Query 035971
Match_columns 614
No_of_seqs 387 out of 2967
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:07:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035971.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035971hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0243 Kinesin-like protein [ 100.0 2.7E-79 5.7E-84 696.3 29.7 349 14-366 49-427 (1041)
2 KOG4280 Kinesin-like protein [ 100.0 1E-78 2.2E-83 666.7 28.4 341 12-361 3-367 (574)
3 cd01370 KISc_KIP3_like Kinesin 100.0 4.1E-74 9E-79 610.6 33.9 308 15-328 1-338 (338)
4 cd01373 KISc_KLP2_like Kinesin 100.0 6.1E-74 1.3E-78 609.0 33.3 306 14-328 1-337 (337)
5 PLN03188 kinesin-12 family pro 100.0 7.2E-74 1.6E-78 657.2 35.2 330 13-360 97-463 (1320)
6 KOG0245 Kinesin-like protein [ 100.0 7.5E-75 1.6E-79 648.5 22.0 337 14-359 4-377 (1221)
7 cd01368 KISc_KIF23_like Kinesi 100.0 5.9E-73 1.3E-77 603.2 34.5 304 14-324 1-344 (345)
8 KOG0242 Kinesin-like protein [ 100.0 1.5E-73 3.2E-78 646.7 29.4 341 13-361 5-363 (675)
9 cd01376 KISc_KID_like Kinesin 100.0 5.1E-72 1.1E-76 590.3 35.4 308 15-324 1-318 (319)
10 KOG0240 Kinesin (SMY1 subfamil 100.0 5E-73 1.1E-77 607.4 26.7 315 13-334 6-337 (607)
11 cd01367 KISc_KIF2_like Kinesin 100.0 1.6E-71 3.5E-76 587.1 34.1 305 14-324 1-321 (322)
12 cd01365 KISc_KIF1A_KIF1B Kines 100.0 2.5E-71 5.5E-76 593.2 35.7 316 14-334 1-355 (356)
13 cd01364 KISc_BimC_Eg5 Kinesin 100.0 5.4E-71 1.2E-75 589.8 34.5 319 14-335 2-350 (352)
14 cd01371 KISc_KIF3 Kinesin moto 100.0 2.2E-70 4.8E-75 581.0 33.7 310 14-328 1-333 (333)
15 cd01369 KISc_KHC_KIF5 Kinesin 100.0 4.3E-70 9.4E-75 576.9 34.5 305 14-328 2-325 (325)
16 cd01374 KISc_CENP_E Kinesin mo 100.0 8.5E-70 1.8E-74 573.8 33.7 304 15-328 1-321 (321)
17 cd01372 KISc_KIF4 Kinesin moto 100.0 3.4E-69 7.4E-74 573.5 32.9 303 15-329 2-341 (341)
18 cd01375 KISc_KIF9_like Kinesin 100.0 4.1E-69 8.9E-74 571.5 33.1 302 15-324 1-333 (334)
19 cd01366 KISc_C_terminal Kinesi 100.0 1.9E-68 4E-73 565.2 35.4 310 13-330 1-328 (329)
20 KOG0239 Kinesin (KAR3 subfamil 100.0 2.7E-69 5.8E-74 610.0 22.0 329 3-336 303-648 (670)
21 smart00129 KISc Kinesin motor, 100.0 7.6E-67 1.6E-71 554.0 34.9 315 15-334 1-334 (335)
22 cd00106 KISc Kinesin motor dom 100.0 7E-66 1.5E-70 544.8 34.7 305 15-324 1-327 (328)
23 KOG0241 Kinesin-like protein [ 100.0 3.2E-67 7E-72 577.4 24.4 336 13-357 3-378 (1714)
24 PF00225 Kinesin: Kinesin moto 100.0 8.7E-66 1.9E-70 545.5 22.9 306 21-328 1-335 (335)
25 KOG0246 Kinesin-like protein [ 100.0 1.1E-63 2.5E-68 533.6 29.1 314 14-332 208-545 (676)
26 KOG0247 Kinesin-like protein [ 100.0 9.4E-60 2E-64 515.9 20.8 314 11-331 28-439 (809)
27 KOG0244 Kinesin-like protein [ 100.0 2E-58 4.3E-63 518.6 9.1 326 22-360 1-347 (913)
28 COG5059 KIP1 Kinesin-like prot 100.0 1.2E-54 2.7E-59 487.5 26.7 276 61-337 55-345 (568)
29 cd01363 Motor_domain Myosin an 100.0 5.7E-47 1.2E-51 370.5 18.3 173 79-312 8-186 (186)
30 COG1555 ComEA DNA uptake prote 99.4 7.4E-13 1.6E-17 125.3 6.2 64 543-607 82-146 (149)
31 PF12836 HHH_3: Helix-hairpin- 99.3 1.9E-12 4E-17 105.8 5.0 59 546-605 2-61 (65)
32 TIGR01259 comE comEA protein. 99.0 2.7E-10 5.9E-15 104.2 6.2 58 549-607 59-117 (120)
33 TIGR00426 competence protein C 98.9 2E-09 4.3E-14 88.8 6.1 57 550-607 8-66 (69)
34 PRK02515 psbU photosystem II c 98.8 9.7E-09 2.1E-13 93.8 5.4 50 550-604 53-103 (132)
35 PF00633 HHH: Helix-hairpin-he 98.0 4.9E-06 1.1E-10 57.6 3.2 28 550-577 3-30 (30)
36 COG5059 KIP1 Kinesin-like prot 97.6 1.3E-07 2.7E-12 107.8 -16.0 258 7-277 299-566 (568)
37 PF14579 HHH_6: Helix-hairpin- 97.4 0.00025 5.4E-09 61.6 5.8 46 560-607 29-76 (90)
38 COG1491 Predicted RNA-binding 97.4 0.0002 4.4E-09 69.1 5.7 49 547-597 114-168 (202)
39 PF04919 DUF655: Protein of un 97.4 0.00031 6.7E-09 68.1 6.4 48 546-595 99-152 (181)
40 PF14520 HHH_5: Helix-hairpin- 96.3 0.0068 1.5E-07 48.5 4.9 45 557-607 4-57 (60)
41 COG4277 Predicted DNA-binding 96.1 0.0024 5.1E-08 66.3 1.6 51 551-604 323-373 (404)
42 COG2183 Tex Transcriptional ac 95.3 0.013 2.9E-07 68.0 3.7 52 551-603 502-554 (780)
43 cd00141 NT_POLXc Nucleotidyltr 95.1 0.022 4.8E-07 60.5 4.4 52 553-606 40-103 (307)
44 PRK07373 DNA polymerase III su 95.1 0.032 6.9E-07 62.3 5.6 48 559-607 115-166 (449)
45 PF12826 HHH_2: Helix-hairpin- 94.8 0.027 5.8E-07 45.9 3.2 32 549-580 26-57 (64)
46 smart00278 HhH1 Helix-hairpin- 94.8 0.021 4.6E-07 38.1 2.1 22 558-579 1-22 (26)
47 PRK14606 ruvA Holliday junctio 94.7 0.092 2E-06 52.0 7.2 64 545-609 95-168 (188)
48 PRK05672 dnaE2 error-prone DNA 94.0 0.067 1.5E-06 65.5 5.5 45 560-606 818-863 (1046)
49 PRK14601 ruvA Holliday junctio 93.7 0.19 4.2E-06 49.5 7.1 64 545-608 95-166 (183)
50 COG0556 UvrB Helicase subunit 93.6 0.11 2.4E-06 58.3 5.7 87 63-154 4-101 (663)
51 PRK13901 ruvA Holliday junctio 93.6 0.15 3.2E-06 50.8 6.2 63 545-608 94-168 (196)
52 COG2176 PolC DNA polymerase II 93.5 0.076 1.6E-06 64.1 4.6 42 561-604 1384-1426(1444)
53 PRK14602 ruvA Holliday junctio 93.5 0.22 4.7E-06 49.9 7.2 65 545-609 96-180 (203)
54 PRK14600 ruvA Holliday junctio 93.5 0.19 4.2E-06 49.6 6.7 62 545-608 95-169 (186)
55 PRK00116 ruvA Holliday junctio 93.5 0.11 2.5E-06 51.4 5.2 59 549-608 99-173 (192)
56 PF00308 Bac_DnaA: Bacterial d 93.4 0.031 6.6E-07 56.4 1.0 50 62-114 3-52 (219)
57 TIGR01405 polC_Gram_pos DNA po 93.0 0.12 2.6E-06 64.1 5.4 46 560-607 1152-1198(1213)
58 PRK05673 dnaE DNA polymerase I 93.0 0.13 2.9E-06 63.5 5.7 47 559-606 821-871 (1135)
59 PF06514 PsbU: Photosystem II 92.9 0.096 2.1E-06 45.6 3.1 52 551-608 16-68 (93)
60 PRK00116 ruvA Holliday junctio 92.8 0.15 3.3E-06 50.5 5.0 49 558-608 73-128 (192)
61 PF14520 HHH_5: Helix-hairpin- 92.7 0.087 1.9E-06 42.1 2.5 24 554-577 34-57 (60)
62 TIGR00594 polc DNA-directed DN 92.6 0.16 3.5E-06 62.2 5.6 48 559-607 825-876 (1022)
63 PRK14605 ruvA Holliday junctio 92.5 0.26 5.6E-06 49.1 6.1 63 546-608 96-172 (194)
64 PRK07135 dnaE DNA polymerase I 92.5 0.17 3.7E-06 61.3 5.7 48 559-607 754-805 (973)
65 PRK07374 dnaE DNA polymerase I 92.3 0.18 3.8E-06 62.5 5.6 47 560-607 837-887 (1170)
66 PRK06826 dnaE DNA polymerase I 92.1 0.19 4.2E-06 62.1 5.6 48 559-607 825-876 (1151)
67 PF10391 DNA_pol_lambd_f: Fing 92.0 0.17 3.6E-06 39.7 3.1 36 558-599 2-39 (52)
68 COG1031 Uncharacterized Fe-S o 92.0 0.098 2.1E-06 57.5 2.5 44 550-598 508-552 (560)
69 COG0632 RuvA Holliday junction 91.8 0.41 8.8E-06 47.9 6.5 66 545-610 95-182 (201)
70 PRK00448 polC DNA polymerase I 91.7 0.21 4.6E-06 62.9 5.4 46 560-607 1375-1421(1437)
71 KOG2534 DNA polymerase IV (fam 91.3 0.32 7E-06 51.3 5.4 77 530-610 30-119 (353)
72 PRK06893 DNA replication initi 91.1 0.17 3.6E-06 51.3 3.1 47 62-114 11-57 (229)
73 PRK06620 hypothetical protein; 90.3 0.17 3.6E-06 51.0 2.1 51 61-115 10-63 (214)
74 smart00483 POLXc DNA polymeras 90.1 0.37 8E-06 51.9 4.8 50 556-607 46-108 (334)
75 PRK13901 ruvA Holliday junctio 90.0 0.42 9.1E-06 47.6 4.6 48 558-607 72-126 (196)
76 COG2805 PilT Tfp pilus assembl 89.6 0.16 3.5E-06 53.5 1.4 32 83-114 112-143 (353)
77 PF11731 Cdd1: Pathogenicity l 89.2 0.31 6.8E-06 42.8 2.7 47 553-607 7-53 (93)
78 PRK14605 ruvA Holliday junctio 89.1 0.51 1.1E-05 47.0 4.5 46 558-605 73-125 (194)
79 PRK08084 DNA replication initi 88.7 0.24 5.1E-06 50.5 1.9 47 62-114 17-63 (235)
80 PRK14604 ruvA Holliday junctio 88.4 0.42 9.2E-06 47.6 3.4 64 545-608 95-173 (195)
81 PRK06920 dnaE DNA polymerase I 88.3 0.58 1.2E-05 57.8 5.1 47 559-607 803-853 (1107)
82 PRK12377 putative replication 88.2 0.27 5.9E-06 50.7 2.0 50 64-115 71-120 (248)
83 PRK14603 ruvA Holliday junctio 88.0 0.47 1E-05 47.3 3.5 81 525-609 78-177 (197)
84 TIGR00084 ruvA Holliday juncti 87.6 1.5 3.3E-05 43.5 6.8 65 545-609 94-172 (191)
85 PRK09087 hypothetical protein; 87.5 0.3 6.4E-06 49.6 1.7 48 61-114 15-62 (226)
86 PRK14086 dnaA chromosomal repl 87.2 0.33 7.3E-06 56.1 2.1 52 61-115 282-333 (617)
87 PRK14088 dnaA chromosomal repl 87.1 0.32 7E-06 54.2 1.9 50 61-114 99-148 (440)
88 TIGR00362 DnaA chromosomal rep 86.8 0.37 8.1E-06 52.9 2.1 51 61-114 104-154 (405)
89 PRK05642 DNA replication initi 86.4 0.52 1.1E-05 48.0 2.8 46 62-114 14-63 (234)
90 PRK08116 hypothetical protein; 86.0 0.49 1.1E-05 49.3 2.4 51 62-114 80-132 (268)
91 PRK00149 dnaA chromosomal repl 86.0 0.41 8.9E-06 53.4 2.0 52 60-114 115-166 (450)
92 PF02371 Transposase_20: Trans 85.9 0.55 1.2E-05 40.4 2.3 41 558-599 2-43 (87)
93 PRK05898 dnaE DNA polymerase I 85.6 1.1 2.4E-05 54.4 5.4 45 560-606 754-802 (971)
94 PF03934 T2SK: Type II secreti 85.5 0.36 7.8E-06 50.4 1.2 50 547-598 182-233 (280)
95 PF14716 HHH_8: Helix-hairpin- 85.4 0.85 1.8E-05 37.4 3.1 44 532-577 22-66 (68)
96 COG2804 PulE Type II secretory 85.4 0.4 8.7E-06 53.8 1.5 32 84-115 246-277 (500)
97 PRK06526 transposase; Provisio 85.4 0.35 7.5E-06 50.1 1.0 44 67-115 74-117 (254)
98 PRK14602 ruvA Holliday junctio 85.4 1.3 2.8E-05 44.4 5.0 46 559-607 75-128 (203)
99 TIGR00084 ruvA Holliday juncti 85.1 1.3 2.8E-05 44.0 4.8 46 558-605 72-124 (191)
100 PRK08903 DnaA regulatory inact 84.7 0.87 1.9E-05 45.6 3.4 48 61-113 12-59 (227)
101 TIGR03420 DnaA_homol_Hda DnaA 84.4 0.84 1.8E-05 45.3 3.2 47 61-113 9-55 (226)
102 TIGR00608 radc DNA repair prot 84.3 1.4 3.1E-05 44.6 4.8 60 549-610 51-112 (218)
103 PRK08609 hypothetical protein; 84.3 1.5 3.3E-05 50.6 5.6 48 556-608 86-143 (570)
104 PRK07952 DNA replication prote 83.5 0.99 2.1E-05 46.5 3.3 50 63-114 68-117 (244)
105 PRK06835 DNA replication prote 82.6 0.61 1.3E-05 50.2 1.4 36 78-115 167-202 (329)
106 PRK10702 endonuclease III; Pro 82.4 0.91 2E-05 45.8 2.5 25 554-578 105-129 (211)
107 cd00009 AAA The AAA+ (ATPases 82.2 0.83 1.8E-05 40.6 2.0 28 86-113 9-36 (151)
108 PF04851 ResIII: Type III rest 81.8 0.71 1.5E-05 43.5 1.4 32 84-115 12-44 (184)
109 TIGR02928 orc1/cdc6 family rep 81.7 0.91 2E-05 48.7 2.4 27 87-113 30-57 (365)
110 COG0593 DnaA ATPase involved i 81.3 0.72 1.6E-05 50.9 1.4 52 60-114 80-131 (408)
111 PRK08609 hypothetical protein; 81.2 1.8 3.9E-05 50.0 4.7 47 558-606 48-106 (570)
112 PRK08727 hypothetical protein; 80.9 1 2.2E-05 45.7 2.3 18 97-114 42-59 (233)
113 KOG2841 Structure-specific end 80.7 1.2 2.7E-05 45.2 2.7 34 551-587 220-253 (254)
114 PRK14087 dnaA chromosomal repl 80.7 0.83 1.8E-05 51.2 1.7 49 63-114 111-159 (450)
115 PRK08181 transposase; Validate 80.6 1.4 3E-05 46.1 3.2 21 93-115 105-125 (269)
116 PRK14601 ruvA Holliday junctio 80.4 2.4 5.2E-05 41.9 4.6 48 558-607 73-127 (183)
117 COG1474 CDC6 Cdc6-related prot 80.0 1.6 3.4E-05 47.7 3.5 26 88-113 33-59 (366)
118 PRK14606 ruvA Holliday junctio 79.3 2.7 5.9E-05 41.7 4.6 47 559-607 74-127 (188)
119 PRK00411 cdc6 cell division co 79.1 1.4 2.9E-05 47.9 2.7 27 87-113 45-72 (394)
120 PRK08939 primosomal protein Dn 78.9 0.91 2E-05 48.3 1.2 51 64-115 124-175 (306)
121 PF13245 AAA_19: Part of AAA d 78.8 0.95 2.1E-05 38.1 1.0 26 88-114 3-28 (76)
122 PRK14603 ruvA Holliday junctio 78.1 3.1 6.7E-05 41.6 4.6 46 559-606 73-125 (197)
123 PRK10436 hypothetical protein; 77.4 1 2.2E-05 50.6 1.1 28 87-114 209-236 (462)
124 PRK13910 DNA glycosylase MutY; 77.4 1.7 3.6E-05 46.0 2.6 24 555-578 69-92 (289)
125 PRK12422 chromosomal replicati 77.3 1.6 3.4E-05 49.0 2.5 52 60-114 104-159 (445)
126 PF00437 T2SE: Type II/IV secr 77.2 2.2 4.7E-05 44.0 3.4 29 85-113 113-144 (270)
127 cd00141 NT_POLXc Nucleotidyltr 77.0 4.5 9.8E-05 43.0 5.8 31 558-594 85-115 (307)
128 PF01637 Arch_ATPase: Archaeal 76.2 1.1 2.3E-05 43.9 0.8 31 83-113 7-37 (234)
129 TIGR02538 type_IV_pilB type IV 76.2 1.2 2.5E-05 51.4 1.2 28 87-114 307-334 (564)
130 TIGR02533 type_II_gspE general 76.0 1.3 2.9E-05 50.1 1.5 28 87-114 233-260 (486)
131 smart00483 POLXc DNA polymeras 75.9 2.3 5E-05 45.8 3.3 31 557-593 88-118 (334)
132 PRK14604 ruvA Holliday junctio 75.9 3.9 8.4E-05 40.8 4.6 47 559-607 74-127 (195)
133 TIGR00426 competence protein C 75.2 2.5 5.5E-05 34.5 2.6 23 555-577 44-66 (69)
134 PF12826 HHH_2: Helix-hairpin- 74.9 6.4 0.00014 31.9 4.9 39 561-606 6-53 (64)
135 PRK13913 3-methyladenine DNA g 74.9 2.1 4.6E-05 43.4 2.5 54 555-609 118-178 (218)
136 PRK14600 ruvA Holliday junctio 74.9 3.8 8.3E-05 40.5 4.2 47 558-607 73-126 (186)
137 cd00046 DEXDc DEAD-like helica 74.9 1 2.2E-05 39.5 0.2 17 99-115 3-19 (144)
138 PRK07956 ligA NAD-dependent DN 74.2 2.2 4.7E-05 50.2 2.7 47 551-598 536-582 (665)
139 PF14635 HHH_7: Helix-hairpin- 74.1 5.6 0.00012 35.7 4.7 44 558-601 50-94 (104)
140 COG1796 POL4 DNA polymerase IV 74.0 3.2 7E-05 44.1 3.6 45 560-606 55-111 (326)
141 COG0632 RuvA Holliday junction 73.8 3.2 6.8E-05 41.6 3.4 49 558-608 73-128 (201)
142 PF05673 DUF815: Protein of un 73.6 2.8 6.2E-05 43.2 3.0 124 64-219 24-155 (249)
143 TIGR01420 pilT_fam pilus retra 73.4 1.7 3.7E-05 46.9 1.4 30 85-114 111-140 (343)
144 smart00382 AAA ATPases associa 73.3 1.2 2.6E-05 38.9 0.3 17 97-113 3-19 (148)
145 COG1484 DnaC DNA replication p 73.3 2.7 5.8E-05 43.5 2.9 50 63-115 75-124 (254)
146 KOG1921 Endonuclease III [Repl 73.3 2.3 5.1E-05 43.5 2.3 24 554-577 155-178 (286)
147 PRK13894 conjugal transfer ATP 73.2 7.2 0.00016 41.8 6.2 28 85-113 138-165 (319)
148 PF13604 AAA_30: AAA domain; P 72.7 1.8 3.8E-05 42.9 1.3 27 87-113 9-35 (196)
149 KOG0989 Replication factor C, 72.7 2.5 5.4E-05 45.0 2.4 37 77-113 37-74 (346)
150 PRK14667 uvrC excinuclease ABC 72.5 4.6 0.0001 46.6 4.8 48 556-607 512-564 (567)
151 PF13401 AAA_22: AAA domain; P 72.5 1.1 2.3E-05 40.3 -0.3 18 96-113 4-21 (131)
152 PRK14666 uvrC excinuclease ABC 72.3 4.6 9.9E-05 47.5 4.7 55 554-613 633-693 (694)
153 COG5008 PilU Tfp pilus assembl 72.1 2.3 5.1E-05 44.4 2.0 31 84-114 115-145 (375)
154 TIGR01084 mutY A/G-specific ad 72.0 2.5 5.5E-05 44.3 2.3 27 555-581 102-128 (275)
155 PF00270 DEAD: DEAD/DEAH box h 72.0 2.6 5.7E-05 39.3 2.3 26 87-114 7-32 (169)
156 TIGR00631 uvrb excinuclease AB 71.9 3 6.4E-05 49.1 3.1 85 64-153 2-97 (655)
157 PRK07945 hypothetical protein; 71.8 2.5 5.3E-05 45.6 2.2 33 559-593 50-82 (335)
158 TIGR02525 plasmid_TraJ plasmid 71.7 2 4.3E-05 47.0 1.5 26 87-113 141-166 (372)
159 cd01131 PilT Pilus retraction 71.6 1.4 3.1E-05 43.5 0.4 17 97-113 2-18 (198)
160 PRK10880 adenine DNA glycosyla 71.6 2.8 6.1E-05 45.5 2.6 24 555-578 106-129 (350)
161 cd01129 PulE-GspE PulE/GspE Th 71.5 2 4.4E-05 44.6 1.5 27 87-113 71-97 (264)
162 TIGR02524 dot_icm_DotB Dot/Icm 71.4 2 4.4E-05 46.7 1.5 26 89-114 127-152 (358)
163 PF01695 IstB_IS21: IstB-like 71.4 2.6 5.7E-05 41.1 2.2 21 95-115 46-66 (178)
164 smart00053 DYNc Dynamin, GTPas 71.0 13 0.00028 38.3 7.2 52 184-245 86-137 (240)
165 PRK04328 hypothetical protein; 70.8 7.4 0.00016 39.9 5.4 50 85-147 9-61 (249)
166 PTZ00112 origin recognition co 70.6 1.6 3.6E-05 52.4 0.6 20 94-113 779-798 (1164)
167 PRK12766 50S ribosomal protein 70.4 3.6 7.8E-05 42.0 2.9 22 585-606 32-54 (232)
168 COG0177 Nth Predicted EndoIII- 69.8 3.1 6.8E-05 42.0 2.3 55 554-609 105-167 (211)
169 TIGR03015 pepcterm_ATPase puta 69.8 3 6.5E-05 42.5 2.3 24 90-113 37-60 (269)
