT: Thiopurine S-me 37.6 6 0.00013 30.2 -1.4 60 1-77 62-123 (218)
79 smart00224 GGL G protein gamma 36.2 22 0.00047 22.9 1.2 27 57-84 26-52 (63)
80 PF13649 Methyltransf_25: Meth 35.6 6.8 0.00015 24.8 -1.2 24 52-76 50-73 (101)
81 PRK00107 gidB 16S rRNA methylt 35.1 23 0.0005 26.4 1.4 18 1-18 72-89 (187)
82 PF00123 Hormone_2: Peptide ho 34.6 29 0.00064 20.0 1.5 21 87-107 8-28 (28)
83 COG0116 Predicted N6-adenine-s 33.1 17 0.00037 31.4 0.4 48 2-76 258-305 (381)
84 PF09456 RcsC: RcsC Alpha-Beta 33.0 24 0.00052 25.0 1.1 23 95-117 8-30 (92)
85 KOG2926 Malonyl-CoA:ACP transa 32.7 17 0.00036 32.1 0.3 59 57-117 100-159 (386)
86 PRK00811 spermidine synthase; 31.9 62 0.0013 25.3 3.3 57 1-79 103-159 (283)
87 cd07356 HN_L-whirlin_R1_like F 31.5 28 0.00061 24.8 1.3 25 86-110 9-33 (78)
88 PF07029 CryBP1: CryBP1 protei 30.9 19 0.00042 28.2 0.4 16 70-85 67-82 (161)
89 TIGR03587 Pse_Me-ase pseudamin 30.9 12 0.00025 27.9 -0.8 16 1-16 70-85 (204)
90 PF02959 Tax: HTLV Tax; Inter 29.9 17 0.00038 29.9 0.0 38 48-85 31-72 (222)
91 KOG3420 Predicted RNA methylas 29.6 16 0.00035 29.5 -0.2 18 1-18 74-91 (185)
92 TIGR00140 hupD hydrogenase exp 28.7 35 0.00076 23.3 1.3 41 54-94 74-116 (134)
93 TIGR00434 cysH phosophoadenyly 28.7 25 0.00055 25.7 0.7 29 54-82 152-187 (212)
94 PF04424 DUF544: Protein of un 28.4 18 0.00039 25.7 -0.2 10 2-11 59-68 (121)
95 PRK10466 hybD hydrogenase 2 ma 28.4 34 0.00073 24.8 1.3 41 54-95 94-136 (164)
96 PRK08287 cobalt-precorrin-6Y C 28.2 18 0.00038 25.5 -0.2 21 1-21 58-78 (187)
97 COG4359 Uncharacterized conser 27.7 19 0.00041 29.7 -0.1 23 49-71 176-198 (220)
98 PF01171 ATP_bind_3: PP-loop f 27.6 24 0.00052 25.1 0.4 19 53-71 145-163 (182)
99 KOG2730 Methylase [General fun 26.7 19 0.00042 30.3 -0.3 40 1-66 119-158 (263)
100 TIGR00417 speE spermidine synt 26.6 67 0.0014 24.6 2.7 29 51-79 126-154 (270)
101 PF12096 DUF3572: Protein of u 26.2 8.7 0.00019 27.2 -2.0 33 43-75 45-77 (88)
102 PF00782 DSPc: Dual specificit 25.9 47 0.001 21.7 1.5 27 13-39 59-85 (133)
103 PRK02090 phosphoadenosine phos 25.9 31 0.00068 26.2 0.7 34 54-87 177-217 (241)
104 PRK09590 celB cellobiose phosp 25.8 38 0.00082 23.7 1.1 45 49-96 56-103 (104)
105 TIGR00095 RNA methyltransferas 25.7 26 0.00057 25.8 0.3 23 1-23 75-97 (189)
106 PRK13943 protein-L-isoaspartat 24.8 38 0.00083 27.6 1.1 23 1-23 108-130 (322)
107 cd06068 H2MP_like-1 Putative [ 24.4 46 0.00099 23.4 1.3 38 56-94 91-130 (144)
108 PF09236 AHSP: Alpha-haemoglob 24.3 38 0.00083 24.6 0.9 11 13-23 38-48 (89)
109 PF04762 IKI3: IKI3 family; I 24.3 40 0.00086 31.4 1.3 70 6-107 691-761 (928)
110 PRK06202 hypothetical protein; 24.2 21 0.00046 26.0 -0.4 17 1-17 91-107 (232)
111 KOG2078 tRNA modification enzy 24.2 24 0.00053 32.0 -0.1 37 1-39 274-310 (495)
112 smart00070 GLUCA Glucagon like 24.2 61 0.0013 18.6 1.6 19 87-105 8-26 (27)
113 PRK11088 rrmA 23S rRNA methylt 24.2 20 0.00044 27.1 -0.5 15 1-15 115-129 (272)
114 PF01507 PAPS_reduct: Phosphoa 24.1 20 0.00044 24.0 -0.5 26 54-79 138-170 (174)
115 PRK02318 mannitol-1-phosphate 23.7 50 0.0011 26.7 1.6 29 83-114 338-366 (381)
116 PRK13747 putative mercury resi 23.6 23 0.00051 25.2 -0.3 11 41-51 14-24 (78)
117 PRK13942 protein-L-isoaspartat 23.4 42 0.00091 24.8 1.0 18 1-18 104-121 (212)
118 PF07872 DUF1659: Protein of u 23.1 24 0.00052 21.6 -0.3 14 19-32 12-25 (47)
119 PF03472 Autoind_bind: Autoind 22.9 50 0.0011 21.2 1.2 53 14-70 45-100 (149)
120 cd01321 ADGF Adenosine deamina 22.3 51 0.0011 26.8 1.4 72 1-73 163-251 (345)
121 TIGR01464 hemE uroporphyrinoge 22.3 84 0.0018 24.6 2.5 72 20-93 224-299 (338)
122 PF08235 LNS2: LNS2 (Lipin/Ned 22.0 78 0.0017 24.0 2.2 51 5-75 96-146 (157)
123 TIGR00477 tehB tellurite resis 22.0 22 0.00048 25.7 -0.7 15 1-15 55-69 (195)
124 PF05379 Peptidase_C23: Carlav 21.7 62 0.0013 22.3 1.5 41 73-113 5-45 (89)
125 PF13919 ASXH: Asx homology do 21.7 80 0.0017 23.3 2.2 49 58-117 53-104 (138)
126 PF12444 Sox_N: Sox developmen 21.6 36 0.00077 23.9 0.3 12 39-50 67-78 (84)
127 PRK07402 precorrin-6B methylas 21.4 29 0.00063 24.7 -0.1 22 1-22 67-88 (196)
128 PHA03412 putative methyltransf 21.4 24 0.00053 28.6 -0.6 47 1-81 79-125 (241)
129 TIGR02055 APS_reductase thiore 21.3 39 0.00084 25.0 0.5 29 54-82 131-166 (191)
130 TIGR03840 TMPT_Se_Te thiopurin 20.7 23 0.0005 26.7 -0.9 12 1-12 59-70 (213)
131 COG1867 TRM1 N2,N2-dimethylgua 20.4 66 0.0014 28.2 1.7 21 1-21 79-99 (380)
132 PF15088 NADH_dh_m_C1: NADH de 20.1 24 0.00052 23.4 -0.7 30 39-70 20-49 (49)
133 PF03721 UDPG_MGDP_dh_N: UDP-g 20.0 28 0.00062 25.7 -0.5 15 71-85 77-91 (185)
No 1
>PLN02672 methionine S-methyltransferase
Probab=99.76 E-value=1.4e-19 Score=165.13 Aligned_cols=103 Identities=63% Similarity=1.032 Sum_probs=97.4
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||||.|++++|.|+++|+++++|.+.++ .++|+ +.+||+|.++|+++.+++.++++|.||+|.|+
T Consensus 145 v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~--~~~~~---------l~~rV~f~~sDl~~~~~~~~~~fDlIVSNPPY 213 (1082)
T PLN02672 145 VYGLDINPRAVKVAWINLYLNALDDDGLPVYD--GEGKT---------LLDRVEFYESDLLGYCRDNNIELDRIVGCIPQ 213 (1082)
T ss_pred EEEEECCHHHHHHHHHHHHHcCcccccccccc--ccccc---------ccccEEEEECchhhhccccCCceEEEEECCCc
Confidence 68999999999999999999999999999999 57778 88999999999999998777899999999999
Q ss_pred ccCCChhHHHHHhhhcccHHHHHhhhcccccccc
Q 042087 81 VLNPNSNAMSKIITENASEEFLYSLSNYCGLQVG 114 (118)
Q Consensus 81 vLnpnp~amsk~itenAsEefLysLSNYc~lQ~~ 114 (118)
|.++++++|++.++|+.++||||+|+||||||-|
T Consensus 214 I~~~e~~~l~~eV~~~ep~~~~~~~~p~~AL~g~ 247 (1082)
T PLN02672 214 ILNPNPEAMSKLVTENASEEFLYSLSNYCALQGF 247 (1082)
T ss_pred CCCcchhhcChhhhhccccccccccCccccccCC
Confidence 9999999999999999999999999999999863
No 2
>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=97.05 E-value=0.00019 Score=45.78 Aligned_cols=57 Identities=30% Similarity=0.315 Sum_probs=43.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhc-cCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCR-HHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr-~~~i~ld~IVGCiP 79 (118)
|+|+||||.++.++.-|+-.+++ .+|++|...|+..... -.+-+.|.|++.-|
T Consensus 26 ~~gvdi~~~~~~~a~~~~~~~~~--------------------------~~~~~~~~~D~~~~~~~~~~~~~D~Iv~npP 79 (117)
T PF13659_consen 26 VTGVDIDPEAVELARRNLPRNGL--------------------------DDRVEVIVGDARDLPEPLPDGKFDLIVTNPP 79 (117)
T ss_dssp EEEEESSHHHHHHHHHHCHHCTT--------------------------TTTEEEEESHHHHHHHTCTTT-EEEEEE--S
T ss_pred EEEEEECHHHHHHHHHHHHHccC--------------------------CceEEEEECchhhchhhccCceeEEEEECCC
Confidence 57999999999999988877665 4678999999988762 24578999999999
Q ss_pred cccC
Q 042087 80 QVLN 83 (118)
Q Consensus 80 QvLn 83 (118)
=+-.
T Consensus 80 ~~~~ 83 (117)
T PF13659_consen 80 YGPR 83 (117)
T ss_dssp TTSB
T ss_pred Cccc
Confidence 8743
No 3
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=96.37 E-value=0.0012 Score=51.85 Aligned_cols=51 Identities=31% Similarity=0.387 Sum_probs=39.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|.||||+|+++|+.|+=.|++ .|+.|..+||+.-.+. +.|.||.==|=
T Consensus 137 V~a~Dis~~Al~~A~~Na~~~~l---------------------------~~~~~~~~dlf~~~~~---~fDlIVsNPPY 186 (280)
T COG2890 137 VIAVDISPDALALARENAERNGL---------------------------VRVLVVQSDLFEPLRG---KFDLIVSNPPY 186 (280)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC---------------------------ccEEEEeeecccccCC---ceeEEEeCCCC
Confidence 68999999999999999988876 2444555688887765 88888865444
Q ss_pred c
Q 042087 81 V 81 (118)
Q Consensus 81 v 81 (118)
|
T Consensus 187 i 187 (280)
T COG2890 187 I 187 (280)
T ss_pred C
Confidence 3
No 4
>TIGR01244 conserved hypothetical protein TIGR01244. No member of this family is characterized. The member from Xylella fastidiosa is a longer protein with an N-terminal region described by this model, followed by a metallo-beta-lactamase family domain and an additional C-terminal region. Members scoring above the trusted cutoff are limited to the proteobacteria.
Probab=92.90 E-value=0.055 Score=37.98 Aligned_cols=66 Identities=11% Similarity=0.266 Sum_probs=48.7
Q ss_pred CCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccc-eeeecchhhhhhhhccCCcccce
Q 042087 5 DINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYE-RRVEFDESDLLAYCRHHDIQLEG 73 (118)
Q Consensus 5 DiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~-~RveF~eSDLL~ycr~~~i~ld~ 73 (118)
.+.++.+.-.=+..+..++++.-.||+=||..|+. -|-+|.|. ...--...+.++.+|+.|..++.
