Query psy14926
Match_columns 140
No_of_seqs 152 out of 1266
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 15:54:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14926.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14926hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0922|consensus 100.0 2.3E-39 4.9E-44 280.4 12.1 133 1-136 177-312 (674)
2 COG1643 HrpA HrpA-like helicas 100.0 1.1E-34 2.4E-39 259.9 12.5 130 1-136 176-309 (845)
3 KOG0923|consensus 100.0 1.9E-34 4.1E-39 250.2 9.0 131 1-136 392-528 (902)
4 KOG0924|consensus 100.0 3.6E-34 7.8E-39 249.2 9.2 131 1-136 482-619 (1042)
5 KOG0925|consensus 100.0 2.3E-32 5.1E-37 231.4 10.6 125 1-136 173-304 (699)
6 KOG0920|consensus 99.9 2.3E-26 4.9E-31 207.0 8.2 129 1-136 301-466 (924)
7 TIGR01967 DEAH_box_HrpA ATP-de 99.9 1.7E-22 3.8E-27 187.5 12.7 128 1-135 193-327 (1283)
8 PRK11131 ATP-dependent RNA hel 99.9 1.4E-21 3.1E-26 181.2 12.1 128 1-135 200-334 (1294)
9 TIGR01970 DEAH_box_HrpB ATP-de 99.8 5.7E-21 1.2E-25 172.2 11.4 129 1-135 127-257 (819)
10 PRK11664 ATP-dependent RNA hel 99.8 1.1E-20 2.4E-25 170.4 11.9 129 1-135 130-260 (812)
11 KOG0926|consensus 99.8 2E-19 4.4E-24 159.5 9.2 121 1-134 386-522 (1172)
12 KOG0921|consensus 99.6 1.3E-16 2.9E-21 142.9 3.6 131 1-135 507-695 (1282)
13 PHA02653 RNA helicase NPH-II; 99.6 1.4E-14 3.1E-19 128.7 11.7 124 1-133 305-442 (675)
14 PRK01172 ski2-like helicase; P 98.0 1.9E-05 4E-10 70.4 7.9 45 10-55 160-205 (674)
15 TIGR03158 cas3_cyano CRISPR-as 97.5 0.0014 3.1E-08 54.4 10.5 106 17-133 179-317 (357)
16 PRK11776 ATP-dependent RNA hel 96.8 0.0051 1.1E-07 52.4 7.1 112 11-135 169-287 (460)
17 PRK02362 ski2-like helicase; P 96.4 0.033 7.2E-07 50.4 10.4 38 11-49 163-201 (737)
18 TIGR02621 cas3_GSU0051 CRISPR- 96.3 0.047 1E-06 50.5 10.5 97 20-130 206-310 (844)
19 PRK00254 ski2-like helicase; P 96.0 0.046 9.9E-07 49.4 9.2 36 17-53 167-203 (720)
20 TIGR01587 cas3_core CRISPR-ass 95.8 0.11 2.3E-06 42.5 9.8 23 17-40 153-175 (358)
21 PTZ00424 helicase 45; Provisio 95.6 0.07 1.5E-06 44.1 8.1 113 11-135 192-312 (401)
22 PRK04537 ATP-dependent RNA hel 94.7 0.33 7.2E-06 42.9 9.9 105 18-135 191-302 (572)
23 PRK11192 ATP-dependent RNA hel 94.5 0.4 8.6E-06 40.4 9.6 107 16-134 175-289 (434)
24 TIGR00614 recQ_fam ATP-depende 94.3 0.33 7.1E-06 41.7 8.8 110 13-135 156-271 (470)
25 KOG0921|consensus 94.2 0.023 5E-07 52.9 1.6 126 1-135 535-703 (1282)
26 PRK11057 ATP-dependent DNA hel 94.1 0.26 5.7E-06 43.8 8.1 111 11-135 166-281 (607)
27 PRK10917 ATP-dependent DNA hel 94.1 0.59 1.3E-05 42.2 10.3 108 18-135 408-526 (681)
28 PRK10689 transcription-repair 93.9 0.44 9.6E-06 45.7 9.6 101 16-135 745-856 (1147)
29 COG1202 Superfamily II helicas 93.8 0.7 1.5E-05 41.7 9.9 115 8-132 361-482 (830)
30 PRK13767 ATP-dependent helicas 93.7 0.75 1.6E-05 42.8 10.4 24 17-40 205-229 (876)
31 PRK11634 ATP-dependent RNA hel 93.5 0.45 9.8E-06 42.7 8.5 105 17-134 178-289 (629)
32 TIGR00643 recG ATP-dependent D 93.3 0.71 1.5E-05 41.3 9.4 107 19-135 386-503 (630)
33 TIGR00580 mfd transcription-re 93.1 0.76 1.6E-05 43.2 9.5 107 16-135 596-707 (926)
34 PTZ00110 helicase; Provisional 93.1 0.63 1.4E-05 40.9 8.6 113 10-135 298-422 (545)
35 PRK09694 helicase Cas3; Provis 93.0 1.2 2.6E-05 41.7 10.5 17 17-33 468-484 (878)
36 PRK10590 ATP-dependent RNA hel 92.0 1.8 3.8E-05 37.0 9.7 111 11-135 171-290 (456)
37 PLN00206 DEAD-box ATP-dependen 91.7 2.4 5.1E-05 37.0 10.3 113 12-135 293-413 (518)
38 PRK09751 putative ATP-dependen 90.9 4 8.6E-05 40.4 11.8 24 17-40 157-181 (1490)
39 COG0513 SrmB Superfamily II DN 90.6 1.7 3.8E-05 38.0 8.4 106 18-135 204-318 (513)
40 TIGR03817 DECH_helic helicase/ 90.6 6.1 0.00013 36.2 12.2 30 18-47 193-223 (742)
41 PRK04837 ATP-dependent RNA hel 90.4 1.5 3.3E-05 36.8 7.7 99 21-135 192-300 (423)
42 COG1200 RecG RecG-like helicas 90.0 3.2 6.9E-05 37.8 9.7 110 16-134 407-527 (677)
43 TIGR00604 rad3 DNA repair heli 88.0 1.4 3.1E-05 39.9 6.2 71 21-92 443-533 (705)
44 PRK01297 ATP-dependent RNA hel 87.3 3.9 8.5E-05 35.0 8.2 105 18-135 269-380 (475)
45 TIGR01389 recQ ATP-dependent D 87.0 2.4 5.2E-05 37.4 6.9 106 15-134 158-268 (591)
46 PRK11747 dinG ATP-dependent DN 85.1 4.7 0.0001 36.7 7.9 72 20-94 457-547 (697)
47 PLN03137 ATP-dependent DNA hel 83.9 5.6 0.00012 38.5 8.0 108 16-135 613-725 (1195)
48 COG4581 Superfamily II RNA hel 82.7 1.7 3.6E-05 41.4 4.1 43 18-60 259-307 (1041)
49 KOG0346|consensus 79.6 7.6 0.00016 34.1 6.7 84 3-89 179-275 (569)
50 TIGR01407 dinG_rel DnaQ family 74.8 10 0.00023 35.1 6.7 73 20-93 596-686 (850)
51 COG1197 Mfd Transcription-repa 74.7 17 0.00037 35.1 8.1 107 11-135 733-850 (1139)
52 PRK13104 secA preprotein trans 74.4 17 0.00037 34.4 7.9 98 21-133 381-487 (896)
53 COG1204 Superfamily II helicas 73.3 17 0.00037 33.7 7.6 33 8-40 169-202 (766)
54 COG1203 CRISPR-associated heli 72.0 30 0.00065 31.7 8.8 25 16-40 367-394 (733)
55 COG1201 Lhr Lhr-like helicases 71.5 59 0.0013 30.5 10.6 104 16-131 180-295 (814)
56 COG1199 DinG Rad3-related DNA 71.0 20 0.00043 31.9 7.4 106 20-136 404-526 (654)
57 KOG0331|consensus 69.4 41 0.00088 29.9 8.8 115 10-135 260-386 (519)
58 TIGR00963 secA preprotein tran 65.9 33 0.00071 31.8 7.7 66 21-89 342-412 (745)
59 TIGR03714 secA2 accessory Sec 64.3 41 0.00089 31.3 8.1 68 21-91 361-433 (762)
60 KOG0926|consensus 63.6 2.7 5.8E-05 39.5 0.4 20 117-136 607-626 (1172)
61 PRK12898 secA preprotein trans 63.3 34 0.00074 31.3 7.3 66 21-89 410-480 (656)
62 KOG0336|consensus 61.7 54 0.0012 28.9 7.8 114 11-135 390-510 (629)
63 PF05729 NACHT: NACHT domain 61.4 29 0.00062 24.1 5.4 44 6-49 105-150 (166)
64 PRK07246 bifunctional ATP-depe 59.9 21 0.00045 33.3 5.5 72 20-94 574-660 (820)
65 KOG0328|consensus 59.4 52 0.0011 27.6 7.1 106 17-135 198-311 (400)
66 KOG0345|consensus 58.6 32 0.00069 30.6 6.0 100 24-134 193-301 (567)
67 TIGR02562 cas3_yersinia CRISPR 56.8 15 0.00033 35.4 4.1 28 6-33 609-638 (1110)
68 PF00072 Response_reg: Respons 56.3 30 0.00065 22.3 4.5 32 7-38 59-90 (112)
69 KOG0330|consensus 56.2 76 0.0017 27.6 7.8 106 16-134 232-344 (476)
70 PRK13107 preprotein translocas 54.1 70 0.0015 30.5 7.8 67 21-90 386-457 (908)
71 COG1205 Distinct helicase fami 53.9 1E+02 0.0023 29.0 9.0 32 8-39 217-254 (851)
72 PF10330 Stb3: Putative Sin3 b 53.4 14 0.00031 25.2 2.5 34 102-135 18-51 (92)
73 PRK11475 DNA-binding transcrip 51.9 56 0.0012 25.0 6.0 29 7-35 56-84 (207)
74 KOG0947|consensus 51.8 16 0.00036 35.0 3.4 39 18-56 433-477 (1248)
75 cd00079 HELICc Helicase superf 51.6 27 0.00059 23.2 3.8 44 81-134 27-72 (131)
76 PRK09200 preprotein translocas 51.6 67 0.0015 30.1 7.3 65 21-89 365-435 (790)
77 PF05265 DUF723: Protein of un 51.1 12 0.00026 23.6 1.7 32 26-57 2-35 (60)
78 COG1519 KdtA 3-deoxy-D-manno-o 50.5 87 0.0019 27.1 7.3 47 3-60 62-109 (419)
79 PF04413 Glycos_transf_N: 3-De 50.3 64 0.0014 24.3 6.0 36 3-38 34-70 (186)
80 KOG0334|consensus 47.3 60 0.0013 31.1 6.3 104 16-134 543-657 (997)
81 smart00487 DEXDc DEAD-like hel 47.0 66 0.0014 22.4 5.4 23 17-39 158-182 (201)
82 PRK12906 secA preprotein trans 45.8 1.1E+02 0.0024 28.7 7.7 65 21-89 377-447 (796)
83 PRK08074 bifunctional ATP-depe 45.8 31 0.00067 32.5 4.3 72 20-93 673-764 (928)
84 PRK12904 preprotein translocas 44.7 45 0.00097 31.4 5.0 65 21-89 367-437 (830)
85 KOG0340|consensus 44.1 89 0.0019 27.0 6.3 47 78-134 250-298 (442)
86 PRK12326 preprotein translocas 42.7 59 0.0013 30.3 5.4 66 21-89 364-434 (764)
87 PRK10840 transcriptional regul 39.2 1.1E+02 0.0025 22.5 5.9 32 7-38 68-99 (216)
88 TIGR03117 cas_csf4 CRISPR-asso 39.2 3E+02 0.0066 25.1 9.4 13 21-33 373-385 (636)
89 KOG0950|consensus 36.2 55 0.0012 31.3 4.2 24 16-39 374-398 (1008)
90 PF14582 Metallophos_3: Metall 35.6 48 0.001 26.7 3.3 48 3-50 18-99 (255)
91 CHL00122 secA preprotein trans 35.5 78 0.0017 30.0 5.1 64 21-88 361-430 (870)
92 PRK00766 hypothetical protein; 34.4 93 0.002 24.0 4.7 43 3-47 56-105 (194)
93 PRK09401 reverse gyrase; Revie 32.8 1.2E+02 0.0025 29.8 5.9 14 19-32 268-281 (1176)
94 KOG0005|consensus 32.2 63 0.0014 20.6 2.8 41 88-135 7-47 (70)
95 PRK13103 secA preprotein trans 31.9 89 0.0019 29.8 4.9 64 21-88 386-455 (913)
96 PRK12902 secA preprotein trans 31.5 1E+02 0.0023 29.4 5.3 64 21-88 376-445 (939)
97 PRK10046 dpiA two-component re 30.3 2.2E+02 0.0048 21.2 6.2 31 8-38 67-97 (225)
98 COG1209 RfbA dTDP-glucose pyro 30.2 1.8E+02 0.0039 23.9 5.9 45 22-73 49-93 (286)
99 COG2204 AtoC Response regulato 29.9 68 0.0015 28.1 3.6 32 7-38 64-95 (464)
100 cd00268 DEADc DEAD-box helicas 29.3 60 0.0013 23.8 2.8 15 16-30 171-185 (203)
101 PRK06928 pyrroline-5-carboxyla 28.4 2.1E+02 0.0046 22.6 6.1 40 6-45 77-117 (277)
102 KOG0948|consensus 28.2 66 0.0014 30.4 3.3 39 18-56 265-309 (1041)
103 PRK12903 secA preprotein trans 27.4 1.2E+02 0.0027 28.9 5.0 65 21-89 363-433 (925)
104 PRK12899 secA preprotein trans 27.3 1.3E+02 0.0028 28.9 5.2 65 21-88 505-574 (970)
105 COG4071 Uncharacterized protei 26.1 62 0.0013 25.9 2.4 37 49-88 2-38 (278)
106 PF01949 DUF99: Protein of unk 25.0 95 0.0021 23.8 3.3 44 3-49 50-100 (187)
107 PHA02450 hypothetical protein 24.9 21 0.00046 21.5 -0.3 26 25-50 1-29 (53)
108 PRK12900 secA preprotein trans 24.4 1.7E+02 0.0036 28.4 5.3 67 21-91 535-607 (1025)
109 PF14202 TnpW: Transposon-enco 24.4 1.1E+02 0.0023 17.2 2.6 22 44-65 5-26 (37)
110 PRK15411 rcsA colanic acid cap 23.6 1.1E+02 0.0025 23.0 3.5 26 7-32 65-90 (207)
111 PF00290 Trp_syntA: Tryptophan 23.0 1.2E+02 0.0026 24.4 3.7 28 2-29 70-97 (259)
112 PF02887 PK_C: Pyruvate kinase 22.9 2.3E+02 0.0049 19.2 4.7 11 81-91 91-101 (117)
113 PF08386 Abhydrolase_4: TAP-li 22.5 1.6E+02 0.0035 19.7 3.8 36 19-54 34-76 (103)
114 PRK12901 secA preprotein trans 22.3 1.9E+02 0.004 28.3 5.2 65 21-89 565-635 (1112)
115 PRK10430 DNA-binding transcrip 22.2 3.5E+02 0.0075 20.3 6.6 31 8-38 66-96 (239)
116 PHA02556 15 tail sheath stabil 20.7 63 0.0014 26.4 1.6 35 18-52 161-200 (273)
117 KOG0332|consensus 20.2 3.6E+02 0.0077 23.6 6.0 104 18-133 263-373 (477)
118 COG3412 Uncharacterized protei 20.1 3E+02 0.0066 20.0 4.9 64 20-95 3-74 (129)
119 PF02362 B3: B3 DNA binding do 20.0 81 0.0017 20.5 1.8 46 45-91 40-86 (100)
No 1
>KOG0922|consensus
Probab=100.00 E-value=2.3e-39 Score=280.45 Aligned_cols=133 Identities=35% Similarity=0.586 Sum_probs=114.1
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCC
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIP 80 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~ 80 (140)
++||+|||+||+++++|+|||||+||||+|+++|++||++||++.||||+|||+++|++.+..||+++++.++++||.++
T Consensus 177 l~TDiLlGlLKki~~~R~~LklIimSATlda~kfS~yF~~a~i~~i~GR~fPVei~y~~~p~~dYv~a~~~tv~~Ih~~E 256 (674)
T KOG0922|consen 177 LHTDILLGLLKKILKKRPDLKLIIMSATLDAEKFSEYFNNAPILTIPGRTFPVEILYLKEPTADYVDAALITVIQIHLTE 256 (674)
T ss_pred hHHHHHHHHHHHHHhcCCCceEEEEeeeecHHHHHHHhcCCceEeecCCCCceeEEeccCCchhhHHHHHHHHHHHHccC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhh--hhhhccCCCCCHHHHhhhcccc
Q psy14926 81 NPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKA--QKELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 81 ~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~--~~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
++|||||||||| ||+.+ +..+.+........ ..++|+||+||.++|.+||++.
T Consensus 257 ~~GDILvFLtGqeEIe~~---~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~ 312 (674)
T KOG0922|consen 257 PPGDILVFLTGQEEIEAA---CELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPA 312 (674)
T ss_pred CCCCEEEEeCCHHHHHHH---HHHHHHHhhhccccCcceeeeecccCCHHHhhccccCC
Confidence 999999999998 55432 12222221111000 1358999999999999999985
No 2
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.1e-34 Score=259.91 Aligned_cols=130 Identities=30% Similarity=0.470 Sum_probs=111.0
Q ss_pred ChhHHHHHHHHHHHHh-CCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccch-HHHHHHHHHHHhc
Q psy14926 1 MFTADFFLIYLQVIAR-RQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDY-VDSAVKQALQIHL 78 (140)
Q Consensus 1 l~tDllL~llk~~~~~-r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~-v~~~~~~v~~i~~ 78 (140)
+|||++||++|+++.+ |+|||||+||||+|+++|++||++||+++|+||+|||+++|.+.+..|| +.+++.+++++|.
T Consensus 176 l~tDilLgllk~~~~~rr~DLKiIimSATld~~rfs~~f~~apvi~i~GR~fPVei~Y~~~~~~d~~l~~ai~~~v~~~~ 255 (845)
T COG1643 176 LNTDILLGLLKDLLARRRDDLKLIIMSATLDAERFSAYFGNAPVIEIEGRTYPVEIRYLPEAEADYILLDAIVAAVDIHL 255 (845)
T ss_pred HHHHHHHHHHHHHHhhcCCCceEEEEecccCHHHHHHHcCCCCEEEecCCccceEEEecCCCCcchhHHHHHHHHHHHhc
Confidence 5899999999998884 5589999999999999999999999999999999999999999988999 9999999999999
Q ss_pred CCCCCcEEeeCCCc-eeeccccCCchhhHHHH-HHHhhhhhhccCCCCCHHHHhhhcccc
Q psy14926 79 IPNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGL-CIEKAQKELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 79 ~~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~-~~~~~~~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
.+++||||||+||+ ||+++ .+.++. -...-..++||||+||.+||++||.|.
T Consensus 256 ~~~~GdILvFLpG~~EI~~~------~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~ 309 (845)
T COG1643 256 REGSGSILVFLPGQREIERT------AEWLEKAELGDDLEILPLYGALSAEEQVRVFEPA 309 (845)
T ss_pred cCCCCCEEEECCcHHHHHHH------HHHHHhccccCCcEEeeccccCCHHHHHhhcCCC
Confidence 99999999998876 66432 111111 000123478999999999999999985
No 3
>KOG0923|consensus
Probab=100.00 E-value=1.9e-34 Score=250.18 Aligned_cols=131 Identities=35% Similarity=0.604 Sum_probs=114.0
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCC
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIP 80 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~ 80 (140)
++||+|+||+|++.+.|||||++|||||+|+++|+.||++|||+.+|||.|||+++|.+.|..||+++++.++++||.++
T Consensus 392 L~TDILfgLvKDIar~RpdLKllIsSAT~DAekFS~fFDdapIF~iPGRRyPVdi~Yt~~PEAdYldAai~tVlqIH~tq 471 (902)
T KOG0923|consen 392 LHTDILFGLVKDIARFRPDLKLLISSATMDAEKFSAFFDDAPIFRIPGRRYPVDIFYTKAPEADYLDAAIVTVLQIHLTQ 471 (902)
T ss_pred hhhhHHHHHHHHHHhhCCcceEEeeccccCHHHHHHhccCCcEEeccCcccceeeecccCCchhHHHHHHhhheeeEecc
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEeeCCCce-eeccccCCchhhHHHHHHHhh---h--hhhccCCCCCHHHHhhhcccc
Q psy14926 81 NPDQKYPWPCFQK-VRFGRYSGPKLRYLGLCIEKA---Q--KELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 81 ~~GdILVFl~~~e-i~~~~~~~~~~~~i~~~~~~~---~--~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
+-||||||++||| |+.+. ..+. ..|...+ . .++|+|++||.+.|-++|+|-
T Consensus 472 p~GDILVFltGQeEIEt~~---e~l~--~~~~~LGski~eliv~PiYaNLPselQakIFePt 528 (902)
T KOG0923|consen 472 PLGDILVFLTGQEEIETVK---ENLK--ERCRRLGSKIRELIVLPIYANLPSELQAKIFEPT 528 (902)
T ss_pred CCccEEEEeccHHHHHHHH---HHHH--HHHHHhccccceEEEeeccccCChHHHHhhcCCC
Confidence 9999999999985 54321 1111 2232222 2 267899999999999999984
No 4
>KOG0924|consensus
Probab=100.00 E-value=3.6e-34 Score=249.24 Aligned_cols=131 Identities=45% Similarity=0.663 Sum_probs=116.6
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCC
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIP 80 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~ 80 (140)
+|||+|+|+||+++.+|.|||+|+||||+|+++|++|||+||.+.||||+|||++.|...+.+||++++++++++||.+.
