Query 025219
Match_columns 256
No_of_seqs 238 out of 1377
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 03:43:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025219.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025219hhsearch_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 3.6E-56 7.9E-61 375.8 23.6 244 1-255 3-247 (247)
2 TIGR03446 mycothiol_Mca mycoth 100.0 1.1E-35 2.4E-40 266.5 19.3 127 41-170 2-153 (283)
3 COG2120 Uncharacterized protei 100.0 4.7E-35 1E-39 257.0 17.3 181 37-233 8-196 (237)
4 TIGR03445 mycothiol_MshB 1D-my 100.0 3.4E-34 7.3E-39 257.4 19.1 125 43-171 1-156 (284)
5 PRK02122 glucosamine-6-phospha 100.0 3.8E-32 8.1E-37 267.4 19.6 180 37-235 367-607 (652)
6 PF02585 PIG-L: GlcNAc-PI de-N 100.0 1.2E-31 2.5E-36 213.6 11.9 119 43-167 1-128 (128)
7 PF01012 ETF: Electron transfe 94.7 0.15 3.2E-06 41.8 7.3 91 41-146 1-98 (164)
8 cd01715 ETF_alpha The electron 92.6 1.5 3.3E-05 36.0 9.9 90 41-146 1-91 (168)
9 PF12683 DUF3798: Protein of u 92.1 0.45 9.8E-06 42.6 6.4 88 55-145 117-206 (275)
10 cd01985 ETF The electron trans 90.5 3.4 7.4E-05 34.2 10.0 47 93-146 53-99 (181)
11 PF04007 DUF354: Protein of un 90.5 2 4.4E-05 39.8 9.3 89 40-145 1-90 (335)
12 PRK00726 murG undecaprenyldiph 86.9 2.7 5.9E-05 38.2 7.6 92 40-146 2-99 (357)
13 PF00763 THF_DHG_CYH: Tetrahyd 83.1 12 0.00025 29.2 8.5 90 58-161 18-108 (117)
14 cd03796 GT1_PIG-A_like This fa 82.5 8.4 0.00018 35.7 8.9 85 50-148 14-98 (398)
15 cd01714 ETF_beta The electron 82.4 12 0.00026 31.9 9.1 66 66-146 51-116 (202)
16 PF13477 Glyco_trans_4_2: Glyc 82.3 11 0.00023 29.1 8.2 82 42-147 2-83 (139)
17 cd03808 GT1_cap1E_like This fa 81.8 9.3 0.0002 33.1 8.5 88 41-146 1-88 (359)
18 PRK12342 hypothetical protein; 80.0 17 0.00037 32.4 9.5 72 62-146 46-117 (254)
19 TIGR00824 EIIA-man PTS system, 79.7 17 0.00036 28.2 8.3 66 71-150 3-70 (116)
20 PRK11677 hypothetical protein; 79.6 1.8 4E-05 34.8 2.9 24 1-24 1-26 (134)
21 TIGR03088 stp2 sugar transfera 78.9 11 0.00024 34.2 8.2 81 40-146 2-89 (374)
22 COG2025 FixB Electron transfer 77.2 27 0.00058 32.2 10.0 87 40-146 1-88 (313)
23 PRK09814 beta-1,6-galactofuran 75.9 16 0.00034 33.3 8.3 70 70-147 3-73 (333)
24 COG0381 WecB UDP-N-acetylgluco 75.1 18 0.0004 34.1 8.5 107 42-168 7-114 (383)
25 TIGR01133 murG undecaprenyldip 75.1 14 0.00031 33.0 7.8 77 55-145 16-97 (348)
26 PF13377 Peripla_BP_3: Peripla 74.9 21 0.00045 28.0 7.9 98 61-180 2-103 (160)
27 PF10740 DUF2529: Protein of u 73.9 4.7 0.0001 33.8 3.9 37 36-74 79-115 (172)
28 PF15050 SCIMP: SCIMP protein 73.9 4.2 9E-05 32.1 3.3 22 5-26 16-38 (133)
29 cd03785 GT1_MurG MurG is an N- 71.1 12 0.00025 33.6 6.2 20 127-146 78-97 (350)
30 PLN00022 electron transfer fla 70.2 32 0.00069 32.2 8.9 96 37-146 24-125 (356)
31 PRK03359 putative electron tra 70.2 36 0.00077 30.4 8.9 73 61-146 46-120 (256)
32 cd04962 GT1_like_5 This family 69.9 5.9 0.00013 35.6 4.0 21 126-146 72-92 (371)
33 COG2249 MdaB Putative NADPH-qu 68.9 3.7 8E-05 34.9 2.2 31 40-73 1-36 (189)
34 cd04951 GT1_WbdM_like This fam 68.3 26 0.00055 31.0 7.7 20 128-147 69-88 (360)
35 cd01994 Alpha_ANH_like_IV This 67.1 44 0.00094 28.3 8.5 77 60-145 16-95 (194)
36 COG2086 FixA Electron transfer 66.1 43 0.00092 30.0 8.5 73 61-146 47-119 (260)
37 cd06294 PBP1_ycjW_transcriptio 65.7 59 0.0013 27.5 9.3 75 61-145 115-190 (270)
38 cd03818 GT1_ExpC_like This fam 65.2 52 0.0011 30.3 9.4 21 59-79 16-36 (396)
39 cd00886 MogA_MoaB MogA_MoaB fa 65.0 54 0.0012 26.4 8.4 62 91-167 25-87 (152)
40 PRK09417 mogA molybdenum cofac 64.7 52 0.0011 28.0 8.5 44 123-169 51-94 (193)
41 PRK11303 DNA-binding transcrip 63.5 66 0.0014 28.5 9.5 74 60-145 171-245 (328)
42 PF04273 DUF442: Putative phos 62.7 50 0.0011 25.4 7.4 84 43-144 9-93 (110)
43 cd03823 GT1_ExpE7_like This fa 61.2 12 0.00026 32.7 4.1 22 125-146 83-104 (359)
44 PF05706 CDKN3: Cyclin-depende 60.8 9 0.0002 32.0 3.0 79 57-145 61-139 (168)
45 TIGR02667 moaB_proteo molybden 60.8 43 0.00093 27.5 7.1 64 90-168 26-90 (163)
46 cd03814 GT1_like_2 This family 60.6 18 0.00039 31.7 5.2 19 128-146 73-91 (364)
47 cd06287 PBP1_LacI_like_8 Ligan 59.1 1.2E+02 0.0026 26.2 12.2 102 56-178 106-211 (269)
48 TIGR02417 fruct_sucro_rep D-fr 58.9 88 0.0019 27.7 9.5 75 59-145 169-245 (327)
49 cd03812 GT1_CapH_like This fam 58.7 90 0.0019 27.5 9.5 81 41-146 1-88 (358)
50 cd06278 PBP1_LacI_like_2 Ligan 57.9 89 0.0019 26.3 9.0 73 61-145 108-181 (266)
51 cd03811 GT1_WabH_like This fam 57.9 46 0.001 28.5 7.3 21 126-146 69-89 (353)
52 cd06299 PBP1_LacI_like_13 Liga 57.0 1.2E+02 0.0026 25.6 11.6 99 61-180 109-210 (265)
53 PLN02871 UDP-sulfoquinovose:DA 56.7 53 0.0011 31.2 8.0 18 129-146 135-152 (465)
54 PRK05749 3-deoxy-D-manno-octul 56.2 1.7E+02 0.0037 27.2 11.7 33 40-72 50-82 (425)
55 cd03799 GT1_amsK_like This is 55.9 28 0.0006 30.7 5.6 38 42-79 2-40 (355)
56 PRK10703 DNA-binding transcrip 55.5 87 0.0019 27.9 8.9 74 62-145 172-246 (341)
57 PRK13384 delta-aminolevulinic 55.4 1E+02 0.0022 28.5 9.0 75 70-146 34-120 (322)
58 cd03786 GT1_UDP-GlcNAc_2-Epime 55.4 1.1E+02 0.0024 27.4 9.7 90 42-145 3-95 (363)
59 cd06274 PBP1_FruR Ligand bindi 55.3 1.3E+02 0.0028 25.5 9.7 103 56-178 103-211 (264)
60 PRK11916 electron transfer fla 55.0 1.4E+02 0.003 27.5 10.0 82 41-146 6-87 (312)
61 cd06272 PBP1_hexuronate_repres 54.9 81 0.0018 26.7 8.3 99 62-180 105-207 (261)
62 PF13579 Glyco_trans_4_4: Glyc 54.3 7.1 0.00015 30.0 1.3 70 59-146 10-81 (160)
63 PRK10014 DNA-binding transcrip 53.7 1.4E+02 0.0031 26.5 10.0 75 61-145 175-250 (342)
64 cd06271 PBP1_AglR_RafR_like Li 53.7 1.3E+02 0.0029 25.2 9.6 99 62-180 114-216 (268)
65 PF13439 Glyco_transf_4: Glyco 53.5 30 0.00064 26.9 4.9 21 125-145 67-87 (177)
66 COG0223 Fmt Methionyl-tRNA for 53.4 37 0.00079 31.2 5.9 84 40-146 2-87 (307)
67 TIGR03679 arCOG00187 arCOG0018 53.1 92 0.002 26.8 8.2 78 60-146 14-94 (218)
68 PF06925 MGDG_synth: Monogalac 52.7 56 0.0012 26.6 6.5 23 125-147 76-98 (169)
69 PF02677 DUF208: Uncharacteriz 52.5 1.4E+02 0.0031 25.1 9.3 105 58-169 13-133 (176)
70 PF03054 tRNA_Me_trans: tRNA m 52.3 44 0.00095 31.3 6.4 51 59-112 16-72 (356)
71 cd06285 PBP1_LacI_like_7 Ligan 51.8 1.2E+02 0.0026 25.6 8.9 98 62-179 108-209 (265)
72 PRK10423 transcriptional repre 51.7 1.6E+02 0.0034 26.0 9.8 100 61-180 167-270 (327)
73 PF02662 FlpD: Methyl-viologen 51.7 67 0.0014 25.2 6.5 51 60-110 45-101 (124)
74 PF07364 DUF1485: Protein of u 51.4 1.3E+02 0.0028 27.4 9.1 116 45-168 28-178 (292)
75 PRK03363 fixB putative electro 51.3 1.3E+02 0.0029 27.6 9.3 81 41-145 6-87 (313)
76 PHA03392 egt ecdysteroid UDP-g 50.4 34 0.00075 33.4 5.7 36 40-75 21-57 (507)
77 PRK14169 bifunctional 5,10-met 50.2 1.8E+02 0.0039 26.4 9.8 86 60-159 21-107 (282)
78 PRK09526 lacI lac repressor; R 50.0 1.7E+02 0.0037 26.0 9.9 73 61-145 174-247 (342)
79 COG0482 TrmU Predicted tRNA(5- 49.6 47 0.001 31.2 6.1 50 59-111 19-72 (356)
80 cd00384 ALAD_PBGS Porphobilino 49.4 1.5E+02 0.0032 27.4 9.1 75 70-146 24-110 (314)
81 COG1817 Uncharacterized protei 49.2 91 0.002 28.9 7.7 88 41-144 2-90 (346)
82 TIGR00177 molyb_syn molybdenum 49.0 81 0.0017 25.1 6.8 60 90-166 31-91 (144)
83 PRK10401 DNA-binding transcrip 48.7 1.6E+02 0.0035 26.3 9.5 99 61-179 169-271 (346)
84 TIGR00236 wecB UDP-N-acetylglu 48.5 1.1E+02 0.0023 27.9 8.4 88 43-145 5-93 (365)
85 cd00758 MoCF_BD MoCF_BD: molyb 48.4 72 0.0016 25.0 6.3 61 90-167 23-84 (133)
86 cd00887 MoeA MoeA family. Memb 48.4 1.5E+02 0.0032 27.9 9.5 93 57-166 149-259 (394)
87 PRK01021 lpxB lipid-A-disaccha 48.2 3.1E+02 0.0067 27.8 12.9 25 125-149 297-321 (608)
88 PRK14172 bifunctional 5,10-met 47.7 2E+02 0.0043 26.0 9.7 85 60-158 22-108 (278)
89 cd03807 GT1_WbnK_like This fam 47.2 1.2E+02 0.0026 26.2 8.2 65 62-146 24-88 (365)
90 PRK10727 DNA-binding transcrip 47.1 1.6E+02 0.0034 26.4 9.2 99 61-179 169-271 (343)
91 PRK06128 oxidoreductase; Provi 46.9 2E+02 0.0044 25.3 9.8 85 39-145 55-141 (300)
92 cd06307 PBP1_uncharacterized_s 46.3 1.9E+02 0.004 24.7 9.7 65 71-145 127-193 (275)
93 PRK11041 DNA-binding transcrip 46.2 1.5E+02 0.0033 25.7 8.8 75 62-146 146-221 (309)
94 PRK14189 bifunctional 5,10-met 46.1 2.2E+02 0.0048 25.8 9.8 86 60-159 23-109 (285)
95 PRK10125 putative glycosyl tra 46.0 43 0.00093 31.5 5.4 32 41-77 2-40 (405)
96 PRK14175 bifunctional 5,10-met 45.9 2E+02 0.0044 26.1 9.5 86 60-159 23-109 (286)
97 PF14097 SpoVAE: Stage V sporu 45.8 1.2E+02 0.0026 25.6 7.2 62 72-150 2-64 (180)
98 COG2845 Uncharacterized protei 45.8 2.6E+02 0.0056 26.1 10.5 54 127-180 215-270 (354)
99 CHL00073 chlN photochlorophyll 45.7 2.3E+02 0.005 27.5 10.4 86 37-145 312-398 (457)
100 PRK14170 bifunctional 5,10-met 45.5 1.9E+02 0.0041 26.2 9.2 86 60-159 22-108 (284)
101 PRK15179 Vi polysaccharide bio 45.4 2.7E+02 0.0058 28.6 11.2 22 125-146 387-408 (694)
102 cd06298 PBP1_CcpA_like Ligand- 45.4 1.7E+02 0.0036 24.7 8.7 86 48-145 97-184 (268)
103 PRK14190 bifunctional 5,10-met 45.0 2E+02 0.0044 26.0 9.3 85 60-158 23-108 (284)
104 cd06292 PBP1_LacI_like_10 Liga 44.8 1.9E+02 0.0041 24.5 9.0 99 61-180 115-216 (273)
105 PRK04930 glutathione-regulated 44.7 58 0.0012 27.5 5.5 39 39-77 5-43 (184)
106 cd00885 cinA Competence-damage 44.5 1.6E+02 0.0036 24.2 8.2 62 90-168 23-85 (170)
107 PRK14166 bifunctional 5,10-met 44.4 2.3E+02 0.005 25.7 9.6 86 60-159 21-107 (282)
108 PRK06849 hypothetical protein; 44.3 1.9E+02 0.0042 26.7 9.5 81 38-145 3-83 (389)
109 PRK15454 ethanol dehydrogenase 44.0 1.1E+02 0.0023 28.9 7.8 68 65-145 46-113 (395)
110 COG3105 Uncharacterized protei 43.9 20 0.00043 28.7 2.3 26 1-26 6-33 (138)
111 PRK14167 bifunctional 5,10-met 43.6 2.3E+02 0.005 25.9 9.5 85 60-158 22-107 (297)
112 cd01537 PBP1_Repressors_Sugar_ 43.3 1.9E+02 0.0041 23.9 10.7 77 57-145 106-185 (264)
113 cd02008 TPP_IOR_alpha Thiamine 43.1 1E+02 0.0022 25.3 6.7 38 40-80 70-109 (178)
114 cd06302 PBP1_LsrB_Quorum_Sensi 42.6 2.3E+02 0.005 24.7 10.5 98 63-178 116-216 (298)
115 TIGR01481 ccpA catabolite cont 42.4 2.4E+02 0.0052 24.8 9.6 97 61-178 169-269 (329)
116 KOG2872 Uroporphyrinogen decar 42.3 2.8E+02 0.0061 25.6 10.0 87 55-159 260-348 (359)
117 cd02010 TPP_ALS Thiamine pyrop 42.0 68 0.0015 26.4 5.5 41 39-81 66-106 (177)
118 cd06308 PBP1_sensor_kinase_lik 41.8 2.2E+02 0.0047 24.2 10.2 82 50-145 103-189 (270)
119 PRK09302 circadian clock prote 41.7 2E+02 0.0044 27.9 9.5 93 40-144 273-369 (509)
120 TIGR00215 lpxB lipid-A-disacch 41.5 27 0.00058 32.7 3.3 22 125-146 76-97 (385)
121 PRK10494 hypothetical protein; 41.4 2.5E+02 0.0055 24.8 10.8 43 65-109 117-160 (259)
122 PRK04148 hypothetical protein; 41.3 1.9E+02 0.004 23.2 8.1 90 39-152 17-114 (134)
123 PLN02897 tetrahydrofolate dehy 41.2 2.3E+02 0.0049 26.6 9.2 79 67-159 84-163 (345)
124 TIGR02470 sucr_synth sucrose s 41.2 38 0.00083 35.1 4.5 61 19-80 234-319 (784)
125 cd05777 DNA_polB_delta_exo DED 41.2 40 0.00087 29.1 4.1 28 122-149 70-97 (230)
126 PRK08195 4-hyroxy-2-oxovalerat 41.1 2.9E+02 0.0063 25.5 13.6 93 40-145 102-194 (337)
127 PRK06988 putative formyltransf 41.1 1.4E+02 0.003 27.2 7.8 83 40-146 3-85 (312)
128 PRK05647 purN phosphoribosylgl 41.0 2.2E+02 0.0049 24.1 9.4 45 91-145 43-87 (200)
129 cd06270 PBP1_GalS_like Ligand 41.0 2.2E+02 0.0048 24.0 12.2 100 61-180 109-212 (268)
130 PRK09492 treR trehalose repres 40.8 2.5E+02 0.0054 24.5 11.8 96 59-178 166-262 (315)
131 TIGR00639 PurN phosphoribosylg 40.7 2.1E+02 0.0045 24.1 8.3 47 90-146 41-87 (190)
132 PRK14185 bifunctional 5,10-met 40.7 2.5E+02 0.0054 25.6 9.2 85 60-158 21-107 (293)
133 PF14552 Tautomerase_2: Tautom 40.0 41 0.00089 24.5 3.4 65 41-107 2-69 (82)
134 cd06288 PBP1_sucrose_transcrip 40.0 2.3E+02 0.0049 23.8 12.6 75 62-146 110-185 (269)
135 COG1066 Sms Predicted ATP-depe 39.9 1E+02 0.0023 29.7 6.8 80 38-144 91-174 (456)
136 PRK14193 bifunctional 5,10-met 39.5 2.9E+02 0.0064 25.0 9.5 84 61-158 24-108 (284)
137 PF00490 ALAD: Delta-aminolevu 39.2 1.3E+02 0.0028 27.8 7.2 75 70-146 30-118 (324)
138 PRK14174 bifunctional 5,10-met 39.2 3E+02 0.0065 25.1 9.6 86 60-159 21-108 (295)
139 PRK14184 bifunctional 5,10-met 39.2 2.9E+02 0.0063 25.1 9.4 86 60-159 21-108 (286)
140 PRK09283 delta-aminolevulinic 38.7 2.5E+02 0.0053 26.1 8.8 75 70-146 32-118 (323)
141 cd06324 PBP1_ABC_sugar_binding 38.7 2.7E+02 0.0059 24.4 10.0 74 62-145 128-209 (305)
142 cd03784 GT1_Gtf_like This fami 38.4 1.3E+02 0.0028 27.6 7.4 21 55-75 16-36 (401)
143 PRK14194 bifunctional 5,10-met 38.3 2.8E+02 0.0061 25.4 9.2 86 60-159 24-110 (301)
144 cd01541 PBP1_AraR Ligand-bindi 38.1 2.2E+02 0.0047 24.2 8.3 100 62-180 115-218 (273)
145 PLN02727 NAD kinase 38.1 4.3E+02 0.0093 28.3 11.4 93 41-151 261-353 (986)
146 PRK05234 mgsA methylglyoxal sy 37.9 2.1E+02 0.0046 22.9 9.5 92 40-162 4-101 (142)
147 cd01575 PBP1_GntR Ligand-bindi 37.8 2.4E+02 0.0053 23.6 10.0 74 62-145 110-184 (268)
148 cd01536 PBP1_ABC_sugar_binding 37.8 2.4E+02 0.0051 23.5 9.6 84 49-146 101-189 (267)
149 PF00994 MoCF_biosynth: Probab 37.6 90 0.0019 24.6 5.4 62 89-167 20-82 (144)
150 PRK14191 bifunctional 5,10-met 37.5 3.2E+02 0.0069 24.8 9.6 86 60-159 21-108 (285)
151 PF13561 adh_short_C2: Enoyl-( 37.5 1.7E+02 0.0037 24.7 7.5 69 57-145 9-80 (241)
152 PRK14188 bifunctional 5,10-met 37.4 3.1E+02 0.0068 24.9 9.4 84 61-158 23-108 (296)
153 cd01574 PBP1_LacI Ligand-bindi 37.3 2.5E+02 0.0054 23.6 9.9 72 62-145 110-181 (264)
154 PRK14182 bifunctional 5,10-met 37.2 3E+02 0.0064 25.0 9.1 85 60-158 21-106 (282)
155 COG0303 MoeA Molybdopterin bio 37.1 3.2E+02 0.0069 26.1 9.7 91 58-165 158-266 (404)
156 cd06293 PBP1_LacI_like_11 Liga 37.1 2.6E+02 0.0056 23.6 9.8 100 61-180 109-212 (269)
157 COG1454 EutG Alcohol dehydroge 37.0 1.4E+02 0.003 28.2 7.2 62 72-145 32-93 (377)
158 PRK01215 competence damage-ind 36.8 2.6E+02 0.0055 24.9 8.7 62 89-167 26-88 (264)
159 PRK14497 putative molybdopteri 36.7 2.8E+02 0.006 27.6 9.6 91 58-165 161-269 (546)
160 PLN02616 tetrahydrofolate dehy 36.7 3.2E+02 0.007 25.8 9.5 79 67-159 101-180 (364)
161 cd06273 PBP1_GntR_like_1 This 36.7 2.6E+02 0.0056 23.5 9.2 74 62-145 110-185 (268)
162 cd03819 GT1_WavL_like This fam 36.6 2E+02 0.0043 25.2 8.1 21 126-146 66-86 (355)
163 COG1609 PurR Transcriptional r 36.4 3.3E+02 0.0072 24.7 10.1 91 59-170 166-259 (333)
164 cd05160 DEDDy_DNA_polB_exo DED 36.4 54 0.0012 27.3 4.1 26 122-147 62-87 (199)
165 cd06281 PBP1_LacI_like_5 Ligan 36.2 2.3E+02 0.005 24.0 8.2 75 60-145 108-183 (269)
166 PRK14168 bifunctional 5,10-met 36.0 3E+02 0.0065 25.1 9.0 84 61-158 24-109 (297)
167 PTZ00346 histone deacetylase; 35.9 59 0.0013 31.3 4.6 27 126-154 256-282 (429)
168 PRK06769 hypothetical protein; 35.9 2.4E+02 0.0052 23.0 8.2 44 55-100 32-75 (173)
169 cd06291 PBP1_Qymf_like Ligand 35.9 2.6E+02 0.0057 23.4 8.6 73 62-145 106-180 (265)
170 PTZ00063 histone deacetylase; 35.8 54 0.0012 31.6 4.3 26 127-154 239-264 (436)
171 COG4221 Short-chain alcohol de 35.7 2.1E+02 0.0045 25.5 7.7 80 40-145 7-88 (246)
172 TIGR02472 sucr_P_syn_N sucrose 35.6 1.1E+02 0.0024 28.8 6.5 36 41-76 2-54 (439)
173 PF03597 CcoS: Cytochrome oxid 35.6 45 0.00098 21.6 2.6 15 30-44 27-42 (45)
174 PRK14180 bifunctional 5,10-met 35.3 3.4E+02 0.0074 24.6 9.6 86 60-159 21-108 (282)
175 PF00532 Peripla_BP_1: Peripla 35.1 2.2E+02 0.0047 25.1 8.0 93 59-171 109-203 (279)
176 cd02167 NMNAT_NadR Nicotinamid 34.8 2.5E+02 0.0054 22.8 8.9 84 60-148 19-110 (158)
177 TIGR02765 crypto_DASH cryptoch 34.8 4E+02 0.0086 25.1 11.8 90 59-169 18-123 (429)
178 cd05781 DNA_polB_B3_exo DEDDy 34.8 61 0.0013 27.2 4.1 28 122-149 47-74 (188)
179 COG1087 GalE UDP-glucose 4-epi 34.8 1E+02 0.0023 28.4 5.8 59 59-146 16-75 (329)
180 COG1015 DeoB Phosphopentomutas 34.6 2.2E+02 0.0047 27.1 7.9 99 59-158 229-347 (397)
181 cd05784 DNA_polB_II_exo DEDDy 34.6 60 0.0013 27.5 4.1 28 122-149 50-77 (193)
182 PLN02516 methylenetetrahydrofo 34.5 3.6E+02 0.0079 24.6 9.5 78 67-158 37-115 (299)
183 PRK14176 bifunctional 5,10-met 34.4 3.6E+02 0.0078 24.5 9.9 86 60-159 28-115 (287)
184 COG2893 ManX Phosphotransferas 34.4 2.4E+02 0.0052 22.8 7.4 68 70-150 2-71 (143)
185 PF02879 PGM_PMM_II: Phosphogl 34.3 1E+02 0.0023 22.7 5.0 77 62-149 16-94 (104)
186 cd05776 DNA_polB_alpha_exo ina 34.0 57 0.0012 28.3 3.9 30 122-151 81-110 (234)
187 PF06745 KaiC: KaiC; InterPro 34.0 1.5E+02 0.0033 25.0 6.6 95 40-144 19-121 (226)
188 PRK15088 PTS system mannose-sp 33.8 3E+02 0.0065 25.3 8.8 65 71-149 4-70 (322)
189 cd06284 PBP1_LacI_like_6 Ligan 33.7 2.8E+02 0.0061 23.1 9.7 75 62-146 109-184 (267)
190 TIGR00355 purH phosphoribosyla 33.5 98 0.0021 30.5 5.7 62 52-113 26-102 (511)
191 cd06267 PBP1_LacI_sugar_bindin 33.5 2.7E+02 0.0059 22.9 11.6 84 50-145 99-184 (264)
192 TIGR03590 PseG pseudaminic aci 33.2 2.9E+02 0.0063 24.4 8.5 17 129-145 71-87 (279)
193 PRK14498 putative molybdopteri 33.0 2.9E+02 0.0063 27.7 9.3 92 57-165 167-276 (633)
194 cd03825 GT1_wcfI_like This fam 32.9 1.3E+02 0.0028 26.5 6.2 36 40-78 1-41 (365)
195 smart00852 MoCF_biosynth Proba 32.9 1.6E+02 0.0034 22.9 6.0 60 91-167 23-83 (135)
196 COG2957 Peptidylarginine deimi 32.4 3E+02 0.0064 25.6 8.2 79 92-183 189-270 (346)
197 cd05780 DNA_polB_Kod1_like_exo 32.3 69 0.0015 26.8 4.1 26 122-147 55-80 (195)
198 PLN00142 sucrose synthase 32.1 46 0.001 34.7 3.4 44 36-79 276-342 (815)
199 cd04824 eu_ALAD_PBGS_cysteine_ 32.0 3.9E+02 0.0084 24.7 8.9 75 70-146 24-113 (320)
200 PRK03673 hypothetical protein; 31.7 3E+02 0.0064 26.2 8.6 65 87-168 22-87 (396)
201 TIGR03030 CelA cellulose synth 31.2 5.9E+02 0.013 26.0 17.1 58 42-100 134-204 (713)
202 PF02729 OTCace_N: Aspartate/o 31.1 1.9E+02 0.0042 23.1 6.3 64 85-165 50-114 (142)
203 PRK14171 bifunctional 5,10-met 30.9 4.1E+02 0.0089 24.1 9.6 85 61-159 23-109 (288)
204 COG0123 AcuC Deacetylases, inc 30.7 62 0.0013 30.1 3.8 25 128-154 229-253 (340)
205 cd06418 GH25_BacA-like BacA is 30.6 3.3E+02 0.0071 23.4 8.1 54 59-112 57-115 (212)
206 cd00006 PTS_IIA_man PTS_IIA, P 30.6 2.5E+02 0.0053 21.5 8.2 66 71-151 2-70 (122)
207 cd06306 PBP1_TorT-like TorT-li 30.6 3.4E+02 0.0074 23.1 9.2 95 63-179 115-215 (268)
208 COG1634 Uncharacterized Rossma 30.5 2.1E+02 0.0045 25.3 6.7 56 37-100 50-115 (232)
209 cd03822 GT1_ecORF704_like This 30.5 1.8E+02 0.004 25.3 6.7 39 41-79 1-42 (366)
210 cd04823 ALAD_PBGS_aspartate_ri 30.3 3.9E+02 0.0085 24.7 8.7 75 70-146 27-115 (320)
211 PRK00005 fmt methionyl-tRNA fo 30.1 2.7E+02 0.0059 25.1 7.9 83 41-145 2-85 (309)
212 PF08660 Alg14: Oligosaccharid 30.0 1.6E+02 0.0034 24.4 5.8 16 132-147 86-101 (170)
213 PRK00039 ruvC Holliday junctio 29.9 1.6E+02 0.0034 24.3 5.7 23 124-146 47-69 (164)
214 PRK03670 competence damage-ind 29.6 3.5E+02 0.0076 23.9 8.3 62 90-167 24-86 (252)
215 PF00850 Hist_deacetyl: Histon 29.3 52 0.0011 29.9 3.0 28 127-156 229-256 (311)
216 cd01421 IMPCH Inosine monophos 29.2 1E+02 0.0022 26.2 4.5 62 52-113 26-102 (187)
217 TIGR03568 NeuC_NnaA UDP-N-acet 29.1 3.1E+02 0.0067 25.3 8.2 94 42-145 4-100 (365)
218 TIGR00847 ccoS cytochrome oxid 28.7 54 0.0012 21.9 2.2 15 30-44 28-43 (51)
219 cd06283 PBP1_RegR_EndR_KdgR_li 28.7 3.5E+02 0.0075 22.6 9.5 74 63-146 111-186 (267)
220 PF08915 tRNA-Thr_ED: Archaea- 28.6 1.5E+02 0.0032 24.0 5.1 60 84-145 56-115 (138)
221 cd03805 GT1_ALG2_like This fam 28.4 74 0.0016 28.8 3.9 32 40-76 1-39 (392)
222 PRK14179 bifunctional 5,10-met 28.3 4.5E+02 0.0098 23.8 9.8 85 60-158 22-108 (284)
223 cd06326 PBP1_STKc_like Type I 28.3 3.6E+02 0.0077 23.7 8.3 74 57-145 125-198 (336)
224 COG1861 SpsF Spore coat polysa 28.2 4.2E+02 0.0091 23.4 10.0 87 59-169 34-120 (241)
225 cd01635 Glycosyltransferase_GT 28.2 2.1E+02 0.0045 22.8 6.2 9 66-74 29-37 (229)
226 PRK14690 molybdopterin biosynt 27.9 4.2E+02 0.0092 25.3 9.0 91 58-165 175-283 (419)
227 PF00875 DNA_photolyase: DNA p 27.5 3.2E+02 0.0069 21.8 11.0 91 58-169 15-115 (165)
228 cd06317 PBP1_ABC_sugar_binding 27.4 3.7E+02 0.0081 22.5 10.3 69 67-145 124-194 (275)
229 PRK14183 bifunctional 5,10-met 27.0 4.8E+02 0.01 23.6 9.5 80 66-159 28-108 (281)
230 PF05582 Peptidase_U57: YabG p 26.9 68 0.0015 29.1 3.2 24 122-145 138-161 (287)
231 PF13158 DUF3993: Protein of u 26.8 59 0.0013 25.6 2.5 19 1-19 1-19 (122)
232 PTZ00397 macrophage migration 26.7 1.5E+02 0.0032 22.6 4.8 62 37-106 33-97 (116)
233 PRK11866 2-oxoacid ferredoxin 26.7 4.8E+02 0.01 23.5 8.7 97 38-147 76-192 (279)
234 COG3598 RepA RecA-family ATPas 26.6 95 0.0021 29.1 4.1 52 91-144 146-200 (402)
235 PF03104 DNA_pol_B_exo1: DNA p 26.4 71 0.0015 28.4 3.4 26 122-147 221-246 (325)
236 COG1619 LdcA Uncharacterized p 26.1 3.5E+02 0.0076 24.9 7.8 76 59-145 31-109 (313)
237 PF02525 Flavodoxin_2: Flavodo 26.1 76 0.0016 26.4 3.3 38 40-78 1-44 (199)
238 PRK14186 bifunctional 5,10-met 26.0 5.1E+02 0.011 23.6 9.5 78 67-158 30-108 (297)
239 PRK00871 glutathione-regulated 25.9 1.4E+02 0.003 25.0 4.7 24 42-65 2-25 (176)
240 cd05785 DNA_polB_like2_exo Unc 25.6 98 0.0021 26.4 3.9 25 122-146 57-81 (207)
241 PRK10339 DNA-binding transcrip 25.4 4.7E+02 0.01 23.0 9.4 75 84-178 189-267 (327)
242 COG0113 HemB Delta-aminolevuli 25.4 4.8E+02 0.01 24.1 8.3 75 70-146 34-122 (330)
243 cd06290 PBP1_LacI_like_9 Ligan 25.3 4.1E+02 0.0088 22.3 8.6 74 62-145 109-183 (265)
244 TIGR00758 UDG_fam4 uracil-DNA 25.1 3.5E+02 0.0076 22.1 7.1 87 36-145 18-107 (173)
245 cd01542 PBP1_TreR_like Ligand- 25.1 4E+02 0.0087 22.1 8.6 73 62-146 108-181 (259)
246 PF08924 DUF1906: Domain of un 25.1 3E+02 0.0065 21.8 6.4 53 59-111 43-102 (136)
247 PRK09458 pspB phage shock prot 25.1 1.2E+02 0.0025 22.0 3.5 27 1-27 1-29 (75)
248 PRK06027 purU formyltetrahydro 25.0 5.1E+02 0.011 23.3 8.7 43 93-146 131-173 (286)
249 COG1908 FrhD Coenzyme F420-red 24.9 3.6E+02 0.0078 21.5 7.0 76 60-140 46-127 (132)
250 COG0027 PurT Formate-dependent 24.8 2.1E+02 0.0045 26.8 5.9 63 70-144 13-81 (394)
251 COG3197 FixS Uncharacterized p 24.8 52 0.0011 22.5 1.6 15 30-44 28-43 (58)
252 TIGR00200 cinA_nterm competenc 24.8 3.9E+02 0.0084 25.5 8.1 63 87-166 21-84 (413)
253 PRK14187 bifunctional 5,10-met 24.7 5.4E+02 0.012 23.5 9.8 83 62-158 24-108 (294)
254 PLN02605 monogalactosyldiacylg 24.6 74 0.0016 29.3 3.2 20 127-146 89-108 (382)
255 cd01540 PBP1_arabinose_binding 24.6 4.4E+02 0.0096 22.4 9.2 72 65-145 124-201 (289)
256 cd01973 Nitrogenase_VFe_beta_l 24.5 5.9E+02 0.013 24.5 9.4 84 37-145 303-388 (454)
257 PRK03501 ppnK inorganic polyph 24.4 4.1E+02 0.0089 23.7 7.8 85 42-135 4-96 (264)
258 PF05393 Hum_adeno_E3A: Human 24.2 1.3E+02 0.0027 22.6 3.6 13 39-51 66-78 (94)
259 KOG1342 Histone deacetylase co 24.2 1.3E+02 0.0028 28.6 4.5 23 127-151 241-263 (425)
260 cd06301 PBP1_rhizopine_binding 24.2 4.3E+02 0.0094 22.2 10.3 85 48-146 102-191 (272)
261 TIGR01251 ribP_PPkin ribose-ph 24.1 4.5E+02 0.0098 23.8 8.2 23 127-149 107-129 (308)
262 cd06300 PBP1_ABC_sugar_binding 24.1 4.4E+02 0.0095 22.2 10.6 84 48-145 104-192 (272)
263 TIGR03380 agmatine_aguA agmati 24.1 1.9E+02 0.0041 27.1 5.8 82 89-183 180-265 (357)
264 cd06319 PBP1_ABC_sugar_binding 23.9 4.4E+02 0.0095 22.2 10.1 54 83-146 139-193 (277)
265 PF02075 RuvC: Crossover junct 23.9 1.9E+02 0.004 23.3 5.1 24 124-147 44-67 (149)
266 cd01974 Nitrogenase_MoFe_beta 23.9 6.3E+02 0.014 24.0 10.5 84 37-145 301-384 (435)
267 PF15609 PRTase_2: Phosphoribo 23.7 2.8E+02 0.006 23.7 6.2 54 39-101 121-180 (191)
268 cd06533 Glyco_transf_WecG_TagA 23.6 4.1E+02 0.0089 21.7 7.5 16 130-145 91-106 (171)
269 cd01391 Periplasmic_Binding_Pr 23.5 4E+02 0.0086 21.5 9.0 85 46-145 103-189 (269)
270 COG2230 Cfa Cyclopropane fatty 23.5 2.7E+02 0.0058 25.3 6.4 64 36-114 70-135 (283)
271 COG0462 PrsA Phosphoribosylpyr 23.4 1.1E+02 0.0025 28.1 4.0 41 36-81 211-255 (314)
272 COG1058 CinA Predicted nucleot 23.4 3.3E+02 0.0071 24.4 6.8 60 91-167 26-86 (255)
273 PF00764 Arginosuc_synth: Argi 23.4 6.2E+02 0.013 24.1 9.0 99 59-167 13-130 (388)
274 PLN02331 phosphoribosylglycina 23.4 3.7E+02 0.008 23.0 7.1 44 92-145 42-85 (207)
275 PRK09739 hypothetical protein; 23.4 1.1E+02 0.0025 25.5 3.9 38 39-78 3-45 (199)
276 cd06309 PBP1_YtfQ_like Peripla 23.3 4.6E+02 0.0099 22.1 10.2 73 62-146 116-193 (273)
277 TIGR02855 spore_yabG sporulati 23.2 69 0.0015 29.0 2.5 24 122-145 137-160 (283)
278 PRK10680 molybdopterin biosynt 23.2 6.5E+02 0.014 23.9 9.6 92 57-165 158-267 (411)
279 PF02698 DUF218: DUF218 domain 23.2 3.5E+02 0.0077 21.1 6.6 71 65-145 34-105 (155)
280 cd01965 Nitrogenase_MoFe_beta_ 23.1 4.5E+02 0.0098 24.8 8.3 82 37-145 297-378 (428)
281 PLN02699 Bifunctional molybdop 23.0 3.9E+02 0.0085 27.2 8.1 41 123-166 509-549 (659)
282 cd05778 DNA_polB_zeta_exo inac 22.9 1.2E+02 0.0025 26.3 3.9 28 122-149 80-107 (231)
283 PRK13551 agmatine deiminase; P 22.8 3E+02 0.0064 25.9 6.8 83 88-183 182-268 (362)
284 cd01544 PBP1_GalR Ligand-bindi 22.7 4.7E+02 0.01 22.1 9.3 78 83-180 131-214 (270)
285 PF03610 EIIA-man: PTS system 22.6 3.4E+02 0.0074 20.4 7.4 64 72-149 2-68 (116)
286 TIGR00032 argG argininosuccina 22.6 6.7E+02 0.014 23.8 10.3 78 61-144 17-112 (394)
287 PRK14665 mnmA tRNA-specific 2- 22.6 2.3E+02 0.005 26.5 6.0 95 42-145 9-120 (360)
288 PF04123 DUF373: Domain of unk 22.2 5.4E+02 0.012 24.0 8.3 63 45-109 38-106 (344)
289 PRK11865 pyruvate ferredoxin o 21.9 6.1E+02 0.013 23.1 12.9 125 40-180 92-241 (299)
290 COG1011 Predicted hydrolase (H 21.9 95 0.002 25.9 3.1 20 60-79 105-124 (229)
291 PRK08125 bifunctional UDP-gluc 21.9 4.7E+02 0.01 26.3 8.5 82 41-146 2-83 (660)
292 PRK10653 D-ribose transporter 21.8 5.3E+02 0.011 22.3 13.3 109 48-179 127-238 (295)
293 cd03821 GT1_Bme6_like This fam 21.6 99 0.0022 26.8 3.3 38 41-79 1-43 (375)
294 cd06297 PBP1_LacI_like_12 Liga 21.5 5E+02 0.011 22.0 8.4 79 83-180 133-215 (269)
295 PRK09860 putative alcohol dehy 21.5 6.6E+02 0.014 23.4 8.9 68 65-145 28-95 (383)
296 cd03791 GT1_Glycogen_synthase_ 21.3 1.6E+02 0.0035 27.7 4.9 19 58-76 24-42 (476)
297 PRK10792 bifunctional 5,10-met 21.2 6.2E+02 0.013 22.9 9.6 85 60-158 23-109 (285)
298 TIGR02655 circ_KaiC circadian 21.2 4.6E+02 0.0099 25.4 8.0 53 86-144 301-359 (484)
299 cd06312 PBP1_ABC_sugar_binding 21.1 5.1E+02 0.011 21.9 10.1 97 62-181 118-217 (271)
300 cd07062 Peptidase_S66_mccF_lik 21.1 6.2E+02 0.013 22.8 8.8 44 57-100 21-67 (308)
301 PRK13811 orotate phosphoribosy 21.1 1.5E+02 0.0033 24.3 4.1 31 36-71 101-135 (170)
302 cd01987 USP_OKCHK USP domain i 21.1 3.5E+02 0.0075 19.9 13.1 99 51-169 13-114 (124)
303 cd08179 NADPH_BDH NADPH-depend 21.0 6.7E+02 0.014 23.2 8.9 75 58-145 13-88 (375)
304 PRK14335 (dimethylallyl)adenos 20.9 7.4E+02 0.016 23.7 9.7 90 42-143 243-343 (455)
305 cd05779 DNA_polB_epsilon_exo D 20.9 1.4E+02 0.0031 25.4 4.0 25 122-146 72-96 (204)
306 TIGR02990 ectoine_eutA ectoine 20.7 5.7E+02 0.012 22.3 8.5 59 37-98 118-177 (239)
307 cd06322 PBP1_ABC_sugar_binding 20.7 5.1E+02 0.011 21.7 10.0 93 62-178 113-209 (267)
308 PRK14077 pnk inorganic polypho 20.5 5.5E+02 0.012 23.1 7.9 87 42-135 12-119 (287)
309 PF13407 Peripla_BP_4: Peripla 20.4 5.1E+02 0.011 21.6 8.8 85 50-145 103-189 (257)
310 PLN02285 methionyl-tRNA formyl 20.2 6.1E+02 0.013 23.3 8.3 89 38-146 5-101 (334)
311 PF02310 B12-binding: B12 bind 20.1 3.7E+02 0.008 19.9 8.3 24 50-73 11-34 (121)
312 TIGR00460 fmt methionyl-tRNA f 20.0 5.5E+02 0.012 23.2 7.9 83 41-146 2-86 (313)
No 1
>KOG3332 consensus N-acetylglucosaminyl phosphatidylinositol de-N-acetylase [Cell wall/membrane/envelope biogenesis]
Probab=100.00 E-value=3.6e-56 Score=375.75 Aligned_cols=244 Identities=47% Similarity=0.723 Sum_probs=211.4
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhcCCcccccccccCCCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC
Q 025219 1 MSWLLVIVSTIVVWVASLFKILNSSRSQSNAAFLTTGDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA 80 (256)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~ 80 (256)
|.|..+....++++++. +-|..++...+++ +.....|+|++.||||||+||+||||..|.+.|++|+++|+++|++
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 34655555555544443 4445555543443 3466778999999999999999999999999999999999999999
Q ss_pred CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHH
Q 025219 81 DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVH 160 (256)
Q Consensus 81 ~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~ 160 (256)
+|+|++|++|+.+||..||+|.+++..++.|+++||+++.|+++.+.+.+.+.++..+.|+|+|||..|++||++|++++
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 HHHHHHHhh-cCCCceeEEEecchhhhhhcCCChhhHHHhhhhhcccCCceeEEEcCCHHHHHHHHHhchhhhhhHHhhh
Q 025219 161 HGIWSYLNG-TSERNIEAWELMTTNILRKYSGPLDIWLSILSATQYRRGQVHCLLNEHPKKSFLAMSQHHSQWVWFRKLF 239 (256)
Q Consensus 161 ~av~~a~~~-~~~~~~~~~e~~s~~~~~~y~~~~d~~~~~~~~~~~~~~~~~~~v~~~~~~K~~Am~~H~SQ~~w~r~l~ 239 (256)
.++..++.. ..++.+.++.+.|.|.+|||.+++|++.+... +...++.-+..+..+||.||+||++||||+|
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 998877643 34578999999999999999999999988662 3344565567788999999999999999999
Q ss_pred hhhhcceeeeceeecC
Q 025219 240 VSFSSYTYVNTLKRIN 255 (256)
Q Consensus 240 ~~fsry~~~N~~~~i~ 255 (256)
++|||||++|+|.+|+
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=1.1e-35 Score=266.46 Aligned_cols=127 Identities=23% Similarity=0.319 Sum_probs=112.0
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC--------------CchHHHHHHHHHHHHHcCCCCCcEE
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD--------------GMGNIRKDELHRACAVLKIPLEQVK 106 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~--------------~~~~~R~~E~~~A~~~LGv~~~~~~ 106 (256)
|+|+|+||||||++||||||++++++|++|++||+|+|+.+ +++++|++|+++||++||+ + ..
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 79999999999999999999999999999999999999854 2478899999999999999 3 46
Q ss_pred EccCCCCC-----------CCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhhc
Q 025219 107 VLDLVDFQ-----------DGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGT 170 (256)
Q Consensus 107 ~l~~~d~~-----------dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~ 170 (256)
+++|+|.. ++....|+.+++.+.|.++|++++||+|+|||++|.|+|+||+++++++.+|+...
T Consensus 79 ~Lg~~Dsgl~~~~~~~~~~~~~~~~~~~~~~~~~L~~iIr~~~PdvVvT~d~~GgygHpDH~~v~~a~~~A~~~a 153 (283)
T TIGR03446 79 WLGFVDSGLPEGDPLPPLPEGCFALEPLEEAAEPLVRVIREFRPHVITTYDENGGYPHPDHIMCHEVSVEAFEAA 153 (283)
T ss_pred EeccccCCccccCccccCCccccccCCHHHHHHHHHHHHHHcCCEEEEecCCCCCCCChhHHHHHHHHHHHHHHc
Confidence 79998752 12222467889999999999999999999999999999999999999999998654
No 3
>COG2120 Uncharacterized proteins, LmbE homologs [Function unknown]
Probab=100.00 E-value=4.7e-35 Score=256.99 Aligned_cols=181 Identities=21% Similarity=0.251 Sum_probs=139.3
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCc------hHHHHHHHHHHHHHcCCCCCcEEEccC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGM------GNIRKDELHRACAVLKIPLEQVKVLDL 110 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~------~~~R~~E~~~A~~~LGv~~~~~~~l~~ 110 (256)
....++|+|+||||||++||||||+++.++|++|.++|+|+|+.++. +++|++|+++||++||+ ..+++|++
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 55779999999999999999999999999999999999999998754 45699999999999999 56999999
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCCCc--eeEEEecchhhhhh
Q 025219 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSERN--IEAWELMTTNILRK 188 (256)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~~--~~~~e~~s~~~~~~ 188 (256)
+|. ...|+.+++.+.|.++|++.+|++|+|+++.+.++||||+.+++++..|++...... ...+.. ....