T Consensus 64 Pv~~~~~~~~~v~~f~~~~~~~~~pvL~HC~sG~R---t~~l~al~~~~~g~~~~~i~~~~~~~G~~~~~ 130 (135)
T TIGR01244 64 PVTAGDITPDDVETFRAAIGAAEGPVLAYCRSGTR---SSLLWGFRQAAEGVPVEEIVRRAQAAGYDLSN 130 (135)
T ss_pred ecCCCCCCHHHHHHHHHHHHhCCCCEEEEcCCChH---HHHHHHHHHHHcCCCHHHHHHHHHHcCCCccc
Confidence 34455554445677777777666899999999984 67777642 33447889999999999999983
No 5
>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=91.90 E-value=0.094 Score=40.24 Aligned_cols=54 Identities=31% Similarity=0.401 Sum_probs=39.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||+|.|++++.-|+=.|++ -+|++|..+|++....+. ++|.||.--|-
T Consensus 141 v~avDis~~al~~a~~n~~~~~~--------------------------~~~v~~~~~d~~~~~~~~--~fDlIvsNPPy 192 (284)
T TIGR00536 141 VIAVDISPDALAVAEENAEKNQL--------------------------EHRVEFIQSNLFEPLAGQ--KIDIIVSNPPY 192 (284)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC--------------------------CCcEEEEECchhccCcCC--CccEEEECCCC
Confidence 57999999999999988654432 246888888887654322 68999987665
Q ss_pred cc
Q 042087 81 VL 82 (118)
Q Consensus 81 vL 82 (118)
+-
T Consensus 193 i~ 194 (284)
T TIGR00536 193 ID 194 (284)
T ss_pred CC
Confidence 53
No 6
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=91.27 E-value=0.13 Score=43.53 Aligned_cols=57 Identities=18% Similarity=0.201 Sum_probs=42.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||||.|++++.-|+-.|. +.+||+|..+|++.... +-+.|.||..-|=
T Consensus 165 v~avDis~~al~~A~~N~~~~~--------------------------l~~~v~~~~~D~~~~~~--~~~fDlIvsNPPY 216 (506)
T PRK01544 165 VIATDISLDAIEVAKSNAIKYE--------------------------VTDRIQIIHSNWFENIE--KQKFDFIVSNPPY 216 (506)
T ss_pred EEEEECCHHHHHHHHHHHHHcC--------------------------CccceeeeecchhhhCc--CCCccEEEECCCC
Confidence 5799999999999998864443 34578888888876553 2368999988776
Q ss_pred ccCCC
Q 042087 81 VLNPN 85 (118)
Q Consensus 81 vLnpn 85 (118)
+-..+
T Consensus 217 i~~~~ 221 (506)
T PRK01544 217 ISHSE 221 (506)
T ss_pred CCchh
Confidence 65443
No 7
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=90.84 E-value=0.11 Score=45.57 Aligned_cols=54 Identities=20% Similarity=0.220 Sum_probs=42.3
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|.++|++|.|++++--|+=+|+++ .+|++|...|.+.+.+..+-+.|.||==-|
T Consensus 564 V~~vD~s~~al~~a~~N~~~ng~~-------------------------~~~v~~i~~D~~~~l~~~~~~fDlIilDPP 617 (702)
T PRK11783 564 TTTVDMSNTYLEWAERNFALNGLS-------------------------GRQHRLIQADCLAWLKEAREQFDLIFIDPP 617 (702)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCCC-------------------------ccceEEEEccHHHHHHHcCCCcCEEEECCC
Confidence 678999999999999999999872 147888888888777554567888874333
No 8
>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=90.65 E-value=0.079 Score=33.31 Aligned_cols=51 Identities=18% Similarity=0.296 Sum_probs=37.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCR 78 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCi 78 (118)
|+|+|++|..+.++.-|+-- .. ..+||+|...|+ ..-.+..-+.|.|+-.-
T Consensus 28 v~gvD~s~~~~~~a~~~~~~-----------------~~---------~~~~i~~~~~d~-~~~~~~~~~~D~v~~~~ 78 (112)
T PF12847_consen 28 VVGVDISPEMLEIARERAAE-----------------EG---------LSDRITFVQGDA-EFDPDFLEPFDLVICSG 78 (112)
T ss_dssp EEEEESSHHHHHHHHHHHHH-----------------TT---------TTTTEEEEESCC-HGGTTTSSCEEEEEECS
T ss_pred EEEEeCCHHHHHHHHHHHHh-----------------cC---------CCCCeEEEECcc-ccCcccCCCCCEEEECC
Confidence 57999999999999877611 12 567899999999 55545555688776544
No 9
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=89.96 E-value=0.17 Score=37.04 Aligned_cols=53 Identities=25% Similarity=0.320 Sum_probs=37.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||+|.+++++.-|+= +. ..++++|..+|++.... +-+.|.|+..-|-
T Consensus 135 v~~iDis~~~l~~a~~n~~-~~--------------------------~~~~i~~~~~d~~~~~~--~~~fD~Iv~npPy 185 (275)
T PRK09328 135 VTAVDISPEALAVARRNAK-HG--------------------------LGARVEFLQGDWFEPLP--GGRFDLIVSNPPY 185 (275)
T ss_pred EEEEECCHHHHHHHHHHHH-hC--------------------------CCCcEEEEEccccCcCC--CCceeEEEECCCc
Confidence 5789999999999988753 10 23567888888866542 3478999987665
Q ss_pred cc
Q 042087 81 VL 82 (118)
Q Consensus 81 vL 82 (118)
+-
T Consensus 186 ~~ 187 (275)
T PRK09328 186 IP 187 (275)
T ss_pred CC
Confidence 43
No 10
>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=89.24 E-value=0.15 Score=36.13 Aligned_cols=50 Identities=34% Similarity=0.405 Sum_probs=37.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|+++||||+|++.+.-|+=.|.++ + +++..+|++.... +-+.|.|+.=.|
T Consensus 58 v~~vDi~~~a~~~a~~n~~~n~~~--------------------------~-v~~~~~d~~~~~~--~~~fD~Iv~NPP 107 (170)
T PF05175_consen 58 VTAVDINPDALELAKRNAERNGLE--------------------------N-VEVVQSDLFEALP--DGKFDLIVSNPP 107 (170)
T ss_dssp EEEEESBHHHHHHHHHHHHHTTCT--------------------------T-EEEEESSTTTTCC--TTCEEEEEE---
T ss_pred EEEEcCCHHHHHHHHHHHHhcCcc--------------------------c-ccccccccccccc--ccceeEEEEccc
Confidence 578999999999999998877662 2 6677788887664 678899997766
No 11
>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=88.62 E-value=0.24 Score=38.60 Aligned_cols=51 Identities=33% Similarity=0.426 Sum_probs=37.7
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|+|+||||.|++++.-|+-.|++ .+||+|..+|+..... +-..|.|+.--|
T Consensus 148 v~avDis~~al~~A~~n~~~~~~--------------------------~~~i~~~~~D~~~~~~--~~~fD~Iv~NPP 198 (284)
T TIGR03533 148 VDAVDISPDALAVAEINIERHGL--------------------------EDRVTLIQSDLFAALP--GRKYDLIVSNPP 198 (284)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC--------------------------CCcEEEEECchhhccC--CCCccEEEECCC
Confidence 57999999999999988765543 3578888888876553 225788886544
No 12
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=88.35 E-value=0.27 Score=38.98 Aligned_cols=51 Identities=35% Similarity=0.429 Sum_probs=37.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|+|+||||.|++++.-|+-.|++ .+||+|..+|++....+ -..|.||.--|
T Consensus 160 V~avDis~~al~~A~~n~~~~~l--------------------------~~~i~~~~~D~~~~l~~--~~fDlIvsNPP 210 (307)
T PRK11805 160 VDAVDISPDALAVAEINIERHGL--------------------------EDRVTLIESDLFAALPG--RRYDLIVSNPP 210 (307)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCC--------------------------CCcEEEEECchhhhCCC--CCccEEEECCC
Confidence 67999999999999999765543 35778888888765532 25788886433
No 13
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=87.70 E-value=0.25 Score=43.35 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=20.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|.||||+|+.++.-|+..+++
T Consensus 259 i~G~Did~~av~~A~~N~~~~g~ 281 (702)
T PRK11783 259 FYGSDIDPRVIQAARKNARRAGV 281 (702)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 58999999999999999998765
No 14
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=86.34 E-value=0.28 Score=39.68 Aligned_cols=25 Identities=28% Similarity=0.464 Sum_probs=22.4
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHE 25 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~ 25 (118)
|+|.||+|.||+.+.-|+=+|++++
T Consensus 187 v~a~DiDp~Av~~a~~N~~~N~~~~ 211 (295)
T PF06325_consen 187 VVAIDIDPLAVEAARENAELNGVED 211 (295)
T ss_dssp EEEEESSCHHHHHHHHHHHHTT-TT
T ss_pred EEEecCCHHHHHHHHHHHHHcCCCe
Confidence 6899999999999999999999965
No 15
>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2.1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.
Probab=86.07 E-value=0.36 Score=36.58 Aligned_cols=26 Identities=31% Similarity=0.799 Sum_probs=21.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHES 26 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~ 26 (118)
+||.||||.+++++-+|++|++.+.+
T Consensus 80 i~G~ei~~~~~~la~~nl~l~~~~~~ 105 (311)
T PF02384_consen 80 IYGIEIDPEAVALAKLNLLLHGIDNS 105 (311)
T ss_dssp EEEEES-HHHHHHHHHHHHHTTHHCB
T ss_pred eEeecCcHHHHHHHHhhhhhhccccc
Confidence 48999999999999999999877544
No 16
>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.
Probab=86.06 E-value=0.65 Score=33.22 Aligned_cols=65 Identities=20% Similarity=0.246 Sum_probs=42.5
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+|++|++++.+--|+=.+++ ++++|...|.+... .+-..|.|+..-|=
T Consensus 114 v~~iD~~~~~~~~a~~~~~~~~~---------------------------~~~~~~~~d~~~~~--~~~~fD~Vi~npPy 164 (251)
T TIGR03534 114 VTAVDISPEALAVARKNAARLGL---------------------------DNVTFLQSDWFEPL--PGGKFDLIVSNPPY 164 (251)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC---------------------------CeEEEEECchhccC--cCCceeEEEECCCC
Confidence 57899999999988766433221 35677777776633 23468999988776
Q ss_pred ccCCChhHHHHHhh
Q 042087 81 VLNPNSNAMSKIIT 94 (118)
Q Consensus 81 vLnpnp~amsk~it 94 (118)
+..+.+..|.+-+.
T Consensus 165 ~~~~~~~~~~~~~~ 178 (251)
T TIGR03534 165 IPEADIHLLDPEVR 178 (251)
T ss_pred CchhhhhhcChhhh
Confidence 66555555544443
No 17
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=85.58 E-value=0.38 Score=39.94 Aligned_cols=50 Identities=26% Similarity=0.377 Sum_probs=39.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhcc---CCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRH---HDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~---~~i~ld~IV 75 (118)
|+++|+||+|++++-=|+=+|+++ .++++|...|...+.++ .+-+.|.|+
T Consensus 246 V~~VD~s~~al~~a~~N~~~Ngl~-------------------------~~~v~~i~~D~~~~l~~~~~~~~~fDlVi 298 (396)
T PRK15128 246 VVSVDTSQEALDIARQNVELNKLD-------------------------LSKAEFVRDDVFKLLRTYRDRGEKFDVIV 298 (396)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCC-------------------------CCcEEEEEccHHHHHHHHHhcCCCCCEEE
Confidence 578999999999999999999873 14677777777776643 355789887
No 18
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=85.42 E-value=0.47 Score=37.03 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=32.3
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
|+|+|+||.|++.+--|+=.|++ ++++|...|+..+....+-+.|.|+
T Consensus 198 V~gvD~s~~av~~A~~n~~~~~l---------------------------~~v~~~~~D~~~~~~~~~~~~D~Vv 245 (315)
T PRK03522 198 LTGIEISAEAIACAKQSAAELGL---------------------------TNVQFQALDSTQFATAQGEVPDLVL 245 (315)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCC---------------------------CceEEEEcCHHHHHHhcCCCCeEEE
Confidence 67999999999999877644433 3567777777665432222467665
No 19
>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=85.31 E-value=0.38 Score=36.82 Aligned_cols=24 Identities=33% Similarity=0.573 Sum_probs=20.4
Q ss_pred CcccCCCCcchhhhHHHHHHhhhc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALH 24 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~ 24 (118)
||+.|+||.|++.---|+-||.++
T Consensus 128 V~A~d~Np~a~~~L~~Ni~lNkv~ 151 (200)
T PF02475_consen 128 VYAVDLNPDAVEYLKENIRLNKVE 151 (200)
T ss_dssp EEEEES-HHHHHHHHHHHHHTT-T
T ss_pred EEEecCCHHHHHHHHHHHHHcCCC
Confidence 688999999999999999999874
No 20
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=84.68 E-value=0.72 Score=32.30 Aligned_cols=43 Identities=19% Similarity=0.250 Sum_probs=29.4
Q ss_pred eeeecchhhhhhhhccCCcccceeeeccccccCCChhHHHHHhhhc
Q 042087 51 RRVEFDESDLLAYCRHHDIQLEGIVGCRPQVLNPNSNAMSKIITEN 96 (118)
Q Consensus 51 ~RveF~eSDLL~ycr~~~i~ld~IVGCiPQvLnpnp~amsk~iten 96 (118)
+++++...|.+.+-.+ +.+.|.|+|+.|--+ .++.+.+++.+.
T Consensus 59 ~~v~ii~~D~~~~~~~-~~~~d~vi~n~Py~~--~~~~i~~~l~~~ 101 (169)
T smart00650 59 DNLTVIHGDALKFDLP-KLQPYKVVGNLPYNI--STPILFKLLEEP 101 (169)
T ss_pred CCEEEEECchhcCCcc-ccCCCEEEECCCccc--HHHHHHHHHhcC
Confidence 4677888888876432 235799999999533 456677776543
No 21
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=83.91 E-value=0.51 Score=38.13 Aligned_cols=23 Identities=22% Similarity=0.300 Sum_probs=19.7
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|+||.|++.+--|+=.|++
T Consensus 258 v~~vE~~~~av~~a~~N~~~~~~ 280 (374)
T TIGR02085 258 LTGIEIESEAIACAQQSAQMLGL 280 (374)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 67999999999999988866654
No 22
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=82.07 E-value=1 Score=32.77 Aligned_cols=19 Identities=16% Similarity=0.132 Sum_probs=15.6
Q ss_pred CcccCCCCcchhhhHHHHH
Q 042087 1 VYGLDINPRAIKISWIKLY 19 (118)
Q Consensus 1 VyGlDiNPrAikiswinly 19 (118)
|+|+|++|..++.+.-|+-
T Consensus 105 V~~vD~~~~~~~~A~~~~~ 123 (215)
T TIGR00080 105 VVSIERIPELAEKAERRLR 123 (215)
T ss_pred EEEEeCCHHHHHHHHHHHH
Confidence 6789999999988887753
No 23
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=81.85 E-value=0.69 Score=37.28 Aligned_cols=58 Identities=22% Similarity=0.469 Sum_probs=47.7
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcc-cceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQ-LEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~-ld~IVGCiP 79 (118)
|.|++|.+++++.|--|+=+|.+ .+|++|.+.|+..+.+..... .|.|| |=|
T Consensus 71 I~~VEiq~~~a~~A~~nv~ln~l--------------------------~~ri~v~~~Di~~~~~~~~~~~fD~Ii-~NP 123 (248)
T COG4123 71 IVGVEIQEEAAEMAQRNVALNPL--------------------------EERIQVIEADIKEFLKALVFASFDLII-CNP 123 (248)
T ss_pred EEEEEeCHHHHHHHHHHHHhCcc--------------------------hhceeEehhhHHHhhhcccccccCEEE-eCC
Confidence 46899999999999999988775 579999999999999988888 77777 656
Q ss_pred cccCCC
Q 042087 80 QVLNPN 85 (118)
Q Consensus 80 QvLnpn 85 (118)
--..++
T Consensus 124 Pyf~~~ 129 (248)
T COG4123 124 PYFKQG 129 (248)
T ss_pred CCCCCc
Confidence 544443
No 24
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=81.46 E-value=0.48 Score=38.33 Aligned_cols=50 Identities=22% Similarity=0.317 Sum_probs=34.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhcc--CCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRH--HDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~--~~i~ld~IV 75 (118)
|..+|++.+|+..+-=|+-||+++ .++++|-..|.+.+.+. ++-++|.||
T Consensus 149 v~~VD~S~~al~~a~~N~~lNg~~-------------------------~~~~~~~~~Dvf~~l~~~~~~~~fD~II 200 (286)
T PF10672_consen 149 VVSVDSSKRALEWAKENAALNGLD-------------------------LDRHRFIQGDVFKFLKRLKKGGRFDLII 200 (286)
T ss_dssp EEEEES-HHHHHHHHHHHHHTT-C-------------------------CTCEEEEES-HHHHHHHHHHTT-EEEEE
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCC-------------------------ccceEEEecCHHHHHHHHhcCCCCCEEE
Confidence 467999999999999999999983 24667777777665542 234889886
No 25
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=80.00 E-value=0.99 Score=37.34 Aligned_cols=24 Identities=42% Similarity=0.429 Sum_probs=21.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhhc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALH 24 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~ 24 (118)
|++.|+||.|++.+.-|+=+|+++
T Consensus 84 V~a~Din~~Av~~a~~N~~~N~~~ 107 (382)
T PRK04338 84 VTLNDINPDAVELIKKNLELNGLE 107 (382)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCCC
Confidence 678999999999999999999874
No 26
>PRK14967 putative methyltransferase; Provisional
Probab=79.54 E-value=1.1 Score=32.76 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=17.8
Q ss_pred CcccCCCCcchhhhHHHHHHhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNA 22 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNa 22 (118)
|+|+|+||.+++.+.-|+-.|+
T Consensus 62 v~~vD~s~~~l~~a~~n~~~~~ 83 (223)
T PRK14967 62 VTAVDISRRAVRSARLNALLAG 83 (223)
T ss_pred EEEEECCHHHHHHHHHHHHHhC
Confidence 5789999999999887775544
No 27
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=79.11 E-value=0.74 Score=38.11 Aligned_cols=25 Identities=32% Similarity=0.520 Sum_probs=23.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHE 25 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~ 25 (118)
|+|.||+|.||++|.=|+=+|..+.