T Consensus 482 lNtDilfGllk~~larRrdlKliVtSATm~a~kf~nfFgn~p~f~IpGRTyPV~~~~~k~p~eDYVeaavkq~v~Ihl~~ 561 (1042)
T KOG0924|consen 482 LNTDILFGLLKKVLARRRDLKLIVTSATMDAQKFSNFFGNCPQFTIPGRTYPVEIMYTKTPVEDYVEAAVKQAVQIHLSG 561 (1042)
T ss_pred cchHHHHHHHHHHHHhhccceEEEeeccccHHHHHHHhCCCceeeecCCccceEEEeccCchHHHHHHHHhhheEeeccC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEeeCCCceeeccccCCchhhHHHHHHHhh-------hhhhccCCCCCHHHHhhhcccc
Q psy14926 81 NPDQKYPWPCFQKVRFGRYSGPKLRYLGLCIEKA-------QKELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 81 ~~GdILVFl~~~ei~~~~~~~~~~~~i~~~~~~~-------~~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
.+||||||.||||-.+| ...-|..|..++ ..++|+||+||.+-|-++|+++
T Consensus 562 ~~GdilIfmtGqediE~-----t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a 619 (1042)
T KOG0924|consen 562 PPGDILIFMTGQEDIEC-----TCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKA 619 (1042)
T ss_pred CCCCEEEecCCCcchhH-----HHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccC
Confidence 99999999988754332 223344444333 4589999999999999999964
No 5
>KOG0925|consensus
Probab=99.98 E-value=2.3e-32 Score=231.44 Aligned_cols=125 Identities=31% Similarity=0.580 Sum_probs=108.1
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCC
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIP 80 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~ 80 (140)
+.||+|+|+||+++..|||||+|+||||+|+++|++|||+||+++||| +|||+++|.+.+..||+++++.++++||..+
T Consensus 173 lATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~vpg-~~PvEi~Yt~e~erDylEaairtV~qih~~e 251 (699)
T KOG0925|consen 173 LATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLLAVPG-THPVEIFYTPEPERDYLEAAIRTVLQIHMCE 251 (699)
T ss_pred HHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCeeecCC-CCceEEEecCCCChhHHHHHHHHHHHHHhcc
Confidence 479999999999999999999999999999999999999999999999 8999999999999999999999999999999
Q ss_pred CCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhh------hhhhccCCCCCHHHHhhhcccc
Q psy14926 81 NPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKA------QKELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 81 ~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~------~~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
++||||||++|+ ||+.+ ++.|.+-.+.+ .+++||| +.+|+++|.|.
T Consensus 252 e~GDilvFLtgeeeIe~a------C~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~ 304 (699)
T KOG0925|consen 252 EPGDILVFLTGEEEIEDA------CRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPA 304 (699)
T ss_pred CCCCEEEEecCHHHHHHH------HHHHHHHHHhhccccCCceEEecC----chhhccccCCC
Confidence 999999998886 56432 22222222222 4478899 78899999873
No 6
>KOG0920|consensus
Probab=99.93 E-value=2.3e-26 Score=206.96 Aligned_cols=129 Identities=25% Similarity=0.339 Sum_probs=99.8
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCC-----------------cc
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNP-----------------VE 63 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~-----------------~~ 63 (140)
+++|++|.++|.++.+||+||||+||||+|++.|++|||+||+++|||++|||+.+|+++. ..
T Consensus 301 i~~DflLi~lk~lL~~~p~LkvILMSAT~dae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~ 380 (924)
T KOG0920|consen 301 INTDFLLILLKDLLPRNPDLKVILMSATLDAELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPER 380 (924)
T ss_pred CCcccHHHHHHHHhhhCCCceEEEeeeecchHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhccccccccccccccc
Confidence 5899999999999999999999999999999999999999999999999999999998742 01
Q ss_pred c--------------hHHHHHHHHHHHhcCCCCCcEEeeCC-CceeeccccCCchhhHHHHHHHhh-----hhhhccCCC
Q psy14926 64 D--------------YVDSAVKQALQIHLIPNPDQKYPWPC-FQKVRFGRYSGPKLRYLGLCIEKA-----QKELALFTT 123 (140)
Q Consensus 64 d--------------~v~~~~~~v~~i~~~~~~GdILVFl~-~~ei~~~~~~~~~~~~i~~~~~~~-----~~~lpLh~~ 123 (140)
+ -.+-....+..|+..+.+|.||||+| +.||... .+.-.|.... -.++||||+
T Consensus 381 ~~~~~~~~~~~~~~id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~-------~~~L~~~~~f~~~~~~~ilplHs~ 453 (924)
T KOG0920|consen 381 SQLRLARLKLWEPEIDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQL-------KELLEVNLPFADSLKFAILPLHSS 453 (924)
T ss_pred CccccccchhccccccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHH-------HHHhhhccccccccceEEEecccc
Confidence 1 01223444566777788999999965 4577432 1111111111 237899999
Q ss_pred CCHHHHhhhcccc
Q psy14926 124 LPLATGRSNFADS 136 (140)
Q Consensus 124 lp~~eQ~~~f~~~ 136 (140)
++..||++||...
T Consensus 454 ~~s~eQ~~VF~~p 466 (924)
T KOG0920|consen 454 IPSEEQQAVFKRP 466 (924)
T ss_pred CChHHHHHhcCCC
Confidence 9999999999874
No 7
>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=99.88 E-value=1.7e-22 Score=187.49 Aligned_cols=128 Identities=24% Similarity=0.354 Sum_probs=98.6
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCc------cchHHHHHHHHH
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPV------EDYVDSAVKQAL 74 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~------~d~v~~~~~~v~ 74 (140)
+++|++++++|+++.+|+|+|+|+||||+|.++|++||+++|++.++|+.|||+++|.+... .++.+..+..+.
T Consensus 193 L~~D~LL~lLk~il~~rpdLKlIlmSATld~~~fa~~F~~apvI~V~Gr~~PVev~Y~~~~~~~~~~~~~~~~~i~~~I~ 272 (1283)
T TIGR01967 193 LNIDFLLGYLKQLLPRRPDLKIIITSATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEEQEDDDLDQLEAILDAVD 272 (1283)
T ss_pred ccchhHHHHHHHHHhhCCCCeEEEEeCCcCHHHHHHHhcCCCEEEECCCcccceeEEecccccccchhhhHHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999999999986432 245555555555
Q ss_pred HHhcCCCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 75 QIHLIPNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 75 ~i~~~~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+++. +.+|+||||++|+ ||+.+ .+.++........++||||.||.++|+++|.+
T Consensus 273 ~l~~-~~~GdILVFLpg~~EI~~l------~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~ 327 (1283)
T TIGR01967 273 ELFA-EGPGDILIFLPGEREIRDA------AEILRKRNLRHTEILPLYARLSNKEQQRVFQP 327 (1283)
T ss_pred HHHh-hCCCCEEEeCCCHHHHHHH------HHHHHhcCCCCcEEEeccCCCCHHHHHHHhCC
Confidence 5543 4679999997664 66332 11111110011247899999999999999986
No 8
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.86 E-value=1.4e-21 Score=181.25 Aligned_cols=128 Identities=23% Similarity=0.347 Sum_probs=99.6
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCc------cchHHHHHHHHH
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPV------EDYVDSAVKQAL 74 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~------~d~v~~~~~~v~ 74 (140)
+++|++++++|+++.+|||+|+|+||||+|.++|++||+++|+++|+|+.|||+++|.+... .+++..++..+.
T Consensus 200 Ln~DfLLg~Lk~lL~~rpdlKvILmSATid~e~fs~~F~~apvI~V~Gr~~pVei~y~p~~~~~~~~~~d~l~~ll~~V~ 279 (1294)
T PRK11131 200 LNIDFILGYLKELLPRRPDLKVIITSATIDPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFDAVD 279 (1294)
T ss_pred cccchHHHHHHHhhhcCCCceEEEeeCCCCHHHHHHHcCCCCEEEEcCccccceEEEeecccccchhhHHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999999999987532 346666666655
Q ss_pred HHhcCCCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 75 QIHLIPNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 75 ~i~~~~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
.++ .+.+|+||||++++ ||+.+ .+.+....-....++||||.||.+||+++|.+
T Consensus 280 ~l~-~~~~GdILVFLpg~~EIe~l------ae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~ 334 (1294)
T PRK11131 280 ELG-REGPGDILIFMSGEREIRDT------ADALNKLNLRHTEILPLYARLSNSEQNRVFQS 334 (1294)
T ss_pred HHh-cCCCCCEEEEcCCHHHHHHH------HHHHHhcCCCcceEeecccCCCHHHHHHHhcc
Confidence 554 45689999997664 66331 11111110011236799999999999999986
No 9
>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=99.85 E-value=5.7e-21 Score=172.24 Aligned_cols=129 Identities=22% Similarity=0.294 Sum_probs=99.6
Q ss_pred ChhHHHHHHHHHHHH-hCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcC
Q psy14926 1 MFTADFFLIYLQVIA-RRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLI 79 (140)
Q Consensus 1 l~tDllL~llk~~~~-~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~ 79 (140)
+++|++++++++++. .|+++|+|+||||++.+.|++||+++|++.++|+.|||+++|.+....+++...+..++..+..
T Consensus 127 L~~Dl~L~ll~~i~~~lr~dlqlIlmSATl~~~~l~~~l~~~~vI~~~gr~~pVe~~y~~~~~~~~~~~~v~~~l~~~l~ 206 (819)
T TIGR01970 127 LDADLGLALALDVQSSLREDLKILAMSATLDGERLSSLLPDAPVVESEGRSFPVEIRYLPLRGDQRLEDAVSRAVEHALA 206 (819)
T ss_pred hccchHHHHHHHHHHhcCCCceEEEEeCCCCHHHHHHHcCCCcEEEecCcceeeeeEEeecchhhhHHHHHHHHHHHHHH
Confidence 468999999999887 6899999999999999999999999999999999999999998876666666555554444444
Q ss_pred CCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 80 PNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 80 ~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+.+|+||||++++ ||+.+ .+.++........++||||.||.++|+++|.+
T Consensus 207 ~~~g~iLVFlpg~~eI~~l------~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~ 257 (819)
T TIGR01970 207 SETGSILVFLPGQAEIRRV------QEQLAERLDSDVLICPLYGELSLAAQDRAIKP 257 (819)
T ss_pred hcCCcEEEEECCHHHHHHH------HHHHHhhcCCCcEEEEecCCCCHHHHHHHHhh
Confidence 5579999997654 66332 11111111112347889999999999999976
No 10
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.84 E-value=1.1e-20 Score=170.36 Aligned_cols=129 Identities=22% Similarity=0.282 Sum_probs=101.2
Q ss_pred ChhHHHHHHHHHHHH-hCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcC
Q psy14926 1 MFTADFFLIYLQVIA-RRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLI 79 (140)
Q Consensus 1 l~tDllL~llk~~~~-~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~ 79 (140)
+++|++|++++++++ .|+++|+|+||||++.+.|++||+++++++++|+.|||+++|.+.+..+++...+..++..+..
T Consensus 130 l~~Dl~L~ll~~i~~~lr~~lqlilmSATl~~~~l~~~~~~~~~I~~~gr~~pV~~~y~~~~~~~~~~~~v~~~l~~~l~ 209 (812)
T PRK11664 130 LQADLALALLLDVQQGLRDDLKLLIMSATLDNDRLQQLLPDAPVIVSEGRSFPVERRYQPLPAHQRFDEAVARATAELLR 209 (812)
T ss_pred cccchHHHHHHHHHHhCCccceEEEEecCCCHHHHHHhcCCCCEEEecCccccceEEeccCchhhhHHHHHHHHHHHHHH
Confidence 478999999999887 6899999999999999999999999999999999999999999877777777666555555555
Q ss_pred CCCCcEEeeCCC-ceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 80 PNPDQKYPWPCF-QKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 80 ~~~GdILVFl~~-~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+.+|+||||+++ +||+.+ .+.+.........+++|||.+|.++|+++|.+
T Consensus 210 ~~~g~iLVFlpg~~ei~~l------~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~ 260 (812)
T PRK11664 210 QESGSLLLFLPGVGEIQRV------QEQLASRVASDVLLCPLYGALSLAEQQKAILP 260 (812)
T ss_pred hCCCCEEEEcCCHHHHHHH------HHHHHHhccCCceEEEeeCCCCHHHHHHHhcc
Confidence 568999999655 466432 11111110012336789999999999999975
No 11
>KOG0926|consensus
Probab=99.79 E-value=2e-19 Score=159.51 Aligned_cols=121 Identities=26% Similarity=0.408 Sum_probs=99.4
Q ss_pred ChhHHHHHHHHHHHHhC----------CCceEEEecCCCChHHHHh---hhCC-CCEEEecCCccccceeecCCCccchH
Q psy14926 1 MFTADFFLIYLQVIARR----------QDLKLIVTSATMDADKFSN---FFGN-VPTFHIPGRTFPVDVFFAKNPVEDYV 66 (140)
Q Consensus 1 l~tDllL~llk~~~~~r----------~dLklVlMSATld~~~f~~---yf~~-~pvi~i~G~~~pV~~~y~~~~~~d~v 66 (140)
||||+|+|+|.++++.| ..||+||||||+-++.|.. .|.. .|+|.|+.|+|||.|||......||+
T Consensus 386 vnTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLRVsDFtenk~LFpi~pPlikVdARQfPVsIHF~krT~~DYi 465 (1172)
T KOG0926|consen 386 VNTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLRVSDFTENKRLFPIPPPLIKVDARQFPVSIHFNKRTPDDYI 465 (1172)
T ss_pred chHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEEecccccCceecCCCCceeeeecccCceEEEeccCCCchHH
Confidence 68999999999998855 3799999999999999984 5653 78999999999999999998888999
Q ss_pred HHHHHHHHHHhcCCCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhhhc-cCCCCCHHHHhhhcc
Q psy14926 67 DSAVKQALQIHLIPNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKELA-LFTTLPLATGRSNFA 134 (140)
Q Consensus 67 ~~~~~~v~~i~~~~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~lp-Lh~~lp~~eQ~~~f~ 134 (140)
+.+..+++.||.+-++|+||||+||| |+ ......+++.+| -|+..-.++--++|.
T Consensus 466 ~eAfrKtc~IH~kLP~G~ILVFvTGQqEV-------------~qL~~kLRK~~p~~f~~~k~~k~~k~~~ 522 (1172)
T KOG0926|consen 466 AEAFRKTCKIHKKLPPGGILVFVTGQQEV-------------DQLCEKLRKRFPESFGGVKMKKNVKAFK 522 (1172)
T ss_pred HHHHHHHHHHhhcCCCCcEEEEEeChHHH-------------HHHHHHHHhhCccccccchhhhhhhhcc
Confidence 99999999999999999999999987 55 344466666666 455555444444443
No 12
>KOG0921|consensus
Probab=99.63 E-value=1.3e-16 Score=142.94 Aligned_cols=131 Identities=24% Similarity=0.332 Sum_probs=95.4
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCC-------------------
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNP------------------- 61 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~------------------- 61 (140)
++|||++.++++++...+||+++|||||+|++.|.+||+.||.+.++|++|||+.+|+.+.
T Consensus 507 v~~dfll~~lr~m~~ty~dl~v~lmsatIdTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~ 586 (1282)
T KOG0921|consen 507 VDTDFVLIVLREMISTYRDLRVVLMSATIDTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKD 586 (1282)
T ss_pred cchHHHHHHHHhhhccchhhhhhhhhcccchhhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhc
Confidence 5799999999999999999999999999999999999999999999999999999997621
Q ss_pred ------c-----------------------------cchHHHHHHH-HHHHhcCCCCCcEEee-CCCceeeccccCCchh
Q psy14926 62 ------V-----------------------------EDYVDSAVKQ-ALQIHLIPNPDQKYPW-PCFQKVRFGRYSGPKL 104 (140)
Q Consensus 62 ------~-----------------------------~d~v~~~~~~-v~~i~~~~~~GdILVF-l~~~ei~~~~~~~~~~ 104 (140)
. .+..-..++. ...|.....+|.|||| |+|++|-.- +.+
T Consensus 587 ~~~~~~~~ddK~~n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L----~~~ 662 (1282)
T KOG0921|consen 587 DDEEDEEVDDKGRNMNILCDPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTL----CNR 662 (1282)
T ss_pred ccccCchhhhcccccccccChhhcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhh----hhh
Confidence 0 0000011211 1223344567999999 678898421 111
Q ss_pred hHHHHHHHhh--hhhhccCCCCCHHHHhhhccc
Q psy14926 105 RYLGLCIEKA--QKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 105 ~~i~~~~~~~--~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
-.+......+ ..++|+||.++..||+++|.+
T Consensus 663 ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~ 695 (1282)
T KOG0921|consen 663 LLEHQEFGQANKYEILPLHSQLTSQEQRKVFEP 695 (1282)
T ss_pred hhhhhhhccchhcccccchhhcccHhhhhccCc
Confidence 1111111111 337999999999999999986
No 13
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.58 E-value=1.4e-14 Score=128.69 Aligned_cols=124 Identities=19% Similarity=0.303 Sum_probs=83.8
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCC--ChHHHHhhhCCCCEEEecCCc-cccceeecCCCc-----cchHHHHHHH
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATM--DADKFSNFFGNVPTFHIPGRT-FPVDVFFAKNPV-----EDYVDSAVKQ 72 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATl--d~~~f~~yf~~~pvi~i~G~~-~pV~~~y~~~~~-----~d~v~~~~~~ 72 (140)
.++|++++++++++.+++ ++++||||+ +.+.|++||+++++++++|++ |||+.+|.+... .+|+......
T Consensus 305 ~~~DllL~llk~~~~~~r--q~ILmSATl~~dv~~l~~~~~~p~~I~I~grt~~pV~~~yi~~~~~~~~~~~y~~~~k~~ 382 (675)
T PHA02653 305 QIGDIIIAVARKHIDKIR--SLFLMTATLEDDRDRIKEFFPNPAFVHIPGGTLFPISEVYVKNKYNPKNKRAYIEEEKKN 382 (675)
T ss_pred cchhHHHHHHHHhhhhcC--EEEEEccCCcHhHHHHHHHhcCCcEEEeCCCcCCCeEEEEeecCcccccchhhhHHHHHH
Confidence 368999999998766432 899999999 577999999999999999996 999999976532 2444443333
Q ss_pred HHHHhcC---CCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHH--hhhc
Q psy14926 73 ALQIHLI---PNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATG--RSNF 133 (140)
Q Consensus 73 v~~i~~~---~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ--~~~f 133 (140)
+.+.+.. ...|++|||++++ +++.. .+.+.... .....+||||.+|..+| +++|
T Consensus 383 ~l~~L~~~~~~~~g~iLVFlpg~~ei~~l------~~~L~~~~-~~~~v~~LHG~Lsq~eq~l~~ff 442 (675)
T PHA02653 383 IVTALKKYTPPKGSSGIVFVASVSQCEEY------KKYLEKRL-PIYDFYIIHGKVPNIDEILEKVY 442 (675)
T ss_pred HHHHHHHhhcccCCcEEEEECcHHHHHHH------HHHHHhhc-CCceEEeccCCcCHHHHHHHHHh
Confidence 4443322 2458999996554 44221 11111110 02346889999999877 4444
No 14
>PRK01172 ski2-like helicase; Provisional
Probab=98.02 E-value=1.9e-05 Score=70.42 Aligned_cols=45 Identities=16% Similarity=0.285 Sum_probs=35.7
Q ss_pred HHHHHHhCCCceEEEecCCC-ChHHHHhhhCCCCEEEecCCccccce
Q psy14926 10 YLQVIARRQDLKLIVTSATM-DADKFSNFFGNVPTFHIPGRTFPVDV 55 (140)
Q Consensus 10 lk~~~~~r~dLklVlMSATl-d~~~f~~yf~~~pvi~i~G~~~pV~~ 55 (140)
+..+...+++.|+|.||||+ |+..+++|++ ++.+....|..|+++
T Consensus 160 l~~~~~~~~~~riI~lSATl~n~~~la~wl~-~~~~~~~~r~vpl~~ 205 (674)
T PRK01172 160 LSSARYVNPDARILALSATVSNANELAQWLN-ASLIKSNFRPVPLKL 205 (674)
T ss_pred HHHHHhcCcCCcEEEEeCccCCHHHHHHHhC-CCccCCCCCCCCeEE
Confidence 33333457899999999999 7899999986 777878888888774
No 15
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=97.48 E-value=0.0014 Score=54.40 Aligned_cols=106 Identities=16% Similarity=0.148 Sum_probs=57.1
Q ss_pred CCCceEEEecCCCChHH---HHhh--hCCCCEEEecCC--cc--------------------ccceeecCCC--ccchHH
Q psy14926 17 RQDLKLIVTSATMDADK---FSNF--FGNVPTFHIPGR--TF--------------------PVDVFFAKNP--VEDYVD 67 (140)
Q Consensus 17 r~dLklVlMSATld~~~---f~~y--f~~~pvi~i~G~--~~--------------------pV~~~y~~~~--~~d~v~ 67 (140)
..+.|+|+||||++... +.+. + +++++.++|+ .| +++..|.+.. ..+.+.
T Consensus 179 ~~~~~~i~lSAT~~~~~~~~l~~~~~~-~~~~~~v~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~ 257 (357)
T TIGR03158 179 ECRRKFVFLSATPDPALILRLQNAKQA-GVKIAPIDGEKYQFPDNPELEADNKTQSFRPVLPPVELELIPAPDFKEEELS 257 (357)
T ss_pred hcCCcEEEEecCCCHHHHHHHHhcccc-CceeeeecCcccccCCChhhhccccccccceeccceEEEEEeCCchhHHHHH
Confidence 34589999999998652 3333 3 4788999999 22 3444443311 112222
Q ss_pred HHHHHHHHHhcCCCCCcEEeeC-CCceeeccccCCchhhHHHHHHHh-h--hhhhccCCCCCHHHHhhhc
Q psy14926 68 SAVKQALQIHLIPNPDQKYPWP-CFQKVRFGRYSGPKLRYLGLCIEK-A--QKELALFTTLPLATGRSNF 133 (140)
Q Consensus 68 ~~~~~v~~i~~~~~~GdILVFl-~~~ei~~~~~~~~~~~~i~~~~~~-~--~~~lpLh~~lp~~eQ~~~f 133 (140)
...+.+.+.......+.+|||. +-++.+. +...... . .....+||.++..++.++.
T Consensus 258 ~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~----------l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~ 317 (357)
T TIGR03158 258 ELAEEVIERFRQLPGERGAIILDSLDEVNR----------LSDLLQQQGLGDDIGRITGFAPKKDRERAM 317 (357)
T ss_pred HHHHHHHHHHhccCCCeEEEEECCHHHHHH----------HHHHHhhhCCCceEEeeecCCCHHHHHHhc
Confidence 2333343333333456799995 3333311 1111111 0 1234589999999887765
No 16
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.76 E-value=0.0051 Score=52.36 Aligned_cols=112 Identities=14% Similarity=0.113 Sum_probs=60.4
Q ss_pred HHHHH-hCCCceEEEecCCCCh--HHHHhhhCCCC-EEEecCCc--cccceeecCCCccchHHHHHHHHHHHhcCCCCCc
Q psy14926 11 LQVIA-RRQDLKLIVTSATMDA--DKFSNFFGNVP-TFHIPGRT--FPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQ 84 (140)
Q Consensus 11 k~~~~-~r~dLklVlMSATld~--~~f~~yf~~~p-vi~i~G~~--~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~Gd 84 (140)
+.++. ..++.+++++|||+.. ..+.+.|.+.| .+.+.... ..++.+|......+.. ..+..++. ...++.
T Consensus 169 ~~i~~~~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~-~~l~~ll~---~~~~~~ 244 (460)
T PRK11776 169 DAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQRFYEVSPDERL-PALQRLLL---HHQPES 244 (460)
T ss_pred HHHHHhCCcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCCCCCCeeEEEEEeCcHHHH-HHHHHHHH---hcCCCc
Confidence 34444 3456789999999953 55666554434 35544332 2244444333222322 22333332 334678
Q ss_pred EEeeC-CCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 85 KYPWP-CFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 85 ILVFl-~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+|||. +.++.+.. ...+ ........++||.++..+++.++..
