Query 026236
Match_columns 241
No_of_seqs 118 out of 854
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 05:24:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026236.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026236hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02235 ATP citrate (pro-S)-l 100.0 2.4E-75 5.3E-80 551.2 23.5 237 1-240 183-422 (423)
2 COG0045 SucC Succinyl-CoA synt 100.0 7.9E-71 1.7E-75 511.5 21.3 206 1-240 180-387 (387)
3 PLN00124 succinyl-CoA ligase [ 100.0 2.7E-66 5.9E-71 492.0 21.1 201 2-237 218-420 (422)
4 KOG1447 GTP-specific succinyl- 100.0 1.1E-62 2.4E-67 440.6 13.3 202 1-236 208-410 (412)
5 PRK14046 malate--CoA ligase su 100.0 1.1E-55 2.5E-60 416.2 20.7 206 1-240 182-388 (392)
6 KOG2799 Succinyl-CoA synthetas 100.0 2.6E-57 5.7E-62 416.7 5.3 199 2-235 212-413 (434)
7 TIGR01016 sucCoAbeta succinyl- 100.0 2.3E-50 5E-55 377.9 19.7 202 2-237 183-385 (386)
8 PRK00696 sucC succinyl-CoA syn 100.0 3.1E-40 6.7E-45 309.7 21.4 202 2-238 183-386 (388)
9 PF00549 Ligase_CoA: CoA-ligas 99.9 1.8E-21 3.9E-26 162.9 9.7 124 93-234 1-151 (153)
10 KOG1254 ATP-citrate lyase [Ene 99.7 1.9E-19 4.1E-24 171.8 1.0 233 2-235 220-491 (600)
11 TIGR02717 AcCoA-syn-alpha acet 99.3 1E-10 2.2E-15 112.5 15.5 129 85-237 293-444 (447)
12 COG1042 Acyl-CoA synthetase (N 97.1 0.0048 1E-07 62.1 11.5 126 87-235 299-446 (598)
13 PF13607 Succ_CoA_lig: Succiny 95.9 0.11 2.4E-06 42.8 10.3 120 88-232 2-134 (138)
14 PRK06091 membrane protein FdrA 95.7 0.13 2.9E-06 51.4 11.6 121 86-238 192-317 (555)
15 PTZ00187 succinyl-CoA syntheta 95.6 0.19 4.2E-06 47.0 11.7 127 87-236 169-312 (317)
16 PLN02522 ATP citrate (pro-S)-l 95.5 0.15 3.3E-06 51.5 11.4 129 87-235 167-315 (608)
17 PLN00125 Succinyl-CoA ligase [ 94.2 0.64 1.4E-05 43.2 11.2 111 87-216 150-278 (300)
18 TIGR02717 AcCoA-syn-alpha acet 93.6 1.1 2.4E-05 43.4 12.0 125 86-236 149-287 (447)
19 TIGR01019 sucCoAalpha succinyl 93.4 1.5 3.2E-05 40.5 11.9 125 86-234 142-283 (286)
20 PRK05678 succinyl-CoA syntheta 93.2 2.2 4.7E-05 39.4 12.8 130 86-239 144-290 (291)
21 TIGR00640 acid_CoA_mut_C methy 92.3 3 6.5E-05 33.9 11.1 94 120-237 34-127 (132)
22 COG0074 SucD Succinyl-CoA synt 87.2 7.9 0.00017 36.0 10.6 108 75-202 135-243 (293)
23 cd07023 S49_Sppa_N_C Signal pe 80.2 18 0.0004 31.0 9.5 83 124-220 15-125 (208)
24 cd02071 MM_CoA_mut_B12_BD meth 78.6 30 0.00066 27.2 10.0 105 98-232 15-119 (122)
25 PRK05198 2-dehydro-3-deoxyphos 78.1 6.7 0.00014 36.0 6.3 25 194-218 61-85 (264)
26 cd07014 S49_SppA Signal peptid 76.5 16 0.00034 30.6 7.8 69 120-202 16-86 (177)
27 COG3693 XynA Beta-1,4-xylanase 75.7 14 0.00031 35.0 7.9 99 115-219 157-255 (345)
28 TIGR01362 KDO8P_synth 3-deoxy- 75.4 9.4 0.0002 34.9 6.5 49 167-218 16-77 (258)
29 COG2185 Sbm Methylmalonyl-CoA 75.2 48 0.001 27.7 11.1 92 122-238 46-138 (143)
30 PRK10727 DNA-binding transcrip 75.0 63 0.0014 29.0 12.1 119 87-237 176-303 (343)
31 cd06319 PBP1_ABC_sugar_binding 74.2 54 0.0012 27.9 11.7 122 87-237 125-252 (277)
32 PLN03033 2-dehydro-3-deoxyphos 73.1 12 0.00026 34.8 6.6 25 194-218 67-91 (290)
33 cd07019 S49_SppA_1 Signal pept 72.6 16 0.00034 31.6 7.1 70 122-205 17-88 (211)
34 PRK02261 methylaspartate mutas 72.4 51 0.0011 26.8 10.7 115 98-238 19-135 (137)
35 COG1646 Predicted phosphate-bi 71.0 15 0.00033 33.2 6.7 85 80-178 126-215 (240)
36 PRK11041 DNA-binding transcrip 71.0 71 0.0015 27.9 12.0 120 87-238 152-280 (309)
37 cd06287 PBP1_LacI_like_8 Ligan 70.2 61 0.0013 28.2 10.4 119 88-237 119-244 (269)
38 TIGR01768 GGGP-family geranylg 70.0 6.6 0.00014 35.1 4.2 81 81-174 112-199 (223)
39 PRK12457 2-dehydro-3-deoxyphos 69.6 14 0.00031 34.2 6.3 25 194-218 67-91 (281)
40 cd02072 Glm_B12_BD B12 binding 69.2 62 0.0013 26.4 10.0 98 106-232 22-125 (128)
41 PRK10949 protease 4; Provision 69.1 12 0.00027 38.1 6.4 64 123-198 344-407 (618)
42 cd06270 PBP1_GalS_like Ligand 69.0 68 0.0015 27.3 10.3 80 87-181 116-201 (268)
43 PRK01368 murD UDP-N-acetylmura 67.2 35 0.00076 33.1 8.9 89 118-239 321-409 (454)
44 PRK04690 murD UDP-N-acetylmura 64.9 41 0.00089 32.6 8.9 96 116-235 322-417 (468)
45 cd07022 S49_Sppa_36K_type Sign 64.6 54 0.0012 28.3 8.8 83 123-220 22-132 (214)
46 PRK01390 murD UDP-N-acetylmura 59.0 55 0.0012 31.3 8.5 87 118-237 333-419 (460)
47 cd01453 vWA_transcription_fact 58.2 73 0.0016 26.8 8.3 126 83-231 42-176 (183)
48 PF01171 ATP_bind_3: PP-loop f 57.7 1.1E+02 0.0024 25.4 10.2 99 122-235 6-115 (182)
49 TIGR00706 SppA_dom signal pept 57.0 42 0.00092 28.9 6.7 63 127-202 14-76 (207)
50 PRK03369 murD UDP-N-acetylmura 56.0 75 0.0016 31.0 9.0 94 118-239 329-453 (488)
51 TIGR00705 SppA_67K signal pept 55.9 27 0.00059 35.2 6.1 62 126-199 329-390 (584)
52 cd06281 PBP1_LacI_like_5 Ligan 55.1 1.3E+02 0.0029 25.5 10.1 122 87-238 116-243 (269)
53 COG1992 Uncharacterized conser 53.8 1.1E+02 0.0025 26.5 8.7 76 145-239 86-179 (181)
54 cd06278 PBP1_LacI_like_2 Ligan 53.5 1.2E+02 0.0027 25.4 9.0 122 87-238 115-242 (266)
55 cd01452 VWA_26S_proteasome_sub 53.5 61 0.0013 28.0 7.1 117 80-213 39-161 (187)
56 KOG1384 tRNA delta(2)-isopente 52.1 12 0.00025 35.6 2.6 90 91-199 11-107 (348)
57 cd01575 PBP1_GntR Ligand-bindi 52.1 1.4E+02 0.0031 25.0 10.6 120 87-238 116-244 (268)
58 TIGR01501 MthylAspMutase methy 52.0 1.3E+02 0.0029 24.6 11.1 97 119-235 32-130 (134)
59 PRK15395 methyl-galactoside AB 51.9 1.8E+02 0.004 26.2 11.2 108 104-238 185-292 (330)
60 cd00394 Clp_protease_like Case 50.5 80 0.0017 25.5 7.1 62 126-202 11-72 (161)
61 TIGR01037 pyrD_sub1_fam dihydr 49.9 1.8E+02 0.004 26.2 10.0 86 119-218 94-186 (300)
62 PRK06091 membrane protein FdrA 49.5 1.1E+02 0.0024 31.0 9.1 85 145-238 407-494 (555)
63 PRK04169 geranylgeranylglycery 49.1 37 0.0008 30.4 5.2 49 80-128 116-168 (232)
64 cd06283 PBP1_RegR_EndR_KdgR_li 48.4 1.6E+02 0.0035 24.6 11.6 117 88-237 117-244 (267)
65 PRK02628 nadE NAD synthetase; 47.8 1.4E+02 0.003 30.8 9.7 76 148-234 361-437 (679)
66 TIGR03628 arch_S11P archaeal r 47.8 59 0.0013 26.2 5.7 68 146-221 21-104 (114)
67 cd07018 S49_SppA_67K_type Sign 47.4 46 0.00099 29.0 5.5 83 123-220 26-136 (222)
68 cd06285 PBP1_LacI_like_7 Ligan 47.2 1.8E+02 0.0038 24.6 10.0 121 87-238 114-242 (265)
69 PRK14022 UDP-N-acetylmuramoyla 47.1 2.2E+02 0.0047 27.6 10.6 101 119-238 343-443 (481)
70 PRK10401 DNA-binding transcrip 46.9 2.1E+02 0.0045 25.6 9.9 121 87-237 176-303 (346)
71 PRK01438 murD UDP-N-acetylmura 46.6 1.3E+02 0.0028 28.9 8.9 93 118-238 346-442 (480)
72 TIGR03590 PseG pseudaminic aci 45.6 95 0.0021 27.8 7.4 68 151-231 173-240 (279)
73 cd06298 PBP1_CcpA_like Ligand- 45.4 1.8E+02 0.004 24.4 11.8 79 87-181 116-201 (268)
74 PF00465 Fe-ADH: Iron-containi 45.2 73 0.0016 29.6 6.8 78 88-178 22-103 (366)
75 PRK00766 hypothetical protein; 45.0 1.4E+02 0.003 26.1 8.0 29 188-216 145-173 (194)
76 TIGR01087 murD UDP-N-acetylmur 44.6 1.6E+02 0.0035 27.8 9.1 90 119-238 311-400 (433)
77 COG0616 SppA Periplasmic serin 44.3 87 0.0019 29.1 7.1 59 125-196 79-137 (317)
78 cd02810 DHOD_DHPD_FMN Dihydroo 43.7 2.4E+02 0.0051 25.1 10.4 87 120-219 103-194 (289)
79 cd06302 PBP1_LsrB_Quorum_Sensi 43.6 2.3E+02 0.0049 24.9 10.2 125 87-239 123-254 (298)
80 cd06288 PBP1_sucrose_transcrip 43.6 2E+02 0.0043 24.2 11.8 120 87-237 116-244 (269)
81 cd06289 PBP1_MalI_like Ligand- 43.4 2E+02 0.0043 24.1 11.2 78 87-181 117-202 (268)
82 PLN02775 Probable dihydrodipic 42.5 2.8E+02 0.0062 25.7 10.8 123 89-240 11-150 (286)
83 PF03313 SDH_alpha: Serine deh 41.9 1.2E+02 0.0027 27.7 7.6 100 88-209 166-266 (282)
84 PRK09607 rps11p 30S ribosomal 41.3 81 0.0018 26.0 5.6 49 165-221 55-111 (132)
85 KOG1255 Succinyl-CoA synthetas 41.1 37 0.00081 31.3 3.9 100 76-202 167-277 (329)
86 PTZ00323 NAD+ synthase; Provis 40.9 2.7E+02 0.0058 25.8 9.7 66 149-221 47-112 (294)
87 PRK09526 lacI lac repressor; R 40.9 2.6E+02 0.0056 24.8 11.7 117 87-237 181-306 (342)
88 CHL00041 rps11 ribosomal prote 40.4 79 0.0017 25.3 5.4 48 165-220 58-105 (116)
89 COG2099 CobK Precorrin-6x redu 40.1 1E+02 0.0022 28.3 6.6 44 192-240 47-92 (257)
90 PF02540 NAD_synthase: NAD syn 39.9 2.7E+02 0.0059 24.7 9.7 68 149-232 19-87 (242)
91 COG0054 RibH Riboflavin syntha 39.4 1.4E+02 0.003 25.3 6.8 111 103-238 34-148 (152)
92 cd06274 PBP1_FruR Ligand bindi 39.3 2.4E+02 0.0051 23.8 11.1 123 87-238 116-245 (264)
93 TIGR01481 ccpA catabolite cont 39.0 2.7E+02 0.0059 24.5 10.8 117 87-237 176-302 (329)
94 PRK02006 murD UDP-N-acetylmura 38.8 1.8E+02 0.004 28.2 8.7 91 118-238 366-456 (498)
95 KOG1250 Threonine/serine dehyd 38.7 1.1E+02 0.0024 30.1 6.9 95 119-239 89-183 (457)
96 TIGR01082 murC UDP-N-acetylmur 38.7 3.6E+02 0.0077 25.7 11.2 93 125-239 325-428 (448)
97 PRK04308 murD UDP-N-acetylmura 38.6 1.9E+02 0.0041 27.5 8.7 91 118-238 321-411 (445)
98 TIGR03632 bact_S11 30S ribosom 38.6 90 0.0019 24.5 5.4 48 165-220 45-92 (108)
99 PF00532 Peripla_BP_1: Peripla 38.3 1.1E+02 0.0023 27.3 6.5 83 88-189 119-208 (279)
100 PF00070 Pyr_redox: Pyridine n 37.7 1.2E+02 0.0025 21.5 5.5 54 152-218 2-58 (80)
101 cd07013 S14_ClpP Caseinolytic 37.6 84 0.0018 26.1 5.4 61 127-202 13-73 (162)
102 cd06291 PBP1_Qymf_like Ligand 37.5 2.5E+02 0.0054 23.6 12.2 79 87-181 112-197 (265)
103 PF07287 DUF1446: Protein of u 37.5 1.4E+02 0.003 28.6 7.4 31 187-217 71-101 (362)
104 cd06297 PBP1_LacI_like_12 Liga 36.9 1.2E+02 0.0026 26.0 6.4 117 87-237 113-244 (269)
105 cd06300 PBP1_ABC_sugar_binding 36.5 2.2E+02 0.0048 24.1 8.0 88 87-197 125-219 (272)
106 TIGR00034 aroFGH phospho-2-deh 36.4 3.1E+02 0.0067 26.2 9.5 62 152-218 49-136 (344)
107 COG2877 KdsA 3-deoxy-D-manno-o 35.0 2.4E+02 0.0051 26.0 8.0 62 152-218 18-92 (279)
108 PRK10014 DNA-binding transcrip 34.9 3.2E+02 0.007 24.2 10.2 80 87-181 182-267 (342)
109 PRK02705 murD UDP-N-acetylmura 34.3 2.9E+02 0.0063 26.2 9.2 91 119-239 328-420 (459)
110 cd06271 PBP1_AglR_RafR_like Li 34.1 2.8E+02 0.0061 23.2 10.7 76 127-214 104-180 (268)
111 PRK13780 phosphocarrier protei 34.1 60 0.0013 24.5 3.6 29 187-215 58-86 (88)
112 PRK05309 30S ribosomal protein 33.9 1.1E+02 0.0024 24.8 5.4 48 165-220 62-109 (128)
113 cd06293 PBP1_LacI_like_11 Liga 32.8 3E+02 0.0066 23.2 10.5 122 87-238 116-244 (269)
114 cd06291 PBP1_Qymf_like Ligand 32.8 3E+02 0.0065 23.1 9.5 80 124-214 93-172 (265)
115 PRK09261 phospho-2-dehydro-3-d 32.8 4E+02 0.0087 25.5 9.6 21 198-218 118-141 (349)
116 cd08182 HEPD Hydroxyethylphosp 32.4 1.9E+02 0.0041 26.9 7.4 71 92-175 27-99 (367)
117 cd07021 Clp_protease_NfeD_like 32.4 1.3E+02 0.0029 25.5 5.9 59 128-202 15-73 (178)
118 PRK12755 phospho-2-dehydro-3-d 32.2 3.9E+02 0.0084 25.7 9.4 62 152-218 55-142 (353)
119 cd06275 PBP1_PurR Ligand-bindi 32.2 3.1E+02 0.0066 23.1 10.4 80 87-181 117-202 (269)
120 cd01545 PBP1_SalR Ligand-bindi 32.2 3.1E+02 0.0066 23.0 9.6 80 87-181 118-203 (270)
121 PLN02748 tRNA dimethylallyltra 31.8 79 0.0017 31.3 4.9 94 90-198 25-121 (468)
122 PRK03803 murD UDP-N-acetylmura 31.5 4E+02 0.0086 25.3 9.6 94 118-238 319-412 (448)
123 PTZ00129 40S ribosomal protein 31.5 1.1E+02 0.0024 25.8 5.0 49 165-221 74-130 (149)
124 PRK02472 murD UDP-N-acetylmura 31.3 2.5E+02 0.0054 26.5 8.2 87 120-238 324-410 (447)
125 PF00793 DAHP_synth_1: DAHP sy 31.2 2.3E+02 0.0049 25.9 7.5 62 152-218 17-92 (270)
126 PRK11303 DNA-binding transcrip 31.1 3.7E+02 0.008 23.7 11.5 118 87-238 179-305 (328)
127 cd01304 FMDH_A Formylmethanofu 31.1 5.8E+02 0.013 25.9 11.6 101 127-238 156-292 (541)
128 PRK05406 LamB/YcsF family prot 30.8 1.8E+02 0.0039 26.5 6.6 141 79-239 26-203 (246)
129 TIGR02130 dapB_plant dihydrodi 30.7 1.7E+02 0.0037 27.0 6.6 65 161-240 75-139 (275)
130 COG0329 DapA Dihydrodipicolina 30.7 4E+02 0.0088 24.4 9.1 81 124-215 20-100 (299)
131 cd06312 PBP1_ABC_sugar_binding 30.2 2.3E+02 0.0051 24.1 7.2 51 125-191 164-214 (271)
132 PRK10423 transcriptional repre 30.1 3.8E+02 0.0082 23.5 10.4 122 87-237 174-301 (327)
133 PF00702 Hydrolase: haloacid d 30.0 2.4E+02 0.0052 22.9 6.9 63 167-238 127-192 (215)
134 KOG3040 Predicted sugar phosph 29.8 1.2E+02 0.0026 27.5 5.2 75 148-234 7-84 (262)
135 cd07016 S14_ClpP_1 Caseinolyti 29.3 2.2E+02 0.0048 23.0 6.6 60 125-202 14-73 (160)
136 cd02067 B12-binding B12 bindin 29.3 2.6E+02 0.0056 21.3 10.9 88 103-218 19-106 (119)
137 KOG3432 Vacuolar H+-ATPase V1 29.1 1.7E+02 0.0036 23.7 5.4 83 85-198 15-97 (121)
138 PRK12569 hypothetical protein; 29.1 2.1E+02 0.0045 26.1 6.7 140 79-239 29-204 (245)
139 cd06296 PBP1_CatR_like Ligand- 28.9 3.5E+02 0.0076 22.7 9.1 97 126-235 100-198 (270)
140 COG0541 Ffh Signal recognition 28.9 3.2E+02 0.007 27.1 8.4 71 157-240 111-181 (451)
141 cd01543 PBP1_XylR Ligand-bindi 28.8 2.5E+02 0.0054 23.8 7.1 78 87-181 109-195 (265)
142 PRK00421 murC UDP-N-acetylmura 28.7 5.3E+02 0.011 24.7 11.2 101 119-239 327-433 (461)
143 PRK00141 murD UDP-N-acetylmura 28.4 2.4E+02 0.0051 27.4 7.6 100 116-239 333-433 (473)
144 cd06280 PBP1_LacI_like_4 Ligan 28.4 3.6E+02 0.0078 22.7 8.4 115 88-238 116-239 (263)
145 COG0769 MurE UDP-N-acetylmuram 28.0 3.1E+02 0.0067 27.1 8.3 107 115-239 332-438 (475)
146 PRK13523 NADPH dehydrogenase N 27.9 1.7E+02 0.0037 27.4 6.3 44 168-218 194-244 (337)
147 cd02930 DCR_FMN 2,4-dienoyl-Co 27.8 1.8E+02 0.0039 27.1 6.4 46 168-218 189-241 (353)
148 cd08171 GlyDH-like2 Glycerol d 27.4 3.5E+02 0.0077 25.0 8.3 74 89-173 23-98 (345)
149 COG4080 SpoU rRNA Methylase fa 27.2 93 0.002 26.2 3.8 44 186-232 28-71 (147)
150 cd08184 Fe-ADH3 Iron-containin 27.1 3.3E+02 0.0072 25.5 8.0 64 103-176 41-104 (347)
151 cd06319 PBP1_ABC_sugar_binding 26.6 3.9E+02 0.0085 22.5 10.5 100 126-234 102-204 (277)
152 PRK12738 kbaY tagatose-bisphos 26.6 3.6E+02 0.0078 24.9 8.0 46 166-218 28-78 (286)
153 cd06286 PBP1_CcpB_like Ligand- 26.6 3.8E+02 0.0083 22.4 10.3 118 87-238 114-240 (260)
154 cd06273 PBP1_GntR_like_1 This 26.4 3.9E+02 0.0084 22.4 10.3 118 87-238 116-245 (268)
155 PF03702 UPF0075: Uncharacteri 26.4 45 0.00098 31.8 2.1 15 150-165 160-174 (364)
156 PRK00768 nadE NAD synthetase; 26.4 5.1E+02 0.011 23.7 11.2 109 105-236 5-119 (268)
157 PRK09426 methylmalonyl-CoA mut 26.2 7.7E+02 0.017 25.8 11.2 118 89-237 589-707 (714)
158 TIGR00030 S21p ribosomal prote 25.8 89 0.0019 22.0 3.0 27 190-216 2-28 (58)
159 cd07015 Clp_protease_NfeD Nodu 25.8 2.2E+02 0.0047 24.2 6.0 59 128-202 15-75 (172)
160 PF13768 VWA_3: von Willebrand 25.8 2.9E+02 0.0062 21.7 6.5 78 120-208 7-89 (155)
161 PF14639 YqgF: Holliday-juncti 25.6 40 0.00086 28.1 1.4 65 163-239 74-138 (150)
162 PRK10949 protease 4; Provision 25.6 2.5E+02 0.0054 28.8 7.4 94 127-235 96-229 (618)
163 cd05212 NAD_bind_m-THF_DH_Cycl 25.4 2.4E+02 0.0052 23.1 6.0 61 168-233 11-72 (140)
164 cd08170 GlyDH Glycerol dehydro 25.4 3.7E+02 0.008 24.8 8.0 69 91-173 25-97 (351)
165 cd06271 PBP1_AglR_RafR_like Li 25.2 4E+02 0.0087 22.2 10.5 119 87-238 120-248 (268)
166 cd07020 Clp_protease_NfeD_1 No 24.9 2.4E+02 0.0051 23.8 6.1 28 129-159 16-43 (187)
167 cd01541 PBP1_AraR Ligand-bindi 24.8 4.3E+02 0.0093 22.3 10.1 119 87-237 121-249 (273)
168 TIGR00036 dapB dihydrodipicoli 24.7 3E+02 0.0065 24.7 7.0 50 187-240 92-141 (266)
169 cd08194 Fe-ADH6 Iron-containin 24.3 3.6E+02 0.0078 25.3 7.8 57 104-173 44-100 (375)
170 cd08176 LPO Lactadehyde:propan 24.2 3.5E+02 0.0077 25.3 7.7 58 104-174 49-106 (377)
171 PRK06801 hypothetical protein; 24.2 4.5E+02 0.0098 24.2 8.2 63 166-235 28-95 (286)
172 PLN02495 oxidoreductase, actin 24.2 5.6E+02 0.012 24.7 9.1 84 119-216 117-209 (385)
173 cd08183 Fe-ADH2 Iron-containin 24.0 3.6E+02 0.0077 25.3 7.7 69 91-175 25-97 (374)
174 cd08551 Fe-ADH iron-containing 23.8 4.4E+02 0.0095 24.5 8.2 61 103-176 43-103 (370)
175 PRK10703 DNA-binding transcrip 23.5 5.2E+02 0.011 22.9 9.6 119 87-238 178-306 (341)
176 PRK10850 PTS system phosphohis 23.5 1.1E+02 0.0023 23.0 3.3 27 187-213 58-84 (85)
177 PF00381 PTS-HPr: PTS HPr comp 23.5 1.2E+02 0.0026 22.1 3.6 26 187-212 58-83 (84)
178 COG1609 PurR Transcriptional r 23.4 5.8E+02 0.013 23.4 11.8 121 88-237 176-303 (333)
179 PRK09195 gatY tagatose-bisphos 23.2 4.7E+02 0.01 24.1 8.1 45 167-218 29-78 (284)
180 PRK08318 dihydropyrimidine deh 23.1 4.4E+02 0.0095 25.1 8.2 85 119-217 103-196 (420)
181 TIGR01085 murE UDP-N-acetylmur 22.9 6.7E+02 0.015 23.9 10.5 95 124-239 338-437 (464)
182 cd06279 PBP1_LacI_like_3 Ligan 22.9 3.6E+02 0.0078 23.2 7.1 104 103-238 155-261 (283)
183 cd00587 HCP_like The HCP famil 22.7 1.7E+02 0.0038 26.7 5.1 58 156-218 158-215 (258)
184 cd04908 ACT_Bt0572_1 N-termina 22.7 96 0.0021 21.3 2.8 25 189-217 40-64 (66)
185 cd06296 PBP1_CatR_like Ligand- 22.5 4.7E+02 0.01 22.0 9.7 119 87-237 117-244 (270)
186 cd04733 OYE_like_2_FMN Old yel 22.4 2.7E+02 0.0059 25.7 6.5 46 168-218 201-253 (338)
187 cd02931 ER_like_FMN Enoate red 22.4 2.6E+02 0.0056 26.5 6.5 47 167-218 202-269 (382)
188 cd02932 OYE_YqiM_FMN Old yello 22.3 2.8E+02 0.0061 25.5 6.5 46 168-218 206-258 (336)
189 cd06294 PBP1_ycjW_transcriptio 22.1 4.7E+02 0.01 21.9 11.2 80 87-181 122-207 (270)
190 PLN02565 cysteine synthase 22.0 4.2E+02 0.0091 24.4 7.6 69 152-239 70-138 (322)
191 cd06300 PBP1_ABC_sugar_binding 22.0 4.9E+02 0.011 22.0 11.3 86 124-220 104-191 (272)
192 cd08181 PPD-like 1,3-propanedi 21.8 4.9E+02 0.011 24.2 8.1 72 90-174 27-104 (357)
193 PRK10703 DNA-binding transcrip 21.8 5.7E+02 0.012 22.6 9.2 94 128-234 163-258 (341)
194 cd06316 PBP1_ABC_sugar_binding 21.7 5.3E+02 0.011 22.3 13.1 86 86-191 125-216 (294)
195 cd06320 PBP1_allose_binding Pe 21.7 5E+02 0.011 22.0 10.0 88 124-239 162-251 (275)
196 PF03746 LamB_YcsF: LamB/YcsF 21.6 3E+02 0.0065 25.0 6.3 140 79-239 24-201 (242)
197 TIGR01858 tag_bisphos_ald clas 21.2 5.6E+02 0.012 23.6 8.2 13 167-179 27-39 (282)
198 COG4213 XylF ABC-type xylose t 21.2 4.6E+02 0.0099 25.1 7.6 61 164-237 224-284 (341)
199 PRK07565 dihydroorotate dehydr 21.2 6.4E+02 0.014 23.2 8.7 85 119-217 105-193 (334)
200 COG1058 CinA Predicted nucleot 21.1 4E+02 0.0088 24.3 7.1 63 127-214 46-108 (255)
201 PF03709 OKR_DC_1_N: Orn/Lys/A 21.0 2.4E+02 0.0052 21.9 5.0 87 131-238 26-113 (115)
202 COG1707 ACT domain-containing 21.0 5.7E+02 0.012 22.4 8.3 60 113-177 41-107 (218)
203 cd04883 ACT_AcuB C-terminal AC 20.7 1.4E+02 0.003 20.4 3.3 27 188-218 43-69 (72)
204 cd03008 TryX_like_RdCVF Trypar 20.7 4.8E+02 0.01 21.4 10.0 66 146-217 23-91 (146)
205 COG0381 WecB UDP-N-acetylgluco 20.7 6.5E+02 0.014 24.5 8.7 72 151-237 5-84 (383)
206 TIGR01101 V_ATP_synt_F vacuola 20.6 4E+02 0.0087 21.3 6.2 61 117-197 34-94 (115)
207 PRK14987 gluconate operon tran 20.6 5.9E+02 0.013 22.4 10.8 116 88-237 181-305 (331)
208 PRK12822 phospho-2-dehydro-3-d 20.4 7.8E+02 0.017 23.7 9.4 21 198-218 118-141 (356)
209 cd04747 OYE_like_5_FMN Old yel 20.3 3.2E+02 0.0069 26.0 6.5 47 167-218 195-252 (361)
210 COG2875 CobM Precorrin-4 methy 20.3 6.6E+02 0.014 23.0 8.1 65 152-231 53-120 (254)
211 PF02310 B12-binding: B12 bind 20.3 3.3E+02 0.0071 20.4 5.6 16 201-216 15-30 (121)
212 cd06316 PBP1_ABC_sugar_binding 20.2 5.7E+02 0.012 22.1 12.0 14 199-212 170-183 (294)
213 cd06312 PBP1_ABC_sugar_binding 20.2 5.4E+02 0.012 21.8 11.0 95 126-235 107-203 (271)
214 cd04740 DHOD_1B_like Dihydroor 20.2 6.3E+02 0.014 22.5 9.6 84 119-217 93-182 (296)
215 COG0399 WecE Predicted pyridox 20.1 2.2E+02 0.0047 27.4 5.4 47 102-159 86-135 (374)
216 cd06283 PBP1_RegR_EndR_KdgR_li 20.1 5.2E+02 0.011 21.5 10.3 100 125-235 98-198 (267)
No 1
>PLN02235 ATP citrate (pro-S)-lyase
Probab=100.00 E-value=2.4e-75 Score=551.18 Aligned_cols=237 Identities=90% Similarity=1.415 Sum_probs=218.3
Q ss_pred ChhhhhhhhcCceeeeeeceeeeCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhhccCccc
Q 026236 1 MGVFAVFQDLDFSFIEMNPFTLVNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLK 80 (241)
Q Consensus 1 ~~Ly~~f~~~D~~l~EINPL~~~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~~g~~l~ 80 (241)
.+||++|.++||||+|||||++.||+++|||+|++|||||+|||++.|..++||.||.|+.+|+|.++.+++++++++||
T Consensus 183 ~~Ly~~F~~~D~tllEINPLv~~dg~~~alDaK~~~DDnA~fR~~~~~~~~~f~~~fgr~~~~~E~~~~~~d~a~~~~l~ 262 (423)
T PLN02235 183 KGVFAVFQDLDFTFLEMNPFTLVDGEPYPLDMRGELDDTAAFKNFKKWGNIEFPLPFGRVMSPTESFIHGLDEKTSASLK 262 (423)
T ss_pred HHHHHHHHHcCCeEEEecceEeeCCCEEEEEeEEcccCCCcccCHhHhhhhcccccccCCCCHHHHhhccchhhhccCCc
Confidence 37999999999999999999998899999999999999999999998888889999999999999988888877777899
Q ss_pred eEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 81 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 81 yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
|+.+++|||||||+|||||+|+|||+|+++|++|+||||||+||+|+.++|++|+++|++.|+.++++++|||||||||
T Consensus 263 y~~v~ldG~Ig~mvnGAGlamaTmD~I~~~G~~g~pANFlDvGG~a~~e~v~~a~~iil~~~~~~~~vk~ilvnIfGGI- 341 (423)
T PLN02235 263 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATANPDGRKRALLIGGGI- 341 (423)
T ss_pred eEEeCCCCeEEEEecCcHHHHHHHHHHHHcCCCCCCceeeecCCCCCHHHHHHHHHHHHhhhhcCCCCcEEEEEEeccc-
Confidence 9666559999999999999999999999994339999999999999999999999999976666788888999999999
Q ss_pred ccccHHHHH---HHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTF---NGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA---~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
||||.|| +||++|++++..++++.++||||||.|||+++|+++|+++++++|+|+++|+++++|++||++||+..
T Consensus 342 --~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~GtN~eeG~~il~e~~~~~gl~i~~~~~~~~m~~a~~~av~~~ 419 (423)
T PLN02235 342 --ANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGGPNYQKGLAKMRALGEEIGVPIEVYGPEATMTGICKQAIDYI 419 (423)
T ss_pred --ccchhhhhhhhHHHHHHHHhhhccccCCccEEEECCCCCHHHHHHHHHHhHHhcCCcEEEeCCCCCHHHHHHHHHhhh
Confidence 6999999 99999999997656667899999999999999999998888899999999999999999999999876
Q ss_pred hhc
Q 026236 238 MSA 240 (241)
Q Consensus 238 ~~~ 240 (241)
.+|
T Consensus 420 ~~~ 422 (423)
T PLN02235 420 TAA 422 (423)
T ss_pred ccC
Confidence 554
No 2
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=7.9e-71 Score=511.48 Aligned_cols=206 Identities=23% Similarity=0.359 Sum_probs=183.3
Q ss_pred ChhhhhhhhcCceeeeeeceee-e-CCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhhccCc
Q 026236 1 MGVFAVFQDLDFSFIEMNPFTL-V-NGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSAS 78 (241)
Q Consensus 1 ~~Ly~~f~~~D~~l~EINPL~~-~-~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~~g~~ 78 (241)
.+||++|+++||+|+|||||++ . +|+++|||+|++|||||+||||++.. .|+.+++++ .|..+ ++.+
T Consensus 180 ~~Ly~~f~~~Da~lvEINPLvvt~~~g~v~aLDaKi~~DdnAlfRHp~~~~--------~~d~~~ed~--~e~~a-~~~~ 248 (387)
T COG0045 180 KKLYKLFVEKDATLVEINPLVVTPDGGDVLALDAKITLDDNALFRHPDLAE--------LRDESEEDP--REAEA-SGYG 248 (387)
T ss_pred HHHHHHHHHcCCcEEEeeccEEeCCCCcEEEEeeeeeccCcccccCcchhh--------hhcccccCh--hHHHh-hhCC
Confidence 3799999999999999999999 4 45999999999999999999999853 345444432 12221 2445
Q ss_pred cceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecc
Q 026236 79 LKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 158 (241)
Q Consensus 79 l~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GG 158 (241)
|+||.| |||||||+|||||+|+|||+|+++ ||+||||||+||+|+.++|++||++|++| |+ +++||||||||
T Consensus 249 l~yV~L--dG~IG~ivNGAGLaMaTmDii~~~--Gg~PANFLDvGGgA~~e~v~~a~~~il~d--~~--vk~IfVNIfGG 320 (387)
T COG0045 249 LNYVEL--DGNIGCIVNGAGLAMATMDIVKLY--GGKPANFLDVGGGATAERVKEAFKLILSD--PN--VKAIFVNIFGG 320 (387)
T ss_pred CceEEe--cCcEEEEecChhHHHHHHHHHHHc--CCCCcceeecCCCCCHHHHHHHHHHHhcC--CC--ccEEEEEEccC
Confidence 889999 999999999999999999999999 99999999999999999999999999998 54 45689999999
Q ss_pred ccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 159 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 159 I~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
| ||||++|+||++|+++.+ .++|+||||.|||+|+| |++|+++|+++++|+ +|++|++++|++++
T Consensus 321 I---~rcD~vA~GIi~Al~e~~-----~~vPlVVRL~GtN~e~G----k~iL~esg~~i~~~~---~l~~aa~k~v~~~~ 385 (387)
T COG0045 321 I---TRCDEVAEGIIAALKEVG-----VNVPLVVRLEGTNVEEG----KRILAESGLNIIAAD---DLDEAAEKAVELAK 385 (387)
T ss_pred c---CccHHHHHHHHHHHHhcC-----CCCCEEEEcCCCCHHHH----HHHHHHcCCceEecc---cHHHHHHHHHHHhh
Confidence 9 799999999999999987 48999999999999999 999999999988775 99999999999987
Q ss_pred hc
Q 026236 239 SA 240 (241)
Q Consensus 239 ~~ 240 (241)
++
T Consensus 386 ~~ 387 (387)
T COG0045 386 GK 387 (387)
T ss_pred cC
Confidence 63
No 3
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=100.00 E-value=2.7e-66 Score=492.02 Aligned_cols=201 Identities=22% Similarity=0.380 Sum_probs=179.7
Q ss_pred hhhhhhhhcCceeeeeeceee-eCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccch-hhccCcc
Q 026236 2 GVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLD-EKTSASL 79 (241)
Q Consensus 2 ~Ly~~f~~~D~~l~EINPL~~-~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~-~~~g~~l 79 (241)
+||++|.++|++++|||||++ .+|+++|+|+|+.+||||+||||++|. .|+.+++++ .|.+ .+.+ |
T Consensus 218 ~L~~lf~~~d~~~lEINPL~vt~~G~~valDAKi~~DdnA~~R~~~~~~--------~~~~~~~~~--~E~~a~~~~--l 285 (422)
T PLN00124 218 KLYKLFCKCDCTMVEINPLAETADGQLVAADAKLNFDDNAAFRQKEIFA--------LRDTSQEDP--REVAAAKAD--L 285 (422)
T ss_pred HHHHHHHhCCCeEEEeeceEEccCCCEEEEEEEECcCCchhhcChhhhh--------ccCcccCCh--hHHHHhhCC--C
Confidence 799999999999999999999 689999999999999999999999985 244443321 1222 2244 7
Q ss_pred ceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 80 KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
||+.| |||||||||||||+|+|||+|+++ ||+||||||+||+|+.++|++||+++++| +++++|||||||||
T Consensus 286 ~yv~l--dG~Ig~~vnGaGlamaTmD~i~~~--Gg~pANFlD~GG~a~~~~v~~a~~ii~~d----~~vk~iliNIfGGI 357 (422)
T PLN00124 286 NYIGL--DGEIGCMVNGAGLAMATMDIIKLH--GGSPANFLDVGGNASEQQVVEAFKILTSD----DKVKAILVNIFGGI 357 (422)
T ss_pred ceECC--CCcEEEEecCchHHHHHHHHHHHc--CCCcceeeecCCCCCHHHHHHHHHHHhcC----CCCcEEEEEecCCc
Confidence 89999 999999999999999999999999 99999999999999999999999999998 45556899999999
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
||||.+|+||++|+++++ .++||||||.|||+++| +++|+++|++++.|+ +|+|||++||+++
T Consensus 358 ---~~cd~iA~gii~a~~~~~-----~~~pivvRl~Gtn~~~g----~~~l~~~~~~~~~~~---~l~~A~~~~v~~~ 420 (422)
T PLN00124 358 ---MKCDVIASGIVNAAKQVG-----LKVPLVVRLEGTNVDQG----KRILKESGMTLITAE---DLDDAAEKAVKAL 420 (422)
T ss_pred ---cchHHHHHHHHHHHHhcC-----CCCcEEEEcCCCCHHHH----HHHHHhCCCCeEEcC---CHHHHHHHHHHHh
Confidence 799999999999999987 48999999999999999 888899999998765 9999999999875
No 4
>KOG1447 consensus GTP-specific succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=1.1e-62 Score=440.65 Aligned_cols=202 Identities=23% Similarity=0.377 Sum_probs=181.4
Q ss_pred ChhhhhhhhcCceeeeeeceee-eCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhhccCcc
Q 026236 1 MGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASL 79 (241)
Q Consensus 1 ~~Ly~~f~~~D~~l~EINPL~~-~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~~g~~l 79 (241)
++||.+|..-|++.+|||||+. .+|+++|+|+|++|||||.|||+|++++-. ..+.+|. |.++ +.++|
T Consensus 208 ~kLY~LF~avDAtQvEiNPl~ET~~G~V~cvDAK~NFDDnA~fRQKdIFamd~-----~eE~dPr-----EveA-akynL 276 (412)
T KOG1447|consen 208 TKLYNLFLAVDATQVEINPLGETPEGQVVCVDAKINFDDNAEFRQKDIFAMDD-----KEENDPR-----EVEA-AKYNL 276 (412)
T ss_pred HHHHHHHhhhcceEEEecccccCCCceEEEEeeeccCCchHhhhhcceeeccc-----ccccCch-----hhhh-hhcCc
Confidence 4799999999999999999999 699999999999999999999999976211 1222333 4442 24569
Q ss_pred ceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 80 KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
||+.+ ||||+|+||||||+|+|||+|+.+ ||+||||||+||+.+.++|++||+++.+| ||++.|+|||||||
T Consensus 277 nYigm--DGNIaClVNGAGLAMATmDiIkLn--GGePANFLDvGGgV~EdqV~~Af~ilTaD----PkVk~iLvNiFGGI 348 (412)
T KOG1447|consen 277 NYIGM--DGNIACLVNGAGLAMATMDIIKLN--GGEPANFLDVGGGVKEDQVYQAFKILTAD----PKVKAILVNIFGGI 348 (412)
T ss_pred ceeec--cCceEEEEccchhhhheeeeEEec--CCCCcceeeccCcccHHHHHHHhhhhccC----CceeEEEEehhcce
Confidence 99999 999999999999999999999999 99999999999999999999999999987 67777999999999
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
+ +|..||+||+.|.+++.. ++|+||||.|||.+++ ++||+++|+||. +..++++|+.+||..
T Consensus 349 V---NCAtIANGiv~A~~kl~L-----nVPlVVRLEGTNV~~A----~~Ilk~SGLpI~---tA~dLddAA~KAVas 410 (412)
T KOG1447|consen 349 V---NCATIANGIVKACRKLEL-----NVPLVVRLEGTNVQEA----QKILKKSGLPIT---TAIDLDDAAKKAVAS 410 (412)
T ss_pred e---hhHhHhhHHHHHHHhhcC-----CCcEEEEEcCCCHHHH----HHHHHhcCCcee---eccchHHHHHHHhhc
Confidence 6 899999999999999984 9999999999999999 999999999998 667999999999863
No 5
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=100.00 E-value=1.1e-55 Score=416.22 Aligned_cols=206 Identities=25% Similarity=0.383 Sum_probs=181.1
Q ss_pred ChhhhhhhhcCceeeeeeceee-eCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhhccCcc
Q 026236 1 MGVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASL 79 (241)
Q Consensus 1 ~~Ly~~f~~~D~~l~EINPL~~-~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~~g~~l 79 (241)
.+||++|.++||+|+|||||++ .||+++|||+|++|||||+||||+++.. ..+ ...+|+|.++ .++| |
T Consensus 182 ~~l~~~f~~~d~~l~EINPl~~~~~g~~~alD~k~~~Ddna~~r~~~~~~~-~~~----~~~~~~e~~a----~~~~--l 250 (392)
T PRK14046 182 MGCYRAFRDLDATMLEINPLVVTKDDRVLALDAKMSFDDNALFRRPNIAEM-RDP----SQEDPREAQA----AEHG--L 250 (392)
T ss_pred HHHHHHHHhcCcEEEEEEcceEcCCCcEEEEeeeECccCCchhcChhHHhh-cCc----ccCChhHHHH----HHcC--C
Confidence 3799999999999999999999 5999999999999999999999998751 111 2334555443 2356 7
Q ss_pred ceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 80 KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
+||.| |||||||+|||||+|+|||+|+.+ ||+|+||+|+||+++++++.++++++++| |+++ ++++|++||+
T Consensus 251 ~yv~l--~G~ig~i~nGaGl~m~t~D~i~~~--gg~paNPlDlgg~a~~e~~~~aL~~ll~D--p~Vd--aVlv~i~ggi 322 (392)
T PRK14046 251 SYVGL--DGDIGCIVNGAGLAMATMDMIKLA--GGEPANFLDVGGGASPERVAKAFRLVLSD--RNVK--AILVNIFAGI 322 (392)
T ss_pred ceEcc--CCcEEEEeCCccHHHHHHHHHHhc--CCCCcCCEEecCCCCHHHHHHHHHHHHcC--CCCC--EEEEEcCCCC
Confidence 79999 999999999999999999999999 99999999999999999999999999998 6555 5789999999
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
++|+.+|++|+++.++.. .++|||+|+.|++.+++ +++|+++|+|++. .++|++||++||++++.
T Consensus 323 ---~~~~~vA~~Ii~a~~~~~-----~~kPvvv~l~G~~~e~~----~~iL~~~Gipvf~---~~~~~~a~~~~v~~~~~ 387 (392)
T PRK14046 323 ---NRCDWVAEGVVQAAREVG-----IDVPLVVRLAGTNVEEG----RKILAESGLPIIT---ADTLAEAAEKAVEAWKG 387 (392)
T ss_pred ---CCHHHHHHHHHHHHHhcC-----CCCcEEEEcCCCCHHHH----HHHHHHcCCCeee---cCCHHHHHHHHHHHHhh
Confidence 799999999999999853 37899999999999999 8989999999884 45999999999999876
Q ss_pred c
Q 026236 240 A 240 (241)
Q Consensus 240 ~ 240 (241)
+
T Consensus 388 ~ 388 (392)
T PRK14046 388 A 388 (392)
T ss_pred h
Confidence 5
No 6
>KOG2799 consensus Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=100.00 E-value=2.6e-57 Score=416.71 Aligned_cols=199 Identities=23% Similarity=0.329 Sum_probs=181.0
Q ss_pred hhhhhhhhcCceeeeeeceee-eCC-cEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccch-hhccCc
Q 026236 2 GVFAVFQDLDFSFIEMNPFTL-VNG-EPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLD-EKTSAS 78 (241)
Q Consensus 2 ~Ly~~f~~~D~~l~EINPL~~-~~g-~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~-~~~g~~ 78 (241)
+||++|.+.|+|++|||||+. +++ .++|.|+|+.+||||.|||++++. .|+++|++.. |.+ +++.
