Query psy14272
Match_columns 194
No_of_seqs 237 out of 1115
Neff 4.6
Searched_HMMs 46136
Date Fri Aug 16 15:37:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14272.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14272hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1133|consensus 100.0 3.8E-29 8.3E-34 241.0 13.3 158 23-184 8-171 (821)
2 smart00488 DEXDc2 DEAD-like he 99.7 2.7E-18 5.8E-23 150.7 6.8 56 24-79 2-57 (289)
3 smart00489 DEXDc3 DEAD-like he 99.7 2.7E-18 5.8E-23 150.7 6.8 56 24-79 2-57 (289)
4 TIGR00604 rad3 DNA repair heli 99.6 1E-15 2.2E-20 148.1 6.5 55 24-78 3-58 (705)
5 KOG1132|consensus 99.5 1.1E-14 2.4E-19 144.0 5.4 61 22-82 13-73 (945)
6 COG1199 DinG Rad3-related DNA 99.4 5.6E-13 1.2E-17 126.8 6.0 58 25-82 9-67 (654)
7 PRK11747 dinG ATP-dependent DN 99.3 1.2E-12 2.5E-17 127.5 5.8 57 26-82 20-82 (697)
8 PRK08074 bifunctional ATP-depe 99.2 1.1E-11 2.3E-16 124.1 5.8 53 29-81 256-308 (928)
9 TIGR01407 dinG_rel DnaQ family 99.1 6.1E-11 1.3E-15 117.3 5.3 49 27-75 242-290 (850)
10 KOG1131|consensus 99.1 2E-10 4.3E-15 110.2 6.0 62 19-80 4-66 (755)
11 PRK07246 bifunctional ATP-depe 98.9 1.1E-09 2.3E-14 108.9 6.0 47 28-74 243-289 (820)
12 TIGR03117 cas_csf4 CRISPR-asso 98.8 4.6E-09 9.9E-14 102.3 5.4 43 34-76 1-43 (636)
13 PRK04837 ATP-dependent RNA hel 98.6 6E-08 1.3E-12 88.0 5.9 47 26-76 25-72 (423)
14 cd00268 DEADc DEAD-box helicas 98.5 1.4E-07 3E-12 76.1 5.8 47 27-77 17-64 (203)
15 PF04851 ResIII: Type III rest 98.5 1.2E-07 2.6E-12 73.7 4.8 47 29-75 2-51 (184)
16 PTZ00424 helicase 45; Provisio 98.5 1.2E-07 2.6E-12 84.2 5.3 48 25-76 44-92 (401)
17 PRK10590 ATP-dependent RNA hel 98.5 1.5E-07 3.1E-12 86.9 6.0 48 26-77 18-66 (456)
18 PLN00206 DEAD-box ATP-dependen 98.5 1.3E-07 2.8E-12 88.9 5.7 46 27-76 139-185 (518)
19 PRK11192 ATP-dependent RNA hel 98.5 1.7E-07 3.6E-12 85.2 6.0 47 27-77 19-66 (434)
20 PF00270 DEAD: DEAD/DEAH box h 98.5 2.4E-07 5.2E-12 71.8 5.6 42 32-77 1-42 (169)
21 TIGR00614 recQ_fam ATP-depende 98.5 1.8E-07 3.9E-12 86.7 5.3 44 25-72 5-49 (470)
22 PRK01297 ATP-dependent RNA hel 98.4 3.1E-07 6.6E-12 84.9 5.9 47 27-77 105-152 (475)
23 PRK11776 ATP-dependent RNA hel 98.4 3.2E-07 6.9E-12 84.2 5.9 47 27-77 22-69 (460)
24 PRK04537 ATP-dependent RNA hel 98.4 4.1E-07 8.9E-12 87.0 5.8 47 26-76 26-73 (572)
25 PTZ00110 helicase; Provisional 98.4 4.3E-07 9.3E-12 86.3 5.8 46 27-76 148-194 (545)
26 TIGR03817 DECH_helic helicase/ 98.3 7.2E-07 1.6E-11 88.0 6.0 47 27-77 32-79 (742)
27 TIGR01389 recQ ATP-dependent D 98.3 6.7E-07 1.5E-11 85.0 5.3 43 26-72 8-51 (591)
28 PRK11057 ATP-dependent DNA hel 98.3 7.9E-07 1.7E-11 85.4 5.2 43 26-72 20-63 (607)
29 PRK10917 ATP-dependent DNA hel 98.2 1.8E-06 3.8E-11 84.2 6.2 52 25-76 256-309 (681)
30 PRK11634 ATP-dependent RNA hel 98.2 1.7E-06 3.6E-11 84.1 5.9 46 27-76 24-70 (629)
31 COG0513 SrmB Superfamily II DN 98.2 2.3E-06 4.9E-11 81.0 5.7 46 27-76 47-93 (513)
32 smart00487 DEXDc DEAD-like hel 98.1 3.5E-06 7.6E-11 64.6 4.7 47 27-77 5-52 (201)
33 KOG0348|consensus 98.1 1.9E-06 4.2E-11 83.3 3.6 51 28-82 156-207 (708)
34 KOG0345|consensus 98.1 3.9E-06 8.5E-11 80.0 5.4 45 27-75 24-69 (567)
35 PLN03137 ATP-dependent DNA hel 98.1 4.3E-06 9.3E-11 86.3 5.4 43 26-72 455-498 (1195)
36 PRK13767 ATP-dependent helicas 98.1 5.1E-06 1.1E-10 83.3 5.7 44 29-76 30-74 (876)
37 TIGR00643 recG ATP-dependent D 98.1 6.9E-06 1.5E-10 79.3 6.4 51 26-76 231-283 (630)
38 TIGR00580 mfd transcription-re 98.0 7E-06 1.5E-10 83.2 6.2 52 26-77 447-500 (926)
39 PRK01172 ski2-like helicase; P 98.0 1.1E-05 2.4E-10 77.8 5.9 47 27-77 19-65 (674)
40 COG1201 Lhr Lhr-like helicases 97.9 1.2E-05 2.7E-10 80.5 5.8 45 29-77 20-65 (814)
41 PRK02362 ski2-like helicase; P 97.9 1.4E-05 3E-10 78.2 5.7 46 28-76 20-66 (737)
42 COG1205 Distinct helicase fami 97.9 1.3E-05 2.8E-10 80.6 5.6 47 30-80 70-116 (851)
43 PRK12899 secA preprotein trans 97.9 1.4E-05 3.1E-10 81.1 5.4 49 24-76 86-134 (970)
44 PRK00254 ski2-like helicase; P 97.9 1.4E-05 3.1E-10 78.0 5.2 47 27-76 19-66 (720)
45 KOG0331|consensus 97.9 6.8E-06 1.5E-10 78.8 2.3 47 27-77 109-156 (519)
46 KOG0344|consensus 97.8 2.2E-05 4.9E-10 76.0 3.9 50 26-79 153-203 (593)
47 KOG0330|consensus 97.7 3E-05 6.5E-10 72.8 3.6 49 28-80 80-129 (476)
48 TIGR02621 cas3_GSU0051 CRISPR- 97.7 3.9E-05 8.4E-10 77.3 4.4 41 27-71 12-53 (844)
49 PRK10689 transcription-repair 97.6 9.4E-05 2E-09 76.6 6.3 51 25-75 595-647 (1147)
50 KOG0335|consensus 97.6 2.7E-05 5.8E-10 74.2 1.3 48 28-79 93-141 (482)
51 KOG0350|consensus 97.5 6E-05 1.3E-09 72.6 3.2 49 31-79 160-213 (620)
52 PRK09694 helicase Cas3; Provis 97.5 0.00011 2.4E-09 74.3 5.1 44 28-75 284-327 (878)
53 PRK09401 reverse gyrase; Revie 97.5 0.00017 3.7E-09 74.9 5.6 46 27-77 77-122 (1176)
54 PRK11448 hsdR type I restricti 97.4 0.00031 6.7E-09 72.7 6.4 50 27-76 410-460 (1123)
55 KOG0346|consensus 97.4 0.00015 3.4E-09 69.1 3.8 49 28-80 38-87 (569)
56 PRK14701 reverse gyrase; Provi 97.4 0.00026 5.7E-09 75.7 5.7 44 26-73 75-118 (1638)
57 TIGR01054 rgy reverse gyrase. 97.3 0.00033 7.1E-09 72.8 5.5 46 27-77 75-120 (1171)
58 PRK05580 primosome assembly pr 97.3 0.00038 8.2E-09 68.3 5.6 51 25-76 139-189 (679)
59 COG1061 SSL2 DNA or RNA helica 97.2 0.00043 9.3E-09 64.5 5.3 45 25-69 31-75 (442)
60 KOG0334|consensus 97.2 0.00016 3.4E-09 73.8 2.2 49 26-78 382-431 (997)
61 PRK12898 secA preprotein trans 97.2 0.00044 9.6E-09 68.2 4.9 45 26-76 99-143 (656)
62 COG0514 RecQ Superfamily II DN 97.2 0.00033 7.2E-09 68.3 3.8 45 25-73 11-56 (590)
63 KOG0338|consensus 97.1 0.00023 5E-09 69.0 2.4 52 26-81 198-250 (691)
64 TIGR03714 secA2 accessory Sec 97.1 0.00045 9.8E-09 69.1 4.4 43 28-76 68-110 (762)
65 KOG0342|consensus 97.0 0.00026 5.6E-09 67.9 1.4 50 27-80 100-150 (543)
66 PHA02558 uvsW UvsW helicase; P 97.0 0.0011 2.4E-08 62.4 5.5 37 28-68 112-148 (501)
67 TIGR03158 cas3_cyano CRISPR-as 96.9 0.00088 1.9E-08 60.5 4.0 34 35-72 2-37 (357)
68 cd00046 DEXDc DEAD-like helica 96.9 0.00091 2E-08 48.1 3.3 27 50-76 1-27 (144)
69 PF02562 PhoH: PhoH-like prote 96.9 0.0014 3E-08 56.1 4.8 42 33-78 7-48 (205)
70 PHA02653 RNA helicase NPH-II; 96.9 0.0011 2.4E-08 65.5 4.7 44 32-75 162-214 (675)
71 PRK13766 Hef nuclease; Provisi 96.9 0.0018 3.8E-08 63.4 5.8 44 27-75 12-55 (773)
72 TIGR01587 cas3_core CRISPR-ass 96.9 0.00084 1.8E-08 59.1 3.2 25 51-75 1-25 (358)
73 PRK11664 ATP-dependent RNA hel 96.9 0.0013 2.7E-08 66.2 4.8 37 37-73 8-44 (812)
74 KOG0354|consensus 96.8 0.0014 3.1E-08 65.4 4.8 46 29-79 61-106 (746)
75 TIGR00603 rad25 DNA repair hel 96.8 0.0026 5.6E-08 63.6 6.3 45 24-71 249-295 (732)
76 PF13086 AAA_11: AAA domain; P 96.8 0.0017 3.7E-08 51.9 4.2 38 33-74 4-41 (236)
77 COG1204 Superfamily II helicas 96.8 0.0011 2.3E-08 66.4 3.6 45 30-77 31-75 (766)
78 TIGR00963 secA preprotein tran 96.8 0.0013 2.8E-08 65.8 4.1 44 26-75 52-96 (745)
79 PRK09200 preprotein translocas 96.8 0.0018 3.8E-08 65.2 4.9 43 26-74 74-116 (790)
80 TIGR00348 hsdR type I site-spe 96.7 0.0022 4.7E-08 62.9 5.1 44 31-74 239-288 (667)
81 KOG0333|consensus 96.7 0.001 2.2E-08 64.7 2.8 47 29-79 265-312 (673)
82 TIGR01970 DEAH_box_HrpB ATP-de 96.6 0.0024 5.2E-08 64.3 4.9 38 37-74 5-42 (819)
83 KOG0336|consensus 96.6 0.00039 8.4E-09 66.3 -0.8 51 27-81 238-289 (629)
84 KOG0340|consensus 96.5 0.002 4.4E-08 60.3 3.3 48 29-80 28-75 (442)
85 KOG0343|consensus 96.4 0.0011 2.5E-08 64.9 1.2 43 31-77 92-134 (758)
86 PRK08181 transposase; Validate 96.4 0.011 2.3E-07 52.3 7.1 32 33-64 90-121 (269)
87 PF13245 AAA_19: Part of AAA d 96.4 0.0049 1.1E-07 44.6 3.9 34 41-74 2-35 (76)
88 TIGR02640 gas_vesic_GvpN gas v 96.4 0.0072 1.6E-07 52.3 5.6 37 29-65 1-37 (262)
89 PRK10536 hypothetical protein; 96.4 0.0096 2.1E-07 53.1 6.4 44 29-76 57-101 (262)
90 COG4581 Superfamily II RNA hel 96.3 0.0065 1.4E-07 62.8 6.0 51 22-76 111-161 (1041)
91 PRK12904 preprotein translocas 96.2 0.0046 1E-07 62.6 3.8 47 26-78 77-124 (830)
92 PRK13104 secA preprotein trans 96.1 0.004 8.6E-08 63.5 3.3 45 26-76 78-122 (896)
93 cd00009 AAA The AAA+ (ATPases 96.0 0.012 2.6E-07 42.7 4.6 30 35-64 3-34 (151)
94 KOG0337|consensus 95.8 0.0039 8.5E-08 59.5 1.6 47 28-78 40-87 (529)
95 PRK13107 preprotein translocas 95.8 0.0073 1.6E-07 61.6 3.5 45 26-76 78-122 (908)
96 KOG0352|consensus 95.8 0.0085 1.9E-07 57.6 3.7 44 26-72 14-59 (641)
97 KOG0351|consensus 95.8 0.0033 7.3E-08 64.3 0.9 46 25-74 258-304 (941)
98 PF00437 T2SE: Type II/IV secr 95.7 0.011 2.4E-07 50.5 3.6 40 37-77 115-154 (270)
99 PRK06835 DNA replication prote 95.7 0.02 4.3E-07 52.0 5.4 48 31-79 161-212 (329)
100 KOG0327|consensus 95.7 0.0053 1.1E-07 57.4 1.7 47 25-75 42-89 (397)
101 PHA02244 ATPase-like protein 95.6 0.029 6.4E-07 52.4 6.4 40 24-64 93-134 (383)
102 PRK13407 bchI magnesium chelat 95.4 0.015 3.3E-07 53.0 3.8 42 24-65 2-45 (334)
103 PRK13900 type IV secretion sys 95.4 0.021 4.5E-07 51.8 4.6 40 36-76 147-186 (332)
104 PRK13894 conjugal transfer ATP 95.4 0.025 5.3E-07 51.1 4.9 34 40-74 139-172 (319)
105 COG2804 PulE Type II secretory 95.4 0.021 4.5E-07 55.1 4.6 47 32-82 243-290 (500)
106 COG1203 CRISPR-associated heli 95.4 0.024 5.2E-07 56.3 5.2 47 31-77 196-242 (733)
107 PRK15483 type III restriction- 95.4 0.031 6.8E-07 57.7 6.1 29 51-79 61-89 (986)
108 KOG0326|consensus 95.3 0.0016 3.6E-08 60.5 -3.0 51 26-80 102-153 (459)
109 COG4096 HsdR Type I site-speci 95.3 0.024 5.1E-07 57.6 4.8 47 30-76 165-212 (875)
110 KOG0347|consensus 95.2 0.0056 1.2E-07 60.1 0.2 43 27-72 199-242 (731)
111 TIGR02782 TrbB_P P-type conjug 95.1 0.035 7.5E-07 49.5 5.0 38 38-76 121-158 (299)
112 PRK13833 conjugal transfer pro 95.0 0.038 8.2E-07 50.3 5.0 34 40-74 135-168 (323)
113 PRK06526 transposase; Provisio 95.0 0.051 1.1E-06 47.5 5.6 37 44-81 93-129 (254)
114 KOG0952|consensus 95.0 0.025 5.5E-07 58.8 4.1 49 25-76 104-153 (1230)
115 PF01695 IstB_IS21: IstB-like 94.9 0.035 7.5E-07 45.8 4.0 37 33-69 29-67 (178)
116 PRK13851 type IV secretion sys 94.9 0.03 6.5E-07 51.2 4.0 38 37-75 150-187 (344)
117 KOG0328|consensus 94.8 0.0052 1.1E-07 56.4 -1.1 51 25-79 43-94 (400)
118 PRK12906 secA preprotein trans 94.8 0.036 7.8E-07 56.1 4.6 45 26-76 76-120 (796)
119 PRK12402 replication factor C 94.8 0.04 8.6E-07 47.8 4.3 34 34-67 19-54 (337)
120 PRK09183 transposase/IS protei 94.8 0.056 1.2E-06 47.1 5.2 40 25-65 77-118 (259)
121 PF13604 AAA_30: AAA domain; P 94.7 0.058 1.3E-06 44.8 5.0 44 33-80 4-48 (196)
122 smart00382 AAA ATPases associa 94.6 0.03 6.4E-07 39.9 2.7 21 49-69 2-22 (148)
123 COG0714 MoxR-like ATPases [Gen 94.6 0.029 6.3E-07 49.8 3.0 43 31-75 25-67 (329)
124 PRK09751 putative ATP-dependen 94.4 0.02 4.4E-07 61.2 2.0 23 54-76 1-23 (1490)
125 PF00580 UvrD-helicase: UvrD/R 94.4 0.048 1E-06 45.9 3.9 39 33-77 3-41 (315)
126 KOG0353|consensus 94.4 0.03 6.5E-07 53.5 2.7 38 31-72 95-132 (695)
127 COG2805 PilT Tfp pilus assembl 94.1 0.06 1.3E-06 49.7 4.1 54 27-81 101-156 (353)
128 cd01129 PulE-GspE PulE/GspE Th 93.9 0.078 1.7E-06 46.4 4.3 35 42-77 72-107 (264)
129 PRK13531 regulatory ATPase Rav 93.9 0.047 1E-06 52.7 3.1 34 33-66 23-56 (498)
130 PRK08939 primosomal protein Dn 93.8 0.14 3E-06 46.0 5.8 44 34-78 135-184 (306)
131 cd01130 VirB11-like_ATPase Typ 93.8 0.077 1.7E-06 43.3 3.8 30 33-65 12-41 (186)
132 COG1484 DnaC DNA replication p 93.6 0.17 3.6E-06 44.2 5.8 30 38-67 94-123 (254)
133 PF13191 AAA_16: AAA ATPase do 93.6 0.077 1.7E-06 41.5 3.4 35 31-65 4-40 (185)
134 TIGR00376 DNA helicase, putati 93.6 0.14 3E-06 50.4 5.7 42 31-75 158-199 (637)
135 TIGR02524 dot_icm_DotB Dot/Icm 93.6 0.086 1.9E-06 48.4 4.1 33 42-75 126-159 (358)
136 PRK12326 preprotein translocas 93.5 0.1 2.2E-06 52.6 4.9 45 26-76 74-118 (764)
137 KOG1803|consensus 93.5 0.096 2.1E-06 51.8 4.5 53 24-80 179-231 (649)
138 PRK13103 secA preprotein trans 93.4 0.079 1.7E-06 54.4 3.9 43 27-75 79-121 (913)
139 PLN03025 replication factor C 93.3 0.11 2.4E-06 46.0 4.2 35 34-68 17-53 (319)
140 COG0630 VirB11 Type IV secreto 93.3 0.13 2.8E-06 46.3 4.6 38 38-76 132-169 (312)
141 KOG0989|consensus 93.1 0.13 2.8E-06 47.5 4.5 41 32-72 38-80 (346)
142 PRK11131 ATP-dependent RNA hel 93.0 0.16 3.5E-06 53.9 5.6 31 41-73 81-111 (1294)
143 PF12775 AAA_7: P-loop contain 92.9 0.15 3.2E-06 44.9 4.4 35 31-65 15-49 (272)
144 TIGR02030 BchI-ChlI magnesium 92.9 0.17 3.7E-06 46.2 4.9 40 27-66 1-42 (337)
145 PF12340 DUF3638: Protein of u 92.9 0.084 1.8E-06 46.3 2.8 55 25-81 18-72 (229)
146 TIGR02533 type_II_gspE general 92.9 0.11 2.4E-06 49.5 3.8 38 41-79 233-271 (486)
147 PRK10436 hypothetical protein; 92.9 0.13 2.9E-06 48.8 4.3 33 48-81 217-249 (462)
148 COG1474 CDC6 Cdc6-related prot 92.8 0.18 4E-06 46.4 5.1 40 29-68 19-61 (366)
149 TIGR01967 DEAH_box_HrpA ATP-de 92.8 0.18 3.8E-06 53.6 5.5 32 40-73 73-104 (1283)
150 COG4889 Predicted helicase [Ge 92.8 0.11 2.3E-06 54.1 3.6 45 23-67 154-198 (1518)
151 TIGR02525 plasmid_TraJ plasmid 92.7 0.14 3E-06 47.5 4.1 42 34-76 133-175 (372)
152 PRK00440 rfc replication facto 92.6 0.17 3.7E-06 43.4 4.3 36 33-68 20-57 (319)
153 CHL00081 chlI Mg-protoporyphyr 92.6 0.096 2.1E-06 48.2 2.9 43 23-65 10-54 (350)
154 PRK08116 hypothetical protein; 92.5 0.3 6.6E-06 42.8 5.9 46 31-77 89-141 (268)
155 KOG0339|consensus 92.5 0.043 9.4E-07 53.8 0.5 48 29-80 243-291 (731)
156 TIGR03420 DnaA_homol_Hda DnaA 92.5 0.2 4.4E-06 41.0 4.5 33 33-65 20-54 (226)
157 PRK07952 DNA replication prote 92.4 0.37 8E-06 42.1 6.2 44 33-77 79-126 (244)
158 COG0556 UvrB Helicase subunit 92.2 0.14 2.9E-06 50.5 3.5 43 24-66 6-49 (663)
159 COG1111 MPH1 ERCC4-like helica 92.2 0.15 3.2E-06 49.6 3.8 46 29-79 14-59 (542)
160 TIGR02538 type_IV_pilB type IV 92.2 0.18 3.8E-06 48.8 4.3 44 33-80 302-346 (564)
161 COG1643 HrpA HrpA-like helicas 92.2 0.12 2.5E-06 52.8 3.2 27 39-65 55-81 (845)
162 PF06309 Torsin: Torsin; Inte 92.2 0.21 4.5E-06 40.3 4.0 31 35-65 34-69 (127)
163 PRK14955 DNA polymerase III su 92.1 0.19 4.2E-06 46.1 4.3 41 29-69 15-58 (397)
164 PF13401 AAA_22: AAA domain; P 92.0 0.083 1.8E-06 39.3 1.5 18 48-65 3-20 (131)
165 TIGR03015 pepcterm_ATPase puta 91.9 0.28 6.1E-06 41.2 4.8 36 31-66 24-60 (269)
166 PRK12377 putative replication 91.8 0.55 1.2E-05 41.1 6.6 46 33-79 81-130 (248)
167 PF07517 SecA_DEAD: SecA DEAD- 91.8 0.27 5.9E-06 43.7 4.7 44 26-75 73-116 (266)
168 KOG0341|consensus 91.7 0.026 5.6E-07 53.9 -1.9 47 30-80 192-238 (610)
169 PF13476 AAA_23: AAA domain; P 91.7 0.13 2.8E-06 40.4 2.3 27 49-77 19-45 (202)
170 TIGR00595 priA primosomal prot 91.6 0.12 2.5E-06 49.4 2.3 23 53-75 1-23 (505)
171 PRK11331 5-methylcytosine-spec 91.5 0.23 4.9E-06 47.6 4.1 29 38-66 183-211 (459)
172 PF02534 T4SS-DNA_transf: Type 91.4 0.07 1.5E-06 49.2 0.5 22 50-71 45-66 (469)
173 TIGR03819 heli_sec_ATPase heli 91.3 0.24 5.3E-06 45.1 4.0 37 39-76 168-204 (340)
174 TIGR01420 pilT_fam pilus retra 91.3 0.2 4.3E-06 45.2 3.4 29 47-76 120-148 (343)
175 PRK14722 flhF flagellar biosyn 91.3 0.19 4.1E-06 46.7 3.3 30 47-76 135-164 (374)
176 PRK06645 DNA polymerase III su 91.2 0.29 6.3E-06 47.1 4.6 37 33-69 24-63 (507)
177 PRK14961 DNA polymerase III su 91.2 0.29 6.3E-06 44.3 4.4 36 33-68 19-57 (363)
178 PF01078 Mg_chelatase: Magnesi 91.2 0.21 4.4E-06 43.1 3.2 33 33-65 6-38 (206)
179 KOG0947|consensus 90.9 0.34 7.4E-06 50.5 4.9 56 20-80 287-342 (1248)
180 PRK13765 ATP-dependent proteas 90.8 0.61 1.3E-05 46.2 6.4 37 29-65 30-66 (637)
181 cd00984 DnaB_C DnaB helicase C 90.7 0.19 4.2E-06 41.7 2.6 36 45-80 9-44 (242)
182 PF12846 AAA_10: AAA-like doma 90.6 0.27 5.8E-06 41.0 3.3 28 50-78 2-29 (304)
183 PRK14962 DNA polymerase III su 90.6 0.33 7.2E-06 46.2 4.3 36 32-67 16-54 (472)
184 TIGR03499 FlhF flagellar biosy 90.5 0.56 1.2E-05 41.3 5.3 26 49-75 194-219 (282)
185 cd01124 KaiC KaiC is a circadi 90.4 0.29 6.3E-06 38.7 3.2 25 51-75 1-25 (187)
186 TIGR02788 VirB11 P-type DNA tr 90.2 0.33 7.2E-06 43.1 3.7 35 39-74 134-168 (308)
187 PRK13764 ATPase; Provisional 90.2 0.31 6.7E-06 48.1 3.8 33 47-80 255-287 (602)
188 cd01126 TraG_VirD4 The TraG/Tr 90.1 0.067 1.5E-06 48.3 -0.7 22 51-72 1-22 (384)
189 PRK14948 DNA polymerase III su 90.1 0.32 6.9E-06 47.8 3.8 37 33-69 19-58 (620)
190 COG1110 Reverse gyrase [DNA re 90.1 0.5 1.1E-05 49.5 5.3 45 27-76 79-123 (1187)
191 PF00448 SRP54: SRP54-type pro 90.0 0.24 5.3E-06 41.5 2.6 19 50-68 2-20 (196)
192 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.9 0.35 7.6E-06 39.5 3.4 29 48-76 37-65 (205)
193 TIGR00750 lao LAO/AO transport 89.9 0.27 5.7E-06 43.5 2.8 41 36-77 21-61 (300)
194 PF07728 AAA_5: AAA domain (dy 89.8 0.18 4E-06 38.4 1.5 23 51-75 1-23 (139)
195 PRK14956 DNA polymerase III su 89.7 0.44 9.5E-06 45.9 4.3 37 33-69 21-60 (484)
196 PRK08769 DNA polymerase III su 89.6 0.7 1.5E-05 42.0 5.3 39 31-69 5-46 (319)
197 PF05970 PIF1: PIF1-like helic 89.6 0.57 1.2E-05 42.5 4.8 47 33-80 4-52 (364)
198 PRK14950 DNA polymerase III su 89.5 0.38 8.3E-06 46.6 3.8 38 32-69 18-58 (585)
199 PRK05201 hslU ATP-dependent pr 89.5 0.47 1E-05 45.3 4.3 32 33-64 18-65 (443)
200 COG1419 FlhF Flagellar GTP-bin 89.4 0.5 1.1E-05 44.7 4.4 26 49-74 203-228 (407)
201 TIGR00635 ruvB Holliday juncti 89.3 0.59 1.3E-05 40.3 4.5 33 34-66 8-47 (305)
202 TIGR03263 guanyl_kin guanylate 89.3 0.2 4.4E-06 39.7 1.5 16 49-64 1-16 (180)
203 PF13481 AAA_25: AAA domain; P 89.3 0.33 7.2E-06 38.7 2.8 29 47-75 30-58 (193)
204 TIGR02928 orc1/cdc6 family rep 89.2 0.6 1.3E-05 41.2 4.5 36 31-66 19-57 (365)
205 TIGR02688 conserved hypothetic 89.2 0.73 1.6E-05 44.2 5.3 33 34-66 194-226 (449)
206 KOG0991|consensus 89.1 2 4.3E-05 39.1 7.8 44 37-80 34-79 (333)
207 PRK00411 cdc6 cell division co 89.1 0.45 9.7E-06 42.5 3.7 38 31-68 34-74 (394)
208 PRK05703 flhF flagellar biosyn 89.1 0.32 7E-06 45.6 2.9 25 49-73 221-245 (424)
209 TIGR00390 hslU ATP-dependent p 89.1 0.53 1.1E-05 45.0 4.4 40 33-74 15-70 (441)
210 PF13555 AAA_29: P-loop contai 89.1 0.46 1E-05 33.7 3.1 29 49-79 23-51 (62)
211 KOG0349|consensus 89.1 0.073 1.6E-06 51.6 -1.4 45 28-76 21-66 (725)
212 PRK08903 DnaA regulatory inact 89.1 0.6 1.3E-05 38.7 4.2 28 37-64 27-57 (227)
213 PRK06921 hypothetical protein; 88.8 1.3 2.9E-05 38.8 6.4 28 48-76 116-143 (266)
214 PRK14963 DNA polymerase III su 88.8 0.53 1.1E-05 45.2 4.1 37 33-69 17-56 (504)
215 PRK14954 DNA polymerase III su 88.7 0.52 1.1E-05 46.5 4.2 37 33-69 19-58 (620)
216 PF00158 Sigma54_activat: Sigm 88.6 0.57 1.2E-05 38.3 3.8 28 37-64 10-37 (168)
217 TIGR03238 dnd_assoc_3 dnd syst 88.6 0.28 6.1E-06 47.5 2.2 36 29-64 9-47 (504)
218 CHL00122 secA preprotein trans 88.6 0.49 1.1E-05 48.6 3.9 41 26-72 72-112 (870)
219 PF07724 AAA_2: AAA domain (Cd 88.6 0.39 8.3E-06 39.5 2.7 15 50-64 4-18 (171)
220 KOG0922|consensus 88.4 0.41 9E-06 47.7 3.3 29 37-65 54-82 (674)
221 PRK14952 DNA polymerase III su 88.4 0.51 1.1E-05 46.2 3.8 38 33-70 16-56 (584)
222 cd01376 KISc_KID_like Kinesin 88.3 0.25 5.5E-06 44.0 1.6 43 24-66 48-98 (319)
223 KOG4284|consensus 88.2 0.1 2.3E-06 52.5 -1.0 46 28-77 44-90 (980)
224 PRK08727 hypothetical protein; 88.1 1.2 2.6E-05 37.9 5.5 26 50-76 42-67 (233)
225 PF00004 AAA: ATPase family as 88.1 0.45 9.7E-06 35.0 2.6 14 52-65 1-14 (132)
226 TIGR01650 PD_CobS cobaltochela 88.0 1.1 2.3E-05 41.2 5.5 28 38-65 53-80 (327)
227 PRK05342 clpX ATP-dependent pr 88.0 0.43 9.3E-06 44.7 2.9 16 50-65 109-124 (412)
228 TIGR03346 chaperone_ClpB ATP-d 88.0 0.38 8.3E-06 48.6 2.8 34 32-65 567-611 (852)
229 cd01122 GP4d_helicase GP4d_hel 87.9 0.42 9E-06 40.6 2.6 33 44-76 25-57 (271)
230 COG4962 CpaF Flp pilus assembl 87.9 0.32 7E-06 45.3 2.0 40 41-82 165-204 (355)
231 COG1219 ClpX ATP-dependent pro 87.9 0.27 5.9E-06 46.0 1.5 25 49-75 97-121 (408)
232 cd01120 RecA-like_NTPases RecA 87.8 0.56 1.2E-05 35.1 3.0 19 51-69 1-19 (165)
233 cd01131 PilT Pilus retraction 87.7 0.46 1E-05 39.3 2.7 26 50-76 2-27 (198)
234 PRK13342 recombination factor 87.7 0.48 1E-05 43.6 3.1 35 32-66 14-53 (413)
235 COG1200 RecG RecG-like helicas 87.7 0.75 1.6E-05 46.1 4.5 54 26-79 258-313 (677)
236 PRK00080 ruvB Holliday junctio 87.6 0.64 1.4E-05 41.2 3.7 37 31-67 26-69 (328)
237 PHA00729 NTP-binding motif con 87.6 0.69 1.5E-05 40.4 3.8 25 40-64 6-32 (226)
238 PRK12902 secA preprotein trans 87.6 0.65 1.4E-05 48.0 4.1 44 26-75 81-124 (939)
239 TIGR02442 Cob-chelat-sub cobal 87.5 0.58 1.3E-05 45.9 3.7 39 27-65 1-41 (633)
240 PF14532 Sigma54_activ_2: Sigm 87.5 0.83 1.8E-05 35.3 3.9 27 38-64 10-36 (138)
241 TIGR00631 uvrb excinuclease AB 87.5 0.78 1.7E-05 45.5 4.5 42 25-66 4-46 (655)
242 PF02367 UPF0079: Uncharacteri 87.4 0.5 1.1E-05 37.5 2.6 28 37-64 3-30 (123)
243 PRK14958 DNA polymerase III su 87.4 0.65 1.4E-05 44.6 3.8 37 32-68 18-57 (509)
244 PF05496 RuvB_N: Holliday junc 87.3 0.57 1.2E-05 41.3 3.1 39 25-63 19-64 (233)
245 PRK14957 DNA polymerase III su 87.3 0.76 1.6E-05 44.8 4.3 40 29-68 15-57 (546)
246 PF13207 AAA_17: AAA domain; P 87.2 0.28 6.1E-06 36.2 1.1 14 51-64 1-14 (121)
247 PRK00300 gmk guanylate kinase; 87.2 0.3 6.5E-06 39.6 1.3 17 48-64 4-20 (205)
248 COG0470 HolB ATPase involved i 87.2 0.98 2.1E-05 38.6 4.5 39 34-72 6-47 (325)
249 TIGR02880 cbbX_cfxQ probable R 87.1 0.48 1E-05 41.7 2.6 17 50-66 59-75 (284)
250 TIGR00150 HI0065_YjeE ATPase, 87.1 0.59 1.3E-05 37.5 2.9 28 37-64 10-37 (133)
251 TIGR00764 lon_rel lon-related 87.1 0.85 1.8E-05 44.7 4.5 37 29-65 17-53 (608)
252 TIGR02397 dnaX_nterm DNA polym 87.1 0.8 1.7E-05 40.2 3.9 35 32-66 16-53 (355)
253 PRK08084 DNA replication initi 87.0 0.92 2E-05 38.6 4.2 31 34-64 28-60 (235)
254 PF10236 DAP3: Mitochondrial r 87.0 1.2 2.7E-05 39.8 5.2 44 34-78 6-51 (309)
255 TIGR00382 clpX endopeptidase C 87.0 0.69 1.5E-05 43.6 3.7 21 50-72 117-137 (413)
256 TIGR02639 ClpA ATP-dependent C 87.0 0.52 1.1E-05 46.8 3.0 31 34-64 458-499 (731)
257 TIGR02759 TraD_Ftype type IV c 86.9 0.47 1E-05 46.2 2.6 31 49-80 176-206 (566)
258 PRK09111 DNA polymerase III su 86.8 0.76 1.7E-05 45.1 4.0 37 33-69 27-66 (598)
259 TIGR02902 spore_lonB ATP-depen 86.8 0.65 1.4E-05 44.6 3.5 34 32-65 67-102 (531)
260 PF13177 DNA_pol3_delta2: DNA 86.7 1.1 2.4E-05 36.1 4.3 36 34-69 1-39 (162)
261 PRK13850 type IV secretion sys 86.7 0.25 5.5E-06 49.1 0.7 23 49-71 139-161 (670)
262 PRK10865 protein disaggregatio 86.5 0.59 1.3E-05 47.5 3.2 35 32-66 570-615 (857)
263 TIGR02881 spore_V_K stage V sp 86.4 0.53 1.1E-05 40.4 2.4 17 50-66 43-59 (261)
264 PF05729 NACHT: NACHT domain 86.3 0.86 1.9E-05 34.6 3.3 15 51-65 2-16 (166)
265 PRK13897 type IV secretion sys 86.3 0.23 4.9E-06 48.9 0.1 23 50-72 159-181 (606)
266 cd01127 TrwB Bacterial conjuga 86.2 0.58 1.2E-05 43.2 2.7 29 49-78 42-70 (410)
267 PF00176 SNF2_N: SNF2 family N 86.1 1.6 3.5E-05 36.6 5.2 38 34-71 1-47 (299)
268 TIGR02768 TraA_Ti Ti-type conj 86.1 1.2 2.7E-05 44.6 5.1 44 29-76 351-394 (744)
269 TIGR00176 mobB molybdopterin-g 86.1 0.72 1.6E-05 37.2 2.9 29 51-80 1-29 (155)
270 PRK14969 DNA polymerase III su 86.0 0.87 1.9E-05 43.8 3.9 35 34-68 20-57 (527)
271 PRK12723 flagellar biosynthesi 86.0 1.5 3.3E-05 40.9 5.4 22 49-70 174-195 (388)
272 PRK12900 secA preprotein trans 85.9 1 2.2E-05 47.1 4.4 49 20-74 128-176 (1025)
273 PF06745 KaiC: KaiC; InterPro 85.8 0.88 1.9E-05 37.7 3.4 29 48-76 18-46 (226)
274 COG0606 Predicted ATPase with 85.8 0.74 1.6E-05 44.5 3.3 33 33-65 182-214 (490)
275 PF00308 Bac_DnaA: Bacterial d 85.3 2.1 4.5E-05 36.3 5.4 25 51-76 36-60 (219)
276 PRK06305 DNA polymerase III su 85.3 1.2 2.5E-05 42.1 4.3 41 29-69 16-59 (451)
277 PRK11034 clpA ATP-dependent Cl 85.3 0.69 1.5E-05 46.6 3.0 32 34-65 462-504 (758)
278 PRK13876 conjugal transfer cou 85.3 0.3 6.6E-06 48.5 0.4 24 49-72 144-167 (663)
279 PRK05541 adenylylsulfate kinas 85.1 0.34 7.4E-06 38.7 0.6 19 46-64 4-22 (176)
280 PF13238 AAA_18: AAA domain; P 85.1 0.43 9.4E-06 34.9 1.1 13 52-64 1-13 (129)
281 KOG1808|consensus 85.1 2 4.4E-05 47.4 6.4 48 29-78 419-467 (1856)
282 PRK04296 thymidine kinase; Pro 85.1 0.77 1.7E-05 37.8 2.7 31 49-80 2-32 (190)
283 cd01373 KISc_KLP2_like Kinesin 85.0 0.54 1.2E-05 42.3 1.9 45 23-67 41-93 (337)
284 PRK07994 DNA polymerase III su 85.0 1.1 2.3E-05 44.7 4.1 35 33-67 19-56 (647)
285 PRK14729 miaA tRNA delta(2)-is 84.9 0.53 1.2E-05 42.5 1.8 17 48-64 3-19 (300)
286 CHL00181 cbbX CbbX; Provisiona 84.8 0.65 1.4E-05 41.1 2.3 19 50-68 60-78 (287)
287 PRK05298 excinuclease ABC subu 84.8 1.6 3.5E-05 43.0 5.2 43 25-67 7-50 (652)
288 PRK06995 flhF flagellar biosyn 84.7 0.88 1.9E-05 43.8 3.2 30 48-77 255-284 (484)
289 PRK00698 tmk thymidylate kinas 84.6 0.51 1.1E-05 37.9 1.4 22 48-71 2-23 (205)
290 PRK12901 secA preprotein trans 84.6 1.3 2.7E-05 46.7 4.5 52 17-74 156-207 (1112)
291 PRK14964 DNA polymerase III su 84.4 1.2 2.6E-05 42.9 4.0 36 34-69 17-55 (491)
292 PRK13880 conjugal transfer cou 84.3 0.23 4.9E-06 48.9 -0.9 23 50-72 176-198 (636)
293 CHL00095 clpC Clp protease ATP 84.3 0.97 2.1E-05 45.5 3.5 32 33-64 512-554 (821)
294 smart00763 AAA_PrkA PrkA AAA d 84.2 1.3 2.7E-05 41.3 4.0 34 31-64 56-93 (361)
295 PRK14953 DNA polymerase III su 84.2 1.4 3E-05 42.2 4.3 36 33-68 19-57 (486)
296 KOG0332|consensus 84.1 0.71 1.5E-05 44.0 2.3 46 27-75 108-155 (477)
297 PRK04195 replication factor C 84.1 1.1 2.5E-05 42.0 3.7 32 35-66 19-56 (482)
298 TIGR03881 KaiC_arch_4 KaiC dom 84.1 0.98 2.1E-05 37.4 2.9 29 46-74 17-45 (229)
299 PRK10869 recombination and rep 84.0 0.95 2.1E-05 43.8 3.2 24 50-75 23-46 (553)
300 PRK12727 flagellar biosynthesi 84.0 1.9 4E-05 42.5 5.1 22 45-66 346-367 (559)
301 KOG0744|consensus 83.9 0.75 1.6E-05 43.3 2.3 22 49-72 177-198 (423)
302 cd03241 ABC_RecN RecN ATPase i 83.8 1 2.3E-05 39.0 3.1 28 49-78 21-48 (276)
303 PRK09112 DNA polymerase III su 83.8 1.5 3.3E-05 40.1 4.3 51 25-76 16-71 (351)
304 PF13671 AAA_33: AAA domain; P 83.8 0.52 1.1E-05 35.6 1.1 14 51-64 1-14 (143)
305 PRK08691 DNA polymerase III su 83.7 1.2 2.7E-05 44.8 3.9 38 32-69 18-58 (709)
306 COG1223 Predicted ATPase (AAA+ 83.7 0.65 1.4E-05 42.7 1.8 16 50-65 152-167 (368)
307 TIGR02767 TraG-Ti Ti-type conj 83.7 0.42 9.1E-06 47.2 0.6 22 50-71 212-233 (623)
308 cd01366 KISc_C_terminal Kinesi 83.6 0.64 1.4E-05 41.3 1.7 43 24-66 46-95 (329)
309 PF05673 DUF815: Protein of un 83.5 1.6 3.5E-05 38.9 4.1 52 31-83 31-85 (249)
310 PF13173 AAA_14: AAA domain 83.5 0.91 2E-05 34.6 2.3 19 48-66 1-19 (128)
311 TIGR03345 VI_ClpV1 type VI sec 83.5 1.1 2.5E-05 45.5 3.6 37 34-72 570-617 (852)
312 PHA02544 44 clamp loader, smal 83.5 1.6 3.4E-05 37.9 4.1 32 34-65 25-59 (316)
313 PRK07764 DNA polymerase III su 83.5 1.3 2.9E-05 45.1 4.1 38 33-70 18-58 (824)
314 PRK05896 DNA polymerase III su 83.4 1.3 2.9E-05 43.8 3.9 38 32-69 18-58 (605)
315 PF03193 DUF258: Protein of un 83.4 1.1 2.4E-05 37.1 2.9 24 39-63 26-49 (161)
316 COG0542 clpA ATP-binding subun 83.2 0.87 1.9E-05 46.3 2.7 31 34-64 495-536 (786)
317 PRK14960 DNA polymerase III su 83.2 1.4 3E-05 44.5 4.0 37 33-69 18-57 (702)
318 PRK14949 DNA polymerase III su 83.2 1.3 2.8E-05 45.9 3.9 36 34-69 20-58 (944)
319 PRK14970 DNA polymerase III su 83.2 1.3 2.9E-05 39.6 3.6 38 29-66 16-56 (367)
320 COG1198 PriA Primosomal protei 83.2 2 4.4E-05 43.4 5.1 49 31-79 199-247 (730)
321 PRK14951 DNA polymerase III su 83.1 1.5 3.2E-05 43.4 4.1 41 29-69 15-58 (618)
322 cd01375 KISc_KIF9_like Kinesin 83.1 0.75 1.6E-05 41.3 2.0 42 25-67 50-99 (334)
323 cd03115 SRP The signal recogni 83.0 1.3 2.8E-05 35.1 3.1 23 51-73 2-24 (173)
324 PF02463 SMC_N: RecF/RecN/SMC 82.9 1.2 2.5E-05 36.7 2.8 26 49-76 24-49 (220)
325 COG0419 SbcC ATPase involved i 82.8 0.99 2.1E-05 45.8 2.9 31 47-79 23-53 (908)
326 TIGR00041 DTMP_kinase thymidyl 82.7 0.66 1.4E-05 37.2 1.3 16 49-64 3-18 (195)
327 PF03215 Rad17: Rad17 cell cyc 82.6 1.5 3.2E-05 42.5 3.8 34 35-68 24-64 (519)
328 KOG0390|consensus 82.6 2.1 4.5E-05 43.7 5.0 55 25-79 230-293 (776)
329 KOG0743|consensus 82.6 1.6 3.5E-05 41.9 4.1 41 33-74 208-259 (457)
330 PF01637 Arch_ATPase: Archaeal 82.6 0.77 1.7E-05 36.6 1.7 35 39-74 8-44 (234)
331 PTZ00112 origin recognition co 82.6 1.8 3.8E-05 45.5 4.6 39 31-69 759-801 (1164)
332 PRK14974 cell division protein 82.5 2.4 5.3E-05 38.8 5.1 30 50-80 141-170 (336)
333 KOG1802|consensus 82.5 1.4 3.1E-05 44.7 3.8 46 31-80 411-456 (935)
334 PRK10875 recD exonuclease V su 82.3 2.8 6.1E-05 41.4 5.7 31 32-66 154-184 (615)
335 PRK06871 DNA polymerase III su 82.3 2.5 5.3E-05 38.6 5.0 37 31-67 3-42 (325)
336 COG5008 PilU Tfp pilus assembl 82.3 0.99 2.2E-05 41.7 2.4 27 47-74 125-151 (375)
337 PRK13822 conjugal transfer cou 82.0 0.47 1E-05 46.9 0.3 23 49-71 224-246 (641)
338 TIGR00634 recN DNA repair prot 81.9 1.3 2.7E-05 42.7 3.1 25 49-75 22-46 (563)
339 PRK05563 DNA polymerase III su 81.9 1.8 3.9E-05 42.0 4.2 42 29-70 15-59 (559)
340 cd01374 KISc_CENP_E Kinesin mo 81.9 0.97 2.1E-05 40.2 2.2 45 23-67 40-92 (321)
341 TIGR01817 nifA Nif-specific re 81.9 1.5 3.4E-05 41.5 3.7 26 40-65 210-235 (534)
342 PLN03188 kinesin-12 family pro 81.8 0.58 1.3E-05 49.7 0.8 50 19-68 128-185 (1320)
343 cd00071 GMPK Guanosine monopho 81.8 0.79 1.7E-05 35.9 1.4 13 52-64 2-14 (137)
344 PRK06090 DNA polymerase III su 81.6 2.8 6.1E-05 38.1 5.1 36 31-66 4-42 (319)
345 TIGR02322 phosphon_PhnN phosph 81.6 0.81 1.8E-05 36.4 1.5 18 49-66 1-18 (179)
346 KOG0923|consensus 81.5 1.1 2.3E-05 45.5 2.5 25 41-65 272-296 (902)
347 KOG0239|consensus 81.5 1.5 3.3E-05 43.8 3.5 46 24-69 363-413 (670)
348 KOG0948|consensus 81.4 3 6.6E-05 43.0 5.6 51 23-77 122-172 (1041)
349 cd01367 KISc_KIF2_like Kinesin 81.4 0.73 1.6E-05 41.1 1.3 44 24-67 52-103 (322)
350 PRK10416 signal recognition pa 81.4 2.9 6.2E-05 37.8 5.0 47 33-80 87-144 (318)
351 PRK11608 pspF phage shock prot 81.3 2.2 4.8E-05 38.2 4.3 33 33-65 13-45 (326)
352 PRK09361 radB DNA repair and r 81.3 1.4 3.1E-05 36.4 2.9 28 47-74 21-48 (225)
353 PRK14965 DNA polymerase III su 81.2 1.8 3.9E-05 42.1 3.9 38 32-69 18-58 (576)
354 TIGR01360 aden_kin_iso1 adenyl 81.2 0.91 2E-05 35.9 1.6 16 49-64 3-18 (188)
355 cd01125 repA Hexameric Replica 81.0 1.6 3.5E-05 36.8 3.1 24 49-72 1-24 (239)
356 KOG0951|consensus 81.0 2.3 5E-05 45.9 4.7 34 46-79 322-355 (1674)
357 PRK07133 DNA polymerase III su 80.9 1.9 4.1E-05 43.6 4.0 36 33-68 21-59 (725)
358 PF10412 TrwB_AAD_bind: Type I 80.9 1.1 2.4E-05 41.2 2.2 31 49-80 15-45 (386)