T Consensus 188 v~g~DiDp~AV~aa~eNa~~N~v~~ 212 (300)
T COG2264 188 VVGVDIDPQAVEAARENARLNGVEL 212 (300)
T ss_pred EEEecCCHHHHHHHHHHHHHcCCch
Confidence 6899999999999999999999964
No 28
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=78.36 E-value=1.2 Score=33.72 Aligned_cols=48 Identities=6% Similarity=0.003 Sum_probs=32.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
|+++|+||+|++++--|+=.|++ ++++|...|+.......+-+.|.|+
T Consensus 79 V~~vE~~~~a~~~a~~Nl~~~~~---------------------------~~v~~~~~D~~~~l~~~~~~fDlV~ 126 (199)
T PRK10909 79 ATLLEMDRAVAQQLIKNLATLKA---------------------------GNARVVNTNALSFLAQPGTPHNVVF 126 (199)
T ss_pred EEEEECCHHHHHHHHHHHHHhCC---------------------------CcEEEEEchHHHHHhhcCCCceEEE
Confidence 57899999999998877655543 2456666777666533334577776
No 29
>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=77.59 E-value=1.8 Score=29.37 Aligned_cols=49 Identities=16% Similarity=0.232 Sum_probs=31.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccC-Ccccceeeec
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHH-DIQLEGIVGC 77 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~-~i~ld~IVGC 77 (118)
|+|+|+||.+|+.+--++=-+. .++++|...|+.. .... .-+.|.|+--
T Consensus 31 i~gvD~s~~~i~~a~~~~~~~~---------------------------~~ni~~~~~d~~~-l~~~~~~~~D~I~~~ 80 (152)
T PF13847_consen 31 IIGVDISEEMIEYAKKRAKELG---------------------------LDNIEFIQGDIED-LPQELEEKFDIIISN 80 (152)
T ss_dssp EEEEESSHHHHHHHHHHHHHTT---------------------------STTEEEEESBTTC-GCGCSSTTEEEEEEE
T ss_pred EEEEECcHHHHHHhhccccccc---------------------------ccccceEEeehhc-cccccCCCeeEEEEc
Confidence 5799999999988765332111 2367888888877 4322 1357776654
No 30
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=77.44 E-value=0.98 Score=36.46 Aligned_cols=23 Identities=13% Similarity=0.244 Sum_probs=20.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|++|.|++.+--|+=+|++
T Consensus 231 v~~vE~~~~ai~~a~~N~~~~~~ 253 (362)
T PRK05031 231 VLATEISKPSVAAAQYNIAANGI 253 (362)
T ss_pred EEEEECCHHHHHHHHHHHHHhCC
Confidence 68999999999999999888876
No 31
>TIGR00537 hemK_rel_arch HemK-related putative methylase. 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. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=77.43 E-value=1.2 Score=31.24 Aligned_cols=22 Identities=36% Similarity=0.338 Sum_probs=17.7
Q ss_pred CcccCCCCcchhhhHHHHHHhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNA 22 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNa 22 (118)
|+|+|+||.+++.+--|+-.|.
T Consensus 44 v~~vD~s~~~~~~a~~~~~~~~ 65 (179)
T TIGR00537 44 ILTTDINPFAVKELRENAKLNN 65 (179)
T ss_pred EEEEECCHHHHHHHHHHHHHcC
Confidence 5789999999998887775443
No 32
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=76.35 E-value=0.72 Score=35.59 Aligned_cols=70 Identities=19% Similarity=0.317 Sum_probs=40.3
Q ss_pred CcccCCCCcchhhhHHHHHH----hhhccc-ccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYL----NALHES-FSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyL----Nal~~~-g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
|+|.||||.+++.|--+.|= ..+... -..-|.. ++..+.+. -.+-++|+|...||+..- ...-+.|.|+
T Consensus 135 I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~~~~yf~~--~~~~~~v~---~~ir~~V~F~~~dl~~~~-~~~~~fD~I~ 208 (264)
T smart00138 135 ILATDIDLKALEKARAGIYPERELEDLPKALLARYFSR--VEDKYRVK---PELKERVRFAKHNLLAES-PPLGDFDLIF 208 (264)
T ss_pred EEEEECCHHHHHHHHcCCCCHHHHhcCCHHHHhhhEEe--CCCeEEEC---hHHhCcCEEeeccCCCCC-CccCCCCEEE
Confidence 57999999999999888772 111110 0111221 11111110 125578999999998753 2234688887
Q ss_pred e
Q 042087 76 G 76 (118)
Q Consensus 76 G 76 (118)
.
T Consensus 209 c 209 (264)
T smart00138 209 C 209 (264)
T ss_pred e
Confidence 3
No 33
>PRK03612 spermidine synthase; Provisional
Probab=75.96 E-value=1.8 Score=36.77 Aligned_cols=59 Identities=20% Similarity=0.294 Sum_probs=43.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhccccccc-ceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGY-ERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l-~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|.++||||..++++-=|.|++.++.+ . + -.|+++...|...+.+..+-+.|.|+--.|
T Consensus 324 v~~VEid~~vi~~ar~~~~l~~~~~~------------~---------~~dprv~vi~~Da~~~l~~~~~~fDvIi~D~~ 382 (521)
T PRK03612 324 VTLVDLDPAMTELARTSPALRALNGG------------A---------LDDPRVTVVNDDAFNWLRKLAEKFDVIIVDLP 382 (521)
T ss_pred EEEEECCHHHHHHHHhCCcchhhhcc------------c---------cCCCceEEEEChHHHHHHhCCCCCCEEEEeCC
Confidence 46789999999998877777665321 1 1 248888889988888766668999988765
Q ss_pred c
Q 042087 80 Q 80 (118)
Q Consensus 80 Q 80 (118)
.
T Consensus 383 ~ 383 (521)
T PRK03612 383 D 383 (521)
T ss_pred C
Confidence 4
No 34
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=74.29 E-value=1.5 Score=37.36 Aligned_cols=50 Identities=24% Similarity=0.316 Sum_probs=39.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhh---hhhhccCCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDL---LAYCRHHDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDL---L~ycr~~~i~ld~IV 75 (118)
|.++|++.+|++.+-=|+=||+++ .+|+.|-+-|. |.+++.+|-+.|.|+
T Consensus 243 vt~VD~S~~al~~a~~N~~LNg~~-------------------------~~~~~~i~~Dvf~~l~~~~~~g~~fDlIi 295 (393)
T COG1092 243 VTSVDLSKRALEWARENAELNGLD-------------------------GDRHRFIVGDVFKWLRKAERRGEKFDLII 295 (393)
T ss_pred eEEEeccHHHHHHHHHHHHhcCCC-------------------------ccceeeehhhHHHHHHHHHhcCCcccEEE
Confidence 678999999999999999999993 24566666665 455667778999986
No 35
>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=73.96 E-value=1.8 Score=27.07 Aligned_cols=20 Identities=25% Similarity=0.408 Sum_probs=14.7
Q ss_pred CcccCCCCcchhhhHHHHHH
Q 042087 1 VYGLDINPRAIKISWIKLYL 20 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyL 20 (118)
|+|+|+||.+++.+--|+-.
T Consensus 46 v~~vD~s~~~~~~a~~~~~~ 65 (124)
T TIGR02469 46 VYAIERNPEALRLIERNARR 65 (124)
T ss_pred EEEEcCCHHHHHHHHHHHHH
Confidence 57899999988877655433
No 36
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=73.07 E-value=2.1 Score=35.08 Aligned_cols=23 Identities=17% Similarity=0.111 Sum_probs=20.3
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|+||.|++.+.-|+-.|++
T Consensus 322 V~gvD~s~~al~~A~~n~~~~~~ 344 (443)
T PRK13168 322 VVGVEGVEAMVERARENARRNGL 344 (443)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCC
Confidence 68999999999999999877765
No 37
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=73.06 E-value=2.2 Score=34.98 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=20.3
Q ss_pred CcccCCCCcchhhhHHHHHHh-hh
Q 042087 1 VYGLDINPRAIKISWIKLYLN-AL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLN-al 23 (118)
|.|.||+|.|++.|--|+=.| .+
T Consensus 141 ~~atDId~~Al~~A~~Nv~~Np~l 164 (321)
T PRK11727 141 FVGSDIDPQALASAQAIISANPGL 164 (321)
T ss_pred EEEEeCCHHHHHHHHHHHHhccCC
Confidence 468999999999999999888 55
No 38
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=71.66 E-value=1.2 Score=35.62 Aligned_cols=38 Identities=26% Similarity=0.411 Sum_probs=29.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRH 66 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~ 66 (118)
|+|+||+|.|+.++.=|+ +. ++.+|+|.++|+-..=.+
T Consensus 71 V~~vdiD~~a~ei~r~N~-------------------~~---------l~g~v~f~~~dv~~~~~~ 108 (198)
T COG2263 71 VLAVDIDPEALEIARANA-------------------EE---------LLGDVEFVVADVSDFRGK 108 (198)
T ss_pred EEEEecCHHHHHHHHHHH-------------------Hh---------hCCceEEEEcchhhcCCc
Confidence 789999999999988664 22 677999999998654433
No 39
>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=71.62 E-value=1.9 Score=33.06 Aligned_cols=21 Identities=24% Similarity=0.308 Sum_probs=18.0
Q ss_pred CcccCCCCcchhhhHHHHHHh
Q 042087 1 VYGLDINPRAIKISWIKLYLN 21 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLN 21 (118)
|+|+|+||.|++.+.-|+=.|
T Consensus 113 v~~vDis~~al~~A~~N~~~~ 133 (251)
T TIGR03704 113 LHAADIDPAAVRCARRNLADA 133 (251)
T ss_pred EEEEECCHHHHHHHHHHHHHc
Confidence 579999999999999887544
No 40
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=69.92 E-value=2.1 Score=34.64 Aligned_cols=23 Identities=22% Similarity=0.452 Sum_probs=21.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|+||.+++.+.-|+-.|++
T Consensus 317 V~~vE~~~~av~~a~~n~~~~~~ 339 (431)
T TIGR00479 317 VVGIEVVPESVEKAQQNAELNGI 339 (431)
T ss_pred EEEEEcCHHHHHHHHHHHHHhCC
Confidence 68999999999999999988876
No 41
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=69.55 E-value=3.1 Score=36.00 Aligned_cols=54 Identities=22% Similarity=0.193 Sum_probs=35.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+|+||.|++++.-|+=.|+ .|++|..+|+....-+..-+.|.||---|-
T Consensus 278 VtAVDiS~~ALe~AreNa~~~g----------------------------~rV~fi~gDl~e~~l~~~~~FDLIVSNPPY 329 (423)
T PRK14966 278 VRASDISPPALETARKNAADLG----------------------------ARVEFAHGSWFDTDMPSEGKWDIIVSNPPY 329 (423)
T ss_pred EEEEECCHHHHHHHHHHHHHcC----------------------------CcEEEEEcchhccccccCCCccEEEECCCC
Confidence 5789999999999987763221 156777777755321222368999866654
Q ss_pred cc
Q 042087 81 VL 82 (118)
Q Consensus 81 vL 82 (118)
+-
T Consensus 330 I~ 331 (423)
T PRK14966 330 IE 331 (423)
T ss_pred CC
Confidence 43
No 42
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=69.14 E-value=2.4 Score=35.46 Aligned_cols=51 Identities=20% Similarity=0.184 Sum_probs=36.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeec
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGC 77 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGC 77 (118)
|+++|+||+|+..+--|+=.|..+ -.+|++|..+|.++...+ -..|.|+--
T Consensus 255 V~~vD~S~~Av~~A~~N~~~n~~~------------------------~~~~v~~~~~D~l~~~~~--~~fDlIlsN 305 (378)
T PRK15001 255 VVFVDESPMAVASSRLNVETNMPE------------------------ALDRCEFMINNALSGVEP--FRFNAVLCN 305 (378)
T ss_pred EEEEECCHHHHHHHHHHHHHcCcc------------------------cCceEEEEEccccccCCC--CCEEEEEEC
Confidence 578999999999999887555431 125788888888776533 257888754
No 43
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=68.37 E-value=1.6 Score=36.67 Aligned_cols=26 Identities=35% Similarity=0.544 Sum_probs=23.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHES 26 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~ 26 (118)
||+.||||.|++.--=|+=||.+.+.
T Consensus 214 V~A~diNP~A~~~L~eNi~LN~v~~~ 239 (341)
T COG2520 214 VYAIDINPDAVEYLKENIRLNKVEGR 239 (341)
T ss_pred EEEEecCHHHHHHHHHHHHhcCccce
Confidence 68899999999999999999998543
No 44
>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=63.96 E-value=3.9 Score=34.02 Aligned_cols=23 Identities=30% Similarity=0.468 Sum_probs=20.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|++.|+||.|++..--|+=+|.+
T Consensus 72 Vv~nD~n~~Av~~i~~N~~~N~~ 94 (374)
T TIGR00308 72 VFANDINPKAVESIKNNVEYNSV 94 (374)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCC
Confidence 57899999999999999988876
No 45
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=63.29 E-value=4 Score=29.37 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=17.7
Q ss_pred CcccCCCCcchhhhHHHHHHhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNA 22 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNa 22 (118)
|+++|++|.+++.+.-|+=.|.
T Consensus 68 v~avD~~~~~~~~a~~n~~~~g 89 (198)
T PRK00377 68 VYAVDKDEKAINLTRRNAEKFG 89 (198)
T ss_pred EEEEECCHHHHHHHHHHHHHhC
Confidence 5789999999999887765554
No 46
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=62.47 E-value=3.6 Score=33.20 Aligned_cols=23 Identities=13% Similarity=0.232 Sum_probs=20.3
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|+||.|++.+--|+=+|++
T Consensus 222 v~~vE~~~~av~~a~~n~~~~~~ 244 (353)
T TIGR02143 222 VLATEIAKPSVNAAQYNIAANNI 244 (353)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 68999999999999988877765
No 47
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=59.88 E-value=2.4 Score=30.95 Aligned_cols=19 Identities=32% Similarity=0.550 Sum_probs=16.9
Q ss_pred CcccCCCCcchhhhHHHHH
Q 042087 1 VYGLDINPRAIKISWIKLY 19 (118)
Q Consensus 1 VyGlDiNPrAikiswinly 19 (118)
++|.||+|+++..+..|+-
T Consensus 64 ~~g~Di~~~~v~~a~~N~~ 82 (179)
T PF01170_consen 64 IIGSDIDPKAVRGARENLK 82 (179)
T ss_dssp EEEEESSHHHHHHHHHHHH
T ss_pred EEecCCCHHHHHHHHHHHH
Confidence 3699999999999999974
No 48
>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]. Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.
Probab=59.30 E-value=3.9 Score=30.89 Aligned_cols=53 Identities=15% Similarity=0.330 Sum_probs=33.4
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcc--cceeeecc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQ--LEGIVGCR 78 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~--ld~IVGCi 78 (118)
|+++||||.-++++-=|+-. +|..+||+|-..|.+...+..+.+ .|.|...-
T Consensus 24 Viaidid~~~~~~a~hNa~v--------------------------YGv~~~I~~i~gD~~~~~~~~~~~~~~D~vFlSP 77 (163)
T PF09445_consen 24 VIAIDIDPERLECAKHNAEV--------------------------YGVADNIDFICGDFFELLKRLKSNKIFDVVFLSP 77 (163)
T ss_dssp EEEEES-HHHHHHHHHHHHH--------------------------TT-GGGEEEEES-HHHHGGGB------SEEEE--
T ss_pred EEEEECCHHHHHHHHHHHHH--------------------------cCCCCcEEEEeCCHHHHHhhccccccccEEEECC
Confidence 67899999999988877532 246789999999998887654432 57777554
Q ss_pred c
Q 042087 79 P 79 (118)
Q Consensus 79 P 79 (118)
|
T Consensus 78 P 78 (163)
T PF09445_consen 78 P 78 (163)
T ss_dssp -
T ss_pred C
Confidence 4
No 49
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=56.60 E-value=7 Score=28.16 Aligned_cols=18 Identities=17% Similarity=0.350 Sum_probs=14.8
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+|++|.++..+--++
T Consensus 80 v~gvD~s~~~i~~a~~~~ 97 (219)
T TIGR02021 80 VKAVDISEQMVQMARNRA 97 (219)
T ss_pred EEEEECCHHHHHHHHHHH
Confidence 579999999998886554
No 50
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=55.83 E-value=5.2 Score=30.34 Aligned_cols=23 Identities=13% Similarity=0.226 Sum_probs=18.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+++|+||.+++++.-|+=.+++
T Consensus 96 v~tiD~d~~~~~~A~~n~~~~gl 118 (234)
T PLN02781 96 ITAIDIDKEAYEVGLEFIKKAGV 118 (234)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 57899999999999888765555
No 51
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=54.28 E-value=6.8 Score=31.31 Aligned_cols=62 Identities=19% Similarity=0.202 Sum_probs=37.7
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||+|++++.+-=|+--+ ++.+++++...|.+..-. .++|.||+-+|=
T Consensus 61 V~avEiD~~li~~l~~~~~~~--------------------------~~~~~v~ii~~Dal~~~~---~~~d~VvaNlPY 111 (294)
T PTZ00338 61 VIAIEIDPRMVAELKKRFQNS--------------------------PLASKLEVIEGDALKTEF---PYFDVCVANVPY 111 (294)
T ss_pred EEEEECCHHHHHHHHHHHHhc--------------------------CCCCcEEEEECCHhhhcc---cccCEEEecCCc
Confidence 467888888877654332111 134678888888887532 246899998885
Q ss_pred ccCCChhHHHHHh
Q 042087 81 VLNPNSNAMSKII 93 (118)
Q Consensus 81 vLnpnp~amsk~i 93 (118)
-+. ...+.|++
T Consensus 112 ~Is--tpil~~ll 122 (294)
T PTZ00338 112 QIS--SPLVFKLL 122 (294)
T ss_pred ccC--cHHHHHHH
Confidence 433 23344444
No 52
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=54.22 E-value=11 Score=30.67 Aligned_cols=23 Identities=26% Similarity=0.222 Sum_probs=18.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+++|+||.|++.+--|+=.|++
T Consensus 223 v~~vDis~~Al~~A~~nl~~n~l 245 (342)
T PRK09489 223 LTLSDVSAAALESSRATLAANGL 245 (342)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 57899999999999887766654
No 53
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=53.75 E-value=13 Score=27.71 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=14.2
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+|++|..+..+--|.
