Query 042693
Match_columns 71
No_of_seqs 100 out of 360
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 08:33:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042693hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00117 rpoC2 RNA polymerase 99.9 6E-27 1.3E-31 199.2 6.9 69 2-71 1073-1154(1364)
2 TIGR02388 rpoC2_cyan DNA-direc 99.9 3.9E-25 8.6E-30 186.9 7.0 65 1-65 917-994 (1227)
3 PRK02597 rpoC2 DNA-directed RN 99.9 2.6E-24 5.7E-29 182.9 5.1 65 1-65 919-996 (1331)
4 PRK14844 bifunctional DNA-dire 99.6 3.4E-16 7.3E-21 139.7 2.7 52 15-66 2520-2571(2836)
5 PRK09603 bifunctional DNA-dire 99.6 1.4E-15 3E-20 136.0 4.8 59 7-65 2602-2662(2890)
6 TIGR02386 rpoC_TIGR DNA-direct 98.3 1.5E-07 3.2E-12 80.8 1.5 21 46-66 904-924 (1140)
7 cd00630 RNAP_largest_subunit_C 98.3 6.3E-08 1.4E-12 67.2 -1.9 35 34-68 20-54 (158)
8 PRK14906 DNA-directed RNA poly 98.3 2.8E-07 6.1E-12 80.6 1.6 25 42-66 1001-1025(1460)
9 PRK00566 DNA-directed RNA poly 98.1 8.2E-07 1.8E-11 76.4 1.3 41 26-66 873-927 (1156)
10 cd02655 RNAP_beta'_C Largest s 97.5 3.6E-05 7.8E-10 55.5 1.3 19 46-64 36-54 (204)
11 PF13533 Biotin_lipoyl_2: Biot 96.3 0.0048 1E-07 34.8 2.7 25 20-44 15-39 (50)
12 TIGR02971 heterocyst_DevB ABC 94.9 0.044 9.5E-07 39.7 4.0 35 7-41 10-50 (327)
13 PF00529 HlyD: HlyD family sec 94.6 0.036 7.7E-07 38.8 2.9 22 21-42 15-36 (305)
14 cd02736 RNAP_III_Rpc1_C Larges 94.4 0.023 5.1E-07 42.9 1.7 32 33-64 28-59 (300)
15 cd06528 RNAP_A'' A'' subunit o 94.4 0.019 4.1E-07 44.4 1.2 32 33-64 58-89 (363)
16 PF04998 RNA_pol_Rpb1_5: RNA p 94.3 0.011 2.3E-07 41.1 -0.3 30 37-66 93-122 (277)
17 TIGR02389 RNA_pol_rpoA2 DNA-di 94.3 0.024 5.2E-07 44.0 1.5 32 33-64 62-93 (367)
18 PRK04309 DNA-directed RNA poly 94.2 0.026 5.7E-07 43.9 1.6 32 33-64 77-108 (383)
19 PRK14897 unknown domain/DNA-di 93.4 0.039 8.4E-07 44.8 1.4 32 33-64 200-231 (509)
20 cd02584 RNAP_II_Rpb1_C Largest 93.1 0.041 9E-07 43.2 1.1 31 34-64 46-76 (410)
21 PF07831 PYNP_C: Pyrimidine nu 93.1 0.075 1.6E-06 32.6 2.0 29 15-43 30-58 (75)
22 TIGR01000 bacteriocin_acc bact 93.0 0.18 3.8E-06 38.9 4.4 33 10-42 59-94 (457)
23 TIGR00998 8a0101 efflux pump m 92.4 0.22 4.8E-06 35.8 4.0 32 12-43 44-78 (334)
24 TIGR03794 NHPM_micro_HlyD NHPM 92.0 0.26 5.7E-06 37.3 4.2 38 7-44 55-95 (421)
25 TIGR00830 PTBA PTS system, glu 92.0 0.31 6.7E-06 32.6 4.0 30 17-46 80-109 (121)
26 cd00210 PTS_IIA_glc PTS_IIA, P 91.9 0.33 7.1E-06 32.5 4.1 31 17-47 80-110 (124)
27 TIGR02645 ARCH_P_rylase putati 91.2 0.39 8.4E-06 38.9 4.5 39 4-42 418-472 (493)
28 TIGR03327 AMP_phos AMP phospho 90.9 0.39 8.4E-06 39.0 4.2 39 4-42 419-473 (500)
29 PRK10559 p-hydroxybenzoic acid 90.9 0.33 7.2E-06 35.8 3.6 34 9-42 46-82 (310)
30 TIGR02644 Y_phosphoryl pyrimid 90.9 0.37 8E-06 38.0 4.0 39 4-42 338-399 (405)
31 cd06850 biotinyl_domain The bi 90.9 0.51 1.1E-05 26.0 3.6 19 21-39 13-31 (67)
32 PRK04350 thymidine phosphoryla 90.8 0.44 9.6E-06 38.5 4.5 39 4-42 410-464 (490)
33 PRK14898 DNA-directed RNA poly 90.8 0.25 5.5E-06 41.8 3.2 46 17-64 528-574 (858)
34 PRK15136 multidrug efflux syst 90.7 0.39 8.5E-06 36.5 3.9 33 9-41 60-95 (390)
35 PRK09439 PTS system glucose-sp 90.7 0.48 1E-05 33.3 4.1 30 17-46 102-131 (169)
36 PRK05820 deoA thymidine phosph 90.4 0.42 9.1E-06 38.1 4.0 39 4-42 345-406 (440)
37 TIGR02643 T_phosphoryl thymidi 90.2 0.46 1E-05 37.9 4.1 39 4-42 344-405 (437)
38 COG0511 AccB Biotin carboxyl c 90.1 0.71 1.5E-05 31.0 4.4 17 22-38 122-138 (140)
39 PRK03598 putative efflux pump 90.0 0.49 1.1E-05 34.5 3.8 21 21-41 57-77 (331)
40 PRK05889 putative acetyl-CoA c 90.0 1.1 2.3E-05 26.3 4.6 20 22-41 17-36 (71)
41 PF00358 PTS_EIIA_1: phosphoen 89.1 0.28 6.1E-06 33.1 1.9 30 17-46 84-113 (132)
42 COG2190 NagE Phosphotransferas 88.9 0.77 1.7E-05 32.2 4.0 29 18-46 88-116 (156)
43 TIGR01843 type_I_hlyD type I s 88.9 0.72 1.6E-05 33.8 4.0 24 21-44 57-80 (423)
44 CHL00117 rpoC2 RNA polymerase 88.8 0.8 1.7E-05 41.1 4.9 27 15-41 400-426 (1364)
45 cd02735 RNAP_I_Rpa1_C Largest 87.9 0.27 6E-06 37.2 1.3 32 33-64 28-60 (309)
46 PRK10476 multidrug resistance 87.7 0.52 1.1E-05 34.7 2.6 29 15-43 53-84 (346)
47 PF06898 YqfD: Putative stage 87.4 1.1 2.3E-05 34.4 4.3 36 4-40 194-229 (385)
48 PF01333 Apocytochr_F_C: Apocy 87.1 0.29 6.3E-06 33.3 0.9 25 15-39 40-64 (118)
49 PRK06549 acetyl-CoA carboxylas 87.1 1.7 3.8E-05 29.3 4.7 20 22-41 76-95 (130)
50 PRK06078 pyrimidine-nucleoside 86.5 1.2 2.5E-05 35.6 4.1 36 4-39 340-398 (434)
51 PRK05889 putative acetyl-CoA c 86.0 1.3 2.8E-05 26.0 3.2 35 4-38 7-70 (71)
52 TIGR02876 spore_yqfD sporulati 85.7 1.5 3.3E-05 33.8 4.3 34 4-38 191-224 (382)
53 PRK08225 acetyl-CoA carboxylas 85.5 1.2 2.6E-05 25.8 2.9 18 21-38 52-69 (70)
54 PF12700 HlyD_2: HlyD family s 85.1 0.73 1.6E-05 32.5 2.2 24 20-43 33-56 (328)
55 TIGR01730 RND_mfp RND family e 84.2 0.96 2.1E-05 31.8 2.5 28 15-42 31-61 (322)
56 PF00364 Biotin_lipoyl: Biotin 83.6 0.74 1.6E-05 27.3 1.5 24 20-43 19-42 (74)
57 PRK05641 putative acetyl-CoA c 83.3 2.9 6.2E-05 28.8 4.4 21 22-42 99-119 (153)
58 PRK14977 bifunctional DNA-dire 83.1 0.55 1.2E-05 41.8 1.0 31 34-64 997-1027(1321)
59 PRK08225 acetyl-CoA carboxylas 82.9 1.6 3.5E-05 25.3 2.7 22 21-42 15-36 (70)
60 PF00364 Biotin_lipoyl: Biotin 82.8 2.6 5.7E-05 24.9 3.6 24 15-38 48-74 (74)
61 PRK11578 macrolide transporter 82.6 1.3 2.8E-05 32.9 2.7 21 21-41 75-95 (370)
62 PRK11556 multidrug efflux syst 82.4 1.2 2.7E-05 34.1 2.6 20 21-40 101-120 (415)
63 COG0845 AcrA Membrane-fusion p 82.4 1.3 2.8E-05 30.6 2.5 21 20-40 79-99 (372)
64 PRK09824 PTS system beta-gluco 82.2 2.1 4.5E-05 35.5 3.9 30 17-46 560-589 (627)
65 PRK07051 hypothetical protein; 82.2 1.7 3.6E-05 26.2 2.7 18 21-38 61-78 (80)
66 TIGR01995 PTS-II-ABC-beta PTS 81.7 2.3 5E-05 34.8 4.1 30 17-46 544-573 (610)
67 PRK09578 periplasmic multidrug 81.6 1.3 2.8E-05 33.2 2.4 22 21-42 77-98 (385)
68 PRK14844 bifunctional DNA-dire 81.2 2.7 5.8E-05 40.5 4.6 40 15-54 2418-2467(2836)
69 PRK09859 multidrug efflux syst 80.4 1.5 3.3E-05 32.8 2.4 21 21-41 75-95 (385)
70 COG0213 DeoA Thymidine phospho 80.4 2.9 6.3E-05 33.7 4.1 25 17-41 377-401 (435)
71 PRK10255 PTS system N-acetyl g 80.4 2.6 5.6E-05 35.1 3.9 30 17-46 580-609 (648)
72 PRK06748 hypothetical protein; 80.3 2.3 4.9E-05 26.8 2.9 20 21-40 18-37 (83)
73 COG0511 AccB Biotin carboxyl c 80.3 1.9 4.1E-05 28.9 2.7 19 21-39 84-102 (140)
74 CHL00037 petA cytochrome f 79.2 3.2 6.9E-05 32.3 3.9 25 15-39 242-266 (320)
75 PRK15030 multidrug efflux syst 78.8 1.8 3.9E-05 32.7 2.4 21 21-41 79-99 (397)
76 PRK02693 apocytochrome f; Revi 78.1 3.6 7.8E-05 31.9 3.9 25 15-39 234-258 (312)
77 PRK02597 rpoC2 DNA-directed RN 77.5 4.9 0.00011 36.3 5.0 32 10-41 394-425 (1331)
78 TIGR00531 BCCP acetyl-CoA carb 77.5 2.1 4.5E-05 29.3 2.2 28 16-43 96-123 (156)
79 PRK06302 acetyl-CoA carboxylas 76.8 2.1 4.6E-05 29.2 2.1 29 15-43 94-122 (155)
80 PF02749 QRPTase_N: Quinolinat 76.6 2.1 4.5E-05 26.3 1.9 21 19-39 47-67 (88)
81 COG1566 EmrA Multidrug resista 75.9 2.9 6.2E-05 32.4 2.8 21 20-40 66-86 (352)
82 PRK07051 hypothetical protein; 74.3 4 8.8E-05 24.5 2.7 25 18-42 21-45 (80)
83 KOG0261 RNA polymerase III, la 73.2 2.4 5.2E-05 37.9 2.0 32 33-64 1045-1076(1386)
84 TIGR00531 BCCP acetyl-CoA carb 72.9 11 0.00024 25.7 4.8 18 21-38 138-155 (156)
85 PRK06549 acetyl-CoA carboxylas 72.3 4.3 9.3E-05 27.4 2.7 35 4-38 66-129 (130)
86 PF13437 HlyD_3: HlyD family s 71.9 6.3 0.00014 23.8 3.2 29 4-40 4-32 (105)
87 PRK06748 hypothetical protein; 70.1 6.8 0.00015 24.6 3.1 31 15-45 47-80 (83)
88 TIGR02386 rpoC_TIGR DNA-direct 70.0 7.7 0.00017 34.6 4.3 34 15-61 962-995 (1140)
89 TIGR02388 rpoC2_cyan DNA-direc 69.0 11 0.00023 34.1 5.0 30 12-41 396-425 (1227)
90 PRK09783 copper/silver efflux 68.5 4.7 0.0001 30.9 2.5 17 23-39 140-156 (409)
91 cd06849 lipoyl_domain Lipoyl d 67.9 9.1 0.0002 20.1 3.0 22 20-41 19-40 (74)
92 PF01551 Peptidase_M23: Peptid 67.2 4.7 0.0001 24.2 1.9 18 23-40 57-74 (96)
93 PRK06302 acetyl-CoA carboxylas 66.8 16 0.00034 24.9 4.6 18 21-38 137-154 (155)
94 PRK00566 DNA-directed RNA poly 64.7 12 0.00025 33.5 4.4 35 15-62 964-998 (1156)
95 cd06663 Biotinyl_lipoyl_domain 63.7 10 0.00022 21.6 2.8 22 21-42 19-40 (73)
96 PRK05641 putative acetyl-CoA c 63.6 7.9 0.00017 26.6 2.6 17 22-38 136-152 (153)
97 PRK14875 acetoin dehydrogenase 61.2 10 0.00022 26.8 3.0 17 22-38 23-39 (371)
98 TIGR00999 8a0102 Membrane Fusi 59.9 6.1 0.00013 27.3 1.6 15 26-40 1-15 (265)
99 PF13142 DUF3960: Domain of un 59.2 5.1 0.00011 25.9 1.0 33 18-50 40-72 (87)
100 PLN02226 2-oxoglutarate dehydr 59.0 19 0.00042 29.0 4.4 18 22-39 149-166 (463)
101 COG0157 NadC Nicotinate-nucleo 57.2 11 0.00023 28.8 2.6 20 20-39 67-86 (280)
102 cd06255 M14_ASTE_ASPA_like_5 A 57.1 18 0.00038 26.6 3.7 27 13-39 234-262 (293)
103 PLN02983 biotin carboxyl carri 57.1 13 0.00028 28.4 3.0 27 17-43 214-240 (274)
104 TIGR00998 8a0101 efflux pump m 57.0 18 0.00039 26.0 3.6 18 22-39 219-236 (334)
105 PF13375 RnfC_N: RnfC Barrel s 54.7 15 0.00033 23.5 2.7 21 18-38 41-61 (101)
106 cd06250 M14_PaAOTO_like An unc 53.7 21 0.00045 27.3 3.7 27 13-39 292-320 (359)
107 PF05896 NQRA: Na(+)-transloca 53.1 13 0.00028 27.9 2.5 20 18-37 40-59 (257)
108 PRK09282 pyruvate carboxylase 52.4 22 0.00047 29.2 3.8 22 21-42 536-557 (592)
109 PRK10871 nlpD lipoprotein NlpD 52.2 19 0.00041 27.8 3.2 20 20-39 271-290 (319)
110 COG0508 AceF Pyruvate/2-oxoglu 52.2 14 0.00031 28.7 2.6 27 17-43 16-44 (404)
111 PRK10476 multidrug resistance 51.7 17 0.00036 26.7 2.8 18 22-39 223-240 (346)
112 MTH00025 ATP8 ATP synthase F0 51.6 6.4 0.00014 24.3 0.5 14 51-64 31-44 (70)
113 cd06253 M14_ASTE_ASPA_like_3 A 51.5 34 0.00074 25.3 4.4 29 12-40 231-261 (298)
114 TIGR02994 ectoine_eutE ectoine 51.0 25 0.00053 26.6 3.7 28 13-40 258-287 (325)
115 COG4942 Membrane-bound metallo 50.8 17 0.00036 29.3 2.8 34 8-41 352-393 (420)
116 cd04252 AAK_NAGK-fArgBP AAK_NA 50.4 35 0.00075 24.4 4.2 33 31-63 180-218 (248)
117 PF10011 DUF2254: Predicted me 50.1 30 0.00065 26.4 4.1 36 4-39 200-245 (371)
118 PRK14875 acetoin dehydrogenase 49.6 45 0.00098 23.6 4.7 25 15-39 50-77 (371)
119 COG3608 Predicted deacylase [G 49.1 22 0.00049 27.6 3.2 28 13-40 259-288 (331)
120 PRK11637 AmiB activator; Provi 48.5 19 0.00042 27.6 2.8 21 20-40 380-400 (428)
121 cd06252 M14_ASTE_ASPA_like_2 A 48.4 30 0.00064 25.7 3.7 27 13-39 247-275 (316)
122 cd06251 M14_ASTE_ASPA_like_1 A 48.3 27 0.00059 25.5 3.5 27 13-39 222-250 (287)
123 TIGR00164 PS_decarb_rel phosph 46.9 29 0.00062 24.1 3.3 22 15-36 161-182 (189)
124 PRK05305 phosphatidylserine de 46.7 29 0.00064 24.4 3.3 22 14-35 180-201 (206)
125 PRK01202 glycine cleavage syst 46.5 35 0.00076 22.5 3.5 32 17-49 36-70 (127)
126 PTZ00144 dihydrolipoamide succ 45.9 23 0.00049 28.1 2.9 21 21-41 64-84 (418)
127 PLN02983 biotin carboxyl carri 45.0 52 0.0011 25.2 4.6 24 15-38 246-272 (274)
128 MTH00169 ATP8 ATP synthase F0 44.4 11 0.00024 22.8 0.8 16 51-66 31-46 (67)
129 TIGR03309 matur_yqeB selenium- 44.3 33 0.00072 25.8 3.5 29 13-41 167-197 (256)
130 PF12390 Se-cys_synth_N: Selen 44.2 10 0.00023 20.3 0.6 12 51-62 3-14 (40)
131 cd06254 M14_ASTE_ASPA_like_4 A 42.8 41 0.00089 24.5 3.7 27 13-39 226-254 (288)
132 COG5471 Uncharacterized conser 40.9 16 0.00034 24.5 1.1 15 23-37 20-34 (107)
133 PRK12784 hypothetical protein; 40.8 42 0.00092 21.6 3.1 27 20-46 56-82 (84)
134 PRK15136 multidrug efflux syst 40.7 37 0.0008 25.8 3.3 18 22-39 230-247 (390)
135 PRK14042 pyruvate carboxylase 40.6 58 0.0013 27.0 4.6 22 21-42 539-560 (596)
136 PF15517 TBPIP_N: TBP-interact 40.3 33 0.00072 22.7 2.6 15 15-29 68-82 (99)
137 PRK06978 nicotinate-nucleotide 39.5 31 0.00068 26.3 2.7 22 18-39 83-104 (294)
138 PRK05742 nicotinate-nucleotide 39.0 35 0.00076 25.5 2.9 21 19-39 68-88 (277)
139 PRK06096 molybdenum transport 38.9 31 0.00067 26.0 2.6 22 18-39 62-83 (284)
140 cd01572 QPRTase Quinolinate ph 38.5 37 0.0008 25.0 2.9 19 21-39 62-80 (268)
141 PRK09603 bifunctional DNA-dire 37.9 41 0.00089 33.1 3.6 22 15-36 2700-2721(2890)
142 cd04242 AAK_G5K_ProB AAK_G5K_P 37.8 31 0.00067 24.5 2.3 20 45-64 202-222 (251)
143 TIGR01334 modD putative molybd 37.1 38 0.00083 25.4 2.8 22 18-39 61-82 (277)
144 PRK14042 pyruvate carboxylase 36.9 42 0.00091 27.8 3.2 18 21-38 576-593 (596)
145 PRK07896 nicotinate-nucleotide 36.7 38 0.00082 25.6 2.7 20 20-39 79-98 (289)
146 TIGR00078 nadC nicotinate-nucl 35.1 45 0.00097 24.6 2.9 20 20-39 57-76 (265)
147 COG0739 NlpD Membrane proteins 34.9 29 0.00062 23.9 1.8 19 20-38 215-233 (277)
148 cd01568 QPRTase_NadC Quinolina 34.4 48 0.001 24.3 2.9 20 20-39 60-79 (269)
149 PRK09783 copper/silver efflux 34.4 53 0.0011 25.2 3.3 28 12-39 211-241 (409)
150 PRK08072 nicotinate-nucleotide 34.2 47 0.001 24.8 2.9 21 19-39 66-86 (277)
151 PRK14040 oxaloacetate decarbox 34.1 46 0.00099 27.4 3.0 24 20-43 537-560 (593)
152 PRK06543 nicotinate-nucleotide 33.9 47 0.001 25.1 2.9 22 18-39 66-87 (281)
153 PRK07428 nicotinate-nucleotide 33.9 44 0.00096 25.1 2.7 19 21-39 76-94 (288)
154 PRK11854 aceF pyruvate dehydro 33.8 50 0.0011 27.1 3.2 20 21-40 57-76 (633)
155 PF09891 DUF2118: Uncharacteri 33.3 30 0.00064 24.1 1.6 22 21-42 94-115 (150)
156 TIGR01108 oadA oxaloacetate de 33.2 52 0.0011 27.0 3.2 24 20-43 530-553 (582)
157 PRK05848 nicotinate-nucleotide 33.2 46 0.001 24.8 2.7 21 19-39 60-80 (273)
158 PRK06106 nicotinate-nucleotide 33.1 49 0.0011 24.9 2.8 21 19-39 72-92 (281)
159 PRK05279 N-acetylglutamate syn 32.7 57 0.0012 25.0 3.2 47 15-61 200-256 (441)
160 PRK02899 adaptor protein; Prov 32.7 39 0.00084 24.0 2.2 34 27-60 4-42 (197)
161 PRK09016 quinolinate phosphori 32.4 48 0.001 25.3 2.7 21 19-39 87-107 (296)
162 PLN02716 nicotinate-nucleotide 32.4 51 0.0011 25.3 2.9 20 20-39 81-100 (308)
163 TIGR00761 argB acetylglutamate 31.9 29 0.00062 24.2 1.4 19 43-61 202-221 (231)
164 PF10199 Adaptin_binding: Alph 31.8 26 0.00056 22.6 1.1 13 50-62 3-15 (137)
165 PRK05704 dihydrolipoamide succ 31.1 61 0.0013 25.3 3.2 18 22-39 60-77 (407)
166 KOG0559 Dihydrolipoamide succi 31.0 56 0.0012 26.6 3.0 20 21-40 129-148 (457)
167 PLN02226 2-oxoglutarate dehydr 30.9 1.2E+02 0.0025 24.6 4.8 38 5-42 86-132 (463)
168 cd01573 modD_like ModD; Quinol 30.9 53 0.0012 24.2 2.7 22 18-39 57-78 (272)
169 PRK08385 nicotinate-nucleotide 30.8 54 0.0012 24.6 2.7 22 18-39 59-80 (278)
170 PF01016 Ribosomal_L27: Riboso 30.5 43 0.00094 21.3 1.9 17 22-38 23-39 (81)
171 cd04237 AAK_NAGS-ABP AAK_NAGS- 30.4 69 0.0015 23.4 3.2 55 7-61 174-247 (280)
172 PF00717 Peptidase_S24: Peptid 29.8 69 0.0015 17.6 2.5 22 15-36 11-32 (70)
173 cd08607 GDPD_GDE5 Glycerophosp 29.8 82 0.0018 22.5 3.4 50 13-62 42-127 (290)
174 cd08583 PI-PLCc_GDPD_SF_unchar 29.2 46 0.001 23.1 2.0 49 13-61 36-94 (237)
175 TIGR01347 sucB 2-oxoglutarate 28.6 70 0.0015 25.0 3.1 19 21-39 57-75 (403)
176 cd08568 GDPD_TmGDE_like Glycer 28.0 96 0.0021 21.3 3.4 50 13-62 35-89 (226)
177 PF13667 ThiC-associated: ThiC 27.9 28 0.00061 21.9 0.7 20 45-64 57-77 (80)
178 TIGR01235 pyruv_carbox pyruvat 27.4 1.3E+02 0.0028 26.9 4.8 24 20-43 1087-1110(1143)
179 PRK09454 ugpQ cytoplasmic glyc 27.4 59 0.0013 22.9 2.3 49 13-61 43-104 (249)
180 PRK14040 oxaloacetate decarbox 27.1 1.3E+02 0.0027 25.0 4.4 18 21-38 575-592 (593)
181 PTZ00144 dihydrolipoamide succ 27.0 1.5E+02 0.0033 23.5 4.8 20 21-40 101-120 (418)
182 PRK12999 pyruvate carboxylase; 27.0 1.2E+02 0.0025 27.1 4.4 23 20-42 1089-1111(1146)
183 TIGR00527 gcvH glycine cleavag 26.7 86 0.0019 20.6 2.9 32 17-49 35-69 (127)
184 cd04236 AAK_NAGS-Urea AAK_NAGS 26.6 1.2E+02 0.0026 22.6 3.9 58 6-63 165-244 (271)
185 TIGR01348 PDHac_trf_long pyruv 26.5 59 0.0013 26.3 2.5 24 20-43 134-157 (546)
186 PLN02528 2-oxoisovalerate dehy 26.4 82 0.0018 24.7 3.1 19 21-39 55-73 (416)
187 PRK13380 glycine cleavage syst 26.1 1.3E+02 0.0028 20.4 3.8 26 18-43 44-72 (144)
188 KOG0369 Pyruvate carboxylase [ 26.1 96 0.0021 27.7 3.7 26 17-42 1114-1141(1176)
189 PRK05704 dihydrolipoamide succ 26.1 1.6E+02 0.0036 23.0 4.7 20 22-41 23-42 (407)
190 PRK14906 DNA-directed RNA poly 25.8 38 0.00081 31.3 1.3 36 15-63 1061-1098(1460)
191 PF10262 Rdx: Rdx family; Int 25.7 1.1E+02 0.0023 18.0 3.0 20 38-61 53-72 (76)
192 cd06462 Peptidase_S24_S26 The 25.2 71 0.0015 17.8 2.0 21 15-35 14-35 (84)
193 PRK11854 aceF pyruvate dehydro 25.1 73 0.0016 26.2 2.8 17 22-38 225-241 (633)
194 PRK12999 pyruvate carboxylase; 24.9 71 0.0015 28.4 2.8 17 22-38 1128-1144(1146)
195 PRK11855 dihydrolipoamide acet 24.8 85 0.0018 25.2 3.0 17 22-38 22-38 (547)
196 PF01538 HCV_NS2: Hepatitis C 24.8 23 0.00049 26.0 -0.2 15 41-55 179-193 (195)
197 PF01987 AIM24: Mitochondrial 24.4 1.6E+02 0.0035 20.1 4.0 30 5-34 6-35 (215)
198 cd08601 GDPD_SaGlpQ_like Glyce 24.2 1.2E+02 0.0025 21.3 3.3 49 13-61 36-107 (256)
199 COG4770 Acetyl/propionyl-CoA c 24.1 72 0.0016 27.2 2.6 19 22-40 590-608 (645)
200 cd06848 GCS_H Glycine cleavage 24.0 1.2E+02 0.0026 18.5 3.1 25 23-48 37-61 (96)
201 PRK11856 branched-chain alpha- 23.8 98 0.0021 23.7 3.1 16 23-38 61-76 (411)
202 PF01597 GCV_H: Glycine cleava 23.7 1.5E+02 0.0033 19.2 3.6 19 24-42 40-58 (122)
203 PLN00208 translation initiatio 23.6 2.2E+02 0.0048 19.8 4.6 48 3-50 27-93 (145)
204 TIGR01235 pyruv_carbox pyruvat 23.4 85 0.0018 28.0 3.0 14 4-17 1079-1092(1143)
205 TIGR02712 urea_carbox urea car 23.0 84 0.0018 28.0 2.9 20 21-40 1146-1165(1201)
206 TIGR03806 chp_HNE_0200 conserv 22.9 79 0.0017 24.2 2.4 45 13-62 44-90 (317)
207 PRK06559 nicotinate-nucleotide 22.9 82 0.0018 23.9 2.5 17 23-39 79-95 (290)
208 TIGR01348 PDHac_trf_long pyruv 22.8 1E+02 0.0022 24.9 3.2 19 21-39 56-74 (546)
209 TIGR02927 SucB_Actino 2-oxoglu 22.1 1E+02 0.0022 25.3 3.0 18 22-39 156-173 (590)
210 cd08565 GDPD_pAtGDE_like Glyce 21.3 1.1E+02 0.0024 21.5 2.7 51 14-64 35-93 (235)
211 TIGR01936 nqrA NADH:ubiquinone 21.3 82 0.0018 25.2 2.3 20 19-38 41-60 (447)
212 PF02785 Biotin_carb_C: Biotin 21.3 76 0.0016 20.5 1.8 30 3-34 13-42 (107)
213 PF09160 FimH_man-bind: FimH, 21.1 71 0.0015 22.2 1.7 21 25-45 114-134 (147)
214 PRK11892 pyruvate dehydrogenas 21.1 1.2E+02 0.0025 24.3 3.1 17 22-38 23-39 (464)
215 PRK08662 nicotinate phosphorib 20.9 1.1E+02 0.0024 23.4 2.9 21 19-39 71-91 (343)
216 PF03120 DNA_ligase_OB: NAD-de 20.0 23 0.00051 22.2 -0.8 29 29-65 50-78 (82)
No 1
>CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed
Probab=99.93 E-value=6e-27 Score=199.25 Aligned_cols=69 Identities=58% Similarity=0.795 Sum_probs=66.2
Q ss_pred CCCCCCCcEEEEE-------------eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcCCcccc
Q 042693 2 HTHLKSDQILIVQ-------------ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSFDLIL 68 (71)
Q Consensus 2 ~~~~~sGqii~i~-------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~~i~ 68 (71)
.++ +||||+.++ +++||++|+++||+|++||+|+||.||++|||||||||||||||||||+.++++
T Consensus 1073 ~~~-~SGQIi~I~~~~lvIR~akPYLat~GAtvh~~~GeiI~~GDtLvtLiyER~kSGDI~QGLPKVEqLLEARsi~sis 1151 (1364)
T CHL00117 1073 GPH-KSGQIIIVQVDSLVIRSAKPYLATPGATVHGHYGEILYEGDTLVTLIYEKSRSGDITQGLPKVEQLLEARSIDSIS 1151 (1364)
T ss_pred Ccc-ccceEEEEecCeEEEEecCceecCCCcEEEccCCCEecCCCeEEEEEeeccccCCcccCchhHHhhhhhccCceee
Confidence 455 999999998 899999999999999999999999999999999999999999999999999999
Q ss_pred ccC
Q 042693 69 ACL 71 (71)
Q Consensus 69 ~~l 71 (71)
+||
T Consensus 1152 ~nl 1154 (1364)
T CHL00117 1152 MNL 1154 (1364)
T ss_pred cch
Confidence 986
No 2
>TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit. The family consists of the product of the rpoC2 gene, a subunit of DNA-directed RNA polymerase of cyanobacteria and chloroplasts. RpoC2 corresponds largely to the C-terminal region of the RpoC (the beta' subunit) of other bacteria. Members of this family are designated beta'' in chloroplasts/plastids, and beta' (confusingly) in Cyanobacteria, where RpoC1 is called beta' in chloroplasts/plastids and gamma in Cyanobacteria. We prefer to name this family beta'', after its organellar members, to emphasize that this RpoC1 and RpoC2 together replace RpoC in other bacteria.
