Query 005960
Match_columns 667
No_of_seqs 459 out of 2903
Neff 6.2
Searched_HMMs 46136
Date Thu Mar 28 16:19:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005960.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005960hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4280 Kinesin-like protein [ 100.0 1.6E-83 3.6E-88 711.9 26.1 345 24-388 3-362 (574)
2 KOG0245 Kinesin-like protein [ 100.0 5E-84 1.1E-88 729.3 22.3 356 25-400 3-386 (1221)
3 KOG0243 Kinesin-like protein [ 100.0 4.6E-82 9.9E-87 726.2 28.4 335 23-366 46-402 (1041)
4 cd01370 KISc_KIP3_like Kinesin 100.0 9.5E-78 2.1E-82 645.2 34.7 324 27-354 1-338 (338)
5 cd01373 KISc_KLP2_like Kinesin 100.0 4.4E-77 9.6E-82 639.8 34.3 314 26-354 1-337 (337)
6 PLN03188 kinesin-12 family pro 100.0 6.4E-77 1.4E-81 689.2 34.5 319 25-364 97-444 (1320)
7 cd01368 KISc_KIF23_like Kinesi 100.0 3E-76 6.6E-81 635.1 34.8 314 27-352 2-345 (345)
8 KOG0242 Kinesin-like protein [ 100.0 9.1E-77 2E-81 680.0 26.6 348 24-383 4-363 (675)
9 KOG0240 Kinesin (SMY1 subfamil 100.0 2.5E-76 5.5E-81 639.4 24.6 326 24-363 5-340 (607)
10 cd01365 KISc_KIF1A_KIF1B Kines 100.0 9.1E-75 2E-79 626.3 36.1 325 26-360 1-355 (356)
11 cd01376 KISc_KID_like Kinesin 100.0 5.6E-74 1.2E-78 611.6 35.6 314 27-352 1-319 (319)
12 cd01364 KISc_BimC_Eg5 Kinesin 100.0 6.4E-74 1.4E-78 618.8 35.3 328 26-362 2-351 (352)
13 cd01367 KISc_KIF2_like Kinesin 100.0 4E-74 8.6E-79 613.4 32.0 312 26-352 1-322 (322)
14 cd01371 KISc_KIF3 Kinesin moto 100.0 1.9E-73 4.1E-78 610.8 35.5 318 26-354 1-333 (333)
15 cd01369 KISc_KHC_KIF5 Kinesin 100.0 1.6E-72 3.5E-77 601.7 33.6 314 26-354 2-325 (325)
16 cd01372 KISc_KIF4 Kinesin moto 100.0 1.9E-72 4.1E-77 604.7 33.7 313 27-355 2-341 (341)
17 cd01374 KISc_CENP_E Kinesin mo 100.0 2.7E-72 5.9E-77 599.0 34.6 312 27-354 1-321 (321)
18 KOG0241 Kinesin-like protein [ 100.0 1.4E-73 3.1E-78 633.4 24.2 330 25-364 3-361 (1714)
19 cd01366 KISc_C_terminal Kinesi 100.0 1.1E-70 2.5E-75 588.3 36.6 318 25-356 1-328 (329)
20 cd01375 KISc_KIF9_like Kinesin 100.0 1.2E-70 2.7E-75 589.3 33.4 311 27-352 1-334 (334)
21 smart00129 KISc Kinesin motor, 100.0 4.2E-69 9.1E-74 577.2 36.6 323 27-359 1-333 (335)
22 cd00106 KISc Kinesin motor dom 100.0 6.8E-68 1.5E-72 565.9 35.9 313 27-352 1-328 (328)
23 KOG0239 Kinesin (KAR3 subfamil 100.0 3.6E-69 7.8E-74 615.5 23.8 322 24-357 312-643 (670)
24 PF00225 Kinesin: Kinesin moto 100.0 2E-68 4.4E-73 571.5 24.1 314 33-354 1-335 (335)
25 KOG0246 Kinesin-like protein [ 100.0 6.4E-66 1.4E-70 556.6 27.4 321 21-356 203-543 (676)
26 KOG0247 Kinesin-like protein [ 100.0 6.2E-64 1.3E-68 554.4 19.7 333 19-358 24-440 (809)
27 KOG0244 Kinesin-like protein [ 100.0 1.4E-61 3.1E-66 549.5 6.6 312 34-362 1-325 (913)
28 COG5059 KIP1 Kinesin-like prot 100.0 3.1E-57 6.8E-62 513.9 27.9 282 79-362 55-344 (568)
29 cd01363 Motor_domain Myosin an 100.0 9.4E-49 2E-53 387.2 18.2 177 98-335 8-186 (186)
30 COG1555 ComEA DNA uptake prote 99.6 1.2E-15 2.6E-20 146.0 6.3 63 584-646 84-148 (149)
31 PF12836 HHH_3: Helix-hairpin- 99.5 1E-14 2.2E-19 120.6 4.5 61 586-646 3-65 (65)
32 TIGR01259 comE comEA protein. 99.4 5E-13 1.1E-17 123.6 6.5 62 586-647 57-120 (120)
33 TIGR00426 competence protein C 99.3 1E-11 2.2E-16 103.7 6.4 62 586-647 5-69 (69)
34 PRK02515 psbU photosystem II c 99.1 5.9E-11 1.3E-15 109.5 5.9 59 586-648 50-113 (132)
35 COG1491 Predicted RNA-binding 98.2 5.6E-07 1.2E-11 87.4 2.8 79 573-652 101-186 (202)
36 PF04919 DUF655: Protein of un 98.2 6.9E-07 1.5E-11 87.2 2.2 67 585-652 99-172 (181)
37 PF00633 HHH: Helix-hairpin-he 97.9 9.9E-06 2.1E-10 56.9 2.4 27 590-616 4-30 (30)
38 PF14579 HHH_6: Helix-hairpin- 97.2 0.00063 1.4E-08 59.9 6.1 47 599-645 29-77 (90)
39 COG5059 KIP1 Kinesin-like prot 97.1 2.3E-06 4.9E-11 98.8 -14.1 207 79-300 352-566 (568)
40 COG2183 Tex Transcriptional ac 97.1 0.00043 9.4E-09 80.8 4.3 66 581-646 493-560 (780)
41 COG4277 Predicted DNA-binding 97.0 0.00039 8.5E-09 72.8 3.1 53 585-638 318-370 (404)
42 PF06514 PsbU: Photosystem II 96.8 0.00069 1.5E-08 59.5 2.4 56 587-645 13-69 (93)
43 PF14520 HHH_5: Helix-hairpin- 96.8 0.0017 3.8E-08 52.6 4.6 46 596-645 4-58 (60)
44 COG1031 Uncharacterized Fe-S o 96.8 0.00088 1.9E-08 73.8 3.4 46 586-634 505-551 (560)
45 PF03934 T2SK: Type II secreti 96.4 0.0013 2.9E-08 69.4 1.8 62 586-647 182-246 (280)
46 cd00141 NT_POLXc Nucleotidyltr 96.4 0.0035 7.7E-08 67.3 4.7 54 589-642 37-102 (307)
47 COG2176 PolC DNA polymerase II 95.6 0.014 2.9E-07 70.9 5.2 52 600-651 1384-1436(1444)
48 PRK00116 ruvA Holliday junctio 95.2 0.019 4.2E-07 57.5 4.2 54 596-649 72-132 (192)
49 smart00278 HhH1 Helix-hairpin- 94.6 0.027 5.8E-07 38.1 2.2 21 597-617 1-21 (26)
50 TIGR01405 polC_Gram_pos DNA po 94.5 0.048 1E-06 68.3 5.8 62 587-648 1129-1202(1213)
51 PRK12766 50S ribosomal protein 94.4 0.034 7.5E-07 56.9 3.4 51 596-646 2-57 (232)
52 PRK13901 ruvA Holliday junctio 94.1 0.056 1.2E-06 54.4 4.4 47 597-643 72-125 (196)
53 PF12826 HHH_2: Helix-hairpin- 94.1 0.041 9E-07 45.4 2.8 29 590-618 28-56 (64)
54 PRK00448 polC DNA polymerase I 94.0 0.068 1.5E-06 67.9 5.8 64 587-650 1352-1427(1437)
55 smart00483 POLXc DNA polymeras 94.0 0.052 1.1E-06 59.1 4.0 56 586-643 39-107 (334)
56 PRK07373 DNA polymerase III su 93.9 0.073 1.6E-06 60.2 5.1 45 598-642 115-164 (449)
57 PRK14605 ruvA Holliday junctio 93.6 0.08 1.7E-06 53.3 4.4 50 597-646 73-133 (194)
58 KOG2534 DNA polymerase IV (fam 93.5 0.1 2.2E-06 55.5 5.2 72 571-644 32-116 (353)
59 PF14520 HHH_5: Helix-hairpin- 92.8 0.085 1.8E-06 42.7 2.6 27 590-616 31-57 (60)
60 PF00308 Bac_DnaA: Bacterial d 92.7 0.052 1.1E-06 55.4 1.5 49 81-133 4-52 (219)
61 PF10391 DNA_pol_lambd_f: Fing 92.4 0.15 3.3E-06 40.5 3.5 36 597-636 2-39 (52)
62 TIGR00084 ruvA Holliday juncti 91.9 0.18 4E-06 50.6 4.3 46 597-642 72-124 (191)
63 COG0556 UvrB Helicase subunit 91.8 0.17 3.8E-06 57.4 4.3 87 81-173 4-101 (663)
64 PRK05672 dnaE2 error-prone DNA 91.8 0.2 4.3E-06 62.2 5.2 45 599-643 818-863 (1046)
65 PF12826 HHH_2: Helix-hairpin- 91.4 0.17 3.7E-06 41.7 2.8 45 601-645 7-55 (64)
66 PRK06893 DNA replication initi 90.6 0.14 3.1E-06 52.4 2.1 46 81-133 12-57 (229)
67 PRK14601 ruvA Holliday junctio 90.4 0.33 7.1E-06 48.5 4.3 54 592-645 103-166 (183)
68 PF11731 Cdd1: Pathogenicity l 90.3 0.22 4.8E-06 44.3 2.7 36 592-631 7-42 (93)
69 PRK08609 hypothetical protein; 90.0 0.28 6E-06 57.2 4.0 49 596-644 47-107 (570)
70 PRK14606 ruvA Holliday junctio 89.8 0.39 8.5E-06 48.2 4.3 55 591-645 102-167 (188)
71 PRK08609 hypothetical protein; 89.5 0.41 8.9E-06 55.9 4.9 48 595-645 86-143 (570)
72 PRK14602 ruvA Holliday junctio 89.5 0.42 9.2E-06 48.5 4.3 46 597-642 74-126 (203)
73 PRK14086 dnaA chromosomal repl 89.4 0.19 4E-06 58.8 1.9 51 80-134 283-333 (617)
74 PRK05673 dnaE DNA polymerase I 89.2 0.47 1E-05 59.5 5.3 57 586-642 799-870 (1135)
75 PRK06920 dnaE DNA polymerase I 89.1 0.46 1E-05 59.2 5.2 57 586-642 781-851 (1107)
76 PRK07135 dnaE DNA polymerase I 88.8 0.58 1.3E-05 57.6 5.6 58 586-643 732-804 (973)
77 PRK14603 ruvA Holliday junctio 88.7 0.46 1E-05 48.0 3.9 49 597-645 72-131 (197)
78 COG1948 MUS81 ERCC4-type nucle 88.7 0.56 1.2E-05 49.0 4.6 58 590-647 175-236 (254)
79 TIGR00594 polc DNA-directed DN 88.6 0.53 1.1E-05 58.5 5.1 58 585-642 802-874 (1022)
80 PRK00116 ruvA Holliday junctio 88.4 0.38 8.2E-06 48.3 3.1 56 591-646 102-174 (192)
81 PRK14606 ruvA Holliday junctio 88.2 0.73 1.6E-05 46.2 5.0 49 597-645 73-128 (188)
82 PRK07374 dnaE DNA polymerase I 88.2 0.64 1.4E-05 58.4 5.5 58 586-643 814-886 (1170)
83 PRK06620 hypothetical protein; 88.1 0.25 5.5E-06 50.3 1.7 48 81-133 12-62 (214)
84 PRK14604 ruvA Holliday junctio 88.0 0.53 1.2E-05 47.5 3.9 49 597-645 73-128 (195)
85 PRK13901 ruvA Holliday junctio 88.0 0.31 6.8E-06 49.1 2.2 58 589-646 99-169 (196)
86 PRK14667 uvrC excinuclease ABC 88.0 0.46 9.9E-06 55.3 3.8 53 593-645 510-565 (567)
87 PRK14601 ruvA Holliday junctio 87.7 0.33 7.2E-06 48.4 2.2 41 597-643 73-126 (183)
88 PRK06826 dnaE DNA polymerase I 87.7 0.7 1.5E-05 58.0 5.4 57 586-642 803-874 (1151)
89 PF02371 Transposase_20: Trans 87.5 0.4 8.7E-06 41.8 2.4 42 597-638 2-45 (87)
90 PRK14670 uvrC excinuclease ABC 87.5 0.49 1.1E-05 55.2 3.7 51 595-645 512-566 (574)
91 COG0632 RuvA Holliday junction 87.5 0.81 1.7E-05 46.4 4.8 59 590-648 101-183 (201)
92 PF03934 T2SK: Type II secreti 87.5 0.67 1.5E-05 48.9 4.5 63 586-648 73-179 (280)
93 PF14716 HHH_8: Helix-hairpin- 87.2 0.51 1.1E-05 39.3 2.7 29 586-616 37-66 (68)
94 COG2805 PilT Tfp pilus assembl 87.2 0.27 5.8E-06 52.6 1.3 31 103-133 113-143 (353)
95 PRK14666 uvrC excinuclease ABC 86.9 0.75 1.6E-05 54.4 4.8 53 593-645 633-689 (694)
96 PRK09087 hypothetical protein; 86.6 0.4 8.7E-06 49.3 2.1 46 81-133 17-62 (226)
97 PRK14602 ruvA Holliday junctio 86.4 0.44 9.6E-06 48.3 2.3 58 589-646 101-180 (203)
98 PRK14600 ruvA Holliday junctio 86.4 0.65 1.4E-05 46.5 3.4 45 597-642 73-124 (186)
99 PRK14604 ruvA Holliday junctio 85.9 0.48 1E-05 47.8 2.2 58 589-646 100-174 (195)
100 COG0632 RuvA Holliday junction 85.7 0.72 1.6E-05 46.7 3.4 50 597-646 73-129 (201)
101 PRK14088 dnaA chromosomal repl 85.6 0.42 9.1E-06 54.0 1.8 49 80-133 100-148 (440)
102 PRK14603 ruvA Holliday junctio 85.5 0.51 1.1E-05 47.7 2.2 58 589-646 99-177 (197)
103 PRK14669 uvrC excinuclease ABC 85.4 0.83 1.8E-05 53.8 4.2 66 594-661 549-617 (624)
104 PRK05642 DNA replication initi 84.8 0.59 1.3E-05 48.1 2.4 48 81-133 15-63 (234)
105 PRK05898 dnaE DNA polymerase I 84.7 1.3 2.8E-05 54.5 5.5 46 599-644 754-803 (971)
106 PRK14672 uvrC excinuclease ABC 84.4 0.91 2E-05 53.6 3.8 52 596-647 607-662 (691)
107 COG1796 POL4 DNA polymerase IV 84.0 1.3 2.8E-05 47.6 4.5 47 599-645 55-113 (326)
108 smart00483 POLXc DNA polymeras 83.9 1.2 2.6E-05 48.6 4.3 32 596-631 88-119 (334)
109 PRK14600 ruvA Holliday junctio 83.7 0.6 1.3E-05 46.8 1.8 55 590-645 101-169 (186)
110 TIGR00362 DnaA chromosomal rep 83.5 0.64 1.4E-05 51.7 2.1 51 79-133 104-154 (405)
111 PRK00149 dnaA chromosomal repl 83.3 0.63 1.4E-05 52.6 1.9 51 79-133 116-166 (450)
112 PRK12377 putative replication 83.1 0.59 1.3E-05 48.9 1.5 49 82-133 71-119 (248)
113 COG2804 PulE Type II secretory 82.5 0.5 1.1E-05 53.7 0.7 29 105-133 248-276 (500)
114 COG0593 DnaA ATPase involved i 82.4 0.53 1.2E-05 52.5 0.9 50 80-133 82-131 (408)
115 PRK14605 ruvA Holliday junctio 82.4 1.2 2.7E-05 44.8 3.4 57 590-646 101-173 (194)
116 PRK00558 uvrC excinuclease ABC 82.2 1.3 2.7E-05 52.2 3.9 52 594-645 540-595 (598)
117 cd00141 NT_POLXc Nucleotidyltr 81.9 1.4 2.9E-05 47.6 3.7 32 596-631 84-115 (307)
118 PRK08727 hypothetical protein; 81.9 0.67 1.4E-05 47.7 1.3 44 81-133 15-59 (233)
119 PRK10702 endonuclease III; Pro 81.5 1.1 2.3E-05 45.8 2.7 24 594-617 106-129 (211)
120 PRK07945 hypothetical protein; 81.4 1.3 2.7E-05 48.4 3.3 45 598-643 50-98 (335)
121 PRK08084 DNA replication initi 81.1 0.62 1.4E-05 48.0 0.8 46 81-133 18-63 (235)
122 PRK06526 transposase; Provisio 80.7 0.91 2E-05 47.6 1.9 17 118-134 101-117 (254)
123 PRK00254 ski2-like helicase; P 80.1 2.5 5.4E-05 50.7 5.6 49 596-648 644-701 (720)
124 PRK08116 hypothetical protein; 79.6 0.75 1.6E-05 48.5 0.8 50 81-133 81-132 (268)
125 PRK14087 dnaA chromosomal repl 79.4 0.98 2.1E-05 51.2 1.7 49 81-133 111-159 (450)
126 TIGR03252 uncharacterized HhH- 79.3 2.3 5.1E-05 42.2 4.1 36 596-631 114-162 (177)
127 PRK07952 DNA replication prote 79.1 1.1 2.5E-05 46.6 2.0 49 82-133 69-117 (244)
128 PF04851 ResIII: Type III rest 78.9 0.73 1.6E-05 44.0 0.4 31 104-134 13-44 (184)
129 cd00009 AAA The AAA+ (ATPases 78.8 1 2.2E-05 40.5 1.3 19 114-132 18-36 (151)
130 TIGR03420 DnaA_homol_Hda DnaA 78.3 1.3 2.8E-05 44.6 2.0 47 80-133 10-56 (226)
131 TIGR00084 ruvA Holliday juncti 77.4 1.7 3.7E-05 43.6 2.6 53 594-646 104-172 (191)
132 COG1474 CDC6 Cdc6-related prot 77.4 2.9 6.3E-05 46.2 4.6 26 107-132 33-59 (366)
133 PF05673 DUF815: Protein of un 77.3 2.3 4.9E-05 44.5 3.5 124 82-238 24-155 (249)
134 PRK08903 DnaA regulatory inact 77.3 1.5 3.1E-05 44.5 2.1 47 81-133 14-60 (227)
135 KOG2841 Structure-specific end 77.2 1.8 4E-05 44.6 2.7 33 590-623 220-252 (254)
136 PRK07956 ligA NAD-dependent DN 77.2 2.6 5.6E-05 50.2 4.4 31 588-618 470-500 (665)
137 COG0322 UvrC Nuclease subunit 77.0 2.6 5.7E-05 49.2 4.3 48 597-644 530-580 (581)
138 PRK07279 dnaE DNA polymerase I 77.0 2.6 5.6E-05 52.4 4.4 41 599-642 752-796 (1034)
139 PRK00076 recR recombination pr 76.6 1.9 4.2E-05 43.5 2.7 55 597-653 11-65 (196)
140 cd00046 DEXDc DEAD-like helica 76.3 1 2.3E-05 40.0 0.6 17 118-134 3-19 (144)
141 TIGR00575 dnlj DNA ligase, NAD 76.3 1.9 4.2E-05 51.1 3.0 31 589-619 458-488 (652)
142 TIGR00615 recR recombination p 76.1 2 4.4E-05 43.3 2.7 55 597-653 11-65 (195)
143 KOG1921 Endonuclease III [Repl 76.1 1.9 4.1E-05 44.7 2.5 25 593-617 155-179 (286)
144 PRK13910 DNA glycosylase MutY; 75.8 2.1 4.5E-05 45.9 2.8 23 595-617 70-92 (289)
145 TIGR00426 competence protein C 75.8 2.6 5.6E-05 34.9 2.8 22 595-616 45-66 (69)
146 PF00633 HHH: Helix-hairpin-he 75.6 2.6 5.7E-05 29.6 2.4 21 623-643 8-29 (30)
147 cd00080 HhH2_motif Helix-hairp 74.3 3 6.5E-05 35.5 2.9 27 599-630 24-50 (75)
148 PRK14668 uvrC excinuclease ABC 74.1 3.4 7.3E-05 48.4 4.2 50 595-644 523-576 (577)
149 PRK13844 recombination protein 74.1 2.5 5.3E-05 42.9 2.7 55 597-653 15-69 (200)
150 COG3156 PulK Type II secretory 73.9 3.5 7.6E-05 44.5 3.9 61 586-646 212-277 (323)
151 PF14635 HHH_7: Helix-hairpin- 73.4 3.3 7.1E-05 37.7 3.1 56 587-642 35-98 (104)
152 COG0587 DnaE DNA polymerase II 73.4 3.9 8.5E-05 51.3 4.7 61 584-644 799-874 (1139)
153 COG0177 Nth Predicted EndoIII- 73.2 2.5 5.5E-05 43.2 2.5 23 594-616 106-128 (211)
154 PF13245 AAA_19: Part of AAA d 72.9 1.5 3.2E-05 37.3 0.7 25 108-133 4-28 (76)
155 PRK13913 3-methyladenine DNA g 72.2 2.8 6.1E-05 43.0 2.7 28 594-621 118-145 (218)
156 COG0353 RecR Recombinational D 71.7 2.4 5.2E-05 42.6 2.0 55 597-653 12-66 (198)
157 PRK13482 DNA integrity scannin 71.7 6.5 0.00014 43.1 5.4 48 596-643 286-337 (352)
158 smart00279 HhH2 Helix-hairpin- 71.6 3.1 6.7E-05 30.5 2.0 17 600-616 19-35 (36)
159 smart00382 AAA ATPases associa 71.5 1.6 3.6E-05 38.5 0.7 18 116-133 3-20 (148)
160 PF01935 DUF87: Domain of unkn 71.2 1.6 3.5E-05 44.2 0.6 16 118-133 26-41 (229)
161 PRK12422 chromosomal replicati 71.0 2.5 5.4E-05 48.0 2.1 51 79-133 105-159 (445)
162 PF13401 AAA_22: AAA domain; P 70.8 1.4 3.1E-05 40.0 0.1 18 115-132 4-21 (131)
163 PRK06835 DNA replication prote 70.3 1.5 3.3E-05 47.7 0.2 31 102-133 171-201 (329)
164 PRK10436 hypothetical protein; 70.3 1.5 3.2E-05 50.0 0.2 28 106-133 209-236 (462)
165 TIGR02533 type_II_gspE general 70.2 1.7 3.6E-05 49.9 0.5 28 106-133 233-260 (486)
166 PRK07956 ligA NAD-dependent DN 70.2 2.6 5.6E-05 50.2 2.1 46 589-634 535-581 (665)
167 TIGR01084 mutY A/G-specific ad 69.7 3.3 7.1E-05 44.0 2.6 27 594-620 102-128 (275)
168 PF01637 Arch_ATPase: Archaeal 69.6 1.4 3.1E-05 43.6 -0.2 30 103-132 8-37 (234)
169 PRK08181 transposase; Validate 69.5 2.4 5.2E-05 44.9 1.5 21 112-134 105-125 (269)
170 TIGR02538 type_IV_pilB type IV 69.4 1.5 3.3E-05 51.1 0.1 28 106-133 307-334 (564)
171 PRK08939 primosomal protein Dn 69.4 2.5 5.4E-05 45.6 1.6 40 94-134 135-175 (306)
172 PRK10880 adenine DNA glycosyla 69.2 3.5 7.6E-05 45.3 2.8 29 594-622 106-134 (350)
173 PF00270 DEAD: DEAD/DEAH box h 69.1 1.8 3.9E-05 40.9 0.4 24 108-133 9-32 (169)
174 TIGR01448 recD_rel helicase, p 69.0 3.7 8.1E-05 49.4 3.1 48 596-643 116-165 (720)
175 TIGR02928 orc1/cdc6 family rep 68.9 3 6.5E-05 45.2 2.2 20 113-132 38-57 (365)
176 COG0275 Predicted S-adenosylme 68.3 3.6 7.8E-05 44.2 2.5 43 589-631 140-188 (314)
177 cd01131 PilT Pilus retraction 68.3 2.1 4.6E-05 42.8 0.8 18 116-133 2-19 (198)
178 PRK13766 Hef nuclease; Provisi 67.7 6.8 0.00015 47.3 5.0 46 599-644 717-766 (773)
179 PRK14671 uvrC excinuclease ABC 67.6 4.6 0.0001 47.7 3.5 50 595-645 567-619 (621)
180 PF12846 AAA_10: AAA-like doma 67.4 2.1 4.6E-05 44.3 0.6 19 115-133 1-19 (304)
181 PF00437 T2SE: Type II/IV secr 66.7 1.8 4E-05 45.1 -0.1 19 115-133 127-145 (270)
182 PRK12766 50S ribosomal protein 66.5 4 8.7E-05 42.2 2.3 29 588-616 27-55 (232)
183 PRK06921 hypothetical protein; 66.3 2.7 5.8E-05 44.4 1.1 32 102-133 101-135 (266)
184 TIGR01420 pilT_fam pilus retra 66.3 2.5 5.4E-05 46.2 0.9 29 105-133 112-140 (343)
185 PRK00411 cdc6 cell division co 66.2 3.9 8.5E-05 44.9 2.4 20 113-132 53-72 (394)
186 PRK09482 flap endonuclease-lik 66.1 6 0.00013 41.7 3.6 40 599-643 184-225 (256)
187 PF13191 AAA_16: AAA ATPase do 65.8 2.4 5.2E-05 40.7 0.6 30 103-132 12-41 (185)
188 TIGR01083 nth endonuclease III 65.5 5.1 0.00011 40.0 2.8 23 595-617 104-126 (191)
189 smart00053 DYNc Dynamin, GTPas 65.3 15 0.00034 38.2 6.5 54 202-269 85-138 (240)
190 COG0272 Lig NAD-dependent DNA 64.8 3.4 7.4E-05 48.6 1.6 46 589-634 535-581 (667)
191 TIGR00596 rad1 DNA repair prot 64.7 7.3 0.00016 47.5 4.5 52 591-647 751-810 (814)
192 cd01129 PulE-GspE PulE/GspE Th 64.5 2.5 5.5E-05 44.4 0.5 27 107-133 72-98 (264)
193 TIGR02525 plasmid_TraJ plasmid 64.5 2.8 6E-05 46.5 0.8 20 114-133 148-167 (372)
194 PRK14976 5'-3' exonuclease; Pr 64.2 5.7 0.00012 42.3 3.1 39 599-642 193-233 (281)
195 TIGR02236 recomb_radA DNA repa 64.2 7 0.00015 41.8 3.8 44 599-646 1-53 (310)
196 TIGR01259 comE comEA protein. 64.1 5.7 0.00012 36.9 2.7 24 593-616 94-117 (120)
197 PRK04301 radA DNA repair and r 64.0 7.9 0.00017 41.7 4.2 46 597-646 6-60 (317)
198 TIGR02524 dot_icm_DotB Dot/Icm 64.0 3 6.4E-05 46.0 0.9 24 110-133 129-152 (358)
199 KOG1857 Transcription accessor 64.0 3.6 7.7E-05 46.5 1.5 63 587-653 151-226 (623)
200 PF01695 IstB_IS21: IstB-like 64.0 3.4 7.3E-05 40.9 1.2 19 116-134 48-66 (178)
201 PRK07758 hypothetical protein; 63.9 11 0.00024 33.7 4.3 55 566-620 36-90 (95)
202 TIGR00006 S-adenosyl-methyltra 63.7 5.5 0.00012 43.0 2.9 43 589-631 136-184 (305)
203 COG5008 PilU Tfp pilus assembl 63.7 4.1 8.9E-05 43.2 1.8 31 103-133 115-145 (375)
204 PF00004 AAA: ATPase family as 63.6 3 6.4E-05 37.6 0.7 15 118-132 1-15 (132)
205 PTZ00112 origin recognition co 63.5 3.9 8.4E-05 50.0 1.8 22 112-133 778-799 (1164)
206 PF13604 AAA_30: AAA domain; P 63.3 2.4 5.2E-05 42.4 0.1 26 108-133 11-36 (196)
207 cd00008 53EXOc 5'-3' exonuclea 62.8 7.5 0.00016 40.4 3.6 39 599-642 185-225 (240)
208 TIGR00575 dnlj DNA ligase, NAD 62.7 4.4 9.6E-05 48.2 2.1 45 590-634 523-568 (652)
209 cd00056 ENDO3c endonuclease II 62.7 6.4 0.00014 37.6 2.9 25 593-617 79-103 (158)
210 PRK00050 16S rRNA m(4)C1402 me 62.3 6 0.00013 42.5 2.8 43 589-631 134-182 (296)
211 PF11798 IMS_HHH: IMS family H 62.1 6.3 0.00014 28.0 2.0 15 599-613 13-27 (32)
212 TIGR00608 radc DNA repair prot 61.6 7.4 0.00016 40.0 3.2 31 588-618 51-81 (218)
213 PRK14350 ligA NAD-dependent DN 61.2 5 0.00011 47.8 2.2 41 594-634 538-579 (669)
214 PF13479 AAA_24: AAA domain 61.2 4 8.6E-05 41.3 1.2 19 115-133 3-21 (213)
215 PRK04328 hypothetical protein; 60.7 13 0.00028 38.7 4.9 49 105-166 10-61 (249)
216 PF01795 Methyltransf_5: MraW 60.6 4.7 0.0001 43.6 1.6 43 589-631 137-185 (310)
217 PRK13894 conjugal transfer ATP 60.4 3.1 6.7E-05 45.1 0.3 28 105-133 139-166 (319)
218 smart00478 ENDO3c endonuclease 60.3 7.5 0.00016 36.8 2.9 23 595-617 70-92 (149)
219 PF00063 Myosin_head: Myosin h 60.3 19 0.00042 43.0 6.9 32 112-153 82-113 (689)
220 PF00448 SRP54: SRP54-type pro 60.1 3.4 7.4E-05 41.6 0.5 17 117-133 3-19 (196)
221 PF13086 AAA_11: AAA domain; P 60.1 3.8 8.2E-05 40.5 0.8 17 117-133 19-35 (236)
222 smart00475 53EXOc 5'-3' exonuc 59.4 7.3 0.00016 41.0 2.8 39 599-642 188-228 (259)
223 COG1948 MUS81 ERCC4-type nucle 59.3 6.1 0.00013 41.4 2.2 27 589-615 206-232 (254)
224 KOG0335 ATP-dependent RNA heli 59.2 5.2 0.00011 45.5 1.8 62 107-170 105-189 (482)
225 TIGR02782 TrbB_P P-type conjug 57.7 3.4 7.5E-05 44.3 0.1 28 105-133 123-150 (299)
226 COG1484 DnaC DNA replication p 57.5 6.6 0.00014 41.2 2.1 36 95-133 88-123 (254)
227 PRK08097 ligB NAD-dependent DN 57.4 5.7 0.00012 46.3 1.8 41 591-631 514-555 (562)
228 PRK14351 ligA NAD-dependent DN 57.1 12 0.00026 44.8 4.4 44 602-645 533-580 (689)
229 PRK12402 replication factor C 57.1 5.2 0.00011 42.7 1.3 21 113-133 34-54 (337)
230 TIGR00588 ogg 8-oxoguanine DNA 56.6 7.7 0.00017 41.9 2.5 21 596-616 219-239 (310)
231 PRK10308 3-methyl-adenine DNA 56.6 7.7 0.00017 41.4 2.5 22 595-616 205-226 (283)
232 PRK09183 transposase/IS protei 56.6 8.5 0.00018 40.4 2.7 20 112-133 101-120 (259)
233 KOG0989 Replication factor C, 56.0 5.9 0.00013 42.8 1.4 25 109-133 51-75 (346)
234 PF13207 AAA_17: AAA domain; P 55.9 5.3 0.00012 35.8 1.0 16 117-132 1-16 (121)
235 PF05970 PIF1: PIF1-like helic 55.7 6.8 0.00015 43.1 2.0 35 94-132 5-39 (364)
236 PRK01229 N-glycosylase/DNA lya 54.3 10 0.00022 38.7 2.8 23 594-616 115-138 (208)
237 PRK00024 hypothetical protein; 54.1 11 0.00025 38.7 3.2 30 589-618 58-87 (224)
238 PF13671 AAA_33: AAA domain; P 54.1 5.4 0.00012 36.8 0.7 15 117-131 1-15 (143)
239 COG1222 RPT1 ATP-dependent 26S 54.1 6.8 0.00015 43.2 1.5 75 83-158 149-245 (406)
240 PF00910 RNA_helicase: RNA hel 54.1 4.3 9.3E-05 36.4 0.1 26 118-153 1-26 (107)
241 COG0099 RpsM Ribosomal protein 53.7 14 0.0003 34.4 3.3 43 598-646 18-61 (121)
242 smart00487 DEXDc DEAD-like hel 53.6 7.1 0.00015 36.9 1.5 19 116-134 25-43 (201)
243 cd00124 MYSc Myosin motor doma 53.3 59 0.0013 39.0 9.4 22 112-133 83-104 (679)
244 PRK14351 ligA NAD-dependent DN 53.0 7.5 0.00016 46.5 1.8 45 590-634 553-598 (689)
245 cd01382 MYSc_type_VI Myosin mo 52.9 64 0.0014 39.1 9.6 22 112-133 88-109 (717)
246 cd01378 MYSc_type_I Myosin mot 52.9 56 0.0012 39.2 9.0 22 112-133 83-104 (674)
247 PF01580 FtsK_SpoIIIE: FtsK/Sp 52.4 5 0.00011 39.9 0.2 17 117-133 40-56 (205)
248 TIGR00631 uvrb excinuclease AB 52.1 9 0.0002 45.6 2.3 85 82-172 2-97 (655)
249 PRK14670 uvrC excinuclease ABC 52.1 11 0.00024 44.1 3.0 50 568-617 515-566 (574)
250 PF01418 HTH_6: Helix-turn-hel 51.8 16 0.00034 31.0 3.2 45 602-646 14-59 (77)
251 PHA00729 NTP-binding motif con 51.7 8.3 0.00018 39.9 1.7 29 105-133 7-35 (226)
252 CHL00081 chlI Mg-protoporyphyr 51.4 4 8.7E-05 44.9 -0.7 43 81-132 13-55 (350)
253 cd01130 VirB11-like_ATPase Typ 51.4 5.4 0.00012 39.4 0.2 28 104-132 15-42 (186)
254 PRK13482 DNA integrity scannin 51.2 12 0.00027 41.0 3.0 27 590-616 312-338 (352)
255 cd01377 MYSc_type_II Myosin mo 50.9 73 0.0016 38.4 9.6 22 112-133 88-109 (693)
256 PF00580 UvrD-helicase: UvrD/R 50.8 5.1 0.00011 41.8 -0.0 20 114-133 12-31 (315)
257 PF07728 AAA_5: AAA domain (dy 50.5 5.6 0.00012 36.8 0.2 15 118-132 2-16 (139)
258 PF07724 AAA_2: AAA domain (Cd 50.4 7.7 0.00017 38.1 1.2 17 116-132 4-20 (171)
259 PRK13833 conjugal transfer pro 50.2 5.2 0.00011 43.6 -0.1 28 105-133 135-162 (323)
260 TIGR03015 pepcterm_ATPase puta 50.0 7 0.00015 40.3 0.9 22 111-132 39-60 (269)
261 PF04994 TfoX_C: TfoX C-termin 49.9 12 0.00025 32.5 2.1 32 597-632 3-34 (81)
262 TIGR01954 nusA_Cterm_rpt trans 49.5 18 0.00039 27.5 2.9 26 590-615 19-44 (50)
263 TIGR03499 FlhF flagellar biosy 49.3 7.3 0.00016 41.4 0.9 18 116-133 195-212 (282)
264 PF02562 PhoH: PhoH-like prote 48.7 8.2 0.00018 39.3 1.1 19 114-132 18-36 (205)
265 COG1223 Predicted ATPase (AAA+ 48.6 7.8 0.00017 41.1 0.9 17 116-132 152-168 (368)
266 PF03215 Rad17: Rad17 cell cyc 48.4 7.9 0.00017 44.8 1.0 31 102-132 30-62 (519)
267 TIGR02655 circ_KaiC circadian 48.0 25 0.00054 40.3 5.0 26 105-130 8-36 (484)
268 PRK10702 endonuclease III; Pro 47.9 20 0.00044 36.5 3.8 57 589-645 62-129 (211)
269 PHA02544 44 clamp loader, smal 47.8 8 0.00017 41.1 0.9 22 112-133 39-61 (316)
270 TIGR02903 spore_lon_C ATP-depe 47.7 8.2 0.00018 45.6 1.0 42 82-132 151-192 (615)
271 PF13238 AAA_18: AAA domain; P 47.5 8 0.00017 34.6 0.7 15 118-132 1-15 (129)
272 PF06414 Zeta_toxin: Zeta toxi 47.4 8.8 0.00019 38.2 1.1 19 114-132 14-32 (199)
273 PRK03992 proteasome-activating 47.3 5.6 0.00012 44.2 -0.4 51 81-132 127-182 (389)
274 PRK13851 type IV secretion sys 47.0 7.7 0.00017 42.6 0.6 28 105-133 153-180 (344)
275 PRK06547 hypothetical protein; 46.9 12 0.00026 36.9 1.9 27 106-132 6-32 (172)
276 cd00268 DEADc DEAD-box helicas 46.9 9.5 0.00021 37.4 1.2 22 108-131 31-52 (203)
277 COG4962 CpaF Flp pilus assembl 46.8 7.2 0.00016 42.7 0.4 27 105-132 164-190 (355)
278 TIGR02881 spore_V_K stage V sp 46.7 8.2 0.00018 40.2 0.8 18 115-132 42-59 (261)
279 PTZ00424 helicase 45; Provisio 46.4 7.9 0.00017 42.5 0.6 25 106-132 58-82 (401)
280 TIGR00194 uvrC excinuclease AB 46.2 18 0.0004 42.4 3.6 31 595-630 539-569 (574)
281 PRK12723 flagellar biosynthesi 46.0 8.4 0.00018 43.0 0.7 19 115-133 174-192 (388)
282 PF07693 KAP_NTPase: KAP famil 45.9 12 0.00026 39.7 1.9 34 99-132 4-37 (325)
283 KOG2841 Structure-specific end 45.7 18 0.0004 37.5 3.0 52 595-646 193-248 (254)
284 PRK08097 ligB NAD-dependent DN 45.5 28 0.00061 40.8 4.9 28 590-617 452-479 (562)
285 TIGR03877 thermo_KaiC_1 KaiC d 45.3 32 0.0007 35.2 4.9 47 106-165 9-58 (237)
286 PRK11776 ATP-dependent RNA hel 44.6 10 0.00022 42.8 1.2 23 107-131 35-57 (460)
287 COG2607 Predicted ATPase (AAA+ 44.6 26 0.00056 36.9 3.9 50 108-175 77-127 (287)
288 PRK14722 flhF flagellar biosyn 44.2 9.8 0.00021 42.3 0.9 19 115-133 137-155 (374)
289 KOG0926 DEAH-box RNA helicase 44.1 15 0.00033 44.3 2.4 18 115-132 271-288 (1172)
290 cd01124 KaiC KaiC is a circadi 43.7 23 0.0005 34.1 3.4 15 118-132 2-16 (187)
291 TIGR02237 recomb_radB DNA repa 43.6 15 0.00032 36.5 2.0 25 108-132 2-29 (209)
292 PRK00254 ski2-like helicase; P 42.8 16 0.00035 43.9 2.5 29 588-616 669-697 (720)
293 PF06745 KaiC: KaiC; InterPro 42.6 22 0.00048 35.8 3.2 46 105-163 6-55 (226)
294 COG1796 POL4 DNA polymerase IV 42.4 33 0.00072 37.2 4.5 54 584-645 85-148 (326)
295 COG1419 FlhF Flagellar GTP-bin 42.2 13 0.00029 41.5 1.5 19 115-133 203-221 (407)
296 PF03118 RNA_pol_A_CTD: Bacter 42.2 20 0.00044 29.8 2.3 26 591-616 38-63 (66)
297 KOG2543 Origin recognition com 42.1 10 0.00022 42.1 0.6 40 114-169 29-68 (438)
298 PRK11192 ATP-dependent RNA hel 41.5 12 0.00025 41.9 1.0 23 107-131 32-54 (434)
299 PF12836 HHH_3: Helix-hairpin- 41.4 19 0.00042 29.5 2.0 22 593-614 40-61 (65)
300 COG1219 ClpX ATP-dependent pro 41.3 13 0.00027 40.6 1.1 17 115-131 97-113 (408)
301 TIGR00348 hsdR type I site-spe 41.2 13 0.00029 44.3 1.5 31 102-133 246-281 (667)
302 PRK06067 flagellar accessory p 40.9 39 0.00084 34.4 4.6 29 104-132 11-42 (234)
303 PRK01172 ski2-like helicase; P 40.9 30 0.00065 41.2 4.3 44 597-644 612-664 (674)
304 PLN03025 replication factor C 40.9 13 0.00028 40.0 1.2 17 117-133 36-52 (319)
305 TIGR01242 26Sp45 26S proteasom 40.6 12 0.00025 41.1 0.8 51 81-132 118-173 (364)
306 PRK14961 DNA polymerase III su 40.6 11 0.00024 41.4 0.6 41 83-132 14-55 (363)
307 PRK13764 ATPase; Provisional 40.5 11 0.00024 44.4 0.6 20 114-133 256-275 (602)
308 KOG0727 26S proteasome regulat 40.4 17 0.00036 38.4 1.8 63 96-158 165-249 (408)
309 PRK13900 type IV secretion sys 40.2 10 0.00022 41.3 0.3 27 105-132 151-177 (332)
310 PHA02244 ATPase-like protein 40.2 14 0.00031 41.0 1.4 46 81-132 91-136 (383)
311 PRK11331 5-methylcytosine-spec 40.1 13 0.00029 42.3 1.1 28 321-350 320-347 (459)
312 PF05729 NACHT: NACHT domain 39.8 14 0.00029 34.5 1.0 17 117-133 2-18 (166)
313 PRK04837 ATP-dependent RNA hel 39.8 13 0.00027 41.6 0.9 24 107-132 39-62 (423)
314 cd01120 RecA-like_NTPases RecA 39.4 12 0.00026 34.6 0.5 16 118-133 2-17 (165)
315 PRK00440 rfc replication facto 39.4 14 0.0003 39.0 1.2 21 112-132 35-55 (319)
316 PF02456 Adeno_IVa2: Adenoviru 39.3 11 0.00024 40.8 0.3 63 117-179 89-186 (369)
317 COG2231 Uncharacterized protei 39.3 23 0.00049 36.2 2.5 26 595-620 113-138 (215)
318 PF00416 Ribosomal_S13: Riboso 39.2 30 0.00065 31.4 3.1 33 596-628 14-46 (107)
319 PRK14973 DNA topoisomerase I; 39.0 32 0.0007 42.8 4.3 48 596-647 876-932 (936)
320 PF00735 Septin: Septin; Inte 38.6 11 0.00024 40.1 0.2 19 112-130 1-19 (281)
321 PRK10590 ATP-dependent RNA hel 38.5 15 0.00033 41.5 1.3 24 107-132 32-55 (456)
322 PF13173 AAA_14: AAA domain 38.4 14 0.0003 34.0 0.8 17 117-133 4-20 (128)
323 PRK10536 hypothetical protein; 38.3 15 0.00032 38.9 1.0 17 116-132 75-91 (262)
324 PRK03980 flap endonuclease-1; 38.2 26 0.00056 37.7 2.9 26 601-631 193-218 (292)
325 PRK13341 recombination factor 37.9 12 0.00026 45.1 0.4 22 112-133 49-70 (725)
326 KOG0340 ATP-dependent RNA heli 37.7 33 0.00071 37.9 3.6 41 105-147 36-82 (442)
327 TIGR03878 thermo_KaiC_2 KaiC d 37.6 47 0.001 34.7 4.7 37 115-164 36-72 (259)
328 TIGR01618 phage_P_loop phage n 37.5 14 0.0003 38.1 0.7 19 116-134 13-31 (220)
329 PRK04195 replication factor C 37.5 14 0.00031 42.1 0.9 31 102-132 25-56 (482)
330 TIGR02902 spore_lonB ATP-depen 37.4 14 0.0003 42.9 0.8 41 82-131 62-102 (531)
331 PRK11448 hsdR type I restricti 37.4 12 0.00026 47.3 0.4 29 105-134 424-452 (1123)
332 PF14229 DUF4332: Domain of un 37.3 36 0.00079 31.6 3.4 34 594-631 50-83 (122)
333 cd01123 Rad51_DMC1_radA Rad51_ 37.1 21 0.00046 36.0 2.0 28 105-132 6-36 (235)
334 COG5241 RAD10 Nucleotide excis 37.0 20 0.00043 35.8 1.7 29 589-617 191-219 (224)
335 COG2003 RadC DNA repair protei 37.0 46 0.00099 34.4 4.3 43 588-630 57-111 (224)
336 TIGR01448 recD_rel helicase, p 37.0 30 0.00065 41.8 3.5 45 602-646 89-138 (720)
337 PRK13342 recombination factor 36.8 17 0.00038 40.6 1.4 23 111-133 32-54 (413)
338 PF12775 AAA_7: P-loop contain 36.8 15 0.00033 38.8 0.9 19 115-133 33-51 (272)
339 KOG1857 Transcription accessor 36.5 9.6 0.00021 43.2 -0.6 71 576-646 37-115 (623)
340 PRK00558 uvrC excinuclease ABC 36.1 28 0.0006 41.2 3.0 28 590-617 568-595 (598)
341 COG0122 AlkA 3-methyladenine D 36.1 37 0.00081 36.3 3.7 33 596-628 197-230 (285)
342 PF13555 AAA_29: P-loop contai 35.6 16 0.00035 30.1 0.7 15 118-132 26-40 (62)
343 PLN00020 ribulose bisphosphate 35.4 23 0.0005 39.6 2.0 50 81-131 111-164 (413)
344 TIGR01359 UMP_CMP_kin_fam UMP- 35.4 18 0.00038 35.1 1.1 14 118-131 2-15 (183)
345 PRK09361 radB DNA repair and r 35.4 24 0.00053 35.5 2.1 29 104-132 9-40 (225)
346 PF10236 DAP3: Mitochondrial r 35.3 19 0.00042 38.8 1.4 24 110-133 18-41 (309)
347 PRK00131 aroK shikimate kinase 35.2 19 0.00042 34.1 1.3 17 116-132 5-21 (175)
348 KOG1514 Origin recognition com 35.1 43 0.00093 40.0 4.2 47 304-356 572-629 (767)
349 cd01850 CDC_Septin CDC/Septin. 35.1 18 0.0004 38.2 1.2 21 112-132 1-21 (276)
350 TIGR02030 BchI-ChlI magnesium 35.1 13 0.00028 40.7 0.1 43 82-133 1-43 (337)
351 cd02021 GntK Gluconate kinase 34.8 18 0.00038 33.9 1.0 14 118-131 2-15 (150)
352 TIGR00593 pola DNA polymerase 34.8 32 0.0007 42.5 3.4 39 599-642 187-228 (887)
353 COG1623 Predicted nucleic-acid 34.7 21 0.00046 38.1 1.6 27 589-615 317-343 (349)
354 TIGR02640 gas_vesic_GvpN gas v 34.6 22 0.00048 37.1 1.7 29 102-132 10-38 (262)
355 COG1201 Lhr Lhr-like helicases 34.6 42 0.00092 41.0 4.2 25 106-132 30-54 (814)
356 PRK02362 ski2-like helicase; P 34.6 43 0.00093 40.5 4.3 48 595-646 650-704 (737)
357 PRK00080 ruvB Holliday junctio 34.4 15 0.00032 39.7 0.4 18 116-133 52-69 (328)
358 COG0467 RAD55 RecA-superfamily 34.4 54 0.0012 34.0 4.6 24 107-130 12-38 (260)
359 PF13476 AAA_23: AAA domain; P 34.2 18 0.00038 35.0 0.8 17 116-132 20-36 (202)
360 PRK02515 psbU photosystem II c 33.7 39 0.00085 32.1 3.0 28 593-620 83-110 (132)
361 cd01126 TraG_VirD4 The TraG/Tr 33.6 23 0.0005 39.0 1.7 16 118-133 2-17 (384)
362 PRK05755 DNA polymerase I; Pro 33.6 37 0.00081 41.9 3.7 40 599-643 189-230 (880)
363 KOG2875 8-oxoguanine DNA glyco 33.4 24 0.00051 37.6 1.6 20 596-615 217-236 (323)
364 PRK05703 flhF flagellar biosyn 33.4 18 0.00039 40.9 0.8 18 116-133 222-239 (424)
365 PRK10308 3-methyl-adenine DNA 33.1 70 0.0015 34.2 5.2 53 593-646 163-228 (283)
366 PHA01747 putative ATP-dependen 33.1 24 0.00053 39.2 1.7 33 100-132 175-207 (425)
367 PRK14666 uvrC excinuclease ABC 33.0 33 0.00071 41.1 2.9 29 589-617 661-689 (694)
368 TIGR00618 sbcc exonuclease Sbc 32.9 43 0.00094 42.1 4.2 17 116-132 27-43 (1042)
369 TIGR02655 circ_KaiC circadian 32.9 56 0.0012 37.4 4.8 50 104-166 249-301 (484)
370 TIGR00635 ruvB Holliday juncti 32.9 19 0.00042 38.0 1.0 17 117-133 32-48 (305)
371 cd01394 radB RadB. The archaea 32.8 29 0.00063 34.7 2.2 27 106-132 7-36 (218)
372 PF06048 DUF927: Domain of unk 32.4 25 0.00054 37.3 1.7 28 104-132 183-210 (286)
373 smart00242 MYSc Myosin. Large 32.4 23 0.00051 42.4 1.6 21 112-132 89-109 (677)
374 PRK10865 protein disaggregatio 31.9 23 0.00051 43.6 1.6 17 116-132 599-615 (857)
375 KOG0739 AAA+-type ATPase [Post 31.8 22 0.00047 38.5 1.1 74 83-157 131-225 (439)
376 PRK09302 circadian clock prote 31.8 51 0.0011 37.9 4.2 28 105-132 18-48 (509)
377 PRK07261 topology modulation p 31.8 22 0.00047 34.7 1.1 15 118-132 3-17 (171)
378 CHL00181 cbbX CbbX; Provisiona 31.8 21 0.00045 38.1 1.0 15 118-132 62-76 (287)
379 TIGR00614 recQ_fam ATP-depende 31.8 23 0.00049 40.3 1.3 25 106-132 19-43 (470)
380 TIGR03880 KaiC_arch_3 KaiC dom 31.8 58 0.0013 32.8 4.2 25 107-131 5-32 (224)
381 TIGR01241 FtsH_fam ATP-depende 31.8 18 0.0004 41.4 0.6 17 117-133 90-106 (495)
382 PRK10880 adenine DNA glycosyla 31.7 53 0.0011 36.3 4.1 58 588-646 62-130 (350)
383 PRK05973 replicative DNA helic 31.7 65 0.0014 33.6 4.6 47 107-166 54-102 (237)
384 PRK14668 uvrC excinuclease ABC 31.6 36 0.00077 40.1 2.9 28 589-616 549-576 (577)
385 TIGR02788 VirB11 P-type DNA tr 31.6 22 0.00047 38.2 1.1 29 103-132 133-161 (308)
386 PRK04537 ATP-dependent RNA hel 31.6 20 0.00044 41.9 0.9 24 107-132 40-63 (572)
387 KOG3859 Septins (P-loop GTPase 31.5 23 0.0005 37.9 1.2 24 109-132 36-59 (406)
388 cd01428 ADK Adenylate kinase ( 31.5 22 0.00048 34.5 1.1 15 118-132 2-16 (194)
389 cd00464 SK Shikimate kinase (S 31.3 21 0.00045 33.3 0.8 15 117-131 1-15 (154)
390 CHL00137 rps13 ribosomal prote 31.2 44 0.00096 31.3 2.9 32 597-628 17-48 (122)
391 TIGR01313 therm_gnt_kin carboh 31.2 19 0.0004 34.3 0.5 14 118-131 1-14 (163)
392 CHL00176 ftsH cell division pr 31.2 13 0.00029 44.1 -0.7 17 116-132 217-233 (638)
393 PRK11634 ATP-dependent RNA hel 31.1 21 0.00046 42.4 1.0 24 107-132 37-60 (629)
394 PF11372 DUF3173: Domain of un 31.0 53 0.0011 27.0 2.9 26 592-618 2-27 (59)
395 PRK06995 flhF flagellar biosyn 31.0 20 0.00044 41.1 0.8 18 116-133 257-274 (484)
396 cd01127 TrwB Bacterial conjuga 30.9 19 0.00042 40.2 0.6 18 115-132 42-59 (410)
397 PRK14667 uvrC excinuclease ABC 30.9 31 0.00068 40.5 2.3 50 566-616 513-564 (567)
398 PRK14974 cell division protein 30.8 31 0.00068 37.8 2.1 19 115-133 140-158 (336)
399 TIGR00376 DNA helicase, putati 30.7 19 0.00041 42.8 0.5 17 117-133 175-191 (637)
400 PRK14962 DNA polymerase III su 30.6 21 0.00045 41.0 0.7 41 83-132 12-53 (472)
401 PTZ00454 26S protease regulato 30.5 22 0.00049 39.7 1.0 51 81-132 141-196 (398)
402 PRK08118 topology modulation p 30.5 24 0.00052 34.4 1.1 13 118-130 4-16 (167)
403 TIGR02880 cbbX_cfxQ probable R 30.3 21 0.00045 37.9 0.7 16 117-132 60-75 (284)
404 COG0258 Exo 5'-3' exonuclease 30.2 46 0.001 35.8 3.3 37 601-642 202-240 (310)
405 COG1125 OpuBA ABC-type proline 30.2 21 0.00046 37.9 0.7 13 120-132 32-44 (309)
406 COG2256 MGS1 ATPase related to 30.1 31 0.00067 38.7 1.9 43 83-131 22-64 (436)
407 PRK14350 ligA NAD-dependent DN 29.9 62 0.0013 38.8 4.5 42 602-643 507-559 (669)
408 TIGR03158 cas3_cyano CRISPR-as 29.7 34 0.00073 37.6 2.2 25 108-132 7-31 (357)
409 TIGR03819 heli_sec_ATPase heli 29.7 19 0.00041 39.4 0.2 30 102-132 166-195 (340)
410 COG0419 SbcC ATPase involved i 29.5 64 0.0014 40.0 4.7 46 116-164 26-78 (908)
411 PF06309 Torsin: Torsin; Inte 29.5 32 0.00069 32.5 1.6 26 117-152 55-80 (127)
412 PTZ00361 26 proteosome regulat 29.5 21 0.00045 40.6 0.5 16 117-132 219-234 (438)
413 PRK13910 DNA glycosylase MutY; 29.4 68 0.0015 34.5 4.3 56 589-645 26-92 (289)
414 PRK05179 rpsM 30S ribosomal pr 29.3 49 0.0011 31.0 2.9 32 597-628 17-48 (122)
415 TIGR03629 arch_S13P archaeal r 29.2 48 0.001 32.0 2.8 44 597-645 21-64 (144)
416 cd01393 recA_like RecA is a b 29.1 30 0.00065 34.7 1.5 30 104-133 5-37 (226)
417 COG5019 CDC3 Septin family pro 29.0 34 0.00073 37.9 2.0 19 112-130 20-38 (373)
418 KOG1803 DNA helicase [Replicat 29.0 27 0.00059 40.9 1.3 18 116-133 202-219 (649)
419 cd01383 MYSc_type_VIII Myosin 28.9 33 0.00071 41.2 2.0 21 112-132 89-109 (677)
420 cd01384 MYSc_type_XI Myosin mo 28.7 32 0.0007 41.2 1.9 21 112-132 85-105 (674)
421 KOG0729 26S proteasome regulat 28.7 29 0.00063 37.0 1.4 45 113-157 207-270 (435)
422 TIGR03631 bact_S13 30S ribosom 28.6 49 0.0011 30.6 2.7 32 597-628 15-46 (113)
423 PRK00771 signal recognition pa 28.6 38 0.00083 38.5 2.4 20 114-133 94-113 (437)
424 COG0606 Predicted ATPase with 28.2 24 0.00053 40.3 0.8 30 110-144 195-224 (490)
425 PTZ00134 40S ribosomal protein 28.1 51 0.0011 32.2 2.9 45 596-645 29-73 (154)
426 cd01385 MYSc_type_IX Myosin mo 28.1 33 0.00071 41.3 1.9 21 112-132 91-111 (692)
427 cd01381 MYSc_type_VII Myosin m 27.9 35 0.00075 40.9 2.0 21 112-132 83-103 (671)
428 TIGR02322 phosphon_PhnN phosph 27.9 25 0.00055 33.9 0.7 16 117-132 3-18 (179)
429 KOG2373 Predicted mitochondria 27.8 43 0.00093 37.0 2.5 28 105-133 261-291 (514)
430 PHA02624 large T antigen; Prov 27.8 31 0.00068 40.7 1.6 27 106-132 420-448 (647)
431 PRK14531 adenylate kinase; Pro 27.8 28 0.00062 34.1 1.1 15 117-131 4-18 (183)
432 PHA02653 RNA helicase NPH-II; 27.6 33 0.00072 41.1 1.8 25 105-131 171-195 (675)
433 CHL00195 ycf46 Ycf46; Provisio 27.6 25 0.00054 40.5 0.7 17 116-132 260-276 (489)
434 PRK06217 hypothetical protein; 27.6 28 0.0006 34.1 1.0 14 118-131 4-17 (183)
435 cd02020 CMPK Cytidine monophos 27.3 30 0.00064 31.8 1.1 14 118-131 2-15 (147)
436 PF04466 Terminase_3: Phage te 27.2 21 0.00045 39.7 0.0 17 118-134 5-21 (387)
437 PF08298 AAA_PrkA: PrkA AAA do 27.1 76 0.0016 35.1 4.3 61 85-151 61-142 (358)
438 TIGR03689 pup_AAA proteasome A 27.1 26 0.00056 40.6 0.8 16 117-132 218-233 (512)
439 KOG1534 Putative transcription 27.1 73 0.0016 33.0 3.8 33 116-162 4-36 (273)
440 TIGR02746 TraC-F-type type-IV 27.0 24 0.00052 42.8 0.5 19 115-133 430-448 (797)
441 TIGR03881 KaiC_arch_4 KaiC dom 26.9 41 0.00089 33.9 2.1 27 106-132 8-37 (229)
442 PLN00206 DEAD-box ATP-dependen 26.8 36 0.00078 39.3 1.8 25 106-132 151-175 (518)
443 PRK01297 ATP-dependent RNA hel 26.7 29 0.00063 39.4 1.1 26 105-132 116-141 (475)
444 PRK08233 hypothetical protein; 26.6 30 0.00064 33.2 1.0 16 117-132 5-20 (182)
445 PF08477 Miro: Miro-like prote 26.6 25 0.00055 31.0 0.5 15 118-132 2-16 (119)
446 PF00931 NB-ARC: NB-ARC domain 26.4 38 0.00082 35.1 1.8 30 103-132 5-36 (287)
447 PRK09270 nucleoside triphospha 26.4 42 0.00092 34.1 2.1 37 96-132 13-50 (229)
448 PRK10416 signal recognition pa 26.3 40 0.00086 36.6 2.0 19 115-133 114-132 (318)
449 KOG0652 26S proteasome regulat 26.3 31 0.00067 36.7 1.1 15 117-131 207-221 (424)
450 PF04548 AIG1: AIG1 family; I 26.3 30 0.00065 34.9 0.9 16 117-132 2-17 (212)
451 PRK14672 uvrC excinuclease ABC 26.2 44 0.00094 40.0 2.4 52 567-618 608-661 (691)
452 cd01380 MYSc_type_V Myosin mot 26.2 37 0.00081 40.8 1.9 21 112-132 83-103 (691)
453 PRK01229 N-glycosylase/DNA lya 26.2 61 0.0013 33.2 3.2 50 593-642 68-136 (208)
454 cd00820 PEPCK_HprK Phosphoenol 26.2 30 0.00066 31.6 0.9 17 116-132 16-32 (107)
455 PRK14532 adenylate kinase; Pro 26.1 32 0.0007 33.6 1.1 15 117-131 2-16 (188)
456 smart00763 AAA_PrkA PrkA AAA d 26.0 49 0.0011 36.6 2.6 18 114-131 77-94 (361)
457 PRK11889 flhF flagellar biosyn 26.0 28 0.0006 39.3 0.7 18 116-133 242-259 (436)
458 PTZ00217 flap endonuclease-1; 25.9 55 0.0012 36.7 3.0 26 600-630 238-263 (393)
459 TIGR01360 aden_kin_iso1 adenyl 25.9 33 0.00071 33.1 1.1 16 117-132 5-20 (188)
460 TIGR03744 traC_PFL_4706 conjug 25.7 26 0.00057 43.3 0.5 20 114-133 474-493 (893)
461 COG1126 GlnQ ABC-type polar am 25.6 34 0.00073 35.5 1.2 15 118-132 31-45 (240)
462 TIGR02639 ClpA ATP-dependent C 25.6 36 0.00078 41.1 1.6 40 86-131 455-500 (731)
463 cd01387 MYSc_type_XV Myosin mo 25.5 40 0.00088 40.4 2.0 21 112-132 84-104 (677)
464 PRK12726 flagellar biosynthesi 25.5 30 0.00066 38.8 0.9 19 115-133 206-224 (407)
465 COG0630 VirB11 Type IV secreto 25.3 27 0.00058 37.8 0.4 19 115-133 143-161 (312)
466 TIGR03345 VI_ClpV1 type VI sec 25.3 36 0.00077 42.0 1.5 17 116-132 597-613 (852)
467 PRK04053 rps13p 30S ribosomal 25.2 65 0.0014 31.3 3.0 45 596-645 24-68 (149)
468 PRK14721 flhF flagellar biosyn 25.1 31 0.00067 39.0 0.9 19 115-133 191-209 (420)
469 TIGR00231 small_GTP small GTP- 25.0 29 0.00062 31.2 0.5 16 117-132 3-18 (161)
470 PF10412 TrwB_AAD_bind: Type I 25.0 25 0.00054 39.1 0.1 17 117-133 17-33 (386)
471 TIGR00064 ftsY signal recognit 24.9 36 0.00078 36.0 1.3 19 115-133 72-90 (272)
472 cd01983 Fer4_NifH The Fer4_Nif 24.9 33 0.00072 28.5 0.8 16 118-133 2-17 (99)
473 TIGR01817 nifA Nif-specific re 24.8 39 0.00084 39.1 1.6 45 80-131 191-235 (534)
474 PRK14723 flhF flagellar biosyn 24.8 34 0.00073 41.6 1.1 18 116-133 186-203 (767)
475 PRK06696 uridine kinase; Valid 24.7 46 0.00099 33.7 2.0 21 112-132 19-39 (223)
476 COG1555 ComEA DNA uptake prote 24.7 60 0.0013 31.4 2.7 24 593-616 123-146 (149)
477 PRK14964 DNA polymerase III su 24.2 29 0.00062 40.0 0.4 21 112-132 31-52 (491)
478 cd02023 UMPK Uridine monophosp 23.9 30 0.00066 34.1 0.5 15 118-132 2-16 (198)
479 TIGR02173 cyt_kin_arch cytidyl 23.8 36 0.00079 32.2 1.0 16 117-132 2-17 (171)
480 PF05496 RuvB_N: Holliday junc 23.8 36 0.00078 35.4 1.0 43 83-131 22-66 (233)
481 PF00485 PRK: Phosphoribulokin 23.6 31 0.00067 34.1 0.5 14 118-131 2-15 (194)
482 PRK06305 DNA polymerase III su 23.5 28 0.00061 39.6 0.2 41 83-132 15-56 (451)
483 KOG0726 26S proteasome regulat 23.2 52 0.0011 35.7 2.0 42 117-158 221-279 (440)
484 PRK06762 hypothetical protein; 23.1 41 0.00089 32.0 1.2 15 117-131 4-18 (166)
485 PF14532 Sigma54_activ_2: Sigm 23.1 33 0.00071 31.9 0.5 20 113-132 19-38 (138)
486 PF02796 HTH_7: Helix-turn-hel 23.1 1E+02 0.0022 23.3 3.1 39 604-644 5-44 (45)
487 PRK03839 putative kinase; Prov 23.1 38 0.00082 32.9 1.0 14 118-131 3-16 (180)
488 PF01367 5_3_exonuc: 5'-3' exo 23.0 11 0.00025 34.0 -2.5 27 599-630 20-46 (101)
489 KOG0651 26S proteasome regulat 23.0 43 0.00092 36.6 1.4 76 79-155 126-223 (388)
490 TIGR00929 VirB4_CagE type IV s 22.9 32 0.00069 41.6 0.5 19 115-133 434-452 (785)
491 PRK10820 DNA-binding transcrip 22.8 33 0.00072 39.7 0.6 45 80-131 199-243 (520)
492 PRK05342 clpX ATP-dependent pr 22.8 39 0.00086 38.0 1.2 18 115-132 108-125 (412)
493 PRK08533 flagellar accessory p 22.8 89 0.0019 32.1 3.7 17 115-131 24-40 (230)
494 TIGR01389 recQ ATP-dependent D 22.8 40 0.00087 39.5 1.2 25 106-132 21-45 (591)
495 PRK10917 ATP-dependent DNA hel 22.8 47 0.001 39.8 1.8 22 112-133 279-300 (681)
496 PRK04040 adenylate kinase; Pro 22.7 39 0.00084 33.7 1.0 16 117-132 4-19 (188)
497 smart00478 ENDO3c endonuclease 22.7 82 0.0018 29.6 3.2 53 593-645 29-92 (149)
498 PRK00300 gmk guanylate kinase; 22.6 42 0.00091 33.1 1.2 18 115-132 5-22 (205)
499 KOG0743 AAA+-type ATPase [Post 22.5 52 0.0011 37.4 2.0 61 118-195 238-301 (457)
500 PRK06851 hypothetical protein; 22.4 44 0.00095 37.1 1.4 29 105-133 20-48 (367)
No 1
>KOG4280 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.6e-83 Score=711.89 Aligned_cols=345 Identities=37% Similarity=0.575 Sum_probs=302.9
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCC---CCceeeeeceeeCCCCCchhHHHH
Q 005960 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDT---IRSECYQLDSFFGQEDESVSKIFY 100 (667)
Q Consensus 24 ~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~---~~~~~F~FD~Vf~~~~~sQ~~Vf~ 100 (667)
...+|+|+||+||+...+.... ...++.+... ...+.++++.. ...+.|+||.||+++. +|++||.
