Query psy8719
Match_columns 33
No_of_seqs 109 out of 383
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 17:29:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8719.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8719hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0349|consensus 98.1 2E-06 4.3E-11 58.2 2.6 26 1-26 505-530 (725)
2 COG0513 SrmB Superfamily II DN 97.8 3.4E-05 7.5E-10 49.7 3.6 26 2-27 274-299 (513)
3 PRK04837 ATP-dependent RNA hel 97.7 6.6E-05 1.4E-09 46.3 4.4 30 2-31 256-285 (423)
4 PRK11776 ATP-dependent RNA hel 97.7 8E-05 1.7E-09 46.4 4.5 30 2-31 243-272 (460)
5 KOG0331|consensus 97.6 7.2E-05 1.6E-09 49.7 3.1 24 2-25 342-365 (519)
6 PRK11192 ATP-dependent RNA hel 97.6 0.00018 3.8E-09 44.4 4.4 30 2-31 246-275 (434)
7 PRK10590 ATP-dependent RNA hel 97.6 0.00014 3.1E-09 45.6 4.1 29 2-30 246-274 (456)
8 KOG0332|consensus 97.5 9.9E-05 2.1E-09 48.9 3.2 29 1-29 330-358 (477)
9 TIGR00614 recQ_fam ATP-depende 97.5 0.00022 4.7E-09 45.0 4.0 29 3-31 228-256 (470)
10 PRK04537 ATP-dependent RNA hel 97.4 0.00024 5.1E-09 46.4 4.1 30 2-31 258-287 (572)
11 PRK11057 ATP-dependent DNA hel 97.4 0.00025 5.4E-09 46.4 4.1 30 2-31 237-266 (607)
12 KOG0328|consensus 97.4 0.00019 4.2E-09 46.6 3.2 28 1-28 266-293 (400)
13 PRK01297 ATP-dependent RNA hel 97.3 0.00048 1E-08 43.3 4.4 30 2-31 336-365 (475)
14 PTZ00110 helicase; Provisional 97.3 0.00044 9.5E-09 44.8 4.3 28 2-29 378-405 (545)
15 PRK11634 ATP-dependent RNA hel 97.3 0.00042 9.1E-09 46.0 4.2 28 2-29 246-273 (629)
16 TIGR01587 cas3_core CRISPR-ass 97.3 0.00034 7.4E-09 41.9 3.3 26 2-27 223-248 (358)
17 TIGR01389 recQ ATP-dependent D 97.3 0.00053 1.1E-08 44.3 4.1 30 2-31 225-254 (591)
18 TIGR03158 cas3_cyano CRISPR-as 97.2 0.00047 1E-08 42.5 3.3 25 2-26 273-297 (357)
19 PTZ00424 helicase 45; Provisio 97.1 0.0011 2.4E-08 40.0 4.1 30 2-31 268-297 (401)
20 TIGR02621 cas3_GSU0051 CRISPR- 97.1 0.00065 1.4E-08 47.2 3.3 25 2-26 273-297 (844)
21 KOG0333|consensus 97.0 0.00065 1.4E-08 46.5 3.0 25 3-27 519-543 (673)
22 KOG0327|consensus 97.0 0.0008 1.7E-08 44.0 3.0 30 1-30 263-292 (397)
23 COG0514 RecQ Superfamily II DN 96.9 0.0014 3E-08 44.3 3.7 31 2-32 231-261 (590)
24 PLN03137 ATP-dependent DNA hel 96.9 0.0012 2.6E-08 47.5 3.6 30 2-31 681-710 (1195)
25 cd00079 HELICc Helicase superf 96.9 0.003 6.6E-08 31.9 4.1 30 2-31 29-58 (131)
26 COG1202 Superfamily II helicas 96.7 0.0017 3.6E-08 45.3 3.0 30 2-31 441-470 (830)
27 TIGR03817 DECH_helic helicase/ 96.6 0.0022 4.7E-08 43.3 2.7 23 2-24 272-294 (742)
28 PRK05298 excinuclease ABC subu 96.5 0.0048 1E-07 41.1 4.0 29 2-30 447-475 (652)
29 TIGR00631 uvrb excinuclease AB 96.5 0.0048 1E-07 41.5 4.0 29 2-30 443-471 (655)
30 PRK09751 putative ATP-dependen 96.4 0.0031 6.6E-08 46.0 2.8 24 2-25 245-268 (1490)
31 PRK13767 ATP-dependent helicas 96.3 0.0043 9.2E-08 42.5 3.1 23 2-24 285-307 (876)
32 PRK09401 reverse gyrase; Revie 96.3 0.0058 1.3E-07 43.5 3.8 28 2-29 329-359 (1176)
33 PRK02362 ski2-like helicase; P 96.3 0.0045 9.7E-08 41.2 3.0 23 2-24 244-266 (737)
34 PRK12898 secA preprotein trans 96.2 0.0088 1.9E-07 40.8 4.1 28 2-29 474-501 (656)
35 TIGR01054 rgy reverse gyrase. 96.2 0.0076 1.6E-07 42.8 3.9 28 2-29 327-357 (1171)
36 PRK00254 ski2-like helicase; P 96.0 0.0074 1.6E-07 40.1 3.0 22 2-23 239-260 (720)
37 PLN00206 DEAD-box ATP-dependen 96.0 0.011 2.4E-07 38.0 3.6 23 2-24 368-390 (518)
38 PRK09200 preprotein translocas 96.0 0.013 2.7E-07 40.7 3.9 27 2-28 429-455 (790)
39 PRK01172 ski2-like helicase; P 95.9 0.011 2.3E-07 38.9 3.1 23 2-24 237-259 (674)
40 PRK14701 reverse gyrase; Provi 95.8 0.011 2.3E-07 43.5 3.2 30 2-31 331-363 (1638)
41 KOG0335|consensus 95.7 0.012 2.7E-07 39.2 3.1 28 1-28 337-364 (482)
42 PRK04914 ATP-dependent helicas 95.7 0.018 3.9E-07 40.5 4.0 28 2-29 494-522 (956)
43 COG1201 Lhr Lhr-like helicases 95.7 0.013 2.8E-07 40.9 3.2 25 2-26 254-278 (814)
44 PRK13766 Hef nuclease; Provisi 95.7 0.025 5.4E-07 37.5 4.3 28 2-29 366-393 (773)
45 TIGR03714 secA2 accessory Sec 95.5 0.026 5.6E-07 39.2 4.0 28 2-29 425-452 (762)
46 KOG0352|consensus 95.3 0.02 4.3E-07 39.2 3.0 25 4-28 258-282 (641)
47 PRK09694 helicase Cas3; Provis 95.3 0.024 5.3E-07 39.5 3.5 24 2-25 561-584 (878)
48 PF05939 Phage_min_tail: Phage 95.2 0.048 1E-06 29.5 3.9 30 4-33 45-74 (109)
49 cd00158 RHOD Rhodanese Homolog 95.2 0.063 1.4E-06 25.6 3.9 31 2-32 51-81 (89)
50 PRK12904 preprotein translocas 95.1 0.037 8E-07 38.8 3.9 27 2-28 431-457 (830)
51 PHA02653 RNA helicase NPH-II; 95.1 0.028 6E-07 38.2 3.2 24 2-25 396-419 (675)
52 TIGR00963 secA preprotein tran 94.9 0.038 8.3E-07 38.4 3.4 27 2-28 406-432 (745)
53 smart00450 RHOD Rhodanese Homo 94.8 0.094 2E-06 25.0 3.9 31 2-32 57-87 (100)
54 PRK12906 secA preprotein trans 94.8 0.041 8.8E-07 38.4 3.5 28 2-29 441-468 (796)
55 KOG0337|consensus 94.7 0.039 8.6E-07 37.3 3.1 31 2-32 262-292 (529)
56 PRK12900 secA preprotein trans 94.5 0.055 1.2E-06 38.9 3.5 28 2-29 599-626 (1025)
57 KOG0330|consensus 94.2 0.058 1.3E-06 36.2 3.0 26 2-27 301-326 (476)
58 PRK11131 ATP-dependent RNA hel 93.9 0.073 1.6E-06 38.8 3.3 26 2-27 287-312 (1294)
59 KOG0326|consensus 93.9 0.056 1.2E-06 35.9 2.5 27 1-27 322-348 (459)
60 KOG0351|consensus 93.8 0.051 1.1E-06 38.4 2.3 30 2-31 486-515 (941)
61 PRK13104 secA preprotein trans 93.7 0.095 2.1E-06 37.2 3.4 27 2-28 445-471 (896)
62 cd01529 4RHOD_Repeats Member o 93.4 0.26 5.7E-06 24.6 4.0 30 3-32 58-87 (96)
63 COG4718 Phage-related protein 93.1 0.19 4.1E-06 28.3 3.4 30 4-33 47-76 (111)
64 COG1204 Superfamily II helicas 93.1 0.11 2.5E-06 35.8 3.0 22 2-23 254-275 (766)
65 cd01527 RHOD_YgaP Member of th 93.0 0.31 6.6E-06 24.3 3.9 31 2-32 55-85 (99)
66 PRK11664 ATP-dependent RNA hel 92.9 0.13 2.8E-06 35.6 3.0 22 2-23 213-234 (812)
67 PRK10689 transcription-repair 92.8 0.23 4.9E-06 35.7 4.2 23 2-24 810-832 (1147)
68 COG1111 MPH1 ERCC4-like helica 92.7 0.17 3.6E-06 34.5 3.3 27 2-28 367-393 (542)
69 KOG0354|consensus 92.7 0.14 2.9E-06 35.9 2.9 22 2-23 414-435 (746)
70 cd01523 RHOD_Lact_B Member of 92.6 0.32 7E-06 24.4 3.6 30 2-32 62-91 (100)
71 cd01447 Polysulfide_ST Polysul 92.5 0.2 4.4E-06 24.8 2.8 30 3-32 63-92 (103)
72 cd01519 RHOD_HSP67B2 Member of 92.1 0.4 8.6E-06 24.0 3.6 29 3-31 68-96 (106)
73 TIGR01970 DEAH_box_HrpB ATP-de 92.0 0.21 4.5E-06 34.7 3.2 22 2-23 210-231 (819)
74 cd01526 RHOD_ThiF Member of th 92.0 0.34 7.4E-06 25.4 3.4 31 2-32 73-104 (122)
75 cd01449 TST_Repeat_2 Thiosulfa 91.6 0.52 1.1E-05 24.1 3.8 31 2-32 79-109 (118)
76 cd01528 RHOD_2 Member of the R 91.2 0.71 1.5E-05 23.2 4.0 30 3-32 60-89 (101)
77 KOG0340|consensus 91.2 0.31 6.8E-06 32.5 3.2 27 2-28 255-281 (442)
78 COG4096 HsdR Type I site-speci 91.2 0.26 5.7E-06 35.2 3.0 27 1-27 426-452 (875)
79 PRK13107 preprotein translocas 91.1 0.41 8.9E-06 34.2 3.9 27 2-28 450-476 (908)
80 PF10740 DUF2529: Protein of u 91.1 0.4 8.7E-06 28.5 3.3 28 2-29 83-112 (172)
81 cd01444 GlpE_ST GlpE sulfurtra 91.0 0.75 1.6E-05 22.5 3.9 30 3-32 58-87 (96)
82 cd01532 4RHOD_Repeat_1 Member 90.8 0.86 1.9E-05 22.8 4.1 29 3-31 52-82 (92)
83 cd01448 TST_Repeat_1 Thiosulfa 90.7 0.67 1.4E-05 23.9 3.6 30 3-32 81-111 (122)
84 PRK11448 hsdR type I restricti 90.6 0.36 7.8E-06 34.6 3.3 23 2-24 699-721 (1123)
85 cd01524 RHOD_Pyr_redox Member 90.5 0.83 1.8E-05 22.6 3.8 29 2-31 52-80 (90)
86 cd01534 4RHOD_Repeat_3 Member 90.3 0.88 1.9E-05 22.7 3.8 29 3-32 58-86 (95)
87 TIGR01967 DEAH_box_HrpA ATP-de 90.3 0.36 7.9E-06 35.3 3.2 25 2-26 280-304 (1283)
88 PHA02558 uvsW UvsW helicase; P 90.1 0.63 1.4E-05 30.0 3.8 27 2-28 345-371 (501)
89 PF02617 ClpS: ATP-dependent C 90.0 0.38 8.3E-06 24.4 2.3 24 2-25 48-71 (82)
90 cd01518 RHOD_YceA Member of th 90.0 0.94 2E-05 22.7 3.8 29 3-31 63-91 (101)
91 cd01525 RHOD_Kc Member of the 89.5 1.1 2.5E-05 22.3 3.9 29 3-31 67-95 (105)
92 PF00849 PseudoU_synth_2: RNA 89.3 1.1 2.4E-05 24.0 4.0 29 3-31 53-81 (164)
93 KOG0347|consensus 89.3 0.5 1.1E-05 33.2 3.1 26 1-26 463-488 (731)
94 TIGR00580 mfd transcription-re 89.3 0.53 1.1E-05 33.2 3.2 23 2-24 661-683 (926)
95 cd02557 PseudoU_synth_ScRIB2 P 88.9 1.1 2.4E-05 26.0 4.0 29 3-31 72-100 (213)
96 TIGR01621 RluA-like pseudourid 88.1 1.1 2.3E-05 26.2 3.6 29 3-31 56-84 (217)
97 cd01521 RHOD_PspE2 Member of t 87.9 1.8 3.8E-05 22.2 4.0 30 2-32 65-96 (110)
98 PF08544 GHMP_kinases_C: GHMP 87.7 1.5 3.2E-05 21.1 3.5 23 3-25 61-83 (85)
99 cd02869 PseudoU_synth_RluCD_li 87.7 1.3 2.8E-05 24.2 3.5 30 2-31 51-80 (185)
100 PF02863 Arg_repressor_C: Argi 87.5 1.2 2.7E-05 22.2 3.2 22 2-23 48-69 (70)
101 PRK10158 23S rRNA/tRNA pseudou 87.4 1.6 3.4E-05 25.5 4.0 29 3-31 69-97 (219)
102 PRK11112 tRNA pseudouridine sy 87.2 1.6 3.4E-05 26.1 4.0 29 3-31 59-87 (257)
103 COG0556 UvrB Helicase subunit 86.8 1.2 2.6E-05 31.1 3.7 30 2-31 447-476 (663)
104 cd01533 4RHOD_Repeat_2 Member 86.6 1.9 4.2E-05 21.9 3.7 29 3-31 68-97 (109)
105 KOG4284|consensus 86.3 0.18 3.8E-06 36.1 -0.4 27 2-28 273-299 (980)
106 PRK10287 thiosulfate:cyanide s 85.5 2.8 6E-05 22.2 4.0 28 3-30 62-89 (104)
107 cd01522 RHOD_1 Member of the R 85.2 2.1 4.6E-05 22.4 3.5 28 3-30 66-93 (117)
108 cd02563 PseudoU_synth_TruC tRN 85.1 1.7 3.7E-05 25.3 3.3 29 3-31 58-86 (223)
109 KOG0950|consensus 84.7 0.89 1.9E-05 33.0 2.4 21 3-23 462-482 (1008)
110 cd02558 PSRA_1 PSRA_1: Pseudou 83.9 2.8 6E-05 24.9 3.9 29 3-31 95-123 (246)
111 KOG0334|consensus 83.6 1.5 3.3E-05 31.8 3.1 25 2-26 614-638 (997)
112 KOG0353|consensus 83.0 1.2 2.7E-05 30.6 2.4 27 2-28 318-344 (695)
113 PRK05752 uroporphyrinogen-III 82.7 2.3 5E-05 24.9 3.2 27 3-29 4-30 (255)
114 PRK09271 flavodoxin; Provision 82.5 3.6 7.8E-05 22.7 3.8 27 2-28 2-32 (160)
115 PRK11025 23S rRNA pseudouridyl 82.4 3.4 7.3E-05 25.4 4.0 29 3-31 149-177 (317)
116 PRK11180 rluD 23S rRNA pseudou 82.3 3.4 7.3E-05 25.4 4.0 29 3-31 144-172 (325)
117 PRK08811 uroporphyrinogen-III 82.3 2.7 5.8E-05 25.3 3.5 27 3-29 19-45 (266)
118 KOG0338|consensus 82.3 1.7 3.7E-05 30.5 2.9 24 2-25 427-450 (691)
119 TIGR00005 rluA_subfam pseudour 82.1 3.6 7.9E-05 24.6 4.0 29 3-31 132-160 (299)
120 PLN02160 thiosulfate sulfurtra 81.8 3.9 8.4E-05 22.3 3.7 29 3-31 83-111 (136)
121 COG0564 RluA Pseudouridylate s 81.7 3.5 7.5E-05 25.4 3.9 30 2-31 135-164 (289)
122 TIGR01754 flav_RNR ribonucleot 81.2 2.7 5.9E-05 22.5 3.0 27 1-27 1-31 (140)
123 TIGR00603 rad25 DNA repair hel 80.1 2.1 4.5E-05 29.9 2.7 21 2-22 497-517 (732)
124 KOG0336|consensus 80.1 1.1 2.4E-05 30.9 1.4 25 2-26 466-490 (629)
125 PRK13617 psbV cytochrome c-550 79.7 2.1 4.6E-05 25.4 2.4 23 9-31 140-170 (170)
126 COG3865 Uncharacterized protei 79.7 3.3 7.2E-05 24.4 3.2 25 3-27 80-104 (151)
127 PF00581 Rhodanese: Rhodanese- 79.6 5.7 0.00012 19.4 4.1 29 3-31 69-102 (113)
128 cd06578 HemD Uroporphyrinogen- 79.6 3.3 7.1E-05 22.8 3.0 26 5-30 1-26 (239)
129 KOG0341|consensus 79.3 2.1 4.6E-05 29.4 2.5 25 3-27 423-447 (610)
130 KOG0952|consensus 79.3 2.1 4.5E-05 31.8 2.6 24 2-25 350-373 (1230)
131 TIGR03865 PQQ_CXXCW PQQ-depend 78.5 6.4 0.00014 22.1 4.0 31 2-32 117-148 (162)
132 PF06983 3-dmu-9_3-mt: 3-demet 78.4 5.2 0.00011 21.4 3.5 27 3-29 74-100 (116)
133 PRK05928 hemD uroporphyrinogen 78.3 5.8 0.00012 22.2 3.8 27 4-30 3-29 (249)
134 COG1061 SSL2 DNA or RNA helica 78.0 2.9 6.3E-05 26.8 2.8 25 2-26 284-308 (442)
135 PRK09189 uroporphyrinogen-III 77.6 4.7 0.0001 23.2 3.4 27 4-30 2-28 (240)
136 TIGR02981 phageshock_pspE phag 77.2 8.3 0.00018 20.2 4.0 27 3-29 60-86 (101)
137 PRK05320 rhodanese superfamily 77.1 6.5 0.00014 23.8 4.0 29 3-31 177-205 (257)
138 PRK00162 glpE thiosulfate sulf 77.1 6.1 0.00013 20.0 3.4 30 3-32 60-89 (108)
139 PF13361 UvrD_C: UvrD-like hel 77.0 6.9 0.00015 22.4 3.9 27 2-28 78-104 (351)
140 cd02550 PseudoU_synth_Rsu_Rlu_ 76.7 5.5 0.00012 21.7 3.3 27 3-31 47-73 (154)
141 KOG0346|consensus 75.8 3.6 7.8E-05 28.4 2.9 26 2-27 269-294 (569)
142 COG1110 Reverse gyrase [DNA re 75.6 5.7 0.00012 29.6 3.9 27 3-29 337-366 (1187)
143 COG5566 Uncharacterized conser 75.4 3.5 7.6E-05 24.0 2.4 25 9-33 58-82 (137)
144 cd01535 4RHOD_Repeat_4 Member 75.0 9.4 0.0002 21.0 4.0 29 3-31 51-79 (145)
145 CHL00133 psbV photosystem II c 74.9 3.2 7E-05 24.3 2.2 22 10-31 134-163 (163)
146 PF13245 AAA_19: Part of AAA d 74.2 6 0.00013 19.8 2.9 20 2-21 43-62 (76)
147 PF02006 DUF137: Protein of un 74.2 3.5 7.6E-05 24.8 2.3 23 6-28 38-60 (178)
148 KOG1919|consensus 73.7 5.4 0.00012 25.9 3.2 28 3-30 162-189 (371)
149 PRK01415 hypothetical protein; 73.4 7.8 0.00017 23.7 3.7 30 2-31 172-201 (247)
150 TIGR00093 pseudouridine syntha 73.2 4.6 0.0001 21.7 2.4 27 3-31 10-36 (128)
151 PRK08762 molybdopterin biosynt 72.6 8.6 0.00019 24.0 3.8 30 3-32 59-88 (376)
152 PRK07168 bifunctional uroporph 72.4 6.2 0.00013 26.0 3.3 27 2-28 251-277 (474)
153 PRK05597 molybdopterin biosynt 71.4 11 0.00023 23.7 4.0 30 2-31 315-344 (355)
154 PF13307 Helicase_C_2: Helicas 71.1 3.9 8.6E-05 22.7 1.9 25 1-25 9-33 (167)
155 PRK15394 4-deoxy-4-formamido-L 70.9 5.5 0.00012 24.8 2.7 27 7-33 13-39 (296)
156 COG1701 Uncharacterized protei 70.5 5.3 0.00011 25.2 2.5 21 5-25 102-122 (256)
157 PRK00441 argR arginine repress 70.0 9.7 0.00021 21.6 3.4 23 2-24 125-147 (149)
158 TIGR01529 argR_whole arginine 69.8 9.8 0.00021 21.4 3.4 22 2-23 123-144 (146)
159 PRK00142 putative rhodanese-re 69.1 12 0.00026 23.3 3.9 30 2-31 172-201 (314)
160 cd01421 IMPCH Inosine monophos 68.9 11 0.00023 22.6 3.5 27 2-28 1-27 (187)
161 PRK09492 treR trehalose repres 68.8 14 0.00029 21.3 3.9 27 6-32 155-181 (315)
162 smart00115 CASc Caspase, inter 68.5 15 0.00032 21.7 4.1 27 3-29 10-47 (241)
163 PF00610 DEP: Domain found in 68.4 5 0.00011 19.3 1.8 20 7-26 34-53 (74)
164 cd01530 Cdc25 Cdc25 phosphatas 68.1 15 0.00032 19.4 3.7 22 3-24 70-92 (121)
165 PRK07878 molybdopterin biosynt 67.8 13 0.00029 23.5 3.9 30 3-32 345-374 (392)
166 TIGR00596 rad1 DNA repair prot 67.4 7.7 0.00017 27.4 3.0 22 2-23 296-317 (814)
167 cd02555 PSSA_1 PSSA_1: Pseudou 67.4 9.8 0.00021 21.8 3.1 28 3-32 59-86 (177)
168 KOG0951|consensus 66.7 6.6 0.00014 30.1 2.7 22 2-23 547-568 (1674)
169 PF04364 DNA_pol3_chi: DNA pol 66.3 7.1 0.00015 21.5 2.3 21 2-22 30-50 (137)
170 KOG0947|consensus 66.2 5.9 0.00013 29.6 2.4 23 3-25 569-591 (1248)
171 PRK06724 hypothetical protein; 66.0 13 0.00028 19.7 3.2 24 5-28 67-91 (128)
172 cd01520 RHOD_YbbB Member of th 65.2 17 0.00037 19.1 3.6 28 2-30 87-115 (128)
173 PHA02591 hypothetical protein; 65.1 7.7 0.00017 20.9 2.2 25 3-27 37-61 (83)
174 PRK05728 DNA polymerase III su 64.9 11 0.00023 20.9 2.9 21 2-22 30-50 (142)
175 COG1647 Esterase/lipase [Gener 64.8 6.1 0.00013 24.8 2.0 21 7-27 24-44 (243)
176 PRK13019 clpS ATP-dependent Cl 64.6 14 0.00031 19.7 3.2 25 2-26 64-88 (94)
177 PRK13761 hypothetical protein; 64.4 7.7 0.00017 24.4 2.4 23 6-28 101-123 (248)
178 COG0607 PspE Rhodanese-related 64.4 14 0.00031 18.1 3.0 27 3-29 63-89 (110)
179 COG1203 CRISPR-associated heli 64.2 15 0.00033 25.1 3.9 25 2-26 441-465 (733)
180 COG0716 FldA Flavodoxins [Ener 63.7 5.2 0.00011 21.8 1.4 21 8-28 13-33 (151)
181 PRK04280 arginine repressor; P 63.7 15 0.00033 20.8 3.4 22 2-23 125-146 (148)
182 TIGR00348 hsdR type I site-spe 63.2 11 0.00025 25.5 3.1 24 2-25 515-538 (667)
183 TIGR00715 precor6x_red precorr 63.2 17 0.00037 22.1 3.7 27 3-30 2-28 (256)
184 cd01445 TST_Repeats Thiosulfat 62.3 24 0.00051 19.2 3.9 30 2-31 96-128 (138)
185 KOG0339|consensus 62.3 8.9 0.00019 27.2 2.6 28 2-29 469-496 (731)
186 PRK11493 sseA 3-mercaptopyruva 62.1 17 0.00037 21.7 3.5 28 3-30 233-260 (281)
187 TIGR00730 conserved hypothetic 62.0 22 0.00047 20.5 3.8 28 3-30 2-37 (178)
188 PF11823 DUF3343: Protein of u 61.9 18 0.00039 17.7 3.6 27 1-27 1-27 (73)
189 cd00860 ThrRS_anticodon ThrRS 61.8 17 0.00037 17.3 4.3 31 1-31 1-34 (91)
190 cd02556 PseudoU_synth_RluB Pse 61.6 12 0.00026 20.9 2.7 27 3-31 48-74 (167)
191 cd00032 CASc Caspase, interleu 61.2 22 0.00049 20.8 3.9 27 3-29 11-49 (243)
192 TIGR00725 conserved hypothetic 61.1 27 0.00058 19.7 4.0 29 1-29 1-35 (159)
193 PF02423 OCD_Mu_crystall: Orni 61.0 20 0.00044 22.0 3.8 26 1-26 153-178 (313)
194 PRK11776 ATP-dependent RNA hel 60.8 11 0.00024 23.7 2.7 23 3-25 74-96 (460)
195 cd02870 PseudoU_synth_RsuA_lik 60.8 13 0.00028 20.1 2.6 27 3-31 46-72 (146)
196 PF00258 Flavodoxin_1: Flavodo 60.6 7.4 0.00016 20.4 1.6 19 9-27 9-27 (143)
197 KOG0948|consensus 60.5 11 0.00023 27.8 2.7 24 2-25 384-407 (1041)
198 PHA00527 hypothetical protein 60.2 13 0.00029 21.2 2.7 20 3-22 20-39 (129)
199 COG0513 SrmB Superfamily II DN 59.9 9.9 0.00021 24.9 2.4 24 4-27 102-125 (513)
200 cd01544 PBP1_GalR Ligand-bindi 59.9 22 0.00048 20.0 3.6 27 6-32 92-118 (270)
201 cd00046 DEXDc DEAD-like helica 59.5 18 0.00039 17.3 2.8 25 2-26 31-55 (144)
202 cd07266 HPCD_N_class_II N-term 59.4 20 0.00043 17.7 3.0 22 8-29 68-89 (121)
203 TIGR02405 trehalos_R_Ecol treh 59.1 23 0.0005 20.6 3.6 27 6-32 152-178 (311)
204 COG1587 HemD Uroporphyrinogen- 58.6 17 0.00037 21.3 3.1 26 4-29 3-28 (248)
205 cd01225 PH_Cool_Pix Cool (clon 58.5 23 0.0005 19.8 3.4 26 1-26 85-110 (111)
206 COG0169 AroE Shikimate 5-dehyd 58.1 20 0.00044 22.3 3.4 25 2-26 151-175 (283)
207 PRK11104 hemG protoporphyrinog 58.1 15 0.00032 20.8 2.6 26 1-27 1-30 (177)
208 TIGR02786 addB_alphas double-s 57.9 15 0.00033 26.1 3.1 23 2-24 39-61 (1021)
209 COG2519 GCD14 tRNA(1-methylade 57.7 19 0.00042 22.6 3.3 25 2-26 189-213 (256)
210 cd04883 ACT_AcuB C-terminal AC 57.0 20 0.00043 16.6 3.0 19 12-30 52-70 (72)
211 PRK08105 flavodoxin; Provision 56.9 18 0.00039 20.0 2.8 27 1-27 1-32 (149)
212 cd01132 F1_ATPase_alpha F1 ATP 56.8 28 0.0006 21.8 3.9 29 1-29 125-164 (274)
213 PF00270 DEAD: DEAD/DEAH box h 56.7 27 0.00059 18.1 3.6 25 3-27 46-70 (169)
214 PF00532 Peripla_BP_1: Peripla 56.6 16 0.00035 21.5 2.8 27 6-32 98-125 (279)
215 cd06280 PBP1_LacI_like_4 Ligan 56.6 30 0.00064 19.3 3.7 27 6-32 95-121 (263)
216 PRK06407 ornithine cyclodeamin 56.3 27 0.00058 21.5 3.8 24 1-24 142-165 (301)
217 cd07235 MRD Mitomycin C resist 56.1 21 0.00045 17.7 2.8 21 8-28 74-94 (122)
218 PF05853 DUF849: Prokaryotic p 55.9 19 0.00042 21.9 3.1 26 5-30 119-144 (272)
219 PRK07478 short chain dehydroge 55.8 35 0.00076 19.1 4.1 27 3-29 32-58 (254)
220 cd06290 PBP1_LacI_like_9 Ligan 55.6 32 0.00069 19.0 3.7 27 6-32 95-121 (265)
221 PRK03341 arginine repressor; P 55.5 24 0.00053 20.5 3.3 23 2-24 142-164 (168)
222 PRK05066 arginine repressor; P 55.5 26 0.00056 20.1 3.4 23 2-24 129-151 (156)
223 cd09012 Glo_EDI_BRP_like_24 Th 55.4 21 0.00045 17.9 2.7 21 8-28 76-96 (124)
224 KOG0340|consensus 55.2 16 0.00036 24.7 2.8 25 4-28 78-102 (442)
225 PF12724 Flavodoxin_5: Flavodo 54.3 10 0.00023 20.4 1.6 19 8-26 9-27 (143)
226 PRK00033 clpS ATP-dependent Cl 54.2 33 0.00071 18.5 3.5 26 2-27 69-94 (100)
227 cd06286 PBP1_CcpB_like Ligand- 54.1 36 0.00079 18.8 3.8 28 5-32 93-120 (260)
228 PRK06646 DNA polymerase III su 54.0 40 0.00087 19.2 4.2 30 2-31 110-142 (154)
229 smart00487 DEXDc DEAD-like hel 53.9 29 0.00063 17.7 3.2 25 2-26 55-79 (201)
230 KOG0350|consensus 53.8 20 0.00042 25.2 3.1 22 1-22 429-450 (620)
231 PF07775 PaRep2b: PaRep2b prot 53.6 18 0.00038 24.9 2.8 23 5-27 110-132 (512)
232 cd03714 RT_DIRS1 RT_DIRS1: Rev 53.3 28 0.00061 17.9 3.1 21 2-22 68-88 (119)
233 COG4635 HemG Flavodoxin [Energ 53.1 12 0.00026 22.5 1.8 20 9-28 13-32 (175)
234 cd06292 PBP1_LacI_like_10 Liga 53.1 36 0.00079 18.9 3.7 28 5-32 101-128 (273)
235 PRK07308 flavodoxin; Validated 53.1 13 0.00028 19.9 1.8 20 9-28 14-33 (146)
236 TIGR00341 conserved hypothetic 53.0 25 0.00054 22.6 3.3 26 3-28 43-68 (325)
237 PRK10339 DNA-binding transcrip 53.0 33 0.00072 20.0 3.6 27 6-32 154-180 (327)
238 PF00542 Ribosomal_L12: Riboso 52.8 14 0.0003 18.5 1.8 23 5-27 42-64 (68)
239 PF00903 Glyoxalase: Glyoxalas 52.5 27 0.00058 16.8 3.7 25 4-28 77-101 (128)
240 PF01488 Shikimate_DH: Shikima 52.4 33 0.00072 18.4 3.4 20 2-21 37-56 (135)
241 smart00049 DEP Domain found in 52.3 18 0.0004 17.4 2.2 20 7-26 35-54 (77)
242 PLN02723 3-mercaptopyruvate su 52.1 34 0.00073 21.0 3.7 28 2-29 270-297 (320)
243 cd08361 PpCmtC_N N-terminal do 52.1 24 0.00053 18.0 2.7 24 5-28 63-87 (124)
244 cd00268 DEADc DEAD-box helicas 52.0 27 0.00059 19.0 3.0 24 3-26 71-94 (203)
245 PRK01231 ppnK inorganic polyph 51.9 43 0.00093 20.7 4.2 29 1-29 4-37 (295)
246 PRK14615 4-diphosphocytidyl-2- 51.8 26 0.00057 21.3 3.2 25 3-27 266-290 (296)
247 PRK06975 bifunctional uroporph 51.7 29 0.00064 23.7 3.6 28 3-30 4-31 (656)
248 PF00580 UvrD-helicase: UvrD/R 51.7 26 0.00057 19.9 3.0 24 1-24 45-68 (315)
249 PRK06756 flavodoxin; Provision 51.3 14 0.0003 19.8 1.8 20 9-28 14-33 (148)
250 PRK07589 ornithine cyclodeamin 51.3 36 0.00079 21.6 3.8 28 1-28 154-181 (346)
251 PRK01269 tRNA s(4)U8 sulfurtra 51.1 37 0.00081 22.1 3.9 30 2-31 450-479 (482)
252 PF14487 DUF4433: Domain of un 51.0 26 0.00057 20.0 3.0 23 6-28 173-195 (205)
253 TIGR01753 flav_short flavodoxi 50.8 15 0.00032 18.9 1.8 20 8-27 10-29 (140)
254 PF02629 CoA_binding: CoA bind 50.8 33 0.00072 17.3 3.9 31 2-33 64-94 (96)
255 COG0213 DeoA Thymidine phospho 50.8 9.2 0.0002 25.7 1.2 23 6-28 207-229 (435)
256 PRK10917 ATP-dependent DNA hel 50.7 37 0.00079 23.1 3.9 23 2-24 472-502 (681)
257 cd02553 PseudoU_synth_RsuA Pse 50.4 20 0.00044 20.0 2.4 27 3-31 48-74 (167)
258 PF02971 FTCD: Formiminotransf 50.2 10 0.00022 22.1 1.2 18 8-25 10-27 (145)
259 PRK10423 transcriptional repre 50.2 44 0.00096 19.2 3.8 28 5-32 153-180 (327)
260 KOG2501|consensus 50.0 22 0.00047 20.8 2.5 23 4-26 70-92 (157)
261 cd03715 RT_ZFREV_like RT_ZFREV 49.7 36 0.00079 19.2 3.4 27 2-28 161-191 (210)
262 PF13616 Rotamase_3: PPIC-type 49.6 24 0.00052 18.5 2.5 22 5-27 20-52 (117)
263 TIGR01220 Pmev_kin_Gr_pos phos 49.6 38 0.00083 21.2 3.7 26 3-28 324-349 (358)
264 TIGR01407 dinG_rel DnaQ family 49.5 27 0.00057 24.3 3.2 22 2-23 675-696 (850)
265 cd06271 PBP1_AglR_RafR_like Li 49.5 43 0.00093 18.4 3.6 27 6-32 100-126 (268)
266 PHA02558 uvsW UvsW helicase; P 49.2 29 0.00063 22.5 3.2 23 3-25 160-182 (501)
267 PRK05569 flavodoxin; Provision 49.2 16 0.00034 19.3 1.7 19 9-27 14-32 (141)
268 cd01575 PBP1_GntR Ligand-bindi 49.1 44 0.00096 18.3 3.6 27 6-32 96-122 (268)
269 PRK13909 putative recombinatio 48.9 29 0.00063 24.4 3.3 28 2-29 472-500 (910)
270 PRK10401 DNA-binding transcrip 48.8 45 0.00098 19.6 3.8 27 6-32 156-182 (346)
271 PF00034 Cytochrom_C: Cytochro 48.6 24 0.00051 16.2 2.2 15 10-24 76-90 (91)
272 cd07255 Glo_EDI_BRP_like_12 Th 48.4 29 0.00062 17.1 2.6 21 8-28 72-92 (125)
273 cd04885 ACT_ThrD-I Tandem C-te 48.3 29 0.00064 16.4 2.5 21 8-28 46-66 (68)
274 PRK05298 excinuclease ABC subu 48.2 47 0.001 22.6 4.2 31 2-32 58-89 (652)
275 PRK09526 lacI lac repressor; R 48.2 46 0.00099 19.4 3.7 27 6-32 161-187 (342)
276 PF03091 CutA1: CutA1 divalent 48.1 43 0.00093 17.9 3.4 23 4-26 4-26 (102)
277 PF04273 DUF442: Putative phos 47.7 27 0.00059 18.8 2.5 19 2-20 87-105 (110)
278 cd01648 TERT TERT: Telomerase 47.6 41 0.00088 17.7 3.2 22 3-24 61-82 (119)
279 PF13439 Glyco_transf_4: Glyco 47.6 28 0.00061 17.5 2.5 20 12-31 16-35 (177)
280 PRK06703 flavodoxin; Provision 47.6 18 0.00039 19.4 1.8 19 9-27 14-32 (151)
281 PRK09280 F0F1 ATP synthase sub 47.2 44 0.00095 22.4 3.9 30 1-30 201-242 (463)
282 cd04438 DEP_dishevelled DEP (D 47.2 23 0.0005 18.4 2.1 19 8-26 46-64 (84)
283 COG1609 PurR Transcriptional r 46.9 44 0.00096 20.4 3.6 27 6-32 155-181 (333)
284 TIGR00147 lipid kinase, YegS/R 46.8 60 0.0013 19.1 4.5 31 1-31 1-38 (293)
285 PF07015 VirC1: VirC1 protein; 46.6 37 0.0008 20.8 3.3 26 3-28 2-33 (231)
286 PRK07411 hypothetical protein; 46.6 37 0.00081 21.6 3.4 26 3-28 344-369 (390)
287 cd00148 PROF Profilin binds ac 46.5 21 0.00045 19.3 2.0 15 11-25 112-126 (127)
288 cd02868 PseudoU_synth_hTruB2_l 46.4 38 0.00082 20.5 3.3 28 3-32 46-73 (226)
289 cd07241 Glo_EDI_BRP_like_3 Thi 46.2 34 0.00074 16.6 2.6 20 10-29 80-99 (125)
290 PF05036 SPOR: Sporulation rel 46.2 24 0.00052 16.2 2.0 19 9-27 13-31 (76)
291 PF01565 FAD_binding_4: FAD bi 45.9 44 0.00095 17.3 3.8 27 3-29 2-28 (139)
292 PRK05568 flavodoxin; Provision 45.8 30 0.00065 18.1 2.5 20 9-28 14-33 (142)
293 PRK07239 bifunctional uroporph 45.8 34 0.00074 21.1 3.1 24 4-28 13-36 (381)
294 cd07265 2_3_CTD_N N-terminal d 45.6 40 0.00086 16.7 3.9 24 5-28 65-89 (122)
295 TIGR00631 uvrb excinuclease AB 45.6 55 0.0012 22.5 4.2 30 3-32 56-86 (655)
296 cd06588 PhnB_like Escherichia 45.5 41 0.00088 17.3 3.0 22 4-25 78-99 (128)
297 COG4747 ACT domain-containing 45.2 43 0.00094 19.5 3.2 26 2-28 108-133 (142)
298 smart00392 PROF Profilin. Bind 45.1 23 0.00049 19.1 2.0 17 9-25 112-128 (129)
299 PRK09281 F0F1 ATP synthase sub 45.1 45 0.00099 22.4 3.7 28 1-28 218-256 (502)
300 PF04851 ResIII: Type III rest 45.0 46 0.00099 17.3 4.1 24 3-26 52-75 (184)
301 PF15614 WHIM3: WSTF, HB1, Itc 45.0 17 0.00036 17.5 1.3 21 7-27 3-24 (46)
302 PRK13695 putative NTPase; Prov 44.9 52 0.0011 17.9 3.8 31 3-33 127-157 (174)
303 COG4003 Uncharacterized protei 44.7 24 0.00052 19.4 2.0 19 8-26 44-62 (98)
304 PF09868 DUF2095: Uncharacteri 44.6 23 0.00051 20.4 2.1 18 8-25 74-91 (128)
305 PRK13618 psbV cytochrome c-550 44.6 27 0.00059 20.4 2.4 22 10-31 134-163 (163)
306 PRK02649 ppnK inorganic polyph 44.5 61 0.0013 20.3 4.0 28 1-28 1-33 (305)
307 TIGR00609 recB exodeoxyribonuc 44.5 44 0.00095 24.1 3.7 28 3-30 471-498 (1087)
308 PF09286 Pro-kuma_activ: Pro-k 44.5 21 0.00047 19.2 1.8 23 7-29 57-79 (143)
309 PF02158 Neuregulin: Neureguli 44.4 7.4 0.00016 26.0 0.0 25 6-30 30-54 (404)
310 TIGR02417 fruct_sucro_rep D-fr 44.3 56 0.0012 18.9 3.6 27 6-32 158-184 (327)
311 PRK04537 ATP-dependent RNA hel 44.1 35 0.00075 22.7 3.0 25 3-27 86-110 (572)
312 PRK03378 ppnK inorganic polyph 44.1 60 0.0013 20.1 3.9 28 1-28 5-37 (292)
313 KOG0235|consensus 43.8 30 0.00064 21.0 2.5 23 11-33 37-59 (214)
314 PRK04539 ppnK inorganic polyph 43.8 62 0.0013 20.1 4.0 28 1-28 5-37 (296)
315 cd04449 DEP_DEPDC5-like DEP (D 43.6 28 0.00061 17.6 2.1 19 8-26 46-64 (83)
316 KOG1715|consensus 43.5 25 0.00055 21.3 2.2 19 10-28 166-184 (187)
317 COG2344 AT-rich DNA-binding pr 43.4 53 0.0012 20.3 3.6 29 5-33 150-178 (211)
318 PRK06936 type III secretion sy 43.4 53 0.0011 21.8 3.8 29 1-29 216-255 (439)
319 PF13086 AAA_11: AAA domain; P 43.4 47 0.001 17.8 3.1 22 2-23 54-75 (236)
320 cd06287 PBP1_LacI_like_8 Ligan 43.1 56 0.0012 18.7 3.5 27 6-32 98-124 (269)
321 PRK14987 gluconate operon tran 43.0 64 0.0014 18.8 3.8 27 6-32 160-186 (331)
322 PRK06141 ornithine cyclodeamin 43.0 48 0.001 20.3 3.4 24 2-25 151-174 (314)
323 cd00738 HGTP_anticodon HGTP an 42.8 40 0.00087 16.0 3.5 27 2-28 2-34 (94)
324 PTZ00110 helicase; Provisional 42.8 35 0.00076 22.5 2.9 24 3-26 205-228 (545)
325 PF08704 GCD14: tRNA methyltra 42.6 52 0.0011 20.0 3.5 24 3-26 141-164 (247)
326 cd06293 PBP1_LacI_like_11 Liga 42.6 61 0.0013 18.0 3.7 27 6-32 96-122 (269)
327 cd01458 vWA_ku Ku70/Ku80 N-ter 42.4 63 0.0014 18.3 3.6 30 2-31 129-168 (218)
328 PF13377 Peripla_BP_3: Peripla 42.0 51 0.0011 16.9 3.1 23 5-27 71-93 (160)
329 cd04441 DEP_2_DEP6 DEP (Dishev 41.7 31 0.00068 18.1 2.2 19 8-26 48-66 (85)
330 cd04443 DEP_GPR155 DEP (Dishev 41.7 32 0.00068 17.8 2.1 19 8-26 46-64 (83)
331 PLN03142 Probable chromatin-re 41.6 45 0.00098 24.4 3.5 27 2-28 488-514 (1033)
332 PRK07340 ornithine cyclodeamin 41.5 66 0.0014 19.7 3.8 26 2-27 151-176 (304)
333 PRK06823 ornithine cyclodeamin 41.5 65 0.0014 20.0 3.8 27 1-27 153-179 (315)
334 COG4581 Superfamily II RNA hel 41.5 27 0.00058 25.8 2.4 21 3-23 381-401 (1041)
335 COG0520 csdA Selenocysteine ly 41.4 36 0.00079 21.8 2.8 22 4-25 382-403 (405)
336 PF06897 DUF1269: Protein of u 41.4 56 0.0012 17.5 3.2 26 3-28 56-82 (102)
337 cd04371 DEP DEP domain, named 41.3 34 0.00073 16.4 2.1 18 9-26 45-62 (81)
338 cd00861 ProRS_anticodon_short 41.1 45 0.00097 16.1 4.4 31 1-31 1-37 (94)
339 PF09428 DUF2011: Fungal prote 41.0 13 0.00029 20.9 0.7 11 23-33 14-24 (131)
340 cd06275 PBP1_PurR Ligand-bindi 40.7 65 0.0014 17.8 3.6 27 6-32 97-123 (269)
341 cd06285 PBP1_LacI_like_7 Ligan 40.7 65 0.0014 17.8 3.5 25 8-32 96-120 (265)
342 cd06269 PBP1_glutamate_recepto 40.6 63 0.0014 17.6 3.9 24 3-26 197-220 (298)
343 KOG0832|consensus 40.2 36 0.00077 21.6 2.5 28 3-30 109-136 (251)
344 PRK10727 DNA-binding transcrip 40.2 65 0.0014 18.9 3.5 27 6-32 156-182 (343)
345 PRK03188 4-diphosphocytidyl-2- 39.9 79 0.0017 18.9 3.9 25 3-27 255-279 (300)
346 PF14417 MEDS: MEDS: MEthanoge 39.9 49 0.0011 18.6 2.9 26 2-27 48-73 (191)
347 cd08362 BphC5-RrK37_N_like N-t 39.9 49 0.0011 16.1 2.8 21 8-28 66-86 (120)
348 PRK10839 16S rRNA pseudouridyl 39.8 37 0.0008 19.7 2.4 27 3-31 107-133 (232)
349 COG2423 Predicted ornithine cy 39.8 52 0.0011 21.0 3.3 26 2-27 156-181 (330)
350 cd02566 PseudoU_synth_RluE Pse 39.8 40 0.00087 18.8 2.5 27 3-31 45-71 (168)
351 cd07258 PpCmtC_C C-terminal do 39.5 63 0.0014 17.3 3.4 24 5-28 60-84 (141)
352 PRK14105 selenophosphate synth 39.3 60 0.0013 20.0 3.4 24 4-27 296-319 (345)
353 KOG0347|consensus 39.2 38 0.00082 24.3 2.7 21 4-24 266-286 (731)
354 PRK08057 cobalt-precorrin-6x r 39.1 84 0.0018 19.1 4.0 29 1-30 2-30 (248)
355 PF11262 Tho2: Transcription f 39.0 16 0.00034 22.6 0.9 21 3-23 155-175 (298)
356 TIGR00580 mfd transcription-re 38.9 52 0.0011 23.7 3.4 24 3-26 238-261 (926)
357 PRK05600 thiamine biosynthesis 38.9 57 0.0012 20.7 3.3 26 3-28 334-359 (370)
358 PF07652 Flavi_DEAD: Flaviviru 38.4 37 0.0008 19.7 2.3 23 3-25 35-57 (148)
359 TIGR01481 ccpA catabolite cont 38.2 81 0.0017 18.2 3.7 27 6-32 156-182 (329)
360 PF09413 DUF2007: Domain of un 38.2 48 0.001 15.5 3.0 24 4-27 2-25 (67)
361 PRK02155 ppnK NAD(+)/NADH kina 38.2 87 0.0019 19.3 4.0 27 2-28 6-37 (291)
362 PF14527 LAGLIDADG_WhiA: WhiA 38.2 48 0.001 17.3 2.5 24 5-28 25-48 (93)
363 cd06273 PBP1_GntR_like_1 This 38.2 72 0.0016 17.6 3.6 26 7-32 97-122 (268)
364 PRK11634 ATP-dependent RNA hel 38.2 52 0.0011 22.3 3.2 23 3-25 76-98 (629)
365 cd03030 GRX_SH3BGR Glutaredoxi 38.1 37 0.00081 17.7 2.1 21 8-28 13-33 (92)
366 TIGR02024 FtcD glutamate formi 38.1 44 0.00096 21.4 2.7 26 5-30 188-213 (298)
367 PRK04164 hypothetical protein; 38.1 58 0.0012 19.0 3.1 27 5-31 94-120 (181)
368 cd03028 GRX_PICOT_like Glutare 38.0 56 0.0012 16.3 4.0 28 3-30 9-42 (90)
369 PF00006 ATP-synt_ab: ATP synt 37.9 47 0.001 19.7 2.7 27 2-28 70-107 (215)
370 PRK11303 DNA-binding transcrip 37.8 83 0.0018 18.2 3.7 25 8-32 161-185 (328)
371 cd04448 DEP_PIKfyve DEP (Dishe 37.7 40 0.00087 17.2 2.1 19 8-26 44-62 (81)
372 PF12579 DUF3755: Protein of u 37.6 14 0.0003 16.7 0.4 21 6-26 11-31 (35)
373 PF13117 Cag12: Cag pathogenic 37.4 69 0.0015 17.7 3.2 26 2-27 81-106 (113)
374 PF13344 Hydrolase_6: Haloacid 37.1 63 0.0014 16.6 3.0 25 3-27 32-57 (101)
375 PF03033 Glyco_transf_28: Glyc 36.8 34 0.00074 17.4 1.8 16 15-30 16-31 (139)
376 PF07090 DUF1355: Protein of u 36.8 79 0.0017 18.4 3.5 26 3-29 69-105 (177)
377 cd07252 BphC1-RGP6_N_like N-te 36.8 59 0.0013 16.3 2.7 21 8-28 65-85 (120)
378 PRK10876 recB exonuclease V su 36.7 67 0.0014 23.6 3.7 28 3-30 553-580 (1181)
379 cd04442 DEP_1_DEP6 DEP (Dishev 36.7 43 0.00092 17.4 2.2 19 8-26 44-62 (82)
380 cd04909 ACT_PDH-BS C-terminal 36.7 49 0.0011 15.2 3.5 22 6-27 47-68 (69)
381 TIGR02643 T_phosphoryl thymidi 36.5 18 0.00039 24.1 0.9 22 6-27 208-229 (437)
382 cd01646 RT_Bac_retron_I RT_Bac 36.5 70 0.0015 17.3 3.1 20 2-21 90-109 (158)
383 cd00472 Ribosomal_L24e_L24 Rib 36.5 24 0.00051 17.3 1.1 13 2-14 26-38 (54)
384 cd06283 PBP1_RegR_EndR_KdgR_li 36.5 76 0.0016 17.4 3.5 26 6-31 96-121 (267)
385 TIGR02371 ala_DH_arch alanine 36.3 68 0.0015 19.8 3.3 26 2-27 154-179 (325)
386 CHL00067 rps2 ribosomal protei 36.3 50 0.0011 19.8 2.7 25 3-27 69-93 (230)
387 cd04450 DEP_RGS7-like DEP (Dis 36.3 44 0.00095 17.0 2.2 18 9-26 45-62 (88)
388 PF02829 3H: 3H domain; Inter 36.3 67 0.0015 17.2 3.0 21 6-26 76-96 (98)
389 PF07545 Vg_Tdu: Vestigial/Ton 36.2 49 0.0011 15.1 2.2 19 2-20 5-23 (33)
390 COG4004 Uncharacterized protei 36.1 33 0.00072 18.9 1.8 19 11-29 11-29 (96)
391 TIGR01955 RfaH transcriptional 36.0 60 0.0013 17.5 2.8 21 5-26 3-23 (159)
392 TIGR01809 Shik-DH-AROM shikima 35.8 78 0.0017 19.1 3.5 23 2-24 150-172 (282)
393 COG2222 AgaS Predicted phospho 35.8 75 0.0016 20.3 3.5 25 4-28 253-280 (340)
394 TIGR02621 cas3_GSU0051 CRISPR- 35.6 31 0.00067 24.8 1.9 25 3-27 63-88 (844)
395 PF06877 RraB: Regulator of ri 35.2 64 0.0014 16.4 2.7 23 7-29 31-53 (104)
396 TIGR01364 serC_1 phosphoserine 35.2 32 0.00069 21.3 1.7 20 4-23 325-344 (349)
397 PTZ00298 mevalonate kinase; Pr 35.1 63 0.0014 19.8 3.0 22 3-24 288-309 (328)
398 cd08357 Glo_EDI_BRP_like_18 Th 35.0 60 0.0013 15.8 3.3 19 10-28 74-92 (125)
399 PRK10672 rare lipoprotein A; P 35.0 51 0.0011 21.7 2.7 23 9-31 335-357 (361)
400 PRK09004 FMN-binding protein M 35.0 36 0.00079 18.7 1.8 19 9-27 14-32 (146)
401 cd00611 PSAT_like Phosphoserin 34.7 34 0.00074 20.8 1.8 20 4-23 333-352 (355)
402 TIGR03167 tRNA_sel_U_synt tRNA 34.6 80 0.0017 19.8 3.5 25 3-27 76-101 (311)
403 PF02437 Ski_Sno: SKI/SNO/DAC 34.5 32 0.00069 19.2 1.6 14 10-23 100-113 (114)
404 cd07242 Glo_EDI_BRP_like_6 Thi 34.5 64 0.0014 15.9 3.6 24 5-28 72-96 (128)
405 PF09419 PGP_phosphatase: Mito 34.5 64 0.0014 18.7 2.9 21 2-22 78-106 (168)
406 PHA03169 hypothetical protein; 34.4 25 0.00055 23.6 1.3 16 4-19 369-384 (413)
407 cd08346 PcpA_N_like N-terminal 34.3 61 0.0013 15.6 2.8 21 8-28 81-101 (126)
408 cd07261 Glo_EDI_BRP_like_11 Th 34.3 62 0.0013 15.7 2.6 21 8-28 67-87 (114)
409 PRK08862 short chain dehydroge 34.3 92 0.002 17.7 4.0 27 3-29 31-57 (227)
410 PRK11784 tRNA 2-selenouridine 34.3 84 0.0018 20.0 3.5 26 2-27 89-115 (345)
411 PRK11914 diacylglycerol kinase 34.2 1.1E+02 0.0023 18.3 4.3 32 1-32 8-46 (306)
412 TIGR02467 CbiE precorrin-6y C5 34.2 67 0.0014 18.1 2.9 24 3-26 141-164 (204)
413 PRK10919 ATP-dependent DNA hel 34.2 96 0.0021 21.1 4.0 27 3-29 344-370 (672)
414 PRK02645 ppnK inorganic polyph 34.2 1.2E+02 0.0025 18.8 4.4 29 1-29 3-36 (305)