Probab=99.91 E-value=3.9e-25 Score=186.88 Aligned_cols=65 Identities=23% Similarity=0.475 Sum_probs=62.2
Q ss_pred CCCCCCCCcEEEEE-------------eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcCCc
Q 042693 1 DHTHLKSDQILIVQ-------------ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSFD 65 (71)
Q Consensus 1 ~~~~~~sGqii~i~-------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~ 65 (71)
+.++++||||+.++ +++||++|+++|++|++||+|++|+||++|||||||||||||||||||+++
T Consensus 917 ~~~~~~SGqvi~i~~~~v~iR~akPYl~s~ga~~~~~~g~~v~~Gd~L~~l~~er~ktgDI~qGLPrveellEaR~~k 994 (1227)
T TIGR02388 917 GVKAEESGEIEEVASDYVILRIGRPYRVSPGAVLHIEDGDLVQRGDNLALLVFERAKTGDIVQGLPRIEELLEARKPK 994 (1227)
T ss_pred CCccCCCceEEEEeCCeEEEEecceeEcCCCCEEEecCCCEecCCCEEEEEEeeecccCccccCchhHHHHHhccCCc
Confidence 35789999999988 899999999999999999999999999999999999999999999999993
No 3
>PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=99.90 E-value=2.6e-24 Score=182.92 Aligned_cols=65 Identities=22% Similarity=0.484 Sum_probs=62.3
Q ss_pred CCCCCCCCcEEEEE-------------eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcCCc
Q 042693 1 DHTHLKSDQILIVQ-------------ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSFD 65 (71)
Q Consensus 1 ~~~~~~sGqii~i~-------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~ 65 (71)
+.++++||||++++ +++||++|+++|++|++||+|++|+||++|||||||||||||||||||+++
T Consensus 919 ~~~~~~SGqvi~i~~~~v~iR~a~Pyl~s~ga~~~~~~g~~v~~Gd~L~~l~~er~ktgDI~qGLPrveellEaR~pk 996 (1331)
T PRK02597 919 GVPAPESGEVEAVSGGSVTLRLGRPYRVSPGAVLHVRDGDLVQRGDNLALLVFERAKTGDIIQGLPRIEELLEARKPK 996 (1331)
T ss_pred CCccCCCccEEEEeCCeEEEEeccceEcCCCCEEEecCCCEecCCCeEEEEEeeecccCCccCCCceeeEeEEEecCC
Confidence 35789999999998 899999999999999999999999999999999999999999999999995
No 4
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=99.59 E-value=3.4e-16 Score=139.66 Aligned_cols=52 Identities=23% Similarity=0.294 Sum_probs=50.7
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcCCcc
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSFDL 66 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~~ 66 (71)
+|.||+|.|++|+.|++||+||++|++..+|.|||||||||+||||||+++.
T Consensus 2520 lp~ga~l~v~~g~~v~~Gdilakipr~~~~t~DIT~GLpRv~eLFEar~pk~ 2571 (2836)
T PRK14844 2520 IPIGAVLNVQDGQKVHAGDVITRTPRESVKTRDITGGLPRVIELFEARRPKE 2571 (2836)
T ss_pred cCCCceEeeccCceecccceeecccccccccCccCCCCccchheeeeecCCC
Confidence 9999999999999999999999999999999999999999999999999964
No 5
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=99.58 E-value=1.4e-15 Score=136.03 Aligned_cols=59 Identities=17% Similarity=0.197 Sum_probs=53.3
Q ss_pred CCcEEEEEeCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhc--CCc
Q 042693 7 SDQILIVQATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIR--SFD 65 (71)
Q Consensus 7 sGqii~i~~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR--~~~ 65 (71)
+|.+....+|+||+|+|++|+.|++||+||++|++..||.|||||||||+|||||| +++
T Consensus 2602 ~~~~~~y~lp~~~~l~v~~g~~v~~gdilak~p~~~~~t~DITgGLprv~eLfear~~~pk 2662 (2890)
T PRK09603 2602 NGEEIRYFLEPKTSIAISDGSSVEQAEVLAKIPKATVKSRDITGGLPRVSELFEARKPKPK 2662 (2890)
T ss_pred CCcEEEEecCCCcEEEecCCCEecccceEeeccccccccccccCCcccchhheEeecCCCC
Confidence 45555444999999999999999999999999999999999999999999999999 554
No 6
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=98.35 E-value=1.5e-07 Score=80.79 Aligned_cols=21 Identities=33% Similarity=0.491 Sum_probs=19.3
Q ss_pred CCccCchhhHhhhhhhcCCcc
Q 042693 46 CDLTRALSKVKQVLEIRSFDL 66 (71)
Q Consensus 46 ~DItqGLPkVeeLfEAR~~~~ 66 (71)
+|||||||||+||||||+++.
T Consensus 904 ~DIT~GlpRv~elfear~p~~ 924 (1140)
T TIGR02386 904 GDITQGLPRVKELFEARTPKD 924 (1140)
T ss_pred cccccCchhhhhhhhcccCCC
Confidence 399999999999999999964
No 7
>cd00630 RNAP_largest_subunit_C Largest subunit of RNA polymerase (RNAP), C-terminal domain. RNA polymerase (RNAP) is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is the final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei, RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. Structure studies revealed that prokaryotic and eukaryotic RNAPs share a conserved crab-claw-shape structure. The largest and the second largest subunits each make up one clamp, one jaw, and part of the cleft. The largest RNAP subunit (Rpb1) interacts with the second-largest RNAP subunit (Rpb2) to form the DNA entry and RNA exit channe
Probab=98.28 E-value=6.3e-08 Score=67.17 Aligned_cols=35 Identities=29% Similarity=0.462 Sum_probs=30.0
Q ss_pred eEEEEEeehhccCCccCchhhHhhhhhhcCCcccc
Q 042693 34 KLVTFIYEKLRSCDLTRALSKVKQVLEIRSFDLIL 68 (71)
Q Consensus 34 ~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~~i~ 68 (71)
+|.++.+++.++.|||||+||+||+||||....+.
T Consensus 20 tl~t~~~~~~~~~~~t~~~pk~~~~~~~~dI~~i~ 54 (158)
T cd00630 20 TLRTFHFAGVASMNVTLGLPRLKEILNAASIHEML 54 (158)
T ss_pred hhhhhhhccccccccccCCccchhhcccccHHHHH
Confidence 35688899999999999999999999999665443
No 8
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=98.28 E-value=2.8e-07 Score=80.56 Aligned_cols=25 Identities=24% Similarity=0.332 Sum_probs=21.3
Q ss_pred hhccCCccCchhhHhhhhhhcCCcc
Q 042693 42 KLRSCDLTRALSKVKQVLEIRSFDL 66 (71)
Q Consensus 42 ~~kt~DItqGLPkVeeLfEAR~~~~ 66 (71)
..-++|||||||||+||||||+++.
T Consensus 1001 Gv~~~dit~GLpRv~eLfEar~pk~ 1025 (1460)
T PRK14906 1001 GVAGDDITQGLPRVAELFEARKPKG 1025 (1460)
T ss_pred cccccccccCcchhhhheeeccCCC
Confidence 3334799999999999999999864
No 9
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=98.13 E-value=8.2e-07 Score=76.40 Aligned_cols=41 Identities=20% Similarity=0.340 Sum_probs=29.1
Q ss_pred CcEEecCCeEEEEEeeh------------hccC--CccCchhhHhhhhhhcCCcc
Q 042693 26 GAFLHKGNKLVTFIYEK------------LRSC--DLTRALSKVKQVLEIRSFDL 66 (71)
Q Consensus 26 G~~V~~G~~L~~l~~e~------------~kt~--DItqGLPkVeeLfEAR~~~~ 66 (71)
|..|.-|+.+..+.-++ +-|| |||||||||+||||||+++.
T Consensus 873 ~~~v~iGeaVGiIAAQSIGEPGTQLTmRTFHtGGvdIT~Glprv~elfear~pk~ 927 (1156)
T PRK00566 873 GKLVNIGEAVGVIAAQSIGEPGTQLTMRTFHTGGVDITGGLPRVAELFEARKPKG 927 (1156)
T ss_pred CCCcccCcceeEEeeeecCCCccceeeeeeeecceeccCCccchhhheeeccCCC
Confidence 55666666665443332 2233 99999999999999999964
No 10
>cd02655 RNAP_beta'_C Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain. Bacterial RNA polymerase (RNAP) is a large multi-subunit complex responsible for the synthesis of all RNAs in the cell. This family also includes the eukaryotic plastid-encoded RNAP beta" subunit. Structure studies suggest that RNAP complexes from different organisms share a crab-claw-shape structure with two pincers defining a central cleft. Beta' and beta, the largest and the second largest subunits of bacterial RNAP, each makes up one pincer and part of the base of the cleft. The C-terminal domain includes a G loop that forms part of the floor of the downstream DNA-binding cavity. The position of the G loop may determine the switch of the bridge helix between flipped-out and normal alpha-helical conformations.
Probab=97.52 E-value=3.6e-05 Score=55.49 Aligned_cols=19 Identities=32% Similarity=0.655 Sum_probs=17.5
Q ss_pred CCccCchhhHhhhhhhcCC
Q 042693 46 CDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 46 ~DItqGLPkVeeLfEAR~~ 64 (71)
.||||||||++||||+|+.
T Consensus 36 ~dIt~Glprv~el~e~r~~ 54 (204)
T cd02655 36 TDITQGLPRVEELFEARKI 54 (204)
T ss_pred cccccccHHHHHHHHhhcC
Confidence 3999999999999999983
No 11
>PF13533 Biotin_lipoyl_2: Biotin-lipoyl like
Probab=96.26 E-value=0.0048 Score=34.84 Aligned_cols=25 Identities=20% Similarity=0.299 Sum_probs=20.7
Q ss_pred EEEEecCcEEecCCeEEEEEeehhc
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKLR 44 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~k 44 (71)
.++|++|+.|++||+|++|-...+.
T Consensus 15 ~v~V~~G~~VkkGd~L~~ld~~~~~ 39 (50)
T PF13533_consen 15 SVYVKEGQQVKKGDVLLVLDSPDLQ 39 (50)
T ss_pred EEEecCCCEEcCCCEEEEECcHHHH
Confidence 3479999999999999999766543
No 12
>TIGR02971 heterocyst_DevB ABC exporter membrane fusion protein, DevB family. Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. DevB from Anabaena sp. strain PCC 7120 is partially characterized as a membrane fusion protein of the DevBCA ABC exporter, probably a glycolipid exporter, required for heterocyst formation. Most Cyanobacteria have one member only, but Nostoc sp. PCC 7120 has seven members.
Probab=94.86 E-value=0.044 Score=39.67 Aligned_cols=35 Identities=14% Similarity=0.159 Sum_probs=27.2
Q ss_pred CCcEEEEEeCCC------cEEEEecCcEEecCCeEEEEEee
Q 042693 7 SDQILIVQATPG------AISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 7 sGqii~i~~~~g------a~l~v~~G~~V~~G~~L~~l~~e 41 (71)
++.++.+..+.+ ..++|++||.|++||+|++|--.
T Consensus 10 ~~~~~~v~~~~~~~~G~V~~i~V~eG~~V~~G~~L~~ld~~ 50 (327)
T TIGR02971 10 EGEVVAVAAPSSGGTDRIKKLLVAEGDRVQAGQVLAELDSR 50 (327)
T ss_pred cCceEEecCCCCCCCcEEEEEEccCCCEecCCcEEEEecCc
Confidence 345556666666 45689999999999999999864
No 13
>PF00529 HlyD: HlyD family secretion protein the corresponding Prosite entry.; InterPro: IPR006143 This entry represents a large family of polypeptides, the MFP (for membrane fusion protein) family. MFPs are a component of the of the RND family of transporters (RND refers to resistance, nodulation, and cell division). MFPs are proposed to span the periplasm in some way linking the inner and outer membranes []. However, some members of this family are found in Gram-positive bacteria, where there is no outer membrane. MFPs are involved in the export of a variety of compounds, from drug molecules to large polypeptides, and are united by their similar overall structural organisation, combined with some conserved regions []. This family includes: Haemolysin secretion protein D (HlyD) from Escherichia coli. Lactococcin A secretion protein LcnD from Lactococcus lactis []. RTX-I toxin determinant D from Actinobacillus pleuropneumoniae. Calmodulin-sensitive adenylate cyclase-haemolysin (cyclolysin) CyaD from Bordetella pertussis. Colicin V secretion protein CvaA from E. coli []. Proteases secretion protein PrtE from Erwinia chrysanthemi []. Alkaline protease secretion protein AprE from Pseudomonas aeruginosa []. Several multidrug resistance proteins []. ; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 1T5E_E 1VF7_K 2V4D_I 4DK1_C 2F1M_B.
Probab=94.62 E-value=0.036 Score=38.78 Aligned_cols=22 Identities=18% Similarity=0.152 Sum_probs=15.0
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
|+|++|+.|++||+|++|--..
T Consensus 15 i~V~eG~~VkkGq~L~~LD~~~ 36 (305)
T PF00529_consen 15 ILVKEGQRVKKGQVLARLDPTD 36 (305)
T ss_dssp E-S-TTEEE-TTSECEEE--HH
T ss_pred EEccCcCEEeCCCEEEEEEeec
Confidence 4799999999999999997443
No 14
>cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain. Eukaryotic RNA polymerase III (RNAP III) is a large multi-subunit complex responsible for the synthesis of tRNAs, 5SrRNA, Alu-RNA, U6 snRNA, among others. Rpc1 is also known as C160 in yeast. Structure studies suggest that different RNA polymerase complexes share a similar crab-claw-shape structure. The C-terminal domain of Rpb1, the largest subunit of RNAP II, makes up part of the foot and jaw structures of RNAP II. The similarity between this domain and the C-terminal domain of Rpb1, its counterpart in RNAP II, suggests a similar functional and structural role.
Probab=94.37 E-value=0.023 Score=42.90 Aligned_cols=32 Identities=19% Similarity=0.371 Sum_probs=28.6
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|-||.+....+-++|+|+||+.|++.|++.
T Consensus 28 mTL~TFH~aGv~~~nvtlGvPRlkEIinasK~ 59 (300)
T cd02736 28 MTLKTFHFAGVASMNITLGVPRIKEIINASKN 59 (300)
T ss_pred ccccccccccccccccccCchHHHHHHhcccC
Confidence 35778889888888999999999999999986
No 15
>cd06528 RNAP_A'' A'' subunit of Archaeal RNA Polymerase (RNAP). Archaeal RNA polymerase (RNAP), like bacterial RNAP, is a large multi-subunit complex responsible for the synthesis of all RNAs in the cell. The relative positioning of the RNAP core is highly conserved between archaeal RNAP and the three classes of eukaryotic RNAPs. In archaea, the largest subunit is split into two polypeptides, A' and A'', which are encoded by separate genes in an operon. Sequence alignments reveal that the archaeal A'' subunit corresponds to the C-terminal one-third of the RNAPII largest subunit (Rpb1). In subunit A'', several loops in the jaw domain are shorter. The RNAPII Rpb1 interacts with the second-largest subunit (Rpb2) to form the DNA entry and RNA exit channels in addition to the catalytic center of RNA synthesis.
Probab=94.35 E-value=0.019 Score=44.41 Aligned_cols=32 Identities=22% Similarity=0.368 Sum_probs=28.5
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|=||.|....+.++|+|+||+.|++.|++.
T Consensus 58 MTLnTFH~AGVas~nVTlGVPRlkEIIna~K~ 89 (363)
T cd06528 58 MTLRTFHYAGVAEINVTLGLPRLIEIVDARKE 89 (363)
T ss_pred cccccccccccccccCccccccHHHHhhcccC
Confidence 35678889989899999999999999999986
No 16
>PF04998 RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; InterPro: IPR007081 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain, domain 5, represents the discontinuous cleft domain that is required to form the central cleft or channel where the DNA is bound [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N 2A6H_N 2A69_D 3EQL_D ....
Probab=94.26 E-value=0.011 Score=41.09 Aligned_cols=30 Identities=17% Similarity=0.254 Sum_probs=24.6
Q ss_pred EEEeehhccCCccCchhhHhhhhhhcCCcc
Q 042693 37 TFIYEKLRSCDLTRALSKVKQVLEIRSFDL 66 (71)
Q Consensus 37 ~l~~e~~kt~DItqGLPkVeeLfEAR~~~~ 66 (71)
||...-..+.|+++|+||++|+|++++...
T Consensus 93 TFH~aG~~~~~vt~giprl~eii~~~~~~~ 122 (277)
T PF04998_consen 93 TFHTAGVASKNVTQGIPRLKEIINASKKIK 122 (277)
T ss_dssp CTSSSCSSTSSCSSSHHHHHHHHTTCSSSS
T ss_pred ccccCceeeecccccceeeccccccccccc
Confidence 555555667899999999999999998853
No 17
>TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A''. This family consists of the archaeal A'' subunit of the DNA-directed RNA polymerase. The example from Methanocaldococcus jannaschii contains an intein.
Probab=94.25 E-value=0.024 Score=43.99 Aligned_cols=32 Identities=19% Similarity=0.369 Sum_probs=28.6
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|=||.|....+.++|+|+||+.|++-|++.
T Consensus 62 MTLnTFH~AGVas~nVTlGVPRlkEIINa~k~ 93 (367)
T TIGR02389 62 MTMRTFHYAGVAELNVTLGLPRLIEIVDARKT 93 (367)
T ss_pred ccccccccccccccCccccchhHHHHhhcccC
Confidence 35778889999899999999999999999886
No 18
>PRK04309 DNA-directed RNA polymerase subunit A''; Validated
Probab=94.17 E-value=0.026 Score=43.92 Aligned_cols=32 Identities=19% Similarity=0.356 Sum_probs=28.3
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|=||.+....+.++|+|+||+.|++-||+.
T Consensus 77 MTL~TFH~AGva~~nVTlGvPRlkEIina~K~ 108 (383)
T PRK04309 77 MTMRTFHYAGVAEINVTLGLPRLIEIVDARKE 108 (383)
T ss_pred cccccccccCccccCcccCchhHHHHHhcccC
Confidence 35778889888888999999999999999985
No 19
>PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional
Probab=93.41 E-value=0.039 Score=44.79 Aligned_cols=32 Identities=19% Similarity=0.364 Sum_probs=29.1
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|=||.|....+.++|+|+||+.|++-||+.
T Consensus 200 MTLnTFH~AGVas~NVTlGVPRLkEIINa~K~ 231 (509)
T PRK14897 200 MTMRTFHYAGVAEMNVTLGLPRLIEIVDARKK 231 (509)
T ss_pred ccccccccccccccccccCcchhHHHhhcccC
Confidence 36789999999899999999999999999887
No 20
>cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain. RNA polymerase II (RNAP II) is a large multi-subunit complex responsible for the synthesis of mRNA. RNAP II consists of a 10-subunit core enzyme and a peripheral heterodimer of two subunits. The largest core subunit (Rpb1) of yeast RNAP II is the best characterized member of this family. Structure studies suggest that RNAP complexes from different organisms share a crab-claw-shape structure. In yeast, Rpb1 and Rpb2, the largest and the second largest subunits, each makes up one clamp, one jaw, and part of the cleft. Rpb1 interacts with Rpb2 to form the DNA entry and RNA exit channels in addition to the catalytic center of RNA synthesis. The C-terminal domain of Rpb1 makes up part of the foot and jaw structures.
Probab=93.13 E-value=0.041 Score=43.21 Aligned_cols=31 Identities=16% Similarity=0.386 Sum_probs=27.7
Q ss_pred eEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 34 KLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 34 ~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
+|=||.+....+.++|+|+||+.|++-|++.
T Consensus 46 TLnTFH~AGVas~NVTlGVPRLkEIInasK~ 76 (410)
T cd02584 46 TLNTFHFAGVSAKNVTLGVPRLKEIINVAKN 76 (410)
T ss_pred cccccccccccccccccCccchHHHhhcccC
Confidence 4778889888899999999999999999875
No 21
>PF07831 PYNP_C: Pyrimidine nucleoside phosphorylase C-terminal domain; InterPro: IPR013102 This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases [, ]. It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside phosphorylase (PYNP, P77826 from SWISSPROT) there is an added three-stranded anti-parallel beta sheet as compared to other members of the family, such as Escherichia coli thymidine phosphorylase (TP, P07650 from SWISSPROT) []. The domain contains an alpha/ beta hammerhead fold and residues in this domain seem to be important in formation of the homodimer []. ; GO: 0016763 transferase activity, transferring pentosyl groups, 0006213 pyrimidine nucleoside metabolic process; PDB: 1AZY_A 1OTP_A 2TPT_A 3H5Q_A 1BRW_A 2WK5_C 2J0F_C 2WK6_B 1UOU_A 2DSJ_B ....
Probab=93.09 E-value=0.075 Score=32.60 Aligned_cols=29 Identities=21% Similarity=0.257 Sum_probs=23.6
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEeehh
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
...|-.++++-||.|++||+|+++.++..
T Consensus 30 ~~vGi~l~~k~Gd~V~~Gd~l~~i~~~~~ 58 (75)
T PF07831_consen 30 PAVGIELHKKVGDRVEKGDPLATIYANDE 58 (75)
T ss_dssp TT-EEEESS-TTSEEBTTSEEEEEEESSS
T ss_pred cCcCeEecCcCcCEECCCCeEEEEEcCCh
Confidence 45677899999999999999999998754
No 22
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=92.99 E-value=0.18 Score=38.88 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=24.9
Q ss_pred EEEEEeCCCcEE---EEecCcEEecCCeEEEEEeeh
Q 042693 10 ILIVQATPGAIS---FRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 10 ii~i~~~~ga~l---~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+..|+.+.|++| +|++||.|++||+|++|--..
T Consensus 59 ~~~vq~~~~G~v~~i~V~eG~~V~~G~~L~~ld~~~ 94 (457)
T TIGR01000 59 LSKIQSTSNNAIKENYLKENKFVKKGDLLVVYDNGN 94 (457)
T ss_pred eEEEEcCCCcEEEEEEcCCCCEecCCCEEEEECchH
Confidence 334446666665 699999999999999996443
No 23
>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A).
Probab=92.39 E-value=0.22 Score=35.85 Aligned_cols=32 Identities=13% Similarity=0.087 Sum_probs=24.1
Q ss_pred EEEeCCCcE---EEEecCcEEecCCeEEEEEeehh
Q 042693 12 IVQATPGAI---SFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 12 ~i~~~~ga~---l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.++.+.++. ++++.||.|++||+|++|-....