T Consensus 86 ~~~----~~~~~~~~~~~~L~~ii~~~~P~~V~t~~~~d~~~HpDH~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~ 157 (237)
T COG2120 86 PDT----GADADPEEITGALVAIIRRLRPDVVFTPYPDDGYGHPDHRATHEAAKAAVRTAGIPLYRPRLWGG----ALGR 157 (237)
T ss_pred Ccc----ccccChHHHHHHHHHHHHHhCCCEEEecCCCCCCCCCChHHHHHHHHHHHHhccccccCcccccc----cccC
Confidence 952 245788999999999999999999999987666799999999999999987654322 111110 0000
Q ss_pred cCCChhhHHHhhhhhcccCCceeEEEcCCHHHHHHHHHhchhhhh
Q 025219 189 YSGPLDIWLSILSATQYRRGQVHCLLNEHPKKSFLAMSQHHSQWV 233 (256)
Q Consensus 189 y~~~~d~~~~~~~~~~~~~~~~~~~v~~~~~~K~~Am~~H~SQ~~ 233 (256)
+. ....... ....++...++....+.|.+||++|+||..
T Consensus 158 ~~---~~~~~~~---~~~~~~v~~di~~~~~~k~~Ai~ah~sQ~~ 196 (237)
T COG2120 158 PR---EPLYYER---AAGSPDVFVDITDEVEAKLAAIRAHKSQFG 196 (237)
T ss_pred Cc---ccccccc---cCCCCCeEEechHHHHHHHHHHHHHHHHhc
Confidence 10 0000000 011134445566667899999999999987
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=3.4e-34 Score=257.37 Aligned_cols=125 Identities=24% Similarity=0.353 Sum_probs=107.8
Q ss_pred EEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC----------------chHHHHHHHHHHHHHcCCCCCcEE
Q 025219 43 LLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG----------------MGNIRKDELHRACAVLKIPLEQVK 106 (256)
Q Consensus 43 Lvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~----------------~~~~R~~E~~~A~~~LGv~~~~~~ 106 (256)
|+|+||||||+|||||||++++++|++|++||+|+|+.+. ++++|++|+++||++||+ +.+.
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 467899999999999999 5678
Q ss_pred Ecc----CCCCCCCcc---------ccCC--hHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcC
Q 025219 107 VLD----LVDFQDGFD---------KLWN--HKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS 171 (256)
Q Consensus 107 ~l~----~~d~~dg~~---------~~~~--~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~ 171 (256)
+|+ |+|. |+. ..|. .+++.+.|.++|++++||+|+||+++|.|+|+||+++++++.+|++...
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 4553 121 1333 3578999999999999999999999999999999999999999986543
No 5
>PRK02122 glucosamine-6-phosphate deaminase-like protein; Validated
Probab=100.00 E-value=3.8e-32 Score=267.40 Aligned_cols=180 Identities=23% Similarity=0.299 Sum_probs=138.7
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC----------------------------------
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG---------------------------------- 82 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~---------------------------------- 82 (256)
...+|+|+|+||||||+|||||||++++++|++|+++++|+|+.+.
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 5578999999999999999999999999999999999999998520
Q ss_pred -------------------chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCC-hHHHHHHHHHHHHhcCCCEE
Q 025219 83 -------------------MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWN-HKSLAKIVEEEVVNCSIDLI 142 (256)
Q Consensus 83 -------------------~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~-~~~l~~~l~~~i~~~~Pd~V 142 (256)
.+.+|++|+++||++||++.++++||++||+++|.....+ .++.++.+.++|++++|++|
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 2579999999999999998779999999998776433222 35678899999999999999
Q ss_pred EecCCCCCCCCchHHHHHHHHHHHHhhcCCC----ceeEEEecchhhhhhcCCChhhHHHhhhhhcccCCceeEEEcCC-
Q 025219 143 ITFDNYGVSGHCNHRDVHHGIWSYLNGTSER----NIEAWELMTTNILRKYSGPLDIWLSILSATQYRRGQVHCLLNEH- 217 (256)
Q Consensus 143 ~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~----~~~~~e~~s~~~~~~y~~~~d~~~~~~~~~~~~~~~~~~~v~~~- 217 (256)
||+. +..|.|+||++|++++.+|++..... .+.+|-.. +....| +..++.+.|+.+
T Consensus 527 ~~~~-~~~D~H~DHr~~~~av~~A~~~~~~~~~~~~~~vw~y~---------~aw~e~---------~~~~~~~~VdiS~ 587 (652)
T PRK02122 527 FVAG-DLADPHGTHRVCLDAIFAALDRLKEEEWMKDCRVWLYR---------GAWQEW---------EIHEIEMAVPLSP 587 (652)
T ss_pred EECC-CCCCCCchHHHHHHHHHHHHHhcccCcccccceeEEec---------cccccc---------cCCCCCEEEECCH
Confidence 9983 45789999999999999998653211 22222211 110001 001334455554
Q ss_pred --HHHHHHHHHhchhhhhhH
Q 025219 218 --PKKSFLAMSQHHSQWVWF 235 (256)
Q Consensus 218 --~~~K~~Am~~H~SQ~~w~ 235 (256)
.++|++||++|+||+.+.
T Consensus 588 ~~~~~K~~Ai~~H~SQ~~~~ 607 (652)
T PRK02122 588 EELLRKRNAIFKHQSQKDSA 607 (652)
T ss_pred HHHHHHHHHHHHhHhhcCCC
Confidence 579999999999998864
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=1.2e-31 Score=213.60 Aligned_cols=119 Identities=31% Similarity=0.474 Sum_probs=102.1
Q ss_pred EEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC---------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 43 LLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD---------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 43 Lvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~---------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
|+|+||||||+|||||+|+++.++|.+|+++++|+|+.+ +.+++|++|.++||+.||+ +++.++++||.
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 CCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
+. ..|+.+++.+.|+++|++++||+|+||++.+. +|+||+++++++++|+
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 23567899999999999999999999976553 5999999999999885
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=94.67 E-value=0.15 Score=41.84 Aligned_cols=91 Identities=14% Similarity=0.168 Sum_probs=58.3
Q ss_pred cEEEEecCc-------hhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 41 NVLLVIAHP-------DDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 41 ~vLvv~aHP-------DDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
++|++.-|. |-|.+..+-.|+. +.|.+|.++++-+.+ .-.+++++++...|+ ++++.++.+.+
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 367777775 2233333332222 237788888876321 234556777888999 78888887654
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
. .++.+...+.|.+++++.+||+|++.+
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 246678899999999999999999883
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=92.58 E-value=1.5 Score=36.04 Aligned_cols=90 Identities=12% Similarity=0.061 Sum_probs=53.7
Q ss_pred cEEEEecCchhhhcchHHHHHHHH-hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLT-SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~-~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (256)
++|+++=|.+++.--..--+...+ +.|.+|.++++-.+. .++ .+.+..+|+ ++++.++.+.+.
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 334566665543321 112 223345799 678877755422
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..+.+...+.|.+++++.+|++|++..
T Consensus 65 ~~~~~~~a~al~~~i~~~~p~~Vl~~~ 91 (168)
T cd01715 65 HYLAEPYAPALVALAKKEKPSHILAGA 91 (168)
T ss_pred ccChHHHHHHHHHHHHhcCCCEEEECC
Confidence 135677888999999999999999874
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=92.11 E-value=0.45 Score=42.61 Aligned_cols=88 Identities=13% Similarity=0.008 Sum_probs=52.0
Q ss_pred chHHHHHHHH-hCCCcEEEEEEeC-CCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHH
Q 025219 55 FFSPTINYLT-SRRHNLHILCMSN-GNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEE 132 (256)
Q Consensus 55 ~~Ggtl~~l~-~~G~~V~vv~lT~-G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~ 132 (256)
..|=+|...+ +.|.+..+-+-.. --.......|+++++++|+-||+ ..++..-||-.++.+..--.+-+.+.+.+
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 4566776666 4799987766333 22234567899999999999999 56777777743322211012347788999
Q ss_pred HHHhcCCCEEEec
Q 025219 133 EVVNCSIDLIITF 145 (256)
Q Consensus 133 ~i~~~~Pd~V~t~ 145 (256)
.|.++.+|+.|-.
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=90.48 E-value=3.4 Score=34.25 Aligned_cols=47 Identities=15% Similarity=0.182 Sum_probs=34.7
Q ss_pred HHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 93 RACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 93 ~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+.+..+|+ ++++..+.+.+. .++.+...+.|.+++++.+|++|++..
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 33446799 678877765432 235677888999999999999999874
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=90.48 E-value=2 Score=39.77 Aligned_cols=89 Identities=24% Similarity=0.296 Sum_probs=59.0
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEcc-CCCCCCCcc
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLD-LVDFQDGFD 118 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~ 118 (256)
++|++=..||=- +.++-+.|.+|.+.|++|.+.+-- ..+..+-++.+|+ ++..++ +.+.. ..
T Consensus 1 MkIwiDi~~p~h-vhfFk~~I~eL~~~GheV~it~R~-----------~~~~~~LL~~yg~---~y~~iG~~g~~~--~~ 63 (335)
T PF04007_consen 1 MKIWIDITHPAH-VHFFKNIIRELEKRGHEVLITARD-----------KDETEELLDLYGI---DYIVIGKHGDSL--YG 63 (335)
T ss_pred CeEEEECCCchH-HHHHHHHHHHHHhCCCEEEEEEec-----------cchHHHHHHHcCC---CeEEEcCCCCCH--HH
Confidence 467888888884 567889999999999998766531 2456778889999 344444 32210 11
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
..+..-.=...+.+++++++||+++++
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=86.90 E-value=2.7 Score=38.18 Aligned_cols=92 Identities=11% Similarity=0.033 Sum_probs=50.6
Q ss_pred CcEEEEec-CchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025219 40 KNVLLVIA-HPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (256)
Q Consensus 40 ~~vLvv~a-HPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (256)
+|+++++. ..-+|. .+--....+.++|++|++++...+. . .+ ..+..|+ +++.++.+.......
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 46777765 555554 3334455567789999888763321 0 11 1111577 455555432210000
Q ss_pred -----ccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 119 -----KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 119 -----~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..+..-.....+.+++++.+||+|+++.
T Consensus 67 ~~~l~~~~~~~~~~~~~~~~ik~~~pDvv~~~~ 99 (357)
T PRK00726 67 LANLKAPFKLLKGVLQARKILKRFKPDVVVGFG 99 (357)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCEEEECC
Confidence 0111123345677888999999999984
No 13
>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=83.06 E-value=12 Score=29.15 Aligned_cols=90 Identities=16% Similarity=0.257 Sum_probs=55.1
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCCC-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 58 PTINYLTSRRHNLHILCMSNGNADG-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 58 gtl~~l~~~G~~V~vv~lT~G~~~~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
.-+..+.++|....++++.-|+..+ ..-.|. ..++|+.+|+ ++....+|.. .+.+++.+.|.++-.+
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 3456777789889888888776432 222232 3588999999 5666666542 2467888888888888
Q ss_pred cCCCEEEecCCCCCCCCchHHHHHH
Q 025219 137 CSIDLIITFDNYGVSGHCNHRDVHH 161 (256)
Q Consensus 137 ~~Pd~V~t~d~~g~d~H~DH~~v~~ 161 (256)
-+.+=|+.. .+...|.|...+..
T Consensus 86 ~~V~GIlvq--~PLP~~i~~~~i~~ 108 (117)
T PF00763_consen 86 PSVHGILVQ--LPLPKHIDERKILE 108 (117)
T ss_dssp TT-SEEEEE--SSSSTTSHHHHHHH
T ss_pred CCCCEEEEc--CCCCCCccHHHHHh
Confidence 778888888 44557887776544
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=82.51 E-value=8.4 Score=35.68 Aligned_cols=85 Identities=14% Similarity=0.160 Sum_probs=43.8
Q ss_pred hhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHH
Q 025219 50 DDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKI 129 (256)
Q Consensus 50 DDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~ 129 (256)
...+..+-.+...+.++|++|++++...++.. +. +.. .-|+ .++.+.......+. ...........
T Consensus 14 GG~e~~~~~la~~L~~~G~~V~v~~~~~~~~~--~~----~~~----~~~i---~v~~~p~~~~~~~~-~~~~~~~~~~~ 79 (398)
T cd03796 14 GGVETHIYQLSQCLIKRGHKVVVITHAYGNRV--GI----RYL----TNGL---KVYYLPFVVFYNQS-TLPTFFGTFPL 79 (398)
T ss_pred ccHHHHHHHHHHHHHHcCCeeEEEeccCCcCC--Cc----ccc----cCce---eEEEecceeccCCc-cccchhhhHHH
Confidence 33445566667777889999988875433211 10 000 1244 23333321111000 01111123456
Q ss_pred HHHHHHhcCCCEEEecCCC
Q 025219 130 VEEEVVNCSIDLIITFDNY 148 (256)
Q Consensus 130 l~~~i~~~~Pd~V~t~d~~ 148 (256)
+.+.+.+.+||+|.+|++.
T Consensus 80 l~~~~~~~~~DiIh~~~~~ 98 (398)
T cd03796 80 LRNILIRERITIVHGHQAF 98 (398)
T ss_pred HHHHHHhcCCCEEEECCCC
Confidence 7777888899999998643
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=82.40 E-value=12 Score=31.89 Aligned_cols=66 Identities=15% Similarity=0.188 Sum_probs=43.7
Q ss_pred CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 66 RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 66 ~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
.|.+|.++.+.+++ ..+..+.+..+|+ ++++..+.+.+. .++.+...+.|.+++++.+|++|++.
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 778888765432 34667888999999999999999998
Q ss_pred C
Q 025219 146 D 146 (256)
Q Consensus 146 d 146 (256)
.
T Consensus 116 ~ 116 (202)
T cd01714 116 K 116 (202)
T ss_pred C
Confidence 4
No 16
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=82.35 E-value=11 Score=29.08 Aligned_cols=82 Identities=18% Similarity=0.152 Sum_probs=46.8
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccC
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLW 121 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~ 121 (256)
+|.|+.=|+ . ++--.+..+.+.|++|++++..++. .+ --...|+ .+..+..+ .. + ..
T Consensus 2 Il~i~~~~~--~-~~~~~~~~L~~~g~~V~ii~~~~~~---------~~---~~~~~~i---~~~~~~~~-~k-~---~~ 58 (139)
T PF13477_consen 2 ILLIGNTPS--T-FIYNLAKELKKRGYDVHIITPRNDY---------EK---YEIIEGI---KVIRLPSP-RK-S---PL 58 (139)
T ss_pred EEEEecCcH--H-HHHHHHHHHHHCCCEEEEEEcCCCc---------hh---hhHhCCe---EEEEecCC-CC-c---cH
Confidence 555555442 2 3456677778889999999984431 00 1113444 23333322 11 1 11
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
+.-.+ ..+.+++++.+||+|.+|.+
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 37899999999999999854
No 17
>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=81.75 E-value=9.3 Score=33.10 Aligned_cols=88 Identities=14% Similarity=0.155 Sum_probs=46.4
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
+||+|++...-....+-..+..+.+.|++|.+++...+... .....|+ +++.+..... +. ..
T Consensus 1 kIl~i~~~~~g~~~~~~~l~~~L~~~g~~v~~~~~~~~~~~------------~~~~~~~---~~~~~~~~~~--~~-~~ 62 (359)
T cd03808 1 KILHIVTVDGGLYSFRLPLIKALRAAGYEVHVVAPPGDELE------------ELEALGV---KVIPIPLDRR--GI-NP 62 (359)
T ss_pred CeeEEEecchhHHHHHHHHHHHHHhcCCeeEEEecCCCccc------------ccccCCc---eEEecccccc--cc-Ch
Confidence 35666665222222344455566678999998876655321 1122354 2333332211 01 11
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+..-.....+.+.+++.+||+|+++.
T Consensus 63 ~~~~~~~~~~~~~~~~~~~dvv~~~~ 88 (359)
T cd03808 63 FKDLKALLRLYRLLRKERPDIVHTHT 88 (359)
T ss_pred HhHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 12223345677788889999998874
No 18
>PRK12342 hypothetical protein; Provisional
Probab=79.97 E-value=17 Score=32.35 Aligned_cols=72 Identities=10% Similarity=0.147 Sum_probs=44.1
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCE
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDL 141 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~ 141 (256)
++++.|.+|+++++ |.. .....++++-|=.+|+ ++.+.+..+.+. | .+.-.....|...|++..||+
T Consensus 46 rLk~~g~~Vtvls~--Gp~----~a~~~~l~r~alamGa--D~avli~d~~~~-g----~D~~ata~~La~~i~~~~~DL 112 (254)
T PRK12342 46 QLATDGDEIAALTV--GGS----LLQNSKVRKDVLSRGP--HSLYLVQDAQLE-H----ALPLDTAKALAAAIEKIGFDL 112 (254)
T ss_pred HHhhcCCEEEEEEe--CCC----hHhHHHHHHHHHHcCC--CEEEEEecCccC-C----CCHHHHHHHHHHHHHHhCCCE
Confidence 34456877766665 422 1112334344445799 666666543321 1 255567788999999989999
Q ss_pred EEecC
Q 025219 142 IITFD 146 (256)
Q Consensus 142 V~t~d 146 (256)
|++=.
T Consensus 113 Vl~G~ 117 (254)
T PRK12342 113 LLFGE 117 (254)
T ss_pred EEEcC
Confidence 99964
No 19
>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=79.68 E-value=17 Score=28.16 Aligned_cols=66 Identities=14% Similarity=0.219 Sum_probs=47.4
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEecCCC
Q 025219 71 HILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDNY 148 (256)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~~ 148 (256)
.++..|.|+ -.+++.++++.+--+.+++..+++.... +.+++.+++.+.+.+.+. ++|+..|-.
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 467778873 5678888988874345678888876521 457788889999988754 467777766
Q ss_pred CC
Q 025219 149 GV 150 (256)
Q Consensus 149 g~ 150 (256)
|+
T Consensus 69 GG 70 (116)
T TIGR00824 69 GG 70 (116)
T ss_pred CC
Confidence 64
No 20
>PRK11677 hypothetical protein; Provisional
Probab=79.63 E-value=1.8 Score=34.81 Aligned_cols=24 Identities=21% Similarity=0.439 Sum_probs=18.0
Q ss_pred CchhHHHHHHHH--HHHHHHHHHHhc
Q 025219 1 MSWLLVIVSTIV--VWVASLFKILNS 24 (256)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~ 24 (256)
|.|+++++|+|+ ++.+++.|+...
T Consensus 1 M~W~~a~i~livG~iiG~~~~R~~~~ 26 (134)
T PRK11677 1 MTWEYALIGLVVGIIIGAVAMRFGNR 26 (134)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhhccc
Confidence 999999999999 334677775433
No 21
>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=78.93 E-value=11 Score=34.24 Aligned_cols=81 Identities=12% Similarity=0.085 Sum_probs=48.0
Q ss_pred CcEEEEecCchhhhcchHHH-------HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025219 40 KNVLLVIAHPDDESMFFSPT-------INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVD 112 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggt-------l~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (256)
.+||.|..+.+ .||. +..+.++|+++.++++++++ +..+-....|+ +++.++...
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 46888888864 3555 22233568888888876642 12223333576 344443321
Q ss_pred CCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 113 FQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 113 ~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
. . .-.....+.+++++.+||+|.+|.
T Consensus 64 ~-----~---~~~~~~~l~~~l~~~~~Divh~~~ 89 (374)
T TIGR03088 64 G-----K---DVAVYPQLYRLLRQLRPDIVHTRN 89 (374)
T ss_pred C-----C---ChHHHHHHHHHHHHhCCCEEEEcc
Confidence 1 1 112345688888999999999874
No 22
>COG2025 FixB Electron transfer flavoprotein, alpha subunit [Energy production and conversion]
Probab=77.23 E-value=27 Score=32.15 Aligned_cols=87 Identities=11% Similarity=0.090 Sum_probs=56.0
Q ss_pred CcEEEEecCchhhhcchHH-HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025219 40 KNVLLVIAHPDDESMFFSP-TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Gg-tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (256)
+.+|+++.|.+.+.=...- ++....+-| +|..+++-. ...+.+...|+ +.+...+-+...
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 3588999997444311111 111122234 676666532 45677888999 677777766542
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
....+...+.+.+++++.+|++|+.++
T Consensus 62 -~~~~e~~~~~l~~l~~~~~p~~il~~a 88 (313)
T COG2025 62 -NYLPEPYADALVDLAKKYKPDVVLLPA 88 (313)
T ss_pred -ccchhHHHHHHHHHHHhcCCCEEEEcC
Confidence 123466788999999999999999884
No 23
>PRK09814 beta-1,6-galactofuranosyltransferase; Provisional
Probab=75.89 E-value=16 Score=33.25 Aligned_cols=70 Identities=13% Similarity=0.113 Sum_probs=47.4
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC-CEEEecCC
Q 025219 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI-DLIITFDN 147 (256)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P-d~V~t~d~ 147 (256)
++++...+.+....+..|+....+++..+|. +.+.+..+++.+. ...+....+.++++.++| |+|+++.|
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 3444444444444578899999999999999 4555666665331 234556667778888999 99988854
No 24
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=75.11 E-value=18 Score=34.12 Aligned_cols=107 Identities=10% Similarity=0.112 Sum_probs=66.1
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHH-HHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDEL-HRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~-~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
+.+++.-|+=. =..+.+..+.+.+.--..||.|.- -|..|+ ....+.+|++. .-+.|+.-+-..++.+
T Consensus 7 ~~I~GTRPE~i--Kmapli~~~~~~~~~~~~vi~TGQ-------H~d~em~~~~le~~~i~~-pdy~L~i~~~~~tl~~- 75 (383)
T COG0381 7 LTIFGTRPEAI--KMAPLVKALEKDPDFELIVIHTGQ-------HRDYEMLDQVLELFGIRK-PDYDLNIMKPGQTLGE- 75 (383)
T ss_pred EEEEecCHHHH--HHhHHHHHHHhCCCCceEEEEecc-------cccHHHHHHHHHHhCCCC-CCcchhccccCCCHHH-
Confidence 44566777544 468899999888754456666653 465564 45688899952 1234443321112221
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHh
Q 025219 121 WNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLN 168 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~ 168 (256)
-...+...+.+++.+.+||+|+.| .|-..+..++..|+.
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 134667788999999999999986 344455555555554
No 25
>TIGR01133 murG undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase. RL J Bacteriol 1993 Mar;175(6):1841-3
Probab=75.09 E-value=14 Score=33.04 Aligned_cols=77 Identities=13% Similarity=0.050 Sum_probs=40.1
Q ss_pred chHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCC-CCcccc----CChHHHHHH
Q 025219 55 FFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQ-DGFDKL----WNHKSLAKI 129 (256)
Q Consensus 55 ~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~-dg~~~~----~~~~~l~~~ 129 (256)
++-.....+.++|++|++++- ++ + . ..+. .+..|+ +++.+...... .+.... +..-.....
T Consensus 16 ~~~~La~~L~~~g~eV~vv~~-~~--~---~--~~~~---~~~~g~---~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~ 81 (348)
T TIGR01133 16 PALAVAEELIKRGVEVLWLGT-KR--G---L--EKRL---VPKAGI---EFYFIPVGGLRRKGSFRLIKTPLKLLKAVFQ 81 (348)
T ss_pred HHHHHHHHHHhCCCEEEEEeC-CC--c---c--hhcc---cccCCC---ceEEEeccCcCCCChHHHHHHHHHHHHHHHH
Confidence 334455566778999988852 21 1 0 0111 122566 34444432211 111000 111233456
Q ss_pred HHHHHHhcCCCEEEec
Q 025219 130 VEEEVVNCSIDLIITF 145 (256)
Q Consensus 130 l~~~i~~~~Pd~V~t~ 145 (256)
+.+++++.+||+|+++
T Consensus 82 l~~~i~~~~pDvVi~~ 97 (348)
T TIGR01133 82 ARRILKKFKPDAVIGF 97 (348)
T ss_pred HHHHHHhcCCCEEEEc
Confidence 7888999999999998
No 26
>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=74.95 E-value=21 Score=28.01 Aligned_cols=98 Identities=14% Similarity=0.161 Sum_probs=53.2
Q ss_pred HHHHhCCCc-EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025219 61 NYLTSRRHN-LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (256)
Q Consensus 61 ~~l~~~G~~-V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (256)
..|.++|++ +.++. ..........|.+..+++++..|++.....+.... ............+++.+|
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 467889975 44444 22223346778888999999999953322222211 111122222224465689
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
|.||+.+ ..++..+..++++.+ ++++.+-..
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 134455556665443 345555443
No 27
>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=73.93 E-value=4.7 Score=33.77 Aligned_cols=37 Identities=16% Similarity=0.114 Sum_probs=24.6
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEE
Q 025219 36 TGDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILC 74 (256)
Q Consensus 36 ~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~ 74 (256)
.....|||++++|++|+. +--...+|.++|..+..||
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 457789999999999965 4567888999999988888
No 28
>PF15050 SCIMP: SCIMP protein
Probab=73.91 E-value=4.2 Score=32.06 Aligned_cols=22 Identities=9% Similarity=0.232 Sum_probs=16.7
Q ss_pred HHHHHHHH-HHHHHHHHHHhcCC
Q 025219 5 LVIVSTIV-VWVASLFKILNSSR 26 (256)
Q Consensus 5 ~~~~~~~~-~~~~~~~~~~~~~~ 26 (256)
+|+||+++ ++++|+|||++-+-
T Consensus 16 II~vS~~lglIlyCvcR~~lRqG 38 (133)
T PF15050_consen 16 IILVSVVLGLILYCVCRWQLRQG 38 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcc
Confidence 45667777 77789999998764
No 29
>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=71.15 E-value=12 Score=33.64 Aligned_cols=20 Identities=10% Similarity=0.192 Sum_probs=16.3
Q ss_pred HHHHHHHHHhcCCCEEEecC
Q 025219 127 AKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d 146 (256)
...+.+++++.+||+|+++.
T Consensus 78 ~~~~~~~i~~~~pDvI~~~~ 97 (350)
T cd03785 78 VLQARKILKKFKPDVVVGFG 97 (350)
T ss_pred HHHHHHHHHhcCCCEEEECC
Confidence 44577889999999999873
No 30
>PLN00022 electron transfer flavoprotein subunit alpha; Provisional
Probab=70.21 E-value=32 Score=32.24 Aligned_cols=96 Identities=16% Similarity=0.122 Sum_probs=56.0
Q ss_pred CCCCcEEEEecCchhhhcchHH-HHH---HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHH--cCCCCCcEEEccC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSP-TIN---YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAV--LKIPLEQVKVLDL 110 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Gg-tl~---~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~--LGv~~~~~~~l~~ 110 (256)
.+.+.++++.-|.+++.--.+- +|. ++.+++.+|.++.+-.+.. . +|..+.+.. .|+ +.++.++.
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 4457789999998775431111 111 1111223566665533210 0 122222333 588 77888887
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
|.+. ....+...+.|.+++++.+|++|+.+.
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 224567788899999999999999873
No 31
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=70.21 E-value=36 Score=30.36 Aligned_cols=73 Identities=14% Similarity=0.131 Sum_probs=43.4
Q ss_pred HHHHhC-C-CcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 61 NYLTSR-R-HNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 61 ~~l~~~-G-~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
.+++++ | .+|+++++ |... ....+..+-|=.+|+ ++.+.+..+.+. | .+.......|...|++..
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 355554 2 57766665 4221 112233344445799 566666543322 1 255677888999999989
Q ss_pred CCEEEecC
Q 025219 139 IDLIITFD 146 (256)
Q Consensus 139 Pd~V~t~d 146 (256)
||+|++=.
T Consensus 113 ~DLVl~G~ 120 (256)
T PRK03359 113 FDLILCGD 120 (256)
T ss_pred CCEEEEcC
Confidence 99999964
No 32
>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=69.87 E-value=5.9 Score=35.59 Aligned_cols=21 Identities=24% Similarity=0.267 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhcCCCEEEecC
Q 025219 126 LAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (256)
....+.+.+++.+||+|.++.
T Consensus 72 ~~~~l~~~i~~~~~divh~~~ 92 (371)
T cd04962 72 LASKIAEVAKRYKLDLLHVHY 92 (371)
T ss_pred HHHHHHHHHhcCCccEEeecc
Confidence 456778888889999998874
No 33
>COG2249 MdaB Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]
Probab=68.92 E-value=3.7 Score=34.92 Aligned_cols=31 Identities=29% Similarity=0.616 Sum_probs=22.2
Q ss_pred CcEEEEecCchhhhcchHHHHH-----HHHhCCCcEEEE
Q 025219 40 KNVLLVIAHPDDESMFFSPTIN-----YLTSRRHNLHIL 73 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~-----~l~~~G~~V~vv 73 (256)
+++|+|.|||+ +. ++..++ .+.++|++|...
T Consensus 1 mkiLii~aHP~-~s--f~~~~~~~~~~~~n~~~~~v~~~ 36 (189)
T COG2249 1 MKILIIYAHPN-ES--FTHALSDAALERLNEAGHEVALK 36 (189)
T ss_pred CcEEEEEeCch-hh--hhHHHHHHHHHHHHHcchHHHhh
Confidence 47999999999 65 355566 677777765443
No 34
>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=68.26 E-value=26 Score=30.99 Aligned_cols=20 Identities=5% Similarity=-0.095 Sum_probs=15.5
Q ss_pred HHHHHHHHhcCCCEEEecCC
Q 025219 128 KIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~ 147 (256)
..+.+++++.+||+|.++.+
T Consensus 69 ~~~~~~~~~~~pdiv~~~~~ 88 (360)
T cd04951 69 WKLRKILRQFKPDVVHAHMF 88 (360)
T ss_pred HHHHHHHHhcCCCEEEEccc
Confidence 45677888899999988743
No 35
>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=67.12 E-value=44 Score=28.32 Aligned_cols=77 Identities=10% Similarity=0.139 Sum_probs=42.4
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCc---hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 60 INYLTSRRHNLHILCMSNGNADGM---GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~~~---~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
+..+.++|++|..++.+.+...+. -....+.+++.|+.+|+| ++..+.+.. ... -.+++.+.|.++-++
T Consensus 16 l~~a~~~G~~v~~l~~~~~~~~~~~~~h~~~~e~~~~~A~~lgip---l~~i~~~~~--~e~---~~~~l~~~l~~~~~~ 87 (194)
T cd01994 16 LYRALEEGHEVVALLNLTPEEGSSMMYHTVNHELLELQAEAMGIP---LIRIEISGE--EED---EVEDLKELLRKLKEE 87 (194)
T ss_pred HHHHHHcCCEEEEEEEEecCCCCcccccccCHHHHHHHHHHcCCc---EEEEeCCCC--chH---HHHHHHHHHHHHHHc
Confidence 445567899988777765543211 112445677889999995 444544321 000 113444445554444
Q ss_pred cCCCEEEec
Q 025219 137 CSIDLIITF 145 (256)
Q Consensus 137 ~~Pd~V~t~ 145 (256)
..+.|++=
T Consensus 88 -g~~~vv~G 95 (194)
T cd01994 88 -GVDAVVFG 95 (194)
T ss_pred -CCCEEEEC
Confidence 58877654
No 36
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=66.13 E-value=43 Score=30.01 Aligned_cols=73 Identities=16% Similarity=0.193 Sum_probs=45.4
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (256)
.+|+++|+--.++.+|-|.. +.+|...-|=.+|+ ++.+.+..+.+. + -+.......|.+.+++.+||
T Consensus 47 lrLke~~~~~eV~vlt~Gp~------~a~~~lr~aLAmGa--Draili~d~~~~-~----~d~~~ta~~Laa~~~~~~~~ 113 (260)
T COG2086 47 LRLKEKGYGGEVTVLTMGPP------QAEEALREALAMGA--DRAILITDRAFA-G----ADPLATAKALAAAVKKIGPD 113 (260)
T ss_pred HHhhccCCCceEEEEEecch------hhHHHHHHHHhcCC--CeEEEEeccccc-C----ccHHHHHHHHHHHHHhcCCC
Confidence 35666455444555566643 33333333566899 666666543221 1 24567788899999999999
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
+|++-.
T Consensus 114 LVl~G~ 119 (260)
T COG2086 114 LVLTGK 119 (260)
T ss_pred EEEEec
Confidence 999864
No 37
>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=65.70 E-value=59 Score=27.55 Aligned_cols=75 Identities=13% Similarity=0.108 Sum_probs=42.8
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..+.++|++ .+++++..........|.+-++++++..|++........ . .|+.+...+.+.+++++. +|
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 345566765 455554322222345688889999998886322211111 1 123344456677777654 58
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
|.|++.
T Consensus 185 ~ai~~~ 190 (270)
T cd06294 185 TAIVAT 190 (270)
T ss_pred CEEEEC
Confidence 999987
No 38
>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=65.20 E-value=52 Score=30.28 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=16.3
Q ss_pred HHHHHHhCCCcEEEEEEeCCC
Q 025219 59 TINYLTSRRHNLHILCMSNGN 79 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~ 79 (256)
....|.++|++|++++..+..
T Consensus 16 la~~L~~~G~~v~~~~~~~~~ 36 (396)
T cd03818 16 LAPALAAQGHEVVFLTEPNAA 36 (396)
T ss_pred HHHHHHHCCCEEEEEecCCCC
Confidence 455667789999999987763
No 39
>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=64.98 E-value=54 Score=26.39 Aligned_cols=62 Identities=18% Similarity=0.171 Sum_probs=39.4
Q ss_pred HHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 91 LHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
+.+.++..|+ ++.... .+| +.+++.+.|.+.+++.+.|+|+|. |+.+..+.-.+.+++.++.
T Consensus 25 l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~~~~~DlVitt---GG~s~g~~D~t~~al~~~~ 87 (152)
T cd00886 25 LVELLEEAGH---EVVAYEIVPD---------DKDEIREALIEWADEDGVDLILTT---GGTGLAPRDVTPEATRPLL 87 (152)
T ss_pred HHHHHHHcCC---eeeeEEEcCC---------CHHHHHHHHHHHHhcCCCCEEEEC---CCcCCCCCcCcHHHHHHHh
Confidence 5566788898 333322 233 346777888887775579999997 5555555555666666553
No 40
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=64.75 E-value=52 Score=28.01 Aligned_cols=44 Identities=16% Similarity=0.190 Sum_probs=32.8
Q ss_pred hHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 123 HKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 123 ~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
.+++.+.|.+.+++.+.|+|+|. |+.+-.+.-.+.+++..++.+
T Consensus 51 ~~~I~~aL~~a~~~~~~DlIITT---GGtg~g~rDvTpeAv~~l~~k 94 (193)
T PRK09417 51 QDLIEQTLIELVDEMGCDLVLTT---GGTGPARRDVTPEATLAVADK 94 (193)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEC---CCCCCCCCCcHHHHHHHHhCC
Confidence 46777888888766679999997 566666777777888777643
No 41
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=63.46 E-value=66 Score=28.48 Aligned_cols=74 Identities=14% Similarity=0.011 Sum_probs=42.9
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-C
Q 025219 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-S 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~ 138 (256)
...|.+.|++- +.+++..........|.+-..++++..|++. ...... .|+.+...+.+.+++++. +
T Consensus 171 ~~~L~~~G~r~-I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~---~~~~~~--------~~~~~~~~~~~~~~l~~~~~ 238 (328)
T PRK11303 171 AESLLKFPAES-ILLLGALPELSVSFEREQGFRQALKDDPREV---HYLYAN--------SFEREAGAQLFEKWLETHPM 238 (328)
T ss_pred HHHHHHCCCCe-EEEEeCccccccHHHHHHHHHHHHHHcCCCc---eEEEeC--------CCChHHHHHHHHHHHcCCCC
Confidence 34566788763 4444322222335678888899999988832 111111 123344455667777653 5
Q ss_pred CCEEEec
Q 025219 139 IDLIITF 145 (256)
Q Consensus 139 Pd~V~t~ 145 (256)
||.|++.
T Consensus 239 ~~ai~~~ 245 (328)
T PRK11303 239 PDALFTT 245 (328)
T ss_pred CCEEEEc
Confidence 8999987
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=62.70 E-value=50 Score=25.42 Aligned_cols=84 Identities=15% Similarity=0.122 Sum_probs=40.4
Q ss_pred EEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCC
Q 025219 43 LLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWN 122 (256)
Q Consensus 43 Lvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~ 122 (256)
+.+++-|.-+ -+..++++|.+..+-.-.+|+..+. -...+..++++.+|+ .++.+.... .+ .
T Consensus 9 ~~vs~Q~~~~------d~~~la~~GfktVInlRpd~E~~~q--p~~~~~~~~a~~~Gl---~y~~iPv~~--~~-----~ 70 (110)
T PF04273_consen 9 LSVSGQPSPE------DLAQLAAQGFKTVINLRPDGEEPGQ--PSSAEEAAAAEALGL---QYVHIPVDG--GA-----I 70 (110)
T ss_dssp EEEECS--HH------HHHHHHHCT--EEEE-S-TTSTTT---T-HHCHHHHHHHCT----EEEE----T--TT------
T ss_pred eEECCCCCHH------HHHHHHHCCCcEEEECCCCCCCCCC--CCHHHHHHHHHHcCC---eEEEeecCC--CC-----C
Confidence 4455555444 3678899999865444466654332 245667889999999 444444322 11 1
Q ss_pred hHHHHHHHHHHHHhc-CCCEEEe
Q 025219 123 HKSLAKIVEEEVVNC-SIDLIIT 144 (256)
Q Consensus 123 ~~~l~~~l~~~i~~~-~Pd~V~t 144 (256)
..+.++.+.+.+++. +|-.+++
T Consensus 71 ~~~~v~~f~~~l~~~~~Pvl~hC 93 (110)
T PF04273_consen 71 TEEDVEAFADALESLPKPVLAHC 93 (110)
T ss_dssp -HHHHHHHHHHHHTTTTSEEEE-
T ss_pred CHHHHHHHHHHHHhCCCCEEEEC
Confidence 245566667777753 3433433
No 43
>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=61.18 E-value=12 Score=32.71 Aligned_cols=22 Identities=5% Similarity=0.027 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhcCCCEEEecC
Q 025219 125 SLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
.....+.+++++.+||+|+++.
T Consensus 83 ~~~~~~~~~~~~~~~dii~~~~ 104 (359)
T cd03823 83 AVVAEFARLLEDFRPDVVHFHH 104 (359)
T ss_pred HHHHHHHHHHHHcCCCEEEECC
Confidence 4567788889999999999884
No 44
>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=60.82 E-value=9 Score=32.03 Aligned_cols=79 Identities=9% Similarity=0.064 Sum_probs=41.9
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 57 SPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 57 Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
.-.|.++++.|.+..+..+|+++ +...|..++.++++..|+ ..+.+..+|..- + ..-...++.+.|...++.
T Consensus 61 ~~DL~~Lk~~G~~~Vvtl~~~~E---L~~l~Vp~L~~~~~~~Gi---~~~h~PI~D~~a-P-d~~~~~~i~~eL~~~L~~ 132 (168)
T PF05706_consen 61 QADLERLKDWGAQDVVTLLTDHE---LARLGVPDLGEAAQARGI---AWHHLPIPDGSA-P-DFAAAWQILEELAARLEN 132 (168)
T ss_dssp HHHHHHHHHTT--EEEE-S-HHH---HHHTT-TTHHHHHHHTT----EEEE----TTS-----HHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHCCCCEEEEeCcHHH---HHHcCCccHHHHHHHcCC---EEEecCccCCCC-C-CHHHHHHHHHHHHHHHHc
Confidence 56788999999998888778874 456667788899999999 456677777421 1 110011344556666665
Q ss_pred cCCCEEEec
Q 025219 137 CSIDLIITF 145 (256)
Q Consensus 137 ~~Pd~V~t~ 145 (256)
.+ .|+.|
T Consensus 133 g~--~V~vH 139 (168)
T PF05706_consen 133 GR--KVLVH 139 (168)
T ss_dssp T----EEEE
T ss_pred CC--EEEEE
Confidence 33 34444
No 45
>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=60.79 E-value=43 Score=27.53 Aligned_cols=64 Identities=9% Similarity=0.071 Sum_probs=39.6
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHh
Q 025219 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLN 168 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~ 168 (256)
-+.+.++.+|+. +.... .+| +.+++.+.+.+.++..+.|+|+|. |+.+..+.-.+.+++.+.+.
T Consensus 26 ~l~~~L~~~G~~---v~~~~iv~D---------d~~~i~~~l~~~~~~~~~DlVItt---GGtg~g~~D~t~eal~~l~~ 90 (163)
T TIGR02667 26 YLVERLTEAGHR---LADRAIVKD---------DIYQIRAQVSAWIADPDVQVILIT---GGTGFTGRDVTPEALEPLFD 90 (163)
T ss_pred HHHHHHHHCCCe---EEEEEEcCC---------CHHHHHHHHHHHHhcCCCCEEEEC---CCcCCCCCCCcHHHHHHHHC
Confidence 345557778882 33322 233 346777888887755579999997 55555555556666666543
No 46
>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=60.59 E-value=18 Score=31.74 Aligned_cols=19 Identities=11% Similarity=0.046 Sum_probs=14.6
Q ss_pred HHHHHHHHhcCCCEEEecC
Q 025219 128 KIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d 146 (256)
..+.+.+++.+||+|+++.
T Consensus 73 ~~~~~~~~~~~pdii~~~~ 91 (364)
T cd03814 73 RRVRRLLDAFAPDVVHIAT 91 (364)
T ss_pred hhHHHHHHhcCCCEEEEec
Confidence 4566677888999998873
No 47
>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=59.10 E-value=1.2e+02 Score=26.25 Aligned_cols=102 Identities=8% Similarity=-0.042 Sum_probs=54.7
Q ss_pred hHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025219 56 FSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 56 ~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (256)
+.-.+..+.++|++- +.+++..........|.+-.+++++..|++.. +..... + ++.+...+.+.++++
T Consensus 106 ~~~a~~~L~~~G~~~-I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~-~~~~~~-~--------~~~~~~~~~~~~~l~ 174 (269)
T cd06287 106 ARMLLEHLRAQGARQ-IALIVGSARRNSYLEAEAAYRAFAAEHGMPPV-VLRVDE-A--------GGEEAGYAACAQLLA 174 (269)
T ss_pred HHHHHHHHHHcCCCc-EEEEeCCcccccHHHHHHHHHHHHHHcCCCcc-eeEecC-C--------CChHHHHHHHHHHHh
Confidence 334455666788763 23333222222345688888999999998532 211110 0 122334455666666
Q ss_pred hc-CCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEE
Q 025219 136 NC-SIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAW 178 (256)
Q Consensus 136 ~~-~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~ 178 (256)
+. +||.|++.+. .++..+..+++..+ ++++.+.
T Consensus 175 ~~~~~~ai~~~~d----------~~A~gvl~al~~~gl~vP~dvsvi 211 (269)
T cd06287 175 QHPDLDALCVPVD----------AFAVGAVRAATELGRAVPDQLRVV 211 (269)
T ss_pred CCCCCCEEEEcCc----------HHHHHHHHHHHHcCCCCCCceEEE
Confidence 53 6899999732 23445666665433 3455443
No 48
>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=58.91 E-value=88 Score=27.70 Aligned_cols=75 Identities=9% Similarity=-0.001 Sum_probs=43.0
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC- 137 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~- 137 (256)
....|.+.|++- +.+++..........|.+-.+++++..|++. ..... . .|+.+...+.+.+++++.
T Consensus 169 ~~~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~-~~~~~--~--------~~~~~~~~~~~~~ll~~~~ 236 (327)
T TIGR02417 169 LIERLLSQHADE-FWYLGAQPELSVSRDRLAGFRQALKQATLEV-EWVYG--G--------NYSRESGYQMFAKLCARLG 236 (327)
T ss_pred HHHHHHHCCCCe-EEEEeCcccchhHHHHHHHHHHHHHHcCCCh-HhEEe--C--------CCChHHHHHHHHHHHhcCC
Confidence 345677788753 3344322212235678888899999888832 11111 1 123334455667777653
Q ss_pred -CCCEEEec
Q 025219 138 -SIDLIITF 145 (256)
Q Consensus 138 -~Pd~V~t~ 145 (256)
+|+.||+.
T Consensus 237 ~~~~Ai~~~ 245 (327)
T TIGR02417 237 RLPQALFTT 245 (327)
T ss_pred CCCcEEEEc
Confidence 48999987
No 49
>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=58.66 E-value=90 Score=27.53 Aligned_cols=81 Identities=10% Similarity=0.062 Sum_probs=44.4
Q ss_pred cEEEEecCchhhhcchHHHHH-------HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 41 NVLLVIAHPDDESMFFSPTIN-------YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~-------~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
+||++.+.. +-||.-. .+.+.|++|++++...++. +........|+ ++..+..+..
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 577777766 2333322 2234789998888755431 12223345566 3333222110
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..-.....+.+++++.+||+|+++.
T Consensus 64 --------~~~~~~~~~~~~~~~~~~Dvv~~~~ 88 (358)
T cd03812 64 --------NPLKYFKKLYKLIKKNKYDIVHVHG 88 (358)
T ss_pred --------cHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 1122344566678889999999884
No 50
>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=57.92 E-value=89 Score=26.30 Aligned_cols=73 Identities=12% Similarity=0.084 Sum_probs=40.8
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..+.++|++ .+.+++..........|.+-..++++..|.+ + ..... ..|+.+...+.+.+++++. +|
T Consensus 108 ~~l~~~g~~-~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~---~--~~~~~------~~~~~~~~~~~~~~~l~~~~~~ 175 (266)
T cd06278 108 ELLLAKGCR-RIAFIGGPADTSTSRERERGFRDALAAAGVP---V--VVEEA------GDYSYEGGYEAARRLLASRPRP 175 (266)
T ss_pred HHHHHCCCc-eEEEEcCCCcccchHHHHHHHHHHHHHcCCC---h--hhhcc------CCCCHHHHHHHHHHHHhcCCCC
Confidence 344456654 3444432222234566877888888888772 1 11100 1134455566777777654 58
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
+.|++.
T Consensus 176 ~~i~~~ 181 (266)
T cd06278 176 DAIFCA 181 (266)
T ss_pred CEEEEc
Confidence 999887
No 51
>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=57.88 E-value=46 Score=28.48 Aligned_cols=21 Identities=10% Similarity=-0.007 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhcCCCEEEecC
Q 025219 126 LAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (256)
....+.+.+++.+||+|+++.