415 TIGR02519 pilus_MshL pilus (MS 33.9 70 0.0015 19.2 3.0 24 3-26 8-31 (290)
416 PF00466 Ribosomal_L10: Riboso 33.9 68 0.0015 16.1 2.8 20 3-24 79-98 (100)
417 PF04255 DUF433: Protein of un 33.9 45 0.00097 15.7 1.8 21 5-26 12-32 (56)
418 PRK07677 short chain dehydroge 33.8 90 0.002 17.4 4.1 25 3-27 27-51 (252)
419 PRK12436 UDP-N-acetylenolpyruv 33.6 89 0.0019 19.3 3.5 27 2-28 37-63 (305)
420 PF14719 PID_2: Phosphotyrosin 33.4 56 0.0012 19.4 2.5 18 6-23 100-117 (182)
421 PRK12903 secA preprotein trans 33.4 71 0.0015 23.6 3.4 26 3-28 428-453 (925)
422 PRK05723 flavodoxin; Provision 33.2 40 0.00086 18.8 1.8 19 9-27 13-31 (151)
423 cd00859 HisRS_anticodon HisRS 33.1 57 0.0012 15.0 3.3 26 3-28 3-31 (91)
424 PRK14608 4-diphosphocytidyl-2- 33.0 78 0.0017 19.2 3.2 25 3-27 257-281 (290)
425 cd03031 GRX_GRX_like Glutaredo 33.0 96 0.0021 17.5 3.9 20 10-29 15-34 (147)
426 PRK07594 type III secretion sy 33.0 1E+02 0.0022 20.5 3.9 28 2-29 210-248 (433)
427 PRK07666 fabG 3-ketoacyl-(acyl 33.0 90 0.002 17.2 4.2 27 3-29 33-59 (239)
428 cd05796 Ribosomal_P0_like Ribo 32.9 70 0.0015 18.0 2.8 21 3-25 80-100 (163)
429 PRK00881 purH bifunctional pho 32.8 85 0.0018 21.5 3.6 29 1-29 4-32 (513)
430 cd07240 ED_TypeI_classII_N N-t 32.8 65 0.0014 15.5 2.7 21 8-28 65-85 (117)
431 PRK14891 50S ribosomal protein 32.8 25 0.00055 20.3 1.0 11 2-12 27-37 (131)
432 PF13579 Glyco_trans_4_4: Glyc 32.7 68 0.0015 15.8 2.5 17 13-29 6-22 (160)
433 PRK05355 3-phosphoserine/phosp 32.7 35 0.00076 21.1 1.7 20 4-23 335-354 (360)
434 PRK12597 F0F1 ATP synthase sub 32.7 98 0.0021 20.7 3.8 29 1-29 200-240 (461)
435 COG1205 Distinct helicase fami 32.5 34 0.00074 24.3 1.7 24 2-25 307-334 (851)
436 PF00210 Ferritin: Ferritin-li 32.5 55 0.0012 16.5 2.2 16 11-26 45-60 (142)
437 cd06298 PBP1_CcpA_like Ligand- 32.4 92 0.002 17.1 3.7 27 6-32 96-122 (268)
438 TIGR01073 pcrA ATP-dependent D 32.4 92 0.002 21.1 3.7 27 2-28 345-371 (726)
439 TIGR02645 ARCH_P_rylase putati 32.4 23 0.00051 24.0 0.9 23 6-28 286-308 (493)
440 TIGR01011 rpsB_bact ribosomal 32.3 75 0.0016 19.0 3.0 22 3-24 63-84 (225)
441 cd05795 Ribosomal_P0_L10e Ribo 32.0 73 0.0016 18.1 2.8 21 3-25 79-99 (175)
442 COG1597 LCB5 Sphingosine kinas 31.9 1.3E+02 0.0027 18.5 4.0 31 2-32 3-40 (301)
443 TIGR02992 ectoine_eutC ectoine 31.9 79 0.0017 19.4 3.1 23 2-24 155-177 (326)
444 TIGR00643 recG ATP-dependent D 31.9 71 0.0015 21.4 3.1 23 2-24 449-479 (630)
445 PRK05599 hypothetical protein; 31.8 1E+02 0.0022 17.4 4.1 25 3-27 25-49 (246)
446 cd04439 DEP_1_P-Rex DEP (Dishe 31.7 57 0.0012 16.7 2.2 20 7-26 43-62 (81)
447 PRK05867 short chain dehydroge 31.7 1E+02 0.0022 17.3 4.0 26 3-28 35-60 (253)
448 PF13104 DUF3956: Protein of u 31.5 40 0.00086 16.2 1.4 11 1-11 1-11 (45)
449 PRK04020 rps2P 30S ribosomal p 31.5 64 0.0014 19.4 2.6 22 3-24 68-89 (204)
450 PRK06172 short chain dehydroge 31.5 99 0.0021 17.2 4.2 26 3-28 33-58 (253)
451 PRK06136 uroporphyrin-III C-me 31.5 96 0.0021 17.9 3.3 24 3-26 166-189 (249)
452 cd06291 PBP1_Qymf_like Ligand 31.4 97 0.0021 17.1 3.7 27 6-32 92-118 (265)
453 cd03411 Ferrochelatase_N Ferro 31.4 61 0.0013 17.9 2.4 19 9-27 69-87 (159)
454 PF13676 TIR_2: TIR domain; PD 31.3 47 0.001 16.3 1.7 17 11-27 10-26 (102)
455 cd01133 F1-ATPase_beta F1 ATP 31.3 1.1E+02 0.0024 19.0 3.7 29 1-29 126-166 (274)
456 PRK08972 fliI flagellum-specif 31.2 1.1E+02 0.0024 20.5 3.8 29 1-29 216-255 (444)
457 PF00325 Crp: Bacterial regula 31.2 57 0.0012 14.3 2.1 17 10-26 15-31 (32)
458 cd09013 BphC-JF8_N_like N-term 31.2 75 0.0016 15.7 3.1 23 5-27 66-89 (121)
459 PRK10689 transcription-repair 31.1 76 0.0016 23.4 3.3 24 3-26 384-407 (1147)
460 cd03784 GT1_Gtf_like This fami 31.1 53 0.0012 19.7 2.2 18 14-31 17-34 (401)
461 PF13734 Inhibitor_I69: Spi pr 31.1 51 0.0011 17.6 2.0 18 7-24 5-22 (96)
462 cd01644 RT_pepA17 RT_pepA17: R 31.1 57 0.0012 19.1 2.3 21 1-21 141-161 (213)
463 PRK14612 4-diphosphocytidyl-2- 31.0 1.1E+02 0.0023 18.3 3.5 25 3-27 243-267 (276)
464 TIGR03590 PseG pseudaminic aci 30.9 70 0.0015 19.0 2.7 19 13-31 19-37 (279)
465 PRK10645 divalent-cation toler 30.8 95 0.0021 16.9 3.0 22 4-25 12-35 (112)
466 PF06470 SMC_hinge: SMC protei 30.7 80 0.0017 15.9 3.5 24 6-29 33-56 (120)
467 PRK10014 DNA-binding transcrip 30.7 1.2E+02 0.0025 17.7 3.8 25 8-32 164-188 (342)
468 PRK14027 quinate/shikimate deh 30.7 94 0.002 19.0 3.3 22 2-23 152-173 (283)
469 PF08495 FIST: FIST N domain; 30.5 83 0.0018 17.0 2.8 23 2-24 3-26 (198)
470 cd01545 PBP1_SalR Ligand-bindi 30.4 1E+02 0.0022 17.0 3.6 27 6-32 98-124 (270)
471 PRK06124 gluconate 5-dehydroge 30.4 1E+02 0.0023 17.1 4.2 26 3-28 37-62 (256)
472 TIGR03498 FliI_clade3 flagella 30.3 1.2E+02 0.0025 20.0 3.8 29 1-29 194-233 (418)
473 PF14698 ASL_C2: Argininosucci 30.3 47 0.001 16.5 1.6 15 14-28 4-18 (70)
474 PRK11773 uvrD DNA-dependent he 30.1 1.2E+02 0.0026 20.7 3.9 27 2-28 348-374 (721)
475 cd06310 PBP1_ABC_sugar_binding 30.1 96 0.0021 17.2 3.0 24 4-27 185-208 (273)
476 PRK05787 cobalt-precorrin-6Y C 30.0 87 0.0019 17.5 2.9 23 3-25 144-166 (210)
477 PRK04101 fosfomycin resistance 30.0 89 0.0019 16.2 3.5 25 4-28 66-90 (139)
478 cd01227 PH_Dbs Dbs (DBL's big 29.9 26 0.00056 19.8 0.7 11 2-12 38-48 (133)
479 cd06278 PBP1_LacI_like_2 Ligan 29.9 1E+02 0.0022 16.8 3.8 26 7-32 96-121 (266)
480 cd00387 Ribosomal_L7_L12 Ribos 29.9 58 0.0013 18.3 2.1 19 10-28 107-125 (127)
481 cd00821 PH Pleckstrin homology 29.9 62 0.0013 14.4 2.9 21 3-23 74-95 (96)
482 cd06299 PBP1_LacI_like_13 Liga 29.9 1E+02 0.0022 16.9 3.6 25 7-31 97-121 (265)
483 PRK08277 D-mannonate oxidoredu 29.9 1.1E+02 0.0024 17.3 4.1 27 3-29 36-62 (278)
484 PF00318 Ribosomal_S2: Ribosom 29.8 67 0.0015 18.8 2.5 24 3-26 57-80 (211)
485 cd01543 PBP1_XylR Ligand-bindi 29.7 1.1E+02 0.0023 17.1 3.5 27 6-32 89-115 (265)
486 PRK05820 deoA thymidine phosph 29.7 26 0.00057 23.3 0.8 21 7-27 210-230 (440)
487 PRK07454 short chain dehydroge 29.7 1.1E+02 0.0023 16.9 4.2 25 3-27 32-56 (241)
488 TIGR03327 AMP_phos AMP phospho 29.6 28 0.00061 23.7 0.9 23 6-28 287-309 (500)
489 TIGR01426 MGT glycosyltransfer 29.5 65 0.0014 19.5 2.4 18 15-32 13-30 (392)
490 cd07239 BphC5-RK37_C_like C-te 29.4 97 0.0021 16.4 3.4 25 5-29 63-88 (144)
491 cd06281 PBP1_LacI_like_5 Ligan 29.4 1.1E+02 0.0024 17.0 3.8 26 7-32 97-122 (269)
492 PRK12311 rpsB 30S ribosomal pr 29.4 68 0.0015 20.6 2.6 24 3-26 60-83 (326)
493 TIGR03211 catechol_2_3 catecho 29.4 1.2E+02 0.0026 17.8 3.5 21 8-28 68-88 (303)
494 PF07864 DUF1651: Protein of u 29.3 59 0.0013 16.1 1.9 19 10-28 51-69 (75)
495 cd06276 PBP1_FucR_like Ligand- 29.3 1.1E+02 0.0025 17.2 3.7 27 6-32 95-123 (247)
496 TIGR01012 Sa_S2_E_A ribosomal 29.1 84 0.0018 18.8 2.8 22 3-24 62-83 (196)
497 PF10678 DUF2492: Protein of u 29.0 53 0.0011 17.3 1.8 15 12-26 47-61 (78)
498 TIGR01319 glmL_fam conserved h 29.0 1.1E+02 0.0024 20.7 3.6 29 2-32 151-179 (463)
499 PF11829 DUF3349: Protein of u 28.9 62 0.0013 17.5 2.1 20 9-28 73-92 (96)
500 PRK07116 flavodoxin; Provision 28.9 64 0.0014 17.6 2.2 20 4-23 6-29 (160)
No 1
>KOG0349|consensus
Probab=98.11 E-value=2e-06 Score=58.20 Aligned_cols=26 Identities=65% Similarity=1.137 Sum_probs=24.6
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
|++|||||+||.+||+|.++++++|+
T Consensus 505 mdkaiifcrtk~dcDnLer~~~qkgg 530 (725)
T KOG0349|consen 505 MDKAIIFCRTKQDCDNLERMMNQKGG 530 (725)
T ss_pred cCceEEEEeccccchHHHHHHHHcCC
Confidence 68999999999999999999999887
No 2
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.76 E-value=3.4e-05 Score=49.72 Aligned_cols=26 Identities=27% Similarity=0.382 Sum_probs=23.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++|||||||+.|++|+..|++.|..
T Consensus 274 ~~~IVF~~tk~~~~~l~~~l~~~g~~ 299 (513)
T COG0513 274 GRVIVFVRTKRLVEELAESLRKRGFK 299 (513)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHCCCe
Confidence 47999999999999999999999954
No 3
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.74 E-value=6.6e-05 Score=46.35 Aligned_cols=30 Identities=33% Similarity=0.490 Sum_probs=26.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||+|++.|+.|++.|.+.|....++
T Consensus 256 ~~~lVF~~t~~~~~~l~~~L~~~g~~v~~l 285 (423)
T PRK04837 256 DRAIIFANTKHRCEEIWGHLAADGHRVGLL 285 (423)
T ss_pred CeEEEEECCHHHHHHHHHHHHhCCCcEEEe
Confidence 589999999999999999999998876554
No 4
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=97.71 E-value=8e-05 Score=46.40 Aligned_cols=30 Identities=23% Similarity=0.542 Sum_probs=26.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||||+.+|+.|++.|.+.|.....+
T Consensus 243 ~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~ 272 (460)
T PRK11776 243 ESCVVFCNTKKECQEVADALNAQGFSALAL 272 (460)
T ss_pred CceEEEECCHHHHHHHHHHHHhCCCcEEEE
Confidence 579999999999999999999999776554
No 5
>KOG0331|consensus
Probab=97.57 E-value=7.2e-05 Score=49.74 Aligned_cols=24 Identities=42% Similarity=0.814 Sum_probs=22.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++||||+||..|++|+..|++.|
T Consensus 342 ~KvIIFc~tkr~~~~l~~~l~~~~ 365 (519)
T KOG0331|consen 342 GKVIIFCETKRTCDELARNLRRKG 365 (519)
T ss_pred CcEEEEecchhhHHHHHHHHHhcC
Confidence 479999999999999999999976
No 6
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=97.55 E-value=0.00018 Score=44.43 Aligned_cols=30 Identities=23% Similarity=0.453 Sum_probs=26.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||||++.|+.|++.|++.|....++
T Consensus 246 ~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l 275 (434)
T PRK11192 246 TRSIVFVRTRERVHELAGWLRKAGINCCYL 275 (434)
T ss_pred CeEEEEeCChHHHHHHHHHHHhCCCCEEEe
Confidence 579999999999999999999988765543
No 7
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=97.55 E-value=0.00014 Score=45.59 Aligned_cols=29 Identities=31% Similarity=0.377 Sum_probs=25.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.++||||||+++|+.|++.|.+.|.....
T Consensus 246 ~~~lVF~~t~~~~~~l~~~L~~~g~~~~~ 274 (456)
T PRK10590 246 QQVLVFTRTKHGANHLAEQLNKDGIRSAA 274 (456)
T ss_pred CcEEEEcCcHHHHHHHHHHHHHCCCCEEE
Confidence 57999999999999999999998876544
No 8
>KOG0332|consensus
Probab=97.52 E-value=9.9e-05 Score=48.89 Aligned_cols=29 Identities=21% Similarity=0.371 Sum_probs=26.9
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
+.|+||||.||..|..|+..|.+.||+.+
T Consensus 330 igqsiIFc~tk~ta~~l~~~m~~~Gh~V~ 358 (477)
T KOG0332|consen 330 IGQSIIFCHTKATAMWLYEEMRAEGHQVS 358 (477)
T ss_pred hhheEEEEeehhhHHHHHHHHHhcCceeE
Confidence 36899999999999999999999999875
No 9
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.46 E-value=0.00022 Score=45.03 Aligned_cols=29 Identities=14% Similarity=0.386 Sum_probs=25.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
++||||+|+++|+.|++.|++.|.....|
T Consensus 228 ~~IIF~~s~~~~e~la~~L~~~g~~~~~~ 256 (470)
T TIGR00614 228 SGIIYCPSRKKSEQVTASLQNLGIAAGAY 256 (470)
T ss_pred ceEEEECcHHHHHHHHHHHHhcCCCeeEe
Confidence 56999999999999999999999876655
No 10
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.44 E-value=0.00024 Score=46.43 Aligned_cols=30 Identities=23% Similarity=0.307 Sum_probs=26.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||||++.|+.|++.|.+.|.....+
T Consensus 258 ~k~LVF~nt~~~ae~l~~~L~~~g~~v~~l 287 (572)
T PRK04537 258 ARTMVFVNTKAFVERVARTLERHGYRVGVL 287 (572)
T ss_pred CcEEEEeCCHHHHHHHHHHHHHcCCCEEEE
Confidence 479999999999999999999998766554
No 11
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.43 E-value=0.00025 Score=46.36 Aligned_cols=30 Identities=17% Similarity=0.388 Sum_probs=26.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||+|+++|+.+++.|++.|....+|
T Consensus 237 ~~~IIFc~tr~~~e~la~~L~~~g~~v~~~ 266 (607)
T PRK11057 237 KSGIIYCNSRAKVEDTAARLQSRGISAAAY 266 (607)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCCEEEe
Confidence 478999999999999999999999876665
No 12
>KOG0328|consensus
Probab=97.38 E-value=0.00019 Score=46.58 Aligned_cols=28 Identities=29% Similarity=0.494 Sum_probs=24.7
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+.|++||||||..+|=|.++|+.++.-.
T Consensus 266 ItQavIFcnTk~kVdwLtekm~~~nftV 293 (400)
T KOG0328|consen 266 ITQAVIFCNTKRKVDWLTEKMREANFTV 293 (400)
T ss_pred hheEEEEecccchhhHHHHHHHhhCcee
Confidence 3699999999999999999999887644
No 13
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.33 E-value=0.00048 Score=43.28 Aligned_cols=30 Identities=17% Similarity=0.227 Sum_probs=26.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++|||||+++.|+.|++.|.+.|.....+
T Consensus 336 ~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~ 365 (475)
T PRK01297 336 ERVMVFANRKDEVRRIEERLVKDGINAAQL 365 (475)
T ss_pred CeEEEEeCCHHHHHHHHHHHHHcCCCEEEE
Confidence 589999999999999999999988765443
No 14
>PTZ00110 helicase; Provisional
Probab=97.32 E-value=0.00044 Score=44.83 Aligned_cols=28 Identities=32% Similarity=0.350 Sum_probs=24.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++||||+|+..|+.|++.|+..|..-.
T Consensus 378 ~k~LIF~~t~~~a~~l~~~L~~~g~~~~ 405 (545)
T PTZ00110 378 DKILIFVETKKGADFLTKELRLDGWPAL 405 (545)
T ss_pred CeEEEEecChHHHHHHHHHHHHcCCcEE
Confidence 4899999999999999999998886543
No 15
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=97.32 E-value=0.00042 Score=45.98 Aligned_cols=28 Identities=29% Similarity=0.256 Sum_probs=24.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++|||||||..|++|++.|.+.|....
T Consensus 246 ~~~IVF~~tk~~a~~l~~~L~~~g~~~~ 273 (629)
T PRK11634 246 DAAIIFVRTKNATLEVAEALERNGYNSA 273 (629)
T ss_pred CCEEEEeccHHHHHHHHHHHHhCCCCEE
Confidence 5799999999999999999999986543
No 16
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=97.30 E-value=0.00034 Score=41.85 Aligned_cols=26 Identities=12% Similarity=0.072 Sum_probs=23.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++||||||+++|+.+++.|.+.+..
T Consensus 223 ~~~lVf~~t~~~~~~~~~~L~~~~~~ 248 (358)
T TIGR01587 223 GKIAIIVNTVDRAQEFYQQLKENAPE 248 (358)
T ss_pred CeEEEEECCHHHHHHHHHHHHhhcCC
Confidence 58999999999999999999988764
No 17
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.26 E-value=0.00053 Score=44.28 Aligned_cols=30 Identities=17% Similarity=0.358 Sum_probs=26.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||+|+.+|+.|++.|...|.....|
T Consensus 225 ~~~IIf~~sr~~~e~la~~L~~~g~~~~~~ 254 (591)
T TIGR01389 225 QSGIIYASSRKKVEELAERLESQGISALAY 254 (591)
T ss_pred CCEEEEECcHHHHHHHHHHHHhCCCCEEEE
Confidence 478999999999999999999998766554
No 18
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=97.20 E-value=0.00047 Score=42.47 Aligned_cols=25 Identities=16% Similarity=0.206 Sum_probs=22.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||||||+..|+++++.|++.|.
T Consensus 273 ~k~LIf~nt~~~~~~l~~~L~~~~~ 297 (357)
T TIGR03158 273 ERGAIILDSLDEVNRLSDLLQQQGL 297 (357)
T ss_pred CeEEEEECCHHHHHHHHHHHhhhCC
Confidence 4799999999999999999998764
No 19
>PTZ00424 helicase 45; Provisional
Probab=97.10 E-value=0.0011 Score=40.04 Aligned_cols=30 Identities=23% Similarity=0.460 Sum_probs=25.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++||||+|+..|+.+++.|.+.|....++
T Consensus 268 ~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~ 297 (401)
T PTZ00424 268 TQAIIYCNTRRKVDYLTKKMHERDFTVSCM 297 (401)
T ss_pred CeEEEEecCcHHHHHHHHHHHHCCCcEEEE
Confidence 478999999999999999999987765543
No 20
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=97.07 E-value=0.00065 Score=47.21 Aligned_cols=25 Identities=24% Similarity=0.289 Sum_probs=23.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||||||++.|++|++.|++.|.
T Consensus 273 ~~vLVF~NTv~~Aq~L~~~L~~~g~ 297 (844)
T TIGR02621 273 GAILVFCRTVKHVRKVFAKLPKEKF 297 (844)
T ss_pred CcEEEEECCHHHHHHHHHHHHhcCC
Confidence 5799999999999999999998875
No 21
>KOG0333|consensus
Probab=97.03 E-value=0.00065 Score=46.54 Aligned_cols=25 Identities=28% Similarity=0.430 Sum_probs=23.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.+|||+|||+.||.||+.|++.|..
T Consensus 519 piIIFvN~kk~~d~lAk~LeK~g~~ 543 (673)
T KOG0333|consen 519 PIIIFVNTKKGADALAKILEKAGYK 543 (673)
T ss_pred CEEEEEechhhHHHHHHHHhhccce
Confidence 5899999999999999999999954
No 22
>KOG0327|consensus
Probab=96.99 E-value=0.0008 Score=43.99 Aligned_cols=30 Identities=30% Similarity=0.460 Sum_probs=26.1
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
+.|++|||||++.++.|..+|.++|..-+.
T Consensus 263 ~~q~~if~nt~r~v~~l~~~L~~~~~~~s~ 292 (397)
T KOG0327|consen 263 VTQAVIFCNTRRKVDNLTDKLRAHGFTVSA 292 (397)
T ss_pred hhcceEEecchhhHHHHHHHHhhCCceEEE
Confidence 468999999999999999999888876543
No 23
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=96.92 E-value=0.0014 Score=44.28 Aligned_cols=31 Identities=19% Similarity=0.395 Sum_probs=27.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+++||+|.||..|+++|++|++.|..-..|-
T Consensus 231 ~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YH 261 (590)
T COG0514 231 KSGIIYCLTRKKVEELAEWLRKNGISAGAYH 261 (590)
T ss_pred CCeEEEEeeHHhHHHHHHHHHHCCCceEEec
Confidence 3589999999999999999999998877763
No 24
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.91 E-value=0.0012 Score=47.51 Aligned_cols=30 Identities=20% Similarity=0.772 Sum_probs=27.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+++||||+|+.+|+.|++.|++.|....+|
T Consensus 681 esgIIYC~SRke~E~LAe~L~~~Gika~~Y 710 (1195)
T PLN03137 681 ECGIIYCLSRMDCEKVAERLQEFGHKAAFY 710 (1195)
T ss_pred CCceeEeCchhHHHHHHHHHHHCCCCeeee
Confidence 368999999999999999999999887776
No 25
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=96.88 E-value=0.003 Score=31.92 Aligned_cols=30 Identities=27% Similarity=0.419 Sum_probs=25.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+++||||+++..++.+++.|.+.+.+..++
T Consensus 29 ~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~ 58 (131)
T cd00079 29 GKVLIFCPSKKMLDELAELLRKPGIKVAAL 58 (131)
T ss_pred CcEEEEeCcHHHHHHHHHHHHhcCCcEEEE
Confidence 478999999999999999999876665443
No 26
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=96.71 E-value=0.0017 Score=45.27 Aligned_cols=30 Identities=17% Similarity=0.389 Sum_probs=26.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.|+|||+|++..|..||+.|...|..-+-|
T Consensus 441 GQtIVFT~SRrr~h~lA~~L~~kG~~a~pY 470 (830)
T COG1202 441 GQTIVFTYSRRRCHELADALTGKGLKAAPY 470 (830)
T ss_pred CceEEEecchhhHHHHHHHhhcCCcccccc
Confidence 589999999999999999999888776555
No 27
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=96.56 E-value=0.0022 Score=43.30 Aligned_cols=23 Identities=17% Similarity=0.358 Sum_probs=20.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++|||||||..|+.|++.|++.
T Consensus 272 ~~~IVF~~sr~~ae~l~~~l~~~ 294 (742)
T TIGR03817 272 ARTLTFVRSRRGAELVAAIARRL 294 (742)
T ss_pred CCEEEEcCCHHHHHHHHHHHHHH
Confidence 47999999999999999998764
No 28
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=96.50 E-value=0.0048 Score=41.09 Aligned_cols=29 Identities=28% Similarity=0.488 Sum_probs=25.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.++||||+|+..|++|++.|...|....+
T Consensus 447 ~~viIf~~t~~~ae~L~~~L~~~gi~~~~ 475 (652)
T PRK05298 447 ERVLVTTLTKRMAEDLTDYLKELGIKVRY 475 (652)
T ss_pred CEEEEEeCCHHHHHHHHHHHhhcceeEEE
Confidence 47999999999999999999999876544
No 29
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=96.50 E-value=0.0048 Score=41.48 Aligned_cols=29 Identities=28% Similarity=0.489 Sum_probs=25.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.++||||+|+..+++|++.|.+.|....|
T Consensus 443 ~~vLIf~~tk~~ae~L~~~L~~~gi~~~~ 471 (655)
T TIGR00631 443 ERVLVTTLTKKMAEDLTDYLKELGIKVRY 471 (655)
T ss_pred CEEEEEECCHHHHHHHHHHHhhhccceee
Confidence 47999999999999999999999876554
No 30
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=96.41 E-value=0.0031 Score=46.03 Aligned_cols=24 Identities=17% Similarity=0.308 Sum_probs=21.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++|||||||..|+.|+..|++.+
T Consensus 245 ~stLVFvNSR~~AE~La~~L~~~~ 268 (1490)
T PRK09751 245 RSTIVFTNSRGLAEKLTARLNELY 268 (1490)
T ss_pred CCEEEECCCHHHHHHHHHHHHHhh
Confidence 478999999999999999998753
No 31
>PRK13767 ATP-dependent helicase; Provisional
Probab=96.34 E-value=0.0043 Score=42.48 Aligned_cols=23 Identities=22% Similarity=0.283 Sum_probs=21.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++||||||+..|+.+++.|.+.
T Consensus 285 ~~~LVF~nTr~~ae~la~~L~~~ 307 (876)
T PRK13767 285 RTTLIFTNTRSGAERVLYNLRKR 307 (876)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHh
Confidence 47999999999999999999874
No 32
>PRK09401 reverse gyrase; Reviewed
Probab=96.33 E-value=0.0058 Score=43.46 Aligned_cols=28 Identities=25% Similarity=0.440 Sum_probs=24.7
Q ss_pred ceEEEEecchhh---HHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLD---CDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~---ad~La~~L~~~G~~~~ 29 (33)
.++||||||+.+ |++|++.|++.|....
T Consensus 329 ~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~ 359 (1176)
T PRK09401 329 DGGLIFVPSDKGKEYAEELAEYLEDLGINAE 359 (1176)
T ss_pred CCEEEEEecccChHHHHHHHHHHHHCCCcEE
Confidence 478999999888 9999999999997654
No 33
>PRK02362 ski2-like helicase; Provisional
Probab=96.29 E-value=0.0045 Score=41.22 Aligned_cols=23 Identities=13% Similarity=0.387 Sum_probs=21.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++||||+||.+|+.+|+.|.+.
T Consensus 244 ~~~LVF~~sr~~~~~~a~~L~~~ 266 (737)
T PRK02362 244 GQCLVFVSSRRNAEGFAKRAASA 266 (737)
T ss_pred CCeEEEEeCHHHHHHHHHHHHHH
Confidence 48999999999999999999765
No 34
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.22 E-value=0.0088 Score=40.76 Aligned_cols=28 Identities=14% Similarity=0.084 Sum_probs=24.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..+||||+|+.+++.|++.|.+.|....
T Consensus 474 ~pvLIft~t~~~se~L~~~L~~~gi~~~ 501 (656)
T PRK12898 474 RPVLVGTRSVAASERLSALLREAGLPHQ 501 (656)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCCEE
Confidence 3689999999999999999999986543
No 35
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=96.22 E-value=0.0076 Score=42.84 Aligned_cols=28 Identities=4% Similarity=0.318 Sum_probs=24.8
Q ss_pred ceEEEEecch---hhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTK---LDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK---~~ad~La~~L~~~G~~~~ 29 (33)
.++||||+|+ +.|++|++.|++.|..-.
T Consensus 327 ~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~ 357 (1171)
T TIGR01054 327 TGGIVYVSIDYGKEKAEEIAEFLENHGVKAV 357 (1171)
T ss_pred CCEEEEEeccccHHHHHHHHHHHHhCCceEE
Confidence 4689999999 999999999999987644
No 36
>PRK00254 ski2-like helicase; Provisional
Probab=96.03 E-value=0.0074 Score=40.09 Aligned_cols=22 Identities=23% Similarity=0.303 Sum_probs=19.4
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++|||||||..|+.++..|.+
T Consensus 239 ~~vLVF~~sr~~~~~~a~~l~~ 260 (720)
T PRK00254 239 KGALVFVNTRRSAEKEALELAK 260 (720)
T ss_pred CCEEEEEcChHHHHHHHHHHHH
Confidence 4799999999999999988854
No 37
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=96.02 E-value=0.011 Score=38.04 Aligned_cols=23 Identities=22% Similarity=0.443 Sum_probs=20.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++||||||+..|+.|++.|...
T Consensus 368 ~~~iVFv~s~~~a~~l~~~L~~~ 390 (518)
T PLN00206 368 PPAVVFVSSRLGADLLANAITVV 390 (518)
T ss_pred CCEEEEcCCchhHHHHHHHHhhc
Confidence 36999999999999999999863
No 38
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.96 E-value=0.013 Score=40.70 Aligned_cols=27 Identities=11% Similarity=0.081 Sum_probs=24.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.++||||+|++.++.|++.|.+.|...
T Consensus 429 ~pvLIf~~t~~~se~l~~~L~~~gi~~ 455 (790)
T PRK09200 429 RPVLIGTGSIEQSETFSKLLDEAGIPH 455 (790)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCCE
Confidence 479999999999999999999988654
No 39
>PRK01172 ski2-like helicase; Provisional
Probab=95.86 E-value=0.011 Score=38.90 Aligned_cols=23 Identities=13% Similarity=0.359 Sum_probs=20.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+++||||+|+.+|+.+++.|.+.
T Consensus 237 ~~vLVF~~sr~~~~~~a~~L~~~ 259 (674)
T PRK01172 237 GQVLVFVSSRKNAEDYAEMLIQH 259 (674)
T ss_pred CcEEEEeccHHHHHHHHHHHHHh
Confidence 57999999999999999999765
No 40
>PRK14701 reverse gyrase; Provisional
Probab=95.80 E-value=0.011 Score=43.47 Aligned_cols=30 Identities=20% Similarity=0.316 Sum_probs=25.1
Q ss_pred ceEEEEecchhhH---HHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDC---DNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~a---d~La~~L~~~G~~~~~~ 31 (33)
.++||||+|++.+ ++|++.|.++|.....+
T Consensus 331 ~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~ 363 (1638)
T PRK14701 331 KGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELV 363 (1638)
T ss_pred CCeEEEEeccccchHHHHHHHHHHHCCCeEEEe
Confidence 4789999999874 89999999999875543
No 41
>KOG0335|consensus
Probab=95.74 E-value=0.012 Score=39.21 Aligned_cols=28 Identities=29% Similarity=0.456 Sum_probs=25.0
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
|+..+|||.||+.|+.|+..|...|...
T Consensus 337 ~e~tlvFvEt~~~~d~l~~~l~~~~~~~ 364 (482)
T KOG0335|consen 337 WEKTLVFVETKRGADELAAFLSSNGYPA 364 (482)
T ss_pred cceEEEEeeccchhhHHHHHHhcCCCCc
Confidence 4679999999999999999999988753
No 42
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=95.72 E-value=0.018 Score=40.52 Aligned_cols=28 Identities=21% Similarity=0.345 Sum_probs=23.5
Q ss_pred ceEEEEecchhhHHHHHHHHH-hcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLN-SIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~-~~G~~~~ 29 (33)
+++||||+++..++.|++.|+ +.|....
T Consensus 494 ~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~ 522 (956)
T PRK04914 494 EKVLVICAKAATALQLEQALREREGIRAA 522 (956)
T ss_pred CeEEEEeCcHHHHHHHHHHHhhccCeeEE
Confidence 589999999999999999994 5565543
No 43
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=95.72 E-value=0.013 Score=40.88 Aligned_cols=25 Identities=24% Similarity=0.368 Sum_probs=22.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
..+|||+||+..|++|+..|++.+.
T Consensus 254 ~ttLIF~NTR~~aE~l~~~L~~~~~ 278 (814)
T COG1201 254 RTTLIFTNTRSGAERLAFRLKKLGP 278 (814)
T ss_pred CcEEEEEeChHHHHHHHHHHHHhcC
Confidence 3689999999999999999998874
No 44
>PRK13766 Hef nuclease; Provisional
Probab=95.66 E-value=0.025 Score=37.46 Aligned_cols=28 Identities=11% Similarity=0.291 Sum_probs=24.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++||||++++.|+.|.+.|.+.|....
T Consensus 366 ~kvlIF~~~~~t~~~L~~~L~~~~~~~~ 393 (773)
T PRK13766 366 SRIIVFTQYRDTAEKIVDLLEKEGIKAV 393 (773)
T ss_pred CeEEEEeCcHHHHHHHHHHHHhCCCceE
Confidence 5799999999999999999988876543
No 45
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=95.49 E-value=0.026 Score=39.19 Aligned_cols=28 Identities=7% Similarity=-0.102 Sum_probs=24.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++||||+|++.++.|++.|.+.|....
T Consensus 425 ~pvLIft~s~~~se~ls~~L~~~gi~~~ 452 (762)
T TIGR03714 425 QPVLLITGSVEMSEIYSELLLREGIPHN 452 (762)
T ss_pred CCEEEEECcHHHHHHHHHHHHHCCCCEE
Confidence 4799999999999999999999887543
No 46
>KOG0352|consensus
Probab=95.32 E-value=0.02 Score=39.16 Aligned_cols=25 Identities=20% Similarity=0.595 Sum_probs=23.1
Q ss_pred EEEEecchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.||+|+|+++|+++|-.|..+|.+-
T Consensus 258 GIVYCRTR~~cEq~AI~l~~~Gi~A 282 (641)
T KOG0352|consen 258 GIVYCRTRNECEQVAIMLEIAGIPA 282 (641)
T ss_pred eEEEeccHHHHHHHHHHhhhcCcch
Confidence 6999999999999999999999763
No 47
>PRK09694 helicase Cas3; Provisional
Probab=95.31 E-value=0.024 Score=39.55 Aligned_cols=24 Identities=17% Similarity=0.367 Sum_probs=22.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++||||||.++|+++++.|++.+
T Consensus 561 ~~vLVf~NTV~~Aq~ly~~L~~~~ 584 (878)
T PRK09694 561 AQVCLICNLVDDAQKLYQRLKELN 584 (878)
T ss_pred CEEEEEECCHHHHHHHHHHHHhhC
Confidence 478999999999999999999875
No 48
>PF05939 Phage_min_tail: Phage minor tail protein; InterPro: IPR010265 This entry is represented by Bacteriophage lambda, GpM, the minor tail protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of a series of phage minor tail proteins and related sequences from several bacterial species.
Probab=95.24 E-value=0.048 Score=29.48 Aligned_cols=30 Identities=20% Similarity=0.364 Sum_probs=27.4
Q ss_pred EEEEecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
.|.|..++.+++.|.++|.++++-+++++|
T Consensus 45 ~ltf~~~~~~~~~I~~FL~~h~G~~sF~Wt 74 (109)
T PF05939_consen 45 SLTFTGTEAEIRAIEAFLDRHGGVKSFLWT 74 (109)
T ss_pred EEEEEECHHHHHHHHHHHHHCCCceEEEEE
Confidence 478999999999999999999999999875
No 49
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=95.23 E-value=0.063 Score=25.58 Aligned_cols=31 Identities=13% Similarity=0.374 Sum_probs=27.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+.+||+|+.-..+..++..|++.|....|++
T Consensus 51 ~~vv~~c~~~~~a~~~~~~l~~~G~~~v~~l 81 (89)
T cd00158 51 KPIVVYCRSGNRSARAAKLLRKAGGTNVYNL 81 (89)
T ss_pred CeEEEEeCCCchHHHHHHHHHHhCcccEEEe
Confidence 3678999998999999999999998887764
No 50
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=95.14 E-value=0.037 Score=38.78 Aligned_cols=27 Identities=11% Similarity=0.031 Sum_probs=24.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+||||+|+++++.|++.|.+.|...
T Consensus 431 rpVLIft~Si~~se~Ls~~L~~~gi~~ 457 (830)
T PRK12904 431 QPVLVGTVSIEKSELLSKLLKKAGIPH 457 (830)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCce
Confidence 469999999999999999999998654
No 51
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.10 E-value=0.028 Score=38.22 Aligned_cols=24 Identities=17% Similarity=0.516 Sum_probs=21.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++||||+|+.+|+++++.|++.+
T Consensus 396 g~iLVFlpg~~ei~~l~~~L~~~~ 419 (675)
T PHA02653 396 SSGIVFVASVSQCEEYKKYLEKRL 419 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHhhc
Confidence 479999999999999999999873
No 52
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=94.89 E-value=0.038 Score=38.36 Aligned_cols=27 Identities=11% Similarity=0.010 Sum_probs=24.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+||||+|+++++.|++.|.+.|...
T Consensus 406 rpvLV~t~si~~se~ls~~L~~~gi~~ 432 (745)
T TIGR00963 406 QPVLVGTTSVEKSELLSNLLKERGIPH 432 (745)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHcCCCe
Confidence 468999999999999999999998654
No 53
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=94.85 E-value=0.094 Score=25.04 Aligned_cols=31 Identities=13% Similarity=0.405 Sum_probs=27.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
...||+|++-..+..++..|.+.|....|++
T Consensus 57 ~~iv~~c~~g~~a~~~~~~l~~~G~~~v~~l 87 (100)
T smart00450 57 KPVVVYCRSGNRSAKAAWLLRELGFKNVYLL 87 (100)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHcCCCceEEe
Confidence 3689999999999999999999999876654
No 54
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=94.84 E-value=0.041 Score=38.44 Aligned_cols=28 Identities=11% Similarity=0.042 Sum_probs=25.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..+||||+|++.++.|++.|.+.|....
T Consensus 441 ~pvLI~t~si~~se~ls~~L~~~gi~~~ 468 (796)
T PRK12906 441 QPVLVGTVAIESSERLSHLLDEAGIPHA 468 (796)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCCee
Confidence 4799999999999999999999987643
No 55
>KOG0337|consensus
Probab=94.73 E-value=0.039 Score=37.30 Aligned_cols=31 Identities=13% Similarity=0.241 Sum_probs=28.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+|.||||.||+.++-+.+-|+..|.+-++.+
T Consensus 262 ~~t~vf~~tk~hve~~~~ll~~~g~~~s~iy 292 (529)
T KOG0337|consen 262 KQTIVFVATKHHVEYVRGLLRDFGGEGSDIY 292 (529)
T ss_pred cceeEEecccchHHHHHHHHHhcCCCccccc
Confidence 5899999999999999999999999877654
No 56
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=94.48 E-value=0.055 Score=38.90 Aligned_cols=28 Identities=14% Similarity=0.030 Sum_probs=24.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..+||||+|++.++.|++.|.+.|....
T Consensus 599 rpVLIft~Sve~sE~Ls~~L~~~gI~h~ 626 (1025)
T PRK12900 599 QPVLVGTASVEVSETLSRMLRAKRIAHN 626 (1025)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHcCCCce
Confidence 4799999999999999999999987643
No 57
>KOG0330|consensus
Probab=94.22 E-value=0.058 Score=36.17 Aligned_cols=26 Identities=19% Similarity=0.358 Sum_probs=23.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.+.||||||...++.++-.|+..|..
T Consensus 301 ~s~iVF~~t~~tt~~la~~L~~lg~~ 326 (476)
T KOG0330|consen 301 NSVIVFCNTCNTTRFLALLLRNLGFQ 326 (476)
T ss_pred CcEEEEEeccchHHHHHHHHHhcCcc
Confidence 36899999999999999999998865
No 58
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.93 E-value=0.073 Score=38.85 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=23.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+++|||++++.+++.+++.|++.|..
T Consensus 287 GdILVFLpg~~EIe~lae~L~~~~~~ 312 (1294)
T PRK11131 287 GDILIFMSGEREIRDTADALNKLNLR 312 (1294)
T ss_pred CCEEEEcCCHHHHHHHHHHHHhcCCC
Confidence 57899999999999999999988754
No 59
>KOG0326|consensus
Probab=93.92 E-value=0.056 Score=35.93 Aligned_cols=27 Identities=15% Similarity=0.493 Sum_probs=24.4
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+.|+|||||.-+.++-||+++.+.|..
T Consensus 322 INQsIIFCNS~~rVELLAkKITelGys 348 (459)
T KOG0326|consen 322 INQSIIFCNSTNRVELLAKKITELGYS 348 (459)
T ss_pred ccceEEEeccchHhHHHHHHHHhccch
Confidence 368999999999999999999998864
No 60
>KOG0351|consensus
Probab=93.80 E-value=0.051 Score=38.44 Aligned_cols=30 Identities=20% Similarity=0.724 Sum_probs=27.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+..||.|.+|.+||.++..|++.|...++|
T Consensus 486 ~s~IIYC~sr~~ce~vs~~L~~~~~~a~~Y 515 (941)
T KOG0351|consen 486 QSGIIYCLSRKECEQVSAVLRSLGKSAAFY 515 (941)
T ss_pred CCeEEEeCCcchHHHHHHHHHHhchhhHhh
Confidence 468999999999999999999999888777
No 61
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=93.66 E-value=0.095 Score=37.16 Aligned_cols=27 Identities=11% Similarity=0.052 Sum_probs=24.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+||||+|++.++.|++.|.+.|...