T Consensus 3 ~~~~v~vvvr~rPl~~~~~~~~---~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~~ftfD~vf~~~s-tQ~dvy~ 71 (574)
T KOG4280|consen 3 PACKVKVVVRVRPLSAAERSEL---LKSILSVDPA-------HGRVSLKNPVAGIEGKPKSFTFDAVFDSDS-TQDDVYQ 71 (574)
T ss_pred cccceeEEEeecCCCchhhhhh---hccccccccc-------cceeeecCCcccccCCCCCceeeeeecCCC-CHHHHHH
Confidence 4568999999999998775544 2223333222 23445544433 2356799999999875 8899999
Q ss_pred hhccchhhhhcCCCCEEEEeeccCCCCCcceeccC-CCCCCChHHHHHHHHhhhccCC----ceEEEEEEEEecceeeec
Q 005960 101 SEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGS-EERPGLMPLAMSKILSICQSTG----STAEISYYEVYMDRCYDL 175 (667)
Q Consensus 101 ~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~-~~~~GLipral~~LF~~~~~~~----~~v~vS~~EIYnE~v~DL 175 (667)
.++.|+|++|++|||+||||||||||||||||.|. ++..|||||++++||.+++... |.|++||+|||||.|+||
T Consensus 72 ~~~~~lV~svl~GyNgtvFaYGQTGsGKTyTM~G~~~~~~GiiPraf~~LF~~I~~~~~~~~f~vrvS~lEiYnE~i~DL 151 (574)
T KOG4280|consen 72 ETVAPLVESVLEGYNGTVFAYGQTGSGKTYTMIGPDPELRGLIPRAFEHLFRHIDERKEKTRFLVRVSYLEIYNESIRDL 151 (574)
T ss_pred HHhHHHHHHHhcccCceEEEeccCCCCCceEeeCCChhhCCchhHHHHHHHHHHHhccccceEEEEeehHHHHhHHHHHH
Confidence 99999999999999999999999999999999999 6678999999999999987653 899999999999999999
Q ss_pred cCCCC-CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEe--CCCCCc
Q 005960 176 LEVKT-KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLL--GDDSKA 252 (667)
Q Consensus 176 L~~~~-~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~--~~~~~~ 252 (667)
|++.. +.+.++++++.|+||+|++++.|.++++++.+|..|..+|++++|.||..|||||+||+|+|++.. .++...
T Consensus 152 L~~~~~~~l~lre~p~~Gv~V~nlse~~v~s~~d~~~~l~~G~~nR~vgat~mn~~SsRSH~ift~~i~~~~~~~~~~~~ 231 (574)
T KOG4280|consen 152 LSPVNPKGLELREDPKCGVYVENLSEMDVESAEDAQQLLVVGLANRRVGATSMNEESSRSHAIFTIHIESSEKSDGGLMS 231 (574)
T ss_pred hCccCcCCceeeEcCCCceEecCcceeecCCHHHHHHHHHHHHhhcchhhccCCcccccceEEEEEEEEeecccCCCccc
Confidence 99877 589999999999999999999999999999999999999999999999999999999999999833 334556
Q ss_pred eEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCC-CCCCCCchhhhhhhcccCCCccceEEE
Q 005960 253 ALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKP-RVPYRESKLTRILQDSLGGTSHALMVA 331 (667)
Q Consensus 253 ~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~-~IPYRdSkLTrLLqdsLgGnskt~mIa 331 (667)
...|||+|||||||||+.+++++|+|++|+.+||+||++||+||.+|.++++ ||||||||||+||||||||||+|+|||
T Consensus 232 ~~~~rlnlvDLagsEr~~~tga~G~rlkEa~~IN~SLs~LG~vI~aLvd~~~~HIPYRdSkLT~LLqdSLGGN~kT~mia 311 (574)
T KOG4280|consen 232 GRSSKLNLVDLAGSERQSKTGAEGERLKEATNINLSLSALGNVISALVDGSKTHIPYRDSKLTRLLQDSLGGNSKTTMIA 311 (574)
T ss_pred cccceeeeeeccchhhhcccCccchhhhhhcccchhHHHHHHHHHHHhccccCCCCcchhHHHHHHHHHcCCCceEEEEE
Confidence 6789999999999999999999999999999999999999999999999887 999999999999999999999999999
Q ss_pred EeCCC--ChhhhHHHHHHHHHhhhcccccccccccCCchhhhHHH-HHHHHHHHhhccch
Q 005960 332 CLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDME-AKLRAWLESKGKTK 388 (667)
Q Consensus 332 ~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~d~~-~~l~~~l~~~~k~~ 388 (667)
||+|+ +|+||++||+||+||+.|+|. |.++.|+. +.++.+.++...++
T Consensus 312 nvsp~~~~~~ETlsTLrfA~Rak~I~nk---------~~ined~~~~~~~~lq~ei~~Lk 362 (574)
T KOG4280|consen 312 NVSPSSDNYEETLSTLRFAQRAKAIKNK---------PVINEDPKDALLRELQEEIERLK 362 (574)
T ss_pred ecCchhhhhHHHHHHHHHHHHHHHhhcc---------ccccCCcchhhHHHHHHHHHHHH
Confidence 99998 579999999999999999995 55666665 66777777665554
No 2
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=5e-84 Score=729.35 Aligned_cols=356 Identities=33% Similarity=0.517 Sum_probs=311.9
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCC------CchhHH
Q 005960 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQED------ESVSKI 98 (667)
Q Consensus 25 ~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~------~sQ~~V 98 (667)
..+|+|+||||||+.+|.... ..+.|.+.+... ++. .+........|+||+.||..+ .+|..|
T Consensus 3 ~ssv~VAVRVRPfn~rE~s~~---~k~Vvqm~gn~t-------tii-~~~~~k~~~~FtfD~SYWS~d~edPhfAsQ~qV 71 (1221)
T KOG0245|consen 3 GSSVKVAVRVRPFNAREKSRD---AKCVVQMQGNTT-------TII-NPKGSKDAPKFTFDYSYWSHDSEDPHFASQKQV 71 (1221)
T ss_pred CCceEEEEEeccchhhhhhcc---cceEEEecCCce-------eee-cCCCcccCCceecceeeecCCCCCCchhhHHHH
Confidence 357999999999999997653 566677766532 332 222223334599999998765 378999
Q ss_pred HHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC--CCCCChHHHHHHHHhhhcc-----CCceEEEEEEEEecce
Q 005960 99 FYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE--ERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYMDR 171 (667)
Q Consensus 99 f~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~--~~~GLipral~~LF~~~~~-----~~~~v~vS~~EIYnE~ 171 (667)
|+....++++.+|+|||+||||||||||||||||+|.. +++|||||++++||.++.. ..|.|.|||+|||+|+
T Consensus 72 Yedlg~~mL~~AfEGYN~ClFAYGQTGSGKSYTMMG~~~~~e~GIIPrlCEeLF~ri~~nq~~~~sy~VevSymEIYcEr 151 (1221)
T KOG0245|consen 72 YEDLGREMLDHAFEGYNVCLFAYGQTGSGKSYTMMGFQEPDEPGIIPRLCEELFSRIADNQSQQMSYSVEVSYMEIYCER 151 (1221)
T ss_pred HHHHhHHHHHHHhcccceEEEEeccCCCCcceeeeccCCCCCCCchhHHHHHHHHHHhhcccccceEEEEEeehhHHHHH
Confidence 99999999999999999999999999999999999987 8899999999999998753 5689999999999999
Q ss_pred eeeccC-CC-CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC
Q 005960 172 CYDLLE-VK-TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD 249 (667)
Q Consensus 172 v~DLL~-~~-~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~ 249 (667)
|+|||+ +. +..+++||++--|+||++|+.+.|+|+.|+..+|..|++.|++++|+||+.|||||+||+|.+.+...+.
T Consensus 152 VrDLL~~p~~kg~LRVREHP~lGPYVedLS~~aV~Sy~dI~~~md~GNkqRTtAATnMNdtSSRSHaVFtIvftQk~~~~ 231 (1221)
T KOG0245|consen 152 VRDLLNAPKSKGGLRVREHPILGPYVEDLSKLAVTSYADIQDLMDEGNKQRTTAATNMNDTSSRSHAVFTIVFTQKKHDQ 231 (1221)
T ss_pred HHHHhhCCCCCCCceeeccCccChhHhHhhhcccccHHHHHHHHHhcchhhhhhhhccccccccceeEEEEEEEeeeccc
Confidence 999999 54 3579999999999999999999999999999999999999999999999999999999999999876543
Q ss_pred C---CceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC-------CCCCCCCchhhhhhhc
Q 005960 250 S---KAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK-------PRVPYRESKLTRILQD 319 (667)
Q Consensus 250 ~---~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~-------~~IPYRdSkLTrLLqd 319 (667)
. ....+|||+|||||||||...+|+.|+|++||.+|||||.+||+||+||++.+ .+||||||.|||||++
T Consensus 232 ~~~l~sek~SKIsLVDLAGSERasstGa~G~RLKEGa~INKSLtTLGkVISALAe~~~~k~~ks~fIPYRDSVLTWLLkE 311 (1221)
T KOG0245|consen 232 DTGLDSEKVSKISLVDLAGSERASSTGANGDRLKEGANINKSLTTLGKVISALAESQKGKKKKSDFIPYRDSVLTWLLKE 311 (1221)
T ss_pred cCCCcceeeeeeeEEeccCcccccccCCCccchhcccccchHHHHHHHHHHHHHHHhccCCCCCccccchHHHHHHHHHH
Confidence 3 35678999999999999999999999999999999999999999999998633 4899999999999999
Q ss_pred ccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhcccccccccccCCchhhhHHHHHHHH-HHHhhccchHHHHhhcc
Q 005960 320 SLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDMEAKLRA-WLESKGKTKSAQRMAVR 396 (667)
Q Consensus 320 sLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~d~~~~l~~-~l~~~~k~~~~~~~~~~ 396 (667)
+|||||||+|||+|||+ +|+|||+|||||.|||+|+| .+++|.|+.++|.+ +.+|..|+++.++..+.
T Consensus 312 nLGGNSKTaMIAAlSPAdiNyeETLSTLRYAdRAK~Iv~---------~avVNEdpnaKLIRELreEv~rLksll~~~~~ 382 (1221)
T KOG0245|consen 312 NLGGNSKTAMIAALSPADINYEETLSTLRYADRAKQIVN---------NAVVNEDPNAKLIRELREEVARLKSLLRAQGL 382 (1221)
T ss_pred hcCCcchhhhhhccChhhcChHHHHHHHHHhhHhhhhhc---------cceeCCCccHHHHHHHHHHHHHHHHHHhcccc
Confidence 99999999999999998 69999999999999999999 56777888766655 45556788888888777
Q ss_pred CCCC
Q 005960 397 GTPI 400 (667)
Q Consensus 397 ~~~~ 400 (667)
+-..
T Consensus 383 ~~~~ 386 (1221)
T KOG0245|consen 383 GDIA 386 (1221)
T ss_pred cccc
Confidence 6655
No 3
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=4.6e-82 Score=726.23 Aligned_cols=335 Identities=35% Similarity=0.568 Sum_probs=293.1
Q ss_pred CCCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhh
Q 005960 23 STSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSE 102 (667)
Q Consensus 23 ~~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~ 102 (667)
....+|+|+|||||++.+|...+ +...|.+.+. +.++.+.-......-.+.|+||+|||++. +|++||+.+
T Consensus 46 e~~~NIqVivRcRp~n~~E~~~~---s~~VVs~~~~-----~kEV~v~~~~~sk~~~k~ftFDkVFGpes-~Q~d~Y~~~ 116 (1041)
T KOG0243|consen 46 EKEVNIQVIVRCRPRNDRERKSK---SSVVVSCDGI-----RKEVAVRQTIASKQIDKTFTFDKVFGPES-QQEDLYDQA 116 (1041)
T ss_pred CCCCceEEEEEeCCCCchhhhcC---CCeEEecCCC-----cceEEEecccccccccceeecceeeCcch-hHHHHHHHH
Confidence 33478999999999999997654 4445555443 23455554422322467899999999986 799999999
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceecc--------CCCCCCChHHHHHHHHhhhcc--CCceEEEEEEEEeccee
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQG--------SEERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMDRC 172 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G--------~~~~~GLipral~~LF~~~~~--~~~~v~vS~~EIYnE~v 172 (667)
|.|+|..|+.|||||||||||||+||||||.| .+.++|||||++.+||+.+.. ..|.|+|||+|+|||.+
T Consensus 117 v~p~i~eVl~GyNCTIFAYGQTGTGKTyTMeG~~~~~~g~l~~~aGIIPRal~~IFd~Le~~~~EYsvKVSfLELYNEEl 196 (1041)
T KOG0243|consen 117 VSPIIKEVLEGYNCTIFAYGQTGTGKTYTMEGGERKKNGELPSEAGIIPRALRQIFDTLEAQGAEYSVKVSFLELYNEEL 196 (1041)
T ss_pred HHHHHHHHhccCCceEEEecCCCCCceeeeecCcccccCCCCccCCcchHHHHHHHHHHHhcCCeEEEEEEehhhhhHHH
Confidence 99999999999999999999999999999999 457789999999999998754 56999999999999999
Q ss_pred eeccCCCCC---ceeeeeC-----CCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEE
Q 005960 173 YDLLEVKTK---EISILDD-----KDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVST 244 (667)
Q Consensus 173 ~DLL~~~~~---~l~i~ed-----~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~ 244 (667)
+|||++... .+.+.++ ..|+++|+|+.++.|.++.|++.+|.+|..+|++++|.||+.|||||+||+|.|..
T Consensus 197 ~DLLa~~~~~~~~~~~k~~~~~~~~kggV~vkGlEEi~V~~A~ei~klLekGs~kRrtAaTl~N~~SSRSHsIFsItvhi 276 (1041)
T KOG0243|consen 197 TDLLASEDTSDKKLRIKDDSTIVDGKGGVIVKGLEEIIVTNADEIYKLLEKGSKKRRTAATLMNDQSSRSHSIFSITVHI 276 (1041)
T ss_pred HHhcCCccccccccccccCCcccCCcCcEEEecceeeeecchhHHHHHHHhhhhHhHHHHHHhhhhccccceEEEEEEEE
Confidence 999987543 3444444 47899999999999999999999999999999999999999999999999999976
Q ss_pred EeCC--CCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccC
Q 005960 245 LLGD--DSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLG 322 (667)
Q Consensus 245 ~~~~--~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLg 322 (667)
.... +......|||+||||||||...++|+.+.|.+|++.||+||++||+||.||.++..|||||+||||||||||||
T Consensus 277 ke~t~~geelvK~GKLNLVDLAGSENI~RSGA~~~RArEAG~INqSLLTLGRVInALVe~s~HIPYRESKLTRLLQDSLG 356 (1041)
T KOG0243|consen 277 KENTPEGEELVKIGKLNLVDLAGSENISRSGARNGRAREAGEINQSLLTLGRVINALVEHSGHIPYRESKLTRLLQDSLG 356 (1041)
T ss_pred ecCCCcchhhHhhcccceeeccccccccccccccchhHHhhhhhHHHHHHHHHHHHHHccCCCCCchHHHHHHHHHHHhC
Confidence 5443 33445679999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccceEEEEeCCC--ChhhhHHHHHHHHHhhhcccccccccccCC
Q 005960 323 GTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQT 366 (667)
Q Consensus 323 Gnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~ 366 (667)
|.++|+|||||||+ +++|||+||.||.||++|+|+|..|++...
T Consensus 357 GkTKT~iIATiSPa~~~lEETlSTLEYA~RAKnIkNKPevNQkl~K 402 (1041)
T KOG0243|consen 357 GKTKTCIIATISPAKHNLEETLSTLEYAHRAKNIKNKPEVNQKLMK 402 (1041)
T ss_pred CCceeEEEEEeCCCcccHHHHHHHHHHHHHhhhccCCCccchHHHH
Confidence 99999999999998 689999999999999999998877766543
No 4
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=100.00 E-value=9.5e-78 Score=645.23 Aligned_cols=324 Identities=36% Similarity=0.565 Sum_probs=287.1
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceE-E--EecCCCCCCceeeeeceeeCCCCCchhHHHHhhc
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVA-V--YLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEV 103 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~-v--~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v 103 (667)
+|+|+|||||+.+.|...+ ...||.+.+...+....... . ..........+.|.||+||++++ +|++||+..+
T Consensus 1 ~i~V~vRvRP~~~~E~~~~---~~~~v~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~-~q~~vf~~~~ 76 (338)
T cd01370 1 SLTVAVRVRPFNEKEKQEG---TRRVVKVVDDRMLVFDPKDEEDAFRNLRARRNKELKYSFDRVFDETS-TQEEVYENTT 76 (338)
T ss_pred CeEEEEEcCCCChhhhhcC---CceEEEEcCCCEEEEcCCcccccccchhcccCCceEEEeccccCCCC-CHHHHHHHHH
Confidence 5999999999999985544 56788887653211100000 0 00000122357899999999986 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeeccCCC
Q 005960 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLEVK 179 (667)
Q Consensus 104 ~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~~~ 179 (667)
+|+|+++++|||+||||||||||||||||+|+.+++|||||++++||+.++. ..+.|++||+|||||+|+|||++.
T Consensus 77 ~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Giipr~~~~LF~~i~~~~~~~~~~v~vS~~EIyne~v~DLL~~~ 156 (338)
T cd01370 77 KPLVDGVLNGYNATVFAYGATGAGKTHTMLGTDSDPGLMVLTMKDLFDKIEERKDDKEFEVSLSYLEIYNETIRDLLSPS 156 (338)
T ss_pred HHHHHHHHCCCCceEEeeCCCCCCCeEEEcCCCCCCchHHHHHHHHHHhhhhcccCceEEEEEEEEEEECCEEEECCCCC
Confidence 9999999999999999999999999999999999999999999999998764 347899999999999999999988
Q ss_pred CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC--CCceEEEE
Q 005960 180 TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALTGK 257 (667)
Q Consensus 180 ~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~--~~~~~~sk 257 (667)
...+.+++++.+++++.|++++.|.+++|++++|+.|.++|++++|.+|..|||||+||+|+|.+..... ......|+
T Consensus 157 ~~~l~i~ed~~~~~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~i~~~~~~~~~~~~~~~s~ 236 (338)
T cd01370 157 SGPLELREDPNQGIVVAGLTEHQPKSAEEILELLMKGNRNRTQEPTEANATSSRSHAVLQITVRQKDRTASINQQVRIGK 236 (338)
T ss_pred CCCceEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccccccCccCcceEEEEEEEEEEecCCCCCCcEEEEE
Confidence 8889999999999999999999999999999999999999999999999999999999999999876542 44567899
Q ss_pred EEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC---CCCCCCCchhhhhhhcccCCCccceEEEEeC
Q 005960 258 LNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK---PRVPYRESKLTRILQDSLGGTSHALMVACLN 334 (667)
Q Consensus 258 L~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~---~~IPYRdSkLTrLLqdsLgGnskt~mIa~vs 334 (667)
|+|||||||||..+++..|.+++|+..||+||.+|++||.+|+.++ .|||||+||||+||||+||||++|+||+|||
T Consensus 237 l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~~L~~~~~~~~~ipyR~SkLT~lL~d~Lggn~~t~~I~~vs 316 (338)
T cd01370 237 LSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINALVDGKKKNKHIPYRDSKLTRLLKDSLGGNCKTVMIANIS 316 (338)
T ss_pred EEEEECCCCccccccCCCCccccccchhhHHHHHHHHHHHHHHhccCCCCcCCCcCCHHHHHHHHhcCCCCeEEEEEEeC
Confidence 9999999999999999999999999999999999999999999887 8999999999999999999999999999999
Q ss_pred CC--ChhhhHHHHHHHHHhhhc
Q 005960 335 PG--EYQESVHTVSLAARSRHI 354 (667)
Q Consensus 335 P~--~~~ETlsTL~fA~rar~I 354 (667)
|+ +++||++||+||+|||+|
T Consensus 317 p~~~~~~eTl~TL~fa~ra~~I 338 (338)
T cd01370 317 PSSSHYEETHNTLKYANRAKNI 338 (338)
T ss_pred CchhhHHHHHHHHHHHHHhccC
Confidence 97 699999999999999986
No 5
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=100.00 E-value=4.4e-77 Score=639.81 Aligned_cols=314 Identities=33% Similarity=0.555 Sum_probs=279.1
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccc
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~p 105 (667)
.+|+|+|||||+...|... ....|+.+.+... .+....+ .+.|.||+||++++ +|++||+..++|
T Consensus 1 ~~i~V~vRvRP~~~~e~~~---~~~~~v~~~~~~~-------~~~~~~~----~~~f~FD~vf~~~~-~q~~vy~~~~~p 65 (337)
T cd01373 1 PAVKVVVRIRPPNEIEADG---GQGQCLKKLSSDT-------LVWHSHP----PRMFTFDHVADSNT-NQEDVFQSVGKP 65 (337)
T ss_pred CCeEEEEEcCcCChhhccc---CCCeEEEEcCCCc-------EEeeCCC----CcEEeCCeEeCCCC-CHHHHHHHHHHH
Confidence 3799999999999888632 2345666544322 2222222 45799999999986 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCC--------CCCChHHHHHHHHhhhcc--------CCceEEEEEEEEec
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEE--------RPGLMPLAMSKILSICQS--------TGSTAEISYYEVYM 169 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~--------~~GLipral~~LF~~~~~--------~~~~v~vS~~EIYn 169 (667)
+|+.+++|||+||||||||||||||||+|+.. ++|||||++++||+.++. ..+.|++||+||||
T Consensus 66 ~v~~~~~G~n~ti~aYGqTGSGKTyTm~G~~~~~~~~~~~~~Giipr~~~~Lf~~i~~~~~~~~~~~~~~v~~S~~EIyn 145 (337)
T cd01373 66 LVEDCLSGYNGSIFAYGQTGSGKTYTMMGPSSSDDESPHGLQGVIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYN 145 (337)
T ss_pred HHHHHhCCCceeEEEeCCCCCCceEEecCCCCccccccccCCCHHHHHHHHHHHHHHhhhhhcccCceEEEEEEEEeecC
Confidence 99999999999999999999999999999753 689999999999987643 24689999999999
Q ss_pred ceeeeccCCCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC
Q 005960 170 DRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD 249 (667)
Q Consensus 170 E~v~DLL~~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~ 249 (667)
|+|||||++....+.+++++.++++++|++++.|.|++|+.++|..|..+|++++|.+|..|||||+||+|+|.+.....
T Consensus 146 e~v~DLL~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~ll~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~ 225 (337)
T cd01373 146 EQITDLLDPTSRNLKIREDIKKGVYVENLTEEYVSSYEDVYQVLLKGLSNRKVAATSMNSESSRSHAVFTCTIESWEKKA 225 (337)
T ss_pred CEeeeCCCCCCCCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhccCcccCcCCCCCCCccEEEEEEEEEeecCC
Confidence 99999999988889999999999999999999999999999999999999999999999999999999999998765433
Q ss_pred C-CceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhcc----CCCCCCCCCchhhhhhhcccCCC
Q 005960 250 S-KAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNN----NKPRVPYRESKLTRILQDSLGGT 324 (667)
Q Consensus 250 ~-~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~----~~~~IPYRdSkLTrLLqdsLgGn 324 (667)
. .....|+|+|||||||||..++++.|.+++|+..||+||++|++||.+|++ +..|||||+||||+||||+||||
T Consensus 226 ~~~~~~~s~l~~VDLAGSEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~aL~~~~~~~~~~ipyR~SkLT~lL~dsLggn 305 (337)
T cd01373 226 SSTNIRTSRLNLVDLAGSERQKDDGAEGVRLKEAKNINKSLSTLGHVIMALVDVAHGKQRHVPYRDSKLTFLLRDSLGGN 305 (337)
T ss_pred CCCcEEEEEEEEEECCCCCcccccCCccHhhhhhccccHHHHHHHHHHHHHHhhccCCCCccCCcccHHHHHHHHhcCCC
Confidence 2 245679999999999999999999999999999999999999999999974 46899999999999999999999
Q ss_pred ccceEEEEeCCC--ChhhhHHHHHHHHHhhhc
Q 005960 325 SHALMVACLNPG--EYQESVHTVSLAARSRHI 354 (667)
Q Consensus 325 skt~mIa~vsP~--~~~ETlsTL~fA~rar~I 354 (667)
++|+||+||+|+ +++||++||+||+|||+|
T Consensus 306 s~t~~I~~vsP~~~~~~eTl~TL~fa~rak~I 337 (337)
T cd01373 306 AKTTIIANVSPSSKCFGETLSTLKFAQRAKLI 337 (337)
T ss_pred ceEEEEEEECCCcccHHHHHHHHHHHHHhhcC
Confidence 999999999997 699999999999999986
No 6
>PLN03188 kinesin-12 family protein; Provisional
Probab=100.00 E-value=6.4e-77 Score=689.22 Aligned_cols=319 Identities=32% Similarity=0.519 Sum_probs=282.3
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhcc
Q 005960 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVN 104 (667)
Q Consensus 25 ~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~ 104 (667)
.++|+|+|||||++..|.. ..++...+.+ .+. +. ...|.||+||++++ +|++||..++.
T Consensus 97 ds~VkV~VRVRPl~~~E~g------~~iV~~~s~d------sl~--I~------~qtFtFD~VFdp~a-TQedVFe~vv~ 155 (1320)
T PLN03188 97 DSGVKVIVRMKPLNKGEEG------EMIVQKMSND------SLT--IN------GQTFTFDSIADPES-TQEDIFQLVGA 155 (1320)
T ss_pred CCCeEEEEEcCCCCCccCC------CeeEEEcCCC------eEE--Ee------CcEEeCCeeeCCCC-CHHHHHHHHHH
Confidence 5799999999999987621 2233322221 122 21 24799999999985 88999999999
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccCC----------CCCCChHHHHHHHHhhhcc---------CCceEEEEEE
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGSE----------ERPGLMPLAMSKILSICQS---------TGSTAEISYY 165 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~----------~~~GLipral~~LF~~~~~---------~~~~v~vS~~ 165 (667)
|+|+.+++|||+||||||||||||||||+|+. .++|||||++++||+.+.. ..+.|++||+
T Consensus 156 PLV~svLdGyNaTIFAYGQTGSGKTYTM~G~~~~~~de~~s~~e~GIIPRaledLF~~I~e~q~k~~d~~~~y~V~vSyL 235 (1320)
T PLN03188 156 PLVENCLAGFNSSVFAYGQTGSGKTYTMWGPANGLLEEHLSGDQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFL 235 (1320)
T ss_pred HHHHHHhcCCcceeecCCCCCCCCCEeeCCCCCcccccccccccCCchHHHHHHHHHHHHhhhhhccccccceEEEEEEE
Confidence 99999999999999999999999999999963 4689999999999998742 3478999999
Q ss_pred EEecceeeeccCCCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEE
Q 005960 166 EVYMDRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTL 245 (667)
Q Consensus 166 EIYnE~v~DLL~~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~ 245 (667)
|||||+|||||++..+.+.|++++.++++|.|++++.|.+++|+.++|..|..+|++++|.+|..|||||+||+|+|.+.
T Consensus 236 EIYNEkI~DLLsp~~k~L~IRED~kgGv~VeGLTEv~V~S~ED~l~LL~~G~~nR~tasT~mN~~SSRSHaIFtI~Ves~ 315 (1320)
T PLN03188 236 EIYNEQITDLLDPSQKNLQIREDVKSGVYVENLTEEYVKTMKDVTQLLIKGLSNRRTGATSINAESSRSHSVFTCVVESR 315 (1320)
T ss_pred eeecCcceeccccccCCceEEEcCCCCeEeCCCeEEeCCCHHHHHHHHHHHhccceeccCCCCCccCCCceeEEEEEEEe
Confidence 99999999999998888999999999999999999999999999999999999999999999999999999999999865
Q ss_pred eC---CCCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhcc-----CCCCCCCCCchhhhhh
Q 005960 246 LG---DDSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNN-----NKPRVPYRESKLTRIL 317 (667)
Q Consensus 246 ~~---~~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~-----~~~~IPYRdSkLTrLL 317 (667)
.. ++......|+|+|||||||||...+++.|.+++|+..||+||++||+||.+|+. +..|||||+||||+||
T Consensus 316 ~k~~~dg~ss~r~SkLnLVDLAGSER~kkTga~G~RLkEA~~INKSLsaLGnVI~ALae~Sq~gk~~HIPYRDSKLTrLL 395 (1320)
T PLN03188 316 CKSVADGLSSFKTSRINLVDLAGSERQKLTGAAGDRLKEAGNINRSLSQLGNLINILAEISQTGKQRHIPYRDSRLTFLL 395 (1320)
T ss_pred ecccCCCCcceEEEEEEEEECCCchhccccCcccHHHHHHHHHhHHHHHHHHHHHHHHHhhccCCCCcCCCCcchHHHHH
Confidence 32 223345679999999999999999999999999999999999999999999975 3479999999999999
Q ss_pred hcccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhccccccccccc
Q 005960 318 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKV 364 (667)
Q Consensus 318 qdsLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~ 364 (667)
||+||||++|+|||||||+ +++||++||+||+||++|+|.+..|...
T Consensus 396 QDSLGGNSKTvMIa~VSPs~~~~eETLSTLrFAsRAK~IKNkpvvNe~~ 444 (1320)
T PLN03188 396 QESLGGNAKLAMVCAISPSQSCKSETFSTLRFAQRAKAIKNKAVVNEVM 444 (1320)
T ss_pred HHhcCCCceEEEEEecCCchhhHHHHHHHHHHHHHHhhcCccceeccch
Confidence 9999999999999999997 6899999999999999999988777654
No 7
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=100.00 E-value=3e-76 Score=635.11 Aligned_cols=314 Identities=35% Similarity=0.602 Sum_probs=282.2
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCC---------CCCCceeeeeceeeCCCCCchhH
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP---------DTIRSECYQLDSFFGQEDESVSK 97 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~---------~~~~~~~F~FD~Vf~~~~~sQ~~ 97 (667)
+|+|+|||||+...|.... ...||.+.+... +.+..... .....+.|.||+||++++ +|++
T Consensus 2 ~i~V~vRvRP~~~~E~~~~---~~~~v~~~~~~~------v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~-tq~~ 71 (345)
T cd01368 2 PVKVYLRVRPLSKDELESE---DEGCIEVINSTT------IQLHPPKGSAARKSERNGGQKETKFSFSKVFGPNT-TQKE 71 (345)
T ss_pred CEEEEEEeCcCCchhhccC---CCceEEEcCCCE------EEEeCCccccccccccccCCCceEeecCeEECCCC-CHHH
Confidence 7999999999999986433 566787766543 23322111 123467899999999986 8899
Q ss_pred HHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEEEecceeeeccC
Q 005960 98 IFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDLLE 177 (667)
Q Consensus 98 Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DLL~ 177 (667)
||+..+.|+|+.+++|||+||||||||||||||||+|+++++|||||++++||+.+.. +.|.+||+|||||+|||||+
T Consensus 72 vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~G~~~~~Gli~r~~~~lF~~~~~--~~v~~S~~EIyne~v~DLL~ 149 (345)
T cd01368 72 FFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQGSPGDGGILPRSLDVIFNSIGG--YSVFVSYVEIYNNYIYDLLE 149 (345)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEecCCCCCCchHHHHHHHHHHHHHh--eeEEEEEEEEeCCEeEeCCC
Confidence 9999999999999999999999999999999999999999999999999999998876 99999999999999999998
Q ss_pred CCC------CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC--
Q 005960 178 VKT------KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD-- 249 (667)
Q Consensus 178 ~~~------~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~-- 249 (667)
+.. +.+.++++.+++++++|++++.|.|++|+.++|..|..+|.+++|.+|..|||||+||+|+|.+.....
T Consensus 150 ~~~~~~~~~~~l~i~ed~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~N~~SSRSH~i~~i~v~~~~~~~~~ 229 (345)
T cd01368 150 DSPSSTKKRQSLRLREDHNGNMYVAGLTEVEVSSTEEAREVFKRGQKNRRVAGTKLNRESSRSHSVFTIKLVQAPGDSDG 229 (345)
T ss_pred CccccccCCCceEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHhhccceeccccCcCCCCCceEEEEEEEEEeccCccc
Confidence 754 368999999999999999999999999999999999999999999999999999999999998865432
Q ss_pred -----CCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhcc------CCCCCCCCCchhhhhhh
Q 005960 250 -----SKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNN------NKPRVPYRESKLTRILQ 318 (667)
Q Consensus 250 -----~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~------~~~~IPYRdSkLTrLLq 318 (667)
......|+|+|||||||||..++++.|.+++|+..||+||++|++||.+|.+ +..|||||+||||+|||
T Consensus 230 ~~~~~~~~~~~s~l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~aL~~vi~aL~~~~~~~~~~~~iPyR~SkLT~lL~ 309 (345)
T cd01368 230 DVDQDKDQITVSQLSLVDLAGSERTSRTQNTGERLKEAGNINTSLMTLGKCIEVLRENQLSGSTNKMVPYRDSKLTHLFQ 309 (345)
T ss_pred ccccCCCceEEEEEEEEecccccccccccccchhhhhhhhhhHHHHHHHHHHHHHHhhhcccCCCCcCCCcCCHHHHHHH
Confidence 2455679999999999999999999999999999999999999999999986 46899999999999999
Q ss_pred cccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhh
Q 005960 319 DSLGGTSHALMVACLNPG--EYQESVHTVSLAARSR 352 (667)
Q Consensus 319 dsLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar 352 (667)
|+||||++|+||+||+|+ +++||++||+||++|+
T Consensus 310 ~~l~g~s~t~~I~~vsp~~~~~~eTl~tL~fa~~a~ 345 (345)
T cd01368 310 NYFDGEGKARMIVNVNPCASDYDETLHVMKFSAIAQ 345 (345)
T ss_pred HhcCCCCeEEEEEEeCCchhhHHHHHHHHHHHHhcC
Confidence 999999999999999997 6999999999999985
No 8
>KOG0242 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=9.1e-77 Score=679.98 Aligned_cols=348 Identities=39% Similarity=0.607 Sum_probs=298.3
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEe--cCCCCCCceeeeeceeeCCCCCchhHHHHh
Q 005960 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYL--KDPDTIRSECYQLDSFFGQEDESVSKIFYS 101 (667)
Q Consensus 24 ~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~--~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~ 101 (667)
...+|.|+|||||+++.|...+ +...|..+.|.. +.... ..+.......|.||+||+++. +|++||+.
T Consensus 4 ~~~~i~V~vrvRP~~~~~~~~~--~~~~~~~~~d~~-------~~~~~~~~~~~~~~~~~y~FD~VF~~~~-t~~~VYe~ 73 (675)
T KOG0242|consen 4 TEEKILVSVRVRPLNEREDARG--DRSDWHCINDTT-------LFKRVTKSLPEKSKPEKYEFDRVFGEES-TQEDVYER 73 (675)
T ss_pred ccceeEEEEEeCCCCccccccC--CccceEecCCce-------eEeeccccccccccccceeeeeecCCCC-CHHHHHHh
Confidence 3468999999999998853222 222233332221 11111 111121246799999999987 67999999
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccC---CceEEEEEEEEecceeeeccCC
Q 005960 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQST---GSTAEISYYEVYMDRCYDLLEV 178 (667)
Q Consensus 102 ~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~---~~~v~vS~~EIYnE~v~DLL~~ 178 (667)
.++|+|+++++|||+||||||||||||||||.|..++|||||+++.+||+.+... .+.+.|||+|||||.|+|||++
T Consensus 74 ~tkpiv~~~l~G~N~TVFAYG~TgSGKTyTM~G~~~~PGii~la~~dif~~I~~~~~r~f~v~vSYlEIYNE~I~DLL~~ 153 (675)
T KOG0242|consen 74 TTKPLLLSVLEGFNATVFAYGQTGSGKTYTMSGSEDDPGIIPLAMKDIFEKIDKSGEREFSVRVSYLEIYNERIRDLLNP 153 (675)
T ss_pred ccHHHHHHHhcCcccceeeecCCCCCCceEEeccCCCCCeeehHHHHHHHHHHhcCCceeEEEEEEEEEeccccccccCC
Confidence 9999999999999999999999999999999999999999999999999998764 4899999999999999999999
Q ss_pred CCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEE
Q 005960 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (667)
Q Consensus 179 ~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL 258 (667)
+...+.++||+.++++|.||++..|.|.+++..+|..|..+|+++.|.+|..|||||+||+|.|.+...... . ..++|
T Consensus 154 ~~~~L~irED~~~gi~V~gL~e~~v~s~e~~~~ll~~g~~~R~~g~T~~N~~SSRSHaIl~i~i~s~~~~~~-~-~~s~L 231 (675)
T KOG0242|consen 154 DGGDLRLREDSEGGIVVPGLTEETVSSREELLELLQKGNKNRTTGETNLNEQSSRSHAILRITVESRGREAS-S-RVSKL 231 (675)
T ss_pred CCCCceEeEcCCCCEEecCCeeecCCCHHHHHHHHHHhhccCcccccccccccchhhheeeEEEEecccccc-c-hhhee
Confidence 999999999999999999999999999999999999999999999999999999999999999998765443 2 67899
Q ss_pred EEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccC--CCCCCCCCchhhhhhhcccCCCccceEEEEeCCC
Q 005960 259 NLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNN--KPRVPYRESKLTRILQDSLGGTSHALMVACLNPG 336 (667)
Q Consensus 259 ~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~--~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~ 336 (667)
+|||||||||..++++.|.|++|+.+||+||++||+||.+|.++ ..||||||||||||||++||||++|+|||||+|+
T Consensus 232 ~lIDLAGSERas~T~~~G~RlkEG~~INrSLlaLgtVI~~Ls~~~~~~hipYRDSKLTRiLq~sLgGn~rt~~I~tisp~ 311 (675)
T KOG0242|consen 232 NLIDLAGSERASRTGNEGVRLKEGAHINRSLLALGTVINKLSEGKRPRHIPYRDSKLTRLLQDSLGGNARTAIIATISPS 311 (675)
T ss_pred hhhhhhhhhhhhhhhccceeccccchhhHHHHHHHHHHHHHccccccCCCCccccHHHHhchhhcCCCccEEEEEEeCch
Confidence 99999999999999999999999999999999999999999987 4689999999999999999999999999999998
Q ss_pred --ChhhhHHHHHHHHHhhhcccccccccccCCchhhhHH---HHHHHHHHHh
Q 005960 337 --EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDM---EAKLRAWLES 383 (667)
Q Consensus 337 --~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~d~---~~~l~~~l~~ 383 (667)
+|+||.+||+||+||++|+|.+..|.......+.... ...|+..++.
T Consensus 312 ~~~~~eT~nTL~fAsrak~i~~~~~~n~~~~~~~~~~~~~~~i~~l~~e~~~ 363 (675)
T KOG0242|consen 312 SSHYEETKNTLKFASRAKEITTKAQVNVILSDKALLKYLQREIAELEAELER 363 (675)
T ss_pred hhHHHHHHHHHHHHHHhhhcccccccceecchhhhhHHHHHHHHHHHHHHHh
Confidence 6999999999999999999988877665554433322 2444444444
No 9
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=100.00 E-value=2.5e-76 Score=639.42 Aligned_cols=326 Identities=36% Similarity=0.577 Sum_probs=289.7
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhc
Q 005960 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEV 103 (667)
Q Consensus 24 ~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v 103 (667)
..++|+|+||+||++..|....... ..|. .. .+-++.+...+- .+.|.||+||.+++ +|++||..++
T Consensus 5 ~~~~IkV~cR~rP~n~~E~~~~~~~-i~~~--~~-------~~~~v~~~~~~~--~~~y~FDrVF~pna-tQe~Vy~~~a 71 (607)
T KOG0240|consen 5 AECSIKVVCRFRPLNGLENNLGSKF-IDCF--EN-------GENTVVLETTKE--TKTYVFDRVFSPNA-TQEDVYEFAA 71 (607)
T ss_pred CCCceEEEEEeecCCchhhhcCCcC-ccCC--CC-------CcceEEEecccc--cccceeeeecCCCc-cHHHHHHHHH
Confidence 4578999999999998886544221 1111 11 023444443322 26899999999986 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeecc
Q 005960 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLL 176 (667)
Q Consensus 104 ~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL 176 (667)
.|+|++|+.|||+||||||||||||||||.|... ..||+||++++||..+.. ..|.|+|||||||+|+++|||
T Consensus 72 ~~Iv~dVL~GYNGTvfaYGqT~sGKTytm~G~~~d~~~~GIipRi~~diF~~Iys~~~n~efhVkVsy~EIYmEKi~DLL 151 (607)
T KOG0240|consen 72 KPIVDDVLLGYNGTVFAYGQTGSGKTYTMEGIGHDPEEMGIIPRILNDIFDHIYSMEENLEFHVKVSYFEIYMEKIRDLL 151 (607)
T ss_pred HHHHHHHhcccceeEEEecCCCCCcceeecccCCChhhcCcHHHHHHHHHHHHhcCcccceEEEEEEeehhhhhHHHHHh
Confidence 9999999999999999999999999999999876 469999999999999865 357899999999999999999
Q ss_pred CCCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEE
Q 005960 177 EVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTG 256 (667)
Q Consensus 177 ~~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~s 256 (667)
++....+.+++|.++.++|+|+++..|.++++++++++.|..+|+++.|+||.+|||||+||+|+|.+.+.+.. ....|
T Consensus 152 ~~~k~nlsvheDK~~v~~vkG~t~~~v~s~d~v~~~i~~g~~nr~va~t~mn~~sSRSHsIF~i~VkQ~n~e~~-~~~~g 230 (607)
T KOG0240|consen 152 DPEKTNLSVHEDKNRVPYVKGVTERFVSSPDEVLDVIDEGKSNRHVAVTNMNEHSSRSHSIFLIHVKQENVEDK-RKLSG 230 (607)
T ss_pred CcccCCceeecccCCCceecCceeEEecCHHHHHHHHhcccccchhhhccccccccccceEEEEEEEeccccch-hhccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999876544 35789
Q ss_pred EEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccC-CCCCCCCCchhhhhhhcccCCCccceEEEEeCC
Q 005960 257 KLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNN-KPRVPYRESKLTRILQDSLGGTSHALMVACLNP 335 (667)
Q Consensus 257 kL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~-~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP 335 (667)
||.||||||||+..++|+.|.-+.|+.+||+||.|||+||+||+++ ..|||||||||||||||+||||+||.+|.|++|
T Consensus 231 kLyLVDLaGSEkvsKtga~g~vleEaK~INkSLsaLgnvI~aLa~g~~shipYRDSKLTRILqdSLGGNsRTtlIi~csP 310 (607)
T KOG0240|consen 231 KLYLVDLAGSEKVSKTGAEGAVLEEAKNINKSLSALGNVINALAEGPKSHIPYRDSKLTRILQDSLGGNSRTTLIICCSP 310 (607)
T ss_pred cEEEEEcccccccCCCCccchhHHHHhhhhhhHHHHHHHHHHHhcCCCCCCcchhhHHHHHHHHHhCCCcceEEEEecCC
Confidence 9999999999999999999999999999999999999999999998 789999999999999999999999999999999
Q ss_pred CC--hhhhHHHHHHHHHhhhcccccccccc
Q 005960 336 GE--YQESVHTVSLAARSRHISNTLPSAQK 363 (667)
Q Consensus 336 ~~--~~ETlsTL~fA~rar~I~N~~~~~~~ 363 (667)
+. -.||.+||+|+.||+.|+|.+..|..
T Consensus 311 ss~n~~ET~STl~fg~rak~ikN~v~~n~e 340 (607)
T KOG0240|consen 311 SSLNEAETKSTLRFGNRAKTIKNTVWVNLE 340 (607)
T ss_pred ccccccccccchhhccccccccchhhhhhH
Confidence 85 46999999999999999997655543
No 10
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=100.00 E-value=9.1e-75 Score=626.27 Aligned_cols=325 Identities=34% Similarity=0.535 Sum_probs=288.9
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCC---CCCCceeeeeceeeCCCC------Cchh
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP---DTIRSECYQLDSFFGQED------ESVS 96 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~---~~~~~~~F~FD~Vf~~~~------~sQ~ 96 (667)
++|+|+|||||++..|...+ +..++.+.+. .+++..... .......|.||+||++++ .+|+
T Consensus 1 ~~i~V~vRvRP~~~~E~~~~---~~~~~~~~~~-------~v~v~~~~~~~~~~~~~~~f~FD~vf~~~~~~~~~~~tq~ 70 (356)
T cd01365 1 ANVKVAVRVRPFNSREKNRG---SKCIVQMPGK-------VTTLKNPKAADATRKKPKSFSFDHSYWSHDSEDPHYASQE 70 (356)
T ss_pred CCEEEEEEeCcCChhhhccC---CceEEEECCC-------EEEEEcCCcccccccCceEEECCeEecccCCCCCCCCCHH
Confidence 47999999999999887654 4567766542 223332211 123467899999999861 3789
Q ss_pred HHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc-----CCceEEEEEEEEecce
Q 005960 97 KIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYMDR 171 (667)
Q Consensus 97 ~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~~v~vS~~EIYnE~ 171 (667)
+||+..+.|+|+++++|||+||||||||||||||||+|+..++|||||++++||+.++. ..+.|++||+|||+|+
T Consensus 71 ~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~G~~~~~Gli~r~~~~Lf~~~~~~~~~~~~~~v~~S~~EIy~e~ 150 (356)
T cd01365 71 DVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMGYKEEKGIIPRLCEELFQRIESKKEQNLSYEVEVSYMEIYNEK 150 (356)
T ss_pred HHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEECCe
Confidence 99999999999999999999999999999999999999999999999999999998754 3568999999999999
Q ss_pred eeeccCCCC---CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCC
Q 005960 172 CYDLLEVKT---KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD 248 (667)
Q Consensus 172 v~DLL~~~~---~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~ 248 (667)
|||||++.. ..+.+++++.++++++|++++.|.|++|+.++|..|.++|..++|.+|..|||||+||+|+|.+...+
T Consensus 151 v~DLL~~~~~~~~~l~i~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~l~v~~~~~~ 230 (356)
T cd01365 151 VRDLLNPKKKNKGNLKVREHPVLGPYVEDLSKVAVTSYEDIQNLLEEGNKSRTTASTNMNDTSSRSHAVFTIVLTQKKLD 230 (356)
T ss_pred eeeCCCCCccCCcCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhcccccCCCCCCCcCCceEEEEEEEEEEecc
Confidence 999999874 57899999999999999999999999999999999999999999999999999999999999887554
Q ss_pred ---CCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccC--------CCCCCCCCchhhhhh
Q 005960 249 ---DSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNN--------KPRVPYRESKLTRIL 317 (667)
Q Consensus 249 ---~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~--------~~~IPYRdSkLTrLL 317 (667)
.......|+|+||||||+||..+++..+.+++|+..||+||++|++||.+|... ..|||||+||||+||
T Consensus 231 ~~~~~~~~~~s~l~~VDLAGsEr~~~~~~~~~~~~E~~~IN~SL~aL~~vi~~l~~~~~~~~~~~~~~ipyR~SkLT~lL 310 (356)
T cd01365 231 KETDLTTEKVSKISLVDLAGSERASSTGAEGDRLKEGSNINKSLTTLGKVISALADNSSAKSKKKSSFIPYRDSVLTWLL 310 (356)
T ss_pred cCCCCCceEEEEEEeeecccccccccccccchhhHHHHHHhHHHHHHHHHHHHHHhcccccccCCCCcCCCcCcHHHHHH
Confidence 245567899999999999999999999999999999999999999999999764 479999999999999
Q ss_pred hcccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhccccccc
Q 005960 318 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPS 360 (667)
Q Consensus 318 qdsLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~ 360 (667)
||+|||+++|+||+||+|. +++||++||+||+|+++|+|.+..
T Consensus 311 ~~~lgg~s~t~~I~~vsp~~~~~~eTl~tL~fa~~~~~i~~~~~~ 355 (356)
T cd01365 311 KENLGGNSKTAMIATISPADINYEETLSTLRYADRAKKIVNVAVV 355 (356)
T ss_pred HHhcCCCceEEEEEEeCCCcccHHHHHHHHHHHHHHhhccCcccc
Confidence 9999999999999999997 799999999999999999996543
No 11
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=100.00 E-value=5.6e-74 Score=611.57 Aligned_cols=314 Identities=50% Similarity=0.802 Sum_probs=284.9
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCC-CCCceeeeeceeeCCCCCchhHHHHhhccc
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD-TIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~-~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~p 105 (667)
+|+|+|||||+.+.|.. ...|+.+.+.+.. ....+.+.++. ....+.|.||+||++++ +|++||+..+.|
T Consensus 1 ~i~V~vRvRP~~~~e~~-----~~~~v~~~~~~~~---~~~~v~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vy~~~~~p 71 (319)
T cd01376 1 NVRVVVRVRPFLDCEED-----SSSCVRGIDSDQG---QAKSVEIENPRNRGETKKYQFDAFYGTEC-TQEDIFSREVKP 71 (319)
T ss_pred CcEEEEEeCcCCccccC-----CCceEEEeCCCCC---cceEEEEeCCCCCCCccEEecCeEECCCC-CHHHHHHHHHHH
Confidence 58999999999988832 3456766554321 22345555543 33467899999999986 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccC--CceEEEEEEEEecceeeeccCCCCCce
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQST--GSTAEISYYEVYMDRCYDLLEVKTKEI 183 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~--~~~v~vS~~EIYnE~v~DLL~~~~~~l 183 (667)
+|+.+++|||+||||||||||||||||+|+..++|||||++++||+.++.. .+.|++||+|||+|+++|||++....+
T Consensus 72 lv~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~~~~l 151 (319)
T cd01376 72 IVPHLLSGQNATVFAYGSTGAGKTHTMLGDPNEPGLIPRTLSDLLRMGRKQAWTGAFSMSYYEIYNEKVYDLLEPAKKEL 151 (319)
T ss_pred HHHHHhCCCceEEEEECCCCCCCcEEEeCCcCccchHHHHHHHHHHHHhhccccceEEEEEEEEECCEeeEccCCCCCCc
Confidence 999999999999999999999999999999999999999999999987654 679999999999999999999988889
Q ss_pred eeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEEEEEEC
Q 005960 184 SILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDL 263 (667)
Q Consensus 184 ~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL~fVDL 263 (667)
.+++++.+++++.|++++.|.+++|+.++|..|.++|..++|.+|..|||||+||+|+|.+... .....|+|+||||
T Consensus 152 ~i~~~~~~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~---~~~~~s~l~~VDL 228 (319)
T cd01376 152 PIREDKDGNILIVGLTSKPIKSMAEFEEAYIPASKNRTVAATKLNDNSSRSHAVLRIKVTQPAS---NIQLEGKLNLIDL 228 (319)
T ss_pred eEEEcCCCCEEeeCCEEEEeCCHHHHHHHHHHHHhhhccccCcCCCccCCCeEEEEEEEEEECC---CceEEEEEEEEEC
Confidence 9999999999999999999999999999999999999999999999999999999999987643 2357899999999
Q ss_pred CCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCccceEEEEeCCC--Chhhh
Q 005960 264 AGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG--EYQES 341 (667)
Q Consensus 264 AGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~--~~~ET 341 (667)
||+|+..+++..|.+++|+..||+||.+|++||.+|..+..|||||+|+||+||||+||||++|+||+||+|. +++||
T Consensus 229 AGsE~~~~~~~~g~~~~e~~~iN~Sl~~L~~vi~aL~~~~~~ipyr~S~LT~lL~~~L~g~s~t~~i~~vsp~~~~~~eT 308 (319)
T cd01376 229 AGSEDNRRTGNEGIRLKESAAINSSLFVLSKVVDALNKGLPRIPYRESKLTRLLQDSLGGGSRCIMVANIAPERSFYQDT 308 (319)
T ss_pred CCCCcccccCCccchhhhhhhhhhhHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhcCCCccEEEEEEeCCchhhHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999998 79999
Q ss_pred HHHHHHHHHhh
Q 005960 342 VHTVSLAARSR 352 (667)
Q Consensus 342 lsTL~fA~rar 352 (667)
|+||+||+|||
T Consensus 309 l~TL~fa~r~~ 319 (319)
T cd01376 309 LSTLNFASRSK 319 (319)
T ss_pred HHHHHHHHhhC
Confidence 99999999986
No 12
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=100.00 E-value=6.4e-74 Score=618.77 Aligned_cols=328 Identities=37% Similarity=0.615 Sum_probs=290.0
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccc
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~p 105 (667)
.+|+|+|||||+...|.... ...++.+.+... .+.+.-..........|.||+||++++ +|++||+..+.|
T Consensus 2 ~~i~V~vRvRP~~~~e~~~~---~~~~i~~~~~~~-----~i~~~~~~~~~~~~~~f~Fd~vf~~~~-~q~~vy~~~~~p 72 (352)
T cd01364 2 SNIQVVVRCRPRNSRERKEK---SSVVVEVSGSSK-----EIIVSTGGADKQSTKTYTFDKVFGPEA-DQIEVYSQVVSP 72 (352)
T ss_pred CCEEEEEEcCcCCccccccC---CCeEEEEcCCCc-----EEEEcCCCcccccceeEeccccCCCCC-CHHHHHHHHHHH
Confidence 58999999999999885433 456777755422 222222211233456899999999986 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCC-----------CCCCChHHHHHHHHhhhcc--CCceEEEEEEEEeccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSE-----------ERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMDRC 172 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~-----------~~~GLipral~~LF~~~~~--~~~~v~vS~~EIYnE~v 172 (667)
+|+++++|||+||||||||||||||||+|+. +++|||||++++||+.++. ..+.|++||+|||+|+|
T Consensus 73 lv~~~~~G~n~~i~ayG~tgSGKTyTl~G~~~~~~~~~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e~v 152 (352)
T cd01364 73 ILDEVLMGYNCTIFAYGQTGTGKTYTMEGDRTDNKGSTWELSPHAGIIPRALYQLFEKLESQNTEYSVKVSYLELYNEEL 152 (352)
T ss_pred HHHHHhCCCeEEEEECCCCCCCCcEEecCCCcccccccccccccCCchHHHHHHHHHHHHhccceeEEEEEEEEeeCCee
Confidence 9999999999999999999999999999974 3489999999999998865 56789999999999999
Q ss_pred eeccCCC---CCceeeeeC--CCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeC
Q 005960 173 YDLLEVK---TKEISILDD--KDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLG 247 (667)
Q Consensus 173 ~DLL~~~---~~~l~i~ed--~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~ 247 (667)
+|||++. .+++.++++ ..+++++.|++++.|.+++|+.++|+.|.++|+.++|.+|..|||||+||+|+|.+...
T Consensus 153 ~DLL~~~~~~~~~l~i~e~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRSH~i~~i~i~~~~~ 232 (352)
T cd01364 153 FDLLSSESDLNKPLRIFDDTNNKGGVVIQGLEEITVNNANEGLKLLEKGSAKRKTAATLMNDQSSRSHSIFSITIHIKET 232 (352)
T ss_pred eeCCCCccccCccceEEeccCcCCCEEeCCcEEEEeCCHHHHHHHHHHHhhhcccccCcCCCCCCCCceEEEEEEEEecc
Confidence 9999986 567999999 68999999999999999999999999999999999999999999999999999987654
Q ss_pred C--CCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCc
Q 005960 248 D--DSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTS 325 (667)
Q Consensus 248 ~--~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGns 325 (667)
. +......|+|+||||||+|+..+.++.+.+++|+..||+||.+|++||.+|..++.|||||+||||+||+|+||||+
T Consensus 233 ~~~~~~~~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~iN~SL~~L~~vi~al~~~~~~vpyR~S~LT~lL~~~Lgg~s 312 (352)
T cd01364 233 TISGEELVKIGKLNLVDLAGSENIGRSGAENKRAREAGNINQSLLTLGRVINALVEKSPHIPYRESKLTRLLQDSLGGRT 312 (352)
T ss_pred CCCCCccEEEEEEEEEECCCccccccccCcchhhHHHhhhhHHHHHHHHHHHHHHcCCCCCCCcccHHHHHHHHhcCCCc
Confidence 3 23344579999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceEEEEeCCC--ChhhhHHHHHHHHHhhhccccccccc
Q 005960 326 HALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQ 362 (667)
Q Consensus 326 kt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~ 362 (667)
+|+||+||+|+ +++||++||+||+|+++|+|.|..|+
T Consensus 313 ~t~~I~~vsp~~~~~~eTl~TL~~a~~~~~i~n~P~~n~ 351 (352)
T cd01364 313 KTSIIATISPASINLEETLSTLEYAHRAKNIKNKPEVNQ 351 (352)
T ss_pred eEEEEEEeCCCcccHHHHHHHHHHHHHHhhccCccccCC
Confidence 99999999997 69999999999999999999876664
No 13
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=100.00 E-value=4e-74 Score=613.44 Aligned_cols=312 Identities=37% Similarity=0.591 Sum_probs=278.0
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCC-----CCCCceeeeeceeeCCCCCchhHHHH
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-----DTIRSECYQLDSFFGQEDESVSKIFY 100 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~-----~~~~~~~F~FD~Vf~~~~~sQ~~Vf~ 100 (667)
.+|+|+|||||+.+.|.... ..+++.+.+... +.+.-... .......|.||+||++++ +|++||+
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~------v~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vf~ 70 (322)
T cd01367 1 MKITVAVRKRPLNDKELSKG---ETDVVSCESNPT------VTVHEPKTKVDLTKYIEKHTFRFDYVFDEAV-TNEEVYR 70 (322)
T ss_pred CCeEEEEEcCcCChhhhccC---CceEEEECCCCE------EEEecCccccccccccCCceEecceEECCCC-CHHHHHH
Confidence 47999999999999886533 344555544311 22221110 111256899999999986 7899999
Q ss_pred hhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc--CCceEEEEEEEEecceeeeccCC
Q 005960 101 SEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMDRCYDLLEV 178 (667)
Q Consensus 101 ~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~--~~~~v~vS~~EIYnE~v~DLL~~ 178 (667)
..++|+|+.+++|||+||||||||||||||||+|+.+++||+||++++||+.++. ..+.|++||+|||+|+++|||++
T Consensus 71 ~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Glipr~~~~lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~ 150 (322)
T cd01367 71 STVKPLIPHVFEGGVATCFAYGQTGSGKTYTMLGDENQEGLYALAARDIFRLLAQPNDDLGVTVSFFEIYGGKLFDLLND 150 (322)
T ss_pred HHHHHHHHHHhCCCceEEEeccCCCCCCceEecCcCCcCccHHHHHHHHHHHHhccccccEEEEEEEeeecCchhhhccC
Confidence 9999999999999999999999999999999999999999999999999998876 46899999999999999999987
Q ss_pred CCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEE
Q 005960 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (667)
Q Consensus 179 ~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL 258 (667)
.+.+.+++++.+++++.|++++.|.|++|+.++|+.|..+|..++|.+|..|||||+||+|+|.+... ....|+|
T Consensus 151 -~~~l~i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~----~~~~s~l 225 (322)
T cd01367 151 -RKRLSVLEDGKGNVQIVGLTEKPVTSVDELLELIESGNSLRTTGSTGANDQSSRSHAILQIILKNKKL----NKLLGKL 225 (322)
T ss_pred -ccceeEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHhcccccccCcCCCCcccceEEEEEEEEEecC----CeeEEEE
Confidence 56799999999999999999999999999999999999999999999999999999999999987653 4568999
Q ss_pred EEEECCCCCCccccc-cccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCccceEEEEeCCC-
Q 005960 259 NLIDLAGNEDNRRTC-NEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG- 336 (667)
Q Consensus 259 ~fVDLAGSEr~~~t~-~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~- 336 (667)
+||||||||+..+.+ ..+.+++|+..||+||.+|++||.+|+.++.||||||||||+||||+||||++|+||+||+|.
T Consensus 226 ~~vDLAGsE~~~~~~~~~~~~~~e~~~IN~SL~~L~~vi~al~~~~~~iPyRdSkLT~lL~~~L~g~~~t~~I~~vsp~~ 305 (322)
T cd01367 226 SFIDLAGSERGADTSEHDRQTRKEGAEINKSLLALKECIRALASNKAHVPFRGSKLTQVLRDSFIGNSKTVMIATISPSA 305 (322)
T ss_pred EEeecCCccccccccccchhhHHhHhHHhHHHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhhCCCCeEEEEEEeCCch
Confidence 999999999988765 468899999999999999999999999999999999999999999999999999999999997
Q ss_pred -ChhhhHHHHHHHHHhh
Q 005960 337 -EYQESVHTVSLAARSR 352 (667)
Q Consensus 337 -~~~ETlsTL~fA~rar 352 (667)
+++||++||+||+|+|
T Consensus 306 ~~~~eTl~tL~fa~r~k 322 (322)
T cd01367 306 SSCEHTLNTLRYADRVK 322 (322)
T ss_pred hhHHHHHHHHHHHHhhC
Confidence 7999999999999985
No 14
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=100.00 E-value=1.9e-73 Score=610.83 Aligned_cols=318 Identities=35% Similarity=0.582 Sum_probs=284.9
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCC---CCCceeeeeceeeCCCCCchhHHHHhh
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD---TIRSECYQLDSFFGQEDESVSKIFYSE 102 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~---~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~ 102 (667)
.+|+|+|||||+++.|.... ...++.+.+... ++.+.++. ....+.|.||+||++++ +|++||+..
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~-------~v~~~~~~~~~~~~~~~f~fd~vf~~~~-~q~~vy~~~ 69 (333)
T cd01371 1 ENVKVVVRCRPLNKREKSEG---APEIVGVDENRG-------QVTVHNPKADAKEPPKVFTFDAVYDPNS-TQEDVYNET 69 (333)
T ss_pred CCeEEEEEcCcCChhhhhcC---CCeEEEEcCCCC-------EEEEeCCcccccCCCceeeeccccCCCc-cHHHHHHHH
Confidence 37999999999999886543 345566544322 33333332 23467899999999986 889999999
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCChHHHHHHHHhhhcc---CCceEEEEEEEEecceeeecc
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLL 176 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL 176 (667)
+.|+|+++++|||+||||||||||||||||+|+.. ++|||||++++||+.+.. ..+.|.+||+|||+|+|+|||
T Consensus 70 ~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL 149 (333)
T cd01371 70 ARPLVDSVLEGYNGTIFAYGQTGTGKTFTMEGVREPPELRGIIPNSFAHIFGHIAKAENVQFLVRVSYLEIYNEEVRDLL 149 (333)
T ss_pred HHHHHHHHhCCCceeEEecCCCCCCCcEeecCCCCcccccchHHHHHHHHHHHHhhccCccEEEEEEEEEeeCCeeeeCC
Confidence 99999999999999999999999999999999887 899999999999998754 457899999999999999999
Q ss_pred CCCC-CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCC--CCCce
Q 005960 177 EVKT-KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD--DSKAA 253 (667)
Q Consensus 177 ~~~~-~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~--~~~~~ 253 (667)
.+.. +.+.+++++.++++|.|++++.|.+++|+..+|..|.++|..+.|.+|..|||||+||+|+|.+.... +....
T Consensus 150 ~~~~~~~l~i~~~~~~~~~v~~l~~~~v~s~~~~~~~l~~g~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~ 229 (333)
T cd01371 150 GKDQKKKLELKERPDRGVYVKDLSMFVVKNAEEMDKLMTLGNKNRSVGATNMNEDSSRSHSIFTITIECSEKGEDGENHI 229 (333)
T ss_pred CCCCCCceeEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhhCccccccccCCCCCCcEEEEEEEEEEeccCCCCCcE
Confidence 9876 57899999999999999999999999999999999999999999999999999999999999887653 34556
Q ss_pred EEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCC-CCCCCCchhhhhhhcccCCCccceEEEE
Q 005960 254 LTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKP-RVPYRESKLTRILQDSLGGTSHALMVAC 332 (667)
Q Consensus 254 ~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~-~IPYRdSkLTrLLqdsLgGnskt~mIa~ 332 (667)
..|+|+||||||+||..+++..+.+++|+..||+||.+|++||.+|.+++. |||||+||||+||+|+|||+++|+||+|
T Consensus 230 ~~s~L~~VDLAGsEr~~~~~~~~~~~~E~~~iN~sL~~L~~vi~al~~~~~~~ipyR~SkLT~lL~~~l~g~s~t~~I~~ 309 (333)
T cd01371 230 RVGKLNLVDLAGSERQSKTGATGDRLKEATKINLSLSALGNVISALVDGKSTHIPYRDSKLTRLLQDSLGGNSKTVMCAN 309 (333)
T ss_pred EEEEEEEEECCCCCcccccCCchhhhHhHhhhhhHHHHHHHHHHHHHhCCCCcCCCccCHHHHHHHHhcCCCceEEEEEE
Confidence 679999999999999999999999999999999999999999999999876 9999999999999999999999999999
Q ss_pred eCCC--ChhhhHHHHHHHHHhhhc
Q 005960 333 LNPG--EYQESVHTVSLAARSRHI 354 (667)
Q Consensus 333 vsP~--~~~ETlsTL~fA~rar~I 354 (667)
|+|. +++||++||+||+|||+|
T Consensus 310 vsP~~~~~~eTl~TL~fa~r~r~I 333 (333)
T cd01371 310 IGPADYNYDETLSTLRYANRAKNI 333 (333)
T ss_pred eCCccccHHHHHHHHHHHHHhhcC
Confidence 9997 699999999999999986
No 15
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=100.00 E-value=1.6e-72 Score=601.70 Aligned_cols=314 Identities=36% Similarity=0.587 Sum_probs=284.7
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccc
Q 005960 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (667)
Q Consensus 26 ~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~p 105 (667)
.+|+|+|||||+...|...+ ..+|+.+.+.. ++.+.++ .....|.||+||++++ +|++||+..++|
T Consensus 2 ~~i~V~vRvRP~~~~e~~~~---~~~~v~~~~~~--------~v~~~~~--~~~~~f~FD~vf~~~~-~q~~vy~~~~~~ 67 (325)
T cd01369 2 CNIKVVCRFRPLNEKEELRG---SKSIVKFPGED--------TVSIAGS--DDGKTFSFDRVFPPNT-TQEDVYNFVAKP 67 (325)
T ss_pred CCeEEEEEcCcCChhhhccC---CceEEEEcCCC--------EEEecCC--CCceEEEcCeEECCCC-CHHHHHHHHHHH
Confidence 48999999999998885433 46677775542 2333332 2346899999999986 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeeccCC
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLEV 178 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~~ 178 (667)
+|+.+++|+|+||||||+|||||||||+|+.. ++||+||++++||+.+.. ..+.|.+||+|||+|+++|||++
T Consensus 68 ~v~~~~~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~Giipr~~~~Lf~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~ 147 (325)
T cd01369 68 IVDDVLNGYNGTIFAYGQTGSGKTYTMEGPPGDPELKGIIPRIVHDIFEHISSMDENLEFHVKVSYLEIYMEKIRDLLDV 147 (325)
T ss_pred HHHHHHcCccceEEEeCCCCCCceEEecCCCCccccCChHHHHHHHHHHHHhhccCCceEEEEEEEEEEECCChhhcccC
Confidence 99999999999999999999999999999987 899999999999998754 35789999999999999999999
Q ss_pred CCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEE
Q 005960 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (667)
Q Consensus 179 ~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL 258 (667)
....+.++++..++++++|++++.|.|++|+..+|..|.++|+.++|.+|..|||||+||+|+|.+.... ......|+|
T Consensus 148 ~~~~l~i~~~~~~~~~v~gl~~~~v~s~~e~~~~i~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~-~~~~~~s~l 226 (325)
T cd01369 148 SKDNLQVHEDKNRGVYVKGLTERFVSSPEEVLEVINEGKSNRAVASTNMNEESSRSHSIFLITLKQENVE-TGSKKRGKL 226 (325)
T ss_pred ccCCceEEEcCCCCEEEcCCEEEEcCCHHHHHHHHHHHHhhcccccCcCCCccccccEEEEEEEEEEecC-CCCEEEEEE
Confidence 8888999999999999999999999999999999999999999999999999999999999999886543 334578999
Q ss_pred EEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC-CCCCCCCchhhhhhhcccCCCccceEEEEeCCC-
Q 005960 259 NLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK-PRVPYRESKLTRILQDSLGGTSHALMVACLNPG- 336 (667)
Q Consensus 259 ~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~-~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~- 336 (667)
+||||||+|+..+.+..|.+++|+..||+||.+|++||.+|.+++ .|||||+|+||+||+|+|||+|+|+||+||+|+
T Consensus 227 ~~VDLAGsE~~~~~~~~~~~~~e~~~in~sl~~L~~vi~aL~~~~~~~vpyR~S~LT~lL~~~L~g~s~t~~I~~vsp~~ 306 (325)
T cd01369 227 FLVDLAGSEKVSKTGAEGQTLEEAKKINKSLSALGNVINALTDGKSTHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSS 306 (325)
T ss_pred EEEECCCCCcccccCCcchhHHHHHHHhHHHHHHHHHHHHHHcCCCCcCCCccCHHHHHHHHhcCCCCeEEEEEEeCCcc
Confidence 999999999999999999999999999999999999999999987 999999999999999999999999999999997
Q ss_pred -ChhhhHHHHHHHHHhhhc
Q 005960 337 -EYQESVHTVSLAARSRHI 354 (667)
Q Consensus 337 -~~~ETlsTL~fA~rar~I 354 (667)
+++||++||+||+|+|+|
T Consensus 307 ~~~~eTl~TL~~a~r~~~i 325 (325)
T cd01369 307 YNESETLSTLRFGARAKTI 325 (325)
T ss_pred ccHHHHHHHHHHHHHhhcC
Confidence 689999999999999976
No 16
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=100.00 E-value=1.9e-72 Score=604.73 Aligned_cols=313 Identities=40% Similarity=0.662 Sum_probs=283.0
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccch
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPL 106 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~pl 106 (667)
+|+|+||+||+...|.... ...|+.+.+.+. ++.+.+ .+.|.||+||++++ +|++||+..++|+
T Consensus 2 ~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~-------~v~~~~-----~~~f~FD~vf~~~~-~q~~vy~~~~~pl 65 (341)
T cd01372 2 SVRVAVRVRPLLPKELLEG---CQVCVSVVPGEP-------QVTVGT-----DKSFTFDYVFDPST-SQEEVYNTCVAPL 65 (341)
T ss_pred CeEEEEECCCCCchhcccC---CCeEEEEeCCCC-------EEEecC-----CcEEeccccCCCCC-CHHHHHHHHHHHH
Confidence 6999999999998886433 456777655432 233322 45799999999986 8899999999999
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCC------CCCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeecc
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSE------ERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLL 176 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm~G~~------~~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL 176 (667)
|+.+++|||+||||||||||||||||+|+. .++|||||++++||+.++. ..+.|.+||+|||+|++||||
T Consensus 66 v~~~~~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~~~~Giipr~~~~LF~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL 145 (341)
T cd01372 66 VDGLFEGYNATVLAYGQTGSGKTYTMGTAFTASEDEEEVGIIPRAIQHIFKKIDEKKDEPDFQLKVSFLELYNEEVRDLL 145 (341)
T ss_pred HHHHhCCCccceeeecCCCCCCcEEecCCCccccccccCChHHHHHHHHHHHHHhccccceEEEEEEEEEeECCeeecCC
Confidence 999999999999999999999999999974 5799999999999998864 356999999999999999999
Q ss_pred CCC---CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCC-----
Q 005960 177 EVK---TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD----- 248 (667)
Q Consensus 177 ~~~---~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~----- 248 (667)
.+. ...+.+++++.+++++.|++++.|.+++|++.+|..|..+|...+|.+|..|||||+||+|+|.+....