359 PF00005 ABC_tran: ABC transpo 80.8 0.67 1.5E-05 34.9 0.7 24 47-72 9-32 (137)
360 TIGR00602 rad24 checkpoint pro 80.7 2 4.2E-05 42.8 4.0 34 33-66 87-127 (637)
361 cd01371 KISc_KIF3 Kinesin moto 80.7 1.1 2.5E-05 40.0 2.2 39 28-66 55-99 (333)
362 TIGR00368 Mg chelatase-related 80.7 0.96 2.1E-05 43.5 1.8 40 27-66 189-228 (499)
363 cd01369 KISc_KHC_KIF5 Kinesin 80.7 0.75 1.6E-05 40.9 1.1 43 24-66 44-94 (325)
364 COG1875 NYN ribonuclease and A 80.5 3.1 6.8E-05 39.6 5.1 50 26-77 223-273 (436)
365 PF09848 DUF2075: Uncharacteri 80.5 1.4 3E-05 39.6 2.7 24 50-73 2-25 (352)
366 PTZ00361 26 proteosome regulat 80.5 1.9 4.2E-05 40.8 3.8 16 50-65 218-233 (438)
367 PRK07003 DNA polymerase III su 80.4 1.9 4E-05 44.3 3.8 35 33-67 19-56 (830)
368 cd01370 KISc_KIP3_like Kinesin 80.4 1 2.2E-05 40.6 1.8 43 24-66 55-105 (338)
369 COG3973 Superfamily I DNA and 80.4 2 4.3E-05 43.2 3.9 30 47-77 224-253 (747)
370 PRK07993 DNA polymerase III su 80.4 2.5 5.4E-05 38.4 4.3 39 31-69 3-44 (334)
371 TIGR02237 recomb_radB DNA repa 80.3 1.6 3.5E-05 35.6 2.8 22 48-69 11-32 (209)
372 PRK06647 DNA polymerase III su 80.3 2 4.3E-05 41.9 3.9 37 33-69 19-58 (563)
373 TIGR02974 phageshock_pspF psp 80.2 2.1 4.5E-05 38.6 3.7 26 39-64 12-37 (329)
374 KOG0745|consensus 80.2 0.95 2.1E-05 44.0 1.6 22 49-72 226-247 (564)
375 PF00931 NB-ARC: NB-ARC domain 80.1 1.7 3.7E-05 36.7 3.0 28 37-64 3-34 (287)
376 TIGR02639 ClpA ATP-dependent C 80.0 1.8 4E-05 43.0 3.6 37 29-65 181-219 (731)
377 PRK08233 hypothetical protein; 80.0 0.99 2.1E-05 35.5 1.4 15 49-63 3-17 (182)
378 PRK00131 aroK shikimate kinase 79.9 0.94 2E-05 35.1 1.3 17 48-64 3-19 (175)
379 cd01394 radB RadB. The archaea 79.8 1.7 3.7E-05 35.7 2.9 27 46-72 16-42 (218)
380 cd01365 KISc_KIF1A_KIF1B Kines 79.8 0.99 2.2E-05 40.8 1.5 35 33-67 67-107 (356)
381 TIGR00763 lon ATP-dependent pr 79.8 2.4 5.2E-05 42.5 4.4 31 35-65 325-363 (775)
382 TIGR02785 addA_Gpos recombinat 79.7 2.5 5.3E-05 44.7 4.6 39 31-75 2-40 (1232)
383 KOG2373|consensus 79.7 0.94 2E-05 43.1 1.4 22 46-68 270-291 (514)
384 PRK00091 miaA tRNA delta(2)-is 79.6 0.92 2E-05 40.9 1.3 16 49-64 4-19 (307)
385 PRK13889 conjugal transfer rel 79.5 3.2 6.9E-05 43.4 5.2 44 29-76 345-388 (988)
386 PRK05973 replicative DNA helic 79.3 1.5 3.3E-05 38.3 2.5 35 41-75 56-90 (237)
387 PF01745 IPT: Isopentenyl tran 79.3 1.3 2.9E-05 39.1 2.1 16 50-65 2-17 (233)
388 PRK13975 thymidylate kinase; P 79.2 1.1 2.3E-05 36.1 1.4 16 49-64 2-17 (196)
389 COG4098 comFA Superfamily II D 79.2 3 6.5E-05 39.6 4.5 49 31-80 98-146 (441)
390 PRK08533 flagellar accessory p 79.0 1.9 4.2E-05 36.7 3.0 20 46-65 21-40 (230)
391 PRK03992 proteasome-activating 79.0 1.2 2.7E-05 40.8 1.9 16 50-65 166-181 (389)
392 PRK06067 flagellar accessory p 79.0 2 4.3E-05 36.0 3.0 18 48-65 24-41 (234)
393 PRK10078 ribose 1,5-bisphospho 78.9 1.1 2.5E-05 36.3 1.5 16 49-64 2-17 (186)
394 PRK07940 DNA polymerase III su 78.9 2.7 5.9E-05 39.1 4.2 33 34-66 9-53 (394)
395 cd01393 recA_like RecA is a b 78.8 1.8 3.9E-05 35.5 2.7 30 46-75 16-45 (226)
396 PLN03142 Probable chromatin-re 78.8 3.6 7.8E-05 43.2 5.4 46 30-76 169-214 (1033)
397 cd01368 KISc_KIF23_like Kinesi 78.8 0.84 1.8E-05 41.3 0.8 44 24-67 56-107 (345)
398 TIGR01448 recD_rel helicase, p 78.7 4.1 9E-05 40.7 5.6 45 27-76 320-364 (720)
399 PRK14959 DNA polymerase III su 78.7 2.5 5.5E-05 42.0 4.1 36 34-69 20-58 (624)
400 PRK10246 exonuclease subunit S 78.7 1.6 3.4E-05 45.3 2.8 27 47-75 28-54 (1047)
401 PF02399 Herpes_ori_bp: Origin 78.7 2 4.4E-05 44.0 3.5 26 48-73 48-73 (824)
402 TIGR01074 rep ATP-dependent DN 78.6 2.8 6.1E-05 40.6 4.3 39 32-76 3-41 (664)
403 PRK15429 formate hydrogenlyase 78.6 2.7 5.8E-05 41.3 4.2 24 41-64 391-414 (686)
404 TIGR02903 spore_lon_C ATP-depe 78.6 1.7 3.6E-05 42.7 2.8 37 29-65 153-191 (615)
405 TIGR00064 ftsY signal recognit 78.5 2 4.4E-05 37.8 3.0 30 50-80 73-102 (272)
406 PF14516 AAA_35: AAA-like doma 78.5 3.6 7.9E-05 36.9 4.7 44 30-78 14-59 (331)
407 KOG3928|consensus 78.5 1.8 3.8E-05 41.6 2.8 31 50-81 180-210 (461)
408 COG1122 CbiO ABC-type cobalt t 78.5 0.25 5.4E-06 43.0 -2.6 38 24-64 8-45 (235)
409 TIGR00618 sbcc exonuclease Sbc 78.4 1.7 3.7E-05 44.8 2.9 24 50-75 27-50 (1042)
410 COG1202 Superfamily II helicas 78.4 1.5 3.2E-05 44.1 2.3 43 31-76 217-259 (830)
411 PRK12903 secA preprotein trans 78.3 2.9 6.4E-05 43.3 4.5 41 26-72 74-114 (925)
412 PF04665 Pox_A32: Poxvirus A32 78.2 1.9 4.1E-05 38.0 2.8 26 50-76 14-39 (241)
413 PRK13341 recombination factor 78.0 2.6 5.7E-05 42.4 4.0 34 32-65 30-68 (725)
414 KOG0243|consensus 78.0 1.5 3.3E-05 45.8 2.5 38 29-66 103-146 (1041)
415 COG2909 MalT ATP-dependent tra 78.0 6.7 0.00015 40.6 6.9 71 26-114 18-91 (894)
416 PRK07471 DNA polymerase III su 77.9 3.8 8.3E-05 37.7 4.8 45 25-69 12-61 (365)
417 cd01672 TMPK Thymidine monopho 77.9 1.3 2.7E-05 34.9 1.4 19 51-71 2-20 (200)
418 cd00227 CPT Chloramphenicol (C 77.8 1.4 2.9E-05 35.4 1.6 16 49-64 2-17 (175)
419 TIGR00678 holB DNA polymerase 77.7 3.5 7.6E-05 33.2 4.0 26 41-66 3-31 (188)
420 PRK06893 DNA replication initi 77.7 5.3 0.00011 33.8 5.3 28 37-64 25-54 (229)
421 PRK07399 DNA polymerase III su 77.6 4 8.6E-05 36.8 4.7 37 33-69 7-46 (314)
422 TIGR03878 thermo_KaiC_2 KaiC d 77.6 2 4.3E-05 37.2 2.7 18 48-65 35-52 (259)
423 PRK12323 DNA polymerase III su 77.5 2.6 5.5E-05 42.6 3.7 36 33-68 19-57 (700)
424 PRK10919 ATP-dependent DNA hel 77.5 3.1 6.8E-05 41.1 4.3 38 32-76 4-41 (672)
425 PRK00771 signal recognition pa 77.4 3.9 8.5E-05 38.8 4.8 29 50-79 96-124 (437)
426 TIGR03877 thermo_KaiC_1 KaiC d 77.4 2.3 5E-05 36.0 3.0 18 47-64 19-36 (237)
427 PF07726 AAA_3: ATPase family 77.3 1.1 2.5E-05 36.3 1.0 20 51-70 1-20 (131)
428 PRK13768 GTPase; Provisional 77.2 2 4.4E-05 37.1 2.6 30 50-80 3-32 (253)
429 TIGR01242 26Sp45 26S proteasom 77.1 1.5 3.3E-05 39.5 1.9 16 50-65 157-172 (364)
430 COG1136 SalX ABC-type antimicr 77.1 1.2 2.6E-05 38.9 1.2 30 45-76 27-56 (226)
431 PLN02165 adenylate isopentenyl 77.0 2 4.4E-05 39.6 2.7 18 48-65 42-59 (334)
432 TIGR01447 recD exodeoxyribonuc 76.9 4.5 9.7E-05 39.7 5.2 32 33-68 148-179 (586)
433 PF03205 MobB: Molybdopterin g 76.7 2.5 5.4E-05 33.6 2.8 30 51-81 2-31 (140)
434 PRK06620 hypothetical protein; 76.6 1.4 3E-05 37.3 1.4 16 50-65 45-60 (214)
435 CHL00176 ftsH cell division pr 76.6 2.8 6E-05 41.6 3.7 34 32-65 188-232 (638)
436 KOG0926|consensus 76.6 1.9 4.2E-05 44.7 2.6 42 24-65 237-287 (1172)
437 TIGR00665 DnaB replicative DNA 76.6 1.9 4.1E-05 39.7 2.4 39 41-79 187-225 (434)
438 PF03796 DnaB_C: DnaB-like hel 76.5 1.9 4.2E-05 36.7 2.3 35 45-79 15-49 (259)
439 COG3587 Restriction endonuclea 76.4 1.4 3.1E-05 45.5 1.6 29 51-79 76-104 (985)
440 cd03258 ABC_MetN_methionine_tr 76.4 1.3 2.8E-05 36.8 1.2 25 46-72 28-52 (233)
441 cd03242 ABC_RecF RecF is a rec 76.2 2.6 5.6E-05 36.5 3.1 25 50-76 22-46 (270)
442 TIGR01241 FtsH_fam ATP-depende 76.2 3 6.5E-05 39.4 3.7 34 32-65 60-104 (495)
443 PF00625 Guanylate_kin: Guanyl 76.2 1.6 3.6E-05 35.2 1.7 16 49-64 2-17 (183)
444 KOG1533|consensus 76.2 1.8 3.9E-05 39.1 2.1 28 53-81 6-33 (290)
445 PF00225 Kinesin: Kinesin moto 76.2 0.8 1.7E-05 40.5 -0.1 41 29-69 49-95 (335)
446 PF05872 DUF853: Bacterial pro 76.1 1.5 3.2E-05 42.5 1.6 22 49-70 19-40 (502)
447 cd03292 ABC_FtsE_transporter F 76.0 1.4 3E-05 36.0 1.2 19 46-64 24-42 (214)
448 PHA02562 46 endonuclease subun 76.0 2.1 4.6E-05 40.1 2.6 25 49-75 27-51 (562)
449 TIGR01166 cbiO cobalt transpor 75.9 1.4 3E-05 35.6 1.2 19 46-64 15-33 (190)
450 PRK12726 flagellar biosynthesi 75.9 2.5 5.4E-05 40.2 3.0 23 48-70 205-227 (407)
451 TIGR03744 traC_PFL_4706 conjug 75.9 2.2 4.8E-05 43.6 2.9 28 49-76 475-502 (893)
452 PRK05022 anaerobic nitric oxid 75.8 3.1 6.7E-05 39.5 3.7 32 34-65 191-226 (509)
453 cd03255 ABC_MJ0796_Lo1CDE_FtsE 75.6 1.4 3E-05 36.2 1.2 19 46-64 27-45 (218)
454 PRK14738 gmk guanylate kinase; 75.4 1.6 3.4E-05 36.4 1.4 17 48-64 12-28 (206)
455 PRK14723 flhF flagellar biosyn 75.4 2.5 5.3E-05 43.1 3.0 25 49-73 185-209 (767)
456 PLN02748 tRNA dimethylallyltra 75.3 1.6 3.4E-05 41.9 1.6 17 48-64 21-37 (468)
457 TIGR03600 phage_DnaB phage rep 75.3 2.6 5.5E-05 38.8 2.9 40 41-80 186-225 (421)
458 COG1221 PspF Transcriptional r 75.2 3.1 6.8E-05 39.3 3.5 19 48-66 100-118 (403)
459 PRK12724 flagellar biosynthesi 75.2 2.7 5.8E-05 40.1 3.1 30 49-78 223-252 (432)
460 TIGR03608 L_ocin_972_ABC putat 75.1 1.4 3.1E-05 35.7 1.1 19 46-64 21-39 (206)
461 cd01372 KISc_KIF4 Kinesin moto 75.0 1.7 3.6E-05 38.9 1.6 44 24-67 41-92 (341)
462 TIGR03880 KaiC_arch_3 KaiC dom 75.0 2.9 6.2E-05 34.7 2.9 17 48-64 15-31 (224)
463 PF05707 Zot: Zonular occluden 75.0 2.4 5.3E-05 34.8 2.4 32 51-83 2-34 (193)
464 PRK14737 gmk guanylate kinase; 75.0 1.7 3.6E-05 36.1 1.5 17 48-64 3-19 (186)
465 PHA02774 E1; Provisional 74.9 4.1 9E-05 40.5 4.4 34 37-72 419-455 (613)
466 TIGR02673 FtsE cell division A 74.9 1.5 3.3E-05 35.8 1.2 20 45-64 24-43 (214)
467 KOG1805|consensus 74.9 3.5 7.6E-05 43.2 4.0 46 33-82 672-717 (1100)
468 PTZ00454 26S protease regulato 74.9 1.8 3.8E-05 40.4 1.7 17 49-65 179-195 (398)
469 PF12774 AAA_6: Hydrolytic ATP 74.9 4 8.8E-05 35.3 3.9 29 37-65 20-48 (231)
470 KOG0240|consensus 74.9 2.4 5.2E-05 42.0 2.7 40 29-68 57-102 (607)
471 PRK07933 thymidylate kinase; V 74.8 2.9 6.3E-05 35.2 2.9 27 51-78 2-28 (213)
472 COG1222 RPT1 ATP-dependent 26S 74.7 1.6 3.4E-05 41.3 1.4 15 50-64 186-200 (406)
473 cd01364 KISc_BimC_Eg5 Kinesin 74.6 1.5 3.2E-05 39.5 1.1 44 24-67 49-100 (352)
474 cd03226 ABC_cobalt_CbiO_domain 74.5 1.6 3.4E-05 35.7 1.2 19 46-64 23-41 (205)
475 COG3839 MalK ABC-type sugar tr 74.4 1.8 3.9E-05 39.9 1.7 21 45-65 25-45 (338)
476 TIGR01313 therm_gnt_kin carboh 74.4 1.6 3.4E-05 34.2 1.1 12 52-63 1-12 (163)
477 cd01673 dNK Deoxyribonucleosid 74.3 1.7 3.8E-05 34.9 1.4 14 51-64 1-14 (193)
478 PRK14527 adenylate kinase; Pro 74.3 1.9 4.1E-05 35.0 1.6 17 48-64 5-21 (191)
479 cd03214 ABC_Iron-Siderophores_ 74.3 1.6 3.5E-05 35.1 1.2 19 46-64 22-40 (180)
480 COG4133 CcmA ABC-type transpor 74.0 1.3 2.9E-05 38.5 0.7 19 46-64 25-43 (209)
481 PRK10646 ADP-binding protein; 73.9 3.2 7E-05 34.1 2.9 29 36-64 15-43 (153)
482 TIGR02168 SMC_prok_B chromosom 73.8 2.9 6.2E-05 41.9 3.0 17 49-65 23-39 (1179)
483 COG2256 MGS1 ATPase related to 73.7 2.5 5.5E-05 40.4 2.5 41 24-64 18-63 (436)
484 PRK14721 flhF flagellar biosyn 73.7 3.3 7.1E-05 39.2 3.3 20 48-67 190-209 (420)
485 TIGR01359 UMP_CMP_kin_fam UMP- 73.7 1.9 4.1E-05 34.2 1.5 14 51-64 1-14 (183)
486 PRK15455 PrkA family serine pr 73.7 4.1 8.9E-05 40.7 4.0 16 49-64 103-118 (644)
487 PRK06547 hypothetical protein; 73.7 3.1 6.8E-05 34.1 2.8 15 50-64 16-30 (172)
488 cd03259 ABC_Carb_Solutes_like 73.7 1.7 3.7E-05 35.6 1.2 19 46-64 23-41 (213)
489 cd03269 ABC_putative_ATPase Th 73.6 1.7 3.7E-05 35.5 1.2 19 46-64 23-41 (210)
490 cd03276 ABC_SMC6_euk Eukaryoti 73.6 3.5 7.5E-05 34.3 3.0 24 50-75 22-45 (198)
491 TIGR00174 miaA tRNA isopenteny 73.6 1.8 3.9E-05 38.9 1.4 14 51-64 1-14 (287)
492 COG0396 sufC Cysteine desulfur 73.4 2.2 4.9E-05 38.1 2.0 29 41-69 22-51 (251)
493 PRK08451 DNA polymerase III su 73.4 4.1 8.8E-05 39.8 3.9 37 33-69 17-56 (535)
494 cd03225 ABC_cobalt_CbiO_domain 73.4 1.7 3.6E-05 35.5 1.1 19 46-64 24-42 (211)
495 TIGR02211 LolD_lipo_ex lipopro 73.3 1.7 3.7E-05 35.7 1.2 19 46-64 28-46 (221)
496 cd01123 Rad51_DMC1_radA Rad51_ 73.2 3.1 6.6E-05 34.4 2.6 21 47-67 17-37 (235)
497 PRK11773 uvrD DNA-dependent he 73.2 4.5 9.7E-05 40.1 4.2 39 31-76 10-48 (721)
498 PF02456 Adeno_IVa2: Adenoviru 73.1 1.8 3.9E-05 40.4 1.3 14 51-64 89-102 (369)
499 cd03246 ABCC_Protease_Secretio 73.1 1.8 3.9E-05 34.6 1.2 19 46-64 25-43 (173)
500 COG5271 MDN1 AAA ATPase contai 73.0 4.7 0.0001 45.7 4.4 36 30-65 1831-1866(4600)
No 1
>KOG1133|consensus
Probab=99.96 E-value=3.8e-29 Score=240.96 Aligned_cols=158 Identities=34% Similarity=0.540 Sum_probs=128.3
Q ss_pred CccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhHHHHHHHHHhhhh-hcCCCCC
Q psy14272 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGLEKIEAKIKDLEI-SKNETVS 101 (194)
Q Consensus 23 ~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~~~~~~~~~~~~~-~~~~d~e 101 (194)
..|+|||+||+||.+||+.||++|+.|+++|||||||||||||+||++|+||++++.++..+....+..+.+ ..+.+++
T Consensus 8 ~~F~fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltWL~~~eek~~t~~~~~l~~v~~~~~d~kde 87 (821)
T KOG1133|consen 8 IEFPFPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTWLRDFEEKKRTEEARLLETVTGPLHDEKDE 87 (821)
T ss_pred cccCCCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHHHHHhHHhhhhHHHhhhccCCCcccccccc
Confidence 569999999999999999999999999999999999999999999999999999999888877666654421 2444677
Q ss_pred ch----HHHHHHHHHHHHhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHhhhhhhhhhhhhhchhhhhH
Q psy14272 102 ED----WIEQQSFELKMRNQIDA-LKDALKSQKTYDELIENIRKQNEKRKKSLRNDQEVKVHALTYRNRMDEKNSKEKRK 176 (194)
Q Consensus 102 Pd----Wv~e~~~~~~~~~~~~~-~~~~~~~~~~~E~rL~~ir~~~~~~k~~~r~~~~~~~~~~~~~~~~~e~~~~~~r~ 176 (194)
|| |+.++.++...+....+ ++......+.++.+++++...++..+.+.+++++.-..+--+.++|.+++ |.
T Consensus 88 ~d~~s~wl~~~~~~~~er~~~~r~l~~~qa~~~~re~r~q~~~~~~e~~k~ak~~~~e~~~reyl~~~e~~~pg----~~ 163 (821)
T KOG1133|consen 88 SDSSSAWLTQFVQKKEERDLVDRNLKAEQARFKQREERLQQLQHRVQGKKGAKRLRQEEEEREYLLSREMLEPG----RL 163 (821)
T ss_pred ccchhHHHHHHHHHHHhhccchHHHHHhhchHHHHHHHHHhhhhHHhhhhhhhccccccccchhcchhhccCcc----ch
Confidence 77 99999999999999888 77778888899999999999999999999999866332222344454444 44
Q ss_pred HHhhcccc
Q psy14272 177 EEERDGLE 184 (194)
Q Consensus 177 ~~~~~~~~ 184 (194)
|+-..|++
T Consensus 164 eq~e~~~~ 171 (821)
T KOG1133|consen 164 EQLESGEE 171 (821)
T ss_pred hhhhcccc
Confidence 44444443
No 2
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=99.74 E-value=2.7e-18 Score=150.67 Aligned_cols=56 Identities=50% Similarity=0.867 Sum_probs=53.1
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.|+|||+|||+|.+||..|++++.+|+++|||||||||||+|||||++.|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00488 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 48999999999999999999999999999999999999999999999999987655
No 3
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=99.74 E-value=2.7e-18 Score=150.67 Aligned_cols=56 Identities=50% Similarity=0.867 Sum_probs=53.1
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.|+|||+|||+|.+||..|++++.+|+++|||||||||||+|||||++.|+..++.
T Consensus 2 ~~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~ 57 (289)
T smart00489 2 LFYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPE 57 (289)
T ss_pred cccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcc
Confidence 48999999999999999999999999999999999999999999999999987655
No 4
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.60 E-value=1e-15 Score=148.13 Aligned_cols=55 Identities=35% Similarity=0.622 Sum_probs=52.2
Q ss_pred ccCCCCCC-CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 24 EFPFPFDA-YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 24 ~~~fPy~p-y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.++|||+| ||.|.+||..|+++|..++++++|||||||||+|+|||+|.|+..++
T Consensus 3 ~v~FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~ 58 (705)
T TIGR00604 3 LVYFPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP 58 (705)
T ss_pred ceecCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc
Confidence 47899996 99999999999999999999999999999999999999999998655
No 5
>KOG1132|consensus
Probab=99.51 E-value=1.1e-14 Score=143.99 Aligned_cols=61 Identities=43% Similarity=0.690 Sum_probs=57.8
Q ss_pred CCccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 22 PSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 22 ~~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
|..+.|||+||+.|+.||..|..||..+..+++|||||||||||+||++|+|.+.++.+..
T Consensus 13 Gv~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~ 73 (945)
T KOG1132|consen 13 GVPVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKP 73 (945)
T ss_pred CceeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhcccc
Confidence 8889999999999999999999999999999999999999999999999999999885543
No 6
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=99.37 E-value=5.6e-13 Score=126.77 Aligned_cols=58 Identities=24% Similarity=0.368 Sum_probs=52.9
Q ss_pred cCCC-CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 25 FPFP-FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 25 ~~fP-y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
..|| |+||+.|.+||..|+.++.+++++++|||||||||++||||++.|....++++.
T Consensus 9 ~~~~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~vi 67 (654)
T COG1199 9 VAFPGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVI 67 (654)
T ss_pred hhCCCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEE
Confidence 3455 779999999999999999999999999999999999999999999998876654
No 7
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=99.33 E-value=1.2e-12 Score=127.47 Aligned_cols=57 Identities=23% Similarity=0.249 Sum_probs=51.8
Q ss_pred CCC-CCCCHHHHHHHHHHHHHHhc-----CCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 26 PFP-FDAYDIQSNFMKNLYYTLDN-----SKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 26 ~fP-y~py~iQ~e~M~~I~~~L~~-----gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
.+| |++|+.|.+||..|+++|.+ ++++++||||||||||+||+|++.|+...+++++
T Consensus 20 ~~~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vV 82 (697)
T PRK11747 20 QLPGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLV 82 (697)
T ss_pred hCCCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEE
Confidence 345 99999999999999999987 5899999999999999999999999998877754
No 8
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.22 E-value=1.1e-11 Score=124.10 Aligned_cols=53 Identities=26% Similarity=0.382 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
|++||.|.+||..|+++|.+++++++|||||||||++||+|++.|+...++++
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~v 308 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPV 308 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeE
Confidence 89999999999999999999999999999999999999999999988666654
No 9
>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=99.11 E-value=6.1e-11 Score=117.34 Aligned_cols=49 Identities=24% Similarity=0.333 Sum_probs=46.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..|++||+|.+||..|+++|.+++++++|||||||||++||+|++.|+.
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~ 290 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI 290 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc
Confidence 4589999999999999999999999999999999999999999999987
No 10
>KOG1131|consensus
Probab=99.06 E-value=2e-10 Score=110.17 Aligned_cols=62 Identities=29% Similarity=0.414 Sum_probs=58.0
Q ss_pred CCCCCccCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 19 AEVPSEFPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 19 ~~~~~~~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
-+++..+.|||. .||.|.++|..|..+|+.++++++|+|+|||||.|+|.-+++|...++..
T Consensus 4 ~id~l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~ 66 (755)
T KOG1131|consen 4 YIDDLLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDE 66 (755)
T ss_pred eecCeeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcc
Confidence 467788999998 99999999999999999999999999999999999999999999998843
No 11
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.94 E-value=1.1e-09 Score=108.88 Aligned_cols=47 Identities=19% Similarity=0.247 Sum_probs=44.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 28 Py~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
.|++|+.|.+||..|+++|.+++++|+|||||||||++||+|++.+.
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~ 289 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS 289 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc
Confidence 39999999999999999999999999999999999999999988865
No 12
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.81 E-value=4.6e-09 Score=102.27 Aligned_cols=43 Identities=30% Similarity=0.496 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 34 IQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.|.+||..|+++|.+++++|+|||||||||++||+|++.|+..
T Consensus 1 ~Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~ 43 (636)
T TIGR03117 1 EQALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKE 43 (636)
T ss_pred CHHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 3999999999999999999999999999999999999999874
No 13
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.60 E-value=6e-08 Score=88.04 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=40.6
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+.|. |+|+|.+.+..+ -+|+++|+.||||||||++|++|++..+..
T Consensus 25 ~~g~~~pt~iQ~~aip~i----l~g~dvi~~ApTGsGKTla~llp~l~~l~~ 72 (423)
T PRK04837 25 KKGFHNCTPIQALALPLT----LAGRDVAGQAQTGTGKTMAFLTATFHYLLS 72 (423)
T ss_pred HCCCCCCCHHHHHHHHHH----hCCCcEEEECCCCchHHHHHHHHHHHHHHh
Confidence 46776 999999987765 478999999999999999999999987654
No 14
>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=98.54 E-value=1.4e-07 Score=76.09 Aligned_cols=47 Identities=23% Similarity=0.300 Sum_probs=40.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
++|. ||+.|.+.++.+. +|+++++.+|||+|||++|+.|++..+...
T Consensus 17 ~~~~~~~~~Q~~~~~~~~----~~~~~li~~~TG~GKT~~~~~~~l~~~~~~ 64 (203)
T cd00268 17 LGFEKPTPIQARAIPPLL----SGRDVIGQAQTGSGKTAAFLIPILEKLDPS 64 (203)
T ss_pred cCCCCCCHHHHHHHHHHh----cCCcEEEECCCCCcHHHHHHHHHHHHHHhh
Confidence 5666 9999999888876 388999999999999999999998877665
No 15
>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=98.52 E-value=1.2e-07 Score=73.69 Aligned_cols=47 Identities=21% Similarity=0.381 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
|++||.|.+.+..|.+.+... ..++|.+|||||||+.++..+.....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~ 51 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR 51 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc
Confidence 668999999999999999875 89999999999999998865444433
No 16
>PTZ00424 helicase 45; Provisional
Probab=98.52 E-value=1.2e-07 Score=84.24 Aligned_cols=48 Identities=21% Similarity=0.328 Sum_probs=41.0
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.|.|. |+|+|.+.+..++ +|..+|+.||||||||++|++|++.++..
T Consensus 44 ~~~~~~~~~~~Q~~ai~~i~----~~~d~ii~apTGsGKT~~~~l~~l~~~~~ 92 (401)
T PTZ00424 44 YSYGFEKPSAIQQRGIKPIL----DGYDTIGQAQSGTGKTATFVIAALQLIDY 92 (401)
T ss_pred HHcCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHhcC
Confidence 346776 9999999877764 68889999999999999999999988753
No 17
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.52 E-value=1.5e-07 Score=86.88 Aligned_cols=48 Identities=17% Similarity=0.215 Sum_probs=41.0
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.+.|. |+|+|.+.+..|. +|+++|+.||||||||++|++|++..+...
T Consensus 18 ~~g~~~pt~iQ~~ai~~il----~g~dvlv~apTGsGKTla~~lpil~~l~~~ 66 (456)
T PRK10590 18 EQGYREPTPIQQQAIPAVL----EGRDLMASAQTGTGKTAGFTLPLLQHLITR 66 (456)
T ss_pred HCCCCCCCHHHHHHHHHHh----CCCCEEEECCCCCcHHHHHHHHHHHHhhhc
Confidence 35665 9999999887764 689999999999999999999999887653
No 18
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.51 E-value=1.3e-07 Score=88.93 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=39.9
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+|. |+|+|.+.+..+. .|+++|+.||||||||++|++|+|..+..
T Consensus 139 ~g~~~ptpiQ~~aip~il----~g~dviv~ApTGSGKTlayllPil~~l~~ 185 (518)
T PLN00206 139 AGYEFPTPIQMQAIPAAL----SGRSLLVSADTGSGKTASFLVPIISRCCT 185 (518)
T ss_pred cCCCCCCHHHHHHHHHHh----cCCCEEEEecCCCCccHHHHHHHHHHHHh
Confidence 4676 9999999877764 78999999999999999999999987653
No 19
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.51 E-value=1.7e-07 Score=85.16 Aligned_cols=47 Identities=21% Similarity=0.296 Sum_probs=40.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.|. |+++|.+.+..+. +|+.+|+.||||+|||++|++|++.++.+.
T Consensus 19 ~g~~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~ 66 (434)
T PRK11192 19 KGYTRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDF 66 (434)
T ss_pred CCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhc
Confidence 5666 9999999777764 678999999999999999999999988654
No 20
>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=98.49 E-value=2.4e-07 Score=71.78 Aligned_cols=42 Identities=24% Similarity=0.381 Sum_probs=36.8
Q ss_pred CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.|.|.+.+..++ +|+.+|+.||||+|||++|+.+++.++...
T Consensus 1 t~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~ 42 (169)
T PF00270_consen 1 TPLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEG 42 (169)
T ss_dssp -HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccC
Confidence 378999888875 688999999999999999999999988765
No 21
>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=98.47 E-value=1.8e-07 Score=86.69 Aligned_cols=44 Identities=23% Similarity=0.207 Sum_probs=38.0
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
-.|+|. |||+|.+.+..+. +|+.+++.+|||+|||++|++|++.
T Consensus 5 ~~~g~~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~l~ 49 (470)
T TIGR00614 5 TVFGLSSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPALC 49 (470)
T ss_pred hhcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHHHH
Confidence 357887 9999999777763 6789999999999999999999875
No 22
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.44 E-value=3.1e-07 Score=84.90 Aligned_cols=47 Identities=21% Similarity=0.267 Sum_probs=40.3
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.|. ||++|.+.+..+ .+|+++|+.||||||||++|++|++.-+...
T Consensus 105 ~g~~~~~~iQ~~ai~~~----~~G~dvi~~apTGSGKTlay~lpil~~l~~~ 152 (475)
T PRK01297 105 LGFPYCTPIQAQVLGYT----LAGHDAIGRAQTGTGKTAAFLISIINQLLQT 152 (475)
T ss_pred CCCCCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHHhc
Confidence 5666 999999987765 4789999999999999999999999876543
No 23
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.43 E-value=3.2e-07 Score=84.22 Aligned_cols=47 Identities=21% Similarity=0.258 Sum_probs=40.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
..|. |+|+|.+.+..+. +|+++|+.||||||||++|++|++..+...
T Consensus 22 ~g~~~~t~iQ~~ai~~~l----~g~dvi~~a~TGsGKT~a~~lpil~~l~~~ 69 (460)
T PRK11776 22 LGYTEMTPIQAQSLPAIL----AGKDVIAQAKTGSGKTAAFGLGLLQKLDVK 69 (460)
T ss_pred CCCCCCCHHHHHHHHHHh----cCCCEEEECCCCCcHHHHHHHHHHHHhhhc
Confidence 5676 9999999887764 689999999999999999999999987543
No 24
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.39 E-value=4.1e-07 Score=87.03 Aligned_cols=47 Identities=19% Similarity=0.207 Sum_probs=40.6
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+.|. |+|+|.+.+..++ +|+++|+.||||||||++|++|++..+..
T Consensus 26 ~~g~~~ptpiQ~~~ip~~l----~G~Dvi~~ApTGSGKTlafllpil~~l~~ 73 (572)
T PRK04537 26 SAGFTRCTPIQALTLPVAL----PGGDVAGQAQTGTGKTLAFLVAVMNRLLS 73 (572)
T ss_pred HCCCCCCCHHHHHHHHHHh----CCCCEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 35676 9999999887764 78999999999999999999999987653
No 25
>PTZ00110 helicase; Provisional
Probab=98.39 E-value=4.3e-07 Score=86.27 Aligned_cols=46 Identities=20% Similarity=0.081 Sum_probs=39.5
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..|. |+|+|.+.+..+ ..|+.+|+.||||||||++|++|++..+..
T Consensus 148 ~g~~~pt~iQ~~aip~~----l~G~dvI~~ApTGSGKTlaylLP~l~~i~~ 194 (545)
T PTZ00110 148 AGFTEPTPIQVQGWPIA----LSGRDMIGIAETGSGKTLAFLLPAIVHINA 194 (545)
T ss_pred CCCCCCCHHHHHHHHHH----hcCCCEEEEeCCCChHHHHHHHHHHHHHHh
Confidence 4576 999999977665 478999999999999999999999887654
No 26
>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=98.33 E-value=7.2e-07 Score=87.97 Aligned_cols=47 Identities=17% Similarity=0.177 Sum_probs=40.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
..|+ ||++|.+.+..+ .+|+++|+.||||||||++|++|+|..+...
T Consensus 32 ~g~~~p~~~Q~~ai~~i----l~G~nvvv~apTGSGKTla~~LPiL~~l~~~ 79 (742)
T TIGR03817 32 AGIHRPWQHQARAAELA----HAGRHVVVATGTASGKSLAYQLPVLSALADD 79 (742)
T ss_pred cCCCcCCHHHHHHHHHH----HCCCCEEEECCCCCcHHHHHHHHHHHHHhhC
Confidence 4565 999999977765 5799999999999999999999999988653
No 27
>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=98.32 E-value=6.7e-07 Score=84.99 Aligned_cols=43 Identities=26% Similarity=0.333 Sum_probs=37.9
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|+|+ ++|+|.+.+..|. +|+++++.+|||+|||++|++|++.
T Consensus 8 ~fg~~~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpal~ 51 (591)
T TIGR01389 8 TFGYDDFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPALL 51 (591)
T ss_pred hcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHHHH
Confidence 48887 8999999887764 6889999999999999999999874
No 28
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=98.29 E-value=7.9e-07 Score=85.39 Aligned_cols=43 Identities=23% Similarity=0.290 Sum_probs=37.7
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|+|+ |||+|.+.+..+. +|+.+|+.+|||+|||++|++|++.
T Consensus 20 ~fG~~~~r~~Q~~ai~~il----~g~dvlv~apTGsGKTl~y~lpal~ 63 (607)
T PRK11057 20 TFGYQQFRPGQQEIIDAVL----SGRDCLVVMPTGGGKSLCYQIPALV 63 (607)
T ss_pred HcCCCCCCHHHHHHHHHHH----cCCCEEEEcCCCchHHHHHHHHHHH
Confidence 58887 9999999887764 7889999999999999999999874
No 29
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.23 E-value=1.8e-06 Score=84.22 Aligned_cols=52 Identities=15% Similarity=0.245 Sum_probs=45.9
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-.|||+|+++|...+..|...+..+ ...++.||||||||++|++|++..+..
T Consensus 256 ~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~ 309 (681)
T PRK10917 256 ASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA 309 (681)
T ss_pred HhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 3589999999999999999888765 468999999999999999999887754
No 30
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.23 E-value=1.7e-06 Score=84.06 Aligned_cols=46 Identities=20% Similarity=0.231 Sum_probs=39.6
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.|. |+|+|.+.+..+ ..++.+|+.||||||||++|++|++..+..