T Consensus 445 ~PVLVgt~Sie~sE~ls~~L~~~gi~h 471 (896)
T PRK13104 445 QPVLVGTVSIEASEFLSQLLKKENIKH 471 (896)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHcCCCe
Confidence 358999999999999999999998754
No 62
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=93.41 E-value=0.26 Score=24.61 Aligned_cols=30 Identities=13% Similarity=0.192 Sum_probs=25.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..||.|++-..+...+..|.+.|....|+.
T Consensus 58 ~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l 87 (96)
T cd01529 58 RYVLTCDGSLLARFAAQELLALGGKPVALL 87 (96)
T ss_pred CEEEEeCChHHHHHHHHHHHHcCCCCEEEe
Confidence 579999999999999999999999766653
No 63
>COG4718 Phage-related protein [Function unknown]
Probab=93.11 E-value=0.19 Score=28.28 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=27.8
Q ss_pred EEEEecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
.+.|.-+|++...|-++|.++|+-+++|.|
T Consensus 47 ~vt~~~~~~~~~~l~aFL~rHgg~ksFlWT 76 (111)
T COG4718 47 SVTFRVTKEEIRPLEAFLSRHGGVKAFLWT 76 (111)
T ss_pred EEEEEeeHHHhhhHHHHHHhcCcEEEEEec
Confidence 478999999999999999999999999976
No 64
>COG1204 Superfamily II helicase [General function prediction only]
Probab=93.09 E-value=0.11 Score=35.79 Aligned_cols=22 Identities=14% Similarity=0.410 Sum_probs=20.6
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
+|+||||++|..+...|.+|..
T Consensus 254 ~qvLvFv~sR~~a~~~A~~l~~ 275 (766)
T COG1204 254 GQVLVFVHSRKEAEKTAKKLRI 275 (766)
T ss_pred CeEEEEEecCchHHHHHHHHHH
Confidence 5899999999999999999984
No 65
>cd01527 RHOD_YgaP Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases.
Probab=92.98 E-value=0.31 Score=24.35 Aligned_cols=31 Identities=16% Similarity=0.357 Sum_probs=25.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+.++++|++-..+...+..|.+.|....|++
T Consensus 55 ~~iv~~c~~g~~s~~~~~~L~~~g~~~v~~l 85 (99)
T cd01527 55 NAIIFHCRSGMRTQQNAERLAAISAGEAYVL 85 (99)
T ss_pred CcEEEEeCCCchHHHHHHHHHHcCCccEEEe
Confidence 3678999998889999999999998766643
No 66
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=92.88 E-value=0.13 Score=35.56 Aligned_cols=22 Identities=18% Similarity=0.211 Sum_probs=20.7
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++|||++++.+++.+++.|++
T Consensus 213 g~iLVFlpg~~ei~~l~~~L~~ 234 (812)
T PRK11664 213 GSLLLFLPGVGEIQRVQEQLAS 234 (812)
T ss_pred CCEEEEcCCHHHHHHHHHHHHH
Confidence 4789999999999999999997
No 67
>PRK10689 transcription-repair coupling factor; Provisional
Probab=92.85 E-value=0.23 Score=35.65 Aligned_cols=23 Identities=4% Similarity=0.078 Sum_probs=21.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.|++||||+++.++.+++.|++.
T Consensus 810 gqv~vf~n~i~~ie~la~~L~~~ 832 (1147)
T PRK10689 810 GQVYYLYNDVENIQKAAERLAEL 832 (1147)
T ss_pred CeEEEEECCHHHHHHHHHHHHHh
Confidence 48999999999999999999987
No 68
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=92.67 E-value=0.17 Score=34.54 Aligned_cols=27 Identities=15% Similarity=0.413 Sum_probs=24.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+++|||++-++.|+.|+++|.+.|...
T Consensus 367 ~RvIVFT~yRdTae~i~~~L~~~~~~~ 393 (542)
T COG1111 367 SRVIVFTEYRDTAEEIVNFLKKIGIKA 393 (542)
T ss_pred ceEEEEehhHhHHHHHHHHHHhcCCcc
Confidence 589999999999999999999988754
No 69
>KOG0354|consensus
Probab=92.65 E-value=0.14 Score=35.90 Aligned_cols=22 Identities=27% Similarity=0.490 Sum_probs=20.4
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++||||+||+.|+.|-.+|.+
T Consensus 414 sR~IIFve~R~sa~~l~~~l~~ 435 (746)
T KOG0354|consen 414 SRTIIFVETRESALALKKWLLQ 435 (746)
T ss_pred ccEEEEEehHHHHHHHHHHHHh
Confidence 5899999999999999999984
No 70
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=92.58 E-value=0.32 Score=24.37 Aligned_cols=30 Identities=10% Similarity=0.248 Sum_probs=25.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+..+|.|++=..+...+..|++.|.. .|+.
T Consensus 62 ~~ivv~C~~G~rs~~aa~~L~~~G~~-~~~l 91 (100)
T cd01523 62 QEVTVICAKEGSSQFVAELLAERGYD-VDYL 91 (100)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHcCce-eEEe
Confidence 35789999988999999999999998 6654
No 71
>cd01447 Polysulfide_ST Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.
Probab=92.54 E-value=0.2 Score=24.81 Aligned_cols=30 Identities=10% Similarity=0.303 Sum_probs=25.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..+|+|++-..+.+.+..|+..|...++++
T Consensus 63 ~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l 92 (103)
T cd01447 63 PFVFYCASGWRSALAGKTLQDMGLKPVYNI 92 (103)
T ss_pred eEEEEcCCCCcHHHHHHHHHHcChHHhEee
Confidence 578999988889999999999998766553
No 72
>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily. This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.
Probab=92.10 E-value=0.4 Score=24.00 Aligned_cols=29 Identities=7% Similarity=0.235 Sum_probs=25.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.+||+|++-..+...+..|...|....|.
T Consensus 68 ~ivv~c~~g~~s~~~~~~l~~~G~~~v~~ 96 (106)
T cd01519 68 ELIFYCKAGVRSKAAAELARSLGYENVGN 96 (106)
T ss_pred eEEEECCCcHHHHHHHHHHHHcCCcccee
Confidence 68999999999999999999999876553
No 73
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=92.00 E-value=0.21 Score=34.68 Aligned_cols=22 Identities=14% Similarity=0.270 Sum_probs=20.6
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++|||++++.+++.+++.|++
T Consensus 210 g~iLVFlpg~~eI~~l~~~L~~ 231 (819)
T TIGR01970 210 GSILVFLPGQAEIRRVQEQLAE 231 (819)
T ss_pred CcEEEEECCHHHHHHHHHHHHh
Confidence 4799999999999999999987
No 74
>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily. This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.
Probab=91.97 E-value=0.34 Score=25.43 Aligned_cols=31 Identities=19% Similarity=0.340 Sum_probs=26.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC-ceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR-RLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~-~~~~~~ 32 (33)
+..+|+|++-..+...+..|++.|. ...+++
T Consensus 73 ~~ivv~C~~G~rs~~aa~~L~~~G~~~~v~~l 104 (122)
T cd01526 73 SPIYVVCRRGNDSQTAVRKLKELGLERFVRDI 104 (122)
T ss_pred CcEEEECCCCCcHHHHHHHHHHcCCccceeee
Confidence 3578999998999999999999999 555554
No 75
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=91.59 E-value=0.52 Score=24.06 Aligned_cols=31 Identities=10% Similarity=0.274 Sum_probs=25.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+..||+|++-..+.+++..|+..|....|.+
T Consensus 79 ~~iv~yc~~g~~s~~~~~~l~~~G~~~v~~l 109 (118)
T cd01449 79 KPVIVYCGSGVTACVLLLALELLGYKNVRLY 109 (118)
T ss_pred CCEEEECCcHHHHHHHHHHHHHcCCCCeeee
Confidence 3679999998899999999999998765543
No 76
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=91.24 E-value=0.71 Score=23.19 Aligned_cols=30 Identities=10% Similarity=0.243 Sum_probs=26.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
.++|+|++-..+...+..|.+.|....|++
T Consensus 60 ~vv~~c~~g~rs~~~~~~l~~~G~~~v~~l 89 (101)
T cd01528 60 DIVVLCHHGGRSMQVAQWLLRQGFENVYNL 89 (101)
T ss_pred eEEEEeCCCchHHHHHHHHHHcCCccEEEe
Confidence 678999999999999999999999766654
No 77
>KOG0340|consensus
Probab=91.21 E-value=0.31 Score=32.54 Aligned_cols=27 Identities=26% Similarity=0.519 Sum_probs=23.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.+++||+||...|+.|+.-|+..+.+.
T Consensus 255 ~simIFvnttr~cQ~l~~~l~~le~r~ 281 (442)
T KOG0340|consen 255 GSIMIFVNTTRECQLLSMTLKNLEVRV 281 (442)
T ss_pred ceEEEEeehhHHHHHHHHHHhhhceee
Confidence 479999999999999999998876553
No 78
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=91.20 E-value=0.26 Score=35.16 Aligned_cols=27 Identities=7% Similarity=0.262 Sum_probs=23.1
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+.++||||.+..+|+++.+.|++.--+
T Consensus 426 ~~KTIvFa~n~dHAe~i~~~~~~~ype 452 (875)
T COG4096 426 IGKTIVFAKNHDHAERIREALVNEYPE 452 (875)
T ss_pred cCceEEEeeCcHHHHHHHHHHHHhCcc
Confidence 357999999999999999999876543
No 79
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=91.09 E-value=0.41 Score=34.19 Aligned_cols=27 Identities=11% Similarity=-0.012 Sum_probs=24.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+||||+|.+.++.|++.|.+.|...
T Consensus 450 rpVLV~t~sv~~se~ls~~L~~~gi~~ 476 (908)
T PRK13107 450 QPVLVGTVSIEQSELLARLMVKEKIPH 476 (908)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHCCCCe
Confidence 368999999999999999999988654
No 80
>PF10740 DUF2529: Protein of unknown function (DUF2529); InterPro: IPR019676 This entry represents a protein family conserved in the Bacillales. Their function is not known. ; PDB: 3JX9_A.
Probab=91.07 E-value=0.4 Score=28.51 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=20.1
Q ss_pred ceEEEEecchh--hHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKL--DCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~--~ad~La~~L~~~G~~~~ 29 (33)
+++++|++-.. ++.++++.|..+|..+.
T Consensus 83 DRVllfs~~~~~~e~~~~a~~L~~~gi~~v 112 (172)
T PF10740_consen 83 DRVLLFSPFSTDEEAVALAKQLIEQGIPFV 112 (172)
T ss_dssp -EEEEEES-S--HHHHHHHHHHHHHT--EE
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHCCCCEE
Confidence 68999998655 57889999999998764
No 81
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=90.96 E-value=0.75 Score=22.52 Aligned_cols=30 Identities=10% Similarity=0.186 Sum_probs=26.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..||.|++-..+...+..|++.|..-.|+.
T Consensus 58 ~ivv~c~~g~~s~~a~~~l~~~G~~~v~~l 87 (96)
T cd01444 58 PVVVYCYHGNSSAQLAQALREAGFTDVRSL 87 (96)
T ss_pred CEEEEeCCCChHHHHHHHHHHcCCceEEEc
Confidence 578999999999999999999998776653
No 82
>cd01532 4RHOD_Repeat_1 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative catalytic Cys residue.
Probab=90.82 E-value=0.86 Score=22.79 Aligned_cols=29 Identities=7% Similarity=0.043 Sum_probs=23.8
Q ss_pred eEEEEecc--hhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRT--KLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nT--K~~ad~La~~L~~~G~~~~~~ 31 (33)
..||+|.+ +..+...+..|.+.|....|+
T Consensus 52 ~ivl~c~~G~~~~s~~aa~~L~~~G~~~v~~ 82 (92)
T cd01532 52 PIVVYGEGGGEDLAPRAARRLSELGYTDVAL 82 (92)
T ss_pred eEEEEeCCCCchHHHHHHHHHHHcCccCEEE
Confidence 67899998 455789999999999887665
No 83
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=90.66 E-value=0.67 Score=23.91 Aligned_cols=30 Identities=3% Similarity=-0.032 Sum_probs=25.6
Q ss_pred eEEEEecc-hhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRT-KLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nT-K~~ad~La~~L~~~G~~~~~~~ 32 (33)
.+|++|++ -..+...+..|+..|....|++
T Consensus 81 ~vv~~c~~g~~~a~~~~~~l~~~G~~~v~~l 111 (122)
T cd01448 81 TVVVYDDGGGFFAARAWWTLRYFGHENVRVL 111 (122)
T ss_pred EEEEECCCCCccHHHHHHHHHHcCCCCEEEe
Confidence 58999999 5899999999999998876654
No 84
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=90.64 E-value=0.36 Score=34.65 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=20.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++||||++++.|+.+++.|++.
T Consensus 699 ~KtiIF~~s~~HA~~i~~~L~~~ 721 (1123)
T PRK11448 699 GKTLIFAATDAHADMVVRLLKEA 721 (1123)
T ss_pred CcEEEEEcCHHHHHHHHHHHHHH
Confidence 47999999999999999998764
No 85
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=90.51 E-value=0.83 Score=22.55 Aligned_cols=29 Identities=14% Similarity=0.187 Sum_probs=24.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+..|++|++-..+...+..|++.|. ..+.
T Consensus 52 ~~vvl~c~~g~~a~~~a~~L~~~G~-~v~~ 80 (90)
T cd01524 52 KEIIVYCAVGLRGYIAARILTQNGF-KVKN 80 (90)
T ss_pred CcEEEEcCCChhHHHHHHHHHHCCC-CEEE
Confidence 3678999998889999999999998 4443
No 86
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=90.33 E-value=0.88 Score=22.68 Aligned_cols=29 Identities=14% Similarity=0.298 Sum_probs=25.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..|++|.+=..+...+..|+..|.. .|++
T Consensus 58 ~iv~~c~~G~rs~~aa~~L~~~G~~-v~~l 86 (95)
T cd01534 58 RIVLADDDGVRADMTASWLAQMGWE-VYVL 86 (95)
T ss_pred eEEEECCCCChHHHHHHHHHHcCCE-EEEe
Confidence 6899999988889999999999998 6654
No 87
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=90.32 E-value=0.36 Score=35.35 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=22.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++|||++++.+++.+++.|++.+.
T Consensus 280 GdILVFLpg~~EI~~l~~~L~~~~~ 304 (1283)
T TIGR01967 280 GDILIFLPGEREIRDAAEILRKRNL 304 (1283)
T ss_pred CCEEEeCCCHHHHHHHHHHHHhcCC
Confidence 5789999999999999999998764
No 88
>PHA02558 uvsW UvsW helicase; Provisional
Probab=90.09 E-value=0.63 Score=29.98 Aligned_cols=27 Identities=7% Similarity=0.183 Sum_probs=22.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.+.||||++.+.|+.|++.|++.|...
T Consensus 345 ~~~lV~~~~~~h~~~L~~~L~~~g~~v 371 (501)
T PHA02558 345 ENTFVMFKYVEHGKPLYEMLKKVYDKV 371 (501)
T ss_pred CCEEEEEEEHHHHHHHHHHHHHcCCCE
Confidence 367888888889999999999988743
No 89
>PF02617 ClpS: ATP-dependent Clp protease adaptor protein ClpS; InterPro: IPR003769 In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP. ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins []. ClpS is a small alpha/beta protein that consists of three alpha-helices connected to three antiparallel beta-strands []. The protein has a globular shape, with a curved layer of three antiparallel alpha-helices over a twisted antiparallel beta-sheet. Dimerization of ClpS may occur through its N-terminal domain. This short extended N-terminal region in ClpS is followed by the central seven-residue beta-strand, which is flanked by two other beta-strands in a small beta-sheet. ; GO: 0030163 protein catabolic process; PDB: 3O2O_B 1MBU_D 3O2B_C 2WA9_D 3O1F_A 2W9R_A 1MG9_A 1MBX_C 2WA8_C 1R6O_D ....
Probab=90.00 E-value=0.38 Score=24.41 Aligned_cols=24 Identities=13% Similarity=0.220 Sum_probs=22.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++++|++-+++.|+..++.|.+.|
T Consensus 48 G~avv~~~~~e~ae~~~~~l~~~g 71 (82)
T PF02617_consen 48 GRAVVGTGSREEAEEYAEKLQRAG 71 (82)
T ss_dssp SEEEEEEEEHHHHHHHHHHHHHHH
T ss_pred CCEeeeeCCHHHHHHHHHHHHHHh
Confidence 478999999999999999999887
No 90
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=89.95 E-value=0.94 Score=22.75 Aligned_cols=29 Identities=21% Similarity=0.639 Sum_probs=25.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
..||.|++=..+...+..|.+.|....|.
T Consensus 63 ~ivvyC~~G~rs~~a~~~L~~~G~~~v~~ 91 (101)
T cd01518 63 KVLMYCTGGIRCEKASAYLKERGFKNVYQ 91 (101)
T ss_pred EEEEECCCchhHHHHHHHHHHhCCcceee
Confidence 57999999889999999999999876654
No 91
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=89.53 E-value=1.1 Score=22.30 Aligned_cols=29 Identities=7% Similarity=0.062 Sum_probs=24.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++|.|++-..+...+..|...|....|.
T Consensus 67 ~vv~~c~~g~~s~~~a~~L~~~G~~~v~~ 95 (105)
T cd01525 67 IIVIVSHSHKHAALFAAFLVKCGVPRVCI 95 (105)
T ss_pred eEEEEeCCCccHHHHHHHHHHcCCCCEEE
Confidence 57889998888999999999999986664
No 92
>PF00849 PseudoU_synth_2: RNA pseudouridylate synthase This Prosite family is a subset of the Pfam family. This Prosite family is a subset of the Pfam family.; InterPro: IPR006145 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents several different pseudouridine synthases from family 3, including: RsuA (acts on small ribosomal subunit), RluA, RluB, RluC, RluD, RluE and RluF (act on large ribosomal subunit). RsuA from Escherichia coli catalyses formation of pseudouridine at position 516 in 16S rRNA during assembly of the 30S ribosomal subunit [, ]. RsuA consists of an N-terminal domain connected by an extended linker to the central and C-terminal domains. Uracil and UMP bind in a cleft between the central and C-terminal domains near the catalytic residue Asp 102. The N-terminal domain shows structural similarity to the ribosomal protein S4. Despite only 15% amino acid identity, the other two domains are structurally similar to those of the tRNA-specific psi-synthase TruA, including the position of the catalytic Asp. Our results suggest that all four families of pseudouridine synthases share the same fold of their catalytic domain(s) and uracil-binding site. RluB, RluC, RluD, RluE and RluF are homologous enzymes which each convert specific uridine bases in E. coli ribosomal 23S RNA to pseudouridine: RluB modifies uracil-2605. RluC modifies uracil-955, U-2504, and U-2580. RluD modifies uracil-1911, U-1915, and U-1917. RluE modifies uracil-3457. RluF modifies uracil-2604, and to a lesser extent U-2605. RluD also possesses a second function related to proper assembly of the 50S ribosomal subunit that is independent of Psi-synthesis [, ]. Both RluC and RluD have an N-terminal S4 RNA binding domain. Despite the conserved topology shared by RluC and RluD, the surface shape and charge distribution are very different. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 2GML_A 3DH3_B 1VIO_A 2I82_B 1XPI_B 1V9K_B 1PRZ_A 1V9F_A 2IST_A 1QYU_A ....
Probab=89.33 E-value=1.1 Score=24.03 Aligned_cols=29 Identities=17% Similarity=0.276 Sum_probs=26.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.++.|.+.+...+.++.|.
T Consensus 53 Glll~a~~~~~~~~l~~~f~~~~~~K~Y~ 81 (164)
T PF00849_consen 53 GLLLFAKDKEAAAKLSKQFPKRKVEKTYL 81 (164)
T ss_dssp EEEEEESSHHHHHHHHHHHHTTCSEEEEE
T ss_pred CCeeccCCcccccccccccccCCCcEEEE
Confidence 47999999999999999999999998885
No 93
>KOG0347|consensus
Probab=89.32 E-value=0.5 Score=33.16 Aligned_cols=26 Identities=31% Similarity=0.483 Sum_probs=23.4
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
|.++|||||.=+.+.+|+-.|+..+.
T Consensus 463 PGrTlVF~NsId~vKRLt~~L~~L~i 488 (731)
T KOG0347|consen 463 PGRTLVFCNSIDCVKRLTVLLNNLDI 488 (731)
T ss_pred CCceEEEechHHHHHHHHHHHhhcCC
Confidence 57899999999999999999987764
No 94
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=89.27 E-value=0.53 Score=33.21 Aligned_cols=23 Identities=9% Similarity=0.137 Sum_probs=21.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.|++||||+++.++.+++.|++.
T Consensus 661 ~qv~if~n~i~~~e~l~~~L~~~ 683 (926)
T TIGR00580 661 GQVFYVHNRIESIEKLATQLREL 683 (926)
T ss_pred CeEEEEECCcHHHHHHHHHHHHh
Confidence 48999999999999999999985
No 95
>cd02557 PseudoU_synth_ScRIB2 PseudoU_synth_ScRIB2_like: Pseudouridine synthase, Saccharomyces cerevisiae RIB2_like. This group is comprised of eukaryotic and bacterial proteins similar to Saccharomyces cerevisiae RIB2, S. cerevisiae Pus6p and human hRPUDSD2. S. cerevisiae RIB2 displays two distinct catalytic activities. The N-terminal domain of RIB2 is RNA:psi-synthase which makes psi32 on cytoplasmic tRNAs. Psi32 is highly phylogenetically conserved. The C-terminal domain of RIB2 has a DRAP deaminase activity which catalyses the formation of 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione 5'-phosphate from 2,5-diamino-6-ribitylamino-4(3H)-pyrimidinone 5'-phosphate during riboflavin biosynthesis. S. cerevisiae Pus6p makes the psi31 of cytoplasmic and mitochondrial tRNAs.
Probab=88.86 E-value=1.1 Score=25.99 Aligned_cols=29 Identities=21% Similarity=0.368 Sum_probs=26.7
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|+|+++++-+.+|.+.+++...++.|.
T Consensus 72 Gllllak~~~~~~~l~~~f~~~~v~K~Y~ 100 (213)
T cd02557 72 GLLLFAKTSQTASRLQQQIRSREVKKEYL 100 (213)
T ss_pred eEEEEECCHHHHHHHHHHHHcCCccEEEE
Confidence 47999999999999999999999999885
No 96
>TIGR01621 RluA-like pseudouridine synthase Rlu family protein, TIGR01621. This model represents a clade of sequences within the pseudouridine synthase superfamily (pfam00849). The superfamily includes E. coli proteins: RluA, RluB, RluC, RluD, and RsuA. The sequences modeled here are most closely related to RluA. Neisseria, among those species hitting this model, does not appear to have an RluA homolog. It is presumed that these sequences function as pseudouridine synthases, although perhaps with different specificity.
Probab=88.12 E-value=1.1 Score=26.21 Aligned_cols=29 Identities=10% Similarity=0.114 Sum_probs=26.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.+..|.+.+++...++.|.
T Consensus 56 Glll~Ak~~~~~~~L~~~~~~~~v~K~Yl 84 (217)
T TIGR01621 56 GILLLALNAESASELSQGFAKRKIEKTYL 84 (217)
T ss_pred eEEEEEcCHHHHHHHHHHHhcCCccEEEE
Confidence 47999999999999999999999998885
No 97
>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.
Probab=87.86 E-value=1.8 Score=22.23 Aligned_cols=30 Identities=7% Similarity=0.124 Sum_probs=23.7
Q ss_pred ceEEEEecch--hhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTK--LDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK--~~ad~La~~L~~~G~~~~~~~ 32 (33)
..+||+|++- ..+..++..|++.|.. .|++
T Consensus 65 ~~vvvyc~~g~~~~s~~~a~~l~~~G~~-v~~l 96 (110)
T cd01521 65 KLFVVYCDGPGCNGATKAALKLAELGFP-VKEM 96 (110)
T ss_pred CeEEEEECCCCCchHHHHHHHHHHcCCe-EEEe
Confidence 3578999876 4789999999999996 5543
No 98
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=87.71 E-value=1.5 Score=21.14 Aligned_cols=23 Identities=13% Similarity=0.323 Sum_probs=20.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++++|.++.+++++.+.|++.+
T Consensus 61 ~v~~l~~~~~~~~~v~~~l~~~~ 83 (85)
T PF08544_consen 61 TVFALCKDEDDAERVAEALREHY 83 (85)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHT
T ss_pred eEEEEECCHHHHHHHHHHHHHhC
Confidence 47889999999999999998865
No 99
>cd02869 PseudoU_synth_RluCD_like PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Probab=87.69 E-value=1.3 Score=24.17 Aligned_cols=30 Identities=13% Similarity=0.255 Sum_probs=26.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+-+|+|+++++.+..+.+.+++....+.|.
T Consensus 51 sGlll~ak~~~~~~~l~~~~~~~~~~K~Y~ 80 (185)
T cd02869 51 SGLLLVAKNKKAAAKLSKQFKERKVKKTYL 80 (185)
T ss_pred ceEEEEEcCHHHHHHHHHHHhcCceeEEEE
Confidence 357999999999999999999988888885
No 100
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=87.46 E-value=1.2 Score=22.16 Aligned_cols=22 Identities=36% Similarity=0.721 Sum_probs=19.9
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
+.++|.|++.++++++.++|++
T Consensus 48 DTilvi~~~~~~a~~l~~~l~~ 69 (70)
T PF02863_consen 48 DTILVICRSEEDAEELEEKLKE 69 (70)
T ss_dssp SEEEEEESTTSHHHHHHHHHHT
T ss_pred CEEEEEeCCHHHHHHHHHHHHh
Confidence 4689999999999999999975
No 101
>PRK10158 23S rRNA/tRNA pseudouridine synthase A; Provisional
Probab=87.38 E-value=1.6 Score=25.48 Aligned_cols=29 Identities=17% Similarity=0.240 Sum_probs=26.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+.|++.+..+.+.+++....+.|.
T Consensus 69 Glll~Akt~~~~~~l~~~f~~~~v~K~Yl 97 (219)
T PRK10158 69 GVIVVALTKAAERELKRQFREREPKKQYV 97 (219)
T ss_pred eEEEEECCHHHHHHHHHHHHhCCccEEEE
Confidence 47899999999999999999988888885
No 102
>PRK11112 tRNA pseudouridine synthase C; Provisional
Probab=87.20 E-value=1.6 Score=26.11 Aligned_cols=29 Identities=10% Similarity=0.077 Sum_probs=26.7
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.+..|.+.+++....+.|.
T Consensus 59 Glll~Ak~~~~~~~L~~~f~~~~v~K~Y~ 87 (257)
T PRK11112 59 GVLLMALSSEVARLLAQQFEQHQIQKTYH 87 (257)
T ss_pred eEEEEECCHHHHHHHHHHHHhCCcceEEE
Confidence 47999999999999999999999999885
No 103
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=86.84 E-value=1.2 Score=31.14 Aligned_cols=30 Identities=27% Similarity=0.481 Sum_probs=27.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+++||=+-||.-|+.|+++|...|....|-
T Consensus 447 eRvLVTtLTKkmAEdLT~Yl~e~gikv~Yl 476 (663)
T COG0556 447 ERVLVTTLTKKMAEDLTEYLKELGIKVRYL 476 (663)
T ss_pred CeEEEEeehHHHHHHHHHHHHhcCceEEee
Confidence 589999999999999999999999988874
No 104
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=86.60 E-value=1.9 Score=21.90 Aligned_cols=29 Identities=7% Similarity=-0.070 Sum_probs=24.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce-eee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL-IYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~-~~~ 31 (33)
..+|+|++-..+...+..|++.|... .|+
T Consensus 68 ~ivv~C~~G~rs~~a~~~L~~~G~~~~v~~ 97 (109)
T cd01533 68 PIVVNCAGRTRSIIGAQSLINAGLPNPVAA 97 (109)
T ss_pred eEEEECCCCchHHHHHHHHHHCCCCcceeE
Confidence 57999999888888999999999864 554
No 105
>KOG4284|consensus
Probab=86.35 E-value=0.18 Score=36.11 Aligned_cols=27 Identities=22% Similarity=0.360 Sum_probs=24.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.||||||+.--.|+.++..|...|..-
T Consensus 273 ~QAlVF~~~~sra~~~a~~L~ssG~d~ 299 (980)
T KOG4284|consen 273 VQALVFCDQISRAEPIATHLKSSGLDV 299 (980)
T ss_pred HHHHhhhhhhhhhhHHHHHhhccCCCe
Confidence 589999999999999999999998754
No 106
>PRK10287 thiosulfate:cyanide sulfurtransferase; Provisional
Probab=85.54 E-value=2.8 Score=22.20 Aligned_cols=28 Identities=7% Similarity=0.199 Sum_probs=24.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
..|++|++-..+...+..|.+.|....+
T Consensus 62 ~IVlyC~~G~rS~~aa~~L~~~G~~~v~ 89 (104)
T PRK10287 62 TVKLYCNAGRQSGQAKEILSEMGYTHAE 89 (104)
T ss_pred eEEEEeCCChHHHHHHHHHHHcCCCeEE
Confidence 4799999999999999999999987554
No 107
>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.
Probab=85.22 E-value=2.1 Score=22.36 Aligned_cols=28 Identities=14% Similarity=0.202 Sum_probs=24.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.+||+|++-..+...+..|++.|....+
T Consensus 66 ~ivv~C~~G~rs~~aa~~L~~~G~~~v~ 93 (117)
T cd01522 66 PVLLLCRSGNRSIAAAEAAAQAGFTNVY 93 (117)
T ss_pred eEEEEcCCCccHHHHHHHHHHCCCCeEE
Confidence 5789999989999999999999987665
No 108
>cd02563 PseudoU_synth_TruC tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not universally conserved.
Probab=85.13 E-value=1.7 Score=25.27 Aligned_cols=29 Identities=14% Similarity=0.162 Sum_probs=26.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.+..|.+.+++...++.|-
T Consensus 58 Glll~Ak~~~~~~~l~~~f~~~~v~K~Y~ 86 (223)
T cd02563 58 GVLLFALSSEVARKLGEQFTEHRVHKTYL 86 (223)
T ss_pred EEEEEEECHHHHHHHHHHHhcCceeEEEE
Confidence 47999999999999999999988888874
No 109
>KOG0950|consensus
Probab=84.66 E-value=0.89 Score=33.04 Aligned_cols=21 Identities=29% Similarity=0.819 Sum_probs=18.4
Q ss_pred eEEEEecchhhHHHHHHHHHh
Q psy8719 3 RALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~ 23 (33)
++||||..|..|+.+|..+..
T Consensus 462 ~~lvfc~sk~~ce~~a~~~~~ 482 (1008)
T KOG0950|consen 462 SVLVFCPSKKNCENVASLIAK 482 (1008)
T ss_pred eEEEEcCcccchHHHHHHHHH
Confidence 699999999999999976644
No 110
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.
Probab=83.89 E-value=2.8 Score=24.93 Aligned_cols=29 Identities=7% Similarity=0.114 Sum_probs=26.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.+..+...+++....+.|.
T Consensus 95 Glll~Ak~~~~~~~l~~~~~~~~v~K~Yl 123 (246)
T cd02558 95 GLVLFSKRPETRGAYQTLFARREVSKTYE 123 (246)
T ss_pred eEEEEEcCHHHHHHHHHHHHcCCccEEEE
Confidence 47999999999999999999988888885
No 111
>KOG0334|consensus
Probab=83.59 E-value=1.5 Score=31.85 Aligned_cols=25 Identities=24% Similarity=0.355 Sum_probs=22.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||||...+.||.+.+.|.+.|.
T Consensus 614 ~~tiiFv~~qe~~d~l~~~L~~ag~ 638 (997)
T KOG0334|consen 614 GKTIIFVDKQEKADALLRDLQKAGY 638 (997)
T ss_pred CCEEEEEcCchHHHHHHHHHHhcCc
Confidence 4789999999999999999998874
No 112
>KOG0353|consensus
Probab=83.02 E-value=1.2 Score=30.62 Aligned_cols=27 Identities=19% Similarity=0.555 Sum_probs=24.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
++.||+|-.+.+|+.|+..|+.+|..-
T Consensus 318 qsgiiyc~sq~d~ekva~alkn~gi~a 344 (695)
T KOG0353|consen 318 QSGIIYCFSQKDCEKVAKALKNHGIHA 344 (695)
T ss_pred CcceEEEeccccHHHHHHHHHhcCccc
Confidence 468999999999999999999999653
No 113
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=82.72 E-value=2.3 Score=24.88 Aligned_cols=27 Identities=19% Similarity=0.206 Sum_probs=24.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.-|+.+|.+.+++++++.|++.|.+-.
T Consensus 4 ~~vlvTRp~~~~~~l~~~l~~~G~~~~ 30 (255)
T PRK05752 4 WRLLLTRPAEECAALAASLAEAGIFSS 30 (255)
T ss_pred CEEEECCcHHHHHHHHHHHHHcCCCEE
Confidence 468899999999999999999998753
No 114
>PRK09271 flavodoxin; Provisional
Probab=82.49 E-value=3.6 Score=22.69 Aligned_cols=27 Identities=11% Similarity=0.156 Sum_probs=21.6
Q ss_pred ceEEEEe----cchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFC----RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~----nTK~~ad~La~~L~~~G~~~ 28 (33)
+-+|||. ||+.-|+.|++.|+..|.+.
T Consensus 2 kv~IvY~S~tGnTe~~A~~ia~~l~~~g~~v 32 (160)
T PRK09271 2 RILLAYASLSGNTREVAREIEERCEEAGHEV 32 (160)
T ss_pred eEEEEEEcCCchHHHHHHHHHHHHHhCCCee
Confidence 3456665 88999999999999988764
No 115
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=82.39 E-value=3.4 Score=25.36 Aligned_cols=29 Identities=14% Similarity=0.186 Sum_probs=26.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||++++..+..+.+.+++...++.|.
T Consensus 149 Glll~Ak~~~a~~~l~~~~~~~~v~K~Y~ 177 (317)
T PRK11025 149 GVLLVAKKRSALRSLHEQLREKGMQKDYL 177 (317)
T ss_pred eEEEEEcCHHHHHHHHHHHHhCCccEEEE
Confidence 47999999999999999999988999885
No 116
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=82.28 E-value=3.4 Score=25.39 Aligned_cols=29 Identities=14% Similarity=0.072 Sum_probs=26.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||++++..+..+.+.+.+...++.|.
T Consensus 144 Glll~Ak~~~~~~~l~~~~~~~~v~K~Y~ 172 (325)
T PRK11180 144 GLMVVAKTVPAQTRLVEALQKREITREYE 172 (325)
T ss_pred eeEEEECCHHHHHHHHHHHHhCCcceEEE
Confidence 47999999999999999999999999885
No 117
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=82.26 E-value=2.7 Score=25.31 Aligned_cols=27 Identities=26% Similarity=0.249 Sum_probs=24.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
+-|+.+|.+++++.+++.|++.|.+-.
T Consensus 19 ~~IlvTRp~~q~~~l~~~L~~~G~~~~ 45 (266)
T PRK08811 19 WTLISLRPSGEHAPLRRAVARHGGRLL 45 (266)
T ss_pred CEEEEeCCHHHHHHHHHHHHHCCCcEE
Confidence 468899999999999999999998753
No 118
>KOG0338|consensus
Probab=82.25 E-value=1.7 Score=30.48 Aligned_cols=24 Identities=33% Similarity=0.563 Sum_probs=19.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
+++|||++||.+|.++--.|--.|
T Consensus 427 ~~~ivFv~tKk~AHRl~IllGLlg 450 (691)
T KOG0338|consen 427 DRTIVFVRTKKQAHRLRILLGLLG 450 (691)
T ss_pred cceEEEEehHHHHHHHHHHHHHhh
Confidence 579999999999999876664443
No 119
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=82.13 E-value=3.6 Score=24.58 Aligned_cols=29 Identities=21% Similarity=0.270 Sum_probs=26.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-+|||+++++.+..+.+.+.+....+.|.
T Consensus 132 Glll~ak~~~~~~~l~~~~~~~~v~K~Y~ 160 (299)
T TIGR00005 132 GLMVVAKTPLALRELQRQLKNRTVTKEYV 160 (299)
T ss_pred eEEEEEcCHHHHHHHHHHHHhCCcceEEE
Confidence 47999999999999999999998998886
No 120
>PLN02160 thiosulfate sulfurtransferase
Probab=81.78 E-value=3.9 Score=22.28 Aligned_cols=29 Identities=10% Similarity=0.075 Sum_probs=25.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
..|++|++=..+...+..|.+.|....|.
T Consensus 83 ~IivyC~sG~RS~~Aa~~L~~~G~~~v~~ 111 (136)
T PLN02160 83 DILVGCQSGARSLKATTELVAAGYKKVRN 111 (136)
T ss_pred cEEEECCCcHHHHHHHHHHHHcCCCCeee
Confidence 57999999999999999999999876654
No 121
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=81.68 E-value=3.5 Score=25.44 Aligned_cols=30 Identities=10% Similarity=0.217 Sum_probs=27.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+-+|||+.|+.....|.+.+++....+.|+
T Consensus 135 SGlll~AK~~~a~~~l~~~f~~r~v~K~Y~ 164 (289)
T COG0564 135 SGLLLVAKNREAARELSEQFKQRKVKKTYL 164 (289)
T ss_pred ceEEEEECCHHHHHHHHHHHhcCcCcEEEE
Confidence 357999999999999999999998899887
No 122
>TIGR01754 flav_RNR ribonucleotide reductase-associated flavodoxin, putative. This model represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulfate-reducing genus Desulfovibrio than like the NifF flavodoxins associated with nitrogen fixation.
Probab=81.18 E-value=2.7 Score=22.54 Aligned_cols=27 Identities=19% Similarity=0.167 Sum_probs=20.8
Q ss_pred CceEEEEe----cchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFC----RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~----nTK~~ad~La~~L~~~G~~ 27 (33)
|.-.|||. ||+.-|+.|++.|...|..
T Consensus 1 M~i~IiY~S~tGnTe~iA~~ia~~l~~~g~~ 31 (140)
T TIGR01754 1 MRILLAYLSLSGNTEEVAFMIQDYLQKDGHE 31 (140)
T ss_pred CeEEEEEECCCChHHHHHHHHHHHHhhCCee
Confidence 34467776 7888899999999887765
No 123
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.14 E-value=2.1 Score=29.95 Aligned_cols=21 Identities=14% Similarity=0.312 Sum_probs=19.0
Q ss_pred ceEEEEecchhhHHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~ 22 (33)
+++||||++...++.+++.|.
T Consensus 497 ~kiLVF~~~~~~l~~~a~~L~ 517 (732)
T TIGR00603 497 DKIIVFSDNVFALKEYAIKLG 517 (732)
T ss_pred CeEEEEeCCHHHHHHHHHHcC
Confidence 589999999999999999883
No 124
>KOG0336|consensus
Probab=80.07 E-value=1.1 Score=30.90 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=21.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
+++||||..|..||.|...|.-.|.
T Consensus 466 dKvIiFv~~K~~AD~LSSd~~l~gi 490 (629)
T KOG0336|consen 466 DKVIIFVSRKVMADHLSSDFCLKGI 490 (629)
T ss_pred ceEEEEEechhhhhhccchhhhccc
Confidence 4789999999999999988865553
No 125
>PRK13617 psbV cytochrome c-550; Provisional
Probab=79.69 E-value=2.1 Score=25.35 Aligned_cols=23 Identities=17% Similarity=0.239 Sum_probs=19.4
Q ss_pred cchhhHHHHHHHHHhc--------CCceeee
Q psy8719 9 RTKLDCDNLERYLNSI--------DRRLIYY 31 (33)
Q Consensus 9 nTK~~ad~La~~L~~~--------G~~~~~~ 31 (33)
-|.++.+.|+.+|..+ |++++||
T Consensus 140 LsdeeL~alAayLl~~~k~~~~~wgggk~y~ 170 (170)
T PRK13617 140 LNDEDLRLMAGYILVAPKVQGTQWGGGKIYF 170 (170)
T ss_pred CCHHHHHHHHHHHHhcccccccccCCceecC
Confidence 4678999999999776 8889987
No 126
>COG3865 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.68 E-value=3.3 Score=24.37 Aligned_cols=25 Identities=16% Similarity=0.177 Sum_probs=22.7
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+-.|+|.+.++.|++.+.|...|++
T Consensus 80 S~~v~~~~q~E~Drlwnal~~~g~e 104 (151)
T COG3865 80 SFQVACDDQEEIDRLWNALSDNGGE 104 (151)
T ss_pred EEEEEcCCHHHHHHHHHHHhccCcc
Confidence 5689999999999999999999964
No 127
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=79.62 E-value=5.7 Score=19.39 Aligned_cols=29 Identities=10% Similarity=0.336 Sum_probs=21.8
Q ss_pred eEEEEecchhhHHHHHHH-----HHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERY-----LNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~-----L~~~G~~~~~~ 31 (33)
.+|++|++-......+.. |.+.|....+.
T Consensus 69 ~iv~yc~~~~~~~~~~~~~~~~~l~~~g~~~v~~ 102 (113)
T PF00581_consen 69 DIVFYCSSGWRSGSAAAARVAWILKKLGFKNVYI 102 (113)
T ss_dssp EEEEEESSSCHHHHHHHHHHHHHHHHTTTSSEEE
T ss_pred cceeeeecccccchhHHHHHHHHHHHcCCCCEEE
Confidence 578889777777777776 88888866554
No 128
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=79.55 E-value=3.3 Score=22.81 Aligned_cols=26 Identities=15% Similarity=0.391 Sum_probs=22.6
Q ss_pred EEEecchhhHHHHHHHHHhcCCceee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
|++++.+...+.+.+.|++.|....+
T Consensus 1 iLi~r~~~~~~~l~~~L~~~G~~~~~ 26 (239)
T cd06578 1 VLVTRPRPQADELAALLEALGAEVLE 26 (239)
T ss_pred CEecCchHHhHHHHHHHHHcCCcEEE
Confidence 56788899999999999999998654
No 129
>KOG0341|consensus
Probab=79.31 E-value=2.1 Score=29.41 Aligned_cols=25 Identities=32% Similarity=0.474 Sum_probs=22.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.+||||-.|.++|.+.++|--.|.+
T Consensus 423 pVLIFaEkK~DVD~IhEYLLlKGVE 447 (610)
T KOG0341|consen 423 PVLIFAEKKADVDDIHEYLLLKGVE 447 (610)
T ss_pred ceEEEeccccChHHHHHHHHHccce
Confidence 5899999999999999999877654
No 130
>KOG0952|consensus
Probab=79.31 E-value=2.1 Score=31.81 Aligned_cols=24 Identities=13% Similarity=0.248 Sum_probs=21.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.|++|||.++.++-+.|+.|.+.+
T Consensus 350 ~qVlvFvhsR~~Ti~tA~~l~~~a 373 (1230)
T KOG0952|consen 350 HQVLVFVHSRNETIRTAKKLRERA 373 (1230)
T ss_pred CeEEEEEecChHHHHHHHHHHHHH
Confidence 489999999999999999997754
No 131
>TIGR03865 PQQ_CXXCW PQQ-dependent catabolism-associated CXXCW motif protein. Members of this protein family have a CXXXCW motif, consistent with a possible role in redox cofactor binding. This protein family shows strong relationships by phylogenetic profiling and conserved gene neighborhoods with a transport system for alcohols metabolized by PQQ-dependent enzymes.
Probab=78.46 E-value=6.4 Score=22.09 Aligned_cols=31 Identities=10% Similarity=0.230 Sum_probs=24.9
Q ss_pred ceEEEEecchh-hHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKL-DCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~-~ad~La~~L~~~G~~~~~~~ 32 (33)
..+|++|++-. .+...+..|++.|....|.+
T Consensus 117 ~~IVvYC~~G~~~S~~aa~~L~~~G~~~V~~l 148 (162)
T TIGR03865 117 RPLVFYCLADCWMSWNAAKRALAYGYSNVYWY 148 (162)
T ss_pred CEEEEEECCCCHHHHHHHHHHHhcCCcceEEe
Confidence 36799999864 67788999999999877654
No 132
>PF06983 3-dmu-9_3-mt: 3-demethylubiquinone-9 3-methyltransferase; PDB: 1U7I_A 1TSJ_A 1U69_D 3L20_B 3OMS_A.
Probab=78.39 E-value=5.2 Score=21.42 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=22.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
+..|-|.+.++++++.+.|.+.|...+
T Consensus 74 sl~i~~~~~ee~~~~f~~Ls~gG~~~~ 100 (116)
T PF06983_consen 74 SLCIECDDEEEIDRIFDKLSEGGQWFS 100 (116)
T ss_dssp EEEEEESSHHHHHHHHHHHHTTTETCC
T ss_pred EEEEEcCCHHHHHHHHHHHHcCCCccc
Confidence 457889999999999999999986433
No 133
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=78.32 E-value=5.8 Score=22.16 Aligned_cols=27 Identities=11% Similarity=0.201 Sum_probs=23.4
Q ss_pred EEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
-|+.++.+...+.+++.|++.|.+...
T Consensus 3 ~ilitr~~~~~~~l~~~l~~~G~~v~~ 29 (249)
T PRK05928 3 KILVTRPSPKAEELVELLRELGFVALH 29 (249)
T ss_pred EEEEeCCHHHHHHHHHHHHHcCCCEEE
Confidence 377889999999999999999987654
No 134
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=78.00 E-value=2.9 Score=26.77 Aligned_cols=25 Identities=16% Similarity=0.248 Sum_probs=22.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||||..+.+++.++..+...|.
T Consensus 284 ~~~lif~~~~~~a~~i~~~~~~~~~ 308 (442)
T COG1061 284 DKTLIFASDVEHAYEIAKLFLAPGI 308 (442)
T ss_pred CcEEEEeccHHHHHHHHHHhcCCCc
Confidence 4799999999999999999987765
No 135
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=77.60 E-value=4.7 Score=23.20 Aligned_cols=27 Identities=7% Similarity=0.207 Sum_probs=23.5
Q ss_pred EEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
-|+.++.+.+++.+++.|+++|.+-..
T Consensus 2 ~VLvTRp~~~~~~l~~~L~~~G~~~~~ 28 (240)
T PRK09189 2 RVLVTRPEPAAERTAARLRAMGHEPVL 28 (240)
T ss_pred eEEEECCCCchHHHHHHHHHCCCceEE
Confidence 378899999999999999999987653
No 136
>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE. Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.
Probab=77.19 E-value=8.3 Score=20.15 Aligned_cols=27 Identities=7% Similarity=0.151 Sum_probs=23.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..++.|++=..+...+..|.+.|..-.
T Consensus 60 ~vvlyC~~G~rS~~aa~~L~~~G~~~v 86 (101)
T TIGR02981 60 TVKLYCNAGRQSGMAKDILLDMGYTHA 86 (101)
T ss_pred eEEEEeCCCHHHHHHHHHHHHcCCCeE
Confidence 467889999999999999999997644
No 137
>PRK05320 rhodanese superfamily protein; Provisional
Probab=77.07 E-value=6.5 Score=23.83 Aligned_cols=29 Identities=14% Similarity=0.439 Sum_probs=25.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
..+++|..=.+|...+..|++.|..-.|+
T Consensus 177 ~IvvyC~~G~Rs~~Aa~~L~~~Gf~~V~~ 205 (257)
T PRK05320 177 TVVSFCTGGIRCEKAAIHMQEVGIDNVYQ 205 (257)
T ss_pred eEEEECCCCHHHHHHHHHHHHcCCcceEE
Confidence 57999999999999999999999876665
No 138
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=77.07 E-value=6.1 Score=19.99 Aligned_cols=30 Identities=13% Similarity=0.331 Sum_probs=24.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..+|.|+.-..+...+..|++.|..-.|++
T Consensus 60 ~ivv~c~~g~~s~~a~~~L~~~G~~~v~~l 89 (108)
T PRK00162 60 PVMVMCYHGNSSQGAAQYLLQQGFDVVYSI 89 (108)
T ss_pred CEEEEeCCCCCHHHHHHHHHHCCchheEEe
Confidence 467789988889999999999998766543
No 139
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A ....
Probab=77.00 E-value=6.9 Score=22.37 Aligned_cols=27 Identities=15% Similarity=0.191 Sum_probs=22.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+..-|-|+++.++..+++.|.+.|...
T Consensus 78 ~diAVL~R~~~~~~~i~~~L~~~gIp~ 104 (351)
T PF13361_consen 78 SDIAVLVRTNSQIKEIEDALKEAGIPY 104 (351)
T ss_dssp GGEEEEESSGGHHHHHHHHHHHTTS-E
T ss_pred ccEEEEEECchhHHHHHHHHhhhccee
Confidence 456788999999999999999999873
No 140
>cd02550 PseudoU_synth_Rsu_Rlu_like PseudoU_synth_Rsu_Rlu: Pseudouridine synthase, Rsu/Rlu family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and TruA. Pseudouridine synthases catalyze the isomerization of specific uridines in a n RNA molecule to pseudouridines (5-ribosyluracil, psi) requiring no cofactors. E. coli RluC for example makes psi955, 2504 and 2580 in 23S RNA. Some psi sites such as psi1917 in 23S RNA made by RluD are universally conserved. Other psi sites occur in a more restricted fashion, for example psi2819 in 21S mitochondrial ribosomal RNA made by S. cerevisiae Pus5p is only found in mitochondrial large subunit rRNAs from some other species and in gram negative bacteria. The E. coli counterpart of this psi residue is psi2580 in 23S rRNA. psi2604in 23S RNA made by RluF has only been detected in E.coli.