T Consensus 245 ~lVF~~t~~~~~~l------~~~L---~~~~~~v~~~hg~~~~~eR~~~l~~ 287 (460)
T PRK11776 245 CVVFCNTKKECQEV------ADAL---NAQGFSALALHGDLEQRDRDQVLVR 287 (460)
T ss_pred eEEEECCHHHHHHH------HHHH---HhCCCcEEEEeCCCCHHHHHHHHHH
Confidence 99995 33344211 0111 1223446779999999999998764
No 17
>PRK02362 ski2-like helicase; Provisional
Probab=96.42 E-value=0.033 Score=50.43 Aligned_cols=38 Identities=21% Similarity=0.345 Sum_probs=26.3
Q ss_pred HHHHHhCCCceEEEecCCC-ChHHHHhhhCCCCEEEecCC
Q psy14926 11 LQVIARRQDLKLIVTSATM-DADKFSNFFGNVPTFHIPGR 49 (140)
Q Consensus 11 k~~~~~r~dLklVlMSATl-d~~~f~~yf~~~pvi~i~G~ 49 (140)
.++....++.++|.||||+ |.+.+++|++ +..+....|
T Consensus 163 ~rl~~~~~~~qii~lSATl~n~~~la~wl~-~~~~~~~~r 201 (737)
T PRK02362 163 AKLRRLNPDLQVVALSATIGNADELADWLD-AELVDSEWR 201 (737)
T ss_pred HHHHhcCCCCcEEEEcccCCCHHHHHHHhC-CCcccCCCC
Confidence 3333456889999999999 6788888886 443433333
No 18
>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=96.28 E-value=0.047 Score=50.55 Aligned_cols=97 Identities=15% Similarity=0.103 Sum_probs=48.2
Q ss_pred ceEEEecCCCChH--HHHhhhCCCC-EEEecCCcccc--ceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeC-CCce
Q psy14926 20 LKLIVTSATMDAD--KFSNFFGNVP-TFHIPGRTFPV--DVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWP-CFQK 93 (140)
Q Consensus 20 LklVlMSATld~~--~f~~yf~~~p-vi~i~G~~~pV--~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl-~~~e 93 (140)
+++++||||+..+ .+.+.|...+ .+.+..+.-.. -..|.+......+...+..+..+. .+..+.+|||. +.++
T Consensus 206 rQtLLFSAT~p~ei~~l~~~~~~~p~~i~V~~~~l~a~ki~q~v~v~~e~Kl~~lv~~L~~ll-~e~g~~vLVF~NTv~~ 284 (844)
T TIGR02621 206 LRVVELTATSRTDGPDRTTLLSAEDYKHPVLKKRLAAKKIVKLVPPSDEKFLSTMVKELNLLM-KDSGGAILVFCRTVKH 284 (844)
T ss_pred ceEEEEecCCCccHHHHHHHHccCCceeecccccccccceEEEEecChHHHHHHHHHHHHHHH-hhCCCcEEEEECCHHH
Confidence 7899999999743 3444443222 23333221111 012322222223333333333332 24468899995 3334
Q ss_pred eeccccCCchhhHHHHHHHhhh--hhhccCCCCCHHHHh
Q psy14926 94 VRFGRYSGPKLRYLGLCIEKAQ--KELALFTTLPLATGR 130 (140)
Q Consensus 94 i~~~~~~~~~~~~i~~~~~~~~--~~lpLh~~lp~~eQ~ 130 (140)
. ......+. ....|||.++..+.+
T Consensus 285 A-------------q~L~~~L~~~g~~lLHG~m~q~dR~ 310 (844)
T TIGR02621 285 V-------------RKVFAKLPKEKFELLTGTLRGAERD 310 (844)
T ss_pred H-------------HHHHHHHHhcCCeEeeCCCCHHHHh
Confidence 3 22222221 126799999999888
No 19
>PRK00254 ski2-like helicase; Provisional
Probab=96.04 E-value=0.046 Score=49.43 Aligned_cols=36 Identities=14% Similarity=0.196 Sum_probs=26.4
Q ss_pred CCCceEEEecCCC-ChHHHHhhhCCCCEEEecCCcccc
Q psy14926 17 RQDLKLIVTSATM-DADKFSNFFGNVPTFHIPGRTFPV 53 (140)
Q Consensus 17 r~dLklVlMSATl-d~~~f~~yf~~~pvi~i~G~~~pV 53 (140)
..+.++|.||||+ |...+.+|++ ++.+....|..|.
T Consensus 167 ~~~~qiI~lSATl~n~~~la~wl~-~~~~~~~~rpv~l 203 (720)
T PRK00254 167 LGRAQILGLSATVGNAEELAEWLN-AELVVSDWRPVKL 203 (720)
T ss_pred CcCCcEEEEEccCCCHHHHHHHhC-CccccCCCCCCcc
Confidence 4678999999999 7899999987 4544444444443
No 20
>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=95.82 E-value=0.11 Score=42.47 Aligned_cols=23 Identities=17% Similarity=0.368 Sum_probs=17.6
Q ss_pred CCCceEEEecCCCChHHHHhhhCC
Q psy14926 17 RQDLKLIVTSATMDADKFSNFFGN 40 (140)
Q Consensus 17 r~dLklVlMSATld~~~f~~yf~~ 40 (140)
+.+.++++||||+. +.+.+|+.+
T Consensus 153 ~~~~~~i~~SATlp-~~l~~~~~~ 175 (358)
T TIGR01587 153 DNDVPILLMSATLP-KFLKEYAEK 175 (358)
T ss_pred HcCCCEEEEecCch-HHHHHHHhc
Confidence 45789999999997 556677643
No 21
>PTZ00424 helicase 45; Provisional
Probab=95.64 E-value=0.07 Score=44.13 Aligned_cols=113 Identities=12% Similarity=0.120 Sum_probs=56.8
Q ss_pred HHHHH-hCCCceEEEecCCCChH--HHHh-hhCCCCEEEecCCc---cccceeecCCCccchHHHHHHHHHHHhcCCCCC
Q psy14926 11 LQVIA-RRQDLKLIVTSATMDAD--KFSN-FFGNVPTFHIPGRT---FPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPD 83 (140)
Q Consensus 11 k~~~~-~r~dLklVlMSATld~~--~f~~-yf~~~pvi~i~G~~---~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~G 83 (140)
.+++. ..++.++|+||||+..+ .+.. |+.+...+.++... ..++.+|......++....+...+ .....+
T Consensus 192 ~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~ 268 (401)
T PTZ00424 192 YDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLY---ETLTIT 268 (401)
T ss_pred HHHHhhCCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHHHHHHHHHH---HhcCCC
Confidence 33434 45789999999999643 3333 33333333343322 122333332222233222222222 233346
Q ss_pred cEEeeCC-CceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 84 QKYPWPC-FQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 84 dILVFl~-~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
.++||.+ ..+.+. +. ............+||.++.++++.++..
T Consensus 269 ~~ivF~~t~~~~~~-------l~--~~l~~~~~~~~~~h~~~~~~~R~~i~~~ 312 (401)
T PTZ00424 269 QAIIYCNTRRKVDY-------LT--KKMHERDFTVSCMHGDMDQKDRDLIMRE 312 (401)
T ss_pred eEEEEecCcHHHHH-------HH--HHHHHCCCcEEEEeCCCCHHHHHHHHHH
Confidence 7899943 333311 11 1111222345669999999999988753
No 22
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=94.68 E-value=0.33 Score=42.95 Aligned_cols=105 Identities=10% Similarity=-0.017 Sum_probs=52.3
Q ss_pred CCceEEEecCCCChHH---HHhhhCCCCEEEecCCccc---cceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeCCC
Q psy14926 18 QDLKLIVTSATMDADK---FSNFFGNVPTFHIPGRTFP---VDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWPCF 91 (140)
Q Consensus 18 ~dLklVlMSATld~~~---f~~yf~~~pvi~i~G~~~p---V~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl~~ 91 (140)
.+.++++||||+.... ...++.+...+.+...... +...+......+ ....+..+......+.+|||...
T Consensus 191 ~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~~~~~----k~~~L~~ll~~~~~~k~LVF~nt 266 (572)
T PRK04537 191 GTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADEE----KQTLLLGLLSRSEGARTMVFVNT 266 (572)
T ss_pred cCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEecCHHH----HHHHHHHHHhcccCCcEEEEeCC
Confidence 3678999999997532 3344544334444433211 111121111111 12223333333445679999533
Q ss_pred -ceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 92 -QKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 92 -~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
...+. +. ............+||.++..++.+++..
T Consensus 267 ~~~ae~-------l~--~~L~~~g~~v~~lhg~l~~~eR~~il~~ 302 (572)
T PRK04537 267 KAFVER-------VA--RTLERHGYRVGVLSGDVPQKKRESLLNR 302 (572)
T ss_pred HHHHHH-------HH--HHHHHcCCCEEEEeCCCCHHHHHHHHHH
Confidence 22211 11 1111223446679999999999887653
No 23
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=94.51 E-value=0.4 Score=40.41 Aligned_cols=107 Identities=11% Similarity=0.079 Sum_probs=52.6
Q ss_pred hCCCceEEEecCCCCh---HHHHhhhCCCCE-EEecCCc---cccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 16 RRQDLKLIVTSATMDA---DKFSNFFGNVPT-FHIPGRT---FPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 16 ~r~dLklVlMSATld~---~~f~~yf~~~pv-i~i~G~~---~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
.+..-++++||||++. ..|.+.+.+-|+ +.+.... ..+...|...... ......+..+......+.+|||
T Consensus 175 ~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~---~~k~~~l~~l~~~~~~~~~lVF 251 (434)
T PRK11192 175 TRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDL---EHKTALLCHLLKQPEVTRSIVF 251 (434)
T ss_pred CccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCCH---HHHHHHHHHHHhcCCCCeEEEE
Confidence 3455689999999974 445555543333 3332211 1122222111111 1122223333333356789999
Q ss_pred CC-CceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhcc
Q psy14926 89 PC-FQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 89 l~-~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
.. .++.+.. . +.+. ........+||.++..++..++.
T Consensus 252 ~~s~~~~~~l---~---~~L~---~~~~~~~~l~g~~~~~~R~~~l~ 289 (434)
T PRK11192 252 VRTRERVHEL---A---GWLR---KAGINCCYLEGEMVQAKRNEAIK 289 (434)
T ss_pred eCChHHHHHH---H---HHHH---hCCCCEEEecCCCCHHHHHHHHH
Confidence 53 3333110 0 1111 12233566999999999988765
No 24
>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=94.32 E-value=0.33 Score=41.68 Aligned_cols=110 Identities=8% Similarity=0.083 Sum_probs=53.2
Q ss_pred HHHhCCCceEEEecCCCChHH---HHhhhC-CCCEEEecCCccccceeecCCC-ccchHHHHHHHHHHHhcCCCCCcEEe
Q psy14926 13 VIARRQDLKLIVTSATMDADK---FSNFFG-NVPTFHIPGRTFPVDVFFAKNP-VEDYVDSAVKQALQIHLIPNPDQKYP 87 (140)
Q Consensus 13 ~~~~r~dLklVlMSATld~~~---f~~yf~-~~pvi~i~G~~~pV~~~y~~~~-~~d~v~~~~~~v~~i~~~~~~GdILV 87 (140)
+....|+.+++.+|||++... ..+.++ ..|.+...+...| .++|.-.. ..+.+......+.. .......+|
T Consensus 156 l~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s~~r~-nl~~~v~~~~~~~~~~l~~~l~~---~~~~~~~II 231 (470)
T TIGR00614 156 LKQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCTSFDRP-NLYYEVRRKTPKILEDLLRFIRK---EFKGKSGII 231 (470)
T ss_pred HHHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCCCCCC-CcEEEEEeCCccHHHHHHHHHHH---hcCCCceEE
Confidence 334568899999999998653 334443 2333333322222 12232111 11222222222221 122234599
Q ss_pred e-CCCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 88 W-PCFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 88 F-l~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
| .+-++.+.. ...+ ........++||.++.++.+.++..
T Consensus 232 F~~s~~~~e~l------a~~L---~~~g~~~~~~H~~l~~~eR~~i~~~ 271 (470)
T TIGR00614 232 YCPSRKKSEQV------TASL---QNLGIAAGAYHAGLEISARDDVHHK 271 (470)
T ss_pred EECcHHHHHHH------HHHH---HhcCCCeeEeeCCCCHHHHHHHHHH
Confidence 9 544443211 0111 1222345679999999998887643
No 25
>KOG0921|consensus
Probab=94.21 E-value=0.023 Score=52.91 Aligned_cols=126 Identities=9% Similarity=-0.144 Sum_probs=80.4
Q ss_pred ChhHHHHHHHHHHHHhCCCceEEEecCCCChHHHHhhhCCCCEEEecCCccccceeec----------------------
Q psy14926 1 MFTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFA---------------------- 58 (140)
Q Consensus 1 l~tDllL~llk~~~~~r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~---------------------- 58 (140)
+|||+++-+++.+ |+ +++|++|.+++.|-.|+-.+++.+++++.++++-.+.
T Consensus 535 IdTd~f~~~f~~~----p~--~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~dd~ 608 (1282)
T KOG0921|consen 535 IDTDLFTNFFSSI----PD--VTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILCDPS 608 (1282)
T ss_pred cchhhhhhhhccc----cc--eeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhcccccccccChh
Confidence 6899999988876 33 3999999999999999889999999999999876542
Q ss_pred --------------CCCccchHHHHHHHHHHH------hcCCCCCcEEeeCCCc-eeeccccCCchhhHHHHHHHhhhhh
Q psy14926 59 --------------KNPVEDYVDSAVKQALQI------HLIPNPDQKYPWPCFQ-KVRFGRYSGPKLRYLGLCIEKAQKE 117 (140)
Q Consensus 59 --------------~~~~~d~v~~~~~~v~~i------~~~~~~GdILVFl~~~-ei~~~~~~~~~~~~i~~~~~~~~~~ 117 (140)
.......+++.+..+..- -.-.+++.+++||++. -+....- .-..-++--|.. +-.
T Consensus 609 ~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg-~~~~y~ilp~Hs--q~~ 685 (1282)
T KOG0921|consen 609 YNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFG-QANKYEILPLHS--QLT 685 (1282)
T ss_pred hcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhc-cchhcccccchh--hcc
Confidence 033333333333322211 1224678888887753 2221110 000111222322 335
Q ss_pred hccCCCCCHHHHhhhccc
Q psy14926 118 LALFTTLPLATGRSNFAD 135 (140)
Q Consensus 118 lpLh~~lp~~eQ~~~f~~ 135 (140)
+++|+.++-.+|..+|..
T Consensus 686 ~~eqrkvf~~~p~gv~ki 703 (1282)
T KOG0921|consen 686 SQEQRKVFEPVPEGVTKI 703 (1282)
T ss_pred cHhhhhccCccccccccc
Confidence 779999999999988875
No 26
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=94.15 E-value=0.26 Score=43.80 Aligned_cols=111 Identities=14% Similarity=0.068 Sum_probs=57.3
Q ss_pred HHHHHhCCCceEEEecCCCChHHH---HhhhC-CCCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEE
Q psy14926 11 LQVIARRQDLKLIVTSATMDADKF---SNFFG-NVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKY 86 (140)
Q Consensus 11 k~~~~~r~dLklVlMSATld~~~f---~~yf~-~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdIL 86 (140)
..+....|+..++.||||++.... .+.++ ..|.+.+.+..-| .+.|.-......+.. ++........+..+
T Consensus 166 ~~l~~~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~~~r~-nl~~~v~~~~~~~~~----l~~~l~~~~~~~~I 240 (607)
T PRK11057 166 GQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRP-NIRYTLVEKFKPLDQ----LMRYVQEQRGKSGI 240 (607)
T ss_pred HHHHHhCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECCCCCC-cceeeeeeccchHHH----HHHHHHhcCCCCEE
Confidence 334445689999999999986543 33332 2455555443222 223321111112222 22222223356789
Q ss_pred ee-CCCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 87 PW-PCFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 87 VF-l~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
|| .+-.+.+.. . ...........++||.++.+++++++..
T Consensus 241 IFc~tr~~~e~l-------a--~~L~~~g~~v~~~Ha~l~~~~R~~i~~~ 281 (607)
T PRK11057 241 IYCNSRAKVEDT-------A--ARLQSRGISAAAYHAGLDNDVRADVQEA 281 (607)
T ss_pred EEECcHHHHHHH-------H--HHHHhCCCCEEEecCCCCHHHHHHHHHH
Confidence 99 544444211 0 1111223446779999999998887754
No 27
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=94.12 E-value=0.59 Score=42.22 Aligned_cols=108 Identities=16% Similarity=0.158 Sum_probs=56.2
Q ss_pred CCceEEEecCCCChHHHH-hhhCCCCEEEe---cCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CCCc
Q psy14926 18 QDLKLIVTSATMDADKFS-NFFGNVPTFHI---PGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PCFQ 92 (140)
Q Consensus 18 ~dLklVlMSATld~~~f~-~yf~~~pvi~i---~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~~~ 92 (140)
....+++||||.....+. .++++..+..+ |....|++..+...... ...+..+.+.. ...+.++|| +.-.
T Consensus 408 ~~~~iL~~SATp~prtl~~~~~g~~~~s~i~~~p~~r~~i~~~~~~~~~~---~~~~~~i~~~~--~~g~q~~v~~~~ie 482 (681)
T PRK10917 408 ENPHVLVMTATPIPRTLAMTAYGDLDVSVIDELPPGRKPITTVVIPDSRR---DEVYERIREEI--AKGRQAYVVCPLIE 482 (681)
T ss_pred CCCCEEEEeCCCCHHHHHHHHcCCCceEEEecCCCCCCCcEEEEeCcccH---HHHHHHHHHHH--HcCCcEEEEEcccc
Confidence 356799999998655443 34454433322 33345777777654322 22333332221 224578888 4333
Q ss_pred eeeccccCCchhhHHHHHHHhhhh------hhccCCCCCHHHHhhhccc
Q psy14926 93 KVRFGRYSGPKLRYLGLCIEKAQK------ELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 93 ei~~~~~~~~~~~~i~~~~~~~~~------~lpLh~~lp~~eQ~~~f~~ 135 (140)
+.+. -.........+.+.+ +..+||.++.+|.++++..
T Consensus 483 ~s~~-----l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~ 526 (681)
T PRK10917 483 ESEK-----LDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAA 526 (681)
T ss_pred cccc-----hhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHH
Confidence 2211 011112222233322 3449999999999988653
No 28
>PRK10689 transcription-repair coupling factor; Provisional
Probab=93.95 E-value=0.44 Score=45.67 Aligned_cols=101 Identities=14% Similarity=0.095 Sum_probs=53.9
Q ss_pred hCCCceEEEecCCCChHHH--Hh-hhCCCCEEEecCC-ccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeC-C
Q psy14926 16 RRQDLKLIVTSATMDADKF--SN-FFGNVPTFHIPGR-TFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWP-C 90 (140)
Q Consensus 16 ~r~dLklVlMSATld~~~f--~~-yf~~~pvi~i~G~-~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl-~ 90 (140)
.+++..+++||||.....+ +. ++.+..++..+.. ..+|+.++.... ...+.. .++.-.. ..|.++||. +
T Consensus 745 l~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r~~v~~~~~~~~-~~~~k~---~il~el~--r~gqv~vf~n~ 818 (1147)
T PRK10689 745 MRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYD-SLVVRE---AILREIL--RGGQVYYLYND 818 (1147)
T ss_pred cCCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCCCCceEEEEecC-cHHHHH---HHHHHHh--cCCeEEEEECC
Confidence 4678899999999764433 22 2334555655432 356665543311 111111 1121111 247889984 3
Q ss_pred CceeeccccCCchhhHHHHHHHhhh------hhhccCCCCCHHHHhhhccc
Q psy14926 91 FQKVRFGRYSGPKLRYLGLCIEKAQ------KELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 91 ~~ei~~~~~~~~~~~~i~~~~~~~~------~~lpLh~~lp~~eQ~~~f~~ 135 (140)
.+.+ ......+. .+..+||.++.++..+++.+
T Consensus 819 i~~i-------------e~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~ 856 (1147)
T PRK10689 819 VENI-------------QKAAERLAELVPEARIAIGHGQMRERELERVMND 856 (1147)
T ss_pred HHHH-------------HHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHH
Confidence 2222 22222222 23459999999998887654
No 29
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=93.84 E-value=0.7 Score=41.73 Aligned_cols=115 Identities=17% Similarity=0.162 Sum_probs=73.7
Q ss_pred HHHHHHHHhCCCceEEEecCCC-ChHHHHhhhCCCCEEEecCCccccceee--cCCC--ccchHHHHHHHHHHH-hcCCC
Q psy14926 8 LIYLQVIARRQDLKLIVTSATM-DADKFSNFFGNVPTFHIPGRTFPVDVFF--AKNP--VEDYVDSAVKQALQI-HLIPN 81 (140)
Q Consensus 8 ~llk~~~~~r~dLklVlMSATl-d~~~f~~yf~~~pvi~i~G~~~pV~~~y--~~~~--~~d~v~~~~~~v~~i-~~~~~ 81 (140)
||+.++....|+-..|-.|||+ |.+.+++++| +..+.-++|.-|.+-|- ..+. -.+.+...++.-++. ....-
T Consensus 361 GLI~RLr~l~~~AQ~i~LSATVgNp~elA~~l~-a~lV~y~~RPVplErHlvf~~~e~eK~~ii~~L~k~E~~~~sskg~ 439 (830)
T COG1202 361 GLIGRLRYLFPGAQFIYLSATVGNPEELAKKLG-AKLVLYDERPVPLERHLVFARNESEKWDIIARLVKREFSTESSKGY 439 (830)
T ss_pred hHHHHHHHhCCCCeEEEEEeecCChHHHHHHhC-CeeEeecCCCCChhHeeeeecCchHHHHHHHHHHHHHHhhhhccCc
Confidence 5566665667899999999999 7899999997 88888999988877553 2211 234455555544433 23345
Q ss_pred CCcEEeeCCCceeeccccCCchhhHHHHHH-HhhhhhhccCCCCCHHHHhhh
Q psy14926 82 PDQKYPWPCFQKVRFGRYSGPKLRYLGLCI-EKAQKELALFTTLPLATGRSN 132 (140)
Q Consensus 82 ~GdILVFl~~~ei~~~~~~~~~~~~i~~~~-~~~~~~lpLh~~lp~~eQ~~~ 132 (140)
+|.-+||--.. ....++..-. .++.+.-|-|+.||-.+.+++
T Consensus 440 rGQtIVFT~SR---------rr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~v 482 (830)
T COG1202 440 RGQTIVFTYSR---------RRCHELADALTGKGLKAAPYHAGLPYKERKSV 482 (830)
T ss_pred CCceEEEecch---------hhHHHHHHHhhcCCcccccccCCCcHHHHHHH
Confidence 79999995221 1111111111 223446679999998887653
No 30
>PRK13767 ATP-dependent helicase; Provisional
Probab=93.66 E-value=0.75 Score=42.79 Aligned_cols=24 Identities=21% Similarity=0.297 Sum_probs=18.5
Q ss_pred CCCceEEEecCCCC-hHHHHhhhCC
Q psy14926 17 RQDLKLIVTSATMD-ADKFSNFFGN 40 (140)
Q Consensus 17 r~dLklVlMSATld-~~~f~~yf~~ 40 (140)
.++.+.|.+|||+. .+.+++++++
T Consensus 205 ~~~~q~IglSATl~~~~~va~~L~~ 229 (876)
T PRK13767 205 GGEFVRIGLSATIEPLEEVAKFLVG 229 (876)
T ss_pred CCCCeEEEEecccCCHHHHHHHhcC
Confidence 36889999999995 4677777653
No 31
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=93.55 E-value=0.45 Score=42.69 Aligned_cols=105 Identities=11% Similarity=0.010 Sum_probs=55.1
Q ss_pred CCCceEEEecCCCCh--HHH-HhhhCCCCEEEecCCcc---ccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeC-
Q psy14926 17 RQDLKLIVTSATMDA--DKF-SNFFGNVPTFHIPGRTF---PVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWP- 89 (140)
Q Consensus 17 r~dLklVlMSATld~--~~f-~~yf~~~pvi~i~G~~~---pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl- 89 (140)
.++.+.++||||+.. ..+ .+|+.+...+.+..... .+.-.|......+.. .++..++. ......++||.