T Consensus 24 ~G~~~ptpiQ~~ai~~l----l~g~dvl~~ApTGsGKT~af~lpll~~l~~ 70 (629)
T PRK11634 24 LGYEKPSPIQAECIPHL----LNGRDVLGMAQTGSGKTAAFSLPLLHNLDP 70 (629)
T ss_pred CCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHHHHHHHHHHHHhhh
Confidence 5676 999999977775 368899999999999999999999887654
No 31
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=98.19 E-value=2.3e-06 Score=81.02 Aligned_cols=46 Identities=20% Similarity=0.261 Sum_probs=40.7
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-.|. |.|||...+..+. .|+.+|..|+||||||+||++|+|..+..
T Consensus 47 ~gf~~pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~ 93 (513)
T COG0513 47 LGFEEPTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILK 93 (513)
T ss_pred cCCCCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhc
Confidence 3576 9999999888874 67999999999999999999999998774
No 32
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.13 E-value=3.5e-06 Score=64.58 Aligned_cols=47 Identities=21% Similarity=0.173 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.++.+++.|.+++..++ +. +.+++.+|||||||.+++.+++..+...
T Consensus 5 ~~~~~~~~Q~~~~~~~~----~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~ 52 (201)
T smart00487 5 GFEPLRPYQKEAIEALL----SGLRDVILAAPTGSGKTLAALLPALEALKRG 52 (201)
T ss_pred CCCCCCHHHHHHHHHHH----cCCCcEEEECCCCCchhHHHHHHHHHHhccc
Confidence 34569999999888875 44 8999999999999999999887777654
No 33
>KOG0348|consensus
Probab=98.11 E-value=1.9e-06 Score=83.29 Aligned_cols=51 Identities=16% Similarity=0.199 Sum_probs=45.0
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
.+. |..+|.+-+..|. +|+.+++.|+||||||||||+|++.-|.....++.
T Consensus 156 ~i~~pTsVQkq~IP~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~ 207 (708)
T KOG0348|consen 156 KISAPTSVQKQAIPVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQ 207 (708)
T ss_pred ccCccchHhhcchhhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCcccc
Confidence 454 8999999888875 49999999999999999999999999998877764
No 34
>KOG0345|consensus
Probab=98.10 E-value=3.9e-06 Score=80.03 Aligned_cols=45 Identities=27% Similarity=0.373 Sum_probs=39.4
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+.|+ ..|+|..-+..+ -.++.+++||||||||||||++|++.-+.
T Consensus 24 ~GF~~mTpVQa~tIPll----l~~KDVvveavTGSGKTlAFllP~le~i~ 69 (567)
T KOG0345|consen 24 SGFEKMTPVQAATIPLL----LKNKDVVVEAVTGSGKTLAFLLPMLEIIY 69 (567)
T ss_pred cCCcccCHHHHhhhHHH----hcCCceEEEcCCCCCchhhHHHHHHHHHH
Confidence 4465 889999988876 47899999999999999999999999883
No 35
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.07 E-value=4.3e-06 Score=86.30 Aligned_cols=43 Identities=23% Similarity=0.110 Sum_probs=37.2
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|+|. +||+|.+.+..+ ..|+.+|+-+|||+||||+|++|+|.
T Consensus 455 ~FG~~sFRp~Q~eaI~ai----L~GrDVLVimPTGSGKSLcYQLPAL~ 498 (1195)
T PLN03137 455 VFGNHSFRPNQREIINAT----MSGYDVFVLMPTGGGKSLTYQLPALI 498 (1195)
T ss_pred HcCCCCCCHHHHHHHHHH----HcCCCEEEEcCCCccHHHHHHHHHHH
Confidence 46676 999999977765 47899999999999999999999874
No 36
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.06 E-value=5.1e-06 Score=83.27 Aligned_cols=44 Identities=25% Similarity=0.350 Sum_probs=38.4
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 29 y~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
|. |+|+|.+.+..| .+|+++|+.||||||||++|++|++..+..
T Consensus 30 ~~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~ 74 (876)
T PRK13767 30 FGTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFR 74 (876)
T ss_pred cCCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 44 999999987765 578999999999999999999999987654
No 37
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.06 E-value=6.9e-06 Score=79.30 Aligned_cols=51 Identities=20% Similarity=0.316 Sum_probs=44.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+||+|+++|...+..|...+... ...++.||||||||++|+.|++..+..
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~ 283 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA 283 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc
Confidence 589999999999999998877654 358999999999999999998876654
No 38
>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=98.04 E-value=7e-06 Score=83.16 Aligned_cols=52 Identities=17% Similarity=0.223 Sum_probs=45.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.|||+|+|+|...+..|...+..+ ...++.||||+|||++++.|++..+...
T Consensus 447 ~~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g 500 (926)
T TIGR00580 447 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG 500 (926)
T ss_pred hCCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC
Confidence 589999999999999999888765 5789999999999999999988776544
No 39
>PRK01172 ski2-like helicase; Provisional
Probab=97.97 E-value=1.1e-05 Score=77.85 Aligned_cols=47 Identities=26% Similarity=0.348 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.+|++||+|.+.+..+ .+++++|+.||||+|||++++.+++..+...
T Consensus 19 ~~~~l~~~Q~~ai~~l----~~~~nvlv~apTGSGKTl~a~lail~~l~~~ 65 (674)
T PRK01172 19 NDFELYDHQRMAIEQL----RKGENVIVSVPTAAGKTLIAYSAIYETFLAG 65 (674)
T ss_pred CCCCCCHHHHHHHHHH----hcCCcEEEECCCCchHHHHHHHHHHHHHHhC
Confidence 4688999999987764 6788999999999999999999887765543
No 40
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=97.94 E-value=1.2e-05 Score=80.50 Aligned_cols=45 Identities=16% Similarity=0.199 Sum_probs=41.4
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 29 y~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
|. |+|.|...+..|+ +|+++++-||||+|||+|.++|++.-+...
T Consensus 20 ~~~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~ 65 (814)
T COG1201 20 FTSLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSL 65 (814)
T ss_pred cCCCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhc
Confidence 65 9999999998885 899999999999999999999999988776
No 41
>PRK02362 ski2-like helicase; Provisional
Probab=97.92 E-value=1.4e-05 Score=78.24 Aligned_cols=46 Identities=24% Similarity=0.218 Sum_probs=38.5
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.|. +||+|.+.+.. .+..|+++|+.||||+|||+++++|++..+..
T Consensus 20 g~~~l~p~Q~~ai~~---~~~~g~nvlv~APTGSGKTlia~lail~~l~~ 66 (737)
T PRK02362 20 GIEELYPPQAEAVEA---GLLDGKNLLAAIPTASGKTLIAELAMLKAIAR 66 (737)
T ss_pred CCCcCCHHHHHHHHH---HHhCCCcEEEECCCcchHHHHHHHHHHHHHhc
Confidence 454 99999997654 35678999999999999999999998887653
No 42
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=97.92 E-value=1.3e-05 Score=80.56 Aligned_cols=47 Identities=19% Similarity=0.287 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.+|+.|.+.++.+ .+|+++|+-+|||||||+||++|++.-+......
T Consensus 70 ~lY~HQ~~A~~~~----~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a 116 (851)
T COG1205 70 RLYSHQVDALRLI----REGRNVVVTTGTGSGKTESFLLPILDHLLRDPSA 116 (851)
T ss_pred cccHHHHHHHHHH----HCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCc
Confidence 3999999987776 5899999999999999999999999977765555
No 43
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.90 E-value=1.4e-05 Score=81.13 Aligned_cols=49 Identities=18% Similarity=0.161 Sum_probs=40.8
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-|..||..+|+|.+.|..+. .+..+|.+|+||||||++|++|++.-+..
T Consensus 86 G~~~p~~~tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~ 134 (970)
T PRK12899 86 GYHQQWDMVPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT 134 (970)
T ss_pred cccCCCCCChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh
Confidence 37788888899999888764 45679999999999999999999976643
No 44
>PRK00254 ski2-like helicase; Provisional
Probab=97.89 E-value=1.4e-05 Score=78.01 Aligned_cols=47 Identities=19% Similarity=0.200 Sum_probs=38.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..|. |||+|.+.+.. .+.+|+++|+.||||+|||+++.+|++..+..
T Consensus 19 ~g~~~l~~~Q~~ai~~---~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~ 66 (720)
T PRK00254 19 RGIEELYPPQAEALKS---GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLR 66 (720)
T ss_pred CCCCCCCHHHHHHHHH---HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHh
Confidence 4565 99999996654 35678999999999999999999998876543
No 45
>KOG0331|consensus
Probab=97.86 E-value=6.8e-06 Score=78.81 Aligned_cols=47 Identities=17% Similarity=0.107 Sum_probs=41.2
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
-.|+ |.|||.+....+ ..|+.+|.-|-|||||||||++|++.++..+
T Consensus 109 ~g~~~PtpIQaq~wp~~----l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~ 156 (519)
T KOG0331|consen 109 QGFEKPTPIQAQGWPIA----LSGRDLVGIARTGSGKTLAYLLPAIVHLNNE 156 (519)
T ss_pred cCCCCCchhhhccccee----ccCCceEEEeccCCcchhhhhhHHHHHHHhc
Confidence 3465 999999987776 4799999999999999999999999999973
No 46
>KOG0344|consensus
Probab=97.75 E-value=2.2e-05 Score=75.98 Aligned_cols=50 Identities=26% Similarity=0.301 Sum_probs=41.5
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.-+|. |.|+|.+.+.. +-.+.+++..+|||+||||||+||+|..|.++..
T Consensus 153 ~~~F~~Pt~iq~~aipv----fl~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~ 203 (593)
T KOG0344|consen 153 ELGFDEPTPIQKQAIPV----FLEKRDVLACAPTGSGKTLAFNLPILQHLKDLSQ 203 (593)
T ss_pred hCCCCCCCcccchhhhh----hhcccceEEeccCCCcchhhhhhHHHHHHHHhhc
Confidence 34677 99999964443 3467899999999999999999999999998873
No 47
>KOG0330|consensus
Probab=97.69 E-value=3e-05 Score=72.83 Aligned_cols=49 Identities=20% Similarity=0.170 Sum_probs=43.6
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.|. |.+||.+-|..+. +|+++|.-|-||+|||++|++|+|.-|..+++.
T Consensus 80 ~~~~PT~IQ~~aiP~~L----~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~ 129 (476)
T KOG0330|consen 80 GWKKPTKIQSEAIPVAL----GGRDVIGLAETGSGKTGAFALPILQRLLQEPKL 129 (476)
T ss_pred CcCCCchhhhhhcchhh----CCCcEEEEeccCCCchhhhHHHHHHHHHcCCCC
Confidence 365 9999999998874 789999999999999999999999988887665
No 48
>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=97.68 E-value=3.9e-05 Score=77.32 Aligned_cols=41 Identities=17% Similarity=0.296 Sum_probs=32.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCC-ceeeeCCCCCCchHHHHHHHH
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSK-FGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk-~~I~ESPTGTGKTLS~L~~al 71 (194)
+.|+|||+|.+.+..+. .|+ ++++.+|||||||.++.++.+
T Consensus 12 ~G~~PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll 53 (844)
T TIGR02621 12 HGYSPFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLL 53 (844)
T ss_pred hCCCCCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhc
Confidence 46779999999888763 565 688899999999997654444
No 49
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.62 E-value=9.4e-05 Score=76.59 Aligned_cols=51 Identities=14% Similarity=0.107 Sum_probs=43.2
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
-.|||.|.++|.+.+..|..-+... ...++.||||+|||+.++.+++..+.
T Consensus 595 ~~~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~ 647 (1147)
T PRK10689 595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE 647 (1147)
T ss_pred HhCCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH
Confidence 3699999999999999998877654 67999999999999998887765554
No 50
>KOG0335|consensus
Probab=97.56 E-value=2.7e-05 Score=74.18 Aligned_cols=48 Identities=15% Similarity=0.240 Sum_probs=40.8
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.|. |.|+|.--+..| ..|..++..||||+|||.+||+|++.++.+.+.
T Consensus 93 ~~~~ptpvQk~sip~i----~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~ 141 (482)
T KOG0335|consen 93 GYTKPTPVQKYSIPII----SGGRDLMACAQTGSGKTAAFLIPIISYLLDEGP 141 (482)
T ss_pred cccCCCcceeecccee----ecCCceEEEccCCCcchHHHHHHHHHHHHhcCc
Confidence 355 888888866665 578899999999999999999999999988744
No 51
>KOG0350|consensus
Probab=97.53 E-value=6e-05 Score=72.63 Aligned_cols=49 Identities=18% Similarity=0.362 Sum_probs=41.7
Q ss_pred CCHHHHHHHHHHHHHHhc-----CCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDN-----SKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~-----gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.+|+|...+..|...+.. ...+.+-|||||||||||.+|+++.|-...-
T Consensus 160 ~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v 213 (620)
T KOG0350|consen 160 LFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPV 213 (620)
T ss_pred ccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCc
Confidence 568999999998888862 4678999999999999999999998877643
No 52
>PRK09694 helicase Cas3; Provisional
Probab=97.51 E-value=0.00011 Score=74.32 Aligned_cols=44 Identities=18% Similarity=0.219 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 28 Py~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.|.|||.|..++... ...+.+|+++|||+|||.+.|..+...+.
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~ 327 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLID 327 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 578999999864331 35678999999999999999888765443
No 53
>PRK09401 reverse gyrase; Reviewed
Probab=97.45 E-value=0.00017 Score=74.93 Aligned_cols=46 Identities=17% Similarity=0.153 Sum_probs=36.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.|.|+++|...+..+ ..|+.+++.||||||||+ ++++++.|+...
T Consensus 77 ~G~~pt~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~-f~l~~~~~l~~~ 122 (1176)
T PRK09401 77 TGSKPWSLQRTWAKRL----LLGESFAIIAPTGVGKTT-FGLVMSLYLAKK 122 (1176)
T ss_pred cCCCCcHHHHHHHHHH----HCCCcEEEEcCCCCCHHH-HHHHHHHHHHhc
Confidence 5778999999977776 378999999999999996 555555666543
No 54
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.37 E-value=0.00031 Score=72.73 Aligned_cols=50 Identities=14% Similarity=0.173 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.+.+|+.|.+.+..+.+++.+| +.+++.+|||||||++.+..+..+++.
T Consensus 410 ~~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~ 460 (1123)
T PRK11448 410 YGLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKA 460 (1123)
T ss_pred cCCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhc
Confidence 34569999999999999999765 568889999999999866554444443
No 55
>KOG0346|consensus
Probab=97.37 E-value=0.00015 Score=69.11 Aligned_cols=49 Identities=20% Similarity=0.181 Sum_probs=40.3
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.|+ |.-||...+.-+ -+|+.+|..|-||||||++||+|.|.-|...+..
T Consensus 38 G~ekpTlIQs~aIpla----LEgKDvvarArTGSGKT~AYliPllqkll~~k~t 87 (569)
T KOG0346|consen 38 GWEKPTLIQSSAIPLA----LEGKDVVARARTGSGKTAAYLIPLLQKLLAEKKT 87 (569)
T ss_pred CcCCcchhhhcccchh----hcCcceeeeeccCCCchHHHHHHHHHHHHHhhhc
Confidence 455 788888866654 3588999999999999999999999988776655
No 56
>PRK14701 reverse gyrase; Provisional
Probab=97.35 E-value=0.00026 Score=75.67 Aligned_cols=44 Identities=27% Similarity=0.222 Sum_probs=36.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
.++|+|+++|.+.+..+. +|+.+++-||||+|||+.++.+++..
T Consensus 75 ~~G~~pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~~~al~~ 118 (1638)
T PRK14701 75 ITGFEFWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGAFIALFL 118 (1638)
T ss_pred hhCCCCCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHHHHHHHH
Confidence 377899999999888764 68899999999999999666665544
No 57
>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=97.30 E-value=0.00033 Score=72.81 Aligned_cols=46 Identities=17% Similarity=0.204 Sum_probs=36.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
..+.|+++|...+..+ -.|+.+++.||||||||+ |++|++.++...
T Consensus 75 ~g~~p~~iQ~~~i~~i----l~G~d~vi~ApTGsGKT~-f~l~~~~~l~~~ 120 (1171)
T TIGR01054 75 VGSEPWSIQKMWAKRV----LRGDSFAIIAPTGVGKTT-FGLAMSLFLAKK 120 (1171)
T ss_pred cCCCCcHHHHHHHHHH----hCCCeEEEECCCCCCHHH-HHHHHHHHHHhc
Confidence 4467999999877765 478899999999999997 666777766543
No 58
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.28 E-value=0.00038 Score=68.30 Aligned_cols=51 Identities=14% Similarity=0.026 Sum_probs=40.8
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..-|+.+++.|.+.+..|...+ .+.+.++.+|||+|||.+|+.++...+..
T Consensus 139 ~~~~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~ 189 (679)
T PRK05580 139 AFEPPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ 189 (679)
T ss_pred ccCCCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc
Confidence 3456779999999888886544 45789999999999999999887666554
No 59
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.25 E-value=0.00043 Score=64.49 Aligned_cols=45 Identities=22% Similarity=0.352 Sum_probs=37.8
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHH
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~ 69 (194)
+.+.|.+|+.|.+.+.++...+..++.+|+-.|||+|||+..+-.
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~ 75 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEA 75 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHH
Confidence 566678999999988888777766888999999999999876554
No 60
>KOG0334|consensus
Probab=97.22 E-value=0.00016 Score=73.75 Aligned_cols=49 Identities=18% Similarity=0.329 Sum_probs=42.2
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.+.|. |+|||.+++.+| ..|..+|..|-||+|||++|++|.+....+.+
T Consensus 382 kl~y~k~~~IQ~qAiP~I----msGrdvIgvakTgSGKT~af~LPmirhi~dQr 431 (997)
T KOG0334|consen 382 KLGYEKPTPIQAQAIPAI----MSGRDVIGVAKTGSGKTLAFLLPMIRHIKDQR 431 (997)
T ss_pred HhcCCCCcchhhhhcchh----ccCcceEEeeccCCccchhhhcchhhhhhcCC
Confidence 46676 999999999997 68999999999999999999999996555443
No 61
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=97.19 E-value=0.00044 Score=68.16 Aligned_cols=45 Identities=20% Similarity=0.115 Sum_probs=37.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+...|||+|..-...++ .|+ |.++.||+|||+++++|++..+..
T Consensus 99 ~lg~~p~~VQ~~~~~~ll----~G~--Iae~~TGeGKTla~~lp~~~~al~ 143 (656)
T PRK12898 99 VLGQRHFDVQLMGGLALL----SGR--LAEMQTGEGKTLTATLPAGTAALA 143 (656)
T ss_pred HhCCCCChHHHHHHHHHh----CCC--eeeeeCCCCcHHHHHHHHHHHhhc
Confidence 467789999999666653 566 999999999999999999876553
No 62
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=97.17 E-value=0.00033 Score=68.30 Aligned_cols=45 Identities=27% Similarity=0.224 Sum_probs=37.9
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
-.|.|. .||.|.+.+.. +-+|+++|+-.|||.||||+|-+|++-.
T Consensus 11 ~~fGy~~FR~gQ~evI~~----~l~g~d~lvvmPTGgGKSlCyQiPAll~ 56 (590)
T COG0514 11 QVFGYASFRPGQQEIIDA----LLSGKDTLVVMPTGGGKSLCYQIPALLL 56 (590)
T ss_pred HHhCccccCCCHHHHHHH----HHcCCcEEEEccCCCCcchHhhhHHHhc
Confidence 357887 89999975554 4578999999999999999999998765
No 63
>KOG0338|consensus
Probab=97.15 E-value=0.00023 Score=69.04 Aligned_cols=52 Identities=17% Similarity=0.039 Sum_probs=43.7
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
...|. |.|||...+.-. .-|+.++..|.||||||.+|.+|+|.-|.-.++++
T Consensus 198 ~lGy~~PTpIQ~a~IPva----llgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~ 250 (691)
T KOG0338|consen 198 TLGYKKPTPIQVATIPVA----LLGKDICACAATGSGKTAAFALPILERLLYRPKKV 250 (691)
T ss_pred hcCCCCCCchhhhcccHH----hhcchhhheecccCCchhhhHHHHHHHHhcCcccC
Confidence 46787 999999988753 24899999999999999999999999887666653
No 64
>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=97.13 E-value=0.00045 Score=69.12 Aligned_cols=43 Identities=26% Similarity=0.334 Sum_probs=29.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 28 Py~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
...||++| +|..+. +..| .|++++||+||||++++|++..+..
T Consensus 68 glrpydVQ--lig~l~--l~~G--~Iaem~TGeGKTLta~Lpa~l~aL~ 110 (762)
T TIGR03714 68 GMFPYDVQ--VLGAIV--LHQG--NIAEMKTGEGKTLTATMPLYLNALT 110 (762)
T ss_pred CCCccHHH--HHHHHH--hcCC--ceeEecCCcchHHHHHHHHHHHhhc
Confidence 33455555 445542 3445 6999999999999999997654443
No 65
>KOG0342|consensus
Probab=97.02 E-value=0.00026 Score=67.94 Aligned_cols=50 Identities=22% Similarity=0.276 Sum_probs=41.3
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
..|+ ..++|...+..| -.|+.++.-|-|||||||+||+|++.|+...+..
T Consensus 100 ~GF~~MT~VQ~~ti~pl----l~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~ 150 (543)
T KOG0342|consen 100 MGFETMTPVQQKTIPPL----LEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFK 150 (543)
T ss_pred cCccchhHHHHhhcCcc----CCCccceeeeccCCCceeeehhHHHHHHHhcccC
Confidence 4465 778998876665 3688999999999999999999999999876543
No 66
>PHA02558 uvsW UvsW helicase; Provisional
Probab=97.00 E-value=0.0011 Score=62.35 Aligned_cols=37 Identities=22% Similarity=0.171 Sum_probs=28.4
Q ss_pred CCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHH
Q psy14272 28 PFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 28 Py~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~ 68 (194)
.+.||++|.+.+. .++. +..+|+.+|||+|||+.++.
T Consensus 112 ~~~~r~~Q~~av~---~~l~-~~~~il~apTGsGKT~i~~~ 148 (501)
T PHA02558 112 KIEPHWYQYDAVY---EGLK-NNRRLLNLPTSAGKSLIQYL 148 (501)
T ss_pred cCCCCHHHHHHHH---HHHh-cCceEEEeCCCCCHHHHHHH
Confidence 4689999999554 4444 55689999999999997543
No 67
>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=96.93 E-value=0.00088 Score=60.48 Aligned_cols=34 Identities=26% Similarity=0.438 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhcCC--ceeeeCCCCCCchHHHHHHHHH
Q psy14272 35 QSNFMKNLYYTLDNSK--FGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 35 Q~e~M~~I~~~L~~gk--~~I~ESPTGTGKTLS~L~~al~ 72 (194)
|.+..+.+ .++. ++|+.||||+|||+++++|++.
T Consensus 2 Q~~~~~~~----~~~~~~~~~i~apTGsGKT~~~~~~~l~ 37 (357)
T TIGR03158 2 QVATFEAL----QSKDADIIFNTAPTGAGKTLAWLTPLLH 37 (357)
T ss_pred HHHHHHHH----HcCCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 55544444 4453 5788999999999999998774
No 68
>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=96.92 E-value=0.00091 Score=48.12 Aligned_cols=27 Identities=30% Similarity=0.496 Sum_probs=22.1
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+++++.+|||+|||..++..+...+..
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~ 27 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDS 27 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhc
Confidence 368999999999999988887665543
No 69
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.91 E-value=0.0014 Score=56.11 Aligned_cols=42 Identities=24% Similarity=0.381 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
..|..+|+++. +..++++.+|.|||||+-.+..++..+.+..
T Consensus 7 ~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~ 48 (205)
T PF02562_consen 7 EEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGE 48 (205)
T ss_dssp HHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCC
Confidence 78999999886 6789999999999999999999999887633
No 70
>PHA02653 RNA helicase NPH-II; Provisional
Probab=96.90 E-value=0.0011 Score=65.46 Aligned_cols=44 Identities=16% Similarity=0.190 Sum_probs=33.0
Q ss_pred CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH---------HHHHHHHHHh
Q psy14272 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS---------LICGILKWYY 75 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS---------~L~~al~wl~ 75 (194)
.+.|.+.=..+..++..++++|+.|+||||||.+ |+.|.+.++.
T Consensus 162 ~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~ 214 (675)
T PHA02653 162 ASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLD 214 (675)
T ss_pred CchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhh
Confidence 3455555556666667899999999999999997 5666677664
No 71
>PRK13766 Hef nuclease; Provisional
Probab=96.86 E-value=0.0018 Score=63.43 Aligned_cols=44 Identities=20% Similarity=0.134 Sum_probs=34.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+++||+.|.++...+ +.. .+|+-+|||+|||+.+++++...+.
T Consensus 12 ~~~~~r~yQ~~~~~~~---l~~--n~lv~~ptG~GKT~~a~~~i~~~l~ 55 (773)
T PRK13766 12 NTIEARLYQQLLAATA---LKK--NTLVVLPTGLGKTAIALLVIAERLH 55 (773)
T ss_pred CcCCccHHHHHHHHHH---hcC--CeEEEcCCCccHHHHHHHHHHHHHH
Confidence 4567999999976654 443 7899999999999998888766553
No 72
>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=96.86 E-value=0.00084 Score=59.15 Aligned_cols=25 Identities=28% Similarity=0.329 Sum_probs=21.8
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
++|+.||||+|||++++.+++..+.
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~ 25 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIK 25 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 4789999999999999999887654
No 73
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=96.85 E-value=0.0013 Score=66.17 Aligned_cols=37 Identities=27% Similarity=0.392 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
..+..|.++|.++.++|+.||||||||.+|..++|..
T Consensus 8 ~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~ 44 (812)
T PRK11664 8 AVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQH 44 (812)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHc
Confidence 3456788888899999999999999999999988863
No 74
>KOG0354|consensus
Probab=96.82 E-value=0.0014 Score=65.41 Aligned_cols=46 Identities=20% Similarity=0.268 Sum_probs=40.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
|..|+.|.++.+. +| |++.|+-+|||+|||+....-++.|++-.++
T Consensus 61 ~~lR~YQ~eivq~---AL--gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~ 106 (746)
T KOG0354|consen 61 LELRNYQEELVQP---AL--GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK 106 (746)
T ss_pred ccccHHHHHHhHH---hh--cCCeEEEeecCCCccchHHHHHHHHHhcCCc
Confidence 6699999996554 56 9999999999999999999999999988776
No 75
>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=96.79 E-value=0.0026 Score=63.60 Aligned_cols=45 Identities=22% Similarity=0.287 Sum_probs=34.3
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHH
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al 71 (194)
...+.+.+||.|.+.+.. ++.+| ..+|+..|||+|||+..|..+.
T Consensus 249 ~L~~~~~LRpYQ~eAl~~---~~~~gr~r~GIIvLPtGaGKTlvai~aa~ 295 (732)
T TIGR00603 249 DLKPTTQIRPYQEKSLSK---MFGNGRARSGIIVLPCGAGKSLVGVTAAC 295 (732)
T ss_pred ccccCCCcCHHHHHHHHH---HHhcCCCCCcEEEeCCCCChHHHHHHHHH
Confidence 344557899999995554 45555 4799999999999999876643
No 76
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.78 E-value=0.0017 Score=51.94 Aligned_cols=38 Identities=21% Similarity=0.420 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
+.|.. +|..++....+.++.||.|||||- +|+.++..+
T Consensus 4 ~~Q~~---Ai~~~~~~~~~~~i~GpPGTGKT~-~l~~~i~~~ 41 (236)
T PF13086_consen 4 ESQRE---AIQSALSSNGITLIQGPPGTGKTT-TLASIIAQL 41 (236)
T ss_dssp HHHHH---HHHHHCTSSE-EEEE-STTSSHHH-HHHHHHHHH
T ss_pred HHHHH---HHHHHHcCCCCEEEECCCCCChHH-HHHHHHHHh
Confidence 46777 444455655569999999999994 455556655
No 77
>COG1204 Superfamily II helicase [General function prediction only]
Probab=96.78 E-value=0.0011 Score=66.40 Aligned_cols=45 Identities=22% Similarity=0.336 Sum_probs=38.9
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+-|+.|.. +|+..+..++++|+.+|||+|||+..+++++.-+.++
T Consensus 31 el~~~qq~---av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~ 75 (766)
T COG1204 31 ELFNPQQE---AVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEG 75 (766)
T ss_pred HhhHHHHH---HhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhc
Confidence 57888888 6666667789999999999999999999999888876
No 78
>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=96.77 E-value=0.0013 Score=65.79 Aligned_cols=44 Identities=25% Similarity=0.209 Sum_probs=33.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHH-HHHh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL-KWYY 75 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al-~wl~ 75 (194)
.+.+.||++|.--.-. |..|. |.+++||+|||+++++|++ ..+.
T Consensus 52 ~lg~~p~~vQlig~~~----l~~G~--Iaem~TGeGKTLva~lpa~l~aL~ 96 (745)
T TIGR00963 52 VLGMRPFDVQLIGGIA----LHKGK--IAEMKTGEGKTLTATLPAYLNALT 96 (745)
T ss_pred HhCCCccchHHhhhhh----hcCCc--eeeecCCCccHHHHHHHHHHHHHh
Confidence 4667789999874443 34554 9999999999999999984 4554
No 79
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=96.76 E-value=0.0018 Score=65.19 Aligned_cols=43 Identities=26% Similarity=0.234 Sum_probs=32.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
.+...||++|.--.-. +..|. |.++.||+|||+++++|++...
T Consensus 74 ~~g~~p~~vQl~~~~~----l~~G~--Iaem~TGeGKTL~a~lp~~l~a 116 (790)
T PRK09200 74 VLGMRPYDVQLIGALV----LHEGN--IAEMQTGEGKTLTATMPLYLNA 116 (790)
T ss_pred HhCCCCchHHHHhHHH----HcCCc--eeeecCCCcchHHHHHHHHHHH
Confidence 3566788998764333 34564 9999999999999999987443
No 80
>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=96.71 E-value=0.0022 Score=62.89 Aligned_cols=44 Identities=18% Similarity=0.276 Sum_probs=36.5
Q ss_pred CCHHHHHHHHHHHHHHhc------CCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDN------SKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~------gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
|++.|...++.+...+.+ .+.+|+.+|||||||++.+..+...+
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~ 288 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKAL 288 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHH
Confidence 788999999999999865 35799999999999998776654433
No 81
>KOG0333|consensus
Probab=96.71 E-value=0.001 Score=64.71 Aligned_cols=47 Identities=19% Similarity=0.214 Sum_probs=40.1
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 29 y~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
|. |.|||...+..+ .+.+..|.-+-||+|||++|++|.|.|+...+.
T Consensus 265 y~eptpIqR~aipl~----lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~ 312 (673)
T KOG0333|consen 265 YKEPTPIQRQAIPLG----LQNRDPIGVAETGSGKTAAFLIPLLIWISSLPP 312 (673)
T ss_pred CCCCchHHHhhccch----hccCCeeeEEeccCCccccchhhHHHHHHcCCC
Confidence 65 999999977743 466788889999999999999999999988773
No 82
>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=96.63 E-value=0.0024 Score=64.31 Aligned_cols=38 Identities=24% Similarity=0.297 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
.++..|.++|.++.++|+.||||||||.+|..+++...
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~ 42 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAP 42 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhh
Confidence 35668888889999999999999999999999988654
No 83
>KOG0336|consensus
Probab=96.61 E-value=0.00039 Score=66.29 Aligned_cols=51 Identities=24% Similarity=0.058 Sum_probs=41.4
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
-.|. |.|||-++-..+ -+|..+|.-|.|||||||+||.|.+-.+.......
T Consensus 238 ~GFqKPtPIqSQaWPI~----LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~ 289 (629)
T KOG0336|consen 238 TGFQKPTPIQSQAWPIL----LQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRR 289 (629)
T ss_pred ccCCCCCcchhccccee----ecCcceEEEEecCCCcCHHHhccceeeeeccchhh
Confidence 3565 888888876665 47999999999999999999999988877665543
No 84
>KOG0340|consensus
Probab=96.53 E-value=0.002 Score=60.29 Aligned_cols=48 Identities=19% Similarity=0.167 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
+.|.|+|..-+..|. .|..+|-.|-||||||++|-+|+|.-+..++-.
T Consensus 28 ~~pTpiQ~~cIpkIL----eGrdcig~AkTGsGKT~AFaLPil~rLsedP~g 75 (442)
T KOG0340|consen 28 KKPTPIQQACIPKIL----EGRDCIGCAKTGSGKTAAFALPILNRLSEDPYG 75 (442)
T ss_pred CCCCchHhhhhHHHh----cccccccccccCCCcchhhhHHHHHhhccCCCc
Confidence 459999999888874 799999999999999999999999977766544
No 85
>KOG0343|consensus
Probab=96.45 E-value=0.0011 Score=64.87 Aligned_cols=43 Identities=23% Similarity=0.324 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+..||.+-|... | .|+.+|--|-|||||||+||+|+|..|...
T Consensus 92 ~teiQ~~~Ip~a---L-~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~ 134 (758)
T KOG0343|consen 92 MTEIQRDTIPMA---L-QGHDVLGAAKTGSGKTLAFLVPVLEALYRL 134 (758)
T ss_pred HHHHHHhhcchh---c-cCcccccccccCCCceeeehHHHHHHHHHc
Confidence 678888855543 3 588999999999999999999999866543
No 86
>PRK08181 transposase; Validated
Probab=96.42 E-value=0.011 Score=52.30 Aligned_cols=32 Identities=22% Similarity=0.083 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
+.|..-...+..++..+..++|-+|+|||||.
T Consensus 90 ~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTH 121 (269)
T PRK08181 90 KAQVMAIAAGDSWLAKGANLLLFGPPGGGKSH 121 (269)
T ss_pred HHHHHHHHHHHHHHhcCceEEEEecCCCcHHH
Confidence 45555444444678888999999999999995
No 87
>PF13245 AAA_19: Part of AAA domain
Probab=96.38 E-value=0.0049 Score=44.58 Aligned_cols=34 Identities=26% Similarity=0.399 Sum_probs=25.0
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
.|..++..+...|+.+|.|||||..++--+..++
T Consensus 2 av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 2 AVRRALAGSPLFVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred HHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3555677567788899999999977666655555
No 88
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=96.36 E-value=0.0072 Score=52.29 Aligned_cols=37 Identities=22% Similarity=0.196 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
|-+.|...++.+.+..++..+..+++++|+|||||..
T Consensus 1 ~~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~l 37 (262)
T TIGR02640 1 FIETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTL 37 (262)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHH
Confidence 3456788899999999999999999999999999964
No 89
>PRK10536 hypothetical protein; Provisional
Probab=96.36 E-value=0.0096 Score=53.05 Aligned_cols=44 Identities=14% Similarity=0.203 Sum_probs=33.4
Q ss_pred CCCC-HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 29 FDAY-DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 29 y~py-~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..|+ ..|..++..| .+..++++.+|+|||||+-.++.++..+.+
T Consensus 57 i~p~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~~l~~ 101 (262)
T PRK10536 57 ILARNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAEALIH 101 (262)
T ss_pred ccCCCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 3455 6788877755 557799999999999998877777765543
No 90
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.34 E-value=0.0065 Score=62.77 Aligned_cols=51 Identities=22% Similarity=0.326 Sum_probs=39.7
Q ss_pred CCccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 22 PSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 22 ~~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+....|||++.+.|.+-+. +|+.|..+++.||||+|||+..-.++-.-+++
T Consensus 111 ~~~~~~~F~LD~fQ~~a~~----~Ler~esVlV~ApTssGKTvVaeyAi~~al~~ 161 (1041)
T COG4581 111 PPAREYPFELDPFQQEAIA----ILERGESVLVCAPTSSGKTVVAEYAIALALRD 161 (1041)
T ss_pred cHHHhCCCCcCHHHHHHHH----HHhCCCcEEEEccCCCCcchHHHHHHHHHHHc
Confidence 3345599999999998544 56899999999999999999887774443433
No 91
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=96.15 E-value=0.0046 Score=62.58 Aligned_cols=47 Identities=21% Similarity=0.231 Sum_probs=34.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHH-HHHhhhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGIL-KWYYDHK 78 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al-~wl~~~~ 78 (194)
.....||++|.- -.| +|..| -|.|++||+||||++.+|++ .++...+
T Consensus 77 ~lg~~~~dvQli--g~l--~L~~G--~Iaem~TGeGKTLva~lpa~l~aL~G~~ 124 (830)
T PRK12904 77 VLGMRHFDVQLI--GGM--VLHEG--KIAEMKTGEGKTLVATLPAYLNALTGKG 124 (830)
T ss_pred HhCCCCCccHHH--hhH--HhcCC--chhhhhcCCCcHHHHHHHHHHHHHcCCC
Confidence 356778898865 333 44566 48899999999999999985 6665433
No 92
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.15 E-value=0.004 Score=63.47 Aligned_cols=45 Identities=22% Similarity=0.245 Sum_probs=32.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.....||++|+- -.| +|.+| -|.+++||+||||++++|++..+..
T Consensus 78 ~lg~~~ydvQli--Gg~--~Lh~G--~Iaem~TGeGKTL~a~Lpa~~~al~ 122 (896)
T PRK13104 78 TLGLRHFDVQLI--GGM--VLHEG--NIAEMRTGEGKTLVATLPAYLNAIS 122 (896)
T ss_pred HcCCCcchHHHh--hhh--hhccC--ccccccCCCCchHHHHHHHHHHHhc
Confidence 355668888864 333 24556 4789999999999999999865543
No 93
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=96.04 E-value=0.012 Score=42.73 Aligned_cols=30 Identities=30% Similarity=0.380 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhc--CCceeeeCCCCCCchH
Q psy14272 35 QSNFMKNLYYTLDN--SKFGIFESPTGTGKSL 64 (194)
Q Consensus 35 Q~e~M~~I~~~L~~--gk~~I~ESPTGTGKTL 64 (194)
+...+..|...+.. +.++++-+|+|+|||.
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~ 34 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTT 34 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 45566777777776 7889999999999995
No 94
>KOG0337|consensus
Probab=95.84 E-value=0.0039 Score=59.46 Aligned_cols=47 Identities=17% Similarity=0.227 Sum_probs=41.5
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.|. |.|||..-|..| -++..++--|-||+|||.||++|+++-|..+-
T Consensus 40 g~~~ptpiqRKTipli----Le~~dvv~martgsgktaaf~ipm~e~Lk~~s 87 (529)
T KOG0337|consen 40 GFNTPTPIQRKTIPLI----LEGRDVVGMARTGSGKTAAFLIPMIEKLKSHS 87 (529)
T ss_pred hcCCCCchhcccccce----eeccccceeeecCCcchhhHHHHHHHHHhhcc
Confidence 365 999999988876 47888999999999999999999999998876
No 95
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=95.82 E-value=0.0073 Score=61.65 Aligned_cols=45 Identities=27% Similarity=0.316 Sum_probs=33.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+...||++|+- -.| +|.+| -|.|++||+||||++++|++..+..
T Consensus 78 ~lgm~~ydVQli--Ggl--~L~~G--~IaEm~TGEGKTL~a~lp~~l~al~ 122 (908)
T PRK13107 78 VFEMRHFDVQLL--GGM--VLDSN--RIAEMRTGEGKTLTATLPAYLNALT 122 (908)
T ss_pred HhCCCcCchHHh--cch--HhcCC--ccccccCCCCchHHHHHHHHHHHhc
Confidence 466779999873 333 23455 5789999999999999998765543
No 96
>KOG0352|consensus
Probab=95.82 E-value=0.0085 Score=57.63 Aligned_cols=44 Identities=23% Similarity=0.209 Sum_probs=33.8
Q ss_pred CCCCC--CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFD--AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~--py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|.|. -.+-|.+.+. .++..++.+.+.+|||+||||+|-+|+|-
T Consensus 14 ~FGh~kFKs~LQE~A~~---c~VK~k~DVyVsMPTGaGKSLCyQLPaL~ 59 (641)
T KOG0352|consen 14 LFGHKKFKSRLQEQAIN---CIVKRKCDVYVSMPTGAGKSLCYQLPALV 59 (641)
T ss_pred HhCchhhcChHHHHHHH---HHHhccCcEEEeccCCCchhhhhhchHHH
Confidence 45555 3478888444 44677889999999999999999888764
No 97
>KOG0351|consensus
Probab=95.79 E-value=0.0033 Score=64.32 Aligned_cols=46 Identities=24% Similarity=0.062 Sum_probs=37.6
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..|.+. .||.|.+.+. ++..|+..++..|||.||||+|-+|++-+-
T Consensus 258 ~~Fg~~~FR~~Q~eaI~----~~l~Gkd~fvlmpTG~GKSLCYQlPA~l~~ 304 (941)
T KOG0351|consen 258 EVFGHKGFRPNQLEAIN----ATLSGKDCFVLMPTGGGKSLCYQLPALLLG 304 (941)
T ss_pred HHhccccCChhHHHHHH----HHHcCCceEEEeecCCceeeEeeccccccC
Confidence 347776 8899999555 446899999999999999999999976543
No 98
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=95.69 E-value=0.011 Score=50.54 Aligned_cols=40 Identities=18% Similarity=0.209 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.+...+..++..++.+||-+|||||||-. +...+.++...
T Consensus 115 ~~~~~l~~~v~~~~~ili~G~tGSGKTT~-l~all~~i~~~ 154 (270)
T PF00437_consen 115 EIAEFLRSAVRGRGNILISGPTGSGKTTL-LNALLEEIPPE 154 (270)
T ss_dssp HHHHHHHHCHHTTEEEEEEESTTSSHHHH-HHHHHHHCHTT
T ss_pred HHHHHHhhccccceEEEEECCCccccchH-HHHHhhhcccc
Confidence 33344555567789999999999999954 57777777766
No 99
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.69 E-value=0.02 Score=52.01 Aligned_cols=48 Identities=21% Similarity=0.183 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHHHHh----cCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 31 AYDIQSNFMKNLYYTLD----NSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~----~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
|+.....++..+...++ .+..++|-||||||||.-. +++...+...+.
T Consensus 161 ~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa-~aIa~~l~~~g~ 212 (329)
T PRK06835 161 PRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLS-NCIAKELLDRGK 212 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHH-HHHHHHHHHCCC
Confidence 44444444444443444 4578999999999999843 333444444333
No 100
>KOG0327|consensus
Probab=95.68 E-value=0.0053 Score=57.43 Aligned_cols=47 Identities=21% Similarity=0.355 Sum_probs=39.0
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+.|.|+ |-.||...+..+ + .|.+++..+++|||||.+|+++++.-+.
T Consensus 42 y~yGFekPSaIQqraI~p~---i-~G~dv~~qaqsgTgKt~af~i~iLq~iD 89 (397)
T KOG0327|consen 42 YAYGFEKPSAIQQRAILPC---I-KGHDVIAQAQSGTGKTAAFLISILQQID 89 (397)
T ss_pred HhhccCCchHHHhcccccc---c-cCCceeEeeeccccchhhhHHHHHhhcC
Confidence 458898 999999854443 3 5889999999999999999999988753
No 101
>PHA02244 ATPase-like protein
Probab=95.63 E-value=0.029 Score=52.45 Aligned_cols=40 Identities=8% Similarity=0.012 Sum_probs=30.1
Q ss_pred ccCCCCC--CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 24 EFPFPFD--AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 24 ~~~fPy~--py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
.|.|||. .+..+..++ .+..++..+..+++.+|||||||.