Probab=76.69 E-value=5.5 Score=21.73 Aligned_cols=27 Identities=11% Similarity=-0.010 Sum_probs=22.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++-+.+|.+. +...++.|.
T Consensus 47 Glll~ak~~~~~~~l~~~--~~~v~K~Y~ 73 (154)
T cd02550 47 GLLLLTNDGRLQRRLTEP--RREIEKEYL 73 (154)
T ss_pred eEEEEEcCHHHHHHHhhh--hccCcEEEE
Confidence 478999999999999988 666777775
No 141
>KOG0346|consensus
Probab=75.76 E-value=3.6 Score=28.39 Aligned_cols=26 Identities=27% Similarity=0.499 Sum_probs=23.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++.|||+||=+.|=+|-=+|++.|..
T Consensus 269 gKsliFVNtIdr~YrLkLfLeqFGik 294 (569)
T KOG0346|consen 269 GKSLIFVNTIDRCYRLKLFLEQFGIK 294 (569)
T ss_pred CceEEEEechhhhHHHHHHHHHhCcH
Confidence 47899999999999999999998864
No 142
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=75.64 E-value=5.7 Score=29.60 Aligned_cols=27 Identities=26% Similarity=0.348 Sum_probs=24.0
Q ss_pred eEEEEecc---hhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRT---KLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nT---K~~ad~La~~L~~~G~~~~ 29 (33)
-.|||+.+ ++-+++|+++|+.+|..-.
T Consensus 337 GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~ 366 (1187)
T COG1110 337 GGLIFVPIDYGREKAEELAEYLRSHGINAE 366 (1187)
T ss_pred CeEEEEEcHHhHHHHHHHHHHHHhcCceEE
Confidence 47999999 9999999999999997643
No 143
>COG5566 Uncharacterized conserved protein [Function unknown]
Probab=75.43 E-value=3.5 Score=23.98 Aligned_cols=25 Identities=16% Similarity=0.010 Sum_probs=22.0
Q ss_pred cchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 9 RTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
+-|..|..++-.|-+.++|.+|||.
T Consensus 58 ~gk~~alk~v~~l~~y~GGrsfYlP 82 (137)
T COG5566 58 NGKPLALKLVFKLMEYGGGRSFYLP 82 (137)
T ss_pred ccCchHHHHHHHHHHHcCCeeEEee
Confidence 4477899999999999999999983
No 144
>cd01535 4RHOD_Repeat_4 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative catalytic Cys residue.
Probab=75.00 E-value=9.4 Score=20.99 Aligned_cols=29 Identities=14% Similarity=0.261 Sum_probs=25.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.+||.|..-..+..++..|.+.|....+.
T Consensus 51 ~vVv~c~~g~~a~~aa~~L~~~G~~~v~~ 79 (145)
T cd01535 51 RYVLTCGSSLLARFAAADLAALTVKPVFV 79 (145)
T ss_pred CEEEEeCCChHHHHHHHHHHHcCCcCeEE
Confidence 58899999999999999999999876654
No 145
>CHL00133 psbV photosystem II cytochrome c550; Validated
Probab=74.90 E-value=3.2 Score=24.30 Aligned_cols=22 Identities=23% Similarity=0.173 Sum_probs=18.6
Q ss_pred chhhHHHHHHHHHhc--------CCceeee
Q psy8719 10 TKLDCDNLERYLNSI--------DRRLIYY 31 (33)
Q Consensus 10 TK~~ad~La~~L~~~--------G~~~~~~ 31 (33)
|-++.+.|+.++-.+ |++++||
T Consensus 134 sdeEL~aVAaYIl~q~~~~~~~wgggk~y~ 163 (163)
T CHL00133 134 TDEDLYAIAGHILLQPKIVSEKWGGGKIYY 163 (163)
T ss_pred CHHHHHHHHHHHHhcccccccccCCCcccC
Confidence 567889999998766 8899987
No 146
>PF13245 AAA_19: Part of AAA domain
Probab=74.18 E-value=6 Score=19.80 Aligned_cols=20 Identities=30% Similarity=0.514 Sum_probs=18.7
Q ss_pred ceEEEEecchhhHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYL 21 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L 21 (33)
++++|-+.|+..+++|.+.|
T Consensus 43 ~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 43 KRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CeEEEECCCHHHHHHHHHHH
Confidence 57899999999999999999
No 147
>PF02006 DUF137: Protein of unknown function DUF137; InterPro: IPR002855 The archaeal proteins in this family have no known function.
Probab=74.16 E-value=3.5 Score=24.83 Aligned_cols=23 Identities=17% Similarity=0.302 Sum_probs=21.0
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.|-+|.+..+.+++.|+++|..-
T Consensus 38 LFyRT~eR~~~I~~~L~~~Ga~~ 60 (178)
T PF02006_consen 38 LFYRTEERVEKIAELLREHGAEE 60 (178)
T ss_pred cccCCHHHHHHHHHHHHHcCCCE
Confidence 69999999999999999999764
No 148
>KOG1919|consensus
Probab=73.72 E-value=5.4 Score=25.92 Aligned_cols=28 Identities=21% Similarity=0.312 Sum_probs=25.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
-.+||.+|++.++.+.+.|++.-..+.|
T Consensus 162 GllvlAkt~~~~~~~~~~~r~~~~~k~Y 189 (371)
T KOG1919|consen 162 GLLVLAKTKEAADKFHEVLRKRTVKKEY 189 (371)
T ss_pred ceEEEEechhHhHHHHHHHhcccceeEE
Confidence 4689999999999999999988777777
No 149
>PRK01415 hypothetical protein; Validated
Probab=73.41 E-value=7.8 Score=23.74 Aligned_cols=30 Identities=20% Similarity=0.478 Sum_probs=26.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
...+++|..=..|...+..|.++|....|.
T Consensus 172 k~Iv~yCtgGiRs~kAa~~L~~~Gf~~Vy~ 201 (247)
T PRK01415 172 KKIAMVCTGGIRCEKSTSLLKSIGYDEVYH 201 (247)
T ss_pred CeEEEECCCChHHHHHHHHHHHcCCCcEEE
Confidence 358999999999999999999999886664
No 150
>TIGR00093 pseudouridine synthase. This model identifies panels of pseudouridine synthase enzymes that RNA modifications involved in maturing the protein translation apparatus. Counts per genome vary: two in Staphylococcus aureus, three in Pseudomonas putida, four in E. coli, etc.
Probab=73.23 E-value=4.6 Score=21.66 Aligned_cols=27 Identities=11% Similarity=0.060 Sum_probs=22.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++-+..|.+ .+.+.++.|.
T Consensus 10 Glll~akd~~~~~~L~~--~~~~i~K~Y~ 36 (128)
T TIGR00093 10 GLLLLTNDGELVHRLTH--PGHHCEKTYL 36 (128)
T ss_pred EEEEEEeCHHHHHHHhC--CCCCCCeEEE
Confidence 46899999999999987 5666778775
No 151
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=72.57 E-value=8.6 Score=24.03 Aligned_cols=30 Identities=7% Similarity=0.163 Sum_probs=25.7
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..+|.|++-..+...+..|++.|....|++
T Consensus 59 ~IvvyC~~G~rs~~aa~~L~~~G~~~v~~l 88 (376)
T PRK08762 59 EIVLICASGTRSAHAAATLRELGYTRVASV 88 (376)
T ss_pred eEEEEcCCCcHHHHHHHHHHHcCCCceEee
Confidence 578999998888999999999999876653
No 152
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=72.44 E-value=6.2 Score=25.99 Aligned_cols=27 Identities=7% Similarity=0.242 Sum_probs=24.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.+-|..+++++++..+++.|++.|.+.
T Consensus 251 G~~IlVtR~~~q~~~l~~~L~~~GA~v 277 (474)
T PRK07168 251 GKKVLFTSATNKTSVMKQKLQEAGAEI 277 (474)
T ss_pred CceEEeeccHHHHHHHHHHHHHcCCEE
Confidence 356889999999999999999999864
No 153
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=71.39 E-value=11 Score=23.67 Aligned_cols=30 Identities=10% Similarity=0.218 Sum_probs=25.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+..+|+|++-..+...+..|++.|....|+
T Consensus 315 ~~IvvyC~~G~rS~~Aa~~L~~~G~~nV~~ 344 (355)
T PRK05597 315 DEVVVYCAAGVRSAQAVAILERAGYTGMSS 344 (355)
T ss_pred CeEEEEcCCCHHHHHHHHHHHHcCCCCEEE
Confidence 357999999999999999999999876554
No 154
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=71.12 E-value=3.9 Score=22.68 Aligned_cols=25 Identities=12% Similarity=0.061 Sum_probs=20.6
Q ss_pred CceEEEEecchhhHHHHHHHHHhcC
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++++|||+++....+.+.+.|+..+
T Consensus 9 ~g~~lv~f~Sy~~l~~~~~~~~~~~ 33 (167)
T PF13307_consen 9 PGGVLVFFPSYRRLEKVYERLKERL 33 (167)
T ss_dssp SSEEEEEESSHHHHHHHHTT-TSS-
T ss_pred CCCEEEEeCCHHHHHHHHHHHHhhc
Confidence 3689999999999999999998765
No 155
>PRK15394 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional
Probab=70.87 E-value=5.5 Score=24.82 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=24.8
Q ss_pred EecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
|--|++.+-+|-+-|+++|.+-++|||
T Consensus 13 ~~~~~~g~~~~~~~~~~~~~~a~f~~~ 39 (296)
T PRK15394 13 FRGTREGVPRLLEILSKHGIQASFFFS 39 (296)
T ss_pred ccccccCHHHHHHHHHHcCCCEEEEec
Confidence 456899999999999999999999996
No 156
>COG1701 Uncharacterized protein conserved in archaea [Function unknown]
Probab=70.55 E-value=5.3 Score=25.23 Aligned_cols=21 Identities=19% Similarity=0.273 Sum_probs=19.8
Q ss_pred EEEecchhhHHHHHHHHHhcC
Q psy8719 5 LIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G 25 (33)
=+|-+|.+.++.+++.|+++|
T Consensus 102 NLF~RteeRv~~I~e~L~~~G 122 (256)
T COG1701 102 NLFYRTEERVRKIAEVLKEHG 122 (256)
T ss_pred EeeccCHHHHHHHHHHHHhcC
Confidence 379999999999999999999
No 157
>PRK00441 argR arginine repressor; Provisional
Probab=70.04 E-value=9.7 Score=21.58 Aligned_cols=23 Identities=4% Similarity=0.312 Sum_probs=20.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+.++|.|++.++++.+.+.|.+.
T Consensus 125 DTilvi~~~~~~a~~l~~~l~~~ 147 (149)
T PRK00441 125 NTIFVLVRSEEKAQEIVEKIKKL 147 (149)
T ss_pred CEEEEEECCHHHHHHHHHHHHHH
Confidence 46899999999999999999764
No 158
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=69.82 E-value=9.8 Score=21.36 Aligned_cols=22 Identities=27% Similarity=0.404 Sum_probs=19.8
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
+.++|.|++.++++.+.+.|.+
T Consensus 123 DTilii~~~~~~a~~~~~~l~~ 144 (146)
T TIGR01529 123 DTILVICRDPETAELLMERLLE 144 (146)
T ss_pred CEEEEEECCHHHHHHHHHHHHH
Confidence 4689999999999999999875
No 159
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=69.06 E-value=12 Score=23.32 Aligned_cols=30 Identities=10% Similarity=0.540 Sum_probs=26.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+.++|+|.+=..|...+..|.+.|....|.
T Consensus 172 k~IvvyC~~G~Rs~~aa~~L~~~Gf~~V~~ 201 (314)
T PRK00142 172 KKVVMYCTGGIRCEKASAWMKHEGFKEVYQ 201 (314)
T ss_pred CeEEEECCCCcHHHHHHHHHHHcCCCcEEE
Confidence 368999999999999999999999876554
No 160
>cd01421 IMPCH Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-ribonucleotide. The IMPCH domain then converts the formyl-5-aminoimidazole-4-carboxamide-ribonucleotide to inosine monophosphate. This is the final step in de novo purine production.
Probab=68.90 E-value=11 Score=22.59 Aligned_cols=27 Identities=22% Similarity=0.239 Sum_probs=24.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.+++|-++.|.+...+++.|.+.|.+.
T Consensus 1 ~~vLISVsDK~~l~~lAk~L~~lGf~I 27 (187)
T cd01421 1 KRALISVSDKTGLVEFAKELVELGVEI 27 (187)
T ss_pred CEEEEEEeCcccHHHHHHHHHHCCCEE
Confidence 368999999999999999999999876
No 161
>PRK09492 treR trehalose repressor; Provisional
Probab=68.79 E-value=14 Score=21.33 Aligned_cols=27 Identities=19% Similarity=0.159 Sum_probs=22.6
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|..+.......++++|.++|++.+-|+
T Consensus 155 V~~D~~~~~~~a~~~L~~~G~~~I~~i 181 (315)
T PRK09492 155 VCYDDEGAIKLLMQRLYDQGHRHISYL 181 (315)
T ss_pred EEECcHHHHHHHHHHHHHcCCCeEEEE
Confidence 566777888899999999999888765
No 162
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=68.51 E-value=15 Score=21.71 Aligned_cols=27 Identities=26% Similarity=0.395 Sum_probs=22.3
Q ss_pred eEEEEecc-----------hhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRT-----------KLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nT-----------K~~ad~La~~L~~~G~~~~ 29 (33)
-|||+.|. ..|++.|++.|++.|....
T Consensus 10 ~alII~n~~f~~~~~r~g~~~D~~~l~~~f~~lgF~V~ 47 (241)
T smart00115 10 LALIINNENFHSLPRRNGTDVDAENLTELFQSLGYEVH 47 (241)
T ss_pred EEEEEECccCCCCcCCCCcHHHHHHHHHHHHHCCCEEE
Confidence 58888886 4699999999999987654
No 163
>PF00610 DEP: Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP); InterPro: IPR000591 This entry represents the DEP (Dishevelled, Egl-10 and Pleckstrin) domain, a globular domain of about 80 residues that is found in over 50 proteins involved in G-protein signalling pathways. It was named after the three proteins it was initially found in: Dishevelled (Dsh and Dvl), which play a key role in the transduction of the Wg/Wnt signal from the cell surface to the nucleus; it is a segment polarity protein required to establish coherent arrays of polarized cells and segments in embryos, and plays a role in wingless signalling. Egl-10, which regulates G-protein signalling in the central nervous system. Pleckstrin, the major substrate of protein kinase C in platelets; Pleckstrin contains two PH domains flanking the DEP domain. Mammalian regulators of G-protein signalling also contain these domains, and regulate signal transduction by increasing the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form. It has been proposed that the DEP domain could play a selective role in targeting DEP domain-containing proteins to specific subcellular membranous sites, perhaps even to specific G protein-coupled signaling pathways [, ]. Nuclear magnetic resonance spectroscopy has revealed that the DEP domain comprises a three-helix bundle, a beta-hairpin 'arm' composed of two beta-strands and two short beta-strands in the C-terminal region [].; GO: 0035556 intracellular signal transduction; PDB: 1UHW_A 1V3F_A 2YSR_A 2CSO_A 1W4M_A 2PBI_C 1O7F_A 2BYV_E 1FSH_A 3ML6_D ....
Probab=68.45 E-value=5 Score=19.31 Aligned_cols=20 Identities=20% Similarity=0.182 Sum_probs=16.9
Q ss_pred EecchhhHHHHHHHHHhcCC
Q psy8719 7 FCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~ 26 (33)
++.++.+|..|++.|-..|.
T Consensus 34 ~~~~r~eA~~l~q~Ll~~g~ 53 (74)
T PF00610_consen 34 FVRDREEAVQLGQELLDHGF 53 (74)
T ss_dssp STSSHHHHHHHHHHHHHCTS
T ss_pred cccCHHHHHHHHHHHHHCCC
Confidence 36789999999999988774
No 164
>cd01530 Cdc25 Cdc25 phosphatases are members of the Rhodanese Homology Domain superfamily. They activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. Cdc25A phosphatase functions to regulate S phase entry and Cdc25B is required for G2/M phase transition of the cell cycle. The Cdc25 domain binds oxyanions at the catalytic site and has the signature motif (H/YCxxxxxR).
Probab=68.14 E-value=15 Score=19.41 Aligned_cols=22 Identities=14% Similarity=0.342 Sum_probs=18.6
Q ss_pred eEEEEec-chhhHHHHHHHHHhc
Q psy8719 3 RALIFCR-TKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~n-TK~~ad~La~~L~~~ 24 (33)
.+|+.|+ +-..+...+..|++.
T Consensus 70 ~vv~yC~~sg~rs~~aa~~L~~~ 92 (121)
T cd01530 70 VLIFHCEFSSKRGPRMARHLRNL 92 (121)
T ss_pred EEEEECCCccccHHHHHHHHHHH
Confidence 5788896 888899999999985
No 165
>PRK07878 molybdopterin biosynthesis-like protein MoeZ; Validated
Probab=67.76 E-value=13 Score=23.53 Aligned_cols=30 Identities=10% Similarity=0.162 Sum_probs=25.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
..+|+|++-..+...+..|++.|..-.|+.
T Consensus 345 ~iVvyC~~G~rS~~aa~~L~~~G~~~V~~L 374 (392)
T PRK07878 345 TIVLYCKTGVRSAEALAALKKAGFSDAVHL 374 (392)
T ss_pred cEEEEcCCChHHHHHHHHHHHcCCCcEEEe
Confidence 578999999999999999999998766653
No 166
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=67.41 E-value=7.7 Score=27.42 Aligned_cols=22 Identities=32% Similarity=0.735 Sum_probs=20.1
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++||||+-++.|..|.++|..
T Consensus 296 ~~iLI~~~d~~T~~qL~~~L~~ 317 (814)
T TIGR00596 296 GKVLIMCSDNRTCLQLRDYLTT 317 (814)
T ss_pred CcEEEEEcchHHHHHHHHHHHh
Confidence 4699999999999999999965
No 167
>cd02555 PSSA_1 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The TruA family is comprised of proteins related to Escherichia coli RsuA.
Probab=67.35 E-value=9.8 Score=21.76 Aligned_cols=28 Identities=14% Similarity=0.057 Sum_probs=22.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
-.|||+|++.-+..|... +.+.++.|.-
T Consensus 59 GLLl~t~d~~~~~~L~~~--~~~i~K~Y~v 86 (177)
T cd02555 59 GLLVFSQDGRVLRKLIGD--ASRLEQEYLV 86 (177)
T ss_pred eEEEEECCHHHHHHHhCh--hcCCCEEEEE
Confidence 479999999999999983 5677888863
No 168
>KOG0951|consensus
Probab=66.67 E-value=6.6 Score=30.14 Aligned_cols=22 Identities=14% Similarity=0.427 Sum_probs=20.1
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.|+|||+..|.++.+.|++++.
T Consensus 547 ~qVLVFVHsRkET~ktA~aIRd 568 (1674)
T KOG0951|consen 547 NQVLVFVHSRKETAKTARAIRD 568 (1674)
T ss_pred CcEEEEEEechHHHHHHHHHHH
Confidence 5899999999999999999884
No 169
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=66.31 E-value=7.1 Score=21.49 Aligned_cols=21 Identities=24% Similarity=0.558 Sum_probs=16.4
Q ss_pred ceEEEEecchhhHHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~ 22 (33)
.+++|.|..++.++.|.+.|=
T Consensus 30 ~rv~V~~~d~~~a~~lD~~LW 50 (137)
T PF04364_consen 30 QRVLVLCPDEEQAEALDELLW 50 (137)
T ss_dssp --EEEE-SSHHHHHHHHHHTT
T ss_pred CeEEEEeCCHHHHHHHHHHHH
Confidence 478999999999999998873
No 170
>KOG0947|consensus
Probab=66.17 E-value=5.9 Score=29.61 Aligned_cols=23 Identities=26% Similarity=0.655 Sum_probs=20.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
-+||||=.|..||+-|+.|....
T Consensus 569 P~VvFvFSkkrCde~a~~L~~~n 591 (1248)
T KOG0947|consen 569 PVVVFVFSKKRCDEYADYLTNLN 591 (1248)
T ss_pred ceEEEEEccccHHHHHHHHhccC
Confidence 37999999999999999997643
No 171
>PRK06724 hypothetical protein; Provisional
Probab=66.02 E-value=13 Score=19.74 Aligned_cols=24 Identities=13% Similarity=0.364 Sum_probs=20.0
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~ 28 (33)
|-| +.++++.|++.+.|.++|...
T Consensus 67 ~af~v~~~~dvd~~~~~l~~~G~~~ 91 (128)
T PRK06724 67 ICYQAINRKVVDEVAEFLSSTKIKI 91 (128)
T ss_pred EEEecCChHHHHHHHHHHHHCCCEE
Confidence 446 578999999999999999753
No 172
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=65.17 E-value=17 Score=19.09 Aligned_cols=28 Identities=21% Similarity=0.438 Sum_probs=22.3
Q ss_pred ceEEEEec-chhhHHHHHHHHHhcCCceee
Q psy8719 2 DRALIFCR-TKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 2 ~~aIVF~n-TK~~ad~La~~L~~~G~~~~~ 30 (33)
+.+||+|+ +-..+...+..|+..|.. .|
T Consensus 87 ~~vvvyC~~~G~rs~~a~~~L~~~G~~-v~ 115 (128)
T cd01520 87 PKLLIYCARGGMRSQSLAWLLESLGID-VP 115 (128)
T ss_pred CeEEEEeCCCCccHHHHHHHHHHcCCc-ee
Confidence 36899996 567788999999999985 54
No 173
>PHA02591 hypothetical protein; Provisional
Probab=65.09 E-value=7.7 Score=20.91 Aligned_cols=25 Identities=12% Similarity=0.046 Sum_probs=21.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++=-|...++|...||..|.++|..
T Consensus 37 ~~ryfi~~~dd~~~vA~eL~eqGlS 61 (83)
T PHA02591 37 QTRYFVESEDDLISVTHELARKGFT 61 (83)
T ss_pred CEEEEEeccchHHHHHHHHHHcCCC
Confidence 4456899999999999999999863
No 174
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=64.89 E-value=11 Score=20.92 Aligned_cols=21 Identities=24% Similarity=0.375 Sum_probs=18.6
Q ss_pred ceEEEEecchhhHHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~ 22 (33)
.+++|.|...+.++.|-+.|=
T Consensus 30 ~rv~I~~~d~~~a~~lD~~LW 50 (142)
T PRK05728 30 WRVLVQCEDEEQAEALDEALW 50 (142)
T ss_pred CEEEEEcCCHHHHHHHHHHhc
Confidence 478999999999999999884
No 175
>COG1647 Esterase/lipase [General function prediction only]
Probab=64.82 E-value=6.1 Score=24.79 Aligned_cols=21 Identities=38% Similarity=0.420 Sum_probs=18.9
Q ss_pred EecchhhHHHHHHHHHhcCCc
Q psy8719 7 FCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~ 27 (33)
|+-|-++++.|+++|+++|..
T Consensus 24 FTGt~~Dvr~Lgr~L~e~GyT 44 (243)
T COG1647 24 FTGTPRDVRMLGRYLNENGYT 44 (243)
T ss_pred cCCCcHHHHHHHHHHHHCCce
Confidence 788999999999999999753
No 176
>PRK13019 clpS ATP-dependent Clp protease adaptor; Reviewed
Probab=64.61 E-value=14 Score=19.71 Aligned_cols=25 Identities=8% Similarity=0.114 Sum_probs=19.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++++|..-+++.|+.-++.|.+.|-
T Consensus 64 G~avv~~~~~E~AE~~~~~l~~~gl 88 (94)
T PRK13019 64 GSAVVWVGPLEQAELYHQQLTDAGL 88 (94)
T ss_pred CcEEEEEecHHHHHHHHHHHHHccc
Confidence 4678888888888888888888773
No 177
>PRK13761 hypothetical protein; Provisional
Probab=64.40 E-value=7.7 Score=24.44 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=21.0
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.|-+|.+..+.+++.|+++|..-
T Consensus 101 LF~RT~eR~~~I~~~l~~~Ga~~ 123 (248)
T PRK13761 101 LFYRTEERVEKIAEVLREHGAKE 123 (248)
T ss_pred eccCCHHHHHHHHHHHHHcCCce
Confidence 69999999999999999999763
No 178
>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=64.37 E-value=14 Score=18.07 Aligned_cols=27 Identities=7% Similarity=0.191 Sum_probs=23.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..+|.|++=......++.|.++|....
T Consensus 63 ~ivv~C~~G~rS~~aa~~L~~~G~~~~ 89 (110)
T COG0607 63 PIVVYCASGVRSAAAAAALKLAGFTNV 89 (110)
T ss_pred eEEEEeCCCCChHHHHHHHHHcCCccc
Confidence 567889999999999999999996543
No 179
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=64.17 E-value=15 Score=25.14 Aligned_cols=25 Identities=16% Similarity=0.102 Sum_probs=23.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.+++|=|||...|.++.+.|+..+.
T Consensus 441 ~kvlvI~NTV~~Aie~Y~~Lk~~~~ 465 (733)
T COG1203 441 KKVLVIVNTVDRAIELYEKLKEKGP 465 (733)
T ss_pred CcEEEEEecHHHHHHHHHHHHhcCC
Confidence 4789999999999999999999887
No 180
>COG0716 FldA Flavodoxins [Energy production and conversion]
Probab=63.68 E-value=5.2 Score=21.80 Aligned_cols=21 Identities=10% Similarity=-0.018 Sum_probs=18.4
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
.||+.-|+.+++.|..+|.+.
T Consensus 13 GnTe~vA~~i~~~l~~~~~~~ 33 (151)
T COG0716 13 GNTEKVAEIIAEELGADGFEV 33 (151)
T ss_pred CcHHHHHHHHHHHhccCCceE
Confidence 489999999999999998765
No 181
>PRK04280 arginine repressor; Provisional
Probab=63.68 E-value=15 Score=20.79 Aligned_cols=22 Identities=32% Similarity=0.617 Sum_probs=19.6
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
+.++|.|++.+++++|.+.|.+
T Consensus 125 DTilvi~~~~~~a~~l~~~l~~ 146 (148)
T PRK04280 125 DTCLIICRTEEDAEEVKDRFLN 146 (148)
T ss_pred CEEEEEECCHHHHHHHHHHHHH
Confidence 4689999999999999999875
No 182
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=63.19 E-value=11 Score=25.47 Aligned_cols=24 Identities=13% Similarity=0.200 Sum_probs=21.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.+++|||.++..|.++.+.|.+..
T Consensus 515 ~kamvv~~sr~~a~~~~~~l~~~~ 538 (667)
T TIGR00348 515 FKAMVVAISRYACVEEKNALDEEL 538 (667)
T ss_pred CceeEEEecHHHHHHHHHHHHhhc
Confidence 579999999999999999987764
No 183
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=63.17 E-value=17 Score=22.09 Aligned_cols=27 Identities=11% Similarity=0.078 Sum_probs=23.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
+.+||.-|-+ ...|++.|.+.|++...
T Consensus 2 ~ILvlGGT~e-gr~la~~L~~~g~~v~~ 28 (256)
T TIGR00715 2 TVLLMGGTVD-SRAIAKGLIAQGIEILV 28 (256)
T ss_pred eEEEEechHH-HHHHHHHHHhCCCeEEE
Confidence 5799999997 99999999999987654
No 184
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=62.31 E-value=24 Score=19.19 Aligned_cols=30 Identities=0% Similarity=-0.161 Sum_probs=22.7
Q ss_pred ceEEEEecc---hhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRT---KLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nT---K~~ad~La~~L~~~G~~~~~~ 31 (33)
+.+||+|++ -..+-+++=.|+..|+...+.
T Consensus 96 ~~vVvY~~~~~~g~~A~r~~~~l~~~G~~~v~i 128 (138)
T cd01445 96 KHLIATDGDDLGGFTACHIALAARLCGHPDVAI 128 (138)
T ss_pred CeEEEECCCCCcchHHHHHHHHHHHcCCCCeEE
Confidence 368999986 456778888899999876543
No 185
>KOG0339|consensus
Probab=62.27 E-value=8.9 Score=27.17 Aligned_cols=28 Identities=21% Similarity=0.325 Sum_probs=24.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++|||+--|.++++|+..|.-.|...+
T Consensus 469 gkvlifVTKk~~~e~i~a~Lklk~~~v~ 496 (731)
T KOG0339|consen 469 GKVLIFVTKKADAEEIAANLKLKGFNVS 496 (731)
T ss_pred CcEEEEEeccCCHHHHHHHhccccceee
Confidence 3789999999999999999988876543
No 186
>PRK11493 sseA 3-mercaptopyruvate sulfurtransferase; Provisional
Probab=62.07 E-value=17 Score=21.65 Aligned_cols=28 Identities=11% Similarity=0.139 Sum_probs=24.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.+|++|++=..+..++-.|+..|..-.+
T Consensus 233 ~ii~yC~~G~~A~~~~~~l~~~G~~~v~ 260 (281)
T PRK11493 233 PIIASCGSGVTAAVVVLALATLDVPNVK 260 (281)
T ss_pred CEEEECCcHHHHHHHHHHHHHcCCCCce
Confidence 5889999999999999999999986543
No 187
>TIGR00730 conserved hypothetical protein, DprA/Smf-related, family 2. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions.
Probab=62.05 E-value=22 Score=20.53 Aligned_cols=28 Identities=21% Similarity=0.453 Sum_probs=23.0
Q ss_pred eEEEEecch--------hhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTK--------LDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK--------~~ad~La~~L~~~G~~~~~ 30 (33)
++-|||..+ +.|.+|.+.|.+.|....|
T Consensus 2 ~i~V~~~s~~~~~~~~~~~A~~lG~~la~~g~~lV~ 37 (178)
T TIGR00730 2 TVCVYCGSSPGGNAAYKELAAELGAYLAGQGWGLVY 37 (178)
T ss_pred EEEEECcCCCCCCcHHHHHHHHHHHHHHHCCCEEEE
Confidence 466888875 5899999999999988766
No 188
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=61.88 E-value=18 Score=17.69 Aligned_cols=27 Identities=22% Similarity=0.145 Sum_probs=20.8
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
|+..||-.++-.++-+..+.|+++|..
T Consensus 1 m~~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 1 MKYYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred CceEEEEECCHHHHHHHHHHHHHCCCc
Confidence 456777777788888888888888753
No 189
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=61.78 E-value=17 Score=17.35 Aligned_cols=31 Identities=10% Similarity=-0.028 Sum_probs=21.8
Q ss_pred CceEEEEecc---hhhHHHHHHHHHhcCCceeee
Q psy8719 1 MDRALIFCRT---KLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 1 ~~~aIVF~nT---K~~ad~La~~L~~~G~~~~~~ 31 (33)
|.+++|.+-+ ...|..+++.|++.|..-...
T Consensus 1 p~~v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d 34 (91)
T cd00860 1 PVQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVD 34 (91)
T ss_pred CeEEEEEeeCchHHHHHHHHHHHHHHCCCEEEEE
Confidence 3465666544 458899999999998766543
No 190
>cd02556 PseudoU_synth_RluB PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RluB makes psi2605 in 23S RNA. psi2605 has been detected in eubacteria but, not in eukarya and archea despite the presence of a precursor U at that site.
Probab=61.63 E-value=12 Score=20.89 Aligned_cols=27 Identities=19% Similarity=0.113 Sum_probs=21.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++-+..|.. .+...++.|.
T Consensus 48 GLll~ak~~~~~~~L~~--~~~~i~K~Y~ 74 (167)
T cd02556 48 GLLLFTNDGELANRLMH--PSNEIEREYA 74 (167)
T ss_pred eEEEEECCHHHHHHHhC--CcCCCCeEEE
Confidence 46899999999999875 5566677775
No 191
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=61.16 E-value=22 Score=20.83 Aligned_cols=27 Identities=26% Similarity=0.420 Sum_probs=21.4
Q ss_pred eEEEEecc------------hhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRT------------KLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nT------------K~~ad~La~~L~~~G~~~~ 29 (33)
-|||+.|. ..|++.|++.|++.|....
T Consensus 11 ~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF~V~ 49 (243)
T cd00032 11 LALIINNENFDKGLKDRDGTDVDAENLTKLFESLGYEVE 49 (243)
T ss_pred EEEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCCEEE
Confidence 47787773 5789999999999987643
No 192
>TIGR00725 conserved hypothetical protein, DprA/Smf-related, family 1. This model represents one branch of a subfamily of uncharacterized proteins. Both PSI-BLAST and weak hits by this model show a low level of similarity and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting the branches may have distinct functions. This family is one of several families within the scope of PFAM model pfam03641, several members of which are annotated as lysine decarboxylases. That larger family, and the branch described by this model, have a well-conserved motif PGGXGTXXE.
Probab=61.07 E-value=27 Score=19.69 Aligned_cols=29 Identities=17% Similarity=0.021 Sum_probs=22.2
Q ss_pred CceEEEEecc------hhhHHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRT------KLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nT------K~~ad~La~~L~~~G~~~~ 29 (33)
|.++=|||.. ++.|.+|++.|.++|....
T Consensus 1 ~~~I~V~gss~~~~~~~~~A~~lg~~La~~g~~lv 35 (159)
T TIGR00725 1 MVQIGVIGSSNKSEELYEIAYRLGKELAKKGHILI 35 (159)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHHHCCCEEE
Confidence 4567788877 4568999999999987543
No 193
>PF02423 OCD_Mu_crystall: Ornithine cyclodeaminase/mu-crystallin family; InterPro: IPR003462 This entry represents the bacterial ornithine cyclodeaminase enzyme family, which catalyse the deamination of ornithine to proline []. The family also includes mu-crystallin, a mammalian homologue of bacterial ornithine cyclodeaminase [], which is the major component of the eye lens in several Australian marsupials. mRNA for mu-crystallin has also been found in human retina [].; PDB: 1U7H_B 1X7D_B 2I99_B 3HDJ_A 1VLL_B 1OMO_A.
Probab=61.04 E-value=20 Score=21.96 Aligned_cols=26 Identities=8% Similarity=0.262 Sum_probs=21.1
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++++.|+.++.+.++++++.+++.|.
T Consensus 153 i~~v~v~~r~~~~~~~~~~~~~~~~~ 178 (313)
T PF02423_consen 153 IKEVRVYSRSPERAEAFAARLRDLGV 178 (313)
T ss_dssp -SEEEEE-SSHHHHHHHHHHHHCCCT
T ss_pred ceEEEEEccChhHHHHHHHhhccccc
Confidence 36889999999999999999998543
No 194
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=60.84 E-value=11 Score=23.65 Aligned_cols=23 Identities=22% Similarity=0.509 Sum_probs=20.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++||.|+|++-|+++++.++..+
T Consensus 74 ~~lil~PtreLa~Q~~~~~~~~~ 96 (460)
T PRK11776 74 QALVLCPTRELADQVAKEIRRLA 96 (460)
T ss_pred eEEEEeCCHHHHHHHHHHHHHHH
Confidence 68999999999999999888754
No 195
>cd02870 PseudoU_synth_RsuA_like Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this family are bacterial proteins.
Probab=60.79 E-value=13 Score=20.13 Aligned_cols=27 Identities=11% Similarity=0.098 Sum_probs=19.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++-+..|.+ .+...++.|.
T Consensus 46 Glll~ak~~~~~~~l~~--~~~~i~K~Y~ 72 (146)
T cd02870 46 GLLLLTNDGELANRLTH--PRYGVEKTYL 72 (146)
T ss_pred eEEEEeCCHHHHHHhhC--ccCCCCeEEE
Confidence 47899999988888765 3445667775
No 196
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=60.65 E-value=7.4 Score=20.39 Aligned_cols=19 Identities=11% Similarity=0.031 Sum_probs=16.8
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
||+.-|+.|++.|++.|..
T Consensus 9 ~te~~A~~ia~~l~~~g~~ 27 (143)
T PF00258_consen 9 NTEKMAEAIAEGLRERGVE 27 (143)
T ss_dssp HHHHHHHHHHHHHHHTTSE
T ss_pred hHHHHHHHHHHHHHHcCCc
Confidence 7889999999999998865
No 197
>KOG0948|consensus
Probab=60.47 E-value=11 Score=27.83 Aligned_cols=24 Identities=17% Similarity=0.440 Sum_probs=20.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
..+|||+-.|.+|+.+|-.|.+..
T Consensus 384 ~PVIvFSFSkkeCE~~Alqm~kld 407 (1041)
T KOG0948|consen 384 LPVIVFSFSKKECEAYALQMSKLD 407 (1041)
T ss_pred CceEEEEecHhHHHHHHHhhccCc
Confidence 468999999999999999887643
No 198
>PHA00527 hypothetical protein
Probab=60.22 E-value=13 Score=21.22 Aligned_cols=20 Identities=20% Similarity=0.321 Sum_probs=17.6
Q ss_pred eEEEEecchhhHHHHHHHHH
Q psy8719 3 RALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~ 22 (33)
-.|+||+.+.+=+++...|-
T Consensus 20 ~~v~~CR~~~EWQ~~~~~LG 39 (129)
T PHA00527 20 ANVYLCRSKEEWQQACIHLG 39 (129)
T ss_pred ceEEEEcChHHHHHHHHHhC
Confidence 46899999999999998883
No 199
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=59.94 E-value=9.9 Score=24.90 Aligned_cols=24 Identities=21% Similarity=0.272 Sum_probs=21.9
Q ss_pred EEEEecchhhHHHHHHHHHhcCCc
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+||.+.||+-|..+++.++..+..
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~ 125 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKN 125 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhh
Confidence 899999999999999999887764
No 200
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=59.92 E-value=22 Score=19.97 Aligned_cols=27 Identities=11% Similarity=0.154 Sum_probs=21.3
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|.++-...+..++++|.+.|++.+.|+
T Consensus 92 v~~D~~~a~~~~~~~l~~~g~~~i~~i 118 (270)
T cd01544 92 VVPDFEQAVEKALDYLLELGHTRIGFI 118 (270)
T ss_pred EEECHHHHHHHHHHHHHHcCCCcEEEE
Confidence 555667778889999998999888765
No 201
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=59.55 E-value=18 Score=17.35 Aligned_cols=25 Identities=12% Similarity=0.200 Sum_probs=21.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||.|.++.-++.+.+.+.....
T Consensus 31 ~~~lv~~p~~~l~~~~~~~~~~~~~ 55 (144)
T cd00046 31 GQVLVLAPTRELANQVAERLKELFG 55 (144)
T ss_pred CCEEEEcCcHHHHHHHHHHHHHHhh
Confidence 5789999999999999988887663
No 202
>cd07266 HPCD_N_class_II N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases. This subfamily contains the N-terminal, non-catalytic, domain of HPCD. HPCD catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate. The aromatic ring of 4-hydroxyphenylacetate is opened by this dioxygenase to yield the 3,4-diol product, 2-hydroxy-5-carboxymethylmuconate semialdehyde. HPCD is a homotetramer and each monomer contains two structurally homologous barrel-shaped domains at the N- and C-terminus. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism. Most extradiol dioxygenases contain Fe(II) in their active site, but HPCD can be activated by either Mn(II) or Fe(II). These enzymes belong to the type I class II family of extradiol dioxygenases. The class III 3,4-dihydroxyphenylacetate 2,3-dioxygenases belong to a differ
Probab=59.39 E-value=20 Score=17.72 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=18.7
Q ss_pred ecchhhHHHHHHHHHhcCCcee
Q psy8719 8 CRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~~ 29 (33)
+.+..+.+.+.+.|+++|.+..
T Consensus 68 v~~~~dv~~~~~~l~~~g~~~~ 89 (121)
T cd07266 68 VRSEEDLDKAEAFFQELGLPTE 89 (121)
T ss_pred CCCHHHHHHHHHHHHHcCCCcc
Confidence 6678999999999999997653
No 203
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=59.07 E-value=23 Score=20.55 Aligned_cols=27 Identities=15% Similarity=0.087 Sum_probs=22.4
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-.+....+..++++|-++|++.+-|+
T Consensus 152 V~~D~~~~~~~a~~~L~~~Ghr~I~~i 178 (311)
T TIGR02405 152 VCYDDYGAIELLMANLYQQGHRHISFL 178 (311)
T ss_pred EEeCcHHHHHHHHHHHHHcCCCcEEEE
Confidence 556777888899999999999988775
No 204
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=58.63 E-value=17 Score=21.27 Aligned_cols=26 Identities=12% Similarity=0.267 Sum_probs=22.4
Q ss_pred EEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
-|+-++.+..++++++.|+++|..-.
T Consensus 3 ~vlvtR~~~~~~~~~~~l~~~G~~~~ 28 (248)
T COG1587 3 RVLVTRPREQAEELAALLRKAGAEPL 28 (248)
T ss_pred EEEEeCchhhhHHHHHHHHhCCCcce
Confidence 46778999999999999999998644
No 205
>cd01225 PH_Cool_Pix Cool (cloned out of library)/Pix (PAK-interactive exchange factor) pleckstrin homology (PH) domain. Cool (cloned out of library)/Pix (PAK-interactive exchange factor) pleckstrin homology (PH) domain. Cool/Pix contains an N-terminal SH3 domain followed by a RhoGEF (DH) and PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=58.46 E-value=23 Score=19.81 Aligned_cols=26 Identities=19% Similarity=0.468 Sum_probs=22.3
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
+++.+|-|+..++.+++.+.|+++-+
T Consensus 85 i~~i~v~C~~~~e~~~Wl~hL~~~~~ 110 (111)
T cd01225 85 IERIVVVCNNPQDAQEWVELLNANNP 110 (111)
T ss_pred cCcEEEEeCCHHHHHHHHHHHHhhcC
Confidence 36788999999999999999998643
No 206
>COG0169 AroE Shikimate 5-dehydrogenase [Amino acid transport and metabolism]
Probab=58.10 E-value=20 Score=22.28 Aligned_cols=25 Identities=16% Similarity=0.322 Sum_probs=22.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.+..|+-||.+.+++|++.+.+.+.
T Consensus 151 ~~i~V~NRt~~ra~~La~~~~~~~~ 175 (283)
T COG0169 151 KRITVVNRTRERAEELADLFGELGA 175 (283)
T ss_pred CEEEEEeCCHHHHHHHHHHhhhccc
Confidence 4678999999999999999998774
No 207
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=58.05 E-value=15 Score=20.82 Aligned_cols=26 Identities=12% Similarity=0.241 Sum_probs=17.9
Q ss_pred CceEEEEe----cchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFC----RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~----nTK~~ad~La~~L~~~G~~ 27 (33)
|.-.||+. ||+.-|+.|++.|.. |..
T Consensus 1 MkilIvY~S~~G~T~~iA~~Ia~~l~~-g~~ 30 (177)
T PRK11104 1 MKTLILYSSRDGQTRKIASYIASELKE-GIQ 30 (177)
T ss_pred CcEEEEEECCCChHHHHHHHHHHHhCC-CCe
Confidence 33456665 677778888888876 654
No 208
>TIGR02786 addB_alphas double-strand break repair protein AddB, alphaproteobacterial type. AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type.
Probab=57.90 E-value=15 Score=26.11 Aligned_cols=23 Identities=17% Similarity=0.252 Sum_probs=21.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++.|+++|+..+..|.+.+.+.
T Consensus 39 a~~~i~~ptrr~~r~l~~~f~~~ 61 (1021)
T TIGR02786 39 ADATIYVPTRRAARALREAFVDV 61 (1021)
T ss_pred cCeEEEeCChHHHHHHHHHHHHh
Confidence 46899999999999999999885
No 209
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=57.74 E-value=19 Score=22.59 Aligned_cols=25 Identities=8% Similarity=0.053 Sum_probs=22.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
..+++|+.|=++++++.+.|++.|.
T Consensus 189 g~~~~y~P~veQv~kt~~~l~~~g~ 213 (256)
T COG2519 189 GVVVVYSPTVEQVEKTVEALRERGF 213 (256)
T ss_pred cEEEEEcCCHHHHHHHHHHHHhcCc
Confidence 3678999999999999999999864
No 210
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=57.01 E-value=20 Score=16.58 Aligned_cols=19 Identities=5% Similarity=0.161 Sum_probs=15.4
Q ss_pred hhHHHHHHHHHhcCCceee
Q psy8719 12 LDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 12 ~~ad~La~~L~~~G~~~~~ 30 (33)
.+.+++.+.|++.|....|
T Consensus 52 ~~~~~~~~~L~~~G~~v~~ 70 (72)
T cd04883 52 MNPRPIIEDLRRAGYEVLW 70 (72)
T ss_pred CCHHHHHHHHHHCCCeeeC
Confidence 5667999999999987654
No 211
>PRK08105 flavodoxin; Provisional
Probab=56.90 E-value=18 Score=19.97 Aligned_cols=27 Identities=22% Similarity=0.289 Sum_probs=18.4
Q ss_pred CceEEEEe-----cchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFC-----RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~-----nTK~~ad~La~~L~~~G~~ 27 (33)
|.+++||- ||+.-|++|++.|++.|..
T Consensus 1 m~~i~I~YgS~tGnte~~A~~l~~~l~~~g~~ 32 (149)
T PRK08105 1 MAKVGIFVGTVYGNALLVAEEAEAILTAQGHE 32 (149)
T ss_pred CCeEEEEEEcCchHHHHHHHHHHHHHHhCCCc
Confidence 34555653 5677788888888877754
No 212
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=56.83 E-value=28 Score=21.75 Aligned_cols=29 Identities=14% Similarity=0.273 Sum_probs=22.1
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~G~~~~ 29 (33)
+++++|+++|-++ +-.+|++++.+|+.-.
T Consensus 125 ~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~~Vl 164 (274)
T cd01132 125 MEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHAL 164 (274)
T ss_pred cceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCCCEE
Confidence 3578888888776 5678899988887643
No 213
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=56.75 E-value=27 Score=18.12 Aligned_cols=25 Identities=20% Similarity=0.147 Sum_probs=22.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++||.+.++.-++++.+.+++.+..
T Consensus 46 ~~lii~P~~~l~~q~~~~~~~~~~~ 70 (169)
T PF00270_consen 46 RVLIIVPTRALAEQQFERLRKFFSN 70 (169)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHTTT
T ss_pred eEEEEeecccccccccccccccccc
Confidence 7899999999999999999888764
No 214
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=56.62 E-value=16 Score=21.53 Aligned_cols=27 Identities=15% Similarity=0.192 Sum_probs=22.1
Q ss_pred EEecchhhHHHHHHHHHhcCCce-eeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL-IYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~-~~~~ 32 (33)
|.+...+....++++|-+.|++. +.++
T Consensus 98 V~~D~~~a~~~a~~~Li~~Gh~~~I~~i 125 (279)
T PF00532_consen 98 VYIDNYEAGYEATEYLIKKGHRRPIAFI 125 (279)
T ss_dssp EEEEHHHHHHHHHHHHHHTTCCSTEEEE
T ss_pred EEEcchHHHHHHHHHHHhcccCCeEEEE
Confidence 55667778889999999999998 7664
No 215
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=56.61 E-value=30 Score=19.26 Aligned_cols=27 Identities=15% Similarity=0.050 Sum_probs=22.0
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-.+-.+.+..+++.|.+.|++.+-|+
T Consensus 95 v~~d~~~~g~~a~~~L~~~g~~~i~~~ 121 (263)
T cd06280 95 VVLDNRAAARTLVEHLVAQGYRRIGGL 121 (263)
T ss_pred EEECcHHHHHHHHHHHHHCCCceEEEE
Confidence 557778888899999999998877665
No 216
>PRK06407 ornithine cyclodeaminase; Provisional
Probab=56.29 E-value=27 Score=21.45 Aligned_cols=24 Identities=8% Similarity=0.102 Sum_probs=21.4
Q ss_pred CceEEEEecchhhHHHHHHHHHhc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.+++.||-+|++.++++++.+++.
T Consensus 142 i~~v~v~~r~~~~a~~f~~~~~~~ 165 (301)
T PRK06407 142 PKRIRVYSRNFDHARAFAERFSKE 165 (301)
T ss_pred CCEEEEECCCHHHHHHHHHHHHHh
Confidence 367899999999999999999875
No 217
>cd07235 MRD Mitomycin C resistance protein (MRD). Mitomycin C (MC) is a naturally occurring antibiotic, and antitumor agent used in the treatment of cancer. Its antitumor activity is exerted primarily through monofunctional and bifunctional alkylation of DNA. MRD binds to MC and functions as a component of the MC exporting system. MC is bound to MRD by a stacking interaction between a His and a Trp. MRD adopts a structural fold similar to bleomycin resistance protein, glyoxalase I, and extradiol dioxygenases; and it has binding sites at an identical location to binding sites in these evolutionarily related enzymes.
