Query 025126
Match_columns 257
No_of_seqs 236 out of 1366
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 02:55:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025126.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025126hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3332 N-acetylglucosaminyl p 100.0 2.7E-56 5.9E-61 377.4 23.5 245 1-256 3-247 (247)
2 TIGR03446 mycothiol_Mca mycoth 100.0 4E-36 8.6E-41 269.9 18.8 128 41-171 2-154 (283)
3 COG2120 Uncharacterized protei 100.0 3E-35 6.5E-40 258.7 17.6 181 37-234 8-196 (237)
4 TIGR03445 mycothiol_MshB 1D-my 100.0 9.3E-35 2E-39 261.5 18.9 125 43-171 1-156 (284)
5 PRK02122 glucosamine-6-phospha 100.0 1.2E-31 2.7E-36 264.2 19.1 181 37-236 367-607 (652)
6 PF02585 PIG-L: GlcNAc-PI de-N 100.0 1E-31 2.2E-36 214.3 12.2 119 43-167 1-128 (128)
7 PF01012 ETF: Electron transfe 94.6 0.15 3.2E-06 41.9 7.1 91 41-146 1-98 (164)
8 cd01715 ETF_alpha The electron 92.3 1.7 3.6E-05 35.9 9.9 90 41-146 1-91 (168)
9 PF12683 DUF3798: Protein of u 91.4 0.65 1.4E-05 41.7 6.7 88 55-145 117-206 (275)
10 cd01985 ETF The electron trans 90.5 3.3 7.1E-05 34.4 9.9 47 93-146 53-99 (181)
11 PF04007 DUF354: Protein of un 88.6 4.8 0.0001 37.4 10.3 89 40-145 1-90 (335)
12 PRK00726 murG undecaprenyldiph 87.0 2.9 6.3E-05 38.1 7.9 92 40-146 2-99 (357)
13 PRK11677 hypothetical protein; 83.6 1.1 2.4E-05 36.2 2.9 25 1-25 1-27 (134)
14 cd03796 GT1_PIG-A_like This fa 81.9 9 0.00019 35.5 8.9 87 48-148 12-98 (398)
15 cd01714 ETF_beta The electron 81.7 13 0.00028 31.8 9.1 66 66-146 51-116 (202)
16 cd03808 GT1_cap1E_like This fa 80.4 11 0.00024 32.7 8.4 88 41-146 1-88 (359)
17 PF15050 SCIMP: SCIMP protein 80.4 2 4.4E-05 33.9 3.2 22 5-26 16-38 (133)
18 COG2025 FixB Electron transfer 79.7 20 0.00043 33.1 10.0 87 40-146 1-88 (313)
19 PRK12342 hypothetical protein; 79.4 18 0.00039 32.3 9.4 82 63-158 47-128 (254)
20 PF00763 THF_DHG_CYH: Tetrahyd 79.3 26 0.00057 27.2 9.3 90 58-161 18-108 (117)
21 PF10740 DUF2529: Protein of u 78.1 3.9 8.6E-05 34.3 4.5 37 36-74 79-115 (172)
22 PF13477 Glyco_trans_4_2: Glyc 77.8 19 0.00042 27.6 8.3 82 42-147 2-83 (139)
23 TIGR00824 EIIA-man PTS system, 77.8 25 0.00053 27.3 8.8 66 71-150 3-70 (116)
24 PRK09814 beta-1,6-galactofuran 75.9 16 0.00035 33.3 8.4 70 70-147 3-73 (333)
25 PF13377 Peripla_BP_3: Peripla 75.5 19 0.00041 28.2 7.8 99 61-181 2-103 (160)
26 TIGR01133 murG undecaprenyldip 74.9 15 0.00033 32.9 7.9 77 55-145 16-97 (348)
27 TIGR03088 stp2 sugar transfera 74.6 19 0.00042 32.6 8.6 81 40-146 2-89 (374)
28 PF05706 CDKN3: Cyclin-depende 74.2 3.9 8.4E-05 34.3 3.4 85 57-152 61-145 (168)
29 PLN00022 electron transfer fla 73.7 23 0.00049 33.3 8.8 96 37-146 24-125 (356)
30 COG0381 WecB UDP-N-acetylgluco 73.2 21 0.00045 33.9 8.4 107 42-168 7-114 (383)
31 PRK13384 delta-aminolevulinic 72.8 32 0.00069 31.8 9.2 75 70-146 34-120 (322)
32 cd03785 GT1_MurG MurG is an N- 72.1 10 0.00023 34.0 6.1 21 126-146 77-97 (350)
33 PRK01021 lpxB lipid-A-disaccha 70.1 1.1E+02 0.0023 31.0 13.0 25 125-149 297-321 (608)
34 cd01994 Alpha_ANH_like_IV This 69.3 36 0.00079 28.9 8.5 77 60-145 16-95 (194)
35 cd00384 ALAD_PBGS Porphobilino 68.8 45 0.00097 30.7 9.2 75 70-146 24-110 (314)
36 PRK03359 putative electron tra 68.4 40 0.00087 30.1 8.8 84 61-158 46-131 (256)
37 COG2249 MdaB Putative NADPH-qu 68.2 3.9 8.5E-05 34.8 2.3 30 40-72 1-35 (189)
38 PF07364 DUF1485: Protein of u 68.1 31 0.00067 31.5 8.2 119 42-168 25-178 (292)
39 COG2086 FixA Electron transfer 67.2 54 0.0012 29.4 9.4 85 61-159 47-131 (260)
40 cd04951 GT1_WbdM_like This fam 66.3 29 0.00062 30.7 7.7 20 128-147 69-88 (360)
41 cd04962 GT1_like_5 This family 65.4 8.8 0.00019 34.5 4.2 21 126-146 72-92 (371)
42 PF04273 DUF442: Putative phos 65.2 44 0.00096 25.8 7.5 73 60-145 20-92 (110)
43 cd06294 PBP1_ycjW_transcriptio 64.9 86 0.0019 26.5 12.3 100 61-180 115-217 (270)
44 COG3105 Uncharacterized protei 64.0 6 0.00013 31.7 2.4 26 1-26 6-33 (138)
45 PRK11303 DNA-binding transcrip 63.0 68 0.0015 28.4 9.5 73 61-145 172-245 (328)
46 cd03818 GT1_ExpC_like This fam 62.1 65 0.0014 29.7 9.4 21 59-79 16-36 (396)
47 cd06272 PBP1_hexuronate_repres 62.0 98 0.0021 26.2 11.1 100 62-181 105-207 (261)
48 PF00490 ALAD: Delta-aminolevu 61.5 39 0.00084 31.3 7.5 75 70-146 30-118 (324)
49 PF14097 SpoVAE: Stage V sporu 61.1 50 0.0011 27.8 7.4 62 72-150 2-64 (180)
50 PRK09283 delta-aminolevulinic 60.5 72 0.0016 29.5 9.0 75 70-146 32-118 (323)
51 cd03812 GT1_CapH_like This fam 59.0 87 0.0019 27.6 9.5 81 41-146 1-88 (358)
52 cd00886 MogA_MoaB MogA_MoaB fa 58.9 76 0.0016 25.6 8.2 60 91-165 25-85 (152)
53 cd06287 PBP1_LacI_like_8 Ligan 58.9 1.2E+02 0.0026 26.2 11.9 102 57-179 107-211 (269)
54 PRK11916 electron transfer fla 58.3 1.1E+02 0.0024 28.2 9.9 82 41-146 6-87 (312)
55 TIGR03030 CelA cellulose synth 57.7 2.3E+02 0.0049 29.0 15.2 58 42-100 134-204 (713)
56 PLN02871 UDP-sulfoquinovose:DA 57.3 54 0.0012 31.2 8.2 19 129-147 135-153 (465)
57 cd03814 GT1_like_2 This family 57.0 23 0.0005 31.0 5.3 19 128-146 73-91 (364)
58 cd03807 GT1_WbnK_like This fam 56.7 1E+02 0.0022 26.6 9.3 66 61-146 23-88 (365)
59 TIGR02417 fruct_sucro_rep D-fr 56.3 1E+02 0.0022 27.3 9.5 98 60-179 170-270 (327)
60 cd06274 PBP1_FruR Ligand bindi 56.1 1.3E+02 0.0027 25.6 9.7 105 56-180 103-212 (264)
61 PRK10703 DNA-binding transcrip 54.8 96 0.0021 27.7 9.1 99 62-180 172-273 (341)
62 PF13579 Glyco_trans_4_4: Glyc 54.7 8 0.00017 29.7 1.7 71 58-146 9-81 (160)
63 PRK05749 3-deoxy-D-manno-octul 54.4 1.8E+02 0.004 27.0 11.8 34 39-72 49-82 (425)
64 PRK10014 DNA-binding transcrip 54.2 1.4E+02 0.003 26.6 10.0 74 61-145 175-250 (342)
65 cd06271 PBP1_AglR_RafR_like Li 54.1 1.3E+02 0.0029 25.3 9.6 100 62-181 114-216 (268)
66 cd03799 GT1_amsK_like This is 54.0 31 0.00068 30.4 5.7 38 42-79 2-40 (355)
67 cd06306 PBP1_TorT-like TorT-li 53.4 1.5E+02 0.0032 25.5 11.4 89 70-180 126-215 (268)
68 cd03823 GT1_ExpE7_like This fa 53.3 22 0.00049 31.0 4.5 22 125-146 83-104 (359)
69 PRK03363 fixB putative electro 53.2 1.1E+02 0.0025 28.1 9.2 81 41-145 6-87 (313)
70 cd06299 PBP1_LacI_like_13 Liga 53.2 1.4E+02 0.003 25.2 11.6 100 61-181 109-210 (265)
71 TIGR03679 arCOG00187 arCOG0018 52.9 90 0.002 26.9 8.1 78 60-146 14-94 (218)
72 PF13439 Glyco_transf_4: Glyco 52.4 35 0.00076 26.5 5.2 21 125-145 67-87 (177)
73 PRK15179 Vi polysaccharide bio 52.2 1.8E+02 0.004 29.8 11.3 22 125-146 387-408 (694)
74 PRK10423 transcriptional repre 52.0 1.5E+02 0.0033 26.1 9.9 101 61-181 167-270 (327)
75 PRK09417 mogA molybdenum cofac 51.9 1.1E+02 0.0024 26.0 8.4 42 122-166 50-91 (193)
76 PRK10401 DNA-binding transcrip 51.7 1.3E+02 0.0029 26.9 9.5 100 61-180 169-271 (346)
77 cd04823 ALAD_PBGS_aspartate_ri 51.5 1.2E+02 0.0026 28.1 8.9 75 70-146 27-115 (320)
78 cd04824 eu_ALAD_PBGS_cysteine_ 51.4 1.3E+02 0.0029 27.8 9.1 87 58-146 7-113 (320)
79 PRK06988 putative formyltransf 50.7 85 0.0018 28.7 8.0 83 40-146 3-85 (312)
80 PRK10727 DNA-binding transcrip 50.6 1.9E+02 0.004 25.9 12.1 99 61-180 169-271 (343)
81 cd03786 GT1_UDP-GlcNAc_2-Epime 49.6 1.7E+02 0.0036 26.3 9.8 90 42-145 3-95 (363)
82 PRK04930 glutathione-regulated 49.4 46 0.001 28.2 5.6 39 39-77 5-43 (184)
83 TIGR02667 moaB_proteo molybden 48.8 73 0.0016 26.2 6.7 61 90-165 26-87 (163)
84 cd06298 PBP1_CcpA_like Ligand- 48.5 1.4E+02 0.0031 25.1 8.8 86 48-145 97-184 (268)
85 cd00758 MoCF_BD MoCF_BD: molyb 48.4 1.2E+02 0.0025 23.8 7.6 59 90-165 23-82 (133)
86 cd02008 TPP_IOR_alpha Thiamine 48.4 73 0.0016 26.2 6.7 93 39-146 69-176 (178)
87 TIGR00236 wecB UDP-N-acetylglu 48.3 94 0.002 28.3 8.0 88 43-145 5-93 (365)
88 COG1817 Uncharacterized protei 48.3 98 0.0021 28.8 7.8 85 41-144 2-90 (346)
89 PF03054 tRNA_Me_trans: tRNA m 47.9 55 0.0012 30.7 6.4 51 59-112 16-72 (356)
90 COG0223 Fmt Methionyl-tRNA for 47.8 52 0.0011 30.3 6.0 84 40-146 2-87 (307)
91 PRK15454 ethanol dehydrogenase 47.3 92 0.002 29.4 7.9 68 65-145 46-113 (395)
92 COG1015 DeoB Phosphopentomutas 47.0 79 0.0017 29.9 7.1 99 59-158 229-347 (397)
93 PHA03392 egt ecdysteroid UDP-g 46.9 41 0.00089 32.9 5.6 35 41-75 22-57 (507)
94 PRK11041 DNA-binding transcrip 46.5 1.5E+02 0.0033 25.8 8.9 75 62-146 146-221 (309)
95 KOG2872 Uroporphyrinogen decar 46.4 1.2E+02 0.0026 28.0 7.9 87 55-159 260-348 (359)
96 cd06307 PBP1_uncharacterized_s 46.3 1.9E+02 0.0041 24.7 12.3 65 71-145 127-193 (275)
97 COG0482 TrmU Predicted tRNA(5- 46.1 57 0.0012 30.7 6.1 50 59-111 19-72 (356)
98 CHL00073 chlN photochlorophyll 46.1 2.1E+02 0.0046 27.8 10.2 86 37-145 312-398 (457)
99 PRK09526 lacI lac repressor; R 45.8 2.1E+02 0.0046 25.4 9.9 97 61-179 174-273 (342)
100 COG0113 HemB Delta-aminolevuli 45.7 1.5E+02 0.0033 27.4 8.5 75 70-146 34-122 (330)
101 cd00887 MoeA MoeA family. Memb 45.2 2E+02 0.0042 27.2 9.7 92 57-165 149-258 (394)
102 PF05393 Hum_adeno_E3A: Human 45.0 34 0.00073 25.6 3.5 11 41-51 68-78 (94)
103 cd06308 PBP1_sensor_kinase_lik 44.6 2E+02 0.0043 24.5 13.2 92 67-180 121-214 (270)
104 PRK06769 hypothetical protein; 44.5 1.7E+02 0.0037 23.9 8.3 43 56-100 33-75 (173)
105 PRK14169 bifunctional 5,10-met 44.3 2.3E+02 0.0051 25.7 9.6 86 60-159 21-107 (282)
106 COG2845 Uncharacterized protei 44.0 2.8E+02 0.006 26.0 10.5 16 66-81 140-155 (354)
107 cd06302 PBP1_LsrB_Quorum_Sensi 43.8 2.2E+02 0.0048 24.9 13.8 99 64-180 117-217 (298)
108 cd06278 PBP1_LacI_like_2 Ligan 43.8 1.9E+02 0.0042 24.2 9.1 72 62-145 109-181 (266)
109 cd01537 PBP1_Repressors_Sugar_ 43.8 1.9E+02 0.004 23.9 10.7 77 57-145 106-185 (264)
110 PF02677 DUF208: Uncharacteriz 43.2 2E+02 0.0044 24.2 10.2 102 58-167 13-131 (176)
111 cd06285 PBP1_LacI_like_7 Ligan 43.1 2E+02 0.0043 24.3 8.9 79 83-180 128-209 (265)
112 PRK10125 putative glycosyl tra 42.6 52 0.0011 31.0 5.4 34 41-80 2-42 (405)
113 PRK14172 bifunctional 5,10-met 42.4 2.4E+02 0.0053 25.5 9.4 85 60-158 22-108 (278)
114 PF06925 MGDG_synth: Monogalac 42.4 26 0.00055 28.7 2.9 23 125-147 76-98 (169)
115 PF14552 Tautomerase_2: Tautom 42.1 36 0.00077 24.9 3.3 65 41-107 2-69 (82)
116 PF08915 tRNA-Thr_ED: Archaea- 41.8 72 0.0016 25.9 5.3 63 83-149 55-117 (138)
117 PRK05647 purN phosphoribosylgl 41.3 2.2E+02 0.0048 24.2 9.4 45 91-145 43-87 (200)
118 PRK06849 hypothetical protein; 41.3 2.2E+02 0.0049 26.3 9.5 81 38-145 3-83 (389)
119 PF12273 RCR: Chitin synthesis 41.3 26 0.00055 27.7 2.7 15 6-20 7-21 (130)
120 TIGR01481 ccpA catabolite cont 41.2 2.5E+02 0.0054 24.7 9.7 97 61-179 169-269 (329)
121 PRK14175 bifunctional 5,10-met 40.8 2.5E+02 0.0054 25.5 9.3 85 61-159 24-109 (286)
122 PRK14170 bifunctional 5,10-met 40.7 2.5E+02 0.0054 25.6 9.2 86 60-159 22-108 (284)
123 PF02662 FlpD: Methyl-viologen 40.6 1.3E+02 0.0028 23.6 6.6 28 83-110 74-101 (124)
124 COG1066 Sms Predicted ATP-depe 40.3 1E+02 0.0022 29.8 6.8 79 39-144 92-174 (456)
125 PRK09492 treR trehalose repres 39.9 2.5E+02 0.0053 24.6 9.2 95 59-178 166-261 (315)
126 PRK08195 4-hyroxy-2-oxovalerat 39.7 3.1E+02 0.0067 25.3 13.6 93 40-145 102-194 (337)
127 cd00885 cinA Competence-damage 39.6 2.1E+02 0.0045 23.6 8.1 61 90-167 23-84 (170)
128 PRK14190 bifunctional 5,10-met 39.5 2.8E+02 0.0061 25.2 9.4 85 60-158 23-108 (284)
129 cd06270 PBP1_GalS_like Ligand 39.5 2.4E+02 0.0051 23.9 13.6 102 61-182 109-213 (268)
130 PTZ00346 histone deacetylase; 39.0 51 0.0011 31.8 4.8 27 127-155 257-283 (429)
131 cd01536 PBP1_ABC_sugar_binding 38.8 2.3E+02 0.005 23.6 9.6 84 49-146 101-189 (267)
132 TIGR00177 molyb_syn molybdenum 38.3 1.4E+02 0.003 23.7 6.7 59 90-165 31-90 (144)
133 COG1087 GalE UDP-glucose 4-epi 38.2 85 0.0018 29.1 5.8 59 59-146 16-75 (329)
134 COG2230 Cfa Cyclopropane fatty 38.1 1.6E+02 0.0035 26.8 7.6 65 36-115 70-136 (283)
135 PRK14166 bifunctional 5,10-met 38.0 3.1E+02 0.0067 24.9 9.4 86 60-159 21-107 (282)
136 PTZ00063 histone deacetylase; 37.6 51 0.0011 31.9 4.5 26 128-155 240-265 (436)
137 cd06293 PBP1_LacI_like_11 Liga 37.2 2.6E+02 0.0056 23.7 9.9 99 62-181 110-212 (269)
138 COG1609 PurR Transcriptional r 37.1 3.2E+02 0.007 24.8 10.1 77 59-146 166-245 (333)
139 PF00532 Peripla_BP_1: Peripla 36.8 2E+02 0.0043 25.4 8.0 93 59-171 109-203 (279)
140 PF02684 LpxB: Lipid-A-disacch 36.8 2.6E+02 0.0056 26.4 9.0 25 125-149 69-93 (373)
141 cd02010 TPP_ALS Thiamine pyrop 36.7 2.4E+02 0.0052 23.2 9.7 42 38-81 65-106 (177)
142 PRK09302 circadian clock prote 36.6 1.7E+02 0.0037 28.4 8.2 89 40-144 273-369 (509)
143 PLN02727 NAD kinase 36.5 3.3E+02 0.0071 29.1 10.3 92 41-150 261-352 (986)
144 PRK14759 potassium-transportin 36.3 79 0.0017 18.6 3.4 25 1-25 1-27 (29)
145 cd01575 PBP1_GntR Ligand-bindi 36.1 2.6E+02 0.0056 23.4 10.0 98 62-180 110-211 (268)
146 cd05777 DNA_polB_delta_exo DED 35.9 54 0.0012 28.3 4.1 28 122-149 70-97 (230)
147 PF13561 adh_short_C2: Enoyl-( 35.8 1.8E+02 0.0039 24.5 7.4 66 60-145 13-80 (241)
148 COG1454 EutG Alcohol dehydroge 35.7 1.5E+02 0.0032 28.1 7.2 66 72-151 32-97 (377)
149 cd03819 GT1_WavL_like This fam 35.6 2.1E+02 0.0045 25.1 8.0 68 59-146 19-86 (355)
150 cd06267 PBP1_LacI_sugar_bindin 35.5 2.5E+02 0.0055 23.1 11.6 79 57-145 104-184 (264)
151 cd06291 PBP1_Qymf_like Ligand 35.2 2.7E+02 0.0059 23.4 8.6 98 62-180 106-207 (265)
152 PRK01215 competence damage-ind 35.0 2.9E+02 0.0063 24.6 8.7 62 88-166 25-87 (264)
153 PRK14185 bifunctional 5,10-met 35.0 3.5E+02 0.0075 24.7 9.3 85 60-158 21-107 (293)
154 cd06281 PBP1_LacI_like_5 Ligan 34.8 2.5E+02 0.0054 23.8 8.2 75 60-145 108-183 (269)
155 PRK14193 bifunctional 5,10-met 34.8 3.5E+02 0.0077 24.6 9.3 84 61-158 24-108 (284)
156 PRK14497 putative molybdopteri 34.6 3.3E+02 0.0072 27.2 9.7 91 58-165 161-269 (546)
157 TIGR00639 PurN phosphoribosylg 34.4 2.8E+02 0.0062 23.3 8.7 47 90-146 41-87 (190)
158 COG1519 KdtA 3-deoxy-D-manno-o 34.2 4.4E+02 0.0094 25.4 10.8 121 11-160 14-142 (419)
159 cd03825 GT1_wcfI_like This fam 34.1 1.2E+02 0.0027 26.6 6.3 34 40-78 1-41 (365)
160 PLN02897 tetrahydrofolate dehy 34.0 3.5E+02 0.0076 25.3 9.3 79 67-159 84-163 (345)
161 PRK15088 PTS system mannose-sp 33.9 3E+02 0.0065 25.4 8.8 65 71-149 4-70 (322)
162 COG0303 MoeA Molybdopterin bio 33.7 3.8E+02 0.0083 25.6 9.7 92 58-165 158-266 (404)
163 cd06288 PBP1_sucrose_transcrip 33.4 2.9E+02 0.0063 23.2 12.6 74 63-146 111-185 (269)
164 PRK14174 bifunctional 5,10-met 32.5 3.9E+02 0.0085 24.4 9.3 86 60-159 21-108 (295)
165 COG2957 Peptidylarginine deimi 32.5 3.1E+02 0.0068 25.5 8.4 79 93-184 190-270 (346)
166 PRK06128 oxidoreductase; Provi 32.1 3.5E+02 0.0077 23.8 10.4 85 39-145 55-141 (300)
167 cd06418 GH25_BacA-like BacA is 32.0 3.1E+02 0.0067 23.6 8.2 55 58-112 56-115 (212)
168 cd03811 GT1_WabH_like This fam 32.0 3E+02 0.0065 23.3 8.3 21 126-146 69-89 (353)
169 PRK14194 bifunctional 5,10-met 32.0 4E+02 0.0088 24.4 9.3 85 60-158 24-109 (301)
170 cd05160 DEDDy_DNA_polB_exo DED 32.0 70 0.0015 26.6 4.1 26 122-147 62-87 (199)
171 cd06292 PBP1_LacI_like_10 Liga 31.9 3.2E+02 0.0068 23.1 12.0 78 84-181 137-216 (273)
172 PRK14184 bifunctional 5,10-met 31.7 4E+02 0.0086 24.2 9.5 86 60-159 21-108 (286)
173 PF06745 KaiC: KaiC; InterPro 31.6 1.3E+02 0.0027 25.5 5.7 97 39-145 18-122 (226)
174 cd00006 PTS_IIA_man PTS_IIA, P 31.5 2.4E+02 0.0052 21.6 8.2 66 71-151 2-70 (122)
175 PRK14498 putative molybdopteri 31.5 3.1E+02 0.0068 27.5 9.3 92 57-165 167-276 (633)
176 PF02879 PGM_PMM_II: Phosphogl 31.4 1.4E+02 0.003 22.1 5.2 55 92-149 38-94 (104)
177 PRK14168 bifunctional 5,10-met 31.3 4E+02 0.0086 24.4 9.0 84 61-158 24-109 (297)
178 cd06326 PBP1_STKc_like Type I 31.1 3.2E+02 0.0069 24.0 8.5 74 57-145 125-198 (336)
179 PRK00654 glgA glycogen synthas 31.1 95 0.0021 29.6 5.3 35 41-75 2-42 (466)
180 PRK14189 bifunctional 5,10-met 30.9 4.1E+02 0.0089 24.1 10.3 86 60-159 23-109 (285)
181 PRK14740 kdbF potassium-transp 30.9 1E+02 0.0022 18.1 3.3 24 1-24 1-26 (29)
182 cd01541 PBP1_AraR Ligand-bindi 30.8 3.3E+02 0.0072 23.0 11.3 101 62-181 115-218 (273)
183 PRK14182 bifunctional 5,10-met 30.6 4.1E+02 0.009 24.1 9.2 85 60-158 21-106 (282)
184 TIGR02470 sucr_synth sucrose s 30.4 71 0.0015 33.3 4.4 44 36-80 252-319 (784)
185 TIGR00355 purH phosphoribosyla 30.4 80 0.0017 31.1 4.6 62 52-113 26-102 (511)
186 PF00994 MoCF_biosynth: Probab 30.3 1.5E+02 0.0032 23.4 5.5 60 89-165 20-80 (144)
187 cd01574 PBP1_LacI Ligand-bindi 30.2 3.3E+02 0.0071 22.8 12.6 71 63-145 111-181 (264)
188 PRK11865 pyruvate ferredoxin o 30.1 4.3E+02 0.0094 24.2 12.8 126 40-182 92-242 (299)
189 PRK14167 bifunctional 5,10-met 30.1 4.3E+02 0.0094 24.2 10.1 85 60-158 22-107 (297)
190 cd05784 DNA_polB_II_exo DEDDy 30.1 75 0.0016 26.9 4.0 28 122-149 50-77 (193)
191 PRK14188 bifunctional 5,10-met 29.9 4.3E+02 0.0094 24.1 9.5 84 61-158 23-108 (296)
192 COG0123 AcuC Deacetylases, inc 29.6 69 0.0015 29.8 3.9 25 129-155 230-254 (340)
193 cd03822 GT1_ecORF704_like This 29.6 2E+02 0.0044 25.0 6.9 39 41-79 1-42 (366)
194 PLN02616 tetrahydrofolate dehy 29.5 4.9E+02 0.011 24.6 9.5 79 67-159 101-180 (364)
195 cd06273 PBP1_GntR_like_1 This 29.3 3.4E+02 0.0074 22.8 9.3 73 63-145 111-185 (268)
196 cd06318 PBP1_ABC_sugar_binding 29.3 3.6E+02 0.0077 22.9 13.0 109 57-181 108-223 (282)
197 cd05776 DNA_polB_alpha_exo ina 29.2 76 0.0016 27.6 3.9 29 122-150 81-109 (234)
198 cd07945 DRE_TIM_CMS Leptospira 29.2 4.2E+02 0.0091 23.7 12.0 93 60-167 121-213 (280)
199 cd03784 GT1_Gtf_like This fami 29.1 2.2E+02 0.0047 26.1 7.2 21 55-75 16-36 (401)
200 PF13158 DUF3993: Protein of u 28.9 52 0.0011 26.0 2.5 20 1-20 1-20 (122)
201 cd06317 PBP1_ABC_sugar_binding 28.9 3.5E+02 0.0076 22.7 13.0 94 67-180 124-219 (275)
202 cd05781 DNA_polB_B3_exo DEDDy 28.7 85 0.0019 26.3 4.0 25 122-146 47-71 (188)
203 TIGR01251 ribP_PPkin ribose-ph 28.6 3.5E+02 0.0077 24.5 8.4 23 127-149 107-129 (308)
204 PRK05234 mgsA methylglyoxal sy 28.6 3.1E+02 0.0068 22.0 9.4 94 40-164 4-103 (142)
205 TIGR03380 agmatine_aguA agmati 28.5 1.5E+02 0.0032 27.9 5.9 83 89-184 180-265 (357)
206 PRK03673 hypothetical protein; 28.3 3.6E+02 0.0077 25.7 8.5 78 73-167 5-86 (396)
207 TIGR02472 sucr_P_syn_N sucrose 28.3 1.7E+02 0.0036 27.7 6.4 22 125-146 99-122 (439)
208 PF05582 Peptidase_U57: YabG p 28.3 63 0.0014 29.4 3.2 24 122-145 138-161 (287)
209 PRK14176 bifunctional 5,10-met 28.1 4.6E+02 0.01 23.9 9.6 84 61-158 29-114 (287)
210 cd05780 DNA_polB_Kod1_like_exo 27.8 89 0.0019 26.2 4.0 25 122-146 55-79 (195)
211 PLN02605 monogalactosyldiacylg 27.7 61 0.0013 29.9 3.3 21 127-147 89-109 (382)
212 PRK14191 bifunctional 5,10-met 27.7 4.7E+02 0.01 23.8 9.7 85 61-159 22-108 (285)
213 TIGR03801 asp_4_decarbox aspar 27.7 1.3E+02 0.0028 29.8 5.6 41 104-147 242-282 (521)
214 cd06319 PBP1_ABC_sugar_binding 27.6 3.8E+02 0.0081 22.6 12.6 77 83-179 139-216 (277)
215 PF00850 Hist_deacetyl: Histon 27.6 60 0.0013 29.6 3.1 28 127-156 229-256 (311)
216 COG2893 ManX Phosphotransferas 27.1 3.4E+02 0.0073 22.0 7.4 68 70-150 2-71 (143)
217 PRK03670 competence damage-ind 27.1 4E+02 0.0087 23.6 8.2 62 90-167 24-86 (252)
218 PF02729 OTCace_N: Aspartate/o 26.9 2.6E+02 0.0056 22.4 6.4 63 86-165 51-114 (142)
219 cd02167 NMNAT_NadR Nicotinamid 26.9 3.5E+02 0.0075 22.0 9.0 85 60-149 19-111 (158)
220 PF08924 DUF1906: Domain of un 26.9 2.8E+02 0.0061 22.0 6.6 54 58-111 42-102 (136)
221 TIGR00847 ccoS cytochrome oxid 26.8 52 0.0011 22.0 1.9 16 29-44 27-43 (51)
222 PRK00005 fmt methionyl-tRNA fo 26.8 3.5E+02 0.0075 24.5 8.0 83 41-146 2-86 (309)
223 PF09445 Methyltransf_15: RNA 26.8 2E+02 0.0044 23.8 5.9 73 51-150 5-81 (163)
224 PRK10653 D-ribose transporter 26.7 4.2E+02 0.0092 22.9 10.3 108 48-179 127-237 (295)
225 COG3598 RepA RecA-family ATPas 26.6 95 0.0021 29.2 4.1 52 91-144 146-200 (402)
226 PF08660 Alg14: Oligosaccharid 26.6 1.9E+02 0.0042 23.9 5.7 17 131-147 85-101 (170)
227 TIGR02405 trehalos_R_Ecol treh 26.5 4.4E+02 0.0096 23.1 9.0 95 59-178 163-258 (311)
228 cd01124 KaiC KaiC is a circadi 26.4 3.4E+02 0.0073 21.7 7.3 23 125-147 82-104 (187)
229 cd06324 PBP1_ABC_sugar_binding 26.0 4.5E+02 0.0097 23.0 12.3 98 62-179 128-235 (305)
230 PRK14938 Ser-tRNA(Thr) hydrola 26.0 2.6E+02 0.0057 26.6 7.1 60 83-145 51-110 (387)
231 PRK10339 DNA-binding transcrip 26.0 4.6E+02 0.01 23.1 9.5 76 84-179 189-267 (327)
232 PLN02690 Agmatine deiminase 26.0 2E+02 0.0043 27.2 6.3 83 88-183 191-277 (374)
233 COG1058 CinA Predicted nucleot 25.9 4.6E+02 0.01 23.4 8.3 61 90-167 25-86 (255)
234 TIGR00032 argG argininosuccina 25.9 5.8E+02 0.013 24.2 10.4 79 60-144 16-112 (394)
235 PRK14171 bifunctional 5,10-met 25.6 5.2E+02 0.011 23.6 9.4 84 61-158 23-108 (288)
236 cd01635 Glycosyltransferase_GT 25.5 2.4E+02 0.0052 22.4 6.2 10 136-145 49-58 (229)
237 TIGR03568 NeuC_NnaA UDP-N-acet 25.2 2.2E+02 0.0048 26.4 6.5 92 43-146 5-101 (365)
238 TIGR01286 nifK nitrogenase mol 25.0 6.7E+02 0.015 24.7 10.1 82 37-145 361-444 (515)
239 PRK14179 bifunctional 5,10-met 25.0 5.3E+02 0.011 23.4 9.5 85 60-158 22-108 (284)
240 smart00852 MoCF_biosynth Proba 24.9 2.6E+02 0.0056 21.7 6.0 58 91-165 23-81 (135)
241 TIGR02655 circ_KaiC circadian 24.7 3E+02 0.0065 26.7 7.5 54 85-144 300-359 (484)
242 cd00293 USP_Like Usp: Universa 24.6 2.7E+02 0.0059 20.0 10.0 19 127-145 82-100 (130)
243 PF02775 TPP_enzyme_C: Thiamin 24.5 2.3E+02 0.005 22.4 5.7 89 38-142 45-151 (153)
244 cd06297 PBP1_LacI_like_12 Liga 24.5 4.4E+02 0.0096 22.4 8.5 80 83-181 133-215 (269)
245 cd06322 PBP1_ABC_sugar_binding 24.2 4.3E+02 0.0094 22.2 12.4 88 67-179 120-209 (267)
246 TIGR00715 precor6x_red precorr 24.2 3.8E+02 0.0083 23.7 7.5 41 90-133 214-254 (256)
247 cd06301 PBP1_rhizopine_binding 24.1 4.4E+02 0.0095 22.2 10.3 84 48-146 102-191 (272)
248 cd01540 PBP1_arabinose_binding 24.1 4.5E+02 0.0098 22.4 9.1 72 65-145 124-201 (289)
249 PRK14665 mnmA tRNA-specific 2- 24.0 2.1E+02 0.0045 26.8 6.1 83 60-146 22-121 (360)
250 cd01965 Nitrogenase_MoFe_beta_ 23.9 4.4E+02 0.0095 24.9 8.4 82 37-145 297-378 (428)
251 TIGR02990 ectoine_eutA ectoine 23.9 5E+02 0.011 22.8 8.2 70 37-109 118-188 (239)
252 COG4586 ABC-type uncharacteriz 23.8 2.6E+02 0.0056 25.8 6.3 56 83-145 159-214 (325)
253 PLN02331 phosphoribosylglycina 23.7 4.7E+02 0.01 22.4 7.8 45 92-146 42-86 (207)
254 PRK06027 purU formyltetrahydro 23.7 5.4E+02 0.012 23.1 8.8 43 93-146 131-173 (286)
255 PRK09275 aspartate aminotransf 23.6 2.1E+02 0.0046 28.3 6.2 42 103-147 242-283 (527)
256 cd07995 TPK Thiamine pyrophosp 23.5 4.5E+02 0.0098 22.2 9.2 95 49-165 21-115 (208)
257 KOG3500 Vacuolar H+-ATPase V0 23.4 1.4E+02 0.003 22.0 3.7 39 6-48 38-76 (84)
258 PRK14690 molybdopterin biosynt 23.3 5.5E+02 0.012 24.6 8.9 91 58-165 175-283 (419)
259 PF06508 QueC: Queuosine biosy 23.1 91 0.002 26.8 3.2 47 60-111 16-62 (209)
260 PF02525 Flavodoxin_2: Flavodo 23.1 91 0.002 25.9 3.2 38 40-78 1-44 (199)
261 TIGR00758 UDG_fam4 uracil-DNA 23.1 3.9E+02 0.0085 21.9 7.0 55 91-145 50-107 (173)
262 PRK00269 zipA cell division pr 23.1 77 0.0017 29.0 2.8 22 1-22 1-28 (293)
263 PTZ00397 macrophage migration 23.0 1.9E+02 0.0042 22.0 4.8 63 37-107 33-98 (116)
264 PRK13365 protocatechuate 4,5-d 22.9 73 0.0016 28.7 2.7 26 124-149 34-60 (279)
265 COG0603 Predicted PP-loop supe 22.8 2.5E+02 0.0055 24.6 5.9 54 40-102 4-58 (222)
266 COG1011 Predicted hydrolase (H 22.8 84 0.0018 26.2 3.0 19 58-79 106-124 (229)
267 cd06300 PBP1_ABC_sugar_binding 22.7 4.7E+02 0.01 22.1 10.6 52 83-145 139-192 (272)
268 PRK13551 agmatine deiminase; P 22.4 3.3E+02 0.0072 25.6 7.1 84 88-184 182-268 (362)
269 PRK14335 (dimethylallyl)adenos 22.3 7E+02 0.015 23.9 9.7 90 41-142 242-342 (455)
270 cd01973 Nitrogenase_VFe_beta_l 22.3 7E+02 0.015 24.0 9.5 84 37-145 303-388 (454)
271 PF03104 DNA_pol_B_exo1: DNA p 22.2 92 0.002 27.7 3.3 26 122-147 221-246 (325)
272 TIGR03878 thermo_KaiC_2 KaiC d 22.2 5.4E+02 0.012 22.5 9.6 99 38-144 34-137 (259)
273 TIGR02855 spore_yabG sporulati 22.1 82 0.0018 28.6 2.8 24 122-145 137-160 (283)
274 PF02698 DUF218: DUF218 domain 22.1 3.8E+02 0.0083 21.0 6.6 71 65-145 34-105 (155)
275 KOG1342 Histone deacetylase co 22.1 1.5E+02 0.0033 28.2 4.6 23 127-151 241-263 (425)
276 COG2870 RfaE ADP-heptose synth 22.1 2.2E+02 0.0048 27.5 5.7 31 131-165 410-440 (467)
277 PRK09860 putative alcohol dehy 22.1 6.5E+02 0.014 23.5 9.1 24 122-145 72-95 (383)
278 cd01542 PBP1_TreR_like Ligand- 22.0 4.7E+02 0.01 21.8 8.6 52 84-146 130-181 (259)
279 PLN02516 methylenetetrahydrofo 21.9 6.2E+02 0.013 23.2 10.2 78 67-158 37-115 (299)
280 PRK11866 2-oxoacid ferredoxin 21.7 6E+02 0.013 22.9 8.8 99 37-148 75-193 (279)
281 PF03597 CcoS: Cytochrome oxid 21.7 82 0.0018 20.4 2.0 15 30-44 27-42 (45)
282 PRK08057 cobalt-precorrin-6x r 21.6 5.3E+02 0.011 22.8 7.9 44 87-133 203-246 (248)
283 cd08179 NADPH_BDH NADPH-depend 21.5 6.5E+02 0.014 23.3 9.0 24 122-145 65-88 (375)
284 cd03376 TPP_PFOR_porB_like Thi 21.5 5.4E+02 0.012 22.3 10.5 124 39-181 80-230 (235)
285 cd05785 DNA_polB_like2_exo Unc 21.4 1.3E+02 0.0027 25.8 3.8 25 122-146 57-81 (207)
286 cd06313 PBP1_ABC_sugar_binding 21.4 5.2E+02 0.011 22.1 13.0 108 49-181 103-215 (272)
287 cd01974 Nitrogenase_MoFe_beta 21.4 7.1E+02 0.015 23.6 10.5 85 37-146 301-385 (435)
288 COG1619 LdcA Uncharacterized p 21.3 4.9E+02 0.011 24.0 7.7 76 59-145 31-109 (313)
289 cd01391 Periplasmic_Binding_Pr 21.3 4.4E+02 0.0096 21.2 9.1 85 46-145 103-189 (269)
290 PRK14187 bifunctional 5,10-met 21.3 6.4E+02 0.014 23.0 9.6 83 62-158 24-108 (294)
291 cd06309 PBP1_YtfQ_like Peripla 21.1 5.1E+02 0.011 21.9 12.7 102 57-180 110-219 (273)
292 PF03610 EIIA-man: PTS system 21.1 3.7E+02 0.008 20.2 7.6 64 72-149 2-68 (116)
293 PRK00871 glutathione-regulated 20.9 1.4E+02 0.0031 24.9 3.9 24 42-65 2-25 (176)
294 cd06290 PBP1_LacI_like_9 Ligan 20.7 5.1E+02 0.011 21.7 8.7 74 62-145 109-183 (265)
295 COG4221 Short-chain alcohol de 20.6 5.8E+02 0.013 22.8 7.8 71 54-145 16-88 (246)
296 PF00764 Arginosuc_synth: Argi 20.6 6.8E+02 0.015 23.8 8.7 99 59-167 13-130 (388)
297 PRK14183 bifunctional 5,10-met 20.5 6.5E+02 0.014 22.8 9.3 80 66-159 28-108 (281)
298 cd01544 PBP1_GalR Ligand-bindi 20.5 5.3E+02 0.011 21.8 12.3 79 83-181 131-214 (270)
299 PF13407 Peripla_BP_4: Peripla 20.5 5.1E+02 0.011 21.6 11.2 110 50-180 103-214 (257)
300 PRK10494 hypothetical protein; 20.5 6E+02 0.013 22.5 10.5 42 66-109 118-160 (259)
301 PRK08125 bifunctional UDP-gluc 20.4 5.2E+02 0.011 26.0 8.5 82 41-146 2-83 (660)
302 cd02001 TPP_ComE_PpyrDC Thiami 20.1 4.4E+02 0.0095 21.2 6.6 89 40-145 60-153 (157)
No 1
>KOG3332 consensus N-acetylglucosaminyl phosphatidylinositol de-N-acetylase [Cell wall/membrane/envelope biogenesis]
Probab=100.00 E-value=2.7e-56 Score=377.41 Aligned_cols=245 Identities=46% Similarity=0.689 Sum_probs=212.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHhhccCcccccccccCCCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC
Q 025126 1 MSWLLVIVSTIVVWVASLFKILNSSRSQSNAAFLTTGDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA 80 (257)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~ 80 (257)
|.|..+....++++++. +-+.+++...++. +.....|+|++.||||||+||+||||..+.+.|++|+++|+++|++
T Consensus 3 ~ml~~~~~l~~~l~vl~-~i~~~~~~~r~~~---~l~~~sriLLviAhpdDE~mFFsPtI~~L~~~~~~v~iLClSnGN~ 78 (247)
T KOG3332|consen 3 AMLKKISLLVTFLLVLL-VIFVSSIRRRSRG---KLLAESRILLVIAHPDDESMFFSPTILYLTSGACNVHILCLSNGNA 78 (247)
T ss_pred hHHHHHHHHHHHHHHHH-Hhhhccccccccc---cccccceEEEEEeccCccccchhhHHHHHhcCCccEEEEEecCCCc
Confidence 35666655555544443 3334444332332 2366678999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHH
Q 025126 81 DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVH 160 (257)
Q Consensus 81 ~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~ 160 (257)
+|+|++|++|+.+||..||++.+++..++.|+++||+++.|+++.+...+.+.|+..+.++|+|||.+|++||++|++++
T Consensus 79 dg~G~iR~kEL~ra~~~lgi~~s~v~~l~~~~f~Dg~~~~Wd~~~v~~~l~~~ie~~~~~~iiTFD~~GVSgH~NH~~~y 158 (247)
T KOG3332|consen 79 DGLGKIREKELHRACAVLGIPLSNVVVLDTPFFQDGPGEDWDPDAVASILLQHIEVLNIDTIITFDNYGVSGHCNHIACY 158 (247)
T ss_pred cccchHHHHHHHHHHHHHCCchhheEEecCCcCCCCcccccCHHHHHHHHHHHHHccCccEEEEecCCCcCCCCccHhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHccCCCCccEEEEecchhhhhhcCCCchhHHHhhhhhcccCCceeEEEcCCHHHHHHHHHhchhhhhHHHHhh
Q 025126 161 HGICRSYLNGTSERNIEAWELMTTNILRKYSGPLDIWLSILSATQYRRGQVHCLLNEHPKKSFLAMSQHHSQWVWFRKLF 240 (257)
Q Consensus 161 ~av~~A~~~~~~~~~~~~ye~~s~~~~~~y~~~~d~~~~~~~~~~~~~~~~~~~v~~~~~~K~~Am~~H~SQ~~w~r~l~ 240 (257)
.++..+......++.+.++.+.|.|..|||.+++|++.+... ++..++..+..+..+||.||+||++||||+|
T Consensus 159 ~av~~l~~~~k~pk~v~~~~L~S~Ni~rKY~s~lDi~~slis-------s~~~~i~kq~~~~~~aM~~H~SQmvWFRyly 231 (247)
T KOG3332|consen 159 AAVDCLIDGLKLPKGVKYLTLKSINIFRKYISILDILLSLIS-------STVLFINKQMAMAFKAMMCHRSQMVWFRYLY 231 (247)
T ss_pred hhHHHHhhhccCCCceEEEEEeehHHHHHhhhHHHhHHHHhc-------ceeEEEehhHHHHHHHHHHHHHHhHHHHHHH
Confidence 998886666667889999999999999999999999988763 3345565667788999999999999999999
Q ss_pred hhhhcceeeeceeecC
Q 025126 241 VSFSSYTYVNTLKRIN 256 (257)
Q Consensus 241 ~~fsry~~~N~l~~i~ 256 (257)
++|||||++|+|.+|+
T Consensus 232 i~FSrym~vN~l~~in 247 (247)
T KOG3332|consen 232 ILFSRYMFVNSLDVIN 247 (247)
T ss_pred HHhhheeeeeeeeecC
Confidence 9999999999999875
No 2
>TIGR03446 mycothiol_Mca mycothiol conjugate amidase Mca. Mycobacterium tuberculosis, Corynebacterium glutamicum, and related species use the thiol mycothiol in place of glutathione. This enzyme, homologous to the (dispensible) MshB enzyme of mycothiol biosynthesis, is described as an amidase that acts on conjugates to mycothiol. It is a detoxification enzyme.
Probab=100.00 E-value=4e-36 Score=269.88 Aligned_cols=128 Identities=23% Similarity=0.329 Sum_probs=112.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC--------------chHHHHHHHHHHHHHcCCCCCcEE
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG--------------MGNIRKDELHRACAVLKIPLEQVK 106 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~--------------~~~~R~~E~~~A~~~LGv~~~~~~ 106 (257)
|+|+|+||||||+++|||||++++++|++|++||+|+|+.+. +++.|++|+++||++||+ + ..
T Consensus 2 rvL~V~AHPDDE~l~~GGtiA~~a~~G~~V~vV~~T~Ge~g~~~~~~~~~~~~~~~l~~~R~~E~~~Aa~~LGv--~-~~ 78 (283)
T TIGR03446 2 RLMAVHAHPDDESSKGAATMARYAAEGHDVMVVTCTGGERGDILNPAMDKPAVEGRIAEVRREEMAEAAEILGV--E-HR 78 (283)
T ss_pred eEEEEEeCCCcHHHhHHHHHHHHHHCCCeEEEEEecCCCCCCCCCcccccccchhhHHHHHHHHHHHHHHHcCC--C-eE
Confidence 799999999999999999999999999999999999998542 478999999999999999 3 46
Q ss_pred EccCCCCC-----------CCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC
Q 025126 107 VLDLVDFQ-----------DGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT 171 (257)
Q Consensus 107 ~l~~~d~~-----------dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~ 171 (257)
+++|+|.. ++....|+.+++.+.|.++|++++||+|+|||++|.++|+||+++++++.+|+..++
T Consensus 79 ~Lg~~Dsgl~~~~~~~~~~~~~~~~~~~~~~~~~L~~iIr~~~PdvVvT~d~~GgygHpDH~~v~~a~~~A~~~a~ 154 (283)
T TIGR03446 79 WLGFVDSGLPEGDPLPPLPEGCFALEPLEEAAEPLVRVIREFRPHVITTYDENGGYPHPDHIMCHEVSVEAFEAAG 154 (283)
T ss_pred EeccccCCccccCccccCCccccccCCHHHHHHHHHHHHHHcCCEEEEecCCCCCCCChhHHHHHHHHHHHHHHcC
Confidence 89998742 122234678899999999999999999999999999999999999999999986554
No 3
>COG2120 Uncharacterized proteins, LmbE homologs [Function unknown]
Probab=100.00 E-value=3e-35 Score=258.68 Aligned_cols=181 Identities=21% Similarity=0.245 Sum_probs=140.9
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCc------hHHHHHHHHHHHHHcCCCCCcEEEccC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGM------GNIRKDELHRACAVLKIPLEQVKVLDL 110 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~------~~~R~~E~~~A~~~LGv~~~~~~~l~~ 110 (257)
....++|+|.||||||++||||||+++.++|++|.++|+|.|+.++. +++|++|+++||++||+ ..+++|++
T Consensus 8 ~~~~~vL~v~aHPDDe~~g~ggtla~~~~~G~~V~v~~lT~Ge~g~~~~~~~l~~~R~~E~~~a~~~LGv--~~~~~l~~ 85 (237)
T COG2120 8 LDPLRVLVVFAHPDDEEIGCGGTLAKLAARGVEVTVVCLTLGEAGENGGELELGAVRRAEARAAARVLGV--RETIFLGF 85 (237)
T ss_pred ccCCcEEEEecCCcchhhccHHHHHHHHHCCCeEEEEEccCCcccccCCccchHHHHHHHHHHHHHhcCC--CcceecCC
Confidence 56679999999999999999999999999999999999999998754 45699999999999999 56999999
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCC-ccEEEEec-chhhhh
Q 025126 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSER-NIEAWELM-TTNILR 188 (257)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~-~~~~ye~~-s~~~~~ 188 (257)
+|. ...|+.+++.+.|.++|++.+|++|+|+++.+.++||||+.+++++..|+...+... +...+... ...-..
T Consensus 86 ~~~----~~~~~~~~~~~~L~~ii~~~~P~~V~t~~~~d~~~HpDH~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ 161 (237)
T COG2120 86 PDT----GADADPEEITGALVAIIRRLRPDVVFTPYPDDGYGHPDHRATHEAAKAAVRTAGIPLYRPRLWGGALGRPREP 161 (237)
T ss_pred Ccc----ccccChHHHHHHHHHHHHHhCCCEEEecCCCCCCCCCChHHHHHHHHHHHHhccccccCcccccccccCCccc
Confidence 952 346788999999999999999999999987766799999999999999987654333 22221110 000000
Q ss_pred hcCCCchhHHHhhhhhcccCCceeEEEcCCHHHHHHHHHhchhhhh
Q 025126 189 KYSGPLDIWLSILSATQYRRGQVHCLLNEHPKKSFLAMSQHHSQWV 234 (257)
Q Consensus 189 ~y~~~~d~~~~~~~~~~~~~~~~~~~v~~~~~~K~~Am~~H~SQ~~ 234 (257)
.|.. . ....++...+|....+.|.+||++|+||..
T Consensus 162 ~~~~--------~---~~~~~~v~~di~~~~~~k~~Ai~ah~sQ~~ 196 (237)
T COG2120 162 LYYE--------R---AAGSPDVFVDITDEVEAKLAAIRAHKSQFG 196 (237)
T ss_pred cccc--------c---cCCCCCeEEechHHHHHHHHHHHHHHHHhc
Confidence 0000 0 001134455666777899999999999987
No 4
>TIGR03445 mycothiol_MshB 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase. Members of this protein family are 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase, the MshB protein of mycothiol biosynthesis in Mycobacterium tuberculosis and related species.
Probab=100.00 E-value=9.3e-35 Score=261.46 Aligned_cols=125 Identities=25% Similarity=0.361 Sum_probs=108.4
Q ss_pred EEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC----------------chHHHHHHHHHHHHHcCCCCCcEE
Q 025126 43 LLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG----------------MGNIRKDELHRACAVLKIPLEQVK 106 (257)
Q Consensus 43 L~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~----------------~~~~R~~E~~~A~~~LGv~~~~~~ 106 (257)
|+|+||||||++||||||++++++|.+|++||+|+|+.+. ++++|++|+++||++||+ +.+.