T Consensus 69 ~~~~~~~~~~~~~~dii~~~~ 89 (353)
T cd03811 69 AILRLRRLLRKEKPDVVISHL 89 (353)
T ss_pred HHHHHHHHHHhcCCCEEEEcC
Confidence 345677788888999998884
No 52
>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=56.97 E-value=1.2e+02 Score=25.58 Aligned_cols=99 Identities=17% Similarity=0.183 Sum_probs=51.6
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (256)
.++.+.|++ .+++++..........|.+-..++++..|++.... ..... .|+.+...+.+.+++++. |+
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 355566754 33334322222345668888888888888632111 11111 123334445566666654 99
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
.|++.+. ..+.++..+++..+ ++++.++..
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 9999842 13455666665443 245655543
No 53
>PLN02871 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase
Probab=56.67 E-value=53 Score=31.23 Aligned_cols=18 Identities=28% Similarity=0.207 Sum_probs=15.0
Q ss_pred HHHHHHHhcCCCEEEecC
Q 025219 129 IVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 129 ~l~~~i~~~~Pd~V~t~d 146 (256)
.+.+.+++.+||+|.+++
T Consensus 135 ~l~~~i~~~kpDiIh~~~ 152 (465)
T PLN02871 135 RIISEVARFKPDLIHASS 152 (465)
T ss_pred HHHHHHHhCCCCEEEECC
Confidence 567788889999999884
No 54
>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed
Probab=56.17 E-value=1.7e+02 Score=27.17 Aligned_cols=33 Identities=24% Similarity=0.184 Sum_probs=23.4
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEE
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHI 72 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~v 72 (256)
++.+-+.|----|+..+-+.+..+.+++.++.+
T Consensus 50 ~~~iW~Ha~s~Ge~~~~~~l~~~l~~~~~~~~i 82 (425)
T PRK05749 50 GPLIWFHAVSVGETRAAIPLIRALRKRYPDLPI 82 (425)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHHHHhCCCCcE
Confidence 445556555566999999999999887755444
No 55
>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=55.94 E-value=28 Score=30.68 Aligned_cols=38 Identities=16% Similarity=0.288 Sum_probs=26.9
Q ss_pred EEEEec-CchhhhcchHHHHHHHHhCCCcEEEEEEeCCC
Q 025219 42 VLLVIA-HPDDESMFFSPTINYLTSRRHNLHILCMSNGN 79 (256)
Q Consensus 42 vLvv~a-HPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~ 79 (256)
||+++. +|.-.+...-..+..|.++|++|.+++...+.
T Consensus 2 i~~~~~~~~~~~~~~~~~~~~~L~~~g~~v~v~~~~~~~ 40 (355)
T cd03799 2 IAYLVKEFPRLSETFILREILALEAAGHEVEIFSLRPPE 40 (355)
T ss_pred EEEECCCCCCcchHHHHHHHHHHHhCCCeEEEEEecCcc
Confidence 555544 44423345777888899999999999987654
No 56
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=55.53 E-value=87 Score=27.93 Aligned_cols=74 Identities=14% Similarity=0.107 Sum_probs=42.6
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.+.|+. .+++++..........|.+-..++++..|++........ ..|+.++..+.+.+++++. +||
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 45567865 445554322223456788888899988888421111110 1123445566677777653 589
Q ss_pred EEEec
Q 025219 141 LIITF 145 (256)
Q Consensus 141 ~V~t~ 145 (256)
.|++.
T Consensus 242 ai~~~ 246 (341)
T PRK10703 242 AVFCG 246 (341)
T ss_pred EEEEC
Confidence 99987
No 57
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=55.41 E-value=1e+02 Score=28.46 Aligned_cols=75 Identities=11% Similarity=0.158 Sum_probs=48.8
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc-ccCChHHHHHHHHHHHHhc
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD-KLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~-~~~~~~~l~~~l~~~i~~~ 137 (256)
|+=++++.|... +.+--+-.|..+-+..+|+ ..+..++.|+..|..+ +.|+.+.++..-.+.|++.
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 666777777542 2344455566666777999 5677777776555322 3466677777767777777
Q ss_pred CCCEEEecC
Q 025219 138 SIDLIITFD 146 (256)
Q Consensus 138 ~Pd~V~t~d 146 (256)
-||+++..|
T Consensus 112 ~pdl~vi~D 120 (322)
T PRK13384 112 VPEMMVIPD 120 (322)
T ss_pred CCCeEEEee
Confidence 799877554
No 58
>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=55.38 E-value=1.1e+02 Score=27.36 Aligned_cols=90 Identities=20% Similarity=0.208 Sum_probs=48.9
Q ss_pred EEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCC-C-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNA-D-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~-G~~V~vv~lT~G~~-~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (256)
+++.+.-||..- +.+.+..+.+. |.++.+++ | |.. + ..+..-..+. +... ..+ .+.... ++..
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 456778888876 58999999986 77775544 4 332 1 1222222221 2221 122 333221 1111
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
..-..-.+...+.+.+++.+||+|+++
T Consensus 69 ~~~~~~~~~~~l~~~l~~~~pDvV~~~ 95 (363)
T cd03786 69 LGAQTAGLLIGLEAVLLEEKPDLVLVL 95 (363)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCEEEEe
Confidence 100112445677888888999999998
No 59
>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=55.28 E-value=1.3e+02 Score=25.46 Aligned_cols=103 Identities=11% Similarity=0.080 Sum_probs=57.2
Q ss_pred hHHHHHH-HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025219 56 FSPTINY-LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 56 ~Ggtl~~-l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (256)
+|..+++ +.+.|++ .+.++...........|.+..+++++..|++.+.. ..... .|+.+...+.+.+++
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 4456765 34444332222345678899999999988632111 11111 134455566778888
Q ss_pred Hhc--CCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCC---CceeEE
Q 025219 135 VNC--SIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSE---RNIEAW 178 (256)
Q Consensus 135 ~~~--~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~---~~~~~~ 178 (256)
++. +|+.|++.+. ..+..+..+++..+. +++.+.
T Consensus 173 ~~~~~~~~ai~~~~d----------~~A~g~~~al~~~g~~ip~dv~v~ 211 (264)
T cd06274 173 ARLGRLPRALFTTSY----------TLLEGVLRFLRERPGLAPSDLRIA 211 (264)
T ss_pred ccCCCCCcEEEEcCh----------HHHHHHHHHHHHcCCCCCcceEEE
Confidence 765 4899998731 234456666655432 355554
No 60
>PRK11916 electron transfer flavoprotein subunit YdiR; Provisional
Probab=55.00 E-value=1.4e+02 Score=27.51 Aligned_cols=82 Identities=9% Similarity=0.064 Sum_probs=49.3
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
.+++++-+++. .. -.|.+..+-|.+|.++.+-++ + .+.+..+|+ ++++.++.|. . .
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 47777774443 21 222233333556666665321 1 122245698 6788888762 1 1
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
...+...+.|.+++++.+|++|+.+.
T Consensus 62 ~~~e~~~~al~~~i~~~~P~~vL~~~ 87 (312)
T PRK11916 62 QRTENYAESIAALLKDKHPAMLLLAA 87 (312)
T ss_pred cChHHHHHHHHHHHHhcCCCEEEECC
Confidence 12567788899999999999999873
No 61
>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=54.89 E-value=81 Score=26.67 Aligned_cols=99 Identities=18% Similarity=0.206 Sum_probs=53.2
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.+.|++ .+++++..........|.+-.+++++..|++... ...... .++.+...+.+.+++++. +|+
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 44567876 3555543322234466777788899998863211 111110 112334455666777664 489
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
.|++.+. ..+..+..+++..+ ++++.+...
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 9999742 23444555555433 346666543
No 62
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=54.33 E-value=7.1 Score=30.00 Aligned_cols=70 Identities=13% Similarity=0.068 Sum_probs=33.1
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH--Hh
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV--VN 136 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i--~~ 136 (256)
....|.++|++|.+++...+.. ..| ....|+ .++.+..+..... +........+.+++ ++
T Consensus 10 l~~~L~~~G~~V~v~~~~~~~~-------~~~----~~~~~~---~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~~ 71 (160)
T PF13579_consen 10 LARALAARGHEVTVVTPQPDPE-------DDE----EEEDGV---RVHRLPLPRRPWP----LRLLRFLRRLRRLLAARR 71 (160)
T ss_dssp HHHHHHHTT-EEEEEEE---GG-------G-S----EEETTE---EEEEE--S-SSSG----GGHCCHHHHHHHHCHHCT
T ss_pred HHHHHHHCCCEEEEEecCCCCc-------ccc----cccCCc---eEEeccCCccchh----hhhHHHHHHHHHHHhhhc
Confidence 4567778999999988655422 111 112244 3444554433211 11122345667777 88
Q ss_pred cCCCEEEecC
Q 025219 137 CSIDLIITFD 146 (256)
Q Consensus 137 ~~Pd~V~t~d 146 (256)
.+||+|.+++
T Consensus 72 ~~~Dvv~~~~ 81 (160)
T PF13579_consen 72 ERPDVVHAHS 81 (160)
T ss_dssp ---SEEEEEH
T ss_pred cCCeEEEecc
Confidence 8999999883
No 63
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=53.72 E-value=1.4e+02 Score=26.47 Aligned_cols=75 Identities=13% Similarity=0.175 Sum_probs=41.3
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..|.+.|++ .+.+++..........|.+-..++++..|++......... + ++.+...+.+.+++++. +|
T Consensus 175 ~~L~~~G~~-~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~-~--------~~~~~~~~~~~~~l~~~~~~ 244 (342)
T PRK10014 175 EHLIRNGHQ-RIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSEWVLEC-T--------SSQKQAAEAITALLRHNPTI 244 (342)
T ss_pred HHHHHCCCC-EEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCcceEecC-C--------CChHHHHHHHHHHHcCCCCC
Confidence 355667875 3444432211223456888889999999985322111111 1 12334455666777654 57
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
+.|++.
T Consensus 245 ~ai~~~ 250 (342)
T PRK10014 245 SAVVCY 250 (342)
T ss_pred CEEEEC
Confidence 888886
No 64
>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=53.72 E-value=1.3e+02 Score=25.20 Aligned_cols=99 Identities=14% Similarity=0.117 Sum_probs=52.3
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.+.|++ .+.+++..........|.+..+++++..|+.......... .++.+...+.+.+++++. .|+
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 44566754 2344433222233467888899999998874211111110 113344455667777654 489
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
.|++.+. ..+..+..+++..+ ++++.++..
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 23344555655433 235555543
No 65
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=53.45 E-value=30 Score=26.90 Aligned_cols=21 Identities=5% Similarity=0.050 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHhcCCCEEEec
Q 025219 125 SLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
.....+.+.+++.+||+|.++
T Consensus 67 ~~~~~~~~~i~~~~~DiVh~~ 87 (177)
T PF13439_consen 67 FFMRRLRRLIKKEKPDIVHIH 87 (177)
T ss_dssp HHHHHHHHHHHHHT-SEEECC
T ss_pred HHHHHHHHHHHHcCCCeEEec
Confidence 345678888999999999665
No 66
>COG0223 Fmt Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]
Probab=53.38 E-value=37 Score=31.20 Aligned_cols=84 Identities=18% Similarity=0.296 Sum_probs=50.4
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC--CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA--DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~--~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (256)
.|++|++.+ | |.-..|..|.+.|++| +.++|..+. ++-.++--....+.|..+|+| ++.-.+.
T Consensus 2 mkivF~GTp-~----fa~~~L~~L~~~~~ei-vaV~Tqpdkp~gR~~~l~~spVk~~A~~~~ip-----v~qP~~l---- 66 (307)
T COG0223 2 MRIVFFGTP-E----FAVPSLEALIEAGHEI-VAVVTQPDKPAGRGKKLTPSPVKRLALELGIP-----VFQPEKL---- 66 (307)
T ss_pred cEEEEEcCc-h----hhHHHHHHHHhCCCce-EEEEeCCCCccCCCCcCCCChHHHHHHHcCCc-----eeccccC----
Confidence 467777766 2 3457899999999887 445566654 222223334456677778884 2221111
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 118 DKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..+ .+.+.+++.+||++++..
T Consensus 67 ----~~~----e~~~~l~~l~~D~ivvva 87 (307)
T COG0223 67 ----NDP----EFLEELAALDPDLIVVVA 87 (307)
T ss_pred ----CcH----HHHHHHhccCCCEEEEEe
Confidence 112 345556777999999884
No 67
>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=53.08 E-value=92 Score=26.79 Aligned_cols=78 Identities=12% Similarity=0.090 Sum_probs=42.4
Q ss_pred HHHHHhCCCcEEEEEEeCCCC-CC--chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 60 INYLTSRRHNLHILCMSNGNA-DG--MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~-~~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
+..+.++|++|..+..+.+.. +. ......+.+++.|+.+|+| +...+.+.. ... ..+.+...+.++.++
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 1122335567788999994 345554321 111 123456666666555
Q ss_pred cCCCEEEecC
Q 025219 137 CSIDLIITFD 146 (256)
Q Consensus 137 ~~Pd~V~t~d 146 (256)
..+.|++=+
T Consensus 86 -g~~~vv~G~ 94 (218)
T TIGR03679 86 -GVEGIVTGA 94 (218)
T ss_pred -CCCEEEECC
Confidence 788887643
No 68
>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=52.73 E-value=56 Score=26.58 Aligned_cols=23 Identities=22% Similarity=0.180 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhcCCCEEEecCC
Q 025219 125 SLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
-..+.+.++|++.+||+|++..|
T Consensus 76 ~~~~~l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 76 LFARRLIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHHHHHHhhcCCCEEEECCc
Confidence 34567899999999999998733
No 69
>PF02677 DUF208: Uncharacterized BCR, COG1636; InterPro: IPR003828 This entry describes proteins of unknown function.
Probab=52.45 E-value=1.4e+02 Score=25.11 Aligned_cols=105 Identities=15% Similarity=0.029 Sum_probs=67.8
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCCCC--chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCC------CccccC---Ch---
Q 025219 58 PTINYLTSRRHNLHILCMSNGNADG--MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQD------GFDKLW---NH--- 123 (256)
Q Consensus 58 gtl~~l~~~G~~V~vv~lT~G~~~~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~d------g~~~~~---~~--- 123 (256)
-.|.+|.+.|.+|++. +.|.+--- --..|.+|+.+.++.+|+ .++.-+|. ..+ |..... ..
T Consensus 13 ~~~~~L~~~g~~vt~~-fyNPNIhP~~Ey~~R~~~~~~~~~~~~i---~~i~~~Y~-~~~w~~~v~~~e~epE~g~RC~~ 87 (176)
T PF02677_consen 13 YPLERLREEGFDVTGY-FYNPNIHPYEEYERRLEELKRFAEKLGI---PLIEGDYD-PEEWLRAVKGLEDEPEGGKRCRV 87 (176)
T ss_pred HHHHHHHHCCCCeEEE-EeCCCCCcHHHHHHHHHHHHHHHHHcCC---CEEecCCC-HHHHHHHHhhCccCCccCchhHH
Confidence 3688999999998654 45665322 235789999999999999 45555542 100 110000 00
Q ss_pred --HHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 124 --KSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 124 --~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
+.=.+.-++.-.+.+.|..=|. .-.+.|.||..+.++..++.++
T Consensus 88 Cy~~RL~~tA~~A~e~gfd~FtTT--L~~Sp~k~~~~I~~iG~~~~~~ 133 (176)
T PF02677_consen 88 CYDLRLEKTAQYAKELGFDYFTTT--LLISPYKNHELINEIGERLAKE 133 (176)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEcc--ccCcCccCHHHHHHHHHHHHHh
Confidence 1112233445567788987666 6788999999999999988654
No 70
>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=52.34 E-value=44 Score=31.31 Aligned_cols=51 Identities=20% Similarity=0.245 Sum_probs=33.2
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCch------HHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMG------NIRKDELHRACAVLKIPLEQVKVLDLVD 112 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~------~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (256)
+...|.++|++|.-++|-+.+..... ..-.++++++|+.||+| ++.+|+.+
T Consensus 16 aA~LLk~~G~~V~Gv~m~~~~~~~~~~~~c~~~~d~~~a~~va~~LgIp---~~v~d~~~ 72 (356)
T PF03054_consen 16 AAALLKEQGYDVIGVTMRNWDEEDESGKSCCSEEDIEDARRVAEKLGIP---HYVVDLRE 72 (356)
T ss_dssp HHHHHHHCT-EEEEEEEE-SS-SSSHH-HHHHHHHHHHHHHHHHHHT-----EEEEETHH
T ss_pred HHHHHHhhcccceEEEEEEeccccccCCCCCchhhHHHHHHHHHhcCCC---EEEEChHH
Confidence 34566789999999999888764322 22346678899999994 67787653
No 71
>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=51.78 E-value=1.2e+02 Score=25.64 Aligned_cols=98 Identities=10% Similarity=0.072 Sum_probs=51.5
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (256)
.+.++|++ .+.+++..........|.+...++++..|++......+. ..|+.++..+.+.+++.+ .+|+
T Consensus 108 ~L~~~g~~-~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ 177 (265)
T cd06285 108 HLLDLGHR-RIAVLAGPDYASTARDRLAGFRAALAEAGIEVPPERIVY---------SGFDIEGGEAAAEKLLRSDSPPT 177 (265)
T ss_pred HHHHCCCc-cEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhEEe---------CCCCHHHHHHHHHHHHcCCCCCC
Confidence 44456654 233333222223456788888888888887321111111 123444555666677654 3589
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEE
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWE 179 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e 179 (256)
.|++.+. .++..+..+++..+ ++++.+..
T Consensus 178 ai~~~~d----------~~a~g~~~~l~~~g~~~p~di~iig 209 (265)
T cd06285 178 AIFAVND----------FAAIGVMGAARDRGLRVPDDVALVG 209 (265)
T ss_pred EEEEcCc----------HHHHHHHHHHHHcCCCCCcceEEEe
Confidence 9998742 24445666665543 23444443
No 72
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=51.72 E-value=1.6e+02 Score=25.97 Aligned_cols=100 Identities=10% Similarity=0.117 Sum_probs=53.8
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..+.++|++- +.+++..........|.+-..++++..|++........ . .|+.+...+.+.++++.. +|
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 3466788763 34443322223456788889999999987422111111 1 123334455666666543 58
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
+.|++.+ |- .+..+..+++..+ ++++.+...
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 9998873 12 2344556665433 345555543
No 73
>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=51.68 E-value=67 Score=25.22 Aligned_cols=51 Identities=16% Similarity=0.157 Sum_probs=32.8
Q ss_pred HHHHHhCCCc-EEEEEEeCCCCC-----CchHHHHHHHHHHHHHcCCCCCcEEEccC
Q 025219 60 INYLTSRRHN-LHILCMSNGNAD-----GMGNIRKDELHRACAVLKIPLEQVKVLDL 110 (256)
Q Consensus 60 l~~l~~~G~~-V~vv~lT~G~~~-----~~~~~R~~E~~~A~~~LGv~~~~~~~l~~ 110 (256)
|.+..++|.+ |.++-+-.|+.- ...+.|-+.+++.++.+|++++++.+...
T Consensus 45 il~Af~~GADGV~V~gC~~g~Ch~~~Gn~~a~~Rv~~~k~~L~~~Gi~~eRv~~~~~ 101 (124)
T PF02662_consen 45 ILRAFEKGADGVLVAGCHPGDCHYREGNYRAEKRVERLKKLLEELGIEPERVRLYWI 101 (124)
T ss_pred HHHHHHcCCCEEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCCChhHeEEEEe
Confidence 3445566765 333333334421 23567888999999999999888876543
No 74
>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=51.44 E-value=1.3e+02 Score=27.40 Aligned_cols=116 Identities=16% Similarity=0.111 Sum_probs=62.2
Q ss_pred EecCchhhhc--------chHHHHHHHHhCCCcEEEEEEeCCCCCCch-----HHHHHHHHHHHHHcC-CCCCcEEEccC
Q 025219 45 VIAHPDDESM--------FFSPTINYLTSRRHNLHILCMSNGNADGMG-----NIRKDELHRACAVLK-IPLEQVKVLDL 110 (256)
Q Consensus 45 v~aHPDDE~l--------~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~-----~~R~~E~~~A~~~LG-v~~~~~~~l~~ 110 (256)
-.-+.+|+.+ ..||.+..+.+.|+++.-.+.+...++|.. +.=..|+.+.++.-| + +-.+|+.
T Consensus 28 ~~~~~G~~~~~~~~~~~~~~~g~~~~a~~~g~e~vp~~~a~A~P~G~v~~~aye~l~~eil~~l~~agp~---Dgv~L~L 104 (292)
T PF07364_consen 28 RGYLRGEELLAAFRGTNTEIGGFLDAAEAQGWEVVPLLWAAAEPGGPVTREAYERLRDEILDRLRAAGPL---DGVLLDL 104 (292)
T ss_dssp --EEETHHHHHHHHTS-SHHHHHHHHHHHTT-EEEEEEEEEE-SEE-B-HHHHHHHHHHHHHHHHHS------SEEEEEE
T ss_pred ccccccHHHHhhhccCCcchHHHHHHHHHCCCEEEeeEeeeecCCCcccHHHHHHHHHHHHHHHHhcCCc---CEEEEec
Confidence 3455667766 689999999999999988888887776531 223456666666654 4 4455654
Q ss_pred CCCC--CCccccCChHHHHHHHHHHHHhcCCCE--EEecCCCC-----------------CCCCchHHHHHHHHHHHHh
Q 025219 111 VDFQ--DGFDKLWNHKSLAKIVEEEVVNCSIDL--IITFDNYG-----------------VSGHCNHRDVHHGIWSYLN 168 (256)
Q Consensus 111 ~d~~--dg~~~~~~~~~l~~~l~~~i~~~~Pd~--V~t~d~~g-----------------~d~H~DH~~v~~av~~a~~ 168 (256)
.-.- +|.+. ..-++.+.|.+++ .||+ +.|.|+|+ .+.|.|=..+++-+.+.+.
T Consensus 105 HGAmv~e~~~D--~EG~Ll~rvR~~v---Gp~vpI~~tlDlHaNvs~~mv~~ad~~~~yrtyPH~D~~etg~~aa~ll~ 178 (292)
T PF07364_consen 105 HGAMVAEGYDD--GEGDLLRRVRAIV---GPDVPIAATLDLHANVSPRMVEAADIIVGYRTYPHIDMYETGERAARLLL 178 (292)
T ss_dssp -S---BSS-SS--HHHHHHHHHHHHH---TTTSEEEEEE-TT----HHHHHH-SEEEE---SS---HHHHHHHHHHHHH
T ss_pred cCcEeecCCCC--chHHHHHHHHHHh---CCCCeEEEEeCCCCCccHHHHHhCCEEEEcCCCCccCHHHHHHHHHHHHH
Confidence 3210 11110 1124555555544 5654 55677766 3689998888776666653
No 75
>PRK03363 fixB putative electron transfer flavoprotein FixB; Provisional
Probab=51.30 E-value=1.3e+02 Score=27.62 Aligned_cols=81 Identities=10% Similarity=0.063 Sum_probs=49.4
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
.+++++-|.+. .. -++.+..+-|.++..+.+-++ ..+.+...|+ ++++.++.+.. .
T Consensus 6 ~v~V~aE~~~~-~~---Ell~~a~~l~~~v~av~~g~~------------~~~~~~~~Ga--d~V~~~~~~~~-----~- 61 (313)
T PRK03363 6 QVWVFSDTPSR-LP---ELMNGAQALANQINAFVLNDA------------DGAQAIQLGA--NHVWKLSGKPD-----D- 61 (313)
T ss_pred eEEEEEEeCCc-HH---HHHHHHHHhcCceEEEEECcc------------hHHHHHhcCC--CEEEEecCccc-----c-
Confidence 47888886553 22 333333333556665554321 1122345798 77888877532 1
Q ss_pred CChHHHHHHHHHHHHhcCC-CEEEec
Q 025219 121 WNHKSLAKIVEEEVVNCSI-DLIITF 145 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~P-d~V~t~ 145 (256)
...+...+.|.+++.+.+| ++|+.+
T Consensus 62 ~~~e~~~~al~~~i~~~~p~~~vl~~ 87 (313)
T PRK03363 62 RMIEDYAGVMADTIRQHGADGLVLLP 87 (313)
T ss_pred cChHHHHHHHHHHHHhhCCCcEEEEc
Confidence 3456778889999999999 788776
No 76
>PHA03392 egt ecdysteroid UDP-glucosyltransferase; Provisional
Probab=50.37 E-value=34 Score=33.41 Aligned_cols=36 Identities=22% Similarity=0.396 Sum_probs=29.0
Q ss_pred CcEEEEecCch-hhhcchHHHHHHHHhCCCcEEEEEE
Q 025219 40 KNVLLVIAHPD-DESMFFSPTINYLTSRRHNLHILCM 75 (256)
Q Consensus 40 ~~vLvv~aHPD-DE~l~~Ggtl~~l~~~G~~V~vv~l 75 (256)
.++|++.|+|. --.+++......|+++||+|+++.-
T Consensus 21 ~kIl~~~P~~~~SH~~~~~~l~~~La~rGH~VTvi~p 57 (507)
T PHA03392 21 ARILAVFPTPAYSHHSVFKVYVEALAERGHNVTVIKP 57 (507)
T ss_pred ccEEEEcCCCCCcHHHHHHHHHHHHHHcCCeEEEEec
Confidence 35999978652 3567889999999999999999854
No 77
>PRK14169 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=50.20 E-value=1.8e+02 Score=26.36 Aligned_cols=86 Identities=13% Similarity=0.131 Sum_probs=52.1
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+..+.++|....++++--|+.. ...-.|.+ .++|+.+|+ ++....+|.. ...+++.+.|.++-.+-.
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 VAKLAQQDVTPTLAVVLVGSDPASEVYVRNK--QRRAEDIGV---RSLMFRLPEA-------TTQADLLAKVAELNHDPD 88 (282)
T ss_pred HHHHHhCCCCCeEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 4455556777777666666543 33334443 478999999 4555666541 145677777777666656
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+..- +...|.|-..+
T Consensus 89 V~GIlvql--PLp~~i~~~~i 107 (282)
T PRK14169 89 VDAILVQL--PLPAGLDEQAV 107 (282)
T ss_pred CCEEEEeC--CCCCCCCHHHH
Confidence 67788873 33356665553
No 78
>PRK09526 lacI lac repressor; Reviewed
Probab=50.02 E-value=1.7e+02 Score=25.97 Aligned_cols=73 Identities=11% Similarity=0.017 Sum_probs=41.9
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..|.+.|++ .+.+++..........|.+-.+++++..|++...+ +.+ .|+.+...+.+.+++++. +|
T Consensus 174 ~~L~~~G~~-~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~~-~~~----------~~~~~~~~~~~~~~l~~~~~~ 241 (342)
T PRK09526 174 EHLVELGHQ-RIALLAGPESSVSARLRLAGWLEYLTDYQLQPIAV-REG----------DWSAMSGYQQTLQMLREGPVP 241 (342)
T ss_pred HHHHHCCCC-eEEEEeCCCccccHHHHHHHHHHHHHHcCCCcceE-EeC----------CCchHHHHHHHHHHhcCCCCC
Confidence 356677876 34445432222234678888999999999842111 111 123334445566677543 58
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
+.||+.
T Consensus 242 ~ai~~~ 247 (342)
T PRK09526 242 SAILVA 247 (342)
T ss_pred cEEEEc
Confidence 999887
No 79
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=49.62 E-value=47 Score=31.16 Aligned_cols=50 Identities=22% Similarity=0.254 Sum_probs=36.0
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC-CC---chHHHHHHHHHHHHHcCCCCCcEEEccCC
Q 025219 59 TINYLTSRRHNLHILCMSNGNA-DG---MGNIRKDELHRACAVLKIPLEQVKVLDLV 111 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~-~~---~~~~R~~E~~~A~~~LGv~~~~~~~l~~~ 111 (256)
+...|.++|++|.-++|-+.+. ++ ....=-+.++++|+.||+| ++.+||.
T Consensus 19 aA~lLk~QGyeViGl~m~~~~~~~~~~C~s~~d~~da~~va~~LGIp---~~~vdf~ 72 (356)
T COG0482 19 AAYLLKEQGYEVIGLFMKNWDEDGGGGCCSEEDLRDAERVADQLGIP---LYVVDFE 72 (356)
T ss_pred HHHHHHHcCCeEEEEEEEeeccCCCCcCCchhHHHHHHHHHHHhCCc---eEEEchH
Confidence 4556778999999999977763 21 2333446688999999994 6677764
No 80
>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=49.43 E-value=1.5e+02 Score=27.35 Aligned_cols=75 Identities=13% Similarity=0.184 Sum_probs=48.4
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc-cccCChHHHHHHHHHHHHhc
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF-DKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~-~~~~~~~~l~~~l~~~i~~~ 137 (256)
|.=++++.|... +.+..+-.|..+-+..+|+ ..+..++.|+.+|.. .+.|+++.++..-.+.|++.
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 566777777432 1234445555566677999 567777777655532 23467777777777777777
Q ss_pred CCCEEEecC
Q 025219 138 SIDLIITFD 146 (256)
Q Consensus 138 ~Pd~V~t~d 146 (256)
-||+++..|
T Consensus 102 ~p~l~vi~D 110 (314)
T cd00384 102 VPELVVITD 110 (314)
T ss_pred CCCcEEEEe
Confidence 799877554
No 81
>COG1817 Uncharacterized protein conserved in archaea [Function unknown]
Probab=49.21 E-value=91 Score=28.94 Aligned_cols=88 Identities=18% Similarity=0.223 Sum_probs=55.5
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc-c
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD-K 119 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~-~ 119 (256)
|+++=..||--.-+|| ++|..+.++|++|.+.|--.| +..+-++.+|++ +...+-.. .+... .
T Consensus 2 kVwiDI~n~~hvhfFk-~lI~elekkG~ev~iT~rd~~-----------~v~~LLd~ygf~---~~~Igk~g-~~tl~~K 65 (346)
T COG1817 2 KVWIDIGNPPHVHFFK-NLIWELEKKGHEVLITCRDFG-----------VVTELLDLYGFP---YKSIGKHG-GVTLKEK 65 (346)
T ss_pred eEEEEcCCcchhhHHH-HHHHHHHhCCeEEEEEEeecC-----------cHHHHHHHhCCC---eEeecccC-CccHHHH
Confidence 5667777777776655 699999999999877775444 245677889993 33333211 01111 0
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
.-...+-...|.+++.+++||+.+-
T Consensus 66 l~~~~eR~~~L~ki~~~~kpdv~i~ 90 (346)
T COG1817 66 LLESAERVYKLSKIIAEFKPDVAIG 90 (346)
T ss_pred HHHHHHHHHHHHHHHhhcCCceEee
Confidence 0001233456889999999999775
No 82
>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=48.96 E-value=81 Score=25.12 Aligned_cols=60 Identities=17% Similarity=0.186 Sum_probs=36.6
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHH
Q 025219 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSY 166 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a 166 (256)
-+.+.++.+|+ ++.... .+| +.+++.+.+.+.++ +.|+|+|. |+.+..+.-.+.+++.++
T Consensus 31 ~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~--~~DliItt---GG~g~g~~D~t~~ai~~~ 91 (144)
T TIGR00177 31 LLAALLEEAGF---NVSRLGIVPD---------DPEEIREILRKAVD--EADVVLTT---GGTGVGPRDVTPEALEEL 91 (144)
T ss_pred HHHHHHHHCCC---eEEEEeecCC---------CHHHHHHHHHHHHh--CCCEEEEC---CCCCCCCCccHHHHHHHh
Confidence 34556777888 343333 222 34567777777665 79999997 555555555555555554
No 83
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=48.71 E-value=1.6e+02 Score=26.32 Aligned_cols=99 Identities=10% Similarity=0.052 Sum_probs=53.5
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~P 139 (256)
..+.+.|++- +.++...........|.+-.+++++..|++.....+.. . .++.+...+.+.+++++ .+|
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 3566788763 33443222223456788889999999998432211111 0 11223334556666654 368
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEE
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWE 179 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e 179 (256)
+.||+.+ |. .+..+..+++..+ ++++.+..
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 3344666665543 34555543
No 84
>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=48.49 E-value=1.1e+02 Score=27.86 Aligned_cols=88 Identities=11% Similarity=0.244 Sum_probs=50.0
Q ss_pred EEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccC
Q 025219 43 LLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLW 121 (256)
Q Consensus 43 Lvv~aHPDDE~l~~Ggtl~~l~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~ 121 (256)
++++.-|| .+.+.+.+..+.+. +.++. ++.|.... .......+.+|++++ + .+.......++..
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 45556664 34578999999875 45554 44454321 233444455898532 2 2222111111111
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEec
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
........+.+++++.+||+|+++
T Consensus 70 ~~~~~~~~l~~~l~~~~pDiv~~~ 93 (365)
T TIGR00236 70 ITSNMLEGLEELLLEEKPDIVLVQ 93 (365)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEe
Confidence 123455778999999999999998
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=72 Score=24.95 Aligned_cols=61 Identities=18% Similarity=0.140 Sum_probs=37.4
Q ss_pred HHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 90 ELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
-+.+.++..|. ++.... .+| +.+++.+.+.+.+++ .|+|+|. |+.+..++-.+.+++.++.
T Consensus 23 ~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~i~~~~~~--~Dlvitt---GG~g~g~~D~t~~ai~~~g 84 (133)
T cd00758 23 ALEALLEDLGC---EVIYAGVVPD---------DADSIRAALIEASRE--ADLVLTT---GGTGVGRRDVTPEALAELG 84 (133)
T ss_pred HHHHHHHHCCC---EEEEeeecCC---------CHHHHHHHHHHHHhc--CCEEEEC---CCCCCCCCcchHHHHHHhc
Confidence 34555777887 333322 122 346777888888765 8999997 5455555555566666553
No 86
>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=48.43 E-value=1.5e+02 Score=27.92 Aligned_cols=93 Identities=22% Similarity=0.193 Sum_probs=53.9
Q ss_pred HHHHHHHHhCCCc-------EEEEEEeCCCCC-------CchHH---HHHHHHHHHHHcCCCCCcEEEccC-CCCCCCcc
Q 025219 57 SPTINYLTSRRHN-------LHILCMSNGNAD-------GMGNI---RKDELHRACAVLKIPLEQVKVLDL-VDFQDGFD 118 (256)
Q Consensus 57 Ggtl~~l~~~G~~-------V~vv~lT~G~~~-------~~~~~---R~~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~ 118 (256)
...|+.|+..|.. ..+.+++.|+.= ..+++ -..=+.+.++.+|+ ++...+. +|
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 3567788888842 256677788631 11222 22234556777888 3333332 22
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHH
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSY 166 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a 166 (256)
+.+.+.+.|.+.+++ .|+|+|. |+.+..++-.+.++..+.
T Consensus 220 ---d~~~i~~~l~~a~~~--~Dliitt---GG~s~g~~D~~~~al~~~ 259 (394)
T cd00887 220 ---DPEALREALEEALEE--ADVVITS---GGVSVGDYDFVKEVLEEL 259 (394)
T ss_pred ---CHHHHHHHHHHHhhC--CCEEEEe---CCCCCCcchhHHHHHHhC
Confidence 346777788877654 9999997 445555555555555543
No 87
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=48.24 E-value=3.1e+02 Score=27.75 Aligned_cols=25 Identities=8% Similarity=0.037 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHhcCCCEEEecCCCC
Q 025219 125 SLAKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
.+.+.+.+.+++.+||+++.-|..|
T Consensus 297 ~~~~~l~~~i~~~kPD~vIlID~Pg 321 (608)
T PRK01021 297 YRYRKLYKTILKTNPRTVICIDFPD 321 (608)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCCC
Confidence 3455677788889999999987543
No 88
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=47.72 E-value=2e+02 Score=26.01 Aligned_cols=85 Identities=14% Similarity=0.158 Sum_probs=50.2
Q ss_pred HHHHHhCCC-cEEEEEEeCC-CCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSRRH-NLHILCMSNG-NADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~G~-~V~vv~lT~G-~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
+.++.++|. ...+..+--| +.+...-.|.++ ++|+.+|+ ++....+|.. ...+++.+.|.++-++-
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 344445563 2444444444 334444556554 89999999 5555666541 24567777777777766
Q ss_pred CCCEEEecCCCCCCCCchHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (256)
+.|=|+.+-| .-.|.|-..
T Consensus 90 ~V~GIlvqlP--LP~~~~~~~ 108 (278)
T PRK14172 90 NVHGIMLQLP--LPKHLDEKK 108 (278)
T ss_pred CCCeEEEcCC--CCCCCCHHH
Confidence 6777888743 335666544
No 89
>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=47.24 E-value=1.2e+02 Score=26.15 Aligned_cols=65 Identities=12% Similarity=0.054 Sum_probs=37.8
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCE
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDL 141 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~ 141 (256)
.+.+.|+++.+++.+.+.. -..++ ...|+ .+..++.+.. +..-.....+.+++++.+||+
T Consensus 24 ~l~~~~~~v~~~~~~~~~~------~~~~~----~~~~i---~v~~~~~~~~-------~~~~~~~~~~~~~~~~~~~di 83 (365)
T cd03807 24 GLDRDRFEHVVISLTDRGE------LGEEL----EEAGV---PVYCLGKRPG-------RPDPGALLRLYKLIRRLRPDV 83 (365)
T ss_pred HhhhccceEEEEecCcchh------hhHHH----HhcCC---eEEEEecccc-------cccHHHHHHHHHHHHhhCCCE
Confidence 4446899998888765421 11111 12566 4555655431 111234456778888889999
Q ss_pred EEecC
Q 025219 142 IITFD 146 (256)
Q Consensus 142 V~t~d 146 (256)
|+.+.
T Consensus 84 v~~~~ 88 (365)
T cd03807 84 VHTWM 88 (365)
T ss_pred EEecc
Confidence 98874
No 90
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=47.13 E-value=1.6e+02 Score=26.36 Aligned_cols=99 Identities=14% Similarity=0.092 Sum_probs=52.8
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..|.+.|++= +.+++..........|.+-.+++++..|++.....+. .. .|+.+...+.+.+++++. +|
T Consensus 169 ~~L~~~G~~~-I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~-~~--------~~~~~~~~~~~~~~l~~~~~~ 238 (343)
T PRK10727 169 RHLIQQGHTR-IGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVT-FG--------EPDESGGEQAMTELLGRGRNF 238 (343)
T ss_pred HHHHHCCCcc-EEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEE-eC--------CCChhHHHHHHHHHHhCCCCC
Confidence 3567788752 3333322222235678888999999999853221111 11 122333345566667654 48
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEE
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWE 179 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e 179 (256)
+.||+.+ | .++..+..+++..+ ++++.+.-
T Consensus 239 ~ai~~~n--------D--~~A~g~~~al~~~G~~vP~disVig 271 (343)
T PRK10727 239 TAVACYN--------D--SMAAGAMGVLNDNGIDVPGEISLIG 271 (343)
T ss_pred CEEEEcC--------c--HHHHHHHHHHHHcCCCCCcceeEEe
Confidence 9998873 1 23345666665543 34555543
No 91
>PRK06128 oxidoreductase; Provisional
Probab=46.89 E-value=2e+02 Score=25.30 Aligned_cols=85 Identities=11% Similarity=0.155 Sum_probs=42.9
Q ss_pred CCcEEEEecCchhhhcchHHHHH-HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025219 39 KKNVLLVIAHPDDESMFFSPTIN-YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~-~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (256)
++++|+.++= - |-|-.++ ++.++|++|.+...... ..+.++..+.++..|. ++.++. -|..
T Consensus 55 ~k~vlITGas---~--gIG~~~a~~l~~~G~~V~i~~~~~~------~~~~~~~~~~~~~~~~---~~~~~~-~Dl~--- 116 (300)
T PRK06128 55 GRKALITGAD---S--GIGRATAIAFAREGADIALNYLPEE------EQDAAEVVQLIQAEGR---KAVALP-GDLK--- 116 (300)
T ss_pred CCEEEEecCC---C--cHHHHHHHHHHHcCCEEEEEeCCcc------hHHHHHHHHHHHHcCC---eEEEEe-cCCC---
Confidence 4678888772 2 3444444 55678998765443221 1223334444444554 233221 1211
Q ss_pred cccCChHHHHHHHHHHHHhc-CCCEEEec
Q 025219 118 DKLWNHKSLAKIVEEEVVNC-SIDLIITF 145 (256)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~ 145 (256)
+.+.+.+.+.++.+.+ ++|+++-.
T Consensus 117 ----~~~~v~~~~~~~~~~~g~iD~lV~n 141 (300)
T PRK06128 117 ----DEAFCRQLVERAVKELGGLDILVNI 141 (300)
T ss_pred ----CHHHHHHHHHHHHHHhCCCCEEEEC
Confidence 2345555555555554 58988654
No 92
>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=46.30 E-value=1.9e+02 Score=24.68 Aligned_cols=65 Identities=9% Similarity=0.031 Sum_probs=36.9
Q ss_pred EEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEec
Q 025219 71 HILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITF 145 (256)
Q Consensus 71 ~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~ 145 (256)
.+++++ |... .....|.+-.+++++..|.+ +.....-. ..|+.+...+.+.+++++. +|+.|++.
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 444554 3332 34467888889998887752 22211100 1134455566777777654 58899887
No 93
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=46.20 E-value=1.5e+02 Score=25.71 Aligned_cols=75 Identities=13% Similarity=0.142 Sum_probs=42.5
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.++|+. .+.+++..........|.+-.+++++..|++........ ..++.+...+.+.++++.. +|+
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 344444222223346688888999998887421111111 0123445556667777654 489
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
.||+.+
T Consensus 216 ai~~~~ 221 (309)
T PRK11041 216 AVFCHS 221 (309)
T ss_pred EEEEcC
Confidence 999873
No 94
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=46.13 E-value=2.2e+02 Score=25.80 Aligned_cols=86 Identities=16% Similarity=0.120 Sum_probs=51.0
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+.++.++|....+.++--|+.. ...-.|.+ .++|+.+|+ ++....+|.. ...+++.+.|.++-.+-+
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 AAALTARGHQPGLAVILVGDNPASQVYVRNK--VKACEDNGF---HSLKDRYPAD-------LSEAELLARIDELNRDPK 90 (285)
T ss_pred HHHHHhCCCCCeEEEEEeCCCchHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 3445556777666666666543 33334443 578999999 4555666541 245677777777666555
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+.+-| ...|.|-..+
T Consensus 91 V~GIlvq~P--lp~~i~~~~i 109 (285)
T PRK14189 91 IHGILVQLP--LPKHIDSHKV 109 (285)
T ss_pred CCeEEEeCC--CCCCCCHHHH
Confidence 666887743 3356665543
No 95
>PRK10125 putative glycosyl transferase; Provisional
Probab=45.98 E-value=43 Score=31.52 Aligned_cols=32 Identities=9% Similarity=-0.035 Sum_probs=20.8
Q ss_pred cEEEEecCchhhhcchHHH-------HHHHHhCCCcEEEEEEeC
Q 025219 41 NVLLVIAHPDDESMFFSPT-------INYLTSRRHNLHILCMSN 77 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggt-------l~~l~~~G~~V~vv~lT~ 77 (256)
|||.|.. .+++||+ ..++.++|++|.+++.+.
T Consensus 2 kil~i~~-----~l~~GGaeri~~~L~~~l~~~G~~~~i~~~~~ 40 (405)
T PRK10125 2 NILQFNV-----RLAEGGAAGVALDLHQRALQQGLASHFVYGYG 40 (405)
T ss_pred eEEEEEe-----eecCCchhHHHHHHHHHHHhcCCeEEEEEecC
Confidence 5555554 5666665 234457899999888763
No 96
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=45.87 E-value=2e+02 Score=26.09 Aligned_cols=86 Identities=9% Similarity=0.155 Sum_probs=50.7
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+..+.++|....+.++--|+.. ...-.|.+ .++|+.+|+ ++....+|.. ...+++.+.|.++-.+-.
T Consensus 23 v~~l~~~g~~p~Laii~vg~~~as~~Yv~~k--~k~a~~~Gi---~~~~~~l~~~-------~~~~~l~~~I~~lN~d~~ 90 (286)
T PRK14175 23 VEALKEKGFTPKLSVILVGNDGASQSYVRSK--KKAAEKIGM---ISEIVHLEET-------ATEEEVLNELNRLNNDDS 90 (286)
T ss_pred HHHHHhcCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 3344455777766666666532 33334443 478999999 4555666541 134667777766666556
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+.+- +...|.|-..+
T Consensus 91 V~GIivq~--Plp~~i~~~~i 109 (286)
T PRK14175 91 VSGILVQV--PLPKQVSEQKI 109 (286)
T ss_pred CCEEEEeC--CCCCCCCHHHH
Confidence 66687773 33356665553
No 97
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=45.75 E-value=1.2e+02 Score=25.58 Aligned_cols=62 Identities=15% Similarity=0.232 Sum_probs=35.8
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCE-EEecCCCCC
Q 025219 72 ILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDL-IITFDNYGV 150 (256)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~-V~t~d~~g~ 150 (256)
++.+|+|+ +.-++..+.|++.+|. ++.=... |-.+....++ |.++|.+..-|- ++.||..|.
T Consensus 2 VIlvTDGD-----~~A~ravE~aa~~iGg---RCIS~S~-----GNPT~lsG~e----lV~lIk~a~~DPV~VMfDD~G~ 64 (180)
T PF14097_consen 2 VILVTDGD-----EYAKRAVEIAAKNIGG---RCISQSA-----GNPTPLSGEE----LVELIKQAPHDPVLVMFDDKGF 64 (180)
T ss_pred EEEEECCh-----HHHHHHHHHHHHHhCc---EEEeccC-----CCCCcCCHHH----HHHHHHhCCCCCEEEEEeCCCC
Confidence 67889996 4455667789999998 5543332 1112334455 455555555553 445665553
No 98
>COG2845 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.75 E-value=2.6e+02 Score=26.12 Aligned_cols=54 Identities=4% Similarity=-0.047 Sum_probs=29.0
Q ss_pred HHHHHHHHHhcCCCEEEecCC--CCCCCCchHHHHHHHHHHHHhhcCCCceeEEEe
Q 025219 127 AKIVEEEVVNCSIDLIITFDN--YGVSGHCNHRDVHHGIWSYLNGTSERNIEAWEL 180 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~--~g~d~H~DH~~v~~av~~a~~~~~~~~~~~~e~ 180 (256)
++.+.+++.+.++.++..-=| ...+...|=...-+.=..+....+++.+.+|..
T Consensus 215 vd~~l~ia~~~~~~V~WvGmP~~r~~~l~~dm~~ln~iy~~~vE~~~gk~i~i~d~ 270 (354)
T COG2845 215 VDAILKIAHTHKVPVLWVGMPPFRKKKLNADMVYLNKIYSKAVEKLGGKFIDIWDG 270 (354)
T ss_pred HHHHHHHhcccCCcEEEeeCCCccccccchHHHHHHHHHHHHHHHhCCeEEEeccc
Confidence 445566666666666554211 123455565555555555555555556666643
No 99
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=45.67 E-value=2.3e+02 Score=27.52 Aligned_cols=86 Identities=13% Similarity=0.096 Sum_probs=50.0
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHH-HHHHHHcCCCCCcEEEccCCCCCC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDEL-HRACAVLKIPLEQVKVLDLVDFQD 115 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~-~~A~~~LGv~~~~~~~l~~~d~~d 115 (256)
..+||+. +.+-||=+. +....+.+.|.+|..+....++.. . ..+..|. .+.++-.|. +...+++.+|
T Consensus 312 L~GKrva-i~Gdp~~~i----~LarfL~elGmevV~vgt~~~~~~-~-~~~d~~~l~~~~~~~~~--~~~vive~~D--- 379 (457)
T CHL00073 312 VRGKSVF-FMGDNLLEI----SLARFLIRCGMIVYEIGIPYMDKR-Y-QAAELALLEDTCRKMNV--PMPRIVEKPD--- 379 (457)
T ss_pred HCCCEEE-EECCCcHHH----HHHHHHHHCCCEEEEEEeCCCChh-h-hHHHHHHHHHHhhhcCC--CCcEEEeCCC---
Confidence 4688886 777777663 566677789999877754444321 1 1122232 234444555 2233444333
Q ss_pred CccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 116 GFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 116 g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
. ..+.+.+++.+||++++.