Probab=56.05 E-value=21 Score=17.66 Aligned_cols=21 Identities=24% Similarity=0.194 Sum_probs=18.3
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
|.+.++.+++.+.|++.|...
T Consensus 74 ~~~~~dvd~~~~~l~~~G~~~ 94 (122)
T cd07235 74 CETPAEVDALYAELVGAGYPG 94 (122)
T ss_pred cCCHHHHHHHHHHHHHCCCCc
Confidence 678899999999999999753
No 218
>PF05853 DUF849: Prokaryotic protein of unknown function (DUF849); InterPro: IPR008567 This family consists of several hypothetical prokaryotic proteins with no known function.; PDB: 3C6C_A 2Y7G_B 2Y7F_B 2Y7D_D 2Y7E_B 3LOT_A 3FA5_B 3NO5_C 3E02_A 3E49_B ....
Probab=55.93 E-value=19 Score=21.92 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=19.1
Q ss_pred EEEecchhhHHHHHHHHHhcCCceee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.+|.|+-..++++++.++++|....+
T Consensus 119 ~~~~n~~~~~~~~~~~~~e~Gi~pe~ 144 (272)
T PF05853_consen 119 RVYINTPADARELARRMRERGIKPEI 144 (272)
T ss_dssp SEE---HHHHHHHHHHHHHTT-EEEE
T ss_pred ceecCCHHHHHHHHHHHHHcCCeEEE
Confidence 47999999999999999999987543
No 219
>PRK07478 short chain dehydrogenase; Provisional
Probab=55.82 E-value=35 Score=19.10 Aligned_cols=27 Identities=11% Similarity=0.201 Sum_probs=20.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
++++.+++....+.+.+.|++.|.+..
T Consensus 32 ~v~~~~r~~~~~~~~~~~~~~~~~~~~ 58 (254)
T PRK07478 32 KVVVGARRQAELDQLVAEIRAEGGEAV 58 (254)
T ss_pred EEEEEeCCHHHHHHHHHHHHhcCCcEE
Confidence 567778888888888888887765543
No 220
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=55.64 E-value=32 Score=19.04 Aligned_cols=27 Identities=15% Similarity=-0.052 Sum_probs=21.4
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-.+..+....++++|.++|++.+.++
T Consensus 95 V~~d~~~a~~~~~~~l~~~g~~~i~~i 121 (265)
T cd06290 95 IAVDNFQGGYLATQHLIDLGHRRIAHI 121 (265)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 556777788888999999998877665
No 221
>PRK03341 arginine repressor; Provisional
Probab=55.54 E-value=24 Score=20.50 Aligned_cols=23 Identities=22% Similarity=0.348 Sum_probs=20.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+.++|.|++.++++.+.+.|.+.
T Consensus 142 DTIlvi~~~~~~a~~l~~~i~~~ 164 (168)
T PRK03341 142 DTVLVIARDPMTGAELAARLLRL 164 (168)
T ss_pred CEEEEEeCCHHHHHHHHHHHHhh
Confidence 46899999999999999999876
No 222
>PRK05066 arginine repressor; Provisional
Probab=55.46 E-value=26 Score=20.10 Aligned_cols=23 Identities=13% Similarity=0.128 Sum_probs=20.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+-++|-|+..++++++.+.|.+.
T Consensus 129 DTilVi~~~~~~a~~l~~~l~~~ 151 (156)
T PRK05066 129 DTIFITPASGFTIKELLEAILEL 151 (156)
T ss_pred CEEEEEECCHHHHHHHHHHHHHH
Confidence 45899999999999999998764
No 223
>cd09012 Glo_EDI_BRP_like_24 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=55.35 E-value=21 Score=17.91 Aligned_cols=21 Identities=10% Similarity=0.088 Sum_probs=17.9
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
|.++++++.+.+.|.++|...
T Consensus 76 v~~~~~vd~~~~~l~~~G~~i 96 (124)
T cd09012 76 ADSREEVDELVEKALAAGGKE 96 (124)
T ss_pred CCCHHHHHHHHHHHHHCCCcc
Confidence 667889999999999998753
No 224
>KOG0340|consensus
Probab=55.19 E-value=16 Score=24.65 Aligned_cols=25 Identities=16% Similarity=0.200 Sum_probs=22.7
Q ss_pred EEEEecchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
++||+.|++-+=++++.+...|.-+
T Consensus 78 alvlTPTrELA~QiaEQF~alGk~l 102 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFIALGKLL 102 (442)
T ss_pred EEEecchHHHHHHHHHHHHHhcccc
Confidence 7999999999999999999988754
No 225
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=54.31 E-value=10 Score=20.36 Aligned_cols=19 Identities=16% Similarity=0.024 Sum_probs=15.7
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
-|||.-|+.|++.|.+.+.
T Consensus 9 G~Tk~~A~~ia~~l~~~~~ 27 (143)
T PF12724_consen 9 GNTKKIAEWIAEKLGEEGE 27 (143)
T ss_pred chHHHHHHHHHHHHhhhcc
Confidence 3789999999999987754
No 226
>PRK00033 clpS ATP-dependent Clp protease adaptor protein ClpS; Reviewed
Probab=54.21 E-value=33 Score=18.52 Aligned_cols=26 Identities=8% Similarity=-0.032 Sum_probs=21.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++++|..-+++.|+..++.|+..|-.
T Consensus 69 G~avv~~~~~e~AE~~~~~l~~~~L~ 94 (100)
T PRK00033 69 GKAVVGVCTREVAETKVEQVHQHGLL 94 (100)
T ss_pred CcEEEEEEcHHHHHHHHHHHHcCCCe
Confidence 47888888999999999999666654
No 227
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=54.08 E-value=36 Score=18.75 Aligned_cols=28 Identities=18% Similarity=0.145 Sum_probs=22.3
Q ss_pred EEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
.|-++..+.+..++++|.+.|++.+-++
T Consensus 93 ~v~~d~~~~~~~~~~~l~~~g~~~i~~i 120 (260)
T cd06286 93 SVYIDHYEAFYEALKYLIQKGYRKIAYC 120 (260)
T ss_pred EEEECChHHHHHHHHHHHHCCCceEEEE
Confidence 4667778888888999999998887664
No 228
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=54.04 E-value=40 Score=19.23 Aligned_cols=30 Identities=7% Similarity=0.114 Sum_probs=22.8
Q ss_pred ceEEEEecch---hhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTK---LDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK---~~ad~La~~L~~~G~~~~~~ 31 (33)
+++|++.+.- ..|+.-.+.++.+|...+|+
T Consensus 110 ~RVi~vv~d~e~~~~ar~~w~~~k~~~~~~~yw 142 (154)
T PRK06646 110 KRIIIITDLPEDLKELTVKINKFTGQENKIDCF 142 (154)
T ss_pred CEEEEEeCChHHHHHHHHHHHHHHhCCCcceEe
Confidence 5777777643 34667778899999999986
No 229
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=53.92 E-value=29 Score=17.73 Aligned_cols=25 Identities=16% Similarity=0.264 Sum_probs=21.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++||.+.|+..+.++.+.+.+.+.
T Consensus 55 ~~~l~~~p~~~~~~~~~~~~~~~~~ 79 (201)
T smart00487 55 KRVLVLVPTRELAEQWAEELKKLGP 79 (201)
T ss_pred CcEEEEeCCHHHHHHHHHHHHHHhc
Confidence 3689999999999999999988774
No 230
>KOG0350|consensus
Probab=53.82 E-value=20 Score=25.23 Aligned_cols=22 Identities=23% Similarity=0.456 Sum_probs=20.3
Q ss_pred CceEEEEecchhhHHHHHHHHH
Q psy8719 1 MDRALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~ 22 (33)
+.+.|+|+|.-..+.+|+.-|+
T Consensus 429 ~~r~lcf~~S~~sa~Rl~~~L~ 450 (620)
T KOG0350|consen 429 LNRTLCFVNSVSSANRLAHVLK 450 (620)
T ss_pred cceEEEEecchHHHHHHHHHHH
Confidence 4689999999999999999987
No 231
>PF07775 PaRep2b: PaRep2b protein; InterPro: IPR011689 This is a group of proteins, expressed in the crenarchaeon Pyrobaculum aerophilum, whose members are variable in length and level of conservation. The presence of numerous frameshifts and internal stop codons in multiple alignments are thought to indicate that most family members are no longer functional [].
Probab=53.62 E-value=18 Score=24.94 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=21.0
Q ss_pred EEEecchhhHHHHHHHHHhcCCc
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~ 27 (33)
..|.-+|+.|++||.-|++.|..
T Consensus 110 a~F~gsRE~AErlAsILrAlG~~ 132 (512)
T PF07775_consen 110 AQFGGSREKAERLASILRALGAE 132 (512)
T ss_pred EEecccHHHHHHHHHHHHhcCCe
Confidence 57999999999999999999975
No 232
>cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons. Members of the subfamily include the Dictyostelium DIRS-1, Volvox carteri kangaroo, and Panagrellus redivivus PAT elements. These elements differ from LTR and conventional non-LTR retrotransposons. They contain split direct repeat (SDR) termini, and have been proposed to integrate via double-stranded closed-circle DNA intermediates assisted by an encoded recombinase which is similar to gamma-site-specific integrase.
Probab=53.31 E-value=28 Score=17.94 Aligned_cols=21 Identities=24% Similarity=0.289 Sum_probs=16.5
Q ss_pred ceEEEEecchhhHHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYLN 22 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~ 22 (33)
+-.+|+++|++.++++...|.
T Consensus 68 DDili~~~~~~~~~~~~~~l~ 88 (119)
T cd03714 68 DDLLIIASSIKTSEAVLRHLR 88 (119)
T ss_pred cCeEEEeCcHHHHHHHHHHHH
Confidence 446899999888888877765
No 233
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=53.11 E-value=12 Score=22.52 Aligned_cols=20 Identities=10% Similarity=0.114 Sum_probs=16.9
Q ss_pred cchhhHHHHHHHHHhcCCce
Q psy8719 9 RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~ 28 (33)
+|++-|+.+|..|++.|++-
T Consensus 13 qT~kIA~~iA~~L~e~g~qv 32 (175)
T COG4635 13 QTRKIAEYIASHLRESGIQV 32 (175)
T ss_pred cHHHHHHHHHHHhhhcCCee
Confidence 57888999999999988763
No 234
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=53.06 E-value=36 Score=18.90 Aligned_cols=28 Identities=18% Similarity=0.095 Sum_probs=22.2
Q ss_pred EEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
.|-.+-...+..+++.|.++|++.+.++
T Consensus 101 ~V~~d~~~~~~~~~~~l~~~g~~~i~~i 128 (273)
T cd06292 101 HVSTDDALAMRLAVRHLVALGHRRIGFA 128 (273)
T ss_pred EEEECcHHHHHHHHHHHHHCCCceEEEE
Confidence 3556667778889999999999887765
No 235
>PRK07308 flavodoxin; Validated
Probab=53.06 E-value=13 Score=19.87 Aligned_cols=20 Identities=15% Similarity=0.147 Sum_probs=16.3
Q ss_pred cchhhHHHHHHHHHhcCCce
Q psy8719 9 RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~ 28 (33)
||+.-|+.|++.|.+.|...
T Consensus 14 nTe~iA~~ia~~l~~~g~~~ 33 (146)
T PRK07308 14 NTEEIADIVADKLRELGHDV 33 (146)
T ss_pred hHHHHHHHHHHHHHhCCCce
Confidence 68888999999998887653
No 236
>TIGR00341 conserved hypothetical protein TIGR00341. This conserved hypothetical protein is found so far only in three archaeal genomes and in Streptomyces coelicolor. It shares a hydrophobic uncharacterized domain (see model TIGR00271) of about 180 residues with several eubacterial proteins, including the much longer protein sll1151 of Synechocystis PCC6803.
Probab=52.99 E-value=25 Score=22.58 Aligned_cols=26 Identities=8% Similarity=-0.001 Sum_probs=23.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+.|+..++++|++-+.|++.|-+.
T Consensus 43 ~~i~~~v~~~~~e~vld~L~~lgl~~ 68 (325)
T TIGR00341 43 DRIELYVQDSDTEKIVSRLKDKLLGY 68 (325)
T ss_pred eEEEEEcChhhHHHHHHHHHHcCCCC
Confidence 67899999999999999999997654
No 237
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=52.95 E-value=33 Score=19.99 Aligned_cols=27 Identities=4% Similarity=-0.066 Sum_probs=21.6
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++-...+..++++|.++|++.+.|+
T Consensus 154 V~~D~~~~~~~a~~~l~~~G~~~i~~i 180 (327)
T PRK10339 154 VDIDLARISKEIIDFYINQGVNRIGFI 180 (327)
T ss_pred EEECHHHHHHHHHHHHHHCCCCeEEEe
Confidence 556667778889999999999887765
No 238
>PF00542 Ribosomal_L12: Ribosomal protein L7/L12 C-terminal domain; InterPro: IPR013823 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 [, ]. This entry represents the C-terminal domain of the large subunit ribosomal proteins, known as the L7/L12 family. L7/L12 is present in each 50S subunit in four copies organised as two dimers. The L8 protein complex consisting of two dimers of L7/L12 and L10 in Escherichia coli ribosomes is assembled on the conserved region of 23 S rRNA termed the GTPase-associated domain []. The L7/L12 dimer probably interacts with EF-Tu. L7 and L12 only differ in a single post translational modification of the addition of an acetyl group to the N terminus of L7.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1DD4_B 1DD3_A 1RQU_B 2GYA_5 2GYC_5 1RQS_A 1RQV_A 1CTF_A 2XUX_L.
Probab=52.83 E-value=14 Score=18.55 Aligned_cols=23 Identities=9% Similarity=0.198 Sum_probs=17.3
Q ss_pred EEEecchhhHHHHHHHHHhcCCc
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~ 27 (33)
|.=.-+|++|+.+.+.|...|..
T Consensus 42 ik~~v~keeAe~ik~~Le~aGa~ 64 (68)
T PF00542_consen 42 IKEGVSKEEAEEIKKKLEAAGAK 64 (68)
T ss_dssp EEEEE-HHHHHHHHHHHHCCT-E
T ss_pred HHcCCCHHHHHHHHHHHHHcCCE
Confidence 33356799999999999999975
No 239
>PF00903 Glyoxalase: Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily This Prosite is specific to glyoxalases This Prosite is specific to Extradiol ring-cleavage dioxygenases This prints entry is specific to bleomycin resistance protein.; InterPro: IPR004360 Glyoxalase I (4.4.1.5 from EC) (lactoylglutathione lyase) catalyzes the first step of the glyoxal pathway. S-lactoylglutathione is then converted by glyoxalase II to lactic acid []. Glyoxalase I is an ubiquitous enzyme which binds one mole of zinc per subunit. The bacterial and yeast enzymes are monomeric while the mammalian one is homodimeric. The sequence of glyoxalase I is well conserved. The domain represented by this entry is found in glyoxalase I and in other related proteins, including fosfomycin resistance proteins FosB [], FosA [], FosX [] and dioxygenases (eg. 4-hydroxyphenylpyruvate dioxygenase).; PDB: 1CJX_A 1NPB_E 3OJT_C 3OJN_A 2IG9_B 3OJJ_B 3OJK_D 1Q0C_D 1F1X_C 3BZA_B ....
Probab=52.46 E-value=27 Score=16.79 Aligned_cols=25 Identities=12% Similarity=0.005 Sum_probs=20.8
Q ss_pred EEEEecchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.-.++.+-++.+++.+.|++.|.+.
T Consensus 77 i~~~~~~~~dl~~~~~~l~~~g~~~ 101 (128)
T PF00903_consen 77 IAFLAFDVDDLDAAYERLKAQGVEI 101 (128)
T ss_dssp EEEEESSHHHHHHHHHHHHHTTGEE
T ss_pred EEEEeccHHHHHHHHHHHhhcCccE
Confidence 3467889999999999999999653
No 240
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=52.45 E-value=33 Score=18.35 Aligned_cols=20 Identities=20% Similarity=0.189 Sum_probs=18.0
Q ss_pred ceEEEEecchhhHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYL 21 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L 21 (33)
++..|+-||.+.+++|++.+
T Consensus 37 ~~i~i~nRt~~ra~~l~~~~ 56 (135)
T PF01488_consen 37 KEITIVNRTPERAEALAEEF 56 (135)
T ss_dssp SEEEEEESSHHHHHHHHHHH
T ss_pred CEEEEEECCHHHHHHHHHHc
Confidence 46789999999999999999
No 241
>smart00049 DEP Domain found in Dishevelled, Egl-10, and Pleckstrin. Domain of unknown function present in signalling proteins that contain PH, rasGEF, rhoGEF, rhoGAP, RGS, PDZ domains. DEP domain in Drosophila dishevelled is essential to rescue planar polarity defects and induce JNK signalling (Cell 94, 109-118).
Probab=52.29 E-value=18 Score=17.39 Aligned_cols=20 Identities=10% Similarity=-0.074 Sum_probs=17.0
Q ss_pred EecchhhHHHHHHHHHhcCC
Q psy8719 7 FCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~ 26 (33)
.+.++.+|.++++.|-+.|.
T Consensus 35 ~~~~r~eA~~l~~~ll~~g~ 54 (77)
T smart00049 35 EIIDREEAVHLGQLLLDEGL 54 (77)
T ss_pred CcCCHHHHHHHHHHHHHCCC
Confidence 46789999999999988774
No 242
>PLN02723 3-mercaptopyruvate sulfurtransferase
Probab=52.10 E-value=34 Score=21.04 Aligned_cols=28 Identities=14% Similarity=0.151 Sum_probs=23.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
+.+|++|++=..+-.++-.|+..|....
T Consensus 270 ~~iv~yC~sG~~A~~~~~~L~~~G~~~v 297 (320)
T PLN02723 270 SPIVASCGTGVTACILALGLHRLGKTDV 297 (320)
T ss_pred CCEEEECCcHHHHHHHHHHHHHcCCCCe
Confidence 3689999999999999999999998644
No 243
>cd08361 PpCmtC_N N-terminal domain of 2,3-dihydroxy-p-cumate-3,4-dioxygenase (PpCmtC). This subfamily contains the N-terminal, non-catalytic, domain of PpCmtC. 2,3-dihydroxy-p-cumate-3,4-dioxygenase (CmtC of Pseudomonas putida F1) is a dioxygenase involved in the eight-step catabolism pathway of p-cymene. CmtC acts upon the reaction intermediate 2,3-dihydroxy-p-cumate, yielding 2-hydroxy-3-carboxy-6-oxo-7-methylocta-2,4-dienoate. The CmtC belongs to the type I family of extradiol dioxygenases. Fe2+ was suggested as a cofactor, same as other enzymes in the family. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=52.05 E-value=24 Score=17.99 Aligned_cols=24 Identities=13% Similarity=0.073 Sum_probs=19.5
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~ 28 (33)
|-| +.++.+.+++.+.|+++|.+.
T Consensus 63 iaf~v~~~~dv~~~~~~l~~~G~~~ 87 (124)
T cd08361 63 SGFELRDDDALESAATELEQYGHEV 87 (124)
T ss_pred EEEEECCHHHHHHHHHHHHHcCCce
Confidence 344 678889999999999999763
No 244
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=51.99 E-value=27 Score=18.96 Aligned_cols=24 Identities=17% Similarity=0.224 Sum_probs=20.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++||.|+|++-+.+.++.+++.+.
T Consensus 71 ~viii~p~~~L~~q~~~~~~~~~~ 94 (203)
T cd00268 71 QALILAPTRELALQIAEVARKLGK 94 (203)
T ss_pred eEEEEcCCHHHHHHHHHHHHHHhc
Confidence 689999999999999888876643
No 245
>PRK01231 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=51.88 E-value=43 Score=20.72 Aligned_cols=29 Identities=14% Similarity=0.118 Sum_probs=19.2
Q ss_pred CceEEEEecchh-----hHHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKL-----DCDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~-----~ad~La~~L~~~G~~~~ 29 (33)
|.++.||.|+.. .++++.++|+++|.+..
T Consensus 4 ~~~v~iv~~~~k~~a~e~~~~i~~~L~~~giev~ 37 (295)
T PRK01231 4 FRNIGLIGRLGSSSVVETLRRLKDFLLDRGLEVI 37 (295)
T ss_pred CCEEEEEecCCCHHHHHHHHHHHHHHHHCCCEEE
Confidence 346788888533 45567777877876644
No 246
>PRK14615 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional
Probab=51.80 E-value=26 Score=21.33 Aligned_cols=25 Identities=12% Similarity=0.149 Sum_probs=21.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++.++++++.++++++.|++.|..
T Consensus 266 tvfaL~~~~~~a~~i~~~l~~~g~~ 290 (296)
T PRK14615 266 SVFGLFRRRAQAEAAFEMLKGHNIR 290 (296)
T ss_pred ceEEEeCCHHHHHHHHHHHhhhccc
Confidence 4677889999999999999998654
No 247
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=51.67 E-value=29 Score=23.67 Aligned_cols=28 Identities=11% Similarity=0.101 Sum_probs=24.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
..|+.++.+.+++++++.|++.|..-..
T Consensus 4 ~~VLVTRp~~qa~~la~~L~~~G~~vi~ 31 (656)
T PRK06975 4 FTVVVTRPDGQSAALAAQLAAAGLDVLD 31 (656)
T ss_pred CEEEEeCcHhHHHHHHHHHHHcCCCEEE
Confidence 3588899999999999999999987654
No 248
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=51.66 E-value=26 Score=19.90 Aligned_cols=24 Identities=13% Similarity=0.301 Sum_probs=20.3
Q ss_pred CceEEEEecchhhHHHHHHHHHhc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+++.|+.+-|+..|+++-+.|...
T Consensus 45 ~~~Il~lTft~~aa~e~~~ri~~~ 68 (315)
T PF00580_consen 45 PERILVLTFTNAAAQEMRERIREL 68 (315)
T ss_dssp GGGEEEEESSHHHHHHHHHHHHHH
T ss_pred hHHheecccCHHHHHHHHHHHHHh
Confidence 467899999999999998888764
No 249
>PRK06756 flavodoxin; Provisional
Probab=51.35 E-value=14 Score=19.78 Aligned_cols=20 Identities=10% Similarity=0.238 Sum_probs=16.4
Q ss_pred cchhhHHHHHHHHHhcCCce
Q psy8719 9 RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~ 28 (33)
||+.-|+.+++.|++.|...
T Consensus 14 nTe~vA~~ia~~l~~~g~~v 33 (148)
T PRK06756 14 NTEEMADHIAGVIRETENEI 33 (148)
T ss_pred hHHHHHHHHHHHHhhcCCeE
Confidence 78888999999998877653
No 250
>PRK07589 ornithine cyclodeaminase; Validated
Probab=51.31 E-value=36 Score=21.58 Aligned_cols=28 Identities=14% Similarity=0.204 Sum_probs=23.2
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
++++.||-++.+.++.+++.+++.|.+.
T Consensus 154 i~~V~v~~r~~~~a~~~~~~~~~~~~~v 181 (346)
T PRK07589 154 IEEIRLYDIDPAATAKLARNLAGPGLRI 181 (346)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHhcCCcE
Confidence 3688999999999999999998765443
No 251
>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional
Probab=51.12 E-value=37 Score=22.15 Aligned_cols=30 Identities=13% Similarity=0.176 Sum_probs=25.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
+..|++|++=..+...+..|++.|....+-
T Consensus 450 ~~iivyC~~G~rS~~aa~~L~~~G~~nv~~ 479 (482)
T PRK01269 450 KTYLLYCDRGVMSRLQALYLREQGFSNVKV 479 (482)
T ss_pred CeEEEECCCCHHHHHHHHHHHHcCCccEEe
Confidence 358999999999999999999999876553
No 252
>PF14487 DUF4433: Domain of unknown function (DUF4433)
Probab=51.00 E-value=26 Score=19.97 Aligned_cols=23 Identities=17% Similarity=0.157 Sum_probs=20.9
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
|+|.+++..++|...|...|.+.
T Consensus 173 I~v~s~~~~~~v~~~l~~~~~~~ 195 (205)
T PF14487_consen 173 IGVYSDEVKDQVESLLRAAGHQI 195 (205)
T ss_pred EEECCHHHHHHHHHHHHhcCCCC
Confidence 78999999999999999999664
No 253
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=50.85 E-value=15 Score=18.92 Aligned_cols=20 Identities=10% Similarity=-0.007 Sum_probs=16.4
Q ss_pred ecchhhHHHHHHHHHhcCCc
Q psy8719 8 CRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~ 27 (33)
-||+.-|+.+++.|...|..
T Consensus 10 GnT~~~A~~i~~~~~~~g~~ 29 (140)
T TIGR01753 10 GNTEEMANIIAEGLKEAGAE 29 (140)
T ss_pred cHHHHHHHHHHHHHHhcCCe
Confidence 37888999999999887765
No 254
>PF02629 CoA_binding: CoA binding domain; InterPro: IPR003781 This domain has a Rossmann fold and is found in a number of proteins including succinyl CoA synthetases, malate and ATP-citrate ligases.; GO: 0005488 binding; PDB: 3IL2_B 3IKT_A 3IKV_B 2SCU_D 1JKJ_D 2NU7_A 1CQI_A 1JLL_A 2NU8_D 1SCU_D ....
Probab=50.79 E-value=33 Score=17.34 Aligned_cols=31 Identities=23% Similarity=0.165 Sum_probs=21.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
+-+|+++.. ..+.+.++.|-+.|..-+.=||
T Consensus 64 ~iaii~VP~-~~a~~~~~~~~~~gIk~i~nft 94 (96)
T PF02629_consen 64 DIAIITVPA-EAAQEVADELVEAGIKGIVNFT 94 (96)
T ss_dssp SEEEEES-H-HHHHHHHHHHHHTT-SEEEEES
T ss_pred CEEEEEcCH-HHHHHHHHHHHHcCCCEEEEeC
Confidence 446777754 5588888888889988776654
No 255
>COG0213 DeoA Thymidine phosphorylase [Nucleotide transport and metabolism]
Probab=50.76 E-value=9.2 Score=25.74 Aligned_cols=23 Identities=26% Similarity=0.391 Sum_probs=19.5
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.||.|.+++++||+.+.+-|.++
T Consensus 207 Afmkt~~~a~~LA~~mv~ig~~~ 229 (435)
T COG0213 207 AFMKTVEDARELAKAMVEIGKGL 229 (435)
T ss_pred CccCCHHHHHHHHHHHHHHHHhc
Confidence 39999999999999998776543
No 256
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=50.70 E-value=37 Score=23.08 Aligned_cols=23 Identities=13% Similarity=0.216 Sum_probs=18.0
Q ss_pred ceEEEEecc--------hhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRT--------KLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nT--------K~~ad~La~~L~~~ 24 (33)
.|++|||++ ...++.+++.|.+.
T Consensus 472 ~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~ 502 (681)
T PRK10917 472 RQAYVVCPLIEESEKLDLQSAEETYEELQEA 502 (681)
T ss_pred CcEEEEEcccccccchhHHHHHHHHHHHHHH
Confidence 489999995 45677888888876
No 257
>cd02553 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RsuA makes psi516 in 16S RNA. Psi at this position is not generally conserved in other organisms.
Probab=50.37 E-value=20 Score=19.99 Aligned_cols=27 Identities=11% Similarity=0.022 Sum_probs=19.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++.+..+.+ .+...++.|.
T Consensus 48 Glll~ak~~~~~~~l~~--~~~~i~K~Y~ 74 (167)
T cd02553 48 GLLLLTNDGQLAHRLTS--PKKHVPKTYE 74 (167)
T ss_pred EEEEEEeCHHHHHHhhC--CcCCCceEEE
Confidence 46899999988777765 3555667665
No 258
>PF02971 FTCD: Formiminotransferase domain; InterPro: IPR013802 The formiminotransferase (FT) domain of formiminotransferase-cyclodeaminase (FTCD) forms a homodimer, with each protomer being comprised of two subdomains. The formiminotransferase domain has an N-terminal subdomain that is made up of a six-stranded mixed beta-pleated sheet and five alpha helices, which are arranged on the external surface of the beta sheet. This, in turn, faces the beta-sheet of the C-terminal subdomain to form a double beta-sheet layer. The two subdomains are separated by a short linker sequence, which is not thought to be any more flexible than the remainder of the molecule. The substrate is predicted to form a number of contacts with residues found in both the N-terminal and C-terminal subdomains []. In humans, deficiency of this enzyme results in a disease phenotype []. This entry represents the C-terminal subdomain of the formiminotransferase domain.; GO: 0005542 folic acid binding, 0016740 transferase activity, 0008152 metabolic process; PDB: 1QD1_B 2PFD_C.
Probab=50.22 E-value=10 Score=22.07 Aligned_cols=18 Identities=11% Similarity=0.078 Sum_probs=15.6
Q ss_pred ecchhhHHHHHHHHHhcC
Q psy8719 8 CRTKLDCDNLERYLNSID 25 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G 25 (33)
-.|++.|.++|..++..|
T Consensus 10 l~T~~iA~~IA~~iR~sg 27 (145)
T PF02971_consen 10 LTTKEIAKKIAKAIRESG 27 (145)
T ss_dssp SS-HHHHHHHHHHHCTTT
T ss_pred CCcHHHHHHHHHHHHhcC
Confidence 368899999999999999
No 259
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=50.19 E-value=44 Score=19.24 Aligned_cols=28 Identities=25% Similarity=0.139 Sum_probs=22.0
Q ss_pred EEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
.|-.+-......++++|.+.|++.+.|+
T Consensus 153 ~v~~d~~~~~~~a~~~L~~~G~~~I~~i 180 (327)
T PRK10423 153 LIQDNSLLGGDLATQYLIDKGYTRIACI 180 (327)
T ss_pred EEEEChHHHHHHHHHHHHHcCCCeEEEE
Confidence 3556666778889999999999988765
No 260
>KOG2501|consensus
Probab=49.98 E-value=22 Score=20.84 Aligned_cols=23 Identities=17% Similarity=0.420 Sum_probs=20.3
Q ss_pred EEEEecchhhHHHHHHHHHhcCC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
-|||+.+-.+.+.+.+++..+++
T Consensus 70 EVvfVS~D~~~~~~~~y~~~~~~ 92 (157)
T KOG2501|consen 70 EVVFVSSDRDEESLDEYMLEHHG 92 (157)
T ss_pred EEEEEecCCCHHHHHHHHHhcCC
Confidence 48999999999999999997554
No 261
>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.
Probab=49.69 E-value=36 Score=19.22 Aligned_cols=27 Identities=22% Similarity=0.356 Sum_probs=20.1
Q ss_pred ceEEEEecchhhHH----HHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCD----NLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad----~La~~L~~~G~~~ 28 (33)
+-.||+.+|.+++. .|-+.|++.|...
T Consensus 161 DDili~s~~~~e~~~~l~~v~~~l~~~gl~l 191 (210)
T cd03715 161 DDLLLAADSEEDCLKGTDALLTHLGELGYKV 191 (210)
T ss_pred CcEEEecCCHHHHHHHHHHHHHHHHHCCCCc
Confidence 45789999988877 6667777777643
No 262
>PF13616 Rotamase_3: PPIC-type PPIASE domain; PDB: 3RFW_A 3UI5_A 3UI4_A 1FJD_A 1EQ3_A 1ZK6_A.
Probab=49.65 E-value=24 Score=18.50 Aligned_cols=22 Identities=18% Similarity=0.199 Sum_probs=16.9
Q ss_pred EEEecc-----------hhhHHHHHHHHHhcCCc
Q psy8719 5 LIFCRT-----------KLDCDNLERYLNSIDRR 27 (33)
Q Consensus 5 IVF~nT-----------K~~ad~La~~L~~~G~~ 27 (33)
-||+++ |..++.|.+.|+ .|-.
T Consensus 20 ~I~i~~~~~~~~~~~~ak~~a~~i~~~l~-~G~d 52 (117)
T PF13616_consen 20 HILIPVPDASSRSKEEAKKKADSILKQLK-SGAD 52 (117)
T ss_dssp EEEESS-----------HHHHHHHHHHHH-CTCC
T ss_pred EEEEeccccccchhHHHHHHHHHHHHHHH-CCCC
Confidence 577777 888999998888 5544
No 263
>TIGR01220 Pmev_kin_Gr_pos phosphomevalonate kinase, ERG8-type, Gram-positive branch. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found - the animal type and this ERG8 type. This model represents the low GC Gram-positive organism forms of the ERG8 type of phosphomevalonate kinase.
Probab=49.63 E-value=38 Score=21.17 Aligned_cols=26 Identities=4% Similarity=0.014 Sum_probs=22.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
-+|.+++...++++|.+.|+++|..-
T Consensus 324 ~~ial~~~~~~~~~~~~~~~~~G~~~ 349 (358)
T TIGR01220 324 CGIAILDAEADITHVRQRWETAGILP 349 (358)
T ss_pred EEEEEeCCchhHHHHHHHHHHCCCeE
Confidence 35778988999999999999999654
No 264
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=49.53 E-value=27 Score=24.26 Aligned_cols=22 Identities=14% Similarity=0.096 Sum_probs=20.3
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++|||+++....+.+++.|..
T Consensus 675 g~~LVlftS~~~l~~v~~~L~~ 696 (850)
T TIGR01407 675 PKILVLFTSYEMLHMVYDMLNE 696 (850)
T ss_pred CCEEEEeCCHHHHHHHHHHHhh
Confidence 5799999999999999999976
No 265
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=49.52 E-value=43 Score=18.37 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=19.1
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|.++........+++|.+.|++.+-++
T Consensus 100 V~~d~~~~~~~a~~~l~~~g~~~i~~i 126 (268)
T cd06271 100 VDFDNEAAAYQAVRRLIALGHRRIALL 126 (268)
T ss_pred EeeCcHHHHHHHHHHHHHcCCCcEEEe
Confidence 556666777777888887787776654
No 266
>PHA02558 uvsW UvsW helicase; Provisional
Probab=49.18 E-value=29 Score=22.47 Aligned_cols=23 Identities=13% Similarity=0.066 Sum_probs=21.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++||.|+|++-++++.+.|++.+
T Consensus 160 ~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 160 KVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred eEEEEECcHHHHHHHHHHHHHhc
Confidence 79999999999999999998765
No 267
>PRK05569 flavodoxin; Provisional
Probab=49.17 E-value=16 Score=19.25 Aligned_cols=19 Identities=0% Similarity=0.001 Sum_probs=16.0
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
||+.-|+.+++.|.+.|..
T Consensus 14 nT~~iA~~i~~~~~~~g~~ 32 (141)
T PRK05569 14 NVEVLANTIADGAKEAGAE 32 (141)
T ss_pred HHHHHHHHHHHHHHhCCCe
Confidence 7889999999999887754
No 268
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=49.09 E-value=44 Score=18.32 Aligned_cols=27 Identities=15% Similarity=0.044 Sum_probs=19.8
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|..+-...+..++++|.+.|++.+.++
T Consensus 96 v~~d~~~~~~~~~~~l~~~g~~~i~~i 122 (268)
T cd01575 96 VGFSHAEAGRAMARHLLARGYRRIGFL 122 (268)
T ss_pred EEeCcHHHHHHHHHHHHHCCCCcEEEe
Confidence 555667777788888888888776654
No 269
>PRK13909 putative recombination protein RecB; Provisional
Probab=48.90 E-value=29 Score=24.36 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=23.6
Q ss_pred ceEEEEecchhhHHHHHHHHHhc-CCcee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI-DRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~-G~~~~ 29 (33)
+...|-|+|+.++..+++.|.+. |....
T Consensus 472 ~dIaILvR~~~~~~~l~~~L~~~~gIP~~ 500 (910)
T PRK13909 472 DDIAILCWTNDDALEIKEFLQEQFGIKAV 500 (910)
T ss_pred CCEEEEEecCccHHHHHHHHHhcCCCCEE
Confidence 45678899999999999999999 87653
No 270
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=48.76 E-value=45 Score=19.60 Aligned_cols=27 Identities=15% Similarity=0.094 Sum_probs=21.3
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++........+++|.+.|++.+.|+
T Consensus 156 V~~D~~~~~~~a~~~L~~~G~~~I~~i 182 (346)
T PRK10401 156 VCLDNVSGARMATRMLLNNGHQRIGYL 182 (346)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 455667778888899999999888765
No 271
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=48.57 E-value=24 Score=16.17 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=12.6
Q ss_pred chhhHHHHHHHHHhc
Q psy8719 10 TKLDCDNLERYLNSI 24 (33)
Q Consensus 10 TK~~ad~La~~L~~~ 24 (33)
|.++.+.|+.+|+..
T Consensus 76 s~~e~~~l~ayl~sl 90 (91)
T PF00034_consen 76 SDEEIADLAAYLRSL 90 (91)
T ss_dssp SHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHh
Confidence 678899999999864
No 272
>cd07255 Glo_EDI_BRP_like_12 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=48.37 E-value=29 Score=17.11 Aligned_cols=21 Identities=19% Similarity=0.115 Sum_probs=17.6
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+.+.++.+++.+.|.++|...
T Consensus 72 v~~~~~v~~~~~~l~~~g~~~ 92 (125)
T cd07255 72 LPSRADLAAALRRLIELGIPL 92 (125)
T ss_pred CCCHHHHHHHHHHHHHcCCce
Confidence 467789999999999999753
No 273
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=48.31 E-value=29 Score=16.40 Aligned_cols=21 Identities=14% Similarity=0.205 Sum_probs=17.2
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
++.+++.+++-+.|++.|...
T Consensus 46 ~~~~~~~~~i~~~L~~~G~~~ 66 (68)
T cd04885 46 VPDREDLAELKERLEALGYPY 66 (68)
T ss_pred eCCHHHHHHHHHHHHHcCCCc
Confidence 456779999999999999753
No 274
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=48.20 E-value=47 Score=22.59 Aligned_cols=31 Identities=16% Similarity=0.274 Sum_probs=24.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhc-CCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI-DRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~-G~~~~~~~ 32 (33)
.++||-+.++..|+.+++.|... +....+||
T Consensus 58 r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f 89 (652)
T PRK05298 58 RPTLVLAHNKTLAAQLYSEFKEFFPENAVEYF 89 (652)
T ss_pred CCEEEEECCHHHHHHHHHHHHHhcCCCeEEEe
Confidence 36799999999999999999777 55545555
No 275
>PRK09526 lacI lac repressor; Reviewed
Probab=48.16 E-value=46 Score=19.37 Aligned_cols=27 Identities=7% Similarity=-0.080 Sum_probs=20.4
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-.+.......++++|.++|++.+.++
T Consensus 161 V~~d~~~~~~~a~~~L~~~G~~~I~~l 187 (342)
T PRK09526 161 VSFDPEDGTRLGVEHLVELGHQRIALL 187 (342)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 344556677888899999998887765
No 276
>PF03091 CutA1: CutA1 divalent ion tolerance protein; InterPro: IPR004323 The CutA family of proteins which exhibit ion tolerance are found in a large variety of species []. In E.Coli, two operons on the cutA locus contain genes that encode three proteins, CutA1, CutA2 and CutA3. CutA1 proteins are found in the cytoplasm while CutA2 (50kDa) and CutA3 (24kDa) are located in the inner membrane. Although the role of E. Coli CutA1 is not clear, studies on E. coli cutA locus describe some mutations that lead to an increase in copper sensitivity, thus suggesting a role in ion tolerance []. To date, the structure of CutA proteins from several species have been solved [, ]. The crystal structures of the E.Coli and rat CutA1 proteins show both these proteins to be trimeric in the crystal as well as in solution[].Trimerisation seems to supported by the formation of beta sheets between the subunit. This trimeric structure suggests the protein may be involved in signal transduction due to architectural similarities with PII signal transducer proteins []. Recent studies propose that mammalian CutA1 in the neuronal cell membrane acts as an anchor for acetylcholinesterase (AChE)1 [].; GO: 0010038 response to metal ion; PDB: 1O5J_A 1KR4_A 1VHF_A 3GSD_H 1OSC_A 3OPK_A 4E98_C 1V9B_F 1UKU_A 2E66_C ....
Probab=48.11 E-value=43 Score=17.86 Aligned_cols=23 Identities=13% Similarity=0.235 Sum_probs=18.8
Q ss_pred EEEEecchhhHHHHHHHHHhcCC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
+++=|.+++.|+++++.|-+.+-
T Consensus 4 v~tT~p~~e~A~~ia~~lve~rL 26 (102)
T PF03091_consen 4 VYTTCPDREEAERIARALVEERL 26 (102)
T ss_dssp EEEEESSHHHHHHHHHHHHHTTS
T ss_pred EEEEcCCHHHHHHHHHHHHhCCe
Confidence 44557899999999999988764
No 277
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=47.68 E-value=27 Score=18.77 Aligned_cols=19 Identities=21% Similarity=0.310 Sum_probs=14.8
Q ss_pred ceEEEEecchhhHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERY 20 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~ 20 (33)
..+++||+|-.++-.|+..
T Consensus 87 ~Pvl~hC~sG~Ra~~l~~l 105 (110)
T PF04273_consen 87 KPVLAHCRSGTRASALWAL 105 (110)
T ss_dssp TSEEEE-SCSHHHHHHHHH
T ss_pred CCEEEECCCChhHHHHHHH
Confidence 4689999999999888754
No 278
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT). Telomerase is a ribonucleoprotein (RNP) that synthesizes telomeric DNA repeats. The telomerase RNA subunit provides the template for synthesis of these repeats. The catalytic subunit of RNP is known as telomerase reverse transcriptase (TERT). The reverse transcriptase (RT) domain is located in the C-terminal region of the TERT polypeptide. Single amino acid substitutions in this region lead to telomere shortening and senescence. Telomerase is an enzyme that, in certain cells, maintains the physical ends of chromosomes (telomeres) during replication. In somatic cells, replication of the lagging strand requires the continual presence of an RNA primer approximately 200 nucleotides upstream, which is complementary to the template strand. Since there is a region of DNA less than 200 base pairs from the end of the chromosome where this is not possible, the chromosome is continually shortened. However, a surplus of repetitive DNA at
Probab=47.64 E-value=41 Score=17.66 Aligned_cols=22 Identities=9% Similarity=-0.093 Sum_probs=17.9
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
-.++|++++.+++++-+.|.+.
T Consensus 61 D~li~~~~~~~~~~~~~~l~~~ 82 (119)
T cd01648 61 DFLLITTSLDKAIKFLNLLLRG 82 (119)
T ss_pred cEEEEeCCHHHHHHHHHHHHHh
Confidence 3689999999999888887653
No 279
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=47.58 E-value=28 Score=17.52 Aligned_cols=20 Identities=20% Similarity=0.047 Sum_probs=15.5
Q ss_pred hhHHHHHHHHHhcCCceeee
Q psy8719 12 LDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 12 ~~ad~La~~L~~~G~~~~~~ 31 (33)
.-+.+|++.|.+.|++...+
T Consensus 16 ~~~~~l~~~l~~~G~~v~v~ 35 (177)
T PF13439_consen 16 RVVLNLARALAKRGHEVTVV 35 (177)
T ss_dssp HHHHHHHHHHHHTT-EEEEE
T ss_pred HHHHHHHHHHHHCCCEEEEE
Confidence 45778999999999987665
No 280
>PRK06703 flavodoxin; Provisional
Probab=47.56 E-value=18 Score=19.39 Aligned_cols=19 Identities=21% Similarity=0.221 Sum_probs=15.2
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
||+.-|+.|++.|...|..
T Consensus 14 nT~~iA~~ia~~l~~~g~~ 32 (151)
T PRK06703 14 NTEDIADLIKVSLDAFDHE 32 (151)
T ss_pred hHHHHHHHHHHHHHhcCCc
Confidence 6788888888888887765
No 281
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=47.22 E-value=44 Score=22.40 Aligned_cols=30 Identities=7% Similarity=0.230 Sum_probs=23.8
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHh-cCCceee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNS-IDRRLIY 30 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~-~G~~~~~ 30 (33)
+++++|+++|-++ +-.+|++++. +|+....
T Consensus 201 l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl 242 (463)
T PRK09280 201 LDKTALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQDVLL 242 (463)
T ss_pred cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEE
Confidence 4688999999877 6779999999 8876543
No 282
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=47.17 E-value=23 Score=18.36 Aligned_cols=19 Identities=5% Similarity=0.048 Sum_probs=16.4
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.++++|..+++.|-+.|.
T Consensus 46 ~~~R~eAv~~g~~Ll~~G~ 64 (84)
T cd04438 46 LTDRREARKYASSLLKLGY 64 (84)
T ss_pred CCCHHHHHHHHHHHHHCCc
Confidence 4688999999999998874
No 283
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=46.89 E-value=44 Score=20.40 Aligned_cols=27 Identities=11% Similarity=-0.004 Sum_probs=22.5
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|....+..+...+++|-+.|++.+-+.
T Consensus 155 V~~Dn~~~~~~a~~~L~~~G~~~i~~i 181 (333)
T COG1609 155 VGIDNFAGAYLATEHLIELGHRRIAFI 181 (333)
T ss_pred EEEChHHHHHHHHHHHHHCCCceEEEE
Confidence 667778889999999999999877654
No 284
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=46.80 E-value=60 Score=19.13 Aligned_cols=31 Identities=10% Similarity=-0.044 Sum_probs=21.2
Q ss_pred CceEEEEecch-------hhHHHHHHHHHhcCCceeee
Q psy8719 1 MDRALIFCRTK-------LDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 1 ~~~aIVF~nTK-------~~ad~La~~L~~~G~~~~~~ 31 (33)
|.+.+|+.|-. +..+++.+.|.+.|.....+
T Consensus 1 ~~~~~ii~Np~sg~~~~~~~~~~i~~~l~~~~~~~~~~ 38 (293)
T TIGR00147 1 MAEAPAILNPTAGKSNDNKPLREVIMLLREEGMEIHVR 38 (293)
T ss_pred CceEEEEECCCccchhhHHHHHHHHHHHHHCCCEEEEE
Confidence 56778888872 33456777888888776544
No 285
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=46.64 E-value=37 Score=20.84 Aligned_cols=26 Identities=19% Similarity=0.204 Sum_probs=20.9
Q ss_pred eEEEEecchhh------HHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLD------CDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~------ad~La~~L~~~G~~~ 28 (33)
++|.||++|=+ +--||..|.++|...
T Consensus 2 ~vItf~s~KGGaGKTT~~~~LAs~la~~G~~V 33 (231)
T PF07015_consen 2 PVITFASSKGGAGKTTAAMALASELAARGARV 33 (231)
T ss_pred CeEEEecCCCCCcHHHHHHHHHHHHHHCCCeE
Confidence 57999999976 466889998888754
No 286
>PRK07411 hypothetical protein; Validated
Probab=46.63 E-value=37 Score=21.58 Aligned_cols=26 Identities=12% Similarity=0.079 Sum_probs=23.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..+|+|.+-..+...+..|++.|...
T Consensus 344 ~IVvyC~~G~RS~~aa~~L~~~G~~~ 369 (390)
T PRK07411 344 RLIAHCKMGGRSAKALGILKEAGIEG 369 (390)
T ss_pred eEEEECCCCHHHHHHHHHHHHcCCCe
Confidence 57999999999999999999999863
No 287
>cd00148 PROF Profilin binds actin monomers, membrane polyphosphoinositides such as PI(4,5)P2, and poly-L-proline. Profilin can inhibit actin polymerization into F-actin by binding to monomeric actin (G-actin) and terminal F-actin subunits, but - as a regulator of the cytoskeleton - it may also promote actin polymerization. It plays a role in the assembly of branched actin filament networks, by activating WASP via binding to WASP's proline rich domain. Profilin may link the cytoskeleton with major signalling pathways by interacting with components of the phosphatidylinositol cycle and Ras pathway.
Probab=46.49 E-value=21 Score=19.32 Aligned_cols=15 Identities=27% Similarity=0.346 Sum_probs=12.5
Q ss_pred hhhHHHHHHHHHhcC
Q psy8719 11 KLDCDNLERYLNSID 25 (33)
Q Consensus 11 K~~ad~La~~L~~~G 25 (33)
...+++|+++|.++|
T Consensus 112 ~~~v~~ladYL~~~g 126 (127)
T cd00148 112 NKVVEKLADYLRSQG 126 (127)
T ss_pred HHHHHHHHHHHHHcC
Confidence 456889999999887
No 288
>cd02868 PseudoU_synth_hTruB2_like PseudoU_synth_ hTRUB2_Like: Pseudouridine synthase, humanTRUB2_like. This group consists of eukaryotic pseudouridine synthases similar to human TruB pseudouridine synthase homolog 2 (TRUB2). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi).
Probab=46.43 E-value=38 Score=20.47 Aligned_cols=28 Identities=18% Similarity=0.142 Sum_probs=22.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
-+|+|+.++.. ++.++|.+.+..+.|..