T Consensus 1 L~V~AHPDDE~lg~GGtia~~a~~G~~V~vv~lT~Ge~g~~~~~~~~~~~~~~~~~l~~~R~~E~~~Aa~~LGv--~~~~ 78 (284)
T TIGR03445 1 LLVHAHPDDETLTTGATIARYAARGADVTVVTCTLGEEGEVIGERWAQLAADRADQLGGYRIGELTAALRALGV--GDPR 78 (284)
T ss_pred CeeeeCCCchhhhhHHHHHHHHHCCCeEEEEEecCCccCCcCchhhhhcccccHHHHHHHHHHHHHHHHHHcCC--CeEE
Confidence 6899999999999999999999999999999999998652 468899999999999999 5678
Q ss_pred Ecc----CCCCCCCcc---------ccCC--hHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC
Q 025126 107 VLD----LVDFQDGFD---------KLWN--HKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT 171 (257)
Q Consensus 107 ~l~----~~d~~dg~~---------~~~~--~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~ 171 (257)
+|+ |+|. |+. ..|. .+++++.|.++|++++||+|+||+++|.++|+||+++++++.+|+..++
T Consensus 79 ~L~~~~~~~Ds--gl~~~p~~~~~~~~~~~~~~e~~~~l~~~Ir~~~PdvViT~~p~g~~~HpDH~~~~~a~~~A~~~a~ 156 (284)
T TIGR03445 79 FLGGAGRWRDS--GMAGTPSRSRPRAFVDADVDEAAGALVAVIREVRPHVVVTYDPNGGYGHPDHIQAHRVTTRAVEAAA 156 (284)
T ss_pred EcCCcCcccCC--CCCCCCcccCccccccCCHHHHHHHHHHHHHHhCCcEEEecCCCCCCCCchhHHHHHHHHHHHHHhc
Confidence 898 4442 121 1333 3578999999999999999999999999999999999999999987664
No 5
>PRK02122 glucosamine-6-phosphate deaminase-like protein; Validated
Probab=99.98 E-value=1.2e-31 Score=264.21 Aligned_cols=181 Identities=22% Similarity=0.262 Sum_probs=137.7
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC-----------------------------------
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD----------------------------------- 81 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~----------------------------------- 81 (257)
...+|+|+|+||||||++||||||++++++|++|+++++|+|+.+
T Consensus 367 ~~~~rvLv~spHPDDevi~~GGTlarl~~~G~~V~vv~~TsG~~av~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 446 (652)
T PRK02122 367 PYPKRVIIFSPHPDDDVISMGGTFRRLVEQGHDVHVAYQTSGNIAVFDEEVLRFADFINDFNQIFGISSDELKKKYEEII 446 (652)
T ss_pred cCCceEEEEEeCCCchHhhhHHHHHHHHHCCCcEEEEEecCCcccCCccchhhhhhhhhhhhhhccccccccchhhhhhh
Confidence 456899999999999999999999999999999999999999852
Q ss_pred --------C----------chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccC-ChHHHHHHHHHHHHhcCCCEE
Q 025126 82 --------G----------MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLW-NHKSLAKIVEEEVVNCSIDLI 142 (257)
Q Consensus 82 --------~----------~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~-~~~~l~~~l~~~i~~~~Pd~V 142 (257)
+ ++.+|++|.++||++||++.++++||++||.++|..... ..++.++.+.++|++++|++|
T Consensus 447 ~~~~~k~~~~~d~~~~~~~k~~iR~~Ea~~A~~~lGv~~~~v~fL~lP~y~~g~~~~~p~~~~~v~~i~~li~~~kP~~V 526 (652)
T PRK02122 447 EFLKNKKPGEIDSPEVRKLKGLIRRGEARAACRYVGLPDEHVHFLDLPFYETGTVRKNPIGEADVEIVMDLLEEIKPHQI 526 (652)
T ss_pred hhhhcccccccChHHHHhHHHHHHHHHHHHHHHhcCCCccceEECCCCCccCCccccCcccHHHHHHHHHHHHHcCCCEE
Confidence 0 257999999999999999877999999998877643322 235678899999999999999
Q ss_pred EeeCCCCCCCCchHHHHHHHHHHHHHccCCC---Cc--cEEEEecchhhhhhcCCCchhHHHhhhhhcccCCceeEEEcC
Q 025126 143 ITFDNYGVSGHCNHRDVHHGICRSYLNGTSE---RN--IEAWELMTTNILRKYSGPLDIWLSILSATQYRRGQVHCLLNE 217 (257)
Q Consensus 143 ~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~---~~--~~~ye~~s~~~~~~y~~~~d~~~~~~~~~~~~~~~~~~~v~~ 217 (257)
+|+. +..|.|+||++|++++.+|+...... +. +.+|+.. | ..+ +. ..++..+.++.
T Consensus 527 ~~~~-~~~D~H~DHr~~~~av~~A~~~~~~~~~~~~~~vw~y~~a---w-~e~----~~----------~~~~~~VdiS~ 587 (652)
T PRK02122 527 FVAG-DLADPHGTHRVCLDAIFAALDRLKEEEWMKDCRVWLYRGA---W-QEW----EI----------HEIEMAVPLSP 587 (652)
T ss_pred EECC-CCCCCCchHHHHHHHHHHHHHhcccCcccccceeEEeccc---c-ccc----cC----------CCCCEEEECCH
Confidence 9983 45689999999999999998543211 12 2233211 0 000 00 01123333443
Q ss_pred -CHHHHHHHHHhchhhhhHH
Q 025126 218 -HPKKSFLAMSQHHSQWVWF 236 (257)
Q Consensus 218 -~~~~K~~Am~~H~SQ~~w~ 236 (257)
..++|++||.+|+||+.+.
T Consensus 588 ~~~~~K~~Ai~~H~SQ~~~~ 607 (652)
T PRK02122 588 EELLRKRNAIFKHQSQKDSA 607 (652)
T ss_pred HHHHHHHHHHHHhHhhcCCC
Confidence 3679999999999998854
No 6
>PF02585 PIG-L: GlcNAc-PI de-N-acetylase; InterPro: IPR003737 A number of the members of this family have been characterised as a probable N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase, (3.5.1.89 from EC) that catalyses the second step in glycosylphosphatidylinositol (GPI) biosynthesis [, ]. The family also includes a number of thiol biosynthesis proteins. ; PDB: 2XAD_C 2X9L_A 3DFK_A 3DFM_A 3DFF_A 2IXD_A 1UAN_A 1Q74_B 1Q7T_B 3DFI_A.
Probab=99.97 E-value=1e-31 Score=214.27 Aligned_cols=119 Identities=30% Similarity=0.471 Sum_probs=102.5
Q ss_pred EEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC---------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025126 43 LLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD---------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (257)
Q Consensus 43 L~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~---------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (257)
|+|+||||||+|||||+|+++.++|.+|+++++|+|+.+ +.++.|++|..+||+.||+ +++.++++||.
T Consensus 1 Lvi~aHpDDe~l~~gg~i~~~~~~g~~v~vv~~t~G~~~~~~~~~~~~~~~~~R~~E~~~a~~~lGv--~~~~~l~~~D~ 78 (128)
T PF02585_consen 1 LVIAAHPDDEELGCGGTIAKLAEAGHRVVVVTLTDGEAGHPDPTPWARELGEIRRAEARAAAEILGV--ENVIFLDFPDG 78 (128)
T ss_dssp EEEESSTTHHHHHHHHHHHHHHHTT-EEEEEECE--TTTSSSSHHHHHSCHHHHHHHHHHHHHHCT---EEEEEEEECTT
T ss_pred CEEEECCCchHHhhHHHHHHHHhcCCeEEEEEecccccCCcccchhhHhHHHHHHHHHHHHHHHcCC--ceEEEeecCCC
Confidence 799999999999999999999999999999999999987 6788999999999999999 89999999986
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
+. ..|+.+++.+.|+++|++++||+|+||++.+. +|+||+++++++.+|+
T Consensus 79 ~~---~~~~~~~~~~~l~~~i~~~~p~~V~t~~~~~~-gH~DH~~~~~av~~A~ 128 (128)
T PF02585_consen 79 QL---PGWSWEELVRDLEDLIREFRPDVVFTPDPDDG-GHPDHRAVARAVREAL 128 (128)
T ss_dssp SC---TCHHHHHHHHHHHHHHHHH-ESEEEEE-STTS--SHHHHHHHHHHHHHH
T ss_pred Cc---ccccHHHHHHHHHHHHHHcCCCEEEECCCCCC-CcHHHHHHHHHHHHHC
Confidence 52 23667899999999999999999999976554 5999999999999974
No 7
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=94.57 E-value=0.15 Score=41.87 Aligned_cols=91 Identities=14% Similarity=0.168 Sum_probs=58.0
Q ss_pred cEEEEecCc-------hhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025126 41 NVLLVIAHP-------DDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (257)
Q Consensus 41 ~vL~i~aHP-------DDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (257)
+||++.-|. |=|.+..+-.|+. +.|.+|.++++-+.+ .-.+++++++..+|+ ++++.++.+.+
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~--~~g~~v~av~~G~~~------~~~~~l~~~l~~~G~--d~v~~~~~~~~ 70 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAE--ALGGEVTAVVLGPAE------EAAEALRKALAKYGA--DKVYHIDDPAL 70 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHH--CTTSEEEEEEEETCC------CHHHHHHHHHHSTTE--SEEEEEE-GGG
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHh--hcCCeEEEEEEecch------hhHHHHhhhhhhcCC--cEEEEecCccc
Confidence 467777775 2233333322222 237788888876321 234456677788999 78888887654
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
. .++.+...+.|.+++++.+|++|++++
T Consensus 71 ~-----~~~~~~~a~~l~~~~~~~~~~lVl~~~ 98 (164)
T PF01012_consen 71 A-----EYDPEAYADALAELIKEEGPDLVLFGS 98 (164)
T ss_dssp T-----TC-HHHHHHHHHHHHHHHT-SEEEEES
T ss_pred c-----ccCHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 2 246678899999999999999999984
No 8
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=92.32 E-value=1.7 Score=35.87 Aligned_cols=90 Identities=12% Similarity=0.061 Sum_probs=54.4
Q ss_pred cEEEEecCchhhhcchHHHHHHHH-hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLT-SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~-~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (257)
++++++=|.+++.--..--+...+ +.|.+|.++++-.+. ..+ .+.+..+|+ ++++.++.+.+.
T Consensus 1 ~ilV~~E~~~g~l~~~s~el~~~A~~l~~~v~~v~~G~~~--------~~~-~~~~~~~Ga--d~v~~~~~~~~~----- 64 (168)
T cd01715 1 SVLVLAEHRNGELRELTLEAVTAARKLGGEVTALVIGSGA--------EAV-AAALKAYGA--DKVLVAEDPALA----- 64 (168)
T ss_pred CEEEEEEecCCChHHHHHHHHHHHHHhCCCEEEEEECCCh--------HHH-HHHHHhcCC--CEEEEecChhhc-----
Confidence 468888887766432222222222 334566666543221 111 223345799 778887755422
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
..+.+...+.|.+++++.+|++|++..
T Consensus 65 ~~~~~~~a~al~~~i~~~~p~~Vl~~~ 91 (168)
T cd01715 65 HYLAEPYAPALVALAKKEKPSHILAGA 91 (168)
T ss_pred ccChHHHHHHHHHHHHhcCCCEEEECC
Confidence 235677889999999999999999884
No 9
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=91.45 E-value=0.65 Score=41.72 Aligned_cols=88 Identities=13% Similarity=0.022 Sum_probs=52.2
Q ss_pred chHHHHHHHH-hCCCcEEEEEEeCCC-CCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHH
Q 025126 55 FFSPTINYLT-SRRHNLHILCMSNGN-ADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEE 132 (257)
Q Consensus 55 ~~Ggtl~~~~-~~G~~V~vv~lT~G~-~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~ 132 (257)
..|=+|...+ +.|.+..+-+-..-. ....-..|+++++++|+-||+ .+.+..-||-.++.+..--.+-+.+.+.+
T Consensus 117 ~~G~~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr~~M~~~C~~lGi---~fv~~taPDP~sd~gv~gaqqfIlE~vp~ 193 (275)
T PF12683_consen 117 SRGYTIVWAAKKMGAKTFVHYSFPRHMSYELLARRRDIMEEACKDLGI---KFVEVTAPDPTSDVGVAGAQQFILEDVPK 193 (275)
T ss_dssp HHHHHHHHHHHHTT-S-EEEEEETTGGGSHHHHHHHHHHHHHHHHCT-----EEEEEE---SSTCHHHHHHHHHHHHHHH
T ss_pred hccHHHHHHHHHcCCceEEEEechhhcchHHHHHHHHHHHHHHHHcCC---eEEEEeCCCCCCCCCcHHHHHHHHHHHHH
Confidence 3566666665 479988777743332 234567899999999999999 57777777743322111012457788999
Q ss_pred HHHhcCCCEEEee
Q 025126 133 EVVNCSIDLIITF 145 (257)
Q Consensus 133 ~i~~~~Pd~V~t~ 145 (257)
.|.++.+|+.|-.
T Consensus 194 ~i~kYGkdtaff~ 206 (275)
T PF12683_consen 194 WIKKYGKDTAFFC 206 (275)
T ss_dssp HHHHH-S--EEEE
T ss_pred HHHHhCCceeEEe
Confidence 9999999997654
No 10
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=90.54 E-value=3.3 Score=34.42 Aligned_cols=47 Identities=15% Similarity=0.182 Sum_probs=35.1
Q ss_pred HHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 93 RACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 93 ~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+.+..+|+ ++++..+.+.+. .++.+...+.|.+++++.+|++|++.+
T Consensus 53 ~~~~~~Ga--d~v~~~~~~~~~-----~~~~~~~a~~l~~~i~~~~p~~Vl~g~ 99 (181)
T cd01985 53 REALAMGA--DKVLLVEDPALA-----GYDPEATAKALAALIKKEKPDLILAGA 99 (181)
T ss_pred HHHHHhCC--CEEEEEecCccc-----CCChHHHHHHHHHHHHHhCCCEEEECC
Confidence 33456799 678877765432 235677888999999999999999984
No 11
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=88.56 E-value=4.8 Score=37.40 Aligned_cols=89 Identities=24% Similarity=0.307 Sum_probs=60.1
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc-c
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF-D 118 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~-~ 118 (257)
++|++=..||= -+.++-+.|.+|.+.|++|.+.+-- ..+..+-++.+|+ ++..++-.. .+. .
T Consensus 1 MkIwiDi~~p~-hvhfFk~~I~eL~~~GheV~it~R~-----------~~~~~~LL~~yg~---~y~~iG~~g--~~~~~ 63 (335)
T PF04007_consen 1 MKIWIDITHPA-HVHFFKNIIRELEKRGHEVLITARD-----------KDETEELLDLYGI---DYIVIGKHG--DSLYG 63 (335)
T ss_pred CeEEEECCCch-HHHHHHHHHHHHHhCCCEEEEEEec-----------cchHHHHHHHcCC---CeEEEcCCC--CCHHH
Confidence 46778888888 4578899999999999998776632 2356778889999 455555321 111 1
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
..+..-.-...+.+++++++||+++++
T Consensus 64 Kl~~~~~R~~~l~~~~~~~~pDv~is~ 90 (335)
T PF04007_consen 64 KLLESIERQYKLLKLIKKFKPDVAISF 90 (335)
T ss_pred HHHHHHHHHHHHHHHHHhhCCCEEEec
Confidence 111111223457778889999999987
No 12
>PRK00726 murG undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional
Probab=86.99 E-value=2.9 Score=38.05 Aligned_cols=92 Identities=11% Similarity=0.033 Sum_probs=51.6
Q ss_pred CcEEEEec-CchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025126 40 KNVLLVIA-HPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (257)
Q Consensus 40 ~~vL~i~a-HPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (257)
+|+++++. ...+|. .+--....+.++|++|++++...+. . .+ ..+..|+ +++.++.+.......
T Consensus 2 ~~i~i~~~g~gG~~~-~~~~la~~L~~~g~ev~vv~~~~~~-------~-~~---~~~~~g~---~~~~~~~~~~~~~~~ 66 (357)
T PRK00726 2 KKILLAGGGTGGHVF-PALALAEELKKRGWEVLYLGTARGM-------E-AR---LVPKAGI---EFHFIPSGGLRRKGS 66 (357)
T ss_pred cEEEEEcCcchHhhh-HHHHHHHHHHhCCCEEEEEECCCch-------h-hh---ccccCCC---cEEEEeccCcCCCCh
Confidence 56777765 555554 3444555567789999888764321 0 11 1111577 456665542211000
Q ss_pred -----ccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 119 -----KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 119 -----~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
..+..-.....+.+++++.+||+|+++.
T Consensus 67 ~~~l~~~~~~~~~~~~~~~~ik~~~pDvv~~~~ 99 (357)
T PRK00726 67 LANLKAPFKLLKGVLQARKILKRFKPDVVVGFG 99 (357)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCEEEECC
Confidence 0111123445678889999999999994
No 13
>PRK11677 hypothetical protein; Provisional
Probab=83.63 E-value=1.1 Score=36.17 Aligned_cols=25 Identities=20% Similarity=0.422 Sum_probs=19.2
Q ss_pred CchHHHHHHHHH--HHHHHHHHHhhcc
Q 025126 1 MSWLLVIVSTIV--VWVASLFKILNSS 25 (257)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~ 25 (257)
|.|+++++|+|+ ++.+++.|+..+.
T Consensus 1 M~W~~a~i~livG~iiG~~~~R~~~~~ 27 (134)
T PRK11677 1 MTWEYALIGLVVGIIIGAVAMRFGNRK 27 (134)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhhccch
Confidence 999999999999 6666777754433
No 14
>cd03796 GT1_PIG-A_like This family is most closely related to the GT1 family of glycosyltransferases. Phosphatidylinositol glycan-class A (PIG-A), an X-linked gene in humans, is necessary for the synthesis of N-acetylglucosaminyl-phosphatidylinositol, a very early intermediate in glycosyl phosphatidylinositol (GPI)-anchor biosynthesis. The GPI-anchor is an important cellular structure that facilitates the attachment of many proteins to cell surfaces. Somatic mutations in PIG-A have been associated with Paroxysmal Nocturnal Hemoglobinuria (PNH), an acquired hematological disorder.
Probab=81.92 E-value=9 Score=35.54 Aligned_cols=87 Identities=14% Similarity=0.152 Sum_probs=45.7
Q ss_pred CchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHH
Q 025126 48 HPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLA 127 (257)
Q Consensus 48 HPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~ 127 (257)
+.+..+..+-.+...+.+.|++|++++...++..+ . +.. .-|+ .++.+.......+. .........
T Consensus 12 ~~GG~e~~~~~la~~L~~~G~~V~v~~~~~~~~~~--~----~~~----~~~i---~v~~~p~~~~~~~~-~~~~~~~~~ 77 (398)
T cd03796 12 NLGGVETHIYQLSQCLIKRGHKVVVITHAYGNRVG--I----RYL----TNGL---KVYYLPFVVFYNQS-TLPTFFGTF 77 (398)
T ss_pred ccccHHHHHHHHHHHHHHcCCeeEEEeccCCcCCC--c----ccc----cCce---eEEEecceeccCCc-cccchhhhH
Confidence 33444555666777788899999888754432211 0 000 1244 23333322111100 011112234
Q ss_pred HHHHHHHHhcCCCEEEeeCCC
Q 025126 128 KIVEEEVVNCSIDLIITFDNY 148 (257)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~ 148 (257)
..+.+.+.+.+||+|.+|++.
T Consensus 78 ~~l~~~~~~~~~DiIh~~~~~ 98 (398)
T cd03796 78 PLLRNILIRERITIVHGHQAF 98 (398)
T ss_pred HHHHHHHHhcCCCEEEECCCC
Confidence 567778888899999999653
No 15
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=81.74 E-value=13 Score=31.76 Aligned_cols=66 Identities=15% Similarity=0.188 Sum_probs=44.0
Q ss_pred CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 66 RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 66 ~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
.|.+|.++.+..++ ..+..+.+..+|+ ++++..+.+.+. .++.+...+.|.+++++.+|++|++.
T Consensus 51 ~g~~v~av~~G~~~--------~~~~~~~l~~~G~--d~V~~~~~~~~~-----~~~~e~~a~al~~~i~~~~p~lVL~~ 115 (202)
T cd01714 51 YGGEVTVVSMGPPQ--------AEEALREALAMGA--DRAILVSDRAFA-----GADTLATAKALAAAIKKIGVDLILTG 115 (202)
T ss_pred cCCEEEEEEECCHH--------HHHHHHHHHHcCC--CEEEEEeccccc-----CCChHHHHHHHHHHHHHhCCCEEEEc
Confidence 35567666654321 1222223345798 788888766432 34677888999999999999999998
Q ss_pred C
Q 025126 146 D 146 (257)
Q Consensus 146 d 146 (257)
.
T Consensus 116 ~ 116 (202)
T cd01714 116 K 116 (202)
T ss_pred C
Confidence 4
No 16
>cd03808 GT1_cap1E_like This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides.
Probab=80.39 E-value=11 Score=32.69 Aligned_cols=88 Identities=13% Similarity=0.127 Sum_probs=46.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
+||++.+...-....+-..+..+.+.|++|.+++...+... .....|+ +++.+...... . ..
T Consensus 1 kIl~i~~~~~g~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~------------~~~~~~~---~~~~~~~~~~~--~-~~ 62 (359)
T cd03808 1 KILHIVTVDGGLYSFRLPLIKALRAAGYEVHVVAPPGDELE------------ELEALGV---KVIPIPLDRRG--I-NP 62 (359)
T ss_pred CeeEEEecchhHHHHHHHHHHHHHhcCCeeEEEecCCCccc------------ccccCCc---eEEeccccccc--c-Ch
Confidence 35666665222223344555666678999998886655321 1122354 33333332210 1 11
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+..-.....+.+.+++.+||+|+++.
T Consensus 63 ~~~~~~~~~~~~~~~~~~~dvv~~~~ 88 (359)
T cd03808 63 FKDLKALLRLYRLLRKERPDIVHTHT 88 (359)
T ss_pred HhHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 12223345677888889999998874
No 17
>PF15050 SCIMP: SCIMP protein
Probab=80.37 E-value=2 Score=33.86 Aligned_cols=22 Identities=9% Similarity=0.232 Sum_probs=17.8
Q ss_pred HHHHHHHH-HHHHHHHHHhhccC
Q 025126 5 LVIVSTIV-VWVASLFKILNSSR 26 (257)
Q Consensus 5 ~~~~~~~~-~~~~~~~~~~~~~~ 26 (257)
+|+||.++ +++||.||+++..-
T Consensus 16 II~vS~~lglIlyCvcR~~lRqG 38 (133)
T PF15050_consen 16 IILVSVVLGLILYCVCRWQLRQG 38 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcc
Confidence 46677777 88999999999873
No 18
>COG2025 FixB Electron transfer flavoprotein, alpha subunit [Energy production and conversion]
Probab=79.66 E-value=20 Score=33.06 Aligned_cols=87 Identities=11% Similarity=0.094 Sum_probs=56.5
Q ss_pred CcEEEEecCchhhhcchHHH-HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025126 40 KNVLLVIAHPDDESMFFSPT-INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggt-l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (257)
+.+++++.|.+.+.=..+-- +....+-| +|..+++-. ...+.+...|+ +.+...+.+...
T Consensus 1 ~~vlv~~e~~~~~l~~~s~el~~~A~~l~-~v~~vv~g~------------~~~~~~~~~Ga--d~v~~~~~~~~~---- 61 (313)
T COG2025 1 MKVLVVAEHDGGRLSPVSLELLTAARKLG-DVAAVVIGE------------GAAAAAKAYGA--DKVLVAEGPELA---- 61 (313)
T ss_pred CeEEEEecCCCCccchhhHHHHHHHHhcC-ceEEEEech------------HHHHHHhhcCC--CEEEEEcccchh----
Confidence 36889999975443211111 11122234 677776532 55677888999 677777766532
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
....+...+.+.+++++.+|++|+.++
T Consensus 62 -~~~~e~~~~~l~~l~~~~~p~~il~~a 88 (313)
T COG2025 62 -NYLPEPYADALVDLAKKYKPDVVLLPA 88 (313)
T ss_pred -ccchhHHHHHHHHHHHhcCCCEEEEcC
Confidence 224566788999999999999999884
No 19
>PRK12342 hypothetical protein; Provisional
Probab=79.37 E-value=18 Score=32.31 Aligned_cols=82 Identities=9% Similarity=0.086 Sum_probs=48.4
Q ss_pred HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEE
Q 025126 63 LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLI 142 (257)
Q Consensus 63 ~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V 142 (257)
+++.|.+|+++++ |.. .....++++-|=.+|+ ++.+.+..+.+. | +|.-.....|+..|++..||+|
T Consensus 47 Lk~~g~~Vtvls~--Gp~----~a~~~~l~r~alamGa--D~avli~d~~~~-g----~D~~ata~~La~~i~~~~~DLV 113 (254)
T PRK12342 47 LATDGDEIAALTV--GGS----LLQNSKVRKDVLSRGP--HSLYLVQDAQLE-H----ALPLDTAKALAAAIEKIGFDLL 113 (254)
T ss_pred HhhcCCEEEEEEe--CCC----hHhHHHHHHHHHHcCC--CEEEEEecCccC-C----CCHHHHHHHHHHHHHHhCCCEE
Confidence 3356777766665 432 1112234344445799 666666543322 1 2555677889999999899999
Q ss_pred EeeCCCCCCCCchHHH
Q 025126 143 ITFDNYGVSGHCNHRD 158 (257)
Q Consensus 143 ~t~d~~g~d~H~DH~~ 158 (257)
++-. ...|+..-|.-
T Consensus 114 l~G~-~s~D~~tgqvg 128 (254)
T PRK12342 114 LFGE-GSGDLYAQQVG 128 (254)
T ss_pred EEcC-CcccCCCCCHH
Confidence 9874 23344444443
No 20
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=79.32 E-value=26 Score=27.21 Aligned_cols=90 Identities=16% Similarity=0.245 Sum_probs=55.1
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCCC-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 58 PTINYLTSRRHNLHILCMSNGNADG-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~~~~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
.-+..+.+.|....++++..|+..+ ..-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-..
T Consensus 18 ~~i~~l~~~~~~P~Laii~vg~d~~S~~Y~~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~i~~lN~D 85 (117)
T PF00763_consen 18 EEIEKLKEKGITPKLAIILVGDDPASISYVRS--KQKAAEKLGI---EFELIELPED-------ISEEELLELIEKLNED 85 (117)
T ss_dssp HHHHHHHHCT---EEEEEEES--HHHHHHHHH--HHHHHHHHT----EEEEEEE-TT-------SSHHHHHHHHHHHHH-
T ss_pred HHHHHHHhcCCCcEEEEEecCCChhHHHHHHH--HHHHHHHcCC---ceEEEECCCC-------cCHHHHHHHHHHHhCC
Confidence 3456677789889988888886432 222222 4578999999 5666666541 2567888888888888
Q ss_pred cCCCEEEeeCCCCCCCCchHHHHHH
Q 025126 137 CSIDLIITFDNYGVSGHCNHRDVHH 161 (257)
Q Consensus 137 ~~Pd~V~t~d~~g~d~H~DH~~~~~ 161 (257)
-+.+=|+..-| .-.|.|...+..
T Consensus 86 ~~V~GIlvq~P--LP~~i~~~~i~~ 108 (117)
T PF00763_consen 86 PSVHGILVQLP--LPKHIDERKILE 108 (117)
T ss_dssp TT-SEEEEESS--SSTTSHHHHHHH
T ss_pred CCCCEEEEcCC--CCCCccHHHHHh
Confidence 78888888844 446777766544
No 21
>PF10740 DUF2529: Protein of unknown function (DUF2529); InterPro: IPR019676 This entry represents a protein family conserved in the Bacillales. Their function is not known. ; PDB: 3JX9_A.
Probab=78.15 E-value=3.9 Score=34.32 Aligned_cols=37 Identities=16% Similarity=0.114 Sum_probs=24.9
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEE
Q 025126 36 TGDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILC 74 (257)
Q Consensus 36 ~~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~ 74 (257)
..+..|||++++|++|+. +--...+|.++|..+.+||
T Consensus 79 lt~~DRVllfs~~~~~~e--~~~~a~~L~~~gi~~v~Vs 115 (172)
T PF10740_consen 79 LTETDRVLLFSPFSTDEE--AVALAKQLIEQGIPFVGVS 115 (172)
T ss_dssp --TT-EEEEEES-S--HH--HHHHHHHHHHHT--EEEEE
T ss_pred ccccceEEEEeCCCCCHH--HHHHHHHHHHCCCCEEEEE
Confidence 467889999999999965 4667888999999998888
No 22
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=77.84 E-value=19 Score=27.64 Aligned_cols=82 Identities=18% Similarity=0.145 Sum_probs=46.8
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccC
Q 025126 42 VLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLW 121 (257)
Q Consensus 42 vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~ 121 (257)
+|.|+.=|+ . ++--.+..+.+.|.+|++++..++. + + --...|+ .+..+..+ .+ + ..
T Consensus 2 Il~i~~~~~--~-~~~~~~~~L~~~g~~V~ii~~~~~~-----~----~---~~~~~~i---~~~~~~~~-~k-~---~~ 58 (139)
T PF13477_consen 2 ILLIGNTPS--T-FIYNLAKELKKRGYDVHIITPRNDY-----E----K---YEIIEGI---KVIRLPSP-RK-S---PL 58 (139)
T ss_pred EEEEecCcH--H-HHHHHHHHHHHCCCEEEEEEcCCCc-----h----h---hhHhCCe---EEEEecCC-CC-c---cH
Confidence 555554442 2 3556677778889999999984331 0 0 1113444 23333322 11 1 11
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
+.-.+ ..+.+++++.+||+|.+|.+
T Consensus 59 ~~~~~-~~l~k~ik~~~~DvIh~h~~ 83 (139)
T PF13477_consen 59 NYIKY-FRLRKIIKKEKPDVIHCHTP 83 (139)
T ss_pred HHHHH-HHHHHHhccCCCCEEEEecC
Confidence 22233 37899999999999999954
No 23
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=77.80 E-value=25 Score=27.26 Aligned_cols=66 Identities=14% Similarity=0.219 Sum_probs=47.4
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEeeCCC
Q 025126 71 HILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDNY 148 (257)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~~ 148 (257)
.++.+|.|+ -.+++.++++.+--+.+++..+++.... +.+++.+++.+.+.+.+. ++++..|-.
T Consensus 3 ~ili~sHG~-------~A~gl~~s~~~i~G~~~~i~~i~~~~~~-------~~~~~~~~l~~~i~~~~~~~~vivltDl~ 68 (116)
T TIGR00824 3 AIIISGHGQ-------AAIALLKSAEMIFGEQNNVGAVPFVPGE-------NAETLQEKYNAALADLDTEEEVLFLVDIF 68 (116)
T ss_pred EEEEEecHH-------HHHHHHHHHHHHcCCcCCeEEEEcCCCc-------CHHHHHHHHHHHHHhcCCCCCEEEEEeCC
Confidence 467778872 5678888888874445678888876421 457788899999988754 477788766
Q ss_pred CC
Q 025126 149 GV 150 (257)
Q Consensus 149 g~ 150 (257)
|+
T Consensus 69 GG 70 (116)
T TIGR00824 69 GG 70 (116)
T ss_pred CC
Confidence 64
No 24
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=75.93 E-value=16 Score=33.26 Aligned_cols=70 Identities=13% Similarity=0.113 Sum_probs=47.8
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC-CEEEeeCC
Q 025126 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI-DLIITFDN 147 (257)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P-d~V~t~d~ 147 (257)
++++...+-+....+..|.....+++..+|. +.+.+..+++.+. ...+....+.+++++++| |+|+++.|
T Consensus 3 ~~~~~~~~~~~~~a~~ka~~d~~~~~~~~g~--~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~Dvv~~~~P 73 (333)
T PRK09814 3 VHITNLYGMSGNSAALKAKNDVTKIAKQLGF--EELGIYFYNIKRD------SLSERSKRLDGILASLKPGDIVIFQFP 73 (333)
T ss_pred EEEEecccccccchHHHHHHHHHHHHHHCCC--eEeEEEecccccc------hHHHHHHHHHHHHhcCCCCCEEEEECC
Confidence 4444444444445678899999999999999 4555666665332 234555667778888999 89888854
No 25
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=75.48 E-value=19 Score=28.25 Aligned_cols=99 Identities=14% Similarity=0.149 Sum_probs=54.0
Q ss_pred HHHHhCCCc-EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 61 NYLTSRRHN-LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 61 ~~~~~~G~~-V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
.+|.++|++ +.++. ..........|.+..+++++..|++.....+.... ............+++.+|
T Consensus 2 ~~L~~~G~r~i~~i~--~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~l~~~~p 69 (160)
T PF13377_consen 2 DYLIERGHRRIAFIG--GPPNSSVSRERLEGFREALKEHGIEFEELIFFSDD----------DSEDAREAQLLWLRRLRP 69 (160)
T ss_dssp HHHHHTT-SSEEEEE--SSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESS----------SHHHHHHHHHHHHHTCSS
T ss_pred hHHHHCCCCeEEEEe--cCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCC----------cchhHHHHHHHHHhcCCC
Confidence 467888965 44444 22223456789999999999999953222222211 111222222234565699
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEEe
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye~ 181 (257)
|.||+.+ ...+..+..++.+.+ -++++.+-..
T Consensus 70 daii~~~----------~~~a~~~~~~l~~~g~~vP~di~vv~~ 103 (160)
T PF13377_consen 70 DAIICSN----------DRLALGVLRALRELGIRVPQDISVVSF 103 (160)
T ss_dssp SEEEESS----------HHHHHHHHHHHHHTTSCTTTTSEEEEE
T ss_pred cEEEEcC----------HHHHHHHHHHHHHcCCcccccccEEEe
Confidence 9999973 133444556555443 2456655443
No 26
>TIGR01133 murG undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase. RL J Bacteriol 1993 Mar;175(6):1841-3
Probab=74.94 E-value=15 Score=32.93 Aligned_cols=77 Identities=13% Similarity=0.075 Sum_probs=40.5
Q ss_pred chHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCC-CCccc----cCChHHHHHH
Q 025126 55 FFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQ-DGFDK----LWNHKSLAKI 129 (257)
Q Consensus 55 ~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~-dg~~~----~~~~~~l~~~ 129 (257)
++-..+..+.+.|++|++++-..| . . .+. .+..|+ +++.++..... .+... .+..-.....
T Consensus 16 ~~~~La~~L~~~g~eV~vv~~~~~----~---~-~~~---~~~~g~---~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~ 81 (348)
T TIGR01133 16 PALAVAEELIKRGVEVLWLGTKRG----L---E-KRL---VPKAGI---EFYFIPVGGLRRKGSFRLIKTPLKLLKAVFQ 81 (348)
T ss_pred HHHHHHHHHHhCCCEEEEEeCCCc----c---h-hcc---cccCCC---ceEEEeccCcCCCChHHHHHHHHHHHHHHHH
Confidence 333455566778999998852111 0 0 111 122566 44444432211 11100 0111234456
Q ss_pred HHHHHHhcCCCEEEee
Q 025126 130 VEEEVVNCSIDLIITF 145 (257)
Q Consensus 130 l~~~i~~~~Pd~V~t~ 145 (257)
+.+++++.+||+|+++
T Consensus 82 l~~~i~~~~pDvVi~~ 97 (348)
T TIGR01133 82 ARRILKKFKPDAVIGF 97 (348)
T ss_pred HHHHHHhcCCCEEEEc
Confidence 7888999999999998
No 27
>TIGR03088 stp2 sugar transferase, PEP-CTERM/EpsH1 system associated. Members of this family include a match to the pfam00534 Glycosyl transferases group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, which appears to travel with a conserved group of genes summarized by Genome Property GenProp0652. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species, but we hypothesize a conserved substrate.
Probab=74.60 E-value=19 Score=32.63 Aligned_cols=81 Identities=11% Similarity=0.075 Sum_probs=48.3
Q ss_pred CcEEEEecCchhhhcchHHH-------HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025126 40 KNVLLVIAHPDDESMFFSPT-------INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVD 112 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggt-------l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (257)
.+||.|..+.+ .||. +..+.++|.++.++++++++ +..+-....|+ +++.++.+.
T Consensus 2 ~~il~ii~~~~-----~GG~e~~~~~l~~~l~~~~~~~~v~~~~~~~----------~~~~~~~~~~i---~~~~~~~~~ 63 (374)
T TIGR03088 2 PLIVHVVYRFD-----VGGLENGLVNLINHLPADRYRHAVVALTEVS----------AFRKRIQRPDV---AFYALHKQP 63 (374)
T ss_pred ceEEEEeCCCC-----CCcHHHHHHHHHhhccccccceEEEEcCCCC----------hhHHHHHhcCc---eEEEeCCCC
Confidence 36888888864 3555 22233568888888876542 12223333576 444444321
Q ss_pred CCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 113 FQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 113 ~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
. ..-.....+.+++++.+||+|.+|.
T Consensus 64 ~--------~~~~~~~~l~~~l~~~~~Divh~~~ 89 (374)
T TIGR03088 64 G--------KDVAVYPQLYRLLRQLRPDIVHTRN 89 (374)
T ss_pred C--------CChHHHHHHHHHHHHhCCCEEEEcc
Confidence 1 1113346788889999999998874
No 28
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=74.18 E-value=3.9 Score=34.27 Aligned_cols=85 Identities=11% Similarity=0.080 Sum_probs=44.5
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 57 SPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 57 Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
.-.|.+++..|.+..+..+|++| +.+.|..++.++++..|+ ..+.+..+|.. .+.....-++.+.|...+++
T Consensus 61 ~~DL~~Lk~~G~~~Vvtl~~~~E---L~~l~Vp~L~~~~~~~Gi---~~~h~PI~D~~--aPd~~~~~~i~~eL~~~L~~ 132 (168)
T PF05706_consen 61 QADLERLKDWGAQDVVTLLTDHE---LARLGVPDLGEAAQARGI---AWHHLPIPDGS--APDFAAAWQILEELAARLEN 132 (168)
T ss_dssp HHHHHHHHHTT--EEEE-S-HHH---HHHTT-TTHHHHHHHTT----EEEE----TTS-----HHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHCCCCEEEEeCcHHH---HHHcCCccHHHHHHHcCC---EEEecCccCCC--CCCHHHHHHHHHHHHHHHHc
Confidence 56788999999998888778774 455667788899999999 55667777753 11110112345566666665
Q ss_pred cCCCEEEeeCCCCCCC
Q 025126 137 CSIDLIITFDNYGVSG 152 (257)
Q Consensus 137 ~~Pd~V~t~d~~g~d~ 152 (257)
-+ ++ +.|= +|+-|
T Consensus 133 g~-~V-~vHC-~GGlG 145 (168)
T PF05706_consen 133 GR-KV-LVHC-RGGLG 145 (168)
T ss_dssp T---E-EEE--SSSSS
T ss_pred CC-EE-EEEC-CCCCC
Confidence 43 33 4442 45433
No 29
>PLN00022 electron transfer flavoprotein subunit alpha; Provisional
Probab=73.72 E-value=23 Score=33.29 Aligned_cols=96 Identities=16% Similarity=0.116 Sum_probs=56.5
Q ss_pred CCCCcEEEEecCchhhhcchHHH----HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHH--cCCCCCcEEEccC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPT----INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAV--LKIPLEQVKVLDL 110 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggt----l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~--LGv~~~~~~~l~~ 110 (257)
...+.+++++-|.+++.--.+-- -.++...+.+|.++.+-.+.. . +|..+.+.. .|+ +.++.++.
T Consensus 24 ~~~m~i~V~~E~~~g~l~~~slEll~~Ar~La~~~~~v~avv~g~~~~-----~--~~~a~~l~~~~~Ga--d~V~~~~~ 94 (356)
T PLN00022 24 SRQISTLVVAEHEGGSVKPQSLSAVAAAKSLLGESSPISLLLAGSGPS-----L--QQAASHAASSHPSV--SEVLVADS 94 (356)
T ss_pred hcCCeEEEEEeCcCCEeCHHHHHHHHHHHHhcCCCCceEEEEEcCCcc-----h--hhHHHHHhhccCCC--CEEEEecC
Confidence 45567999999987754311111 111211223566665533210 0 122222333 598 78888887
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
|.+. .+..+...+.|.+++++.+|++|+.+.
T Consensus 95 ~~l~-----~y~~e~~a~al~~li~~~~P~~vL~~~ 125 (356)
T PLN00022 95 DKLT-----HPLAEPWAKLVVLAQQKGGYSHILAAS 125 (356)
T ss_pred chhc-----ccChHHHHHHHHHHHHhcCCCEEEECC
Confidence 6542 224567788999999999999999884
No 30
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=73.20 E-value=21 Score=33.86 Aligned_cols=107 Identities=10% Similarity=0.143 Sum_probs=64.7
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHH-HHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 42 VLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELH-RACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 42 vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~-~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
+.+++.-|+= +=..+++..+.+.+.--..||.|. +-|..|+. ...+.+|++. .-+.|+.-+-+.++.+
T Consensus 7 ~~I~GTRPE~--iKmapli~~~~~~~~~~~~vi~TG-------QH~d~em~~~~le~~~i~~-pdy~L~i~~~~~tl~~- 75 (383)
T COG0381 7 LTIFGTRPEA--IKMAPLVKALEKDPDFELIVIHTG-------QHRDYEMLDQVLELFGIRK-PDYDLNIMKPGQTLGE- 75 (383)
T ss_pred EEEEecCHHH--HHHhHHHHHHHhCCCCceEEEEec-------ccccHHHHHHHHHHhCCCC-CCcchhccccCCCHHH-
Confidence 3445666754 446899999998875445566663 55666654 4588899952 1233443211111211
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHH
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYL 168 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~ 168 (257)
-...+...+.+++.+.+||+|+.| .|--.+..++..|++
T Consensus 76 -~t~~~i~~~~~vl~~~kPD~VlVh--------GDT~t~lA~alaa~~ 114 (383)
T COG0381 76 -ITGNIIEGLSKVLEEEKPDLVLVH--------GDTNTTLAGALAAFY 114 (383)
T ss_pred -HHHHHHHHHHHHHHhhCCCEEEEe--------CCcchHHHHHHHHHH
Confidence 134667788999999999999987 233344444555554
No 31
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=72.84 E-value=32 Score=31.77 Aligned_cols=75 Identities=11% Similarity=0.159 Sum_probs=50.8
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc-cccCChHHHHHHHHHHHHhc
Q 025126 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF-DKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~-~~~~~~~~l~~~l~~~i~~~ 137 (257)
|+-++++.|... ..+-.+-.|..+-+..+|+ ..+...+.|+.+|.. .+.|+.+.++.+-.+.|++.
T Consensus 34 I~PlFV~eg~~~~~~I~smPg~~r~sid~l~~~~~~~~~~Gi--~~v~lFgv~~~Kd~~gs~A~~~~g~v~~air~iK~~ 111 (322)
T PRK13384 34 IYPIFIEEHITDAVPISTLPGISRLPESALADEIERLYALGI--RYVMPFGISHHKDAKGSDTWDDNGLLARMVRTIKAA 111 (322)
T ss_pred eeeEEEecCCCCceecCCCCCcceECHHHHHHHHHHHHHcCC--CEEEEeCCCCCCCCCcccccCCCChHHHHHHHHHHH
Confidence 667788887542 1344455566666777999 577888877766533 23467777777777777777
Q ss_pred CCCEEEeeC
Q 025126 138 SIDLIITFD 146 (257)
Q Consensus 138 ~Pd~V~t~d 146 (257)
-||+++..|
T Consensus 112 ~pdl~vi~D 120 (322)
T PRK13384 112 VPEMMVIPD 120 (322)
T ss_pred CCCeEEEee
Confidence 799987655
No 32
>cd03785 GT1_MurG MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide (NAM). The resulting disaccharide is then transported across the cell membrane, where it is polymerized into NAG-NAM cell-wall repeat structure. MurG belongs to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains, each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=72.13 E-value=10 Score=34.00 Aligned_cols=21 Identities=10% Similarity=0.113 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhcCCCEEEeeC
Q 025126 126 LAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (257)
....+.+++++.+||+|+++.
T Consensus 77 ~~~~~~~~i~~~~pDvI~~~~ 97 (350)
T cd03785 77 GVLQARKILKKFKPDVVVGFG 97 (350)
T ss_pred HHHHHHHHHHhcCCCEEEECC
Confidence 345677889999999999873
No 33
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=70.12 E-value=1.1e+02 Score=30.98 Aligned_cols=25 Identities=8% Similarity=0.037 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
.+.+.+.+.+.+.+||+++.-|..|
T Consensus 297 ~~~~~l~~~i~~~kPD~vIlID~Pg 321 (608)
T PRK01021 297 YRYRKLYKTILKTNPRTVICIDFPD 321 (608)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCCC
Confidence 4456677888889999999998544
No 34
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine 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 is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=69.30 E-value=36 Score=28.86 Aligned_cols=77 Identities=10% Similarity=0.163 Sum_probs=42.6
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCc---hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 60 INYLTSRRHNLHILCMSNGNADGM---GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~---~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
+..+.++|.+|..++.+.+..... -....+.+++.|+.+|+| ++..+.+. . ... ..+++.+.|.++-++
T Consensus 16 l~~a~~~G~~v~~l~~~~~~~~~~~~~h~~~~e~~~~~A~~lgip---l~~i~~~~-~-~e~---~~~~l~~~l~~~~~~ 87 (194)
T cd01994 16 LYRALEEGHEVVALLNLTPEEGSSMMYHTVNHELLELQAEAMGIP---LIRIEISG-E-EED---EVEDLKELLRKLKEE 87 (194)
T ss_pred HHHHHHcCCEEEEEEEEecCCCCcccccccCHHHHHHHHHHcCCc---EEEEeCCC-C-chH---HHHHHHHHHHHHHHc
Confidence 455567899988888776543221 112445677889999994 44555432 1 000 113444444444444
Q ss_pred cCCCEEEee
Q 025126 137 CSIDLIITF 145 (257)
Q Consensus 137 ~~Pd~V~t~ 145 (257)
..+.|++=
T Consensus 88 -g~~~vv~G 95 (194)
T cd01994 88 -GVDAVVFG 95 (194)
T ss_pred -CCCEEEEC
Confidence 47877654
No 35
>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. They either contain a cysteine-rich zinc binding site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an aspartate-rich magnesium binding site (consensus DXALDX(Y/F)X3G(H/Q)DG). The cyste
Probab=68.83 E-value=45 Score=30.74 Aligned_cols=75 Identities=13% Similarity=0.184 Sum_probs=50.6
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc-cccCChHHHHHHHHHHHHhc
Q 025126 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF-DKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~-~~~~~~~~l~~~l~~~i~~~ 137 (257)
|+-++++.|... ..+-.+-.|..+-+..+|+ ..+...+.|+.+|.. .+.|+.+.++.+-.+.|++.
T Consensus 24 I~PlFV~eg~~~~~~I~sMPG~~r~s~d~l~~~~~~~~~~Gi--~~v~LFgv~~~Kd~~gs~A~~~~g~v~~air~iK~~ 101 (314)
T cd00384 24 IYPLFVVEGIDEKEEISSMPGVYRLSVDSLVEEAEELADLGI--RAVILFGIPEHKDEIGSEAYDPDGIVQRAIRAIKEA 101 (314)
T ss_pred eeeEEEecCCCCccccCCCCCceeeCHHHHHHHHHHHHHCCC--CEEEEECCCCCCCCCcccccCCCChHHHHHHHHHHh
Confidence 667788888542 1244455555566677999 577788887666532 23477777777777777777
Q ss_pred CCCEEEeeC
Q 025126 138 SIDLIITFD 146 (257)
Q Consensus 138 ~Pd~V~t~d 146 (257)
-||+++..|
T Consensus 102 ~p~l~vi~D 110 (314)
T cd00384 102 VPELVVITD 110 (314)
T ss_pred CCCcEEEEe
Confidence 799877655
No 36
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=68.36 E-value=40 Score=30.10 Aligned_cols=84 Identities=12% Similarity=0.074 Sum_probs=47.9
Q ss_pred HHHHhC-C-CcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-R-HNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G-~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
.+++++ | .+|+++++ |..+ ....+..+-|=.+|+ ++-+.+..+.+. | .+.-.....|+..|++..
T Consensus 46 lrlke~~~g~~Vtvvs~--Gp~~----a~~~~~lr~aLAmGa--D~avli~d~~~~-g----~D~~~tA~~La~ai~~~~ 112 (256)
T PRK03359 46 CQLKQQAAEAQVTALSV--GGKA----LTNAKGRKDVLSRGP--DELIVVIDDQFE-Q----ALPQQTASALAAAAQKAG 112 (256)
T ss_pred HHHhhhcCCCEEEEEEE--CCcc----hhhHHHHHHHHHcCC--CEEEEEecCccc-C----cCHHHHHHHHHHHHHHhC
Confidence 344554 2 56665555 4321 111233344445799 566666543322 1 255677888999999999
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
||+|++-. .-.|+..-+.-
T Consensus 113 ~DLVl~G~-~s~D~~tgqvg 131 (256)
T PRK03359 113 FDLILCGD-GSSDLYAQQVG 131 (256)
T ss_pred CCEEEEcC-ccccCCCCcHH
Confidence 99999874 23344444443
No 37
>COG2249 MdaB Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]
Probab=68.16 E-value=3.9 Score=34.81 Aligned_cols=30 Identities=27% Similarity=0.600 Sum_probs=21.5
Q ss_pred CcEEEEecCchhhhcchHHHHH-----HHHhCCCcEEE
Q 025126 40 KNVLLVIAHPDDESMFFSPTIN-----YLTSRRHNLHI 72 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~-----~~~~~G~~V~v 72 (257)
+++|+|.|||+ +++ +..++ .+.+.|++|..
T Consensus 1 mkiLii~aHP~-~sf--~~~~~~~~~~~~n~~~~~v~~ 35 (189)
T COG2249 1 MKILIIYAHPN-ESF--THALSDAALERLNEAGHEVAL 35 (189)
T ss_pred CcEEEEEeCch-hhh--hHHHHHHHHHHHHHcchHHHh
Confidence 47999999999 653 55566 66667765543
No 38
>PF07364 DUF1485: Protein of unknown function (DUF1485); InterPro: IPR015995 Proteins in this entry are involved in degradation of the cyanobacterial heptapeptide hepatotoxin microcystin LR, and are encoded in the mlr gene cluster []. MlrC from Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) is believed to mediate the last step of peptidolytic degradation of the tetrapeptide. It is suspected to be a metallopeptidase based on homology to known peptidases and its inhibition by metal chelators. The proteins encoded by the mlr cluster may be involved in cell wall peptidoglycan cycling and subsequently act fortuitously in hydrolysis of microcystin LR. This entry represents the N-terminal region of these proteins.; PDB: 3IUU_A.
Probab=68.13 E-value=31 Score=31.45 Aligned_cols=119 Identities=16% Similarity=0.123 Sum_probs=64.7
Q ss_pred EEEEecCchhhhc--------chHHHHHHHHhCCCcEEEEEEeCCCCCCc-----hHHHHHHHHHHHHHcC-CCCCcEEE
Q 025126 42 VLLVIAHPDDESM--------FFSPTINYLTSRRHNLHILCMSNGNADGM-----GNIRKDELHRACAVLK-IPLEQVKV 107 (257)
Q Consensus 42 vL~i~aHPDDE~l--------~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~-----~~~R~~E~~~A~~~LG-v~~~~~~~ 107 (257)
...-.-+.+|+.+ ..||.+..+.+.|+++.-.+.....++|. -+.=..|+.+.++.-| + +-++
T Consensus 25 F~~~~~~~G~~~~~~~~~~~~~~~g~~~~a~~~g~e~vp~~~a~A~P~G~v~~~aye~l~~eil~~l~~agp~---Dgv~ 101 (292)
T PF07364_consen 25 FRERGYLRGEELLAAFRGTNTEIGGFLDAAEAQGWEVVPLLWAAAEPGGPVTREAYERLRDEILDRLRAAGPL---DGVL 101 (292)
T ss_dssp EE---EEETHHHHHHHHTS-SHHHHHHHHHHHTT-EEEEEEEEEE-SEE-B-HHHHHHHHHHHHHHHHHS------SEEE
T ss_pred hcCccccccHHHHhhhccCCcchHHHHHHHHHCCCEEEeeEeeeecCCCcccHHHHHHHHHHHHHHHHhcCCc---CEEE
Confidence 3334456677776 68999999999999999888888877653 2334466666666655 4 4456
Q ss_pred ccCCCCC--CCccccCChHHHHHHHHHHHHhcCCC--EEEeeCCCC-----------------CCCCchHHHHHHHHHHH
Q 025126 108 LDLVDFQ--DGFDKLWNHKSLAKIVEEEVVNCSID--LIITFDNYG-----------------VSGHCNHRDVHHGICRS 166 (257)
Q Consensus 108 l~~~d~~--dg~~~~~~~~~l~~~l~~~i~~~~Pd--~V~t~d~~g-----------------~d~H~DH~~~~~av~~A 166 (257)
|+.-..- +|.+. .+-++.++|.+++ .|| ++.|.|+|+ .+.|.|=..+++-+.+.
T Consensus 102 L~LHGAmv~e~~~D--~EG~Ll~rvR~~v---Gp~vpI~~tlDlHaNvs~~mv~~ad~~~~yrtyPH~D~~etg~~aa~l 176 (292)
T PF07364_consen 102 LDLHGAMVAEGYDD--GEGDLLRRVRAIV---GPDVPIAATLDLHANVSPRMVEAADIIVGYRTYPHIDMYETGERAARL 176 (292)
T ss_dssp EEE-S---BSS-SS--HHHHHHHHHHHHH---TTTSEEEEEE-TT----HHHHHH-SEEEE---SS---HHHHHHHHHHH
T ss_pred EeccCcEeecCCCC--chHHHHHHHHHHh---CCCCeEEEEeCCCCCccHHHHHhCCEEEEcCCCCccCHHHHHHHHHHH
Confidence 6643210 11110 1124455555544 565 467788765 46799988888777665
Q ss_pred HH
Q 025126 167 YL 168 (257)
Q Consensus 167 ~~ 168 (257)
+.
T Consensus 177 l~ 178 (292)
T PF07364_consen 177 LL 178 (292)
T ss_dssp HH
T ss_pred HH
Confidence 54
No 39
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=67.18 E-value=54 Score=29.41 Aligned_cols=85 Identities=14% Similarity=0.159 Sum_probs=51.0
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (257)
.++.++|+--.++.+|-|.. +.+|...-|=.+|+ ++.+.+..+.+. .-+.......|++.+++.+||
T Consensus 47 lrLke~~~~~eV~vlt~Gp~------~a~~~lr~aLAmGa--Draili~d~~~~-----~~d~~~ta~~Laa~~~~~~~~ 113 (260)
T COG2086 47 LRLKEKGYGGEVTVLTMGPP------QAEEALREALAMGA--DRAILITDRAFA-----GADPLATAKALAAAVKKIGPD 113 (260)
T ss_pred HHhhccCCCceEEEEEecch------hhHHHHHHHHhcCC--CeEEEEeccccc-----CccHHHHHHHHHHHHHhcCCC
Confidence 35555444444555566643 33333333666899 666666643321 124567788999999999999
Q ss_pred EEEeeCCCCCCCCchHHHH
Q 025126 141 LIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~ 159 (257)
+|++-.. ..|+...|.-.
T Consensus 114 LVl~G~q-a~D~~t~qvg~ 131 (260)
T COG2086 114 LVLTGKQ-AIDGDTGQVGP 131 (260)
T ss_pred EEEEecc-cccCCccchHH
Confidence 9998752 33554444443
No 40
>cd04951 GT1_WbdM_like This family is most closely related to the GT1 family of glycosyltransferases and is named after WbdM in Escherichia coli. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have
Probab=66.34 E-value=29 Score=30.71 Aligned_cols=20 Identities=5% Similarity=-0.095 Sum_probs=15.6
Q ss_pred HHHHHHHHhcCCCEEEeeCC
Q 025126 128 KIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~ 147 (257)
..+.+++++.+||+|.++.+
T Consensus 69 ~~~~~~~~~~~pdiv~~~~~ 88 (360)
T cd04951 69 WKLRKILRQFKPDVVHAHMF 88 (360)
T ss_pred HHHHHHHHhcCCCEEEEccc
Confidence 45677888899999988753
No 41
>cd04962 GT1_like_5 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=65.41 E-value=8.8 Score=34.50 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhcCCCEEEeeC
Q 025126 126 LAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (257)
....+.+.+++.+||+|.++.