T Consensus 146 ~~~~~~~~~l~i~e~~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~~~~~~ 225 (341)
T cd01372 146 SPSTSEKSPIQIREDSKGNIIIVGLTEVTVNSAQEVMSCLEQGSLSRTTASTAMNSQSSRSHAIFTITLEQTRKNGPIAP 225 (341)
T ss_pred CCcccCCCCceEEECCCCCEecCCCEEEEECCHHHHHHHHHHHHHhcccccccCCCccCcCcEEEEEEEEEEecCCcccc
Confidence 986 468999999999999999999999999999999999999999999999999999999999999987654
Q ss_pred ----CCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC---CCCCCCCchhhhhhhccc
Q 005960 249 ----DSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK---PRVPYRESKLTRILQDSL 321 (667)
Q Consensus 249 ----~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~---~~IPYRdSkLTrLLqdsL 321 (667)
.......|+|+||||||+|+..+++..+.+++|+..||+||.+|++||.+|..++ .|||||+||||+||+|+|
T Consensus 226 ~~~~~~~~~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~in~sl~aL~~vi~al~~~~~~~~~ipyR~S~LT~lL~~~L 305 (341)
T cd01372 226 MSGDDKNSTLTSKFHFVDLAGSERLKKTGATGDRLKEGISINSGLLALGNVISALGDESKKGSHVPYRDSKLTRLLQDSL 305 (341)
T ss_pred ccccCCCceeeEEEEEEECCCCcccccccCchhHhHHHHHHhHHHHHHHHHHHHHHhcCCCCCCCCCcccHHHHHHHHhc
Confidence 3345678999999999999999999999999999999999999999999999876 699999999999999999
Q ss_pred CCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhcc
Q 005960 322 GGTSHALMVACLNPG--EYQESVHTVSLAARSRHIS 355 (667)
Q Consensus 322 gGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~ 355 (667)
||+++|+||+||+|+ +++||++||+||+|+|+|+
T Consensus 306 gg~s~t~~I~~vsp~~~~~~eTl~tL~~a~~~~~ik 341 (341)
T cd01372 306 GGNSHTLMIACVSPADSNFEETLNTLKYANRARNIK 341 (341)
T ss_pred CCCceEEEEEEeCCChhhHHHHHHHHHHHHHhccCC
Confidence 999999999999997 6899999999999999986
No 17
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=100.00 E-value=2.7e-72 Score=599.03 Aligned_cols=312 Identities=34% Similarity=0.583 Sum_probs=282.3
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccch
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPL 106 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~pl 106 (667)
+|+|+||+||+...|.. ...+++.+.+.. ++.+.++ .....|.||+||++++ +|++||+..+.|+
T Consensus 1 ~V~V~vRvRP~~~~e~~----~~~~~~~~~~~~--------~v~~~~~--~~~~~f~fd~vf~~~~-~q~~vy~~~~~p~ 65 (321)
T cd01374 1 KIKVSVRVRPLNPRESD----NEQVAWSIDNDN--------TISLEES--TPGQSFTFDRVFGGES-TNREVYERIAKPV 65 (321)
T ss_pred CeEEEEEcCcCCccccc----CCcceEEECCCC--------EEEEcCC--CCCeEEecCeEECCCC-CHHHHHHHHHHHH
Confidence 69999999999998862 134556554431 2233222 3457899999999986 8899999999999
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc---CCceEEEEEEEEecceeeeccCCCCCce
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLLEVKTKEI 183 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL~~~~~~l 183 (667)
|+.+++|+|+||||||||||||||||+|+..++||+||++++||+.++. ..+.|++||+|||+|+|||||++....+
T Consensus 66 v~~~l~G~n~~i~ayG~tgSGKT~T~~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL~~~~~~l 145 (321)
T cd01374 66 VRSALEGYNGTIFAYGQTSSGKTFTMSGDEQEPGIIPLAVRDIFQRIQDTPDREFLLRVSYLEIYNEKIKDLLSPSPQEL 145 (321)
T ss_pred HHHHHCCCceeEEeecCCCCCCceeccCCCCCCchHHHHHHHHHHHHhcccCceEEEEEEEEEEEcCEeEEccCCCCCCc
Confidence 9999999999999999999999999999999999999999999998754 3568999999999999999999998899
Q ss_pred eeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC--CCceEEEEEEEE
Q 005960 184 SILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALTGKLNLI 261 (667)
Q Consensus 184 ~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~--~~~~~~skL~fV 261 (667)
.+++++.+++++.|++++.|.|++|+.++|..|.++|+.+.|.+|..|||||+||+|+|.+..... ......|+|+||
T Consensus 146 ~i~~~~~~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~~s~l~~v 225 (321)
T cd01374 146 RIREDPNKGVVVAGLTEEIVTSPEHLLQLIARGEKNRHVGETDFNERSSRSHTIFQLTIESRERGDSESGTVRVSTLNLI 225 (321)
T ss_pred eEEECCCCCEEeCCceEEEeCCHHHHHHHHHHHHhccccccCcCCCccccccEEEEEEEEEEecCCCCCCcEEEEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999876543 355678999999
Q ss_pred ECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC--CCCCCCCchhhhhhhcccCCCccceEEEEeCCC--C
Q 005960 262 DLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK--PRVPYRESKLTRILQDSLGGTSHALMVACLNPG--E 337 (667)
Q Consensus 262 DLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~--~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~--~ 337 (667)
||||+||..+.+ .+.+++|+.+||+||.+|++||.+|++++ .|||||+||||+||||+|||+++|+||+||+|. +
T Consensus 226 DLAGsE~~~~~~-~~~~~~e~~~iN~Sl~~L~~vi~al~~~~~~~~vpyR~SkLT~lL~~~L~g~s~t~~i~~vsp~~~~ 304 (321)
T cd01374 226 DLAGSERASQTG-AGERRKEGSFINKSLLTLGTVISKLSEGKNSGHIPYRDSKLTRILQPSLSGNARTAIICTISPASSH 304 (321)
T ss_pred ECCCCCccccCC-CCccccccchhhhHHHHHHHHHHHHHhcCCCCcCCCcCCHHHHHHHHhcCCCceEEEEEEeCCcccc
Confidence 999999999988 89999999999999999999999999986 999999999999999999999999999999998 7
Q ss_pred hhhhHHHHHHHHHhhhc
Q 005960 338 YQESVHTVSLAARSRHI 354 (667)
Q Consensus 338 ~~ETlsTL~fA~rar~I 354 (667)
++||++||+||+|+++|
T Consensus 305 ~~eTl~TL~~a~r~~~i 321 (321)
T cd01374 305 VEETLNTLKFASRAKKV 321 (321)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 99999999999999976
No 18
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.4e-73 Score=633.45 Aligned_cols=330 Identities=34% Similarity=0.548 Sum_probs=291.7
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCC-----CCCCceeeeeceeeCCCC------C
Q 005960 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-----DTIRSECYQLDSFFGQED------E 93 (667)
Q Consensus 25 ~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~-----~~~~~~~F~FD~Vf~~~~------~ 93 (667)
..+|||+|||||++.+|+.-. ..|.+.|.... .++....+ +...+++|.||++|++.+ +
T Consensus 3 ~~kVkVaVRVRP~nrREl~l~---tk~vv~vd~~q-------~vl~~~pp~~~~~~~k~pktFAFDhcF~s~dpes~n~a 72 (1714)
T KOG0241|consen 3 DAKVKVAVRVRPMNRRELELS---TKCVVEVDKNQ-------TVLHPPPPNHKIGESKGPKTFAFDHCFWSMDPESKNYA 72 (1714)
T ss_pred CcceEEEEEecccchhhhccc---ccceEEeccCc-------eeecCCCccccccccCCCceeecccccccCCccccccc
Confidence 468999999999999998654 44555554432 23333222 224568999999999765 3
Q ss_pred chhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc-----CCceEEEEEEEEe
Q 005960 94 SVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVY 168 (667)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~~v~vS~~EIY 168 (667)
.|+.||+....-+|+++|+|||+||||||||||||||||+|..+++|||||.+..||..++. ..++|+|||+|||
T Consensus 73 gQE~Vf~~lG~~il~naf~GyNaCifaYGQtGsGKsYsmmGt~~QpGiIPrlc~~lFe~I~k~~n~~~tfkVeVSymEIy 152 (1714)
T KOG0241|consen 73 GQETVFKCLGEGILENAFQGYNACIFAYGQTGSGKSYSMMGTAEQPGIIPRLCESLFERIDKESNPSQTFKVEVSYMEIY 152 (1714)
T ss_pred cchhHHHhcchHHHHHHhhccceeeEEecccCCCceeEeeccCCCCCchhHHHHHHHHHHHhccCCCceEEEEEEHHHHh
Confidence 68999999999999999999999999999999999999999999999999999999998864 3479999999999
Q ss_pred cceeeeccCCCC--CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEe
Q 005960 169 MDRCYDLLEVKT--KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLL 246 (667)
Q Consensus 169 nE~v~DLL~~~~--~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~ 246 (667)
||++||||+|+. +.+.++++.--|.||.||++..|.|++|+..+|..|.++|+++.|+||..|||||+||.|.|.+.-
T Consensus 153 nEkv~DLLdPk~ssqtlkVrehsvlGp~vdGLS~laV~S~qdId~lm~egnKsrtvaatnmn~EssrsHaVFslvvtQ~l 232 (1714)
T KOG0241|consen 153 NEKVRDLLDPKGSSQTLKVREHSVLGPYVDGLSQLAVTSFQDIDSLMSEGNKSRTVAATNMNEESSRSHAVFSLVVTQTL 232 (1714)
T ss_pred hcchhhhhCCCCCcceeEEeecccccccccchhhhhcccHHHHHHHHHhccccceeeeecccccccccceeEEEEEeeEE
Confidence 999999999874 468999999999999999999999999999999999999999999999999999999999998864
Q ss_pred CCC---CCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccC------CCCCCCCCchhhhhh
Q 005960 247 GDD---SKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNN------KPRVPYRESKLTRIL 317 (667)
Q Consensus 247 ~~~---~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~------~~~IPYRdSkLTrLL 317 (667)
.|. ......+||.||||||+||..++++.|.|++|+.+||+||++||.||+||++. .++||||||.|||||
T Consensus 233 ~D~ktg~SgeKvsklslVDLAgserasktga~g~rlkegsNinkSLttLglVIsaLadq~n~kgkdKfvPYrDSVLTwLL 312 (1714)
T KOG0241|consen 233 YDLKTGHSGEKVSKLSLVDLAGSERASKTGAAGSRLKEGSNINKSLTTLGLVISALADQKNGKGKDKFVPYRDSVLTWLL 312 (1714)
T ss_pred eccccCcchhheeeeeEEEeccccccccccchhhhhhhcCCcchhhHHHHHHHHHHHHhhcCCCccccccchhHHHHHHH
Confidence 432 22345799999999999999999999999999999999999999999999863 369999999999999
Q ss_pred hcccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhccccccccccc
Q 005960 318 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKV 364 (667)
Q Consensus 318 qdsLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~ 364 (667)
||+|||||+|+||+||||+ +|+|||+|||||.|||+|+|+..+|...
T Consensus 313 kD~LGGNsrTvMiatvSPaAdnyeeTlStLRYadrAkrIvN~avvNedp 361 (1714)
T KOG0241|consen 313 KDNLGGNSRTVMIATVSPAADNYEETLSTLRYADRAKRIVNHAVVNEDP 361 (1714)
T ss_pred HhhcCCCceeEEEEEecccccchHHHHHHHHHHHHHHHhhccccccCCc
Confidence 9999999999999999995 7999999999999999999987777654
No 19
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=100.00 E-value=1.1e-70 Score=588.27 Aligned_cols=318 Identities=37% Similarity=0.586 Sum_probs=286.8
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhcc
Q 005960 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVN 104 (667)
Q Consensus 25 ~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~ 104 (667)
+|+|+|+||+||+...|.. ...+++.+.+.+. .++.+.+. ......|.||+||++++ +|++||+. +.
T Consensus 1 ~~~i~V~vRirP~~~~e~~----~~~~~~~~~~~~~------~~i~~~~~-~~~~~~f~fD~vf~~~~-~q~~v~~~-v~ 67 (329)
T cd01366 1 KGNIRVFCRVRPLLPSEST----EYSSVISFPDEDG------GTIELSKG-TGKKKSFSFDRVFDPDA-SQEDVFEE-VS 67 (329)
T ss_pred CCCEEEEEEcCcCCccccC----CCccEEEEcCCCc------eEEEEeCC-CCCceEEecCEEECCCC-CHHHHHHH-HH
Confidence 4789999999999988752 2345666655421 23444332 23456899999999986 88999996 69
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc-----CCceEEEEEEEEecceeeeccCCC
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYMDRCYDLLEVK 179 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~~v~vS~~EIYnE~v~DLL~~~ 179 (667)
|+|+++++|+|+||||||+|||||||||+|..+++||+||++++||+.++. ..+.|.+||+|||+|+++|||.+.
T Consensus 68 p~v~~~~~G~~~~i~ayG~tgSGKT~tl~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~ 147 (329)
T cd01366 68 PLVQSALDGYNVCIFAYGQTGSGKTYTMEGPPENPGIIPRALEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATK 147 (329)
T ss_pred HHHHHHhCCCceEEEEeCCCCCCCcEEecCCCCCCCcHHHHHHHHHHHHHhhhccCceEEEEEEEEEEECCEeEECCCCC
Confidence 999999999999999999999999999999999999999999999997754 356899999999999999999986
Q ss_pred ---CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEE
Q 005960 180 ---TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTG 256 (667)
Q Consensus 180 ---~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~s 256 (667)
...+.+++++.+++++.|++++.|.|++|+.++|..|..+|..+.|.+|..|||||+||+|+|.+.... .+....|
T Consensus 148 ~~~~~~l~i~~~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~-~~~~~~s 226 (329)
T cd01366 148 PAPKKKLEIKHDSKGETYVTNLTEVPVSSPEEVTRLLNLGSKNRSVASTNMNEHSSRSHAVFQLKIRGTNLQ-TGEQTRG 226 (329)
T ss_pred cCCCCceEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHHHhhcccccccccCCCCCccEEEEEEEEEEcCC-CCcEEEE
Confidence 678999999999999999999999999999999999999999999999999999999999999887643 4456789
Q ss_pred EEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCccceEEEEeCCC
Q 005960 257 KLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG 336 (667)
Q Consensus 257 kL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~ 336 (667)
+|+||||||+|+..+.+..+.+++|+..||+||.+|++||.+|..+..|||||+|+||+||+|+|||+++|+||+||+|.
T Consensus 227 ~l~~VDLaGsE~~~~~~~~~~~~~e~~~in~Sl~~L~~vl~~l~~~~~~ipyr~S~LT~lL~~~l~g~~~t~~i~~vsp~ 306 (329)
T cd01366 227 KLNLVDLAGSERLKKSGATGDRLKEAQAINKSLSALGDVISALRSKDSHVPYRNSKLTYLLQDSLGGNSKTLMFVNISPL 306 (329)
T ss_pred EEEEEECCCCcccccccccchhhHhHhhhhhHHHHHHHHHHHHhcCCCcCCCcccHhHHHHHHhcCCCceEEEEEEeCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred --ChhhhHHHHHHHHHhhhccc
Q 005960 337 --EYQESVHTVSLAARSRHISN 356 (667)
Q Consensus 337 --~~~ETlsTL~fA~rar~I~N 356 (667)
+++||++||+||+|+++|+|
T Consensus 307 ~~~~~etl~tL~~a~~~~~i~~ 328 (329)
T cd01366 307 ESNLSETLCSLRFASRVRSVEL 328 (329)
T ss_pred hhhHHHHHHHHHHHHHhhcccC
Confidence 79999999999999999987
No 20
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=100.00 E-value=1.2e-70 Score=589.33 Aligned_cols=311 Identities=34% Similarity=0.541 Sum_probs=272.2
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCC-------CCCCceeeeeceeeCCCCCchhHHH
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-------DTIRSECYQLDSFFGQEDESVSKIF 99 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~-------~~~~~~~F~FD~Vf~~~~~sQ~~Vf 99 (667)
+|+|+||+||+...+. ..+.+.+.+. .+++..... .......|.||+||++ + +|++||
T Consensus 1 ~i~V~vRvRP~~~~~~--------~~~~~~~~~~-----~~~~~~p~~~~~~~~~~~~~~~~f~FD~vf~~-~-~q~~vy 65 (334)
T cd01375 1 TIQVFVRVRPTPTKQG--------SSIKLGPDGK-----SVSSNLPKDLVRGVVNNQQEDFSFKFDGVFHN-A-SQEEVY 65 (334)
T ss_pred CeEEEEECCCCCCCCC--------ccEEEcCCCC-----EEEEecccccccccccCCcCceEEEcCcccCC-C-CHHHHH
Confidence 4899999999987442 1233322211 122222111 1123457999999999 4 889999
Q ss_pred HhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC---CCCCChHHHHHHHHhhhcc---CCceEEEEEEEEecceee
Q 005960 100 YSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE---ERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCY 173 (667)
Q Consensus 100 ~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~---~~~GLipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~ 173 (667)
+..+.|+|+++++|+|+||||||||||||||||+|+. .++||+||++++||+.++. ..+.|++||+|||+|++|
T Consensus 66 ~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~ 145 (334)
T cd01375 66 ETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTGGTESYKDRGLIPRALEQVFREVAMRATKTYTVHVSYLEIYNEQLY 145 (334)
T ss_pred HHHHHHHHHHHhCCCccceeeecCCCCCCeEEccCCCCcccCCchHHHHHHHHHHHHHhccCcceEEEEEEEEEECCEee
Confidence 9999999999999999999999999999999999976 4789999999999998764 357999999999999999
Q ss_pred eccCCCC------CceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeC
Q 005960 174 DLLEVKT------KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLG 247 (667)
Q Consensus 174 DLL~~~~------~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~ 247 (667)
|||++.. +.+.+++++.++++|+|++++.|.+++|++.+|..|..+|..++|.+|..|||||+||+|+|.+...
T Consensus 146 DLL~~~~~~~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~~~~~g~~~R~~~~t~~n~~sSRSH~i~~l~v~~~~~ 225 (334)
T cd01375 146 DLLGDTPEALESLPAVTILEDSEQNIHVKGLSLHSATTEEEALNLLFLGETNRTIAETSMNQASSRSHCIFTIHLESRSR 225 (334)
T ss_pred cCCCCCccccccCCceEEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccCcCcCCcCcCeEEEEEEEEEEec
Confidence 9999874 5789999999999999999999999999999999999999999999999999999999999998643
Q ss_pred C-CCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC-CCCCCCCchhhhhhhcccCCCc
Q 005960 248 D-DSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK-PRVPYRESKLTRILQDSLGGTS 325 (667)
Q Consensus 248 ~-~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~-~~IPYRdSkLTrLLqdsLgGns 325 (667)
. .......|+|+||||||+||..+++..+..++|+..||+||.+|++||.+|+.++ .||||||||||+||||+|||+|
T Consensus 226 ~~~~~~~~~s~l~~VDLAGsEr~~~~~~~~~~~~e~~~iN~SL~~L~~vi~~l~~~~~~~ipyRdSkLT~lL~d~Lgg~~ 305 (334)
T cd01375 226 EAGSEVVRLSKLNLVDLAGSERVSKTGVSGQVLKEAKYINKSLSFLEQVINALSEKARTHVPYRNSKLTHVLRDSLGGNC 305 (334)
T ss_pred CCCCCceEEEEEEEEECCCCCccccccCchhhhhhhhhhhhhHHHHHHHHHHHHhCCCCCCCCcccHHHHHHHHhcCCCc
Confidence 2 3345667999999999999999999999999999999999999999999999988 9999999999999999999999
Q ss_pred cceEEEEeCCC--ChhhhHHHHHHHHHhh
Q 005960 326 HALMVACLNPG--EYQESVHTVSLAARSR 352 (667)
Q Consensus 326 kt~mIa~vsP~--~~~ETlsTL~fA~rar 352 (667)
+|+||+||+|+ +++||++||+||+|++
T Consensus 306 ~t~~I~~vsp~~~~~~eTl~TL~fa~r~~ 334 (334)
T cd01375 306 KTVMLATIWVEPSNLDETLSTLRFAQRVA 334 (334)
T ss_pred eEEEEEEeCCchhhHHHHHHHHHHHHhcC
Confidence 99999999996 6999999999999974
No 21
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=100.00 E-value=4.2e-69 Score=577.21 Aligned_cols=323 Identities=39% Similarity=0.646 Sum_probs=292.1
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecC-CCCCCceeeeeceeeCCCCCchhHHHHhhccc
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKD-PDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~-~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~p 105 (667)
+|+|+|||||+...|.... ..+++.+.+.+. ..+.+.+ ......+.|.||+||++++ +|++||+..+.|
T Consensus 1 ~v~v~vRvrP~~~~e~~~~---~~~~~~~~~~~~------~~v~~~~~~~~~~~~~f~fD~vf~~~~-~q~~v~~~~~~p 70 (335)
T smart00129 1 NIRVVVRVRPLNKREKSRK---SPSVVPFDDKDG------KTLNVNSPKNRKEEKKFTFDKVFGATA-SQEDVFEETAAP 70 (335)
T ss_pred CcEEEEEcCcCCccchhcC---CceEEEEcCCCC------CEEEEeCCCCCCCCeEEecCEEECCCC-ChHHHHHHHHHH
Confidence 5899999999998886543 466788776633 2333333 2334567899999999886 789999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeeccCCCCC
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLEVKTK 181 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~~~~~ 181 (667)
+|+.+++|+|+|||+||++||||||||+|+.+++||+||++++||+.+.. ..+.|.+||+|||+|+++|||++..+
T Consensus 71 ~v~~~~~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~v~~S~~ei~~e~v~DLL~~~~~ 150 (335)
T smart00129 71 LVDSVLEGYNATIFAYGQTGSGKTYTMSGTPDSPGIIPRALKDLFEKIDKLEEGWQFQVKVSYLEIYNEKIRDLLNPSPK 150 (335)
T ss_pred HHHHHhcCCceeEEEeCCCCCCCceEecCCCCCCCHHHHHHHHHHHHhhhcccCceEEEEEEEEEEECCEEEECcCCCCC
Confidence 99999999999999999999999999999999999999999999998764 35789999999999999999999988
Q ss_pred ceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeC-CCCCceEEEEEEE
Q 005960 182 EISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLG-DDSKAALTGKLNL 260 (667)
Q Consensus 182 ~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~-~~~~~~~~skL~f 260 (667)
.+.+++++.+++++.|++++.|.|++|+.++|..|..+|..++|.+|..|||||+||+|+|.+... ........|+|+|
T Consensus 151 ~l~i~~~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRsH~i~~l~v~~~~~~~~~~~~~~s~l~~ 230 (335)
T smart00129 151 KLEIREDKKGGVYVKGLTEISVSSFEEVYNLLEKGNKNRTVAATKMNEESSRSHAVFTITVESKIKNSSSGSGKASKLNL 230 (335)
T ss_pred CcEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHHHhccccccCCCCCCCCcceEEEEEEEEEEecCCCCCCEEEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999997632 3445567899999
Q ss_pred EECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhcc--CCCCCCCCCchhhhhhhcccCCCccceEEEEeCCC--
Q 005960 261 IDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNN--NKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG-- 336 (667)
Q Consensus 261 VDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~--~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~-- 336 (667)
|||||+|+..+.++.+.+++|+..||+||.+|++||.+|++ +..|+|||+|+||+||+++|||+++++||+||+|.
T Consensus 231 VDLaGse~~~~~~~~~~~~~e~~~in~sl~~L~~~l~~l~~~~~~~~ip~r~S~LT~lL~~~L~g~~~~~~i~~vsp~~~ 310 (335)
T smart00129 231 VDLAGSERASKTGAEGDRLKEAGNINKSLSALGNVINALADGQKSRHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSLS 310 (335)
T ss_pred EECCCCCccccccChhHHHHhhchhhhHHHHHHHHHHHHHhcCCCCCCCCcCcHhHHHHHHHcCCCCeEEEEEEcCCCcc
Confidence 99999999999999999999999999999999999999998 56799999999999999999999999999999996
Q ss_pred ChhhhHHHHHHHHHhhhcccccc
Q 005960 337 EYQESVHTVSLAARSRHISNTLP 359 (667)
Q Consensus 337 ~~~ETlsTL~fA~rar~I~N~~~ 359 (667)
+++||++||+||+++++|+|.+.
T Consensus 311 ~~~eTl~tL~~a~~~~~i~~~p~ 333 (335)
T smart00129 311 NLEETLSTLRFASRAKEIKNKAI 333 (335)
T ss_pred chHHHHHHHHHHHHHhhcccCCC
Confidence 69999999999999999999654
No 22
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=100.00 E-value=6.8e-68 Score=565.93 Aligned_cols=313 Identities=39% Similarity=0.687 Sum_probs=283.3
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCC---CCCceeeeeceeeCCCCCchhHHHHhhc
Q 005960 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD---TIRSECYQLDSFFGQEDESVSKIFYSEV 103 (667)
Q Consensus 27 ~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~---~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v 103 (667)
+|+|+||+||+...|. .+...++.+.+.. ++.+.++. ......|.||+||++++ +|++||+..+
T Consensus 1 ~i~V~vRvrP~~~~~~----~~~~~~~~~~~~~--------~v~~~~~~~~~~~~~~~f~fd~vf~~~~-~q~~v~~~~~ 67 (328)
T cd00106 1 NIRVVVRIRPLNGRES----KSEESCITVDDNK--------TVTLTPPKDGRKAGPKSFTFDHVFDPNS-TQEDVYETTA 67 (328)
T ss_pred CeEEEEEcCCCCcccc----cCCCcEEEECCCC--------EEEEecCccccCcCceEEECCeEEcCCC-CHHHHHHHHH
Confidence 5899999999987762 2245677776642 23333332 23457899999999986 7899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccC-----CceEEEEEEEEecceeeeccCC
Q 005960 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQST-----GSTAEISYYEVYMDRCYDLLEV 178 (667)
Q Consensus 104 ~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~-----~~~v~vS~~EIYnE~v~DLL~~ 178 (667)
.|+|+++++|+|+|||+||++||||||||+|+.+++|||||++++||+.++.. .+.|.+||+|||+|+|+|||.+
T Consensus 68 ~~~v~~~~~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~~v~~S~~Ei~~e~v~DLL~~ 147 (328)
T cd00106 68 KPLVESVLEGYNGTIFAYGQTGSGKTYTMFGSPKDPGIIPRALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSP 147 (328)
T ss_pred HHHHHHHhCCCceeEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEECCEeEECCCC
Confidence 99999999999999999999999999999999999999999999999988654 4799999999999999999999
Q ss_pred C--CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCC-ceEE
Q 005960 179 K--TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSK-AALT 255 (667)
Q Consensus 179 ~--~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~-~~~~ 255 (667)
. ...+.+++++.+++++.|++++.|.|++|+.++|..|..+|..+.|.+|..|||||+||+|+|.+....... ....
T Consensus 148 ~~~~~~l~i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~ 227 (328)
T cd00106 148 EPPSKPLSLREDPKGGVYVKGLTEVEVGSAEDALSLLQKGLKNRTTASTAMNERSSRSHAIFTIHVEQRNTTNDGRSIKS 227 (328)
T ss_pred CCCCCCcEEEEcCCCCEEEeCCEEEEeCCHHHHHHHHHHHHhhcCcccCcCCCCcCcCcEEEEEEEEEEecCCCCccEEE
Confidence 7 889999999999999999999999999999999999999999999999999999999999999987654332 3678
Q ss_pred EEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC--CCCCCCCchhhhhhhcccCCCccceEEEEe
Q 005960 256 GKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK--PRVPYRESKLTRILQDSLGGTSHALMVACL 333 (667)
Q Consensus 256 skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~--~~IPYRdSkLTrLLqdsLgGnskt~mIa~v 333 (667)
|+|+||||||+|+..+.+..+.++.|+..||+||.+|++||.+|..++ .|||||+||||+||||+|||+++++||+||
T Consensus 228 s~l~~VDLaGse~~~~~~~~~~~~~e~~~in~sl~~L~~vl~~l~~~~~~~~ip~r~SkLT~lL~~~l~g~~~t~~I~~v 307 (328)
T cd00106 228 SKLNLVDLAGSERAKKTGAEGDRLKEAKNINKSLSALGNVISALSSGQKKKHIPYRDSKLTRLLQDSLGGNSKTLMIANI 307 (328)
T ss_pred EEEEEEECCCCCcccccCCchhhhHhHHhhhhhHHHHHHHHHHHHhcCCCCcCCCcCcHHHHHHHHhcCCCCeEEEEEEe
Confidence 999999999999999999999999999999999999999999999988 999999999999999999999999999999
Q ss_pred CCC--ChhhhHHHHHHHHHhh
Q 005960 334 NPG--EYQESVHTVSLAARSR 352 (667)
Q Consensus 334 sP~--~~~ETlsTL~fA~rar 352 (667)
+|. +++||++||+||+|+|
T Consensus 308 sp~~~~~~eTl~tL~~a~r~~ 328 (328)
T cd00106 308 SPSSENYDETLSTLRFASRAK 328 (328)
T ss_pred CCchhhHHHHHHHHHHHHhcC
Confidence 998 7999999999999985
No 23
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=100.00 E-value=3.6e-69 Score=615.46 Aligned_cols=322 Identities=36% Similarity=0.564 Sum_probs=281.8
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCC-CCCceeeeeceeeCCCCCchhHHHHhh
Q 005960 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD-TIRSECYQLDSFFGQEDESVSKIFYSE 102 (667)
Q Consensus 24 ~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~-~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~ 102 (667)
.+|+|||+|||||+.+.|.... ...+...+.. .++++...+.. ......|.||+||++.+ +|++||. .
T Consensus 312 LkGnIRV~CRvRP~~~~e~~~~----~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~f~fdkVf~p~~-sQ~~VF~-e 380 (670)
T KOG0239|consen 312 LKGNIRVFCRVRPLLPSEKQRL----QSKVIDTEEQ-----GEVQVDSPDKGDKLEPQSFKFDKVFGPLA-SQDDVFE-E 380 (670)
T ss_pred hhcCceEEEEecCCCccccccc----cccccccCCc-----ceeEeecCCCCCCCccccceeeeecCCcc-cHHHHHH-H
Confidence 4699999999999999886432 1111111110 12333322211 11123599999999986 8899997 6
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceecc-CCCCCCChHHHHHHHHhhhcc----CCceEEEEEEEEecceeeeccC
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQG-SEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLE 177 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G-~~~~~GLipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~ 177 (667)
+.|+|+++++|||+||||||||||||||||.| +++++||+||+++.||..++. +.|.+.++|+|||||.|+|||.
T Consensus 381 ~~~lv~S~lDGYnVCIFAYGQTGSGKTyTM~G~~~~~~Giipral~~lF~~~~~~~~g~~y~~~~s~~EIYNe~i~DlL~ 460 (670)
T KOG0239|consen 381 VSPLVQSALDGYNVCIFAYGQTGSGKTYTMSGPTPEDPGIIPRALEKLFRTITSLKSGWKYDKTVSMLEIYNEAIRDLLS 460 (670)
T ss_pred HHHHHHHHhcCcceeEEEecccCCCccccccCCCcccCCccHHHHHHHHHHHHhhccCceEEeeeehhHHHHHHHHHhcc
Confidence 99999999999999999999999999999999 689999999999999997754 4678999999999999999998
Q ss_pred CC--CCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEE
Q 005960 178 VK--TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALT 255 (667)
Q Consensus 178 ~~--~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~ 255 (667)
+. ...+.|+++.++..+|.+++.+.|.+.+++..+++.|..+|++++|.+|.+|||||+||+|+|...+ ...+....
T Consensus 461 ~~~~~~k~~I~~~~~~~~~V~~~t~~~V~s~~~v~~ll~~g~~nRsv~~T~~Ne~SSRSH~v~~v~v~g~~-~~t~~~~~ 539 (670)
T KOG0239|consen 461 DESYVGKLEIVDDAEGNLMVPLLTVIKVGSSEEVDILLEIGLSNRSVASTASNERSSRSHLVFRVRIRGIN-ELTGIRVT 539 (670)
T ss_pred ccccccceeEEEcCCCceecccceEEecCCHHHHHHHHHHhhccccccccccchhhhccceEEEEEEeccc-cCcccccc
Confidence 87 4679999999999999999999999999999999999999999999999999999999999998763 23455678
Q ss_pred EEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCccceEEEEeCC
Q 005960 256 GKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNP 335 (667)
Q Consensus 256 skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP 335 (667)
|.|+|||||||||..+++..|+|++|+..||+||++||+||.||+.+..|||||+||||+||||+|||+++|+|+++|||
T Consensus 540 g~l~LVDLAGSER~~~s~~tG~RlkE~Q~INkSLS~LgdVi~AL~~k~~HiPyRNSKLT~lLq~sLGG~sKTLmfv~isP 619 (670)
T KOG0239|consen 540 GVLNLVDLAGSERVSKSGVTGERLKEAQNINKSLSALGDVISALASKRSHIPYRNSKLTQLLQDSLGGDSKTLMFVNISP 619 (670)
T ss_pred cceeEeecccCcccCcCCCchhhhHHHHHhchhhhhhHHHHHHHhhcCCCCcccccchHHHhHhhhCCccceeeEEEeCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C--ChhhhHHHHHHHHHhhhcccc
Q 005960 336 G--EYQESVHTVSLAARSRHISNT 357 (667)
Q Consensus 336 ~--~~~ETlsTL~fA~rar~I~N~ 357 (667)
. ++.||+.+|+||.|++.+...
T Consensus 620 ~~~~~~Etl~sL~FA~rv~~~~lG 643 (670)
T KOG0239|consen 620 AAAALFETLCSLRFATRVRSVELG 643 (670)
T ss_pred cHHHHhhhhhccchHHHhhceecc
Confidence 7 689999999999999998774
No 24
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=100.00 E-value=2e-68 Score=571.51 Aligned_cols=314 Identities=37% Similarity=0.647 Sum_probs=273.1
Q ss_pred EcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccchhhhhcC
Q 005960 33 RVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH 112 (667)
Q Consensus 33 RvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~ 112 (667)
||||++..|.... ...++.+..... .................|.||+||++++ +|++||+..+.|+|+.+++
T Consensus 1 RvRP~~~~e~~~~---~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vy~~~~~~~v~~~l~ 72 (335)
T PF00225_consen 1 RVRPLNESEKESS---AESIVSVDNQDS----NQNKQSVNSNNSQKEKSFRFDRVFDEDA-TQEDVYEEVVSPLVDSVLD 72 (335)
T ss_dssp EEES-CHHHHHTT---TEBCEEEETTET----EEEEEETTEEETTEEEEEEESEEEETTS-THHHHHHHHTHHHHHHHHT
T ss_pred CcCCCCHHHHhCC---CcEEEEecCCcc----ccccccccccCCCCceEEEcCeEECCCC-CHHHHHHHHHHHHHHHhhc
Confidence 9999999997665 233333322100 1112222222333467899999999986 7899999999999999999
Q ss_pred CCCEEEEeeccCCCCCcceeccC--CCCCCChHHHHHHHHhhhcc------CCceEEEEEEEEecceeeeccCCC----C
Q 005960 113 GRNATVFAYGATGSGKTYTMQGS--EERPGLMPLAMSKILSICQS------TGSTAEISYYEVYMDRCYDLLEVK----T 180 (667)
Q Consensus 113 G~N~tIfaYGqTGSGKTyTm~G~--~~~~GLipral~~LF~~~~~------~~~~v~vS~~EIYnE~v~DLL~~~----~ 180 (667)
|+|+||||||+|||||||||+|+ ..++||+||++++||..++. ..+.|+|||+|||+|+|+|||++. .
T Consensus 73 G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~Gli~~~~~~lf~~~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL~~~~~~~~ 152 (335)
T PF00225_consen 73 GYNATIFAYGQTGSGKTYTMFGSNDPSEPGLIPRALRDLFSQIEERKEKSGYEFSVSVSYLEIYNEKVYDLLSPNNSKSR 152 (335)
T ss_dssp T-EEEEEEEESTTSSHHHHHTBSTSTTTBSHHHHHHHHHHHHHHHHTTTSTEEEEEEEEEEEEETTEEEETTSTTSSSTT
T ss_pred CCceEEEeeccccccccccccccccccccchhhhHHHHHhhhhccccccccccccccccchhhhhhhhhhhcCccccccc
Confidence 99999999999999999999999 88999999999999998864 247899999999999999999987 3
Q ss_pred CceeeeeCCCCC-eEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCc---eEEE
Q 005960 181 KEISILDDKDGQ-LHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKA---ALTG 256 (667)
Q Consensus 181 ~~l~i~ed~~g~-~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~---~~~s 256 (667)
..+.+++++..+ ++++|++++.|.+++|+..+|..|.++|....|.+|..|||||+||+|+|.+........ ...|
T Consensus 153 ~~l~i~~~~~~g~~~i~~l~~~~v~s~~~~~~~l~~~~~~R~~~~t~~n~~sSRSH~i~~i~v~~~~~~~~~~~~~~~~s 232 (335)
T PF00225_consen 153 KPLKIREDSNKGSVYIKGLTEVEVKSAEEALQLLKKGQKNRRTASTKMNARSSRSHAIFTIHVEQKDRDPSDDEESVKHS 232 (335)
T ss_dssp SEBEEEEETTTEEEEETTSEEEEESSHHHHHHHHHHHHHHHTCTSSSCTHHGGGSEEEEEEEEEEEETTTTTEEEEEEEE
T ss_pred cccceeeccccccceeeccccccccccccccccccchhhccccccccccccccccccccccccccccccccccccceeec
Confidence 579999999865 999999999999999999999999999999999999999999999999999987665543 5789
Q ss_pred EEEEEECCCCCCcccccc-ccchhhHHhhhhhcHHHHHHHHHHhccC--CCCCCCCCchhhhhhhcccCCCccceEEEEe
Q 005960 257 KLNLIDLAGNEDNRRTCN-EGIRLLESAKINQSLFALSNVIHALNNN--KPRVPYRESKLTRILQDSLGGTSHALMVACL 333 (667)
Q Consensus 257 kL~fVDLAGSEr~~~t~~-~g~rl~E~~~INkSL~aL~~vI~aL~~~--~~~IPYRdSkLTrLLqdsLgGnskt~mIa~v 333 (667)
+|+||||||+|+..+.+. .+.+++|+..||+||.+|++||.+|+.+ ..|||||+||||+||||+|||+|+|+||+||
T Consensus 233 ~l~~vDLaGsE~~~~~~~~~~~~~~e~~~in~Sl~~L~~vi~~L~~~~~~~~vpyr~SkLT~lL~d~l~g~s~t~~I~~v 312 (335)
T PF00225_consen 233 RLTFVDLAGSERLKKSGASDGQRLKESSNINKSLSALGNVIRALAQGSKQSHVPYRDSKLTRLLKDSLGGNSKTILIVCV 312 (335)
T ss_dssp EEEEEEEEESTGGCGCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHCTTSTSSSCGGGSHHHHHTGGGTSSSSEEEEEEEE
T ss_pred ceeeeecccccccccccccccccccccceecchhhhhhhhHhhhhccccchhhhhhcccccceecccccccccceeEEEc
Confidence 999999999999998886 4788999999999999999999999999 8999999999999999999999999999999
Q ss_pred CCC--ChhhhHHHHHHHHHhhhc
Q 005960 334 NPG--EYQESVHTVSLAARSRHI 354 (667)
Q Consensus 334 sP~--~~~ETlsTL~fA~rar~I 354 (667)
+|. +|+||++||+||+++|+|
T Consensus 313 sp~~~~~~eTl~tL~fa~~~~~I 335 (335)
T PF00225_consen 313 SPSSEDYEETLSTLRFASRAREI 335 (335)
T ss_dssp -SBGGGHHHHHHHHHHHHHHTTE
T ss_pred CCccccHHHHHHHHHHHHHHcCC
Confidence 997 699999999999999987
No 25
>KOG0246 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=6.4e-66 Score=556.58 Aligned_cols=321 Identities=34% Similarity=0.537 Sum_probs=277.0
Q ss_pred CCCCCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCC-----CCceeeeeceeeCCCCCch
Q 005960 21 STSTSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDT-----IRSECYQLDSFFGQEDESV 95 (667)
Q Consensus 21 ~~~~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~-----~~~~~F~FD~Vf~~~~~sQ 95 (667)
.....++|.|+||-||++..|...++.+ .|+|...+. +.++-...+. .....|.||++|++.. +.
T Consensus 203 ~~v~ehrI~VCVRKRPLnkkE~~~keiD---visvps~~~------l~vHEpk~kVDLtkYlEn~~F~FDyaFDe~~-sN 272 (676)
T KOG0246|consen 203 DGVNEHRICVCVRKRPLNKKELTKKEID---VISVPSKNV------LVVHEPKLKVDLTKYLENQKFRFDYAFDESA-SN 272 (676)
T ss_pred CCCccceEEEEeecCCCCchhccccccc---eEeccccce------EEeeccccccchHHHHhhceEEEeeeccccc-ch
Confidence 4556789999999999999998776433 444422221 2222111110 1134799999999987 55
Q ss_pred hHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC------CCCCChHHHHHHHHhhhcc-----CCceEEEEE
Q 005960 96 SKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE------ERPGLMPLAMSKILSICQS-----TGSTAEISY 164 (667)
Q Consensus 96 ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~------~~~GLipral~~LF~~~~~-----~~~~v~vS~ 164 (667)
+.||..+++|||..+|+|.-+|+||||||||||||||-|+- -..||..++.+++|..+.. ....|.+||
T Consensus 273 e~VYrfTa~PlV~~IF~~G~ATCFAYGQTGSGKT~TMggdfsgk~q~~s~giya~aa~Dvf~~L~~p~Y~~~~l~v~~tF 352 (676)
T KOG0246|consen 273 ELVYRFTAKPLVKTIFEGGMATCFAYGQTGSGKTYTMGGDFSGKAQDCSKGIYALAARDVFRLLRQPTYRKLDLKVYVTF 352 (676)
T ss_pred HHHHHHhhhHHHHHHHhCCceeeeeeccCCCCceeecccccCcccccccccchhhhhhHHHHHhcccchhhcceEEEEEE
Confidence 99999999999999999999999999999999999998862 2359999999999998765 345899999
Q ss_pred EEEecceeeeccCCCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEE
Q 005960 165 YEVYMDRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVST 244 (667)
Q Consensus 165 ~EIYnE~v~DLL~~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~ 244 (667)
||||+.+|||||+.+ +.+.++||.++.++|.||.+..|.+.+|++.+|+.|...|+.+.|..|..|||||+||+|.+..
T Consensus 353 FEIYgGKvfDLL~~k-~KLrvLEDg~QQVqVVGLqE~~v~~~eeVl~lIe~Gns~RtsG~TsANs~SSRSHAvfQIilr~ 431 (676)
T KOG0246|consen 353 FEIYGGKVYDLLNDK-KKLRVLEDGNQQVQVVGLQEEEVSGVEEVLELIEKGNSCRTSGQTSANSNSSRSHAVFQIILRK 431 (676)
T ss_pred EEEeCcchhhhhccc-cceEEeecCCceEEEeeceeeeccCHHHHHHHHHhcccccccCcccCcccccccceeEeeeeec
Confidence 999999999999874 5699999999999999999999999999999999999999999999999999999999999965
Q ss_pred EeCCCCCceEEEEEEEEECCCCCCccccc-cccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCC
Q 005960 245 LLGDDSKAALTGKLNLIDLAGNEDNRRTC-NEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGG 323 (667)
Q Consensus 245 ~~~~~~~~~~~skL~fVDLAGSEr~~~t~-~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgG 323 (667)
.. .....||+.||||||+||..++. ++.+...|++.||+||+||..||+||..++.|+|||.||||++|+|||-|
T Consensus 432 ~~----~~k~hGKfSlIDLAGnERGaDts~adRqtRlEGAEINKSLLALKECIRaLg~nk~H~PFR~SKLTqVLRDSFIG 507 (676)
T KOG0246|consen 432 HG----EFKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKSHLPFRGSKLTQVLRDSFIG 507 (676)
T ss_pred CC----cceeEeEEEEEEccCCccCCcccccchhhhhhhhhhhHHHHHHHHHHHHhcCCCCCCCchhhhHHHHHHHhhcC
Confidence 32 24578999999999999987765 56677889999999999999999999999999999999999999999988
Q ss_pred -CccceEEEEeCCC--ChhhhHHHHHHHHHhhhccc
Q 005960 324 -TSHALMVACLNPG--EYQESVHTVSLAARSRHISN 356 (667)
Q Consensus 324 -nskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N 356 (667)
|++|+||+||||+ +++.||+|||||+|.|...-
T Consensus 508 enSrTcMIA~ISPg~~ScEhTLNTLRYAdRVKeLsv 543 (676)
T KOG0246|consen 508 ENSRTCMIATISPGISSCEHTLNTLRYADRVKELSV 543 (676)
T ss_pred CCCceEEEEEeCCCcchhhhhHHHHHHHHHHHhhcC
Confidence 9999999999997 79999999999999997754
No 26
>KOG0247 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=6.2e-64 Score=554.39 Aligned_cols=333 Identities=34% Similarity=0.569 Sum_probs=284.7
Q ss_pred CCCCCCCCCeEEEEEcCCCCChhhhhhcCCCceEEEEcCCCCcccCc-ceEEEecC-CCCCCceeeeeceeeCCCCCchh
Q 005960 19 PNSTSTSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNE-EVAVYLKD-PDTIRSECYQLDSFFGQEDESVS 96 (667)
Q Consensus 19 ~~~~~~~~~VkV~vRvRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~-~~~v~~~~-~~~~~~~~F~FD~Vf~~~~~sQ~ 96 (667)
-.+......|.|+||+||+.+.. +..+|+.|.+...+.... +......+ ........|.|-+||++++ .|.
T Consensus 24 ~~S~~~~d~v~v~~rvrP~~~~~------~~~g~l~v~n~~tivL~~P~d~~~~~~~n~~q~e~~fsFt~VF~p~~-tQ~ 96 (809)
T KOG0247|consen 24 GASCESKDPVLVVCRVRPLSDAS------EDEGCLRVINEETIVLETPEDSFARRSVNGGQMEKKFSFTKVFGPSV-TQA 96 (809)
T ss_pred ccchhhhcchheeEeecCCCCCc------cccceEEEeccceeEeeCcHHHHhhhccCccceeeEeeeeeecCCCc-cHH
Confidence 34455677899999999988521 245688887764421110 00000111 1222356799999999986 889
Q ss_pred HHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhc----------------------
Q 005960 97 KIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQ---------------------- 154 (667)
Q Consensus 97 ~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~---------------------- 154 (667)
+||+.++.|+|.+++.|.|..+|+||.|||||||||+|++.++||+||+++-||..++
T Consensus 97 dvF~~~~~plV~dlLkgqn~LlFTyGVTgSGKTYTm~G~~~~~GIlPR~Ld~iF~siq~~~~~k~~~kp~~s~~~e~~~~ 176 (809)
T KOG0247|consen 97 DVFDTTVAPLVKDLLKGQNSLLFTYGVTGSGKTYTMTGTPDRPGILPRALDVIFNSIQGRQAKKPVFKPLRSNLFEIKAE 176 (809)
T ss_pred HHHHHHhHHHHHHHHcccceeEEEeeccCCCceEEeecCCCCCCchHHHHHHHHHHhhceeccCceeccccchHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999996221
Q ss_pred ----------------------------------------------cCCceEEEEEEEEecceeeeccCCCCC-----c-
Q 005960 155 ----------------------------------------------STGSTAEISYYEVYMDRCYDLLEVKTK-----E- 182 (667)
Q Consensus 155 ----------------------------------------------~~~~~v~vS~~EIYnE~v~DLL~~~~~-----~- 182 (667)
+..|.|.|||+|||||.|||||.+.+. .
T Consensus 177 ~~alL~lkr~~~~nd~~~ts~~~~~~~~e~~e~~~~~e~~~~~l~~d~~ysV~VSf~EIYN~~iYDLLe~~s~q~~~~~~ 256 (809)
T KOG0247|consen 177 EDALLQLKREAMLNDRKSTSKAHRQSTPEYAEHIHVIEQPALELDEDIVYSVFVSFVEIYNNYIYDLLEDASFQGKLQKL 256 (809)
T ss_pred HHHHHhhhhhhccccccCcchhhccccHHHHhhcchhcccccccCcCcEEEEEeeHHHHHHHHHHHhhccccccchhhhh
Confidence 011367899999999999999987532 2
Q ss_pred eeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCC-CCCceEEEEEEEE
Q 005960 183 ISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD-DSKAALTGKLNLI 261 (667)
Q Consensus 183 l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~-~~~~~~~skL~fV 261 (667)
..+++|.+|..||+|+++|.|.+.+|++++|+.|.++|++++|.+|..|||||+||+|.+.+...+ +......|.|.||
T Consensus 257 ~ll~~d~~~~~~Vkgl~~V~VssseEA~~l~~lGqk~r~~asT~lN~~SSRSHsVFtIkl~q~~~~~~s~~i~vSqlsLv 336 (809)
T KOG0247|consen 257 KLLREDTNGNMYVKGLTEVEVSSSEEALELFQLGQKRRRVASTKLNANSSRSHSVFTIKLVQAPRSQDSNQITVSQLSLV 336 (809)
T ss_pred hhhhhccCCCeeeccccEEEeccHHHHHHHHHHHHhhhhhhheeccccccccceeEEEEeeecccccccCceeEEeeeee
Confidence 567889999999999999999999999999999999999999999999999999999999988766 5667788999999
Q ss_pred ECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCC-----CCCCCCCchhhhhhhcccCCCccceEEEEeCCC
Q 005960 262 DLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNK-----PRVPYRESKLTRILQDSLGGTSHALMVACLNPG 336 (667)
Q Consensus 262 DLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~-----~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~ 336 (667)
|||||||..++++.|.|++|+++||+||++||+||.+|+.++ .+|||||||||++++.+|.|.++.+||.||+|-
T Consensus 337 DLAGSERt~rtq~sG~RLrEagNINtSLmTLg~Cie~LR~nqk~ks~~~VPyRdSKLThlfq~~f~G~gki~MIV~vnp~ 416 (809)
T KOG0247|consen 337 DLAGSERTNRTQNSGERLREAGNINTSLMTLRRCIDVLRENQKSKSQKIVPYRDSKLTHLFKNYFDGKGKIRMIVCVNPK 416 (809)
T ss_pred ecccchhcccccchhHHHHhhccccHHHHHHHHHHHHHHHHhhhhccccCcchHHHHHHHHHHhcCCCCcEEEEEecCCc
Confidence 999999999999999999999999999999999999998643 689999999999999999999999999999995
Q ss_pred --ChhhhHHHHHHHHHhhhccccc
Q 005960 337 --EYQESVHTVSLAARSRHISNTL 358 (667)
Q Consensus 337 --~~~ETlsTL~fA~rar~I~N~~ 358 (667)
+|+|+++.|+||.-+..|.+..
T Consensus 417 ~e~YdEnl~vlkFaeiaq~v~v~~ 440 (809)
T KOG0247|consen 417 AEDYDENLNVLKFAEIAQEVEVAR 440 (809)
T ss_pred hhhHHHHHHHHHHHHhcccccccC
Confidence 7999999999999999987753
No 27
>KOG0244 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.4e-61 Score=549.47 Aligned_cols=312 Identities=37% Similarity=0.569 Sum_probs=275.9
Q ss_pred cCCCCChhhhhhcCCCceEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCchhHHHHhhccchhhhhcCC
Q 005960 34 VRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHG 113 (667)
Q Consensus 34 vRP~~~~E~~~~~~~~~~~i~v~~~~~~~~~~~~~v~~~~~~~~~~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G 113 (667)
|||+...|...+ +..|+.+.+... ++.++. ..+|+||+||... +.|.++|+.+|.|+++.+|+|
T Consensus 1 vRpl~~~e~~~g---~~~c~~~~~~~p-------qv~ig~-----~~s~t~d~v~~~~-~~Q~~~~e~~V~~l~~~lf~g 64 (913)
T KOG0244|consen 1 VRPLKQMEEEQG---CRRCTEVSPRTP-------QVAIGK-----DASFTYDKVFLDL-ESQKEVYESCVRPLREKLFAG 64 (913)
T ss_pred CCCccchHHHhc---chhhcccCCCCC-------ceeecC-----CcceeeeeeccCc-hHHHHHHHHHHHHHHHHHhhh
Confidence 699999987655 566777655433 333332 3469999999986 478999999999999999999
Q ss_pred CCEEEEeeccCCCCCcceeccC----CCCCCChHHHHHHHHhhhcc---CCceEEEEEEEEecceeeeccCCCC--Ccee
Q 005960 114 RNATVFAYGATGSGKTYTMQGS----EERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLLEVKT--KEIS 184 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~G~----~~~~GLipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL~~~~--~~l~ 184 (667)
||+|++|||||||||||||.+. .+..|+|||+++.+|..+.. ..+.|.|+|+|||+|.|+|||.+.. ..+.
T Consensus 65 ynatvlaygQtgsgkTytmgt~~~~~~~~~Gvipr~v~~~f~~i~~~~~~~f~i~vs~vely~e~v~dl~~~~~~~~~i~ 144 (913)
T KOG0244|consen 65 YNATVLAYGQTGSGKTYTMGTNDAPAQDTVGVIPRAVSTLFTRIGKTESFVFRITVSFVELYNEEVLDLLKPSRLKANIK 144 (913)
T ss_pred hcceeeeecccCCCceeecccccccccccCCcCcchHHHHHHHHHhhhccceeeeeeeeeccchhhhhhcChhhhhhcee
Confidence 9999999999999999999887 33469999999999998765 4478999999999999999998543 2466
Q ss_pred eeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEEEEEECC
Q 005960 185 ILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLA 264 (667)
Q Consensus 185 i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL~fVDLA 264 (667)
+++ +.|++.+.|++++.|.+..+....|..|...|++++|+||..|||||+||+|.+.+...........+||+|||||
T Consensus 145 ~~e-~~g~it~~glte~tv~~~~q~~~~L~~g~~~RtvasTnMN~qssRshAifti~lkq~kk~~~~s~~~sKlhlVDLA 223 (913)
T KOG0244|consen 145 LRE-PKGEITIRGLTEKTVRMKLQLLSRLEKGSLERTVASTNMNAQSSRSHAIFTITLKQRKKLSKRSSFCSKLHLVDLA 223 (913)
T ss_pred ccc-cCCceEEEeehHHHHHHHHHHHHHHHhchHHHHHHHHhcchhhhhhhHHHHHHHHHHHHhhccchhhhhhheeecc
Confidence 677 7888999999999999999999999999999999999999999999999999998754444444567999999999
Q ss_pred CCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCC--CCCCCCchhhhhhhcccCCCccceEEEEeCCC--Chhh
Q 005960 265 GNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKP--RVPYRESKLTRILQDSLGGTSHALMVACLNPG--EYQE 340 (667)
Q Consensus 265 GSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~--~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~--~~~E 340 (667)
||||.++++++|.|++|+.+||.+|++||+||+||.+.++ |||||+|||||||||+||||+.|+||+||||+ +.+|
T Consensus 224 GSER~kkT~a~gdrlKEgInIN~gLL~LgnVIsaLg~~kk~~~vpyRdSkltrlLQdslgGns~tlmiaCiSpadsn~~E 303 (913)
T KOG0244|consen 224 GSERVKKTKAEGDRLKEGININGGLLALGNVISALGEAKKGGEVPYRDSKLTRLLQDSLGGNSDTLMIACISPADSNAQE 303 (913)
T ss_pred ccccccccccchhhhhhccCcchHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHHHHhcCCcceeeeeecChhhhhhhh
Confidence 9999999999999999999999999999999999998776 99999999999999999999999999999998 4799
Q ss_pred hHHHHHHHHHhhhccccccccc
Q 005960 341 SVHTVSLAARSRHISNTLPSAQ 362 (667)
Q Consensus 341 TlsTL~fA~rar~I~N~~~~~~ 362 (667)
|++||+||.||++|+|++.+|.
T Consensus 304 tlnTl~ya~Rak~iknk~vvN~ 325 (913)
T KOG0244|consen 304 TLNTLRYADRAKQIKNKPVVNQ 325 (913)
T ss_pred HHHHHHHhhHHHHhcccccccc
Confidence 9999999999999999877776
No 28
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=3.1e-57 Score=513.91 Aligned_cols=282 Identities=39% Similarity=0.671 Sum_probs=263.6
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc---
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS--- 155 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~--- 155 (667)
...|.||+||++.. +|++||+..++|+++.++.|||+||||||||||||||||.|..+.+||||+++.+||+.+..
T Consensus 55 ~~~~~fdkvf~~~~-~q~~v~e~~~~~l~~~~l~g~N~TvfayGqTgsgKtyt~~G~~~~~Gii~~~l~~lf~~l~~~~~ 133 (568)
T COG5059 55 EGTYAFDKVFGPSA-TQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGTEEEPGIIPLSLKELFSKLEDLSM 133 (568)
T ss_pred ceEEEEeeccCCCC-cHHHHHHHhhhhHHHHHHhcccceEEEEcccCCCceeEeecCccccchHHHHHHHHHHHHHhccc
Confidence 45699999999986 68999999999999999999999999999999999999999999999999999999997654
Q ss_pred -CCceEEEEEEEEecceeeeccCCCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCc
Q 005960 156 -TGSTAEISYYEVYMDRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRS 234 (667)
Q Consensus 156 -~~~~v~vS~~EIYnE~v~DLL~~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRS 234 (667)
..+.+.+||+|||||+++|||.+....+.++++..+++++.|++++.+.+.+|++.+|+.|..+|+++.|.+|..||||
T Consensus 134 ~~~~~v~is~lEiYnEk~~DLl~~~~~~~~~~~~~~~~v~v~~l~~~~~~s~ee~l~~l~~~~~nr~~~~te~n~~ssRs 213 (568)
T COG5059 134 TKDFAVSISYLEIYNEKIYDLLSPNEESLNIREDSLLGVKVAGLTEKHVSSKEEILDLLRKGEKNRTTASTEINDESSRS 213 (568)
T ss_pred CcceeeEeehhHHHhhHHHhhccCccccccccccCCCceEeecceEEecCChHHHHHHHHHhhhhcccccchhccccccc
Confidence 3579999999999999999999887778899999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEEEEeCCCCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhcc--CCCCCCCCCch
Q 005960 235 HGVLVISVSTLLGDDSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNN--NKPRVPYRESK 312 (667)
Q Consensus 235 H~If~I~v~~~~~~~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~--~~~~IPYRdSk 312 (667)
|+||++++.+....... ...++|+||||||+|+...++..+.+++|+..||+||.+||+||.+|.+ +..|||||+||
T Consensus 214 hsi~~i~~~~~~~~~~~-~~~~~l~lvDLagSE~~~~~~~~~~r~~E~~~iN~sLl~Lg~vI~~L~~~~~~~~ipyResk 292 (568)
T COG5059 214 HSIFQIELASKNKVSGT-SETSKLSLVDLAGSERAARTGNRGTRLKEGASINKSLLTLGNVINALGDKKKSGHIPYRESK 292 (568)
T ss_pred eEEEEEEEEEeccCccc-eecceEEEEeeccccccchhhcccchhhhhhhhHhhHHHHHHHHHHHhccccCCccchhhhH
Confidence 99999999887643332 2347999999999999999999999999999999999999999999997 77899999999
Q ss_pred hhhhhhcccCCCccceEEEEeCCC--ChhhhHHHHHHHHHhhhccccccccc
Q 005960 313 LTRILQDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQ 362 (667)
Q Consensus 313 LTrLLqdsLgGnskt~mIa~vsP~--~~~ETlsTL~fA~rar~I~N~~~~~~ 362 (667)
|||+|+++|||+++|.|||||+|. +++||.+||+||+||+.|+|.+..+.
T Consensus 293 LTRlLq~sLgG~~~~~~i~~Isp~~~~~~et~~tL~~a~rak~I~~~~~~~~ 344 (568)
T COG5059 293 LTRLLQDSLGGNCNTRVICTISPSSNSFEETINTLKFASRAKSIKNKIQVNS 344 (568)
T ss_pred HHHHHHHhcCCCccEEEEEEEcCCCCchHHHHHHHHHHHHHhhcCCcccccC
Confidence 999999999999999999999997 49999999999999999999887774
No 29
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=100.00 E-value=9.4e-49 Score=387.17 Aligned_cols=177 Identities=47% Similarity=0.733 Sum_probs=168.0
Q ss_pred HHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEEEecceeeeccC
Q 005960 98 IFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDLLE 177 (667)
Q Consensus 98 Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DLL~ 177 (667)
||+.+. |+|+.+++|||+|||+||||||||||||+|+.+++||+||++++
T Consensus 8 vf~~~~-~~v~~~~~G~n~~i~~yG~tGsGKT~Tm~G~~~~~Giip~~~~~----------------------------- 57 (186)
T cd01363 8 VFRDVG-PLLQSALDGYNVCIFAYGQTGSGKTYTMEGKREGAGIIPRTVTD----------------------------- 57 (186)
T ss_pred HHHHHH-HHHHHHhCCcceeEEEECCCCCcceEecCCCCCCCCcchHHHHH-----------------------------
Confidence 899888 99999999999999999999999999999999999999999987
Q ss_pred CCCCceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCC--CCceEE
Q 005960 178 VKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALT 255 (667)
Q Consensus 178 ~~~~~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~--~~~~~~ 255 (667)
+++++..|..+|..+.|.+|..|||||+||+|++.+..... ......
T Consensus 58 -------------------------------~~~ll~~g~~~R~~~~t~~N~~SSRsH~i~~i~v~~~~~~~~~~~~~~~ 106 (186)
T cd01363 58 -------------------------------VIDLMDKGNANRTTAATAMNEHSSRSHSVFRIHFGGKNALASATEQPKV 106 (186)
T ss_pred -------------------------------HHHHHhhccccccccccCCCCccCcccEEEEEEEEEeecCCCCccceee
Confidence 78899999999999999999999999999999998865433 244567
Q ss_pred EEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhccCCCCCCCCCchhhhhhhcccCCCccceEEEEeCC
Q 005960 256 GKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNP 335 (667)
Q Consensus 256 skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~~~~~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP 335 (667)
++|+||||||+|+..+++..+.+++|+..||+||.+|++||.+|.+++.||||||||||+||||+||||++|+||+||||
T Consensus 107 s~l~lVDLAGsE~~~~~~~~~~~~~e~~~in~sl~~L~~~i~~l~~~~~~vpyr~SkLT~lL~~~L~g~~~t~~i~~vsP 186 (186)
T cd01363 107 GKINLVDLAGSERIDFSGAEGSRLTETANINKSLSTLGNVISALAERDSHVPYRESKLTRLLQDSLGGNSRTLMVACISP 186 (186)
T ss_pred eeEEEEEccccccccccCCchhhHHHHHHHhhHHHHHHHHHHHHhcCCCCCCCcccHHHHHHHHhcCCCCeEEEEEEeCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
No 30
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=99.59 E-value=1.2e-15 Score=145.99 Aligned_cols=63 Identities=38% Similarity=0.493 Sum_probs=59.7
Q ss_pred cccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 584 VQEYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 584 ~~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
.....||||||+.+||+.|||||+++|++||+||+++ ||++++||++| |||++++++|++++.