T Consensus 93 ~~d~~~ig~sp~~~~~~~-ri~r~l~~~~PVLL~GppGtGKTt 134 (383)
T PHA02244 93 GIDTTKIASNPTFHYETA-DIAKIVNANIPVFLKGGAGSGKNH 134 (383)
T ss_pred hCCCcccCCCHHHHHHHH-HHHHHHhcCCCEEEECCCCCCHHH
Confidence 4566664 444444544 667899999999999999999995
No 102
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=95.44 E-value=0.015 Score=52.96 Aligned_cols=42 Identities=31% Similarity=0.351 Sum_probs=33.5
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHH-hcC-CceeeeCCCCCCchHH
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTL-DNS-KFGIFESPTGTGKSLS 65 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L-~~g-k~~I~ESPTGTGKTLS 65 (194)
.++|||.-.-+|.+.+..+.-++ ..| .+++|++|.|||||..
T Consensus 2 ~~~~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~l 45 (334)
T PRK13407 2 KKPFPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTA 45 (334)
T ss_pred CCCCCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHH
Confidence 36788887788999999877544 455 7899999999999943
No 103
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=95.43 E-value=0.021 Score=51.81 Aligned_cols=40 Identities=20% Similarity=0.085 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 36 SNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 36 ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..+...+..|+..++.++|-+|||||||- +|-+.+.++-.
T Consensus 147 ~~~~~~L~~~v~~~~nili~G~tgSGKTT-ll~aL~~~ip~ 186 (332)
T PRK13900 147 KKIKEFLEHAVISKKNIIISGGTSTGKTT-FTNAALREIPA 186 (332)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCCCHHH-HHHHHHhhCCC
Confidence 35566777788889999999999999995 44555555544
No 104
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=95.39 E-value=0.025 Score=51.14 Aligned_cols=34 Identities=18% Similarity=0.284 Sum_probs=26.0
Q ss_pred HHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 40 ~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..+..++..++.++|-+|||+||| +++-..+.++
T Consensus 139 ~~L~~~v~~~~~ilI~G~tGSGKT-Tll~aL~~~~ 172 (319)
T PRK13894 139 EAIIAAVRAHRNILVIGGTGSGKT-TLVNAIINEM 172 (319)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHH-HHHHHHHHhh
Confidence 345556778899999999999999 6666655554
No 105
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.38 E-value=0.021 Score=55.09 Aligned_cols=47 Identities=19% Similarity=0.220 Sum_probs=34.2
Q ss_pred CHHHHHHHHHHHHHHhc-CCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 32 YDIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~-gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
.+.|...+..+ +.. .+.++|-+|||||||-+ |.++|.++.....++.
T Consensus 243 ~~~~~~~~~~~---~~~p~GliLvTGPTGSGKTTT-LY~~L~~ln~~~~nI~ 290 (500)
T COG2804 243 SPFQLARLLRL---LNRPQGLILVTGPTGSGKTTT-LYAALSELNTPERNII 290 (500)
T ss_pred CHHHHHHHHHH---HhCCCeEEEEeCCCCCCHHHH-HHHHHHHhcCCCceEE
Confidence 45565544443 333 37889999999999977 7778999988877654
No 106
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=95.37 E-value=0.024 Score=56.25 Aligned_cols=47 Identities=21% Similarity=0.318 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+|+.|...++.+...-..+..++++||||.|||.+.+.+++.-+...
T Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~ 242 (733)
T COG1203 196 GYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEK 242 (733)
T ss_pred hhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcc
Confidence 58888887777655444444999999999999999999988877763
No 107
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=95.37 E-value=0.031 Score=57.66 Aligned_cols=29 Identities=17% Similarity=0.033 Sum_probs=24.4
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.+-|+++||||||++||..++.....++-
T Consensus 61 n~~~~M~TGtGKT~~~~~~i~~l~~~~~~ 89 (986)
T PRK15483 61 NIDIKMETGTGKTYVYTRLMYELHQKYGL 89 (986)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHcCC
Confidence 68899999999999999998777666543
No 108
>KOG0326|consensus
Probab=95.28 E-value=0.0016 Score=60.48 Aligned_cols=51 Identities=20% Similarity=0.152 Sum_probs=42.5
Q ss_pred CCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 26 PFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 26 ~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.-.|+ |-|+|.+-+.... .|+.++.-|-.|||||-||++|+|.-+...+..
T Consensus 102 e~G~ekPSPiQeesIPiaL----tGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~ 153 (459)
T KOG0326|consen 102 EKGFEKPSPIQEESIPIAL----TGRDILARAKNGTGKTAAYCIPVLEKIDPKKNV 153 (459)
T ss_pred HhccCCCCCccccccceee----cchhhhhhccCCCCCccceechhhhhcCccccc
Confidence 34677 8999999776653 689999999999999999999999988766554
No 109
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=95.26 E-value=0.024 Score=57.59 Aligned_cols=47 Identities=17% Similarity=0.142 Sum_probs=38.6
Q ss_pred CCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 30 DAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.||+.|...++.|.+++.+| .-+++-+.||||||.+.+.-+-..++.
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~ 212 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKS 212 (875)
T ss_pred cchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhc
Confidence 39999999999999999987 349999999999999877654443333
No 110
>KOG0347|consensus
Probab=95.21 E-value=0.0056 Score=60.11 Aligned_cols=43 Identities=23% Similarity=0.273 Sum_probs=34.8
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
..|. |.+||.-.+..+ +.....++--|-|||||||+|-+|++.
T Consensus 199 ~gFs~Pt~IQsl~lp~a---i~gk~DIlGaAeTGSGKTLAFGIPiv~ 242 (731)
T KOG0347|consen 199 LGFSRPTEIQSLVLPAA---IRGKVDILGAAETGSGKTLAFGIPIVE 242 (731)
T ss_pred cCCCCCccchhhcccHh---hccchhcccccccCCCceeeecchhhh
Confidence 4576 999999866665 333367888999999999999999988
No 111
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=95.12 E-value=0.035 Score=49.51 Aligned_cols=38 Identities=21% Similarity=0.081 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+...+..++..++.++|-+|||+|||- ++-+.+..+..
T Consensus 121 ~~~~L~~~v~~~~~ilI~G~tGSGKTT-ll~al~~~i~~ 158 (299)
T TIGR02782 121 QRDVLREAVLARKNILVVGGTGSGKTT-LANALLAEIAK 158 (299)
T ss_pred HHHHHHHHHHcCCeEEEECCCCCCHHH-HHHHHHHHhhc
Confidence 344566677888999999999999994 34555555543
No 112
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=95.04 E-value=0.038 Score=50.27 Aligned_cols=34 Identities=18% Similarity=0.220 Sum_probs=25.6
Q ss_pred HHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 40 ~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..|..++..++.+||-+|||||||- +|-+.+..+
T Consensus 135 ~~L~~~v~~~~nilI~G~tGSGKTT-ll~aL~~~i 168 (323)
T PRK13833 135 SVIRSAIDSRLNIVISGGTGSGKTT-LANAVIAEI 168 (323)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHH-HHHHHHHHH
Confidence 4566778888999999999999994 345555554
No 113
>PRK06526 transposase; Provisional
Probab=95.01 E-value=0.051 Score=47.46 Aligned_cols=37 Identities=19% Similarity=0.108 Sum_probs=25.0
Q ss_pred HHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 44 YTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 44 ~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
+++..+..++|-+|+|||||... +++..++...+..+
T Consensus 93 ~fi~~~~nlll~Gp~GtGKThLa-~al~~~a~~~g~~v 129 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTHLA-IGLGIRACQAGHRV 129 (254)
T ss_pred chhhcCceEEEEeCCCCchHHHH-HHHHHHHHHCCCch
Confidence 45677889999999999999643 33334444444443
No 114
>KOG0952|consensus
Probab=94.97 E-value=0.025 Score=58.77 Aligned_cols=49 Identities=27% Similarity=0.322 Sum_probs=39.3
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-.|+|. .-.+|-.....+| ..+.+.|+.||||+|||..+++.+|.-+..
T Consensus 104 ~~f~f~~fN~iQS~vFp~aY---~SneNMLIcAPTGsGKT~la~L~ILr~ik~ 153 (1230)
T KOG0952|consen 104 GFFSFEEFNRIQSEVFPVAY---KSNENMLICAPTGSGKTVLAELCILRTIKE 153 (1230)
T ss_pred hcccHHHHHHHHHHhhhhhh---cCCCCEEEECCCCCCchHHHHHHHHHHHHh
Confidence 357776 4478888666655 667889999999999999999888888775
No 115
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=94.89 E-value=0.035 Score=45.77 Aligned_cols=37 Identities=24% Similarity=0.281 Sum_probs=20.2
Q ss_pred HHHHHHHHHHH--HHHhcCCceeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLY--YTLDNSKFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~--~~L~~gk~~I~ESPTGTGKTLS~L~~ 69 (194)
.++...+..+. .+++++..++|-+|+|||||.-..+-
T Consensus 29 ~~~~~~~~~l~~~~~~~~~~~l~l~G~~G~GKThLa~ai 67 (178)
T PF01695_consen 29 GIDKAQIAQLAALEFIENGENLILYGPPGTGKTHLAVAI 67 (178)
T ss_dssp -----HHHHHHHH-S-SC--EEEEEESTTSSHHHHHHHH
T ss_pred hHHHHHHHHHhcCCCcccCeEEEEEhhHhHHHHHHHHHH
Confidence 44444454443 44567788999999999999754433
No 116
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=94.88 E-value=0.03 Score=51.22 Aligned_cols=38 Identities=16% Similarity=0.133 Sum_probs=28.0
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
++...+..|+..++.++|-+|||||||- ++-+++.++.
T Consensus 150 ~~~~~l~~~v~~~~nilI~G~tGSGKTT-ll~aLl~~i~ 187 (344)
T PRK13851 150 DLEAFLHACVVGRLTMLLCGPTGSGKTT-MSKTLISAIP 187 (344)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCccHHH-HHHHHHcccC
Confidence 3556677778889999999999999994 3444444443
No 117
>KOG0328|consensus
Probab=94.83 E-value=0.0052 Score=56.44 Aligned_cols=51 Identities=18% Similarity=0.286 Sum_probs=42.6
Q ss_pred cCCCCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 25 FPFPFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 25 ~~fPy~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
+.+.|+ |-.||...+..|. .|..+|..|..|||||.+|-|++|.-+.-..+
T Consensus 43 Y~yGfekPS~IQqrAi~~Il----kGrdViaQaqSGTGKTa~~si~vlq~~d~~~r 94 (400)
T KOG0328|consen 43 YAYGFEKPSAIQQRAIPQIL----KGRDVIAQAQSGTGKTATFSISVLQSLDISVR 94 (400)
T ss_pred HHhccCCchHHHhhhhhhhh----cccceEEEecCCCCceEEEEeeeeeecccccc
Confidence 357888 9999999777764 78999999999999999999998886654443
No 118
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=94.80 E-value=0.036 Score=56.11 Aligned_cols=45 Identities=22% Similarity=0.265 Sum_probs=33.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+.+.||++|.-= .| +|..|. |.|..||.||||...+|++.....
T Consensus 76 ~~g~~~~dvQlig--~l--~l~~G~--iaEm~TGEGKTLvA~l~a~l~al~ 120 (796)
T PRK12906 76 VLGLRPFDVQIIG--GI--VLHEGN--IAEMKTGEGKTLTATLPVYLNALT 120 (796)
T ss_pred HhCCCCchhHHHH--HH--HHhcCC--cccccCCCCCcHHHHHHHHHHHHc
Confidence 4667799998753 33 355665 899999999999998886654443
No 119
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.77 E-value=0.04 Score=47.76 Aligned_cols=34 Identities=21% Similarity=0.386 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHhcCC--ceeeeCCCCCCchHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK--FGIFESPTGTGKSLSLI 67 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk--~~I~ESPTGTGKTLS~L 67 (194)
+|......+..++..+. +++|.+|+|||||....
T Consensus 19 g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 19 GQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHH
Confidence 56677778888888876 89999999999996543
No 120
>PRK09183 transposase/IS protein; Provisional
Probab=94.75 E-value=0.056 Score=47.08 Aligned_cols=40 Identities=20% Similarity=0.371 Sum_probs=25.4
Q ss_pred cCCCCCCC--HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 25 FPFPFDAY--DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 25 ~~fPy~py--~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
|.|.|.|. ..|..-+..+ .++..+.+++|-+|+|||||.-
T Consensus 77 fd~~~~~~~~~~~i~~L~~~-~~i~~~~~v~l~Gp~GtGKThL 118 (259)
T PRK09183 77 YDFTFATGAPQKQLQSLRSL-SFIERNENIVLLGPSGVGKTHL 118 (259)
T ss_pred cccccCCCCCHHHHHHHhcC-CchhcCCeEEEEeCCCCCHHHH
Confidence 44555443 3333322222 2378889999999999999953
No 121
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.71 E-value=0.058 Score=44.79 Aligned_cols=44 Identities=16% Similarity=0.301 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 33 DIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
+.|.+++..+ +.++ .+.++.+|.|||||.+ |..+...+...+.+
T Consensus 4 ~~Q~~a~~~~---l~~~~~~~~l~G~aGtGKT~~-l~~~~~~~~~~g~~ 48 (196)
T PF13604_consen 4 EEQREAVRAI---LTSGDRVSVLQGPAGTGKTTL-LKALAEALEAAGKR 48 (196)
T ss_dssp HHHHHHHHHH---HHCTCSEEEEEESTTSTHHHH-HHHHHHHHHHTT--
T ss_pred HHHHHHHHHH---HhcCCeEEEEEECCCCCHHHH-HHHHHHHHHhCCCe
Confidence 6799977776 3444 6899999999999975 45555555554443
No 122
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=94.65 E-value=0.03 Score=39.91 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=16.5
Q ss_pred CCceeeeCCCCCCchHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~ 69 (194)
+.+++|-+|+|||||..+..-
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l 22 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARAL 22 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHH
Confidence 467899999999999754433
No 123
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.56 E-value=0.029 Score=49.81 Aligned_cols=43 Identities=19% Similarity=0.227 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+-++.+.+..+..++..|+++++++|+|+|||. |.-.++...
T Consensus 25 ~~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~--la~~lA~~l 67 (329)
T COG0714 25 VVVGDEEVIELALLALLAGGHVLLEGPPGVGKTL--LARALARAL 67 (329)
T ss_pred eeeccHHHHHHHHHHHHcCCCEEEECCCCccHHH--HHHHHHHHh
Confidence 3445889999999999999999999999999996 444444333
No 124
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=94.44 E-value=0.02 Score=61.18 Aligned_cols=23 Identities=30% Similarity=0.498 Sum_probs=20.1
Q ss_pred eeCCCCCCchHHHHHHHHHHHhh
Q psy14272 54 FESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 54 ~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.||||||||++|++|+|..+..
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~ 23 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFR 23 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHh
Confidence 46899999999999999987754
No 125
>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=94.42 E-value=0.048 Score=45.88 Aligned_cols=39 Identities=21% Similarity=0.332 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.|..++.. ..+.+++.|+.|||||.+++.-++..+...
T Consensus 3 ~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~ 41 (315)
T PF00580_consen 3 DEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERIAYLLYEG 41 (315)
T ss_dssp HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHHHHhhccc
Confidence 567765544 367899999999999998877755545443
No 126
>KOG0353|consensus
Probab=94.35 E-value=0.03 Score=53.47 Aligned_cols=38 Identities=24% Similarity=0.154 Sum_probs=31.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.||.|+..++.+ ..|+.+++-.|||-||||+|-+|+|.
T Consensus 95 frplq~~ain~~----ma~ed~~lil~tgggkslcyqlpal~ 132 (695)
T KOG0353|consen 95 FRPLQLAAINAT----MAGEDAFLILPTGGGKSLCYQLPALC 132 (695)
T ss_pred cChhHHHHhhhh----hccCceEEEEeCCCccchhhhhhHHh
Confidence 678888766554 57888999999999999999888775
No 127
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.10 E-value=0.06 Score=49.71 Aligned_cols=54 Identities=17% Similarity=0.247 Sum_probs=37.0
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhc-CCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~-gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
.|.+ |.-.|+.+=..+.+.++. .+.+++-+|||||||-+ |.+++.|+..+....
T Consensus 101 Ip~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTT-lAamId~iN~~~~~H 156 (353)
T COG2805 101 IPSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTT-LAAMIDYINKHKAKH 156 (353)
T ss_pred cCccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHH-HHHHHHHHhccCCcc
Confidence 5655 555566554455554443 36788999999999976 677788988776553
No 128
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=93.91 E-value=0.078 Score=46.36 Aligned_cols=35 Identities=20% Similarity=0.286 Sum_probs=24.2
Q ss_pred HHHHHh-cCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 42 LYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 42 I~~~L~-~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+..++. .++.++|-+|||+|||-. |.+++.++...
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~-l~all~~i~~~ 107 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTT-LYSALSELNTP 107 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHH-HHHHHhhhCCC
Confidence 344454 346899999999999954 45566666543
No 129
>PRK13531 regulatory ATPase RavA; Provisional
Probab=93.88 E-value=0.047 Score=52.66 Aligned_cols=34 Identities=18% Similarity=0.108 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
-+|.+.++.+..++..+.+++|++|+|||||+..
T Consensus 23 ~gre~vI~lll~aalag~hVLL~GpPGTGKT~LA 56 (498)
T PRK13531 23 YERSHAIRLCLLAALSGESVFLLGPPGIAKSLIA 56 (498)
T ss_pred cCcHHHHHHHHHHHccCCCEEEECCCChhHHHHH
Confidence 4677888889999999999999999999999743
No 130
>PRK08939 primosomal protein DnaI; Reviewed
Probab=93.82 E-value=0.14 Score=45.95 Aligned_cols=44 Identities=16% Similarity=0.033 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHh------cCCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 34 IQSNFMKNLYYTLD------NSKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 34 iQ~e~M~~I~~~L~------~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.+..++..+...+. .++.++|-||+|||||.- ++++...+...+
T Consensus 135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThL-a~Aia~~l~~~g 184 (306)
T PRK08939 135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYL-LAAIANELAKKG 184 (306)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHH-HHHHHHHHHHcC
Confidence 56666666666665 345788999999999963 333334444333
No 131
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=93.81 E-value=0.077 Score=43.31 Aligned_cols=30 Identities=23% Similarity=0.377 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
+.|.+ .+..++..+..++|-+|||+|||-.
T Consensus 12 ~~~~~---~l~~~v~~g~~i~I~G~tGSGKTTl 41 (186)
T cd01130 12 PLQAA---YLWLAVEARKNILISGGTGSGKTTL 41 (186)
T ss_pred HHHHH---HHHHHHhCCCEEEEECCCCCCHHHH
Confidence 44555 4445678899999999999999953
No 132
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.62 E-value=0.17 Score=44.19 Aligned_cols=30 Identities=20% Similarity=0.257 Sum_probs=22.8
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchHHHH
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L 67 (194)
-...+..++.+++.++|-+|+|||||.-+.
T Consensus 94 ~~~~~~~~~~~~~nl~l~G~~G~GKThLa~ 123 (254)
T COG1484 94 DLASLVEFFERGENLVLLGPPGVGKTHLAI 123 (254)
T ss_pred HHHHHHHHhccCCcEEEECCCCCcHHHHHH
Confidence 333445677788999999999999997433
No 133
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=93.61 E-value=0.077 Score=41.48 Aligned_cols=35 Identities=11% Similarity=0.216 Sum_probs=17.6
Q ss_pred CCHHHHHHHHHHHHHH--hcCCceeeeCCCCCCchHH
Q psy14272 31 AYDIQSNFMKNLYYTL--DNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L--~~gk~~I~ESPTGTGKTLS 65 (194)
=|..|.+.+..+..+. ..+.++++.||.|+|||.-
T Consensus 4 gR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~l 40 (185)
T PF13191_consen 4 GREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSL 40 (185)
T ss_dssp T-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHH
T ss_pred CHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHH
Confidence 3556666444443322 2347899999999999953
No 134
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=93.57 E-value=0.14 Score=50.36 Aligned_cols=42 Identities=21% Similarity=0.328 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.-+.|.. +|..++....+.++.+|+|||||-.+..-+..++.
T Consensus 158 ln~~Q~~---Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~ 199 (637)
T TIGR00376 158 LNESQKE---AVSFALSSKDLFLIHGPPGTGKTRTLVELIRQLVK 199 (637)
T ss_pred CCHHHHH---HHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 4578888 55556776688999999999999765554444443
No 135
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=93.56 E-value=0.086 Score=48.36 Aligned_cols=33 Identities=18% Similarity=0.290 Sum_probs=23.8
Q ss_pred HHHHHh-cCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 42 LYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 42 I~~~L~-~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+.+.+. .++.++|-+|||||||-. |.+++.++.
T Consensus 126 ~~~~~~~~~glilI~GpTGSGKTTt-L~aLl~~i~ 159 (358)
T TIGR02524 126 IIDAIAPQEGIVFITGATGSGKSTL-LAAIIRELA 159 (358)
T ss_pred HHHHHhccCCEEEEECCCCCCHHHH-HHHHHHHHh
Confidence 344443 678999999999999965 455566664
No 136
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=93.55 E-value=0.1 Score=52.65 Aligned_cols=45 Identities=20% Similarity=0.264 Sum_probs=35.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+.+.||++|.-=|-.+. .| -|.|..||.||||...+|++..+..
T Consensus 74 ~lg~r~ydvQlig~l~Ll----~G--~VaEM~TGEGKTLvA~l~a~l~AL~ 118 (764)
T PRK12326 74 TLGLRPFDVQLLGALRLL----AG--DVIEMATGEGKTLAGAIAAAGYALQ 118 (764)
T ss_pred HcCCCcchHHHHHHHHHh----CC--CcccccCCCCHHHHHHHHHHHHHHc
Confidence 466789999998776653 55 4779999999999999987765543
No 137
>KOG1803|consensus
Probab=93.52 E-value=0.096 Score=51.81 Aligned_cols=53 Identities=23% Similarity=0.252 Sum_probs=37.2
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.-+||..--+.|.+ ++.-++......++.+|.|||||.++.--+.+.+. .+++
T Consensus 179 ~~~~~~~ln~SQk~---Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~qlvk-~~k~ 231 (649)
T KOG1803|consen 179 ITFFNKNLNSSQKA---AVSFAINNKDLLIIHGPPGTGKTRTLVEIISQLVK-QKKR 231 (649)
T ss_pred cccCCccccHHHHH---HHHHHhccCCceEeeCCCCCCceeeHHHHHHHHHH-cCCe
Confidence 34677777788988 44445566688999999999999986655444444 3344
No 138
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=93.40 E-value=0.079 Score=54.38 Aligned_cols=43 Identities=26% Similarity=0.280 Sum_probs=30.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
....||++|+- -.| +|.+| -|.|+.||.||||+..+|++..+.
T Consensus 79 lGm~~ydVQli--Gg~--~Lh~G--~iaEM~TGEGKTLvA~l~a~l~al 121 (913)
T PRK13103 79 MGMRHFDVQLI--GGM--TLHEG--KIAEMRTGEGKTLVGTLAVYLNAL 121 (913)
T ss_pred hCCCcchhHHH--hhh--HhccC--ccccccCCCCChHHHHHHHHHHHH
Confidence 35668898874 333 24455 578999999999999988765433
No 139
>PLN03025 replication factor C subunit; Provisional
Probab=93.28 E-value=0.11 Score=45.99 Aligned_cols=35 Identities=23% Similarity=0.321 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~ 68 (194)
+|.+.+..|...+..+ .+++|.||.|||||-...+
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~ 53 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILA 53 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHH
Confidence 5667777777777765 5689999999999955443
No 140
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.25 E-value=0.13 Score=46.27 Aligned_cols=38 Identities=21% Similarity=0.280 Sum_probs=29.2
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.|.-++.+++.++.+|+.+|||||||- +|.+++..+-.
T Consensus 132 ~~ayL~~~ie~~~siii~G~t~sGKTt-~lnall~~Ip~ 169 (312)
T COG0630 132 QAAYLWLAIEARKSIIICGGTASGKTT-LLNALLDFIPP 169 (312)
T ss_pred HHHHHHHHHHcCCcEEEECCCCCCHHH-HHHHHHHhCCc
Confidence 344588899999999999999999994 45555555443
No 141
>KOG0989|consensus
Probab=93.13 E-value=0.13 Score=47.50 Aligned_cols=41 Identities=22% Similarity=0.192 Sum_probs=33.0
Q ss_pred CHHHHHHHHHHHHHHhc--CCceeeeCCCCCCchHHHHHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~--gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
--+|....+.+..++.. .-+.+|-+|.|||||-+.++.+-+
T Consensus 38 ~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~ 80 (346)
T KOG0989|consen 38 LAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARA 80 (346)
T ss_pred hcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHH
Confidence 35788888888888876 368999999999999887766433
No 142
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=93.03 E-value=0.16 Score=53.92 Aligned_cols=31 Identities=16% Similarity=0.244 Sum_probs=24.7
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
.|..+|.++.++|+.|+||||||. .+|.+.+
T Consensus 81 ~Il~ai~~~~VviI~GeTGSGKTT--qlPq~ll 111 (1294)
T PRK11131 81 DILEAIRDHQVVIVAGETGSGKTT--QLPKICL 111 (1294)
T ss_pred HHHHHHHhCCeEEEECCCCCCHHH--HHHHHHH
Confidence 566667888999999999999998 4674443
No 143
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=92.94 E-value=0.15 Score=44.95 Aligned_cols=35 Identities=23% Similarity=0.215 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
|...-..+.--+--.+.++..+++-||||||||..
T Consensus 15 pT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~l 49 (272)
T PF12775_consen 15 PTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSL 49 (272)
T ss_dssp --HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHH
T ss_pred CcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHH
Confidence 66554555445555678899999999999999974
No 144
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=92.90 E-value=0.17 Score=46.20 Aligned_cols=40 Identities=28% Similarity=0.284 Sum_probs=33.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhc--CCceeeeCCCCCCchHHH
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~--gk~~I~ESPTGTGKTLS~ 66 (194)
|||.---+|..+..++.-++-+ ...+++.+|+|+|||..+
T Consensus 1 ~pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 7898778999999998777655 467899999999999643
No 145
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=92.90 E-value=0.084 Score=46.25 Aligned_cols=55 Identities=15% Similarity=0.138 Sum_probs=44.5
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
|...+-.|+.|.++...+.+. ..|+..|.+.-.|-||| |.|+|++.++.+.+.++
T Consensus 18 ~e~~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKT-sVI~Pmla~~LAdg~~L 72 (229)
T PF12340_consen 18 IESNILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKT-SVIVPMLALALADGSRL 72 (229)
T ss_pred HHcCceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCcc-chHHHHHHHHHcCCCcE
Confidence 334455999999999888753 46788999999999999 46899999988887663
No 146
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=92.90 E-value=0.11 Score=49.50 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=25.0
Q ss_pred HHHHHHhc-CCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 41 NLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 41 ~I~~~L~~-gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.+..++.. ++.++|-+|||||||-++ .++|..+.....
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL-~a~L~~l~~~~~ 271 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTL-YAALSRLNTPER 271 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHH-HHHHhccCCCCC
Confidence 33344443 457899999999999764 555776654433
No 147
>PRK10436 hypothetical protein; Provisional
Probab=92.86 E-value=0.13 Score=48.83 Aligned_cols=33 Identities=24% Similarity=0.339 Sum_probs=25.5
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
.++.++|-+|||||||-++ .++|.++.....++
T Consensus 217 ~~GliLvtGpTGSGKTTtL-~a~l~~~~~~~~~i 249 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTL-YSALQTLNTAQINI 249 (462)
T ss_pred cCCeEEEECCCCCChHHHH-HHHHHhhCCCCCEE
Confidence 4678999999999999764 66788876555444
No 148
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.83 E-value=0.18 Score=46.41 Aligned_cols=40 Identities=20% Similarity=0.197 Sum_probs=27.8
Q ss_pred CCCCHHHHHHHHHHHHHHhcC---CceeeeCCCCCCchHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~ 68 (194)
+.-|..|.+-+..++..+-.| .++++-+|||||||.+.-.
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~ 61 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKF 61 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHH
Confidence 447888887555554444333 4589999999999987543
No 149
>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=92.79 E-value=0.18 Score=53.63 Aligned_cols=32 Identities=16% Similarity=0.233 Sum_probs=26.0
Q ss_pred HHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 40 KNLYYTLDNSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 40 ~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
..|..+|.++.++|+.||||+|||- .+|.+.+
T Consensus 73 ~~Il~~l~~~~vvii~g~TGSGKTT--qlPq~ll 104 (1283)
T TIGR01967 73 EDIAEAIAENQVVIIAGETGSGKTT--QLPKICL 104 (1283)
T ss_pred HHHHHHHHhCceEEEeCCCCCCcHH--HHHHHHH
Confidence 5677778889999999999999997 4575544
No 150
>COG4889 Predicted helicase [General function prediction only]
Probab=92.75 E-value=0.11 Score=54.11 Aligned_cols=45 Identities=16% Similarity=0.167 Sum_probs=36.5
Q ss_pred CccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHH
Q psy14272 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 23 ~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L 67 (194)
....-|++|||.|.+.+++..+.+..+.-+=+-+..|||||++.|
T Consensus 154 l~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsL 198 (1518)
T COG4889 154 LPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSL 198 (1518)
T ss_pred cccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHH
Confidence 334558899999999999999888776666667789999998754
No 151
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=92.68 E-value=0.14 Score=47.47 Aligned_cols=42 Identities=24% Similarity=0.324 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHh-cCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 34 IQSNFMKNLYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 34 iQ~e~M~~I~~~L~-~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.|.-+...+.+.+. .++.+++-+|||||||-. |.+++.++..
T Consensus 133 ~~lgl~~~~~~~l~~~~GlilI~G~TGSGKTT~-l~al~~~i~~ 175 (372)
T TIGR02525 133 KQMGIEPDLFNSLLPAAGLGLICGETGSGKSTL-AASIYQHCGE 175 (372)
T ss_pred HHcCCCHHHHHHHHhcCCEEEEECCCCCCHHHH-HHHHHHHHHh
Confidence 34444444444443 456789999999999965 4556677653
No 152
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=92.60 E-value=0.17 Score=43.41 Aligned_cols=36 Identities=22% Similarity=0.344 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~ 68 (194)
-+|.+.+..+..++..+ .+++|.||+|||||...-+
T Consensus 20 ~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~ 57 (319)
T PRK00440 20 VGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALA 57 (319)
T ss_pred cCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHH
Confidence 36778888898888876 3589999999999976533
No 153
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=92.55 E-value=0.096 Score=48.23 Aligned_cols=43 Identities=26% Similarity=0.231 Sum_probs=35.5
Q ss_pred CccCCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 23 SEFPFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 23 ~~~~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
....|||.---+|.++..++..++.+. ..++|.+|+|||||..
T Consensus 10 ~~~~~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ 54 (350)
T CHL00081 10 ERPVFPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTT 54 (350)
T ss_pred cCCCCCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHH
Confidence 356899997789999999999888663 3478999999999953
No 154
>PRK08116 hypothetical protein; Validated
Probab=92.54 E-value=0.3 Score=42.76 Aligned_cols=46 Identities=13% Similarity=-0.034 Sum_probs=27.1
Q ss_pred CCHHHHHHHHHHHHHHhc-------CCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDN-------SKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~-------gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.+.+...+..+...+.+ +..++|-||+|||||.- ++++...+...
T Consensus 89 ~~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThL-a~aia~~l~~~ 141 (268)
T PRK08116 89 FDKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYL-AACIANELIEK 141 (268)
T ss_pred CChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH-HHHHHHHHHHc
Confidence 446666555554433331 23488999999999963 33344455443
No 155
>KOG0339|consensus
Probab=92.49 E-value=0.043 Score=53.81 Aligned_cols=48 Identities=19% Similarity=0.227 Sum_probs=37.8
Q ss_pred CC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 29 FD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 29 y~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
|. |||||-+.+... -.|..+|--|-||+|||-+|+.|.+..+.+.+.-
T Consensus 243 y~kptpiq~qalpta----lsgrdvigIAktgSgktaAfi~pm~~himdq~eL 291 (731)
T KOG0339|consen 243 YEKPTPIQCQALPTA----LSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPEL 291 (731)
T ss_pred cccCCcccccccccc----cccccchheeeccCcchhHHHHHHHHHhcchhhh
Confidence 44 788887755543 3577888899999999999999999988876543
No 156
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=92.49 E-value=0.2 Score=40.95 Aligned_cols=33 Identities=18% Similarity=0.212 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhc--CCceeeeCCCCCCchHH
Q psy14272 33 DIQSNFMKNLYYTLDN--SKFGIFESPTGTGKSLS 65 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~--gk~~I~ESPTGTGKTLS 65 (194)
+.+...+..+..++.. +..++|.||+|||||..
T Consensus 20 ~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~l 54 (226)
T TIGR03420 20 GGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHL 54 (226)
T ss_pred CCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 3567777787776543 46799999999999954
No 157
>PRK07952 DNA replication protein DnaC; Validated
Probab=92.44 E-value=0.37 Score=42.07 Aligned_cols=44 Identities=20% Similarity=0.144 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHhc---C-CceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 33 DIQSNFMKNLYYTLDN---S-KFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~---g-k~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.|...+..+...+.+ + ..++|-+|+|||||.- ++++..++...
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThL-a~aia~~l~~~ 126 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHL-AAAICNELLLR 126 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH-HHHHHHHHHhc
Confidence 4676666666555542 2 4689999999999964 44445555443
No 158
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=92.23 E-value=0.14 Score=50.52 Aligned_cols=43 Identities=23% Similarity=0.387 Sum_probs=37.8
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHH
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~ 66 (194)
..+-||.|-.-|-+.+..|.+.|.+| +.-++-+.||||||++.
T Consensus 6 ~l~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~ 49 (663)
T COG0556 6 KLHSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTM 49 (663)
T ss_pred EeccCCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHH
Confidence 45678999999999999999999987 67888999999999873
No 159
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=92.22 E-value=0.15 Score=49.58 Aligned_cols=46 Identities=20% Similarity=0.062 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
++||..|..+... +|.. +.++-.|||-|||+..+.-+..+++.++.
T Consensus 14 ie~R~YQ~~i~a~---al~~--NtLvvlPTGLGKT~IA~~V~~~~l~~~~~ 59 (542)
T COG1111 14 IEPRLYQLNIAAK---ALFK--NTLVVLPTGLGKTFIAAMVIANRLRWFGG 59 (542)
T ss_pred ccHHHHHHHHHHH---Hhhc--CeEEEecCCccHHHHHHHHHHHHHHhcCC
Confidence 5699999986554 4553 68888899999999888887888888777
No 160
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=92.22 E-value=0.18 Score=48.80 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHh-cCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 33 DIQSNFMKNLYYTLD-NSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~-~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
+.|.+. +..++. ..+.++|-+|||||||-+ |.+++.++.....+
T Consensus 302 ~~~~~~---l~~~~~~~~Glilv~G~tGSGKTTt-l~a~l~~~~~~~~~ 346 (564)
T TIGR02538 302 PDQKAL---FLEAIHKPQGMVLVTGPTGSGKTVS-LYTALNILNTEEVN 346 (564)
T ss_pred HHHHHH---HHHHHHhcCCeEEEECCCCCCHHHH-HHHHHHhhCCCCce
Confidence 444443 333344 457889999999999976 46778877543333
No 161
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=92.19 E-value=0.12 Score=52.79 Aligned_cols=27 Identities=19% Similarity=0.374 Sum_probs=22.8
Q ss_pred HHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 39 MKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 39 M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
...|.+++.+..++||.+|||+|||-.
T Consensus 55 ~~~i~~ai~~~~vvii~getGsGKTTq 81 (845)
T COG1643 55 RDEILKAIEQNQVVIIVGETGSGKTTQ 81 (845)
T ss_pred HHHHHHHHHhCCEEEEeCCCCCChHHH
Confidence 346667778999999999999999964
No 162
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=92.17 E-value=0.21 Score=40.27 Aligned_cols=31 Identities=29% Similarity=0.294 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHhcC---Ccee--eeCCCCCCchHH
Q psy14272 35 QSNFMKNLYYTLDNS---KFGI--FESPTGTGKSLS 65 (194)
Q Consensus 35 Q~e~M~~I~~~L~~g---k~~I--~ESPTGTGKTLS 65 (194)
+..++++|...+.+. |.+| |-+|||||||+.
T Consensus 34 ~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v 69 (127)
T PF06309_consen 34 VEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFV 69 (127)
T ss_pred HHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHH
Confidence 334556666666543 4444 899999999964
No 163
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.11 E-value=0.19 Score=46.08 Aligned_cols=41 Identities=20% Similarity=0.266 Sum_probs=32.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
|.-.-+|...+..+..++.+|.+ .||.+|.|+|||....+-
T Consensus 15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~ 58 (397)
T PRK14955 15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVF 58 (397)
T ss_pred HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHH
Confidence 44344799999999999998743 789999999999665443
No 164
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=91.99 E-value=0.083 Score=39.29 Aligned_cols=18 Identities=22% Similarity=0.534 Sum_probs=12.0
Q ss_pred cCCceeeeCCCCCCchHH
Q psy14272 48 NSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS 65 (194)
+++.+++.||+|+|||..
T Consensus 3 ~~~~~~i~G~~G~GKT~~ 20 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTL 20 (131)
T ss_dssp ----EEEEE-TTSSHHHH
T ss_pred CCcccEEEcCCCCCHHHH
Confidence 467899999999999965
No 165
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=91.92 E-value=0.28 Score=41.19 Aligned_cols=36 Identities=22% Similarity=0.299 Sum_probs=26.9
Q ss_pred CCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~ 66 (194)
+-+.+...+..+...+..+ ..+++-+|+|+|||..+
T Consensus 24 ~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 24 PSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHH
Confidence 3456667777777777665 47899999999999643
No 166
>PRK12377 putative replication protein; Provisional
Probab=91.81 E-value=0.55 Score=41.09 Aligned_cols=46 Identities=17% Similarity=0.052 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHH---hc-CCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 33 DIQSNFMKNLYYTL---DN-SKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L---~~-gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
+.|...+..+...+ .. ...++|-+|+|||||.- ++++...+...+.
T Consensus 81 ~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThL-a~AIa~~l~~~g~ 130 (248)
T PRK12377 81 DGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHL-AAAIGNRLLAKGR 130 (248)
T ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHH-HHHHHHHHHHcCC
Confidence 56765555444333 22 35789999999999963 3333445544433
No 167
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=91.78 E-value=0.27 Score=43.69 Aligned_cols=44 Identities=23% Similarity=0.194 Sum_probs=29.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+.+.||++|.--.-. |..|. |.|..||=||||+..+|++....
T Consensus 73 ~~g~~p~~vQll~~l~----L~~G~--laEm~TGEGKTli~~l~a~~~AL 116 (266)
T PF07517_consen 73 TLGLRPYDVQLLGALA----LHKGR--LAEMKTGEGKTLIAALPAALNAL 116 (266)
T ss_dssp HTS----HHHHHHHHH----HHTTS--EEEESTTSHHHHHHHHHHHHHHT
T ss_pred HcCCcccHHHHhhhhh----cccce--eEEecCCCCcHHHHHHHHHHHHH
Confidence 4678899999874433 34554 89999999999998888665444
No 168
>KOG0341|consensus
Probab=91.69 E-value=0.026 Score=53.93 Aligned_cols=47 Identities=17% Similarity=0.204 Sum_probs=37.8
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.|.|||.+=+..| -.|...|--|-|||||||.|.+|++-+.......
T Consensus 192 ~PTpIQvQGlPvv----LsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~ 238 (610)
T KOG0341|consen 192 HPTPIQVQGLPVV----LSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMM 238 (610)
T ss_pred CCCceeecCcceE----eecCceeeEEeecCCceEEEeHHHHHHHHHHHhc
Confidence 3888998866665 3688889999999999999999988877655433
No 169
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=91.67 E-value=0.13 Score=40.41 Aligned_cols=27 Identities=22% Similarity=0.463 Sum_probs=20.2
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.++.||-||+|+|||- |+-+|.|+...
T Consensus 19 ~g~~vi~G~Ng~GKSt--il~ai~~~L~~ 45 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKST--ILEAIRYALGG 45 (202)
T ss_dssp SEEEEEEESTTSSHHH--HHHHHHHHHHS
T ss_pred CCcEEEECCCCCCHHH--HHHHHHHHHcC
Confidence 3588999999999995 44556776643
No 170
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.61 E-value=0.12 Score=49.40 Aligned_cols=23 Identities=26% Similarity=0.264 Sum_probs=17.4
Q ss_pred eeeCCCCCCchHHHHHHHHHHHh
Q psy14272 53 IFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 53 I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
++.+|||+|||..|+-.+...+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~ 23 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLA 23 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHH
Confidence 46799999999999876444443
No 171
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=91.51 E-value=0.23 Score=47.61 Aligned_cols=29 Identities=24% Similarity=0.379 Sum_probs=23.6
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchHHH
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
....+..+|..++++||.+|+|||||...
T Consensus 183 ~le~l~~~L~~~~~iil~GppGtGKT~lA 211 (459)
T PRK11331 183 TIETILKRLTIKKNIILQGPPGVGKTFVA 211 (459)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHHH
Confidence 34566777888999999999999999543
No 172
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=91.38 E-value=0.07 Score=49.15 Aligned_cols=22 Identities=32% Similarity=0.475 Sum_probs=19.9
Q ss_pred CceeeeCCCCCCchHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al 71 (194)
.++++-||||+|||.++++|.|
T Consensus 45 ~h~lvig~tgSGKt~~~viP~l 66 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFVIPNL 66 (469)
T ss_pred eEEEEEeCCCCCccceeeHhHH
Confidence 4799999999999999999965
No 173
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=91.34 E-value=0.24 Score=45.07 Aligned_cols=37 Identities=16% Similarity=0.148 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 39 M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
...+..++..++.++|-+|||+|||-. |...+..+..
T Consensus 168 ~~~L~~~v~~~~~ili~G~tGsGKTTl-l~al~~~i~~ 204 (340)
T TIGR03819 168 ARLLRAIVAARLAFLISGGTGSGKTTL-LSALLALVAP 204 (340)
T ss_pred HHHHHHHHhCCCeEEEECCCCCCHHHH-HHHHHccCCC
Confidence 344455567789999999999999853 3444444443
No 174
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=91.33 E-value=0.2 Score=45.24 Aligned_cols=29 Identities=24% Similarity=0.481 Sum_probs=21.3
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..++.++|-+|||+|||-.+ ..++.++..
T Consensus 120 ~~~g~ili~G~tGSGKTT~l-~al~~~i~~ 148 (343)
T TIGR01420 120 RPRGLILVTGPTGSGKSTTL-ASMIDYINK 148 (343)
T ss_pred hcCcEEEEECCCCCCHHHHH-HHHHHhhCc
Confidence 34688999999999999654 444555543
No 175
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.26 E-value=0.19 Score=46.74 Aligned_cols=30 Identities=17% Similarity=0.155 Sum_probs=21.3
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..+.+++|-+|||+|||..+.--+..+...