T Consensus 72 ~~~~l~~~i~~~~~divh~~~ 92 (371)
T cd04962 72 LASKIAEVAKRYKLDLLHVHY 92 (371)
T ss_pred HHHHHHHHHhcCCccEEeecc
Confidence 456778888889999988874
No 42
>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=65.20 E-value=44 Score=25.77 Aligned_cols=73 Identities=11% Similarity=0.105 Sum_probs=36.5
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
+..+++.|.+..+-.-.+||..+ .-...+..++++.+|+ +++.+.... .+ ..++-++.+.+.+++. |
T Consensus 20 ~~~la~~GfktVInlRpd~E~~~--qp~~~~~~~~a~~~Gl---~y~~iPv~~--~~-----~~~~~v~~f~~~l~~~-~ 86 (110)
T PF04273_consen 20 LAQLAAQGFKTVINLRPDGEEPG--QPSSAEEAAAAEALGL---QYVHIPVDG--GA-----ITEEDVEAFADALESL-P 86 (110)
T ss_dssp HHHHHHCT--EEEE-S-TTSTTT---T-HHCHHHHHHHCT----EEEE----T--TT-------HHHHHHHHHHHHTT-T
T ss_pred HHHHHHCCCcEEEECCCCCCCCC--CCCHHHHHHHHHHcCC---eEEEeecCC--CC-----CCHHHHHHHHHHHHhC-C
Confidence 67888999876444445665433 2355567789999999 455555432 11 1234456667777763 3
Q ss_pred CEEEee
Q 025126 140 DLIITF 145 (257)
Q Consensus 140 d~V~t~ 145 (257)
.=|+.|
T Consensus 87 ~Pvl~h 92 (110)
T PF04273_consen 87 KPVLAH 92 (110)
T ss_dssp TSEEEE
T ss_pred CCEEEE
Confidence 334444
No 43
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=64.92 E-value=86 Score=26.54 Aligned_cols=100 Identities=12% Similarity=0.088 Sum_probs=53.7
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
..+.++|++ .+++++..........|.+.+.++++..|++........ . .|+.+...+.+.+++++. +|
T Consensus 115 ~~l~~~g~~-~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~-~--------~~~~~~~~~~~~~~l~~~~~~ 184 (270)
T cd06294 115 EYLIKLGHK-KIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIIS-L--------DFSEEGGYKALKKLLEQHPRP 184 (270)
T ss_pred HHHHHcCCc-cEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEe-c--------CCchHHHHHHHHHHHhCCCCC
Confidence 334456654 455554222223346688889999998886322211111 1 123344556677777654 58
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEE
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWE 180 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye 180 (257)
+.|++.+ + ..+..+..|+.+.+. ++++.+..
T Consensus 185 ~ai~~~~--d--------~~a~g~~~al~~~g~~iP~dv~vig 217 (270)
T cd06294 185 TAIVATD--D--------LLALGVLKVLNELGLKVPEDLSIIG 217 (270)
T ss_pred CEEEECC--h--------HHHHHHHHHHHHcCCCCCcceEEEe
Confidence 9999873 2 123345555654443 34555554
No 44
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.99 E-value=6 Score=31.68 Aligned_cols=26 Identities=19% Similarity=0.428 Sum_probs=21.5
Q ss_pred CchHHHHHHHHH--HHHHHHHHHhhccC
Q 025126 1 MSWLLVIVSTIV--VWVASLFKILNSSR 26 (257)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~~ 26 (257)
|.|++.++|+|+ ++.++++|+...+.
T Consensus 6 ~~W~~a~igLvvGi~IG~li~Rlt~~~~ 33 (138)
T COG3105 6 MTWEYALIGLVVGIIIGALIARLTNRKL 33 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcchhh
Confidence 678999999999 77788899776664
No 45
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=63.03 E-value=68 Score=28.42 Aligned_cols=73 Identities=14% Similarity=0.023 Sum_probs=42.0
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
..+.+.|++ .+.+++..........|.+-..++++..|+.. ...... .|+.+...+.+.+++++. +|
T Consensus 172 ~~L~~~G~r-~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~---~~~~~~--------~~~~~~~~~~~~~~l~~~~~~ 239 (328)
T PRK11303 172 ESLLKFPAE-SILLLGALPELSVSFEREQGFRQALKDDPREV---HYLYAN--------SFEREAGAQLFEKWLETHPMP 239 (328)
T ss_pred HHHHHCCCC-eEEEEeCccccccHHHHHHHHHHHHHHcCCCc---eEEEeC--------CCChHHHHHHHHHHHcCCCCC
Confidence 345677865 34444322222345678888999999988732 111111 123344455667777653 58
Q ss_pred CEEEee
Q 025126 140 DLIITF 145 (257)
Q Consensus 140 d~V~t~ 145 (257)
|.|++.
T Consensus 240 ~ai~~~ 245 (328)
T PRK11303 240 DALFTT 245 (328)
T ss_pred CEEEEc
Confidence 999987
No 46
>cd03818 GT1_ExpC_like This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II).
Probab=62.06 E-value=65 Score=29.70 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=16.5
Q ss_pred HHHHHHhCCCcEEEEEEeCCC
Q 025126 59 TINYLTSRRHNLHILCMSNGN 79 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~ 79 (257)
....|.++|++|+++|..+..
T Consensus 16 la~~L~~~G~~v~~~~~~~~~ 36 (396)
T cd03818 16 LAPALAAQGHEVVFLTEPNAA 36 (396)
T ss_pred HHHHHHHCCCEEEEEecCCCC
Confidence 556677889999999987763
No 47
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=62.02 E-value=98 Score=26.20 Aligned_cols=100 Identities=15% Similarity=0.160 Sum_probs=52.9
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
.+.+.|++ .+++++..........|.+-..++++..|++... ...... .++.+...+.+.+++++. +|+
T Consensus 105 ~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~~~~l~~~~~~~ 174 (261)
T cd06272 105 YLAEKGHK-KIAYIGDLSLDRRQRKRFKGFLETCDENGISISD-SHIDVD--------GLSAEGGDNAAKKLLKESDLPT 174 (261)
T ss_pred HHHHcCch-hEEEeecccccccHHHHHHHHHHHHHHcCCCCCH-HHeeeC--------CCCHHHHHHHHHHHHcCCCCCC
Confidence 34456765 3455543322234466888888899888863211 111110 112334445667777664 489
Q ss_pred EEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEEe
Q 025126 141 LIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWEL 181 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye~ 181 (257)
.|++.+. ..+..+.+|+.+.+. ++++.+...
T Consensus 175 ai~~~~d----------~~a~~~~~~l~~~g~~vp~dv~vvg~ 207 (261)
T cd06272 175 AIICGSY----------DIALGVLSALNKQGISIPEDIEIISY 207 (261)
T ss_pred EEEECCc----------HHHHHHHHHHHHhCCCCCCceEEEee
Confidence 9998842 234445555544432 456665543
No 48
>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents porphobilinogen (PBG) synthase (PBGS, or 5-aminoaevulinic acid dehydratase, or ALAD, 4.2.1.24 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses a Knorr-type condensation reaction between two molecules of ALA to generate porphobilinogen, the pyrrolic building block used in later steps []. The structure of the enzyme is based on a TIM barrel topology made up of eight identical subunits, where each subunit binds to a metal ion that is essential for activity, usually zinc (in yeast, mammals and certain bacteria) or magnesium (in plants and other bacteria). A lysine has been implicated in the catalytic mechanism []. The lack of PBGS enzyme causes a rare porphyric disorder known as ALAD porphyria, which appears to involve conformational changes in the enzyme [.; GO: 0004655 porphobilinogen synthase activity, 0046872 metal ion binding, 0033014 tetrapyrrole biosynthetic process; PDB: 2C1H_A 1W1Z_A 1GZG_B 1W5O_B 1W5Q_B 2C18_A 1B4K_A 2C19_B 1W56_B 2C13_B ....
Probab=61.54 E-value=39 Score=31.26 Aligned_cols=75 Identities=16% Similarity=0.162 Sum_probs=50.3
Q ss_pred EEEEEEeCCCCC--------C---chHHHHHHHHHHHHHcCCCCCcEEEccC--CCCCCCc-cccCChHHHHHHHHHHHH
Q 025126 70 LHILCMSNGNAD--------G---MGNIRKDELHRACAVLKIPLEQVKVLDL--VDFQDGF-DKLWNHKSLAKIVEEEVV 135 (257)
Q Consensus 70 V~vv~lT~G~~~--------~---~~~~R~~E~~~A~~~LGv~~~~~~~l~~--~d~~dg~-~~~~~~~~l~~~l~~~i~ 135 (257)
|+-++++.|+.. | .+-.+-.|..+-+..+|+ ..+...+. |+.+|.. .+.|+.+.++.+-.+.|+
T Consensus 30 I~PlFV~eg~~~~~~I~smPg~~r~sid~l~~~v~~~~~~GI--~~v~lFgvi~~~~Kd~~gs~a~~~~g~v~~air~iK 107 (324)
T PF00490_consen 30 IYPLFVVEGENEKEPISSMPGVYRYSIDSLVKEVEEAVDLGI--RAVILFGVIDPSKKDEEGSEAYNPDGLVQRAIRAIK 107 (324)
T ss_dssp EEEEEEESSSSSEEEETTSTTEEEEEHHHHHHHHHHHHHTT----EEEEEEE-SCSC-BSS-GGGGSTTSHHHHHHHHHH
T ss_pred EEEEEEecCCCcceeccCCCCeeeeCHHHHHHHHHHHHHCCC--CEEEEEeeCCcccCCcchhcccCCCChHHHHHHHHH
Confidence 677888888752 1 345566666677778999 56777777 6655533 234777888877778787
Q ss_pred hcCCCEEEeeC
Q 025126 136 NCSIDLIITFD 146 (257)
Q Consensus 136 ~~~Pd~V~t~d 146 (257)
+.-||+++..|
T Consensus 108 ~~~pdl~vi~D 118 (324)
T PF00490_consen 108 KAFPDLLVITD 118 (324)
T ss_dssp HHSTTSEEEEE
T ss_pred HhCCCcEEEEe
Confidence 77799887655
No 49
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=61.12 E-value=50 Score=27.83 Aligned_cols=62 Identities=16% Similarity=0.266 Sum_probs=37.8
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC-EEEeeCCCCC
Q 025126 72 ILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID-LIITFDNYGV 150 (257)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd-~V~t~d~~g~ 150 (257)
|+.+|+|+ +.-++..+.|++.+|. +|+-... |-+.....+++ .++|.+..-| +++.||..|.
T Consensus 2 VIlvTDGD-----~~A~ravE~aa~~iGg---RCIS~S~-----GNPT~lsG~el----V~lIk~a~~DPV~VMfDD~G~ 64 (180)
T PF14097_consen 2 VILVTDGD-----EYAKRAVEIAAKNIGG---RCISQSA-----GNPTPLSGEEL----VELIKQAPHDPVLVMFDDKGF 64 (180)
T ss_pred EEEEECCh-----HHHHHHHHHHHHHhCc---EEEeccC-----CCCCcCCHHHH----HHHHHhCCCCCEEEEEeCCCC
Confidence 67889997 4556677789999998 5554432 11223344454 5566655545 4566776653
No 50
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=60.53 E-value=72 Score=29.52 Aligned_cols=75 Identities=13% Similarity=0.136 Sum_probs=48.9
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc-cccCChHHHHHHHHHHHHhc
Q 025126 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF-DKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~-~~~~~~~~l~~~l~~~i~~~ 137 (257)
|+-++++.|... ..+-.+-.|..+-+..+|+ ..+...+.|+.+|.. .+.|+.+.++.+-.+.|++.
T Consensus 32 I~PiFV~eg~~~~~~I~smPg~~r~s~d~l~~~v~~~~~~Gi--~av~LFgv~~~Kd~~gs~A~~~~g~v~rair~iK~~ 109 (323)
T PRK09283 32 IYPLFVVEGENEREEIPSMPGVYRLSIDLLVKEAEEAVELGI--PAVALFGVPELKDEDGSEAYNPDGLVQRAIRAIKKA 109 (323)
T ss_pred eeeEEEecCCCCccccCCCCCceeeCHHHHHHHHHHHHHCCC--CEEEEeCcCCCCCcccccccCCCCHHHHHHHHHHHh
Confidence 667888888542 1234455555566677999 567777877666533 23467776666666666666
Q ss_pred CCCEEEeeC
Q 025126 138 SIDLIITFD 146 (257)
Q Consensus 138 ~Pd~V~t~d 146 (257)
-||+++..|
T Consensus 110 ~p~l~vi~D 118 (323)
T PRK09283 110 FPELGVITD 118 (323)
T ss_pred CCCcEEEEe
Confidence 699887655
No 51
>cd03812 GT1_CapH_like This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1).
Probab=59.04 E-value=87 Score=27.64 Aligned_cols=81 Identities=10% Similarity=0.089 Sum_probs=45.0
Q ss_pred cEEEEecCchhhhcchHHHHHH-------HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025126 41 NVLLVIAHPDDESMFFSPTINY-------LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~-------~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (257)
+||++.+.. .-||.-.. +.+.|++|++++...++. +........|+ ++..+..+..
T Consensus 1 kIl~~~~~~-----~~GG~~~~~~~l~~~L~~~~~~v~~i~~~~~~~---------~~~~~~~~~~~---~~~~~~~~~~ 63 (358)
T cd03812 1 KILHIVGTM-----NRGGIETFIMNYYRNLDRSKIQFDFLVTSKEEG---------DYDDEIEKLGG---KIYYIPARKK 63 (358)
T ss_pred CEEEEeCCC-----CCccHHHHHHHHHHhcCccceEEEEEEeCCCCc---------chHHHHHHcCC---eEEEecCCCc
Confidence 477777766 23443222 234789999888765432 12223344566 3333222110
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
........+.+++++.+||+|+++.
T Consensus 64 --------~~~~~~~~~~~~~~~~~~Dvv~~~~ 88 (358)
T cd03812 64 --------NPLKYFKKLYKLIKKNKYDIVHVHG 88 (358)
T ss_pred --------cHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 1123345667788889999999884
No 52
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=58.92 E-value=76 Score=25.57 Aligned_cols=60 Identities=17% Similarity=0.144 Sum_probs=38.2
Q ss_pred HHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 91 LHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.++..|+ ++.... .+| +.+++.+.|.+.+++.+.|+|+|. |+.+..+.-.+.+++.+
T Consensus 25 l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~~~~~DlVitt---GG~s~g~~D~t~~al~~ 85 (152)
T cd00886 25 LVELLEEAGH---EVVAYEIVPD---------DKDEIREALIEWADEDGVDLILTT---GGTGLAPRDVTPEATRP 85 (152)
T ss_pred HHHHHHHcCC---eeeeEEEcCC---------CHHHHHHHHHHHHhcCCCCEEEEC---CCcCCCCCcCcHHHHHH
Confidence 5556788887 333332 233 346777888888775578999998 44555555555565555
No 53
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=58.87 E-value=1.2e+02 Score=26.25 Aligned_cols=102 Identities=9% Similarity=-0.021 Sum_probs=54.6
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 57 SPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 57 Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
.-.+..+.++|++= +.+++..........|.+...++++..|++.. ...... + ++.+...+.+.+++++
T Consensus 107 ~~a~~~L~~~G~~~-I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~-~~~~~~-~--------~~~~~~~~~~~~~l~~ 175 (269)
T cd06287 107 RMLLEHLRAQGARQ-IALIVGSARRNSYLEAEAAYRAFAAEHGMPPV-VLRVDE-A--------GGEEAGYAACAQLLAQ 175 (269)
T ss_pred HHHHHHHHHcCCCc-EEEEeCCcccccHHHHHHHHHHHHHHcCCCcc-eeEecC-C--------CChHHHHHHHHHHHhC
Confidence 33445566778753 23333222222346688889999999998432 211110 0 1223334556666765
Q ss_pred c-CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEE
Q 025126 137 C-SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAW 179 (257)
Q Consensus 137 ~-~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~y 179 (257)
. +|+.|++.+. ..+..+..|+.+.+ -|+++.+.
T Consensus 176 ~~~~~ai~~~~d----------~~A~gvl~al~~~gl~vP~dvsvi 211 (269)
T cd06287 176 HPDLDALCVPVD----------AFAVGAVRAATELGRAVPDQLRVV 211 (269)
T ss_pred CCCCCEEEEcCc----------HHHHHHHHHHHHcCCCCCCceEEE
Confidence 3 6899998831 23445666665543 24555443
No 54
>PRK11916 electron transfer flavoprotein subunit YdiR; Provisional
Probab=58.29 E-value=1.1e+02 Score=28.21 Aligned_cols=82 Identities=10% Similarity=0.098 Sum_probs=49.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
.+++++-+++. .. =.|.+..+-|.+|.++.+-++ + .+.+..+|+ ++++.++.|. . .
T Consensus 6 ~i~V~~e~~~~-~~---Ell~~A~~l~~~v~~vv~g~~-----------~-~~~l~~~Ga--d~V~~~~~~~-~-----~ 61 (312)
T PRK11916 6 SVWVFSDNPER-YA---ELFGGAQQWGQQVYAIVQNTD-----------Q-AQAVMPYGP--KCIYVLEQND-A-----L 61 (312)
T ss_pred eEEEEEecCCc-HH---HHHHHHHHcCCcEEEEEEChh-----------H-HHHHHhcCC--CEEEEeCCcc-c-----c
Confidence 47788775443 21 222233333556666665311 1 122345798 7888888762 1 1
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
...+...+.+.+++++.+|++|+.+.
T Consensus 62 ~~~e~~~~al~~~i~~~~P~~vL~~~ 87 (312)
T PRK11916 62 QRTENYAESIAALLKDKHPAMLLLAA 87 (312)
T ss_pred cChHHHHHHHHHHHHhcCCCEEEECC
Confidence 12567788899999999999999883
No 55
>TIGR03030 CelA cellulose synthase catalytic subunit (UDP-forming). Cellulose synthase catalyzes the beta-1,4 polymerization of glucose residues in the formation of cellulose. In bacteria, the substrate is UDP-glucose. The synthase consists of two subunits (or domains in the frequent cases where it is encoded as a single polypeptide), the catalytic domain modelled here and the regulatory domain (pfam03170). The regulatory domain binds the allosteric activator cyclic di-GMP. The protein is membrane-associated and probably assembles into multimers such that the individual cellulose strands can self-assemble into multi-strand fibrils.
Probab=57.72 E-value=2.3e+02 Score=29.05 Aligned_cols=58 Identities=16% Similarity=0.324 Sum_probs=35.4
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCC---CcEEEEEEeCCCCCCc----------hHHHHHHHHHHHHHcCC
Q 025126 42 VLLVIAHPDDESMFFSPTINYLTSRR---HNLHILCMSNGNADGM----------GNIRKDELHRACAVLKI 100 (257)
Q Consensus 42 vL~i~aHPDDE~l~~Ggtl~~~~~~G---~~V~vv~lT~G~~~~~----------~~~R~~E~~~A~~~LGv 100 (257)
-++|.+|=.|+.+ ...|+..+.+.. .++.++++.||+.++. ...|+.|+++.|+.+|+
T Consensus 134 sViIP~yNE~~~i-v~~tl~s~~~~dYP~~~~eIiVvDDgStD~t~~~~~~~~~~~~~~~~~~~~l~~~~~v 204 (713)
T TIGR03030 134 DVFIPTYNEDLEI-VATTVLAAKNMDYPADKFRVWILDDGGTDQKRNDPDPEQAEAAQRREELKEFCRKLGV 204 (713)
T ss_pred EEEEcCCCCCHHH-HHHHHHHHHhCCCCccceEEEEEECcCCccccccchhhhhhhhhhHHHHHHHHHHcCc
Confidence 3556666444333 235666665543 3578888889876532 11256788888888887
No 56
>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase
Probab=57.29 E-value=54 Score=31.24 Aligned_cols=19 Identities=26% Similarity=0.181 Sum_probs=15.5
Q ss_pred HHHHHHHhcCCCEEEeeCC
Q 025126 129 IVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 129 ~l~~~i~~~~Pd~V~t~d~ 147 (257)
.+.+.+++.+||+|.++++
T Consensus 135 ~l~~~i~~~kpDiIh~~~~ 153 (465)
T PLN02871 135 RIISEVARFKPDLIHASSP 153 (465)
T ss_pred HHHHHHHhCCCCEEEECCC
Confidence 5677888899999988853
No 57
>cd03814 GT1_like_2 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=57.04 E-value=23 Score=31.02 Aligned_cols=19 Identities=11% Similarity=0.046 Sum_probs=14.8
Q ss_pred HHHHHHHHhcCCCEEEeeC
Q 025126 128 KIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d 146 (257)
..+.+.+++.+||+|+++.
T Consensus 73 ~~~~~~~~~~~pdii~~~~ 91 (364)
T cd03814 73 RRVRRLLDAFAPDVVHIAT 91 (364)
T ss_pred hhHHHHHHhcCCCEEEEec
Confidence 4567777889999998873
No 58
>cd03807 GT1_WbnK_like This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis.
Probab=56.75 E-value=1e+02 Score=26.62 Aligned_cols=66 Identities=12% Similarity=0.057 Sum_probs=38.4
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (257)
..+.+.|.+|.+++.+.+.. -..++ ...|+ .+..++.+.. +..-.....+.+.+++.+||
T Consensus 23 ~~l~~~~~~v~~~~~~~~~~------~~~~~----~~~~i---~v~~~~~~~~-------~~~~~~~~~~~~~~~~~~~d 82 (365)
T cd03807 23 KGLDRDRFEHVVISLTDRGE------LGEEL----EEAGV---PVYCLGKRPG-------RPDPGALLRLYKLIRRLRPD 82 (365)
T ss_pred HHhhhccceEEEEecCcchh------hhHHH----HhcCC---eEEEEecccc-------cccHHHHHHHHHHHHhhCCC
Confidence 33446789998888764421 11111 12566 4566665432 11223445677888889999
Q ss_pred EEEeeC
Q 025126 141 LIITFD 146 (257)
Q Consensus 141 ~V~t~d 146 (257)
+|+.+.
T Consensus 83 iv~~~~ 88 (365)
T cd03807 83 VVHTWM 88 (365)
T ss_pred EEEecc
Confidence 998874
No 59
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=56.32 E-value=1e+02 Score=27.30 Aligned_cols=98 Identities=9% Similarity=0.045 Sum_probs=52.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc--
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-- 137 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-- 137 (257)
..+|.+.|++= +.+++..........|.+-.+++++..|++. .....+ .|+.+...+.+.+++++.
T Consensus 170 ~~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~-~~~~~~----------~~~~~~~~~~~~~ll~~~~~ 237 (327)
T TIGR02417 170 IERLLSQHADE-FWYLGAQPELSVSRDRLAGFRQALKQATLEV-EWVYGG----------NYSRESGYQMFAKLCARLGR 237 (327)
T ss_pred HHHHHHCCCCe-EEEEeCcccchhHHHHHHHHHHHHHHcCCCh-HhEEeC----------CCChHHHHHHHHHHHhcCCC
Confidence 44566778742 3334322212335678888999999888732 111111 123334455667777653
Q ss_pred CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC-CCCccEEE
Q 025126 138 SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT-SERNIEAW 179 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~-~~~~~~~y 179 (257)
+|+.|++.+ | ..+..+..|+.+.+ -|+++.+.
T Consensus 238 ~~~Ai~~~~--------D--~~A~g~~~al~~~g~vP~dvsvi 270 (327)
T TIGR02417 238 LPQALFTTS--------Y--TLLEGVLDYMLERPLLDSQLHLA 270 (327)
T ss_pred CCcEEEEcC--------c--HHHHHHHHHHHHcCCCCCcceEE
Confidence 489999873 1 22344566565444 23455443
No 60
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=56.11 E-value=1.3e+02 Score=25.58 Aligned_cols=105 Identities=10% Similarity=0.050 Sum_probs=57.4
Q ss_pred hHHHHHH-HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025126 56 FSPTINY-LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (257)
Q Consensus 56 ~Ggtl~~-~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (257)
+|..+++ +.+.|++ .+.++...........|.+...++++..|++.+.. ..... .|+.+...+.+.+++
T Consensus 103 ~g~~~~~~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~--------~~~~~~~~~~~~~~l 172 (264)
T cd06274 103 GAAELTRELLAAPPE-EVLFLGGLPELSPSRERLAGFRQALADAGLPVQPD-WIYAE--------GYSPESGYQLMAELL 172 (264)
T ss_pred HHHHHHHHHHHCCCC-cEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcc-eeecC--------CCChHHHHHHHHHHH
Confidence 3554444 3456655 33444322222345678999999999988632111 11111 134455566778888
Q ss_pred Hhc--CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEE
Q 025126 135 VNC--SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWE 180 (257)
Q Consensus 135 ~~~--~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye 180 (257)
++. .|+.|++.+. ..+..+..|+.+.+. ++++.+..
T Consensus 173 ~~~~~~~~ai~~~~d----------~~A~g~~~al~~~g~~ip~dv~v~g 212 (264)
T cd06274 173 ARLGRLPRALFTTSY----------TLLEGVLRFLRERPGLAPSDLRIAT 212 (264)
T ss_pred ccCCCCCcEEEEcCh----------HHHHHHHHHHHHcCCCCCcceEEEE
Confidence 765 4899988731 234446666654432 34555543
No 61
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=54.80 E-value=96 Score=27.68 Aligned_cols=99 Identities=12% Similarity=0.059 Sum_probs=53.6
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
.+.+.|++ .+++++..........|.+-+.++++..|++........ ..|+.++..+.+.+++++. +||
T Consensus 172 ~L~~~G~~-~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ 241 (341)
T PRK10703 172 YLIERGHR-DIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWIVQ---------GDFEPESGYEAMQQILSQKHRPT 241 (341)
T ss_pred HHHHCCCC-cEEEEeCCccccchHHHHHHHHHHHHHcCCCCChHHeEe---------CCCCHHHHHHHHHHHHhCCCCCC
Confidence 44556765 445554222223456788889999988887421111110 0123445566777777654 588
Q ss_pred EEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEE
Q 025126 141 LIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWE 180 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye 180 (257)
.|++.+ . ..+..+..|+.+.+ -++++.+..
T Consensus 242 ai~~~n--d--------~~a~g~~~al~~~g~~ip~dv~vvg 273 (341)
T PRK10703 242 AVFCGG--D--------IMAMGAICAADEMGLRVPQDISVIG 273 (341)
T ss_pred EEEECC--c--------HHHHHHHHHHHHcCCCCCCceEEEE
Confidence 998873 1 12334556565444 244555443
No 62
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=54.69 E-value=8 Score=29.72 Aligned_cols=71 Identities=13% Similarity=0.061 Sum_probs=34.4
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH--H
Q 025126 58 PTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV--V 135 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i--~ 135 (257)
.....+.+.|++|.+++...+.. ..| ....|+ .++.+..+.... .+........+.+++ +
T Consensus 9 ~l~~~L~~~G~~V~v~~~~~~~~-------~~~----~~~~~~---~~~~~~~~~~~~----~~~~~~~~~~~~~~l~~~ 70 (160)
T PF13579_consen 9 ELARALAARGHEVTVVTPQPDPE-------DDE----EEEDGV---RVHRLPLPRRPW----PLRLLRFLRRLRRLLAAR 70 (160)
T ss_dssp HHHHHHHHTT-EEEEEEE---GG-------G-S----EEETTE---EEEEE--S-SSS----GGGHCCHHHHHHHHCHHC
T ss_pred HHHHHHHHCCCEEEEEecCCCCc-------ccc----cccCCc---eEEeccCCccch----hhhhHHHHHHHHHHHhhh
Confidence 34567778999999998654432 101 112344 444555544321 111223456677777 8
Q ss_pred hcCCCEEEeeC
Q 025126 136 NCSIDLIITFD 146 (257)
Q Consensus 136 ~~~Pd~V~t~d 146 (257)
+.+||+|.+++
T Consensus 71 ~~~~Dvv~~~~ 81 (160)
T PF13579_consen 71 RERPDVVHAHS 81 (160)
T ss_dssp T---SEEEEEH
T ss_pred ccCCeEEEecc
Confidence 88999999983
No 63
>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed
Probab=54.43 E-value=1.8e+02 Score=27.01 Aligned_cols=34 Identities=26% Similarity=0.210 Sum_probs=24.3
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHHhCCCcEEE
Q 025126 39 KKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHI 72 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~v 72 (257)
.++.+-+.|----|+..+-+.+..+.+.+.++.+
T Consensus 49 ~~~~iW~Ha~s~Ge~~~~~~l~~~l~~~~~~~~i 82 (425)
T PRK05749 49 KGPLIWFHAVSVGETRAAIPLIRALRKRYPDLPI 82 (425)
T ss_pred CCCeEEEEeCCHHHHHHHHHHHHHHHHhCCCCcE
Confidence 3455556666666999999999999887755443
No 64
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=54.18 E-value=1.4e+02 Score=26.61 Aligned_cols=74 Identities=15% Similarity=0.209 Sum_probs=40.5
Q ss_pred HHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-C
Q 025126 61 NYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-S 138 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~ 138 (257)
..+.+.|++ .+.+++ |... .....|.+-..++++..|++......... + ++.+...+.+.+++++. +
T Consensus 175 ~~L~~~G~~-~I~~i~-g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~-~--------~~~~~~~~~~~~~l~~~~~ 243 (342)
T PRK10014 175 EHLIRNGHQ-RIAWLG-GQSSSLTRAERVGGYCATLLKFGLPFHSEWVLEC-T--------SSQKQAAEAITALLRHNPT 243 (342)
T ss_pred HHHHHCCCC-EEEEEc-CCcccccHHHHHHHHHHHHHHcCCCCCcceEecC-C--------CChHHHHHHHHHHHcCCCC
Confidence 345566765 333443 3222 23456888899999998874322111111 1 12334455667777654 5
Q ss_pred CCEEEee
Q 025126 139 IDLIITF 145 (257)
Q Consensus 139 Pd~V~t~ 145 (257)
|+.|++.
T Consensus 244 ~~ai~~~ 250 (342)
T PRK10014 244 ISAVVCY 250 (342)
T ss_pred CCEEEEC
Confidence 7888877
No 65
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=54.11 E-value=1.3e+02 Score=25.26 Aligned_cols=100 Identities=13% Similarity=0.095 Sum_probs=52.2
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
.+.+.|++ .+.+++..........|.+.+.++++..|+.......... .++.+...+.+.+++++. .|+
T Consensus 114 ~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~l~~~~~~~ 183 (268)
T cd06271 114 RLIALGHR-RIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSG---------DMTEEGGYAAAAELLALPDRPT 183 (268)
T ss_pred HHHHcCCC-cEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeC---------CCChHHHHHHHHHHHhCCCCCC
Confidence 34456654 2333432222234567888999999988874211111111 113344455667777654 489
Q ss_pred EEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEEe
Q 025126 141 LIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWEL 181 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye~ 181 (257)
.|++.+. ..+..+..|+.+.+. ++++.++..
T Consensus 184 ai~~~~d----------~~a~g~~~al~~~g~~vp~~i~iig~ 216 (268)
T cd06271 184 AIVCSSE----------LMALGVLAALAEAGLRPGRDVSVVGF 216 (268)
T ss_pred EEEEcCc----------HHHHHHHHHHHHhCCCCCcceeEEEe
Confidence 9998731 223345555554432 345555543
No 66
>cd03799 GT1_amsK_like This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor.
Probab=54.00 E-value=31 Score=30.38 Aligned_cols=38 Identities=16% Similarity=0.288 Sum_probs=27.1
Q ss_pred EEEEec-CchhhhcchHHHHHHHHhCCCcEEEEEEeCCC
Q 025126 42 VLLVIA-HPDDESMFFSPTINYLTSRRHNLHILCMSNGN 79 (257)
Q Consensus 42 vL~i~a-HPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~ 79 (257)
||+++. +|.-.+...-..+..+.++|++|.+++...+.
T Consensus 2 i~~~~~~~~~~~~~~~~~~~~~L~~~g~~v~v~~~~~~~ 40 (355)
T cd03799 2 IAYLVKEFPRLSETFILREILALEAAGHEVEIFSLRPPE 40 (355)
T ss_pred EEEECCCCCCcchHHHHHHHHHHHhCCCeEEEEEecCcc
Confidence 455544 44434455778888899999999999987654
No 67
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=53.36 E-value=1.5e+02 Score=25.49 Aligned_cols=89 Identities=13% Similarity=0.060 Sum_probs=50.8
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEeeCCC
Q 025126 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITFDNY 148 (257)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~d~~ 148 (257)
-.+++++..........|.+...++++..|++ +. .... ..|+.+...+.+.+++++. +|+.|++.|
T Consensus 126 ~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~---~~--~~~~------~~~~~~~~~~~~~~~l~~~~~~~~i~~~d-- 192 (268)
T cd06306 126 AKVAWFPGPKGAGWVKAVEKGFRDALAGSAIE---IS--AIKY------GDTGKEVQRKLVEEALEAHPDIDYIVGSA-- 192 (268)
T ss_pred ceEEEEeCCCCCchHHHHHHHHHHHHhhcCcE---Ee--eecc------CCccHHHHHHHHHHHHHhCCCcCEEeecc--
Confidence 35555553222334677888899999888872 21 1111 1234455566777777664 478877542
Q ss_pred CCCCCchHHHHHHHHHHHHHccCCCCccEEEE
Q 025126 149 GVSGHCNHRDVHHGICRSYLNGTSERNIEAWE 180 (257)
Q Consensus 149 g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye 180 (257)
..+.++.+|+.+.+.++++.+..
T Consensus 193 ---------~~a~~~~~~l~~~g~p~di~vig 215 (268)
T cd06306 193 ---------VAAEAAVGILRQRGLTDQIKIVS 215 (268)
T ss_pred ---------hhhhHHHHHHHhcCCCCCeEEEe
Confidence 22345666665555556666554
No 68
>cd03823 GT1_ExpE7_like This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II).
Probab=53.25 E-value=22 Score=30.98 Aligned_cols=22 Identities=5% Similarity=0.027 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhcCCCEEEeeC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
.....+.+++++.+||+|+++.
T Consensus 83 ~~~~~~~~~~~~~~~dii~~~~ 104 (359)
T cd03823 83 AVVAEFARLLEDFRPDVVHFHH 104 (359)
T ss_pred HHHHHHHHHHHHcCCCEEEECC
Confidence 4567788899999999999884
No 69
>PRK03363 fixB putative electron transfer flavoprotein FixB; Provisional
Probab=53.21 E-value=1.1e+02 Score=28.09 Aligned_cols=81 Identities=10% Similarity=0.061 Sum_probs=49.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
.+++++-|.+. .. -++.+..+-|.++.++.+.. +..+.+...|+ ++++.++.+.. .
T Consensus 6 ~v~V~aE~~~~-~~---Ell~~a~~l~~~v~av~~g~------------~~~~~~~~~Ga--d~V~~~~~~~~-----~- 61 (313)
T PRK03363 6 QVWVFSDTPSR-LP---ELMNGAQALANQINAFVLND------------ADGAQAIQLGA--NHVWKLSGKPD-----D- 61 (313)
T ss_pred eEEEEEEeCCc-HH---HHHHHHHHhcCceEEEEECc------------chHHHHHhcCC--CEEEEecCccc-----c-
Confidence 47888886553 22 33333333355666555431 11122345798 78888887532 1
Q ss_pred CChHHHHHHHHHHHHhcCC-CEEEee
Q 025126 121 WNHKSLAKIVEEEVVNCSI-DLIITF 145 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~P-d~V~t~ 145 (257)
...+...+.|.+++.+.+| ++|+.+
T Consensus 62 ~~~e~~~~al~~~i~~~~p~~~vl~~ 87 (313)
T PRK03363 62 RMIEDYAGVMADTIRQHGADGLVLLP 87 (313)
T ss_pred cChHHHHHHHHHHHHhhCCCcEEEEc
Confidence 3456778889999999999 688877
No 70
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=53.20 E-value=1.4e+02 Score=25.20 Aligned_cols=100 Identities=18% Similarity=0.183 Sum_probs=50.4
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (257)
.++.+.|++ .+++++..........|.+-..++++..|++.... ..... .|+.+...+.+.+++++. |+
T Consensus 109 ~~l~~~g~~-~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~--------~~~~~~~~~~~~~~l~~~-~~ 177 (265)
T cd06299 109 SLLVALGHK-KIGYISGPQDTSTGRERLEAFRQACASLGLEVNED-LVVLG--------GYSQESGYAGATKLLDQG-AT 177 (265)
T ss_pred HHHHHcCCC-cEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCChH-hEEec--------CcchHHHHHHHHHHHcCC-CC
Confidence 344556643 23333322222345677788888888888532111 11110 123334445566666654 99
Q ss_pred EEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEEe
Q 025126 141 LIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWEL 181 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye~ 181 (257)
.|++.+. ..+.++..|+.+.+. ++++.++..
T Consensus 178 av~~~~d----------~~a~gv~~al~~~g~~vp~dv~v~g~ 210 (265)
T cd06299 178 AIIAGDS----------MMTIGAIRAIHDAGLVIGEDISLIGF 210 (265)
T ss_pred EEEEcCc----------HHHHHHHHHHHHhCCCCCcceeEEEe
Confidence 9998842 134455565554432 345655543
No 71
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=52.87 E-value=90 Score=26.89 Aligned_cols=78 Identities=12% Similarity=0.090 Sum_probs=42.5
Q ss_pred HHHHHhCCCcEEEEEEeCCCC-CC--chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 60 INYLTSRRHNLHILCMSNGNA-DG--MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~-~~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
+..+.++|.+|+.+..+.+.. +. ......+.+++.|+.+|+| +...+.+.. ... ..+.+...+.++.++
T Consensus 14 l~~a~~~G~~v~~l~~~~~~~~~~~~~~~~~~~~~~~~A~~lgip---~~~i~~~~~----~~~-~~~~l~~~l~~~~~~ 85 (218)
T TIGR03679 14 LYKALEEGHEVRCLITVVPENEESYMFHTPNIELTRLQAEALGIP---LVKIETSGE----KEK-EVEDLKGALKELKRE 85 (218)
T ss_pred HHHHHHcCCEEEEEEEeccCCCCccccCCCCHHHHHHHHHHhCCC---EEEEECCCC----ChH-HHHHHHHHHHHHHHc
Confidence 445557899986554444432 11 1122334566778999994 345554321 111 223455666666555
Q ss_pred cCCCEEEeeC
Q 025126 137 CSIDLIITFD 146 (257)
Q Consensus 137 ~~Pd~V~t~d 146 (257)
..+.|++=+
T Consensus 86 -g~~~vv~G~ 94 (218)
T TIGR03679 86 -GVEGIVTGA 94 (218)
T ss_pred -CCCEEEECC
Confidence 788877654
No 72
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=52.42 E-value=35 Score=26.51 Aligned_cols=21 Identities=5% Similarity=0.050 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHhcCCCEEEee
Q 025126 125 SLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
.....+.+.+++.+||+|.++
T Consensus 67 ~~~~~~~~~i~~~~~DiVh~~ 87 (177)
T PF13439_consen 67 FFMRRLRRLIKKEKPDIVHIH 87 (177)
T ss_dssp HHHHHHHHHHHHHT-SEEECC
T ss_pred HHHHHHHHHHHHcCCCeEEec
Confidence 345678889999999999665
No 73
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=52.25 E-value=1.8e+02 Score=29.82 Aligned_cols=22 Identities=0% Similarity=0.018 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhcCCCEEEeeC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
.....|.+++++.+||+|.+|.
T Consensus 387 ~~~~~L~~~lk~~kpDIVH~h~ 408 (694)
T PRK15179 387 EGTTKLTDVMRSSVPSVVHIWQ 408 (694)
T ss_pred HHHHHHHHHHHHcCCcEEEEeC
Confidence 3457889999999999999985
No 74
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=52.04 E-value=1.5e+02 Score=26.06 Aligned_cols=101 Identities=9% Similarity=0.105 Sum_probs=53.9
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
..+.+.|++= +.+++..........|.+...++++..|++........ . .|+.+...+.+.+++++. +|
T Consensus 167 ~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~~-~--------~~~~~~~~~~~~~~l~~~~~~ 236 (327)
T PRK10423 167 QYLIDKGYTR-IACITGPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVT-G--------DFEFNGGFDAMQQLLALPLRP 236 (327)
T ss_pred HHHHHcCCCe-EEEEeCCccccchHHHHHHHHHHHHHcCCCCCcceEEe-C--------CCChHHHHHHHHHHhcCCCCC
Confidence 3455678753 34443322223456788899999999887422111111 1 123334445666777543 58
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEEe
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye~ 181 (257)
+.|++.+ |- .+..+..|+.+.+ -|+++.+...
T Consensus 237 ~ai~~~~--------d~--~A~g~~~~l~~~g~~vP~dvsvigf 270 (327)
T PRK10423 237 QAVFTGN--------DA--MAVGVYQALYQAGLSVPQDIAVIGY 270 (327)
T ss_pred CEEEEcC--------cH--HHHHHHHHHHHcCCCCCCceEEEEe
Confidence 9888873 12 2334556565443 2456655543
No 75
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=51.89 E-value=1.1e+02 Score=26.01 Aligned_cols=42 Identities=17% Similarity=0.188 Sum_probs=30.3
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHH
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRS 166 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A 166 (257)
+.+++.+.|.+.+++.+.|+|+|. |+.+-.+.-.+.+++...
T Consensus 50 d~~~I~~aL~~a~~~~~~DlIITT---GGtg~g~rDvTpeAv~~l 91 (193)
T PRK09417 50 EQDLIEQTLIELVDEMGCDLVLTT---GGTGPARRDVTPEATLAV 91 (193)
T ss_pred CHHHHHHHHHHHhhcCCCCEEEEC---CCCCCCCCCcHHHHHHHH
Confidence 346777888888776678999998 555666666677777764
No 76
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=51.72 E-value=1.3e+02 Score=26.89 Aligned_cols=100 Identities=9% Similarity=0.027 Sum_probs=53.5
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~P 139 (257)
..+.+.|++- +.++...........|.+-.+++++..|++.....+.. . .++.+...+.+.+++++ .+|
T Consensus 169 ~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~-~--------~~~~~~~~~~~~~~l~~~~~~ 238 (346)
T PRK10401 169 RMLLNNGHQR-IGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGT-G--------TPDMQGGEAAMVELLGRNLQL 238 (346)
T ss_pred HHHHHCCCCe-EEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheec-C--------CCChHHHHHHHHHHHcCCCCC
Confidence 3456778753 33343222223456788899999999998432211111 0 11223334556666654 368
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEE
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWE 180 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye 180 (257)
+.|++.+ |. .+..+..|+.+.+ -|+++.+..
T Consensus 239 ~ai~~~n--------d~--~A~g~~~al~~~G~~vP~disvig 271 (346)
T PRK10401 239 TAVFAYN--------DN--MAAGALTALKDNGIAIPLHLSIIG 271 (346)
T ss_pred cEEEECC--------cH--HHHHHHHHHHHcCCCCCCceEEEE
Confidence 9999873 22 3334556565443 245555543
No 77
>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. All of PBGS_aspartate_rich contain an aspartate rich metal binding site with the general sequence DXALDX(Y/F)X3G(H/Q)DG. They also contain an allosteric magnesiu
Probab=51.50 E-value=1.2e+02 Score=28.05 Aligned_cols=75 Identities=13% Similarity=0.100 Sum_probs=46.6
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccC--CCCCCCc-cccCChHHHHHHHHHHHH
Q 025126 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDL--VDFQDGF-DKLWNHKSLAKIVEEEVV 135 (257)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~--~d~~dg~-~~~~~~~~l~~~l~~~i~ 135 (257)
|+-++++.|... ..+-.+-.|..+-+..+|+ ..+...+. ++.+|.. .+.|+.+.++.+-.+.|+
T Consensus 27 I~PlFv~e~~~~~~~I~smPg~~r~s~d~l~~~v~~~~~~Gi--~~v~lFgv~~~~~KD~~gs~A~~~~g~v~~air~iK 104 (320)
T cd04823 27 ILPLFVHEGENQREPIPSMPGVFRLSIDELLKEAEEAVDLGI--PAVALFPVTPPELKSEDGSEAYNPDNLVCRAIRAIK 104 (320)
T ss_pred eeeEEEecCCCCccccCCCCCceeeCHHHHHHHHHHHHHcCC--CEEEEecCCCcccCCcccccccCCCChHHHHHHHHH
Confidence 667788887432 1244555566666777999 56777776 2234422 234566666666666666
Q ss_pred hcCCCEEEeeC
Q 025126 136 NCSIDLIITFD 146 (257)
Q Consensus 136 ~~~Pd~V~t~d 146 (257)
+.-||+++..|
T Consensus 105 ~~~p~l~vi~D 115 (320)
T cd04823 105 EAFPELGIITD 115 (320)
T ss_pred HhCCCcEEEEe
Confidence 66699977655
No 78
>cd04824 eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. The eukaryotic PBGSs represented by this model, which contain a cysteine-rich zinc binding motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their activity, they
Probab=51.35 E-value=1.3e+02 Score=27.77 Aligned_cols=87 Identities=14% Similarity=0.118 Sum_probs=55.7
Q ss_pred HHHHHHHhCC-----CcEEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC--CCCc--
Q 025126 58 PTINYLTSRR-----HNLHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF--QDGF-- 117 (257)
Q Consensus 58 gtl~~~~~~G-----~~V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~--~dg~-- 117 (257)
+.+..+.++- .=|+=++++.|... ..+-.+-.|..+-+..+|+ ..+...+.|+. +|..
T Consensus 7 ~~~R~lv~Et~L~~~dlI~PlFV~eg~~~~~~I~smPG~~r~s~d~l~~~~~~~~~~Gi--~~v~LFgv~~~~~Kd~~~g 84 (320)
T cd04824 7 PLLRQWQSERTLTKSNLIYPIFITDNPDAKQPIDSLPGINRYGVNRLEEFLRPLVAKGL--RSVILFGVPLKPGKDDRSG 84 (320)
T ss_pred HHHHHHHhcCCCCHHHceeeEEEecCCCCccccCCCCCceeeCHHHHHHHHHHHHHCCC--CEEEEeCCCccccCCcCcc
Confidence 4555665432 22667788888642 1344455666666777999 57888888743 4422
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 118 DKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
.+.|+.+-++.+-.+.|++.-||+++..|
T Consensus 85 s~a~~~~g~v~~air~iK~~~pdl~vi~D 113 (320)
T cd04824 85 SAADDEDGPVIQAIKLIREEFPELLIACD 113 (320)
T ss_pred ccccCCCChHHHHHHHHHHhCCCcEEEEe
Confidence 23477777777777777777799877655
No 79
>PRK06988 putative formyltransferase; Provisional
Probab=50.66 E-value=85 Score=28.67 Aligned_cols=83 Identities=18% Similarity=0.213 Sum_probs=49.2
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (257)
+|+++++... +.-.+|..|.++|.+|..| +|.-+... +........+.|..+|++ ++. ..+.
T Consensus 3 mkIvf~Gs~~-----~a~~~L~~L~~~~~~i~~V-vt~~d~~~-~~~~~~~v~~~A~~~gip---~~~--~~~~------ 64 (312)
T PRK06988 3 PRAVVFAYHN-----VGVRCLQVLLARGVDVALV-VTHEDNPT-ENIWFGSVAAVAAEHGIP---VIT--PADP------ 64 (312)
T ss_pred cEEEEEeCcH-----HHHHHHHHHHhCCCCEEEE-EcCCCCCc-cCcCCCHHHHHHHHcCCc---EEc--cccC------
Confidence 4677776542 3556888888899887765 66543321 112223456778888993 321 1111
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
..+ .+.+.+++.+||++++..
T Consensus 65 --~~~----~~~~~l~~~~~Dliv~~~ 85 (312)
T PRK06988 65 --NDP----ELRAAVAAAAPDFIFSFY 85 (312)
T ss_pred --CCH----HHHHHHHhcCCCEEEEeh
Confidence 112 235567888999988774
No 80
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=50.63 E-value=1.9e+02 Score=25.91 Aligned_cols=99 Identities=11% Similarity=0.065 Sum_probs=53.1
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCc-EEEccCCCCCCCccccCChHHHHHHHHHHHHhc-C
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQ-VKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-S 138 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~-~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~ 138 (257)
..+.+.|++= +.+++..........|.+-..++++..|++... +...+ .|+.+...+.+.+++++. +
T Consensus 169 ~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~----------~~~~~~~~~~~~~~l~~~~~ 237 (343)
T PRK10727 169 RHLIQQGHTR-IGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFG----------EPDESGGEQAMTELLGRGRN 237 (343)
T ss_pred HHHHHCCCcc-EEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEEeC----------CCChhHHHHHHHHHHhCCCC
Confidence 3566778652 333332222234567888999999999984321 11111 122333345566777654 4
Q ss_pred CCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEE
Q 025126 139 IDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWE 180 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye 180 (257)
|+.|++.+ | ..+..+..|+.+.+. |+++.+.-
T Consensus 238 ~~ai~~~n--------D--~~A~g~~~al~~~G~~vP~disVig 271 (343)
T PRK10727 238 FTAVACYN--------D--SMAAGAMGVLNDNGIDVPGEISLIG 271 (343)
T ss_pred CCEEEEcC--------c--HHHHHHHHHHHHcCCCCCcceeEEe
Confidence 88888873 1 233445666655442 45555543
No 81
>cd03786 GT1_UDP-GlcNAc_2-Epimerase Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues (UDP-ManNAc) for use in the biosynthesis of a variety of cell surface polysaccharides; The mammalian enzyme is bifunctional, catalyzing both the inversion of stereochemistry at C-2 and the hydrolysis of the UDP-sugar linkage to generate free ManNAc. It also catalyzes the phosphorylation of ManNAc to generate ManNAc 6-phosphate, a precursor to salic acids. In mammals, sialic acids are found at the termini of oligosaccharides in a large variety of cell surface glycoconjugates and are key mediators of cell-cell recognition events. Mutations in human members of this family have been associated with Sialuria, a rare disease caused by the disorders of sialic acid metabolism. This family belongs to the GT-B st
Probab=49.64 E-value=1.7e+02 Score=26.30 Aligned_cols=90 Identities=19% Similarity=0.181 Sum_probs=48.5
Q ss_pred EEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCC--CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025126 42 VLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNAD--GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (257)
Q Consensus 42 vL~i~aHPDDE~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~--~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (257)
.++.+.=||..- +.|.+..+.+. |.++.+++ | |... ..+..-..+. +... ..+ .+.... ++..
T Consensus 3 ~~~~gtr~~~~~--~~pl~~~l~~~~~~~~~~~~-t-g~h~~~~~~~~~~~~~------~~~~-~~~-~l~~~~--~~~~ 68 (363)
T cd03786 3 LVVTGTRPEYIK--LAPLIRALKKDPGFELVLVV-T-GQHYDMEMGVTFFEIL------FIIK-PDY-DLLLGS--DSQS 68 (363)
T ss_pred EEEEecCHHHHH--HHHHHHHHhcCCCCCEEEEE-e-CCCCChhhhHHHHHhh------CCCC-CCE-EEecCC--CCCC
Confidence 355667777766 68999999986 67765544 3 4321 1222222221 2221 122 333221 1111
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
..-..-.+...+.+.+++.+||+|+++
T Consensus 69 ~~~~~~~~~~~l~~~l~~~~pDvV~~~ 95 (363)
T cd03786 69 LGAQTAGLLIGLEAVLLEEKPDLVLVL 95 (363)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCEEEEe
Confidence 000112445677888888999999998
No 82
>PRK04930 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional
Probab=49.44 E-value=46 Score=28.16 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=26.7
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeC
Q 025126 39 KKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSN 77 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~ 77 (257)
.+++|+|.+||+=+.=-..-.+....+++.+|.+.-+..
T Consensus 5 ~~kiLiI~aHP~~~~S~~n~~l~~~~~~~~~v~~~DL~~ 43 (184)
T PRK04930 5 PPKVLLLYAHPESQDSVANRVLLKPAQQLEHVTVHDLYA 43 (184)
T ss_pred CCEEEEEECCCCcccCHHHHHHHHHHHcCCceEEEECcc
Confidence 478999999998652224555666667777777666543
No 83
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=48.79 E-value=73 Score=26.17 Aligned_cols=61 Identities=10% Similarity=0.064 Sum_probs=37.0
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
-+.+.++.+|+ ++.... .|| +.+.+.+.+.+.+...+.|+|+|. |+.+..+.-.+.+++.+
T Consensus 26 ~l~~~L~~~G~---~v~~~~iv~D---------d~~~i~~~l~~~~~~~~~DlVItt---GGtg~g~~D~t~eal~~ 87 (163)
T TIGR02667 26 YLVERLTEAGH---RLADRAIVKD---------DIYQIRAQVSAWIADPDVQVILIT---GGTGFTGRDVTPEALEP 87 (163)
T ss_pred HHHHHHHHCCC---eEEEEEEcCC---------CHHHHHHHHHHHHhcCCCCEEEEC---CCcCCCCCCCcHHHHHH
Confidence 34455777888 233332 233 346777788887765579999998 44455555555555555
No 84
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=48.45 E-value=1.4e+02 Score=25.12 Aligned_cols=86 Identities=14% Similarity=0.072 Sum_probs=45.3
Q ss_pred CchhhhcchHHHHHHH-HhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHH
Q 025126 48 HPDDESMFFSPTINYL-TSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKS 125 (257)
Q Consensus 48 HPDDE~l~~Ggtl~~~-~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~ 125 (257)
.+|+.. +|-.+.++ .+.|++ .+.+++.... ......|.+..+++++..|++........ . .|+.+.
T Consensus 97 ~~d~~~--~~~~~~~~l~~~g~~-~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~-~--------~~~~~~ 164 (268)
T cd06298 97 NIDYKK--AAFEATELLIKNGHK-KIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIFE-G--------DYTYES 164 (268)
T ss_pred EECcHH--HHHHHHHHHHHcCCc-eEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCHHHeEe-C--------CCChhH
Confidence 345554 34444443 445653 3444443222 23457788999999998887321111111 1 123334
Q ss_pred HHHHHHHHHHhcCCCEEEee
Q 025126 126 LAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~ 145 (257)
..+.+.+++++..|+.|++.