T Consensus 84 ~~~~~vNiNtAs~eeL~~lpgIG~~kA~aIi~yRe~~G~f~sv~dL~~v~GiG~~~~ekl~~~i~ 148 (149)
T COG1555 84 EEEKKVNINTASAEELQALPGIGPKKAQAIIDYREENGPFKSVDDLAKVKGIGPKTLEKLKDYIT 148 (149)
T ss_pred CccccccccccCHHHHHHCCCCCHHHHHHHHHHHHHcCCCCcHHHHHhccCCCHHHHHHHHhhcc
Confidence 3466899999999999999999999999999999999 99999999999 999999999999874
No 31
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=99.51 E-value=1e-14 Score=120.60 Aligned_cols=61 Identities=41% Similarity=0.490 Sum_probs=52.0
Q ss_pred cccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 586 EYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
..++|||+|+.+||+.|||||++.|++||+||+++ ||++++||.+| ||+++.+++|+.+++
T Consensus 3 ~~~idiN~as~~eL~~lpgi~~~~A~~Iv~~R~~~G~f~s~~dL~~v~gi~~~~~~~l~~~l~ 65 (65)
T PF12836_consen 3 EQKIDINTASAEELQALPGIGPKQAKAIVEYREKNGPFKSLEDLKEVPGIGPKTYEKLKPYLT 65 (65)
T ss_dssp HHSEETTTS-HHHHHTSTT--HHHHHHHHHHHHHH-S-SSGGGGGGSTT--HHHHHHHCCCEE
T ss_pred CCCccCccCCHHHHHHcCCCCHHHHHHHHHHHHhCcCCCCHHHHhhCCCCCHHHHHHHHhhcC
Confidence 45799999999999999999999999999999999 99999999999 999999999998763
No 32
>TIGR01259 comE comEA protein. This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation.
Probab=99.38 E-value=5e-13 Score=123.63 Aligned_cols=62 Identities=37% Similarity=0.409 Sum_probs=59.0
Q ss_pred cccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhccccc
Q 005960 586 EYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAAK 647 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 647 (667)
..+||||||+.++|++|||||+++|++||+||+.+ ||.+++||.+| ||+++++++|++.+++
T Consensus 57 ~~~iniNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~g~f~s~eeL~~V~GIg~k~~~~i~~~l~v 120 (120)
T TIGR01259 57 LAAVNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120 (120)
T ss_pred CCCEeCCcCCHHHHhcCCCCCHHHHHHHHHHHHhcCCcCCHHHHHcCCCCCHHHHHHHHhceEC
Confidence 45899999999999999999999999999999998 99999999999 9999999999998764
No 33
>TIGR00426 competence protein ComEA helix-hairpin-helix repeat region. Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model.
Probab=99.25 E-value=1e-11 Score=103.74 Aligned_cols=62 Identities=27% Similarity=0.414 Sum_probs=58.0
Q ss_pred cccccCcccCHHHHhc-CCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhccccc
Q 005960 586 EYIDFLNTASREELVE-LKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAAK 647 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~-lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 647 (667)
..+||||||+.++|.. +||||++.|++||++|..+ +|++++||.++ ||+.+.+++|++.+++
T Consensus 5 ~~~invNta~~~~L~~~ipgig~~~a~~Il~~R~~~g~~~s~~dL~~v~gi~~~~~~~i~~~~~~ 69 (69)
T TIGR00426 5 GTRVNINTATAEELQRAMNGVGLKKAEAIVSYREEYGPFKTVEDLKQVPGIGNSLVEKNLAVITL 69 (69)
T ss_pred CCeeECcCCCHHHHHhHCCCCCHHHHHHHHHHHHHcCCcCCHHHHHcCCCCCHHHHHHHHhhccC
Confidence 3469999999999999 9999999999999999988 89999999999 9999999999998763
No 34
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=99.13 E-value=5.9e-11 Score=109.48 Aligned_cols=59 Identities=22% Similarity=0.233 Sum_probs=53.0
Q ss_pred cccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHH---HHHHHhcccccc
Q 005960 586 EYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTK---QVYNLFGKAAKG 648 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~---~~~~l~~~~~~~ 648 (667)
..+||||+|+.++|+.||||||++|++||+ + ||+++|||.+| |||++ .+++.++++++.
T Consensus 50 ~~kIdiN~A~~~el~~lpGigP~~A~~IV~----nGpf~sveDL~~V~GIgekqk~~l~k~~~~ftV~ 113 (132)
T PRK02515 50 GEKIDLNNSSVRAFRQFPGMYPTLAGKIVK----NAPYDSVEDVLNLPGLSERQKELLEANLDNFTVT 113 (132)
T ss_pred CCcccCCccCHHHHHHCCCCCHHHHHHHHH----CCCCCCHHHHHcCCCCCHHHHHHHHHhhcceeeC
Confidence 568999999999999999999999999994 4 99999999999 99985 677777777764
No 35
>COG1491 Predicted RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=98.24 E-value=5.6e-07 Score=87.43 Aligned_cols=79 Identities=22% Similarity=0.331 Sum_probs=57.1
Q ss_pred chhhhhhhhhccccccccCc-----ccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHhccc
Q 005960 573 SARSIRLKNSLVQEYIDFLN-----TASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFGKA 645 (667)
Q Consensus 573 ~~~~~~~~~s~~~~~~v~iN-----tA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~~~ 645 (667)
+.....+-..--..+.-++| |+-.++|+.|||||+|+++.||+.|++.||.|++|+++ | |+. ...+-|..|+
T Consensus 101 pyvve~iV~~~E~rFV~fFN~A~PIt~RLH~LELLpGiGkK~m~~ILeERkkkpFeSFeDi~~Rv~~~~-~p~~~I~~RI 179 (202)
T COG1491 101 PYVVEKIVKENEDRFVKFFNEAEPITLRLHQLELLPGIGKKTMWAILEERKKKPFESFEDIKERVKGLH-DPAKMIAERI 179 (202)
T ss_pred HHHHHHHHHhhhhHHHHHhcccCcchHHHHHHHhcccccHHHHHHHHHHHhcCCCcCHHHHHHHhcCCC-CHHHHHHHHH
Confidence 33333333333346777888 45679999999999999999999999999999999988 6 553 4445555666
Q ss_pred cccccCC
Q 005960 646 AKGIFDR 652 (667)
Q Consensus 646 ~~~~~~~ 652 (667)
..++-++
T Consensus 180 l~El~~~ 186 (202)
T COG1491 180 LDELKDE 186 (202)
T ss_pred HHHhcCC
Confidence 5555444
No 36
>PF04919 DUF655: Protein of unknown function (DUF655); InterPro: IPR007003 This family includes several uncharacterised archaeal proteins.; PDB: 2I5H_A.
Probab=98.18 E-value=6.9e-07 Score=87.22 Aligned_cols=67 Identities=28% Similarity=0.471 Sum_probs=45.6
Q ss_pred ccccccCccc-----CHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHhccccccccCC
Q 005960 585 QEYIDFLNTA-----SREELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFGKAAKGIFDR 652 (667)
Q Consensus 585 ~~~~v~iNtA-----~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~~~~~~~~~~ 652 (667)
+.+.-++|.| -.+.|+.|||||+|+.+.||+.|++.||.|++|+.+ | |+. ...+-|.+|+..++-++
T Consensus 99 ~~FV~FfN~A~PIt~RlH~LeLLPGIGKK~m~~ILeERkkkpFeSFeDi~~Rv~gl~-~p~~~i~~RIl~EL~~~ 172 (181)
T PF04919_consen 99 ERFVDFFNEAQPITLRLHSLELLPGIGKKTMWKILEERKKKPFESFEDIEERVKGLH-DPVKLIVERILEELQGE 172 (181)
T ss_dssp HHHHHHH-----B-SSSBGGGGSTT--HHHHHHHHHHHHHS---SHHHHHHHSTT----HHHHHHHHHHHHHH-T
T ss_pred HHHHHHhhcCCCChHHHHHHhhcccccHHHHHHHHHHHccCCCCCHHHHHHHhccCC-CHHHHHHHHHHHHHcCC
Confidence 4577788854 568999999999999999999999999999999977 7 764 55666777777666544
No 37
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=97.85 E-value=9.9e-06 Score=56.87 Aligned_cols=27 Identities=44% Similarity=0.509 Sum_probs=23.7
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.++.|+.+||+.|||||+++|++|+++
T Consensus 4 g~~pas~eeL~~lpGIG~~tA~~I~~~ 30 (30)
T PF00633_consen 4 GLIPASIEELMKLPGIGPKTANAILSF 30 (30)
T ss_dssp HHHTSSHHHHHTSTT-SHHHHHHHHHH
T ss_pred CcCCCCHHHHHhCCCcCHHHHHHHHhC
Confidence 457899999999999999999999975
No 38
>PF14579 HHH_6: Helix-hairpin-helix motif; PDB: 2HPM_A 2HPI_A 3E0D_A 3F2C_A 3F2B_A 3F2D_A 2HQA_A 2HNH_A.
Probab=97.25 E-value=0.00063 Score=59.86 Aligned_cols=47 Identities=32% Similarity=0.574 Sum_probs=38.3
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHhccc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFGKA 645 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~~~ 645 (667)
|..|+|||++.|++|++.|+..||++++||.+ + +|+.+.++.|..-=
T Consensus 29 l~~Ikglg~~~a~~I~~~R~~g~f~s~~df~~R~~~i~~~~le~Li~aG 77 (90)
T PF14579_consen 29 LSAIKGLGEEVAEKIVEERENGPFKSLEDFIQRLPKINKRQLEALIKAG 77 (90)
T ss_dssp GGGSTTS-HHHHHHHHHHHHCSS-SSHHHHHHHS-TS-HHHHHHHHHTT
T ss_pred HhhcCCCCHHHHHHHHHhHhcCCCCCHHHHHHHHhcCCHHHHHHHHHCC
Confidence 67899999999999999999559999999866 8 99999888876543
No 39
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=97.09 E-value=2.3e-06 Score=98.77 Aligned_cols=207 Identities=24% Similarity=0.199 Sum_probs=121.6
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCC-
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTG- 157 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~- 157 (667)
...|.||.+|.... ....++. ....+++..++| +++|+++++|++++|.- ...++..-.+...|.......
T Consensus 352 ~~~~~~d~~~~~~~-~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~ 423 (568)
T COG5059 352 IEEIKFDLSEDRSE-IEILVFR-EQSQLSQSSLSG----IFAYMQSLKKETETLKS--RIDLIMKSIISGTFERKKLLKE 423 (568)
T ss_pred HHHHHhhhhhhhhh-hhhHHHH-HHHhhhhhhhhh----HHHHHhhhhhhhhcccc--hhhhhhhhhhhhhhhhhhhhhh
Confidence 34699999998764 3344443 466777777888 99999999999999953 223455555466665443322
Q ss_pred ----ceEEEEEEEEecceeeeccCCCCC---ceeeeeCCCCCeEeeCcEEeecCChHHHHHHHHHHHhcccccccCCCCC
Q 005960 158 ----STAEISYYEVYMDRCYDLLEVKTK---EISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDV 230 (667)
Q Consensus 158 ----~~v~vS~~EIYnE~v~DLL~~~~~---~l~i~ed~~g~~~v~gls~v~V~S~~e~~~ll~~g~~~R~~~sT~~N~~ 230 (667)
+...+-+.++|.....++...... ........-+......++ .......+.... ..+...+..+.+..|..
T Consensus 424 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~n~~ 501 (568)
T COG5059 424 EGWKYKSTLQFLRIEIDRLLLLREEELSKKKTKIHKLNKLRHDLSSLLS-SIPEETSDRVES-EKASKLRSSASTKLNLR 501 (568)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhh-hcchhhhhhhhh-hhhccchhhcccchhhh
Confidence 222233334442222222211100 000000000000000000 001111111111 14567788888999999
Q ss_pred CCCcEEEEEEEEEEEeCCCCCceEEEEEEEEECCCCCCccccccccchhhHHhhhhhcHHHHHHHHHHhc
Q 005960 231 SSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLAGNEDNRRTCNEGIRLLESAKINQSLFALSNVIHALN 300 (667)
Q Consensus 231 SSRSH~If~I~v~~~~~~~~~~~~~skL~fVDLAGSEr~~~t~~~g~rl~E~~~INkSL~aL~~vI~aL~ 300 (667)
++++|.+|..+......-.... . ++.|||||+||. -+..-|.++++...+|++|..++.++.++.
T Consensus 502 ~~~~~~~~~~~~~~~~~~~~~~---~-~n~~~~~~~e~~-~s~~~~~~l~~~~~~~k~l~~~~d~~~~~~ 566 (568)
T COG5059 502 SSRSHSKFRDHLNGSNSSTKEL---S-LNQVDLAGSERK-VSQSVGELLRETQSLNKSLSSLGDVIHALG 566 (568)
T ss_pred hcccchhhhhcccchhhhhHHH---H-hhhhhccccccc-hhhhhHHHHHhhHhhhhccccchhhhhhcc
Confidence 9999999987764332111111 1 799999999999 888889999999999999999999998864
No 40
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=97.08 E-value=0.00043 Score=80.79 Aligned_cols=66 Identities=24% Similarity=0.226 Sum_probs=58.2
Q ss_pred hhccccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 581 NSLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 581 ~s~~~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
+..+...=||+|||++.-|..+.|+|+.+|++|++||+++ +|.+-.+|.+| .+|++.+++--+.+.
T Consensus 493 ed~VN~VGVdvNtAsa~lL~~VsGL~kt~A~nIv~~r~~~g~f~~Rk~L~kv~rlg~k~Feq~aGFLr 560 (780)
T COG2183 493 EDCVNAVGVDVNTASASLLSYVSGLNKTLAKNIVAYRDENGAFDNRKQLKKVPRLGPKAFEQCAGFLR 560 (780)
T ss_pred HHHhcccccccccCCHHHHHHHhhhchhHHHHHHHHHhhcCCcccHHHHhcCCCcChhhhhhcceeeE
Confidence 3334455699999999999999999999999999999999 89999999999 999999998766553
No 41
>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]
Probab=97.04 E-value=0.00039 Score=72.77 Aligned_cols=53 Identities=30% Similarity=0.439 Sum_probs=44.6
Q ss_pred ccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHH
Q 005960 585 QEYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQV 638 (667)
Q Consensus 585 ~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~ 638 (667)
..++|+||.|+.++|..+||||.+.|.+||..|.... -.+|||+++|+.-|..
T Consensus 318 d~FPVdvn~A~~~~llRVPGiG~ksa~rIv~~Rr~~r-l~~e~Lkk~GvvlkRa 370 (404)
T COG4277 318 DRFPVDVNKAPYKELLRVPGIGVKSARRIVMTRRRTR-LTLEDLKKLGVVLKRA 370 (404)
T ss_pred ccccccccccCHHHhcccCCCChHHHHHHHHHhhhcc-cCHHHHhhhceeeecc
Confidence 4789999999999999999999999999999995432 2579999999765443
No 42
>PF06514 PsbU: Photosystem II 12 kDa extrinsic protein (PsbU); InterPro: IPR010527 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII extrinsic protein PsbU, which forms part of the OEC in cyanobacteria and red algae. PsbU acts to stabilise the oxygen-evolving machinery of PSII against heat-induced inactivation, which is crucial for cellular thermo-tolerance [].; GO: 0015979 photosynthesis, 0042549 photosystem II stabilization, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 3BZ1_U 3KZI_U 3PRQ_U 2AXT_u 3BZ2_U 4FBY_U 3PRR_U 1S5L_U 3A0H_U 3ARC_U ....
Probab=96.83 E-value=0.00069 Score=59.46 Aligned_cols=56 Identities=30% Similarity=0.250 Sum_probs=44.5
Q ss_pred ccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 587 YIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 587 ~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
.+|+||.|+..+.+.+||+=|.+|.+||..= ||++++|+.++ |++..+-+-|+...
T Consensus 13 ~KIDlNNa~vr~f~~~pGmYPtlA~kIv~na---PY~sveDvl~ipgLse~qK~~lk~~~ 69 (93)
T PF06514_consen 13 QKIDLNNANVRAFRQFPGMYPTLAGKIVSNA---PYKSVEDVLNIPGLSERQKALLKKYE 69 (93)
T ss_dssp TCEETTSS-GGGGCCSTTTTCCHHHHHHHS------SSGGGGCCSTT--HHHHHHHHHHG
T ss_pred CceecccHhHHHHHHCCCCCHHHHHHHHhCC---CCCCHHHHHhccCCCHHHHHHHHHHh
Confidence 5799999999999999999999999999987 99999999999 99988765555443
No 43
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=96.83 E-value=0.0017 Score=52.63 Aligned_cols=46 Identities=30% Similarity=0.551 Sum_probs=37.8
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHH--------Hhhc-CCCHHHHHHHhccc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSD--------LEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~d--------L~~v-Gi~~~~~~~l~~~~ 645 (667)
.++|..|||||+++|++++++ +|.+++| |.++ |||++..++|...+
T Consensus 4 ~~~L~~I~Gig~~~a~~L~~~----G~~t~~~l~~a~~~~L~~i~Gig~~~a~~i~~~~ 58 (60)
T PF14520_consen 4 FDDLLSIPGIGPKRAEKLYEA----GIKTLEDLANADPEELAEIPGIGEKTAEKIIEAA 58 (60)
T ss_dssp HHHHHTSTTCHHHHHHHHHHT----TCSSHHHHHTSHHHHHHTSTTSSHHHHHHHHHHH
T ss_pred HHhhccCCCCCHHHHHHHHhc----CCCcHHHHHcCCHHHHhcCCCCCHHHHHHHHHHH
Confidence 368999999999999999887 6776654 5568 99999999987653
No 44
>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]
Probab=96.79 E-value=0.00088 Score=73.79 Aligned_cols=46 Identities=28% Similarity=0.302 Sum_probs=42.6
Q ss_pred cccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCC
Q 005960 586 EYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLS 634 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~ 634 (667)
+.++++|+|+.++|.+|||||.+.+..|+..| ||++.+||.+. +=+
T Consensus 505 p~pl~vn~~s~~vl~~ipgig~~~~~~I~~~R---p~~s~e~~l~~v~~~ 551 (560)
T COG1031 505 PVPLDVNSASKDVLRAIPGIGKKTLRKILAER---PFKSSEEFLKLVPDG 551 (560)
T ss_pred ccccccccccHHHHHhcccchhhhHHHHHhcC---CccchHHHHhccCcc
Confidence 67899999999999999999999999999999 99999999885 533
No 45
>PF03934 T2SK: Type II secretion system (T2SS), protein K; InterPro: IPR005628 Members of this family are involved in the general secretion pathway. The family includes proteins such as ExeK, PulK, OutX and XcpX.; GO: 0009306 protein secretion, 0016021 integral to membrane; PDB: 3CI0_K.
Probab=96.44 E-value=0.0013 Score=69.38 Aligned_cols=62 Identities=26% Similarity=0.180 Sum_probs=37.0
Q ss_pred cccccCcccCHHHHhcC-CCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCH-HHHHHHhccccc
Q 005960 586 EYIDFLNTASREELVEL-KGIGQRLADYICELRQSSPVKSLSDLEKI-GLST-KQVYNLFGKAAK 647 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~l-pGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~-~~~~~l~~~~~~ 647 (667)
..+||||||+.+-|++| +||++..|++||++|...||++++||... +++. .....+...+.+
T Consensus 182 ~~~iNiNta~~~vL~Al~~~l~~~~a~~ii~~R~~~~~~~~~d~~~~~~l~~~~~~~~~~~~l~v 246 (280)
T PF03934_consen 182 GTKININTAPAEVLAALLPGLSESQAQAIIAARPENGFKSVDDFWAAPALSGSDQSAAIKPLLTV 246 (280)
T ss_dssp S--EETTT-GTHHHHHHT---------HHHHT--TT--S-HHHHHTSGGGSS-HHHHHHHHHEES
T ss_pred CCccChhhCCHHHHHHhccCCCHHHHHHHHHhccccCCCCHHHHHhhhhccCcchhhhhcceeee
Confidence 45799999999999876 55999999999999999999999999998 7765 556666666654
No 46
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=96.38 E-value=0.0035 Score=67.30 Aligned_cols=54 Identities=28% Similarity=0.459 Sum_probs=46.3
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHh-----------hc-CCCHHHHHHHh
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLE-----------KI-GLSTKQVYNLF 642 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~-----------~v-Gi~~~~~~~l~ 642 (667)
.+.+-++.+++..|||||+++|++|.++.+...|..+++|. +| |||++++.+|-
T Consensus 37 l~~~i~~~~~~~~ipgiG~~ia~kI~E~~~tG~~~~le~l~~~~~~~l~~l~~i~GiGpk~a~~l~ 102 (307)
T cd00141 37 LPEPIESLEEAKKLPGIGKKIAEKIEEILETGKLRKLEELREDVPPGLLLLLRVPGVGPKTARKLY 102 (307)
T ss_pred CCcccCCHHHhcCCCCccHHHHHHHHHHHHcCCHHHHHHHhccchHHHHHHHcCCCCCHHHHHHHH
Confidence 34445778899999999999999999999988887777655 79 99999999988
No 47
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=95.61 E-value=0.014 Score=70.88 Aligned_cols=52 Identities=23% Similarity=0.299 Sum_probs=46.2
Q ss_pred hcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhccccccccC
Q 005960 600 VELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAAKGIFD 651 (667)
Q Consensus 600 ~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~~ 651 (667)
-+|||+|+..|+.||+.|++.||-|++||++- ||+...+++++.--..+-++
T Consensus 1384 i~i~GlGe~vA~~IV~AR~Ek~FlS~eDlkkRtkis~t~ie~~~~~G~l~~lp 1436 (1444)
T COG2176 1384 IAIPGLGENVAKSIVEAREEKEFLSKEDLKKRTKISKTHIEKLDEMGCLEGLP 1436 (1444)
T ss_pred eccCChhHHHHHHHHHHhhcCCcCCHHHHHHhcCccHHHHHHHHhcCcccCCC
Confidence 47899999999999999999999999999998 99999999998875555443
No 48
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=95.23 E-value=0.019 Score=57.53 Aligned_cols=54 Identities=19% Similarity=0.236 Sum_probs=42.0
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhc------CCCCCHHHHhhc-CCCHHHHHHHhccccccc
Q 005960 596 REELVELKGIGQRLADYICELRQS------SPVKSLSDLEKI-GLSTKQVYNLFGKAAKGI 649 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~------~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~ 649 (667)
...|..+|||||++|.+|+++=.. .--.+.+.|.++ |||+++.++|...+....
T Consensus 72 f~~L~~i~GIGpk~A~~il~~fg~~~l~~~i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~ 132 (192)
T PRK00116 72 FRLLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKVPGIGKKTAERIVLELKDKL 132 (192)
T ss_pred HHHHhcCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHh
Confidence 457889999999999999986321 123478899999 999999999887765443
No 49
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1.
Probab=94.56 E-value=0.027 Score=38.09 Aligned_cols=21 Identities=43% Similarity=0.657 Sum_probs=18.6
Q ss_pred HHHhcCCCCCHHHHHHHHHHH
Q 005960 597 EELVELKGIGQRLADYICELR 617 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R 617 (667)
++|..|||||+++|++|+++.
T Consensus 1 ~~L~~i~GiG~k~A~~il~~~ 21 (26)
T smart00278 1 EELLKVPGIGPKTAEKILEAX 21 (26)
T ss_pred ChhhhCCCCCHHHHHHHHHhc
Confidence 368999999999999999865
No 50
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=94.51 E-value=0.048 Score=68.26 Aligned_cols=62 Identities=23% Similarity=0.254 Sum_probs=52.0
Q ss_pred ccccCcccCHH-----------HHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhcccccc
Q 005960 587 YIDFLNTASRE-----------ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAAKG 648 (667)
Q Consensus 587 ~~v~iNtA~~~-----------eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~ 648 (667)
.+++||..... =|..|+|||+..|+.||+.|++.||.|++||.+- +++.+.++.|...-+..
T Consensus 1129 lppdin~S~~~~f~i~~~~I~~~l~aI~glg~~~a~~Iv~~R~~g~F~s~~Df~~R~~v~k~~le~L~~~Ga~d 1202 (1213)
T TIGR01405 1129 QPIDLYKSQATEFLIEGNTLIPPFNAIPGLGENVANSIVEARNEKPFLSKEDLKKRTKISKTHIEKLDSMGVLD 1202 (1213)
T ss_pred eCCcccccCCceeEeeCCEEEeehhhcCCCCHHHHHHHHHHHhhCCCCCHHHHHHHhCCCHHHHHHHHhCCCCc
Confidence 46789976542 2678999999999999999998899999999987 99999999987654433
No 51
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=94.36 E-value=0.034 Score=56.94 Aligned_cols=51 Identities=20% Similarity=0.337 Sum_probs=39.6
Q ss_pred HHHHhcCCCCCHHHHHHHHHH----HhcCCCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 596 REELVELKGIGQRLADYICEL----RQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~----R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
.++|..|||||+++|++++++ -+.....+.++|.+| |||.+.+++|...+-
T Consensus 2 ~~~L~~IpGIG~krakkLl~~GF~Sve~Ik~AS~eEL~~V~GIg~k~AekI~e~l~ 57 (232)
T PRK12766 2 PEELEDISGVGPSKAEALREAGFESVEDVRAADQSELAEVDGIGNALAARIKADVG 57 (232)
T ss_pred ccccccCCCcCHHHHHHHHHcCCCCHHHHHhCCHHHHHHccCCCHHHHHHHHHHhc
Confidence 457999999999999999877 111133345578889 999999999988864
No 52
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=94.14 E-value=0.056 Score=54.40 Aligned_cols=47 Identities=30% Similarity=0.477 Sum_probs=39.0
Q ss_pred HHHhcCCCCCHHHHHHHH------HHHhcCCCCCHHHHhhc-CCCHHHHHHHhc
Q 005960 597 EELVELKGIGQRLADYIC------ELRQSSPVKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii------~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
+.|..+.|||||+|-+|+ +.++..--.+..-|.++ |||+|+.++|.-
T Consensus 72 ~~LisVsGIGPK~ALaILs~~~~~el~~aI~~~D~~~L~~vpGIGkKtAeRIIl 125 (196)
T PRK13901 72 EELIGVDGIGPRAALRVLSGIKYNEFRDAIDREDIELISKVKGIGNKMAGKIFL 125 (196)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHH
Confidence 567889999999999999 55655577888999999 999999888543
No 53
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=94.09 E-value=0.041 Score=45.36 Aligned_cols=29 Identities=45% Similarity=0.547 Sum_probs=22.1
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
+|=.|+.++|..+||||+++|+.|.++-+
T Consensus 28 ~l~~a~~e~L~~i~gIG~~~A~si~~ff~ 56 (64)
T PF12826_consen 28 ALMNASVEELSAIPGIGPKIAQSIYEFFQ 56 (64)
T ss_dssp HHCC--HHHHCTSTT--HHHHHHHHHHHH
T ss_pred HHHHcCHHHHhccCCcCHHHHHHHHHHHC
Confidence 45588999999999999999999999864
No 54
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=94.04 E-value=0.068 Score=67.94 Aligned_cols=64 Identities=22% Similarity=0.174 Sum_probs=52.8
Q ss_pred ccccCcccCHH-----------HHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhcccccccc
Q 005960 587 YIDFLNTASRE-----------ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAAKGIF 650 (667)
Q Consensus 587 ~~v~iNtA~~~-----------eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~ 650 (667)
.+++||..... =|..|+|||...|+.|++.|++.||.|++||.+- +++.+.++.|...-+..-|
T Consensus 1352 lp~din~S~~~~f~i~~~~i~~pl~~I~glG~~~a~~Iv~~R~~g~F~s~~Df~~R~~v~k~~ie~L~~~Ga~d~l 1427 (1437)
T PRK00448 1352 QKVDLYKSDATEFIIEGDSLIPPFNALPGLGENVAKSIVEAREEGEFLSKEDLRKRTKVSKTLIEKLDELGVLDDL 1427 (1437)
T ss_pred eCCcccccCCcceEeeCCEEEecchhcCCCCHHHHHHHHHHHhcCCCCCHHHHHHHhCCCHHHHHHHHHCCCCcCC
Confidence 46789975542 2568999999999999999998899999999997 9999999998776544433
No 55
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=93.95 E-value=0.052 Score=59.08 Aligned_cols=56 Identities=23% Similarity=0.350 Sum_probs=44.0
Q ss_pred cccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCC------------CCCHHHHhhc-CCCHHHHHHHhc
Q 005960 586 EYIDFLNTASREELVELKGIGQRLADYICELRQSSP------------VKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 586 ~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~p------------f~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
..+.+|.+ .++|..|||||+++|++|.++-+... ...+-+|.+| |||++++.+|-+
T Consensus 39 ~l~~~i~~--~~~l~~lpgIG~~ia~kI~Eil~tG~~~~~~e~l~~~~p~~l~~l~~i~GiGpk~a~~l~~ 107 (334)
T smart00483 39 SLPFPINS--MKDLKGLPGIGDKIKKKIEEIIETGKSSKVLEILNDEVYKSLKLFTNVFGVGPKTAAKWYR 107 (334)
T ss_pred hCCCCCCC--HHHHhcCCCccHHHHHHHHHHHHhCcHHHHHHHhcCcHHHHHHHHHccCCcCHHHHHHHHH
Confidence 34445544 46899999999999999998766542 2347788899 999999999877
No 56
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=93.88 E-value=0.073 Score=60.18 Aligned_cols=45 Identities=20% Similarity=0.366 Sum_probs=38.1
Q ss_pred HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 598 ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 598 eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
=|..|+|||...+++||+.|+++ ||+++.||.. + +++.+.+|.|.
T Consensus 115 GL~aIKGVG~~~i~~Iv~eR~~~g~F~sl~DF~~Rvd~~~vnkr~lE~LI 164 (449)
T PRK07373 115 GLSAVRNLGEGAIESILKAREEGGEFKSLADFCDRVDLRVVNRRALETLI 164 (449)
T ss_pred cchhcCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHhCcccCCHHHHHHHH
Confidence 37889999999999999999987 9999999976 4 47777776654
No 57
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.62 E-value=0.08 Score=53.29 Aligned_cols=50 Identities=26% Similarity=0.319 Sum_probs=38.9
Q ss_pred HHHhcCCCCCHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHH----Hhcccc
Q 005960 597 EELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYN----LFGKAA 646 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~----l~~~~~ 646 (667)
+.|..++||||++|.+|+..= +..-=.+.+-|.+| |||+|+.++ |++++.
T Consensus 73 ~~Li~V~GIGpK~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~ 133 (194)
T PRK14605 73 ETLIDVSGIGPKLGLAMLSAMNAEALASAIISGNAELLSTIPGIGKKTASRIVLELKDKIA 133 (194)
T ss_pred HHHhCCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 568889999999999999852 11123677788899 999999999 556654
No 58
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=93.55 E-value=0.1 Score=55.53 Aligned_cols=72 Identities=26% Similarity=0.356 Sum_probs=50.5
Q ss_pred ccchhhhhhhhhccccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCC------------CCCHHHHhhc-CCCHHH
Q 005960 571 KFSARSIRLKNSLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSSP------------VKSLSDLEKI-GLSTKQ 637 (667)
Q Consensus 571 ~~~~~~~~~~~s~~~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~p------------f~~~~dL~~v-Gi~~~~ 637 (667)
++.+++...-.+.+..+ +.|--|.+|++.|||||+++|+.|.+.=+..- +.++.=|.+| |||.+.
T Consensus 32 ~~r~~~y~~Aasvlk~~--p~~I~S~~ea~~lP~iG~kia~ki~EiletG~l~ele~v~~de~~~~lklFtnifGvG~kt 109 (353)
T KOG2534|consen 32 EDRARAYRRAASVLKSL--PFPITSGEEAEKLPGIGPKIAEKIQEILETGVLRELEAVRNDERSQSLKLFTNIFGVGLKT 109 (353)
T ss_pred HHHHHHHHHHHHHHHhC--CCCcccHHHhcCCCCCCHHHHHHHHHHHHcCCchhHHHHhcchhHHHHHHHHHHhccCHHH
Confidence 44455555555555544 45667889999999999999999987654433 3344445678 999999
Q ss_pred HHHHhcc
Q 005960 638 VYNLFGK 644 (667)
Q Consensus 638 ~~~l~~~ 644 (667)
.++|-..
T Consensus 110 A~~Wy~~ 116 (353)
T KOG2534|consen 110 AEKWYRE 116 (353)
T ss_pred HHHHHHh
Confidence 9888654
No 59
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=92.85 E-value=0.085 Score=42.71 Aligned_cols=27 Identities=44% Similarity=0.586 Sum_probs=23.5
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
+|=.|+.++|..+||||++.|++|+++
T Consensus 31 ~l~~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 31 DLANADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp HHHTSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred HHHcCCHHHHhcCCCCCHHHHHHHHHH
Confidence 444678999999999999999999975
No 60
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=92.74 E-value=0.052 Score=55.44 Aligned_cols=49 Identities=27% Similarity=0.411 Sum_probs=30.4
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+..+. + +..|. .+..+.+.--..+|. +|-||++|+||||-|.
T Consensus 4 ~~tFdnfv~g~~-N-~~a~~-~~~~ia~~~~~~~~~-l~l~G~~G~GKTHLL~ 52 (219)
T PF00308_consen 4 KYTFDNFVVGES-N-ELAYA-AAKAIAENPGERYNP-LFLYGPSGLGKTHLLQ 52 (219)
T ss_dssp T-SCCCS--TTT-T-HHHHH-HHHHHHHSTTTSSSE-EEEEESTTSSHHHHHH
T ss_pred CCccccCCcCCc-H-HHHHH-HHHHHHhcCCCCCCc-eEEECCCCCCHHHHHH
Confidence 499999886542 4 44553 455555552223455 7889999999999764
No 61
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. This entry represents the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=92.44 E-value=0.15 Score=40.46 Aligned_cols=36 Identities=22% Similarity=0.368 Sum_probs=25.2
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc--CCCHH
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKI--GLSTK 636 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v--Gi~~~ 636 (667)
..+..|.|||++.|++-++ + +|++++||.+- .+...
T Consensus 2 ~~f~~I~GVG~~tA~~w~~-~---G~rtl~Dl~~~~~~Lt~~ 39 (52)
T PF10391_consen 2 KLFTGIWGVGPKTARKWYA-K---GIRTLEDLRKSKSKLTWQ 39 (52)
T ss_dssp HHHHTSTT--HHHHHHHHH-T---T--SHHHHHHGGCGS-HH
T ss_pred cchhhcccccHHHHHHHHH-h---CCCCHHHHhhhhccCCHH
Confidence 5688999999999999988 4 99999999763 44443
No 62
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=91.94 E-value=0.18 Score=50.58 Aligned_cols=46 Identities=28% Similarity=0.429 Sum_probs=34.6
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhc------CCCCCHHHHhhc-CCCHHHHHHHh
Q 005960 597 EELVELKGIGQRLADYICELRQS------SPVKSLSDLEKI-GLSTKQVYNLF 642 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~------~pf~~~~dL~~v-Gi~~~~~~~l~ 642 (667)
.+|..+||||||+|.+|+..=.- .-=.+..-|.++ |||+|+.++|.
T Consensus 72 ~~L~~V~GIGpK~Al~iL~~~~~~el~~aI~~~d~~~L~~ipGiGkKtAerIi 124 (191)
T TIGR00084 72 KELIKVNGVGPKLALAILSNMSPEEFVYAIETEEVKALVKIPGVGKKTAERLL 124 (191)
T ss_pred HHHhCCCCCCHHHHHHHHhcCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHH
Confidence 56889999999999999764210 012456668889 99999999975
No 63
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=91.81 E-value=0.17 Score=57.42 Aligned_cols=87 Identities=26% Similarity=0.409 Sum_probs=54.1
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccC-----------CCCCCChHHHHHHH
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGS-----------EERPGLMPLAMSKI 149 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~-----------~~~~GLipral~~L 149 (667)
.|....-|.|.- +|- ..+..|++.+-.|.-.-+ ..|.|||||||||--- .++.-|......++
T Consensus 4 ~F~l~s~f~PaG-DQP----~AI~~Lv~gi~~g~~~Qt-LLGvTGSGKTfT~AnVI~~~~rPtLV~AhNKTLAaQLy~Ef 77 (663)
T COG0556 4 PFKLHSPFKPAG-DQP----EAIAELVEGIENGLKHQT-LLGVTGSGKTFTMANVIAKVQRPTLVLAHNKTLAAQLYSEF 77 (663)
T ss_pred ceEeccCCCCCC-CcH----HHHHHHHHHHhcCceeeE-EeeeccCCchhHHHHHHHHhCCCeEEEecchhHHHHHHHHH
Confidence 467777787764 443 467788888777765543 4799999999999541 12233333322222
Q ss_pred HhhhccCCceEEEEEEEEecceee
Q 005960 150 LSICQSTGSTAEISYYEVYMDRCY 173 (667)
Q Consensus 150 F~~~~~~~~~v~vS~~EIYnE~v~ 173 (667)
=+...++.....||||..|+-..|
T Consensus 78 k~fFP~NaVEYFVSYYDYYQPEAY 101 (663)
T COG0556 78 KEFFPENAVEYFVSYYDYYQPEAY 101 (663)
T ss_pred HHhCcCcceEEEeeeccccCcccc
Confidence 222234556778999998875544
No 64
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=91.79 E-value=0.2 Score=62.23 Aligned_cols=45 Identities=31% Similarity=0.514 Sum_probs=40.5
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
|..|+|||...|+.||+.|+..||++++||.+- +++.+.++.|..
T Consensus 818 l~~Ikgvg~~~~~~Iv~~R~~g~f~s~~Df~~R~~~~~~~le~Li~ 863 (1046)
T PRK05672 818 LRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALAD 863 (1046)
T ss_pred hhhcCCCCHHHHHHHHHHhhcCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 678999999999999999986699999999885 999999888764
No 65
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=91.42 E-value=0.17 Score=41.73 Aligned_cols=45 Identities=20% Similarity=0.327 Sum_probs=28.4
Q ss_pred cCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 601 ELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 601 ~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
.|||||++.|+.+.++=... -=.+++||..| |||+...+.|.+..
T Consensus 7 GI~~VG~~~ak~L~~~f~sl~~l~~a~~e~L~~i~gIG~~~A~si~~ff 55 (64)
T PF12826_consen 7 GIPGVGEKTAKLLAKHFGSLEALMNASVEELSAIPGIGPKIAQSIYEFF 55 (64)
T ss_dssp TSTT--HHHHHHHHHCCSCHHHHCC--HHHHCTSTT--HHHHHHHHHHH
T ss_pred CCCCccHHHHHHHHHHcCCHHHHHHcCHHHHhccCCcCHHHHHHHHHHH
Confidence 58999999999987532110 12356788899 99999999887654
No 66
>PRK06893 DNA replication initiation factor; Validated
Probab=90.61 E-value=0.14 Score=52.40 Aligned_cols=46 Identities=17% Similarity=0.360 Sum_probs=31.3
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++||.++..+. . ..+ ..+.+.+-.+++..++-||++|+||||.+.
T Consensus 12 ~~~fd~f~~~~~-~-~~~-----~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ 57 (229)
T PRK06893 12 DETLDNFYADNN-L-LLL-----DSLRKNFIDLQQPFFYIWGGKSSGKSHLLK 57 (229)
T ss_pred cccccccccCCh-H-HHH-----HHHHHHhhccCCCeEEEECCCCCCHHHHHH
Confidence 489999997652 2 111 122233334677789999999999999765
No 67
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=90.40 E-value=0.33 Score=48.51 Aligned_cols=54 Identities=19% Similarity=0.362 Sum_probs=27.2
Q ss_pred cccCHHHHhcCCCCCHHHHHHHH-HHHhcC-CC----CCHHHHh----hcCCCHHHHHHHhccc
Q 005960 592 NTASREELVELKGIGQRLADYIC-ELRQSS-PV----KSLSDLE----KIGLSTKQVYNLFGKA 645 (667)
Q Consensus 592 NtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~-pf----~~~~dL~----~vGi~~~~~~~l~~~~ 645 (667)
.+-+...|.++||||+|+|++|| +.|.+- .. ...+|.. ..|.+++.+.+...++
T Consensus 103 ~~~D~~~L~~vpGIGkKtAeRIilELkdK~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 103 SLGDESVLKKVPGIGPKSAKRIIAELSDAKTKLENVSDDKSEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HhCCHHHHhhCCCCCHHHHHHHHHHHHHHhhccCCCCccHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 34555566666666666666665 333332 11 1122322 2266666666655554
No 68
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=90.35 E-value=0.22 Score=44.27 Aligned_cols=36 Identities=25% Similarity=0.365 Sum_probs=29.1
Q ss_pred cccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 592 NTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 592 NtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..+...+|+.|||||+++|+-.+.. +|.+++||+.-
T Consensus 7 ~~~~~~~L~~iP~IG~a~a~DL~~L----Gi~s~~~L~g~ 42 (93)
T PF11731_consen 7 KRAGLSDLTDIPNIGKATAEDLRLL----GIRSPADLKGR 42 (93)
T ss_pred HHHHHHHHhcCCCccHHHHHHHHHc----CCCCHHHHhCC
Confidence 3456789999999999999977643 89999988654
No 69
>PRK08609 hypothetical protein; Provisional
Probab=90.03 E-value=0.28 Score=57.24 Aligned_cols=49 Identities=33% Similarity=0.554 Sum_probs=36.6
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCC-----------CCHHHHhhc-CCCHHHHHHHhcc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPV-----------KSLSDLEKI-GLSTKQVYNLFGK 644 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf-----------~~~~dL~~v-Gi~~~~~~~l~~~ 644 (667)
..+|..|||||+++|++|-++=+...+ ..+-+|.+| ||||+++.+|-..
T Consensus 47 ~~~l~~ipgIG~~ia~kI~Eil~tG~~~~le~l~~~~p~~~~~l~~i~GiGpk~a~~l~~~ 107 (570)
T PRK08609 47 IDDFTKLKGIGKGTAEVIQEYRETGESSVLQELKKEVPEGLLPLLKLPGLGGKKIAKLYKE 107 (570)
T ss_pred hhhhccCCCcCHHHHHHHHHHHHhCChHHHHHHHhhCcHHHHHHhcCCCCCHHHHHHHHHH
Confidence 358889999999999998887654422 245566778 9999988887654
No 70
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.80 E-value=0.39 Score=48.16 Aligned_cols=55 Identities=22% Similarity=0.317 Sum_probs=32.7
Q ss_pred CcccCHHHHhcCCCCCHHHHHHHH-HHHhcC-CCC-----CHHHH----hhcCCCHHHHHHHhccc
Q 005960 591 LNTASREELVELKGIGQRLADYIC-ELRQSS-PVK-----SLSDL----EKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 591 iNtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~-pf~-----~~~dL----~~vGi~~~~~~~l~~~~ 645 (667)
|..-+...|.++||||+|+|++|| +.+.+- .+. ..+|+ ...|..++.+++...++
T Consensus 102 I~~~D~~~L~~vpGIGkKtAerIilELkdK~~~~~~~~~~~~~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 102 IASQDVEGLSKLPGISKKTAERIVMELKDEFESAGIKDMRIYHESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHhCCHHHHhhCCCCCHHHHHHHHHHHHHhhccccCCCcccHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 345566777778888888888776 333332 221 22333 33377777777776665
No 71
>PRK08609 hypothetical protein; Provisional
Probab=89.54 E-value=0.41 Score=55.87 Aligned_cols=48 Identities=17% Similarity=0.257 Sum_probs=39.5
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh---------c-CCCHHHHHHHhccc
Q 005960 595 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEK---------I-GLSTKQVYNLFGKA 645 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~---------v-Gi~~~~~~~l~~~~ 645 (667)
..-+|..||||||++|.++-+.- ++++++||.+ + |+|+++.++|...+
T Consensus 86 ~~~~l~~i~GiGpk~a~~l~~~l---Gi~tl~~L~~a~~~~~~~~~~gfg~k~~~~il~~i 143 (570)
T PRK08609 86 GLLPLLKLPGLGGKKIAKLYKEL---GVVDKESLKEACENGKVQALAGFGKKTEEKILEAV 143 (570)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHh---CCCCHHHHHHHHHhCChhhccCcchhHHHHHHHHH
Confidence 35578999999999999998777 9999999973 5 78999888775444
No 72
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.49 E-value=0.42 Score=48.47 Aligned_cols=46 Identities=17% Similarity=0.312 Sum_probs=35.1
Q ss_pred HHHhcCCCCCHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHHHh
Q 005960 597 EELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYNLF 642 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~l~ 642 (667)
+.|..+.|||||+|-+|+..= +..-=.+..-|.++ |||+|+.++|.
T Consensus 74 ~~Li~V~GIGpK~Al~iLs~~~~~~l~~aI~~~D~~~L~~ipGIGkKtAerIi 126 (203)
T PRK14602 74 IVLISISKVGAKTALAILSQFRPDDLRRLVAEEDVAALTRVSGIGKKTAQHIF 126 (203)
T ss_pred HHHhCCCCcCHHHHHHHHhhCCHHHHHHHHHhCCHHHHhcCCCcCHHHHHHHH
Confidence 457888999999999999851 11145677888899 99999988744
No 73
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=89.39 E-value=0.19 Score=58.82 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=35.3
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceecc
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G 134 (667)
..|+||.++.... + ...| ..+..+++..-.+||. ||-||.+|+||||.+..
T Consensus 283 ~~~TFDnFvvG~s-N-~~A~-aaa~avae~~~~~~Np-L~LyG~sGsGKTHLL~A 333 (617)
T PRK14086 283 PKYTFDTFVIGAS-N-RFAH-AAAVAVAEAPAKAYNP-LFIYGESGLGKTHLLHA 333 (617)
T ss_pred CCCCHhhhcCCCc-c-HHHH-HHHHHHHhCccccCCc-EEEECCCCCCHHHHHHH
Confidence 4699998886542 4 3344 3455555554456776 89999999999998753
No 74
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=89.16 E-value=0.47 Score=59.45 Aligned_cols=57 Identities=23% Similarity=0.316 Sum_probs=44.6
Q ss_pred cccccCcccCH----H------HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 586 EYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 586 ~~~v~iNtA~~----~------eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
..+.+||.... + =|..|+|||+..|++||+.|++. ||+++.||.+ + +++.+.++.|.
T Consensus 799 vl~pdin~S~~~f~~~~~~I~~gL~~Ikgvg~~~~~~I~~~R~~~g~f~s~~Df~~R~~~~~~~k~~le~Li 870 (1135)
T PRK05673 799 VLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKRVLESLI 870 (1135)
T ss_pred EeCCceeccCCccEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhccCCCCHHHHHHHH
Confidence 34568885332 1 36789999999999999999987 9999999976 4 47777777665
No 75
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=89.14 E-value=0.46 Score=59.24 Aligned_cols=57 Identities=14% Similarity=0.190 Sum_probs=45.3
Q ss_pred cccccCcccCH----H------HHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 586 EYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 586 ~~~v~iNtA~~----~------eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
..+.+||.-.. + =|..|+|||...|++||+.|++.||+++.||.+ + ++..+.++.|.
T Consensus 781 vlpPdin~S~~~f~~~~~~Ir~gL~~Ikgvg~~~~~~Iv~~R~~g~f~s~~Df~~R~~~~~~nk~~le~Li 851 (1107)
T PRK06920 781 VLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFV 851 (1107)
T ss_pred EeCCeeecCCCCcEEECCeeEechhhcCCCCHHHHHHHHHHhhcCCCCCHHHHHHHHhccCCCHHHHHHHH
Confidence 45667885431 1 367899999999999999998889999999965 4 48888888775
No 76
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=88.79 E-value=0.58 Score=57.59 Aligned_cols=58 Identities=22% Similarity=0.330 Sum_probs=44.6
Q ss_pred cccccCcccCH------H----HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHhc
Q 005960 586 EYIDFLNTASR------E----ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFG 643 (667)
Q Consensus 586 ~~~v~iNtA~~------~----eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~ 643 (667)
..+.+||.-.. + =|..|+|||...|++||+.|++. ||+++.||.+ + ++..+.++.|..
T Consensus 732 vlpPdin~S~~~~~~~~~~Ir~gL~~Ikgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~~k~~le~Li~ 804 (973)
T PRK07135 732 VYSPDINFSTENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGISKSIIEKLIK 804 (973)
T ss_pred EeCCceeccCCcceeECCEEEECccccCCcCHHHHHHHHHHHHhCCCCCCHHHHHHhccccCCCHHHHHHHHH
Confidence 34567775332 1 25778999999999999999987 9999999976 5 577777776653
No 77
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.68 E-value=0.46 Score=48.00 Aligned_cols=49 Identities=22% Similarity=0.255 Sum_probs=35.4
Q ss_pred HHHhcCCCCCHHHHHHHHHH-H-----hcCCCCCHHHHhhc-CCCHHHHHHH----hccc
Q 005960 597 EELVELKGIGQRLADYICEL-R-----QSSPVKSLSDLEKI-GLSTKQVYNL----FGKA 645 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~-R-----~~~pf~~~~dL~~v-Gi~~~~~~~l----~~~~ 645 (667)
+.|..+.|||||+|-+|+.. . +..-=.+..-|.++ |||+|+.++| ++|+
T Consensus 72 ~~L~~V~GIGpK~AL~iLs~~~~~~l~~aI~~~D~~~L~kvpGIGkKtAerIilELkdK~ 131 (197)
T PRK14603 72 ELLLGVSGVGPKLALALLSALPPALLARALLEGDARLLTSASGVGKKLAERIALELKGKV 131 (197)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHh
Confidence 45778899999999999873 2 11134677778888 9999988774 5555
No 78
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=88.65 E-value=0.56 Score=48.98 Aligned_cols=58 Identities=22% Similarity=0.267 Sum_probs=47.3
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccccc
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKAAK 647 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 647 (667)
.++..-..-|..+||||+++|.+++++.... -..+.++|.+| |||++....|+..+..
T Consensus 175 t~~e~q~~il~s~pgig~~~a~~ll~~fgS~~~~~tas~~eL~~v~gig~k~A~~I~~~~~t 236 (254)
T COG1948 175 TLKELQLYILESIPGIGPKLAERLLKKFGSVEDVLTASEEELMKVKGIGEKKAREIYRFLRT 236 (254)
T ss_pred chHHHHHHHHHcCCCccHHHHHHHHHHhcCHHHHhhcCHHHHHHhcCccHHHHHHHHHHHhc
Confidence 3444555668899999999999999988644 56778899999 9999999999987765
No 79
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.62 E-value=0.53 Score=58.53 Aligned_cols=58 Identities=29% Similarity=0.409 Sum_probs=45.2
Q ss_pred ccccccCcccCH----H------HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 585 QEYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 585 ~~~~v~iNtA~~----~------eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
...+.+||.... + =|..|+|||+..|++||+.|++. ||+++.||.+ + +++.+.++.|.
T Consensus 802 ~v~ppdin~S~~~f~~~~~~i~~gl~~Ikgig~~~~~~Iv~~R~~~~~f~s~~Df~~R~~~~~~~~~~le~Li 874 (1022)
T TIGR00594 802 EVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKKLNKKVLEALI 874 (1022)
T ss_pred EEECCcccccCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhcccCCCHHHHHHHH
Confidence 345678885432 1 36789999999999999999976 9999999976 4 47777777665
No 80
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=88.43 E-value=0.38 Score=48.31 Aligned_cols=56 Identities=18% Similarity=0.312 Sum_probs=41.8
Q ss_pred CcccCHHHHhcCCCCCHHHHHHHHHH-HhcCC-CC-----------CHHHHhh----cCCCHHHHHHHhcccc
Q 005960 591 LNTASREELVELKGIGQRLADYICEL-RQSSP-VK-----------SLSDLEK----IGLSTKQVYNLFGKAA 646 (667)
Q Consensus 591 iNtA~~~eL~~lpGIG~~~A~~Ii~~-R~~~p-f~-----------~~~dL~~----vGi~~~~~~~l~~~~~ 646 (667)
|..++.++|..+||||+++|++|+.. +.+.. +. .++|+.. .|++++.+.++.+++.
T Consensus 102 i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~~~~~~~~~~~~~~~~~~~ev~~aL~~LG~~~~~a~~~~~~~~ 174 (192)
T PRK00116 102 IANGDVKALTKVPGIGKKTAERIVLELKDKLAAAASAAAAAAAASSALEEAVSALVALGYKPKEASKAVAKIL 174 (192)
T ss_pred HHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhhcccccccccccccchHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 56789999999999999999999944 43332 21 1455543 3999999999888774
No 81
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.24 E-value=0.73 Score=46.24 Aligned_cols=49 Identities=18% Similarity=0.212 Sum_probs=38.5
Q ss_pred HHHhcCCCCCHHHHHHHHHH------HhcCCCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 597 EELVELKGIGQRLADYICEL------RQSSPVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~------R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
+.|..+.|||||+|-+|+.. .+..--.++.-|.++ |||+|+.++|.-.+
T Consensus 73 ~~Li~V~GIGpK~AL~iLs~~~~~el~~aI~~~D~~~L~~vpGIGkKtAerIilEL 128 (188)
T PRK14606 73 LSLTKVSRLGPKTALKIISNEDAETLVTMIASQDVEGLSKLPGISKKTAERIVMEL 128 (188)
T ss_pred HHHhccCCccHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHH
Confidence 56788999999999999953 222256888999999 99999988854333
No 82
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=88.19 E-value=0.64 Score=58.37 Aligned_cols=58 Identities=26% Similarity=0.327 Sum_probs=44.8
Q ss_pred cccccCcccCHH----------HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHhc
Q 005960 586 EYIDFLNTASRE----------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFG 643 (667)
Q Consensus 586 ~~~v~iNtA~~~----------eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~ 643 (667)
..+.+||.-..+ =|..|+|||+..|++||+.|++. ||+|+.||.+ + +++.+.++.|..
T Consensus 814 vlpPdIN~S~~~f~~~~~~Ir~GL~aIkgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~nk~~le~LI~ 886 (1170)
T PRK07374 814 VMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAARDSDGPFKSLADLCDRLPSNVLNRRSLESLIH 886 (1170)
T ss_pred EeCCceecCCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhccccCCHHHHHHHHH
Confidence 456688854321 26789999999999999999986 9999999976 4 377777777653
No 83
>PRK06620 hypothetical protein; Validated
Probab=88.14 E-value=0.25 Score=50.27 Aligned_cols=48 Identities=29% Similarity=0.477 Sum_probs=32.5
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCC---EEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRN---ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N---~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||.++..+. + +..|. .++.+.+. . |+| -.++-||++|+||||.+.
T Consensus 12 ~~tfd~Fvvg~~-N-~~a~~-~~~~~~~~-~-~~~~~~~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 12 KYHPDEFIVSSS-N-DQAYN-IIKNWQCG-F-GVNPYKFTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred CCCchhhEeccc-H-HHHHH-HHHHHHHc-c-ccCCCcceEEEECCCCCCHHHHHH
Confidence 599999887653 3 44564 33334331 1 343 458999999999999886
No 84
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.01 E-value=0.53 Score=47.47 Aligned_cols=49 Identities=16% Similarity=0.281 Sum_probs=34.7
Q ss_pred HHHhcCCCCCHHHHHHHHHHH---h---cCCCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 597 EELVELKGIGQRLADYICELR---Q---SSPVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R---~---~~pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
..|..+.|||||+|-+|+..= + ..-=.+..-|.++ |||+|+.++|.-.+
T Consensus 73 ~~Li~V~GIGpK~Al~iLs~~~~~el~~aI~~~D~~~L~kvpGIGkKtAerIilEL 128 (195)
T PRK14604 73 ELLIGVSGVGPKAALNLLSSGTPDELQLAIAGGDVARLARVPGIGKKTAERIVLEL 128 (195)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHH
Confidence 457788999999999998731 1 1134677778888 99999887754333
No 85
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=87.99 E-value=0.31 Score=49.14 Aligned_cols=58 Identities=24% Similarity=0.346 Sum_probs=39.6
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHH-HHhcC-CC-------CCHHHH----hhcCCCHHHHHHHhcccc
Q 005960 589 DFLNTASREELVELKGIGQRLADYICE-LRQSS-PV-------KSLSDL----EKIGLSTKQVYNLFGKAA 646 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~-~R~~~-pf-------~~~~dL----~~vGi~~~~~~~l~~~~~ 646 (667)
.-|..-+...|.++||||+|+|++||- .+.+- .+ ..++|. ...|.....+.+....+.
T Consensus 99 ~aI~~~D~~~L~~vpGIGkKtAeRIIlELkdKl~~~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~al~~v~ 169 (196)
T PRK13901 99 DAIDREDIELISKVKGIGNKMAGKIFLKLRGKLVKNDELESSLFKFKELEQSIVNMGFDRKLVNSAIKEIM 169 (196)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhhccccccccCcccHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 345567889999999999999999974 44433 22 123343 334888888888776653
No 86
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=87.96 E-value=0.46 Score=55.31 Aligned_cols=53 Identities=17% Similarity=0.194 Sum_probs=42.4
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHHhccc
Q 005960 593 TASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~~ 645 (667)
......|..|||||+++.++++++=... .=.|+|||.+|||+.+..++|.+.+
T Consensus 510 ~~~~S~Ld~I~GiG~kr~~~Ll~~Fgs~~~ik~As~eeL~~vgi~~~~A~~I~~~l 565 (567)
T PRK14667 510 EGLKDILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELKKLGIPPSVKQEVKKYL 565 (567)
T ss_pred ccccCccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHcCCCHHHHHHHHHHh
Confidence 3345789999999999999999874322 4467788888999999999998764
No 87
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=87.74 E-value=0.33 Score=48.45 Aligned_cols=41 Identities=32% Similarity=0.542 Sum_probs=32.5
Q ss_pred HHHhcCCCCCHHHHHHHH------------HHHhcCCCCCHHHHhhc-CCCHHHHHHHhc
Q 005960 597 EELVELKGIGQRLADYIC------------ELRQSSPVKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii------------~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
+.|..+.|||||+|-+|+ +.- +..-|.++ |||+|+.++|.-
T Consensus 73 ~~Li~VsGIGpK~Al~ILs~~~~~el~~aI~~~------D~~~L~~vpGIGkKtAeRIil 126 (183)
T PRK14601 73 EMLLKVNGIGANTAMAVCSSLDVNSFYKALSLG------DESVLKKVPGIGPKSAKRIIA 126 (183)
T ss_pred HHHhccCCccHHHHHHHHcCCCHHHHHHHHHhC------CHHHHhhCCCCCHHHHHHHHH
Confidence 568889999999998775 433 55669999 999999888543
No 88
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=87.71 E-value=0.7 Score=58.01 Aligned_cols=57 Identities=26% Similarity=0.351 Sum_probs=44.1
Q ss_pred cccccCcccCH----H------HHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 586 EYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 586 ~~~v~iNtA~~----~------eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
..+.+||.-.. + =|..|+|||+..|++||+.|++. ||+|+.||.+ + ++..+.++.|.
T Consensus 803 vlpPdIN~S~~~f~v~~~~Ir~gL~aIkgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~nk~~le~Li 874 (1151)
T PRK06826 803 VLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKGKFKSLVDFCERVDTSQINKRAVESLI 874 (1151)
T ss_pred EeCCceecCCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhcccCCCHHHHHHHH
Confidence 34568885332 1 36789999999999999999986 9999999976 4 37777776665
No 89
>PF02371 Transposase_20: Transposase IS116/IS110/IS902 family; InterPro: IPR003346 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. It is often found with the transposase IS111A/IS1328/IS1533 family (see IPR002525 from INTERPRO) [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=87.52 E-value=0.4 Score=41.77 Aligned_cols=42 Identities=26% Similarity=0.283 Sum_probs=36.0
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHH
Q 005960 597 EELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQV 638 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~ 638 (667)
+-|.+|||||+..|..|+.+=-.- .|.+..+|... |+.|...
T Consensus 2 ~~l~sipGig~~~a~~llaeigd~~rF~~~~~l~~~~Gl~P~~~ 45 (87)
T PF02371_consen 2 ELLTSIPGIGPITAATLLAEIGDISRFKSAKQLASYAGLAPRPY 45 (87)
T ss_pred chhcCCCCccHHHHHHHHHHHcCchhcccchhhhhccccccccc
Confidence 568999999999999999977554 89999999997 9877653
No 90
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=87.52 E-value=0.49 Score=55.16 Aligned_cols=51 Identities=16% Similarity=0.169 Sum_probs=41.9
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 595 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
....|..|||||+++.++++++=... .-.|++||.+| ||+.+..++|...+
T Consensus 512 ~~s~L~~I~GiG~kr~~~LL~~Fgs~~~I~~As~eeL~~v~gi~~~~A~~I~~~l 566 (574)
T PRK14670 512 IKLNYTKIKGIGEKKAKKILKSLGTYKDILLLNEDEIAEKMKINIKMAKKIKKFA 566 (574)
T ss_pred cccccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 44589999999999999999874322 45677899999 99999999988765
No 91
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=87.51 E-value=0.81 Score=46.39 Aligned_cols=59 Identities=20% Similarity=0.307 Sum_probs=40.0
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHhcC--CC---------------CC-------HHHHhhcCCCHHHHHHHhccc
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQSS--PV---------------KS-------LSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~--pf---------------~~-------~~dL~~vGi~~~~~~~l~~~~ 645 (667)
-|.+.+...|.++||||+|+|++|+-.=+.+ .| .+ ++-|..+|..++.+++...++
T Consensus 101 aI~~~d~~~L~k~PGIGkKtAerivleLk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~AL~~LGy~~~e~~~av~~v 180 (201)
T COG0632 101 AIANEDVKALSKIPGIGKKTAERIVLELKGKLAAFLKGDGGSPAEDLSLDESSPALEEAVEALVALGYKEKEIKKAVKKV 180 (201)
T ss_pred HHHhcChHhhhcCCCCCHHHHHHHHHHHhhhhhhhcccccccccccccccccchhhhHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3556778888899999999999887554322 22 11 344555588888888877777
Q ss_pred ccc
Q 005960 646 AKG 648 (667)
Q Consensus 646 ~~~ 648 (667)
..+
T Consensus 181 ~~~ 183 (201)
T COG0632 181 LKE 183 (201)
T ss_pred Hhc
Confidence 654
No 92
>PF03934 T2SK: Type II secretion system (T2SS), protein K; InterPro: IPR005628 Members of this family are involved in the general secretion pathway. The family includes proteins such as ExeK, PulK, OutX and XcpX.; GO: 0009306 protein secretion, 0016021 integral to membrane; PDB: 3CI0_K.
Probab=87.50 E-value=0.67 Score=48.93 Aligned_cols=63 Identities=25% Similarity=0.295 Sum_probs=45.9
Q ss_pred cccccCccc----------CHHH---HhcCCCCC----HHHHHHHHHHHhcC--------------------------CC
Q 005960 586 EYIDFLNTA----------SREE---LVELKGIG----QRLADYICELRQSS--------------------------PV 622 (667)
Q Consensus 586 ~~~v~iNtA----------~~~e---L~~lpGIG----~~~A~~Ii~~R~~~--------------------------pf 622 (667)
..++|||.+ ..+. |....|+. +.+|.+|++++... ||
T Consensus 73 ~g~fNLN~L~~~~~~~~~~~~~~~~rLl~~lg~~~~~a~~la~~i~Dw~D~d~~~~~~~GaE~~~Y~~~~~py~~~n~~~ 152 (280)
T PF03934_consen 73 QGRFNLNNLVDNDGQIDPEAQAQFQRLLEALGLDEQEAERLADAIVDWIDADSNPTRPGGAEDSYYQSLDPPYRPANRPF 152 (280)
T ss_dssp TSSEEGGGGGS---SSS-HHHHHHHHHHHTTT--HHHHHHHHHHHHHHHSSSSS--SSS---HHHHHTSSS-B----S--
T ss_pred CCeeeHHHhcccccccchHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHhccCcccCCCCccccchhhcCCCCCCcCCCC
Confidence 457899988 4444 45569999 88999999988743 69
Q ss_pred CCHHHHhhc-CCCHHHHHHHhcccccc
Q 005960 623 KSLSDLEKI-GLSTKQVYNLFGKAAKG 648 (667)
Q Consensus 623 ~~~~dL~~v-Gi~~~~~~~l~~~~~~~ 648 (667)
.++++|..| |+++..+++|+..+++-
T Consensus 153 ~~~~EL~~v~G~~~~~~~~l~p~vtv~ 179 (280)
T PF03934_consen 153 ASVSELRLVPGMDPELYERLRPYVTVL 179 (280)
T ss_dssp SSGGGGGGSTT--HHHHHHHTTTEE--
T ss_pred CCHHHHHhhhhcCHHHHHhhcCcEEEe
Confidence 999999999 99999999999999864
No 93
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=87.25 E-value=0.51 Score=39.26 Aligned_cols=29 Identities=34% Similarity=0.455 Sum_probs=22.1
Q ss_pred cccccCcccCHHH-HhcCCCCCHHHHHHHHHH
Q 005960 586 EYIDFLNTASREE-LVELKGIGQRLADYICEL 616 (667)
Q Consensus 586 ~~~v~iNtA~~~e-L~~lpGIG~~~A~~Ii~~ 616 (667)
..+..|.+. ++ |..|||||+++|.+|.++
T Consensus 37 ~l~~~i~~~--~~~~~~l~gIG~~ia~kI~E~ 66 (68)
T PF14716_consen 37 ALPYPITSG--EEDLKKLPGIGKSIAKKIDEI 66 (68)
T ss_dssp HSSS-HHSH--HHHHCTSTTTTHHHHHHHHHH
T ss_pred hCCHhHhhH--HHHHhhCCCCCHHHHHHHHHH
Confidence 344555555 55 999999999999999775
No 94
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.23 E-value=0.27 Score=52.59 Aligned_cols=31 Identities=26% Similarity=0.523 Sum_probs=27.9
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+.+++..+++--++.|+.-|+||||||.||-
T Consensus 113 lP~i~~~~~~~~~GLILVTGpTGSGKSTTlA 143 (353)
T COG2805 113 LPPIVRELAESPRGLILVTGPTGSGKSTTLA 143 (353)
T ss_pred CCHHHHHHHhCCCceEEEeCCCCCcHHHHHH
Confidence 5678888899999999999999999999974
No 95
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=86.87 E-value=0.75 Score=54.42 Aligned_cols=53 Identities=23% Similarity=0.262 Sum_probs=41.3
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 593 TASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
.+...+|..|||||++++++++++=..- --.++++|.+| ||+++..++|...+
T Consensus 633 ~~~~s~L~~IPGIGpkr~k~LL~~FGSle~I~~AS~eELa~V~Gig~k~Ae~I~~~L 689 (694)
T PRK14666 633 AALTGELQRVEGIGPATARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHL 689 (694)
T ss_pred hhhHhHHhhCCCCCHHHHHHHHHHhCCHHHHHhcCHHHHHhcCCcCHHHHHHHHHHH
Confidence 4456889999999999999999962100 12367788899 99999999998764
No 96
>PRK09087 hypothetical protein; Validated
Probab=86.63 E-value=0.4 Score=49.25 Aligned_cols=46 Identities=22% Similarity=0.203 Sum_probs=30.8
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+.... + ..+|.. ++....-.+-.++-||++||||||.+.