170 KOG1857 Transcription accessor 69.6 1.6 3.4E-05 48.6 0.2 76 528-604 28-110 (623)
171 PRK07279 dnaE DNA polymerase I 69.4 4.7 0.0001 49.6 4.1 43 560-607 752-798 (1034)
172 PRK09183 transposase/IS protei 69.0 2.8 6.1E-05 43.4 1.9 44 66-114 77-120 (259)
173 PRK06921 hypothetical protein; 68.7 3.4 7.3E-05 43.1 2.4 32 83-114 101-135 (266)
174 PRK00024 hypothetical protein; 68.6 5.5 0.00012 40.6 3.8 59 549-609 57-117 (224)
175 COG1948 MUS81 ERCC4-type nucle 68.4 5.1 0.00011 41.5 3.5 45 560-604 184-230 (254)
176 TIGR00575 dnlj DNA ligase, NAD 68.1 3.6 7.9E-05 48.3 2.7 47 551-598 523-569 (652)
177 TIGR01083 nth endonuclease III 67.8 3.7 7.9E-05 40.5 2.3 23 556-578 104-126 (191)
178 PF01935 DUF87: Domain of unkn 67.8 1.8 3.9E-05 43.3 0.1 49 263-312 164-212 (229)
179 COG2003 RadC DNA repair protei 67.7 7.7 0.00017 39.4 4.6 51 542-592 48-110 (224)
180 smart00279 HhH2 Helix-hairpin- 67.4 4.5 9.7E-05 29.2 2.1 18 560-577 18-35 (36)
181 PRK07758 hypothetical protein; 67.0 5.7 0.00012 35.0 3.0 35 549-583 58-92 (95)
182 cd00008 53EXOc 5'-3' exonuclea 66.7 6.3 0.00014 40.4 3.9 47 557-610 182-229 (240)
183 TIGR02782 TrbB_P P-type conjug 66.7 2.8 6.1E-05 44.4 1.3 29 84-113 121-149 (299)
184 PF12846 AAA_10: AAA-like doma 66.5 2 4.4E-05 43.9 0.2 19 96-114 1-19 (304)
185 TIGR01242 26Sp45 26S proteasom 66.2 6.8 0.00015 42.4 4.3 51 63-113 118-173 (364)
186 TIGR01259 comE comEA protein. 66.2 4.6 9.9E-05 37.1 2.5 24 554-577 94-117 (120)
187 PF13086 AAA_11: AAA domain; P 66.1 2.7 6E-05 41.0 1.1 26 88-114 10-35 (236)
188 TIGR00575 dnlj DNA ligase, NAD 65.2 8 0.00017 45.5 4.8 51 554-606 462-516 (652)
189 PF05970 PIF1: PIF1-like helic 65.2 3.4 7.4E-05 44.9 1.7 37 73-113 3-39 (364)
190 TIGR03252 uncharacterized HhH- 65.2 5 0.00011 39.4 2.6 37 557-593 114-167 (177)
191 PRK08097 ligB NAD-dependent DN 64.9 3.2 7E-05 47.7 1.5 44 553-597 515-558 (562)
192 cd00056 ENDO3c endonuclease II 64.9 5.4 0.00012 37.6 2.8 25 554-578 79-103 (158)
193 PRK13482 DNA integrity scannin 64.5 8.1 0.00018 41.9 4.3 26 552-577 313-338 (352)
194 KOG2543 Origin recognition com 64.1 2.8 6.1E-05 45.8 0.7 37 98-150 32-68 (438)
195 PF00004 AAA: ATPase family as 64.1 3 6.5E-05 37.1 0.8 15 99-113 1-15 (132)
196 PRK12402 replication factor C 63.2 4.4 9.5E-05 42.7 2.0 21 93-113 33-53 (337)
197 PHA02544 44 clamp loader, smal 62.9 4.2 9.1E-05 42.7 1.8 21 93-113 39-60 (316)
198 PF00448 SRP54: SRP54-type pro 62.4 2.6 5.6E-05 41.9 0.1 16 98-113 3-18 (196)
199 PF13191 AAA_16: AAA ATPase do 62.4 1.9 4.1E-05 41.0 -0.9 22 92-113 20-41 (185)
200 PRK00076 recR recombination pr 62.3 5.8 0.00013 39.6 2.5 24 558-581 11-34 (196)
201 PF01418 HTH_6: Helix-turn-hel 62.3 12 0.00027 31.2 4.2 41 565-607 16-57 (77)
202 PF13207 AAA_17: AAA domain; P 62.1 3.6 7.8E-05 36.5 1.0 15 98-112 1-15 (121)
203 TIGR00615 recR recombination p 61.6 6.2 0.00013 39.4 2.6 24 558-581 11-34 (195)
204 smart00478 ENDO3c endonuclease 61.4 6.1 0.00013 36.9 2.4 23 556-578 70-92 (149)
205 PRK00558 uvrC excinuclease ABC 61.2 5.7 0.00012 46.2 2.6 51 557-607 542-594 (598)
206 cd01130 VirB11-like_ATPase Typ 60.6 4.4 9.5E-05 39.5 1.4 29 84-113 14-42 (186)
207 PRK13833 conjugal transfer pro 60.6 4.1 8.9E-05 43.8 1.2 27 86-113 135-161 (323)
208 PF13479 AAA_24: AAA domain 60.6 4 8.6E-05 40.8 1.1 18 96-113 3-20 (213)
209 PTZ00454 26S protease regulato 60.5 6.2 0.00013 43.6 2.6 52 62-113 140-196 (398)
210 PF13671 AAA_33: AAA domain; P 60.1 3.7 8.1E-05 37.4 0.7 14 99-112 2-15 (143)
211 COG4962 CpaF Flp pilus assembl 59.9 4.7 0.0001 43.5 1.5 28 85-113 163-190 (355)
212 PHA00729 NTP-binding motif con 59.9 7.4 0.00016 39.7 2.8 30 84-113 5-34 (226)
213 PRK14670 uvrC excinuclease ABC 59.4 12 0.00027 43.2 4.9 47 557-607 513-565 (574)
214 TIGR03877 thermo_KaiC_1 KaiC d 59.3 16 0.00035 37.0 5.3 49 86-147 8-59 (237)
215 PRK06547 hypothetical protein; 59.1 8 0.00017 37.6 2.9 29 84-112 3-31 (172)
216 cd00080 HhH2_motif Helix-hairp 59.0 7.2 0.00016 32.7 2.2 29 558-593 22-50 (75)
217 COG0587 DnaE DNA polymerase II 58.8 12 0.00026 46.6 4.8 46 560-607 825-874 (1139)
218 COG0322 UvrC Nuclease subunit 58.7 13 0.00028 43.1 4.9 45 558-606 530-579 (581)
219 PRK03992 proteasome-activating 58.4 3.4 7.4E-05 45.4 0.2 50 64-113 128-182 (389)
220 PF03215 Rad17: Rad17 cell cyc 58.3 5.6 0.00012 45.5 1.8 31 83-113 30-62 (519)
221 PRK13844 recombination protein 58.2 7.5 0.00016 38.9 2.5 24 558-581 15-38 (200)
222 PF00580 UvrD-helicase: UvrD/R 58.1 3.8 8.2E-05 42.2 0.4 20 95-114 12-31 (315)
223 TIGR02655 circ_KaiC circadian 58.1 15 0.00032 41.6 5.2 48 86-146 8-59 (484)
224 PF02562 PhoH: PhoH-like prote 58.0 6.4 0.00014 39.6 2.0 19 95-113 18-36 (205)
225 PRK14350 ligA NAD-dependent DN 57.7 5.4 0.00012 47.0 1.6 43 555-598 538-580 (669)
226 PRK14669 uvrC excinuclease ABC 57.7 14 0.00031 43.2 5.0 49 557-606 551-600 (624)
227 PF06309 Torsin: Torsin; Inte 57.6 4.6 9.9E-05 37.6 0.8 26 98-133 55-80 (127)
228 PRK14672 uvrC excinuclease ABC 57.6 16 0.00034 43.1 5.3 48 558-609 608-661 (691)
229 COG0353 RecR Recombinational D 57.4 6.1 0.00013 39.3 1.7 21 558-578 12-32 (198)
230 PRK14351 ligA NAD-dependent DN 57.3 6.8 0.00015 46.4 2.4 47 551-598 553-599 (689)
231 PRK01229 N-glycosylase/DNA lya 57.3 7 0.00015 39.4 2.1 23 555-577 115-138 (208)
232 smart00487 DEXDc DEAD-like hel 56.8 6 0.00013 36.9 1.5 24 90-114 19-42 (201)
233 TIGR00588 ogg 8-oxoguanine DNA 56.5 7.2 0.00016 41.6 2.2 21 557-577 219-239 (310)
234 COG1222 RPT1 ATP-dependent 26S 56.1 4.9 0.00011 43.7 0.9 124 13-140 92-246 (406)
235 PRK13900 type IV secretion sys 55.9 5.9 0.00013 42.7 1.4 29 84-113 149-177 (332)
236 PRK10308 3-methyl-adenine DNA 55.8 8 0.00017 40.8 2.4 21 557-577 206-226 (283)
237 PLN00020 ribulose bisphosphate 54.9 9.6 0.00021 41.9 2.9 51 62-112 110-164 (413)
238 PRK14670 uvrC excinuclease ABC 54.8 9.7 0.00021 44.1 3.0 54 528-581 514-569 (574)
239 TIGR02903 spore_lon_C ATP-depe 54.3 8.2 0.00018 45.1 2.4 43 63-113 150-192 (615)
240 COG1948 MUS81 ERCC4-type nucle 54.1 7.8 0.00017 40.2 1.9 26 552-577 208-233 (254)
241 PF00910 RNA_helicase: RNA hel 54.0 3.7 7.9E-05 36.4 -0.4 26 99-134 1-26 (107)
242 PLN03025 replication factor C 53.8 8.1 0.00018 41.0 2.1 21 94-114 32-52 (319)
243 PF07724 AAA_2: AAA domain (Cd 53.6 5.7 0.00012 38.5 0.8 16 97-112 4-19 (171)
244 cd00268 DEADc DEAD-box helicas 53.6 8.3 0.00018 37.4 2.0 23 88-112 30-52 (203)
245 TIGR00635 ruvB Holliday juncti 53.6 8.7 0.00019 40.1 2.3 39 74-113 7-47 (305)
246 CHL00081 chlI Mg-protoporyphyr 53.1 4.4 9.5E-05 44.0 -0.1 45 61-113 11-55 (350)
247 TIGR00006 S-adenosyl-methyltra 52.9 7.7 0.00017 41.4 1.7 44 548-593 134-183 (305)
248 COG0272 Lig NAD-dependent DNA 52.6 10 0.00022 44.3 2.7 51 549-600 534-584 (667)
249 PRK12723 flagellar biosynthesi 52.6 11 0.00023 41.7 2.8 18 96-113 174-191 (388)
250 PF13238 AAA_18: AAA domain; P 52.1 6.1 0.00013 34.9 0.7 15 99-113 1-15 (129)
251 PTZ00361 26 proteosome regulat 52.1 15 0.00033 41.1 4.0 16 98-113 219-234 (438)
252 PF05496 RuvB_N: Holliday junc 52.0 16 0.00035 37.4 3.8 39 71-110 24-64 (233)
253 PF01580 FtsK_SpoIIIE: FtsK/Sp 51.8 4.5 9.8E-05 39.8 -0.2 16 98-113 40-55 (205)
254 PRK13851 type IV secretion sys 51.8 5.3 0.00011 43.3 0.3 29 84-113 151-179 (344)
255 PF11798 IMS_HHH: IMS family H 51.6 12 0.00027 26.1 2.0 16 559-574 12-27 (32)
256 PRK00050 16S rRNA m(4)C1402 me 51.6 8 0.00017 41.1 1.6 44 548-593 132-181 (296)
257 COG0275 Predicted S-adenosylme 51.3 10 0.00022 40.4 2.2 43 549-593 139-187 (314)
258 PF01795 Methyltransf_5: MraW 51.2 4.9 0.00011 42.9 -0.1 45 547-593 134-184 (310)
259 PF00063 Myosin_head: Myosin h 50.8 10 0.00022 44.8 2.5 36 77-113 66-102 (689)
260 PF03934 T2SK: Type II secreti 50.7 18 0.0004 37.6 4.2 46 559-604 98-172 (280)
261 TIGR03499 FlhF flagellar biosy 50.5 5.8 0.00013 41.6 0.4 18 97-114 195-212 (282)
262 TIGR02237 recomb_radB DNA repa 50.3 9.6 0.00021 37.4 1.9 24 89-112 2-28 (209)
263 KOG0335 ATP-dependent RNA heli 50.0 11 0.00023 42.6 2.3 59 91-151 108-189 (482)
264 TIGR02881 spore_V_K stage V sp 49.8 6.2 0.00013 40.6 0.4 18 96-113 42-59 (261)
265 PRK11192 ATP-dependent RNA hel 49.6 9.4 0.0002 42.1 1.8 24 87-112 31-54 (434)
266 COG2231 Uncharacterized protei 49.5 12 0.00026 37.6 2.3 53 556-610 113-174 (215)
267 PRK13764 ATPase; Provisional 49.3 7.9 0.00017 45.0 1.2 21 94-114 255-275 (602)
268 PF07728 AAA_5: AAA domain (dy 49.1 7.2 0.00016 35.6 0.7 15 99-113 2-16 (139)
269 PRK04837 ATP-dependent RNA hel 49.1 9.4 0.0002 42.1 1.7 24 87-112 38-61 (423)
270 PRK11776 ATP-dependent RNA hel 48.9 12 0.00026 41.7 2.6 24 87-112 34-57 (460)
271 COG1223 Predicted ATPase (AAA+ 48.9 6.9 0.00015 41.0 0.6 17 96-112 151-167 (368)
272 TIGR01448 recD_rel helicase, p 48.7 21 0.00045 42.6 4.6 50 557-607 116-166 (720)
273 PRK14961 DNA polymerase III su 48.4 10 0.00022 41.2 1.8 19 95-113 37-55 (363)
274 COG0467 RAD55 RecA-superfamily 47.9 28 0.0006 35.7 4.9 47 88-147 12-61 (260)
275 PF00416 Ribosomal_S13: Riboso 47.8 22 0.00049 31.8 3.7 32 558-591 15-46 (107)
276 PRK13342 recombination factor 47.6 11 0.00024 41.6 2.0 27 87-113 27-53 (413)
277 PRK00440 rfc replication facto 46.9 12 0.00026 39.0 2.0 21 93-113 35-55 (319)
278 PTZ00424 helicase 45; Provisio 46.7 13 0.00029 40.2 2.5 26 86-113 57-82 (401)
279 TIGR01954 nusA_Cterm_rpt trans 46.2 21 0.00045 26.8 2.7 25 552-576 20-44 (50)
280 PRK10536 hypothetical protein; 46.1 12 0.00025 39.1 1.7 42 62-113 50-91 (262)
281 COG1419 FlhF Flagellar GTP-bin 46.0 12 0.00027 41.2 2.0 36 78-113 181-220 (407)
282 PRK14668 uvrC excinuclease ABC 45.9 29 0.00063 40.3 5.1 46 557-606 524-575 (577)
283 TIGR03070 couple_hipB transcri 45.8 31 0.00067 26.0 3.8 36 569-607 2-38 (58)
284 PRK10590 ATP-dependent RNA hel 45.5 12 0.00027 41.7 2.0 24 87-112 31-54 (456)
285 COG1623 Predicted nucleic-acid 45.5 11 0.00024 39.7 1.5 28 549-576 316-343 (349)
286 PRK04195 replication factor C 45.4 9.9 0.00022 42.9 1.2 30 84-113 26-56 (482)
287 PF06414 Zeta_toxin: Zeta toxi 45.2 8 0.00017 38.1 0.4 20 94-113 13-32 (199)
288 PF06745 KaiC: KaiC; InterPro 45.0 19 0.0004 35.9 3.0 46 87-145 7-56 (226)
289 PRK14722 flhF flagellar biosyn 44.9 8.2 0.00018 42.4 0.4 18 96-113 137-154 (374)
290 PF11372 DUF3173: Domain of un 44.7 19 0.00042 29.1 2.4 26 553-579 2-27 (59)
291 TIGR02788 VirB11 P-type DNA tr 44.7 14 0.00029 39.3 2.1 29 84-113 133-161 (308)
292 COG1219 ClpX ATP-dependent pro 44.5 10 0.00022 40.9 1.0 16 97-112 98-113 (408)
293 PRK11331 5-methylcytosine-spec 44.4 15 0.00032 41.4 2.3 32 297-328 319-352 (459)
294 PRK10416 signal recognition pa 44.3 16 0.00035 39.2 2.5 18 96-113 114-131 (318)
295 cd01124 KaiC KaiC is a circadi 44.3 23 0.00049 33.8 3.4 14 99-112 2-15 (187)
296 PF12775 AAA_7: P-loop contain 44.2 12 0.00025 39.2 1.4 26 87-113 25-50 (272)
297 PRK06851 hypothetical protein; 44.1 18 0.0004 39.5 3.0 51 86-150 20-70 (367)
298 TIGR01448 recD_rel helicase, p 44.1 26 0.00056 41.8 4.4 43 563-608 89-137 (720)
299 TIGR03819 heli_sec_ATPase heli 44.0 49 0.0011 35.8 6.2 30 83-113 166-195 (340)
300 TIGR02902 spore_lonB ATP-depen 43.9 14 0.0003 42.4 2.1 41 63-111 61-101 (531)
301 PRK00254 ski2-like helicase; P 43.6 19 0.00041 42.8 3.2 47 559-607 646-697 (720)
302 PRK06067 flagellar accessory p 43.4 17 0.00036 36.6 2.4 30 83-112 9-41 (234)
303 PF02456 Adeno_IVa2: Adenoviru 43.4 8.1 0.00018 41.3 0.1 64 98-161 89-187 (369)
304 cd01123 Rad51_DMC1_radA Rad51_ 43.2 17 0.00038 36.2 2.5 30 84-113 4-36 (235)
305 PRK14671 uvrC excinuclease ABC 43.1 24 0.00052 41.4 3.9 21 557-577 568-588 (621)
306 smart00242 MYSc Myosin. Large 42.9 18 0.0004 42.7 3.0 36 77-113 73-109 (677)
307 PRK00254 ski2-like helicase; P 42.9 28 0.00061 41.4 4.5 26 552-577 672-697 (720)
308 PHA01976 helix-turn-helix prot 42.2 36 0.00078 27.1 3.7 35 570-607 3-38 (67)
309 PRK09482 flap endonuclease-lik 42.2 27 0.00058 36.4 3.7 29 558-593 182-210 (256)
310 TIGR02640 gas_vesic_GvpN gas v 42.0 21 0.00045 36.9 2.9 28 83-112 10-37 (262)
311 TIGR03158 cas3_cyano CRISPR-as 42.0 19 0.00042 39.0 2.7 25 89-113 7-31 (357)
312 PF00735 Septin: Septin; Inte 41.9 11 0.00023 39.7 0.7 19 93-111 1-19 (281)
313 PF06048 DUF927: Domain of unk 41.9 18 0.00038 38.0 2.3 29 84-113 182-210 (286)
314 PRK09361 radB DNA repair and r 41.7 22 0.00047 35.4 2.9 30 84-113 8-40 (225)
315 PF05729 NACHT: NACHT domain 41.6 10 0.00022 34.9 0.5 16 98-113 2-17 (166)
316 PRK07956 ligA NAD-dependent DN 41.6 32 0.00068 40.7 4.6 27 554-580 475-501 (665)
317 PRK09302 circadian clock prote 41.5 34 0.00073 38.9 4.7 29 84-112 16-47 (509)
318 TIGR00348 hsdR type I site-spe 41.5 15 0.00033 43.3 2.0 32 83-115 246-282 (667)
319 PRK04301 radA DNA repair and r 41.4 39 0.00084 35.9 4.9 23 555-577 36-58 (317)
320 PRK14976 5'-3' exonuclease; Pr 41.3 22 0.00048 37.4 3.0 30 557-593 190-219 (281)
321 cd01383 MYSc_type_VIII Myosin 41.1 23 0.00049 42.0 3.3 36 77-113 73-109 (677)
322 PRK14962 DNA polymerase III su 41.0 14 0.0003 41.8 1.5 41 65-113 12-53 (472)
323 TIGR02030 BchI-ChlI magnesium 40.9 12 0.00026 40.4 1.0 42 64-113 1-42 (337)
324 KOG0739 AAA+-type ATPase [Post 40.8 13 0.00029 39.6 1.2 49 64-112 130-182 (439)
325 smart00763 AAA_PrkA PrkA AAA d 40.7 26 0.00057 38.2 3.5 46 62-112 44-94 (361)
326 PF13173 AAA_14: AAA domain 40.7 10 0.00022 34.4 0.3 16 98-113 4-19 (128)
327 PRK14974 cell division protein 40.5 26 0.00056 38.0 3.4 18 96-113 140-157 (336)
328 cd01394 radB RadB. The archaea 40.4 20 0.00043 35.5 2.4 27 86-112 6-35 (218)
329 COG5241 RAD10 Nucleotide excis 40.4 17 0.00038 35.8 1.8 28 552-579 193-220 (224)
330 cd01384 MYSc_type_XI Myosin mo 40.1 22 0.00049 42.0 3.1 36 77-113 69-105 (674)
331 TIGR01359 UMP_CMP_kin_fam UMP- 40.1 13 0.00028 35.6 0.9 14 99-112 2-15 (183)
332 cd01381 MYSc_type_VII Myosin m 40.0 24 0.00052 41.8 3.3 36 77-113 67-103 (671)
333 cd00124 MYSc Myosin motor doma 40.0 22 0.00047 42.1 2.9 36 77-113 67-103 (679)
334 PRK02515 psbU photosystem II c 40.0 24 0.00053 33.0 2.6 43 539-581 68-110 (132)
335 PF12836 HHH_3: Helix-hairpin- 39.8 23 0.0005 28.6 2.2 37 539-575 21-61 (65)
336 COG0122 AlkA 3-methyladenine D 39.6 20 0.00043 37.9 2.3 34 557-591 197-230 (285)
337 PRK11448 hsdR type I restricti 39.5 14 0.00029 46.3 1.2 31 84-115 422-452 (1123)
338 TIGR02655 circ_KaiC circadian 39.4 43 0.00094 37.9 5.2 53 83-148 247-302 (484)
339 TIGR00596 rad1 DNA repair prot 39.4 32 0.00069 41.6 4.2 32 555-593 754-785 (814)
340 cd01385 MYSc_type_IX Myosin mo 39.3 23 0.0005 42.1 3.0 36 77-113 75-111 (692)
341 PF13555 AAA_29: P-loop contai 39.2 10 0.00022 30.8 0.1 15 99-113 26-40 (62)
342 PRK00131 aroK shikimate kinase 38.9 15 0.00032 34.4 1.1 16 97-112 5-20 (175)
343 KOG1514 Origin recognition com 38.8 27 0.00058 41.2 3.3 49 282-331 573-630 (767)
344 PF12482 DUF3701: Phage integr 38.8 29 0.00064 30.7 2.8 37 545-581 37-73 (96)
345 cd01377 MYSc_type_II Myosin mo 38.6 23 0.0005 42.0 2.9 36 77-113 72-108 (693)
346 cd01120 RecA-like_NTPases RecA 38.6 14 0.0003 33.7 0.9 15 99-113 2-16 (165)