T Consensus 46 Gvl~~a~~~~t--kl~~~~~~~~~~K~Y~~ 73 (226)
T cd02868 46 GVLVLGVNHGN--KLLSHLYSNHPTRVYTI 73 (226)
T ss_pred eEEEEEeChhH--hHHHHHHhcCCCeEEEE
Confidence 36788888764 79999998888888864
No 289
>cd07241 Glo_EDI_BRP_like_3 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=46.25 E-value=34 Score=16.59 Aligned_cols=20 Identities=25% Similarity=0.238 Sum_probs=16.4
Q ss_pred chhhHHHHHHHHHhcCCcee
Q psy8719 10 TKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~~ 29 (33)
+.++.+++.+.|+++|.+..
T Consensus 80 ~~~~v~~~~~~l~~~g~~~~ 99 (125)
T cd07241 80 SKEAVDELTERLRADGYLII 99 (125)
T ss_pred CHHHHHHHHHHHHHCCCEEE
Confidence 45789999999999997653
No 290
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=46.22 E-value=24 Score=16.21 Aligned_cols=19 Identities=11% Similarity=0.101 Sum_probs=12.9
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
++++.++++.+.|++.|..
T Consensus 13 ~~~~~A~~~~~~l~~~g~~ 31 (76)
T PF05036_consen 13 SSEENAERLLAKLKKKGPD 31 (76)
T ss_dssp S-HHHHHHHHHHHHHHT--
T ss_pred CCHHHHHHHHHHHHhcCCC
Confidence 5778888888888888654
No 291
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=45.90 E-value=44 Score=17.34 Aligned_cols=27 Identities=7% Similarity=0.110 Sum_probs=23.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
.++|+.++.++...+.++.++.|..+.
T Consensus 2 ~~vv~P~s~~ev~~~v~~a~~~~~~v~ 28 (139)
T PF01565_consen 2 AAVVRPKSVEEVQAIVKFANENGVPVR 28 (139)
T ss_dssp SEEEEESSHHHHHHHHHHHHHTTSEEE
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCcEE
Confidence 579999999999999999998876653
No 292
>PRK05568 flavodoxin; Provisional
Probab=45.83 E-value=30 Score=18.11 Aligned_cols=20 Identities=5% Similarity=-0.041 Sum_probs=16.1
Q ss_pred cchhhHHHHHHHHHhcCCce
Q psy8719 9 RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~ 28 (33)
||+.-|+.+++.|.+.|...
T Consensus 14 nT~~~a~~i~~~~~~~g~~v 33 (142)
T PRK05568 14 NTEAMANLIAEGAKENGAEV 33 (142)
T ss_pred hHHHHHHHHHHHHHHCCCeE
Confidence 78888888999888877653
No 293
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=45.77 E-value=34 Score=21.13 Aligned_cols=24 Identities=13% Similarity=0.220 Sum_probs=19.6
Q ss_pred EEEEecchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
-|+-++++ +++.+++.|++.|.+-
T Consensus 13 rIlvtr~~-~a~~la~~L~~~G~~~ 36 (381)
T PRK07239 13 TVGVTAAR-RAEELAALLERRGARV 36 (381)
T ss_pred EEEEeccC-CHHHHHHHHHHcCCeE
Confidence 45566777 8999999999999874
No 294
>cd07265 2_3_CTD_N N-terminal domain of catechol 2,3-dioxygenase. This subfamily contains the N-terminal, non-catalytic, domain of catechol 2,3-dioxygenase. Catechol 2,3-dioxygenase (2,3-CTD, catechol:oxygen 2,3-oxidoreductase) catalyzes an extradiol cleavage of catechol to form 2-hydroxymuconate semialdehyde with the insertion of two atoms of oxygen. The enzyme is a homotetramer and contains catalytically essential Fe(II) . The reaction proceeds by an ordered bi-unit mechanism. First, catechol binds to the enzyme, this is then followed by the binding of dioxygen to form a tertiary complex, and then the aromatic ring is cleaved to produce 2-hydroxymuconate semialdehyde. Catechol 2,3-dioxygenase belongs to the type I extradiol dioxygenase family. The subunit comprises the N- and C-terminal domains of similar structure fold, resulting from an ancient gene duplication. The active site is located in a funnel-shaped space of the C-terminal domain. This subfamily represents the N-terminal do
Probab=45.62 E-value=40 Score=16.74 Aligned_cols=24 Identities=21% Similarity=0.261 Sum_probs=19.4
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~ 28 (33)
|-| +.++++.+.+.+.|+++|...
T Consensus 65 iaf~v~~~~dv~~~~~~l~~~G~~~ 89 (122)
T cd07265 65 MGFKVLDDADLEKLEARLQAYGVAV 89 (122)
T ss_pred EEEEeCCHHHHHHHHHHHHHCCCcE
Confidence 444 567889999999999999764
No 295
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=45.57 E-value=55 Score=22.50 Aligned_cols=30 Identities=17% Similarity=0.280 Sum_probs=23.7
Q ss_pred eEEEEecchhhHHHHHHHHHhc-CCceeeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI-DRRLIYYF 32 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~-G~~~~~~~ 32 (33)
.+||-+.+|..|+.|++.|+.. +....+||
T Consensus 56 p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f 86 (655)
T TIGR00631 56 PTLVIAHNKTLAAQLYNEFKEFFPENAVEYF 86 (655)
T ss_pred CEEEEECCHHHHHHHHHHHHHhCCCCeEEEE
Confidence 5799999999999999999876 44434444
No 296
>cd06588 PhnB_like Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates. The Escherichia coli phnB gene is found next to an operon of fourteen genes (phnC-to-phnP) related to the cleavage of carbon-phosphorus (C-P) bonds in unactivated alkylphosphonates, supporting bacterial growth on alkylphosphonates as the sole phosphorus source. It was originally considered part of that operon. PhnB appears to play no direct catalytic role in the usage of alkylphosphonate. Although many of the proteins in this family have been annotated as 3-demethylubiquinone-9 3-methyltransferase enzymes by automatic annotation programs, the experimental evidence for this assignment is lacking. In Escherichia coli, the gene coding 3-demethylubiquinone-9 3-methyltransferase enzyme is ubiG, which belongs to the AdoMet-MTase protein family. PhnB-like proteins adopt a structural fold similar to
Probab=45.54 E-value=41 Score=17.33 Aligned_cols=22 Identities=18% Similarity=0.217 Sum_probs=18.1
Q ss_pred EEEEecchhhHHHHHHHHHhcC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G 25 (33)
..+.|.+.++++++.+.|.+.|
T Consensus 78 l~i~~~~~e~v~~~~~~l~~~g 99 (128)
T cd06588 78 LSVECDSEEEADRLFEALSEGG 99 (128)
T ss_pred EEEECCCHHHHHHHHHHHhcCC
Confidence 4566888899999999997766
No 297
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=45.24 E-value=43 Score=19.54 Aligned_cols=26 Identities=27% Similarity=0.385 Sum_probs=21.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+++|+|.+| ++.|+.-+.|+.+|..+
T Consensus 108 ~KAlli~r~-ed~d~~~~aLed~gi~~ 133 (142)
T COG4747 108 QKALLIVRV-EDIDRAIKALEDAGIKL 133 (142)
T ss_pred ceEEEEEEh-hHHHHHHHHHHHcCCee
Confidence 468888887 56788999999998765
No 298
>smart00392 PROF Profilin. Binds actin monomers, membrane polyphosphoinositides and poly-L-proline.
Probab=45.15 E-value=23 Score=19.14 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=13.4
Q ss_pred cchhhHHHHHHHHHhcC
Q psy8719 9 RTKLDCDNLERYLNSID 25 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G 25 (33)
+-...++.|+++|.+.|
T Consensus 112 ~~~~~v~~ladYL~~~G 128 (129)
T smart00392 112 QANKTVEKLADYLRSSG 128 (129)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 34567889999999887
No 299
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=45.11 E-value=45 Score=22.41 Aligned_cols=28 Identities=14% Similarity=0.239 Sum_probs=23.0
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~G~~~ 28 (33)
+++++|+++|-++ +-.+|++++.+|...
T Consensus 218 l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~V 256 (502)
T PRK09281 218 MEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDA 256 (502)
T ss_pred ccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCE
Confidence 4678999999887 788999999887754
No 300
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=45.00 E-value=46 Score=17.27 Aligned_cols=24 Identities=8% Similarity=0.057 Sum_probs=19.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++|++|+++.-++.+.+.+...+.
T Consensus 52 ~~l~~~p~~~l~~Q~~~~~~~~~~ 75 (184)
T PF04851_consen 52 KVLIVAPNISLLEQWYDEFDDFGS 75 (184)
T ss_dssp EEEEEESSHHHHHHHHHHHHHHST
T ss_pred ceeEecCHHHHHHHHHHHHHHhhh
Confidence 689999999999999988854444
No 301
>PF15614 WHIM3: WSTF, HB1, Itc1p, MBD9 motif 3
Probab=44.97 E-value=17 Score=17.52 Aligned_cols=21 Identities=24% Similarity=0.362 Sum_probs=16.4
Q ss_pred EecchhhHHHHHHHH-HhcCCc
Q psy8719 7 FCRTKLDCDNLERYL-NSIDRR 27 (33)
Q Consensus 7 F~nTK~~ad~La~~L-~~~G~~ 27 (33)
+..+.+++|+|.+.| .-.|.+
T Consensus 3 ~~~~~e~ld~L~~aL~~prG~R 24 (46)
T PF15614_consen 3 YYDDPEELDELLKALENPRGKR 24 (46)
T ss_pred cccCHHHHHHHHHHHcCcccHh
Confidence 456788999999999 776654
No 302
>PRK13695 putative NTPase; Provisional
Probab=44.89 E-value=52 Score=17.88 Aligned_cols=31 Identities=13% Similarity=0.154 Sum_probs=24.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
..+|.+-.+.....+++.+...-++.++.+|
T Consensus 127 ~~~i~v~h~~~~~~~~~~i~~~~~~~i~~~~ 157 (174)
T PRK13695 127 KPVIATLHRRSVHPFVQEIKSRPGGRVYELT 157 (174)
T ss_pred CeEEEEECchhhHHHHHHHhccCCcEEEEEc
Confidence 5677777788888888889888888888764
No 303
>COG4003 Uncharacterized protein conserved in archaea [Function unknown]
Probab=44.65 E-value=24 Score=19.44 Aligned_cols=19 Identities=21% Similarity=0.413 Sum_probs=16.4
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
|.|-++|-++-++|.++|-
T Consensus 44 CdT~EEAlEii~yleKrGE 62 (98)
T COG4003 44 CDTEEEALEIINYLEKRGE 62 (98)
T ss_pred hCcHHHHHHHHHHHHHhCC
Confidence 7888999999999998873
No 304
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=44.65 E-value=23 Score=20.38 Aligned_cols=18 Identities=22% Similarity=0.453 Sum_probs=14.2
Q ss_pred ecchhhHHHHHHHHHhcC
Q psy8719 8 CRTKLDCDNLERYLNSID 25 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G 25 (33)
|.|-++|-+|-++|.++|
T Consensus 74 C~T~EEALEVInylek~G 91 (128)
T PF09868_consen 74 CKTDEEALEVINYLEKRG 91 (128)
T ss_pred hCcHHHHHHHHHHHHHhC
Confidence 677788888888887776
No 305
>PRK13618 psbV cytochrome c-550; Provisional
Probab=44.65 E-value=27 Score=20.41 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=16.9
Q ss_pred chhhHHHHHHHHHh--------cCCceeee
Q psy8719 10 TKLDCDNLERYLNS--------IDRRLIYY 31 (33)
Q Consensus 10 TK~~ad~La~~L~~--------~G~~~~~~ 31 (33)
|.++.+.|+.+|-. =|++++||
T Consensus 134 sd~eL~ava~yll~~~~~~~~~wgggk~y~ 163 (163)
T PRK13618 134 TDKDLEAIAGHILVQPKILGDKWGGGKIYY 163 (163)
T ss_pred CHHHHHHHHHHHHhccCCcccccCCceecC
Confidence 56788999999854 37788886
No 306
>PRK02649 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=44.54 E-value=61 Score=20.28 Aligned_cols=28 Identities=18% Similarity=0.183 Sum_probs=18.7
Q ss_pred CceEEEEecchh-h----HHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKL-D----CDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~-~----ad~La~~L~~~G~~~ 28 (33)
|.+..|+.|... + +.+|.++|.++|.+.
T Consensus 1 m~~igiv~n~~~~~~~~~~~~l~~~L~~~g~~v 33 (305)
T PRK02649 1 MPKAGIIYNDGKPLAVRTAEELQDKLEAAGWEV 33 (305)
T ss_pred CCEEEEEEcCCCHHHHHHHHHHHHHHHHCCCEE
Confidence 567788888544 3 456667777777654
No 307
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.48 E-value=44 Score=24.07 Aligned_cols=28 Identities=11% Similarity=0.326 Sum_probs=24.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
..-|-|+++.+++.+.+.|.+.|....+
T Consensus 471 DIAVLvRs~~~a~~i~~aL~~~GIP~~~ 498 (1087)
T TIGR00609 471 DIAVLVRGRKEANQIRKALKKAQIPSVY 498 (1087)
T ss_pred cEEEEEeCCchHHHHHHHHHHCCCCEEE
Confidence 4568899999999999999999987654
No 308
>PF09286 Pro-kuma_activ: Pro-kumamolisin, activation domain ; InterPro: IPR015366 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) [, ]. This domain is found at the N terminus of peptidases belonging to MEROPS peptidase family S53 (sedolisin, clan SB). The domain adopts a ferredoxin-like fold, with an alpha+beta sandwich. Cleavage of the domain results in activation of the peptidase []. ; GO: 0008236 serine-type peptidase activity; PDB: 1T1E_A 3EDY_A 3EE6_A.
Probab=44.45 E-value=21 Score=19.17 Aligned_cols=23 Identities=17% Similarity=0.336 Sum_probs=16.6
Q ss_pred EecchhhHHHHHHHHHhcCCcee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~ 29 (33)
|..+.++.+.|.++|+++|....
T Consensus 57 ~~p~~~~v~~V~~wL~~~G~~~~ 79 (143)
T PF09286_consen 57 FAPSPEDVAAVKSWLKSHGLTVV 79 (143)
T ss_dssp HS--HHHHHHHHHHHHHCT-EEE
T ss_pred HCCCHHHHHHHHHHHHHcCCcee
Confidence 45677889999999999997654
No 309
>PF02158 Neuregulin: Neuregulin family; InterPro: IPR002154 Neuregulins are a sub-family of EGF-like molecules that have been shown to play multiple essential roles in vertebrate embryogenesis including: cardiac development, Schwann cell and oligodendrocyte differentiation, some aspects of neuronal development, as well as the formation of neuromuscular synapses [, ]. Included in the family are heregulin; neu differentiation factor; acetylcholine receptor synthesis stimulator; glial growth factor; and sensory and motor-neuron derived factor []. Multiple family members are generated by alternate splicing or by use of several cell type-specific transcription initiation sites. In general, they bind to and activate the erbB family of receptor tyrosine kinases (erbB2 (HER2), erbB3 (HER3), and erbB4 (HER4)), functioning both as heterodimers and homodimers. The transmembrane forms of neuregulin 1 (NRG1) are present within synaptic vesicles, including those containing glutamate []. After exocytosis, NRG1 is in the presynaptic membrane, where the ectodomain of NRG1 may be cleaved off. The ectodomain then migrates across the synaptic cleft and binds to and activates a member of the EGF-receptor family on the postsynaptic membrane. This has been shown to increase the expression of certain glutamate-receptor subunits. NRG1 appears to signal for glutamate-receptor subunit expression, localisation, and /or phosphorylation facilitating subsequent glutamate transmission. The NRG1 gene has been identified as a potential gene determining susceptibility to schizophrenia by a combination of genetic linkage and association approaches []. ; GO: 0005102 receptor binding, 0009790 embryo development; PDB: 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=44.43 E-value=7.4 Score=25.99 Aligned_cols=25 Identities=28% Similarity=0.483 Sum_probs=0.0
Q ss_pred EEecchhhHHHHHHHHHhcCCceee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.+|+||++...+-+.|++.-.+..|
T Consensus 30 aYCKTKKQRkklh~hLkqs~~~~~~ 54 (404)
T PF02158_consen 30 AYCKTKKQRKKLHEHLKQSQRSKNY 54 (404)
T ss_dssp -------------------------
T ss_pred HHHHhHHHHHHHHHHHhhhcccchh
Confidence 5999999999999999886555444
No 310
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=44.32 E-value=56 Score=18.95 Aligned_cols=27 Identities=15% Similarity=0.148 Sum_probs=20.1
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++....+..++++|-+.|++.+-|+
T Consensus 158 V~~dn~~~~~~~~~~L~~~G~~~I~~i 184 (327)
T TIGR02417 158 VISDDVDAAAELIERLLSQHADEFWYL 184 (327)
T ss_pred EEeCcHHHHHHHHHHHHHCCCCeEEEE
Confidence 445666777888888888888877664
No 311
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=44.10 E-value=35 Score=22.73 Aligned_cols=25 Identities=20% Similarity=0.169 Sum_probs=21.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++||.+.|++-|..+.+.+++.+..
T Consensus 86 raLIl~PTreLa~Qi~~~~~~l~~~ 110 (572)
T PRK04537 86 RALILAPTRELAIQIHKDAVKFGAD 110 (572)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhcc
Confidence 7999999999999999988876643
No 312
>PRK03378 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=44.07 E-value=60 Score=20.10 Aligned_cols=28 Identities=14% Similarity=0.105 Sum_probs=18.4
Q ss_pred CceEEEEecchh-h----HHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKL-D----CDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~-~----ad~La~~L~~~G~~~ 28 (33)
+.++.|+.|... + +.+++++|.++|.+.
T Consensus 5 ~~~i~iv~~~~~~~~~~~~~~i~~~l~~~g~~v 37 (292)
T PRK03378 5 FKCIGIVGHPRHPTALTTHEMLYHWLTSKGYEV 37 (292)
T ss_pred CCEEEEEEeCCCHHHHHHHHHHHHHHHHCCCEE
Confidence 346788888544 3 456777787777653
No 313
>KOG0235|consensus
Probab=43.85 E-value=30 Score=21.00 Aligned_cols=23 Identities=9% Similarity=0.161 Sum_probs=20.2
Q ss_pred hhhHHHHHHHHHhcCCceeeeeC
Q psy8719 11 KLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 11 K~~ad~La~~L~~~G~~~~~~~~ 33 (33)
..+|..+++.|+..+..+.++||
T Consensus 37 ~~qA~~~~~~l~~~~~~~~~~~t 59 (214)
T KOG0235|consen 37 EEQAKAAAQRLKDLNIEFDVCYT 59 (214)
T ss_pred HHHHHHHHHHHHhcCCcccEEec
Confidence 35789999999999999999886
No 314
>PRK04539 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=43.77 E-value=62 Score=20.11 Aligned_cols=28 Identities=18% Similarity=0.223 Sum_probs=18.4
Q ss_pred CceEEEEecchh-h----HHHHHHHHHhcCCce
Q psy8719 1 MDRALIFCRTKL-D----CDNLERYLNSIDRRL 28 (33)
Q Consensus 1 ~~~aIVF~nTK~-~----ad~La~~L~~~G~~~ 28 (33)
+.++.||.|... + ++++.++|.++|.+.
T Consensus 5 ~~~i~ii~~~~~~~~~~~~~~l~~~L~~~g~~v 37 (296)
T PRK04539 5 FHNIGIVTRPNTPDIQDTAHTLITFLKQHGFTV 37 (296)
T ss_pred CCEEEEEecCCCHHHHHHHHHHHHHHHHCCCEE
Confidence 356788888544 3 556777777777654
No 315
>cd04449 DEP_DEPDC5-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
Probab=43.62 E-value=28 Score=17.65 Aligned_cols=19 Identities=16% Similarity=0.059 Sum_probs=16.1
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.|+.+|-.+++.|-+.|.
T Consensus 46 ~~~r~eAv~lgq~Ll~~g~ 64 (83)
T cd04449 46 VDTREEAVELGQELMNEGL 64 (83)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 5789999999999988764
No 316
>KOG1715|consensus
Probab=43.54 E-value=25 Score=21.29 Aligned_cols=19 Identities=16% Similarity=0.373 Sum_probs=16.9
Q ss_pred chhhHHHHHHHHHhcCCce
Q psy8719 10 TKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~ 28 (33)
||++|+++-+.|++.|.-.
T Consensus 166 tKeEAEkik~kLea~GakV 184 (187)
T KOG1715|consen 166 TKEEAEEIKEKLEAAGAKV 184 (187)
T ss_pred CHHHHHHHHHHHHHcCCeE
Confidence 7999999999999999753
No 317
>COG2344 AT-rich DNA-binding protein [General function prediction only]
Probab=43.41 E-value=53 Score=20.33 Aligned_cols=29 Identities=17% Similarity=0.131 Sum_probs=24.3
Q ss_pred EEEecchhhHHHHHHHHHhcCCceeeeeC
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIYYFT 33 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~~~~ 33 (33)
-|-|=-++.|+++|+.|.++|..-+.-||
T Consensus 150 aiLtVPa~~AQ~vad~Lv~aGVkGIlNFt 178 (211)
T COG2344 150 AILTVPAEHAQEVADRLVKAGVKGILNFT 178 (211)
T ss_pred EEEEccHHHHHHHHHHHHHcCCceEEecc
Confidence 45566788999999999999998887775
No 318
>PRK06936 type III secretion system ATPase; Provisional
Probab=43.40 E-value=53 Score=21.84 Aligned_cols=29 Identities=14% Similarity=0.408 Sum_probs=22.7
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~G~~~~ 29 (33)
+++++|+++|-++ +-.+|++++.+|+...
T Consensus 216 l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfrd~G~~Vl 255 (439)
T PRK06936 216 LRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGKRVL 255 (439)
T ss_pred cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEE
Confidence 4678888888776 5668999998887654
No 319
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=43.39 E-value=47 Score=17.83 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=19.2
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.+.||-+.|...+|++.+.|.+
T Consensus 54 ~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 54 KKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp S-EEEEESSHHHHHHHHHHHHC
T ss_pred ccceeecCCchhHHHHHHHHHh
Confidence 4678889999999999999988
No 320
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.10 E-value=56 Score=18.71 Aligned_cols=27 Identities=15% Similarity=0.062 Sum_probs=20.8
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++-...+..++++|.+.|++.+-|+
T Consensus 98 V~~d~~~~~~~a~~~L~~~G~~~I~~i 124 (269)
T cd06287 98 VDLQSAATARMLLEHLRAQGARQIALI 124 (269)
T ss_pred EeeCcHHHHHHHHHHHHHcCCCcEEEE
Confidence 556677788888888888888877654
No 321
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=42.99 E-value=64 Score=18.77 Aligned_cols=27 Identities=11% Similarity=0.075 Sum_probs=20.1
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++..+....++++|.+.|++.+-++
T Consensus 160 V~~Dn~~~~~~a~~~L~~~Gh~~I~~i 186 (331)
T PRK14987 160 VGFDNFEAARQMTTAIIARGHRHIAYL 186 (331)
T ss_pred EEeCcHHHHHHHHHHHHHCCCceEEEE
Confidence 445666777888888888888877664
No 322
>PRK06141 ornithine cyclodeaminase; Validated
Probab=42.97 E-value=48 Score=20.27 Aligned_cols=24 Identities=13% Similarity=0.213 Sum_probs=21.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++.|+-++.+.++++++.+.+.|
T Consensus 151 ~~V~V~~Rs~~~a~~~a~~~~~~g 174 (314)
T PRK06141 151 KQVRVWGRDPAKAEALAAELRAQG 174 (314)
T ss_pred CEEEEEcCCHHHHHHHHHHHHhcC
Confidence 468899999999999999998765
No 323
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=42.85 E-value=40 Score=16.02 Aligned_cols=27 Identities=19% Similarity=-0.020 Sum_probs=18.6
Q ss_pred ceEEEEecc------hhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRT------KLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nT------K~~ad~La~~L~~~G~~~ 28 (33)
.+++|.+-+ ...+..+++.|++.|...
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v 34 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRV 34 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEE
Confidence 455666533 357788999999988654
No 324
>PTZ00110 helicase; Provisional
Probab=42.78 E-value=35 Score=22.50 Aligned_cols=24 Identities=13% Similarity=0.189 Sum_probs=21.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++||.+.|++-|..+.+.+++.+.
T Consensus 205 ~~LIL~PTreLa~Qi~~~~~~~~~ 228 (545)
T PTZ00110 205 IVLVLAPTRELAEQIREQCNKFGA 228 (545)
T ss_pred EEEEECChHHHHHHHHHHHHHHhc
Confidence 589999999999999999988664
No 325
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=42.58 E-value=52 Score=20.05 Aligned_cols=24 Identities=13% Similarity=-0.013 Sum_probs=21.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
...+|+.+=+++.++.+.|++.|.
T Consensus 141 ~i~~fsP~ieQv~~~~~~L~~~gf 164 (247)
T PF08704_consen 141 RICCFSPCIEQVQKTVEALREHGF 164 (247)
T ss_dssp EEEEEESSHHHHHHHHHHHHHTTE
T ss_pred eEEEECCCHHHHHHHHHHHHHCCC
Confidence 467999999999999999999874
No 326
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=42.55 E-value=61 Score=18.00 Aligned_cols=27 Identities=22% Similarity=0.375 Sum_probs=20.3
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++-.+....+++.|.++|++.+-++
T Consensus 96 V~~d~~~~~~~~~~~L~~~G~~~i~~i 122 (269)
T cd06293 96 VFCDNEQGGRLATRHLARAGHRRIAFV 122 (269)
T ss_pred EEECCHHHHHHHHHHHHHCCCceEEEE
Confidence 556777777888888888888876554
No 327
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=42.38 E-value=63 Score=18.33 Aligned_cols=30 Identities=13% Similarity=0.191 Sum_probs=21.3
Q ss_pred ceEEEEecc----------hhhHHHHHHHHHhcCCceeee
Q psy8719 2 DRALIFCRT----------KLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 2 ~~aIVF~nT----------K~~ad~La~~L~~~G~~~~~~ 31 (33)
.+.++|++- +.++..+++.|++.|..+.-+
T Consensus 129 k~IvL~TDg~~p~~~~~~~~~~~~~~a~~l~~~gI~i~~i 168 (218)
T cd01458 129 KRIFLFTNNDDPHGGDSIKDSQAAVKAEDLKDKGIELELF 168 (218)
T ss_pred cEEEEECCCCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 357788872 356778899999888776543
No 328
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=41.95 E-value=51 Score=16.92 Aligned_cols=23 Identities=22% Similarity=0.263 Sum_probs=20.4
Q ss_pred EEEecchhhHHHHHHHHHhcCCc
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~ 27 (33)
-|||.+-..+..+...|++.|.+
T Consensus 71 aii~~~~~~a~~~~~~l~~~g~~ 93 (160)
T PF13377_consen 71 AIICSNDRLALGVLRALRELGIR 93 (160)
T ss_dssp EEEESSHHHHHHHHHHHHHTTSC
T ss_pred EEEEcCHHHHHHHHHHHHHcCCc
Confidence 58899999999999999999874
No 329
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=41.71 E-value=31 Score=18.09 Aligned_cols=19 Identities=16% Similarity=0.081 Sum_probs=16.7
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.++++|-.+++.|-+.|.
T Consensus 48 ~~sR~eAv~lgq~Ll~~gi 66 (85)
T cd04441 48 AESRREAVQLCRRLLEHGI 66 (85)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 6899999999999988774
No 330
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=41.67 E-value=32 Score=17.83 Aligned_cols=19 Identities=11% Similarity=-0.094 Sum_probs=16.5
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.|+.+|-.+++.|-+.|.
T Consensus 46 ~~sR~eAv~lg~~Ll~~G~ 64 (83)
T cd04443 46 AQDRGEAVLYGRRLLQGGV 64 (83)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 6789999999999988774
No 331
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=41.64 E-value=45 Score=24.44 Aligned_cols=27 Identities=33% Similarity=0.347 Sum_probs=23.7
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+++||||.-..-.+-|.++|...|.+.
T Consensus 488 ~KVLIFSQft~~LdiLed~L~~~g~~y 514 (1033)
T PLN03142 488 SRVLIFSQMTRLLDILEDYLMYRGYQY 514 (1033)
T ss_pred CeEEeehhHHHHHHHHHHHHHHcCCcE
Confidence 489999999999999999999887654
No 332
>PRK07340 ornithine cyclodeaminase; Validated
Probab=41.53 E-value=66 Score=19.66 Aligned_cols=26 Identities=12% Similarity=0.078 Sum_probs=21.8
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+++.|+-++.+.++++++.+++.|..
T Consensus 151 ~~v~v~~r~~~~a~~~a~~~~~~~~~ 176 (304)
T PRK07340 151 RRVWVRGRTAASAAAFCAHARALGPT 176 (304)
T ss_pred CEEEEEcCCHHHHHHHHHHHHhcCCe
Confidence 57889999999999999999866533
No 333
>PRK06823 ornithine cyclodeaminase; Validated
Probab=41.53 E-value=65 Score=19.99 Aligned_cols=27 Identities=7% Similarity=0.254 Sum_probs=22.6
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++++.||-++.+.++.+++.+++.|..
T Consensus 153 i~~v~v~~r~~~~a~~~~~~~~~~~~~ 179 (315)
T PRK06823 153 CRQLWVWGRSETALEEYRQYAQALGFA 179 (315)
T ss_pred CCEEEEECCCHHHHHHHHHHHHhcCCc
Confidence 367899999999999999999876543
No 334
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=41.50 E-value=27 Score=25.81 Aligned_cols=21 Identities=19% Similarity=0.548 Sum_probs=18.8
Q ss_pred eEEEEecchhhHHHHHHHHHh
Q psy8719 3 RALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~ 23 (33)
-+|+|+-+|.+|+..+..|..
T Consensus 381 P~I~F~FSr~~Ce~~a~~~~~ 401 (1041)
T COG4581 381 PAIVFSFSRRGCEEAAQILST 401 (1041)
T ss_pred ceEEEEEchhhHHHHHHHhcc
Confidence 479999999999999998864
No 335
>COG0520 csdA Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]
Probab=41.43 E-value=36 Score=21.82 Aligned_cols=22 Identities=27% Similarity=0.226 Sum_probs=18.8
Q ss_pred EEEEecchhhHHHHHHHHHhcC
Q psy8719 4 ALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G 25 (33)
++-|-||++++|++.+.|++..
T Consensus 382 S~~~YNt~edid~l~~aL~~~~ 403 (405)
T COG0520 382 SLHLYNTEEDVDRLLEALKKAL 403 (405)
T ss_pred EEeecCCHHHHHHHHHHHHHHh
Confidence 4668899999999999998753
No 336
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=41.39 E-value=56 Score=17.49 Aligned_cols=26 Identities=12% Similarity=0.216 Sum_probs=18.7
Q ss_pred eEEEEecchh-hHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKL-DCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~-~ad~La~~L~~~G~~~ 28 (33)
++.||.-+++ ..|++.+.|++.|...
T Consensus 56 ssAl~~lv~~~~~d~v~~~l~~~gg~v 82 (102)
T PF06897_consen 56 SSALFLLVDEATEDKVDAALRKFGGKV 82 (102)
T ss_pred ceEEEEEeccCCHHHHHHHHHhcCCEE
Confidence 4555555554 7888999999998654
No 337
>cd04371 DEP DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is present. New studies show that the DEP domain of Sst2, a yeast RGS protein is necessary and sufficient for receptor interaction.
Probab=41.33 E-value=34 Score=16.39 Aligned_cols=18 Identities=17% Similarity=0.012 Sum_probs=15.3
Q ss_pred cchhhHHHHHHHHHhcCC
Q psy8719 9 RTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~ 26 (33)
.++.+|.++++.|-+.|.
T Consensus 45 ~~r~ea~~~~~~ll~~g~ 62 (81)
T cd04371 45 ITREEAVELGQALLKHGL 62 (81)
T ss_pred CCHHHHHHHHHHHHHCCC
Confidence 688999999999987763
No 338
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=41.10 E-value=45 Score=16.07 Aligned_cols=31 Identities=10% Similarity=-0.033 Sum_probs=21.2
Q ss_pred CceEEEEecc------hhhHHHHHHHHHhcCCceeee
Q psy8719 1 MDRALIFCRT------KLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 1 ~~~aIVF~nT------K~~ad~La~~L~~~G~~~~~~ 31 (33)
|-|++|..-+ ...|..+++.|+++|.....+
T Consensus 1 P~qv~i~p~~~~~~~~~~~a~~la~~Lr~~g~~v~~d 37 (94)
T cd00861 1 PFDVVIIPMNMKDEVQQELAEKLYAELQAAGVDVLLD 37 (94)
T ss_pred CeEEEEEEcCCCcHHHHHHHHHHHHHHHHCCCEEEEE
Confidence 3466666533 346889999999998776543
No 339
>PF09428 DUF2011: Fungal protein of unknown function (DUF2011); InterPro: IPR018555 This is a family of fungal proteins whose function is unknown.
Probab=40.99 E-value=13 Score=20.91 Aligned_cols=11 Identities=45% Similarity=0.851 Sum_probs=8.7
Q ss_pred hcCCceeeeeC
Q psy8719 23 SIDRRLIYYFT 33 (33)
Q Consensus 23 ~~G~~~~~~~~ 33 (33)
......+|||+
T Consensus 14 ~~~RP~sYYfa 24 (131)
T PF09428_consen 14 VNERPLSYYFA 24 (131)
T ss_pred cCCCCCcceeC
Confidence 45678999996
No 340
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=40.69 E-value=65 Score=17.78 Aligned_cols=27 Identities=19% Similarity=0.000 Sum_probs=19.2
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++....+..++++|.++|++.+-++
T Consensus 97 V~~d~~~~~~~~~~~l~~~G~~~i~~i 123 (269)
T cd06275 97 IQDNSEEGGYLATRHLIELGHRRIGCI 123 (269)
T ss_pred EeeCcHHHHHHHHHHHHHCCCceEEEE
Confidence 445556667788888888888776654
No 341
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=40.67 E-value=65 Score=17.83 Aligned_cols=25 Identities=20% Similarity=0.085 Sum_probs=15.8
Q ss_pred ecchhhHHHHHHHHHhcCCceeeee
Q psy8719 8 CRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
.+....+..++++|.+.|++.+.++
T Consensus 96 ~d~~~ag~~a~~~L~~~g~~~i~~i 120 (265)
T cd06285 96 GDDVLGGRLATRHLLDLGHRRIAVL 120 (265)
T ss_pred eCcHHHHHHHHHHHHHCCCccEEEE
Confidence 4445566667777777777666554
No 342
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=40.61 E-value=63 Score=17.65 Aligned_cols=24 Identities=13% Similarity=0.115 Sum_probs=21.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++||.|..-+++..+.+.+.+.|.
T Consensus 197 ~viv~~~~~~~~~~~l~~a~~~g~ 220 (298)
T cd06269 197 RVIVVFSSEEDALRLLEEAVELGM 220 (298)
T ss_pred cEEEEEechHHHHHHHHHHHHcCC
Confidence 688999988899999999999987
No 343
>KOG0832|consensus
Probab=40.19 E-value=36 Score=21.57 Aligned_cols=28 Identities=11% Similarity=0.031 Sum_probs=21.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
.-|.|++|+...+++.+.-.+.=++.++
T Consensus 109 GiILFv~tn~~~~~~ve~aA~r~~gy~~ 136 (251)
T KOG0832|consen 109 GIILFVGTNNGFKDLVERAARRAGGYSH 136 (251)
T ss_pred CeEEEEecCcchHHHHHHHHHHhcCcee
Confidence 4688999999999998877666555443
No 344
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=40.18 E-value=65 Score=18.91 Aligned_cols=27 Identities=19% Similarity=0.049 Sum_probs=20.4
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++.......++++|.+.|++.+-|+
T Consensus 156 V~~Dn~~~~~~a~~~L~~~G~~~I~~i 182 (343)
T PRK10727 156 IALDDRYGAWLATRHLIQQGHTRIGYL 182 (343)
T ss_pred EEECcHHHHHHHHHHHHHCCCccEEEE
Confidence 445666777788889999998887665
No 345
>PRK03188 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional
Probab=39.88 E-value=79 Score=18.92 Aligned_cols=25 Identities=8% Similarity=0.113 Sum_probs=20.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++++++.++.++++++.|++.|..
T Consensus 255 tv~~l~~~~~~~~~~~~~l~~~g~~ 279 (300)
T PRK03188 255 TCAFLCADADSAVDVAAALSGAGVC 279 (300)
T ss_pred ceEEEeCCHHHHHHHHHHHHhcCcc
Confidence 3567788889999999999987753
No 346
>PF14417 MEDS: MEDS: MEthanogen/methylotroph, DcmR Sensory domain
Probab=39.88 E-value=49 Score=18.64 Aligned_cols=26 Identities=15% Similarity=0.198 Sum_probs=20.3
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+++|+.++.....+.+.+.|++.|-.
T Consensus 48 e~~l~v~~~~~~~~~l~~~L~~~~~d 73 (191)
T PF14417_consen 48 ERCLYVAPDPRRVEELRDELRKAGPD 73 (191)
T ss_pred CeEEEEECCCCCHHHHHHHHHhcCCc
Confidence 46788887788889999999876543
No 347
>cd08362 BphC5-RrK37_N_like N-terminal, non-catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Rhodococcus rhodochrous K37, and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). The enzyme contains a N-terminal and a C-terminal domain of similar structure fold, resulting from an ancient gene duplication. BphC belongs to the type I extradiol dioxygenase family, which requires a metal in the active site for its catalytic activity. Polychlorinated biphenyl degrading bacteria demonstrate multiplicity of BphCs. Bacterium Rhodococcus rhodochrous K37 has eight genes encoding BphC enzymes. This family includes the N-terminal domain of BphC5-RrK37. The crystal structure of the protein from Novosphingobium aromaticivorans has a Mn(II)in the active site, although most proteins of type I extradiol dioxyge
Probab=39.86 E-value=49 Score=16.12 Aligned_cols=21 Identities=19% Similarity=0.309 Sum_probs=17.9
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
|.+.++.+++.+.|.++|...
T Consensus 66 v~~~~~l~~~~~~l~~~G~~~ 86 (120)
T cd08362 66 VASRADVDALARQVAARGGTV 86 (120)
T ss_pred eCCHHHHHHHHHHHHHcCCce
Confidence 567789999999999998864
No 348
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=39.85 E-value=37 Score=19.69 Aligned_cols=27 Identities=4% Similarity=-0.010 Sum_probs=19.8
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++.+-+..|.. .+.+.++.|.
T Consensus 107 Glll~ak~~~~~~~l~~--~~~~i~K~Y~ 133 (232)
T PRK10839 107 GLVLMTDDGQWSHRITS--PRHHCEKTYL 133 (232)
T ss_pred eEEEEecCHHHHHHHhC--CCCCCCeEEE
Confidence 46899999887777765 4556777775
No 349
>COG2423 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]
Probab=39.84 E-value=52 Score=20.97 Aligned_cols=26 Identities=8% Similarity=0.135 Sum_probs=23.2
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++.-|+.++.+.+++++..|++.+..
T Consensus 156 ~~I~i~~r~~~~~e~~a~~l~~~~~~ 181 (330)
T COG2423 156 REIRVYSRDPEAAEAFAARLRKRGGE 181 (330)
T ss_pred cEEEEEcCCHHHHHHHHHHHHhhcCc
Confidence 56789999999999999999998864
No 350
>cd02566 PseudoU_synth_RluE PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. Escherichia coli RluE makes psi2457 in 23S RNA. psi2457 is not universally conserved.
Probab=39.76 E-value=40 Score=18.76 Aligned_cols=27 Identities=15% Similarity=0.155 Sum_probs=16.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-.|||+++++-+..+.+. +.+.++.|.
T Consensus 45 Glll~a~d~~~~~~l~~~--~~~v~K~Y~ 71 (168)
T cd02566 45 GLLLLTDDGRLQHRITDP--SFKHPKTYY 71 (168)
T ss_pred EEEEEEeCHHHHHHHHCC--CCCCCEEEE
Confidence 468999998644444432 223667764
No 351
>cd07258 PpCmtC_C C-terminal domain of 2,3-dihydroxy-p-cumate-3,4-dioxygenase (PpCmtC). This subfamily contains the C-terminal, catalytic, domain of PpCmtC. 2,3-dihydroxy-p-cumate-3,4-dioxygenase (CmtC of Pseudomonas putida F1) is a dioxygenase involved in the eight-step catabolism pathway of p-cymene. CmtC acts upon the reaction intermediate 2,3-dihydroxy-p-cumate, yielding 2-hydroxy-3-carboxy-6-oxo-7-methylocta-2,4-dienoate. The CmtC belongs to the type I family of extradiol dioxygenases. Fe2+ was suggested as a cofactor, same as for other enzymes in the family. The type I family of extradiol dioxygenases contains two structurally homologous barrel-shaped domains at the N- and C-terminal. The active-site metal is located in the C-terminal barrel and plays an essential role in the catalytic mechanism.
Probab=39.55 E-value=63 Score=17.28 Aligned_cols=24 Identities=13% Similarity=0.090 Sum_probs=19.4
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~ 28 (33)
|-| +...++.+++.+.|.++|...
T Consensus 60 iaf~v~~~~~v~~~~~~l~~~G~~~ 84 (141)
T cd07258 60 VNFMVTDIDDIGKALYRIKAHDVKV 84 (141)
T ss_pred EEEECCCHHHHHHHHHHHHHCCCcE
Confidence 445 667788999999999999864
No 352
>PRK14105 selenophosphate synthetase; Provisional
Probab=39.28 E-value=60 Score=20.02 Aligned_cols=24 Identities=17% Similarity=0.037 Sum_probs=21.3
Q ss_pred EEEEecchhhHHHHHHHHHhcCCc
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.|+|+--+++++++.+.|++.|..
T Consensus 296 gLl~tv~~e~~~~~~~~l~~~g~~ 319 (345)
T PRK14105 296 GLLISVKPEYKDKLIDKLEKNNVY 319 (345)
T ss_pred eEEEEecHHHHHHHHHHHHhCCCC
Confidence 489999999999999999998764
No 353
>KOG0347|consensus
Probab=39.23 E-value=38 Score=24.27 Aligned_cols=21 Identities=24% Similarity=0.325 Sum_probs=19.4
Q ss_pred EEEEecchhhHHHHHHHHHhc
Q psy8719 4 ALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~ 24 (33)
+|||+.||+-|-.|.+.|.+.
T Consensus 266 ~LV~tPTRELa~QV~~Hl~ai 286 (731)
T KOG0347|consen 266 ALVVTPTRELAHQVKQHLKAI 286 (731)
T ss_pred eEEecChHHHHHHHHHHHHHh
Confidence 899999999999999999764
No 354
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=39.05 E-value=84 Score=19.06 Aligned_cols=29 Identities=24% Similarity=0.314 Sum_probs=22.5
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
|...+||.-|.+ +..|++.|.+.|....+
T Consensus 2 ~~~IlvlgGT~e-gr~la~~L~~~g~~v~~ 30 (248)
T PRK08057 2 MPRILLLGGTSE-ARALARALAAAGVDIVL 30 (248)
T ss_pred CceEEEEechHH-HHHHHHHHHhCCCeEEE
Confidence 356788888864 68899999988876654
No 355
>PF11262 Tho2: Transcription factor/nuclear export subunit protein 2; InterPro: IPR021418 THO and TREX form a eukaryotic complex which functions in messenger ribonucleoprotein metabolism and plays a role in preventing the transcription-associated genetic instability [],[]. Tho2, along with four other subunits forms THO []. This entry represents a conserved domain found towards the C terminus of these proteins.
Probab=39.01 E-value=16 Score=22.57 Aligned_cols=21 Identities=43% Similarity=0.705 Sum_probs=18.3
Q ss_pred eEEEEecchhhHHHHHHHHHh
Q psy8719 3 RALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~ 23 (33)
.++|||-|-.+|.++..+|..
T Consensus 155 ~~~ifscTe~EA~nlG~Fl~~ 175 (298)
T PF11262_consen 155 SPLIFSCTENEAENLGRFLNE 175 (298)
T ss_pred hhHHhccCHHHHHHHHHHHHH
Confidence 468999999999999998864
No 356
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=38.89 E-value=52 Score=23.67 Aligned_cols=24 Identities=13% Similarity=0.228 Sum_probs=22.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
++||.|.++..++++.+.|.+.|.
T Consensus 238 ~vii~~~s~~~~~~l~~~l~~~~~ 261 (926)
T TIGR00580 238 KITVAAESESQAERLKSLLAEHDI 261 (926)
T ss_pred eEEEEeCCHHHHHHHHHHHHHCCC
Confidence 689999999999999999998875
No 357
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=38.87 E-value=57 Score=20.74 Aligned_cols=26 Identities=8% Similarity=0.416 Sum_probs=23.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..||.|++=.++...++.|+++|...
T Consensus 334 ~Ivv~C~sG~RS~~Aa~~L~~~G~~~ 359 (370)
T PRK05600 334 NVVVYCASGIRSADFIEKYSHLGHEL 359 (370)
T ss_pred cEEEECCCChhHHHHHHHHHHcCCCC
Confidence 47999999999999999999999764
No 358
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=38.44 E-value=37 Score=19.72 Aligned_cols=23 Identities=17% Similarity=0.397 Sum_probs=20.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++||-..|+--++++.+.|+...
T Consensus 35 rvLvL~PTRvva~em~~aL~~~~ 57 (148)
T PF07652_consen 35 RVLVLAPTRVVAEEMYEALKGLP 57 (148)
T ss_dssp -EEEEESSHHHHHHHHHHTTTSS
T ss_pred eEEEecccHHHHHHHHHHHhcCC
Confidence 78999999999999999997554
No 359
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=38.25 E-value=81 Score=18.24 Aligned_cols=27 Identities=11% Similarity=0.010 Sum_probs=18.8
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++.......++++|.+.|++.+-++
T Consensus 156 V~~D~~~~~~~a~~~L~~~G~~~I~~i 182 (329)
T TIGR01481 156 VNIDYKQATKEAVGELIAKGHKSIAFV 182 (329)
T ss_pred EEECcHHHHHHHHHHHHHCCCCeEEEE
Confidence 344556667778888888888776554
No 360
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=38.22 E-value=48 Score=15.54 Aligned_cols=24 Identities=8% Similarity=0.105 Sum_probs=17.8
Q ss_pred EEEEecchhhHHHHHHHHHhcCCc
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
-|..++..-+|+.+...|++.|..
T Consensus 2 ~l~~~~~~~ea~~i~~~L~~~gI~ 25 (67)
T PF09413_consen 2 KLYTAGDPIEAELIKGLLEENGIP 25 (67)
T ss_dssp EEEEE--HHHHHHHHHHHHHTT--
T ss_pred EEEEcCCHHHHHHHHHHHHhCCCc
Confidence 467788899999999999999975
No 361
>PRK02155 ppnK NAD(+)/NADH kinase family protein; Provisional
Probab=38.22 E-value=87 Score=19.32 Aligned_cols=27 Identities=11% Similarity=0.190 Sum_probs=18.3
Q ss_pred ceEEEEecchh-h----HHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKL-D----CDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~-~----ad~La~~L~~~G~~~ 28 (33)
.++.|+.|... + ++++.++|+++|.+.
T Consensus 6 ~~v~iv~~~~~~~~~e~~~~i~~~L~~~g~~v 37 (291)
T PRK02155 6 KTVALIGRYQTPGIAEPLESLAAFLAKRGFEV 37 (291)
T ss_pred CEEEEEecCCCHHHHHHHHHHHHHHHHCCCEE
Confidence 45788888654 3 567777787777653
No 362
>PF14527 LAGLIDADG_WhiA: WhiA LAGLIDADG-like domain; PDB: 3HYI_A 3HYJ_D.
Probab=38.21 E-value=48 Score=17.25 Aligned_cols=24 Identities=17% Similarity=0.094 Sum_probs=16.4
Q ss_pred EEEecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
-+.++..+.++.|.+.|++.|...
T Consensus 25 Ei~~~~~e~a~~l~~lL~~~~i~~ 48 (93)
T PF14527_consen 25 EIRFNDEEFAEQLKELLNKFGINA 48 (93)
T ss_dssp EEEES-HHHHHHHHHHHHHH----
T ss_pred EEecCCHHHHHHHHHHHHHcCCCc
Confidence 467888999999999999877643
No 363
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=38.20 E-value=72 Score=17.59 Aligned_cols=26 Identities=15% Similarity=0.011 Sum_probs=17.1
Q ss_pred EecchhhHHHHHHHHHhcCCceeeee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
-++..+....++++|.+.|++...++
T Consensus 97 ~~d~~~~~~~~~~~l~~~g~~~i~~i 122 (268)
T cd06273 97 GFDNREAGRLAARHLIALGHRRIAMI 122 (268)
T ss_pred EeChHHHHHHHHHHHHHCCCCeEEEE
Confidence 34555666777777777777766554
No 364
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=38.16 E-value=52 Score=22.34 Aligned_cols=23 Identities=9% Similarity=0.167 Sum_probs=20.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
++||-|.|++-|.++++.|.+..