T Consensus 178 p~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~~~~k~-~~L~~~L~---~~~~~~~IVF~~ 253 (629)
T PRK11634 178 PEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKN-EALVRFLE---AEDFDAAIIFVR 253 (629)
T ss_pred CCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEechhhHH-HHHHHHHH---hcCCCCEEEEec
Confidence 356789999999964 333 34556555666654432 122222211111222 22333333 23356789994
Q ss_pred CCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhcc
Q psy14926 90 CFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 90 ~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
+..+... +. ..+.........+||.++..++.+++.
T Consensus 254 tk~~a~~-------l~--~~L~~~g~~~~~lhgd~~q~~R~~il~ 289 (629)
T PRK11634 254 TKNATLE-------VA--EALERNGYNSAALNGDMNQALREQTLE 289 (629)
T ss_pred cHHHHHH-------HH--HHHHhCCCCEEEeeCCCCHHHHHHHHH
Confidence 4333311 10 112222334567999999999988765
No 32
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=93.35 E-value=0.71 Score=41.25 Aligned_cols=107 Identities=15% Similarity=0.158 Sum_probs=53.8
Q ss_pred CceEEEecCCCChHHHH-hhhCCCCE--E-EecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CCCce
Q psy14926 19 DLKLIVTSATMDADKFS-NFFGNVPT--F-HIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PCFQK 93 (140)
Q Consensus 19 dLklVlMSATld~~~f~-~yf~~~pv--i-~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~~~e 93 (140)
..++++||||.....+. ..+++..+ + ..|....|+...+...... ...+..+.+.. ...+.++|| +.-.+
T Consensus 386 ~~~~l~~SATp~prtl~l~~~~~l~~~~i~~~p~~r~~i~~~~~~~~~~---~~~~~~i~~~l--~~g~q~~v~~~~i~~ 460 (630)
T TIGR00643 386 TPHVLVMSATPIPRTLALTVYGDLDTSIIDELPPGRKPITTVLIKHDEK---DIVYEFIEEEI--AKGRQAYVVYPLIEE 460 (630)
T ss_pred CCCEEEEeCCCCcHHHHHHhcCCcceeeeccCCCCCCceEEEEeCcchH---HHHHHHHHHHH--HhCCcEEEEEccccc
Confidence 57899999997554433 23343222 2 2343346787777554222 22332222211 124568888 44322
Q ss_pred eeccccCCchhhHHHHHHHhh------hhhhccCCCCCHHHHhhhccc
Q psy14926 94 VRFGRYSGPKLRYLGLCIEKA------QKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 94 i~~~~~~~~~~~~i~~~~~~~------~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
-+.. .........+.+ ..+..+||.++.+|.++++..
T Consensus 461 s~~~-----~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~ 503 (630)
T TIGR00643 461 SEKL-----DLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEE 503 (630)
T ss_pred cccc-----hHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHH
Confidence 2110 011111111222 224559999999999887653
No 33
>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=93.12 E-value=0.76 Score=43.18 Aligned_cols=107 Identities=12% Similarity=0.085 Sum_probs=54.6
Q ss_pred hCCCceEEEecCCCChHHHHhh-hC--CCCEEEec-CCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CC
Q psy14926 16 RRQDLKLIVTSATMDADKFSNF-FG--NVPTFHIP-GRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PC 90 (140)
Q Consensus 16 ~r~dLklVlMSATld~~~f~~y-f~--~~pvi~i~-G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~ 90 (140)
.+++..+++||||.....+..- ++ +..++..+ ....||+.++.+.. ...+..++ .... ...|.+++| +.
T Consensus 596 ~~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~R~~V~t~v~~~~-~~~i~~~i---~~el--~~g~qv~if~n~ 669 (926)
T TIGR00580 596 LRTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDRLPVRTFVMEYD-PELVREAI---RREL--LRGGQVFYVHNR 669 (926)
T ss_pred cCCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCCccceEEEEEecC-HHHHHHHH---HHHH--HcCCeEEEEECC
Confidence 4567889999999865544332 22 33444443 23468887765431 11122222 1111 124778888 43
Q ss_pred CceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 91 FQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 91 ~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
-++++.. .+.+.... ....+..+||.++..+-.+++..
T Consensus 670 i~~~e~l------~~~L~~~~-p~~~v~~lHG~m~~~eRe~im~~ 707 (926)
T TIGR00580 670 IESIEKL------ATQLRELV-PEARIAIAHGQMTENELEEVMLE 707 (926)
T ss_pred cHHHHHH------HHHHHHhC-CCCeEEEecCCCCHHHHHHHHHH
Confidence 3333110 01111100 01223459999999988877653
No 34
>PTZ00110 helicase; Provisional
Probab=93.10 E-value=0.63 Score=40.91 Aligned_cols=113 Identities=12% Similarity=0.088 Sum_probs=55.5
Q ss_pred HHHHHH-hCCCceEEEecCCCCh--HHHHhh-hCCCCE-EEecCCc----ccccee--ecCCCccchHHHHHHHHHHHhc
Q psy14926 10 YLQVIA-RRQDLKLIVTSATMDA--DKFSNF-FGNVPT-FHIPGRT----FPVDVF--FAKNPVEDYVDSAVKQALQIHL 78 (140)
Q Consensus 10 lk~~~~-~r~dLklVlMSATld~--~~f~~y-f~~~pv-i~i~G~~----~pV~~~--y~~~~~~d~v~~~~~~v~~i~~ 78 (140)
+++++. .+++.+++++|||+.. ..+.+. +...|+ +.+.... ..++-. +.+. .+. ...+..+++...
T Consensus 298 i~~il~~~~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~~~~~~--~~k-~~~L~~ll~~~~ 374 (545)
T PTZ00110 298 IRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEE--HEK-RGKLKMLLQRIM 374 (545)
T ss_pred HHHHHHhCCCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEEEEEec--hhH-HHHHHHHHHHhc
Confidence 344444 5788999999999953 445544 433343 3332111 111111 1111 111 122223333222
Q ss_pred CCCCCcEEeeCCC-ceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 79 IPNPDQKYPWPCF-QKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 79 ~~~~GdILVFl~~-~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
...+.+|||... .+.+. ....++ ........+||.++.+|++.++..
T Consensus 375 -~~~~k~LIF~~t~~~a~~------l~~~L~---~~g~~~~~ihg~~~~~eR~~il~~ 422 (545)
T PTZ00110 375 -RDGDKILIFVETKKGADF------LTKELR---LDGWPALCIHGDKKQEERTWVLNE 422 (545)
T ss_pred -ccCCeEEEEecChHHHHH------HHHHHH---HcCCcEEEEECCCcHHHHHHHHHH
Confidence 145789999533 33211 001111 223345679999999999887653
No 35
>PRK09694 helicase Cas3; Provisional
Probab=92.95 E-value=1.2 Score=41.67 Aligned_cols=17 Identities=29% Similarity=0.255 Sum_probs=13.2
Q ss_pred CCCceEEEecCCCChHH
Q psy14926 17 RQDLKLIVTSATMDADK 33 (140)
Q Consensus 17 r~dLklVlMSATld~~~ 33 (140)
..+-++|+||||+....
T Consensus 468 ~~g~~vIllSATLP~~~ 484 (878)
T PRK09694 468 QAGGSVILLSATLPATL 484 (878)
T ss_pred hcCCcEEEEeCCCCHHH
Confidence 35678999999997544
No 36
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=91.96 E-value=1.8 Score=37.01 Aligned_cols=111 Identities=14% Similarity=0.093 Sum_probs=54.3
Q ss_pred HHHHH-hCCCceEEEecCCCChH--HHH-hhhCCCCEEEecCCcc---ccceeecCCCccchHHHHHHHHHHHhcCCCCC
Q psy14926 11 LQVIA-RRQDLKLIVTSATMDAD--KFS-NFFGNVPTFHIPGRTF---PVDVFFAKNPVEDYVDSAVKQALQIHLIPNPD 83 (140)
Q Consensus 11 k~~~~-~r~dLklVlMSATld~~--~f~-~yf~~~pvi~i~G~~~---pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~G 83 (140)
+.++. ..++...+++|||+..+ .+. +++.+...+.+..+.. .++.++.-. ........+..++ ......
T Consensus 171 ~~il~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~-~~~~k~~~l~~l~---~~~~~~ 246 (456)
T PRK10590 171 RRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFV-DKKRKRELLSQMI---GKGNWQ 246 (456)
T ss_pred HHHHHhCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEc-CHHHHHHHHHHHH---HcCCCC
Confidence 33444 34556799999999753 444 4555544455443321 112122111 1111112222222 223456
Q ss_pred cEEeeCCC-ceeeccccCCchhhHHHHHH-HhhhhhhccCCCCCHHHHhhhccc
Q psy14926 84 QKYPWPCF-QKVRFGRYSGPKLRYLGLCI-EKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 84 dILVFl~~-~ei~~~~~~~~~~~~i~~~~-~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
.+|||... .+.+. +.... ........+||.++..+..++++.
T Consensus 247 ~~lVF~~t~~~~~~----------l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~ 290 (456)
T PRK10590 247 QVLVFTRTKHGANH----------LAEQLNKDGIRSAAIHGNKSQGARTRALAD 290 (456)
T ss_pred cEEEEcCcHHHHHH----------HHHHHHHCCCCEEEEECCCCHHHHHHHHHH
Confidence 79999533 33211 11111 112335669999999998887653
No 37
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=91.69 E-value=2.4 Score=37.00 Aligned_cols=113 Identities=12% Similarity=0.098 Sum_probs=55.6
Q ss_pred HHHHhCCCceEEEecCCCC--hHHHHhhhCCCCE-EEecCCccc---cceeecCCCccchHHHHHHHHHHHhcCCCCCcE
Q psy14926 12 QVIARRQDLKLIVTSATMD--ADKFSNFFGNVPT-FHIPGRTFP---VDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQK 85 (140)
Q Consensus 12 ~~~~~r~dLklVlMSATld--~~~f~~yf~~~pv-i~i~G~~~p---V~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdI 85 (140)
+++..-++.+++++|||+. .+.+.+.+...++ +.+....-+ ++..+.-....+.. ..+..++..+ ....+.+
T Consensus 293 ~i~~~l~~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~~~~~~~k~-~~l~~~l~~~-~~~~~~~ 370 (518)
T PLN00206 293 QIFQALSQPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKK-QKLFDILKSK-QHFKPPA 370 (518)
T ss_pred HHHHhCCCCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEEeccchhHH-HHHHHHHHhh-cccCCCE
Confidence 3444446778999999996 4567777765444 333322111 11111111111111 1222222221 1224679
Q ss_pred EeeCCCc-eeeccccCCchhh-HHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 86 YPWPCFQ-KVRFGRYSGPKLR-YLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 86 LVFl~~~-ei~~~~~~~~~~~-~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
|||...+ +.+ .+. .+.. ........+||.++.++++.++..
T Consensus 371 iVFv~s~~~a~-------~l~~~L~~--~~g~~~~~~Hg~~~~~eR~~il~~ 413 (518)
T PLN00206 371 VVFVSSRLGAD-------LLANAITV--VTGLKALSIHGEKSMKERREVMKS 413 (518)
T ss_pred EEEcCCchhHH-------HHHHHHhh--ccCcceEEeeCCCCHHHHHHHHHH
Confidence 9995433 221 111 1111 112335669999999999888754
No 38
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=90.95 E-value=4 Score=40.43 Aligned_cols=24 Identities=29% Similarity=0.391 Sum_probs=20.0
Q ss_pred CCCceEEEecCCC-ChHHHHhhhCC
Q psy14926 17 RQDLKLIVTSATM-DADKFSNFFGN 40 (140)
Q Consensus 17 r~dLklVlMSATl-d~~~f~~yf~~ 40 (140)
..+.++|.+|||+ |.+.+++|+++
T Consensus 157 ~~~~QrIgLSATI~n~eevA~~L~g 181 (1490)
T PRK09751 157 HTSAQRIGLSATVRSASDVAAFLGG 181 (1490)
T ss_pred CCCCeEEEEEeeCCCHHHHHHHhcC
Confidence 3578999999999 56789999874
No 39
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=90.61 E-value=1.7 Score=37.95 Aligned_cols=106 Identities=14% Similarity=0.164 Sum_probs=58.9
Q ss_pred CCceEEEecCCCCh--HHHH-hhhCCCCEEEec--C---CccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 18 QDLKLIVTSATMDA--DKFS-NFFGNVPTFHIP--G---RTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 18 ~dLklVlMSATld~--~~f~-~yf~~~pvi~i~--G---~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
++-..++.|||+.. ..++ .|..+.-.+++. . ..-.++-+|......+ ........+......+.++||.
T Consensus 204 ~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~---~k~~~L~~ll~~~~~~~~IVF~ 280 (513)
T COG0513 204 PDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEE---EKLELLLKLLKDEDEGRVIVFV 280 (513)
T ss_pred cccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHH---HHHHHHHHHHhcCCCCeEEEEe
Confidence 47889999999986 2333 344544456665 1 1234445554432222 2333344444445566799995
Q ss_pred -CCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 90 -CFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 90 -~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+...... +. ......+.+...+||.|+.++-.+++..
T Consensus 281 ~tk~~~~~-------l~--~~l~~~g~~~~~lhG~l~q~~R~~~l~~ 318 (513)
T COG0513 281 RTKRLVEE-------LA--ESLRKRGFKVAALHGDLPQEERDRALEK 318 (513)
T ss_pred CcHHHHHH-------HH--HHHHHCCCeEEEecCCCCHHHHHHHHHH
Confidence 3333311 10 1112223456779999999998887754
No 40
>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=90.61 E-value=6.1 Score=36.23 Aligned_cols=30 Identities=13% Similarity=0.160 Sum_probs=19.7
Q ss_pred CCceEEEecCCCC-hHHHHhhhCCCCEEEec
Q psy14926 18 QDLKLIVTSATMD-ADKFSNFFGNVPTFHIP 47 (140)
Q Consensus 18 ~dLklVlMSATld-~~~f~~yf~~~pvi~i~ 47 (140)
.+.++|++|||+. ...+.+.+.+.|+..+.
T Consensus 193 ~~~q~i~~SATi~n~~~~~~~l~g~~~~~i~ 223 (742)
T TIGR03817 193 ASPVFVLASATTADPAAAASRLIGAPVVAVT 223 (742)
T ss_pred CCCEEEEEecCCCCHHHHHHHHcCCCeEEEC
Confidence 5678999999994 44555444445655454
No 41
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=90.39 E-value=1.5 Score=36.82 Aligned_cols=99 Identities=9% Similarity=0.066 Sum_probs=49.4
Q ss_pred eEEEecCCCChHH--H-HhhhCCCCEEEecCCcc---ccc--eeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeCCCc
Q psy14926 21 KLIVTSATMDADK--F-SNFFGNVPTFHIPGRTF---PVD--VFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWPCFQ 92 (140)
Q Consensus 21 klVlMSATld~~~--f-~~yf~~~pvi~i~G~~~---pV~--~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl~~~ 92 (140)
..+++|||+.... + ..++++...+.+..... .++ .+|.. ..+.. ..+...+ .....+.+|||....
T Consensus 192 ~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~~--~~~k~-~~l~~ll---~~~~~~~~lVF~~t~ 265 (423)
T PRK04837 192 LNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPS--NEEKM-RLLQTLI---EEEWPDRAIIFANTK 265 (423)
T ss_pred eEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeCC--HHHHH-HHHHHHH---HhcCCCeEEEEECCH
Confidence 3588999997543 3 24555444455443221 111 22211 11211 1222222 233467899995432
Q ss_pred -eeeccccCCchhhHHHHH-HHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 93 -KVRFGRYSGPKLRYLGLC-IEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 93 -ei~~~~~~~~~~~~i~~~-~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
..+ .+... .........+||.++.+++.+++.+
T Consensus 266 ~~~~----------~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~ 300 (423)
T PRK04837 266 HRCE----------EIWGHLAADGHRVGLLTGDVAQKKRLRILEE 300 (423)
T ss_pred HHHH----------HHHHHHHhCCCcEEEecCCCChhHHHHHHHH
Confidence 221 11111 1223345669999999999888753
No 42
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=90.05 E-value=3.2 Score=37.78 Aligned_cols=110 Identities=12% Similarity=0.110 Sum_probs=62.8
Q ss_pred hCC-CceEEEecCCCChHHHH-hhhCCC--C-EEEecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeCC
Q psy14926 16 RRQ-DLKLIVTSATMDADKFS-NFFGNV--P-TFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWPC 90 (140)
Q Consensus 16 ~r~-dLklVlMSATld~~~f~-~yf~~~--p-vi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl~ 90 (140)
+.. .-.+++||||.=.-.++ ..||+- . +-+.|...-||++.+.+....+.+ +..+..-.. +..--.-|.|-
T Consensus 407 KG~~~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~~~~v---~e~i~~ei~-~GrQaY~VcPL 482 (677)
T COG1200 407 KGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHERRPEV---YERIREEIA-KGRQAYVVCPL 482 (677)
T ss_pred hCCCCCcEEEEeCCCchHHHHHHHhccccchhhccCCCCCCceEEEEeccccHHHH---HHHHHHHHH-cCCEEEEEecc
Confidence 455 57899999998655554 456763 2 346776668999999886433333 333332222 11222344443
Q ss_pred CceeeccccCCchhhHHHHHHHhhhhhhc------cCCCCCHHHHhhhcc
Q psy14926 91 FQKVRFGRYSGPKLRYLGLCIEKAQKELA------LFTTLPLATGRSNFA 134 (140)
Q Consensus 91 ~~ei~~~~~~~~~~~~i~~~~~~~~~~lp------Lh~~lp~~eQ~~~f~ 134 (140)
-.|-+. -.+.......+.++..+| +||.++.+|.++|-.
T Consensus 483 IeESE~-----l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~ 527 (677)
T COG1200 483 IEESEK-----LELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVME 527 (677)
T ss_pred cccccc-----chhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHH
Confidence 333321 112223333344545555 999999999998754
No 43
>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=87.98 E-value=1.4 Score=39.87 Aligned_cols=71 Identities=18% Similarity=0.265 Sum_probs=40.6
Q ss_pred eEEEecCCCC-hHHHHhhhCC-CCEEEecCCc-----------------cccceeecCCCccchHHHHHHHHHHHhcCCC
Q psy14926 21 KLIVTSATMD-ADKFSNFFGN-VPTFHIPGRT-----------------FPVDVFFAKNPVEDYVDSAVKQALQIHLIPN 81 (140)
Q Consensus 21 klVlMSATld-~~~f~~yf~~-~pvi~i~G~~-----------------~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~ 81 (140)
.+|+||||+. .+.|.+.+|- .+.....+.. .+.+..|......+++......+.++.. ..
T Consensus 443 svil~SgTL~p~~~~~~~Lg~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~l~~~~~~r~~~~~~~~l~~~i~~~~~-~~ 521 (705)
T TIGR00604 443 SVILASGTLSPLDAFPRNLGFNPVSQDSPTHILKRENLLTLIVTRGSDQVPLSSTFEIRNDPSLVRNLGELLVEFSK-II 521 (705)
T ss_pred EEEEecccCCcHHHHHHHhCCCCccceecCcccchHHeEEEEEeeCCCCCeeeeehhccCCHHHHHHHHHHHHHHhh-cC
Confidence 5999999997 4557777762 1111111111 2222334333335677666666666644 34
Q ss_pred CCcEEee-CCCc
Q psy14926 82 PDQKYPW-PCFQ 92 (140)
Q Consensus 82 ~GdILVF-l~~~ 92 (140)
+|++||| |+.+
T Consensus 522 pgg~lvfFpSy~ 533 (705)
T TIGR00604 522 PDGIVVFFPSYS 533 (705)
T ss_pred CCcEEEEccCHH
Confidence 6999999 6554
No 44
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=87.30 E-value=3.9 Score=34.98 Aligned_cols=105 Identities=10% Similarity=0.079 Sum_probs=50.3
Q ss_pred CCceEEEecCCCCh--HHHHhhh-CCCCEEEecCCcc---ccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeCCC
Q psy14926 18 QDLKLIVTSATMDA--DKFSNFF-GNVPTFHIPGRTF---PVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWPCF 91 (140)
Q Consensus 18 ~dLklVlMSATld~--~~f~~yf-~~~pvi~i~G~~~---pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl~~ 91 (140)
.+.++|++|||+.. ..+.+.| ++..++.+..... .++.++......+.. ..+ .++......+.+|||...
T Consensus 269 ~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~k~-~~l---~~ll~~~~~~~~IVF~~s 344 (475)
T PRK01297 269 EERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSDKY-KLL---YNLVTQNPWERVMVFANR 344 (475)
T ss_pred CCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEecchhHH-HHH---HHHHHhcCCCeEEEEeCC
Confidence 45689999999864 3444444 4444444443321 112111111111211 122 222223344679999543
Q ss_pred c-eeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 92 Q-KVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 92 ~-ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
. +.+. +. ............+||.+|.+++++++..