T Consensus 165 ~~~~~~~~l~~~~~~ai~~~ 184 (268)
T cd06298 165 GYELAEELLEDGKPTAAFVT 184 (268)
T ss_pred HHHHHHHHhcCCCCCEEEEc
Confidence 44556666665448999887
No 85
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=48.43 E-value=1.2e+02 Score=23.77 Aligned_cols=59 Identities=19% Similarity=0.193 Sum_probs=36.2
Q ss_pred HHHHHHHHcCCCCCcEEEccC-CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLDL-VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
-+.+.++..|. ++..... +| +.+++.+.+.+.+++ .|+|+|. |+.+..++-.+.+++.+
T Consensus 23 ~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~i~~~~~~--~Dlvitt---GG~g~g~~D~t~~ai~~ 82 (133)
T cd00758 23 ALEALLEDLGC---EVIYAGVVPD---------DADSIRAALIEASRE--ADLVLTT---GGTGVGRRDVTPEALAE 82 (133)
T ss_pred HHHHHHHHCCC---EEEEeeecCC---------CHHHHHHHHHHHHhc--CCEEEEC---CCCCCCCCcchHHHHHH
Confidence 34555777887 3333322 22 346777788888765 8999998 44455555555666665
No 86
>cd02008 TPP_IOR_alpha Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the transamination of aromatic amino acids, to the corresponding aryl acetyl-CoA.
Probab=48.39 E-value=73 Score=26.23 Aligned_cols=93 Identities=15% Similarity=0.224 Sum_probs=49.0
Q ss_pred CCcEEEEecCchhhhcch-H-HHHHHHHhCCCcEEEEEEeCCCCCCchHH-------------HHHHHHHHHHHcCCCCC
Q 025126 39 KKNVLLVIAHPDDESMFF-S-PTINYLTSRRHNLHILCMSNGNADGMGNI-------------RKDELHRACAVLKIPLE 103 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l~~-G-gtl~~~~~~G~~V~vv~lT~G~~~~~~~~-------------R~~E~~~A~~~LGv~~~ 103 (257)
.++++.|. .|-.+.+ | ..|...++.+.++.++++.|+..+..+.. ......+.++.+|++
T Consensus 69 ~~~Vv~i~---GDG~f~~~g~~eL~ta~~~~l~i~vvV~nN~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~-- 143 (178)
T cd02008 69 DKKVVAVI---GDSTFFHSGILGLINAVYNKANITVVILDNRTTAMTGGQPHPGTGKTLTEPTTVIDIEALVRAIGVK-- 143 (178)
T ss_pred CCCEEEEe---cChHHhhccHHHHHHHHHcCCCEEEEEECCcceeccCCCCCCCCcccccCCCCccCHHHHHHHCCCC--
Confidence 45666663 4555544 2 55666777888888888888754311100 012244445555551
Q ss_pred cEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 104 QVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 104 ~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
......+ .+.+++.+.+.+.++.-+|.+|....
T Consensus 144 -~~~v~~~---------~~l~~~~~al~~a~~~~gp~lI~v~~ 176 (178)
T cd02008 144 -RVVVVDP---------YDLKAIREELKEALAVPGVSVIIAKR 176 (178)
T ss_pred -EEEecCc---------cCHHHHHHHHHHHHhCCCCEEEEEeC
Confidence 1111111 02334456667766666788777653
No 87
>TIGR00236 wecB UDP-N-acetylglucosamine 2-epimerase. Epimerase activity was also demonstrated in a bifunctional rat enzyme, for which the N-terminal domain appears to be orthologous. The set of proteins found above the suggested cutoff includes E. coli WecB in one of two deeply branched clusters and the rat UDP-N-acetylglucosamine 2-epimerase domain in the other.
Probab=48.32 E-value=94 Score=28.29 Aligned_cols=88 Identities=11% Similarity=0.244 Sum_probs=49.4
Q ss_pred EEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccC
Q 025126 43 LLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLW 121 (257)
Q Consensus 43 L~i~aHPDDE~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~ 121 (257)
++++.-|| ...+.+.+..+.+. +.++. +++|.... .......+.+|++.+ + .+.......+..+
T Consensus 5 ~~~gtr~~--~~~~~p~~~~l~~~~~~~~~-~~~tg~h~--------~~~~~~~~~~~i~~~-~-~~~~~~~~~~~~~-- 69 (365)
T TIGR00236 5 IVLGTRPE--AIKMAPLIRALKKYPEIDSY-VIVTAQHR--------EMLDQVLDLFHLPPD-Y-DLNIMSPGQTLGE-- 69 (365)
T ss_pred EEEecCHH--HHHHHHHHHHHhhCCCCCEE-EEEeCCCH--------HHHHHHHHhcCCCCC-e-eeecCCCCCCHHH--
Confidence 44555554 34578999999875 44544 44443321 223344445898532 2 2222111111111
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEee
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
........+.+++++.+||+|+++
T Consensus 70 ~~~~~~~~l~~~l~~~~pDiv~~~ 93 (365)
T TIGR00236 70 ITSNMLEGLEELLLEEKPDIVLVQ 93 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEe
Confidence 223455788999999999999998
No 88
>COG1817 Uncharacterized protein conserved in archaea [Function unknown]
Probab=48.32 E-value=98 Score=28.79 Aligned_cols=85 Identities=19% Similarity=0.234 Sum_probs=55.3
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
||++=..||=-.-+| -++|..+.++|++|.+.|--.| +..+-++.+|++ ....+- .|....
T Consensus 2 kVwiDI~n~~hvhfF-k~lI~elekkG~ev~iT~rd~~-----------~v~~LLd~ygf~---~~~Igk----~g~~tl 62 (346)
T COG1817 2 KVWIDIGNPPHVHFF-KNLIWELEKKGHEVLITCRDFG-----------VVTELLDLYGFP---YKSIGK----HGGVTL 62 (346)
T ss_pred eEEEEcCCcchhhHH-HHHHHHHHhCCeEEEEEEeecC-----------cHHHHHHHhCCC---eEeecc----cCCccH
Confidence 566666777666654 4799999999999887775444 345678889993 344442 121111
Q ss_pred C----ChHHHHHHHHHHHHhcCCCEEEe
Q 025126 121 W----NHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 121 ~----~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
. .--+-...|.+++.+++||+.+-
T Consensus 63 ~~Kl~~~~eR~~~L~ki~~~~kpdv~i~ 90 (346)
T COG1817 63 KEKLLESAERVYKLSKIIAEFKPDVAIG 90 (346)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCceEee
Confidence 0 11133456889999999999775
No 89
>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.
Probab=47.86 E-value=55 Score=30.71 Aligned_cols=51 Identities=18% Similarity=0.194 Sum_probs=33.4
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCch------HHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025126 59 TINYLTSRRHNLHILCMSNGNADGMG------NIRKDELHRACAVLKIPLEQVKVLDLVD 112 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~~~~~------~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (257)
+...|.++|++|.-+++-..+..... +.-...++++|+.||+ .++.+|+.+
T Consensus 16 aA~LLk~~G~~V~Gv~m~~~~~~~~~~~~c~~~~d~~~a~~va~~LgI---p~~v~d~~~ 72 (356)
T PF03054_consen 16 AAALLKEQGYDVIGVTMRNWDEEDESGKSCCSEEDIEDARRVAEKLGI---PHYVVDLRE 72 (356)
T ss_dssp HHHHHHHCT-EEEEEEEE-SS-SSSHH-HHHHHHHHHHHHHHHHHHT-----EEEEETHH
T ss_pred HHHHHHhhcccceEEEEEEeccccccCCCCCchhhHHHHHHHHHhcCC---CEEEEChHH
Confidence 34566789999999999888764321 2345667888999999 467787643
No 90
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=47.82 E-value=52 Score=30.27 Aligned_cols=84 Identities=18% Similarity=0.273 Sum_probs=50.4
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC--CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD--GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~--~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (257)
.|++|++.| | |.-..|..+.++|++|. .++|..+.. +-.+.-.......|..+|++ ++.-.+.
T Consensus 2 mkivF~GTp-~----fa~~~L~~L~~~~~eiv-aV~Tqpdkp~gR~~~l~~spVk~~A~~~~ip-----v~qP~~l---- 66 (307)
T COG0223 2 MRIVFFGTP-E----FAVPSLEALIEAGHEIV-AVVTQPDKPAGRGKKLTPSPVKRLALELGIP-----VFQPEKL---- 66 (307)
T ss_pred cEEEEEcCc-h----hhHHHHHHHHhCCCceE-EEEeCCCCccCCCCcCCCChHHHHHHHcCCc-----eeccccC----
Confidence 467777665 2 45578999999997764 455766542 22222333445677778883 2221111
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 118 DKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
..+ .+.+.+++.+||++++..
T Consensus 67 ----~~~----e~~~~l~~l~~D~ivvva 87 (307)
T COG0223 67 ----NDP----EFLEELAALDPDLIVVVA 87 (307)
T ss_pred ----CcH----HHHHHHhccCCCEEEEEe
Confidence 112 346667777999999885
No 91
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=47.28 E-value=92 Score=29.43 Aligned_cols=68 Identities=16% Similarity=0.080 Sum_probs=39.1
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 65 SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
+.|.+.. +++|++.....+. .++..++++.-|+ .+...+.. . ..+..+.++...+..++.++|.|+.
T Consensus 46 ~~g~~~~-lvv~~~~~~~~g~--~~~v~~~L~~~gi---~~~~~~~v--~-----~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 46 TRGLKHL-FVMADSFLHQAGM--TAGLTRSLAVKGI---AMTLWPCP--V-----GEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred hcCCCEE-EEEcCcchhhCcc--HHHHHHHHHHcCC---eEEEECCC--C-----CCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 4476543 3445543222221 1335666666777 33333311 1 1134566788899999999999999
Q ss_pred e
Q 025126 145 F 145 (257)
Q Consensus 145 ~ 145 (257)
-
T Consensus 113 v 113 (395)
T PRK15454 113 F 113 (395)
T ss_pred e
Confidence 8
No 92
>COG1015 DeoB Phosphopentomutase [Carbohydrate transport and metabolism]
Probab=47.00 E-value=79 Score=29.94 Aligned_cols=99 Identities=19% Similarity=0.242 Sum_probs=53.4
Q ss_pred HHHHHHhCCCcEEEEEEe----CCCC--CCc-hHHHHHHHHHHHHHcCCCC-CcEEEccCCCCCCCccc----cC---Ch
Q 025126 59 TINYLTSRRHNLHILCMS----NGNA--DGM-GNIRKDELHRACAVLKIPL-EQVKVLDLVDFQDGFDK----LW---NH 123 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT----~G~~--~~~-~~~R~~E~~~A~~~LGv~~-~~~~~l~~~d~~dg~~~----~~---~~ 123 (257)
.+.+|.++|.+|+.|==. +|.+ ... ..--.+-+....+.+.-.. ..+.|.++-|+-..++. .| ..
T Consensus 229 vl~~L~e~g~~vi~IGKI~DI~~~~Git~~~~~~~n~~~~d~tl~~~~~~~~~~~vFtNlVdfD~~yGHRrDv~gYa~aL 308 (397)
T COG1015 229 VLDKLKEAGRPVIAIGKIADIYAGQGITEKVKAVSNMDGMDVTLEEMKTAEFNGLVFTNLVDFDSLYGHRRDVAGYAAAL 308 (397)
T ss_pred HHHHHHHcCCceEEEeeHHhhhccccccccccCCCcHHHHHHHHHHHhcCCCCcEEEEeeeecccccccccchHHHHHHH
Confidence 477889999887665211 1211 001 0111122333444444221 34778887665211110 01 12
Q ss_pred HHHHHHHHHHHHhcCCC--EEEeeCCCCCC---CCchHHH
Q 025126 124 KSLAKIVEEEVVNCSID--LIITFDNYGVS---GHCNHRD 158 (257)
Q Consensus 124 ~~l~~~l~~~i~~~~Pd--~V~t~d~~g~d---~H~DH~~ 158 (257)
++.-++|.++++..++| +|+|-| ||.| .|.||..
T Consensus 309 e~FD~rL~e~~~~l~edDlLiiTAD-HGnDPT~~gTdHTR 347 (397)
T COG1015 309 EEFDRRLPELIENLREDDLLIITAD-HGNDPTWGGTDHTR 347 (397)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEecC-CCCCCCCCCCCccc
Confidence 45567899999999987 577776 7765 6888843
No 93
>PHA03392 egt ecdysteroid UDP-glucosyltransferase; Provisional
Probab=46.94 E-value=41 Score=32.94 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=28.9
Q ss_pred cEEEEecCch-hhhcchHHHHHHHHhCCCcEEEEEE
Q 025126 41 NVLLVIAHPD-DESMFFSPTINYLTSRRHNLHILCM 75 (257)
Q Consensus 41 ~vL~i~aHPD-DE~l~~Ggtl~~~~~~G~~V~vv~l 75 (257)
+||++.|+|. --.+++......|+++|++|+++.-
T Consensus 22 kIl~~~P~~~~SH~~~~~~l~~~La~rGH~VTvi~p 57 (507)
T PHA03392 22 RILAVFPTPAYSHHSVFKVYVEALAERGHNVTVIKP 57 (507)
T ss_pred cEEEEcCCCCCcHHHHHHHHHHHHHHcCCeEEEEec
Confidence 5999988653 3567889999999999999999854
No 94
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=46.45 E-value=1.5e+02 Score=25.76 Aligned_cols=75 Identities=13% Similarity=0.142 Sum_probs=42.4
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
++.++|++ .+.+++..........|.+.++++++..|++........ ..++.+...+.+.+++++. .|+
T Consensus 146 ~l~~~G~~-~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ 215 (309)
T PRK11041 146 YLHELGHK-RIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIAR---------GDFTFEAGAKALKQLLDLPQPPT 215 (309)
T ss_pred HHHHcCCc-eEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEe---------CCCCHHHHHHHHHHHHcCCCCCC
Confidence 45567865 344444222223356788899999998887321111111 0123445556667777654 489
Q ss_pred EEEeeC
Q 025126 141 LIITFD 146 (257)
Q Consensus 141 ~V~t~d 146 (257)
.|++.+
T Consensus 216 ai~~~~ 221 (309)
T PRK11041 216 AVFCHS 221 (309)
T ss_pred EEEEcC
Confidence 999873
No 95
>KOG2872 consensus Uroporphyrinogen decarboxylase [Coenzyme transport and metabolism]
Probab=46.40 E-value=1.2e+02 Score=28.00 Aligned_cols=87 Identities=11% Similarity=-0.005 Sum_probs=57.8
Q ss_pred chHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025126 55 FFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (257)
Q Consensus 55 ~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (257)
|.||.|.++++.|.+|.-+--|-. ..+|-+.+|- ++.+-+.-|-.+=+ -+.+.+.+.+.+.+
T Consensus 260 G~g~~Le~l~~tG~DVvgLDWTvd------------p~ear~~~g~---~VtlQGNlDP~~ly---~s~e~it~~v~~mv 321 (359)
T KOG2872|consen 260 GSGGALEELAQTGYDVVGLDWTVD------------PAEARRRVGN---RVTLQGNLDPGVLY---GSKEEITQLVKQMV 321 (359)
T ss_pred CcchHHHHHHhcCCcEEeeccccc------------HHHHHHhhCC---ceEEecCCChHHhc---CCHHHHHHHHHHHH
Confidence 789999999999999876655542 3446667885 67777765522111 25678888899999
Q ss_pred HhcCCCEEEeeCCCCC--CCCchHHHH
Q 025126 135 VNCSIDLIITFDNYGV--SGHCNHRDV 159 (257)
Q Consensus 135 ~~~~Pd~V~t~d~~g~--d~H~DH~~~ 159 (257)
..+.|+--|.-=-||. +..+||.+.
T Consensus 322 ~~fG~~ryI~NLGHGi~p~tp~e~v~~ 348 (359)
T KOG2872|consen 322 KDFGKSRYIANLGHGITPGTPPEHVAH 348 (359)
T ss_pred HHhCccceEEecCCCCCCCCCHHHHHH
Confidence 9999987665522332 234555543
No 96
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=46.27 E-value=1.9e+02 Score=24.70 Aligned_cols=65 Identities=9% Similarity=0.031 Sum_probs=37.5
Q ss_pred EEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEee
Q 025126 71 HILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITF 145 (257)
Q Consensus 71 ~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~ 145 (257)
.+++++ |... .....|.+-.+++++..|.. +.....-. ..|+.+...+.+.+++++. +|+.|++.
T Consensus 127 ~i~~i~-~~~~~~~~~~R~~gf~~a~~~~~~~---~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~ai~~~ 193 (275)
T cd06307 127 KVAVLA-GSHRFRGHEEREMGFRSVLREEFPG---LRVLETLE------GLDDPARAYEATRKLLARHPDLVGIYNA 193 (275)
T ss_pred eEEEEe-cCCCCcchHHHHHHHHHHHHhhCCC---cEEEeecc------CCCChHHHHHHHHHHHHhCCCceEEEEC
Confidence 344454 3332 34567888899999887752 22211100 1134455566777777654 58888887
No 97
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=46.14 E-value=57 Score=30.68 Aligned_cols=50 Identities=20% Similarity=0.203 Sum_probs=36.8
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC-CC---chHHHHHHHHHHHHHcCCCCCcEEEccCC
Q 025126 59 TINYLTSRRHNLHILCMSNGNA-DG---MGNIRKDELHRACAVLKIPLEQVKVLDLV 111 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~-~~---~~~~R~~E~~~A~~~LGv~~~~~~~l~~~ 111 (257)
+...+.++|++|.-++|-+.+. ++ ..+.=.+.++++|+.||+ .++.+|+.
T Consensus 19 aA~lLk~QGyeViGl~m~~~~~~~~~~C~s~~d~~da~~va~~LGI---p~~~vdf~ 72 (356)
T COG0482 19 AAYLLKEQGYEVIGLFMKNWDEDGGGGCCSEEDLRDAERVADQLGI---PLYVVDFE 72 (356)
T ss_pred HHHHHHHcCCeEEEEEEEeeccCCCCcCCchhHHHHHHHHHHHhCC---ceEEEchH
Confidence 3556678999999999987763 22 344455678899999999 46777764
No 98
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=46.12 E-value=2.1e+02 Score=27.81 Aligned_cols=86 Identities=13% Similarity=0.067 Sum_probs=51.1
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHH-HHHHHcCCCCCcEEEccCCCCCC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELH-RACAVLKIPLEQVKVLDLVDFQD 115 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~-~A~~~LGv~~~~~~~l~~~d~~d 115 (257)
..+||+. +.+-||=+. +....+.+.|.+|..+....++.. -+.+..|.. +.++-.|. +....++.+|
T Consensus 312 L~GKrva-i~Gdp~~~i----~LarfL~elGmevV~vgt~~~~~~--~~~~d~~~l~~~~~~~~~--~~~vive~~D--- 379 (457)
T CHL00073 312 VRGKSVF-FMGDNLLEI----SLARFLIRCGMIVYEIGIPYMDKR--YQAAELALLEDTCRKMNV--PMPRIVEKPD--- 379 (457)
T ss_pred HCCCEEE-EECCCcHHH----HHHHHHHHCCCEEEEEEeCCCChh--hhHHHHHHHHHHhhhcCC--CCcEEEeCCC---
Confidence 4678886 777776664 667777788999887754444321 112223332 34445555 2233444333
Q ss_pred CccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 116 GFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 116 g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
...+.+.+++.+||++++.
T Consensus 380 -----------~~el~~~i~~~~pDLlIgG 398 (457)
T CHL00073 380 -----------NYNQIQRIRELQPDLAITG 398 (457)
T ss_pred -----------HHHHHHHHhhCCCCEEEcc
Confidence 1244677888899999976
No 99
>PRK09526 lacI lac repressor; Reviewed
Probab=45.82 E-value=2.1e+02 Score=25.35 Aligned_cols=97 Identities=10% Similarity=0.051 Sum_probs=52.3
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
..+.+.|++ .+.+++..........|.+...++++..|++... .+.+ .|+.+...+.+.+++++. .|
T Consensus 174 ~~L~~~G~~-~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~-~~~~----------~~~~~~~~~~~~~~l~~~~~~ 241 (342)
T PRK09526 174 EHLVELGHQ-RIALLAGPESSVSARLRLAGWLEYLTDYQLQPIA-VREG----------DWSAMSGYQQTLQMLREGPVP 241 (342)
T ss_pred HHHHHCCCC-eEEEEeCCCccccHHHHHHHHHHHHHHcCCCcce-EEeC----------CCchHHHHHHHHHHhcCCCCC
Confidence 345567765 3444443222223467888899999999984211 1111 123334445667777643 58
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEE
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAW 179 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~y 179 (257)
+.|++.+ | ..+..+.+|+.+.+. |.++.+.
T Consensus 242 ~ai~~~~--------d--~~A~g~~~al~~~g~~vP~disvi 273 (342)
T PRK09526 242 SAILVAN--------D--QMALGVLRALHESGLRVPGQISVI 273 (342)
T ss_pred cEEEEcC--------c--HHHHHHHHHHHHcCCCCCCceEEE
Confidence 8888873 2 233445565654432 3455444
No 100
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=45.66 E-value=1.5e+02 Score=27.40 Aligned_cols=75 Identities=13% Similarity=0.123 Sum_probs=50.5
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC--CCCc-cccCChHHHHHHHHHHHH
Q 025126 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF--QDGF-DKLWNHKSLAKIVEEEVV 135 (257)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~--~dg~-~~~~~~~~l~~~l~~~i~ 135 (257)
++=+++..|+.. ...-.+-.|..+-+.-||+ ..+...+.|+. +|.. ...|+.+-++.+-.+.|+
T Consensus 34 I~PiFV~eg~~~~~~I~SMPgv~r~s~d~l~~~~~~~~~lGi--~av~LFgvp~~~~Kd~~gs~A~~~~givqravr~ik 111 (330)
T COG0113 34 IYPIFVVEGENIKEEIPSMPGVYRYSLDRLVEEAEELVDLGI--PAVILFGVPDDSKKDETGSEAYDPDGIVQRAVRAIK 111 (330)
T ss_pred eEeEEEecCCCCccccCCCCCceeccHHHHHHHHHHHHhcCC--CEEEEeCCCcccccCcccccccCCCChHHHHHHHHH
Confidence 566777777631 1334455555556667999 46778888843 4432 234788888888888998
Q ss_pred hcCCCEEEeeC
Q 025126 136 NCSIDLIITFD 146 (257)
Q Consensus 136 ~~~Pd~V~t~d 146 (257)
+.-||+++..|
T Consensus 112 ~~~p~l~iitD 122 (330)
T COG0113 112 EAFPELVVITD 122 (330)
T ss_pred HhCCCeEEEee
Confidence 88899988665
No 101
>cd00887 MoeA MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MoeA, together with MoaB, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes.
Probab=45.22 E-value=2e+02 Score=27.18 Aligned_cols=92 Identities=21% Similarity=0.187 Sum_probs=53.4
Q ss_pred HHHHHHHHhCCC-------cEEEEEEeCCCCC-------Cch---HHHHHHHHHHHHHcCCCCCcEEEccC-CCCCCCcc
Q 025126 57 SPTINYLTSRRH-------NLHILCMSNGNAD-------GMG---NIRKDELHRACAVLKIPLEQVKVLDL-VDFQDGFD 118 (257)
Q Consensus 57 Ggtl~~~~~~G~-------~V~vv~lT~G~~~-------~~~---~~R~~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~ 118 (257)
...|+.|+..|. +..+.+++.|+.= ..+ +.-..=+.+.++.+|. ++...+. +|
T Consensus 149 p~~i~~Las~Gi~~v~V~~~~rv~ii~tGdEl~~~g~~~~~g~i~dsn~~~l~~~l~~~G~---~~~~~~~v~D------ 219 (394)
T cd00887 149 PADIGLLASLGIAEVPVYRRPRVAIISTGDELVEPGEPLAPGQIYDSNSYMLAALLRELGA---EVVDLGIVPD------ 219 (394)
T ss_pred HHHHHHHHhCCCCEEEEecCCEEEEEeCCCcccCCCCCCCCCEEEEChHHHHHHHHHHCCC---EEEEeceeCC------
Confidence 356778888883 2356677888631 012 2222334555777888 3444332 22
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.+.+.|.+.+++ .|+|+|. |+.+..++-.+.++..+
T Consensus 220 ---d~~~i~~~l~~a~~~--~Dliitt---GG~s~g~~D~~~~al~~ 258 (394)
T cd00887 220 ---DPEALREALEEALEE--ADVVITS---GGVSVGDYDFVKEVLEE 258 (394)
T ss_pred ---CHHHHHHHHHHHhhC--CCEEEEe---CCCCCCcchhHHHHHHh
Confidence 346777778777754 8999998 44444444445555554
No 102
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=44.99 E-value=34 Score=25.61 Aligned_cols=11 Identities=9% Similarity=-0.073 Sum_probs=7.5
Q ss_pred cEEEEecCchh
Q 025126 41 NVLLVIAHPDD 51 (257)
Q Consensus 41 ~vL~i~aHPDD 51 (257)
.|+.+-||||-
T Consensus 68 PvI~~~P~~~~ 78 (94)
T PF05393_consen 68 PVIGLEPQNLQ 78 (94)
T ss_pred cccccCCCccc
Confidence 36666788775
No 103
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=44.56 E-value=2e+02 Score=24.47 Aligned_cols=92 Identities=18% Similarity=0.197 Sum_probs=50.3
Q ss_pred CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEe
Q 025126 67 RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIIT 144 (257)
Q Consensus 67 G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t 144 (257)
|++ .+++++..........|.+..+++++.. |+ ++. .... ..|+.+...+.+.+++++. +|+.|++
T Consensus 121 g~~-~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~---~~~--~~~~------~~~~~~~~~~~~~~~l~~~~~~~aI~~ 188 (270)
T cd06308 121 GKG-NILEIWGLEGSSPAIERHDGFKEALSKYPKI---KIV--AQQD------GDWLKEKAEEKMEELLQANPDIDLVYA 188 (270)
T ss_pred CCc-eEEEEECCCCCchHHHHHHHHHHHHHHCCCC---EEE--EecC------CCccHHHHHHHHHHHHHhCCCCcEEEe
Confidence 544 4444543222233467888888888887 66 222 1111 1245555566777888654 4888888
Q ss_pred eCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEE
Q 025126 145 FDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWE 180 (257)
Q Consensus 145 ~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye 180 (257)
.+ . ..+..+..|+.+.+..+++.+..
T Consensus 189 ~~--d--------~~a~g~~~al~~~g~~~dv~vvg 214 (270)
T cd06308 189 HN--D--------PMALGAYLAAKRAGREKEIKFIG 214 (270)
T ss_pred CC--c--------HHHHHHHHHHHHcCCCCCcEEEE
Confidence 73 1 23344555565554435555443
No 104
>PRK06769 hypothetical protein; Validated
Probab=44.55 E-value=1.7e+02 Score=23.93 Aligned_cols=43 Identities=7% Similarity=0.061 Sum_probs=24.0
Q ss_pred hHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCC
Q 025126 56 FSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKI 100 (257)
Q Consensus 56 ~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv 100 (257)
.-.+|.+|.++|.++.++ |++.....+..+........+.+|+
T Consensus 33 v~e~L~~Lk~~G~~l~I~--Tn~~~~~~~~~~~~~~~~~l~~~g~ 75 (173)
T PRK06769 33 TKASLQKLKANHIKIFSF--TNQPGIADGIATIADFVQELKGFGF 75 (173)
T ss_pred HHHHHHHHHHCCCEEEEE--ECCchhcCCcCCHHHHHHHHHhCCc
Confidence 345788888888765555 6654322222222234444667887
No 105
>PRK14169 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=44.33 E-value=2.3e+02 Score=25.67 Aligned_cols=86 Identities=13% Similarity=0.109 Sum_probs=52.2
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+..+.++|....++.+--|+.. ...-.|. -.++|+.+|+ ++....+|.. ...+++.+.|.++-..-.
T Consensus 21 v~~l~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~ 88 (282)
T PRK14169 21 VAKLAQQDVTPTLAVVLVGSDPASEVYVRN--KQRRAEDIGV---RSLMFRLPEA-------TTQADLLAKVAELNHDPD 88 (282)
T ss_pred HHHHHhCCCCCeEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 4455556777777777666543 2333343 3578999999 4555666541 245667777777666556
Q ss_pred CCEEEeeCCCCCCCCchHHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
.+=|+.+-|.. .|.|-..+
T Consensus 89 V~GIlvqlPLp--~~i~~~~i 107 (282)
T PRK14169 89 VDAILVQLPLP--AGLDEQAV 107 (282)
T ss_pred CCEEEEeCCCC--CCCCHHHH
Confidence 67788874433 56665553
No 106
>COG2845 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.99 E-value=2.8e+02 Score=25.98 Aligned_cols=16 Identities=25% Similarity=0.412 Sum_probs=12.0
Q ss_pred CCCcEEEEEEeCCCCC
Q 025126 66 RRHNLHILCMSNGNAD 81 (257)
Q Consensus 66 ~G~~V~vv~lT~G~~~ 81 (257)
..-.|.++..|+|+.|
T Consensus 140 t~~~i~i~~~sn~SSG 155 (354)
T COG2845 140 TSPGITIVTRSNGSSG 155 (354)
T ss_pred cCCCcEEEEeecCCCC
Confidence 3456888999999764
No 107
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=43.84 E-value=2.2e+02 Score=24.88 Aligned_cols=99 Identities=9% Similarity=-0.061 Sum_probs=54.1
Q ss_pred HhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCE
Q 025126 64 TSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDL 141 (257)
Q Consensus 64 ~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~ 141 (257)
.+. |.+-.+++++..........|.+.++++++..|.+ .+....... ..|+.+...+.+.+++++. +|+.
T Consensus 117 ~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~--~~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~a 188 (298)
T cd06302 117 AEQMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYP--MLELVDRQY------GDDDADKSYQTAQELLKAYPDLKG 188 (298)
T ss_pred HHHcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCC--CeEEeCccc------CCCCHHHHHHHHHHHHHhCCCceE
Confidence 345 44334555543222234567888999999988853 222222111 1234455556677777654 4788
Q ss_pred EEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEE
Q 025126 142 IITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWE 180 (257)
Q Consensus 142 V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye 180 (257)
|++.+. ..+..+.+|+.+.+...++.+.-
T Consensus 189 i~~~~D----------~~A~g~~~al~~~g~~~dv~vvG 217 (298)
T cd06302 189 IIGPTS----------VGIPGAARAVEEAGLKGKVAVTG 217 (298)
T ss_pred EEECCC----------cchhHHHHHHHhcCCCCCEEEEE
Confidence 888731 23345666666555444554443
No 108
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.83 E-value=1.9e+02 Score=24.19 Aligned_cols=72 Identities=13% Similarity=0.081 Sum_probs=39.1
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
.+.++|++ .+.+++..........|.+...++++..|.+ + ..... ..|+.+...+.+.+++++. +|+
T Consensus 109 ~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~---~--~~~~~------~~~~~~~~~~~~~~~l~~~~~~~ 176 (266)
T cd06278 109 LLLAKGCR-RIAFIGGPADTSTSRERERGFRDALAAAGVP---V--VVEEA------GDYSYEGGYEAARRLLASRPRPD 176 (266)
T ss_pred HHHHCCCc-eEEEEcCCCcccchHHHHHHHHHHHHHcCCC---h--hhhcc------CCCCHHHHHHHHHHHHhcCCCCC
Confidence 33445543 3333332222234566777888888877762 1 11100 1134455566777777764 588
Q ss_pred EEEee
Q 025126 141 LIITF 145 (257)
Q Consensus 141 ~V~t~ 145 (257)
.|++.
T Consensus 177 ~i~~~ 181 (266)
T cd06278 177 AIFCA 181 (266)
T ss_pred EEEEc
Confidence 88887
No 109
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=43.83 E-value=1.9e+02 Score=23.94 Aligned_cols=77 Identities=12% Similarity=0.089 Sum_probs=43.1
Q ss_pred HHHHHHH-HhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025126 57 SPTINYL-TSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (257)
Q Consensus 57 Ggtl~~~-~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (257)
|..+.++ .+.|.+ .+.++...........|.+++.++++..| + ....... ..|+.+...+.+.+++
T Consensus 106 ~~~~~~~l~~~g~~-~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~--------~~~~~~~~~~~~~~~l 173 (264)
T cd01537 106 GYLAGEHLAEKGHR-RIALLAGPLGSSTARERVAGFKDALKEAGPI---EIVLVQE--------GDWDAEKGYQAAEELL 173 (264)
T ss_pred HHHHHHHHHHhcCC-cEEEEECCCCCCcHHHHHHHHHHHHHHcCCc---Chhhhcc--------CCCCHHHHHHHHHHHH
Confidence 4444443 345533 23333333223456788889999988887 3 1111111 1124455666777888
Q ss_pred HhcC-CCEEEee
Q 025126 135 VNCS-IDLIITF 145 (257)
Q Consensus 135 ~~~~-Pd~V~t~ 145 (257)
++.. ||.|++.
T Consensus 174 ~~~~~~~~i~~~ 185 (264)
T cd01537 174 TAHPDPTAIFAA 185 (264)
T ss_pred hcCCCCCEEEEc
Confidence 7754 8888887
No 110
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=43.17 E-value=2e+02 Score=24.23 Aligned_cols=102 Identities=17% Similarity=0.023 Sum_probs=66.6
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCCC--chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCC------CccccCC----h--
Q 025126 58 PTINYLTSRRHNLHILCMSNGNADG--MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQD------GFDKLWN----H-- 123 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~~~~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~d------g~~~~~~----~-- 123 (257)
-.|.+|.+.|.+|++.+ -|.+=.. --..|..|+.+.++.+|+ .++.-++. ..+ |.. ..+ .
T Consensus 13 ~~~~~L~~~g~~vt~~f-yNPNIhP~~Ey~~R~~~~~~~~~~~~i---~~i~~~Y~-~~~w~~~v~~~e-~epE~g~RC~ 86 (176)
T PF02677_consen 13 YPLERLREEGFDVTGYF-YNPNIHPYEEYERRLEELKRFAEKLGI---PLIEGDYD-PEEWLRAVKGLE-DEPEGGKRCR 86 (176)
T ss_pred HHHHHHHHCCCCeEEEE-eCCCCCcHHHHHHHHHHHHHHHHHcCC---CEEecCCC-HHHHHHHHhhCc-cCCccCchhH
Confidence 36888999999987555 4554332 246799999999999999 45555542 100 110 000 0
Q ss_pred ---HHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 124 ---KSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 124 ---~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
+.=.+.-++.-.+.+.|..-|. ...+.|.||..+..+...+-
T Consensus 87 ~Cy~~RL~~tA~~A~e~gfd~FtTT--L~~Sp~k~~~~I~~iG~~~~ 131 (176)
T PF02677_consen 87 VCYDLRLEKTAQYAKELGFDYFTTT--LLISPYKNHELINEIGERLA 131 (176)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEcc--ccCcCccCHHHHHHHHHHHH
Confidence 0112233445567788987777 78899999999999988853
No 111
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.13 E-value=2e+02 Score=24.31 Aligned_cols=79 Identities=9% Similarity=0.034 Sum_probs=44.3
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCCEEEeeCCCCCCCCchHHHHHH
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHH 161 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~~~~ 161 (257)
....|.+...++++..|++......+. ..|+.+...+.+.+++.+ -+|+.|++.+. ..+.
T Consensus 128 ~~~~R~~Gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d----------~~a~ 188 (265)
T cd06285 128 TARDRLAGFRAALAEAGIEVPPERIVY---------SGFDIEGGEAAAEKLLRSDSPPTAIFAVND----------FAAI 188 (265)
T ss_pred cHHHHHHHHHHHHHHcCCCCChhhEEe---------CCCCHHHHHHHHHHHHcCCCCCCEEEEcCc----------HHHH
Confidence 456788888888888887321111111 123444555666777654 35899998842 2444
Q ss_pred HHHHHHHccC--CCCccEEEE
Q 025126 162 GICRSYLNGT--SERNIEAWE 180 (257)
Q Consensus 162 av~~A~~~~~--~~~~~~~ye 180 (257)
.+..|+.+.+ .++++.+..
T Consensus 189 g~~~~l~~~g~~~p~di~iig 209 (265)
T cd06285 189 GVMGAARDRGLRVPDDVALVG 209 (265)
T ss_pred HHHHHHHHcCCCCCcceEEEe
Confidence 5666665544 234555443
No 112
>PRK10125 putative glycosyl transferase; Provisional
Probab=42.64 E-value=52 Score=31.02 Aligned_cols=34 Identities=12% Similarity=0.041 Sum_probs=21.8
Q ss_pred cEEEEecCchhhhcchHHH-------HHHHHhCCCcEEEEEEeCCCC
Q 025126 41 NVLLVIAHPDDESMFFSPT-------INYLTSRRHNLHILCMSNGNA 80 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggt-------l~~~~~~G~~V~vv~lT~G~~ 80 (257)
+||.|.. .+++||+ ..++.++|++|.+++.+ |+.
T Consensus 2 kil~i~~-----~l~~GGaeri~~~L~~~l~~~G~~~~i~~~~-~~~ 42 (405)
T PRK10125 2 NILQFNV-----RLAEGGAAGVALDLHQRALQQGLASHFVYGY-GKG 42 (405)
T ss_pred eEEEEEe-----eecCCchhHHHHHHHHHHHhcCCeEEEEEec-CCC
Confidence 4555544 5666665 33345789999988886 443
No 113
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=42.38 E-value=2.4e+02 Score=25.52 Aligned_cols=85 Identities=15% Similarity=0.153 Sum_probs=50.2
Q ss_pred HHHHHhCC-CcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 60 INYLTSRR-HNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 60 l~~~~~~G-~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
+.++.+.| ....+..+--|+. +.....|.++ ++|+.+|+ ++....+|.. .+.+++.+.|.++-+.-
T Consensus 22 i~~l~~~g~~~P~Laii~vg~d~as~~Yv~~k~--k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~d~ 89 (278)
T PRK14172 22 VEERKENGLSIPKIASILVGNDGGSIYYMNNQE--KVANSLGI---DFKKIKLDES-------ISEEDLINEIEELNKDN 89 (278)
T ss_pred HHHHHhcCCCCceEEEEEeCCCHHHHHHHHHHH--HHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 33444456 3244544445543 3344555554 89999999 5556666531 24567777777777766
Q ss_pred CCCEEEeeCCCCCCCCchHHH
Q 025126 138 SIDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (257)
+.+=|+.+-|.. .|.|-..
T Consensus 90 ~V~GIlvqlPLP--~~~~~~~ 108 (278)
T PRK14172 90 NVHGIMLQLPLP--KHLDEKK 108 (278)
T ss_pred CCCeEEEcCCCC--CCCCHHH
Confidence 677788884433 5666444
No 114
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=42.35 E-value=26 Score=28.67 Aligned_cols=23 Identities=22% Similarity=0.180 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhcCCCEEEeeCC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
-..+.+.++|++.+||+|++..|
T Consensus 76 ~~~~~l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 76 LFARRLIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHHHHHHhhcCCCEEEECCc
Confidence 34567899999999999998844
No 115
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=42.06 E-value=36 Score=24.91 Aligned_cols=65 Identities=22% Similarity=0.313 Sum_probs=29.5
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHH--HHHHHH-HHHHHcCCCCCcEEE
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNI--RKDELH-RACAVLKIPLEQVKV 107 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~--R~~E~~-~A~~~LGv~~~~~~~ 107 (257)
+.-++..|++|+ +.+.++-.. .+...+..++.+|.+.+-..... =.+.+. +.++.+|++++++.+
T Consensus 2 rfqi~~~~~~~~-~~~~~~ylg-~~Rs~~~v~I~It~~~gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I 69 (82)
T PF14552_consen 2 RFQIIHEHEPDE-FIYDPTYLG-IDRSDDFVIIQITSGAGRSTEQKKALYRALAERLAEKLGIRPEDVMI 69 (82)
T ss_dssp SEEEEEEE-GGG-EEE-TTTS---TS-TT-EEEEEEECS---HHHHHHHHHHHHHHHHHHH---GGGEEE
T ss_pred eeEEEEEeCccc-EEECCccCC-CCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHcCCCHHHEEE
Confidence 456788997776 456655333 34556778888887743211111 112222 223458999888754
No 116
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=41.76 E-value=72 Score=25.89 Aligned_cols=63 Identities=10% Similarity=0.142 Sum_probs=37.3
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
..+.-.+|....++.+|+ +++....|.-+.+.....--..++.+.+++.+.+.+.++.-+| .|
T Consensus 55 vv~~av~eI~~~a~kv~~--~~ivlyPyAHLSs~La~P~~A~~iL~~le~~L~~~g~eV~raP--FG 117 (138)
T PF08915_consen 55 VVEKAVEEIKWVAKKVKA--KRIVLYPYAHLSSSLASPDVAVEILKKLEERLKSRGFEVYRAP--FG 117 (138)
T ss_dssp HHHHHHHHHHHHHHHTT---SEEEEEE-GGGSSSB--HHHHHHHHHHHHHHHHHTT-EEEE----TT
T ss_pred HHHHHHHHHHHHHHhcCC--CEEEEeCcccccCCcCChHHHHHHHHHHHHHHHhCCCeEEEeC--Cc
Confidence 345566889999999999 6777777654432221100123666777777778888888888 66
No 117
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=41.29 E-value=2.2e+02 Score=24.17 Aligned_cols=45 Identities=22% Similarity=0.260 Sum_probs=27.7
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 91 LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
..+.|+..|+| +..++..+.. +.+..-..+.+.+++.+||++++.
T Consensus 43 ~~~~a~~~gIp---~~~~~~~~~~-------~~~~~~~~~~~~l~~~~~D~iv~~ 87 (200)
T PRK05647 43 GLERAEAAGIP---TFVLDHKDFP-------SREAFDAALVEALDAYQPDLVVLA 87 (200)
T ss_pred HHHHHHHcCCC---EEEECccccC-------chhHhHHHHHHHHHHhCcCEEEhH
Confidence 45678889993 4444433321 112223456777888899998886
No 118
>PRK06849 hypothetical protein; Provisional
Probab=41.28 E-value=2.2e+02 Score=26.34 Aligned_cols=81 Identities=16% Similarity=0.172 Sum_probs=47.9
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025126 38 DKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (257)
Q Consensus 38 ~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (257)
..++||++++-.- .+=+.+..+.++|++|+++.... ...+ ...+. + +..+.+..|+
T Consensus 3 ~~~~VLI~G~~~~----~~l~iar~l~~~G~~Vi~~d~~~---~~~~--------~~s~~--~--d~~~~~p~p~----- 58 (389)
T PRK06849 3 TKKTVLITGARAP----AALELARLFHNAGHTVILADSLK---YPLS--------RFSRA--V--DGFYTIPSPR----- 58 (389)
T ss_pred CCCEEEEeCCCcH----HHHHHHHHHHHCCCEEEEEeCCc---hHHH--------HHHHh--h--hheEEeCCCC-----
Confidence 4578999876522 13356677778899887664321 1111 11111 2 2333343332
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 118 DKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
.+.+...+.|.+++++.++|+|+..
T Consensus 59 ---~d~~~~~~~L~~i~~~~~id~vIP~ 83 (389)
T PRK06849 59 ---WDPDAYIQALLSIVQRENIDLLIPT 83 (389)
T ss_pred ---CCHHHHHHHHHHHHHHcCCCEEEEC
Confidence 1345677889999999999998876
No 119
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=41.28 E-value=26 Score=27.72 Aligned_cols=15 Identities=13% Similarity=0.505 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHH
Q 025126 6 VIVSTIVVWVASLFK 20 (257)
Q Consensus 6 ~~~~~~~~~~~~~~~ 20 (257)
++|.+++++++++++
T Consensus 7 iii~~i~l~~~~~~~ 21 (130)
T PF12273_consen 7 IIIVAILLFLFLFYC 21 (130)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444343
No 120
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=41.22 E-value=2.5e+02 Score=24.73 Aligned_cols=97 Identities=15% Similarity=0.152 Sum_probs=51.0
Q ss_pred HHHHhCCCcEEEEEEeCCCC-CC-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSRRHNLHILCMSNGNA-DG-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~-~~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
..+.+.|++= +.+++ |.. .. ....|.+...++++..|++........ . .|+.+...+.+.++++. +
T Consensus 169 ~~L~~~G~~~-I~~i~-g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~-~--------~~~~~~~~~~~~~ll~~-~ 236 (329)
T TIGR01481 169 GELIAKGHKS-IAFVG-GPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCE-G--------KYSYDAGYKAFAELKGS-L 236 (329)
T ss_pred HHHHHCCCCe-EEEEe-cCcccccchHHHHHHHHHHHHHcCCCCCcceEEe-c--------CCChHHHHHHHHHHhCC-C
Confidence 3456678653 22332 222 12 246788889999999887532211111 1 12233333445555554 6
Q ss_pred CCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEE
Q 025126 139 IDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAW 179 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~y 179 (257)
|+.|++.+ | ..+..+.+|+.+.+ -|.++.+.
T Consensus 237 p~ai~~~~--------d--~~A~g~~~al~~~g~~vP~dvsvv 269 (329)
T TIGR01481 237 PTAVFVAS--------D--EMAAGILNAAMDAGIKVPEDLEVI 269 (329)
T ss_pred CCEEEEcC--------c--HHHHHHHHHHHHcCCCCCCceEEE
Confidence 99998873 2 23445666665544 24555544
No 121
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=40.82 E-value=2.5e+02 Score=25.53 Aligned_cols=85 Identities=9% Similarity=0.130 Sum_probs=50.6
Q ss_pred HHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 61 NYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
..+.+.|....+..+--|+.. ...-.|. -.++|+.+|+ ++....+|.. .+.+++.+.|.++-..-..
T Consensus 24 ~~l~~~g~~p~Laii~vg~~~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~d~~V 91 (286)
T PRK14175 24 EALKEKGFTPKLSVILVGNDGASQSYVRS--KKKAAEKIGM---ISEIVHLEET-------ATEEEVLNELNRLNNDDSV 91 (286)
T ss_pred HHHHhcCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCC
Confidence 344455777777777666543 2333343 3578999999 5556666531 1455676666666655566
Q ss_pred CEEEeeCCCCCCCCchHHHH
Q 025126 140 DLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~ 159 (257)
+=|+.+-|. -.|.|-..+
T Consensus 92 ~GIivq~Pl--p~~i~~~~i 109 (286)
T PRK14175 92 SGILVQVPL--PKQVSEQKI 109 (286)
T ss_pred CEEEEeCCC--CCCCCHHHH
Confidence 667877443 356665553
No 122
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=40.71 E-value=2.5e+02 Score=25.57 Aligned_cols=86 Identities=14% Similarity=0.161 Sum_probs=52.0
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+..+.++|....++.+--|+.. ...-.|. -.++|+.+|+ ++....+|.. ...+++.+.|.++-..-.
T Consensus 22 i~~l~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~ 89 (284)
T PRK14170 22 VAELVKEGKKPGLAVVLVGDNQASRTYVRN--KQKRTEEAGM---KSVLIELPEN-------VTEEKLLSVVEELNEDKT 89 (284)
T ss_pred HHHHHhCCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 3445556777777777777543 2333343 3578999999 4555565531 145667777777766666
Q ss_pred CCEEEeeCCCCCCCCchHHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
.+=|+.+-|. -.|.|-..+
T Consensus 90 V~GIivqlPl--P~~i~~~~i 108 (284)
T PRK14170 90 IHGILVQLPL--PEHISEEKV 108 (284)
T ss_pred CCeEEEecCC--CCCCCHHHH
Confidence 6768877443 356665543
No 123
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=40.56 E-value=1.3e+02 Score=23.58 Aligned_cols=28 Identities=21% Similarity=0.253 Sum_probs=22.8
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccC
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDL 110 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~ 110 (257)
..+.|-+.+++.++.+|++++++.+...
T Consensus 74 ~a~~Rv~~~k~~L~~~Gi~~eRv~~~~~ 101 (124)
T PF02662_consen 74 RAEKRVERLKKLLEELGIEPERVRLYWI 101 (124)
T ss_pred HHHHHHHHHHHHHHHcCCChhHeEEEEe
Confidence 4577888999999999999888876443
No 124
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=40.28 E-value=1e+02 Score=29.81 Aligned_cols=79 Identities=19% Similarity=0.229 Sum_probs=45.3
Q ss_pred CCcEEEEecCchhhhcchHHHHHHH----HhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCC
Q 025126 39 KKNVLLVIAHPDDESMFFSPTINYL----TSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQ 114 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l~~Ggtl~~~----~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~ 114 (257)
...++.|+-.|. +|=+=+|.+. ++.| .++++|.-+.....+.| ++.||++.+++..+...
T Consensus 92 ~Gs~iLIgGdPG---IGKSTLLLQva~~lA~~~---~vLYVsGEES~~QiklR-------A~RL~~~~~~l~l~aEt--- 155 (456)
T COG1066 92 PGSVILIGGDPG---IGKSTLLLQVAARLAKRG---KVLYVSGEESLQQIKLR-------ADRLGLPTNNLYLLAET--- 155 (456)
T ss_pred cccEEEEccCCC---CCHHHHHHHHHHHHHhcC---cEEEEeCCcCHHHHHHH-------HHHhCCCccceEEehhc---
Confidence 456778887775 3333344433 3345 56676644332333333 56799866666555422
Q ss_pred CCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 115 DGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 115 dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
+ .+.|.+.+++.+|++++.
T Consensus 156 -------~----~e~I~~~l~~~~p~lvVI 174 (456)
T COG1066 156 -------N----LEDIIAELEQEKPDLVVI 174 (456)
T ss_pred -------C----HHHHHHHHHhcCCCEEEE
Confidence 1 345566777789998774
No 125
>PRK09492 treR trehalose repressor; Provisional
Probab=39.91 E-value=2.5e+02 Score=24.60 Aligned_cols=95 Identities=14% Similarity=0.178 Sum_probs=52.5
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 59 TINYLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
....+.+.|++ .+.+++.+.. ......|.+...++++..|++. .. ...+ |+.+...+.+.+++++
T Consensus 166 a~~~L~~~G~~-~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~---~~-~~~~--------~~~~~~~~~~~~~l~~- 231 (315)
T PRK09492 166 LMQRLYDQGHR-HISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTP---VA-ALGG--------LSMQSGYELVAKVLTP- 231 (315)
T ss_pred HHHHHHHcCCC-eEEEEcCCcccchhHHHHHHHHHHHHHHcCCCc---ee-ecCC--------CCchHHHHHHHHHhhc-
Confidence 34566788876 3444432221 2234679999999999999842 11 1111 2233334455556654
Q ss_pred CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEE
Q 025126 138 SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEA 178 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ 178 (257)
+|+.|++.+ | ..+..+.+|+.+.+. +++.+
T Consensus 232 ~~~ai~~~~--------D--~~A~g~~~al~~~g~-~disv 261 (315)
T PRK09492 232 ETTALVCAT--------D--TLALGASKYLQEQGR-DDIQV 261 (315)
T ss_pred CCCEEEEcC--------c--HHHHHHHHHHHHcCC-CceEE
Confidence 799999873 2 234445666655543 34433
No 126
>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated
Probab=39.66 E-value=3.1e+02 Score=25.35 Aligned_cols=93 Identities=13% Similarity=0.013 Sum_probs=50.8
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (257)
-+.+-|+.|-++... +-..+....+.|.+|.+-.+..+. .....-.|+.+.+..+|+ +.+.+-|- .+
T Consensus 102 vd~iri~~~~~e~~~-~~~~i~~ak~~G~~v~~~l~~a~~---~~~e~l~~~a~~~~~~Ga--~~i~i~DT------~G- 168 (337)
T PRK08195 102 VRVVRVATHCTEADV-SEQHIGLARELGMDTVGFLMMSHM---APPEKLAEQAKLMESYGA--QCVYVVDS------AG- 168 (337)
T ss_pred CCEEEEEEecchHHH-HHHHHHHHHHCCCeEEEEEEeccC---CCHHHHHHHHHHHHhCCC--CEEEeCCC------CC-
Confidence 345556666666543 455566666778776655444432 233444555556666777 33333331 11
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
...++++.+.+..+-++.+|++-+-+
T Consensus 169 ~~~P~~v~~~v~~l~~~l~~~i~ig~ 194 (337)
T PRK08195 169 ALLPEDVRDRVRALRAALKPDTQVGF 194 (337)
T ss_pred CCCHHHHHHHHHHHHHhcCCCCeEEE
Confidence 12456666666666666667776655
No 127
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=39.61 E-value=2.1e+02 Score=23.64 Aligned_cols=61 Identities=21% Similarity=0.285 Sum_probs=34.5
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
=+.+.++.+|+. +.... .+| +.+++.+.+.+.+. +.|+|+|. .| .+....-.+.+++.+++
T Consensus 23 ~l~~~L~~~G~~---v~~~~~v~D---------d~~~I~~~l~~~~~--~~dlVItt--GG-~G~t~~D~t~ea~~~~~ 84 (170)
T cd00885 23 FLAKELAELGIE---VYRVTVVGD---------DEDRIAEALRRASE--RADLVITT--GG-LGPTHDDLTREAVAKAF 84 (170)
T ss_pred HHHHHHHHCCCE---EEEEEEeCC---------CHHHHHHHHHHHHh--CCCEEEEC--CC-CCCCCCChHHHHHHHHh
Confidence 345567778983 32221 233 34567777777765 57999998 33 33333334455555543
No 128
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.49 E-value=2.8e+02 Score=25.18 Aligned_cols=85 Identities=11% Similarity=0.110 Sum_probs=49.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+.++.++|....+..+--|+.. ...-.|. ..++|+.+|+ ++....+|.. -+.+++.+.|.++-+.-+
T Consensus 23 v~~l~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~ 90 (284)
T PRK14190 23 VVKLKEQGIVPGLAVILVGDDPASHSYVRG--KKKAAEKVGI---YSELYEFPAD-------ITEEELLALIDRLNADPR 90 (284)
T ss_pred HHHHHhCCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 3444455766666666556543 2333343 3578999999 5566666542 134567677776666656
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 91 V~GIlvq~PLp--~~i~~~~ 108 (284)
T PRK14190 91 INGILVQLPLP--KHIDEKA 108 (284)
T ss_pred CCEEEEeCCCC--CCCCHHH
Confidence 66677774433 5665444
No 129
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=39.45 E-value=2.4e+02 Score=23.90 Aligned_cols=102 Identities=11% Similarity=0.157 Sum_probs=54.9
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
..+.+.|++ .+++++..........|.+.+.++++..|++.+...... ..|+.+...+.+.+++++. .|
T Consensus 109 ~~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~ 178 (268)
T cd06270 109 EHLIELGHR-KIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIE---------GDFTEEGGYAAMQELLARGAPF 178 (268)
T ss_pred HHHHHCCCc-eEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEE---------CCCCHHHHHHHHHHHHhCCCCC
Confidence 334455654 344443221223456788889999998887422111111 0123445556677777653 48
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEEec
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWELM 182 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye~~ 182 (257)
+.|++.+ + ..+..+..|+.+.+. +.++.++...