347 cd01378 MYSc_type_I Myosin mot 38.5 25 0.00055 41.6 3.2 36 77-113 67-103 (674)
348 TIGR00376 DNA helicase, putati 38.4 17 0.00037 42.7 1.8 17 98-114 175-191 (637)
349 cd01126 TraG_VirD4 The TraG/Tr 38.4 18 0.0004 39.3 1.9 16 99-114 2-17 (384)
350 PRK10865 protein disaggregatio 38.4 18 0.0004 43.9 2.1 44 65-113 566-615 (857)
351 cd02021 GntK Gluconate kinase 38.3 14 0.00031 34.1 0.9 14 99-112 2-15 (150)
352 KOG1857 Transcription accessor 38.3 18 0.0004 40.6 1.8 48 551-599 154-213 (623)
353 TIGR01618 phage_P_loop phage n 38.3 13 0.00028 37.8 0.7 19 96-114 12-30 (220)
354 cd01382 MYSc_type_VI Myosin mo 38.2 23 0.0005 42.2 2.8 36 77-113 72-108 (717)
355 COG1201 Lhr Lhr-like helicases 38.1 23 0.0005 42.6 2.8 36 87-133 30-65 (814)
356 TIGR01817 nifA Nif-specific re 38.0 19 0.00041 41.2 2.0 45 61-111 190-234 (534)
357 PHA02244 ATPase-like protein 38.0 29 0.00063 38.1 3.3 26 86-113 111-136 (383)
358 PF03118 RNA_pol_A_CTD: Bacter 37.9 27 0.00058 28.6 2.3 26 552-577 38-63 (66)
359 COG1194 MutY A/G-specific DNA 37.9 21 0.00047 38.5 2.2 30 552-581 107-136 (342)
360 cd01387 MYSc_type_XV Myosin mo 37.9 27 0.00058 41.4 3.3 36 77-113 68-104 (677)
361 COG1126 GlnQ ABC-type polar am 37.9 12 0.00026 38.2 0.3 15 99-113 31-45 (240)
362 PF10236 DAP3: Mitochondrial r 37.6 19 0.0004 38.4 1.8 22 92-113 19-40 (309)
363 PRK00771 signal recognition pa 37.6 33 0.00072 38.5 3.8 32 543-574 362-393 (437)
364 CHL00137 rps13 ribosomal prote 37.5 43 0.00092 31.0 3.9 31 559-591 18-48 (122)
365 COG2256 MGS1 ATPase related to 37.5 20 0.00044 39.6 2.0 40 66-110 23-62 (436)
366 COG1125 OpuBA ABC-type proline 37.3 12 0.00026 39.2 0.2 14 100-113 31-44 (309)
367 PRK13766 Hef nuclease; Provisi 37.1 46 0.001 39.7 5.2 44 560-606 717-765 (773)
368 PHA02624 large T antigen; Prov 37.1 26 0.00055 40.9 2.8 28 85-112 418-447 (647)
369 cd01380 MYSc_type_V Myosin mot 37.0 26 0.00056 41.6 2.9 36 77-113 67-103 (691)
370 cd07377 WHTH_GntR Winged helix 36.8 39 0.00084 26.2 3.1 42 568-609 8-50 (66)
371 PRK07261 topology modulation p 36.8 16 0.00034 35.3 0.9 14 99-112 3-16 (171)
372 KOG0340 ATP-dependent RNA heli 36.6 26 0.00057 38.2 2.6 41 86-128 36-82 (442)
373 PRK13341 recombination factor 36.5 22 0.00048 42.4 2.3 21 93-113 49-69 (725)
374 TIGR03238 dnd_assoc_3 dnd syst 36.5 22 0.00047 40.4 2.1 31 84-114 14-50 (504)
375 cd01850 CDC_Septin CDC/Septin. 36.5 15 0.00032 38.5 0.7 21 93-113 1-21 (276)
376 TIGR03878 thermo_KaiC_2 KaiC d 36.2 46 0.001 34.3 4.4 37 96-145 36-72 (259)
377 TIGR03880 KaiC_arch_3 KaiC dom 36.1 59 0.0013 32.3 5.0 26 87-112 4-32 (224)
378 PRK04537 ATP-dependent RNA hel 36.1 20 0.00044 41.4 1.9 25 87-113 39-63 (572)
379 PRK08118 topology modulation p 36.0 16 0.00035 35.1 0.9 13 99-111 4-16 (167)
380 COG3598 RepA RecA-family ATPas 35.8 25 0.00054 38.0 2.3 82 66-154 60-143 (402)
381 PRK06696 uridine kinase; Valid 35.8 33 0.00071 34.4 3.1 29 84-112 7-38 (223)
382 TIGR03631 bact_S13 30S ribosom 35.6 42 0.0009 30.6 3.4 32 558-591 15-46 (113)
383 PF04466 Terminase_3: Phage te 35.5 12 0.00027 41.0 0.0 17 99-115 5-21 (387)
384 PF04994 TfoX_C: TfoX C-termin 35.5 25 0.00055 30.0 1.9 32 558-595 3-34 (81)
385 PF13476 AAA_23: AAA domain; P 35.5 14 0.00031 35.2 0.4 17 97-113 20-36 (202)
386 PRK14667 uvrC excinuclease ABC 35.5 28 0.00061 40.3 2.8 53 524-577 510-564 (567)
387 PRK00080 ruvB Holliday junctio 35.3 22 0.00047 37.9 1.8 17 97-113 52-68 (328)
388 TIGR01313 therm_gnt_kin carboh 35.3 14 0.00031 34.7 0.4 14 99-112 1-14 (163)
389 cd01428 ADK Adenylate kinase ( 35.3 17 0.00037 34.9 0.9 14 99-112 2-15 (194)
390 PF00931 NB-ARC: NB-ARC domain 35.2 36 0.00077 34.8 3.4 30 83-112 4-35 (287)
391 TIGR00614 recQ_fam ATP-depende 35.1 29 0.00062 39.0 2.8 25 87-113 19-43 (470)
392 PRK02362 ski2-like helicase; P 34.8 50 0.0011 39.4 4.9 46 556-607 650-702 (737)
393 COG3829 RocR Transcriptional r 34.8 24 0.00052 40.4 2.1 44 61-110 239-282 (560)
394 PF04545 Sigma70_r4: Sigma-70, 34.8 1.1E+02 0.0023 23.0 5.1 41 569-612 7-48 (50)
395 cd01393 recA_like RecA is a b 34.7 32 0.00069 34.1 2.8 30 84-113 4-36 (226)
396 PRK05179 rpsM 30S ribosomal pr 34.7 51 0.0011 30.5 3.9 31 559-591 18-48 (122)
397 PRK05703 flhF flagellar biosyn 34.5 15 0.00032 41.0 0.4 18 97-114 222-239 (424)
398 CHL00181 cbbX CbbX; Provisiona 34.5 17 0.00037 38.2 0.9 15 99-113 62-76 (287)
399 KOG1803 DNA helicase [Replicat 34.2 20 0.00042 41.5 1.3 18 97-114 202-219 (649)
400 PRK14964 DNA polymerase III su 33.9 19 0.00041 41.0 1.1 21 92-112 30-51 (491)
401 cd00464 SK Shikimate kinase (S 33.8 17 0.00037 33.4 0.6 15 98-112 1-15 (154)
402 PRK05342 clpX ATP-dependent pr 33.5 24 0.00052 39.2 1.8 17 96-112 108-124 (412)
403 COG0606 Predicted ATPase with 33.5 15 0.00034 41.3 0.3 30 99-131 201-231 (490)
404 smart00475 53EXOc 5'-3' exonuc 33.5 34 0.00075 35.6 2.9 29 558-593 186-214 (259)
405 PF00633 HHH: Helix-hairpin-he 33.4 48 0.001 22.9 2.7 21 586-606 8-29 (30)
406 PRK11634 ATP-dependent RNA hel 33.4 29 0.00063 40.7 2.6 25 87-113 36-60 (629)
407 COG5019 CDC3 Septin family pro 33.3 26 0.00056 38.2 2.0 19 93-111 20-38 (373)
408 KOG0926 DEAH-box RNA helicase 33.3 23 0.0005 42.3 1.7 19 95-113 270-288 (1172)
409 COG0322 UvrC Nuclease subunit 33.3 34 0.00074 39.7 3.1 54 523-577 525-580 (581)
410 COG0419 SbcC ATPase involved i 33.1 35 0.00076 41.8 3.3 48 96-146 25-79 (908)
411 TIGR00194 uvrC excinuclease AB 33.1 39 0.00084 39.3 3.5 30 557-593 540-569 (574)
412 PRK14351 ligA NAD-dependent DN 33.0 63 0.0014 38.4 5.2 65 542-606 506-578 (689)
413 PF07693 KAP_NTPase: KAP famil 32.8 26 0.00057 36.6 2.0 34 80-113 4-37 (325)
414 PHA02653 RNA helicase NPH-II; 32.7 33 0.00072 40.6 2.9 24 87-112 172-195 (675)
415 PRK00558 uvrC excinuclease ABC 32.7 35 0.00075 39.9 3.0 51 528-578 543-595 (598)
416 PLN00206 DEAD-box ATP-dependen 32.3 35 0.00076 38.9 3.0 24 87-112 151-174 (518)
417 TIGR02322 phosphon_PhnN phosph 32.3 17 0.00036 34.8 0.3 16 98-113 3-18 (179)
418 TIGR03881 KaiC_arch_4 KaiC dom 32.2 33 0.00072 34.2 2.5 28 86-113 7-37 (229)
419 PRK14531 adenylate kinase; Pro 32.2 21 0.00045 34.6 1.0 15 98-112 4-18 (183)
420 TIGR00618 sbcc exonuclease Sbc 32.2 34 0.00075 42.5 3.1 17 97-113 27-43 (1042)
421 COG2607 Predicted ATPase (AAA+ 32.1 38 0.00082 35.3 2.8 51 88-156 76-127 (287)
422 PF13730 HTH_36: Helix-turn-he 31.9 78 0.0017 24.1 4.0 40 570-609 10-50 (55)
423 TIGR01243 CDC48 AAA family ATP 31.7 20 0.00044 42.7 0.9 17 97-113 213-229 (733)
424 TIGR02880 cbbX_cfxQ probable R 31.7 20 0.00044 37.6 0.8 15 98-112 60-74 (284)
425 PRK06995 flhF flagellar biosyn 31.5 17 0.00037 41.2 0.3 17 97-113 257-273 (484)
426 cd01386 MYSc_type_XVIII Myosin 31.5 35 0.00075 41.1 2.8 36 77-113 67-103 (767)
427 TIGR02236 recomb_radA DNA repa 31.4 37 0.00081 35.7 2.8 29 84-112 80-111 (310)
428 cd00820 PEPCK_HprK Phosphoenol 31.4 19 0.00041 32.5 0.5 17 97-113 16-32 (107)
429 PRK09270 nucleoside triphospha 31.3 51 0.0011 33.1 3.7 37 77-113 13-50 (229)
430 PRK06217 hypothetical protein; 31.0 22 0.00047 34.4 0.9 13 99-111 4-16 (183)
431 TIGR03629 arch_S13P archaeal r 30.9 54 0.0012 31.2 3.5 39 559-604 22-60 (144)
432 PRK06851 hypothetical protein; 30.8 39 0.00085 37.0 2.9 46 87-146 205-250 (367)
433 PRK01172 ski2-like helicase; P 30.7 69 0.0015 37.7 5.1 44 558-607 612-664 (674)
434 TIGR01241 FtsH_fam ATP-depende 30.6 22 0.00047 40.3 0.9 49 63-113 51-105 (495)
435 PRK08233 hypothetical protein; 30.5 23 0.00049 33.6 0.9 15 98-112 5-19 (182)
436 PRK01297 ATP-dependent RNA hel 30.4 34 0.00073 38.4 2.4 26 86-113 116-141 (475)
437 cd01127 TrwB Bacterial conjuga 30.4 17 0.00038 40.1 0.1 18 96-113 42-59 (410)
438 COG0258 Exo 5'-3' exonuclease 30.3 54 0.0012 34.8 3.8 29 558-593 198-226 (310)
439 KOG0729 26S proteasome regulat 30.3 26 0.00057 36.9 1.3 41 98-138 213-270 (435)
440 KOG0652 26S proteasome regulat 30.3 24 0.00053 37.0 1.1 14 98-111 207-220 (424)
441 PRK14532 adenylate kinase; Pro 30.2 25 0.00055 33.9 1.2 15 98-112 2-16 (188)
442 PF14229 DUF4332: Domain of un 30.2 1E+02 0.0022 28.2 5.2 33 555-593 50-82 (122)
443 TIGR01360 aden_kin_iso1 adenyl 30.2 23 0.00051 33.7 1.0 16 98-113 5-20 (188)
444 PRK10917 ATP-dependent DNA hel 30.1 38 0.00083 40.1 2.9 21 93-113 279-299 (681)
445 KOG3859 Septins (P-loop GTPase 30.0 25 0.00054 37.1 1.1 24 90-113 36-59 (406)
446 KOG0953 Mitochondrial RNA heli 29.9 24 0.00053 40.5 1.1 39 98-136 193-237 (700)
447 COG0099 RpsM Ribosomal protein 29.8 34 0.00073 31.6 1.8 20 559-578 18-37 (121)
448 CHL00195 ycf46 Ycf46; Provisio 29.7 21 0.00046 40.6 0.6 16 97-112 260-275 (489)
449 PRK14666 uvrC excinuclease ABC 29.7 40 0.00087 39.9 2.9 41 540-580 649-691 (694)
450 PRK01172 ski2-like helicase; P 29.5 35 0.00077 40.1 2.5 38 575-613 599-637 (674)
451 cd02020 CMPK Cytidine monophos 29.5 25 0.00053 31.9 0.9 14 99-112 2-15 (147)
452 KOG0726 26S proteasome regulat 29.5 26 0.00057 37.3 1.2 43 98-140 221-280 (440)
453 COG0630 VirB11 Type IV secreto 29.4 18 0.00039 38.6 0.0 18 96-113 143-160 (312)
454 PF08477 Miro: Miro-like prote 29.3 27 0.00058 30.5 1.1 15 99-113 2-16 (119)
455 PRK04053 rps13p 30S ribosomal 29.3 70 0.0015 30.6 4.0 40 558-604 25-64 (149)
456 PTZ00134 40S ribosomal protein 29.3 53 0.0011 31.6 3.2 21 558-578 30-50 (154)
457 PRK15429 formate hydrogenlyase 29.3 29 0.00062 41.1 1.6 42 64-111 373-414 (686)
458 PRK14668 uvrC excinuclease ABC 29.3 39 0.00084 39.3 2.7 26 552-577 551-576 (577)
459 PRK14960 DNA polymerase III su 29.2 27 0.00059 41.2 1.4 41 65-113 13-54 (702)
460 PRK06305 DNA polymerase III su 29.1 29 0.00063 39.0 1.6 41 65-113 15-56 (451)
461 PRK05580 primosome assembly pr 29.1 34 0.00074 40.5 2.2 19 96-114 162-180 (679)
462 PRK11034 clpA ATP-dependent Cl 29.0 42 0.0009 40.4 2.9 18 96-113 488-505 (758)
463 PHA01747 putative ATP-dependen 29.0 24 0.00052 38.7 0.9 31 83-113 177-207 (425)
464 PRK09111 DNA polymerase III su 28.9 26 0.00056 40.9 1.1 27 87-113 36-63 (598)
465 PRK11057 ATP-dependent DNA hel 28.9 39 0.00085 39.4 2.6 20 554-573 571-590 (607)
466 PRK06762 hypothetical protein; 28.8 27 0.00059 32.8 1.1 14 98-111 4-17 (166)
467 CHL00176 ftsH cell division pr 28.6 25 0.00053 41.4 0.9 17 97-113 217-233 (638)
468 COG1136 SalX ABC-type antimicr 28.6 19 0.00042 36.7 0.1 15 99-113 34-48 (226)
469 PF02534 T4SS-DNA_transf: Type 28.4 41 0.00088 37.5 2.6 18 97-114 45-62 (469)
470 TIGR00643 recG ATP-dependent D 28.3 42 0.0009 39.3 2.7 19 95-113 255-273 (630)
471 cd01379 MYSc_type_III Myosin m 28.3 39 0.00085 39.9 2.5 36 77-113 67-103 (653)
472 TIGR00231 small_GTP small GTP- 28.3 20 0.00043 31.8 0.1 16 98-113 3-18 (161)
473 TIGR02397 dnaX_nterm DNA polym 28.0 39 0.00084 35.9 2.2 23 91-113 30-53 (355)
474 TIGR01389 recQ ATP-dependent D 27.9 43 0.00093 38.8 2.8 26 86-113 20-45 (591)
475 KOG0727 26S proteasome regulat 27.8 60 0.0013 34.0 3.4 72 67-138 155-248 (408)
476 COG1813 Predicted transcriptio 27.7 60 0.0013 31.6 3.2 42 563-607 73-115 (165)
477 PF14532 Sigma54_activ_2: Sigm 27.7 28 0.0006 32.0 0.9 20 93-112 18-37 (138)
478 PRK10867 signal recognition pa 27.5 55 0.0012 36.7 3.4 60 542-607 365-424 (433)
479 PRK14951 DNA polymerase III su 27.4 30 0.00066 40.5 1.4 41 65-113 14-55 (618)
480 PF12774 AAA_6: Hydrolytic ATP 27.3 32 0.00069 35.2 1.4 38 98-135 34-82 (231)
481 cd02023 UMPK Uridine monophosp 27.3 21 0.00046 34.7 0.1 15 99-113 2-16 (198)
482 TIGR00064 ftsY signal recognit 27.2 27 0.00058 36.5 0.8 18 96-113 72-89 (272)
483 PRK14970 DNA polymerase III su 27.2 43 0.00093 36.1 2.4 28 86-113 28-56 (367)
484 KOG2875 8-oxoguanine DNA glyco 27.1 33 0.00072 36.1 1.5 18 558-575 218-235 (323)
485 TIGR03689 pup_AAA proteasome A 26.9 27 0.00058 40.0 0.8 15 98-112 218-232 (512)
486 PRK11889 flhF flagellar biosyn 26.8 23 0.0005 39.4 0.3 17 97-113 242-258 (436)
487 PF00485 PRK: Phosphoribulokin 26.7 27 0.00059 34.1 0.7 14 99-112 2-15 (194)
488 PRK04301 radA DNA repair and r 26.7 51 0.0011 35.0 2.9 29 84-112 87-118 (317)
489 TIGR02173 cyt_kin_arch cytidyl 26.7 29 0.00063 32.5 0.9 15 98-112 2-16 (171)
490 PRK03839 putative kinase; Prov 26.7 29 0.00062 33.3 0.9 14 99-112 3-16 (180)
491 PRK10820 DNA-binding transcrip 26.6 42 0.00092 38.4 2.3 45 62-112 199-243 (520)
492 PRK05896 DNA polymerase III su 26.5 27 0.00059 40.7 0.8 18 96-113 38-55 (605)
493 PRK12726 flagellar biosynthesi 26.5 24 0.00053 39.0 0.4 18 97-114 207-224 (407)
494 TIGR03263 guanyl_kin guanylate 26.4 32 0.0007 32.7 1.2 15 98-112 3-17 (180)
495 COG1555 ComEA DNA uptake prote 26.2 50 0.0011 31.5 2.4 24 554-577 123-146 (149)
496 TIGR01351 adk adenylate kinase 26.1 30 0.00065 34.2 0.9 14 99-112 2-15 (210)
497 PTZ00014 myosin-A; Provisional 26.1 51 0.0011 40.0 3.0 21 93-113 180-200 (821)
498 PF00025 Arf: ADP-ribosylation 26.1 49 0.0011 31.7 2.4 27 86-112 3-30 (175)
499 PRK14527 adenylate kinase; Pro 26.1 33 0.00071 33.3 1.2 16 97-112 7-22 (191)
500 TIGR02746 TraC-F-type type-IV 26.1 23 0.00049 42.5 0.1 18 96-113 430-447 (797)
No 1
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=2.7e-79 Score=696.27 Aligned_cols=349 Identities=28% Similarity=0.431 Sum_probs=312.7
Q ss_pred CCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhc
Q 035971 14 KKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFN 93 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~ 93 (614)
.||+|+|||||+++.|......+.|.-. + ....|.|.-......-.+.|+||+||+|++.|.+||+.+|.|+|+.|+.
T Consensus 49 ~NIqVivRcRp~n~~E~~~~s~~VVs~~-~-~~kEV~v~~~~~sk~~~k~ftFDkVFGpes~Q~d~Y~~~v~p~i~eVl~ 126 (1041)
T KOG0243|consen 49 VNIQVIVRCRPRNDRERKSKSSVVVSCD-G-IRKEVAVRQTIASKQIDKTFTFDKVFGPESQQEDLYDQAVSPIIKEVLE 126 (1041)
T ss_pred CceEEEEEeCCCCchhhhcCCCeEEecC-C-CcceEEEecccccccccceeecceeeCcchhHHHHHHHHHHHHHHHHhc
Confidence 6899999999999999888777766543 2 1455666655333335789999999999999999999999999999999
Q ss_pred CCceEEEeeccCCCCcceEeec--------CCCCcchhHHHHHHHHhhccc--cCceEEEEEEEEecceeccccCcccc-
Q 035971 94 GINATIVACGAKGSGKTRVIQG--------SYEEPGLAALAVDEILSISEK--MGKSITISFYEIFQDHVYDLLDPKQQ- 162 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~G--------~~~~~GLipral~~LF~~~~~--~~~sV~vS~~EIYnE~V~DLL~~~~~- 162 (614)
|||||||||||||+||||||.| .++++|||||++.+||+.++. ..|+|.|||+|+|||.++|||++...
T Consensus 127 GyNCTIFAYGQTGTGKTyTMeG~~~~~~g~l~~~aGIIPRal~~IFd~Le~~~~EYsvKVSfLELYNEEl~DLLa~~~~~ 206 (1041)
T KOG0243|consen 127 GYNCTIFAYGQTGTGKTYTMEGGERKKNGELPSEAGIIPRALRQIFDTLEAQGAEYSVKVSFLELYNEELTDLLASEDTS 206 (1041)
T ss_pred cCCceEEEecCCCCCceeeeecCcccccCCCCccCCcchHHHHHHHHHHHhcCCeEEEEEEehhhhhHHHHHhcCCcccc
Confidence 9999999999999999999999 467899999999999999884 56999999999999999999988643
Q ss_pred --cceEEec-----CCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------c
Q 035971 163 --EVQILEN-----GQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------F 229 (614)
Q Consensus 163 --~l~i~ed-----~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~ 229 (614)
.+.+.++ ..||++|+||.++.|.++.|++.+|.+|..+|++++|.+|+.|||||+||+|+|+.... .