T Consensus 345 ~~~~~~-------l~--~~L~~~~~~~~~~~g~~~~~~R~~~~~~ 380 (475)
T PRK01297 345 KDEVRR-------IE--ERLVKDGINAAQLSGDVPQHKRIKTLEG 380 (475)
T ss_pred HHHHHH-------HH--HHHHHcCCCEEEEECCCCHHHHHHHHHH
Confidence 3 2211 11 0111112334559999999999887654
No 45
>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=87.01 E-value=2.4 Score=37.40 Aligned_cols=106 Identities=16% Similarity=0.053 Sum_probs=50.8
Q ss_pred HhCCCceEEEecCCCChHHH---HhhhCC-CCEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-C
Q psy14926 15 ARRQDLKLIVTSATMDADKF---SNFFGN-VPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-P 89 (140)
Q Consensus 15 ~~r~dLklVlMSATld~~~f---~~yf~~-~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l 89 (140)
...|+..++.+|||...... .++++- .+.+.+.+. ....+.|.-....+... .+...+..+ ..+..+|| .
T Consensus 158 ~~~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~~-~r~nl~~~v~~~~~~~~-~l~~~l~~~---~~~~~IIf~~ 232 (591)
T TIGR01389 158 ERFPQVPRIALTATADAETRQDIRELLRLADANEFITSF-DRPNLRFSVVKKNNKQK-FLLDYLKKH---RGQSGIIYAS 232 (591)
T ss_pred HhCCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEecCC-CCCCcEEEEEeCCCHHH-HHHHHHHhc---CCCCEEEEEC
Confidence 34456669999999986554 344431 222222222 11233442211122222 222222222 24567899 4
Q ss_pred CCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhcc
Q psy14926 90 CFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 90 ~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
+-++.+.. ...+ ........++||.++.++...+..
T Consensus 233 sr~~~e~l------a~~L---~~~g~~~~~~H~~l~~~~R~~i~~ 268 (591)
T TIGR01389 233 SRKKVEEL------AERL---ESQGISALAYHAGLSNKVRAENQE 268 (591)
T ss_pred cHHHHHHH------HHHH---HhCCCCEEEEECCCCHHHHHHHHH
Confidence 44443210 0111 122233467999999999887754
No 46
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=85.09 E-value=4.7 Score=36.66 Aligned_cols=72 Identities=14% Similarity=0.125 Sum_probs=40.5
Q ss_pred ceEEEecCCCChH-HHHhh---hCC-----CCEEEecCCcccc---ceeecCC------CccchHHHHHHHHHHHhcCCC
Q psy14926 20 LKLIVTSATMDAD-KFSNF---FGN-----VPTFHIPGRTFPV---DVFFAKN------PVEDYVDSAVKQALQIHLIPN 81 (140)
Q Consensus 20 LklVlMSATld~~-~f~~y---f~~-----~pvi~i~G~~~pV---~~~y~~~------~~~d~v~~~~~~v~~i~~~~~ 81 (140)
-.+|+||||+... .|..| .|= +..+.++.. |+. -..|.+. ...+|....+..+..+.. .
T Consensus 457 ~~vIltSATL~~~~~f~~~~~~lGL~~~~~~~~~~~~Sp-F~~~~q~~l~vp~~~~~p~~~~~~~~~~~~~i~~l~~--~ 533 (697)
T PRK11747 457 PGAVLTSATLRSLNSFDRFQEQSGLPEKDGDRFLALPSP-FDYPNQGKLVIPKMRAEPDNEEAHTAEMAEFLPELLE--K 533 (697)
T ss_pred CEEEEEeeeCCCCCchHHHHHHcCCCCCCCceEEEcCCC-CCHHHccEEEeCCCCCCCCCcHHHHHHHHHHHHHHHh--c
Confidence 4689999999873 45322 231 223444433 444 2334432 234577777777777765 4
Q ss_pred CCcEEee-CCCcee
Q psy14926 82 PDQKYPW-PCFQKV 94 (140)
Q Consensus 82 ~GdILVF-l~~~ei 94 (140)
+|.+||| ++.+..
T Consensus 534 ~gg~LVlFtSy~~l 547 (697)
T PRK11747 534 HKGSLVLFASRRQM 547 (697)
T ss_pred CCCEEEEeCcHHHH
Confidence 5668888 444433
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=83.92 E-value=5.6 Score=38.49 Aligned_cols=108 Identities=8% Similarity=-0.014 Sum_probs=53.0
Q ss_pred hCCCceEEEecCCCChH---HHHhhhCCC-CEEEecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CC
Q psy14926 16 RRQDLKLIVTSATMDAD---KFSNFFGNV-PTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PC 90 (140)
Q Consensus 16 ~r~dLklVlMSATld~~---~f~~yf~~~-pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~ 90 (140)
..|+..++.+|||+... .+.+.++-. +++...+. -.-.++|.-.+........+...+.. ....+..+|| .+
T Consensus 613 ~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~Sf-~RpNL~y~Vv~k~kk~le~L~~~I~~--~~~~esgIIYC~S 689 (1195)
T PLN03137 613 KFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSF-NRPNLWYSVVPKTKKCLEDIDKFIKE--NHFDECGIIYCLS 689 (1195)
T ss_pred hCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeeccc-CccceEEEEeccchhHHHHHHHHHHh--cccCCCceeEeCc
Confidence 45678899999999864 344555432 22222222 11234443222122111122222221 1223456788 55
Q ss_pred CceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 91 FQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 91 ~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
-++.+. +.+ .....+....++||.|+.++...+...
T Consensus 690 Rke~E~-------LAe--~L~~~Gika~~YHAGLs~eeR~~vqe~ 725 (1195)
T PLN03137 690 RMDCEK-------VAE--RLQEFGHKAAFYHGSMDPAQRAFVQKQ 725 (1195)
T ss_pred hhHHHH-------HHH--HHHHCCCCeeeeeCCCCHHHHHHHHHH
Confidence 444421 111 111233456779999999988877543
No 48
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=82.75 E-value=1.7 Score=41.41 Aligned_cols=43 Identities=19% Similarity=0.440 Sum_probs=36.7
Q ss_pred CCceEEEecCCC-ChHHHHhhhC-----CCCEEEecCCccccceeecCC
Q psy14926 18 QDLKLIVTSATM-DADKFSNFFG-----NVPTFHIPGRTFPVDVFFAKN 60 (140)
Q Consensus 18 ~dLklVlMSATl-d~~~f~~yf~-----~~pvi~i~G~~~pV~~~y~~~ 60 (140)
+++++|.+|||+ |++.|..+++ +|-+|..+-|.-|.+.+|...
T Consensus 259 ~~v~~v~LSATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvPL~~~~~~~ 307 (1041)
T COG4581 259 DHVRFVFLSATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVPLEHFVYVG 307 (1041)
T ss_pred CCCcEEEEeCCCCCHHHHHHHHHhccCCCeEEEeecCCCCCeEEEEecC
Confidence 458999999999 8999999997 477888888988888887664
No 49
>KOG0346|consensus
Probab=79.62 E-value=7.6 Score=34.14 Aligned_cols=84 Identities=13% Similarity=0.151 Sum_probs=46.9
Q ss_pred hHHHHHH-----HHHHHH-hCCCceEEEecCCC--ChHHHHhhhCCCCEE-EecCCccc----cceeecCCCccchHHHH
Q psy14926 3 TADFFLI-----YLQVIA-RRQDLKLIVTSATM--DADKFSNFFGNVPTF-HIPGRTFP----VDVFFAKNPVEDYVDSA 69 (140)
Q Consensus 3 tDllL~l-----lk~~~~-~r~dLklVlMSATl--d~~~f~~yf~~~pvi-~i~G~~~p----V~~~y~~~~~~d~v~~~ 69 (140)
.|++|.+ ++.+.. .=+...-++||||+ |+..+.+.|-.-|++ .+....-| +.-+|......|.+.-.
T Consensus 179 ADLllsfGYeedlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cse~DKflll 258 (569)
T KOG0346|consen 179 ADLLLSFGYEEDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCSEEDKFLLL 258 (569)
T ss_pred hhhhhhcccHHHHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEeccchhHHHH
Confidence 5666654 344444 23557789999999 578888888655654 33322222 33344443344544322
Q ss_pred HHHHHHHhcCCCCCcEEeeC
Q psy14926 70 VKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 70 ~~~v~~i~~~~~~GdILVFl 89 (140)
+ ..+.+ +-..|-+|+|.
T Consensus 259 y-allKL--~LI~gKsliFV 275 (569)
T KOG0346|consen 259 Y-ALLKL--RLIRGKSLIFV 275 (569)
T ss_pred H-HHHHH--HHhcCceEEEE
Confidence 2 22222 22368899995
No 50
>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=74.81 E-value=10 Score=35.15 Aligned_cols=73 Identities=19% Similarity=0.284 Sum_probs=38.2
Q ss_pred ceEEEecCCCCh----HHHHhhhCC--CCEEEecCCcccc---ceeecCC--------CccchHHHHHHHHHHHhcCCCC
Q psy14926 20 LKLIVTSATMDA----DKFSNFFGN--VPTFHIPGRTFPV---DVFFAKN--------PVEDYVDSAVKQALQIHLIPNP 82 (140)
Q Consensus 20 LklVlMSATld~----~~f~~yf~~--~pvi~i~G~~~pV---~~~y~~~--------~~~d~v~~~~~~v~~i~~~~~~ 82 (140)
-.+|+||||+.+ +.|.+.+|- .....+....|+. ...|.+. ...+|....+..+.++... .+
T Consensus 596 ~~~il~SATL~~~~~~~~~~~~lGl~~~~~~~~~~spf~~~~~~~l~v~~d~~~~~~~~~~~~~~~ia~~i~~l~~~-~~ 674 (850)
T TIGR01407 596 KSLIFTSATLKFSHSFESFPQLLGLTDVHFNTIEPTPLNYAENQRVLIPTDAPAIQNKSLEEYAQEIASYIIEITAI-TS 674 (850)
T ss_pred CeEEEEecccccCCChHHHHHhcCCCccccceecCCCCCHHHcCEEEecCCCCCCCCCChHHHHHHHHHHHHHHHHh-cC
Confidence 379999999974 445555552 1222222333442 1123221 1234555666666666433 46
Q ss_pred CcEEee-CCCce
Q psy14926 83 DQKYPW-PCFQK 93 (140)
Q Consensus 83 GdILVF-l~~~e 93 (140)
|.+||| ++.+.
T Consensus 675 g~~LVlftS~~~ 686 (850)
T TIGR01407 675 PKILVLFTSYEM 686 (850)
T ss_pred CCEEEEeCCHHH
Confidence 889999 44443
No 51
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=74.72 E-value=17 Score=35.14 Aligned_cols=107 Identities=15% Similarity=0.227 Sum_probs=67.5
Q ss_pred HHHHH-hCCCceEEEecCCCChHHHHhhh-C--CCCEEEec-CCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcE
Q psy14926 11 LQVIA-RRQDLKLIVTSATMDADKFSNFF-G--NVPTFHIP-GRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQK 85 (140)
Q Consensus 11 k~~~~-~r~dLklVlMSATld~~~f~~yf-~--~~pvi~i~-G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdI 85 (140)
|+-++ .|.+.-++=||||.=.-.+.-=. | +-.+|..| -..+||+++..+. ....+.+++.+-+ . ..|.|
T Consensus 733 KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~~-d~~~ireAI~REl---~--RgGQv 806 (1139)
T COG1197 733 KEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVSEY-DDLLIREAILREL---L--RGGQV 806 (1139)
T ss_pred HHHHHHHhccCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcceEEEEecC-ChHHHHHHHHHHH---h--cCCEE
Confidence 44444 68899999999996433322211 2 23455444 5669999988664 2333333332221 1 12333
Q ss_pred EeeCCCceeeccccCCchhhHHHHHHHhhhhhhc------cCCCCCHHHHhhhccc
Q psy14926 86 YPWPCFQKVRFGRYSGPKLRYLGLCIEKAQKELA------LFTTLPLATGRSNFAD 135 (140)
Q Consensus 86 LVFl~~~ei~~~~~~~~~~~~i~~~~~~~~~~lp------Lh~~lp~~eQ~~~f~~ 135 (140)
- |..+.++.|..|.+.+++-+| .||+++..|..+++.+
T Consensus 807 f------------Yv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~ 850 (1139)
T COG1197 807 F------------YVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLD 850 (1139)
T ss_pred E------------EEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHH
Confidence 1 224566778889899988888 9999999999988765
No 52
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=74.36 E-value=17 Score=34.36 Aligned_cols=98 Identities=12% Similarity=0.045 Sum_probs=57.6
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccceeecCC---CccchHHHHHHHHHHHhcCCCCCcEEeeCCCceee
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFFAKN---PVEDYVDSAVKQALQIHLIPNPDQKYPWPCFQKVR 95 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~---~~~d~v~~~~~~v~~i~~~~~~GdILVFl~~~ei~ 95 (140)
|+--|++|.. .+.|.+.|+ -+|+.||...--....+.+. ...+...+.++.+.+.|... .-||||-...+.
T Consensus 381 kLsGMTGTa~te~~Ef~~iY~-l~Vv~IPtnkp~~R~d~~d~v~~t~~~k~~av~~~i~~~~~~g--~PVLVgt~Sie~- 456 (896)
T PRK13104 381 KLSGMTGTADTEAYEFQQIYN-LEVVVIPTNRSMIRKDEADLVYLTQADKFQAIIEDVRECGVRK--QPVLVGTVSIEA- 456 (896)
T ss_pred hhccCCCCChhHHHHHHHHhC-CCEEECCCCCCcceecCCCeEEcCHHHHHHHHHHHHHHHHhCC--CCEEEEeCcHHH-
Confidence 7888999995 455888776 88999997532222222221 12445567778888888754 349999643322
Q ss_pred ccccCCchhhHHHHHHHhhhh-hhc---cCCCCCHHHHhhhc
Q psy14926 96 FGRYSGPKLRYLGLCIEKAQK-ELA---LFTTLPLATGRSNF 133 (140)
Q Consensus 96 ~~~~~~~~~~~i~~~~~~~~~-~lp---Lh~~lp~~eQ~~~f 133 (140)
-......+.+ -+| ||+.....|-+.+.
T Consensus 457 -----------sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia 487 (896)
T PRK13104 457 -----------SEFLSQLLKKENIKHQVLNAKFHEKEAQIIA 487 (896)
T ss_pred -----------HHHHHHHHHHcCCCeEeecCCCChHHHHHHH
Confidence 1222222211 222 89988866655443
No 53
>COG1204 Superfamily II helicase [General function prediction only]
Probab=73.28 E-value=17 Score=33.67 Aligned_cols=33 Identities=15% Similarity=0.303 Sum_probs=26.3
Q ss_pred HHHHHHHHhCCCceEEEecCCC-ChHHHHhhhCC
Q psy14926 8 LIYLQVIARRQDLKLIVTSATM-DADKFSNFFGN 40 (140)
Q Consensus 8 ~llk~~~~~r~dLklVlMSATl-d~~~f~~yf~~ 40 (140)
.++.+.....+..|+|-.|||+ |...+++|.+.
T Consensus 169 ~iv~r~~~~~~~~rivgLSATlpN~~evA~wL~a 202 (766)
T COG1204 169 SIVARMRRLNELIRIVGLSATLPNAEEVADWLNA 202 (766)
T ss_pred hHHHHHHhhCcceEEEEEeeecCCHHHHHHHhCC
Confidence 3445555566779999999999 89999999974
No 54
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=71.96 E-value=30 Score=31.74 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=18.6
Q ss_pred hCCCceEEEecCCCCh---HHHHhhhCC
Q psy14926 16 RRQDLKLIVTSATMDA---DKFSNFFGN 40 (140)
Q Consensus 16 ~r~dLklVlMSATld~---~~f~~yf~~ 40 (140)
.+-+.++|+||||+.. +.|.++++.
T Consensus 367 ~~~g~~ill~SATlP~~~~~~l~~~~~~ 394 (733)
T COG1203 367 AEAGVPVLLMSATLPPFLKEKLKKALGK 394 (733)
T ss_pred HhCCCCEEEEecCCCHHHHHHHHHHHhc
Confidence 4568999999999975 446666653
No 55
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=71.50 E-value=59 Score=30.55 Aligned_cols=104 Identities=9% Similarity=-0.012 Sum_probs=59.3
Q ss_pred hCCCceEEEecCCC-ChHHHHhhhCC----CCEEEecC-CccccceeecCCCccc---hHHHHHHHHHHHhcCCCCCcEE
Q psy14926 16 RRQDLKLIVTSATM-DADKFSNFFGN----VPTFHIPG-RTFPVDVFFAKNPVED---YVDSAVKQALQIHLIPNPDQKY 86 (140)
Q Consensus 16 ~r~dLklVlMSATl-d~~~f~~yf~~----~pvi~i~G-~~~pV~~~y~~~~~~d---~v~~~~~~v~~i~~~~~~GdIL 86 (140)
.-+++.-|..|||. +.+..++|.++ |.++.+++ +.+.+++........+ -...++..+.++..+ ....|
T Consensus 180 l~~~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~~p~~~~~~~~~~~~~~~~~i~~~v~~--~~ttL 257 (814)
T COG1201 180 LAGDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVISPVEDLIYDEELWAALYERIAELVKK--HRTTL 257 (814)
T ss_pred hCcccEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceEEEEecCCccccccchhHHHHHHHHHHHhh--cCcEE
Confidence 34588999999999 56778888754 46777775 4577777664432111 223455556655433 34799
Q ss_pred eeC-CC--ceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhh
Q psy14926 87 PWP-CF--QKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRS 131 (140)
Q Consensus 87 VFl-~~--~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~ 131 (140)
||- |- +|. ....+..+.. ..+-.=||+|+.+.-..
T Consensus 258 IF~NTR~~aE~--------l~~~L~~~~~--~~i~~HHgSlSre~R~~ 295 (814)
T COG1201 258 IFTNTRSGAER--------LAFRLKKLGP--DIIEVHHGSLSRELRLE 295 (814)
T ss_pred EEEeChHHHHH--------HHHHHHHhcC--CceeeecccccHHHHHH
Confidence 994 32 222 1222233221 11223688999776543
No 56
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=71.02 E-value=20 Score=31.92 Aligned_cols=106 Identities=13% Similarity=0.166 Sum_probs=51.4
Q ss_pred ceEEEecCCCChHH-HHhhhCC---CCEE--EecCCccccce---eecCC----Cc-cchHHHHHHHHHHHhcCCCCCcE
Q psy14926 20 LKLIVTSATMDADK-FSNFFGN---VPTF--HIPGRTFPVDV---FFAKN----PV-EDYVDSAVKQALQIHLIPNPDQK 85 (140)
Q Consensus 20 LklVlMSATld~~~-f~~yf~~---~pvi--~i~G~~~pV~~---~y~~~----~~-~d~v~~~~~~v~~i~~~~~~GdI 85 (140)
-.+|+||||+.... |..+.+. .... ......|+... .|.+. +. +.+....+..+..+- ...+|.+
T Consensus 404 ~~~vl~SaTL~~~~~f~~~~~~~~~~~~~~~~~~~spf~~~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~~ 482 (654)
T COG1199 404 ASVVLTSATLSPLDSFSSLLGLLGLEEKLRFLSLPSPFNYEEQGQLYVPTDLPEPREPELLAKLAAYLREIL-KASPGGV 482 (654)
T ss_pred CcEEEeeeeccCCCcHHHHHHHcCCccccceeccCCCCChhhcceEeccccCCCCCChHHHHHHHHHHHHHH-hhcCCCE
Confidence 34999999997543 4444431 1111 22233233322 22221 11 145555555555553 3446789
Q ss_pred Eee-CCCceeeccccCCchhhHHHHHHHhhh--hhhccCCCCCHHHHhhhcccc
Q psy14926 86 YPW-PCFQKVRFGRYSGPKLRYLGLCIEKAQ--KELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 86 LVF-l~~~ei~~~~~~~~~~~~i~~~~~~~~--~~lpLh~~lp~~eQ~~~f~~~ 136 (140)
||| ++.+..+. +........ ..+..+|.-+-++.-+-|..+
T Consensus 483 lvlF~Sy~~l~~----------~~~~~~~~~~~~~v~~q~~~~~~~~l~~f~~~ 526 (654)
T COG1199 483 LVLFPSYEYLKR----------VAERLKDERSTLPVLTQGEDEREELLEKFKAS 526 (654)
T ss_pred EEEeccHHHHHH----------HHHHHhhcCccceeeecCCCcHHHHHHHHHHh
Confidence 998 44333211 122211111 134467777777666666554
No 57
>KOG0331|consensus
Probab=69.42 E-value=41 Score=29.94 Aligned_cols=115 Identities=10% Similarity=0.056 Sum_probs=61.6
Q ss_pred HHHHHH-h-CCCceEEEecCCCCh--HHHHh-hhCCCCEEEecCCc-----cccceeecCCCccchHHHHHHHHHHHhcC
Q psy14926 10 YLQVIA-R-RQDLKLIVTSATMDA--DKFSN-FFGNVPTFHIPGRT-----FPVDVFFAKNPVEDYVDSAVKQALQIHLI 79 (140)
Q Consensus 10 lk~~~~-~-r~dLklVlMSATld~--~~f~~-yf~~~pvi~i~G~~-----~pV~~~y~~~~~~d~v~~~~~~v~~i~~~ 79 (140)
+++++. . +++=..++-|||... ..|++ |.++.--+.+-+.. +.+.- +.......--...+..++..+..
T Consensus 260 I~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~q-ive~~~~~~K~~~l~~lL~~~~~ 338 (519)
T KOG0331|consen 260 IRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQ-IVEVCDETAKLRKLGKLLEDISS 338 (519)
T ss_pred HHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhh-hhhhcCHHHHHHHHHHHHHHHhc
Confidence 344555 3 444469999999964 44554 44533334443331 11100 00000111112334445555556
Q ss_pred CCCCcEEeeC-CCceeeccccCCchhhHHHHHHHh-hhhhhccCCCCCHHHHhhhccc
Q psy14926 80 PNPDQKYPWP-CFQKVRFGRYSGPKLRYLGLCIEK-AQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 80 ~~~GdILVFl-~~~ei~~~~~~~~~~~~i~~~~~~-~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+.+|-++||- +-.+. .++...... .+....+||..|..|-+.++..