T Consensus 17 ~~~~~~Fi~~~~-N-~~a~~~-----l~~~~~~~~~~l~l~G~~GsGKThLl~ 62 (226)
T PRK09087 17 AYGRDDLLVTES-N-RAAVSL-----VDHWPNWPSPVVVLAGPVGSGKTHLAS 62 (226)
T ss_pred CCChhceeecCc-h-HHHHHH-----HHhcccCCCCeEEEECCCCCCHHHHHH
Confidence 489999996542 3 446652 332222235568999999999999875
No 97
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=86.40 E-value=0.44 Score=48.32 Aligned_cols=58 Identities=21% Similarity=0.340 Sum_probs=40.4
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHH-HHHhcCCC----------------CC-HHHHh----hcCCCHHHHHHHhcccc
Q 005960 589 DFLNTASREELVELKGIGQRLADYIC-ELRQSSPV----------------KS-LSDLE----KIGLSTKQVYNLFGKAA 646 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~pf----------------~~-~~dL~----~vGi~~~~~~~l~~~~~ 646 (667)
--|-+.+...|.++||||+|+|++|| +.|.+-++ .+ .+|.. ..|..+..+.+...++.
T Consensus 101 ~aI~~~D~~~L~~ipGIGkKtAerIilELkdK~~~~~~~~~~~~~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~av~~~~ 180 (203)
T PRK14602 101 RLVAEEDVAALTRVSGIGKKTAQHIFLELKYKLKVEGLPAAAVLAGTGAVPGSVFRDALAGLANLGYGEEEARPVLKEVL 180 (203)
T ss_pred HHHHhCCHHHHhcCCCcCHHHHHHHHHHHHHhhccccccccccccccccCCCchHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 45667888999999999999999997 44443221 11 23433 33888888888777763
No 98
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=86.39 E-value=0.65 Score=46.53 Aligned_cols=45 Identities=20% Similarity=0.275 Sum_probs=31.2
Q ss_pred HHHhcCCCCCHHHHHHHHHH------HhcCCCCCHHHHhhc-CCCHHHHHHHh
Q 005960 597 EELVELKGIGQRLADYICEL------RQSSPVKSLSDLEKI-GLSTKQVYNLF 642 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~------R~~~pf~~~~dL~~v-Gi~~~~~~~l~ 642 (667)
+.|..+.|||||+|-+|+.. +...-=.+..-| ++ |||+|+.++|.
T Consensus 73 ~~LisV~GIGpK~Al~iLs~~~~~~l~~aI~~~D~~~L-~vpGIGkKtAerIi 124 (186)
T PRK14600 73 RMLVKVSGVNYKTAMSILSKLTPEQLFSAIVNEDKAAL-KVNGIGEKLINRII 124 (186)
T ss_pred HHHhCcCCcCHHHHHHHHccCCHHHHHHHHHcCCHhhe-ECCCCcHHHHHHHH
Confidence 45677888888888888873 111133566667 78 88888877754
No 99
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=85.87 E-value=0.48 Score=47.79 Aligned_cols=58 Identities=17% Similarity=0.239 Sum_probs=41.1
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHH-HHhcCC-C----------CC-HHHHhh----cCCCHHHHHHHhcccc
Q 005960 589 DFLNTASREELVELKGIGQRLADYICE-LRQSSP-V----------KS-LSDLEK----IGLSTKQVYNLFGKAA 646 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~-~R~~~p-f----------~~-~~dL~~----vGi~~~~~~~l~~~~~ 646 (667)
.-|..-+...|.++||||+|+|++||- .|.+-+ + .+ .+|+.. .|..++.+.+...++.
T Consensus 100 ~aI~~~D~~~L~kvpGIGkKtAerIilELk~K~~~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~ai~~i~ 174 (195)
T PRK14604 100 LAIAGGDVARLARVPGIGKKTAERIVLELKGKIDVRQLSGSTSPAVSALDRELSEILISLGYSAAEAAAAIAALP 174 (195)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 446677889999999999999999874 444322 1 01 345433 3899999988887774
No 100
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=85.71 E-value=0.72 Score=46.73 Aligned_cols=50 Identities=26% Similarity=0.325 Sum_probs=37.8
Q ss_pred HHHhcCCCCCHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 597 EELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
..|..+.|||||+|=+|+..= +..-=.++.-|.++ |||.|+.++|.--+.
T Consensus 73 ~~LisVnGIGpK~ALaiLs~~~~~~l~~aI~~~d~~~L~k~PGIGkKtAerivleLk 129 (201)
T COG0632 73 RLLISVNGIGPKLALAILSNLDPEELAQAIANEDVKALSKIPGIGKKTAERIVLELK 129 (201)
T ss_pred HHHHccCCccHHHHHHHHcCCCHHHHHHHHHhcChHhhhcCCCCCHHHHHHHHHHHh
Confidence 457889999999999999872 22234567778899 999999888654443
No 101
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=85.60 E-value=0.42 Score=53.98 Aligned_cols=49 Identities=24% Similarity=0.330 Sum_probs=32.3
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
..|+||..+-.. .+ ...|. .+..+.+. -..||. +|-||++|+||||.+.
T Consensus 100 ~~~tFdnFv~g~-~n-~~a~~-~~~~~~~~-~~~~n~-l~lyG~~G~GKTHLl~ 148 (440)
T PRK14088 100 PDYTFENFVVGP-GN-SFAYH-AALEVAKN-PGRYNP-LFIYGGVGLGKTHLLQ 148 (440)
T ss_pred CCCcccccccCC-ch-HHHHH-HHHHHHhC-cCCCCe-EEEEcCCCCcHHHHHH
Confidence 459999988543 23 44454 34444433 123665 9999999999999875
No 102
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=85.51 E-value=0.51 Score=47.66 Aligned_cols=58 Identities=22% Similarity=0.314 Sum_probs=40.4
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHH-HHHhcC-CC--------------C-CHHHHhh----cCCCHHHHHHHhcccc
Q 005960 589 DFLNTASREELVELKGIGQRLADYIC-ELRQSS-PV--------------K-SLSDLEK----IGLSTKQVYNLFGKAA 646 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~-pf--------------~-~~~dL~~----vGi~~~~~~~l~~~~~ 646 (667)
.-|-..+...|.++||||+|+|++|| +.|.+- .+ . ..+|+.. .|..++.+++...++.
T Consensus 99 ~aI~~~D~~~L~kvpGIGkKtAerIilELkdK~~~~~~~~~~~~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~al~~i~ 177 (197)
T PRK14603 99 RALLEGDARLLTSASGVGKKLAERIALELKGKVPEHLLAGPAGGGGTKVSSTAAEDAVLALLALGFREAQVRSVVAELL 177 (197)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhhhhcccccccccccccCCccHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 34557788899999999999999997 444432 11 0 1244433 3888888888887763
No 103
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=85.45 E-value=0.83 Score=53.77 Aligned_cols=66 Identities=15% Similarity=0.216 Sum_probs=45.2
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHHhccccccccCCCCCCCCccc
Q 005960 594 ASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDRPESATPSCQ 661 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 661 (667)
.....|..|||||++++++++++=... .-.+++||.+| |+.+..++|...+. ..|..|++-|.-+|
T Consensus 549 ~~~S~L~~IpGIG~kr~~~LL~~FgSi~~I~~As~eeL~~v-i~~k~A~~I~~~l~-~~~~~~~~~~~~~~ 617 (624)
T PRK14669 549 DRTSELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAV-VGRAAAEAIIAHFT-TEEAAPEPVASVAQ 617 (624)
T ss_pred HHHHHHhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHHH-hCHHHHHHHHHHhc-CcCCCcchhhhhhc
Confidence 345789999999999999999863211 33456777777 88999999988774 34444444333344
No 104
>PRK05642 DNA replication initiation factor; Validated
Probab=84.80 E-value=0.59 Score=48.13 Aligned_cols=48 Identities=15% Similarity=0.307 Sum_probs=28.3
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+... + ...+. .++.+.+.. .++ ...++-||++|+||||-+.
T Consensus 15 ~~tfdnF~~~~--~-~~a~~-~~~~~~~~~-~~~~~~~l~l~G~~G~GKTHLl~ 63 (234)
T PRK05642 15 DATFANYYPGA--N-AAALG-YVERLCEAD-AGWTESLIYLWGKDGVGRSHLLQ 63 (234)
T ss_pred cccccccCcCC--h-HHHHH-HHHHHhhcc-ccCCCCeEEEECCCCCCHHHHHH
Confidence 48999988542 2 22222 222222211 122 2467899999999999764
No 105
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=84.75 E-value=1.3 Score=54.46 Aligned_cols=46 Identities=17% Similarity=0.194 Sum_probs=39.4
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh---c-CCCHHHHHHHhcc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK---I-GLSTKQVYNLFGK 644 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~---v-Gi~~~~~~~l~~~ 644 (667)
|..|+|||+..|++|++.|+..||+++.|+.. . +++.+.++.|..-
T Consensus 754 L~~Ikgig~~~~~~I~~~R~~g~f~~~~df~~r~~~~~i~k~~le~LI~a 803 (971)
T PRK05898 754 FNTIKGFGDELLKKIKSALQNKTFSDFISYIDALKKNNVSLSNIEILINV 803 (971)
T ss_pred chhcCCcCHHHHHHHHHHHhcCCCCCHHHHHHHhhhcCCCHHHHHHHHHC
Confidence 67899999999999999998679999999853 3 7898888887653
No 106
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=84.35 E-value=0.91 Score=53.59 Aligned_cols=52 Identities=13% Similarity=0.101 Sum_probs=42.8
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccccc
Q 005960 596 REELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKAAK 647 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 647 (667)
...|..|||||++++++++++=... .-.+++||.+| ||+.+..++|....+.
T Consensus 607 ~s~L~~IpGiG~kr~~~LL~~FgS~~~i~~As~eel~~v~gi~~~~A~~i~~~~~~ 662 (691)
T PRK14672 607 VLSFERLPHVGKVRAHRLLAHFGSFRSLQSATPQDIATAIHIPLTQAHTILHAATR 662 (691)
T ss_pred ccccccCCCCCHHHHHHHHHHhcCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHhhc
Confidence 4678999999999999999874422 44677899999 9999999999987763
No 107
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=83.96 E-value=1.3 Score=47.62 Aligned_cols=47 Identities=38% Similarity=0.617 Sum_probs=35.9
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCC-----------CHHHHhhc-CCCHHHHHHHhccc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVK-----------SLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~-----------~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
|..|||||+.+|..|-+|.+..-++ .+++|.++ |+||+.+..|-..+
T Consensus 55 ~t~l~gIGk~ia~~I~e~l~tG~~~~le~lk~~~P~gl~~Ll~v~GlGpkKi~~Ly~el 113 (326)
T COG1796 55 LTELPGIGKGIAEKISEYLDTGEVKKLEALKKEVPEGLEPLLKVPGLGPKKIVSLYKEL 113 (326)
T ss_pred cCCCCCccHHHHHHHHHHHHcCccHHHHHHHHhCCcchHHHhhCCCCCcHHHHHHHHHH
Confidence 4579999999999999998765333 35667778 89998877765544
No 108
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=83.90 E-value=1.2 Score=48.63 Aligned_cols=32 Identities=19% Similarity=0.357 Sum_probs=28.4
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
.-+|..|||||+++|+++.+ - ++++++||.+.
T Consensus 88 l~~l~~i~GiGpk~a~~l~~-l---Gi~tl~eL~~a 119 (334)
T smart00483 88 LKLFTNVFGVGPKTAAKWYR-K---GIRTLEELKKN 119 (334)
T ss_pred HHHHHccCCcCHHHHHHHHH-h---CCCCHHHHHhc
Confidence 46889999999999999977 5 99999999874
No 109
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=83.73 E-value=0.6 Score=46.77 Aligned_cols=55 Identities=22% Similarity=0.394 Sum_probs=37.9
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHH-HHHhcC-CCC--------CHHHHh----hcCCCHHHHHHHhccc
Q 005960 590 FLNTASREELVELKGIGQRLADYIC-ELRQSS-PVK--------SLSDLE----KIGLSTKQVYNLFGKA 645 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~-pf~--------~~~dL~----~vGi~~~~~~~l~~~~ 645 (667)
-|-+-+.+.| ++||||+|+|++|| +.|.+- .+. ..+|+. ..|..++.+.+...++
T Consensus 101 aI~~~D~~~L-~vpGIGkKtAerIilELk~K~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~al~~v 169 (186)
T PRK14600 101 AIVNEDKAAL-KVNGIGEKLINRIITELQYKVSKLEINETNFIIINDDALAALISLGYEKTKAFNAIQKI 169 (186)
T ss_pred HHHcCCHhhe-ECCCCcHHHHHHHHHHHHHHhhccccccccccccHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3456777889 99999999999997 444432 221 223433 2388888888887776
No 110
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=83.49 E-value=0.64 Score=51.66 Aligned_cols=51 Identities=22% Similarity=0.308 Sum_probs=31.1
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
...|+||....... + ...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 104 ~~~~tfd~fi~g~~-n-~~a~~-~~~~~~~~~~~~~n-~l~l~G~~G~GKThL~~ 154 (405)
T TIGR00362 104 NPKYTFDNFVVGKS-N-RLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 154 (405)
T ss_pred CCCCcccccccCCc-H-HHHHH-HHHHHHhCcCccCC-eEEEECCCCCcHHHHHH
Confidence 34699998654322 3 33443 44444444212244 47889999999999874
No 111
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=83.27 E-value=0.63 Score=52.57 Aligned_cols=51 Identities=22% Similarity=0.306 Sum_probs=32.0
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
...|+||...... .+ ...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 116 ~~~~tfd~fv~g~-~n-~~a~~-~~~~~~~~~~~~~~-~l~l~G~~G~GKThL~~ 166 (450)
T PRK00149 116 NPKYTFDNFVVGK-SN-RLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 166 (450)
T ss_pred CCCCcccccccCC-Cc-HHHHH-HHHHHHhCcCccCC-eEEEECCCCCCHHHHHH
Confidence 3468999866443 23 33443 34444444223345 47889999999999875
No 112
>PRK12377 putative replication protein; Provisional
Probab=83.07 E-value=0.59 Score=48.88 Aligned_cols=49 Identities=14% Similarity=0.240 Sum_probs=33.2
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+||......+ .|..++. .+..+++.+..+. ..++-||++|+||||.+.
T Consensus 71 ~tFdnf~~~~~-~~~~a~~-~a~~~a~~~~~~~-~~l~l~G~~GtGKThLa~ 119 (248)
T PRK12377 71 CSFANYQVQND-GQRYALS-QAKSIADELMTGC-TNFVFSGKPGTGKNHLAA 119 (248)
T ss_pred CCcCCcccCCh-hHHHHHH-HHHHHHHHHHhcC-CeEEEECCCCCCHHHHHH
Confidence 46776654433 4455554 4666666666554 468889999999999875
No 113
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=82.47 E-value=0.5 Score=53.72 Aligned_cols=29 Identities=28% Similarity=0.428 Sum_probs=25.0
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
..+..++..-++.|+.-|+||||||.||+
T Consensus 248 ~~~~~~~~~p~GliLvTGPTGSGKTTTLY 276 (500)
T COG2804 248 ARLLRLLNRPQGLILVTGPTGSGKTTTLY 276 (500)
T ss_pred HHHHHHHhCCCeEEEEeCCCCCCHHHHHH
Confidence 34556778889999999999999999997
No 114
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=82.45 E-value=0.53 Score=52.52 Aligned_cols=50 Identities=24% Similarity=0.363 Sum_probs=31.2
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
..|+||.+..... + ...|. +...+...-.+.---||-||.+|+||||-|.
T Consensus 82 ~~ytFdnFv~g~~-N-~~A~a--a~~~va~~~g~~~nplfi~G~~GlGKTHLl~ 131 (408)
T COG0593 82 PKYTFDNFVVGPS-N-RLAYA--AAKAVAENPGGAYNPLFIYGGVGLGKTHLLQ 131 (408)
T ss_pred CCCchhheeeCCc-h-HHHHH--HHHHHHhccCCcCCcEEEECCCCCCHHHHHH
Confidence 4599999887653 3 32332 2222223222333458899999999999885
No 115
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=82.41 E-value=1.2 Score=44.81 Aligned_cols=57 Identities=23% Similarity=0.357 Sum_probs=39.1
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHH-HHHhcCCC-----------CCHHHH----hhcCCCHHHHHHHhcccc
Q 005960 590 FLNTASREELVELKGIGQRLADYIC-ELRQSSPV-----------KSLSDL----EKIGLSTKQVYNLFGKAA 646 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii-~~R~~~pf-----------~~~~dL----~~vGi~~~~~~~l~~~~~ 646 (667)
-|..-+.+.|..+||||+|+|++|| +.|.+... ...+|+ ...|.+.+.+.++..++.
T Consensus 101 aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 101 AIISGNAELLSTIPGIGKKTASRIVLELKDKIAKNWEAGVLSQVTEANSDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHHhhhhccccccccchHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 3445578889999999999999965 33433211 122344 334999999999888773
No 116
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=82.15 E-value=1.3 Score=52.17 Aligned_cols=52 Identities=21% Similarity=0.291 Sum_probs=41.8
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 594 ASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
.....|..|||||++++++|+++=... --.+.++|.++ |||++.++.|...+
T Consensus 540 ~~~s~L~~IpGIG~k~~k~Ll~~FgS~~~i~~As~eeL~~v~Gig~~~A~~I~~~l 595 (598)
T PRK00558 540 RLTSALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEAL 595 (598)
T ss_pred hhhhhHhhCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHhhcCCcCHHHHHHHHHHh
Confidence 345778999999999999999976422 23467889899 99999999987654
No 117
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=81.91 E-value=1.4 Score=47.58 Aligned_cols=32 Identities=25% Similarity=0.374 Sum_probs=27.8
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..+|..|||||+++|+++. .- ++++++||.+-
T Consensus 84 l~~l~~i~GiGpk~a~~l~-~l---Gi~sl~dL~~a 115 (307)
T cd00141 84 LLLLLRVPGVGPKTARKLY-EL---GIRTLEDLRKA 115 (307)
T ss_pred HHHHHcCCCCCHHHHHHHH-Hc---CCCCHHHHHHH
Confidence 3467899999999999998 44 89999999885
No 118
>PRK08727 hypothetical protein; Validated
Probab=81.87 E-value=0.67 Score=47.69 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=26.6
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+.... + . .. .+..+ ..|. .-.|+-||++|+||||.+.
T Consensus 15 ~~~f~~f~~~~~-n--~-~~-~~~~~----~~~~~~~~l~l~G~~G~GKThL~~ 59 (233)
T PRK08727 15 DQRFDSYIAAPD-G--L-LA-QLQAL----AAGQSSDWLYLSGPAGTGKTHLAL 59 (233)
T ss_pred cCChhhccCCcH-H--H-HH-HHHHH----HhccCCCeEEEECCCCCCHHHHHH
Confidence 478998885442 2 1 11 11122 1122 2349999999999999764
No 119
>PRK10702 endonuclease III; Provisional
Probab=81.47 E-value=1.1 Score=45.80 Aligned_cols=24 Identities=25% Similarity=0.473 Sum_probs=21.2
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 594 ASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
.+.++|.+|||||++.|..|+-+=
T Consensus 106 ~~~~~Ll~lpGVG~ktA~~ill~a 129 (211)
T PRK10702 106 EDRAALEALPGVGRKTANVVLNTA 129 (211)
T ss_pred chHHHHhcCCcccHHHHHHHHHHH
Confidence 468999999999999999998653
No 120
>PRK07945 hypothetical protein; Provisional
Probab=81.36 E-value=1.3 Score=48.42 Aligned_cols=45 Identities=27% Similarity=0.324 Sum_probs=39.2
Q ss_pred HHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHHhc
Q 005960 598 ELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLFG 643 (667)
Q Consensus 598 eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~~ 643 (667)
+|..|||||+.+|++|.++-+..-+.-+++|+. + | |+....+|+.
T Consensus 50 ~l~~~~giG~~~a~~i~e~~~tg~~~~l~~l~~~~~~~~-g~~l~~~~~~ 98 (335)
T PRK07945 50 SLTSLPGIGPKTAKVIAQALAGRVPDYLAELRADAEPLG-GGALRAALRG 98 (335)
T ss_pred CcccCCCcCHHHHHHHHHHHhcCCHHHHHHHHHhhcCCc-cHHHHHHHhh
Confidence 789999999999999999998878889999977 4 6 7777777776
No 121
>PRK08084 DNA replication initiation factor; Provisional
Probab=81.08 E-value=0.62 Score=47.97 Aligned_cols=46 Identities=11% Similarity=0.356 Sum_probs=29.2
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+.. . + ...+. .+..+.. ......++-||++|+||||.+.
T Consensus 18 ~~~fd~f~~~-~-n-~~a~~-~l~~~~~---~~~~~~l~l~Gp~G~GKThLl~ 63 (235)
T PRK08084 18 DETFASFYPG-D-N-DSLLA-ALQNALR---QEHSGYIYLWSREGAGRSHLLH 63 (235)
T ss_pred cCCccccccC-c-c-HHHHH-HHHHHHh---CCCCCeEEEECCCCCCHHHHHH
Confidence 4889987754 2 3 33443 3333332 1222478999999999999875
No 122
>PRK06526 transposase; Provisional
Probab=80.75 E-value=0.91 Score=47.56 Aligned_cols=17 Identities=41% Similarity=0.571 Sum_probs=15.4
Q ss_pred EEeeccCCCCCcceecc
Q 005960 118 VFAYGATGSGKTYTMQG 134 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~G 134 (667)
|+.||++|+||||.+.+
T Consensus 101 lll~Gp~GtGKThLa~a 117 (254)
T PRK06526 101 VVFLGPPGTGKTHLAIG 117 (254)
T ss_pred EEEEeCCCCchHHHHHH
Confidence 78999999999999864
No 123
>PRK00254 ski2-like helicase; Provisional
Probab=80.14 E-value=2.5 Score=50.71 Aligned_cols=49 Identities=29% Similarity=0.386 Sum_probs=38.5
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHH--------Hhhc-CCCHHHHHHHhcccccc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSD--------LEKI-GLSTKQVYNLFGKAAKG 648 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~d--------L~~v-Gi~~~~~~~l~~~~~~~ 648 (667)
.-.|..|||||+++|++..++ +|++++| |.++ |||.+..++|+..+...
T Consensus 644 ~~~L~~ipgig~~~~~~l~~~----g~~s~~~i~~a~~~el~~~~gi~~~~a~~i~~~~~~~ 701 (720)
T PRK00254 644 LLELMRLPMIGRKRARALYNA----GFRSIEDIVNAKPSELLKVEGIGAKIVEGIFKHLGVE 701 (720)
T ss_pred HhhhhcCCCCCHHHHHHHHHc----cCCCHHHHHhCCHHHHhcCCCCCHHHHHHHHHHhccc
Confidence 345678999999999998866 4666654 4558 99999999999887643
No 124
>PRK08116 hypothetical protein; Validated
Probab=79.62 E-value=0.75 Score=48.52 Aligned_cols=50 Identities=18% Similarity=0.355 Sum_probs=33.0
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcC--CCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH--GRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~--G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++||.... . ..+...|. .++..++.+.. ..+..++-||.+|+||||.+.
T Consensus 81 ~~tFdnf~~-~-~~~~~a~~-~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~ 132 (268)
T PRK08116 81 NSTFENFLF-D-KGSEKAYK-IARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAA 132 (268)
T ss_pred hcchhcccC-C-hHHHHHHH-HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH
Confidence 477886653 2 24444554 56666666543 345569999999999999764
No 125
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=79.39 E-value=0.98 Score=51.23 Aligned_cols=49 Identities=22% Similarity=0.343 Sum_probs=31.6
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||..+.... + +..|. .+..+...--..|| .+|-||.+|+||||.|.
T Consensus 111 ~~tFdnFv~g~~-n-~~A~~-aa~~~a~~~~~~~n-pl~i~G~~G~GKTHLl~ 159 (450)
T PRK14087 111 ENTFENFVIGSS-N-EQAFI-AVQTVSKNPGISYN-PLFIYGESGMGKTHLLK 159 (450)
T ss_pred ccchhcccCCCc-H-HHHHH-HHHHHHhCcCcccC-ceEEECCCCCcHHHHHH
Confidence 489999886542 4 34453 44444432211244 47899999999999874
No 126
>TIGR03252 uncharacterized HhH-GPD family protein. This model describes a small, well-conserved bacterial protein family. Its sequence largely consists of a domain, HhH-GPD, found in a variety of related base excision DNA repair enzymes (see pfam00730).
Probab=79.31 E-value=2.3 Score=42.24 Aligned_cols=36 Identities=22% Similarity=0.404 Sum_probs=25.9
Q ss_pred HHHHhcCCCCCHHHHHHHHHH------------HhcC-CCCCHHHHhhc
Q 005960 596 REELVELKGIGQRLADYICEL------------RQSS-PVKSLSDLEKI 631 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~------------R~~~-pf~~~~dL~~v 631 (667)
.++|..|||||+|.|.=++.+ |+.. ||.....+..|
T Consensus 114 re~Ll~LpGVG~KTAnvVL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (177)
T TIGR03252 114 LRRLKALPGFGKQKAKIFLALLGKQLGVTPEGWREAAGPYGEPGSFRSV 162 (177)
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHhCCCCcchHHhccccCCCCcccch
Confidence 478999999999999977764 5554 65544444444
No 127
>PRK07952 DNA replication protein DnaC; Validated
Probab=79.14 E-value=1.1 Score=46.64 Aligned_cols=49 Identities=12% Similarity=0.146 Sum_probs=31.1
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+||...... ..|..++. .+...++.+..|+ ..++-||.+|+||||.+.
T Consensus 69 ~tFdnf~~~~-~~q~~al~-~a~~~~~~~~~~~-~~~~l~G~~GtGKThLa~ 117 (244)
T PRK07952 69 CSFENYRVEC-EGQMNALS-KARQYVEEFDGNI-ASFIFSGKPGTGKNHLAA 117 (244)
T ss_pred CccccccCCC-chHHHHHH-HHHHHHHhhccCC-ceEEEECCCCCCHHHHHH
Confidence 5677654333 24444554 3445555554443 368899999999999875
No 128
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=78.85 E-value=0.73 Score=43.95 Aligned_cols=31 Identities=26% Similarity=0.310 Sum_probs=20.9
Q ss_pred cchhhhhcCC-CCEEEEeeccCCCCCcceecc
Q 005960 104 NPLIPGIFHG-RNATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 104 ~plV~~vl~G-~N~tIfaYGqTGSGKTyTm~G 134 (667)
..+++.+-.+ ....++..++||||||++|..
T Consensus 13 ~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~ 44 (184)
T PF04851_consen 13 ARIINSLENKKEERRVLLNAPTGSGKTIIALA 44 (184)
T ss_dssp HHHHHHHHTTSGCSEEEEEESTTSSHHHHHHH
T ss_pred HHHHHHHHhcCCCCCEEEEECCCCCcChhhhh
Confidence 3444443333 355567788999999999973
No 129
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=78.80 E-value=1 Score=40.54 Aligned_cols=19 Identities=32% Similarity=0.566 Sum_probs=15.6
Q ss_pred CCEEEEeeccCCCCCccee
Q 005960 114 RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm 132 (667)
....++.+|++|+|||+.+
T Consensus 18 ~~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 4456888999999999865
No 130
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=78.29 E-value=1.3 Score=44.56 Aligned_cols=47 Identities=19% Similarity=0.422 Sum_probs=30.2
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
..|+||.+.... + ..++. .++.++ .......|+-||++|+||||...
T Consensus 10 ~~~~~~~~~~~~--~-~~~~~-~l~~~~---~~~~~~~lll~G~~G~GKT~la~ 56 (226)
T TIGR03420 10 DDPTFDNFYAGG--N-AELLA-ALRQLA---AGKGDRFLYLWGESGSGKSHLLQ 56 (226)
T ss_pred CchhhcCcCcCC--c-HHHHH-HHHHHH---hcCCCCeEEEECCCCCCHHHHHH
Confidence 347888777321 2 33443 233332 24566789999999999999763
No 131
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=77.41 E-value=1.7 Score=43.65 Aligned_cols=53 Identities=15% Similarity=0.310 Sum_probs=36.1
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcC-C----C-------CCHHHHhh----cCCCHHHHHHHhcccc
Q 005960 594 ASREELVELKGIGQRLADYICELRQSS-P----V-------KSLSDLEK----IGLSTKQVYNLFGKAA 646 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~-p----f-------~~~~dL~~----vGi~~~~~~~l~~~~~ 646 (667)
-+...|.++||||+|+|++|+-.-..+ + + ...+|+.. .|..++.+++...++.
T Consensus 104 ~d~~~L~~ipGiGkKtAerIileLk~k~~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~e~~~ai~~~~ 172 (191)
T TIGR00084 104 EEVKALVKIPGVGKKTAERLLLELKGKLKGNKNLEMFTPTEAARDELFEALVSLGYKPQEIQQALKKIK 172 (191)
T ss_pred CCHHHHHhCCCCCHHHHHHHHHHHHhhhcccccccccccccchHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 356789999999999999997443222 1 1 11244433 3889999888877763
No 132
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=77.40 E-value=2.9 Score=46.20 Aligned_cols=26 Identities=35% Similarity=0.690 Sum_probs=18.5
Q ss_pred hhhhcCCC-CEEEEeeccCCCCCccee
Q 005960 107 IPGIFHGR-NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 107 V~~vl~G~-N~tIfaYGqTGSGKTyTm 132 (667)
+..++.|. ...++.||.||+|||.|+
T Consensus 33 l~~~~~~~~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 33 LAPALRGERPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred HHHHhcCCCCccEEEECCCCCCHhHHH
Confidence 33444433 334999999999999876
No 133
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=77.33 E-value=2.3 Score=44.49 Aligned_cols=124 Identities=22% Similarity=0.311 Sum_probs=72.2
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCE-EEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceE
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNA-TVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTA 160 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~-tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v 160 (667)
..+|...+-+. +.+.+... ...+++|..+ -++.||..|+|||.++- .++......+
T Consensus 24 ~~l~~L~Gie~-Qk~~l~~N-----t~~Fl~G~pannvLL~G~rGtGKSSlVk--------------all~~y~~~G--- 80 (249)
T PF05673_consen 24 IRLDDLIGIER-QKEALIEN-----TEQFLQGLPANNVLLWGARGTGKSSLVK--------------ALLNEYADQG--- 80 (249)
T ss_pred CCHHHhcCHHH-HHHHHHHH-----HHHHHcCCCCcceEEecCCCCCHHHHHH--------------HHHHHHhhcC---
Confidence 56777777653 43333332 2567777755 36779999999988753 3333333333
Q ss_pred EEEEEEEecceeeecc------CCCCCceeeeeCCCCCeEeeCcEEee-cCChHHHHHHHHHHHhcccccccCCCCCCCC
Q 005960 161 EISYYEVYMDRCYDLL------EVKTKEISILDDKDGQLHLKGLSRVP-VNSMTEFQEIFSRGIQRRKVAHTGLNDVSSR 233 (667)
Q Consensus 161 ~vS~~EIYnE~v~DLL------~~~~~~l~i~ed~~g~~~v~gls~v~-V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSR 233 (667)
+-.+||..+.+.||- ...+...- +++.+|+--. =.++..+..+|+.|...| .....+..+|.|
T Consensus 81 -LRlIev~k~~L~~l~~l~~~l~~~~~kFI--------lf~DDLsFe~~d~~yk~LKs~LeGgle~~-P~NvliyATSNR 150 (249)
T PF05673_consen 81 -LRLIEVSKEDLGDLPELLDLLRDRPYKFI--------LFCDDLSFEEGDTEYKALKSVLEGGLEAR-PDNVLIYATSNR 150 (249)
T ss_pred -ceEEEECHHHhccHHHHHHHHhcCCCCEE--------EEecCCCCCCCcHHHHHHHHHhcCccccC-CCcEEEEEecch
Confidence 678899888766653 22222222 2333444211 234566777777776544 455556677778
Q ss_pred cEEEE
Q 005960 234 SHGVL 238 (667)
Q Consensus 234 SH~If 238 (667)
-|+|=
T Consensus 151 RHLv~ 155 (249)
T PF05673_consen 151 RHLVP 155 (249)
T ss_pred hhccc
Confidence 77654
No 134
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=77.29 E-value=1.5 Score=44.54 Aligned_cols=47 Identities=21% Similarity=0.442 Sum_probs=30.3
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+||.++... + +.++ ..++.++.. .+....++-||++|+||||.+.
T Consensus 14 ~~~~d~f~~~~--~-~~~~-~~l~~~~~~--~~~~~~~~l~G~~G~GKT~La~ 60 (227)
T PRK08903 14 PPTFDNFVAGE--N-AELV-ARLRELAAG--PVADRFFYLWGEAGSGRSHLLQ 60 (227)
T ss_pred hhhhcccccCC--c-HHHH-HHHHHHHhc--cCCCCeEEEECCCCCCHHHHHH
Confidence 48999988543 2 2233 234444442 2334578999999999999753
No 135
>KOG2841 consensus Structure-specific endonuclease ERCC1-XPF, ERCC1 component [Replication, recombination and repair]
Probab=77.23 E-value=1.8 Score=44.56 Aligned_cols=33 Identities=24% Similarity=0.353 Sum_probs=27.3
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCC
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQSSPVK 623 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~ 623 (667)
.|=.|+.++|+.+||+||.+|++|.++=. .||.
T Consensus 220 ~~~~AS~~ele~~~G~G~~kak~l~~~l~-~pf~ 252 (254)
T KOG2841|consen 220 QISNASEGELEQCPGLGPAKAKRLHKFLH-QPFL 252 (254)
T ss_pred HHHhcCHhHHHhCcCcCHHHHHHHHHHHh-cccc
Confidence 45579999999999999999999998852 1664
No 136
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=77.19 E-value=2.6 Score=50.21 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=23.9
Q ss_pred cccCcccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 588 IDFLNTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 588 ~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
+.+|-+++.++|..|||+|+|.|++|++.-+
T Consensus 470 i~DL~~L~~~~L~~l~gfG~Ksa~~ll~~Ie 500 (665)
T PRK07956 470 PADLFKLTAEDLLGLEGFGEKSAQNLLDAIE 500 (665)
T ss_pred HHHHHhcCHHHHhcCcCcchHHHHHHHHHHH
Confidence 3445577888888899999999888877544
No 137
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=76.99 E-value=2.6 Score=49.24 Aligned_cols=48 Identities=23% Similarity=0.359 Sum_probs=38.5
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHHhcc
Q 005960 597 EELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGK 644 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~ 644 (667)
..|..|||||+++.++++++=... .=.+++||.+|||+.+..+++...
T Consensus 530 s~Ld~I~GiG~~r~~~LL~~Fgs~~~i~~As~eel~~vgi~~~~a~~i~~~ 580 (581)
T COG0322 530 SSLDDIPGIGPKRRKALLKHFGSLKGIKSASVEELAKVGISKKLAEKIYEA 580 (581)
T ss_pred CccccCCCcCHHHHHHHHHHhhCHHHHHhcCHHHHHHcCCCHHHHHHHHhh
Confidence 467889999999999999985422 234678999999999999888654
No 138
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=76.99 E-value=2.6 Score=52.40 Aligned_cols=41 Identities=29% Similarity=0.410 Sum_probs=34.7
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHHh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLF 642 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~ 642 (667)
|..|+|||+..+++|++.| ||+++.||.. + ++..+.++.|.
T Consensus 752 L~aIkgvg~~~~~~I~~~R---~f~s~~Df~~R~~~~~~~k~~le~LI 796 (1034)
T PRK07279 752 LKNIKGLPRDLAYWIIENR---PFSSIEDFLTRLPENYQKKEFLEPLI 796 (1034)
T ss_pred hhhcCCCCHHHHHHHHHCC---CCCCHHHHHHhcCcCCCCHHHHHHHH
Confidence 6789999999999999999 9999999976 4 36777766654
No 139
>PRK00076 recR recombination protein RecR; Reviewed
Probab=76.62 E-value=1.9 Score=43.51 Aligned_cols=55 Identities=18% Similarity=0.166 Sum_probs=33.1
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccccccccCCC
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDRP 653 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~~ 653 (667)
++|..|||||+|.|+++.-|=-+.|=...++|.+. | ....++++.--.++-|++.
T Consensus 11 ~~l~~LPGIG~KsA~Rla~~ll~~~~~~~~~la~~-i-~~~~~~i~~C~~C~~lse~ 65 (196)
T PRK00076 11 EALRKLPGIGPKSAQRLAFHLLQRDREDVLRLAQA-L-EEAKEKIKHCSVCGNLTEQ 65 (196)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-H-HHHHHcCCcCCCCCCcCCC
Confidence 57899999999999999888744433333333221 1 0223334444446666653
No 140
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=76.31 E-value=1 Score=39.96 Aligned_cols=17 Identities=41% Similarity=0.399 Sum_probs=14.8
Q ss_pred EEeeccCCCCCcceecc
Q 005960 118 VFAYGATGSGKTYTMQG 134 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~G 134 (667)
++.+|++|+|||+++..
T Consensus 3 ~~i~~~~G~GKT~~~~~ 19 (144)
T cd00046 3 VLLAAPTGSGKTLAALL 19 (144)
T ss_pred EEEECCCCCchhHHHHH
Confidence 57899999999999864
No 141
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=76.28 E-value=1.9 Score=51.11 Aligned_cols=31 Identities=26% Similarity=0.428 Sum_probs=24.4
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHHhc
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELRQS 619 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~ 619 (667)
.+|=+++.++|..|||+|++.|++|++.=+.
T Consensus 458 ~Dl~~L~~~~L~~L~GfG~Ksa~nIl~~Ie~ 488 (652)
T TIGR00575 458 ADLYALKKEDLLELEGFGEKSAQNLLNAIEK 488 (652)
T ss_pred HHHHhcCHHHHhhccCccHHHHHHHHHHHHH
Confidence 3455777888999999999999998877664
No 142
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.11 E-value=2 Score=43.27 Aligned_cols=55 Identities=22% Similarity=0.187 Sum_probs=33.0
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccccccccCCC
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDRP 653 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~~ 653 (667)
++|.+|||||+|.|+++.-|=-+.|=...++|.+. | ....++++.--.++-|++.
T Consensus 11 ~~l~~LPGIG~KsA~RlA~~ll~~~~~~~~~la~a-i-~~~~~~i~~C~~C~~lse~ 65 (195)
T TIGR00615 11 ESLKKLPGIGPKSAQRLAFHLLKRDPSEVLRLAQA-L-LEAKENLRTCSVCGAISDQ 65 (195)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-H-HHHHHcCCcCCCCCCCCCC
Confidence 57899999999999999877644433334444321 0 1223444444456666653
No 143
>KOG1921 consensus Endonuclease III [Replication, recombination and repair]
Probab=76.10 E-value=1.9 Score=44.73 Aligned_cols=25 Identities=24% Similarity=0.545 Sum_probs=21.4
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 593 TASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
-++.++|..|||||||+|--.++.=
T Consensus 155 P~~v~dLlsLPGVGPKMa~L~m~~A 179 (286)
T KOG1921|consen 155 PDTVEDLLSLPGVGPKMAHLTMQVA 179 (286)
T ss_pred chhHHHHhcCCCCchHHHHHHHHHH
Confidence 4688999999999999998877653
No 144
>PRK13910 DNA glycosylase MutY; Provisional
Probab=75.81 E-value=2.1 Score=45.85 Aligned_cols=23 Identities=30% Similarity=0.404 Sum_probs=21.1
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHH
Q 005960 595 SREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
+.++|.+|||||+++|..|+-+=
T Consensus 70 ~~~~L~~LpGIG~kTA~aIl~~a 92 (289)
T PRK13910 70 DYQSLLKLPGIGAYTANAILCFG 92 (289)
T ss_pred hHHHHHhCCCCCHHHHHHHHHHH
Confidence 58999999999999999999764
No 145
>TIGR00426 competence protein ComEA helix-hairpin-helix repeat region. Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model.
Probab=75.80 E-value=2.6 Score=34.95 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=20.8
Q ss_pred CHHHHhcCCCCCHHHHHHHHHH
Q 005960 595 SREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
+.++|..++|||+++|++|..+
T Consensus 45 s~~dL~~v~gi~~~~~~~i~~~ 66 (69)
T TIGR00426 45 TVEDLKQVPGIGNSLVEKNLAV 66 (69)
T ss_pred CHHHHHcCCCCCHHHHHHHHhh
Confidence 8899999999999999999876
No 146
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=75.61 E-value=2.6 Score=29.64 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=17.6
Q ss_pred CCHHHHhhc-CCCHHHHHHHhc
Q 005960 623 KSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 623 ~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
.+++||.++ |||+++...|+.
T Consensus 8 as~eeL~~lpGIG~~tA~~I~~ 29 (30)
T PF00633_consen 8 ASIEELMKLPGIGPKTANAILS 29 (30)
T ss_dssp SSHHHHHTSTT-SHHHHHHHHH
T ss_pred CCHHHHHhCCCcCHHHHHHHHh
Confidence 578999999 999999988764
No 147
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif. HhH2 domains are found in Rad2 family of prokaryotic and eukaryotic replication and repair nucleases, i.e., DNA polymerase I, Taq DNA polymerase, DNA repair protein Rad2 endonuclease, flap endonuclease, exonuclease I and IX, 5'-3' exonuclease and also bacteriophage Rnase H. These nucleases degrade RNA-DNA or DNA-DNA duplexes, or both and play essential roles in DNA duplication, repair, and recombination.
Probab=74.35 E-value=3 Score=35.48 Aligned_cols=27 Identities=26% Similarity=0.305 Sum_probs=22.5
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK 630 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~ 630 (667)
+..+||||+++|.+||.. |.+++.+..
T Consensus 24 i~gv~giG~k~A~~ll~~-----~~~~~~~~~ 50 (75)
T cd00080 24 IPGVPGIGPKTALKLLKE-----YGSLENLLE 50 (75)
T ss_pred CCCCCcccHHHHHHHHHH-----hCCHHHHHH
Confidence 457899999999999965 778888765
No 148
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=74.13 E-value=3.4 Score=48.41 Aligned_cols=50 Identities=18% Similarity=0.246 Sum_probs=39.5
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhcc
Q 005960 595 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGK 644 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~ 644 (667)
..-.|..|||||++++++++++=..- --.+.++|.++ ||+.+.++.|...
T Consensus 523 ~~~~L~~IpGIG~kr~~~LL~~FGS~~~I~~As~eeL~~vpGi~~~~A~~I~~~ 576 (577)
T PRK14668 523 VSTVLDDVPGVGPETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETIRER 576 (577)
T ss_pred HHhHHhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHh
Confidence 34678899999999999999873211 23567889999 9999999998764
No 149
>PRK13844 recombination protein RecR; Provisional
Probab=74.08 E-value=2.5 Score=42.85 Aligned_cols=55 Identities=13% Similarity=0.090 Sum_probs=33.3
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccccccccCCC
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDRP 653 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~~ 653 (667)
+.|..|||||+|.|+++.-|=-+.|=...++|.+- | ....++++.--.++-|.+.
T Consensus 15 ~~l~~LPGIG~KsA~Rla~~lL~~~~~~~~~la~~-i-~~~~~~i~~C~~C~~lte~ 69 (200)
T PRK13844 15 ESLRKLPTIGKKSSQRLALYLLDKSPETAIAIANS-L-LDATANIKKCVYCQALTED 69 (200)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-H-HHHHHhCCcCCCCCCCCCC
Confidence 57899999999999999888744433333333221 1 1233444455556777663
No 150
>COG3156 PulK Type II secretory pathway, component PulK [Intracellular trafficking and secretion]
Probab=73.87 E-value=3.5 Score=44.52 Aligned_cols=61 Identities=16% Similarity=0.025 Sum_probs=47.2
Q ss_pred cccccCcccCHHHH-hcCC-CCCHHHHHHHHHHHhcCCCCCHHHHhhc-C--CCHHHHHHHhcccc
Q 005960 586 EYIDFLNTASREEL-VELK-GIGQRLADYICELRQSSPVKSLSDLEKI-G--LSTKQVYNLFGKAA 646 (667)
Q Consensus 586 ~~~v~iNtA~~~eL-~~lp-GIG~~~A~~Ii~~R~~~pf~~~~dL~~v-G--i~~~~~~~l~~~~~ 646 (667)
.-+||+|||+.+-| ..+| +++..-|+++++.|-...|.+..|+... | ......++.++++.
T Consensus 212 ~~~IN~Ntapa~llaA~~~~~~s~~~a~~vl~ar~~~gw~~~~df~~~l~~~~~~~~~~~v~~~l~ 277 (323)
T COG3156 212 RLLINVNTAPAELLAAAFPSLSSLGQARAVLDARPRNGWLNRDDFSGQLGSHGAGSINEKVKDTLA 277 (323)
T ss_pred cceeecccCcHHHHHHHhcCCCCHHHHHHHHhcCcccCCcchHHHHHHhhhccCcchhhhhhhhcc
Confidence 56799999998888 4455 4559999999999988899999999886 6 34444566665554
No 151
>PF14635 HHH_7: Helix-hairpin-helix motif ; PDB: 3PSI_A 3PSF_A.
Probab=73.45 E-value=3.3 Score=37.71 Aligned_cols=56 Identities=20% Similarity=0.094 Sum_probs=37.2
Q ss_pred ccccCcccCH-----HHHhcCCCCCHHHHHHHHHHHhcC--CCCCHHHHhhc-CCCHHHHHHHh
Q 005960 587 YIDFLNTASR-----EELVELKGIGQRLADYICELRQSS--PVKSLSDLEKI-GLSTKQVYNLF 642 (667)
Q Consensus 587 ~~v~iNtA~~-----~eL~~lpGIG~~~A~~Ii~~R~~~--pf~~~~dL~~v-Gi~~~~~~~l~ 642 (667)
.=|+||.|-. .-|+-+.|+||.+|.++++.=++. ...+-+||... .+|++.+.+--
T Consensus 35 vGVDIN~a~~~~~~~~~LqfV~GLGPRKA~~Ll~~l~~~g~~l~~R~~Lv~~~~~g~~Vf~Nca 98 (104)
T PF14635_consen 35 VGVDINRAVSHPHLANLLQFVCGLGPRKAQALLKALKQNGGRLENRSQLVTKCLMGPKVFINCA 98 (104)
T ss_dssp H-EEHHHHCT-HHHHGGGGGSTT--HHHHHHHHHHHHHC-S----TTHHHHTTSS-HHHHHHHC
T ss_pred hCccHHHHhcChHHHhhHhHhcCCChHHHHHHHHHHHHcCCccccHHHHHhcCCCCCeEEEecc
Confidence 3488997654 457779999999999999876654 78999999888 78887765543
No 152
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=73.38 E-value=3.9 Score=51.25 Aligned_cols=61 Identities=31% Similarity=0.469 Sum_probs=47.4
Q ss_pred cccccccCcccCH----HH-------HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHHhcc
Q 005960 584 VQEYIDFLNTASR----EE-------LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLFGK 644 (667)
Q Consensus 584 ~~~~~v~iNtA~~----~e-------L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~~~ 644 (667)
++..+.+||.... ++ |..|+|||...++.|++.|++.||+++.|+-. + +++.+.++.|..-
T Consensus 799 i~VlpPdIN~S~~~f~~~~~~~I~~gL~~IKGvg~~~i~~Iv~~R~~~~~~~~~df~~r~~~~~l~kr~lE~Lika 874 (1139)
T COG0587 799 IEVLPPDINRSGWDFTVEEKKAIRLGLGAIKGVGEDAIEEIVEARKEKPFKSLEDFCDRIDRKGLNKRVLESLIKA 874 (1139)
T ss_pred CeEeCCcccccCCcceecCCCcEEEhhhhhcCCcHHHHHHHHHHhhcccCCcHhHHHHHhhhccCCHHHHHHHHHc
Confidence 3456778885432 22 67899999999999999998889999999755 3 7888888887654
No 153
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=73.18 E-value=2.5 Score=43.16 Aligned_cols=23 Identities=35% Similarity=0.710 Sum_probs=20.8
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHH
Q 005960 594 ASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.+.++|.+|||||+|+|.=++..
T Consensus 106 ~~~~eL~~LPGVGrKTAnvVL~~ 128 (211)
T COG0177 106 DTREELLSLPGVGRKTANVVLSF 128 (211)
T ss_pred chHHHHHhCCCcchHHHHHHHHh
Confidence 57899999999999999988876
No 154
>PF13245 AAA_19: Part of AAA domain
Probab=72.87 E-value=1.5 Score=37.34 Aligned_cols=25 Identities=24% Similarity=0.356 Sum_probs=17.0
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005960 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 108 ~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
...+. -+..++..|+.|||||+|+.
T Consensus 4 ~~al~-~~~~~vv~g~pGtGKT~~~~ 28 (76)
T PF13245_consen 4 RRALA-GSPLFVVQGPPGTGKTTTLA 28 (76)
T ss_pred HHHHh-hCCeEEEECCCCCCHHHHHH
Confidence 33444 33345559999999999874
No 155
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=72.17 E-value=2.8 Score=43.04 Aligned_cols=28 Identities=36% Similarity=0.399 Sum_probs=23.7
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcCC
Q 005960 594 ASREELVELKGIGQRLADYICELRQSSP 621 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~p 621 (667)
...++|.+|||||+++|+.|+-|=-..|
T Consensus 118 ~~re~Ll~l~GIG~kTAd~iLlya~~rp 145 (218)
T PRK13913 118 VTREWLLDQKGIGKESADAILCYVCAKE 145 (218)
T ss_pred hHHHHHHcCCCccHHHHHHHHHHHcCCC
Confidence 4568999999999999999998865554
No 156
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=71.72 E-value=2.4 Score=42.61 Aligned_cols=55 Identities=18% Similarity=0.196 Sum_probs=31.7
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccccccccCCC
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDRP 653 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~~ 653 (667)
+.|..|||||+|.|++|.=+=-+++=..+++|.+. + ....+++..--.++-|.+.
T Consensus 12 ~~l~kLPGvG~KsA~R~AfhLL~~~~~~~~~la~a-l-~~a~~~i~~C~~C~~~te~ 66 (198)
T COG0353 12 DALKKLPGVGPKSAQRLAFHLLQRDREDVERLAKA-L-LEAKENIKHCSVCGNLTES 66 (198)
T ss_pred HHHhhCCCCChhHHHHHHHHHHccCHHHHHHHHHH-H-HHHHhcCccccccCCcCCC
Confidence 57899999999999998766533322233333221 1 1233444444456666653
No 157
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=71.69 E-value=6.5 Score=43.13 Aligned_cols=48 Identities=15% Similarity=0.205 Sum_probs=32.0
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhc
Q 005960 596 REELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
+.-|..+|+|++.+|++++++=..- =-.+.+||.+| |||++....|++
T Consensus 286 yRiLs~IPrl~k~iAk~Ll~~FGSL~~Il~As~eeL~~VeGIGe~rA~~I~e 337 (352)
T PRK13482 286 YRLLSKIPRLPSAVIENLVEHFGSLQGLLAASIEDLDEVEGIGEVRARAIRE 337 (352)
T ss_pred HHHHhcCCCCCHHHHHHHHHHcCCHHHHHcCCHHHHhhCCCcCHHHHHHHHH
Confidence 4567788888888888888753110 12346777788 888877766554
No 158
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=71.59 E-value=3.1 Score=30.53 Aligned_cols=17 Identities=29% Similarity=0.315 Sum_probs=15.0
Q ss_pred hcCCCCCHHHHHHHHHH
Q 005960 600 VELKGIGQRLADYICEL 616 (667)
Q Consensus 600 ~~lpGIG~~~A~~Ii~~ 616 (667)
..+||||++.|.++|+.
T Consensus 19 ~Gv~giG~ktA~~ll~~ 35 (36)
T smart00279 19 PGVKGIGPKTALKLLRE 35 (36)
T ss_pred CCCCcccHHHHHHHHHh
Confidence 57899999999999874
No 159
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=71.50 E-value=1.6 Score=38.53 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=15.3
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..++-+|++|+|||+++.
T Consensus 3 ~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 3 EVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CEEEEECCCCCcHHHHHH
Confidence 357889999999999874
No 160
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=71.23 E-value=1.6 Score=44.23 Aligned_cols=16 Identities=44% Similarity=0.814 Sum_probs=13.3
Q ss_pred EEeeccCCCCCcceec
Q 005960 118 VFAYGATGSGKTYTMQ 133 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~ 133 (667)
+.-+|.||||||+|+.
T Consensus 26 ~~I~G~TGsGKS~~~~ 41 (229)
T PF01935_consen 26 IAIFGTTGSGKSNTVK 41 (229)
T ss_pred EEEECCCCCCHHHHHH
Confidence 3467999999999974
No 161
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=70.96 E-value=2.5 Score=47.97 Aligned_cols=51 Identities=24% Similarity=0.312 Sum_probs=32.0
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhh--cCC--CCEEEEeeccCCCCCcceec
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGI--FHG--RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~v--l~G--~N~tIfaYGqTGSGKTyTm~ 133 (667)
...|+||..+-.. .+ +..| ..+..+.+.. ..| ||. ++-||++|+||||.+.
T Consensus 105 ~~~~tFdnFv~g~-~N-~~a~-~~a~~~a~~~~~~~~~~~np-l~L~G~~G~GKTHLl~ 159 (445)
T PRK12422 105 DPLMTFANFLVTP-EN-DLPH-RILQEFTKVSEQGKGFPFNP-IYLFGPEGSGKTHLMQ 159 (445)
T ss_pred CccccccceeeCC-cH-HHHH-HHHHHHHhccccccCCCCce-EEEEcCCCCCHHHHHH
Confidence 3469999988543 23 3333 3455554432 223 454 6789999999999874
No 162
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=70.81 E-value=1.4 Score=39.98 Aligned_cols=18 Identities=33% Similarity=0.484 Sum_probs=12.9
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
..+++.+|++|+|||.++
T Consensus 4 ~~~~~i~G~~G~GKT~~~ 21 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLI 21 (131)
T ss_dssp ---EEEEE-TTSSHHHHH
T ss_pred CcccEEEcCCCCCHHHHH
Confidence 357899999999999975
No 163
>PRK06835 DNA replication protein DnaC; Validated
Probab=70.27 E-value=1.5 Score=47.75 Aligned_cols=31 Identities=26% Similarity=0.505 Sum_probs=23.4
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 102 ~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+...++.+-.+. -.|+-||++|+||||.+.
T Consensus 171 ~~~~f~~~f~~~~-~~Lll~G~~GtGKThLa~ 201 (329)
T PRK06835 171 KCKNFIENFDKNN-ENLLFYGNTGTGKTFLSN 201 (329)
T ss_pred HHHHHHHHHhccC-CcEEEECCCCCcHHHHHH
Confidence 3555777766544 559999999999999765
No 164
>PRK10436 hypothetical protein; Provisional
Probab=70.26 E-value=1.5 Score=49.98 Aligned_cols=28 Identities=29% Similarity=0.408 Sum_probs=22.9
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+..++..-++.|+..|+||||||.||.
T Consensus 209 ~l~~~~~~~~GliLvtGpTGSGKTTtL~ 236 (462)
T PRK10436 209 QFRQALQQPQGLILVTGPTGSGKTVTLY 236 (462)
T ss_pred HHHHHHHhcCCeEEEECCCCCChHHHHH
Confidence 3445566678899999999999999985
No 165
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=70.24 E-value=1.7 Score=49.91 Aligned_cols=28 Identities=29% Similarity=0.434 Sum_probs=22.8
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+..++..-.+.|+..|+||||||.||.
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL~ 260 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTLY 260 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4455666677889999999999999985
No 166
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=70.16 E-value=2.6 Score=50.19 Aligned_cols=46 Identities=28% Similarity=0.452 Sum_probs=36.1
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 634 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 634 (667)
-+|..|+.++|..++|||+++|+.|.++-... ...-+++|.+.||.
T Consensus 535 ~~l~~As~eeL~~i~GIG~~~A~sI~~ff~~~~~~~~i~~L~~~gv~ 581 (665)
T PRK07956 535 EALRAASEEELAAVEGVGEVVAQSIVEFFAVEENRELIDELLEAGVN 581 (665)
T ss_pred HHHHhCCHHHHhccCCcCHHHHHHHHHHHhhhhHHHHHHHHHHcCCC
Confidence 45667999999999999999999999987644 44555667666664
No 167
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=69.65 E-value=3.3 Score=44.04 Aligned_cols=27 Identities=26% Similarity=0.364 Sum_probs=22.7
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcC
Q 005960 594 ASREELVELKGIGQRLADYICELRQSS 620 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~ 620 (667)
.+.++|..|||||+++|..|+-+=-..
T Consensus 102 ~~~~~L~~LpGIG~~TA~~Il~~a~~~ 128 (275)
T TIGR01084 102 QDFEDLAALPGVGRYTAGAILSFALNK 128 (275)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHHCCC
Confidence 458999999999999999998765444
No 168
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=69.59 E-value=1.4 Score=43.62 Aligned_cols=30 Identities=30% Similarity=0.479 Sum_probs=21.3
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
++.|.+.+-.|.+..++-||+.|+|||+.|
T Consensus 8 l~~l~~~l~~~~~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 8 LEKLKELLESGPSQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp HHHHHHCHHH--SSEEEEEESTTSSHHHHH
T ss_pred HHHHHHHHHhhcCcEEEEEcCCcCCHHHHH
Confidence 344444445567888999999999999976
No 169
>PRK08181 transposase; Validated
Probab=69.53 E-value=2.4 Score=44.86 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.3
Q ss_pred CCCCEEEEeeccCCCCCcceecc
Q 005960 112 HGRNATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~G 134 (667)
.|.| |+-||++|+||||-+.+
T Consensus 105 ~~~n--lll~Gp~GtGKTHLa~A 125 (269)
T PRK08181 105 KGAN--LLLFGPPGGGKSHLAAA 125 (269)
T ss_pred cCce--EEEEecCCCcHHHHHHH
Confidence 4554 89999999999998764
No 170
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=69.43 E-value=1.5 Score=51.08 Aligned_cols=28 Identities=36% Similarity=0.504 Sum_probs=23.4
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+..++..-++.|+..|+||||||.||.
T Consensus 307 ~l~~~~~~~~Glilv~G~tGSGKTTtl~ 334 (564)
T TIGR02538 307 LFLEAIHKPQGMVLVTGPTGSGKTVSLY 334 (564)
T ss_pred HHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence 4556667778899999999999999975
No 171
>PRK08939 primosomal protein DnaI; Reviewed
Probab=69.41 E-value=2.5 Score=45.55 Aligned_cols=40 Identities=18% Similarity=0.361 Sum_probs=26.6
Q ss_pred chhHHHHhhccchhhhhcCC-CCEEEEeeccCCCCCcceecc
Q 005960 94 SVSKIFYSEVNPLIPGIFHG-RNATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G-~N~tIfaYGqTGSGKTyTm~G 134 (667)
.+..++. .+...++....| ..-.++-||++|+||||.+.+
T Consensus 135 ~~~~~~~-~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~A 175 (306)
T PRK08939 135 DRLDALM-AALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAA 175 (306)
T ss_pred HHHHHHH-HHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHH
Confidence 4445555 345566655443 234689999999999998754
No 172
>PRK10880 adenine DNA glycosylase; Provisional
Probab=69.24 E-value=3.5 Score=45.31 Aligned_cols=29 Identities=28% Similarity=0.367 Sum_probs=23.4
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcCCC
Q 005960 594 ASREELVELKGIGQRLADYICELRQSSPV 622 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~pf 622 (667)
.+.++|..|||||+++|..|+-+=-..||
T Consensus 106 ~~~~~L~~LpGIG~~TA~aIl~~af~~~~ 134 (350)
T PRK10880 106 ETFEEVAALPGVGRSTAGAILSLSLGKHF 134 (350)
T ss_pred hhHHHHhcCCCccHHHHHHHHHHHCCCCe
Confidence 56799999999999999999976533343
No 173
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=69.10 E-value=1.8 Score=40.91 Aligned_cols=24 Identities=42% Similarity=0.605 Sum_probs=18.6
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005960 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 108 ~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+.+.+|.+ ++..|+||+|||....
T Consensus 9 ~~i~~~~~--~li~aptGsGKT~~~~ 32 (169)
T PF00270_consen 9 EAIISGKN--VLISAPTGSGKTLAYI 32 (169)
T ss_dssp HHHHTTSE--EEEECSTTSSHHHHHH
T ss_pred HHHHcCCC--EEEECCCCCccHHHHH
Confidence 34456666 7789999999999865
No 174
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=69.00 E-value=3.7 Score=49.38 Aligned_cols=48 Identities=17% Similarity=0.254 Sum_probs=22.4
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhh-cCCCHHHHHHHhc
Q 005960 596 REELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-IGLSTKQVYNLFG 643 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~-vGi~~~~~~~l~~ 643 (667)
.+.|..+||||+++|+.|++.=+++ ..+.+-.+.. .||+++.+.+|.+
T Consensus 116 ~~~L~~v~gi~~~~~~~i~~~~~~~~~~~~~~~~L~~~gi~~~~a~ki~~ 165 (720)
T TIGR01448 116 PEKLLEVPGISKANLEKFVSQWSQQGDERRLLAGLQGLGIGIKLAQRIYK 165 (720)
T ss_pred HHHHhcCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 4445555555555555555543333 2333332222 2555555555544
No 175
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=68.94 E-value=3 Score=45.24 Aligned_cols=20 Identities=50% Similarity=0.825 Sum_probs=17.0
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005960 113 GRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 113 G~N~tIfaYGqTGSGKTyTm 132 (667)
+....++-||++|+|||+++
T Consensus 38 ~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 38 SRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CCCCcEEEECCCCCCHHHHH
Confidence 45567999999999999975
No 176
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=68.33 E-value=3.6 Score=44.19 Aligned_cols=43 Identities=35% Similarity=0.605 Sum_probs=36.8
Q ss_pred ccCcccCHHHHhcC-CCCC-----HHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 589 DFLNTASREELVEL-KGIG-----QRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 589 v~iNtA~~~eL~~l-pGIG-----~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..||+++.++|.+| .--| ..+|++|+++|++.||.+--||.++
T Consensus 140 evvN~~~e~~L~~I~~~yGEEr~arrIA~aIv~~R~~~pi~tT~eLaei 188 (314)
T COG0275 140 EVVNTYSEEDLARIFKEYGEERFAKRIARAIVERRKKKPIETTKELAEI 188 (314)
T ss_pred HHHhcCCHHHHHHHHHHhccHhhHHHHHHHHHHHhccCCCccHHHHHHH
Confidence 57899999999886 4444 4689999999998899999999884
No 177
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=68.26 E-value=2.1 Score=42.82 Aligned_cols=18 Identities=44% Similarity=0.658 Sum_probs=15.9
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
+.|+-.|+||||||.++.
T Consensus 2 GlilI~GptGSGKTTll~ 19 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLA 19 (198)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 578899999999999874
No 178
>PRK13766 Hef nuclease; Provisional
Probab=67.67 E-value=6.8 Score=47.30 Aligned_cols=46 Identities=22% Similarity=0.218 Sum_probs=35.6
Q ss_pred HhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhcc
Q 005960 599 LVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGK 644 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~ 644 (667)
|..|||||++.|.+|+++=..- --.+.++|.++ |||++..+.|...
T Consensus 717 L~~ipgig~~~a~~Ll~~fgs~~~i~~as~~~L~~i~Gig~~~a~~i~~~ 766 (773)
T PRK13766 717 VESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRIREV 766 (773)
T ss_pred HhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHH
Confidence 6889999999999999862110 23355688889 9999999998764
No 179
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=67.62 E-value=4.6 Score=47.73 Aligned_cols=50 Identities=24% Similarity=0.350 Sum_probs=35.3
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHHhccc
Q 005960 595 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~~ 645 (667)
....|..|||||+++|.+|+.+=... .-.++++|.+| ||++..++|...+
T Consensus 567 ~~s~L~~I~GIG~k~a~~Ll~~Fgs~~~i~~As~eeL~~v-ig~k~A~~I~~~~ 619 (621)
T PRK14671 567 LQTELTDIAGIGEKTAEKLLEHFGSVEKVAKASLEELAAV-AGPKTAETIYRYY 619 (621)
T ss_pred hhhhhhcCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHHHH-hCHHHHHHHHHHh
Confidence 34678899999999999998863110 22355666666 8888888886543
No 180
>PF12846 AAA_10: AAA-like domain
Probab=67.44 E-value=2.1 Score=44.30 Aligned_cols=19 Identities=42% Similarity=0.630 Sum_probs=15.9
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
|.-++..|.||||||++|.
T Consensus 1 n~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 4567889999999999874
No 181
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=66.73 E-value=1.8 Score=45.08 Aligned_cols=19 Identities=37% Similarity=0.606 Sum_probs=16.4
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
.+.|+-.|.||||||.+|.
T Consensus 127 ~~~ili~G~tGSGKTT~l~ 145 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLN 145 (270)
T ss_dssp TEEEEEEESTTSSHHHHHH
T ss_pred ceEEEEECCCccccchHHH
Confidence 6778889999999999873
No 182
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=66.49 E-value=4 Score=42.17 Aligned_cols=29 Identities=34% Similarity=0.472 Sum_probs=26.0
Q ss_pred cccCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 588 IDFLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 588 ~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.-+|=.|+.++|..+||||+++|++|+++
T Consensus 27 ve~Ik~AS~eEL~~V~GIg~k~AekI~e~ 55 (232)
T PRK12766 27 VEDVRAADQSELAEVDGIGNALAARIKAD 55 (232)
T ss_pred HHHHHhCCHHHHHHccCCCHHHHHHHHHH
Confidence 34667899999999999999999999887
No 183
>PRK06921 hypothetical protein; Provisional
Probab=66.29 E-value=2.7 Score=44.36 Aligned_cols=32 Identities=22% Similarity=0.296 Sum_probs=21.6
Q ss_pred hccchhhhhcC---CCCEEEEeeccCCCCCcceec
Q 005960 102 EVNPLIPGIFH---GRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 102 ~v~plV~~vl~---G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+...++.+-. +....|+-||++|+||||.+.
T Consensus 101 ~~~~~~~~f~~~~~~~~~~l~l~G~~G~GKThLa~ 135 (266)
T PRK06921 101 CAVEYVKDFEKIQESRKNSIALLGQPGSGKTHLLT 135 (266)
T ss_pred HHHHHHHHHHHhcccCCCeEEEECCCCCcHHHHHH
Confidence 34445555431 234568899999999999765
No 184
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=66.28 E-value=2.5 Score=46.15 Aligned_cols=29 Identities=28% Similarity=0.518 Sum_probs=22.1
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+.+..++.--.+.|+-.|+||||||.||.