T Consensus 44 ~v~a~~~G~V~~i~v~~G~~V~kGq~L~~ld~~~~ 78 (334)
T TIGR00998 44 QVSSQVSGSVIEVNVDDTDYVKQGDVLVRLDPTNA 78 (334)
T ss_pred EEcccCceEEEEEEeCCCCEEcCCCEEEEECchHH
Confidence 444555555 47999999999999999975543
No 24
>TIGR03794 NHPM_micro_HlyD NHPM bacteriocin system secretion protein. Members of this protein family are homologs of the HlyD membrane fusion protein of type I secretion systems. Their occurrence in prokaryotic genomes is associated with the occurrence of a novel class of microcin (small bacteriocins) with a propeptide region related to nitrile hydratase. We designate the class of bacteriocin as Nitrile Hydratase Propeptide Microcin, or NHPM. This family, therefore, is designated as NHPM bacteriocin system secretion protein. Some but not all NHPM-class putative microcins belong to the TOMM (thiazole/oxazole modified microcin) class as assessed by the presence of the scaffolding protein and/or cyclodehydratase in the same gene clusters.
Probab=92.02 E-value=0.26 Score=37.32 Aligned_cols=38 Identities=18% Similarity=0.253 Sum_probs=29.2
Q ss_pred CCcEEEEEeCCCcEE---EEecCcEEecCCeEEEEEeehhc
Q 042693 7 SDQILIVQATPGAIS---FRHYGAFLHKGNKLVTFIYEKLR 44 (71)
Q Consensus 7 sGqii~i~~~~ga~l---~v~~G~~V~~G~~L~~l~~e~~k 44 (71)
+|.+..++.+.++.| +|++|+.|++|++|+++--....
T Consensus 55 ~~~~~~v~a~~~G~V~~i~V~eG~~V~kGq~L~~l~~~~~~ 95 (421)
T TIGR03794 55 SSGVDTIQSPGSGVVIDLDVEVGDQVKKGQVVARLFQPELR 95 (421)
T ss_pred CCceeEEECCCCeEEEEEECCCcCEECCCCEEEEECcHHHH
Confidence 445556666666665 69999999999999999876553
No 25
>TIGR00830 PTBA PTS system, glucose subfamily, IIA component. These are part of the The PTS Glucose-Glucoside (Glc) SuperFamily. The Glc family includes permeases specific for glucose, N-acetylglucosamine and a large variety of a- and b-glucosides. However, not all b-glucoside PTS permeases are in this class, as the cellobiose (Cel) b-glucoside PTS permease is in the Lac family (TC #4.A.3). The IIA, IIB and IIC domains of all of the permeases listed below are demonstrably homologous. These permeases show limited sequence similarity with members of the Fru family (TC #4.A.2). Several of the PTS permeases in the Glc family lack their own IIA domains and instead use the glucose IIA protein (IIAglc or Crr). Most of these permeases have the B and C domains linked together in a single polypeptide chain, and a cysteyl residue in the IIB domain is phosphorylated by direct phosphoryl transfer from IIAglc(his~P). Those permeases which lack a IIA domain include the maltose (Mal), arbutin-salicin-c
Probab=91.98 E-value=0.31 Score=32.55 Aligned_cols=30 Identities=23% Similarity=0.340 Sum_probs=25.7
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+++.||.|++||.|+++-.+.++..
T Consensus 80 ~gF~~~v~~Gd~V~~G~~l~~~D~~~i~~~ 109 (121)
T TIGR00830 80 EGFTSHVEEGQRVKKGDPLLEFDLKAIKKK 109 (121)
T ss_pred CceEEEecCCCEEcCCCEEEEEcHHHHHhc
Confidence 355778999999999999999998888754
No 26
>cd00210 PTS_IIA_glc PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation.
Probab=91.92 E-value=0.33 Score=32.52 Aligned_cols=31 Identities=23% Similarity=0.381 Sum_probs=26.3
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccCC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSCD 47 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~D 47 (71)
.|=..+++.||.|++|+.|+++-.+.++...
T Consensus 80 ~gF~~~vk~Gd~V~~G~~l~~~D~~~i~~~~ 110 (124)
T cd00210 80 EGFTSHVEEGQRVKQGDKLLEFDLPAIKAAG 110 (124)
T ss_pred CceEEEecCCCEEcCCCEEEEEcHHHHHhcC
Confidence 4666789999999999999999988887654
No 27
>TIGR02645 ARCH_P_rylase putative thymidine phosphorylase. Members of this family are closely related to characterized examples of thymidine phosphorylase (EC 2.4.2.4) and pyrimidine nucleoside phosphorylase (RC 2.4.2.2). Most examples are found in the archaea, but other examples in Legionella pneumophila str. Paris and Rhodopseudomonas palustris CGA009.
Probab=91.22 E-value=0.39 Score=38.90 Aligned_cols=39 Identities=18% Similarity=0.184 Sum_probs=33.1
Q ss_pred CCCCCcEEEEE----------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ----------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~----------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+++|.|..|. -..|-.+|++-||.|++||+|+++..+.
T Consensus 418 A~~~G~v~~id~~~i~~~a~~~GAp~d~~aGi~l~~k~Gd~V~~Gd~l~~i~a~~ 472 (493)
T TIGR02645 418 AETDGYVTEIDNKHITRIARLAGAPNDKGAGVELHVKVGDQVKKGDPLYTIYAES 472 (493)
T ss_pred cCCCeEEEEeehHHHHHHHHHcCCCcCcCcCeEEeccCCCEecCCCeEEEEECCC
Confidence 56789988888 2358899999999999999999998654
No 28
>TIGR03327 AMP_phos AMP phosphorylase. This enzyme family is found, so far, strictly in the Archaea, and only in those with a type III Rubisco enzyme. Most of the members previously were annotated as thymidine phosphorylase, or DeoA. The AMP metabolized by this enzyme may be produced by ADP-dependent sugar kinases.
Probab=90.89 E-value=0.39 Score=39.00 Aligned_cols=39 Identities=18% Similarity=0.192 Sum_probs=33.3
Q ss_pred CCCCCcEEEEE----------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ----------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~----------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+.+|.|..|. -..|-.+|.+-||.|++||+|+++..+.
T Consensus 419 A~~~G~v~~id~~~ig~~a~~lGA~id~~aGi~l~~k~Gd~V~~G~pl~~i~a~~ 473 (500)
T TIGR03327 419 APTDGYVTDIDNKAITQIAREAGAPNDKGAGVYLHVKVGEKVKKGDPLYTIYAES 473 (500)
T ss_pred CCCCeEEEEeehHHHHHHHHHcCCCcCcccCeEEeccCcCEeCCCCeEEEEECCC
Confidence 57789988888 3458899999999999999999998654
No 29
>PRK10559 p-hydroxybenzoic acid efflux subunit AaeA; Provisional
Probab=90.89 E-value=0.33 Score=35.79 Aligned_cols=34 Identities=15% Similarity=0.246 Sum_probs=24.3
Q ss_pred cEEEEEeCCCcE---EEEecCcEEecCCeEEEEEeeh
Q 042693 9 QILIVQATPGAI---SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 9 qii~i~~~~ga~---l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+++.+..+.++. ++|+.||.|++|++|++|--..
T Consensus 46 ~~v~i~~~v~G~V~~v~V~~Gd~VkkGqvLa~Ld~~~ 82 (310)
T PRK10559 46 DVVAIAPDVSGLITQVNVHDNQLVKKGQVLFTIDQPR 82 (310)
T ss_pred EEEEEccCCceEEEEEEeCCcCEEcCCCEEEEECcHH
Confidence 333444444443 4799999999999999997644
No 30
>TIGR02644 Y_phosphoryl pyrimidine-nucleoside phosphorylase. In general, members of this protein family are designated pyrimidine-nucleoside phosphorylase, enzyme family EC 2.4.2.2, as in Bacillus subtilis, and more narrowly as the enzyme family EC 2.4.2.4, thymidine phosphorylase (alternate name: pyrimidine phosphorylase), as in Escherichia coli. The set of proteins encompassed by this model is designated subfamily rather than equivalog for this reason; the protein name from this model should be used when TIGR02643 does not score above trusted cutoff.
Probab=90.86 E-value=0.37 Score=37.98 Aligned_cols=39 Identities=23% Similarity=0.264 Sum_probs=32.3
Q ss_pred CCCCCcEEEEE-----------------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ-----------------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~-----------------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+++|.|..|+ -..|-.+|.+-|+.|++||+|+++.++.
T Consensus 338 a~~~G~v~~id~~~ig~~~~~lGagr~~~~d~id~~aGi~l~~k~G~~V~~g~~l~~i~~~~ 399 (405)
T TIGR02644 338 AEKSGYISEIDAEELGLAAVDLGAGRARKEDKIDHEAGIYLHKKTGDRVKKGDPLATLYSSD 399 (405)
T ss_pred CCCCeEEEEechHHHHHHHHHhCCCcCCCCCCCCcCCCeEEecCCcCEeCCCCeEEEEeCCC
Confidence 56788887777 3458899999999999999999998653
No 31
>cd06850 biotinyl_domain The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase, oxaloacetate decarboxylase, methylmalonyl-CoA decarboxylase, transcarboxylase and urea amidolyase. This domain functions in transferring CO2 from one subsite to another, allowing carboxylation, decarboxylation, or transcarboxylation. During this process, biotin is covalently attached to a specific lysine.
Probab=90.86 E-value=0.51 Score=25.95 Aligned_cols=19 Identities=16% Similarity=0.209 Sum_probs=15.1
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
.+++.|+.|++|+.|+++-
T Consensus 13 ~~v~~G~~v~~g~~l~~i~ 31 (67)
T cd06850 13 VLVKEGDKVEAGQPLAVLE 31 (67)
T ss_pred EEeCCCCEECCCCEEEEEE
Confidence 4577788888999888774
No 32
>PRK04350 thymidine phosphorylase; Provisional
Probab=90.81 E-value=0.44 Score=38.52 Aligned_cols=39 Identities=18% Similarity=0.191 Sum_probs=33.2
Q ss_pred CCCCCcEEEEE----------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ----------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~----------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+.+|.|..|. -..|-.+|++-||.|++||+|+++..+.
T Consensus 410 A~~~G~v~~id~~~ig~~a~~lGap~d~~aGi~l~~k~Gd~V~~G~~l~~i~a~~ 464 (490)
T PRK04350 410 APRDGYVTAIDNRRLARIARLAGAPKDKGAGIDLHVKVGDKVKKGDPLYTIHAES 464 (490)
T ss_pred CCCCeEEEEeehHHHHHHHHHcCCCcCcccCeEEeccCCCEecCCCeEEEEecCC
Confidence 57789998888 3358899999999999999999998654
No 33
>PRK14898 DNA-directed RNA polymerase subunit A''; Provisional
Probab=90.78 E-value=0.25 Score=41.81 Aligned_cols=46 Identities=22% Similarity=0.389 Sum_probs=36.1
Q ss_pred CCcEEEE-ecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 17 PGAISFR-HYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 17 ~ga~l~v-~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
+|.+-++ .||= |. ..+|=||.+....+-++|+|+||..|++-|++.
T Consensus 528 ~g~hnFi~Angi-v~-~~~LnTFH~AGv~~~nVTlGvPRL~EIinask~ 574 (858)
T PRK14898 528 EGLETFTTADGV-VT-HNTMRTFHYAGVAEINVTLGLPRMIEIVDARKE 574 (858)
T ss_pred cCcceeeeeCCE-ee-ccccceeeccCccccccccCCchHHHHhcccCC
Confidence 4666665 5542 22 356889999999899999999999999998866
No 34
>PRK15136 multidrug efflux system protein EmrA; Provisional
Probab=90.71 E-value=0.39 Score=36.48 Aligned_cols=33 Identities=15% Similarity=0.218 Sum_probs=23.5
Q ss_pred cEEEEEeCCCcE---EEEecCcEEecCCeEEEEEee
Q 042693 9 QILIVQATPGAI---SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 9 qii~i~~~~ga~---l~v~~G~~V~~G~~L~~l~~e 41 (71)
.++.+..+..+. ++|++||.|++||+|++|--.
T Consensus 60 ~~v~v~a~v~G~V~~v~V~~Gd~VkkGqvL~~LD~~ 95 (390)
T PRK15136 60 NQVQIMSQVSGSVTKVWADNTDFVKEGDVLVTLDPT 95 (390)
T ss_pred eEEEEeccCCeEEEEEEcCCCCEECCCCEEEEECcH
Confidence 333444444433 479999999999999999754
No 35
>PRK09439 PTS system glucose-specific transporter subunit; Provisional
Probab=90.66 E-value=0.48 Score=33.26 Aligned_cols=30 Identities=17% Similarity=0.223 Sum_probs=25.9
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+++.||.|++||.|+++-.+.++..
T Consensus 102 ~gF~~~Vk~Gd~Vk~G~~L~~~D~~~i~~~ 131 (169)
T PRK09439 102 EGFKRIAEEGQRVKVGDPIIEFDLPLLEEK 131 (169)
T ss_pred CceEEEecCCCEEeCCCEEEEEcHHHHHhc
Confidence 356678999999999999999999888754
No 36
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=90.42 E-value=0.42 Score=38.07 Aligned_cols=39 Identities=15% Similarity=0.176 Sum_probs=32.2
Q ss_pred CCCCCcEEEEE-----------------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ-----------------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~-----------------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+++|.|..|. -..|-.+|++-||.|++||+|+++.++.
T Consensus 345 A~~~G~v~~id~~~ig~~a~~lGaGR~~~~~~id~~aGi~l~~k~G~~V~~Gd~l~~i~~~~ 406 (440)
T PRK05820 345 ADRSGVLSAMDTRALGMAVVRLGGGRRRKGDPIDYSVGLTLHARLGDRVDAGEPLATLHADD 406 (440)
T ss_pred CCCCeEEEEecHHHHHHHHHHhCCCcCCCCCCCCcCCCeEEccCCcCEECCCCeEEEEeCCC
Confidence 46788887777 3458899999999999999999998543
No 37
>TIGR02643 T_phosphoryl thymidine phosphorylase. Thymidine phosphorylase (alternate name: pyrimidine phosphorylase), EC 2.4.2.4, is the designation for the enzyme of E. coli and other Proteobacteria involved in (deoxy)nucleotide degradation. It often occurs in an operon with a deoxyribose-phosphate aldolase, phosphopentomutase and a purine nucleoside phosphorylase. In many other lineages, the corresponding enzyme is designated pyrimidine-nucleoside phosphorylase (EC 2.4.2.2); the naming convention imposed by this model represents standard literature practice.
Probab=90.17 E-value=0.46 Score=37.92 Aligned_cols=39 Identities=13% Similarity=0.126 Sum_probs=32.3
Q ss_pred CCCCCcEEEEE-----------------------eCCCcEEEEecCcEEecCCeEEEEEeeh
Q 042693 4 HLKSDQILIVQ-----------------------ATPGAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 4 ~~~sGqii~i~-----------------------~~~ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+++|.|..|. -..|-.+|.+-||.|++||+|+++.++.
T Consensus 344 A~~~G~v~~id~~~ig~~~~~lGaGr~~~~d~iD~~aGi~l~~k~Gd~V~~Gd~l~~i~~~~ 405 (437)
T TIGR02643 344 ADREGYVSEMDTRALGMAVVALGGGRRKADDTIDYSVGLTDLLPLGDRVEKGEPLAVVHAAD 405 (437)
T ss_pred CCCCeEEEEeeHHHHHHHHHHcCccccCCCCCcCcccCeEeccCCcCEeCCCCeEEEEECCC
Confidence 46688887777 3458899999999999999999998643
No 38
>COG0511 AccB Biotin carboxyl carrier protein [Lipid metabolism]
Probab=90.12 E-value=0.71 Score=30.97 Aligned_cols=17 Identities=18% Similarity=0.298 Sum_probs=10.4
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
++++||.|..|++|+.+
T Consensus 122 lv~~G~~Ve~G~~L~~I 138 (140)
T COG0511 122 LVKNGDPVEYGDPLAVI 138 (140)
T ss_pred EecCCCccCCCCEEEEe
Confidence 55666666666666654
No 39
>PRK03598 putative efflux pump membrane fusion protein; Provisional
Probab=89.99 E-value=0.49 Score=34.55 Aligned_cols=21 Identities=14% Similarity=-0.005 Sum_probs=18.8
Q ss_pred EEEecCcEEecCCeEEEEEee
Q 042693 21 SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e 41 (71)
++++.||.|++||+|++|--.
T Consensus 57 i~v~~Gd~V~kG~~L~~ld~~ 77 (331)
T PRK03598 57 LAVDEGDAVKAGQVLGELDAA 77 (331)
T ss_pred EEcCCCCEEcCCCEEEEEChH
Confidence 579999999999999999654
No 40
>PRK05889 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Provisional
Probab=89.96 E-value=1.1 Score=26.29 Aligned_cols=20 Identities=25% Similarity=0.257 Sum_probs=13.0
Q ss_pred EEecCcEEecCCeEEEEEee
Q 042693 22 FRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~~e 41 (71)
+++.||.|++|++|+++--.
T Consensus 17 ~v~~Gd~V~~g~~l~~ve~~ 36 (71)
T PRK05889 17 VVNEGDQIGKGDTLVLLESM 36 (71)
T ss_pred EeCCCCEECCCCEEEEEEec
Confidence 56667777777777655433
No 41
>PF00358 PTS_EIIA_1: phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1; InterPro: IPR001127 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. ; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3OUR_D 1GPR_A 1F3G_A 2F3G_B 1F3Z_A 1O2F_A 1GLB_F 1GGR_A 1GLA_F 1GLE_F ....
Probab=89.10 E-value=0.28 Score=33.09 Aligned_cols=30 Identities=23% Similarity=0.395 Sum_probs=22.7
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+++.||.|++|++|+++-.+.++..
T Consensus 84 ~gF~~~v~~G~~V~~G~~L~~~D~~~i~~~ 113 (132)
T PF00358_consen 84 EGFETLVKEGDKVKAGQPLIEFDLEKIKEA 113 (132)
T ss_dssp TTEEESS-TTSEE-TTEEEEEE-HHHHHHH
T ss_pred cceEEEEeCCCEEECCCEEEEEcHHHHHhc
Confidence 355678899999999999999998888754
No 42
>COG2190 NagE Phosphotransferase system IIA components [Carbohydrate transport and metabolism]
Probab=88.93 E-value=0.77 Score=32.24 Aligned_cols=29 Identities=21% Similarity=0.326 Sum_probs=25.3
Q ss_pred CcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 18 GAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
|=..+++.||.|++||.|+++-.+.+|..
T Consensus 88 gF~~~v~~Gd~Vk~Gd~Li~fDl~~Ik~~ 116 (156)
T COG2190 88 GFESLVKEGDKVKAGDPLLEFDLDLIKAK 116 (156)
T ss_pred ceEEEeeCCCEEccCCEEEEECHHHHhhc
Confidence 55678999999999999999998887765
No 43
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=88.88 E-value=0.72 Score=33.79 Aligned_cols=24 Identities=17% Similarity=0.178 Sum_probs=21.0
Q ss_pred EEEecCcEEecCCeEEEEEeehhc
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEKLR 44 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~~k 44 (71)
++|++||.|++|++|+++-...+.
T Consensus 57 i~V~eG~~V~kG~~L~~ld~~~~~ 80 (423)
T TIGR01843 57 ILVREGDRVKAGQVLVELDATDVE 80 (423)
T ss_pred EEeCCCCEecCCCeEEEEccchhh
Confidence 589999999999999999876653
No 44
>CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed
Probab=88.84 E-value=0.8 Score=41.09 Aligned_cols=27 Identities=4% Similarity=0.142 Sum_probs=25.1
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEee
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e 41 (71)
+|.||.|+|++|+.|++|++||...--
T Consensus 400 ip~gs~l~v~~g~~V~~~q~iae~~~~ 426 (1364)
T CHL00117 400 IPPKSLLLVQNDQYVESEQVIAEIRAG 426 (1364)
T ss_pred eCCCCEEEEeCcCEEcCCCEEEEECCC
Confidence 999999999999999999999988753
No 45
>cd02735 RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain. RNA polymerase I (RNAP I) is a multi-subunit protein complex responsible for the synthesis of rRNA precursor. It consists of at least 14 different subunits, and the largest one is homologous to subunit Rpb1 of yeast RNAP II and subunit beta' of bacterial RNAP. Rpa1 is also known as Rpa190 in yeast. Structure studies suggest that different RNAP complexes share a similar crab-claw-shape structure. The C-terminal domain of Rpb1, the largest subunit of RNAP II, makes up part of the foot and jaw structures of RNAP II. The similarity between this domain and the C-terminal domain of Rpb1, its counterpart in RNAP II, suggests a similar functional and structural role.
Probab=87.94 E-value=0.27 Score=37.17 Aligned_cols=32 Identities=16% Similarity=0.283 Sum_probs=26.7
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhh-hhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVL-EIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLf-EAR~~ 64 (71)
-+|=||.+....+.++|+|+||..|++ -|++.
T Consensus 28 MTLnTFH~AGv~~~nVTlGvPRL~EIi~~Ask~ 60 (309)
T cd02735 28 MTLNTFHFAGRGEMNVTLGIPRLREILMTASKN 60 (309)
T ss_pred cccccccccCccccccccccccHHHHHhhhccC
Confidence 357788888888899999999999998 66543
No 46
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=87.69 E-value=0.52 Score=34.70 Aligned_cols=29 Identities=14% Similarity=0.031 Sum_probs=22.5
Q ss_pred eCCCcE---EEEecCcEEecCCeEEEEEeehh
Q 042693 15 ATPGAI---SFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 15 ~~~ga~---l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.+.++. ++|+.||.|++|++|++|-....
T Consensus 53 ~~v~G~V~~v~V~~G~~VkkGq~L~~ld~~~~ 84 (346)
T PRK10476 53 SEVGGRIVELAVTENQAVKKGDLLFRIDPRPY 84 (346)
T ss_pred ccCceEEEEEEeCCCCEEcCCCEEEEECcHHH
Confidence 444444 47999999999999999986543
No 47
>PF06898 YqfD: Putative stage IV sporulation protein YqfD; InterPro: IPR010690 This family consists of several putative bacterial stage IV sporulation (SpoIV) proteins. YqfD of Bacillus subtilis (P54469 from SWISSPROT) is known to be essential for efficient sporulation although its exact function is unknown [].
Probab=87.37 E-value=1.1 Score=34.41 Aligned_cols=36 Identities=19% Similarity=0.282 Sum_probs=27.7
Q ss_pred CCCCCcEEEEEeCCCcEEEEecCcEEecCCeEEEEEe
Q 042693 4 HLKSDQILIVQATPGAISFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 4 ~~~sGqii~i~~~~ga~l~v~~G~~V~~G~~L~~l~~ 40 (71)
+.++|.|.++.+-.| ...|+.||.|++||+|+.=.-
T Consensus 194 A~kdGvI~~i~v~~G-~p~Vk~Gd~VkkGdvLISG~i 229 (385)
T PF06898_consen 194 AKKDGVITSIIVRSG-TPLVKVGDTVKKGDVLISGVI 229 (385)
T ss_pred ECCCCEEEEEEecCC-eEEecCCCEECCCCEEEeeeE
Confidence 456777777766555 778999999999999986543
No 48
>PF01333 Apocytochr_F_C: Apocytochrome F, C-terminal; InterPro: IPR002325 The cytochrome b6f integral membrane protein complex transfers electrons between the two reaction centre complexes of oxygenic photosynthetic membranes, and participates in formation of the transmembrane electrochemical proton gradient by also transferring protons from the stromal to the internal lumen compartment []. The cytochrome b6f complex contains four polypeptides: cytochrome f (285 aa); cytochrome b6 (215 aa); Rieske iron-sulphur protein (179 aa); and subunit IV (160 aa) []. In its structure and functions, the cytochrome b6f complex bears extensive analogy to the cytochrome bc1 complex of mitochondria and photosynthetic purple bacteria; cytochrome f (cyt f) plays a role analogous to that of cytochrome c1, in spite of their different structures [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0015979 photosynthesis, 0031361 integral to thylakoid membrane; PDB: 2E75_C 2E74_C 1VF5_P 2D2C_P 2E76_C 1TU2_B 2ZT9_C 1E2V_A 1CFM_A 1E2W_B ....
Probab=87.07 E-value=0.29 Score=33.26 Aligned_cols=25 Identities=12% Similarity=0.034 Sum_probs=16.2
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
+|+|-.|.|+.||.|+.|++|-.=|
T Consensus 40 IP~GpeLiV~eG~~V~~dqpLT~nP 64 (118)
T PF01333_consen 40 IPAGPELIVSEGQSVKADQPLTNNP 64 (118)
T ss_dssp EESSS-BS--TT-EETTT-BSB---
T ss_pred cCCCCeEEEcCCCEEecCCcccCCC
Confidence 9999999999999999999986544
No 49
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=87.05 E-value=1.7 Score=29.28 Aligned_cols=20 Identities=10% Similarity=0.091 Sum_probs=13.8
Q ss_pred EEecCcEEecCCeEEEEEee
Q 042693 22 FRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~~e 41 (71)
+++.||.|++|++|+.+--.
T Consensus 76 ~V~~Gd~V~~Gq~L~~lEam 95 (130)
T PRK06549 76 LVAVGDQVTENQPLLILEAM 95 (130)
T ss_pred EeCCCCEECCCCEEEEEecc
Confidence 56777777777777766443
No 50
>PRK06078 pyrimidine-nucleoside phosphorylase; Reviewed
Probab=86.50 E-value=1.2 Score=35.58 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=31.0
Q ss_pred CCCCCcEEEEE-----------------------eCCCcEEEEecCcEEecCCeEEEEE
Q 042693 4 HLKSDQILIVQ-----------------------ATPGAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 4 ~~~sGqii~i~-----------------------~~~ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
.+++|.|..|. -..|-.+|.+-||.|++||+|+++.
T Consensus 340 a~~~G~v~~id~~~ig~~~~~lGagr~~~~d~id~~aGi~l~~k~g~~V~~g~~l~~i~ 398 (434)
T PRK06078 340 AKESGYISELVADEIGLAAMLLGAGRATKEDEIDLAVGIVLRKKVGDSVKKGESLATIY 398 (434)
T ss_pred CCCCeEEEEeeHHHHHHHHHHcCCCCCCCCCccCcccCeEeccCCcCEeCCCCeEEEEe
Confidence 56788888887 3458899999999999999999997
No 51
>PRK05889 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Provisional
Probab=86.04 E-value=1.3 Score=25.97 Aligned_cols=35 Identities=14% Similarity=0.181 Sum_probs=23.8
Q ss_pred CCCCCcEEEEEeCCCc------E-----------------------EEEecCcEEecCCeEEEE
Q 042693 4 HLKSDQILIVQATPGA------I-----------------------SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 4 ~~~sGqii~i~~~~ga------~-----------------------l~v~~G~~V~~G~~L~~l 38 (71)
.|.+|.|.++++..|. . ++++.|+.|+.|++|+.+
T Consensus 7 a~~~G~i~~~~v~~Gd~V~~g~~l~~ve~~K~~~~I~a~~~G~V~~i~v~~G~~V~~G~~l~~i 70 (71)
T PRK05889 7 AEIVASVLEVVVNEGDQIGKGDTLVLLESMKMEIPVLAEVAGTVSKVSVSVGDVIQAGDLIAVI 70 (71)
T ss_pred CCCCEEEEEEEeCCCCEECCCCEEEEEEeccceeEEeCCCCEEEEEEEeCCCCEECCCCEEEEE
Confidence 5778888888844433 2 346677777777777765
No 52
>TIGR02876 spore_yqfD sporulation protein YqfD. YqfD is part of the sigma-E regulon in the sporulation program of endospore-forming Gram-positive bacteria. Mutation results in a sporulation defect in Bacillus subtilis. Members are found in all currently known endospore-forming bacteria, including the genera Bacillus, Symbiobacterium, Carboxydothermus, Clostridium, and Thermoanaerobacter.