T Consensus 380 -------~----~el~~~i~~~~pDLlIgG 398 (457)
T CHL00073 380 -------N----YNQIQRIRELQPDLAITG 398 (457)
T ss_pred -------H----HHHHHHHhhCCCCEEEcc
Confidence 1 234567788899999875
No 100
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=45.54 E-value=1.9e+02 Score=26.24 Aligned_cols=86 Identities=14% Similarity=0.190 Sum_probs=51.9
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+..+.++|....++.+--|+.. ...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-.+-+
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 VAELVKEGKKPGLAVVLVGDNQASRTYVRNK--QKRTEEAGM---KSVLIELPEN-------VTEEKLLSVVEELNEDKT 89 (284)
T ss_pred HHHHHhCCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 4445556777766666666543 23334443 478999999 4555555541 134667777777766666
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+.. .+...|.|-..+
T Consensus 90 V~GIivq--lPlP~~i~~~~i 108 (284)
T PRK14170 90 IHGILVQ--LPLPEHISEEKV 108 (284)
T ss_pred CCeEEEe--cCCCCCCCHHHH
Confidence 6768877 344456665553
No 101
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=45.39 E-value=2.7e+02 Score=28.60 Aligned_cols=22 Identities=0% Similarity=0.018 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHhcCCCEEEecC
Q 025219 125 SLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
.....|.+++++.+||+|.+|.
T Consensus 387 ~~~~~L~~~lk~~kpDIVH~h~ 408 (694)
T PRK15179 387 EGTTKLTDVMRSSVPSVVHIWQ 408 (694)
T ss_pred HHHHHHHHHHHHcCCcEEEEeC
Confidence 3456788999999999999884
No 102
>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=45.36 E-value=1.7e+02 Score=24.66 Aligned_cols=86 Identities=14% Similarity=0.072 Sum_probs=45.7
Q ss_pred CchhhhcchHHHHHH-HHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHH
Q 025219 48 HPDDESMFFSPTINY-LTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKS 125 (256)
Q Consensus 48 HPDDE~l~~Ggtl~~-l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~ 125 (256)
.+|+.. +|-.+.+ +.++|++ .+++++.... ......|.+..+++++..|++........ . .|+.+.
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 3443443 4456754 3444443222 23456788889999999887321111111 1 122333
Q ss_pred HHHHHHHHHHhcCCCEEEec
Q 025219 126 LAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~ 145 (256)
..+.+.+++++..|+.|++.
T Consensus 165 ~~~~~~~~l~~~~~~ai~~~ 184 (268)
T cd06298 165 GYELAEELLEDGKPTAAFVT 184 (268)
T ss_pred HHHHHHHHhcCCCCCEEEEc
Confidence 44556666665448999987
No 103
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=44.95 E-value=2e+02 Score=26.05 Aligned_cols=85 Identities=11% Similarity=0.137 Sum_probs=49.3
Q ss_pred HHHHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+.++.++|....+..+--|+. +...-.|.+ .++|+.+|+ +.....+|.. -..+++.+.|.++-++.+
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 VVKLKEQGIVPGLAVILVGDDPASHSYVRGK--KKAAEKVGI---YSELYEFPAD-------ITEEELLALIDRLNADPR 90 (284)
T ss_pred HHHHHhCCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 344445576666655555543 333334433 578999999 5566666542 134567777776666555
Q ss_pred CCEEEecCCCCCCCCchHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (256)
.|=|+.+-| .-.|.|-..
T Consensus 91 V~GIlvq~P--Lp~~i~~~~ 108 (284)
T PRK14190 91 INGILVQLP--LPKHIDEKA 108 (284)
T ss_pred CCEEEEeCC--CCCCCCHHH
Confidence 666777733 335666444
No 104
>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=44.80 E-value=1.9e+02 Score=24.51 Aligned_cols=99 Identities=9% Similarity=-0.038 Sum_probs=49.7
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (256)
..+.++|++- +++++..........|.+-..++++..|++......... .++.+...+.+.+++++. |+
T Consensus 115 ~~l~~~g~~~-i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i~~~---------~~~~~~~~~~~~~~l~~~-~~ 183 (273)
T cd06292 115 RHLVALGHRR-IGFASGPGRTVPRRRKIAGFRAALEEAGLEPPEALVARG---------MFSVEGGQAAAVELLGSG-PT 183 (273)
T ss_pred HHHHHCCCce-EEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhheEeC---------CCCHHHHHHHHHHHhcCC-CC
Confidence 3455667653 334432222223456778888888888873222111110 122233334455555544 99
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
.||+.+. ..+..+..+++..+ ++++.+...
T Consensus 184 ai~~~~d----------~~a~g~~~~l~~~g~~ip~di~ii~~ 216 (273)
T cd06292 184 AIVAASD----------LMALGAIRAARRRGLRVPEDVSVVGY 216 (273)
T ss_pred EEEEcCc----------HHHHHHHHHHHHcCCCCCcceEEEee
Confidence 9988731 23344556665433 245555543
No 105
>PRK04930 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional
Probab=44.68 E-value=58 Score=27.51 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=26.5
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeC
Q 025219 39 KKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSN 77 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~ 77 (256)
.+++|+|.+||+=+.=-..-.+....+++.+|.+.-|..
T Consensus 5 ~~kiLiI~aHP~~~~S~~n~~l~~~~~~~~~v~~~DL~~ 43 (184)
T PRK04930 5 PPKVLLLYAHPESQDSVANRVLLKPAQQLEHVTVHDLYA 43 (184)
T ss_pred CCEEEEEECCCCcccCHHHHHHHHHHHcCCceEEEECcc
Confidence 478999999998652224455666666677777666544
No 106
>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=44.51 E-value=1.6e+02 Score=24.22 Aligned_cols=62 Identities=21% Similarity=0.200 Sum_probs=36.3
Q ss_pred HHHHHHHHcCCCCCcEEEc-cCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHh
Q 025219 90 ELHRACAVLKIPLEQVKVL-DLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLN 168 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l-~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~ 168 (256)
=+.+.++.+|+. +... -.+| +.+++.+.+.+... +.|+|+|. |+.+....-.+.+++.+++.
T Consensus 23 ~l~~~L~~~G~~---v~~~~~v~D---------d~~~I~~~l~~~~~--~~dlVItt---GG~G~t~~D~t~ea~~~~~~ 85 (170)
T cd00885 23 FLAKELAELGIE---VYRVTVVGD---------DEDRIAEALRRASE--RADLVITT---GGLGPTHDDLTREAVAKAFG 85 (170)
T ss_pred HHHHHHHHCCCE---EEEEEEeCC---------CHHHHHHHHHHHHh--CCCEEEEC---CCCCCCCCChHHHHHHHHhC
Confidence 345567778983 3222 2233 34567777777765 68999997 44444444445566666653
No 107
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=44.37 E-value=2.3e+02 Score=25.67 Aligned_cols=86 Identities=14% Similarity=0.164 Sum_probs=51.1
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+.++.++|....++++--|+.. ...-.|.+ .++|+.+|+ +.....+|.. -..+++.+.|.++-++-+
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 NQFLKSKGIESCLAVILVGDNPASQTYVKSK--AKACEECGI---KSLVYHLNEN-------TTQNELLALINTLNHDDS 88 (282)
T ss_pred HHHHHhCCCCceEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 4455556777766666666543 23334443 478999999 4556666541 134567777776665556
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+.+-| .-.|.|-..+
T Consensus 89 V~GIivq~P--LP~~i~~~~i 107 (282)
T PRK14166 89 VHGILVQLP--LPDHICKDLI 107 (282)
T ss_pred CCEEEEeCC--CCCCCCHHHH
Confidence 666888744 3356655543
No 108
>PRK06849 hypothetical protein; Provisional
Probab=44.31 E-value=1.9e+02 Score=26.74 Aligned_cols=81 Identities=16% Similarity=0.158 Sum_probs=47.1
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCc
Q 025219 38 DKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGF 117 (256)
Q Consensus 38 ~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~ 117 (256)
.+++||++++-.- -+=+.+..+.++|++|+++.. +. ...+ ...+ .+ +..+.+..|+
T Consensus 3 ~~~~VLI~G~~~~----~~l~iar~l~~~G~~Vi~~d~-~~--~~~~--------~~s~--~~--d~~~~~p~p~----- 58 (389)
T PRK06849 3 TKKTVLITGARAP----AALELARLFHNAGHTVILADS-LK--YPLS--------RFSR--AV--DGFYTIPSPR----- 58 (389)
T ss_pred CCCEEEEeCCCcH----HHHHHHHHHHHCCCEEEEEeC-Cc--hHHH--------HHHH--hh--hheEEeCCCC-----
Confidence 4678999876532 123456667788998876632 21 1111 1111 12 2233333332
Q ss_pred cccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 118 DKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 118 ~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
.+.+...+.|.+++++.++|+|+..
T Consensus 59 ---~d~~~~~~~L~~i~~~~~id~vIP~ 83 (389)
T PRK06849 59 ---WDPDAYIQALLSIVQRENIDLLIPT 83 (389)
T ss_pred ---CCHHHHHHHHHHHHHHcCCCEEEEC
Confidence 1345667889999999999999876
No 109
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=44.00 E-value=1.1e+02 Score=28.94 Aligned_cols=68 Identities=16% Similarity=0.103 Sum_probs=39.1
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 65 SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
+.|.+. ++++|++.....+. -++..++++.-|+ .+.+.+-. . .-+..+.++...+..++.++|.|+.
T Consensus 46 ~~g~~~-~lvv~~~~~~~~g~--~~~v~~~L~~~gi---~~~~~~~v--~-----~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 46 TRGLKH-LFVMADSFLHQAGM--TAGLTRSLAVKGI---AMTLWPCP--V-----GEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred hcCCCE-EEEEcCcchhhCcc--HHHHHHHHHHcCC---eEEEECCC--C-----CCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 447654 34456553322221 1335666666777 34333311 1 0134566778888999999999999
Q ss_pred c
Q 025219 145 F 145 (256)
Q Consensus 145 ~ 145 (256)
-
T Consensus 113 v 113 (395)
T PRK15454 113 F 113 (395)
T ss_pred e
Confidence 7
No 110
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.91 E-value=20 Score=28.71 Aligned_cols=26 Identities=19% Similarity=0.428 Sum_probs=19.4
Q ss_pred CchhHHHHHHHH--HHHHHHHHHHhcCC
Q 025219 1 MSWLLVIVSTIV--VWVASLFKILNSSR 26 (256)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~~ 26 (256)
|.|++..+|+|+ .+.++++|++....
T Consensus 6 ~~W~~a~igLvvGi~IG~li~Rlt~~~~ 33 (138)
T COG3105 6 MTWEYALIGLVVGIIIGALIARLTNRKL 33 (138)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcchhh
Confidence 678999999999 34478888665544
No 111
>PRK14167 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=43.56 E-value=2.3e+02 Score=25.87 Aligned_cols=85 Identities=13% Similarity=0.129 Sum_probs=51.1
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+.++.+.|....++++--|+.. ...-.|. ..++|+.+|+ +.....+|.. ...+++.+.|.++-++-+
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 3445556777666666666543 2333343 3578999999 4556666541 245677777777766666
Q ss_pred CCEEEecCCCCCCCCchHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (256)
.+=|+.+- +.-.|.|-..
T Consensus 90 V~GIlvq~--PLP~~i~~~~ 107 (297)
T PRK14167 90 VHGILVQM--PVPDHVDDRE 107 (297)
T ss_pred CCEEEEcC--CCCCCCCHHH
Confidence 67788873 3335655444
No 112
>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=43.30 E-value=1.9e+02 Score=23.87 Aligned_cols=77 Identities=17% Similarity=0.126 Sum_probs=43.1
Q ss_pred HHHHHH-HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025219 57 SPTINY-LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 57 Ggtl~~-l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (256)
|..+.+ +.+.|++ .++++...........|.++++++++..| + ....... ..|+.+...+.+.+++
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 444443 3455643 23333333223456778899999998887 3 1111111 0123455566777777
Q ss_pred HhcC-CCEEEec
Q 025219 135 VNCS-IDLIITF 145 (256)
Q Consensus 135 ~~~~-Pd~V~t~ 145 (256)
++.. ||.|++.
T Consensus 174 ~~~~~~~~i~~~ 185 (264)
T cd01537 174 TAHPDPTAIFAA 185 (264)
T ss_pred hcCCCCCEEEEc
Confidence 7654 8999987
No 113
>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=43.13 E-value=1e+02 Score=25.32 Aligned_cols=38 Identities=21% Similarity=0.373 Sum_probs=22.0
Q ss_pred CcEEEEecCchhhhcch-H-HHHHHHHhCCCcEEEEEEeCCCC
Q 025219 40 KNVLLVIAHPDDESMFF-S-PTINYLTSRRHNLHILCMSNGNA 80 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~-G-gtl~~l~~~G~~V~vv~lT~G~~ 80 (256)
++++.|. .|-.+.+ | .-|....+.+.++.++++-|+..
T Consensus 70 ~~Vv~i~---GDG~f~~~g~~eL~ta~~~~l~i~vvV~nN~~~ 109 (178)
T cd02008 70 KKVVAVI---GDSTFFHSGILGLINAVYNKANITVVILDNRTT 109 (178)
T ss_pred CCEEEEe---cChHHhhccHHHHHHHHHcCCCEEEEEECCcce
Confidence 4555553 3444433 2 44555666777777777777654
No 114
>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=42.59 E-value=2.3e+02 Score=24.73 Aligned_cols=98 Identities=9% Similarity=-0.072 Sum_probs=52.4
Q ss_pred HHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 63 LTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 63 l~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
+.+. |++-.+++++..........|.+.++++++..|.+ .+....... ..|+.+...+.+.+++++. +|+
T Consensus 116 l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~--~~~~~~~~~------~~~~~~~~~~~~~~~l~~~~~~~ 187 (298)
T cd06302 116 LAEQMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYP--MLELVDRQY------GDDDADKSYQTAQELLKAYPDLK 187 (298)
T ss_pred HHHHcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCC--CeEEeCccc------CCCCHHHHHHHHHHHHHhCCCce
Confidence 3455 44344555543322234566888899999988853 222222111 1244455556677777654 488
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcCC-CceeEE
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTSE-RNIEAW 178 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~-~~~~~~ 178 (256)
.|++.+. ..+..+.++++..+. .++.+.
T Consensus 188 ai~~~~D----------~~A~g~~~al~~~g~~~dv~vv 216 (298)
T cd06302 188 GIIGPTS----------VGIPGAARAVEEAGLKGKVAVT 216 (298)
T ss_pred EEEECCC----------cchhHHHHHHHhcCCCCCEEEE
Confidence 8988731 223445566654432 344444
No 115
>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=42.35 E-value=2.4e+02 Score=24.82 Aligned_cols=97 Identities=14% Similarity=0.107 Sum_probs=50.7
Q ss_pred HHHHhCCCcEEEEEEeCCCCCC-chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADG-MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~-~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (256)
..|.+.|++- +.+++...... ....|.+-.+++++..|++.....+.. . .|+.+...+.+.++++. +|
T Consensus 169 ~~L~~~G~~~-I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~-~--------~~~~~~~~~~~~~ll~~-~p 237 (329)
T TIGR01481 169 GELIAKGHKS-IAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCE-G--------KYSYDAGYKAFAELKGS-LP 237 (329)
T ss_pred HHHHHCCCCe-EEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEEe-c--------CCChHHHHHHHHHHhCC-CC
Confidence 3566788753 23333211112 246788889999999888532211111 1 12223334445555554 69
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEE
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAW 178 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~ 178 (256)
+.||+.+ | ..+..+.++++..+ ++++.+.
T Consensus 238 ~ai~~~~--------d--~~A~g~~~al~~~g~~vP~dvsvv 269 (329)
T TIGR01481 238 TAVFVAS--------D--EMAAGILNAAMDAGIKVPEDLEVI 269 (329)
T ss_pred CEEEEcC--------c--HHHHHHHHHHHHcCCCCCCceEEE
Confidence 9999873 2 23445666665443 3455554
No 116
>KOG2872 consensus Uroporphyrinogen decarboxylase [Coenzyme transport and metabolism]
Probab=42.30 E-value=2.8e+02 Score=25.58 Aligned_cols=87 Identities=11% Similarity=-0.005 Sum_probs=56.9
Q ss_pred chHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025219 55 FFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 55 ~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (256)
|.||.|.++++.|.+|.-+--|-. ..+|-+.+|- ++.+-+.-|-.+=+ -+.+++.+.+.+.+
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 789999999999999876654443 3446667885 57666554422111 25678889999999
Q ss_pred HhcCCCEEEecCCCCC--CCCchHHHH
Q 025219 135 VNCSIDLIITFDNYGV--SGHCNHRDV 159 (256)
Q Consensus 135 ~~~~Pd~V~t~d~~g~--d~H~DH~~v 159 (256)
..+.++--|..=-+|. +..+||.+.
T Consensus 322 ~~fG~~ryI~NLGHGi~p~tp~e~v~~ 348 (359)
T KOG2872|consen 322 KDFGKSRYIANLGHGITPGTPPEHVAH 348 (359)
T ss_pred HHhCccceEEecCCCCCCCCCHHHHHH
Confidence 9999987655522342 234555543
No 117
>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=42.03 E-value=68 Score=26.44 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=28.3
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCC
Q 025219 39 KKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNAD 81 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~ 81 (256)
.++++.|.- |-.-+..+..|...++.+.++.++++.|+.++
T Consensus 66 ~~~vv~i~G--DG~f~m~~~eL~ta~~~~l~vi~vV~NN~~~g 106 (177)
T cd02010 66 DRKVVAVSG--DGGFMMNSQELETAVRLKIPLVVLIWNDNGYG 106 (177)
T ss_pred CCcEEEEEc--chHHHhHHHHHHHHHHHCCCeEEEEEECCcch
Confidence 345655554 44444555567777888999999999998653
No 118
>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=41.76 E-value=2.2e+02 Score=24.16 Aligned_cols=82 Identities=20% Similarity=0.249 Sum_probs=45.4
Q ss_pred hhhhcchHHHHH-HHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHH
Q 025219 50 DDESMFFSPTIN-YLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKS 125 (256)
Q Consensus 50 DDE~l~~Ggtl~-~l~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~ 125 (256)
|++. +|-..+ .+.+. |+. .+++++..........|.+-.+++++.. |+ ++. .... ..|+.+.
T Consensus 103 d~~~--~g~~~~~~l~~~~~g~~-~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~---~~~--~~~~------~~~~~~~ 168 (270)
T cd06308 103 DNYE--IGRQAGEYIANLLPGKG-NILEIWGLEGSSPAIERHDGFKEALSKYPKI---KIV--AQQD------GDWLKEK 168 (270)
T ss_pred CcHH--HHHHHHHHHHHHcCCCc-eEEEEECCCCCchHHHHHHHHHHHHHHCCCC---EEE--EecC------CCccHHH
Confidence 5554 333333 34443 654 4455543222233456888888898888 76 222 1111 1245555
Q ss_pred HHHHHHHHHHhc-CCCEEEec
Q 025219 126 LAKIVEEEVVNC-SIDLIITF 145 (256)
Q Consensus 126 l~~~l~~~i~~~-~Pd~V~t~ 145 (256)
..+.+.+++++. +|+.|++.
T Consensus 169 ~~~~~~~~l~~~~~~~aI~~~ 189 (270)
T cd06308 169 AEEKMEELLQANPDIDLVYAH 189 (270)
T ss_pred HHHHHHHHHHhCCCCcEEEeC
Confidence 566777777654 48989886
No 119
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=41.71 E-value=2e+02 Score=27.86 Aligned_cols=93 Identities=13% Similarity=0.200 Sum_probs=48.3
Q ss_pred CcEEEEecCch-hhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEE---ccCCCCCC
Q 025219 40 KNVLLVIAHPD-DESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKV---LDLVDFQD 115 (256)
Q Consensus 40 ~~vLvv~aHPD-DE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~---l~~~d~~d 115 (256)
.++.+|..-|. -=+.+|--.+....++|.++..+.+... .+++.+-++.+|.+.+.+.. +.+-+..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~---------~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~- 342 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEES---------RAQLIRNARSWGIDLEKMEEKGLLKIICAR- 342 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCC---------HHHHHHHHHHcCCChHHHhhcCCceeecCC-
Confidence 44555554443 2333333334445567888777765432 23444556678875322210 1111110
Q ss_pred CccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 116 GFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 116 g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
+. .-..++....+.+.+.+.+|+.|+.
T Consensus 343 -~~-~~~~~~~~~~i~~~i~~~~~~~vVI 369 (509)
T PRK09302 343 -PE-SYGLEDHLIIIKREIEEFKPSRVAI 369 (509)
T ss_pred -cc-cCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 11 1133566778888889999997754
No 120
>TIGR00215 lpxB lipid-A-disaccharide synthase. Lipid-A precursor biosynthesis producing lipid A disaccharide in a condensation reaction. transcribed as part of an operon including lpxA
Probab=41.48 E-value=27 Score=32.66 Aligned_cols=22 Identities=23% Similarity=0.297 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhcCCCEEEecC
Q 025219 125 SLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 125 ~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
.....+.+++++.+||+|+++|
T Consensus 76 ~~~~~~~~~l~~~kPd~vi~~g 97 (385)
T TIGR00215 76 KIRKEVVQLAKQAKPDLLVGID 97 (385)
T ss_pred HHHHHHHHHHHhcCCCEEEEeC
Confidence 3455677889999999999996
No 121
>PRK10494 hypothetical protein; Provisional
Probab=41.41 E-value=2.5e+02 Score=24.83 Aligned_cols=43 Identities=23% Similarity=0.356 Sum_probs=22.5
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHH-HHHHHHcCCCCCcEEEcc
Q 025219 65 SRRHNLHILCMSNGNADGMGNIRKDEL-HRACAVLKIPLEQVKVLD 109 (256)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~-~~A~~~LGv~~~~~~~l~ 109 (256)
++|.. ..+++|.|...+. ...+.|. ++.+..+|++++++..-+
T Consensus 117 r~~~~-~~ii~SGg~~~~~-~~sEA~~~~~~l~~lGVp~~~Ii~e~ 160 (259)
T PRK10494 117 RANPG-AKLIFTGGAAKTN-TVSTAEVGARVAQSLGVPREDIITLD 160 (259)
T ss_pred HhCCC-CEEEEECCCCCCC-CCCHHHHHHHHHHHcCCCHHHeeeCC
Confidence 34433 3455566654221 1233443 445667999877665444
No 122
>PRK04148 hypothetical protein; Provisional
Probab=41.28 E-value=1.9e+02 Score=23.23 Aligned_cols=90 Identities=14% Similarity=0.113 Sum_probs=54.2
Q ss_pred CCcEEEEecCchhhhcchHHHHH-HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCC---
Q 025219 39 KKNVLLVIAHPDDESMFFSPTIN-YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQ--- 114 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~-~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~--- 114 (256)
++++|.|+ +|+|..++ .|.+.|++|..+= -+ .+..+.++..|+ +...-|.-+..
T Consensus 17 ~~kileIG-------~GfG~~vA~~L~~~G~~ViaID---i~---------~~aV~~a~~~~~---~~v~dDlf~p~~~~ 74 (134)
T PRK04148 17 NKKIVELG-------IGFYFKVAKKLKESGFDVIVID---IN---------EKAVEKAKKLGL---NAFVDDLFNPNLEI 74 (134)
T ss_pred CCEEEEEE-------ecCCHHHHHHHHHCCCEEEEEE---CC---------HHHHHHHHHhCC---eEEECcCCCCCHHH
Confidence 46788877 46666454 6667898765443 22 112233344566 45544432211
Q ss_pred -CCc---cccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCC
Q 025219 115 -DGF---DKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSG 152 (256)
Q Consensus 115 -dg~---~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~ 152 (256)
.+. -+.-++.++...+.++-++.+.|++++| .+++.
T Consensus 75 y~~a~liysirpp~el~~~~~~la~~~~~~~~i~~--l~~e~ 114 (134)
T PRK04148 75 YKNAKLIYSIRPPRDLQPFILELAKKINVPLIIKP--LSGEE 114 (134)
T ss_pred HhcCCEEEEeCCCHHHHHHHHHHHHHcCCCEEEEc--CCCCC
Confidence 011 1223567899999999999999999999 65544
No 123
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=41.23 E-value=2.3e+02 Score=26.56 Aligned_cols=79 Identities=14% Similarity=0.154 Sum_probs=49.3
Q ss_pred CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 67 RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 67 G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
|....+.++--|+. +...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-++-+.|=|+..
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 76666666655543 333444544 489999999 5556666541 1456777777777666666778887
Q ss_pred CCCCCCCCchHHHH
Q 025219 146 DNYGVSGHCNHRDV 159 (256)
Q Consensus 146 d~~g~d~H~DH~~v 159 (256)
= +.-.|.|-..+
T Consensus 152 l--PLP~hid~~~i 163 (345)
T PLN02897 152 L--PLPQHLDESKI 163 (345)
T ss_pred C--CCCCCCCHHHH
Confidence 3 34456665543
No 124
>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=41.21 E-value=38 Score=35.10 Aligned_cols=61 Identities=13% Similarity=0.095 Sum_probs=36.1
Q ss_pred HHHHhcCCccccccc-ccCCCCCcEEEEecCc----hhhhcc---hHHHH------H---------HHHhCCCcE--EEE
Q 025219 19 FKILNSSRSQSNAAF-LTTGDKKNVLLVIAHP----DDESMF---FSPTI------N---------YLTSRRHNL--HIL 73 (256)
Q Consensus 19 ~~~~~~~~~~~~~~~-~~~~~~~~vLvv~aHP----DDE~l~---~Ggtl------~---------~l~~~G~~V--~vv 73 (256)
.-++-+-.+..=+.| .+.+...+|++|+.|- .+ ++| .||-. + +++++|++| .|.
T Consensus 234 ~~~~~~p~~~~~e~f~~~~p~~~rIa~lS~Hg~~~~~~-~lG~~DtGGq~vYV~elaraL~~~~~~~La~~G~~v~~~V~ 312 (784)
T TIGR02470 234 DDLLEAPDPSVLEAFLGRIPMVFNVVILSPHGYFGQEN-VLGLPDTGGQVVYILDQVRALENEMLQRIKLQGLEITPKIL 312 (784)
T ss_pred HHHHhCCChhHHHHHHhhCCccceEEEEecccccCCcc-ccCCCCCCCceeHHHHHHHHHHHHHHHHHHhcCCCccceEE
Confidence 333444333333333 2356778999999998 44 465 45542 1 356788854 577
Q ss_pred EEeCCCC
Q 025219 74 CMSNGNA 80 (256)
Q Consensus 74 ~lT~G~~ 80 (256)
++|....
T Consensus 313 I~TR~~~ 319 (784)
T TIGR02470 313 IVTRLIP 319 (784)
T ss_pred EEecCCC
Confidence 7787654
No 125
>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=41.18 E-value=40 Score=29.12 Aligned_cols=28 Identities=14% Similarity=0.165 Sum_probs=23.6
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCCCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
++.++.....++|++.+||+|++|+-.+
T Consensus 70 ~E~eLL~~f~~~i~~~DPDii~GyN~~~ 97 (230)
T cd05777 70 TEEELLLAWRDFVQEVDPDIITGYNICN 97 (230)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEecCCC
Confidence 4568889999999999999999996444
No 126
>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated
Probab=41.13 E-value=2.9e+02 Score=25.47 Aligned_cols=93 Identities=15% Similarity=0.053 Sum_probs=49.2
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (256)
-+++-|+.|-++... +--.+....+.|.+|.+-.+..+.. ....-.|..+.+..+|+ +.+.+-| .- |
T Consensus 102 vd~iri~~~~~e~~~-~~~~i~~ak~~G~~v~~~l~~a~~~---~~e~l~~~a~~~~~~Ga--~~i~i~D---T~-G--- 168 (337)
T PRK08195 102 VRVVRVATHCTEADV-SEQHIGLARELGMDTVGFLMMSHMA---PPEKLAEQAKLMESYGA--QCVYVVD---SA-G--- 168 (337)
T ss_pred CCEEEEEEecchHHH-HHHHHHHHHHCCCeEEEEEEeccCC---CHHHHHHHHHHHHhCCC--CEEEeCC---CC-C---
Confidence 345556666666543 4555666667787766554444322 23333444555556677 3333332 21 1
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
...++++.+.+..+-+..+|++-+-+
T Consensus 169 ~~~P~~v~~~v~~l~~~l~~~i~ig~ 194 (337)
T PRK08195 169 ALLPEDVRDRVRALRAALKPDTQVGF 194 (337)
T ss_pred CCCHHHHHHHHHHHHHhcCCCCeEEE
Confidence 12455666666666666667766655
No 127
>PRK06988 putative formyltransferase; Provisional
Probab=41.05 E-value=1.4e+02 Score=27.24 Aligned_cols=83 Identities=18% Similarity=0.225 Sum_probs=48.6
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (256)
+|+++++... +.-.+|..|.++|++|..| +|.-+... +........+.|+..|++ ++. ..+.
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 4667766542 3456888888899988655 66543221 112223566778888994 221 1111
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..++ +.+.+++.+||++++..
T Consensus 65 --~~~~----~~~~l~~~~~Dliv~~~ 85 (312)
T PRK06988 65 --NDPE----LRAAVAAAAPDFIFSFY 85 (312)
T ss_pred --CCHH----HHHHHHhcCCCEEEEeh
Confidence 1122 34557888999988763
No 128
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=41.03 E-value=2.2e+02 Score=24.11 Aligned_cols=45 Identities=22% Similarity=0.260 Sum_probs=27.5
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 91 LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
..+.|+..|+| +..++..+.. +.+...+.+.+.+++++||++++.
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 45678889994 4444433321 112223456677788899999886
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=41.03 E-value=2.2e+02 Score=24.04 Aligned_cols=100 Identities=13% Similarity=0.193 Sum_probs=54.1
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
..+.+.|++- +.+++..........|.+.+.++++..|++.+...... ..|+.+...+.+.++++.. +|
T Consensus 109 ~~l~~~g~~~-i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~ 178 (268)
T cd06270 109 EHLIELGHRK-IACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIE---------GDFTEEGGYAAMQELLARGAPF 178 (268)
T ss_pred HHHHHCCCce-EEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEE---------CCCCHHHHHHHHHHHHhCCCCC
Confidence 3445567653 44443222223456788888999998887422111111 0123344556667777653 58
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
+.|++.+. .++..+..+++..+ ++++.++..
T Consensus 179 ~ai~~~~d----------~~a~g~~~~l~~~g~~ip~di~v~g~ 212 (268)
T cd06270 179 TAVFCAND----------EMAAGAISALREHGISVPQDVSIIGF 212 (268)
T ss_pred CEEEEcCc----------HHHHHHHHHHHHcCCCCCCceeEEEe
Confidence 99998731 24455666665433 245555544
No 130
>PRK09492 treR trehalose repressor; Provisional
Probab=40.76 E-value=2.5e+02 Score=24.54 Aligned_cols=96 Identities=15% Similarity=0.177 Sum_probs=53.8
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 59 TINYLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
....|.++|++= +.+++.+.. ......|.+-..++++..|++.. . . ..+ |+.+...+.+.++++.
T Consensus 166 a~~~L~~~G~~~-I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~-~-~--~~~--------~~~~~~~~~~~~~l~~- 231 (315)
T PRK09492 166 LMQRLYDQGHRH-ISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPV-A-A--LGG--------LSMQSGYELVAKVLTP- 231 (315)
T ss_pred HHHHHHHcCCCe-EEEEcCCcccchhHHHHHHHHHHHHHHcCCCce-e-e--cCC--------CCchHHHHHHHHHhhc-
Confidence 345677889863 444432211 22346788899999999998421 1 1 111 2223334445555553
Q ss_pred CCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCCCceeEE
Q 025219 138 SIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSERNIEAW 178 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~~~~~~ 178 (256)
+||.|++.+ | ..+..+..+++..+.+++.+.
T Consensus 232 ~~~ai~~~~--------D--~~A~g~~~al~~~g~~disvi 262 (315)
T PRK09492 232 ETTALVCAT--------D--TLALGASKYLQEQGRDDIQVA 262 (315)
T ss_pred CCCEEEEcC--------c--HHHHHHHHHHHHcCCCceEEE
Confidence 799999873 2 234456666665554555443
No 131
>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=40.69 E-value=2.1e+02 Score=24.12 Aligned_cols=47 Identities=26% Similarity=0.332 Sum_probs=28.3
Q ss_pred HHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 90 ELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+..+.|+..|+| +..++..+.. +.++..+.+.+.+++.+||++++..
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 335667788994 4444443322 1122234567778888999998873
No 132
>PRK14185 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=40.66 E-value=2.5e+02 Score=25.63 Aligned_cols=85 Identities=12% Similarity=0.153 Sum_probs=51.7
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
++++.++ |....+..+--|+.. ...-.|.+ .++|+.+|+ +.....+|.. -..+++.+.|.++-++-
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 VAEIVAKGGKRPHLAAILVGHDGGSETYVANK--VKACEECGF---KSSLIRYESD-------VTEEELLAKVRELNQDD 88 (293)
T ss_pred HHHHHhccCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 4445455 777777777666543 22333333 578999999 5556666542 13467777777776666
Q ss_pred CCCEEEecCCCCCCCCchHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (256)
+.|=|+.+-| .-.|.|-..
T Consensus 89 ~V~GIlvqlP--LP~~i~~~~ 107 (293)
T PRK14185 89 DVDGFIVQLP--LPKHISEQK 107 (293)
T ss_pred CCCeEEEecC--CCCCCCHHH
Confidence 6777888733 335666444
No 133
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=40.02 E-value=41 Score=24.54 Aligned_cols=65 Identities=22% Similarity=0.353 Sum_probs=28.8
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHH--HHH-HHHHHHcCCCCCcEEE
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRK--DEL-HRACAVLKIPLEQVKV 107 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~--~E~-~~A~~~LGv~~~~~~~ 107 (256)
+.-++..|++|+ +.+.++-.. .+...+..++.+|.+.+-.....|+ +.+ .+.++.+|++++++.+
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 456655332 3344567777777764321111111 111 2234558999888754
No 134
>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=39.96 E-value=2.3e+02 Score=23.84 Aligned_cols=75 Identities=15% Similarity=0.040 Sum_probs=43.0
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.++|++ .+++++..........|.+-..++++..|++........ ..|+.++..+.+.+++++. +||
T Consensus 110 ~l~~~g~~-~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~~ 179 (269)
T cd06288 110 HLLAAGHR-RIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVH---------GDWSADDGYEAAAALLDLDDRPT 179 (269)
T ss_pred HHHHcCCc-eEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEe---------CCCChHHHHHHHHHHHhCCCCCC
Confidence 34566765 455555433323456788889999998887321111111 1133344556677777654 589
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
.|++.+
T Consensus 180 ai~~~~ 185 (269)
T cd06288 180 AIFCGN 185 (269)
T ss_pred EEEEeC
Confidence 999873
No 135
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=39.89 E-value=1e+02 Score=29.68 Aligned_cols=80 Identities=18% Similarity=0.208 Sum_probs=46.1
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHH----HhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 38 DKKNVLLVIAHPDDESMFFSPTINYL----TSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 38 ~~~~vLvv~aHPDDE~l~~Ggtl~~l----~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
-+..++.|+..|. +|=+=+|.+. ++.| .++++|.-+.....+.| ++.||++.+++..+...+
T Consensus 91 V~Gs~iLIgGdPG---IGKSTLLLQva~~lA~~~---~vLYVsGEES~~QiklR-------A~RL~~~~~~l~l~aEt~- 156 (456)
T COG1066 91 VPGSVILIGGDPG---IGKSTLLLQVAARLAKRG---KVLYVSGEESLQQIKLR-------ADRLGLPTNNLYLLAETN- 156 (456)
T ss_pred ccccEEEEccCCC---CCHHHHHHHHHHHHHhcC---cEEEEeCCcCHHHHHHH-------HHHhCCCccceEEehhcC-
Confidence 3556788887775 3434344333 3345 56777665443333333 567998666665554221
Q ss_pred CCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 114 QDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
.+.+.+.+++.+|++++.
T Consensus 157 -------------~e~I~~~l~~~~p~lvVI 174 (456)
T COG1066 157 -------------LEDIIAELEQEKPDLVVI 174 (456)
T ss_pred -------------HHHHHHHHHhcCCCEEEE
Confidence 344566667789998764
No 136
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.55 E-value=2.9e+02 Score=25.03 Aligned_cols=84 Identities=17% Similarity=0.139 Sum_probs=50.6
Q ss_pred HHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025219 61 NYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (256)
..+.++|....+.++--|+.. ...-.|. ..++|+.+|+ +.....+|.. ...+++.+.|.++-++-+.
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 345456777777666666543 2233333 3578999999 4555555541 2456777777777666667
Q ss_pred CEEEecCCCCCCCCchHHH
Q 025219 140 DLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~ 158 (256)
|=|+.+= +.-.|.|-..
T Consensus 92 ~GIlvql--PlP~~id~~~ 108 (284)
T PRK14193 92 TGYIVQL--PLPKHLDENA 108 (284)
T ss_pred CEEEEeC--CCCCCCCHHH
Confidence 7788773 3335666444
No 137
>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=39.21 E-value=1.3e+02 Score=27.83 Aligned_cols=75 Identities=16% Similarity=0.161 Sum_probs=47.6
Q ss_pred EEEEEEeCCCCC--------C---chHHHHHHHHHHHHHcCCCCCcEEEccC--CCCCCCcc-ccCChHHHHHHHHHHHH
Q 025219 70 LHILCMSNGNAD--------G---MGNIRKDELHRACAVLKIPLEQVKVLDL--VDFQDGFD-KLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 70 V~vv~lT~G~~~--------~---~~~~R~~E~~~A~~~LGv~~~~~~~l~~--~d~~dg~~-~~~~~~~l~~~l~~~i~ 135 (256)
|.=++++.|... | .+-.+-.|..+-+..+|+ ..+...+. |+..|..+ ..|+.+.++..-.+.|+
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 666777888652 1 344556666667778999 56777676 55554322 34677777777777777
Q ss_pred hcCCCEEEecC
Q 025219 136 NCSIDLIITFD 146 (256)
Q Consensus 136 ~~~Pd~V~t~d 146 (256)
+.-||+++..|
T Consensus 108 ~~~pdl~vi~D 118 (324)
T PF00490_consen 108 KAFPDLLVITD 118 (324)
T ss_dssp HHSTTSEEEEE
T ss_pred HhCCCcEEEEe
Confidence 77799877554
No 138
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.17 E-value=3e+02 Score=25.07 Aligned_cols=86 Identities=12% Similarity=0.170 Sum_probs=51.3
Q ss_pred HHHHHhC-CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
++++.++ |....++.+--|+. +...-.|.+ .++|+.+|+ ++....+|.. -+.+++.+.|.++-.+-
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 VEAYRAKTGKVPGLTVIIVGEDPASQVYVRNK--AKSCKEIGM---NSTVIELPAD-------TTEEHLLKKIEDLNNDP 88 (295)
T ss_pred HHHHHHccCCCCeEEEEEeCCChHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 4444444 66666666655543 333344443 478999999 4556666541 13567777777776666
Q ss_pred CCCEEEecCCCCCCCCchHHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
+.|=|+.+-| .-.|.|-..+
T Consensus 89 ~V~GIlvq~P--lp~~id~~~i 108 (295)
T PRK14174 89 DVHGILVQQP--LPKQIDEFAV 108 (295)
T ss_pred CCCEEEEeCC--CCCCCCHHHH
Confidence 6677888743 3357775553
No 139
>PRK14184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.16 E-value=2.9e+02 Score=25.07 Aligned_cols=86 Identities=17% Similarity=0.176 Sum_probs=51.4
Q ss_pred HHHHHhC-CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
++.+.++ |....+.++--|+. +...-.|.+ .++|+.+|+ +.....+|.. .+.+++.+.+.++-++-
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 VAALTARHGRAPGLAVILVGEDPASQVYVRNK--ERACEDAGI---VSEAFRLPAD-------TTQEELEDLIAELNARP 88 (286)
T ss_pred HHHHHhccCCCCEEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 66666666655543 333334443 579999999 4556666541 24567777777776666
Q ss_pred CCCEEEecCCCCCCCCchHHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
+.|=|+.+=| .-.|.|-..+
T Consensus 89 ~V~GIlvqlP--LP~~id~~~i 108 (286)
T PRK14184 89 DIDGILLQLP--LPKGLDSQRC 108 (286)
T ss_pred cCceEEEecC--CCCCCCHHHH
Confidence 6676777733 3356665543
No 140
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=38.71 E-value=2.5e+02 Score=26.06 Aligned_cols=75 Identities=13% Similarity=0.134 Sum_probs=46.7
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc-ccCChHHHHHHHHHHHHhc
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD-KLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~-~~~~~~~l~~~l~~~i~~~ 137 (256)
|+-++++.|... ..+--+-.|..+-+..+|+ ..+...+.|+..|..+ +.|+.+.++..-.+.|++.
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 566777777542 1234445555566677999 5677777776655322 3466666666666666666
Q ss_pred CCCEEEecC
Q 025219 138 SIDLIITFD 146 (256)
Q Consensus 138 ~Pd~V~t~d 146 (256)
-||+++..|
T Consensus 110 ~p~l~vi~D 118 (323)
T PRK09283 110 FPELGVITD 118 (323)
T ss_pred CCCcEEEEe
Confidence 699877554
No 141
>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=38.70 E-value=2.7e+02 Score=24.39 Aligned_cols=74 Identities=18% Similarity=0.213 Sum_probs=42.3
Q ss_pred HHHhCCCc-------EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025219 62 YLTSRRHN-------LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 62 ~l~~~G~~-------V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (256)
.+.+.|++ +.+++++..........|.+-.+++++..|. ..+...-. ..|+.+...+.+.+++
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 45566654 3455555322223456788889999988872 11111100 1244555666777777
Q ss_pred Hhc-CCCEEEec
Q 025219 135 VNC-SIDLIITF 145 (256)
Q Consensus 135 ~~~-~Pd~V~t~ 145 (256)
+.. +||.|++.
T Consensus 198 ~~~~~~~ai~~~ 209 (305)
T cd06324 198 KRYPDVRLIWAA 209 (305)
T ss_pred HHCCCccEEEEC
Confidence 754 58999887
No 142
>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=38.40 E-value=1.3e+02 Score=27.57 Aligned_cols=21 Identities=10% Similarity=0.022 Sum_probs=15.0
Q ss_pred chHHHHHHHHhCCCcEEEEEE
Q 025219 55 FFSPTINYLTSRRHNLHILCM 75 (256)
Q Consensus 55 ~~Ggtl~~l~~~G~~V~vv~l 75 (256)
-|=+....|.++|++|.+++-
T Consensus 16 P~l~la~~L~~rGh~V~~~t~ 36 (401)
T cd03784 16 PLVALAWALRAAGHEVRVATP 36 (401)
T ss_pred HHHHHHHHHHHCCCeEEEeeC
Confidence 344566678899999877763
No 143
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=38.31 E-value=2.8e+02 Score=25.36 Aligned_cols=86 Identities=14% Similarity=0.074 Sum_probs=49.8
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+.++.++|....+..+--|+.. ...-.|.+ .++|+.+|+ +.....+|.. -..+++.+.|.++-.+-+
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 VRTLKAAGIEPALAVILVGNDPASQVYVRNK--ILRAEEAGI---RSLEHRLPAD-------TSQARLLALIAELNADPS 91 (301)
T ss_pred HHHHHhCCCCCeEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 4445556777766666666533 23333433 478899999 4555555541 134667777777666556
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+..-| .-.|.|-..+
T Consensus 92 V~GIlvqlP--LP~~i~~~~i 110 (301)
T PRK14194 92 VNGILLQLP--LPAHIDEARV 110 (301)
T ss_pred CCeEEEeCC--CCCCCCHHHH
Confidence 666777733 3356555443
No 144
>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=38.07 E-value=2.2e+02 Score=24.18 Aligned_cols=100 Identities=16% Similarity=0.221 Sum_probs=53.6
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (256)
.+.++|++ .++++++.+ ......|.+..+++++..|++........+.. .+..++..+.+.+++.+ -.||
T Consensus 115 ~l~~~G~~-~i~~l~~~~-~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~ 185 (273)
T cd01541 115 YLIELGHR-KIAGIFKAD-DLQGVKRMKGFIKAYREHGIPFNPSNVITYTT-------EEKEEKLFEKIKEILKRPERPT 185 (273)
T ss_pred HHHHcCCc-CEEEecCCC-cccHHHHHHHHHHHHHHcCCCCChHHEEeccc-------cchhhHHHHHHHHHHcCCCCCC
Confidence 45567764 334444322 23456788889999998887321111111110 01123455667777765 3589
Q ss_pred EEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 141 LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 141 ~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
.|++.+. ..+..+.++++..+ ++++.++..
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 9998732 23444555655433 245565543
No 145
>PLN02727 NAD kinase
Probab=38.06 E-value=4.3e+02 Score=28.26 Aligned_cols=93 Identities=14% Similarity=0.095 Sum_probs=53.8
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
--+.+++||+-+- ++.++++|.+. ||++ +++.++ ...-..|.++||+.+|+ .++.+...+.. .