T Consensus 212 kly~vf~~~dat~veinpl~e~t~d~~v~c~dak~~fd~na~fRq~~iF~--------~rd~~QEd~r--e~~aak~~-- 279 (434)
T KOG2799|consen 212 KLYKVFHKSDATQVEINPLAEITSDHKVTCMDAKLNFDDNAAFRQKKIFL--------LRDLSQEDPR--EVTAAKVD-- 279 (434)
T ss_pred HHHHHHhhccceeEEecchhhcccCceeeechhhhcccccHHHHhhhhhh--------ccchhhcCch--hhhHHHhc--
Confidence 799999999999999999999 645 999999999999999999998763 5777776542 333 5555
Q ss_pred cceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecc
Q 026236 79 LKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 158 (241)
Q Consensus 79 l~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GG 158 (241)
|||+.| ||+||||||||||+|+|||+|+.| ||.||||||+||+|+.|++.++|++|.++ +++..||+|||||
T Consensus 280 ln~igl--dG~igC~vngaglamaTmdiiklh--gg~panfldVGg~Atve~v~eaf~litsd----~kv~ailvnifGg 351 (434)
T KOG2799|consen 280 LNYIGL--DGNIGCLVNGAGLAMATMDIIKLH--GGTPANFLDVGGGATVEQVREAFSLITSD----KKVMAILVNIFGG 351 (434)
T ss_pred cceecc--CCccceeeccchhhhhheeeeeec--CCCCcceeeeCCCCcHHHHHHHHHHHhcC----hhHHHHHHHHhcC
Confidence 889999 999999999999999999999999 99999999999999999999999999998 5666689999999
Q ss_pred ccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 159 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 159 I~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
|+ |||.+|.||+.|.+++.. ++|||+||+||+.++| +.++.++|+.++.|+ ++++|++++|+
T Consensus 352 i~---rCDvia~Giv~aar~l~~-----~ipiv~rlqgt~v~~a----k~~i~~sgmri~~~d---eldeaa~~~v~ 413 (434)
T KOG2799|consen 352 IM---RCDVIAFGIVLAARELEL-----NIPIVVRLQGTRVEAA----KPIINTSGMRIRSFD---ELDEAAKKAVG 413 (434)
T ss_pred ee---eccceecchhhhhhhhhc-----CCCEEEEecCCchhhh----hhhHhhcCceEEech---hhhHHhhhhcc
Confidence 95 999999999999999985 9999999999999999 999999999999776 99999999643
No 7
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=100.00 E-value=2.3e-50 Score=377.88 Aligned_cols=202 Identities=24% Similarity=0.386 Sum_probs=177.0
Q ss_pred hhhhhhhhcCceeeeeeceee-eCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhhccCccc
Q 026236 2 GVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEKTSASLK 80 (241)
Q Consensus 2 ~Ly~~f~~~D~~l~EINPL~~-~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~~g~~l~ 80 (241)
+||++|.++|++++|||||++ .+|+++|+|+|++|||||.|||+++.. .|+.+++++. +...+++| ||
T Consensus 183 ~l~~~~~~~~~~~lEINPl~v~~~g~~~a~Daki~~dd~a~~r~~~~~~--------~~~~~~~~~~-e~~~~~~~--l~ 251 (386)
T TIGR01016 183 KLYQIFLEYDASLVEINPLVITKDGNLIALDAKLTIDDNALFRHPDLEE--------MRDYSQEDPR-EVLAKQWG--LN 251 (386)
T ss_pred HHHHHHHhCCceEEEeeeeEEcCCCCEEEEeeeEeeccchhhhcHHHHH--------hhcCCcCChh-hhHHHHcC--Cc
Confidence 799999999999999999999 688999999999999999999999864 2444443322 22235567 77
Q ss_pred eEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 81 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 81 yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
||.| +||||||+||||++|+|||++..+ |++|+||+|+||+++++++++++++++++ |+++ ++++|++||+
T Consensus 252 ~v~l--~G~i~~i~nG~Gl~~~t~D~~~~~--g~~~aNplDlgg~a~~~~~~~al~~l~~d--p~vd--~ilv~i~gg~- 322 (386)
T TIGR01016 252 YVAL--DGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGASAERVREALKLVLSD--KSVK--VVFINIFGGI- 322 (386)
T ss_pred EEcc--CCcEEEEECCccHHHHHHHHHHHc--CCCCCCcEEecCCCCHHHHHHHHHHHHcC--CCCC--EEEEECCCCC-
Confidence 9999 999999999999999999999999 99999999999999999999999999998 5554 5789999999
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
++|+.+|++|++++++.. +++|||+|+.|++.+++ +++|+++|+|+.+|. ++++|+++||+++
T Consensus 323 --~~~~~va~~i~~a~~~~~-----~~kPvvv~~~g~~~~~~----~~~L~~~G~~ip~~~---~~~~Av~~~~~~~ 385 (386)
T TIGR01016 323 --TRCDLVAKGLVEALKEVG-----VNVPVVVRLEGTNVEEG----KKILAESGLNIIFAT---SMEEAAEKAVEAA 385 (386)
T ss_pred --CCHHHHHHHHHHHHHhcC-----CCCcEEEEeCCccHHHH----HHHHHHcCCCccccC---CHHHHHHHHHHhh
Confidence 699999999999999864 36899999999999999 888999995556555 9999999999876
No 8
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=100.00 E-value=3.1e-40 Score=309.67 Aligned_cols=202 Identities=25% Similarity=0.392 Sum_probs=172.9
Q ss_pred hhhhhhhhcCceeeeeeceee-eCCcEEEeeeeeeecCCccccCccccccccCCCCCCCCCCccccccccchhh-ccCcc
Q 026236 2 GVFAVFQDLDFSFIEMNPFTL-VNGEPYPLDMRGELDDTAAFKNFKKWANIEFPLPFGRVLSSTESFIHSLDEK-TSASL 79 (241)
Q Consensus 2 ~Ly~~f~~~D~~l~EINPL~~-~~g~~~alDak~~iDdnA~fR~~e~~~~~~~~~~~~r~~~~~e~~~~e~~~~-~g~~l 79 (241)
+||++|.++|++++|||||++ .+|+++|+|+|+.+||||.|||+++.. + ++.++. .+.|.+++ ++ |
T Consensus 183 ~l~~l~~~~~~~~leiNPl~v~~~g~~~a~Dak~~ld~~a~~r~~~~~~-~-------~~~~~~--~~~e~~~~~~~--~ 250 (388)
T PRK00696 183 GLYKAFVEKDASLVEINPLVVTKDGDLIALDAKINFDDNALFRHPDLAE-L-------RDLSEE--DPLEAEASKYG--L 250 (388)
T ss_pred HHHHHHHhCCccEEEEeceEECCCCcEEEEeeEEeecCCccccCHhHHh-h-------cCCCcC--ChhhhHHHhcC--C
Confidence 789999999999999999999 688899999999999999999998542 1 222221 12233322 34 7
Q ss_pred ceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 80 KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
+||.| +||||+|+||||++|+|+|++..+ |++|+||+|+||.++++.++++++++++| |+++ ++++|++||+
T Consensus 251 ~~v~l--~~~i~ii~ng~G~~~~~~D~l~~~--g~~~~NPvDl~g~~~~e~~~~aL~~l~~d--~~vd--~vlv~~~~~~ 322 (388)
T PRK00696 251 NYVKL--DGNIGCMVNGAGLAMATMDIIKLY--GGEPANFLDVGGGATAERVAEAFKIILSD--PNVK--AILVNIFGGI 322 (388)
T ss_pred cEEec--CCcEEEEECCchHHHHHHHHHHHc--CCCcCCeEEecCCCCHHHHHHHHHHHhcC--CCCC--EEEEEeCCCC
Confidence 89999 999999999999999999999999 89999999999999999999999999998 6655 4788999888
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
++|+.+|++|+++.++.. .++||++|+.|++.+++ +++|+++|+|+.+|. ++++|++.+.++++
T Consensus 323 ---~~~~~va~~i~~~~~~~~-----~~kPvv~~~~g~~~~~~----~~~L~~~Gi~ip~f~---~pe~A~~al~~~~~ 386 (388)
T PRK00696 323 ---TRCDVIAEGIIAAVKEVG-----VTVPLVVRLEGTNVELG----KKILAESGLNIIAAD---TLDDAAQKAVEAAK 386 (388)
T ss_pred ---CCHHHHHHHHHHHHHhcC-----CCCcEEEEeCCCCHHHH----HHHHHHCCCCceecC---CHHHHHHHHHHHhc
Confidence 699999999999998742 26899999999999999 888999997777776 99999999998874
No 9
>PF00549 Ligase_CoA: CoA-ligase; InterPro: IPR005811 This entry represents a domain found in both the alpha and beta chains of succinyl-CoA synthase (6.2.1.4 from EC (GDP-forming) and 6.2.1.5 from EC (ADP-forming)) [, ]. This domain can also be found in ATP citrate synthase (2.3.3.8 from EC) and malate-CoA ligase (6.2.1.9 from EC). Some members of the domain utilise ATP others use GTP.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3DMY_B 3MWE_B 3PFF_A 3MWD_B 2YV1_A 1EUC_A 2FP4_A 1EUD_A 2FPI_A 2FPG_A ....
Probab=99.85 E-value=1.8e-21 Score=162.87 Aligned_cols=124 Identities=17% Similarity=0.219 Sum_probs=105.1
Q ss_pred EecCchhHHHHHHHHHhhc------------cCCCCcceeccCCCCC----------HHHHHHHHHHHhhcccCCCCcce
Q 026236 93 MVAGGGASVIYADTVGDLG------------YASELGNYAEYSGAPN----------EEEVLQYARVVIDCATADPDGRK 150 (241)
Q Consensus 93 mvnGaGlaMatmD~i~~~~------------~gg~pANFlD~GG~a~----------~~~v~~a~~iil~~~~~~~~~~~ 150 (241)
|+|||||+|.|||++..+. .|+.|+||+|+||.+. ++.+.++++.+++| +++++
T Consensus 1 l~~GgtL~~Ea~~~i~~~~~~~~sn~~~~~~~g~~~~~~lDlGgd~~t~GrphPmid~~~~~~~l~~~~~D----p~v~v 76 (153)
T PF00549_consen 1 LYNGGTLAMEAMDLISDALGDVYSNFKLANPLGGGPANFLDLGGDAFTQGRPHPMIDPSTRNEALEIEAAD----PEVKV 76 (153)
T ss_dssp EESSHHHHHHHHHHHHHTTT------GCCEEETCTEEEEEECTSSSSHTTS--TTT-SSHHHHHHHHHHTS----TTESE
T ss_pred CcCcHHHHHHHHHHHHHhhccccccccccccCCCCceeEEEeCCCcccccCcCCCcCHHHHHHHHHHHhcC----CCccE
Confidence 6899999999999999981 1458999999999999 79999999999998 45556
Q ss_pred EEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChh-----HHHHHHHHHHHHhCCCeEEcCCCCC
Q 026236 151 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ-----TGLAKMRALGEELGIPLEVYGPEAT 225 (241)
Q Consensus 151 i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~-----~g~~~l~~~l~~~gi~i~~~~~~~~ 225 (241)
||+|+++|| ++|++.|.++++++++... ...++|||+|+.||+++ ++ +++|+++|+.+. ++
T Consensus 77 Ilvd~~~G~---g~~~~~A~~l~~a~~~~~~--~~~~~pvVa~v~GT~~dpq~~~~~----~~~L~~~G~~v~-----~s 142 (153)
T PF00549_consen 77 ILVDIVGGI---GSCEDPAAGLIPAIKEAKA--EGRKKPVVARVCGTNADPQGRMGQ----AGALEDAGVIVA-----ES 142 (153)
T ss_dssp EEEEEESSS---SSHHHHHHHHHHHHSHCTH--TTT-SEEEEEEESTTCHTTSCHHH----HHHHHCTTCSCH-----HH
T ss_pred EEEEecccc---CchHHHHHHHHHHHHhccc--cCCCCcEEEEeeeecCCCCCcHHH----HHHHHhCCCccc-----cc
Confidence 899999999 7999999999999999762 11389999999999999 99 899999998643 36
Q ss_pred HHHHHHHHH
Q 026236 226 MTGICKQAI 234 (241)
Q Consensus 226 m~eav~~av 234 (241)
..+|++.|.
T Consensus 143 ~~~A~~~A~ 151 (153)
T PF00549_consen 143 NAQAARAAG 151 (153)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHHHcC
Confidence 666766654
No 10
>KOG1254 consensus ATP-citrate lyase [Energy production and conversion]
Probab=99.75 E-value=1.9e-19 Score=171.84 Aligned_cols=233 Identities=40% Similarity=0.555 Sum_probs=205.6
Q ss_pred hhhhhhhhcCceeeeee-------ceee-eCC---cEEEeeeeeeecCCccccCccccc---------------------
Q 026236 2 GVFAVFQDLDFSFIEMN-------PFTL-VNG---EPYPLDMRGELDDTAAFKNFKKWA--------------------- 49 (241)
Q Consensus 2 ~Ly~~f~~~D~~l~EIN-------PL~~-~~g---~~~alDak~~iDdnA~fR~~e~~~--------------------- 49 (241)
.||.+|.+.|.+++|+| ||+. .-| +++-+|.....|+.|.|..-|.|.
T Consensus 220 ~Lgevgg~~ey~~~e~~k~g~~tkPlVaw~~gtcA~~F~~evqfghagtaa~~~~eka~akn~al~~ag~~vpesf~~l~ 299 (600)
T KOG1254|consen 220 VLGEVGGDEEYTFLEANKEGKITKPLVAWCIGTCADMFPLEVQFGHAGTAAFKNGEKAAAKNQALRDAGATVPESFDALG 299 (600)
T ss_pred eehhhcccceeehhhhhhcCCccCCEEEEecCccccccchhhhccccchhhhcchhhhhhcchhhhhccccCccchhhhh
Confidence 47899999999999999 9999 433 478999999999999999999998
Q ss_pred -----cccCCCCCCCCCCccccccccchhhccCccceEEecCCccEEEEecCc-hhHHHHHHHHHhhccCCCCcceeccC
Q 026236 50 -----NIEFPLPFGRVLSSTESFIHSLDEKTSASLKFTVLNPKGRIWTMVAGG-GASVIYADTVGDLGYASELGNYAEYS 123 (241)
Q Consensus 50 -----~~~~~~~~~r~~~~~e~~~~e~~~~~g~~l~yv~L~~dG~Ig~mvnGa-GlaMatmD~i~~~~~gg~pANFlD~G 123 (241)
.++++-+|+|..+..|..+.-++.+++.++++..|++.|+||++++|+ |.++.|-|+....++-.+.+|+-.+|
T Consensus 300 ~~i~~~~e~lv~~Grvvp~~Ev~pp~lp~d~saalklgllr~p~~i~t~Ia~~rGaeviYA~~p~~~~~a~elG~gg~~S 379 (600)
T KOG1254|consen 300 ADIQETYEFLVPFGRVVPKTEVPPPGLPEDTSAALKLGLLRKPGRIWTSIAGGRGAEVIYADVPISLGYASELGNGGVYS 379 (600)
T ss_pred hhhccchhcccccceecCcccCCCCCCChhhhhHhhhccccCCceEEEEecCCCCceeeecCchhhhhhHhhccccceEc
Confidence 678888889999999988888998888899999999999999999999 99999999988887677899999999
Q ss_pred CCCCHHHHHHHHHHHhhccc-CCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 124 GAPNEEEVLQYARVVIDCAT-ADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~-~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
|-+...++.+..+.++..|+ -.++....+.-+.|||+|||.......+|+.++.+.+..+.. .+-+.+|..|+|+++|
T Consensus 380 llw~~~~lp~Ya~kfie~~~m~~aDhgp~Vsga~ntI~~~ra~kdl~sslv~gLltigdRfgg-ald~aaR~f~~ayd~G 458 (600)
T KOG1254|consen 380 LLWFQRRLPQYARKFIEICTMLTADHGPAVSGAGNTIANFRAGKDLFSSLVRGLLTIGDRFGG-ALDIAARRFGPAYDKG 458 (600)
T ss_pred cccccccchHHHHHHHHHHhhccCCCCceeEeccCceEEeccHHHHHHHHHHHHhhhhhhhcc-hhhHHHHhcChhhhcc
Confidence 99999998888887776644 233433457889999999999999999999999999987775 8889999999999999
Q ss_pred HHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 203 LAKMRALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 203 ~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
|.-++..-+..+.|++++|.+-+|..+..+.++
T Consensus 459 L~~m~fv~~~~k~~~~V~Gighriksi~n~d~r 491 (600)
T KOG1254|consen 459 LAPMRFVGKMRKVPIEVYGIGHRIKSINNPDKR 491 (600)
T ss_pred CchHHHhhhhhCCCceecCCcceeeccCCcccc
Confidence 999999999999999999999888776665543
No 11
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=99.27 E-value=1e-10 Score=112.53 Aligned_cols=129 Identities=20% Similarity=0.249 Sum_probs=105.5
Q ss_pred cCCccEEEEecCchhHHHHHHHHHhhccCCCCc---------------------ceeccCCCCCHHHHHHHHHHHhhccc
Q 026236 85 NPKGRIWTMVAGGGASVIYADTVGDLGYASELG---------------------NYAEYSGAPNEEEVLQYARVVIDCAT 143 (241)
Q Consensus 85 ~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pA---------------------NFlD~GG~a~~~~v~~a~~iil~~~~ 143 (241)
....+|+++.|++|+++.+.|.+..+ |.+.+ |++|++|.++++.+.++++++++|
T Consensus 293 ~~g~rvaivs~sGG~g~l~aD~~~~~--Gl~lp~ls~~t~~~L~~~lp~~~~~~NPlDl~~~~~~~~~~~al~~l~~d-- 368 (447)
T TIGR02717 293 PKGNRVAIITNAGGPGVIATDACEEN--GLELAELSEATKNKLRNILPPEASIKNPVDVLGDATPERYAKALKTVAED-- 368 (447)
T ss_pred CCCCeEEEEECCchHHHHHHHHHHHc--CCCcCCCCHHHHHHHHHhCccccccCCCEecCCCCCHHHHHHHHHHHHcC--
Confidence 34688999999999999999999999 77766 999999999999999999999998
Q ss_pred CCCCcceEEEEEe-ccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC-CChhHHHHHHHHHHHHhCCCeEEcC
Q 026236 144 ADPDGRKRALLIG-GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG-PNYQTGLAKMRALGEELGIPLEVYG 221 (241)
Q Consensus 144 ~~~~~~~i~inI~-GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-tn~~~g~~~l~~~l~~~gi~i~~~~ 221 (241)
|+++. +++++. ++. ++++.+++.++++.++.. ++|+++...| +..++. ++.|.+.|+|++
T Consensus 369 p~vd~--Vlv~~~~~~~---~~~~~~a~~l~~~~~~~~------~KPvv~~~~gg~~~~~~----~~~L~~~Gip~f--- 430 (447)
T TIGR02717 369 ENVDG--VVVVLTPTAM---TDPEEVAKGIIEGAKKSN------EKPVVAGFMGGKSVDPA----KRILEENGIPNY--- 430 (447)
T ss_pred CCCCE--EEEEccCCcc---CCHHHHHHHHHHHHHhcC------CCcEEEEecCCccHHHH----HHHHHhCCCCcc---
Confidence 66665 565554 444 688999999999988752 5798999886 777788 888889999855
Q ss_pred CCCCHHHHHHHHHHHh
Q 026236 222 PEATMTGICKQAIDCI 237 (241)
Q Consensus 222 ~~~~m~eav~~av~~~ 237 (241)
.+.++|++....+.
T Consensus 431 --~~p~~A~~al~~~~ 444 (447)
T TIGR02717 431 --TFPERAVKALSALY 444 (447)
T ss_pred --CCHHHHHHHHHHHH
Confidence 38888887655443
No 12
>COG1042 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]
Probab=97.11 E-value=0.0048 Score=62.06 Aligned_cols=126 Identities=23% Similarity=0.302 Sum_probs=96.0
Q ss_pred CccEEEEecCchhHHHHHHHHHhhccCCC---------------------CcceeccCCCCCHHHHHHHHHHHhhcccCC
Q 026236 87 KGRIWTMVAGGGASVIYADTVGDLGYASE---------------------LGNYAEYSGAPNEEEVLQYARVVIDCATAD 145 (241)
Q Consensus 87 dG~Ig~mvnGaGlaMatmD~i~~~~~gg~---------------------pANFlD~GG~a~~~~v~~a~~iil~~~~~~ 145 (241)
.-++..+.||+|......|.+... |.+ ..|=+|+-|.++.+.-.++++.++.+ ++
T Consensus 299 g~~~~ivtn~Gg~gvla~D~l~~~--g~~l~~~~~~~~~~l~~~Lp~~~~~~NPvD~~~~a~~e~y~~~~~~~~~~--~~ 374 (598)
T COG1042 299 GDRVAIITNGGGPGVLAADALEER--GLKLAELSEETIEKLRSRLPPHASVKNPVDLTGDADAERYKKTLEILLRD--EN 374 (598)
T ss_pred CcceeEEecCCCccccchhHHHHc--CCCcCCCCHHHHHHHHhhcCccccccCCeeeecCCcHHHHHHHHHHHHhc--cC
Confidence 578999999999999999999998 554 57889999999999999999999998 66
Q ss_pred CCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhccccee-EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCC
Q 026236 146 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMH-IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEA 224 (241)
Q Consensus 146 ~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP-iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~ 224 (241)
...+ +++.+.+.. +.-...|+.++.+.... .++| ++.=..|.+++.+ ++++++.|||.+.
T Consensus 375 ~~~l-lvi~~~~~~---~~~~~~a~~~~~~~~~~------~~k~~v~~~~gg~~~~~~----~~~l~~~gip~~~----- 435 (598)
T COG1042 375 VDAL-LVIVLPPAS---ADPEETAEAIIRATAKK------RGKPVVVSSMGGESSEKA----RRLLEEAGIPTYP----- 435 (598)
T ss_pred CceE-EEEecCCCC---CCchhhhHHHHHhhhhh------CCCceEEEecCCcchHHH----HHHhhhcCCCCcc-----
Confidence 7663 455555654 34567889999883222 2566 6666677799999 9999999999762
Q ss_pred CHHHHHHHHHH
Q 026236 225 TMTGICKQAID 235 (241)
Q Consensus 225 ~m~eav~~av~ 235 (241)
..+.+++....
T Consensus 436 ~pe~a~~a~~~ 446 (598)
T COG1042 436 TPERAVKALSA 446 (598)
T ss_pred CchHHHHHHHH
Confidence 44455444433
No 13
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=95.90 E-value=0.11 Score=42.76 Aligned_cols=120 Identities=14% Similarity=0.142 Sum_probs=71.5
Q ss_pred ccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHH
Q 026236 88 GRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT 167 (241)
Q Consensus 88 G~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~ 167 (241)
|+|+++..-++++.+.++..... |=-..-|.-+|..++. .+.+.++.+.+| |+.+++ ++=+ -||- +
T Consensus 2 G~valisQSG~~~~~~~~~~~~~--g~g~s~~vs~Gn~~dv-~~~d~l~~~~~D--~~t~~I--~ly~-E~~~---d--- 67 (138)
T PF13607_consen 2 GGVALISQSGALGTAILDWAQDR--GIGFSYVVSVGNEADV-DFADLLEYLAED--PDTRVI--VLYL-EGIG---D--- 67 (138)
T ss_dssp -SEEEEES-HHHHHHHHHHHHHT--T-EESEEEE-TT-SSS--HHHHHHHHCT---SS--EE--EEEE-S--S-------
T ss_pred CCEEEEECCHHHHHHHHHHHHHc--CCCeeEEEEeCccccC-CHHHHHHHHhcC--CCCCEE--EEEc-cCCC---C---
Confidence 89999999999999999999998 4466777788877754 588889999888 666653 3322 3441 2
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEecCCChhH-------------HHHHHHHHHHHhCCCeEEcCCCCCHHHHHHH
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQT-------------GLAKMRALGEELGIPLEVYGPEATMTGICKQ 232 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~-------------g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~ 232 (241)
.+.+.++.++... ++|||+=..|....- .-+....++++.|+ ... ++++|....
T Consensus 68 -~~~f~~~~~~a~~-----~KPVv~lk~Grt~~g~~aa~sHTgslag~~~~~~a~~~~aGv--~~v---~~~~el~~~ 134 (138)
T PF13607_consen 68 -GRRFLEAARRAAR-----RKPVVVLKAGRTEAGARAAASHTGSLAGDDAVYDAALRQAGV--VRV---DDLDELLDA 134 (138)
T ss_dssp -HHHHHHHHHHHCC-----CS-EEEEE---------------------HHHHHHHHHHCTE--EEE---SSHHHHHHH
T ss_pred -HHHHHHHHHHHhc-----CCCEEEEeCCCchhhhhhhhccCCcccCcHHHHHHHHHHcCc--eEE---CCHHHHHHH
Confidence 4778888888764 699998888853221 11333677777785 322 366665543
No 14
>PRK06091 membrane protein FdrA; Validated
Probab=95.69 E-value=0.13 Score=51.38 Aligned_cols=121 Identities=12% Similarity=0.014 Sum_probs=86.6
Q ss_pred CCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCC-----HHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 86 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-----EEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 86 ~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~-----~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
+.|+||++.--++++...++.+... |.-...+.-+||-.- .-.+..+++.+.+| |+++++ + +++-+
T Consensus 192 ~~G~IgiVSQSGtl~~~v~~~a~~~--GiG~S~~Vs~Gn~Dls~~~ggi~~~D~L~~L~~D--P~TkvI--v--ly~kp- 262 (555)
T PRK06091 192 PEGNIGVIGASGTGIQELCSQIALA--GEGITHAIGLGGRDLSAEVGGISALTALEMLSAD--EKSEVI--A--FVSKP- 262 (555)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHc--CCCeEEEEECCCCccccccCCCCHHHHHHHHhhC--CCCcEE--E--EEEec-
Confidence 4799999999999999999999999 667888999998721 22478888999888 666652 2 23311
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
....+.+-++++++.. ++|||+=..|... .+ + ++.|+ +. .++++|++..|.-++.
T Consensus 263 ---paE~v~~~fl~aar~~-------~KPVVvlk~Grs~-~g----~---~q~GV--i~---a~tleEl~~~A~~la~ 317 (555)
T PRK06091 263 ---PAEAVRLKIINAMKAT-------GKPVVALFLGYTP-AV----A---RDENV--WF---ASTLDEAARLACLLSR 317 (555)
T ss_pred ---CchHHHHHHHHHHhhC-------CCCEEEEEecCCc-hh----h---hcCCe--EE---eCCHHHHHHHHHHHhc
Confidence 1233345677777754 5999998889875 44 2 45675 43 3599999999987753
No 15
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=95.59 E-value=0.19 Score=46.99 Aligned_cols=127 Identities=13% Similarity=0.163 Sum_probs=85.1
Q ss_pred CccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCC-CHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccH
Q 026236 87 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAP-NEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV 165 (241)
Q Consensus 87 dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a-~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~ 165 (241)
.|+||++.--++|+...++.+... |---..+.-+||.+ ..-...++++.+.+| |+.+++++++-++| . -
T Consensus 169 ~G~VgiVSqSGtl~~ei~~~~~~~--GlG~S~~VsiGnd~~~g~~~~D~L~~~~~D--p~T~~Ivl~~E~gG-~-----~ 238 (317)
T PTZ00187 169 KGKIGIVSRSGTLTYEAVAQTTAV--GLGQSTCVGIGGDPFNGTNFIDCLKLFLND--PETEGIILIGEIGG-T-----A 238 (317)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHc--CCCEEEEEEeCCCCCCCCCHHHHHHHHhhC--CCccEEEEEEecCC-c-----h
Confidence 699999999999999999999999 44567788888887 234578889999998 77777544445544 1 1
Q ss_pred HHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH----------------HHHHHHHHHhCCCeEEcCCCCCHHHH
Q 026236 166 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL----------------AKMRALGEELGIPLEVYGPEATMTGI 229 (241)
Q Consensus 166 d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~----------------~~l~~~l~~~gi~i~~~~~~~~m~ea 229 (241)
.+-+.-.+++ .. .++|||+=..|..+..|- +.-.+.+++.|+.+ . .+.+|.
T Consensus 239 e~~aa~fi~~---~~-----~~KPVVa~~aGrsap~G~r~gHaGAi~~~~~G~~~~k~aal~qaGv~v--~---~~~~el 305 (317)
T PTZ00187 239 EEEAAEWIKN---NP-----IKKPVVSFIAGITAPPGRRMGHAGAIISGGKGTAPGKIEALEAAGVRV--V---KSPAQL 305 (317)
T ss_pred hHHHHHHHHh---hc-----CCCcEEEEEecCCCCCCCcccchhhhhccCCCCHHHHHHHHHHCCCeE--e---CCHHHH
Confidence 2223333333 21 379999999998863331 12246688889743 2 355555
Q ss_pred HHHHHHH
Q 026236 230 CKQAIDC 236 (241)
Q Consensus 230 v~~av~~ 236 (241)
.+...+.
T Consensus 306 ~~~~~~~ 312 (317)
T PTZ00187 306 GKTMLEV 312 (317)
T ss_pred HHHHHHH
Confidence 5444433
No 16
>PLN02522 ATP citrate (pro-S)-lyase
Probab=95.50 E-value=0.15 Score=51.53 Aligned_cols=129 Identities=11% Similarity=0.054 Sum_probs=85.6
Q ss_pred CccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCC-HHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccH
Q 026236 87 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV 165 (241)
Q Consensus 87 dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~-~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~ 165 (241)
.|+||++.--++|+...+|.+...|. --.-+.-+||.+. -..+...++.+.+| |+++++++++-|+| - +-
T Consensus 167 pG~VgiVSqSGtL~~ei~~~~~~~Gl--G~S~~VsiGnd~~~g~~~~D~L~~~~~D--p~Tk~IvlygEiGg-~----~e 237 (608)
T PLN02522 167 PGSVGFVSKSGGMSNEMYNVIARVTD--GIYEGIAIGGDVFPGSTLSDHVLRFNNI--PQIKMIVVLGELGG-R----DE 237 (608)
T ss_pred CCcEEEEeccHHHHHHHHHHHHHcCC--CeEEEEEeCCCCCCCCCHHHHHHHHhcC--CCCCEEEEEEecCc-h----hH
Confidence 69999999999999999999999943 4566778888765 24467788888888 77776433333333 2 32
Q ss_pred HHHHHHHHHHHHHhhhhhcccceeEEEEecCCChh---HH----------------HHHHHHHHHHhCCCeEEcCCCCCH
Q 026236 166 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ---TG----------------LAKMRALGEELGIPLEVYGPEATM 226 (241)
Q Consensus 166 d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~---~g----------------~~~l~~~l~~~gi~i~~~~~~~~m 226 (241)
+-+++++++... ++|||+=..|..+. .+ -+.-.+.+++.|+. +..+-++|
T Consensus 238 ----~~f~ea~~~a~~-----~KPVVa~kaGrsa~~~~~~aa~gHtGAiag~~~~ta~~k~aAlr~aGv~--vv~s~~El 306 (608)
T PLN02522 238 ----YSLVEALKQGKV-----SKPVVAWVSGTCARLFKSEVQFGHAGAKSGGDMESAQAKNKALKDAGAI--VPTSFEAL 306 (608)
T ss_pred ----HHHHHHHHHhcC-----CCCEEEEeccCCCccCccccccccccccccCCCccHHHHHHHHHHCCCe--EeCCHHHH
Confidence 455667776542 79999999888762 00 13346778889984 33322334
Q ss_pred HHHHHHHHH
Q 026236 227 TGICKQAID 235 (241)
Q Consensus 227 ~eav~~av~ 235 (241)
-++++++++
T Consensus 307 ~~~~~~~~~ 315 (608)
T PLN02522 307 EAAIKETFE 315 (608)
T ss_pred HHHHHHHHH
Confidence 444455444
No 17
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=94.24 E-value=0.64 Score=43.15 Aligned_cols=111 Identities=13% Similarity=0.089 Sum_probs=76.3
Q ss_pred CccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCC--CCHHHHHHHHHHHhhcccCCCCcceEEEEEecccccccc
Q 026236 87 KGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGA--PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD 164 (241)
Q Consensus 87 dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~--a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~ 164 (241)
.|+|+++.--+++++..++..... |--..-+.-+|+. +. -.+...++.+.+| |+++++.+++-.+ |. .
T Consensus 150 ~G~ValiSQSG~l~~~l~~~~~~~--giG~S~~VS~Gn~~~ad-v~~~d~L~yl~~D--p~T~~I~ly~E~~-G~----~ 219 (300)
T PLN00125 150 PGRIGIVSRSGTLTYEAVFQTTAV--GLGQSTCVGIGGDPFNG-TNFVDCLEKFVKD--PQTEGIILIGEIG-GT----A 219 (300)
T ss_pred CCcEEEEeCCccHHHHHHHHHHHc--CCCeEEEEEeCCCCCCC-CCHHHHHHHHhhC--CCCcEEEEEeccC-Cc----h
Confidence 699999999999999999999999 4467788888888 65 3477888899888 6676643333322 22 1
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH----------------HHHHHHHHHHhCCC
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIP 216 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g----------------~~~l~~~l~~~gi~ 216 (241)
. .-++.++++.+ .++|||+=-.|..++.| -+.....+++.|+.
T Consensus 220 ~-~d~~~f~~aa~--------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~G~~~~~~a~~rq~Gvi 278 (300)
T PLN00125 220 E-EDAAAFIKESG--------TEKPVVAFIAGLTAPPGRRMGHAGAIVSGGKGTAQDKIKALREAGVT 278 (300)
T ss_pred H-HHHHHHHHHhc--------CCCCEEEEEecCCCCCCCCccchhhhhcCCCCCHHHHHHHHHHCCCe
Confidence 1 12334444433 26999998888875211 13457788888873
No 18
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=93.58 E-value=1.1 Score=43.42 Aligned_cols=125 Identities=15% Similarity=0.111 Sum_probs=88.3
Q ss_pred CCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccH
Q 026236 86 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDV 165 (241)
Q Consensus 86 ~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~ 165 (241)
+.|+|+++.--++++...+|..... |--..-|.-+|+.++ -.+...++.+.+| |+++++.++ .=|+ .+
T Consensus 149 ~~G~valvsqSG~~~~~~~~~~~~~--g~g~s~~vs~Gn~~d-~~~~d~l~~l~~D--~~t~~I~ly---~E~~---~~- 216 (447)
T TIGR02717 149 KKGGIAFISQSGALLTALLDWAEKN--GVGFSYFVSLGNKAD-IDESDLLEYLADD--PDTKVILLY---LEGI---KD- 216 (447)
T ss_pred CCCCEEEEechHHHHHHHHHHHHhc--CCCcceEEECCchhh-CCHHHHHHHHhhC--CCCCEEEEE---ecCC---CC-
Confidence 3699999999999999999999999 557888899998876 4677889999998 666653222 2344 23
Q ss_pred HHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH--------------HHHHHHHHHhCCCeEEcCCCCCHHHHHH
Q 026236 166 ATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL--------------AKMRALGEELGIPLEVYGPEATMTGICK 231 (241)
Q Consensus 166 d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~--------------~~l~~~l~~~gi~i~~~~~~~~m~eav~ 231 (241)
.+.++++.+.... ++|||+=..|..+ .|. +.....+++.|+- .. .+++|...
T Consensus 217 ---~~~f~~aa~~a~~-----~KPVv~~k~Grs~-~g~~aa~sHtgalag~~~~~~a~~~~~Gv~--~~---~~~~el~~ 282 (447)
T TIGR02717 217 ---GRKFLKTAREISK-----KKPIVVLKSGTSE-AGAKAASSHTGALAGSDEAYDAAFKQAGVI--RA---DSIEELFD 282 (447)
T ss_pred ---HHHHHHHHHHHcC-----CCCEEEEecCCCh-hhhhhhhhccccccChHHHHHHHHHHCCeE--Ee---CCHHHHHH
Confidence 3567777777642 7999998888774 342 2335678888873 22 36777665
Q ss_pred HHHHH
Q 026236 232 QAIDC 236 (241)
Q Consensus 232 ~av~~ 236 (241)
.+.-+
T Consensus 283 ~~~~l 287 (447)
T TIGR02717 283 LARLL 287 (447)
T ss_pred HHHHH
Confidence 54433
No 19
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=93.43 E-value=1.5 Score=40.47 Aligned_cols=125 Identities=10% Similarity=0.072 Sum_probs=81.1
Q ss_pred CCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCH-HHHHHHHHHHhhcccCCCCcceEEEEEecccccccc
Q 026236 86 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD 164 (241)
Q Consensus 86 ~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~-~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~ 164 (241)
+.|+|+++.--++++++.+|..... |--..-|.-+|+.+.. -.+...++.+.+| |+++++.+++-.+| - .
T Consensus 142 ~~G~ValiSQSG~l~~~~~~~a~~~--giG~S~~Vs~Gn~a~~dv~~~D~l~~l~~D--p~T~~I~lylE~~~-~----~ 212 (286)
T TIGR01019 142 KPGNVGIVSRSGTLTYEAVHQLTKA--GFGQSTCVGIGGDPVNGTSFIDVLEAFEKD--PETEAIVMIGEIGG-S----A 212 (286)
T ss_pred CCCcEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCcCCCCCHHHHHHHHhhC--CCCcEEEEEEecCC-c----h
Confidence 3799999999999999999999999 4457788999998642 4578888899898 77776544444332 1 1
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH----------------HHHHHHHHHHhCCCeEEcCCCCCHHH
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATMTG 228 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g----------------~~~l~~~l~~~gi~i~~~~~~~~m~e 228 (241)
-... .+.++.. .++|||+=..|..+..| -+.....+++.|+- . .++++|
T Consensus 213 ~~~~----~~~~~~~------~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~aa~rqaGvi--~---v~~~~e 277 (286)
T TIGR01019 213 EEEA----ADFIKQN------MSKPVVGFIAGATAPPGKRMGHAGAIISGGKGTAESKIEALEAAGVT--V---VKSPSD 277 (286)
T ss_pred HHHH----HHHHHhc------CCCCEEEEEecCCCCccccccchhhhhcCCCCCHHHHHHHHHHCCCe--E---eCCHHH
Confidence 1111 1122221 27999987777765211 13346677888863 2 236666
Q ss_pred HHHHHH
Q 026236 229 ICKQAI 234 (241)
Q Consensus 229 av~~av 234 (241)
......
T Consensus 278 l~d~l~ 283 (286)
T TIGR01019 278 IGELLA 283 (286)
T ss_pred HHHHHH
Confidence 555443
No 20
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=93.24 E-value=2.2 Score=39.44 Aligned_cols=130 Identities=15% Similarity=0.146 Sum_probs=85.1
Q ss_pred CCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCH-HHHHHHHHHHhhcccCCCCcceEEEEEecccccccc
Q 026236 86 PKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNE-EEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD 164 (241)
Q Consensus 86 ~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~-~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~ 164 (241)
+.|+|+++.--++++.+.+|..... |--...|.-+|..+.. -.....++.+.+| |+.+++++++-.+| +
T Consensus 144 ~~G~valiSQSGal~~~~~~~~~~~--giG~s~~Vs~Gn~~~~dv~~~D~l~~l~~D--p~T~~I~lylE~~~------~ 213 (291)
T PRK05678 144 KKGRVGVVSRSGTLTYEAVAQLTDL--GFGQSTCVGIGGDPINGTNFIDVLEAFEED--PETEAIVMIGEIGG------S 213 (291)
T ss_pred CCCCEEEEeccHHHHHHHHHHHHHc--CCCeEEEEEeCCCcCCCCCHHHHHHHHhhC--CCCcEEEEEEecCC------c
Confidence 3699999999999999999999999 5567889999987542 3467778888888 77776444433222 1
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH----------------HHHHHHHHHHhCCCeEEcCCCCCHHH
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG----------------LAKMRALGEELGIPLEVYGPEATMTG 228 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g----------------~~~l~~~l~~~gi~i~~~~~~~~m~e 228 (241)
-.. ++.+..... .++|||+=-.|..+..| -+.....+++.|+- . .++++|
T Consensus 214 ~~~------~a~~~~~~~---~~KPVV~lk~Grs~~~g~~~sHTGala~~~~g~~~~~~a~~~q~Gvi--~---v~~~~e 279 (291)
T PRK05678 214 AEE------EAAEYIKAN---VTKPVVGYIAGVTAPPGKRMGHAGAIISGGKGTAEEKKEALEAAGVK--V---ARTPSE 279 (291)
T ss_pred HHH------HHHHHHHHc---CCCCEEEEEecCCCCCCCcccchhhhccCCCCCHHHHHHHHHHCCCe--E---CCCHHH
Confidence 111 122222110 26999987777766222 13345778888873 2 247888
Q ss_pred HHHHHHHHhhh
Q 026236 229 ICKQAIDCIMS 239 (241)
Q Consensus 229 av~~av~~~~~ 239 (241)
....+.++.+|
T Consensus 280 l~~~~~~~~~~ 290 (291)
T PRK05678 280 IGELLKEVLKG 290 (291)
T ss_pred HHHHHHHHHcc
Confidence 77777666554
No 21
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=92.32 E-value=3 Score=33.95 Aligned_cols=94 Identities=16% Similarity=0.153 Sum_probs=64.8
Q ss_pred eccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh
Q 026236 120 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 199 (241)
Q Consensus 120 lD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~ 199 (241)
.|.|+..+++++.++.. + .++++ |-+.+-. |..-+.+..+++++++.+. .++||++ .|...
T Consensus 34 i~lg~~~s~e~~v~aa~---e---~~adi----i~iSsl~---~~~~~~~~~~~~~L~~~g~----~~i~viv--GG~~~ 94 (132)
T TIGR00640 34 DVGPLFQTPEEIARQAV---E---ADVHV----VGVSSLA---GGHLTLVPALRKELDKLGR----PDILVVV--GGVIP 94 (132)
T ss_pred EECCCCCCHHHHHHHHH---H---cCCCE----EEEcCch---hhhHHHHHHHHHHHHhcCC----CCCEEEE--eCCCC
Confidence 47888888888766654 2 23443 2333322 5677788999999998763 2566666 66555
Q ss_pred hHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 200 QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 200 ~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.+- .+.++++|+. .+|.+.+++.+.+....+..
T Consensus 95 ~~~----~~~l~~~Gvd-~~~~~gt~~~~i~~~l~~~~ 127 (132)
T TIGR00640 95 PQD----FDELKEMGVA-EIFGPGTPIPESAIFLLKKL 127 (132)
T ss_pred hHh----HHHHHHCCCC-EEECCCCCHHHHHHHHHHHH
Confidence 555 4557889997 56778899999998887754
No 22
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=87.22 E-value=7.9 Score=35.99 Aligned_cols=108 Identities=12% Similarity=0.090 Sum_probs=66.1
Q ss_pred ccCccceEEecCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCC-HHHHHHHHHHHhhcccCCCCcceEEE
Q 026236 75 TSASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPN-EEEVLQYARVVIDCATADPDGRKRAL 153 (241)
Q Consensus 75 ~g~~l~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~-~~~v~~a~~iil~~~~~~~~~~~i~i 153 (241)
-|+-..++.. .|+||++.-=+.|+-=..-.+...|.| ----.=+||.+- -.....+++++..| |+.+.. ++|
T Consensus 135 iGimp~~i~~--~G~IGiVSrSGTLTyE~~~qlt~~G~G--qS~~IGiGGDpi~Gt~fid~L~~fe~D--p~T~~i-vmi 207 (293)
T COG0074 135 IGIMPGNIYK--PGNIGIVSRSGTLTYEAVSQLTEAGLG--QSTAIGIGGDPIPGTSFIDALEMFEAD--PETEAI-VMI 207 (293)
T ss_pred eeechhhhcc--CCceEEEecCcchHHHHHHHHHhcCCc--eEEEEEeCCCCcCCccHHHHHHHHhcC--ccccEE-EEE
Confidence 3542246766 899999998888877777777776411 111123333322 23467788888888 666653 233
Q ss_pred EEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 154 LIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 154 nI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
==.|| ..++.|.-.+++ .- .++|||.=+.|.-+.+|
T Consensus 208 GEiGG-----~aEe~AA~~i~~---~~-----~~KPVVa~iaG~tap~g 243 (293)
T COG0074 208 GEIGG-----PAEEEAAEYIKA---NA-----TRKPVVAYIAGRTAPEG 243 (293)
T ss_pred ecCCC-----cHHHHHHHHHHH---hc-----cCCCEEEEEeccCCCcc
Confidence 22244 345555555444 21 25999999999888777
No 23
>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad
Probab=80.19 E-value=18 Score=30.98 Aligned_cols=83 Identities=19% Similarity=0.264 Sum_probs=52.6
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEE--eccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhH
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQT 201 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI--~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~ 201 (241)
|.....++.++++.+.++ +++++ +++.+ .||-. ..+. .+.++++.+.. .++|+|.-..|.-...
T Consensus 15 ~~~~~~~l~~~l~~a~~d--~~i~~--ivl~~~s~Gg~~--~~~~----~i~~~i~~~~~----~~kpvia~v~g~~~s~ 80 (208)
T cd07023 15 GGIGADSLIEQLRKARED--DSVKA--VVLRINSPGGSV--VASE----EIYREIRRLRK----AKKPVVASMGDVAASG 80 (208)
T ss_pred CCCCHHHHHHHHHHHHhC--CCCcE--EEEEEECCCCCH--HHHH----HHHHHHHHHHh----cCCcEEEEECCcchhH
Confidence 456788899999998877 55555 45544 45432 3333 34445554432 3689999999876554
Q ss_pred HHHH--------------------------HHHHHHHhCCCeEEc
Q 026236 202 GLAK--------------------------MRALGEELGIPLEVY 220 (241)
Q Consensus 202 g~~~--------------------------l~~~l~~~gi~i~~~ 220 (241)
|..+ ++++|++.|+.++++
T Consensus 81 g~~lA~aaD~i~a~~~s~~g~iG~~~~~~~~~~~l~k~Gi~~~~~ 125 (208)
T cd07023 81 GYYIAAAADKIVANPTTITGSIGVIGQGPNLEELLDKLGIERDTI 125 (208)
T ss_pred HHHHHhhCCEEEECCCCeEEeCcEEEecCCHHHHHHhcCCceEEE
Confidence 4333 237788888877755
No 24
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=78.61 E-value=30 Score=27.18 Aligned_cols=105 Identities=25% Similarity=0.308 Sum_probs=65.2
Q ss_pred hhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHH
Q 026236 98 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR 177 (241)
Q Consensus 98 GlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~ 177 (241)
|+-|++ .++... |=+. .+.|...+.+.+.++..-. +++. |-+.+-. +...+.++.+++.++
T Consensus 15 G~~~~~-~~l~~~--G~~v---i~lG~~vp~e~~~~~a~~~------~~d~----V~iS~~~---~~~~~~~~~~~~~L~ 75 (122)
T cd02071 15 GAKVIA-RALRDA--GFEV---IYTGLRQTPEEIVEAAIQE------DVDV----IGLSSLS---GGHMTLFPEVIELLR 75 (122)
T ss_pred HHHHHH-HHHHHC--CCEE---EECCCCCCHHHHHHHHHHc------CCCE----EEEcccc---hhhHHHHHHHHHHHH
Confidence 444433 355555 3333 5688888888877665522 3443 3344433 456667888888888
Q ss_pred HhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHH
Q 026236 178 EKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 232 (241)
Q Consensus 178 ~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~ 232 (241)
+.+. .+++++ +.|+...+- .+.++++|+. .+|.+-+++++++..
T Consensus 76 ~~~~----~~i~i~--~GG~~~~~~----~~~~~~~G~d-~~~~~~~~~~~~~~~ 119 (122)
T cd02071 76 ELGA----GDILVV--GGGIIPPED----YELLKEMGVA-EIFGPGTSIEEIIDK 119 (122)
T ss_pred hcCC----CCCEEE--EECCCCHHH----HHHHHHCCCC-EEECCCCCHHHHHHH
Confidence 8753 244444 466655555 5667789987 456778899988765
No 25
>PRK05198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=78.06 E-value=6.7 Score=36.00 Aligned_cols=25 Identities=28% Similarity=0.626 Sum_probs=23.3
Q ss_pred ecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 194 RGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 194 l~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.+|...++|+++|+++-++.|+|+.
T Consensus 61 FqG~G~eeGL~~L~~vk~~~Glpvv 85 (264)
T PRK05198 61 FRGPGLEEGLKILQEVKETFGVPVL 85 (264)
T ss_pred CCCCChHHHHHHHHHHHHHHCCceE
Confidence 6788999999999999999999987
No 26
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=76.47 E-value=16 Score=30.57 Aligned_cols=69 Identities=17% Similarity=0.163 Sum_probs=44.6
Q ss_pred eccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEe--ccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 120 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG--GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 120 lD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~--GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|..|+.+.+.+.++++-+.+| +++ ++|++.++ ||-. .... -+.++++++.. .++||+..+.|.