Probab=85.72 E-value=1.5 Score=33.79 Aligned_cols=34 Identities=26% Similarity=0.262 Sum_probs=26.8
Q ss_pred CCCCCcEEEEEeCCCcEEEEecCcEEecCCeEEEE
Q 042693 4 HLKSDQILIVQATPGAISFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 4 ~~~sGqii~i~~~~ga~l~v~~G~~V~~G~~L~~l 38 (71)
+.++|.|..+.+..| .-.|+.||.|++||+|+.=
T Consensus 191 A~kdGvI~~i~v~~G-~p~Vk~GD~VkkGqvLIsG 224 (382)
T TIGR02876 191 AKKDGVIKRVYVTSG-EPVVKKGDVVKKGDLLISG 224 (382)
T ss_pred ECCCCEEEEEEEcCC-eEEEccCCEEcCCCEEEEe
Confidence 346677777766666 7789999999999999863
No 53
>PRK08225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=85.45 E-value=1.2 Score=25.83 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=14.8
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
++++.|+.|..|++|+.+
T Consensus 52 ~~~~~G~~V~~g~~l~~i 69 (70)
T PRK08225 52 INVQEGDFVNEGDVLLEI 69 (70)
T ss_pred EEecCCCEECCCCEEEEE
Confidence 468888899999888875
No 54
>PF12700 HlyD_2: HlyD family secretion protein; PDB: 3LNN_B 4DK0_A 4DK1_C 3FPP_B 2K32_A 2K33_A 3OW7_B 3OOC_A 3T53_B 4DNT_C ....
Probab=85.06 E-value=0.73 Score=32.50 Aligned_cols=24 Identities=21% Similarity=0.130 Sum_probs=16.7
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.++++.|+.|++|++|+++-...+
T Consensus 33 ~~~v~~G~~V~kG~~L~~ld~~~~ 56 (328)
T PF12700_consen 33 SVNVKEGDKVKKGQVLAELDSSDL 56 (328)
T ss_dssp EE-S-TTSEEETT-EEEEEE-HHH
T ss_pred EEEeCCcCEECCCCEEEEEEChhh
Confidence 347889999999999999976544
No 55
>TIGR01730 RND_mfp RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane.
Probab=84.19 E-value=0.96 Score=31.83 Aligned_cols=28 Identities=18% Similarity=0.092 Sum_probs=22.2
Q ss_pred eCCCcEE---EEecCcEEecCCeEEEEEeeh
Q 042693 15 ATPGAIS---FRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 15 ~~~ga~l---~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.|..+.+ +++.|+.|++|++|+++-...
T Consensus 31 a~~~G~V~~i~v~~G~~V~kG~~L~~l~~~~ 61 (322)
T TIGR01730 31 AEVAGKITKISVREGQKVKKGQVLARLDDDD 61 (322)
T ss_pred ccccEEEEEEEcCCCCEEcCCCEEEEECCHH
Confidence 5665664 589999999999999996443
No 56
>PF00364 Biotin_lipoyl: Biotin-requiring enzyme; InterPro: IPR000089 The biotin / lipoyl attachment domain has a conserved lysine residue that binds biotin or lipoic acid. Biotin plays a catalytic role in some carboxyl transfer reactions and is covalently attached, via an amide bond, to a lysine residue in enzymes requiring this coenzyme []. E2 acyltransferases have an essential cofactor, lipoic acid, which is covalently bound via an amide linkage to a lysine group []. The lipoic acid cofactor is found in a variety of proteins that include, H-protein of the glycine cleavage system (GCS), mammalian and yeast pyruvate dehydrogenases and fast migrating protein (FMP) (gene acoC) from Ralstonia eutropha (Alcaligenes eutrophus).; PDB: 2EJG_D 2D5D_A 2EJF_C 2EVB_A 1IYV_A 1IYU_A 1LAC_A 1LAB_A 1DCZ_A 1DD2_A ....
Probab=83.63 E-value=0.74 Score=27.32 Aligned_cols=24 Identities=21% Similarity=0.189 Sum_probs=19.4
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
..+++.|+.|++||+|+.+--.+.
T Consensus 19 ~~~v~~G~~V~~G~~l~~iet~K~ 42 (74)
T PF00364_consen 19 KWLVEEGDKVKKGDPLAEIETMKM 42 (74)
T ss_dssp EESSSTTEEESTTSEEEEEESSSE
T ss_pred EEEECCCCEEEcCceEEEEEcCcc
Confidence 367899999999999998865443
No 57
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=83.27 E-value=2.9 Score=28.81 Aligned_cols=21 Identities=19% Similarity=0.194 Sum_probs=15.8
Q ss_pred EEecCcEEecCCeEEEEEeeh
Q 042693 22 FRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+++.||.|++||.|+.+--.+
T Consensus 99 ~V~~Gd~V~~Gq~l~~iEamK 119 (153)
T PRK05641 99 LVREGQQVKVGQGLLILEAMK 119 (153)
T ss_pred EeCCCCEEcCCCEEEEEeecc
Confidence 578888888888888765444
No 58
>PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional
Probab=83.15 E-value=0.55 Score=41.85 Aligned_cols=31 Identities=23% Similarity=0.394 Sum_probs=26.5
Q ss_pred eEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 34 KLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 34 ~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
+|=|+.+....+.++|+|+||+.|++-||+.
T Consensus 997 TLnTFH~AGv~~~nvt~GvpRl~Eii~a~k~ 1027 (1321)
T PRK14977 997 TLRTFHAAGIKAMDVTHGLERFIELVDARAK 1027 (1321)
T ss_pred cccccccccccccCcccCccchHHhhhcccC
Confidence 4567778777788999999999999999875
No 59
>PRK08225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=82.87 E-value=1.6 Score=25.26 Aligned_cols=22 Identities=18% Similarity=0.218 Sum_probs=18.1
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
++++.|+.|++|++|+++--.+
T Consensus 15 ~~v~~G~~V~~g~~l~~ve~~k 36 (70)
T PRK08225 15 IVVKVGDTVEEGQDVVILESMK 36 (70)
T ss_pred EEeCCCCEECCCCEEEEEEcCC
Confidence 4688899999999999865444
No 60
>PF00364 Biotin_lipoyl: Biotin-requiring enzyme; InterPro: IPR000089 The biotin / lipoyl attachment domain has a conserved lysine residue that binds biotin or lipoic acid. Biotin plays a catalytic role in some carboxyl transfer reactions and is covalently attached, via an amide bond, to a lysine residue in enzymes requiring this coenzyme []. E2 acyltransferases have an essential cofactor, lipoic acid, which is covalently bound via an amide linkage to a lysine group []. The lipoic acid cofactor is found in a variety of proteins that include, H-protein of the glycine cleavage system (GCS), mammalian and yeast pyruvate dehydrogenases and fast migrating protein (FMP) (gene acoC) from Ralstonia eutropha (Alcaligenes eutrophus).; PDB: 2EJG_D 2D5D_A 2EJF_C 2EVB_A 1IYV_A 1IYU_A 1LAC_A 1LAB_A 1DCZ_A 1DD2_A ....
Probab=82.79 E-value=2.6 Score=24.92 Aligned_cols=24 Identities=21% Similarity=0.227 Sum_probs=19.0
Q ss_pred eCCCcEE---EEecCcEEecCCeEEEE
Q 042693 15 ATPGAIS---FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 15 ~~~ga~l---~v~~G~~V~~G~~L~~l 38 (71)
+|..+++ +++.|+.|..|++|+++
T Consensus 48 a~~~G~i~~i~v~~G~~V~~G~~l~~I 74 (74)
T PF00364_consen 48 APVSGIIKEILVEEGDTVEVGQVLAII 74 (74)
T ss_dssp BSSSEEEEEESSTTTEEEETTSEEEEE
T ss_pred CCCCEEEEEEEECCCCEECCCCEEEEC
Confidence 6655554 57789999999999975
No 61
>PRK11578 macrolide transporter subunit MacA; Provisional
Probab=82.60 E-value=1.3 Score=32.94 Aligned_cols=21 Identities=19% Similarity=-0.040 Sum_probs=18.5
Q ss_pred EEEecCcEEecCCeEEEEEee
Q 042693 21 SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e 41 (71)
++++.|+.|++|++|+++-..
T Consensus 75 v~v~~G~~V~kG~~L~~ld~~ 95 (370)
T PRK11578 75 LSVAIGDKVKKDQLLGVIDPE 95 (370)
T ss_pred EEcCCCCEEcCCCEEEEECcH
Confidence 478999999999999999654
No 62
>PRK11556 multidrug efflux system subunit MdtA; Provisional
Probab=82.43 E-value=1.2 Score=34.05 Aligned_cols=20 Identities=15% Similarity=0.064 Sum_probs=18.1
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
++++.|+.|++|++|++|--
T Consensus 101 i~v~eG~~VkkGq~La~ld~ 120 (415)
T PRK11556 101 LHFQEGQQVKAGDLLAEIDP 120 (415)
T ss_pred EECCCCCEecCCCEEEEECc
Confidence 57999999999999999964
No 63
>COG0845 AcrA Membrane-fusion protein [Cell envelope biogenesis, outer membrane]
Probab=82.41 E-value=1.3 Score=30.55 Aligned_cols=21 Identities=19% Similarity=0.102 Sum_probs=19.1
Q ss_pred EEEEecCcEEecCCeEEEEEe
Q 042693 20 ISFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~ 40 (71)
.++|++||.|++|+.|+.+--
T Consensus 79 ~i~v~~G~~Vk~Gq~L~~ld~ 99 (372)
T COG0845 79 EILVKEGDRVKKGQLLARLDP 99 (372)
T ss_pred EEEccCCCeecCCCEEEEECC
Confidence 468999999999999999876
No 64
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=82.18 E-value=2.1 Score=35.47 Aligned_cols=30 Identities=17% Similarity=0.224 Sum_probs=26.4
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+++.||.|++||.|+++-.+.++..
T Consensus 560 ~gF~~~v~~Gd~V~~G~~l~~~D~~~i~~~ 589 (627)
T PRK09824 560 KFFTAHVNVGDKVNTGDLLIEFDIPAIREA 589 (627)
T ss_pred CCceEEecCCCEEcCCCEEEEEcHHHHHhc
Confidence 466789999999999999999999988864
No 65
>PRK07051 hypothetical protein; Validated
Probab=82.16 E-value=1.7 Score=26.19 Aligned_cols=18 Identities=17% Similarity=0.185 Sum_probs=15.7
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
+++++|+.|..|++|+++
T Consensus 61 i~~~~G~~V~~G~~l~~i 78 (80)
T PRK07051 61 FLVEDGEPVEAGQVLARI 78 (80)
T ss_pred EEcCCcCEECCCCEEEEE
Confidence 568899999999999987
No 66
>TIGR01995 PTS-II-ABC-beta PTS system, beta-glucoside-specific IIABC component. This model represents a family of PTS enzyme II proteins in which all three domains are found in the same polypeptide chain and which appear to have a broad specificity for beta-glucosides including salicin (beta-D-glucose-1-salicylate) and arbutin (Hydroquinone-O-beta-D-glucopyranoside). These are distinct from the closely related sucrose-specific and trehalose-specific PTS transporters.
Probab=81.72 E-value=2.3 Score=34.76 Aligned_cols=30 Identities=23% Similarity=0.399 Sum_probs=26.4
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+++.||.|++||.|+++-.+.+|..
T Consensus 544 ~gF~~~v~~g~~V~~G~~l~~~d~~~i~~~ 573 (610)
T TIGR01995 544 EGFEILVKVGDHVKAGQLLLTFDLDKIKEA 573 (610)
T ss_pred CCeEEEecCcCEEcCCCEEEEecHHHHHhc
Confidence 355778999999999999999999998865
No 67
>PRK09578 periplasmic multidrug efflux lipoprotein precursor; Reviewed
Probab=81.55 E-value=1.3 Score=33.16 Aligned_cols=22 Identities=14% Similarity=0.031 Sum_probs=18.9
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
++++.||.|++|++|++|--..
T Consensus 77 v~v~~Gd~VkkGq~La~ld~~~ 98 (385)
T PRK09578 77 RTYEEGQEVKQGAVLFRIDPAP 98 (385)
T ss_pred EECCCCCEEcCCCEEEEECCHH
Confidence 4799999999999999996543
No 68
>PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional
Probab=81.16 E-value=2.7 Score=40.46 Aligned_cols=40 Identities=20% Similarity=0.231 Sum_probs=31.6
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEE----------eehhccCCccCchhh
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFI----------YEKLRSCDLTRALSK 54 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~----------~e~~kt~DItqGLPk 54 (71)
+|-||+|+|++|+.|++|++|+..- ....+..||+.|.-=
T Consensus 2418 i~yga~l~v~~g~~V~~g~~la~wdp~~~piisE~~G~v~f~d~~~g~t~ 2467 (2836)
T PRK14844 2418 VPYGAKLYVDEGGSVKIGDKVAEWDPYTLPIITEKTGTVSYQDLKDGISI 2467 (2836)
T ss_pred cccccEEEecCCCEecCCCEEEEEcCCCcceEeecceEEEEEEEecceeE
Confidence 9999999999999999999999753 234456677776543
No 69
>PRK09859 multidrug efflux system protein MdtE; Provisional
Probab=80.38 E-value=1.5 Score=32.83 Aligned_cols=21 Identities=14% Similarity=0.034 Sum_probs=18.7
Q ss_pred EEEecCcEEecCCeEEEEEee
Q 042693 21 SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e 41 (71)
++++.|+.|++|++|++|--.
T Consensus 75 i~v~~G~~VkkGqvLa~ld~~ 95 (385)
T PRK09859 75 RNFIEGDKVNQGDSLYQIDPA 95 (385)
T ss_pred EEcCCcCEecCCCEEEEECcH
Confidence 479999999999999999754
No 70
>COG0213 DeoA Thymidine phosphorylase [Nucleotide transport and metabolism]
Probab=80.38 E-value=2.9 Score=33.71 Aligned_cols=25 Identities=28% Similarity=0.426 Sum_probs=22.8
Q ss_pred CCcEEEEecCcEEecCCeEEEEEee
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e 41 (71)
.|-.+|.+-|+.|++||+|+++..+
T Consensus 377 aGi~l~kk~ge~Vk~Gd~l~tiya~ 401 (435)
T COG0213 377 AGIYLHKKLGEKVKKGDPLATIYAE 401 (435)
T ss_pred cceEEEecCCCeeccCCeEEEEecC
Confidence 5889999999999999999999874
No 71
>PRK10255 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional
Probab=80.35 E-value=2.6 Score=35.14 Aligned_cols=30 Identities=17% Similarity=0.223 Sum_probs=26.4
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehhccC
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.|=..+|+.||.|++||.|+++-.+.++..
T Consensus 580 ~gF~~~Vk~Gd~V~~G~~l~~~D~~~i~~~ 609 (648)
T PRK10255 580 KGFKRLVEEGAQVSAGQPILEMDLDYLNAN 609 (648)
T ss_pred CCceEEecCCCEEcCCCEEEEEcHHHHHhc
Confidence 466778999999999999999999988764
No 72
>PRK06748 hypothetical protein; Validated
Probab=80.32 E-value=2.3 Score=26.82 Aligned_cols=20 Identities=15% Similarity=0.127 Sum_probs=17.2
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
.+++.||.|++|++|+.+--
T Consensus 18 w~vk~GD~V~~gd~l~~IET 37 (83)
T PRK06748 18 LFVRESSYVYEWEKLALIET 37 (83)
T ss_pred EEeCCCCEECCCCEEEEEEc
Confidence 47889999999999998866
No 73
>COG0511 AccB Biotin carboxyl carrier protein [Lipid metabolism]
Probab=80.30 E-value=1.9 Score=28.89 Aligned_cols=19 Identities=21% Similarity=0.352 Sum_probs=16.8
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
++|+.||.|++|++|+.+=
T Consensus 84 ~~V~vGd~V~~Gq~l~IiE 102 (140)
T COG0511 84 PFVEVGDTVKAGQTLAIIE 102 (140)
T ss_pred EeeccCCEEcCCCEEEEEE
Confidence 4799999999999999763
No 74
>CHL00037 petA cytochrome f
Probab=79.21 E-value=3.2 Score=32.34 Aligned_cols=25 Identities=16% Similarity=0.138 Sum_probs=22.6
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
+|+|..|.|+.||.|+.|++|-.=|
T Consensus 242 iP~Gp~LiVs~G~~v~~~qpLTnnP 266 (320)
T CHL00037 242 IPPGPELLVSEGESIKLDQPLTNNP 266 (320)
T ss_pred eCCCCeEEEecCceEecCCcccCCC
Confidence 8999999999999999999986554
No 75
>PRK15030 multidrug efflux system transporter AcrA; Provisional
Probab=78.79 E-value=1.8 Score=32.74 Aligned_cols=21 Identities=14% Similarity=-0.015 Sum_probs=18.5
Q ss_pred EEEecCcEEecCCeEEEEEee
Q 042693 21 SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e 41 (71)
++++.||.|++|++|++|--.
T Consensus 79 v~v~~Gd~VkkGqvLa~ld~~ 99 (397)
T PRK15030 79 RNFKEGSDIEAGVSLYQIDPA 99 (397)
T ss_pred EEcCCCCEecCCCEEEEECCH
Confidence 479999999999999999643
No 76
>PRK02693 apocytochrome f; Reviewed
Probab=78.12 E-value=3.6 Score=31.92 Aligned_cols=25 Identities=16% Similarity=0.137 Sum_probs=22.8
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
+|+|..|.|+.||.|+.|++|-.=|
T Consensus 234 iP~GpeliV~eG~~v~~dqpLTnnP 258 (312)
T PRK02693 234 IPAGPELIVKEGDTVEAGDPLTNDP 258 (312)
T ss_pred cCCCCeEEEecCcEEecCCcccCCC
Confidence 9999999999999999999987654
No 77
>PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=77.52 E-value=4.9 Score=36.33 Aligned_cols=32 Identities=16% Similarity=0.169 Sum_probs=27.7
Q ss_pred EEEEEeCCCcEEEEecCcEEecCCeEEEEEee
Q 042693 10 ILIVQATPGAISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 10 ii~i~~~~ga~l~v~~G~~V~~G~~L~~l~~e 41 (71)
...+.+|+++.|+|++|+.|+++.+||.+...
T Consensus 394 ~~~~~ip~~s~l~v~~~q~v~~~q~iae~~~~ 425 (1331)
T PRK02597 394 PQKIEITQGSLLFVDDGQTVEADQLLAEVAAG 425 (1331)
T ss_pred eEEEEeCCCCEEEEECCcEEecCcEEEEeecC
Confidence 33444999999999999999999999998864
No 78
>TIGR00531 BCCP acetyl-CoA carboxylase, biotin carboxyl carrier protein. The gene name is accB or fabE.
Probab=77.46 E-value=2.1 Score=29.29 Aligned_cols=28 Identities=29% Similarity=0.354 Sum_probs=22.0
Q ss_pred CCCcEEEEecCcEEecCCeEEEEEeehh
Q 042693 16 TPGAISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 16 ~~ga~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
++++-.+++.||.|++|++|+.+--.+.
T Consensus 96 ~P~~~~~v~~Gd~V~~Gq~l~iiEamK~ 123 (156)
T TIGR00531 96 SPDAKPFVEVGDKVKKGQIVCIVEAMKL 123 (156)
T ss_pred CCCCCccccCCCEeCCCCEEEEEEeccc
Confidence 4566678999999999999987754443
No 79
>PRK06302 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=76.85 E-value=2.1 Score=29.15 Aligned_cols=29 Identities=24% Similarity=0.365 Sum_probs=23.5
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEeehh
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
-++++-.+++.||.|++|++|+.+--.+.
T Consensus 94 ~sP~~~~~v~~Gd~V~~Gq~l~~iEamK~ 122 (155)
T PRK06302 94 PSPDAPPFVEVGDTVKEGQTLCIIEAMKV 122 (155)
T ss_pred CCCCCCcccCCCCEeCCCCEEEEEEeccc
Confidence 34677778999999999999998765554
No 80
>PF02749 QRPTase_N: Quinolinate phosphoribosyl transferase, N-terminal domain; InterPro: IPR022412 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0016763 transferase activity, transferring pentosyl groups; PDB: 3L0G_B 1QAP_A 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 2I14_C 1X1O_B 2B7Q_B ....
Probab=76.61 E-value=2.1 Score=26.28 Aligned_cols=21 Identities=10% Similarity=0.105 Sum_probs=16.0
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++++|+.|.+|++|+++.
T Consensus 47 v~~~~~dG~~v~~g~~i~~i~ 67 (88)
T PF02749_consen 47 VEWLVKDGDRVEPGDVILEIE 67 (88)
T ss_dssp EEESS-TT-EEETTCEEEEEE
T ss_pred EEEEeCCCCCccCCcEEEEEE
Confidence 345789999999999999875
No 81
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=75.91 E-value=2.9 Score=32.43 Aligned_cols=21 Identities=14% Similarity=0.033 Sum_probs=18.4
Q ss_pred EEEEecCcEEecCCeEEEEEe
Q 042693 20 ISFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~ 40 (71)
-+.|++++.|++||+|++|--
T Consensus 66 eV~V~dnq~Vk~Gd~L~~iD~ 86 (352)
T COG1566 66 EVNVKDNQLVKKGDVLFRIDP 86 (352)
T ss_pred EEEecCCCEecCCCeEEEECc
Confidence 457999999999999999864
No 82
>PRK07051 hypothetical protein; Validated
Probab=74.27 E-value=4 Score=24.49 Aligned_cols=25 Identities=16% Similarity=0.135 Sum_probs=20.5
Q ss_pred CcEEEEecCcEEecCCeEEEEEeeh
Q 042693 18 GAISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+.-++++.|+.|++|++++++--.+
T Consensus 21 ~~~~~v~~Gd~V~~g~~l~~ve~~k 45 (80)
T PRK07051 21 DAPPYVEVGDAVAAGDVVGLIEVMK 45 (80)
T ss_pred CCCCccCCCCEECCCCEEEEEEEcc
Confidence 4557799999999999999976543
No 83
>KOG0261 consensus RNA polymerase III, large subunit [Transcription]
Probab=73.23 E-value=2.4 Score=37.91 Aligned_cols=32 Identities=19% Similarity=0.380 Sum_probs=28.7
Q ss_pred CeEEEEEeehhccCCccCchhhHhhhhhhcCC
Q 042693 33 NKLVTFIYEKLRSCDLTRALSKVKQVLEIRSF 64 (71)
Q Consensus 33 ~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~ 64 (71)
-+|-|+.+....+-.||||.|||.|+.-|-++
T Consensus 1045 MTLKTFHFAGVASMNiTlGVPRIkEIINAsk~ 1076 (1386)
T KOG0261|consen 1045 MTLKTFHFAGVASMNITLGVPRIKEIINASKT 1076 (1386)
T ss_pred eeeeeeeecceeeeeeccCcchHHHHHhhhcc
Confidence 36889999999999999999999999998765
No 84
>TIGR00531 BCCP acetyl-CoA carboxylase, biotin carboxyl carrier protein. The gene name is accB or fabE.
Probab=72.88 E-value=11 Score=25.74 Aligned_cols=18 Identities=17% Similarity=0.274 Sum_probs=16.5
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
+++++|+.|..|+.|+.+
T Consensus 138 i~v~~g~~V~~Gq~L~~i 155 (156)
T TIGR00531 138 ILVENGQPVEYGQPLIVI 155 (156)
T ss_pred EEeCCCCEECCCCEEEEE
Confidence 589999999999999975
No 85
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=72.28 E-value=4.3 Score=27.38 Aligned_cols=35 Identities=23% Similarity=0.271 Sum_probs=23.7
Q ss_pred CCCCCcEEEEEeCCCcEE-----------------------------EEecCcEEecCCeEEEE
Q 042693 4 HLKSDQILIVQATPGAIS-----------------------------FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 4 ~~~sGqii~i~~~~ga~l-----------------------------~v~~G~~V~~G~~L~~l 38 (71)
++.+|.|+.+++..|..+ +++.||.|..|++|+++
T Consensus 66 Ap~~G~V~~i~V~~Gd~V~~Gq~L~~lEamKme~eI~Ap~~G~V~~i~v~~Gd~V~~G~~L~~I 129 (130)
T PRK06549 66 SPMPGTILKVLVAVGDQVTENQPLLILEAMKMENEIVASSAGTVTAIHVTPGQVVNPGDGLITI 129 (130)
T ss_pred CCCCEEEEEEEeCCCCEECCCCEEEEEeccCccEEEEcCCCeEEEEEEeCCCCEeCCCCEEEEe
Confidence 566788888885555443 35667777777777765
No 86
>PF13437 HlyD_3: HlyD family secretion protein
Probab=71.91 E-value=6.3 Score=23.77 Aligned_cols=29 Identities=10% Similarity=0.138 Sum_probs=20.6
Q ss_pred CCCCCcEEEEEeCCCcEEEEecCcEEecCCeEEEEEe
Q 042693 4 HLKSDQILIVQATPGAISFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 4 ~~~sGqii~i~~~~ga~l~v~~G~~V~~G~~L~~l~~ 40 (71)
+|.+|.|..+ .++.|++|.+|++|+++.-
T Consensus 4 AP~~G~V~~~--------~~~~G~~v~~g~~l~~i~~ 32 (105)
T PF13437_consen 4 APFDGVVVSI--------NVQPGEVVSAGQPLAEIVD 32 (105)
T ss_pred CCCCEEEEEE--------eCCCCCEECCCCEEEEEEc
Confidence 4556665433 3566899999999998764
No 87
>PRK06748 hypothetical protein; Validated
Probab=70.11 E-value=6.8 Score=24.63 Aligned_cols=31 Identities=13% Similarity=-0.036 Sum_probs=22.6
Q ss_pred eCCCcE---EEEecCcEEecCCeEEEEEeehhcc
Q 042693 15 ATPGAI---SFRHYGAFLHKGNKLVTFIYEKLRS 45 (71)
Q Consensus 15 ~~~ga~---l~v~~G~~V~~G~~L~~l~~e~~kt 45 (71)
+|..++ ++++.||.|..|++|+.+--..+-+
T Consensus 47 Ap~~G~v~~i~v~~Gd~V~vG~~la~I~~~~~~~ 80 (83)
T PRK06748 47 VGISGYIESLEVVEGQAIADQKLLITVRDDLLIT 80 (83)
T ss_pred cCCCEEEEEEEeCCCCEECCCCEEEEEECCeeec
Confidence 444444 4689999999999999985444433
No 88
>TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form. Bacteria have a single DNA-directed RNA polymerase, with required subunits that include alpha, beta, and beta-prime. This model describes the predominant architecture of the beta-prime subunit in most bacteria. This model excludes from among the bacterial mostly sequences from the cyanobacteria, where RpoC is replaced by two tandem genes homologous to it but also encoding an additional domain.
Probab=69.96 E-value=7.7 Score=34.56 Aligned_cols=34 Identities=24% Similarity=0.210 Sum_probs=27.6
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhh
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEI 61 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEA 61 (71)
+|.++++.|++||.|++|+.|. .|-+-..++|+.