T Consensus 339 ~~~~KvIIFc~tkr~~----------~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~ 386 (519)
T KOG0331|consen 339 DSEGKVIIFCETKRTC----------DELARNLRRKGWPAVAIHGDKSQSERDWVLKG 386 (519)
T ss_pred cCCCcEEEEecchhhH----------HHHHHHHHhcCcceeeecccccHHHHHHHHHh
Confidence 6788999994 33332 334444433 3567789999999999888764
No 58
>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=65.89 E-value=33 Score=31.84 Aligned_cols=66 Identities=12% Similarity=0.111 Sum_probs=42.2
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC---ccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP---VEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~---~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+.-||.|+.. +.|.+.|+ -+++.||.-.--....+.+.. ..+...+.++.+.+.|.+. --||||-
T Consensus 342 kl~GmTGTa~te~~E~~~iY~-l~vv~IPtnkp~~R~d~~d~i~~t~~~k~~ai~~~i~~~~~~g--rpvLV~t 412 (745)
T TIGR00963 342 KLSGMTGTAKTEEEEFEKIYN-LEVVVVPTNRPVIRKDLSDLVYKTEEEKWKAVVDEIKERHAKG--QPVLVGT 412 (745)
T ss_pred hhhccCCCcHHHHHHHHHHhC-CCEEEeCCCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhcC--CCEEEEe
Confidence 78899999954 55888886 889999975322222221111 2345566777777777653 4599995
No 59
>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=64.29 E-value=41 Score=31.30 Aligned_cols=68 Identities=10% Similarity=0.118 Sum_probs=41.6
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC---ccchHHHHHHHHHHHhcCCCCCcEEeeCCC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP---VEDYVDSAVKQALQIHLIPNPDQKYPWPCF 91 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~---~~d~v~~~~~~v~~i~~~~~~GdILVFl~~ 91 (140)
|+.-|++|..+ +.|.+.|+ -+++.||...--....+.+.. ..+...+.+..+.+.|.. ..-||||-..
T Consensus 361 kl~GmTGTa~~~~~Ef~~iY~-l~v~~IPt~kp~~r~d~~d~i~~~~~~K~~ai~~~i~~~~~~--~~pvLIft~s 433 (762)
T TIGR03714 361 KLSGMTGTGKVAEKEFIETYS-LSVVKIPTNKPIIRIDYPDKIYATLPEKLMATLEDVKEYHET--GQPVLLITGS 433 (762)
T ss_pred hhcccCCCChhHHHHHHHHhC-CCEEEcCCCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHhhC--CCCEEEEECc
Confidence 78999999864 56888776 889999976422222221111 233445566666666543 3469999543
No 60
>KOG0926|consensus
Probab=63.61 E-value=2.7 Score=39.48 Aligned_cols=20 Identities=20% Similarity=0.305 Sum_probs=18.6
Q ss_pred hhccCCCCCHHHHhhhcccc
Q psy14926 117 ELALFTTLPLATGRSNFADS 136 (140)
Q Consensus 117 ~lpLh~~lp~~eQ~~~f~~~ 136 (140)
+|||||-||.++|.+||++.
T Consensus 607 vLPLYSLLs~~~Q~RVF~~~ 626 (1172)
T KOG0926|consen 607 VLPLYSLLSTEKQMRVFDEV 626 (1172)
T ss_pred EeehhhhcCHHHhhhhccCC
Confidence 69999999999999999873
No 61
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=63.31 E-value=34 Score=31.26 Aligned_cols=66 Identities=11% Similarity=0.126 Sum_probs=36.5
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecC---CCccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAK---NPVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~---~~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+.-||||+.. +.|.+.|+ -.++.||-..-.....+.. ....+...+.+..+.+.|... .-+|||-
T Consensus 410 kl~GmTGTa~~~~~El~~~y~-l~vv~IPt~kp~~r~~~~~~v~~t~~~K~~aL~~~i~~~~~~~--~pvLIft 480 (656)
T PRK12898 410 RLAGMTGTAREVAGELWSVYG-LPVVRIPTNRPSQRRHLPDEVFLTAAAKWAAVAARVRELHAQG--RPVLVGT 480 (656)
T ss_pred HHhcccCcChHHHHHHHHHHC-CCeEEeCCCCCccceecCCEEEeCHHHHHHHHHHHHHHHHhcC--CCEEEEe
Confidence 78999999964 45888886 5677777643221111110 112334444444444444322 3499995
No 62
>KOG0336|consensus
Probab=61.69 E-value=54 Score=28.92 Aligned_cols=114 Identities=13% Similarity=0.116 Sum_probs=63.6
Q ss_pred HHHHHhCCCceEEEecCCCC--hHHHHhhhCCCCEEEecCCc-----cccceeecCCCccchHHHHHHHHHHHhcCCCCC
Q psy14926 11 LQVIARRQDLKLIVTSATMD--ADKFSNFFGNVPTFHIPGRT-----FPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPD 83 (140)
Q Consensus 11 k~~~~~r~dLklVlMSATld--~~~f~~yf~~~pvi~i~G~~-----~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~G 83 (140)
|-++.-|||=..|+.|||.. +.+++.-|-.-|++..-|.. ..|+-++.-....+.. +.+....+-+ .+..
T Consensus 390 killdiRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i~v~~d~~k~-~~~~~f~~~m--s~nd 466 (629)
T KOG0336|consen 390 KILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNIIVTTDSEKL-EIVQFFVANM--SSND 466 (629)
T ss_pred HHhhhcCCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeEEecccHHHH-HHHHHHHHhc--CCCc
Confidence 34455899999999999996 45566433346777666654 4444444222233333 3344444433 3346
Q ss_pred cEEeeCCCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 84 QKYPWPCFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 84 dILVFl~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
-|.+|.+.+-+... +. -..|.. +...=.|||.=...+|.+++.+
T Consensus 467 KvIiFv~~K~~AD~------LS-Sd~~l~-gi~~q~lHG~r~Q~DrE~al~~ 510 (629)
T KOG0336|consen 467 KVIIFVSRKVMADH------LS-SDFCLK-GISSQSLHGNREQSDREMALED 510 (629)
T ss_pred eEEEEEechhhhhh------cc-chhhhc-ccchhhccCChhhhhHHHHHHh
Confidence 68899654433110 00 122321 1222349999998888888754
No 63
>PF05729 NACHT: NACHT domain
Probab=61.37 E-value=29 Score=24.14 Aligned_cols=44 Identities=14% Similarity=0.186 Sum_probs=32.9
Q ss_pred HHHHHHHHHHh--CCCceEEEecCCCChHHHHhhhCCCCEEEecCC
Q psy14926 6 FFLIYLQVIAR--RQDLKLIVTSATMDADKFSNFFGNVPTFHIPGR 49 (140)
Q Consensus 6 lL~llk~~~~~--r~dLklVlMSATld~~~f~~yf~~~pvi~i~G~ 49 (140)
...++++++.. .++.|+++.|-+-....+.+++.....++++|-
T Consensus 105 ~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~ 150 (166)
T PF05729_consen 105 LLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPF 150 (166)
T ss_pred HHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCC
Confidence 34456666664 689999999999888888888876666666653
No 64
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=59.92 E-value=21 Score=33.28 Aligned_cols=72 Identities=13% Similarity=0.129 Sum_probs=36.9
Q ss_pred ceEEEecCCCChH---HHHhhhC--CCCEEEecCCccc-cceeec----CC----CccchHHHHHHHHHHHhcCCCCCcE
Q psy14926 20 LKLIVTSATMDAD---KFSNFFG--NVPTFHIPGRTFP-VDVFFA----KN----PVEDYVDSAVKQALQIHLIPNPDQK 85 (140)
Q Consensus 20 LklVlMSATld~~---~f~~yf~--~~pvi~i~G~~~p-V~~~y~----~~----~~~d~v~~~~~~v~~i~~~~~~GdI 85 (140)
-.+|+||||+-+. .|.+.+| ......++ ..|+ -...|. +. ...+|.+..+..+..+. ..+|.+
T Consensus 574 ~~~i~tSATL~v~~~f~~~~~lGl~~~~~~~~~-~~~~~~~~~~i~~~~p~~~~~~~~~~~~~~~~~i~~~~--~~~g~~ 650 (820)
T PRK07246 574 CKTYFVSATLQISPRVSLADLLGFEEYLFHKIE-KDKKQDQLVVVDQDMPLVTETSDEVYAEEIAKRLEELK--QLQQPI 650 (820)
T ss_pred CeEEEEecccccCCCCcHHHHcCCCccceecCC-CChHHccEEEeCCCCCCCCCCChHHHHHHHHHHHHHHH--hcCCCE
Confidence 3799999999532 2555555 11222222 1111 011121 11 12456666666666665 357999
Q ss_pred Eee-CCCcee
Q psy14926 86 YPW-PCFQKV 94 (140)
Q Consensus 86 LVF-l~~~ei 94 (140)
||+ ++.+..
T Consensus 651 LVLFtS~~~l 660 (820)
T PRK07246 651 LVLFNSKKHL 660 (820)
T ss_pred EEEECcHHHH
Confidence 998 544433
No 65
>KOG0328|consensus
Probab=59.36 E-value=52 Score=27.62 Aligned_cols=106 Identities=14% Similarity=0.151 Sum_probs=50.3
Q ss_pred CCCceEEEecCCCChHHHH--hhhCCCCE-EEec--CCccc-cceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-C
Q psy14926 17 RQDLKLIVTSATMDADKFS--NFFGNVPT-FHIP--GRTFP-VDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-P 89 (140)
Q Consensus 17 r~dLklVlMSATld~~~f~--~yf~~~pv-i~i~--G~~~p-V~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l 89 (140)
-|+..+|+.|||+..+-+. ++|-.-|+ +-++ +.+-. ++-+|....-+++--.++....+ +-.=....+| -
T Consensus 198 p~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~EewKfdtLcdLYd---~LtItQavIFcn 274 (400)
T KOG0328|consen 198 PPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWKFDTLCDLYD---TLTITQAVIFCN 274 (400)
T ss_pred CCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeechhhhhHhHHHHHhh---hhehheEEEEec
Confidence 4699999999999865543 34433343 2222 22211 44455443223322122222111 1001223556 3
Q ss_pred CCceeeccccCCchhhHHHHHH-HhhhhhhccCCCCCHHHHhhhccc
Q psy14926 90 CFQKVRFGRYSGPKLRYLGLCI-EKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 90 ~~~ei~~~~~~~~~~~~i~~~~-~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
+.+.+ . .+..-+ +....+-.+||.++.+|.+++-.+
T Consensus 275 Tk~kV-------d---wLtekm~~~nftVssmHGDm~qkERd~im~d 311 (400)
T KOG0328|consen 275 TKRKV-------D---WLTEKMREANFTVSSMHGDMEQKERDKIMND 311 (400)
T ss_pred ccchh-------h---HHHHHHHhhCceeeeccCCcchhHHHHHHHH
Confidence 33332 1 111111 222224559999999999988654
No 66
>KOG0345|consensus
Probab=58.63 E-value=32 Score=30.58 Aligned_cols=100 Identities=11% Similarity=0.109 Sum_probs=53.0
Q ss_pred EecCCCCh--HHHHhh-hCCCCEEEecCCc---cc--cceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CCCcee
Q psy14926 24 VTSATMDA--DKFSNF-FGNVPTFHIPGRT---FP--VDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PCFQKV 94 (140)
Q Consensus 24 lMSATld~--~~f~~y-f~~~pvi~i~G~~---~p--V~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~~~ei 94 (140)
|-|||.+. +.+... ..|+--+.|..+. -| +..+|..-.. ++ -....+++-.+...+-++|| ++-..+
T Consensus 193 LFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~v~~a-~e---K~~~lv~~L~~~~~kK~iVFF~TCasV 268 (567)
T KOG0345|consen 193 LFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEA-DE---KLSQLVHLLNNNKDKKCIVFFPTCASV 268 (567)
T ss_pred cccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceeeEecH-HH---HHHHHHHHHhccccccEEEEecCcchH
Confidence 46999963 444443 3344335555443 34 5566654322 22 22234444344445667888 654544
Q ss_pred eccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhcc
Q psy14926 95 RFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 95 ~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
..+..+-.......+++++||.+...+..++|.
T Consensus 269 -------eYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~ 301 (567)
T KOG0345|consen 269 -------EYFGKLFSRLLKKREIFSIHGKMSQKARAKVLE 301 (567)
T ss_pred -------HHHHHHHHHHhCCCcEEEecchhcchhHHHHHH
Confidence 122222222233455788999999987777664
No 67
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=56.85 E-value=15 Score=35.37 Aligned_cols=28 Identities=14% Similarity=0.186 Sum_probs=21.2
Q ss_pred HHHHHHHHHH--hCCCceEEEecCCCChHH
Q psy14926 6 FFLIYLQVIA--RRQDLKLIVTSATMDADK 33 (140)
Q Consensus 6 lL~llk~~~~--~r~dLklVlMSATld~~~ 33 (140)
.+++|..++. ..-+-+|++||||+-...
T Consensus 609 ~~~~L~rlL~w~~~lG~~VlLmSATLP~~l 638 (1110)
T TIGR02562 609 DLPALLRLVQLAGLLGSRVLLSSATLPPAL 638 (1110)
T ss_pred HHHHHHHHHHHHHHcCCCEEEEeCCCCHHH
Confidence 4566666666 567889999999998655
No 68
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=56.28 E-value=30 Score=22.33 Aligned_cols=32 Identities=16% Similarity=0.249 Sum_probs=24.7
Q ss_pred HHHHHHHHHhCCCceEEEecCCCChHHHHhhh
Q psy14926 7 FLIYLQVIARRQDLKLIVTSATMDADKFSNFF 38 (140)
Q Consensus 7 L~llk~~~~~r~dLklVlMSATld~~~f~~yf 38 (140)
+.+++++....++.++|+||++-+.....+.+
T Consensus 59 ~~~~~~i~~~~~~~~ii~~t~~~~~~~~~~~~ 90 (112)
T PF00072_consen 59 LELLEQIRQINPSIPIIVVTDEDDSDEVQEAL 90 (112)
T ss_dssp HHHHHHHHHHTTTSEEEEEESSTSHHHHHHHH
T ss_pred cccccccccccccccEEEecCCCCHHHHHHHH
Confidence 45667776666899999999888877777766
No 69
>KOG0330|consensus
Probab=56.24 E-value=76 Score=27.65 Aligned_cols=106 Identities=13% Similarity=0.092 Sum_probs=50.2
Q ss_pred hCCCceEEEecCCCC--hHHHHhhhCCCC-EEEecCCcc---ccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 16 RRQDLKLIVTSATMD--ADKFSNFFGNVP-TFHIPGRTF---PVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 16 ~r~dLklVlMSATld--~~~f~~yf~~~p-vi~i~G~~~---pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
..++=+.++.|||+- +.+++.---+.| -+.++.+-- .++-.|+--+..+. ++.+.-++. ....+.++||-
T Consensus 232 ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k~K-~~yLV~ll~---e~~g~s~iVF~ 307 (476)
T KOG0330|consen 232 IPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKDK-DTYLVYLLN---ELAGNSVIVFC 307 (476)
T ss_pred cCccceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEecccccc-chhHHHHHH---hhcCCcEEEEE
Confidence 346678999999994 455553211223 244444321 12223333222221 111111222 22248899994
Q ss_pred -CCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhcc
Q psy14926 90 -CFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 90 -~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
+-..-+. .+ -.+...+..-+||||.+|....--+|+
T Consensus 308 ~t~~tt~~---la------~~L~~lg~~a~~LhGqmsq~~Rlg~l~ 344 (476)
T KOG0330|consen 308 NTCNTTRF---LA------LLLRNLGFQAIPLHGQMSQSKRLGALN 344 (476)
T ss_pred eccchHHH---HH------HHHHhcCcceecccchhhHHHHHHHHH
Confidence 2221110 00 112222333589999999887766654
No 70
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=54.07 E-value=70 Score=30.46 Aligned_cols=67 Identities=16% Similarity=0.130 Sum_probs=43.1
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC---ccchHHHHHHHHHHHhcCCCCCcEEeeCC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP---VEDYVDSAVKQALQIHLIPNPDQKYPWPC 90 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~---~~d~v~~~~~~v~~i~~~~~~GdILVFl~ 90 (140)
|+--|+.|+.+ ..|.+.|+ -+|+.||.-.--....+.+.. ..+...++++.+.+.|.... -||||-.
T Consensus 386 kL~GMTGTa~te~~Ef~~iY~-l~Vv~IPTnkp~~R~d~~d~iy~t~~~K~~Aii~ei~~~~~~Gr--pVLV~t~ 457 (908)
T PRK13107 386 KLAGMTGTADTEAFEFQHIYG-LDTVVVPTNRPMVRKDMADLVYLTADEKYQAIIKDIKDCRERGQ--PVLVGTV 457 (908)
T ss_pred HhhcccCCChHHHHHHHHHhC-CCEEECCCCCCccceeCCCcEEeCHHHHHHHHHHHHHHHHHcCC--CEEEEeC
Confidence 78889999954 44777775 889999976322222222211 23445677888888887643 3999953
No 71
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=53.92 E-value=1e+02 Score=28.99 Aligned_cols=32 Identities=34% Similarity=0.679 Sum_probs=21.1
Q ss_pred HHHHHHHHhC----CCceEEEecCCC-ChHHHH-hhhC
Q psy14926 8 LIYLQVIARR----QDLKLIVTSATM-DADKFS-NFFG 39 (140)
Q Consensus 8 ~llk~~~~~r----~dLklVlMSATl-d~~~f~-~yf~ 39 (140)
.++|++.... .++.+|.+|||+ |...|. ++||
T Consensus 217 ~llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~ 254 (851)
T COG1205 217 LLLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFG 254 (851)
T ss_pred HHHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcC
Confidence 4566665522 479999999999 444444 5555
No 72
>PF10330 Stb3: Putative Sin3 binding protein; InterPro: IPR018818 This entry represents Sin3 binding proteins conserved in fungi. Sin3p does not bind DNA directly even though the yeast SIN3 gene functions as a transcriptional repressor. Sin3p is part of a large multiprotein complex []. Stb3 appears to bind directly to ribosomal RNA Processing Elements (RRPE) although there are no obvious domains which would accord with this, implying that Stb3 may be a novel RNA-binding protein [].
Probab=53.40 E-value=14 Score=25.24 Aligned_cols=34 Identities=9% Similarity=-0.041 Sum_probs=28.2
Q ss_pred chhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 102 PKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 102 ~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
.+.-.||.....+...+|-|+.||++.|++..-.
T Consensus 18 ~GPLaIRhI~~~Lt~~vPgF~~ls~sKqRRLi~~ 51 (92)
T PF10330_consen 18 HGPLAIRHITGYLTTSVPGFSDLSPSKQRRLIMA 51 (92)
T ss_pred cCcHHHHHHHHHHhccCCCcccCCHHHHHHHHHH
Confidence 3344588888999999999999999999997644
No 73
>PRK11475 DNA-binding transcriptional activator BglJ; Provisional
Probab=51.87 E-value=56 Score=24.98 Aligned_cols=29 Identities=3% Similarity=0.047 Sum_probs=21.5
Q ss_pred HHHHHHHHHhCCCceEEEecCCCChHHHH
Q psy14926 7 FLIYLQVIARRQDLKLIVTSATMDADKFS 35 (140)
Q Consensus 7 L~llk~~~~~r~dLklVlMSATld~~~f~ 35 (140)
+.+++++.+..|+.|+|++|+.-+...+.
T Consensus 56 l~~~~~l~~~~p~~~iIvlt~~~~~~~~~ 84 (207)
T PRK11475 56 LSCLTELAIKFPRMRRLVIADDDIEARLI 84 (207)
T ss_pred HHHHHHHHHHCCCCCEEEEeCCCCHHHHH
Confidence 45778887788999999999865444343
No 74
>KOG0947|consensus
Probab=51.80 E-value=16 Score=35.01 Aligned_cols=39 Identities=21% Similarity=0.497 Sum_probs=29.3
Q ss_pred CCceEEEecCCC-ChHHHHhhhCCC-----CEEEecCCcccccee
Q psy14926 18 QDLKLIVTSATM-DADKFSNFFGNV-----PTFHIPGRTFPVDVF 56 (140)
Q Consensus 18 ~dLklVlMSATl-d~~~f~~yf~~~-----pvi~i~G~~~pV~~~ 56 (140)
++.++|+.|||+ |+..|++|.|.. .|++-.-|.-|.+.+
T Consensus 433 ~HV~~IlLSATVPN~~EFA~WIGRtK~K~IyViST~kRPVPLEh~ 477 (1248)
T KOG0947|consen 433 RHVNFILLSATVPNTLEFADWIGRTKQKTIYVISTSKRPVPLEHY 477 (1248)
T ss_pred ccceEEEEeccCCChHHHHHHhhhccCceEEEEecCCCccceEEE
Confidence 568999999999 899999999852 345555566666554
No 75
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=51.65 E-value=27 Score=23.18 Aligned_cols=44 Identities=9% Similarity=-0.073 Sum_probs=25.4
Q ss_pred CCCcEEeeCCC-ceeeccccCCchhhHHHHHHH-hhhhhhccCCCCCHHHHhhhcc
Q psy14926 81 NPDQKYPWPCF-QKVRFGRYSGPKLRYLGLCIE-KAQKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 81 ~~GdILVFl~~-~ei~~~~~~~~~~~~i~~~~~-~~~~~lpLh~~lp~~eQ~~~f~ 134 (140)
..+.+|||-+. ... +.+..... .......+||.++..+...++.
T Consensus 27 ~~~~~lvf~~~~~~~----------~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 72 (131)
T cd00079 27 KGGKVLIFCPSKKML----------DELAELLRKPGIKVAALHGDGSQEEREEVLK 72 (131)
T ss_pred CCCcEEEEeCcHHHH----------HHHHHHHHhcCCcEEEEECCCCHHHHHHHHH
Confidence 46889999433 222 11222221 2334567999999887776653
No 76
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=51.59 E-value=67 Score=30.06 Aligned_cols=65 Identities=12% Similarity=0.176 Sum_probs=39.0
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCC----CccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKN----PVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~----~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+.-||.|+.+ +.|.+.|+ .+++.||... |+.-.-.++ ...+...+.+..+.+.|.. ..-+|||-
T Consensus 365 kl~GmTGTa~t~~~e~~~~Y~-l~v~~IPt~k-p~~r~d~~~~i~~~~~~K~~al~~~i~~~~~~--~~pvLIf~ 435 (790)
T PRK09200 365 KLSGMTGTAKTEEKEFFEVYN-MEVVQIPTNR-PIIRIDYPDKVFVTLDEKYKAVIEEVKERHET--GRPVLIGT 435 (790)
T ss_pred HHhccCCCChHHHHHHHHHhC-CcEEECCCCC-CcccccCCCeEEcCHHHHHHHHHHHHHHHHhc--CCCEEEEe
Confidence 78899999854 44777665 8899998753 432222221 1234445555555555433 45689995
No 77
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=51.05 E-value=12 Score=23.64 Aligned_cols=32 Identities=22% Similarity=0.389 Sum_probs=25.3
Q ss_pred cCCCC--hHHHHhhhCCCCEEEecCCccccceee
Q psy14926 26 SATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFF 57 (140)
Q Consensus 26 SATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y 57 (140)
+-|++ ..++.+-|++-.+++..|..+||.|+=
T Consensus 2 ~~t~~~~~~r~~e~Fp~~slvef~g~~~PvtI~C 35 (60)
T PF05265_consen 2 AMTFESAASRFEEKFPHYSLVEFSGVATPVTIRC 35 (60)
T ss_pred ceeHHHHHHHHHHHCCCceEEEEeCCCCceEEEC
Confidence 44443 356888899988999999999998874
No 78
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=50.49 E-value=87 Score=27.15 Aligned_cols=47 Identities=21% Similarity=0.282 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHHHhCCCceEEEecCCCC-hHHHHhhhCCCCEEEecCCccccceeecCC
Q psy14926 3 TADFFLIYLQVIARRQDLKLIVTSATMD-ADKFSNFFGNVPTFHIPGRTFPVDVFFAKN 60 (140)
Q Consensus 3 tDllL~llk~~~~~r~dLklVlMSATld-~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~ 60 (140)
|=.+..|++++.++.|+++++++|-|-- .+.-++.|++ .|...|+|-
T Consensus 62 v~a~~pLv~~l~~~~P~~~ilvTt~T~Tg~e~a~~~~~~-----------~v~h~YlP~ 109 (419)
T COG1519 62 VLAALPLVRALRERFPDLRILVTTMTPTGAERAAALFGD-----------SVIHQYLPL 109 (419)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEecCccHHHHHHHHcCC-----------CeEEEecCc
Confidence 3356788999988999999999998874 5666777763 267888874
No 79
>PF04413 Glycos_transf_N: 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); InterPro: IPR007507 This is a domain found in proteins that transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Proteins bearing this domain transfer UDP, ADP, GDP or CMP linked sugars. This region is flanked at the N terminus by a signal peptide and at the C terminus by a glycosyl transferase group 1 domain (IPR001296 from INTERPRO). The eukaryotic glycogen synthases may be distant members of this bacterial family [].; GO: 0005529 sugar binding, 0016740 transferase activity, 0005975 carbohydrate metabolic process; PDB: 2XCI_A 2XCU_B.