T Consensus 16 ~~~~~~~~~~~l~~~l~~a~~d--~~v--~~vvl~~~~~gg~~--~~~~----~~~~~i~~~~~----~~kpVia~v~G~ 81 (177)
T cd07014 16 SDTQGNVSGDTTAAQIRDARLD--PKV--KAIVLRVNSPGGSV--TASE----VIRAELAAARA----AGKPVVASGGGN 81 (177)
T ss_pred cCCCCCcCHHHHHHHHHHHhcC--CCc--eEEEEEeeCCCcCH--HHHH----HHHHHHHHHHh----CCCCEEEEECCc
Confidence 3677788999999999999887 444 44566554 3321 2222 23334444431 379999999987
Q ss_pred ChhHH
Q 026236 198 NYQTG 202 (241)
Q Consensus 198 n~~~g 202 (241)
-..-|
T Consensus 82 a~g~g 86 (177)
T cd07014 82 AASGG 86 (177)
T ss_pred hhHHH
Confidence 76666
No 27
>COG3693 XynA Beta-1,4-xylanase [Carbohydrate transport and metabolism]
Probab=75.74 E-value=14 Score=35.02 Aligned_cols=99 Identities=19% Similarity=0.268 Sum_probs=68.4
Q ss_pred CCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEe
Q 026236 115 ELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRR 194 (241)
Q Consensus 115 ~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl 194 (241)
.-.+-..+-|+.-+|-+..||++--+ -+|+.| .++|=++ |.+.+.--....-+|+-+++.+.......+--=+++
T Consensus 157 ~~R~s~w~~~~~gpd~I~~aF~~Are---adP~Ak-L~~NDY~-ie~~~~kr~~~~nlI~~LkekG~pIDgiG~QsH~~~ 231 (345)
T COG3693 157 SLRRSAWYDGGTGPDYIKLAFHIARE---ADPDAK-LVINDYS-IEGNPAKRNYVLNLIEELKEKGAPIDGIGIQSHFSG 231 (345)
T ss_pred hhhhhhhhccCCccHHHHHHHHHHHh---hCCCce-EEeeccc-ccCChHHHHHHHHHHHHHHHCCCCccceeeeeeecC
Confidence 45555566666667899999998866 356665 6889886 544455555566677777776532222223344899
Q ss_pred cCCChhHHHHHHHHHHHHhCCCeEE
Q 026236 195 GGPNYQTGLAKMRALGEELGIPLEV 219 (241)
Q Consensus 195 ~Gtn~~~g~~~l~~~l~~~gi~i~~ 219 (241)
.|+..+....-+.+..+. |++++|
T Consensus 232 ~~~~~~~~~~a~~~~~k~-Gl~i~V 255 (345)
T COG3693 232 DGPSIEKMRAALLKFSKL-GLPIYV 255 (345)
T ss_pred CCCCHHHHHHHHHHHhhc-CCCceE
Confidence 999999998888776665 999885
No 28
>TIGR01362 KDO8P_synth 3-deoxy-8-phosphooctulonate synthase. In Gram-negative bacteria, this is the first step in the biosynthesis of 3-deoxy-D-manno-octulosonate, part of the oligosaccharide core of lipopolysaccharide.
Probab=75.38 E-value=9.4 Score=34.93 Aligned_cols=49 Identities=24% Similarity=0.433 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEE-------------ecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVR-------------RGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvR-------------l~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
+...-+.+++++...+ ..+|.+.+ .+|...++|+++|+++-++.|+|+.
T Consensus 16 e~~~~~A~~lk~~~~~---~~~~~~fk~sf~KapRTsp~sFqG~G~eeGL~iL~~vk~~~glpvv 77 (258)
T TIGR01362 16 DHALRVAEKLKELTSK---LGVPFIFKSSFDKANRSSIHSFRGPGLEEGLKILQKVKEEFGVPIL 77 (258)
T ss_pred HHHHHHHHHHHHHHHh---cCCCeEEecccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHhCCceE
Confidence 3344444455554321 24666666 6899999999999999999999986
No 29
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=75.15 E-value=48 Score=27.74 Aligned_cols=92 Identities=24% Similarity=0.305 Sum_probs=62.3
Q ss_pred cCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEE-eccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChh
Q 026236 122 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLI-GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 200 (241)
Q Consensus 122 ~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI-~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~ 200 (241)
.|...+++++..+. + . .+++++ .|-. .|+ =.+.+.++++++++.+. -.|.|-..|+-..
T Consensus 46 ~g~~~tp~e~v~aA--~-~---~dv~vI--gvSsl~g~------h~~l~~~lve~lre~G~------~~i~v~~GGvip~ 105 (143)
T COG2185 46 LGLFQTPEEAVRAA--V-E---EDVDVI--GVSSLDGG------HLTLVPGLVEALREAGV------EDILVVVGGVIPP 105 (143)
T ss_pred cCCcCCHHHHHHHH--H-h---cCCCEE--EEEeccch------HHHHHHHHHHHHHHhCC------cceEEeecCccCc
Confidence 45566676665555 3 3 346653 3333 343 34567899999999985 2333556787777
Q ss_pred HHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 201 TGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 201 ~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+- .+.|++.|+. .+|.+.+++.+++...+....
T Consensus 106 ~d----~~~l~~~G~~-~if~pgt~~~~~~~~v~~~l~ 138 (143)
T COG2185 106 GD----YQELKEMGVD-RIFGPGTPIEEALSDLLTRLG 138 (143)
T ss_pred hh----HHHHHHhCcc-eeeCCCCCHHHHHHHHHHHHH
Confidence 77 6778888976 678899999999988776543
No 30
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=75.03 E-value=63 Score=29.02 Aligned_cols=119 Identities=13% Similarity=0.063 Sum_probs=65.7
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++....+.. -...+.+..+ |-.+-..+-.-|..+.+.-+++++-+++. .+.+.+ +|
T Consensus 176 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~--gi~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 242 (343)
T PRK10727 176 HTRIGYLCSNHSISDAEDRLQGYYDALAES--GIPANDRLVTFGEPDESGGEQAMTELLGR-GRNFTA--VA-------- 242 (343)
T ss_pred CccEEEEeCCccccchHHHHHHHHHHHHHC--CCCCChhhEEeCCCChhHHHHHHHHHHhC-CCCCCE--EE--------
Confidence 46899885333322 2345778777 54432212223455666667777766653 122332 33
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.-.|.+|.|+++|+++.+. ++| -|+-..+.. .+ +. ..-++..+. .+..+..+.|++++
T Consensus 243 --~~nD~~A~g~~~al~~~G~-----~vP~disVigfD~~~--~~-----~~---~~p~lttv~--~~~~~~g~~A~~~l 303 (343)
T PRK10727 243 --CYNDSMAAGAMGVLNDNGI-----DVPGEISLIGFDDVL--VS-----RY---VRPRLTTVR--YPIVTMATQAAELA 303 (343)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCcceeEEeecCcH--HH-----Hh---cCCCCeeee--CCHHHHHHHHHHHH
Confidence 3568899999999999884 666 344444332 12 11 111233222 47777777777764
No 31
>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=74.23 E-value=54 Score=27.91 Aligned_cols=122 Identities=7% Similarity=0.073 Sum_probs=64.6
Q ss_pred CccEEEEecCchh------HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGA------SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGl------aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++....+. .....+.+..+ |-+. ..+...+..+.+.-+++++-+++. .|++++ ++
T Consensus 125 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 190 (277)
T cd06319 125 DGKVGMVAIPQKRKNGQKRTKGFKEAMKEA--GCDL-AGIRQQKDFSYQETFDYTNDLLTA-NPDIRA--IW-------- 190 (277)
T ss_pred CCcEEEEeccCCCccHHHHHHHHHHHHHhc--CCce-EeeccCCCCCHHHHHHHHHHHHHh-CCCCCE--EE--------
Confidence 4788888632221 13456788777 4332 234444566667777777666653 133332 22
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+-.|.+|.|+++++++.+.. .+++| +-..++ ..+ .+.+.+.-+...+. .+..+..+.|+++.
T Consensus 191 --~~~d~~a~g~~~al~~~g~~---~di~v-vg~d~~--~~~----~~~~~~~~~~~tv~---~~~~~~g~~a~~~l 252 (277)
T cd06319 191 --LQGSDRYQGALDAIATAGKT---GKVLL-ICFDAE--PEF----IELLKSGALVGAGM---QQPFLMGERAVETV 252 (277)
T ss_pred --ECCCccchHHHHHHHHcCCC---CCEEE-EEcCCC--HHH----HHHhhcCceEEEEe---cCHHHHHHHHHHHH
Confidence 23456789999999998742 24443 334433 445 33333311211122 25566666666654
No 32
>PLN03033 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=73.12 E-value=12 Score=34.81 Aligned_cols=25 Identities=20% Similarity=0.414 Sum_probs=22.9
Q ss_pred ecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 194 RGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 194 l~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.+|...++|+++|+++-++.|+|+.
T Consensus 67 FrG~G~eeGL~iL~~vk~~~glpvv 91 (290)
T PLN03033 67 FRGPGMAEGLKILEKVKVAYDLPIV 91 (290)
T ss_pred CCCCCHHHHHHHHHHHHHHHCCceE
Confidence 5688889999999999999999987
No 33
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=72.58 E-value=16 Score=31.64 Aligned_cols=70 Identities=17% Similarity=0.116 Sum_probs=44.4
Q ss_pred cCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEe--ccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh
Q 026236 122 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG--GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 199 (241)
Q Consensus 122 ~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~--GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~ 199 (241)
..|+.+.+.+.++++-+.++ |+++ ++++.++ ||=. ...+++. ++++.+.. .++|||..+.|.-.
T Consensus 17 ~~~~~~~~~l~~~l~~a~~d--~~v~--~ivL~~~s~Gg~~--~~~~~~~----~~l~~~~~----~~kpVia~v~g~a~ 82 (211)
T cd07019 17 TQGNVGGDTTAAQIRDARLD--PKVK--AIVLRVNSPGGSV--TASEVIR----AELAAARA----AGKPVVVSAGGAAA 82 (211)
T ss_pred CCCccCHHHHHHHHHHHhhC--CCce--EEEEEEcCCCcCH--HHHHHHH----HHHHHHHh----CCCCEEEEECCeeh
Confidence 34667789999999999887 5554 4666665 4322 3444443 34443321 36999999999876
Q ss_pred hHHHHH
Q 026236 200 QTGLAK 205 (241)
Q Consensus 200 ~~g~~~ 205 (241)
.-|..+
T Consensus 83 s~gy~l 88 (211)
T cd07019 83 SGGYWI 88 (211)
T ss_pred hHHHHH
Confidence 555443
No 34
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=72.42 E-value=51 Score=26.83 Aligned_cols=115 Identities=14% Similarity=0.144 Sum_probs=71.7
Q ss_pred hhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHH
Q 026236 98 GASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR 177 (241)
Q Consensus 98 GlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~ 177 (241)
|+-|+. .++... |-+ -.++|-..+.+++.++..-. +++. +.+...- +.....++.+++.++
T Consensus 19 G~~iv~-~~lr~~--G~e---Vi~LG~~vp~e~i~~~a~~~------~~d~--V~lS~~~-----~~~~~~~~~~~~~L~ 79 (137)
T PRK02261 19 GNKILD-RALTEA--GFE---VINLGVMTSQEEFIDAAIET------DADA--ILVSSLY-----GHGEIDCRGLREKCI 79 (137)
T ss_pred HHHHHH-HHHHHC--CCE---EEECCCCCCHHHHHHHHHHc------CCCE--EEEcCcc-----ccCHHHHHHHHHHHH
Confidence 444443 356666 434 36788889999988766522 3543 3433221 456667888889998
Q ss_pred HhhhhhcccceeEEEEecCCC--hhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 178 EKESKLKAARMHIFVRRGGPN--YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 178 ~~~~~~~~~~vPiVvRl~Gtn--~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+.+. .+++|++ .|+- -+.-++..++.++++|+. .+|++.+++++++....+.+.
T Consensus 80 ~~~~----~~~~i~v--GG~~~~~~~~~~~~~~~l~~~G~~-~vf~~~~~~~~i~~~l~~~~~ 135 (137)
T PRK02261 80 EAGL----GDILLYV--GGNLVVGKHDFEEVEKKFKEMGFD-RVFPPGTDPEEAIDDLKKDLN 135 (137)
T ss_pred hcCC----CCCeEEE--ECCCCCCccChHHHHHHHHHcCCC-EEECcCCCHHHHHHHHHHHhc
Confidence 8753 3566555 5543 111122225677888975 578888999999988877653
No 35
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=71.01 E-value=15 Score=33.21 Aligned_cols=85 Identities=18% Similarity=0.253 Sum_probs=56.3
Q ss_pred ceEEecCCccEEEEecCch-hHHHHHHHHHhhc----cCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEE
Q 026236 80 KFTVLNPKGRIWTMVAGGG-ASVIYADTVGDLG----YASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALL 154 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaG-laMatmD~i~~~~----~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~in 154 (241)
-|+.+||+|..|-+ .+|= .....-|+..++. +=|-|.=||++||++..-.--+..+.++++ . .+.
T Consensus 126 gYiV~~p~~~va~v-~~A~~ip~~~~~iaa~y~la~~~~g~~~~YlEagsga~~Pv~~e~v~~v~~~----~-----~Li 195 (240)
T COG1646 126 GYIVVNPDGTVAWV-GKAKPIPLDKEDIAAYYALAEKYLGMPVVYLEAGSGAGDPVPVEMVSRVLSD----T-----PLI 195 (240)
T ss_pred EEEEECCCCceeee-cccccCCCCcHHHHHHHHHHHHHhCCeEEEEEecCCCCCCcCHHHHHHhhcc----c-----eEE
Confidence 39999999999887 3343 1111122222221 145799999999999877766667777665 1 357
Q ss_pred EeccccccccHHHHHHHHHHHHHH
Q 026236 155 IGGGIANFTDVATTFNGIIRALRE 178 (241)
Q Consensus 155 I~GGI~n~T~~d~iA~GIv~A~~~ 178 (241)
.+||| |--+.|+-+.+|--+
T Consensus 196 vGGGI----rs~E~A~~~a~agAD 215 (240)
T COG1646 196 VGGGI----RSPEQAREMAEAGAD 215 (240)
T ss_pred EcCCc----CCHHHHHHHHHcCCC
Confidence 79999 777777777666544
No 36
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=71.00 E-value=71 Score=27.88 Aligned_cols=120 Identities=11% Similarity=0.053 Sum_probs=65.2
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-.+.. ....+.+..+ |-+.-..+-+.++.+.+..++.++-+++. .+.+.+ ++
T Consensus 152 ~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 218 (309)
T PRK11041 152 HKRIACIAGPEEMPLCHYRLQGYVQALRRC--GITVDPQYIARGDFTFEAGAKALKQLLDL-PQPPTA--VF-------- 218 (309)
T ss_pred CceEEEEeCCccccchHHHHHHHHHHHHHc--CCCCCHHHeEeCCCCHHHHHHHHHHHHcC-CCCCCE--EE--------
Confidence 58899986333322 1224666666 33321111223455667777777777653 122332 23
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+.+|.+|.|+++|+++.+. ++| .||-..++. .. + ....++.... .+..+..+.|++++
T Consensus 219 --~~~d~~a~gv~~al~~~g~-----~ip~di~vvg~D~~~--~~----~----~~~~~~~ti~--~~~~~~g~~av~~l 279 (309)
T PRK11041 219 --CHSDVMALGALSQAKRMGL-----RVPQDLSIIGFDDID--LA----Q----YCDPPLTTVA--QPRYEIGREAMLLL 279 (309)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCcceEEEEeCCch--hh----h----hcCCCceEEe--cCHHHHHHHHHHHH
Confidence 4678899999999999874 455 344444443 11 1 1122222222 47777777777764
Q ss_pred h
Q 026236 238 M 238 (241)
Q Consensus 238 ~ 238 (241)
.
T Consensus 280 ~ 280 (309)
T PRK11041 280 L 280 (309)
T ss_pred H
Confidence 3
No 37
>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=70.15 E-value=61 Score=28.24 Aligned_cols=119 Identities=16% Similarity=0.092 Sum_probs=64.9
Q ss_pred ccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccc
Q 026236 88 GRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 161 (241)
Q Consensus 88 G~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n 161 (241)
.+|+.+....... -...+.+..+ |-++- ...+.+..+.+.-++.++-++.. .+.+. +++
T Consensus 119 ~~I~~i~~~~~~~~~~~R~~gf~~a~~~~--g~~~~-~~~~~~~~~~~~~~~~~~~~l~~-~~~~~--ai~--------- 183 (269)
T cd06287 119 RQIALIVGSARRNSYLEAEAAYRAFAAEH--GMPPV-VLRVDEAGGEEAGYAACAQLLAQ-HPDLD--ALC--------- 183 (269)
T ss_pred CcEEEEeCCcccccHHHHHHHHHHHHHHc--CCCcc-eeEecCCCChHHHHHHHHHHHhC-CCCCC--EEE---------
Confidence 4888875332221 1345667776 44443 34445555556666666666653 12333 233
Q ss_pred cccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC-CChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 162 FTDVATTFNGIIRALREKESKLKAARMHIFVRRGG-PNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 162 ~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-tn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+..|.+|.|+++|+++.+. ++|==|.+-| .+...+ + -..-++..+. .+..+..++|++++
T Consensus 184 -~~~d~~A~gvl~al~~~gl-----~vP~dvsvig~~d~~~~-----~---~~~p~ltti~--~~~~~~g~~A~~~l 244 (269)
T cd06287 184 -VPVDAFAVGAVRAATELGR-----AVPDQLRVVTRYDGLRA-----R---TSEPPLTAVD--LHLDEVAEQAVDLL 244 (269)
T ss_pred -EcCcHHHHHHHHHHHHcCC-----CCCCceEEEeccCchhh-----c---cCCCCccccc--CCHHHHHHHHHHHH
Confidence 3568899999999999874 6772222223 332222 1 1222333322 57888888887764
No 38
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=69.98 E-value=6.6 Score=35.07 Aligned_cols=81 Identities=19% Similarity=0.249 Sum_probs=47.6
Q ss_pred eEEecCCccEEEEecCchhHHHHHHHHHhhcc----CCCCcceeccCCCCCH---HHHHHHHHHHhhcccCCCCcceEEE
Q 026236 81 FTVLNPKGRIWTMVAGGGASVIYADTVGDLGY----ASELGNYAEYSGAPNE---EEVLQYARVVIDCATADPDGRKRAL 153 (241)
Q Consensus 81 yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~----gg~pANFlD~GG~a~~---~~v~~a~~iil~~~~~~~~~~~i~i 153 (241)
|+.+|+++..|-+.+==-.....-|++.++.. =|-|-=||++||++.. ..+.+..+-.+. +. -+
T Consensus 112 Yiv~~~~~~v~~v~~a~~~p~~~~~~aa~~~lA~~~~g~~~vYlE~gs~~g~~v~~e~i~~v~~~~~------~~---pl 182 (223)
T TIGR01768 112 YIIVNPGGAAARVTKAKPIPYDKEDLAAYAAMAEEMLGMPIIYLEAGSGAPEPVPPELVAEVKKVLD------KA---RL 182 (223)
T ss_pred EEEECCCcceeecccccccCCCcHHHHHHHHHHHHHcCCcEEEEEecCCCCCCcCHHHHHHHHHHcC------CC---CE
Confidence 88899988888875422221222344444332 3568999999998876 444444433321 11 25
Q ss_pred EEeccccccccHHHHHHHHHH
Q 026236 154 LIGGGIANFTDVATTFNGIIR 174 (241)
Q Consensus 154 nI~GGI~n~T~~d~iA~GIv~ 174 (241)
.++||| |..+-|+.+.+
T Consensus 183 ~vGGGI----rs~e~a~~l~~ 199 (223)
T TIGR01768 183 FVGGGI----RSVEKAREMAE 199 (223)
T ss_pred EEecCC----CCHHHHHHHHH
Confidence 569999 55555555443
No 39
>PRK12457 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional
Probab=69.58 E-value=14 Score=34.16 Aligned_cols=25 Identities=20% Similarity=0.436 Sum_probs=23.2
Q ss_pred ecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 194 RGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 194 l~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.+|...++|+++|+++-++.|+|+.
T Consensus 67 FqG~G~eeGL~iL~~vk~~~Glpvv 91 (281)
T PRK12457 67 YRGVGLDEGLRIFEEVKARFGVPVI 91 (281)
T ss_pred CCCCCHHHHHHHHHHHHHHHCCceE
Confidence 5788899999999999999999987
No 40
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=69.20 E-value=62 Score=26.43 Aligned_cols=98 Identities=14% Similarity=0.184 Sum_probs=63.6
Q ss_pred HHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcc
Q 026236 106 TVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKA 185 (241)
Q Consensus 106 ~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~ 185 (241)
++..+ |-+ -.|+|=.-+++++.++..- .+++. +.+.. .+ |......+.+++.+++.+.
T Consensus 22 ~L~~~--Gfe---VidLG~~v~~e~~v~aa~~------~~adi--VglS~---L~--t~~~~~~~~~~~~l~~~gl---- 79 (128)
T cd02072 22 AFTEA--GFN---VVNLGVLSPQEEFIDAAIE------TDADA--ILVSS---LY--GHGEIDCKGLREKCDEAGL---- 79 (128)
T ss_pred HHHHC--CCE---EEECCCCCCHHHHHHHHHH------cCCCE--EEEec---cc--cCCHHHHHHHHHHHHHCCC----
Confidence 45555 433 4778888899998877642 23443 33322 22 5666778889999998763
Q ss_pred cceeEEEEecCCC------hhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHH
Q 026236 186 ARMHIFVRRGGPN------YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 232 (241)
Q Consensus 186 ~~vPiVvRl~Gtn------~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~ 232 (241)
.++||++ .|.- .++- .+.|+++|+. .+|++.+++++++..
T Consensus 80 ~~v~viv--GG~~~i~~~d~~~~----~~~L~~~Gv~-~vf~pgt~~~~i~~~ 125 (128)
T cd02072 80 KDILLYV--GGNLVVGKQDFEDV----EKRFKEMGFD-RVFAPGTPPEEAIAD 125 (128)
T ss_pred CCCeEEE--ECCCCCChhhhHHH----HHHHHHcCCC-EEECcCCCHHHHHHH
Confidence 2566665 4541 1333 4567889986 578999999998864
No 41
>PRK10949 protease 4; Provisional
Probab=69.12 E-value=12 Score=38.07 Aligned_cols=64 Identities=16% Similarity=0.063 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 123 SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 123 GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
+|....+.+.+.++-...| +++|+.++-||-.||-+ +.++++.+.|.++ |+. ++|||+-+.+.-
T Consensus 344 ~g~~~~~~~~~~l~~a~~D--~~vkaVvLrInSpGGs~--~ase~i~~~i~~~-r~~-------gKPVvas~~~~a 407 (618)
T PRK10949 344 PGNVGGDTTAAQIRDARLD--PKVKAIVLRVNSPGGSV--TASEVIRAELAAA-RAA-------GKPVVVSMGGMA 407 (618)
T ss_pred CCCcCHHHHHHHHHHHHhC--CCCcEEEEEecCCCCcH--HHHHHHHHHHHHH-Hhc-------CCcEEEEECCCC
Confidence 3556778899999999888 66666544556667765 6777776665543 322 589999887643
No 42
>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=69.04 E-value=68 Score=27.29 Aligned_cols=80 Identities=18% Similarity=0.072 Sum_probs=46.0
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++...-+... ...+.+..+ |-++-...-+.+..+.+..+++++-+++. .|+++ +++
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~--ai~-------- 182 (268)
T cd06270 116 HRKIACITGPLTKEDARLRLQGYRDALAEA--GIALDESLIIEGDFTEEGGYAAMQELLAR-GAPFT--AVF-------- 182 (268)
T ss_pred CceEEEEeCCcccccHHHHHHHHHHHHHHc--CCCCCcceEEECCCCHHHHHHHHHHHHhC-CCCCC--EEE--------
Confidence 467888753222211 124666666 44442222334556666777777766653 13333 233
Q ss_pred ccccHHHHHHHHHHHHHHhhh
Q 026236 161 NFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+..|.+|.|+++++++.+.
T Consensus 183 --~~~d~~a~g~~~~l~~~g~ 201 (268)
T cd06270 183 --CANDEMAAGAISALREHGI 201 (268)
T ss_pred --EcCcHHHHHHHHHHHHcCC
Confidence 2456789999999999874
No 43
>PRK01368 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=67.15 E-value=35 Score=33.12 Aligned_cols=89 Identities=11% Similarity=0.134 Sum_probs=52.9
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|=+++.+++.+..+++-+ + + ++.|+||. +-....+-+...++. + .++.+.|.
T Consensus 321 ~~i~DS~atN~~a~~~al~~~-----~--~----i~lI~Gg~----dk~~~~~~L~~~~~~---------v-~~v~~~g~ 375 (454)
T PRK01368 321 SFYNDSKATNAISAVQSIKAL-----D--N----IYWLAGGI----PKEGGIEEIKPYFSK---------I-KKAYFYGQ 375 (454)
T ss_pred EEEECCCCCCHHHHHHHHHhc-----C--C----eEEEeccc----CCCCCHHHHHHHHHh---------h-cEEEEECc
Confidence 367666777888888877766 1 1 45678887 222233333333321 2 23445674
Q ss_pred ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 198 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 198 n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
..++ |++.++.. .++..+ .+|++|++.|.+++++
T Consensus 376 ~~~~----l~~~~~~~-~~~~~~---~~l~~Av~~a~~~a~~ 409 (454)
T PRK01368 376 AKEI----FANTAKNI-VDFVIC---DNLEQAFDLAYKDAVG 409 (454)
T ss_pred CHHH----HHHHhhcC-CCEEEc---CCHHHHHHHHHHHhcC
Confidence 4333 35555442 455644 4899999999988765
No 44
>PRK04690 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=64.93 E-value=41 Score=32.64 Aligned_cols=96 Identities=15% Similarity=0.098 Sum_probs=55.6
Q ss_pred CcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec
Q 026236 116 LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG 195 (241)
Q Consensus 116 pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~ 195 (241)
|--|+|=.++.+++.+..+++.+ ++. + ++-|+||... .-| .+++++.+.+.. .-.+-+.
T Consensus 322 g~~iidDs~ahNp~a~~~al~~~-----~~~--~--i~~i~Gg~~k--~kd--~~~l~~~l~~~~--------~~~v~~~ 380 (468)
T PRK04690 322 GITYVNDSISTTPHASLAALDCF-----AGR--R--VALLVGGHDR--GLD--WTDFAAHMAQRA--------PLEIVTM 380 (468)
T ss_pred CeEEEEeCCCCCHHHHHHHHHhc-----cCC--c--EEEEEcCCCC--CCC--HHHHHHHHHhcc--------CeEEEEe
Confidence 55688876677788888776543 211 2 4567888631 222 266777665431 1122245
Q ss_pred CCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 196 GPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 196 Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
|.+.+.+.+.|.+...+.+.++.++ .++++|++.|.+
T Consensus 381 g~~~~r~~~~l~~~~~~~~~~~~~~---~~~~~Av~~A~~ 417 (468)
T PRK04690 381 GANGPRIHALLAPLAAAGRFGLHAA---DDLAHAVRLART 417 (468)
T ss_pred CCCHHHHHHHHHhcccccCCceEEc---CCHHHHHHHHHH
Confidence 6666666444443333335565544 489999999987
No 45
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=64.56 E-value=54 Score=28.31 Aligned_cols=83 Identities=19% Similarity=0.162 Sum_probs=52.2
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCcceEEEEE--eccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChh
Q 026236 123 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 200 (241)
Q Consensus 123 GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI--~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~ 200 (241)
.+....+++.++++-+..| ++++ +|++.+ .||-. +.++ .+.+++++... ++|||.-+.|.-..
T Consensus 22 ~~~~~~~~l~~~l~~a~~d--~~i~--~Vvl~~~s~gg~~--~~~~----~l~~~l~~~~~-----~KpViA~v~g~a~s 86 (214)
T cd07022 22 SGLTSYEGIAAAIRAALAD--PDVR--AIVLDIDSPGGEV--AGVF----ELADAIRAARA-----GKPIVAFVNGLAAS 86 (214)
T ss_pred CCcccHHHHHHHHHHHhhC--CCCc--EEEEEEeCCCCcH--HHHH----HHHHHHHHHhc-----CCCEEEEECCchhh
Confidence 3346688999999998877 5554 455544 45432 3443 35556665531 58999999985444
Q ss_pred HHHHH--------------------------HHHHHHHhCCCeEEc
Q 026236 201 TGLAK--------------------------MRALGEELGIPLEVY 220 (241)
Q Consensus 201 ~g~~~--------------------------l~~~l~~~gi~i~~~ 220 (241)
-|..+ +++++++.||.++++
T Consensus 87 ~gy~lA~~aD~i~a~~~a~~g~iG~~~~~~~~~~ll~k~Gi~~~~~ 132 (214)
T cd07022 87 AAYWIASAADRIVVTPTAGVGSIGVVASHVDQSKALEKAGLKVTLI 132 (214)
T ss_pred HHHHHHhcCCEEEEcCCCeEEeeeEEEecCCHHHHHHhCCCeEEEE
Confidence 44322 347788888876654
No 46
>PRK01390 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=59.00 E-value=55 Score=31.32 Aligned_cols=87 Identities=15% Similarity=0.099 Sum_probs=49.2
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|=.++.+++.+.++++.+ .+ ++-|+||. +-+...+.+....+ ++. .+.+.|.
T Consensus 333 ~vIdDs~ahNp~s~~~aL~~~-------~~----i~~I~G~~----d~~~~~~~L~~~~~---------~v~-~v~~~g~ 387 (460)
T PRK01390 333 LFVNDSKATNADAAAKALSSF-------DR----IYWIAGGK----PKEGGIESLAPFFP---------RIA-KAYLIGE 387 (460)
T ss_pred EEEEcCCCCCHHHHHHHHHhC-------CC----eEEEecCc----cCCCCHHHHHHHHH---------hhC-EEEEECC
Confidence 467545567888888877743 11 34467876 32333333333221 222 1222376
Q ss_pred ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 198 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 198 n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+.++= ++.++.. .++..+ .++++|++.|.+.+
T Consensus 388 ~~~~l----~~~~~~~-~~~~~~---~~l~~Av~~a~~~a 419 (460)
T PRK01390 388 AAEAF----AATLGGA-VPFEIC---GTLERAVAAAAADA 419 (460)
T ss_pred CHHHH----HHHHhcC-CCEEEe---CCHHHHHHHHHHhh
Confidence 65443 5555544 455544 48999999998877
No 47
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=58.17 E-value=73 Score=26.82 Aligned_cols=126 Identities=8% Similarity=0.086 Sum_probs=61.8
Q ss_pred EecCCccEEEEecCchhH----HHHHHH---HHhhccCCCCcceecc-CCCCCHHHHHHHHHHHhhcccCCCCcceEEEE
Q 026236 83 VLNPKGRIWTMVAGGGAS----VIYADT---VGDLGYASELGNYAEY-SGAPNEEEVLQYARVVIDCATADPDGRKRALL 154 (241)
Q Consensus 83 ~L~~dG~Ig~mvnGaGla----MatmD~---i~~~~~gg~pANFlD~-GG~a~~~~v~~a~~iil~~~~~~~~~~~i~in 154 (241)
..+|.++||+++-++|-+ =.|.|. +... ++. ... ||.+-.+.+..|.+.+... ..+.+.+ ++|-
T Consensus 42 ~~~~~~~vglv~f~~~~a~~~~PlT~D~~~~~~~L----~~~--~~~~G~t~l~~aL~~A~~~l~~~-~~~~~~~-iiil 113 (183)
T cd01453 42 DQNPISQLGIISIKNGRAEKLTDLTGNPRKHIQAL----KTA--RECSGEPSLQNGLEMALESLKHM-PSHGSRE-VLII 113 (183)
T ss_pred hcCccccEEEEEEcCCccEEEECCCCCHHHHHHHh----hcc--cCCCCchhHHHHHHHHHHHHhcC-CccCceE-EEEE
Confidence 346789999999977744 112232 2222 222 122 4455555566666666432 1111222 3333
Q ss_pred EeccccccccHHHH-HHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHH
Q 026236 155 IGGGIANFTDVATT-FNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 231 (241)
Q Consensus 155 I~GGI~n~T~~d~i-A~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~ 231 (241)
+ ++. ++|+.- ...+++.+++. .++|.+=--|++. ..|+++-+..|=.++.....+++.++..
T Consensus 114 ~-sd~---~~~~~~~~~~~~~~l~~~-------~I~v~~IgiG~~~----~~L~~ia~~tgG~~~~~~~~~~l~~~~~ 176 (183)
T cd01453 114 F-SSL---STCDPGNIYETIDKLKKE-------NIRVSVIGLSAEM----HICKEICKATNGTYKVILDETHLKELLL 176 (183)
T ss_pred E-cCC---CcCChhhHHHHHHHHHHc-------CcEEEEEEechHH----HHHHHHHHHhCCeeEeeCCHHHHHHHHH
Confidence 3 333 345421 12345555554 3565444446553 4678888888755554333334444433
No 48
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=57.71 E-value=1.1e+02 Score=25.41 Aligned_cols=99 Identities=12% Similarity=0.106 Sum_probs=46.5
Q ss_pred cCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhccccee-EEEEec-----
Q 026236 122 YSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMH-IFVRRG----- 195 (241)
Q Consensus 122 ~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP-iVvRl~----- 195 (241)
++||.+.-.+...+.-+... ...+..++.||. |+- ..-+.-++-+-+..++++ +| .++++.
T Consensus 6 ~SGG~DS~~Ll~~l~~~~~~--~~~~~~~~~vdh--~~~--~~s~~~~~~v~~~~~~~~-------i~~~~~~~~~~~~~ 72 (182)
T PF01171_consen 6 VSGGKDSMALLHLLKELRRR--NGIKLIAVHVDH--GLR--EESDEEAEFVEEICEQLG-------IPLYIVRIDEDRKK 72 (182)
T ss_dssp --SSHHHHHHHHHHHHHHTT--TTTEEEEEEEE---STS--CCHHHHHHHHHHHHHHTT--------EEEEEE--CHCCT
T ss_pred EcCCHHHHHHHHHHHHHHHh--cCCCeEEEEEec--CCC--cccchhHHHHHHHHHhcC-------CceEEEEeeeeecc
Confidence 45666665555555555443 122333344443 331 122333455555555543 56 333443
Q ss_pred CCChhHHHHHH-----HHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 196 GPNYQTGLAKM-----RALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 196 Gtn~~~g~~~l-----~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
+.+.++.-+.+ .++..+.|.+..+.+ -+++|.++..+-
T Consensus 73 ~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~G--Hh~dD~~ET~l~ 115 (182)
T PF01171_consen 73 GSNIEECARELRYQFLREIAKEEGCNKIALG--HHLDDQAETFLM 115 (182)
T ss_dssp TSTCHHHHHHHHHHHHHHHHHTTT-CEEE-----BHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHhhhcccccceeec--CcCCccHHHHHH
Confidence 55555554533 355556788877766 688888877653
No 49
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=56.96 E-value=42 Score=28.85 Aligned_cols=63 Identities=16% Similarity=0.176 Sum_probs=39.0
Q ss_pred CHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 127 NEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
+.+++.++++-+.++ +++++.++-+|-.||-. ..+ +.|.++++++. .++|||..+.|.-..-|
T Consensus 14 s~~~l~~~l~~a~~d--~~i~~vvl~~~s~Gg~~--~~~----~~l~~~i~~~~-----~~kpvia~v~g~a~s~g 76 (207)
T TIGR00706 14 SPEDFDKKIKRIKDD--KSIKALLLRINSPGGTV--VAS----EEIYEKLKKLK-----AKKPVVASMGGVAASGG 76 (207)
T ss_pred CHHHHHHHHHHHhhC--CCccEEEEEecCCCCCH--HHH----HHHHHHHHHhc-----CCCCEEEEECCccchHH
Confidence 567888888888776 55554323334345542 333 44566666654 15899999988665444
No 50
>PRK03369 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=55.99 E-value=75 Score=31.02 Aligned_cols=94 Identities=13% Similarity=0.156 Sum_probs=55.9
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|=.++.+++.+..+++-. + + ++-|+||+.. +.=.+.+++.+++.- .-+|+ -|.
T Consensus 329 ~iIDDS~AhNp~s~~aal~~~-----~--~----iilI~GG~~k----~~d~~~l~~~l~~~~-------~~vi~--iG~ 384 (488)
T PRK03369 329 TYVDDSKATNPHAARASILAY-----P--R----VVWIAGGLLK----GASVDALVAEMASRL-------VGAVL--IGR 384 (488)
T ss_pred EEEECCCCCCHHHHHHHHHhC-----C--C----eEEEecCcCC----CCCHHHHHHHHhhhe-------eEEEE--EcC
Confidence 578866677888898888622 1 2 4678899853 323455666665432 12333 465
Q ss_pred ChhHHHHHHHHHHHH--hCCCeEEcCC-----------------------------CCCHHHHHHHHHHHhhh
Q 026236 198 NYQTGLAKMRALGEE--LGIPLEVYGP-----------------------------EATMTGICKQAIDCIMS 239 (241)
Q Consensus 198 n~~~g~~~l~~~l~~--~gi~i~~~~~-----------------------------~~~m~eav~~av~~~~~ 239 (241)
..+.= .+.|++ .++|+..+.+ +++|++||++|.+++++
T Consensus 385 ~~~~i----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~av~~a~~~a~~ 453 (488)
T PRK03369 385 DRAVV----AEALSRHAPDVPVVQVVTGEDAGMPATPEVPVACVTDVADDDGETLGDAVMAAAVAAARRLARP 453 (488)
T ss_pred CHHHH----HHHHHhcCCCCCEEEeccccccccccccccccccccccccccccccchhhHHHHHHHHHHhCCC
Confidence 54444 444543 3456554421 11599999999987764
No 51
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=55.89 E-value=27 Score=35.25 Aligned_cols=62 Identities=15% Similarity=0.074 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh
Q 026236 126 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 199 (241)
Q Consensus 126 a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~ 199 (241)
...+.+.+.++-...| +++++.++-||-.||-+ +.++++.+ +++.+.. ..+|||+-+.|.-.
T Consensus 329 ~~~~~~~~~l~~a~~D--~~VkaIVLrinSpGGs~--~ase~i~~----~i~~~~~----~gKPVva~~~g~aa 390 (584)
T TIGR00705 329 TGGDTVAALLRVARSD--PDIKAVVLRINSPGGSV--FASEIIRR----ELARAQA----RGKPVIVSMGAMAA 390 (584)
T ss_pred cCHHHHHHHHHHHhhC--CCceEEEEEecCCCCCH--HHHHHHHH----HHHHHHh----CCCcEEEEECCccc
Confidence 3457788888888877 66665544455578864 45666554 4443332 25999999988443
No 52
>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=55.12 E-value=1.3e+02 Score=25.55 Aligned_cols=122 Identities=13% Similarity=0.108 Sum_probs=62.3
Q ss_pred CccEEEEecCchh--H----HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGA--S----VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGl--a----MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-.+. . ....+.+..+ |-++.+..-+-... .+..+++++-+++. +++..+++
T Consensus 116 ~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~~~l~~---~~~~~ai~-------- 181 (269)
T cd06281 116 HRRIALVGGGSNTRPGRERLEGYKAAFAAA--GLPPDPALVRLSTP-AASGFDATRALLAL---PDRPTAII-------- 181 (269)
T ss_pred CcEEEEecCccccccHHHHHHHHHHHHHHc--CCCCCHHHeecCcH-HHHHHHHHHHHHcC---CCCCcEEE--------
Confidence 4677777543221 1 2335777777 44442222222222 45556666555542 22233232
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
...|.+|.|+++++++.+. ++|==+.+-|....+- ... ..-++..+. .+..+.+++|+++..
T Consensus 182 --~~~d~~a~g~~~~l~~~g~-----~ip~dv~iig~d~~~~----~~~---~~~~l~ti~--~~~~~~g~~a~~~l~ 243 (269)
T cd06281 182 --AGGTQVLVGVLRALREAGL-----RIPRDLSVISIGDSDL----AEL---MDPPITALR--RDREAVGRTAAELML 243 (269)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCcceeEEEecCchH----HHh---cCCceeEEe--cCHHHHHHHHHHHHH
Confidence 2457799999999999874 5552222223221111 111 122233333 588888888888754
No 53
>COG1992 Uncharacterized conserved protein [Function unknown]
Probab=53.77 E-value=1.1e+02 Score=26.55 Aligned_cols=76 Identities=22% Similarity=0.335 Sum_probs=47.6
Q ss_pred CCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHH---HHHHHHHhC-------
Q 026236 145 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAK---MRALGEELG------- 214 (241)
Q Consensus 145 ~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~---l~~~l~~~g------- 214 (241)
+|+.+ ..+|| +=+ +.+++++++.+. .+-.+=|..=+.+.+..+. ....+++++
T Consensus 86 ~p~ir-aa~NI--------rY~---~~~v~~~~~~G~-----~v~~~dR~~Ep~~v~~~e~~w~i~~a~~~~~~~PDVIy 148 (181)
T COG1992 86 DPDIR-AAINI--------RYS---EEVVEALKDLGL-----AVSSFDRSKEPEEVEEKEGGWGIESAFRELGGAPDVIY 148 (181)
T ss_pred CCCce-EEeee--------ccc---HHHHHHHHhcCc-----eEEEeCcccCchhhhccccchHHHHHHHhcCCCCCEEE
Confidence 45555 36788 222 568888888764 5555656544444444333 344555554
Q ss_pred ------C--CeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 215 ------I--PLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 215 ------i--~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
. .+++|+ .+..|.++++++++..
T Consensus 149 d~G~~GkEpmi~v~g--r~a~evv~k~l~ll~k 179 (181)
T COG1992 149 DLGGVGKEPMIRVLG--RNAVEVVEKALRLLLK 179 (181)
T ss_pred eCCCCCcccEEEEeC--CCHHHHHHHHHHHHHh
Confidence 1 145777 6999999999998765
No 54
>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=53.55 E-value=1.2e+02 Score=25.37 Aligned_cols=122 Identities=13% Similarity=0.063 Sum_probs=62.6
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
..+|+++..-.+.. ....+.+..+ |.+.-. -..+..+.+..++.++-++.. +++..+++
T Consensus 115 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~l~~---~~~~~~i~-------- 179 (266)
T cd06278 115 CRRIAFIGGPADTSTSRERERGFRDALAAA--GVPVVV--EEAGDYSYEGGYEAARRLLAS---RPRPDAIF-------- 179 (266)
T ss_pred CceEEEEcCCCcccchHHHHHHHHHHHHHc--CCChhh--hccCCCCHHHHHHHHHHHHhc---CCCCCEEE--------
Confidence 35888885333321 2334566555 444222 123444566677777666653 23333233
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+.-|.+|.|+++|+++.+....+.++. |+-..++. .. + ..+.++..+. .+..+..++|+++..
T Consensus 180 --~~~~~~a~~~~~~l~~~~~~~~p~di~-i~~~d~~~--~~----~----~~~~~~~ti~--~~~~~~g~~a~~~l~ 242 (266)
T cd06278 180 --CANDLLAIGVMDAARQEGGLRVPEDVS-VIGFDDIP--MA----A----WPSYQLTTVR--QPVDRMAEEAVDLLE 242 (266)
T ss_pred --EcCcHHHHHHHHHHHHhcCCCCccceE-EEEeCChh--Hh----h----ccCCCceEEe--CcHHHHHHHHHHHHH
Confidence 233668899999999864211111233 33333332 22 1 2344434333 578888888887643
No 55
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=53.54 E-value=61 Score=28.00 Aligned_cols=117 Identities=12% Similarity=0.129 Sum_probs=54.4
Q ss_pred ceEEecCCccEEEEecCchhHH----HHHHHHHhhccCCCCcceeccCCCCCHHH-HHHHHHHHhhcccCCCCc-ceEEE
Q 026236 80 KFTVLNPKGRIWTMVAGGGASV----IYADTVGDLGYASELGNYAEYSGAPNEEE-VLQYARVVIDCATADPDG-RKRAL 153 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaM----atmD~i~~~~~gg~pANFlD~GG~a~~~~-v~~a~~iil~~~~~~~~~-~~i~i 153 (241)
+|+..+|.++||+++-++|-+- .|-|.-.... --+=++.+|+++-.. +..|...+ +.. ++... +-|++
T Consensus 39 ~f~~~np~~~vGlv~fag~~a~v~~plT~D~~~~~~----~L~~i~~~g~~~l~~AL~~A~~~L-~~~-~~~~~~~rivi 112 (187)
T cd01452 39 AKTRSNPENNVGLMTMAGNSPEVLVTLTNDQGKILS----KLHDVQPKGKANFITGIQIAQLAL-KHR-QNKNQKQRIVA 112 (187)
T ss_pred HHHhcCCCccEEEEEecCCceEEEECCCCCHHHHHH----HHHhCCCCCcchHHHHHHHHHHHH-hcC-CCcCCcceEEE
Confidence 3677899999999998884331 1222222110 000012346664333 44444333 331 22111 12344
Q ss_pred EEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHh
Q 026236 154 LIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEEL 213 (241)
Q Consensus 154 nI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~ 213 (241)
.++.++ .||. ..+.++.+++.. ..+.|-|=--|+. ++..++|..+.+..
T Consensus 113 ~v~S~~----~~d~--~~i~~~~~~lkk----~~I~v~vI~~G~~-~~~~~~l~~~~~~~ 161 (187)
T cd01452 113 FVGSPI----EEDE--KDLVKLAKRLKK----NNVSVDIINFGEI-DDNTEKLTAFIDAV 161 (187)
T ss_pred EEecCC----cCCH--HHHHHHHHHHHH----cCCeEEEEEeCCC-CCCHHHHHHHHHHh
Confidence 444333 5653 334455554432 2355444444766 44446666655554
No 56
>KOG1384 consensus tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=52.09 E-value=12 Score=35.65 Aligned_cols=90 Identities=23% Similarity=0.240 Sum_probs=57.6
Q ss_pred EEE-ecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcc--eEEEEEeccccccccHHH
Q 026236 91 WTM-VAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGR--KRALLIGGGIANFTDVAT 167 (241)
Q Consensus 91 g~m-vnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~--~i~inI~GGI~n~T~~d~ 167 (241)
.+| ..|+|.+=..+|+-..+ +|+.-| ++.=|+|+.+.+++.+.+.+.+.- --|+.++ +. ..+-
T Consensus 11 vI~G~TGsGKSrLaVdLA~rf--~~EIIN-------sDkmQvYkGldivTnK~t~~e~~gVPHHLlg~l----~~-~~e~ 76 (348)
T KOG1384|consen 11 VIMGATGAGKSRLAVDLATRF--PGEIIN-------SDKMQVYKGLDIVTNKITLQERKGVPHHLLGHL----HP-EAEY 76 (348)
T ss_pred EEecCCCCChhhhHHHHHHhC--Cceeec-------ccceeeecCcccccccCChhhcCCCChHHhCcC----Ch-Hhhc
Confidence 444 57999999999999999 999998 678889999999988744432210 0133332 22 1122
Q ss_pred HHH----HHHHHHHHhhhhhcccceeEEEEecCCCh
Q 026236 168 TFN----GIIRALREKESKLKAARMHIFVRRGGPNY 199 (241)
Q Consensus 168 iA~----GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~ 199 (241)
.|. -=.+|+++... .-++|||+ .|+|.
T Consensus 77 t~~~F~~~a~~aie~I~~---rgk~PIv~--GGs~~ 107 (348)
T KOG1384|consen 77 TAGEFEDDASRAIEEIHS---RGKLPIVV--GGSNS 107 (348)
T ss_pred cHHHHHHHHHHHHHHHHh---CCCCCEEe--CCchh
Confidence 222 12345555443 23799998 78884
No 57
>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=52.06 E-value=1.4e+02 Score=25.01 Aligned_cols=120 Identities=10% Similarity=-0.033 Sum_probs=64.7
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++........ ...+.+..+ |.++-.+.-..+..+.+..+++++-+++. +++..+++.