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~ 164 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMR 164 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 457899999999999997654443333333
No 176
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=91.22 E-value=0.29 Score=47.14 Aligned_cols=37 Identities=27% Similarity=0.205 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
-+|..++..+..++..++ ..||.||.|||||....+-
T Consensus 24 iGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~Aril 63 (507)
T PRK06645 24 QGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARII 63 (507)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 489999999999888875 5899999999999665444
No 177
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.20 E-value=0.29 Score=44.35 Aligned_cols=36 Identities=14% Similarity=0.113 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~ 68 (194)
-+|......+..++..++ + .+|.||.|+|||....+
T Consensus 19 iGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~ 57 (363)
T PRK14961 19 IGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARL 57 (363)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHH
Confidence 389999999999998874 3 58999999999965433
No 178
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=91.18 E-value=0.21 Score=43.14 Aligned_cols=33 Identities=21% Similarity=0.234 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
-+|...-+++.-+...+.++++.+|.|||||+.
T Consensus 6 ~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTml 38 (206)
T PF01078_consen 6 VGQEEAKRALEIAAAGGHHLLLIGPPGTGKTML 38 (206)
T ss_dssp SSTHHHHHHHHHHHHCC--EEEES-CCCTHHHH
T ss_pred cCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHH
Confidence 357777788887888889999999999999964
No 179
>KOG0947|consensus
Probab=90.92 E-value=0.34 Score=50.54 Aligned_cols=56 Identities=16% Similarity=0.251 Sum_probs=42.4
Q ss_pred CCCCccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 20 EVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 20 ~~~~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
++..-+.|||++-.-|++ +|| +|+.|..+++-|+|.+|||+..=.+ +.....|..+
T Consensus 287 Vpe~a~~~pFelD~FQk~---Ai~-~lerg~SVFVAAHTSAGKTvVAEYA-ialaq~h~TR 342 (1248)
T KOG0947|consen 287 VPEMALIYPFELDTFQKE---AIY-HLERGDSVFVAAHTSAGKTVVAEYA-IALAQKHMTR 342 (1248)
T ss_pred chhHHhhCCCCccHHHHH---HHH-HHHcCCeEEEEecCCCCcchHHHHH-HHHHHhhccc
Confidence 344457899999999998 443 6789999999999999999876555 4444555444
No 180
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=90.76 E-value=0.61 Score=46.20 Aligned_cols=37 Identities=19% Similarity=0.190 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
++-...|.+.+..|..++..+.+++|.+|+|||||..
T Consensus 30 ~~~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttl 66 (637)
T PRK13765 30 IDQVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSML 66 (637)
T ss_pred HHHcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHH
Confidence 4455689999999999999999999999999999954
No 181
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=90.73 E-value=0.19 Score=41.71 Aligned_cols=36 Identities=11% Similarity=-0.027 Sum_probs=25.4
Q ss_pred HHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
-|..|...++-||+|+|||.-.+--++.++..++..
T Consensus 9 Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~ 44 (242)
T cd00984 9 GLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKP 44 (242)
T ss_pred CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCc
Confidence 455678999999999999965554455566553433
No 182
>PF12846 AAA_10: AAA-like domain
Probab=90.63 E-value=0.27 Score=41.03 Aligned_cols=28 Identities=21% Similarity=0.171 Sum_probs=20.1
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.++++-++||+|||..+.+- +..+...+
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l-~~~~~~~g 29 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNL-LEQLIRRG 29 (304)
T ss_pred CeEEEECCCCCcHHHHHHHH-HHHHHHcC
Confidence 57899999999999877744 44444333
No 183
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.57 E-value=0.33 Score=46.18 Aligned_cols=36 Identities=28% Similarity=0.304 Sum_probs=28.7
Q ss_pred CHHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLI 67 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L 67 (194)
.-+|...+..+..++.++.+ .||.||.|||||....
T Consensus 16 ivGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~ 54 (472)
T PRK14962 16 VVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVAR 54 (472)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 34678888888899988854 6999999999995443
No 184
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=90.46 E-value=0.56 Score=41.27 Aligned_cols=26 Identities=23% Similarity=0.367 Sum_probs=18.0
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+.+++|-+|||+|||-+.. -...|+.
T Consensus 194 ~~vi~~vGptGvGKTTt~~-kLa~~~~ 219 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLA-KLAARFV 219 (282)
T ss_pred CeEEEEECCCCCCHHHHHH-HHHHHHH
Confidence 4578899999999996543 3334443
No 185
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=90.36 E-value=0.29 Score=38.68 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=17.4
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+.++.+|+|||||.-.+--+...+.
T Consensus 1 ~~li~G~~G~GKT~l~~~~~~~~~~ 25 (187)
T cd01124 1 STLLSGGPGTGKTTFALQFLYAGLA 25 (187)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 3688999999999754444444443
No 186
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=90.21 E-value=0.33 Score=43.07 Aligned_cols=35 Identities=20% Similarity=0.198 Sum_probs=24.8
Q ss_pred HHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 39 MKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 39 M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
...+.-++..+..++|-+|||+|||-. |...+.++
T Consensus 134 ~~~l~~~v~~~~~ili~G~tGsGKTTl-l~al~~~~ 168 (308)
T TIGR02788 134 KEFLRLAIASRKNIIISGGTGSGKTTF-LKSLVDEI 168 (308)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCHHHH-HHHHHccC
Confidence 344556678899999999999999953 33334444
No 187
>PRK13764 ATPase; Provisional
Probab=90.20 E-value=0.31 Score=48.06 Aligned_cols=33 Identities=18% Similarity=0.332 Sum_probs=24.1
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
..++.+++-+|||||||- ++.+++.++...+..
T Consensus 255 ~~~~~ILIsG~TGSGKTT-ll~AL~~~i~~~~ri 287 (602)
T PRK13764 255 ERAEGILIAGAPGAGKST-FAQALAEFYADMGKI 287 (602)
T ss_pred hcCCEEEEECCCCCCHHH-HHHHHHHHHhhCCCE
Confidence 446779999999999995 456666777654433
No 188
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=90.13 E-value=0.067 Score=48.33 Aligned_cols=22 Identities=23% Similarity=0.323 Sum_probs=18.6
Q ss_pred ceeeeCCCCCCchHHHHHHHHH
Q psy14272 51 FGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~ 72 (194)
++++-||||+|||.++++|.+-
T Consensus 1 H~lv~g~tGsGKt~~~viP~ll 22 (384)
T cd01126 1 HVLVFAPTRSGKGVGFVIPNLL 22 (384)
T ss_pred CeeEecCCCCCCccEEEccchh
Confidence 4688999999999999888543
No 189
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.10 E-value=0.32 Score=47.83 Aligned_cols=37 Identities=27% Similarity=0.252 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
-+|......|..++..+++ .||.||.|+|||....+-
T Consensus 19 iGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~l 58 (620)
T PRK14948 19 VGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARIL 58 (620)
T ss_pred cChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHH
Confidence 4788888899999988754 599999999999765443
No 190
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=90.10 E-value=0.5 Score=49.50 Aligned_cols=45 Identities=24% Similarity=0.246 Sum_probs=34.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.|.|+..|.--.+.|. .|+..-+-||||+|||---++.++ |+..
T Consensus 79 ~G~~~ws~QR~WakR~~----rg~SFaiiAPTGvGKTTfg~~~sl-~~a~ 123 (1187)
T COG1110 79 TGFRPWSAQRVWAKRLV----RGKSFAIIAPTGVGKTTFGLLMSL-YLAK 123 (1187)
T ss_pred hCCCchHHHHHHHHHHH----cCCceEEEcCCCCchhHHHHHHHH-HHHh
Confidence 56789999999888874 688888889999999965444444 4443
No 191
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=90.03 E-value=0.24 Score=41.50 Aligned_cols=19 Identities=32% Similarity=0.455 Sum_probs=15.2
Q ss_pred CceeeeCCCCCCchHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~ 68 (194)
++++|-+|||+|||-++.=
T Consensus 2 ~vi~lvGptGvGKTTt~aK 20 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAK 20 (196)
T ss_dssp EEEEEEESTTSSHHHHHHH
T ss_pred EEEEEECCCCCchHhHHHH
Confidence 4688999999999976443
No 192
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=89.87 E-value=0.35 Score=39.51 Aligned_cols=29 Identities=24% Similarity=0.243 Sum_probs=20.1
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
...++++-++||+|||..+-+-++..+..
T Consensus 37 ~~~h~li~G~tgsGKS~~l~~ll~~l~~~ 65 (205)
T PF01580_consen 37 KNPHLLIAGATGSGKSTLLRTLLLSLALT 65 (205)
T ss_dssp GS-SEEEE--TTSSHHHHHHHHHHHHHTT
T ss_pred CCceEEEEcCCCCCccHHHHHHHHHHHHH
Confidence 44589999999999999877665555553
No 193
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=89.86 E-value=0.27 Score=43.47 Aligned_cols=41 Identities=15% Similarity=0.101 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 36 SNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 36 ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
..+++.|......+.++.|-+|+|+|||- ++.....++...
T Consensus 21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKtt-l~~~l~~~~~~~ 61 (300)
T TIGR00750 21 KQLLDRIMPYTGNAHRVGITGTPGAGKST-LLEALGMELRRR 61 (300)
T ss_pred HHHHHhCCcccCCceEEEEECCCCCCHHH-HHHHHHHHHHHC
Confidence 34666666655667888889999999994 334434444443
No 194
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=89.79 E-value=0.18 Score=38.42 Aligned_cols=23 Identities=26% Similarity=0.329 Sum_probs=16.3
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+|+.+|+|+|||. |+-.+.++.
T Consensus 1 ~vlL~G~~G~GKt~--l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTT--LARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHH--HHHHHHHHH
T ss_pred CEEEECCCCCCHHH--HHHHHHHHh
Confidence 37899999999995 344444444
No 195
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.65 E-value=0.44 Score=45.94 Aligned_cols=37 Identities=27% Similarity=0.192 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
-+|...+..|..++..+++ .||.||.|||||-...+-
T Consensus 21 VGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriL 60 (484)
T PRK14956 21 IHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARIL 60 (484)
T ss_pred hChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 4789999999999998865 599999999999654443
No 196
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=89.59 E-value=0.7 Score=41.97 Aligned_cols=39 Identities=18% Similarity=0.106 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
.||-|....+.+..++.+|+ -.+|.+|.|+||+....+-
T Consensus 5 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~l 46 (319)
T PRK08769 5 FSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALAL 46 (319)
T ss_pred ccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHH
Confidence 78999999999999999885 3789999999998755544
No 197
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=89.57 E-value=0.57 Score=42.53 Aligned_cols=47 Identities=17% Similarity=0.275 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHh--cCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 33 DIQSNFMKNLYYTLD--NSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~--~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
+.|...++.|.+++. .+..+.+.+|-|||||+.+=+ +..+++..+..
T Consensus 4 ~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~-i~~~~~~~~~~ 52 (364)
T PF05970_consen 4 EEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKA-IIDYLRSRGKK 52 (364)
T ss_pred HHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHH-HHHHhccccce
Confidence 579999999988884 457788999999999975433 34566554443
No 198
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.52 E-value=0.38 Score=46.59 Aligned_cols=38 Identities=18% Similarity=0.266 Sum_probs=30.4
Q ss_pred CHHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
.-+|...+..|..++.++++ .||.||.|+|||....+-
T Consensus 18 iiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~l 58 (585)
T PRK14950 18 LVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARIL 58 (585)
T ss_pred hcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHH
Confidence 34788889999999988754 499999999999765444
No 199
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=89.45 E-value=0.47 Score=45.35 Aligned_cols=32 Identities=28% Similarity=0.274 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhc----------------CCceeeeCCCCCCchH
Q psy14272 33 DIQSNFMKNLYYTLDN----------------SKFGIFESPTGTGKSL 64 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~----------------gk~~I~ESPTGTGKTL 64 (194)
-+|.+..+.|..++.+ .++++|.+|||+|||.
T Consensus 18 iGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~ 65 (443)
T PRK05201 18 IGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTE 65 (443)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHH
Confidence 5677777777777744 3689999999999993
No 200
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=89.39 E-value=0.5 Score=44.73 Aligned_cols=26 Identities=23% Similarity=0.335 Sum_probs=19.6
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
+++++|-+|||.|||-++-=-|..|.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~ 228 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYV 228 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence 78999999999999876543333444
No 201
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=89.33 E-value=0.59 Score=40.34 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHhc-----C--CceeeeCCCCCCchHHH
Q psy14272 34 IQSNFMKNLYYTLDN-----S--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~-----g--k~~I~ESPTGTGKTLS~ 66 (194)
+|......|..++.. + .+++|.+|.|||||...
T Consensus 8 G~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 8 GQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 455555566555541 2 46899999999999543
No 202
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=89.32 E-value=0.2 Score=39.71 Aligned_cols=16 Identities=31% Similarity=0.561 Sum_probs=14.3
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
|++++|.+|+|+|||-
T Consensus 1 g~ii~l~G~~GsGKsT 16 (180)
T TIGR03263 1 GLLIVISGPSGVGKST 16 (180)
T ss_pred CcEEEEECCCCCCHHH
Confidence 5789999999999985
No 203
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=89.31 E-value=0.33 Score=38.71 Aligned_cols=29 Identities=14% Similarity=0.204 Sum_probs=23.1
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..|..++|-||+|+|||...+--++.++.
T Consensus 30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 30 PRGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp -TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 35789999999999999877666666664
No 204
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=89.20 E-value=0.6 Score=41.18 Aligned_cols=36 Identities=31% Similarity=0.187 Sum_probs=22.7
Q ss_pred CCHHHHHHH-HHHHHHHhcC--CceeeeCCCCCCchHHH
Q psy14272 31 AYDIQSNFM-KNLYYTLDNS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 31 py~iQ~e~M-~~I~~~L~~g--k~~I~ESPTGTGKTLS~ 66 (194)
-|..|.+-+ ..|..++..+ ..++|-||+|||||...
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 456666433 3333334332 57999999999999653
No 205
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=89.18 E-value=0.73 Score=44.16 Aligned_cols=33 Identities=24% Similarity=0.188 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHhcCCceeeeCCCCCCchHHH
Q psy14272 34 IQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
.+...+..+...++++.++|+-+|+|||||--+
T Consensus 194 ~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla 226 (449)
T TIGR02688 194 QKLLLLARLLPLVEPNYNLIELGPKGTGKSYIY 226 (449)
T ss_pred HHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHH
Confidence 444445555567889999999999999999433
No 206
>KOG0991|consensus
Probab=89.15 E-value=2 Score=39.15 Aligned_cols=44 Identities=23% Similarity=0.268 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 37 NFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 37 e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
+-|..+.-...+| .++||-+|.|||||-|.+|-+=..|-+.-+.
T Consensus 34 ~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke 79 (333)
T KOG0991|consen 34 DTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKE 79 (333)
T ss_pred HHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhh
Confidence 3444444344455 6799999999999999999887766544333
No 207
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=89.12 E-value=0.45 Score=42.52 Aligned_cols=38 Identities=24% Similarity=0.187 Sum_probs=24.4
Q ss_pred CCHHHH-HHHHHHHHHHhcC--CceeeeCCCCCCchHHHHH
Q psy14272 31 AYDIQS-NFMKNLYYTLDNS--KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 31 py~iQ~-e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~ 68 (194)
-|..+. ++...+..++..+ ..++|-||+|||||..+-.
T Consensus 34 ~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~ 74 (394)
T PRK00411 34 HREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKK 74 (394)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHH
Confidence 345453 3444444555432 5689999999999986443
No 208
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=89.11 E-value=0.32 Score=45.57 Aligned_cols=25 Identities=24% Similarity=0.332 Sum_probs=18.4
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
+++++|-+|||+|||-+.+.-+..+
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~ 245 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARY 245 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHH
Confidence 5688899999999997655443333
No 209
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=89.11 E-value=0.53 Score=44.97 Aligned_cols=40 Identities=33% Similarity=0.252 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHhcC----------------CceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNS----------------KFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g----------------k~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
-+|.+..+.+.-++.++ +.+++.+|||+|||. |+-+|+-.
T Consensus 15 iGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~--lAraLA~~ 70 (441)
T TIGR00390 15 IGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTE--IARRLAKL 70 (441)
T ss_pred cCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHH--HHHHHHHH
Confidence 46777777776666542 689999999999995 45544433
No 210
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=89.10 E-value=0.46 Score=33.66 Aligned_cols=29 Identities=17% Similarity=0.314 Sum_probs=22.4
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
|.+.+|-+|+|+|||- |+-|+.|+.-...
T Consensus 23 g~~tli~G~nGsGKST--llDAi~~~L~~~~ 51 (62)
T PF13555_consen 23 GDVTLITGPNGSGKST--LLDAIQTVLYGNT 51 (62)
T ss_pred CcEEEEECCCCCCHHH--HHHHHHHHHcCCc
Confidence 4589999999999994 6667777765544
No 211
>KOG0349|consensus
Probab=89.08 E-value=0.073 Score=51.60 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=37.6
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+. |.++|.+.+..| -.|..++.-|.||||||=+|.+|+|+....
T Consensus 21 dw~lptdvqaeaipli----lgggdvlmaaetgsgktgaf~lpilqiv~e 66 (725)
T KOG0349|consen 21 DWTLPTDVQAEAIPLI----LGGGDVLMAAETGSGKTGAFCLPILQIVWE 66 (725)
T ss_pred ccccccccccccccEE----ecCCcEEEEeccCCCCccceehhhHHHHHH
Confidence 344 889999988876 367889999999999999999999886553
No 212
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=89.07 E-value=0.6 Score=38.74 Aligned_cols=28 Identities=18% Similarity=0.252 Sum_probs=20.2
Q ss_pred HHHHHHHHHHh---cCCceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLD---NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~---~gk~~I~ESPTGTGKTL 64 (194)
.++..+..+.. .+..++|-+|+|||||-
T Consensus 27 ~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~ 57 (227)
T PRK08903 27 ELVARLRELAAGPVADRFFYLWGEAGSGRSH 57 (227)
T ss_pred HHHHHHHHHHhccCCCCeEEEECCCCCCHHH
Confidence 34555555544 34679999999999994
No 213
>PRK06921 hypothetical protein; Provisional
Probab=88.85 E-value=1.3 Score=38.78 Aligned_cols=28 Identities=14% Similarity=0.074 Sum_probs=19.3
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+..++|-+|||+|||.-+ +++...+..
T Consensus 116 ~~~~l~l~G~~G~GKThLa-~aia~~l~~ 143 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLL-TAAANELMR 143 (266)
T ss_pred CCCeEEEECCCCCcHHHHH-HHHHHHHhh
Confidence 3567999999999999643 333444443
No 214
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.76 E-value=0.53 Score=45.19 Aligned_cols=37 Identities=24% Similarity=0.354 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhcCCce---eeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFG---IFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~---I~ESPTGTGKTLS~L~~ 69 (194)
-+|......|..++..+++. +|.+|.|||||....+-
T Consensus 17 vGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~l 56 (504)
T PRK14963 17 VGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLI 56 (504)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 46888888888888887543 99999999999765443
No 215
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.73 E-value=0.52 Score=46.51 Aligned_cols=37 Identities=19% Similarity=0.225 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
-+|......+..++.+|++ .||.||.|+|||....+-
T Consensus 19 vGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~l 58 (620)
T PRK14954 19 TAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVF 58 (620)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHH
Confidence 3789999999999988743 789999999999655443
No 216
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=88.64 E-value=0.57 Score=38.34 Aligned_cols=28 Identities=21% Similarity=0.224 Sum_probs=20.2
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
++++.+..+......+++.+++||||++
T Consensus 10 ~~~~~~~~~a~~~~pVlI~GE~GtGK~~ 37 (168)
T PF00158_consen 10 RLREQAKRAASSDLPVLITGETGTGKEL 37 (168)
T ss_dssp HHHHHHHHHTTSTS-EEEECSTTSSHHH
T ss_pred HHHHHHHHHhCCCCCEEEEcCCCCcHHH
Confidence 4445555555566889999999999995
No 217
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=88.60 E-value=0.28 Score=47.51 Aligned_cols=36 Identities=25% Similarity=0.313 Sum_probs=29.6
Q ss_pred CCCCHHHHHHHHHHHH---HHhcCCceeeeCCCCCCchH
Q psy14272 29 FDAYDIQSNFMKNLYY---TLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~---~L~~gk~~I~ESPTGTGKTL 64 (194)
|--++||.+|+..|.. .+..|.++.+.||.|+|||-
T Consensus 9 hi~r~Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKST 47 (504)
T TIGR03238 9 YVKRKIQTDLERILVKFNKELPSSSLLFLCGSSGDGKSE 47 (504)
T ss_pred eechHHHHHHHHHHhCCceeecCCCEEEEECCCCCCHHH
Confidence 3468999999888765 24678999999999999994
No 218
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=88.57 E-value=0.49 Score=48.58 Aligned_cols=41 Identities=27% Similarity=0.309 Sum_probs=29.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
...+.||++|.-= .| +|..| -|.|+.||-||||+..+|++.
T Consensus 72 ~lG~r~ydvQlig--~l--~L~~G--~IaEm~TGEGKTL~a~l~ayl 112 (870)
T CHL00122 72 TLGLRHFDVQLIG--GL--VLNDG--KIAEMKTGEGKTLVATLPAYL 112 (870)
T ss_pred HhCCCCCchHhhh--hH--hhcCC--ccccccCCCCchHHHHHHHHH
Confidence 3566788988653 22 23344 788999999999999988743
No 219
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=88.56 E-value=0.39 Score=39.47 Aligned_cols=15 Identities=27% Similarity=0.472 Sum_probs=13.0
Q ss_pred CceeeeCCCCCCchH
Q psy14272 50 KFGIFESPTGTGKSL 64 (194)
Q Consensus 50 k~~I~ESPTGTGKTL 64 (194)
.+++|-+|||+|||.
T Consensus 4 ~~~ll~GpsGvGKT~ 18 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTE 18 (171)
T ss_dssp EEEEEESSTTSSHHH
T ss_pred EEEEEECCCCCCHHH
Confidence 468899999999994
No 220
>KOG0922|consensus
Probab=88.45 E-value=0.41 Score=47.74 Aligned_cols=29 Identities=24% Similarity=0.509 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
++.+.|..++++.+++|+-+.||+|||--
T Consensus 54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQ 82 (674)
T KOG0922|consen 54 KYRDQILYAVEDNQVLIVIGETGSGKSTQ 82 (674)
T ss_pred HHHHHHHHHHHHCCEEEEEcCCCCCcccc
Confidence 56788889999999999999999999953
No 221
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.35 E-value=0.51 Score=46.23 Aligned_cols=38 Identities=26% Similarity=0.266 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~~a 70 (194)
-+|......|..++..++ + .||.+|.|||||.+..+-+
T Consensus 16 vGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lA 56 (584)
T PRK14952 16 VGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILA 56 (584)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 378888999999998874 3 5899999999997665543
No 222
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=88.28 E-value=0.25 Score=43.95 Aligned_cols=43 Identities=16% Similarity=0.234 Sum_probs=28.3
Q ss_pred ccCCC--CCCCHHHHHHHHHH----HHHHhcCC--ceeeeCCCCCCchHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNL----YYTLDNSK--FGIFESPTGTGKSLSL 66 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I----~~~L~~gk--~~I~ESPTGTGKTLS~ 66 (194)
.|.|. |.+-..|.++...+ ...+-+|. .++.-++||||||.++
T Consensus 48 ~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm 98 (319)
T cd01376 48 KYQFDAFYGTECTQEDIFSREVKPIVPHLLSGQNATVFAYGSTGAGKTHTM 98 (319)
T ss_pred EEecCeEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEEECCCCCCCcEEE
Confidence 45554 55777888877762 22333453 3566799999999976
No 223
>KOG4284|consensus
Probab=88.21 E-value=0.1 Score=52.53 Aligned_cols=46 Identities=20% Similarity=0.259 Sum_probs=36.6
Q ss_pred CCC-CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 28 PFD-AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 28 Py~-py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.|. |.+||...+..+. .+-.+|+.|-.||||||.|-+.++.-|..+
T Consensus 44 ~f~~ptkiQaaAIP~~~----~kmDliVQaKSGTGKTlVfsv~av~sl~~~ 90 (980)
T KOG4284|consen 44 AFALPTKIQAAAIPAIF----SKMDLIVQAKSGTGKTLVFSVLAVESLDSR 90 (980)
T ss_pred cccCCCchhhhhhhhhh----cccceEEEecCCCCceEEEEeeeehhcCcc
Confidence 455 8888888777764 566799999999999999988888766543
No 224
>PRK08727 hypothetical protein; Validated
Probab=88.14 E-value=1.2 Score=37.88 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=17.3
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..++|-+|+|||||-- ++++...+..
T Consensus 42 ~~l~l~G~~G~GKThL-~~a~~~~~~~ 67 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL-ALALCAAAEQ 67 (233)
T ss_pred CeEEEECCCCCCHHHH-HHHHHHHHHH
Confidence 4589999999999952 3343333333
No 225
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=88.11 E-value=0.45 Score=34.96 Aligned_cols=14 Identities=36% Similarity=0.615 Sum_probs=12.0
Q ss_pred eeeeCCCCCCchHH
Q psy14272 52 GIFESPTGTGKSLS 65 (194)
Q Consensus 52 ~I~ESPTGTGKTLS 65 (194)
+++.+|.|||||..
T Consensus 1 ill~G~~G~GKT~l 14 (132)
T PF00004_consen 1 ILLHGPPGTGKTTL 14 (132)
T ss_dssp EEEESSTTSSHHHH
T ss_pred CEEECcCCCCeeHH
Confidence 57899999999963
No 226
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=88.04 E-value=1.1 Score=41.21 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=23.0
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
....|..+|..++.+++++|+|||||..
T Consensus 53 ~~~~vl~~l~~~~~ilL~G~pGtGKTtl 80 (327)
T TIGR01650 53 TTKAICAGFAYDRRVMVQGYHGTGKSTH 80 (327)
T ss_pred HHHHHHHHHhcCCcEEEEeCCCChHHHH
Confidence 3446777788889999999999999963
No 227
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=87.98 E-value=0.43 Score=44.73 Aligned_cols=16 Identities=38% Similarity=0.551 Sum_probs=13.9
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
.+++|.+|||||||+.
T Consensus 109 ~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 109 SNILLIGPTGSGKTLL 124 (412)
T ss_pred ceEEEEcCCCCCHHHH
Confidence 5699999999999953
No 228
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=87.96 E-value=0.38 Score=48.61 Aligned_cols=34 Identities=24% Similarity=0.197 Sum_probs=27.2
Q ss_pred CHHHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchHH
Q psy14272 32 YDIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLS 65 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTLS 65 (194)
.-+|-..|..|..+|... .+.+|.+|||||||..
T Consensus 567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~l 611 (852)
T TIGR03346 567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTEL 611 (852)
T ss_pred cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHH
Confidence 357888999999888642 3578999999999954
No 229
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=87.92 E-value=0.42 Score=40.59 Aligned_cols=33 Identities=24% Similarity=0.184 Sum_probs=23.0
Q ss_pred HHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 44 YTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 44 ~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..+..|.+++|-||||+|||.-.+--+..++..
T Consensus 25 gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~ 57 (271)
T cd01122 25 KGLRKGELIILTAGTGVGKTTFLREYALDLITQ 57 (271)
T ss_pred EEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHh
Confidence 345567899999999999996444334444444
No 230
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=87.87 E-value=0.32 Score=45.26 Aligned_cols=40 Identities=15% Similarity=0.124 Sum_probs=26.3
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
.|..++.....+++-+.||||||- +|-+.+.+..... +++
T Consensus 165 ~L~~av~~r~NILisGGTGSGKTT-lLNal~~~i~~~e-RvI 204 (355)
T COG4962 165 FLRRAVGIRCNILISGGTGSGKTT-LLNALSGFIDSDE-RVI 204 (355)
T ss_pred HHHHHHhhceeEEEeCCCCCCHHH-HHHHHHhcCCCcc-cEE
Confidence 445555666889999999999994 3444444444444 544
No 231
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=87.85 E-value=0.27 Score=46.01 Aligned_cols=25 Identities=28% Similarity=0.397 Sum_probs=18.4
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..++++-+|||||||| |.-.|+-+.
T Consensus 97 KSNILLiGPTGsGKTl--LAqTLAk~L 121 (408)
T COG1219 97 KSNILLIGPTGSGKTL--LAQTLAKIL 121 (408)
T ss_pred eccEEEECCCCCcHHH--HHHHHHHHh
Confidence 3578999999999995 555555444
No 232
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=87.83 E-value=0.56 Score=35.13 Aligned_cols=19 Identities=26% Similarity=0.314 Sum_probs=14.4
Q ss_pred ceeeeCCCCCCchHHHHHH
Q psy14272 51 FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~ 69 (194)
+++|-+|+|+|||.-+..-
T Consensus 1 ~~~i~G~~G~GKT~l~~~i 19 (165)
T cd01120 1 LILVFGPTGSGKTTLALQL 19 (165)
T ss_pred CeeEeCCCCCCHHHHHHHH
Confidence 4678999999999754333
No 233
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=87.71 E-value=0.46 Score=39.35 Aligned_cols=26 Identities=27% Similarity=0.571 Sum_probs=18.9
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+.++|-+|||+|||-.+ ..++.++..
T Consensus 2 GlilI~GptGSGKTTll-~~ll~~~~~ 27 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL-AAMIDYINK 27 (198)
T ss_pred cEEEEECCCCCCHHHHH-HHHHHHhhh
Confidence 46889999999999764 444555553
No 234
>PRK13342 recombination factor protein RarA; Reviewed
Probab=87.70 E-value=0.48 Score=43.62 Aligned_cols=35 Identities=23% Similarity=0.223 Sum_probs=26.7
Q ss_pred CHHHHHHHHH---HHHHHhcC--CceeeeCCCCCCchHHH
Q psy14272 32 YDIQSNFMKN---LYYTLDNS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 32 y~iQ~e~M~~---I~~~L~~g--k~~I~ESPTGTGKTLS~ 66 (194)
+-+|..++.. +..++.++ ..+||-+|+|||||...
T Consensus 14 ~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 14 VVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred hcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 4567777655 88888776 36899999999999543
No 235
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=87.69 E-value=0.75 Score=46.06 Aligned_cols=54 Identities=17% Similarity=0.285 Sum_probs=46.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
..||++...|...++.|..-|.+. ..=++.+--|||||+..+++++.-..+..+
T Consensus 258 ~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q 313 (677)
T COG1200 258 ALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQ 313 (677)
T ss_pred hCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCe
Confidence 589999999999999999888876 456899999999999999998887665433
No 236
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=87.65 E-value=0.64 Score=41.19 Aligned_cols=37 Identities=19% Similarity=0.230 Sum_probs=25.9
Q ss_pred CCHHHHHHHHHHHHHHhc----C---CceeeeCCCCCCchHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDN----S---KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~----g---k~~I~ESPTGTGKTLS~L 67 (194)
-+-+|.+.+..+...+.. + .+++|.+|+|||||....
T Consensus 26 ~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 26 EFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred HhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHH
Confidence 344677777666655542 2 479999999999996543
No 237
>PHA00729 NTP-binding motif containing protein
Probab=87.62 E-value=0.69 Score=40.37 Aligned_cols=25 Identities=20% Similarity=0.340 Sum_probs=17.7
Q ss_pred HHHHHHHhcC--CceeeeCCCCCCchH
Q psy14272 40 KNLYYTLDNS--KFGIFESPTGTGKSL 64 (194)
Q Consensus 40 ~~I~~~L~~g--k~~I~ESPTGTGKTL 64 (194)
..+...|..+ ..++|-+|+|||||.
T Consensus 6 k~~~~~l~~~~f~nIlItG~pGvGKT~ 32 (226)
T PHA00729 6 KKIVSAYNNNGFVSAVIFGKQGSGKTT 32 (226)
T ss_pred HHHHHHHhcCCeEEEEEECCCCCCHHH
Confidence 3444555444 468899999999994
No 238
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=87.56 E-value=0.65 Score=48.03 Aligned_cols=44 Identities=23% Similarity=0.219 Sum_probs=31.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.....||++|.- -.| +|..| -|.|+.||-||||+..+|++..+.
T Consensus 81 ~lG~r~ydVQli--Ggl--~Lh~G--~IAEM~TGEGKTL~atlpaylnAL 124 (939)
T PRK12902 81 VLGMRHFDVQLI--GGM--VLHEG--QIAEMKTGEGKTLVATLPSYLNAL 124 (939)
T ss_pred HhCCCcchhHHH--hhh--hhcCC--ceeeecCCCChhHHHHHHHHHHhh
Confidence 356678888864 333 23455 578999999999999988765443
No 239
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=87.54 E-value=0.58 Score=45.86 Aligned_cols=39 Identities=26% Similarity=0.272 Sum_probs=32.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
|||..--+|..++..+.-++-+. ..++|.+|+|||||..
T Consensus 1 ~pf~~ivGq~~~~~al~~~av~~~~g~vli~G~~GtgKs~l 41 (633)
T TIGR02442 1 FPFTAIVGQEDLKLALLLNAVDPRIGGVLIRGEKGTAKSTA 41 (633)
T ss_pred CCcchhcChHHHHHHHHHHhhCCCCCeEEEEcCCCCcHHHH
Confidence 78887778999888888777653 4599999999999864
No 240
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=87.49 E-value=0.83 Score=35.30 Aligned_cols=27 Identities=30% Similarity=0.324 Sum_probs=19.5
Q ss_pred HHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 38 FMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 38 ~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
+...|.........+++.++.||||++
T Consensus 10 l~~~l~~~a~~~~pvli~GE~GtGK~~ 36 (138)
T PF14532_consen 10 LRRQLERLAKSSSPVLITGEPGTGKSL 36 (138)
T ss_dssp HHHHHHHHHCSSS-EEEECCTTSSHHH
T ss_pred HHHHHHHHhCCCCcEEEEcCCCCCHHH
Confidence 344444445567889999999999996
No 241
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=87.46 E-value=0.78 Score=45.45 Aligned_cols=42 Identities=24% Similarity=0.364 Sum_probs=36.1
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHH
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~ 66 (194)
..-||.|.-.|-..+..+.+.+.+| +..++-+.||||||+..
T Consensus 4 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~ 46 (655)
T TIGR00631 4 LHSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTM 46 (655)
T ss_pred eccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHH
Confidence 4568999999999999999999876 35678999999999864
No 242
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=87.39 E-value=0.5 Score=37.50 Aligned_cols=28 Identities=21% Similarity=0.309 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
++.+.|...|..|.++++.++-|+|||-
T Consensus 3 ~la~~l~~~l~~g~vi~L~GdLGaGKTt 30 (123)
T PF02367_consen 3 RLAKKLAQILKPGDVILLSGDLGAGKTT 30 (123)
T ss_dssp HHHHHHHHHHSS-EEEEEEESTTSSHHH
T ss_pred HHHHHHHHhCCCCCEEEEECCCCCCHHH
Confidence 5667888889999999999999999993
No 243
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.37 E-value=0.65 Score=44.60 Aligned_cols=37 Identities=22% Similarity=0.196 Sum_probs=29.8
Q ss_pred CHHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~ 68 (194)
.-+|...+..+..++..++ + .+|.||.|+|||-...+
T Consensus 18 ivGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~ 57 (509)
T PRK14958 18 VIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRI 57 (509)
T ss_pred hcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHH
Confidence 3489999999999998873 3 58999999999965433
No 244
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=87.34 E-value=0.57 Score=41.34 Aligned_cols=39 Identities=26% Similarity=0.383 Sum_probs=26.0
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHh---c-C---CceeeeCCCCCCch
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLD---N-S---KFGIFESPTGTGKS 63 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~---~-g---k~~I~ESPTGTGKT 63 (194)
.+--|+-|-+|..+...+.-.+. . + .++||-+|.|+|||
T Consensus 19 RP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKT 64 (233)
T PF05496_consen 19 RPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKT 64 (233)
T ss_dssp S-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHH
T ss_pred CCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchh
Confidence 34457788899998887544333 2 2 47999999999997
No 245
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.29 E-value=0.76 Score=44.77 Aligned_cols=40 Identities=23% Similarity=0.262 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~ 68 (194)
|.-.-+|......+..++..+++ .||.||.|+|||....+
T Consensus 15 f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~ 57 (546)
T PRK14957 15 FAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRL 57 (546)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 33334888888889999988754 68999999999964433
No 246
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=87.24 E-value=0.28 Score=36.19 Aligned_cols=14 Identities=43% Similarity=0.660 Sum_probs=12.1
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
+++|.+|+|||||-
T Consensus 1 vI~I~G~~gsGKST 14 (121)
T PF13207_consen 1 VIIISGPPGSGKST 14 (121)
T ss_dssp EEEEEESTTSSHHH
T ss_pred CEEEECCCCCCHHH
Confidence 47889999999993
No 247
>PRK00300 gmk guanylate kinase; Provisional
Probab=87.22 E-value=0.3 Score=39.64 Aligned_cols=17 Identities=29% Similarity=0.565 Sum_probs=15.2
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.|.+++|.+|+|+|||-
T Consensus 4 ~g~~i~i~G~sGsGKst 20 (205)
T PRK00300 4 RGLLIVLSGPSGAGKST 20 (205)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 57899999999999993
No 248
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=87.18 E-value=0.98 Score=38.62 Aligned_cols=39 Identities=21% Similarity=0.261 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHhc--CCc-eeeeCCCCCCchHHHHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDN--SKF-GIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~--gk~-~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|............. ..+ .+|.+|.|+|||.+.++-+=.
T Consensus 6 ~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~ 47 (325)
T COG0470 6 WQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKE 47 (325)
T ss_pred chhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHH
Confidence 333333333333433 356 999999999999887776533
No 249
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=87.13 E-value=0.48 Score=41.73 Aligned_cols=17 Identities=29% Similarity=0.313 Sum_probs=14.2
Q ss_pred CceeeeCCCCCCchHHH
Q psy14272 50 KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~ 66 (194)
.+++|.+|+|||||...
T Consensus 59 ~~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVA 75 (284)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 36899999999999643
No 250
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=87.12 E-value=0.59 Score=37.53 Aligned_cols=28 Identities=25% Similarity=0.353 Sum_probs=23.6
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
++...|..+|..+.++++.++-|+|||-
T Consensus 10 ~l~~~l~~~l~~~~~i~l~G~lGaGKTt 37 (133)
T TIGR00150 10 KFGKAFAKPLDFGTVVLLKGDLGAGKTT 37 (133)
T ss_pred HHHHHHHHhCCCCCEEEEEcCCCCCHHH
Confidence 4566777778888999999999999984
No 251
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=87.12 E-value=0.85 Score=44.73 Aligned_cols=37 Identities=16% Similarity=0.134 Sum_probs=32.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
+..--+|.+.+..+..++..+.+++|-+|+|||||..
T Consensus 17 ~~~viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~l 53 (608)
T TIGR00764 17 IDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSML 53 (608)
T ss_pred HhhccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHH
Confidence 4455689999999999999999999999999999953
No 252
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=87.06 E-value=0.8 Score=40.16 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSL 66 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~ 66 (194)
.-+|.+.+..+..++.+|+ ..+|.||.|+|||-..
T Consensus 16 iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a 53 (355)
T TIGR02397 16 VIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIA 53 (355)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3578888889999998874 4689999999999554
No 253
>PRK08084 DNA replication initiation factor; Provisional
Probab=87.02 E-value=0.92 Score=38.61 Aligned_cols=31 Identities=23% Similarity=0.270 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHhc--CCceeeeCCCCCCchH
Q psy14272 34 IQSNFMKNLYYTLDN--SKFGIFESPTGTGKSL 64 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~--gk~~I~ESPTGTGKTL 64 (194)
.....+..+..+... +..++|-+|+|+|||-
T Consensus 28 ~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKTh 60 (235)
T PRK08084 28 DNDSLLAALQNALRQEHSGYIYLWSREGAGRSH 60 (235)
T ss_pred ccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHH
Confidence 445556666665543 3578999999999995
No 254
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 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 a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=87.01 E-value=1.2 Score=39.82 Aligned_cols=44 Identities=14% Similarity=0.203 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 34 IQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.=.++++.+.++-... .-.|+-++.|||||.+ |+-++.|+...+
T Consensus 6 ~t~el~~~l~~~~~~~~~~r~vL~G~~GsGKS~~-L~q~~~~A~~~~ 51 (309)
T PF10236_consen 6 PTLELINKLKEADKSSKNNRYVLTGERGSGKSVL-LAQAVHYARENG 51 (309)
T ss_pred HHHHHHHHHHHhcccCCceEEEEECCCCCCHHHH-HHHHHHHHHhCC
Confidence 3345566666653333 4589999999999987 556678887664
No 255
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=86.97 E-value=0.69 Score=43.57 Aligned_cols=21 Identities=33% Similarity=0.537 Sum_probs=16.2
Q ss_pred CceeeeCCCCCCchHHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.+++|.+|||||||. |+-+|+
T Consensus 117 ~~iLL~GP~GsGKT~--lAraLA 137 (413)
T TIGR00382 117 SNILLIGPTGSGKTL--LAQTLA 137 (413)
T ss_pred ceEEEECCCCcCHHH--HHHHHH
Confidence 469999999999996 344444
No 256
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=86.96 E-value=0.52 Score=46.79 Aligned_cols=31 Identities=29% Similarity=0.385 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchH
Q psy14272 34 IQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSL 64 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTL 64 (194)
+|.+.+..|..++... .+.+|.+|||||||.
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~ 499 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTE 499 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHH
Confidence 4666777777777531 246899999999994
No 257
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=86.90 E-value=0.47 Score=46.17 Aligned_cols=31 Identities=26% Similarity=0.461 Sum_probs=23.9
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
..++++-||||||||. +|-..|.|++..+.+
T Consensus 176 ~~h~li~G~tGsGKs~-~i~~ll~~~~~~g~~ 206 (566)
T TIGR02759 176 TQHILIHGTTGSGKSV-AIRKLLRWIRQRGDR 206 (566)
T ss_pred ccceEEEcCCCCCHHH-HHHHHHHHHHhcCCe
Confidence 4689999999999996 456678887655544
No 258
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=86.84 E-value=0.76 Score=45.12 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
-+|..+++.|..++..|+ ..||.+|.|+|||....+-
T Consensus 27 iGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~l 66 (598)
T PRK09111 27 IGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARIL 66 (598)
T ss_pred cCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 379999999999999884 4899999999999765544
No 259
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=86.75 E-value=0.65 Score=44.61 Aligned_cols=34 Identities=26% Similarity=0.229 Sum_probs=27.7
Q ss_pred CHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 32 YDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
--+|...|..+..++... .+++|.+|+|||||..
T Consensus 67 iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 67 IIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAA 102 (531)
T ss_pred eeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHH
Confidence 457888898988777543 6899999999999864
No 260
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=86.73 E-value=1.1 Score=36.11 Aligned_cols=36 Identities=19% Similarity=0.298 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
+|.+....+...+.+++ ..||.+|.|+||+...+.-
T Consensus 1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~ 39 (162)
T PF13177_consen 1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAF 39 (162)
T ss_dssp S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHH
T ss_pred CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHH
Confidence 47788888888998873 3699999999987655444
No 261
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=86.73 E-value=0.25 Score=49.12 Aligned_cols=23 Identities=22% Similarity=0.431 Sum_probs=20.3
Q ss_pred CCceeeeCCCCCCchHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al 71 (194)
..++++-||||+|||.++++|.|
T Consensus 139 ~~hvlviApTgSGKgvg~VIPnL 161 (670)
T PRK13850 139 QPHSLVVAPTRAGKGVGVVIPTL 161 (670)
T ss_pred CceEEEEecCCCCceeeehHhHH
Confidence 36899999999999999999954
No 262
>PRK10865 protein disaggregation chaperone; Provisional
Probab=86.46 E-value=0.59 Score=47.50 Aligned_cols=35 Identities=23% Similarity=0.186 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTLS~ 66 (194)
.-+|...|..|..+|... .+++|.+|||||||...