T Consensus 112 ~~l~~~~~~~~g~ili~G~tGSGKTT~l~ 140 (343)
T TIGR01420 112 PVLRELAERPRGLILVTGPTGSGKSTTLA 140 (343)
T ss_pred HHHHHHHhhcCcEEEEECCCCCCHHHHHH
Confidence 44555554445789999999999999984
No 185
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=66.24 E-value=3.9 Score=44.87 Aligned_cols=20 Identities=45% Similarity=0.758 Sum_probs=16.5
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005960 113 GRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 113 G~N~tIfaYGqTGSGKTyTm 132 (667)
+....++-||++|+|||+++
T Consensus 53 ~~~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 53 SRPLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CCCCeEEEECCCCCCHHHHH
Confidence 44456899999999999975
No 186
>PRK09482 flap endonuclease-like protein; Provisional
Probab=66.14 E-value=6 Score=41.67 Aligned_cols=40 Identities=23% Similarity=0.302 Sum_probs=29.6
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHhc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFG 643 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~ 643 (667)
+-.+||||||.|.++|+. |.+++.+.+ + -|+++.-++|++
T Consensus 184 IpGVpGIG~KtA~~LL~~-----~gsle~i~~~~~~~~~~~~~~L~~ 225 (256)
T PRK09482 184 IPGVAGIGPKSAAELLNQ-----FRSLENIYESLDALPEKWRKKLEE 225 (256)
T ss_pred CCCCCCcChHHHHHHHHH-----hCCHHHHHHhHHHhhHHHHHHHHH
Confidence 456799999999999984 788888866 4 565555555543
No 187
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=65.79 E-value=2.4 Score=40.70 Aligned_cols=30 Identities=27% Similarity=0.438 Sum_probs=16.8
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
+..+++....|....++-+|..|+|||+.+
T Consensus 12 l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 12 LRDLLDAAQSGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp HHHTTGGTSS-----EEE-B-TTSSHHHHH
T ss_pred HHHHHHHHHcCCCcEEEEECCCCCCHHHHH
Confidence 344445445677788999999999999864
No 188
>TIGR01083 nth endonuclease III. This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=65.48 E-value=5.1 Score=40.05 Aligned_cols=23 Identities=39% Similarity=0.736 Sum_probs=19.9
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHH
Q 005960 595 SREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
..++|..|||||++.|+.|+-+=
T Consensus 104 ~~~~L~~l~GIG~ktA~~ill~~ 126 (191)
T TIGR01083 104 DREELVKLPGVGRKTANVVLNVA 126 (191)
T ss_pred HHHHHHhCCCCcHHHHHHHHHHH
Confidence 46899999999999999998543
No 189
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.
Probab=65.30 E-value=15 Score=38.19 Aligned_cols=54 Identities=20% Similarity=0.179 Sum_probs=33.2
Q ss_pred ecCChHHHHHHHHHHHhcccccccCCCCCCCCcEEEEEEEEEEEeCCCCCceEEEEEEEEECCCCCCc
Q 005960 202 PVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLAGNEDN 269 (667)
Q Consensus 202 ~V~S~~e~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~v~~~~~~~~~~~~~skL~fVDLAGSEr~ 269 (667)
.+.+++++...+..+... .... + ..-|.-++.|.|.... .-.|+||||+|..+.
T Consensus 85 ~~~~~~~v~~~i~~~~~~-~~~~---~--~~~s~~~i~l~i~~p~--------~~~ltLIDlPGl~~~ 138 (240)
T smart00053 85 KFTDFDEVRNEIEAETDR-VTGT---N--KGISPVPINLRVYSPH--------VLNLTLIDLPGITKV 138 (240)
T ss_pred ccCCHHHHHHHHHHHHHH-hcCC---C--CcccCcceEEEEeCCC--------CCceEEEeCCCcccc
Confidence 346788888888766542 1111 1 2235567777776432 246899999999643
No 190
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=64.83 E-value=3.4 Score=48.62 Aligned_cols=46 Identities=30% Similarity=0.412 Sum_probs=35.2
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCC-CCHHHHhhcCCC
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELRQSSPV-KSLSDLEKIGLS 634 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf-~~~~dL~~vGi~ 634 (667)
-+|=.|+.++|..|||||+++|+.|+++-..--. .-+++|...|+.
T Consensus 535 ~~l~~a~~e~l~~i~giG~~vA~si~~ff~~~~~~~li~~L~~~g~~ 581 (667)
T COG0272 535 EALLAASEEELASIPGIGEVVARSIIEFFANEENRELIDELLAAGVK 581 (667)
T ss_pred HHHHhcCHHHHhhccchhHHHHHHHHHHHcCHHHHHHHHHHHHcCCC
Confidence 4566899999999999999999999999864422 345555555643
No 191
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=64.69 E-value=7.3 Score=47.47 Aligned_cols=52 Identities=19% Similarity=0.317 Sum_probs=38.2
Q ss_pred CcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-------CCC-HHHHHHHhccccc
Q 005960 591 LNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-------GLS-TKQVYNLFGKAAK 647 (667)
Q Consensus 591 iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-------Gi~-~~~~~~l~~~~~~ 647 (667)
-|....+-|..|||||++.|.+|+++ |+++++|.+. +|| ++..++|..-+..
T Consensus 751 ~~~~~q~~L~~lPgI~~~~a~~ll~~-----f~si~~l~~as~eeL~~~iG~~~~A~~i~~fl~~ 810 (814)
T TIGR00596 751 FNDGPQDFLLKLPGVTKKNYRNLRKK-----VKSIRELAKLSQNELNELIGDEEAAKRLYDFLRT 810 (814)
T ss_pred ccHHHHHHHHHCCCCCHHHHHHHHHH-----cCCHHHHHhCCHHHHHHHhCCHHHHHHHHHHhcc
Confidence 35555677999999999999999985 8776655431 355 8888888776543
No 192
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=64.47 E-value=2.5 Score=44.44 Aligned_cols=27 Identities=30% Similarity=0.480 Sum_probs=20.6
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+..++..-.+.|+-.|+||||||.+|.
T Consensus 72 l~~~~~~~~GlilisG~tGSGKTT~l~ 98 (264)
T cd01129 72 FRKLLEKPHGIILVTGPTGSGKTTTLY 98 (264)
T ss_pred HHHHHhcCCCEEEEECCCCCcHHHHHH
Confidence 344555556678899999999999874
No 193
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=64.46 E-value=2.8 Score=46.47 Aligned_cols=20 Identities=30% Similarity=0.348 Sum_probs=16.9
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005960 114 RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++.|+..|+||||||.||.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~ 167 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAA 167 (372)
T ss_pred cCCEEEEECCCCCCHHHHHH
Confidence 45678889999999999974
No 194
>PRK14976 5'-3' exonuclease; Provisional
Probab=64.24 E-value=5.7 Score=42.33 Aligned_cols=39 Identities=21% Similarity=0.285 Sum_probs=28.5
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLF 642 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~ 642 (667)
+-.+||||+|.|.++|+ .|.+++++.+ + -+.++.-++|+
T Consensus 193 ipGVpGIG~KtA~~LL~-----~~gsle~i~~~~~~~~~~~~~~L~ 233 (281)
T PRK14976 193 IKGVKGIGPKTAIKLLN-----KYGNIENIYENIDKIKKKIKNKLS 233 (281)
T ss_pred CCCCCcccHHHHHHHHH-----HcCCHHHHHHhHHHHhHHHHHHHH
Confidence 45689999999999996 4889999866 4 55544444444
No 195
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=64.19 E-value=7 Score=41.75 Aligned_cols=44 Identities=25% Similarity=0.424 Sum_probs=30.2
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCH--------HHHhhc-CCCHHHHHHHhcccc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSL--------SDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~--------~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
|..|||||+++|+++.++. |.++ ++|.++ |++.+..++|..++.
T Consensus 1 l~~i~gig~~~~~~L~~~G----i~ti~dl~~~~~~~L~~~~g~~~~~a~~l~~~~~ 53 (310)
T TIGR02236 1 LEDLPGVGPATAEKLREAG----YDTFEAIAVASPKELSEIAGISEGTAAKIIQAAR 53 (310)
T ss_pred CcccCCCCHHHHHHHHHcC----CCCHHHHHcCCHHHHHhccCCCHHHHHHHHHHHH
Confidence 3568888888888887773 5544 445556 787777777766554
No 196
>TIGR01259 comE comEA protein. This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation.
Probab=64.13 E-value=5.7 Score=36.93 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=21.5
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 593 TASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
-++.++|..+||||++++++|-+|
T Consensus 94 f~s~eeL~~V~GIg~k~~~~i~~~ 117 (120)
T TIGR01259 94 FKSVDDLTKVSGIGEKSLEKLKDY 117 (120)
T ss_pred cCCHHHHHcCCCCCHHHHHHHHhc
Confidence 488999999999999999998654
No 197
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=64.01 E-value=7.9 Score=41.66 Aligned_cols=46 Identities=17% Similarity=0.361 Sum_probs=35.0
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH--------hhc-CCCHHHHHHHhcccc
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDL--------EKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL--------~~v-Gi~~~~~~~l~~~~~ 646 (667)
-.|..|||||+++|++..+. +|.+++|| .++ |++++..+.|..++.
T Consensus 6 ~~l~~l~gIg~~~a~~L~~~----Gi~t~~dl~~~~~~~L~~~~g~~~~~a~~l~~~a~ 60 (317)
T PRK04301 6 KDLEDLPGVGPATAEKLREA----GYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAR 60 (317)
T ss_pred ccHhhcCCCCHHHHHHHHHc----CCCCHHHHHcCCHHHHHHhcCCCHHHHHHHHHHHH
Confidence 45788999999999877665 57665555 456 888888888887764
No 198
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=63.99 E-value=3 Score=45.99 Aligned_cols=24 Identities=38% Similarity=0.540 Sum_probs=19.4
Q ss_pred hcCCCCEEEEeeccCCCCCcceec
Q 005960 110 IFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 110 vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
++.--.+.|+..|+||||||.||.
T Consensus 129 ~~~~~~glilI~GpTGSGKTTtL~ 152 (358)
T TIGR02524 129 AIAPQEGIVFITGATGSGKSTLLA 152 (358)
T ss_pred HHhccCCEEEEECCCCCCHHHHHH
Confidence 343456899999999999999874
No 199
>KOG1857 consensus Transcription accessory protein TEX, contains S1 domain [Transcription]
Probab=63.97 E-value=3.6 Score=46.50 Aligned_cols=63 Identities=13% Similarity=0.101 Sum_probs=52.2
Q ss_pred ccccCcccCHHHHhcC------CCCCHHHHHH-----HHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhccccccccCCC
Q 005960 587 YIDFLNTASREELVEL------KGIGQRLADY-----ICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAAKGIFDRP 653 (667)
Q Consensus 587 ~~v~iNtA~~~eL~~l------pGIG~~~A~~-----Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~~~~ 653 (667)
..+++|+|....++.. -|+-+|++-- |.+.|..| ||++++|+.++ ||- ..+.++...-.|+.+
T Consensus 151 ~~~~~~sA~p~r~~~~~~~~~kRG~~EK~~~~~~~~~~~d~~R~H~~f~gf~e~~~~~~I~----~~FnD~~~~~~F~~~ 226 (623)
T KOG1857|consen 151 RQLLLTSAVPGRTLMGVDPGYKRGCKEKIISPTSQILHTDVVRLHCGFQGFREAEKIKTIL----LNFNDSTVVIGFGTA 226 (623)
T ss_pred hhHHhccCCchhhhhccCchhhcchHHHhhccccchhhhhHHHHhCcccchHHHHHhhhhh----hccccceEEeecccc
Confidence 3589999999999888 8999999988 89999999 99999999999 886 445556666666653
No 200
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=63.96 E-value=3.4 Score=40.85 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=15.6
Q ss_pred EEEEeeccCCCCCcceecc
Q 005960 116 ATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~G 134 (667)
-.++-||++|+||||...+
T Consensus 48 ~~l~l~G~~G~GKThLa~a 66 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVA 66 (178)
T ss_dssp -EEEEEESTTSSHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHH
Confidence 4589999999999998653
No 201
>PRK07758 hypothetical protein; Provisional
Probab=63.88 E-value=11 Score=33.67 Aligned_cols=55 Identities=20% Similarity=0.174 Sum_probs=36.7
Q ss_pred CCCccccchhhhhhhhhccccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcC
Q 005960 566 GTPLDKFSARSIRLKNSLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSS 620 (667)
Q Consensus 566 ~~p~~~~~~~~~~~~~s~~~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~ 620 (667)
.+...+++.++.+.=....-..+-+|-.-+.+||..|+|+|++-.+.|.+.-.+.
T Consensus 36 ~~~~~~LSvRA~N~Lk~AGI~TL~dLv~~te~ELl~iknlGkKSL~EIkekL~E~ 90 (95)
T PRK07758 36 EGFLSLLSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEES 90 (95)
T ss_pred CCCCccccHHHHHHHHHcCCCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHHc
Confidence 3344566666554433332334455667889999999999999999988765543
No 202
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=63.75 E-value=5.5 Score=43.00 Aligned_cols=43 Identities=33% Similarity=0.556 Sum_probs=36.2
Q ss_pred ccCcccCHHHHhcC-CCC-----CHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 589 DFLNTASREELVEL-KGI-----GQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 589 v~iNtA~~~eL~~l-pGI-----G~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..||+.+.++|..| .-- -.++|.+|+++|+..||.+-.||.++
T Consensus 136 ~~ln~~~e~~L~~i~~~yGEe~~a~~IA~~Iv~~R~~~~i~tt~~L~~i 184 (305)
T TIGR00006 136 EILNTYSEEDLERILKKYGEEKFSKRIARAIVERRKKKPIQTTKELAEL 184 (305)
T ss_pred HHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence 57899999999875 333 45789999999998899999999884
No 203
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=63.68 E-value=4.1 Score=43.17 Aligned_cols=31 Identities=32% Similarity=0.480 Sum_probs=25.2
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+.++++.+.--.-+.|+-.|+|||||+.||-
T Consensus 115 LPevlk~la~~kRGLviiVGaTGSGKSTtmA 145 (375)
T COG5008 115 LPEVLKDLALAKRGLVIIVGATGSGKSTTMA 145 (375)
T ss_pred CcHHHHHhhcccCceEEEECCCCCCchhhHH
Confidence 3466677666777889999999999999984
No 204
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=63.60 E-value=3 Score=37.58 Aligned_cols=15 Identities=33% Similarity=0.561 Sum_probs=13.1
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+-||+.|+|||+..
T Consensus 1 ill~G~~G~GKT~l~ 15 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLA 15 (132)
T ss_dssp EEEESSTTSSHHHHH
T ss_pred CEEECcCCCCeeHHH
Confidence 578999999999864
No 205
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=63.51 E-value=3.9 Score=49.96 Aligned_cols=22 Identities=36% Similarity=0.607 Sum_probs=17.8
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|-+.+||.||++|+|||.|+.
T Consensus 778 sgpnnvLYIyG~PGTGKTATVK 799 (1164)
T PTZ00112 778 SGSNQILYISGMPGTGKTATVY 799 (1164)
T ss_pred CCCCceEEEECCCCCCHHHHHH
Confidence 3455678899999999999863
No 206
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=63.28 E-value=2.4 Score=42.42 Aligned_cols=26 Identities=23% Similarity=0.405 Sum_probs=18.2
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005960 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 108 ~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
..++...+..++..|..|+||||+|.
T Consensus 11 ~~~l~~~~~~~~l~G~aGtGKT~~l~ 36 (196)
T PF13604_consen 11 RAILTSGDRVSVLQGPAGTGKTTLLK 36 (196)
T ss_dssp HHHHHCTCSEEEEEESTTSTHHHHHH
T ss_pred HHHHhcCCeEEEEEECCCCCHHHHHH
Confidence 34444444445668999999999873
No 207
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=62.79 E-value=7.5 Score=40.36 Aligned_cols=39 Identities=21% Similarity=0.215 Sum_probs=28.3
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc--CCCHHHHHHHh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEKI--GLSTKQVYNLF 642 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v--Gi~~~~~~~l~ 642 (667)
+..+||||+|.|.++|+ .|.+++++.+- -++.+.-++|.
T Consensus 185 ipGv~GiG~ktA~~Ll~-----~~gsle~i~~~~~~~~~~~~~~l~ 225 (240)
T cd00008 185 IPGVPGIGEKTAAKLLK-----EYGSLEGILENLDKIKGKLREKLE 225 (240)
T ss_pred CCCCCccCHHHHHHHHH-----HhCCHHHHHHhHHHHhHHHHHHHH
Confidence 45689999999999996 48999999774 44444444343
No 208
>TIGR00575 dnlj DNA ligase, NAD-dependent. The member of this family from Treponema pallidum differs in having three rather than just one copy of the BRCT (BRCA1 C Terminus) domain (pfam00533) at the C-terminus. It is included in the seed.
Probab=62.73 E-value=4.4 Score=48.17 Aligned_cols=45 Identities=29% Similarity=0.522 Sum_probs=34.2
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 634 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 634 (667)
+|-.|+.++|..++|||+++|+.|+++=... -..-+++|.+.||.
T Consensus 523 ~l~~As~eeL~~i~GIG~~~A~~I~~ff~~~~~~~~i~~L~~~gv~ 568 (652)
T TIGR00575 523 KLKAASLEELLSVEGVGPKVAESIVNFFHDPNNRQLIKKLEELGVE 568 (652)
T ss_pred HHHhCCHHHHhcCCCcCHHHHHHHHHHHhhhhHHHHHHHHHHcCCC
Confidence 4556899999999999999999999985433 33446666666664
No 209
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=62.69 E-value=6.4 Score=37.61 Aligned_cols=25 Identities=32% Similarity=0.599 Sum_probs=21.5
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 593 TASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
....++|..|||||++.|+.|+-+-
T Consensus 79 ~~~~~~L~~l~GIG~~tA~~~l~~~ 103 (158)
T cd00056 79 PDAREELLALPGVGRKTANVVLLFA 103 (158)
T ss_pred cccHHHHHcCCCCCHHHHHHHHHHH
Confidence 4467889999999999999988764
No 210
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=62.31 E-value=6 Score=42.53 Aligned_cols=43 Identities=35% Similarity=0.567 Sum_probs=36.3
Q ss_pred ccCcccCHHHHhcC-CC-----CCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 589 DFLNTASREELVEL-KG-----IGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 589 v~iNtA~~~eL~~l-pG-----IG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..||+.+.++|..| .- --.++|.+|+++|+..||.+-.||.++
T Consensus 134 ~~ln~~~~~~L~~i~~~yGee~~a~~iA~~Iv~~R~~~~~~tt~~L~~~ 182 (296)
T PRK00050 134 EVVNTYSEEELARIFKEYGEERFARRIARAIVEARPKKPITTTGELAEI 182 (296)
T ss_pred HHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHhccCCCCCHHHHHHH
Confidence 57899999999875 33 346899999999998899999999885
No 211
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=62.13 E-value=6.3 Score=28.03 Aligned_cols=15 Identities=27% Similarity=0.539 Sum_probs=11.8
Q ss_pred HhcCCCCCHHHHHHH
Q 005960 599 LVELKGIGQRLADYI 613 (667)
Q Consensus 599 L~~lpGIG~~~A~~I 613 (667)
+..++|||+++++++
T Consensus 13 i~~~~GIG~kt~~kL 27 (32)
T PF11798_consen 13 IRKFWGIGKKTAKKL 27 (32)
T ss_dssp GGGSTTS-HHHHHHH
T ss_pred HHhhCCccHHHHHHH
Confidence 567999999999874
No 212
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=61.63 E-value=7.4 Score=40.02 Aligned_cols=31 Identities=29% Similarity=0.328 Sum_probs=26.3
Q ss_pred cccCcccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 588 IDFLNTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 588 ~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
...+-.|+.+||+.++|||+..|..|.+.++
T Consensus 51 l~~l~~a~~~eL~~i~GiG~aka~~l~a~~E 81 (218)
T TIGR00608 51 LGHLLSAPPEELSSVPGIGEAKAIQLKAAVE 81 (218)
T ss_pred HHHHHhCCHHHHHhCcCCcHHHHHHHHHHHH
Confidence 4556789999999999999999998877654
No 213
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=61.20 E-value=5 Score=47.80 Aligned_cols=41 Identities=22% Similarity=0.404 Sum_probs=32.7
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005960 594 ASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 634 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 634 (667)
++.++|..|+|||+++|+.|+++-... -..-+++|.++||.
T Consensus 538 ~~~e~l~~i~giG~~~a~si~~ff~~~~~~~~i~~l~~~gv~ 579 (669)
T PRK14350 538 FALSKLLKIKGIGEKIALNIIEAFNDKIILDKFNFFKNLGFK 579 (669)
T ss_pred CCHHHHhhCCCccHHHHHHHHHHHcCHHHHHHHHHHHHcCCC
Confidence 688999999999999999999987543 34456677777775
No 214
>PF13479 AAA_24: AAA domain
Probab=61.16 E-value=4 Score=41.34 Aligned_cols=19 Identities=37% Similarity=0.606 Sum_probs=16.1
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
+..++.||++|+|||++..
T Consensus 3 ~~~~lIyG~~G~GKTt~a~ 21 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLAA 21 (213)
T ss_pred ceEEEEECCCCCCHHHHHH
Confidence 4568999999999998764
No 215
>PRK04328 hypothetical protein; Provisional
Probab=60.66 E-value=13 Score=38.67 Aligned_cols=49 Identities=20% Similarity=0.248 Sum_probs=32.5
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEE
Q 005960 105 PLIPGIFHG---RNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (667)
Q Consensus 105 plV~~vl~G---~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~E 166 (667)
+-+|.++.| ....++-+|.+|+|||.- +++-++..+......+.+|+-|
T Consensus 10 ~~LD~lL~GGip~gs~ili~G~pGsGKT~l-------------~~~fl~~~~~~ge~~lyis~ee 61 (249)
T PRK04328 10 PGMDEILYGGIPERNVVLLSGGPGTGKSIF-------------SQQFLWNGLQMGEPGVYVALEE 61 (249)
T ss_pred hhHHHHhcCCCcCCcEEEEEcCCCCCHHHH-------------HHHHHHHHHhcCCcEEEEEeeC
Confidence 456777766 478899999999999862 3444555444445556666544
No 216
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=60.58 E-value=4.7 Score=43.60 Aligned_cols=43 Identities=37% Similarity=0.599 Sum_probs=34.0
Q ss_pred ccCcccCHHHHhcC------CCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 589 DFLNTASREELVEL------KGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 589 v~iNtA~~~eL~~l------pGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
..||+.+.++|..| .-=..++|.+|++.|++.||.+-.||.++
T Consensus 137 ~ilN~~se~~L~~I~~~yGee~~a~~IA~~Iv~~R~~~pi~tT~~L~~i 185 (310)
T PF01795_consen 137 DILNTYSEEELARIFREYGEEKFARRIARAIVEARKKKPITTTKELAEI 185 (310)
T ss_dssp HHHHHS-HHHHHHHHHHHH--TTHHHHHHHHHHHHHHSS--BHHHHHHH
T ss_pred HHHHhcCHHHHHHHHHhcCchhHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence 57899999999876 23467999999999999999999999884
No 217
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=60.37 E-value=3.1 Score=45.12 Aligned_cols=28 Identities=29% Similarity=0.423 Sum_probs=19.2
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++..++.+. ..|+-.|.||||||++|.
T Consensus 139 ~~L~~~v~~~-~~ilI~G~tGSGKTTll~ 166 (319)
T PRK13894 139 EAIIAAVRAH-RNILVIGGTGSGKTTLVN 166 (319)
T ss_pred HHHHHHHHcC-CeEEEECCCCCCHHHHHH
Confidence 4455555543 456667999999997763
No 218
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=60.30 E-value=7.5 Score=36.79 Aligned_cols=23 Identities=35% Similarity=0.690 Sum_probs=19.8
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHH
Q 005960 595 SREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
..++|.+|||||++.|+.|+-+=
T Consensus 70 ~~~~L~~l~GIG~~tA~~~l~~~ 92 (149)
T smart00478 70 DREELLKLPGVGRKTANAVLSFA 92 (149)
T ss_pred HHHHHHcCCCCcHHHHHHHHHHH
Confidence 56889999999999999887663
No 219
>PF00063 Myosin_head: Myosin head (motor domain); InterPro: IPR001609 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril. Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. The globular head is well conserved, some highly-conserved regions possibly relating to functional and structural domains []. The rod-like tail starts with an invariant proline residue, and contains many repeats of a 28 residue region, interrupted at 4 regularly-spaced points known as skip residues. Although the sequence of the tail is not well conserved, the chemical character is, hydrophobic, charged and skip residues occuring in a highly ordered and repeated fashion [].; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 1LKX_A 2V26_A 2BKI_A 3L9I_A 2BKH_A 2X51_A 2VB6_A 2VAS_A 1OE9_A 1W8J_A ....
Probab=60.26 E-value=19 Score=43.03 Aligned_cols=32 Identities=31% Similarity=0.482 Sum_probs=26.1
Q ss_pred CCCCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhh
Q 005960 112 HGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSIC 153 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~ 153 (667)
.+.|.||+..|.+|||||.++. .++++|....
T Consensus 82 ~~~~Q~IiisGeSGsGKTe~~k----------~il~~L~~~~ 113 (689)
T PF00063_consen 82 TRQNQSIIISGESGSGKTETSK----------LILRYLASLS 113 (689)
T ss_dssp HTSEEEEEEEESTTSSHHHHHH----------HHHHHHHHHS
T ss_pred cccccceeeccccccccccchH----------HHHHHHhhhc
Confidence 5889999999999999999963 5666666544
No 220
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=60.07 E-value=3.4 Score=41.55 Aligned_cols=17 Identities=41% Similarity=0.563 Sum_probs=14.8
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.|+-.|+||+|||.|+.
T Consensus 3 vi~lvGptGvGKTTt~a 19 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIA 19 (196)
T ss_dssp EEEEEESTTSSHHHHHH
T ss_pred EEEEECCCCCchHhHHH
Confidence 47789999999999964
No 221
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=60.06 E-value=3.8 Score=40.51 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=12.9
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
..+..|+.|||||+|+.
T Consensus 19 ~~~i~GpPGTGKT~~l~ 35 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLA 35 (236)
T ss_dssp -EEEE-STTSSHHHHHH
T ss_pred CEEEECCCCCChHHHHH
Confidence 45679999999999875
No 222
>smart00475 53EXOc 5'-3' exonuclease.
Probab=59.45 E-value=7.3 Score=41.03 Aligned_cols=39 Identities=23% Similarity=0.361 Sum_probs=27.3
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLF 642 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~ 642 (667)
+-.+||||+|.|.++|+ .|.+++.+.+ + -+.++.-++|+
T Consensus 188 ipGV~GIG~KtA~~Ll~-----~ygsle~i~~~~~~~~~~~~~~l~ 228 (259)
T smart00475 188 IPGVPGIGEKTAAKLLK-----EFGSLENILENLDKLKKKLREKLL 228 (259)
T ss_pred CCCCCCCCHHHHHHHHH-----HhCCHHHHHHHHHHHHHHHHHHHH
Confidence 45689999999999996 4778888866 4 45444444343
No 223
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=59.27 E-value=6.1 Score=41.43 Aligned_cols=27 Identities=44% Similarity=0.572 Sum_probs=23.7
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHH
Q 005960 589 DFLNTASREELVELKGIGQRLADYICE 615 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~ 615 (667)
-++=||+.++|+++.|||+++|.+|=.
T Consensus 206 ~~~~tas~~eL~~v~gig~k~A~~I~~ 232 (254)
T COG1948 206 EDVLTASEEELMKVKGIGEKKAREIYR 232 (254)
T ss_pred HHHhhcCHHHHHHhcCccHHHHHHHHH
Confidence 456689999999999999999999854
No 224
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=59.22 E-value=5.2 Score=45.50 Aligned_cols=62 Identities=29% Similarity=0.326 Sum_probs=42.5
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCC---------C-----CCCChHH---------HHHHHHhhhccCCceEEEE
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSE---------E-----RPGLMPL---------AMSKILSICQSTGSTAEIS 163 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm~G~~---------~-----~~GLipr---------al~~LF~~~~~~~~~v~vS 163 (667)
|..+.+|.+. +|++|||||||+...++- . ..|..|+ .+..||..+....+...+-
T Consensus 105 ip~i~~Grdl--~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~ 182 (482)
T KOG0335|consen 105 IPIISGGRDL--MACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMK 182 (482)
T ss_pred cceeecCCce--EEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccce
Confidence 4445667665 899999999999987641 1 1122333 3577888777777777777
Q ss_pred EEEEecc
Q 005960 164 YYEVYMD 170 (667)
Q Consensus 164 ~~EIYnE 170 (667)
.+.+|+.
T Consensus 183 ~~~~ygg 189 (482)
T KOG0335|consen 183 SVVVYGG 189 (482)
T ss_pred eeeeeCC
Confidence 7888865
No 225
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=57.69 E-value=3.4 Score=44.29 Aligned_cols=28 Identities=25% Similarity=0.383 Sum_probs=20.2
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++..++.+ ...|+-.|.||||||.+|.
T Consensus 123 ~~L~~~v~~-~~~ilI~G~tGSGKTTll~ 150 (299)
T TIGR02782 123 DVLREAVLA-RKNILVVGGTGSGKTTLAN 150 (299)
T ss_pred HHHHHHHHc-CCeEEEECCCCCCHHHHHH
Confidence 445555553 4567899999999999863
No 226
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=57.52 E-value=6.6 Score=41.16 Aligned_cols=36 Identities=22% Similarity=0.276 Sum_probs=23.7
Q ss_pred hhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 95 VSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 95 Q~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
+...|. .+..+++.+-+|. .++-||+.|+||||-..
T Consensus 88 ~~~~l~-~~~~~~~~~~~~~--nl~l~G~~G~GKThLa~ 123 (254)
T COG1484 88 DKKALE-DLASLVEFFERGE--NLVLLGPPGVGKTHLAI 123 (254)
T ss_pred hHHHHH-HHHHHHHHhccCC--cEEEECCCCCcHHHHHH
Confidence 345554 3555555555443 45779999999999765
No 227
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=57.38 E-value=5.7 Score=46.31 Aligned_cols=41 Identities=22% Similarity=0.174 Sum_probs=30.0
Q ss_pred CcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhc
Q 005960 591 LNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI 631 (667)
Q Consensus 591 iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~v 631 (667)
|-.|+.++|..|+|||+++|+.|+++=... ...-+++|.+.
T Consensus 514 l~~a~~e~l~~i~gIG~~~a~si~~~f~~~~~~~~i~~L~~~ 555 (562)
T PRK08097 514 LLSRSEQQWQQLPGIGEGRARQLIAFLQHPEVKALADWLAAQ 555 (562)
T ss_pred HHcCCHHHHhcCCCchHHHHHHHHHHHcCHHHHHHHHHHHHc
Confidence 345789999999999999999999985432 33334455553
No 228
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=57.10 E-value=12 Score=44.83 Aligned_cols=44 Identities=7% Similarity=-0.020 Sum_probs=26.3
Q ss_pred CCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 602 LKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 602 lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
|||||++.|++|.++=... --.+.+||.++ |||++..+.|...+
T Consensus 533 IpgIG~~~ak~L~~~F~si~~L~~As~eeL~~i~GIG~k~A~sI~~ff 580 (689)
T PRK14351 533 IPEVGPTTARNLAREFGTFEAIMDADEEALRAVDDVGPTVAEEIREFF 580 (689)
T ss_pred CCCcCHHHHHHHHHHhCCHHHHHhCCHHHHhccCCcCHHHHHHHHHHH
Confidence 5666666666555421100 12345667778 99999988776553
No 229
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=57.10 E-value=5.2 Score=42.67 Aligned_cols=21 Identities=29% Similarity=0.438 Sum_probs=16.3
Q ss_pred CCCEEEEeeccCCCCCcceec
Q 005960 113 GRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 113 G~N~tIfaYGqTGSGKTyTm~ 133 (667)
|....++-||++|+|||+++.
T Consensus 34 ~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 34 PNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCCceEEEECCCCCCHHHHHH
Confidence 443357889999999999863
No 230
>TIGR00588 ogg 8-oxoguanine DNA-glycosylase (ogg). All proteins in this family for which functions are known are 8-oxo-guanaine DNA glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is distantly realted to the Nth-MutY superfamily.
Probab=56.62 E-value=7.7 Score=41.92 Aligned_cols=21 Identities=52% Similarity=0.983 Sum_probs=18.2
Q ss_pred HHHHhcCCCCCHHHHHHHHHH
Q 005960 596 REELVELKGIGQRLADYICEL 616 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.++|.+|||||++.|+.|+-+
T Consensus 219 ~~~L~~l~GIG~~tAd~vll~ 239 (310)
T TIGR00588 219 REALCELPGVGPKVADCICLM 239 (310)
T ss_pred HHHHHhCCCccHHHHHHHHHH
Confidence 688999999999999987644
No 231
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=56.62 E-value=7.7 Score=41.38 Aligned_cols=22 Identities=27% Similarity=0.441 Sum_probs=18.3
Q ss_pred CHHHHhcCCCCCHHHHHHHHHH
Q 005960 595 SREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
..++|.+|||||++.|+.|+-.
T Consensus 205 ~~~~L~~LpGIGpwTA~~vllr 226 (283)
T PRK10308 205 AMKTLQTFPGIGRWTANYFALR 226 (283)
T ss_pred HHHHHhcCCCcCHHHHHHHHHH
Confidence 3589999999999999986543
No 232
>PRK09183 transposase/IS protein; Provisional
Probab=56.61 E-value=8.5 Score=40.38 Aligned_cols=20 Identities=30% Similarity=0.458 Sum_probs=15.8
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.| |+-+|++|+||||.+.
T Consensus 101 ~~~~--v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 101 RNEN--IVLLGPSGVGKTHLAI 120 (259)
T ss_pred cCCe--EEEEeCCCCCHHHHHH
Confidence 4554 5679999999999875
No 233
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=55.97 E-value=5.9 Score=42.77 Aligned_cols=25 Identities=28% Similarity=0.422 Sum_probs=18.0
Q ss_pred hhcCCCCEEEEeeccCCCCCcceec
Q 005960 109 GIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 109 ~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+..+.---.+-||+.|+|||.|..
T Consensus 51 a~~~~~lp~~LFyGPpGTGKTStal 75 (346)
T KOG0989|consen 51 ALLRRILPHYLFYGPPGTGKTSTAL 75 (346)
T ss_pred HHhhcCCceEEeeCCCCCcHhHHHH
Confidence 3333344457789999999999963
No 234
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=55.92 E-value=5.3 Score=35.81 Aligned_cols=16 Identities=31% Similarity=0.513 Sum_probs=13.7
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+-.|++|||||+..
T Consensus 1 vI~I~G~~gsGKST~a 16 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLA 16 (121)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4788999999999864
No 235
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=55.73 E-value=6.8 Score=43.09 Aligned_cols=35 Identities=20% Similarity=0.501 Sum_probs=25.6
Q ss_pred chhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 94 SVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|+.+|+.++..+.. .+| ..+|.-|+.|+||||.+
T Consensus 5 eQ~~~~~~v~~~~~~--~~~--~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 5 EQRRVFDTVIEAIEN--EEG--LNFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHc--cCC--cEEEEEcCCCCChhHHH
Confidence 578888876555433 334 56788999999999975
No 236
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=54.31 E-value=10 Score=38.75 Aligned_cols=23 Identities=39% Similarity=0.476 Sum_probs=20.0
Q ss_pred cCHHHHh-cCCCCCHHHHHHHHHH
Q 005960 594 ASREELV-ELKGIGQRLADYICEL 616 (667)
Q Consensus 594 A~~~eL~-~lpGIG~~~A~~Ii~~ 616 (667)
...++|. .|||||+|.|.-|+-+
T Consensus 115 ~~R~~Ll~~lpGIG~KTAd~vL~~ 138 (208)
T PRK01229 115 EAREFLVKNIKGIGYKEASHFLRN 138 (208)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHH
Confidence 5568898 9999999999999954
No 237
>PRK00024 hypothetical protein; Reviewed
Probab=54.10 E-value=11 Score=38.74 Aligned_cols=30 Identities=37% Similarity=0.299 Sum_probs=24.8
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
-.+=.|+.++|..++|||+..|..|.+.++
T Consensus 58 ~~l~~as~~eL~~i~GIG~akA~~L~a~~E 87 (224)
T PRK00024 58 RGLLDASLEELQSIKGIGPAKAAQLKAALE 87 (224)
T ss_pred HHHHhCCHHHHhhccCccHHHHHHHHHHHH
Confidence 445579999999999999999988866554
No 238
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=54.09 E-value=5.4 Score=36.76 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=13.2
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
.|+..|..|||||+.
T Consensus 1 lii~~G~pgsGKSt~ 15 (143)
T PF13671_consen 1 LIILCGPPGSGKSTL 15 (143)
T ss_dssp EEEEEESTTSSHHHH
T ss_pred CEEEECCCCCCHHHH
Confidence 378999999999985
No 239
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=54.07 E-value=6.8 Score=43.15 Aligned_cols=75 Identities=23% Similarity=0.367 Sum_probs=45.8
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhh-hcC--CCC--EEEEeeccCCCCCccee--------------ccCC---CCCC
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--GRN--ATVFAYGATGSGKTYTM--------------QGSE---ERPG 140 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~-vl~--G~N--~tIfaYGqTGSGKTyTm--------------~G~~---~~~G 140 (667)
+|+-|=+-+. +-+++.+.+-.||... .|+ |.. --|+.||+.|+|||-.- .|++ .--|
T Consensus 149 tY~dIGGL~~-Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiG 227 (406)
T COG1222 149 TYEDIGGLDE-QIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIG 227 (406)
T ss_pred ChhhccCHHH-HHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhc
Confidence 3444444332 4466777666777654 332 543 35899999999998642 2221 1124
Q ss_pred ChHHHHHHHHhhhccCCc
Q 005960 141 LMPLAMSKILSICQSTGS 158 (667)
Q Consensus 141 Lipral~~LF~~~~~~~~ 158 (667)
==+|.+++||..+.....
T Consensus 228 EGaRlVRelF~lArekaP 245 (406)
T COG1222 228 EGARLVRELFELAREKAP 245 (406)
T ss_pred cchHHHHHHHHHHhhcCC
Confidence 447999999998876544
No 240
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=54.07 E-value=4.3 Score=36.42 Aligned_cols=26 Identities=23% Similarity=0.436 Sum_probs=19.9
Q ss_pred EEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhh
Q 005960 118 VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSIC 153 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~ 153 (667)
|+-||++|.|||+.+. .++++|.+..
T Consensus 1 I~i~G~~G~GKS~l~~----------~l~~~l~~~~ 26 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAK----------ELAKDLLKHI 26 (107)
T ss_pred CEEECCCCCCHHHHHH----------HHHHHHHHHh
Confidence 5789999999999763 5666676655
No 241
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=53.72 E-value=14 Score=34.44 Aligned_cols=43 Identities=23% Similarity=0.397 Sum_probs=31.0
Q ss_pred HHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 598 ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 598 eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
.|..|.|||..+|+.|++.= .++.=.++ .++...+++|++.+-
T Consensus 18 ALt~IyGIG~~~a~~I~~~~------gi~~~~r~~eLteeei~~ir~~i~ 61 (121)
T COG0099 18 ALTYIYGIGRRRAKEICKKA------GIDPDKRVGELTEEEIERLRDAIQ 61 (121)
T ss_pred hhhhhccccHHHHHHHHHHc------CCCHhHhhccCCHHHHHHHHHHHH
Confidence 58889999999999999875 22333445 567777777776553
No 242
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=53.64 E-value=7.1 Score=36.87 Aligned_cols=19 Identities=37% Similarity=0.330 Sum_probs=15.0
Q ss_pred EEEEeeccCCCCCcceecc
Q 005960 116 ATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~G 134 (667)
..++..|++|||||.++..
T Consensus 25 ~~~~i~~~~GsGKT~~~~~ 43 (201)
T smart00487 25 RDVILAAPTGSGKTLAALL 43 (201)
T ss_pred CcEEEECCCCCchhHHHHH
Confidence 3457789999999997753
No 243
>cd00124 MYSc Myosin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new actin subunit. The release of Pi causes the head to pivot and move the fila
Probab=53.34 E-value=59 Score=39.02 Aligned_cols=22 Identities=32% Similarity=0.567 Sum_probs=20.2
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.|.||+.-|.+|||||.+.-
T Consensus 83 ~~~~QsIiisGESGaGKTe~~k 104 (679)
T cd00124 83 DRRNQSIIISGESGAGKTENTK 104 (679)
T ss_pred cCCCceEEEecCCCCCchHHHH
Confidence 5899999999999999999863
No 244
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=53.03 E-value=7.5 Score=46.53 Aligned_cols=45 Identities=24% Similarity=0.318 Sum_probs=35.6
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005960 590 FLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 634 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 634 (667)
+|-.|+.++|..++|||++.|+.|+++=... ...-+++|.+.|+.
T Consensus 553 ~L~~As~eeL~~i~GIG~k~A~sI~~ff~~~~n~~~i~~L~~~Gv~ 598 (689)
T PRK14351 553 AIMDADEEALRAVDDVGPTVAEEIREFFDSERNRAVIDDLLDHGVD 598 (689)
T ss_pred HHHhCCHHHHhccCCcCHHHHHHHHHHHhhhHHHHHHHHHHhcccc
Confidence 4556999999999999999999999985433 55566677766765
No 245
>cd01382 MYSc_type_VI Myosin motor domain, type VI myosins. Myosin VI is a monomeric myosin, which moves towards the minus-end of actin filaments, in contrast to most other myosins. It has been implicated in endocytosis, secretion, and cell migration. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the minus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of
Probab=52.89 E-value=64 Score=39.06 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=20.2
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.|.||+.-|.+|||||.|.-
T Consensus 88 ~~~~QsIiisGESGaGKTes~K 109 (717)
T cd01382 88 LKMSQSIIVSGESGAGKTENTK 109 (717)
T ss_pred cCCCCeEEEecCCCCChhHHHH
Confidence 6899999999999999999873
No 246
>cd01378 MYSc_type_I Myosin motor domain, type I myosins. Myosin I generates movement at the leading edge in cell motility, and class I myosins have been implicated in phagocytosis and vesicle transport. Myosin I, an unconventional myosin, does not form dimers. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 picon
Probab=52.87 E-value=56 Score=39.23 Aligned_cols=22 Identities=32% Similarity=0.498 Sum_probs=20.2
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.|.||+.-|.+|||||.+.-
T Consensus 83 ~~~~QsIiisGESGaGKTe~~K 104 (674)
T cd01378 83 ENENQCVIISGESGAGKTEAAK 104 (674)
T ss_pred cCCCceEEEEcCCCCCcchHHH
Confidence 5899999999999999999873
No 247
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=52.43 E-value=5 Score=39.91 Aligned_cols=17 Identities=41% Similarity=0.651 Sum_probs=12.7
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
-++.+|++|||||.+|.
T Consensus 40 h~li~G~tgsGKS~~l~ 56 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLLR 56 (205)
T ss_dssp SEEEE--TTSSHHHHHH
T ss_pred eEEEEcCCCCCccHHHH
Confidence 46889999999999874
No 248
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=52.07 E-value=9 Score=45.64 Aligned_cols=85 Identities=27% Similarity=0.440 Sum_probs=47.1
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC---CCCCChH----HHHHHHHhhh-
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE---ERPGLMP----LAMSKILSIC- 153 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~~---~~~GLip----ral~~LF~~~- 153 (667)
|....-|.|.- .|..-+. .+++.+-+|...-+ .+|.||||||+||-.-- ..|-||- .....|++.+
T Consensus 2 f~~~~~~~~~~-~Q~~ai~----~l~~~~~~~~~~~~-l~Gvtgs~kt~~~a~~~~~~~~p~Lvi~~n~~~A~ql~~el~ 75 (655)
T TIGR00631 2 FKLHSPFQPAG-DQPKAIA----KLVEGLTDGEKHQT-LLGVTGSGKTFTMANVIAQVNRPTLVIAHNKTLAAQLYNEFK 75 (655)
T ss_pred ceeccCCCCCh-HHHHHHH----HHHHhhhcCCCcEE-EECCCCcHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHHHH
Confidence 44455566653 5554444 56666666643323 78999999999986521 1222221 1223333322
Q ss_pred ---ccCCceEEEEEEEEeccee
Q 005960 154 ---QSTGSTAEISYYEVYMDRC 172 (667)
Q Consensus 154 ---~~~~~~v~vS~~EIYnE~v 172 (667)
........||||..|+-..
T Consensus 76 ~f~p~~~V~~f~sy~d~y~pe~ 97 (655)
T TIGR00631 76 EFFPENAVEYFVSYYDYYQPEA 97 (655)
T ss_pred HhCCCCeEEEEeeecccCCccc
Confidence 3333456789998887543
No 249
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=52.06 E-value=11 Score=44.09 Aligned_cols=50 Identities=12% Similarity=0.144 Sum_probs=35.0
Q ss_pred Cccccchhhhhhhhhccccc--cccCcccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 568 PLDKFSARSIRLKNSLVQEY--IDFLNTASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 568 p~~~~~~~~~~~~~s~~~~~--~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
.++..+-....-+..|...+ .-+|=.||.+||..+|||++++|+.|.++=
T Consensus 515 ~L~~I~GiG~kr~~~LL~~Fgs~~~I~~As~eeL~~v~gi~~~~A~~I~~~l 566 (574)
T PRK14670 515 NYTKIKGIGEKKAKKILKSLGTYKDILLLNEDEIAEKMKINIKMAKKIKKFA 566 (574)
T ss_pred ccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 33444443333344444432 467779999999999999999999998874
No 250
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=51.78 E-value=16 Score=30.99 Aligned_cols=45 Identities=27% Similarity=0.388 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 602 LKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 602 lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
+..--.++|+.|+++....++-++.||.+. |+++..+-++-.++-
T Consensus 14 ls~~e~~Ia~yil~~~~~~~~~si~elA~~~~vS~sti~Rf~kkLG 59 (77)
T PF01418_consen 14 LSPTEKKIADYILENPDEIAFMSISELAEKAGVSPSTIVRFCKKLG 59 (77)
T ss_dssp S-HHHHHHHHHHHH-HHHHCT--HHHHHHHCTS-HHHHHHHHHHCT
T ss_pred CCHHHHHHHHHHHhCHHHHHHccHHHHHHHcCCCHHHHHHHHHHhC
Confidence 333447899999999988899999999997 999999999887763
No 251
>PHA00729 NTP-binding motif containing protein
Probab=51.72 E-value=8.3 Score=39.87 Aligned_cols=29 Identities=21% Similarity=0.314 Sum_probs=20.2
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+++.+..|--..|+.+|.+|+||||...
T Consensus 7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~ 35 (226)
T PHA00729 7 KIVSAYNNNGFVSAVIFGKQGSGKTTYAL 35 (226)
T ss_pred HHHHHHhcCCeEEEEEECCCCCCHHHHHH
Confidence 34444444333579999999999999654
No 252
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=51.39 E-value=4 Score=44.88 Aligned_cols=43 Identities=26% Similarity=0.505 Sum_probs=28.1
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|+.|.+++. +-. -|+..+.+-.-+.|+.+|.+|+|||+.+
T Consensus 13 ~~pf~~ivGq~~-----~k~----al~~~~~~p~~~~vli~G~~GtGKs~~a 55 (350)
T CHL00081 13 VFPFTAIVGQEE-----MKL----ALILNVIDPKIGGVMIMGDRGTGKSTTI 55 (350)
T ss_pred CCCHHHHhChHH-----HHH----HHHHhccCCCCCeEEEEcCCCCCHHHHH
Confidence 699999998753 222 2222333322235789999999999975
No 253
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=51.37 E-value=5.4 Score=39.37 Aligned_cols=28 Identities=25% Similarity=0.319 Sum_probs=19.0
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 104 NPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 104 ~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+++...+.. ...++-.|++|||||.+|
T Consensus 15 ~~~l~~~v~~-g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 15 AAYLWLAVEA-RKNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHHHHHHhC-CCEEEEECCCCCCHHHHH
Confidence 3444444443 345678899999999876
No 254
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=51.15 E-value=12 Score=41.04 Aligned_cols=27 Identities=44% Similarity=0.349 Sum_probs=23.3
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
+|=.|+.++|+.++|||++.|..|-+.
T Consensus 312 ~Il~As~eeL~~VeGIGe~rA~~I~e~ 338 (352)
T PRK13482 312 GLLAASIEDLDEVEGIGEVRARAIREG 338 (352)
T ss_pred HHHcCCHHHHhhCCCcCHHHHHHHHHH
Confidence 444899999999999999999997654
No 255
>cd01377 MYSc_type_II Myosin motor domain, type II myosins. Myosin II mediates cortical contraction in cell motility, and is the motor in smooth and skeletal muscle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydro
Probab=50.95 E-value=73 Score=38.41 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=20.2
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.|.||+.-|.+|||||.+.-
T Consensus 88 ~~~~QsIiiSGESGAGKTes~K 109 (693)
T cd01377 88 DRENQSILITGESGAGKTENTK 109 (693)
T ss_pred cCCCceEEEEcCCCCCchHHHH
Confidence 5899999999999999999863
No 256
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=50.81 E-value=5.1 Score=41.76 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=15.3
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005960 114 RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++.++..|..|||||+||.
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~ 31 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLL 31 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHH
T ss_pred CCCCEEEEeCCCCCchHHHH
Confidence 56677788999999999974
No 257
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=50.48 E-value=5.6 Score=36.78 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=13.2
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+-+|++|+|||+.+
T Consensus 2 vlL~G~~G~GKt~l~ 16 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLA 16 (139)
T ss_dssp EEEEESSSSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 688999999999864
No 258
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=50.44 E-value=7.7 Score=38.13 Aligned_cols=17 Identities=29% Similarity=0.431 Sum_probs=14.7
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
+.++-+|++|+|||++.
T Consensus 4 ~~~ll~GpsGvGKT~la 20 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELA 20 (171)
T ss_dssp EEEEEESSTTSSHHHHH
T ss_pred EEEEEECCCCCCHHHHH
Confidence 46889999999999964
No 259
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=50.22 E-value=5.2 Score=43.56 Aligned_cols=28 Identities=32% Similarity=0.462 Sum_probs=19.1
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++..++.+. ..|+-.|.||||||.+|-
T Consensus 135 ~~L~~~v~~~-~nilI~G~tGSGKTTll~ 162 (323)
T PRK13833 135 SVIRSAIDSR-LNIVISGGTGSGKTTLAN 162 (323)
T ss_pred HHHHHHHHcC-CeEEEECCCCCCHHHHHH
Confidence 3344444432 347889999999999873
No 260
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=50.02 E-value=7 Score=40.28 Aligned_cols=22 Identities=27% Similarity=0.501 Sum_probs=17.0
Q ss_pred cCCCCEEEEeeccCCCCCccee
Q 005960 111 FHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 111 l~G~N~tIfaYGqTGSGKTyTm 132 (667)
++.....++-+|+.|+|||+.+
T Consensus 39 ~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 39 LSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HhcCCCEEEEEcCCCCCHHHHH
Confidence 4444556788999999999865
No 261
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=49.91 E-value=12 Score=32.51 Aligned_cols=32 Identities=22% Similarity=0.544 Sum_probs=21.3
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcC
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIG 632 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vG 632 (667)
..|..||+||+++.+...+. +..+++||.++|
T Consensus 3 ~~l~~LpNig~~~e~~L~~v----GI~t~~~L~~~G 34 (81)
T PF04994_consen 3 NRLKDLPNIGPKSERMLAKV----GIHTVEDLRELG 34 (81)
T ss_dssp --GCGSTT--HHHHHHHHHT----T--SHHHHHHHH
T ss_pred cchhhCCCCCHHHHHHHHHc----CCCCHHHHHHhC
Confidence 46889999999998765433 899999999886
No 262
>TIGR01954 nusA_Cterm_rpt transcription termination factor NusA, C-terminal duplication. NusA is a bacterial transcription termination factor. It is named for its interaction with phage lambda protein N, as part of the N utilization substance. Some members of the NusA family have a long C-terminal extension. This model represents an acidic 50-residue region found in two copies toward the C-terminus of most Proteobacterial NusA proteins, spaced about 26 residues apart. Analogous C-terminal extensions in some other bacterial lineages lack apparent homology but appear similarly acidic.
Probab=49.47 E-value=18 Score=27.51 Aligned_cols=26 Identities=19% Similarity=0.296 Sum_probs=22.0
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICE 615 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~ 615 (667)
++=.++.++|..++||++..|.+|+.
T Consensus 19 ~la~~~~~eL~~i~g~~~e~a~~ii~ 44 (50)
T TIGR01954 19 DLAYVPIDELLSIEGFDEETAKELIN 44 (50)
T ss_pred HHHccCHHHHhcCCCCCHHHHHHHHH
Confidence 34468899999999999999999865
No 263
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=49.25 E-value=7.3 Score=41.37 Aligned_cols=18 Identities=39% Similarity=0.547 Sum_probs=14.8
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..|.-.|++|+|||+|+.
T Consensus 195 ~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLA 212 (282)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 356667999999999975
No 264
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=48.70 E-value=8.2 Score=39.31 Aligned_cols=19 Identities=37% Similarity=0.643 Sum_probs=13.4
Q ss_pred CCEEEEeeccCCCCCccee
Q 005960 114 RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm 132 (667)
.+-.+++.|+.||||||.-
T Consensus 18 ~~~~v~~~G~AGTGKT~LA 36 (205)
T PF02562_consen 18 NNDLVIVNGPAGTGKTFLA 36 (205)
T ss_dssp H-SEEEEE--TTSSTTHHH
T ss_pred hCCeEEEECCCCCcHHHHH
Confidence 4457899999999999864
No 265
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=48.60 E-value=7.8 Score=41.08 Aligned_cols=17 Identities=41% Similarity=0.724 Sum_probs=14.3
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
-.|+-||++|+|||++-
T Consensus 152 knVLFyGppGTGKTm~A 168 (368)
T COG1223 152 KNVLFYGPPGTGKTMMA 168 (368)
T ss_pred ceeEEECCCCccHHHHH
Confidence 46889999999998763
No 266
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=48.41 E-value=7.9 Score=44.85 Aligned_cols=31 Identities=32% Similarity=0.583 Sum_probs=23.7
Q ss_pred hccchhhhhcCCCC--EEEEeeccCCCCCccee
Q 005960 102 EVNPLIPGIFHGRN--ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 102 ~v~plV~~vl~G~N--~tIfaYGqTGSGKTyTm 132 (667)
.|+..++..+.|.. ..++.+|++|+|||.|+
T Consensus 30 eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 30 EVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTV 62 (519)
T ss_pred HHHHHHHHHhccCCCcceEEEECCCCCCHHHHH
Confidence 45666666665553 46888999999999997
No 267
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=48.04 E-value=25 Score=40.28 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=20.3
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCcc
Q 005960 105 PLIPGIFHG---RNATVFAYGATGSGKTY 130 (667)
Q Consensus 105 plV~~vl~G---~N~tIfaYGqTGSGKTy 130 (667)
+=+|.++.| .+.+++-+|++|||||.
T Consensus 8 ~gLD~il~GGlp~g~~~Li~G~pGsGKT~ 36 (484)
T TIGR02655 8 EGFDDISHGGLPIGRSTLVSGTSGTGKTL 36 (484)
T ss_pred hhHHHhcCCCCCCCeEEEEEcCCCCCHHH
Confidence 345677764 36889999999999986
No 268
>PRK10702 endonuclease III; Provisional
Probab=47.88 E-value=20 Score=36.55 Aligned_cols=57 Identities=19% Similarity=0.249 Sum_probs=38.8
Q ss_pred ccCcccCHHHHhc-CCCCC--HHHHH-------HHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 589 DFLNTASREELVE-LKGIG--QRLAD-------YICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 589 v~iNtA~~~eL~~-lpGIG--~~~A~-------~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
-.|-.|+.++|+. |.|+| ..+|+ .|++.....--.+.++|.++ |||+++..-+.-..
T Consensus 62 e~l~~a~~~~l~~~i~~~G~y~~kA~~l~~~a~~i~~~~~~~~p~~~~~Ll~lpGVG~ktA~~ill~a 129 (211)
T PRK10702 62 AAMLELGVEGVKTYIKTIGLYNSKAENVIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTA 129 (211)
T ss_pred HHHHCCCHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCCchHHHHhcCCcccHHHHHHHHHHH
Confidence 3466788999976 67788 34444 44443222223688999999 99999988776544
No 269
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=47.82 E-value=8 Score=41.09 Aligned_cols=22 Identities=27% Similarity=0.457 Sum_probs=16.8
Q ss_pred CCC-CEEEEeeccCCCCCcceec
Q 005960 112 HGR-NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~-N~tIfaYGqTGSGKTyTm~ 133 (667)
.|. ...++-||++|+|||+.+.
T Consensus 39 ~~~~~~~lll~G~~G~GKT~la~ 61 (316)
T PHA02544 39 KGRIPNMLLHSPSPGTGKTTVAK 61 (316)
T ss_pred cCCCCeEEEeeCcCCCCHHHHHH
Confidence 443 4567779999999999864
No 270
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=47.71 E-value=8.2 Score=45.64 Aligned_cols=42 Identities=24% Similarity=0.373 Sum_probs=29.5
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
..||.+++++. ... .++..+..++...++-||++|+|||+..
T Consensus 151 ~~~~~iiGqs~-----~~~----~l~~~ia~~~~~~vlL~Gp~GtGKTTLA 192 (615)
T TIGR02903 151 RAFSEIVGQER-----AIK----ALLAKVASPFPQHIILYGPPGVGKTTAA 192 (615)
T ss_pred CcHHhceeCcH-----HHH----HHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 57788887542 122 2445556677778899999999999865
No 271
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=47.45 E-value=8 Score=34.56 Aligned_cols=15 Identities=40% Similarity=0.423 Sum_probs=12.9
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+-.|.+|||||+..
T Consensus 1 I~i~G~~GsGKtTia 15 (129)
T PF13238_consen 1 IGISGIPGSGKTTIA 15 (129)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred CEEECCCCCCHHHHH
Confidence 677899999999864
No 272
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=47.45 E-value=8.8 Score=38.24 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=14.2
Q ss_pred CCEEEEeeccCCCCCccee
Q 005960 114 RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm 132 (667)
.-..+|..|+.|||||+.+
T Consensus 14 ~P~~~i~aG~~GsGKSt~~ 32 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLA 32 (199)
T ss_dssp S-EEEEEES-TTSTTHHHH
T ss_pred CCEEEEEeCCCCCCHHHHH
Confidence 3457899999999999865
No 273
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=47.27 E-value=5.6 Score=44.24 Aligned_cols=51 Identities=25% Similarity=0.402 Sum_probs=29.1
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhh-hcC--C--CCEEEEeeccCCCCCccee
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--G--RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~-vl~--G--~N~tIfaYGqTGSGKTyTm 132 (667)
.+.||.+.+-+. .-+++.+....|+... .+. | ....|+-||++|+|||+..
T Consensus 127 ~~~~~di~Gl~~-~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 127 NVTYEDIGGLEE-QIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCCHHHhCCcHH-HHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHH
Confidence 366777766543 3244444333343331 222 1 2346889999999999764
No 274
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=46.96 E-value=7.7 Score=42.56 Aligned_cols=28 Identities=29% Similarity=0.383 Sum_probs=19.1
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.++..++. ....|+..|+||||||.+|.
T Consensus 153 ~~l~~~v~-~~~nilI~G~tGSGKTTll~ 180 (344)
T PRK13851 153 AFLHACVV-GRLTMLLCGPTGSGKTTMSK 180 (344)
T ss_pred HHHHHHHH-cCCeEEEECCCCccHHHHHH
Confidence 34444443 23457889999999999874
No 275
>PRK06547 hypothetical protein; Provisional
Probab=46.94 E-value=12 Score=36.85 Aligned_cols=27 Identities=33% Similarity=0.415 Sum_probs=18.7
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
++..+..+.-.-|.-+|.+|||||+.-
T Consensus 6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a 32 (172)
T PRK06547 6 IAARLCGGGMITVLIDGRSGSGKTTLA 32 (172)
T ss_pred HHHHhhcCCCEEEEEECCCCCCHHHHH
Confidence 344444555556777799999999853
No 276
>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=46.93 E-value=9.5 Score=37.44 Aligned_cols=22 Identities=45% Similarity=0.751 Sum_probs=16.9
Q ss_pred hhhcCCCCEEEEeeccCCCCCcce
Q 005960 108 PGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 108 ~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
+.++.|.| ++..++||+|||.+
T Consensus 31 ~~~~~~~~--~li~~~TG~GKT~~ 52 (203)
T cd00268 31 PPLLSGRD--VIGQAQTGSGKTAA 52 (203)
T ss_pred HHHhcCCc--EEEECCCCCcHHHH
Confidence 34445777 57889999999987
No 277
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=46.76 E-value=7.2 Score=42.69 Aligned_cols=27 Identities=30% Similarity=0.422 Sum_probs=20.4
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.++..++++. +.|+-.|.||||||.++
T Consensus 164 ~~L~~av~~r-~NILisGGTGSGKTTlL 190 (355)
T COG4962 164 KFLRRAVGIR-CNILISGGTGSGKTTLL 190 (355)
T ss_pred HHHHHHHhhc-eeEEEeCCCCCCHHHHH
Confidence 4444455555 77899999999999986
No 278
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=46.71 E-value=8.2 Score=40.20 Aligned_cols=18 Identities=28% Similarity=0.348 Sum_probs=15.1
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
...++-||++|+|||++.
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 345788999999999975
No 279
>PTZ00424 helicase 45; Provisional
Probab=46.44 E-value=7.9 Score=42.46 Aligned_cols=25 Identities=32% Similarity=0.472 Sum_probs=19.0
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+..+++|.|. +..++||||||.+.
T Consensus 58 ai~~i~~~~d~--ii~apTGsGKT~~~ 82 (401)
T PTZ00424 58 GIKPILDGYDT--IGQAQSGTGKTATF 82 (401)
T ss_pred HHHHHhCCCCE--EEECCCCChHHHHH
Confidence 44556788885 46789999999764
No 280
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=46.20 E-value=18 Score=42.40 Aligned_cols=31 Identities=19% Similarity=0.440 Sum_probs=26.9
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh
Q 005960 595 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEK 630 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~ 630 (667)
-...|..|||||+++.++++++ |.|++++++
T Consensus 539 ~~S~Ld~I~GIG~kr~~~LL~~-----Fgs~~~i~~ 569 (574)
T TIGR00194 539 LQSPLLKIPGVGEKRVQKLLKY-----FGSLKGIKK 569 (574)
T ss_pred HHHHHhcCCCCCHHHHHHHHHH-----cCCHHHHHh
Confidence 3578999999999999999885 999998865
No 281
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=45.97 E-value=8.4 Score=43.01 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=16.5
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
...|+.+|+||+|||.|+.
T Consensus 174 ~~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIA 192 (388)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4678899999999999973
No 282
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=45.92 E-value=12 Score=39.66 Aligned_cols=34 Identities=21% Similarity=0.259 Sum_probs=23.5
Q ss_pred HHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 99 FYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 99 f~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
|...+..+|...-..-+.+|.-||+-|||||+-|
T Consensus 4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l 37 (325)
T PF07693_consen 4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFL 37 (325)
T ss_pred HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHH
Confidence 3344444444433356789999999999999965
No 283
>KOG2841 consensus Structure-specific endonuclease ERCC1-XPF, ERCC1 component [Replication, recombination and repair]
Probab=45.74 E-value=18 Score=37.47 Aligned_cols=52 Identities=19% Similarity=0.136 Sum_probs=40.1
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 595 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
-..-|.++|||++.-|+.++..=-.. -=.|.+||.++ |+|+..+++|-+.+.
T Consensus 193 ~~~~Lt~i~~VnKtda~~LL~~FgsLq~~~~AS~~ele~~~G~G~~kak~l~~~l~ 248 (254)
T KOG2841|consen 193 LLGFLTTIPGVNKTDAQLLLQKFGSLQQISNASEGELEQCPGLGPAKAKRLHKFLH 248 (254)
T ss_pred HHHHHHhCCCCCcccHHHHHHhcccHHHHHhcCHhHHHhCcCcCHHHHHHHHHHHh
Confidence 34568999999999999998742111 22567889998 999999999987765
No 284
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=45.54 E-value=28 Score=40.75 Aligned_cols=28 Identities=21% Similarity=0.223 Sum_probs=22.1
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
+|=+.+.++|..|+|.|+|.|++|++.=
T Consensus 452 Diy~L~~~~l~~l~gfgeks~~nll~aI 479 (562)
T PRK08097 452 SWLALTPEQLANTPGIGKARAEQLWHQF 479 (562)
T ss_pred HHhcCCHHHHhcCcCccHHHHHHHHHHH
Confidence 3335568899999999999999997763
No 285
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=45.33 E-value=32 Score=35.23 Aligned_cols=47 Identities=19% Similarity=0.211 Sum_probs=29.3
Q ss_pred hhhhhcC-CC--CEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEE
Q 005960 106 LIPGIFH-GR--NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYY 165 (667)
Q Consensus 106 lV~~vl~-G~--N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~ 165 (667)
-+|.++. |+ ..+++-+|++|+|||.- +++-++..+......+.+|+-
T Consensus 9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~l-------------a~~~l~~~~~~ge~~lyvs~e 58 (237)
T TIGR03877 9 GMDEILHGGIPERNVVLLSGGPGTGKSIF-------------SQQFLWNGLQMGEPGIYVALE 58 (237)
T ss_pred hHHHHhcCCCcCCeEEEEEcCCCCCHHHH-------------HHHHHHHHHHcCCcEEEEEee
Confidence 3556554 44 56889999999999862 344455544444455556543
No 286
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=44.57 E-value=10 Score=42.80 Aligned_cols=23 Identities=48% Similarity=0.794 Sum_probs=18.0
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcce
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
+..+++|.| ++..++||||||.+
T Consensus 35 i~~~l~g~d--vi~~a~TGsGKT~a 57 (460)
T PRK11776 35 LPAILAGKD--VIAQAKTGSGKTAA 57 (460)
T ss_pred HHHHhcCCC--EEEECCCCCcHHHH
Confidence 334567887 67888999999976
No 287
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=44.55 E-value=26 Score=36.90 Aligned_cols=50 Identities=26% Similarity=0.381 Sum_probs=33.7
Q ss_pred hhhcCCCCEE-EEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEEEecceeeec
Q 005960 108 PGIFHGRNAT-VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDL 175 (667)
Q Consensus 108 ~~vl~G~N~t-IfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DL 175 (667)
..+++|+-+- |+.||..|+||+.. ++.++......+ ...+||..+.+.+|
T Consensus 77 ~~F~~G~pANnVLLwGaRGtGKSSL--------------VKA~~~e~~~~g----lrLVEV~k~dl~~L 127 (287)
T COG2607 77 EQFAEGLPANNVLLWGARGTGKSSL--------------VKALLNEYADEG----LRLVEVDKEDLATL 127 (287)
T ss_pred HHHHcCCcccceEEecCCCCChHHH--------------HHHHHHHHHhcC----CeEEEEcHHHHhhH
Confidence 3567888663 89999999999874 344554433332 23788988876655
No 288
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=44.19 E-value=9.8 Score=42.28 Aligned_cols=19 Identities=37% Similarity=0.429 Sum_probs=16.2
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
...++-+|++|+|||+|+.
T Consensus 137 g~ii~lvGptGvGKTTtia 155 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTA 155 (374)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 4577789999999999974
No 289
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=44.11 E-value=15 Score=44.26 Aligned_cols=18 Identities=50% Similarity=0.687 Sum_probs=15.6
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
|-.++.+|+||||||.-+
T Consensus 271 n~vvIIcGeTGsGKTTQv 288 (1172)
T KOG0926|consen 271 NPVVIICGETGSGKTTQV 288 (1172)
T ss_pred CCeEEEecCCCCCccccc
Confidence 556888999999999887
No 290
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=43.68 E-value=23 Score=34.11 Aligned_cols=15 Identities=33% Similarity=0.483 Sum_probs=12.7
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
++-+|++|+|||...
T Consensus 2 ~li~G~~G~GKT~l~ 16 (187)
T cd01124 2 TLLSGGPGTGKTTFA 16 (187)
T ss_pred EEEEcCCCCCHHHHH
Confidence 578999999999853
No 291
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=43.61 E-value=15 Score=36.53 Aligned_cols=25 Identities=32% Similarity=0.501 Sum_probs=18.9
Q ss_pred hhhcCCC---CEEEEeeccCCCCCccee
Q 005960 108 PGIFHGR---NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 108 ~~vl~G~---N~tIfaYGqTGSGKTyTm 132 (667)
|.++.|- ...+.-||++|||||.-.