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 3567888888774 56788899875 4444 333332 23336778899999999 34333332211 1
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEecCCCCCC
Q 025219 121 WNHKSLAKIVEEEVVNCSIDLIITFDNYGVS 151 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d 151 (256)
+..+.++.+.+++++..|.=|+.|=..|.+
T Consensus 324 -pt~EqVe~fa~~l~~slpkPVLvHCKSGar 353 (986)
T PLN02727 324 -PSAEQVEKFASLVSDSSKKPIYLHSKEGVW 353 (986)
T ss_pred -CCHHHHHHHHHHHHhhcCCCEEEECCCCCc
Confidence 234556677777744334444555335543
No 146
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=37.85 E-value=2.1e+02 Score=22.94 Aligned_cols=92 Identities=12% Similarity=0.135 Sum_probs=50.4
Q ss_pred CcEEEEecCchh-hhcchHHHHHHHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCC
Q 025219 40 KNVLLVIAHPDD-ESMFFSPTINYLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQD 115 (256)
Q Consensus 40 ~~vLvv~aHPDD-E~l~~Ggtl~~l~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~d 115 (256)
+..+++++|-.| +. .-..+.++.+. |.+ ++.|.|.+ +..+.. |++.+.+ +.-|+
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 445667777665 33 34677778887 977 46777732 233334 8843222 22222
Q ss_pred CccccCChHHHHHHHHHHHHhcCCCEEEe-cCCCCCCC-CchHHHHHHH
Q 025219 116 GFDKLWNHKSLAKIVEEEVVNCSIDLIIT-FDNYGVSG-HCNHRDVHHG 162 (256)
Q Consensus 116 g~~~~~~~~~l~~~l~~~i~~~~Pd~V~t-~d~~g~d~-H~DH~~v~~a 162 (256)
|. . ..+.+.|++.+.|.|+. +||.+... ..|-....++
T Consensus 62 gg-----~----~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~ 101 (142)
T PRK05234 62 GG-----D----QQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRL 101 (142)
T ss_pred CC-----c----hhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHH
Confidence 10 1 23677788889998665 56555444 3344444333
No 147
>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=37.84 E-value=2.4e+02 Score=23.58 Aligned_cols=74 Identities=12% Similarity=0.040 Sum_probs=41.1
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.+.|++- +.+++..........|.+-.+++++..|.+........ . .++.+...+.+.+++++. +|+
T Consensus 110 ~l~~~g~~~-i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~--~-------~~~~~~~~~~~~~~l~~~~~~~ 179 (268)
T cd01575 110 HLLARGYRR-IGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTP--E-------PSSFALGRELLAELLARWPDLD 179 (268)
T ss_pred HHHHCCCCc-EEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEec--c-------CCCHHHHHHHHHHHHhCCCCCC
Confidence 455667653 33333222123455688888899988887322211111 0 123345556677777654 589
Q ss_pred EEEec
Q 025219 141 LIITF 145 (256)
Q Consensus 141 ~V~t~ 145 (256)
.|++.
T Consensus 180 ai~~~ 184 (268)
T cd01575 180 AVFCS 184 (268)
T ss_pred EEEEC
Confidence 99887
No 148
>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=37.82 E-value=2.4e+02 Score=23.46 Aligned_cols=84 Identities=11% Similarity=0.140 Sum_probs=45.4
Q ss_pred chhhhcchHHHHHHHH-hC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChH
Q 025219 49 PDDESMFFSPTINYLT-SR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHK 124 (256)
Q Consensus 49 PDDE~l~~Ggtl~~l~-~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~ 124 (256)
+||.. .|-.++++. +. |+. .+.+++..........|.+-.+++++..| + ++......+ |+.+
T Consensus 101 ~d~~~--~~~~~~~~l~~~~~g~~-~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~---~~~~~~~~~--------~~~~ 166 (267)
T cd01536 101 TDNYE--AGRLAGEYLAKLLGGKG-KVAIIEGPPGSSNAQERVKGFRDALKEYPDI---EIVAVQDGN--------WDRE 166 (267)
T ss_pred cCHHH--HHHHHHHHHHHHhCCCc-eEEEEEcccccchHHHHHHHHHHHHHhCCCc---EEEEEecCC--------CcHH
Confidence 35554 344555443 44 543 44444433222345668888889999885 5 222221111 2334
Q ss_pred HHHHHHHHHHHhc-CCCEEEecC
Q 025219 125 SLAKIVEEEVVNC-SIDLIITFD 146 (256)
Q Consensus 125 ~l~~~l~~~i~~~-~Pd~V~t~d 146 (256)
+..+.+.+++++. +|+.|++.+
T Consensus 167 ~~~~~~~~~~~~~~~~~~i~~~~ 189 (267)
T cd01536 167 KALQAMEDLLQANPDIDAIFAAN 189 (267)
T ss_pred HHHHHHHHHHHhCCCccEEEEec
Confidence 4556677777654 378888874
No 149
>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=37.57 E-value=90 Score=24.62 Aligned_cols=62 Identities=18% Similarity=0.148 Sum_probs=35.5
Q ss_pred HHHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 89 DELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 89 ~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
.-+.+.++.+|+ ++.... .|| +.+.+.+.+.+.+++. |+|+|. |+.+..+.-.+.+++.++.
T Consensus 20 ~~l~~~l~~~G~---~v~~~~~v~D---------d~~~i~~~l~~~~~~~--D~Vitt---GG~g~~~~D~t~~a~~~~~ 82 (144)
T PF00994_consen 20 PFLAALLEELGI---EVIRYGIVPD---------DPDAIKEALRRALDRA--DLVITT---GGTGPGPDDVTPEALAEAG 82 (144)
T ss_dssp HHHHHHHHHTTE---EEEEEEEEES---------SHHHHHHHHHHHHHTT--SEEEEE---SSSSSSTTCHHHHHHHHHS
T ss_pred HHHHHHHHHcCC---eeeEEEEECC---------CHHHHHHHHHhhhccC--CEEEEc---CCcCcccCCcccHHHHHhc
Confidence 334556667888 333222 222 3467788887777754 999998 4333333334445555553
No 150
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.52 E-value=3.2e+02 Score=24.82 Aligned_cols=86 Identities=15% Similarity=0.206 Sum_probs=50.4
Q ss_pred HHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
++.+.++ |....+.++.-|+.. ...-.|. ..++|+.+|+ +.....+|.. ...+++.+.|.++-.+-
T Consensus 21 v~~l~~~~g~~P~LaiI~vg~d~as~~Yv~~--k~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~ 88 (285)
T PRK14191 21 IQILTAQTGKRPKLAVILVGKDPASQTYVNM--KIKACERVGM---DSDLHTLQEN-------TTEAELLSLIKDLNTDQ 88 (285)
T ss_pred HHHHHhcCCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3344433 777777766666543 3333343 3578999999 4555666541 13566777777766665
Q ss_pred CCCEEEecCCCCCCCCchHHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
+.|=|+.+-| ...|.|-..+
T Consensus 89 ~V~GIlvq~P--lP~~i~~~~i 108 (285)
T PRK14191 89 NIDGILVQLP--LPRHIDTKMV 108 (285)
T ss_pred CCCEEEEeCC--CCCCCCHHHH
Confidence 6676777733 3356665543
No 151
>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=37.48 E-value=1.7e+02 Score=24.65 Aligned_cols=69 Identities=19% Similarity=0.231 Sum_probs=43.0
Q ss_pred HHHHH-HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025219 57 SPTIN-YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 57 Ggtl~-~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (256)
|-.++ ++.++|++|.++.-.. +...+++.+.++..|. ++...|.. +.+.+.+.+.++.+
T Consensus 9 G~aia~~l~~~Ga~V~~~~~~~-------~~~~~~~~~l~~~~~~---~~~~~D~~----------~~~~v~~~~~~~~~ 68 (241)
T PF13561_consen 9 GRAIARALAEEGANVILTDRNE-------EKLADALEELAKEYGA---EVIQCDLS----------DEESVEALFDEAVE 68 (241)
T ss_dssp HHHHHHHHHHTTEEEEEEESSH-------HHHHHHHHHHHHHTTS---EEEESCTT----------SHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCEEEEEeCCh-------HHHHHHHHHHHHHcCC---ceEeecCc----------chHHHHHHHHHHHh
Confidence 43444 5568999876554322 3446677788888886 35555543 34556666777777
Q ss_pred hc--CCCEEEec
Q 025219 136 NC--SIDLIITF 145 (256)
Q Consensus 136 ~~--~Pd~V~t~ 145 (256)
++ ++|+++..
T Consensus 69 ~~~g~iD~lV~~ 80 (241)
T PF13561_consen 69 RFGGRIDILVNN 80 (241)
T ss_dssp HHCSSESEEEEE
T ss_pred hcCCCeEEEEec
Confidence 75 78987643
No 152
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.38 E-value=3.1e+02 Score=24.94 Aligned_cols=84 Identities=10% Similarity=0.001 Sum_probs=48.4
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 61 ~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+++.++ |....++++--|+.. ...-.|. ..++|+.+|+ +.....+|.. ...+++.+.|.++-.+-+
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---ASFEHKLPAD-------TSQAELLALIARLNADPA 90 (296)
T ss_pred HHHHHccCCCCeEEEEEeCCChhHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 344444 666777666666543 2233333 3578999999 4455555431 245667777777666656
Q ss_pred CCEEEecCCCCCCCCchHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (256)
.|=|+..-| ...|.|-..
T Consensus 91 V~GIlvq~P--lp~~~~~~~ 108 (296)
T PRK14188 91 IHGILVQLP--LPKHLDSEA 108 (296)
T ss_pred CcEEEEeCC--CCCCCCHHH
Confidence 667777743 335555444
No 153
>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=37.34 E-value=2.5e+02 Score=23.55 Aligned_cols=72 Identities=15% Similarity=0.053 Sum_probs=39.7
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCE
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDL 141 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~ 141 (256)
.+.+.|+. .+++++..........|.+-+.++++..|++... ... ..|+.++..+.+.+++++..||.
T Consensus 110 ~l~~~g~~-~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~--~~~---------~~~~~~~~~~~~~~~l~~~~~~a 177 (264)
T cd01574 110 HLLELGHR-TIAHVAGPEEWLSARARLAGWRAALEAAGIAPPP--VLE---------GDWSAESGYRAGRELLREGDPTA 177 (264)
T ss_pred HHHHCCCC-EEEEEecCCccchHHHHHHHHHHHHHHCCCCcce--eee---------cCCCHHHHHHHHHHHHhCCCCcE
Confidence 34456654 4555543332233456777788888777763211 111 01233444556667776655899
Q ss_pred EEec
Q 025219 142 IITF 145 (256)
Q Consensus 142 V~t~ 145 (256)
|++.
T Consensus 178 i~~~ 181 (264)
T cd01574 178 VFAA 181 (264)
T ss_pred EEEc
Confidence 9987
No 154
>PRK14182 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.24 E-value=3e+02 Score=24.98 Aligned_cols=85 Identities=13% Similarity=0.162 Sum_probs=49.9
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+..+.++|....+.++--|+.. ...-.|.+ .++|+.+|+ +.....+|.. -..+++.+.|.++-++-+
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 3445556776666666666543 33333443 578999999 4555566541 134567777766666656
Q ss_pred CCEEEecCCCCCCCCchHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (256)
.|=|+.+= +.-.|.|-..
T Consensus 89 V~GIivql--PLp~~i~~~~ 106 (282)
T PRK14182 89 VHGILVQL--PLPKHVDERA 106 (282)
T ss_pred CCEEEEeC--CCCCCCCHHH
Confidence 67787773 3335665443
No 155
>COG0303 MoeA Molybdopterin biosynthesis enzyme [Coenzyme metabolism]
Probab=37.10 E-value=3.2e+02 Score=26.09 Aligned_cols=91 Identities=21% Similarity=0.192 Sum_probs=59.3
Q ss_pred HHHHHHHhCCC-------cEEEEEEeCCCC----C---CchHHHH---HHHHHHHHHcCCCCCcEEEccC-CCCCCCccc
Q 025219 58 PTINYLTSRRH-------NLHILCMSNGNA----D---GMGNIRK---DELHRACAVLKIPLEQVKVLDL-VDFQDGFDK 119 (256)
Q Consensus 58 gtl~~l~~~G~-------~V~vv~lT~G~~----~---~~~~~R~---~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~ 119 (256)
..+..+++.|. +..+-++++|+. + ..++++. -=+.+.++.+|. +...++. +|
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---EVVDLGIVPD------- 227 (404)
T ss_pred HHHHHHHhCCCceEEEecCCEEEEEecCccccCCCCCCCCCeEEecCHHHHHHHHHHcCC---ceeeccccCC-------
Confidence 45677777774 355778888874 1 1133332 245677888898 4455553 22
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
+.+++.+.+++..++ .|+|+|. |+....|+-.+..+..+
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 356778888887775 8999997 66677777777676664
No 156
>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=37.07 E-value=2.6e+02 Score=23.64 Aligned_cols=100 Identities=13% Similarity=0.066 Sum_probs=53.8
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSI 139 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~P 139 (256)
.++.++|++ .+.+++..........|.+-.+++++..|.+....... +. .++.+...+.+.+++++ .+|
T Consensus 109 ~~L~~~G~~-~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~-~~--------~~~~~~~~~~~~~~l~~~~~~ 178 (269)
T cd06293 109 RHLARAGHR-RIAFVGGPDALISARERYAGYREALAEAHIPEVPEYVC-FG--------DYTREFGRAAAAQLLARGDPP 178 (269)
T ss_pred HHHHHCCCc-eEEEEecCcccccHHHHHHHHHHHHHHcCCCCChheEE-ec--------CCCHHHHHHHHHHHHcCCCCC
Confidence 355667875 34444322111234568888999999988742111111 10 12334445666777754 458
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcC---CCceeEEEe
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~---~~~~~~~e~ 180 (256)
|.|++.+. ..+..+..+++..+ ++++.+...
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 99998732 23445666665543 245555543
No 157
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=36.97 E-value=1.4e+02 Score=28.24 Aligned_cols=62 Identities=18% Similarity=0.150 Sum_probs=37.9
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 72 ILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
++++|+..-...+ --++..+.++..|+ .+.+.+... + -+..+.++.-.+.+++++||.|+..
T Consensus 32 ~liVTd~~~~~~g--~~~~v~~~L~~~~i---~~~if~~v~----p---~P~~~~v~~~~~~~~~~~~D~iIal 93 (377)
T COG1454 32 ALIVTDRGLAKLG--LLDKVLDSLDAAGI---EYEVFDEVE----P---EPTIETVEAGAEVAREFGPDTIIAL 93 (377)
T ss_pred eEEEECCccccch--hHHHHHHHHHhcCC---eEEEecCCC----C---CCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 4555665432222 33556667777776 344443211 1 1445667778888999999999998
No 158
>PRK01215 competence damage-inducible protein A; Provisional
Probab=36.84 E-value=2.6e+02 Score=24.95 Aligned_cols=62 Identities=16% Similarity=0.267 Sum_probs=37.1
Q ss_pred HHHHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 89 DELHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 89 ~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
.-+.+.++.+|+. +.... .+| +.+.+.+.|.+... +.|+|+|. |+-+-...-.+.+++.+++
T Consensus 26 ~~l~~~L~~~G~~---v~~~~~v~D---------d~~~I~~~l~~a~~--~~DlVItt---GG~g~t~dD~t~eaia~~~ 88 (264)
T PRK01215 26 SWIARRLTYLGYT---VRRITVVMD---------DIEEIVSAFREAID--RADVVVST---GGLGPTYDDKTNEGFAKAL 88 (264)
T ss_pred HHHHHHHHHCCCe---EEEEEEeCC---------CHHHHHHHHHHHhc--CCCEEEEe---CCCcCChhhhHHHHHHHHh
Confidence 3455667789983 33222 233 34667777877766 46999997 4444444445556666554
No 159
>PRK14497 putative molybdopterin biosynthesis protein MoeA/unknown domain fusion protein; Provisional
Probab=36.73 E-value=2.8e+02 Score=27.64 Aligned_cols=91 Identities=20% Similarity=0.260 Sum_probs=54.4
Q ss_pred HHHHHHHhCCCc-E------EEEEEeCCCC----CC---chHHHH---HHHHHHHHHcCCCCCcEEEccC-CCCCCCccc
Q 025219 58 PTINYLTSRRHN-L------HILCMSNGNA----DG---MGNIRK---DELHRACAVLKIPLEQVKVLDL-VDFQDGFDK 119 (256)
Q Consensus 58 gtl~~l~~~G~~-V------~vv~lT~G~~----~~---~~~~R~---~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~~ 119 (256)
..|..|+..|.. | .+.+++.|+. +. .++++. .-+.+.++.+|+ ++..++. +|
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 467778888853 4 5788888862 11 233332 234455778898 2333332 33
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
+.+.+.+.|.+.++ +.|+|+|. |+.+..++-.+.++..+
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 34567777777765 58999997 55555555555555554
No 160
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=36.70 E-value=3.2e+02 Score=25.77 Aligned_cols=79 Identities=14% Similarity=0.180 Sum_probs=47.8
Q ss_pred CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 67 RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 67 G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
|....++++--|+. +...-.|.+ .++|+.+|+ +.....+|+. ...+++.+.|.++=++-+.|=|+.+
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 66666666666654 333444544 489999999 4555566541 1346777777776555556668887
Q ss_pred CCCCCCCCchHHHH
Q 025219 146 DNYGVSGHCNHRDV 159 (256)
Q Consensus 146 d~~g~d~H~DH~~v 159 (256)
=| .-.|.|-..+
T Consensus 169 lP--LP~~id~~~i 180 (364)
T PLN02616 169 LP--LPSHMDEQNI 180 (364)
T ss_pred CC--CCCCCCHHHH
Confidence 43 3356665553
No 161
>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=36.67 E-value=2.6e+02 Score=23.52 Aligned_cols=74 Identities=11% Similarity=0.063 Sum_probs=40.2
Q ss_pred HHHhCCCcEEEEEEeCC-CCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCC
Q 025219 62 YLTSRRHNLHILCMSNG-NADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSI 139 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G-~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~P 139 (256)
.+.+.|++ .+.+++.. ........|.+.+.++++..|++.....+... .|+.+...+.+.+++++ .+|
T Consensus 110 ~l~~~g~~-~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~l~~~~~~ 179 (268)
T cd06273 110 HLIALGHR-RIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEA---------PYSIADGRAALRQLLEQPPRP 179 (268)
T ss_pred HHHHCCCC-eEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeC---------CCcHHHHHHHHHHHHcCCCCC
Confidence 45556765 33444322 12223567888889999888864322222211 12333444556666654 458
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
+.|++.
T Consensus 180 ~ai~~~ 185 (268)
T cd06273 180 TAVICG 185 (268)
T ss_pred CEEEEc
Confidence 999886
No 162
>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=36.55 E-value=2e+02 Score=25.22 Aligned_cols=21 Identities=5% Similarity=0.044 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhcCCCEEEecC
Q 025219 126 LAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d 146 (256)
....+.+.+++.+||+|+++.
T Consensus 66 ~~~~l~~~~~~~~~dii~~~~ 86 (355)
T cd03819 66 NVARLRRLIREEKVDIVHARS 86 (355)
T ss_pred HHHHHHHHHHHcCCCEEEECC
Confidence 345677888899999999874
No 163
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=36.40 E-value=3.3e+02 Score=24.73 Aligned_cols=91 Identities=13% Similarity=0.058 Sum_probs=54.0
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCC-CcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPL-EQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~-~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
....|.++|++= +.+++.+........|.+-..++++..|++. ......+ .+..+.-.+.+.+++...
T Consensus 166 a~~~L~~~G~~~-i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~----------~~~~~~g~~~~~~ll~~~ 234 (333)
T COG1609 166 ATEHLIELGHRR-IAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEG----------DFSEESGYEAAERLLARG 234 (333)
T ss_pred HHHHHHHCCCce-EEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEec----------CCChHHHHHHHHHHHhcC
Confidence 355677888762 3444444333456889999999999999953 1222111 112344455666666544
Q ss_pred C--CCEEEecCCCCCCCCchHHHHHHHHHHHHhhc
Q 025219 138 S--IDLIITFDNYGVSGHCNHRDVHHGIWSYLNGT 170 (256)
Q Consensus 138 ~--Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~ 170 (256)
. |+.||+.+. ..+..+..+++..
T Consensus 235 ~~~ptAif~~nD----------~~Alg~l~~~~~~ 259 (333)
T COG1609 235 EPRPTAIFCAND----------LMALGALRALREL 259 (333)
T ss_pred CCCCcEEEEcCc----------HHHHHHHHHHHHc
Confidence 3 899999842 3455566555543
No 164
>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=36.38 E-value=54 Score=27.26 Aligned_cols=26 Identities=15% Similarity=0.236 Sum_probs=22.3
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
++.++...+.+.+++.+||++++|+.
T Consensus 62 ~E~~lL~~f~~~i~~~dpdiivg~N~ 87 (199)
T cd05160 62 DEKELLKRFFDIIREYDPDILTGYNI 87 (199)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEecc
Confidence 45688889999999999999999954
No 165
>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=36.23 E-value=2.3e+02 Score=24.01 Aligned_cols=75 Identities=20% Similarity=0.142 Sum_probs=41.9
Q ss_pred HHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cC
Q 025219 60 INYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CS 138 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~ 138 (256)
...+.+.|++ .+++++..........|.+-..++++..|++...... +.+ .+ .+...+.+.+++++ ..
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 3456667876 3555544333334567888888999888873211111 110 01 23344566666654 35
Q ss_pred CCEEEec
Q 025219 139 IDLIITF 145 (256)
Q Consensus 139 Pd~V~t~ 145 (256)
||.|++.
T Consensus 177 ~~ai~~~ 183 (269)
T cd06281 177 PTAIIAG 183 (269)
T ss_pred CcEEEEc
Confidence 8999886
No 166
>PRK14168 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=35.95 E-value=3e+02 Score=25.15 Aligned_cols=84 Identities=11% Similarity=0.072 Sum_probs=50.1
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 61 ~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
..+.++ |....++.+--|+.. ...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-.+-+
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 AELKEKYGKVPGLVTILVGESPASLSYVTLK--IKTAHRLGF---HEIQDNQSVD-------ITEEELLALIDKYNNDDS 91 (297)
T ss_pred HHHHHcCCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCC
Confidence 344444 666666666666532 23333433 578999999 4555665541 245677777777766666
Q ss_pred CCEEEecCCCCCCCCchHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~ 158 (256)
.|=|+.+-| .-.|.|-..
T Consensus 92 V~GIivqlP--lP~~i~~~~ 109 (297)
T PRK14168 92 IHGILVQLP--LPKHINEKK 109 (297)
T ss_pred CCEEEEeCC--CCCCCCHHH
Confidence 677877743 335666444
No 167
>PTZ00346 histone deacetylase; Provisional
Probab=35.90 E-value=59 Score=31.31 Aligned_cols=27 Identities=19% Similarity=0.183 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhcCCCEEEecCCCCCCCCc
Q 025219 126 LAKIVEEEVVNCSIDLIITFDNYGVSGHC 154 (256)
Q Consensus 126 l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~ 154 (256)
+.+.|..++++++||+|+.. -|.|.|.
T Consensus 256 f~~ii~p~l~~F~PdlIvvs--aG~Da~~ 282 (429)
T PTZ00346 256 FEHALHSIVRRYSPDAIVLQ--CGADSLA 282 (429)
T ss_pred HHHHHHHHHHhcCCCEEEEE--CCccCCC
Confidence 34456678899999999987 6766664
No 168
>PRK06769 hypothetical protein; Validated
Probab=35.88 E-value=2.4e+02 Score=22.95 Aligned_cols=44 Identities=9% Similarity=0.110 Sum_probs=24.5
Q ss_pred chHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCC
Q 025219 55 FFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKI 100 (256)
Q Consensus 55 ~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv 100 (256)
|.-.+|.+|.++|.++.+ +||+.....+..+........+.+|+
T Consensus 32 gv~e~L~~Lk~~G~~l~I--~Tn~~~~~~~~~~~~~~~~~l~~~g~ 75 (173)
T PRK06769 32 FTKASLQKLKANHIKIFS--FTNQPGIADGIATIADFVQELKGFGF 75 (173)
T ss_pred CHHHHHHHHHHCCCEEEE--EECCchhcCCcCCHHHHHHHHHhCCc
Confidence 344578888888866544 46654322222222234444667888
No 169
>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=35.88 E-value=2.6e+02 Score=23.44 Aligned_cols=73 Identities=15% Similarity=0.198 Sum_probs=40.9
Q ss_pred HHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC-C
Q 025219 62 YLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS-I 139 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~-P 139 (256)
.+.++|++ .+++++.... ......|.+-..++++..|++.. ...... .++.++..+.+.+++++.+ |
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 44566765 3455543322 23456788888888888887321 111111 1222334566777776653 7
Q ss_pred CEEEec
Q 025219 140 DLIITF 145 (256)
Q Consensus 140 d~V~t~ 145 (256)
+.|++.
T Consensus 175 ~ai~~~ 180 (265)
T cd06291 175 DGIFAS 180 (265)
T ss_pred CEEEEC
Confidence 888885
No 170
>PTZ00063 histone deacetylase; Provisional
Probab=35.75 E-value=54 Score=31.64 Aligned_cols=26 Identities=12% Similarity=0.084 Sum_probs=19.7
Q ss_pred HHHHHHHHHhcCCCEEEecCCCCCCCCc
Q 025219 127 AKIVEEEVVNCSIDLIITFDNYGVSGHC 154 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d~H~ 154 (256)
...|..++++++||+|+.. -|.|.|.
T Consensus 239 ~~ii~~~i~~f~Pd~Ivvq--aG~D~~~ 264 (436)
T PTZ00063 239 KPVISKCVEVYRPGAIVLQ--CGADSLT 264 (436)
T ss_pred HHHHHHHHHHhCCCEEEEE--CCccccC
Confidence 3456678899999999987 6766664
No 171
>COG4221 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]
Probab=35.65 E-value=2.1e+02 Score=25.46 Aligned_cols=80 Identities=15% Similarity=0.154 Sum_probs=46.7
Q ss_pred CcEEEEecCchhhhcchHHHHH-HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025219 40 KNVLLVIAHPDDESMFFSPTIN-YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~-~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (256)
|-+|+-+|= =|.|-.++ ++.++|++|.++ ..|.+-+++.+..+|-.......+|..|
T Consensus 7 kv~lITGAS-----SGiG~A~A~~l~~~G~~vvl~-----------aRR~drL~~la~~~~~~~~~~~~~DVtD------ 64 (246)
T COG4221 7 KVALITGAS-----SGIGEATARALAEAGAKVVLA-----------ARREERLEALADEIGAGAALALALDVTD------ 64 (246)
T ss_pred cEEEEecCc-----chHHHHHHHHHHHCCCeEEEE-----------eccHHHHHHHHHhhccCceEEEeeccCC------
Confidence 345555553 45665555 556789977543 2344447778888883101234455433
Q ss_pred ccCChHHHHHHHHHHHHhcC-CCEEEec
Q 025219 119 KLWNHKSLAKIVEEEVVNCS-IDLIITF 145 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~-Pd~V~t~ 145 (256)
.+.+...+..+..++. .|+++-.
T Consensus 65 ----~~~~~~~i~~~~~~~g~iDiLvNN 88 (246)
T COG4221 65 ----RAAVEAAIEALPEEFGRIDILVNN 88 (246)
T ss_pred ----HHHHHHHHHHHHHhhCcccEEEec
Confidence 4566667777777776 7887654
No 172
>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=35.62 E-value=1.1e+02 Score=28.84 Aligned_cols=36 Identities=17% Similarity=0.108 Sum_probs=22.5
Q ss_pred cEEEEecCch----hhhcch----HH-------HHHHHHhCCC--cEEEEEEe
Q 025219 41 NVLLVIAHPD----DESMFF----SP-------TINYLTSRRH--NLHILCMS 76 (256)
Q Consensus 41 ~vLvv~aHPD----DE~l~~----Gg-------tl~~l~~~G~--~V~vv~lT 76 (256)
+++++++|-| +-.++. || +...|++.|+ +|.+++..
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~p~~GG~~~~v~~La~~L~~~G~~~~V~v~t~~ 54 (439)
T TIGR02472 2 YLLLLSLHGLIRGHDLELGRDADTGGQTKYVLELARALARRSEVEQVDLVTRL 54 (439)
T ss_pred eEEEEeCCcCCCCCccccCCCCCCCCcchHHHHHHHHHHhCCCCcEEEEEecc
Confidence 5789999984 434443 32 2345557886 78777753
No 173
>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=35.58 E-value=45 Score=21.59 Aligned_cols=15 Identities=20% Similarity=0.437 Sum_probs=8.5
Q ss_pred cccccc-CCCCCcEEE
Q 025219 30 NAAFLT-TGDKKNVLL 44 (256)
Q Consensus 30 ~~~~~~-~~~~~~vLv 44 (256)
+.||.+ .+...|+|.
T Consensus 27 ~GQfdD~e~~a~riL~ 42 (45)
T PF03597_consen 27 SGQFDDLEGPAHRILF 42 (45)
T ss_pred cCCCCCCcchHhhhhc
Confidence 667766 344556653
No 174
>PRK14180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=35.33 E-value=3.4e+02 Score=24.57 Aligned_cols=86 Identities=16% Similarity=0.280 Sum_probs=50.5
Q ss_pred HHHHHhC-CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
+.++.++ |....++.+--|+. ....-.|. ..++|+.+|+ ++....+|.. ...+++.+.|.++-++-
T Consensus 21 v~~~~~~~g~~P~La~I~vg~d~as~~Yv~~--k~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~ 88 (282)
T PRK14180 21 VQEYKHHTAITPKLVAIIVGNDPASKTYVAS--KEKACAQVGI---DSQVITLPEH-------TTESELLELIDQLNNDS 88 (282)
T ss_pred HHHHHhccCCCCeEEEEEeCCCHHHHHHHHH--HHHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 66666666666643 22333333 3478999999 4555565542 13567777777776666
Q ss_pred CCCEEEecCCCCCCCCchHHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
+.|=|+..-| ...|.|-..+
T Consensus 89 ~V~GIivq~P--lP~~i~~~~i 108 (282)
T PRK14180 89 SVHAILVQLP--LPAHINKNNV 108 (282)
T ss_pred CCCeEEEcCC--CCCCCCHHHH
Confidence 6677888733 3356665443
No 175
>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=35.15 E-value=2.2e+02 Score=25.09 Aligned_cols=93 Identities=15% Similarity=0.178 Sum_probs=53.6
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
....|.++|++=-+.+++..........|.+-.++|++..|++.....+..- + ++.+.-.+.+.+++++.
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 4456778897530244433322234567888899999999995433322221 1 12344455666677665
Q ss_pred CC--EEEecCCCCCCCCchHHHHHHHHHHHHhhcC
Q 025219 139 ID--LIITFDNYGVSGHCNHRDVHHGIWSYLNGTS 171 (256)
Q Consensus 139 Pd--~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~ 171 (256)
|+ .|++.+ | ..+..+..+++..+
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 898873 1 34455666665543
No 176
>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=34.85 E-value=2.5e+02 Score=22.81 Aligned_cols=84 Identities=20% Similarity=0.234 Sum_probs=44.0
Q ss_pred HHHHHhCCCcEEEEEEeCCCCC-----CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHH
Q 025219 60 INYLTSRRHNLHILCMSNGNAD-----GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~~~-----~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i 134 (256)
+.+..+.-.+|.++..++.... -..+.|.+-++.+++-..- -.+..++.+|... ....| ++-...+...+
T Consensus 19 i~~a~~~~d~v~vi~~~~~~~~~~~~~~~~~~R~~mi~~a~~~~~~--~~v~~~~~~d~~~-~~~~w--~~w~~~v~~~v 93 (158)
T cd02167 19 IYKALSQVDELLIIVGSDDTRDDARTGLPLEKRLRWLREIFPDQEN--IVVHTLNEPDIPE-YPNGW--DIWSNRVKTLI 93 (158)
T ss_pred HHHHHHHCCEEEEEECCCCcccccCCCCCHHHHHHHHHHHhcCCCC--EEEEeCCCCCCCC-CchhH--HHHHHHHHHHH
Confidence 4444455567777765544321 1356677777777654211 2344555555431 11234 22344455555
Q ss_pred Hh---cCCCEEEecCCC
Q 025219 135 VN---CSIDLIITFDNY 148 (256)
Q Consensus 135 ~~---~~Pd~V~t~d~~ 148 (256)
.+ .++|+||+-++.
T Consensus 94 ~~~~~~~~~~vf~~~~~ 110 (158)
T cd02167 94 AENTRCRPDIVFTAEEY 110 (158)
T ss_pred hhhcCCCCCEEEEccCc
Confidence 54 389999987544
No 177
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=34.83 E-value=4e+02 Score=25.14 Aligned_cols=90 Identities=13% Similarity=0.122 Sum_probs=53.6
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCC---------chHHHH-------HHHHHHHHHcCCCCCcEEEccCCCCCCCccccCC
Q 025219 59 TINYLTSRRHNLHILCMSNGNADG---------MGNIRK-------DELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWN 122 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~---------~~~~R~-------~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~ 122 (256)
.|....+.+.+|..|++-+.+.-+ .+..|. +|+.+.++.+|+ .+.++. | +
T Consensus 18 aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~---~L~v~~------G-----~ 83 (429)
T TIGR02765 18 ALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGS---DLLVRS------G-----K 83 (429)
T ss_pred HHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCC---CeEEEe------C-----C
Confidence 455555666678777777643211 233333 677888888898 344431 1 1
Q ss_pred hHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 123 HKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 123 ~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
. .+.|.+++++.+.+.|++.. +.-++.+.--+.+.+++..
T Consensus 84 ~---~~vl~~L~~~~~~~~V~~~~----~~~~~~~~rd~~v~~~l~~ 123 (429)
T TIGR02765 84 P---EDVLPELIKELGVRTVFLHQ----EVGSEEKSVERLLQQALAR 123 (429)
T ss_pred H---HHHHHHHHHHhCCCEEEEec----cCCHHHHHHHHHHHHHHHh
Confidence 1 34566777888999998873 3445555555566665543
No 178
>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=34.81 E-value=61 Score=27.19 Aligned_cols=28 Identities=11% Similarity=0.298 Sum_probs=23.0
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCCCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
++.++.....+++++.+||+|++++-.+
T Consensus 47 ~E~~lL~~F~~~i~~~dPd~i~gyN~~~ 74 (188)
T cd05781 47 DDRKIIREFVKYVKEYDPDIIVGYNSNA 74 (188)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEecCCCc
Confidence 4568889999999999999999984333
No 179
>COG1087 GalE UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]
Probab=34.75 E-value=1e+02 Score=28.42 Aligned_cols=59 Identities=24% Similarity=0.340 Sum_probs=37.9
Q ss_pred HHHHHHhCCCcEEEE-EEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 59 TINYLTSRRHNLHIL-CMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 59 tl~~l~~~G~~V~vv-~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
|...|.++|++|.++ .|++|... .+.+.| + ..+..|..| .+.|.+++++.
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 567888999997766 56777432 222222 2 344454433 24578889999
Q ss_pred CCCEEEecC
Q 025219 138 SIDLIITFD 146 (256)
Q Consensus 138 ~Pd~V~t~d 146 (256)
+||.|+=|.
T Consensus 67 ~idaViHFA 75 (329)
T COG1087 67 KIDAVVHFA 75 (329)
T ss_pred CCCEEEECc
Confidence 999998774
No 180
>COG1015 DeoB Phosphopentomutase [Carbohydrate transport and metabolism]
Probab=34.64 E-value=2.2e+02 Score=27.05 Aligned_cols=99 Identities=19% Similarity=0.255 Sum_probs=52.4
Q ss_pred HHHHHHhCCCcEEEEEEe----CCCC--CCc-hHHHHHHHHHHHHHcCCCC-CcEEEccCCCCCCCccccCC-------h
Q 025219 59 TINYLTSRRHNLHILCMS----NGNA--DGM-GNIRKDELHRACAVLKIPL-EQVKVLDLVDFQDGFDKLWN-------H 123 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT----~G~~--~~~-~~~R~~E~~~A~~~LGv~~-~~~~~l~~~d~~dg~~~~~~-------~ 123 (256)
.+.+|.++|.+|+.|==. +|.+ ... ..--..-+....+.+.-.. ..+.|.|+-|+...++..-+ .
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 477889999987655221 1211 000 0001122334444444222 34778887765211111111 2
Q ss_pred HHHHHHHHHHHHhcCCC--EEEecCCCCCC---CCchHHH
Q 025219 124 KSLAKIVEEEVVNCSID--LIITFDNYGVS---GHCNHRD 158 (256)
Q Consensus 124 ~~l~~~l~~~i~~~~Pd--~V~t~d~~g~d---~H~DH~~ 158 (256)
++.=++|.++++..++| +|+|-| +|.| +|.||..
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 44556788999999985 366666 7765 6888853
No 181
>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=34.57 E-value=60 Score=27.48 Aligned_cols=28 Identities=21% Similarity=0.224 Sum_probs=23.2
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCCCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
++.++.....+.+++.+||+|+.|+-.+
T Consensus 50 ~E~~lL~~f~~~i~~~dPDvi~g~N~~~ 77 (193)
T cd05784 50 DEKSLLLALIAWFAQYDPDIIIGWNVIN 77 (193)
T ss_pred CHHHHHHHHHHHHHhhCCCEEEECCCcC
Confidence 4568888999999999999999995433
No 182
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=34.46 E-value=3.6e+02 Score=24.63 Aligned_cols=78 Identities=19% Similarity=0.184 Sum_probs=46.8
Q ss_pred CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 67 RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 67 G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
|....++++--|+. +...-.|.+ .++|+.+|+ +.....+|.. .+.+++.+.|.++-.+-+.+=|+.+
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 GKVPGLAVVIVGSRKDSQTYVNMK--RKACAEVGI---KSFDVDLPEN-------ISEAELISKVHELNANPDVHGILVQ 104 (299)
T ss_pred CCCCeEEEEEECCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCCCeEEEe
Confidence 66666666655543 333444443 478999999 4555665531 2456777777777666566667777
Q ss_pred CCCCCCCCchHHH
Q 025219 146 DNYGVSGHCNHRD 158 (256)
Q Consensus 146 d~~g~d~H~DH~~ 158 (256)
-| .-.|.|-..
T Consensus 105 ~P--lP~~id~~~ 115 (299)
T PLN02516 105 LP--LPKHINEEK 115 (299)
T ss_pred cC--CCCCcCHHH
Confidence 33 335655444
No 183
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.44 E-value=3.6e+02 Score=24.52 Aligned_cols=86 Identities=14% Similarity=0.151 Sum_probs=50.3
Q ss_pred HHHHHhC-CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
+.++.++ |....+.++--|+. ....-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-++-
T Consensus 28 i~~l~~~~g~~P~Laii~vg~d~aS~~Yv~~k--~k~~~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~LN~D~ 95 (287)
T PRK14176 28 VERLKSNRGITPGLATILVGDDPASKMYVRLK--HKACERVGI---RAEDQFLPAD-------TTQEELLELIDSLNKRK 95 (287)
T ss_pred HHHHHhccCCCCeEEEEEECCCcchHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3344444 66666655555543 333344443 478999999 4555666541 24567777777776666
Q ss_pred CCCEEEecCCCCCCCCchHHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
+.|=|+.+-| .-.|.|-..+
T Consensus 96 ~V~GIlvqlP--LP~~i~~~~i 115 (287)
T PRK14176 96 DVHGILLQLP--LPKHLDPQEA 115 (287)
T ss_pred CCCeEEEcCC--CCCCCCHHHH
Confidence 6677888743 3345555443
No 184
>COG2893 ManX Phosphotransferase system, mannose/fructose-specific component IIA [Carbohydrate transport and metabolism]
Probab=34.39 E-value=2.4e+02 Score=22.76 Aligned_cols=68 Identities=18% Similarity=0.256 Sum_probs=45.2
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEecCC
Q 025219 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDN 147 (256)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~ 147 (256)
+.++..|-| ...+|++++++.+=-+.+|+..+++....+ ..+.+.+.+.++++.... .++|..|-
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 356777887 466888888877533668898888754211 234566777777776543 57777887
Q ss_pred CCC
Q 025219 148 YGV 150 (256)
Q Consensus 148 ~g~ 150 (256)
+|+
T Consensus 69 ~GG 71 (143)
T COG2893 69 FGG 71 (143)
T ss_pred CCC
Confidence 774
No 185
>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=34.30 E-value=1e+02 Score=22.68 Aligned_cols=77 Identities=19% Similarity=0.103 Sum_probs=41.0
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccC-CCCCCCc-cccCChHHHHHHHHHHHHhcCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDL-VDFQDGF-DKLWNHKSLAKIVEEEVVNCSI 139 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~-~~~~~~~~l~~~l~~~i~~~~P 139 (256)
...+.+.+| ++-.-+|.++ .=+.+.++.||+ ++..++. +|..-+. ...-+.++..+.+.+.+++.+.
T Consensus 16 ~~~~~~~ki-vvD~~~G~~~-------~~~~~ll~~lg~---~~~~~n~~~d~~f~~~~~p~p~~~~l~~~~~~v~~~~a 84 (104)
T PF02879_consen 16 AIKKSGLKI-VVDCMNGAGS-------DILPRLLERLGC---DVIELNCDPDPDFPNQHAPNPEEESLQRLIKIVRESGA 84 (104)
T ss_dssp HHHHTTCEE-EEE-TTSTTH-------HHHHHHHHHTTC---EEEEESSS-STTGTTTSTSSTSTTTTHHHHHHHHHSTT
T ss_pred hcccCCCEE-EEECCCCHHH-------HHHHHHHHHcCC---cEEEEecccccccccccccccccchhHHHHHHhhccCc
Confidence 344555554 3334455432 223456788998 3444443 4421110 1111222456778888899999
Q ss_pred CEEEecCCCC
Q 025219 140 DLIITFDNYG 149 (256)
Q Consensus 140 d~V~t~d~~g 149 (256)
|..+.+|+.+
T Consensus 85 d~g~~~DgDa 94 (104)
T PF02879_consen 85 DLGIAFDGDA 94 (104)
T ss_dssp SEEEEE-TTS
T ss_pred eEEEEECCcC
Confidence 9999998654
No 186
>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=33.99 E-value=57 Score=28.34 Aligned_cols=30 Identities=17% Similarity=0.295 Sum_probs=24.5
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCCCCCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDNYGVS 151 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d 151 (256)
++.++...+.+.|++..||+|+.|+-.|.|
T Consensus 81 ~E~~LL~~f~~~i~~~DPDiivG~Ni~~fd 110 (234)
T cd05776 81 NERALLNFFLAKLQKIDPDVLVGHDLEGFD 110 (234)
T ss_pred CHHHHHHHHHHHHhhcCCCEEEeeccCCCC
Confidence 356888899999999999999999765543
No 187
>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=33.98 E-value=1.5e+02 Score=24.95 Aligned_cols=95 Identities=14% Similarity=0.189 Sum_probs=51.7
Q ss_pred CcEEEEecCchh-hhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCC------cEEEccCC
Q 025219 40 KNVLLVIAHPDD-ESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLE------QVKVLDLV 111 (256)
Q Consensus 40 ~~vLvv~aHPDD-E~l~~Ggtl~~l~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~------~~~~l~~~ 111 (256)
.++.+|..-|.= =+.+|--.+...+++ |..|..+++... .+++.+-++.+|.+.+ ++.+.+..
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~---------~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~ 89 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEP---------PEELIENMKSFGWDLEEYEDSGKLKIIDAF 89 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS----------HHHHHHHHHTTTS-HHHHHHTTSEEEEESS
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCC---------HHHHHHHHHHcCCcHHHHhhcCCEEEEecc
Confidence 345555555432 222233333344456 888766665332 3667777778887432 35566543
Q ss_pred CCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 112 DFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 112 d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
....+.. .-+.+.+...|.+.+++.+|+.|+.
T Consensus 90 ~~~~~~~-~~~~~~l~~~i~~~i~~~~~~~vVI 121 (226)
T PF06745_consen 90 PERIGWS-PNDLEELLSKIREAIEELKPDRVVI 121 (226)
T ss_dssp GGGST-T-SCCHHHHHHHHHHHHHHHTSSEEEE
T ss_pred ccccccc-ccCHHHHHHHHHHHHHhcCCCEEEE
Confidence 3211100 1256788899999999999988764
No 188
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=33.81 E-value=3e+02 Score=25.31 Aligned_cols=65 Identities=18% Similarity=0.297 Sum_probs=32.4
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC--CEEEecCCC
Q 025219 71 HILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI--DLIITFDNY 148 (256)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P--d~V~t~d~~ 148 (256)
.++.+|.|. =.+++.++++.+--+.+++..+++.... +.+++.+.+.+.+++.+. .+++..|-.
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 455556652 2345555655542233556666653311 334555666666665532 245555544
Q ss_pred C
Q 025219 149 G 149 (256)
Q Consensus 149 g 149 (256)
|
T Consensus 70 G 70 (322)
T PRK15088 70 G 70 (322)
T ss_pred C
Confidence 4
No 189
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and 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=33.69 E-value=2.8e+02 Score=23.13 Aligned_cols=75 Identities=15% Similarity=0.111 Sum_probs=40.9
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
.+.+.|+. .+++++..........|.+.+.++++..|++.... ..... .++.++..+.+.+++++. .||
T Consensus 109 ~l~~~g~~-~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~-~~~~~--------~~~~~~~~~~~~~~l~~~~~~~ 178 (267)
T cd06284 109 HLISLGHR-RIALITGPRDNPLARDRLEGYRQALAEAGLPADEE-LIQEG--------DFSLESGYAAARRLLALPDRPT 178 (267)
T ss_pred HHHHcCCc-eEEEEcCCccchhHHHHHHHHHHHHHHcCCCCCcc-eEEeC--------CCChHHHHHHHHHHHhCCCCCc
Confidence 34456654 34444432222345678888889988888632111 11111 123344455666777554 578
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
.|++.+
T Consensus 179 ai~~~~ 184 (267)
T cd06284 179 AIFCFS 184 (267)
T ss_pred EEEEcC
Confidence 898873
No 190
>TIGR00355 purH phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase. Involved in purine ribonucleotide biosynthesis. The IMP cyclohydrolase activity is in the N-terminal region.
Probab=33.54 E-value=98 Score=30.46 Aligned_cols=62 Identities=18% Similarity=0.120 Sum_probs=44.5
Q ss_pred hhcchHHHHHHHHhCCCcEEEEEEeCCCCC---------------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 52 ESMFFSPTINYLTSRRHNLHILCMSNGNAD---------------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 52 E~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~---------------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
+.+.-|||-..|.+.|.+|..|.=-+|-++ |+-..|..|..+.++..|+.+-++.+.|+-.+
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 456779999999999998877766556542 33344544448889999998888888886444
No 191
>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=33.51 E-value=2.7e+02 Score=22.90 Aligned_cols=84 Identities=14% Similarity=0.106 Sum_probs=45.7
Q ss_pred hhhhcchHHHH-HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHH
Q 025219 50 DDESMFFSPTI-NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAK 128 (256)
Q Consensus 50 DDE~l~~Ggtl-~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~ 128 (256)
|++. +|.++ ..+.++|++ .+++++..........|.+.++++++..|.+........ ..|+.+....
T Consensus 99 d~~~--~g~~~~~~l~~~g~~-~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~ 166 (264)
T cd06267 99 DNRA--GAYLAVEHLIELGHR-RIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVE---------GDFSEESGYE 166 (264)
T ss_pred ccHH--HHHHHHHHHHHCCCc-eEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEe---------cccchhhHHH
Confidence 4443 34444 344456654 344444333334567788888888888875222111111 1123345566
Q ss_pred HHHHHHHhcC-CCEEEec
Q 025219 129 IVEEEVVNCS-IDLIITF 145 (256)
Q Consensus 129 ~l~~~i~~~~-Pd~V~t~ 145 (256)
.+.+++++.. ||.|++.