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~~------- 183 (268)
T cd01575 116 YRRIGFLGARMDDTRAQQRLEGFRAALRAA--GLDPPLVVTTPEPSSFALGRELLAELLAR---WPDLDAVFC------- 183 (268)
T ss_pred CCcEEEecCCCCcccHHHHHHHHHHHHHHc--CCCCCceeEeccCCCHHHHHHHHHHHHhC---CCCCCEEEE-------
Confidence 467888754333111 223555666 44433333334455667777777777753 233333331
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.-|.+|.|+++++++.+. ++| .|+-..++.. . .. ..-++..+. .+..+..+.|++++
T Consensus 184 ---~~d~~a~~~~~~l~~~g~-----~~p~di~vig~d~~~~--~----~~----~~~~itti~--~~~~~~g~~a~~~l 243 (268)
T cd01575 184 ---SNDDLALGALFECQRRGI-----SVPEDIAIAGFGDLEI--A----AA----LPPALTTVR--TPRREIGRRAAELL 243 (268)
T ss_pred ---CCcHHHHHHHHHHHHhCC-----CCCcceEEEecCCchh--h----hc----cCCCceeee--CCHHHHHHHHHHHH
Confidence 235688999999999873 566 2444444321 1 11 111222222 47788888887765
Q ss_pred h
Q 026236 238 M 238 (241)
Q Consensus 238 ~ 238 (241)
.
T Consensus 244 ~ 244 (268)
T cd01575 244 L 244 (268)
T ss_pred H
Confidence 4
No 58
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=51.98 E-value=1.3e+02 Score=24.62 Aligned_cols=97 Identities=12% Similarity=0.100 Sum_probs=60.9
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC-
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP- 197 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt- 197 (241)
-.|+|-.-+++++.++.+- .+++. +.+... + |......+.+++.+++.+. .+++ +=+.|+
T Consensus 32 Vi~LG~~v~~e~~v~aa~~------~~adi--VglS~l---~--~~~~~~~~~~~~~l~~~gl----~~~~--vivGG~~ 92 (134)
T TIGR01501 32 VVNLGVLSPQEEFIKAAIE------TKADA--ILVSSL---Y--GHGEIDCKGLRQKCDEAGL----EGIL--LYVGGNL 92 (134)
T ss_pred EEECCCCCCHHHHHHHHHH------cCCCE--EEEecc---c--ccCHHHHHHHHHHHHHCCC----CCCE--EEecCCc
Confidence 4678988999998877652 23443 333222 1 4556667889999998764 2344 334664
Q ss_pred -ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 198 -NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 198 -n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
..++-.+-.++.|+++|+. .+|++.+++++++.....
T Consensus 93 vi~~~d~~~~~~~l~~~Gv~-~vF~pgt~~~~iv~~l~~ 130 (134)
T TIGR01501 93 VVGKQDFPDVEKRFKEMGFD-RVFAPGTPPEVVIADLKK 130 (134)
T ss_pred CcChhhhHHHHHHHHHcCCC-EEECcCCCHHHHHHHHHH
Confidence 2232222224457889975 578999999998876544
No 59
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=51.88 E-value=1.8e+02 Score=26.23 Aligned_cols=108 Identities=8% Similarity=0.002 Sum_probs=56.4
Q ss_pred HHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhh
Q 026236 104 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 183 (241)
Q Consensus 104 mD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~ 183 (241)
.|.+..+ |-++....-..|..+.+.-+++++-+++. .++++..+++ +.-|.+|.|+++|+++.+.
T Consensus 185 ~~al~~~--g~~~~~~~~~~~~~~~~~a~~~~~~~l~~-~~~~~~~ai~----------~~~d~~A~gvl~al~~~Gl-- 249 (330)
T PRK15395 185 IKELNDK--GIKTEQLQLDTAMWDTAQAKDKMDAWLSG-PNANKIEVVI----------ANNDAMAMGAVEALKAHNK-- 249 (330)
T ss_pred HHHHHhc--CCCeeeeecccCCcCHHHHHHHHHHHHhh-CcCCCeeEEE----------ECCchHHHHHHHHHHhcCC--
Confidence 4677666 43332222123445556667777666653 0123333223 2347789999999999872
Q ss_pred cccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 184 KAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 184 ~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
.++| |+-.. +.+.+ ...+.+ |..+..+. .+..+..+.|++++.
T Consensus 250 --~~vp-Vvg~D--~~~~~----~~~~~~-g~~~ttv~--~~~~~~G~~a~~~l~ 292 (330)
T PRK15395 250 --SSIP-VFGVD--ALPEA----LALVKS-GAMAGTVL--NDANNQAKATFDLAK 292 (330)
T ss_pred --CCCe-EEeeC--CCHHH----HHHHHh-CCceEEEe--cCHHHHHHHHHHHHH
Confidence 1678 44333 23445 333332 43223222 366666666666543
No 60
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=50.47 E-value=80 Score=25.49 Aligned_cols=62 Identities=16% Similarity=0.161 Sum_probs=39.0
Q ss_pred CCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 126 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 126 a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
.+.+++.++++-+-.+ ++.++..+.+|-.||-. + -...|.+++++. ++|+|....|.-..-|
T Consensus 11 ~~~~~l~~~l~~a~~d--~~~~~ivl~~~s~Gg~~--~----~~~~i~~~l~~~-------~kpvva~~~g~~~s~g 72 (161)
T cd00394 11 VSADQLAAQIRFAEAD--NSVKAIVLEVNTPGGRV--D----AGMNIVDALQAS-------RKPVIAYVGGQAASAG 72 (161)
T ss_pred chHHHHHHHHHHHHhC--CCCceEEEEEECCCcCH--H----HHHHHHHHHHHh-------CCCEEEEECChhHHHH
Confidence 3556677777777666 44555333345556642 2 235567777765 4899999998776555
No 61
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=49.89 E-value=1.8e+02 Score=26.16 Aligned_cols=86 Identities=16% Similarity=0.100 Sum_probs=51.3
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccc-------cccHHHHHHHHHHHHHHhhhhhcccceeEE
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN-------FTDVATTFNGIIRALREKESKLKAARMHIF 191 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n-------~T~~d~iA~GIv~A~~~~~~~~~~~~vPiV 191 (241)
...+.|. +.+.+.++.+.+-+. ......+-+|+. .-.. -.+. +...-|++++++.- ++||.
T Consensus 94 ~~qi~g~-~~~~~~~~a~~~~~~---~~~~d~ielN~~-cP~~~~~g~~l~~~~-~~~~eiv~~vr~~~------~~pv~ 161 (300)
T TIGR01037 94 IASVYGS-SVEEFAEVAEKLEKA---PPYVDAYELNLS-CPHVKGGGIAIGQDP-ELSADVVKAVKDKT------DVPVF 161 (300)
T ss_pred EEEeecC-CHHHHHHHHHHHHhc---cCccCEEEEECC-CCCCCCCccccccCH-HHHHHHHHHHHHhc------CCCEE
Confidence 4555553 578888888888531 112345788854 2110 0122 35567888887753 69999
Q ss_pred EEecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 192 VRRGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 192 vRl~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
||+..+ .++..++. +.+++.|+...
T Consensus 162 vKi~~~-~~~~~~~a-~~l~~~G~d~i 186 (300)
T TIGR01037 162 AKLSPN-VTDITEIA-KAAEEAGADGL 186 (300)
T ss_pred EECCCC-hhhHHHHH-HHHHHcCCCEE
Confidence 999854 44544444 44778887654
No 62
>PRK06091 membrane protein FdrA; Validated
Probab=49.54 E-value=1.1e+02 Score=31.05 Aligned_cols=85 Identities=16% Similarity=0.142 Sum_probs=52.3
Q ss_pred CCCcceEEEEEe-ccccccccHHHHHHHHHHHHHHhhhhh-cccceeEEEEecCCChh-HHHHHHHHHHHHhCCCeEEcC
Q 026236 145 DPDGRKRALLIG-GGIANFTDVATTFNGIIRALREKESKL-KAARMHIFVRRGGPNYQ-TGLAKMRALGEELGIPLEVYG 221 (241)
Q Consensus 145 ~~~~~~i~inI~-GGI~n~T~~d~iA~GIv~A~~~~~~~~-~~~~vPiVvRl~Gtn~~-~g~~~l~~~l~~~gi~i~~~~ 221 (241)
++++-+|++-+. | - -....-|..++.|+++..... ....+++|+-+.||..+ ++++-=++.|++.|+ .++.
T Consensus 407 dp~~~VillD~vlG-y---Gah~dpa~~l~~ai~~~~~~~~~~r~l~~v~~v~GT~~DpQ~~~~q~~~L~~aGv--~v~~ 480 (555)
T PRK06091 407 KPQVRVLLLDVVIG-F---GATADPAGSLVSAIQKACAARADGQPLYAIATVTGTERDPQCRSQQIATLEDAGI--AVVD 480 (555)
T ss_pred CCcceEEEEEeeec-c---CCCCChHHHHHHHHHHHHhhhhcCCceEEEEEEeCCCCCCcCHHHHHHHHHhCCe--EEEc
Confidence 455555676543 3 1 122334555555555543111 12358999999998653 222222889999997 5655
Q ss_pred CCCCHHHHHHHHHHHhh
Q 026236 222 PEATMTGICKQAIDCIM 238 (241)
Q Consensus 222 ~~~~m~eav~~av~~~~ 238 (241)
+-.+|++.|.++++
T Consensus 481 ---sn~~a~~~a~~~~~ 494 (555)
T PRK06091 481 ---SLPEATLLAAALIR 494 (555)
T ss_pred ---CcHHHHHHHHHHhh
Confidence 88899999998876
No 63
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=49.12 E-value=37 Score=30.43 Aligned_cols=49 Identities=20% Similarity=0.272 Sum_probs=37.5
Q ss_pred ceEEecCCccEEEEecCchhHHHHHHHHHhhccC----CCCcceeccCCCCCH
Q 026236 80 KFTVLNPKGRIWTMVAGGGASVIYADTVGDLGYA----SELGNYAEYSGAPNE 128 (241)
Q Consensus 80 ~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~~~g----g~pANFlD~GG~a~~ 128 (241)
-|+.+|+++..|..++++-.....-|++.++... |-|.=|+++|+++..
T Consensus 116 gYiv~~~~~~va~~~~~~~~~~~~~~~~~~~~lA~~~~g~~~vYle~gs~~g~ 168 (232)
T PRK04169 116 GYIVLNPGSKVAVVGTAAPIPLDKPDIAAYAALAAEYLGMPIVYLEYGGGAGD 168 (232)
T ss_pred EEEEECCCCeeeeeeccccCCCChHHHHHHHHHHHHHcCCCeEEEECCCCCCC
Confidence 3999999999999888887776666777665433 578889999977543
No 64
>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=48.40 E-value=1.6e+02 Score=24.62 Aligned_cols=117 Identities=13% Similarity=0.134 Sum_probs=63.2
Q ss_pred ccEEEEecCch-hH------HHHHHHHHhhccCCCC-cceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 88 GRIWTMVAGGG-AS------VIYADTVGDLGYASEL-GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 88 G~Ig~mvnGaG-la------MatmD~i~~~~~gg~p-ANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.+|+++...-+ .. ....+.+..+ |-.+ .......+ .+.+..+++++-+++. +++..+++
T Consensus 117 ~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~---~~~~~ai~------- 183 (267)
T cd06283 117 ERILFVTEPLDEISPRMERYEGFKEALAEH--GIGVNEELIEIDD-EDADELDERLRQLLNK---PKKKTAIF------- 183 (267)
T ss_pred CcEEEEecCccccccHHHHHHHHHHHHHHc--CCCCCcceeEecc-cchHHHHHHHHHHHcC---CCCCCEEE-------
Confidence 58888864333 21 3446777777 4332 22333332 3356667777777653 23332233
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
+..|.+|.|+++|+++.+. ++| .|+-..++.. . +.. .-++ ..+. .+..+....|+++
T Consensus 184 ---~~~d~~a~g~~~~l~~~g~-----~vp~di~v~g~d~~~~--~-----~~~-~~~l--~tv~--~~~~~~g~~a~~~ 243 (267)
T cd06283 184 ---AANGLILLEVLKALKELGI-----RIPEDVGLIGFDDTEW--A-----ELI-GPGI--TTIA--QPTYEMGKTAAEL 243 (267)
T ss_pred ---EcCcHHHHHHHHHHHHcCC-----CCccceEEEEeCCccH--h-----hhc-CCcc--eEec--CCHHHHHHHHHHH
Confidence 2457899999999999874 444 3444444421 2 111 1123 2222 4677777777765
Q ss_pred h
Q 026236 237 I 237 (241)
Q Consensus 237 ~ 237 (241)
+
T Consensus 244 l 244 (267)
T cd06283 244 L 244 (267)
T ss_pred H
Confidence 4
No 65
>PRK02628 nadE NAD synthetase; Reviewed
Probab=47.78 E-value=1.4e+02 Score=30.77 Aligned_cols=76 Identities=16% Similarity=0.140 Sum_probs=50.5
Q ss_pred cceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC-ChhHHHHHHHHHHHHhCCCeEEcCCCCCH
Q 026236 148 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP-NYQTGLAKMRALGEELGIPLEVYGPEATM 226 (241)
Q Consensus 148 ~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt-n~~~g~~~l~~~l~~~gi~i~~~~~~~~m 226 (241)
.+.++|-+.||| +-..++--.++|++.++.. +.++ +-|.+.|. +.+...+..+++.+.+|++.++. ++
T Consensus 361 ~~~vvvglSGGi----DSal~l~l~~~a~~~lg~~--~~~v-~~v~mp~~~ss~~s~~~a~~la~~LGi~~~~i----~I 429 (679)
T PRK02628 361 LKKVVIGISGGL----DSTHALLVAAKAMDRLGLP--RKNI-LAYTMPGFATTDRTKNNAVALMKALGVTAREI----DI 429 (679)
T ss_pred CCeEEEECCCCH----HHHHHHHHHHHHHHhhCCC--cceE-EEEECCCCCCCHHHHHHHHHHHHHhCCeEEEE----Ec
Confidence 455799999999 6666666677787765410 0134 66677765 33455666699999999998754 46
Q ss_pred HHHHHHHH
Q 026236 227 TGICKQAI 234 (241)
Q Consensus 227 ~eav~~av 234 (241)
++++..-.
T Consensus 430 ~~~~~~~~ 437 (679)
T PRK02628 430 RPAALQML 437 (679)
T ss_pred HHHHHHHH
Confidence 66665443
No 66
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=47.77 E-value=59 Score=26.15 Aligned_cols=68 Identities=19% Similarity=0.217 Sum_probs=46.3
Q ss_pred CCcceEEEEEecccccccc--------HHHHHHHHHHHHHHhhhhhcccceeEEEEe--------cCCChhHHHHHHHHH
Q 026236 146 PDGRKRALLIGGGIANFTD--------VATTFNGIIRALREKESKLKAARMHIFVRR--------GGPNYQTGLAKMRAL 209 (241)
Q Consensus 146 ~~~~~i~inI~GGI~n~T~--------~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl--------~Gtn~~~g~~~l~~~ 209 (241)
.+++..+....||..-|.. +...|+-+.+..++++. ..+.|.+|= .|+..+.+ -+.
T Consensus 21 ~~G~~~~~~~S~G~~g~kg~kk~TpyAAq~aa~~~~~~~~~~Gi----~~v~v~ikG~gg~~~~~~G~Gr~~a----ir~ 92 (114)
T TIGR03628 21 ITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKERGI----TGLHIKVRAPGGNGQKSPGPGAQAA----IRA 92 (114)
T ss_pred CCCCEEEEEecCcceEeCCCccCCHHHHHHHHHHHHHHHHHcCC----cEEEEEEEecCCCCCCCCCCcHHHH----HHH
Confidence 4443345566676665533 34567888888888765 367777777 67999999 556
Q ss_pred HHHhCCCeEEcC
Q 026236 210 GEELGIPLEVYG 221 (241)
Q Consensus 210 l~~~gi~i~~~~ 221 (241)
|+.+|+.|....
T Consensus 93 l~~~glkI~~I~ 104 (114)
T TIGR03628 93 LARAGLRIGRIE 104 (114)
T ss_pred HHHCCCEEEEEE
Confidence 677899887554
No 67
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=47.44 E-value=46 Score=28.97 Aligned_cols=83 Identities=14% Similarity=0.156 Sum_probs=51.2
Q ss_pred CCCCCHHHHHHHHHHHhhcccCCCCcceEEEEE--eccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChh
Q 026236 123 SGAPNEEEVLQYARVVIDCATADPDGRKRALLI--GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQ 200 (241)
Q Consensus 123 GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI--~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~ 200 (241)
++..+.+.+.++++-+.+| | +++++++.+ .||- .+.++++ .++++.+.. ..+|||....|.. .
T Consensus 26 ~~~~~~~~l~~~l~~a~~d--~--~ik~vvL~~~s~gg~--~~~~~el----~~~i~~~~~----~~kpVia~~~~~~-s 90 (222)
T cd07018 26 SSELSLRDLLEALEKAAED--D--RIKGIVLDLDGLSGG--LAKLEEL----RQALERFRA----SGKPVIAYADGYS-Q 90 (222)
T ss_pred cCCccHHHHHHHHHHHhcC--C--CeEEEEEECCCCCCC--HHHHHHH----HHHHHHHHH----hCCeEEEEeCCCC-c
Confidence 4456778889899888777 4 444566655 3442 2566655 444544431 2689999887622 2
Q ss_pred HH--------------------------HHHHHHHHHHhCCCeEEc
Q 026236 201 TG--------------------------LAKMRALGEELGIPLEVY 220 (241)
Q Consensus 201 ~g--------------------------~~~l~~~l~~~gi~i~~~ 220 (241)
-| .-.++++|++.|+.++++
T Consensus 91 ggy~lasaad~I~a~p~~~vg~iGv~~~~~~~~~ll~klGv~~~~~ 136 (222)
T cd07018 91 GQYYLASAADEIYLNPSGSVELTGLSAETLFFKGLLDKLGVEVQVF 136 (222)
T ss_pred hhhhhhhhCCEEEECCCceEEeeccchhhhhHHHHHHHcCCcEEEE
Confidence 22 112468888999987754
No 68
>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=47.21 E-value=1.8e+02 Score=24.65 Aligned_cols=121 Identities=16% Similarity=0.080 Sum_probs=62.8
Q ss_pred CccEEEEecCchh------HHHHHHHHHhhccCCCCc--ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecc
Q 026236 87 KGRIWTMVAGGGA------SVIYADTVGDLGYASELG--NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 158 (241)
Q Consensus 87 dG~Ig~mvnGaGl------aMatmD~i~~~~~gg~pA--NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GG 158 (241)
.++|+++..--+. --..++.+..+ |-+.. .+++ +..+.+..++.++-+++. +++..+++
T Consensus 114 ~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~--~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~---~~~~~ai~------ 180 (265)
T cd06285 114 HRRIAVLAGPDYASTARDRLAGFRAALAEA--GIEVPPERIVY--SGFDIEGGEAAAEKLLRS---DSPPTAIF------ 180 (265)
T ss_pred CccEEEEeCCcccccHHHHHHHHHHHHHHc--CCCCChhhEEe--CCCCHHHHHHHHHHHHcC---CCCCCEEE------
Confidence 4678877532221 12346777776 43322 2222 445566666666666542 23333233
Q ss_pred ccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 159 IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 159 I~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+.-|.+|.|+++++++.+. ++|==+.+-|-....- .+....++.... .+..+..+.|++++.
T Consensus 181 ----~~~d~~a~g~~~~l~~~g~-----~~p~di~iig~d~~~~-------~~~~~p~~t~i~--~~~~~~g~~a~~~l~ 242 (265)
T cd06285 181 ----AVNDFAAIGVMGAARDRGL-----RVPDDVALVGYNDIPL-------VARLPVPLTTVR--SPFHQIGRTALRLLL 242 (265)
T ss_pred ----EcCcHHHHHHHHHHHHcCC-----CCCcceEEEeecCcHH-------HhcCCCCceeEe--CCHHHHHHHHHHHHH
Confidence 1236689999999999874 5662333333321111 122233333322 467777777777653
No 69
>PRK14022 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional
Probab=47.08 E-value=2.2e+02 Score=27.59 Aligned_cols=101 Identities=15% Similarity=0.220 Sum_probs=51.0
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
+.| ++.+++.+..+++.+-+. + +.+ ++-|||.+-.- .-+. -.-+.+.+.+.. ..-+++.-.-++
T Consensus 343 i~D--yahNP~s~~aal~~l~~~--~--~~r--~i~V~G~~~e~-g~~~-~~~~~~~~~~~~------~~~vi~~~~~~r 406 (481)
T PRK14022 343 FID--YAHNGDSLNKLIDVVEEH--Q--KGK--LILLLGAAGNK-GESR-RPDFGRVANRHP------YLQVILTADDPN 406 (481)
T ss_pred EEE--CCCCHHHHHHHHHHHhhh--C--CCC--EEEEECCCCCC-Ccch-hHHHHHHHHhcC------CceEEEccCCCC
Confidence 446 478899999999998442 1 223 45577843210 0011 122444444432 222455322222
Q ss_pred hhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 199 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 199 ~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
.+...++.+.+.+..+.++.++ .+.++|++.|++.++
T Consensus 407 ~e~~~~i~~~i~~~~~~~~~~~---~d~~~Ai~~a~~~a~ 443 (481)
T PRK14022 407 NEDPKMITQEIASHITHPVEII---DDRAEAIKHAMSITE 443 (481)
T ss_pred CCCHHHHHHHHHhcCCCCeEEE---CCHHHHHHHHHHhcC
Confidence 2444233333322123344444 389999999988765
No 70
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=46.93 E-value=2.1e+02 Score=25.64 Aligned_cols=121 Identities=10% Similarity=0.026 Sum_probs=64.8
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
..+|+++....... -...+.+..+ |-.+....-+.+..+.+.-+++++-+++. .+.+.+ ++
T Consensus 176 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~--gi~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 242 (346)
T PRK10401 176 HQRIGYLSSSHGIEDDAMRRAGWMSALKEQ--GIIPPESWIGTGTPDMQGGEAAMVELLGR-NLQLTA--VF-------- 242 (346)
T ss_pred CCeEEEEeCCCcCcchHHHHHHHHHHHHHc--CCCCChhheecCCCChHHHHHHHHHHHcC-CCCCcE--EE--------
Confidence 46888885433221 2345788887 44433222223555666666777666653 122332 23
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh-hHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY-QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~-~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.--|.+|.|+++|+++.+. ++|==+.+-|-+- +.+ .-..-++.... .+..+..+.|+++.
T Consensus 243 --~~nd~~A~g~~~al~~~G~-----~vP~disvigfD~~~~~--------~~~~p~lttv~--~~~~~~g~~A~~~l 303 (346)
T PRK10401 243 --AYNDNMAAGALTALKDNGI-----AIPLHLSIIGFDDIPIA--------RYTDPQLTTVR--YPIASMAKLATELA 303 (346)
T ss_pred --ECCcHHHHHHHHHHHHcCC-----CCCCceEEEEeCCchHH--------hcCCCCCceee--cCHHHHHHHHHHHH
Confidence 2347899999999999874 6772223333321 122 11222333222 46777777777754
No 71
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=46.60 E-value=1.3e+02 Score=28.92 Aligned_cols=93 Identities=14% Similarity=0.219 Sum_probs=51.3
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|=.++.+++.+..+++.+ + + ++-|+||+.. |.=.+.+++.+.+... .+ +++ |.
T Consensus 346 ~iiDDs~ahNp~a~~aaL~~l-----~--~----i~~I~gG~~~----~kd~~~~~~~l~~~~~-----~v-i~~---g~ 401 (480)
T PRK01438 346 TWVDDSKATNPHAAAASLAAY-----P--S----VVWIAGGLAK----GADFDDLVRRAAGRLR-----GV-VLI---GA 401 (480)
T ss_pred EEEecCccCCHHHHHHHHHhC-----C--C----EEEEEecccC----CCCHHHHHHHHHhhce-----EE-EEE---CC
Confidence 478866666777888777655 1 1 3456788753 2223445555544321 22 222 65
Q ss_pred ChhHHHHHHHHHHHH--hCCCeEEcC--CCCCHHHHHHHHHHHhh
Q 026236 198 NYQTGLAKMRALGEE--LGIPLEVYG--PEATMTGICKQAIDCIM 238 (241)
Q Consensus 198 n~~~g~~~l~~~l~~--~gi~i~~~~--~~~~m~eav~~av~~~~ 238 (241)
..+.- .+.++. .++++..+. ..+++++|++.|.+.++
T Consensus 402 ~~~~~----~~~l~~~~~~~~~~~~~~~~~~~~~~A~~~a~~~~~ 442 (480)
T PRK01438 402 DRAEI----AEALARHAPDVPVVEVDRTDTGAMDEAVAAAAKLAR 442 (480)
T ss_pred CHHHH----HHHHHhcCCCCCEEEecCCCcCCHHHHHHHHHHhCC
Confidence 54433 344443 234555442 12389999999887654
No 72
>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=45.63 E-value=95 Score=27.82 Aligned_cols=68 Identities=15% Similarity=0.192 Sum_probs=36.6
Q ss_pred EEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHH
Q 026236 151 RALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGIC 230 (241)
Q Consensus 151 i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav 230 (241)
|+| .|||. +-......+++++.+.. .+.++.| +.|++.... +-|++..+..+ ++++++..++|.+..
T Consensus 173 iLi-~~GG~----d~~~~~~~~l~~l~~~~-----~~~~i~v-v~G~~~~~~-~~l~~~~~~~~-~i~~~~~~~~m~~lm 239 (279)
T TIGR03590 173 VLV-SFGGA----DPDNLTLKLLSALAESQ-----INISITL-VTGSSNPNL-DELKKFAKEYP-NIILFIDVENMAELM 239 (279)
T ss_pred EEE-EeCCc----CCcCHHHHHHHHHhccc-----cCceEEE-EECCCCcCH-HHHHHHHHhCC-CEEEEeCHHHHHHHH
Confidence 454 45554 44446677888887754 2577777 667654322 22244334332 456655445565543
Q ss_pred H
Q 026236 231 K 231 (241)
Q Consensus 231 ~ 231 (241)
.
T Consensus 240 ~ 240 (279)
T TIGR03590 240 N 240 (279)
T ss_pred H
Confidence 3
No 73
>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=1.8e+02 Score=24.37 Aligned_cols=79 Identities=11% Similarity=0.077 Sum_probs=44.5
Q ss_pred CccEEEEecCch-hH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGG-AS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaG-la------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++...-+ .. -...+.+..+ |.+..-..=+-+..+.+..+++++-+++. ++ ..+++
T Consensus 116 ~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~-~~ai~------- 182 (268)
T cd06298 116 HKKIAFISGPLEDSINGDERLAGYKEALSEA--NIEFDESLIFEGDYTYESGYELAEELLED---GK-PTAAF------- 182 (268)
T ss_pred CceEEEEeCCcccccchhHHHHHHHHHHHHc--CCCCCHHHeEeCCCChhHHHHHHHHHhcC---CC-CCEEE-------
Confidence 578888864333 11 2335777777 44432111112333456666666666653 22 22233
Q ss_pred cccccHHHHHHHHHHHHHHhhh
Q 026236 160 ANFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+..|.+|.|+++++++.+.
T Consensus 183 ---~~~d~~a~~~~~~l~~~g~ 201 (268)
T cd06298 183 ---VTDDELAIGILNAAQDAGL 201 (268)
T ss_pred ---EcCcHHHHHHHHHHHHcCC
Confidence 2457789999999999874
No 74
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=45.20 E-value=73 Score=29.64 Aligned_cols=78 Identities=19% Similarity=0.240 Sum_probs=52.3
Q ss_pred ccEEEEecCchhHHHHH----HHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccc
Q 026236 88 GRIWTMVAGGGASVIYA----DTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFT 163 (241)
Q Consensus 88 G~Ig~mvnGaGlaMatm----D~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T 163 (241)
|++.+++..+-...-.+ +.+... |-+..-|-++++.|+.+.+.++.+.+-+. +++ .+|=|+||-
T Consensus 22 gr~lvVt~~~~~~~~~~~~v~~~L~~~--~i~~~~~~~~~~~p~~~~v~~~~~~~~~~---~~D---~IIaiGGGS---- 89 (366)
T PF00465_consen 22 GRVLVVTDPSLSKSGLVDRVLDALEEA--GIEVQVFDGVGPNPTLEDVDEAAEQARKF---GAD---CIIAIGGGS---- 89 (366)
T ss_dssp TEEEEEEEHHHHHHTHHHHHHHHHHHT--TCEEEEEEEESSS-BHHHHHHHHHHHHHT---TSS---EEEEEESHH----
T ss_pred CCEEEEECchHHhCccHHHHHHHHhhC--ceEEEEEecCCCCCcHHHHHHHHHHHHhc---CCC---EEEEcCCCC----
Confidence 57777776522222123 344444 55777888899999999999999999763 344 367777774
Q ss_pred cHHHHHHHHHHHHHH
Q 026236 164 DVATTFNGIIRALRE 178 (241)
Q Consensus 164 ~~d~iA~GIv~A~~~ 178 (241)
|-.+|+.+.-.+.+
T Consensus 90 -~~D~aK~va~~~~~ 103 (366)
T PF00465_consen 90 -VMDAAKAVALLLAN 103 (366)
T ss_dssp -HHHHHHHHHHHHTS
T ss_pred -cCcHHHHHHhhccC
Confidence 55588888877763
No 75
>PRK00766 hypothetical protein; Provisional
Probab=44.97 E-value=1.4e+02 Score=26.12 Aligned_cols=29 Identities=17% Similarity=0.253 Sum_probs=20.0
Q ss_pred eeEEEEecCCChhHHHHHHHHHHHHhCCC
Q 026236 188 MHIFVRRGGPNYQTGLAKMRALGEELGIP 216 (241)
Q Consensus 188 vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~ 216 (241)
.|++|+..|-..+++.+++++......+|
T Consensus 145 ~~vyvs~~gi~l~~A~~lv~~~~~~~riP 173 (194)
T PRK00766 145 GPLYIQAAGIDPETAAEIVRLTSTRSLIP 173 (194)
T ss_pred CCEEEEEcCCCHHHHHHHHHHhccCCCCc
Confidence 56788888888888866665554444554
No 76
>TIGR01087 murD UDP-N-acetylmuramoylalanine--D-glutamate ligase.
Probab=44.60 E-value=1.6e+02 Score=27.78 Aligned_cols=90 Identities=18% Similarity=0.214 Sum_probs=50.3
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
|+|=+.+.+++.+..+++.+ ++ + ++-|+||.. ..-| .+.+.+.+.+. ...+++ .|..
T Consensus 311 ~idD~~atn~~a~~~al~~~-----~~---~--ii~I~Gg~~--~~~d--~~~~~~~l~~~-------~~~v~~--~G~~ 367 (433)
T TIGR01087 311 FYNDSKATNVHATLAALSAF-----DN---P--VILIVGGDD--KGAD--FSPLAPAAAGK-------VKAVLA--IGED 367 (433)
T ss_pred EEEcCCCCCHHHHHHHHHhC-----CC---C--EEEEEcCCC--CCCC--HHHHHHHHHhh-------CCEEEE--ECCC
Confidence 34333367788888888865 11 1 355678764 2222 24455555432 122333 3665
Q ss_pred hhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 199 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 199 ~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
.+. +.+.++..+.++.++ .++++|++.+.+.++
T Consensus 368 ~~~----l~~~~~~~~~~~~~~---~~~~~a~~~~~~~~~ 400 (433)
T TIGR01087 368 AAK----IAPLLKEAGLSVYLV---ESLEEAVQAAREVAS 400 (433)
T ss_pred HHH----HHHHHHhCCCcEEEe---CCHHHHHHHHHHhcC
Confidence 443 245555555565544 389999998877654
No 77
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=44.31 E-value=87 Score=29.07 Aligned_cols=59 Identities=17% Similarity=0.169 Sum_probs=42.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC
Q 026236 125 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 196 (241)
Q Consensus 125 ~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G 196 (241)
..+.+.+.+.++.+..+ +++++..+.||--||-+ . -++-|.++++++.. +.|+||=+.+
T Consensus 79 ~~~~~~~~~~l~~~~~~--~~vk~vvL~inSPGG~v--~----as~~i~~~l~~l~~-----~~PV~v~v~~ 137 (317)
T COG0616 79 FIGGDDIEEILRAARAD--PSVKAVVLRINSPGGSV--V----ASELIARALKRLRA-----KKPVVVSVGG 137 (317)
T ss_pred cccHHHHHHHHHHHhcC--CCCceEEEEEECcCCch--h----HHHHHHHHHHHHhh-----cCCEEEEECC
Confidence 45678889999999888 77777666677779985 2 34556667777764 2388886665
No 78
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=43.65 E-value=2.4e+02 Score=25.12 Aligned_cols=87 Identities=11% Similarity=0.091 Sum_probs=50.3
Q ss_pred eccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccccc----ccHHHHHHHHHHHHHHhhhhhcccceeEEEEec
Q 026236 120 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANF----TDVATTFNGIIRALREKESKLKAARMHIFVRRG 195 (241)
Q Consensus 120 lD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~----T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~ 195 (241)
.-++|. +.+...++.+.+... ....+=||+.-=-.+. -+-.....-|++++++.- ++||.||+.
T Consensus 103 ~si~g~-~~~~~~~~a~~~~~~-----G~d~ielN~~cP~~~~~~~~~~~~~~~~eiv~~vr~~~------~~pv~vKl~ 170 (289)
T cd02810 103 ASVGGS-SKEDYVELARKIERA-----GAKALELNLSCPNVGGGRQLGQDPEAVANLLKAVKAAV------DIPLLVKLS 170 (289)
T ss_pred EEeccC-CHHHHHHHHHHHHHh-----CCCEEEEEcCCCCCCCCcccccCHHHHHHHHHHHHHcc------CCCEEEEeC
Confidence 456665 668888888888542 2334667775210000 011223455677777642 699999999
Q ss_pred CCChh-HHHHHHHHHHHHhCCCeEE
Q 026236 196 GPNYQ-TGLAKMRALGEELGIPLEV 219 (241)
Q Consensus 196 Gtn~~-~g~~~l~~~l~~~gi~i~~ 219 (241)
+.... +..++ -+.+++.|....+
T Consensus 171 ~~~~~~~~~~~-a~~l~~~Gad~i~ 194 (289)
T cd02810 171 PYFDLEDIVEL-AKAAERAGADGLT 194 (289)
T ss_pred CCCCHHHHHHH-HHHHHHcCCCEEE
Confidence 76543 33333 3456778877553
No 79
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=43.65 E-value=2.3e+02 Score=24.91 Aligned_cols=125 Identities=13% Similarity=0.051 Sum_probs=64.9
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceecc-CCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEY-SGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~-GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++....... ....+.+..+ |..+.+..++ -+..+.+..+++++-+++. +++..+++
T Consensus 123 ~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~--g~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~------- 190 (298)
T cd06302 123 KGEYAIFVGSLTATNQNAWIDAAKAYQKEK--YYPMLELVDRQYGDDDADKSYQTAQELLKA---YPDLKGII------- 190 (298)
T ss_pred CCEEEEEeCCCCCcchHHHHHHHHHHHhhc--CCCCeEEeCcccCCCCHHHHHHHHHHHHHh---CCCceEEE-------
Confidence 36888885433321 2334677777 4233343222 3445566666666666543 23332233
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
+..|.+|.|+++|+++.+.. .++.| +-.. +..+. .+.+..-.++..+. .+..+..+.|++++.+
T Consensus 191 ---~~~D~~A~g~~~al~~~g~~---~dv~v-vG~D--~~~~~----~~~~~~g~i~~tv~---~~~~~~g~~a~~~l~~ 254 (298)
T cd06302 191 ---GPTSVGIPGAARAVEEAGLK---GKVAV-TGLG--LPNQM----APYVKSGAVKEFAL---WNPADLGYAAVYVAKA 254 (298)
T ss_pred ---ECCCcchhHHHHHHHhcCCC---CCEEE-EEeC--CCHHH----HHHHhCCeeEEEEe---cCHHHHHHHHHHHHHH
Confidence 23467899999999998742 13433 3222 22334 33344322332222 3667777777776543
No 80
>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=43.63 E-value=2e+02 Score=24.21 Aligned_cols=120 Identities=12% Similarity=0.019 Sum_probs=63.9
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++.+..+... ...+.++.+ |.+..-+.-+.+..+.+..++.++-+++. +++..+++
T Consensus 116 ~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-------- 182 (269)
T cd06288 116 HRRIAFINGEPWMLAAKDRLKGYRQALAEA--GIPFDPDLVVHGDWSADDGYEAAAALLDL---DDRPTAIF-------- 182 (269)
T ss_pred CceEEEEeCCccchhHHHHHHHHHHHHHHc--CCCCCHHHeEeCCCChHHHHHHHHHHHhC---CCCCCEEE--------
Confidence 358888865544322 235677777 43322222223334455556666666653 23333333
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
...|.+|.|+++++++.+. ++| .|+-..|+ +.. .+.+. -++... . .+.++..+.|++++
T Consensus 183 --~~~d~~a~~~~~~l~~~g~-----~vp~di~v~g~d~~--~~~----~~~~~-~~~~ti--~--~~~~~~g~~a~~~l 244 (269)
T cd06288 183 --CGNDRMAMGAYQALLERGL-----RIPQDVSVVGFDNQ--EII----AEHLR-PPLTTV--A--LPHYEMGRWAVELL 244 (269)
T ss_pred --EeCcHHHHHHHHHHHHcCC-----CCcccceEEeeCCc--hhh----hhccC-CCceeE--e--cCHHHHHHHHHHHH
Confidence 2457789999999999874 455 34444443 333 32332 234322 2 46677777777654
No 81
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.39 E-value=2e+02 Score=24.13 Aligned_cols=78 Identities=14% Similarity=0.080 Sum_probs=44.0
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCC--CcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASE--LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGG 158 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~--pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GG 158 (241)
.++|+++..-.+.. -...+.+..+ |-+ +.... -+..+.+..++.++-++.. +++..+++
T Consensus 117 ~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~---~~~~~~i~------ 183 (268)
T cd06289 117 HRRIAFIGGLEDSSTRRERLAGYRAALAEA--GLPFDSELVV--EGPPSRQGGAEAVAQLLDL---PPRPTAIV------ 183 (268)
T ss_pred CCCEEEecCCccccchHHHHHHHHHHHHHc--CCCCCchhEE--ecCcchhhHHHHHHHHHcC---CCCCCEEE------
Confidence 46788775322321 2335666666 422 22222 2334566677777777653 23333223
Q ss_pred ccccccHHHHHHHHHHHHHHhhh
Q 026236 159 IANFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 159 I~n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+..|..|.|+++|+++.+.
T Consensus 184 ----~~~~~~a~~~~~al~~~g~ 202 (268)
T cd06289 184 ----CFNDLVAFGAMSGLRRAGL 202 (268)
T ss_pred ----EcCcHHHHHHHHHHHHcCC
Confidence 2457789999999999874
No 82
>PLN02775 Probable dihydrodipicolinate reductase
Probab=42.50 E-value=2.8e+02 Score=25.71 Aligned_cols=123 Identities=13% Similarity=-0.028 Sum_probs=72.2
Q ss_pred cEEEEecCchhHH--HHHHHHHhhccCCCCcceeccCCCCCH---------------HHHHHHHHHHhhcccCCCCcceE
Q 026236 89 RIWTMVAGGGASV--IYADTVGDLGYASELGNYAEYSGAPNE---------------EEVLQYARVVIDCATADPDGRKR 151 (241)
Q Consensus 89 ~Ig~mvnGaGlaM--atmD~i~~~~~gg~pANFlD~GG~a~~---------------~~v~~a~~iil~~~~~~~~~~~i 151 (241)
-|-+|||||.--| ....+|... +-+..-++|.|..-.. .....++.-+.++ .+.. +
T Consensus 11 ~i~V~V~Ga~G~MG~~~~~av~~~--~~~Lv~~~~~~~~~~~~~~~~~g~~v~~~~~~dl~~~l~~~~~~---~~~~--V 83 (286)
T PLN02775 11 AIPIMVNGCTGKMGHAVAEAAVSA--GLQLVPVSFTGPAGVGVTVEVCGVEVRLVGPSEREAVLSSVKAE---YPNL--I 83 (286)
T ss_pred CCeEEEECCCChHHHHHHHHHhcC--CCEEEEEeccccccccccceeccceeeeecCccHHHHHHHhhcc---CCCE--E
Confidence 3678999998888 445676664 5676667775542111 2222333222221 2331 2
Q ss_pred EEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHH
Q 026236 152 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 231 (241)
Q Consensus 152 ~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~ 231 (241)
+| .||.-+.+- ..+++..+. ++|+|+--+|-+.++= +++.++.++|+.+. .+|.-.+.
T Consensus 84 vI-------DFT~P~a~~-~~~~~~~~~-------g~~~VvGTTG~~~e~l----~~~~~~~~i~vv~a---pNfSiGv~ 141 (286)
T PLN02775 84 VV-------DYTLPDAVN-DNAELYCKN-------GLPFVMGTTGGDRDRL----LKDVEESGVYAVIA---PQMGKQVV 141 (286)
T ss_pred EE-------ECCChHHHH-HHHHHHHHC-------CCCEEEECCCCCHHHH----HHHHhcCCccEEEE---CcccHHHH
Confidence 43 446655443 344555444 5999999999987743 56656568887743 47777666
Q ss_pred HHHHHhhhc
Q 026236 232 QAIDCIMSA 240 (241)
Q Consensus 232 ~av~~~~~~ 240 (241)
...+++++|
T Consensus 142 ll~~l~~~a 150 (286)
T PLN02775 142 AFQAAMEIM 150 (286)
T ss_pred HHHHHHHHH
Confidence 666665543
No 83
>PF03313 SDH_alpha: Serine dehydratase alpha chain; InterPro: IPR005130 L-serine dehydratase is found as a heterodimer of alpha and beta chain or as a fusion of the two chains in a single protein. This enzyme catalyses the deamination of serine to form pyruvate. This enzyme is part of the gluconeogenesis pathway. This entry also describes a number of proteins with no known function.
Probab=41.90 E-value=1.2e+02 Score=27.72 Aligned_cols=100 Identities=11% Similarity=-0.003 Sum_probs=62.9
Q ss_pred ccEEEEec-CchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHH
Q 026236 88 GRIWTMVA-GGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 166 (241)
Q Consensus 88 G~Ig~mvn-GaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d 166 (241)
..=||.+- |+|.+|+.-=+.... || +++|+..|..+.+++ .-+ ++=-=.+|.+......
T Consensus 166 a~cGC~~e~G~a~amAAagi~~l~--gG------------~~~qi~~A~~~~l~n----~~G--liCDgv~g~vk~~Ca~ 225 (282)
T PF03313_consen 166 AECGCQAEAGAASAMAAAGIVYLL--GG------------TPEQIEYAAANALGN----LLG--LICDGVAGLVKIPCAL 225 (282)
T ss_pred hhhhhhhhhhhhHHHHHHHHHHHh--Cc------------CHHHHHHHHHHHhcc----cce--eeCCCCcccccccHHH
Confidence 33499988 999999998888888 66 789999999999886 222 1111123444445556
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHH
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRAL 209 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~ 209 (241)
.++.+...|+.-..........+ -.+.+...++.++.+.++
T Consensus 226 k~a~~a~~A~~aa~mAl~g~~~~--~gI~~d~v~~tm~~vg~~ 266 (282)
T PF03313_consen 226 KNASGASAAISAADMALAGIVPS--DGIPFDEVEETMKNVGRI 266 (282)
T ss_pred HHHHHHHHHHHHHHHHhccCCCC--CCCCcccHHHHHHHHHHH
Confidence 78889999888765432211111 334445555555444443
No 84
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=41.29 E-value=81 Score=26.04 Aligned_cols=49 Identities=20% Similarity=0.201 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEe--------cCCChhHHHHHHHHHHHHhCCCeEEcC
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRR--------GGPNYQTGLAKMRALGEELGIPLEVYG 221 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl--------~Gtn~~~g~~~l~~~l~~~gi~i~~~~ 221 (241)
....|+-+.+.+++++. ..+.|.||= .|+..+.+ -+.|+.+|+.|....
T Consensus 55 Aq~aae~~~~~~~~~Gi----~~v~v~vkG~Ggn~~~~~G~Gr~~a----iral~~~glkI~~I~ 111 (132)
T PRK09607 55 AMQAAEKAAEDAKEKGI----TGVHIKVRAPGGNGQKSPGPGAQAA----IRALARAGLRIGRIE 111 (132)
T ss_pred HHHHHHHHHHHHHHcCC----cEEEEEEEecCCCCCcCCCCcHHHH----HHHHHHCCCEEEEEE
Confidence 44567888888888775 467788887 77898999 566677899877544
No 85
>KOG1255 consensus Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=41.07 E-value=37 Score=31.29 Aligned_cols=100 Identities=16% Similarity=0.139 Sum_probs=62.7
Q ss_pred cCccceEEecCCccEEEEecCchhHHHHHHHHHhh-----------ccCCCCcceeccCCCCCHHHHHHHHHHHhhcccC
Q 026236 76 SASLKFTVLNPKGRIWTMVAGGGASVIYADTVGDL-----------GYASELGNYAEYSGAPNEEEVLQYARVVIDCATA 144 (241)
Q Consensus 76 g~~l~yv~L~~dG~Ig~mvnGaGlaMatmD~i~~~-----------~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~ 144 (241)
|.-..++.- .|.||++.--+=| |..++++- |+||.|-| -.....|+++.|+| |
T Consensus 167 GImPg~Ihk--~G~IGIVSRSGTL---TYEaVhQTT~vglGQslcvGiGGDpFn---------GT~FID~L~vFl~D--~ 230 (329)
T KOG1255|consen 167 GIMPGHIHK--RGKIGIVSRSGTL---TYEAVHQTTQVGLGQSLCVGIGGDPFN---------GTNFIDCLEVFLED--P 230 (329)
T ss_pred ccccccccc--CCeeEEEecCCce---eehhhhhhccccccceeEEeecCCCCC---------CccHHHHHHHHhcC--c
Confidence 333345655 7999998664443 55666542 45666655 23467899999999 7
Q ss_pred CCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 145 DPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 145 ~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
+.+++ |+|-=.||-+ .+- -.+.++++++.. ..+|||-=+.|.-.--|
T Consensus 231 ~t~GI-iliGEIGG~A-----Ee~---AA~flk~~nSg~--~~kPVvsFIAG~tAppG 277 (329)
T KOG1255|consen 231 ETEGI-ILIGEIGGSA-----EEE---AAEFLKEYNSGS--TAKPVVSFIAGVTAPPG 277 (329)
T ss_pred ccceE-EEEeccCChh-----hHH---HHHHHHHhccCC--CCCceeEEeecccCCCc
Confidence 88875 4554446653 322 335666665432 36899988877666555
No 86
>PTZ00323 NAD+ synthase; Provisional
Probab=40.95 E-value=2.7e+02 Score=25.78 Aligned_cols=66 Identities=18% Similarity=0.115 Sum_probs=40.2
Q ss_pred ceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcC
Q 026236 149 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYG 221 (241)
Q Consensus 149 ~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~ 221 (241)
+.++|.+.||| +-..+|.-..+|+.+... +..+-+.+.....+.+..++.-+++.+..|++.++..