T Consensus 207 ~~~~~~k~~~~~~~~kggV~vkGlEEi~V~~A~ei~klLekGs~kRrtAaTl~N~~SSRSHsIFsItvhike~t~~geel 286 (1041)
T KOG0243|consen 207 DKKLRIKDDSTIVDGKGGVIVKGLEEIIVTNADEIYKLLEKGSKKRRTAATLMNDQSSRSHSIFSITVHIKENTPEGEEL 286 (1041)
T ss_pred ccccccccCCcccCCcCcEEEecceeeeecchhHHHHHHHhhhhHhHHHHHHhhhhccccceEEEEEEEEecCCCcchhh
Confidence 3444444 47899999999999999999999999999999999999999999999999999977655 3
Q ss_pred cccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEE
Q 035971 230 LPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTC 309 (614)
Q Consensus 230 ~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~ 309 (614)
...|||+||||||||...++|+.+.|.+|+..||+||++||+||.||.++..|||||+|||||||||||||.++|+||||
T Consensus 287 vK~GKLNLVDLAGSENI~RSGA~~~RArEAG~INqSLLTLGRVInALVe~s~HIPYRESKLTRLLQDSLGGkTKT~iIAT 366 (1041)
T KOG0243|consen 287 VKIGKLNLVDLAGSENISRSGARNGRAREAGEINQSLLTLGRVINALVEHSGHIPYRESKLTRLLQDSLGGKTKTCIIAT 366 (1041)
T ss_pred HhhcccceeeccccccccccccccchhHHhhhhhHHHHHHHHHHHHHHccCCCCCchHHHHHHHHHHHhCCCceeEEEEE
Confidence 56799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcC------chhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHHHHhhhhh
Q 035971 310 LLPR------SVSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEAIQSTKSE 366 (614)
Q Consensus 310 vsP~------Tl~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~~~~~~~~ 366 (614)
|||+ |++||+||.|+ +.|+|||-.|.. ..|+...-+|..+|.+|+.++..+..|+
T Consensus 367 iSPa~~~lEETlSTLEYA~RA-KnIkNKPevNQk-l~K~~llKd~~~EIerLK~dl~AaReKn 427 (1041)
T KOG0243|consen 367 ISPAKHNLEETLSTLEYAHRA-KNIKNKPEVNQK-LMKKTLLKDLYEEIERLKRDLAAAREKN 427 (1041)
T ss_pred eCCCcccHHHHHHHHHHHHHh-hhccCCCccchH-HHHHHHHHHHHHHHHHHHHHHHHhHhhC
Confidence 9999 99999999999 999999876654 4566677788999999999998777664
No 2
>KOG4280 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1e-78 Score=666.65 Aligned_cols=341 Identities=25% Similarity=0.388 Sum_probs=301.4
Q ss_pred CCCCeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCCC---CCCceeeEeeeeecCCCChHHHHhhhhHH
Q 035971 12 ISKKARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQP---SSRKECYKLDYCYEQNEGNGIIFAREVKP 86 (614)
Q Consensus 12 ~~~~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~~---~~~~~~F~FD~VF~~~asQ~eVf~~~v~p 86 (614)
...+|+|++|+||+...+... ..++.+.. .. ..+.+.++. ....+.|+||.||+++++|++||+.++.|
T Consensus 3 ~~~~v~vvvr~rPl~~~~~~~~~~~~~~~~~----~~--~~~~l~~~~~~~~~~~~~ftfD~vf~~~stQ~dvy~~~~~~ 76 (574)
T KOG4280|consen 3 PACKVKVVVRVRPLSAAERSELLKSILSVDP----AH--GRVSLKNPVAGIEGKPKSFTFDAVFDSDSTQDDVYQETVAP 76 (574)
T ss_pred cccceeEEEeecCCCchhhhhhhcccccccc----cc--ceeeecCCcccccCCCCCceeeeeecCCCCHHHHHHHHhHH
Confidence 357899999999999866544 33444432 12 233444432 24467899999999999999999999999
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEeecC-CCCcchhHHHHHHHHhhcccc----CceEEEEEEEEecceeccccCccc
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQGS-YEEPGLAALAVDEILSISEKM----GKSITISFYEIFQDHVYDLLDPKQ 161 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~G~-~~~~GLipral~~LF~~~~~~----~~sV~vS~~EIYnE~V~DLL~~~~ 161 (614)
+|+++++|||+||||||||||||||||.|+ .+..|||||++++||.++.+. .|.|+|||+|||||.|+|||++..
T Consensus 77 lV~svl~GyNgtvFaYGQTGsGKTyTM~G~~~~~~GiiPraf~~LF~~I~~~~~~~~f~vrvS~lEiYnE~i~DLL~~~~ 156 (574)
T KOG4280|consen 77 LVESVLEGYNGTVFAYGQTGSGKTYTMIGPDPELRGLIPRAFEHLFRHIDERKEKTRFLVRVSYLEIYNESIRDLLSPVN 156 (574)
T ss_pred HHHHHhcccCceEEEeccCCCCCceEeeCCChhhCCchhHHHHHHHHHHHhccccceEEEEeehHHHHhHHHHHHhCccC
Confidence 999999999999999999999999999998 667899999999999999854 389999999999999999999987
Q ss_pred -ccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------ccccce
Q 035971 162 -QEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------FLPTGK 234 (614)
Q Consensus 162 -~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~~~~sk 234 (614)
+.+.+++++..|+||+||+++.|.++++++.+|..|..+|++++|.+|..|||||+||+|+|..... ...+||
T Consensus 157 ~~~l~lre~p~~Gv~V~nlse~~v~s~~d~~~~l~~G~~nR~vgat~mn~~SsRSH~ift~~i~~~~~~~~~~~~~~~~r 236 (574)
T KOG4280|consen 157 PKGLELREDPKCGVYVENLSEMDVESAEDAQQLLVVGLANRRVGATSMNEESSRSHAIFTIHIESSEKSDGGLMSGRSSK 236 (574)
T ss_pred cCCceeeEcCCCceEecCcceeecCCHHHHHHHHHHHHhhcchhhccCCcccccceEEEEEEEEeecccCCCccccccce
Confidence 5899999999999999999999999999999999999999999999999999999999999998221 467899
Q ss_pred eEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCC-CccCCCChhhhhhhhccCCCceEEEEEEcCcC
Q 035971 235 MNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANES-HVPYRESKLTRMLQESLGCKSKILMLTCLLPR 313 (614)
Q Consensus 235 L~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~-~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~ 313 (614)
|+||||||+||..++++.|.+++|+.+||+||++||+||.+|.++.. ||||||||||+||||+|||||+|+|||||+|+
T Consensus 237 lnlvDLagsEr~~~tga~G~rlkEa~~IN~SLs~LG~vI~aLvd~~~~HIPYRdSkLT~LLqdSLGGN~kT~mianvsp~ 316 (574)
T KOG4280|consen 237 LNLVDLAGSERQSKTGAEGERLKEATNINLSLSALGNVISALVDGSKTHIPYRDSKLTRLLQDSLGGNSKTTMIANVSPS 316 (574)
T ss_pred eeeeeccchhhhcccCccchhhhhhcccchhHHHHHHHHHHHhccccCCCCcchhHHHHHHHHHcCCCceEEEEEecCch
Confidence 99999999999999999999999999999999999999999999876 99999999999999999999999999999999
Q ss_pred ------chhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHHHH
Q 035971 314 ------SVSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEAIQ 361 (614)
Q Consensus 314 ------Tl~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~~~ 361 (614)
|++||+||+|+ +.|+|++..|.... ......+.++|..|+.++-.
T Consensus 317 ~~~~~ETlsTLrfA~Ra-k~I~nk~~ined~~--~~~~~~lq~ei~~Lk~~l~~ 367 (574)
T KOG4280|consen 317 SDNYEETLSTLRFAQRA-KAIKNKPVINEDPK--DALLRELQEEIERLKKELDP 367 (574)
T ss_pred hhhhHHHHHHHHHHHHH-HHhhccccccCCcc--hhhHHHHHHHHHHHHHhhcc
Confidence 99999999999 99999987665433 34455667778887776643
No 3
>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=4.1e-74 Score=610.56 Aligned_cols=308 Identities=27% Similarity=0.458 Sum_probs=278.3
Q ss_pred CeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCC---------CCCCceeeEeeeeecCCCChHHHHhhh
Q 035971 15 KARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQ---------PSSRKECYKLDYCYEQNEGNGIIFARE 83 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~---------~~~~~~~F~FD~VF~~~asQ~eVf~~~ 83 (614)
+|+|+||+||+.+.|... ..++.+.+ ...+.+..... .....+.|.||+||+++++|++||+.+
T Consensus 1 ~i~V~vRvRP~~~~E~~~~~~~~v~~~~-----~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~~q~~vf~~~ 75 (338)
T cd01370 1 SLTVAVRVRPFNEKEKQEGTRRVVKVVD-----DRMLVFDPKDEEDAFRNLRARRNKELKYSFDRVFDETSTQEEVYENT 75 (338)
T ss_pred CeEEEEEcCCCChhhhhcCCceEEEEcC-----CCEEEEcCCcccccccchhcccCCceEEEeccccCCCCCHHHHHHHH
Confidence 599999999999888555 33444432 12222221111 123468999999999999999999999
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc----cCceEEEEEEEEecceeccccCc
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK----MGKSITISFYEIFQDHVYDLLDP 159 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~----~~~sV~vS~~EIYnE~V~DLL~~ 159 (614)
+.|+|+++++|||+||||||||||||||||+|+..++||+||++++||+.++. ..+.|++||+|||||+|+|||++
T Consensus 76 ~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Giipr~~~~LF~~i~~~~~~~~~~v~vS~~EIyne~v~DLL~~ 155 (338)
T cd01370 76 TKPLVDGVLNGYNATVFAYGATGAGKTHTMLGTDSDPGLMVLTMKDLFDKIEERKDDKEFEVSLSYLEIYNETIRDLLSP 155 (338)
T ss_pred HHHHHHHHHCCCCceEEeeCCCCCCCeEEEcCCCCCCchHHHHHHHHHHhhhhcccCceEEEEEEEEEEECCEEEECCCC
Confidence 99999999999999999999999999999999999999999999999998874 45789999999999999999999
Q ss_pred ccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------ccccc
Q 035971 160 KQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------FLPTG 233 (614)
Q Consensus 160 ~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~~~~s 233 (614)
....+.+++++.+++++.|++++.|.|++|+++++..|..+|++++|.+|..|||||+||+|++.+.+. ....|
T Consensus 156 ~~~~l~i~ed~~~~~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~i~~~~~~~~~~~~~~~s 235 (338)
T cd01370 156 SSGPLELREDPNQGIVVAGLTEHQPKSAEEILELLMKGNRNRTQEPTEANATSSRSHAVLQITVRQKDRTASINQQVRIG 235 (338)
T ss_pred CCCCceEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccccccCccCcceEEEEEEEEEEecCCCCCCcEEEE
Confidence 888899999999999999999999999999999999999999999999999999999999999987654 34679
Q ss_pred eeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC---CCccCCCChhhhhhhhccCCCceEEEEEEc
Q 035971 234 KMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE---SHVPYRESKLTRMLQESLGCKSKILMLTCL 310 (614)
Q Consensus 234 kL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~---~~vPyRdSkLTrLLqdsLgGnskt~mI~~v 310 (614)
+|+||||||+||..+.+..|.+++|+..||+||.+|++||.+|+.++ .|||||+||||+||||+|||||+|+||+||
T Consensus 236 ~l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~~L~~~~~~~~~ipyR~SkLT~lL~d~Lggn~~t~~I~~v 315 (338)
T cd01370 236 KLSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINALVDGKKKNKHIPYRDSKLTRLLKDSLGGNCKTVMIANI 315 (338)
T ss_pred EEEEEECCCCccccccCCCCccccccchhhHHHHHHHHHHHHHHhccCCCCcCCCcCCHHHHHHHHhcCCCCeEEEEEEe
Confidence 99999999999999999999999999999999999999999999887 899999999999999999999999999999
Q ss_pred CcC------chhHHHHHHhHhhhh
Q 035971 311 LPR------SVSTTKTQTGSQMHS 328 (614)
Q Consensus 311 sP~------Tl~TL~~asr~~r~i 328 (614)
||+ |++||+||+|+ +.|
T Consensus 316 sp~~~~~~eTl~TL~fa~ra-~~I 338 (338)
T cd01370 316 SPSSSHYEETHNTLKYANRA-KNI 338 (338)
T ss_pred CCchhhHHHHHHHHHHHHHh-ccC
Confidence 998 99999999999 654
No 4
>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=6.1e-74 Score=609.04 Aligned_cols=306 Identities=27% Similarity=0.425 Sum_probs=272.8
Q ss_pred CCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhc
Q 035971 14 KKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFN 93 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~ 93 (614)
.+|+|+||+||+.+.|.......++... +.+.+.+ ... ..+.|.||+||+++++|++||+.++.|+|+++++
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~~~~~v~~~---~~~~~~~-~~~----~~~~f~FD~vf~~~~~q~~vy~~~~~p~v~~~~~ 72 (337)
T cd01373 1 PAVKVVVRIRPPNEIEADGGQGQCLKKL---SSDTLVW-HSH----PPRMFTFDHVADSNTNQEDVFQSVGKPLVEDCLS 72 (337)
T ss_pred CCeEEEEEcCcCChhhcccCCCeEEEEc---CCCcEEe-eCC----CCcEEeCCeEeCCCCCHHHHHHHHHHHHHHHHhC
Confidence 4799999999999888654333333321 1122222 222 2578999999999999999999999999999999
Q ss_pred CCceEEEeeccCCCCcceEeecCC--------CCcchhHHHHHHHHhhccc--------cCceEEEEEEEEecceecccc
Q 035971 94 GINATIVACGAKGSGKTRVIQGSY--------EEPGLAALAVDEILSISEK--------MGKSITISFYEIFQDHVYDLL 157 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~G~~--------~~~GLipral~~LF~~~~~--------~~~sV~vS~~EIYnE~V~DLL 157 (614)
|||+||||||||||||||||+|+. .++||+||++++||..+.. ..+.|++||+|||||+|+|||
T Consensus 73 G~n~ti~aYGqTGSGKTyTm~G~~~~~~~~~~~~~Giipr~~~~Lf~~i~~~~~~~~~~~~~~v~~S~~EIyne~v~DLL 152 (337)
T cd01373 73 GYNGSIFAYGQTGSGKTYTMMGPSSSDDESPHGLQGVIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYNEQITDLL 152 (337)
T ss_pred CCceeEEEeCCCCCCceEEecCCCCccccccccCCCHHHHHHHHHHHHHHhhhhhcccCceEEEEEEEEeecCCEeeeCC
Confidence 999999999999999999999975 3689999999999987752 357899999999999999999
Q ss_pred CcccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----cccc
Q 035971 158 DPKQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-----FLPT 232 (614)
Q Consensus 158 ~~~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-----~~~~ 232 (614)
++....+.+++++.++++++|++++.|.|++|++++|..|..+|++++|.+|..|||||+||+|+|.+... ....
T Consensus 153 ~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~ll~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~~~~~~~~ 232 (337)
T cd01373 153 DPTSRNLKIREDIKKGVYVENLTEEYVSSYEDVYQVLLKGLSNRKVAATSMNSESSRSHAVFTCTIESWEKKASSTNIRT 232 (337)
T ss_pred CCCCCCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhccCcccCcCCCCCCCccEEEEEEEEEeecCCCCCcEEE
Confidence 99888899999999999999999999999999999999999999999999999999999999999987543 2346
Q ss_pred ceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhc----CCCCccCCCChhhhhhhhccCCCceEEEEE
Q 035971 233 GKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA----NESHVPYRESKLTRMLQESLGCKSKILMLT 308 (614)
Q Consensus 233 skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~----~~~~vPyRdSkLTrLLqdsLgGnskt~mI~ 308 (614)
|+|+||||||+||..+++..+.+++|+..||+||++|++||.+|++ +..|||||+||||+||||+|||||+|+||+
T Consensus 233 s~l~~VDLAGSEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~aL~~~~~~~~~~ipyR~SkLT~lL~dsLggns~t~~I~ 312 (337)
T cd01373 233 SRLNLVDLAGSERQKDDGAEGVRLKEAKNINKSLSTLGHVIMALVDVAHGKQRHVPYRDSKLTFLLRDSLGGNAKTTIIA 312 (337)
T ss_pred EEEEEEECCCCCcccccCCccHhhhhhccccHHHHHHHHHHHHHHhhccCCCCccCCcccHHHHHHHHhcCCCceEEEEE
Confidence 9999999999999999999999999999999999999999999974 468999999999999999999999999999
Q ss_pred EcCcC------chhHHHHHHhHhhhh
Q 035971 309 CLLPR------SVSTTKTQTGSQMHS 328 (614)
Q Consensus 309 ~vsP~------Tl~TL~~asr~~r~i 328 (614)
||+|+ |++||+||+|+ ++|
T Consensus 313 ~vsP~~~~~~eTl~TL~fa~ra-k~I 337 (337)
T cd01373 313 NVSPSSKCFGETLSTLKFAQRA-KLI 337 (337)
T ss_pred EECCCcccHHHHHHHHHHHHHh-hcC
Confidence 99998 99999999999 654
No 5
>PLN03188 kinesin-12 family protein; Provisional
Probab=100.00 E-value=7.2e-74 Score=657.21 Aligned_cols=330 Identities=25% Similarity=0.381 Sum_probs=289.7
Q ss_pred CCCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHh
Q 035971 13 SKKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVF 92 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl 92 (614)
.++|+|||||||+.+.|... .++... +.+.+.+ . .+.|.||+||+++++|++||+.++.|+|++++
T Consensus 97 ds~VkV~VRVRPl~~~E~g~-~iV~~~-----s~dsl~I--~------~qtFtFD~VFdp~aTQedVFe~vv~PLV~svL 162 (1320)
T PLN03188 97 DSGVKVIVRMKPLNKGEEGE-MIVQKM-----SNDSLTI--N------GQTFTFDSIADPESTQEDIFQLVGAPLVENCL 162 (1320)
T ss_pred CCCeEEEEEcCCCCCccCCC-eeEEEc-----CCCeEEE--e------CcEEeCCeeeCCCCCHHHHHHHHHHHHHHHHh
Confidence 57999999999999876432 222221 1223333 2 35899999999999999999999999999999
Q ss_pred cCCceEEEeeccCCCCcceEeecCC----------CCcchhHHHHHHHHhhccc---------cCceEEEEEEEEeccee
Q 035971 93 NGINATIVACGAKGSGKTRVIQGSY----------EEPGLAALAVDEILSISEK---------MGKSITISFYEIFQDHV 153 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G~~----------~~~GLipral~~LF~~~~~---------~~~sV~vS~~EIYnE~V 153 (614)
+|||+||||||||||||||||+|+. .++|||||++++||..+.. ..|.|+|||+|||||.|
T Consensus 163 dGyNaTIFAYGQTGSGKTYTM~G~~~~~~de~~s~~e~GIIPRaledLF~~I~e~q~k~~d~~~~y~V~vSyLEIYNEkI 242 (1320)
T PLN03188 163 AGFNSSVFAYGQTGSGKTYTMWGPANGLLEEHLSGDQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFLEIYNEQI 242 (1320)
T ss_pred cCCcceeecCCCCCCCCCEeeCCCCCcccccccccccCCchHHHHHHHHHHHHhhhhhccccccceEEEEEEEeeecCcc
Confidence 9999999999999999999999963 5689999999999998752 45789999999999999
Q ss_pred ccccCcccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----
Q 035971 154 YDLLDPKQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN----- 228 (614)
Q Consensus 154 ~DLL~~~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~----- 228 (614)
||||++....+.|++++.++++|.||+++.|.|++|+.++|..|..+|++++|.+|..|||||+||+|.|.+...
T Consensus 243 ~DLLsp~~k~L~IRED~kgGv~VeGLTEv~V~S~ED~l~LL~~G~~nR~tasT~mN~~SSRSHaIFtI~Ves~~k~~~dg 322 (1320)
T PLN03188 243 TDLLDPSQKNLQIREDVKSGVYVENLTEEYVKTMKDVTQLLIKGLSNRRTGATSINAESSRSHSVFTCVVESRCKSVADG 322 (1320)
T ss_pred eeccccccCCceEEEcCCCCeEeCCCeEEeCCCHHHHHHHHHHHhccceeccCCCCCccCCCceeEEEEEEEeecccCCC
Confidence 999999888899999999999999999999999999999999999999999999999999999999999976432
Q ss_pred --ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhc-----CCCCccCCCChhhhhhhhccCCC
Q 035971 229 --FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA-----NESHVPYRESKLTRMLQESLGCK 301 (614)
Q Consensus 229 --~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~-----~~~~vPyRdSkLTrLLqdsLgGn 301 (614)
....|+|+|||||||||..++++.|.+++|+..||+||++|++||.+|+. +..|||||+||||+||||+||||
T Consensus 323 ~ss~r~SkLnLVDLAGSER~kkTga~G~RLkEA~~INKSLsaLGnVI~ALae~Sq~gk~~HIPYRDSKLTrLLQDSLGGN 402 (1320)
T PLN03188 323 LSSFKTSRINLVDLAGSERQKLTGAAGDRLKEAGNINRSLSQLGNLINILAEISQTGKQRHIPYRDSRLTFLLQESLGGN 402 (1320)
T ss_pred CcceEEEEEEEEECCCchhccccCcccHHHHHHHHHhHHHHHHHHHHHHHHHhhccCCCCcCCCCcchHHHHHHHhcCCC
Confidence 23469999999999999999999999999999999999999999999975 34799999999999999999999
Q ss_pred ceEEEEEEcCcC------chhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHHH
Q 035971 302 SKILMLTCLLPR------SVSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEAI 360 (614)
Q Consensus 302 skt~mI~~vsP~------Tl~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~~ 360 (614)
|+|+|||||||+ |++||+||+|+ +.|+|+++.|.... .....+.+.|++|++|+.
T Consensus 403 SKTvMIa~VSPs~~~~eETLSTLrFAsRA-K~IKNkpvvNe~~~---~~vn~LrelIr~Lk~EL~ 463 (1320)
T PLN03188 403 AKLAMVCAISPSQSCKSETFSTLRFAQRA-KAIKNKAVVNEVMQ---DDVNFLREVIRQLRDELQ 463 (1320)
T ss_pred ceEEEEEecCCchhhHHHHHHHHHHHHHH-hhcCccceeccchh---hhHHHHHHHHHHHHHHHH
Confidence 999999999998 99999999999 99999998775432 223345667777777663
No 6
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=7.5e-75 Score=648.54 Aligned_cols=337 Identities=25% Similarity=0.377 Sum_probs=296.8
Q ss_pred CCeEEEEEeCCCCChhhcc-CCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCC-------CChHHHHhhhhH
Q 035971 14 KKARVIAKIRGFADLEAES-ANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQN-------EGNGIIFAREVK 85 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~-~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~-------asQ~eVf~~~v~ 85 (614)
..|+|+||||||+..|... ..||.... .+..+|..+.+ +.....|.||+.||.. ++|..||+....
T Consensus 4 ssv~VAVRVRPfn~rE~s~~~k~Vvqm~-----gn~ttii~~~~-~k~~~~FtfD~SYWS~d~edPhfAsQ~qVYedlg~ 77 (1221)
T KOG0245|consen 4 SSVKVAVRVRPFNAREKSRDAKCVVQMQ-----GNTTTIINPKG-SKDAPKFTFDYSYWSHDSEDPHFASQKQVYEDLGR 77 (1221)
T ss_pred CceEEEEEeccchhhhhhcccceEEEec-----CCceeeecCCC-cccCCceecceeeecCCCCCCchhhHHHHHHHHhH
Confidence 5799999999999999765 34444432 23445544433 3344569999999754 689999999999
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEeecCC--CCcchhHHHHHHHHhhcc-----ccCceEEEEEEEEecceeccccC
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVIQGSY--EEPGLAALAVDEILSISE-----KMGKSITISFYEIFQDHVYDLLD 158 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~--~~~GLipral~~LF~~~~-----~~~~sV~vS~~EIYnE~V~DLL~ 158 (614)
++++.+|.|||+||||||||||||||||+|-. +++|||||++++||..+. ++.|+|.|||+|||+|+|+|||+
T Consensus 78 ~mL~~AfEGYN~ClFAYGQTGSGKSYTMMG~~~~~e~GIIPrlCEeLF~ri~~nq~~~~sy~VevSymEIYcErVrDLL~ 157 (1221)
T KOG0245|consen 78 EMLDHAFEGYNVCLFAYGQTGSGKSYTMMGFQEPDEPGIIPRLCEELFSRIADNQSQQMSYSVEVSYMEIYCERVRDLLN 157 (1221)
T ss_pred HHHHHHhcccceEEEEeccCCCCcceeeeccCCCCCCCchhHHHHHHHHHHhhcccccceEEEEEeehhHHHHHHHHHhh
Confidence 99999999999999999999999999999987 899999999999999887 47789999999999999999999
Q ss_pred -cc-cccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-------c
Q 035971 159 -PK-QQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-------F 229 (614)
Q Consensus 159 -~~-~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-------~ 229 (614)
|. ...|+|+|++-.|+||++|+.+.|+|+.|+..++..|++.|++++|+||+.|||||+||+|.+++... .