T Consensus 167 ~~~~~l~~~~~~~~i~~~ 184 (264)
T cd06267 167 AARELLASGERPTAIFAA 184 (264)
T ss_pred HHHHHHhcCCCCcEEEEc
Confidence 6777776653 8888876
No 192
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=33.22 E-value=2.9e+02 Score=24.39 Aligned_cols=17 Identities=12% Similarity=0.065 Sum_probs=11.0
Q ss_pred HHHHHHHhcCCCEEEec
Q 025219 129 IVEEEVVNCSIDLIITF 145 (256)
Q Consensus 129 ~l~~~i~~~~Pd~V~t~ 145 (256)
.+.+++++.+||+|+.-
T Consensus 71 ~~~~~l~~~~~d~vV~D 87 (279)
T TIGR03590 71 ELINLLEEEKFDILIVD 87 (279)
T ss_pred HHHHHHHhcCCCEEEEc
Confidence 46666666777776653
No 193
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=32.96 E-value=2.9e+02 Score=27.68 Aligned_cols=92 Identities=15% Similarity=0.101 Sum_probs=53.8
Q ss_pred HHHHHHHHhCCC-------cEEEEEEeCCCC----C---CchHHH---HHHHHHHHHHcCCCCCcEEEcc-CCCCCCCcc
Q 025219 57 SPTINYLTSRRH-------NLHILCMSNGNA----D---GMGNIR---KDELHRACAVLKIPLEQVKVLD-LVDFQDGFD 118 (256)
Q Consensus 57 Ggtl~~l~~~G~-------~V~vv~lT~G~~----~---~~~~~R---~~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~ 118 (256)
.+.|..|+..|. +..+.+++.|+. + ..++++ ..=+.+.++.+|+ ++...+ .+|
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 356778888884 235667777753 1 112222 2234556778898 343333 233
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
+.+.+.+.|.+.++ +.|+|+|. |+.+..++-.+.+++..
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 79999997 55555555555555543
No 194
>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=32.89 E-value=1.3e+02 Score=26.46 Aligned_cols=36 Identities=11% Similarity=-0.065 Sum_probs=20.9
Q ss_pred CcEEEEecCchhhhcchHH-----HHHHHHhCCCcEEEEEEeCC
Q 025219 40 KNVLLVIAHPDDESMFFSP-----TINYLTSRRHNLHILCMSNG 78 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Gg-----tl~~l~~~G~~V~vv~lT~G 78 (256)
++||++...+ ..|..+ +...+.+.|++|.+++.+..
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 3678876542 111111 23344568999999987654
No 195
>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=32.87 E-value=1.6e+02 Score=22.93 Aligned_cols=60 Identities=22% Similarity=0.246 Sum_probs=35.1
Q ss_pred HHHHHHHcCCCCCcEEEcc-CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 91 LHRACAVLKIPLEQVKVLD-LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
+.+.++.+|.. +.... .+| +.+++.+.+.+.++ +.|+|+|. |+.+....-.+.+++.++.
T Consensus 23 l~~~l~~~G~~---~~~~~~v~D---------d~~~I~~~l~~~~~--~~dliitt---GG~g~g~~D~t~~~l~~~~ 83 (135)
T smart00852 23 LAELLTELGIE---VTRYVIVPD---------DKEAIKEALREALE--RADLVITT---GGTGPGPDDVTPEAVAEAL 83 (135)
T ss_pred HHHHHHHCCCe---EEEEEEeCC---------CHHHHHHHHHHHHh--CCCEEEEc---CCCCCCCCcCcHHHHHHHh
Confidence 45567778883 32222 223 34677788888776 58999997 4344444444455555543
No 196
>COG2957 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]
Probab=32.44 E-value=3e+02 Score=25.57 Aligned_cols=79 Identities=13% Similarity=0.052 Sum_probs=47.6
Q ss_pred HHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH---h
Q 025219 92 HRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL---N 168 (256)
Q Consensus 92 ~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~---~ 168 (256)
..-++.||+ +++.+|++-=..|.. +.=++.|++++ .|+.|.+. +..|-.--|-+...+..+-+ +
T Consensus 189 ~~L~e~Lg~--kkvlWL~~Gl~~D~T------DgHiDtlarFv---~p~~iv~~--~~dde~Dp~y~~~q~~~~~L~~~~ 255 (346)
T COG2957 189 NKLKEYLGA--KKVLWLEYGLKNDDT------DGHIDTLARFV---APGEIVLS--WCDDENDPHYAALQAMLEELKELR 255 (346)
T ss_pred HHHHHHhCc--cEEEEccCCCcCCcc------cchhhhhhhhc---CCCeEEEE--ecCCCCChhHHHHHHHHHHHHhcc
Confidence 345788999 889999875222222 22245555555 69988887 55554444555555554443 3
Q ss_pred hcCCCceeEEEecch
Q 025219 169 GTSERNIEAWELMTT 183 (256)
Q Consensus 169 ~~~~~~~~~~e~~s~ 183 (256)
........+++++.+
T Consensus 256 d~~G~~~~l~~Lp~P 270 (346)
T COG2957 256 DAKGRPLKLHKLPIP 270 (346)
T ss_pred ccCCCeeEEEEcCCC
Confidence 445566777777654
No 197
>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=32.28 E-value=69 Score=26.82 Aligned_cols=26 Identities=27% Similarity=0.298 Sum_probs=22.2
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
++.++.....+.|++.+||++++++-
T Consensus 55 ~E~~lL~~F~~~i~~~dpdiivgyN~ 80 (195)
T cd05780 55 TEKEMIKRFIEIVKEKDPDVIYTYNG 80 (195)
T ss_pred CHHHHHHHHHHHHHHcCCCEEEecCC
Confidence 45688889999999999999999953
No 198
>PLN00142 sucrose synthase
Probab=32.08 E-value=46 Score=34.67 Aligned_cols=44 Identities=11% Similarity=0.071 Sum_probs=27.7
Q ss_pred CCCCCcEEEEecCch---hhhcch---HHHH---------------HHHHhCCCcE--EEEEEeCCC
Q 025219 36 TGDKKNVLLVIAHPD---DESMFF---SPTI---------------NYLTSRRHNL--HILCMSNGN 79 (256)
Q Consensus 36 ~~~~~~vLvv~aHPD---DE~l~~---Ggtl---------------~~l~~~G~~V--~vv~lT~G~ 79 (256)
.+.-.+|++|++|-. ..++|. ||-. .+++++|++| .|.++|+-.
T Consensus 276 ~p~~~~i~~iS~Hg~~~~~~~lG~~DtGGQ~vYVl~~aral~~el~~~l~~~G~~v~~~v~i~TR~i 342 (815)
T PLN00142 276 IPMVFNVVIFSPHGYFGQANVLGLPDTGGQVVYILDQVRALENEMLLRIKQQGLDIKPQILIVTRLI 342 (815)
T ss_pred hhHhHhhheecccccccccccCCCCCCCCceehHHHHHHHHHHHHHHHHHhcCCCccceeEEEEecc
Confidence 355568999999974 335773 3322 3455678876 466777643
No 199
>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=31.96 E-value=3.9e+02 Score=24.75 Aligned_cols=75 Identities=12% Similarity=0.081 Sum_probs=48.4
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC--CCCc--cccCChHHHHHHHHHHH
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF--QDGF--DKLWNHKSLAKIVEEEV 134 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~--~dg~--~~~~~~~~l~~~l~~~i 134 (256)
|+=++++.|... +.+--+-.|..+-+..+|+ ..+...+.|+. .|.. .+.|+.+.++.+-.+.|
T Consensus 24 I~PlFV~eg~~~~~~I~smPG~~r~s~d~l~~~~~~~~~~Gi--~~v~LFgv~~~~~Kd~~~gs~a~~~~g~v~~air~i 101 (320)
T cd04824 24 IYPIFITDNPDAKQPIDSLPGINRYGVNRLEEFLRPLVAKGL--RSVILFGVPLKPGKDDRSGSAADDEDGPVIQAIKLI 101 (320)
T ss_pred eeeEEEecCCCCccccCCCCCceeeCHHHHHHHHHHHHHCCC--CEEEEeCCCccccCCcCccccccCCCChHHHHHHHH
Confidence 666777777542 2344455566666777999 56777887743 3322 23467777777777777
Q ss_pred HhcCCCEEEecC
Q 025219 135 VNCSIDLIITFD 146 (256)
Q Consensus 135 ~~~~Pd~V~t~d 146 (256)
++.-||+++..|
T Consensus 102 K~~~pdl~vi~D 113 (320)
T cd04824 102 REEFPELLIACD 113 (320)
T ss_pred HHhCCCcEEEEe
Confidence 777799876554
No 200
>PRK03673 hypothetical protein; Provisional
Probab=31.71 E-value=3e+02 Score=26.21 Aligned_cols=65 Identities=15% Similarity=0.049 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHcCCCCCcEEE-ccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 87 RKDELHRACAVLKIPLEQVKV-LDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 87 R~~E~~~A~~~LGv~~~~~~~-l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
-..-+.+.+..+|+ ++.. .-.+| +.+.+.+.+.+..+ +.|+|+|. |+-|..+.-.+.+++-+
T Consensus 22 N~~~la~~L~~~G~---~v~~~~~v~D---------~~~~i~~~l~~a~~--~~DlVI~t---GGlGpt~dD~t~~avA~ 84 (396)
T PRK03673 22 NAAWLADFFFHQGL---PLSRRNTVGD---------NLDALVAILRERSQ--HADVLIVN---GGLGPTSDDLSALAAAT 84 (396)
T ss_pred HHHHHHHHHHHCCC---EEEEEEEcCC---------CHHHHHHHHHHHhc--cCCEEEEc---CCCCCCCcccHHHHHHH
Confidence 34556667888998 3332 22333 34677777777655 57999997 44455555556677766
Q ss_pred HHh
Q 025219 166 YLN 168 (256)
Q Consensus 166 a~~ 168 (256)
++.
T Consensus 85 a~g 87 (396)
T PRK03673 85 AAG 87 (396)
T ss_pred HcC
Confidence 653
No 201
>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=31.19 E-value=5.9e+02 Score=26.03 Aligned_cols=58 Identities=16% Similarity=0.309 Sum_probs=35.2
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCC---cEEEEEEeCCCCCCc----------hHHHHHHHHHHHHHcCC
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSRRH---NLHILCMSNGNADGM----------GNIRKDELHRACAVLKI 100 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~G~---~V~vv~lT~G~~~~~----------~~~R~~E~~~A~~~LGv 100 (256)
-++|.+|=.|+.+ ...|+..+.+..+ ++.++++.||+.++. ...|+.|.++.|+.+|+
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 2346666655432 477888888876542 11256788888888887
No 202
>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=31.09 E-value=1.9e+02 Score=23.10 Aligned_cols=64 Identities=17% Similarity=0.085 Sum_probs=40.3
Q ss_pred HHHHHH-HHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHH
Q 025219 85 NIRKDE-LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGI 163 (256)
Q Consensus 85 ~~R~~E-~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av 163 (256)
..|.+- +..|+..||. ++..++-.+.+ +.. .|-.+...+.+..+ .|+|+.- |++|..+.+.+
T Consensus 50 StRTR~SFe~A~~~LGg---~~i~~~~~~s~--~~k----~Esl~Dtar~ls~~-~D~iv~R-------~~~~~~~~~~a 112 (142)
T PF02729_consen 50 STRTRLSFEAAANRLGG---HVIYLDPSTSS--LGK----GESLEDTARVLSRY-VDAIVIR-------HPSHGALEELA 112 (142)
T ss_dssp -HHHHHHHHHHHHHTTC---EEEEEETTTSS--TTT----SSEHHHHHHHHHHH-CSEEEEE-------ESSHHHHHHHH
T ss_pred CchhhhhHHHhhhccee---EEEEECccccc--CcC----CCCHHHHHHHHHHh-hheEEEE-------eccchHHHHHH
Confidence 356655 5677899998 67777743332 211 22244555667777 9998875 77787776665
Q ss_pred HH
Q 025219 164 WS 165 (256)
Q Consensus 164 ~~ 165 (256)
..
T Consensus 113 ~~ 114 (142)
T PF02729_consen 113 EH 114 (142)
T ss_dssp HH
T ss_pred Hh
Confidence 54
No 203
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=30.91 E-value=4.1e+02 Score=24.15 Aligned_cols=85 Identities=12% Similarity=0.154 Sum_probs=49.2
Q ss_pred HHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 61 NYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 61 ~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+++.++ |....+.++--|+.. ...-.|.+ .++|+.+|+ +.....+|.. .+.+++.+.|.++-.+-+
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 QELKSQTNASPKLAIVLVGDNPASIIYVKNK--IKNAHKIGI---DTLLVNLSTT-------IHTNDLISKINELNLDNE 90 (288)
T ss_pred HHHHhccCCCCeEEEEEeCCCccHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHcCCCC
Confidence 344444 766666666555433 23333433 578999999 4555666541 245667777777666556
Q ss_pred CCEEEecCCCCCCCCchHHHH
Q 025219 139 IDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v 159 (256)
.|=|+.+-| .-.|.|-..+
T Consensus 91 V~GIlvqlP--LP~~id~~~i 109 (288)
T PRK14171 91 ISGIIVQLP--LPSSIDKNKI 109 (288)
T ss_pred CCEEEEeCC--CCCCCCHHHH
Confidence 666777733 3356665443
No 204
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.69 E-value=62 Score=30.10 Aligned_cols=25 Identities=28% Similarity=0.299 Sum_probs=19.2
Q ss_pred HHHHHHHHhcCCCEEEecCCCCCCCCc
Q 025219 128 KIVEEEVVNCSIDLIITFDNYGVSGHC 154 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~g~d~H~ 154 (256)
..+..++++++||+|+.. .|.|.|.
T Consensus 229 ~~v~~~~~~f~Pdlvivs--aG~D~h~ 253 (340)
T COG0123 229 EIVLPLLEEFKPDLVIVS--AGFDAHR 253 (340)
T ss_pred HHHHHHHHhcCCCEEEEe--cCcccCC
Confidence 336778999999999987 6666553
No 205
>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=30.63 E-value=3.3e+02 Score=23.39 Aligned_cols=54 Identities=11% Similarity=0.089 Sum_probs=35.3
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCC-----CchHHHHHHHHHHHHHcCCCCCcEEEccCCC
Q 025219 59 TINYLTSRRHNLHILCMSNGNAD-----GMGNIRKDELHRACAVLKIPLEQVKVLDLVD 112 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~-----~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d 112 (256)
=+..+.+.|..+..+....+... ..|..=.+++.++++.||+|+...++++..+
T Consensus 57 e~~~i~~~Gl~~~pIyq~~~~~~~~~~~~~G~~dA~~A~~~A~~lG~p~gs~IYfavD~ 115 (212)
T cd06418 57 ELETITAAGLKVFPIYQGGGYSLDYFGYEQGVKDARDAVAAARALGFPPGTIIYFAVDF 115 (212)
T ss_pred HHHHHHHCCCEEEEEEECCCccccccCHHHHHHHHHHHHHHHHHcCCCCCCEEEEEeec
Confidence 35566667777777776554322 2344455667788888999987777777543
No 206
>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=30.60 E-value=2.5e+02 Score=21.48 Aligned_cols=66 Identities=17% Similarity=0.222 Sum_probs=43.0
Q ss_pred EEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC--CCEEEecCC
Q 025219 71 HILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS--IDLIITFDN 147 (256)
Q Consensus 71 ~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~--Pd~V~t~d~ 147 (256)
.++.+|-| .-.+++.++++.+ |- .+++..++++... +.++..+.+.+.+++.+ -.+++..|-
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 35666666 2456778888877 54 3578888876421 34667778888888764 347777776
Q ss_pred CCCC
Q 025219 148 YGVS 151 (256)
Q Consensus 148 ~g~d 151 (256)
.|++
T Consensus 67 ~GGS 70 (122)
T cd00006 67 FGGS 70 (122)
T ss_pred CCCC
Confidence 5643
No 207
>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=30.57 E-value=3.4e+02 Score=23.09 Aligned_cols=95 Identities=16% Similarity=0.117 Sum_probs=51.3
Q ss_pred HHhCCC----cEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-
Q 025219 63 LTSRRH----NLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC- 137 (256)
Q Consensus 63 l~~~G~----~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~- 137 (256)
+.+.|+ .-.+++++..........|.+-.+++++..|++ +. .... ..|+.+...+.+.+++++.
T Consensus 115 l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~---~~--~~~~------~~~~~~~~~~~~~~~l~~~~ 183 (268)
T cd06306 115 LAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIE---IS--AIKY------GDTGKEVQRKLVEEALEAHP 183 (268)
T ss_pred HHHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCcE---Ee--eecc------CCccHHHHHHHHHHHHHhCC
Confidence 445564 235555553333334567888889999888872 21 1111 1134455566777777654
Q ss_pred CCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcC-CCceeEEE
Q 025219 138 SIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTS-ERNIEAWE 179 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~-~~~~~~~e 179 (256)
+||.|++.| ..+.++.++++..+ ++++.+..
T Consensus 184 ~~~~i~~~d-----------~~a~~~~~~l~~~g~p~di~vig 215 (268)
T cd06306 184 DIDYIVGSA-----------VAAEAAVGILRQRGLTDQIKIVS 215 (268)
T ss_pred CcCEEeecc-----------hhhhHHHHHHHhcCCCCCeEEEe
Confidence 478887542 12344555655433 24555543
No 208
>COG1634 Uncharacterized Rossmann fold enzyme [General function prediction only]
Probab=30.55 E-value=2.1e+02 Score=25.25 Aligned_cols=56 Identities=18% Similarity=0.197 Sum_probs=41.0
Q ss_pred CCCCcEEEEecCc----------hhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCC
Q 025219 37 GDKKNVLLVIAHP----------DDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKI 100 (256)
Q Consensus 37 ~~~~~vLvv~aHP----------DDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv 100 (256)
..++++.+++|=| ++-++..+|+...+.+.|....++ +|+.+.+ .|..-.|...|-
T Consensus 50 i~g~~v~vvG~gP~l~e~~~~~~~~~vi~AdgA~~~l~~~gi~pDii-VTDlDgd-------~e~~~~~~~~g~ 115 (232)
T COG1634 50 IEGREVAVVGAGPSLEEEIKGLSSEVVIAADGAVSALLERGIRPDII-VTDLDGD-------PEDLLSCTAKGS 115 (232)
T ss_pred ccCCEEEEECCCCcHhhhhcccccceEEeccHHHHHHHHcCCCCcEE-EecCCCC-------HHHHHHhhccCC
Confidence 4477899998877 466677889999999999877654 4887754 455555666665
No 209
>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=30.47 E-value=1.8e+02 Score=25.25 Aligned_cols=39 Identities=18% Similarity=0.310 Sum_probs=23.8
Q ss_pred cEEEEecCchhh---hcchHHHHHHHHhCCCcEEEEEEeCCC
Q 025219 41 NVLLVIAHPDDE---SMFFSPTINYLTSRRHNLHILCMSNGN 79 (256)
Q Consensus 41 ~vLvv~aHPDDE---~l~~Ggtl~~l~~~G~~V~vv~lT~G~ 79 (256)
+|++|++.+..- +-.+-.....+.+.|++|.+++...+.
T Consensus 1 kI~~v~~~~~~~gG~~~~~~~l~~~L~~~g~~v~v~~~~~~~ 42 (366)
T cd03822 1 RIALVSPYPPRKCGIATFTTDLVNALSARGPDVLVVSVAALY 42 (366)
T ss_pred CeEEecCCCCCCCcHHHHHHHHHHHhhhcCCeEEEEEeeccc
Confidence 578888877541 111222334555789999888876654
No 210
>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=30.30 E-value=3.9e+02 Score=24.71 Aligned_cols=75 Identities=13% Similarity=0.100 Sum_probs=44.4
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccC-C-CCCCCc-cccCChHHHHHHHHHHHH
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDL-V-DFQDGF-DKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~-~-d~~dg~-~~~~~~~~l~~~l~~~i~ 135 (256)
|+=++++.|... ..+-.+-.|..+-+..+|+ ..+..++. | +..|.. ...|+.+.++..-.+.|+
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 566777777431 1344455555666777999 56777776 2 223322 123566666666666666
Q ss_pred hcCCCEEEecC
Q 025219 136 NCSIDLIITFD 146 (256)
Q Consensus 136 ~~~Pd~V~t~d 146 (256)
+.-||+++..|
T Consensus 105 ~~~p~l~vi~D 115 (320)
T cd04823 105 EAFPELGIITD 115 (320)
T ss_pred HhCCCcEEEEe
Confidence 66699876544
No 211
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=30.13 E-value=2.7e+02 Score=25.15 Aligned_cols=83 Identities=14% Similarity=0.255 Sum_probs=43.5
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCc-hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGM-GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDK 119 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~-~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~ 119 (256)
|+++++... +.-.++..|.+.|+++..|+.......+. ...-.....+.|+..|+| + +...+.
T Consensus 2 kIvf~G~~~-----~a~~~L~~L~~~~~~i~~Vvt~~~~~~~r~~~~~~~~v~~~a~~~~Ip---~--~~~~~~------ 65 (309)
T PRK00005 2 RIVFMGTPE-----FAVPSLKALLESGHEVVAVVTQPDRPAGRGKKLTPSPVKQLALEHGIP---V--LQPEKL------ 65 (309)
T ss_pred EEEEECCCH-----HHHHHHHHHHHCCCcEEEEECCCCCCCCCCCCCCCCHHHHHHHHcCCC---E--ECcCCC------
Confidence 566666541 23467788887788876544322221111 111122345677788884 2 222111
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
+.++ +.+.+++.+||++++.
T Consensus 66 --~~~~----~~~~l~~~~~Dliv~~ 85 (309)
T PRK00005 66 --RDPE----FLAELAALNADVIVVV 85 (309)
T ss_pred --CCHH----HHHHHHhcCcCEEEEe
Confidence 1122 2345677899998876
No 212
>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=30.02 E-value=1.6e+02 Score=24.41 Aligned_cols=16 Identities=19% Similarity=0.088 Sum_probs=12.3
Q ss_pred HHHHhcCCCEEEecCC
Q 025219 132 EEVVNCSIDLIITFDN 147 (256)
Q Consensus 132 ~~i~~~~Pd~V~t~d~ 147 (256)
.++.+.+||+|+|..|
T Consensus 86 ~il~r~rPdvii~nGp 101 (170)
T PF08660_consen 86 RILRRERPDVIISNGP 101 (170)
T ss_pred HHHHHhCCCEEEEcCC
Confidence 3556779999999843
No 213
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=29.92 E-value=1.6e+02 Score=24.32 Aligned_cols=23 Identities=13% Similarity=0.052 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhcCCCEEEecC
Q 025219 124 KSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 124 ~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
..+.+.|.++|++++||.+..=.
T Consensus 47 ~~I~~~l~~~i~~~~Pd~vaiE~ 69 (164)
T PRK00039 47 KQIYDGLSELIDEYQPDEVAIEE 69 (164)
T ss_pred HHHHHHHHHHHHHhCCCEEEEeh
Confidence 46778899999999999987643
No 214
>PRK03670 competence damage-inducible protein A; Provisional
Probab=29.65 E-value=3.5e+02 Score=23.92 Aligned_cols=62 Identities=11% Similarity=0.071 Sum_probs=35.0
Q ss_pred HHHHHHHHcCCCCCcEEEc-cCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 90 ELHRACAVLKIPLEQVKVL-DLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 90 E~~~A~~~LGv~~~~~~~l-~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
-+.+.++.+|+. +... -.+| +.+++.+.+.+.++ ...|+|+|. |+-|....-.+.+++.+|+
T Consensus 24 ~la~~L~~~G~~---v~~~~iV~D---------d~~~I~~~l~~a~~-~~~DlVItt---GGlGpt~dD~T~eava~a~ 86 (252)
T PRK03670 24 FIAQKLTEKGYW---VRRITTVGD---------DVEEIKSVVLEILS-RKPEVLVIS---GGLGPTHDDVTMLAVAEAL 86 (252)
T ss_pred HHHHHHHHCCCE---EEEEEEcCC---------CHHHHHHHHHHHhh-CCCCEEEEC---CCccCCCCCchHHHHHHHh
Confidence 455667788983 3222 1233 34566777766554 246999997 4333333344556666665
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=29.27 E-value=52 Score=29.91 Aligned_cols=28 Identities=21% Similarity=0.319 Sum_probs=19.3
Q ss_pred HHHHHHHHHhcCCCEEEecCCCCCCCCchH
Q 025219 127 AKIVEEEVVNCSIDLIITFDNYGVSGHCNH 156 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH 156 (256)
.+.|..++++++||+|+.. -|.|.|.+-
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 3455677789999999987 677777654
No 216
>cd01421 IMPCH Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-ribonucleotide. The IMPCH domain then converts the formyl-5-aminoimidazole-4-carboxamide-ribonucleotide to inosine monophosphate. This is the final step in de novo purine production.
Probab=29.24 E-value=1e+02 Score=26.22 Aligned_cols=62 Identities=19% Similarity=0.180 Sum_probs=40.4
Q ss_pred hhcchHHHHHHHHhCCCcEEEEEEeCCCC---------------CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC
Q 025219 52 ESMFFSPTINYLTSRRHNLHILCMSNGNA---------------DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF 113 (256)
Q Consensus 52 E~l~~Ggtl~~l~~~G~~V~vv~lT~G~~---------------~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~ 113 (256)
+.+..+||-..|.+.|.+|..|.=-.|-+ +|+-..|..|....++.+|+++-++.+.|+-.+
T Consensus 26 ~I~AT~GTAk~L~e~GI~v~~V~k~TgfpE~l~GRVKTLHP~ihggiL~~~~~~~~~~~~~~~i~~idlVvvNlYpF 102 (187)
T cd01421 26 EILSTGGTAKFLKEAGIPVTDVSDITGFPEILGGRVKTLHPKIHGGILARRDNEEHKDLEEHGIEPIDLVVVNLYPF 102 (187)
T ss_pred EEEEccHHHHHHHHcCCeEEEhhhccCCcHhhCCccccCChhhhhhhhcCCCChhHHHHHHcCCCCeeEEEEcccCh
Confidence 34567888888888888777665444443 123334444444478889998778888886443
No 217
>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=29.09 E-value=3.1e+02 Score=25.33 Aligned_cols=94 Identities=12% Similarity=0.134 Sum_probs=47.9
Q ss_pred EEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCC-CCCCcc
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVD-FQDGFD 118 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d-~~dg~~ 118 (256)
+++++.-||=. =+.+.+..+.+. +.++.++. |..-.+ ..|. ........|.+...-..++... ...++.
T Consensus 4 ~~v~GtRpe~i--klapv~~~l~~~~~~~~~lv~-tGqH~~~~~g~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (365)
T TIGR03568 4 CVVTGTRADYG--LLRPLLKALQDDPDLELQLIV-TGMHLSPEYGN-----TVNEIEKDGFDIDEKIEILLDSDSNAGMA 75 (365)
T ss_pred EEEEecChhHH--HHHHHHHHHhcCCCCcEEEEE-eCCCCChhhcc-----HHHHHHHcCCCCCCccccccCCCCCCCHH
Confidence 45567777544 468899998874 56765554 443221 1110 1222222333111111122211 000111
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
+ ....+...+.+++++.+||+|+++
T Consensus 76 ~--~~~~~~~~~~~~~~~~~Pd~vlv~ 100 (365)
T TIGR03568 76 K--SMGLTIIGFSDAFERLKPDLVVVL 100 (365)
T ss_pred H--HHHHHHHHHHHHHHHhCCCEEEEe
Confidence 1 123556788999999999999987
No 218
>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=28.70 E-value=54 Score=21.86 Aligned_cols=15 Identities=13% Similarity=0.175 Sum_probs=8.6
Q ss_pred cccccc-CCCCCcEEE
Q 025219 30 NAAFLT-TGDKKNVLL 44 (256)
Q Consensus 30 ~~~~~~-~~~~~~vLv 44 (256)
+.||.+ .+...|+|.
T Consensus 28 ~GQfDDle~~a~riL~ 43 (51)
T TIGR00847 28 SGQYDDLKGAAWRILG 43 (51)
T ss_pred cCCCCCCccHHHHHHc
Confidence 667766 334556664
No 219
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. 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 b
Probab=28.69 E-value=3.5e+02 Score=22.58 Aligned_cols=74 Identities=14% Similarity=0.103 Sum_probs=39.0
Q ss_pred HHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 63 LTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 63 l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
+.+.|++ .+++++.+.. ......|.+..+++++..|++.. .......+ ++.++..+.+.+++++. +|+
T Consensus 111 l~~~g~~-~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~-~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~ 180 (267)
T cd06283 111 LIEKGYE-RILFVTEPLDEISPRMERYEGFKEALAEHGIGVN-EELIEIDD--------EDADELDERLRQLLNKPKKKT 180 (267)
T ss_pred HHHcCCC-cEEEEecCccccccHHHHHHHHHHHHHHcCCCCC-cceeEecc--------cchHHHHHHHHHHHcCCCCCC
Confidence 3355654 3444443322 12234677888888888875321 11111111 12344556667777654 489
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
.|++.+
T Consensus 181 ai~~~~ 186 (267)
T cd06283 181 AIFAAN 186 (267)
T ss_pred EEEEcC
Confidence 999873
No 220
>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=28.60 E-value=1.5e+02 Score=24.04 Aligned_cols=60 Identities=8% Similarity=0.075 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 84 GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 84 ~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
.+.-.+|....++.+|+ +++....|.-+.+.....--..++.+.+.+.+.+.+.++.-+|
T Consensus 56 v~~av~eI~~~a~kv~~--~~ivlyPyAHLSs~La~P~~A~~iL~~le~~L~~~g~eV~raP 115 (138)
T PF08915_consen 56 VEKAVEEIKWVAKKVKA--KRIVLYPYAHLSSSLASPDVAVEILKKLEERLKSRGFEVYRAP 115 (138)
T ss_dssp HHHHHHHHHHHHHHTT---SEEEEEE-GGGSSSB--HHHHHHHHHHHHHHHHHTT-EEEE--
T ss_pred HHHHHHHHHHHHHhcCC--CEEEEeCcccccCCcCChHHHHHHHHHHHHHHHhCCCeEEEeC
Confidence 34445889999999999 7777766644332221110113566667777777788888777
No 221
>cd03805 GT1_ALG2_like This family is most closely related to the GT1 family of glycosyltransferases. ALG2, a 1,3-mannosyltransferase, in yeast catalyzes the mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate and Man(1)GlcNAc(2)-dolichol diphosphate to form Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of this enzyme causes an abnormal accumulation of Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol, which is associated with a type of congenital disorders of glycosylation (CDG), designated CDG-Ii, in humans.
Probab=28.44 E-value=74 Score=28.79 Aligned_cols=32 Identities=28% Similarity=0.303 Sum_probs=20.6
Q ss_pred CcEEEEecCchhhhcchHH---H----HHHHHhCCCcEEEEEEe
Q 025219 40 KNVLLVIAHPDDESMFFSP---T----INYLTSRRHNLHILCMS 76 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Gg---t----l~~l~~~G~~V~vv~lT 76 (256)
++||++ ||+... || . ...|.++|++|+++|..
T Consensus 1 mkIl~~--~~~~~~---gG~e~~~~~la~~L~~~G~~V~v~~~~ 39 (392)
T cd03805 1 LRVAFI--HPDLGI---GGAERLVVDAALALQSRGHEVTIYTSH 39 (392)
T ss_pred CeEEEE--CCCCCC---chHHHHHHHHHHHHHhCCCeEEEEcCC
Confidence 467777 677542 44 2 23455789999988753
No 222
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.30 E-value=4.5e+02 Score=23.80 Aligned_cols=85 Identities=13% Similarity=0.153 Sum_probs=48.6
Q ss_pred HHHHHhC-CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
+.++.++ |....+.++--|+. +...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-++-
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 VAKLKEEKGIVPGLVVILVGDNPASQVYVRNK--ERSALAAGF---KSEVVRLPET-------ISQEELLDLIERYNQDP 89 (284)
T ss_pred HHHHHhccCCCceEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3444444 66666665555543 323333433 478999999 4555565541 13566777777776665
Q ss_pred CCCEEEecCCCCCCCCchHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (256)
..|=|+.+-| ...|.|-..
T Consensus 90 ~V~GIivqlP--lp~~i~~~~ 108 (284)
T PRK14179 90 TWHGILVQLP--LPKHINEEK 108 (284)
T ss_pred CCCEEEEcCC--CCCCCCHHH
Confidence 6676777733 334555443
No 223
>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=28.26 E-value=3.6e+02 Score=23.70 Aligned_cols=74 Identities=14% Similarity=0.109 Sum_probs=40.6
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 57 SPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 57 Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
-.....+.+.|++- +..+... ...+..|.+.+.++++..|++ -+....++.. ..+....+.++.+
T Consensus 125 ~~~~~~l~~~g~~~-v~~l~~~--~~~~~~~~~~~~~~~~~~G~~--~~~~~~~~~~---------~~d~~~~~~~l~~- 189 (336)
T cd06326 125 AAIVRHLVTLGLKR-IAVFYQD--DAFGKDGLAGVEKALAARGLK--PVATASYERN---------TADVAAAVAQLAA- 189 (336)
T ss_pred HHHHHHHHHhCCce-EEEEEec--CcchHHHHHHHHHHHHHcCCC--eEEEEeecCC---------cccHHHHHHHHHh-
Confidence 44555566678753 2333222 235678889999999999983 2222223211 1122233344333
Q ss_pred cCCCEEEec
Q 025219 137 CSIDLIITF 145 (256)
Q Consensus 137 ~~Pd~V~t~ 145 (256)
.+||.|++.
T Consensus 190 ~~~dav~~~ 198 (336)
T cd06326 190 ARPQAVIMV 198 (336)
T ss_pred cCCCEEEEE
Confidence 479999887
No 224
>COG1861 SpsF Spore coat polysaccharide biosynthesis protein F, CMP-KDO synthetase homolog [Cell envelope biogenesis, outer membrane]
Probab=28.22 E-value=4.2e+02 Score=23.42 Aligned_cols=87 Identities=13% Similarity=0.164 Sum_probs=60.3
Q ss_pred HHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC
Q 025219 59 TINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS 138 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~ 138 (256)
+|.++.+....=.+++.|+.. .+..-+.+.|...|+ .+ |- | +.+.+.++....+..++
T Consensus 34 ~lervrks~~~d~ivvATS~~------~~d~~l~~~~~~~G~---~v-fr-------G-----s~~dVL~Rf~~a~~a~~ 91 (241)
T COG1861 34 QLERVRKSKDLDKIVVATSDK------EEDDALEEVCRSHGF---YV-FR-------G-----SEEDVLQRFIIAIKAYS 91 (241)
T ss_pred HHHHHhccccccceEEEecCC------cchhHHHHHHHHcCe---eE-ec-------C-----CHHHHHHHHHHHHHhcC
Confidence 455555544333455666652 345557788999998 22 21 1 45788899999999999
Q ss_pred CCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 139 IDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 139 Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
+|+|+=- .|.-.-.||..+-.++...+..
T Consensus 92 ~~~VVRv--TGD~P~~dp~l~d~~v~~~l~~ 120 (241)
T COG1861 92 ADVVVRV--TGDNPFLDPELVDAAVDRHLEK 120 (241)
T ss_pred CCeEEEe--eCCCCCCCHHHHHHHHHHHHhc
Confidence 9988765 5666788999999988888753
No 225
>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=28.18 E-value=2.1e+02 Score=22.82 Aligned_cols=9 Identities=22% Similarity=0.674 Sum_probs=4.4
Q ss_pred CCCcEEEEE
Q 025219 66 RRHNLHILC 74 (256)
Q Consensus 66 ~G~~V~vv~ 74 (256)
.|++|.++.
T Consensus 29 ~g~~v~v~~ 37 (229)
T cd01635 29 RGHEVEVVA 37 (229)
T ss_pred cCCeEEEEE
Confidence 355555444
No 226
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=27.91 E-value=4.2e+02 Score=25.28 Aligned_cols=91 Identities=18% Similarity=0.221 Sum_probs=51.5
Q ss_pred HHHHHHHhCCCc-------EEEEEEeCCCC----C---CchHHH---HHHHHHHHHHcCCCCCcEEEcc-CCCCCCCccc
Q 025219 58 PTINYLTSRRHN-------LHILCMSNGNA----D---GMGNIR---KDELHRACAVLKIPLEQVKVLD-LVDFQDGFDK 119 (256)
Q Consensus 58 gtl~~l~~~G~~-------V~vv~lT~G~~----~---~~~~~R---~~E~~~A~~~LGv~~~~~~~l~-~~d~~dg~~~ 119 (256)
+.|+.|+..|.. ..+.+++.|+. + ..+++| ..-+.+.++.+|+ ++.... .+|
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 567788888842 24667778853 1 112332 2345566888998 333332 222
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
+.+.+.+.|.+.++ +-|+|+|. |+.+..|.-.+..+..+
T Consensus 245 --d~~~i~~~l~~a~~--~~DlIItT---GG~S~G~~D~v~~~l~~ 283 (419)
T PRK14690 245 --DRAALAARLDRAAA--EADVILTS---GGASAGDEDHVSALLRE 283 (419)
T ss_pred --CHHHHHHHHHHhCc--cCCEEEEc---CCccCCCcchHHHHHHh
Confidence 34566777777654 57999997 44444444444444444
No 227
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=27.54 E-value=3.2e+02 Score=21.81 Aligned_cols=91 Identities=12% Similarity=0.111 Sum_probs=58.0
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCC-C--CchHHHH-------HHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHH
Q 025219 58 PTINYLTSRRHNLHILCMSNGNA-D--GMGNIRK-------DELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLA 127 (256)
Q Consensus 58 gtl~~l~~~G~~V~vv~lT~G~~-~--~~~~~R~-------~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~ 127 (256)
..|....+.|.+|..|++.+... . ..+..|. +++.+.++.+|+ .+.++.- + ..
T Consensus 15 ~aL~~A~~~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~---~L~v~~g-----------~---~~ 77 (165)
T PF00875_consen 15 PALHAAAQNGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESLRKLGI---PLLVLRG-----------D---PE 77 (165)
T ss_dssp HHHHHHHHTTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHHHHTTS----EEEEES-----------S---HH
T ss_pred HHHHHHHHcCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHHHhcCc---ceEEEec-----------c---hH
Confidence 34556678888888888877652 1 1244443 677788888898 4554431 1 24
Q ss_pred HHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 128 KIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
+.|.+++++.+.+.|++. .+.-++.+.--..+.+.+..
T Consensus 78 ~~l~~l~~~~~~~~V~~~----~~~~~~~~~rd~~v~~~l~~ 115 (165)
T PF00875_consen 78 EVLPELAKEYGATAVYFN----EEYTPYERRRDERVRKALKK 115 (165)
T ss_dssp HHHHHHHHHHTESEEEEE-------SHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhcCcCeeEec----cccCHHHHHHHHHHHHHHHh
Confidence 566777888899999987 23455777777777777754
No 228
>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=27.38 E-value=3.7e+02 Score=22.54 Aligned_cols=69 Identities=17% Similarity=0.224 Sum_probs=39.3
Q ss_pred CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc--CCCEEEe
Q 025219 67 RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC--SIDLIIT 144 (256)
Q Consensus 67 G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~--~Pd~V~t 144 (256)
|+. .+++++..........|.+-.+++++..|.+ +....... ..|+.+...+.+.+++++. +|+.|++
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 654 3455543222234567888889999888752 22222111 1134445556677777763 5899988
Q ss_pred c
Q 025219 145 F 145 (256)
Q Consensus 145 ~ 145 (256)
.
T Consensus 194 ~ 194 (275)
T cd06317 194 G 194 (275)
T ss_pred C
Confidence 6
No 229
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.97 E-value=4.8e+02 Score=23.64 Aligned_cols=80 Identities=13% Similarity=0.148 Sum_probs=47.8
Q ss_pred CCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 66 RRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 66 ~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
.|....+.++--|+. +...-.|.+ .++|+.+|+ +.....+|.. -+.+++.+.|.++-++-+.|=|+.
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 KNIVPGLAVILVGDDPASHTYVKMK--AKACDRVGI---YSITHEMPST-------ISQKEILETIAMMNNNPNIDGILV 95 (281)
T ss_pred CCCCCeEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCccCeEEE
Confidence 466666655555543 333334443 578999999 4555566541 135667777777766666677888
Q ss_pred cCCCCCCCCchHHHH
Q 025219 145 FDNYGVSGHCNHRDV 159 (256)
Q Consensus 145 ~d~~g~d~H~DH~~v 159 (256)
+-| .-.|.|-..+
T Consensus 96 q~P--lP~~i~~~~i 108 (281)
T PRK14183 96 QLP--LPKHIDTTKI 108 (281)
T ss_pred eCC--CCCCCCHHHH
Confidence 733 3356665443
No 230
>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=26.87 E-value=68 Score=29.11 Aligned_cols=24 Identities=8% Similarity=0.097 Sum_probs=19.5
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEec
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
++.+.-+.+.+++.+++||+++..
T Consensus 138 ~E~eqp~~i~~Ll~~~~PDIlViT 161 (287)
T PF05582_consen 138 PEKEQPEKIYRLLEEYRPDILVIT 161 (287)
T ss_pred chHHhhHHHHHHHHHcCCCEEEEe
Confidence 456677889999999999997654
No 231
>PF13158 DUF3993: Protein of unknown function (DUF3993)
Probab=26.84 E-value=59 Score=25.64 Aligned_cols=19 Identities=21% Similarity=0.405 Sum_probs=14.7
Q ss_pred CchhHHHHHHHHHHHHHHH
Q 025219 1 MSWLLVIVSTIVVWVASLF 19 (256)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~ 19 (256)
|+||+|++.+.+++++++=
T Consensus 1 ~~~l~~~l~~a~lv~~~~~ 19 (122)
T PF13158_consen 1 MIWLVCLLCVAFLVGYSIT 19 (122)
T ss_pred ChhHHHHHHHHHHHHHhHH
Confidence 7899988888887777643
No 232
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=26.69 E-value=1.5e+02 Score=22.56 Aligned_cols=62 Identities=11% Similarity=0.111 Sum_probs=35.4
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC-C-CchHHHHHHHHH-HHHHcCCCCCcEE
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA-D-GMGNIRKDELHR-ACAVLKIPLEQVK 106 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~-~-~~~~~R~~E~~~-A~~~LGv~~~~~~ 106 (256)
+.+...++|.-|||.. |.+|| ......++.++.... + +..+.-.+++.+ ..+.||+++++++
T Consensus 33 gkPe~~~~v~~~~~~~-m~f~g-------~~~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi~~~rv~ 97 (116)
T PTZ00397 33 GKPLSYIMSGYDYQKH-MRFGG-------SHDGCCFVRVTSIGGISRSNNSSIAAAITKILASHLKVKSERVY 97 (116)
T ss_pred CCChHHEEEEEeCCce-EEECC-------CCCceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhCcCcccEE
Confidence 4445688999997765 45553 334666777764322 1 111222234333 3456899998875
No 233
>PRK11866 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional
Probab=26.68 E-value=4.8e+02 Score=23.51 Aligned_cols=97 Identities=11% Similarity=0.027 Sum_probs=58.3
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHH---------H-----------HHHHHHHHHH
Q 025219 38 DKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNI---------R-----------KDELHRACAV 97 (256)
Q Consensus 38 ~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~---------R-----------~~E~~~A~~~ 97 (256)
+.++|++++-=-|--.+|++ -|...++.|.++.++++-|+.++-.+.+ | .....+.++.
T Consensus 76 Pd~~VV~i~GDG~~f~ig~~-eL~tA~rrn~~i~vIV~nN~~ygmtggQ~s~~t~~g~~t~~t~~g~~~~~~d~~~iA~a 154 (279)
T PRK11866 76 PKLTVIGYGGDGDGYGIGLG-HLPHAARRNVDITYIVSNNQVYGLTTGQASPTTPRGVKTKTTPDGNIEEPFNPIALALA 154 (279)
T ss_pred CCCcEEEEECChHHHHccHH-HHHHHHHHCcCcEEEEEEChhhhhhcccccCCCCCCceeeccCCCCCCCCCCHHHHHHH
Confidence 34667777765433445544 4556777899999999999865311100 0 1244566666
Q ss_pred cCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCC
Q 025219 98 LKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 98 LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
+|++ .+ --.++ .+.+++.+.|.+.++.-.|.+|-...|
T Consensus 155 ~G~~--~V-a~~~~---------~~~~~l~~~l~~Al~~~Gps~I~v~~p 192 (279)
T PRK11866 155 AGAT--FV-ARGFS---------GDVKHLKEIIKEAIKHKGFSFIDVLSP 192 (279)
T ss_pred CCCC--EE-EEEcC---------CCHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence 7772 11 11111 145678888888888778887766543
No 234
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=26.60 E-value=95 Score=29.12 Aligned_cols=52 Identities=23% Similarity=0.292 Sum_probs=36.2
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCC---CCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 91 LHRACAVLKIPLEQVKVLDLVDFQ---DGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~---dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
++..++.+|+++.++..++..|.. ++++.. .. .+.+..+..+++.+||.|+.
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 346788899998888777775543 223323 22 66777788889999998865
No 235
>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=26.38 E-value=71 Score=28.42 Aligned_cols=26 Identities=15% Similarity=0.250 Sum_probs=21.6
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
++.++.....+.|++.+||+|+.++-
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 45688999999999999999999953
No 236
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=26.14 E-value=3.5e+02 Score=24.91 Aligned_cols=76 Identities=13% Similarity=0.201 Sum_probs=40.5
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC---CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025219 59 TINYLTSRRHNLHILCMSNGNA---DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~---~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (256)
++++|...|.+|..-....... .+..+.|.+|+.+|..-=.+ ++ ++... .|+ +..++...|-.-+-
T Consensus 31 a~~~L~~~G~~v~~~~~i~~~~~~~a~s~~~R~~dL~~af~d~~v---k~-Il~~r---GGy----gs~rlLp~ld~~~i 99 (313)
T COG1619 31 AIQRLENLGFEVVFGEHILRRDQYFAGSDEERAEDLMSAFSDPDV---KA-ILCVR---GGY----GSNRLLPYLDYDLI 99 (313)
T ss_pred HHHHHHHcCCEEEechhhhhccccccCCHHHHHHHHHHHhcCCCC---eE-EEEcc---cCC----ChhhhhhhcchHHH
Confidence 4667777887776655543322 23457788888887763333 22 23322 122 22344444444334
Q ss_pred hcCCCEEEec
Q 025219 136 NCSIDLIITF 145 (256)
Q Consensus 136 ~~~Pd~V~t~ 145 (256)
+..|.+++-|
T Consensus 100 ~~~pKifiGy 109 (313)
T COG1619 100 RNHPKIFIGY 109 (313)
T ss_pred hcCCceEEEe
Confidence 4567777644
No 237
>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=26.10 E-value=76 Score=26.37 Aligned_cols=38 Identities=24% Similarity=0.329 Sum_probs=24.3
Q ss_pred CcEEEEecCchhhhcchHHHHH-----HHHhCC-CcEEEEEEeCC
Q 025219 40 KNVLLVIAHPDDESMFFSPTIN-----YLTSRR-HNLHILCMSNG 78 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~-----~l~~~G-~~V~vv~lT~G 78 (256)
+++|+|.+||+-+- +....|+ .+.+.| ++|.++-|-.-
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 58999999999854 4444443 344567 78888877554
No 238
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.00 E-value=5.1e+02 Score=23.64 Aligned_cols=78 Identities=13% Similarity=0.114 Sum_probs=44.5
Q ss_pred CCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 67 RHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 67 G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
|....++.+--|+. +...-.|.+ .++|+.+|+ ++....+|.. ...+++.+.|.++-.+-+.|=|+..