T Consensus 179 ~ai~~~~--d--------~~a~g~~~~l~~~g~~ip~di~v~g~d 213 (268)
T cd06270 179 TAVFCAN--D--------EMAAGAISALREHGISVPQDVSIIGFD 213 (268)
T ss_pred CEEEEcC--c--------HHHHHHHHHHHHcCCCCCCceeEEEec
Confidence 8999883 1 244556666654442 4566665543
No 130
>PTZ00346 histone deacetylase; Provisional
Probab=39.03 E-value=51 Score=31.75 Aligned_cols=27 Identities=19% Similarity=0.164 Sum_probs=20.7
Q ss_pred HHHHHHHHHhcCCCEEEeeCCCCCCCCch
Q 025126 127 AKIVEEEVVNCSIDLIITFDNYGVSGHCN 155 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d~H~D 155 (257)
.+.|..++++++||+|+.. -|.|.|.+
T Consensus 257 ~~ii~p~l~~F~PdlIvvs--aG~Da~~~ 283 (429)
T PTZ00346 257 EHALHSIVRRYSPDAIVLQ--CGADSLAG 283 (429)
T ss_pred HHHHHHHHHhcCCCEEEEE--CCccCCCC
Confidence 3456677899999999988 77777744
No 131
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=38.79 E-value=2.3e+02 Score=23.58 Aligned_cols=84 Identities=11% Similarity=0.121 Sum_probs=45.8
Q ss_pred chhhhcchHHHHHHHH-hC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChH
Q 025126 49 PDDESMFFSPTINYLT-SR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHK 124 (257)
Q Consensus 49 PDDE~l~~Ggtl~~~~-~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~ 124 (257)
+||.. .|-.++++. +. |+ -.+.+++..........|.+-++++++..| + ++......+ |+.+
T Consensus 101 ~d~~~--~~~~~~~~l~~~~~g~-~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~---~~~~~~~~~--------~~~~ 166 (267)
T cd01536 101 TDNYE--AGRLAGEYLAKLLGGK-GKVAIIEGPPGSSNAQERVKGFRDALKEYPDI---EIVAVQDGN--------WDRE 166 (267)
T ss_pred cCHHH--HHHHHHHHHHHHhCCC-ceEEEEEcccccchHHHHHHHHHHHHHhCCCc---EEEEEecCC--------CcHH
Confidence 35554 344555443 44 54 344555433222356678888999999885 5 222221111 2334
Q ss_pred HHHHHHHHHHHhc-CCCEEEeeC
Q 025126 125 SLAKIVEEEVVNC-SIDLIITFD 146 (257)
Q Consensus 125 ~l~~~l~~~i~~~-~Pd~V~t~d 146 (257)
+..+.+.+++++. +|+.|++.+
T Consensus 167 ~~~~~~~~~~~~~~~~~~i~~~~ 189 (267)
T cd01536 167 KALQAMEDLLQANPDIDAIFAAN 189 (267)
T ss_pred HHHHHHHHHHHhCCCccEEEEec
Confidence 4556667777654 377888874
No 132
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=38.34 E-value=1.4e+02 Score=23.74 Aligned_cols=59 Identities=17% Similarity=0.204 Sum_probs=35.6
Q ss_pred HHHHHHHHcCCCCCcEEEccC-CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLDL-VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
-+.+.++.+|+ ++..... +| +.+++.+.+.+.++ +.|+|+|. |+.+..+.-.+.+++.+
T Consensus 31 ~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~--~~DliItt---GG~g~g~~D~t~~ai~~ 90 (144)
T TIGR00177 31 LLAALLEEAGF---NVSRLGIVPD---------DPEEIREILRKAVD--EADVVLTT---GGTGVGPRDVTPEALEE 90 (144)
T ss_pred HHHHHHHHCCC---eEEEEeecCC---------CHHHHHHHHHHHHh--CCCEEEEC---CCCCCCCCccHHHHHHH
Confidence 34555777888 3443332 22 34567777777665 68999998 44555555555555555
No 133
>COG1087 GalE UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]
Probab=38.16 E-value=85 Score=29.06 Aligned_cols=59 Identities=24% Similarity=0.340 Sum_probs=38.2
Q ss_pred HHHHHHhCCCcEEEE-EEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 59 TINYLTSRRHNLHIL-CMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 59 tl~~~~~~G~~V~vv-~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
|...|.++|++|.++ .+++|..+ ...+.| + .++..|..| .+.|.+++++.
T Consensus 16 tv~~Ll~~G~~vvV~DNL~~g~~~---~v~~~~---------~---~f~~gDi~D--------------~~~L~~vf~~~ 66 (329)
T COG1087 16 TVRQLLKTGHEVVVLDNLSNGHKI---ALLKLQ---------F---KFYEGDLLD--------------RALLTAVFEEN 66 (329)
T ss_pred HHHHHHHCCCeEEEEecCCCCCHH---Hhhhcc---------C---ceEEecccc--------------HHHHHHHHHhc
Confidence 577888899998776 45666432 122112 2 344444433 24678899999
Q ss_pred CCCEEEeeC
Q 025126 138 SIDLIITFD 146 (257)
Q Consensus 138 ~Pd~V~t~d 146 (257)
+||.|+-|.
T Consensus 67 ~idaViHFA 75 (329)
T COG1087 67 KIDAVVHFA 75 (329)
T ss_pred CCCEEEECc
Confidence 999999885
No 134
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=38.06 E-value=1.6e+02 Score=26.76 Aligned_cols=65 Identities=12% Similarity=0.063 Sum_probs=41.0
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCC-CCcEEEccCCCC
Q 025126 36 TGDKKNVLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIP-LEQVKVLDLVDF 113 (257)
Q Consensus 36 ~~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~-~~~~~~l~~~d~ 113 (257)
+.+++++|=|+ -|-|+++..++++ |.+|.-|++|. .-.++.++-.+..|.+ ..++...|++|+
T Consensus 70 L~~G~~lLDiG-------CGWG~l~~~aA~~y~v~V~GvTlS~--------~Q~~~~~~r~~~~gl~~~v~v~l~d~rd~ 134 (283)
T COG2230 70 LKPGMTLLDIG-------CGWGGLAIYAAEEYGVTVVGVTLSE--------EQLAYAEKRIAARGLEDNVEVRLQDYRDF 134 (283)
T ss_pred CCCCCEEEEeC-------CChhHHHHHHHHHcCCEEEEeeCCH--------HHHHHHHHHHHHcCCCcccEEEecccccc
Confidence 46778888332 3446777777766 77777777663 3444555556667774 234566788876
Q ss_pred CC
Q 025126 114 QD 115 (257)
Q Consensus 114 ~d 115 (257)
.+
T Consensus 135 ~e 136 (283)
T COG2230 135 EE 136 (283)
T ss_pred cc
Confidence 54
No 135
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.95 E-value=3.1e+02 Score=24.90 Aligned_cols=86 Identities=14% Similarity=0.139 Sum_probs=51.3
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+.++.++|....++.+--|+.. ...-.|. -.++|+.+|+ ++....+|.. -+.+++.+.|.++-+.-+
T Consensus 21 v~~l~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~t~~~l~~~I~~lN~D~~ 88 (282)
T PRK14166 21 NQFLKSKGIESCLAVILVGDNPASQTYVKS--KAKACEECGI---KSLVYHLNEN-------TTQNELLALINTLNHDDS 88 (282)
T ss_pred HHHHHhCCCCceEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 4445556777777777666543 2233343 3578999999 5566666541 134566666666665556
Q ss_pred CCEEEeeCCCCCCCCchHHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
.+=|+.+-|.. .|.|-..+
T Consensus 89 V~GIivq~PLP--~~i~~~~i 107 (282)
T PRK14166 89 VHGILVQLPLP--DHICKDLI 107 (282)
T ss_pred CCEEEEeCCCC--CCCCHHHH
Confidence 66688874443 56655443
No 136
>PTZ00063 histone deacetylase; Provisional
Probab=37.59 E-value=51 Score=31.88 Aligned_cols=26 Identities=12% Similarity=0.095 Sum_probs=20.3
Q ss_pred HHHHHHHHhcCCCEEEeeCCCCCCCCch
Q 025126 128 KIVEEEVVNCSIDLIITFDNYGVSGHCN 155 (257)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~g~d~H~D 155 (257)
..|..++++++||+|+.. -|.|.|.+
T Consensus 240 ~ii~~~i~~f~Pd~Ivvq--aG~D~~~~ 265 (436)
T PTZ00063 240 PVISKCVEVYRPGAIVLQ--CGADSLTG 265 (436)
T ss_pred HHHHHHHHHhCCCEEEEE--CCccccCC
Confidence 456678899999999988 77777644
No 137
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=37.21 E-value=2.6e+02 Score=23.68 Aligned_cols=99 Identities=12% Similarity=0.053 Sum_probs=53.1
Q ss_pred HHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCC
Q 025126 62 YLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSI 139 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~P 139 (257)
++.++|++ .+.+++ |+.. .....|.+-.+++++..|.+....... +. .++.+...+.+.+++++ .+|
T Consensus 110 ~L~~~G~~-~i~~i~-~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~-~~--------~~~~~~~~~~~~~~l~~~~~~ 178 (269)
T cd06293 110 HLARAGHR-RIAFVG-GPDALISARERYAGYREALAEAHIPEVPEYVC-FG--------DYTREFGRAAAAQLLARGDPP 178 (269)
T ss_pred HHHHCCCc-eEEEEe-cCcccccHHHHHHHHHHHHHHcCCCCChheEE-ec--------CCCHHHHHHHHHHHHcCCCCC
Confidence 45566765 344443 2222 234568888999999988742111111 10 12334445666777754 458
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEEe
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye~ 181 (257)
+.|++.+. ..+..+..|+.+.+ .|+++.+...
T Consensus 179 ~ai~~~~d----------~~a~g~~~al~~~g~~vp~di~i~g~ 212 (269)
T cd06293 179 TAIFAASD----------EIAIGLLEVLRERGLSIPGDMSLVGF 212 (269)
T ss_pred CEEEEcCc----------HHHHHHHHHHHHcCCCCccceEEEee
Confidence 99998731 23444666665544 2355655543
No 138
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=37.14 E-value=3.2e+02 Score=24.84 Aligned_cols=77 Identities=13% Similarity=0.072 Sum_probs=47.0
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCC-CcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPL-EQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~-~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
....|.+.|++ .+.+++.+........|.+-..++++..|++. .....-+ .+..+.-.+.+.+++...
T Consensus 166 a~~~L~~~G~~-~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~----------~~~~~~g~~~~~~ll~~~ 234 (333)
T COG1609 166 ATEHLIELGHR-RIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEG----------DFSEESGYEAAERLLARG 234 (333)
T ss_pred HHHHHHHCCCc-eEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEec----------CCChHHHHHHHHHHHhcC
Confidence 35566778865 23444444333456889999999999999953 1221111 113344456667777654
Q ss_pred C--CCEEEeeC
Q 025126 138 S--IDLIITFD 146 (257)
Q Consensus 138 ~--Pd~V~t~d 146 (257)
. |+.||+.+
T Consensus 235 ~~~ptAif~~n 245 (333)
T COG1609 235 EPRPTAIFCAN 245 (333)
T ss_pred CCCCcEEEEcC
Confidence 3 89999984
No 139
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=36.83 E-value=2e+02 Score=25.39 Aligned_cols=93 Identities=15% Similarity=0.184 Sum_probs=53.2
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
....|.++|++=-+.+++..........|.+..++|++..|++.+......- + ++.+.-.+.+.+++++.
T Consensus 109 a~~~Li~~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~-~--------~~~~~g~~~~~~ll~~~- 178 (279)
T PF00532_consen 109 ATEYLIKKGHRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEG-D--------FDYESGYEAARELLESH- 178 (279)
T ss_dssp HHHHHHHTTCCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEES-S--------SSHHHHHHHHHHHHHTS-
T ss_pred HHHHHHhcccCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCccccccc-C--------CCHHHHHHHHHHHHhhC-
Confidence 3556678886420234433222234677888999999999985333222221 1 13344456667777765
Q ss_pred CC--EEEeeCCCCCCCCchHHHHHHHHHHHHHccC
Q 025126 139 ID--LIITFDNYGVSGHCNHRDVHHGICRSYLNGT 171 (257)
Q Consensus 139 Pd--~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~ 171 (257)
|+ .|++.+ | ..+..+..|+.+.+
T Consensus 179 p~idai~~~n--------d--~~A~ga~~~l~~~g 203 (279)
T PF00532_consen 179 PDIDAIFCAN--------D--MMAIGAIRALRERG 203 (279)
T ss_dssp TT-SEEEESS--------H--HHHHHHHHHHHHTT
T ss_pred CCCEEEEEeC--------H--HHHHHHHHHHHHcC
Confidence 77 888873 1 34445666565444
No 140
>PF02684 LpxB: Lipid-A-disaccharide synthetase; InterPro: IPR003835 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. These enzymes belong to the glycosyltransferase family 19 GT19 from CAZY. Lipid-A-disaccharide synthetase 2.4.1.182 from EC is involved with acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase 2.3.1.129 from EC and tetraacyldisaccharide 4'-kinase 2.7.1.130 from EC in the biosynthesis of the phosphorylated glycolipid, lipid A, in the outer membrane of Escherichia coli and other bacteria. These enzymes catalyse the first disaccharide step in the synthesis of lipid-A-disaccharide.; GO: 0008915 lipid-A-disaccharide synthase activity, 0009245 lipid A biosynthetic process
Probab=36.81 E-value=2.6e+02 Score=26.40 Aligned_cols=25 Identities=24% Similarity=0.307 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
.+.+.+.+.+.+.+||+|++-|..|
T Consensus 69 ~~~~~~~~~~~~~~pd~vIlID~pg 93 (373)
T PF02684_consen 69 RLFRKLVERIKEEKPDVVILIDYPG 93 (373)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCCC
Confidence 4456677788899999999998655
No 141
>cd02010 TPP_ALS Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2 molecules of pyruvate to acetolactate and carbon dioxide. ALS does not contain FAD, and requires TPP and a divalent metal cation for activity.
Probab=36.67 E-value=2.4e+02 Score=23.17 Aligned_cols=42 Identities=17% Similarity=0.176 Sum_probs=30.0
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC
Q 025126 38 DKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD 81 (257)
Q Consensus 38 ~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~ 81 (257)
+.++++.|.- |-.-+..+..|...++.+.++.++++.||..+
T Consensus 65 ~~~~vv~i~G--DG~f~m~~~eL~ta~~~~l~vi~vV~NN~~~g 106 (177)
T cd02010 65 PDRKVVAVSG--DGGFMMNSQELETAVRLKIPLVVLIWNDNGYG 106 (177)
T ss_pred CCCcEEEEEc--chHHHhHHHHHHHHHHHCCCeEEEEEECCcch
Confidence 3456666664 44445555677778888999999999999654
No 142
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=36.55 E-value=1.7e+02 Score=28.38 Aligned_cols=89 Identities=13% Similarity=0.209 Sum_probs=49.1
Q ss_pred CcEEEEecCch-hhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcE------EEcc-CC
Q 025126 40 KNVLLVIAHPD-DESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQV------KVLD-LV 111 (257)
Q Consensus 40 ~~vL~i~aHPD-DE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~------~~l~-~~ 111 (257)
.++.+|..-|. -=+.+|--.+...+++|.+|.++.+... .+++.+-++.+|.+.+.. .+.+ +|
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~---------~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~~ 343 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES---------RAQLIRNARSWGIDLEKMEEKGLLKIICARP 343 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC---------HHHHHHHHHHcCCChHHHhhcCCceeecCCc
Confidence 45555555544 2344444444555578888877765432 233444556788743222 1221 11
Q ss_pred CCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 112 DFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 112 d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
+ .-..++....+.+.+.+.+|+.|+.
T Consensus 344 ~-------~~~~~~~~~~i~~~i~~~~~~~vVI 369 (509)
T PRK09302 344 E-------SYGLEDHLIIIKREIEEFKPSRVAI 369 (509)
T ss_pred c-------cCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 1 1133566778888888999997653
No 143
>PLN02727 NAD kinase
Probab=36.51 E-value=3.3e+02 Score=29.14 Aligned_cols=92 Identities=14% Similarity=0.108 Sum_probs=53.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
--+.++++|.-+- ++.++++|.+. ||++ +++.++ ...-..|.++||+.+|+ .++.+...+.. .
T Consensus 261 ~~~~rsgQpspe~------la~LA~~GfKT-IINL-Rpd~E~-~q~~~~ee~eAae~~GL---~yVhIPVs~~~-----a 323 (986)
T PLN02727 261 AAFWRGGQVTEEG------LKWLLEKGFKT-IVDL-RAEIVK-DNFYQAAVDDAISSGKI---EVVKIPVEVRT-----A 323 (986)
T ss_pred eeEEEeCCCCHHH------HHHHHHCCCeE-EEEC-CCCCcC-CCchhHHHHHHHHHcCC---eEEEeecCCCC-----C
Confidence 3567788888775 56788899764 4444 333332 23336778889999999 34444432211 1
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeCCCCC
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFDNYGV 150 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~ 150 (257)
+..+.+..+.+++++..|.=|+.|=..|.
T Consensus 324 -pt~EqVe~fa~~l~~slpkPVLvHCKSGa 352 (986)
T PLN02727 324 -PSAEQVEKFASLVSDSSKKPIYLHSKEGV 352 (986)
T ss_pred -CCHHHHHHHHHHHHhhcCCCEEEECCCCC
Confidence 23455677777885444554555532453
No 144
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=36.25 E-value=79 Score=18.64 Aligned_cols=25 Identities=8% Similarity=0.186 Sum_probs=16.2
Q ss_pred CchHHHHHHHHH--HHHHHHHHHhhcc
Q 025126 1 MSWLLVIVSTIV--VWVASLFKILNSS 25 (257)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~ 25 (257)
|.|-+++.|.+. +++++.+-++..+
T Consensus 1 m~~~~~l~~~va~~L~vYL~~ALlrPE 27 (29)
T PRK14759 1 MILDYSLAGAVSLGLLIYLTYALLRPE 27 (29)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 778777777666 6666766655443
No 145
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=36.10 E-value=2.6e+02 Score=23.42 Aligned_cols=98 Identities=12% Similarity=0.056 Sum_probs=51.3
Q ss_pred HHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 62 YLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
.+.+.|++- +.+++ |... .....|.+..+++++..|.+........ . .++.+...+.+.+++++. +|
T Consensus 110 ~l~~~g~~~-i~~i~-~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~--~-------~~~~~~~~~~~~~~l~~~~~~ 178 (268)
T cd01575 110 HLLARGYRR-IGFLG-ARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTP--E-------PSSFALGRELLAELLARWPDL 178 (268)
T ss_pred HHHHCCCCc-EEEec-CCCCcccHHHHHHHHHHHHHHcCCCCCceeEec--c-------CCCHHHHHHHHHHHHhCCCCC
Confidence 444566552 33333 3222 3456788888889988886322211111 0 123344556677777654 58
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEE
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWE 180 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye 180 (257)
+.|++.+ . ..+..+..|+.+.+ .++++.+..
T Consensus 179 ~ai~~~~--d--------~~a~~~~~~l~~~g~~~p~di~vig 211 (268)
T cd01575 179 DAVFCSN--D--------DLALGALFECQRRGISVPEDIAIAG 211 (268)
T ss_pred CEEEECC--c--------HHHHHHHHHHHHhCCCCCcceEEEe
Confidence 8888873 1 22344555555443 244555443
No 146
>cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic
Probab=35.89 E-value=54 Score=28.33 Aligned_cols=28 Identities=14% Similarity=0.165 Sum_probs=23.6
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
++.++.....++|++..||+|++++-.+
T Consensus 70 ~E~eLL~~f~~~i~~~DPDii~GyN~~~ 97 (230)
T cd05777 70 TEEELLLAWRDFVQEVDPDIITGYNICN 97 (230)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEecCCC
Confidence 4568889999999999999999995443
No 147
>PF13561 adh_short_C2: Enoyl-(Acyl carrier protein) reductase; PDB: 2UV8_B 3HMJ_A 2VKZ_C 1O5I_A 2P91_C 2OP0_A 2OL4_B 1NHW_A 1NNU_B 2O2Y_B ....
Probab=35.79 E-value=1.8e+02 Score=24.54 Aligned_cols=66 Identities=18% Similarity=0.211 Sum_probs=42.1
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc--
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-- 137 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-- 137 (257)
-.++.++|.+|.++.-+ .+...+++.+.++..|. +++.+|.. +.+.+.+.+.++.+++
T Consensus 13 a~~l~~~Ga~V~~~~~~-------~~~~~~~~~~l~~~~~~---~~~~~D~~----------~~~~v~~~~~~~~~~~~g 72 (241)
T PF13561_consen 13 ARALAEEGANVILTDRN-------EEKLADALEELAKEYGA---EVIQCDLS----------DEESVEALFDEAVERFGG 72 (241)
T ss_dssp HHHHHHTTEEEEEEESS-------HHHHHHHHHHHHHHTTS---EEEESCTT----------SHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHCCCEEEEEeCC-------hHHHHHHHHHHHHHcCC---ceEeecCc----------chHHHHHHHHHHHhhcCC
Confidence 34557889987666533 24456777788888886 35555542 3455666667777775
Q ss_pred CCCEEEee
Q 025126 138 SIDLIITF 145 (257)
Q Consensus 138 ~Pd~V~t~ 145 (257)
++|+++..
T Consensus 73 ~iD~lV~~ 80 (241)
T PF13561_consen 73 RIDILVNN 80 (241)
T ss_dssp SESEEEEE
T ss_pred CeEEEEec
Confidence 78987654
No 148
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=35.74 E-value=1.5e+02 Score=28.11 Aligned_cols=66 Identities=18% Similarity=0.093 Sum_probs=39.8
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCC
Q 025126 72 ILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVS 151 (257)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d 151 (257)
++.+|+..-... ---++..+.++..|+ ++.+.+.-. + .+..+.+....+..++++||.|+.. .|++
T Consensus 32 ~liVTd~~~~~~--g~~~~v~~~L~~~~i---~~~if~~v~----p---~P~~~~v~~~~~~~~~~~~D~iIal--GGGS 97 (377)
T COG1454 32 ALIVTDRGLAKL--GLLDKVLDSLDAAGI---EYEVFDEVE----P---EPTIETVEAGAEVAREFGPDTIIAL--GGGS 97 (377)
T ss_pred eEEEECCccccc--hhHHHHHHHHHhcCC---eEEEecCCC----C---CCCHHHHHHHHHHHHhcCCCEEEEe--CCcc
Confidence 455555532221 234456667777776 333433211 1 1445667888899999999999999 5543
No 149
>cd03819 GT1_WavL_like This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core.
Probab=35.55 E-value=2.1e+02 Score=25.12 Aligned_cols=68 Identities=10% Similarity=0.024 Sum_probs=36.8
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
....+.+.|++|.+++. +. +........|+ +++....... . .+..-.....+.+.+++.+
T Consensus 19 l~~~L~~~g~~v~v~~~--~~----------~~~~~~~~~~~---~~~~~~~~~~--~---~~~~~~~~~~l~~~~~~~~ 78 (355)
T cd03819 19 LARALVERGHRSLVASA--GG----------RLVAELEAEGS---RHIKLPFISK--N---PLRILLNVARLRRLIREEK 78 (355)
T ss_pred HHHHHHHcCCEEEEEcC--CC----------chHHHHHhcCC---eEEEcccccc--c---hhhhHHHHHHHHHHHHHcC
Confidence 34455678999877652 21 11122344566 2333332211 1 1112233456788889999
Q ss_pred CCEEEeeC
Q 025126 139 IDLIITFD 146 (257)
Q Consensus 139 Pd~V~t~d 146 (257)
||+|+++.
T Consensus 79 ~dii~~~~ 86 (355)
T cd03819 79 VDIVHARS 86 (355)
T ss_pred CCEEEECC
Confidence 99999874
No 150
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=35.48 E-value=2.5e+02 Score=23.13 Aligned_cols=79 Identities=14% Similarity=0.082 Sum_probs=43.2
Q ss_pred HHHHHH-HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025126 57 SPTINY-LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (257)
Q Consensus 57 Ggtl~~-~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (257)
|-++.+ +.+.|.+ .+++++..........|.+.+.++++..|.+........ ..|+.+.....+.++++
T Consensus 104 g~~~~~~l~~~g~~-~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~ 173 (264)
T cd06267 104 AYLAVEHLIELGHR-RIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVE---------GDFSEESGYEAARELLA 173 (264)
T ss_pred HHHHHHHHHHCCCc-eEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEe---------cccchhhHHHHHHHHHh
Confidence 444433 3445643 344444333334567788888888888775221111111 11334555667777777
Q ss_pred hc-CCCEEEee
Q 025126 136 NC-SIDLIITF 145 (257)
Q Consensus 136 ~~-~Pd~V~t~ 145 (257)
+. +||.|++.
T Consensus 174 ~~~~~~~i~~~ 184 (264)
T cd06267 174 SGERPTAIFAA 184 (264)
T ss_pred cCCCCcEEEEc
Confidence 65 38888876
No 151
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=35.23 E-value=2.7e+02 Score=23.40 Aligned_cols=98 Identities=11% Similarity=0.134 Sum_probs=51.2
Q ss_pred HHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025126 62 YLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (257)
.+.+.|++ .+++++.... ......|.+-+.++++..|++.. ...... .++.++..+.+.+++++. +|
T Consensus 106 ~l~~~g~~-~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~---~~~~~~-------~~~~~~~~~~~~~~l~~~~~~ 174 (265)
T cd06291 106 ELIERGCK-HIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVR---IIEIQE-------NFDDAEKKEEIKELLEEYPDI 174 (265)
T ss_pred HHHHcCCc-EEEEEccCcccccchHHHHHHHHHHHHHcCCCCC---hheeec-------cccchHHHHHHHHHHhCCCCC
Confidence 34456764 3444443222 23456788888888888887321 111111 122233456777777765 36
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEE
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWE 180 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye 180 (257)
+.|++.+ |- .+..+.+|+.+.+. ++++.+..
T Consensus 175 ~ai~~~~--------d~--~a~~~~~al~~~g~~vp~di~v~g 207 (265)
T cd06291 175 DGIFASN--------DL--TAILVLKEAQQRGIRVPEDLQIIG 207 (265)
T ss_pred CEEEECC--------hH--HHHHHHHHHHHcCCCCCcceEEec
Confidence 8888752 11 13345555654432 34555543
No 152
>PRK01215 competence damage-inducible protein A; Provisional
Probab=35.05 E-value=2.9e+02 Score=24.65 Aligned_cols=62 Identities=15% Similarity=0.297 Sum_probs=36.6
Q ss_pred HHHHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHH
Q 025126 88 KDELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRS 166 (257)
Q Consensus 88 ~~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A 166 (257)
..-+.+.++.+|+ ++.... .+| +.+.+.+.|.+... +.|+|+|. |+.+-...-.+.+++.++
T Consensus 25 ~~~l~~~L~~~G~---~v~~~~~v~D---------d~~~I~~~l~~a~~--~~DlVItt---GG~g~t~dD~t~eaia~~ 87 (264)
T PRK01215 25 ASWIARRLTYLGY---TVRRITVVMD---------DIEEIVSAFREAID--RADVVVST---GGLGPTYDDKTNEGFAKA 87 (264)
T ss_pred HHHHHHHHHHCCC---eEEEEEEeCC---------CHHHHHHHHHHHhc--CCCEEEEe---CCCcCChhhhHHHHHHHH
Confidence 3445666788998 333322 233 34667777777776 45999998 334444444455555554
No 153
>PRK14185 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.97 E-value=3.5e+02 Score=24.74 Aligned_cols=85 Identities=12% Similarity=0.128 Sum_probs=51.8
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 60 l~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
+.++.++ |.+..++.+.-|+.. ...-.|. -.++|+.+|+ ++....+|.. -+.+++.+.|.++-+.-
T Consensus 21 v~~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~ 88 (293)
T PRK14185 21 VAEIVAKGGKRPHLAAILVGHDGGSETYVAN--KVKACEECGF---KSSLIRYESD-------VTEEELLAKVRELNQDD 88 (293)
T ss_pred HHHHHhccCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 4444444 777777777777543 2223333 3578999999 5566666541 13467777777776666
Q ss_pred CCCEEEeeCCCCCCCCchHHH
Q 025126 138 SIDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (257)
+.|=|+.+-|.. .|.|-..
T Consensus 89 ~V~GIlvqlPLP--~~i~~~~ 107 (293)
T PRK14185 89 DVDGFIVQLPLP--KHISEQK 107 (293)
T ss_pred CCCeEEEecCCC--CCCCHHH
Confidence 677788774433 5666444
No 154
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=34.82 E-value=2.5e+02 Score=23.83 Aligned_cols=75 Identities=20% Similarity=0.142 Sum_probs=41.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cC
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~ 138 (257)
..++.+.|++ .+++++..........|.+.+.++++..|++...... +.+ .+ .+...+.+.+++++ -.
T Consensus 108 ~~~l~~~G~~-~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~--~~~-------~~-~~~~~~~~~~~l~~~~~ 176 (269)
T cd06281 108 VEYLISLGHR-RIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALV--RLS-------TP-AASGFDATRALLALPDR 176 (269)
T ss_pred HHHHHHCCCc-EEEEecCccccccHHHHHHHHHHHHHHcCCCCCHHHe--ecC-------cH-HHHHHHHHHHHHcCCCC
Confidence 3355567765 4555544333334567888899999888873211111 100 01 23344566677754 35
Q ss_pred CCEEEee
Q 025126 139 IDLIITF 145 (257)
Q Consensus 139 Pd~V~t~ 145 (257)
||.|++.
T Consensus 177 ~~ai~~~ 183 (269)
T cd06281 177 PTAIIAG 183 (269)
T ss_pred CcEEEEc
Confidence 8998876
No 155
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.77 E-value=3.5e+02 Score=24.56 Aligned_cols=84 Identities=17% Similarity=0.127 Sum_probs=51.0
Q ss_pred HHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 61 NYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 61 ~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
..+.++|.+..+..+--|+.. ...-.|. ..++|+.+|+ ++....+|.. ...+++.+.|.++-..-+.
T Consensus 24 ~~l~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~t~~el~~~I~~lN~D~~V 91 (284)
T PRK14193 24 AALKEKGITPGLGTVLVGDDPGSQAYVRG--KHRDCAEVGI---TSIRRDLPAD-------ATQEELNAVIDELNADPAC 91 (284)
T ss_pred HHHHhCCCCceEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCC
Confidence 344455777777777666543 2233333 3578999999 4555565531 2456777777777666667
Q ss_pred CEEEeeCCCCCCCCchHHH
Q 025126 140 DLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~ 158 (257)
+=|+.+-|.. .|.|-..
T Consensus 92 ~GIlvqlPlP--~~id~~~ 108 (284)
T PRK14193 92 TGYIVQLPLP--KHLDENA 108 (284)
T ss_pred CEEEEeCCCC--CCCCHHH
Confidence 7788774433 5666444
No 156
>PRK14497 putative molybdopterin biosynthesis protein MoeA/unknown domain fusion protein; Provisional
Probab=34.57 E-value=3.3e+02 Score=27.15 Aligned_cols=91 Identities=20% Similarity=0.246 Sum_probs=53.9
Q ss_pred HHHHHHHhCCC-cE------EEEEEeCCCC----CC---chHHH---HHHHHHHHHHcCCCCCcEEEccC-CCCCCCccc
Q 025126 58 PTINYLTSRRH-NL------HILCMSNGNA----DG---MGNIR---KDELHRACAVLKIPLEQVKVLDL-VDFQDGFDK 119 (257)
Q Consensus 58 gtl~~~~~~G~-~V------~vv~lT~G~~----~~---~~~~R---~~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~ 119 (257)
..|..|+..|. +| .+.++++|+. +. .++++ ..-+.+.++.+|+ ++..++. +|
T Consensus 161 ~~IglLas~Gi~~V~V~~rprV~IisTGdELv~pg~~l~~G~I~dsNs~~L~a~l~~~G~---~v~~~~iv~D------- 230 (546)
T PRK14497 161 EKIGLLASLGISSVKVYEKPKIYLIATGDELVEPGNSLSPGKIYESNLHYLYSKLKSEGY---KIVGLSLLSD------- 230 (546)
T ss_pred HHHHHHHhCCCCEEeeccCCEEEEEEcCCcccCCCCCCCCCcEEEhHHHHHHHHHHHCCC---EEEEEEEeCC-------
Confidence 45777888884 34 5778888863 11 23322 2234555788898 3444332 33
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.+.+.|.+.++ +.|+|+|. |+.+..++-.+.++..+
T Consensus 231 --d~e~i~~~l~~al~--~~DlVItt---GGtS~G~~D~~~~al~~ 269 (546)
T PRK14497 231 --DKESIKNEIKRAIS--VADVLILT---GGTSAGEKDFVHQAIRE 269 (546)
T ss_pred --CHHHHHHHHHHhhh--cCCEEEEc---CCccCCCCccHHHHHhh
Confidence 34566777777765 57999997 44555555555555554
No 157
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=34.38 E-value=2.8e+02 Score=23.34 Aligned_cols=47 Identities=26% Similarity=0.332 Sum_probs=28.1
Q ss_pred HHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 90 ELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+..+.|+..|++ +..++..+.. +.++.-+.+.+.+++.+||++++..
T Consensus 41 ~~~~~A~~~gip---~~~~~~~~~~-------~~~~~~~~~~~~l~~~~~D~iv~~~ 87 (190)
T TIGR00639 41 YGLERAAQAGIP---TFVLSLKDFP-------SREAFDQAIIEELRAHEVDLVVLAG 87 (190)
T ss_pred hHHHHHHHcCCC---EEEECccccC-------chhhhhHHHHHHHHhcCCCEEEEeC
Confidence 335567778983 4444443322 1122234567778888999988874
No 158
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=34.24 E-value=4.4e+02 Score=25.45 Aligned_cols=121 Identities=15% Similarity=0.104 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHhhccCcc--cccccc--c--CCCCCcEEEEecCchhhhcchHHHHHHHHhC--CCcEEEEEEeCCCCCC
Q 025126 11 IVVWVASLFKILNSSRSQ--SNAAFL--T--TGDKKNVLLVIAHPDDESMFFSPTINYLTSR--RHNLHILCMSNGNADG 82 (257)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~--~~~~~~--~--~~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~--G~~V~vv~lT~G~~~~ 82 (257)
.+.+.++++|-+....+. -+++|. + ..+.+..+-+.|=-==|++..-+.|.++.+. +.++.+-++|.-.
T Consensus 14 p~~~~~l~~R~~~~~~y~~r~~eRfg~~~~~~~~~~p~vWiHaaSVGEv~a~~pLv~~l~~~~P~~~ilvTt~T~Tg--- 90 (419)
T COG1519 14 PFIAPRLLYRSFKGPKYRKRLGERFGFYKPPVKPEGPLVWIHAASVGEVLAALPLVRALRERFPDLRILVTTMTPTG--- 90 (419)
T ss_pred HHHHHHHHHHhhcChHHHHHHHHHhcccCCCCCCCCCeEEEEecchhHHHHHHHHHHHHHHhCCCCCEEEEecCccH---
Confidence 335556666655444331 123332 2 3445567777777778999999999999987 8888877777532
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHH
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVH 160 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~ 160 (257)
. +.+.+.+|=. ..+.++.+. ..-.+.++++..+|++++.. ....-|+.+...
T Consensus 91 --~------e~a~~~~~~~-v~h~YlP~D--------------~~~~v~rFl~~~~P~l~Ii~---EtElWPnli~e~ 142 (419)
T COG1519 91 --A------ERAAALFGDS-VIHQYLPLD--------------LPIAVRRFLRKWRPKLLIIM---ETELWPNLINEL 142 (419)
T ss_pred --H------HHHHHHcCCC-eEEEecCcC--------------chHHHHHHHHhcCCCEEEEE---eccccHHHHHHH
Confidence 2 2355667631 123344431 12456888999999998877 234666665543
No 159
>cd03825 GT1_wcfI_like This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis.
Probab=34.07 E-value=1.2e+02 Score=26.60 Aligned_cols=34 Identities=12% Similarity=0.021 Sum_probs=20.7
Q ss_pred CcEEEEecCchhhhcchHH-------HHHHHHhCCCcEEEEEEeCC
Q 025126 40 KNVLLVIAHPDDESMFFSP-------TINYLTSRRHNLHILCMSNG 78 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Gg-------tl~~~~~~G~~V~vv~lT~G 78 (257)
++||++...+ +.|| +...+.+.|++|.+++.+..
T Consensus 1 MkIl~~~~~~-----~~gG~~~~~~~l~~~l~~~G~~v~v~~~~~~ 41 (365)
T cd03825 1 MKVLHLNTSD-----ISGGAARAAYRLHRALQAAGVDSTMLVQEKK 41 (365)
T ss_pred CeEEEEecCC-----CCCcHHHHHHHHHHHHHhcCCceeEEEeecc
Confidence 3677776542 2233 23344568999998887654
No 160
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=34.04 E-value=3.5e+02 Score=25.34 Aligned_cols=79 Identities=13% Similarity=0.120 Sum_probs=49.4
Q ss_pred CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 67 RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 67 G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
|....+..+--|+.. ...-.|.+ .++|+.+|+ ++....+|.. ...+++.+.|.++-+.-+.+=|+.+
T Consensus 84 g~~P~LaiIlvGddpaS~~Yv~~k--~K~a~~~GI---~~~~~~l~~~-------~te~ell~~I~~lN~D~~V~GIlVQ 151 (345)
T PLN02897 84 GKVPGLAVVLVGQQRDSQTYVRNK--IKACEETGI---KSLLAELPED-------CTEGQILSALRKFNEDTSIHGILVQ 151 (345)
T ss_pred CCCCeEEEEEeCCChHHHHHHHHH--HHHHHhcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 766667666666543 33444443 589999999 5566666541 2456777777777666666778888
Q ss_pred CCCCCCCCchHHHH
Q 025126 146 DNYGVSGHCNHRDV 159 (257)
Q Consensus 146 d~~g~d~H~DH~~~ 159 (257)
-|.. .|.|-..+
T Consensus 152 lPLP--~hid~~~i 163 (345)
T PLN02897 152 LPLP--QHLDESKI 163 (345)
T ss_pred CCCC--CCCCHHHH
Confidence 4433 56665443
No 161
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=33.87 E-value=3e+02 Score=25.36 Aligned_cols=65 Identities=18% Similarity=0.297 Sum_probs=32.6
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEeeCCC
Q 025126 71 HILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDNY 148 (257)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~~ 148 (257)
.++.+|.|. =.+++.++++.+-...+++..+++.... +.+++.+.+.+.+++++. ++++..|-.
T Consensus 4 ~IIiasHG~-------~A~gl~~s~emI~G~~~~v~~v~~~~~~-------~~~~~~~~l~~~i~~~~~~d~vlILtDl~ 69 (322)
T PRK15088 4 AIIIGTHGW-------AAEQLLKTAEMLLGEQENVAWIDFVPGE-------NAETLIEKYNAQLAKLDTSKGVLFLVDTW 69 (322)
T ss_pred eEEEEeCHH-------HHHHHHHHHHHhcCCCCCeEEEEccCCC-------CHHHHHHHHHHHHHhcCCCCCEEEEEeCC
Confidence 455556552 2345555555542233556666653211 335555666666665532 255555555
Q ss_pred C
Q 025126 149 G 149 (257)
Q Consensus 149 g 149 (257)
|
T Consensus 70 G 70 (322)
T PRK15088 70 G 70 (322)
T ss_pred C
Confidence 5
No 162
>COG0303 MoeA Molybdopterin biosynthesis enzyme [Coenzyme metabolism]
Probab=33.66 E-value=3.8e+02 Score=25.58 Aligned_cols=92 Identities=23% Similarity=0.222 Sum_probs=58.9
Q ss_pred HHHHHHHhCCC-------cEEEEEEeCCCCC-------CchHH---HHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 58 PTINYLTSRRH-------NLHILCMSNGNAD-------GMGNI---RKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 58 gtl~~~~~~G~-------~V~vv~lT~G~~~-------~~~~~---R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
..|.-+++.|. +..+-++++|+.- ..+++ -.-=+.+.++.+|. +...++.- +|
T Consensus 158 ~~i~llas~Gi~~V~V~rkprV~IisTGdELv~~~~~l~~gqI~dsN~~~l~a~l~~~G~---e~~~~giv--~D----- 227 (404)
T COG0303 158 AEIALLASLGIAEVKVYRKPRVAIISTGDELVEPGQPLEPGQIYDSNSYMLAALLERAGG---EVVDLGIV--PD----- 227 (404)
T ss_pred HHHHHHHhCCCceEEEecCCEEEEEecCccccCCCCCCCCCeEEecCHHHHHHHHHHcCC---ceeecccc--CC-----
Confidence 45667777773 3557788899741 11222 22346677888998 45555542 11
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+++.+.+++..++ .|+|+|. |+....|+-.+..+..+
T Consensus 228 -d~~~l~~~i~~a~~~--~DviIts---GG~SvG~~D~v~~~l~~ 266 (404)
T COG0303 228 -DPEALREAIEKALSE--ADVIITS---GGVSVGDADYVKAALER 266 (404)
T ss_pred -CHHHHHHHHHHhhhc--CCEEEEe---CCccCcchHhHHHHHHh
Confidence 456777778887776 7999998 55667777666666663
No 163
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=33.41 E-value=2.9e+02 Score=23.18 Aligned_cols=74 Identities=15% Similarity=0.051 Sum_probs=42.3
Q ss_pred HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCE
Q 025126 63 LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDL 141 (257)
Q Consensus 63 ~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~ 141 (257)
+.++|.+ .+++++..........|.+...++++..|++........ ..|+.++....+.+++++. +||.
T Consensus 111 l~~~g~~-~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~a 180 (269)
T cd06288 111 LLAAGHR-RIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVH---------GDWSADDGYEAAAALLDLDDRPTA 180 (269)
T ss_pred HHHcCCc-eEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEe---------CCCChHHHHHHHHHHHhCCCCCCE
Confidence 4456654 455554333223456788889999998886321111111 1133344556677777664 5899
Q ss_pred EEeeC
Q 025126 142 IITFD 146 (257)
Q Consensus 142 V~t~d 146 (257)
|++.+
T Consensus 181 i~~~~ 185 (269)
T cd06288 181 IFCGN 185 (269)
T ss_pred EEEeC
Confidence 98883
No 164
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=32.46 E-value=3.9e+02 Score=24.38 Aligned_cols=86 Identities=12% Similarity=0.144 Sum_probs=51.7
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 60 l~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
+.++.++ |....++.+--|+.. ...-.|. -.++|+.+|+ ++....+|.. -+.+++.+.|.++-..-
T Consensus 21 v~~l~~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~ 88 (295)
T PRK14174 21 VEAYRAKTGKVPGLTVIIVGEDPASQVYVRN--KAKSCKEIGM---NSTVIELPAD-------TTEEHLLKKIEDLNNDP 88 (295)
T ss_pred HHHHHHccCCCCeEEEEEeCCChHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 666666666666543 3333343 3578999999 5566666541 14567777777776666
Q ss_pred CCCEEEeeCCCCCCCCchHHHH
Q 025126 138 SIDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
+.+=|+.+-|-. .|.|-..+
T Consensus 89 ~V~GIlvq~Plp--~~id~~~i 108 (295)
T PRK14174 89 DVHGILVQQPLP--KQIDEFAV 108 (295)
T ss_pred CCCEEEEeCCCC--CCCCHHHH
Confidence 667788884443 57665543
No 165
>COG2957 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]
Probab=32.46 E-value=3.1e+02 Score=25.47 Aligned_cols=79 Identities=11% Similarity=0.023 Sum_probs=49.0
Q ss_pred HHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHcc--
Q 025126 93 RACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNG-- 170 (257)
Q Consensus 93 ~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~-- 170 (257)
.-++.||+ +++++|++-=..|. .+.=++.+++++ .|+.|.+. +..|-.--|-+...+..+-+.+.
T Consensus 190 ~L~e~Lg~--kkvlWL~~Gl~~D~------TDgHiDtlarFv---~p~~iv~~--~~dde~Dp~y~~~q~~~~~L~~~~d 256 (346)
T COG2957 190 KLKEYLGA--KKVLWLEYGLKNDD------TDGHIDTLARFV---APGEIVLS--WCDDENDPHYAALQAMLEELKELRD 256 (346)
T ss_pred HHHHHhCc--cEEEEccCCCcCCc------ccchhhhhhhhc---CCCeEEEE--ecCCCCChhHHHHHHHHHHHHhccc
Confidence 34788999 88999987422222 223356667776 68988888 66666666666666666534322
Q ss_pred CCCCccEEEEecch
Q 025126 171 TSERNIEAWELMTT 184 (257)
Q Consensus 171 ~~~~~~~~ye~~s~ 184 (257)
.+.+...+++++.+
T Consensus 257 ~~G~~~~l~~Lp~P 270 (346)
T COG2957 257 AKGRPLKLHKLPIP 270 (346)
T ss_pred cCCCeeEEEEcCCC
Confidence 23445666777643
No 166
>PRK06128 oxidoreductase; Provisional
Probab=32.15 E-value=3.5e+02 Score=23.78 Aligned_cols=85 Identities=11% Similarity=0.139 Sum_probs=42.5
Q ss_pred CCcEEEEecCchhhhcchHHHH-HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025126 39 KKNVLLVIAHPDDESMFFSPTI-NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l~~Ggtl-~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (257)
++++|+.++= =|.|-.+ .++.++|.+|.+...... ..+.++..+.++..|. ++.++. -|..
T Consensus 55 ~k~vlITGas-----~gIG~~~a~~l~~~G~~V~i~~~~~~------~~~~~~~~~~~~~~~~---~~~~~~-~Dl~--- 116 (300)
T PRK06128 55 GRKALITGAD-----SGIGRATAIAFAREGADIALNYLPEE------EQDAAEVVQLIQAEGR---KAVALP-GDLK--- 116 (300)
T ss_pred CCEEEEecCC-----CcHHHHHHHHHHHcCCEEEEEeCCcc------hHHHHHHHHHHHHcCC---eEEEEe-cCCC---
Confidence 4678887762 2344444 445678998765443221 1223334444444554 233322 1221
Q ss_pred cccCChHHHHHHHHHHHHhc-CCCEEEee
Q 025126 118 DKLWNHKSLAKIVEEEVVNC-SIDLIITF 145 (257)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~ 145 (257)
+.+.+.+.+.++.+++ ++|+++--
T Consensus 117 ----~~~~v~~~~~~~~~~~g~iD~lV~n 141 (300)
T PRK06128 117 ----DEAFCRQLVERAVKELGGLDILVNI 141 (300)
T ss_pred ----CHHHHHHHHHHHHHHhCCCCEEEEC
Confidence 3345555555555554 68887754
No 167
>cd06418 GH25_BacA-like BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of Bacillus subtilis. BacA has a C-terminal catalytic glycosyl hydrolase family 25 (GH25) domain and an N-terminal peptidoglycan-binding domain comprised of three alpha helices which is similar to a domain found in matrixins.
Probab=32.01 E-value=3.1e+02 Score=23.60 Aligned_cols=55 Identities=11% Similarity=0.088 Sum_probs=37.3
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCC-----CchHHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025126 58 PTINYLTSRRHNLHILCMSNGNAD-----GMGNIRKDELHRACAVLKIPLEQVKVLDLVD 112 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~~~-----~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (257)
+=+..+.+.|.++..|+...+... ..+..=-++..++++.||+|+...++++..+
T Consensus 56 ~e~~~i~~~Gl~~~pIyq~~~~~~~~~~~~~G~~dA~~A~~~A~~lG~p~gs~IYfavD~ 115 (212)
T cd06418 56 TELETITAAGLKVFPIYQGGGYSLDYFGYEQGVKDARDAVAAARALGFPPGTIIYFAVDF 115 (212)
T ss_pred HHHHHHHHCCCEEEEEEECCCccccccCHHHHHHHHHHHHHHHHHcCCCCCCEEEEEeec
Confidence 346666777888877777654432 2345555667788889999987888877543
No 168
>cd03811 GT1_WabH_like This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core.
Probab=32.00 E-value=3e+02 Score=23.30 Aligned_cols=21 Identities=10% Similarity=-0.007 Sum_probs=17.2
Q ss_pred HHHHHHHHHHhcCCCEEEeeC
Q 025126 126 LAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (257)
....+.+.+++.+||+|+++.
T Consensus 69 ~~~~~~~~~~~~~~dii~~~~ 89 (353)
T cd03811 69 AILRLRRLLRKEKPDVVISHL 89 (353)
T ss_pred HHHHHHHHHHhcCCCEEEEcC
Confidence 346778888889999999985
No 169
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.96 E-value=4e+02 Score=24.39 Aligned_cols=85 Identities=13% Similarity=0.037 Sum_probs=49.3
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+.++.++|.+..+..+--|+.. ...-.|. -.++|+.+|+ +.....+|.. -+.+++.+.|.++-..-+
T Consensus 24 i~~l~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~t~~~l~~~I~~lN~D~~ 91 (301)
T PRK14194 24 VRTLKAAGIEPALAVILVGNDPASQVYVRN--KILRAEEAGI---RSLEHRLPAD-------TSQARLLALIAELNADPS 91 (301)
T ss_pred HHHHHhCCCCCeEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 3444455777777666666543 2233333 3578899999 4555555541 144567666766666556
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.|=|+.+-|.. .|.|-..
T Consensus 92 V~GIlvqlPLP--~~i~~~~ 109 (301)
T PRK14194 92 VNGILLQLPLP--AHIDEAR 109 (301)
T ss_pred CCeEEEeCCCC--CCCCHHH
Confidence 66677774433 4555544
No 170
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include Escherichia coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative
Probab=31.95 E-value=70 Score=26.59 Aligned_cols=26 Identities=15% Similarity=0.236 Sum_probs=22.5
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
++.++...+.+.+++.+||++++|+-
T Consensus 62 ~E~~lL~~f~~~i~~~dpdiivg~N~ 87 (199)
T cd05160 62 DEKELLKRFFDIIREYDPDILTGYNI 87 (199)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEecc
Confidence 45688899999999999999999953
No 171
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.89 E-value=3.2e+02 Score=23.12 Aligned_cols=78 Identities=8% Similarity=-0.037 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHH
Q 025126 84 GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGI 163 (257)
Q Consensus 84 ~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av 163 (257)
...|.+...++++..|++......... .++.+...+.+.+++++. |+.|++.+ . ..+..+
T Consensus 137 ~~~R~~gf~~~~~~~~~~~~~~~i~~~---------~~~~~~~~~~~~~~l~~~-~~ai~~~~--d--------~~a~g~ 196 (273)
T cd06292 137 RRRKIAGFRAALEEAGLEPPEALVARG---------MFSVEGGQAAAVELLGSG-PTAIVAAS--D--------LMALGA 196 (273)
T ss_pred HHHHHHHHHHHHHHcCCCCChhheEeC---------CCCHHHHHHHHHHHhcCC-CCEEEEcC--c--------HHHHHH
Confidence 456778888888888863222111110 112233334455566554 99988873 2 233445
Q ss_pred HHHHHccCC--CCccEEEEe
Q 025126 164 CRSYLNGTS--ERNIEAWEL 181 (257)
Q Consensus 164 ~~A~~~~~~--~~~~~~ye~ 181 (257)
..|+.+.+. ++++.+...