T Consensus 570 viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 570 VIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELC 615 (857)
T ss_pred EeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHH
Confidence 358888888888888632 35789999999999754
No 263
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=86.41 E-value=0.53 Score=40.41 Aligned_cols=17 Identities=35% Similarity=0.452 Sum_probs=14.1
Q ss_pred CceeeeCCCCCCchHHH
Q psy14272 50 KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~ 66 (194)
.++||.+|+|||||...
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 46899999999999543
No 264
>PF05729 NACHT: NACHT domain
Probab=86.27 E-value=0.86 Score=34.56 Aligned_cols=15 Identities=27% Similarity=0.264 Sum_probs=13.2
Q ss_pred ceeeeCCCCCCchHH
Q psy14272 51 FGIFESPTGTGKSLS 65 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS 65 (194)
++++.|+.|+|||..
T Consensus 2 ~l~I~G~~G~GKStl 16 (166)
T PF05729_consen 2 VLWISGEPGSGKSTL 16 (166)
T ss_pred EEEEECCCCCChHHH
Confidence 578999999999974
No 265
>PRK13897 type IV secretion system component VirD4; Provisional
Probab=86.27 E-value=0.23 Score=48.89 Aligned_cols=23 Identities=26% Similarity=0.522 Sum_probs=20.5
Q ss_pred CceeeeCCCCCCchHHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.++++-||||+|||.++++|.|-
T Consensus 159 ~hvLviapTgSGKg~g~VIPnLL 181 (606)
T PRK13897 159 QHALLFAPTGSGKGVGFVIPNLL 181 (606)
T ss_pred ceEEEEcCCCCCcceEEehhhHH
Confidence 57899999999999999999654
No 266
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=86.15 E-value=0.58 Score=43.19 Aligned_cols=29 Identities=24% Similarity=0.260 Sum_probs=21.6
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
..++++-+|||+|||.. |-.++.|+...+
T Consensus 42 ~~h~~i~g~tGsGKt~~-i~~l~~~~~~~~ 70 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQ-IRELLASIRARG 70 (410)
T ss_pred hccEEEEcCCCCCHHHH-HHHHHHHHHhcC
Confidence 36899999999999975 555566665544
No 267
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=86.15 E-value=1.6 Score=36.55 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHH---------hcCCceeeeCCCCCCchHHHHHHHH
Q psy14272 34 IQSNFMKNLYYTL---------DNSKFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 34 iQ~e~M~~I~~~L---------~~gk~~I~ESPTGTGKTLS~L~~al 71 (194)
.|.+.+..++.-. ....-+|+-...|+|||+..|..+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~ 47 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALIS 47 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhh
Confidence 3777677666665 4446688888999999998776644
No 268
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=86.08 E-value=1.2 Score=44.56 Aligned_cols=44 Identities=14% Similarity=0.203 Sum_probs=30.7
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+..-+.|.+.+..| +..+++.++.+|.|||||.. |.+++..+..
T Consensus 351 ~~Ls~~Q~~Av~~i---~~s~~~~il~G~aGTGKTtl-l~~i~~~~~~ 394 (744)
T TIGR02768 351 YRLSEEQYEAVRHV---TGSGDIAVVVGRAGTGKSTM-LKAAREAWEA 394 (744)
T ss_pred CCCCHHHHHHHHHH---hcCCCEEEEEecCCCCHHHH-HHHHHHHHHh
Confidence 44568999966665 44467999999999999964 4444444443
No 269
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=86.06 E-value=0.72 Score=37.23 Aligned_cols=29 Identities=21% Similarity=0.180 Sum_probs=19.6
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
++.|-+|+|+|||- ++..++.++...+.+
T Consensus 1 vi~i~G~~gsGKTt-l~~~l~~~l~~~G~~ 29 (155)
T TIGR00176 1 VLQIVGPKNSGKTT-LIERLVKALKARGYR 29 (155)
T ss_pred CEEEECCCCCCHHH-HHHHHHHHHHhcCCe
Confidence 35678999999995 455556666655433
No 270
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.97 E-value=0.87 Score=43.81 Aligned_cols=35 Identities=20% Similarity=0.297 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~ 68 (194)
+|...++.+..++..++ + .||.||.|+|||....+
T Consensus 20 Gq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~ 57 (527)
T PRK14969 20 GQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARI 57 (527)
T ss_pred CcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHH
Confidence 78888889999998874 3 48999999999965433
No 271
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=85.97 E-value=1.5 Score=40.91 Aligned_cols=22 Identities=27% Similarity=0.371 Sum_probs=17.2
Q ss_pred CCceeeeCCCCCCchHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~a 70 (194)
..+++|-+|||+|||-+..--+
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA 195 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLA 195 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHH
Confidence 3678999999999997754443
No 272
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=85.86 E-value=1 Score=47.10 Aligned_cols=49 Identities=24% Similarity=0.273 Sum_probs=35.9
Q ss_pred CCCCccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 20 EVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 20 ~~~~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..|..+.+...||++|+- -.| +|.+| -|.|+.||=||||+..+|+...+
T Consensus 128 ~~g~~~~wdm~~ydVQLi--Ggi--vLh~G--~IAEM~TGEGKTLvatlp~yLnA 176 (1025)
T PRK12900 128 VMGREMTWDMVPYDVQLI--GGI--VLHSG--KISEMATGEGKTLVSTLPTFLNA 176 (1025)
T ss_pred ccccccccCccccchHHh--hhH--HhhcC--CccccCCCCCcchHhHHHHHHHH
Confidence 346677778889999864 333 24466 46899999999999998865443
No 273
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=85.81 E-value=0.88 Score=37.72 Aligned_cols=29 Identities=14% Similarity=0.230 Sum_probs=19.7
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.|.++++.+|+|||||+=.+--+...+..
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~ 46 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKN 46 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhh
Confidence 35889999999999996433333344444
No 274
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=85.79 E-value=0.74 Score=44.53 Aligned_cols=33 Identities=21% Similarity=0.244 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
.+|...=+++.-+...|.+++|.+|.|||||+.
T Consensus 182 ~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTml 214 (490)
T COG0606 182 KGQEQAKRALEIAAAGGHNLLLVGPPGTGKTML 214 (490)
T ss_pred cCcHHHHHHHHHHHhcCCcEEEecCCCCchHHh
Confidence 467777778887778889999999999999974
No 275
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=85.28 E-value=2.1 Score=36.28 Aligned_cols=25 Identities=24% Similarity=0.230 Sum_probs=19.2
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+++-||+|+|||- +|.++...+..
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~ 60 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQK 60 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHH
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHh
Confidence 58999999999998 56666555544
No 276
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=85.27 E-value=1.2 Score=42.12 Aligned_cols=41 Identities=22% Similarity=0.116 Sum_probs=31.6
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
|.-.-+|...+..+..++..++ ..||.||.|+|||....+-
T Consensus 16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~l 59 (451)
T PRK06305 16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIF 59 (451)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHH
Confidence 3334478889999999998874 3789999999999665444
No 277
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=85.27 E-value=0.69 Score=46.65 Aligned_cols=32 Identities=25% Similarity=0.281 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhc--------C---CceeeeCCCCCCchHH
Q psy14272 34 IQSNFMKNLYYTLDN--------S---KFGIFESPTGTGKSLS 65 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~--------g---k~~I~ESPTGTGKTLS 65 (194)
+|-+.+..|..+|.. + ..++|.+|||+|||..
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~l 504 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEV 504 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHH
Confidence 577778888877762 1 3579999999999954
No 278
>PRK13876 conjugal transfer coupling protein TraG; Provisional
Probab=85.26 E-value=0.3 Score=48.50 Aligned_cols=24 Identities=25% Similarity=0.379 Sum_probs=21.1
Q ss_pred CCceeeeCCCCCCchHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
..++++-||||+|||.++++|.|.
T Consensus 144 ~~hvLviApTrSGKgvg~VIPnLL 167 (663)
T PRK13876 144 PEHVLCFAPTRSGKGVGLVVPTLL 167 (663)
T ss_pred CceEEEEecCCCCcceeEehhhHH
Confidence 378999999999999999999644
No 279
>PRK05541 adenylylsulfate kinase; Provisional
Probab=85.13 E-value=0.34 Score=38.65 Aligned_cols=19 Identities=21% Similarity=0.191 Sum_probs=16.2
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..+.+++|.++.|+|||-
T Consensus 4 ~~~~~~I~i~G~~GsGKst 22 (176)
T PRK05541 4 KPNGYVIWITGLAGSGKTT 22 (176)
T ss_pred CCCCCEEEEEcCCCCCHHH
Confidence 3467899999999999984
No 280
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=85.11 E-value=0.43 Score=34.89 Aligned_cols=13 Identities=23% Similarity=0.212 Sum_probs=11.2
Q ss_pred eeeeCCCCCCchH
Q psy14272 52 GIFESPTGTGKSL 64 (194)
Q Consensus 52 ~I~ESPTGTGKTL 64 (194)
++|.+++|||||-
T Consensus 1 I~i~G~~GsGKtT 13 (129)
T PF13238_consen 1 IGISGIPGSGKTT 13 (129)
T ss_dssp EEEEESTTSSHHH
T ss_pred CEEECCCCCCHHH
Confidence 4788999999994
No 281
>KOG1808|consensus
Probab=85.08 E-value=2 Score=47.42 Aligned_cols=48 Identities=15% Similarity=0.147 Sum_probs=35.0
Q ss_pred CCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
|.+.+-+...+..+..++..| ..++|.+|||+|||- +++- ++|..-++
T Consensus 419 ~i~T~~vq~~la~~~~a~~~~~~pillqG~tssGKts-ii~~-la~~~g~~ 467 (1856)
T KOG1808|consen 419 YIITPRVQKNLADLARAISSGKFPILLQGPTSSGKTS-IIKE-LARATGKN 467 (1856)
T ss_pred eeccHHHHHHHHHHHHHHhcCCCCeEEecCcCcCchh-HHHH-HHHHhccC
Confidence 667777777777777777777 689999999999993 3443 56655444
No 282
>PRK04296 thymidine kinase; Provisional
Probab=85.07 E-value=0.77 Score=37.85 Aligned_cols=31 Identities=16% Similarity=0.218 Sum_probs=21.0
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
|.+.++-+|.|+|||..++--+..+.. ++.+
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~-~g~~ 32 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEE-RGMK 32 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHH-cCCe
Confidence 567899999999999665544444433 3444
No 283
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=85.01 E-value=0.54 Score=42.31 Aligned_cols=45 Identities=18% Similarity=0.203 Sum_probs=29.8
Q ss_pred CccCCC--CCCCHHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHHH
Q psy14272 23 SEFPFP--FDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 23 ~~~~fP--y~py~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
..|.|. |.|-..|.++...+. ..+-+| ..++.-+.||||||.+++
T Consensus 41 ~~f~FD~vf~~~~~q~~vy~~~~~p~v~~~~~G~n~ti~aYGqTGSGKTyTm~ 93 (337)
T cd01373 41 RMFTFDHVADSNTNQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTYTMM 93 (337)
T ss_pred cEEeCCeEeCCCCCHHHHHHHHHHHHHHHHhCCCceeEEEeCCCCCCceEEec
Confidence 345555 567778888776553 233345 346668899999998764
No 284
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=85.00 E-value=1.1 Score=44.67 Aligned_cols=35 Identities=23% Similarity=0.275 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLI 67 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L 67 (194)
=+|...+..|..++..+++ .||.||.|+|||....
T Consensus 19 vGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr 56 (647)
T PRK07994 19 VGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIAR 56 (647)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHH
Confidence 3789999999999998865 6999999999997433
No 285
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=84.89 E-value=0.53 Score=42.53 Aligned_cols=17 Identities=35% Similarity=0.409 Sum_probs=14.6
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.++++++-+|||||||-
T Consensus 3 ~~~ii~I~GpTasGKS~ 19 (300)
T PRK14729 3 ENKIVFIFGPTAVGKSN 19 (300)
T ss_pred CCcEEEEECCCccCHHH
Confidence 35689999999999995
No 286
>CHL00181 cbbX CbbX; Provisional
Probab=84.83 E-value=0.65 Score=41.15 Aligned_cols=19 Identities=26% Similarity=0.303 Sum_probs=15.0
Q ss_pred CceeeeCCCCCCchHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~ 68 (194)
-+++|.+|+|||||...-+
T Consensus 60 ~~ill~G~pGtGKT~lAr~ 78 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALK 78 (287)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 4589999999999965433
No 287
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=84.79 E-value=1.6 Score=42.96 Aligned_cols=43 Identities=19% Similarity=0.331 Sum_probs=36.3
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHH
Q psy14272 25 FPFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 25 ~~fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L 67 (194)
..-||.|.+.|...+..+...+.++ +..++.+.||+|||+.+.
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia 50 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMA 50 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHH
Confidence 4568999999999999999999766 356789999999998643
No 288
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=84.72 E-value=0.88 Score=43.81 Aligned_cols=30 Identities=20% Similarity=0.192 Sum_probs=21.4
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
.|.++.|-+|||+|||-+...-+..+...+
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~ 284 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRH 284 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhc
Confidence 357899999999999977655544443343
No 289
>PRK00698 tmk thymidylate kinase; Validated
Probab=84.62 E-value=0.51 Score=37.90 Aligned_cols=22 Identities=32% Similarity=0.373 Sum_probs=17.1
Q ss_pred cCCceeeeCCCCCCchHHHHHHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al 71 (194)
.|..++||+|.|+|||- ++-.|
T Consensus 2 ~~~~I~ieG~~gsGKsT--~~~~L 23 (205)
T PRK00698 2 RGMFITIEGIDGAGKST--QIELL 23 (205)
T ss_pred CceEEEEECCCCCCHHH--HHHHH
Confidence 36789999999999994 45444
No 290
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=84.61 E-value=1.3 Score=46.66 Aligned_cols=52 Identities=23% Similarity=0.233 Sum_probs=36.9
Q ss_pred CCCCCCCccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 17 PLAEVPSEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 17 ~~~~~~~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..+..|..+.+...||++|+- -.| +|.+| -|.|+.||=||||+..+|+.-.+
T Consensus 156 ~w~~~g~~~~W~m~~yDVQli--Ggi--vLh~G--~IAEM~TGEGKTLvAtlp~yLnA 207 (1112)
T PRK12901 156 HWDAGGNEITWDMVHYDVQLI--GGV--VLHQG--KIAEMATGEGKTLVATLPVYLNA 207 (1112)
T ss_pred ccccccccccCCCcccchHHh--hhh--hhcCC--ceeeecCCCCchhHHHHHHHHHH
Confidence 334456667777889999864 333 23455 57899999999999988865433
No 291
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.38 E-value=1.2 Score=42.94 Aligned_cols=36 Identities=17% Similarity=0.093 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
+|..+.+.+..++..++ ..||.+|.|+|||-...+-
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~Aril 55 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARII 55 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHH
Confidence 68888888888998874 4899999999999654433
No 292
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=84.31 E-value=0.23 Score=48.93 Aligned_cols=23 Identities=26% Similarity=0.387 Sum_probs=20.5
Q ss_pred CceeeeCCCCCCchHHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.++++-||||||||.++++|.|.
T Consensus 176 ~HvlviapTgSGKgvg~ViPnLL 198 (636)
T PRK13880 176 EHVLTYAPTRSGKGVGLVVPTLL 198 (636)
T ss_pred ceEEEEecCCCCCceEEEccchh
Confidence 68999999999999999999653
No 293
>CHL00095 clpC Clp protease ATP binding subunit
Probab=84.28 E-value=0.97 Score=45.54 Aligned_cols=32 Identities=22% Similarity=0.237 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchH
Q psy14272 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSL 64 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTL 64 (194)
-+|-+.+..|..+|... ...+|-+|||+|||.
T Consensus 512 ~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~ 554 (821)
T CHL00095 512 IGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTE 554 (821)
T ss_pred cChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHH
Confidence 47889999998888632 136899999999994
No 294
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=84.20 E-value=1.3 Score=41.33 Aligned_cols=34 Identities=18% Similarity=0.235 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHHHHh----cCCceeeeCCCCCCchH
Q psy14272 31 AYDIQSNFMKNLYYTLD----NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~----~gk~~I~ESPTGTGKTL 64 (194)
-.....+++..+..+.. ..++++|.+|+|+|||.
T Consensus 56 ~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKSt 93 (361)
T smart00763 56 MEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSS 93 (361)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHH
Confidence 44556666666655554 24788999999999995
No 295
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.16 E-value=1.4 Score=42.17 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~ 68 (194)
-+|...+..+..++..+.+ .+|.||.|+|||....+
T Consensus 19 iGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~ 57 (486)
T PRK14953 19 IGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARI 57 (486)
T ss_pred cChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHH
Confidence 4899999999999988743 47999999999865444
No 296
>KOG0332|consensus
Probab=84.09 E-value=0.71 Score=44.01 Aligned_cols=46 Identities=24% Similarity=0.305 Sum_probs=34.4
Q ss_pred CCCC-CCHHHHHHHHHHHHHHhc-CCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 27 FPFD-AYDIQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 27 fPy~-py~iQ~e~M~~I~~~L~~-gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..|. |-.||.-.+.-+. .+ -++.|..|..|||||.+|.+.+|+-..
T Consensus 108 M~F~kPskIQe~aLPlll---~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd 155 (477)
T KOG0332|consen 108 MKFQKPSKIQETALPLLL---AEPPQNLIAQSQSGTGKTAAFVLTMLSRVD 155 (477)
T ss_pred hccCCcchHHHhhcchhh---cCCchhhhhhhcCCCchhHHHHHHHHHhcC
Confidence 4455 7788887666552 22 378999999999999999888877543
No 297
>PRK04195 replication factor C large subunit; Provisional
Probab=84.06 E-value=1.1 Score=42.05 Aligned_cols=32 Identities=19% Similarity=0.226 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHh---c---CCceeeeCCCCCCchHHH
Q psy14272 35 QSNFMKNLYYTLD---N---SKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 35 Q~e~M~~I~~~L~---~---gk~~I~ESPTGTGKTLS~ 66 (194)
|.+....|..++. . .+.++|-||+|||||...
T Consensus 19 ~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 19 NEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred CHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 4444455555554 3 467999999999999543
No 298
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=84.06 E-value=0.98 Score=37.44 Aligned_cols=29 Identities=21% Similarity=0.186 Sum_probs=19.9
Q ss_pred HhcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
+..|..+++.+|+|+|||.-.+.-+...+
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~ 45 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGL 45 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHH
Confidence 34568899999999999864443333333
No 299
>PRK10869 recombination and repair protein; Provisional
Probab=83.98 E-value=0.95 Score=43.82 Aligned_cols=24 Identities=25% Similarity=0.375 Sum_probs=19.0
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+..||-+|||+|||. |+-+|.|+.
T Consensus 23 glnvitGetGaGKS~--ildAi~~ll 46 (553)
T PRK10869 23 GMTVITGETGAGKSI--AIDALGLCL 46 (553)
T ss_pred CcEEEECCCCCChHH--HHHHHHHHh
Confidence 678999999999984 556677664
No 300
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=83.95 E-value=1.9 Score=42.48 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=17.9
Q ss_pred HHhcCCceeeeCCCCCCchHHH
Q psy14272 45 TLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
++..|++++|-+|||+|||-.+
T Consensus 346 ~l~~G~vIaLVGPtGvGKTTta 367 (559)
T PRK12727 346 PLERGGVIALVGPTGAGKTTTI 367 (559)
T ss_pred cccCCCEEEEECCCCCCHHHHH
Confidence 3456788999999999999654
No 301
>KOG0744|consensus
Probab=83.92 E-value=0.75 Score=43.28 Aligned_cols=22 Identities=32% Similarity=0.738 Sum_probs=18.2
Q ss_pred CCceeeeCCCCCCchHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
++.+++.+|.|||||- ||-+|+
T Consensus 177 NRliLlhGPPGTGKTS--LCKaLa 198 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTS--LCKALA 198 (423)
T ss_pred eeEEEEeCCCCCChhH--HHHHHH
Confidence 4678999999999994 777765
No 302
>cd03241 ABC_RecN RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=83.83 E-value=1 Score=39.03 Aligned_cols=28 Identities=21% Similarity=0.415 Sum_probs=21.1
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
....+|-+|||+|||. |+-++.|+....
T Consensus 21 ~~~~~i~G~nGsGKS~--il~ai~~~~~~~ 48 (276)
T cd03241 21 EGLTVLTGETGAGKSI--LLDALSLLLGGR 48 (276)
T ss_pred CCeEEEEcCCCCCHHH--HHHHHHHHhcCC
Confidence 3578899999999985 566778775443
No 303
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=83.79 E-value=1.5 Score=40.09 Aligned_cols=51 Identities=20% Similarity=0.152 Sum_probs=35.7
Q ss_pred cCCCCC--CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 25 FPFPFD--AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 25 ~~fPy~--py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.++|-. .--+|.+....+..++..|+ ..+|.+|.|+|||.....- ..++..
T Consensus 16 ~~~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~l-A~~Llc 71 (351)
T PRK09112 16 VPSPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHL-ANHILS 71 (351)
T ss_pred CCCCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHH-HHHHcC
Confidence 356643 23578888889999999886 4899999999998544332 344433
No 304
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=83.77 E-value=0.52 Score=35.59 Aligned_cols=14 Identities=43% Similarity=0.653 Sum_probs=12.2
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
++|+-+|+|||||-
T Consensus 1 lii~~G~pgsGKSt 14 (143)
T PF13671_consen 1 LIILCGPPGSGKST 14 (143)
T ss_dssp EEEEEESTTSSHHH
T ss_pred CEEEECCCCCCHHH
Confidence 47899999999993
No 305
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=83.74 E-value=1.2 Score=44.81 Aligned_cols=38 Identities=21% Similarity=0.176 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
.-+|...+..|..+|..++ .+||.+|.|+|||....+-
T Consensus 18 IIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriL 58 (709)
T PRK08691 18 LVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARIL 58 (709)
T ss_pred HcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHH
Confidence 3479999999999999875 3699999999999655433
No 306
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=83.69 E-value=0.65 Score=42.75 Aligned_cols=16 Identities=44% Similarity=0.704 Sum_probs=14.6
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
++++|-+|+|||||+.
T Consensus 152 knVLFyGppGTGKTm~ 167 (368)
T COG1223 152 KNVLFYGPPGTGKTMM 167 (368)
T ss_pred ceeEEECCCCccHHHH
Confidence 7899999999999964
No 307
>TIGR02767 TraG-Ti Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems.
Probab=83.68 E-value=0.42 Score=47.22 Aligned_cols=22 Identities=23% Similarity=0.184 Sum_probs=20.1
Q ss_pred CceeeeCCCCCCchHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al 71 (194)
.++++-||||+|||.++++|.+
T Consensus 212 ~H~lv~ApTgsGKgvg~VIPnL 233 (623)
T TIGR02767 212 THMIFFAGSGGFKTTSVVVPTA 233 (623)
T ss_pred ceEEEEeCCCCCccceeehhhh
Confidence 6899999999999999999953
No 308
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=83.58 E-value=0.64 Score=41.30 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=26.3
Q ss_pred ccCCC--CCCCHHHHHHHHHHHHHHh---cC--CceeeeCCCCCCchHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLYYTLD---NS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~~~L~---~g--k~~I~ESPTGTGKTLS~ 66 (194)
.|.|. |.+...|.++-..|...+. +| ..++.-++||||||.++
T Consensus 46 ~f~fD~vf~~~~~q~~v~~~v~p~v~~~~~G~~~~i~ayG~tgSGKT~tl 95 (329)
T cd01366 46 SFSFDRVFDPDASQEDVFEEVSPLVQSALDGYNVCIFAYGQTGSGKTYTM 95 (329)
T ss_pred EEecCEEECCCCCHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCcEEe
Confidence 34444 4455556655555433332 34 34667899999999987
No 309
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=83.51 E-value=1.6 Score=38.87 Aligned_cols=52 Identities=21% Similarity=0.196 Sum_probs=35.9
Q ss_pred CCHHHHHHHHHHHHHHhcC---CceeeeCCCCCCchHHHHHHHHHHHhhhhhhhHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGILKWYYDHKIVGLE 83 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~~ 83 (194)
-|..|++.+..-...+-.| .++++-++-|||||- ++=+++....+.+-++++
T Consensus 31 Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSS-lVkall~~y~~~GLRlIe 85 (249)
T PF05673_consen 31 GIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSS-LVKALLNEYADQGLRLIE 85 (249)
T ss_pred CHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHH-HHHHHHHHHhhcCceEEE
Confidence 5677887666655666555 579999999999984 445556666665555443
No 310
>PF13173 AAA_14: AAA domain
Probab=83.51 E-value=0.91 Score=34.64 Aligned_cols=19 Identities=42% Similarity=0.623 Sum_probs=16.1
Q ss_pred cCCceeeeCCCCCCchHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~ 66 (194)
+++++++.||.|+|||..+
T Consensus 1 n~~~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLL 19 (128)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 4688999999999999643
No 311
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=83.48 E-value=1.1 Score=45.53 Aligned_cols=37 Identities=16% Similarity=0.206 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchHHHHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTLS~L~~al~ 72 (194)
+|-+.+..|.+++... .+.+|-+|||+||| +|+-+|.
T Consensus 570 GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT--~lA~~La 617 (852)
T TIGR03345 570 GQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKT--ETALALA 617 (852)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHH--HHHHHHH
No 312
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=83.46 E-value=1.6 Score=37.89 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHH
Q psy14272 34 IQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLS 65 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS 65 (194)
+|.+....+..++..|. .++|.||+|+|||..
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~l 59 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTV 59 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHH
Confidence 56666667777777773 445589999999964
No 313
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=83.45 E-value=1.3 Score=45.07 Aligned_cols=38 Identities=26% Similarity=0.268 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~~a 70 (194)
-+|...+..|..+|..++ + .||.+|.|+|||.+..+-+
T Consensus 18 iGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lA 58 (824)
T PRK07764 18 IGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILA 58 (824)
T ss_pred cCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHH
Confidence 368888889999998873 3 6899999999997765553
No 314
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=83.43 E-value=1.3 Score=43.79 Aligned_cols=38 Identities=29% Similarity=0.144 Sum_probs=29.9
Q ss_pred CHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
.-+|...+..+..++..++ ..||.||.|+|||....+-
T Consensus 18 IIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~l 58 (605)
T PRK05896 18 IIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIF 58 (605)
T ss_pred hcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 3478888899999997763 3689999999999765544
No 315
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=83.37 E-value=1.1 Score=37.15 Aligned_cols=24 Identities=29% Similarity=0.437 Sum_probs=19.1
Q ss_pred HHHHHHHHhcCCceeeeCCCCCCch
Q psy14272 39 MKNLYYTLDNSKFGIFESPTGTGKS 63 (194)
Q Consensus 39 M~~I~~~L~~gk~~I~ESPTGTGKT 63 (194)
+..|...|.. +..+|-+|+|+|||
T Consensus 26 ~~~l~~~l~~-k~~vl~G~SGvGKS 49 (161)
T PF03193_consen 26 IEELKELLKG-KTSVLLGQSGVGKS 49 (161)
T ss_dssp HHHHHHHHTT-SEEEEECSTTSSHH
T ss_pred HHHHHHHhcC-CEEEEECCCCCCHH
Confidence 3455555665 99999999999998
No 316
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=83.25 E-value=0.87 Score=46.35 Aligned_cols=31 Identities=23% Similarity=0.269 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchH
Q psy14272 34 IQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSL 64 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTL 64 (194)
+|-+.+.+|.+++... .+.+|-+|||+|||-
T Consensus 495 GQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTE 536 (786)
T COG0542 495 GQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTE 536 (786)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHH
Confidence 6888888888888541 468899999999995
No 317
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.21 E-value=1.4 Score=44.47 Aligned_cols=37 Identities=19% Similarity=0.171 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
-+|....+.|..++.+++ ..||.||.|+|||-...+-
T Consensus 18 IGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriL 57 (702)
T PRK14960 18 VGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARIL 57 (702)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 378888889999998884 3599999999999665443
No 318
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.21 E-value=1.3 Score=45.92 Aligned_cols=36 Identities=22% Similarity=0.215 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~~ 69 (194)
+|......|..++..++ + .||.||.|||||....+-
T Consensus 20 GQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiL 58 (944)
T PRK14949 20 GQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLF 58 (944)
T ss_pred CcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHH
Confidence 78888888999998873 3 489999999999665443
No 319
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.17 E-value=1.3 Score=39.58 Aligned_cols=38 Identities=29% Similarity=0.423 Sum_probs=30.4
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSL 66 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~ 66 (194)
|+..-+|...+..+...+.+|. ..+|.||.|+|||...
T Consensus 16 ~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a 56 (367)
T PRK14970 16 FDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCA 56 (367)
T ss_pred HHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 4444588888899999998874 5889999999999543
No 320
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=83.15 E-value=2 Score=43.43 Aligned_cols=49 Identities=18% Similarity=0.135 Sum_probs=38.7
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
--+.|......|...+..-+..++.+.||+|||-.||-.+-..|...+.
T Consensus 199 Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~Gkq 247 (730)
T COG1198 199 LNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQ 247 (730)
T ss_pred cCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCE
Confidence 3478888888887777333789999999999999999887777776543
No 321
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.11 E-value=1.5 Score=43.44 Aligned_cols=41 Identities=20% Similarity=0.241 Sum_probs=31.9
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
|+-.-+|...+..|..++..+++ .||.||.|+|||....+-
T Consensus 15 f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~l 58 (618)
T PRK14951 15 FSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRIL 58 (618)
T ss_pred HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 33334799999999999998743 599999999999655443
No 322
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=83.11 E-value=0.75 Score=41.31 Aligned_cols=42 Identities=19% Similarity=0.276 Sum_probs=28.6
Q ss_pred cCCC--CCCCHHHHHHHHHHHH----HHhcC--CceeeeCCCCCCchHHHH
Q psy14272 25 FPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 25 ~~fP--y~py~iQ~e~M~~I~~----~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
|.|. |.+ ..|.++...+.. .+-+| ..++.-++||||||.+++
T Consensus 50 f~FD~vf~~-~~q~~vy~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~ 99 (334)
T cd01375 50 FKFDGVFHN-ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMT 99 (334)
T ss_pred EEcCcccCC-CCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCeEEcc
Confidence 4444 557 888888766543 22344 457778999999998863
No 323
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=82.95 E-value=1.3 Score=35.09 Aligned_cols=23 Identities=17% Similarity=0.088 Sum_probs=16.6
Q ss_pred ceeeeCCCCCCchHHHHHHHHHH
Q psy14272 51 FGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~w 73 (194)
+++|.+|+|+|||-....-+..+
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~ 24 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYL 24 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 57899999999997654443333
No 324
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=82.87 E-value=1.2 Score=36.70 Aligned_cols=26 Identities=23% Similarity=0.475 Sum_probs=19.9
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
....+|-+|+|+|||- |+-||.|+..
T Consensus 24 ~~~~~i~G~NGsGKS~--ileAi~~~l~ 49 (220)
T PF02463_consen 24 PGLNVIVGPNGSGKSN--ILEAIEFVLG 49 (220)
T ss_dssp SSEEEEEESTTSSHHH--HHHHHHHHTT
T ss_pred CCCEEEEcCCCCCHHH--HHHHHHHHHH
Confidence 4578999999999995 5556776554
No 325
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=82.76 E-value=0.99 Score=45.79 Aligned_cols=31 Identities=26% Similarity=0.288 Sum_probs=22.2
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
...++.+|.||||+|||- |+=|++|+.-...
T Consensus 23 f~~gi~lI~G~nGsGKSS--IldAI~~ALyG~~ 53 (908)
T COG0419 23 FDSGIFLIVGPNGAGKSS--ILDAITFALYGKT 53 (908)
T ss_pred CCCCeEEEECCCCCcHHH--HHHHHHHHHcCCC
Confidence 356789999999999994 4555666654433
No 326
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=82.72 E-value=0.66 Score=37.24 Aligned_cols=16 Identities=31% Similarity=0.505 Sum_probs=14.4
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
|..++||++.|+|||-
T Consensus 3 g~~IvieG~~GsGKsT 18 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTT 18 (195)
T ss_pred ceEEEEECCCCCCHHH
Confidence 6789999999999983
No 327
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=82.65 E-value=1.5 Score=42.51 Aligned_cols=34 Identities=15% Similarity=0.350 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHhc-------CCceeeeCCCCCCchHHHHH
Q psy14272 35 QSNFMKNLYYTLDN-------SKFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 35 Q~e~M~~I~~~L~~-------gk~~I~ESPTGTGKTLS~L~ 68 (194)
...=+..|..||.. .+++|+-+|+|+|||-++-+
T Consensus 24 hkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~ 64 (519)
T PF03215_consen 24 HKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKV 64 (519)
T ss_pred cHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHH
Confidence 34445677777764 35799999999999976544
No 328
>KOG0390|consensus
Probab=82.64 E-value=2.1 Score=43.66 Aligned_cols=55 Identities=22% Similarity=0.117 Sum_probs=42.8
Q ss_pred cCCCC---CCCHHHHHHHHHHHHHHhcC-----Cc-eeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 25 FPFPF---DAYDIQSNFMKNLYYTLDNS-----KF-GIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 25 ~~fPy---~py~iQ~e~M~~I~~~L~~g-----k~-~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
+.+|+ .-||.|.+-...+|+||..- .. +|+--..|+||||-.|.-+.+||+.++.
T Consensus 230 ~~dP~l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~ 293 (776)
T KOG0390|consen 230 VIDPLLKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQ 293 (776)
T ss_pred EecccHhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcC
Confidence 45675 38999999999999999642 22 4555567999999888888888888776
No 329
>KOG0743|consensus
Probab=82.63 E-value=1.6 Score=41.91 Aligned_cols=41 Identities=24% Similarity=0.455 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..=.++|..+...+... .--++-+|.||||| |+|.++..+|
T Consensus 208 ~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKS-S~IaAmAn~L 259 (457)
T KOG0743|consen 208 DLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKS-SFIAAMANYL 259 (457)
T ss_pred hHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHH-HHHHHHHhhc
Confidence 45677888888777653 23678999999999 4555544454
No 330
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=82.61 E-value=0.77 Score=36.64 Aligned_cols=35 Identities=20% Similarity=0.366 Sum_probs=23.5
Q ss_pred HHHHHHHHhcC--CceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 39 MKNLYYTLDNS--KFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 39 M~~I~~~L~~g--k~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
+..|.+++..+ ..+++-||.|+|||- +|--++..+
T Consensus 8 l~~l~~~l~~~~~~~~~l~G~rg~GKTs-Ll~~~~~~~ 44 (234)
T PF01637_consen 8 LEKLKELLESGPSQHILLYGPRGSGKTS-LLKEFINEL 44 (234)
T ss_dssp HHHHHHCHHH--SSEEEEEESTTSSHHH-HHHHHHHHC
T ss_pred HHHHHHHHHhhcCcEEEEEcCCcCCHHH-HHHHHHHHh
Confidence 34566667664 788999999999995 343344444
No 331
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=82.57 E-value=1.8 Score=45.49 Aligned_cols=39 Identities=15% Similarity=0.116 Sum_probs=24.8
Q ss_pred CCHHHHHHH-HHHHHHHhcC---CceeeeCCCCCCchHHHHHH
Q psy14272 31 AYDIQSNFM-KNLYYTLDNS---KFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 31 py~iQ~e~M-~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~~ 69 (194)
-|..|.+-+ ..|..+|... .+++|-||||||||++...-
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~V 801 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSV 801 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHH
Confidence 455555544 4455556533 23458999999999886543
No 332
>PRK14974 cell division protein FtsY; Provisional
Probab=82.53 E-value=2.4 Score=38.79 Aligned_cols=30 Identities=17% Similarity=0.183 Sum_probs=21.1
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.+++|.+|+|+|||-+...-+ .|+...+.+
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA-~~l~~~g~~ 170 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLA-YYLKKNGFS 170 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHH-HHHHHcCCe
Confidence 578899999999997644433 466655444
No 333
>KOG1802|consensus
Probab=82.48 E-value=1.4 Score=44.73 Aligned_cols=46 Identities=24% Similarity=0.323 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
--..|......+ | +..+-|+.+|.|||||++.-.-++..++.+.-.
T Consensus 411 LN~SQ~~AV~~V---L-~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~ 456 (935)
T KOG1802|consen 411 LNASQSNAVKHV---L-QRPLSLIQGPPGTGKTVTSATIVYHLARQHAGP 456 (935)
T ss_pred hchHHHHHHHHH---H-cCCceeeecCCCCCceehhHHHHHHHHHhcCCc
Confidence 346777744444 4 568999999999999987544444444544444
No 334
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=82.30 E-value=2.8 Score=41.42 Aligned_cols=31 Identities=23% Similarity=0.342 Sum_probs=24.2
Q ss_pred CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
-+.|+. ++..++. ..+.|+-+|.|||||...
T Consensus 154 ~d~Qk~---Av~~a~~-~~~~vItGgpGTGKTt~v 184 (615)
T PRK10875 154 VDWQKV---AAAVALT-RRISVISGGPGTGKTTTV 184 (615)
T ss_pred CHHHHH---HHHHHhc-CCeEEEEeCCCCCHHHHH
Confidence 478988 5555554 579999999999999764
No 335
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=82.26 E-value=2.5 Score=38.58 Aligned_cols=37 Identities=11% Similarity=0.168 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLI 67 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L 67 (194)
.||-|...-+.+..++.+|+ -.+|.||.|+||+....
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~ 42 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIR 42 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHH
Confidence 47777888888888888874 35699999999986433
No 336
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=82.26 E-value=0.99 Score=41.66 Aligned_cols=27 Identities=22% Similarity=0.431 Sum_probs=19.6
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
...+.+||-+|||||||-++ .+.+.|-
T Consensus 125 ~kRGLviiVGaTGSGKSTtm-AaMi~yR 151 (375)
T COG5008 125 AKRGLVIIVGATGSGKSTTM-AAMIGYR 151 (375)
T ss_pred ccCceEEEECCCCCCchhhH-HHHhccc
Confidence 34578999999999999874 3334443
No 337
>PRK13822 conjugal transfer coupling protein TraG; Provisional
Probab=82.00 E-value=0.47 Score=46.93 Aligned_cols=23 Identities=22% Similarity=0.236 Sum_probs=20.6
Q ss_pred CCceeeeCCCCCCchHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al 71 (194)
..++++-||||+|||.++++|.|
T Consensus 224 ~~H~Lv~ApTgsGKt~g~VIPnL 246 (641)
T PRK13822 224 STHGLVFAGSGGFKTTSVVVPTA 246 (641)
T ss_pred CceEEEEeCCCCCccceEehhhh
Confidence 36899999999999999999965
No 338
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=81.94 E-value=1.3 Score=42.71 Aligned_cols=25 Identities=28% Similarity=0.409 Sum_probs=19.4
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+..+|.+|||+|||. |+-+|.|+.
T Consensus 22 ~g~~vitG~nGaGKS~--ll~al~~~~ 46 (563)
T TIGR00634 22 RGLTVLTGETGAGKSM--IIDALSLLG 46 (563)
T ss_pred CCeEEEECCCCCCHHH--HHHHHHHHh
Confidence 3578999999999985 455666665
No 339
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=81.93 E-value=1.8 Score=42.02 Aligned_cols=42 Identities=26% Similarity=0.305 Sum_probs=31.5
Q ss_pred CCCCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~a 70 (194)
|.---+|......+..++..++ ..||.||.|||||...-+-+
T Consensus 15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lA 59 (559)
T PRK05563 15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFA 59 (559)
T ss_pred HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHH
Confidence 3333478888999999998763 36889999999996655543
No 340
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=81.92 E-value=0.97 Score=40.16 Aligned_cols=45 Identities=13% Similarity=0.197 Sum_probs=28.7
Q ss_pred CccCCC--CCCCHHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHHH
Q psy14272 23 SEFPFP--FDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 23 ~~~~fP--y~py~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
..|.|. |.+-..|.++...+. +.+-+| ..++.-++||||||.++.
T Consensus 40 ~~f~fd~vf~~~~~q~~vy~~~~~p~v~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 40 QSFTFDRVFGGESTNREVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred eEEecCeEECCCCCHHHHHHHHHHHHHHHHHCCCceeEEeecCCCCCCceecc
Confidence 344444 446667888766543 233345 346668999999999875
No 341
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=81.89 E-value=1.5 Score=41.52 Aligned_cols=26 Identities=19% Similarity=0.257 Sum_probs=18.8
Q ss_pred HHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 40 KNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 40 ~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
+.+..+...+..++|.++|||||++.
T Consensus 210 ~~~~~~a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 210 DQARVVARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred HHHHHHhCcCCCEEEECCCCccHHHH
Confidence 33333334567899999999999963
No 342
>PLN03188 kinesin-12 family protein; Provisional
Probab=81.78 E-value=0.58 Score=49.73 Aligned_cols=50 Identities=16% Similarity=0.113 Sum_probs=33.2
Q ss_pred CCCCCccCCC--CCCCHHHHHHHHHHHHH----HhcC--CceeeeCCCCCCchHHHHH
Q psy14272 19 AEVPSEFPFP--FDAYDIQSNFMKNLYYT----LDNS--KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 19 ~~~~~~~~fP--y~py~iQ~e~M~~I~~~----L~~g--k~~I~ESPTGTGKTLS~L~ 68 (194)
.+.+..|.|. |.|...|.++...+..- +-+| ..++.-|.||||||+++.-
T Consensus 128 ~I~~qtFtFD~VFdp~aTQedVFe~vv~PLV~svLdGyNaTIFAYGQTGSGKTYTM~G 185 (1320)
T PLN03188 128 TINGQTFTFDSIADPESTQEDIFQLVGAPLVENCLAGFNSSVFAYGQTGSGKTYTMWG 185 (1320)
T ss_pred EEeCcEEeCCeeeCCCCCHHHHHHHHHHHHHHHHhcCCcceeecCCCCCCCCCEeeCC
Confidence 3344556666 56878888877765432 2334 3466688999999988753
No 343
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=81.76 E-value=0.79 Score=35.90 Aligned_cols=13 Identities=38% Similarity=0.708 Sum_probs=11.4
Q ss_pred eeeeCCCCCCchH
Q psy14272 52 GIFESPTGTGKSL 64 (194)
Q Consensus 52 ~I~ESPTGTGKTL 64 (194)
++|.+|||+|||-
T Consensus 2 i~i~GpsGsGKst 14 (137)
T cd00071 2 IVLSGPSGVGKST 14 (137)
T ss_pred EEEECCCCCCHHH
Confidence 6788999999994
No 344
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=81.64 E-value=2.8 Score=38.14 Aligned_cols=36 Identities=19% Similarity=0.192 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSL 66 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~ 66 (194)
+||-|...-+.+..++.+++ -.+|.||.|+||+...
T Consensus 4 ~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA 42 (319)
T PRK06090 4 DYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLV 42 (319)
T ss_pred CcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHH
Confidence 68888888889999998875 4889999999998543
No 345
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=81.63 E-value=0.81 Score=36.40 Aligned_cols=18 Identities=28% Similarity=0.477 Sum_probs=14.5
Q ss_pred CCceeeeCCCCCCchHHH
Q psy14272 49 SKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~ 66 (194)
|..+++.+|+|+|||-..