T Consensus 962 ip~~~~l~v~~gd~V~~G~~l~-------------~g~~~~~~il~v 995 (1140)
T TIGR02386 962 IPFGAQLRVKDGDSVSAGDKLT-------------EGSIDPHDLLRI 995 (1140)
T ss_pred ccCCceEEecCCCEEccCCccc-------------CCCCCHHHHHHh
Confidence 9999999999999999999886 455555566553
No 89
>TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit. The family consists of the product of the rpoC2 gene, a subunit of DNA-directed RNA polymerase of cyanobacteria and chloroplasts. RpoC2 corresponds largely to the C-terminal region of the RpoC (the beta' subunit) of other bacteria. Members of this family are designated beta'' in chloroplasts/plastids, and beta' (confusingly) in Cyanobacteria, where RpoC1 is called beta' in chloroplasts/plastids and gamma in Cyanobacteria. We prefer to name this family beta'', after its organellar members, to emphasize that this RpoC1 and RpoC2 together replace RpoC in other bacteria.
Probab=69.00 E-value=11 Score=34.06 Aligned_cols=30 Identities=20% Similarity=0.336 Sum_probs=26.8
Q ss_pred EEEeCCCcEEEEecCcEEecCCeEEEEEee
Q 042693 12 IVQATPGAISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 12 ~i~~~~ga~l~v~~G~~V~~G~~L~~l~~e 41 (71)
.+.+|+++.|+|++|+.|+++.+||.+...
T Consensus 396 ~~~ip~~s~l~v~~~q~v~~~q~iae~~~~ 425 (1227)
T TIGR02388 396 EIEVTQGSLLFVEDGQTVDAGQLLAEIALG 425 (1227)
T ss_pred EEEECCCCEEEEECCCEEecCcEEEEeccC
Confidence 344999999999999999999999998864
No 90
>PRK09783 copper/silver efflux system membrane fusion protein CusB; Provisional
Probab=68.52 E-value=4.7 Score=30.92 Aligned_cols=17 Identities=24% Similarity=0.380 Sum_probs=16.2
Q ss_pred EecCcEEecCCeEEEEE
Q 042693 23 RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 23 v~~G~~V~~G~~L~~l~ 39 (71)
+..||.|++|++|++|-
T Consensus 140 ~~~Gd~VkkGq~La~l~ 156 (409)
T PRK09783 140 LTVGDKVQKGTPLLDLT 156 (409)
T ss_pred cCCCCEECCCCEEEEEe
Confidence 78999999999999997
No 91
>cd06849 lipoyl_domain Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid dehydrogenase (BCDH), contain at least three different enzymes, 2-oxo acid dehydrogenase (E1), dihydrolipoyl acyltransferase (E2) and dihydrolipoamide dehydrogenase (E3) and play a key role in redox regulation. E2, the central component of the complex, catalyzes the transfer of the acyl group of CoA from E1 to E3 via reductive acetylation of a lipoyl group covalently attached to a lysine residue.
Probab=67.90 E-value=9.1 Score=20.08 Aligned_cols=22 Identities=14% Similarity=0.125 Sum_probs=17.9
Q ss_pred EEEEecCcEEecCCeEEEEEee
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e 41 (71)
..+++.|+.+..|++++.+.-.
T Consensus 19 ~~~~~~g~~v~~~~~l~~~~~~ 40 (74)
T cd06849 19 EWLVKEGDSVEEGDVLAEVETD 40 (74)
T ss_pred EEEECCCCEEcCCCEEEEEEeC
Confidence 3578899999999999988444
No 92
>PF01551 Peptidase_M23: Peptidase family M23; InterPro: IPR016047 Members of this family are zinc metallopeptidases with a range of specificities. The peptidase family M23 is included in this family, these are Gly-Gly endopeptidases. Peptidase family M23 are also endopeptidases. This family also includes some bacterial lipoproteins such as Swiss:P33648 for which no proteolytic activity has been demonstrated. This family also includes leukocyte cell-derived chemotaxin 2 (LECT2) proteins. LECT2 is a liver-specific protein which is thought to be linked to hepatocyte growth although the exact function of this protein is unknown.; PDB: 3IT5_A 3IT7_B 2GU1_A 3NYY_A 2HSI_B 3SLU_B 3UZ0_D 3TUF_B 1QWY_A 2B44_B ....
Probab=67.20 E-value=4.7 Score=24.23 Aligned_cols=18 Identities=17% Similarity=0.084 Sum_probs=14.4
Q ss_pred EecCcEEecCCeEEEEEe
Q 042693 23 RHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 23 v~~G~~V~~G~~L~~l~~ 40 (71)
++.||.|++|+.|+++--
T Consensus 57 v~~G~~V~~G~~IG~~g~ 74 (96)
T PF01551_consen 57 VKVGDRVKAGQVIGTVGN 74 (96)
T ss_dssp S-TTSEE-TTCEEEEEBS
T ss_pred ceecccccCCCEEEecCC
Confidence 788999999999999873
No 93
>PRK06302 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=66.79 E-value=16 Score=24.88 Aligned_cols=18 Identities=17% Similarity=0.196 Sum_probs=16.4
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
+++++|+.|..|+.|+.+
T Consensus 137 i~v~~g~~V~~Gq~L~~i 154 (155)
T PRK06302 137 ILVENGQPVEFGQPLFVI 154 (155)
T ss_pred EEcCCCCEeCCCCEEEEe
Confidence 579999999999999976
No 94
>PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional
Probab=64.69 E-value=12 Score=33.54 Aligned_cols=35 Identities=17% Similarity=0.268 Sum_probs=27.7
Q ss_pred eCCCcEEEEecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhc
Q 042693 15 ATPGAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIR 62 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR 62 (71)
+|.++.+.|++||.|++|+.|. .|-+-..+++|..
T Consensus 964 vp~~~~~~v~~gd~v~~G~~l~-------------~g~~~~~~il~v~ 998 (1156)
T PRK00566 964 IPKGKHLLVQEGDHVEAGDKLT-------------DGSIDPHDILRVL 998 (1156)
T ss_pred ccCCCeeeecCCCEEccCCccc-------------CCCCCHHHHHHhc
Confidence 9999999999999999999873 3555566666543
No 95
>cd06663 Biotinyl_lipoyl_domains Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl, or methylamine, respectively, between components of the complex/protein via a biotinyl or lipoyl group, which is covalently attached to a highly conserved lysine residue.
Probab=63.73 E-value=10 Score=21.57 Aligned_cols=22 Identities=23% Similarity=0.273 Sum_probs=18.1
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.+++.|+.|.+|++|+++-..+
T Consensus 19 ~~v~~G~~v~~g~~l~~ie~~k 40 (73)
T cd06663 19 WLKKVGDKVKKGDVLAEIEAMK 40 (73)
T ss_pred EEcCCcCEECCCCEEEEEEeCC
Confidence 4678999999999999985544
No 96
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=63.57 E-value=7.9 Score=26.62 Aligned_cols=17 Identities=18% Similarity=0.393 Sum_probs=11.2
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.|+.|..|+.|+++
T Consensus 136 ~v~~Gd~V~~Gq~L~~I 152 (153)
T PRK05641 136 LVKEGDTVDTGQPLIEL 152 (153)
T ss_pred EcCCCCEECCCCEEEEe
Confidence 35667777777777665
No 97
>PRK14875 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional
Probab=61.24 E-value=10 Score=26.84 Aligned_cols=17 Identities=24% Similarity=0.436 Sum_probs=9.3
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.||.|++||+|+.+
T Consensus 23 ~~~~g~~v~~~~~~~~~ 39 (371)
T PRK14875 23 LVQEGDEVEKGDELLDV 39 (371)
T ss_pred EcCCCCEeCCCCEEEEE
Confidence 44555555555555544
No 98
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=59.92 E-value=6.1 Score=27.28 Aligned_cols=15 Identities=27% Similarity=0.273 Sum_probs=13.8
Q ss_pred CcEEecCCeEEEEEe
Q 042693 26 GAFLHKGNKLVTFIY 40 (71)
Q Consensus 26 G~~V~~G~~L~~l~~ 40 (71)
|+.|++|++|+++--
T Consensus 1 G~~VkkG~~L~~ld~ 15 (265)
T TIGR00999 1 GDPVKKGQVLAVVDS 15 (265)
T ss_pred CCcccCCCEEEEEcc
Confidence 899999999999985
No 99
>PF13142 DUF3960: Domain of unknown function (DUF3960)
Probab=59.18 E-value=5.1 Score=25.93 Aligned_cols=33 Identities=15% Similarity=0.236 Sum_probs=30.3
Q ss_pred CcEEEEecCcEEecCCeEEEEEeehhccCCccC
Q 042693 18 GAISFRHYGAFLHKGNKLVTFIYEKLRSCDLTR 50 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~~e~~kt~DItq 50 (71)
.+++..++.+++++-..++++.|..-+.-+|+|
T Consensus 40 rTIl~w~~KefyKeenli~~i~Ygm~~~~~lp~ 72 (87)
T PF13142_consen 40 RTILMWKEKEFYKEENLIPFILYGMKKGYQLPQ 72 (87)
T ss_pred eEEeeechhhHHhhhccceeEEeeccccccCcc
Confidence 678999999999999999999999998888775
No 100
>PLN02226 2-oxoglutarate dehydrogenase E2 component
Probab=58.97 E-value=19 Score=29.01 Aligned_cols=18 Identities=17% Similarity=0.268 Sum_probs=14.4
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.||.|..|++|+.+-
T Consensus 149 lv~eGd~V~vG~~L~~I~ 166 (463)
T PLN02226 149 LVKEGDTVEPGTKVAIIS 166 (463)
T ss_pred EeCCCCEecCCCEEEEec
Confidence 678888888888888774
No 101
>COG0157 NadC Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]
Probab=57.17 E-value=11 Score=28.84 Aligned_cols=20 Identities=15% Similarity=0.117 Sum_probs=17.7
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
..++++|+.|++|++|+++.
T Consensus 67 ~~~~~DG~~v~~g~~i~~~~ 86 (280)
T COG0157 67 QWLVKDGDRVKPGDVLAEIE 86 (280)
T ss_pred EEEcCCCCEeCCCCEEEEEe
Confidence 34899999999999999875
No 102
>cd06255 M14_ASTE_ASPA_like_5 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=57.14 E-value=18 Score=26.65 Aligned_cols=27 Identities=22% Similarity=0.219 Sum_probs=23.4
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEE
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~ 39 (71)
+++|.+..++ ++-|+.|++|+.|+++.
T Consensus 234 v~Ap~~Gi~~~~~~~G~~V~~Gq~lg~I~ 262 (293)
T cd06255 234 VAAIHGGLFEPSVPAGDTIPAGQPLGRVV 262 (293)
T ss_pred EecCCCeEEEEecCCCCEecCCCEEEEEE
Confidence 3488888885 89999999999999985
No 103
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=57.09 E-value=13 Score=28.45 Aligned_cols=27 Identities=30% Similarity=0.418 Sum_probs=21.7
Q ss_pred CCcEEEEecCcEEecCCeEEEEEeehh
Q 042693 17 PGAISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 17 ~ga~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.|..++++.||.|++|++|+.+--.+.
T Consensus 214 pge~w~VkvGDsVkkGQvLavIEAMKm 240 (274)
T PLN02983 214 PGEPPFVKVGDKVQKGQVVCIIEAMKL 240 (274)
T ss_pred CCCcceeCCCCEecCCCEEEEEEeece
Confidence 456778999999999999998765544
No 104
>TIGR00998 8a0101 efflux pump membrane protein (multidrug resistance protein A).
Probab=56.96 E-value=18 Score=26.01 Aligned_cols=18 Identities=22% Similarity=0.532 Sum_probs=14.7
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.|++|.+|++|+++.
T Consensus 219 ~~~~G~~v~~g~~l~~i~ 236 (334)
T TIGR00998 219 FVQVGQVVSPGQPLMAVV 236 (334)
T ss_pred ecCCCCEeCCCCeeEEEE
Confidence 467788889999998875
No 105
>PF13375 RnfC_N: RnfC Barrel sandwich hybrid domain
Probab=54.71 E-value=15 Score=23.53 Aligned_cols=21 Identities=19% Similarity=0.167 Sum_probs=18.2
Q ss_pred CcEEEEecCcEEecCCeEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l 38 (71)
-+...|+.||.|.+|+.|++-
T Consensus 41 ~~~p~V~~Gd~V~~GQ~Ia~~ 61 (101)
T PF13375_consen 41 PAEPVVKVGDKVKKGQLIAEA 61 (101)
T ss_pred cceEEEcCCCEEcCCCEEEec
Confidence 367789999999999999975
No 106
>cd06250 M14_PaAOTO_like An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD. The gene encoding
Probab=53.74 E-value=21 Score=27.29 Aligned_cols=27 Identities=19% Similarity=0.417 Sum_probs=23.3
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEE
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~ 39 (71)
+++|.|..+. ++-|+.|++|+.|+++.
T Consensus 292 v~Ap~~Gl~~~~~~~Gd~V~~G~~lg~I~ 320 (359)
T cd06250 292 LYAPAGGMVVYRAAPGDWVEAGDVLAEIL 320 (359)
T ss_pred EeCCCCeEEEEecCCCCEecCCCEEEEEE
Confidence 4488888885 78899999999999985
No 107
>PF05896 NQRA: Na(+)-translocating NADH-quinone reductase subunit A (NQRA); InterPro: IPR008703 This family consists of several bacterial Na+-translocating NADH-quinone reductase subunit A (NQRA) proteins. The Na+-translocating NADH: ubiquinone oxidoreductase (Na+-NQR) generates an electrochemical Na+ potential driven by aerobic respiration [].; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0006814 sodium ion transport, 0055114 oxidation-reduction process
Probab=53.12 E-value=13 Score=27.93 Aligned_cols=20 Identities=15% Similarity=0.159 Sum_probs=17.4
Q ss_pred CcEEEEecCcEEecCCeEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVT 37 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~ 37 (71)
.-.+.|+.||.|++|++|+.
T Consensus 40 ~Pkm~VkeGD~Vk~Gq~LF~ 59 (257)
T PF05896_consen 40 KPKMLVKEGDRVKAGQPLFE 59 (257)
T ss_pred CccEEeccCCEEeCCCeeEe
Confidence 34689999999999999985
No 108
>PRK09282 pyruvate carboxylase subunit B; Validated
Probab=52.35 E-value=22 Score=29.20 Aligned_cols=22 Identities=14% Similarity=0.114 Sum_probs=16.8
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+.++.|+.|++|++|+++--.+
T Consensus 536 ~~V~~Gd~V~~Gq~L~~ieamK 557 (592)
T PRK09282 536 VKVKEGDKVKAGDTVLVLEAMK 557 (592)
T ss_pred EEeCCCCEECCCCEEEEEeccc
Confidence 3688888899999888875443
No 109
>PRK10871 nlpD lipoprotein NlpD; Provisional
Probab=52.19 E-value=19 Score=27.77 Aligned_cols=20 Identities=15% Similarity=0.099 Sum_probs=16.9
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
.+.|+.||.|++|+.|+++-
T Consensus 271 ~i~Vk~Gq~V~~Gq~Ig~~G 290 (319)
T PRK10871 271 TMLVREQQEVKAGQKIATMG 290 (319)
T ss_pred ccccCCcCEECCCCeEEeEc
Confidence 35688899999999999764
No 110
>COG0508 AceF Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]
Probab=52.17 E-value=14 Score=28.74 Aligned_cols=27 Identities=26% Similarity=0.434 Sum_probs=21.7
Q ss_pred CCcEE--EEecCcEEecCCeEEEEEeehh
Q 042693 17 PGAIS--FRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 17 ~ga~l--~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.|.+. |++.||.|++||+|+.+--.|.
T Consensus 16 EG~I~~W~~k~GD~V~~gd~L~eVeTDKa 44 (404)
T COG0508 16 EGTIVEWLKKVGDKVKEGDVLVEVETDKA 44 (404)
T ss_pred eEEEEEEecCCCCeecCCCeeEEEEcCce
Confidence 34444 8999999999999998877765
No 111
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=51.68 E-value=17 Score=26.75 Aligned_cols=18 Identities=22% Similarity=0.231 Sum_probs=14.1
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.|+.|.+|++|+++.
T Consensus 223 ~~~~G~~V~~g~~l~~I~ 240 (346)
T PRK10476 223 KVSVGEFAAPMQPIFTLI 240 (346)
T ss_pred ecCCCCCcCCCCeEEEEe
Confidence 467788888888888875
No 112
>MTH00025 ATP8 ATP synthase F0 subunit 8; Validated
Probab=51.59 E-value=6.4 Score=24.30 Aligned_cols=14 Identities=29% Similarity=0.304 Sum_probs=12.5
Q ss_pred chhhHhhhhhhcCC
Q 042693 51 ALSKVKQVLEIRSF 64 (71)
Q Consensus 51 GLPkVeeLfEAR~~ 64 (71)
-|||+++++..|..
T Consensus 31 iLP~i~~~~~~R~~ 44 (70)
T MTH00025 31 VLPTIKRNWLIRKS 44 (70)
T ss_pred HHHHHHHHHHHHHH
Confidence 38999999999986
No 113
>cd06253 M14_ASTE_ASPA_like_3 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=51.47 E-value=34 Score=25.31 Aligned_cols=29 Identities=21% Similarity=0.425 Sum_probs=24.3
Q ss_pred EEEeCCCcEEE--EecCcEEecCCeEEEEEe
Q 042693 12 IVQATPGAISF--RHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 12 ~i~~~~ga~l~--v~~G~~V~~G~~L~~l~~ 40 (71)
.++.|.+..+. ++-|+.|++|+.|+.+.-
T Consensus 231 ~v~A~~~Gl~~~~~~~G~~V~~Gq~lg~i~d 261 (298)
T cd06253 231 YVNAETSGIFVPAKHLGDIVKRGDVIGEIVD 261 (298)
T ss_pred EEEcCCCeEEEECcCCCCEECCCCEEEEEeC
Confidence 34488888885 899999999999999864
No 114
>TIGR02994 ectoine_eutE ectoine utilization protein EutE. Members of this family, part of the succinylglutamate desuccinylase / aspartoacylase family (pfam04952), belong to ectoine utilization operons, as found in Sinorhizobium meliloti 1021 (where it the operon is known to be induced by ectoine), Mesorhizobium loti, Silicibacter pomeroyi, Agrobacterium tumefaciens, and Pseudomonas putida.
Probab=51.01 E-value=25 Score=26.62 Aligned_cols=28 Identities=14% Similarity=0.135 Sum_probs=23.9
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEEe
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~~ 40 (71)
+++|.+..+. ++-|+.|++|+.|+++.-
T Consensus 258 v~Ap~~Gi~~~~v~~G~~V~~G~~lg~I~d 287 (325)
T TIGR02994 258 IFAEDDGLIEFMIDLGDPVSKGDVIARVYP 287 (325)
T ss_pred EEcCCCeEEEEecCCCCEeCCCCEEEEEEC
Confidence 4588888875 888999999999999875
No 115
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=50.78 E-value=17 Score=29.27 Aligned_cols=34 Identities=12% Similarity=0.175 Sum_probs=25.3
Q ss_pred CcEEEEE--------eCCCcEEEEecCcEEecCCeEEEEEee
Q 042693 8 DQILIVQ--------ATPGAISFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 8 Gqii~i~--------~~~ga~l~v~~G~~V~~G~~L~~l~~e 41 (71)
|+|+.+. .--...|.|+.|++|..|++++.+-..
T Consensus 352 G~vvIldhG~gy~slyg~~~~i~v~~G~~V~AGepIa~~G~s 393 (420)
T COG4942 352 GLVVILDHGGGYHSLYGGNQSILVNPGQFVKAGEPIALVGSS 393 (420)
T ss_pred ceEEEEEcCCccEEEecccceeeecCCCEeecCCchhhccCC
Confidence 5555555 334567889999999999999987543
No 116
>cd04252 AAK_NAGK-fArgBP AAK_NAGK-fArgBP: N-Acetyl-L-glutamate kinase (NAGK) of the fungal arginine-biosynthetic pathway (fArgBP). The nuclear-encoded, mitochondrial polyprotein precursor with an N-terminal NAGK (ArgB) domain (this CD), a central DUF619 domain, and a C-terminal reductase domain (ArgC, N-Acetylglutamate Phosphate Reductase, NAGPR). The precursor is cleaved in the mitochondria into two distinct enzymes (NAGK-DUF619 and NAGPR). Native molecular weights of these proteins indicate that the kinase is an octamer whereas the reductase is a dimer. This CD also includes some gamma-proteobacteria (Xanthomonas and Xylella) NAG kinases with an N-terminal NAGK (ArgB) domain (this CD) and a C-terminal DUF619 domain. The DUF619 domain is described as a putative distant homolog of the acetyltransferase, ArgA, predicted to function in NAG synthase association in fungi. Eukaryotic sequences have an N-terminal mitochondrial transit peptide. Members of this NAG kinase domain CD belong to th
Probab=50.37 E-value=35 Score=24.41 Aligned_cols=33 Identities=15% Similarity=0.238 Sum_probs=23.0
Q ss_pred cCCeEEEEEe-----ehhccCCccCch-hhHhhhhhhcC
Q 042693 31 KGNKLVTFIY-----EKLRSCDLTRAL-SKVKQVLEIRS 63 (71)
Q Consensus 31 ~G~~L~~l~~-----e~~kt~DItqGL-PkVeeLfEAR~ 63 (71)
.|..+-.+.. +..+++||++|. ||++..+++..
T Consensus 180 ~g~~i~~i~~~~~~~~l~~~~~vtgGM~~Kl~~~~~~~~ 218 (248)
T cd04252 180 TGKKISAINLDEEYDDLMKQPWVKYGTKLKIKEIKELLD 218 (248)
T ss_pred CCCcccccCHHHHHHHHHHcCCcCCchHHHHHHHHHHHH
Confidence 4666666642 234568999776 99998888753
No 117
>PF10011 DUF2254: Predicted membrane protein (DUF2254); InterPro: IPR018723 Members of this family of proteins comprises various hypothetical and putative membrane proteins. Their exact function, has not, as yet, been defined.
Probab=50.14 E-value=30 Score=26.40 Aligned_cols=36 Identities=14% Similarity=0.185 Sum_probs=27.5
Q ss_pred CCCCCcEEEEE--------eCCCcEE--EEecCcEEecCCeEEEEE
Q 042693 4 HLKSDQILIVQ--------ATPGAIS--FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 4 ~~~sGqii~i~--------~~~ga~l--~v~~G~~V~~G~~L~~l~ 39 (71)
...||.|-.|+ -.-++.+ .+.-|++|.+|++|++..
T Consensus 200 a~~~GYvq~Id~~~L~~~a~~~~~~i~l~~~~G~fV~~g~pl~~v~ 245 (371)
T PF10011_consen 200 APRSGYVQAIDYDRLVELAEEHDVVIRLEVRPGDFVVEGTPLARVW 245 (371)
T ss_pred cCCCcEEEEecHHHHHHHHHHCCcEEEEEeCCCCeECCCCeEEEEe
Confidence 45788888887 2234444 578999999999999995
No 118
>PRK14875 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional
Probab=49.61 E-value=45 Score=23.57 Aligned_cols=25 Identities=20% Similarity=0.197 Sum_probs=19.9
Q ss_pred eCCCcE---EEEecCcEEecCCeEEEEE
Q 042693 15 ATPGAI---SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 15 ~~~ga~---l~v~~G~~V~~G~~L~~l~ 39 (71)
+|..++ +.++.|+.|..|++|+.+.
T Consensus 50 a~~~g~~~~~~~~~g~~v~~g~~l~~i~ 77 (371)
T PRK14875 50 APAAGTLRRQVAQEGETLPVGALLAVVA 77 (371)
T ss_pred cCCCeEEEEEEcCCCCEeCCCCEEEEEe
Confidence 555443 4689999999999999995
No 119
>COG3608 Predicted deacylase [General function prediction only]
Probab=49.12 E-value=22 Score=27.64 Aligned_cols=28 Identities=21% Similarity=0.373 Sum_probs=23.5
Q ss_pred EEeCCCcEE--EEecCcEEecCCeEEEEEe
Q 042693 13 VQATPGAIS--FRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 13 i~~~~ga~l--~v~~G~~V~~G~~L~~l~~ 40 (71)
+++|.+..+ +++=||.|++||+|+++.-
T Consensus 259 i~Ap~~G~v~~~v~lGd~VeaG~~la~i~~ 288 (331)
T COG3608 259 IRAPAGGLVEFLVDLGDKVEAGDVLATIHD 288 (331)
T ss_pred eecCCCceEEEeecCCCcccCCCeEEEEec
Confidence 447877766 6899999999999999875
No 120
>PRK11637 AmiB activator; Provisional
Probab=48.45 E-value=19 Score=27.56 Aligned_cols=21 Identities=14% Similarity=0.135 Sum_probs=16.8
Q ss_pred EEEEecCcEEecCCeEEEEEe
Q 042693 20 ISFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~ 40 (71)
.+.|..|+.|.+|++|+++-.
T Consensus 380 ~~~v~~G~~V~~G~~ig~~g~ 400 (428)
T PRK11637 380 SALVSVGAQVRAGQPIALVGS 400 (428)
T ss_pred cCCCCCcCEECCCCeEEeecC
Confidence 345888999999999997743
No 121
>cd06252 M14_ASTE_ASPA_like_2 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=48.42 E-value=30 Score=25.69 Aligned_cols=27 Identities=15% Similarity=-0.011 Sum_probs=22.8
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEE
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~ 39 (71)
+++|.+..+. ++-|+.|++|+.|+++.
T Consensus 247 v~A~~~G~~~~~~~~G~~V~~G~~lg~i~ 275 (316)
T cd06252 247 VFAPHPGLFEPLVDLGDEVSAGQVAGRIH 275 (316)
T ss_pred EEcCCCeEEEEecCCCCEEcCCCEEEEEE
Confidence 4488888885 88899999999999975
No 122
>cd06251 M14_ASTE_ASPA_like_1 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=48.35 E-value=27 Score=25.48 Aligned_cols=27 Identities=30% Similarity=0.386 Sum_probs=22.4
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEE
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~ 39 (71)
++.|.+..+. ++-||.|++|+.|+++.
T Consensus 222 v~A~~~G~~~~~~~~Gd~V~~G~~ig~i~ 250 (287)
T cd06251 222 VRAPQGGLLRSLVKLGDKVKKGQLLATIT 250 (287)
T ss_pred EecCCCeEEEEecCCCCEECCCCEEEEEE
Confidence 4477777774 88999999999999985
No 123
>TIGR00164 PS_decarb_rel phosphatidylserine decarboxylase precursor-related protein. It is unclear whether this protein is a form of phosphatidylserine decarboxylase or is a related enzyme. It is found in Neisseria gonorrhoeae, Mycobacterium tuberculosis, and several archaeal species, all of which lack known phosphatidylserine decarboxylase.