T Consensus 197 ~~~l~~~g~~ip~di~ii~~ 216 (273)
T cd06292 197 IRAARRRGLRVPEDVSVVGY 216 (273)
T ss_pred HHHHHHcCCCCCcceEEEee
Confidence 565654432 355555543
No 172
>PRK14184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.74 E-value=4e+02 Score=24.25 Aligned_cols=86 Identities=17% Similarity=0.149 Sum_probs=51.6
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 60 l~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
+..+.++ |....+..+--|+.. ...-.|. -.++|+.+|+ ++....+|.. .+.+++.+.|.++-+.-
T Consensus 21 v~~l~~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~d~ 88 (286)
T PRK14184 21 VAALTARHGRAPGLAVILVGEDPASQVYVRN--KERACEDAGI---VSEAFRLPAD-------TTQEELEDLIAELNARP 88 (286)
T ss_pred HHHHHhccCCCCEEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 666667666666543 3333343 3579999999 5556666541 24567777777776666
Q ss_pred CCCEEEeeCCCCCCCCchHHHH
Q 025126 138 SIDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
+.+=|+.+-|.. .|.|-..+
T Consensus 89 ~V~GIlvqlPLP--~~id~~~i 108 (286)
T PRK14184 89 DIDGILLQLPLP--KGLDSQRC 108 (286)
T ss_pred cCceEEEecCCC--CCCCHHHH
Confidence 667678774443 56665443
No 173
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=31.63 E-value=1.3e+02 Score=25.53 Aligned_cols=97 Identities=14% Similarity=0.183 Sum_probs=53.3
Q ss_pred CCcEEEEecCchh-hhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCC------cEEEccC
Q 025126 39 KKNVLLVIAHPDD-ESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLE------QVKVLDL 110 (257)
Q Consensus 39 ~~~vL~i~aHPDD-E~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~------~~~~l~~ 110 (257)
..++++|..-|.= =+.+|--.+...+++ |.+|..+++.. ..+++.+-++.+|.+.+ ++.+.+.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee---------~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~ 88 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEE---------PPEELIENMKSFGWDLEEYEDSGKLKIIDA 88 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS----------HHHHHHHHHTTTS-HHHHHHTTSEEEEES
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecC---------CHHHHHHHHHHcCCcHHHHhhcCCEEEEec
Confidence 3455666655543 222333334444566 88876666533 23566667777887432 3556654
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
.....+.. .-+.+.+...|.+.+++.+|+.|+.=
T Consensus 89 ~~~~~~~~-~~~~~~l~~~i~~~i~~~~~~~vVID 122 (226)
T PF06745_consen 89 FPERIGWS-PNDLEELLSKIREAIEELKPDRVVID 122 (226)
T ss_dssp SGGGST-T-SCCHHHHHHHHHHHHHHHTSSEEEEE
T ss_pred cccccccc-ccCHHHHHHHHHHHHHhcCCCEEEEE
Confidence 32211100 12567888999999999999876643
No 174
>cd00006 PTS_IIA_man PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Probab=31.53 E-value=2.4e+02 Score=21.60 Aligned_cols=66 Identities=17% Similarity=0.222 Sum_probs=43.1
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC--CCEEEeeCC
Q 025126 71 HILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS--IDLIITFDN 147 (257)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~--Pd~V~t~d~ 147 (257)
.++.+|.| .-.+++.++++.+ |- .+++..++.+... +.++..+++.+.+++.+ -.+++..|-
T Consensus 2 ~ili~sHG-------~~A~gi~~~~~~i~G~-~~~i~~~~~~~~~-------~~~~~~~~i~~~i~~~~~~~~viil~Dl 66 (122)
T cd00006 2 GIIIATHG-------GFASGLLNSAEMILGE-QENVEAIDFPPGE-------SPDDLLEKIKAALAELDSGEGVLILTDL 66 (122)
T ss_pred eEEEEcCH-------HHHHHHHHHHHHhcCC-CCCeEEEEeCCCC-------CHHHHHHHHHHHHHHhCCCCcEEEEEeC
Confidence 35666665 3456777888776 54 3578888875421 34677788888888864 347778876
Q ss_pred CCCC
Q 025126 148 YGVS 151 (257)
Q Consensus 148 ~g~d 151 (257)
.|++
T Consensus 67 ~GGS 70 (122)
T cd00006 67 FGGS 70 (122)
T ss_pred CCCC
Confidence 6643
No 175
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=31.47 E-value=3.1e+02 Score=27.46 Aligned_cols=92 Identities=15% Similarity=0.114 Sum_probs=53.3
Q ss_pred HHHHHHHHhCCC-------cEEEEEEeCCCC----C---CchHH---HHHHHHHHHHHcCCCCCcEEEcc-CCCCCCCcc
Q 025126 57 SPTINYLTSRRH-------NLHILCMSNGNA----D---GMGNI---RKDELHRACAVLKIPLEQVKVLD-LVDFQDGFD 118 (257)
Q Consensus 57 Ggtl~~~~~~G~-------~V~vv~lT~G~~----~---~~~~~---R~~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~ 118 (257)
.+.|..++..|. +..+.+++.|+. + ..+++ -..=+.+.++.+|+ ++...+ .+|
T Consensus 167 p~~i~~las~g~~~v~v~~~prv~vi~tG~El~~~~~~~~~g~i~dsn~~~l~~~l~~~g~---~~~~~~~v~D------ 237 (633)
T PRK14498 167 PRDIGALAAGGVAEVPVYKKPRVGIISTGDELVEPGEPLKPGKIYDVNSYTLAAAVEEAGG---EPVRYGIVPD------ 237 (633)
T ss_pred HHHHHHHHHCCCCEEEEecCcEEEEEecCccccCCCCCCCCCEEEEChHHHHHHHHHHCCC---EEEEEEEeCC------
Confidence 356778888883 235667778864 1 11221 12234555778898 344333 233
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.+.+.|.+.++ +.|+|+|. |+.+..++-.+.+++..
T Consensus 238 ---d~~~i~~~l~~~~~--~~D~iItt---GG~s~g~~D~~~~~l~~ 276 (633)
T PRK14498 238 ---DEEELEAALRKALK--ECDLVLLS---GGTSAGAGDVTYRVIEE 276 (633)
T ss_pred ---CHHHHHHHHHHHHh--cCCEEEEC---CCCcCCCcccHHHHHHh
Confidence 34567777777765 68999998 44455555555555543
No 176
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain II found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=31.41 E-value=1.4e+02 Score=22.08 Aligned_cols=55 Identities=20% Similarity=0.036 Sum_probs=31.9
Q ss_pred HHHHHHcCCCCCcEEEccC-CCCCCCc-cccCChHHHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 92 HRACAVLKIPLEQVKVLDL-VDFQDGF-DKLWNHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 92 ~~A~~~LGv~~~~~~~l~~-~d~~dg~-~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
...++.||+ +...++. +|..-+. ...-+.++....+.+.+++.+.|+.+.+|+.+
T Consensus 38 ~~ll~~lg~---~~~~~n~~~d~~f~~~~~p~p~~~~l~~~~~~v~~~~ad~g~~~DgDa 94 (104)
T PF02879_consen 38 PRLLERLGC---DVIELNCDPDPDFPNQHAPNPEEESLQRLIKIVRESGADLGIAFDGDA 94 (104)
T ss_dssp HHHHHHTTC---EEEEESSS-STTGTTTSTSSTSTTTTHHHHHHHHHSTTSEEEEE-TTS
T ss_pred HHHHHHcCC---cEEEEecccccccccccccccccchhHHHHHHhhccCceEEEEECCcC
Confidence 456777998 3444443 4321111 01112224567888889999999999998654
No 177
>PRK14168 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=31.26 E-value=4e+02 Score=24.38 Aligned_cols=84 Identities=11% Similarity=0.048 Sum_probs=50.4
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
..+.++ |....++.+--|+.. ...-.|. ..++|+.+|+ ++....+|. ..+.+++.+.|.++-..-+
T Consensus 24 ~~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~-------~~t~~el~~~I~~lN~D~~ 91 (297)
T PRK14168 24 AELKEKYGKVPGLVTILVGESPASLSYVTL--KIKTAHRLGF---HEIQDNQSV-------DITEEELLALIDKYNNDDS 91 (297)
T ss_pred HHHHHcCCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCC-------CCCHHHHHHHHHHHhCCCC
Confidence 334444 666667666666543 2233333 3578999999 455666653 1245677777777766666
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 92 V~GIivqlPlP--~~i~~~~ 109 (297)
T PRK14168 92 IHGILVQLPLP--KHINEKK 109 (297)
T ss_pred CCEEEEeCCCC--CCCCHHH
Confidence 77778774433 5666444
No 178
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=31.10 E-value=3.2e+02 Score=24.03 Aligned_cols=74 Identities=14% Similarity=0.108 Sum_probs=40.8
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025126 57 SPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (257)
Q Consensus 57 Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (257)
-.....+.+.|++= +.++.. ....+..|.+.+.++++..|++ -+....++.. ..+....+.++.+
T Consensus 125 ~~~~~~l~~~g~~~-v~~l~~--~~~~~~~~~~~~~~~~~~~G~~--~~~~~~~~~~---------~~d~~~~~~~l~~- 189 (336)
T cd06326 125 AAIVRHLVTLGLKR-IAVFYQ--DDAFGKDGLAGVEKALAARGLK--PVATASYERN---------TADVAAAVAQLAA- 189 (336)
T ss_pred HHHHHHHHHhCCce-EEEEEe--cCcchHHHHHHHHHHHHHcCCC--eEEEEeecCC---------cccHHHHHHHHHh-
Confidence 44555556677652 233322 1235678999999999999983 1222223211 1122233444433
Q ss_pred cCCCEEEee
Q 025126 137 CSIDLIITF 145 (257)
Q Consensus 137 ~~Pd~V~t~ 145 (257)
.+||.|++.
T Consensus 190 ~~~dav~~~ 198 (336)
T cd06326 190 ARPQAVIMV 198 (336)
T ss_pred cCCCEEEEE
Confidence 479999987
No 179
>PRK00654 glgA glycogen synthase; Provisional
Probab=31.09 E-value=95 Score=29.65 Aligned_cols=35 Identities=14% Similarity=0.158 Sum_probs=20.2
Q ss_pred cEEEEecCchhh------hcchHHHHHHHHhCCCcEEEEEE
Q 025126 41 NVLLVIAHPDDE------SMFFSPTINYLTSRRHNLHILCM 75 (257)
Q Consensus 41 ~vL~i~aHPDDE------~l~~Ggtl~~~~~~G~~V~vv~l 75 (257)
+|++|+.+-.=- .-.++..-..|++.|++|.|++-
T Consensus 2 ~i~~vs~e~~P~~k~GGl~~~v~~L~~~L~~~G~~V~v~~p 42 (466)
T PRK00654 2 KILFVASECAPLIKTGGLGDVVGALPKALAALGHDVRVLLP 42 (466)
T ss_pred eEEEEEcccccCcccCcHHHHHHHHHHHHHHCCCcEEEEec
Confidence 567776662111 11134445556678999988874
No 180
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.94 E-value=4.1e+02 Score=24.14 Aligned_cols=86 Identities=16% Similarity=0.095 Sum_probs=51.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+.++.++|....+..+--|+.. ...-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-..-+
T Consensus 23 i~~l~~~g~~p~Laii~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~d~~ 90 (285)
T PRK14189 23 AAALTARGHQPGLAVILVGDNPASQVYVRN--KVKACEDNGF---HSLKDRYPAD-------LSEAELLARIDELNRDPK 90 (285)
T ss_pred HHHHHhCCCCCeEEEEEeCCCchHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 3444455777777666666543 2333333 3578999999 5566666531 245677777777666556
Q ss_pred CCEEEeeCCCCCCCCchHHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
.|=|+.+-|.+ .|.|-..+
T Consensus 91 V~GIlvq~Plp--~~i~~~~i 109 (285)
T PRK14189 91 IHGILVQLPLP--KHIDSHKV 109 (285)
T ss_pred CCeEEEeCCCC--CCCCHHHH
Confidence 66688874443 56665543
No 181
>PRK14740 kdbF potassium-transporting ATPase subunit F; Provisional
Probab=30.93 E-value=1e+02 Score=18.09 Aligned_cols=24 Identities=21% Similarity=0.235 Sum_probs=14.0
Q ss_pred CchHHHHHHHH--HHHHHHHHHHhhc
Q 025126 1 MSWLLVIVSTI--VVWVASLFKILNS 24 (257)
Q Consensus 1 ~~~~~~~~~~~--~~~~~~~~~~~~~ 24 (257)
|+|..-+-|.. .+++|+++-++-+
T Consensus 1 M~~~~wls~a~a~~Lf~YLv~ALlRa 26 (29)
T PRK14740 1 MTVLDWLSLALATGLFVYLLVALLRA 26 (29)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 78855554443 3777776665433
No 182
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=30.79 E-value=3.3e+02 Score=23.03 Aligned_cols=101 Identities=15% Similarity=0.187 Sum_probs=53.7
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (257)
.+.+.|++ .+++++..+ ......|.+...++++..|+.........+.. . +..+...+.+.+++.+ -.||
T Consensus 115 ~l~~~G~~-~i~~l~~~~-~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~------~-~~~~~~~~~~~~~l~~~~~~~ 185 (273)
T cd01541 115 YLIELGHR-KIAGIFKAD-DLQGVKRMKGFIKAYREHGIPFNPSNVITYTT------E-EKEEKLFEKIKEILKRPERPT 185 (273)
T ss_pred HHHHcCCc-CEEEecCCC-cccHHHHHHHHHHHHHHcCCCCChHHEEeccc------c-chhhHHHHHHHHHHcCCCCCC
Confidence 44556653 333443322 23456788889999998887321111111110 0 1123455667777765 3589
Q ss_pred EEEeeCCCCCCCCchHHHHHHHHHHHHHccC--CCCccEEEEe
Q 025126 141 LIITFDNYGVSGHCNHRDVHHGICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~--~~~~~~~ye~ 181 (257)
.|++.+. ..+..+.+|+.+.+ .++++.++..
T Consensus 186 av~~~~d----------~~a~g~~~al~~~g~~~p~dv~vvg~ 218 (273)
T cd01541 186 AIVCYND----------EIALRVIDLLKELGLKIPEDISVVGF 218 (273)
T ss_pred EEEEcCc----------HHHHHHHHHHHHcCCCCCCcEEEEEc
Confidence 9998831 23445556565544 3356665543
No 183
>PRK14182 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.58 E-value=4.1e+02 Score=24.09 Aligned_cols=85 Identities=13% Similarity=0.150 Sum_probs=50.0
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+..+.++|....+..+.-|+.. ...-.|.+ .++|+.+|+ ++....+|.. -+.+++.+.|.++-..-+
T Consensus 21 v~~l~~~g~~P~LaiI~vg~d~as~~Yv~~k--~k~a~~~Gi---~~~~~~l~~~-------~t~~~l~~~I~~lN~d~~ 88 (282)
T PRK14182 21 VRALAARGVQTGLTVVRVGDDPASAIYVRGK--RKDCEEVGI---TSVEHHLPAT-------TTQAELLALIARLNADPA 88 (282)
T ss_pred HHHHHhCCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 3445556766666666666543 23333333 578999999 4556666541 144566666666666656
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|-. .|.|-..
T Consensus 89 V~GIivqlPLp--~~i~~~~ 106 (282)
T PRK14182 89 VHGILVQLPLP--KHVDERA 106 (282)
T ss_pred CCEEEEeCCCC--CCCCHHH
Confidence 67778774433 4555433
No 184
>TIGR02470 sucr_synth sucrose synthase. This model represents sucrose synthase, an enzyme that, despite its name, generally uses rather produces sucrose. Sucrose plus UDP (or ADP) becomes D-fructose plus UDP-glucose (or ADP-glucose), which is then available for cell wall (or starch) biosynthesis. The enzyme is homologous to sucrose phosphate synthase, which catalyzes the penultimate step in sucrose synthesis. Sucrose synthase is found, so far, exclusively in plants and cyanobacteria.
Probab=30.44 E-value=71 Score=33.28 Aligned_cols=44 Identities=11% Similarity=0.083 Sum_probs=28.8
Q ss_pred CCCCCcEEEEecCc----hhhhcc---hHHHH------H---------HHHhCCCcE--EEEEEeCCCC
Q 025126 36 TGDKKNVLLVIAHP----DDESMF---FSPTI------N---------YLTSRRHNL--HILCMSNGNA 80 (257)
Q Consensus 36 ~~~~~~vL~i~aHP----DDE~l~---~Ggtl------~---------~~~~~G~~V--~vv~lT~G~~ 80 (257)
.....+|++|++|- .+ ++| .||-. + +++++|++| .|.++|....
T Consensus 252 ~p~~~rIa~lS~Hg~~~~~~-~lG~~DtGGq~vYV~elaraL~~~~~~~La~~G~~v~~~V~I~TR~~~ 319 (784)
T TIGR02470 252 IPMVFNVVILSPHGYFGQEN-VLGLPDTGGQVVYILDQVRALENEMLQRIKLQGLEITPKILIVTRLIP 319 (784)
T ss_pred CCccceEEEEecccccCCcc-ccCCCCCCCceeHHHHHHHHHHHHHHHHHHhcCCCccceEEEEecCCC
Confidence 35668999999997 44 454 45542 1 245788854 4677777654
No 185
>TIGR00355 purH phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase. Involved in purine ribonucleotide biosynthesis. The IMP cyclohydrolase activity is in the N-terminal region.
Probab=30.38 E-value=80 Score=31.14 Aligned_cols=62 Identities=18% Similarity=0.120 Sum_probs=44.2
Q ss_pred hhcchHHHHHHHHhCCCcEEEEEEeCCCCC---------------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025126 52 ESMFFSPTINYLTSRRHNLHILCMSNGNAD---------------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (257)
Q Consensus 52 E~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~---------------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (257)
+.++-|||-..|.+.|.+|..|.=-+|-++ |+-..|..|..+.++..|+.+-++.+.++-.+
T Consensus 26 eIiATgGTak~L~e~GI~v~~Vsk~TgfPEil~GRVKTLHP~IhgGiLarr~~~~~~~l~~~~I~~IDlVvvNLYPF 102 (511)
T TIGR00355 26 ELLSTGGTAKLLAEAGVPVTEVSDYTGFPEMMDGRVKTLHPKVHGGILARRGDDDDADLEEHGIEPIDLVVVNLYPF 102 (511)
T ss_pred EEEEechHHHHHHHCCCeEEEeecccCCchhhCCccccCCchhhhhhhcCCCchHHHHHHHcCCCceeEEEEeccCh
Confidence 456779999999999998887766666542 23334544448889999998878888885333
No 186
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=30.26 E-value=1.5e+02 Score=23.43 Aligned_cols=60 Identities=18% Similarity=0.210 Sum_probs=34.8
Q ss_pred HHHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 89 DELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 89 ~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
.-+.+.++.+|+ ++.... .|| +.+.+.+.+.+.+++. |+|+|. .| .+..+.-.+.+++.+
T Consensus 20 ~~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~~~--D~Vitt--GG-~g~~~~D~t~~a~~~ 80 (144)
T PF00994_consen 20 PFLAALLEELGI---EVIRYGIVPD---------DPDAIKEALRRALDRA--DLVITT--GG-TGPGPDDVTPEALAE 80 (144)
T ss_dssp HHHHHHHHHTTE---EEEEEEEEES---------SHHHHHHHHHHHHHTT--SEEEEE--SS-SSSSTTCHHHHHHHH
T ss_pred HHHHHHHHHcCC---eeeEEEEECC---------CHHHHHHHHHhhhccC--CEEEEc--CC-cCcccCCcccHHHHH
Confidence 344556667888 333322 222 4567778887777765 999998 34 333333344455555
No 187
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=30.16 E-value=3.3e+02 Score=22.80 Aligned_cols=71 Identities=14% Similarity=0.028 Sum_probs=37.9
Q ss_pred HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEE
Q 025126 63 LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLI 142 (257)
Q Consensus 63 ~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V 142 (257)
+.+.|++ .+++++..........|.+-+.++++..|++.... .. ..|+.++..+.+.+++++..|+.|
T Consensus 111 l~~~g~~-~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~-~~----------~~~~~~~~~~~~~~~l~~~~~~ai 178 (264)
T cd01574 111 LLELGHR-TIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPV-LE----------GDWSAESGYRAGRELLREGDPTAV 178 (264)
T ss_pred HHHCCCC-EEEEEecCCccchHHHHHHHHHHHHHHCCCCccee-ee----------cCCCHHHHHHHHHHHHhCCCCcEE
Confidence 3345544 44455433222334567777888887767632111 10 012334445566677766558888
Q ss_pred Eee
Q 025126 143 ITF 145 (257)
Q Consensus 143 ~t~ 145 (257)
++.
T Consensus 179 ~~~ 181 (264)
T cd01574 179 FAA 181 (264)
T ss_pred EEc
Confidence 887
No 188
>PRK11865 pyruvate ferredoxin oxidoreductase subunit beta; Provisional
Probab=30.14 E-value=4.3e+02 Score=24.16 Aligned_cols=126 Identities=13% Similarity=0.023 Sum_probs=75.7
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC-------------------ch------HHHHHHHHHH
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG-------------------MG------NIRKDELHRA 94 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~-------------------~~------~~R~~E~~~A 94 (257)
.+|+++.-==+=-.+|+++++ ..+.+|.++.+|++-|+.++. .| ..+++.+.+.
T Consensus 92 ~~Vv~~~GDG~~~dIG~~~L~-~a~~r~~ni~~ivlDNe~Y~nTGgQ~S~~Tp~Ga~t~tsp~Gk~~~G~~~~kkd~~~I 170 (299)
T PRK11865 92 VNVVAIGGDGGTADIGFQSLS-GAMERGHNILYLMYDNEAYMNTGIQRSGSTPFGASTTTSPAGKYSRGEDRPKKNMPLI 170 (299)
T ss_pred CeEEEEeCCchHhhccHHHHH-HHHHcCCCeEEEEECCccccCCCCCCCCCCCCCcccccCCCCcccCCCCCCCCCHHHH
Confidence 356666654444467775544 556678999999997775421 01 2235666677
Q ss_pred HHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCC
Q 025126 95 CAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSER 174 (257)
Q Consensus 95 ~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~ 174 (257)
+...|++ -+.... + .+..++.+.+.+.++.-.|.+|....|-......|=..+-+.++.|+.. .
T Consensus 171 a~a~g~~--YVA~~~-~---------~~~~~l~~~i~~A~~~~Gps~I~v~sPC~~~~~~~~~~~~~~~klAvet----g 234 (299)
T PRK11865 171 MAAHGIP--YVATAS-I---------GYPEDFMEKVKKAKEVEGPAYIQVLQPCPTGWGFPPEKTIEIGRLAVET----G 234 (299)
T ss_pred HHHcCCC--EEEEEe-C---------CCHHHHHHHHHHHHhCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHhc----C
Confidence 7777872 121111 1 1446778888888888889999888776543333444445556665532 2
Q ss_pred ccEEEEec
Q 025126 175 NIEAWELM 182 (257)
Q Consensus 175 ~~~~ye~~ 182 (257)
-..+||..
T Consensus 235 ~~plye~~ 242 (299)
T PRK11865 235 YWPLFEIE 242 (299)
T ss_pred ceeEEEEE
Confidence 34566653
No 189
>PRK14167 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.14 E-value=4.3e+02 Score=24.16 Aligned_cols=85 Identities=12% Similarity=0.107 Sum_probs=51.4
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+.++.+.|.+..++.+.-|+.. ...-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-+.-+
T Consensus 22 v~~l~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~ 89 (297)
T PRK14167 22 IETLEDAGVTPGLATVLMSDDPASETYVSM--KQRDCEEVGI---EAIDVEIDPD-------APAEELYDTIDELNADED 89 (297)
T ss_pred HHHHHhCCCCceEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 3444556777777666666543 2233333 3578999999 5556666531 245677777777766666
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 90 V~GIlvq~PLP--~~i~~~~ 107 (297)
T PRK14167 90 VHGILVQMPVP--DHVDDRE 107 (297)
T ss_pred CCEEEEcCCCC--CCCCHHH
Confidence 67788874433 5555444
No 190
>cd05784 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases. The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (Pol II) and similar bacterial proteins. Pol II is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain has a fundamental role in the proofreading activity of polII. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Pol II is involved in a variety of cellular activities, such as the repair of DNA damaged
Probab=30.07 E-value=75 Score=26.91 Aligned_cols=28 Identities=21% Similarity=0.224 Sum_probs=23.3
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCCCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
++.++.....+.+++.+||+|+.++-.+
T Consensus 50 ~E~~lL~~f~~~i~~~dPDvi~g~N~~~ 77 (193)
T cd05784 50 DEKSLLLALIAWFAQYDPDIIIGWNVIN 77 (193)
T ss_pred CHHHHHHHHHHHHHhhCCCEEEECCCcC
Confidence 4568889999999999999999995433
No 191
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.86 E-value=4.3e+02 Score=24.08 Aligned_cols=84 Identities=10% Similarity=-0.011 Sum_probs=48.8
Q ss_pred HHHHhC-CCcEEEEEEeCCCCCC-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-RHNLHILCMSNGNADG-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G~~V~vv~lT~G~~~~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
+++.++ |....++.+.-|+... ..-.|. ..++|+.+|+ ++....+|. ..+.+++.+.|.++-..-+
T Consensus 23 ~~l~~~~g~~p~La~i~vg~~~~s~~Yv~~--k~k~a~~~Gi---~~~~~~l~~-------~~~~~el~~~i~~lN~d~~ 90 (296)
T PRK14188 23 ARLKAAHGVTPGLAVVLVGEDPASQVYVRS--KGKQTKEAGM---ASFEHKLPA-------DTSQAELLALIARLNADPA 90 (296)
T ss_pred HHHHHccCCCCeEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCC-------CCCHHHHHHHHHHHhCCCC
Confidence 334334 6677777777775432 223333 3578999999 455555543 1245667666666666656
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 91 V~GIlvq~Plp--~~~~~~~ 108 (296)
T PRK14188 91 IHGILVQLPLP--KHLDSEA 108 (296)
T ss_pred CcEEEEeCCCC--CCCCHHH
Confidence 66777774433 5655443
No 192
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.58 E-value=69 Score=29.84 Aligned_cols=25 Identities=28% Similarity=0.288 Sum_probs=19.9
Q ss_pred HHHHHHHhcCCCEEEeeCCCCCCCCch
Q 025126 129 IVEEEVVNCSIDLIITFDNYGVSGHCN 155 (257)
Q Consensus 129 ~l~~~i~~~~Pd~V~t~d~~g~d~H~D 155 (257)
.+..++++++||+|+.- .|.|.|.+
T Consensus 230 ~v~~~~~~f~Pdlvivs--aG~D~h~~ 254 (340)
T COG0123 230 IVLPLLEEFKPDLVIVS--AGFDAHRG 254 (340)
T ss_pred HHHHHHHhcCCCEEEEe--cCcccCCC
Confidence 36778999999999988 77776643
No 193
>cd03822 GT1_ecORF704_like This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides.
Probab=29.57 E-value=2e+02 Score=25.01 Aligned_cols=39 Identities=18% Similarity=0.277 Sum_probs=23.9
Q ss_pred cEEEEecCchh---hhcchHHHHHHHHhCCCcEEEEEEeCCC
Q 025126 41 NVLLVIAHPDD---ESMFFSPTINYLTSRRHNLHILCMSNGN 79 (257)
Q Consensus 41 ~vL~i~aHPDD---E~l~~Ggtl~~~~~~G~~V~vv~lT~G~ 79 (257)
+|++|++.+.. .+-.+-.....+.+.|++|.+++...+.
T Consensus 1 kI~~v~~~~~~~gG~~~~~~~l~~~L~~~g~~v~v~~~~~~~ 42 (366)
T cd03822 1 RIALVSPYPPRKCGIATFTTDLVNALSARGPDVLVVSVAALY 42 (366)
T ss_pred CeEEecCCCCCCCcHHHHHHHHHHHhhhcCCeEEEEEeeccc
Confidence 57888887654 1111222344455789999888876654
No 194
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=29.46 E-value=4.9e+02 Score=24.59 Aligned_cols=79 Identities=13% Similarity=0.146 Sum_probs=47.8
Q ss_pred CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 67 RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 67 G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
|....++.+--|+.. ...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++=+.-+.|=|+.+
T Consensus 101 g~~P~LaiIlvG~dpaS~~Yv~~k--~K~~e~~GI---~~~~~~lpe~-------~te~ell~~I~~LN~D~~V~GIlVQ 168 (364)
T PLN02616 101 GVVPGLAVILVGDRKDSATYVRNK--KKACDSVGI---NSFEVRLPED-------STEQEVLKFISGFNNDPSVHGILVQ 168 (364)
T ss_pred CCCCeEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCCCCEEEEe
Confidence 666666666666543 33444443 579999999 4555566541 1445677777776555556668888
Q ss_pred CCCCCCCCchHHHH
Q 025126 146 DNYGVSGHCNHRDV 159 (257)
Q Consensus 146 d~~g~d~H~DH~~~ 159 (257)
-|.. .|.|-..+
T Consensus 169 lPLP--~~id~~~i 180 (364)
T PLN02616 169 LPLP--SHMDEQNI 180 (364)
T ss_pred CCCC--CCCCHHHH
Confidence 4443 56665443
No 195
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=29.35 E-value=3.4e+02 Score=22.75 Aligned_cols=73 Identities=11% Similarity=0.074 Sum_probs=38.8
Q ss_pred HHhCCCcEEEEEEeCC-CCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025126 63 LTSRRHNLHILCMSNG-NADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (257)
Q Consensus 63 ~~~~G~~V~vv~lT~G-~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (257)
+.+.|++ .+.+++.. ........|.+.+.++++..|++......... .|+.+...+.+.+++++ .+|+
T Consensus 111 l~~~g~~-~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~l~~~~~~~ 180 (268)
T cd06273 111 LIALGHR-RIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEA---------PYSIADGRAALRQLLEQPPRPT 180 (268)
T ss_pred HHHCCCC-eEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeC---------CCcHHHHHHHHHHHHcCCCCCC
Confidence 4455654 23333321 11123567888888888888864222222211 12334444556666654 4589
Q ss_pred EEEee
Q 025126 141 LIITF 145 (257)
Q Consensus 141 ~V~t~ 145 (257)
.|++.
T Consensus 181 ai~~~ 185 (268)
T cd06273 181 AVICG 185 (268)
T ss_pred EEEEc
Confidence 98886
No 196
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=29.26 E-value=3.6e+02 Score=22.91 Aligned_cols=109 Identities=12% Similarity=0.206 Sum_probs=59.7
Q ss_pred HHHHHH-HHh-CCCc-EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCC---cEEEccCCCCCCCccccCChHHHHHHH
Q 025126 57 SPTINY-LTS-RRHN-LHILCMSNGNADGMGNIRKDELHRACAVLKIPLE---QVKVLDLVDFQDGFDKLWNHKSLAKIV 130 (257)
Q Consensus 57 Ggtl~~-~~~-~G~~-V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~---~~~~l~~~d~~dg~~~~~~~~~l~~~l 130 (257)
|-.++. +.+ .|++ ..+++++..........|.+-.+++++..|++.. ...++.... ..|+.++..+.+
T Consensus 108 g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~ 181 (282)
T cd06318 108 GNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGY------GDWTREGGLKAM 181 (282)
T ss_pred HHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCC------CCCCHHHHHHHH
Confidence 333443 335 4753 4556655332233456788889999988876311 122222110 123445556677
Q ss_pred HHHHHhc-CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEEe
Q 025126 131 EEEVVNC-SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWEL 181 (257)
Q Consensus 131 ~~~i~~~-~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye~ 181 (257)
.+++.+. +||.|++.+. ..+..+..|+.+.+.+.++.+...
T Consensus 182 ~~~l~~~~~~~ai~~~~d----------~~a~g~~~al~~~g~~~dv~vvg~ 223 (282)
T cd06318 182 EDLLVAHPDINVVYSEND----------DMALGAMRVLAEAGKTDDVKVAAA 223 (282)
T ss_pred HHHHHhCCCcCEEEECCc----------chHHHHHHHHHHcCCCCCeEEEec
Confidence 7777653 5888888732 123446666666655566665543
No 197
>cd05776 DNA_polB_alpha_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha. DNA polymerase alpha is a family-B DNA polymerase with a catalytic subunit that contains a DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (delta and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. It associates with DNA primase and is the only enzyme able to start DNA synthesis de novo. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are
Probab=29.25 E-value=76 Score=27.60 Aligned_cols=29 Identities=17% Similarity=0.299 Sum_probs=24.2
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCCCCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDNYGV 150 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~ 150 (257)
++.++.....+.|++..||+|+.|+-.|.
T Consensus 81 ~E~~LL~~f~~~i~~~DPDiivG~Ni~~f 109 (234)
T cd05776 81 NERALLNFFLAKLQKIDPDVLVGHDLEGF 109 (234)
T ss_pred CHHHHHHHHHHHHhhcCCCEEEeeccCCC
Confidence 45688889999999999999999975553
No 198
>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain. Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con
Probab=29.19 E-value=4.2e+02 Score=23.73 Aligned_cols=93 Identities=15% Similarity=0.071 Sum_probs=47.9
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
+....+.|.+|.+-..+-|.+......+-.|+.+.+..+|+ +.+. ++|.- | .-.+.++.+.+..+.+. -|
T Consensus 121 i~~a~~~G~~v~~~~~d~~~~~r~~~~~~~~~~~~~~~~G~--~~i~---l~DT~-G---~~~P~~v~~l~~~l~~~-~~ 190 (280)
T cd07945 121 IEYAIKNGIEVNIYLEDWSNGMRDSPDYVFQLVDFLSDLPI--KRIM---LPDTL-G---ILSPFETYTYISDMVKR-YP 190 (280)
T ss_pred HHHHHhCCCEEEEEEEeCCCCCcCCHHHHHHHHHHHHHcCC--CEEE---ecCCC-C---CCCHHHHHHHHHHHHhh-CC
Confidence 44445678877665555443334445677777777777888 3333 33321 2 12445555544444443 36
Q ss_pred CEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 140 DLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
++-+.. | .|.|.-..---+..|+
T Consensus 191 ~~~i~~--H---~Hnd~Gla~AN~laA~ 213 (280)
T cd07945 191 NLHFDF--H---AHNDYDLAVANVLAAV 213 (280)
T ss_pred CCeEEE--E---eCCCCCHHHHHHHHHH
Confidence 654444 2 3555544333344444
No 199
>cd03784 GT1_Gtf_like This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the oxidatively cross-linked heptapeptide core of vancomycin group antibiotics. The core structure is important for the bioactivity of the antibiotics.
Probab=29.06 E-value=2.2e+02 Score=26.11 Aligned_cols=21 Identities=10% Similarity=0.022 Sum_probs=15.1
Q ss_pred chHHHHHHHHhCCCcEEEEEE
Q 025126 55 FFSPTINYLTSRRHNLHILCM 75 (257)
Q Consensus 55 ~~Ggtl~~~~~~G~~V~vv~l 75 (257)
-|=+....|.++|++|.+++-
T Consensus 16 P~l~la~~L~~rGh~V~~~t~ 36 (401)
T cd03784 16 PLVALAWALRAAGHEVRVATP 36 (401)
T ss_pred HHHHHHHHHHHCCCeEEEeeC
Confidence 344666677899999877763
No 200
>PF13158 DUF3993: Protein of unknown function (DUF3993)
Probab=28.92 E-value=52 Score=26.02 Aligned_cols=20 Identities=20% Similarity=0.330 Sum_probs=14.9
Q ss_pred CchHHHHHHHHHHHHHHHHH
Q 025126 1 MSWLLVIVSTIVVWVASLFK 20 (257)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~ 20 (257)
|+||+|++.+.++.++++--
T Consensus 1 ~~~l~~~l~~a~lv~~~~~~ 20 (122)
T PF13158_consen 1 MIWLVCLLCVAFLVGYSITF 20 (122)
T ss_pred ChhHHHHHHHHHHHHHhHHH
Confidence 78988888877777776433
No 201
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=28.90 E-value=3.5e+02 Score=22.74 Aligned_cols=94 Identities=16% Similarity=0.180 Sum_probs=51.0
Q ss_pred CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc--CCCEEEe
Q 025126 67 RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC--SIDLIIT 144 (257)
Q Consensus 67 G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~--~Pd~V~t 144 (257)
|.+ .+++++..........|.+..+++++..|.. +....... ..|+.+...+.+.+++++. +|+.|++
T Consensus 124 g~~-~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~---~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~~ai~~ 193 (275)
T cd06317 124 GKG-QIVVIAGQPGNGTAIERQKGFEDELAEVCPG---VEVLDTQP------ADWDREKAQVAMEALITKFGDDIDGVYA 193 (275)
T ss_pred CCc-eEEEEecCCCCchHHHHHHHHHHHHHhhCCC---CEEEeccC------CCCCHHHHHHHHHHHHHhCCCCccEEEE
Confidence 653 4455543222334567888999999988741 22222111 1134455556677778763 5888887
Q ss_pred eCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEE
Q 025126 145 FDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWE 180 (257)
Q Consensus 145 ~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye 180 (257)
.+ . - .+..+..|+.+.+...++.++.
T Consensus 194 ~~--d------~--~a~g~~~~l~~~g~~~dv~v~g 219 (275)
T cd06317 194 GD--D------N--MARGALNAAKEAGLAGGIVIVG 219 (275)
T ss_pred CC--C------c--HHHHHHHHHHhcCCcCCcEEEE
Confidence 63 1 1 1244555565554434565554
No 202
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B3 exhibits both polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Archaeal proteins that are involved in DNA replicatio
Probab=28.71 E-value=85 Score=26.34 Aligned_cols=25 Identities=12% Similarity=0.333 Sum_probs=22.1
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
++.++.....++|++.+||+|++++
T Consensus 47 ~E~~lL~~F~~~i~~~dPd~i~gyN 71 (188)
T cd05781 47 DDRKIIREFVKYVKEYDPDIIVGYN 71 (188)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEecC
Confidence 4578889999999999999999994
No 203
>TIGR01251 ribP_PPkin ribose-phosphate pyrophosphokinase. In some systems, close homologs lacking enzymatic activity exist and perform regulatory functions. The model is designated subfamily rather than equivalog for this reason.
Probab=28.63 E-value=3.5e+02 Score=24.52 Aligned_cols=23 Identities=26% Similarity=0.310 Sum_probs=17.8
Q ss_pred HHHHHHHHHhcCCCEEEeeCCCC
Q 025126 127 AKIVEEEVVNCSIDLIITFDNYG 149 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g 149 (257)
.+.+++++.....|-|+|.|+|.
T Consensus 107 ~~~~a~ll~~~g~d~vit~DlHs 129 (308)
T TIGR01251 107 AKLVANLLETAGADRVLTVDLHS 129 (308)
T ss_pred HHHHHHHHHHcCCCEEEEecCCh
Confidence 56677888887888888888763
No 204
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=28.56 E-value=3.1e+02 Score=22.02 Aligned_cols=94 Identities=12% Similarity=0.118 Sum_probs=51.3
Q ss_pred CcEEEEecCchh-hhcchHHHHHHHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCC
Q 025126 40 KNVLLVIAHPDD-ESMFFSPTINYLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQD 115 (257)
Q Consensus 40 ~~vL~i~aHPDD-E~l~~Ggtl~~~~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~d 115 (257)
+.-+++++|-.| +. .-..+.++.+. |.+ ++.|.|.+ +..+.. |++-+.+ +.-|+
T Consensus 4 ~~~v~lsv~d~dK~~--l~~~a~~l~~ll~Gf~---l~AT~gTa------------~~L~~~~Gi~v~~v--i~~~~--- 61 (142)
T PRK05234 4 RKRIALIAHDHKKDD--LVAWVKAHKDLLEQHE---LYATGTTG------------GLIQEATGLDVTRL--LSGPL--- 61 (142)
T ss_pred CcEEEEEEeccchHH--HHHHHHHHHHHhcCCE---EEEeChHH------------HHHHhccCCeeEEE--EcCCC---
Confidence 345566667555 33 34677788887 976 56777632 233345 8742222 22222
Q ss_pred CccccCChHHHHHHHHHHHHhcCCCEEEe-eCCCCCCC-CchHHHHHHHHH
Q 025126 116 GFDKLWNHKSLAKIVEEEVVNCSIDLIIT-FDNYGVSG-HCNHRDVHHGIC 164 (257)
Q Consensus 116 g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t-~d~~g~d~-H~DH~~~~~av~ 164 (257)
|. . ..+.+.|++-+++.|+. +||.+... ..|-...-+++.
T Consensus 62 gg-----~----~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av 103 (142)
T PRK05234 62 GG-----D----QQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLAD 103 (142)
T ss_pred CC-----c----hhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHH
Confidence 11 1 34678888889998655 55555444 334444444443
No 205
>TIGR03380 agmatine_aguA agmatine deiminase. Members of this family are agmatine deiminase (3.5.3.12), as characterized in Pseudomonas aeruginosa and plants. Related deiminases include the peptidyl-arginine deiminase (3.5.3.15) as found in Porphyromonas gingivalis.
Probab=28.53 E-value=1.5e+02 Score=27.91 Aligned_cols=83 Identities=11% Similarity=-0.033 Sum_probs=43.9
Q ss_pred HHHHHH-HHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 89 DELHRA-CAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 89 ~E~~~A-~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
+|.++. .+.||+ +++++|+..-..|..+.. ++.+++++ .|++|+...... ..|++|... ++..+.+
T Consensus 180 ~eIe~~Lk~~LGv--~kviWL~~g~~~DdTdGH------ID~~arFv---~~~tvl~~~~~d-~~d~~~~~~-~~~~~~L 246 (357)
T TIGR03380 180 EQIEEKLKDYLGV--EKVIWLPDGLYNDETNGH------VDNLCCFV---RPGEVALSWTDD-ESDPQYEIS-KEAYDVL 246 (357)
T ss_pred HHHHHHHHHHHCC--CEEEEECCCCCCCCCCCc------ceeeEEEe---CCCEEEEEecCC-CCCccHHHH-HHHHHHH
Confidence 444444 556999 789999743222222211 34455555 689888874222 246766544 3333334
Q ss_pred Hcc--CCCCccEEEEecch
Q 025126 168 LNG--TSERNIEAWELMTT 184 (257)
Q Consensus 168 ~~~--~~~~~~~~ye~~s~ 184 (257)
.+. ...+.+.+.+++.+
T Consensus 247 ~~~~da~G~~~~i~~lp~P 265 (357)
T TIGR03380 247 SNTTDAKGRKLKVHKLPIP 265 (357)
T ss_pred HhhhhccCCccEEEEecCC
Confidence 432 23345666666544
No 206
>PRK03673 hypothetical protein; Provisional
Probab=28.32 E-value=3.6e+02 Score=25.72 Aligned_cols=78 Identities=15% Similarity=0.107 Sum_probs=44.9
Q ss_pred EEEeCCCC---CCchHHHHHHHHHHHHHcCCCCCcEEEc-cCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCC
Q 025126 73 LCMSNGNA---DGMGNIRKDELHRACAVLKIPLEQVKVL-DLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNY 148 (257)
Q Consensus 73 v~lT~G~~---~~~~~~R~~E~~~A~~~LGv~~~~~~~l-~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~ 148 (257)
..++.|+. +.....-..-+.+.+..+|+ ++... -.+| +.+.+.+.+....+ +.|+|+|.
T Consensus 5 ~Iis~GdEll~G~i~dtN~~~la~~L~~~G~---~v~~~~~v~D---------~~~~i~~~l~~a~~--~~DlVI~t--- 67 (396)
T PRK03673 5 EMLSTGDEVLHGQIVDTNAAWLADFFFHQGL---PLSRRNTVGD---------NLDALVAILRERSQ--HADVLIVN--- 67 (396)
T ss_pred EEEEecccCCCCeEEEhHHHHHHHHHHHCCC---EEEEEEEcCC---------CHHHHHHHHHHHhc--cCCEEEEc---
Confidence 34455543 22233444556667888998 33322 2233 34677777777655 56999998
Q ss_pred CCCCCchHHHHHHHHHHHH
Q 025126 149 GVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 149 g~d~H~DH~~~~~av~~A~ 167 (257)
|+-|..+.-.+.+++-+|+
T Consensus 68 GGlGpt~dD~t~~avA~a~ 86 (396)
T PRK03673 68 GGLGPTSDDLSALAAATAA 86 (396)
T ss_pred CCCCCCCcccHHHHHHHHc
Confidence 3345555555666666654
No 207
>TIGR02472 sucr_P_syn_N sucrose-phosphate synthase, putative, glycosyltransferase domain. This family consists of the N-terminal regions, or in some cases the entirety, of bacterial proteins closely related to plant sucrose-phosphate synthases (SPS). The C-terminal domain (TIGR02471), found with most members of this family, resembles both bona fide plant sucrose-phosphate phosphatases (SPP) and the SPP-like domain of plant SPS. At least two members of this family lack the SPP-like domain, which may have binding or regulatory rather than enzymatic activity by analogy to plant SPS. This enzyme produces sucrose 6-phosphate and UDP from UDP-glucose and D-fructose 6-phosphate, and may be encoded near the gene for fructokinase.
Probab=28.28 E-value=1.7e+02 Score=27.66 Aligned_cols=22 Identities=23% Similarity=0.108 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHhc--CCCEEEeeC
Q 025126 125 SLAKIVEEEVVNC--SIDLIITFD 146 (257)
Q Consensus 125 ~l~~~l~~~i~~~--~Pd~V~t~d 146 (257)
.....+.+.+++. +||+|.+|+
T Consensus 99 ~~~~~l~~~~~~~~~~~DvIH~h~ 122 (439)
T TIGR02472 99 ELADNLLQHLRQQGHLPDLIHAHY 122 (439)
T ss_pred HHHHHHHHHHHHcCCCCCEEEEcc
Confidence 3445667777654 699998884
No 208
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=28.27 E-value=63 Score=29.39 Aligned_cols=24 Identities=8% Similarity=0.097 Sum_probs=19.8
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEee
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
++.+.-+.+.+++.+++||+++..
T Consensus 138 ~E~eqp~~i~~Ll~~~~PDIlViT 161 (287)
T PF05582_consen 138 PEKEQPEKIYRLLEEYRPDILVIT 161 (287)
T ss_pred chHHhhHHHHHHHHHcCCCEEEEe
Confidence 456777889999999999997665
No 209
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.14 E-value=4.6e+02 Score=23.85 Aligned_cols=84 Identities=14% Similarity=0.115 Sum_probs=49.6
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
.++.++ |....+..+--|+.. ...-.|. -.++|+.+|+ ++....+|.. .+.+++.+.|.++-..-+
T Consensus 29 ~~l~~~~g~~P~Laii~vg~d~aS~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~LN~D~~ 96 (287)
T PRK14176 29 ERLKSNRGITPGLATILVGDDPASKMYVRL--KHKACERVGI---RAEDQFLPAD-------TTQEELLELIDSLNKRKD 96 (287)
T ss_pred HHHHhccCCCCeEEEEEECCCcchHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 334344 666666666666533 3333343 3578999999 5556666541 245677777777766666
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 97 V~GIlvqlPLP--~~i~~~~ 114 (287)
T PRK14176 97 VHGILLQLPLP--KHLDPQE 114 (287)
T ss_pred CCeEEEcCCCC--CCCCHHH
Confidence 67788874433 4555444
No 210
>cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal family-B DNA polymerases with similarity to Pyrococcus kodakaraensis Kod1, including polymerases from Desulfurococcus (D. Tok Pol) and Thermococcus gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are thermostable enzymes that exhibit both polymerase and 3'-5' exonuclease activities. They are family-B DNA polymerases. Their amino termini harbor a DEDDy-type DnaQ-like 3'-5' exonuclease domain that contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members of this subfamily show
Probab=27.77 E-value=89 Score=26.20 Aligned_cols=25 Identities=28% Similarity=0.304 Sum_probs=22.0
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
++.++.....+.|++.+||++++++
T Consensus 55 ~E~~lL~~F~~~i~~~dpdiivgyN 79 (195)
T cd05780 55 TEKEMIKRFIEIVKEKDPDVIYTYN 79 (195)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEecC
Confidence 4568889999999999999999994
No 211
>PLN02605 monogalactosyldiacylglycerol synthase
Probab=27.72 E-value=61 Score=29.94 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=17.2
Q ss_pred HHHHHHHHHhcCCCEEEeeCC
Q 025126 127 AKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
...+.++|++.+||+|+++.|
T Consensus 89 ~~~l~~~i~~~~pDvIi~thp 109 (382)
T PLN02605 89 AREVAKGLMKYKPDIIVSVHP 109 (382)
T ss_pred HHHHHHHHHhcCcCEEEEeCc
Confidence 356788999999999999743
No 212
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=27.71 E-value=4.7e+02 Score=23.78 Aligned_cols=85 Identities=14% Similarity=0.178 Sum_probs=50.2
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
..+.++ |....+..+.-|+.. ...-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-..-+
T Consensus 22 ~~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~ 89 (285)
T PRK14191 22 QILTAQTGKRPKLAVILVGKDPASQTYVNM--KIKACERVGM---DSDLHTLQEN-------TTEAELLSLIKDLNTDQN 89 (285)
T ss_pred HHHHhcCCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 344433 777777777667543 2333333 3578999999 5556666541 245667666666666656
Q ss_pred CCEEEeeCCCCCCCCchHHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
.+=|+.+-|.. .|.|-..+
T Consensus 90 V~GIlvq~PlP--~~i~~~~i 108 (285)
T PRK14191 90 IDGILVQLPLP--RHIDTKMV 108 (285)
T ss_pred CCEEEEeCCCC--CCCCHHHH
Confidence 67677774433 56665443
No 213
>TIGR03801 asp_4_decarbox aspartate 4-decarboxylase. This enzyme, aspartate 4-decarboxylase (EC 4.1.1.12), removes the side-chain carboxylate from L-aspartate, converting it to L-alanine plus carbon dioxide. It is a PLP-dependent enzyme, homologous to aspartate aminotransferase (EC 2.6.1.1).
Probab=27.69 E-value=1.3e+02 Score=29.76 Aligned_cols=41 Identities=17% Similarity=0.090 Sum_probs=29.2
Q ss_pred cEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCC
Q 025126 104 QVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 104 ~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
...++..|..+.| ..++.++ .+.|.+++++.++++++..|.
T Consensus 242 kai~l~nP~NPTG--~vls~e~-l~~I~~ia~~~~~~l~II~DE 282 (521)
T TIGR03801 242 KALFVVNPSNPPS--VAMSDES-IEKIVDIVANDRPDLMILTDD 282 (521)
T ss_pred cEEEEeCCCCCCC--CCCCHHH-HHHHHHHHHhcCCCeEEEECC
Confidence 6677778876543 4556555 467888888888998877764
No 214
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.61 E-value=3.8e+02 Score=22.64 Aligned_cols=77 Identities=9% Similarity=0.012 Sum_probs=44.7
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEeeCCCCCCCCchHHHHHH
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITFDNYGVSGHCNHRDVHH 161 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~d~~g~d~H~DH~~~~~ 161 (257)
....|.+-++++++..|++ +..... . ..|+.++..+.+.+++++. +|+.|++.+.. .+.
T Consensus 139 ~~~~r~~gf~~~l~~~~~~---~~~~~~-~------~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~----------~a~ 198 (277)
T cd06319 139 NGQKRTKGFKEAMKEAGCD---LAGIRQ-Q------KDFSYQETFDYTNDLLTANPDIRAIWLQGSD----------RYQ 198 (277)
T ss_pred cHHHHHHHHHHHHHhcCCc---eEeecc-C------CCCCHHHHHHHHHHHHHhCCCCCEEEECCCc----------cch
Confidence 4678888999999999883 221111 0 1234455566777777653 36788877321 123
Q ss_pred HHHHHHHccCCCCccEEE
Q 025126 162 GICRSYLNGTSERNIEAW 179 (257)
Q Consensus 162 av~~A~~~~~~~~~~~~y 179 (257)
.+.+|+.+.+...++.+.
T Consensus 199 g~~~al~~~g~~~di~vv 216 (277)
T cd06319 199 GALDAIATAGKTGKVLLI 216 (277)
T ss_pred HHHHHHHHcCCCCCEEEE
Confidence 455656555544455544
No 215
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=27.58 E-value=60 Score=29.59 Aligned_cols=28 Identities=21% Similarity=0.319 Sum_probs=19.6
Q ss_pred HHHHHHHHHhcCCCEEEeeCCCCCCCCchH
Q 025126 127 AKIVEEEVVNCSIDLIITFDNYGVSGHCNH 156 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH 156 (257)
.+.|..++++++||+|+.. -|.|.|.+-
T Consensus 229 ~~~l~~~~~~f~P~~ivvs--aG~D~~~~D 256 (311)
T PF00850_consen 229 EEILLPALEEFRPDLIVVS--AGFDAHAGD 256 (311)
T ss_dssp HHHHHHHHHHHT-SEEEEE--E-STTBTTS
T ss_pred hhccccchhcccCcEEEEc--cCcccchhc
Confidence 3445567789999999988 788877665
No 216
>COG2893 ManX Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]
Probab=27.12 E-value=3.4e+02 Score=21.95 Aligned_cols=68 Identities=18% Similarity=0.256 Sum_probs=45.1
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEeeCC
Q 025126 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDN 147 (257)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~ 147 (257)
+.++..|.| ...+|+.++++++=.+++|+..+++....+ ..+.+.+.+.+.++.... .++|..|-
T Consensus 2 ~~iii~tHG-------~~A~~l~~s~emi~G~q~nv~~v~~~~~~~------~~~~l~~~~~~~~~~~d~~eevl~ltDl 68 (143)
T COG2893 2 IGIIIATHG-------RFAEGLLNSLEMILGEQENVEAVDFVPGED------SEDLLTKQIAAAIAALDSGEGVLFLTDL 68 (143)
T ss_pred ceEEEEeCH-------HHHHHHHHHHHHHhCcHhceEEEEeecCCC------hHHHHHHHHHHHHhhcCCCCcEEEEEec
Confidence 356777777 467788888877533678888888753211 234566677777776543 57888887
Q ss_pred CCC
Q 025126 148 YGV 150 (257)
Q Consensus 148 ~g~ 150 (257)
+|+
T Consensus 69 ~GG 71 (143)
T COG2893 69 FGG 71 (143)
T ss_pred CCC
Confidence 774
No 217
>PRK03670 competence damage-inducible protein A; Provisional
Probab=27.10 E-value=4e+02 Score=23.61 Aligned_cols=62 Identities=10% Similarity=0.100 Sum_probs=34.4
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
-+.+.+..+|+. +.... .+| +.+++.+.+.+.+++ ..|+|+|. .| -|-...-.|.+++.+|+
T Consensus 24 ~la~~L~~~G~~---v~~~~iV~D---------d~~~I~~~l~~a~~~-~~DlVItt--GG-lGpt~dD~T~eava~a~ 86 (252)
T PRK03670 24 FIAQKLTEKGYW---VRRITTVGD---------DVEEIKSVVLEILSR-KPEVLVIS--GG-LGPTHDDVTMLAVAEAL 86 (252)
T ss_pred HHHHHHHHCCCE---EEEEEEcCC---------CHHHHHHHHHHHhhC-CCCEEEEC--CC-ccCCCCCchHHHHHHHh
Confidence 455667789983 33222 233 345666666665542 46999998 33 33333334556665543
No 218
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=26.95 E-value=2.6e+02 Score=22.42 Aligned_cols=63 Identities=17% Similarity=0.093 Sum_probs=40.7
Q ss_pred HHHHH-HHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHH
Q 025126 86 IRKDE-LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIC 164 (257)
Q Consensus 86 ~R~~E-~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~ 164 (257)
.|.+- ++.|+..||. ++..++-.+.+ +.. .+-+....+.+..+ .|+|+.- |++|..+...+.
T Consensus 51 tRTR~SFe~A~~~LGg---~~i~~~~~~s~--~~k----~Esl~Dtar~ls~~-~D~iv~R-------~~~~~~~~~~a~ 113 (142)
T PF02729_consen 51 TRTRLSFEAAANRLGG---HVIYLDPSTSS--LGK----GESLEDTARVLSRY-VDAIVIR-------HPSHGALEELAE 113 (142)
T ss_dssp HHHHHHHHHHHHHTTC---EEEEEETTTSS--TTT----SSEHHHHHHHHHHH-CSEEEEE-------ESSHHHHHHHHH
T ss_pred chhhhhHHHhhhccee---EEEEECccccc--CcC----CCCHHHHHHHHHHh-hheEEEE-------eccchHHHHHHH
Confidence 56555 6777999998 67777743322 221 12234455677777 8988876 788888777666
Q ss_pred H
Q 025126 165 R 165 (257)
Q Consensus 165 ~ 165 (257)
.