T Consensus 105 v~gvD~s~~~l~~A~~~~ 122 (272)
T PRK11873 105 VIGVDMTPEMLAKARANA 122 (272)
T ss_pred EEEECCCHHHHHHHHHHH
Confidence 578999999888876553
No 54
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=53.39 E-value=4.5 Score=30.67 Aligned_cols=13 Identities=23% Similarity=0.521 Sum_probs=11.7
Q ss_pred CcccCCCCcchhh
Q 042087 1 VYGLDINPRAIKI 13 (118)
Q Consensus 1 VyGlDiNPrAiki 13 (118)
|.|+||+|.||.-
T Consensus 62 V~avD~s~~Ai~~ 74 (218)
T PRK13255 62 VLGVELSELAVEQ 74 (218)
T ss_pred EEEEccCHHHHHH
Confidence 7899999999985
No 55
>PRK04457 spermidine synthase; Provisional
Probab=52.99 E-value=5.5 Score=30.79 Aligned_cols=18 Identities=22% Similarity=0.457 Sum_probs=13.4
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|.++||||..++++-=+.
T Consensus 93 v~~VEidp~vi~~A~~~f 110 (262)
T PRK04457 93 QTAVEINPQVIAVARNHF 110 (262)
T ss_pred EEEEECCHHHHHHHHHHc
Confidence 467899999888876443
No 56
>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=51.67 E-value=6.1 Score=32.93 Aligned_cols=25 Identities=36% Similarity=0.480 Sum_probs=20.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHE 25 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~ 25 (118)
|+.-||||.|+++-.-|+=||.+++
T Consensus 77 v~~NDi~~~a~~~i~~N~~~N~~~~ 101 (377)
T PF02005_consen 77 VTANDISPEAVELIKRNLELNGLED 101 (377)
T ss_dssp EEEEES-HHHHHHHHHHHHHCT-SG
T ss_pred EEEecCCHHHHHHHHHhHhhccccC
Confidence 3456999999999999999999965
No 57
>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=51.42 E-value=5.3 Score=30.94 Aligned_cols=24 Identities=33% Similarity=0.506 Sum_probs=21.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALH 24 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~ 24 (118)
|+|+|++|.+++.+--|+-+|.+.
T Consensus 185 V~avDid~~al~~a~~n~~~n~~~ 208 (288)
T TIGR00406 185 VVGIDIDPLAVESARKNAELNQVS 208 (288)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCC
Confidence 689999999999999998888764
No 58
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=50.49 E-value=6.5 Score=32.85 Aligned_cols=44 Identities=23% Similarity=0.266 Sum_probs=34.2
Q ss_pred cccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 2 YGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 2 yGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
+-.|+|.+||+.|..|+=.|+. +. .++..||+-+-..+ ..|.|+
T Consensus 186 tmvDvn~~Av~~ar~Nl~~N~~--------------~~-------------~~v~~s~~~~~v~~---kfd~Ii 229 (300)
T COG2813 186 TLVDVNARAVESARKNLAANGV--------------EN-------------TEVWASNLYEPVEG---KFDLII 229 (300)
T ss_pred EEEecCHHHHHHHHHhHHHcCC--------------Cc-------------cEEEEecccccccc---cccEEE
Confidence 4579999999999999999988 22 15667777776644 788887
No 59
>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=49.47 E-value=11 Score=27.59 Aligned_cols=18 Identities=11% Similarity=-0.018 Sum_probs=13.6
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+|+||.++..+--|+
T Consensus 69 V~~iD~s~~~~~~a~~~~ 86 (181)
T TIGR00138 69 LTLLESNHKKVAFLREVK 86 (181)
T ss_pred EEEEeCcHHHHHHHHHHH
Confidence 678999999887765444
No 60
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=49.32 E-value=5.8 Score=29.82 Aligned_cols=23 Identities=30% Similarity=0.514 Sum_probs=20.3
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+||+|.+++.+--|+=.|.+
T Consensus 145 v~giDis~~~l~~A~~n~~~~~~ 167 (250)
T PRK00517 145 VLAVDIDPQAVEAARENAELNGV 167 (250)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 67999999999999988877776
No 61
>PLN03075 nicotianamine synthase; Provisional
Probab=47.97 E-value=8.4 Score=31.69 Aligned_cols=49 Identities=14% Similarity=0.242 Sum_probs=31.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
|+|+|++|.++..|.=+ +.+. . ++-+||+|...|++....+ .-+.|.|.
T Consensus 152 ~~giD~d~~ai~~Ar~~--~~~~--------------~---------gL~~rV~F~~~Da~~~~~~-l~~FDlVF 200 (296)
T PLN03075 152 FHNFDIDPSANDVARRL--VSSD--------------P---------DLSKRMFFHTADVMDVTES-LKEYDVVF 200 (296)
T ss_pred EEEEeCCHHHHHHHHHH--hhhc--------------c---------CccCCcEEEECchhhcccc-cCCcCEEE
Confidence 46899999998887622 1110 1 2678999999999885422 23455443
No 62
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=47.83 E-value=9.5 Score=27.86 Aligned_cols=20 Identities=15% Similarity=0.097 Sum_probs=15.1
Q ss_pred CcccCCCCcchhhhHHHHHH
Q 042087 1 VYGLDINPRAIKISWIKLYL 20 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyL 20 (118)
|+|+|++|.+++.+--|+--
T Consensus 100 V~~iD~~~~~~~~a~~~l~~ 119 (205)
T PRK13944 100 VYTVEIVKELAIYAAQNIER 119 (205)
T ss_pred EEEEeCCHHHHHHHHHHHHH
Confidence 57899999988877666543
No 63
>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2.1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.
Probab=47.28 E-value=5.7 Score=32.07 Aligned_cols=24 Identities=25% Similarity=0.338 Sum_probs=20.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhhc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALH 24 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~ 24 (118)
|+|+|++|.||+-|.-|+=+|+++
T Consensus 221 V~gvE~~~~av~~A~~Na~~N~i~ 244 (352)
T PF05958_consen 221 VIGVEIVEEAVEDARENAKLNGID 244 (352)
T ss_dssp EEEEES-HHHHHHHHHHHHHTT--
T ss_pred EEEeeCCHHHHHHHHHHHHHcCCC
Confidence 689999999999999999999984
No 64
>PHA03411 putative methyltransferase; Provisional
Probab=45.04 E-value=7.7 Score=31.98 Aligned_cols=48 Identities=17% Similarity=0.276 Sum_probs=33.5
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||||.+++++.-|+ .+++|..+|++.+.++ -..|.|+.--|=
T Consensus 91 V~gVDisp~al~~Ar~n~--------------------------------~~v~~v~~D~~e~~~~--~kFDlIIsNPPF 136 (279)
T PHA03411 91 IVCVELNPEFARIGKRLL--------------------------------PEAEWITSDVFEFESN--EKFDVVISNPPF 136 (279)
T ss_pred EEEEECCHHHHHHHHHhC--------------------------------cCCEEEECchhhhccc--CCCcEEEEcCCc
Confidence 578999999888775431 1466777888877543 368999986665
Q ss_pred cc
Q 042087 81 VL 82 (118)
Q Consensus 81 vL 82 (118)
.-
T Consensus 137 ~~ 138 (279)
T PHA03411 137 GK 138 (279)
T ss_pred cc
Confidence 43
No 65
>PRK14968 putative methyltransferase; Provisional
Probab=44.25 E-value=14 Score=25.09 Aligned_cols=23 Identities=39% Similarity=0.564 Sum_probs=16.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|.|++|.+++.+-=|+=.|++
T Consensus 48 v~~~D~s~~~~~~a~~~~~~~~~ 70 (188)
T PRK14968 48 VVGVDINPYAVECAKCNAKLNNI 70 (188)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 57899999999888666544443
No 66
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=44.18 E-value=18 Score=26.48 Aligned_cols=22 Identities=9% Similarity=0.229 Sum_probs=16.9
Q ss_pred CcccCCCCcchhhhHHHHHHhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNA 22 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNa 22 (118)
|+|+|+||.+++.+-=|+-.++
T Consensus 67 v~gVD~s~~~i~~a~~~~~~~~ 88 (202)
T PRK00121 67 FIGIEVHEPGVGKALKKIEEEG 88 (202)
T ss_pred EEEEEechHHHHHHHHHHHHcC
Confidence 5799999999988876654443
No 67
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=43.99 E-value=8.6 Score=32.73 Aligned_cols=25 Identities=24% Similarity=0.577 Sum_probs=22.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHE 25 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~ 25 (118)
.||.++|+..-+++|+|++|++.+-
T Consensus 217 ~yGqE~~~~t~~l~~mN~~lhgi~~ 241 (489)
T COG0286 217 IYGQEINDTTYRLAKMNLILHGIEG 241 (489)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCCCc
Confidence 4899999999999999999999963
No 68
>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed 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. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.
Probab=43.34 E-value=5.5 Score=30.21 Aligned_cols=88 Identities=14% Similarity=0.215 Sum_probs=38.0
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccc-ccc-cc--ccccchhhcccccccceeeecchhhhhhhhccCCcccceeee
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSK-LFC-HC--HCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVG 76 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~-~~d-~~--~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVG 76 (118)
|+|.||||.++..|.--.|=..-=..-.+ ... ++ .++..|.+ --.+-++|.|..-||+. --+..-..|.|+
T Consensus 67 I~atDi~~~~L~~Ar~G~Y~~~~~~~~~~~~~~ryf~~~~~~~~~v---~~~lr~~V~F~~~NL~~-~~~~~~~fD~I~- 141 (196)
T PF01739_consen 67 ILATDISPSALEKARAGIYPERSLRGLPPAYLRRYFTERDGGGYRV---KPELRKMVRFRRHNLLD-PDPPFGRFDLIF- 141 (196)
T ss_dssp EEEEES-HHHHHHHHHTEEEGGGGTTS-HHHHHHHEEEE-CCCTTE----HHHHTTEEEEE--TT--S------EEEEE-
T ss_pred EEEEECCHHHHHHHHhCCCCHHHHhhhHHHHHHHhccccCCCceeE---ChHHcCceEEEecccCC-CCcccCCccEEE-
Confidence 57899999998887554442111000000 000 00 11111111 11267899999999999 223444566554
Q ss_pred ccccccCCChhHHHHHh
Q 042087 77 CRPQVLNPNSNAMSKII 93 (118)
Q Consensus 77 CiPQvLnpnp~amsk~i 93 (118)
|.=-++-=+++.-.+++
T Consensus 142 CRNVlIYF~~~~~~~vl 158 (196)
T PF01739_consen 142 CRNVLIYFDPETQQRVL 158 (196)
T ss_dssp E-SSGGGS-HHHHHHHH
T ss_pred ecCEEEEeCHHHHHHHH
Confidence 77655555555555444
No 69
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=43.26 E-value=20 Score=23.83 Aligned_cols=27 Identities=15% Similarity=0.265 Sum_probs=21.5
Q ss_pred hhHHHHHHhhhcccccccccccccccc
Q 042087 13 ISWIKLYLNALHESFSKLFCHCHCKRS 39 (118)
Q Consensus 13 iswinlyLNal~~~g~~~~d~~~e~kt 39 (118)
+.-+.-+++...+.|.+|+=||..|.+
T Consensus 64 ~~~~~~~i~~~~~~~~~VlVHC~~G~~ 90 (138)
T smart00195 64 FPEAVEFIEDAEKKGGKVLVHCQAGVS 90 (138)
T ss_pred HHHHHHHHHHHhcCCCeEEEECCCCCc
Confidence 445567777778899999999999863
No 70
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=42.73 E-value=21 Score=28.91 Aligned_cols=18 Identities=22% Similarity=0.412 Sum_probs=14.6
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+||+|.+++++--|.
T Consensus 292 v~gvDiS~~~l~~A~~~~ 309 (475)
T PLN02336 292 VVGIDLSVNMISFALERA 309 (475)
T ss_pred EEEEECCHHHHHHHHHHh
Confidence 579999999998876553
No 71
>PRK01581 speE spermidine synthase; Validated
Probab=41.51 E-value=23 Score=30.52 Aligned_cols=59 Identities=17% Similarity=0.196 Sum_probs=40.1
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|.++||+|..+.++.=.-+|..+.. .. + --.||++...|-..|.+..+-+.|.|+-=.|
T Consensus 177 It~VEIDpeVIelAr~~~~L~~~~~------------~~------~--~DpRV~vvi~Da~~fL~~~~~~YDVIIvDl~ 235 (374)
T PRK01581 177 VDLVDLDGSMINMARNVPELVSLNK------------SA------F--FDNRVNVHVCDAKEFLSSPSSLYDVIIIDFP 235 (374)
T ss_pred EEEEeCCHHHHHHHHhccccchhcc------------cc------C--CCCceEEEECcHHHHHHhcCCCccEEEEcCC
Confidence 4578999999999884223322200 01 0 1368899999999998877778999986554
No 72
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor 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: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=40.50 E-value=7.7 Score=24.17 Aligned_cols=14 Identities=29% Similarity=0.581 Sum_probs=10.7
Q ss_pred CcccCCCCcchhhh
Q 042087 1 VYGLDINPRAIKIS 14 (118)
Q Consensus 1 VyGlDiNPrAikis 14 (118)
|+|+||||.++..+
T Consensus 23 ~~~~D~s~~~l~~a 36 (99)
T PF08242_consen 23 YTGVDISPSMLERA 36 (99)
T ss_dssp EEEEESSSSTTSTT
T ss_pred EEEEECCHHHHHHH
Confidence 46899999998443
No 73
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=39.83 E-value=12 Score=30.27 Aligned_cols=28 Identities=21% Similarity=0.213 Sum_probs=19.1
Q ss_pred cceeeecchhhhhhhhccCCcccceeee
Q 042087 49 YERRVEFDESDLLAYCRHHDIQLEGIVG 76 (118)
Q Consensus 49 l~~RveF~eSDLL~ycr~~~i~ld~IVG 76 (118)
+-++|.|..-||+.---+..-.+|.|+-
T Consensus 202 lr~~V~F~~~NL~~~~~~~~~~fD~I~c 229 (287)
T PRK10611 202 LANYVDFQQLNLLAKQWAVPGPFDAIFC 229 (287)
T ss_pred HHccCEEEcccCCCCCCccCCCcceeeH
Confidence 7789999999998731112346777663
No 74
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=38.72 E-value=26 Score=25.03 Aligned_cols=61 Identities=15% Similarity=0.232 Sum_probs=37.9
Q ss_pred cchhhhhhhhccCCccc--ceeeeccccccCCC-hhHHHHHhhhcccHHHHHhhhcccccccccc
Q 042087 55 FDESDLLAYCRHHDIQL--EGIVGCRPQVLNPN-SNAMSKIITENASEEFLYSLSNYCGLQVGRY 116 (118)
Q Consensus 55 F~eSDLL~ycr~~~i~l--d~IVGCiPQvLnpn-p~amsk~itenAsEefLysLSNYc~lQ~~~~ 116 (118)
+.++|+..|++..|+++ |.=-.|.=+...+. +.-.+++-.-+..|+||.. -+.=.+++-.|
T Consensus 132 ~~K~ei~~~a~~~gl~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~e~~l~~-~~~~~~~~~~~ 195 (202)
T cd01990 132 LGKAEIRELARELGLPTWDKPAMACLASRIPYGTEITEERLKKVEAAEEFLRS-LGFREVRVRFH 195 (202)
T ss_pred CCHHHHHHHHHHcCCCCcCCCCcchHHhhCcCCCCCCHHHHHHHHHHHHHHHH-cCCCeEEEEec
Confidence 79999999999999998 77777843333322 2222222222468999988 33333555433
No 75
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=38.59 E-value=12 Score=29.39 Aligned_cols=23 Identities=26% Similarity=0.284 Sum_probs=19.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|.||||++++.+.-|+=-+++
T Consensus 207 v~g~Di~~~~~~~a~~nl~~~g~ 229 (329)
T TIGR01177 207 VIGCDIDWKMVAGARINLEHYGI 229 (329)
T ss_pred EEEEcCCHHHHHHHHHHHHHhCC
Confidence 58999999999999988755554
No 76
>PF14489 QueF: QueF-like protein; PDB: 3UXV_C 3RJB_A 3BP1_D 3RZP_B 3RJ4_A 3UXJ_C 3S19_D 3RZQ_B.