T Consensus 2 D~~l~GGi~~g~i~~i~G~~GsGKT~l~ 29 (209)
T TIGR02237 2 DELLGGGVERGTITQIYGPPGSGKTNIC 29 (209)
T ss_pred hhhhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 4455544 678899999999999753
No 292
>PRK00254 ski2-like helicase; Provisional
Probab=42.79 E-value=16 Score=43.95 Aligned_cols=29 Identities=28% Similarity=0.489 Sum_probs=25.9
Q ss_pred cccCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 588 IDFLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 588 ~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.-+|-.|+.++|..+||||+++|+.|.++
T Consensus 669 ~~~i~~a~~~el~~~~gi~~~~a~~i~~~ 697 (720)
T PRK00254 669 IEDIVNAKPSELLKVEGIGAKIVEGIFKH 697 (720)
T ss_pred HHHHHhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 45567899999999999999999999887
No 293
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=42.56 E-value=22 Score=35.82 Aligned_cols=46 Identities=24% Similarity=0.313 Sum_probs=28.5
Q ss_pred chhhhhcC-CC--CEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhcc-CCceEEEE
Q 005960 105 PLIPGIFH-GR--NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-TGSTAEIS 163 (667)
Q Consensus 105 plV~~vl~-G~--N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-~~~~v~vS 163 (667)
+-+|.++. |+ +..++.+|++|||||.- +++.+++.+.. ....+.+|
T Consensus 6 ~~LD~~l~GGip~gs~~li~G~~GsGKT~l-------------~~q~l~~~~~~~ge~vlyvs 55 (226)
T PF06745_consen 6 PGLDELLGGGIPKGSVVLISGPPGSGKTTL-------------ALQFLYNGLKNFGEKVLYVS 55 (226)
T ss_dssp TTHHHHTTTSEETTSEEEEEESTTSSHHHH-------------HHHHHHHHHHHHT--EEEEE
T ss_pred hhHHHhhcCCCCCCcEEEEEeCCCCCcHHH-------------HHHHHHHhhhhcCCcEEEEE
Confidence 34566664 33 67899999999999863 45555555554 44444444
No 294
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=42.36 E-value=33 Score=37.20 Aligned_cols=54 Identities=19% Similarity=0.314 Sum_probs=38.7
Q ss_pred cccccccCcccCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh---------c-CCCHHHHHHHhccc
Q 005960 584 VQEYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK---------I-GLSTKQVYNLFGKA 645 (667)
Q Consensus 584 ~~~~~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~---------v-Gi~~~~~~~l~~~~ 645 (667)
...+|+. ..+|..+||+|||+....-++= .++++++|++ + |+|++.-++|...+
T Consensus 85 k~~~P~g-----l~~Ll~v~GlGpkKi~~Ly~el---gi~~~e~l~~a~~~~~~~~l~GfG~kse~~il~~i 148 (326)
T COG1796 85 KKEVPEG-----LEPLLKVPGLGPKKIVSLYKEL---GIKDLEELQEALENGKIRGLRGFGKKSEAKILENI 148 (326)
T ss_pred HHhCCcc-----hHHHhhCCCCCcHHHHHHHHHH---CcccHHHHHHHHHhCCccccCCccchhHHHHHHHH
Confidence 3345555 8999999999997655443333 8999999864 4 68888877776554
No 295
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=42.22 E-value=13 Score=41.53 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=16.3
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
..-|.-.|+||.|||.|+-
T Consensus 203 ~~vi~LVGPTGVGKTTTlA 221 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLA 221 (407)
T ss_pred CcEEEEECCCCCcHHHHHH
Confidence 5667788999999999973
No 296
>PF03118 RNA_pol_A_CTD: Bacterial RNA polymerase, alpha chain C terminal domain; InterPro: IPR011260 The core of the bacterial RNA polymerase (RNAP) consists of four subunits, two alpha, a beta and a beta', which are conserved from bacteria to mammals. The alpha subunit (RpoA) initiates RNAP assembly by dimerising to form a platform on which the beta subunits can interact. The alpha subunit consists of a N-terminal domain (NTD) and a C-terminal domain (CTD), connected by a short linker. The NTD is essential for RNAP assembly, while the CTD is necessary for transcription regulation, interacting with transcription factors and promoter upstream elements. In Escherichia coli, the catabolite activator protein (CAP or CRP) was shown to exert its effect through its interactions with the CTD, where CAP binding to CTD promotes RNAP binding to promoter DNA, thereby stimulating transcription initiation at class I CAP-dependent promoters. At class II CAP-dependent promoters, the interaction of CAP with CTD is one of multiple interactions involved in activation []. The CTD has a compact structure of four helices and two long arms enclosing its hydrophobic core, making its folding topology distinct from most other binding proteins. The upstream promoter element-binding site is formed from helices 1 and 4 [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3N97_B 1XS9_D 3K4G_A 3N4M_B 1COO_A 1LB2_E 3IYD_A 1Z3E_B 3GFK_B 3IHQ_B ....
Probab=42.17 E-value=20 Score=29.75 Aligned_cols=26 Identities=31% Similarity=0.427 Sum_probs=20.2
Q ss_pred CcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 591 LNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 591 iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
|=..+.++|..++|+|++..+.|.+.
T Consensus 38 L~~~s~~~L~~i~n~G~ksl~EI~~~ 63 (66)
T PF03118_consen 38 LVKYSEEDLLKIKNFGKKSLEEIKEK 63 (66)
T ss_dssp HHCS-HHHHHTSTTSHHHHHHHHHHH
T ss_pred HHhCCHHHHHhCCCCCHhHHHHHHHH
Confidence 33568889999999999999888654
No 297
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=42.08 E-value=10 Score=42.14 Aligned_cols=40 Identities=25% Similarity=0.421 Sum_probs=28.5
Q ss_pred CCEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEEEec
Q 005960 114 RNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYM 169 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~EIYn 169 (667)
+-.-|+-||.+||||||++ +.+|+.. ....|.++++|.|.
T Consensus 29 ~PS~~~iyG~sgTGKT~~~--------------r~~l~~~--n~~~vw~n~~ecft 68 (438)
T KOG2543|consen 29 IPSIVHIYGHSGTGKTYLV--------------RQLLRKL--NLENVWLNCVECFT 68 (438)
T ss_pred cceeEEEeccCCCchhHHH--------------HHHHhhc--CCcceeeehHHhcc
Confidence 3345689999999999974 4566544 34567777777774
No 298
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=41.47 E-value=12 Score=41.88 Aligned_cols=23 Identities=43% Similarity=0.742 Sum_probs=18.6
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcce
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
|..+++|.| +++.++||+|||.+
T Consensus 32 i~~~~~g~d--~l~~apTGsGKT~~ 54 (434)
T PRK11192 32 IPPALDGRD--VLGSAPTGTGKTAA 54 (434)
T ss_pred HHHHhCCCC--EEEECCCCChHHHH
Confidence 445667877 78889999999986
No 299
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=41.35 E-value=19 Score=29.48 Aligned_cols=22 Identities=32% Similarity=0.419 Sum_probs=16.6
Q ss_pred ccCHHHHhcCCCCCHHHHHHHH
Q 005960 593 TASREELVELKGIGQRLADYIC 614 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii 614 (667)
=-+.+||..++|||++..++|-
T Consensus 40 f~s~~dL~~v~gi~~~~~~~l~ 61 (65)
T PF12836_consen 40 FKSLEDLKEVPGIGPKTYEKLK 61 (65)
T ss_dssp -SSGGGGGGSTT--HHHHHHHC
T ss_pred CCCHHHHhhCCCCCHHHHHHHH
Confidence 3478999999999999998874
No 300
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=41.32 E-value=13 Score=40.62 Aligned_cols=17 Identities=41% Similarity=0.683 Sum_probs=14.4
Q ss_pred CEEEEeeccCCCCCcce
Q 005960 115 NATVFAYGATGSGKTYT 131 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyT 131 (667)
-+-|+..|+||||||+.
T Consensus 97 KSNILLiGPTGsGKTlL 113 (408)
T COG1219 97 KSNILLIGPTGSGKTLL 113 (408)
T ss_pred eccEEEECCCCCcHHHH
Confidence 35689999999999974
No 301
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=41.25 E-value=13 Score=44.30 Aligned_cols=31 Identities=29% Similarity=0.396 Sum_probs=21.3
Q ss_pred hccchhhhhcC-----CCCEEEEeeccCCCCCcceec
Q 005960 102 EVNPLIPGIFH-----GRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 102 ~v~plV~~vl~-----G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+..+++.+.+ |.+..|+. -+||||||+||.
T Consensus 246 av~~~~~~~~~~~~~~~~~~gli~-~~TGsGKT~t~~ 281 (667)
T TIGR00348 246 AVKKIVESITRKTWGKDERGGLIW-HTQGSGKTLTML 281 (667)
T ss_pred HHHHHHHHHHhcccCCCCceeEEE-EecCCCccHHHH
Confidence 45566666665 34455544 499999999996
No 302
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=40.92 E-value=39 Score=34.38 Aligned_cols=29 Identities=21% Similarity=0.321 Sum_probs=21.0
Q ss_pred cchhhhhcCCC---CEEEEeeccCCCCCccee
Q 005960 104 NPLIPGIFHGR---NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 104 ~plV~~vl~G~---N~tIfaYGqTGSGKTyTm 132 (667)
-+-+|.++.|- ...++.+|.+|+|||+-.
T Consensus 11 i~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~ 42 (234)
T PRK06067 11 NEELDRKLGGGIPFPSLILIEGDHGTGKSVLS 42 (234)
T ss_pred CHHHHHhhCCCCcCCcEEEEECCCCCChHHHH
Confidence 34566776543 567888899999999843
No 303
>PRK01172 ski2-like helicase; Provisional
Probab=40.89 E-value=30 Score=41.24 Aligned_cols=44 Identities=23% Similarity=0.394 Sum_probs=34.4
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH--------hhc-CCCHHHHHHHhcc
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDL--------EKI-GLSTKQVYNLFGK 644 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL--------~~v-Gi~~~~~~~l~~~ 644 (667)
-.|..|||||+.+|.+..+. +|+++.|| .++ |++.+++++|...
T Consensus 612 ~~L~~ip~~~~~~a~~l~~~----g~~~~~di~~~~~~~~~~i~~~~~~~~~~i~~~ 664 (674)
T PRK01172 612 IDLVLIPKVGRVRARRLYDA----GFKTVDDIARSSPERIKKIYGFSDTLANAIVNR 664 (674)
T ss_pred HhhcCCCCCCHHHHHHHHHc----CCCCHHHHHhCCHHHHHHHhccCHHHHHHHHHH
Confidence 35788999999999877665 68887776 345 8888888887765
No 304
>PLN03025 replication factor C subunit; Provisional
Probab=40.85 E-value=13 Score=39.99 Aligned_cols=17 Identities=29% Similarity=0.552 Sum_probs=14.3
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
-++-||+.|+|||++..
T Consensus 36 ~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 36 NLILSGPPGTGKTTSIL 52 (319)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 46679999999999874
No 305
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=40.65 E-value=12 Score=41.14 Aligned_cols=51 Identities=27% Similarity=0.397 Sum_probs=28.8
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhh-hcC--CC--CEEEEeeccCCCCCccee
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--GR--NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~-vl~--G~--N~tIfaYGqTGSGKTyTm 132 (667)
.+.||.+.+-+. .-+++.+....|+... .+. |. ...|+-||++|+|||+..
T Consensus 118 ~~~~~di~Gl~~-~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 118 NVSYEDIGGLEE-QIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CCCHHHhCChHH-HHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 467777776543 3234433333333321 111 21 335889999999999875
No 306
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.62 E-value=11 Score=41.39 Aligned_cols=41 Identities=24% Similarity=0.379 Sum_probs=25.3
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhhhcCC-CCEEEEeeccCCCCCccee
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHG-RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G-~N~tIfaYGqTGSGKTyTm 132 (667)
.||.|.+++ .+- +.+...+..| ..-.++-||+.|+|||++.
T Consensus 14 ~~~~iiGq~-----~~~----~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 14 YFRDIIGQK-----HIV----TAISNGLSLGRIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred chhhccChH-----HHH----HHHHHHHHcCCCCeEEEEecCCCCCHHHHH
Confidence 567777643 222 2233333333 3456889999999999875
No 307
>PRK13764 ATPase; Provisional
Probab=40.45 E-value=11 Score=44.42 Aligned_cols=20 Identities=35% Similarity=0.524 Sum_probs=16.6
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005960 114 RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~ 133 (667)
....|+..|+||||||+++.
T Consensus 256 ~~~~ILIsG~TGSGKTTll~ 275 (602)
T PRK13764 256 RAEGILIAGAPGAGKSTFAQ 275 (602)
T ss_pred cCCEEEEECCCCCCHHHHHH
Confidence 34458999999999999874
No 308
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=40.40 E-value=17 Score=38.43 Aligned_cols=63 Identities=25% Similarity=0.378 Sum_probs=38.7
Q ss_pred hHHHHhhccchhhhhcC---CCC--EEEEeeccCCCCCcceec--------------cCC---CCCCChHHHHHHHHhhh
Q 005960 96 SKIFYSEVNPLIPGIFH---GRN--ATVFAYGATGSGKTYTMQ--------------GSE---ERPGLMPLAMSKILSIC 153 (667)
Q Consensus 96 ~~Vf~~~v~plV~~vl~---G~N--~tIfaYGqTGSGKTyTm~--------------G~~---~~~GLipral~~LF~~~ 153 (667)
++|-+.+--||...=+- |.+ -.|+.||+.|+|||-..- |++ ..-|==||.++++|...
T Consensus 165 qeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgegprmvrdvfrla 244 (408)
T KOG0727|consen 165 QEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLA 244 (408)
T ss_pred HHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccCcHHHHHHHHHH
Confidence 44555444555544221 333 358899999999985432 221 12366689999999987
Q ss_pred ccCCc
Q 005960 154 QSTGS 158 (667)
Q Consensus 154 ~~~~~ 158 (667)
.+...
T Consensus 245 kenap 249 (408)
T KOG0727|consen 245 KENAP 249 (408)
T ss_pred hccCC
Confidence 66543
No 309
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=40.21 E-value=10 Score=41.33 Aligned_cols=27 Identities=19% Similarity=0.265 Sum_probs=18.7
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.++..++.+ ...|+..|.||||||.+|
T Consensus 151 ~~L~~~v~~-~~nili~G~tgSGKTTll 177 (332)
T PRK13900 151 EFLEHAVIS-KKNIIISGGTSTGKTTFT 177 (332)
T ss_pred HHHHHHHHc-CCcEEEECCCCCCHHHHH
Confidence 444444433 244788999999999986
No 310
>PHA02244 ATPase-like protein
Probab=40.18 E-value=14 Score=40.97 Aligned_cols=46 Identities=20% Similarity=0.176 Sum_probs=26.3
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
...||.-|-..... +......+...+-.|.+. +-+|++|+|||+..
T Consensus 91 l~~~d~~~ig~sp~----~~~~~~ri~r~l~~~~PV--LL~GppGtGKTtLA 136 (383)
T PHA02244 91 ISGIDTTKIASNPT----FHYETADIAKIVNANIPV--FLKGGAGSGKNHIA 136 (383)
T ss_pred hhhCCCcccCCCHH----HHHHHHHHHHHHhcCCCE--EEECCCCCCHHHHH
Confidence 45666666544322 222233343334456654 55899999999864
No 311
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=40.09 E-value=13 Score=42.26 Aligned_cols=28 Identities=18% Similarity=0.263 Sum_probs=19.7
Q ss_pred cCCCccceEEEEeCCCChhhhHHHHHHHHH
Q 005960 321 LGGTSHALMVACLNPGEYQESVHTVSLAAR 350 (667)
Q Consensus 321 LgGnskt~mIa~vsP~~~~ETlsTL~fA~r 350 (667)
+.-..+..+||+++..+. ++..|.+|-|
T Consensus 320 f~iP~Nl~IIgTMNt~Dr--s~~~lD~Alr 347 (459)
T PRK11331 320 FYVPENVYIIGLMNTADR--SLAVVDYALR 347 (459)
T ss_pred ccCCCCeEEEEecCcccc--chhhccHHHH
Confidence 445678899999998763 5556666644
No 312
>PF05729 NACHT: NACHT domain
Probab=39.84 E-value=14 Score=34.52 Aligned_cols=17 Identities=29% Similarity=0.600 Sum_probs=14.3
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.++-+|..|+|||..|.
T Consensus 2 ~l~I~G~~G~GKStll~ 18 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLR 18 (166)
T ss_pred EEEEECCCCCChHHHHH
Confidence 46789999999999763
No 313
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=39.82 E-value=13 Score=41.57 Aligned_cols=24 Identities=38% Similarity=0.628 Sum_probs=18.1
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
|..++.|.| |++-++||||||.+.
T Consensus 39 ip~il~g~d--vi~~ApTGsGKTla~ 62 (423)
T PRK04837 39 LPLTLAGRD--VAGQAQTGTGKTMAF 62 (423)
T ss_pred HHHHhCCCc--EEEECCCCchHHHHH
Confidence 345678887 466779999999863
No 314
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=39.40 E-value=12 Score=34.58 Aligned_cols=16 Identities=44% Similarity=0.735 Sum_probs=13.3
Q ss_pred EEeeccCCCCCcceec
Q 005960 118 VFAYGATGSGKTYTMQ 133 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~ 133 (667)
++-+|++|+|||+.+.
T Consensus 2 ~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 2 ILVFGPTGSGKTTLAL 17 (165)
T ss_pred eeEeCCCCCCHHHHHH
Confidence 4679999999999763
No 315
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=39.40 E-value=14 Score=38.95 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=16.1
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|...-++-||+.|+|||+++
T Consensus 35 ~~~~~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 35 EKNMPHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CCCCCeEEEECCCCCCHHHHH
Confidence 344444788999999999875
No 316
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=39.27 E-value=11 Score=40.81 Aligned_cols=63 Identities=22% Similarity=0.379 Sum_probs=38.5
Q ss_pred EEEeeccCCCCCcceecc---C------C-------CCCCChHHHHHHHHh--hhcc------C-----------CceEE
Q 005960 117 TVFAYGATGSGKTYTMQG---S------E-------ERPGLMPLAMSKILS--ICQS------T-----------GSTAE 161 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~G---~------~-------~~~GLipral~~LF~--~~~~------~-----------~~~v~ 161 (667)
-...||+||+||++-+-- . + .+.|+||---...++ .++. . ..-|+
T Consensus 89 I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~t~~P~Fv~ 168 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTGTFRPKFVE 168 (369)
T ss_pred EEEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeecccccccccccee
Confidence 345699999999998742 1 1 345888765444443 1211 0 11356
Q ss_pred EEEEEEecceeeeccCCC
Q 005960 162 ISYYEVYMDRCYDLLEVK 179 (667)
Q Consensus 162 vS~~EIYnE~v~DLL~~~ 179 (667)
++|=|.-.+.=+|.=+|+
T Consensus 169 msy~e~t~~~NldI~~p~ 186 (369)
T PF02456_consen 169 MSYDEATSPENLDITNPN 186 (369)
T ss_pred ecHhhhCCccccCCCCch
Confidence 777777777778876654
No 317
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=39.25 E-value=23 Score=36.18 Aligned_cols=26 Identities=42% Similarity=0.547 Sum_probs=22.8
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcC
Q 005960 595 SREELVELKGIGQRLADYICELRQSS 620 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~ 620 (667)
..++|..|+|||+..|+.|+=|=-..
T Consensus 113 ~R~~LL~iKGIG~ETaDsILlYa~~r 138 (215)
T COG2231 113 LREELLSIKGIGKETADSILLYALDR 138 (215)
T ss_pred HHHHHHccCCcchhhHHHHHHHHhcC
Confidence 47899999999999999999886555
No 318
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S13 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S13 is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. It is a basic protein of 115 to 177 amino-acid residues that contains thee helices and a beta-hairpin in the core of the protein, forming a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension. This family of ribosomal proteins is present in prokaryotes, eukaryotes and archaea [, ].; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3BBN_M 2QBB_M 3I1M_M 3OFP_M 3OFX_M 3OFO_M 1VS5_M 3OAQ_M 2QAL_M 3J18_M ....
Probab=39.17 E-value=30 Score=31.45 Aligned_cols=33 Identities=36% Similarity=0.546 Sum_probs=24.5
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSDL 628 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL 628 (667)
.-.|..|.|||+.+|..|.+.=.-.|...+.+|
T Consensus 14 ~~aLt~IyGIG~~~A~~Ic~~lgi~~~~~~~~L 46 (107)
T PF00416_consen 14 YIALTKIYGIGRRKAKQICKKLGINPNKKVGDL 46 (107)
T ss_dssp HHHHTTSTTBCHHHHHHHHHHTTS-SSSBTTTS
T ss_pred HhHHhhhhccCHHHHHHHHHHcCCChhhhcccC
Confidence 457899999999999999887654465555544
No 319
>PRK14973 DNA topoisomerase I; Provisional
Probab=38.96 E-value=32 Score=42.75 Aligned_cols=48 Identities=29% Similarity=0.428 Sum_probs=37.5
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCC--------HHHHhhc-CCCHHHHHHHhccccc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKS--------LSDLEKI-GLSTKQVYNLFGKAAK 647 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~--------~~dL~~v-Gi~~~~~~~l~~~~~~ 647 (667)
..||..++|||++++++.... ++.+ +++|.++ ||+.+.+.+++.++.+
T Consensus 876 ~~el~~vkg~ge~t~~~l~~a----g~~~~e~l~~~d~~~la~~~~i~~k~~~~~~~~~~~ 932 (936)
T PRK14973 876 RAELLSVPGLGETTLEKLYLA----GVYDGDLLVSADPKKLAKVTGIDEKKLRNLQAYAKK 932 (936)
T ss_pred chhhhhccCCCHHHHHHHHHc----CCCCHHHhccCCHHHHhhhcCCCHHHHHHHHHHHhh
Confidence 345999999999999764433 5665 6777788 9999999999987654
No 320
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=38.57 E-value=11 Score=40.10 Aligned_cols=19 Identities=37% Similarity=0.574 Sum_probs=17.5
Q ss_pred CCCCEEEEeeccCCCCCcc
Q 005960 112 HGRNATVFAYGATGSGKTY 130 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTy 130 (667)
+|++-+||..|++|+|||.
T Consensus 1 kg~~fnImVvG~sG~GKTT 19 (281)
T PF00735_consen 1 KGFNFNIMVVGESGLGKTT 19 (281)
T ss_dssp HEEEEEEEEEECTTSSHHH
T ss_pred CCceEEEEEECCCCCCHHH
Confidence 4889999999999999987
No 321
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=38.54 E-value=15 Score=41.54 Aligned_cols=24 Identities=42% Similarity=0.785 Sum_probs=18.9
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
|..+++|.| +++..+||||||.+.
T Consensus 32 i~~il~g~d--vlv~apTGsGKTla~ 55 (456)
T PRK10590 32 IPAVLEGRD--LMASAQTGTGKTAGF 55 (456)
T ss_pred HHHHhCCCC--EEEECCCCCcHHHHH
Confidence 445677887 678889999999873
No 322
>PF13173 AAA_14: AAA domain
Probab=38.44 E-value=14 Score=34.04 Aligned_cols=17 Identities=29% Similarity=0.513 Sum_probs=14.5
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.++-+|+.|+|||+.|.
T Consensus 4 ~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 4 IIILTGPRGVGKTTLLK 20 (128)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 57889999999999763
No 323
>PRK10536 hypothetical protein; Provisional
Probab=38.28 E-value=15 Score=38.93 Aligned_cols=17 Identities=41% Similarity=0.733 Sum_probs=15.1
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
.-++..|+.||||||..
T Consensus 75 ~lV~i~G~aGTGKT~La 91 (262)
T PRK10536 75 QLIFATGEAGCGKTWIS 91 (262)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 48899999999999964
No 324
>PRK03980 flap endonuclease-1; Provisional
Probab=38.17 E-value=26 Score=37.66 Aligned_cols=26 Identities=23% Similarity=0.281 Sum_probs=22.7
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 601 ELKGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 601 ~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
.|||||+++|-++|. -|.+++.+.+.
T Consensus 193 GI~GIG~ktA~kLi~-----~~~sle~i~~~ 218 (292)
T PRK03980 193 GIKGIGPKTALKLIK-----KHGDLEKVLEE 218 (292)
T ss_pred CCCCccHHHHHHHHH-----HCCCHHHHHHh
Confidence 689999999999996 48899999774
No 325
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=37.93 E-value=12 Score=45.13 Aligned_cols=22 Identities=32% Similarity=0.542 Sum_probs=17.3
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|.-..++-||++|+|||++..
T Consensus 49 ~~~~~slLL~GPpGtGKTTLA~ 70 (725)
T PRK13341 49 ADRVGSLILYGPPGVGKTTLAR 70 (725)
T ss_pred cCCCceEEEECCCCCCHHHHHH
Confidence 3444577889999999999864
No 326
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=37.72 E-value=33 Score=37.90 Aligned_cols=41 Identities=34% Similarity=0.588 Sum_probs=29.8
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccC------CCCCCChHHHHH
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGS------EERPGLMPLAMS 147 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~G~------~~~~GLipral~ 147 (667)
.+|..+++|.+| +....||||||..+-++ .+..|+...++.
T Consensus 36 ~cIpkILeGrdc--ig~AkTGsGKT~AFaLPil~rLsedP~giFalvlT 82 (442)
T KOG0340|consen 36 ACIPKILEGRDC--IGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLT 82 (442)
T ss_pred hhhHHHhccccc--ccccccCCCcchhhhHHHHHhhccCCCcceEEEec
Confidence 456778999997 56678999999998775 234476655543
No 327
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=37.62 E-value=47 Score=34.72 Aligned_cols=37 Identities=8% Similarity=0.108 Sum_probs=24.2
Q ss_pred CEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEE
Q 005960 115 NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISY 164 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~ 164 (667)
..+++-+|.+|+|||.- +++-++..+......+.+|+
T Consensus 36 gs~~lI~G~pGtGKT~l-------------~~qf~~~~a~~Ge~vlyis~ 72 (259)
T TIGR03878 36 YSVINITGVSDTGKSLM-------------VEQFAVTQASRGNPVLFVTV 72 (259)
T ss_pred CcEEEEEcCCCCCHHHH-------------HHHHHHHHHhCCCcEEEEEe
Confidence 46788999999999873 34444544444444555665
No 328
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=37.52 E-value=14 Score=38.11 Aligned_cols=19 Identities=37% Similarity=0.602 Sum_probs=16.0
Q ss_pred EEEEeeccCCCCCcceecc
Q 005960 116 ATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~G 134 (667)
..++-||..|+|||++.-+
T Consensus 13 ~~~liyG~~G~GKtt~a~~ 31 (220)
T TIGR01618 13 NMYLIYGKPGTGKTSTIKY 31 (220)
T ss_pred cEEEEECCCCCCHHHHHHh
Confidence 4589999999999997643
No 329
>PRK04195 replication factor C large subunit; Provisional
Probab=37.51 E-value=14 Score=42.13 Aligned_cols=31 Identities=26% Similarity=0.528 Sum_probs=22.3
Q ss_pred hccchhhhhcCCC-CEEEEeeccCCCCCccee
Q 005960 102 EVNPLIPGIFHGR-NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 102 ~v~plV~~vl~G~-N~tIfaYGqTGSGKTyTm 132 (667)
.+..++.....|. .-.++.||+.|+|||++.
T Consensus 25 ~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 25 QLREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred HHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 3445555555554 457888999999999875
No 330
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=37.40 E-value=14 Score=42.91 Aligned_cols=41 Identities=29% Similarity=0.509 Sum_probs=27.5
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
..||.+++++. . ++.+...++.+....|+-||++|+|||+.
T Consensus 62 ~~f~~iiGqs~-~--------i~~l~~al~~~~~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 62 KSFDEIIGQEE-G--------IKALKAALCGPNPQHVIIYGPPGVGKTAA 102 (531)
T ss_pred CCHHHeeCcHH-H--------HHHHHHHHhCCCCceEEEECCCCCCHHHH
Confidence 57888888653 1 22223334555666788899999999874
No 331
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=37.39 E-value=12 Score=47.28 Aligned_cols=29 Identities=31% Similarity=0.387 Sum_probs=20.0
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceecc
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQG 134 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~G 134 (667)
.+++.+.+|....++ ..+||||||+||.+
T Consensus 424 ai~~a~~~g~r~~Ll-~maTGSGKT~tai~ 452 (1123)
T PRK11448 424 AVEKAIVEGQREILL-AMATGTGKTRTAIA 452 (1123)
T ss_pred HHHHHHHhccCCeEE-EeCCCCCHHHHHHH
Confidence 344454566655444 48999999999875
No 332
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=37.29 E-value=36 Score=31.64 Aligned_cols=34 Identities=21% Similarity=0.468 Sum_probs=27.9
Q ss_pred cCHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005960 594 ASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 631 (667)
Q Consensus 594 A~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v 631 (667)
+...+|..+||||+..|.-..+. ++.+++||.+.
T Consensus 50 ~~~AdL~ri~gi~~~~a~LL~~A----Gv~Tv~~LA~~ 83 (122)
T PF14229_consen 50 VNQADLMRIPGIGPQYAELLEHA----GVDTVEELAQR 83 (122)
T ss_pred HhHHHhhhcCCCCHHHHHHHHHh----CcCcHHHHHhC
Confidence 45678999999999999755544 89999999875
No 333
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=37.12 E-value=21 Score=35.99 Aligned_cols=28 Identities=25% Similarity=0.384 Sum_probs=21.6
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCccee
Q 005960 105 PLIPGIFHG---RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 105 plV~~vl~G---~N~tIfaYGqTGSGKTyTm 132 (667)
+-+|.++.| ....+.-+|++|||||..+
T Consensus 6 ~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (235)
T cd01123 6 KALDELLGGGIETGSITEIFGEFGSGKTQLC 36 (235)
T ss_pred hhhHhhccCCCCCCeEEEEECCCCCCHHHHH
Confidence 456777775 3567889999999999854
No 334
>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]
Probab=37.02 E-value=20 Score=35.83 Aligned_cols=29 Identities=34% Similarity=0.261 Sum_probs=26.6
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
--.|-|+.+|++.|-|.|+..|.++|+|=
T Consensus 191 ~rf~gaSrdE~e~l~g~g~~ka~~~ieyl 219 (224)
T COG5241 191 CRFNGASRDEFELLLGFGFEKAAKYIEYL 219 (224)
T ss_pred HHHhccchhHHHHHHccCHHHHHHHHHHh
Confidence 45688999999999999999999999996
No 335
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=37.00 E-value=46 Score=34.42 Aligned_cols=43 Identities=33% Similarity=0.302 Sum_probs=32.4
Q ss_pred cccCcccCHHHHhcCCCCCHHHH----------HHHHHHHhcC--CCCCHHHHhh
Q 005960 588 IDFLNTASREELVELKGIGQRLA----------DYICELRQSS--PVKSLSDLEK 630 (667)
Q Consensus 588 ~v~iNtA~~~eL~~lpGIG~~~A----------~~Ii~~R~~~--pf~~~~dL~~ 630 (667)
.-.+=.|+.++|+.+||||+.+| ++|.+.+... .|.|.++..+
T Consensus 57 L~~l~~a~~~el~~v~GiG~aka~~l~a~~El~~R~~~~~~~~~~~i~sp~~~~~ 111 (224)
T COG2003 57 LAELLKASVEELSSVKGIGLAKAIQIKAAIELGKRILAERLREGVVITSPEAVAE 111 (224)
T ss_pred HHHHHhCCHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHHhccCCccCCHHHHHH
Confidence 44555899999999999998665 5555666544 7888888765
No 336
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=36.96 E-value=30 Score=41.81 Aligned_cols=45 Identities=20% Similarity=0.343 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHhcC----CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 602 LKGIGQRLADYICELRQSS----PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 602 lpGIG~~~A~~Ii~~R~~~----pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
+||||+++|++|+++=-.. =..+.+.|.+| ||+++.++.|.+...
T Consensus 89 ~~GIG~~~A~~iv~~fg~~~~~~i~~~~~~L~~v~gi~~~~~~~i~~~~~ 138 (720)
T TIGR01448 89 IKGVGKKLAQRIVKTFGEAAFDVLDDDPEKLLEVPGISKANLEKFVSQWS 138 (720)
T ss_pred CCCcCHHHHHHHHHHhCHhHHHHHHhCHHHHhcCCCCCHHHHHHHHHHHH
Confidence 7899999999998653211 12446678888 999998888877653
No 337
>PRK13342 recombination factor protein RarA; Reviewed
Probab=36.82 E-value=17 Score=40.58 Aligned_cols=23 Identities=30% Similarity=0.533 Sum_probs=17.2
Q ss_pred cCCCCEEEEeeccCCCCCcceec
Q 005960 111 FHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 111 l~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
-.+.-..++-||+.|+|||+...
T Consensus 32 ~~~~~~~ilL~GppGtGKTtLA~ 54 (413)
T PRK13342 32 EAGRLSSMILWGPPGTGKTTLAR 54 (413)
T ss_pred HcCCCceEEEECCCCCCHHHHHH
Confidence 34555567779999999998753
No 338
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=36.80 E-value=15 Score=38.84 Aligned_cols=19 Identities=37% Similarity=0.593 Sum_probs=15.7
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
+--++-.|++|+|||.++.
T Consensus 33 ~~pvLl~G~~GtGKT~li~ 51 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLIQ 51 (272)
T ss_dssp TEEEEEESSTTSSHHHHHH
T ss_pred CCcEEEECCCCCchhHHHH
Confidence 5567999999999998653
No 339
>KOG1857 consensus Transcription accessory protein TEX, contains S1 domain [Transcription]
Probab=36.50 E-value=9.6 Score=43.20 Aligned_cols=71 Identities=10% Similarity=-0.059 Sum_probs=54.2
Q ss_pred hhhhhhhccccccccCcccCH--HHHhcCCC---CCHHHHHH-HHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 576 SIRLKNSLVQEYIDFLNTASR--EELVELKG---IGQRLADY-ICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 576 ~~~~~~s~~~~~~v~iNtA~~--~eL~~lpG---IG~~~A~~-Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
.....+.++.....|+|++.. ++|+.+|| .--..++. |..+||.. +|+..++++.+ |++|..++.+..-+.
T Consensus 37 ~~~~~~~lV~q~~LNn~~~~~~~~~la~~~G~~~k~~~v~R~i~d~~kEY~~G~K~~~~~A~~sG~~p~~~~il~~~~~ 115 (623)
T KOG1857|consen 37 EKDVDKFLVYQHFLNNIRNIHHHQILAINRGENLKVLTVKRNISDGVKEYFCGWKIQNRWAPRSGARPELMKILYNSLN 115 (623)
T ss_pred hhhHHHHHHhHHhhcccchhhhHhHHhhcCCCceeEEEEEeechhhhhhhhcchhhhhhhhhhccCCchhHHHhhhhhh
Confidence 445556677667788888844 58999999 33334555 77889888 99999999999 999998887776654
No 340
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=36.11 E-value=28 Score=41.18 Aligned_cols=28 Identities=39% Similarity=0.516 Sum_probs=24.4
Q ss_pred cCcccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 590 FLNTASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 590 ~iNtA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
+|=.|+.++|..+||||+++|+.|.++-
T Consensus 568 ~i~~As~eeL~~v~Gig~~~A~~I~~~l 595 (598)
T PRK00558 568 AIKEASVEELAKVPGISKKLAEAIYEAL 595 (598)
T ss_pred HHHhCCHHHHhhcCCcCHHHHHHHHHHh
Confidence 3446999999999999999999998874
No 341
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=36.06 E-value=37 Score=36.32 Aligned_cols=33 Identities=36% Similarity=0.396 Sum_probs=25.6
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcC-CCCCHHHH
Q 005960 596 REELVELKGIGQRLADYICELRQSS-PVKSLSDL 628 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~-pf~~~~dL 628 (667)
.++|.+|+|||+..|+-|+-+--.. .--..+|+
T Consensus 197 ~e~L~~i~GIG~WTAe~~llf~lgr~dvfP~~D~ 230 (285)
T COG0122 197 IEELTALKGIGPWTAEMFLLFGLGRPDVFPADDL 230 (285)
T ss_pred HHHHHcCCCcCHHHHHHHHHHcCCCCCCCChHHH
Confidence 5789999999999999999887554 33344555
No 342
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=35.56 E-value=16 Score=30.10 Aligned_cols=15 Identities=33% Similarity=0.587 Sum_probs=12.6
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
.+-+|++|||||..|
T Consensus 26 tli~G~nGsGKSTll 40 (62)
T PF13555_consen 26 TLITGPNGSGKSTLL 40 (62)
T ss_pred EEEECCCCCCHHHHH
Confidence 566899999999765
No 343
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=35.40 E-value=23 Score=39.55 Aligned_cols=50 Identities=12% Similarity=0.207 Sum_probs=29.8
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhhhcC--C--CCEEEEeeccCCCCCcce
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH--G--RNATVFAYGATGSGKTYT 131 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~--G--~N~tIfaYGqTGSGKTyT 131 (667)
.+.||.+.+.-. --..+.+..+..+..+++. | .---+.-||+.|+|||+.
T Consensus 111 ~~~f~~~~g~~~-~~p~f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTll 164 (413)
T PLN00020 111 TRSFDNLVGGYY-IAPAFMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQ 164 (413)
T ss_pred hcchhhhcCccc-cCHHHHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHH
Confidence 355666644322 1134555555556666553 2 233577899999999986
No 344
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=35.40 E-value=18 Score=35.06 Aligned_cols=14 Identities=50% Similarity=0.793 Sum_probs=12.6
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+.+|..|||||+.
T Consensus 2 i~i~G~pGsGKst~ 15 (183)
T TIGR01359 2 VFVLGGPGSGKGTQ 15 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999885
No 345
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=35.37 E-value=24 Score=35.51 Aligned_cols=29 Identities=28% Similarity=0.469 Sum_probs=21.6
Q ss_pred cchhhhhcCCC---CEEEEeeccCCCCCccee
Q 005960 104 NPLIPGIFHGR---NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 104 ~plV~~vl~G~---N~tIfaYGqTGSGKTyTm 132 (667)
-+-+|.++.|- ...+.-+|.+|+|||...
T Consensus 9 i~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 40 (225)
T PRK09361 9 CKMLDELLGGGFERGTITQIYGPPGSGKTNIC 40 (225)
T ss_pred cHHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 34467777543 557899999999999864
No 346
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=35.31 E-value=19 Score=38.77 Aligned_cols=24 Identities=25% Similarity=0.303 Sum_probs=19.9
Q ss_pred hcCCCCEEEEeeccCCCCCcceec
Q 005960 110 IFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 110 vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
-...-+.-++-||+.|||||.+|.
T Consensus 18 ~~~~~~~r~vL~G~~GsGKS~~L~ 41 (309)
T PF10236_consen 18 DKSSKNNRYVLTGERGSGKSVLLA 41 (309)
T ss_pred cccCCceEEEEECCCCCCHHHHHH
Confidence 345667789999999999999875
No 347
>PRK00131 aroK shikimate kinase; Reviewed
Probab=35.22 E-value=19 Score=34.10 Aligned_cols=17 Identities=24% Similarity=0.370 Sum_probs=14.5
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
..|+.+|..|||||+.-
T Consensus 5 ~~i~l~G~~GsGKstla 21 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIG 21 (175)
T ss_pred CeEEEEcCCCCCHHHHH
Confidence 37899999999999863
No 348
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=35.13 E-value=43 Score=40.04 Aligned_cols=47 Identities=17% Similarity=0.330 Sum_probs=33.8
Q ss_pred CCCCCCCchhhhhhhcccCCCccceEEEEeCCCC-----------hhhhHHHHHHHHHhhhccc
Q 005960 304 PRVPYRESKLTRILQDSLGGTSHALMVACLNPGE-----------YQESVHTVSLAARSRHISN 356 (667)
Q Consensus 304 ~~IPYRdSkLTrLLqdsLgGnskt~mIa~vsP~~-----------~~ETlsTL~fA~rar~I~N 356 (667)
.+-||-..-|-.++...|.|- .++++.. --++-..|.++.||..|.-
T Consensus 572 ~F~pYth~qLq~Ii~~RL~~~------~~f~~~aielvarkVAavSGDaRraldic~RA~Eia~ 629 (767)
T KOG1514|consen 572 CFQPYTHEQLQEIISARLKGL------DAFENKAIELVARKVAAVSGDARRALDICRRAAEIAE 629 (767)
T ss_pred ecCCCCHHHHHHHHHHhhcch------hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhh
Confidence 578999999999999988885 2223321 1367778899999988754
No 349
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=35.13 E-value=18 Score=38.23 Aligned_cols=21 Identities=24% Similarity=0.460 Sum_probs=18.6
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|+...|+..|++|+|||..+
T Consensus 1 ~g~~f~I~vvG~sg~GKSTli 21 (276)
T cd01850 1 KGFQFNIMVVGESGLGKSTFI 21 (276)
T ss_pred CCcEEEEEEEcCCCCCHHHHH
Confidence 488999999999999998753
No 350
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=35.12 E-value=13 Score=40.67 Aligned_cols=43 Identities=19% Similarity=0.429 Sum_probs=29.7
Q ss_pred eeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 82 F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
|.|..|.+++ + ...-|+-.+++..-+-++-.|.+|+|||..+-
T Consensus 1 ~pf~~ivgq~-----~----~~~al~~~~~~~~~g~vli~G~~G~gKttl~r 43 (337)
T TIGR02030 1 FPFTAIVGQD-----E----MKLALLLNVIDPKIGGVMVMGDRGTGKSTAVR 43 (337)
T ss_pred CCccccccHH-----H----HHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHH
Confidence 5677777653 2 23445556666555668899999999998763
No 351
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=34.80 E-value=18 Score=33.88 Aligned_cols=14 Identities=36% Similarity=0.703 Sum_probs=12.2
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+..|..|||||+.
T Consensus 2 i~l~G~~GsGKST~ 15 (150)
T cd02021 2 IVVMGVSGSGKSTV 15 (150)
T ss_pred EEEEcCCCCCHHHH
Confidence 67789999999885
No 352
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.76 E-value=32 Score=42.53 Aligned_cols=39 Identities=23% Similarity=0.398 Sum_probs=28.2
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCH-HHHHHHh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLST-KQVYNLF 642 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~-~~~~~l~ 642 (667)
+-.+||||+|.|.++|+ .|.++|++.+ + -|+. +.-++|+
T Consensus 187 IpGVpGIG~KtA~kLL~-----~ygsle~i~~~~~~i~~~k~~~~L~ 228 (887)
T TIGR00593 187 IPGVKGIGEKTAAKLLQ-----EFGSLENIYENLDQIKSAKMREKLI 228 (887)
T ss_pred CCCCCCcCHHHHHHHHH-----HcCCHHHHHHHHHHhccHHHHHHHH
Confidence 34589999999999997 4889999866 5 5643 3444444
No 353
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=34.69 E-value=21 Score=38.10 Aligned_cols=27 Identities=41% Similarity=0.426 Sum_probs=23.5
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHH
Q 005960 589 DFLNTASREELVELKGIGQRLADYICE 615 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~ 615 (667)
..|=.|+.++|.++.|||+..|++|=+
T Consensus 317 ~~il~As~edL~~VeGIGe~rAr~i~~ 343 (349)
T COG1623 317 DGILEASAEDLDAVEGIGEARARAIKE 343 (349)
T ss_pred HHHHHhcHhHHhhhcchhHHHHHHHHH
Confidence 345589999999999999999999855
No 354
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=34.58 E-value=22 Score=37.14 Aligned_cols=29 Identities=21% Similarity=0.220 Sum_probs=19.8
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 102 ~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
..+.++..+..|.+. +-+|++|+|||...
T Consensus 10 l~~~~l~~l~~g~~v--LL~G~~GtGKT~lA 38 (262)
T TIGR02640 10 VTSRALRYLKSGYPV--HLRGPAGTGKTTLA 38 (262)
T ss_pred HHHHHHHHHhcCCeE--EEEcCCCCCHHHHH
Confidence 344555555566654 56899999999854
No 355
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=34.58 E-value=42 Score=40.98 Aligned_cols=25 Identities=48% Similarity=0.674 Sum_probs=20.5
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+..+.+|.|+.|+| +||||||-+-
T Consensus 30 a~~~i~~G~nvLiiA--PTGsGKTeAA 54 (814)
T COG1201 30 AIPEIHSGENVLIIA--PTGSGKTEAA 54 (814)
T ss_pred HHHHHhCCCceEEEc--CCCCChHHHH
Confidence 345678999998876 8999999874
No 356
>PRK02362 ski2-like helicase; Provisional
Probab=34.57 E-value=43 Score=40.46 Aligned_cols=48 Identities=27% Similarity=0.395 Sum_probs=37.8
Q ss_pred CHHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc--C-----CCHHHHHHHhcccc
Q 005960 595 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI--G-----LSTKQVYNLFGKAA 646 (667)
Q Consensus 595 ~~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v--G-----i~~~~~~~l~~~~~ 646 (667)
..-+|..|||||+++|.+..+ .+|++++||... + +|.+..++|...+-
T Consensus 650 ~~~~L~~ip~i~~~~a~~l~~----~gi~s~~dl~~~~~~~l~~~~g~~~~~~i~~~~~ 704 (737)
T PRK02362 650 ELLDLVGLRGVGRVRARRLYN----AGIESRADLRAADKSVVLAILGEKIAENILEQAG 704 (737)
T ss_pred HHHHHhCCCCCCHHHHHHHHH----cCCCCHHHHHhCCHHHHHHHHCHHHHHHHHHHhC
Confidence 445688999999999987764 389999999763 2 78888888887765
No 357
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=34.38 E-value=15 Score=39.66 Aligned_cols=18 Identities=39% Similarity=0.593 Sum_probs=14.9
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..++-||++|+|||+...
T Consensus 52 ~~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLAN 69 (328)
T ss_pred CcEEEECCCCccHHHHHH
Confidence 357789999999999764
No 358
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=34.36 E-value=54 Score=33.96 Aligned_cols=24 Identities=33% Similarity=0.573 Sum_probs=17.7
Q ss_pred hhhhcCC-C--CEEEEeeccCCCCCcc
Q 005960 107 IPGIFHG-R--NATVFAYGATGSGKTY 130 (667)
Q Consensus 107 V~~vl~G-~--N~tIfaYGqTGSGKTy 130 (667)
++.++.| + ...++-||..|||||.
T Consensus 12 lD~~l~GG~p~g~~~lI~G~pGsGKT~ 38 (260)
T COG0467 12 LDEILGGGLPRGSVVLITGPPGTGKTI 38 (260)
T ss_pred hHHHhcCCCcCCcEEEEEcCCCCcHHH
Confidence 4455553 2 5678999999999986
No 359
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=34.19 E-value=18 Score=34.97 Aligned_cols=17 Identities=35% Similarity=0.626 Sum_probs=14.2
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
+..+-||.+|+|||..|
T Consensus 20 g~~vi~G~Ng~GKStil 36 (202)
T PF13476_consen 20 GLNVIYGPNGSGKSTIL 36 (202)
T ss_dssp EEEEEEESTTSSHHHHH
T ss_pred CcEEEECCCCCCHHHHH
Confidence 45567999999999876
No 360
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=33.73 E-value=39 Score=32.06 Aligned_cols=28 Identities=18% Similarity=0.272 Sum_probs=23.7
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHHhcC
Q 005960 593 TASREELVELKGIGQRLADYICELRQSS 620 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R~~~ 620 (667)
--+.|+|..+||||++..+.+=+|+...
T Consensus 83 f~sveDL~~V~GIgekqk~~l~k~~~~f 110 (132)
T PRK02515 83 YDSVEDVLNLPGLSERQKELLEANLDNF 110 (132)
T ss_pred CCCHHHHHcCCCCCHHHHHHHHHhhcce
Confidence 5688999999999999988888887543
No 361
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=33.64 E-value=23 Score=39.02 Aligned_cols=16 Identities=31% Similarity=0.453 Sum_probs=13.9
Q ss_pred EEeeccCCCCCcceec
Q 005960 118 VFAYGATGSGKTYTMQ 133 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~ 133 (667)
++.+|+||||||+++.
T Consensus 2 ~lv~g~tGsGKt~~~v 17 (384)
T cd01126 2 VLVFAPTRSGKGVGFV 17 (384)
T ss_pred eeEecCCCCCCccEEE
Confidence 5789999999999873
No 362
>PRK05755 DNA polymerase I; Provisional
Probab=33.58 E-value=37 Score=41.94 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=29.8
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHHhc
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFG 643 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~ 643 (667)
+-.+||||+|.|..+|+ .|.+++.+.+ + .+..+.-++|+.
T Consensus 189 ipGv~GiG~ktA~~Ll~-----~~gsle~i~~~~~~~~~~~~~~l~~ 230 (880)
T PRK05755 189 IPGVPGIGEKTAAKLLQ-----EYGSLEGLYENLDEIKGKKKEKLRE 230 (880)
T ss_pred CCCCCCccHHHHHHHHH-----HcCCHHHHHHhHHHhchHHHHHHHH
Confidence 45689999999999996 4889999866 5 565555555544
No 363
>KOG2875 consensus 8-oxoguanine DNA glycosylase [Replication, recombination and repair]
Probab=33.45 E-value=24 Score=37.61 Aligned_cols=20 Identities=50% Similarity=0.929 Sum_probs=17.2
Q ss_pred HHHHhcCCCCCHHHHHHHHH
Q 005960 596 REELVELKGIGQRLADYICE 615 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~ 615 (667)
.+.|..|||||+|.|+=|.=
T Consensus 217 r~~L~~lpGVG~KVADCI~L 236 (323)
T KOG2875|consen 217 REALCSLPGVGPKVADCICL 236 (323)
T ss_pred HHHHhcCCCCcchHhhhhhh
Confidence 46799999999999998864
No 364
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=33.36 E-value=18 Score=40.86 Aligned_cols=18 Identities=44% Similarity=0.553 Sum_probs=14.9
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..|+-.|++|+|||+|+.
T Consensus 222 ~~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLA 239 (424)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 366777999999999974
No 365
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=33.14 E-value=70 Score=34.18 Aligned_cols=53 Identities=17% Similarity=0.295 Sum_probs=38.6
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHHHhc----C-CCC---C----HHHHhhc-CCCHHHHHHHhcccc
Q 005960 593 TASREELVELKGIGQRLADYICELRQS----S-PVK---S----LSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~R~~----~-pf~---~----~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
.++.++|..+ |++..+|+.|++.=+. . ++. + .++|..+ |||+++.+-+.-+..
T Consensus 163 ~~~~~eL~~~-Gl~~~Ra~~L~~lA~~i~~g~l~l~~~~~~~~~~~~L~~LpGIGpwTA~~vllr~l 228 (283)
T PRK10308 163 AADPQALKAL-GMPLKRAEALIHLANAALEGTLPLTIPGDVEQAMKTLQTFPGIGRWTANYFALRGW 228 (283)
T ss_pred cCCHHHHHHC-CCCHHHHHHHHHHHHHHHcCCCCccccCCHHHHHHHHhcCCCcCHHHHHHHHHHhC
Confidence 4677888887 9999999988865542 1 332 2 5678889 999999887665543
No 366
>PHA01747 putative ATP-dependent protease
Probab=33.05 E-value=24 Score=39.20 Aligned_cols=33 Identities=24% Similarity=0.396 Sum_probs=26.8
Q ss_pred HhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 100 YSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 100 ~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
-.-+-|+|+.-..+.|.-++=.|+.|+||||+.
T Consensus 175 L~RLiPlVE~~~~~~NyNliELgPRGTGKS~~f 207 (425)
T PHA01747 175 LPRLLPLFTSPVSKRPVHIIELSNRGTGKTTTF 207 (425)
T ss_pred HHhhhhheeccCCCCCeeEEEecCCCCChhhHH
Confidence 334568888666788999999999999999974
No 367
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=32.99 E-value=33 Score=41.08 Aligned_cols=29 Identities=28% Similarity=0.324 Sum_probs=24.9
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHHH
Q 005960 589 DFLNTASREELVELKGIGQRLADYICELR 617 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R 617 (667)
-+|=.|+.++|..++|||+++|++|.++-
T Consensus 661 e~I~~AS~eELa~V~Gig~k~Ae~I~~~L 689 (694)
T PRK14666 661 QAMAAAGEEGLAAVPGIGPARAAALHEHL 689 (694)
T ss_pred HHHHhcCHHHHHhcCCcCHHHHHHHHHHH
Confidence 34447999999999999999999998864
No 368
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.94 E-value=43 Score=42.12 Aligned_cols=17 Identities=35% Similarity=0.565 Sum_probs=13.8
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
+.+.-+|+||||||..|
T Consensus 27 gl~~I~G~nGaGKSTil 43 (1042)
T TIGR00618 27 PIFLICGKTGAGKTTLL 43 (1042)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 45668999999999765
No 369
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=32.92 E-value=56 Score=37.45 Aligned_cols=50 Identities=24% Similarity=0.351 Sum_probs=32.1
Q ss_pred cchhhhhcCC-C--CEEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEE
Q 005960 104 NPLIPGIFHG-R--NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (667)
Q Consensus 104 ~plV~~vl~G-~--N~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~E 166 (667)
-+-+|.++.| + ..+++-.|++|+|||.. +++-+...+......+.+|+-|
T Consensus 249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l-------------~~~f~~~~~~~ge~~~y~s~eE 301 (484)
T TIGR02655 249 VVRLDEMCGGGFFKDSIILATGATGTGKTLL-------------VSKFLENACANKERAILFAYEE 301 (484)
T ss_pred hHhHHHHhcCCccCCcEEEEECCCCCCHHHH-------------HHHHHHHHHHCCCeEEEEEeeC
Confidence 3456777765 3 56899999999999973 3333444444444556666554
No 370
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=32.86 E-value=19 Score=37.96 Aligned_cols=17 Identities=35% Similarity=0.612 Sum_probs=14.0
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.++-||+.|+|||+...
T Consensus 32 ~~ll~Gp~G~GKT~la~ 48 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLAH 48 (305)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 46779999999998653
No 371
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=32.77 E-value=29 Score=34.72 Aligned_cols=27 Identities=26% Similarity=0.444 Sum_probs=20.0
Q ss_pred hhhhhcC-CC--CEEEEeeccCCCCCccee
Q 005960 106 LIPGIFH-GR--NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~-G~--N~tIfaYGqTGSGKTyTm 132 (667)
-+|.++. |+ ...+..+|.+|+|||...
T Consensus 7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (218)
T cd01394 7 GLDELLGGGVERGTVTQVYGPPGTGKTNIA 36 (218)
T ss_pred HHHHHhcCCccCCeEEEEECCCCCCHHHHH
Confidence 3566675 44 346889999999999864
No 372
>PF06048 DUF927: Domain of unknown function (DUF927); InterPro: IPR009270 This entry is represented by Bacteriophage PT1028, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=32.43 E-value=25 Score=37.35 Aligned_cols=28 Identities=29% Similarity=0.511 Sum_probs=22.0
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 104 NPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 104 ~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.||+ ..+.--+..+-.||++++|||.++
T Consensus 183 ~pLL-~~l~~~~~~~hl~G~Ss~GKTt~~ 210 (286)
T PF06048_consen 183 APLL-SLLGVEGFGFHLYGQSSSGKTTAL 210 (286)
T ss_pred HHHH-HHhCCCceEEEEEeCCCCCHHHHH
Confidence 4555 445666778999999999999886
No 373
>smart00242 MYSc Myosin. Large ATPases. ATPase; molecular motor. Muscle contraction consists of a cyclical interaction between myosin and actin. The core of the myosin structure is similar in fold to that of kinesin.
Probab=32.36 E-value=23 Score=42.38 Aligned_cols=21 Identities=29% Similarity=0.501 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|.||+.-|.+|||||.|.
T Consensus 89 ~~~~QsIiisGESGaGKTe~~ 109 (677)
T smart00242 89 DKENQSIIISGESGAGKTENT 109 (677)
T ss_pred cCCCceEEEecCCCCcchHHH
Confidence 689999999999999999986
No 374
>PRK10865 protein disaggregation chaperone; Provisional
Probab=31.94 E-value=23 Score=43.57 Aligned_cols=17 Identities=35% Similarity=0.475 Sum_probs=14.8
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
+.++-+|++|+|||++.
T Consensus 599 ~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 599 GSFLFLGPTGVGKTELC 615 (857)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 57888899999999965
No 375
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=31.84 E-value=22 Score=38.52 Aligned_cols=74 Identities=19% Similarity=0.443 Sum_probs=43.4
Q ss_pred eeceeeCCCCCchhHHHHhhccch-hhhhcCCCC---EEEEeeccCCCCCcceecc--CC---------------CCCCC
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPL-IPGIFHGRN---ATVFAYGATGSGKTYTMQG--SE---------------ERPGL 141 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~pl-V~~vl~G~N---~tIfaYGqTGSGKTyTm~G--~~---------------~~~GL 141 (667)
.++-|-+-+..- +.+=+.++-|+ ..++|.|.- ..|+.||+.|+||+|.--. ++ ..-|=
T Consensus 131 kWsDVAGLE~AK-eALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSDLvSKWmGE 209 (439)
T KOG0739|consen 131 KWSDVAGLEGAK-EALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE 209 (439)
T ss_pred chhhhccchhHH-HHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHHHHHHHhcc
Confidence 455566655322 33444445554 445666653 6799999999999995421 00 11244
Q ss_pred hHHHHHHHHhhhccCC
Q 005960 142 MPLAMSKILSICQSTG 157 (667)
Q Consensus 142 ipral~~LF~~~~~~~ 157 (667)
--+.+..||++..+..
T Consensus 210 SEkLVknLFemARe~k 225 (439)
T KOG0739|consen 210 SEKLVKNLFEMARENK 225 (439)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 4566777777665443
No 376
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=31.83 E-value=51 Score=37.86 Aligned_cols=28 Identities=29% Similarity=0.395 Sum_probs=20.6
Q ss_pred chhhhhcCC-C--CEEEEeeccCCCCCccee
Q 005960 105 PLIPGIFHG-R--NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 105 plV~~vl~G-~--N~tIfaYGqTGSGKTyTm 132 (667)
+-+|.++.| + ...++.+|.+|+|||.-.
T Consensus 18 ~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~ 48 (509)
T PRK09302 18 EGFDDITHGGLPKGRPTLVSGTAGTGKTLFA 48 (509)
T ss_pred hhHHHhhcCCCCCCcEEEEEeCCCCCHHHHH
Confidence 445666653 3 578899999999998743
No 377
>PRK07261 topology modulation protein; Provisional
Probab=31.82 E-value=22 Score=34.70 Aligned_cols=15 Identities=33% Similarity=0.476 Sum_probs=12.6
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+-.|.+|||||+-.
T Consensus 3 i~i~G~~GsGKSTla 17 (171)
T PRK07261 3 IAIIGYSGSGKSTLA 17 (171)
T ss_pred EEEEcCCCCCHHHHH
Confidence 678999999999743
No 378
>CHL00181 cbbX CbbX; Provisional
Probab=31.81 E-value=21 Score=38.10 Aligned_cols=15 Identities=33% Similarity=0.450 Sum_probs=13.1
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+-||++|+|||+..
T Consensus 62 ill~G~pGtGKT~lA 76 (287)
T CHL00181 62 MSFTGSPGTGKTTVA 76 (287)
T ss_pred EEEECCCCCCHHHHH
Confidence 677999999999864
No 379
>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=31.80 E-value=23 Score=40.33 Aligned_cols=25 Identities=32% Similarity=0.600 Sum_probs=18.6
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|..++.|.+ +++..+||||||.+.
T Consensus 19 ai~~~l~g~d--vlv~apTGsGKTl~y 43 (470)
T TIGR00614 19 VINAVLLGRD--CFVVMPTGGGKSLCY 43 (470)
T ss_pred HHHHHHcCCC--EEEEcCCCCcHhHHH
Confidence 3445678887 466689999999764
No 380
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=31.79 E-value=58 Score=32.78 Aligned_cols=25 Identities=24% Similarity=0.414 Sum_probs=18.1
Q ss_pred hhhhcC-CC--CEEEEeeccCCCCCcce
Q 005960 107 IPGIFH-GR--NATVFAYGATGSGKTYT 131 (667)
Q Consensus 107 V~~vl~-G~--N~tIfaYGqTGSGKTyT 131 (667)
+|.++. |+ ...++-+|.+|+|||.-
T Consensus 5 LD~~l~gGi~~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 5 LDEMLGGGFPEGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred hHHHhcCCCCCCeEEEEECCCCCCHHHH
Confidence 456564 43 55677799999999874
No 381
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=31.78 E-value=18 Score=41.43 Aligned_cols=17 Identities=35% Similarity=0.567 Sum_probs=14.8
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.++.||++|+|||+...
T Consensus 90 giLL~GppGtGKT~la~ 106 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAK 106 (495)
T ss_pred cEEEECCCCCCHHHHHH
Confidence 58889999999999863
No 382
>PRK10880 adenine DNA glycosylase; Provisional
Probab=31.75 E-value=53 Score=36.28 Aligned_cols=58 Identities=16% Similarity=0.375 Sum_probs=41.9
Q ss_pred cccCcccCHHHHhc-CCCCCH--------HHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhcccc
Q 005960 588 IDFLNTASREELVE-LKGIGQ--------RLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 646 (667)
Q Consensus 588 ~v~iNtA~~~eL~~-lpGIG~--------~~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 646 (667)
+-.|-.|+.++|.. +.|+|= +.|+.|++..... | .+.++|.++ |||+++..-+.....
T Consensus 62 ~~~La~a~~eel~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~p-~~~~~L~~LpGIG~~TA~aIl~~af 130 (350)
T PRK10880 62 VTDLANAPLDEVLHLWTGLGYYARARNLHKAAQQVATLHGGEFP-ETFEEVAALPGVGRSTAGAILSLSL 130 (350)
T ss_pred HHHHHCcCHHHHHHHHHcCChHHHHHHHHHHHHHHHHHhCCCch-hhHHHHhcCCCccHHHHHHHHHHHC
Confidence 34566889999865 589987 5566665544333 4 678999999 999999887776443
No 383
>PRK05973 replicative DNA helicase; Provisional
Probab=31.70 E-value=65 Score=33.56 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=28.6
Q ss_pred hhhhcCCCC--EEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEEEEEE
Q 005960 107 IPGIFHGRN--ATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (667)
Q Consensus 107 V~~vl~G~N--~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~vS~~E 166 (667)
.+.+..|+. ..++-+|.+|+|||.- +++-++..+......+.+|+-|
T Consensus 54 ~~~l~GGl~~Gsl~LIaG~PG~GKT~l-------------alqfa~~~a~~Ge~vlyfSlEe 102 (237)
T PRK05973 54 AEELFSQLKPGDLVLLGARPGHGKTLL-------------GLELAVEAMKSGRTGVFFTLEY 102 (237)
T ss_pred HHHhcCCCCCCCEEEEEeCCCCCHHHH-------------HHHHHHHHHhcCCeEEEEEEeC
Confidence 345666663 3678899999999974 3444444444444455565443
No 384
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=31.64 E-value=36 Score=40.10 Aligned_cols=28 Identities=32% Similarity=0.478 Sum_probs=24.0
Q ss_pred ccCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 589 DFLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 589 v~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
-+|=.|+.++|..+||||+++|++|.++
T Consensus 549 ~~I~~As~eeL~~vpGi~~~~A~~I~~~ 576 (577)
T PRK14668 549 EGVREASVEDLRDVPGVGEKTAETIRER 576 (577)
T ss_pred HHHHhCCHHHHHhCCCCCHHHHHHHHHh
Confidence 3444799999999999999999999764
No 385
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=31.61 E-value=22 Score=38.21 Aligned_cols=29 Identities=28% Similarity=0.441 Sum_probs=20.6
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 103 v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
+..++...+.+. ..++-.|++|||||..|
T Consensus 133 ~~~~l~~~v~~~-~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 133 IKEFLRLAIASR-KNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHHHhhCC-CEEEEECCCCCCHHHHH
Confidence 445555656543 46677899999999976
No 386
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=31.59 E-value=20 Score=41.94 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=19.1
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
|..+++|.| |++..+||||||.+.
T Consensus 40 ip~~l~G~D--vi~~ApTGSGKTlaf 63 (572)
T PRK04537 40 LPVALPGGD--VAGQAQTGTGKTLAF 63 (572)
T ss_pred HHHHhCCCC--EEEEcCCCCcHHHHH
Confidence 445788988 567899999999764
No 387
>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]
Probab=31.52 E-value=23 Score=37.86 Aligned_cols=24 Identities=29% Similarity=0.448 Sum_probs=20.8
Q ss_pred hhcCCCCEEEEeeccCCCCCccee
Q 005960 109 GIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 109 ~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
++-+||..-|+|.|.||.|||..|
T Consensus 36 sv~~GF~FNilCvGETg~GKsTLm 59 (406)
T KOG3859|consen 36 SVSQGFCFNILCVGETGLGKSTLM 59 (406)
T ss_pred HHhcCceEEEEEeccCCccHHHHH
Confidence 456899999999999999998754
No 388
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=31.50 E-value=22 Score=34.52 Aligned_cols=15 Identities=33% Similarity=0.574 Sum_probs=12.8
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+.+|..|||||+..
T Consensus 2 I~i~G~pGsGKst~a 16 (194)
T cd01428 2 ILLLGPPGSGKGTQA 16 (194)
T ss_pred EEEECCCCCCHHHHH
Confidence 688999999998653
No 389
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=31.33 E-value=21 Score=33.29 Aligned_cols=15 Identities=33% Similarity=0.561 Sum_probs=13.0
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
+|+.+|..|||||+.
T Consensus 1 ~i~l~G~~GsGKstl 15 (154)
T cd00464 1 NIVLIGMMGAGKTTV 15 (154)
T ss_pred CEEEEcCCCCCHHHH
Confidence 478899999999875
No 390
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=31.22 E-value=44 Score=31.29 Aligned_cols=32 Identities=31% Similarity=0.267 Sum_probs=24.1
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDL 628 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL 628 (667)
-.|..+.|||+.+|.+|.+.=.-.|...+.||
T Consensus 17 ~aLt~i~GIG~~~A~~ic~~lgi~~~~~~~~L 48 (122)
T CHL00137 17 YALTYIYGIGLTSAKEILEKANIDPDIRTKDL 48 (122)
T ss_pred eeecccccccHHHHHHHHHHcCcCcCcCcccC
Confidence 35788999999999999887544466655555
No 391
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=31.22 E-value=19 Score=34.31 Aligned_cols=14 Identities=36% Similarity=0.565 Sum_probs=11.2
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+..|++|||||+.
T Consensus 1 i~l~G~~GsGKSTl 14 (163)
T TIGR01313 1 FVLMGVAGSGKSTI 14 (163)
T ss_pred CEEECCCCCCHHHH
Confidence 35679999999864
No 392
>CHL00176 ftsH cell division protein; Validated
Probab=31.18 E-value=13 Score=44.15 Aligned_cols=17 Identities=35% Similarity=0.530 Sum_probs=14.8
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
..|+-||++|+|||+..
T Consensus 217 ~gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLA 233 (638)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 35899999999999875
No 393
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=31.14 E-value=21 Score=42.37 Aligned_cols=24 Identities=46% Similarity=0.823 Sum_probs=18.7
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005960 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 107 V~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
|..++.|.+ |+..++||||||.+.