T Consensus 114 ~ 114 (142)
T PF02729_consen 114 H 114 (142)
T ss_dssp H
T ss_pred h
Confidence 5
No 219
>cd02167 NMNAT_NadR Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins. NMNAT domain of NadR protein. The NadR protein (NadR) is a bifunctional enzyme possessing both NMN adenylytransferase (NMNAT) and ribosylnicotinamide kinase (RNK) activities. Its function is essential for the growth and survival of H. influenzae and thus may present a new highly specific anti-infectious drug target. The N-terminal domain that hosts the NMNAT activity is closely related to archaeal NMNAT. The bound NAD at the active site of the NMNAT domain reveals several critical interactions between NAD and the protein.The NMNAT domain of hiNadR defines yet another member of the pyridine nucleotide adenylyltransferase
Probab=26.93 E-value=3.5e+02 Score=21.99 Aligned_cols=85 Identities=20% Similarity=0.226 Sum_probs=45.6
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC----C-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025126 60 INYLTSRRHNLHILCMSNGNAD----G-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~----~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (257)
+.+..+.-.+|.++..++.... . ..+.|.+-++.+++-..- ..+..++.+|... .+..|. .-...+...+
T Consensus 19 i~~a~~~~d~v~vi~~~~~~~~~~~~~~~~~~R~~mi~~a~~~~~~--~~v~~~~~~d~~~-~~~~w~--~w~~~v~~~v 93 (158)
T cd02167 19 IYKALSQVDELLIIVGSDDTRDDARTGLPLEKRLRWLREIFPDQEN--IVVHTLNEPDIPE-YPNGWD--IWSNRVKTLI 93 (158)
T ss_pred HHHHHHHCCEEEEEECCCCcccccCCCCCHHHHHHHHHHHhcCCCC--EEEEeCCCCCCCC-CchhHH--HHHHHHHHHH
Confidence 4445555567777765544321 1 356777777777654221 2344555555431 112232 2244555555
Q ss_pred Hhc---CCCEEEeeCCCC
Q 025126 135 VNC---SIDLIITFDNYG 149 (257)
Q Consensus 135 ~~~---~Pd~V~t~d~~g 149 (257)
.+. ++|+|++-++.+
T Consensus 94 ~~~~~~~~~~vf~~~~~~ 111 (158)
T cd02167 94 AENTRCRPDIVFTAEEYE 111 (158)
T ss_pred hhhcCCCCCEEEEccCcc
Confidence 543 899999885544
No 220
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=26.88 E-value=2.8e+02 Score=22.04 Aligned_cols=54 Identities=11% Similarity=0.147 Sum_probs=29.2
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCC-----C--chHHHHHHHHHHHHHcCCCCCcEEEccCC
Q 025126 58 PTINYLTSRRHNLHILCMSNGNAD-----G--MGNIRKDELHRACAVLKIPLEQVKVLDLV 111 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~~~-----~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~ 111 (257)
+=+..+.++|.++..|....+... + .|..--++..++++.||+|....++++..
T Consensus 42 ~e~~~i~~~Gl~i~pIyq~~~~~~~~~~~~~~~G~~dA~~A~~~A~~lG~p~gt~IYfavD 102 (136)
T PF08924_consen 42 GEVQDIRAAGLRIFPIYQGGGRETSDFTYGYAQGVADARDAVAAARALGFPAGTPIYFAVD 102 (136)
T ss_dssp HHHHHHHHTT-EEEEEE--------S-B--HHHHHHHHHHHHHHHHHTT--SS-EEEEE--
T ss_pred HHHHHHHHCCCEEEEEEecccccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEEee
Confidence 346677788988888887754321 2 45555567777888899988777776654
No 221
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=26.83 E-value=52 Score=22.00 Aligned_cols=16 Identities=13% Similarity=0.167 Sum_probs=9.4
Q ss_pred ccccccc-CCCCCcEEE
Q 025126 29 SNAAFLT-TGDKKNVLL 44 (257)
Q Consensus 29 ~~~~~~~-~~~~~~vL~ 44 (257)
++.||.+ +++..|+|.
T Consensus 27 k~GQfDDle~~a~riL~ 43 (51)
T TIGR00847 27 KSGQYDDLKGAAWRILG 43 (51)
T ss_pred ccCCCCCCccHHHHHHc
Confidence 3677765 445556664
No 222
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=26.81 E-value=3.5e+02 Score=24.50 Aligned_cols=83 Identities=13% Similarity=0.229 Sum_probs=43.4
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC--CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA--DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~--~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (257)
||++++... +.-.++..|.+.|.++..|+ |..+. +.....-.....+.|+..|++ + +...+.
T Consensus 2 kIvf~G~~~-----~a~~~L~~L~~~~~~i~~Vv-t~~~~~~~r~~~~~~~~v~~~a~~~~Ip---~--~~~~~~----- 65 (309)
T PRK00005 2 RIVFMGTPE-----FAVPSLKALLESGHEVVAVV-TQPDRPAGRGKKLTPSPVKQLALEHGIP---V--LQPEKL----- 65 (309)
T ss_pred EEEEECCCH-----HHHHHHHHHHHCCCcEEEEE-CCCCCCCCCCCCCCCCHHHHHHHHcCCC---E--ECcCCC-----
Confidence 566666541 33467888887788876544 33221 110111112345567778883 2 221111
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 119 KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+.++ +.+.+++.+||++++..
T Consensus 66 ---~~~~----~~~~l~~~~~Dliv~~~ 86 (309)
T PRK00005 66 ---RDPE----FLAELAALNADVIVVVA 86 (309)
T ss_pred ---CCHH----HHHHHHhcCcCEEEEeh
Confidence 1122 24457778999988763
No 223
>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=26.76 E-value=2e+02 Score=23.81 Aligned_cols=73 Identities=8% Similarity=0.042 Sum_probs=43.2
Q ss_pred hhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHH
Q 025126 51 DESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIV 130 (257)
Q Consensus 51 DE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l 130 (257)
|..=|+||-..++++.+..|+.+=. ...|-+=++.=++++|+. +++.+..- | -.+
T Consensus 5 D~fcG~GGNtIqFA~~~~~Viaidi--------d~~~~~~a~hNa~vYGv~-~~I~~i~g-D----------~~~----- 59 (163)
T PF09445_consen 5 DAFCGVGGNTIQFARTFDRVIAIDI--------DPERLECAKHNAEVYGVA-DNIDFICG-D----------FFE----- 59 (163)
T ss_dssp ETT-TTSHHHHHHHHTT-EEEEEES---------HHHHHHHHHHHHHTT-G-GGEEEEES------------HHH-----
T ss_pred EeccCcCHHHHHHHHhCCeEEEEEC--------CHHHHHHHHHHHHHcCCC-CcEEEEeC-C----------HHH-----
Confidence 5667889999999988877655542 367887788889999984 46665541 1 011
Q ss_pred HHHHHhcC----CCEEEeeCCCCC
Q 025126 131 EEEVVNCS----IDLIITFDNYGV 150 (257)
Q Consensus 131 ~~~i~~~~----Pd~V~t~d~~g~ 150 (257)
++++.+ .|+|+.-.|||+
T Consensus 60 --~~~~~~~~~~~D~vFlSPPWGG 81 (163)
T PF09445_consen 60 --LLKRLKSNKIFDVVFLSPPWGG 81 (163)
T ss_dssp --HGGGB------SEEEE---BSS
T ss_pred --HHhhccccccccEEEECCCCCC
Confidence 222222 699999989984
No 224
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=26.74 E-value=4.2e+02 Score=22.95 Aligned_cols=108 Identities=7% Similarity=0.109 Sum_probs=54.8
Q ss_pred CchhhhcchHHHHHHHH-hC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHH
Q 025126 48 HPDDESMFFSPTINYLT-SR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKS 125 (257)
Q Consensus 48 HPDDE~l~~Ggtl~~~~-~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~ 125 (257)
.+|++. +|-.++++. +. |.+-.+++++..........|.+..+++++..|+ ++... ... .++.+.
T Consensus 127 ~~D~~~--~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~---~~~~~-~~~-------~~~~~~ 193 (295)
T PRK10653 127 ASDNVA--GGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKF---NVLAS-QPA-------DFDRTK 193 (295)
T ss_pred ccChHH--HHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCC---EEEEe-cCC-------CCCHHH
Confidence 356664 345455543 44 3322344444222223457899999999999987 22211 110 123333
Q ss_pred HHHHHHHHHHh-cCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEE
Q 025126 126 LAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAW 179 (257)
Q Consensus 126 l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~y 179 (257)
..+.+.+++++ -.|+.|++.+. ..+..+..|+.+.+. .++.+.
T Consensus 194 ~~~~~~~~l~~~~~~~ai~~~~d----------~~A~g~l~al~~~G~-~dv~vi 237 (295)
T PRK10653 194 GLNVMQNLLTAHPDVQAVFAQND----------EMALGALRALQTAGK-SDVMVV 237 (295)
T ss_pred HHHHHHHHHHhCCCcCEEEECCC----------hhHHHHHHHHHHcCC-CceEEE
Confidence 44555666654 34788888732 233445555555443 344444
No 225
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=26.59 E-value=95 Score=29.20 Aligned_cols=52 Identities=23% Similarity=0.292 Sum_probs=36.4
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCC---CCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 91 LHRACAVLKIPLEQVKVLDLVDFQ---DGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~---dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
++..|+.+|+++.++..++.-|.+ ++++.. .. .+.++.+..+++.+|+.|+.
T Consensus 146 l~~v~a~mgLsPadvrn~dltd~~Gaa~~~d~l-~p-kl~rRfek~~~Q~rp~~vVi 200 (402)
T COG3598 146 LEPVRARMGLSPADVRNMDLTDVSGAADESDVL-SP-KLYRRFEKILEQKRPDFVVI 200 (402)
T ss_pred HHHHHHHcCCChHhhhheeccccccCCCccccc-cH-HHHHHHHHHHHHhCCCeEEE
Confidence 456788899999888888775543 222223 22 66777888888999998764
No 226
>PF08660 Alg14: Oligosaccharide biosynthesis protein Alg14 like; InterPro: IPR013969 Alg14 is involved dolichol-linked oligosaccharide biosynthesis and anchors the catalytic subunit Alg13 to the ER membrane [].
Probab=26.56 E-value=1.9e+02 Score=23.91 Aligned_cols=17 Identities=18% Similarity=0.028 Sum_probs=12.7
Q ss_pred HHHHHhcCCCEEEeeCC
Q 025126 131 EEEVVNCSIDLIITFDN 147 (257)
Q Consensus 131 ~~~i~~~~Pd~V~t~d~ 147 (257)
..++.+.+||+|+|..|
T Consensus 85 ~~il~r~rPdvii~nGp 101 (170)
T PF08660_consen 85 LRILRRERPDVIISNGP 101 (170)
T ss_pred HHHHHHhCCCEEEEcCC
Confidence 34556779999999844
No 227
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=26.52 E-value=4.4e+02 Score=23.08 Aligned_cols=95 Identities=11% Similarity=0.148 Sum_probs=52.1
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 59 TINYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
....|.+.|++= +.+++.+..+ .....|.+-..++++..|++ . ... ..+ ++.++..+.+.++++.
T Consensus 163 a~~~L~~~Ghr~-I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~--~-~~~-~~~--------~~~~~~~~~~~~~l~~- 228 (311)
T TIGR02405 163 LMANLYQQGHRH-ISFLGVDPSDKTTGLMRHNAYLAYCESANLE--P-IYQ-TGQ--------LSHESGYVLTDKVLKP- 228 (311)
T ss_pred HHHHHHHcCCCc-EEEEccCcccchhHHHHHHHHHHHHHHcCCC--c-eee-eCC--------CCHHHHHHHHHHHHhc-
Confidence 345556778753 3344322112 23467899999999999983 1 111 111 1223444556666654
Q ss_pred CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEE
Q 025126 138 SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEA 178 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ 178 (257)
+|+.|++.+. ..+..+..|+.+.+. .++.+
T Consensus 229 ~~tAi~~~~D----------~~A~g~~~~l~~~g~-~dvsv 258 (311)
T TIGR02405 229 ETTALVCATD----------TLALGAAKYLQELDR-SDVQV 258 (311)
T ss_pred CCCEEEECCc----------HHHHHHHHHHHHcCC-CCeEE
Confidence 6999998731 233455666655442 45544
No 228
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=26.37 E-value=3.4e+02 Score=21.70 Aligned_cols=23 Identities=4% Similarity=0.096 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHhcCCCEEEeeCC
Q 025126 125 SLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
++...+.+.+.+.+|++++.=.+
T Consensus 82 ~~~~~i~~~~~~~~~~~lviD~~ 104 (187)
T cd01124 82 ELIQRLKDAIEEFKAKRVVIDSV 104 (187)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCc
Confidence 55677788888889998776543
No 229
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.99 E-value=4.5e+02 Score=23.00 Aligned_cols=98 Identities=16% Similarity=0.195 Sum_probs=53.2
Q ss_pred HHHhCCCc-------EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025126 62 YLTSRRHN-------LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (257)
Q Consensus 62 ~~~~~G~~-------V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (257)
.+.+.|++ +.+++++..........|.+-.+++++..|. ..+...-. ..|+.+...+.+.+++
T Consensus 128 ~l~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~--~~~~~~~~--------~~~~~~~~~~~~~~~l 197 (305)
T cd06324 128 ALISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEHPD--VRLRQVVY--------AGWSEDEAYEQAENLL 197 (305)
T ss_pred HHHHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHCCC--ceEeeeec--------CCCCHHHHHHHHHHHH
Confidence 34456654 3455555322223456788889999988872 11111100 1244555666778888
Q ss_pred Hhc-CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEE
Q 025126 135 VNC-SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAW 179 (257)
Q Consensus 135 ~~~-~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~y 179 (257)
++. +||.|++.+ . ..+..+.+|+.+.+. ++++.+.
T Consensus 198 ~~~~~~~ai~~~~--d--------~~A~g~~~al~~~g~~vp~di~vi 235 (305)
T cd06324 198 KRYPDVRLIWAAN--D--------QMAFGALRAAKEAGRKPGRDVLFG 235 (305)
T ss_pred HHCCCccEEEECC--c--------hHHHHHHHHHHHcCCCcCCCEEEE
Confidence 764 588888873 1 233445666655442 2455444
No 230
>PRK14938 Ser-tRNA(Thr) hydrolase; Provisional
Probab=25.98 E-value=2.6e+02 Score=26.60 Aligned_cols=60 Identities=7% Similarity=0.032 Sum_probs=32.3
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
..+.-.+|....++.+|+ +++....|.-+.+.....-...++...+++.+. .+.++.-+|
T Consensus 51 v~~~a~~ei~~~a~~~~~--~~ivlypyAHLss~la~P~~A~~vl~~le~~~~-~~~eV~raP 110 (387)
T PRK14938 51 ILNEAINDILDVYSKVKA--ASVVIYPYAHLSSNLANPDTAIKVLESLENLLK-DKVKVYRAP 110 (387)
T ss_pred HHHHHHHHHHHHHHhcCC--ceEEEecchhcccccCChHHHHHHHHHHHHHHh-cCceEEEcC
Confidence 344455677778888888 667666664433221110011344455555444 556776666
No 231
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=25.97 E-value=4.6e+02 Score=23.11 Aligned_cols=76 Identities=9% Similarity=0.039 Sum_probs=38.4
Q ss_pred hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEeeCCCCCCCCchHHHHHHH
Q 025126 84 GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITFDNYGVSGHCNHRDVHHG 162 (257)
Q Consensus 84 ~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~d~~g~d~H~DH~~~~~a 162 (257)
...|.+-..++++..|+......+.+ .|+.++..+.+.+++++. +|+.|++.+ |.. +..
T Consensus 189 ~~~R~~gf~~~~~~~g~~~~~~~~~~----------~~~~~~~~~~~~~~l~~~~~~~ai~~~~--------D~~--A~g 248 (327)
T PRK10339 189 ADIREVAFAEYGRLKQVVREEDIWRG----------GFSSSSGYELAKQMLAREDYPKALFVAS--------DSI--AIG 248 (327)
T ss_pred hhHHHHHHHHHHHHcCCCChhheeec----------CcChhHHHHHHHHHHhCCCCCCEEEECC--------cHH--HHH
Confidence 35677777777777776211111110 122333345556666543 588888762 222 334
Q ss_pred HHHHHHccC--CCCccEEE
Q 025126 163 ICRSYLNGT--SERNIEAW 179 (257)
Q Consensus 163 v~~A~~~~~--~~~~~~~y 179 (257)
+..|+.+.+ -|.++.+.
T Consensus 249 ~~~al~~~g~~vP~di~vi 267 (327)
T PRK10339 249 VLRAIHERGLNIPQDISLI 267 (327)
T ss_pred HHHHHHHcCCCCCCceEEE
Confidence 555555443 24555544
No 232
>PLN02690 Agmatine deiminase
Probab=25.97 E-value=2e+02 Score=27.25 Aligned_cols=83 Identities=12% Similarity=-0.000 Sum_probs=41.9
Q ss_pred HHHHHHH-HHHcCCCCCcEEEccCCCCCC-CccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 88 KDELHRA-CAVLKIPLEQVKVLDLVDFQD-GFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 88 ~~E~~~A-~~~LGv~~~~~~~l~~~d~~d-g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
++|.++. .+.||+ +++++|+..-..| .++.. ++.+++++ .|++|+..-.. ...|+++.... +..+
T Consensus 191 k~~ie~~Lk~~LGv--~kvIWL~~g~~~DddTdGH------ID~larFv---~~~tvl~~~~~-d~~d~~y~~~~-~~~~ 257 (374)
T PLN02690 191 KEEIEEELKEYLGV--EKVIWLPRGLYGDDDTNGH------VDNMCCFA---RPGVVLLSWTD-DEDDPQYERSV-EALS 257 (374)
T ss_pred HHHHHHHHHHHhCC--CEEEEeCCCcCCCCCCCcc------ceeeEEec---CCCEEEEEecC-CCCCccHHHHH-HHHH
Confidence 3444444 566999 7899996422221 12111 34455555 78988877211 12355554443 3333
Q ss_pred HHHcc--CCCCccEEEEecc
Q 025126 166 SYLNG--TSERNIEAWELMT 183 (257)
Q Consensus 166 A~~~~--~~~~~~~~ye~~s 183 (257)
.+..+ ...+.+.+.+++.
T Consensus 258 ~L~~~~da~Gr~~~i~~lP~ 277 (374)
T PLN02690 258 ILSNTTDARGRKLQVIKLHV 277 (374)
T ss_pred HHHhhhhccCCccEEEEecC
Confidence 24332 2334566666654
No 233
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=25.93 E-value=4.6e+02 Score=23.43 Aligned_cols=61 Identities=18% Similarity=0.295 Sum_probs=35.7
Q ss_pred HHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCC-CCchHHHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVS-GHCNHRDVHHGICRSY 167 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d-~H~DH~~~~~av~~A~ 167 (257)
=+.+-+..+|++-.+....+ | +.+++.+.+...+.+ +|+||+. .|.. .|-|+ |.+++-.|+
T Consensus 25 ~la~~L~~~G~~v~~~~~Vg--D---------~~~~I~~~l~~a~~r--~D~vI~t--GGLGPT~DDi--T~e~vAka~ 86 (255)
T COG1058 25 FLADELTELGVDLARITTVG--D---------NPDRIVEALREASER--ADVVITT--GGLGPTHDDL--TAEAVAKAL 86 (255)
T ss_pred HHHHHHHhcCceEEEEEecC--C---------CHHHHHHHHHHHHhC--CCEEEEC--CCcCCCccHh--HHHHHHHHh
Confidence 34455667898443333333 2 346778888877776 9999998 4533 24444 334444443
No 234
>TIGR00032 argG argininosuccinate synthase. argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.
Probab=25.86 E-value=5.8e+02 Score=24.25 Aligned_cols=79 Identities=13% Similarity=0.165 Sum_probs=46.4
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCC-CCCCC--c-----ccc-----C-----
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLV-DFQDG--F-----DKL-----W----- 121 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~-d~~dg--~-----~~~-----~----- 121 (257)
+..+.+.|.+|..+++-.|.. ..-.++.++.|+.+|+ ....+.|.. .+... + +.. |
T Consensus 16 l~~l~e~g~~V~av~id~Gq~----~~e~~~a~~~a~~lGi--~~~~viD~~~ef~~~~~~~~i~~n~~y~~~Y~l~t~l 89 (394)
T TIGR00032 16 LKWLREKGYEVIAYTADVGQP----EEDIDAIPEKALEYGA--ENHYTIDAREEFVKDYGFAAIQANAFYEGTYPLSTAL 89 (394)
T ss_pred HHHHHHcCCEEEEEEEecCCC----hHHHHHHHHHHHHhCC--CeEEEEeCHHHHHHhhchhhhcCCccccCcccccchh
Confidence 344456799999999987732 2223345677899998 334566553 11100 0 000 0
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEe
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
....+.+.+.++-++...+.|.+
T Consensus 90 aR~li~~~l~~~A~~~G~~~Ia~ 112 (394)
T TIGR00032 90 ARPLIAKKLVEAAKKEGANAVAH 112 (394)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEE
Confidence 12356667788888888887764
No 235
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.58 E-value=5.2e+02 Score=23.56 Aligned_cols=84 Identities=12% Similarity=0.118 Sum_probs=49.0
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025126 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (257)
Q Consensus 61 ~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (257)
.++.++ |.+..+..+--|+.. ...-.|. -.++|+.+|+ +.....+|.. .+.+++.+.|.++-..-+
T Consensus 23 ~~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~LN~D~~ 90 (288)
T PRK14171 23 QELKSQTNASPKLAIVLVGDNPASIIYVKN--KIKNAHKIGI---DTLLVNLSTT-------IHTNDLISKINELNLDNE 90 (288)
T ss_pred HHHHhccCCCCeEEEEEeCCCccHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 344444 766666666666543 2233333 3578999999 5556666541 245666666666655556
Q ss_pred CCEEEeeCCCCCCCCchHHH
Q 025126 139 IDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (257)
.+=|+.+-|.. .|.|-..
T Consensus 91 V~GIlvqlPLP--~~id~~~ 108 (288)
T PRK14171 91 ISGIIVQLPLP--SSIDKNK 108 (288)
T ss_pred CCEEEEeCCCC--CCCCHHH
Confidence 66677774433 5666444
No 236
>cd01635 Glycosyltransferase_GTB_type Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. The structures of the formed glycoconjugates are extremely diverse, reflecting a wide range of biological functions. The members of this family share a common GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.
Probab=25.47 E-value=2.4e+02 Score=22.42 Aligned_cols=10 Identities=10% Similarity=0.169 Sum_probs=4.8
Q ss_pred hcCCCEEEee
Q 025126 136 NCSIDLIITF 145 (257)
Q Consensus 136 ~~~Pd~V~t~ 145 (257)
+.+||+|+++
T Consensus 49 ~~~~D~i~~~ 58 (229)
T cd01635 49 GFKPDVVHAH 58 (229)
T ss_pred hcCCCEEEEc
Confidence 4445555444
No 237
>TIGR03568 NeuC_NnaA UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing. This family of enzymes catalyzes the combined epimerization and UDP-hydrolysis of UDP-N-acetylglucosamine to N-acetylmannosamine. This is in contrast to the related enzyme WecB (TIGR00236) which retains the UDP moiety. NeuC acts in concert with NeuA and NeuB to synthesize CMP-N5-acetyl-neuraminate.
Probab=25.20 E-value=2.2e+02 Score=26.38 Aligned_cols=92 Identities=12% Similarity=0.116 Sum_probs=46.7
Q ss_pred EEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHH---HHHHHHHcCCCCCcEEEccCCC-CCCCc
Q 025126 43 LLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDE---LHRACAVLKIPLEQVKVLDLVD-FQDGF 117 (257)
Q Consensus 43 L~i~aHPDDE~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~~~~~~R~~E---~~~A~~~LGv~~~~~~~l~~~d-~~dg~ 117 (257)
++++.=||= +-+.+.+..+.+. +.++.+|. +|.. +..| ........|.+...-..++... ...++
T Consensus 5 ~v~GtRpe~--iklapv~~~l~~~~~~~~~lv~--tGqH------~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 (365)
T TIGR03568 5 VVTGTRADY--GLLRPLLKALQDDPDLELQLIV--TGMH------LSPEYGNTVNEIEKDGFDIDEKIEILLDSDSNAGM 74 (365)
T ss_pred EEEecChhH--HHHHHHHHHHhcCCCCcEEEEE--eCCC------CChhhccHHHHHHHcCCCCCCccccccCCCCCCCH
Confidence 455666654 3468999999874 56665554 4432 1111 1122222333111111222211 00011
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 118 DKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
.+ ....+...+.+++++.+||+|+++.
T Consensus 75 ~~--~~~~~~~~~~~~~~~~~Pd~vlv~G 101 (365)
T TIGR03568 75 AK--SMGLTIIGFSDAFERLKPDLVVVLG 101 (365)
T ss_pred HH--HHHHHHHHHHHHHHHhCCCEEEEeC
Confidence 11 1235567889999999999999884
No 238
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=24.97 E-value=6.7e+02 Score=24.69 Aligned_cols=82 Identities=16% Similarity=0.084 Sum_probs=45.4
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc--CCCCCcEEEccCCCCC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVL--KIPLEQVKVLDLVDFQ 114 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L--Gv~~~~~~~l~~~d~~ 114 (257)
..++|+ +|..-|| -+ -|+..-+.+.|.++..+..++++. .=++|+++.++.. |. +..++.-.|
T Consensus 361 l~GKrv-aI~gdpd-~~---~~l~~fL~ElGmepv~v~~~~~~~-----~~~~~l~~ll~~~~~~~---~~~v~~~~D-- 425 (515)
T TIGR01286 361 LHGKRF-AIYGDPD-FV---MGLVRFVLELGCEPVHILCTNGTK-----RWKAEMKALLAASPYGQ---NATVWIGKD-- 425 (515)
T ss_pred hcCceE-EEECCHH-HH---HHHHHHHHHCCCEEEEEEeCCCCH-----HHHHHHHHHHhcCCCCC---ccEEEeCCC--
Confidence 356777 4555664 33 355555668899987677666542 1233344333322 32 222222111
Q ss_pred CCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 115 DGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 115 dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
...+++++.+.+||++|..
T Consensus 426 ------------l~~l~~~l~~~~~DlliG~ 444 (515)
T TIGR01286 426 ------------LWHLRSLVFTEPVDFLIGN 444 (515)
T ss_pred ------------HHHHHHHHhhcCCCEEEEC
Confidence 1345677888899999976
No 239
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.97 E-value=5.3e+02 Score=23.43 Aligned_cols=85 Identities=13% Similarity=0.126 Sum_probs=48.8
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025126 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (257)
Q Consensus 60 l~~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (257)
+.++.++ |....+..+--|+.. ...-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-..-
T Consensus 22 v~~l~~~~g~~P~Laii~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~d~ 89 (284)
T PRK14179 22 VAKLKEEKGIVPGLVVILVGDNPASQVYVRN--KERSALAAGF---KSEVVRLPET-------ISQEELLDLIERYNQDP 89 (284)
T ss_pred HHHHHhccCCCceEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 666666666666543 2233333 3578999999 4555565541 24566777777776666
Q ss_pred CCCEEEeeCCCCCCCCchHHH
Q 025126 138 SIDLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (257)
..+=|+.+-|.. .|.|-..
T Consensus 90 ~V~GIivqlPlp--~~i~~~~ 108 (284)
T PRK14179 90 TWHGILVQLPLP--KHINEEK 108 (284)
T ss_pred CCCEEEEcCCCC--CCCCHHH
Confidence 667677774433 4555433
No 240
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=24.90 E-value=2.6e+02 Score=21.70 Aligned_cols=58 Identities=21% Similarity=0.277 Sum_probs=33.6
Q ss_pred HHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 91 LHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.++.+|. ++.... .+| +.+++.+.+.+.++ +.|+|+|. .| .+....-.+.+++.+
T Consensus 23 l~~~l~~~G~---~~~~~~~v~D---------d~~~I~~~l~~~~~--~~dliitt--GG-~g~g~~D~t~~~l~~ 81 (135)
T smart00852 23 LAELLTELGI---EVTRYVIVPD---------DKEAIKEALREALE--RADLVITT--GG-TGPGPDDVTPEAVAE 81 (135)
T ss_pred HHHHHHHCCC---eEEEEEEeCC---------CHHHHHHHHHHHHh--CCCEEEEc--CC-CCCCCCcCcHHHHHH
Confidence 4556777887 233222 122 34677778888775 48999998 34 333333344455544
No 241
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=24.74 E-value=3e+02 Score=26.68 Aligned_cols=54 Identities=15% Similarity=0.171 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHcCCCCCc------EEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 85 NIRKDELHRACAVLKIPLEQ------VKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 85 ~~R~~E~~~A~~~LGv~~~~------~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
+....++..-|+.+|++.++ +.++..+.. .. ..++.+..+.+.+++.+|+.|+.
T Consensus 300 eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~-----~~-~~~~~~~~i~~~i~~~~~~~vvI 359 (484)
T TIGR02655 300 EESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPE-----SA-GLEDHLQIIKSEIADFKPARIAI 359 (484)
T ss_pred eCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccc-----cC-ChHHHHHHHHHHHHHcCCCEEEE
Confidence 44555666667888885432 444442211 11 34667888899999999997664
No 242
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=24.55 E-value=2.7e+02 Score=19.97 Aligned_cols=19 Identities=26% Similarity=0.246 Sum_probs=16.3
Q ss_pred HHHHHHHHHhcCCCEEEee
Q 025126 127 AKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~ 145 (257)
.+.|.+.+++.++|+|+.-
T Consensus 82 ~~~i~~~~~~~~~dlvvig 100 (130)
T cd00293 82 AEAILEAAEELGADLIVMG 100 (130)
T ss_pred HHHHHHHHHHcCCCEEEEc
Confidence 4678889999999999876
No 243
>PF02775 TPP_enzyme_C: Thiamine pyrophosphate enzyme, C-terminal TPP binding domain; InterPro: IPR011766 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the C-terminal TPP binding domain of TPP enzymes.; GO: 0003824 catalytic activity, 0030976 thiamine pyrophosphate binding; PDB: 2WVA_V 1ZPD_F 2WVG_B 2WVH_B 3OE1_D 2NXW_A 2Q5L_B 2Q5Q_B 2Q5J_A 2Q5O_A ....
Probab=24.50 E-value=2.3e+02 Score=22.35 Aligned_cols=89 Identities=12% Similarity=0.153 Sum_probs=53.0
Q ss_pred CCCcEEEEecCchhhhc-chHHHHHHHHhCCCcEEEEEEeCCCCCCchH-----------------HHHHHHHHHHHHcC
Q 025126 38 DKKNVLLVIAHPDDESM-FFSPTINYLTSRRHNLHILCMSNGNADGMGN-----------------IRKDELHRACAVLK 99 (257)
Q Consensus 38 ~~~~vL~i~aHPDDE~l-~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~-----------------~R~~E~~~A~~~LG 99 (257)
+.++++++. .|=.+ ....-|...++.+.++.++++.|+..+.... ...-...+.++.+|
T Consensus 45 p~~~vv~i~---GDG~f~~~~~el~ta~~~~~~v~~vv~nN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G 121 (153)
T PF02775_consen 45 PDRPVVAIT---GDGSFLMSLQELATAVRYGLPVVIVVLNNGGYGMTGGQQTPFGGGRFSGVDGKTFPNPDFAALAEAFG 121 (153)
T ss_dssp TTSEEEEEE---EHHHHHHHGGGHHHHHHTTSSEEEEEEESSBSHHHHHHHHHTTSTCHHSTBTTTSTTCGHHHHHHHTT
T ss_pred CcceeEEec---CCcceeeccchhHHHhhccceEEEEEEeCCcceEeccccccCcCcccccccccccccCCHHHHHHHcC
Confidence 345666665 35443 3446677788899999999999986531000 11123444555556
Q ss_pred CCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEE
Q 025126 100 IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLI 142 (257)
Q Consensus 100 v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V 142 (257)
+ + ....+ ..+.+++.+.|++.++.-+|.+|
T Consensus 122 ~--~-~~~v~----------~~~~~el~~al~~a~~~~gp~vI 151 (153)
T PF02775_consen 122 I--K-GARVT----------TPDPEELEEALREALESGGPAVI 151 (153)
T ss_dssp S--E-EEEES----------CHSHHHHHHHHHHHHHSSSEEEE
T ss_pred C--c-EEEEc----------cCCHHHHHHHHHHHHhCCCcEEE
Confidence 5 1 11111 11337888889998887788775
No 244
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=24.46 E-value=4.4e+02 Score=22.37 Aligned_cols=80 Identities=5% Similarity=-0.059 Sum_probs=45.2
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCCEEEeeCCCCCCCCchHHHHHH
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHH 161 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~~~~ 161 (257)
....|.+-.+++++..|++......... .++.++..+.+.+++++ .+|+.|++.+. ..+.
T Consensus 133 ~~~~R~~gf~~~~~~~g~~~~~~~~~~~---------~~~~~~~~~~~~~~l~~~~~~~ai~~~~d----------~~a~ 193 (269)
T cd06297 133 VFAERRAGFQQALKDAGRPFSPDLLAIT---------DHSEEGGRLAMRHLLEKASPPLAVFASAD----------QQAL 193 (269)
T ss_pred cHHHHHHHHHHHHHHcCCCCChhhEEeC---------CCChhhHHHHHHHHHcCCCCCcEEEEcCc----------HHHH
Confidence 4567889999999998884221111111 11233445566777764 35899998842 2445
Q ss_pred HHHHHHHccC--CCCccEEEEe
Q 025126 162 GICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 162 av~~A~~~~~--~~~~~~~ye~ 181 (257)
.+.+|+.+.+ -+.++.+.-.
T Consensus 194 g~~~~l~~~g~~vP~di~vvg~ 215 (269)
T cd06297 194 GALQEAVELGLTVGEDVRVVGF 215 (269)
T ss_pred HHHHHHHHcCCCCCCceEEEEE
Confidence 5666565443 2445555443
No 245
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=24.15 E-value=4.3e+02 Score=22.16 Aligned_cols=88 Identities=11% Similarity=0.083 Sum_probs=49.0
Q ss_pred CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEe
Q 025126 67 RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIIT 144 (257)
Q Consensus 67 G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t 144 (257)
|++ .+.+++ |........|.+-.+++++.. |+ .+. .... + ++.+...+.+.+++++. +|+.|++
T Consensus 120 g~~-~i~~i~-~~~~~~~~~R~~gf~~~~~~~~~~---~~~--~~~~---~----~~~~~~~~~~~~~l~~~~~~~ai~~ 185 (267)
T cd06322 120 GKG-QVAIID-YPTVQSVVDRVRGFKEALADYPNI---KIV--AVQP---G----ITRAEALTAAQNILQANPDLDGIFA 185 (267)
T ss_pred CCc-eEEEEe-cCCCccHHHHHHHHHHHHHhCCCc---EEE--EecC---C----CChHHHHHHHHHHHHhCCCCCEEEE
Confidence 654 444555 332334567888889999888 77 222 1111 0 12244555667777653 5888888
Q ss_pred eCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEE
Q 025126 145 FDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAW 179 (257)
Q Consensus 145 ~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~y 179 (257)
.+.. .+..+.+|+.+.+. +++.+.
T Consensus 186 ~~d~----------~a~~~~~al~~~g~-~di~vv 209 (267)
T cd06322 186 FGDD----------AALGAVSAIKAAGR-DNVKVI 209 (267)
T ss_pred cCCc----------HHHHHHHHHHHCCC-CCeEEE
Confidence 7321 34456666665554 455444
No 246
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=24.15 E-value=3.8e+02 Score=23.75 Aligned_cols=41 Identities=20% Similarity=0.127 Sum_probs=25.7
Q ss_pred HHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHH
Q 025126 90 ELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEE 133 (257)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~ 133 (257)
|-.+||..||+ .+++++-|....+.....+.+++.+.+.+.
T Consensus 214 eKi~AA~~lgi---~vivI~RP~~~~~~~~~~~~~el~~~l~~~ 254 (256)
T TIGR00715 214 EKVKAAEALGI---NVIRIARPQTIPGVAIFDDISQLNQFVARL 254 (256)
T ss_pred HHHHHHHHcCC---cEEEEeCCCCCCCCccCCCHHHHHHHHHHh
Confidence 44589999999 688888887543212223455665555543
No 247
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=24.14 E-value=4.4e+02 Score=22.21 Aligned_cols=84 Identities=14% Similarity=0.171 Sum_probs=45.7
Q ss_pred CchhhhcchHHHHHHH-HhC--CC-cEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCC
Q 025126 48 HPDDESMFFSPTINYL-TSR--RH-NLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWN 122 (257)
Q Consensus 48 HPDDE~l~~Ggtl~~~-~~~--G~-~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~ 122 (257)
..|++. +|-.++++ .+. |. ++.+ ++..........|.+...++++..| + ....... ..|+
T Consensus 102 ~~d~~~--~g~~~~~~l~~~~~~~~~i~~--i~~~~~~~~~~~R~~gf~~~l~~~~~~-----~~~~~~~------~~~~ 166 (272)
T cd06301 102 GSDEVV--AGRLQAEYVADKLGGKGNVAI--LMGPLGQSAQIDRTKGVEEVLAKYPDI-----KVVEEQT------ANWS 166 (272)
T ss_pred ecChHH--HHHHHHHHHHHHhCCCccEEE--EECCCCCccHHHHHHHHHHHHHHCCCc-----EEEecCC------CCcc
Confidence 346655 23333333 344 43 4443 4332223345788888999998877 3 2222111 1234
Q ss_pred hHHHHHHHHHHHHhc-CCCEEEeeC
Q 025126 123 HKSLAKIVEEEVVNC-SIDLIITFD 146 (257)
Q Consensus 123 ~~~l~~~l~~~i~~~-~Pd~V~t~d 146 (257)
.+...+.+.+++++. +|+.|++.+
T Consensus 167 ~~~~~~~~~~~l~~~~~~~ai~~~~ 191 (272)
T cd06301 167 RAEAMDLMENWLSSGGKIDAVVANN 191 (272)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECC
Confidence 445556777777664 579998873
No 248
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=24.08 E-value=4.5e+02 Score=22.39 Aligned_cols=72 Identities=11% Similarity=0.129 Sum_probs=40.0
Q ss_pred hCCC---cEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025126 65 SRRH---NLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (257)
Q Consensus 65 ~~G~---~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (257)
++|+ ++.++..+..+ ......|.+...++++..|++... .+..+. ..|+.+...+.+.+++.+. +|+
T Consensus 124 ~~g~~~~~i~~i~~~~~~-~~~~~~R~~G~~~~l~~~~~~~~~--~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~ 194 (289)
T cd01540 124 KRGWDPKEVGALRITYDE-LDTAKPRTDGALEALKAPGFPEAN--IFQAPQ------KTTDTEGAFDAAASTLTKNPNVK 194 (289)
T ss_pred hhcCCCcceEEEEecCCC-CcchhhHHHHHHHHHhcCCCCcce--Eecccc------cCcchhhHHHHHHHHHHhCCCcC
Confidence 3565 66655443222 224578999999999988874222 222111 1233444456667777654 356
Q ss_pred --EEEee
Q 025126 141 --LIITF 145 (257)
Q Consensus 141 --~V~t~ 145 (257)
.|++.
T Consensus 195 ~~~i~~~ 201 (289)
T cd01540 195 NWIIYGL 201 (289)
T ss_pred eeEEEeC
Confidence 56665
No 249
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=23.98 E-value=2.1e+02 Score=26.83 Aligned_cols=83 Identities=11% Similarity=-0.025 Sum_probs=47.0
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC---------CCCc--cccCChH----
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF---------QDGF--DKLWNHK---- 124 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~---------~dg~--~~~~~~~---- 124 (257)
+..+.+.|.+|..+++..++... ...-.+..++.|+.||+ .++.++.++. .+.. ....++.
T Consensus 22 a~LL~~~G~~V~~v~~~~~~~~~-~~~d~~~a~~va~~LgI---p~~vvd~~~~f~~~v~~~f~~~y~~g~tpnpC~~Cn 97 (360)
T PRK14665 22 AMLLLEAGYEVTGVTFRFYEFNG-STEYLEDARALAERLGI---GHITYDARKVFRKQIIDYFIDEYMSGHTPVPCTLCN 97 (360)
T ss_pred HHHHHHcCCeEEEEEEecCCCCC-ChHHHHHHHHHHHHhCC---CEEEEecHHHHHHHHHhhhhhHHhccCCCCHHHHHH
Confidence 34445679999999997764322 12224456789999999 3556665421 0000 0111111
Q ss_pred -HHH-HHHHHHHHhcCCCEEEeeC
Q 025126 125 -SLA-KIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 125 -~l~-~~l~~~i~~~~Pd~V~t~d 146 (257)
.+. ..+.++.++...+.|.|-+
T Consensus 98 r~ikf~~l~~~A~~~G~~~IATGH 121 (360)
T PRK14665 98 NYLKWPLLAKIADEMGIFYLATGH 121 (360)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECC
Confidence 222 3456666778888888763
No 250
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=23.93 E-value=4.4e+02 Score=24.93 Aligned_cols=82 Identities=21% Similarity=0.137 Sum_probs=44.6
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (257)
..++++.+. +.||= .-|...-+.+.|.+|..+....++... +.|. |.. .+..+.+. ..+..+|
T Consensus 297 l~gk~v~i~-~~~~~----~~~l~~~L~e~G~~v~~v~~~~~~~~~--~~~~-~~~--~~~~~~~~---~~v~~~d---- 359 (428)
T cd01965 297 LGGKRVAIA-GDPDL----LLGLSRFLLEMGAEPVAAVTGTDNPPF--EKRM-ELL--ASLEGIPA---EVVFVGD---- 359 (428)
T ss_pred hcCCEEEEE-cChHH----HHHHHHHHHHcCCcceEEEEcCCCchh--HHHH-HHh--hhhcCCCc---eEEECCC----
Confidence 456777655 56663 246666677889988766665443321 2222 221 22233311 1222111
Q ss_pred ccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 117 FDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
. ..+.+.+++.+||+|+..
T Consensus 360 ------~----~el~~~i~~~~pdliig~ 378 (428)
T cd01965 360 ------L----WDLESLAKEEPVDLLIGN 378 (428)
T ss_pred ------H----HHHHHHhhccCCCEEEEC
Confidence 1 345678888899999976
No 251
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=23.89 E-value=5e+02 Score=22.77 Aligned_cols=70 Identities=17% Similarity=0.236 Sum_probs=38.5
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEE-EEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEcc
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHIL-CMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLD 109 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv-~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~ 109 (257)
..-+|+-+++|.+||-. ......+.++|.+|.-. .+--.+....+.+-.+++.++++.+.-+..+-+|+.
T Consensus 118 lg~~RIalvTPY~~~v~---~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~~~~~aDAifis 188 (239)
T TIGR02990 118 LGVRRISLLTPYTPETS---RPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAAFDPDADALFLS 188 (239)
T ss_pred cCCCEEEEECCCcHHHH---HHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHhcCCCCCEEEEe
Confidence 45678999999988875 44555666788877654 221111122344444455555554432222444544
No 252
>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=23.85 E-value=2.6e+02 Score=25.80 Aligned_cols=56 Identities=21% Similarity=0.261 Sum_probs=39.6
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
+|+.|+.|+.+|. |-= -++.|||-|.. |.+- -..+.+.+.|.++-++.+..+++|.
T Consensus 159 lGqRmraeLaaaL--Lh~--p~VLfLDEpTv--gLDV-~aq~~ir~Flke~n~~~~aTVllTT 214 (325)
T COG4586 159 LGQRMRAELAAAL--LHP--PKVLFLDEPTV--GLDV-NAQANIREFLKEYNEERQATVLLTT 214 (325)
T ss_pred chHHHHHHHHHHh--cCC--CcEEEecCCcc--Ccch-hHHHHHHHHHHHHHHhhCceEEEEe
Confidence 5788888875543 543 36899998864 3332 1346777888888888899998887
No 253
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=23.71 E-value=4.7e+02 Score=22.42 Aligned_cols=45 Identities=16% Similarity=0.144 Sum_probs=25.1
Q ss_pred HHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 92 HRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 92 ~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
.+.|+..|++ +...+..+.. .... .. +.+.+.+++++||++++..
T Consensus 42 ~~~A~~~gIp---~~~~~~~~~~--~~~~-~~----~~~~~~l~~~~~Dliv~ag 86 (207)
T PLN02331 42 AEYARENGIP---VLVYPKTKGE--PDGL-SP----DELVDALRGAGVDFVLLAG 86 (207)
T ss_pred HHHHHHhCCC---EEEeccccCC--Cccc-ch----HHHHHHHHhcCCCEEEEeC
Confidence 4567778994 3444332211 0111 12 2445667888999998873
No 254
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=23.71 E-value=5.4e+02 Score=23.15 Aligned_cols=43 Identities=12% Similarity=0.104 Sum_probs=26.9
Q ss_pred HHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 93 RACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 93 ~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+.|+..|+| ++.++..+. +.++....+.+.+++++||+|+...
T Consensus 131 ~lA~~~gIp---~~~~~~~~~--------~~~~~~~~~~~~l~~~~~Dlivlag 173 (286)
T PRK06027 131 SLVERFGIP---FHHVPVTKE--------TKAEAEARLLELIDEYQPDLVVLAR 173 (286)
T ss_pred HHHHHhCCC---EEEeccCcc--------ccchhHHHHHHHHHHhCCCEEEEec
Confidence 347888993 444443210 1122334677888899999999884
No 255
>PRK09275 aspartate aminotransferase; Provisional
Probab=23.60 E-value=2.1e+02 Score=28.33 Aligned_cols=42 Identities=17% Similarity=0.063 Sum_probs=29.9
Q ss_pred CcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCC
Q 025126 103 EQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 103 ~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
.+..++..|..+-| ..++.++ .+.|.+++++.++++++..|.
T Consensus 242 tkai~l~nP~NPTG--~v~s~e~-l~~I~~ia~~~~~~l~II~DE 283 (527)
T PRK09275 242 IKALFLVNPSNPPS--VAMSDES-LEKIADIVNEKRPDLMIITDD 283 (527)
T ss_pred CCEEEEeCCcCCcC--CCCCHHH-HHHHHHHHHhcCCCcEEEECC
Confidence 46778888876544 4556555 467788888888999888864
No 256
>cd07995 TPK Thiamine pyrophosphokinase. Thiamine pyrophosphokinase (TPK, EC:2.7.6.2, also spelled thiamin pyrophosphokinase) catalyzes the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamine) to form the coenzyme thiamine pyrophosphate (TPP). TPP is required for central metabolic functions, and thiamine deficiency is associated with potentially fatal human diseases. The structure of thiamine pyrophosphokinase suggests that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis.
Probab=23.52 E-value=4.5e+02 Score=22.16 Aligned_cols=95 Identities=14% Similarity=0.126 Sum_probs=56.2
Q ss_pred chhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHH
Q 025126 49 PDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAK 128 (257)
Q Consensus 49 PDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~ 128 (257)
.+|..++|=|-...+.+.|....+++ ||.+.... |..+-.+..|+ .+..+|+-+|.. +...
T Consensus 21 ~~~~~i~aDgGa~~l~~~gi~Pd~ii---GDfDSi~~----~~~~~~~~~~~-----~~~~~p~~KD~T-------D~e~ 81 (208)
T cd07995 21 KADLIIAADGGANHLLDLGIVPDLII---GDFDSISP----EVLEYYKSKGV-----EIIHFPDEKDFT-------DFEK 81 (208)
T ss_pred cCCEEEEEChHHHHHHHcCCCCCEEE---ecCcCCCH----HHHHHHHhcCC-----eEEECCCCCCCC-------HHHH
Confidence 44556677777788888888777766 77766532 22333333465 355566544422 2223
Q ss_pred HHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 129 IVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 129 ~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
.|....++ .++-|+.. .+.++-.||....-....
T Consensus 82 Al~~~~~~-~~~~i~i~--Ga~GgR~DH~lani~~l~ 115 (208)
T cd07995 82 ALKLALER-GADEIVIL--GATGGRLDHTLANLNLLL 115 (208)
T ss_pred HHHHHHHc-CCCEEEEE--ccCCCcHHHHHHHHHHHH
Confidence 34444433 55666666 455689999987766654
No 257
>KOG3500 consensus Vacuolar H+-ATPase V0 sector, subunit M9.7 (M9.2) [Energy production and conversion]
Probab=23.45 E-value=1.4e+02 Score=22.05 Aligned_cols=39 Identities=13% Similarity=0.254 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHhhccCcccccccccCCCCCcEEEEecC
Q 025126 6 VIVSTIVVWVASLFKILNSSRSQSNAAFLTTGDKKNVLLVIAH 48 (257)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~i~aH 48 (257)
+++-+|+-|+++++.+.-+.|+...+| .+++.+..++-|
T Consensus 38 lvlTAVCCwlfWli~ylaQlNPLigP~----lk~~~I~~i~~~ 76 (84)
T KOG3500|consen 38 LVLTAVCCWLFWLIVYLAQLNPLIGPQ----LKEKTIRGIITS 76 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcccccc----cccceeeehHhh
Confidence 444558899999999998888755555 666666655443
No 258
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=23.29 E-value=5.5e+02 Score=24.58 Aligned_cols=91 Identities=16% Similarity=0.187 Sum_probs=50.8
Q ss_pred HHHHHHHhCCC-------cEEEEEEeCCCC----C---CchH---HHHHHHHHHHHHcCCCCCcEEEccC-CCCCCCccc
Q 025126 58 PTINYLTSRRH-------NLHILCMSNGNA----D---GMGN---IRKDELHRACAVLKIPLEQVKVLDL-VDFQDGFDK 119 (257)
Q Consensus 58 gtl~~~~~~G~-------~V~vv~lT~G~~----~---~~~~---~R~~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~ 119 (257)
+.|..|+..|. +..+.+++.|+. + ..++ .-..-+.+.++.+|+ ++..... +|
T Consensus 175 ~~i~~Las~G~~~V~V~~~prV~IisTGdEl~~~g~~~~~g~i~dsN~~~L~a~l~~~G~---~v~~~~~v~D------- 244 (419)
T PRK14690 175 ADLALLSAVGLTRVSVRRPLRVAVLSTGDELVEPGALAEVGQIYDANRPMLLALARRWGH---APVDLGRVGD------- 244 (419)
T ss_pred HHHHHHHhCCCCeeEeecCCEEEEEEccccccCCCCCCCCCeEEeCHHHHHHHHHHHCCC---EEEEEeeeCC-------
Confidence 56777888783 234667788863 1 0122 223345566888998 3433332 22
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
+.+.+.+.|.+.++ +-|+|+|. .| .+.-|.-.+..+..+
T Consensus 245 --d~~~i~~~l~~a~~--~~DlIItT--GG-~S~G~~D~v~~~l~~ 283 (419)
T PRK14690 245 --DRAALAARLDRAAA--EADVILTS--GG-ASAGDEDHVSALLRE 283 (419)
T ss_pred --CHHHHHHHHHHhCc--cCCEEEEc--CC-ccCCCcchHHHHHHh
Confidence 34566677776654 47999998 33 344444444444444
No 259
>PF06508 QueC: Queuosine biosynthesis protein QueC; InterPro: IPR018317 This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In Rhizobium meliloti (Sinorhizobium meliloti), a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA [, ]. In Arthrobacter viscosus, the homologous gene is designated alu1 and is associated with an aluminum tolerance phenotype. When expressed in Escherichia coli, it conferred aliminium tolerance []. The entry also contains the gene queC, which is responsible for the conversion of GTP to 7-cyano-7-deazaguanine (preQ0). The biosynthesis of hypermodified tRNA nucleoside queuosine only occurs in eubacteria. It occupies the wobble position for all known tRNAs that are specific for Asp, Asn, His or Tyr [].; PDB: 3BL5_B 2PG3_A.
Probab=23.14 E-value=91 Score=26.76 Aligned_cols=47 Identities=13% Similarity=0.259 Sum_probs=27.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCC
Q 025126 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLV 111 (257)
Q Consensus 60 l~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~ 111 (257)
+..+.+.|.+|+.+++.-|.. ...+. +-.++.++.||+ ++..+++.+
T Consensus 16 l~~~~~~~~~v~al~~~YGq~-~~~El--~~a~~i~~~l~v--~~~~~i~l~ 62 (209)
T PF06508_consen 16 LYWAKKEGYEVYALTFDYGQR-HRREL--EAAKKIAKKLGV--KEHEVIDLS 62 (209)
T ss_dssp HHHHHHH-SEEEEEEEESSST-TCHHH--HHHHHHHHHCT---SEEEEEE-C
T ss_pred HHHHHHcCCeEEEEEEECCCC-CHHHH--HHHHHHHHHhCC--CCCEEeeHH
Confidence 455667899999999998854 22121 113455888999 345555554
No 260
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=23.10 E-value=91 Score=25.93 Aligned_cols=38 Identities=24% Similarity=0.329 Sum_probs=23.9
Q ss_pred CcEEEEecCchhhhcchHHHHH-----HHHhCC-CcEEEEEEeCC
Q 025126 40 KNVLLVIAHPDDESMFFSPTIN-----YLTSRR-HNLHILCMSNG 78 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~-----~~~~~G-~~V~vv~lT~G 78 (257)
+++|+|.+||+-+- +.+..|+ .+.+.| .+|.++-+-.-
T Consensus 1 mkiLvI~asp~~~~-S~s~~l~~~~~~~~~~~~~~~v~~~dL~~~ 44 (199)
T PF02525_consen 1 MKILVINASPRPEG-SFSRALADAFLEGLQEAGPHEVEIRDLYEE 44 (199)
T ss_dssp EEEEEEE--SSTTT-SHHHHHHHHHHHHHHHHTTSEEEEEETTTT
T ss_pred CEEEEEEcCCCCcc-CHHHHHHHHHHHHHHHcCCCEEEEEECccc
Confidence 58999999999754 4444443 334567 77888877554
No 261
>TIGR00758 UDG_fam4 uracil-DNA glycosylase, family 4. This well-conserved family of proteins is about 200 residues in length and homologous to the N-terminus of the DNA polymerase of phage SPO1 of Bacillus subtilis. The member from Thermus thermophilus HB8 is known to act as uracil-DNA glycosylase, an enzyme of DNA base excision repair. Its appearance as a domain of phage DNA polymerases could be consistent with uracil-DNA glycosylase activity.