T Consensus 1 ~~~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 1 GRLIYVVGPSGAGKDTLL 18 (179)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 357899999999998543
No 346
>KOG0923|consensus
Probab=81.53 E-value=1.1 Score=45.54 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=20.8
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
.|..++....++|+++.||+|||--
T Consensus 272 ell~av~e~QVLiI~GeTGSGKTTQ 296 (902)
T KOG0923|consen 272 ELLKAVKEHQVLIIVGETGSGKTTQ 296 (902)
T ss_pred HHHHHHHhCcEEEEEcCCCCCcccc
Confidence 4555667889999999999999964
No 347
>KOG0239|consensus
Probab=81.50 E-value=1.5 Score=43.83 Aligned_cols=46 Identities=24% Similarity=0.361 Sum_probs=33.1
Q ss_pred ccCCCCCCCHHHHHHHHHHHH----HHhcCCceee-eCCCCCCchHHHHHH
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYY----TLDNSKFGIF-ESPTGTGKSLSLICG 69 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~----~L~~gk~~I~-ESPTGTGKTLS~L~~ 69 (194)
.|.+-|.|-..|.+....|.. ||+.-.++|| -+.||||||++.--|
T Consensus 363 ~fdkVf~p~~sQ~~VF~e~~~lv~S~lDGYnVCIFAYGQTGSGKTyTM~G~ 413 (670)
T KOG0239|consen 363 KFDKVFGPLASQDDVFEEVSPLVQSALDGYNVCIFAYGQTGSGKTYTMSGP 413 (670)
T ss_pred eeeeecCCcccHHHHHHHHHHHHHHHhcCcceeEEEecccCCCccccccCC
Confidence 344457799999988877654 3444466666 789999999986654
No 348
>KOG0948|consensus
Probab=81.43 E-value=3 Score=42.98 Aligned_cols=51 Identities=18% Similarity=0.202 Sum_probs=38.7
Q ss_pred CccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 23 SEFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 23 ~~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
..-.|||+--|-|... +.||+++..+++-|-|..|||...=.++..-|++.
T Consensus 122 pAk~YPF~LDpFQ~~a----I~Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k 172 (1041)
T KOG0948|consen 122 PAKTYPFTLDPFQSTA----IKCIDRGESVLVSAHTSAGKTVVAEYAIAMSLREK 172 (1041)
T ss_pred cccCCCcccCchHhhh----hhhhcCCceEEEEeecCCCcchHHHHHHHHHHHhc
Confidence 4456788877778774 35779999999999999999998777755555543
No 349
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=81.42 E-value=0.73 Score=41.15 Aligned_cols=44 Identities=18% Similarity=0.285 Sum_probs=28.3
Q ss_pred ccCCC--CCCCHHHHHHHHHH----HHHHhcC--CceeeeCCCCCCchHHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNL----YYTLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I----~~~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
.|.|. |.+..-|.++.+.+ .+.+-+| ..++.-++||||||.++.
T Consensus 52 ~f~FD~vf~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 52 TFRFDYVFDEAVTNEEVYRSTVKPLIPHVFEGGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred eEecceEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEeccCCCCCCceEec
Confidence 34444 45666787777663 3333345 345667899999999875
No 350
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=81.38 E-value=2.9 Score=37.81 Aligned_cols=47 Identities=13% Similarity=0.094 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHh-----------cCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 33 DIQSNFMKNLYYTLD-----------NSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~-----------~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.++.-+.+.|.+.|. .+.+++|-+|+|+|||-+...-+ .++...+.+
T Consensus 87 ~~~~~l~~~l~~~l~~~~~~~~~~~~~~~vi~lvGpnGsGKTTt~~kLA-~~l~~~g~~ 144 (318)
T PRK10416 87 ELKELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTIGKLA-HKYKAQGKK 144 (318)
T ss_pred HHHHHHHHHHHHHhCcCCccccccCCCCeEEEEECCCCCcHHHHHHHHH-HHHHhcCCe
Confidence 345555556655553 24678888999999996544333 344444333
No 351
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=81.32 E-value=2.2 Score=38.20 Aligned_cols=33 Identities=18% Similarity=0.123 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
+.-..+.+.|..+...+..++|.+++||||++.
T Consensus 13 ~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~l 45 (326)
T PRK11608 13 NSFLEVLEQVSRLAPLDKPVLIIGERGTGKELI 45 (326)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHH
Confidence 444555666666667788999999999999863
No 352
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=81.27 E-value=1.4 Score=36.44 Aligned_cols=28 Identities=14% Similarity=0.162 Sum_probs=19.6
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHH
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWY 74 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl 74 (194)
..|.+..+.+|+|||||.-.+--+...+
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~ 48 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAA 48 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 3467899999999999865444333333
No 353
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.19 E-value=1.8 Score=42.08 Aligned_cols=38 Identities=18% Similarity=0.240 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHHH
Q psy14272 32 YDIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~~ 69 (194)
.-+|......+..++..|+ + .||.+|.|+|||....+-
T Consensus 18 iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~l 58 (576)
T PRK14965 18 LTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARIL 58 (576)
T ss_pred ccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3478888899999998874 3 589999999999765543
No 354
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=81.18 E-value=0.91 Score=35.86 Aligned_cols=16 Identities=25% Similarity=0.331 Sum_probs=13.9
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
..+++|.+|.|||||-
T Consensus 3 ~~ii~i~G~~GsGKsT 18 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGT 18 (188)
T ss_pred CcEEEEECCCCCCHHH
Confidence 4578999999999985
No 355
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=80.98 E-value=1.6 Score=36.77 Aligned_cols=24 Identities=33% Similarity=0.387 Sum_probs=19.9
Q ss_pred CCceeeeCCCCCCchHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
|.+++|-||.|+|||.-.+.-+++
T Consensus 1 g~~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 1 GYVSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred CceeEEEcCCCCCHHHHHHHHHHH
Confidence 457899999999999877777665
No 356
>KOG0951|consensus
Probab=80.96 E-value=2.3 Score=45.88 Aligned_cols=34 Identities=26% Similarity=0.304 Sum_probs=28.3
Q ss_pred HhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
+....++++.||||+|||-..+..+|.-+..+..
T Consensus 322 l~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r 355 (1674)
T KOG0951|consen 322 LRGDENMLLCAPTGAGKTNVAVLTILQELGNHLR 355 (1674)
T ss_pred hcCcCcEEEeccCCCCchHHHHHHHHHHHhcccc
Confidence 3445789999999999999988888888777655
No 357
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=80.88 E-value=1.9 Score=43.62 Aligned_cols=36 Identities=25% Similarity=0.338 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~ 68 (194)
-+|....+.+..++..++ + .||.||.|+|||....+
T Consensus 21 iGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~Ari 59 (725)
T PRK07133 21 VGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKI 59 (725)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHH
Confidence 478888899999998874 3 48999999999965433
No 358
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=80.88 E-value=1.1 Score=41.19 Aligned_cols=31 Identities=19% Similarity=0.172 Sum_probs=21.6
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.+++++-+.||||||- +|-..|..+...+.+
T Consensus 15 ~~~~li~G~~GsGKT~-~i~~ll~~~~~~g~~ 45 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQ-AIRHLLDQIRARGDR 45 (386)
T ss_dssp GG-EEEEE-TTSSHHH-HHHHHHHHHHHTT-E
T ss_pred hCcEEEECCCCCCHHH-HHHHHHHHHHHcCCE
Confidence 4678999999999996 667777776665544
No 359
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=80.82 E-value=0.67 Score=34.90 Aligned_cols=24 Identities=25% Similarity=0.383 Sum_probs=18.4
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
..|.++.|-+|+|+|||. |+-+|.
T Consensus 9 ~~g~~~~i~G~nGsGKSt--Ll~~l~ 32 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKST--LLKALA 32 (137)
T ss_dssp ETTSEEEEEESTTSSHHH--HHHHHT
T ss_pred cCCCEEEEEccCCCcccc--ceeeec
Confidence 467899999999999995 344444
No 360
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.74 E-value=2 Score=42.77 Aligned_cols=34 Identities=18% Similarity=0.372 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHhc-------CCceeeeCCCCCCchHHH
Q psy14272 33 DIQSNFMKNLYYTLDN-------SKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~-------gk~~I~ESPTGTGKTLS~ 66 (194)
-+|...+..|..+|.. +.+++|-+|+|+|||-.+
T Consensus 87 ~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~ 127 (637)
T TIGR00602 87 AVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTI 127 (637)
T ss_pred cCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHH
Confidence 4677777788887764 345999999999999754
No 361
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=80.72 E-value=1.1 Score=40.05 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=25.6
Q ss_pred CCCCCHHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHH
Q psy14272 28 PFDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 28 Py~py~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~ 66 (194)
-|.+-..|.++-..+. +.+-.| ..++.-++||||||.++
T Consensus 55 vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm 99 (333)
T cd01371 55 VYDPNSTQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTM 99 (333)
T ss_pred ccCCCccHHHHHHHHHHHHHHHHhCCCceeEEecCCCCCCCcEee
Confidence 3566677877765433 233344 34666899999999775
No 362
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=80.69 E-value=0.96 Score=43.47 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=32.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHH
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~ 66 (194)
+.|.-...|....+.+.-++..+.+++|-+|+|||||..+
T Consensus 189 ~d~~dv~Gq~~~~~al~~aa~~g~~vlliG~pGsGKTtla 228 (499)
T TIGR00368 189 LDLKDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLA 228 (499)
T ss_pred CCHHHhcCcHHHHhhhhhhccCCCEEEEEecCCCCHHHHH
Confidence 4455556688888888888888899999999999999643
No 363
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=80.66 E-value=0.75 Score=40.85 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=27.5
Q ss_pred ccCCC--CCCCHHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~ 66 (194)
.|.|. |.|-..|.++-..+. +.+-.| ..++.-++||||||.++
T Consensus 44 ~f~FD~vf~~~~~q~~vy~~~~~~~v~~~~~G~n~~i~ayG~tgSGKT~Tm 94 (325)
T cd01369 44 TFSFDRVFPPNTTQEDVYNFVAKPIVDDVLNGYNGTIFAYGQTGSGKTYTM 94 (325)
T ss_pred EEEcCeEECCCCCHHHHHHHHHHHHHHHHHcCccceEEEeCCCCCCceEEe
Confidence 45554 456667777665542 223345 34567899999999885
No 364
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=80.53 E-value=3.1 Score=39.63 Aligned_cols=50 Identities=18% Similarity=0.273 Sum_probs=35.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcC-CceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNS-KFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~g-k~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
-|...|+.++..|.-.+ -|... +.+.+-++-|||||+-.||++|.-..+.
T Consensus 223 vwGi~prn~eQ~~ALdl--Lld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~ 273 (436)
T COG1875 223 VWGIRPRNAEQRVALDL--LLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLER 273 (436)
T ss_pred hhccCcccHHHHHHHHH--hcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHH
Confidence 46677887777653222 23332 6788899999999999999988755443
No 365
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=80.50 E-value=1.4 Score=39.63 Aligned_cols=24 Identities=17% Similarity=0.187 Sum_probs=18.2
Q ss_pred CceeeeCCCCCCchHHHHHHHHHH
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~w 73 (194)
.++|+.+..|||||+-++.-+-..
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHh
Confidence 578999999999998665554333
No 366
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=80.50 E-value=1.9 Score=40.81 Aligned_cols=16 Identities=50% Similarity=0.592 Sum_probs=13.9
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
+.++|.+|+|||||+.
T Consensus 218 ~gVLL~GPPGTGKT~L 233 (438)
T PTZ00361 218 KGVILYGPPGTGKTLL 233 (438)
T ss_pred cEEEEECCCCCCHHHH
Confidence 5688999999999975
No 367
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=80.44 E-value=1.9 Score=44.26 Aligned_cols=35 Identities=23% Similarity=0.261 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLI 67 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L 67 (194)
=+|..+++.|..+|..++ ..||.+|.|||||....
T Consensus 19 IGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAr 56 (830)
T PRK07003 19 VGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSR 56 (830)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHH
Confidence 378999999999998874 35899999999996443
No 368
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=80.44 E-value=1 Score=40.58 Aligned_cols=43 Identities=23% Similarity=0.315 Sum_probs=28.7
Q ss_pred ccCCC--CCCCHHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~ 66 (194)
.|.|. |.|...|.++...+. +.+-+| .-++.-++||||||.++
T Consensus 55 ~f~Fd~vf~~~~~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm 105 (338)
T cd01370 55 KYSFDRVFDETSTQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTM 105 (338)
T ss_pred EEEeccccCCCCCHHHHHHHHHHHHHHHHHCCCCceEEeeCCCCCCCeEEE
Confidence 34444 557777888776654 233345 34666899999999986
No 369
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=80.43 E-value=2 Score=43.25 Aligned_cols=30 Identities=13% Similarity=0.305 Sum_probs=24.0
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHhhh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYYDH 77 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~ 77 (194)
+.++++|+.+..|||||-..|-- ++||.-.
T Consensus 224 ek~~ilVVQGaAGSGKTtiALHR-vAyLlY~ 253 (747)
T COG3973 224 EKNKILVVQGAAGSGKTTIALHR-VAYLLYG 253 (747)
T ss_pred cCCCeEEEecCCCCCchhHHHHH-HHHHHhc
Confidence 34789999999999999888777 5666543
No 370
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=80.38 E-value=2.5 Score=38.43 Aligned_cols=39 Identities=10% Similarity=0.058 Sum_probs=29.6
Q ss_pred CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 31 AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
.||-|...-+.+...+.+|+ -.+|.||.|+||+...+.-
T Consensus 3 ~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~ 44 (334)
T PRK07993 3 WYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYAL 44 (334)
T ss_pred CCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHH
Confidence 56777777778888888874 3669999999998654443
No 371
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=80.35 E-value=1.6 Score=35.58 Aligned_cols=22 Identities=18% Similarity=0.234 Sum_probs=17.2
Q ss_pred cCCceeeeCCCCCCchHHHHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~ 69 (194)
.|.+..+.+|+|+|||.-.+-.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~ 32 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMIL 32 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHH
Confidence 3578999999999999754433
No 372
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=80.31 E-value=2 Score=41.87 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
=+|...+..+..++.++++ .||.||.|+|||.+..+-
T Consensus 19 iGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~l 58 (563)
T PRK06647 19 EGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAF 58 (563)
T ss_pred cCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHH
Confidence 3788888899999988744 589999999999765554
No 373
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=80.24 E-value=2.1 Score=38.64 Aligned_cols=26 Identities=19% Similarity=0.215 Sum_probs=19.4
Q ss_pred HHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 39 MKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 39 M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
.+.+..+......++|.+++||||++
T Consensus 12 ~~~~~~~a~~~~pVLI~GE~GtGK~~ 37 (329)
T TIGR02974 12 LEQVSRLAPLDRPVLIIGERGTGKEL 37 (329)
T ss_pred HHHHHHHhCCCCCEEEECCCCChHHH
Confidence 33444444567889999999999996
No 374
>KOG0745|consensus
Probab=80.23 E-value=0.95 Score=44.00 Aligned_cols=22 Identities=32% Similarity=0.531 Sum_probs=16.8
Q ss_pred CCceeeeCCCCCCchHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
..++|+-+|||||||| |.-.|+
T Consensus 226 KSNvLllGPtGsGKTl--laqTLA 247 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTL--LAQTLA 247 (564)
T ss_pred cccEEEECCCCCchhH--HHHHHH
Confidence 4689999999999996 444444
No 375
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=80.15 E-value=1.7 Score=36.66 Aligned_cols=28 Identities=18% Similarity=0.108 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhc----CCceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLDN----SKFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~~----gk~~I~ESPTGTGKTL 64 (194)
..+..|.+.|.. ..++.+-|+.|+|||-
T Consensus 3 ~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~ 34 (287)
T PF00931_consen 3 KEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTT 34 (287)
T ss_dssp HHHHHHHHHHHTTTTSSEEEEEEESTTSSHHH
T ss_pred HHHHHHHHHhhCCCCCeEEEEEEcCCcCCcce
Confidence 346677777866 3788999999999995
No 376
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=79.99 E-value=1.8 Score=42.96 Aligned_cols=37 Identities=14% Similarity=0.120 Sum_probs=29.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
++|--+|...+..+.+.|..+ .+.||-+|+|||||..
T Consensus 181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l 219 (731)
T TIGR02639 181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAI 219 (731)
T ss_pred CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHH
Confidence 346567888888888888654 5799999999999975
No 377
>PRK08233 hypothetical protein; Provisional
Probab=79.99 E-value=0.99 Score=35.45 Aligned_cols=15 Identities=27% Similarity=0.428 Sum_probs=12.8
Q ss_pred CCceeeeCCCCCCch
Q psy14272 49 SKFGIFESPTGTGKS 63 (194)
Q Consensus 49 gk~~I~ESPTGTGKT 63 (194)
+.++.|.+|+|||||
T Consensus 3 ~~iI~I~G~~GsGKt 17 (182)
T PRK08233 3 TKIITIAAVSGGGKT 17 (182)
T ss_pred ceEEEEECCCCCCHH
Confidence 356788999999998
No 378
>PRK00131 aroK shikimate kinase; Reviewed
Probab=79.93 E-value=0.94 Score=35.07 Aligned_cols=17 Identities=24% Similarity=0.184 Sum_probs=14.7
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.+..++|-+|+|||||.
T Consensus 3 ~~~~i~l~G~~GsGKst 19 (175)
T PRK00131 3 KGPNIVLIGFMGAGKST 19 (175)
T ss_pred CCCeEEEEcCCCCCHHH
Confidence 46789999999999985
No 379
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=79.85 E-value=1.7 Score=35.71 Aligned_cols=27 Identities=22% Similarity=0.270 Sum_probs=19.6
Q ss_pred HhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
|..|.+.++.+|+|+|||.-.+.-+..
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~~a~~ 42 (218)
T cd01394 16 VERGTVTQVYGPPGTGKTNIAIQLAVE 42 (218)
T ss_pred ccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 344678999999999999755444433
No 380
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=79.78 E-value=0.99 Score=40.81 Aligned_cols=35 Identities=20% Similarity=0.186 Sum_probs=23.8
Q ss_pred HHHHHHHHHHH----HHHhcC--CceeeeCCCCCCchHHHH
Q psy14272 33 DIQSNFMKNLY----YTLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 33 ~iQ~e~M~~I~----~~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
..|.++...+. +.+-.| ..++.-++||||||.+++
T Consensus 67 ~tq~~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~ 107 (356)
T cd01365 67 ASQEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMM 107 (356)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEec
Confidence 56887766543 333345 346678999999999764
No 381
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=79.77 E-value=2.4 Score=42.48 Aligned_cols=31 Identities=16% Similarity=0.210 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHh--------cCCceeeeCCCCCCchHH
Q psy14272 35 QSNFMKNLYYTLD--------NSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 35 Q~e~M~~I~~~L~--------~gk~~I~ESPTGTGKTLS 65 (194)
|......|.+.+. .+.+++|-+|+|||||..
T Consensus 325 ~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~l 363 (775)
T TIGR00763 325 LKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSL 363 (775)
T ss_pred hHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHH
Confidence 4444555554332 346799999999999954
No 382
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=79.74 E-value=2.5 Score=44.72 Aligned_cols=39 Identities=21% Similarity=0.178 Sum_probs=30.9
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..+.|.+.+. ..+..+++.|+-|||||.++..-++.++.
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~ 40 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKIL 40 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHh
Confidence 3577887554 35788999999999999998887777664
No 383
>KOG2373|consensus
Probab=79.68 E-value=0.94 Score=43.13 Aligned_cols=22 Identities=23% Similarity=0.575 Sum_probs=17.1
Q ss_pred HhcCCceeeeCCCCCCchHHHHH
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~ 68 (194)
...|...||.+|||+|||- |||
T Consensus 270 hR~GElTvlTGpTGsGKTT-Fls 291 (514)
T KOG2373|consen 270 HRPGELTVLTGPTGSGKTT-FLS 291 (514)
T ss_pred CCCCceEEEecCCCCCcee-Eeh
Confidence 3446789999999999993 444
No 384
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=79.61 E-value=0.92 Score=40.94 Aligned_cols=16 Identities=31% Similarity=0.501 Sum_probs=14.0
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
.+++++-+|||||||-
T Consensus 4 ~~~i~i~GptgsGKt~ 19 (307)
T PRK00091 4 PKVIVIVGPTASGKTA 19 (307)
T ss_pred ceEEEEECCCCcCHHH
Confidence 4678999999999995
No 385
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=79.46 E-value=3.2 Score=43.35 Aligned_cols=44 Identities=18% Similarity=0.200 Sum_probs=30.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+..-+.|.+.+..| +....++|+.++.|||||.. |-.++..+..
T Consensus 345 ~~Ls~eQr~Av~~i---l~s~~v~vv~G~AGTGKTT~-l~~~~~~~e~ 388 (988)
T PRK13889 345 LVLSGEQADALAHV---TDGRDLGVVVGYAGTGKSAM-LGVAREAWEA 388 (988)
T ss_pred CCCCHHHHHHHHHH---hcCCCeEEEEeCCCCCHHHH-HHHHHHHHHH
Confidence 34568999865554 45566899999999999975 3344444443
No 386
>PRK05973 replicative DNA helicase; Provisional
Probab=79.32 E-value=1.5 Score=38.31 Aligned_cols=35 Identities=17% Similarity=0.215 Sum_probs=23.4
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.+..-|..|..+++-|++|+|||.-.+--+..-+.
T Consensus 56 ~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~ 90 (237)
T PRK05973 56 ELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK 90 (237)
T ss_pred HhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 34444556788999999999999754443333333
No 387
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=79.25 E-value=1.3 Score=39.06 Aligned_cols=16 Identities=44% Similarity=0.601 Sum_probs=12.2
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
++.+|-+|||||||--
T Consensus 2 ~v~~i~GpT~tGKt~~ 17 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTAL 17 (233)
T ss_dssp EEEEEE-STTSSHHHH
T ss_pred cEEEEECCCCCChhHH
Confidence 3578899999999954
No 388
>PRK13975 thymidylate kinase; Provisional
Probab=79.24 E-value=1.1 Score=36.09 Aligned_cols=16 Identities=44% Similarity=0.754 Sum_probs=13.9
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
+..++|++|.|+|||-
T Consensus 2 ~~~I~ieG~~GsGKtT 17 (196)
T PRK13975 2 NKFIVFEGIDGSGKTT 17 (196)
T ss_pred CeEEEEECCCCCCHHH
Confidence 4678999999999984
No 389
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=79.22 E-value=3 Score=39.55 Aligned_cols=49 Identities=14% Similarity=-0.001 Sum_probs=42.4
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
-.|+|......+.+.+.+.+..|+-|-||+|||=- +..++.+....+.+
T Consensus 98 Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEM-if~~i~~al~~G~~ 146 (441)
T COG4098 98 LSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEM-IFQGIEQALNQGGR 146 (441)
T ss_pred cChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhh-hHHHHHHHHhcCCe
Confidence 45899999999999999999999999999999975 66778887776655
No 390
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=79.05 E-value=1.9 Score=36.71 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=17.1
Q ss_pred HhcCCceeeeCCCCCCchHH
Q psy14272 46 LDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS 65 (194)
+..|..+++.+|+|||||.-
T Consensus 21 i~~g~~~~i~G~~G~GKTtl 40 (230)
T PRK08533 21 IPAGSLILIEGDESTGKSIL 40 (230)
T ss_pred CCCCcEEEEECCCCCCHHHH
Confidence 45678999999999999965
No 391
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=79.00 E-value=1.2 Score=40.84 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.7
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
+.+++.+|+|||||+.
T Consensus 166 ~gvLL~GppGtGKT~l 181 (389)
T PRK03992 166 KGVLLYGPPGTGKTLL 181 (389)
T ss_pred CceEEECCCCCChHHH
Confidence 4588999999999964
No 392
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=78.97 E-value=2 Score=35.99 Aligned_cols=18 Identities=33% Similarity=0.418 Sum_probs=15.3
Q ss_pred cCCceeeeCCCCCCchHH
Q psy14272 48 NSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS 65 (194)
.|.++++.+|+|||||.=
T Consensus 24 ~g~~~~i~G~~GsGKt~l 41 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVL 41 (234)
T ss_pred CCcEEEEECCCCCChHHH
Confidence 457899999999999853
No 393
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=78.94 E-value=1.1 Score=36.26 Aligned_cols=16 Identities=31% Similarity=0.524 Sum_probs=14.0
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
|.+++|-+|+|+|||-
T Consensus 2 g~~i~l~G~sGsGKsT 17 (186)
T PRK10078 2 GKLIWLMGPSGSGKDS 17 (186)
T ss_pred CcEEEEECCCCCCHHH
Confidence 5678999999999984
No 394
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=78.91 E-value=2.7 Score=39.13 Aligned_cols=33 Identities=21% Similarity=0.362 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHhcCC------------ceeeeCCCCCCchHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK------------FGIFESPTGTGKSLSL 66 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk------------~~I~ESPTGTGKTLS~ 66 (194)
+|......+..++..+. -.+|.+|.|+|||...
T Consensus 9 Gq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA 53 (394)
T PRK07940 9 GQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAA 53 (394)
T ss_pred ChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHH
Confidence 68888888888887653 2789999999998543
No 395
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=78.85 E-value=1.8 Score=35.51 Aligned_cols=30 Identities=10% Similarity=0.056 Sum_probs=21.5
Q ss_pred HhcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
+..|.+..+-+|+|+|||.-.+.-+...+.
T Consensus 16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~ 45 (226)
T cd01393 16 IPTGRITEIFGEFGSGKTQLCLQLAVEAQL 45 (226)
T ss_pred CcCCcEEEEeCCCCCChhHHHHHHHHHhhc
Confidence 344689999999999999755544444443
No 396
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=78.79 E-value=3.6 Score=43.16 Aligned_cols=46 Identities=26% Similarity=0.275 Sum_probs=38.0
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..+|.|.+-++-++....+|..+|+--..|.|||+..|+. +.|+..
T Consensus 169 ~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIal-L~~L~~ 214 (1033)
T PLN03142 169 KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISL-LGYLHE 214 (1033)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHH-HHHHHH
Confidence 4789999999988888888888999999999999986554 555543
No 397
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=78.76 E-value=0.84 Score=41.29 Aligned_cols=44 Identities=20% Similarity=0.331 Sum_probs=28.9
Q ss_pred ccCCC--CCCCHHHHHHHHHHHH----HHhcC--CceeeeCCCCCCchHHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~~----~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
.|.|. |.|-..|.++-..+.. .+-+| ..++.-++||||||.+++
T Consensus 56 ~f~Fd~vf~~~~tq~~vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~ 107 (345)
T cd01368 56 KFSFSKVFGPNTTQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQ 107 (345)
T ss_pred EeecCeEECCCCCHHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEec
Confidence 34444 5566778877665432 23345 346678999999999863
No 398
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=78.74 E-value=4.1 Score=40.72 Aligned_cols=45 Identities=18% Similarity=0.195 Sum_probs=31.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 27 FPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 27 fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
+++..-+.|.+.+..+ + .+++.|+.++.|||||..+ ..++..+..
T Consensus 320 ~~~~l~~~Q~~Ai~~~---~-~~~~~iitGgpGTGKTt~l-~~i~~~~~~ 364 (720)
T TIGR01448 320 LRKGLSEEQKQALDTA---I-QHKVVILTGGPGTGKTTIT-RAIIELAEE 364 (720)
T ss_pred cCCCCCHHHHHHHHHH---H-hCCeEEEECCCCCCHHHHH-HHHHHHHHH
Confidence 4556678999976665 3 4679999999999999643 344444433
No 399
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.68 E-value=2.5 Score=42.00 Aligned_cols=36 Identities=17% Similarity=0.080 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 34 IQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 34 iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
+|......|..++.+++ ..||.+|.|+|||....+-
T Consensus 20 GQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiAril 58 (624)
T PRK14959 20 GQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIF 58 (624)
T ss_pred CCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 67788888888898875 3779999999999765544
No 400
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=78.66 E-value=1.6 Score=45.27 Aligned_cols=27 Identities=19% Similarity=0.222 Sum_probs=19.8
Q ss_pred hcCCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 47 DNSKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
..+++.+|-+|||+|||-. +-+|+|+.
T Consensus 28 ~~~~l~~I~G~tGaGKSti--ldai~~aL 54 (1047)
T PRK10246 28 ASNGLFAITGPTGAGKTTL--LDAICLAL 54 (1047)
T ss_pred CCCCEEEEECCCCCCHHHH--HHHHHHHh
Confidence 4568899999999999953 34455544
No 401
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=78.65 E-value=2 Score=43.96 Aligned_cols=26 Identities=31% Similarity=0.355 Sum_probs=20.1
Q ss_pred cCCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
..++.++.||.|||||-+++-..-.|
T Consensus 48 ~~~V~vVRSpMGTGKTtaLi~wLk~~ 73 (824)
T PF02399_consen 48 KRGVLVVRSPMGTGKTTALIRWLKDA 73 (824)
T ss_pred CCCeEEEECCCCCCcHHHHHHHHHHh
Confidence 46889999999999997765544334
No 402
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=78.61 E-value=2.8 Score=40.62 Aligned_cols=39 Identities=13% Similarity=0.061 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-|.|.+.+.. ..+++++-|+.|||||.+++.-+...+..
T Consensus 3 n~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~ 41 (664)
T TIGR01074 3 NPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKIAYLIQN 41 (664)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHh
Confidence 3567663322 35689999999999999988876555543
No 403
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=78.60 E-value=2.7 Score=41.28 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=18.1
Q ss_pred HHHHHHhcCCceeeeCCCCCCchH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
.+..+...+..++|.++||||||+
T Consensus 391 ~~~~~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 391 QVEMVAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred HHHHHhCCCCCEEEECCCCcCHHH
Confidence 333344556789999999999996
No 404
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=78.58 E-value=1.7 Score=42.72 Aligned_cols=37 Identities=24% Similarity=0.329 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 29 FDAYDIQSNFMKNLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
|.---+|...|..+...+... .+++|-+|+|||||..
T Consensus 153 ~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTL 191 (615)
T TIGR02903 153 FSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTA 191 (615)
T ss_pred HHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 333346777888777777544 5699999999999853
No 405
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=78.48 E-value=2 Score=37.80 Aligned_cols=30 Identities=13% Similarity=0.051 Sum_probs=20.0
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
++++|-+|||+|||-+..--+. |+...+.+
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~-~l~~~g~~ 102 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLAN-KLKKQGKS 102 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHH-HHHhcCCE
Confidence 5677789999999976555543 34444443
No 406
>PF14516 AAA_35: AAA-like domain
Probab=78.47 E-value=3.6 Score=36.93 Aligned_cols=44 Identities=16% Similarity=0.245 Sum_probs=31.1
Q ss_pred CCCH-HHHHHHHHHHHHHhc-CCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 30 DAYD-IQSNFMKNLYYTLDN-SKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 30 ~py~-iQ~e~M~~I~~~L~~-gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
-.|+ +.. .+|+.|.+ |..+.+-||-.+||| |++.-++..+...+
T Consensus 14 i~R~~~e~----~~~~~i~~~G~~~~I~apRq~GKT-Sll~~l~~~l~~~~ 59 (331)
T PF14516_consen 14 IERPPAEQ----ECYQEIVQPGSYIRIKAPRQMGKT-SLLLRLLERLQQQG 59 (331)
T ss_pred cCchHHHH----HHHHHHhcCCCEEEEECcccCCHH-HHHHHHHHHHHHCC
Confidence 3555 444 55666666 999999999999999 45666666666543
No 407
>KOG3928|consensus
Probab=78.47 E-value=1.8 Score=41.61 Aligned_cols=31 Identities=26% Similarity=0.386 Sum_probs=24.9
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
+-.|+-++.|||||++ ||-++.|..+++--+
T Consensus 180 ~r~vL~Ge~GtGKSia-L~qa~h~a~~~~wlI 210 (461)
T KOG3928|consen 180 KRFVLDGEPGTGKSIA-LAQAVHYAADQKWLI 210 (461)
T ss_pred eEEEEeCCCCCchhhH-HHHHHHHHhcCCeEE
Confidence 4589999999999998 666789998875433
No 408
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=78.46 E-value=0.25 Score=42.96 Aligned_cols=38 Identities=18% Similarity=0.429 Sum_probs=27.1
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 24 EFPFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
.+.|.|.+. ...+..+.-.+..|..+++-+|||+|||-
T Consensus 8 ~l~~~y~~~---~~~l~~v~~~i~~Ge~~~i~G~nGsGKST 45 (235)
T COG1122 8 NLSFRYPGR---KAALKDVSLEIEKGERVLLIGPNGSGKST 45 (235)
T ss_pred EEEEEcCCC---ceeeeeeEEEECCCCEEEEECCCCCCHHH
Confidence 355666655 34444555556778999999999999984
No 409
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.42 E-value=1.7 Score=44.76 Aligned_cols=24 Identities=17% Similarity=0.292 Sum_probs=19.2
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
++.+|.||||+|||- |+-+|+|+.
T Consensus 27 gl~~I~G~nGaGKST--ildAI~~aL 50 (1042)
T TIGR00618 27 PIFLICGKTGAGKTT--LLDAITYAL 50 (1042)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHHh
Confidence 788899999999994 556677665
No 410
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=78.37 E-value=1.5 Score=44.11 Aligned_cols=43 Identities=16% Similarity=0.006 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-.|+|.- +|...|-+|.+.++-|+|+|||||.-=++-+.-+..
T Consensus 217 LlPVQ~l---aVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~ 259 (830)
T COG1202 217 LLPVQVL---AVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS 259 (830)
T ss_pred ecchhhh---hhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh
Confidence 4577766 666677788999999999999998655554554444
No 411
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=78.35 E-value=2.9 Score=43.31 Aligned_cols=41 Identities=27% Similarity=0.374 Sum_probs=30.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.+.+.||++|.- -.| +|..| -|.|+.||=||||+..+|+..
T Consensus 74 ~lG~r~ydVQli--Ggl--vLh~G--~IAEMkTGEGKTLvAtLpayL 114 (925)
T PRK12903 74 VLGKRPYDVQII--GGI--ILDLG--SVAEMKTGEGKTITSIAPVYL 114 (925)
T ss_pred HhCCCcCchHHH--HHH--HHhcC--CeeeecCCCCccHHHHHHHHH
Confidence 356778898864 344 35566 478999999999998888643
No 412
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=78.21 E-value=1.9 Score=37.96 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=18.1
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-.+++-||+|||||. ||...|..+..
T Consensus 14 fr~viIG~sGSGKT~-li~~lL~~~~~ 39 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTT-LIKSLLYYLRH 39 (241)
T ss_pred ceEEEECCCCCCHHH-HHHHHHHhhcc
Confidence 357889999999995 44444554443
No 413
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=78.05 E-value=2.6 Score=42.38 Aligned_cols=34 Identities=21% Similarity=0.236 Sum_probs=25.1
Q ss_pred CHHHHHHHH---HHHHHHhcC--CceeeeCCCCCCchHH
Q psy14272 32 YDIQSNFMK---NLYYTLDNS--KFGIFESPTGTGKSLS 65 (194)
Q Consensus 32 y~iQ~e~M~---~I~~~L~~g--k~~I~ESPTGTGKTLS 65 (194)
+-+|...+. .+...+..+ .++||-+|+|||||..
T Consensus 30 ~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTL 68 (725)
T PRK13341 30 FVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTL 68 (725)
T ss_pred hcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHH
Confidence 446777763 566666665 4699999999999954
No 414
>KOG0243|consensus
Probab=78.01 E-value=1.5 Score=45.78 Aligned_cols=38 Identities=21% Similarity=0.233 Sum_probs=24.8
Q ss_pred CCCCHHHHHHHHHHHHH-----HhcC-CceeeeCCCCCCchHHH
Q psy14272 29 FDAYDIQSNFMKNLYYT-----LDNS-KFGIFESPTGTGKSLSL 66 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~-----L~~g-k~~I~ESPTGTGKTLS~ 66 (194)
|-|-.-|.++...+..- |..- .-++.-|+||||||++.
T Consensus 103 FGpes~Q~d~Y~~~v~p~i~eVl~GyNCTIFAYGQTGTGKTyTM 146 (1041)
T KOG0243|consen 103 FGPESQQEDLYDQAVSPIIKEVLEGYNCTIFAYGQTGTGKTYTM 146 (1041)
T ss_pred eCcchhHHHHHHHHHHHHHHHHhccCCceEEEecCCCCCceeee
Confidence 34766787776654433 3322 34666899999999864
No 415
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=77.96 E-value=6.7 Score=40.61 Aligned_cols=71 Identities=13% Similarity=0.113 Sum_probs=40.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHhc---CCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhHHHHHHHHHhhhhhcCCCCCc
Q psy14272 26 PFPFDAYDIQSNFMKNLYYTLDN---SKFGIFESPTGTGKSLSLICGILKWYYDHKIVGLEKIEAKIKDLEISKNETVSE 102 (194)
Q Consensus 26 ~fPy~py~iQ~e~M~~I~~~L~~---gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~~~~~~~~~~~~~~~~~d~eP 102 (194)
+.+|-+|| .+.+-|.+ .+.++|.||-|.||| |-+..|........ .+..... +++|++|
T Consensus 18 ~~~~v~R~-------rL~~~L~~~~~~RL~li~APAGfGKt----tl~aq~~~~~~~~~------~v~Wlsl-de~dndp 79 (894)
T COG2909 18 PDNYVVRP-------RLLDRLRRANDYRLILISAPAGFGKT----TLLAQWRELAADGA------AVAWLSL-DESDNDP 79 (894)
T ss_pred cccccccH-------HHHHHHhcCCCceEEEEeCCCCCcHH----HHHHHHHHhcCccc------ceeEeec-CCccCCH
Confidence 45566665 33344443 478999999999999 34445643111111 0001122 3347889
Q ss_pred hHHHHHHHHHHH
Q psy14272 103 DWIEQQSFELKM 114 (194)
Q Consensus 103 dWv~e~~~~~~~ 114 (194)
.|+..+-.....
T Consensus 80 ~rF~~yLi~al~ 91 (894)
T COG2909 80 ARFLSYLIAALQ 91 (894)
T ss_pred HHHHHHHHHHHH
Confidence 999887665544
No 416
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=77.91 E-value=3.8 Score=37.71 Aligned_cols=45 Identities=18% Similarity=0.141 Sum_probs=33.7
Q ss_pred cCCCCC--CCHHHHHHHHHHHHHHhcCC---ceeeeCCCCCCchHHHHHH
Q psy14272 25 FPFPFD--AYDIQSNFMKNLYYTLDNSK---FGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 25 ~~fPy~--py~iQ~e~M~~I~~~L~~gk---~~I~ESPTGTGKTLS~L~~ 69 (194)
.++|-. -.-+|.+....+.+++.+|+ -.+|.+|.|+||+...+.-
T Consensus 12 ~~~P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~ 61 (365)
T PRK07471 12 APHPRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRM 61 (365)
T ss_pred CCCCCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHH
Confidence 356632 33479999999999999884 3789999999998654444
No 417
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=77.86 E-value=1.3 Score=34.91 Aligned_cols=19 Identities=37% Similarity=0.683 Sum_probs=14.6
Q ss_pred ceeeeCCCCCCchHHHHHHHH
Q psy14272 51 FGIFESPTGTGKSLSLICGIL 71 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al 71 (194)
+++|++|.|+|||- ++-.|
T Consensus 2 ~I~ieG~~GsGKtT--~~~~L 20 (200)
T cd01672 2 FIVFEGIDGAGKTT--LIELL 20 (200)
T ss_pred EEEEECCCCCCHHH--HHHHH
Confidence 57899999999984 34444
No 418
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=77.81 E-value=1.4 Score=35.40 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=14.3
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
|+++|+-+|.|+|||-
T Consensus 2 ~~~i~l~G~~gsGKst 17 (175)
T cd00227 2 GRIIILNGGSSAGKSS 17 (175)
T ss_pred CCEEEEECCCCCCHHH
Confidence 6789999999999984
No 419
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=77.68 E-value=3.5 Score=33.24 Aligned_cols=26 Identities=31% Similarity=0.523 Sum_probs=18.7
Q ss_pred HHHHHHhcCC---ceeeeCCCCCCchHHH
Q psy14272 41 NLYYTLDNSK---FGIFESPTGTGKSLSL 66 (194)
Q Consensus 41 ~I~~~L~~gk---~~I~ESPTGTGKTLS~ 66 (194)
.+.+.+..++ ..+|.+|.|+|||-..
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a 31 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELLA 31 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3445566663 4889999999998543
No 420
>PRK06893 DNA replication initiation factor; Validated
Probab=77.68 E-value=5.3 Score=33.76 Aligned_cols=28 Identities=18% Similarity=0.124 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhcC--CceeeeCCCCCCchH
Q psy14272 37 NFMKNLYYTLDNS--KFGIFESPTGTGKSL 64 (194)
Q Consensus 37 e~M~~I~~~L~~g--k~~I~ESPTGTGKTL 64 (194)
.+...+.+.+... ..+++-+|+|||||.
T Consensus 25 ~~~~~~~~~~~~~~~~~l~l~G~~G~GKTh 54 (229)
T PRK06893 25 LLLDSLRKNFIDLQQPFFYIWGGKSSGKSH 54 (229)
T ss_pred HHHHHHHHHhhccCCCeEEEECCCCCCHHH
Confidence 3444555444432 346899999999995
No 421
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=77.63 E-value=4 Score=36.75 Aligned_cols=37 Identities=22% Similarity=0.320 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHhcC---CceeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~~ 69 (194)
-+|.+....+..++.+| ...+|.||.|+||+...++-
T Consensus 7 iGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~ 46 (314)
T PRK07399 7 IGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCF 46 (314)
T ss_pred CCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHH
Confidence 46888888888899887 45899999999999665544
No 422
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=77.61 E-value=2 Score=37.21 Aligned_cols=18 Identities=28% Similarity=0.167 Sum_probs=15.6
Q ss_pred cCCceeeeCCCCCCchHH
Q psy14272 48 NSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS 65 (194)
.|.+.++.+|+|||||.-
T Consensus 35 ~gs~~lI~G~pGtGKT~l 52 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLM 52 (259)
T ss_pred CCcEEEEEcCCCCCHHHH
Confidence 468899999999999963
No 423
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.55 E-value=2.6 Score=42.57 Aligned_cols=36 Identities=19% Similarity=0.246 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHhcCC--c-eeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSK--F-GIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk--~-~I~ESPTGTGKTLS~L~ 68 (194)
=+|..+++.|.++|.+++ + .||.+|.|+|||....+
T Consensus 19 IGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAri 57 (700)
T PRK12323 19 VGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRI 57 (700)
T ss_pred cCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHH
Confidence 378999999999999885 3 59999999999965433
No 424
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=77.47 E-value=3.1 Score=41.07 Aligned_cols=38 Identities=11% Similarity=0.030 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 32 YDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
-+.|.+.+.. ..+++++-|+.|||||.+++.- +.||..