T Consensus 158 ~p~~kg~LRVREHP~lGPYVedLS~~aV~Sy~dI~~~md~GNkqRTtAATnMNdtSSRSHaVFtIvftQk~~~~~~~l~s 237 (1221)
T KOG0245|consen 158 APKSKGGLRVREHPILGPYVEDLSKLAVTSYADIQDLMDEGNKQRTTAATNMNDTSSRSHAVFTIVFTQKKHDQDTGLDS 237 (1221)
T ss_pred CCCCCCCceeeccCccChhHhHhhhcccccHHHHHHHHHhcchhhhhhhhccccccccceeEEEEEEEeeeccccCCCcc
Confidence 54 46799999999999999999999999999999999999999999999999999999999999988765 3
Q ss_pred cccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC-------CCccCCCChhhhhhhhccCCCc
Q 035971 230 LPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE-------SHVPYRESKLTRMLQESLGCKS 302 (614)
Q Consensus 230 ~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~-------~~vPyRdSkLTrLLqdsLgGns 302 (614)
..+|||+|||||||||...+++.|.|++||..||+||.+||+||.||++.+ .+||||||.||+||++.|||||
T Consensus 238 ek~SKIsLVDLAGSERasstGa~G~RLKEGa~INKSLtTLGkVISALAe~~~~k~~ks~fIPYRDSVLTWLLkEnLGGNS 317 (1221)
T KOG0245|consen 238 EKVSKISLVDLAGSERASSTGANGDRLKEGANINKSLTTLGKVISALAESQKGKKKKSDFIPYRDSVLTWLLKENLGGNS 317 (1221)
T ss_pred eeeeeeeEEeccCcccccccCCCccchhcccccchHHHHHHHHHHHHHHHhccCCCCCccccchHHHHHHHHHHhcCCcc
Confidence 567999999999999999999999999999999999999999999998532 3899999999999999999999
Q ss_pred eEEEEEEcCcC------chhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHH
Q 035971 303 KILMLTCLLPR------SVSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEA 359 (614)
Q Consensus 303 kt~mI~~vsP~------Tl~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~ 359 (614)
||+|||++||+ |++|||||.|+ |+|+|+.+.|...-. +.+..|.+++-+|+.-+
T Consensus 318 KTaMIAAlSPAdiNyeETLSTLRYAdRA-K~Iv~~avVNEdpna--KLIRELreEv~rLksll 377 (1221)
T KOG0245|consen 318 KTAMIAALSPADINYEETLSTLRYADRA-KQIVNNAVVNEDPNA--KLIRELREEVARLKSLL 377 (1221)
T ss_pred hhhhhhccChhhcChHHHHHHHHHhhHh-hhhhccceeCCCccH--HHHHHHHHHHHHHHHHH
Confidence 99999999999 99999999999 999999887765433 35666666666665544
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=5.9e-73 Score=603.19 Aligned_cols=304 Identities=23% Similarity=0.387 Sum_probs=276.1
Q ss_pred CCeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCCC---------CCCceeeEeeeeecCCCChHHHHhh
Q 035971 14 KKARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQP---------SSRKECYKLDYCYEQNEGNGIIFAR 82 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~~---------~~~~~~F~FD~VF~~~asQ~eVf~~ 82 (614)
.+|+|+||+||+.+.|... ..++.+. +...+.++.+... ....+.|.||+||+++++|++||+.
T Consensus 1 ~~i~V~vRvRP~~~~E~~~~~~~~v~~~-----~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~tq~~vy~~ 75 (345)
T cd01368 1 DPVKVYLRVRPLSKDELESEDEGCIEVI-----NSTTIQLHPPKGSAARKSERNGGQKETKFSFSKVFGPNTTQKEFFEG 75 (345)
T ss_pred CCEEEEEEeCcCCchhhccCCCceEEEc-----CCCEEEEeCCccccccccccccCCCceEeecCeEECCCCCHHHHHHH
Confidence 3799999999999887654 4455553 2345555543321 2357899999999999999999999
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEEecceeccccCccc-
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEIFQDHVYDLLDPKQ- 161 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EIYnE~V~DLL~~~~- 161 (614)
++.|+|+++++|+|+||||||||||||||||+|+..++||+||++++||+.+.+ +.|+|||+|||||+|+|||++..
T Consensus 76 ~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~G~~~~~Gli~r~~~~lF~~~~~--~~v~~S~~EIyne~v~DLL~~~~~ 153 (345)
T cd01368 76 TALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQGSPGDGGILPRSLDVIFNSIGG--YSVFVSYVEIYNNYIYDLLEDSPS 153 (345)
T ss_pred HHHHHHHHHhCCCceEEEEeCCCCCCCeEEecCCCCCCchHHHHHHHHHHHHHh--eeEEEEEEEEeCCEeEeCCCCccc
Confidence 999999999999999999999999999999999999999999999999999887 89999999999999999998754
Q ss_pred -----ccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC--------
Q 035971 162 -----QEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-------- 228 (614)
Q Consensus 162 -----~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-------- 228 (614)
..+.+++++.++++|+|++++.|.|++|+.+++..|..+|+.++|.+|..|||||+||+|++.+...
T Consensus 154 ~~~~~~~l~i~ed~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~N~~SSRSH~i~~i~v~~~~~~~~~~~~~ 233 (345)
T cd01368 154 STKKRQSLRLREDHNGNMYVAGLTEVEVSSTEEAREVFKRGQKNRRVAGTKLNRESSRSHSVFTIKLVQAPGDSDGDVDQ 233 (345)
T ss_pred cccCCCceEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHhhccceeccccCcCCCCCceEEEEEEEEEeccCccccccc
Confidence 3699999999999999999999999999999999999999999999999999999999999987543
Q ss_pred ---ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhc------CCCCccCCCChhhhhhhhccC
Q 035971 229 ---FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA------NESHVPYRESKLTRMLQESLG 299 (614)
Q Consensus 229 ---~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~------~~~~vPyRdSkLTrLLqdsLg 299 (614)
....|+|+||||||+|+..++++.|.+++|+..||+||.+|++||.+|++ +..|||||+||||+||||+||
T Consensus 234 ~~~~~~~s~l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~aL~~vi~aL~~~~~~~~~~~~iPyR~SkLT~lL~~~l~ 313 (345)
T cd01368 234 DKDQITVSQLSLVDLAGSERTSRTQNTGERLKEAGNINTSLMTLGKCIEVLRENQLSGSTNKMVPYRDSKLTHLFQNYFD 313 (345)
T ss_pred CCCceEEEEEEEEecccccccccccccchhhhhhhhhhHHHHHHHHHHHHHHhhhcccCCCCcCCCcCCHHHHHHHHhcC
Confidence 23468999999999999999999999999999999999999999999986 468999999999999999999
Q ss_pred CCceEEEEEEcCcC------chhHHHHHHhH
Q 035971 300 CKSKILMLTCLLPR------SVSTTKTQTGS 324 (614)
Q Consensus 300 Gnskt~mI~~vsP~------Tl~TL~~asr~ 324 (614)
|||+|+||+||||+ |++||+||.++
T Consensus 314 g~s~t~~I~~vsp~~~~~~eTl~tL~fa~~a 344 (345)
T cd01368 314 GEGKARMIVNVNPCASDYDETLHVMKFSAIA 344 (345)
T ss_pred CCCeEEEEEEeCCchhhHHHHHHHHHHHHhc
Confidence 99999999999999 99999999987
No 8
>KOG0242 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.5e-73 Score=646.73 Aligned_cols=341 Identities=28% Similarity=0.469 Sum_probs=297.8
Q ss_pred CCCeEEEEEeCCCCChhhcc---CCcEEEeCCCCCCCCeEEEEeCCC--CCCCceeeEeeeeecCCCChHHHHhhhhHHH
Q 035971 13 SKKARVIAKIRGFADLEAES---ANWVCIQKPNGEDSDSVTVSFGEQ--PSSRKECYKLDYCYEQNEGNGIIFAREVKPL 87 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~---~~~v~v~~~~~~d~~~v~v~~~~~--~~~~~~~F~FD~VF~~~asQ~eVf~~~v~pl 87 (614)
..+|.|+||+||+.+.+... ..|.++.+ . .+....... ....+..|.||+||+++++|++||+..++|+
T Consensus 5 ~~~i~V~vrvRP~~~~~~~~~~~~~~~~~~d-----~-~~~~~~~~~~~~~~~~~~y~FD~VF~~~~t~~~VYe~~tkpi 78 (675)
T KOG0242|consen 5 EEKILVSVRVRPLNEREDARGDRSDWHCIND-----T-TLFKRVTKSLPEKSKPEKYEFDRVFGEESTQEDVYERTTKPL 78 (675)
T ss_pred cceeEEEEEeCCCCccccccCCccceEecCC-----c-eeEeeccccccccccccceeeeeecCCCCCHHHHHHhccHHH
Confidence 35899999999999874332 22333321 1 112222121 1122589999999999999999999999999
Q ss_pred HHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhcccc---CceEEEEEEEEecceeccccCcccccc
Q 035971 88 ISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKM---GKSITISFYEIFQDHVYDLLDPKQQEV 164 (614)
Q Consensus 88 V~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~---~~sV~vS~~EIYnE~V~DLL~~~~~~l 164 (614)
|++++.|+|++|||||||||||||||.|..++|||+|+++.+||+.+.+. .|.|.|||+|||||.|+|||+++...+
T Consensus 79 v~~~l~G~N~TVFAYG~TgSGKTyTM~G~~~~PGii~la~~dif~~I~~~~~r~f~v~vSYlEIYNE~I~DLL~~~~~~L 158 (675)
T KOG0242|consen 79 LLSVLEGFNATVFAYGQTGSGKTYTMSGSEDDPGIIPLAMKDIFEKIDKSGEREFSVRVSYLEIYNERIRDLLNPDGGDL 158 (675)
T ss_pred HHHHhcCcccceeeecCCCCCCceEEeccCCCCCeeehHHHHHHHHHHhcCCceeEEEEEEEEEeccccccccCCCCCCc
Confidence 99999999999999999999999999999999999999999999998854 589999999999999999999999999
Q ss_pred eEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCcc--ccceeEEEeCCC
Q 035971 165 QILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNFL--PTGKMNFVDLAG 242 (614)
Q Consensus 165 ~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~~--~~skL~fVDLAG 242 (614)
.++||+.++++|.||++..|.|++++..+|..|..+|+++.|.+|..|||||+||+|.+....... ..++|+||||||
T Consensus 159 ~irED~~~gi~V~gL~e~~v~s~e~~~~ll~~g~~~R~~g~T~~N~~SSRSHaIl~i~i~s~~~~~~~~~s~L~lIDLAG 238 (675)
T KOG0242|consen 159 RLREDSEGGIVVPGLTEETVSSREELLELLQKGNKNRTTGETNLNEQSSRSHAILRITVESRGREASSRVSKLNLIDLAG 238 (675)
T ss_pred eEeEcCCCCEEecCCeeecCCCHHHHHHHHHHhhccCcccccccccccchhhheeeEEEEeccccccchhheehhhhhhh
Confidence 999999999999999999999999999999999999999999999999999999999999887533 678999999999
Q ss_pred ccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcC--CCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------c
Q 035971 243 YQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNAN--ESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------S 314 (614)
Q Consensus 243 sEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~--~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------T 314 (614)
|||+.++++.|.|++|+++||+||++||+||.+|+.+ ..||||||||||||||++||||++|.|||||+|+ |
T Consensus 239 SERas~T~~~G~RlkEG~~INrSLlaLgtVI~~Ls~~~~~~hipYRDSKLTRiLq~sLgGn~rt~~I~tisp~~~~~~eT 318 (675)
T KOG0242|consen 239 SERASRTGNEGVRLKEGAHINRSLLALGTVINKLSEGKRPRHIPYRDSKLTRLLQDSLGGNARTAIIATISPSSSHYEET 318 (675)
T ss_pred hhhhhhhhccceeccccchhhHHHHHHHHHHHHHccccccCCCCccccHHHHhchhhcCCCccEEEEEEeCchhhHHHHH
Confidence 9999999999999999999999999999999999887 4689999999999999999999999999999999 9
Q ss_pred hhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHHHH
Q 035971 315 VSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEAIQ 361 (614)
Q Consensus 315 l~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~~~ 361 (614)
.+||.||+|+ +.|+++...|.....+.... .+..++..|..+...
T Consensus 319 ~nTL~fAsra-k~i~~~~~~n~~~~~~~~~~-~~~~~i~~l~~e~~~ 363 (675)
T KOG0242|consen 319 KNTLKFASRA-KEITTKAQVNVILSDKALLK-YLQREIAELEAELER 363 (675)
T ss_pred HHHHHHHHHh-hhcccccccceecchhhhhH-HHHHHHHHHHHHHHh
Confidence 9999999999 99999988887766554433 224455555555543
No 9
>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=5.1e-72 Score=590.27 Aligned_cols=308 Identities=35% Similarity=0.592 Sum_probs=283.2
Q ss_pred CeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCC-CCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhc
Q 035971 15 KARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQP-SSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFN 93 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~-~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~ 93 (614)
+|+|+|||||+.+.|.....|+.+...+..+..++. +.++. ....+.|.||+||+++++|++||+.++.|+|+.+++
T Consensus 1 ~i~V~vRvRP~~~~e~~~~~~v~~~~~~~~~~~~v~--~~~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~~ 78 (319)
T cd01376 1 NVRVVVRVRPFLDCEEDSSSCVRGIDSDQGQAKSVE--IENPRNRGETKKYQFDAFYGTECTQEDIFSREVKPIVPHLLS 78 (319)
T ss_pred CcEEEEEeCcCCccccCCCceEEEeCCCCCcceEEE--EeCCCCCCCccEEecCeEECCCCCHHHHHHHHHHHHHHHHhC
Confidence 689999999999988777778777543222223444 44432 345789999999999999999999999999999999
Q ss_pred CCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhcccc--CceEEEEEEEEecceeccccCcccccceEEecCC
Q 035971 94 GINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKM--GKSITISFYEIFQDHVYDLLDPKQQEVQILENGQ 171 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~--~~sV~vS~~EIYnE~V~DLL~~~~~~l~i~ed~~ 171 (614)
|+|+||||||||||||||||+|+..++||+||++++||+.+++. .+.|++||+|||+|+|+|||++....+.+++++.
T Consensus 79 G~n~~i~ayG~tgSGKTyTm~G~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~~~~l~i~~~~~ 158 (319)
T cd01376 79 GQNATVFAYGSTGAGKTHTMLGDPNEPGLIPRTLSDLLRMGRKQAWTGAFSMSYYEIYNEKVYDLLEPAKKELPIREDKD 158 (319)
T ss_pred CCceEEEEECCCCCCCcEEEeCCcCccchHHHHHHHHHHHHhhccccceEEEEEEEEECCEeeEccCCCCCCceEEEcCC
Confidence 99999999999999999999999999999999999999988754 7899999999999999999999888899999999
Q ss_pred CceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-ccccceeEEEeCCCcccccccc
Q 035971 172 GKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-FLPTGKMNFVDLAGYQDIRRKS 250 (614)
Q Consensus 172 ~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-~~~~skL~fVDLAGsEr~~k~~ 250 (614)
+++++.|++++.|.|++|+.+++..|.++|..++|.+|..|||||+||+|++.+... ....|+|+||||||+|+..+.+
T Consensus 159 ~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~~~~s~l~~VDLAGsE~~~~~~ 238 (319)
T cd01376 159 GNILIVGLTSKPIKSMAEFEEAYIPASKNRTVAATKLNDNSSRSHAVLRIKVTQPASNIQLEGKLNLIDLAGSEDNRRTG 238 (319)
T ss_pred CCEEeeCCEEEEeCCHHHHHHHHHHHHhhhccccCcCCCccCCCeEEEEEEEEEECCCceEEEEEEEEECCCCCcccccC
Confidence 999999999999999999999999999999999999999999999999999988765 3467999999999999999999
Q ss_pred CccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------chhHHHHHHhH
Q 035971 251 TEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SVSTTKTQTGS 324 (614)
Q Consensus 251 ~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl~TL~~asr~ 324 (614)
..+.+++|+..||+||.+|++||.+|..+..|||||+|+||+||+|+|||+|+|+||+||+|. |++||+||+|+
T Consensus 239 ~~g~~~~e~~~iN~Sl~~L~~vi~aL~~~~~~ipyr~S~LT~lL~~~L~g~s~t~~i~~vsp~~~~~~eTl~TL~fa~r~ 318 (319)
T cd01376 239 NEGIRLKESAAINSSLFVLSKVVDALNKGLPRIPYRESKLTRLLQDSLGGGSRCIMVANIAPERSFYQDTLSTLNFASRS 318 (319)
T ss_pred CccchhhhhhhhhhhHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhcCCCccEEEEEEeCCchhhHHHHHHHHHHHHhh
Confidence 999999999999999999999999999999999999999999999999999999999999999 99999999998
No 10
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=100.00 E-value=5e-73 Score=607.40 Aligned_cols=315 Identities=27% Similarity=0.429 Sum_probs=283.1
Q ss_pred CCCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHh
Q 035971 13 SKKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVF 92 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl 92 (614)
-+.|+|+||+||+...|...+.......+++++ ++.+.... ....|.||+||.|+++|++||+.++.|+|++||
T Consensus 6 ~~~IkV~cR~rP~n~~E~~~~~~~i~~~~~~~~----~v~~~~~~--~~~~y~FDrVF~pnatQe~Vy~~~a~~Iv~dVL 79 (607)
T KOG0240|consen 6 ECSIKVVCRFRPLNGLENNLGSKFIDCFENGEN----TVVLETTK--ETKTYVFDRVFSPNATQEDVYEFAAKPIVDDVL 79 (607)
T ss_pred CCceEEEEEeecCCchhhhcCCcCccCCCCCcc----eEEEeccc--ccccceeeeecCCCccHHHHHHHHHHHHHHHHh
Confidence 378999999999998886653332222222222 44443321 237899999999999999999999999999999
Q ss_pred cCCceEEEeeccCCCCcceEeecCCC---CcchhHHHHHHHHhhccc----cCceEEEEEEEEecceeccccCcccccce
Q 035971 93 NGINATIVACGAKGSGKTRVIQGSYE---EPGLAALAVDEILSISEK----MGKSITISFYEIFQDHVYDLLDPKQQEVQ 165 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~----~~~sV~vS~~EIYnE~V~DLL~~~~~~l~ 165 (614)
.|||+||||||||||||||||.|... ..||+||++++||.++.. .+|.|+|||||||+|+++|||++.+.++.
T Consensus 80 ~GYNGTvfaYGqT~sGKTytm~G~~~d~~~~GIipRi~~diF~~Iys~~~n~efhVkVsy~EIYmEKi~DLL~~~k~nls 159 (607)
T KOG0240|consen 80 LGYNGTVFAYGQTGSGKTYTMEGIGHDPEEMGIIPRILNDIFDHIYSMEENLEFHVKVSYFEIYMEKIRDLLDPEKTNLS 159 (607)
T ss_pred cccceeEEEecCCCCCcceeecccCCChhhcCcHHHHHHHHHHHHhcCcccceEEEEEEeehhhhhHHHHHhCcccCCce
Confidence 99999999999999999999999765 459999999999999984 46789999999999999999999999999
Q ss_pred EEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC---ccccceeEEEeCCC
Q 035971 166 ILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN---FLPTGKMNFVDLAG 242 (614)
Q Consensus 166 i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~---~~~~skL~fVDLAG 242 (614)
+++|....++|+|+++..|.+++++++++..|..+|+++.|.+|.+|||||.||+|+|.+.+. ....|+|.||||||
T Consensus 160 vheDK~~v~~vkG~t~~~v~s~d~v~~~i~~g~~nr~va~t~mn~~sSRSHsIF~i~VkQ~n~e~~~~~~gkLyLVDLaG 239 (607)
T KOG0240|consen 160 VHEDKNRVPYVKGVTERFVSSPDEVLDVIDEGKSNRHVAVTNMNEHSSRSHSIFLIHVKQENVEDKRKLSGKLYLVDLAG 239 (607)
T ss_pred eecccCCCceecCceeEEecCHHHHHHHHhcccccchhhhccccccccccceEEEEEEEeccccchhhccccEEEEEccc
Confidence 999999999999999999999999999999999999999999999999999999999999887 56789999999999
Q ss_pred ccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcC-CCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------ch
Q 035971 243 YQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNAN-ESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SV 315 (614)
Q Consensus 243 sEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~-~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl 315 (614)
+|+..++++.|..+.|+.+||+||.|||+||+||+.+ ..|||||||||||+|||+|||||||.+|+|.+|+ |.
T Consensus 240 SEkvsKtga~g~vleEaK~INkSLsaLgnvI~aLa~g~~shipYRDSKLTRILqdSLGGNsRTtlIi~csPss~n~~ET~ 319 (607)
T KOG0240|consen 240 SEKVSKTGAEGAVLEEAKNINKSLSALGNVINALAEGPKSHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSSLNEAETK 319 (607)
T ss_pred ccccCCCCccchhHHHHhhhhhhHHHHHHHHHHHhcCCCCCCcchhhHHHHHHHHHhCCCcceEEEEecCCccccccccc
Confidence 9999999999999999999999999999999999998 7899999999999999999999999999999999 78
Q ss_pred hHHHHHHhHhhhhhcCCCc
Q 035971 316 STTKTQTGSQMHSSTKKAT 334 (614)
Q Consensus 316 ~TL~~asr~~r~i~nk~~~ 334 (614)
+||+|+.|+ +.|+|....