T Consensus 76 ~~LIL~PTreLa~Qv~~~l~~~~ 98 (629)
T PRK11634 76 QILVLAPTRELAVQVAEAMTDFS 98 (629)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHH
Confidence 78999999999999998887653
No 365
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=38.13 E-value=37 Score=17.68 Aligned_cols=21 Identities=10% Similarity=0.113 Sum_probs=17.8
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
-.+|++|+++-..|...|..+
T Consensus 13 ~~~k~~~~~v~~lL~~k~I~f 33 (92)
T cd03030 13 TEIKKRQQEVLGFLEAKKIEF 33 (92)
T ss_pred HHHHHHHHHHHHHHHHCCCce
Confidence 357999999999999988764
No 366
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=38.11 E-value=44 Score=21.41 Aligned_cols=26 Identities=4% Similarity=-0.074 Sum_probs=21.8
Q ss_pred EEEecchhhHHHHHHHHHhcCCceee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
-+-|.+...++++|..++..|+++.+
T Consensus 188 ~L~t~d~~~a~~IAk~vR~~gGGL~~ 213 (298)
T TIGR02024 188 NLGTSNLEIAKKIAKAIRFQGGGLRF 213 (298)
T ss_pred eecCCCHHHHHHHHHHhhhcCCCccc
Confidence 34577788999999999999999754
No 367
>PRK04164 hypothetical protein; Provisional
Probab=38.11 E-value=58 Score=18.97 Aligned_cols=27 Identities=15% Similarity=0.022 Sum_probs=20.7
Q ss_pred EEEecchhhHHHHHHHHHhcCCceeee
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.|+.-|++.-+.+++.|++.|++-..+
T Consensus 94 ~v~IIT~~~~~~i~~~Lr~~grGVT~~ 120 (181)
T PRK04164 94 TVRVITKEYELELANELRELGYGVTVF 120 (181)
T ss_pred EEEEEeCCchHHHHHHHHHCCCCEEEE
Confidence 466677777777999999998886543
No 368
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=37.98 E-value=56 Score=16.28 Aligned_cols=28 Identities=11% Similarity=0.076 Sum_probs=20.8
Q ss_pred eEEEEec------chhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCR------TKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~n------TK~~ad~La~~L~~~G~~~~~ 30 (33)
.++||+. .=--|.++.+.|++.|..+..
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~ 42 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGT 42 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEE
Confidence 5789976 345688999999998876543
No 369
>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....
Probab=37.85 E-value=47 Score=19.68 Aligned_cols=27 Identities=11% Similarity=0.306 Sum_probs=19.5
Q ss_pred ceEEEEecchh-----------hHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKL-----------DCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~-----------~ad~La~~L~~~G~~~ 28 (33)
++++|+++|-+ .+-.+|++++.+|+..
T Consensus 70 ~~t~vv~~t~~~~~~~r~~~~~~a~t~AEyfrd~G~dV 107 (215)
T PF00006_consen 70 ERTVVVAATSDEPPAARYRAPYTALTIAEYFRDQGKDV 107 (215)
T ss_dssp GGEEEEEEETTS-HHHHHHHHHHHHHHHHHHHHTTSEE
T ss_pred cccccccccchhhHHHHhhhhccchhhhHHHhhcCCce
Confidence 56778888866 4466788888877754
No 370
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=37.76 E-value=83 Score=18.18 Aligned_cols=25 Identities=16% Similarity=0.143 Sum_probs=18.3
Q ss_pred ecchhhHHHHHHHHHhcCCceeeee
Q psy8719 8 CRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
++....+..++++|-+.|++.+-++
T Consensus 161 ~d~~~~~~~a~~~L~~~G~r~I~~i 185 (328)
T PRK11303 161 SDDQDDAEMLAESLLKFPAESILLL 185 (328)
T ss_pred eCCHHHHHHHHHHHHHCCCCeEEEE
Confidence 4556677788888888888877654
No 371
>cd04448 DEP_PIKfyve DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGEF (GDP/GTP exchange factor) PIKfyve-like proteins. PIKfyve contains N-terminal Fyve finger and DEP domains, a central chaperonin-like domain and a C-terminal PIPK (phosphatidylinositol phosphate kinase) domain. PIKfyve-like proteins are important phosphatidylinositol (3)-monophosphate (PtdIns(3)P)-5-kinases, producing PtdIns(3,5)P2, which plays a major role in multivesicular body (MVB) sorting and control of retrograde traffic from the vacuole back to the endosome and/or Golgi. PIKfyve itself has been shown to be play a role in regulating early-endosome-to-trans-Golgi network (TGN) retrograde trafficking.
Probab=37.68 E-value=40 Score=17.20 Aligned_cols=19 Identities=11% Similarity=0.085 Sum_probs=16.3
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.++.+|-.+++.|-..|.
T Consensus 44 ~~~R~eAv~~gq~Ll~~g~ 62 (81)
T cd04448 44 AATRVQAIAIGQALLDAGW 62 (81)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 5789999999999988774
No 372
>PF12579 DUF3755: Protein of unknown function (DUF3755); InterPro: IPR022228 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. There is a single completely conserved residue N that may be functionally important.
Probab=37.56 E-value=14 Score=16.73 Aligned_cols=21 Identities=19% Similarity=0.417 Sum_probs=16.5
Q ss_pred EEecchhhHHHHHHHHHhcCC
Q psy8719 6 IFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~ 26 (33)
.||+||+....|-+.+...++
T Consensus 11 Lf~~~R~NI~~il~~m~~mpg 31 (35)
T PF12579_consen 11 LFCQTRDNILAILNDMNDMPG 31 (35)
T ss_pred HHHHHHHHHHHHHHHHHcchh
Confidence 488999999988888876543
No 373
>PF13117 Cag12: Cag pathogenicity island protein Cag12
Probab=37.35 E-value=69 Score=17.74 Aligned_cols=26 Identities=4% Similarity=0.025 Sum_probs=22.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.+.||.+.......+.-++|+++|-.
T Consensus 81 ~~iIv~~~~~~~~~~~K~wL~~nGa~ 106 (113)
T PF13117_consen 81 AKIIVLTGDGNLFFQYKNWLRKNGAT 106 (113)
T ss_pred ccEEEEcCCHHHHHHHHHHHHHcCCc
Confidence 36789999999999999999999975
No 374
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=37.13 E-value=63 Score=16.61 Aligned_cols=25 Identities=4% Similarity=0.125 Sum_probs=15.3
Q ss_pred eEEEEecch-hhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTK-LDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK-~~ad~La~~L~~~G~~ 27 (33)
+.++.+|+- ...+.+++.|++.|..
T Consensus 32 ~~~~lTNns~~s~~~~~~~L~~~Gi~ 57 (101)
T PF13344_consen 32 PVVFLTNNSSRSREEYAKKLKKLGIP 57 (101)
T ss_dssp EEEEEES-SSS-HHHHHHHHHHTTTT
T ss_pred CEEEEeCCCCCCHHHHHHHHHhcCcC
Confidence 455666665 3447888888777754
No 375
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=36.80 E-value=34 Score=17.44 Aligned_cols=16 Identities=19% Similarity=0.094 Sum_probs=12.2
Q ss_pred HHHHHHHHhcCCceee
Q psy8719 15 DNLERYLNSIDRRLIY 30 (33)
Q Consensus 15 d~La~~L~~~G~~~~~ 30 (33)
-.|++.|+++|++-..
T Consensus 16 lala~~L~~rGh~V~~ 31 (139)
T PF03033_consen 16 LALARALRRRGHEVRL 31 (139)
T ss_dssp HHHHHHHHHTT-EEEE
T ss_pred HHHHHHHhccCCeEEE
Confidence 3689999999998763
No 376
>PF07090 DUF1355: Protein of unknown function (DUF1355); InterPro: IPR010768 This entry is found in several hypothetical bacterial proteins of around 250 residues in length. The function of these proteins is unknown.; PDB: 2GK3_D 3SOZ_C 3RHT_D.
Probab=36.78 E-value=79 Score=18.44 Aligned_cols=26 Identities=15% Similarity=0.301 Sum_probs=17.5
Q ss_pred eEEEEec-----------chhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCR-----------TKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~n-----------TK~~ad~La~~L~~~G~~~~ 29 (33)
.+|||.| +-...+.|+++-++ |+++.
T Consensus 69 D~vIl~dv~~~~ll~~~~~~~~~~~l~~yV~~-GGgLl 105 (177)
T PF07090_consen 69 DVVILSDVPANSLLKSRRSPNQLELLADYVRD-GGGLL 105 (177)
T ss_dssp SEEEEES--HHHHHT----HHHHHHHHHHHHT-T-EEE
T ss_pred CEEEEeCCCchhcccccCCHHHHHHHHHHHHh-CCEEE
Confidence 3677777 55667788888765 88874
No 377
>cd07252 BphC1-RGP6_N_like N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins. This subfamily contains the N-terminal, non-catalytic, domain of BphC1-RGP6 and similar proteins. BphC catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). This subfamily of BphCs belongs to the type I extradiol dioxygenase family, which require a metal in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of 2,3-dihydroxybiphenyl 1,2-dioxygenases. For example, three types of BphC enzymes have been found in Rhodococcus globerulus (BphC1-RGP6 - BphC3-RGP6), all three enzymes are type I extradiol dioxygenases. BphC1-RGP6 has an internal duplication, it is a two-domain dioxygenase which forms octamers, and has Fe(II) at the catalytic site. Its N-
Probab=36.78 E-value=59 Score=16.26 Aligned_cols=21 Identities=14% Similarity=0.121 Sum_probs=17.6
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+.+.++.+.+.+.|.++|...
T Consensus 65 v~~~~dl~~~~~~l~~~Gv~~ 85 (120)
T cd07252 65 VADEAALDALAARLRAAGVAV 85 (120)
T ss_pred ECCHHHHHHHHHHHHHcCCeE
Confidence 566789999999999998764
No 378
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=36.70 E-value=67 Score=23.59 Aligned_cols=28 Identities=11% Similarity=0.252 Sum_probs=24.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCceee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLIY 30 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~~ 30 (33)
..-|-++|+.+++.+.+.|.+.|....|
T Consensus 553 DIAVLvRs~~~a~~i~~aL~~~gIP~v~ 580 (1181)
T PRK10876 553 DITVLVRSRQEAALIRDALTLLAIPSVY 580 (1181)
T ss_pred cEEEEEecCchHHHHHHHHHhCCCCEEE
Confidence 4568899999999999999999988654
No 379
>cd04442 DEP_1_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=36.67 E-value=43 Score=17.40 Aligned_cols=19 Identities=5% Similarity=-0.080 Sum_probs=16.3
Q ss_pred ecchhhHHHHHHHHHhcCC
Q psy8719 8 CRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~ 26 (33)
+.|+.+|-.+++.|-+.|.
T Consensus 44 ~~sR~eAv~lgq~Ll~~gv 62 (82)
T cd04442 44 ASDRETAIKIMQKLLDHSI 62 (82)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 5899999999999987763
No 380
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=36.66 E-value=49 Score=15.20 Aligned_cols=22 Identities=18% Similarity=0.190 Sum_probs=16.8
Q ss_pred EEecchhhHHHHHHHHHhcCCc
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~ 27 (33)
+-++...+.+++.+.|+++|..
T Consensus 47 i~v~~~~~~~~~~~~L~~~G~~ 68 (69)
T cd04909 47 ISFKTQEDRERAKEILKEAGYE 68 (69)
T ss_pred EEECCHHHHHHHHHHHHHcCCc
Confidence 3444556889999999999864
No 381
>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=36.54 E-value=18 Score=24.14 Aligned_cols=22 Identities=23% Similarity=0.298 Sum_probs=19.0
Q ss_pred EEecchhhHHHHHHHHHhcCCc
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~ 27 (33)
.|+.|.++|++||+.|.+-|.+
T Consensus 208 Afmk~~~~A~~LA~~mv~ig~~ 229 (437)
T TIGR02643 208 AFMPTYEESEELARSLVDVANG 229 (437)
T ss_pred CcCCCHHHHHHHHHHHHHHHHH
Confidence 3899999999999999877654
No 382
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=36.53 E-value=70 Score=17.27 Aligned_cols=20 Identities=25% Similarity=0.385 Sum_probs=13.4
Q ss_pred ceEEEEecchhhHHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERYL 21 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L 21 (33)
+-.+|+++++..++++.+.+
T Consensus 90 DD~~i~~~~~~~~~~~~~~i 109 (158)
T cd01646 90 DDIRIFADSKEEAEEILEEL 109 (158)
T ss_pred CcEEEEcCCHHHHHHHHHHH
Confidence 44678999988775544443
No 383
>cd00472 Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identifi
Probab=36.48 E-value=24 Score=17.26 Aligned_cols=13 Identities=23% Similarity=0.613 Sum_probs=10.2
Q ss_pred ceEEEEecchhhH
Q psy8719 2 DRALIFCRTKLDC 14 (33)
Q Consensus 2 ~~aIVF~nTK~~a 14 (33)
.+++.|||.|-..
T Consensus 26 gkv~~F~s~Kc~~ 38 (54)
T cd00472 26 GKVFRFCSSKCEK 38 (54)
T ss_pred CCEEEEECHHHHH
Confidence 4688999999653
No 384
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=36.47 E-value=76 Score=17.37 Aligned_cols=26 Identities=8% Similarity=-0.054 Sum_probs=17.2
Q ss_pred EEecchhhHHHHHHHHHhcCCceeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
|-++..+....++++|.+.|++.+-+
T Consensus 96 v~~d~~~~g~~~~~~l~~~g~~~i~~ 121 (267)
T cd06283 96 VTLDNYEAAKEAVDHLIEKGYERILF 121 (267)
T ss_pred EEeccHHHHHHHHHHHHHcCCCcEEE
Confidence 45566667777777777777665543
No 385
>TIGR02371 ala_DH_arch alanine dehydrogenase, Archaeoglobus fulgidus type. This enzyme, a homolog of bacterial ornithine cyclodeaminases and marsupial mu-crystallins, is a homodimeric, NAD-dependent alanine dehydrogenase found in Archaeoglobus fulgidus and several other Archaea. For a number of close homologs, scoring between trusted and noise cutoffs, it is not clear at present what is the enzymatic activity.
Probab=36.28 E-value=68 Score=19.80 Aligned_cols=26 Identities=12% Similarity=0.308 Sum_probs=22.0
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
+++.|+-++++.++.+++.+++.|..
T Consensus 154 ~~v~V~~r~~~~~~~~~~~~~~~g~~ 179 (325)
T TIGR02371 154 EEVSVYCRTPSTREKFALRASDYEVP 179 (325)
T ss_pred CEEEEECCCHHHHHHHHHHHHhhCCc
Confidence 57889999999999999999876643
No 386
>CHL00067 rps2 ribosomal protein S2
Probab=36.26 E-value=50 Score=19.80 Aligned_cols=25 Identities=20% Similarity=0.216 Sum_probs=20.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.-|.|++||....++.+...+.-++
T Consensus 69 g~ILfV~t~~~~~~~v~~~a~~~~~ 93 (230)
T CHL00067 69 KKFLFVGTKKQAADLVASAAIRARC 93 (230)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHhCC
Confidence 4688999999999998888666543
No 387
>cd04450 DEP_RGS7-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in RGS (regulator of G-protein signaling) proteins of the subfamily R7. This subgroup contains RGS7, RGS6, RGS9 and RGS11. They share a common domain architecture, containing, beside the RGS domain, a DEP domain and a GGL (G-protein gamma subunit-like ) domain. RGS proteins are GTPase-activating (GAP) proteins of heterotrimeric G proteins by increasing the rate of GTP hydrolysis of the alpha subunit. The fungal homologs, like yeast Sst2, share a related common domain architecture, containing RGS and DEP domains. Sst2 has been identified as the principal regulator of mating pheromone signaling and recently the DEP domain of Sst2 has been shown to be necessary and sufficient to mediate receptor interaction.
Probab=36.26 E-value=44 Score=17.02 Aligned_cols=18 Identities=0% Similarity=-0.095 Sum_probs=15.6
Q ss_pred cchhhHHHHHHHHHhcCC
Q psy8719 9 RTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~ 26 (33)
.++++|.++++.|-+.|.
T Consensus 45 ~~~~EA~~~~~~ll~~gl 62 (88)
T cd04450 45 VDPSEALEIAALFVKYGL 62 (88)
T ss_pred CCHHHHHHHHHHHHHCCC
Confidence 688999999999988774
No 388
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=36.25 E-value=67 Score=17.20 Aligned_cols=21 Identities=24% Similarity=0.178 Sum_probs=14.8
Q ss_pred EEecchhhHHHHHHHHHhcCC
Q psy8719 6 IFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~ 26 (33)
|-|..++.-+++-+.|++.|.
T Consensus 76 I~a~~~e~l~~I~~~L~~~G~ 96 (98)
T PF02829_consen 76 IEAPDEEDLDKIEEALKKKGF 96 (98)
T ss_dssp EEESSHHHHHHHHHHHHHTT-
T ss_pred EEECCHHHHHHHHHHHHHCCC
Confidence 556777777777777777763
No 389
>PF07545 Vg_Tdu: Vestigial/Tondu family; InterPro: IPR011520 The mammalian TEF and the Drosophila scalloped genes belong to a conserved family of transcriptional factors that possesses a TEA/ATTS DNA-binding domain. Transcriptional activation by these proteins likely requires interactions with specific coactivators. In Drosophila, Scalloped (Sd) interacts with Vestigial (Vg) to form a complex, which binds DNA through the Sd TEA/ATTS domain. The Sd-Vg heterodimer is a key regulator of wing development, which directly controls several target genes and is able to induce wing outgrowth when ectopically expressed. This short conserved region is needed for interaction with Sd [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 4EAZ_C.
Probab=36.25 E-value=49 Score=15.07 Aligned_cols=19 Identities=16% Similarity=0.200 Sum_probs=12.8
Q ss_pred ceEEEEecchhhHHHHHHH
Q psy8719 2 DRALIFCRTKLDCDNLERY 20 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~ 20 (33)
.+++||+-.+-+...+.++
T Consensus 5 s~cVvfTy~~Gd~~s~VDe 23 (33)
T PF07545_consen 5 SRCVVFTYFQGDIASVVDE 23 (33)
T ss_dssp TTEEEEE-SSS-HHHHHHH
T ss_pred ccEEEEEEEcCchHHHHHH
Confidence 4789999998887766553
No 390
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=36.08 E-value=33 Score=18.90 Aligned_cols=19 Identities=26% Similarity=0.268 Sum_probs=16.2
Q ss_pred hhhHHHHHHHHHhcCCcee
Q psy8719 11 KLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 11 K~~ad~La~~L~~~G~~~~ 29 (33)
+.+.|+|.+.|+..|.+++
T Consensus 11 ~~~~dri~~~l~e~g~~v~ 29 (96)
T COG4004 11 KPDPDRIMRGLSELGWTVS 29 (96)
T ss_pred CCCHHHHHHHHHHhCeeEe
Confidence 5688999999999997764
No 391
>TIGR01955 RfaH transcriptional activator RfaH. This model represents the transcriptional activator protein, RfaH. This protein is most closely related to the transcriptional termination/antitermination protein NusG (TIGR00922) and contains the KOW motif (pfam00467). This protein appears to be limited to the gamma proteobacteria. In E. coli, this gene appears to control the expression of haemolysin, sex factor and lipopolysaccharide genes.
Probab=35.95 E-value=60 Score=17.55 Aligned_cols=21 Identities=14% Similarity=0.483 Sum_probs=16.0
Q ss_pred EEEecchhhHHHHHHHHHhcCC
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~ 26 (33)
++.|+.+.+ +.+++.|+++|.
T Consensus 3 vl~~~~~~E-~~v~~~L~~~gi 23 (159)
T TIGR01955 3 LLYCKPRQE-QRAQEHLERQAV 23 (159)
T ss_pred EEEEcCchH-HHHHHHHHHCCC
Confidence 567777766 677888999885
No 392
>TIGR01809 Shik-DH-AROM shikimate-5-dehydrogenase, fungal AROM-type. This model represents a clade of shikimate-5-dehydrogenases found in Corynebacterium, Mycobacteria and fungi. The fungal sequences are pentafunctional proteins known as AroM which contain the central five seven steps in the chorismate biosynthesis pathway. The Corynebacterium and Mycobacterial sequences represent the sole shikimate-5-dehydrogenases in species which otherwise have every enzyme of the chorismate biosynthesis pathway.
Probab=35.81 E-value=78 Score=19.10 Aligned_cols=23 Identities=9% Similarity=-0.015 Sum_probs=18.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
++..|+-||.+.+++|++.+...
T Consensus 150 ~~i~I~nRt~~ka~~La~~~~~~ 172 (282)
T TIGR01809 150 TDITVINRNPDKLSRLVDLGVQV 172 (282)
T ss_pred CeEEEEeCCHHHHHHHHHHhhhc
Confidence 46788999999999999987543
No 393
>COG2222 AgaS Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]
Probab=35.75 E-value=75 Score=20.28 Aligned_cols=25 Identities=16% Similarity=0.339 Sum_probs=22.1
Q ss_pred EEEEe---cchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFC---RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~---nTK~~ad~La~~L~~~G~~~ 28 (33)
+|+|. .|++-.+++.++|++.|...
T Consensus 253 vi~~~~~d~tr~~~~r~~~~~~~~ga~v 280 (340)
T COG2222 253 VLLFVSEDETRELDERALKFLKNYGAKV 280 (340)
T ss_pred EEEEecCCcchhHHHHHHHHHHhcCCeE
Confidence 68888 89999999999999988764
No 394
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=35.55 E-value=31 Score=24.80 Aligned_cols=25 Identities=20% Similarity=0.384 Sum_probs=21.0
Q ss_pred eEEEEe-cchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFC-RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~-nTK~~ad~La~~L~~~G~~ 27 (33)
+.|||+ +||+-++.+++.+++.+..
T Consensus 63 ~rLv~~vPtReLa~Qi~~~~~~~~k~ 88 (844)
T TIGR02621 63 RRLVYVVNRRTVVDQVTEEAEKIGER 88 (844)
T ss_pred ceEEEeCchHHHHHHHHHHHHHHHHH
Confidence 578877 9999999999988887753
No 395
>PF06877 RraB: Regulator of ribonuclease activity B; InterPro: IPR009671 This entry occurs in several hypothetical bacterial proteins of around 120 residues in length. The function of these proteins is unknown. The protein structure has been determined for one member of this group, the hypothetical protein VCO424 from Vibrio cholerae; it has an alpha+beta sandwich fold.; PDB: 1NXI_A.
Probab=35.21 E-value=64 Score=16.36 Aligned_cols=23 Identities=9% Similarity=0.250 Sum_probs=16.3
Q ss_pred EecchhhHHHHHHHHHhcCCcee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~ 29 (33)
...++.+++.+++.|.+.|....
T Consensus 31 ~f~~~~~~~~f~~~~~~~g~~v~ 53 (104)
T PF06877_consen 31 YFEDEEDAEKFAEELEKLGYEVE 53 (104)
T ss_dssp EES-HHHHHHHHHHHHHHS---B
T ss_pred EeCCHHHHHHHHHHHHHCCCEEE
Confidence 34899999999999999987643
No 396
>TIGR01364 serC_1 phosphoserine aminotransferase. This model represents the common form of the phosphoserine aminotransferase SerC. The phosphoserine aminotransferase of the archaeon Methanosarcina barkeri and putative phosphoserine aminotransferase of Mycobacterium tuberculosis are represented by separate models. All are members of the class V aminotransferases (pfam00266).
Probab=35.19 E-value=32 Score=21.26 Aligned_cols=20 Identities=5% Similarity=0.094 Sum_probs=17.1
Q ss_pred EEEEecchhhHHHHHHHHHh
Q psy8719 4 ALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~ 23 (33)
++...||++++|.|.+.|++
T Consensus 325 S~~~~nt~edid~l~~al~~ 344 (349)
T TIGR01364 325 SIYNAMPLEGVQALVDFMKE 344 (349)
T ss_pred ECcCCCCHHHHHHHHHHHHH
Confidence 45678999999999999986
No 397
>PTZ00298 mevalonate kinase; Provisional
Probab=35.06 E-value=63 Score=19.79 Aligned_cols=22 Identities=5% Similarity=0.104 Sum_probs=17.9
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++.++...++++++++.|.+.
T Consensus 288 ~v~al~~~~~~a~~~~~~l~~~ 309 (328)
T PTZ00298 288 LVVALAASEDQRDAIAKAVRAR 309 (328)
T ss_pred EEEEEecchhhHHHHHHHHHHH
Confidence 4677888888899999998776
No 398
>cd08357 Glo_EDI_BRP_like_18 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=35.01 E-value=60 Score=15.78 Aligned_cols=19 Identities=16% Similarity=0.256 Sum_probs=16.2
Q ss_pred chhhHHHHHHHHHhcCCce
Q psy8719 10 TKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~ 28 (33)
...+.+++.+.|++.|...
T Consensus 74 ~~~dv~~~~~~l~~~g~~~ 92 (125)
T cd08357 74 SEEEFDALAERLEAAGVEF 92 (125)
T ss_pred eHHHHHHHHHHHHHCCCcE
Confidence 3489999999999999754
No 399
>PRK10672 rare lipoprotein A; Provisional
Probab=35.00 E-value=51 Score=21.69 Aligned_cols=23 Identities=9% Similarity=0.237 Sum_probs=16.8
Q ss_pred cchhhHHHHHHHHHhcCCceeee
Q psy8719 9 RTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
.++++++.+.+.|++.|..-+|.
T Consensus 335 ~sr~eA~kl~~rLk~~g~~qsFI 357 (361)
T PRK10672 335 ASRQQASALQQRLQTEAQQQSFI 357 (361)
T ss_pred CCHHHHHHHHHHHHhccCCCcEE
Confidence 46777888888888877766654
No 400
>PRK09004 FMN-binding protein MioC; Provisional
Probab=34.96 E-value=36 Score=18.66 Aligned_cols=19 Identities=16% Similarity=0.135 Sum_probs=13.5
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
||+.-|++|++.|.+.|..
T Consensus 14 nae~~A~~l~~~~~~~g~~ 32 (146)
T PRK09004 14 GAEYVADHLAEKLEEAGFS 32 (146)
T ss_pred HHHHHHHHHHHHHHHcCCc
Confidence 5666777777888777764
No 401
>cd00611 PSAT_like Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as a dimer and catalyzes the conversion of phosphohydroxypyruvate to phosphoserine.
Probab=34.72 E-value=34 Score=20.83 Aligned_cols=20 Identities=5% Similarity=0.140 Sum_probs=16.9
Q ss_pred EEEEecchhhHHHHHHHHHh
Q psy8719 4 ALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~ 23 (33)
++.+-||++++|+|.+.|++
T Consensus 333 S~~~~nt~edi~~l~~al~~ 352 (355)
T cd00611 333 SIYNALSLEGVQALADFMKE 352 (355)
T ss_pred EccCCCCHHHHHHHHHHHHH
Confidence 34567899999999999986
No 402
>TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase. The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene.
Probab=34.59 E-value=80 Score=19.77 Aligned_cols=25 Identities=24% Similarity=0.493 Sum_probs=21.3
Q ss_pred eEEEEec-chhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCR-TKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~n-TK~~ad~La~~L~~~G~~ 27 (33)
++||+|. .=..+...+..|+..|..
T Consensus 76 ~vvvyC~~gG~RS~~aa~~L~~~G~~ 101 (311)
T TIGR03167 76 QPLLYCWRGGMRSGSLAWLLAQIGFR 101 (311)
T ss_pred cEEEEECCCChHHHHHHHHHHHcCCC
Confidence 4899994 567899999999999985
No 403
>PF02437 Ski_Sno: SKI/SNO/DAC family; InterPro: IPR003380 The c-ski proto-oncogene has been shown to influence proliferation, morphological transformation and myogenic differentiation []. It may play a role in terminal differentiation of skeletal muscle cells but not in the determination of cells to the myogenic lineage. Sno, a Ski proto-oncogene homologue, is expressed in two isoforms and plays a role in the response to proliferation stimuli.; GO: 0005634 nucleus; PDB: 1L8R_B 3EQ5_F 1SBX_A.
Probab=34.54 E-value=32 Score=19.18 Aligned_cols=14 Identities=29% Similarity=0.233 Sum_probs=11.7
Q ss_pred chhhHHHHHHHHHh
Q psy8719 10 TKLDCDNLERYLNS 23 (33)
Q Consensus 10 TK~~ad~La~~L~~ 23 (33)
||.|+++|.+.|..
T Consensus 100 tk~DaerL~~~~~~ 113 (114)
T PF02437_consen 100 TKTDAERLCKSCLH 113 (114)
T ss_dssp EHHHHHHHHHHHHS
T ss_pred eHHHHHHHHHHHhc
Confidence 78999999988753
No 404
>cd07242 Glo_EDI_BRP_like_6 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.
Probab=34.50 E-value=64 Score=15.92 Aligned_cols=24 Identities=21% Similarity=0.272 Sum_probs=18.9
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCce
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~ 28 (33)
|-| +.+.++.+.+.+.|.+.|...
T Consensus 72 ia~~v~~~~d~~~~~~~l~~~g~~~ 96 (128)
T cd07242 72 LAFRAPSREAVDELYARLAKRGAEI 96 (128)
T ss_pred EEEEcCCHHHHHHHHHHHHHcCCeE
Confidence 455 566788999999999888764
No 405
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=34.50 E-value=64 Score=18.71 Aligned_cols=21 Identities=33% Similarity=0.488 Sum_probs=15.9
Q ss_pred ceEEEEecc--------hhhHHHHHHHHH
Q psy8719 2 DRALIFCRT--------KLDCDNLERYLN 22 (33)
Q Consensus 2 ~~aIVF~nT--------K~~ad~La~~L~ 22 (33)
++++|..|+ .++|+.+++.|.
T Consensus 78 ~~v~IvSNsaGs~~d~~~~~a~~~~~~lg 106 (168)
T PF09419_consen 78 DRVLIVSNSAGSSDDPDGERAEALEKALG 106 (168)
T ss_pred CeEEEEECCCCcccCccHHHHHHHHHhhC
Confidence 378999997 577777777764
No 406
>PHA03169 hypothetical protein; Provisional
Probab=34.43 E-value=25 Score=23.63 Aligned_cols=16 Identities=13% Similarity=0.486 Sum_probs=13.1
Q ss_pred EEEEecchhhHHHHHH
Q psy8719 4 ALIFCRTKLDCDNLER 19 (33)
Q Consensus 4 aIVF~nTK~~ad~La~ 19 (33)
.-|||++|..+..|-.
T Consensus 369 ItVyCqsk~TaK~V~k 384 (413)
T PHA03169 369 ITVFCQSRGTAKAVIK 384 (413)
T ss_pred EEEEecCcccHHHHHH
Confidence 4599999999988754
No 407
>cd08346 PcpA_N_like N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. The N-terminal domain of Sphingobium chlorophenolicum (formerly Sphingomonas chlorophenolica) 2,6-dichloro-p-hydroquinone1,2-dioxygenase (PcpA), and similar proteins. PcpA is a key enzyme in the pentachlorophenol (PCP) degradation pathway, catalyzing the conversion of 2,6-dichloro-p-hydroquinone to 2-chloromaleylacetate. This domain belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.
Probab=34.31 E-value=61 Score=15.62 Aligned_cols=21 Identities=10% Similarity=0.096 Sum_probs=16.8
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+...++.+++++.|++.|...
T Consensus 81 v~~~~~~~~~~~~~~~~g~~~ 101 (126)
T cd08346 81 VPSEASLDAWRERLRAAGVPV 101 (126)
T ss_pred cCCHHHHHHHHHHHHHcCCcc
Confidence 355668899999999999764
No 408
>cd07261 Glo_EDI_BRP_like_11 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=34.31 E-value=62 Score=15.69 Aligned_cols=21 Identities=10% Similarity=0.036 Sum_probs=16.9
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+...++.+.+.+.|.+.|...
T Consensus 67 v~~~~~~~~~~~~~~~~g~~v 87 (114)
T cd07261 67 VDDGAAVDALYAEWQAKGVKI 87 (114)
T ss_pred cCCHHHHHHHHHHHHHCCCeE
Confidence 456778999999999998754
No 409
>PRK08862 short chain dehydrogenase; Provisional
Probab=34.29 E-value=92 Score=17.68 Aligned_cols=27 Identities=0% Similarity=0.016 Sum_probs=18.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
++++..++....+++.+.+.+.|.+..
T Consensus 31 ~V~~~~r~~~~l~~~~~~i~~~~~~~~ 57 (227)
T PRK08862 31 TLILCDQDQSALKDTYEQCSALTDNVY 57 (227)
T ss_pred EEEEEcCCHHHHHHHHHHHHhcCCCeE
Confidence 456667777777778777777665543
No 410
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=34.28 E-value=84 Score=19.96 Aligned_cols=26 Identities=19% Similarity=0.509 Sum_probs=21.6
Q ss_pred ceEEEEec-chhhHHHHHHHHHhcCCc
Q psy8719 2 DRALIFCR-TKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 2 ~~aIVF~n-TK~~ad~La~~L~~~G~~ 27 (33)
..+||+|. .=..+..++..|...|..
T Consensus 89 ~~ivvyC~rgG~RS~~aa~~L~~~G~~ 115 (345)
T PRK11784 89 PRGLLYCWRGGLRSGSVQQWLKEAGID 115 (345)
T ss_pred CeEEEEECCCChHHHHHHHHHHHcCCC
Confidence 36899994 567899999999999975
No 411
>PRK11914 diacylglycerol kinase; Reviewed
Probab=34.23 E-value=1.1e+02 Score=18.35 Aligned_cols=32 Identities=3% Similarity=0.044 Sum_probs=19.6
Q ss_pred CceEEEEecch-------hhHHHHHHHHHhcCCceeeee
Q psy8719 1 MDRALIFCRTK-------LDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 1 ~~~aIVF~nTK-------~~ad~La~~L~~~G~~~~~~~ 32 (33)
|.+.+++.|-. +..+++.+.|+++|.+...+.
T Consensus 8 ~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~~~ 46 (306)
T PRK11914 8 IGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVEIV 46 (306)
T ss_pred CceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence 34666666633 334567778888887765443
No 412
>TIGR02467 CbiE precorrin-6y C5,15-methyltransferase (decarboxylating), CbiE subunit. This model recognizes the CbiE methylase which is responsible, in part (along with CbiT), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiT subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=34.21 E-value=67 Score=18.15 Aligned_cols=24 Identities=8% Similarity=0.141 Sum_probs=20.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++|+..-+...+++++.|.+.|.
T Consensus 141 ~~vvl~~~~~~~~~i~~~L~~~g~ 164 (204)
T TIGR02467 141 KVAVLTDPRNGPAEIARELIELGI 164 (204)
T ss_pred cEEEEeCCCCCHHHHHHHHHHCCC
Confidence 567887777889999999998874
No 413
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=34.19 E-value=96 Score=21.14 Aligned_cols=27 Identities=15% Similarity=0.122 Sum_probs=22.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
..-|-++|...+..+.+.|.++|....
T Consensus 344 diAVL~Rs~~~~~~le~~L~~~gIP~~ 370 (672)
T PRK10919 344 DYAILYRGNHQSRVFEKFLMQNRIPYK 370 (672)
T ss_pred cEEEEEeCchhHHHHHHHHHHcCCCEE
Confidence 345668999999999999999997654
No 414
>PRK02645 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=34.18 E-value=1.2e+02 Score=18.81 Aligned_cols=29 Identities=7% Similarity=0.229 Sum_probs=19.7
Q ss_pred CceEEEEecch-----hhHHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTK-----LDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK-----~~ad~La~~L~~~G~~~~ 29 (33)
+.+++++.|.. +.++++.++|++.|.+..
T Consensus 3 ~kkv~lI~n~~~~~~~~~~~~i~~~L~~~g~~v~ 36 (305)
T PRK02645 3 LKQVIIAYKAGSSQAKEAAERCAKQLEARGCKVL 36 (305)
T ss_pred cCEEEEEEeCCCHHHHHHHHHHHHHHHHCCCEEE
Confidence 35678888853 335577888888887744
No 415
>TIGR02519 pilus_MshL pilus (MSHA type) biogenesis protein MshL. Members of this family are predicted secretins, that is, outer membrane pore proteins associated with delivery of proteins from periplasm to the outside of the cell. Related families include GspD of type II secretion (TIGR02517), the YscC/HrcC family from type III secretion (TIGR02516), and the PilQ secretin of type IV pilus formation (TIGR02515). Members of this family are found in gene clusters associated with MSHA (mannose-sensitive hemagglutinin) and related pili, and appear to be the secretin of this pilus system.
Probab=33.90 E-value=70 Score=19.15 Aligned_cols=24 Identities=25% Similarity=0.356 Sum_probs=21.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
+.|++..|+++.+++.+.|++...
T Consensus 8 nsl~v~~t~~~~~~i~~~i~~ld~ 31 (290)
T TIGR02519 8 GLLTVTATPAQIRRVEEYLESLQE 31 (290)
T ss_pred CEEEEEcCHHHHHHHHHHHHHHhh
Confidence 689999999999999999998753
No 416
>PF00466 Ribosomal_L10: Ribosomal protein L10; InterPro: IPR001790 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 [, ]. On the basis of sequence similarities the following prokaryotic and eukaryotic ribosomal proteins can be grouped: Bacterial 50S ribosomal protein L10; Archaebacterial acidic ribosomal protein P0 homologue (L10E); Eukaryotic 60S ribosomal protein P0 (L10E). This entry represents the ribosomal protein L10P family, with includes the above mentioned ribosomal proteins.; GO: 0042254 ribosome biogenesis, 0005622 intracellular; PDB: 3A1Y_G 3D5D_J 3PYT_I 3PYV_I 3D5B_J 3PYO_I 3PYR_I 3MS1_I 3MRZ_I 1VQ9_G ....
Probab=33.88 E-value=68 Score=16.08 Aligned_cols=20 Identities=30% Similarity=0.401 Sum_probs=14.7
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.++||+ .++...+++.|.+.
T Consensus 79 ~~~if~--~~d~~~~~k~l~~~ 98 (100)
T PF00466_consen 79 TALIFS--NEDPFEIAKILKKF 98 (100)
T ss_dssp EEEEEE--SSSHHHHHHHHHHS
T ss_pred EEEEEE--CCCHHHHHHHHHHh
Confidence 588999 45677788877653
No 417
>PF04255 DUF433: Protein of unknown function (DUF433); InterPro: IPR007367 This is a family of uncharacterised proteins.; PDB: 2GA1_B.
Probab=33.86 E-value=45 Score=15.72 Aligned_cols=21 Identities=10% Similarity=0.197 Sum_probs=15.4
Q ss_pred EEEecchhhHHHHHHHHHhcCC
Q psy8719 5 LIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 5 IVF~nTK~~ad~La~~L~~~G~ 26 (33)
-+|-.|+-.++.|.+.+ ++|.
T Consensus 12 P~i~GTRI~v~~i~~~~-~~G~ 32 (56)
T PF04255_consen 12 PVIRGTRIPVRDILDLL-AAGE 32 (56)
T ss_dssp -EETTSS-BHHHHHHHH-HTT-
T ss_pred ceEcCceecHHHHHHHH-HcCC
Confidence 47888999999999998 6654
No 418
>PRK07677 short chain dehydrogenase; Provisional
Probab=33.81 E-value=90 Score=17.44 Aligned_cols=25 Identities=16% Similarity=0.162 Sum_probs=18.2
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++++++++....+++.+.+.+.+.+
T Consensus 27 ~Vi~~~r~~~~~~~~~~~~~~~~~~ 51 (252)
T PRK07677 27 NVVITGRTKEKLEEAKLEIEQFPGQ 51 (252)
T ss_pred EEEEEeCCHHHHHHHHHHHHhcCCc
Confidence 5677788877788888888766543
No 419
>PRK12436 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=33.60 E-value=89 Score=19.35 Aligned_cols=27 Identities=7% Similarity=0.114 Sum_probs=22.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
..++|+..|.++..++.++.++++..+
T Consensus 37 a~~vv~p~~~edv~~~l~~a~~~~ip~ 63 (305)
T PRK12436 37 ADVFVAPTNYDEIQEVIKYANKYNIPV 63 (305)
T ss_pred EEEEEecCCHHHHHHHHHHHHHcCCCE
Confidence 368999999999999999998877654
No 420
>PF14719 PID_2: Phosphotyrosine interaction domain (PTB/PID)
Probab=33.44 E-value=56 Score=19.38 Aligned_cols=18 Identities=17% Similarity=0.449 Sum_probs=15.5
Q ss_pred EEecchhhHHHHHHHHHh
Q psy8719 6 IFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~ 23 (33)
|.|.++..|..|+..|.+
T Consensus 100 vlC~k~~~Akama~~L~~ 117 (182)
T PF14719_consen 100 VLCSKEEKAKAMARALYQ 117 (182)
T ss_pred EEECCHHHHHHHHHHHHH
Confidence 689999999999888865
No 421
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=33.41 E-value=71 Score=23.55 Aligned_cols=26 Identities=19% Similarity=0.075 Sum_probs=23.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.+||.|.+-+..+.|++.|.+.|...
T Consensus 428 PVLVgT~SIe~SE~ls~~L~~~gi~h 453 (925)
T PRK12903 428 PILIGTAQVEDSETLHELLLEANIPH 453 (925)
T ss_pred CEEEEeCcHHHHHHHHHHHHHCCCCc
Confidence 58999999999999999999998754
No 422
>PRK05723 flavodoxin; Provisional
Probab=33.25 E-value=40 Score=18.78 Aligned_cols=19 Identities=11% Similarity=0.036 Sum_probs=13.5
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
||+.-|++|++.|.+.|..
T Consensus 13 ~ae~~A~~la~~l~~~g~~ 31 (151)
T PRK05723 13 TAEEVARHAESLLKAAGFE 31 (151)
T ss_pred HHHHHHHHHHHHHHHCCCc
Confidence 5667777777777776654
No 423
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=33.13 E-value=57 Score=14.97 Aligned_cols=26 Identities=8% Similarity=0.024 Sum_probs=17.7
Q ss_pred eEEEEecch---hhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTK---LDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK---~~ad~La~~L~~~G~~~ 28 (33)
+++|.+... ..+-+++..|+++|...
T Consensus 3 ~v~i~~~~~~~~~~a~~i~~~Lr~~g~~v 31 (91)
T cd00859 3 DVYVVPLGEGALSEALELAEQLRDAGIKA 31 (91)
T ss_pred cEEEEEcChHHHHHHHHHHHHHHHCCCEE
Confidence 345555443 35888999999988654
No 424
>PRK14608 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional
Probab=33.04 E-value=78 Score=19.18 Aligned_cols=25 Identities=0% Similarity=0.029 Sum_probs=20.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++.+|++++.++++++.|+++..+
T Consensus 257 tvf~l~~~~~~a~~~~~~l~~~~~~ 281 (290)
T PRK14608 257 TCFALFADEAAAEAAAAAIAAAHPG 281 (290)
T ss_pred CeEEEeCCHHHHHHHHHHhHhhCCC
Confidence 4677888999999999999876543
No 425
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=33.03 E-value=96 Score=17.50 Aligned_cols=20 Identities=30% Similarity=0.438 Sum_probs=17.2
Q ss_pred chhhHHHHHHHHHhcCCcee
Q psy8719 10 TKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~~ 29 (33)
|..+|.++-+.|++.|..+.
T Consensus 15 t~~~C~~ak~iL~~~~V~~~ 34 (147)
T cd03031 15 TFEDCNNVRAILESFRVKFD 34 (147)
T ss_pred cChhHHHHHHHHHHCCCcEE
Confidence 69999999999999987654
No 426
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=33.01 E-value=1e+02 Score=20.46 Aligned_cols=28 Identities=14% Similarity=0.370 Sum_probs=21.8
Q ss_pred ceEEEEecchhh-----------HHHHHHHHHhcCCcee
Q psy8719 2 DRALIFCRTKLD-----------CDNLERYLNSIDRRLI 29 (33)
Q Consensus 2 ~~aIVF~nTK~~-----------ad~La~~L~~~G~~~~ 29 (33)
+++++|++|-.+ |-.+|++++.+|+..-
T Consensus 210 ~rtv~vv~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VL 248 (433)
T PRK07594 210 KRCVIVVATSDRPALERVRALFVATTIAEFFRDNGKRVV 248 (433)
T ss_pred ceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEE
Confidence 578888888666 6779999998887643
No 427
>PRK07666 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=32.97 E-value=90 Score=17.19 Aligned_cols=27 Identities=7% Similarity=0.201 Sum_probs=18.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
++++..++....+++.+.+...|.+..
T Consensus 33 ~Vi~~~r~~~~~~~~~~~~~~~~~~~~ 59 (239)
T PRK07666 33 NVGLLARTEENLKAVAEEVEAYGVKVV 59 (239)
T ss_pred EEEEEeCCHHHHHHHHHHHHHhCCeEE
Confidence 466777777777777777766555443
No 428
>cd05796 Ribosomal_P0_like Ribosomal protein L10 family, P0-like protein subfamily; composed of uncharacterized eukaryotic proteins with similarity to the 60S ribosomal protein P0, including the Saccharomyces cerevisiae protein called mRNA turnover protein 4 (MRT4). MRT4 may be involved in mRNA decay. P0 forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. It occupies the L7/L12 stalk of the ribosome. The stalk is known to contain the binding site for elongation factors EF-G and EF-Tu; however, there is disagreement as to whether or not P0 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, P0 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WAS
Probab=32.93 E-value=70 Score=18.00 Aligned_cols=21 Identities=19% Similarity=0.360 Sum_probs=15.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.+|||+| .+...+++.|.+..
T Consensus 80 ~~lift~--~dp~~v~k~l~~~~ 100 (163)
T cd05796 80 VGLLFTN--EPPEEVIEYFDSYS 100 (163)
T ss_pred EEEEEEC--CCHHHHHHHHHHcC
Confidence 4788887 57888888887654
No 429
>PRK00881 purH bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional
Probab=32.85 E-value=85 Score=21.54 Aligned_cols=29 Identities=21% Similarity=0.294 Sum_probs=25.3
Q ss_pred CceEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
|.+++|=+.-|.+...+++.|.+.|.+..
T Consensus 4 ~~~aLISVsDK~~iv~lAk~L~~lGfeI~ 32 (513)
T PRK00881 4 IKRALISVSDKTGIVEFAKALVELGVEIL 32 (513)
T ss_pred cCEEEEEEeCcccHHHHHHHHHHCCCEEE
Confidence 45788888899999999999999998763
No 430
>cd07240 ED_TypeI_classII_N N-terminal domain of type I, class II extradiol dioxygenases; non-catalytic domain. This family contains the N-terminal, non-catalytic, domain of type I, class II extradiol dioxygenases. Dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. Two major groups of dioxygenases have been identified according to the cleavage site; extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon, whereas intradiol enzymes cleave the aromatic ring between two hydroxyl groups. Extradiol dioxygenases are classified into type I and type II enzymes. Type I extradiol dioxygenases include class I and class II enzymes. These two classes of enzymes show sequence similarity; the two-domain class II enzymes evolved from a class I enzyme through gene duplication. The extradiol dioxygenases represented in this fa
Probab=32.83 E-value=65 Score=15.47 Aligned_cols=21 Identities=14% Similarity=0.105 Sum_probs=17.4
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+.+.++.+.+.+.|++.|.+.
T Consensus 65 v~~~~~v~~~~~~l~~~g~~~ 85 (117)
T cd07240 65 VASEEDLEALAAHLEAAGVAP 85 (117)
T ss_pred cCCHHHHHHHHHHHHHcCCce
Confidence 556778999999999998764
No 431
>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional
Probab=32.77 E-value=25 Score=20.28 Aligned_cols=11 Identities=27% Similarity=0.356 Sum_probs=9.1
Q ss_pred ceEEEEecchh
Q psy8719 2 DRALIFCRTKL 12 (33)
Q Consensus 2 ~~aIVF~nTK~ 12 (33)
.+++.|||+|=
T Consensus 27 Gkvf~FcssKC 37 (131)
T PRK14891 27 GTVLHFVDSKC 37 (131)
T ss_pred CCEEEEecHHH
Confidence 47889999985
No 432
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=32.73 E-value=68 Score=15.78 Aligned_cols=17 Identities=18% Similarity=0.178 Sum_probs=13.5
Q ss_pred hHHHHHHHHHhcCCcee
Q psy8719 13 DCDNLERYLNSIDRRLI 29 (33)
Q Consensus 13 ~ad~La~~L~~~G~~~~ 29 (33)
-+.+|++.|.++|++..