Probab=37.93 E-value=6.3 Score=27.23 Aligned_cols=38 Identities=29% Similarity=0.572 Sum_probs=25.6
Q ss_pred ccccccchhhcccccccceeeecch-------hhhhhhhccCCcccc
Q 042087 33 HCHCKRSFVLRGYLWGYERRVEFDE-------SDLLAYCRHHDIQLE 72 (118)
Q Consensus 33 ~~~e~kt~~~~~~~~~l~~RveF~e-------SDLL~ycr~~~i~ld 72 (118)
.|-|-|| |.-|+|.+-++-.||| .||.+.|.+.-++..
T Consensus 15 ~~vElkS--Lk~Yl~SfRn~~~fhE~~v~~I~~Dl~~~~~P~~l~V~ 59 (80)
T PF14489_consen 15 KCVELKS--LKLYLWSFRNHGIFHEQCVNRIFDDLVAALKPRYLRVT 59 (80)
T ss_dssp --E-HHH--HHHHHHTTTTSBE-HHHHHHHHHHHHHHHH--SEEEEE
T ss_pred cccCHHH--HHHHHHHHhhcCCcHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 4566666 7789999999999999 489998877765543
No 77
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=37.91 E-value=14 Score=25.87 Aligned_cols=38 Identities=21% Similarity=0.395 Sum_probs=25.2
Q ss_pred cchhhhHHHHHHhhhcccccccccccccccchhhccccccc
Q 042087 9 RAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGY 49 (118)
Q Consensus 9 rAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l 49 (118)
..+.-+=+.....++++...||+-||.-|.. .+-||.|
T Consensus 68 ~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~R---a~~l~~l 105 (110)
T PF04273_consen 68 GAITEEDVEAFADALESLPKPVLAHCRSGTR---ASALWAL 105 (110)
T ss_dssp TT--HHHHHHHHHHHHTTTTSEEEE-SCSHH---HHHHHHH
T ss_pred CCCCHHHHHHHHHHHHhCCCCEEEECCCChh---HHHHHHH
Confidence 3444555667778888777899999998875 3556655
No 78
>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes. Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.
Probab=37.56 E-value=6 Score=30.23 Aligned_cols=60 Identities=22% Similarity=0.280 Sum_probs=32.2
Q ss_pred CcccCCCCcchhhh--HHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeec
Q 042087 1 VYGLDINPRAIKIS--WIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGC 77 (118)
Q Consensus 1 VyGlDiNPrAikis--winlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGC 77 (118)
|+|+||+|.||+-+ +-++ ......+- .+. + | =.++|+|...|++..-....=+.|.|.-|
T Consensus 62 VvGvDls~~Ai~~~~~e~~~-----~~~~~~~~-------~~~-~-~---~~~~i~~~~gDfF~l~~~~~g~fD~iyDr 123 (218)
T PF05724_consen 62 VVGVDLSPTAIEQAFEENNL-----EPTVTSVG-------GFK-R-Y---QAGRITIYCGDFFELPPEDVGKFDLIYDR 123 (218)
T ss_dssp EEEEES-HHHHHHHHHHCTT-----EEECTTCT-------TEE-E-E---TTSSEEEEES-TTTGGGSCHHSEEEEEEC
T ss_pred EEEEecCHHHHHHHHHHhcc-----CCCccccc-------cee-e-e---cCCceEEEEcccccCChhhcCCceEEEEe
Confidence 78999999998764 2222 11111100 000 0 1 23589999999998653332267777755
No 79
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=36.16 E-value=22 Score=22.91 Aligned_cols=27 Identities=37% Similarity=0.653 Sum_probs=19.6
Q ss_pred hhhhhhhhccCCcccceeeeccccccCC
Q 042087 57 ESDLLAYCRHHDIQLEGIVGCRPQVLNP 84 (118)
Q Consensus 57 eSDLL~ycr~~~i~ld~IVGCiPQvLnp 84 (118)
-.+|+.||..+.-.-=++.||-|+- ||
T Consensus 26 ~~~li~y~e~~~~~DP~l~g~~~~~-NP 52 (63)
T smart00224 26 AEELLAYCEQHAEEDPLLTGPPPSK-NP 52 (63)
T ss_pred HHHHHHHHHcCCCCCCCcCCCCCCC-CC
Confidence 4689999977555555677998875 55
No 80
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=35.59 E-value=6.8 Score=24.78 Aligned_cols=24 Identities=21% Similarity=0.275 Sum_probs=17.6
Q ss_pred eeecchhhhhhhhccCCcccceeee
Q 042087 52 RVEFDESDLLAYCRHHDIQLEGIVG 76 (118)
Q Consensus 52 RveF~eSDLL~ycr~~~i~ld~IVG 76 (118)
+++|...|.... ...+-+.|.|+-
T Consensus 50 ~~~~~~~D~~~l-~~~~~~~D~v~~ 73 (101)
T PF13649_consen 50 KVRFVQADARDL-PFSDGKFDLVVC 73 (101)
T ss_dssp TSEEEESCTTCH-HHHSSSEEEEEE
T ss_pred ceEEEECCHhHC-cccCCCeeEEEE
Confidence 678888888763 455668898886
No 81
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=35.09 E-value=23 Score=26.36 Aligned_cols=18 Identities=17% Similarity=-0.093 Sum_probs=14.4
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+|+||.+++.+--|+
T Consensus 72 V~giD~s~~~l~~A~~~~ 89 (187)
T PRK00107 72 VTLVDSLGKKIAFLREVA 89 (187)
T ss_pred EEEEeCcHHHHHHHHHHH
Confidence 678999999988876554
No 82
>PF00123 Hormone_2: Peptide hormone; InterPro: IPR000532 A number of polypeptidic hormones, mainly expressed in the intestine or the pancreas, belong to a group of structurally related peptides [, ]. Once such hormone, glucagon is widely distributed and produced in the alpha-cells of pancreatic islets []. It affects glucose metabolism in the liver [] by inhibiting glycogen synthesis, stimulating glycogenolysis and enchancing gluconeogenesis. It also increases mobilisation of glucose, free fatty acids and ketone bodies, which are metabolites produced in excess in diabetes mellitus. Glucagon is produced, like other peptide hormones, as part of a larger precursor (preproglucagon), which is cleaved to produce glucagon, glucagon-like protein I and glucagon-like protein II []. The structure of glucagon itself is fully conserved in all known mammalian species []. Other members of the structurally similar group include glicentin precursor, secretin, gastric inhibitory protein, vasoactive intestinal peptide (VIP), prealbumin, peptide HI-27 and growth hormone releasing factor.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1T5Q_A 2OBU_A 2QKH_B 2L70_A 2L71_A 2B4N_A 1GCN_A 1D0R_A 3IOL_B 2RRI_A ....
Probab=34.61 E-value=29 Score=20.01 Aligned_cols=21 Identities=33% Similarity=0.396 Sum_probs=18.4
Q ss_pred hHHHHHhhhcccHHHHHhhhc
Q 042087 87 NAMSKIITENASEEFLYSLSN 107 (118)
Q Consensus 87 ~amsk~itenAsEefLysLSN 107 (118)
..+||+..+.+-.+||.+|-|
T Consensus 8 sdys~~L~~~aak~fl~~L~~ 28 (28)
T PF00123_consen 8 SDYSKYLDQLAAKKFLQWLMN 28 (28)
T ss_dssp HHHHHHHHHHHHHHHHHHHCH
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 578999999999999999865
No 83
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=33.07 E-value=17 Score=31.37 Aligned_cols=48 Identities=23% Similarity=0.330 Sum_probs=34.4
Q ss_pred cccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeee
Q 042087 2 YGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVG 76 (118)
Q Consensus 2 yGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVG 76 (118)
||.||+||.|+.|--|+ . ++ |+.|.|+|..-|+-..-.+- -+-|.||.
T Consensus 258 ~G~Did~r~i~~Ak~NA----~--------------~A--------Gv~d~I~f~~~d~~~l~~~~-~~~gvvI~ 305 (381)
T COG0116 258 YGSDIDPRHIEGAKANA----R--------------AA--------GVGDLIEFKQADATDLKEPL-EEYGVVIS 305 (381)
T ss_pred EEecCCHHHHHHHHHHH----H--------------hc--------CCCceEEEEEcchhhCCCCC-CcCCEEEe
Confidence 69999999999998664 3 33 47789999988876654333 34455554
No 84
>PF09456 RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019017 This domain is found in the C terminus of the signal transduction response regulator (phospho-relay) kinase RcsC, between the ATP-binding region (IPR003594 from INTERPRO) and the receiver region (IPR001789 from INTERPRO). This domain forms a discrete alpha/beta/loop structure []. The Rcs signalling pathway controls a variety of physiological functions like capsule synthesis, cell division or motility in prokaryotes. The Rcs regulation cascade, involving a multi-step phosphorelay between the two membrane-bound hybrid sensor kinases RcsC and RcsD and the global regulator RcsB, is, up to now, one of the most complicated regulatory systems in bacteria []. ; GO: 0004673 protein histidine kinase activity, 0004871 signal transducer activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent, 0018106 peptidyl-histidine phosphorylation, 0005886 plasma membrane, 0016021 integral to membrane; PDB: 2AYY_A 2AYX_A.
Probab=33.05 E-value=24 Score=24.97 Aligned_cols=23 Identities=39% Similarity=0.624 Sum_probs=18.5
Q ss_pred hcccHHHHHhhhccccccccccC
Q 042087 95 ENASEEFLYSLSNYCGLQVGRYS 117 (118)
Q Consensus 95 enAsEefLysLSNYc~lQ~~~~~ 117 (118)
+..=|.||-+|=.|+++|+-||.
T Consensus 8 Na~Le~yL~~lL~~~G~~v~~y~ 30 (92)
T PF09456_consen 8 NAYLESYLQRLLSYHGFQVQRYE 30 (92)
T ss_dssp -HHHHHHHHHHHCTTTEEEEE-S
T ss_pred hHHHHHHHHHHHHHCCcEEEEec
Confidence 34458999999999999999986
No 85
>KOG2926 consensus Malonyl-CoA:ACP transacylase [Lipid transport and metabolism]
Probab=32.66 E-value=17 Score=32.08 Aligned_cols=59 Identities=20% Similarity=0.330 Sum_probs=45.9
Q ss_pred hhhhhhhhcc-CCcccceeeeccccccCCChhHHHHHhhhcccHHHHHhhhccccccccccC
Q 042087 57 ESDLLAYCRH-HDIQLEGIVGCRPQVLNPNSNAMSKIITENASEEFLYSLSNYCGLQVGRYS 117 (118)
Q Consensus 57 eSDLL~ycr~-~~i~ld~IVGCiPQvLnpnp~amsk~itenAsEefLysLSNYc~lQ~~~~~ 117 (118)
+=|||.+|-+ -.-.+|+-+=|-|-|+-+.-++..++--.. +..+-.++-+|++-.|.|+
T Consensus 100 ~YdLlki~~~gP~e~ldrT~~~QpAI~~~SlAa~E~l~~~~--p~~ie~~~~~aGfSlGEy~ 159 (386)
T KOG2926|consen 100 GYDLLKICVNGPKEKLDRTVIAQPAIDVSSLAALEQLRLLG--PSIIENLVVTAGFSLGEYA 159 (386)
T ss_pred hHHHHHHHhcCccchhhcccccccceecccHHHHHhccccC--cchhheeeeeccccHHHHH
Confidence 3589999976 567899999999999999988888765554 4455667777777777663
No 86
>PRK00811 spermidine synthase; Provisional
Probab=31.93 E-value=62 Score=25.26 Aligned_cols=57 Identities=16% Similarity=0.278 Sum_probs=37.6
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
|.++||+|..++++. -|+..+.. ..+ --.||++...|-..+.+..+-+.|.|+-..+
T Consensus 103 V~~VEid~~vv~~a~--~~~~~~~~---~~~-----------------~d~rv~v~~~Da~~~l~~~~~~yDvIi~D~~ 159 (283)
T PRK00811 103 ITLVEIDERVVEVCR--KYLPEIAG---GAY-----------------DDPRVELVIGDGIKFVAETENSFDVIIVDST 159 (283)
T ss_pred EEEEeCCHHHHHHHH--HHhHHhcc---ccc-----------------cCCceEEEECchHHHHhhCCCcccEEEECCC
Confidence 457899998888764 34433310 000 0257888899988888766668999987543
No 87
>cd07356 HN_L-whirlin_R1_like First harmonin_N_like domain (repeat 1) of the long isoform of whirlin, and related domains. This subgroup contains the first of two harmonin_N_like domains of the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. This first harmonin_N_like domain precedes PDZ1, and is a putative protein-binding module based on its sequence similarity to the N-terminal domain of harmonin. This first harmonin_N_like domain has been assayed for interaction with the cytoplasmic domain of cadherin 23 (a component of the Usher network and an interacting partner of the harmonin N-domain), however no interaction could be detected. Th
Probab=31.54 E-value=28 Score=24.80 Aligned_cols=25 Identities=36% Similarity=0.703 Sum_probs=22.0
Q ss_pred hhHHHHHhhhcccHHHHHhhhcccc
Q 042087 86 SNAMSKIITENASEEFLYSLSNYCG 110 (118)
Q Consensus 86 p~amsk~itenAsEefLysLSNYc~ 110 (118)
-.+|-|++++.--|+|.+.|+-|-+
T Consensus 9 h~~l~~lLs~~Er~~f~h~Ln~Y~~ 33 (78)
T cd07356 9 HNALTKLLSEAEREEFIHCLNDYHA 33 (78)
T ss_pred HHHHHHHccHHHHHHHHHHHHHHHh
Confidence 3689999999999999999998853
No 88
>PF07029 CryBP1: CryBP1 protein; InterPro: IPR009751 This family consists of several CryBP1 like proteins from Bacillus thuringiensis and Paenibacillus popilliae. Members of this family are thought to be involved in the overall toxicity of the bacteria to their hosts [,].