Probab=46.95 E-value=29 Score=24.14 Aligned_cols=22 Identities=14% Similarity=0.167 Sum_probs=18.9
Q ss_pred eCCCcEEEEecCcEEecCCeEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLV 36 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~ 36 (71)
+|++..+.++.|+.|+.|++|+
T Consensus 161 ~p~~~~~~v~~G~~V~~G~tli 182 (189)
T TIGR00164 161 LPENAQAQVKVGEKVTAGETVL 182 (189)
T ss_pred EcCCCccccCCCCEEEeceEEE
Confidence 8888888999999999998654
No 124
>PRK05305 phosphatidylserine decarboxylase; Provisional
Probab=46.70 E-value=29 Score=24.39 Aligned_cols=22 Identities=14% Similarity=0.160 Sum_probs=18.4
Q ss_pred EeCCCcEEEEecCcEEecCCeE
Q 042693 14 QATPGAISFRHYGAFLHKGNKL 35 (71)
Q Consensus 14 ~~~~ga~l~v~~G~~V~~G~~L 35 (71)
.+|++..+.++-||.|+.|+++
T Consensus 180 ~~p~~~~~~V~~G~kV~~Getv 201 (206)
T PRK05305 180 YLPLGTEPLVSVGQKVVAGETV 201 (206)
T ss_pred EEcCCCcccccCCCEEEcccEE
Confidence 3888888899999999999754
No 125
>PRK01202 glycine cleavage system protein H; Provisional
Probab=46.51 E-value=35 Score=22.46 Aligned_cols=32 Identities=22% Similarity=0.256 Sum_probs=24.1
Q ss_pred CCcEEEEe---cCcEEecCCeEEEEEeehhccCCcc
Q 042693 17 PGAISFRH---YGAFLHKGNKLVTFIYEKLRSCDLT 49 (71)
Q Consensus 17 ~ga~l~v~---~G~~V~~G~~L~~l~~e~~kt~DIt 49 (71)
.|.+.+++ -|+.|++|++++++-..+. ..||.
T Consensus 36 lG~i~~v~lp~~G~~v~~g~~~~~IEs~K~-~~~i~ 70 (127)
T PRK01202 36 LGDIVFVELPEVGDEVKAGETFGVVESVKA-ASDIY 70 (127)
T ss_pred cCCeeEEEcCCCCCEecCCCEEEEEEEcce-eeeee
Confidence 37777777 8999999999999966554 33443
No 126
>PTZ00144 dihydrolipoamide succinyltransferase; Provisional
Probab=45.92 E-value=23 Score=28.10 Aligned_cols=21 Identities=5% Similarity=0.180 Sum_probs=16.6
Q ss_pred EEEecCcEEecCCeEEEEEee
Q 042693 21 SFRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e 41 (71)
.+++.||.|++||+|+.+--.
T Consensus 64 w~v~~Gd~V~~Gd~L~~vEtd 84 (418)
T PTZ00144 64 WKKKVGDYVKEDEVICIIETD 84 (418)
T ss_pred EEeCCCCEeCCCCEEEEEEEc
Confidence 378889999999999877543
No 127
>PLN02983 biotin carboxyl carrier protein of acetyl-CoA carboxylase
Probab=44.98 E-value=52 Score=25.20 Aligned_cols=24 Identities=13% Similarity=0.101 Sum_probs=18.9
Q ss_pred eCCCcE---EEEecCcEEecCCeEEEE
Q 042693 15 ATPGAI---SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 15 ~~~ga~---l~v~~G~~V~~G~~L~~l 38 (71)
.|..++ +++++|+.|..|++|+.+
T Consensus 246 AP~sGtV~eIlVkeGD~V~vGqpL~~I 272 (274)
T PLN02983 246 ADQSGTIVEILAEDGKPVSVDTPLFVI 272 (274)
T ss_pred cCCCeEEEEEecCCCCEeCCCCEEEEe
Confidence 454444 478999999999999987
No 128
>MTH00169 ATP8 ATP synthase F0 subunit 8; Provisional
Probab=44.43 E-value=11 Score=22.82 Aligned_cols=16 Identities=38% Similarity=0.490 Sum_probs=13.8
Q ss_pred chhhHhhhhhhcCCcc
Q 042693 51 ALSKVKQVLEIRSFDL 66 (71)
Q Consensus 51 GLPkVeeLfEAR~~~~ 66 (71)
.|||+.++++.|...+
T Consensus 31 iLPri~~~l~~R~~~~ 46 (67)
T MTH00169 31 ILPKIQQQLVIRTKGV 46 (67)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 5999999999998743
No 129
>TIGR03309 matur_yqeB selenium-dependent molybdenum hydroxylase system protein, YqeB family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes with labile selenium-containing centers, different from selenocysteine-containing proteins.
Probab=44.33 E-value=33 Score=25.85 Aligned_cols=29 Identities=21% Similarity=0.245 Sum_probs=23.1
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEEee
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~~e 41 (71)
+++|...+++ ++-||.|++|++|+++.-.
T Consensus 167 IrAp~~Gi~~~~~~IGd~V~KGqvLa~I~~~ 197 (256)
T TIGR03309 167 LRAPADGIVTPTKAIGDSVKKGDVIATVGDV 197 (256)
T ss_pred EECCCCeEEeeccCCCCEEeCCCEEEEEcCE
Confidence 3377777774 7889999999999998543
No 130
>PF12390 Se-cys_synth_N: Selenocysteine synthase N terminal
Probab=44.17 E-value=10 Score=20.30 Aligned_cols=12 Identities=25% Similarity=0.385 Sum_probs=9.6
Q ss_pred chhhHhhhhhhc
Q 042693 51 ALSKVKQVLEIR 62 (71)
Q Consensus 51 GLPkVeeLfEAR 62 (71)
.||+|++||..=
T Consensus 3 ~LPsVD~lL~~~ 14 (40)
T PF12390_consen 3 QLPSVDELLQEP 14 (40)
T ss_pred CCchHHHHHhCh
Confidence 589999998753
No 131
>cd06254 M14_ASTE_ASPA_like_4 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=42.83 E-value=41 Score=24.49 Aligned_cols=27 Identities=19% Similarity=0.244 Sum_probs=22.2
Q ss_pred EEeCCCcEEE--EecCcEEecCCeEEEEE
Q 042693 13 VQATPGAISF--RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 13 i~~~~ga~l~--v~~G~~V~~G~~L~~l~ 39 (71)
+++|.+..+. ++-|+.|++|++|+.+.
T Consensus 226 v~Ap~~G~~~~~~~~G~~V~~G~~lg~i~ 254 (288)
T cd06254 226 VTSPASGLWYPFVKAGDTVQKGALLGYVT 254 (288)
T ss_pred EecCCCeEEEEecCCCCEecCCCEEEEEE
Confidence 3478888875 66799999999999984
No 132
>COG5471 Uncharacterized conserved protein [Function unknown]
Probab=40.92 E-value=16 Score=24.54 Aligned_cols=15 Identities=13% Similarity=0.275 Sum_probs=10.6
Q ss_pred EecCcEEecCCeEEE
Q 042693 23 RHYGAFLHKGNKLVT 37 (71)
Q Consensus 23 v~~G~~V~~G~~L~~ 37 (71)
++.|+.|.-|+.++-
T Consensus 20 i~SGd~VlvG~~f~V 34 (107)
T COG5471 20 IKSGDLVLVGDMFAV 34 (107)
T ss_pred cccCCEEEEeeeEEE
Confidence 567777777777664
No 133
>PRK12784 hypothetical protein; Provisional
Probab=40.83 E-value=42 Score=21.60 Aligned_cols=27 Identities=19% Similarity=0.128 Sum_probs=22.3
Q ss_pred EEEEecCcEEecCCeEEEEEeehhccC
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKLRSC 46 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~kt~ 46 (71)
.+.|..||.|..+..|+++--..+-||
T Consensus 56 ~v~Ve~Gq~i~~dtlL~~~edDllitG 82 (84)
T PRK12784 56 LVNVVVGQQIHTDTLLVRLEDDLLITG 82 (84)
T ss_pred EEEeecCceecCCcEEEEEeeceEeec
Confidence 356889999999999999987776655
No 134
>PRK15136 multidrug efflux system protein EmrA; Provisional
Probab=40.74 E-value=37 Score=25.84 Aligned_cols=18 Identities=17% Similarity=0.222 Sum_probs=14.6
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.|+.|.+|++|+++.
T Consensus 230 ~v~~G~~V~~g~pl~~Iv 247 (390)
T PRK15136 230 SVQVGAQISPTTPLMAVV 247 (390)
T ss_pred ecCCCCEeCCCCeEEEEE
Confidence 477788888888888875
No 135
>PRK14042 pyruvate carboxylase subunit B; Provisional
Probab=40.59 E-value=58 Score=27.01 Aligned_cols=22 Identities=14% Similarity=0.092 Sum_probs=14.8
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
++|+.||.|++|++|+.+--.|
T Consensus 539 ~~V~~Gd~V~~Gq~L~~iEamK 560 (596)
T PRK14042 539 IHVSAGDEVKAGQAVLVIEAMK 560 (596)
T ss_pred EEeCCCCEeCCCCEEEEEEecc
Confidence 3677777777777777665443
No 136
>PF15517 TBPIP_N: TBP-interacting protein N-terminus; PDB: 2CZR_A.
Probab=40.26 E-value=33 Score=22.68 Aligned_cols=15 Identities=20% Similarity=0.355 Sum_probs=12.0
Q ss_pred eCCCcEEEEecCcEE
Q 042693 15 ATPGAISFRHYGAFL 29 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V 29 (71)
+|...++++++|.||
T Consensus 68 vP~kgtFYi~NGaFI 82 (99)
T PF15517_consen 68 VPGKGTFYINNGAFI 82 (99)
T ss_dssp ES-TT-EEEETTEEE
T ss_pred ECCCCeEEEeCceEE
Confidence 899999999999986
No 137
>PRK06978 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=39.51 E-value=31 Score=26.26 Aligned_cols=22 Identities=5% Similarity=-0.064 Sum_probs=19.0
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
...+++++|+.|++|++++++.
T Consensus 83 ~v~~~~~dG~~v~~G~~i~~~~ 104 (294)
T PRK06978 83 EVTWRYREGDRMTADSTVCELE 104 (294)
T ss_pred EEEEEcCCCCEeCCCCEEEEEE
Confidence 4467899999999999999875
No 138
>PRK05742 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=38.96 E-value=35 Score=25.49 Aligned_cols=21 Identities=10% Similarity=-0.100 Sum_probs=18.7
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.|++|++++++.
T Consensus 68 ~~~~~~dG~~v~~g~~i~~i~ 88 (277)
T PRK05742 68 VHWQVADGERVSANQVLFHLE 88 (277)
T ss_pred EEEEeCCCCEEcCCCEEEEEE
Confidence 558899999999999999875
No 139
>PRK06096 molybdenum transport protein ModD; Provisional
Probab=38.85 E-value=31 Score=26.00 Aligned_cols=22 Identities=14% Similarity=0.102 Sum_probs=18.9
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
...+++.+|+.|++|++|+++.
T Consensus 62 ~v~~~~~dG~~v~~G~~i~~~~ 83 (284)
T PRK06096 62 TIDDAVSDGSQANAGQRLISAQ 83 (284)
T ss_pred EEEEEeCCCCEeCCCCEEEEEE
Confidence 4566899999999999999875
No 140
>cd01572 QPRTase Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.
Probab=38.49 E-value=37 Score=25.00 Aligned_cols=19 Identities=21% Similarity=0.156 Sum_probs=17.2
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
.++++|+.|++|++++++.
T Consensus 62 ~~~~dG~~v~~g~~i~~i~ 80 (268)
T cd01572 62 WLVKDGDRVEPGQVLATVE 80 (268)
T ss_pred EEeCCCCEecCCCEEEEEE
Confidence 5789999999999999875
No 141
>PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed
Probab=37.93 E-value=41 Score=33.11 Aligned_cols=22 Identities=23% Similarity=0.459 Sum_probs=20.6
Q ss_pred eCCCcEEEEecCcEEecCCeEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLV 36 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~ 36 (71)
+|.+.++.|++||+|++|+.|.
T Consensus 2700 v~~~~~~~v~~gd~v~~G~~l~ 2721 (2890)
T PRK09603 2700 VDKGKQILVHADEFVHAGEAMT 2721 (2890)
T ss_pred ccCCceeeecCCCEEccCCCcC
Confidence 9999999999999999999863
No 142
>cd04242 AAK_G5K_ProB AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine) biosynthesis. G5K is subject to feedback allosteric inhibition by proline or ornithine. In microorganisms and plants, proline plays an important role as an osmoprotectant and, in mammals, ornithine biosynthesis is crucial for proper ammonia detoxification, since a G5K mutation has been shown to cause human hyperammonaemia. Microbial G5K generally consists of two domains: a catalytic G5K domain and one PUA (pseudo uridine synthases and archaeosine-specific transglycosylases) domain, and some lack the PUA domain. G5K requires free Mg for activity, it is tetrameric, and it aggregates to higher forms in a proline-dependent way. G5K lacking the PUA domain remains tetrameric, active, and proline-inhibitable, but the Mg requir
Probab=37.84 E-value=31 Score=24.54 Aligned_cols=20 Identities=20% Similarity=0.026 Sum_probs=16.8
Q ss_pred cCCccCch-hhHhhhhhhcCC
Q 042693 45 SCDLTRAL-SKVKQVLEIRSF 64 (71)
Q Consensus 45 t~DItqGL-PkVeeLfEAR~~ 64 (71)
+.|+++|+ ||++..++|.+.
T Consensus 202 ~~~~tggm~~Kl~a~~~a~~~ 222 (251)
T cd04242 202 SSVGTGGMRTKLKAARIATEA 222 (251)
T ss_pred cCcccCCcHHHHHHHHHHHHC
Confidence 47999998 999999998654
No 143
>TIGR01334 modD putative molybdenum utilization protein ModD. The gene modD for a member of this family is found with molybdenum transport genes modABC in Rhodobacter capsulatus. However, disruption of modD causes only a 4-fold (rather than 500-fold for modA, modB, modC) change in the external molybdenum concentration required to suppress an alternative nitrogenase. ModD proteins are highly similar to nicotinate-nucleotide pyrophosphorylase (also called quinolinate phosphoribosyltransferase). The function unknown.
Probab=37.13 E-value=38 Score=25.39 Aligned_cols=22 Identities=14% Similarity=-0.090 Sum_probs=18.9
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
...+++++|+.|++|++|+++.
T Consensus 61 ~~~~~~~dG~~v~~g~~i~~~~ 82 (277)
T TIGR01334 61 SIDYAVPSGSRALAGTLLLEAK 82 (277)
T ss_pred EEEEEeCCCCEeCCCCEEEEEE
Confidence 4456899999999999999875
No 144
>PRK14042 pyruvate carboxylase subunit B; Provisional
Probab=36.87 E-value=42 Score=27.83 Aligned_cols=18 Identities=17% Similarity=0.253 Sum_probs=15.7
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
++++.|+.|..|++|+++
T Consensus 576 i~v~~Gd~V~~G~~L~~I 593 (596)
T PRK14042 576 ILCQKGDKVTPGQVLIRV 593 (596)
T ss_pred EEeCCcCEECCCCEEEEE
Confidence 678899999999999887
No 145
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=36.66 E-value=38 Score=25.63 Aligned_cols=20 Identities=25% Similarity=0.273 Sum_probs=17.8
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
..++++|+.+++|++++++.
T Consensus 79 ~~~~~dG~~v~~g~~i~~i~ 98 (289)
T PRK07896 79 LDRVEDGARVPPGQALLTVT 98 (289)
T ss_pred EEEcCCCCEecCCCEEEEEE
Confidence 46889999999999999875
No 146
>TIGR00078 nadC nicotinate-nucleotide pyrophosphorylase. Synonym: quinolinate phosphoribosyltransferase (decarboxylating)
Probab=35.06 E-value=45 Score=24.55 Aligned_cols=20 Identities=10% Similarity=0.027 Sum_probs=17.7
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
..++++|+.+++|++++++.
T Consensus 57 ~~~~~dG~~v~~g~~i~~i~ 76 (265)
T TIGR00078 57 EWLVKDGDRVEPGEVVAEVE 76 (265)
T ss_pred EEEeCCCCEecCCCEEEEEE
Confidence 46899999999999999875
No 147
>COG0739 NlpD Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]
Probab=34.89 E-value=29 Score=23.92 Aligned_cols=19 Identities=11% Similarity=0.050 Sum_probs=17.2
Q ss_pred EEEEecCcEEecCCeEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l 38 (71)
.+.|+.|+.|++|+.+++.
T Consensus 215 ~~~V~~G~~V~~G~~Ig~~ 233 (277)
T COG0739 215 SILVKEGQKVKAGQVIGYV 233 (277)
T ss_pred hhccCCCCEeccCCEEEEe
Confidence 6789999999999999977
No 148
>cd01568 QPRTase_NadC Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide. QPRTase functions as a homodimer with two active sites, each formed by the C-terminal region of one subunit and the N-terminal region of the other.
Probab=34.41 E-value=48 Score=24.28 Aligned_cols=20 Identities=15% Similarity=0.092 Sum_probs=17.6
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
..++++|+.|++|++++++.
T Consensus 60 ~~~~~dG~~v~~g~~i~~i~ 79 (269)
T cd01568 60 EWLVKDGDRVEAGQVLLEVE 79 (269)
T ss_pred EEEeCCCCEecCCCEEEEEE
Confidence 35889999999999999875
No 149
>PRK09783 copper/silver efflux system membrane fusion protein CusB; Provisional
Probab=34.40 E-value=53 Score=25.21 Aligned_cols=28 Identities=14% Similarity=0.092 Sum_probs=21.0
Q ss_pred EEEeCCCcEE---EEecCcEEecCCeEEEEE
Q 042693 12 IVQATPGAIS---FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 12 ~i~~~~ga~l---~v~~G~~V~~G~~L~~l~ 39 (71)
.|++|-.+++ +++.|++|.+|++|+++.
T Consensus 211 ~I~AP~dGvV~~~~v~~G~~V~~g~~L~~I~ 241 (409)
T PRK09783 211 TLKAPIDGVITAFDLRAGMNIAKDNVVAKIQ 241 (409)
T ss_pred EEECCCCeEEEEEECCCCCEECCCCeEEEEE
Confidence 3556655544 578899999999999885
No 150
>PRK08072 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=34.18 E-value=47 Score=24.77 Aligned_cols=21 Identities=19% Similarity=0.297 Sum_probs=18.7
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.|++|++++.+.
T Consensus 66 v~~~~~dG~~v~~g~~i~~~~ 86 (277)
T PRK08072 66 VELHKKDGDLVKKGEIIATVQ 86 (277)
T ss_pred EEEEeCCCCEEcCCCEEEEEE
Confidence 577899999999999999875
No 151
>PRK14040 oxaloacetate decarboxylase; Provisional
Probab=34.05 E-value=46 Score=27.45 Aligned_cols=24 Identities=17% Similarity=0.178 Sum_probs=19.7
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.++|+.||.|++|++|+++--.+.
T Consensus 537 ~~~V~~Gd~V~~Gd~l~~iEamKm 560 (593)
T PRK14040 537 KVIVTEGQTVAEGDVLLILEAMKM 560 (593)
T ss_pred EEEeCCCCEeCCCCEEEEEecCce
Confidence 357999999999999999755544
No 152
>PRK06543 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=33.93 E-value=47 Score=25.06 Aligned_cols=22 Identities=18% Similarity=0.102 Sum_probs=18.9
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
....++++|+.|++|++++.+.
T Consensus 66 ~v~~~~~dG~~v~~G~~i~~~~ 87 (281)
T PRK06543 66 TVTLAVADGERFEAGDILATVT 87 (281)
T ss_pred EEEEEeCCCCEecCCCEEEEEE
Confidence 3466899999999999999875
No 153
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=33.87 E-value=44 Score=25.13 Aligned_cols=19 Identities=16% Similarity=0.148 Sum_probs=17.3
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
.++++|+.|++|++++++.
T Consensus 76 ~~~~dG~~v~~g~~i~~~~ 94 (288)
T PRK07428 76 PLVAEGAACESGQVVAEIE 94 (288)
T ss_pred EEcCCCCEecCCCEEEEEE
Confidence 6799999999999999875
No 154
>PRK11854 aceF pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated
Probab=33.84 E-value=50 Score=27.14 Aligned_cols=20 Identities=15% Similarity=0.137 Sum_probs=14.0
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
++++.|+.|..|+.|+.+--
T Consensus 57 i~~~~g~~V~~G~~l~~i~~ 76 (633)
T PRK11854 57 IKVKVGDKVETGALIMIFES 76 (633)
T ss_pred EEeCCCCEEeCCCEEEEEec
Confidence 56677777777777777643
No 155
>PF09891 DUF2118: Uncharacterized protein conserved in archaea (DUF2118); InterPro: IPR019217 This entry represents a family of hypothetical proteins of unknown function. ; PDB: 3D4R_D.
Probab=33.35 E-value=30 Score=24.12 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=14.7
Q ss_pred EEEecCcEEecCCeEEEEEeeh
Q 042693 21 SFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+.+..|+.|.+||.||.+...+
T Consensus 94 ~i~~~G~rV~~gd~lA~v~T~K 115 (150)
T PF09891_consen 94 PIVDEGDRVRKGDRLAYVTTRK 115 (150)
T ss_dssp ESS-TSEEE-TT-EEEEEE-TT
T ss_pred EEcccCcEeccCcEEEEEEecC
Confidence 4678899999999999887544
No 156
>TIGR01108 oadA oxaloacetate decarboxylase alpha subunit. This model describes the bacterial oxaloacetate decarboxylase alpha subunit and its equivalents in archaea. The oxaloacetate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases that present in bacteria and archaea. It a multi subunit enzyme consisting of a peripheral alpha-subunit and integral membrane subunits beta and gamma. The energy released by the decarboxylation reaction of oxaloacetate is coupled to Na+ ion pumping across the membrane.
Probab=33.21 E-value=52 Score=27.02 Aligned_cols=24 Identities=17% Similarity=0.102 Sum_probs=19.9
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.++|+.||.|++|++|+.+--.|.
T Consensus 530 ~~~V~~Gd~V~~G~~l~~iEamKm 553 (582)
T TIGR01108 530 KVKVSEGQTVAEGEVLLILEAMKM 553 (582)
T ss_pred EEEeCCCCEECCCCEEEEEEeccc
Confidence 357999999999999998865554
No 157
>PRK05848 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=33.21 E-value=46 Score=24.80 Aligned_cols=21 Identities=19% Similarity=0.219 Sum_probs=18.3
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.|++|++++++.
T Consensus 60 ~~~~~~dG~~v~~g~~i~~i~ 80 (273)
T PRK05848 60 CVFTIKDGERFKKGDILMEIE 80 (273)
T ss_pred EEEEcCCCCEecCCCEEEEEE
Confidence 356899999999999999875
No 158
>PRK06106 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=33.09 E-value=49 Score=24.93 Aligned_cols=21 Identities=19% Similarity=0.150 Sum_probs=19.0
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.+++|++++++.
T Consensus 72 ~~~~~~dG~~v~~g~~i~~i~ 92 (281)
T PRK06106 72 MRRHLPDGAAVAPGDVIATIS 92 (281)
T ss_pred EEEEeCCCCEEcCCCEEEEEE
Confidence 678899999999999999875
No 159
>PRK05279 N-acetylglutamate synthase; Validated
Probab=32.71 E-value=57 Score=25.04 Aligned_cols=47 Identities=9% Similarity=0.085 Sum_probs=27.1
Q ss_pred eCCCcEEEEecCcEEe--cCCeEEEEEeeh----hc---cCCccCc-hhhHhhhhhh
Q 042693 15 ATPGAISFRHYGAFLH--KGNKLVTFIYEK----LR---SCDLTRA-LSKVKQVLEI 61 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~--~G~~L~~l~~e~----~k---t~DItqG-LPkVeeLfEA 61 (71)
+-+...++..+-+=|. .|..+-.+..+. +. ++|+++| .|||+..++|
T Consensus 200 l~a~~lv~ltdv~GV~~~~~~~i~~i~~~~~~~~~~~~~~~~~~ggM~~Kv~~a~~~ 256 (441)
T PRK05279 200 LKADKLIFFTESQGVLDEDGELIRELSPNEAQALLEALEDGDYNSGTARFLRAAVKA 256 (441)
T ss_pred cCCCEEEEEECCCCccCCCCchhhhCCHHHHHHHHhhhhcCCCCccHHHHHHHHHHH
Confidence 3344455544433332 355555553221 22 7899988 5999998886
No 160
>PRK02899 adaptor protein; Provisional
Probab=32.70 E-value=39 Score=23.96 Aligned_cols=34 Identities=24% Similarity=0.317 Sum_probs=26.7
Q ss_pred cEEecCCeEEEEEeehhccC-----CccCchhhHhhhhh
Q 042693 27 AFLHKGNKLVTFIYEKLRSC-----DLTRALSKVKQVLE 60 (71)
Q Consensus 27 ~~V~~G~~L~~l~~e~~kt~-----DItqGLPkVeeLfE 60 (71)
+.|..+++=+++.++-+..+ |+.++=||+++||.
T Consensus 4 ErInentIrv~it~~DL~eRgi~~~dL~~n~~k~e~lF~ 42 (197)
T PRK02899 4 ERLNYNKIKIFLTFDDLSERGLTKEDLWRDAPKVHQLFR 42 (197)
T ss_pred eEccCCeEEEEEeHHHHHHcCCCHHHHhcCcHHHHHHHH
Confidence 45777888888888776654 66789999999983
No 161
>PRK09016 quinolinate phosphoribosyltransferase; Validated
Probab=32.44 E-value=48 Score=25.29 Aligned_cols=21 Identities=10% Similarity=0.063 Sum_probs=18.7
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.|++|++|+.+.
T Consensus 87 v~~~~~dG~~v~~G~~i~~i~ 107 (296)
T PRK09016 87 IEWHVDDGDVITANQTLFELT 107 (296)
T ss_pred EEEEcCCCCEecCCCEEEEEE
Confidence 568899999999999999875
No 162
>PLN02716 nicotinate-nucleotide diphosphorylase (carboxylating)
Probab=32.42 E-value=51 Score=25.34 Aligned_cols=20 Identities=30% Similarity=0.260 Sum_probs=17.7
Q ss_pred EEEEecCcEEecCCeEEEEE
Q 042693 20 ISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~ 39 (71)
..++.+|+.|++|++++++.
T Consensus 81 ~~~~~dG~~v~~G~~i~~v~ 100 (308)
T PLN02716 81 EWAAIDGDFVHKGLKFGKVT 100 (308)
T ss_pred EEEeCCCCEecCCCEEEEEE
Confidence 46789999999999999875
No 163
>TIGR00761 argB acetylglutamate kinase. This model describes N-acetylglutamate kinases (ArgB) of many prokaryotes and the N-acetylglutamate kinase domains of multifunctional proteins from yeasts. This enzyme is the second step in the "acetylated" ornithine biosynthesis pathway. A related group of enzymes representing the first step of the pathway contain a homologous domain and are excluded from this model.