T Consensus 30 g~~p~LaiI~vgdd~as~~Yv~~k--~k~a~~~Gi---~~~~~~l~~~-------~~~~el~~~I~~lN~D~~V~GIivq 97 (297)
T PRK14186 30 GRPPGLAVLRVGDDPASAVYVRNK--EKACARVGI---ASFGKHLPAD-------TSQAEVEALIAQLNQDERVDGILLQ 97 (297)
T ss_pred CCCceEEEEEeCCChHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 66666655555543 222333333 478888998 4555555531 1456677777776666566767777
Q ss_pred CCCCCCCCchHHH
Q 025219 146 DNYGVSGHCNHRD 158 (256)
Q Consensus 146 d~~g~d~H~DH~~ 158 (256)
-| .-.|.|-..
T Consensus 98 ~P--LP~~i~~~~ 108 (297)
T PRK14186 98 LP--LPKHLDEVP 108 (297)
T ss_pred CC--CCCCCCHHH
Confidence 33 334555443
No 239
>PRK00871 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional
Probab=25.93 E-value=1.4e+02 Score=25.02 Aligned_cols=24 Identities=17% Similarity=0.236 Sum_probs=16.4
Q ss_pred EEEEecCchhhhcchHHHHHHHHh
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTS 65 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~ 65 (256)
+|+|.+|||-+.=.....|....+
T Consensus 2 iLvi~aHP~~~~S~~n~al~~~~~ 25 (176)
T PRK00871 2 ILIIYAHPYPHHSHANKRMLEQAR 25 (176)
T ss_pred EEEEEcCCCCccChHHHHHHHHHH
Confidence 799999999873335555555444
No 240
>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=25.64 E-value=98 Score=26.41 Aligned_cols=25 Identities=16% Similarity=0.116 Sum_probs=21.9
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
++.++.....+.+++.+||+|++++
T Consensus 57 ~E~~lL~~f~~~i~~~dPdii~g~N 81 (207)
T cd05785 57 AEKELLEELVAIIRERDPDVIEGHN 81 (207)
T ss_pred CHHHHHHHHHHHHHHhCCCEEeccC
Confidence 4568889999999999999999994
No 241
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=25.40 E-value=4.7e+02 Score=23.02 Aligned_cols=75 Identities=8% Similarity=0.046 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCCEEEecCCCCCCCCchHHHHHHH
Q 025219 84 GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHHG 162 (256)
Q Consensus 84 ~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~v~~a 162 (256)
...|.+-..++++..|+......+.+ .|+.++..+.+.+++++ .+|+.|++.+ |.. +..
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 35576667777777776211111110 12233334455666654 3588888862 222 334
Q ss_pred HHHHHhhcC---CCceeEE
Q 025219 163 IWSYLNGTS---ERNIEAW 178 (256)
Q Consensus 163 v~~a~~~~~---~~~~~~~ 178 (256)
+..+++..+ +.++.+.
T Consensus 249 ~~~al~~~g~~vP~di~vi 267 (327)
T PRK10339 249 VLRAIHERGLNIPQDISLI 267 (327)
T ss_pred HHHHHHHcCCCCCCceEEE
Confidence 555555433 3455554
No 242
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=25.37 E-value=4.8e+02 Score=24.11 Aligned_cols=75 Identities=13% Similarity=0.123 Sum_probs=48.2
Q ss_pred EEEEEEeCCCCC-----------CchHHHHHHHHHHHHHcCCCCCcEEEccCCCC--CCCc-cccCChHHHHHHHHHHHH
Q 025219 70 LHILCMSNGNAD-----------GMGNIRKDELHRACAVLKIPLEQVKVLDLVDF--QDGF-DKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 70 V~vv~lT~G~~~-----------~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~--~dg~-~~~~~~~~l~~~l~~~i~ 135 (256)
++=+++..|+.. +..--+-.|..+-+.-||+ ..+..++.|+. .|.. ...|+++.++++-.+.|+
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 555666777531 2333444555556667999 45777787743 3322 234777888888888888
Q ss_pred hcCCCEEEecC
Q 025219 136 NCSIDLIITFD 146 (256)
Q Consensus 136 ~~~Pd~V~t~d 146 (256)
+.-||+++..|
T Consensus 112 ~~~p~l~iitD 122 (330)
T COG0113 112 EAFPELVVITD 122 (330)
T ss_pred HhCCCeEEEee
Confidence 87889887655
No 243
>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=25.28 E-value=4.1e+02 Score=22.26 Aligned_cols=74 Identities=14% Similarity=0.071 Sum_probs=40.1
Q ss_pred HHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCC
Q 025219 62 YLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd 140 (256)
.+.++|++ .+.+++..........|.+-..++++..|++........ ..++.+...+.+.+++++ .+|+
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 46667865 344444332223445677888888887776321111111 012333445566777764 3589
Q ss_pred EEEec
Q 025219 141 LIITF 145 (256)
Q Consensus 141 ~V~t~ 145 (256)
.|++.
T Consensus 179 aii~~ 183 (265)
T cd06290 179 AIFAA 183 (265)
T ss_pred EEEEc
Confidence 99887
No 244
>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=25.09 E-value=3.5e+02 Score=22.14 Aligned_cols=87 Identities=16% Similarity=0.134 Sum_probs=49.2
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCC
Q 025219 36 TGDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQD 115 (256)
Q Consensus 36 ~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~d 115 (256)
.....++|+|+--|++++--. |.. ..|.. -+.+.+..+.+|++.+++++.+.-....
T Consensus 18 G~~~A~im~VgeaPg~~e~~~----------g~p------f~g~s-------G~~L~~~l~~~gl~~~~vy~t~~~kc~P 74 (173)
T TIGR00758 18 GNPDANIMFVGEAPGREEDRK----------GRP------FVGRA-------GKLLDEMLAAIGLSRENVYITNVVKCRP 74 (173)
T ss_pred CCCCCCEEEEeCCCCcccccc----------CCC------CcChH-------HHHHHHHHHHcCCCcccEEEeccccccC
Confidence 345678999988886543111 111 01211 1334555667898888887765422111
Q ss_pred CccccCCh---HHHHHHHHHHHHhcCCCEEEec
Q 025219 116 GFDKLWNH---KSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 116 g~~~~~~~---~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
..+..-.. +.-...+.+.|+..+|.+|++.
T Consensus 75 ~~~r~P~~~Ei~~c~~~l~~eI~~v~P~~Iv~l 107 (173)
T TIGR00758 75 PNNRDPTPEEVEACAPYLVKQIELIRPKVIICL 107 (173)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHHhcCCCEEEEE
Confidence 00111122 2345678888999999999998
No 245
>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=25.09 E-value=4e+02 Score=22.14 Aligned_cols=73 Identities=18% Similarity=0.184 Sum_probs=38.0
Q ss_pred HHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCC
Q 025219 62 YLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSID 140 (256)
Q Consensus 62 ~l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd 140 (256)
.+.++|++- +.++..+.. ......|.+-.+++++..|. ....... ..|+.+...+.+.+++++.+|+
T Consensus 108 ~l~~~g~~~-i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~--~~~~~~~---------~~~~~~~~~~~~~~~l~~~~~~ 175 (259)
T cd01542 108 YLAQQGHKN-IAYLGVSESDIAVGILRKQGYLDALKEHGI--CPPNIVE---------TDFSYESAYEAAQELLEPQPPD 175 (259)
T ss_pred HHHHcCCCc-EEEEcCCcccchhHHHHHHHHHHHHHHcCC--ChHHeee---------ccCchhhHHHHHHHHhcCCCCC
Confidence 444566543 233322211 12335677888888888886 2111111 0123334445566666654489
Q ss_pred EEEecC
Q 025219 141 LIITFD 146 (256)
Q Consensus 141 ~V~t~d 146 (256)
.|++.+
T Consensus 176 ~i~~~~ 181 (259)
T cd01542 176 AIVCAT 181 (259)
T ss_pred EEEEcC
Confidence 999883
No 246
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=25.06 E-value=3e+02 Score=21.83 Aligned_cols=53 Identities=11% Similarity=0.142 Sum_probs=26.2
Q ss_pred HHHHHHhCCCcEEEEEEeCCCC-----CC--chHHHHHHHHHHHHHcCCCCCcEEEccCC
Q 025219 59 TINYLTSRRHNLHILCMSNGNA-----DG--MGNIRKDELHRACAVLKIPLEQVKVLDLV 111 (256)
Q Consensus 59 tl~~l~~~G~~V~vv~lT~G~~-----~~--~~~~R~~E~~~A~~~LGv~~~~~~~l~~~ 111 (256)
=+..+.++|..+..+....+.. .+ .|..--++..++++.||+|....++++..
T Consensus 43 e~~~i~~~Gl~i~pIyq~~~~~~~~~~~~~~~G~~dA~~A~~~A~~lG~p~gt~IYfavD 102 (136)
T PF08924_consen 43 EVQDIRAAGLRIFPIYQGGGRETSDFTYGYAQGVADARDAVAAARALGFPAGTPIYFAVD 102 (136)
T ss_dssp HHHHHHHTT-EEEEEE--------S-B--HHHHHHHHHHHHHHHHHTT--SS-EEEEE--
T ss_pred HHHHHHHCCCEEEEEEecccccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEEee
Confidence 3556667888877777664432 12 34445566677777888887666666654
No 247
>PRK09458 pspB phage shock protein B; Provisional
Probab=25.05 E-value=1.2e+02 Score=22.01 Aligned_cols=27 Identities=22% Similarity=0.392 Sum_probs=18.1
Q ss_pred CchhHHHHHHHH--HHHHHHHHHHhcCCc
Q 025219 1 MSWLLVIVSTIV--VWVASLFKILNSSRS 27 (256)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~ 27 (256)
|+-+++++-.|+ +|+..+|-|+|=.++
T Consensus 1 m~~~fl~~PliiF~ifVaPiWL~LHY~sk 29 (75)
T PRK09458 1 MSALFLAIPLTIFVLFVAPIWLWLHYRSK 29 (75)
T ss_pred CcchHHHHhHHHHHHHHHHHHHHHhhccc
Confidence 555555555555 556688889998875
No 248
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=25.01 E-value=5.1e+02 Score=23.29 Aligned_cols=43 Identities=12% Similarity=0.104 Sum_probs=26.3
Q ss_pred HHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 93 RACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 93 ~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+.|+..|+| +..++..+. +.++-...+.+.+++++||+|+...
T Consensus 131 ~lA~~~gIp---~~~~~~~~~--------~~~~~~~~~~~~l~~~~~Dlivlag 173 (286)
T PRK06027 131 SLVERFGIP---FHHVPVTKE--------TKAEAEARLLELIDEYQPDLVVLAR 173 (286)
T ss_pred HHHHHhCCC---EEEeccCcc--------ccchhHHHHHHHHHHhCCCEEEEec
Confidence 347888994 444443210 1122234567778889999999873
No 249
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=24.90 E-value=3.6e+02 Score=21.49 Aligned_cols=76 Identities=14% Similarity=0.143 Sum_probs=43.0
Q ss_pred HHHHHhCCCc-EEEEEEeCCCC----CCc-hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHH
Q 025219 60 INYLTSRRHN-LHILCMSNGNA----DGM-GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEE 133 (256)
Q Consensus 60 l~~l~~~G~~-V~vv~lT~G~~----~~~-~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~ 133 (256)
+++..+.|.+ |.|+=+--|+. +.. .+.|.+=+.+.++.+|+.++++.++-..-.. + . ...+.++...+-
T Consensus 46 vl~Al~~GaDGV~v~GC~~geCHy~~GN~ka~rR~~~lke~l~elgie~eRv~~~wiSa~E-~-e---kf~e~~~efv~~ 120 (132)
T COG1908 46 VLKALRKGADGVLVAGCKIGECHYISGNYKAKRRMELLKELLKELGIEPERVRVLWISAAE-G-E---KFAETINEFVER 120 (132)
T ss_pred HHHHHHcCCCeEEEecccccceeeeccchHHHHHHHHHHHHHHHhCCCcceEEEEEEehhh-H-H---HHHHHHHHHHHH
Confidence 5566677876 44444444542 233 4555555788999999998888776543211 1 0 112344445555
Q ss_pred HHhcCCC
Q 025219 134 VVNCSID 140 (256)
Q Consensus 134 i~~~~Pd 140 (256)
|++..|.
T Consensus 121 i~~lGpn 127 (132)
T COG1908 121 IKELGPN 127 (132)
T ss_pred HHHhCCC
Confidence 5666653
No 250
>COG0027 PurT Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]
Probab=24.84 E-value=2.1e+02 Score=26.79 Aligned_cols=63 Identities=11% Similarity=0.138 Sum_probs=38.5
Q ss_pred EEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEE-ccCCCCCCCccccCChHH-----HHHHHHHHHHhcCCCEEE
Q 025219 70 LHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKV-LDLVDFQDGFDKLWNHKS-----LAKIVEEEVVNCSIDLII 143 (256)
Q Consensus 70 V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~-l~~~d~~dg~~~~~~~~~-----l~~~l~~~i~~~~Pd~V~ 143 (256)
..++.|-+|+.+ +|..=+|+.||+ +++- -.|.+.+ -|. .-+... -.+.|..++++.+||.|+
T Consensus 13 ~kvmLLGSGELG-------KEvaIe~QRLG~---eViAVDrY~~AP-Amq-VAhrs~Vi~MlD~~al~avv~rekPd~IV 80 (394)
T COG0027 13 TKVMLLGSGELG-------KEVAIEAQRLGV---EVIAVDRYANAP-AMQ-VAHRSYVIDMLDGDALRAVVEREKPDYIV 80 (394)
T ss_pred eEEEEecCCccc-------hHHHHHHHhcCC---EEEEecCcCCCh-hhh-hhhheeeeeccCHHHHHHHHHhhCCCeee
Confidence 456677777544 788888999999 4443 4455432 110 000111 134678889999999987
Q ss_pred e
Q 025219 144 T 144 (256)
Q Consensus 144 t 144 (256)
.
T Consensus 81 p 81 (394)
T COG0027 81 P 81 (394)
T ss_pred e
Confidence 5
No 251
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=24.82 E-value=52 Score=22.54 Aligned_cols=15 Identities=13% Similarity=0.366 Sum_probs=8.8
Q ss_pred cccccc-CCCCCcEEE
Q 025219 30 NAAFLT-TGDKKNVLL 44 (256)
Q Consensus 30 ~~~~~~-~~~~~~vLv 44 (256)
+.||.+ .+...|+|.
T Consensus 28 sgQyDDl~g~ae~IL~ 43 (58)
T COG3197 28 SGQYDDLDGPAERILY 43 (58)
T ss_pred cCCcccccccHHHHhh
Confidence 677765 344556664
No 252
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=24.76 E-value=3.9e+02 Score=25.52 Aligned_cols=63 Identities=19% Similarity=0.120 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHcCCCCCcEEEc-cCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 87 RKDELHRACAVLKIPLEQVKVL-DLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 87 R~~E~~~A~~~LGv~~~~~~~l-~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
-..-+.+.++.+|+. +... -.+| +.+++.+.|.+... +.|+|+|. |+-+..+.-.+.+++..
T Consensus 21 N~~~l~~~L~~~G~~---v~~~~~v~D---------d~~~i~~~l~~a~~--~~DlVItt---GGlgpt~dD~t~eava~ 83 (413)
T TIGR00200 21 NAQWLADFLAHQGLP---LSRRTTVGD---------NPERLKTIIRIASE--RADVLIFN---GGLGPTSDDLTAETIAT 83 (413)
T ss_pred hHHHHHHHHHHCCCe---EEEEEEeCC---------CHHHHHHHHHHHhc--CCCEEEEc---CCCCCCCcccHHHHHHH
Confidence 344566778889983 3322 2233 34566777776653 68999997 44444444444555544
Q ss_pred H
Q 025219 166 Y 166 (256)
Q Consensus 166 a 166 (256)
+
T Consensus 84 ~ 84 (413)
T TIGR00200 84 A 84 (413)
T ss_pred H
Confidence 4
No 253
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.73 E-value=5.4e+02 Score=23.47 Aligned_cols=83 Identities=16% Similarity=0.143 Sum_probs=48.4
Q ss_pred HHHhC-CCcEEEEEEeCCCCC-CchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC
Q 025219 62 YLTSR-RHNLHILCMSNGNAD-GMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI 139 (256)
Q Consensus 62 ~l~~~-G~~V~vv~lT~G~~~-~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P 139 (256)
.+.++ |....++++--|+.. ...-.|.+ .++|+.+|+ +.....+|.. ...+++.+.|.++-++-+.
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 DLKRQHNLFPCLIVILVGDDPASQLYVRNK--QRKAEMLGL---RSETILLPST-------ISESSLIEKINELNNDDSV 91 (294)
T ss_pred HHHHccCCCCeEEEEEeCCChhHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCCCC
Confidence 34344 666666666666543 33334443 578899999 4555555531 1345677777777666666
Q ss_pred CEEEecCCCCCCCCchHHH
Q 025219 140 DLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~ 158 (256)
|=|+..-| .-.|.|-..
T Consensus 92 ~GIlvqlP--LP~~i~~~~ 108 (294)
T PRK14187 92 HGILVQLP--VPNHIDKNL 108 (294)
T ss_pred CEEEEeCC--CCCCCCHHH
Confidence 66777743 335666444
No 254
>PLN02605 monogalactosyldiacylglycerol synthase
Probab=24.61 E-value=74 Score=29.34 Aligned_cols=20 Identities=20% Similarity=0.401 Sum_probs=16.7
Q ss_pred HHHHHHHHHhcCCCEEEecC
Q 025219 127 AKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d 146 (256)
...+.++|++.+||+|+++.
T Consensus 89 ~~~l~~~i~~~~pDvIi~th 108 (382)
T PLN02605 89 AREVAKGLMKYKPDIIVSVH 108 (382)
T ss_pred HHHHHHHHHhcCcCEEEEeC
Confidence 35678899999999999973
No 255
>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=24.60 E-value=4.4e+02 Score=22.43 Aligned_cols=72 Identities=11% Similarity=0.129 Sum_probs=39.4
Q ss_pred hCCC---cEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCC
Q 025219 65 SRRH---NLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SID 140 (256)
Q Consensus 65 ~~G~---~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd 140 (256)
++|+ ++.++..+..+ ......|.+-.+++++..|++... .+..+. ..|+.+...+.+.+++.+. +|+
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 3575 56555443222 224567999999999988884322 222111 1133344455666777654 456
Q ss_pred --EEEec
Q 025219 141 --LIITF 145 (256)
Q Consensus 141 --~V~t~ 145 (256)
.|++.
T Consensus 195 ~~~i~~~ 201 (289)
T cd01540 195 NWIIYGL 201 (289)
T ss_pred eeEEEeC
Confidence 56665
No 256
>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=24.45 E-value=5.9e+02 Score=24.51 Aligned_cols=84 Identities=18% Similarity=0.251 Sum_probs=44.1
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (256)
..++|+.+. ..|| -.+ |.-.-+.+.|.++.++++++.........+.+|+.+ .++. ...++..+|
T Consensus 303 l~Gkrv~i~-g~~~-~~~---~l~~fl~elGm~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~---~~~vi~~~d---- 367 (454)
T cd01973 303 FANKKVAIF-GHPD-LVI---GLAEFCLEVEMKPVLLLLGDDNSKYKKDPRIKALKE---KADY---DMEIVTNAD---- 367 (454)
T ss_pred hCCCeEEEE-cCHH-HHH---HHHHHHHHCCCeEEEEEECCCCcccchhHHHHHHHh---hcCC---CceEEECCC----
Confidence 457788655 6774 333 333334468999888888776443222333334332 2343 122333222
Q ss_pred ccccCChHHHHHHHHHHHHh--cCCCEEEec
Q 025219 117 FDKLWNHKSLAKIVEEEVVN--CSIDLIITF 145 (256)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~--~~Pd~V~t~ 145 (256)
..+ +++.+++ .+||+++..
T Consensus 368 ------~~e----~~~~i~~~~~~~dliig~ 388 (454)
T cd01973 368 ------LWE----LEKRIKNKGLELDLILGH 388 (454)
T ss_pred ------HHH----HHHHHHhcCCCCCEEEEC
Confidence 122 4445555 469999976
No 257
>PRK03501 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=24.39 E-value=4.1e+02 Score=23.70 Aligned_cols=85 Identities=16% Similarity=0.112 Sum_probs=43.8
Q ss_pred EEEEecCchhhhcchHHHHHH-HHhCCCcEEE------EEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCC-C
Q 025219 42 VLLVIAHPDDESMFFSPTINY-LTSRRHNLHI------LCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVD-F 113 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~-l~~~G~~V~v------v~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d-~ 113 (256)
.+.+.+|++++..-..-.+.. +.+.|.++.+ ++++=| |.|-. .+|++.++-. +++.+++..- +
T Consensus 4 ~i~iv~~~~~~a~~~~~~l~~~l~~~g~~~~~~~~~~D~vi~lG---GDGT~-----L~a~~~~~~~-~~~pilgIn~~G 74 (264)
T PRK03501 4 NLFFFYKRDKELVEKVKPLKKIAEEYGFTVVDHPKNANIIVSIG---GDGTF-----LQAVRKTGFR-EDCLYAGISTKD 74 (264)
T ss_pred EEEEEECCCHHHHHHHHHHHHHHHHCCCEEEcCCCCccEEEEEC---CcHHH-----HHHHHHhccc-CCCeEEeEecCC
Confidence 466677888865544444555 4467776543 222222 22332 2333333210 1233444433 4
Q ss_pred CCCccccCChHHHHHHHHHHHH
Q 025219 114 QDGFDKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 114 ~dg~~~~~~~~~l~~~l~~~i~ 135 (256)
+.|+...++.+++.+.+.++++
T Consensus 75 ~lGFL~~~~~~~~~~~l~~i~~ 96 (264)
T PRK03501 75 QLGFYCDFHIDDLDKMIQAITK 96 (264)
T ss_pred CCeEcccCCHHHHHHHHHHHHc
Confidence 4555555567787888877765
No 258
>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=24.23 E-value=1.3e+02 Score=22.55 Aligned_cols=13 Identities=8% Similarity=-0.046 Sum_probs=8.9
Q ss_pred CCcEEEEecCchh
Q 025219 39 KKNVLLVIAHPDD 51 (256)
Q Consensus 39 ~~~vLvv~aHPDD 51 (256)
-+.+..+-||||-
T Consensus 66 YrPvI~~~P~~~~ 78 (94)
T PF05393_consen 66 YRPVIGLEPQNLQ 78 (94)
T ss_pred cccccccCCCccc
Confidence 3456777888876
No 259
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=24.22 E-value=1.3e+02 Score=28.65 Aligned_cols=23 Identities=13% Similarity=0.202 Sum_probs=17.5
Q ss_pred HHHHHHHHHhcCCCEEEecCCCCCC
Q 025219 127 AKIVEEEVVNCSIDLIITFDNYGVS 151 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g~d 151 (256)
...+..+++.++|..|+.. -|.|
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 4567789999999999876 4543
No 260
>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=24.17 E-value=4.3e+02 Score=22.19 Aligned_cols=85 Identities=13% Similarity=0.191 Sum_probs=45.4
Q ss_pred CchhhhcchHHHHH-HHHhC--CC-cEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCCh
Q 025219 48 HPDDESMFFSPTIN-YLTSR--RH-NLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNH 123 (256)
Q Consensus 48 HPDDE~l~~Ggtl~-~l~~~--G~-~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~ 123 (256)
..|++. +|-.++ .+.+. |+ ++. +++..........|.+-.+++++..| . +....... ..|+.
T Consensus 102 ~~d~~~--~g~~~~~~l~~~~~~~~~i~--~i~~~~~~~~~~~R~~gf~~~l~~~~-~---~~~~~~~~------~~~~~ 167 (272)
T cd06301 102 GSDEVV--AGRLQAEYVADKLGGKGNVA--ILMGPLGQSAQIDRTKGVEEVLAKYP-D---IKVVEEQT------ANWSR 167 (272)
T ss_pred ecChHH--HHHHHHHHHHHHhCCCccEE--EEECCCCCccHHHHHHHHHHHHHHCC-C---cEEEecCC------CCccH
Confidence 346665 233333 33344 43 443 34333223345678888899998877 1 12222111 12344
Q ss_pred HHHHHHHHHHHHhc-CCCEEEecC
Q 025219 124 KSLAKIVEEEVVNC-SIDLIITFD 146 (256)
Q Consensus 124 ~~l~~~l~~~i~~~-~Pd~V~t~d 146 (256)
+...+.+.+++++. +|+.|++.+
T Consensus 168 ~~~~~~~~~~l~~~~~~~ai~~~~ 191 (272)
T cd06301 168 AEAMDLMENWLSSGGKIDAVVANN 191 (272)
T ss_pred HHHHHHHHHHHHhCCCCCEEEECC
Confidence 45556677777654 579999873
No 261
>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=24.09 E-value=4.5e+02 Score=23.77 Aligned_cols=23 Identities=26% Similarity=0.310 Sum_probs=16.4
Q ss_pred HHHHHHHHHhcCCCEEEecCCCC
Q 025219 127 AKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 127 ~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
.+.+.+++.....|-|+|.|+|.
T Consensus 107 ~~~~a~ll~~~g~d~vit~DlHs 129 (308)
T TIGR01251 107 AKLVANLLETAGADRVLTVDLHS 129 (308)
T ss_pred HHHHHHHHHHcCCCEEEEecCCh
Confidence 45667777777788888887653
No 262
>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=24.07 E-value=4.4e+02 Score=22.21 Aligned_cols=84 Identities=13% Similarity=0.107 Sum_probs=45.8
Q ss_pred CchhhhcchHHHHHH-HHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCCh
Q 025219 48 HPDDESMFFSPTINY-LTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNH 123 (256)
Q Consensus 48 HPDDE~l~~Ggtl~~-l~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~ 123 (256)
.+|++.. |-.+.+ +.+. |+. .+.+++..........|.+-.+++++..| + ++... . ...|+.
T Consensus 104 ~~d~~~~--g~~~~~~l~~~~~g~~-~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~---~~~~~-~-------~~~~~~ 169 (272)
T cd06300 104 NEDQAEF--GKQGAEWLVKELGGKG-NVLVVRGLAGHPVDEDRYAGAKEVLKEYPGI---KIVGE-V-------YGDWDQ 169 (272)
T ss_pred cCCHHHH--HHHHHHHHHHHcCCCc-eEEEEECCCCCcchHHHHHHHHHHHHHCCCc---EEEee-c-------CCCCCH
Confidence 4577764 333333 3343 543 23333221112234678888899988877 5 22211 1 012455
Q ss_pred HHHHHHHHHHHHhc-CCCEEEec
Q 025219 124 KSLAKIVEEEVVNC-SIDLIITF 145 (256)
Q Consensus 124 ~~l~~~l~~~i~~~-~Pd~V~t~ 145 (256)
++..+.+.+++++. +|+.|++.
T Consensus 170 ~~~~~~~~~~l~~~~~~~~i~~~ 192 (272)
T cd06300 170 AVAQKAVADFLASNPDVDGIWTQ 192 (272)
T ss_pred HHHHHHHHHHHHhCCCcCEEEec
Confidence 56667778888764 47888887
No 263
>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=24.07 E-value=1.9e+02 Score=27.08 Aligned_cols=82 Identities=11% Similarity=0.009 Sum_probs=43.2
Q ss_pred HHHHH-HHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 89 DELHR-ACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 89 ~E~~~-A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
+|.++ -.+.||+ +++++|+..-..|..+.. ++.+++++ .|++|+...... ..|++|....+ ..+.+
T Consensus 180 ~eIe~~Lk~~LGv--~kviWL~~g~~~DdTdGH------ID~~arFv---~~~tvl~~~~~d-~~d~~~~~~~~-~~~~L 246 (357)
T TIGR03380 180 EQIEEKLKDYLGV--EKVIWLPDGLYNDETNGH------VDNLCCFV---RPGEVALSWTDD-ESDPQYEISKE-AYDVL 246 (357)
T ss_pred HHHHHHHHHHHCC--CEEEEECCCCCCCCCCCc------ceeeEEEe---CCCEEEEEecCC-CCCccHHHHHH-HHHHH
Confidence 44444 3556999 789999743222222211 23344444 699988873222 34666655433 33333
Q ss_pred hh---cCCCceeEEEecch
Q 025219 168 NG---TSERNIEAWELMTT 183 (256)
Q Consensus 168 ~~---~~~~~~~~~e~~s~ 183 (256)
+. ...+...+.+++.+
T Consensus 247 ~~~~da~G~~~~i~~lp~P 265 (357)
T TIGR03380 247 SNTTDAKGRKLKVHKLPIP 265 (357)
T ss_pred HhhhhccCCccEEEEecCC
Confidence 32 33455667776654
No 264
>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=23.92 E-value=4.4e+02 Score=22.17 Aligned_cols=54 Identities=11% Similarity=0.044 Sum_probs=33.6
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CCCEEEecC
Q 025219 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SIDLIITFD 146 (256)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~Pd~V~t~d 146 (256)
....|.+-.+++++..|++ +..... . ..|+.++..+.+.+++++. +|+.|++.+
T Consensus 139 ~~~~r~~gf~~~l~~~~~~---~~~~~~-~------~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 193 (277)
T cd06319 139 NGQKRTKGFKEAMKEAGCD---LAGIRQ-Q------KDFSYQETFDYTNDLLTANPDIRAIWLQG 193 (277)
T ss_pred cHHHHHHHHHHHHHhcCCc---eEeecc-C------CCCCHHHHHHHHHHHHHhCCCCCEEEECC
Confidence 4567888899999999883 221111 0 1234455566677777653 377888873
No 265
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=23.88 E-value=1.9e+02 Score=23.33 Aligned_cols=24 Identities=17% Similarity=0.116 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHhcCCCEEEecCC
Q 025219 124 KSLAKIVEEEVVNCSIDLIITFDN 147 (256)
Q Consensus 124 ~~l~~~l~~~i~~~~Pd~V~t~d~ 147 (256)
.++.+.|.++|++++||.+..=++
T Consensus 44 ~~I~~~l~~li~~~~P~~vaiE~~ 67 (149)
T PF02075_consen 44 KEIYEELEELIEEYNPDEVAIEEI 67 (149)
T ss_dssp HHHHHHHHHHHHHH--SEEEEEE-
T ss_pred HHHHHHHHHHHHhhCCCEEEeehh
Confidence 467788999999999999887543
No 266
>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=23.87 E-value=6.3e+02 Score=23.96 Aligned_cols=84 Identities=15% Similarity=0.084 Sum_probs=44.9
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (256)
..++|+. |.+.||= .+ |....+.+.|.+|..++.++.+ ..-++|+++.++.++-. .++.++.-+|
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 4567774 4456643 33 3334455789999555543332 22344555555543221 1233333222
Q ss_pred ccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 117 FDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
...+.+.+++.+||+++.+
T Consensus 366 ----------~~e~~~~i~~~~pDliiG~ 384 (435)
T cd01974 366 ----------LWHLRSLLFTEPVDLLIGN 384 (435)
T ss_pred ----------HHHHHHHHhhcCCCEEEEC
Confidence 1245666777899999987
No 267
>PF15609 PRTase_2: Phosphoribosyl transferase
Probab=23.73 E-value=2.8e+02 Score=23.73 Aligned_cols=54 Identities=20% Similarity=0.282 Sum_probs=36.6
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHHh------CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCC
Q 025219 39 KKNVLLVIAHPDDESMFFSPTINYLTS------RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIP 101 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~~l~~------~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~ 101 (256)
..++++| ||| +..|-|+..+.+ ...++++++++|-.. +..++...+..+.||++
T Consensus 121 ~~~lVLV----DDE-iSTG~T~lnli~al~~~~p~~~yvvasL~d~~~----~~~~~~~~~~~~~lgi~ 180 (191)
T PF15609_consen 121 ARTLVLV----DDE-ISTGNTFLNLIRALHAKYPRKRYVVASLLDWRS----EEDRARFEALAEELGIP 180 (191)
T ss_pred CCCEEEE----ecC-ccchHHHHHHHHHHHHhCCCceEEEEEEeeCCC----HHHHHHHHHHHHHcCCc
Confidence 3455555 888 689999887764 245788999998743 22344456677889984
No 268
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=23.60 E-value=4.1e+02 Score=21.70 Aligned_cols=16 Identities=13% Similarity=0.227 Sum_probs=13.8
Q ss_pred HHHHHHhcCCCEEEec
Q 025219 130 VEEEVVNCSIDLIITF 145 (256)
Q Consensus 130 l~~~i~~~~Pd~V~t~ 145 (256)
+.+.|++.+||+|+.-
T Consensus 91 i~~~I~~~~pdiv~vg 106 (171)
T cd06533 91 IIERINASGADILFVG 106 (171)
T ss_pred HHHHHHHcCCCEEEEE
Confidence 7788889999999886
No 269
>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=23.51 E-value=4e+02 Score=21.50 Aligned_cols=85 Identities=14% Similarity=0.165 Sum_probs=45.0
Q ss_pred ecCchhhhcchHHHHHH-HHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChH
Q 025219 46 IAHPDDESMFFSPTINY-LTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHK 124 (256)
Q Consensus 46 ~aHPDDE~l~~Ggtl~~-l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~ 124 (256)
..-||++.. |-.+.. +.+.|++- +.+++.... .....|.+.++++++..|+ .+......+ ++.+
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 344455542 333443 44566553 333333322 4457788889999998886 222111111 1111
Q ss_pred HHHHHHHHHHHhc-CCCEEEec
Q 025219 125 SLAKIVEEEVVNC-SIDLIITF 145 (256)
Q Consensus 125 ~l~~~l~~~i~~~-~Pd~V~t~ 145 (256)
...+.+.+.+++. +|+.|+..
T Consensus 168 ~~~~~~~~~l~~~~~~~~i~~~ 189 (269)
T cd01391 168 KGFQALLQLLKAAPKPDAIFAC 189 (269)
T ss_pred ccHHHHHHHHhcCCCCCEEEEc
Confidence 2334556666665 79999887
No 270
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=23.45 E-value=2.7e+02 Score=25.30 Aligned_cols=64 Identities=13% Similarity=0.060 Sum_probs=38.1
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHHhC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCC-CCcEEEccCCCC
Q 025219 36 TGDKKNVLLVIAHPDDESMFFSPTINYLTSR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIP-LEQVKVLDLVDF 113 (256)
Q Consensus 36 ~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~-~~~~~~l~~~d~ 113 (256)
+.+++++|=|+ =|-|+++..++++ |.+|.-++++.. -.++.++-.+..|.. ..++...|++|.
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-------CGWGGLAIYAAEEYGVTVVGVTLSEE--------QLAYAEKRIAARGLEDNVEVRLQDYRDF 134 (283)
T ss_pred CCCCCEEEEeC-------CChhHHHHHHHHHcCCEEEEeeCCHH--------HHHHHHHHHHHcCCCcccEEEecccccc
Confidence 56778888332 1345677777765 677766666543 234455556667774 223455777776
Q ss_pred C
Q 025219 114 Q 114 (256)
Q Consensus 114 ~ 114 (256)
.
T Consensus 135 ~ 135 (283)
T COG2230 135 E 135 (283)
T ss_pred c
Confidence 4
No 271
>COG0462 PrsA Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]
Probab=23.39 E-value=1.1e+02 Score=28.12 Aligned_cols=41 Identities=22% Similarity=0.188 Sum_probs=30.5
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHH----hCCCcEEEEEEeCCCCC
Q 025219 36 TGDKKNVLLVIAHPDDESMFFSPTINYLT----SRRHNLHILCMSNGNAD 81 (256)
Q Consensus 36 ~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~----~~G~~V~vv~lT~G~~~ 81 (256)
.-++|++++| ||. +..||||.+.+ ++|.+=..+++|-|-..
T Consensus 211 dV~gk~~iiV----DDi-IdTgGTi~~Aa~~Lk~~GAk~V~a~~tH~vfs 255 (314)
T COG0462 211 DVEGKDVVIV----DDI-IDTGGTIAKAAKALKERGAKKVYAAATHGVFS 255 (314)
T ss_pred ccCCCEEEEE----ecc-ccccHHHHHHHHHHHHCCCCeEEEEEEchhhC
Confidence 3456777777 776 68999998766 57988778888888543
No 272
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=23.37 E-value=3.3e+02 Score=24.36 Aligned_cols=60 Identities=20% Similarity=0.288 Sum_probs=36.0
Q ss_pred HHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCC-CCchHHHHHHHHHHHH
Q 025219 91 LHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVS-GHCNHRDVHHGIWSYL 167 (256)
Q Consensus 91 ~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d-~H~DH~~v~~av~~a~ 167 (256)
+.+-+..+|++..+....+ | +.+++.+.|.....+ +|+||+. .|.+ .|-|+ |.+++-.|+
T Consensus 26 la~~L~~~G~~v~~~~~Vg--D---------~~~~I~~~l~~a~~r--~D~vI~t--GGLGPT~DDi--T~e~vAka~ 86 (255)
T COG1058 26 LADELTELGVDLARITTVG--D---------NPDRIVEALREASER--ADVVITT--GGLGPTHDDL--TAEAVAKAL 86 (255)
T ss_pred HHHHHHhcCceEEEEEecC--C---------CHHHHHHHHHHHHhC--CCEEEEC--CCcCCCccHh--HHHHHHHHh
Confidence 4455666898543333333 2 346788888887775 9999997 4433 34444 345555555
No 273
>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=23.37 E-value=6.2e+02 Score=24.08 Aligned_cols=99 Identities=16% Similarity=0.163 Sum_probs=56.0
Q ss_pred HHHHHHhCC-CcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC---------------CCC---ccc
Q 025219 59 TINYLTSRR-HNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF---------------QDG---FDK 119 (256)
Q Consensus 59 tl~~l~~~G-~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~---------------~dg---~~~ 119 (256)
++..|.++| .+|+.+++--|..+ .--+++++-|..+|+ ..+++.|..+- ..| ...
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 456777888 88888888777541 233455667788998 56777775431 001 001
Q ss_pred cCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHH
Q 025219 120 LWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYL 167 (256)
Q Consensus 120 ~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~ 167 (256)
.-.+.-+++.+.++.++.+.+.| .| |..+-.+-+.=.+.+..++
T Consensus 87 sl~RplIa~~~v~~A~~~ga~~v-aH---G~TgkGNDqvRFe~~~~al 130 (388)
T PF00764_consen 87 SLARPLIAKKLVEVAREEGADAV-AH---GCTGKGNDQVRFELSIRAL 130 (388)
T ss_dssp CCHHHHHHHHHHHHHHHHT-SEE-E-------TTSSHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHcCCeEE-ec---cCCcCCCchhHHHHHHHHh
Confidence 11235677888889898888887 44 4444444455555555554
No 274
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=23.36 E-value=3.7e+02 Score=23.02 Aligned_cols=44 Identities=16% Similarity=0.146 Sum_probs=24.5
Q ss_pred HHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 92 HRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 92 ~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
.+.|+..|+| +...+..+.. .... .. +.+.+.+++++||++++.
T Consensus 42 ~~~A~~~gIp---~~~~~~~~~~--~~~~-~~----~~~~~~l~~~~~Dliv~a 85 (207)
T PLN02331 42 AEYARENGIP---VLVYPKTKGE--PDGL-SP----DELVDALRGAGVDFVLLA 85 (207)
T ss_pred HHHHHHhCCC---EEEeccccCC--Cccc-ch----HHHHHHHHhcCCCEEEEe
Confidence 4567778994 3333332211 0111 12 234566788899999886
No 275
>PRK09739 hypothetical protein; Provisional
Probab=23.35 E-value=1.1e+02 Score=25.46 Aligned_cols=38 Identities=21% Similarity=0.338 Sum_probs=27.1
Q ss_pred CCcEEEEecCchhhhcchHHHHHHHH-----hCCCcEEEEEEeCC
Q 025219 39 KKNVLLVIAHPDDESMFFSPTINYLT-----SRRHNLHILCMSNG 78 (256)
Q Consensus 39 ~~~vLvv~aHPDDE~l~~Ggtl~~l~-----~~G~~V~vv~lT~G 78 (256)
.+++|+|.+||... +....+++.. ++|++|.++-+.+-
T Consensus 3 mmkiliI~~sp~~~--s~s~~l~~~~~~~~~~~g~~v~~~dL~~~ 45 (199)
T PRK09739 3 SMRIYLVWAHPRHD--SLTAKVAEAIHQRAQERGHQVEELDLYRS 45 (199)
T ss_pred CceEEEEEcCCCCC--CcHHHHHHHHHHHHHHCCCEEEEEEhhhh
Confidence 46899999999875 4455555443 46888888877653
No 276
>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=23.27 E-value=4.6e+02 Score=22.14 Aligned_cols=73 Identities=10% Similarity=0.113 Sum_probs=40.7
Q ss_pred HHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcC-CCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-
Q 025219 62 YLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVLK-IPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC- 137 (256)
Q Consensus 62 ~l~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LG-v~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~- 137 (256)
.+.++ |+ -.+++++..........|.+..+++++..+ + .+. .... ..|+.+...+.+.+++++.
T Consensus 116 ~l~~~~~g~-~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~---~~~--~~~~------~~~~~~~~~~~~~~~l~~~~ 183 (273)
T cd06309 116 WLAKATGGK-GNIVELQGTVGSSVAIDRKKGFAEVIKKYPNM---KIV--ASQT------GDFTRAKGKEVMEALLKAHG 183 (273)
T ss_pred HHHHHcCCC-ceEEEEeCCCCCchHHHHHHHHHHHHHHCCCC---EEe--eccC------CcccHHHHHHHHHHHHHhCC
Confidence 44454 54 344445422222334678888899998763 3 222 1111 1244555566777888765
Q ss_pred -CCCEEEecC
Q 025219 138 -SIDLIITFD 146 (256)
Q Consensus 138 -~Pd~V~t~d 146 (256)
+|+.|++.+
T Consensus 184 ~~~~aI~~~~ 193 (273)
T cd06309 184 DDIDAVYAHN 193 (273)
T ss_pred CCccEEEECC
Confidence 489998873
No 277
>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=23.22 E-value=69 Score=29.00 Aligned_cols=24 Identities=13% Similarity=0.241 Sum_probs=18.8
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEec
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
++++.-+.+.+++++++||+++..
T Consensus 137 ~E~eqp~~i~~Ll~~~~PDIlViT 160 (283)
T TIGR02855 137 KEKEMPEKVLDLIEEVRPDILVIT 160 (283)
T ss_pred cchhchHHHHHHHHHhCCCEEEEe
Confidence 345667789999999999996654
No 278
>PRK10680 molybdopterin biosynthesis protein MoeA; Provisional
Probab=23.18 E-value=6.5e+02 Score=23.91 Aligned_cols=92 Identities=18% Similarity=0.177 Sum_probs=53.3
Q ss_pred HHHHHHHHhCCCc-------EEEEEEeCCCC----C---CchHHHH---HHHHHHHHHcCCCCCcEEEccC-CCCCCCcc
Q 025219 57 SPTINYLTSRRHN-------LHILCMSNGNA----D---GMGNIRK---DELHRACAVLKIPLEQVKVLDL-VDFQDGFD 118 (256)
Q Consensus 57 Ggtl~~l~~~G~~-------V~vv~lT~G~~----~---~~~~~R~---~E~~~A~~~LGv~~~~~~~l~~-~d~~dg~~ 118 (256)
.+.|..|+..|.. ..+.++++|+. + ..+++|. .-+.+.++.+|+ ++..++. +|
T Consensus 158 p~~i~lLas~G~~~V~V~~~prV~iistGdEl~~~~~~~~~g~i~dsn~~~l~a~l~~~G~---~~~~~~~v~D------ 228 (411)
T PRK10680 158 TAELPVLASLGIAEVPVVRKVRVALFSTGDELQLPGQPLGDGQIYDTNRLAVHLMLEQLGC---EVINLGIIRD------ 228 (411)
T ss_pred HHHHHHHHhCCCCeEEecCCCEEEEEccCCeEeCCCCCCCCCEEEEhHHHHHHHHHHHCCC---EEEEEEEeCC------
Confidence 4678888888842 35677788863 1 1233322 234566788898 3333332 33
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHH
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWS 165 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~ 165 (256)
+.+++.+.|.+.. .+.|+|+|. |+.+..++-.+.++..+
T Consensus 229 ---d~~~i~~~l~~a~--~~~DlvItt---GG~S~G~~D~~~~al~~ 267 (411)
T PRK10680 229 ---DPHALRAAFIEAD--SQADVVISS---GGVSVGEADYTKTILEE 267 (411)
T ss_pred ---CHHHHHHHHHHhc--cCCCEEEEc---CCCCCCCcchHHHHHHh
Confidence 3356666666643 368999997 54555555555555544
No 279
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=23.18 E-value=3.5e+02 Score=21.12 Aligned_cols=71 Identities=14% Similarity=0.147 Sum_probs=28.0
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCC-CEEE
Q 025219 65 SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSI-DLII 143 (256)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~P-d~V~ 143 (256)
++|..- .+++|.|........-.+-+++.+...|+|.+.+...+... +..+-+....+++.+.+. .+++
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 445433 35556655432222223334556666799877665533211 233445566677777653 4444
Q ss_pred ec
Q 025219 144 TF 145 (256)
Q Consensus 144 t~ 145 (256)
..
T Consensus 104 VT 105 (155)
T PF02698_consen 104 VT 105 (155)
T ss_dssp E-
T ss_pred EC
Confidence 43
No 280
>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=23.10 E-value=4.5e+02 Score=24.79 Aligned_cols=82 Identities=21% Similarity=0.117 Sum_probs=43.9
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCC
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDG 116 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg 116 (256)
..++|+.+. +.||=. -|....|.+.|.+|..++...++... ..|. |.. .+..+.+. ..+..+|
T Consensus 297 l~gk~v~i~-~~~~~~----~~l~~~L~e~G~~v~~v~~~~~~~~~--~~~~-~~~--~~~~~~~~---~~v~~~d---- 359 (428)
T cd01965 297 LGGKRVAIA-GDPDLL----LGLSRFLLEMGAEPVAAVTGTDNPPF--EKRM-ELL--ASLEGIPA---EVVFVGD---- 359 (428)
T ss_pred hcCCEEEEE-cChHHH----HHHHHHHHHcCCcceEEEEcCCCchh--HHHH-HHh--hhhcCCCc---eEEECCC----
Confidence 456777655 566632 35666667789988766665443321 1122 211 22233321 1222122
Q ss_pred ccccCChHHHHHHHHHHHHhcCCCEEEec
Q 025219 117 FDKLWNHKSLAKIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 117 ~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~ 145 (256)
. ..+.+.+++.+||+|+..
T Consensus 360 ------~----~el~~~i~~~~pdliig~ 378 (428)
T cd01965 360 ------L----WDLESLAKEEPVDLLIGN 378 (428)
T ss_pred ------H----HHHHHHhhccCCCEEEEC
Confidence 1 245667788899999986
No 281
>PLN02699 Bifunctional molybdopterin adenylyltransferase/molybdopterin molybdenumtransferase
Probab=22.99 E-value=3.9e+02 Score=27.21 Aligned_cols=41 Identities=15% Similarity=0.166 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHH
Q 025219 123 HKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSY 166 (256)
Q Consensus 123 ~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a 166 (256)
.+.+.+.|.+.+.....|+|+|. |+.+..+.-.+.+++...