Probab=30.90 E-value=19 Score=28.19 Aligned_cols=16 Identities=31% Similarity=0.526 Sum_probs=12.7
Q ss_pred ccceeeeccccccCCC
Q 042087 70 QLEGIVGCRPQVLNPN 85 (118)
Q Consensus 70 ~ld~IVGCiPQvLnpn 85 (118)
.+=.||||||=|.|-+
T Consensus 67 ~vLKikGcIpfI~Ni~ 82 (161)
T PF07029_consen 67 HVLKIKGCIPFISNIS 82 (161)
T ss_pred EEEEEEEeEEEEEEEE
Confidence 3447999999998865
No 89
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=30.88 E-value=12 Score=27.88 Aligned_cols=16 Identities=31% Similarity=0.603 Sum_probs=13.6
Q ss_pred CcccCCCCcchhhhHH
Q 042087 1 VYGLDINPRAIKISWI 16 (118)
Q Consensus 1 VyGlDiNPrAikiswi 16 (118)
|+|+||||.+++.+--
T Consensus 70 v~giDiS~~~l~~A~~ 85 (204)
T TIGR03587 70 IYGVEINEYAVEKAKA 85 (204)
T ss_pred EEEEECCHHHHHHHHh
Confidence 5799999999998753
No 90
>PF02959 Tax: HTLV Tax; InterPro: IPR004120 Human T-lymphotropic virus 1 is the etiological agent for adult T-cell leukemia (ATL), as well as for tropical spastic paraparesis (TSP) and HTLV-I associate myelopathy (HAM). A biological understanding of the involvement of HTLV-I and in ATL has focused significantly on the workings of the virally-encoded 40 kDa phospho-oncoprotein, Tat. Tat is a transcriptional activator. Its ability to modulate the expression and function of many cellular genes has been reasoned to be a major contributory mechanism explaining HTLV-I mediated transformation of cells. In activating cellular gene expression, Tat impinges upon several cellular signal-transduction pathways, including those for CREB/ATF and NF-kappaB [].; GO: 0045893 positive regulation of transcription, DNA-dependent; PDB: 1HHK_C 1AO7_C 2AV7_F.
Probab=29.94 E-value=17 Score=29.89 Aligned_cols=38 Identities=32% Similarity=0.475 Sum_probs=0.0
Q ss_pred ccceeeecchhhhhhhhccCCcccc----eeeeccccccCCC
Q 042087 48 GYERRVEFDESDLLAYCRHHDIQLE----GIVGCRPQVLNPN 85 (118)
Q Consensus 48 ~l~~RveF~eSDLL~ycr~~~i~ld----~IVGCiPQvLnpn 85 (118)
|=+-|..|+.-||++-|.+|.|.|| |+||-.=|.|-|.
T Consensus 31 g~~~~~r~~r~~~~~tc~~h~itw~p~dgr~~~s~~~~l~pr 72 (222)
T PF02959_consen 31 GGLCSLRLHRHALLATCPEHQITWDPIDGRVVGSPLQYLIPR 72 (222)
T ss_dssp ------------------------------------------
T ss_pred CccchhhhhhhhhhccCccceeeecccCCeeccchhhhhccc
Confidence 3456889999999999999999999 6677666666554
No 91
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=29.59 E-value=16 Score=29.45 Aligned_cols=18 Identities=39% Similarity=0.597 Sum_probs=15.3
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|.|.||.|.|.+|.--|+
T Consensus 74 vlGfDIdpeALEIf~rNa 91 (185)
T KOG3420|consen 74 VLGFDIDPEALEIFTRNA 91 (185)
T ss_pred EEeeecCHHHHHHHhhch
Confidence 579999999999987654
No 92
>TIGR00140 hupD hydrogenase expression/formation protein. C at 64 and 67 are believed to be metal binding. Postulated to be involved in processing or hydrogenase. Superfamily suggests that it is a peptidase/protease.
Probab=28.73 E-value=35 Score=23.26 Aligned_cols=41 Identities=15% Similarity=0.191 Sum_probs=27.7
Q ss_pred ecchhhhhhhhccCCccc--ceeeeccccccCCChhHHHHHhh
Q 042087 54 EFDESDLLAYCRHHDIQL--EGIVGCRPQVLNPNSNAMSKIIT 94 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~l--d~IVGCiPQvLnpnp~amsk~it 94 (118)
.|.-.|+|+++|..+... =.|+||.|+-+.+=...||.-+.
T Consensus 74 ~~~l~~~L~~~~~~~~~p~~~~ivgi~~~~~~~~g~~LS~~v~ 116 (134)
T TIGR00140 74 QTGFQEVLALAELLGHLPKELVLIGVQPEELEDYGGSLSPEVA 116 (134)
T ss_pred cCCHHHHHHHHHHcCCCCCeEEEEEeeEEEecCCCCCCCHHHH
Confidence 455678899888666433 47889999988733345665544
No 93
>TIGR00434 cysH phosophoadenylyl-sulfate reductase (thioredoxin). This enzyme, involved in the assimilation of inorganic sulfate, is designated cysH in Bacteria and MET16 in Saccharomyces cerevisiae. Synonyms include phosphoadenosine phosphosulfate reductase, PAPS reductase, and PAPS reductase, thioredoxin-dependent. In a reaction requiring reduced thioredoxin and NADPH, it converts 3(prime)-phosphoadenylylsulfate (PAPS) to sulfite and adenosine 3(prime),5(prime) diphosphate (PAP). A related family of plant enzymes, scoring below the trusted cutoff, differs in having a thioredoxin-like C-terminal domain, not requiring thioredoxin, and in having a preference for 5(prime)-adenylylsulfate (APS) over PAPS.
Probab=28.70 E-value=25 Score=25.66 Aligned_cols=29 Identities=14% Similarity=0.329 Sum_probs=22.2
Q ss_pred ecchhhhhhhhccCCccccee-------eecccccc
Q 042087 54 EFDESDLLAYCRHHDIQLEGI-------VGCRPQVL 82 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~ld~I-------VGCiPQvL 82 (118)
.+.++|+..|+++++++.-.+ +||.|---
T Consensus 152 dWt~~dVw~Yi~~~~lp~npLY~~Gy~siGc~~ct~ 187 (212)
T TIGR00434 152 DWTWKDVYQYIDAHNLPYNPLHDQGYPSIGDYHSTR 187 (212)
T ss_pred hCCHHHHHHHHHHcCCCCCchhhcCCCCcCCCCCCC
Confidence 468999999999999995433 39977543
No 94
>PF04424 DUF544: Protein of unknown function (DUF544) ; InterPro: IPR007518 This is a eukaryotic protein of unknown function.
Probab=28.44 E-value=18 Score=25.66 Aligned_cols=10 Identities=50% Similarity=0.923 Sum_probs=8.1
Q ss_pred cccCCCCcch
Q 042087 2 YGLDINPRAI 11 (118)
Q Consensus 2 yGlDiNPrAi 11 (118)
+|||+||+=.
T Consensus 59 tGLdVNp~F~ 68 (121)
T PF04424_consen 59 TGLDVNPKFT 68 (121)
T ss_pred ccceeeeEec
Confidence 6999999854
No 95
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=28.39 E-value=34 Score=24.75 Aligned_cols=41 Identities=20% Similarity=0.352 Sum_probs=26.9
Q ss_pred ecchhhhhhhhccCCccc-c-eeeeccccccCCChhHHHHHhhh
Q 042087 54 EFDESDLLAYCRHHDIQL-E-GIVGCRPQVLNPNSNAMSKIITE 95 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~l-d-~IVGCiPQvLnpnp~amsk~ite 95 (118)
+|.-.++|.+++-.+-.. + .|+||.|+.+.+. ..||.-+.+
T Consensus 94 ~~~l~~~L~~~~~~g~~p~~v~lvgiep~~~~~g-~~LS~~V~~ 136 (164)
T PRK10466 94 QLGLADVLSALRFTGEFPKKLTLVGVIPESLEPH-IGLTPTVEA 136 (164)
T ss_pred cCCHHHHHHHHHHcCCCCCeEEEEEEEEeeccCC-CCCCHHHHH
Confidence 344567898887554332 4 6889999988764 456655543
No 96
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=28.24 E-value=18 Score=25.53 Aligned_cols=21 Identities=19% Similarity=0.169 Sum_probs=16.4
Q ss_pred CcccCCCCcchhhhHHHHHHh
Q 042087 1 VYGLDINPRAIKISWIKLYLN 21 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLN 21 (118)
|+|+|+||.+++.+.-|+=.+
T Consensus 58 v~~vD~s~~~~~~a~~n~~~~ 78 (187)
T PRK08287 58 VTAIERNPDALRLIKENRQRF 78 (187)
T ss_pred EEEEECCHHHHHHHHHHHHHh
Confidence 579999999999887665333
No 97
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=27.75 E-value=19 Score=29.73 Aligned_cols=23 Identities=30% Similarity=0.691 Sum_probs=19.6
Q ss_pred cceeeecchhhhhhhhccCCccc
Q 042087 49 YERRVEFDESDLLAYCRHHDIQL 71 (118)
Q Consensus 49 l~~RveF~eSDLL~ycr~~~i~l 71 (118)
.++-+-|-.+||+.|||+++++.
T Consensus 176 klsDllFAK~~L~nyc~eqn~~f 198 (220)
T COG4359 176 KLSDLLFAKDDLLNYCREQNLNF 198 (220)
T ss_pred hhhhhHhhHHHHHHHHHHcCCCC
Confidence 56677899999999999999864
No 98
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=27.64 E-value=24 Score=25.12 Aligned_cols=19 Identities=16% Similarity=0.415 Sum_probs=15.1
Q ss_pred eecchhhhhhhhccCCccc
Q 042087 53 VEFDESDLLAYCRHHDIQL 71 (118)
Q Consensus 53 veF~eSDLL~ycr~~~i~l 71 (118)
+.+.++|+..||+.++|++
T Consensus 145 l~~~k~ei~~~~~~~~i~~ 163 (182)
T PF01171_consen 145 LYVSKDEIRAYAKENGIPY 163 (182)
T ss_dssp GCS-HHHHHHHHHHTT-SS
T ss_pred hhCCHHHHHHHHHHCCCcE
Confidence 4688999999999999875
No 99
>KOG2730 consensus Methylase [General function prediction only]
Probab=26.73 E-value=19 Score=30.33 Aligned_cols=40 Identities=25% Similarity=0.412 Sum_probs=27.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhcc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRH 66 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~ 66 (118)
|+++||+|--|+.+.=|+ +. .|.-|||+|-.-|.|.-...
T Consensus 119 VisIdiDPikIa~AkhNa-------------------ei-------YGI~~rItFI~GD~ld~~~~ 158 (263)
T KOG2730|consen 119 VIAIDIDPVKIACARHNA-------------------EV-------YGVPDRITFICGDFLDLASK 158 (263)
T ss_pred EEEEeccHHHHHHHhccc-------------------ee-------ecCCceeEEEechHHHHHHH
Confidence 678899997776665543 22 45788888888887766543
No 100
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=26.60 E-value=67 Score=24.60 Aligned_cols=29 Identities=14% Similarity=0.202 Sum_probs=19.4
Q ss_pred eeeecchhhhhhhhccCCcccceeeeccc
Q 042087 51 RRVEFDESDLLAYCRHHDIQLEGIVGCRP 79 (118)
Q Consensus 51 ~RveF~eSDLL~ycr~~~i~ld~IVGCiP 79 (118)
.|+++...|-..+.+..+-+.|.|+--.|
T Consensus 126 ~~v~i~~~D~~~~l~~~~~~yDvIi~D~~ 154 (270)
T TIGR00417 126 PRVDLQIDDGFKFLADTENTFDVIIVDST 154 (270)
T ss_pred CceEEEECchHHHHHhCCCCccEEEEeCC
Confidence 35666667777776655567888876544
No 101
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=26.16 E-value=8.7 Score=27.23 Aligned_cols=33 Identities=27% Similarity=0.375 Sum_probs=27.6
Q ss_pred cccccccceeeecchhhhhhhhccCCcccceee
Q 042087 43 RGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 43 ~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
+++|=+++|=+-=||.+|+++|...++..+.|+
T Consensus 45 p~FL~~VLdFl~~de~~l~af~~a~~~~p~~v~ 77 (88)
T PF12096_consen 45 PAFLAAVLDFLLMDEAWLLAFCDAAGIPPEAVA 77 (88)
T ss_pred hHHHHHHHHHHHcchHHHHHHHHHcCcChhHHH
Confidence 466777888888899999999999999877664
No 102
>PF00782 DSPc: Dual specificity phosphatase, catalytic domain; InterPro: IPR000340 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents dual specificity protein-tyrosine phosphatases. Ser/Thr and Tyr dual specificity phosphatases are a group of enzymes with both Ser/Thr (3.1.3.16 from EC) and tyrosine specific protein phosphatase (3.1.3.48 from EC) activity able to remove both the serine/threonine or tyrosine-bound phosphate group from a wide range of phosphoproteins, including a number of enzymes which have been phosphorylated under the action of a kinase. Dual specificity protein phosphatases (DSPs) regulate mitogenic signal transduction and control the cell cycle. The crystal structure of a human DSP, vaccinia H1-related phosphatase (or VHR), has been determined at 2.1 angstrom resolution []. A shallow active site pocket in VHR allows for the hydrolysis of phosphorylated serine, threonine, or tyrosine protein residues, whereas the deeper active site of protein tyrosine phosphatases (PTPs) restricts substrate specificity to only phosphotyrosine. Positively charged crevices near the active site may explain the enzyme's preference for substrates with two phosphorylated residues. The VHR structure defines a conserved structural scaffold for both DSPs and PTPs. A "recognition region" connecting helix alpha1 to strand beta1, may determine differences in substrate specificity between VHR, the PTPs, and other DSPs. These proteins may also have inactive phosphatase domains, and dependent on the domain composition this loss of catalytic activity has different effects on protein function. Inactive single domain phosphatases can still specifically bind substrates, and protect again dephosphorylation, while the inactive domains of tandem phosphatases can be further subdivided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre [].; GO: 0008138 protein tyrosine/serine/threonine phosphatase activity, 0006470 protein dephosphorylation; PDB: 2G6Z_A 1MKP_A 1YZ4_A 2P4D_A 1M3G_A 1ZZW_A 2OUD_A 2HXP_A 3LJ8_A 1OHD_A ....
Probab=25.95 E-value=47 Score=21.68 Aligned_cols=27 Identities=15% Similarity=0.255 Sum_probs=19.6
Q ss_pred hhHHHHHHhhhcccccccccccccccc
Q 042087 13 ISWIKLYLNALHESFSKLFCHCHCKRS 39 (118)
Q Consensus 13 iswinlyLNal~~~g~~~~d~~~e~kt 39 (118)
+..+.-+++....+|.+|+=||.-|.+
T Consensus 59 ~~~~~~~i~~~~~~~~~VlVHC~~G~~ 85 (133)
T PF00782_consen 59 LDQAVEFIENAISEGGKVLVHCKAGLS 85 (133)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEESSSSS
T ss_pred HHHHHHhhhhhhcccceeEEEeCCCcc
Confidence 344455666556789999999998874
No 103
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=25.86 E-value=31 Score=26.19 Aligned_cols=34 Identities=24% Similarity=0.623 Sum_probs=25.1
Q ss_pred ecchhhhhhhhccCCccccee-------eeccccccCCChh
Q 042087 54 EFDESDLLAYCRHHDIQLEGI-------VGCRPQVLNPNSN 87 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~ld~I-------VGCiPQvLnpnp~ 87 (118)
.+.++|...|++.++|+.--+ |||.|=---..|.