Probab=31.93 E-value=29 Score=24.16 Aligned_cols=19 Identities=26% Similarity=0.347 Sum_probs=16.2
Q ss_pred hccCCccCc-hhhHhhhhhh
Q 042693 43 LRSCDLTRA-LSKVKQVLEI 61 (71)
Q Consensus 43 ~kt~DItqG-LPkVeeLfEA 61 (71)
+..+|+++| .||++..++|
T Consensus 202 ~~~~~~tggm~~Kl~~a~~a 221 (231)
T TIGR00761 202 IEQGIITGGMIPKVNAALEA 221 (231)
T ss_pred HHcCCCCCchHHHHHHHHHH
Confidence 456899998 7999999997
No 164
>PF10199 Adaptin_binding: Alpha and gamma adaptin binding protein p34; InterPro: IPR019341 p34 is a protein involved in membrane trafficking. It is known to interact with both alpha and gamma adaptin []. It has been speculated that p34 may play a chaperone role such as preventing the soluble adaptors from co-assembling with soluble clathrin, or helping to remove the adaptors from the coated vesicle. It may also aid in the recruitment of soluble adaptors onto the membrane [].
Probab=31.81 E-value=26 Score=22.59 Aligned_cols=13 Identities=15% Similarity=0.470 Sum_probs=11.7
Q ss_pred CchhhHhhhhhhc
Q 042693 50 RALSKVKQVLEIR 62 (71)
Q Consensus 50 qGLPkVeeLfEAR 62 (71)
+|++||-|.|||-
T Consensus 3 ~Gi~Ri~EALeah 15 (137)
T PF10199_consen 3 QGIERIVEALEAH 15 (137)
T ss_pred ccHHHHHHHHHhC
Confidence 7999999999984
No 165
>PRK05704 dihydrolipoamide succinyltransferase; Validated
Probab=31.14 E-value=61 Score=25.32 Aligned_cols=18 Identities=17% Similarity=0.119 Sum_probs=11.6
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.|+.|..|++|+.+-
T Consensus 60 ~v~~G~~V~~G~~l~~i~ 77 (407)
T PRK05704 60 LAEEGDTVTVGQVLGRID 77 (407)
T ss_pred EeCCCCEeCCCCEEEEEe
Confidence 556666666666666664
No 166
>KOG0559 consensus Dihydrolipoamide succinyltransferase (2-oxoglutarate dehydrogenase, E2 subunit) [Energy production and conversion]
Probab=30.96 E-value=56 Score=26.63 Aligned_cols=20 Identities=20% Similarity=0.193 Sum_probs=18.0
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
+.|++||.|+.|+.|+++..
T Consensus 129 ~lvk~gdtV~~g~~la~i~~ 148 (457)
T KOG0559|consen 129 LLVKDGDTVTPGQKLAKISP 148 (457)
T ss_pred EecCCCCcccCCceeEEecC
Confidence 36999999999999999876
No 167
>PLN02226 2-oxoglutarate dehydrogenase E2 component
Probab=30.93 E-value=1.2e+02 Score=24.63 Aligned_cols=38 Identities=13% Similarity=0.225 Sum_probs=25.8
Q ss_pred CCCCcEEEEE-------eCCCcEE--EEecCcEEecCCeEEEEEeeh
Q 042693 5 LKSDQILIVQ-------ATPGAIS--FRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 5 ~~sGqii~i~-------~~~ga~l--~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+.+|.+..+. +.+|.++ +++.||.|++|++|+.+--.|
T Consensus 86 ~~~~~m~~i~mP~lg~~~~eG~I~~w~v~~GD~V~~Gq~L~~VEtdK 132 (463)
T PLN02226 86 SESGDTVEAVVPHMGESITDGTLATFLKKPGERVQADEAIAQIETDK 132 (463)
T ss_pred cccCCceEEecCCCCCCcceEEEEEEEeCCCCEecCCCEEEEEEecc
Confidence 3455554444 5666654 788999999999998764433
No 168
>cd01573 modD_like ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and eukaryotes. They catalyse the reaction of quinolinic acid (QA) with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to produce nicotinic acid mononucleotide (NAMN), pyrophosphate and carbon dioxide.
Probab=30.86 E-value=53 Score=24.21 Aligned_cols=22 Identities=14% Similarity=-0.025 Sum_probs=18.5
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
....++.+|+.|++|++++++.
T Consensus 57 ~v~~~~~dG~~v~~g~~i~~i~ 78 (272)
T cd01573 57 EVDLAAASGSRVAAGAVLLEAE 78 (272)
T ss_pred EEEEEcCCCCEecCCCEEEEEE
Confidence 4456789999999999999875
No 169
>PRK08385 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=30.79 E-value=54 Score=24.59 Aligned_cols=22 Identities=9% Similarity=0.116 Sum_probs=18.4
Q ss_pred CcEEEEecCcEEecCCeEEEEE
Q 042693 18 GAISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 18 ga~l~v~~G~~V~~G~~L~~l~ 39 (71)
....++.+|+.|++|++++++-
T Consensus 59 ~v~~~~~dG~~v~~g~~i~~i~ 80 (278)
T PRK08385 59 KVEVRKRDGEEVKAGEVILELK 80 (278)
T ss_pred EEEEEcCCCCEecCCCEEEEEE
Confidence 3455789999999999999875
No 170
>PF01016 Ribosomal_L27: Ribosomal L27 protein; InterPro: IPR001684 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. L27 is a protein from the large (50S) subunit; it is essential for ribosome function, but its exact role is unclear. It belongs to a family of ribosomal proteins, examples of which are found in bacteria, chloroplasts of plants and red algae and the mitochondria of fungi (e.g. MRP7 from yeast mitochondria). The schematic relationship between these groups of proteins is shown below. Bacterial L27 Nxxxxxxxxx Algal L27 Nxxxxxxxxx Plant L27 tttttNxxxxxxxxxxxxx Yeast MRP7 tttNxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx 't': transit peptide. 'N': N-terminal of mature protein. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZJQ_T 2ZJP_T 3PIP_T 3DLL_T 3PIO_T 1Y69_U 3CF5_T 2ZJR_T 1VSA_U 3PYT_W ....
Probab=30.52 E-value=43 Score=21.25 Aligned_cols=17 Identities=29% Similarity=0.440 Sum_probs=14.2
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
-..+|++|.+|++|++-
T Consensus 23 K~~~G~~V~~G~IivRQ 39 (81)
T PF01016_consen 23 KKFGGQFVKAGNIIVRQ 39 (81)
T ss_dssp SSSTTCEESSTSEEEEB
T ss_pred EEeCCEEEcCCCEEEEe
Confidence 35689999999999874
No 171
>cd04237 AAK_NAGS-ABP AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal NAG synthase, acetyltransferase (ArgA) domain. Both bacterial and plant sequences in this CD have a conserved N-terminal extension; a similar sequence in the NAG kinases of the cyclic arginine-biosynthesis pathway has been implicated in feedback inhibition sensing. Plant sequences also have an N-terminal chloroplast transit peptide and an insert (approx. 70 residues) in the C-terminal region of ArgB. Members of this CD belong to the Amino Acid Kinase Superfamily (AAK).
Probab=30.38 E-value=69 Score=23.41 Aligned_cols=55 Identities=15% Similarity=0.193 Sum_probs=33.3
Q ss_pred CCcEEEEE-----------eCCCcEEEEecCcEEe--cCCeEEEEE----eehhccCCc-cCc-hhhHhhhhhh
Q 042693 7 SDQILIVQ-----------ATPGAISFRHYGAFLH--KGNKLVTFI----YEKLRSCDL-TRA-LSKVKQVLEI 61 (71)
Q Consensus 7 sGqii~i~-----------~~~ga~l~v~~G~~V~--~G~~L~~l~----~e~~kt~DI-tqG-LPkVeeLfEA 61 (71)
+||++.++ +-+...++..+-+=|. .|..+-.+. .+-+..+.+ ++| .|||++.+||
T Consensus 174 ~g~~lnvnaD~~A~~LA~~L~a~klv~ltdv~GV~~~~~~~i~~i~~~e~~~l~~~~~~~~ggM~~Kv~~a~~a 247 (280)
T cd04237 174 TGEVFNLSMEDVATAVAIALKADKLIFLTDGPGLLDDDGELIRELTAQEAEALLETGALLTNDTARLLQAAIEA 247 (280)
T ss_pred CCCEEeeCHHHHHHHHHHHcCCCEEEEEeCCCcccCCCCCccccCCHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence 46666555 3344455555444333 466666664 334555677 655 6999999997
No 172
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=29.80 E-value=69 Score=17.63 Aligned_cols=22 Identities=18% Similarity=0.206 Sum_probs=10.7
Q ss_pred eCCCcEEEEecCcEEecCCeEE
Q 042693 15 ATPGAISFRHYGAFLHKGNKLV 36 (71)
Q Consensus 15 ~~~ga~l~v~~G~~V~~G~~L~ 36 (71)
+++|..+.++....+..||.++
T Consensus 11 i~~Gd~v~v~~~~~~~~gdivv 32 (70)
T PF00717_consen 11 IKDGDIVLVDPSSEPKDGDIVV 32 (70)
T ss_dssp SSTTEEEEEEETS---TTSEEE
T ss_pred eeCCCEEEEEEcCCCccCeEEE
Confidence 3456666666555555665544
No 173
>cd08607 GDPD_GDE5 Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative mammalian GDE5 and similar proteins. Mammalian GDE5 is widely expressed in mammalian tissues, with highest expression in the spinal chord. Although its biological function remains unclear, mammalian GDE5 shows higher sequence homology to fungal and plant glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46) than to other bacterial and mammalian GP-GDEs. It may also hydrolyze glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. In addition to C-terminal GDPD domain, all members in this subfamily have a starch binding domain (CBM20) in the N-terminus, which suggests these proteins may play a distinct role in glycerol metabolism.
Probab=29.78 E-value=82 Score=22.47 Aligned_cols=50 Identities=22% Similarity=0.230 Sum_probs=33.6
Q ss_pred EEeCCCcEEEEecCcEEecCC--------------eEEEEEeehhccCCc----------------------cCchhhHh
Q 042693 13 VQATPGAISFRHYGAFLHKGN--------------KLVTFIYEKLRSCDL----------------------TRALSKVK 56 (71)
Q Consensus 13 i~~~~ga~l~v~~G~~V~~G~--------------~L~~l~~e~~kt~DI----------------------tqGLPkVe 56 (71)
++++....+.|-|-..+..-. .+..+.++.+++=|. -+.+|..+
T Consensus 42 V~lTkDg~~VV~HD~~l~r~~~~~~~~~~~~~~~~~v~~lt~~eL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~iPtL~ 121 (290)
T cd08607 42 VQLTKDLVPVVYHDFTLRVSLKSKGDSDRDDLLEVPVKDLTYEQLKLLKLFHISALKVKEYKSVEEDEDPPEHQPFPTLS 121 (290)
T ss_pred EEEccCCeEEEEcCCeeEeeccCccccCccceEEEecccCCHHHHhhcCcccccccccccccccccccccccccCCCCHH
Confidence 336666666666666655411 577888888887664 23589999
Q ss_pred hhhhhc
Q 042693 57 QVLEIR 62 (71)
Q Consensus 57 eLfEAR 62 (71)
|+|+.=
T Consensus 122 evl~~~ 127 (290)
T cd08607 122 DVLESV 127 (290)
T ss_pred HHHHhC
Confidence 999963
No 174
>cd08583 PI-PLCc_GDPD_SF_unchar1 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=29.20 E-value=46 Score=23.09 Aligned_cols=49 Identities=12% Similarity=0.133 Sum_probs=32.0
Q ss_pred EEeCCCcEEEEecCcEEe----c----CCeEEEEEeehhccCCcc--CchhhHhhhhhh
Q 042693 13 VQATPGAISFRHYGAFLH----K----GNKLVTFIYEKLRSCDLT--RALSKVKQVLEI 61 (71)
Q Consensus 13 i~~~~ga~l~v~~G~~V~----~----G~~L~~l~~e~~kt~DIt--qGLPkVeeLfEA 61 (71)
++++....+.+.|.+.+. . ...+..+.++.++..|.- ..+|..+|+|+.
T Consensus 36 V~lTkDg~lVv~HD~~~~r~~~~g~~~~~~i~~~t~~el~~~~~~~~~~iptL~evl~~ 94 (237)
T cd08583 36 LSLTSDGVLVARHSWDESLLKQLGLPTSKNTKPLSYEEFKSKKIYGKYTPMDFKDVIDL 94 (237)
T ss_pred eeEccCCCEEEEECCcCchhhhcCCcccccccCCCHHHHhhccccCCCCCCCHHHHHHH
Confidence 346665555555554332 1 224678888888887764 358999999985
No 175
>TIGR01347 sucB 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component). dihydrolipoamide acetyltransferase. The seed for this model includes mitochondrial and Gram-negative bacterial forms. Mycobacterial candidates are highly derived, differ in having and extra copy of the lipoyl-binding domain at the N-terminus. They score below the trusted cutoff, but above the noise cutoff and above all examples of dihydrolipoamide acetyltransferase.
Probab=28.58 E-value=70 Score=24.99 Aligned_cols=19 Identities=16% Similarity=0.172 Sum_probs=12.0
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
++++.|+.|..|++|+.+-
T Consensus 57 i~~~eG~~v~vG~~l~~i~ 75 (403)
T TIGR01347 57 ILFKEGDTVESGQVLAILE 75 (403)
T ss_pred EEeCCCCEeCCCCEEEEEe
Confidence 3556666666666666664
No 176
>cd08568 GDPD_TmGDE_like Glycerophosphodiester phosphodiesterase domain of Thermotoga maritime and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermotoga maritime glycerophosphodiester phosphodiesterase (TmGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. TmGDE exists as a monomer that might be the biologically relevant form.
Probab=27.99 E-value=96 Score=21.33 Aligned_cols=50 Identities=14% Similarity=0.137 Sum_probs=34.7
Q ss_pred EEeCCCcEEEEecCcEEec----CCeEEEEEeehhccCCcc-CchhhHhhhhhhc
Q 042693 13 VQATPGAISFRHYGAFLHK----GNKLVTFIYEKLRSCDLT-RALSKVKQVLEIR 62 (71)
Q Consensus 13 i~~~~ga~l~v~~G~~V~~----G~~L~~l~~e~~kt~DIt-qGLPkVeeLfEAR 62 (71)
++++....+.+.|-+.+.. .-.+..+.|+.+++=|+- +-+|..+|+|+.=
T Consensus 35 V~lT~Dg~~Vv~HD~~l~R~t~~~g~v~~~t~~eL~~l~~~g~~iPtL~evl~~~ 89 (226)
T cd08568 35 VWLTKDGKLVVLHDENLKRVGGVDLKVKELTYKELKKLHPGGELIPTLEEVFRAL 89 (226)
T ss_pred EEEcCCCCEEEECCCcccccCCCCceeecCCHHHHhhCCCCCCcCCCHHHHHHhc
Confidence 3466656666655555533 236788889988887764 4599999999863
No 177
>PF13667 ThiC-associated: ThiC-associated domain ; PDB: 3EPO_A 3EPN_B 3EPM_B.
Probab=27.88 E-value=28 Score=21.87 Aligned_cols=20 Identities=20% Similarity=0.356 Sum_probs=10.1
Q ss_pred cCCccCchhhHh-hhhhhcCC
Q 042693 45 SCDLTRALSKVK-QVLEIRSF 64 (71)
Q Consensus 45 t~DItqGLPkVe-eLfEAR~~ 64 (71)
.-||-.|||++- +-.++|..
T Consensus 57 ~iDi~~GLp~lR~~WI~~R~D 77 (80)
T PF13667_consen 57 EIDIRKGLPPLREEWIEERGD 77 (80)
T ss_dssp ---TTT-S--TTHHHHHHTS-
T ss_pred ccchhcCChHHHHHHHHhcCC
Confidence 358999999986 66777754
No 178
>TIGR01235 pyruv_carbox pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis.
Probab=27.44 E-value=1.3e+02 Score=26.87 Aligned_cols=24 Identities=25% Similarity=0.223 Sum_probs=18.8
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
.++|+.||.|++||+|+.+--.|.
T Consensus 1087 ~~~v~~Gd~V~~Gd~L~~iEamKm 1110 (1143)
T TIGR01235 1087 EVKVSSGQAVNKGDPLVVLEAMKM 1110 (1143)
T ss_pred EEEeCCCCEeCCCCEEEEEEecce
Confidence 457889999999999998765544
No 179
>PRK09454 ugpQ cytoplasmic glycerophosphodiester phosphodiesterase; Provisional
Probab=27.43 E-value=59 Score=22.91 Aligned_cols=49 Identities=14% Similarity=0.108 Sum_probs=34.4
Q ss_pred EEeCCCcEEEEecCcEEec----CCeEEEEEeehhccCCcc---------CchhhHhhhhhh
Q 042693 13 VQATPGAISFRHYGAFLHK----GNKLVTFIYEKLRSCDLT---------RALSKVKQVLEI 61 (71)
Q Consensus 13 i~~~~ga~l~v~~G~~V~~----G~~L~~l~~e~~kt~DIt---------qGLPkVeeLfEA 61 (71)
++++....+.|.|-+.+.. ...+..+.|+.+++=|+- +.+|..+|+|++
T Consensus 43 V~lT~Dg~lVV~HD~~l~R~t~~~~~v~~~t~~el~~l~~~~~~~~~~~~~~iPtL~evl~~ 104 (249)
T PRK09454 43 AKLSADGEIFLLHDDTLERTSNGWGVAGELTWQDLAQLDAGSWFSAAFAGEPLPTLSQVAAR 104 (249)
T ss_pred eeECCCCCEEEECCCcccccCCCCCchhhCCHHHHHhcCCCCccCCCCCCCcCCCHHHHHHH
Confidence 3466666666666665543 235678889988887763 359999999996
No 180
>PRK14040 oxaloacetate decarboxylase; Provisional
Probab=27.12 E-value=1.3e+02 Score=24.96 Aligned_cols=18 Identities=22% Similarity=0.266 Sum_probs=16.3
Q ss_pred EEEecCcEEecCCeEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l 38 (71)
++++.|+.|..|++|+.+
T Consensus 575 i~v~~Gd~V~~G~~L~~I 592 (593)
T PRK14040 575 IAVKEGDAVAVGDTLLTL 592 (593)
T ss_pred EEeCCCCEECCCCEEEEe
Confidence 578999999999999986
No 181
>PTZ00144 dihydrolipoamide succinyltransferase; Provisional
Probab=27.03 E-value=1.5e+02 Score=23.51 Aligned_cols=20 Identities=20% Similarity=0.182 Sum_probs=17.5
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
++++.|+.|..|++|+.+-.
T Consensus 101 i~v~~G~~V~~G~~L~~I~~ 120 (418)
T PTZ00144 101 IFAEEGDTVEVGAPLSEIDT 120 (418)
T ss_pred EEeCCCCEecCCCEEEEEcC
Confidence 47899999999999999953
No 182
>PRK12999 pyruvate carboxylase; Reviewed
Probab=26.96 E-value=1.2e+02 Score=27.09 Aligned_cols=23 Identities=17% Similarity=0.151 Sum_probs=16.7
Q ss_pred EEEEecCcEEecCCeEEEEEeeh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~ 42 (71)
.++|+.||.|++|++|+.+--.+
T Consensus 1089 ~i~v~~Gd~V~~G~~L~~leamK 1111 (1146)
T PRK12999 1089 TVLVKEGDEVKAGDPLAVIEAMK 1111 (1146)
T ss_pred EEEcCCCCEECCCCEEEEEEccc
Confidence 35688888888888888775443
No 183
>TIGR00527 gcvH glycine cleavage system H protein. The genome of Aquifex aeolicus contains one protein scoring above the trusted cutoff and clustering with other bacterial H proteins, and four more proteins clustering together and scoring below the trusted cutoff; it seems doubtful that all of these homologs are authentic H protein. The Chlamydial homolog of H protein is nearly as divergent as the Aquifex outgroup, is not accompanied by P and T proteins, is not included in the seed alignment, and consequently also scores below the trusted cutoff.
Probab=26.73 E-value=86 Score=20.63 Aligned_cols=32 Identities=25% Similarity=0.255 Sum_probs=23.5
Q ss_pred CCcEEEEe---cCcEEecCCeEEEEEeehhccCCcc
Q 042693 17 PGAISFRH---YGAFLHKGNKLVTFIYEKLRSCDLT 49 (71)
Q Consensus 17 ~ga~l~v~---~G~~V~~G~~L~~l~~e~~kt~DIt 49 (71)
.|.+.+++ -|+.|++|++++++-..+. ..||.
T Consensus 35 lG~i~~v~lp~~G~~v~~g~~~~~IEs~K~-~~~i~ 69 (127)
T TIGR00527 35 LGDIVFVELPEVGAEVSAGESCGSVESVKA-ASDIY 69 (127)
T ss_pred CCCCceeecCCCCCEecCCCEEEEEEEeee-eeeee
Confidence 36777774 7999999999999965553 34543
No 184
>cd04236 AAK_NAGS-Urea AAK_NAGS-Urea: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the urea cycle found in animals. Ureogenic NAGS is a mitochondrial enzyme catalyzing the formation of NAG from acetylcoenzyme A and L-glutamate; NAG is an essential allosteric activator of carbamylphosphate synthase I, the first and rate limiting enzyme of the urea cycle. Ureogenic NAGS activity is dependent on the concentration of glutamate (substrate) and arginine (activator). Domain architecture of ureogenic NAGS consists of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal DUF619 domain. Members of this CD belong to the protein superfamily, the Amino Acid Kinase Family (AAKF).
Probab=26.60 E-value=1.2e+02 Score=22.58 Aligned_cols=58 Identities=14% Similarity=0.120 Sum_probs=35.3
Q ss_pred CCCcEEEEE-----------eCCCcEEEEec-CcEE-ecCCeEEEEEe-e----hhccCCccCch----hhHhhhhhhcC
Q 042693 6 KSDQILIVQ-----------ATPGAISFRHY-GAFL-HKGNKLVTFIY-E----KLRSCDLTRAL----SKVKQVLEIRS 63 (71)
Q Consensus 6 ~sGqii~i~-----------~~~ga~l~v~~-G~~V-~~G~~L~~l~~-e----~~kt~DItqGL----PkVeeLfEAR~ 63 (71)
.+||++-++ +.+.-.++..+ +... ..|..+-++.- + -.+.+=|++|. |||+++|+|=.
T Consensus 165 ~~G~~~NiNaD~~A~~lA~aL~A~KLIfltd~~GV~~~~g~lI~~l~~~~e~~~li~~g~i~gGm~~ki~ki~~~l~~l~ 244 (271)
T cd04236 165 SSGRSVSLDSSEVTTAIAKALQPIKVIFLNRSGGLRDQKHKVLPQVHLPADLPSLSDAEWLSETEQNRIQDIATLLNALP 244 (271)
T ss_pred CCCCEEEECHHHHHHHHHHHcCCCEEEEEeCCcceECCCCCCccccCcHHHHHHHHhCCEEcCCeeechHHHHHHHHhcc
Confidence 456777666 33444444443 3333 24776666663 2 24456688887 99999999843
No 185
>TIGR01348 PDHac_trf_long pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form. This model describes a subset of pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase specifically close by both phylogenetic and per cent identity (UPGMA) trees. Members of this set include two or three copies of the lipoyl-binding domain. E. coli AceF is a member of this model, while mitochondrial and some other bacterial forms belong to a separate model.
Probab=26.52 E-value=59 Score=26.29 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=18.5
Q ss_pred EEEEecCcEEecCCeEEEEEeehh
Q 042693 20 ISFRHYGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 20 ~l~v~~G~~V~~G~~L~~l~~e~~ 43 (71)
..+++.||.|++|+.|+.+--.+.
T Consensus 134 ~w~v~~Gd~V~~g~~l~~vetdK~ 157 (546)
T TIGR01348 134 EVLVKVGDTVSADQSLITLESDKA 157 (546)
T ss_pred EEeeCCCCcccCCCeeEEEEecce
Confidence 347889999999999988765544
No 186
>PLN02528 2-oxoisovalerate dehydrogenase E2 component
Probab=26.40 E-value=82 Score=24.65 Aligned_cols=19 Identities=16% Similarity=0.240 Sum_probs=12.5
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
++++.|+.|..|++|+.+.
T Consensus 55 i~v~~G~~v~vG~~l~~i~ 73 (416)
T PLN02528 55 INFSPGDIVKVGETLLKIM 73 (416)
T ss_pred EEeCCCCEeCCCCEEEEEe
Confidence 4556667777777776664
No 187
>PRK13380 glycine cleavage system protein H; Provisional
Probab=26.08 E-value=1.3e+02 Score=20.36 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=20.0
Q ss_pred CcEEEEe---cCcEEecCCeEEEEEeehh
Q 042693 18 GAISFRH---YGAFLHKGNKLVTFIYEKL 43 (71)
Q Consensus 18 ga~l~v~---~G~~V~~G~~L~~l~~e~~ 43 (71)
|.+.+++ .|+.|++|++++++-..+.
T Consensus 44 G~I~~v~lp~~G~~V~~Gd~~~~IEs~K~ 72 (144)
T PRK13380 44 GDVVFVRLKELGKKVEKGKPVATLESGKW 72 (144)
T ss_pred CCEEEEEcCCCCCEeeCCCeEEEEEEcce
Confidence 5555554 6899999999999966555
No 188
>KOG0369 consensus Pyruvate carboxylase [Energy production and conversion]
Probab=26.07 E-value=96 Score=27.66 Aligned_cols=26 Identities=31% Similarity=0.386 Sum_probs=20.4
Q ss_pred CCcEE--EEecCcEEecCCeEEEEEeeh
Q 042693 17 PGAIS--FRHYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 17 ~ga~l--~v~~G~~V~~G~~L~~l~~e~ 42 (71)
+|.+| .|+.|++|++|++|+-|.--+
T Consensus 1114 pG~vieikvk~G~kV~Kgqpl~VLSAMK 1141 (1176)
T KOG0369|consen 1114 PGTVIEIKVKEGAKVKKGQPLAVLSAMK 1141 (1176)
T ss_pred CCceEEEEEecCceecCCCceEeeecce
Confidence 36555 588999999999999887543
No 189
>PRK05704 dihydrolipoamide succinyltransferase; Validated
Probab=26.07 E-value=1.6e+02 Score=22.96 Aligned_cols=20 Identities=15% Similarity=0.250 Sum_probs=14.0
Q ss_pred EEecCcEEecCCeEEEEEee
Q 042693 22 FRHYGAFLHKGNKLVTFIYE 41 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~~e 41 (71)
+++.||.|++||.|+.+--.