T Consensus 509 ~~~I~~~l~~~~~~~~~DlVItT---GGts~g~~D~tpeal~~l 549 (659)
T PLN02699 509 VEKIKDVLQKWSDIDRMDLILTL---GGTGFTPRDVTPEATKEV 549 (659)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEC---CCccCCCCcchHHHHHHH
Confidence 45677777776654579999997 445555555555555554
No 282
>cd05778 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta. DNA polymerase zeta is a family-B DNA polymerase which is distantly related to DNA polymerase delta. It plays a major role in translesion replication and the production of either spontaneous or induced mutations. In addition, DNA polymerase zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The DnaQ-like 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are crucial for metal binding and catalysis.
Probab=22.87 E-value=1.2e+02 Score=26.35 Aligned_cols=28 Identities=11% Similarity=0.087 Sum_probs=23.5
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecCCCC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFDNYG 149 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d~~g 149 (256)
++.++...+.++++++.||+|..++-.+
T Consensus 80 ~E~~LL~~f~~~i~~~DPDii~GyNi~~ 107 (231)
T cd05778 80 SELELFEELIDLVRRFDPDILSGYEIQR 107 (231)
T ss_pred CHHHHHHHHHHHHHHhCCCEEEEecccc
Confidence 4568899999999999999999986444
No 283
>PRK13551 agmatine deiminase; Provisional
Probab=22.83 E-value=3e+02 Score=25.87 Aligned_cols=83 Identities=14% Similarity=0.019 Sum_probs=43.1
Q ss_pred HHHHHHH-HHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHH
Q 025219 88 KDELHRA-CAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSY 166 (256)
Q Consensus 88 ~~E~~~A-~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a 166 (256)
++|.++. .+.||+ +++++|+..-..|..+.. ++.+++++ .|+.|+..... ...|++|....+ ..+.
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 3444444 556999 789999753222222211 23344444 78988776321 224666654443 3333
Q ss_pred Hh---hcCCCceeEEEecch
Q 025219 167 LN---GTSERNIEAWELMTT 183 (256)
Q Consensus 167 ~~---~~~~~~~~~~e~~s~ 183 (256)
++ ....+...+.+++.+
T Consensus 249 L~~~~da~G~~~~i~~lP~P 268 (362)
T PRK13551 249 LENTTDAKGRKLKVHKLPIP 268 (362)
T ss_pred HHhhhhccCCccEEEEecCC
Confidence 32 234456666766554
No 284
>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=22.72 E-value=4.7e+02 Score=22.11 Aligned_cols=78 Identities=6% Similarity=0.055 Sum_probs=44.2
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc---CCCEEEecCCCCCCCCchHHHH
Q 025219 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC---SIDLIITFDNYGVSGHCNHRDV 159 (256)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~---~Pd~V~t~d~~g~d~H~DH~~v 159 (256)
....|.+-+.++++..|.........+ .|+.+...+.+.+++++. +||.|++.+. ..
T Consensus 131 ~~~~R~~gf~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d----------~~ 190 (270)
T cd01544 131 IEDPRETAFREYMKEKGLYDPELIYIG----------DFTVESGYQLMKEALKSLGDNLPTAFFIASD----------PM 190 (270)
T ss_pred hhhHHHHHHHHHHHHcCCCChheEeeC----------CCCHHHHHHHHHHHHhccCCCCCCEEEEcCc----------HH
Confidence 345688888999999885211111111 123344455667777764 4899988731 34
Q ss_pred HHHHHHHHhhcC---CCceeEEEe
Q 025219 160 HHGIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 160 ~~av~~a~~~~~---~~~~~~~e~ 180 (256)
+..+..+++..+ ++++.++..
T Consensus 191 a~g~~~~l~~~g~~vp~di~v~g~ 214 (270)
T cd01544 191 AIGALRALQEAGIKVPEDVSVISF 214 (270)
T ss_pred HHHHHHHHHHcCCCCCCceEEEEE
Confidence 455566665433 346666654
No 285
>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=22.62 E-value=3.4e+02 Score=20.39 Aligned_cols=64 Identities=19% Similarity=0.261 Sum_probs=41.6
Q ss_pred EEEEeCCCCCCchHHHHHHHHHHHHH-cCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcC--CCEEEecCCC
Q 025219 72 ILCMSNGNADGMGNIRKDELHRACAV-LKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCS--IDLIITFDNY 148 (256)
Q Consensus 72 vv~lT~G~~~~~~~~R~~E~~~A~~~-LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~--Pd~V~t~d~~ 148 (256)
++.+|.|+ -.+++.++++. +|-..+++..++++... +.++..+.+.+.+++.+ -.+++..|-.
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 45666662 34666677766 46524588888876421 45678888999998874 3466666654
Q ss_pred C
Q 025219 149 G 149 (256)
Q Consensus 149 g 149 (256)
|
T Consensus 68 g 68 (116)
T PF03610_consen 68 G 68 (116)
T ss_dssp T
T ss_pred C
Confidence 4
No 286
>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=22.61 E-value=6.7e+02 Score=23.79 Aligned_cols=78 Identities=12% Similarity=0.156 Sum_probs=46.0
Q ss_pred HHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCC-CCCCC--c-----ccc----------CC
Q 025219 61 NYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLV-DFQDG--F-----DKL----------WN 122 (256)
Q Consensus 61 ~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~-d~~dg--~-----~~~----------~~ 122 (256)
..+.+.|.+|..+++-.|.. ..-.++.++.|+.+|++ .+++.|.. .+... + +.. -.
T Consensus 17 ~~l~e~g~~V~av~id~Gq~----~~e~~~a~~~a~~lGi~--~~~viD~~~ef~~~~~~~~i~~n~~y~~~Y~l~t~la 90 (394)
T TIGR00032 17 KWLREKGYEVIAYTADVGQP----EEDIDAIPEKALEYGAE--NHYTIDAREEFVKDYGFAAIQANAFYEGTYPLSTALA 90 (394)
T ss_pred HHHHHcCCEEEEEEEecCCC----hHHHHHHHHHHHHhCCC--eEEEEeCHHHHHHhhchhhhcCCccccCcccccchhh
Confidence 34456799998888877632 11233456778999983 34566553 11100 0 000 01
Q ss_pred hHHHHHHHHHHHHhcCCCEEEe
Q 025219 123 HKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 123 ~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
...+.+.+.++.++...+.|..
T Consensus 91 R~li~~~l~~~A~~~G~~~Ia~ 112 (394)
T TIGR00032 91 RPLIAKKLVEAAKKEGANAVAH 112 (394)
T ss_pred HHHHHHHHHHHHHHcCCCEEEE
Confidence 2456677888888889998764
No 287
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=22.59 E-value=2.3e+02 Score=26.49 Aligned_cols=95 Identities=12% Similarity=-0.013 Sum_probs=52.0
Q ss_pred EEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCC--------
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDF-------- 113 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~-------- 113 (256)
++.++.=-|=-+ ++..+.++|.+|..+++..+..... ..=.+..++.|+.||++ +++++.++.
T Consensus 9 lValSGGVDSsv-----aa~LL~~~G~~V~~v~~~~~~~~~~-~~d~~~a~~va~~LgIp---~~vvd~~~~f~~~v~~~ 79 (360)
T PRK14665 9 LLGMSGGTDSSV-----AAMLLLEAGYEVTGVTFRFYEFNGS-TEYLEDARALAERLGIG---HITYDARKVFRKQIIDY 79 (360)
T ss_pred EEEEcCCHHHHH-----HHHHHHHcCCeEEEEEEecCCCCCC-hHHHHHHHHHHHHhCCC---EEEEecHHHHHHHHHhh
Confidence 344454444332 3344456899999999876643221 11234567899999993 556665421
Q ss_pred -CCCc--cccCChH-----HHH-HHHHHHHHhcCCCEEEec
Q 025219 114 -QDGF--DKLWNHK-----SLA-KIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 114 -~dg~--~~~~~~~-----~l~-~~l~~~i~~~~Pd~V~t~ 145 (256)
.+.. ....++. .+. ..+.++.++...+.|.|-
T Consensus 80 f~~~y~~g~tpnpC~~Cnr~ikf~~l~~~A~~~G~~~IATG 120 (360)
T PRK14665 80 FIDEYMSGHTPVPCTLCNNYLKWPLLAKIADEMGIFYLATG 120 (360)
T ss_pred hhhHHhccCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEC
Confidence 0000 0111121 222 456667777888988874
No 288
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=22.24 E-value=5.4e+02 Score=24.04 Aligned_cols=63 Identities=16% Similarity=0.303 Sum_probs=41.8
Q ss_pred EecCchhh---hcchHH-HHHHHHhCCCcEEEEEEeCCCCCCchHHH--HHHHHHHHHHcCCCCCcEEEcc
Q 025219 45 VIAHPDDE---SMFFSP-TINYLTSRRHNLHILCMSNGNADGMGNIR--KDELHRACAVLKIPLEQVKVLD 109 (256)
Q Consensus 45 v~aHPDDE---~l~~Gg-tl~~l~~~G~~V~vv~lT~G~~~~~~~~R--~~E~~~A~~~LGv~~~~~~~l~ 109 (256)
-.+.|+|- +|+.|= +-.+|+++|.+|-+.++|.....+....| .+|+.+..+.++. +.+.+..
T Consensus 38 ~laDPeDSD~N~if~avkiydeL~~~GedveVA~VsG~~~~~v~ad~~I~~qld~vl~~~~~--~~~i~Vs 106 (344)
T PF04123_consen 38 ALADPEDSDVNAIFGAVKIYDELKAEGEDVEVAVVSGSPDVGVEADRKIAEQLDEVLSKFDP--DSAIVVS 106 (344)
T ss_pred hcCCcccccHHHHHHHHHHHHHHHhcCCCeEEEEEECCCCCchhhHHHHHHHHHHHHHhCCC--CEEEEEe
Confidence 45678873 232221 22356678999999999877666654444 3778888999987 5666654
No 289
>PRK11865 pyruvate ferredoxin oxidoreductase subunit beta; Provisional
Probab=21.94 E-value=6.1e+02 Score=23.12 Aligned_cols=125 Identities=14% Similarity=0.034 Sum_probs=74.4
Q ss_pred CcEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCC-------------------ch------HHHHHHHHHH
Q 025219 40 KNVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADG-------------------MG------NIRKDELHRA 94 (256)
Q Consensus 40 ~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~-------------------~~------~~R~~E~~~A 94 (256)
.+|++++-=-+=-.+|+++++ .....|.++.+|++-|+.++. .| ..+++.+.+.
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 357777655554567876654 555678999999998776421 01 2235666677
Q ss_pred HHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCCCc
Q 025219 95 CAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSERN 174 (256)
Q Consensus 95 ~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~~ 174 (256)
+...|++ .+....- -+..++.+.+.+.++.-.|.+|....|-......|=..+-+.++.|++. .-
T Consensus 171 a~a~g~~--YVA~~~~----------~~~~~l~~~i~~A~~~~Gps~I~v~sPC~~~~~~~~~~~~~~~klAvet---g~ 235 (299)
T PRK11865 171 MAAHGIP--YVATASI----------GYPEDFMEKVKKAKEVEGPAYIQVLQPCPTGWGFPPEKTIEIGRLAVET---GY 235 (299)
T ss_pred HHHcCCC--EEEEEeC----------CCHHHHHHHHHHHHhCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHhc---Cc
Confidence 7777882 2222221 1346778888888888889998887664432222333444555656542 23
Q ss_pred eeEEEe
Q 025219 175 IEAWEL 180 (256)
Q Consensus 175 ~~~~e~ 180 (256)
..+||.
T Consensus 236 ~plye~ 241 (299)
T PRK11865 236 WPLFEI 241 (299)
T ss_pred eeEEEE
Confidence 344554
No 290
>COG1011 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=21.92 E-value=95 Score=25.87 Aligned_cols=20 Identities=15% Similarity=0.273 Sum_probs=11.9
Q ss_pred HHHHHhCCCcEEEEEEeCCC
Q 025219 60 INYLTSRRHNLHILCMSNGN 79 (256)
Q Consensus 60 l~~l~~~G~~V~vv~lT~G~ 79 (256)
+..+.+.+....+.++|||.
T Consensus 105 ~~~L~~l~~~~~l~ilTNg~ 124 (229)
T COG1011 105 LEALKELGKKYKLGILTNGA 124 (229)
T ss_pred HHHHHHHHhhccEEEEeCCC
Confidence 33333333337788999984
No 291
>PRK08125 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated
Probab=21.86 E-value=4.7e+02 Score=26.27 Aligned_cols=82 Identities=22% Similarity=0.224 Sum_probs=44.9
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcccc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKL 120 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~ 120 (256)
|+++++.++ ++-++|..|.+.|++|.. ++|..+... +...-....+.|+..|+| +. ...+.
T Consensus 2 kivf~g~~~-----~a~~~l~~L~~~~~~i~~-V~t~pd~~~-~~~~~~~v~~~a~~~~ip---~~--~~~~~------- 62 (660)
T PRK08125 2 KAVVFAYHD-----IGCVGIEALLAAGYEIAA-VFTHTDNPG-ENHFFGSVARLAAELGIP---VY--APEDV------- 62 (660)
T ss_pred eEEEECCCH-----HHHHHHHHHHHCCCcEEE-EEeCCCCCc-CCCCcCHHHHHHHHcCCc---EE--eeCCC-------
Confidence 556665431 345788889889998763 344333211 111222456678889984 22 11111
Q ss_pred CChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 121 WNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 121 ~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+.++ +.+.+++.+||++++..
T Consensus 63 -~~~~----~~~~l~~~~~D~iv~~~ 83 (660)
T PRK08125 63 -NHPL----WVERIRELAPDVIFSFY 83 (660)
T ss_pred -CcHH----HHHHHHhcCCCEEEEcc
Confidence 1122 24456778999998763
No 292
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=21.81 E-value=5.3e+02 Score=22.30 Aligned_cols=109 Identities=7% Similarity=0.113 Sum_probs=55.4
Q ss_pred CchhhhcchHHHHHHHH-hC-CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHH
Q 025219 48 HPDDESMFFSPTINYLT-SR-RHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKS 125 (256)
Q Consensus 48 HPDDE~l~~Ggtl~~l~-~~-G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~ 125 (256)
.+|++. +|-.++++. +. |.+-.+++++..........|.+..+++++..|+ ++...... .++.+.
T Consensus 127 ~~D~~~--~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~---~~~~~~~~--------~~~~~~ 193 (295)
T PRK10653 127 ASDNVA--GGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKF---NVLASQPA--------DFDRTK 193 (295)
T ss_pred ccChHH--HHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCC---EEEEecCC--------CCCHHH
Confidence 456664 344455443 44 3322344444221223456788999999999987 22211111 123333
Q ss_pred HHHHHHHHHHh-cCCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCCCceeEEE
Q 025219 126 LAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSERNIEAWE 179 (256)
Q Consensus 126 l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~~~~~~e 179 (256)
..+.+.+++++ -+|+.|++.+. ..+..+..+++..+..++.+.-
T Consensus 194 ~~~~~~~~l~~~~~~~ai~~~~d----------~~A~g~l~al~~~G~~dv~vig 238 (295)
T PRK10653 194 GLNVMQNLLTAHPDVQAVFAQND----------EMALGALRALQTAGKSDVMVVG 238 (295)
T ss_pred HHHHHHHHHHhCCCcCEEEECCC----------hhHHHHHHHHHHcCCCceEEEE
Confidence 44455566654 34788888732 2344455565554433555443
No 293
>cd03821 GT1_Bme6_like This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide.
Probab=21.63 E-value=99 Score=26.77 Aligned_cols=38 Identities=18% Similarity=0.145 Sum_probs=24.7
Q ss_pred cEEEEecCchhhhcchHH-----HHHHHHhCCCcEEEEEEeCCC
Q 025219 41 NVLLVIAHPDDESMFFSP-----TINYLTSRRHNLHILCMSNGN 79 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Gg-----tl~~l~~~G~~V~vv~lT~G~ 79 (256)
|||+|.++.+.. .|.+. ....|.+.|++|++++.+.+.
T Consensus 1 kIl~i~~~~~~~-~gG~~~~~~~l~~~L~~~g~~v~v~~~~~~~ 43 (375)
T cd03821 1 KILHVIPSFDPK-YGGPVRVVLNLSKALAKLGHEVTVATTDAGG 43 (375)
T ss_pred CeEEEcCCCCcc-cCCeehHHHHHHHHHHhcCCcEEEEecCCCC
Confidence 578888887622 22222 233455789999999877664
No 294
>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=21.51 E-value=5e+02 Score=21.96 Aligned_cols=79 Identities=5% Similarity=-0.071 Sum_probs=44.7
Q ss_pred chHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh-cCCCEEEecCCCCCCCCchHHHHHH
Q 025219 83 MGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN-CSIDLIITFDNYGVSGHCNHRDVHH 161 (256)
Q Consensus 83 ~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~-~~Pd~V~t~d~~g~d~H~DH~~v~~ 161 (256)
....|.+-.+++++..|++.......+. .++.++..+.+.+++++ .+||.|++.+. .++.
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 3567888899999999884221111111 11233445566777764 35899998842 2455
Q ss_pred HHHHHHhhcC---CCceeEEEe
Q 025219 162 GIWSYLNGTS---ERNIEAWEL 180 (256)
Q Consensus 162 av~~a~~~~~---~~~~~~~e~ 180 (256)
.+..+++..+ +.++.+.-.
T Consensus 194 g~~~~l~~~g~~vP~di~vvg~ 215 (269)
T cd06297 194 GALQEAVELGLTVGEDVRVVGF 215 (269)
T ss_pred HHHHHHHHcCCCCCCceEEEEE
Confidence 5666665543 245555433
No 295
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=21.49 E-value=6.6e+02 Score=23.43 Aligned_cols=68 Identities=12% Similarity=0.050 Sum_probs=37.4
Q ss_pred hCCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 65 SRRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 65 ~~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
+.|.+ .++++|++.....+. ..+..+.++..|+ .+...+- .. . -+..+.++...+.+++.++|.|+.
T Consensus 28 ~~g~~-~~livt~~~~~~~g~--~~~v~~~L~~~~i---~~~~f~~--v~--~---np~~~~v~~~~~~~~~~~~D~Iia 94 (383)
T PRK09860 28 DYGFT-RTLIVTDNMLTKLGM--AGDVQKALEERNI---FSVIYDG--TQ--P---NPTTENVAAGLKLLKENNCDSVIS 94 (383)
T ss_pred hcCCC-EEEEEcCcchhhCcc--HHHHHHHHHHcCC---eEEEeCC--CC--C---CcCHHHHHHHHHHHHHcCCCEEEE
Confidence 34654 344556653222221 1245556666677 2333321 11 0 133456777888899999999998
Q ss_pred c
Q 025219 145 F 145 (256)
Q Consensus 145 ~ 145 (256)
-
T Consensus 95 i 95 (383)
T PRK09860 95 L 95 (383)
T ss_pred e
Confidence 7
No 296
>cd03791 GT1_Glycogen_synthase_DULL1_like This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family includes starch synthases of plants, such as DULL1 in Zea mays and glycogen synthases of various organisms.
Probab=21.33 E-value=1.6e+02 Score=27.74 Aligned_cols=19 Identities=11% Similarity=0.174 Sum_probs=12.8
Q ss_pred HHHHHHHhCCCcEEEEEEe
Q 025219 58 PTINYLTSRRHNLHILCMS 76 (256)
Q Consensus 58 gtl~~l~~~G~~V~vv~lT 76 (256)
+.-..|++.|++|.|++--
T Consensus 24 ~L~~aL~~~G~~V~Vi~p~ 42 (476)
T cd03791 24 ALPKALAKLGHDVRVIMPK 42 (476)
T ss_pred HHHHHHHHCCCeEEEEecC
Confidence 3334556789999888753
No 297
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.25 E-value=6.2e+02 Score=22.93 Aligned_cols=85 Identities=13% Similarity=0.171 Sum_probs=46.1
Q ss_pred HHHHHhC-CCcEEEEEEeCCC-CCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc
Q 025219 60 INYLTSR-RHNLHILCMSNGN-ADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC 137 (256)
Q Consensus 60 l~~l~~~-G~~V~vv~lT~G~-~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~ 137 (256)
+.++.++ |....+.++--|+ .....-.|.+ .++|+.+|+ +.....+|.. .+.+++.+.|.++-.+-
T Consensus 23 v~~l~~~~~~~P~Laii~vg~d~as~~Yv~~k--~k~a~~~Gi---~~~~~~l~~~-------~s~~el~~~I~~lN~d~ 90 (285)
T PRK10792 23 VQARVAAGLRAPGLAVVLVGSDPASQVYVASK--RKACEEVGF---VSRSYDLPET-------TSEAELLALIDELNADP 90 (285)
T ss_pred HHHHHHcCCCCceEEEEEeCCCHHHHHHHHHH--HHHHHHcCC---EEEEEECCCC-------CCHHHHHHHHHHHhCCC
Confidence 3344444 4444454444443 3333333433 478889999 4555555531 14567777777766655
Q ss_pred CCCEEEecCCCCCCCCchHHH
Q 025219 138 SIDLIITFDNYGVSGHCNHRD 158 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~ 158 (256)
+.|=|+.+=| ...|.|-..
T Consensus 91 ~V~GIlvqlP--LP~~~~~~~ 109 (285)
T PRK10792 91 TIDGILVQLP--LPAHIDNVK 109 (285)
T ss_pred CCCEEEEeCC--CCCCCCHHH
Confidence 5666777733 334555444
No 298
>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=21.16 E-value=4.6e+02 Score=25.38 Aligned_cols=53 Identities=15% Similarity=0.153 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHcCCCCCc------EEEccCCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEe
Q 025219 86 IRKDELHRACAVLKIPLEQ------VKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIIT 144 (256)
Q Consensus 86 ~R~~E~~~A~~~LGv~~~~------~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t 144 (256)
....++.+-|+.+|++.++ +.++..... . -..++....+.+.+++.+|+.|+.
T Consensus 301 Es~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~-----~-~~~~~~~~~i~~~i~~~~~~~vvI 359 (484)
T TIGR02655 301 ESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPE-----S-AGLEDHLQIIKSEIADFKPARIAI 359 (484)
T ss_pred CCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccc-----c-CChHHHHHHHHHHHHHcCCCEEEE
Confidence 3455666667888985433 444443211 1 134677888889999999997765
No 299
>cd06312 PBP1_ABC_sugar_binding_like_4 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=21.15 E-value=5.1e+02 Score=21.87 Aligned_cols=97 Identities=10% Similarity=0.066 Sum_probs=52.3
Q ss_pred HHHh-CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-CC
Q 025219 62 YLTS-RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC-SI 139 (256)
Q Consensus 62 ~l~~-~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~-~P 139 (256)
.+.+ .|++ .+++++..........|.+-..++++..|+. ..... . .|+.+...+.+.+++.+. +|
T Consensus 118 ~l~~~~g~~-~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~---~~~~~-~--------~~~~~~~~~~~~~~l~~~~~~ 184 (271)
T cd06312 118 RLAELKGGK-NVLCVIHEPGNVTLEDRCAGFADGLGGAGIT---EEVIE-T--------GADPTEVASRIAAYLRANPDV 184 (271)
T ss_pred HHHHhcCCC-eEEEEecCCCCccHHHHHHHHHHHHHhcCce---eeEee-c--------CCCHHHHHHHHHHHHHhCCCc
Confidence 3345 6765 4555542122233567888889998888772 11111 0 123344556667777653 58
Q ss_pred CEEEecCCCCCCCCchHHHHHHHHHHHHhhcCC-CceeEEEec
Q 025219 140 DLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSE-RNIEAWELM 181 (256)
Q Consensus 140 d~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~-~~~~~~e~~ 181 (256)
|.|++.+.. .+..+.++++..+. +++.++...
T Consensus 185 ~aI~~~~d~----------~a~g~~~al~~~g~~~di~vvg~d 217 (271)
T cd06312 185 DAVLTLGAP----------SAAPAAKALKQAGLKGKVKLGGFD 217 (271)
T ss_pred cEEEEeCCc----------cchHHHHHHHhcCCCCCeEEEEec
Confidence 999998422 22345555544332 456666443
No 300
>cd07062 Peptidase_S66_mccF_like Microcin C7 self-immunity protein determines resistance to exogenous microcin C7. Microcin C7 self-immunity protein (mccF): MccF, a homolog of the LD-carboxypeptidase family, mediates resistance against exogenously added microcin C7 (MccC7), a ribosomally-encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. The plasmid-encoded mccF gene is transcribed in the opposite direction to the other five genes (mccA-E) and is required for the full expression of immunity but not for production. The catalytic triad residues (Ser, His, Glu) of LD-carboxypeptidase are also conserved in MccF, strongly suggesting that MccF shares the hydrolytic activity with LD-carboxypeptidases. Substrates of MccF have not been deduced, but could likely be microcin C7 precursors. The possible role of MccF is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that M
Probab=21.12 E-value=6.2e+02 Score=22.83 Aligned_cols=44 Identities=16% Similarity=-0.038 Sum_probs=25.2
Q ss_pred HHHHHHHHhCCCcEEEEEEeCCC---CCCchHHHHHHHHHHHHHcCC
Q 025219 57 SPTINYLTSRRHNLHILCMSNGN---ADGMGNIRKDELHRACAVLKI 100 (256)
Q Consensus 57 Ggtl~~l~~~G~~V~vv~lT~G~---~~~~~~~R~~E~~~A~~~LGv 100 (256)
-..+..|.+.|.+|.+---.... ..+..+.|.+|+.+|.+-=.+
T Consensus 21 ~~~~~~L~~~G~~v~~~~~~~~~~~~~ag~~~~Ra~dL~~a~~Dp~i 67 (308)
T cd07062 21 ERAKKRLENLGFEVVEGPNALKGDKYLSASPEERAEELMAAFADPSI 67 (308)
T ss_pred HHHHHHHHhCCCEEEEecccccccccccCCHHHHHHHHHHHhcCCCC
Confidence 34466777778776544332221 124567788887777754444
No 301
>PRK13811 orotate phosphoribosyltransferase; Provisional
Probab=21.09 E-value=1.5e+02 Score=24.34 Aligned_cols=31 Identities=23% Similarity=0.134 Sum_probs=22.1
Q ss_pred CCCCCcEEEEecCchhhhcchHHHHHHHH----hCCCcEE
Q 025219 36 TGDKKNVLLVIAHPDDESMFFSPTINYLT----SRRHNLH 71 (256)
Q Consensus 36 ~~~~~~vLvv~aHPDDE~l~~Ggtl~~l~----~~G~~V~ 71 (256)
..+++++|+| ||. +.-|||+.... +.|.+|.
T Consensus 101 ~~~g~~VlIV----DDv-i~TG~T~~~~~~~l~~~Ga~v~ 135 (170)
T PRK13811 101 DVKGKRVLLV----EDV-TTSGGSALYGIEQLRAAGAVVD 135 (170)
T ss_pred ccCCCEEEEE----Eec-ccccHHHHHHHHHHHHCCCeEE
Confidence 4467788888 665 57888887665 4787755
No 302
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp 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.
Probab=21.08 E-value=3.5e+02 Score=19.93 Aligned_cols=99 Identities=10% Similarity=0.033 Sum_probs=51.6
Q ss_pred hhhcchHHHHHHHHhCCCcEEEEEEeCCCCCCchH---HHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHH
Q 025219 51 DESMFFSPTINYLTSRRHNLHILCMSNGNADGMGN---IRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLA 127 (256)
Q Consensus 51 DE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~~~~~~---~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~ 127 (256)
.+.+..+..+++ +.|.+++++.+.+++.....+ .+.++..+.++..|+ ...... . ....
T Consensus 13 ~~al~~a~~la~--~~~~~l~ll~v~~~~~~~~~~~~~~~l~~~~~~~~~~~~---~~~~~~------------~-~~~~ 74 (124)
T cd01987 13 ERLIRRAARLAD--RLKAPWYVVYVETPRLNRLSEAERRRLAEALRLAEELGA---EVVTLP------------G-DDVA 74 (124)
T ss_pred HHHHHHHHHHHH--HhCCCEEEEEEecCccccCCHHHHHHHHHHHHHHHHcCC---EEEEEe------------C-CcHH
Confidence 344444444444 357789999998876532222 222334444555555 122111 0 1235
Q ss_pred HHHHHHHHhcCCCEEEecCCCCCCCCchHHHHHHHHHHHHhh
Q 025219 128 KIVEEEVVNCSIDLIITFDNYGVSGHCNHRDVHHGIWSYLNG 169 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~ 169 (256)
+.|.+.+++.++|.|+.-. ...+.......+..+...++.
T Consensus 75 ~~I~~~~~~~~~dllviG~--~~~~~~~~~~~Gs~~~~v~~~ 114 (124)
T cd01987 75 EAIVEFAREHNVTQIVVGK--SRRSRWRELFRGSLVDRLLRR 114 (124)
T ss_pred HHHHHHHHHcCCCEEEeCC--CCCchHHHHhcccHHHHHHHh
Confidence 6788888999999998762 222223333344444444443
No 303
>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=20.98 E-value=6.7e+02 Score=23.18 Aligned_cols=75 Identities=16% Similarity=0.214 Sum_probs=39.8
Q ss_pred HHHHHHHhCCCcEEEEEEeCCCC-CCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHh
Q 025219 58 PTINYLTSRRHNLHILCMSNGNA-DGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVN 136 (256)
Q Consensus 58 gtl~~l~~~G~~V~vv~lT~G~~-~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~ 136 (256)
|.+.++.+.+.+ .++++|++.. ...+ -.++..+.++..|+ ++.+.+ +.. .-+..+.++.+.+.+++
T Consensus 13 g~l~~l~~~~~~-r~livt~~~~~~~~g--~~~~v~~~L~~~g~---~~~~~~--~v~-----~~p~~~~v~~~~~~~~~ 79 (375)
T cd08179 13 GSLEYLKTLKGK-KAFIVTGGGSMKKFG--FLDKVEAYLKEAGI---EVEVFE--GVE-----PDPSVETVLKGAEAMRE 79 (375)
T ss_pred CHHHHHHHhcCC-eEEEEeCchHHHhCC--hHHHHHHHHHHcCC---eEEEeC--CCC-----CCcCHHHHHHHHHHHHh
Confidence 345555444322 3455565421 1111 11344555555677 333332 211 11345667778888999
Q ss_pred cCCCEEEec
Q 025219 137 CSIDLIITF 145 (256)
Q Consensus 137 ~~Pd~V~t~ 145 (256)
.++|.|+.-
T Consensus 80 ~~~D~IIav 88 (375)
T cd08179 80 FEPDWIIAL 88 (375)
T ss_pred cCCCEEEEe
Confidence 999999997
No 304
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=20.91 E-value=7.4e+02 Score=23.70 Aligned_cols=90 Identities=12% Similarity=0.169 Sum_probs=42.0
Q ss_pred EEEEecCchhhhcchHHHHHHHHh--CCCcEEEEEEeCCCCCCchHHH----HHHHHHHH---HHc--CCCCCcEEEccC
Q 025219 42 VLLVIAHPDDESMFFSPTINYLTS--RRHNLHILCMSNGNADGMGNIR----KDELHRAC---AVL--KIPLEQVKVLDL 110 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~l~~--~G~~V~vv~lT~G~~~~~~~~R----~~E~~~A~---~~L--Gv~~~~~~~l~~ 110 (256)
+=+.+.||++.. -.+|..+++ +|..-.-+-+-+|+..-+...+ .++..++. +.. |+...--.+.|+
T Consensus 243 ir~~s~~p~~i~---~ell~~m~~~~~gc~~l~iglQSgsd~vLk~m~R~~t~e~~~~~v~~ir~~~pgi~i~~d~IvGf 319 (455)
T PRK14335 243 IRFMSSHPKDLS---DDLIATIAQESRLCRLVHLPVQHGSNGVLKRMNRSYTREHYLSLVGKLKASIPNVALSTDILIGF 319 (455)
T ss_pred EEEeecCcccCC---HHHHHHHHhCCCCCCeEEEccCcCCHHHHHHcCCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEeC
Confidence 334677887643 345555655 3565555555555432111110 12333332 222 441111235666
Q ss_pred CCCCCCccccCChHHHHHHHHHHHHhcCCCEEE
Q 025219 111 VDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLII 143 (256)
Q Consensus 111 ~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~ 143 (256)
|. +.++-.+...+++++.++|.+.
T Consensus 320 Pg---------ET~edf~~Tl~~i~~l~~~~~~ 343 (455)
T PRK14335 320 PG---------ETEEDFEQTLDLMREVEFDSAF 343 (455)
T ss_pred CC---------CCHHHHHHHHHHHHhcCCCeEE
Confidence 64 1233345566667777777643
No 305
>cd05779 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon. DNA polymerase epsilon 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 delta are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase epsilon plays a role in elongating the leading strand during DNA replication. It is also involved in DNA repair. The catalytic subunit contains both polymerase and 3'-5' exonuclease activities. The N-terminal 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. DNA polymerase epsilon also carries a unique
Probab=20.87 E-value=1.4e+02 Score=25.44 Aligned_cols=25 Identities=20% Similarity=0.383 Sum_probs=21.9
Q ss_pred ChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 122 NHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 122 ~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
++.++.....+++++.+||+|++++
T Consensus 72 ~E~~lL~~f~~~i~~~~Pd~i~gyN 96 (204)
T cd05779 72 DEKALLQRFFEHIREVKPHIIVTYN 96 (204)
T ss_pred CHHHHHHHHHHHHHHhCCCEEEecC
Confidence 4568888999999999999999994
No 306
>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=20.73 E-value=5.7e+02 Score=22.32 Aligned_cols=59 Identities=17% Similarity=0.280 Sum_probs=32.6
Q ss_pred CCCCcEEEEecCchhhhcchHHHHHHHHhCCCcEEEE-EEeCCCCCCchHHHHHHHHHHHHHc
Q 025219 37 GDKKNVLLVIAHPDDESMFFSPTINYLTSRRHNLHIL-CMSNGNADGMGNIRKDELHRACAVL 98 (256)
Q Consensus 37 ~~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv-~lT~G~~~~~~~~R~~E~~~A~~~L 98 (256)
..-+|+-+++|.+||.. ......+.+.|.+|.-. .+--.+....+.+-.+++.++++.+
T Consensus 118 lg~~RIalvTPY~~~v~---~~~~~~l~~~G~eV~~~~~~~~~~~~~ia~i~p~~i~~~~~~~ 177 (239)
T TIGR02990 118 LGVRRISLLTPYTPETS---RPMAQYFAVRGFEIVNFTCLGLTDDREMARISPDCIVEAALAA 177 (239)
T ss_pred cCCCEEEEECCCcHHHH---HHHHHHHHhCCcEEeeeeccCCCCCceeeecCHHHHHHHHHHh
Confidence 45678888888888875 44455566778876544 2211111123344444455555444
No 307
>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=20.66 E-value=5.1e+02 Score=21.68 Aligned_cols=93 Identities=12% Similarity=0.100 Sum_probs=50.3
Q ss_pred HHHhC--CCcEEEEEEeCCCCCCchHHHHHHHHHHHHHc-CCCCCcEEEccCCCCCCCccccCChHHHHHHHHHHHHhc-
Q 025219 62 YLTSR--RHNLHILCMSNGNADGMGNIRKDELHRACAVL-KIPLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVVNC- 137 (256)
Q Consensus 62 ~l~~~--G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~L-Gv~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~~~- 137 (256)
.+.+. |++ .+.+++. ........|.+-.+++++.. |+ .+. .... + ++.+...+.+.+++++.
T Consensus 113 ~l~~~~~g~~-~i~~i~~-~~~~~~~~R~~gf~~~~~~~~~~---~~~--~~~~---~----~~~~~~~~~~~~~l~~~~ 178 (267)
T cd06322 113 LAAKVLNGKG-QVAIIDY-PTVQSVVDRVRGFKEALADYPNI---KIV--AVQP---G----ITRAEALTAAQNILQANP 178 (267)
T ss_pred HHHHHhCCCc-eEEEEec-CCCccHHHHHHHHHHHHHhCCCc---EEE--EecC---C----CChHHHHHHHHHHHHhCC
Confidence 34443 765 4455553 22233566888888899888 77 222 1111 0 12244455667777653
Q ss_pred CCCEEEecCCCCCCCCchHHHHHHHHHHHHhhcCCCceeEE
Q 025219 138 SIDLIITFDNYGVSGHCNHRDVHHGIWSYLNGTSERNIEAW 178 (256)
Q Consensus 138 ~Pd~V~t~d~~g~d~H~DH~~v~~av~~a~~~~~~~~~~~~ 178 (256)
+|+.|++.+.. ++..+.++++..+.+++.+.
T Consensus 179 ~~~ai~~~~d~----------~a~~~~~al~~~g~~di~vv 209 (267)
T cd06322 179 DLDGIFAFGDD----------AALGAVSAIKAAGRDNVKVI 209 (267)
T ss_pred CCCEEEEcCCc----------HHHHHHHHHHHCCCCCeEEE
Confidence 58999987321 34455566655443445444
No 308
>PRK14077 pnk inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=20.47 E-value=5.5e+02 Score=23.15 Aligned_cols=87 Identities=13% Similarity=0.020 Sum_probs=46.9
Q ss_pred EEEEecCchhhhcchHHHHHH-HHhCCCcEEEEEEeCC--------------CC------CCchHHHHHHHHHHHHHcCC
Q 025219 42 VLLVIAHPDDESMFFSPTINY-LTSRRHNLHILCMSNG--------------NA------DGMGNIRKDELHRACAVLKI 100 (256)
Q Consensus 42 vLvv~aHPDDE~l~~Ggtl~~-l~~~G~~V~vv~lT~G--------------~~------~~~~~~R~~E~~~A~~~LGv 100 (256)
-+.|.+||+.+..-+...|.. +.+.|.++.+---+.. +. ||.|-. ..|++.+.-
T Consensus 12 ~i~ii~~~~~~~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~Dlvi~iGGDGT~-----L~aa~~~~~ 86 (287)
T PRK14077 12 KIGLVTRPNVSLDKEILKLQKILSIYKVEILLEKESAEILDLPGYGLDELFKISDFLISLGGDGTL-----ISLCRKAAE 86 (287)
T ss_pred EEEEEeCCcHHHHHHHHHHHHHHHHCCCEEEEecchhhhhcccccchhhcccCCCEEEEECCCHHH-----HHHHHHhcC
Confidence 345557777777666677766 4467776655321100 00 233332 234444332
Q ss_pred CCCcEEEccCCCCCCCccccCChHHHHHHHHHHHH
Q 025219 101 PLEQVKVLDLVDFQDGFDKLWNHKSLAKIVEEEVV 135 (256)
Q Consensus 101 ~~~~~~~l~~~d~~dg~~~~~~~~~l~~~l~~~i~ 135 (256)
.++-+++...++-|+....+.+++.+.|.++++
T Consensus 87 --~~~PilGIN~G~lGFLt~~~~~~~~~~l~~i~~ 119 (287)
T PRK14077 87 --YDKFVLGIHAGHLGFLTDITVDEAEKFFQAFFQ 119 (287)
T ss_pred --CCCcEEEEeCCCcccCCcCCHHHHHHHHHHHHc
Confidence 234455555455566555567788888888775
No 309
>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=20.40 E-value=5.1e+02 Score=21.61 Aligned_cols=85 Identities=14% Similarity=0.166 Sum_probs=47.7
Q ss_pred hhhhcchHHHHHHHHh--CCCcEEEEEEeCCCCCCchHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCccccCChHHHH
Q 025219 50 DDESMFFSPTINYLTS--RRHNLHILCMSNGNADGMGNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFDKLWNHKSLA 127 (256)
Q Consensus 50 DDE~l~~Ggtl~~l~~--~G~~V~vv~lT~G~~~~~~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~~~~~~~~l~ 127 (256)
|.+.+ |-.++++.. .+.+..+++++..........|.+-+.++++-.+ .+..+.-.. ...|+.+...
T Consensus 103 d~~~~--G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~----~~~~~~~~~-----~~~~~~~~a~ 171 (257)
T PF13407_consen 103 DNYEA--GKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYP----GVEIVDEYE-----YTDWDPEDAR 171 (257)
T ss_dssp -HHHH--HHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCT----TEEEEEEEE-----ECTTSHHHHH
T ss_pred cHHHH--HHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcc----eeeeeeeee-----ccCCCHHHHH
Confidence 55543 444444442 2333556666443333334567777788877732 344444100 1125677888
Q ss_pred HHHHHHHHhcCCCEEEec
Q 025219 128 KIVEEEVVNCSIDLIITF 145 (256)
Q Consensus 128 ~~l~~~i~~~~Pd~V~t~ 145 (256)
+.+.+++...+++.|++.
T Consensus 172 ~~~~~~l~~~~~~~i~~~ 189 (257)
T PF13407_consen 172 QAIENLLQANPVDAIIAC 189 (257)
T ss_dssp HHHHHHHHHTTEEEEEES
T ss_pred HHHHHhhhcCCceEEEeC
Confidence 888888887767778776
No 310
>PLN02285 methionyl-tRNA formyltransferase
Probab=20.22 E-value=6.1e+02 Score=23.31 Aligned_cols=89 Identities=15% Similarity=0.202 Sum_probs=45.3
Q ss_pred CCCcEEEEecCchhhhcchHHHHHHHHhC------CCcEEEEEEeCCCC-CCch-HHHHHHHHHHHHHcCCCCCcEEEcc
Q 025219 38 DKKNVLLVIAHPDDESMFFSPTINYLTSR------RHNLHILCMSNGNA-DGMG-NIRKDELHRACAVLKIPLEQVKVLD 109 (256)
Q Consensus 38 ~~~~vLvv~aHPDDE~l~~Ggtl~~l~~~------G~~V~vv~lT~G~~-~~~~-~~R~~E~~~A~~~LGv~~~~~~~l~ 109 (256)
+..|+++++.. + +.-..|..+.+. +++|..| +|+-+. .+.+ .....-..+.|...|++.. .++
T Consensus 5 ~~~kI~f~Gt~---~--fa~~~L~~L~~~~~~~~~~~~iv~V-vt~~~~~~gr~~~~~~~pv~~~A~~~gIp~~--~v~- 75 (334)
T PLN02285 5 RKKRLVFLGTP---E--VAATVLDALLDASQAPDSAFEVAAV-VTQPPARRGRGRKLMPSPVAQLALDRGFPPD--LIF- 75 (334)
T ss_pred CccEEEEEECC---H--HHHHHHHHHHhhhhccCCCCeEEEE-EeCCCCcccCCcccCCCHHHHHHHHcCCCcc--eec-
Confidence 45688888754 1 344566666653 5666544 455432 2211 1111224456777899521 122
Q ss_pred CCCCCCCccccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 110 LVDFQDGFDKLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 110 ~~d~~dg~~~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
.|+ .. ..+++ .+.+++.+||++++..
T Consensus 76 ~~~------~~-~~~~~----~~~l~~~~~Dliv~~~ 101 (334)
T PLN02285 76 TPE------KA-GEEDF----LSALRELQPDLCITAA 101 (334)
T ss_pred Ccc------cc-CCHHH----HHHHHhhCCCEEEhhH
Confidence 222 11 11222 3446778999988763
No 311
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=20.13 E-value=3.7e+02 Score=19.86 Aligned_cols=24 Identities=21% Similarity=0.277 Sum_probs=11.7
Q ss_pred hhhhcchHHHHHHHHhCCCcEEEE
Q 025219 50 DDESMFFSPTINYLTSRRHNLHIL 73 (256)
Q Consensus 50 DDE~l~~Ggtl~~l~~~G~~V~vv 73 (256)
+=..+|..-..+.+.++|++|.++
T Consensus 11 ~~~~lGl~~la~~l~~~G~~v~~~ 34 (121)
T PF02310_consen 11 EVHPLGLLYLAAYLRKAGHEVDIL 34 (121)
T ss_dssp SSTSHHHHHHHHHHHHTTBEEEEE
T ss_pred cchhHHHHHHHHHHHHCCCeEEEE
Confidence 333445444444444556665544
No 312
>TIGR00460 fmt methionyl-tRNA formyltransferase. The top-scoring characterized proteins other than methionyl-tRNA formyltransferase (fmt) itself are formyltetrahydrofolate dehydrogenases. The mitochondrial methionyl-tRNA formyltransferases are so divergent that, in a multiple alignment of bacterial fmt, mitochondrial fmt, and formyltetrahydrofolate dehydrogenases, the mitochondrial fmt appears the most different. However, because both bacterial and mitochondrial fmt are included in the seed alignment, all credible fmt sequences score higher than any non-fmt sequence. This enzyme modifies Met on initiator tRNA to f-Met.
Probab=20.03 E-value=5.5e+02 Score=23.25 Aligned_cols=83 Identities=12% Similarity=0.112 Sum_probs=44.5
Q ss_pred cEEEEecCchhhhcchHHHHHHHHhCCCcEEEEEEeCCCC-CCc-hHHHHHHHHHHHHHcCCCCCcEEEccCCCCCCCcc
Q 025219 41 NVLLVIAHPDDESMFFSPTINYLTSRRHNLHILCMSNGNA-DGM-GNIRKDELHRACAVLKIPLEQVKVLDLVDFQDGFD 118 (256)
Q Consensus 41 ~vLvv~aHPDDE~l~~Ggtl~~l~~~G~~V~vv~lT~G~~-~~~-~~~R~~E~~~A~~~LGv~~~~~~~l~~~d~~dg~~ 118 (256)
|+++++... +.-++|..|.++|+++.. ++|..+. .+. ......-..+.|...|++ +. ...+.
T Consensus 2 kIvf~Gs~~-----~a~~~L~~L~~~~~~i~~-Vvt~pd~~~~r~~~~~~~~v~~~A~~~~Ip---v~--~~~~~----- 65 (313)
T TIGR00460 2 RIVFFGTPT-----FSLPVLEELREDNFEVVG-VVTQPDKPAGRGKKLTPPPVKVLAEEKGIP---VF--QPEKQ----- 65 (313)
T ss_pred EEEEECCCH-----HHHHHHHHHHhCCCcEEE-EEcCCCCccCCCCCCCCChHHHHHHHcCCC---EE--ecCCC-----
Confidence 566666541 334788888889988754 4454332 111 011112345667778884 22 21111
Q ss_pred ccCChHHHHHHHHHHHHhcCCCEEEecC
Q 025219 119 KLWNHKSLAKIVEEEVVNCSIDLIITFD 146 (256)
Q Consensus 119 ~~~~~~~l~~~l~~~i~~~~Pd~V~t~d 146 (256)
+.++ +.+.+++.+||++++..
T Consensus 66 ---~~~~----~~~~l~~~~~Dliv~~~ 86 (313)
T TIGR00460 66 ---RQLE----ELPLVRELKPDVIVVVS 86 (313)
T ss_pred ---CcHH----HHHHHHhhCCCEEEEcc
Confidence 1122 23456778999988764
Done!