T Consensus 177 ~Wt~~dV~~Yi~~~~lp~~pLY~~Gy~siGC~~Ct~~~~~~ 217 (241)
T PRK02090 177 DWTNEDVWAYLKEHDLPYHPLVDQGYPSIGCEPCTRPVEPG 217 (241)
T ss_pred hCCHHHHHHHHHHcCCCCChHHHcCCCCcCCCCCCCCCCCC
Confidence 468999999999999985332 5998865544444
No 104
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=25.80 E-value=38 Score=23.67 Aligned_cols=45 Identities=20% Similarity=0.183 Sum_probs=35.8
Q ss_pred cceeeecchhhhhhhhccCCcccceeeeccccccCC---ChhHHHHHhhhc
Q 042087 49 YERRVEFDESDLLAYCRHHDIQLEGIVGCRPQVLNP---NSNAMSKIITEN 96 (118)
Q Consensus 49 l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQvLnp---np~amsk~iten 96 (118)
+--.|.|...++-..|.+.+++.+.|- ||..-| |-++|.|+|.||
T Consensus 56 l~PQi~~~~~~i~~~~~~~~ipv~~I~---~~~Y~~~~~~~~~~~~~~~~~ 103 (104)
T PRK09590 56 VSPQTKMYFKQFEEAGAKVGKPVVQIP---PQAYIPIPMGIEKMAKLILEN 103 (104)
T ss_pred EChHHHHHHHHHHHHhhhcCCCEEEeC---HHHcCCCccCHHHHHHHHHhc
Confidence 344889999999999988899887764 456665 678999999887
No 105
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=25.72 E-value=26 Score=25.80 Aligned_cols=23 Identities=13% Similarity=-0.081 Sum_probs=19.8
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+++|+||+|+++.--|+=+|++
T Consensus 75 v~~vE~~~~a~~~~~~N~~~~~~ 97 (189)
T TIGR00095 75 AFLEEDDRKANQTLKENLALLKS 97 (189)
T ss_pred EEEEeCCHHHHHHHHHHHHHhCC
Confidence 57899999999999988877765
No 106
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=24.75 E-value=38 Score=27.62 Aligned_cols=23 Identities=9% Similarity=0.098 Sum_probs=17.2
Q ss_pred CcccCCCCcchhhhHHHHHHhhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNAL 23 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal 23 (118)
|+|+|++|..++.+.-|+=-++.
T Consensus 108 VvgVDis~~~l~~Ar~~l~~~g~ 130 (322)
T PRK13943 108 VVSVEYSRKICEIAKRNVRRLGI 130 (322)
T ss_pred EEEEECCHHHHHHHHHHHHHcCC
Confidence 57889999998888877654443
No 107
>cd06068 H2MP_like-1 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.
Probab=24.41 E-value=46 Score=23.35 Aligned_cols=38 Identities=21% Similarity=0.327 Sum_probs=25.6
Q ss_pred chhhhhhhhccCCccc--ceeeeccccccCCChhHHHHHhh
Q 042087 56 DESDLLAYCRHHDIQL--EGIVGCRPQVLNPNSNAMSKIIT 94 (118)
Q Consensus 56 ~eSDLL~ycr~~~i~l--d~IVGCiPQvLnpnp~amsk~it 94 (118)
.-+++|..++..+-.. =.|+||.|+.+.+ ...||.-+.
T Consensus 91 ~~~~~l~~~~~l~~~~~~~~lvgi~~~~~~~-g~~LS~~v~ 130 (144)
T cd06068 91 NPDAVLALLRALGGTPPRVVVVGCEPADVDE-GIGLSEPVA 130 (144)
T ss_pred CHHHHHHHHHHhCCCCCeEEEEEEEecccCC-CCCcCHHHH
Confidence 3456788887654432 4678999999987 456665554
No 108
>PF09236 AHSP: Alpha-haemoglobin stabilising protein; InterPro: IPR015317 Alpha-haemoglobin stabilising protein (AHSP) acts a molecular chaperone for free alpha-haemoglobin, preventing the harmful aggregation of alpha-haemoglobin during normal erythroid cell development: it specifically protects free alpha-haemoglobin from precipitation. AHSP adopts a helical secondary structure consisting of an elongated antiparallel three alpha-helix bundle []. ; GO: 0030492 hemoglobin binding, 0006457 protein folding, 0020027 hemoglobin metabolic process, 0030097 hemopoiesis, 0050821 protein stabilization; PDB: 1Y01_A 1XZY_A 3OVU_A 1W0A_A 3IA3_C 1Z8U_A 1W0B_A 1W09_A.
Probab=24.31 E-value=38 Score=24.65 Aligned_cols=11 Identities=27% Similarity=0.908 Sum_probs=9.1
Q ss_pred hhHHHHHHhhh
Q 042087 13 ISWIKLYLNAL 23 (118)
Q Consensus 13 iswinlyLNal 23 (118)
=.|+|.|+|=.
T Consensus 38 ~DwvnfYINYy 48 (89)
T PF09236_consen 38 NDWVNFYINYY 48 (89)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 36999999965
No 109
>PF04762 IKI3: IKI3 family; InterPro: IPR006849 Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation [].
Probab=24.31 E-value=40 Score=31.41 Aligned_cols=70 Identities=30% Similarity=0.450 Sum_probs=45.4
Q ss_pred CCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeeccccccCCC
Q 042087 6 INPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQVLNPN 85 (118)
Q Consensus 6 iNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQvLnpn 85 (118)
|.||+..++=|--+|++. .=+++ ...||.|.|.|..|+-.=|+-+--|
T Consensus 691 I~PR~LVL~~ir~~Ld~~-----------~Y~~A---------------------f~~~RkhRIdlNll~Dh~p~~Fl~n 738 (928)
T PF04762_consen 691 IYPRALVLAGIRKLLDAK-----------DYKEA---------------------FELCRKHRIDLNLLYDHNPEQFLEN 738 (928)
T ss_pred hccHhHHHHHHHHHHhhc-----------cHHHH---------------------HHHHHHhccccceEEECCHHHHHHH
Confidence 788988888888777765 22233 5689999999999998877766555
Q ss_pred hhHHHHHhhh-cccHHHHHhhhc
Q 042087 86 SNAMSKIITE-NASEEFLYSLSN 107 (118)
Q Consensus 86 p~amsk~ite-nAsEefLysLSN 107 (118)
-+..-+-|.+ +-=..||-+|.|
T Consensus 739 i~~Fv~qi~~~~~lnLFls~L~~ 761 (928)
T PF04762_consen 739 IELFVEQIKDVDYLNLFLSSLRN 761 (928)
T ss_pred HHHHHHhcCCHHHHHHHHHhccc
Confidence 3322222211 223456666653
No 110
>PRK06202 hypothetical protein; Provisional
Probab=24.21 E-value=21 Score=26.02 Aligned_cols=17 Identities=29% Similarity=0.530 Sum_probs=14.1
Q ss_pred CcccCCCCcchhhhHHH
Q 042087 1 VYGLDINPRAIKISWIK 17 (118)
Q Consensus 1 VyGlDiNPrAikiswin 17 (118)
|.|+|++|.+++.+--+
T Consensus 91 v~gvD~s~~~l~~a~~~ 107 (232)
T PRK06202 91 VTAIDPDPRAVAFARAN 107 (232)
T ss_pred EEEEcCCHHHHHHHHhc
Confidence 57999999999887554
No 111
>KOG2078 consensus tRNA modification enzyme [RNA processing and modification]
Probab=24.18 E-value=24 Score=31.97 Aligned_cols=37 Identities=30% Similarity=0.400 Sum_probs=30.7
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRS 39 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt 39 (118)
||.-|+||++||+-=.|+=||-.|+.--.+|. ..++-
T Consensus 274 V~aNDLNpesik~Lk~ni~lNkv~~~~iei~N--mda~~ 310 (495)
T KOG2078|consen 274 VYANDLNPESIKWLKANIKLNKVDPSAIEIFN--MDAKD 310 (495)
T ss_pred EEecCCCHHHHHHHHHhccccccchhheeeec--ccHHH
Confidence 67889999999999999999999988667776 44444
No 112
>smart00070 GLUCA Glucagon like hormones.
Probab=24.17 E-value=61 Score=18.55 Aligned_cols=19 Identities=32% Similarity=0.396 Sum_probs=16.9
Q ss_pred hHHHHHhhhcccHHHHHhh
Q 042087 87 NAMSKIITENASEEFLYSL 105 (118)
Q Consensus 87 ~amsk~itenAsEefLysL 105 (118)
+++||+..+.+-.+||.+|
T Consensus 8 sdysk~L~~~~ar~fl~~L 26 (27)
T smart00070 8 SDYSKYLDQLAAKKFLQWL 26 (27)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 5789999999999999887
No 113
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=24.15 E-value=20 Score=27.08 Aligned_cols=15 Identities=47% Similarity=0.687 Sum_probs=12.9
Q ss_pred CcccCCCCcchhhhH
Q 042087 1 VYGLDINPRAIKISW 15 (118)
Q Consensus 1 VyGlDiNPrAikisw 15 (118)
|+|+||+|.+++.+-
T Consensus 115 v~giD~s~~~l~~A~ 129 (272)
T PRK11088 115 LFGLDISKVAIKYAA 129 (272)
T ss_pred EEEECCCHHHHHHHH
Confidence 579999999998874
No 114
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases []. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) [, ]. It is also found in NodP nodulation protein P from Rhizobium meliloti (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=24.11 E-value=20 Score=24.03 Aligned_cols=26 Identities=27% Similarity=0.673 Sum_probs=15.0
Q ss_pred ecchhhhhhhhccCCcccce-------eeeccc
Q 042087 54 EFDESDLLAYCRHHDIQLEG-------IVGCRP 79 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~ld~-------IVGCiP 79 (118)
.+.++|...|.+.+++++-. =+||++
T Consensus 138 ~wt~~dV~~yi~~~~l~~~~lY~~g~~r~GC~~ 170 (174)
T PF01507_consen 138 DWTEEDVWDYIKANGLPYNPLYDKGYSRVGCWP 170 (174)
T ss_dssp T--HHHHHHHHHHHT--B-HHHHCT-SS--BTT
T ss_pred hCCHHHHHHHHHHhcCCCcHHHHCcCCCcCCcc
Confidence 46789999999999997422 267775
No 115
>PRK02318 mannitol-1-phosphate 5-dehydrogenase; Provisional
Probab=23.70 E-value=50 Score=26.69 Aligned_cols=29 Identities=24% Similarity=0.461 Sum_probs=22.1
Q ss_pred CCChhHHHHHhhhcccHHHHHhhhcccccccc
Q 042087 83 NPNSNAMSKIITENASEEFLYSLSNYCGLQVG 114 (118)
Q Consensus 83 npnp~amsk~itenAsEefLysLSNYc~lQ~~ 114 (118)
+|...++.+++.|+.=|+++ +.||+|+.+
T Consensus 338 D~~~~~l~~~~~~~~~~~~~---~~~~~l~~~ 366 (381)
T PRK02318 338 DPQAVELQALIAEKGLEAAL---AEITGLDAD 366 (381)
T ss_pred ChHHHHHHHHHHhcCHHHHH---HHHhCCCCC
Confidence 34455677788888888887 899999864
No 116
>PRK13747 putative mercury resistance protein; Provisional
Probab=23.55 E-value=23 Score=25.24 Aligned_cols=11 Identities=45% Similarity=1.041 Sum_probs=8.8
Q ss_pred hhcccccccce
Q 042087 41 VLRGYLWGYER 51 (118)
Q Consensus 41 ~~~~~~~~l~~ 51 (118)
..+||+||.+-
T Consensus 14 ~~~~YlWg~lA 24 (78)
T PRK13747 14 PITGYLWGALA 24 (78)
T ss_pred cchhhhhHHHH
Confidence 36899999864
No 117
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=23.40 E-value=42 Score=24.76 Aligned_cols=18 Identities=17% Similarity=0.117 Sum_probs=14.3
Q ss_pred CcccCCCCcchhhhHHHH
Q 042087 1 VYGLDINPRAIKISWIKL 18 (118)
Q Consensus 1 VyGlDiNPrAikiswinl 18 (118)
|+|+|++|..+.++-=|+
T Consensus 104 V~~vE~~~~~~~~a~~~l 121 (212)
T PRK13942 104 VVTIERIPELAEKAKKTL 121 (212)
T ss_pred EEEEeCCHHHHHHHHHHH
Confidence 578999999888876554
No 118
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=23.08 E-value=24 Score=21.64 Aligned_cols=14 Identities=21% Similarity=0.363 Sum_probs=12.1
Q ss_pred HHhhhccccccccc
Q 042087 19 YLNALHESFSKLFC 32 (118)
Q Consensus 19 yLNal~~~g~~~~d 32 (118)
|-++.|++|.|+|-
T Consensus 12 ~~~G~d~~Gkpi~k 25 (47)
T PF07872_consen 12 YQTGVDENGKPIFK 25 (47)
T ss_pred EEcccCCCCCEEEE
Confidence 55789999999997
No 119
>PF03472 Autoind_bind: Autoinducer binding domain; InterPro: IPR005143 This domain binds N-acyl homoserine lactones (AHLs), which are also known as autoinducers. These are small, diffusible molecules used as communication signals in a large variety of proteobacteria. It is almost always found in association with the DNA-binding LuxR domain (IPR000792 from INTERPRO). The autoinducer binding domain forms the N-terminal region of the protein, while the DNA-binding domain forms the C-terminal region. In most cases, binding of AHL by this N-terminal domain leads to unmasking of the DNA-binding domain, allowing it to bind DNA and activate transcription []. In rare cases, some LuxR proteins such as EsaR, act as repressors []. In these proteins binding of AHL to this domain leads to inactivation of the protein as a transcriptional regulator. A large number of processes have been shown to be regulated by LuxR proteins, including bioluminescence, production of virulence factors in plant and animal pathogens, antibiotic production and plasmid transfer. Structural studies of TraR from Agrobacterium tumefaciens [, ] show that the functional protein is a homodimer. Binding of the cognate AHL is required for protein folding, resistance to proteases and dimerisation. The autoinducer binding domain binds its cognate AHL in an alpha/beta/alpha sandwich and provides an extensive dimerisation surface, though residues from the C-terminal region also make some contribution to dimerisation. The autoinducer binding domain is also required for interaction with RpoA, allowing transcription to occur []. There are some proteins which consist solely of the autoinducer binding domain. The function of these is not known, but TrlR from Agrobacterium has been shown to inhibit the activity of TraR by the formation of inactive heterodimers [].; PDB: 3SZT_A 1H0M_A 1L3L_B 2Q0O_B 2UV0_F 3IX8_A 3IX4_C 3IX3_A 3JPU_D 3QP8_A ....
Probab=22.91 E-value=50 Score=21.17 Aligned_cols=53 Identities=9% Similarity=0.239 Sum_probs=39.1
Q ss_pred hHHHHHHhhhcccccccccccccccchhhcccccccceee---ecchhhhhhhhccCCcc
Q 042087 14 SWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRV---EFDESDLLAYCRHHDIQ 70 (118)
Q Consensus 14 swinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~Rv---eF~eSDLL~ycr~~~i~ 70 (118)
.|++.|...---.--|+..||..... ...|.-+... +=.+.+++..+++.|+.
T Consensus 45 ~w~~~Y~~~~~~~~DPv~~~~~~~~~----p~~W~~~~~~~~~~~~~~~~~~~a~~~Gl~ 100 (149)
T PF03472_consen 45 EWLEHYEERGYFRIDPVVRHARRSSG----PFFWSDLFERDALSPEQRRFFDEARDFGLR 100 (149)
T ss_dssp HHHHHHHHTTGGGT-HHHHHHCHTSS----EEEEECHCTSSSSSHHHHHHHHHHHHTTTS
T ss_pred HHHHHHHHcCCcCCCHHHHHHHhCCC----CEEEccchhhhhhhHHHHHHHHHHHHcCCC
Confidence 79999987765666788887775544 5778776666 55667899999999983
No 120
>cd01321 ADGF Adenosine deaminase-related growth factors (ADGF), a novel family of secreted growth-factors with sequence similarty to adenosine deaminase.