T Consensus 23 ~v~~Gd~V~~Gd~l~~vEtd 42 (407)
T PRK05704 23 HKKPGDAVKRDEVLVEIETD 42 (407)
T ss_pred EeCCcCEeCCCCEEEEEEec
Confidence 57777888888887765433
No 190
>PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional
Probab=25.78 E-value=38 Score=31.32 Aligned_cols=36 Identities=14% Similarity=0.215 Sum_probs=28.9
Q ss_pred eCCCcEEE--EecCcEEecCCeEEEEEeehhccCCccCchhhHhhhhhhcC
Q 042693 15 ATPGAISF--RHYGAFLHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRS 63 (71)
Q Consensus 15 ~~~ga~l~--v~~G~~V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~ 63 (71)
+|.++.+. |++||.|++|+.| |.|-+-..+||+..-
T Consensus 1061 v~~~~~~~~~v~~gd~v~~G~~l-------------~~G~~~p~~il~~~g 1098 (1460)
T PRK14906 1061 VSARVQFMPGVEDGVEVRVGQQI-------------TRGSVNPHDLLRLTD 1098 (1460)
T ss_pred ccCCcccccccCCCCEEccCCCc-------------cCCCCCHHHHHHhcC
Confidence 89999999 9999999999986 446666667766543
No 191
>PF10262 Rdx: Rdx family; InterPro: IPR011893 This entry represents the Rdx family of selenoproteins, which includes mammalian selenoproteins SelW, SelV, SelT and SelH, bacterial SelW-like proteins and cysteine-containing proteins of unknown function in all three domains of life. Mammalian Rdx12 and its fish selenoprotein orthologues are also members of this family []. These proteins possess a thioredoxin-like fold and a conserved CXXC or CxxU (U is selenocysteine) motif near the N terminus, suggesting a redox function. Rdx proteins can use catalytic cysteine (or selenocysteine) to form transient mixed disulphides with substrate proteins. Selenium (Se) plays an essential role in cell survival and most of the effects of Se are probably mediated by selenoproteins. Selenoprotein W (SelW) plays an important role in protection of neurons from oxidative stress during neuronal development [], []. Selenoprotein T (SelT) is conserved from plants to humans. SelT is localized to the endoplasmic reticulum through a hydrophobic domain. The protein binds to UDP-glucose:glycoprotein glucosyltransferase (UGTR), the endoplasmic reticulum (ER)-resident protein, which is known to be involved in the quality control of protein folding [, ]. The function of SelT is unknown, although it may have a role in PACAP signaling during PC12 cell differentiation [, ]. Selenoprotein H (SelH) protects neurons against UVB-induced damage by inhibiting apoptotic cell death pathways, by preventing mitochondrial depolarization, and by promoting cell survival pathways [].; GO: 0008430 selenium binding, 0045454 cell redox homeostasis; PDB: 2OJL_B 2FA8_A 2P0G_C 2NPB_A 3DEX_C 2OKA_A 2OBK_G.
Probab=25.65 E-value=1.1e+02 Score=18.01 Aligned_cols=20 Identities=20% Similarity=0.521 Sum_probs=16.3
Q ss_pred EEeehhccCCccCchhhHhhhhhh
Q 042693 38 FIYEKLRSCDLTRALSKVKQVLEI 61 (71)
Q Consensus 38 l~~e~~kt~DItqGLPkVeeLfEA 61 (71)
+.|.++++| |.|-.+|++++
T Consensus 53 lI~SK~~~g----~fP~~~~i~~~ 72 (76)
T PF10262_consen 53 LIFSKLESG----RFPDPDEIVQL 72 (76)
T ss_dssp EEEEHHHHT----SSS-HHHHHHH
T ss_pred EEEEehhcC----CCCCHHHHHHH
Confidence 788899877 99999999875
No 192
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=25.24 E-value=71 Score=17.81 Aligned_cols=21 Identities=10% Similarity=0.336 Sum_probs=10.1
Q ss_pred eCCCcEEEEecCcE-EecCCeE
Q 042693 15 ATPGAISFRHYGAF-LHKGNKL 35 (71)
Q Consensus 15 ~~~ga~l~v~~G~~-V~~G~~L 35 (71)
++.|.++.++.... +..|+.+
T Consensus 14 i~~gd~v~i~~~~~~~~~G~iv 35 (84)
T cd06462 14 IPDGDLVLVDKSSYEPKRGDIV 35 (84)
T ss_pred ccCCCEEEEEecCCCCcCCEEE
Confidence 34455555554444 4444444
No 193
>PRK11854 aceF pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated
Probab=25.06 E-value=73 Score=26.17 Aligned_cols=17 Identities=18% Similarity=0.268 Sum_probs=9.1
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.||.|++|++|+.+
T Consensus 225 ~v~~Gd~V~~g~~l~~v 241 (633)
T PRK11854 225 MVKVGDKVEAEQSLITV 241 (633)
T ss_pred EecCCCeecCCCceEEE
Confidence 44555555555555544
No 194
>PRK12999 pyruvate carboxylase; Reviewed
Probab=24.91 E-value=71 Score=28.39 Aligned_cols=17 Identities=24% Similarity=0.391 Sum_probs=11.2
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.|+.|..|+.|+++
T Consensus 1128 ~v~~g~~V~~g~~l~~i 1144 (1146)
T PRK12999 1128 LVKAGDQVEAGDLLVEL 1144 (1146)
T ss_pred EeCCCCEECCCCEEEEE
Confidence 35666777777777665
No 195
>PRK11855 dihydrolipoamide acetyltransferase; Reviewed
Probab=24.84 E-value=85 Score=25.19 Aligned_cols=17 Identities=24% Similarity=0.307 Sum_probs=10.2
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.||.|++|++|+.+
T Consensus 22 ~v~~Gd~V~~g~~l~~i 38 (547)
T PRK11855 22 LVKEGDTVEEDQPLVTV 38 (547)
T ss_pred EcCCCCEeCCCCEEEEE
Confidence 45566666666666554
No 196
>PF01538 HCV_NS2: Hepatitis C virus non-structural protein NS2; InterPro: IPR002518 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. The group of proteins, non-structural protein 2 (NS2) of hepatitis C virus, are peptidases belonging to MEROPS peptidase family C18 (hepatitis C virus endopeptidase 2, clan CM). The viral genome is translated into a single polyprotein of about 3000 amino acids. Generation of the mature non-structural proteins relies on the activity of viral proteases. NS2 is an zinc-dependent autocatalytic endopeptidase which cleaves at the NS2/NS3 junction [, ]. The action of NS3 proteinase (NS3P, IPR004109 from INTERPRO), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity; PDB: 2HD0_F 2KWZ_A 2KWT_A.
Probab=24.83 E-value=23 Score=25.95 Aligned_cols=15 Identities=13% Similarity=0.198 Sum_probs=9.3
Q ss_pred ehhccCCccCchhhH
Q 042693 41 EKLRSCDLTRALSKV 55 (71)
Q Consensus 41 e~~kt~DItqGLPkV 55 (71)
+.+--|||+.|||-+
T Consensus 179 dTaACGdii~GLPVs 193 (195)
T PF01538_consen 179 DTAACGDIIHGLPVS 193 (195)
T ss_dssp TT--TT-EETTEEEE
T ss_pred ceecccccccCccCC
Confidence 455568999999954
No 197
>PF01987 AIM24: Mitochondrial biogenesis AIM24; InterPro: IPR002838 The proteins in this family have no known function.; PDB: 1PG6_A 1YOX_D.
Probab=24.40 E-value=1.6e+02 Score=20.08 Aligned_cols=30 Identities=17% Similarity=0.252 Sum_probs=21.6
Q ss_pred CCCCcEEEEEeCCCcEEEEecCcEEecCCe
Q 042693 5 LKSDQILIVQATPGAISFRHYGAFLHKGNK 34 (71)
Q Consensus 5 ~~sGqii~i~~~~ga~l~v~~G~~V~~G~~ 34 (71)
-.+.+++.++++++..++++.|.+|.-..-
T Consensus 6 g~~~~~l~v~L~~~~~v~~~~Gsmv~~~g~ 35 (215)
T PF01987_consen 6 GPPFSVLSVTLPPGEPVYAEAGSMVAMSGN 35 (215)
T ss_dssp SSSS-EEEEEE-TT-EEEEECCGEEEEETT
T ss_pred CCCcEEEEEEECCCCeEEEEcCCEEEEeCC
Confidence 456789999999999999999998764433
No 198
>cd08601 GDPD_SaGlpQ_like Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46) from Staphylococcus aureus, Bacillus subtilis and similar proteins. Members in this family show very high sequence similarity to Escherichia coli periplasmic phosphodiesterase GlpQ, which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=24.22 E-value=1.2e+02 Score=21.29 Aligned_cols=49 Identities=12% Similarity=0.211 Sum_probs=34.1
Q ss_pred EEeCCCcEEEEecCcEEec------CCeEEEEEeehhccCCcc-----------------CchhhHhhhhhh
Q 042693 13 VQATPGAISFRHYGAFLHK------GNKLVTFIYEKLRSCDLT-----------------RALSKVKQVLEI 61 (71)
Q Consensus 13 i~~~~ga~l~v~~G~~V~~------G~~L~~l~~e~~kt~DIt-----------------qGLPkVeeLfEA 61 (71)
++++....+.+.|...+.. ...+..+.++.++.=|+- +.+|..+|+|++
T Consensus 36 V~lTkDg~~Vv~HD~~l~r~t~~~~~g~v~~~t~~el~~l~~~~~~~~~~~~~~~~~~~~~~iptL~evl~~ 107 (256)
T cd08601 36 LQMTKDGVLVAMHDETLDRTTNIERPGPVKDYTLAEIKQLDAGSWFNKAYPEYARESYSGLKVPTLEEVIER 107 (256)
T ss_pred eeECCCCeEEEeCCCccccccCCCCCceeecCcHHHHHhcCCCccccccCccccccccCCccCCCHHHHHHH
Confidence 3367666666666666544 345778888888877762 458999999985
No 199
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=24.09 E-value=72 Score=27.20 Aligned_cols=19 Identities=21% Similarity=0.151 Sum_probs=16.5
Q ss_pred EEecCcEEecCCeEEEEEe
Q 042693 22 FRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~~ 40 (71)
.|..|+.|.+||+|+.|--
T Consensus 590 ~V~~G~~V~~G~~lvvlEA 608 (645)
T COG4770 590 AVKEGQEVSAGDLLVVLEA 608 (645)
T ss_pred EecCCCEecCCCeEEEeEe
Confidence 5889999999999998743
No 200
>cd06848 GCS_H Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-proteins) which catalyzes the oxidative cleavage of glycine. The H-protein shuttles the methylamine group of glycine from the P-protein (glycine dehydrogenase) to the T-protein (aminomethyltransferase) via a lipoyl group, attached to a completely conserved lysine residue.
Probab=24.04 E-value=1.2e+02 Score=18.48 Aligned_cols=25 Identities=24% Similarity=0.284 Sum_probs=18.9
Q ss_pred EecCcEEecCCeEEEEEeehhccCCc
Q 042693 23 RHYGAFLHKGNKLVTFIYEKLRSCDL 48 (71)
Q Consensus 23 v~~G~~V~~G~~L~~l~~e~~kt~DI 48 (71)
...|+.|++|+.|+++-..+. +.||
T Consensus 37 ~~~G~~v~~g~~l~~iEs~k~-~~~i 61 (96)
T cd06848 37 PEVGTEVKKGDPFGSVESVKA-ASDL 61 (96)
T ss_pred cCCCCEEeCCCEEEEEEEccE-EEEE
Confidence 445999999999999976655 3444
No 201
>PRK11856 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed
Probab=23.79 E-value=98 Score=23.66 Aligned_cols=16 Identities=13% Similarity=0.227 Sum_probs=7.6
Q ss_pred EecCcEEecCCeEEEE
Q 042693 23 RHYGAFLHKGNKLVTF 38 (71)
Q Consensus 23 v~~G~~V~~G~~L~~l 38 (71)
++.|+.|..|++|+.+
T Consensus 61 v~~G~~v~~G~~l~~i 76 (411)
T PRK11856 61 VEEGDVVPVGSVIAVI 76 (411)
T ss_pred cCCCCEeCCCCEEEEE
Confidence 3444444444444444
No 202
>PF01597 GCV_H: Glycine cleavage H-protein; InterPro: IPR002930 This is a family of glycine cleavage H-proteins, part of the glycine cleavage multienzyme complex (GCV) found in bacteria and the mitochondria of eukaryotes. GCV catalyses the catabolism of glycine in eukaryotes. A lipoyl group is attached to a completely conserved lysine residue. The H protein shuttles the methylamine group of glycine from the P protein to the T protein [].; GO: 0006546 glycine catabolic process, 0005960 glycine cleavage complex; PDB: 3KLR_A 2EDG_A 1ONL_B 2KA7_A 1ZKO_A 3TZU_C 3MXU_A 3A8I_F 3A8J_E 3A7A_B ....
Probab=23.74 E-value=1.5e+02 Score=19.20 Aligned_cols=19 Identities=26% Similarity=0.401 Sum_probs=13.3
Q ss_pred ecCcEEecCCeEEEEEeeh
Q 042693 24 HYGAFLHKGNKLVTFIYEK 42 (71)
Q Consensus 24 ~~G~~V~~G~~L~~l~~e~ 42 (71)
..|+.+++|++++++-..+
T Consensus 40 ~~g~~~~~g~~~~~ies~k 58 (122)
T PF01597_consen 40 KVGTKLKKGDPFASIESSK 58 (122)
T ss_dssp -TT-EE-TTSEEEEEEESS
T ss_pred cCCCEEecCCcEEEEEECc
Confidence 4588999999999997554
No 203
>PLN00208 translation initiation factor (eIF); Provisional
Probab=23.55 E-value=2.2e+02 Score=19.78 Aligned_cols=48 Identities=8% Similarity=-0.023 Sum_probs=25.7
Q ss_pred CCCCCCcEEE-EE-eCCCcEEEEecC--c--------------EEecCCeEEE-EEeehhccCCccC
Q 042693 3 THLKSDQILI-VQ-ATPGAISFRHYG--A--------------FLHKGNKLVT-FIYEKLRSCDLTR 50 (71)
Q Consensus 3 ~~~~sGqii~-i~-~~~ga~l~v~~G--~--------------~V~~G~~L~~-l~~e~~kt~DItq 50 (71)
++|..||++. +. +-+++.+.|.+. . +|.+||.+.- +.--....+||+.
T Consensus 27 ~~p~egq~~g~V~~~lGn~~~~V~c~dG~~rLa~IpGKmRKrIWI~~GD~VlVel~~~d~~KgdIv~ 93 (145)
T PLN00208 27 IFKEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVGLRDYQDDKADVIL 93 (145)
T ss_pred ccCCCCcEEEEEEEEcCCCEEEEEECCCCEEEEEEeccceeeEEecCCCEEEEEccCCCCCEEEEEE
Confidence 3566777775 22 444555555533 2 4677776654 2222344567774
No 204
>TIGR01235 pyruv_carbox pyruvate carboxylase. This enzyme plays a role in gluconeogensis but not glycolysis.
Probab=23.41 E-value=85 Score=28.02 Aligned_cols=14 Identities=14% Similarity=0.133 Sum_probs=7.3
Q ss_pred CCCCCcEEEEEeCC
Q 042693 4 HLKSDQILIVQATP 17 (71)
Q Consensus 4 ~~~sGqii~i~~~~ 17 (71)
++.+|.|..+.+..
T Consensus 1079 a~~~G~v~~~~v~~ 1092 (1143)
T TIGR01235 1079 APMPGVIIEVKVSS 1092 (1143)
T ss_pred cCCCcEEEEEEeCC
Confidence 34556666655333
No 205
>TIGR02712 urea_carbox urea carboxylase. Members of this family are ATP-dependent urea carboxylase, including characterized members from Oleomonas sagaranensis (alpha class Proteobacterium) and yeasts such as Saccharomyces cerevisiae. The allophanate hydrolase domain of the yeast enzyme is not included in this model and is represented by an adjacent gene in Oleomonas sagaranensis. The fusion of urea carboxylase and allophanate hydrolase is designated urea amidolyase. The enzyme from Oleomonas sagaranensis was shown to be highly active on acetamide and formamide as well as urea.
Probab=22.97 E-value=84 Score=28.04 Aligned_cols=20 Identities=20% Similarity=0.232 Sum_probs=17.4
Q ss_pred EEEecCcEEecCCeEEEEEe
Q 042693 21 SFRHYGAFLHKGNKLVTFIY 40 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~~ 40 (71)
++|+.||.|++||+|+.+--
T Consensus 1146 ~~v~~Gd~V~~Gd~l~~iEs 1165 (1201)
T TIGR02712 1146 VLVEVGDRVEAGQPLVILEA 1165 (1201)
T ss_pred EEeCCCCEECCCCEEEEEEe
Confidence 57999999999999998733
No 206
>TIGR03806 chp_HNE_0200 conserved hypothetical protein, HNE_0200 family. The model TIGR03805 describes an uncharacterized protein family that contains repeats associated with the formation of a right-handed helical stack of parallel beta strands, homologous to those found in a number of carbohydrate-binding proteins and sugar hydrolases. This model describes another uncharacterized protein family, found in the same species as TIGR03805 member proteins, usually as the adjacent gene or in a fusion protein. An example is HNE_0200 from Hyphomonas neptunium ATCC 15444. Sometimes two members of this family are with a single member of TIGR03805. The function is unknown.
Probab=22.94 E-value=79 Score=24.19 Aligned_cols=45 Identities=18% Similarity=0.166 Sum_probs=31.3
Q ss_pred EEeCCCcEEEEec-CcE-EecCCeEEEEEeehhccCCccCchhhHhhhhhhc
Q 042693 13 VQATPGAISFRHY-GAF-LHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIR 62 (71)
Q Consensus 13 i~~~~ga~l~v~~-G~~-V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR 62 (71)
|++|+|..+.+.. |.+ ...|++|+|-+|--..+.| |.-+.++|-|
T Consensus 44 i~lP~g~~i~~~~~~~~~fPvGTvl~KtF~~p~d~~~-----~~~~~~iETR 90 (317)
T TIGR03806 44 VYVPAGTSATYNAEGVLDFPVGTVLVKTFALPSDLRG-----PTNGRLIETR 90 (317)
T ss_pred EEcCCCCEEeecCCCCeeCCCCCEEEEEEEecccccC-----CCCCeEEEEE
Confidence 3499999998764 444 5689999988876554333 4556677766
No 207
>PRK06559 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=22.85 E-value=82 Score=23.95 Aligned_cols=17 Identities=24% Similarity=0.329 Sum_probs=15.3
Q ss_pred EecCcEEecCCeEEEEE
Q 042693 23 RHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 23 v~~G~~V~~G~~L~~l~ 39 (71)
+++|+.+++|++++.+.
T Consensus 79 ~~dG~~v~~G~~i~~v~ 95 (290)
T PRK06559 79 FKDGDRLTSGDLVLEII 95 (290)
T ss_pred CCCCCEecCCCEEEEEE
Confidence 39999999999999875
No 208
>TIGR01348 PDHac_trf_long pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form. This model describes a subset of pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase specifically close by both phylogenetic and per cent identity (UPGMA) trees. Members of this set include two or three copies of the lipoyl-binding domain. E. coli AceF is a member of this model, while mitochondrial and some other bacterial forms belong to a separate model.
Probab=22.85 E-value=1e+02 Score=24.95 Aligned_cols=19 Identities=21% Similarity=0.137 Sum_probs=14.3
Q ss_pred EEEecCcEEecCCeEEEEE
Q 042693 21 SFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 21 l~v~~G~~V~~G~~L~~l~ 39 (71)
++++.|+.|..|++|+++-
T Consensus 56 i~~~~Gd~V~~G~~La~i~ 74 (546)
T TIGR01348 56 IKVKVGDTLPVGGVIATLE 74 (546)
T ss_pred EEecCCCEEeccceEEEEe
Confidence 6677777888888888774
No 209
>TIGR02927 SucB_Actino 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase. This model represents an Actinobacterial clade of E2 enzyme, a component of the 2-oxoglutarate dehydrogenase complex involved in the TCA cycle. These proteins have multiple domains including the catalytic domain (pfam00198), one or two biotin domains (pfam00364) and an E3-component binding domain (pfam02817).
Probab=22.14 E-value=1e+02 Score=25.28 Aligned_cols=18 Identities=6% Similarity=0.196 Sum_probs=11.4
Q ss_pred EEecCcEEecCCeEEEEE
Q 042693 22 FRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l~ 39 (71)
+++.||.|++||.|+.+-
T Consensus 156 ~v~~Gd~V~~g~~l~~vE 173 (590)
T TIGR02927 156 LKAVGDKIEVDEPILEVS 173 (590)
T ss_pred EeCCCCEecCCCEeEEEE
Confidence 566666666666665544
No 210
>cd08565 GDPD_pAtGDE_like Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase (pAtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=21.30 E-value=1.1e+02 Score=21.50 Aligned_cols=51 Identities=10% Similarity=0.106 Sum_probs=33.4
Q ss_pred EeCCCcEEEEecCcEEec----CCeEEEEEeehhccCCcc----CchhhHhhhhhhcCC
Q 042693 14 QATPGAISFRHYGAFLHK----GNKLVTFIYEKLRSCDLT----RALSKVKQVLEIRSF 64 (71)
Q Consensus 14 ~~~~ga~l~v~~G~~V~~----G~~L~~l~~e~~kt~DIt----qGLPkVeeLfEAR~~ 64 (71)
+++....+.+.|...+.. .-.+..+.++.+++=|.- +.+|..+|+|+.=+.
T Consensus 35 ~~TkDg~~Vv~HD~~l~r~t~~~g~v~~~t~~el~~l~~~~~~~~~iptL~evl~~~~~ 93 (235)
T cd08565 35 HLTADGEVVVIHDPTLDRTTHGTGAVRDLTLAERKALRLRDSFGEKIPTLEEVLALFAP 93 (235)
T ss_pred EEccCCCEEEECCChhhcccCCCCceeeccHHHHhcCCCCCCCCCCCCCHHHHHHHhhc
Confidence 355555555555555432 224777888888877763 559999999997543
No 211
>TIGR01936 nqrA NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit. This model represents the NqrA subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria. This oxidoreductase complex functions primarily as a sodium ion pump.
Probab=21.30 E-value=82 Score=25.16 Aligned_cols=20 Identities=15% Similarity=0.006 Sum_probs=17.5
Q ss_pred cEEEEecCcEEecCCeEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l 38 (71)
+.+.|+.||.|..|+.|+.-
T Consensus 41 ~k~~Vk~GD~V~~Gq~I~~~ 60 (447)
T TIGR01936 41 PKMKVRPGDKVKAGQPLFED 60 (447)
T ss_pred CceEeCcCCEEcCCCEeEec
Confidence 46899999999999999853
No 212
>PF02785 Biotin_carb_C: Biotin carboxylase C-terminal domain; InterPro: IPR005482 Acetyl-CoA carboxylase is found in all animals, plants, and bacteria and catalyzes the first committed step in fatty acid synthesis. It is a multicomponent enzyme containing a biotin carboxylase activity, a biotin carboxyl carrier protein, and a carboxyltransferase functionality. The "B-domain" extends from the main body of the subunit where it folds into two alpha-helical regions and three strands of beta-sheet. Following the excursion into the B-domain, the polypeptide chain folds back into the body of the protein where it forms an eight-stranded antiparallel beta-sheet. In addition to this major secondary structural element, the C-terminal domain also contains a smaller three-stranded antiparallel beta-sheet and seven alpha-helices []. ; GO: 0016874 ligase activity; PDB: 1W96_B 1W93_A 3VA7_A 2GPW_A 2W70_A 3G8D_A 1DV2_A 2VR1_B 2J9G_B 1DV1_A ....
Probab=21.28 E-value=76 Score=20.47 Aligned_cols=30 Identities=13% Similarity=0.017 Sum_probs=20.1
Q ss_pred CCCCCCcEEEEEeCCCcEEEEecCcEEecCCe
Q 042693 3 THLKSDQILIVQATPGAISFRHYGAFLHKGNK 34 (71)
Q Consensus 3 ~~~~sGqii~i~~~~ga~l~v~~G~~V~~G~~ 34 (71)
-.|.+|.|...+.|.|.-+.+..+ +..|+.
T Consensus 13 F~Ps~G~i~~~~~P~g~gvRvDt~--~~~G~~ 42 (107)
T PF02785_consen 13 FLPSPGRITRYSPPGGPGVRVDTG--VYSGYE 42 (107)
T ss_dssp TEBSSEEESEEE-SSSTTEEEEES--ESTTCE
T ss_pred CcCCcEEEeEEECCCCCCeeEEec--Cccccc
Confidence 457789888888887777766665 555543
No 213
>PF09160 FimH_man-bind: FimH, mannose binding; InterPro: IPR015243 This domain adopts a secondary structure consisting of a beta sandwich, with nine strands arranged in two sheets in a Greek key topology. It is predominantly found in bacterial mannose-specific adhesins, and is capable of binding to D-mannose []. ; PDB: 3MCY_C 1KLF_D 1QUN_L 1KIU_L 3RFZ_D 2VCO_B 1TR7_A 1UWF_A 3JWN_N.
Probab=21.11 E-value=71 Score=22.21 Aligned_cols=21 Identities=24% Similarity=0.401 Sum_probs=15.2
Q ss_pred cCcEEecCCeEEEEEeehhcc
Q 042693 25 YGAFLHKGNKLVTFIYEKLRS 45 (71)
Q Consensus 25 ~G~~V~~G~~L~~l~~e~~kt 45 (71)
-|-.|++||.||+|..-+.-+
T Consensus 114 ~Gv~I~~G~~iAtl~~~k~~t 134 (147)
T PF09160_consen 114 GGVVINKGDLIATLNMHKTNT 134 (147)
T ss_dssp SEEEE-TTSEEEEEEEEEEES
T ss_pred CcEEEeCCCEEEEEEEEEecc
Confidence 355799999999998766543
No 214
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=21.07 E-value=1.2e+02 Score=24.30 Aligned_cols=17 Identities=12% Similarity=0.374 Sum_probs=10.3
Q ss_pred EEecCcEEecCCeEEEE
Q 042693 22 FRHYGAFLHKGNKLVTF 38 (71)
Q Consensus 22 ~v~~G~~V~~G~~L~~l 38 (71)
+++.|+.|++||.|+.+
T Consensus 23 ~v~~Gd~V~~gd~l~~i 39 (464)
T PRK11892 23 LKKEGDKVKSGDVIAEI 39 (464)
T ss_pred EecCCCEecCCCeEEEE
Confidence 45566666666666655
No 215
>PRK08662 nicotinate phosphoribosyltransferase; Reviewed
Probab=20.88 E-value=1.1e+02 Score=23.43 Aligned_cols=21 Identities=5% Similarity=0.070 Sum_probs=18.1
Q ss_pred cEEEEecCcEEecCCeEEEEE
Q 042693 19 AISFRHYGAFLHKGNKLVTFI 39 (71)
Q Consensus 19 a~l~v~~G~~V~~G~~L~~l~ 39 (71)
...++.+|+.|.+|++++++-
T Consensus 71 ~v~~~~dG~~v~~g~~il~i~ 91 (343)
T PRK08662 71 DVYALPEGTLFDPKEPVMRIE 91 (343)
T ss_pred EEEEeCCCCEecCCceEEEEE
Confidence 346899999999999999874
No 216
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=20.04 E-value=23 Score=22.24 Aligned_cols=29 Identities=17% Similarity=0.330 Sum_probs=16.3
Q ss_pred EecCCeEEEEEeehhccCCccCchhhHhhhhhhcCCc
Q 042693 29 LHKGNKLVTFIYEKLRSCDLTRALSKVKQVLEIRSFD 65 (71)
Q Consensus 29 V~~G~~L~~l~~e~~kt~DItqGLPkVeeLfEAR~~~ 65 (71)
|..||.+. -.|+|||+ |||++....+++.
T Consensus 50 i~~Gd~V~-----V~raGdVI---P~I~~vv~~~r~~ 78 (82)
T PF03120_consen 50 IRIGDTVL-----VTRAGDVI---PKIVGVVKEKRTG 78 (82)
T ss_dssp -BBT-EEE-----EEEETTTE---EEEEEE-GGG--S
T ss_pred CCCCCEEE-----EEECCCcc---ceEeEeehhcCCC
Confidence 45565553 34688865 9999988766553
Done!