T Consensus 4 n~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~R-ia~Li~ 41 (672)
T PRK10919 4 NPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNK-IAHLIR 41 (672)
T ss_pred CHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 3667763332 2467788899999999986666 555553
No 425
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=77.42 E-value=3.9 Score=38.78 Aligned_cols=29 Identities=10% Similarity=0.205 Sum_probs=20.0
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.+++|-+|+|+|||-+...-+ .|+...+.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA-~~L~~~g~ 124 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLA-RYFKKKGL 124 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHH-HHHHHcCC
Confidence 467889999999997755444 34554443
No 426
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=77.38 E-value=2.3 Score=36.03 Aligned_cols=18 Identities=28% Similarity=0.471 Sum_probs=15.6
Q ss_pred hcCCceeeeCCCCCCchH
Q psy14272 47 DNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTL 64 (194)
..|..+++.+|+|+|||.
T Consensus 19 ~~gs~~lI~G~pGsGKT~ 36 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSI 36 (237)
T ss_pred cCCeEEEEEcCCCCCHHH
Confidence 346889999999999996
No 427
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=77.30 E-value=1.1 Score=36.25 Aligned_cols=20 Identities=20% Similarity=0.172 Sum_probs=12.3
Q ss_pred ceeeeCCCCCCchHHHHHHH
Q psy14272 51 FGIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~a 70 (194)
++++|++.|+|||...-.-+
T Consensus 1 HvLleg~PG~GKT~la~~lA 20 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKALA 20 (131)
T ss_dssp -EEEES---HHHHHHHHHHH
T ss_pred CEeeECCCccHHHHHHHHHH
Confidence 58999999999997655433
No 428
>PRK13768 GTPase; Provisional
Probab=77.19 E-value=2 Score=37.11 Aligned_cols=30 Identities=17% Similarity=0.300 Sum_probs=20.0
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.+++|.+|.|+|||-. +.....|+...+.+
T Consensus 3 ~~i~v~G~~G~GKTt~-~~~~~~~l~~~g~~ 32 (253)
T PRK13768 3 YIVFFLGTAGSGKTTL-TKALSDWLEEQGYD 32 (253)
T ss_pred EEEEEECCCCccHHHH-HHHHHHHHHhcCCc
Confidence 3678899999999953 33344466555544
No 429
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=77.14 E-value=1.5 Score=39.47 Aligned_cols=16 Identities=44% Similarity=0.567 Sum_probs=13.4
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
+.++|.+|+|||||+.
T Consensus 157 ~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLL 172 (364)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3488999999999964
No 430
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=77.05 E-value=1.2 Score=38.88 Aligned_cols=30 Identities=23% Similarity=0.424 Sum_probs=22.1
Q ss_pred HHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.+..|..+.+-+|+|||||- |+-++..+..
T Consensus 27 ~i~~Ge~vaI~GpSGSGKST--LLniig~ld~ 56 (226)
T COG1136 27 EIEAGEFVAIVGPSGSGKST--LLNLLGGLDK 56 (226)
T ss_pred EEcCCCEEEEECCCCCCHHH--HHHHHhcccC
Confidence 34678999999999999983 4555555543
No 431
>PLN02165 adenylate isopentenyltransferase
Probab=76.99 E-value=2 Score=39.56 Aligned_cols=18 Identities=33% Similarity=0.416 Sum_probs=15.0
Q ss_pred cCCceeeeCCCCCCchHH
Q psy14272 48 NSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS 65 (194)
.+.+++|-+|||+|||--
T Consensus 42 ~g~iivIiGPTGSGKStL 59 (334)
T PLN02165 42 KDKVVVIMGATGSGKSRL 59 (334)
T ss_pred CCCEEEEECCCCCcHHHH
Confidence 357899999999999953
No 432
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=76.92 E-value=4.5 Score=39.68 Aligned_cols=32 Identities=25% Similarity=0.395 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~ 68 (194)
+.|+. ++..++. ..+.|+.+|.|||||..+..
T Consensus 148 ~~Qk~---A~~~al~-~~~~vitGgpGTGKTt~v~~ 179 (586)
T TIGR01447 148 NWQKV---AVALALK-SNFSLITGGPGTGKTTTVAR 179 (586)
T ss_pred HHHHH---HHHHHhh-CCeEEEEcCCCCCHHHHHHH
Confidence 56766 4444555 57999999999999976433
No 433
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=76.74 E-value=2.5 Score=33.60 Aligned_cols=30 Identities=17% Similarity=0.155 Sum_probs=21.2
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
++.|-+|.||||| +++.-.+.+|...+.++
T Consensus 2 vv~VvG~~~sGKT-Tl~~~Li~~l~~~g~~v 31 (140)
T PF03205_consen 2 VVQVVGPKNSGKT-TLIRKLINELKRRGYRV 31 (140)
T ss_dssp EEEEEESTTSSHH-HHHHHHHHHHHHTT--E
T ss_pred EEEEECCCCCCHH-HHHHHHHHHHhHcCCce
Confidence 5778899999999 45666677777655443
No 434
>PRK06620 hypothetical protein; Validated
Probab=76.64 E-value=1.4 Score=37.33 Aligned_cols=16 Identities=19% Similarity=0.328 Sum_probs=13.5
Q ss_pred CceeeeCCCCCCchHH
Q psy14272 50 KFGIFESPTGTGKSLS 65 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS 65 (194)
..++|-||+|+|||--
T Consensus 45 ~~l~l~Gp~G~GKThL 60 (214)
T PRK06620 45 FTLLIKGPSSSGKTYL 60 (214)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3489999999999963
No 435
>CHL00176 ftsH cell division protein; Validated
Probab=76.60 E-value=2.8 Score=41.57 Aligned_cols=34 Identities=24% Similarity=0.298 Sum_probs=23.5
Q ss_pred CHHHHHHHHHHHHHHhcC-----------CceeeeCCCCCCchHH
Q psy14272 32 YDIQSNFMKNLYYTLDNS-----------KFGIFESPTGTGKSLS 65 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~g-----------k~~I~ESPTGTGKTLS 65 (194)
++.+.+-+..+...+... +.++|.+|+|||||+.
T Consensus 188 ~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~L 232 (638)
T CHL00176 188 IEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLL 232 (638)
T ss_pred hHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHH
Confidence 455555556666555543 3589999999999963
No 436
>KOG0926|consensus
Probab=76.59 E-value=1.9 Score=44.70 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=30.5
Q ss_pred ccCCCCC-CCHHHHHHH--------HHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 24 EFPFPFD-AYDIQSNFM--------KNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 24 ~~~fPy~-py~iQ~e~M--------~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
.|+.+.. |-.||..=+ +.|-++|..+-++|+.+.||+|||--
T Consensus 237 a~yV~V~R~~EIQ~sR~~LPI~aeEq~IMEaIn~n~vvIIcGeTGsGKTTQ 287 (1172)
T KOG0926|consen 237 AFYVIVSRPAEIQESRLDLPIVAEEQRIMEAINENPVVIICGETGSGKTTQ 287 (1172)
T ss_pred cEEEEecCcHHHHHHHhcCchhHHHHHHHHHhhcCCeEEEecCCCCCcccc
Confidence 3444444 667886422 35667778899999999999999964
No 437
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=76.58 E-value=1.9 Score=39.68 Aligned_cols=39 Identities=15% Similarity=0.013 Sum_probs=25.6
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
.+..-+..|..+|+-|+||+|||.-.+--+...+..++.
T Consensus 187 ~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~ 225 (434)
T TIGR00665 187 KLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGK 225 (434)
T ss_pred hhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCC
Confidence 333345567889999999999996555444444444343
No 438
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=76.46 E-value=1.9 Score=36.67 Aligned_cols=35 Identities=14% Similarity=0.139 Sum_probs=26.2
Q ss_pred HHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 45 TLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
-|..|...||-|+||.|||.-.+--++.++..++.
T Consensus 15 G~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~ 49 (259)
T PF03796_consen 15 GLRPGELTVIAARPGVGKTAFALQIALNAALNGGY 49 (259)
T ss_dssp SB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSS
T ss_pred CCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCC
Confidence 34556799999999999998877777777776533
No 439
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=76.42 E-value=1.4 Score=45.52 Aligned_cols=29 Identities=17% Similarity=0.111 Sum_probs=22.4
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhhhhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYDHKI 79 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~~~~ 79 (194)
++=+++-||||||++||=.+...=+.++.
T Consensus 76 NiDI~METGTGKTy~YlrtmfeLhk~YG~ 104 (985)
T COG3587 76 NIDILMETGTGKTYTYLRTMFELHKKYGL 104 (985)
T ss_pred eeeEEEecCCCceeeHHHHHHHHHHHhCc
Confidence 35578999999999999887765555543
No 440
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=76.37 E-value=1.3 Score=36.78 Aligned_cols=25 Identities=16% Similarity=0.205 Sum_probs=19.2
Q ss_pred HhcCCceeeeCCCCCCchHHHHHHHHH
Q psy14272 46 LDNSKFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTLS~L~~al~ 72 (194)
|..|.++.+-+|+|+|||- |+-+|.
T Consensus 28 i~~Ge~~~l~G~nGsGKST--Ll~~l~ 52 (233)
T cd03258 28 VPKGEIFGIIGRSGAGKST--LIRCIN 52 (233)
T ss_pred EcCCCEEEEECCCCCCHHH--HHHHHh
Confidence 4578999999999999994 444444
No 441
>cd03242 ABC_RecF RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases with a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=76.24 E-value=2.6 Score=36.46 Aligned_cols=25 Identities=8% Similarity=0.135 Sum_probs=18.7
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
...++-+|+|+|||. |+-++.|+..
T Consensus 22 ~~~~i~G~NGsGKS~--ll~Ai~~~~~ 46 (270)
T cd03242 22 GVTVLVGENAQGKTN--LLEAISLLAT 46 (270)
T ss_pred CeEEEECCCCCCHHH--HHHHHHHhcc
Confidence 467899999999985 4555666653
No 442
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=76.23 E-value=3 Score=39.36 Aligned_cols=34 Identities=29% Similarity=0.334 Sum_probs=21.9
Q ss_pred CHHHHHHHHHHHHHHhc-----------CCceeeeCCCCCCchHH
Q psy14272 32 YDIQSNFMKNLYYTLDN-----------SKFGIFESPTGTGKSLS 65 (194)
Q Consensus 32 y~iQ~e~M~~I~~~L~~-----------gk~~I~ESPTGTGKTLS 65 (194)
.+.+++-+..+...+.. .+.++|.+|+|||||+.
T Consensus 60 ~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l 104 (495)
T TIGR01241 60 IDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLL 104 (495)
T ss_pred HHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHH
Confidence 34455445555554442 13589999999999964
No 443
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=76.23 E-value=1.6 Score=35.16 Aligned_cols=16 Identities=31% Similarity=0.536 Sum_probs=14.3
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
++++||-+|+|+|||-
T Consensus 2 ~r~ivl~Gpsg~GK~~ 17 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKST 17 (183)
T ss_dssp SSEEEEESSTTSSHHH
T ss_pred CCEEEEECCCCCCHHH
Confidence 5789999999999983
No 444
>KOG1533|consensus
Probab=76.21 E-value=1.8 Score=39.13 Aligned_cols=28 Identities=21% Similarity=0.316 Sum_probs=23.0
Q ss_pred eeeCCCCCCchHHHHHHHHHHHhhhhhhh
Q psy14272 53 IFESPTGTGKSLSLICGILKWYYDHKIVG 81 (194)
Q Consensus 53 I~ESPTGTGKTLS~L~~al~wl~~~~~~~ 81 (194)
++-+|.|+||| +|..+...++...++.+
T Consensus 6 vVIGPPgSGKs-TYc~g~~~fls~~gr~~ 33 (290)
T KOG1533|consen 6 VVIGPPGSGKS-TYCNGMSQFLSAIGRPV 33 (290)
T ss_pred EEEcCCCCCcc-chhhhHHHHHHHhCCce
Confidence 56789999999 68888888888877754
No 445
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=76.16 E-value=0.8 Score=40.48 Aligned_cols=41 Identities=17% Similarity=0.242 Sum_probs=27.2
Q ss_pred CCCCHHHHHHHHHH----HHHHhcC--CceeeeCCCCCCchHHHHHH
Q psy14272 29 FDAYDIQSNFMKNL----YYTLDNS--KFGIFESPTGTGKSLSLICG 69 (194)
Q Consensus 29 y~py~iQ~e~M~~I----~~~L~~g--k~~I~ESPTGTGKTLS~L~~ 69 (194)
|.+-..|.++...+ .+.+-.| ..+|.-++||||||.+++-+
T Consensus 49 f~~~~~q~~vy~~~~~~~v~~~l~G~n~~i~ayG~tgSGKT~Tm~G~ 95 (335)
T PF00225_consen 49 FDEDATQEDVYEEVVSPLVDSVLDGYNATIFAYGQTGSGKTYTMFGS 95 (335)
T ss_dssp EETTSTHHHHHHHHTHHHHHHHHTT-EEEEEEEESTTSSHHHHHTBS
T ss_pred ECCCCCHHHHHHHHHHHHHHHhhcCCceEEEeecccccccccccccc
Confidence 45666787776664 2222345 34667889999999987665
No 446
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=76.09 E-value=1.5 Score=42.54 Aligned_cols=22 Identities=32% Similarity=0.572 Sum_probs=18.7
Q ss_pred CCceeeeCCCCCCchHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~a 70 (194)
+.+++|-+.||||||.++=+-+
T Consensus 19 NRHGLIaGATGTGKTvTLqvlA 40 (502)
T PF05872_consen 19 NRHGLIAGATGTGKTVTLQVLA 40 (502)
T ss_pred cccceeeccCCCCceehHHHHH
Confidence 5789999999999999876554
No 447
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=76.04 E-value=1.4 Score=36.02 Aligned_cols=19 Identities=32% Similarity=0.646 Sum_probs=16.4
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 24 i~~G~~~~i~G~nGsGKST 42 (214)
T cd03292 24 ISAGEFVFLVGPSGAGKST 42 (214)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 4568899999999999983
No 448
>PHA02562 46 endonuclease subunit; Provisional
Probab=75.95 E-value=2.1 Score=40.14 Aligned_cols=25 Identities=24% Similarity=0.329 Sum_probs=18.8
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
.++.+|-||||+|||- |+-++.|+.
T Consensus 27 ~g~~~i~G~NG~GKSt--ll~aI~~~l 51 (562)
T PHA02562 27 VKKTLITGKNGAGKST--MLEALTFAL 51 (562)
T ss_pred CCEEEEECCCCCCHHH--HHHHHHHHH
Confidence 4688889999999985 445566655
No 449
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=75.93 E-value=1.4 Score=35.57 Aligned_cols=19 Identities=21% Similarity=0.293 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 15 i~~Ge~~~i~G~nGsGKST 33 (190)
T TIGR01166 15 AERGEVLALLGANGAGKST 33 (190)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 4578999999999999994
No 450
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.92 E-value=2.5 Score=40.16 Aligned_cols=23 Identities=26% Similarity=0.241 Sum_probs=17.8
Q ss_pred cCCceeeeCCCCCCchHHHHHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSLICGI 70 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L~~a 70 (194)
.+++++|-+|||+|||-.+..-+
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA 227 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLG 227 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHH
Confidence 35788999999999997654444
No 451
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=75.87 E-value=2.2 Score=43.55 Aligned_cols=28 Identities=25% Similarity=0.280 Sum_probs=20.9
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
..++++-+|||+|||+.+-.-+..++..
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q~~~~ 502 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQVMAV 502 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 5789999999999998765544455543
No 452
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=75.76 E-value=3.1 Score=39.51 Aligned_cols=32 Identities=28% Similarity=0.229 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHH----hcCCceeeeCCCCCCchHH
Q psy14272 34 IQSNFMKNLYYTL----DNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 34 iQ~e~M~~I~~~L----~~gk~~I~ESPTGTGKTLS 65 (194)
+|-.-|+.+.+.+ ..+..++|.+++||||++.
T Consensus 191 g~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~ 226 (509)
T PRK05022 191 GQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELV 226 (509)
T ss_pred ecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHH
Confidence 3444454544444 4568899999999999964
No 453
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=75.58 E-value=1.4 Score=36.15 Aligned_cols=19 Identities=32% Similarity=0.670 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 27 i~~G~~~~l~G~nGsGKST 45 (218)
T cd03255 27 IEKGEFVAIVGPSGSGKST 45 (218)
T ss_pred EcCCCEEEEEcCCCCCHHH
Confidence 4578999999999999993
No 454
>PRK14738 gmk guanylate kinase; Provisional
Probab=75.42 E-value=1.6 Score=36.38 Aligned_cols=17 Identities=24% Similarity=0.536 Sum_probs=14.6
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.+..+||.+|.|+|||-
T Consensus 12 ~~~~ivi~GpsG~GK~t 28 (206)
T PRK14738 12 KPLLVVISGPSGVGKDA 28 (206)
T ss_pred CCeEEEEECcCCCCHHH
Confidence 35789999999999984
No 455
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=75.41 E-value=2.5 Score=43.06 Aligned_cols=25 Identities=20% Similarity=0.179 Sum_probs=18.9
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHH
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKW 73 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~w 73 (194)
++++.|-+|||+|||-++..-+..+
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~ 209 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARC 209 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhH
Confidence 5688999999999987655544444
No 456
>PLN02748 tRNA dimethylallyltransferase
Probab=75.33 E-value=1.6 Score=41.90 Aligned_cols=17 Identities=41% Similarity=0.620 Sum_probs=14.6
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.+++++|-+|||||||-
T Consensus 21 ~~~~i~i~GptgsGKs~ 37 (468)
T PLN02748 21 KAKVVVVMGPTGSGKSK 37 (468)
T ss_pred CCCEEEEECCCCCCHHH
Confidence 45789999999999994
No 457
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=75.31 E-value=2.6 Score=38.78 Aligned_cols=40 Identities=10% Similarity=-0.045 Sum_probs=26.6
Q ss_pred HHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhh
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIV 80 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~ 80 (194)
.+..-+..|..+|+-|+||+|||.-.+--+...+..++..
T Consensus 186 ~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~ 225 (421)
T TIGR03600 186 RLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKP 225 (421)
T ss_pred HHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCc
Confidence 3333455678899999999999976665555554333433
No 458
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=75.20 E-value=3.1 Score=39.32 Aligned_cols=19 Identities=32% Similarity=0.260 Sum_probs=16.4
Q ss_pred cCCceeeeCCCCCCchHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSL 66 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~ 66 (194)
.+..+++.++|||||++..
T Consensus 100 ~~~~vLi~GetGtGKel~A 118 (403)
T COG1221 100 SGLPVLIIGETGTGKELFA 118 (403)
T ss_pred CCCcEEEecCCCccHHHHH
Confidence 4789999999999999743
No 459
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.17 E-value=2.7 Score=40.13 Aligned_cols=30 Identities=30% Similarity=0.444 Sum_probs=19.4
Q ss_pred CCceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 49 SKFGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
+.+++|-+|||+|||-...--+..|....+
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G 252 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMG 252 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcC
Confidence 356788999999999754444434433333
No 460
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=75.12 E-value=1.4 Score=35.68 Aligned_cols=19 Identities=26% Similarity=0.443 Sum_probs=16.4
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 21 i~~Ge~~~i~G~nGsGKST 39 (206)
T TIGR03608 21 IEKGKMYAIIGESGSGKST 39 (206)
T ss_pred EeCCcEEEEECCCCCCHHH
Confidence 3578899999999999984
No 461
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=75.04 E-value=1.7 Score=38.86 Aligned_cols=44 Identities=23% Similarity=0.271 Sum_probs=28.2
Q ss_pred ccCCC--CCCCHHHHHHHHHHHH----HHhcC--CceeeeCCCCCCchHHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLYY----TLDNS--KFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~~----~L~~g--k~~I~ESPTGTGKTLS~L 67 (194)
.|.|. |.+-..|.++...+.. .+-+| ..++.-++||||||.++.
T Consensus 41 ~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKT~Tm~ 92 (341)
T cd01372 41 SFTFDYVFDPSTSQEEVYNTCVAPLVDGLFEGYNATVLAYGQTGSGKTYTMG 92 (341)
T ss_pred EEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCcEEec
Confidence 44444 4465667776666542 22344 346778999999999863
No 462
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=75.02 E-value=2.9 Score=34.68 Aligned_cols=17 Identities=24% Similarity=0.298 Sum_probs=14.6
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.|.++++.+|+|+|||.
T Consensus 15 ~g~~~li~G~~G~GKt~ 31 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTT 31 (224)
T ss_pred CCeEEEEECCCCCCHHH
Confidence 35788999999999985
No 463
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=74.96 E-value=2.4 Score=34.81 Aligned_cols=32 Identities=16% Similarity=0.097 Sum_probs=18.7
Q ss_pred ceeeeCCCCCCchHHHHHH-HHHHHhhhhhhhHH
Q psy14272 51 FGIFESPTGTGKSLSLICG-ILKWYYDHKIVGLE 83 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~-al~wl~~~~~~~~~ 83 (194)
+.++.+..|+|||+..+.- ++.+++. +..+..
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~-gr~V~t 34 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKK-GRPVYT 34 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS----EEE
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhC-CCEEEE
Confidence 4688999999999877666 5556654 444433
No 464
>PRK14737 gmk guanylate kinase; Provisional
Probab=74.95 E-value=1.7 Score=36.06 Aligned_cols=17 Identities=41% Similarity=0.466 Sum_probs=14.6
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.+.++||-+|+|+|||-
T Consensus 3 ~~~~ivl~GpsG~GK~t 19 (186)
T PRK14737 3 SPKLFIISSVAGGGKST 19 (186)
T ss_pred CCeEEEEECCCCCCHHH
Confidence 35789999999999983
No 465
>PHA02774 E1; Provisional
Probab=74.92 E-value=4.1 Score=40.54 Aligned_cols=34 Identities=29% Similarity=0.414 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhcC---CceeeeCCCCCCchHHHHHHHHH
Q psy14272 37 NFMKNLYYTLDNS---KFGIFESPTGTGKSLSLICGILK 72 (194)
Q Consensus 37 e~M~~I~~~L~~g---k~~I~ESPTGTGKTLS~L~~al~ 72 (194)
.|+..+...|... ..++|-+|.|||||+ +|.+|.
T Consensus 419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~--fa~sL~ 455 (613)
T PHA02774 419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSM--FCMSLI 455 (613)
T ss_pred HHHHHHHHHHhcCCcccEEEEECCCCCCHHH--HHHHHH
Confidence 6888888888753 358999999999995 444444
No 466
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=74.91 E-value=1.5 Score=35.81 Aligned_cols=20 Identities=25% Similarity=0.614 Sum_probs=17.2
Q ss_pred HHhcCCceeeeCCCCCCchH
Q psy14272 45 TLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTL 64 (194)
.+..|.++.+-+|+|+|||-
T Consensus 24 ~i~~G~~~~l~G~nGsGKST 43 (214)
T TIGR02673 24 HIRKGEFLFLTGPSGAGKTT 43 (214)
T ss_pred EEcCCCEEEEECCCCCCHHH
Confidence 44678999999999999984
No 467
>KOG1805|consensus
Probab=74.88 E-value=3.5 Score=43.24 Aligned_cols=46 Identities=22% Similarity=0.216 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhhhhhhhH
Q psy14272 33 DIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYDHKIVGL 82 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~~~~~~~ 82 (194)
..|++ ++..+|......++.+=.|||||- .||.++.-|...++++.
T Consensus 672 ~dQr~---A~~k~L~aedy~LI~GMPGTGKTT-tI~~LIkiL~~~gkkVL 717 (1100)
T KOG1805|consen 672 NDQRQ---ALLKALAAEDYALILGMPGTGKTT-TISLLIKILVALGKKVL 717 (1100)
T ss_pred HHHHH---HHHHHHhccchheeecCCCCCchh-hHHHHHHHHHHcCCeEE
Confidence 46777 677778888889999999999995 57888888888887764
No 468
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=74.87 E-value=1.8 Score=40.41 Aligned_cols=17 Identities=29% Similarity=0.509 Sum_probs=14.4
Q ss_pred CCceeeeCCCCCCchHH
Q psy14272 49 SKFGIFESPTGTGKSLS 65 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS 65 (194)
.+.++|.+|+|||||+.
T Consensus 179 pkgvLL~GppGTGKT~L 195 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTML 195 (398)
T ss_pred CceEEEECCCCCCHHHH
Confidence 35688999999999974
No 469
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=74.87 E-value=4 Score=35.28 Aligned_cols=29 Identities=28% Similarity=0.361 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 37 NFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 37 e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
.....|..+|.....+.+.+|+|||||=+
T Consensus 20 r~~~~l~~al~~~~~~~~~GpagtGKtet 48 (231)
T PF12774_consen 20 RCFLTLTQALSLNLGGALSGPAGTGKTET 48 (231)
T ss_dssp HHHHHHHHHHCTTTEEEEESSTTSSHHHH
T ss_pred HHHHHHHHHhccCCCCCCcCCCCCCchhH
Confidence 34445556677778899999999999965
No 470
>KOG0240|consensus
Probab=74.87 E-value=2.4 Score=41.95 Aligned_cols=40 Identities=15% Similarity=0.090 Sum_probs=26.2
Q ss_pred CCCCHHHHHHHHHHHHHH----hcC--CceeeeCCCCCCchHHHHH
Q psy14272 29 FDAYDIQSNFMKNLYYTL----DNS--KFGIFESPTGTGKSLSLIC 68 (194)
Q Consensus 29 y~py~iQ~e~M~~I~~~L----~~g--k~~I~ESPTGTGKTLS~L~ 68 (194)
|.|-..|.+.-..+..-+ -.| +-++.-+|||+|||.+..-
T Consensus 57 F~pnatQe~Vy~~~a~~Iv~dVL~GYNGTvfaYGqT~sGKTytm~G 102 (607)
T KOG0240|consen 57 FSPNATQEDVYEFAAKPIVDDVLLGYNGTVFAYGQTGSGKTYTMEG 102 (607)
T ss_pred cCCCccHHHHHHHHHHHHHHHHhcccceeEEEecCCCCCcceeecc
Confidence 557778877655444333 334 4467788999999987543
No 471
>PRK07933 thymidylate kinase; Validated
Probab=74.79 E-value=2.9 Score=35.23 Aligned_cols=27 Identities=19% Similarity=0.118 Sum_probs=19.6
Q ss_pred ceeeeCCCCCCchHHHHHHHHHHHhhhh
Q psy14272 51 FGIFESPTGTGKSLSLICGILKWYYDHK 78 (194)
Q Consensus 51 ~~I~ESPTGTGKTLS~L~~al~wl~~~~ 78 (194)
.++||++-|+|||- .+.....||...+
T Consensus 2 ~IviEG~dGsGKST-~~~~L~~~L~~~g 28 (213)
T PRK07933 2 LIAIEGVDGAGKRT-LTEALRAALEARG 28 (213)
T ss_pred EEEEEcCCCCCHHH-HHHHHHHHHHHCC
Confidence 57899999999984 4455556776643
No 472
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=74.66 E-value=1.6 Score=41.35 Aligned_cols=15 Identities=47% Similarity=0.651 Sum_probs=13.3
Q ss_pred CceeeeCCCCCCchH
Q psy14272 50 KFGIFESPTGTGKSL 64 (194)
Q Consensus 50 k~~I~ESPTGTGKTL 64 (194)
+-+++-+|.||||||
T Consensus 186 KGVLLYGPPGTGKTL 200 (406)
T COG1222 186 KGVLLYGPPGTGKTL 200 (406)
T ss_pred CceEeeCCCCCcHHH
Confidence 558899999999996
No 473
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=74.56 E-value=1.5 Score=39.49 Aligned_cols=44 Identities=18% Similarity=0.162 Sum_probs=28.5
Q ss_pred ccCCC--CCCCHHHHHHHHHHHH----HHhcCC--ceeeeCCCCCCchHHHH
Q psy14272 24 EFPFP--FDAYDIQSNFMKNLYY----TLDNSK--FGIFESPTGTGKSLSLI 67 (194)
Q Consensus 24 ~~~fP--y~py~iQ~e~M~~I~~----~L~~gk--~~I~ESPTGTGKTLS~L 67 (194)
.|.|. |.+-..|.++...+.. .+-.|. .++.-++||||||.++.
T Consensus 49 ~f~Fd~vf~~~~~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTl~ 100 (352)
T cd01364 49 TYTFDKVFGPEADQIEVYSQVVSPILDEVLMGYNCTIFAYGQTGTGKTYTME 100 (352)
T ss_pred eEeccccCCCCCCHHHHHHHHHHHHHHHHhCCCeEEEEECCCCCCCCcEEec
Confidence 45555 5566778877665433 233453 35567999999998863
No 474
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=74.48 E-value=1.6 Score=35.65 Aligned_cols=19 Identities=21% Similarity=0.310 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 23 i~~Ge~~~i~G~nGsGKST 41 (205)
T cd03226 23 LYAGEIIALTGKNGAGKTT 41 (205)
T ss_pred EcCCCEEEEECCCCCCHHH
Confidence 4578999999999999993
No 475
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=74.45 E-value=1.8 Score=39.94 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.9
Q ss_pred HHhcCCceeeeCCCCCCchHH
Q psy14272 45 TLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 45 ~L~~gk~~I~ESPTGTGKTLS 65 (194)
.+..|..++|-+|+|+|||-.
T Consensus 25 ~i~~Gef~vllGPSGcGKSTl 45 (338)
T COG3839 25 DIEDGEFVVLLGPSGCGKSTL 45 (338)
T ss_pred EEcCCCEEEEECCCCCCHHHH
Confidence 356789999999999999953
No 476
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=74.39 E-value=1.6 Score=34.19 Aligned_cols=12 Identities=33% Similarity=0.479 Sum_probs=10.2
Q ss_pred eeeeCCCCCCch
Q psy14272 52 GIFESPTGTGKS 63 (194)
Q Consensus 52 ~I~ESPTGTGKT 63 (194)
+++-+|+|+|||
T Consensus 1 i~l~G~~GsGKS 12 (163)
T TIGR01313 1 FVLMGVAGSGKS 12 (163)
T ss_pred CEEECCCCCCHH
Confidence 367799999998
No 477
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=74.32 E-value=1.7 Score=34.91 Aligned_cols=14 Identities=36% Similarity=0.458 Sum_probs=12.1
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
+++||++.|+|||-
T Consensus 1 ~I~ieG~~GsGKST 14 (193)
T cd01673 1 VIVVEGNIGAGKST 14 (193)
T ss_pred CEEEECCCCCCHHH
Confidence 46899999999984
No 478
>PRK14527 adenylate kinase; Provisional
Probab=74.29 E-value=1.9 Score=35.02 Aligned_cols=17 Identities=41% Similarity=0.669 Sum_probs=15.1
Q ss_pred cCCceeeeCCCCCCchH
Q psy14272 48 NSKFGIFESPTGTGKSL 64 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTL 64 (194)
.+++++|.+|+|+|||-
T Consensus 5 ~~~~i~i~G~pGsGKsT 21 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGT 21 (191)
T ss_pred CCcEEEEECCCCCCHHH
Confidence 46789999999999986
No 479
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=74.28 E-value=1.6 Score=35.15 Aligned_cols=19 Identities=26% Similarity=0.433 Sum_probs=16.4
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+.+|+|+|||-
T Consensus 22 i~~G~~~~l~G~nGsGKSt 40 (180)
T cd03214 22 IEAGEIVGILGPNGAGKST 40 (180)
T ss_pred ECCCCEEEEECCCCCCHHH
Confidence 3568899999999999994
No 480
>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]
Probab=74.02 E-value=1.3 Score=38.50 Aligned_cols=19 Identities=26% Similarity=0.448 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
|..|..+++++|+|+|||-
T Consensus 25 l~~Ge~~~i~G~NG~GKTt 43 (209)
T COG4133 25 LNAGEALQITGPNGAGKTT 43 (209)
T ss_pred EcCCCEEEEECCCCCcHHH
Confidence 4568999999999999993
No 481
>PRK10646 ADP-binding protein; Provisional
Probab=73.87 E-value=3.2 Score=34.15 Aligned_cols=29 Identities=14% Similarity=0.131 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhcCCceeeeCCCCCCchH
Q psy14272 36 SNFMKNLYYTLDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 36 ~e~M~~I~~~L~~gk~~I~ESPTGTGKTL 64 (194)
.++...|..+|..|.++++.++=|+|||-
T Consensus 15 ~~l~~~la~~l~~g~vi~L~GdLGaGKTt 43 (153)
T PRK10646 15 LDLGARVAKACDGATVIYLYGDLGAGKTT 43 (153)
T ss_pred HHHHHHHHHhCCCCcEEEEECCCCCCHHH
Confidence 46677788888889999999999999993
No 482
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=73.75 E-value=2.9 Score=41.88 Aligned_cols=17 Identities=29% Similarity=0.302 Sum_probs=14.0
Q ss_pred CCceeeeCCCCCCchHH
Q psy14272 49 SKFGIFESPTGTGKSLS 65 (194)
Q Consensus 49 gk~~I~ESPTGTGKTLS 65 (194)
+++.+|-||+|+|||--
T Consensus 23 ~~~~~i~G~NGsGKS~l 39 (1179)
T TIGR02168 23 KGITGIVGPNGCGKSNI 39 (1179)
T ss_pred CCcEEEECCCCCChhHH
Confidence 34788899999999963
No 483
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=73.71 E-value=2.5 Score=40.38 Aligned_cols=41 Identities=27% Similarity=0.302 Sum_probs=30.8
Q ss_pred ccCCCCCCCHHHHHHH---HHHHHHHhcC--CceeeeCCCCCCchH
Q psy14272 24 EFPFPFDAYDIQSNFM---KNLYYTLDNS--KFGIFESPTGTGKSL 64 (194)
Q Consensus 24 ~~~fPy~py~iQ~e~M---~~I~~~L~~g--k~~I~ESPTGTGKTL 64 (194)
+.+.-++-|=+|..++ ..|...++.| ...||-+|.|||||-
T Consensus 18 mRP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTT 63 (436)
T COG2256 18 LRPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTT 63 (436)
T ss_pred hCCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHH
Confidence 3444455667888887 4567778877 569999999999983
No 484
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=73.71 E-value=3.3 Score=39.19 Aligned_cols=20 Identities=25% Similarity=0.353 Sum_probs=16.4
Q ss_pred cCCceeeeCCCCCCchHHHH
Q psy14272 48 NSKFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 48 ~gk~~I~ESPTGTGKTLS~L 67 (194)
.|.++.|-+|||+|||-.+.
T Consensus 190 ~g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 35788999999999997654
No 485
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=73.69 E-value=1.9 Score=34.22 Aligned_cols=14 Identities=21% Similarity=0.264 Sum_probs=12.2
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
++++.+|.|||||-
T Consensus 1 ~i~i~G~pGsGKst 14 (183)
T TIGR01359 1 VVFVLGGPGSGKGT 14 (183)
T ss_pred CEEEECCCCCCHHH
Confidence 47889999999985
No 486
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=73.69 E-value=4.1 Score=40.75 Aligned_cols=16 Identities=31% Similarity=0.420 Sum_probs=14.2
Q ss_pred CCceeeeCCCCCCchH
Q psy14272 49 SKFGIFESPTGTGKSL 64 (194)
Q Consensus 49 gk~~I~ESPTGTGKTL 64 (194)
+.+++|-+|+|+|||-
T Consensus 103 ~~IL~LvGPpG~GKSs 118 (644)
T PRK15455 103 KQILYLLGPVGGGKSS 118 (644)
T ss_pred CceEEEecCCCCCchH
Confidence 4789999999999994
No 487
>PRK06547 hypothetical protein; Provisional
Probab=73.67 E-value=3.1 Score=34.11 Aligned_cols=15 Identities=20% Similarity=0.401 Sum_probs=12.3
Q ss_pred CceeeeCCCCCCchH
Q psy14272 50 KFGIFESPTGTGKSL 64 (194)
Q Consensus 50 k~~I~ESPTGTGKTL 64 (194)
.++++.+|+|||||-
T Consensus 16 ~~i~i~G~~GsGKTt 30 (172)
T PRK06547 16 ITVLIDGRSGSGKTT 30 (172)
T ss_pred EEEEEECCCCCCHHH
Confidence 456777999999994
No 488
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=73.67 E-value=1.7 Score=35.62 Aligned_cols=19 Identities=26% Similarity=0.559 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 23 i~~Ge~~~i~G~nGsGKST 41 (213)
T cd03259 23 VEPGEFLALLGPSGCGKTT 41 (213)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 4578999999999999993
No 489
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=73.60 E-value=1.7 Score=35.50 Aligned_cols=19 Identities=21% Similarity=0.406 Sum_probs=16.5
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|.|+|||-
T Consensus 23 i~~G~~~~i~G~nGsGKST 41 (210)
T cd03269 23 VEKGEIFGLLGPNGAGKTT 41 (210)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 4578899999999999994
No 490
>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=73.58 E-value=3.5 Score=34.25 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=16.8
Q ss_pred CceeeeCCCCCCchHHHHHHHHHHHh
Q psy14272 50 KFGIFESPTGTGKSLSLICGILKWYY 75 (194)
Q Consensus 50 k~~I~ESPTGTGKTLS~L~~al~wl~ 75 (194)
++.+|-+|+|+||| ++| -++.++.
T Consensus 22 gl~~i~G~NGsGKS-tll-~ai~~~l 45 (198)
T cd03276 22 RVNFIVGNNGSGKS-AIL-TALTIGL 45 (198)
T ss_pred CeEEEECCCCCcHH-HHH-HHHHHHh
Confidence 36678999999999 444 4455543
No 491
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=73.58 E-value=1.8 Score=38.88 Aligned_cols=14 Identities=36% Similarity=0.406 Sum_probs=12.1
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
++++-+|||+|||-
T Consensus 1 vi~i~G~t~~GKs~ 14 (287)
T TIGR00174 1 VIFIMGPTAVGKSQ 14 (287)
T ss_pred CEEEECCCCCCHHH
Confidence 46889999999994
No 492
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=73.44 E-value=2.2 Score=38.06 Aligned_cols=29 Identities=24% Similarity=0.386 Sum_probs=20.5
Q ss_pred HHHHHHhcCCceeeeCCCCCCch-HHHHHH
Q psy14272 41 NLYYTLDNSKFGIFESPTGTGKS-LSLICG 69 (194)
Q Consensus 41 ~I~~~L~~gk~~I~ESPTGTGKT-LS~L~~ 69 (194)
-|--.+..|.+.++=+|+|+||| |||.+.
T Consensus 22 gvnL~v~~GEvhaiMGPNGsGKSTLa~~i~ 51 (251)
T COG0396 22 GVNLTVKEGEVHAIMGPNGSGKSTLAYTIM 51 (251)
T ss_pred CcceeEcCCcEEEEECCCCCCHHHHHHHHh
Confidence 33334567889999999999995 454443
No 493
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=73.43 E-value=4.1 Score=39.77 Aligned_cols=37 Identities=30% Similarity=0.292 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHhcCCc---eeeeCCCCCCchHHHHHH
Q psy14272 33 DIQSNFMKNLYYTLDNSKF---GIFESPTGTGKSLSLICG 69 (194)
Q Consensus 33 ~iQ~e~M~~I~~~L~~gk~---~I~ESPTGTGKTLS~L~~ 69 (194)
-+|......+..++..|.. .+|.||.|+|||-+..+-
T Consensus 17 iGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~L 56 (535)
T PRK08451 17 IGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIF 56 (535)
T ss_pred cCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHH
Confidence 4688888888888988854 389999999999665443
No 494
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=73.35 E-value=1.7 Score=35.49 Aligned_cols=19 Identities=32% Similarity=0.677 Sum_probs=16.5
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 24 i~~G~~~~l~G~nGsGKST 42 (211)
T cd03225 24 IKKGEFVLIVGPNGSGKST 42 (211)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 4568899999999999984
No 495
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=73.30 E-value=1.7 Score=35.70 Aligned_cols=19 Identities=21% Similarity=0.394 Sum_probs=16.6
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 28 i~~G~~~~i~G~nGsGKST 46 (221)
T TIGR02211 28 IGKGEIVAIVGSSGSGKST 46 (221)
T ss_pred EcCCcEEEEECCCCCCHHH
Confidence 4578999999999999984
No 496
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=73.23 E-value=3.1 Score=34.37 Aligned_cols=21 Identities=14% Similarity=0.124 Sum_probs=17.0
Q ss_pred hcCCceeeeCCCCCCchHHHH
Q psy14272 47 DNSKFGIFESPTGTGKSLSLI 67 (194)
Q Consensus 47 ~~gk~~I~ESPTGTGKTLS~L 67 (194)
..|.+..|.+|+|+|||.-.+
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~ 37 (235)
T cd01123 17 ETGSITEIFGEFGSGKTQLCH 37 (235)
T ss_pred CCCeEEEEECCCCCCHHHHHH
Confidence 346889999999999996443
No 497
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=73.21 E-value=4.5 Score=40.11 Aligned_cols=39 Identities=18% Similarity=0.256 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHHHHHHHHHHHhh
Q psy14272 31 AYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLSLICGILKWYYD 76 (194)
Q Consensus 31 py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS~L~~al~wl~~ 76 (194)
.-|.|.+.+.. ..+++++-|+.|||||.+++.= +.||..
T Consensus 10 Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~R-ia~Li~ 48 (721)
T PRK11773 10 LNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVHR-IAWLMQ 48 (721)
T ss_pred cCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHH-HHHHHH
Confidence 44777774332 3468899999999999987666 556553
No 498
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=73.15 E-value=1.8 Score=40.41 Aligned_cols=14 Identities=50% Similarity=0.883 Sum_probs=12.6
Q ss_pred ceeeeCCCCCCchH
Q psy14272 51 FGIFESPTGTGKSL 64 (194)
Q Consensus 51 ~~I~ESPTGTGKTL 64 (194)
++++-+|||+|||-
T Consensus 89 I~~VYGPTG~GKSq 102 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQ 102 (369)
T ss_pred EEEEECCCCCCHHH
Confidence 68899999999984
No 499
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=73.09 E-value=1.8 Score=34.64 Aligned_cols=19 Identities=26% Similarity=0.436 Sum_probs=16.5
Q ss_pred HhcCCceeeeCCCCCCchH
Q psy14272 46 LDNSKFGIFESPTGTGKSL 64 (194)
Q Consensus 46 L~~gk~~I~ESPTGTGKTL 64 (194)
+..|.++.+-+|+|+|||-
T Consensus 25 i~~Ge~~~i~G~nGsGKSt 43 (173)
T cd03246 25 IEPGESLAIIGPSGSGKST 43 (173)
T ss_pred ECCCCEEEEECCCCCCHHH
Confidence 3568899999999999984
No 500
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=72.96 E-value=4.7 Score=45.75 Aligned_cols=36 Identities=17% Similarity=0.114 Sum_probs=32.5
Q ss_pred CCCHHHHHHHHHHHHHHhcCCceeeeCCCCCCchHH
Q psy14272 30 DAYDIQSNFMKNLYYTLDNSKFGIFESPTGTGKSLS 65 (194)
Q Consensus 30 ~py~iQ~e~M~~I~~~L~~gk~~I~ESPTGTGKTLS 65 (194)
-|-..|++....|..||+.+=.+|+-+|||+|||-.
T Consensus 1831 ~~l~sql~vlEsV~~cIn~nwPlIlvG~t~~GKt~~ 1866 (4600)
T COG5271 1831 VLLHSQLQVLESVMRCINMNWPLILVGDTGVGKTSL 1866 (4600)
T ss_pred hhhhhhhHHHHHHHHHHhcCCCEEEEcCCCCchHHH
Confidence 366889999999999999999999999999999953
Done!