Probab=23.09 E-value=3.9e+02 Score=21.90 Aligned_cols=55 Identities=15% Similarity=0.151 Sum_probs=33.0
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCCCCccccCCh---HHHHHHHHHHHHhcCCCEEEee
Q 025126 91 LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNH---KSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~---~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
+.+..+.+|++++++++.+.-......+...+. +.....+.+.|+..+|.+|++.
T Consensus 50 L~~~l~~~gl~~~~vy~t~~~kc~P~~~r~P~~~Ei~~c~~~l~~eI~~v~P~~Iv~l 107 (173)
T TIGR00758 50 LDEMLAAIGLSRENVYITNVVKCRPPNNRDPTPEEVEACAPYLVKQIELIRPKVIICL 107 (173)
T ss_pred HHHHHHHcCCCcccEEEeccccccCCCCCCcCHHHHHHHHHHHHHHHHhcCCCEEEEE
Confidence 344555688888887776542111000111122 3345678888999999999998
No 262
>PRK00269 zipA cell division protein ZipA; Reviewed
Probab=23.08 E-value=77 Score=28.96 Aligned_cols=22 Identities=18% Similarity=0.351 Sum_probs=14.7
Q ss_pred Cch----HHHHHHHHH-H-HHHHHHHHh
Q 025126 1 MSW----LLVIVSTIV-V-WVASLFKIL 22 (257)
Q Consensus 1 ~~~----~~~~~~~~~-~-~~~~~~~~~ 22 (257)
|.| +|||||.|+ + ++|=+||--
T Consensus 1 m~~~l~~~livig~i~i~~il~~~~~r~ 28 (293)
T PRK00269 1 MEIGLREWLIVIGIIVIAGILFDGWRRM 28 (293)
T ss_pred CccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 556 667777777 3 677788843
No 263
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=23.05 E-value=1.9e+02 Score=21.96 Aligned_cols=63 Identities=11% Similarity=0.121 Sum_probs=36.7
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCC-CC-CchHHHHHHHHHH-HHHcCCCCCcEEE
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGN-AD-GMGNIRKDELHRA-CAVLKIPLEQVKV 107 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~-~~-~~~~~R~~E~~~A-~~~LGv~~~~~~~ 107 (257)
+.....++|.-|||.. |.+|| ...++.++.++... .+ +..+.-.+++.+. .+.||++++++++
T Consensus 33 gkPe~~~~v~~~~~~~-m~f~g-------~~~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi~~~rv~I 98 (116)
T PTZ00397 33 GKPLSYIMSGYDYQKH-MRFGG-------SHDGCCFVRVTSIGGISRSNNSSIAAAITKILASHLKVKSERVYI 98 (116)
T ss_pred CCChHHEEEEEeCCce-EEECC-------CCCceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhCcCcccEEE
Confidence 3444588999997765 44553 34577777777432 22 1122233444433 4569999988753
No 264
>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=22.93 E-value=73 Score=28.72 Aligned_cols=26 Identities=12% Similarity=0.072 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHhcCCCEEEee-CCCC
Q 025126 124 KSLAKIVEEEVVNCSIDLIITF-DNYG 149 (257)
Q Consensus 124 ~~l~~~l~~~i~~~~Pd~V~t~-d~~g 149 (257)
.+..+.+.+.+++.+||+|+.. ++|.
T Consensus 34 ~~a~~~i~~~v~~~~PDviVvi~sdH~ 60 (279)
T PRK13365 34 FDGYEPVAAWLAEQKADVLVFFYNDHC 60 (279)
T ss_pred HHHHHHHHHHHHHhCCCEEEEEcCchH
Confidence 3556678888999999998888 4443
No 265
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=22.85 E-value=2.5e+02 Score=24.58 Aligned_cols=54 Identities=19% Similarity=0.290 Sum_probs=35.0
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHH-HHHHHHHcCCCC
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDE-LHRACAVLKIPL 102 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E-~~~A~~~LGv~~ 102 (257)
+-|++++-=+|--+ .+..+.+.|.+|+.+++--|... .++-| .++.++.||++.
T Consensus 4 kavvl~SGG~DStt-----~l~~a~~~~~ev~alsfdYGQrh----~~Ele~A~~iak~lgv~~ 58 (222)
T COG0603 4 KAVVLLSGGLDSTT-----CLAWAKKEGYEVHALTFDYGQRH----RKELEAAKELAKKLGVPH 58 (222)
T ss_pred eEEEEccCChhHHH-----HHHHHHhcCCEEEEEEeeCCCCc----HHHHHHHHHHHHHcCCCe
Confidence 34666666666554 35666788999999999877432 23333 234478899953
No 266
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=22.75 E-value=84 Score=26.23 Aligned_cols=19 Identities=16% Similarity=0.335 Sum_probs=12.1
Q ss_pred HHHHHHHhCCCcEEEEEEeCCC
Q 025126 58 PTINYLTSRRHNLHILCMSNGN 79 (257)
Q Consensus 58 gtl~~~~~~G~~V~vv~lT~G~ 79 (257)
.+|.++.++ ..+..+|||.
T Consensus 106 ~~L~~l~~~---~~l~ilTNg~ 124 (229)
T COG1011 106 EALKELGKK---YKLGILTNGA 124 (229)
T ss_pred HHHHHHHhh---ccEEEEeCCC
Confidence 344444433 7788899984
No 267
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=22.69 E-value=4.7e+02 Score=22.05 Aligned_cols=52 Identities=15% Similarity=0.111 Sum_probs=33.3
Q ss_pred chHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEee
Q 025126 83 MGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITF 145 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~ 145 (257)
....|.+.++++++..| + ++... . ...|+.++..+.+.+++++. +|+.|++.
T Consensus 139 ~~~~R~~g~~~a~~~~~~~---~~~~~-~-------~~~~~~~~~~~~~~~~l~~~~~~~~i~~~ 192 (272)
T cd06300 139 VDEDRYAGAKEVLKEYPGI---KIVGE-V-------YGDWDQAVAQKAVADFLASNPDVDGIWTQ 192 (272)
T ss_pred chHHHHHHHHHHHHHCCCc---EEEee-c-------CCCCCHHHHHHHHHHHHHhCCCcCEEEec
Confidence 45678888999988877 5 22111 1 01245556667778888764 47888887
No 268
>PRK13551 agmatine deiminase; Provisional
Probab=22.37 E-value=3.3e+02 Score=25.57 Aligned_cols=84 Identities=14% Similarity=-0.003 Sum_probs=43.7
Q ss_pred HHHHHHH-HHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHH
Q 025126 88 KDELHRA-CAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRS 166 (257)
Q Consensus 88 ~~E~~~A-~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A 166 (257)
++|.++. .+.||+ +++++|+..-..|..+.. ++.+++++ +|+.|+..... ...|++|..... ..+.
T Consensus 182 ~~~ie~~Lk~~LGv--~kvIWL~~g~~~DdTdGH------iD~~arFv---~~~~vl~~~~~-d~~d~~~~~~~~-~~~~ 248 (362)
T PRK13551 182 KEQIEQLLRDYLGV--EKVIWLPDGIYNDETDGH------VDNVCCFV---RPGEVALAWTD-DENDPQYARSKA-ALEV 248 (362)
T ss_pred HHHHHHHHHHHHCC--CEEEEECCCCCCCCCCcc------hhheEEee---CCCEEEEEecC-CCCCccHHHHHH-HHHH
Confidence 4444444 566999 789999753222222211 34555555 78888776321 124666644433 3332
Q ss_pred HHcc--CCCCccEEEEecch
Q 025126 167 YLNG--TSERNIEAWELMTT 184 (257)
Q Consensus 167 ~~~~--~~~~~~~~ye~~s~ 184 (257)
+.+. ...+.+.+.+++.+
T Consensus 249 L~~~~da~G~~~~i~~lP~P 268 (362)
T PRK13551 249 LENTTDAKGRKLKVHKLPIP 268 (362)
T ss_pred HHhhhhccCCccEEEEecCC
Confidence 4332 23445666666544
No 269
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=22.28 E-value=7e+02 Score=23.92 Aligned_cols=90 Identities=13% Similarity=0.099 Sum_probs=43.0
Q ss_pred cEEEEecCchhhhcchHHHHHHHHh--CCCcEEEEEEeCCCCCCc-------hHHHHHHHHHHHHHc--CCCCCcEEEcc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTS--RRHNLHILCMSNGNADGM-------GNIRKDELHRACAVL--KIPLEQVKVLD 109 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~--~G~~V~vv~lT~G~~~~~-------~~~R~~E~~~A~~~L--Gv~~~~~~~l~ 109 (257)
++=+.+.|||+.. -.+|..+++ +|.+-.-+-+-+|+..-+ ......|..+-++.. |+...--.+.|
T Consensus 242 ~ir~~s~~p~~i~---~ell~~m~~~~~gc~~l~iglQSgsd~vLk~m~R~~t~e~~~~~v~~ir~~~pgi~i~~d~IvG 318 (455)
T PRK14335 242 WIRFMSSHPKDLS---DDLIATIAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYLSLVGKLKASIPNVALSTDILIG 318 (455)
T ss_pred EEEEeecCcccCC---HHHHHHHHhCCCCCCeEEEccCcCCHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEe
Confidence 3444677888643 344555655 356555555555543211 111222222223333 44212224577
Q ss_pred CCCCCCCccccCChHHHHHHHHHHHHhcCCCEE
Q 025126 110 LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLI 142 (257)
Q Consensus 110 ~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V 142 (257)
+|. +.++-.+...+++++.+++.+
T Consensus 319 fPg---------ET~edf~~Tl~~i~~l~~~~~ 342 (455)
T PRK14335 319 FPG---------ETEEDFEQTLDLMREVEFDSA 342 (455)
T ss_pred CCC---------CCHHHHHHHHHHHHhcCCCeE
Confidence 764 112334556667777788853
No 270
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=22.26 E-value=7e+02 Score=24.01 Aligned_cols=84 Identities=18% Similarity=0.244 Sum_probs=44.4
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (257)
..++|+.++ ..|| -.+ |.-.-+.+.|.++.++++++.........+.+|+.+. ++. ....+..+|
T Consensus 303 l~Gkrv~i~-g~~~-~~~---~l~~fl~elGm~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~---~~~vi~~~d---- 367 (454)
T cd01973 303 FANKKVAIF-GHPD-LVI---GLAEFCLEVEMKPVLLLLGDDNSKYKKDPRIKALKEK---ADY---DMEIVTNAD---- 367 (454)
T ss_pred hCCCeEEEE-cCHH-HHH---HHHHHHHHCCCeEEEEEECCCCcccchhHHHHHHHhh---cCC---CceEEECCC----
Confidence 456777655 6774 232 3333344689998888887764433223333444322 333 112333222
Q ss_pred ccccCChHHHHHHHHHHHHh--cCCCEEEee
Q 025126 117 FDKLWNHKSLAKIVEEEVVN--CSIDLIITF 145 (257)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~--~~Pd~V~t~ 145 (257)
. ..+++.+++ .+||+++..
T Consensus 368 ------~----~e~~~~i~~~~~~~dliig~ 388 (454)
T cd01973 368 ------L----WELEKRIKNKGLELDLILGH 388 (454)
T ss_pred ------H----HHHHHHHHhcCCCCCEEEEC
Confidence 1 234556665 469999976
No 271
>PF03104 DNA_pol_B_exo1: DNA polymerase family B, exonuclease domain Several related DNA polymerases were too dissimilar to be included.; InterPro: IPR006133 DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases 2.7.7.7 from EC) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known. However, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate []. This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold [].; GO: 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1QHT_A 4AHC_A 3A2F_A 2JGU_A 4AIL_C 1NOY_A 1NOZ_B 3IAY_A 1WNS_A 3K5O_A ....
Probab=22.23 E-value=92 Score=27.73 Aligned_cols=26 Identities=15% Similarity=0.250 Sum_probs=21.8
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeCC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (257)
++.++.....+.|++..||+|+.++-
T Consensus 221 ~E~~lL~~f~~~i~~~dPDii~GyN~ 246 (325)
T PF03104_consen 221 SEKELLEAFLDIIQEYDPDIITGYNI 246 (325)
T ss_dssp SHHHHHHHHHHHHHHHS-SEEEESST
T ss_pred CHHHHHHHHHHHHHhcCCcEEEEecc
Confidence 56788999999999999999999953
No 272
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=22.17 E-value=5.4e+02 Score=22.53 Aligned_cols=99 Identities=11% Similarity=0.147 Sum_probs=53.3
Q ss_pred CCCcEEEEecCchh-hhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCC----CcEEEccCCC
Q 025126 38 DKKNVLLVIAHPDD-ESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPL----EQVKVLDLVD 112 (257)
Q Consensus 38 ~~~~vL~i~aHPDD-E~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~----~~~~~l~~~d 112 (257)
...++.+|..-|.- =+.+|-=.+...+++|.++..+.+- +. .+...+.+...++.+|.+. +++.+++...
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~E--e~---~~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~ 108 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVE--SP---ANFVYTSLKERAKAMGVDFDKIEENIILIDAAS 108 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEec--CC---chHHHHHHHHHHHHcCCCHHHHhCCEEEEECCC
Confidence 34566666766642 2333333344445678887766652 21 1222223444555677642 2456665432
Q ss_pred CCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 113 FQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 113 ~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
.. ...-+.+++...+.+.+++.+|+.|+.
T Consensus 109 ~~---~~~~~~~~l~~~l~~~i~~~~~~~vVI 137 (259)
T TIGR03878 109 ST---ELRENVPNLLATLAYAIKEYKVKNTVI 137 (259)
T ss_pred ch---hhhhhHHHHHHHHHHHHHhhCCCEEEE
Confidence 10 000134567788888899999997654
No 273
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=22.14 E-value=82 Score=28.56 Aligned_cols=24 Identities=13% Similarity=0.241 Sum_probs=19.2
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEee
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
++.+.-+.+.+++++++||+++..
T Consensus 137 ~E~eqp~~i~~Ll~~~~PDIlViT 160 (283)
T TIGR02855 137 KEKEMPEKVLDLIEEVRPDILVIT 160 (283)
T ss_pred cchhchHHHHHHHHHhCCCEEEEe
Confidence 445667889999999999986655
No 274
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=22.13 E-value=3.8e+02 Score=20.95 Aligned_cols=71 Identities=14% Similarity=0.147 Sum_probs=27.8
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC-CEEE
Q 025126 65 SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI-DLII 143 (257)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P-d~V~ 143 (257)
++|..- .+.+|.|........-.+-+++.+...|++.+.+...+... +..+-+....+++.+.+. .+++
T Consensus 34 ~~g~~~-~il~SGg~~~~~~~~ea~~~~~~l~~~gvp~~~I~~e~~s~---------~T~ena~~~~~~~~~~~~~~iil 103 (155)
T PF02698_consen 34 KAGYAP-RILFSGGYGHGDGRSEAEAMRDYLIELGVPEERIILEPKST---------NTYENARFSKRLLKERGWQSIIL 103 (155)
T ss_dssp H-HHT---EEEE--SSTTHTS-HHHHHHHHHHHT---GGGEEEE-------------SHHHHHHHHHHHHHT-SSS-EEE
T ss_pred hcCCCC-eEEECCCCCCCCCCCHHHHHHHHHHhcccchheeEccCCCC---------CHHHHHHHHHHHHHhhcCCeEEE
Confidence 344333 35556654432222233345556666799876665533211 222334566777777653 3433
Q ss_pred ee
Q 025126 144 TF 145 (257)
Q Consensus 144 t~ 145 (257)
..
T Consensus 104 VT 105 (155)
T PF02698_consen 104 VT 105 (155)
T ss_dssp E-
T ss_pred EC
Confidence 33
No 275
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=22.13 E-value=1.5e+02 Score=28.19 Aligned_cols=23 Identities=13% Similarity=0.202 Sum_probs=17.8
Q ss_pred HHHHHHHHHhcCCCEEEeeCCCCCC
Q 025126 127 AKIVEEEVVNCSIDLIITFDNYGVS 151 (257)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d 151 (257)
...|..+++.++|+.|+.. .|.|
T Consensus 241 ~pIi~~v~e~f~P~AiVLQ--CGaD 263 (425)
T KOG1342|consen 241 KPIISKVMERFQPEAIVLQ--CGAD 263 (425)
T ss_pred HHHHHHHHHHhCCceEEEE--cCCc
Confidence 4457789999999999887 5543
No 276
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=22.12 E-value=2.2e+02 Score=27.48 Aligned_cols=31 Identities=13% Similarity=0.012 Sum_probs=25.8
Q ss_pred HHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHH
Q 025126 131 EEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICR 165 (257)
Q Consensus 131 ~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~ 165 (257)
.++|+..+||+.+ .|.|.-+|-+..++.+..
T Consensus 410 ~~LI~~~~PdilV----KGgDy~~~~i~g~~~v~~ 440 (467)
T COG2870 410 EELIEAVKPDILV----KGGDYKIEKIVGADIVEA 440 (467)
T ss_pred HHHHHHhCcceEE----ccCCCChhhccchhhhhh
Confidence 5678888999977 688999999988887775
No 277
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=22.11 E-value=6.5e+02 Score=23.49 Aligned_cols=24 Identities=8% Similarity=-0.004 Sum_probs=19.8
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEee
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
+..+.++...+.+++.++|.|+.-
T Consensus 72 p~~~~v~~~~~~~~~~~~D~Iiai 95 (383)
T PRK09860 72 PTTENVAAGLKLLKENNCDSVISL 95 (383)
T ss_pred cCHHHHHHHHHHHHHcCCCEEEEe
Confidence 334567888899999999999988
No 278
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=21.96 E-value=4.7e+02 Score=21.76 Aligned_cols=52 Identities=17% Similarity=0.124 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 84 GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 84 ~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
...|.+.++++++..|. ....... ..|+.+...+.+.+++++..|+.|++.+
T Consensus 130 ~~~r~~gf~~~~~~~~~--~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~i~~~~ 181 (259)
T cd01542 130 GILRKQGYLDALKEHGI--CPPNIVE---------TDFSYESAYEAAQELLEPQPPDAIVCAT 181 (259)
T ss_pred HHHHHHHHHHHHHHcCC--ChHHeee---------ccCchhhHHHHHHHHhcCCCCCEEEEcC
Confidence 35677888888888876 1111111 0123334445566677654489999883
No 279
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=21.90 E-value=6.2e+02 Score=23.17 Aligned_cols=78 Identities=18% Similarity=0.148 Sum_probs=46.8
Q ss_pred CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 67 RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 67 G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
|....++.+.-|+.. ...-.|. -.++|+.+|+ ++....+|. ..+.+++.+.|.++-..-+.+=|+.+
T Consensus 37 g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~-------~~s~~el~~~I~~lN~D~~V~GIlvq 104 (299)
T PLN02516 37 GKVPGLAVVIVGSRKDSQTYVNM--KRKACAEVGI---KSFDVDLPE-------NISEAELISKVHELNANPDVHGILVQ 104 (299)
T ss_pred CCCCeEEEEEECCChhHHHHHHH--HHHHHHHcCC---EEEEEECCC-------CCCHHHHHHHHHHHhCCCCCCeEEEe
Confidence 666666666666532 3333443 3578999999 555566553 12456777777776666566667777
Q ss_pred CCCCCCCCchHHH
Q 025126 146 DNYGVSGHCNHRD 158 (257)
Q Consensus 146 d~~g~d~H~DH~~ 158 (257)
-|. -.|.|-..
T Consensus 105 ~Pl--P~~id~~~ 115 (299)
T PLN02516 105 LPL--PKHINEEK 115 (299)
T ss_pred cCC--CCCcCHHH
Confidence 443 35655444
No 280
>PRK11866 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional
Probab=21.73 E-value=6e+02 Score=22.91 Aligned_cols=99 Identities=10% Similarity=0.012 Sum_probs=59.6
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHH---------H-----------HHHHHHHHH
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNI---------R-----------KDELHRACA 96 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~---------R-----------~~E~~~A~~ 96 (257)
.+.++|++++-==|--.+++ +-|...++.|.++.+|++.|+..+..+.. | .....+.++
T Consensus 75 ~Pd~~VV~i~GDG~~f~ig~-~eL~tA~rrn~~i~vIV~nN~~ygmtggQ~s~~t~~g~~t~~t~~g~~~~~~d~~~iA~ 153 (279)
T PRK11866 75 NPKLTVIGYGGDGDGYGIGL-GHLPHAARRNVDITYIVSNNQVYGLTTGQASPTTPRGVKTKTTPDGNIEEPFNPIALAL 153 (279)
T ss_pred CCCCcEEEEECChHHHHccH-HHHHHHHHHCcCcEEEEEEChhhhhhcccccCCCCCCceeeccCCCCCCCCCCHHHHHH
Confidence 34567777775433234444 44666778899999999999865421100 1 114456666
Q ss_pred HcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCC
Q 025126 97 VLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNY 148 (257)
Q Consensus 97 ~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~ 148 (257)
.+|++ ..--.++ .+.+++.+.|.+.++.-.|.+|-...|-
T Consensus 154 a~G~~---~Va~~~~---------~~~~~l~~~l~~Al~~~Gps~I~v~~pC 193 (279)
T PRK11866 154 AAGAT---FVARGFS---------GDVKHLKEIIKEAIKHKGFSFIDVLSPC 193 (279)
T ss_pred HCCCC---EEEEEcC---------CCHHHHHHHHHHHHhCCCCEEEEEeCCC
Confidence 67772 1111111 1456788888998888788887766553
No 281
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=21.67 E-value=82 Score=20.43 Aligned_cols=15 Identities=20% Similarity=0.437 Sum_probs=9.0
Q ss_pred cccccc-CCCCCcEEE
Q 025126 30 NAAFLT-TGDKKNVLL 44 (257)
Q Consensus 30 ~~~~~~-~~~~~~vL~ 44 (257)
+.||.+ +++..|+|.
T Consensus 27 ~GQfdD~e~~a~riL~ 42 (45)
T PF03597_consen 27 SGQFDDLEGPAHRILF 42 (45)
T ss_pred cCCCCCCcchHhhhhc
Confidence 678765 455556653
No 282
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=21.62 E-value=5.3e+02 Score=22.76 Aligned_cols=44 Identities=11% Similarity=0.018 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHH
Q 025126 87 RKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEE 133 (257)
Q Consensus 87 R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~ 133 (257)
-..|-.+||+.||+ .+++++-|....+.....+.+++.+.+.+.
T Consensus 203 g~~eKi~AA~~lgi---~vivI~RP~~~~~~~~~~~~~e~~~~l~~~ 246 (248)
T PRK08057 203 GTEAKLEAARELGI---PVVMIARPALPYADREFEDVAELVAWLRHL 246 (248)
T ss_pred hhHHHHHHHHHcCC---eEEEEeCCCCCCCCcccCCHHHHHHHHHHh
Confidence 34566689999999 688999887543212334556666555543
No 283
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=21.52 E-value=6.5e+02 Score=23.28 Aligned_cols=24 Identities=17% Similarity=0.061 Sum_probs=19.9
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEee
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
+..+.++.+.+.+++.++|.|+..
T Consensus 65 p~~~~v~~~~~~~~~~~~D~IIav 88 (375)
T cd08179 65 PSVETVLKGAEAMREFEPDWIIAL 88 (375)
T ss_pred cCHHHHHHHHHHHHhcCCCEEEEe
Confidence 345667788889999999999998
No 284
>cd03376 TPP_PFOR_porB_like Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea and some hyperthermophilic bacteria. PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea, anaerobic bacteria and eukaryotes that lack mitochondria (and therefore pyruvate dehydrogenase) use PFOR to oxidatively decarboxylate pyruvate, with ferredoxin or flavodoxin as the electron acceptor. The 36-kDa porB subunit contains the binding sites for the cofactors, TPP and a divalent metal cation, which are required for activity.
Probab=21.51 E-value=5.4e+02 Score=22.32 Aligned_cols=124 Identities=15% Similarity=0.070 Sum_probs=68.4
Q ss_pred CCcEEEEecCchhhhc--chHHHHHHHHhCCCcEEEEEEeCCCCCCchH-------------------------HHHHHH
Q 025126 39 KKNVLLVIAHPDDESM--FFSPTINYLTSRRHNLHILCMSNGNADGMGN-------------------------IRKDEL 91 (257)
Q Consensus 39 ~~~vL~i~aHPDDE~l--~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~-------------------------~R~~E~ 91 (257)
.++|+.|. .|=.+ ....-|...++.+.++.+|++.|+..+..+. .+....
T Consensus 80 ~r~VV~i~---GDG~~~~m~~~eL~ta~~~~~pv~~vVlNN~~yg~tg~q~~~~~~~~~~~~~~~~g~~~~~~~~~~~d~ 156 (235)
T cd03376 80 DITVVAFA---GDGGTADIGFQALSGAAERGHDILYICYDNEAYMNTGIQRSGSTPYGAWTTTTPVGKVSFGKKQPKKDL 156 (235)
T ss_pred CCeEEEEE---cCchHHhhHHHHHHHHHHcCCCeEEEEECCcccccCCCCCCCCCCCCCEeecCCCCccccccccccCCH
Confidence 45666666 34442 2235567778899999999999987652100 122345
Q ss_pred HHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccC
Q 025126 92 HRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGT 171 (257)
Q Consensus 92 ~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~ 171 (257)
.+.++.+|++ -+.... ..+.+++.+.+++.++.-.|.+|-..-+-.....-|-..+.+..+.++.
T Consensus 157 ~~iA~a~G~~--~~~~~~----------v~~~~el~~al~~a~~~~gP~lIev~~~C~~~~~~~~~~~~~~~~~~~~--- 221 (235)
T cd03376 157 PLIMAAHNIP--YVATAS----------VAYPEDLYKKVKKALSIEGPAYIHILSPCPTGWRFDPSKTIEIARLAVE--- 221 (235)
T ss_pred HHHHHHcCCc--EEEEEc----------CCCHHHHHHHHHHHHhCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHh---
Confidence 5666666662 110011 1245677888888888778887665543332222333333444444331
Q ss_pred CCCccEEEEe
Q 025126 172 SERNIEAWEL 181 (257)
Q Consensus 172 ~~~~~~~ye~ 181 (257)
.+...+|+.
T Consensus 222 -~~~~~~~~~ 230 (235)
T cd03376 222 -TGFWPLYEY 230 (235)
T ss_pred -cCceeEEEE
Confidence 245556653
No 285
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=21.42 E-value=1.3e+02 Score=25.77 Aligned_cols=25 Identities=16% Similarity=0.116 Sum_probs=22.0
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 122 NHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
++.++.....++|++.+||+|++++
T Consensus 57 ~E~~lL~~f~~~i~~~dPdii~g~N 81 (207)
T cd05785 57 AEKELLEELVAIIRERDPDVIEGHN 81 (207)
T ss_pred CHHHHHHHHHHHHHHhCCCEEeccC
Confidence 4678889999999999999999994
No 286
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.36 E-value=5.2e+02 Score=22.05 Aligned_cols=108 Identities=11% Similarity=0.094 Sum_probs=60.2
Q ss_pred chhhhcchHHHHHHH-HhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChH
Q 025126 49 PDDESMFFSPTINYL-TSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHK 124 (257)
Q Consensus 49 PDDE~l~~Ggtl~~~-~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~ 124 (257)
+|++. +|-.++++ .+. |++ .+++++..........|.+.+.++++..| . .+.... + ..|+.+
T Consensus 103 ~d~~~--~g~~~~~~l~~~~~g~~-~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~---~~~~~~-~-------~~~~~~ 168 (272)
T cd06313 103 PDNYF--MGASVAQALCNAMGGKG-KIAMLQGALGHTGAQGRAQGFNDVIKKYPDI---EVVDEQ-P-------ANWDVS 168 (272)
T ss_pred CCcHH--HHHHHHHHHHHHcCCCc-eEEEEECCCCCcchhHHHHHHHHHHHhCCCC---EEEecc-C-------CCCCHH
Confidence 44443 34444444 344 653 44555432222335678999999998876 3 221111 1 124555
Q ss_pred HHHHHHHHHHHhc-CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEEe
Q 025126 125 SLAKIVEEEVVNC-SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWEL 181 (257)
Q Consensus 125 ~l~~~l~~~i~~~-~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye~ 181 (257)
...+.+.+++++. +|+.|++.+.. .+..+.+|+.+.+. +++.+...
T Consensus 169 ~~~~~~~~~l~~~~~~~ai~~~nd~----------~a~g~~~al~~~g~-~di~vvgf 215 (272)
T cd06313 169 KAARIWETWLTKYPQLDGAFCHNDS----------MALAAYQIMKAAGR-TKIVIGGV 215 (272)
T ss_pred HHHHHHHHHHHhCCCCCEEEECCCc----------HHHHHHHHHHHcCC-CceEEEee
Confidence 6667788888764 48888887321 44556676765555 56665543
No 287
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=21.36 E-value=7.1e+02 Score=23.64 Aligned_cols=85 Identities=15% Similarity=0.083 Sum_probs=45.3
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025126 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (257)
Q Consensus 37 ~~~~~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (257)
..++|+. |.+.||= .+ |....+.+.|.+|..++.++.+ ..-++|+.+.++.++-. .++.++.-+|
T Consensus 301 l~gkrv~-i~g~~~~-~~---~la~~L~elGm~v~~~~~~~~~-----~~~~~~~~~~l~~~~~~-~~~~v~~~~d---- 365 (435)
T cd01974 301 LHGKKFA-LYGDPDF-LI---GLTSFLLELGMEPVHVLTGNGG-----KRFEKEMQALLDASPYG-AGAKVYPGKD---- 365 (435)
T ss_pred cCCCEEE-EEcChHH-HH---HHHHHHHHCCCEEEEEEeCCCC-----HHHHHHHHHHHhhcCCC-CCcEEEECCC----
Confidence 4566774 4456643 33 4444455789998655543332 22344455545543211 1223333222
Q ss_pred ccccCChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 117 FDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
...+++.+++.+||+++.+.
T Consensus 366 ----------~~e~~~~i~~~~pDliiG~s 385 (435)
T cd01974 366 ----------LWHLRSLLFTEPVDLLIGNT 385 (435)
T ss_pred ----------HHHHHHHHhhcCCCEEEECc
Confidence 13456777888999999873
No 288
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=21.28 E-value=4.9e+02 Score=24.01 Aligned_cols=76 Identities=13% Similarity=0.201 Sum_probs=42.9
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC---CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025126 59 TINYLTSRRHNLHILCMSNGNA---DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (257)
Q Consensus 59 tl~~~~~~G~~V~vv~lT~G~~---~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (257)
+++++...|.+|..-....... .+..+.|.+|+.+|..-=.+ ++ ++.... |+ +..++...|-.-+-
T Consensus 31 a~~~L~~~G~~v~~~~~i~~~~~~~a~s~~~R~~dL~~af~d~~v---k~-Il~~rG---Gy----gs~rlLp~ld~~~i 99 (313)
T COG1619 31 AIQRLENLGFEVVFGEHILRRDQYFAGSDEERAEDLMSAFSDPDV---KA-ILCVRG---GY----GSNRLLPYLDYDLI 99 (313)
T ss_pred HHHHHHHcCCEEEechhhhhccccccCCHHHHHHHHHHHhcCCCC---eE-EEEccc---CC----ChhhhhhhcchHHH
Confidence 4677778898877665544332 24468899999888874333 22 233221 22 22344444444344
Q ss_pred hcCCCEEEee
Q 025126 136 NCSIDLIITF 145 (257)
Q Consensus 136 ~~~Pd~V~t~ 145 (257)
+.+|.+++-|
T Consensus 100 ~~~pKifiGy 109 (313)
T COG1619 100 RNHPKIFIGY 109 (313)
T ss_pred hcCCceEEEe
Confidence 4578887644
No 289
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=21.28 E-value=4.4e+02 Score=21.23 Aligned_cols=85 Identities=13% Similarity=0.149 Sum_probs=44.9
Q ss_pred ecCchhhhcchHHHHHHH-HhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChH
Q 025126 46 IAHPDDESMFFSPTINYL-TSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHK 124 (257)
Q Consensus 46 ~aHPDDE~l~~Ggtl~~~-~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~ 124 (257)
..-||+... |-.+..+ .+.|++- +.+++.... .....|.+.++++++..|+ .+......+ ++.+
T Consensus 103 ~~~~~~~~~--~~~~~~~l~~~~~~~-i~~i~~~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~~~~--------~~~~ 167 (269)
T cd01391 103 RVGPDNEQA--GEAAAEYLAEKGWKR-VALIYGDDG-AYGRERLEGFKAALKKAGI---EVVAIEYGD--------LDTE 167 (269)
T ss_pred EEcCCcHHH--HHHHHHHHHHhCCce-EEEEecCCc-chhhHHHHHHHHHHHhcCc---EEEeccccC--------CCcc
Confidence 334455542 3334433 4456543 333333222 4567788899999998886 222111111 1111
Q ss_pred HHHHHHHHHHHhc-CCCEEEee
Q 025126 125 SLAKIVEEEVVNC-SIDLIITF 145 (257)
Q Consensus 125 ~l~~~l~~~i~~~-~Pd~V~t~ 145 (257)
...+.+.+.+++. +|+.|+..
T Consensus 168 ~~~~~~~~~l~~~~~~~~i~~~ 189 (269)
T cd01391 168 KGFQALLQLLKAAPKPDAIFAC 189 (269)
T ss_pred ccHHHHHHHHhcCCCCCEEEEc
Confidence 2334556666666 79999887
No 290
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.25 E-value=6.4e+02 Score=23.04 Aligned_cols=83 Identities=14% Similarity=0.107 Sum_probs=48.9
Q ss_pred HHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025126 62 YLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (257)
Q Consensus 62 ~~~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (257)
.+.++ |....++.+--|+.. ...-.|. ..++|+.+|+ ++....+|.. ...+++.+.|.++-+.-+.
T Consensus 24 ~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~e~~l~~~I~~lN~d~~V 91 (294)
T PRK14187 24 DLKRQHNLFPCLIVILVGDDPASQLYVRN--KQRKAEMLGL---RSETILLPST-------ISESSLIEKINELNNDDSV 91 (294)
T ss_pred HHHHccCCCCeEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCC
Confidence 34334 666777777666543 2333343 3578899999 4555555531 1445676777777666666
Q ss_pred CEEEeeCCCCCCCCchHHH
Q 025126 140 DLIITFDNYGVSGHCNHRD 158 (257)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~ 158 (257)
+=|+.+-|.+ .|.|-..
T Consensus 92 ~GIlvqlPLP--~~i~~~~ 108 (294)
T PRK14187 92 HGILVQLPVP--NHIDKNL 108 (294)
T ss_pred CEEEEeCCCC--CCCCHHH
Confidence 7677774443 5555444
No 291
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=21.10 E-value=5.1e+02 Score=21.88 Aligned_cols=102 Identities=9% Similarity=0.120 Sum_probs=54.2
Q ss_pred HHHHH-HHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChHHHHHHHHH
Q 025126 57 SPTIN-YLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEE 132 (257)
Q Consensus 57 Ggtl~-~~~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~ 132 (257)
|..++ .+.++ |. -.+++++..........|.+.+.++++..+ + .+. .... ..|+.+...+.+.+
T Consensus 110 g~~~~~~l~~~~~g~-~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~---~~~--~~~~------~~~~~~~~~~~~~~ 177 (273)
T cd06309 110 GRRAADWLAKATGGK-GNIVELQGTVGSSVAIDRKKGFAEVIKKYPNM---KIV--ASQT------GDFTRAKGKEVMEA 177 (273)
T ss_pred HHHHHHHHHHHcCCC-ceEEEEeCCCCCchHHHHHHHHHHHHHHCCCC---EEe--eccC------CcccHHHHHHHHHH
Confidence 44443 34444 54 344445422222345678888999998763 3 222 1111 12455555667788
Q ss_pred HHHhc--CCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCC--CCccEEEE
Q 025126 133 EVVNC--SIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTS--ERNIEAWE 180 (257)
Q Consensus 133 ~i~~~--~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~--~~~~~~ye 180 (257)
++++. +|+.|++.+. ..+..+.+|+.+.+. ++++.+..
T Consensus 178 ~l~~~~~~~~aI~~~~d----------~~a~g~~~a~~~~g~~ip~di~iig 219 (273)
T cd06309 178 LLKAHGDDIDAVYAHND----------EMALGAIQAIKAAGKKPGKDIKIVS 219 (273)
T ss_pred HHHhCCCCccEEEECCc----------HHHHHHHHHHHHcCCCCCCCeEEEe
Confidence 88765 4888888732 133445565654442 34555543
No 292
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=21.09 E-value=3.7e+02 Score=20.23 Aligned_cols=64 Identities=19% Similarity=0.261 Sum_probs=41.4
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHH-cCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC--CCEEEeeCCC
Q 025126 72 ILCMSNGNADGMGNIRKDELHRACAV-LKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS--IDLIITFDNY 148 (257)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~-LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~--Pd~V~t~d~~ 148 (257)
++.+|.|+ -.+++.++++. +|-..+++..++++... +.++..+++.+.+++.+ =.+++..|-.
T Consensus 2 iii~sHG~-------~A~g~~~~~~~i~G~~~~~i~~~~~~~~~-------~~~~~~~~l~~~i~~~~~~~~vlil~Dl~ 67 (116)
T PF03610_consen 2 IIIASHGS-------LAEGLLESAEMILGEDQDNIEAVDLYPDE-------SIEDFEEKLEEAIEELDEGDGVLILTDLG 67 (116)
T ss_dssp EEEEEETT-------HHHHHHHHHHHHHTSTCSSEEEEEETTTS-------CHHHHHHHHHHHHHHCCTTSEEEEEESST
T ss_pred EEEEECcH-------HHHHHHHHHHHHcCCCcccEEEEECcCCC-------CHHHHHHHHHHHHHhccCCCcEEEEeeCC
Confidence 45566662 34566667666 56524588888875421 45677889999998874 3466777755
Q ss_pred C
Q 025126 149 G 149 (257)
Q Consensus 149 g 149 (257)
|
T Consensus 68 g 68 (116)
T PF03610_consen 68 G 68 (116)
T ss_dssp T
T ss_pred C
Confidence 5
No 293
>PRK00871 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional
Probab=20.86 E-value=1.4e+02 Score=24.94 Aligned_cols=24 Identities=17% Similarity=0.236 Sum_probs=16.9
Q ss_pred EEEEecCchhhhcchHHHHHHHHh
Q 025126 42 VLLVIAHPDDESMFFSPTINYLTS 65 (257)
Q Consensus 42 vL~i~aHPDDE~l~~Ggtl~~~~~ 65 (257)
+|+|.+|||-+.=.....|....+
T Consensus 2 iLvi~aHP~~~~S~~n~al~~~~~ 25 (176)
T PRK00871 2 ILIIYAHPYPHHSHANKRMLEQAR 25 (176)
T ss_pred EEEEEcCCCCccChHHHHHHHHHH
Confidence 899999999873345555655554
No 294
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.65 E-value=5.1e+02 Score=21.68 Aligned_cols=74 Identities=14% Similarity=0.071 Sum_probs=39.7
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025126 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (257)
Q Consensus 62 ~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (257)
.+.++|++ .+.+++..........|.+...++++..|+......... ..++.+...+.+.+++++ .+|+
T Consensus 109 ~l~~~g~~-~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ 178 (265)
T cd06290 109 HLIDLGHR-RIAHITGPRGHIDARDRLAGYRKALEEAGLEVQPDLIVQ---------GDFEEESGLEAVEELLQRGPDFT 178 (265)
T ss_pred HHHHCCCC-eEEEEeCccccchhhHHHHHHHHHHHHcCCCCCHHHEEe---------cCCCHHHHHHHHHHHHcCCCCCC
Confidence 45567754 334444322223445688888888887776321111111 012333445567777764 3578
Q ss_pred EEEee
Q 025126 141 LIITF 145 (257)
Q Consensus 141 ~V~t~ 145 (257)
.|++.
T Consensus 179 aii~~ 183 (265)
T cd06290 179 AIFAA 183 (265)
T ss_pred EEEEc
Confidence 88887
No 295
>COG4221 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]
Probab=20.59 E-value=5.8e+02 Score=22.76 Aligned_cols=71 Identities=11% Similarity=0.135 Sum_probs=41.8
Q ss_pred cchHHHHH-HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHH
Q 025126 54 MFFSPTIN-YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEE 132 (257)
Q Consensus 54 l~~Ggtl~-~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~ 132 (257)
-|.|-.++ .+.++|++|.++ .+|.+-+++.+..+|-.......+|-. +.+.+.+.+..
T Consensus 16 SGiG~A~A~~l~~~G~~vvl~-----------aRR~drL~~la~~~~~~~~~~~~~DVt----------D~~~~~~~i~~ 74 (246)
T COG4221 16 SGIGEATARALAEAGAKVVLA-----------ARREERLEALADEIGAGAALALALDVT----------DRAAVEAAIEA 74 (246)
T ss_pred chHHHHHHHHHHHCCCeEEEE-----------eccHHHHHHHHHhhccCceEEEeeccC----------CHHHHHHHHHH
Confidence 45565444 456789976543 345555777788888300123334433 34566667777
Q ss_pred HHHhcC-CCEEEee
Q 025126 133 EVVNCS-IDLIITF 145 (257)
Q Consensus 133 ~i~~~~-Pd~V~t~ 145 (257)
+..++. .|+++--
T Consensus 75 ~~~~~g~iDiLvNN 88 (246)
T COG4221 75 LPEEFGRIDILVNN 88 (246)
T ss_pred HHHhhCcccEEEec
Confidence 777776 7876644
No 296
>PF00764 Arginosuc_synth: Arginosuccinate synthase; InterPro: IPR001518 Argininosuccinate synthase (6.3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate [, ]. In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process; PDB: 1K97_A 1KP2_A 1K92_A 1KP3_A 2NZ2_A 1VL2_A 1J1Z_D 1KOR_C 1J20_D 1KH2_C ....
Probab=20.59 E-value=6.8e+02 Score=23.84 Aligned_cols=99 Identities=16% Similarity=0.185 Sum_probs=54.7
Q ss_pred HHHHHHhCC-CcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC---------------CCC-c--cc
Q 025126 59 TINYLTSRR-HNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF---------------QDG-F--DK 119 (257)
Q Consensus 59 tl~~~~~~G-~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~---------------~dg-~--~~ 119 (257)
++..+.++| .+|+.+++--|..+ .-.+++++-+..+|+ ..++++|..+- ..| . ..
T Consensus 13 ~l~~L~e~~~~~Via~~aDlGq~~----~d~~~i~~kA~~~Ga--~~~~vvD~r~ef~~~~i~~aI~anA~Yeg~YpL~t 86 (388)
T PF00764_consen 13 ILKWLKEEGGYEVIAVTADLGQPD----EDLEAIEEKALKLGA--SKHIVVDARDEFAEDYIFPAIKANALYEGRYPLST 86 (388)
T ss_dssp HHHHHHHTTTEEEEEEEEESSST-----S-HHHHHHHHHHHT---SEEEEEE-HHHHHHHTHHHHHHTT--BTTTB--CC
T ss_pred HHHHHHhhcCceEEEEEEECCCcH----HHHHHHHHHHHhcCC--ceeeecchHHHHHHHHHHHHHHHHHHhCCCccccc
Confidence 466777888 88988888888642 233455566778898 56777775321 001 0 00
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHH
Q 025126 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSY 167 (257)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~ 167 (257)
.-...-+++.+.++-++.+.+.|- | |-.+-.|-+.=.+.+..|+
T Consensus 87 sl~RplIa~~~v~~A~~~ga~~va-H---G~TgkGNDqvRFe~~~~al 130 (388)
T PF00764_consen 87 SLARPLIAKKLVEVAREEGADAVA-H---GCTGKGNDQVRFELSIRAL 130 (388)
T ss_dssp CCHHHHHHHHHHHHHHHHT-SEEE--------TTSSHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHcCCeEEe-c---cCCcCCCchhHHHHHHHHh
Confidence 112346677788888888888754 3 4334334455555555544
No 297
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.53 E-value=6.5e+02 Score=22.84 Aligned_cols=80 Identities=13% Similarity=0.120 Sum_probs=47.9
Q ss_pred CCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025126 66 RRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (257)
Q Consensus 66 ~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (257)
.|....+..+--|+.. ...-.|. ..++|+.+|+ ++....+|.. -+.+++.+.|.++-+.-+.+=|+.
T Consensus 28 ~g~~P~Laii~vgdd~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~D~~V~GIlv 95 (281)
T PRK14183 28 KNIVPGLAVILVGDDPASHTYVKM--KAKACDRVGI---YSITHEMPST-------ISQKEILETIAMMNNNPNIDGILV 95 (281)
T ss_pred CCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCccCeEEE
Confidence 4666666666556532 2333343 3578999999 4555566541 145667777777766666677888
Q ss_pred eCCCCCCCCchHHHH
Q 025126 145 FDNYGVSGHCNHRDV 159 (257)
Q Consensus 145 ~d~~g~d~H~DH~~~ 159 (257)
+-|.. .|.|-..+
T Consensus 96 q~PlP--~~i~~~~i 108 (281)
T PRK14183 96 QLPLP--KHIDTTKI 108 (281)
T ss_pred eCCCC--CCCCHHHH
Confidence 74443 56664443
No 298
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=20.50 E-value=5.3e+02 Score=21.83 Aligned_cols=79 Identities=6% Similarity=0.047 Sum_probs=45.3
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc---CCCEEEeeCCCCCCCCchHHHH
Q 025126 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC---SIDLIITFDNYGVSGHCNHRDV 159 (257)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~---~Pd~V~t~d~~g~d~H~DH~~~ 159 (257)
....|.+.+.++++..|.........+ .|+.+...+.+.+++++. +|+.|++.+ . ..
T Consensus 131 ~~~~R~~gf~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~--d--------~~ 190 (270)
T cd01544 131 IEDPRETAFREYMKEKGLYDPELIYIG----------DFTVESGYQLMKEALKSLGDNLPTAFFIAS--D--------PM 190 (270)
T ss_pred hhhHHHHHHHHHHHHcCCCChheEeeC----------CCCHHHHHHHHHHHHhccCCCCCCEEEEcC--c--------HH
Confidence 356688889999999885211111111 123344456677777764 489888873 1 33
Q ss_pred HHHHHHHHHccC--CCCccEEEEe
Q 025126 160 HHGICRSYLNGT--SERNIEAWEL 181 (257)
Q Consensus 160 ~~av~~A~~~~~--~~~~~~~ye~ 181 (257)
+..+..|+.+.+ -++++.++..
T Consensus 191 a~g~~~~l~~~g~~vp~di~v~g~ 214 (270)
T cd01544 191 AIGALRALQEAGIKVPEDVSVISF 214 (270)
T ss_pred HHHHHHHHHHcCCCCCCceEEEEE
Confidence 455556565444 2456666644
No 299
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=20.47 E-value=5.1e+02 Score=21.64 Aligned_cols=110 Identities=12% Similarity=0.125 Sum_probs=58.2
Q ss_pred hhhhcchHHHHHHHHh--CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHH
Q 025126 50 DDESMFFSPTINYLTS--RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLA 127 (257)
Q Consensus 50 DDE~l~~Ggtl~~~~~--~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~ 127 (257)
|...+ |-.++++.. .|.+..+++++..........|.+.+.++.+-.+ .+..+.-. ....|+.+...
T Consensus 103 d~~~~--G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~----~~~~~~~~-----~~~~~~~~~a~ 171 (257)
T PF13407_consen 103 DNYEA--GKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYP----GVEIVDEY-----EYTDWDPEDAR 171 (257)
T ss_dssp -HHHH--HHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCT----TEEEEEEE-----EECTTSHHHHH
T ss_pred cHHHH--HHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcc----eeeeeeee-----eccCCCHHHHH
Confidence 44443 444444432 2333555555333222334567777888877732 34444410 01135677888
Q ss_pred HHHHHHHHhcCCCEEEeeCCCCCCCCchHHHHHHHHHHHHHccCCCCccEEEE
Q 025126 128 KIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGICRSYLNGTSERNIEAWE 180 (257)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~~~~av~~A~~~~~~~~~~~~ye 180 (257)
+.+.+++....++.|++.+ . ....++.+|+.+.+....+.++.
T Consensus 172 ~~~~~~l~~~~~~~i~~~~--~--------~~~~g~~~al~~~g~~~~~~v~g 214 (257)
T PF13407_consen 172 QAIENLLQANPVDAIIACN--D--------GMALGAAQALQQAGRAGKVIVVG 214 (257)
T ss_dssp HHHHHHHHHTTEEEEEESS--H--------HHHHHHHHHHHHTTCTTTSEEEE
T ss_pred HHHHHhhhcCCceEEEeCC--C--------hHHHHHHHHHHHcCCcccceeec
Confidence 8888999877566777663 1 12334555565555555554443
No 300
>PRK10494 hypothetical protein; Provisional
Probab=20.47 E-value=6e+02 Score=22.46 Aligned_cols=42 Identities=24% Similarity=0.366 Sum_probs=21.5
Q ss_pred CCCcEEEEEEeCCCCCCchHHHHHHH-HHHHHHcCCCCCcEEEcc
Q 025126 66 RRHNLHILCMSNGNADGMGNIRKDEL-HRACAVLKIPLEQVKVLD 109 (257)
Q Consensus 66 ~G~~V~vv~lT~G~~~~~~~~R~~E~-~~A~~~LGv~~~~~~~l~ 109 (257)
+|.. ..+.+|.|...+. ...+.|. ++.+..+|++.+++..-+
T Consensus 118 ~~~~-~~ii~SGg~~~~~-~~sEA~~~~~~l~~lGVp~~~Ii~e~ 160 (259)
T PRK10494 118 ANPG-AKLIFTGGAAKTN-TVSTAEVGARVAQSLGVPREDIITLD 160 (259)
T ss_pred hCCC-CEEEEECCCCCCC-CCCHHHHHHHHHHHcCCCHHHeeeCC
Confidence 4433 3445566653221 1233443 445667999876665444
No 301
>PRK08125 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated
Probab=20.38 E-value=5.2e+02 Score=26.02 Aligned_cols=82 Identities=22% Similarity=0.215 Sum_probs=44.7
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025126 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (257)
Q Consensus 41 ~vL~i~aHPDDE~l~~Ggtl~~~~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (257)
|+++++.+ -++-++|..|.+.|++|.. ++|..+... +........+.|...|++ ++ ...+.
T Consensus 2 kivf~g~~-----~~a~~~l~~L~~~~~~i~~-V~t~pd~~~-~~~~~~~v~~~a~~~~ip---~~--~~~~~------- 62 (660)
T PRK08125 2 KAVVFAYH-----DIGCVGIEALLAAGYEIAA-VFTHTDNPG-ENHFFGSVARLAAELGIP---VY--APEDV------- 62 (660)
T ss_pred eEEEECCC-----HHHHHHHHHHHHCCCcEEE-EEeCCCCCc-CCCCcCHHHHHHHHcCCc---EE--eeCCC-------
Confidence 45555543 1345788889888988763 334433211 111112355678888983 32 21111
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEeeC
Q 025126 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (257)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (257)
+.++ +.+.+++.+||++++..
T Consensus 63 -~~~~----~~~~l~~~~~D~iv~~~ 83 (660)
T PRK08125 63 -NHPL----WVERIRELAPDVIFSFY 83 (660)
T ss_pred -CcHH----HHHHHHhcCCCEEEEcc
Confidence 1122 24557778999988764
No 302
>cd02001 TPP_ComE_PpyrDC Thiamine pyrophosphate (TPP) family, ComE and PpyrDC subfamily, TPP-binding module; composed of proteins similar to sulfopyruvate decarboxylase beta subunit (ComE) and phosphonopyruvate decarboxylase (Ppyr decarboxylase). Methanococcus jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits which, catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. Ppyr decarboxylase is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus. Ppyr decarboxylase and ComDE require TPP and divalent metal cation cofactors.
Probab=20.06 E-value=4.4e+02 Score=21.20 Aligned_cols=89 Identities=12% Similarity=0.028 Sum_probs=51.0
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHH----HHHHHHHHHHcCCCCCcEEEccCCCCC
Q 025126 40 KNVLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIR----KDELHRACAVLKIPLEQVKVLDLVDFQ 114 (257)
Q Consensus 40 ~~vL~i~aHPDDE~l~~Ggtl~~~~~~-G~~V~vv~lT~G~~~~~~~~R----~~E~~~A~~~LGv~~~~~~~l~~~d~~ 114 (257)
+++++|.- |=.-+...+.+.-..+. +.++.++++.|+..+..+..+ .-...+.++.+|++ ..
T Consensus 60 ~~Vv~i~G--DG~f~m~~~el~t~~~~~~~~i~~vV~nN~~~g~~~~~~~~~~~~d~~~lA~a~G~~--~~--------- 126 (157)
T cd02001 60 RKVIVVDG--DGSLLMNPGVLLTAGEFTPLNLILVVLDNRAYGSTGGQPTPSSNVNLEAWAAACGYL--VL--------- 126 (157)
T ss_pred CcEEEEEC--chHHHhcccHHHHHHHhcCCCEEEEEEeCccccccCCcCCCCCCCCHHHHHHHCCCc--eE---------
Confidence 56666653 33443455666666666 588999999888754221100 12344455556662 11
Q ss_pred CCccccCChHHHHHHHHHHHHhcCCCEEEee
Q 025126 115 DGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (257)
Q Consensus 115 dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (257)
...+.+++.+.+.+.+..-+|.+|-..
T Consensus 127 ----~v~~~~el~~al~~a~~~~gp~vi~v~ 153 (157)
T cd02001 127 ----SAPLLGGLGSEFAGLLATTGPTLLHAP 153 (157)
T ss_pred ----EcCCHHHHHHHHHHHHhCCCCEEEEEE
Confidence 011356777778888777778876544
Done!