T Consensus 320 STl~fg~ra-k~ikN~v~~ 337 (607)
T KOG0240|consen 320 STLRFGNRA-KTIKNTVWV 337 (607)
T ss_pred cchhhcccc-ccccchhhh
Confidence 888888888 777775543
No 11
>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=1.6e-71 Score=587.14 Aligned_cols=305 Identities=31% Similarity=0.470 Sum_probs=276.4
Q ss_pred CCeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCCC-----CCCceeeEeeeeecCCCChHHHHhhhhHH
Q 035971 14 KKARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQP-----SSRKECYKLDYCYEQNEGNGIIFAREVKP 86 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~~-----~~~~~~F~FD~VF~~~asQ~eVf~~~v~p 86 (614)
.+|+|+|||||+.+.|... ..++.+.. .+.+.++.+... ....+.|.||+||+++++|++||+..++|
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~~~~~~~~~~-----~~~v~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~~q~~vf~~~~~p 75 (322)
T cd01367 1 MKITVAVRKRPLNDKELSKGETDVVSCES-----NPTVTVHEPKTKVDLTKYIEKHTFRFDYVFDEAVTNEEVYRSTVKP 75 (322)
T ss_pred CCeEEEEEcCcCChhhhccCCceEEEECC-----CCEEEEecCccccccccccCCceEecceEECCCCCHHHHHHHHHHH
Confidence 4799999999999988654 33444432 134555432211 12357899999999999999999999999
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc--cCceEEEEEEEEecceeccccCcccccc
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK--MGKSITISFYEIFQDHVYDLLDPKQQEV 164 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~--~~~sV~vS~~EIYnE~V~DLL~~~~~~l 164 (614)
+|+.+++|+|+||||||||||||||||+|+..++||+||++++||+.++. ..++|++||+|||+|+++|||++ .+.+
T Consensus 76 lv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Glipr~~~~lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~-~~~l 154 (322)
T cd01367 76 LIPHVFEGGVATCFAYGQTGSGKTYTMLGDENQEGLYALAARDIFRLLAQPNDDLGVTVSFFEIYGGKLFDLLND-RKRL 154 (322)
T ss_pred HHHHHhCCCceEEEeccCCCCCCceEecCcCCcCccHHHHHHHHHHHHhccccccEEEEEEEeeecCchhhhccC-ccce
Confidence 99999999999999999999999999999999999999999999999886 47899999999999999999998 4569
Q ss_pred eEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCccccceeEEEeCCCcc
Q 035971 165 QILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNFLPTGKMNFVDLAGYQ 244 (614)
Q Consensus 165 ~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~~~~skL~fVDLAGsE 244 (614)
.+++++.+++++.|++++.|.|++|+++++..|..+|+.+.|.+|..|||||+||+|++.+.......|+|+||||||+|
T Consensus 155 ~i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~~~s~l~~vDLAGsE 234 (322)
T cd01367 155 SVLEDGKGNVQIVGLTEKPVTSVDELLELIESGNSLRTTGSTGANDQSSRSHAILQIILKNKKLNKLLGKLSFIDLAGSE 234 (322)
T ss_pred eEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHhcccccccCcCCCCcccceEEEEEEEEEecCCeeEEEEEEeecCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999987766678999999999999
Q ss_pred cccccc-CccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------chhH
Q 035971 245 DIRRKS-TEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SVST 317 (614)
Q Consensus 245 r~~k~~-~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl~T 317 (614)
+..+.. ..+.+++|+..||+||.+|++||.+|+.++.||||||||||+||||+|||+|+|+||+||+|. |++|
T Consensus 235 ~~~~~~~~~~~~~~e~~~IN~SL~~L~~vi~al~~~~~~iPyRdSkLT~lL~~~L~g~~~t~~I~~vsp~~~~~~eTl~t 314 (322)
T cd01367 235 RGADTSEHDRQTRKEGAEINKSLLALKECIRALASNKAHVPFRGSKLTQVLRDSFIGNSKTVMIATISPSASSCEHTLNT 314 (322)
T ss_pred ccccccccchhhHHhHhHHhHHHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhhCCCCeEEEEEEeCCchhhHHHHHHH
Confidence 988765 467899999999999999999999999999999999999999999999999999999999998 9999
Q ss_pred HHHHHhH
Q 035971 318 TKTQTGS 324 (614)
Q Consensus 318 L~~asr~ 324 (614)
|+||+|+
T Consensus 315 L~fa~r~ 321 (322)
T cd01367 315 LRYADRV 321 (322)
T ss_pred HHHHHhh
Confidence 9999997
No 12
>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=2.5e-71 Score=593.18 Aligned_cols=316 Identities=27% Similarity=0.400 Sum_probs=285.1
Q ss_pred CCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCC---CCCCceeeEeeeeecCC-------CChHHHHhhh
Q 035971 14 KKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQ---PSSRKECYKLDYCYEQN-------EGNGIIFARE 83 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~---~~~~~~~F~FD~VF~~~-------asQ~eVf~~~ 83 (614)
++|+|+||+||+...|...+....+..+ .+.+++..+.. .......|.||+||+++ ++|++||+.+
T Consensus 1 ~~i~V~vRvRP~~~~E~~~~~~~~~~~~----~~~v~v~~~~~~~~~~~~~~~f~FD~vf~~~~~~~~~~~tq~~vf~~~ 76 (356)
T cd01365 1 ANVKVAVRVRPFNSREKNRGSKCIVQMP----GKVTTLKNPKAADATRKKPKSFSFDHSYWSHDSEDPHYASQEDVFEDL 76 (356)
T ss_pred CCEEEEEEeCcCChhhhccCCceEEEEC----CCEEEEEcCCcccccccCceEEECCeEecccCCCCCCCCCHHHHHHHH
Confidence 5899999999999888766443333322 24556554432 13457899999999999 9999999999
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc-----cCceEEEEEEEEecceeccccC
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK-----MGKSITISFYEIFQDHVYDLLD 158 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~sV~vS~~EIYnE~V~DLL~ 158 (614)
+.|+|+++++|+|+||||||||||||||||+|+..++||+||++++||+.++. ..+.|++||+|||+|+|+|||+
T Consensus 77 ~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~G~~~~~Gli~r~~~~Lf~~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~ 156 (356)
T cd01365 77 GRELLDHAFEGYNVCLFAYGQTGSGKSYTMMGYKEEKGIIPRLCEELFQRIESKKEQNLSYEVEVSYMEIYNEKVRDLLN 156 (356)
T ss_pred HHHHHHHHhCCCceEEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEECCeeeeCCC
Confidence 99999999999999999999999999999999999999999999999998863 4578999999999999999999
Q ss_pred ccc---ccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-------
Q 035971 159 PKQ---QEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------- 228 (614)
Q Consensus 159 ~~~---~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------- 228 (614)
+.. ..+.+++++.++++++|++++.|.|++|+..++..|.++|+.++|.+|..|||||+||+|++.+...
T Consensus 157 ~~~~~~~~l~i~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~l~v~~~~~~~~~~~~ 236 (356)
T cd01365 157 PKKKNKGNLKVREHPVLGPYVEDLSKVAVTSYEDIQNLLEEGNKSRTTASTNMNDTSSRSHAVFTIVLTQKKLDKETDLT 236 (356)
T ss_pred CCccCCcCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhcccccCCCCCCCcCCceEEEEEEEEEEecccCCCCC
Confidence 874 6799999999999999999999999999999999999999999999999999999999999987542
Q ss_pred ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcC--------CCCccCCCChhhhhhhhccCC
Q 035971 229 FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNAN--------ESHVPYRESKLTRMLQESLGC 300 (614)
Q Consensus 229 ~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~--------~~~vPyRdSkLTrLLqdsLgG 300 (614)
....|+|+||||||+|+..+.+..+.+++|+..||+||.+|++||.+|+.+ +.|||||+||||+||||+|||
T Consensus 237 ~~~~s~l~~VDLAGsEr~~~~~~~~~~~~E~~~IN~SL~aL~~vi~~l~~~~~~~~~~~~~~ipyR~SkLT~lL~~~lgg 316 (356)
T cd01365 237 TEKVSKISLVDLAGSERASSTGAEGDRLKEGSNINKSLTTLGKVISALADNSSAKSKKKSSFIPYRDSVLTWLLKENLGG 316 (356)
T ss_pred ceEEEEEEeeecccccccccccccchhhHHHHHHhHHHHHHHHHHHHHHhcccccccCCCCcCCCcCcHHHHHHHHhcCC
Confidence 356799999999999999999999999999999999999999999999763 489999999999999999999
Q ss_pred CceEEEEEEcCcC------chhHHHHHHhHhhhhhcCCCc
Q 035971 301 KSKILMLTCLLPR------SVSTTKTQTGSQMHSSTKKAT 334 (614)
Q Consensus 301 nskt~mI~~vsP~------Tl~TL~~asr~~r~i~nk~~~ 334 (614)
+++|+||+||+|. |++||+||+++ ++|+++++.
T Consensus 317 ~s~t~~I~~vsp~~~~~~eTl~tL~fa~~~-~~i~~~~~~ 355 (356)
T cd01365 317 NSKTAMIATISPADINYEETLSTLRYADRA-KKIVNVAVV 355 (356)
T ss_pred CceEEEEEEeCCCcccHHHHHHHHHHHHHH-hhccCcccc
Confidence 9999999999998 99999999999 999998764
No 13
>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=5.4e-71 Score=589.77 Aligned_cols=319 Identities=27% Similarity=0.459 Sum_probs=285.4
Q ss_pred CCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhc
Q 035971 14 KKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFN 93 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~ 93 (614)
++|+|+||+||+.+.|........+... ++...|.+..........+.|.||+||+++++|++||+..+.|+|+++++
T Consensus 2 ~~i~V~vRvRP~~~~e~~~~~~~~i~~~--~~~~~i~~~~~~~~~~~~~~f~Fd~vf~~~~~q~~vy~~~~~plv~~~~~ 79 (352)
T cd01364 2 SNIQVVVRCRPRNSRERKEKSSVVVEVS--GSSKEIIVSTGGADKQSTKTYTFDKVFGPEADQIEVYSQVVSPILDEVLM 79 (352)
T ss_pred CCEEEEEEcCcCCccccccCCCeEEEEc--CCCcEEEEcCCCcccccceeEeccccCCCCCCHHHHHHHHHHHHHHHHhC
Confidence 5899999999999988665443333322 12344544433222345789999999999999999999999999999999
Q ss_pred CCceEEEeeccCCCCcceEeecCC-----------CCcchhHHHHHHHHhhccc--cCceEEEEEEEEecceeccccCcc
Q 035971 94 GINATIVACGAKGSGKTRVIQGSY-----------EEPGLAALAVDEILSISEK--MGKSITISFYEIFQDHVYDLLDPK 160 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~G~~-----------~~~GLipral~~LF~~~~~--~~~sV~vS~~EIYnE~V~DLL~~~ 160 (614)
|+|+||||||+|||||||||+|+. +.+||+||++++||+.++. ..++|+|||+|||+|+|+|||++.
T Consensus 80 G~n~~i~ayG~tgSGKTyTl~G~~~~~~~~~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~ 159 (352)
T cd01364 80 GYNCTIFAYGQTGTGKTYTMEGDRTDNKGSTWELSPHAGIIPRALYQLFEKLESQNTEYSVKVSYLELYNEELFDLLSSE 159 (352)
T ss_pred CCeEEEEECCCCCCCCcEEecCCCcccccccccccccCCchHHHHHHHHHHHHhccceeEEEEEEEEeeCCeeeeCCCCc
Confidence 999999999999999999999974 3489999999999998875 668899999999999999999986
Q ss_pred ---cccceEEec--CCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------c
Q 035971 161 ---QQEVQILEN--GQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------F 229 (614)
Q Consensus 161 ---~~~l~i~ed--~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~ 229 (614)
..++.++++ ..++++|.|++++.|.|++|+.+++..|..+|+.++|.+|..|||||+||+|++.+... .
T Consensus 160 ~~~~~~l~i~e~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRSH~i~~i~i~~~~~~~~~~~~ 239 (352)
T cd01364 160 SDLNKPLRIFDDTNNKGGVVIQGLEEITVNNANEGLKLLEKGSAKRKTAATLMNDQSSRSHSIFSITIHIKETTISGEEL 239 (352)
T ss_pred cccCccceEEeccCcCCCEEeCCcEEEEeCCHHHHHHHHHHHhhhcccccCcCCCCCCCCceEEEEEEEEeccCCCCCcc
Confidence 567999999 68999999999999999999999999999999999999999999999999999987653 2
Q ss_pred cccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEE
Q 035971 230 LPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTC 309 (614)
Q Consensus 230 ~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~ 309 (614)
...|+|+||||||+|+..+.++.+.+++|+..||+||.+|++||.+|+.++.|||||+|+||+||+|+|||||+|+||+|
T Consensus 240 ~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~iN~SL~~L~~vi~al~~~~~~vpyR~S~LT~lL~~~Lgg~s~t~~I~~ 319 (352)
T cd01364 240 VKIGKLNLVDLAGSENIGRSGAENKRAREAGNINQSLLTLGRVINALVEKSPHIPYRESKLTRLLQDSLGGRTKTSIIAT 319 (352)
T ss_pred EEEEEEEEEECCCccccccccCcchhhHHHhhhhHHHHHHHHHHHHHHcCCCCCCCcccHHHHHHHHhcCCCceEEEEEE
Confidence 34699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcC------chhHHHHHHhHhhhhhcCCCcc
Q 035971 310 LLPR------SVSTTKTQTGSQMHSSTKKATG 335 (614)
Q Consensus 310 vsP~------Tl~TL~~asr~~r~i~nk~~~~ 335 (614)
|+|. |++||+||+++ ++|+|+|..|
T Consensus 320 vsp~~~~~~eTl~TL~~a~~~-~~i~n~P~~n 350 (352)
T cd01364 320 ISPASINLEETLSTLEYAHRA-KNIKNKPEVN 350 (352)
T ss_pred eCCCcccHHHHHHHHHHHHHH-hhccCccccC
Confidence 9998 99999999999 9999998754
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=2.2e-70 Score=581.02 Aligned_cols=310 Identities=29% Similarity=0.434 Sum_probs=279.6
Q ss_pred CCeEEEEEeCCCCChhhccCC--cEEEeCCCCCCCCeEEEEeCCC-CCCCceeeEeeeeecCCCChHHHHhhhhHHHHHH
Q 035971 14 KKARVIAKIRGFADLEAESAN--WVCIQKPNGEDSDSVTVSFGEQ-PSSRKECYKLDYCYEQNEGNGIIFAREVKPLISE 90 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~--~v~v~~~~~~d~~~v~v~~~~~-~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~ 90 (614)
.+|+|+||+||+.+.|...+. ++.+.. +...+.+..+.. .....+.|.||+||+++++|++||+..+.|+|++
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~~~~~~~~~~----~~~~v~~~~~~~~~~~~~~~f~fd~vf~~~~~q~~vy~~~~~plv~~ 76 (333)
T cd01371 1 ENVKVVVRCRPLNKREKSEGAPEIVGVDE----NRGQVTVHNPKADAKEPPKVFTFDAVYDPNSTQEDVYNETARPLVDS 76 (333)
T ss_pred CCeEEEEEcCcCChhhhhcCCCeEEEEcC----CCCEEEEeCCcccccCCCceeeeccccCCCccHHHHHHHHHHHHHHH
Confidence 379999999999988866533 444432 344555544332 1245789999999999999999999999999999
Q ss_pred HhcCCceEEEeeccCCCCcceEeecCCC---CcchhHHHHHHHHhhccc---cCceEEEEEEEEecceeccccCccc-cc
Q 035971 91 VFNGINATIVACGAKGSGKTRVIQGSYE---EPGLAALAVDEILSISEK---MGKSITISFYEIFQDHVYDLLDPKQ-QE 163 (614)
Q Consensus 91 vl~G~N~tI~aYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~---~~~sV~vS~~EIYnE~V~DLL~~~~-~~ 163 (614)
+++|+|+||||||+|||||||||+|+.. ++||+||++++||+.++. ..+.|.|||+|||+|+|+|||++.. ..
T Consensus 77 ~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL~~~~~~~ 156 (333)
T cd01371 77 VLEGYNGTIFAYGQTGTGKTFTMEGVREPPELRGIIPNSFAHIFGHIAKAENVQFLVRVSYLEIYNEEVRDLLGKDQKKK 156 (333)
T ss_pred HhCCCceeEEecCCCCCCCcEeecCCCCcccccchHHHHHHHHHHHHhhccCccEEEEEEEEEeeCCeeeeCCCCCCCCc
Confidence 9999999999999999999999999887 899999999999998764 5688999999999999999999876 57
Q ss_pred ceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------ccccceeEE
Q 035971 164 VQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------FLPTGKMNF 237 (614)
Q Consensus 164 l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~~~~skL~f 237 (614)
+.+++++.++++|.|++++.|.|++|+..++..|.++|+.++|.+|..|||||+||+|+|.+.+. ....|+|+|
T Consensus 157 l~i~~~~~~~~~v~~l~~~~v~s~~~~~~~l~~g~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~~s~L~~ 236 (333)
T cd01371 157 LELKERPDRGVYVKDLSMFVVKNAEEMDKLMTLGNKNRSVGATNMNEDSSRSHSIFTITIECSEKGEDGENHIRVGKLNL 236 (333)
T ss_pred eeEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhhCccccccccCCCCCCcEEEEEEEEEEeccCCCCCcEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999987643 245799999
Q ss_pred EeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCC-CccCCCChhhhhhhhccCCCceEEEEEEcCcC---
Q 035971 238 VDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANES-HVPYRESKLTRMLQESLGCKSKILMLTCLLPR--- 313 (614)
Q Consensus 238 VDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~-~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~--- 313 (614)
|||||+|+..+.+..+.+++|+..||+||.+|++||.+|..++. |||||+||||+||+|+|||+|+|+||+||+|.
T Consensus 237 VDLAGsEr~~~~~~~~~~~~E~~~iN~sL~~L~~vi~al~~~~~~~ipyR~SkLT~lL~~~l~g~s~t~~I~~vsP~~~~ 316 (333)
T cd01371 237 VDLAGSERQSKTGATGDRLKEATKINLSLSALGNVISALVDGKSTHIPYRDSKLTRLLQDSLGGNSKTVMCANIGPADYN 316 (333)
T ss_pred EECCCCCcccccCCchhhhHhHhhhhhHHHHHHHHHHHHHhCCCCcCCCccCHHHHHHHHhcCCCceEEEEEEeCCcccc
Confidence 99999999999999999999999999999999999999999876 99999999999999999999999999999999
Q ss_pred ---chhHHHHHHhHhhhh
Q 035971 314 ---SVSTTKTQTGSQMHS 328 (614)
Q Consensus 314 ---Tl~TL~~asr~~r~i 328 (614)
|++||+||+|+ |.|
T Consensus 317 ~~eTl~TL~fa~r~-r~I 333 (333)
T cd01371 317 YDETLSTLRYANRA-KNI 333 (333)
T ss_pred HHHHHHHHHHHHHh-hcC
Confidence 99999999999 654
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=4.3e-70 Score=576.88 Aligned_cols=305 Identities=28% Similarity=0.447 Sum_probs=278.9
Q ss_pred CCeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHH
Q 035971 14 KKARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEV 91 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~v 91 (614)
.+|+|+||+||+.+.|... ..++.+. +.+.|++. ++ ...+.|.||+||+++++|++||+..+.|+|+++
T Consensus 2 ~~i~V~vRvRP~~~~e~~~~~~~~v~~~-----~~~~v~~~--~~--~~~~~f~FD~vf~~~~~q~~vy~~~~~~~v~~~ 72 (325)
T cd01369 2 CNIKVVCRFRPLNEKEELRGSKSIVKFP-----GEDTVSIA--GS--DDGKTFSFDRVFPPNTTQEDVYNFVAKPIVDDV 72 (325)
T ss_pred CCeEEEEEcCcCChhhhccCCceEEEEc-----CCCEEEec--CC--CCceEEEcCeEECCCCCHHHHHHHHHHHHHHHH
Confidence 5899999999999888544 3444443 12344443 32 346789999999999999999999999999999
Q ss_pred hcCCceEEEeeccCCCCcceEeecCCC---CcchhHHHHHHHHhhccc----cCceEEEEEEEEecceeccccCcccccc
Q 035971 92 FNGINATIVACGAKGSGKTRVIQGSYE---EPGLAALAVDEILSISEK----MGKSITISFYEIFQDHVYDLLDPKQQEV 164 (614)
Q Consensus 92 l~G~N~tI~aYGqTGSGKTyTm~G~~~---~~GLipral~~LF~~~~~----~~~sV~vS~~EIYnE~V~DLL~~~~~~l 164 (614)
++|+|+||||||+|||||||||+|+.. ++||+||++++||+.+.. ..+.|++||+|||+|.++|||++....+
T Consensus 73 ~~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~Giipr~~~~Lf~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~~~~l 152 (325)
T cd01369 73 LNGYNGTIFAYGQTGSGKTYTMEGPPGDPELKGIIPRIVHDIFEHISSMDENLEFHVKVSYLEIYMEKIRDLLDVSKDNL 152 (325)
T ss_pred HcCccceEEEeCCCCCCceEEecCCCCccccCChHHHHHHHHHHHHhhccCCceEEEEEEEEEEECCChhhcccCccCCc
Confidence 999999999999999999999999987 899999999999998764 4578999999999999999999988889
Q ss_pred eEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC---ccccceeEEEeCC
Q 035971 165 QILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN---FLPTGKMNFVDLA 241 (614)
Q Consensus 165 ~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~---~~~~skL~fVDLA 241 (614)
.+++++.++++++|++++.|.|++|+..++..|.++|+.++|.+|..|||||+||+|+|.+.+. ....|+|+|||||
T Consensus 153 ~i~~~~~~~~~v~gl~~~~v~s~~e~~~~i~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~s~l~~VDLA 232 (325)
T cd01369 153 QVHEDKNRGVYVKGLTERFVSSPEEVLEVINEGKSNRAVASTNMNEESSRSHSIFLITLKQENVETGSKKRGKLFLVDLA 232 (325)
T ss_pred eEEEcCCCCEEEcCCEEEEcCCHHHHHHHHHHHHhhcccccCcCCCccccccEEEEEEEEEEecCCCCEEEEEEEEEECC
Confidence 9999999999999999999999999999999999999999999999999999999999987654 3567999999999
Q ss_pred CccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC-CCccCCCChhhhhhhhccCCCceEEEEEEcCcC------c
Q 035971 242 GYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE-SHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------S 314 (614)
Q Consensus 242 GsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~-~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------T 314 (614)
|+|+..+.+..+.+++|+..||+||.+|++||.+|+.++ .|||||+|+||+||+|+|||+|+|+||+||+|. |
T Consensus 233 GsE~~~~~~~~~~~~~e~~~in~sl~~L~~vi~aL~~~~~~~vpyR~S~LT~lL~~~L~g~s~t~~I~~vsp~~~~~~eT 312 (325)
T cd01369 233 GSEKVSKTGAEGQTLEEAKKINKSLSALGNVINALTDGKSTHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSSYNESET 312 (325)
T ss_pred CCCcccccCCcchhHHHHHHHhHHHHHHHHHHHHHHcCCCCcCCCccCHHHHHHHHhcCCCCeEEEEEEeCCccccHHHH
Confidence 999999999999999999999999999999999999988 999999999999999999999999999999999 9
Q ss_pred hhHHHHHHhHhhhh
Q 035971 315 VSTTKTQTGSQMHS 328 (614)
Q Consensus 315 l~TL~~asr~~r~i 328 (614)
++||+||+|+ +.|
T Consensus 313 l~TL~~a~r~-~~i 325 (325)
T cd01369 313 LSTLRFGARA-KTI 325 (325)
T ss_pred HHHHHHHHHh-hcC
Confidence 9999999999 654
No 16
>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=8.5e-70 Score=573.78 Aligned_cols=304 Identities=26% Similarity=0.423 Sum_probs=276.2
Q ss_pred CeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcC
Q 035971 15 KARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFNG 94 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G 94 (614)
+|+|+||+||+...|.....++..... + +.+.+ .++ ...+.|.||+||+++++|++||+..+.|+|+++++|
T Consensus 1 ~V~V~vRvRP~~~~e~~~~~~~~~~~~---~-~~v~~--~~~--~~~~~f~fd~vf~~~~~q~~vy~~~~~p~v~~~l~G 72 (321)
T cd01374 1 KIKVSVRVRPLNPRESDNEQVAWSIDN---D-NTISL--EES--TPGQSFTFDRVFGGESTNREVYERIAKPVVRSALEG 72 (321)
T ss_pred CeEEEEEcCcCCcccccCCcceEEECC---C-CEEEE--cCC--CCCeEEecCeEECCCCCHHHHHHHHHHHHHHHHHCC
Confidence 699999999999887654444433321 1 23333 222 456899999999999999999999999999999999
Q ss_pred CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc---cCceEEEEEEEEecceeccccCcccccceEEecCC
Q 035971 95 INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK---MGKSITISFYEIFQDHVYDLLDPKQQEVQILENGQ 171 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~---~~~sV~vS~~EIYnE~V~DLL~~~~~~l~i~ed~~ 171 (614)
+|+||||||+|||||||||+|+..++||+||++++||..+.+ ..+.|++||+|||+|+|+|||++....+.+++++.