Probab=50.35 E-value=64 Score=24.28 Aligned_cols=36 Identities=14% Similarity=0.236 Sum_probs=23.0
Q ss_pred hHHHHHHHHHHHHhCCCceEEEecCCCChHH-HHhhh
Q psy14926 3 TADFFLIYLQVIARRQDLKLIVTSATMDADK-FSNFF 38 (140)
Q Consensus 3 tDllL~llk~~~~~r~dLklVlMSATld~~~-f~~yf 38 (140)
+..+..|++.+...+|++++++.+.|.-... ..+.+
T Consensus 34 ~~a~~~Li~~l~~~~p~~~illT~~T~tg~~~~~~~~ 70 (186)
T PF04413_consen 34 VNAARPLIKRLRKQRPDLRILLTTTTPTGREMARKLL 70 (186)
T ss_dssp HHHHHHHHHHHTT---TS-EEEEES-CCHHHHHHGG-
T ss_pred HHHHHHHHHHHHHhCCCCeEEEEecCCchHHHHHHhC
Confidence 5667888899888999999999888876554 44554
No 80
>KOG0334|consensus
Probab=47.26 E-value=60 Score=31.12 Aligned_cols=104 Identities=13% Similarity=0.041 Sum_probs=56.7
Q ss_pred hCCCceEEEecCCCChHH--HHhhhCCCCE-EEecCCc---cccceeecCCC-ccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 16 RRQDLKLIVTSATMDADK--FSNFFGNVPT-FHIPGRT---FPVDVFFAKNP-VEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 16 ~r~dLklVlMSATld~~~--f~~yf~~~pv-i~i~G~~---~pV~~~y~~~~-~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
.|||-..|+.|||..... ++.---.-|+ +-+.|+. -.|+-...-.+ ....+....+.+ +...+.|+++||
T Consensus 543 lrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~q~v~V~~~e~eKf~kL~eLl---~e~~e~~~tiiF 619 (997)
T KOG0334|consen 543 LRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCAIENEKFLKLLELL---GERYEDGKTIIF 619 (997)
T ss_pred cchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccceEEEEEecCchHHHHHHHHHH---HHHhhcCCEEEE
Confidence 589999999999987552 2221112444 4445543 11111111111 222333333222 223348999999
Q ss_pred CCCceeeccccCCchhhHHHHHHHhhhh-hhc---cCCCCCHHHHhhhcc
Q psy14926 89 PCFQKVRFGRYSGPKLRYLGLCIEKAQK-ELA---LFTTLPLATGRSNFA 134 (140)
Q Consensus 89 l~~~ei~~~~~~~~~~~~i~~~~~~~~~-~lp---Lh~~lp~~eQ~~~f~ 134 (140)
.+.||. .-.|...|++ .++ |||..|..+-.....
T Consensus 620 v~~qe~------------~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~ 657 (997)
T KOG0334|consen 620 VDKQEK------------ADALLRDLQKAGYNCDSLHGGVDQHDRSSTIE 657 (997)
T ss_pred EcCchH------------HHHHHHHHHhcCcchhhhcCCCchHHHHhHHH
Confidence 987775 3455555544 233 999999987766543
No 81
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=47.00 E-value=66 Score=22.42 Aligned_cols=23 Identities=22% Similarity=0.420 Sum_probs=16.8
Q ss_pred CCCceEEEecCCC--ChHHHHhhhC
Q psy14926 17 RQDLKLIVTSATM--DADKFSNFFG 39 (140)
Q Consensus 17 r~dLklVlMSATl--d~~~f~~yf~ 39 (140)
.+.-++++||||. +.+.+...+.
T Consensus 158 ~~~~~~v~~saT~~~~~~~~~~~~~ 182 (201)
T smart00487 158 PKNVQLLLLSATPPEEIENLLELFL 182 (201)
T ss_pred CccceEEEEecCCchhHHHHHHHhc
Confidence 4688999999999 4555555444
No 82
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=45.83 E-value=1.1e+02 Score=28.72 Aligned_cols=65 Identities=17% Similarity=0.208 Sum_probs=41.0
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC----ccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP----VEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~----~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+--||.|+.. +.|.+.|+ -+++.||... |+.-.-.++. ..+...+.++.+...|.. .--||||-
T Consensus 377 kl~GmTGTa~~e~~Ef~~iY~-l~vv~IPtnk-p~~r~d~~d~i~~t~~~K~~al~~~i~~~~~~--g~pvLI~t 447 (796)
T PRK12906 377 KLSGMTGTAKTEEEEFREIYN-MEVITIPTNR-PVIRKDSPDLLYPTLDSKFNAVVKEIKERHAK--GQPVLVGT 447 (796)
T ss_pred hhhccCCCCHHHHHHHHHHhC-CCEEEcCCCC-CeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhC--CCCEEEEe
Confidence 78899999954 45878776 8899999853 4332222221 233445566666666643 45699995
No 83
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=45.80 E-value=31 Score=32.54 Aligned_cols=72 Identities=21% Similarity=0.394 Sum_probs=38.6
Q ss_pred ceEEEecCCCChHH-H---HhhhCC----CCEEEecCCccccc---eeecCC--C------ccchHHHHHHHHHHHhcCC
Q psy14926 20 LKLIVTSATMDADK-F---SNFFGN----VPTFHIPGRTFPVD---VFFAKN--P------VEDYVDSAVKQALQIHLIP 80 (140)
Q Consensus 20 LklVlMSATld~~~-f---~~yf~~----~pvi~i~G~~~pV~---~~y~~~--~------~~d~v~~~~~~v~~i~~~~ 80 (140)
-++|+||||+.... | .+-+|- +..+.++.. |+.+ ..|.+. + ..+|.......+.++.. .
T Consensus 673 ~~~iltSATL~~~~~f~~~~~~lGl~~~~~~~~~~~Sp-F~~~~q~~l~vp~d~p~~~~~~~~~~~~~la~~i~~l~~-~ 750 (928)
T PRK08074 673 KSVILTSATLTVNGSFDYIIERLGLEDFYPRTLQIPSP-FSYEEQAKLMIPTDMPPIKDVPIEEYIEEVAAYIAKIAK-A 750 (928)
T ss_pred CcEEEEeeecccCCCcHHHHHhcCCCCCCccEEEeCCC-CCHHHhcEEEeecCCCCCCCCChHHHHHHHHHHHHHHHH-h
Confidence 46899999997643 2 233341 112333332 4432 123321 1 24566666666666643 3
Q ss_pred CCCcEEee-CCCce
Q psy14926 81 NPDQKYPW-PCFQK 93 (140)
Q Consensus 81 ~~GdILVF-l~~~e 93 (140)
.+|.+||| ++.+.
T Consensus 751 ~~g~~LVLFtSy~~ 764 (928)
T PRK08074 751 TKGRMLVLFTSYEM 764 (928)
T ss_pred CCCCEEEEECCHHH
Confidence 47889998 54443
No 84
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=44.68 E-value=45 Score=31.39 Aligned_cols=65 Identities=18% Similarity=0.212 Sum_probs=41.5
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccceeecCCC----ccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFFAKNP----VEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~----~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+.-|+.|+. .+.|.+.|+ -+++.||.-. |+.-.-.++. ..+...+.+..+.+.|.. ..-||||-
T Consensus 367 kl~GmTGTa~te~~E~~~iY~-l~vv~IPtnk-p~~r~d~~d~i~~t~~~K~~aI~~~I~~~~~~--grpVLIft 437 (830)
T PRK12904 367 KLAGMTGTADTEAEEFREIYN-LDVVVIPTNR-PMIRIDHPDLIYKTEKEKFDAVVEDIKERHKK--GQPVLVGT 437 (830)
T ss_pred hhcccCCCcHHHHHHHHHHhC-CCEEEcCCCC-CeeeeeCCCeEEECHHHHHHHHHHHHHHHHhc--CCCEEEEe
Confidence 7889999995 455777775 8899999854 4333222221 234455666666666654 34599995
No 85
>KOG0340|consensus
Probab=44.10 E-value=89 Score=26.97 Aligned_cols=47 Identities=6% Similarity=0.120 Sum_probs=27.1
Q ss_pred cCCCCCcEEeeCC-CceeeccccCCchhhHHHHHHHhh-hhhhccCCCCCHHHHhhhcc
Q psy14926 78 LIPNPDQKYPWPC-FQKVRFGRYSGPKLRYLGLCIEKA-QKELALFTTLPLATGRSNFA 134 (140)
Q Consensus 78 ~~~~~GdILVFl~-~~ei~~~~~~~~~~~~i~~~~~~~-~~~lpLh~~lp~~eQ~~~f~ 134 (140)
..++.|+|.+|.. -.| ...+......+ ..+..|||.+|..|.-+++.
T Consensus 250 ~~~~~~simIFvnttr~----------cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLs 298 (442)
T KOG0340|consen 250 ENKENGSIMIFVNTTRE----------CQLLSMTLKNLEVRVVSLHSQMPQKERLAALS 298 (442)
T ss_pred hhccCceEEEEeehhHH----------HHHHHHHHhhhceeeeehhhcchHHHHHHHHH
Confidence 3447899999952 111 11122222222 23566999999988776653
No 86
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=42.74 E-value=59 Score=30.32 Aligned_cols=66 Identities=14% Similarity=0.144 Sum_probs=43.6
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccceeecCC---CccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFFAKN---PVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~---~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+--|+.|+. .+.|.+.|+ -+++.||.-.--....+.+. ...+...+.+..+.+.|.+..| |||.-
T Consensus 364 kLsGMTGTa~t~~~Ef~~iY~-l~Vv~IPtnkp~~R~d~~d~iy~t~~~k~~Aii~ei~~~~~~GrP--VLVgt 434 (764)
T PRK12326 364 TVCGMTGTAVAAGEQLRQFYD-LGVSVIPPNKPNIREDEADRVYATAAEKNDAIVEHIAEVHETGQP--VLVGT 434 (764)
T ss_pred hheeecCCChhHHHHHHHHhC-CcEEECCCCCCceeecCCCceEeCHHHHHHHHHHHHHHHHHcCCC--EEEEe
Confidence 7889999994 567888886 78999987632222222221 1245566788888888876433 88873
No 87
>PRK10840 transcriptional regulator RcsB; Provisional
Probab=39.24 E-value=1.1e+02 Score=22.49 Aligned_cols=32 Identities=13% Similarity=0.151 Sum_probs=20.9
Q ss_pred HHHHHHHHHhCCCceEEEecCCCChHHHHhhh
Q psy14926 7 FLIYLQVIARRQDLKLIVTSATMDADKFSNFF 38 (140)
Q Consensus 7 L~llk~~~~~r~dLklVlMSATld~~~f~~yf 38 (140)
+.+++++....|+.++|++|+.-+.......+
T Consensus 68 ~~~~~~l~~~~~~~~iIvls~~~~~~~~~~a~ 99 (216)
T PRK10840 68 ITLIKYIKRHFPSLSIIVLTMNNNPAILSAVL 99 (216)
T ss_pred HHHHHHHHHHCCCCcEEEEEecCCHHHHHHHH
Confidence 45566665556778888888777666555544
No 88
>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=39.24 E-value=3e+02 Score=25.12 Aligned_cols=13 Identities=31% Similarity=0.271 Sum_probs=11.0
Q ss_pred eEEEecCCCChHH
Q psy14926 21 KLIVTSATMDADK 33 (140)
Q Consensus 21 klVlMSATld~~~ 33 (140)
.+|++|||+-+..
T Consensus 373 ~~I~TSATL~v~~ 385 (636)
T TIGR03117 373 GAIIVSATLYLPD 385 (636)
T ss_pred eEEEEccccccCC
Confidence 7999999997744
No 89
>KOG0950|consensus
Probab=36.17 E-value=55 Score=31.33 Aligned_cols=24 Identities=17% Similarity=0.347 Sum_probs=19.0
Q ss_pred hCCCceEEEecCCC-ChHHHHhhhC
Q psy14926 16 RRQDLKLIVTSATM-DADKFSNFFG 39 (140)
Q Consensus 16 ~r~dLklVlMSATl-d~~~f~~yf~ 39 (140)
+...+++|-||||+ |.+.++++++
T Consensus 374 ~~~~~~iIGMSATi~N~~lL~~~L~ 398 (1008)
T KOG0950|consen 374 LETSVQIIGMSATIPNNSLLQDWLD 398 (1008)
T ss_pred cccceeEeeeecccCChHHHHHHhh
Confidence 44558899999999 6777777775
No 90
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=35.61 E-value=48 Score=26.72 Aligned_cols=48 Identities=23% Similarity=0.395 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHhCCCceEEE---ecCCCChHHHH--------------------------hhhC-----CCCEEEecC
Q psy14926 3 TADFFLIYLQVIARRQDLKLIV---TSATMDADKFS--------------------------NFFG-----NVPTFHIPG 48 (140)
Q Consensus 3 tDllL~llk~~~~~r~dLklVl---MSATld~~~f~--------------------------~yf~-----~~pvi~i~G 48 (140)
+|++=-+.+.+..+++|.=+++ |+++.-...|. +||. +||++.|||
T Consensus 18 ~e~l~~l~~~~~e~~~D~~v~~G~~~~~~a~~~e~~~a~~~~r~p~k~~i~~e~~~~~e~~~~ff~~L~~~~~p~~~vPG 97 (255)
T PF14582_consen 18 FELLERLVEVIPEKGPDAVVFVGDLLKAEARSDEYERAQEEQREPDKSEINEEECYDSEALDKFFRILGELGVPVFVVPG 97 (255)
T ss_dssp HHHHHHHHHHHHHHT-SEEEEES-SS-TCHHHHHHHHHHHTT----THHHHHHHHHHHHHHHHHHHHHHCC-SEEEEE--
T ss_pred HHHHHHHHhhccccCCCEEEEeccccccchhhhHHHHHhhhccCcchhhhhhhhhhhHHHHHHHHHHHHhcCCcEEEecC
Confidence 5666666666666899988876 88888777777 7773 599999999
Q ss_pred Cc
Q psy14926 49 RT 50 (140)
Q Consensus 49 ~~ 50 (140)
..
T Consensus 98 ~~ 99 (255)
T PF14582_consen 98 NM 99 (255)
T ss_dssp TT
T ss_pred CC
Confidence 85
No 91
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=35.51 E-value=78 Score=30.01 Aligned_cols=64 Identities=16% Similarity=0.127 Sum_probs=41.5
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC----ccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP----VEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~----~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
|+.-|+.|+.. +.|.+.|+ .+++.||...--....+ ++. ..+...+++..+.+.|.+..| |||-
T Consensus 361 kL~GMTGTa~te~~Ef~~iY~-l~vv~IPtnkp~~R~d~-~d~v~~t~~~K~~AI~~ei~~~~~~grP--VLIg 430 (870)
T CHL00122 361 KLSGMTGTAKTEELEFEKIYN-LEVVCIPTHRPMLRKDL-PDLIYKDELSKWRAIADECLQMHQTGRP--ILIG 430 (870)
T ss_pred hhcccCCCCHHHHHHHHHHhC-CCEEECCCCCCccceeC-CCeEEeCHHHHHHHHHHHHHHHHhcCCC--EEEe
Confidence 78999999964 45778776 88999997642222222 211 234456777888888776543 7775
No 92
>PRK00766 hypothetical protein; Provisional
Probab=34.42 E-value=93 Score=24.02 Aligned_cols=43 Identities=14% Similarity=0.250 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHhCCCceEEEecCCC-------ChHHHHhhhCCCCEEEec
Q psy14926 3 TADFFLIYLQVIARRQDLKLIVTSATM-------DADKFSNFFGNVPTFHIP 47 (140)
Q Consensus 3 tDllL~llk~~~~~r~dLklVlMSATl-------d~~~f~~yf~~~pvi~i~ 47 (140)
||-+..+++.. ..|+++++|+++... |.+.+.+-.| .|++.+-
T Consensus 56 T~~i~~mv~~~-~~r~~i~~V~L~Git~agFNvvD~~~l~~~tg-~PVI~V~ 105 (194)
T PRK00766 56 TEAIIEMVNSS-RHKGQLRVIMLDGITYGGFNVVDIEELYRETG-LPVIVVM 105 (194)
T ss_pred HHHHHHHHHhc-ccccceEEEEECCEeeeeeEEecHHHHHHHHC-CCEEEEE
Confidence 67777777652 357899999999864 5666666655 7777663
No 93
>PRK09401 reverse gyrase; Reviewed
Probab=32.81 E-value=1.2e+02 Score=29.80 Aligned_cols=14 Identities=36% Similarity=0.233 Sum_probs=11.0
Q ss_pred CceEEEecCCCChH
Q psy14926 19 DLKLIVTSATMDAD 32 (140)
Q Consensus 19 dLklVlMSATld~~ 32 (140)
+-.+++.|||+...
T Consensus 268 ~~q~ilfSAT~~~~ 281 (1176)
T PRK09401 268 KGVLVVSSATGRPR 281 (1176)
T ss_pred CceEEEEeCCCCcc
Confidence 45689999999753
No 94
>KOG0005|consensus
Probab=32.15 E-value=63 Score=20.61 Aligned_cols=41 Identities=10% Similarity=0.000 Sum_probs=23.4
Q ss_pred eCCCceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhccc
Q psy14926 88 WPCFQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNFAD 135 (140)
Q Consensus 88 Fl~~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f~~ 135 (140)
|++++||+-......+.+.|.... .=--.+|+..|+-+|+-
T Consensus 7 tLt~KeIeidIep~DkverIKErv-------EEkeGIPp~qqrli~~g 47 (70)
T KOG0005|consen 7 TLTGKEIEIDIEPTDKVERIKERV-------EEKEGIPPQQQRLIYAG 47 (70)
T ss_pred eeccceEEEeeCcchHHHHHHHHh-------hhhcCCCchhhhhhhcc
Confidence 578887754333334444444333 23346788888888763
No 95
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=31.88 E-value=89 Score=29.79 Aligned_cols=64 Identities=20% Similarity=0.263 Sum_probs=41.8
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccc-eeecCC---CccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVD-VFFAKN---PVEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~-~~y~~~---~~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
|+--|+.|+. ++.|.+.|+ -+|+.||.-. |+. ..+.+. ...+...++++.+...|....| |||-
T Consensus 386 kLsGMTGTa~te~~Ef~~iY~-l~Vv~IPTnk-P~~R~D~~d~vy~t~~eK~~Ai~~ei~~~~~~GrP--VLVG 455 (913)
T PRK13103 386 KLSGMTGTADTEAFEFRQIYG-LDVVVIPPNK-PLARKDFNDLVYLTAEEKYAAIITDIKECMALGRP--VLVG 455 (913)
T ss_pred hhccCCCCCHHHHHHHHHHhC-CCEEECCCCC-CcccccCCCeEEcCHHHHHHHHHHHHHHHHhCCCC--EEEE
Confidence 7888999995 455888776 8899999753 322 222111 1234556778888888876543 8885
No 96
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=31.48 E-value=1e+02 Score=29.41 Aligned_cols=64 Identities=14% Similarity=0.124 Sum_probs=41.3
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccc-eeecCCC---ccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVD-VFFAKNP---VEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~-~~y~~~~---~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
|+--|++|.- .+.|.+.|+ -+++.||... |+. ..+.+.. ......+.++.+.+.|.+..| |||-
T Consensus 376 kLsGMTGTa~te~~Ef~~iY~-l~Vv~IPTnk-P~~R~d~~d~vy~t~~~K~~Ai~~ei~~~~~~GrP--VLIg 445 (939)
T PRK12902 376 KLAGMTGTAKTEEVEFEKTYK-LEVTVIPTNR-PRRRQDWPDQVYKTEIAKWRAVANETAEMHKQGRP--VLVG 445 (939)
T ss_pred hhcccCCCCHHHHHHHHHHhC-CcEEEcCCCC-CeeeecCCCeEEcCHHHHHHHHHHHHHHHHhCCCC--EEEe
Confidence 7889999985 345788776 8999999763 332 2222111 234456777888888866433 7775
No 97
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=30.28 E-value=2.2e+02 Score=21.23 Aligned_cols=31 Identities=13% Similarity=0.178 Sum_probs=20.7
Q ss_pred HHHHHHHHhCCCceEEEecCCCChHHHHhhh
Q psy14926 8 LIYLQVIARRQDLKLIVTSATMDADKFSNFF 38 (140)
Q Consensus 8 ~llk~~~~~r~dLklVlMSATld~~~f~~yf 38 (140)
.+++.+....++.++|++|+.-+.+...+.+
T Consensus 67 e~~~~l~~~~~~~~iivls~~~~~~~~~~al 97 (225)
T PRK10046 67 NLLHELVQAHYPGDVVFTTAASDMETVSEAV 97 (225)
T ss_pred HHHHHHHhcCCCCCEEEEEcCCCHHHHHHHH
Confidence 4555555555677888888877766666655
No 98
>COG1209 RfbA dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]
Probab=30.21 E-value=1.8e+02 Score=23.93 Aligned_cols=45 Identities=29% Similarity=0.494 Sum_probs=36.1
Q ss_pred EEEecCCCChHHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHH
Q psy14926 22 LIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQA 73 (140)
Q Consensus 22 lVlMSATld~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v 73 (140)
+++.|..-+...|.+++| +|..|-+++.|.-++..+-+..|+..+
T Consensus 49 I~II~~~~~~~~~~~llG-------dgs~~gv~itY~~Q~~p~GlA~Av~~a 93 (286)
T COG1209 49 ILIVVGPEDKPTFKELLG-------DGSDFGVDITYAVQPEPDGLAHAVLIA 93 (286)
T ss_pred EEEEecCCchhhhhhhhc-------CccccCcceEEEecCCCCcHHHHHHHH
Confidence 666777778899999998 688899999998887777777766543
No 99
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=29.89 E-value=68 Score=28.13 Aligned_cols=32 Identities=22% Similarity=0.301 Sum_probs=26.7
Q ss_pred HHHHHHHHHhCCCceEEEecCCCChHHHHhhh
Q psy14926 7 FLIYLQVIARRQDLKLIVTSATMDADKFSNFF 38 (140)
Q Consensus 7 L~llk~~~~~r~dLklVlMSATld~~~f~~yf 38 (140)
+.+++++.+..|++.||+|||..+.+.-.+-.