T Consensus 6 ~~~~l~~~L~~~G~~V~ 22 (160)
T PF13579_consen 6 YVRELARALAARGHEVT 22 (160)
T ss_dssp HHHHHHHHHHHTT-EEE
T ss_pred HHHHHHHHHHHCCCEEE
Confidence 46789999999998865
No 433
>PRK05355 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional
Probab=32.72 E-value=35 Score=21.10 Aligned_cols=20 Identities=5% Similarity=0.094 Sum_probs=16.8
Q ss_pred EEEEecchhhHHHHHHHHHh
Q psy8719 4 ALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~ 23 (33)
++...||++++|+|.+.|++
T Consensus 335 S~~~~nt~eei~~l~~~l~~ 354 (360)
T PRK05355 335 SIYNAMPLEGVQALVDFMKE 354 (360)
T ss_pred ECCCCCCHHHHHHHHHHHHH
Confidence 35677999999999999876
No 434
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=32.67 E-value=98 Score=20.68 Aligned_cols=29 Identities=10% Similarity=0.287 Sum_probs=21.7
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhc-CCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSI-DRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~-G~~~~ 29 (33)
+++++|+++|-++ |-.+|++++.+ |+...
T Consensus 200 l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~~VL 240 (461)
T PRK12597 200 LDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKEDVL 240 (461)
T ss_pred cceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceE
Confidence 3578899998655 66789999887 76543
No 435
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=32.55 E-value=34 Score=24.26 Aligned_cols=24 Identities=25% Similarity=0.310 Sum_probs=19.1
Q ss_pred ceEEEEecchhhHHHHH----HHHHhcC
Q psy8719 2 DRALIFCRTKLDCDNLE----RYLNSID 25 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La----~~L~~~G 25 (33)
-+.|+|++++..++.+. +.+...|
T Consensus 307 ~~tL~F~~sr~~~e~~~~~~~~~~~~~~ 334 (851)
T COG1205 307 IQTLVFFRSRKQVELLYLSPRRRLVREG 334 (851)
T ss_pred ceEEEEEehhhhhhhhhhchhHHHhhcc
Confidence 37899999999999998 5555544
No 436
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=32.50 E-value=55 Score=16.48 Aligned_cols=16 Identities=13% Similarity=0.196 Sum_probs=13.8
Q ss_pred hhhHHHHHHHHHhcCC
Q psy8719 11 KLDCDNLERYLNSIDR 26 (33)
Q Consensus 11 K~~ad~La~~L~~~G~ 26 (33)
++.++.+++.+...|+
T Consensus 45 ~~h~~~l~e~i~~lgg 60 (142)
T PF00210_consen 45 REHADELAERILMLGG 60 (142)
T ss_dssp HHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHhcCCC
Confidence 4678999999999987
No 437
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=32.44 E-value=92 Score=17.10 Aligned_cols=27 Identities=11% Similarity=0.017 Sum_probs=17.3
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-.+..+.+..++++|.+.|++.+-++
T Consensus 96 v~~d~~~~~~~~~~~l~~~g~~~i~~l 122 (268)
T cd06298 96 VNIDYKKAAFEATELLIKNGHKKIAFI 122 (268)
T ss_pred EEECcHHHHHHHHHHHHHcCCceEEEE
Confidence 334445666777777777777766554
No 438
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=32.42 E-value=92 Score=21.13 Aligned_cols=27 Identities=19% Similarity=0.130 Sum_probs=22.4
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+..-|-++++..+..|.+.|.+.|...
T Consensus 345 ~diAVL~R~~~~~~~l~~~L~~~gIP~ 371 (726)
T TIGR01073 345 GDFAILYRTNAQSRVFEETLLKANIPY 371 (726)
T ss_pred CCEEEEEeCchhHHHHHHHHHHcCCCE
Confidence 345677999999999999999998764
No 439
>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=32.36 E-value=23 Score=23.97 Aligned_cols=23 Identities=22% Similarity=0.349 Sum_probs=19.4
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.|++|.++|++|++.|.+-|.++
T Consensus 286 Af~~~~~~A~~La~~~~~vg~~~ 308 (493)
T TIGR02645 286 AKVRSLQEAERLARLFIELGDRL 308 (493)
T ss_pred CcCCCHHHHHHHHHHHHHHHHHc
Confidence 38999999999999998776543
No 440
>TIGR01011 rpsB_bact ribosomal protein S2, bacterial type. TIGR01012 describes the archaeal and cytosolic forms.
Probab=32.29 E-value=75 Score=19.00 Aligned_cols=22 Identities=14% Similarity=0.175 Sum_probs=17.6
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.-|.|++||..+.++.+.+.+.
T Consensus 63 g~iLfV~tk~~~~~~v~~~a~~ 84 (225)
T TIGR01011 63 GKILFVGTKKQAKEIIKEEAER 84 (225)
T ss_pred CEEEEEeCCHHHHHHHHHHHHH
Confidence 4689999999998888776543
No 441
>cd05795 Ribosomal_P0_L10e Ribosomal protein L10 family, P0 and L10e subfamily; composed of eukaryotic 60S ribosomal protein P0 and the archaeal P0 homolog, L10e. P0 or L10e forms a tight complex with multiple copies of the small acidic protein L12(e). This complex forms a stalk structure on the large subunit of the ribosome. The stalk is known to contain the binding site for elongation factors G and Tu (EF-G and EF-Tu, respectively); however, there is disagreement as to whether or not L10 is involved in forming the binding site. The stalk is believed to be associated with GTPase activities in protein synthesis. In a neuroblastoma cell line, L10 has been shown to interact with the SH3 domain of Src and to activate the binding of the Nck1 adaptor protein with skeletal proteins such as the Wiskott-Aldrich Syndrome Protein (WASP) and the WASP-interacting protein (WIP). These eukaryotic and archaeal P0 sequences have an additional C-terminal domain homologous with acidic proteins P1 and P2.
Probab=31.98 E-value=73 Score=18.12 Aligned_cols=21 Identities=19% Similarity=0.206 Sum_probs=16.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.+|||+| .+...+++.|.+..
T Consensus 79 ~~liFt~--~dp~~v~k~l~~~~ 99 (175)
T cd05795 79 VGFIFTN--GDPFEIRKILEENK 99 (175)
T ss_pred EEEEEEC--CCHHHHHHHHHHcC
Confidence 5788886 67888888887654
No 442
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=31.92 E-value=1.3e+02 Score=18.54 Aligned_cols=31 Identities=16% Similarity=0.185 Sum_probs=20.3
Q ss_pred ceEEEEecch-------hhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTK-------LDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK-------~~ad~La~~L~~~G~~~~~~~ 32 (33)
.++.++.|.. +..+++.+.|+++|++.+...
T Consensus 3 ~~~~~i~Np~sG~~~~~~~~~~~~~~l~~~g~~~~~~~ 40 (301)
T COG1597 3 KKALLIYNPTSGKGKAKKLLREVEELLEEAGHELSVRV 40 (301)
T ss_pred ceEEEEEcccccccchhhHHHHHHHHHHhcCCeEEEEE
Confidence 3555666554 346677788888888777654
No 443
>TIGR02992 ectoine_eutC ectoine utilization protein EutC. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti, Silicibacter pomeroyi, Agrobacterium tumefaciens, and Pseudomonas putida. This family belongs to the ornithine cyclodeaminase/mu-crystallin family (pfam02423).
Probab=31.90 E-value=79 Score=19.44 Aligned_cols=23 Identities=26% Similarity=0.361 Sum_probs=19.9
Q ss_pred ceEEEEecchhhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~ 24 (33)
+++.||-++.+.++.+++.+.+.
T Consensus 155 ~~v~V~~R~~~~a~~~a~~~~~~ 177 (326)
T TIGR02992 155 RSARIWARDSAKAEALALQLSSL 177 (326)
T ss_pred cEEEEECCCHHHHHHHHHHHHhh
Confidence 56889999999999999999654
No 444
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=31.89 E-value=71 Score=21.45 Aligned_cols=23 Identities=13% Similarity=0.096 Sum_probs=17.8
Q ss_pred ceEEEEecch--------hhHHHHHHHHHhc
Q psy8719 2 DRALIFCRTK--------LDCDNLERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK--------~~ad~La~~L~~~ 24 (33)
.+++|||++. ..++++++.|.+.
T Consensus 449 ~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~ 479 (630)
T TIGR00643 449 RQAYVVYPLIEESEKLDLKAAEALYERLKKA 479 (630)
T ss_pred CcEEEEEccccccccchHHHHHHHHHHHHhh
Confidence 4799999875 5677888888764
No 445
>PRK05599 hypothetical protein; Provisional
Probab=31.79 E-value=1e+02 Score=17.42 Aligned_cols=25 Identities=12% Similarity=0.104 Sum_probs=19.7
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++++-.++.+..+++++.|++.|..
T Consensus 25 ~Vil~~r~~~~~~~~~~~l~~~~~~ 49 (246)
T PRK05599 25 DVVLAARRPEAAQGLASDLRQRGAT 49 (246)
T ss_pred EEEEEeCCHHHHHHHHHHHHhccCC
Confidence 4677788888889999999877654
No 446
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=31.74 E-value=57 Score=16.73 Aligned_cols=20 Identities=15% Similarity=-0.135 Sum_probs=16.3
Q ss_pred EecchhhHHHHHHHHHhcCC
Q psy8719 7 FCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~ 26 (33)
.+.++.+|-.+++.|-+.|.
T Consensus 43 ~~~~r~eAv~lg~~Ll~~G~ 62 (81)
T cd04439 43 EISKPEEGVNLGQALLENGI 62 (81)
T ss_pred CCCCHHHHHHHHHHHHHCCC
Confidence 36678899999999988763
No 447
>PRK05867 short chain dehydrogenase; Provisional
Probab=31.68 E-value=1e+02 Score=17.28 Aligned_cols=26 Identities=12% Similarity=0.132 Sum_probs=18.3
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
++++..++.+..+++.+.|+..|.+.
T Consensus 35 ~V~~~~r~~~~~~~~~~~l~~~~~~~ 60 (253)
T PRK05867 35 QVAIAARHLDALEKLADEIGTSGGKV 60 (253)
T ss_pred EEEEEcCCHHHHHHHHHHHHhcCCeE
Confidence 45666777777888888887766443
No 448
>PF13104 DUF3956: Protein of unknown function (DUF3956)
Probab=31.52 E-value=40 Score=16.23 Aligned_cols=11 Identities=18% Similarity=0.603 Sum_probs=8.2
Q ss_pred CceEEEEecch
Q psy8719 1 MDRALIFCRTK 11 (33)
Q Consensus 1 ~~~aIVF~nTK 11 (33)
|+++++|.|..
T Consensus 1 m~sc~~fvngq 11 (45)
T PF13104_consen 1 MESCVVFVNGQ 11 (45)
T ss_pred CceEEEEecCC
Confidence 57888888754
No 449
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=31.51 E-value=64 Score=19.38 Aligned_cols=22 Identities=0% Similarity=0.081 Sum_probs=17.0
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.-|.|++||..+.++.+.....
T Consensus 68 ~~ILfVgTk~~~~~~v~k~A~~ 89 (204)
T PRK04020 68 EKILVVSSRQYGQKPVQKFAEV 89 (204)
T ss_pred CeEEEEeCCHHHHHHHHHHHHH
Confidence 4589999999998877766543
No 450
>PRK06172 short chain dehydrogenase; Provisional
Probab=31.51 E-value=99 Score=17.19 Aligned_cols=26 Identities=4% Similarity=0.054 Sum_probs=18.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
++++.+++....+++.+.+.+.|...
T Consensus 33 ~v~~~~r~~~~~~~~~~~~~~~~~~~ 58 (253)
T PRK06172 33 KVVVADRDAAGGEETVALIREAGGEA 58 (253)
T ss_pred EEEEEeCCHHHHHHHHHHHHhcCCce
Confidence 46777888777778777777666543
No 451
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=31.46 E-value=96 Score=17.85 Aligned_cols=24 Identities=13% Similarity=0.091 Sum_probs=20.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.++|+........++++.|.+.|.
T Consensus 166 ~~~vl~~~~~~~~~i~~~L~~~g~ 189 (249)
T PRK06136 166 DTLVIYMGVRNLPYIAAQLLAAGR 189 (249)
T ss_pred CeEEEECCHHHHHHHHHHHHHcCC
Confidence 568888889999999999998864
No 452
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=31.43 E-value=97 Score=17.08 Aligned_cols=27 Identities=7% Similarity=-0.178 Sum_probs=18.7
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++-...+..++++|.+.|++.+-++
T Consensus 92 V~~d~~~~g~~~~~~l~~~g~~~i~~i 118 (265)
T cd06291 92 VSSDNYEGGRLAAEELIERGCKHIAHI 118 (265)
T ss_pred EeechHHHHHHHHHHHHHcCCcEEEEE
Confidence 445555667778888888888776554
No 453
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=31.41 E-value=61 Score=17.92 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=14.7
Q ss_pred cchhhHHHHHHHHHhcCCc
Q psy8719 9 RTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~ 27 (33)
.|+..++.|.+.|.+.+.+
T Consensus 69 ~t~~q~~~l~~~L~~~~~~ 87 (159)
T cd03411 69 ITRAQAEALEKALDERGID 87 (159)
T ss_pred HHHHHHHHHHHHHhccCCC
Confidence 5788899999999876543
No 454
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=31.30 E-value=47 Score=16.31 Aligned_cols=17 Identities=24% Similarity=0.202 Sum_probs=13.1
Q ss_pred hhhHHHHHHHHHhcCCc
Q psy8719 11 KLDCDNLERYLNSIDRR 27 (33)
Q Consensus 11 K~~ad~La~~L~~~G~~ 27 (33)
++-++.|.+.|++.|..
T Consensus 10 ~~~a~~l~~~L~~~g~~ 26 (102)
T PF13676_consen 10 REFAERLAERLESAGIR 26 (102)
T ss_dssp CCCHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHHhhcCCE
Confidence 56789999999999874
No 455
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=31.26 E-value=1.1e+02 Score=19.02 Aligned_cols=29 Identities=3% Similarity=0.193 Sum_probs=20.7
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhc-CCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSI-DRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~-G~~~~ 29 (33)
+++++|+++|-++ +-.+|++++.+ |+...
T Consensus 126 ~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~~g~~Vl 166 (274)
T cd01133 126 LSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVL 166 (274)
T ss_pred cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEE
Confidence 3577888888665 55678888877 76543
No 456
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=31.23 E-value=1.1e+02 Score=20.52 Aligned_cols=29 Identities=7% Similarity=0.233 Sum_probs=21.2
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~G~~~~ 29 (33)
+++++|+++|-++ |-.+|++++.+|...-
T Consensus 216 l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~~VL 255 (444)
T PRK08972 216 RARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVL 255 (444)
T ss_pred cccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEE
Confidence 3578888888765 4558889988887644
No 457
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=31.17 E-value=57 Score=14.33 Aligned_cols=17 Identities=12% Similarity=0.091 Sum_probs=12.8
Q ss_pred chhhHHHHHHHHHhcCC
Q psy8719 10 TKLDCDNLERYLNSIDR 26 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~ 26 (33)
|++.+.++-..|+++|.
T Consensus 15 t~ETVSR~l~~l~~~gl 31 (32)
T PF00325_consen 15 TRETVSRILKKLERQGL 31 (32)
T ss_dssp -HHHHHHHHHHHHHTTS
T ss_pred cHHHHHHHHHHHHHcCC
Confidence 67778888888888773
No 458
>cd09013 BphC-JF8_N_like N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, a key step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). BphC belongs to the type I extradiol dioxygenase family, which requires a metal ion in the active site in its catalytic mechanism. Polychlorinated biphenyl degrading bacteria demonstrate a multiplicity of BphCs. This subfamily of BphC is represented by the enzyme purified from the thermophilic biphenyl and naphthalene degrader, Bacillus sp. JF8. The members in this family of BphC enzymes may use either Mn(II) or Fe(II) as cofactors. The enzyme purified from Bacillus sp. JF8 is Mn(II)-dependent, however, the enzyme from Rhodococcus jostii RHAI has Fe(II) bound to it. BphC_JF8 is thermostable and its optimum activity is at 85 degrees C
Probab=31.17 E-value=75 Score=15.72 Aligned_cols=23 Identities=4% Similarity=-0.006 Sum_probs=18.7
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCc
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~ 27 (33)
+-| +.+.++.+++.+.|++.|..
T Consensus 66 ~af~v~~~~~v~~~~~~l~~~G~~ 89 (121)
T cd09013 66 IAWRASSPEALERRVAALEASGLG 89 (121)
T ss_pred EEEEcCCHHHHHHHHHHHHHcCCc
Confidence 344 67889999999999998865
No 459
>PRK10689 transcription-repair coupling factor; Provisional
Probab=31.15 E-value=76 Score=23.41 Aligned_cols=24 Identities=13% Similarity=0.099 Sum_probs=22.1
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
+++|.|.+..+++++.+.|...|.
T Consensus 384 ~v~i~~~~~~~~~~l~~~l~~~~~ 407 (1147)
T PRK10689 384 PVVFSVESEGRREALGELLARIKI 407 (1147)
T ss_pred cEEEEECChhHHHHHHHHHHHcCC
Confidence 689999999999999999988876
No 460
>cd03784 GT1_Gtf_like This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the oxidatively cross-linked heptapeptide core of vancomycin group antibiotics. The core structure is important for the bioactivity of the antibiotics.
Probab=31.14 E-value=53 Score=19.72 Aligned_cols=18 Identities=11% Similarity=-0.047 Sum_probs=15.3
Q ss_pred HHHHHHHHHhcCCceeee
Q psy8719 14 CDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 14 ad~La~~L~~~G~~~~~~ 31 (33)
+-.|++.|.++|++..++
T Consensus 17 ~l~la~~L~~rGh~V~~~ 34 (401)
T cd03784 17 LVALAWALRAAGHEVRVA 34 (401)
T ss_pred HHHHHHHHHHCCCeEEEe
Confidence 457899999999998876
No 461
>PF13734 Inhibitor_I69: Spi protease inhibitor; PDB: 1PVJ_A 1DKI_D 2UZJ_A 2JTC_A 4D8E_A 4D8I_A 4D8B_A.
Probab=31.09 E-value=51 Score=17.64 Aligned_cols=18 Identities=17% Similarity=0.229 Sum_probs=11.6
Q ss_pred EecchhhHHHHHHHHHhc
Q psy8719 7 FCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~ 24 (33)
|.+|+.+|.++|+..-+.
T Consensus 5 f~rt~~eA~~IA~~F~~~ 22 (96)
T PF13734_consen 5 FQRTEKEALQIAKTFVQK 22 (96)
T ss_dssp -B--HHHHHHHHHHHHH-
T ss_pred cccCHHHHHHHHHHHHHh
Confidence 889999999999865443
No 462
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons. This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements.
Probab=31.08 E-value=57 Score=19.10 Aligned_cols=21 Identities=24% Similarity=0.270 Sum_probs=15.5
Q ss_pred CceEEEEecchhhHHHHHHHH
Q psy8719 1 MDRALIFCRTKLDCDNLERYL 21 (33)
Q Consensus 1 ~~~aIVF~nTK~~ad~La~~L 21 (33)
++-.||+.+|.+++.++++.+
T Consensus 141 vDDili~~~s~~e~~~~~~~v 161 (213)
T cd01644 141 VDDILVSTDTLNEAVNVAKRL 161 (213)
T ss_pred cccceecCCCHHHHHHHHHHH
Confidence 356789999988877666554
No 463
>PRK14612 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional
Probab=30.99 E-value=1.1e+02 Score=18.29 Aligned_cols=25 Identities=4% Similarity=-0.003 Sum_probs=20.6
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
.++.+|.+++.++++++.|++.+.+
T Consensus 243 tvfal~~~~~~a~~~~~~l~~~~~~ 267 (276)
T PRK14612 243 TCFGLAEDAAQAQRAAAALRARHPA 267 (276)
T ss_pred hhEEEeCCHHHHHHHHHHhHhhCCc
Confidence 4577888899999999999887654
No 464
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=30.86 E-value=70 Score=19.03 Aligned_cols=19 Identities=21% Similarity=0.394 Sum_probs=15.8
Q ss_pred hHHHHHHHHHhcCCceeee
Q psy8719 13 DCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 13 ~ad~La~~L~~~G~~~~~~ 31 (33)
+|-.||+.|++.|.+-.|.
T Consensus 19 Rcl~LA~~l~~~g~~v~f~ 37 (279)
T TIGR03590 19 RCLTLARALHAQGAEVAFA 37 (279)
T ss_pred HHHHHHHHHHHCCCEEEEE
Confidence 5788999999999887665
No 465
>PRK10645 divalent-cation tolerance protein CutA; Provisional
Probab=30.81 E-value=95 Score=16.93 Aligned_cols=22 Identities=5% Similarity=0.141 Sum_probs=16.7
Q ss_pred EEEE--ecchhhHHHHHHHHHhcC
Q psy8719 4 ALIF--CRTKLDCDNLERYLNSID 25 (33)
Q Consensus 4 aIVF--~nTK~~ad~La~~L~~~G 25 (33)
+||+ |..++.|++|++.|-+.+
T Consensus 12 ~lV~tT~p~~e~A~~ia~~Lve~r 35 (112)
T PRK10645 12 VVVLCTAPDEATAQDLAAKVLAEK 35 (112)
T ss_pred EEEEEeCCCHHHHHHHHHHHHHCC
Confidence 3455 567899999999997654
No 466
>PF06470 SMC_hinge: SMC proteins Flexible Hinge Domain; InterPro: IPR010935 This entry represents the hinge region of the SMC (Structural Maintenance of Chromosomes) family of proteins. The hinge region is responsible for formation of the DNA interacting dimer. It is also possible that the precise structure of it is an essential determinant of the specificity of the DNA-protein interaction [].; GO: 0005515 protein binding, 0005524 ATP binding, 0051276 chromosome organization, 0005694 chromosome; PDB: 2WD5_A 1GXL_C 1GXK_A 1GXJ_A 3NWC_B 3L51_A.
Probab=30.73 E-value=80 Score=15.86 Aligned_cols=24 Identities=8% Similarity=0.097 Sum_probs=19.2
Q ss_pred EEecchhhHHHHHHHHHhcCCcee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
|-|.+.+.+.++.+.|++++.+..
T Consensus 33 iVV~~~~~a~~~i~~l~~~~~gr~ 56 (120)
T PF06470_consen 33 IVVEDEETAKKIIEFLKENKLGRA 56 (120)
T ss_dssp EEESSHHHHHHHHHHHHHTTSCEE
T ss_pred EEECcHHHHHHHHHHHhhccCCeE
Confidence 346788999999999998766654
No 467
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=30.70 E-value=1.2e+02 Score=17.70 Aligned_cols=25 Identities=12% Similarity=0.008 Sum_probs=16.9
Q ss_pred ecchhhHHHHHHHHHhcCCceeeee
Q psy8719 8 CRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
++.......++++|-++|++.+-++
T Consensus 164 ~D~~~~~~~a~~~L~~~G~~~I~~i 188 (342)
T PRK10014 164 PDNMQAAQLLTEHLIRNGHQRIAWL 188 (342)
T ss_pred eCCHHHHHHHHHHHHHCCCCEEEEE
Confidence 3445566777788888887776654
No 468
>PRK14027 quinate/shikimate dehydrogenase; Provisional
Probab=30.67 E-value=94 Score=19.01 Aligned_cols=22 Identities=9% Similarity=0.080 Sum_probs=18.6
Q ss_pred ceEEEEecchhhHHHHHHHHHh
Q psy8719 2 DRALIFCRTKLDCDNLERYLNS 23 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~ 23 (33)
.+..|+-+|.+.++.|++.+..
T Consensus 152 ~~i~i~nR~~~ka~~La~~~~~ 173 (283)
T PRK14027 152 QKLQVADLDTSRAQALADVINN 173 (283)
T ss_pred CEEEEEcCCHHHHHHHHHHHhh
Confidence 4677899999999999998864
No 469
>PF08495 FIST: FIST N domain; InterPro: IPR013702 The FIST N domain is a novel sensory domain, which is present in signal transduction proteins from Bacteria, Archaea and Eukarya. Chromosomal proximity of FIST-encoding genes to those coding for proteins involved in amino acid metabolism and transport suggest that FIST domains bind small ligands, such as amino acids [].
Probab=30.49 E-value=83 Score=17.03 Aligned_cols=23 Identities=22% Similarity=0.468 Sum_probs=19.1
Q ss_pred ceEEEEecchhhHHH-HHHHHHhc
Q psy8719 2 DRALIFCRTKLDCDN-LERYLNSI 24 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~-La~~L~~~ 24 (33)
+=+|+||....+-+. +.+.|++.
T Consensus 3 ~lvi~f~s~~~~~~~~i~~~l~~~ 26 (198)
T PF08495_consen 3 DLVILFCSPEYDEEAKILEALRER 26 (198)
T ss_pred EEEEEEecchhhhhHHHHHHHHHH
Confidence 347999999988888 99988874
No 470
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=30.45 E-value=1e+02 Score=16.96 Aligned_cols=27 Identities=15% Similarity=0.268 Sum_probs=16.1
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|.++-.......+++|.+.|++.+.++
T Consensus 98 V~~d~~~~g~~a~~~l~~~g~~~i~~i 124 (270)
T cd01545 98 VRIDDRAAAREMTRHLIDLGHRRIAFI 124 (270)
T ss_pred EEeccHHHHHHHHHHHHHCCCceEEEE
Confidence 344455555666677776676665543
No 471
>PRK06124 gluconate 5-dehydrogenase; Provisional
Probab=30.41 E-value=1e+02 Score=17.13 Aligned_cols=26 Identities=12% Similarity=0.043 Sum_probs=16.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+++++.++.+..+.+.+.|++.|.+.
T Consensus 37 ~v~~~~r~~~~~~~~~~~~~~~~~~~ 62 (256)
T PRK06124 37 HVLVNGRNAATLEAAVAALRAAGGAA 62 (256)
T ss_pred eEEEEeCCHHHHHHHHHHHHhcCCce
Confidence 45666666666667777776665543
No 472
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=30.34 E-value=1.2e+02 Score=19.99 Aligned_cols=29 Identities=10% Similarity=0.392 Sum_probs=21.1
Q ss_pred CceEEEEecchhh-----------HHHHHHHHHhcCCcee
Q psy8719 1 MDRALIFCRTKLD-----------CDNLERYLNSIDRRLI 29 (33)
Q Consensus 1 ~~~aIVF~nTK~~-----------ad~La~~L~~~G~~~~ 29 (33)
+++++|+++|-++ |-.+|++++.+|+...
T Consensus 194 ~~~tvvv~atsd~~~~~r~~a~~~a~~iAEyfrd~G~~Vl 233 (418)
T TIGR03498 194 LKRSVVVVATSDESPLMRRQAAYTATAIAEYFRDQGKDVL 233 (418)
T ss_pred cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEE
Confidence 4578888888654 5568999988886543
No 473
>PF14698 ASL_C2: Argininosuccinate lyase C-terminal; PDB: 1XWO_A 2E9F_A 1TJW_C 1TJU_A 1DCN_B 1K7W_B 1HY1_C 1TJV_B 1AUW_A 1U15_B ....
Probab=30.26 E-value=47 Score=16.46 Aligned_cols=15 Identities=20% Similarity=0.279 Sum_probs=10.9
Q ss_pred HHHHHHHHHhcCCce
Q psy8719 14 CDNLERYLNSIDRRL 28 (33)
Q Consensus 14 ad~La~~L~~~G~~~ 28 (33)
+-+||++|.+.|..|
T Consensus 4 ATdlAD~LVr~GipF 18 (70)
T PF14698_consen 4 ATDLADYLVRKGIPF 18 (70)
T ss_dssp HHHHHHHHHHTTS-H
T ss_pred HHHHHHHHHHcCCCH
Confidence 567899998887543
No 474
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=30.13 E-value=1.2e+02 Score=20.71 Aligned_cols=27 Identities=19% Similarity=0.154 Sum_probs=22.5
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCce
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
+...|.++|...++.+.+.|.++|...
T Consensus 348 ~diAVL~R~~~~~~~le~~L~~~gIPy 374 (721)
T PRK11773 348 SDCAILYRSNAQSRVLEEALLQAGIPY 374 (721)
T ss_pred ccEEEEEecchhHHHHHHHHHHCCCCE
Confidence 355677999999999999999998764
No 475
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=30.07 E-value=96 Score=17.19 Aligned_cols=24 Identities=13% Similarity=0.063 Sum_probs=20.1
Q ss_pred EEEEecchhhHHHHHHHHHhcCCc
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
..|||.+-..+..+.+.|++.|..
T Consensus 185 ~~i~~~~d~~a~g~~~~l~~~g~~ 208 (273)
T cd06310 185 KGIFGANEGSAVGAARAVRQAGKA 208 (273)
T ss_pred eEEEecCchhHHHHHHHHHhcCCC
Confidence 468888888899999999988873
No 476
>PRK05787 cobalt-precorrin-6Y C(5)-methyltransferase; Validated
Probab=30.00 E-value=87 Score=17.47 Aligned_cols=23 Identities=4% Similarity=0.122 Sum_probs=18.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSID 25 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G 25 (33)
.++++...+...+++++.|.+.|
T Consensus 144 ~~v~l~~~~~~~~~i~~~L~~~g 166 (210)
T PRK05787 144 KVIMLPDPRFGPKEIAAELLERG 166 (210)
T ss_pred eEEEEcCCCCCHHHHHHHHHhCC
Confidence 46677766778899999999887
No 477
>PRK04101 fosfomycin resistance protein FosB; Provisional
Probab=29.98 E-value=89 Score=16.16 Aligned_cols=25 Identities=20% Similarity=0.246 Sum_probs=19.7
Q ss_pred EEEEecchhhHHHHHHHHHhcCCce
Q psy8719 4 ALIFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 4 aIVF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.|.|.-...+.+.+.+.|+++|...
T Consensus 66 hiaf~v~~~dv~~~~~~l~~~G~~i 90 (139)
T PRK04101 66 HIAFSIEEEDFDHWYQRLKENDVNI 90 (139)
T ss_pred EEEEEecHHHHHHHHHHHHHCCceE
Confidence 4566545689999999999999764
No 478
>cd01227 PH_Dbs Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs (DBL's big sister) pleckstrin homology (PH) domain. Dbs is a guanine nucleotide exchange factor (GEF), which contains spectrin repeats, a rhoGEF (DH) domain and a PH domain. The Dbs PH domain participates in binding to both the Cdc42 and RhoA GTPases. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=29.94 E-value=26 Score=19.79 Aligned_cols=11 Identities=27% Similarity=1.017 Sum_probs=9.0
Q ss_pred ceEEEEecchh
Q psy8719 2 DRALIFCRTKL 12 (33)
Q Consensus 2 ~~aIVF~nTK~ 12 (33)
+++||||..+.
T Consensus 38 E~~viF~K~~~ 48 (133)
T cd01227 38 EKAVLFCKKRE 48 (133)
T ss_pred cceEEEEEEec
Confidence 68999998764
No 479
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.93 E-value=1e+02 Score=16.84 Aligned_cols=26 Identities=12% Similarity=-0.042 Sum_probs=15.7
Q ss_pred EecchhhHHHHHHHHHhcCCceeeee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
-.+-......++++|.+.|++.+.++
T Consensus 96 ~~d~~~~g~~~~~~l~~~g~~~i~~i 121 (266)
T cd06278 96 CSDNYEAGRLAAELLLAKGCRRIAFI 121 (266)
T ss_pred EEChHHHHHHHHHHHHHCCCceEEEE
Confidence 34445556666777777776665543
No 480
>cd00387 Ribosomal_L7_L12 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of the ribosome. The stalk base consists of a portion of the 23S rRNA and ribosomal proteins L11 and L10. An extended C-terminal helix of L10 provides the binding site for L7/L12. L7/L12 consists of two domains joined by a flexible hinge, with the helical N-terminal domain (NTD) forming pairs of homodimers that bind to the extended helix of L10. It is the only multimeric ribosomal component, with either four or six copies per ribosome that occur as two or three dimers bound to the L10 helix. L7/L12 is the only ribosomal protein that does not interact directly with rRNA, but instead has indirect interactions through L10. The globular C-terminal domains of L7/L12 are highly mobile. They are exposed to the cytoplasm and
Probab=29.92 E-value=58 Score=18.26 Aligned_cols=19 Identities=11% Similarity=0.380 Sum_probs=16.6
Q ss_pred chhhHHHHHHHHHhcCCce
Q psy8719 10 TKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~ 28 (33)
+|++|+.+-+.|...|...
T Consensus 107 sKeeAE~ik~kLe~aGA~V 125 (127)
T cd00387 107 SKEEAEEIKKKLEEAGAKV 125 (127)
T ss_pred CHHHHHHHHHHHHHcCCEE
Confidence 6899999999999999753
No 481
>cd00821 PH Pleckstrin homology (PH) domain. Pleckstrin homology (PH) domain. PH domains are only found in eukaryotes. They share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=29.91 E-value=62 Score=14.36 Aligned_cols=21 Identities=14% Similarity=0.275 Sum_probs=15.2
Q ss_pred eEEEE-ecchhhHHHHHHHHHh
Q psy8719 3 RALIF-CRTKLDCDNLERYLNS 23 (33)
Q Consensus 3 ~aIVF-~nTK~~ad~La~~L~~ 23 (33)
+.++| |.+.++.+...+.|+.
T Consensus 74 ~~~~~~~~s~~~~~~W~~~l~~ 95 (96)
T cd00821 74 RSYLLQAESEEEREEWIEALQS 95 (96)
T ss_pred cEEEEEeCCHHHHHHHHHHHhc
Confidence 34555 7788888888888764
No 482
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=29.91 E-value=1e+02 Score=16.92 Aligned_cols=25 Identities=12% Similarity=0.115 Sum_probs=14.1
Q ss_pred EecchhhHHHHHHHHHhcCCceeee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLIYY 31 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~~~ 31 (33)
-++....+..+++.|.+.|++.+-+
T Consensus 97 ~~d~~~~~~~~~~~l~~~g~~~I~~ 121 (265)
T cd06299 97 TSDPQPGMTEAVSLLVALGHKKIGY 121 (265)
T ss_pred EECcHHHHHHHHHHHHHcCCCcEEE
Confidence 3444555556666666666655544
No 483
>PRK08277 D-mannonate oxidoreductase; Provisional
Probab=29.88 E-value=1.1e+02 Score=17.33 Aligned_cols=27 Identities=7% Similarity=0.166 Sum_probs=17.5
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCcee
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~~~ 29 (33)
++++..++.+..+.+.+.+...|.+..
T Consensus 36 ~V~~~~r~~~~~~~~~~~~~~~~~~~~ 62 (278)
T PRK08277 36 KVAILDRNQEKAEAVVAEIKAAGGEAL 62 (278)
T ss_pred EEEEEeCCHHHHHHHHHHHHhcCCeEE
Confidence 456666666677777777776655443
No 484
>PF00318 Ribosomal_S2: Ribosomal protein S2; InterPro: IPR001865 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 [, ]. Ribosomal S2 proteins have been shown to belong to a family that includes 40S ribosomal subunit 40kDa proteins, putative laminin-binding proteins, NAB-1 protein and 29.3kDa protein from Haloarcula marismortui [, ]. The laminin-receptor proteins are thus predicted to be the eukaryotic homologue of the eubacterial S2 risosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2QNH_c 3MR8_B 3PYS_B 3MS0_B 3PYN_B 1VOZ_B 2OW8_c 3PYQ_B 3D5C_B 3PYU_B ....
Probab=29.76 E-value=67 Score=18.77 Aligned_cols=24 Identities=13% Similarity=0.227 Sum_probs=18.0
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.-|.|++|+.....+.+.+.+.-+
T Consensus 57 ~~ILfV~t~~~~~~~v~~~a~~~~ 80 (211)
T PF00318_consen 57 GKILFVGTKPQASKIVKKFAKRTG 80 (211)
T ss_dssp GGEEEEECSTTHHHHHHHHHHHHT
T ss_pred CeEEEEEcchHHHHHHHHHHHHhC
Confidence 458999999888887777665443
No 485
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.74 E-value=1.1e+02 Score=17.06 Aligned_cols=27 Identities=4% Similarity=-0.081 Sum_probs=17.7
Q ss_pred EEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
|-++-.+.+..++++|.++|++.+-++
T Consensus 89 v~~d~~~~g~~~~~~l~~~g~~~i~~i 115 (265)
T cd01543 89 VTTDNAAIGRMAAEHFLERGFRHFAFY 115 (265)
T ss_pred EeeCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 445556667777777777777766543
No 486
>PRK05820 deoA thymidine phosphorylase; Reviewed
Probab=29.70 E-value=26 Score=23.31 Aligned_cols=21 Identities=19% Similarity=0.317 Sum_probs=18.3
Q ss_pred EecchhhHHHHHHHHHhcCCc
Q psy8719 7 FCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~ 27 (33)
|+.|.++|++|++.+.+-|..
T Consensus 210 fmkt~~~A~~La~~mv~ig~~ 230 (440)
T PRK05820 210 FMKTYEEARELARSMVEVANG 230 (440)
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 899999999999999876654
No 487
>PRK07454 short chain dehydrogenase; Provisional
Probab=29.68 E-value=1.1e+02 Score=16.94 Aligned_cols=25 Identities=16% Similarity=0.167 Sum_probs=15.9
Q ss_pred eEEEEecchhhHHHHHHHHHhcCCc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDRR 27 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~~ 27 (33)
++++..++....+++.+.+++.+.+
T Consensus 32 ~V~~~~r~~~~~~~~~~~~~~~~~~ 56 (241)
T PRK07454 32 DLALVARSQDALEALAAELRSTGVK 56 (241)
T ss_pred EEEEEeCCHHHHHHHHHHHHhCCCc
Confidence 4566677666666777666655544
No 488
>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=29.59 E-value=28 Score=23.67 Aligned_cols=23 Identities=22% Similarity=0.211 Sum_probs=19.4
Q ss_pred EEecchhhHHHHHHHHHhcCCce
Q psy8719 6 IFCRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~~G~~~ 28 (33)
.|++|.+++++|++.|.+-|.++
T Consensus 287 Afm~~~~~A~~LA~~mv~vg~~~ 309 (500)
T TIGR03327 287 AKVKTVEEGRKLARDFIELGDRL 309 (500)
T ss_pred CcCCCHHHHHHHHHHHHHHHHHc
Confidence 38999999999999998776543
No 489
>TIGR01426 MGT glycosyltransferase, MGT family. This model describes the MGT (macroside glycosyltransferase) subfamily of the UDP-glucuronosyltransferase family. Members include a number of glucosyl transferases for macrolide antibiotic inactivation, but also include transferases of glucose-related sugars for macrolide antibiotic production.
Probab=29.54 E-value=65 Score=19.49 Aligned_cols=18 Identities=17% Similarity=0.086 Sum_probs=14.9
Q ss_pred HHHHHHHHhcCCceeeee
Q psy8719 15 DNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 15 d~La~~L~~~G~~~~~~~ 32 (33)
-.||+.|+++|++..++.
T Consensus 13 l~lA~~L~~~Gh~V~~~~ 30 (392)
T TIGR01426 13 LGVVEELVARGHRVTYAT 30 (392)
T ss_pred HHHHHHHHhCCCeEEEEe
Confidence 368999999999987764
No 490
>cd07239 BphC5-RK37_C_like C-terminal, catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacterium Rhodococcus rhodochrous K37 and similar proteins. 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC) catalyzes the extradiol ring cleavage reaction of 2,3-dihydroxybiphenyl, the third step in the polychlorinated biphenyls (PCBs) degradation pathway (bph pathway). The enzyme contains a N-terminal and a C-terminal domain of similar structure fold, resulting from an ancient gene duplication. BphC belongs to the type I extradiol dioxygenase family, which requires a metal in the active site for its catalytic activity. Polychlorinated biphenyl degrading bacteria demonstrate multiplicity of BphCs. Bacterium Rhodococcus rhodochrous K37 has eight genes encoding BphC enzymes. This family includes the C-terminal domain of BphC5-RrK37. The crystal structure of the protein from Novosphingobium aromaticivorans has a Mn(II)in the active site, although most proteins of type I extradiol dio
Probab=29.42 E-value=97 Score=16.45 Aligned_cols=25 Identities=4% Similarity=-0.089 Sum_probs=18.7
Q ss_pred EEE-ecchhhHHHHHHHHHhcCCcee
Q psy8719 5 LIF-CRTKLDCDNLERYLNSIDRRLI 29 (33)
Q Consensus 5 IVF-~nTK~~ad~La~~L~~~G~~~~ 29 (33)
|-| +...++++++.+.|.+.|....
T Consensus 63 iaf~v~d~~~l~~~~~~l~~~Gi~~~ 88 (144)
T cd07239 63 VAFEMPSIDEVMRGIGRMIDKGIDIL 88 (144)
T ss_pred EEEECCCHHHHHHHHHHHHHcCCcee
Confidence 344 4666788888899999998754
No 491
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.40 E-value=1.1e+02 Score=17.03 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=15.0
Q ss_pred EecchhhHHHHHHHHHhcCCceeeee
Q psy8719 7 FCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 7 F~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
-.+....+..++++|.+.|++.+-++
T Consensus 97 ~~d~~~~g~~a~~~l~~~G~~~i~~l 122 (269)
T cd06281 97 LFDHAAGMRQAVEYLISLGHRRIALV 122 (269)
T ss_pred EECcHHHHHHHHHHHHHCCCcEEEEe
Confidence 33444555666667766666655443
No 492
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=29.36 E-value=68 Score=20.56 Aligned_cols=24 Identities=13% Similarity=0.094 Sum_probs=18.4
Q ss_pred eEEEEecchhhHHHHHHHHHhcCC
Q psy8719 3 RALIFCRTKLDCDNLERYLNSIDR 26 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~G~ 26 (33)
.-|.|++||..+.++.+...+.=+
T Consensus 60 g~iLfVgTk~~~~~~V~~~A~~~g 83 (326)
T PRK12311 60 GRVLFVGTKRQAQDAVADAAKRSA 83 (326)
T ss_pred CEEEEEeCcHHHHHHHHHHHHHhC
Confidence 458999999999888777655443
No 493
>TIGR03211 catechol_2_3 catechol 2,3 dioxygenase. Members of this family all are enzymes active as catechol 2,3 dioxygenase (1.13.11.2), although some members have highly significant activity on catechol derivatives such as 3-methylcatechol, 3-chlorocatechol, and 4-chlorocatechol (see Mars, et al.). This enzyme is also called metapyrocatechase, as it performs a meta-cleavage (an extradiol ring cleavage), in contrast to the ortho-cleavage (intradiol ring cleavage)performed by catechol 1,2-dioxygenase (EC 1.13.11.1), also called pyrocatechase.
Probab=29.35 E-value=1.2e+02 Score=17.76 Aligned_cols=21 Identities=14% Similarity=0.196 Sum_probs=18.3
Q ss_pred ecchhhHHHHHHHHHhcCCce
Q psy8719 8 CRTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 8 ~nTK~~ad~La~~L~~~G~~~ 28 (33)
+.+.++.+.+.+.|++.|...
T Consensus 68 v~~~~dl~~~~~~l~~~G~~~ 88 (303)
T TIGR03211 68 VESEADLERLVKRLEAYGVGT 88 (303)
T ss_pred eCCHHHHHHHHHHHHHcCCCe
Confidence 678889999999999998764
No 494
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=29.35 E-value=59 Score=16.13 Aligned_cols=19 Identities=21% Similarity=0.197 Sum_probs=16.3
Q ss_pred chhhHHHHHHHHHhcCCce
Q psy8719 10 TKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 10 TK~~ad~La~~L~~~G~~~ 28 (33)
++++|.++...|.+.|-+.
T Consensus 51 ~~~~A~e~W~~L~~~GW~~ 69 (75)
T PF07864_consen 51 TREEARELWKELQKTGWRR 69 (75)
T ss_pred EHHHHHHHHHHHHHcCCEE
Confidence 5789999999999998764
No 495
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=29.34 E-value=1.1e+02 Score=17.23 Aligned_cols=27 Identities=4% Similarity=-0.224 Sum_probs=19.4
Q ss_pred EEecchhhHHHHHHHHHh--cCCceeeee
Q psy8719 6 IFCRTKLDCDNLERYLNS--IDRRLIYYF 32 (33)
Q Consensus 6 VF~nTK~~ad~La~~L~~--~G~~~~~~~ 32 (33)
|-.+-...+..++++|-+ +|++.+-|+
T Consensus 95 V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i 123 (247)
T cd06276 95 VAQDFEKAIYNALQEGLEKLKKYKKLILV 123 (247)
T ss_pred EEEccHHHHHHHHHHHHHHhcCCCEEEEE
Confidence 334555667778888888 888887664
No 496
>TIGR01012 Sa_S2_E_A ribosomal protein Sa(cytosolic)/S2(archaeal). TIGR01011 describes the related protein of organelles and bacteria.
Probab=29.12 E-value=84 Score=18.76 Aligned_cols=22 Identities=0% Similarity=0.078 Sum_probs=17.1
Q ss_pred eEEEEecchhhHHHHHHHHHhc
Q psy8719 3 RALIFCRTKLDCDNLERYLNSI 24 (33)
Q Consensus 3 ~aIVF~nTK~~ad~La~~L~~~ 24 (33)
.-|.|+.||..+.++.++..+.
T Consensus 62 ~~ILfVgtk~~~~~~V~~~A~~ 83 (196)
T TIGR01012 62 EDILVVSARIYGQKPVLKFAKV 83 (196)
T ss_pred CeEEEEecCHHHHHHHHHHHHH
Confidence 4589999999998887766543
No 497
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=29.04 E-value=53 Score=17.25 Aligned_cols=15 Identities=20% Similarity=0.474 Sum_probs=12.7
Q ss_pred hhHHHHHHHHHhcCC
Q psy8719 12 LDCDNLERYLNSIDR 26 (33)
Q Consensus 12 ~~ad~La~~L~~~G~ 26 (33)
-++++|.++|.+.|+
T Consensus 47 m~a~eLv~FL~~rgK 61 (78)
T PF10678_consen 47 MTADELVDFLEERGK 61 (78)
T ss_pred CCHHHHHHHHHHcCC
Confidence 368999999999886
No 498
>TIGR01319 glmL_fam conserved hypothetical protein. This small family includes, so far, an uncharacterized protein from E. coli O157:H7 and GlmL from Clostridium tetanomorphum and Clostridium cochlearium. GlmL is located between the genes for the two subunits, epsilon (GlmE) and sigma (GlmS), of the coenzyme-B12-dependent glutamate mutase (methylaspartate mutase), the first enzyme in a pathway of glutamate fermentation. Members shows significant sequence similarity to the hydantoinase branch of the hydantoinase/oxoprolinase family (pfam01968).
Probab=29.03 E-value=1.1e+02 Score=20.74 Aligned_cols=29 Identities=21% Similarity=0.315 Sum_probs=23.1
Q ss_pred ceEEEEecchhhHHHHHHHHHhcCCceeeee
Q psy8719 2 DRALIFCRTKLDCDNLERYLNSIDRRLIYYF 32 (33)
Q Consensus 2 ~~aIVF~nTK~~ad~La~~L~~~G~~~~~~~ 32 (33)
+..||++-++...++|.+-|... ++.||.
T Consensus 151 ~~pIIyAGN~~a~~~V~~il~~~--~~~~~i 179 (463)
T TIGR01319 151 DCAIIVAGNKDIQDEVQEIFDHA--DIFYRI 179 (463)
T ss_pred CCcEEEeCCHHHHHHHHHHHhcC--CceEEe
Confidence 45699999999999999999954 555554
No 499
>PF11829 DUF3349: Protein of unknown function (DUF3349); InterPro: IPR021784 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 99 to 124 amino acids in length. ; PDB: 2KVC_A 3OL3_B 3OL4_A 2LKY_A.
Probab=28.95 E-value=62 Score=17.52 Aligned_cols=20 Identities=20% Similarity=0.172 Sum_probs=12.7
Q ss_pred cchhhHHHHHHHHHhcCCce
Q psy8719 9 RTKLDCDNLERYLNSIDRRL 28 (33)
Q Consensus 9 nTK~~ad~La~~L~~~G~~~ 28 (33)
.|-++.++|+..|.+.|..+
T Consensus 73 P~~~di~RV~~~Laa~GWPl 92 (96)
T PF11829_consen 73 PTPEDIERVRARLAAAGWPL 92 (96)
T ss_dssp S-HHHHHHHHHHHHTTT-GC
T ss_pred cCHHHHHHHHHHHHhCCCCC
Confidence 35567777888887777543
No 500
>PRK07116 flavodoxin; Provisional
Probab=28.88 E-value=64 Score=17.62 Aligned_cols=20 Identities=15% Similarity=0.203 Sum_probs=14.4
Q ss_pred EEEEe----cchhhHHHHHHHHHh
Q psy8719 4 ALIFC----RTKLDCDNLERYLNS 23 (33)
Q Consensus 4 aIVF~----nTK~~ad~La~~L~~ 23 (33)
.|||- ||+.-|+.+++.|..
T Consensus 6 lIvY~S~tGnT~~iA~~Ia~~l~~ 29 (160)
T PRK07116 6 LVAYFSATGTTKKVAEKLAEVTGA 29 (160)
T ss_pred EEEEECCCCcHHHHHHHHHHHhcC
Confidence 45554 778888888888854
Done!