T Consensus 73 ~n~~i~ayG~tgSGKT~T~~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL~~~~~~l~i~~~~~ 152 (321)
T cd01374 73 YNGTIFAYGQTSSGKTFTMSGDEQEPGIIPLAVRDIFQRIQDTPDREFLLRVSYLEIYNEKIKDLLSPSPQELRIREDPN 152 (321)
T ss_pred CceeEEeecCCCCCCceeccCCCCCCchHHHHHHHHHHHHhcccCceEEEEEEEEEEEcCEeEEccCCCCCCceEEECCC
Confidence 999999999999999999999999999999999999998763 46789999999999999999999988999999999
Q ss_pred CceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------ccccceeEEEeCCCccc
Q 035971 172 GKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------FLPTGKMNFVDLAGYQD 245 (614)
Q Consensus 172 ~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~~~~skL~fVDLAGsEr 245 (614)
+++++.|++++.|.|++|+.++|..|.++|+.+.|..|..|||||+||+|+|.+... ....|+|+||||||+|+
T Consensus 153 ~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~~s~l~~vDLAGsE~ 232 (321)
T cd01374 153 KGVVVAGLTEEIVTSPEHLLQLIARGEKNRHVGETDFNERSSRSHTIFQLTIESRERGDSESGTVRVSTLNLIDLAGSER 232 (321)
T ss_pred CCEEeCCceEEEeCCHHHHHHHHHHHHhccccccCcCCCccccccEEEEEEEEEEecCCCCCCcEEEEEEEEEECCCCCc
Confidence 999999999999999999999999999999999999999999999999999988763 34569999999999999
Q ss_pred cccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC--CCccCCCChhhhhhhhccCCCceEEEEEEcCcC------chhH
Q 035971 246 IRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE--SHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SVST 317 (614)
Q Consensus 246 ~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~--~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl~T 317 (614)
..+.+ .+.+++|+..||+||.+|++||.+|++++ .|||||+||||+||+|+|||+|+|+||+||+|. |++|
T Consensus 233 ~~~~~-~~~~~~e~~~iN~Sl~~L~~vi~al~~~~~~~~vpyR~SkLT~lL~~~L~g~s~t~~i~~vsp~~~~~~eTl~T 311 (321)
T cd01374 233 ASQTG-AGERRKEGSFINKSLLTLGTVISKLSEGKNSGHIPYRDSKLTRILQPSLSGNARTAIICTISPASSHVEETLNT 311 (321)
T ss_pred cccCC-CCccccccchhhhHHHHHHHHHHHHHhcCCCCcCCCcCCHHHHHHHHhcCCCceEEEEEEeCCccccHHHHHHH
Confidence 99988 88999999999999999999999999986 999999999999999999999999999999998 9999
Q ss_pred HHHHHhHhhhh
Q 035971 318 TKTQTGSQMHS 328 (614)
Q Consensus 318 L~~asr~~r~i 328 (614)
|+||+|+ ++|
T Consensus 312 L~~a~r~-~~i 321 (321)
T cd01374 312 LKFASRA-KKV 321 (321)
T ss_pred HHHHHHH-hcC
Confidence 9999999 543
No 17
>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=3.4e-69 Score=573.51 Aligned_cols=303 Identities=31% Similarity=0.515 Sum_probs=275.1
Q ss_pred CeEEEEEeCCCCChhhccC--CcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHh
Q 035971 15 KARVIAKIRGFADLEAESA--NWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVF 92 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~~--~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl 92 (614)
+|+|+||+||+.+.|...+ .++.+.. + + . .+.+.+ .+.|.||+||+++++|++||+..+.|+|++++
T Consensus 2 ~i~V~vRvRP~~~~e~~~~~~~~~~~~~--~-~-~--~v~~~~-----~~~f~FD~vf~~~~~q~~vy~~~~~plv~~~~ 70 (341)
T cd01372 2 SVRVAVRVRPLLPKELLEGCQVCVSVVP--G-E-P--QVTVGT-----DKSFTFDYVFDPSTSQEEVYNTCVAPLVDGLF 70 (341)
T ss_pred CeEEEEECCCCCchhcccCCCeEEEEeC--C-C-C--EEEecC-----CcEEeccccCCCCCCHHHHHHHHHHHHHHHHh
Confidence 6999999999998887653 3444432 1 1 2 333332 57899999999999999999999999999999
Q ss_pred cCCceEEEeeccCCCCcceEeecCC------CCcchhHHHHHHHHhhccc----cCceEEEEEEEEecceeccccCcc--
Q 035971 93 NGINATIVACGAKGSGKTRVIQGSY------EEPGLAALAVDEILSISEK----MGKSITISFYEIFQDHVYDLLDPK-- 160 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G~~------~~~GLipral~~LF~~~~~----~~~sV~vS~~EIYnE~V~DLL~~~-- 160 (614)
+|+|+||||||+|||||||||+|+. .++||+||++++||+.++. ..+.|.|||+|||+|+++|||++.
T Consensus 71 ~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~~~~Giipr~~~~LF~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL~~~~~ 150 (341)
T cd01372 71 EGYNATVLAYGQTGSGKTYTMGTAFTASEDEEEVGIIPRAIQHIFKKIDEKKDEPDFQLKVSFLELYNEEVRDLLSPSTS 150 (341)
T ss_pred CCCccceeeecCCCCCCcEEecCCCccccccccCChHHHHHHHHHHHHHhccccceEEEEEEEEEeECCeeecCCCCccc
Confidence 9999999999999999999999974 5799999999999999874 456999999999999999999987
Q ss_pred -cccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----------
Q 035971 161 -QQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN----------- 228 (614)
Q Consensus 161 -~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~----------- 228 (614)
...+.+++++.++++|.|++++.|.|++|++.++..|..+|+..+|.+|..|||||+||+|+|.+...
T Consensus 151 ~~~~l~i~e~~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~~~~~~~~~~~ 230 (341)
T cd01372 151 EKSPIQIREDSKGNIIIVGLTEVTVNSAQEVMSCLEQGSLSRTTASTAMNSQSSRSHAIFTITLEQTRKNGPIAPMSGDD 230 (341)
T ss_pred CCCCceEEECCCCCEecCCCEEEEECCHHHHHHHHHHHHHhcccccccCCCccCcCcEEEEEEEEEEecCCccccccccC
Confidence 46899999999999999999999999999999999999999999999999999999999999988654
Q ss_pred --ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC---CCccCCCChhhhhhhhccCCCce
Q 035971 229 --FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE---SHVPYRESKLTRMLQESLGCKSK 303 (614)
Q Consensus 229 --~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~---~~vPyRdSkLTrLLqdsLgGnsk 303 (614)
....|+|+||||||+|+..+.+..+.+++|+..||+||.+|++||.+|+.++ .|||||+|+||+||+|+|||+++
T Consensus 231 ~~~~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~in~sl~aL~~vi~al~~~~~~~~~ipyR~S~LT~lL~~~Lgg~s~ 310 (341)
T cd01372 231 KNSTLTSKFHFVDLAGSERLKKTGATGDRLKEGISINSGLLALGNVISALGDESKKGSHVPYRDSKLTRLLQDSLGGNSH 310 (341)
T ss_pred CCceeeEEEEEEECCCCcccccccCchhHhHHHHHHhHHHHHHHHHHHHHHhcCCCCCCCCCcccHHHHHHHHhcCCCce
Confidence 2457999999999999999999999999999999999999999999999876 79999999999999999999999
Q ss_pred EEEEEEcCcC------chhHHHHHHhHhhhhh
Q 035971 304 ILMLTCLLPR------SVSTTKTQTGSQMHSS 329 (614)
Q Consensus 304 t~mI~~vsP~------Tl~TL~~asr~~r~i~ 329 (614)
|+||+||+|. |++||+||+++ +.|+
T Consensus 311 t~~I~~vsp~~~~~~eTl~tL~~a~~~-~~ik 341 (341)
T cd01372 311 TLMIACVSPADSNFEETLNTLKYANRA-RNIK 341 (341)
T ss_pred EEEEEEeCCChhhHHHHHHHHHHHHHh-ccCC
Confidence 9999999998 99999999999 7764
No 18
>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=4.1e-69 Score=571.48 Aligned_cols=302 Identities=26% Similarity=0.436 Sum_probs=272.7
Q ss_pred CeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCC-------CCCceeeEeeeeecCCCChHHHHhhhhHHH
Q 035971 15 KARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQP-------SSRKECYKLDYCYEQNEGNGIIFAREVKPL 87 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~-------~~~~~~F~FD~VF~~~asQ~eVf~~~v~pl 87 (614)
+|+|+||+||+...+. ..+.+.. +...+++..+... ....+.|.||+||++ ++|++||+.++.|+
T Consensus 1 ~i~V~vRvRP~~~~~~---~~~~~~~----~~~~~~~~~p~~~~~~~~~~~~~~~~f~FD~vf~~-~~q~~vy~~~~~p~ 72 (334)
T cd01375 1 TIQVFVRVRPTPTKQG---SSIKLGP----DGKSVSSNLPKDLVRGVVNNQQEDFSFKFDGVFHN-ASQEEVYETVAKPV 72 (334)
T ss_pred CeEEEEECCCCCCCCC---ccEEEcC----CCCEEEEecccccccccccCCcCceEEEcCcccCC-CCHHHHHHHHHHHH
Confidence 5899999999987442 3344432 4445566554332 134578999999999 99999999999999
Q ss_pred HHHHhcCCceEEEeeccCCCCcceEeecCC---CCcchhHHHHHHHHhhccc---cCceEEEEEEEEecceeccccCccc
Q 035971 88 ISEVFNGINATIVACGAKGSGKTRVIQGSY---EEPGLAALAVDEILSISEK---MGKSITISFYEIFQDHVYDLLDPKQ 161 (614)
Q Consensus 88 V~~vl~G~N~tI~aYGqTGSGKTyTm~G~~---~~~GLipral~~LF~~~~~---~~~sV~vS~~EIYnE~V~DLL~~~~ 161 (614)
|+++++|+|+||||||+|||||||||+|+. .++||+||++++||+.++. ..+.|++||+|||+|+++|||++..
T Consensus 73 v~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL~~~~ 152 (334)
T cd01375 73 VDSALDGYNGTIFAYGQTGAGKTFTMTGGTESYKDRGLIPRALEQVFREVAMRATKTYTVHVSYLEIYNEQLYDLLGDTP 152 (334)
T ss_pred HHHHhCCCccceeeecCCCCCCeEEccCCCCcccCCchHHHHHHHHHHHHHhccCcceEEEEEEEEEECCEeecCCCCCc
Confidence 999999999999999999999999999976 4789999999999998873 4689999999999999999999874
Q ss_pred ------ccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----cc
Q 035971 162 ------QEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-----FL 230 (614)
Q Consensus 162 ------~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-----~~ 230 (614)
+.+.+++++.++++|+|++++.|.+++|++.++..|..+|+.++|.+|..|||||+||+|++.+... ..
T Consensus 153 ~~~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~~~~~g~~~R~~~~t~~n~~sSRSH~i~~l~v~~~~~~~~~~~~ 232 (334)
T cd01375 153 EALESLPAVTILEDSEQNIHVKGLSLHSATTEEEALNLLFLGETNRTIAETSMNQASSRSHCIFTIHLESRSREAGSEVV 232 (334)
T ss_pred cccccCCceEEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccCcCcCCcCcCeEEEEEEEEEEecCCCCCce
Confidence 5799999999999999999999999999999999999999999999999999999999999998632 35
Q ss_pred ccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC-CCccCCCChhhhhhhhccCCCceEEEEEE
Q 035971 231 PTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE-SHVPYRESKLTRMLQESLGCKSKILMLTC 309 (614)
Q Consensus 231 ~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~-~~vPyRdSkLTrLLqdsLgGnskt~mI~~ 309 (614)
..|+|+||||||+|+..+.+..+..++|+..||+||.+|++||.+|++++ .|||||+||||+||+|+|||+|+|+||+|
T Consensus 233 ~~s~l~~VDLAGsEr~~~~~~~~~~~~e~~~iN~SL~~L~~vi~~l~~~~~~~ipyRdSkLT~lL~d~Lgg~~~t~~I~~ 312 (334)
T cd01375 233 RLSKLNLVDLAGSERVSKTGVSGQVLKEAKYINKSLSFLEQVINALSEKARTHVPYRNSKLTHVLRDSLGGNCKTVMLAT 312 (334)
T ss_pred EEEEEEEEECCCCCccccccCchhhhhhhhhhhhhHHHHHHHHHHHHhCCCCCCCCcccHHHHHHHHhcCCCceEEEEEE
Confidence 57999999999999999999999999999999999999999999999988 99999999999999999999999999999
Q ss_pred cCcC------chhHHHHHHhH
Q 035971 310 LLPR------SVSTTKTQTGS 324 (614)
Q Consensus 310 vsP~------Tl~TL~~asr~ 324 (614)
|+|. |++||+||+|+
T Consensus 313 vsp~~~~~~eTl~TL~fa~r~ 333 (334)
T cd01375 313 IWVEPSNLDETLSTLRFAQRV 333 (334)
T ss_pred eCCchhhHHHHHHHHHHHHhc
Confidence 9998 99999999997
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=1.9e-68 Score=565.24 Aligned_cols=310 Identities=28% Similarity=0.483 Sum_probs=281.6
Q ss_pred CCCeEEEEEeCCCCChhhcc-CCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHH
Q 035971 13 SKKARVIAKIRGFADLEAES-ANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEV 91 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~-~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~v 91 (614)
+|+|+|+||+||+.+.|... ..++.+... +.. +|.+.+. ....+.|.||+||+++++|++||+. +.|+|+++
T Consensus 1 ~~~i~V~vRirP~~~~e~~~~~~~~~~~~~---~~~--~i~~~~~-~~~~~~f~fD~vf~~~~~q~~v~~~-v~p~v~~~ 73 (329)
T cd01366 1 KGNIRVFCRVRPLLPSESTEYSSVISFPDE---DGG--TIELSKG-TGKKKSFSFDRVFDPDASQEDVFEE-VSPLVQSA 73 (329)
T ss_pred CCCEEEEEEcCcCCccccCCCccEEEEcCC---Cce--EEEEeCC-CCCceEEecCEEECCCCCHHHHHHH-HHHHHHHH
Confidence 48999999999999887533 445555431 222 4444332 3457899999999999999999996 79999999
Q ss_pred hcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc-----cCceEEEEEEEEecceeccccCcc---ccc
Q 035971 92 FNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK-----MGKSITISFYEIFQDHVYDLLDPK---QQE 163 (614)
Q Consensus 92 l~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~sV~vS~~EIYnE~V~DLL~~~---~~~ 163 (614)
++|+|+||||||+|||||||||+|+..++||+||++++||+.++. ..+.|++||+|||+|+++|||++. ...
T Consensus 74 ~~G~~~~i~ayG~tgSGKT~tl~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~~~~~~~ 153 (329)
T cd01366 74 LDGYNVCIFAYGQTGSGKTYTMEGPPENPGIIPRALEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATKPAPKKK 153 (329)
T ss_pred hCCCceEEEEeCCCCCCCcEEecCCCCCCCcHHHHHHHHHHHHHhhhccCceEEEEEEEEEEECCEeEECCCCCcCCCCc
Confidence 999999999999999999999999999999999999999998763 457899999999999999999987 678
Q ss_pred ceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC---ccccceeEEEeC
Q 035971 164 VQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN---FLPTGKMNFVDL 240 (614)
Q Consensus 164 l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~---~~~~skL~fVDL 240 (614)
+.+++++.+++++.|++++.|.|++|+.+++..|..+|....|.+|..|||||+||+|+|.+.+. ....|+|+||||
T Consensus 154 l~i~~~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~~~~~~~s~l~~VDL 233 (329)
T cd01366 154 LEIKHDSKGETYVTNLTEVPVSSPEEVTRLLNLGSKNRSVASTNMNEHSSRSHAVFQLKIRGTNLQTGEQTRGKLNLVDL 233 (329)
T ss_pred eEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHHHhhcccccccccCCCCCccEEEEEEEEEEcCCCCcEEEEEEEEEEC
Confidence 99999999999999999999999999999999999999999999999999999999999987654 456799999999
Q ss_pred CCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------c
Q 035971 241 AGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------S 314 (614)
Q Consensus 241 AGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------T 314 (614)
||+|+..+.+..+.+++|+..||+||.+|++||.+|+.+..|||||+|+||+||+|+|||+++|+||+||||. |
T Consensus 234 aGsE~~~~~~~~~~~~~e~~~in~Sl~~L~~vl~~l~~~~~~ipyr~S~LT~lL~~~l~g~~~t~~i~~vsp~~~~~~et 313 (329)
T cd01366 234 AGSERLKKSGATGDRLKEAQAINKSLSALGDVISALRSKDSHVPYRNSKLTYLLQDSLGGNSKTLMFVNISPLESNLSET 313 (329)
T ss_pred CCCcccccccccchhhHhHhhhhhHHHHHHHHHHHHhcCCCcCCCcccHhHHHHHHhcCCCceEEEEEEeCCchhhHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999998 9
Q ss_pred hhHHHHHHhHhhhhhc
Q 035971 315 VSTTKTQTGSQMHSST 330 (614)
Q Consensus 315 l~TL~~asr~~r~i~n 330 (614)
++||+||+++ +.|++
T Consensus 314 l~tL~~a~~~-~~i~~ 328 (329)
T cd01366 314 LCSLRFASRV-RSVEL 328 (329)
T ss_pred HHHHHHHHHh-hcccC
Confidence 9999999999 87775
No 20
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=100.00 E-value=2.7e-69 Score=610.02 Aligned_cols=329 Identities=27% Similarity=0.417 Sum_probs=293.9
Q ss_pred CCCCCCCCCCCCCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCC-CCceeeEeeeeecCCCChHHHHh
Q 035971 3 RTKADTGLNISKKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPS-SRKECYKLDYCYEQNEGNGIIFA 81 (614)
Q Consensus 3 r~~~~~~~~~~~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~-~~~~~F~FD~VF~~~asQ~eVf~ 81 (614)
|+.++..++..|+|||||||||+.+.+........+.. ++. ..+.+..++... ...+.|.||+||+|.++|++||.
T Consensus 303 ~kL~N~i~eLkGnIRV~CRvRP~~~~e~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~~f~fdkVf~p~~sQ~~VF~ 379 (670)
T KOG0239|consen 303 RKLHNEILELKGNIRVFCRVRPLLPSEKQRLQSKVIDT--EEQ-GEVQVDSPDKGDKLEPQSFKFDKVFGPLASQDDVFE 379 (670)
T ss_pred HHHHHHHHHhhcCceEEEEecCCCcccccccccccccc--CCc-ceeEeecCCCCCCCccccceeeeecCCcccHHHHHH
Confidence 46778889999999999999999998876422222221 111 334554443322 22346999999999999999997
Q ss_pred hhhHHHHHHHhcCCceEEEeeccCCCCcceEeec-CCCCcchhHHHHHHHHhhcc----ccCceEEEEEEEEecceeccc
Q 035971 82 REVKPLISEVFNGINATIVACGAKGSGKTRVIQG-SYEEPGLAALAVDEILSISE----KMGKSITISFYEIFQDHVYDL 156 (614)
Q Consensus 82 ~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G-~~~~~GLipral~~LF~~~~----~~~~sV~vS~~EIYnE~V~DL 156 (614)
.+.|+|+++++|||+||||||||||||||||.| +.+++||+||++++||..+. .+.|.+.++|+|||||.|+||
T Consensus 380 -e~~~lv~S~lDGYnVCIFAYGQTGSGKTyTM~G~~~~~~Giipral~~lF~~~~~~~~g~~y~~~~s~~EIYNe~i~Dl 458 (670)
T KOG0239|consen 380 -EVSPLVQSALDGYNVCIFAYGQTGSGKTYTMSGPTPEDPGIIPRALEKLFRTITSLKSGWKYDKTVSMLEIYNEAIRDL 458 (670)
T ss_pred -HHHHHHHHHhcCcceeEEEecccCCCccccccCCCcccCCccHHHHHHHHHHHHhhccCceEEeeeehhHHHHHHHHHh
Confidence 899999999999999999999999999999999 68999999999999998877 367899999999999999999
Q ss_pred cCcc--cccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC---ccc
Q 035971 157 LDPK--QQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN---FLP 231 (614)
Q Consensus 157 L~~~--~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~---~~~ 231 (614)
|++. ...+.|++++.++++|.+++.+.|.+.+++..++..|..+|++++|.+|.+|||||+||+|+|...+. ...
T Consensus 459 L~~~~~~~k~~I~~~~~~~~~V~~~t~~~V~s~~~v~~ll~~g~~nRsv~~T~~Ne~SSRSH~v~~v~v~g~~~~t~~~~ 538 (670)
T KOG0239|consen 459 LSDESYVGKLEIVDDAEGNLMVPLLTVIKVGSSEEVDILLEIGLSNRSVASTASNERSSRSHLVFRVRIRGINELTGIRV 538 (670)
T ss_pred ccccccccceeEEEcCCCceecccceEEecCCHHHHHHHHHHhhccccccccccchhhhccceEEEEEEeccccCccccc
Confidence 9987 47799999999999999999999999999999999999999999999999999999999999988755 567
Q ss_pred cceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcC
Q 035971 232 TGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLL 311 (614)
Q Consensus 232 ~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vs 311 (614)
.+.|+|||||||||..+++..|.|++|+..||+||++|++||.||+.+..||||||||||+||||+|||+++|+|+++||
T Consensus 539 ~g~l~LVDLAGSER~~~s~~tG~RlkE~Q~INkSLS~LgdVi~AL~~k~~HiPyRNSKLT~lLq~sLGG~sKTLmfv~is 618 (670)
T KOG0239|consen 539 TGVLNLVDLAGSERVSKSGVTGERLKEAQNINKSLSALGDVISALASKRSHIPYRNSKLTQLLQDSLGGDSKTLMFVNIS 618 (670)
T ss_pred ccceeEeecccCcccCcCCCchhhhHHHHHhchhhhhhHHHHHHHhhcCCCCcccccchHHHhHhhhCCccceeeEEEeC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC------chhHHHHHHhHhhhhhcCCCccc
Q 035971 312 PR------SVSTTKTQTGSQMHSSTKKATGV 336 (614)
Q Consensus 312 P~------Tl~TL~~asr~~r~i~nk~~~~~ 336 (614)
|. |+++|+||+|+ +.+...+....
T Consensus 619 P~~~~~~Etl~sL~FA~rv-~~~~lG~a~~~ 648 (670)
T KOG0239|consen 619 PAAAALFETLCSLRFATRV-RSVELGSARKQ 648 (670)
T ss_pred ccHHHHhhhhhccchHHHh-hceeccccccc
Confidence 99 99999999999 88877655433
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=7.6e-67 Score=553.97 Aligned_cols=315 Identities=29% Similarity=0.478 Sum_probs=287.4
Q ss_pred CeEEEEEeCCCCChhhcc--CCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHh
Q 035971 15 KARVIAKIRGFADLEAES--ANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVF 92 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~~--~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl 92 (614)
+|+|+||+||+...|... .+++.+... +...+++.-. ......+.|.||+||+++++|++||+.++.|+|++++
T Consensus 1 ~v~v~vRvrP~~~~e~~~~~~~~~~~~~~---~~~~v~~~~~-~~~~~~~~f~fD~vf~~~~~q~~v~~~~~~p~v~~~~ 76 (335)
T smart00129 1 NIRVVVRVRPLNKREKSRKSPSVVPFDDK---DGKTLNVNSP-KNRKEEKKFTFDKVFGATASQEDVFEETAAPLVDSVL 76 (335)
T ss_pred CcEEEEEcCcCCccchhcCCceEEEEcCC---CCCEEEEeCC-CCCCCCeEEecCEEECCCCChHHHHHHHHHHHHHHHh
Confidence 689999999999887654 556666532 3345554332 2335578999999999999999999999999999999
Q ss_pred cCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc----cCceEEEEEEEEecceeccccCcccccceEEe
Q 035971 93 NGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK----MGKSITISFYEIFQDHVYDLLDPKQQEVQILE 168 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~----~~~sV~vS~~EIYnE~V~DLL~~~~~~l~i~e 168 (614)
+|+|+|||+||++||||||||+|+.+++||+||++++||+.+.+ ..++|+|||+|||+|+++|||++....+.+++
T Consensus 77 ~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~v~~S~~ei~~e~v~DLL~~~~~~l~i~~ 156 (335)
T smart00129 77 EGYNATIFAYGQTGSGKTYTMSGTPDSPGIIPRALKDLFEKIDKLEEGWQFQVKVSYLEIYNEKIRDLLNPSPKKLEIRE 156 (335)
T ss_pred cCCceeEEEeCCCCCCCceEecCCCCCCCHHHHHHHHHHHHhhhcccCceEEEEEEEEEEECCEEEECcCCCCCCcEEEE
Confidence 99999999999999999999999999999999999999998874 46889999999999999999999999999999
Q ss_pred cCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----ccccceeEEEeCCCc
Q 035971 169 NGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-----FLPTGKMNFVDLAGY 243 (614)
Q Consensus 169 d~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-----~~~~skL~fVDLAGs 243 (614)
++.++++++|++++.|.|++|+.+++..|..+|...+|.+|..|||||+||+|++.+... ....|+|+||||||+
T Consensus 157 ~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRsH~i~~l~v~~~~~~~~~~~~~~s~l~~VDLaGs 236 (335)
T smart00129 157 DKKGGVYVKGLTEISVSSFEEVYNLLEKGNKNRTVAATKMNEESSRSHAVFTITVESKIKNSSSGSGKASKLNLVDLAGS 236 (335)
T ss_pred CCCCCEEecCCEEEEeCCHHHHHHHHHHHHhccccccCCCCCCCCcceEEEEEEEEEEecCCCCCCEEEEEEEEEECCCC
Confidence 999999999999999999999999999999999999999999999999999999996521 456799999999999
Q ss_pred cccccccCccchhhhhHHhhhhHHHHHHHHHHHhc--CCCCccCCCChhhhhhhhccCCCceEEEEEEcCcC------ch
Q 035971 244 QDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA--NESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SV 315 (614)
Q Consensus 244 Er~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~--~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl 315 (614)
|+..+.+..+.+++|+..||+||.+|++||.+|++ +..|+|||+|+||+||+++|||+++++||+||+|. |+
T Consensus 237 e~~~~~~~~~~~~~e~~~in~sl~~L~~~l~~l~~~~~~~~ip~r~S~LT~lL~~~L~g~~~~~~i~~vsp~~~~~~eTl 316 (335)
T smart00129 237 ERASKTGAEGDRLKEAGNINKSLSALGNVINALADGQKSRHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSLSNLEETL 316 (335)
T ss_pred CccccccChhHHHHhhchhhhHHHHHHHHHHHHHhcCCCCCCCCcCcHhHHHHHHHcCCCCeEEEEEEcCCCccchHHHH
Confidence 99999999999999999999999999999999998 56799999999999999999999999999999997 99
Q ss_pred hHHHHHHhHhhhhhcCCCc
Q 035971 316 STTKTQTGSQMHSSTKKAT 334 (614)
Q Consensus 316 ~TL~~asr~~r~i~nk~~~ 334 (614)
+||+||+++ ++|+++|+.