T Consensus 47 ~~vVVglSGGV----DSav~aaLa~~alg~~~~---~~~~~~~v~~P~~ss~~~~~~A~~la~~lGi~~~~id 112 (294)
T PTZ00323 47 KGCVTSVSGGI----DSAVVLALCARAMRMPNS---PIQKNVGLCQPIHSSAWALNRGRENIQACGATEVTVD 112 (294)
T ss_pred CcEEEECCCCH----HHHHHHHHHHHHhccccC---CceEEEEEECCCCCCHHHHHHHHHHHHHhCCcEEEEE
Confidence 34789999999 777777777777765321 0112233344422233444444888999999977653
No 87
>PRK09526 lacI lac repressor; Reviewed
Probab=40.91 E-value=2.6e+02 Score=24.81 Aligned_cols=117 Identities=15% Similarity=0.092 Sum_probs=62.7
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++.+-.+.. ....+.+..+ |-++... +-|.-+.+.-+++++-++.. +++..+++
T Consensus 181 ~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~--gi~~~~~--~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-------- 245 (342)
T PRK09526 181 HQRIALLAGPESSVSARLRLAGWLEYLTDY--QLQPIAV--REGDWSAMSGYQQTLQMLRE---GPVPSAIL-------- 245 (342)
T ss_pred CCeEEEEeCCCccccHHHHHHHHHHHHHHc--CCCcceE--EeCCCchHHHHHHHHHHhcC---CCCCcEEE--------
Confidence 46899886433321 2345777777 5454322 22444555556666655542 22222233
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+..|.+|.|+++|+++.+. ++| -|+-..+.. .+ .. ..-++..+. .+..+..+.|++++
T Consensus 246 --~~~d~~A~g~~~al~~~g~-----~vP~disvig~d~~~--~~----~~----~~p~lttv~--~~~~~~g~~A~~~L 306 (342)
T PRK09526 246 --VANDQMALGVLRALHESGL-----RVPGQISVIGYDDTE--DS----SY----FIPPLTTIK--QDFRLLGKEAVDRL 306 (342)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCCceEEEeeCCCc--hh----cc----cCCCceEec--CCHHHHHHHHHHHH
Confidence 2457899999999999874 555 234343332 22 11 111222222 47777777777764
No 88
>CHL00041 rps11 ribosomal protein S11
Probab=40.42 E-value=79 Score=25.25 Aligned_cols=48 Identities=17% Similarity=0.225 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEc
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVY 220 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~ 220 (241)
+..+|+-+.+-+.+++. ..+.|++|=.|+.-+.+ -+.|+..|+.|...
T Consensus 58 a~~~a~~~~~~~~~~gi----~~v~I~ikG~G~Gr~~~----ir~l~~~glkI~~I 105 (116)
T CHL00041 58 AQTAAENAIRTVIDQGM----KRAEVMIKGPGLGRDTA----LRAIRRSGLKLSSI 105 (116)
T ss_pred HHHHHHHHHHHHHHcCC----cEEEEEEECCCCcHHHH----HHHHHHCCCEEEEE
Confidence 44456667777777654 36788888888888888 55567789887643
No 89
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=40.06 E-value=1e+02 Score=28.29 Aligned_cols=44 Identities=30% Similarity=0.295 Sum_probs=28.3
Q ss_pred EEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCC--HHHHHHHHHHHhhhc
Q 026236 192 VRRGGPNYQTGLAKMRALGEELGIPLEVYGPEAT--MTGICKQAIDCIMSA 240 (241)
Q Consensus 192 vRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~--m~eav~~av~~~~~~ 240 (241)
+|..|.-..+|| ++.+++.++.+.+ ..|| -..+-+-|++.++++
T Consensus 47 ~~~~G~l~~e~l---~~~l~e~~i~llI--DATHPyAa~iS~Na~~aake~ 92 (257)
T COG2099 47 VRVGGFLGAEGL---AAFLREEGIDLLI--DATHPYAARISQNAARAAKET 92 (257)
T ss_pred eeecCcCCHHHH---HHHHHHcCCCEEE--ECCChHHHHHHHHHHHHHHHh
Confidence 888998888884 7778888887653 2333 233445555555543
No 90
>PF02540 NAD_synthase: NAD synthase; InterPro: IPR022310 NAD+ synthase (6.3.5.1 from EC) catalyzes the last step in the biosynthesis of nicotinamide adenine dinucleotide and is induced by stress factors such as heat shock and glucose limitation. The three-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its free form and in complex with ATP shows that the enzyme consists of a tight homodimer with alpha/beta subunit topology []. Catalyzes the synthesis of GMP from XMP. The protein is a homodimer, but in the archaea it is a heterodimer composed of a glutamine amidotransferase subunit (A) and a GMP-binding subunit (B). This entry contains the GMP-binding subunit (B). ; PDB: 2VXO_A 3UOW_B 3N05_A 2DPL_B 3A4I_A 3SEQ_D 3SZG_A 3SYT_A 3SDB_A 3SEZ_C ....
Probab=39.89 E-value=2.7e+02 Score=24.74 Aligned_cols=68 Identities=24% Similarity=0.290 Sum_probs=45.4
Q ss_pred ceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEe-cCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHH
Q 026236 149 RKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRR-GGPNYQTGLAKMRALGEELGIPLEVYGPEATMT 227 (241)
Q Consensus 149 ~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl-~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~ 227 (241)
+.++|-+-||| +...+|.=..+|+-. +-.+-|.+ .+.+.++..+.-+++.++.|++..++. ++
T Consensus 19 ~~vVvglSGGi----DSav~A~La~~Alg~--------~~v~~v~mp~~~~~~~~~~~A~~la~~lgi~~~~i~----i~ 82 (242)
T PF02540_consen 19 KGVVVGLSGGI----DSAVVAALAVKALGP--------DNVLAVIMPSGFSSEEDIEDAKELAEKLGIEYIVID----ID 82 (242)
T ss_dssp SEEEEEETSSH----HHHHHHHHHHHHHGG--------GEEEEEEEESSTSTHHHHHHHHHHHHHHTSEEEEEE----SH
T ss_pred CeEEEEcCCCC----CHHHHHHHHHHHhhh--------ccccccccccccCChHHHHHHHHHHHHhCCCeeccc----hH
Confidence 34788999999 878788777777721 12223333 566666666666888899999987653 45
Q ss_pred HHHHH
Q 026236 228 GICKQ 232 (241)
Q Consensus 228 eav~~ 232 (241)
++...
T Consensus 83 ~~~~~ 87 (242)
T PF02540_consen 83 PIFDA 87 (242)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 54443
No 91
>COG0054 RibH Riboflavin synthase beta-chain [Coenzyme metabolism]
Probab=39.37 E-value=1.4e+02 Score=25.32 Aligned_cols=111 Identities=13% Similarity=0.091 Sum_probs=62.3
Q ss_pred HHHHHHhhccCCCCc--ceeccCCCCCHHHHHHHHHHHhhcccCCCCcce-EEEEEeccccccccHHHHHHHHHHHHHHh
Q 026236 103 YADTVGDLGYASELG--NYAEYSGAPNEEEVLQYARVVIDCATADPDGRK-RALLIGGGIANFTDVATTFNGIIRALREK 179 (241)
Q Consensus 103 tmD~i~~~~~gg~pA--NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~-i~inI~GGI~n~T~~d~iA~GIv~A~~~~ 179 (241)
..|.+..+ |++.. .-.++=|.-. +=-+.+-+.+. .+-++.+ +=.-|=|+. ..=|-|+....+.+-++
T Consensus 34 A~~~l~~~--G~~~~~i~vv~VPGa~E---iPl~a~~La~~--~~yDAvv~lG~VIrG~T---~Hfd~Va~~~~~gl~~v 103 (152)
T COG0054 34 AVDALKRH--GADVDNIDVVRVPGAFE---IPLAAKKLART--GKYDAVVALGAVIRGET---YHFDYVANEVARGLMDV 103 (152)
T ss_pred HHHHHHHc--CCCcccceEEEeCCcch---hHHHHHHHHhc--CCcceEEEEeeEEeCCC---ccHHHHHHHHHHHHHHH
Confidence 45778887 77766 3444445332 22333334332 2233311 112445776 35566666666666655
Q ss_pred hhhhcccceeEEEEecCC-ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 180 ESKLKAARMHIFVRRGGP-NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 180 ~~~~~~~~vPiVvRl~Gt-n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
..+ ..+||..-+-+| |.+++ ++..|..- .+.=.+|+..|++++.
T Consensus 104 sl~---~~~PV~~GVLt~~~~eqA-------~~rag~~~-----gnkG~~Aa~aAlem~~ 148 (152)
T COG0054 104 SLE---TGVPVTFGVLTTDNIEQA-------IERAGTKA-----GNKGAEAAEAALEMAN 148 (152)
T ss_pred HHh---hCCCeEeeecCCCcHHHH-------HHHhCccc-----cccHHHHHHHHHHHHH
Confidence 432 379999999999 88888 34456431 1244567777777754
No 92
>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=39.26 E-value=2.4e+02 Score=23.84 Aligned_cols=123 Identities=12% Similarity=0.030 Sum_probs=61.8
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCC-CCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD-PDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~-~~~~~i~inI~GGI 159 (241)
.++|+++.+-.+.. -...+.+..+ |-......-+.+..+.+.-+++++-+++. + ++..+++
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~ai~------- 183 (264)
T cd06274 116 PEEVLFLGGLPELSPSRERLAGFRQALADA--GLPVQPDWIYAEGYSPESGYQLMAELLAR---LGRLPRALF------- 183 (264)
T ss_pred CCcEEEEeCCCcccchHHHHHHHHHHHHHc--CCCCCcceeecCCCChHHHHHHHHHHHcc---CCCCCcEEE-------
Confidence 46888775433321 1335667666 42222211122334555555555555542 2 2222233
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+..|.+|.|+++|+++.+. ++|==+.+.|-...+- .+.+. -++ ..+. .+..+.++.|+++..
T Consensus 184 ---~~~d~~A~g~~~al~~~g~-----~ip~dv~v~g~d~~~~----~~~~~-~~l--tti~--~~~~~~g~~a~~~l~ 245 (264)
T cd06274 184 ---TTSYTLLEGVLRFLRERPG-----LAPSDLRIATFDDHPL----LDFLP-FPV--HSVP--QDHEALAEAAFELAL 245 (264)
T ss_pred ---EcChHHHHHHHHHHHHcCC-----CCCcceEEEEeCCHHH----HHhcC-CCc--eEEe--CCHHHHHHHHHHHHH
Confidence 2458899999999999874 4552222223222222 12222 133 2222 477888888877653
No 93
>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=39.04 E-value=2.7e+02 Score=24.51 Aligned_cols=117 Identities=9% Similarity=0.014 Sum_probs=62.2
Q ss_pred CccEEEEecCchh-------HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGA-------SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGl-------aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
..+|+++..-... .....+.+..+ |-++-..+-+.+..+.+.-+++++-+++. .|.+ +|
T Consensus 176 ~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~--g~~~~~~~~~~~~~~~~~~~~~~~~ll~~---~p~a--i~------- 241 (329)
T TIGR01481 176 HKSIAFVGGPLSDSINGEDRLEGYKEALNKA--GIQFGEDLVCEGKYSYDAGYKAFAELKGS---LPTA--VF------- 241 (329)
T ss_pred CCeEEEEecCcccccchHHHHHHHHHHHHHc--CCCCCcceEEecCCChHHHHHHHHHHhCC---CCCE--EE-------
Confidence 3588888422211 12345777777 44432211122444556666666666553 3432 33
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
...|.+|.|+++|+++.+. ++| -|+-..+.. .+ +.+ .-.+ ..+. .+..+..+.|+++
T Consensus 242 ---~~~d~~A~g~~~al~~~g~-----~vP~dvsvvgfd~~~--~~-----~~~-~p~l--ttv~--~~~~~~g~~Av~~ 301 (329)
T TIGR01481 242 ---VASDEMAAGILNAAMDAGI-----KVPEDLEVITSNNTR--LT-----EMV-RPQL--STII--QPLYDIGAVAMRL 301 (329)
T ss_pred ---EcCcHHHHHHHHHHHHcCC-----CCCCceEEEeeCCch--HH-----hhc-CCCC--cEEe--cCHHHHHHHHHHH
Confidence 2457899999999999874 666 444444433 22 111 1122 2222 4677777777765
Q ss_pred h
Q 026236 237 I 237 (241)
Q Consensus 237 ~ 237 (241)
.
T Consensus 302 L 302 (329)
T TIGR01481 302 L 302 (329)
T ss_pred H
Confidence 4
No 94
>PRK02006 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=38.78 E-value=1.8e+02 Score=28.20 Aligned_cols=91 Identities=21% Similarity=0.280 Sum_probs=48.0
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|-..+.+++.+.++++.+ . . + ++-|+||.- + +.-.+.+.+.+.+.- +. |++ .|.
T Consensus 366 ~~idDs~~tn~~s~~~al~~~-~-----~--~--ii~IlGg~~---~-~~~~~~~~~~l~~~~------~~-vi~--~G~ 422 (498)
T PRK02006 366 DYYDDSKGTNVGATVAALDGL-A-----Q--R--VVLIAGGDG---K-GQDFSPLAAPVARHA------RA-VVL--IGR 422 (498)
T ss_pred EEEEcCCCCCHHHHHHHHHhC-C-----C--C--EEEEEcCCC---C-CCCHHHHHHHHHHhC------CE-EEE--EcC
Confidence 356554556777787777764 1 1 2 234467762 1 212333444443321 11 222 354
Q ss_pred ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 198 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 198 n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
..+. +.+.++..++++..+ .++++|++.|.++++
T Consensus 423 ~~~~----i~~~~~~~~~~~~~~---~~~~eAi~~a~~~~~ 456 (498)
T PRK02006 423 DAPA----IRAALAGTGVPLVDA---ATLEEAVRAAAALAQ 456 (498)
T ss_pred CHHH----HHHHHhhCCCceEec---CCHHHHHHHHHHhcC
Confidence 4332 244444456666554 489999999988765
No 95
>KOG1250 consensus Threonine/serine dehydratases [Amino acid transport and metabolism]
Probab=38.70 E-value=1.1e+02 Score=30.09 Aligned_cols=95 Identities=9% Similarity=-0.068 Sum_probs=63.6
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
+|...|+-...-.+.++.-+-.+ ..+. . +|--.+|= -|++..-|.+++ .+|..|-+..+-
T Consensus 89 ~lQpsgSFK~RGa~~~~~kla~~---~~~~-g-ViasSaGN--------ha~a~Ayaa~~L-------gipaTIVmP~~t 148 (457)
T KOG1250|consen 89 DLQPSGSFKIRGAGNALQKLAKQ---QKKA-G-VIASSAGN--------HAQAAAYAARKL-------GIPATIVMPVAT 148 (457)
T ss_pred hcccccceehhhHHHHHHHHHHh---hhcC-c-eEEecCcc--------HHHHHHHHHHhc-------CCceEEEecCCC
Confidence 35556666555555555544333 1122 1 33334443 467776777766 599888888887
Q ss_pred hhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 199 YQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 199 ~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
...= .+-++++|-.+.++| ++++||=..|.++|++
T Consensus 149 p~~k----iq~~~nlGA~Vil~G--~~~deAk~~a~~lAke 183 (457)
T KOG1250|consen 149 PLMK----IQRCRNLGATVILSG--EDWDEAKAFAKRLAKE 183 (457)
T ss_pred hHHH----HHHHhccCCEEEEec--ccHHHHHHHHHHHHHh
Confidence 6666 566777898888988 7999999999999886
No 96
>TIGR01082 murC UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081.
Probab=38.65 E-value=3.6e+02 Score=25.75 Aligned_cols=93 Identities=14% Similarity=0.155 Sum_probs=51.7
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCcceEEEEEecc--ccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec-------
Q 026236 125 APNEEEVLQYARVVIDCATADPDGRKRALLIGGG--IANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG------- 195 (241)
Q Consensus 125 ~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GG--I~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~------- 195 (241)
+.+++.+...++.+-+. . ++.+ ++-|||| . ++-....+.+.++++.. +.-+++-+.
T Consensus 325 ahn~~~~~a~~~al~~~--~-~~~~--ii~i~g~~~~---~r~k~~~~~~~~~l~~~-------d~v~l~~~~~~~~~~~ 389 (448)
T TIGR01082 325 AHHPTEIKATLKAARQG--Y-PDKR--IVVVFQPHRY---SRTRDLFDDFAKVLSDA-------DELILLDIYAAGEEPI 389 (448)
T ss_pred CCCHHHHHHHHHHHHHh--c-CCCe--EEEEECCCCC---ccHHHHHHHHHHHHHhC-------CEEEEecccCCCCCCC
Confidence 33566777777777553 1 1222 4556774 5 46555567777777642 333333232
Q ss_pred -CCChhHHHHHHHHHHHHhC-CCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 196 -GPNYQTGLAKMRALGEELG-IPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 196 -Gtn~~~g~~~l~~~l~~~g-i~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
|...+ .+.+.+++.+ .++..+ .++++|++.|.+.+++
T Consensus 390 ~g~~~~----~i~~~~~~~~~~~~~~~---~~~~~a~~~a~~~a~~ 428 (448)
T TIGR01082 390 NGIDGK----SLARKITQLGKIEPYFV---PDLAELVEFLAAVLQS 428 (448)
T ss_pred CCCCHH----HHHHHHhhcCCCceEEe---CCHHHHHHHHHHhcCC
Confidence 33322 2344444444 555544 3899999999876653
No 97
>PRK04308 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=38.61 E-value=1.9e+02 Score=27.50 Aligned_cols=91 Identities=20% Similarity=0.176 Sum_probs=49.5
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|+|-.-+.+++.+..+++.+ ++ + ++-|+||+..--+ .+.+.+.+.+.. + -++ +.|.
T Consensus 321 ~~iDDs~~~n~~s~~~al~~~-----~~---~--~i~IlGg~~~~~~----~~~~~~~l~~~~------~-~vi--l~G~ 377 (445)
T PRK04308 321 VFIDDSKGTNVGATAAAIAGL-----QN---P--LFVILGGMGKGQD----FTPLRDALAGKA------K-GVF--LIGV 377 (445)
T ss_pred EEEEcCCCCCHHHHHHHHHhC-----CC---C--EEEEeCCCCCCCC----HHHHHHHHHHhC------c-EEE--EECC
Confidence 366554456778888877765 11 1 3567788742222 222444444321 1 122 3465
Q ss_pred ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 198 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 198 n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
..+.- ++.+.+.+.++..+ .++++|++.+.+.++
T Consensus 378 ~~~~l----~~~l~~~~~~~~~~---~~~e~a~~~~~~~~~ 411 (445)
T PRK04308 378 DAPQI----RRDLDGCGLNLTDC---ATLEEAVQRAYAQAE 411 (445)
T ss_pred CHHHH----HHHHHhcCCCeEec---CCHHHHHHHHHHhCC
Confidence 54332 44554446555544 489999998887654
No 98
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=38.56 E-value=90 Score=24.54 Aligned_cols=48 Identities=8% Similarity=0.150 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEc
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVY 220 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~ 220 (241)
+..+|+-+.+.+++++. ..+.|++|=.|+..+.+ -+.|...|+.|...
T Consensus 45 a~~~a~~~~~~~~~~gi----~~v~v~~kG~G~gr~~~----ir~l~~~glkI~~I 92 (108)
T TIGR03632 45 AQLAAEDAAKKAKEFGM----KTVDVYVKGPGAGRESA----IRALQAAGLEVTSI 92 (108)
T ss_pred HHHHHHHHHHHHHHcCC----cEEEEEEECCCCcHHHH----HHHHHHCCCEEEEE
Confidence 55677888888888765 36777777777787777 45566679887643
No 99
>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=38.33 E-value=1.1e+02 Score=27.33 Aligned_cols=83 Identities=22% Similarity=0.206 Sum_probs=52.9
Q ss_pred cc-EEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 88 GR-IWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 88 G~-Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
-+ |+++..=...+ .-+.+++..+ |-..-...=.-|..+.+.-+++++-+++. +|...+++
T Consensus 119 ~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~--Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~---~p~idai~-------- 185 (279)
T PF00532_consen 119 RRPIAFIGGPEDSSTSRERLQGYRDALKEA--GLPIDEEWIFEGDFDYESGYEAARELLES---HPDIDAIF-------- 185 (279)
T ss_dssp CSTEEEEEESTTTHHHHHHHHHHHHHHHHT--TSCEEEEEEEESSSSHHHHHHHHHHHHHT---STT-SEEE--------
T ss_pred CCeEEEEecCcchHHHHHHHHHHHHHHHHc--CCCCCcccccccCCCHHHHHHHHHHHHhh---CCCCEEEE--------
Confidence 45 87775433222 1256888888 54332223345667888888888888885 34433333
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH 189 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP 189 (241)
+.-|.+|.|+++|+++.+. .++|
T Consensus 186 --~~nd~~A~ga~~~l~~~gr----~~ip 208 (279)
T PF00532_consen 186 --CANDMMAIGAIRALRERGR----LKIP 208 (279)
T ss_dssp --ESSHHHHHHHHHHHHHTT-----TCTT
T ss_pred --EeCHHHHHHHHHHHHHcCC----cccC
Confidence 3568899999999999872 2677
No 100
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=37.68 E-value=1.2e+02 Score=21.54 Aligned_cols=54 Identities=17% Similarity=0.279 Sum_probs=34.1
Q ss_pred EEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC---hhHHHHHHHHHHHHhCCCeE
Q 026236 152 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN---YQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 152 ~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn---~~~g~~~l~~~l~~~gi~i~ 218 (241)
++.|+||. +-|+ +..++.+.+ .++-++.|..-.. .++..+.+.+.+++.|+.++
T Consensus 2 vvViGgG~---ig~E-----~A~~l~~~g-----~~vtli~~~~~~~~~~~~~~~~~~~~~l~~~gV~v~ 58 (80)
T PF00070_consen 2 VVVIGGGF---IGIE-----LAEALAELG-----KEVTLIERSDRLLPGFDPDAAKILEEYLRKRGVEVH 58 (80)
T ss_dssp EEEESSSH---HHHH-----HHHHHHHTT-----SEEEEEESSSSSSTTSSHHHHHHHHHHHHHTTEEEE
T ss_pred EEEECcCH---HHHH-----HHHHHHHhC-----cEEEEEeccchhhhhcCHHHHHHHHHHHHHCCCEEE
Confidence 46788888 3333 444556665 3677777765444 24444566778888898766
No 101
>cd07013 S14_ClpP Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of proteas
Probab=37.65 E-value=84 Score=26.08 Aligned_cols=61 Identities=8% Similarity=-0.031 Sum_probs=38.5
Q ss_pred CHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 127 NEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
+.+++.+.+..+-++ ++.+...+.||--||-+ + -+..|.++++.. +.|+++...|.-.-.|
T Consensus 13 ~~~~~~~~L~~l~~~--~~~~~i~l~InSpGG~v--~----~~~~i~~~i~~~-------~~~v~~~~~g~aaS~~ 73 (162)
T cd07013 13 SANQFAAQLLFLGAV--NPEKDIYLYINSPGGDV--F----AGMAIYDTIKFI-------KADVVTIIDGLAASMG 73 (162)
T ss_pred HHHHHHHHHHHHhcC--CCCCCEEEEEECCCCcH--H----HHHHHHHHHHhc-------CCCceEEEEeehhhHH
Confidence 456666666666554 44566667888888864 2 356777888775 3566666666554444
No 102
>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=37.52 E-value=2.5e+02 Score=23.63 Aligned_cols=79 Identities=11% Similarity=0.036 Sum_probs=44.3
Q ss_pred CccEEEEecCch-hH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGG-AS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaG-la------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++.+.-. .. -...+.++.+ |-++. ..+..+..+.++.+++++-+|.. +++..+++
T Consensus 112 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~--~~~~~-~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~------- 178 (265)
T cd06291 112 CKHIAHIGGPNNTVSPTNLRYEGFLDVLKEN--GLEVR-IIEIQENFDDAEKKEEIKELLEE---YPDIDGIF------- 178 (265)
T ss_pred CcEEEEEccCcccccchHHHHHHHHHHHHHc--CCCCC-hheeeccccchHHHHHHHHHHhC---CCCCCEEE-------
Confidence 468888864433 11 2456788777 43432 23443433334445555555543 23333233
Q ss_pred cccccHHHHHHHHHHHHHHhhh
Q 026236 160 ANFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+..|..|.|+++|+++.+.
T Consensus 179 ---~~~d~~a~~~~~al~~~g~ 197 (265)
T cd06291 179 ---ASNDLTAILVLKEAQQRGI 197 (265)
T ss_pred ---ECChHHHHHHHHHHHHcCC
Confidence 2447789999999999874
No 103
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=37.49 E-value=1.4e+02 Score=28.60 Aligned_cols=31 Identities=26% Similarity=0.453 Sum_probs=18.4
Q ss_pred ceeEEEEecCCChhHHHHHHHHHHHHhCCCe
Q 026236 187 RMHIFVRRGGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 187 ~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
++|||+=-.|.|-....+.++++.++.|+++
T Consensus 71 gIkvI~NaGg~np~~~a~~v~eia~e~Gl~l 101 (362)
T PF07287_consen 71 GIKVITNAGGLNPAGCADIVREIARELGLSL 101 (362)
T ss_pred CCCEEEeCCCCCHHHHHHHHHHHHHhcCCCe
Confidence 4566666666666665556666666666553
No 104
>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=36.87 E-value=1.2e+02 Score=26.01 Aligned_cols=117 Identities=11% Similarity=0.068 Sum_probs=63.8
Q ss_pred CccEEEEecCchhH------------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEE
Q 026236 87 KGRIWTMVAGGGAS------------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALL 154 (241)
Q Consensus 87 dG~Ig~mvnGaGla------------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~in 154 (241)
.++|+++....+.. -...+.+..+ |-+.-...-+.+..+.+..+++++-+++. +++..+|+
T Consensus 113 ~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~--g~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-- 185 (269)
T cd06297 113 PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDA--GRPFSPDLLAITDHSEEGGRLAMRHLLEK---ASPPLAVF-- 185 (269)
T ss_pred CCceEEEeCccccccccccccHHHHHHHHHHHHHHc--CCCCChhhEEeCCCChhhHHHHHHHHHcC---CCCCcEEE--
Confidence 57888886433322 1224566666 43322212223445566666777766653 22222233
Q ss_pred EeccccccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHH
Q 026236 155 IGGGIANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 231 (241)
Q Consensus 155 I~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~ 231 (241)
...|.+|.|+++++++.+. ++| -|+-..++.. + .. .++.. + ..+..+..+
T Consensus 186 --------~~~d~~a~g~~~~l~~~g~-----~vP~di~vvg~d~~~~--~----~~----~~ltt--v--~~~~~~~g~ 238 (269)
T cd06297 186 --------ASADQQALGALQEAVELGL-----TVGEDVRVVGFDDHPF--A----RE----AGLST--L--AQPVEAMGA 238 (269)
T ss_pred --------EcCcHHHHHHHHHHHHcCC-----CCCCceEEEEECCchh--h----cc----CCcee--e--ecCHHHHHH
Confidence 3568899999999999874 455 4555555532 2 11 13432 1 146777766
Q ss_pred HHHHHh
Q 026236 232 QAIDCI 237 (241)
Q Consensus 232 ~av~~~ 237 (241)
.|++++
T Consensus 239 ~av~~l 244 (269)
T cd06297 239 RAAQLL 244 (269)
T ss_pred HHHHHH
Confidence 666654
No 105
>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=36.53 E-value=2.2e+02 Score=24.13 Aligned_cols=88 Identities=10% Similarity=0.071 Sum_probs=49.7
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccC-CCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYA-SELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~g-g~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++..-.+.. -...+.+..+ | .++. . ..-+..+.+..++.++-+++. +++..+++.
T Consensus 125 ~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~--~~~~~~-~-~~~~~~~~~~~~~~~~~~l~~---~~~~~~i~~------ 191 (272)
T cd06300 125 KGNVLVVRGLAGHPVDEDRYAGAKEVLKEY--PGIKIV-G-EVYGDWDQAVAQKAVADFLAS---NPDVDGIWT------ 191 (272)
T ss_pred CceEEEEECCCCCcchHHHHHHHHHHHHHC--CCcEEE-e-ecCCCCCHHHHHHHHHHHHHh---CCCcCEEEe------
Confidence 46788875322221 2345677666 4 3322 1 234555666667777666653 233332231
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
.-|. |.|+++|+++.+. ++|.|+-..++
T Consensus 192 ----~~d~-A~g~~~al~~~g~-----~~p~v~g~d~~ 219 (272)
T cd06300 192 ----QGGD-AVGAVQAFEQAGR-----DIPPVTGEDEN 219 (272)
T ss_pred ----cCCC-cHHHHHHHHHcCC-----CCcEEEeeCCc
Confidence 2355 8999999999874 78877754443
No 106
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=36.42 E-value=3.1e+02 Score=26.21 Aligned_cols=62 Identities=21% Similarity=0.208 Sum_probs=37.9
Q ss_pred EEEEec--cccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC---------------------CChhHHHHHHHH
Q 026236 152 ALLIGG--GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG---------------------PNYQTGLAKMRA 208 (241)
Q Consensus 152 ~inI~G--GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G---------------------tn~~~g~~~l~~ 208 (241)
++-|.| .|-+-...-+.|+.+-++-.++.. ++-+|.|..= .+-++|++++|+
T Consensus 49 llvIvGPCSIhd~~~a~eyA~rLk~l~~~~~d-----~l~ivmR~y~eKPRTt~GWKGli~DP~ld~sf~i~~GL~~~R~ 123 (344)
T TIGR00034 49 LLVVIGPCSIHDPEAAIEYATRLKALREELKD-----DLEIVMRVYFEKPRTTVGWKGLINDPDLNGSFRINHGLRIARK 123 (344)
T ss_pred eEEEecCCCCCCHHHHHHHHHHHHHHHHhhhc-----ceEEEEEeccccCCCccccccccCCCCcCCCCCHHHHHHHHHH
Confidence 455566 343223333445555555454442 5667776431 234899999999
Q ss_pred HH---HHhCCCeE
Q 026236 209 LG---EELGIPLE 218 (241)
Q Consensus 209 ~l---~~~gi~i~ 218 (241)
++ .++|+|+-
T Consensus 124 ll~~i~~~GlPva 136 (344)
T TIGR00034 124 LLLDLVNLGLPIA 136 (344)
T ss_pred HHHHHHHhCCCeE
Confidence 98 88999975
No 107
>COG2877 KdsA 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]
Probab=34.96 E-value=2.4e+02 Score=26.03 Aligned_cols=62 Identities=23% Similarity=0.382 Sum_probs=45.7
Q ss_pred EEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEE-------------ecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 152 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVR-------------RGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 152 ~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvR-------------l~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
|+-|.| .+ .-.-.+.|--+...++++-. +..+|.|.. ..|+..|+||++|.++-++.|+|+.
T Consensus 18 ~~LiaG-pc-viEs~d~a~~~a~~lk~~t~---~lgi~~vfKsSfDKANRsSi~s~RGpGLeeglki~~~vK~efgv~il 92 (279)
T COG2877 18 FVLIAG-PC-VIESRDLALEIAEHLKELTE---KLGIPYVFKSSFDKANRSSIHSYRGPGLEEGLKILQEVKEEFGVPIL 92 (279)
T ss_pred eEEEec-cc-eeccHHHHHHHHHHHHHHHh---ccCCceEEecccccccccccccccCCCHHHHHHHHHHHHHHcCCcee
Confidence 444544 32 13556677778888887654 236887775 4699999999999999999999987
No 108
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=34.90 E-value=3.2e+02 Score=24.17 Aligned_cols=80 Identities=10% Similarity=0.000 Sum_probs=45.2
Q ss_pred CccEEEEecCchh-H-----HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGA-S-----VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGl-a-----MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-... + ....+.+..+ |-.+-...-+-+..+.+..+++++-+++. +++..+++
T Consensus 182 ~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~--g~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-------- 248 (342)
T PRK10014 182 HQRIAWLGGQSSSLTRAERVGGYCATLLKF--GLPFHSEWVLECTSSQKQAAEAITALLRH---NPTISAVV-------- 248 (342)
T ss_pred CCEEEEEcCCcccccHHHHHHHHHHHHHHc--CCCCCcceEecCCCChHHHHHHHHHHHcC---CCCCCEEE--------
Confidence 4688888421111 1 2356778777 43332212222334556667777666653 23332233
Q ss_pred ccccHHHHHHHHHHHHHHhhh
Q 026236 161 NFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~ 181 (241)
..-|.+|.|+++++++.+.
T Consensus 249 --~~nd~~A~g~~~~l~~~g~ 267 (342)
T PRK10014 249 --CYNETIAMGAWFGLLRAGR 267 (342)
T ss_pred --ECCcHHHHHHHHHHHHcCC
Confidence 2457899999999999874
No 109
>PRK02705 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=34.32 E-value=2.9e+02 Score=26.23 Aligned_cols=91 Identities=20% Similarity=0.216 Sum_probs=48.2
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
|+|=+++.+++.+..+++.+ +. + .+-|+||+..--+- ..+.+.+... ..-|+ +.|..
T Consensus 328 ii~Ds~a~N~~s~~~al~~l-----~~---~--~i~IlGg~~~~~d~----~~~~~~l~~~--------~~~vi-~~g~~ 384 (459)
T PRK02705 328 FINDSKATNYDAAEVGLKAV-----PG---P--VILIAGGEAKQGDD----SAWLKQIKAK--------AAAVL-LFGEA 384 (459)
T ss_pred EEEeCCCCCHHHHHHHHHhC-----CC---C--eEEEecCccCCCCH----HHHHHHHHhh--------eeEEE-EECCC
Confidence 45444567888888887766 21 1 34567877422222 2333333321 22111 33654
Q ss_pred hhHHHHHHHHHHHHhCCC--eEEcCCCCCHHHHHHHHHHHhhh
Q 026236 199 YQTGLAKMRALGEELGIP--LEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 199 ~~~g~~~l~~~l~~~gi~--i~~~~~~~~m~eav~~av~~~~~ 239 (241)
.+. |++.+.+.+.+ +..+ .++++|++.|.+++++
T Consensus 385 ~~~----l~~~l~~~~~~~~~~~~---~~~~eA~~~a~~~a~~ 420 (459)
T PRK02705 385 APT----LAQRLQESGYTGEYEIV---ETLDEAVPRAFELAKE 420 (459)
T ss_pred HHH----HHHHHHhcCCCcceEEc---CCHHHHHHHHHHHhCC
Confidence 333 24445544443 4544 4899999999887654
No 110
>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=34.11 E-value=2.8e+02 Score=23.19 Aligned_cols=76 Identities=22% Similarity=0.173 Sum_probs=45.7
Q ss_pred CHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccce-eEEEEecCCChhHHHHH
Q 026236 127 NEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARM-HIFVRRGGPNYQTGLAK 205 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~v-PiVvRl~Gtn~~~g~~~ 205 (241)
+.+..+.+.+.+++. ..+ + +..+.| -.+.+....-.+|+.+++++.+. .. +..+.....+.+.+.+.
T Consensus 104 ~~~~~~~a~~~l~~~---g~~-~--i~~i~~-~~~~~~~~~R~~gf~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~ 171 (268)
T cd06271 104 NEAAAYQAVRRLIAL---GHR-R--IALLNP-PEDLTFAQHRRAGYRRALAEAGL-----PLDPALIVSGDMTEEGGYAA 171 (268)
T ss_pred cHHHHHHHHHHHHHc---CCC-c--EEEecC-ccccchHHHHHHHHHHHHHHhCC-----CCCCceEEeCCCChHHHHHH
Confidence 456678888888774 222 2 222333 32223445567899999988763 22 22333455677788888
Q ss_pred HHHHHHHhC
Q 026236 206 MRALGEELG 214 (241)
Q Consensus 206 l~~~l~~~g 214 (241)
++++++..+
T Consensus 172 ~~~~l~~~~ 180 (268)
T cd06271 172 AAELLALPD 180 (268)
T ss_pred HHHHHhCCC
Confidence 888887654
No 111
>PRK13780 phosphocarrier protein HPr; Provisional
Probab=34.05 E-value=60 Score=24.50 Aligned_cols=29 Identities=14% Similarity=0.244 Sum_probs=24.8
Q ss_pred ceeEEEEecCCChhHHHHHHHHHHHHhCC
Q 026236 187 RMHIFVRRGGPNYQTGLAKMRALGEELGI 215 (241)
Q Consensus 187 ~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi 215 (241)
.-.|.+...|+.++++++-|.+++++.|+
T Consensus 58 G~~v~i~a~G~De~~Al~~l~~~l~~~~l 86 (88)
T PRK13780 58 GADITISAEGADAADAIAAIEETMKKEGL 86 (88)
T ss_pred CCEEEEEEeCcCHHHHHHHHHHHHHhccc
Confidence 45689999999999999999999987664
No 112
>PRK05309 30S ribosomal protein S11; Validated
Probab=33.95 E-value=1.1e+02 Score=24.84 Aligned_cols=48 Identities=10% Similarity=0.200 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEc
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVY 220 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~ 220 (241)
+..+|+-+.+.+.+.+. ..+.|++|=.|+.-+.+ -+.|...|+.|...
T Consensus 62 a~~aa~~~~~~~~~~gi----~~v~v~ikG~G~Gr~~a----ir~L~~~glkI~~I 109 (128)
T PRK05309 62 AQVAAEDAAKKAKEHGM----KTVEVFVKGPGSGRESA----IRALQAAGLEVTSI 109 (128)
T ss_pred HHHHHHHHHHHHHHcCC----cEEEEEEECCCCcHHHH----HHHHHHCCCEEEEE
Confidence 45566777777777665 36788888888888888 44456679887643
No 113
>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=32.83 E-value=3e+02 Score=23.22 Aligned_cols=122 Identities=13% Similarity=0.067 Sum_probs=62.2
Q ss_pred CccEEEEecCchh------HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGA------SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGl------aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-... .-...+.+..+ |...-...-+-+..+.+.-++.++-+++. .+.+.+ ++
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 182 (269)
T cd06293 116 HRRIAFVGGPDALISARERYAGYREALAEA--HIPEVPEYVCFGDYTREFGRAAAAQLLAR-GDPPTA--IF-------- 182 (269)
T ss_pred CceEEEEecCcccccHHHHHHHHHHHHHHc--CCCCChheEEecCCCHHHHHHHHHHHHcC-CCCCCE--EE--------
Confidence 4788887532221 12345777777 43321111222444556666666655542 122332 33
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh-hHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY-QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~-~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+..|.+|.|+++|+++.+. ++|==+++-|-+. ..+ .+ ..-++... ..+..+..++|++++.
T Consensus 183 --~~~d~~a~g~~~al~~~g~-----~vp~di~i~g~d~~~~~-----~~---~~p~ltti--~~~~~~~g~~a~~~l~ 244 (269)
T cd06293 183 --AASDEIAIGLLEVLRERGL-----SIPGDMSLVGFDDVGPA-----HL---FAPPLTTI--RQPVRELGRRAVALLL 244 (269)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCccceEEEeecCchHH-----hh---cCCCccee--cCCHHHHHHHHHHHHH
Confidence 2458899999999999874 5552222233321 112 11 12122222 2477788887777653
No 114
>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=32.80 E-value=3e+02 Score=23.14 Aligned_cols=80 Identities=18% Similarity=0.169 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 203 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~ 203 (241)
|..+....+.+.+.+.+. . ..+ +.-+.|.--+.+.+..-.+|+.+++++.+. ++..+..-.....+++.
T Consensus 93 ~~d~~~~g~~~~~~l~~~--g--~~~--i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~-----~~~~~~~~~~~~~~~~~ 161 (265)
T cd06291 93 SSDNYEGGRLAAEELIER--G--CKH--IAHIGGPNNTVSPTNLRYEGFLDVLKENGL-----EVRIIEIQENFDDAEKK 161 (265)
T ss_pred eechHHHHHHHHHHHHHc--C--CcE--EEEEccCcccccchHHHHHHHHHHHHHcCC-----CCChheeeccccchHHH
Confidence 344455567777777764 1 222 233333321134566777888888888653 32222222222334466
Q ss_pred HHHHHHHHHhC
Q 026236 204 AKMRALGEELG 214 (241)
Q Consensus 204 ~~l~~~l~~~g 214 (241)
+.+.++|++..
T Consensus 162 ~~~~~~l~~~~ 172 (265)
T cd06291 162 EEIKELLEEYP 172 (265)
T ss_pred HHHHHHHhCCC
Confidence 66677777644
No 115
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=32.79 E-value=4e+02 Score=25.50 Aligned_cols=21 Identities=38% Similarity=0.597 Sum_probs=17.9
Q ss_pred ChhHHHHHHHHHH---HHhCCCeE
Q 026236 198 NYQTGLAKMRALG---EELGIPLE 218 (241)
Q Consensus 198 n~~~g~~~l~~~l---~~~gi~i~ 218 (241)
+.++|++++|+++ .++|+|+-
T Consensus 118 ~i~~GL~~~R~ll~~~~e~Glpva 141 (349)
T PRK09261 118 DINDGLRIARKLLLDINELGLPAA 141 (349)
T ss_pred cHHHHHHHHHHHHHHHHHhCCCeE
Confidence 3489999999994 88999975
No 116
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=32.40 E-value=1.9e+02 Score=26.94 Aligned_cols=71 Identities=20% Similarity=0.320 Sum_probs=46.3
Q ss_pred EEecCchhH--HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHH
Q 026236 92 TMVAGGGAS--VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTF 169 (241)
Q Consensus 92 ~mvnGaGla--MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA 169 (241)
+++.|.++. -...+.++.+ |=+..-|-++..+|+.+.+.++.+.+.+. +++ .+|=|+||- -+| +|
T Consensus 27 livtd~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~p~~~~v~~~~~~~~~~---~~D---~IIavGGGs----~~D-~a 93 (367)
T cd08182 27 LLVTGPRSAIASGLTDILKPL--GTLVVVFDDVQPNPDLEDLAAGIRLLREF---GPD---AVLAVGGGS----VLD-TA 93 (367)
T ss_pred EEEeCchHHHHHHHHHHHHHc--CCeEEEEcCcCCCcCHHHHHHHHHHHHhc---CcC---EEEEeCCcH----HHH-HH
Confidence 455565554 1234556555 43556677899999999999999988653 344 367888886 234 66
Q ss_pred HHHHHH
Q 026236 170 NGIIRA 175 (241)
Q Consensus 170 ~GIv~A 175 (241)
+.|.-.
T Consensus 94 K~ia~~ 99 (367)
T cd08182 94 KALAAL 99 (367)
T ss_pred HHHHHH
Confidence 666443
No 117
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=32.39 E-value=1.3e+02 Score=25.48 Aligned_cols=59 Identities=10% Similarity=0.022 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 128 EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 128 ~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
.+.+.++++-...+ +.+...+.||-.||-+ +. ++.|+++++.. ++|+|+-+.|.-.--|
T Consensus 15 ~~~l~~~l~~a~~~---~~~~ivl~inspGG~v--~~----~~~I~~~l~~~-------~~pvva~V~g~AaSaG 73 (178)
T cd07021 15 AAFVERALKEAKEE---GADAVVLDIDTPGGRV--DS----ALEIVDLILNS-------PIPTIAYVNDRAASAG 73 (178)
T ss_pred HHHHHHHHHHHHhC---CCCeEEEEEECcCCCH--HH----HHHHHHHHHhC-------CCCEEEEECCchHHHH
Confidence 34566666666554 2455567788889985 33 34566666654 5899998887665555
No 118
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=32.22 E-value=3.9e+02 Score=25.67 Aligned_cols=62 Identities=27% Similarity=0.347 Sum_probs=37.5
Q ss_pred EEEEec--cccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEe-----------cCC----------ChhHHHHHHHH
Q 026236 152 ALLIGG--GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRR-----------GGP----------NYQTGLAKMRA 208 (241)
Q Consensus 152 ~inI~G--GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl-----------~Gt----------n~~~g~~~l~~ 208 (241)
++-|.| .|-+-...-+.|+.+.+.-.++.. ++-+|.|. +|. +.++|++++|+
T Consensus 55 llvI~GPCSI~d~~~aleyA~~Lk~l~~~~~d-----~l~ivmR~y~eKPRT~~gwkGli~DP~ldgs~~i~~GL~~~R~ 129 (353)
T PRK12755 55 LLVVVGPCSIHDPEAALEYARRLKALADELSD-----RLLIVMRVYFEKPRTTVGWKGLINDPHLDGSFDIEEGLRIARK 129 (353)
T ss_pred eEEEeCCCCCCCHHHHHHHHHHHHHHHhhhhc-----ceEEEEEeccccCCCCcCCcCCCCCccccccccHHHHHHHHHH
Confidence 555666 343223344455555555444442 56678872 232 35899999888
Q ss_pred H---HHHhCCCeE
Q 026236 209 L---GEELGIPLE 218 (241)
Q Consensus 209 ~---l~~~gi~i~ 218 (241)
+ +.+.|+|+-
T Consensus 130 ll~~~~e~Glp~a 142 (353)
T PRK12755 130 LLLDLVELGLPLA 142 (353)
T ss_pred HHHHHHHhCCCEE
Confidence 8 678899975
No 119
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan 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 purine transcription repressor undergoes a
Probab=32.20 E-value=3.1e+02 Score=23.07 Aligned_cols=80 Identities=9% Similarity=-0.061 Sum_probs=46.4
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-.+.. -..++.+..+ |-+.-....+.+..+.+..+++++-+++. +++..+++
T Consensus 117 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-------- 183 (269)
T cd06275 117 HRRIGCITGPLEKAPAQQRLAGFRRAMAEA--GLPVNPGWIVEGDFECEGGYEAMQRLLAQ---PKRPTAVF-------- 183 (269)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHHc--CCCCCHHHhccCCCChHHHHHHHHHHHcC---CCCCcEEE--------
Confidence 46888885322211 2346777776 43433333334555666666677666653 22332233
Q ss_pred ccccHHHHHHHHHHHHHHhhh
Q 026236 161 NFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+..|.+|.|+++++++.+.
T Consensus 184 --~~~d~~a~g~~~~l~~~g~ 202 (269)
T cd06275 184 --CGNDLMAMGALCAAQEAGL 202 (269)
T ss_pred --ECChHHHHHHHHHHHHcCC
Confidence 2457899999999999874
No 120
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-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 bind
Probab=32.16 E-value=3.1e+02 Score=23.04 Aligned_cols=80 Identities=13% Similarity=0.060 Sum_probs=41.2
Q ss_pred CccEEEEecCchhH--H----HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS--V----IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla--M----atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..--+.. + ...+.+..+ |-++..+.-.-+..+.+..++.++-++.. +++..+++
T Consensus 118 ~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~i~-------- 184 (270)
T cd01545 118 HRRIAFIAGPPDHRASAERLEGYRDALAEA--GLPLDPELVAQGDFTFESGLEAAEALLAL---PDRPTAIF-------- 184 (270)
T ss_pred CceEEEEeCCCCchhHHHHHHHHHHHHHHc--CCCCChhhEEeCCCChhhHHHHHHHHHhC---CCCCCEEE--------
Confidence 46788775322221 1 123455555 44442222223444555555555555542 22322223
Q ss_pred ccccHHHHHHHHHHHHHHhhh
Q 026236 161 NFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+.-|.+|.|+++++++.+.
T Consensus 185 --~~~d~~a~~~~~~~~~~g~ 203 (270)
T cd01545 185 --ASNDDMAAGVLAVAHRRGL 203 (270)
T ss_pred --EcCcHHHHHHHHHHHHcCC
Confidence 1336789999999999874
No 121
>PLN02748 tRNA dimethylallyltransferase
Probab=31.76 E-value=79 Score=31.29 Aligned_cols=94 Identities=19% Similarity=0.208 Sum_probs=58.1
Q ss_pred EEEE-ecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCC--CCcceEEEEEeccccccccHH
Q 026236 90 IWTM-VAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIANFTDVA 166 (241)
Q Consensus 90 Ig~m-vnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~--~~~~~i~inI~GGI~n~T~~d 166 (241)
|.++ .+|+|=+-...++-... +++.-| ++.-|||+.+.|+....++. ..+.==||++..---+|+ +.
T Consensus 25 i~i~GptgsGKs~la~~la~~~--~~eii~-------~DsmQVYrgLdIgTaKpt~eE~~~VpHHLid~v~p~e~ys-v~ 94 (468)
T PLN02748 25 VVVMGPTGSGKSKLAVDLASHF--PVEIIN-------ADSMQVYSGLDVLTNKVPLHEQKGVPHHLLGVISPSVEFT-AK 94 (468)
T ss_pred EEEECCCCCCHHHHHHHHHHhc--CeeEEc-------CchheeeCCcchhcCCCCHHHHcCCCCeeEeecCCCCcCc-HH
Confidence 4444 68999999999999888 776665 56789999999998873221 111113667665333342 33
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
...+--.+++++... ..++|||| .||+
T Consensus 95 ~F~~~A~~~I~~I~~---rgk~PIlV--GGTg 121 (468)
T PLN02748 95 DFRDHAVPLIEEILS---RNGLPVIV--GGTN 121 (468)
T ss_pred HHHHHHHHHHHHHHh---cCCCeEEE--cChH
Confidence 333333344444322 23799998 7776
No 122
>PRK03803 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=31.52 E-value=4e+02 Score=25.33 Aligned_cols=94 Identities=18% Similarity=0.202 Sum_probs=52.5
Q ss_pred ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCC
Q 026236 118 NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGP 197 (241)
Q Consensus 118 NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt 197 (241)
-|.|=+++.+++.+..+++.+-+. + +.+ ++-|+||+.. +.=.+.+.+.+++.. +. +++ .|.