T Consensus 37 i~~ll~g~d--vl~~ApTGsGKT~af 60 (629)
T PRK11634 37 IPHLLNGRD--VLGMAQTGSGKTAAF 60 (629)
T ss_pred HHHHHcCCC--EEEEcCCCCcHHHHH
Confidence 445567876 688889999999874
No 394
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=31.04 E-value=53 Score=26.97 Aligned_cols=26 Identities=27% Similarity=0.466 Sum_probs=22.6
Q ss_pred cccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 592 NTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 592 NtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
.|.+.++|..| |.++..|+.||..=.
T Consensus 2 ~tv~k~dLi~l-Gf~~~tA~~IIrqAK 27 (59)
T PF11372_consen 2 KTVTKKDLIEL-GFSESTARDIIRQAK 27 (59)
T ss_pred CccCHHHHHHc-CCCHHHHHHHHHHHH
Confidence 47889999999 999999999997643
No 395
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=31.01 E-value=20 Score=41.14 Aligned_cols=18 Identities=39% Similarity=0.445 Sum_probs=15.8
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..|.-.|++|+|||.|+.
T Consensus 257 ~Vi~LvGpnGvGKTTTia 274 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTA 274 (484)
T ss_pred cEEEEECCCCccHHHHHH
Confidence 578889999999999974
No 396
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=30.92 E-value=19 Score=40.20 Aligned_cols=18 Identities=39% Similarity=0.626 Sum_probs=14.6
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
+--++.+|+||||||..|
T Consensus 42 ~~h~~i~g~tGsGKt~~i 59 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI 59 (410)
T ss_pred hccEEEEcCCCCCHHHHH
Confidence 345788999999999865
No 397
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=30.89 E-value=31 Score=40.46 Aligned_cols=50 Identities=22% Similarity=0.229 Sum_probs=36.7
Q ss_pred CCCccccchhhhhhhhhccccc--cccCcccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 566 GTPLDKFSARSIRLKNSLVQEY--IDFLNTASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 566 ~~p~~~~~~~~~~~~~s~~~~~--~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
.++++..+-....-+..|...+ .-+|=.||.+||..+ |||+++|++|.++
T Consensus 513 ~S~Ld~I~GiG~kr~~~Ll~~Fgs~~~ik~As~eeL~~v-gi~~~~A~~I~~~ 564 (567)
T PRK14667 513 KDILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEVKKY 564 (567)
T ss_pred cCccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHc-CCCHHHHHHHHHH
Confidence 3455555555555555555533 467779999999999 9999999999775
No 398
>PRK14974 cell division protein FtsY; Provisional
Probab=30.79 E-value=31 Score=37.77 Aligned_cols=19 Identities=32% Similarity=0.518 Sum_probs=16.6
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
...|.-.|.+|+|||.|+.
T Consensus 140 ~~vi~~~G~~GvGKTTtia 158 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIA 158 (336)
T ss_pred CeEEEEEcCCCCCHHHHHH
Confidence 4688999999999999873
No 399
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=30.72 E-value=19 Score=42.80 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=14.9
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
.++-.|+.|||||||+.
T Consensus 175 ~~lI~GpPGTGKT~t~~ 191 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLV 191 (637)
T ss_pred eEEEEcCCCCCHHHHHH
Confidence 46789999999999985
No 400
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.56 E-value=21 Score=40.96 Aligned_cols=41 Identities=20% Similarity=0.347 Sum_probs=25.4
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCccee
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfaYGqTGSGKTyTm 132 (667)
.||.|.+++. + ++.|...+-.|. ...++-||+.|+|||.+.
T Consensus 12 ~~~divGq~~-----i----~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA 53 (472)
T PRK14962 12 TFSEVVGQDH-----V----KKLIINALKKNSISHAYIFAGPRGTGKTTVA 53 (472)
T ss_pred CHHHccCcHH-----H----HHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 6777777532 2 222222233343 345789999999999875
No 401
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=30.52 E-value=22 Score=39.75 Aligned_cols=51 Identities=24% Similarity=0.286 Sum_probs=31.1
Q ss_pred eeeeceeeCCCCCchhHHHHhhccchhhh-hcC--C--CCEEEEeeccCCCCCccee
Q 005960 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--G--RNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 81 ~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~-vl~--G--~N~tIfaYGqTGSGKTyTm 132 (667)
.+.|+.|-+.+. .-+++.+....|+... .+. | ....|+-||++|+|||+..
T Consensus 141 ~v~~~digGl~~-~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 141 DVTYSDIGGLDI-QKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCHHHcCCHHH-HHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 467888877653 3244444333444432 332 2 2356889999999999875
No 402
>PRK08118 topology modulation protein; Reviewed
Probab=30.52 E-value=24 Score=34.38 Aligned_cols=13 Identities=38% Similarity=0.693 Sum_probs=11.8
Q ss_pred EEeeccCCCCCcc
Q 005960 118 VFAYGATGSGKTY 130 (667)
Q Consensus 118 IfaYGqTGSGKTy 130 (667)
|+-.|+.|||||+
T Consensus 4 I~I~G~~GsGKST 16 (167)
T PRK08118 4 IILIGSGGSGKST 16 (167)
T ss_pred EEEECCCCCCHHH
Confidence 7889999999996
No 403
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=30.29 E-value=21 Score=37.95 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=13.8
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
-|+-+|++|+|||+.-
T Consensus 60 ~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVA 75 (284)
T ss_pred eEEEEcCCCCCHHHHH
Confidence 4788999999999864
No 404
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=30.25 E-value=46 Score=35.79 Aligned_cols=37 Identities=27% Similarity=0.244 Sum_probs=26.4
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCCCHHHHhhc--CCCHHHHHHHh
Q 005960 601 ELKGIGQRLADYICELRQSSPVKSLSDLEKI--GLSTKQVYNLF 642 (667)
Q Consensus 601 ~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~v--Gi~~~~~~~l~ 642 (667)
.+||||+|.|..+|+. |.+++.|... .+..+..+++.
T Consensus 202 GV~GIG~ktA~~Ll~~-----~gs~e~i~~~~~~~~~~~~~~l~ 240 (310)
T COG0258 202 GVKGIGPKTALKLLQE-----YGSLEGLYENLDIIKKKTREKLL 240 (310)
T ss_pred CCCCcCHHHHHHHHHH-----hCCHHHHHHhhhhhcchhhHHHH
Confidence 3899999999999975 6688888763 44444444433
No 405
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=30.18 E-value=21 Score=37.87 Aligned_cols=13 Identities=54% Similarity=0.795 Sum_probs=11.7
Q ss_pred eeccCCCCCccee
Q 005960 120 AYGATGSGKTYTM 132 (667)
Q Consensus 120 aYGqTGSGKTyTm 132 (667)
-.|++|||||.||
T Consensus 32 liGpSGsGKTTtL 44 (309)
T COG1125 32 LIGPSGSGKTTTL 44 (309)
T ss_pred EECCCCCcHHHHH
Confidence 4699999999998
No 406
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=30.13 E-value=31 Score=38.73 Aligned_cols=43 Identities=30% Similarity=0.490 Sum_probs=27.9
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
+||.|+++ +.+.. ..++|=.-+-.|.-...+-||+.|+|||..
T Consensus 22 ~lde~vGQ-----~HLlg-~~~~lrr~v~~~~l~SmIl~GPPG~GKTTl 64 (436)
T COG2256 22 SLDEVVGQ-----EHLLG-EGKPLRRAVEAGHLHSMILWGPPGTGKTTL 64 (436)
T ss_pred CHHHhcCh-----HhhhC-CCchHHHHHhcCCCceeEEECCCCCCHHHH
Confidence 45666653 33443 244444444567777888999999999974
No 407
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=29.85 E-value=62 Score=38.84 Aligned_cols=42 Identities=24% Similarity=0.340 Sum_probs=26.9
Q ss_pred CCCCCHHHHHHHHH--------HHhc-C-CCCCHHHHhhc-CCCHHHHHHHhc
Q 005960 602 LKGIGQRLADYICE--------LRQS-S-PVKSLSDLEKI-GLSTKQVYNLFG 643 (667)
Q Consensus 602 lpGIG~~~A~~Ii~--------~R~~-~-pf~~~~dL~~v-Gi~~~~~~~l~~ 643 (667)
||+||+..|+.|.. .++. . +-.+.+||.+| |||+...+.|.+
T Consensus 507 I~~vG~~~ak~La~~~f~~~~~l~~~~~~~~~~~e~l~~i~giG~~~a~si~~ 559 (669)
T PRK14350 507 IKDLGENTILLLINNNLNSFDKISTLCQDREFALSKLLKIKGIGEKIALNIIE 559 (669)
T ss_pred CCchhHHHHHHHHHHhhCCHHHHHhhhhccCCCHHHHhhCCCccHHHHHHHHH
Confidence 67777777766662 1110 0 11366788899 999999877764
No 408
>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=29.75 E-value=34 Score=37.55 Aligned_cols=25 Identities=24% Similarity=0.377 Sum_probs=20.3
Q ss_pred hhhcCCCCEEEEeeccCCCCCccee
Q 005960 108 PGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 108 ~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
+.+.+|.+..++..++||||||...
T Consensus 7 ~~~~~~~~~~~~i~apTGsGKT~~~ 31 (357)
T TIGR03158 7 EALQSKDADIIFNTAPTGAGKTLAW 31 (357)
T ss_pred HHHHcCCCCEEEEECCCCCCHHHHH
Confidence 3567787777888999999999874
No 409
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=29.67 E-value=19 Score=39.45 Aligned_cols=30 Identities=37% Similarity=0.505 Sum_probs=22.1
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 102 ~v~plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+..++..++.+. ..|+-.|.||||||.+|
T Consensus 166 ~~~~~L~~~v~~~-~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 166 GVARLLRAIVAAR-LAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHHHHHHhCC-CeEEEECCCCCCHHHHH
Confidence 3445566666643 68889999999998865
No 410
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=29.49 E-value=64 Score=40.03 Aligned_cols=46 Identities=17% Similarity=0.491 Sum_probs=25.6
Q ss_pred EEEEeeccCCCCCcce-------eccCCCCCCChHHHHHHHHhhhccCCceEEEEE
Q 005960 116 ATVFAYGATGSGKTYT-------MQGSEERPGLMPLAMSKILSICQSTGSTAEISY 164 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyT-------m~G~~~~~GLipral~~LF~~~~~~~~~v~vS~ 164 (667)
+..+-+|+||||||.- +||.....| .....++....... ..|.+-|
T Consensus 26 gi~lI~G~nGsGKSSIldAI~~ALyG~~~~~~--~~~~~~~i~~g~~~-~~V~l~F 78 (908)
T COG0419 26 GIFLIVGPNGAGKSSILDAITFALYGKTPRLG--AFSLDDLIRAGEKS-ASVELEF 78 (908)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHcCCCCCcc--chhhhHHHhcCCcc-EEEEEEE
Confidence 3445789999999854 577655444 34444444322222 4444443
No 411
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=29.49 E-value=32 Score=32.54 Aligned_cols=26 Identities=23% Similarity=0.330 Sum_probs=19.2
Q ss_pred EEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhh
Q 005960 117 TVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSI 152 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~ 152 (667)
.+--.|+||+||||+- ..+.+.||..
T Consensus 55 VlSfHG~tGtGKn~v~----------~liA~~ly~~ 80 (127)
T PF06309_consen 55 VLSFHGWTGTGKNFVS----------RLIAEHLYKS 80 (127)
T ss_pred EEEeecCCCCcHHHHH----------HHHHHHHHhc
Confidence 4456799999999963 4666777863
No 412
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=29.46 E-value=21 Score=40.58 Aligned_cols=16 Identities=44% Similarity=0.735 Sum_probs=13.8
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+-||++|+|||++.
T Consensus 219 gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 219 GVILYGPPGTGKTLLA 234 (438)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4778999999999875
No 413
>PRK13910 DNA glycosylase MutY; Provisional
Probab=29.36 E-value=68 Score=34.46 Aligned_cols=56 Identities=21% Similarity=0.299 Sum_probs=38.5
Q ss_pred ccCcccCHHHHhc-CCCCCH-HHHH-------HHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHHhccc
Q 005960 589 DFLNTASREELVE-LKGIGQ-RLAD-------YICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 589 v~iNtA~~~eL~~-lpGIG~-~~A~-------~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
-.|-.|+.++|.. +.|+|= .+|+ .|++.-... | .+.++|.++ |||+++..-+....
T Consensus 26 e~La~a~~~el~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~P-~~~~~L~~LpGIG~kTA~aIl~~a 92 (289)
T PRK13910 26 KDLANAPLEEVLLLWRGLGYYSRAKNLKKSAEICVKEHHSQLP-NDYQSLLKLPGIGAYTANAILCFG 92 (289)
T ss_pred HHHHCCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCCCCC-hhHHHHHhCCCCCHHHHHHHHHHH
Confidence 4567899999866 589993 3344 444322222 4 368999999 99999988776544
No 414
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=29.31 E-value=49 Score=31.00 Aligned_cols=32 Identities=28% Similarity=0.308 Sum_probs=23.3
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDL 628 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL 628 (667)
-.|..|.|||+..|..|++.=.-.|...+.||
T Consensus 17 ~aL~~I~GIG~~~a~~i~~~lgi~~~~~~~~L 48 (122)
T PRK05179 17 IALTYIYGIGRTRAKEILAAAGIDPDTRVKDL 48 (122)
T ss_pred eeecccccccHHHHHHHHHHhCcCcccccccC
Confidence 35788999999999999887543355544444
No 415
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=29.23 E-value=48 Score=32.00 Aligned_cols=44 Identities=27% Similarity=0.344 Sum_probs=30.6
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccc
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~ 645 (667)
-.|..|.|||+..|..|++.=.-.|...+.| ++..++++|.+.+
T Consensus 21 ~aLt~I~GIG~~~a~~I~~~lgi~~~~~~~~-----Lt~~qi~~l~~~i 64 (144)
T TIGR03629 21 YALTGIKGIGRRFARAIARKLGVDPNAKLGY-----LDDEEIEKLEEAV 64 (144)
T ss_pred EeecceeccCHHHHHHHHHHcCcCCCCCccc-----CCHHHHHHHHHHH
Confidence 3578899999999999977653335544444 4666667666655
No 416
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=29.06 E-value=30 Score=34.69 Aligned_cols=30 Identities=23% Similarity=0.308 Sum_probs=21.6
Q ss_pred cchhhhhcC-CC--CEEEEeeccCCCCCcceec
Q 005960 104 NPLIPGIFH-GR--NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 104 ~plV~~vl~-G~--N~tIfaYGqTGSGKTyTm~ 133 (667)
-+-+|.++. |+ ...+.-+|++|+|||..+.
T Consensus 5 ~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~ 37 (226)
T cd01393 5 SKALDELLGGGIPTGRITEIFGEFGSGKTQLCL 37 (226)
T ss_pred cHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHH
Confidence 345677775 43 4567889999999998653
No 417
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=29.01 E-value=34 Score=37.88 Aligned_cols=19 Identities=37% Similarity=0.595 Sum_probs=17.9
Q ss_pred CCCCEEEEeeccCCCCCcc
Q 005960 112 HGRNATVFAYGATGSGKTY 130 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTy 130 (667)
.|+.-+|+..|+.|+|||.
T Consensus 20 ~Gi~f~im~~G~sG~GKtt 38 (373)
T COG5019 20 KGIDFTIMVVGESGLGKTT 38 (373)
T ss_pred cCCceEEEEecCCCCchhH
Confidence 5999999999999999986
No 418
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=28.95 E-value=27 Score=40.88 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=15.0
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
-..+-.|+.|+|||||+.
T Consensus 202 ~l~~I~GPPGTGKT~Tlv 219 (649)
T KOG1803|consen 202 DLLIIHGPPGTGKTRTLV 219 (649)
T ss_pred CceEeeCCCCCCceeeHH
Confidence 346678999999999974
No 419
>cd01383 MYSc_type_VIII Myosin motor domain, plant-specific type VIII myosins, a subgroup which has been associated with endocytosis, cytokinesis, cell-to-cell coupling and gating at plasmodesmata. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates f
Probab=28.86 E-value=33 Score=41.19 Aligned_cols=21 Identities=33% Similarity=0.498 Sum_probs=19.7
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|.||+.-|.+|||||.|.
T Consensus 89 ~~~~QsIiisGESGaGKTe~~ 109 (677)
T cd01383 89 DEVNQSIIISGESGAGKTETA 109 (677)
T ss_pred cCCCceEEEecCCCCCcchHH
Confidence 589999999999999999986
No 420
>cd01384 MYSc_type_XI Myosin motor domain, plant-specific type XI myosin, involved in organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the head to pivot and associate with a new act
Probab=28.69 E-value=32 Score=41.22 Aligned_cols=21 Identities=33% Similarity=0.675 Sum_probs=19.7
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|.||+.-|.+|||||.+.
T Consensus 85 ~~~~QsIiisGESGaGKTe~~ 105 (674)
T cd01384 85 EGKSQSILVSGESGAGKTETT 105 (674)
T ss_pred cCCCceEEEECCCCCCchhHH
Confidence 589999999999999999986
No 421
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=28.68 E-value=29 Score=36.97 Aligned_cols=45 Identities=27% Similarity=0.482 Sum_probs=29.5
Q ss_pred CCC--EEEEeeccCCCCCcceec--------------cCC---CCCCChHHHHHHHHhhhccCC
Q 005960 113 GRN--ATVFAYGATGSGKTYTMQ--------------GSE---ERPGLMPLAMSKILSICQSTG 157 (667)
Q Consensus 113 G~N--~tIfaYGqTGSGKTyTm~--------------G~~---~~~GLipral~~LF~~~~~~~ 157 (667)
|.. --|+.||+.|+|||..-- |++ ..-|==.|.+++||++.....
T Consensus 207 gidppkgvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvrelf~martkk 270 (435)
T KOG0729|consen 207 GIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVRELFEMARTKK 270 (435)
T ss_pred CCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHHHHHHHhcccc
Confidence 554 358999999999987532 221 112444588899998765543
No 422
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=28.65 E-value=49 Score=30.57 Aligned_cols=32 Identities=34% Similarity=0.366 Sum_probs=23.4
Q ss_pred HHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHH
Q 005960 597 EELVELKGIGQRLADYICELRQSSPVKSLSDL 628 (667)
Q Consensus 597 ~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL 628 (667)
-.|..+.|||..+|.+|.+.=.-.|...+.||
T Consensus 15 ~aL~~i~GIG~~~a~~i~~~lgi~~~~~~~~L 46 (113)
T TIGR03631 15 IALTYIYGIGRTRARKILEKAGIDPDKRVKDL 46 (113)
T ss_pred eeeeeeecccHHHHHHHHHHhCcCcccccccC
Confidence 35788999999999999887544455554444
No 423
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=28.55 E-value=38 Score=38.45 Aligned_cols=20 Identities=40% Similarity=0.546 Sum_probs=16.6
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005960 114 RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~ 133 (667)
....|+-+|.+|+|||.|..
T Consensus 94 ~p~vI~lvG~~GsGKTTtaa 113 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAA 113 (437)
T ss_pred CCeEEEEECCCCCcHHHHHH
Confidence 35678889999999999863
No 424
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=28.25 E-value=24 Score=40.25 Aligned_cols=30 Identities=37% Similarity=0.644 Sum_probs=20.6
Q ss_pred hcCCCCEEEEeeccCCCCCcceeccCCCCCCChHH
Q 005960 110 IFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPL 144 (667)
Q Consensus 110 vl~G~N~tIfaYGqTGSGKTyTm~G~~~~~GLipr 144 (667)
+..|.| ++.||+.|||||.... .-+||+|-
T Consensus 195 AAGgHn--Ll~~GpPGtGKTmla~---Rl~~lLPp 224 (490)
T COG0606 195 AAGGHN--LLLVGPPGTGKTMLAS---RLPGLLPP 224 (490)
T ss_pred HhcCCc--EEEecCCCCchHHhhh---hhcccCCC
Confidence 334444 5789999999998753 34577653
No 425
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=28.14 E-value=51 Score=32.17 Aligned_cols=45 Identities=22% Similarity=0.406 Sum_probs=31.4
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~ 645 (667)
.-.|..|.|||..+|.+|++.=.-.|-.-+.| +++.++++|.+-+
T Consensus 29 ~~aLt~I~GIG~~~A~~I~~~lgi~~~~~~~~-----Lt~~qi~~l~~~i 73 (154)
T PTZ00134 29 PYALTAIKGIGRRFAYLVCKKAGIDVTKRAGE-----LTAEEIEKIVEII 73 (154)
T ss_pred EEeecccccccHHHHHHHHHHcCcCcCCCccc-----CCHHHHHHHHHHH
Confidence 34688999999999999987653334444333 4667777777666
No 426
>cd01385 MYSc_type_IX Myosin motor domain, type IX myosins. Myosin IX is a processive single-headed motor, which might play a role in signalling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis causes the hea
Probab=28.11 E-value=33 Score=41.27 Aligned_cols=21 Identities=33% Similarity=0.453 Sum_probs=19.7
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|-||+.-|.+|||||.|.
T Consensus 91 ~~~~QsIiisGESGAGKTet~ 111 (692)
T cd01385 91 KKVNQCIVISGESGSGKTEST 111 (692)
T ss_pred cCCCceEEEecCCCCCchHHH
Confidence 588999999999999999986
No 427
>cd01381 MYSc_type_VII Myosin motor domain, type VII myosins. Myosins in this group have been associated with functions in sensory systems such as vision and hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydr
Probab=27.88 E-value=35 Score=40.94 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|.||+.-|.+|||||.+.
T Consensus 83 ~~~~QsIiisGESGaGKTes~ 103 (671)
T cd01381 83 EKKNQCIIISGESGAGKTEST 103 (671)
T ss_pred cCCCceEEEEcCCCCCeehHH
Confidence 589999999999999999986
No 428
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=27.88 E-value=25 Score=33.94 Aligned_cols=16 Identities=25% Similarity=0.654 Sum_probs=13.9
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+..|++|||||..+
T Consensus 3 ~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLL 18 (179)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5778999999999875
No 429
>KOG2373 consensus Predicted mitochondrial DNA helicase twinkle [Replication, recombination and repair]
Probab=27.84 E-value=43 Score=36.99 Aligned_cols=28 Identities=39% Similarity=0.641 Sum_probs=20.0
Q ss_pred chhhhhcCCCC---EEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRN---ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N---~tIfaYGqTGSGKTyTm~ 133 (667)
|.+...+.|.- -||| -|+||||||.-|.
T Consensus 261 pvLNk~LkGhR~GElTvl-TGpTGsGKTTFls 291 (514)
T KOG2373|consen 261 PVLNKYLKGHRPGELTVL-TGPTGSGKTTFLS 291 (514)
T ss_pred hHHHHHhccCCCCceEEE-ecCCCCCceeEeh
Confidence 55666676653 4565 5999999998764
No 430
>PHA02624 large T antigen; Provisional
Probab=27.80 E-value=31 Score=40.74 Aligned_cols=27 Identities=22% Similarity=0.165 Sum_probs=21.3
Q ss_pred hhhhhcCCCCE--EEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNA--TVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~--tIfaYGqTGSGKTyTm 132 (667)
++..++.|... ||+-||+.|||||+-.
T Consensus 420 ~lk~~l~giPKk~~il~~GPpnTGKTtf~ 448 (647)
T PHA02624 420 ILKLIVENVPKRRYWLFKGPVNSGKTTLA 448 (647)
T ss_pred HHHHHHhcCCCCeEEEEECCCCCCHHHHH
Confidence 35666777655 9999999999999843
No 431
>PRK14531 adenylate kinase; Provisional
Probab=27.77 E-value=28 Score=34.07 Aligned_cols=15 Identities=27% Similarity=0.507 Sum_probs=13.0
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
-|+.+|..|||||+.
T Consensus 4 ~i~i~G~pGsGKsT~ 18 (183)
T PRK14531 4 RLLFLGPPGAGKGTQ 18 (183)
T ss_pred EEEEECCCCCCHHHH
Confidence 378899999999875
No 432
>PHA02653 RNA helicase NPH-II; Provisional
Probab=27.63 E-value=33 Score=41.12 Aligned_cols=25 Identities=28% Similarity=0.388 Sum_probs=18.5
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcce
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
.++..+++|.+ |+..|+||||||..
T Consensus 171 qil~~i~~gkd--vIv~A~TGSGKTtq 195 (675)
T PHA02653 171 KIFEAWISRKP--VVLTGGTGVGKTSQ 195 (675)
T ss_pred HHHHHHHhCCC--EEEECCCCCCchhH
Confidence 34445566765 48999999999975
No 433
>CHL00195 ycf46 Ycf46; Provisional
Probab=27.63 E-value=25 Score=40.53 Aligned_cols=17 Identities=29% Similarity=0.526 Sum_probs=14.8
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
-.|+-||+.|+|||++.
T Consensus 260 kGILL~GPpGTGKTllA 276 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA 276 (489)
T ss_pred ceEEEECCCCCcHHHHH
Confidence 46999999999999864
No 434
>PRK06217 hypothetical protein; Validated
Probab=27.62 E-value=28 Score=34.11 Aligned_cols=14 Identities=43% Similarity=0.610 Sum_probs=12.4
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+-.|.+|||||+.
T Consensus 4 I~i~G~~GsGKSTl 17 (183)
T PRK06217 4 IHITGASGSGTTTL 17 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 78899999999874
No 435
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=27.30 E-value=30 Score=31.79 Aligned_cols=14 Identities=36% Similarity=0.546 Sum_probs=12.1
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+-.|++|||||..
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 57789999999875
No 436
>PF04466 Terminase_3: Phage terminase large subunit; InterPro: IPR006701 Initiation of packaging of double-stranded viral DNA involves the specific interaction of the prohead with viral DNA in a process mediated by a phage-encoded terminase protein. The terminase enzymes are usually hetero-oligomers composed of a small and a large subunit. This region is found on the large subunit and possesses an endonuclease and ATPase activity that requires Mg2+ and a neutral or slightly basic reaction. This region is also found in bacterial sequences [, ].; GO: 0006323 DNA packaging; PDB: 2WBN_A 2WC9_A.
Probab=27.21 E-value=21 Score=39.74 Aligned_cols=17 Identities=29% Similarity=0.473 Sum_probs=0.0
Q ss_pred EEeeccCCCCCcceecc
Q 005960 118 VFAYGATGSGKTYTMQG 134 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~G 134 (667)
+++||..||||||++..
T Consensus 5 ~v~~GGrGS~KS~~~a~ 21 (387)
T PF04466_consen 5 IVLKGGRGSGKSSFIAQ 21 (387)
T ss_dssp -----------------
T ss_pred EEEECCCCchHHHHHHH
Confidence 57899999999999865
No 437
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=27.15 E-value=76 Score=35.14 Aligned_cols=61 Identities=30% Similarity=0.593 Sum_probs=36.8
Q ss_pred ceeeCCCCCchhHHHHhhccchhhhhcCCCC---EEEEeeccCCCCCc---------------ceeccCC--CCC-CChH
Q 005960 85 DSFFGQEDESVSKIFYSEVNPLIPGIFHGRN---ATVFAYGATGSGKT---------------YTMQGSE--ERP-GLMP 143 (667)
Q Consensus 85 D~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N---~tIfaYGqTGSGKT---------------yTm~G~~--~~~-GLip 143 (667)
|.+||-++ .-...|. .+.++-+|+. --++-.|+.|+||| ||+.|++ ++| +|+|
T Consensus 61 ~~~~G~~~-----~i~~lV~-~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y~~Y~l~~~Pm~e~PL~L~P 134 (358)
T PF08298_consen 61 DEFYGMEE-----TIERLVN-YFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEYPIYTLKGCPMHEEPLHLFP 134 (358)
T ss_pred ccccCcHH-----HHHHHHH-HHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheEEEEEecCCccccChhhhCC
Confidence 35777532 2333343 4555666664 46889999999998 4555543 222 6666
Q ss_pred HHHHHHHh
Q 005960 144 LAMSKILS 151 (667)
Q Consensus 144 ral~~LF~ 151 (667)
.-++..|.
T Consensus 135 ~~~r~~~~ 142 (358)
T PF08298_consen 135 KELRREFE 142 (358)
T ss_pred HhHHHHHH
Confidence 66665553
No 438
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=27.13 E-value=26 Score=40.61 Aligned_cols=16 Identities=44% Similarity=0.742 Sum_probs=13.6
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+-||++|+|||+..
T Consensus 218 GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIA 233 (512)
T ss_pred ceEEECCCCCcHHHHH
Confidence 4888999999999853
No 439
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=27.05 E-value=73 Score=33.05 Aligned_cols=33 Identities=24% Similarity=0.510 Sum_probs=24.6
Q ss_pred EEEEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEEE
Q 005960 116 ATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEI 162 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~v 162 (667)
..+|.+|+.||||+. .+..++++++..+.++.+
T Consensus 4 ya~lV~GpAgSGKST--------------yC~~~~~h~e~~gRs~~v 36 (273)
T KOG1534|consen 4 YAQLVMGPAGSGKST--------------YCSSMYEHCETVGRSVHV 36 (273)
T ss_pred eeEEEEccCCCCcch--------------HHHHHHHHHHhhCceeEE
Confidence 357899999999975 456777887776665554
No 440
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=26.96 E-value=24 Score=42.76 Aligned_cols=19 Identities=37% Similarity=0.691 Sum_probs=15.9
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
|.-++..|.||||||++|.
T Consensus 430 n~n~~I~G~tGsGKS~~~~ 448 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQ 448 (797)
T ss_pred ccceEEEcCCCCCHHHHHH
Confidence 4457888999999999974
No 441
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=26.95 E-value=41 Score=33.91 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=19.8
Q ss_pred hhhhhc-CCC--CEEEEeeccCCCCCccee
Q 005960 106 LIPGIF-HGR--NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl-~G~--N~tIfaYGqTGSGKTyTm 132 (667)
-+|.++ .|+ ...++-+|++|+|||+..
T Consensus 8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~ 37 (229)
T TIGR03881 8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFC 37 (229)
T ss_pred hHHHhhcCCCcCCeEEEEECCCCCChHHHH
Confidence 355655 354 567888999999999854
No 442
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=26.81 E-value=36 Score=39.32 Aligned_cols=25 Identities=40% Similarity=0.678 Sum_probs=19.3
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+..++.|.| +++..+||||||...
T Consensus 151 aip~il~g~d--viv~ApTGSGKTlay 175 (518)
T PLN00206 151 AIPAALSGRS--LLVSADTGSGKTASF 175 (518)
T ss_pred HHHHHhcCCC--EEEEecCCCCccHHH
Confidence 3556778887 578889999999763
No 443
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=26.73 E-value=29 Score=39.40 Aligned_cols=26 Identities=27% Similarity=0.418 Sum_probs=19.7
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
..+..+++|.|+. ...+||||||.+.
T Consensus 116 ~ai~~~~~G~dvi--~~apTGSGKTlay 141 (475)
T PRK01297 116 QVLGYTLAGHDAI--GRAQTGTGKTAAF 141 (475)
T ss_pred HHHHHHhCCCCEE--EECCCCChHHHHH
Confidence 3566778998865 4569999999764
No 444
>PRK08233 hypothetical protein; Provisional
Probab=26.65 E-value=30 Score=33.20 Aligned_cols=16 Identities=25% Similarity=0.312 Sum_probs=12.4
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|.--|++|||||+..
T Consensus 5 iI~I~G~~GsGKtTla 20 (182)
T PRK08233 5 IITIAAVSGGGKTTLT 20 (182)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3555799999999854
No 445
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=26.59 E-value=25 Score=31.04 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=12.7
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|+..|..|+|||..+
T Consensus 2 I~V~G~~g~GKTsLi 16 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLI 16 (119)
T ss_dssp EEEECSTTSSHHHHH
T ss_pred EEEECcCCCCHHHHH
Confidence 678999999999854
No 446
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=26.38 E-value=38 Score=35.08 Aligned_cols=30 Identities=23% Similarity=0.235 Sum_probs=22.0
Q ss_pred ccchhhhhcC--CCCEEEEeeccCCCCCccee
Q 005960 103 VNPLIPGIFH--GRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 103 v~plV~~vl~--G~N~tIfaYGqTGSGKTyTm 132 (667)
+..+.+.+.+ .-...|.-+|..|.|||...
T Consensus 5 ~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA 36 (287)
T PF00931_consen 5 IEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLA 36 (287)
T ss_dssp HHHHHHHHHTTTTSSEEEEEEESTTSSHHHHH
T ss_pred HHHHHHHhhCCCCCeEEEEEEcCCcCCcceee
Confidence 4445555555 66778999999999999853
No 447
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=26.35 E-value=42 Score=34.15 Aligned_cols=37 Identities=19% Similarity=0.147 Sum_probs=22.6
Q ss_pred hHHHHhhccchhhhhcC-CCCEEEEeeccCCCCCccee
Q 005960 96 SKIFYSEVNPLIPGIFH-GRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 96 ~~Vf~~~v~plV~~vl~-G~N~tIfaYGqTGSGKTyTm 132 (667)
..+|...+.-+....-. +....|.-.|.+|||||+.+
T Consensus 13 ~~~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~ 50 (229)
T PRK09270 13 EAVHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLA 50 (229)
T ss_pred HHHHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHH
Confidence 34455444444333333 44556777799999999864
No 448
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=26.33 E-value=40 Score=36.61 Aligned_cols=19 Identities=32% Similarity=0.494 Sum_probs=15.5
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
...|.-.|++|+|||.|+.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~ 132 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIG 132 (318)
T ss_pred CeEEEEECCCCCcHHHHHH
Confidence 3567778999999999973
No 449
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=26.32 E-value=31 Score=36.68 Aligned_cols=15 Identities=47% Similarity=0.848 Sum_probs=12.9
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
.++.||+.|+|||..
T Consensus 207 GvLmYGPPGTGKTlm 221 (424)
T KOG0652|consen 207 GVLMYGPPGTGKTLM 221 (424)
T ss_pred ceEeeCCCCCcHHHH
Confidence 589999999999753
No 450
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=26.26 E-value=30 Score=34.91 Aligned_cols=16 Identities=38% Similarity=0.538 Sum_probs=13.9
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+..|.||||||.+.
T Consensus 2 ~IlllG~tGsGKSs~~ 17 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLG 17 (212)
T ss_dssp EEEEECSTTSSHHHHH
T ss_pred EEEEECCCCCCHHHHH
Confidence 5889999999999763
No 451
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=26.24 E-value=44 Score=40.02 Aligned_cols=52 Identities=12% Similarity=0.146 Sum_probs=37.5
Q ss_pred CCccccchhhhhhhhhccccc--cccCcccCHHHHhcCCCCCHHHHHHHHHHHh
Q 005960 567 TPLDKFSARSIRLKNSLVQEY--IDFLNTASREELVELKGIGQRLADYICELRQ 618 (667)
Q Consensus 567 ~p~~~~~~~~~~~~~s~~~~~--~v~iNtA~~~eL~~lpGIG~~~A~~Ii~~R~ 618 (667)
+.++..+-....-+..|...+ .-+|=.||.+||.++||||+++|+.|...-.
T Consensus 608 s~L~~IpGiG~kr~~~LL~~FgS~~~i~~As~eel~~v~gi~~~~A~~i~~~~~ 661 (691)
T PRK14672 608 LSFERLPHVGKVRAHRLLAHFGSFRSLQSATPQDIATAIHIPLTQAHTILHAAT 661 (691)
T ss_pred cccccCCCCCHHHHHHHHHHhcCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHhh
Confidence 444455544444445555433 4677799999999999999999999998654
No 452
>cd01380 MYSc_type_V Myosin motor domain, type V myosins. Myosins V transport a variety of intracellular cargo processively along actin filaments, such as membraneous organelles and mRNA. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an act
Probab=26.23 E-value=37 Score=40.82 Aligned_cols=21 Identities=29% Similarity=0.596 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|.||+.-|.+|||||.+.
T Consensus 83 ~~~~QsIiiSGESGaGKTes~ 103 (691)
T cd01380 83 DEKNQSIIVSGESGAGKTVSA 103 (691)
T ss_pred cCCCceEEEEcCCCCCchHHH
Confidence 699999999999999999986
No 453
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=26.22 E-value=61 Score=33.17 Aligned_cols=50 Identities=30% Similarity=0.359 Sum_probs=38.9
Q ss_pred ccCHHHHhcC-CC----CCHHHHHHHHHHHhc----------C--CCCCHHHHh-hc-CCCHHHHHHHh
Q 005960 593 TASREELVEL-KG----IGQRLADYICELRQS----------S--PVKSLSDLE-KI-GLSTKQVYNLF 642 (667)
Q Consensus 593 tA~~~eL~~l-pG----IG~~~A~~Ii~~R~~----------~--pf~~~~dL~-~v-Gi~~~~~~~l~ 642 (667)
.++.++|+.+ .. .-..+|++|++.++. . .....++|. ++ |||+|+..-+.
T Consensus 68 ~~~~eeL~~~Ir~~Gygf~~~KAk~I~~~~~~~~~l~~~~~~~~~~~~~R~~Ll~~lpGIG~KTAd~vL 136 (208)
T PRK01229 68 YLSEEELEEKLKEVGHRFYNKRAEYIVEARKLYGKLKEIIKADKDQFEAREFLVKNIKGIGYKEASHFL 136 (208)
T ss_pred CCCHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHhccCCchHHHHHHHHcCCCCcHHHHHHHH
Confidence 6888999775 33 559999999888753 1 356778888 89 99999988877
No 454
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=26.21 E-value=30 Score=31.60 Aligned_cols=17 Identities=35% Similarity=0.431 Sum_probs=14.0
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
-.+.-.|++|||||.++
T Consensus 16 e~v~I~GpSGsGKSTLl 32 (107)
T cd00820 16 VGVLITGDSGIGKTELA 32 (107)
T ss_pred EEEEEEcCCCCCHHHHH
Confidence 35677899999999876
No 455
>PRK14532 adenylate kinase; Provisional
Probab=26.13 E-value=32 Score=33.56 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=13.0
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
.|+..|..|||||+.
T Consensus 2 ~i~~~G~pGsGKsT~ 16 (188)
T PRK14532 2 NLILFGPPAAGKGTQ 16 (188)
T ss_pred EEEEECCCCCCHHHH
Confidence 378899999999875
No 456
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=26.00 E-value=49 Score=36.64 Aligned_cols=18 Identities=28% Similarity=0.601 Sum_probs=15.0
Q ss_pred CCEEEEeeccCCCCCcce
Q 005960 114 RNATVFAYGATGSGKTYT 131 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyT 131 (667)
.+-.+.-.|+.|+|||..
T Consensus 77 ~r~il~L~GPPGsGKStl 94 (361)
T smart00763 77 RKQILYLLGPVGGGKSSL 94 (361)
T ss_pred CCcEEEEECCCCCCHHHH
Confidence 456789999999999964
No 457
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=25.96 E-value=28 Score=39.31 Aligned_cols=18 Identities=44% Similarity=0.588 Sum_probs=15.8
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..|+-.|++|+|||+|+.
T Consensus 242 ~vI~LVGptGvGKTTTia 259 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLA 259 (436)
T ss_pred cEEEEECCCCCcHHHHHH
Confidence 578899999999999974
No 458
>PTZ00217 flap endonuclease-1; Provisional
Probab=25.91 E-value=55 Score=36.67 Aligned_cols=26 Identities=27% Similarity=0.397 Sum_probs=21.8
Q ss_pred hcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh
Q 005960 600 VELKGIGQRLADYICELRQSSPVKSLSDLEK 630 (667)
Q Consensus 600 ~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~ 630 (667)
..|||||++.|-+||.. |.+++.+.+
T Consensus 238 pgi~GIG~ktA~~Li~~-----~gsle~il~ 263 (393)
T PTZ00217 238 DTIKGIGPKTAYKLIKK-----YKSIEEILE 263 (393)
T ss_pred CCCCCccHHHHHHHHHH-----cCCHHHHHH
Confidence 46999999999999963 778888765
No 459
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=25.87 E-value=33 Score=33.09 Aligned_cols=16 Identities=38% Similarity=0.615 Sum_probs=13.5
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+..|+.|||||+..
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4677999999999865
No 460
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=25.66 E-value=26 Score=43.35 Aligned_cols=20 Identities=40% Similarity=0.718 Sum_probs=17.2
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005960 114 RNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 114 ~N~tIfaYGqTGSGKTyTm~ 133 (667)
.|+-.+.+|+||||||++|.
T Consensus 474 ~n~n~~I~G~TGSGKS~l~~ 493 (893)
T TIGR03744 474 KNAHLLILGPTGAGKSATLT 493 (893)
T ss_pred CcccEEEECCCCCCHHHHHH
Confidence 47778889999999999874
No 461
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=25.64 E-value=34 Score=35.49 Aligned_cols=15 Identities=40% Similarity=0.669 Sum_probs=11.8
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
+.-.|++|||||..+
T Consensus 31 v~iiGpSGSGKSTlL 45 (240)
T COG1126 31 VVIIGPSGSGKSTLL 45 (240)
T ss_pred EEEECCCCCCHHHHH
Confidence 345799999999865
No 462
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=25.63 E-value=36 Score=41.12 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=0.0
Q ss_pred eeeCCCCCchhHHHHhhccchhhhhcCCC------CEEEEeeccCCCCCcce
Q 005960 86 SFFGQEDESVSKIFYSEVNPLIPGIFHGR------NATVFAYGATGSGKTYT 131 (667)
Q Consensus 86 ~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~------N~tIfaYGqTGSGKTyT 131 (667)
+||+++. .-..+...|.....|. .+.++-+|++|+|||++
T Consensus 455 ~v~GQ~~------ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~l 500 (731)
T TIGR02639 455 KIFGQDE------AIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTEL 500 (731)
T ss_pred ceeCcHH------HHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHH
No 463
>cd01387 MYSc_type_XV Myosin motor domain, type XV myosins. In vertebrates, myosin XV appears to be expressed in sensory tissue and play a role in hearing. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Myosins are actin-dependent molecular motors that play important roles in muscle contraction, cell motility, and organelle transport. The head domain is a molecular motor, which utilizes ATP hydrolysis to generate directed movement toward the plus end along actin filaments. A cyclical interaction between myosin and actin provides the driving force. Rates of ATP hydrolysis and consequently the speed of movement along actin filaments vary widely, from about 0.04 micrometer per second for myosin I to 4.5 micrometer per second for myosin II in skeletal muscle. Myosin II moves in discrete steps about 5-10 nm long and generates 1-5 piconewtons of force. Upon ATP binding, the myosin head dissociates from an actin filament. ATP hydrolysis caus
Probab=25.50 E-value=40 Score=40.42 Aligned_cols=21 Identities=38% Similarity=0.491 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.|.|-||+.-|.+|||||.+.
T Consensus 84 ~~~~QsIiisGESGaGKTe~~ 104 (677)
T cd01387 84 AKQNQCVIISGESGSGKTEAT 104 (677)
T ss_pred cCCCceEEEEcCCCCCeehHH
Confidence 589999999999999999986
No 464
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=25.49 E-value=30 Score=38.76 Aligned_cols=19 Identities=37% Similarity=0.476 Sum_probs=15.9
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
.-.|+-.|++|+|||+|+.
T Consensus 206 ~~ii~lvGptGvGKTTt~a 224 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLV 224 (407)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 3467889999999999975
No 465
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.29 E-value=27 Score=37.79 Aligned_cols=19 Identities=32% Similarity=0.511 Sum_probs=15.7
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
..+|+-.|.||||||+.|.
T Consensus 143 ~~siii~G~t~sGKTt~ln 161 (312)
T COG0630 143 RKSIIICGGTASGKTTLLN 161 (312)
T ss_pred CCcEEEECCCCCCHHHHHH
Confidence 3457889999999999874
No 466
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=25.27 E-value=36 Score=41.99 Aligned_cols=17 Identities=35% Similarity=0.505 Sum_probs=15.0
Q ss_pred EEEEeeccCCCCCccee
Q 005960 116 ATVFAYGATGSGKTYTM 132 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm 132 (667)
+.++-+|++|+|||+..
T Consensus 597 ~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 597 GVFLLVGPSGVGKTETA 613 (852)
T ss_pred eEEEEECCCCCCHHHHH
Confidence 57899999999999974
No 467
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=25.24 E-value=65 Score=31.27 Aligned_cols=45 Identities=27% Similarity=0.301 Sum_probs=31.3
Q ss_pred HHHHhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHHhccc
Q 005960 596 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKA 645 (667)
Q Consensus 596 ~~eL~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~ 645 (667)
.-.|..|.|||+.+|.+|.+.=.-.|...+.|| +...+++|...+
T Consensus 24 ~~aLt~IyGIG~~~a~~Ic~~lgi~~~~~~~~L-----t~~qi~~l~~~i 68 (149)
T PRK04053 24 EYALTGIKGIGRRTARAIARKLGLDPNAKLGYL-----SDEEIEKIEEAL 68 (149)
T ss_pred eeeccccccccHHHHHHHHHHcCcCCCCccCcC-----CHHHHHHHHHHH
Confidence 346889999999999999876533355444444 666666666655
No 468
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=25.06 E-value=31 Score=38.98 Aligned_cols=19 Identities=37% Similarity=0.399 Sum_probs=16.3
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
...|...|++|+|||.|+.
T Consensus 191 g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 4578889999999999974
No 469
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=25.01 E-value=29 Score=31.16 Aligned_cols=16 Identities=19% Similarity=0.378 Sum_probs=13.4
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
-|..+|.+|+|||..+
T Consensus 3 ki~~~G~~~~GKstl~ 18 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLL 18 (161)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3678999999999864
No 470
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=25.00 E-value=25 Score=39.08 Aligned_cols=17 Identities=47% Similarity=0.761 Sum_probs=12.5
Q ss_pred EEEeeccCCCCCcceec
Q 005960 117 TVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm~ 133 (667)
-++..|.+|||||.+|.
T Consensus 17 ~~li~G~~GsGKT~~i~ 33 (386)
T PF10412_consen 17 HILIIGATGSGKTQAIR 33 (386)
T ss_dssp -EEEEE-TTSSHHHHHH
T ss_pred cEEEECCCCCCHHHHHH
Confidence 36789999999998654
No 471
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=24.89 E-value=36 Score=36.01 Aligned_cols=19 Identities=32% Similarity=0.501 Sum_probs=14.9
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
..+|...|++|+|||.|..
T Consensus 72 ~~vi~l~G~~G~GKTTt~a 90 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIA 90 (272)
T ss_pred CeEEEEECCCCCcHHHHHH
Confidence 3456666999999999864
No 472
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=24.87 E-value=33 Score=28.46 Aligned_cols=16 Identities=31% Similarity=0.424 Sum_probs=12.4
Q ss_pred EEeeccCCCCCcceec
Q 005960 118 VFAYGATGSGKTYTMQ 133 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~ 133 (667)
++.+|..|+|||.+..
T Consensus 2 ~~~~g~~G~Gktt~~~ 17 (99)
T cd01983 2 IVVTGKGGVGKTTLAA 17 (99)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4567888999998753
No 473
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=24.82 E-value=39 Score=39.12 Aligned_cols=45 Identities=20% Similarity=0.342 Sum_probs=29.6
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
..|.||.+++... .-..+. ..+..+ ...+..|+-+|.+||||++.
T Consensus 191 ~~~~~~~liG~s~-~~~~~~-----~~~~~~-a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 191 RSGKEDGIIGKSP-AMRQVV-----DQARVV-ARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred ccCccCceEECCH-HHHHHH-----HHHHHH-hCcCCCEEEECCCCccHHHH
Confidence 3588999998643 222222 223332 25677899999999999864
No 474
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=24.78 E-value=34 Score=41.56 Aligned_cols=18 Identities=39% Similarity=0.460 Sum_probs=15.9
Q ss_pred EEEEeeccCCCCCcceec
Q 005960 116 ATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 116 ~tIfaYGqTGSGKTyTm~ 133 (667)
..|.-.|++|+|||.|+.
T Consensus 186 ~Vi~lVGpnGvGKTTTia 203 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTA 203 (767)
T ss_pred eEEEEECCCCCcHHHHHH
Confidence 578889999999999974
No 475
>PRK06696 uridine kinase; Validated
Probab=24.67 E-value=46 Score=33.75 Aligned_cols=21 Identities=38% Similarity=0.246 Sum_probs=16.5
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005960 112 HGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm 132 (667)
.+....|.--|.+|||||+..
T Consensus 19 ~~~~~iI~I~G~sgsGKSTlA 39 (223)
T PRK06696 19 LTRPLRVAIDGITASGKTTFA 39 (223)
T ss_pred CCCceEEEEECCCCCCHHHHH
Confidence 455667888899999999853
No 476
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=24.66 E-value=60 Score=31.38 Aligned_cols=24 Identities=25% Similarity=0.470 Sum_probs=20.7
Q ss_pred ccCHHHHhcCCCCCHHHHHHHHHH
Q 005960 593 TASREELVELKGIGQRLADYICEL 616 (667)
Q Consensus 593 tA~~~eL~~lpGIG~~~A~~Ii~~ 616 (667)
=.+.++|..++|||+++-+++-.+
T Consensus 123 f~sv~dL~~v~GiG~~~~ekl~~~ 146 (149)
T COG1555 123 FKSVDDLAKVKGIGPKTLEKLKDY 146 (149)
T ss_pred CCcHHHHHhccCCCHHHHHHHHhh
Confidence 368899999999999999887654
No 477
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.15 E-value=29 Score=40.04 Aligned_cols=21 Identities=29% Similarity=0.450 Sum_probs=16.5
Q ss_pred CCCCE-EEEeeccCCCCCccee
Q 005960 112 HGRNA-TVFAYGATGSGKTYTM 132 (667)
Q Consensus 112 ~G~N~-tIfaYGqTGSGKTyTm 132 (667)
.|.-. .++-||+.|+|||.+.
T Consensus 31 ~~ri~ha~Lf~Gp~G~GKTT~A 52 (491)
T PRK14964 31 LNKIPQSILLVGASGVGKTTCA 52 (491)
T ss_pred cCCCCceEEEECCCCccHHHHH
Confidence 44433 7899999999999864
No 478
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=23.93 E-value=30 Score=34.08 Aligned_cols=15 Identities=40% Similarity=0.490 Sum_probs=12.5
Q ss_pred EEeeccCCCCCccee
Q 005960 118 VFAYGATGSGKTYTM 132 (667)
Q Consensus 118 IfaYGqTGSGKTyTm 132 (667)
|.--|++|||||+++
T Consensus 2 igi~G~~GsGKSTl~ 16 (198)
T cd02023 2 IGIAGGSGSGKTTVA 16 (198)
T ss_pred EEEECCCCCCHHHHH
Confidence 456799999999976
No 479
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=23.79 E-value=36 Score=32.21 Aligned_cols=16 Identities=38% Similarity=0.482 Sum_probs=13.3
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|.-+|+.|||||+..
T Consensus 2 iI~i~G~~GSGKstia 17 (171)
T TIGR02173 2 IITISGPPGSGKTTVA 17 (171)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4778999999998754
No 480
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=23.76 E-value=36 Score=35.42 Aligned_cols=43 Identities=33% Similarity=0.464 Sum_probs=25.5
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhhhcC-C-CCEEEEeeccCCCCCcce
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFH-G-RNATVFAYGATGSGKTYT 131 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~-G-~N~tIfaYGqTGSGKTyT 131 (667)
.||.+.++ +++-. ..+.+++.+.. | .-..++-||+.|.|||..
T Consensus 22 ~L~efiGQ-----~~l~~-~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTL 66 (233)
T PF05496_consen 22 SLDEFIGQ-----EHLKG-NLKILIRAAKKRGEALDHMLFYGPPGLGKTTL 66 (233)
T ss_dssp SCCCS-S------HHHHH-HHHHHHHHHHCTTS---EEEEESSTTSSHHHH
T ss_pred CHHHccCc-----HHHHh-hhHHHHHHHHhcCCCcceEEEECCCccchhHH
Confidence 56666654 44543 45666766543 2 234578899999999864
No 481
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=23.62 E-value=31 Score=34.10 Aligned_cols=14 Identities=43% Similarity=0.506 Sum_probs=12.0
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|.-.|++|||||+.
T Consensus 2 IgI~G~sgSGKTTl 15 (194)
T PF00485_consen 2 IGIAGPSGSGKTTL 15 (194)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 56689999999986
No 482
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=23.46 E-value=28 Score=39.57 Aligned_cols=41 Identities=24% Similarity=0.377 Sum_probs=25.8
Q ss_pred eeceeeCCCCCchhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCccee
Q 005960 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 83 ~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfaYGqTGSGKTyTm 132 (667)
.||.|++++. + +..+...+-.|. ...++-||+.|+|||.+.
T Consensus 15 ~~~diiGq~~-----~----v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A 56 (451)
T PRK06305 15 TFSEILGQDA-----V----VAVLKNALRFNRAAHAYLFSGIRGTGKTTLA 56 (451)
T ss_pred CHHHhcCcHH-----H----HHHHHHHHHcCCCceEEEEEcCCCCCHHHHH
Confidence 6778887542 2 223333333454 345777999999999876
No 483
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=23.21 E-value=52 Score=35.65 Aligned_cols=42 Identities=29% Similarity=0.475 Sum_probs=29.6
Q ss_pred EEEeeccCCCCCccee--------------ccCC---CCCCChHHHHHHHHhhhccCCc
Q 005960 117 TVFAYGATGSGKTYTM--------------QGSE---ERPGLMPLAMSKILSICQSTGS 158 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm--------------~G~~---~~~GLipral~~LF~~~~~~~~ 158 (667)
-|+.||..|+|||..- .|++ ..-|==|+.+++||+.+.....
T Consensus 221 GVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvRqlF~vA~e~ap 279 (440)
T KOG0726|consen 221 GVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAP 279 (440)
T ss_pred eeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHHHHHHHHHhcCC
Confidence 4789999999998643 2221 2235568999999998766443
No 484
>PRK06762 hypothetical protein; Provisional
Probab=23.12 E-value=41 Score=32.02 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=12.4
Q ss_pred EEEeeccCCCCCcce
Q 005960 117 TVFAYGATGSGKTYT 131 (667)
Q Consensus 117 tIfaYGqTGSGKTyT 131 (667)
.|.-.|..|||||+.
T Consensus 4 li~i~G~~GsGKST~ 18 (166)
T PRK06762 4 LIIIRGNSGSGKTTI 18 (166)
T ss_pred EEEEECCCCCCHHHH
Confidence 466789999999873
No 485
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=23.07 E-value=33 Score=31.92 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=15.7
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005960 113 GRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 113 G~N~tIfaYGqTGSGKTyTm 132 (667)
..+..|+-+|..||||++..
T Consensus 19 ~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 19 KSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp CSSS-EEEECCTTSSHHHHH
T ss_pred CCCCcEEEEcCCCCCHHHHH
Confidence 56677888999999998753
No 486
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=23.07 E-value=1e+02 Score=23.33 Aligned_cols=39 Identities=26% Similarity=0.412 Sum_probs=27.7
Q ss_pred CCCHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHHhcc
Q 005960 604 GIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGK 644 (667)
Q Consensus 604 GIG~~~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~ 644 (667)
.+.+...+.|++.++.. .++.|+.+. ||+..++.++...
T Consensus 5 ~~~~~~~~~i~~l~~~G--~si~~IA~~~gvsr~TvyR~l~~ 44 (45)
T PF02796_consen 5 KLSKEQIEEIKELYAEG--MSIAEIAKQFGVSRSTVYRYLNK 44 (45)
T ss_dssp SSSHCCHHHHHHHHHTT----HHHHHHHTTS-HHHHHHHHCC
T ss_pred CCCHHHHHHHHHHHHCC--CCHHHHHHHHCcCHHHHHHHHhc
Confidence 34455577888888665 789999997 9999999887653
No 487
>PRK03839 putative kinase; Provisional
Probab=23.06 E-value=38 Score=32.86 Aligned_cols=14 Identities=36% Similarity=0.510 Sum_probs=12.2
Q ss_pred EEeeccCCCCCcce
Q 005960 118 VFAYGATGSGKTYT 131 (667)
Q Consensus 118 IfaYGqTGSGKTyT 131 (667)
|+-.|..|||||+.
T Consensus 3 I~l~G~pGsGKsT~ 16 (180)
T PRK03839 3 IAITGTPGVGKTTV 16 (180)
T ss_pred EEEECCCCCCHHHH
Confidence 67889999999874
No 488
>PF01367 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold; InterPro: IPR020045 This entry represents the C-terminal domain of 5' to 3' exonucleases. The 5'-3' exonucleases are conserved in organisms as diverse as bacteriophage and mammals. It adopts a SAM fold consisting of 4-5 helices packed into a bundle of two orthogonally packed alpha-hairpins. This domain is involved in interactions with DNA and proteins. 5' to 3' exonucleases that contain this domain include: Bacteriophage T4 RNase H, which has sequence similarity to the RAD2 family of eukaryotic proteins []. 5' to 3' exonuclease domain of DNA polymerase Taq, which is homologous to Escherichia coli DNA polymerase I (pol I) [, ]. Bacteriophage T5 5'-exonuclease, which are structure-specific endonucleases []. Flap endonuclease-1 (Fen-1 nuclease), a structure specific nuclease that is an essential enzyme for eukaryotic DNA replication and repair []. ; GO: 0003677 DNA binding, 0003824 catalytic activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B.
Probab=23.01 E-value=11 Score=34.00 Aligned_cols=27 Identities=22% Similarity=0.322 Sum_probs=18.7
Q ss_pred HhcCCCCCHHHHHHHHHHHhcCCCCCHHHHhh
Q 005960 599 LVELKGIGQRLADYICELRQSSPVKSLSDLEK 630 (667)
Q Consensus 599 L~~lpGIG~~~A~~Ii~~R~~~pf~~~~dL~~ 630 (667)
+-.+||||+|.|.++|+. |.+++.+..
T Consensus 20 IPGV~GIG~KtA~~LL~~-----ygsle~i~~ 46 (101)
T PF01367_consen 20 IPGVPGIGPKTAAKLLQE-----YGSLENILA 46 (101)
T ss_dssp B---TTSTCHCCCCCHHH-----HTSCHCCCC
T ss_pred CCCCCCCCHHHHHHHHHH-----cCCHHHHHH
Confidence 356899999999999875 566666644
No 489
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=23.00 E-value=43 Score=36.57 Aligned_cols=76 Identities=16% Similarity=0.222 Sum_probs=46.5
Q ss_pred ceeeeeceeeCCCCCchhHHHHhhccchhhhhc--C-CCCE--EEEeeccCCCCCccee------ccC-----------C
Q 005960 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIF--H-GRNA--TVFAYGATGSGKTYTM------QGS-----------E 136 (667)
Q Consensus 79 ~~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl--~-G~N~--tIfaYGqTGSGKTyTm------~G~-----------~ 136 (667)
...|.||.+-+... +-.++-+.+.-||+...+ . |... -++-||+.|+|||+-. +|- +
T Consensus 126 ~~~~s~~~~ggl~~-qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~ 204 (388)
T KOG0651|consen 126 PRNISFENVGGLFY-QIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVD 204 (388)
T ss_pred ccccCHHHhCChHH-HHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhh
Confidence 34688888877543 334555555667777643 2 4432 4788999999999853 121 1
Q ss_pred CCCCChHHHHHHHHhhhcc
Q 005960 137 ERPGLMPLAMSKILSICQS 155 (667)
Q Consensus 137 ~~~GLipral~~LF~~~~~ 155 (667)
..-|=-.|.+++.|..+.+
T Consensus 205 kyiGEsaRlIRemf~yA~~ 223 (388)
T KOG0651|consen 205 KYIGESARLIRDMFRYARE 223 (388)
T ss_pred hhcccHHHHHHHHHHHHhh
Confidence 2235556777777765543
No 490
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=22.94 E-value=32 Score=41.57 Aligned_cols=19 Identities=37% Similarity=0.602 Sum_probs=16.7
Q ss_pred CEEEEeeccCCCCCcceec
Q 005960 115 NATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm~ 133 (667)
|.-++..|.||||||++|.
T Consensus 434 ~~n~~I~G~tGsGKS~~~~ 452 (785)
T TIGR00929 434 LGHTLIFGPTGSGKTTLLN 452 (785)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 7778899999999999873
No 491
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=22.81 E-value=33 Score=39.68 Aligned_cols=45 Identities=13% Similarity=0.191 Sum_probs=28.5
Q ss_pred eeeeeceeeCCCCCchhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005960 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (667)
Q Consensus 80 ~~F~FD~Vf~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfaYGqTGSGKTyT 131 (667)
..+.||.+++... .-..+.. .+.. +...+..|+-+|.+||||++.
T Consensus 199 ~~~~f~~~ig~s~-~~~~~~~-----~~~~-~A~~~~pvlI~GE~GtGK~~l 243 (520)
T PRK10820 199 DDSAFSQIVAVSP-KMRQVVE-----QARK-LAMLDAPLLITGDTGTGKDLL 243 (520)
T ss_pred ccccccceeECCH-HHHHHHH-----HHHH-HhCCCCCEEEECCCCccHHHH
Confidence 3589999998642 2122222 2222 233577799999999999874
No 492
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=22.78 E-value=39 Score=38.03 Aligned_cols=18 Identities=39% Similarity=0.632 Sum_probs=15.1
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
...|+-+|++|+|||+..
T Consensus 108 ~~~iLl~Gp~GtGKT~lA 125 (412)
T PRK05342 108 KSNILLIGPTGSGKTLLA 125 (412)
T ss_pred CceEEEEcCCCCCHHHHH
Confidence 356899999999999864
No 493
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=22.77 E-value=89 Score=32.08 Aligned_cols=17 Identities=18% Similarity=0.378 Sum_probs=14.7
Q ss_pred CEEEEeeccCCCCCcce
Q 005960 115 NATVFAYGATGSGKTYT 131 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyT 131 (667)
...+.-+|++|+|||..
T Consensus 24 g~~~~i~G~~G~GKTtl 40 (230)
T PRK08533 24 GSLILIEGDESTGKSIL 40 (230)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 34788999999999986
No 494
>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=22.76 E-value=40 Score=39.50 Aligned_cols=25 Identities=28% Similarity=0.571 Sum_probs=19.1
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005960 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (667)
Q Consensus 106 lV~~vl~G~N~tIfaYGqTGSGKTyTm 132 (667)
+|..+++|.|+ ++..+||+|||.+.
T Consensus 21 ~i~~il~g~dv--lv~~PTG~GKTl~y 45 (591)
T TIGR01389 21 IISHVLDGRDV--LVVMPTGGGKSLCY 45 (591)
T ss_pred HHHHHHcCCCE--EEEcCCCccHhHHH
Confidence 44567788875 56679999999874
No 495
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=22.76 E-value=47 Score=39.84 Aligned_cols=22 Identities=27% Similarity=0.339 Sum_probs=17.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005960 112 HGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 112 ~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+...-++..|+||||||....
T Consensus 279 ~~~~~~~Ll~~~TGSGKT~va~ 300 (681)
T PRK10917 279 SPKPMNRLLQGDVGSGKTVVAA 300 (681)
T ss_pred ccCCceEEEECCCCCcHHHHHH
Confidence 3445578999999999998653
No 496
>PRK04040 adenylate kinase; Provisional
Probab=22.74 E-value=39 Score=33.66 Aligned_cols=16 Identities=38% Similarity=0.569 Sum_probs=13.7
Q ss_pred EEEeeccCCCCCccee
Q 005960 117 TVFAYGATGSGKTYTM 132 (667)
Q Consensus 117 tIfaYGqTGSGKTyTm 132 (667)
.|+.+|..|||||+..
T Consensus 4 ~i~v~G~pG~GKtt~~ 19 (188)
T PRK04040 4 VVVVTGVPGVGKTTVL 19 (188)
T ss_pred EEEEEeCCCCCHHHHH
Confidence 4788999999999854
No 497
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=22.68 E-value=82 Score=29.65 Aligned_cols=53 Identities=30% Similarity=0.428 Sum_probs=36.1
Q ss_pred ccCHHHHhc-CC--CCCHHHHHHHHHHHhcC--CC-----CCHHHHhhc-CCCHHHHHHHhccc
Q 005960 593 TASREELVE-LK--GIGQRLADYICELRQSS--PV-----KSLSDLEKI-GLSTKQVYNLFGKA 645 (667)
Q Consensus 593 tA~~~eL~~-lp--GIG~~~A~~Ii~~R~~~--pf-----~~~~dL~~v-Gi~~~~~~~l~~~~ 645 (667)
.++.++|.. |. |....+|++|++.-+.. .| ...++|.++ |||+++.+-+.-..
T Consensus 29 ~~~~~eL~~~l~~~g~~~~ka~~i~~~a~~~~~~~~~~~~~~~~~L~~l~GIG~~tA~~~l~~~ 92 (149)
T smart00478 29 AADEEELEELIRPLGFYRRKAKYLIELARILVEEYGGEVPDDREELLKLPGVGRKTANAVLSFA 92 (149)
T ss_pred CCCHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHCCCccHHHHHHHcCCCCcHHHHHHHHHHH
Confidence 466777744 22 67788888887665432 22 367788889 99999987765544
No 498
>PRK00300 gmk guanylate kinase; Provisional
Probab=22.59 E-value=42 Score=33.13 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=14.3
Q ss_pred CEEEEeeccCCCCCccee
Q 005960 115 NATVFAYGATGSGKTYTM 132 (667)
Q Consensus 115 N~tIfaYGqTGSGKTyTm 132 (667)
...|.-.|++|||||..+
T Consensus 5 g~~i~i~G~sGsGKstl~ 22 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLV 22 (205)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 346788999999999654
No 499
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=22.50 E-value=52 Score=37.37 Aligned_cols=61 Identities=26% Similarity=0.344 Sum_probs=32.5
Q ss_pred EEeeccCCCCCcceeccCCCCCCChHHHHHHHHhhhccCCceEE-EEEEEEe-cceeeeccCC-CCCceeeeeCCCCCeE
Q 005960 118 VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAE-ISYYEVY-MDRCYDLLEV-KTKEISILDDKDGQLH 194 (667)
Q Consensus 118 IfaYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~~v~-vS~~EIY-nE~v~DLL~~-~~~~l~i~ed~~g~~~ 194 (667)
-+-||+.|+|||.-+. |+ +..-.|.|. +..-+|. +..++-||.. .++.+.+.||-+..+.
T Consensus 238 YLLYGPPGTGKSS~Ia-----------Am------An~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~ 300 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIA-----------AM------ANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFD 300 (457)
T ss_pred ceeeCCCCCCHHHHHH-----------HH------HhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccc
Confidence 4789999999987431 12 122233222 2222333 2336666643 3455777777665543
Q ss_pred e
Q 005960 195 L 195 (667)
Q Consensus 195 v 195 (667)
+
T Consensus 301 l 301 (457)
T KOG0743|consen 301 L 301 (457)
T ss_pred c
Confidence 3
No 500
>PRK06851 hypothetical protein; Provisional
Probab=22.43 E-value=44 Score=37.12 Aligned_cols=29 Identities=31% Similarity=0.511 Sum_probs=23.1
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005960 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (667)
Q Consensus 105 plV~~vl~G~N~tIfaYGqTGSGKTyTm~ 133 (667)
.+.+.++.|.+-.++--|..|+|||++|.
T Consensus 20 s~~~~~~~~~~~~~il~G~pGtGKStl~~ 48 (367)
T PRK06851 20 SLYDSIIDGANRIFILKGGPGTGKSTLMK 48 (367)
T ss_pred hhhhhhccccceEEEEECCCCCCHHHHHH
Confidence 44455667788889999999999999763
Done!