Probab=22.28 E-value=51 Score=26.80 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=41.7
Q ss_pred CcccCC--CCc-ch-hhhHHHHHHhhhcccc--cccccccccccc------hhhcccccccceeeec-----chhhhhhh
Q 042087 1 VYGLDI--NPR-AI-KISWIKLYLNALHESF--SKLFCHCHCKRS------FVLRGYLWGYERRVEF-----DESDLLAY 63 (118)
Q Consensus 1 VyGlDi--NPr-Ai-kiswinlyLNal~~~g--~~~~d~~~e~kt------~~~~~~~~~l~~RveF-----~eSDLL~y 63 (118)
|.|+|| +|. .- .-....+|-.|- +.| .++.-|++|... ..++.-+-.-.+|+-= ...+|+++
T Consensus 163 VvGidL~G~E~~~~~~~~f~~~f~~ar-~~g~~l~~t~HAGE~~~~~~~~~~~v~~al~lg~~RIGHG~~~~~dp~ll~~ 241 (345)
T cd01321 163 IAGFDLVGQEDAGRPLLDFLPQLLWFP-KQCAEIPFFFHAGETNGDGTETDENLVDALLLNTKRIGHGFALPKHPLLMDL 241 (345)
T ss_pred EEEEecCCCccCCCCHHHHHHHHHHHH-HhCCCCceEeecCCCcCCCCCChhHHHHHHHhCCCcCccccccCcCHHHHHH
Confidence 457777 553 11 223345555544 457 999999998641 1122222123345431 23589999
Q ss_pred hccCCcccce
Q 042087 64 CRHHDIQLEG 73 (118)
Q Consensus 64 cr~~~i~ld~ 73 (118)
+++++|.+|.
T Consensus 242 l~~~~I~lEv 251 (345)
T cd01321 242 VKKKNIAIEV 251 (345)
T ss_pred HHHcCCeEEE
Confidence 9999999884
No 121
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=22.26 E-value=84 Score=24.56 Aligned_cols=72 Identities=15% Similarity=0.120 Sum_probs=39.5
Q ss_pred Hhhhccc--ccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccc-eeeecc-ccccCCChhHHHHHh
Q 042087 20 LNALHES--FSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLE-GIVGCR-PQVLNPNSNAMSKII 93 (118)
Q Consensus 20 LNal~~~--g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld-~IVGCi-PQvLnpnp~amsk~i 93 (118)
+.++.+. +.++.-||+... -.+.-+.+-=.+-++++.+.=+..+++. +.=+ .|.|-+ |++|..+|+++.+-+
T Consensus 224 ~~~i~~~~~~~~ilh~cg~~~-~~~~~~~~~~~~~~s~d~~~dl~e~~~~-~~~~~~i~Gni~p~~l~gt~e~i~~~v 299 (338)
T TIGR01464 224 IEEVKARLPNVPVILFAKGAG-HLLEELAETGADVVGLDWTVDLKEARKR-VGPGVAIQGNLDPAVLYAPEEALEEKV 299 (338)
T ss_pred HHHHHHhCCCCCEEEEeCCcH-HHHHHHHhcCCCEEEeCCCCCHHHHHHH-hCCCeeEEeCCChHHhcCCHHHHHHHH
Confidence 3455443 567777777332 2233333322456666665444454322 1212 688888 788988888766433
No 122
>PF08235 LNS2: LNS2 (Lipin/Ned1/Smp2); InterPro: IPR013209 This domain is found in Saccharomyces cerevisiae (Baker's yeast) protein SMP2, proteins with an N-terminal lipin domain (IPR007651 from INTERPRO) and phosphatidylinositol transfer proteins []. SMP2 is involved in plasmid maintenance and respiration []. Lipin proteins are involved in adipose tissue development and insulin resistance [].
Probab=22.02 E-value=78 Score=24.02 Aligned_cols=51 Identities=16% Similarity=0.236 Sum_probs=39.1
Q ss_pred CCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceee
Q 042087 5 DINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIV 75 (118)
Q Consensus 5 DiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IV 75 (118)
+=+|..-|++.++-..+.+-.++.|+|. +=|-+ .+|..+|- ..||+-++|-
T Consensus 96 ~~~p~~fK~~~L~~l~~~f~~~~~pf~a--gfGN~-----------------~tDv~aY~-~vGip~~rIF 146 (157)
T PF08235_consen 96 SKDPEEFKIACLRDLRALFPPDGNPFYA--GFGNR-----------------STDVIAYK-AVGIPKSRIF 146 (157)
T ss_pred ccChHHHHHHHHHHHHHhcCCCCCeEEE--ecCCc-----------------HHHHHHHH-HcCCChhhEE
Confidence 3368889999998888888778888887 32222 46999998 8899888763
No 123
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=21.95 E-value=22 Score=25.71 Aligned_cols=15 Identities=33% Similarity=0.355 Sum_probs=12.5
Q ss_pred CcccCCCCcchhhhH
Q 042087 1 VYGLDINPRAIKISW 15 (118)
Q Consensus 1 VyGlDiNPrAikisw 15 (118)
|+|+|++|.+++.+-
T Consensus 55 V~~iD~s~~~l~~a~ 69 (195)
T TIGR00477 55 VRAWDHNPASIASVL 69 (195)
T ss_pred EEEEECCHHHHHHHH
Confidence 689999999888653
No 124
>PF05379 Peptidase_C23: Carlavirus endopeptidase ; InterPro: IPR008041 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C23 (clan CA). The type example is Carlavirus (apple stem pitting virus) endopeptidase, this thought to play a role in the post-translational cleavage of the high molecular weight primary translation products of the virus.; GO: 0003968 RNA-directed RNA polymerase activity, 0016817 hydrolase activity, acting on acid anhydrides
Probab=21.75 E-value=62 Score=22.26 Aligned_cols=41 Identities=17% Similarity=0.286 Sum_probs=35.0
Q ss_pred eeeeccccccCCChhHHHHHhhhcccHHHHHhhhccccccc
Q 042087 73 GIVGCRPQVLNPNSNAMSKIITENASEEFLYSLSNYCGLQV 113 (118)
Q Consensus 73 ~IVGCiPQvLnpnp~amsk~itenAsEefLysLSNYc~lQ~ 113 (118)
+++=.|-|-|+-.+.++.+.+..+.+++|+.+|..=.+++.
T Consensus 5 Cvi~AiA~aL~R~~~dVl~Vl~~~~~~~~~~~l~~G~Gl~l 45 (89)
T PF05379_consen 5 CVIRAIAEALGRREQDVLAVLSRKCGEELLEELWSGEGLDL 45 (89)
T ss_pred chhHHHHHHhCCCHHHHHHHHHhccCHHHHHHHHcCCCcCH
Confidence 45556778899999999999999999999999988777664
No 125
>PF13919 ASXH: Asx homology domain
Probab=21.68 E-value=80 Score=23.26 Aligned_cols=49 Identities=22% Similarity=0.276 Sum_probs=31.3
Q ss_pred hhhhhhhccCCcccceeee--ccccccCCChhHHHHHhhhcccHHHHHhhhcccc-ccccccC
Q 042087 58 SDLLAYCRHHDIQLEGIVG--CRPQVLNPNSNAMSKIITENASEEFLYSLSNYCG-LQVGRYS 117 (118)
Q Consensus 58 SDLL~ycr~~~i~ld~IVG--CiPQvLnpnp~amsk~itenAsEefLysLSNYc~-lQ~~~~~ 117 (118)
..||++.=+ .|.++| .-|..+. .+..|- | ||.|-+++..|.- |+.|+|.
T Consensus 53 ~eLl~LLP~----~D~~~~~~~~~~~~~-l~~S~l-----n-n~~F~~a~~~fqe~L~~G~~~ 104 (138)
T PF13919_consen 53 QELLKLLPE----VDRQVGPDPPDDSLP-LSESAL-----N-NEFFRDACQEFQERLAEGEFD 104 (138)
T ss_pred HHHHHhCCC----CCcccccCCCccccc-CCHHHh-----c-CHHHHHHHHHHHHHHHcCCCC
Confidence 467777733 566665 2333333 233333 3 8999999999985 7888885
No 126
>PF12444 Sox_N: Sox developmental protein N terminal ; InterPro: IPR022151 This domain family is found in eukaryotes, and is typically between 69 and 88 amino acids in length. The family is found in association with PF00505 from PFAM. There are two conserved sequence motifs: YDW and PVR. This family contains Sox8, Sox9 and Sox10 proteins which have structural similarity. Sox proteins are involved in developmental processes.
Probab=21.57 E-value=36 Score=23.92 Aligned_cols=12 Identities=50% Similarity=0.869 Sum_probs=10.3
Q ss_pred chhhcccccccc
Q 042087 39 SFVLRGYLWGYE 50 (118)
Q Consensus 39 t~~~~~~~~~l~ 50 (118)
+-||.||=|.|+
T Consensus 67 sqVLkGYDWtLV 78 (84)
T PF12444_consen 67 SQVLKGYDWTLV 78 (84)
T ss_pred HHHhccCCceee
Confidence 468999999986
No 127
>PRK07402 precorrin-6B methylase; Provisional
Probab=21.41 E-value=29 Score=24.71 Aligned_cols=22 Identities=5% Similarity=0.019 Sum_probs=16.9
Q ss_pred CcccCCCCcchhhhHHHHHHhh
Q 042087 1 VYGLDINPRAIKISWIKLYLNA 22 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNa 22 (118)
|+|+|+||.+++.+--|+=.++
T Consensus 67 V~~vD~s~~~~~~a~~n~~~~~ 88 (196)
T PRK07402 67 VIAIERDEEVVNLIRRNCDRFG 88 (196)
T ss_pred EEEEeCCHHHHHHHHHHHHHhC
Confidence 5789999999998876664333
No 128
>PHA03412 putative methyltransferase; Provisional
Probab=21.36 E-value=24 Score=28.57 Aligned_cols=47 Identities=13% Similarity=0.122 Sum_probs=31.9
Q ss_pred CcccCCCCcchhhhHHHHHHhhhcccccccccccccccchhhcccccccceeeecchhhhhhhhccCCcccceeeecccc
Q 042087 1 VYGLDINPRAIKISWIKLYLNALHESFSKLFCHCHCKRSFVLRGYLWGYERRVEFDESDLLAYCRHHDIQLEGIVGCRPQ 80 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLNal~~~g~~~~d~~~e~kt~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ld~IVGCiPQ 80 (118)
|+|+||||.|+.++.-|+ .+++|..+|++.+- .+-..|.||+==|=
T Consensus 79 V~aVEID~~Al~~Ar~n~--------------------------------~~~~~~~~D~~~~~--~~~~FDlIIsNPPY 124 (241)
T PHA03412 79 IVCVELNHTYYKLGKRIV--------------------------------PEATWINADALTTE--FDTLFDMAISNPPF 124 (241)
T ss_pred EEEEECCHHHHHHHHhhc--------------------------------cCCEEEEcchhccc--ccCCccEEEECCCC
Confidence 578999999999998552 12455567776543 12378999886654
Q ss_pred c
Q 042087 81 V 81 (118)
Q Consensus 81 v 81 (118)
.
T Consensus 125 ~ 125 (241)
T PHA03412 125 G 125 (241)
T ss_pred C
Confidence 4
No 129
>TIGR02055 APS_reductase thioredoxin-dependent adenylylsulfate APS reductase. This model describes recently identified adenosine 5'-phosphosulfate (APS) reductase activity found in sulfate-assimilatory prokaryotes, thus separating it from the traditionally described phosphoadenosine 5'-phosphosulfate (PAPS) reductases found in bacteria and fungi. Homologous to PAPS reductase in enterobacteria, cyanobacteria, and yeast, APS reductase here clusters with, and demonstrates greater homology to plant APS reductase. Additionally, the presence of two conserved C-terminal motifs (CCXXRKXXPL & SXGCXXCT) distinguishes APS substrate specificity and serves as a FeS cluster.
Probab=21.26 E-value=39 Score=24.97 Aligned_cols=29 Identities=17% Similarity=0.601 Sum_probs=23.6
Q ss_pred ecchhhhhhhhccCCccccee-------eecccccc
Q 042087 54 EFDESDLLAYCRHHDIQLEGI-------VGCRPQVL 82 (118)
Q Consensus 54 eF~eSDLL~ycr~~~i~ld~I-------VGCiPQvL 82 (118)
.+.+.|+..|.+.++|+.--+ +||.|=..
T Consensus 131 ~Wt~~dVw~Yi~~~~lp~npLY~~Gy~siGC~~Ct~ 166 (191)
T TIGR02055 131 DWTSEDVWEYIADNELPYNPLHDRGYPSIGCEPCTR 166 (191)
T ss_pred cCCHHHHHHHHHHcCCCCChHHHcCCCCCCCcCCCC
Confidence 467899999999999988655 79987544
No 130
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=20.67 E-value=23 Score=26.75 Aligned_cols=12 Identities=25% Similarity=0.612 Sum_probs=11.2
Q ss_pred CcccCCCCcchh
Q 042087 1 VYGLDINPRAIK 12 (118)
Q Consensus 1 VyGlDiNPrAik 12 (118)
|.|+||+|.||.
T Consensus 59 V~gvD~S~~Ai~ 70 (213)
T TIGR03840 59 VLGVELSEIAVE 70 (213)
T ss_pred EEEEeCCHHHHH
Confidence 789999999998
No 131
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=20.43 E-value=66 Score=28.19 Aligned_cols=21 Identities=33% Similarity=0.396 Sum_probs=18.7
Q ss_pred CcccCCCCcchhhhHHHHHHh
Q 042087 1 VYGLDINPRAIKISWIKLYLN 21 (118)
Q Consensus 1 VyGlDiNPrAikiswinlyLN 21 (118)
|+.=||||.|+++.-.|+=+|
T Consensus 79 v~lNDisp~Avelik~Nv~~N 99 (380)
T COG1867 79 VVLNDISPKAVELIKENVRLN 99 (380)
T ss_pred EEEccCCHHHHHHHHHHHHhc
Confidence 345699999999999999999
No 132
>PF15088 NADH_dh_m_C1: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Probab=20.13 E-value=24 Score=23.38 Aligned_cols=30 Identities=23% Similarity=0.484 Sum_probs=22.3
Q ss_pred chhhcccccccceeeecchhhhhhhhccCCcc
Q 042087 39 SFVLRGYLWGYERRVEFDESDLLAYCRHHDIQ 70 (118)
Q Consensus 39 t~~~~~~~~~l~~RveF~eSDLL~ycr~~~i~ 70 (118)
||--.-+||+++= .=|..|.+.|-|.+|.|
T Consensus 20 tlGts~flW~~L~--kqHneDVlEYkrRNgLE 49 (49)
T PF15088_consen 20 TLGTSVFLWIYLI--KQHNEDVLEYKRRNGLE 49 (49)
T ss_pred ecchHHHHHHHHH--HhhchHHHHHHHhcCCC
Confidence 3444467898873 45889999999988865
No 133
>PF03721 UDPG_MGDP_dh_N: UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; InterPro: IPR001732 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the N-terminal NAD(+)-binding domain. Structural studies indicate that this domain forms an alpha-beta structure containing the six-stranded parallel beta sheet characteristic of the dinucleotide binding Rossman fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3OJO_A 3OJL_A 1MV8_B 1MUU_A 1MFZ_C 3GG2_D 1DLJ_A 1DLI_A 3G79_B 2Y0E_D ....
Probab=20.03 E-value=28 Score=25.69 Aligned_cols=15 Identities=13% Similarity=0.313 Sum_probs=8.2
Q ss_pred cceeeeccccccCCC
Q 042087 71 LEGIVGCRPQVLNPN 85 (118)
Q Consensus 71 ld~IVGCiPQvLnpn 85 (118)
-|.++=|.|.-.+++
T Consensus 77 adv~~I~VpTP~~~~ 91 (185)
T PF03721_consen 77 ADVVFICVPTPSDED 91 (185)
T ss_dssp -SEEEE----EBETT
T ss_pred cceEEEecCCCcccc
Confidence 478889999888776
Done!