T Consensus 319 ~~idDs~atN~~a~~~al~~l~~~--~--~~~--iilI~Gg~~k----~~d~~~l~~~l~~~~------~~-vil--~G~ 379 (448)
T PRK03803 319 DYYNDSKGTNVGATVAAIEGLGAH--I--QGK--LVLIAGGDGK----GADFSPLREPVAKYV------RA-VVL--IGR 379 (448)
T ss_pred EEEEcCCcCCHHHHHHHHHhhhhc--C--CCC--EEEEECCCCC----CCCHHHHHHHHHhhC------CE-EEE--ECC
Confidence 355544677899999999987432 1 122 3456788642 222344555555542 11 222 365
Q ss_pred ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 198 NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 198 n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
..+.= .+.+.. ..++.++ .++++|++.+.+.++
T Consensus 380 ~~~~i----~~~l~~-~~~~~~~---~~~~~a~~~a~~~a~ 412 (448)
T PRK03803 380 DADKI----AAALGG-AVPLVRV---ATLAEAVAKAAELAQ 412 (448)
T ss_pred CHHHH----HHHHhc-CCCEEEe---CCHHHHHHHHHHhCC
Confidence 54332 343432 2355544 489999999887654
No 123
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=31.47 E-value=1.1e+02 Score=25.80 Aligned_cols=49 Identities=16% Similarity=0.184 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEE--------ecCCChhHHHHHHHHHHHHhCCCeEEcC
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVR--------RGGPNYQTGLAKMRALGEELGIPLEVYG 221 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvR--------l~Gtn~~~g~~~l~~~l~~~gi~i~~~~ 221 (241)
+-..|+-+.+.+.+++. ..+.|.|| -.|+..+.+ -+.|+.+||.|....
T Consensus 74 Aq~aa~~~a~k~~~~Gi----~~v~V~vr~~gg~~~kg~GpGr~~a----iraL~~~glkI~~I~ 130 (149)
T PTZ00129 74 AMMAAQDVAARCKELGI----NALHIKLRATGGVRTKTPGPGAQAA----LRALARAGLKIGRIE 130 (149)
T ss_pred HHHHHHHHHHHHHHcCC----eEEEEEEEecCCCCCCCCCCCHHHH----HHHHHHCCCEEEEEE
Confidence 34456677777777665 36778884 458999999 666788899887554
No 124
>PRK02472 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=31.34 E-value=2.5e+02 Score=26.51 Aligned_cols=87 Identities=15% Similarity=0.185 Sum_probs=48.0
Q ss_pred eccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh
Q 026236 120 AEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY 199 (241)
Q Consensus 120 lD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~ 199 (241)
.|. .+.+++.+..+++.+ . . + ++-|+||.- ... -.+.+.+.++.. +. +++ .|.+.
T Consensus 324 ~D~-~a~N~~s~~~al~~~-~-----~--~--ii~I~g~~~--~~~--~~~~l~~~l~~~-------~~-v~~--~G~~~ 378 (447)
T PRK02472 324 NDS-KATNILATQKALSGF-N-----Q--P--VVLLAGGLD--RGN--EFDELVPYLKNV-------KA-MVV--FGETA 378 (447)
T ss_pred ECC-CCCCHHHHHHHHHhC-C-----C--C--EEEEECCCC--CCC--CHHHHHHHHhcc-------CE-EEE--ECCCH
Confidence 344 566777787777653 1 1 1 345678762 122 224555555431 11 333 27665
Q ss_pred hHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 200 QTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 200 ~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
++- .+.++..+.++.++ .++++|+..+.+.++
T Consensus 379 ~~l----~~~~~~~~~~~~~~---~~~~~a~~~~~~~~~ 410 (447)
T PRK02472 379 EKL----ARAAEKAGITVVEA---DNVEDAVPKAYELSE 410 (447)
T ss_pred HHH----HHHHHhCCCceEEc---CCHHHHHHHHHHhCC
Confidence 443 55555556555554 389999988876554
No 125
>PF00793 DAHP_synth_1: DAHP synthetase I family; InterPro: IPR006218 Members of the 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthetase family catalyse the first step in aromatic amino acid biosynthesis from chorismate. Class I includes bacterial and yeast enzymes; class II includes higher plants and various microorganisms (see IPR002480 from INTERPRO) []. The first step in the common pathway leading to the biosynthesis of aromatic compounds is the stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP). This reaction is catalyzed by DAHP synthase, a metal-activated enzyme, which in microorganisms is the target for negative-feedback regulation by pathway intermediates or by end products. In Escherichia coli there are three DAHP synthetase isoforms, each specifically inhibited by one of the three aromatic amino acids. The crystal structure of the phenylalanine-regulated form of DAHP synthetase shows the fold as is a (beta/alpha)8 barrel with several additional beta strands and alpha helices []. ; GO: 0009058 biosynthetic process; PDB: 3FS2_B 3STF_B 3FYP_D 3QQ1_A 3QPZ_C 3FYO_D 3STC_A 2QKF_D 3STE_C 3QQ0_A ....
Probab=31.17 E-value=2.3e+02 Score=25.85 Aligned_cols=62 Identities=21% Similarity=0.310 Sum_probs=40.1
Q ss_pred EEEEec--cccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec------------CCChhHHHHHHHHHHHHhCCCe
Q 026236 152 ALLIGG--GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG------------GPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 152 ~inI~G--GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~------------Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
|+-|.| .|=+-..+-++|+.+.+.-.+++. +++++.|.. |.-.+.+++.|.++-++.|+|+
T Consensus 17 l~viaGPCsies~e~~~~~A~~l~~~~~~~~~-----~i~~~~~~~~~KpRts~~~f~G~g~d~~L~~l~~v~~~~glpv 91 (270)
T PF00793_consen 17 LLVIAGPCSIESEEQALEYAERLKELGEKLGD-----RIPLRMRAYFEKPRTSPYSFQGLGLDPGLDILSEVKEGLGLPV 91 (270)
T ss_dssp EEEEEEESB-S-HHHHHHHHHHHHHHHHHHTT-----TEEEEEEECSC-TTSSTTST-CSTHHHHHHHHHHHHHHHT-EE
T ss_pred eEEEEECCccCCHHHHHHHHHHHHHhhhhcCc-----ceEEEEEEEecCCccCCCCCCCCCCCccchhHHHHHhhhCCee
Confidence 555566 332223345556665555555542 678888765 5677888999999999999997
Q ss_pred E
Q 026236 218 E 218 (241)
Q Consensus 218 ~ 218 (241)
.
T Consensus 92 ~ 92 (270)
T PF00793_consen 92 A 92 (270)
T ss_dssp E
T ss_pred e
Confidence 5
No 126
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=31.15 E-value=3.7e+02 Score=23.66 Aligned_cols=118 Identities=16% Similarity=0.158 Sum_probs=64.3
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
..+|+++..-.... -.+.+.+..+ |..+ .+. ..+..+.+.-+++++-+++. .+.+. +++
T Consensus 179 ~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~--g~~~-~~~-~~~~~~~~~~~~~~~~~l~~-~~~~~--ai~-------- 243 (328)
T PRK11303 179 AESILLLGALPELSVSFEREQGFRQALKDD--PREV-HYL-YANSFEREAGAQLFEKWLET-HPMPD--ALF-------- 243 (328)
T ss_pred CCeEEEEeCccccccHHHHHHHHHHHHHHc--CCCc-eEE-EeCCCChHHHHHHHHHHHcC-CCCCC--EEE--------
Confidence 47888885322211 2456888888 5543 222 23334555666666666653 12233 233
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+..|.+|.|+++|+++.+. ++| -|+-..++ +.+ +.+. -++ ..+. .+..+..+.|++++
T Consensus 244 --~~~d~~A~g~~~al~~~g~-----~vP~disv~gfd~~--~~~-----~~~~-p~l--ttv~--~~~~~~g~~a~~~l 304 (328)
T PRK11303 244 --TTSYTLLQGVLDVLLERPG-----ELPSDLAIATFGDN--ELL-----DFLP-CPV--NAVA--QQHRLIAERALELA 304 (328)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCCceEEEEeCCh--HHH-----hccC-CCc--eEEe--cCHHHHHHHHHHHH
Confidence 2468899999999999874 555 23333221 222 2111 133 2222 47888888887765
Q ss_pred h
Q 026236 238 M 238 (241)
Q Consensus 238 ~ 238 (241)
.
T Consensus 305 ~ 305 (328)
T PRK11303 305 L 305 (328)
T ss_pred H
Confidence 3
No 127
>cd01304 FMDH_A Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in methanogenesis, the formyl-methanofuran synthesis. In this step, CO2 is bound to methanofuran and subsequently reduced to the formyl state with electrons derived from hydrogen.
Probab=31.11 E-value=5.8e+02 Score=25.92 Aligned_cols=101 Identities=21% Similarity=0.344 Sum_probs=59.3
Q ss_pred CHHHHHHHHHHHhhcccCCCCcc-eEEEEEecccccc-----------------ccHHHHHHHHHHHHHHhhhhhcccce
Q 026236 127 NEEEVLQYARVVIDCATADPDGR-KRALLIGGGIANF-----------------TDVATTFNGIIRALREKESKLKAARM 188 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~-~i~inI~GGI~n~-----------------T~~d~iA~GIv~A~~~~~~~~~~~~v 188 (241)
+.+++....-++|+. .|+. +++||-+| +-+| -.-.+|.+++.+|.++++. ..
T Consensus 156 ~~~~~~~~vaw~l~~----tk~~giK~vnpgG-~~a~~~~~~~~~~d~~~~~~~vtp~~ii~~l~~~~~~lg~-----ph 225 (541)
T cd01304 156 DMEKLAAYVAWTLKA----SKGYGIKVVNPGG-TEAWGWGQNVLSLDDPVPYFDITPREILKGLAEANEELGL-----PH 225 (541)
T ss_pred CHHHHHHHHHHHHHh----ccceEEEEECCCc-hhhhccCCccccccCCCCCCCCCHHHHHHHHHHHHHhcCC-----ce
Confidence 578888888888875 3332 25888866 1111 0234677788888887752 55
Q ss_pred eEEEE---ecCC-ChhHHHHHHHHHHHHhC------------CCeEEcCCCC--CHHHHHHHHHHHhh
Q 026236 189 HIFVR---RGGP-NYQTGLAKMRALGEELG------------IPLEVYGPEA--TMTGICKQAIDCIM 238 (241)
Q Consensus 189 PiVvR---l~Gt-n~~~g~~~l~~~l~~~g------------i~i~~~~~~~--~m~eav~~av~~~~ 238 (241)
||=+| |..+ |.+..++.|+ +.++.+ +.++.|+.+. +++.++++..+...
T Consensus 226 ~iH~h~nnlg~pgn~~~t~~t~~-~~~~~~~~~~~~~~h~tH~qfhsyg~~~~~~~~s~a~~i~~~~n 292 (541)
T cd01304 226 SIHVHCNNLGVPGNYETTLETMK-AAEGVKPDPRRQVLHLTHVQFHSYGGTSWRDFESGAERIADYVN 292 (541)
T ss_pred EEEEccccCCCCCcHHHHHHHHH-HhhcCCCccccceeEeeeeeEEeeccCCcccHhHHHHHHHHHHH
Confidence 66666 5443 4455544332 222222 2334777664 88888887776654
No 128
>PRK05406 LamB/YcsF family protein; Provisional
Probab=30.77 E-value=1.8e+02 Score=26.52 Aligned_cols=141 Identities=13% Similarity=0.182 Sum_probs=76.6
Q ss_pred cceEEecCCccEEEEe-cCchhHH-HHHHHHHhhc--cCCCC-----cceeccCCCCCHHHHHH-------HHHHHhhcc
Q 026236 79 LKFTVLNPKGRIWTMV-AGGGASV-IYADTVGDLG--YASEL-----GNYAEYSGAPNEEEVLQ-------YARVVIDCA 142 (241)
Q Consensus 79 l~yv~L~~dG~Ig~mv-nGaGlaM-atmD~i~~~~--~gg~p-----ANFlD~GG~a~~~~v~~-------a~~iil~~~ 142 (241)
+.||. .-||+|=. .|==.+| -|..+-+.++ +|..| .||-=-.=..+++.++. |++-+...
T Consensus 26 mp~Is---sANIACG~HAGDp~~M~~tv~lA~~~gV~IGAHPgypD~~gFGRR~m~~s~~el~~~v~yQigAL~~~a~~- 101 (246)
T PRK05406 26 LPLVT---SANIACGFHAGDPAVMRRTVRLAKENGVAIGAHPGYPDLEGFGRRNMDLSPEELYALVLYQIGALQAIARA- 101 (246)
T ss_pred HHHhh---hHHHhccccCCCHHHHHHHHHHHHHcCCeEccCCCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH-
Confidence 55665 48887732 2222444 3455555554 45554 34433333455665543 23333222
Q ss_pred cCCCCcceEEEEEecccccc-ccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE--E
Q 026236 143 TADPDGRKRALLIGGGIANF-TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE--V 219 (241)
Q Consensus 143 ~~~~~~~~i~inI~GGI~n~-T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~--~ 219 (241)
...+.-.|--.|-.=|- .+=.++|+.|++|++++.+ ++|++. +.|+..++. -++.|+++. +
T Consensus 102 ---~g~~l~hVKPHGALYN~~~~d~~~a~av~~ai~~~~~-----~l~l~~-~~~s~~~~~-------A~~~Gl~~~~E~ 165 (246)
T PRK05406 102 ---AGGRVSHVKPHGALYNMAAKDPALADAVAEAVAAVDP-----SLILVG-LAGSELIRA-------AEEAGLRTASEV 165 (246)
T ss_pred ---cCCeeEEeCccHHHHHHHhcCHHHHHHHHHHHHHhCC-----CcEEEe-cCChHHHHH-------HHHcCCcEEEEE
Confidence 11222344445533211 1335689999999999974 677655 677654443 456788764 2
Q ss_pred c-----CCC-------------CCHHHHHHHHHHHhhh
Q 026236 220 Y-----GPE-------------ATMTGICKQAIDCIMS 239 (241)
Q Consensus 220 ~-----~~~-------------~~m~eav~~av~~~~~ 239 (241)
| .+. .+-+++++++++++++
T Consensus 166 FADR~Y~~dG~Lv~R~~~gAvi~d~~~v~~~~~~~~~~ 203 (246)
T PRK05406 166 FADRAYTADGTLVPRSQPGAVIHDEEEAAAQVLQMVQE 203 (246)
T ss_pred EecCCcCCCCCCcCCCCCCCccCCHHHHHHHHHHHHHc
Confidence 2 100 4778899999988764
No 129
>TIGR02130 dapB_plant dihydrodipicolinate reductase. This narrow family includes genes from Arabidopsis and Fibrobacter succinogenes (which probably recieved the gene from a plant via lateral gene transfer). The sequences are distantly related to the dihydrodipicolinate reductases from archaea. In Fibrobacter this gene is the only candidate DHPR in the genome.
Probab=30.69 E-value=1.7e+02 Score=26.98 Aligned_cols=65 Identities=9% Similarity=0.050 Sum_probs=42.5
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhhc
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 240 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~~ 240 (241)
.||.-+.+-+ .++++.+. ++|+|+..+|-..++- .++-+..++|+... .+|.-.+....++++++
T Consensus 75 DFT~P~~~~~-n~~~~~~~-------gv~~ViGTTG~~~~~~----~~l~~~~~i~~l~a---pNfSiGv~ll~~~~~~a 139 (275)
T TIGR02130 75 DYTHPSAVND-NAAFYGKH-------GIPFVMGTTGGDREAL----AKLVADAKHPAVIA---PNMAKQIVAFLAAIEFL 139 (275)
T ss_pred ECCChHHHHH-HHHHHHHC-------CCCEEEcCCCCCHHHH----HHHHHhcCCCEEEE---CcccHHHHHHHHHHHHH
Confidence 4576665444 44555444 6999999999987765 66556677887743 47776666655555543
No 130
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=30.68 E-value=4e+02 Score=24.40 Aligned_cols=81 Identities=16% Similarity=0.226 Sum_probs=54.2
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 203 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~ 203 (241)
|..+.+.+.+-.+.+++. .+++ ++++=..|=.-.-.-++--+-+-.+.+..+ -++||++-..+++-+++.
T Consensus 20 g~vD~~a~~~lv~~li~~---Gv~g--i~~~GttGE~~~Ls~eEr~~v~~~~v~~~~-----grvpviaG~g~~~t~eai 89 (299)
T COG0329 20 GSVDEEALRRLVEFLIAA---GVDG--LVVLGTTGESPTLTLEERKEVLEAVVEAVG-----GRVPVIAGVGSNSTAEAI 89 (299)
T ss_pred CCcCHHHHHHHHHHHHHc---CCCE--EEECCCCccchhcCHHHHHHHHHHHHHHHC-----CCCcEEEecCCCcHHHHH
Confidence 668999999999999885 4554 555444333211244555555444444444 379999999999999998
Q ss_pred HHHHHHHHHhCC
Q 026236 204 AKMRALGEELGI 215 (241)
Q Consensus 204 ~~l~~~l~~~gi 215 (241)
++-|. -++.|.
T Consensus 90 ~lak~-a~~~Ga 100 (299)
T COG0329 90 ELAKH-AEKLGA 100 (299)
T ss_pred HHHHH-HHhcCC
Confidence 77765 356664
No 131
>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=30.19 E-value=2.3e+02 Score=24.07 Aligned_cols=51 Identities=18% Similarity=0.150 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEE
Q 026236 125 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIF 191 (241)
Q Consensus 125 ~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiV 191 (241)
..+.+..+++++-++.. .|++++ |+ +.+|.+|.|+++|+++.+.. .+++|+
T Consensus 164 ~~~~~~~~~~~~~~l~~-~~~~~a--I~----------~~~d~~a~g~~~al~~~g~~---~di~vv 214 (271)
T cd06312 164 GADPTEVASRIAAYLRA-NPDVDA--VL----------TLGAPSAAPAAKALKQAGLK---GKVKLG 214 (271)
T ss_pred CCCHHHHHHHHHHHHHh-CCCccE--EE----------EeCCccchHHHHHHHhcCCC---CCeEEE
Confidence 34556667777666543 133332 23 35577899999999998742 245544
No 132
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=30.06 E-value=3.8e+02 Score=23.49 Aligned_cols=122 Identities=13% Similarity=0.050 Sum_probs=62.2
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-.... -...+.+..+ |-+....+.+.+..+.+..+++++-+++. .+.+.+ ++
T Consensus 174 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 240 (327)
T PRK10423 174 YTRIACITGPLDKTPARLRLEGYRAAMKRA--GLNIPDGYEVTGDFEFNGGFDAMQQLLAL-PLRPQA--VF-------- 240 (327)
T ss_pred CCeEEEEeCCccccchHHHHHHHHHHHHHc--CCCCCcceEEeCCCChHHHHHHHHHHhcC-CCCCCE--EE--------
Confidence 46788775433321 1335777777 54433222233444455556666666553 122332 33
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
..-|.+|.|+++++++.+. ++|==+.+-|-+-..- -+. ..-++..+. .+..+..+.|+++.
T Consensus 241 --~~~d~~A~g~~~~l~~~g~-----~vP~dvsvigfd~~~~----~~~---~~p~lttv~--~~~~~~g~~A~~~l 301 (327)
T PRK10423 241 --TGNDAMAVGVYQALYQAGL-----SVPQDIAVIGYDDIEL----ARY---MTPPLTTIH--QPKDELGELAIDVL 301 (327)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCCceEEEEeCChhH----Hhh---CCCCCceee--CCHHHHHHHHHHHH
Confidence 2347789999999999874 6673333333332111 111 111222222 46777777777653
No 133
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=29.97 E-value=2.4e+02 Score=22.94 Aligned_cols=63 Identities=24% Similarity=0.268 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCC-CeEEcCCC--CCHHHHHHHHHHHhh
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGI-PLEVYGPE--ATMTGICKQAIDCIM 238 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi-~i~~~~~~--~~m~eav~~av~~~~ 238 (241)
.+-.++.++++++.. ..+++++ ++|-+...+ +.+.+..|| +..+|... .+-..+..++++..+
T Consensus 127 ~~~~~~~~~l~~L~~----~Gi~~~i-~TGD~~~~a----~~~~~~lgi~~~~v~a~~~~kP~~k~~~~~i~~l~ 192 (215)
T PF00702_consen 127 PLRPGAKEALQELKE----AGIKVAI-LTGDNESTA----SAIAKQLGIFDSIVFARVIGKPEPKIFLRIIKELQ 192 (215)
T ss_dssp EBHTTHHHHHHHHHH----TTEEEEE-EESSEHHHH----HHHHHHTTSCSEEEEESHETTTHHHHHHHHHHHHT
T ss_pred cchhhhhhhhhhhhc----cCcceee-eeccccccc----cccccccccccccccccccccccchhHHHHHHHHh
Confidence 333455555555543 2366555 579999999 888999999 54455544 555666666666543
No 134
>KOG3040 consensus Predicted sugar phosphatase (HAD superfamily) [General function prediction only]
Probab=29.81 E-value=1.2e+02 Score=27.50 Aligned_cols=75 Identities=12% Similarity=0.167 Sum_probs=50.9
Q ss_pred cceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE---EcCCCC
Q 026236 148 GRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE---VYGPEA 224 (241)
Q Consensus 148 ~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~---~~~~~~ 224 (241)
++++|+.+.|-+- .-+.-.-|-++|++.+.. --+-||..-+--.+.-+.|.+.|+.+|+.+. +| +
T Consensus 7 v~gvLlDlSGtLh---~e~~avpga~eAl~rLr~------~~~kVkFvTNttk~Sk~~l~~rL~rlgf~v~eeei~---t 74 (262)
T KOG3040|consen 7 VKGVLLDLSGTLH---IEDAAVPGAVEALKRLRD------QHVKVKFVTNTTKESKRNLHERLQRLGFDVSEEEIF---T 74 (262)
T ss_pred cceEEEeccceEe---cccccCCCHHHHHHHHHh------cCceEEEEecCcchhHHHHHHHHHHhCCCccHHHhc---C
Confidence 3457999988663 333344566788888763 3456677667777888888899999999875 33 3
Q ss_pred CHHHHHHHHH
Q 026236 225 TMTGICKQAI 234 (241)
Q Consensus 225 ~m~eav~~av 234 (241)
+++.|++...
T Consensus 75 sl~aa~~~~~ 84 (262)
T KOG3040|consen 75 SLPAARQYLE 84 (262)
T ss_pred ccHHHHHHHH
Confidence 5665655443
No 135
>cd07016 S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which a
Probab=29.35 E-value=2.2e+02 Score=23.00 Aligned_cols=60 Identities=17% Similarity=0.111 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHH
Q 026236 125 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTG 202 (241)
Q Consensus 125 ~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g 202 (241)
+.+.+.+...++-+-+ + +...+.||--||-+ + -+..|++.++.. ++|+++...|.-.--|
T Consensus 14 ~~~~~~~~~~l~~~~~----~-~~i~l~inspGG~~--~----~~~~i~~~i~~~-------~~pvi~~v~g~a~s~g 73 (160)
T cd07016 14 GVTAKEFKDALDALGD----D-SDITVRINSPGGDV--F----AGLAIYNALKRH-------KGKVTVKIDGLAASAA 73 (160)
T ss_pred ccCHHHHHHHHHhccC----C-CCEEEEEECCCCCH--H----HHHHHHHHHHhc-------CCCEEEEEcchHHhHH
Confidence 3567777777775533 2 44557889999974 2 245677777765 5899999999766555
No 136
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=29.26 E-value=2.6e+02 Score=21.30 Aligned_cols=88 Identities=20% Similarity=0.297 Sum_probs=54.3
Q ss_pred HHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhh
Q 026236 103 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESK 182 (241)
Q Consensus 103 tmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~ 182 (241)
..+++... |-+. .++|...+.+.+.+++. + .+++. |=+.... +.-...+..+++.+++...
T Consensus 19 ~~~~l~~~--G~~V---~~lg~~~~~~~l~~~~~---~---~~pdv----V~iS~~~---~~~~~~~~~~i~~l~~~~~- 79 (119)
T cd02067 19 VARALRDA--GFEV---IDLGVDVPPEEIVEAAK---E---EDADA----IGLSGLL---TTHMTLMKEVIEELKEAGL- 79 (119)
T ss_pred HHHHHHHC--CCEE---EECCCCCCHHHHHHHHH---H---cCCCE----EEEeccc---cccHHHHHHHHHHHHHcCC-
Confidence 34567666 5566 67778888887766543 3 23543 3333322 4555677888888888741
Q ss_pred hcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 183 LKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 183 ~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.+++|+ +.|+...+. .+.+++.|....
T Consensus 80 ---~~~~i~--vGG~~~~~~----~~~~~~~G~D~~ 106 (119)
T cd02067 80 ---DDIPVL--VGGAIVTRD----FKFLKEIGVDAY 106 (119)
T ss_pred ---CCCeEE--EECCCCChh----HHHHHHcCCeEE
Confidence 145555 477776665 467788898644
No 137
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=29.11 E-value=1.7e+02 Score=23.75 Aligned_cols=83 Identities=11% Similarity=0.005 Sum_probs=53.6
Q ss_pred cCCccEEEEecCchhHHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccccccc
Q 026236 85 NPKGRIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTD 164 (241)
Q Consensus 85 ~~dG~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~ 164 (241)
+.|--.|.+..|-|- +... .--||+-+--..+.+++..||+-.++. .+.-.||||.
T Consensus 15 DEDT~tGfLlaGvg~-------v~~~----r~~Nf~vv~~~Tt~~eiedaF~~f~~R----dDIaIiLInq--------- 70 (121)
T KOG3432|consen 15 DEDTVTGFLLAGVGE-------VNEN----REPNFLVVDSKTTVEEIEDAFKSFTAR----DDIAIILINQ--------- 70 (121)
T ss_pred cccceeeeeeecccc-------cccC----CCCCEEEEeccCCHHHHHHHHHhhccc----cCeEEEEEhH---------
Confidence 334556777777762 2222 445999999999999999999998774 3332245443
Q ss_pred HHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC
Q 026236 165 VATTFNGIIRALREKESKLKAARMHIFVRRGGPN 198 (241)
Q Consensus 165 ~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn 198 (241)
-+|+-|-..+..+. ..+|-|.-+.-.+
T Consensus 71 --~~Ae~iR~~vD~h~-----~~vPAvLeIpSKd 97 (121)
T KOG3432|consen 71 --FIAEMIRDRVDAHT-----QAVPAVLEIPSKD 97 (121)
T ss_pred --HHHHHHHHHHHhcc-----ccCCeeEEecCCC
Confidence 35565555555554 3799888666543
No 138
>PRK12569 hypothetical protein; Provisional
Probab=29.10 E-value=2.1e+02 Score=26.10 Aligned_cols=140 Identities=12% Similarity=0.148 Sum_probs=74.1
Q ss_pred cceEEecCCccEEEEe-cCchhHH-HHHHHHHhhc--cCCCC-----cceeccCCCCCHHHHHHH-------HHHHhhcc
Q 026236 79 LKFTVLNPKGRIWTMV-AGGGASV-IYADTVGDLG--YASEL-----GNYAEYSGAPNEEEVLQY-------ARVVIDCA 142 (241)
Q Consensus 79 l~yv~L~~dG~Ig~mv-nGaGlaM-atmD~i~~~~--~gg~p-----ANFlD~GG~a~~~~v~~a-------~~iil~~~ 142 (241)
+.|+. .-||+|=. .|==.+| -|..+-+.++ +|..| .||-=-.=..+++.++.. ++-+...
T Consensus 29 mp~It---saNIACG~HAGDp~~M~~tv~lA~~~~V~IGAHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~~~~- 104 (245)
T PRK12569 29 MPLIS---SANIATGFHAGDPNIMRRTVELAKAHGVGIGAHPGFRDLVGFGRRHINASPQELVNDVLYQLGALREFARA- 104 (245)
T ss_pred HHHhh---hHHHhccccCCCHHHHHHHHHHHHHcCCEeccCCCCCcCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH-
Confidence 44654 47777632 2222444 3455555553 44444 455333334566665432 2222221
Q ss_pred cCCCCcceEEEEEecccccc-ccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE--E
Q 026236 143 TADPDGRKRALLIGGGIANF-TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE--V 219 (241)
Q Consensus 143 ~~~~~~~~i~inI~GGI~n~-T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~--~ 219 (241)
...+ .-.|=-.|-.-|- .+=.++|+.|++|++++.+ ++|+++ +.|+..++. -++.|+++. +
T Consensus 105 -~g~~--l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~-----~l~l~~-~~~s~~~~~-------A~~~Gl~~~~E~ 168 (245)
T PRK12569 105 -HGVR--LQHVKPHGALYMHAARDEALARLLVEALARLDP-----LLILYC-MDGSATERA-------ARELGQPVVREF 168 (245)
T ss_pred -cCCe--eEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCC-----CcEEEe-cCCcHHHHH-------HHHcCCCeEEEE
Confidence 1111 1233334432211 1335689999999999974 677766 677664443 456787754 2
Q ss_pred c-----------------CCCCCHHHHHHHHHHHhhh
Q 026236 220 Y-----------------GPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 220 ~-----------------~~~~~m~eav~~av~~~~~ 239 (241)
| +.. +-+++++++++++++
T Consensus 169 FADR~Y~~dG~Lv~R~~~gAv-d~~~~~~~~~~m~~~ 204 (245)
T PRK12569 169 YADRDYDDSGSIVFTRRVGAL-DPQQVAAKVLRACRE 204 (245)
T ss_pred EecCccCCCCCEecCCCCCCC-CHHHHHHHHHHHHHc
Confidence 2 111 678888888888764
No 139
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. 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 affinity of the repressor.
Probab=28.95 E-value=3.5e+02 Score=22.72 Aligned_cols=97 Identities=15% Similarity=0.043 Sum_probs=51.3
Q ss_pred CCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeE-EEEecCCChhHHHH
Q 026236 126 PNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHI-FVRRGGPNYQTGLA 204 (241)
Q Consensus 126 a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPi-VvRl~Gtn~~~g~~ 204 (241)
.+.+..+.+.+.+.+. . . .+ +. +++|....+.+..-.+|+.+++++.+. ++.. .+--...+.+++..
T Consensus 100 d~~~~~~~a~~~l~~~--g-~-~~--i~-~i~~~~~~~~~~~r~~gf~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~ 167 (270)
T cd06296 100 TNWAGGLAATEHLLEL--G-H-RR--IG-FITGPPDLLCSRARLDGYRAALAEAGI-----PVDPALVREGDFSTESGFR 167 (270)
T ss_pred CcHHHHHHHHHHHHHc--C-C-Cc--EE-EEcCCCcchhHHHHHHHHHHHHHHcCC-----CCChHHheeCCCCHHHHHH
Confidence 3455677777777764 1 1 22 22 233433334566778899999887652 2211 12223456677777
Q ss_pred HHHHHHHHhC-CCeEEcCCCCCHHHHHHHHHH
Q 026236 205 KMRALGEELG-IPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 205 ~l~~~l~~~g-i~i~~~~~~~~m~eav~~av~ 235 (241)
.+++++++.. +...++ ....+...+-++++
T Consensus 168 ~~~~~l~~~~~~~ai~~-~~d~~a~~~~~~l~ 198 (270)
T cd06296 168 AAAELLALPERPTAIFA-GNDLMALGVYEAAR 198 (270)
T ss_pred HHHHHHhCCCCCcEEEE-cCcHHHHHHHHHHH
Confidence 7777776532 333333 23345445555554
No 140
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=28.86 E-value=3.2e+02 Score=27.10 Aligned_cols=71 Identities=20% Similarity=0.324 Sum_probs=50.9
Q ss_pred ccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 157 GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 157 GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
.|-. |.|...| ..+++.+ +.|.+|=.. +.--.|.+.|+.+.+..|+|++--+++.+--++++.|++.
T Consensus 111 sGKT--Tt~~KLA----~~lkk~~------~kvllVaaD-~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ 177 (451)
T COG0541 111 SGKT--TTAGKLA----KYLKKKG------KKVLLVAAD-TYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK 177 (451)
T ss_pred CChH--hHHHHHH----HHHHHcC------CceEEEecc-cCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHH
Confidence 3664 6666555 4566644 567666443 4446788999999999999987555566788899999999
Q ss_pred hhhc
Q 026236 237 IMSA 240 (241)
Q Consensus 237 ~~~~ 240 (241)
+++.
T Consensus 178 ak~~ 181 (451)
T COG0541 178 AKEE 181 (451)
T ss_pred HHHc
Confidence 9874
No 141
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR 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 binding affinity of the repressor.
Probab=28.83 E-value=2.5e+02 Score=23.84 Aligned_cols=78 Identities=13% Similarity=-0.015 Sum_probs=42.1
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCccee---ccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYA---EYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGG 157 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFl---D~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G 157 (241)
..+|+++. +-+-.. ...|.+..+ |-++ ..+ +.-+..+.+..+++++-+++. +++..+++
T Consensus 109 ~~~i~~i~-~~~~~~~~~R~~gf~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~----- 176 (265)
T cd01543 109 FRHFAFYG-LPGARWSDEREEAFRQLVAEA--GYEC-SFFYRGLSTDAQSWEEEQEELAQWLQS---LPKPVGIF----- 176 (265)
T ss_pred CcEEEEEc-CCCCHHHHHHHHHHHHHHHHc--CCcc-ccccCccccccccHHHHHHHHHHHHhc---CCCCcEEE-----
Confidence 35778764 222221 224667666 4343 111 222334445555555555543 22333233
Q ss_pred cccccccHHHHHHHHHHHHHHhhh
Q 026236 158 GIANFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 158 GI~n~T~~d~iA~GIv~A~~~~~~ 181 (241)
...|.+|.|+++++++.+.
T Consensus 177 -----~~~d~~a~g~~~~l~~~g~ 195 (265)
T cd01543 177 -----ACTDARARQLLEACRRAGI 195 (265)
T ss_pred -----ecChHHHHHHHHHHHHhCC
Confidence 3578899999999999874
No 142
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=28.70 E-value=5.3e+02 Score=24.69 Aligned_cols=101 Identities=8% Similarity=0.030 Sum_probs=51.4
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec--cccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGG--GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 196 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G--GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G 196 (241)
+.|+.. +++.+...++.+-+. .+ ..+ ++-||| |. ++-......+.+++ ... +.=+++....
T Consensus 327 i~D~aH--np~~~~a~~~al~~~-~~--~~~--i~~v~gp~~~---~r~kd~~~~~~~~l-~~~------d~vi~~~~~~ 389 (461)
T PRK00421 327 IDDYAH--HPTEIKATLKAARQG-YP--DKR--IVAVFQPHRY---SRTRDLLDEFAEAL-SDA------DEVILLDIYA 389 (461)
T ss_pred EEeCCC--CHHHHHHHHHHHHhh-CC--CCe--EEEEECCCCC---ccHHHHHHHHHHHH-HHC------CEEEEcCccC
Confidence 345333 556677666666442 11 122 455676 55 35555555566666 221 3323333321
Q ss_pred CCh--hHH--HHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 197 PNY--QTG--LAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 197 tn~--~~g--~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
.++ ..+ .+.|.+.+++.+.++.++. ++++|++.|.+.+++
T Consensus 390 ~~e~~~~~~~~~~l~~~~~~~~~~~~~~~---~~~~a~~~a~~~a~~ 433 (461)
T PRK00421 390 AGEEPIGGVDSEDLARKIKRGHRDPIFVP---DLEDLAELLAEVLKP 433 (461)
T ss_pred CCCCCCCCCCHHHHHHHHhccCCceEEeC---CHHHHHHHHHHhcCC
Confidence 111 111 1334455555455656554 899999999887653
No 143
>PRK00141 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=28.44 E-value=2.4e+02 Score=27.38 Aligned_cols=100 Identities=14% Similarity=0.142 Sum_probs=49.2
Q ss_pred CcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec
Q 026236 116 LGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG 195 (241)
Q Consensus 116 pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~ 195 (241)
+.-++|..=+.+++.+..+++.+ + + ++.|+||... |.=.+.++..+..... + +++ +
T Consensus 333 ~~~iiDdsyahNp~s~~~~l~~l-----~--~----~~~i~gG~~k----dkd~~~~~~~l~~~~~-----~--~~~-~- 388 (473)
T PRK00141 333 GVTWIDNSKATNPHAADAALAGH-----E--S----VVWVAGGQLK----GADIDDLIRTHAPRIK-----A--AVV-L- 388 (473)
T ss_pred CEEEEEcCCCCCHHHHHHHHHhc-----C--C----EEEEecCccC----CCChHHHHHHHHhhcc-----E--EEE-E-
Confidence 34456653355777888877765 1 1 3556888852 3334566666654321 2 333 3
Q ss_pred CCChhHHHHHHHHHHHHhCCCeEEc-CCCCCHHHHHHHHHHHhhh
Q 026236 196 GPNYQTGLAKMRALGEELGIPLEVY-GPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 196 Gtn~~~g~~~l~~~l~~~gi~i~~~-~~~~~m~eav~~av~~~~~ 239 (241)
|.....-.+-|.+.+.+.++....+ +.+++|++|++.|.+++++
T Consensus 389 ~~~r~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~Av~~a~~~a~~ 433 (473)
T PRK00141 389 GVDRAEIVAALAEHAPDAPVTVTDSTDPEEAMEEAVSAAVSLAEP 433 (473)
T ss_pred CCCHHHHHHHHHhcCCCCcEEEecCcccccCHHHHHHHHHHhCCC
Confidence 3332222111222111122221212 2234689999999887653
No 144
>cd06280 PBP1_LacI_like_4 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=28.44 E-value=3.6e+02 Score=22.71 Aligned_cols=115 Identities=17% Similarity=0.183 Sum_probs=62.6
Q ss_pred ccEEEEecCchh------HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccc
Q 026236 88 GRIWTMVAGGGA------SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 161 (241)
Q Consensus 88 G~Ig~mvnGaGl------aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n 161 (241)
++|+++. |... .....+.+..+ |.++-- ..+ ..+.+..+++++-++.. +++..+++
T Consensus 116 ~~i~~~~-~~~~~~~~~R~~gf~~~~~~~--~~~~~~-~~~--~~~~~~~~~~~~~~l~~---~~~~~ai~--------- 177 (263)
T cd06280 116 RRIGGLF-GNASTTGAERRAGYEDAMRRH--GLAPDA-RFV--APTAEAAEAALAAWLAA---PERPEALV--------- 177 (263)
T ss_pred ceEEEEe-CCCCCCHHHHHHHHHHHHHHc--CCCCCh-hhc--ccCHHHHHHHHHHHhcC---CCCCcEEE---------
Confidence 4788774 3322 12344666666 444321 111 24566777777766653 22333333
Q ss_pred cccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 162 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 162 ~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
...|.+|.|+++++++.+. ++| -|+-..+... + +.+. -++ ..+ ..+..+..+.|++++.
T Consensus 178 -~~~d~~a~g~~~~l~~~g~-----~~p~di~iig~d~~~~--~-----~~~~-p~l--t~i--~~~~~~~g~~a~~~l~ 239 (263)
T cd06280 178 -ASNGLLLLGALRAVRAAGL-----RIPQDLALAGFDNDPW--T-----ELVG-PGI--TVI--EQPVEEIGRAAMSLLL 239 (263)
T ss_pred -ECCcHHHHHHHHHHHHcCC-----CCCCcEEEEEeCChhH--H-----HhcC-CCc--eEe--cCCHHHHHHHHHHHHH
Confidence 3567899999999999874 677 3443333321 1 2121 233 222 2577787777777653
No 145
>COG0769 MurE UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]
Probab=27.99 E-value=3.1e+02 Score=27.07 Aligned_cols=107 Identities=15% Similarity=0.143 Sum_probs=66.7
Q ss_pred CCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEe
Q 026236 115 ELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRR 194 (241)
Q Consensus 115 ~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl 194 (241)
.|--+.||..+| +-+.++++.+-.. ..++.++||=.||= | |..=+-++.++.+... + -++|-=
T Consensus 332 ~~~v~VDyAHnP--d~le~~L~~~~~~----~~g~li~VfG~gGD----r-D~~kr~~mg~ia~~~a-----d-~vivt~ 394 (475)
T COG0769 332 GKLVIVDYAHNP--DGLEKALRAVRLH----AAGRLIVVFGCGGD----R-DKSKRPDMGAIAEQLA-----D-IVIVTS 394 (475)
T ss_pred CCeEEEEeccCh--HHHHHHHHHHHhh----cCCcEEEEECccCC----C-CcccccchHHHHHhcC-----C-cEEEcC
Confidence 566778888855 6677777777432 33443444444443 5 7665666666655432 2 245556
Q ss_pred cCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 195 GGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 195 ~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
.+++.|+-..+++++++...-+-. +....+-.+|+++|++.+++
T Consensus 395 dnpR~edp~~i~~~i~~g~~~~~~-~~~~~dr~~AI~~ai~~a~~ 438 (475)
T COG0769 395 DNPRSEDPAVILADILAGIEAPEK-YEIIEDREEAIRKALDLAKE 438 (475)
T ss_pred CCCCCcCHHHHHHHHHhccCCccc-eecchhHHHHHHHHHHhhcc
Confidence 799999997777777664332211 11224789999999999874
No 146
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=27.90 E-value=1.7e+02 Score=27.37 Aligned_cols=44 Identities=27% Similarity=0.250 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEec-------CCChhHHHHHHHHHHHHhCCCeE
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRG-------GPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~-------Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.+.-|++++++.- +.||.||+. |...++..++++. |++.|+.+.
T Consensus 194 f~~eii~~ir~~~------~~~v~vRis~~d~~~~G~~~~e~~~i~~~-l~~~gvD~i 244 (337)
T PRK13523 194 FLREIIDAVKEVW------DGPLFVRISASDYHPGGLTVQDYVQYAKW-MKEQGVDLI 244 (337)
T ss_pred HHHHHHHHHHHhc------CCCeEEEecccccCCCCCCHHHHHHHHHH-HHHcCCCEE
Confidence 5566888888753 579999999 4567777666655 577887754
No 147
>cd02930 DCR_FMN 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the flavin and iron-sulfur cofactors. Metabolism of unsaturated fatty acids requires auxiliary enzymes in addition to those used in b-oxidation. After a given number of cycles through the b-oxidation pathway, those unsaturated fatty acyl-CoAs with double bonds at even-numbered carbon positions contain 2-trans, 4-cis double bonds that can not be modified by enoyl-CoA hydratase. DCR utilizes NADPH to remove the C4-C5 double bond. DCR can catalyze the reduction of both natural fatty acids with cis double bonds, as well as substrates containing trans double bonds. The reaction is initiated by hybrid transfer from NADPH to FAD, which in turn transfers electrons, one at a time, to FMN via the 4Fe-4S cluster. The fully reduced FMN provi
Probab=27.81 E-value=1.8e+02 Score=27.11 Aligned_cols=46 Identities=22% Similarity=0.184 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEecC-------CChhHHHHHHHHHHHHhCCCeE
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRGG-------PNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-------tn~~~g~~~l~~~l~~~gi~i~ 218 (241)
...-|++++++.-. .++||.+|+.. ...++++++++. |++.|+.+.
T Consensus 189 ~~~eiv~aIR~~vG----~d~~v~iRi~~~D~~~~g~~~~e~~~i~~~-Le~~G~d~i 241 (353)
T cd02930 189 FPVEIVRAVRAAVG----EDFIIIYRLSMLDLVEGGSTWEEVVALAKA-LEAAGADIL 241 (353)
T ss_pred HHHHHHHHHHHHcC----CCceEEEEecccccCCCCCCHHHHHHHHHH-HHHcCCCEE
Confidence 45667888887532 37899999974 466777666655 688887544
No 148
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=27.39 E-value=3.5e+02 Score=24.98 Aligned_cols=74 Identities=19% Similarity=0.237 Sum_probs=45.5
Q ss_pred cEEEEecCchhHHHHHHHHHhhc--cCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHH
Q 026236 89 RIWTMVAGGGASVIYADTVGDLG--YASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 166 (241)
Q Consensus 89 ~Ig~mvnGaGlaMatmD~i~~~~--~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d 166 (241)
+=-+++.|.+....+.|-|...- -|-+.--|.+++|.|+.+.+.++.+...+. +.+ .+|-|+||-+ -
T Consensus 23 ~r~liv~d~~~~~~~~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~---~~d---~iiavGGGs~-----~ 91 (345)
T cd08171 23 KKVVVIGGKTALAAAKDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQ---EAD---MIFAVGGGKA-----I 91 (345)
T ss_pred CEEEEEeCHHHHHHHHHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhc---CCC---EEEEeCCcHH-----H
Confidence 33455666554444455443221 033444577899999999999999877552 333 4788999863 3
Q ss_pred HHHHHHH
Q 026236 167 TTFNGII 173 (241)
Q Consensus 167 ~iA~GIv 173 (241)
.+|+.|.
T Consensus 92 D~aK~ia 98 (345)
T cd08171 92 DTVKVLA 98 (345)
T ss_pred HHHHHHH
Confidence 3566654
No 149
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only]
Probab=27.22 E-value=93 Score=26.15 Aligned_cols=44 Identities=20% Similarity=0.382 Sum_probs=37.7
Q ss_pred cceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHH
Q 026236 186 ARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQ 232 (241)
Q Consensus 186 ~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~ 232 (241)
.+.=++.+-.|+-+++|.--+.++--+.|.|+.||. +++||++-
T Consensus 28 ~k~lV~tka~g~AAQsGIp~~~kla~k~G~~vlvf~---dL~DAlev 71 (147)
T COG4080 28 AKRLVLTKAKGSAAQSGIPEVLKLAFKLGKPVLVFP---DLDDALEV 71 (147)
T ss_pred ccEEEEEecccHhhhhccHHHHHHHHHhCCcEEEeh---hHHHHHHh
Confidence 356688999999999998888888889999999997 89998863
No 150
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=27.07 E-value=3.3e+02 Score=25.54 Aligned_cols=64 Identities=13% Similarity=0.155 Sum_probs=44.6
Q ss_pred HHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHH
Q 026236 103 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRAL 176 (241)
Q Consensus 103 tmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~ 176 (241)
..+.+... |.+..-|-++.++|+.+.+.++.+..-+.-..+.+ .+|=|+||- +-.+|+.|.-.+
T Consensus 41 v~~~L~~~--g~~~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D---~IIaiGGGS-----~iD~AKaia~~~ 104 (347)
T cd08184 41 LISRLPVE--SEDMIIWVDATEEPKTDQIDALTAQVKSFDGKLPC---AIVGIGGGS-----TLDVAKAVSNML 104 (347)
T ss_pred HHHHHHhc--CCcEEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCC---EEEEeCCcH-----HHHHHHHHHHHH
Confidence 35667766 67888898999999999999999988542000233 366788875 344777775443
No 151
>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=26.64 E-value=3.9e+02 Score=22.52 Aligned_cols=100 Identities=14% Similarity=0.074 Sum_probs=49.8
Q ss_pred CCHHHHHHHHHHHhhcccCC--CCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH
Q 026236 126 PNEEEVLQYARVVIDCATAD--PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL 203 (241)
Q Consensus 126 a~~~~v~~a~~iil~~~~~~--~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~ 203 (241)
.+.+-.+.+.+.+.+.+..+ -+.+ +..+.|.-- ...+..-.+|+.+++++.+. ++..+......+.+++.