T Consensus 64 l~ll~~i~~~~~~~pVI~~Tg~g~i~~AV~A~ 95 (464)
T COG2204 64 LELLKEIKSRDPDLPVIVMTGHGDIDTAVEAL 95 (464)
T ss_pred HHHHHHHHhhCCCCCEEEEeCCCCHHHHHHHH
Confidence 67888888888999999999999977755543
No 100
>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=29.26 E-value=60 Score=23.76 Aligned_cols=15 Identities=33% Similarity=0.317 Sum_probs=12.5
Q ss_pred hCCCceEEEecCCCC
Q psy14926 16 RRQDLKLIVTSATMD 30 (140)
Q Consensus 16 ~r~dLklVlMSATld 30 (140)
..++.++++||||+.
T Consensus 171 l~~~~~~~~~SAT~~ 185 (203)
T cd00268 171 LPKDRQTLLFSATMP 185 (203)
T ss_pred CCcccEEEEEeccCC
Confidence 345789999999997
No 101
>PRK06928 pyrroline-5-carboxylate reductase; Reviewed
Probab=28.41 E-value=2.1e+02 Score=22.60 Aligned_cols=40 Identities=8% Similarity=0.094 Sum_probs=28.7
Q ss_pred HHHHHHHHHH-hCCCceEEEecCCCChHHHHhhhCCCCEEE
Q psy14926 6 FFLIYLQVIA-RRQDLKLIVTSATMDADKFSNFFGNVPTFH 45 (140)
Q Consensus 6 lL~llk~~~~-~r~dLklVlMSATld~~~f~~yf~~~pvi~ 45 (140)
+..+++++.. .+++-.+|-+.|-+..+.+++++++++++.
T Consensus 77 ~~~vl~~l~~~l~~~~~ivS~~aGi~~~~l~~~~~~~~vvR 117 (277)
T PRK06928 77 VLPLLKDCAPVLTPDRHVVSIAAGVSLDDLLEITPGLQVSR 117 (277)
T ss_pred HHHHHHHHHhhcCCCCEEEEECCCCCHHHHHHHcCCCCEEE
Confidence 4445555544 345656777999999999999998767764
No 102
>KOG0948|consensus
Probab=28.15 E-value=66 Score=30.45 Aligned_cols=39 Identities=18% Similarity=0.387 Sum_probs=32.0
Q ss_pred CCceEEEecCCC-ChHHHHhhhC-----CCCEEEecCCcccccee
Q psy14926 18 QDLKLIVTSATM-DADKFSNFFG-----NVPTFHIPGRTFPVDVF 56 (140)
Q Consensus 18 ~dLklVlMSATl-d~~~f~~yf~-----~~pvi~i~G~~~pV~~~ 56 (140)
+..|.|..|||+ |+-.|++|.. -|-|+.-+=|.-|.+.+
T Consensus 265 ~~vr~VFLSATiPNA~qFAeWI~~ihkQPcHVVYTdyRPTPLQHy 309 (1041)
T KOG0948|consen 265 DNVRFVFLSATIPNARQFAEWICHIHKQPCHVVYTDYRPTPLQHY 309 (1041)
T ss_pred ccceEEEEeccCCCHHHHHHHHHHHhcCCceEEeecCCCCcceee
Confidence 568999999999 7899999874 37788888888888766
No 103
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=27.44 E-value=1.2e+02 Score=28.92 Aligned_cols=65 Identities=15% Similarity=0.135 Sum_probs=42.0
Q ss_pred eEEEecCCCCh--HHHHhhhCCCCEEEecCCccccceeecCCC----ccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMDA--DKFSNFFGNVPTFHIPGRTFPVDVFFAKNP----VEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld~--~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~----~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+--|++|..+ +.|.+.|+ -+++.||.-. |+.-.-.++. ......+.++.+...|.+. --|||.-
T Consensus 363 kLsGMTGTA~te~~Ef~~iY~-l~Vv~IPTnk-P~~R~D~~d~iy~t~~~K~~Aii~ei~~~~~~g--qPVLVgT 433 (925)
T PRK12903 363 KLSGMTGTAKTEEQEFIDIYN-MRVNVVPTNK-PVIRKDEPDSIFGTKHAKWKAVVKEVKRVHKKG--QPILIGT 433 (925)
T ss_pred hhhccCCCCHHHHHHHHHHhC-CCEEECCCCC-CeeeeeCCCcEEEcHHHHHHHHHHHHHHHHhcC--CCEEEEe
Confidence 78889999964 45777775 8899999753 3332222211 2344567777788888653 3489873
No 104
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=27.35 E-value=1.3e+02 Score=28.90 Aligned_cols=65 Identities=14% Similarity=0.096 Sum_probs=42.3
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccceeecCCC---ccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFFAKNP---VEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~---~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
|+.-|+.|+- ...|.+.|+ -+++.||...--....+.+.. ..+...+.+..+.+.|.+.. -|||-
T Consensus 505 kl~GmTGTa~~e~~Ef~~iY~-l~v~~iPt~kp~~r~d~~d~iy~t~~~k~~ai~~ei~~~~~~gr--PvLig 574 (970)
T PRK12899 505 KLAGMTGTAITESREFKEIYN-LYVLQVPTFKPCLRIDHNDEFYMTEREKYHAIVAEIASIHRKGN--PILIG 574 (970)
T ss_pred hhcccCCCCHHHHHHHHHHhC-CCEEECCCCCCceeeeCCCcEecCHHHHHHHHHHHHHHHHhCCC--CEEEE
Confidence 8889999984 345777776 789999875321222222211 23556778888999887653 38886
No 105
>COG4071 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.10 E-value=62 Score=25.89 Aligned_cols=37 Identities=19% Similarity=0.286 Sum_probs=24.5
Q ss_pred CccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee
Q psy14926 49 RTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW 88 (140)
Q Consensus 49 ~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF 88 (140)
|.|||+..|-+. -+++++-+++.+--+ .-.+||+||.
T Consensus 2 R~~PvktrYik~-G~gf~ei~~eA~~Gi--~l~DGDflvl 38 (278)
T COG4071 2 RAYPVKTRYIKR-GEGFIEIVVEAIKGI--KLEDGDFLVL 38 (278)
T ss_pred cccceeeceecc-CCChHHHHHHHhcCc--cccCCCEEEE
Confidence 679999999775 355655544443322 2357999987
No 106
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=24.97 E-value=95 Score=23.80 Aligned_cols=44 Identities=14% Similarity=0.298 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHhCCCceEEEecCCC-------ChHHHHhhhCCCCEEEecCC
Q psy14926 3 TADFFLIYLQVIARRQDLKLIVTSATM-------DADKFSNFFGNVPTFHIPGR 49 (140)
Q Consensus 3 tDllL~llk~~~~~r~dLklVlMSATl-------d~~~f~~yf~~~pvi~i~G~ 49 (140)
||-+..+++. ..|+++++|+++.-. |.+++.+-.| .|+|.+--+
T Consensus 50 T~~i~~m~~~--~~r~~i~~v~LdGit~agFNiiD~~~l~~~tg-~PVI~V~~~ 100 (187)
T PF01949_consen 50 TEAIIEMVKR--LFRPDIRVVMLDGITFAGFNIIDIERLYEETG-LPVIVVMRK 100 (187)
T ss_dssp HHHHHHHHCC--TTTTTEEEEEESSSEETTTEE--HHHHHHHH----EEEEESS
T ss_pred HHHHHHHHHh--cccCcceEEEECCEeEEeeEEecHHHHHHHHC-CCEEEEEEe
Confidence 6777777776 679999999988753 4555555544 777765443
No 107
>PHA02450 hypothetical protein
Probab=24.93 E-value=21 Score=21.45 Aligned_cols=26 Identities=19% Similarity=0.557 Sum_probs=19.2
Q ss_pred ecCCCChHHHHhhhCCC---CEEEecCCc
Q psy14926 25 TSATMDADKFSNFFGNV---PTFHIPGRT 50 (140)
Q Consensus 25 MSATld~~~f~~yf~~~---pvi~i~G~~ 50 (140)
||..+|.+.|.+|=|+| |+-.-.|..
T Consensus 1 msg~in~egf~ryggdc~cg~iyty~g~~ 29 (53)
T PHA02450 1 MSGEINPEGFTRYGGDCTCGPIYTYGGHA 29 (53)
T ss_pred CCcccCcccceeeCCcccccceeeeCCcC
Confidence 89999999999998775 444444433
No 108
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=24.44 E-value=1.7e+02 Score=28.42 Aligned_cols=67 Identities=13% Similarity=0.125 Sum_probs=40.7
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccceeecCC----CccchHHHHHHHHHHHhcCCCCCcEEeeCCC
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVDVFFAKN----PVEDYVDSAVKQALQIHLIPNPDQKYPWPCF 91 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~~~y~~~----~~~d~v~~~~~~v~~i~~~~~~GdILVFl~~ 91 (140)
|+--|+.|.. +..|.+.|+ -+|+.||... |+.-.-.++ ...+...+.+..+...|.. ..-||||-..
T Consensus 535 kLaGMTGTA~te~~Ef~~iY~-L~Vv~IPTnr-P~~R~D~~d~vy~t~~eK~~Ali~~I~~~~~~--grpVLIft~S 607 (1025)
T PRK12900 535 KLAGMTGTAETEASEFFEIYK-LDVVVIPTNK-PIVRKDMDDLVYKTRREKYNAIVLKVEELQKK--GQPVLVGTAS 607 (1025)
T ss_pred hhcccCCCChhHHHHHHHHhC-CcEEECCCCC-CcceecCCCeEecCHHHHHHHHHHHHHHHhhC--CCCEEEEeCc
Confidence 6888999985 455777775 8889898753 322211111 1234455666666666643 4569999543
No 109
>PF14202 TnpW: Transposon-encoded protein TnpW
Probab=24.39 E-value=1.1e+02 Score=17.20 Aligned_cols=22 Identities=27% Similarity=0.388 Sum_probs=17.0
Q ss_pred EEecCCccccceeecCCCccch
Q psy14926 44 FHIPGRTFPVDVFFAKNPVEDY 65 (140)
Q Consensus 44 i~i~G~~~pV~~~y~~~~~~d~ 65 (140)
..|.|.+|-|.++|.+...+..
T Consensus 5 ~kIG~Tty~V~~~F~~~s~et~ 26 (37)
T PF14202_consen 5 KKIGKTTYVVEVHFSETSKETM 26 (37)
T ss_pred EEECCEEEEEEEEECCCccccH
Confidence 5788999999999988654333
No 110
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=23.59 E-value=1.1e+02 Score=23.04 Aligned_cols=26 Identities=19% Similarity=0.121 Sum_probs=19.7
Q ss_pred HHHHHHHHHhCCCceEEEecCCCChH
Q psy14926 7 FLIYLQVIARRQDLKLIVTSATMDAD 32 (140)
Q Consensus 7 L~llk~~~~~r~dLklVlMSATld~~ 32 (140)
+.+++++.+..|+.|+|++|+.-+..
T Consensus 65 ~~~i~~i~~~~p~~~iivlt~~~~~~ 90 (207)
T PRK15411 65 SQRIKQIINQHPNTLFIVFMAIANIH 90 (207)
T ss_pred HHHHHHHHHHCCCCeEEEEECCCchh
Confidence 46777777778889999988876543
No 111
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=23.00 E-value=1.2e+02 Score=24.37 Aligned_cols=28 Identities=7% Similarity=0.191 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHHHhCCCceEEEecCCC
Q psy14926 2 FTADFFLIYLQVIARRQDLKLIVTSATM 29 (140)
Q Consensus 2 ~tDllL~llk~~~~~r~dLklVlMSATl 29 (140)
+.+-+|.+++++....++.++|+|+.--
T Consensus 70 ~~~~~~~~~~~ir~~~~~~pivlm~Y~N 97 (259)
T PF00290_consen 70 TLEKIFELVKEIRKKEPDIPIVLMTYYN 97 (259)
T ss_dssp -HHHHHHHHHHHHHHCTSSEEEEEE-HH
T ss_pred CHHHHHHHHHHHhccCCCCCEEEEeecc
Confidence 4567788899987788999999999853
No 112
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=22.87 E-value=2.3e+02 Score=19.25 Aligned_cols=11 Identities=18% Similarity=0.021 Sum_probs=7.5
Q ss_pred CCCcEEeeCCC
Q psy14926 81 NPDQKYPWPCF 91 (140)
Q Consensus 81 ~~GdILVFl~~ 91 (140)
.+||.+|...|
T Consensus 91 ~~gd~vVv~~g 101 (117)
T PF02887_consen 91 KPGDKVVVVAG 101 (117)
T ss_dssp -TTSEEEEEEE
T ss_pred CCCCEEEEEeC
Confidence 57998887544
No 113
>PF08386 Abhydrolase_4: TAP-like protein; InterPro: IPR013595 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a C-terminal domain associated with putative hydrolases and bacterial peptidases that belong to MEROPS peptidase family S33 (clan SC). They are related to a tripeptidyl aminopeptidase from Streptomyces lividans (Q54410 from SWISSPROT). A member of this family (Q6E3K7 from SWISSPROT) is thought to be involved in the C-terminal processing of propionicin F, a bacteriocidin characterised from Propionibacterium freudenreichii []. ; GO: 0008233 peptidase activity
Probab=22.51 E-value=1.6e+02 Score=19.71 Aligned_cols=36 Identities=17% Similarity=0.148 Sum_probs=30.2
Q ss_pred CceEEEecCCCC-------hHHHHhhhCCCCEEEecCCccccc
Q psy14926 19 DLKLIVTSATMD-------ADKFSNFFGNVPTFHIPGRTFPVD 54 (140)
Q Consensus 19 dLklVlMSATld-------~~~f~~yf~~~pvi~i~G~~~pV~ 54 (140)
...+++.+++.| +.+..+.|+++.++.++|..|-+-
T Consensus 34 ~~piL~l~~~~Dp~TP~~~a~~~~~~l~~s~lvt~~g~gHg~~ 76 (103)
T PF08386_consen 34 APPILVLGGTHDPVTPYEGARAMAARLPGSRLVTVDGAGHGVY 76 (103)
T ss_pred CCCEEEEecCcCCCCcHHHHHHHHHHCCCceEEEEeccCccee
Confidence 478999999998 567888999999999999877653
No 114
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=22.30 E-value=1.9e+02 Score=28.32 Aligned_cols=65 Identities=14% Similarity=0.192 Sum_probs=42.3
Q ss_pred eEEEecCCCC--hHHHHhhhCCCCEEEecCCccccc-eeecCC---CccchHHHHHHHHHHHhcCCCCCcEEeeC
Q psy14926 21 KLIVTSATMD--ADKFSNFFGNVPTFHIPGRTFPVD-VFFAKN---PVEDYVDSAVKQALQIHLIPNPDQKYPWP 89 (140)
Q Consensus 21 klVlMSATld--~~~f~~yf~~~pvi~i~G~~~pV~-~~y~~~---~~~d~v~~~~~~v~~i~~~~~~GdILVFl 89 (140)
|+--|+.|.. +..|.+.|+ -+|+.||.-. |+. ..+.+. ...+...+++..+.+.|....| |||=-
T Consensus 565 kLsGMTGTA~tea~Ef~~IY~-L~Vv~IPTnr-P~~R~D~~D~vy~t~~eK~~Aii~ei~~~~~~GrP--VLVGT 635 (1112)
T PRK12901 565 KLAGMTGTAETEAGEFWDIYK-LDVVVIPTNR-PIARKDKEDLVYKTKREKYNAVIEEITELSEAGRP--VLVGT 635 (1112)
T ss_pred hhcccCCCCHHHHHHHHHHhC-CCEEECCCCC-CcceecCCCeEecCHHHHHHHHHHHHHHHHHCCCC--EEEEe
Confidence 7888999995 455777775 8899999763 332 222111 1234457788889998876543 88863
No 115
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=22.16 E-value=3.5e+02 Score=20.33 Aligned_cols=31 Identities=16% Similarity=0.117 Sum_probs=19.4
Q ss_pred HHHHHHHHhCCCceEEEecCCCChHHHHhhh
Q psy14926 8 LIYLQVIARRQDLKLIVTSATMDADKFSNFF 38 (140)
Q Consensus 8 ~llk~~~~~r~dLklVlMSATld~~~f~~yf 38 (140)
.+++.+....++.++|++|+..+.+...+.+
T Consensus 66 eli~~l~~~~~~~~vI~ls~~~~~~~~~~al 96 (239)
T PRK10430 66 DLLPVLHEAGCKSDVIVISSAADAATIKDSL 96 (239)
T ss_pred HHHHHHHhhCCCCCEEEEECCCcHHHHHHHH
Confidence 4455555555677777777777666555544
No 116
>PHA02556 15 tail sheath stabilizer and completion protein; Provisional
Probab=20.69 E-value=63 Score=26.37 Aligned_cols=35 Identities=20% Similarity=0.481 Sum_probs=22.5
Q ss_pred CCceEEEecCCCChHHHHhhhCCCC-----EEEecCCccc
Q psy14926 18 QDLKLIVTSATMDADKFSNFFGNVP-----TFHIPGRTFP 52 (140)
Q Consensus 18 ~dLklVlMSATld~~~f~~yf~~~p-----vi~i~G~~~p 52 (140)
.|.+++|+|++.|.+.--++..... .+++.|..||
T Consensus 161 RDI~I~L~si~~dd~~eGd~~~rR~I~wtl~Ft~kg~lY~ 200 (273)
T PHA02556 161 RDIPIVLQSIAPDEQIEGDFLSRRRIEWTLMFEVKGWLYP 200 (273)
T ss_pred ccccEEEecccccccccCCccccceEEEEEEEEEeeEEcC
Confidence 6899999999988655444433211 2556666655
No 117
>KOG0332|consensus
Probab=20.24 E-value=3.6e+02 Score=23.61 Aligned_cols=104 Identities=12% Similarity=0.035 Sum_probs=55.6
Q ss_pred CCceEEEecCCCCh--HHHHhh-hCCCCEEEecCC---ccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CC
Q psy14926 18 QDLKLIVTSATMDA--DKFSNF-FGNVPTFHIPGR---TFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PC 90 (140)
Q Consensus 18 ~dLklVlMSATld~--~~f~~y-f~~~pvi~i~G~---~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~ 90 (140)
++..+++-|||.+- ..|..- ..++.++.+..+ .++|+-+|...+..+---.++..+... -.=|.-.+| -+
T Consensus 263 ~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~K~~~l~~lyg~---~tigqsiIFc~t 339 (477)
T KOG0332|consen 263 RNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQALVNLYGL---LTIGQSIIFCHT 339 (477)
T ss_pred CcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeeccchhhHHHHHHHHHhh---hhhhheEEEEee
Confidence 47889999999974 445543 356666665544 488888887755433322233233221 112555666 22
Q ss_pred CceeeccccCCchhhHHHHHHHhhhhhhccCCCCCHHHHhhhc
Q psy14926 91 FQKVRFGRYSGPKLRYLGLCIEKAQKELALFTTLPLATGRSNF 133 (140)
Q Consensus 91 ~~ei~~~~~~~~~~~~i~~~~~~~~~~lpLh~~lp~~eQ~~~f 133 (140)
.+-- ..+ -+...+.+..+--|||.|..++..++.
T Consensus 340 k~ta-------~~l--~~~m~~~Gh~V~~l~G~l~~~~R~~ii 373 (477)
T KOG0332|consen 340 KATA-------MWL--YEEMRAEGHQVSLLHGDLTVEQRAAII 373 (477)
T ss_pred hhhH-------HHH--HHHHHhcCceeEEeeccchhHHHHHHH
Confidence 2111 000 011223333344499999887666553
No 118
>COG3412 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.14 E-value=3e+02 Score=19.96 Aligned_cols=64 Identities=11% Similarity=0.203 Sum_probs=34.9
Q ss_pred ceEEEecCCCCh-----HHHHhhhCCCCEEEecCCccccceeecCCCccchHHHHHHHHHHH-hcCCCCCcEEee--CCC
Q psy14926 20 LKLIVTSATMDA-----DKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQI-HLIPNPDQKYPW--PCF 91 (140)
Q Consensus 20 LklVlMSATld~-----~~f~~yf~~~pvi~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i-~~~~~~GdILVF--l~~ 91 (140)
..+|+.|..-.. +...+.-+++|+..+.|.-.+ .+.....++.+. .+..+.+++||| ++.
T Consensus 3 vgiVIVSHS~~lAeGv~~li~em~~dv~i~~~gGtddg------------~iGTs~~~I~~aI~~~~~ad~~lif~DlGS 70 (129)
T COG3412 3 VGIVIVSHSKELAEGVAELIREMAGDVPITYAGGTDDG------------QIGTSFEKIMEAIEKANEADHVLVFYDLGS 70 (129)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHhCCCceEEecCCCCC------------CcCcCHHHHHHHHHhccccCceEEEEecch
Confidence 357788876652 223334456788777775322 222222222221 124557889999 777
Q ss_pred ceee
Q psy14926 92 QKVR 95 (140)
Q Consensus 92 ~ei~ 95 (140)
.+.+
T Consensus 71 A~mn 74 (129)
T COG3412 71 AKLN 74 (129)
T ss_pred hhhh
Confidence 6653
No 119
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=20.01 E-value=81 Score=20.45 Aligned_cols=46 Identities=17% Similarity=0.161 Sum_probs=25.5
Q ss_pred EecCCccccceeecCCCccchHHHHHHHHHHHhcCCCCCcEEee-CCC
Q psy14926 45 HIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW-PCF 91 (140)
Q Consensus 45 ~i~G~~~pV~~~y~~~~~~d~v~~~~~~v~~i~~~~~~GdILVF-l~~ 91 (140)
...|+.++|+..|......-++..-...-.+- ..-..||+++| +-+
T Consensus 40 ~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~-n~L~~GD~~~F~~~~ 86 (100)
T PF02362_consen 40 DPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRD-NGLKEGDVCVFELIG 86 (100)
T ss_dssp ETTTEEEEEEEEEECCTTEEEEETTHHHHHHH-CT--TT-EEEEEE-S
T ss_pred eCCCCEEEEEEEEEccCCeEEECCCHHHHHHH-cCCCCCCEEEEEEec
Confidence 34688899999876554333344334343333 23347999999 543
Done!