T Consensus 102 d~~~~g~~~~~~l~~~~~~~~~g~~~--i~~i~~~~~-~~~~~~r~~gf~~~l~~~~~-----~~~~~~~~~~~~~~~~~ 173 (277)
T cd06319 102 DNYEGAYDLGKFLAAAMKAQGWADGK--VGMVAIPQK-RKNGQKRTKGFKEAMKEAGC-----DLAGIRQQKDFSYQETF 173 (277)
T ss_pred ccHHHHHHHHHHHHHHHHhhCCCCCc--EEEEeccCC-CccHHHHHHHHHHHHHhcCC-----ceEeeccCCCCCHHHHH
Confidence 33444566677776542110 1122 223333221 12355667899999988752 22222223455667887
Q ss_pred HHHHHHHHHhC-CCeEEcCCCCCHHHHHHHHH
Q 026236 204 AKMRALGEELG-IPLEVYGPEATMTGICKQAI 234 (241)
Q Consensus 204 ~~l~~~l~~~g-i~i~~~~~~~~m~eav~~av 234 (241)
+.++++++... +...++ ..+.+...+-+++
T Consensus 174 ~~~~~~l~~~~~~~ai~~-~~d~~a~g~~~al 204 (277)
T cd06319 174 DYTNDLLTANPDIRAIWL-QGSDRYQGALDAI 204 (277)
T ss_pred HHHHHHHHhCCCCCEEEE-CCCccchHHHHHH
Confidence 77788877643 333332 2345544444444
No 152
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=26.63 E-value=3.6e+02 Score=24.90 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHhhhhhcccceeEEEEecC-----CChhHHHHHHHHHHHHhCCCeE
Q 026236 166 ATTFNGIIRALREKESKLKAARMHIFVRRGG-----PNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 166 d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-----tn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.++++++++|.++.+ .||++-+.- ...+.-..+++.+.+++++|+-
T Consensus 28 ~e~~~avi~AAee~~-------sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPVa 78 (286)
T PRK12738 28 AETIQAILEVCSEMR-------SPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLA 78 (286)
T ss_pred HHHHHHHHHHHHHHC-------CCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEE
Confidence 457788888887764 576664422 2233333455666666777754
No 153
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to 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. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=26.59 E-value=3.8e+02 Score=22.39 Aligned_cols=118 Identities=11% Similarity=0.137 Sum_probs=62.8
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..--+... ...+.+..+ |-++.+..-+.+..+.+...++++-++.. .+++++ ++
T Consensus 114 ~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~--~~~~~~~~i~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 180 (260)
T cd06286 114 YRKIAYCIGRKKSLNSQSRKKAYKDALEEY--GLTPDEEWIFEGCFTIEDGERIGHQLLKM-KDRPDA--IF-------- 180 (260)
T ss_pred CceEEEEcCCcccchhHHHHHHHHHHHHHc--CCCCChHheEeCCCCHHHHHHHHHHHHcC-CCCCCE--EE--------
Confidence 468888853222211 223566666 43443322223444555666677777653 133332 33
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
..-|.+|.|+++++++.+. ++| .|+-..++... ...++... ..+..+..+.|++++
T Consensus 181 --~~~d~~a~~~~~~l~~~g~-----~ip~di~v~g~d~~~~~------------~~~~~ttv--~~~~~~~g~~a~~~l 239 (260)
T cd06286 181 --TGSDEVAAGIITEAKKQGI-----RVPEDLAIIGFDNQPIS------------ELLGITTI--DQPVKELGEKAFELL 239 (260)
T ss_pred --EcchHHHHHHHHHHHHcCC-----CCCcceEEEeecCcccc------------cCCCCccc--CCCHHHHHHHHHHHH
Confidence 2346789999999999874 444 45555554422 12222211 246777777777765
Q ss_pred h
Q 026236 238 M 238 (241)
Q Consensus 238 ~ 238 (241)
.
T Consensus 240 ~ 240 (260)
T cd06286 240 L 240 (260)
T ss_pred H
Confidence 3
No 154
>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=26.43 E-value=3.9e+02 Score=22.41 Aligned_cols=118 Identities=12% Similarity=0.055 Sum_probs=60.5
Q ss_pred CccEEEEecCc-hh------HHHHHHHHHhhccCCC-Ccc-eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec
Q 026236 87 KGRIWTMVAGG-GA------SVIYADTVGDLGYASE-LGN-YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGG 157 (241)
Q Consensus 87 dG~Ig~mvnGa-Gl------aMatmD~i~~~~~gg~-pAN-FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G 157 (241)
.++|+++.... .. .-...+.+..+ +-. +.. +++ +..+.+..++.++-+++. +++..+|+
T Consensus 116 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~--~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~---~~~~~ai~----- 183 (268)
T cd06273 116 HRRIAMIFGPTQGNDRARARRAGVRAALAEA--GLELPELWQVE--APYSIADGRAALRQLLEQ---PPRPTAVI----- 183 (268)
T ss_pred CCeEEEEeccccCCccHHHHHHHHHHHHHHc--CCCCCHHHeee--CCCcHHHHHHHHHHHHcC---CCCCCEEE-----
Confidence 46888885321 11 11234666666 323 222 333 334455555555555542 23333233
Q ss_pred cccccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHH
Q 026236 158 GIANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAI 234 (241)
Q Consensus 158 GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av 234 (241)
..+|.+|.|+++++++.+. ++| -|+-..++. .+ ..+ .-++. .. ..+..+.++.|+
T Consensus 184 -----~~~~~~a~~~~~~l~~~g~-----~~p~~i~vig~d~~~--~~----~~~--~~~l~--~i--~~~~~~~g~~a~ 241 (268)
T cd06273 184 -----CGNDVLALGALYEARRLGL-----SVPEDLSIVGFDDID--GS----AEL--EPALT--TV--RVPAREIGRIAA 241 (268)
T ss_pred -----EcChHHHHHHHHHHHHcCC-----CCCCceEEEecCChh--HH----hhc--CCCce--ee--eCCHHHHHHHHH
Confidence 2457789999999999874 555 233333333 22 111 12332 22 247888888888
Q ss_pred HHhh
Q 026236 235 DCIM 238 (241)
Q Consensus 235 ~~~~ 238 (241)
+++.
T Consensus 242 ~~l~ 245 (268)
T cd06273 242 EALL 245 (268)
T ss_pred HHHH
Confidence 7654
No 155
>PF03702 UPF0075: Uncharacterised protein family (UPF0075); InterPro: IPR005338 Anhydro-N-acetylmuramic acid kinase catalyzes the specific phosphorylation of 1,6-anhydro-N-acetylmuramic acid (anhMurNAc) with the simultaneous cleavage of the 1,6-anhydro ring, generating MurNAc-6-P. It is also required for the utilisation of anhMurNAc, either imported from the medium, or derived from its own cell wall murein, and in so doing plays a role in cell wall recycling [, ]. ; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0006040 amino sugar metabolic process, 0009254 peptidoglycan turnover; PDB: 3QBX_B 3QBW_A 3CQY_B.
Probab=26.42 E-value=45 Score=31.84 Aligned_cols=15 Identities=53% Similarity=0.698 Sum_probs=11.5
Q ss_pred eEEEEEeccccccccH
Q 026236 150 KRALLIGGGIANFTDV 165 (241)
Q Consensus 150 ~i~inI~GGI~n~T~~ 165 (241)
.+++|| |||+|.|=.
T Consensus 160 ~~~lNI-GGIaNiT~l 174 (364)
T PF03702_consen 160 RAVLNI-GGIANITFL 174 (364)
T ss_dssp EEEEEE-SSEEEEEEE
T ss_pred EEEEec-CCceEEEEe
Confidence 368899 789988753
No 156
>PRK00768 nadE NAD synthetase; Reviewed
Probab=26.41 E-value=5.1e+02 Score=23.73 Aligned_cols=109 Identities=13% Similarity=0.056 Sum_probs=59.2
Q ss_pred HHHHhhccCCCCcceeccCCCCCHHH-HHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhh
Q 026236 105 DTVGDLGYASELGNYAEYSGAPNEEE-VLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL 183 (241)
Q Consensus 105 D~i~~~~~gg~pANFlD~GG~a~~~~-v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~ 183 (241)
.+|+.+ +-+|+ .++++ +.....+|-+.. .+...+.++|-+.||| +-..+|-=.++|+...+...
T Consensus 5 ~~~~~~--~~~~~--------~~~~~~~~~i~~~L~~~l-~~~g~~g~VlGlSGGI----DSav~a~L~~~A~~~~~~~~ 69 (268)
T PRK00768 5 EIIAEL--GVKPT--------IDPEEEIRRRVDFLKDYL-KKSGLKSLVLGISGGQ----DSTLAGRLAQLAVEELRAET 69 (268)
T ss_pred HHHHHH--CCCCC--------CCHHHHHHHHHHHHHHHH-HHcCCCeEEEECCCCH----HHHHHHHHHHHHHHHhcccc
Confidence 456677 66664 13433 333334443321 1233456799999999 66667766677776554211
Q ss_pred ccccee-EEEEecCCC---hhHHHHHHHHHHHHhCC-CeEEcCCCCCHHHHHHHHHHH
Q 026236 184 KAARMH-IFVRRGGPN---YQTGLAKMRALGEELGI-PLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 184 ~~~~vP-iVvRl~Gtn---~~~g~~~l~~~l~~~gi-~i~~~~~~~~m~eav~~av~~ 236 (241)
....+. +.+.+..+. .+.+ +++.+.+|+ ++.+. ++++++..-++.
T Consensus 70 ~~~~~~~~~l~mP~~~~~~~~da----~~la~~lgi~~~~~i----~I~~~~~~~~~~ 119 (268)
T PRK00768 70 GDDDYQFIAVRLPYGVQADEDDA----QDALAFIQPDRVLTV----NIKPAVDASVAA 119 (268)
T ss_pred cCcceeEEEEECCCCCcCCHHHH----HHHHHhcCCCeeEEE----ECHHHHHHHHHH
Confidence 000122 344444321 3555 777788898 55543 566666665543
No 157
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=26.24 E-value=7.7e+02 Score=25.80 Aligned_cols=118 Identities=17% Similarity=0.190 Sum_probs=66.6
Q ss_pred cEEEEecCchhHHHHHHHHHhhccCCCCcceeccCC-CCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHH
Q 026236 89 RIWTMVAGGGASVIYADTVGDLGYASELGNYAEYSG-APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVAT 167 (241)
Q Consensus 89 ~Ig~mvnGaGlaMatmD~i~~~~~gg~pANFlD~GG-~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~ 167 (241)
.+|-..--+|...++ .++... |-+. |+|+ ..+++.+.+++. . .++++ |-|.+-- +.--+
T Consensus 589 tlG~d~H~~ra~fv~-~~l~~~--GfeV----~~~~~~~s~e~~v~aa~---~---~~a~i----vvlcs~d---~~~~e 648 (714)
T PRK09426 589 KMGQDGHDRGAKVIA-TAFADL--GFDV----DIGPLFQTPEEAARQAV---E---NDVHV----VGVSSLA---AGHKT 648 (714)
T ss_pred ecCCcchhHhHHHHH-HHHHhC--CeeE----ecCCCCCCHHHHHHHHH---H---cCCCE----EEEeccc---hhhHH
Confidence 333333344443332 444444 3344 4554 467887777664 2 23443 3334422 34445
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.+..+++++++.+. .+++|+ +.|.-..+- .+.+++.|+.-++ .+-+++.+.+....+..
T Consensus 649 ~~~~l~~~Lk~~G~----~~v~vl--~GG~~~~~~----~~~l~~aGvD~~i-~~g~d~~~~L~~l~~~l 707 (714)
T PRK09426 649 LVPALIEALKKLGR----EDIMVV--VGGVIPPQD----YDFLYEAGVAAIF-GPGTVIADAAIDLLELL 707 (714)
T ss_pred HHHHHHHHHHhcCC----CCcEEE--EeCCCChhh----HHHHHhCCCCEEE-CCCCCHHHHHHHHHHHH
Confidence 68899999999863 246655 456522333 2446788998554 35689999888877654
No 158
>TIGR00030 S21p ribosomal protein S21. This model describes bacterial ribosomal protein S21 and most mitochondrial and chloroplast equivalents.
Probab=25.84 E-value=89 Score=22.02 Aligned_cols=27 Identities=19% Similarity=0.255 Sum_probs=21.8
Q ss_pred EEEEecCCChhHHHHHHHHHHHHhCCC
Q 026236 190 IFVRRGGPNYQTGLAKMRALGEELGIP 216 (241)
Q Consensus 190 iVvRl~Gtn~~~g~~~l~~~l~~~gi~ 216 (241)
.|..-.|.+.|.|++.+++.++..||.
T Consensus 2 ~V~V~~~e~ie~alrrfkr~~~~~gil 28 (58)
T TIGR00030 2 TVKVKEGESIDSALRRFKRKLEKEGIL 28 (58)
T ss_pred eeEeCCCCcHHHHHHHHHHHHHHcchH
Confidence 345566777999999999999999973
No 159
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=25.81 E-value=2.2e+02 Score=24.23 Aligned_cols=59 Identities=12% Similarity=0.226 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec--CCChhHH
Q 026236 128 EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG--GPNYQTG 202 (241)
Q Consensus 128 ~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~--Gtn~~~g 202 (241)
.+.+.++++....+ +.+...+.||-.||-+ +.+ ..|.++++.. ++|+++-.. |...-.+
T Consensus 15 ~~~l~~~l~~A~~~---~~~~i~l~inSPGG~v--~~~----~~I~~~i~~~-------~~pvv~~v~p~g~~AaSa 75 (172)
T cd07015 15 YDQFDRYITIAEQD---NAEAIIIELDTPGGRA--DAA----GNIVQRIQQS-------KIPVIIYVYPPGASAASA 75 (172)
T ss_pred HHHHHHHHHHHhcC---CCCeEEEEEECCCCCH--HHH----HHHHHHHHhc-------CcCEEEEEecCCCeehhH
Confidence 34456666655443 3566668889999985 333 5566666653 688887776 4343444
No 160
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=25.77 E-value=2.9e+02 Score=21.74 Aligned_cols=78 Identities=19% Similarity=0.164 Sum_probs=43.2
Q ss_pred eccCCCCCHH--HHHHHHHHHhhcccCCCCcceEEEEEeccccc-cccH--HHHHHHHHHHHHHhhhhhcccceeEEEEe
Q 026236 120 AEYSGAPNEE--EVLQYARVVIDCATADPDGRKRALLIGGGIAN-FTDV--ATTFNGIIRALREKESKLKAARMHIFVRR 194 (241)
Q Consensus 120 lD~GG~a~~~--~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n-~T~~--d~iA~GIv~A~~~~~~~~~~~~vPiVvRl 194 (241)
+|.+|+-..+ .++++++.+++...++. + +-|..||.-+. +..+ ....+.+-+|.+-... +-...
T Consensus 7 vD~S~Sm~g~~~~~k~al~~~l~~L~~~d--~-fnii~f~~~~~~~~~~~~~~~~~~~~~a~~~I~~--------~~~~~ 75 (155)
T PF13768_consen 7 VDTSGSMSGEKELVKDALRAILRSLPPGD--R-FNIIAFGSSVRPLFPGLVPATEENRQEALQWIKS--------LEANS 75 (155)
T ss_pred EeCCCCCCCcHHHHHHHHHHHHHhCCCCC--E-EEEEEeCCEeeEcchhHHHHhHHHHHHHHHHHHH--------hcccC
Confidence 6888877664 89999999998754433 2 23445564321 1222 1112334333333321 22337
Q ss_pred cCCChhHHHHHHHH
Q 026236 195 GGPNYQTGLAKMRA 208 (241)
Q Consensus 195 ~Gtn~~~g~~~l~~ 208 (241)
.||+...+++...+
T Consensus 76 G~t~l~~aL~~a~~ 89 (155)
T PF13768_consen 76 GGTDLLAALRAALA 89 (155)
T ss_pred CCccHHHHHHHHHH
Confidence 89999999754433
No 161
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=25.60 E-value=40 Score=28.09 Aligned_cols=65 Identities=8% Similarity=0.098 Sum_probs=33.2
Q ss_pred ccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 163 TDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 163 T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
+.|..+.+-|-+.+++.....+...+|+++- | +++ -++.+.|..--.=| .+....++.||.+++-
T Consensus 74 ~~s~~l~~~v~~~v~~~~~~~~~~~i~V~~v----~-~~~----A~lY~~S~rA~~EF---P~~p~~~R~AIslAR~ 138 (150)
T PF14639_consen 74 RESRKLYDDVRDIVEELDEDEQMPPIPVVIV----D-DEV----ARLYSNSKRAAEEF---PDYPPLLRYAISLARY 138 (150)
T ss_dssp THHHHHHHHHHHHHHHTTB-TTS-B--EEE--------TT----HHHHHTSHHHHHHS---TT--HHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHhhhcccCCCceEEEE----C-cHH----HHHHhcCHHHHHHC---CCCCHHHHHHHHHHHH
Confidence 6888888888888887652222235776541 2 222 23333332111111 2677899999998864
No 162
>PRK10949 protease 4; Provisional
Probab=25.57 E-value=2.5e+02 Score=28.78 Aligned_cols=94 Identities=17% Similarity=0.204 Sum_probs=55.7
Q ss_pred CHHHHHHHHHHHhhcccCCCCcceEEEEEe--ccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHH-
Q 026236 127 NEEEVLQYARVVIDCATADPDGRKRALLIG--GGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGL- 203 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~~i~inI~--GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~- 203 (241)
+-..+.++++-...| ++++++++.+- ||- ..+.+.++.+ |++++.. ..+|||.- |.++.++-
T Consensus 96 ~l~div~~i~~Aa~D----~rIkgivL~i~s~gG~-~~a~~~eI~~----ai~~fk~----sGKpVvA~--~~~~~s~~Y 160 (618)
T PRK10949 96 SLFDIVNTIRQAKDD----RNITGIVLDLKNFAGA-DQPSMQYIGK----ALREFRD----SGKPVYAV--GDSYSQGQY 160 (618)
T ss_pred cHHHHHHHHHHHhcC----CCceEEEEEeCCCCCc-cHHHHHHHHH----HHHHHHH----hCCeEEEE--ecCccchhh
Confidence 446788888888777 45555677663 332 1235555544 5555442 25898884 54444320
Q ss_pred --------------------------HHHHHHHHHhCCCeEEcCC-----------CCCHHHHHHHHHH
Q 026236 204 --------------------------AKMRALGEELGIPLEVYGP-----------EATMTGICKQAID 235 (241)
Q Consensus 204 --------------------------~~l~~~l~~~gi~i~~~~~-----------~~~m~eav~~av~ 235 (241)
--++++|++.|+..++|.. .++|++..+...+
T Consensus 161 yLASaAD~I~l~P~G~v~~~G~~~~~~~~k~lLdKlGV~~~v~r~G~yKsA~epf~r~~mS~e~Re~~~ 229 (618)
T PRK10949 161 YLASFANKIYLSPQGVVDLHGFATNGLYYKSLLDKLKVSTHVFRVGTYKSAVEPFIRDDMSPAAREADS 229 (618)
T ss_pred hhhhhCCEEEECCCceEEEeeeecchhhHHHHHHHcCCeEEEEEecCCCCCCCcccCCCCCHHHHHHHH
Confidence 1136889999998874421 2577877777665
No 163
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=25.37 E-value=2.4e+02 Score=23.10 Aligned_cols=61 Identities=13% Similarity=0.146 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCC-CHHHHHHHH
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEA-TMTGICKQA 233 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~-~m~eav~~a 233 (241)
+++|+++.++.++.... ..-++ +-|.+...| +-|..+|.+.|..+.++...+ ++.+++++|
T Consensus 11 t~~a~~~ll~~~~~~~~--gk~v~--VvGrs~~vG-~pla~lL~~~gatV~~~~~~t~~l~~~v~~A 72 (140)
T cd05212 11 VAKAVKELLNKEGVRLD--GKKVL--VVGRSGIVG-APLQCLLQRDGATVYSCDWKTIQLQSKVHDA 72 (140)
T ss_pred HHHHHHHHHHHcCCCCC--CCEEE--EECCCchHH-HHHHHHHHHCCCEEEEeCCCCcCHHHHHhhC
Confidence 68999999999865333 22222 345555555 223455666788887765332 567766654
No 164
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=25.35 E-value=3.7e+02 Score=24.81 Aligned_cols=69 Identities=16% Similarity=0.229 Sum_probs=44.1
Q ss_pred EEEecCchhHHHHHHH----HHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHH
Q 026236 91 WTMVAGGGASVIYADT----VGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 166 (241)
Q Consensus 91 g~mvnGaGlaMatmD~----i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d 166 (241)
.+++.|.++.=...|- +..+ |-+. .|.++.|.|+.+.+.++.+.+-+. +++ .+|=|+||-+ -
T Consensus 25 ~livt~~~~~~~~~~~v~~~L~~~--~i~~-~~~~~~~~p~~~~v~~~~~~~~~~---~~D---~IIavGGGS~-----i 90 (351)
T cd08170 25 ALIIADEFVLDLVGAKIEESLAAA--GIDA-RFEVFGGECTRAEIERLAEIARDN---GAD---VVIGIGGGKT-----L 90 (351)
T ss_pred EEEEECHHHHHHHHHHHHHHHHhC--CCeE-EEEEeCCcCCHHHHHHHHHHHhhc---CCC---EEEEecCchh-----h
Confidence 4455666553334443 3333 2233 388999999999999999998653 344 3778888863 3
Q ss_pred HHHHHHH
Q 026236 167 TTFNGII 173 (241)
Q Consensus 167 ~iA~GIv 173 (241)
.+|+.|.
T Consensus 91 D~aK~ia 97 (351)
T cd08170 91 DTAKAVA 97 (351)
T ss_pred HHHHHHH
Confidence 3566654
No 165
>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=25.24 E-value=4e+02 Score=22.19 Aligned_cols=119 Identities=14% Similarity=0.095 Sum_probs=63.0
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCCcc-eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASELGN-YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~pAN-FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++....... -...+.+..+ |-+... .... |..+.+..++.++-++.. .+.+.+ ++ .
T Consensus 120 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~-~~~~~a--i~---~--- 187 (268)
T cd06271 120 HRRIALLNPPEDLTFAQHRRAGYRRALAEA--GLPLDPALIVS-GDMTEEGGYAAAAELLAL-PDRPTA--IV---C--- 187 (268)
T ss_pred CCcEEEecCccccchHHHHHHHHHHHHHHh--CCCCCCceEEe-CCCChHHHHHHHHHHHhC-CCCCCE--EE---E---
Confidence 47888875432221 1234777777 434222 2222 445667777777666653 122332 23 1
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
.-|.+|.|+++|+++.+. ++| -|+-..++. .+ . + .+-++..+. .+..+..++|+++
T Consensus 188 ----~~d~~a~g~~~al~~~g~-----~vp~~i~iig~d~~~--~~----~--~--~~~~ltti~--~~~~~~g~~a~~~ 246 (268)
T cd06271 188 ----SSELMALGVLAALAEAGL-----RPGRDVSVVGFDDSP--PL----L--F--FSPPLTTVR--SDLRAAGRRLAEL 246 (268)
T ss_pred ----cCcHHHHHHHHHHHHhCC-----CCCcceeEEEecCch--HH----h--h--cCCCceEEc--cCHHHHHHHHHHH
Confidence 226688999999999874 555 233333332 22 1 1 122233332 5778888888776
Q ss_pred hh
Q 026236 237 IM 238 (241)
Q Consensus 237 ~~ 238 (241)
..
T Consensus 247 l~ 248 (268)
T cd06271 247 LL 248 (268)
T ss_pred HH
Confidence 43
No 166
>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c
Probab=24.88 E-value=2.4e+02 Score=23.77 Aligned_cols=28 Identities=14% Similarity=0.080 Sum_probs=12.4
Q ss_pred HHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 129 EEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 129 ~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
+.+.++++-..++ +.+...+.||--||-
T Consensus 16 ~~l~~~l~~a~~~---~~~~vvl~InSpGG~ 43 (187)
T cd07020 16 DYLERAIDQAEEG---GADALIIELDTPGGL 43 (187)
T ss_pred HHHHHHHHHHHhC---CCCEEEEEEECCCCC
Confidence 3444444444332 233333444555554
No 167
>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=24.84 E-value=4.3e+02 Score=22.35 Aligned_cols=119 Identities=11% Similarity=0.102 Sum_probs=59.4
Q ss_pred CccEEEEecCchhH-----HHHHHHHHhhccCCCCc--ceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS-----VIYADTVGDLGYASELG--NYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla-----MatmD~i~~~~~gg~pA--NFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++.+..... -...+.++.+ |-... ...........+..++.++-+++. .+.+++ ++
T Consensus 121 ~~~i~~l~~~~~~~~~~r~~g~~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--v~------- 188 (273)
T cd01541 121 HRKIAGIFKADDLQGVKRMKGFIKAYREH--GIPFNPSNVITYTTEEKEEKLFEKIKEILKR-PERPTA--IV------- 188 (273)
T ss_pred CcCEEEecCCCcccHHHHHHHHHHHHHHc--CCCCChHHEEeccccchhhHHHHHHHHHHcC-CCCCCE--EE-------
Confidence 36777765432211 1245777776 43322 222233333334455555555542 023332 33
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
..-|.+|.|+++|+++.+. ++| -|+-..+. +.+ ...+.++..+. .+..+..+.|++.
T Consensus 189 ---~~~d~~a~g~~~al~~~g~-----~~p~dv~vvg~d~~--~~~--------~~~~~~~t~i~--~~~~~~g~~a~~~ 248 (273)
T cd01541 189 ---CYNDEIALRVIDLLKELGL-----KIPEDISVVGFDDS--YLS--------VASEVKLTTVT--HPKEQMGEDAAKM 248 (273)
T ss_pred ---EcCcHHHHHHHHHHHHcCC-----CCCCcEEEEEcCCc--chh--------hhccCcceEEe--cCHHHHHHHHHHH
Confidence 2457899999999999874 344 34434333 222 12344444333 4666666666654
Q ss_pred h
Q 026236 237 I 237 (241)
Q Consensus 237 ~ 237 (241)
+
T Consensus 249 l 249 (273)
T cd01541 249 I 249 (273)
T ss_pred H
Confidence 3
No 168
>TIGR00036 dapB dihydrodipicolinate reductase.
Probab=24.71 E-value=3e+02 Score=24.66 Aligned_cols=50 Identities=14% Similarity=0.157 Sum_probs=35.1
Q ss_pred ceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhhc
Q 026236 187 RMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMSA 240 (241)
Q Consensus 187 ~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~~ 240 (241)
++|+|+=-.|-..++. +.|.+.-++.|+|+.+. .+|.=.+....++++++
T Consensus 92 g~~vVigttg~~~e~~-~~l~~aA~~~g~~v~~a---~NfSlGv~ll~~~~~~a 141 (266)
T TIGR00036 92 GVRLVVGTTGFSEEDK-QELADLAEKAGIAAVIA---PNFSIGVNLMFKLLEKA 141 (266)
T ss_pred CCCEEEECCCCCHHHH-HHHHHHHhcCCccEEEE---CcccHHHHHHHHHHHHH
Confidence 5899998888776655 55566667778887743 37777777776666654
No 169
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=24.34 E-value=3.6e+02 Score=25.25 Aligned_cols=57 Identities=19% Similarity=0.278 Sum_probs=40.2
Q ss_pred HHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHH
Q 026236 104 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGII 173 (241)
Q Consensus 104 mD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv 173 (241)
...+..+ |-+..-|-++.++|+.+.+.++.+.+-.. +.+. +|=|+||- +-.+|+.|.
T Consensus 44 ~~~L~~~--gi~~~~~~~v~~~p~~~~v~~~~~~~~~~---~~D~---IIaiGGGS-----~~D~AKaia 100 (375)
T cd08194 44 TDSLKKE--GIESAIFDDVVSEPTDESVEEGVKLAKEG---GCDV---IIALGGGS-----PIDTAKAIA 100 (375)
T ss_pred HHHHHHC--CCeEEEECCCCCCcCHHHHHHHHHHHHhc---CCCE---EEEeCCch-----HHHHHHHHH
Confidence 3555555 44666688899999999999999988553 3443 67788885 334677664
No 170
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=24.24 E-value=3.5e+02 Score=25.32 Aligned_cols=58 Identities=19% Similarity=0.133 Sum_probs=39.7
Q ss_pred HHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHH
Q 026236 104 ADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIR 174 (241)
Q Consensus 104 mD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~ 174 (241)
.+.+..+ |-+..-|-++.+.|+.+.+.++.+.+.+. +++ .+|=|+||- +-.+|+.|.-
T Consensus 49 ~~~L~~~--~~~~~~f~~v~~~p~~~~v~~~~~~~~~~---~~D---~IIavGGGS-----~iD~aK~ia~ 106 (377)
T cd08176 49 TDVLDEA--GIDYVIYDGVKPNPTITNVKDGLAVFKKE---GCD---FIISIGGGS-----PHDCAKAIGI 106 (377)
T ss_pred HHHHHHc--CCeEEEeCCCCCCCCHHHHHHHHHHHHhc---CCC---EEEEeCCcH-----HHHHHHHHHH
Confidence 3455544 33566676788899999999999988653 344 367888885 3447777653
No 171
>PRK06801 hypothetical protein; Provisional
Probab=24.19 E-value=4.5e+02 Score=24.19 Aligned_cols=63 Identities=8% Similarity=0.107 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhhhhhcccceeEEEEecCC-----ChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHH
Q 026236 166 ATTFNGIIRALREKESKLKAARMHIFVRRGGP-----NYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 166 d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gt-----n~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~ 235 (241)
.+++++|++|.++. +.|+++=+.-. +.+.-..+++.+-+++.+|+-+=-.....-+.+.+|++
T Consensus 28 ~e~~~avi~AAe~~-------~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lHlDH~~~~e~i~~Ai~ 95 (286)
T PRK06801 28 SHFLRALFAAAKQE-------RSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLNLDHGLHFEAVVRALR 95 (286)
T ss_pred HHHHHHHHHHHHHH-------CCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHH
Confidence 45677777777776 36666654332 22333444456666666665432222222344555544
No 172
>PLN02495 oxidoreductase, acting on the CH-CH group of donors
Probab=24.15 E-value=5.6e+02 Score=24.67 Aligned_cols=84 Identities=12% Similarity=0.098 Sum_probs=52.2
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEe---------ccccccccHHHHHHHHHHHHHHhhhhhccccee
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIG---------GGIANFTDVATTFNGIIRALREKESKLKAARMH 189 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~---------GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP 189 (241)
+.-+.|.-+.+...+.++.+-+ ..+..+-+|+. +|..=-.+++ ..+-|++++++.. ++|
T Consensus 117 IaSi~~~~s~~~~~~~a~~~e~-----~GaD~iELNiSCPn~~~~r~~g~~~gq~~e-~~~~i~~~Vk~~~------~iP 184 (385)
T PLN02495 117 IASIMEEYNKDAWEEIIERVEE-----TGVDALEINFSCPHGMPERKMGAAVGQDCD-LLEEVCGWINAKA------TVP 184 (385)
T ss_pred EEEccCCCCHHHHHHHHHHHHh-----cCCCEEEEECCCCCCCCcCccchhhccCHH-HHHHHHHHHHHhh------cCc
Confidence 4557676788888888888743 22345788884 1110002333 4556778887764 799
Q ss_pred EEEEecCCChhHHHHHHHHHHHHhCCC
Q 026236 190 IFVRRGGPNYQTGLAKMRALGEELGIP 216 (241)
Q Consensus 190 iVvRl~Gtn~~~g~~~l~~~l~~~gi~ 216 (241)
|+|.|. +|... +.-+-+.+.+.|..
T Consensus 185 v~vKLs-Pn~t~-i~~ia~aa~~~Gad 209 (385)
T PLN02495 185 VWAKMT-PNITD-ITQPARVALKSGCE 209 (385)
T ss_pred eEEEeC-CChhh-HHHHHHHHHHhCCC
Confidence 999999 45443 44555556666643
No 173
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=24.03 E-value=3.6e+02 Score=25.27 Aligned_cols=69 Identities=20% Similarity=0.198 Sum_probs=43.3
Q ss_pred EEEecCchhHHHHHH----HHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHH
Q 026236 91 WTMVAGGGASVIYAD----TVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVA 166 (241)
Q Consensus 91 g~mvnGaGlaMatmD----~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d 166 (241)
.+++.|.++. +.| .++.+ |-+..-| |+.+.|+.+.+.++.+..-+. +.+ .+|-|+||-+ -
T Consensus 25 ~livtd~~~~--~~~~v~~~L~~~--g~~~~~~-~~~~~p~~~~v~~~~~~~~~~---~~D---~IIaiGGGS~-----~ 88 (374)
T cd08183 25 VLLVTGASSL--RAAWLIEALRAA--GIEVTHV-VVAGEPSVELVDAAVAEARNA---GCD---VVIAIGGGSV-----I 88 (374)
T ss_pred EEEEECCchH--HHHHHHHHHHHc--CCeEEEe-cCCCCcCHHHHHHHHHHHHhc---CCC---EEEEecCchH-----H
Confidence 3555666655 333 34444 3344444 677899999999999988653 344 3788999863 3
Q ss_pred HHHHHHHHH
Q 026236 167 TTFNGIIRA 175 (241)
Q Consensus 167 ~iA~GIv~A 175 (241)
.+|+.|.-.
T Consensus 89 D~aK~ia~~ 97 (374)
T cd08183 89 DAGKAIAAL 97 (374)
T ss_pred HHHHHHHHH
Confidence 366766543
No 174
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=23.76 E-value=4.4e+02 Score=24.47 Aligned_cols=61 Identities=18% Similarity=0.170 Sum_probs=40.8
Q ss_pred HHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHH
Q 026236 103 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRAL 176 (241)
Q Consensus 103 tmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~ 176 (241)
..+.+... |-+..-|-++.++|+.+.+.++.+.+... +++ .+|=|+||- +-.+|+.+.-.+
T Consensus 43 v~~~L~~~--~~~~~~~~~~~~~p~~~~v~~~~~~~~~~---~~d---~IiaiGGGs-----~~D~AK~va~~~ 103 (370)
T cd08551 43 VIDSLKEA--GIEVVIFDGVEPNPTLSNVDAAVAAYREE---GCD---GVIAVGGGS-----VLDTAKAIALLA 103 (370)
T ss_pred HHHHHHHc--CCeEEEECCCCCCCCHHHHHHHHHHHHhc---CCC---EEEEeCCch-----HHHHHHHHHHHH
Confidence 34555544 33444566788999999999999998653 344 367888886 334777765544
No 175
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=23.49 E-value=5.2e+02 Score=22.87 Aligned_cols=119 Identities=9% Similarity=0.042 Sum_probs=60.5
Q ss_pred CccEEEEecCchhH------HHHHHHHHhhccCCCC-cceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 87 KGRIWTMVAGGGAS------VIYADTVGDLGYASEL-GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 87 dG~Ig~mvnGaGla------MatmD~i~~~~~gg~p-ANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
.++|+++...-+.. -...+.+..+ |=+. ..+. ..+..+.+..++.++-+++. +++..+++
T Consensus 178 ~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~--gi~~~~~~~-~~~~~~~~~~~~~~~~~l~~---~~~~~ai~------- 244 (341)
T PRK10703 178 HRDIGVIPGPLERNTGAGRLAGFMKAMEEA--NIKVPEEWI-VQGDFEPESGYEAMQQILSQ---KHRPTAVF------- 244 (341)
T ss_pred CCcEEEEeCCccccchHHHHHHHHHHHHHc--CCCCChHHe-EeCCCCHHHHHHHHHHHHhC---CCCCCEEE-------
Confidence 46787774332221 1234566666 3221 1111 12344556666666555542 23332233
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHH
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDC 236 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~ 236 (241)
+..|.+|.|+++|+++.+. ++| .|+-..+.. .+ .. .+-++..+. .+..+..++|+++
T Consensus 245 ---~~nd~~a~g~~~al~~~g~-----~ip~dv~vvgfD~~~--~~----~~----~~p~lttv~--~~~~~~g~~a~~~ 304 (341)
T PRK10703 245 ---CGGDIMAMGAICAADEMGL-----RVPQDISVIGYDNVR--NA----RY----FTPALTTIH--QPKDRLGETAFNM 304 (341)
T ss_pred ---ECCcHHHHHHHHHHHHcCC-----CCCCceEEEEECCCc--HH----hh----cCCCCceec--CCHHHHHHHHHHH
Confidence 2347789999999999874 555 345444432 22 11 121222222 4677777777776
Q ss_pred hh
Q 026236 237 IM 238 (241)
Q Consensus 237 ~~ 238 (241)
+.
T Consensus 305 l~ 306 (341)
T PRK10703 305 LL 306 (341)
T ss_pred HH
Confidence 53
No 176
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=23.49 E-value=1.1e+02 Score=22.98 Aligned_cols=27 Identities=19% Similarity=0.231 Sum_probs=22.5
Q ss_pred ceeEEEEecCCChhHHHHHHHHHHHHh
Q 026236 187 RMHIFVRRGGPNYQTGLAKMRALGEEL 213 (241)
Q Consensus 187 ~vPiVvRl~Gtn~~~g~~~l~~~l~~~ 213 (241)
.=.|.|+..|++++++++-|.++++++
T Consensus 58 G~~v~i~~~G~De~~A~~~l~~ll~~~ 84 (85)
T PRK10850 58 GTVVTISAEGEDEQKAVEHLVKLMAEL 84 (85)
T ss_pred CCEEEEEEeCcCHHHHHHHHHHHHHhc
Confidence 455899999999999998888887653
No 177
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=23.45 E-value=1.2e+02 Score=22.12 Aligned_cols=26 Identities=15% Similarity=0.171 Sum_probs=22.2
Q ss_pred ceeEEEEecCCChhHHHHHHHHHHHH
Q 026236 187 RMHIFVRRGGPNYQTGLAKMRALGEE 212 (241)
Q Consensus 187 ~vPiVvRl~Gtn~~~g~~~l~~~l~~ 212 (241)
.-.+.+...|++++++++-|.+++++
T Consensus 58 G~~i~i~~~G~de~~a~~~i~~~~~~ 83 (84)
T PF00381_consen 58 GDEIEIEAEGEDEEEALEAIAEFLES 83 (84)
T ss_dssp TEEEEEEEESTTHHHHHHHHHHHHHH
T ss_pred CCEEEEEEECcCHHHHHHHHHHHHhc
Confidence 45688899999999999998888765
No 178
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=23.45 E-value=5.8e+02 Score=23.38 Aligned_cols=121 Identities=16% Similarity=0.082 Sum_probs=71.7
Q ss_pred ccEEEEecCc-hhH-----HHHHHHHHhhccCCCC-cceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 88 GRIWTMVAGG-GAS-----VIYADTVGDLGYASEL-GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 88 G~Ig~mvnGa-Gla-----MatmD~i~~~~~gg~p-ANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
-+|+++..+. ..+ -.+.+.+..+ |..+ -.+.=.|.. +.+.-+++++-++....+.|.+ +|
T Consensus 176 ~~i~~i~~~~~~~~~~~R~~Gf~~al~~~--~~~~~~~~i~~~~~-~~~~g~~~~~~ll~~~~~~ptA--if-------- 242 (333)
T COG1609 176 RRIAFIGGPLDSSASRERLEGYRAALREA--GLPINPEWIVEGDF-SEESGYEAAERLLARGEPRPTA--IF-------- 242 (333)
T ss_pred ceEEEEeCCCccccHhHHHHHHHHHHHHC--CCCCCcceEEecCC-ChHHHHHHHHHHHhcCCCCCcE--EE--------
Confidence 4688887663 222 2456888888 6665 444444444 7777888887777641111433 34
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.--|.+|-|+++++++.+. ++|==+.+.|-+-..- - +-+.-|+..+. .+..+..++|+++.
T Consensus 243 --~~nD~~Alg~l~~~~~~g~-----~vP~disviGfDd~~~----~---~~~~P~LTTv~--~~~~~~G~~A~~~L 303 (333)
T COG1609 243 --CANDLMALGALRALRELGL-----RVPEDLSVIGFDDIEL----A---RFLTPPLTTVR--QPIEELGRRAAELL 303 (333)
T ss_pred --EcCcHHHHHHHHHHHHcCC-----CCCCeeEEEEecChhh----h---hhCCCCCeeec--CCHHHHHHHHHHHH
Confidence 2458899999999999985 6773223334332111 1 12222333322 58888888887764
No 179
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=23.25 E-value=4.7e+02 Score=24.12 Aligned_cols=45 Identities=16% Similarity=0.162 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecC-----CChhHHHHHHHHHHHHhCCCeE
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGG-----PNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-----tn~~~g~~~l~~~l~~~gi~i~ 218 (241)
+.++++++|.++.+ .|+++=+.- ...+.-..+++++-+++.+|+-
T Consensus 29 e~~~avi~AAee~~-------sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~ 78 (284)
T PRK09195 29 ETMQVVVETAAELH-------SPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLA 78 (284)
T ss_pred HHHHHHHHHHHHhC-------CCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEE
Confidence 45666666666653 555554422 1223333344555555555543
No 180
>PRK08318 dihydropyrimidine dehydrogenase subunit B; Validated
Probab=23.12 E-value=4.4e+02 Score=25.11 Aligned_cols=85 Identities=21% Similarity=0.196 Sum_probs=51.0
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec---------cccccccHHHHHHHHHHHHHHhhhhhccccee
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGG---------GIANFTDVATTFNGIIRALREKESKLKAARMH 189 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G---------GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vP 189 (241)
..-+.|..+.+.+.++.+.+-+ .....+=+|+.- |.. +-+--+...-|++++++.. ++|
T Consensus 103 i~si~g~~~~~~~~~~a~~~~~-----~g~d~ielN~scP~~~~~~~~g~~-~~~~~~~~~~i~~~v~~~~------~~P 170 (420)
T PRK08318 103 IASIMVECNEEEWKEIAPLVEE-----TGADGIELNFGCPHGMSERGMGSA-VGQVPELVEMYTRWVKRGS------RLP 170 (420)
T ss_pred EEEeccCCCHHHHHHHHHHHHh-----cCCCEEEEeCCCCCCccccCCccc-ccCCHHHHHHHHHHHHhcc------CCc
Confidence 4566677678888888888844 223446677641 110 0122235566777777653 699
Q ss_pred EEEEecCCChhHHHHHHHHHHHHhCCCe
Q 026236 190 IFVRRGGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 190 iVvRl~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
|.|.|. ++... +.-+-+.+++.|..-
T Consensus 171 v~vKl~-p~~~~-~~~~a~~~~~~Gadg 196 (420)
T PRK08318 171 VIVKLT-PNITD-IREPARAAKRGGADA 196 (420)
T ss_pred EEEEcC-CCccc-HHHHHHHHHHCCCCE
Confidence 999998 45444 333445567777653
No 181
>TIGR01085 murE UDP-N-acetylmuramyl-tripeptide synthetase. A close homolog, scoring just below the trusted cutoff, is found (with introns) in Arabidopsis thaliana. Its role is unknown.
Probab=22.93 E-value=6.7e+02 Score=23.94 Aligned_cols=95 Identities=14% Similarity=0.141 Sum_probs=46.7
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec-cccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh--h
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGG-GIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY--Q 200 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G-GI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~--~ 200 (241)
.+++++.+..+++.+-+. +. .+ .+-|+| |- .=+..-+.+...+..... +. +++ .|.+. +
T Consensus 338 y~~NP~s~~aal~~l~~~--~~--~r--~i~VlGlg~----~~~~~~~~~~~~~~~~~~-----d~-vi~--~g~~~~~~ 399 (464)
T TIGR01085 338 YAHTPDALEKALRTLRKH--KD--GR--LIVVFGCGG----DRDRGKRPLMGAIAEQLA-----DL-VIL--TSDNPRGE 399 (464)
T ss_pred CCCCHHHHHHHHHHHHhh--CC--Cc--EEEEECCCC----CCCcchhHHHHHHHHhcC-----CE-EEE--eCCCcCCC
Confidence 467889999999988542 21 22 233555 33 112222444444433221 22 333 24442 2
Q ss_pred HHHHHHHHHHHHhC--CCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 201 TGLAKMRALGEELG--IPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 201 ~g~~~l~~~l~~~g--i~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
....+.+++.+... .++++|. ++++|++.+.+.+++
T Consensus 400 ~~~~~~~~~~~~~~~~~~~~~~~---~~~~a~~~~~~~~~~ 437 (464)
T TIGR01085 400 DPEQIIADILAGISEKEKVVIIA---DRRQAIRYAISNAKA 437 (464)
T ss_pred CHHHHHHHHHhcccCCCcEEEEC---CHHHHHHHHHHhcCC
Confidence 22222233333211 1244444 899999999887653
No 182
>cd06279 PBP1_LacI_like_3 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=22.86 E-value=3.6e+02 Score=23.18 Aligned_cols=104 Identities=14% Similarity=0.081 Sum_probs=54.3
Q ss_pred HHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhh
Q 026236 103 YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESK 182 (241)
Q Consensus 103 tmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~ 182 (241)
..+.+..++.--+.-...+. +.-+.+..++.++-++.. +++..+++ +..|.+|.|+++++++.+.
T Consensus 155 f~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~---~~~~~ai~----------~~~d~~a~gv~~al~~~g~- 219 (283)
T cd06279 155 YLEALEEAGIDISDVPIWEI-PENDRASGEEAARELLDA---SPRPTAIL----------CMSDVLALGALQVARELGL- 219 (283)
T ss_pred HHHHHHHcCCCCChheEEec-CCCchHHHHHHHHHHHcC---CCCCcEEE----------ECCcHHHHHHHHHHHHcCC-
Confidence 35677776211111122332 233445666666555542 23332233 3567799999999999874
Q ss_pred hccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 183 LKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 183 ~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
++| -|+-..++..- - ...++. .+ ..+..+.++.|++++.
T Consensus 220 ----~ip~di~vig~d~~~~~-~--------~~p~~s--ti--~~~~~~~g~~av~~l~ 261 (283)
T cd06279 220 ----RVPEDLSVVGFDGIPEA-R--------LRPGLT--TV--RQPSEEKGRLAARLLL 261 (283)
T ss_pred ----CCCCceEEeeeCCCcce-e--------eCCCCc--ee--cCCHHHHHHHHHHHHH
Confidence 455 34444444321 1 112332 22 2578888888887654
No 183
>cd00587 HCP_like The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved alpha-beta rossman fold domain. HCP, formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. Acetyl-CoA synthase (ACS), is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH) consisting of two ACS and two CODH subunits. CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide and CoA.
Probab=22.75 E-value=1.7e+02 Score=26.75 Aligned_cols=58 Identities=14% Similarity=0.130 Sum_probs=39.3
Q ss_pred eccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 156 GGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 156 ~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
+|.+++..+.-.+|..+.+++..+. -.++|+++-..+.-+|++..+.--. -.+|+|++
T Consensus 158 ~GsCvD~~~ai~~A~~lA~~fg~~~----in~LP~~~~a~~~~sqKAvAi~~g~-l~lGIpv~ 215 (258)
T cd00587 158 MGNCVDNSHAANLALKLANMFGGYD----RSDLPAVASAPGAYSQKAAAIATGA-VFLGVPVH 215 (258)
T ss_pred cccchhHHHHHHHHHHHHHHhCCCC----cccCceEEEccchhhHHHHHHHHHH-HHcCCcee
Confidence 4666545555556666666655111 1389999999999999997776443 34799887
No 184
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=22.65 E-value=96 Score=21.27 Aligned_cols=25 Identities=12% Similarity=0.060 Sum_probs=20.4
Q ss_pred eEEEEecCCChhHHHHHHHHHHHHhCCCe
Q 026236 189 HIFVRRGGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 189 PiVvRl~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
+.++|+...+.+.+ .+.|++.|.++
T Consensus 40 ~~~~rl~~~~~~~~----~~~L~~~G~~v 64 (66)
T cd04908 40 FGILRLIVSDPDKA----KEALKEAGFAV 64 (66)
T ss_pred CCEEEEEECCHHHH----HHHHHHCCCEE
Confidence 47889988887788 88889899764
No 185
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. 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 affinity of the repressor.
Probab=22.54 E-value=4.7e+02 Score=21.95 Aligned_cols=119 Identities=14% Similarity=0.116 Sum_probs=60.4
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++...-+... ..++.++.+ +-++-.-.-+-+..+.++.++.++-++.. .+.+++ ++
T Consensus 117 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~-------- 183 (270)
T cd06296 117 HRRIGFITGPPDLLCSRARLDGYRAALAEA--GIPVDPALVREGDFSTESGFRAAAELLAL-PERPTA--IF-------- 183 (270)
T ss_pred CCcEEEEcCCCcchhHHHHHHHHHHHHHHc--CCCCChHHheeCCCCHHHHHHHHHHHHhC-CCCCcE--EE--------
Confidence 467888754333211 224566666 33322211223445666666666666553 123332 22
Q ss_pred ccccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 161 NFTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
+.-|.+|.|+++++++.+. ++| .|+-..++. ++ .. .+-++.... .+..+..+.|++++
T Consensus 184 --~~~d~~a~~~~~~l~~~g~-----~~p~~i~v~~~d~~~--~~----~~----~~~~~~~i~--~~~~~~g~~a~~~l 244 (270)
T cd06296 184 --AGNDLMALGVYEAARERGL-----RIPEDLSVVGFDDLP--EA----RW----VSPPLTTVR--QPLREMGRAAVRLL 244 (270)
T ss_pred --EcCcHHHHHHHHHHHHhCC-----CCCCceEEEEECChh--hh----cc----cCCCceEec--CCHHHHHHHHHHHH
Confidence 1346689999999999874 444 244444443 22 11 122222222 46777777776654
No 186
>cd04733 OYE_like_2_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=22.38 E-value=2.7e+02 Score=25.69 Aligned_cols=46 Identities=22% Similarity=0.232 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEec-------CCChhHHHHHHHHHHHHhCCCeE
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRG-------GPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~-------Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
...-|++++++.-. .+.||.||+. |...++++++.+. |++.|+.+.
T Consensus 201 f~~EiI~aIR~avG----~d~~v~vris~~~~~~~g~~~eea~~ia~~-Le~~Gvd~i 253 (338)
T cd04733 201 LLLEIYDAIRAAVG----PGFPVGIKLNSADFQRGGFTEEDALEVVEA-LEEAGVDLV 253 (338)
T ss_pred HHHHHHHHHHHHcC----CCCeEEEEEcHHHcCCCCCCHHHHHHHHHH-HHHcCCCEE
Confidence 45568888887532 3799999996 5677888777765 677887544
No 187
>cd02931 ER_like_FMN Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.
Probab=22.38 E-value=2.6e+02 Score=26.54 Aligned_cols=47 Identities=15% Similarity=0.171 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecC---------------------CChhHHHHHHHHHHHHhCCCeE
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGG---------------------PNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G---------------------tn~~~g~~~l~~~l~~~gi~i~ 218 (241)
....-|++++++.-. .+.||.||+.. ...++++++++. |++.|+.+.
T Consensus 202 rf~~eii~~vr~~~g----~~f~v~vri~~~~~~~~~~~~~~~~~~~~~~g~~~e~~~~~~~~-l~~~gvD~l 269 (382)
T cd02931 202 RFAIEIVEEIKARCG----EDFPVSLRYSVKSYIKDLRQGALPGEEFQEKGRDLEEGLKAAKI-LEEAGYDAL 269 (382)
T ss_pred HHHHHHHHHHHHhcC----CCceEEEEEechhhccccccccccccccccCCCCHHHHHHHHHH-HHHhCCCEE
Confidence 355667788877532 36899999983 344677666655 577787654
No 188
>cd02932 OYE_YqiM_FMN Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing agent. The YqjM enzyme exists as a homotetramer that is assembled as a dimer of catalytically dependent dimers, while other OYE members exist only as monomers or dimers. Moreover, the protein displays a shared active site architecture where an arginine finger at the COOH terminus of one monomer extends into the active site of the adjacent monomer and is directly involved in substrate recognition. Another remarkable difference in the binding of the ligand in YqjM is represented by the contribution of the NH2-terminal tyrosine instead of a COOH-terminal tyrosine in OYE and its homologs.
Probab=22.33 E-value=2.8e+02 Score=25.55 Aligned_cols=46 Identities=24% Similarity=0.313 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhhhhhcccceeEEEEec-------CCChhHHHHHHHHHHHHhCCCeE
Q 026236 168 TFNGIIRALREKESKLKAARMHIFVRRG-------GPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 168 iA~GIv~A~~~~~~~~~~~~vPiVvRl~-------Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
...-|++++++.-. .+.||.+|+. |...++++++++. |++.|+.+.
T Consensus 206 f~~eiv~aIR~~vG----~d~~v~vri~~~~~~~~g~~~~e~~~ia~~-Le~~gvd~i 258 (336)
T cd02932 206 FLLEVVDAVRAVWP----EDKPLFVRISATDWVEGGWDLEDSVELAKA-LKELGVDLI 258 (336)
T ss_pred HHHHHHHHHHHHcC----CCceEEEEEcccccCCCCCCHHHHHHHHHH-HHHcCCCEE
Confidence 44567777776431 3789999988 3457777666655 577787644
No 189
>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=22.09 E-value=4.7e+02 Score=21.85 Aligned_cols=80 Identities=15% Similarity=0.041 Sum_probs=43.8
Q ss_pred CccEEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEecccc
Q 026236 87 KGRIWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIA 160 (241)
Q Consensus 87 dG~Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~ 160 (241)
.++|+++..-.+... ...|.+..+ |-.+.++.-..+..+.+..+++++-++.. +++..+++
T Consensus 122 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~-------- 188 (270)
T cd06294 122 HKKIAFVGGDLDLEVTQDRLQGYKQALEDH--GIPDRNEVIISLDFSEEGGYKALKKLLEQ---HPRPTAIV-------- 188 (270)
T ss_pred CccEEEecCCcccHHHHHHHHHHHHHHHHc--CCCCCcceEEecCCchHHHHHHHHHHHhC---CCCCCEEE--------
Confidence 468888853333221 224677666 43333322223444455666666665542 23333233
Q ss_pred ccccHHHHHHHHHHHHHHhhh
Q 026236 161 NFTDVATTFNGIIRALREKES 181 (241)
Q Consensus 161 n~T~~d~iA~GIv~A~~~~~~ 181 (241)
+.-|.+|.|+++|+++.+.
T Consensus 189 --~~~d~~a~g~~~al~~~g~ 207 (270)
T cd06294 189 --ATDDLLALGVLKVLNELGL 207 (270)
T ss_pred --ECChHHHHHHHHHHHHcCC
Confidence 1336688999999999874
No 190
>PLN02565 cysteine synthase
Probab=22.03 E-value=4.2e+02 Score=24.45 Aligned_cols=69 Identities=16% Similarity=0.141 Sum_probs=46.9
Q ss_pred EEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHH
Q 026236 152 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICK 231 (241)
Q Consensus 152 ~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~ 231 (241)
+|--.+|- .+.++.-+.+.++ +|+++-+.-+..++= ++.++..|-.++++++..+++++.+
T Consensus 70 vv~aSsGN--------~g~alA~~a~~~G-------~~~~ivvp~~~~~~k----~~~i~~~GA~V~~~~~~~~~~~~~~ 130 (322)
T PLN02565 70 LIEPTSGN--------TGIGLAFMAAAKG-------YKLIITMPASMSLER----RIILLAFGAELVLTDPAKGMKGAVQ 130 (322)
T ss_pred EEEECCCh--------HHHHHHHHHHHcC-------CeEEEEeCCCCcHHH----HHHHHHcCCEEEEeCCCCCcHHHHH
Confidence 55555554 4566666666654 777777776666666 6667778888877775556678888
Q ss_pred HHHHHhhh
Q 026236 232 QAIDCIMS 239 (241)
Q Consensus 232 ~av~~~~~ 239 (241)
+|.+++++
T Consensus 131 ~a~~l~~~ 138 (322)
T PLN02565 131 KAEEILAK 138 (322)
T ss_pred HHHHHHHh
Confidence 88777654
No 191
>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=21.96 E-value=4.9e+02 Score=21.97 Aligned_cols=86 Identities=13% Similarity=0.025 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEec-CCChhHH
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRG-GPNYQTG 202 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~-Gtn~~~g 202 (241)
+..+....+.+.+.+.+.+. .+.+ +..+ +|..+.+.+.+-.+|+-+++++.+ .++++.... ..+.+++
T Consensus 104 ~~d~~~~g~~~~~~l~~~~~--g~~~--i~~i-~~~~~~~~~~~R~~g~~~a~~~~~------~~~~~~~~~~~~~~~~~ 172 (272)
T cd06300 104 NEDQAEFGKQGAEWLVKELG--GKGN--VLVV-RGLAGHPVDEDRYAGAKEVLKEYP------GIKIVGEVYGDWDQAVA 172 (272)
T ss_pred cCCHHHHHHHHHHHHHHHcC--CCce--EEEE-ECCCCCcchHHHHHHHHHHHHHCC------CcEEEeecCCCCCHHHH
Confidence 44455556778888877521 1222 2233 333333456777899999998764 244443343 4456788
Q ss_pred HHHHHHHHHHhC-CCeEEc
Q 026236 203 LAKMRALGEELG-IPLEVY 220 (241)
Q Consensus 203 ~~~l~~~l~~~g-i~i~~~ 220 (241)
.+.+++++++.. +...++
T Consensus 173 ~~~~~~~l~~~~~~~~i~~ 191 (272)
T cd06300 173 QKAVADFLASNPDVDGIWT 191 (272)
T ss_pred HHHHHHHHHhCCCcCEEEe
Confidence 888888888754 443333
No 192
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=21.82 E-value=4.9e+02 Score=24.20 Aligned_cols=72 Identities=18% Similarity=0.259 Sum_probs=45.7
Q ss_pred EEEEecCchhHH------HHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccc
Q 026236 90 IWTMVAGGGASV------IYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFT 163 (241)
Q Consensus 90 Ig~mvnGaGlaM------atmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T 163 (241)
=..++.|.++.- -..+.+..+ |-+..-|-++..+|+.+.+.++.+.+... +++ .+|=|+||-+
T Consensus 27 r~lvVt~~~~~~~~g~~~~v~~~L~~~--g~~~~~~~~v~~~p~~~~v~~~~~~~~~~---~~D---~IIavGGGSv--- 95 (357)
T cd08181 27 RALIVTGKSSAKKNGSLDDVTKALEEL--GIEYEIFDEVEENPSLETIMEAVEIAKKF---NAD---FVIGIGGGSP--- 95 (357)
T ss_pred EEEEEeCCchHhhcCcHHHHHHHHHHc--CCeEEEeCCCCCCcCHHHHHHHHHHHHhc---CCC---EEEEeCCchH---
Confidence 345566655422 233444444 33555577889999999999999998663 344 3778888863
Q ss_pred cHHHHHHHHHH
Q 026236 164 DVATTFNGIIR 174 (241)
Q Consensus 164 ~~d~iA~GIv~ 174 (241)
-.+|+.|.-
T Consensus 96 --iD~aK~ia~ 104 (357)
T cd08181 96 --LDAAKAIAV 104 (357)
T ss_pred --HHHHHHHHH
Confidence 336676643
No 193
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=21.75 E-value=5.7e+02 Score=22.64 Aligned_cols=94 Identities=16% Similarity=0.135 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccce-eEEEEecCCChhHHHHHH
Q 026236 128 EEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARM-HIFVRRGGPNYQTGLAKM 206 (241)
Q Consensus 128 ~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~v-PiVvRl~Gtn~~~g~~~l 206 (241)
....+.+.+.+++. - +.+..+ |.|. .+.+.+..-.+|+.+++++.+. ++ +..+.......+++.+.+
T Consensus 163 ~~~g~~a~~~L~~~--G--~~~i~~--i~~~-~~~~~~~~R~~Gf~~~l~~~gi-----~~~~~~~~~~~~~~~~~~~~~ 230 (341)
T PRK10703 163 FEGGYLAGRYLIER--G--HRDIGV--IPGP-LERNTGAGRLAGFMKAMEEANI-----KVPEEWIVQGDFEPESGYEAM 230 (341)
T ss_pred HHHHHHHHHHHHHC--C--CCcEEE--EeCC-ccccchHHHHHHHHHHHHHcCC-----CCChHHeEeCCCCHHHHHHHH
Confidence 34567777888764 2 222122 3332 2334566678899999988653 22 222333444567888888
Q ss_pred HHHHHHhC-CCeEEcCCCCCHHHHHHHHH
Q 026236 207 RALGEELG-IPLEVYGPEATMTGICKQAI 234 (241)
Q Consensus 207 ~~~l~~~g-i~i~~~~~~~~m~eav~~av 234 (241)
+++++... +...++. .+.+.-++-.++
T Consensus 231 ~~~l~~~~~~~ai~~~-nd~~a~g~~~al 258 (341)
T PRK10703 231 QQILSQKHRPTAVFCG-GDIMAMGAICAA 258 (341)
T ss_pred HHHHhCCCCCCEEEEC-CcHHHHHHHHHH
Confidence 88887643 3334433 223333444444
No 194
>cd06316 PBP1_ABC_sugar_binding_like_7 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=21.68 E-value=5.3e+02 Score=22.27 Aligned_cols=86 Identities=15% Similarity=0.169 Sum_probs=46.6
Q ss_pred CCccEEEEecCch--h----HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 86 PKGRIWTMVAGGG--A----SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 86 ~dG~Ig~mvnGaG--l----aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
..|+|+++..-.+ . .....+.+..+ +. ..+.+...+..+.+.-++.++-+++. +++..+++
T Consensus 125 g~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~ai~------- 191 (294)
T cd06316 125 GKGKVGLIYHGADYFVTNQRDQGFKETIKKN--YP-DITIVAEKGIDGPSKAEDIANAMLTQ---NPDLKGIY------- 191 (294)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHHh--CC-CcEEEeecCCcchhHHHHHHHHHHHh---CCCeeEEE-------
Confidence 3689998853221 1 13445667655 32 22444443333345556666666653 23333223
Q ss_pred cccccHHHHHHHHHHHHHHhhhhhcccceeEE
Q 026236 160 ANFTDVATTFNGIIRALREKESKLKAARMHIF 191 (241)
Q Consensus 160 ~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiV 191 (241)
..-|.+|.|+++++++.+. .+++|+
T Consensus 192 ---~~~d~~a~g~~~~l~~~g~----~di~vv 216 (294)
T cd06316 192 ---AVWDVPAEGVIAALRAAGR----DDIKVT 216 (294)
T ss_pred ---eCCCchhHHHHHHHHHcCC----CCceEE
Confidence 1225579999999999874 255544
No 195
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta 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.
Probab=21.66 E-value=5e+02 Score=21.96 Aligned_cols=88 Identities=13% Similarity=0.144 Sum_probs=0.0
Q ss_pred CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhccc--ceeEEEEecCCChhH
Q 026236 124 GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAA--RMHIFVRRGGPNYQT 201 (241)
Q Consensus 124 G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~--~vPiVvRl~Gtn~~~ 201 (241)
+..+.+..+..++-++.. +++..+++ +..|.+|.|+++|+++.+ . +++|+ .-.+...
T Consensus 162 ~~~~~~~~~~~~~~~l~~---~~~~~ai~----------~~~d~~a~~~~~al~~~g-----~~~di~vi---g~d~~~~ 220 (275)
T cd06320 162 ADWDREKAYDVATTILQR---NPDLKAIY----------CNNDTMALGVVEAVKNAG-----KQGKVLVV---GTDGIPE 220 (275)
T ss_pred CCccHHHHHHHHHHHHHh---CCCccEEE----------ECCchhHHHHHHHHHhcC-----CCCCeEEE---ecCCCHH
Q ss_pred HHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHhhh
Q 026236 202 GLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCIMS 239 (241)
Q Consensus 202 g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~~~ 239 (241)
+ ...+..-.+-..+.. +..+..+.|++++.+
T Consensus 221 ~----~~~i~~~~~~~ti~~---~~~~~g~~a~~~l~~ 251 (275)
T cd06320 221 A----YKSIRAGELTATVDS---FPALIGEVAMEVMLR 251 (275)
T ss_pred H----HHHHHcCCeeEEecc---CHHHHHHHHHHHHHH
No 196
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=21.62 E-value=3e+02 Score=24.98 Aligned_cols=140 Identities=11% Similarity=0.204 Sum_probs=63.0
Q ss_pred cceEEecCCccEEEEecCchh--HH-HHHHHHHhhc--cCCC-----CcceeccCCCCCHHHHHHHH-------HHHhhc
Q 026236 79 LKFTVLNPKGRIWTMVAGGGA--SV-IYADTVGDLG--YASE-----LGNYAEYSGAPNEEEVLQYA-------RVVIDC 141 (241)
Q Consensus 79 l~yv~L~~dG~Ig~mvnGaGl--aM-atmD~i~~~~--~gg~-----pANFlD~GG~a~~~~v~~a~-------~iil~~ 141 (241)
+.||. .-||+|=.= ||= +| -|..+-+.++ +|.. ..||-=-.=..+++.++..+ +-+...
T Consensus 24 mp~I~---saNIACG~H-AGDp~~M~~tv~lA~~~gV~iGAHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~a~~ 99 (242)
T PF03746_consen 24 MPYIS---SANIACGFH-AGDPETMRRTVRLAKEHGVAIGAHPSYPDREGFGRRSMDISPEELRDSVLYQIGALQAIAAA 99 (242)
T ss_dssp TTT-S---EEEEE-SSS-S--HHHHHHHHHHHHHTT-EEEEE---S-TTTTT-S-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhh---hHHHhhccc-ccCHHHHHHHHHHHHHcCCEeccCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45665 377877322 343 33 2344444443 2333 34554433445666655432 223222
Q ss_pred ccCCCCcceEEEEEeccccccc-cHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeE--
Q 026236 142 ATADPDGRKRALLIGGGIANFT-DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLE-- 218 (241)
Q Consensus 142 ~~~~~~~~~i~inI~GGI~n~T-~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~-- 218 (241)
...+ .-.|--.|-.-|-. +=.++|+.|+++++++.+ ++|+++ +.|+..++. -++.|+++.
T Consensus 100 --~g~~--l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~-----~l~l~~-~ags~~~~~-------A~~~Gl~~~~E 162 (242)
T PF03746_consen 100 --EGVP--LHHVKPHGALYNMAAKDEELARAIAEAIKAFDP-----DLPLYG-LAGSELEKA-------AKELGLPVVFE 162 (242)
T ss_dssp --TT----EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-T-----T-EEEE-ETTSHHHHH-------HHHCT--EEEE
T ss_pred --cCCe--eEEecccHHHHHHHhcCHHHHHHHHHHHHHhCC-----CcEEEE-cCCcHHHHH-------HHHCCCcEEEE
Confidence 1222 22444456332211 334689999999999984 777665 556654333 345687764
Q ss_pred Ec-----CCC-------------CCHHHHHHHHHHHhhh
Q 026236 219 VY-----GPE-------------ATMTGICKQAIDCIMS 239 (241)
Q Consensus 219 ~~-----~~~-------------~~m~eav~~av~~~~~ 239 (241)
+| ... ++-++++++++.++++
T Consensus 163 ~FADR~Y~~dG~Lv~R~~~gAvi~d~~~~~~q~~~~~~~ 201 (242)
T PF03746_consen 163 AFADRAYDDDGSLVPRSQPGAVIHDPEEAAEQVLQMVKE 201 (242)
T ss_dssp EETTBEB-TTSSBEETTSTTCB---HHHHHHHHHHHHHC
T ss_pred EEEcccCcCCCCEeecCCCCCccCCHHHHHHHHHHHHhC
Confidence 11 111 3678899999888764
No 197
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=21.25 E-value=5.6e+02 Score=23.57 Aligned_cols=13 Identities=15% Similarity=0.314 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHh
Q 026236 167 TTFNGIIRALREK 179 (241)
Q Consensus 167 ~iA~GIv~A~~~~ 179 (241)
++++++++|.++.
T Consensus 27 e~~~avi~AAee~ 39 (282)
T TIGR01858 27 ETIQAVVETAAEM 39 (282)
T ss_pred HHHHHHHHHHHHh
Confidence 3445555555444
No 198
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=21.21 E-value=4.6e+02 Score=25.07 Aligned_cols=61 Identities=16% Similarity=0.264 Sum_probs=41.6
Q ss_pred cHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 164 DVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 164 ~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
.-|-+|.|+|.|++..+.. -++| ++|...+.+ -||.|..... .+.+|. +..+.++.|++++
T Consensus 224 ~nDgtagGaI~aL~a~Gl~---g~vp----VsGQDAd~a--alk~I~~GtQ-~~TV~K---~~~~lA~~aa~ia 284 (341)
T COG4213 224 PNDGTAGGAIAALKAQGLA---GKVP----VSGQDADLA--ALKRIAAGTQ-TMTVYK---DTRELAKEAAEIA 284 (341)
T ss_pred CCCchhHHHHHHHHhcccC---CCCc----ccCcccchH--HHHHHhcCCc-eEEeec---cHHHHHHHHHHHH
Confidence 3467799999999998864 2678 678777665 4566665542 345665 6777666666554
No 199
>PRK07565 dihydroorotate dehydrogenase 2; Reviewed
Probab=21.16 E-value=6.4e+02 Score=23.23 Aligned_cols=85 Identities=19% Similarity=0.200 Sum_probs=44.6
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEec--ccccc--ccHHHHHHHHHHHHHHhhhhhcccceeEEEEe
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGG--GIANF--TDVATTFNGIIRALREKESKLKAARMHIFVRR 194 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~G--GI~n~--T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl 194 (241)
+.-++|. +.+...++.+.+-+ ..+..+-+|++- +-... ........-+++++++. .++||+|++
T Consensus 105 i~sI~g~-~~~e~~~~a~~~~~-----agad~ielN~scpp~~~~~~g~~~~~~~~eil~~v~~~------~~iPV~vKl 172 (334)
T PRK07565 105 IASLNGS-SAGGWVDYARQIEQ-----AGADALELNIYYLPTDPDISGAEVEQRYLDILRAVKSA------VSIPVAVKL 172 (334)
T ss_pred EEEeccC-CHHHHHHHHHHHHH-----cCCCEEEEeCCCCCCCCCCccccHHHHHHHHHHHHHhc------cCCcEEEEe
Confidence 5666664 55666666666533 223456778741 00000 01112234555666554 279999999
Q ss_pred cCCChhHHHHHHHHHHHHhCCCe
Q 026236 195 GGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 195 ~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
.+.- .+ ..-+.+.+++.|+.-
T Consensus 173 ~p~~-~~-~~~~a~~l~~~G~dg 193 (334)
T PRK07565 173 SPYF-SN-LANMAKRLDAAGADG 193 (334)
T ss_pred CCCc-hh-HHHHHHHHHHcCCCe
Confidence 8743 21 122245577788763
No 200
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=21.07 E-value=4e+02 Score=24.29 Aligned_cols=63 Identities=19% Similarity=0.297 Sum_probs=47.0
Q ss_pred CHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHHHH
Q 026236 127 NEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLAKM 206 (241)
Q Consensus 127 ~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~~l 206 (241)
+.+.+.++++..++. ++ +|...||+= =|.=|.+++++.+|+. +|+|. + +++++.+
T Consensus 46 ~~~~I~~~l~~a~~r----~D----~vI~tGGLG-PT~DDiT~e~vAka~g----------~~lv~-----~-~~al~~i 100 (255)
T COG1058 46 NPDRIVEALREASER----AD----VVITTGGLG-PTHDDLTAEAVAKALG----------RPLVL-----D-EEALAMI 100 (255)
T ss_pred CHHHHHHHHHHHHhC----CC----EEEECCCcC-CCccHhHHHHHHHHhC----------CCccc-----C-HHHHHHH
Confidence 578899999998774 33 466678763 3777889999999884 55555 2 8888888
Q ss_pred HHHHHHhC
Q 026236 207 RALGEELG 214 (241)
Q Consensus 207 ~~~l~~~g 214 (241)
++..++.|
T Consensus 101 ~~~~~~r~ 108 (255)
T COG1058 101 EEKYAKRG 108 (255)
T ss_pred HHHHHhcC
Confidence 88777766
No 201
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=21.02 E-value=2.4e+02 Score=21.91 Aligned_cols=87 Identities=10% Similarity=0.048 Sum_probs=47.0
Q ss_pred HHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCCh-hHHHHHHHHH
Q 026236 131 VLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNY-QTGLAKMRAL 209 (241)
Q Consensus 131 v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~-~~g~~~l~~~ 209 (241)
...+..++.+. +++-++++.+=+ .-...+.++++.+++.+. ++||++=..-... +-- .+.
T Consensus 26 ~dd~~~~i~~~----~~i~avvi~~d~------~~~~~~~~ll~~i~~~~~-----~iPVFl~~~~~~~~~l~----~~~ 86 (115)
T PF03709_consen 26 TDDALAIIESF----TDIAAVVISWDG------EEEDEAQELLDKIRERNF-----GIPVFLLAERDTTEDLP----AEV 86 (115)
T ss_dssp HHHHHHHHHCT----TTEEEEEEECHH------HHHHHHHHHHHHHHHHST-----T-EEEEEESCCHHHCCC----HHH
T ss_pred hHHHHHHHHhC----CCeeEEEEEccc------ccchhHHHHHHHHHHhCC-----CCCEEEEecCCCcccCC----HHH
Confidence 34555666554 444334443220 222788999999999884 8998885553211 111 122
Q ss_pred HHHhCCCeEEcCCCCCHHHHHHHHHHHhh
Q 026236 210 GEELGIPLEVYGPEATMTGICKQAIDCIM 238 (241)
Q Consensus 210 l~~~gi~i~~~~~~~~m~eav~~av~~~~ 238 (241)
+... .=++.-.+.+-+-.+++....+.
T Consensus 87 l~~v--~~~i~l~~~t~~fia~rI~~Aa~ 113 (115)
T PF03709_consen 87 LGEV--DGFIWLFEDTAEFIARRIEAAAR 113 (115)
T ss_dssp HCCE--SEEEETTTTTHHHHHHHHHHHHH
T ss_pred Hhhc--cEEEEecCCCHHHHHHHHHHHHH
Confidence 2221 11233345677778877776654
No 202
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=20.95 E-value=5.7e+02 Score=22.41 Aligned_cols=60 Identities=23% Similarity=0.381 Sum_probs=35.2
Q ss_pred CCCCcceeccCCCCCHHHHHHHHHHHh---hc----ccCCCCcceEEEEEeccccccccHHHHHHHHHHHHH
Q 026236 113 ASELGNYAEYSGAPNEEEVLQYARVVI---DC----ATADPDGRKRALLIGGGIANFTDVATTFNGIIRALR 177 (241)
Q Consensus 113 gg~pANFlD~GG~a~~~~v~~a~~iil---~~----~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~ 177 (241)
|-+..-|.++-|.-+.+++.+-++..- +- .....-+| .+|.|+||- ++.++|.|-+.-..
T Consensus 41 g~~~~iYmEiEgi~d~e~l~~~lks~d~v~ev~i~~sle~iyGK-RvIiiGGGA----qVsqVA~GAIsEAD 107 (218)
T COG1707 41 GEKALIYMEIEGIDDFEKLLERLKSFDYVIEVEIHRSLEEIYGK-RVIIIGGGA----QVSQVARGAISEAD 107 (218)
T ss_pred CceEEEEEEeeCCCCHHHHHHHhhccceEEEeeecchHHHHhCc-EEEEECCch----hHHHHHHhhcchhh
Confidence 446677888888888888776655431 00 00111122 355666665 78888887544333
No 203
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.71 E-value=1.4e+02 Score=20.36 Aligned_cols=27 Identities=11% Similarity=-0.138 Sum_probs=20.9
Q ss_pred eeEEEEecCCChhHHHHHHHHHHHHhCCCeE
Q 026236 188 MHIFVRRGGPNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 188 vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i~ 218 (241)
.-+++|+.+.+.++. ++.|++.|..+.
T Consensus 43 ~~v~i~v~~~~~~~~----~~~L~~~G~~v~ 69 (72)
T cd04883 43 KILVFRVQTMNPRPI----IEDLRRAGYEVL 69 (72)
T ss_pred EEEEEEEecCCHHHH----HHHHHHCCCeee
Confidence 448999999887766 777888897543
No 204
>cd03008 TryX_like_RdCVF Tryparedoxin (TryX)-like family, Rod-derived cone viability factor (RdCVF) subfamily; RdCVF is a thioredoxin (TRX)-like protein specifically expressed in photoreceptors. RdCVF was isolated and identified as a factor that supports cone survival in retinal cultures. Cone photoreceptor loss is responsible for the visual handicap resulting from the inherited disease, retinitis pigmentosa. RdCVF shows 33% similarity to TRX but does not exhibit any detectable thiol oxidoreductase activity.
Probab=20.69 E-value=4.8e+02 Score=21.44 Aligned_cols=66 Identities=8% Similarity=0.077 Sum_probs=42.4
Q ss_pred CCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhh---cccceeEEEEecCCChhHHHHHHHHHHHHhCCCe
Q 026236 146 PDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKL---KAARMHIFVRRGGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 146 ~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~---~~~~vPiVvRl~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
-+++.++||+...-+ ..|....-.+.+..+++..+. ...++.+|.-=...++++. ++.+++.+++.
T Consensus 23 ~kgk~vlL~FwAsWC--ppCr~e~P~L~~ly~~~~~~~~~~~~~~~~vV~Vs~D~~~~~~----~~f~~~~~~~~ 91 (146)
T cd03008 23 LENRVLLLFFGAVVS--PQCQLFAPKLKDFFVRLTDEFYVDRSAQLALVYVSMDQSEQQQ----ESFLKDMPKKW 91 (146)
T ss_pred hCCCEEEEEEECCCC--hhHHHHHHHHHHHHHHHHhhcccccCCCEEEEEEECCCCHHHH----HHHHHHCCCCc
Confidence 456678999998654 789988888887777665321 1113554443334444555 88888888764
No 205
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=20.66 E-value=6.5e+02 Score=24.46 Aligned_cols=72 Identities=21% Similarity=0.281 Sum_probs=51.6
Q ss_pred EEEEEeccccccccHHHH-HHHHHHHHHHhhhhhcccceeEEEEecCCCh--hHHHHHHHHHHHHhCCC--eE---EcCC
Q 026236 151 RALLIGGGIANFTDVATT-FNGIIRALREKESKLKAARMHIFVRRGGPNY--QTGLAKMRALGEELGIP--LE---VYGP 222 (241)
Q Consensus 151 i~inI~GGI~n~T~~d~i-A~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~--~~g~~~l~~~l~~~gi~--i~---~~~~ 222 (241)
+++.||| ||-+.+ ..-++.|+++.+ +++..|=.+|-+. +-. ...++..+|+ .+ +-.+
T Consensus 5 Kv~~I~G-----TRPE~iKmapli~~~~~~~------~~~~~vi~TGQH~d~em~----~~~le~~~i~~pdy~L~i~~~ 69 (383)
T COG0381 5 KVLTIFG-----TRPEAIKMAPLVKALEKDP------DFELIVIHTGQHRDYEML----DQVLELFGIRKPDYDLNIMKP 69 (383)
T ss_pred EEEEEEe-----cCHHHHHHhHHHHHHHhCC------CCceEEEEecccccHHHH----HHHHHHhCCCCCCcchhcccc
Confidence 3678899 898877 556888888875 5888888899998 555 8888888886 11 2222
Q ss_pred CCCHHHHHHHHHHHh
Q 026236 223 EATMTGICKQAIDCI 237 (241)
Q Consensus 223 ~~~m~eav~~av~~~ 237 (241)
-.++.+....++.-.
T Consensus 70 ~~tl~~~t~~~i~~~ 84 (383)
T COG0381 70 GQTLGEITGNIIEGL 84 (383)
T ss_pred CCCHHHHHHHHHHHH
Confidence 357788777766544
No 206
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=20.61 E-value=4e+02 Score=21.33 Aligned_cols=61 Identities=10% Similarity=-0.012 Sum_probs=42.8
Q ss_pred cceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecC
Q 026236 117 GNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGG 196 (241)
Q Consensus 117 ANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G 196 (241)
-||+=+....+.+.+.++|+-++.+ ++. +|++ =+..+|+-|-.-++++. ..+|.|+=+.+
T Consensus 34 ~nf~~v~~~t~~eei~~~~~~~l~~--~di---gIIl----------Ite~~a~~i~~~I~~~~-----~~~PaIieIP~ 93 (115)
T TIGR01101 34 PNFLVVDKNTTVSEIEDCFNRFLKR--DDI---AIIL----------INQHIAEMIRHAVDAHT-----RSIPAVLEIPS 93 (115)
T ss_pred cceeeecCCCCHHHHHHHHHHHhhc--CCe---EEEE----------EcHHHHHHhHHHHHhcC-----CcCCEEEEECC
Confidence 6899888888899999999997775 332 2221 13446666666666654 37999998888
Q ss_pred C
Q 026236 197 P 197 (241)
Q Consensus 197 t 197 (241)
.
T Consensus 94 k 94 (115)
T TIGR01101 94 K 94 (115)
T ss_pred C
Confidence 3
No 207
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=20.57 E-value=5.9e+02 Score=22.44 Aligned_cols=116 Identities=9% Similarity=-0.038 Sum_probs=60.6
Q ss_pred ccEEEEecCch-h-----HHHHHHHHHhhccCCCCcceeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccc
Q 026236 88 GRIWTMVAGGG-A-----SVIYADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN 161 (241)
Q Consensus 88 G~Ig~mvnGaG-l-----aMatmD~i~~~~~gg~pANFlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n 161 (241)
.+|+++. |-. . .....+.+..+ |-.+-.+. +-+..+.+.-+++++-+++. .+.+.+ +|
T Consensus 181 ~~I~~i~-~~~~~~~~~R~~Gf~~al~~~--g~~~~~~~-~~~~~~~~~~~~~~~~~l~~-~~~~~a--i~--------- 244 (331)
T PRK14987 181 RHIAYLG-ARLDERTIIKQKGYEQAMLDA--GLVPYSVM-VEQSSSYSSGIELIRQARRE-YPQLDG--VF--------- 244 (331)
T ss_pred ceEEEEc-CCCcccHHHHHHHHHHHHHHc--CCCcccee-ecCCCChhhHHHHHHHHHhc-CCCCCE--EE---------
Confidence 5888873 211 1 13345777777 43332222 12333445555566655553 122332 33
Q ss_pred cccHHHHHHHHHHHHHHhhhhhccccee---EEEEecCCChhHHHHHHHHHHHHhCCCeEEcCCCCCHHHHHHHHHHHh
Q 026236 162 FTDVATTFNGIIRALREKESKLKAARMH---IFVRRGGPNYQTGLAKMRALGEELGIPLEVYGPEATMTGICKQAIDCI 237 (241)
Q Consensus 162 ~T~~d~iA~GIv~A~~~~~~~~~~~~vP---iVvRl~Gtn~~~g~~~l~~~l~~~gi~i~~~~~~~~m~eav~~av~~~ 237 (241)
...|.+|.|+++|+++.+. ++| -|+-..+.. .+ +.+. -.+.. + ..+..+..+.|++++
T Consensus 245 -~~nD~~A~g~~~al~~~g~-----~vP~disvigfD~~~--~~-----~~~~-p~ltt-v---~~~~~~~g~~A~~~l 305 (331)
T PRK14987 245 -CTNDDLAVGAAFECQRLGL-----KVPDDMAIAGFHGHD--IG-----QVME-PRLAS-V---LTPRERMGSIGAERL 305 (331)
T ss_pred -ECCcHHHHHHHHHHHHcCC-----CCCCccEEEeeCCch--hh-----hccC-CCCce-E---eCCHHHHHHHHHHHH
Confidence 3568899999999999874 677 344444432 22 1111 12321 2 246777777777654
No 208
>PRK12822 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=20.43 E-value=7.8e+02 Score=23.72 Aligned_cols=21 Identities=29% Similarity=0.441 Sum_probs=17.8
Q ss_pred ChhHHHHHHHHH---HHHhCCCeE
Q 026236 198 NYQTGLAKMRAL---GEELGIPLE 218 (241)
Q Consensus 198 n~~~g~~~l~~~---l~~~gi~i~ 218 (241)
+.++|++++|++ +.+.|+|+-
T Consensus 118 ~i~~GL~i~R~ll~~~~~~GlPva 141 (356)
T PRK12822 118 DIEKGLRLARQLLLSINTLGLATA 141 (356)
T ss_pred cHHHHHHHHHHHHHHHHHhCCCEE
Confidence 348999999999 888999975
No 209
>cd04747 OYE_like_5_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=20.33 E-value=3.2e+02 Score=25.96 Aligned_cols=47 Identities=13% Similarity=0.112 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhhhhhcccceeEEEEecC-----------CChhHHHHHHHHHHHHhCCCeE
Q 026236 167 TTFNGIIRALREKESKLKAARMHIFVRRGG-----------PNYQTGLAKMRALGEELGIPLE 218 (241)
Q Consensus 167 ~iA~GIv~A~~~~~~~~~~~~vPiVvRl~G-----------tn~~~g~~~l~~~l~~~gi~i~ 218 (241)
....-|++++++.-. .+.||.||+.+ ...++..++++. |++.|+.+.
T Consensus 195 Rf~~eii~air~~vG----~d~~v~vRis~~~~~~~~~~~g~~~~e~~~~~~~-l~~~gvd~i 252 (361)
T cd04747 195 RFAAEVVKAIRAAVG----PDFPIILRFSQWKQQDYTARLADTPDELEALLAP-LVDAGVDIF 252 (361)
T ss_pred HHHHHHHHHHHHHcC----CCCeEEEEECcccccccccCCCCCHHHHHHHHHH-HHHcCCCEE
Confidence 366778888888531 37899999995 233455444443 677787654
No 210
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=20.32 E-value=6.6e+02 Score=23.03 Aligned_cols=65 Identities=23% Similarity=0.281 Sum_probs=44.2
Q ss_pred EEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCC---hhHHHHHHHHHHHHhCCCeEEcCCCCCHHH
Q 026236 152 ALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPN---YQTGLAKMRALGEELGIPLEVYGPEATMTG 228 (241)
Q Consensus 152 ~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn---~~~g~~~l~~~l~~~gi~i~~~~~~~~m~e 228 (241)
++|-.+ -+.+++-.-+++|.++-+ .|+||.--. +-.-++.|++ |++.|||+++.-..+++..
T Consensus 53 i~nSa~-----~tLeeIi~~m~~a~~~Gk---------~VvRLhSGDpsiYgA~~EQm~~-L~~~gI~yevvPGVss~~A 117 (254)
T COG2875 53 IVNSAS-----LTLEEIIDLMVDAVREGK---------DVVRLHSGDPSIYGALAEQMRE-LEALGIPYEVVPGVSSFAA 117 (254)
T ss_pred EEecCc-----CCHHHHHHHHHHHHHcCC---------eEEEeecCChhHHHHHHHHHHH-HHHcCCCeEEeCCchHHHH
Confidence 677655 367888888888888754 599997543 2233445555 6888999997765566665
Q ss_pred HHH
Q 026236 229 ICK 231 (241)
Q Consensus 229 av~ 231 (241)
|+.
T Consensus 118 AAA 120 (254)
T COG2875 118 AAA 120 (254)
T ss_pred HHH
Confidence 543
No 211
>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=20.26 E-value=3.3e+02 Score=20.40 Aligned_cols=16 Identities=25% Similarity=0.221 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHhCCC
Q 026236 201 TGLAKMRALGEELGIP 216 (241)
Q Consensus 201 ~g~~~l~~~l~~~gi~ 216 (241)
-|+..+..+|++.|..
T Consensus 15 lGl~~la~~l~~~G~~ 30 (121)
T PF02310_consen 15 LGLLYLAAYLRKAGHE 30 (121)
T ss_dssp HHHHHHHHHHHHTTBE
T ss_pred HHHHHHHHHHHHCCCe
Confidence 3333333333333333
No 212
>cd06316 PBP1_ABC_sugar_binding_like_7 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=20.25 E-value=5.7e+02 Score=22.07 Aligned_cols=14 Identities=7% Similarity=-0.128 Sum_probs=7.5
Q ss_pred hhHHHHHHHHHHHH
Q 026236 199 YQTGLAKMRALGEE 212 (241)
Q Consensus 199 ~~~g~~~l~~~l~~ 212 (241)
.+++.+.++++|+.
T Consensus 170 ~~~~~~~~~~~l~~ 183 (294)
T cd06316 170 PSKAEDIANAMLTQ 183 (294)
T ss_pred hhHHHHHHHHHHHh
Confidence 45555555555554
No 213
>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=20.22 E-value=5.4e+02 Score=21.80 Aligned_cols=95 Identities=8% Similarity=-0.038 Sum_probs=52.7
Q ss_pred CCHHHHHHHHHHHhh-cccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHH
Q 026236 126 PNEEEVLQYARVVID-CATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA 204 (241)
Q Consensus 126 a~~~~v~~a~~iil~-~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~ 204 (241)
.+.+..+.+.+.+.+ . .. .+ +..+.| -.+...+..-.+|+.+++++++ +++...-...+.+.+.+
T Consensus 107 d~~~~g~~~~~~l~~~~---g~-~~--i~~i~g-~~~~~~~~~r~~g~~~~~~~~~-------~~~~~~~~~~~~~~~~~ 172 (271)
T cd06312 107 DEYAAGEAAGERLAELK---GG-KN--VLCVIH-EPGNVTLEDRCAGFADGLGGAG-------ITEEVIETGADPTEVAS 172 (271)
T ss_pred ChHHHHHHHHHHHHHhc---CC-Ce--EEEEec-CCCCccHHHHHHHHHHHHHhcC-------ceeeEeecCCCHHHHHH
Confidence 445667778888877 3 12 22 333333 2222334556789999998764 33222334556678878
Q ss_pred HHHHHHHHhC-CCeEEcCCCCCHHHHHHHHHH
Q 026236 205 KMRALGEELG-IPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 205 ~l~~~l~~~g-i~i~~~~~~~~m~eav~~av~ 235 (241)
.++++|+... +... |...+.+...+-++++
T Consensus 173 ~~~~~l~~~~~~~aI-~~~~d~~a~g~~~al~ 203 (271)
T cd06312 173 RIAAYLRANPDVDAV-LTLGAPSAAPAAKALK 203 (271)
T ss_pred HHHHHHHhCCCccEE-EEeCCccchHHHHHHH
Confidence 8888887643 3433 3223455555544444
No 214
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=20.16 E-value=6.3e+02 Score=22.55 Aligned_cols=84 Identities=23% Similarity=0.262 Sum_probs=48.6
Q ss_pred eeccCCCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccc-----c-ccHHHHHHHHHHHHHHhhhhhcccceeEEE
Q 026236 119 YAEYSGAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGIAN-----F-TDVATTFNGIIRALREKESKLKAARMHIFV 192 (241)
Q Consensus 119 FlD~GG~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n-----~-T~~d~iA~GIv~A~~~~~~~~~~~~vPiVv 192 (241)
..-++|. +.+...++++.+.+. .. ..+=||+.-=..| + .+. ....-|++++++.- ++||.|
T Consensus 93 ivsi~g~-~~~~~~~~a~~~~~~---G~--d~iElN~~cP~~~~~g~~~~~~~-~~~~eiv~~vr~~~------~~Pv~v 159 (296)
T cd04740 93 IASIAGS-TVEEFVEVAEKLADA---GA--DAIELNISCPNVKGGGMAFGTDP-EAVAEIVKAVKKAT------DVPVIV 159 (296)
T ss_pred EEEEecC-CHHHHHHHHHHHHHc---CC--CEEEEECCCCCCCCCcccccCCH-HHHHHHHHHHHhcc------CCCEEE
Confidence 4555554 467888888877442 23 3356776410000 0 122 35566888888763 699999
Q ss_pred EecCCChhHHHHHHHHHHHHhCCCe
Q 026236 193 RRGGPNYQTGLAKMRALGEELGIPL 217 (241)
Q Consensus 193 Rl~Gtn~~~g~~~l~~~l~~~gi~i 217 (241)
|+.. +.++..++.+ .+++.|...
T Consensus 160 Kl~~-~~~~~~~~a~-~~~~~G~d~ 182 (296)
T cd04740 160 KLTP-NVTDIVEIAR-AAEEAGADG 182 (296)
T ss_pred EeCC-CchhHHHHHH-HHHHcCCCE
Confidence 9964 4444444443 466778763
No 215
>COG0399 WecE Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]
Probab=20.11 E-value=2.2e+02 Score=27.44 Aligned_cols=47 Identities=6% Similarity=-0.010 Sum_probs=31.8
Q ss_pred HHHHHHHhhccCCCCcceeccC---CCCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccc
Q 026236 102 IYADTVGDLGYASELGNYAEYS---GAPNEEEVLQYARVVIDCATADPDGRKRALLIGGGI 159 (241)
Q Consensus 102 atmD~i~~~~~gg~pANFlD~G---G~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI 159 (241)
+|.-.|.+. |.+|- |.|+= .+-+++++.+++. +.+|++ +.|.++|-.
T Consensus 86 ATan~i~~~--Ga~PV-FvDid~~T~nid~~~ie~aIt-------~~tKAI-ipVhl~G~~ 135 (374)
T COG0399 86 ATANAVLLV--GAKPV-FVDIDPDTLNIDPDLIEAAIT-------PRTKAI-IPVHLAGQP 135 (374)
T ss_pred HHHHHHHHc--CCeEE-EEecCCcccCCCHHHHHHHcc-------cCCeEE-EEehhccCC
Confidence 455666666 67775 78876 7788888887765 446653 566777743
No 216
>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=20.05 E-value=5.2e+02 Score=21.51 Aligned_cols=100 Identities=12% Similarity=0.076 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHHhhcccCCCCcceEEEEEeccccccccHHHHHHHHHHHHHHhhhhhcccceeEEEEecCCChhHHHH
Q 026236 125 APNEEEVLQYARVVIDCATADPDGRKRALLIGGGIANFTDVATTFNGIIRALREKESKLKAARMHIFVRRGGPNYQTGLA 204 (241)
Q Consensus 125 ~a~~~~v~~a~~iil~~~~~~~~~~~i~inI~GGI~n~T~~d~iA~GIv~A~~~~~~~~~~~~vPiVvRl~Gtn~~~g~~ 204 (241)
.-+.+..+.+.+.+.+. ..+ + +.-+.|...+.+.+..--+|+.+++++.+.. -.+.++...+...+++.+
T Consensus 98 ~d~~~~g~~~~~~l~~~---g~~-~--i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~ 167 (267)
T cd06283 98 LDNYEAAKEAVDHLIEK---GYE-R--ILFVTEPLDEISPRMERYEGFKEALAEHGIG----VNEELIEIDDEDADELDE 167 (267)
T ss_pred eccHHHHHHHHHHHHHc---CCC-c--EEEEecCccccccHHHHHHHHHHHHHHcCCC----CCcceeEecccchHHHHH
Confidence 34456677777887764 222 2 2333443321234556678888898876520 112234445555677777
Q ss_pred HHHHHHHHhC-CCeEEcCCCCCHHHHHHHHHH
Q 026236 205 KMRALGEELG-IPLEVYGPEATMTGICKQAID 235 (241)
Q Consensus 205 ~l~~~l~~~g-i~i~~~~~~~~m~eav~~av~ 235 (241)
.++++++... +...++. ...+...+-+++.
T Consensus 168 ~~~~~l~~~~~~~ai~~~-~d~~a~g~~~~l~ 198 (267)
T cd06283 168 RLRQLLNKPKKKTAIFAA-NGLILLEVLKALK 198 (267)
T ss_pred HHHHHHcCCCCCCEEEEc-CcHHHHHHHHHHH
Confidence 7788776543 3333332 3455555555544
Done!