T Consensus 317 ~tL~~a~~~-~~i~~~p~~ 334 (335)
T smart00129 317 STLRFASRA-KEIKNKAIV 334 (335)
T ss_pred HHHHHHHHH-hhcccCCCc
Confidence 999999999 999999875
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=7e-66 Score=544.75 Aligned_cols=305 Identities=30% Similarity=0.535 Sum_probs=278.6
Q ss_pred CeEEEEEeCCCCChhhc-cCCcEEEeCCCCCCCCeEEEEeCCC-CCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHh
Q 035971 15 KARVIAKIRGFADLEAE-SANWVCIQKPNGEDSDSVTVSFGEQ-PSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVF 92 (614)
Q Consensus 15 ~VrV~vRvRP~~~~e~~-~~~~v~v~~~~~~d~~~v~v~~~~~-~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl 92 (614)
+|+|+||+||+...|.. ...++.+.. .+.|.+..+.. .....+.|.||+||+++++|++||+.++.|+|++++
T Consensus 1 ~i~V~vRvrP~~~~~~~~~~~~~~~~~-----~~~v~~~~~~~~~~~~~~~f~fd~vf~~~~~q~~v~~~~~~~~v~~~~ 75 (328)
T cd00106 1 NIRVVVRIRPLNGRESKSEESCITVDD-----NKTVTLTPPKDGRKAGPKSFTFDHVFDPNSTQEDVYETTAKPLVESVL 75 (328)
T ss_pred CeEEEEEcCCCCcccccCCCcEEEECC-----CCEEEEecCccccCcCceEEECCeEEcCCCCHHHHHHHHHHHHHHHHh
Confidence 69999999999877632 355666642 14455433221 124578999999999999999999999999999999
Q ss_pred cCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhcccc-----CceEEEEEEEEecceeccccCcc--cccce
Q 035971 93 NGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKM-----GKSITISFYEIFQDHVYDLLDPK--QQEVQ 165 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~-----~~sV~vS~~EIYnE~V~DLL~~~--~~~l~ 165 (614)
+|+|+|||+||++||||||||+|+.+++||+||++++||+.+... .+.|++||+|||+|+|+|||++. ...+.
T Consensus 76 ~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~~v~~S~~Ei~~e~v~DLL~~~~~~~~l~ 155 (328)
T cd00106 76 EGYNGTIFAYGQTGSGKTYTMFGSPKDPGIIPRALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSPEPPSKPLS 155 (328)
T ss_pred CCCceeEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEECCEeEECCCCCCCCCCcE
Confidence 999999999999999999999999999999999999999998854 47899999999999999999998 88899
Q ss_pred EEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCc-----cccceeEEEeC
Q 035971 166 ILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNF-----LPTGKMNFVDL 240 (614)
Q Consensus 166 i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~-----~~~skL~fVDL 240 (614)
+++++.+++++.|++++.|.|++|+++++..|..+|....|..|..|||||+||+|++.+.... ...|+|+||||
T Consensus 156 i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~s~l~~VDL 235 (328)
T cd00106 156 LREDPKGGVYVKGLTEVEVGSAEDALSLLQKGLKNRTTASTAMNERSSRSHAIFTIHVEQRNTTNDGRSIKSSKLNLVDL 235 (328)
T ss_pred EEEcCCCCEEEeCCEEEEeCCHHHHHHHHHHHHhhcCcccCcCCCCcCcCcEEEEEEEEEEecCCCCccEEEEEEEEEEC
Confidence 9999999999999999999999999999999999999999999999999999999999987762 45799999999
Q ss_pred CCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCC--CCccCCCChhhhhhhhccCCCceEEEEEEcCcC-----
Q 035971 241 AGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANE--SHVPYRESKLTRMLQESLGCKSKILMLTCLLPR----- 313 (614)
Q Consensus 241 AGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~--~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~----- 313 (614)
||+|+..+.+..+.++.|+..||+||.+|++||.+|+.++ .|||||+||||+||||+|||+++++||+||+|.
T Consensus 236 aGse~~~~~~~~~~~~~e~~~in~sl~~L~~vl~~l~~~~~~~~ip~r~SkLT~lL~~~l~g~~~t~~I~~vsp~~~~~~ 315 (328)
T cd00106 236 AGSERAKKTGAEGDRLKEAKNINKSLSALGNVISALSSGQKKKHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSSENYD 315 (328)
T ss_pred CCCCcccccCCchhhhHhHHhhhhhHHHHHHHHHHHHhcCCCCcCCCcCcHHHHHHHHhcCCCCeEEEEEEeCCchhhHH
Confidence 9999999998999999999999999999999999999988 999999999999999999999999999999999
Q ss_pred -chhHHHHHHhH
Q 035971 314 -SVSTTKTQTGS 324 (614)
Q Consensus 314 -Tl~TL~~asr~ 324 (614)
|++||+||+|+
T Consensus 316 eTl~tL~~a~r~ 327 (328)
T cd00106 316 ETLSTLRFASRA 327 (328)
T ss_pred HHHHHHHHHHhc
Confidence 99999999997
No 23
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=3.2e-67 Score=577.37 Aligned_cols=336 Identities=26% Similarity=0.390 Sum_probs=291.9
Q ss_pred CCCeEEEEEeCCCCChhhcc-CCc-EEEeCCCCCCCCeEEEEeCCCCC-----CCceeeEeeeeecCC-------CChHH
Q 035971 13 SKKARVIAKIRGFADLEAES-ANW-VCIQKPNGEDSDSVTVSFGEQPS-----SRKECYKLDYCYEQN-------EGNGI 78 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~-~~~-v~v~~~~~~d~~~v~v~~~~~~~-----~~~~~F~FD~VF~~~-------asQ~e 78 (614)
..+|||+|||||+..+|.+. ..| +.+ +++..+++.+.+.. ..+++|.||+||++- +.|+.
T Consensus 3 ~~kVkVaVRVRP~nrREl~l~tk~vv~v------d~~q~vl~~~pp~~~~~~~k~pktFAFDhcF~s~dpes~n~agQE~ 76 (1714)
T KOG0241|consen 3 DAKVKVAVRVRPMNRRELELSTKCVVEV------DKNQTVLHPPPPNHKIGESKGPKTFAFDHCFWSMDPESKNYAGQET 76 (1714)
T ss_pred CcceEEEEEecccchhhhcccccceEEe------ccCceeecCCCccccccccCCCceeecccccccCCccccccccchh
Confidence 36899999999999998765 333 344 34455666553321 447899999999764 57999
Q ss_pred HHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc-----cCceEEEEEEEEeccee
Q 035971 79 IFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK-----MGKSITISFYEIFQDHV 153 (614)
Q Consensus 79 Vf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-----~~~sV~vS~~EIYnE~V 153 (614)
||+....-+|+.+|+|||+||||||||||||||||+|..++||||||++..||..+.+ ..|+|.|||+|||||++
T Consensus 77 Vf~~lG~~il~naf~GyNaCifaYGQtGsGKsYsmmGt~~QpGiIPrlc~~lFe~I~k~~n~~~tfkVeVSymEIynEkv 156 (1714)
T KOG0241|consen 77 VFKCLGEGILENAFQGYNACIFAYGQTGSGKSYSMMGTAEQPGIIPRLCESLFERIDKESNPSQTFKVEVSYMEIYNEKV 156 (1714)
T ss_pred HHHhcchHHHHHHhhccceeeEEecccCCCceeEeeccCCCCCchhHHHHHHHHHHHhccCCCceEEEEEEHHHHhhcch
Confidence 9999999999999999999999999999999999999999999999999999999873 55789999999999999
Q ss_pred ccccCccc--ccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC---
Q 035971 154 YDLLDPKQ--QEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN--- 228 (614)
Q Consensus 154 ~DLL~~~~--~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~--- 228 (614)
||||+|+. +.++++++.-.|.||.||++..|.|++|+..++..|.++|++++|++|..|+|||++|.|.|++.-.
T Consensus 157 ~DLLdPk~ssqtlkVrehsvlGp~vdGLS~laV~S~qdId~lm~egnKsrtvaatnmn~EssrsHaVFslvvtQ~l~D~k 236 (1714)
T KOG0241|consen 157 RDLLDPKGSSQTLKVREHSVLGPYVDGLSQLAVTSFQDIDSLMSEGNKSRTVAATNMNEESSRSHAVFSLVVTQTLYDLK 236 (1714)
T ss_pred hhhhCCCCCcceeEEeecccccccccchhhhhcccHHHHHHHHHhccccceeeeecccccccccceeEEEEEeeEEeccc
Confidence 99999864 5799999999999999999999999999999999999999999999999999999999999987533
Q ss_pred ----ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhc------CCCCccCCCChhhhhhhhcc
Q 035971 229 ----FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA------NESHVPYRESKLTRMLQESL 298 (614)
Q Consensus 229 ----~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~------~~~~vPyRdSkLTrLLqdsL 298 (614)
....|||.+|||||+||..+++..|.+++|+++||+||.+|+.||.+|+. +.++||||||.||+||||+|
T Consensus 237 tg~SgeKvsklslVDLAgserasktga~g~rlkegsNinkSLttLglVIsaLadq~n~kgkdKfvPYrDSVLTwLLkD~L 316 (1714)
T KOG0241|consen 237 TGHSGEKVSKLSLVDLAGSERASKTGAAGSRLKEGSNINKSLTTLGLVISALADQKNGKGKDKFVPYRDSVLTWLLKDNL 316 (1714)
T ss_pred cCcchhheeeeeEEEeccccccccccchhhhhhhcCCcchhhHHHHHHHHHHHHhhcCCCccccccchhHHHHHHHHhhc
Confidence 35679999999999999999999999999999999999999999999975 24599999999999999999
Q ss_pred CCCceEEEEEEcCcC------chhHHHHHHhHhhhhhcCCCccccccccccchHHHHHHHHHHHH
Q 035971 299 GCKSKILMLTCLLPR------SVSTTKTQTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFD 357 (614)
Q Consensus 299 gGnskt~mI~~vsP~------Tl~TL~~asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~ 357 (614)
||||+|+||+||||+ |++|||||.|+ ++|+|..+.|-.. -.+.+..+.++..+|..
T Consensus 317 GGNsrTvMiatvSPaAdnyeeTlStLRYadrA-krIvN~avvNedp--narvirElReEve~lr~ 378 (1714)
T KOG0241|consen 317 GGNSRTVMIATVSPAADNYEETLSTLRYADRA-KRIVNHAVVNEDP--NARVIRELREEVEKLRE 378 (1714)
T ss_pred CCCceeEEEEEecccccchHHHHHHHHHHHHH-HHhhccccccCCc--hHHHHHHHHHHHHHHHH
Confidence 999999999999996 99999999999 9999976544332 22334444444444433
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=8.7e-66 Score=545.52 Aligned_cols=306 Identities=32% Similarity=0.535 Sum_probs=268.3
Q ss_pred EeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEE
Q 035971 21 KIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIV 100 (614)
Q Consensus 21 RvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~ 100 (614)
||||+.+.|........+..... ...................|.||+||+++++|++||+.++.|+|+++|+|+|+|||
T Consensus 1 RvRP~~~~e~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~~q~~vy~~~~~~~v~~~l~G~n~~i~ 79 (335)
T PF00225_consen 1 RVRPLNESEKESSAESIVSVDNQ-DSNQNKQSVNSNNSQKEKSFRFDRVFDEDATQEDVYEEVVSPLVDSVLDGYNATIF 79 (335)
T ss_dssp EEES-CHHHHHTTTEBCEEEETT-ETEEEEEETTEEETTEEEEEEESEEEETTSTHHHHHHHHTHHHHHHHHTT-EEEEE
T ss_pred CcCCCCHHHHhCCCcEEEEecCC-ccccccccccccCCCCceEEEcCeEECCCCCHHHHHHHHHHHHHHHhhcCCceEEE
Confidence 99999999887754433321100 11112222223333557899999999999999999999999999999999999999
Q ss_pred eeccCCCCcceEeecC--CCCcchhHHHHHHHHhhccc------cCceEEEEEEEEecceeccccCcc----cccceEEe
Q 035971 101 ACGAKGSGKTRVIQGS--YEEPGLAALAVDEILSISEK------MGKSITISFYEIFQDHVYDLLDPK----QQEVQILE 168 (614)
Q Consensus 101 aYGqTGSGKTyTm~G~--~~~~GLipral~~LF~~~~~------~~~sV~vS~~EIYnE~V~DLL~~~----~~~l~i~e 168 (614)
|||+|||||||||+|+ ..++||+||++++||..++. ..+.|+|||+|||+|+|+|||++. ...+.+++
T Consensus 80 ayG~tgSGKT~Tm~G~~~~~~~Gli~~~~~~lf~~~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL~~~~~~~~~~l~i~~ 159 (335)
T PF00225_consen 80 AYGQTGSGKTYTMFGSNDPSEPGLIPRALRDLFSQIEERKEKSGYEFSVSVSYLEIYNEKVYDLLSPNNSKSRKPLKIRE 159 (335)
T ss_dssp EEESTTSSHHHHHTBSTSTTTBSHHHHHHHHHHHHHHHHTTTSTEEEEEEEEEEEEETTEEEETTSTTSSSTTSEBEEEE
T ss_pred eeccccccccccccccccccccchhhhHHHHHhhhhccccccccccccccccchhhhhhhhhhhcCccccccccccceee
Confidence 9999999999999999 89999999999999999875 357899999999999999999988 35799999
Q ss_pred cCCCc-eEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCc-------cccceeEEEeC
Q 035971 169 NGQGK-IQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNF-------LPTGKMNFVDL 240 (614)
Q Consensus 169 d~~~~-~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~-------~~~skL~fVDL 240 (614)
++..+ ++++|++++.|.+++|+..+|..|.++|+...+.+|..|||||+||+|+|.+.... ...|+|+||||
T Consensus 160 ~~~~g~~~i~~l~~~~v~s~~~~~~~l~~~~~~R~~~~t~~n~~sSRSH~i~~i~v~~~~~~~~~~~~~~~~s~l~~vDL 239 (335)
T PF00225_consen 160 DSNKGSVYIKGLTEVEVKSAEEALQLLKKGQKNRRTASTKMNARSSRSHAIFTIHVEQKDRDPSDDEESVKHSRLTFVDL 239 (335)
T ss_dssp ETTTEEEEETTSEEEEESSHHHHHHHHHHHHHHHTCTSSSCTHHGGGSEEEEEEEEEEEETTTTTEEEEEEEEEEEEEEE
T ss_pred ccccccceeeccccccccccccccccccchhhccccccccccccccccccccccccccccccccccccceeecceeeeec
Confidence 99866 99999999999999999999999999999999999999999999999999987652 36799999999
Q ss_pred CCccccccccCc-cchhhhhHHhhhhHHHHHHHHHHHhcC--CCCccCCCChhhhhhhhccCCCceEEEEEEcCcC----
Q 035971 241 AGYQDIRRKSTE-GSIFVENTKVNKSIYTLFNVVYALNAN--ESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR---- 313 (614)
Q Consensus 241 AGsEr~~k~~~~-g~~l~E~~~INkSL~aL~~vI~aL~~~--~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~---- 313 (614)
||+|+..+.... +.+++|+..||+||.+|++||.+|+.+ ..|+|||+||||+||+|+|||+|+|+||+||+|.
T Consensus 240 aGsE~~~~~~~~~~~~~~e~~~in~Sl~~L~~vi~~L~~~~~~~~vpyr~SkLT~lL~d~l~g~s~t~~I~~vsp~~~~~ 319 (335)
T PF00225_consen 240 AGSERLKKSGASDGQRLKESSNINKSLSALGNVIRALAQGSKQSHVPYRDSKLTRLLKDSLGGNSKTILIVCVSPSSEDY 319 (335)
T ss_dssp EESTGGCGCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHCTTSTSSSCGGGSHHHHHTGGGTSSSSEEEEEEEE-SBGGGH
T ss_pred ccccccccccccccccccccceecchhhhhhhhHhhhhccccchhhhhhcccccceecccccccccceeEEEcCCccccH
Confidence 999999988864 778999999999999999999999998 8999999999999999999999999999999999
Q ss_pred --chhHHHHHHhHhhhh
Q 035971 314 --SVSTTKTQTGSQMHS 328 (614)
Q Consensus 314 --Tl~TL~~asr~~r~i 328 (614)
|++||+||+++ +.|
T Consensus 320 ~eTl~tL~fa~~~-~~I 335 (335)
T PF00225_consen 320 EETLSTLRFASRA-REI 335 (335)
T ss_dssp HHHHHHHHHHHHH-TTE
T ss_pred HHHHHHHHHHHHH-cCC
Confidence 99999999999 654
No 25
>KOG0246 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.1e-63 Score=533.61 Aligned_cols=314 Identities=26% Similarity=0.437 Sum_probs=275.9
Q ss_pred CCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCC-----CCceeeEeeeeecCCCChHHHHhhhhHHHH
Q 035971 14 KKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPS-----SRKECYKLDYCYEQNEGNGIIFAREVKPLI 88 (614)
Q Consensus 14 ~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~-----~~~~~F~FD~VF~~~asQ~eVf~~~v~plV 88 (614)
.+|.|+||-||+...|......-.|..| ..+.+.|+-+.... -..+.|.||++|++.++++.||..+++|+|
T Consensus 208 hrI~VCVRKRPLnkkE~~~keiDvisvp---s~~~l~vHEpk~kVDLtkYlEn~~F~FDyaFDe~~sNe~VYrfTa~PlV 284 (676)
T KOG0246|consen 208 HRICVCVRKRPLNKKELTKKEIDVISVP---SKNVLVVHEPKLKVDLTKYLENQKFRFDYAFDESASNELVYRFTAKPLV 284 (676)
T ss_pred ceEEEEeecCCCCchhccccccceEecc---ccceEEeeccccccchHHHHhhceEEEeeecccccchHHHHHHhhhHHH
Confidence 6899999999999988766333222222 12233333221111 236899999999999999999999999999
Q ss_pred HHHhcCCceEEEeeccCCCCcceEeecCC------CCcchhHHHHHHHHhhccc-----cCceEEEEEEEEecceecccc
Q 035971 89 SEVFNGINATIVACGAKGSGKTRVIQGSY------EEPGLAALAVDEILSISEK-----MGKSITISFYEIFQDHVYDLL 157 (614)
Q Consensus 89 ~~vl~G~N~tI~aYGqTGSGKTyTm~G~~------~~~GLipral~~LF~~~~~-----~~~sV~vS~~EIYnE~V~DLL 157 (614)
+.+|+|.-+|+||||||||||||||.|+. ...||..++.+++|..+.. ..+.|++||||||+.+|||||
T Consensus 285 ~~IF~~G~ATCFAYGQTGSGKT~TMggdfsgk~q~~s~giya~aa~Dvf~~L~~p~Y~~~~l~v~~tFFEIYgGKvfDLL 364 (676)
T KOG0246|consen 285 KTIFEGGMATCFAYGQTGSGKTYTMGGDFSGKAQDCSKGIYALAARDVFRLLRQPTYRKLDLKVYVTFFEIYGGKVYDLL 364 (676)
T ss_pred HHHHhCCceeeeeeccCCCCceeecccccCcccccccccchhhhhhHHHHHhcccchhhcceEEEEEEEEEeCcchhhhh
Confidence 99999999999999999999999999864 2359999999999998874 556899999999999999999
Q ss_pred CcccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCccccceeEE
Q 035971 158 DPKQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNFLPTGKMNF 237 (614)
Q Consensus 158 ~~~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~~~~skL~f 237 (614)
+. +.++.++||+++.++|.||.+..|.+.+|++.++..|...|+++.|..|..|||||+||+|.+........+|++.|
T Consensus 365 ~~-k~KLrvLEDg~QQVqVVGLqE~~v~~~eeVl~lIe~Gns~RtsG~TsANs~SSRSHAvfQIilr~~~~~k~hGKfSl 443 (676)
T KOG0246|consen 365 ND-KKKLRVLEDGNQQVQVVGLQEEEVSGVEEVLELIEKGNSCRTSGQTSANSNSSRSHAVFQIILRKHGEFKLHGKFSL 443 (676)
T ss_pred cc-ccceEEeecCCceEEEeeceeeeccCHHHHHHHHHhcccccccCcccCcccccccceeEeeeeecCCcceeEeEEEE
Confidence 98 44599999999999999999999999999999999999999999999999999999999999988766677899999
Q ss_pred EeCCCcccccccc-CccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCC-CceEEEEEEcCcC--
Q 035971 238 VDLAGYQDIRRKS-TEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGC-KSKILMLTCLLPR-- 313 (614)
Q Consensus 238 VDLAGsEr~~k~~-~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgG-nskt~mI~~vsP~-- 313 (614)
|||||+||...+. +..++..|++.||+||+||..||.||..++.|+|||.||||++|+|||=| |++|+||+||||.
T Consensus 444 IDLAGnERGaDts~adRqtRlEGAEINKSLLALKECIRaLg~nk~H~PFR~SKLTqVLRDSFIGenSrTcMIA~ISPg~~ 523 (676)
T KOG0246|consen 444 IDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKSHLPFRGSKLTQVLRDSFIGENSRTCMIATISPGIS 523 (676)
T ss_pred EEccCCccCCcccccchhhhhhhhhhhHHHHHHHHHHHHhcCCCCCCCchhhhHHHHHHHhhcCCCCceEEEEEeCCCcc
Confidence 9999999987755 45678889999999999999999999999999999999999999999977 9999999999999
Q ss_pred ----chhHHHHHHhHhhhhhcCC
Q 035971 314 ----SVSTTKTQTGSQMHSSTKK 332 (614)
Q Consensus 314 ----Tl~TL~~asr~~r~i~nk~ 332 (614)
|++|||||.|+ +......
T Consensus 524 ScEhTLNTLRYAdRV-KeLsv~~ 545 (676)
T KOG0246|consen 524 SCEHTLNTLRYADRV-KELSVDG 545 (676)
T ss_pred hhhhhHHHHHHHHHH-HhhcCCC
Confidence 99999999999 7666543
No 26
>KOG0247 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=9.4e-60 Score=515.89 Aligned_cols=314 Identities=24% Similarity=0.425 Sum_probs=274.6
Q ss_pred CCCCCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCC--------CCCCCceeeEeeeeecCCCChHHHHhh
Q 035971 11 NISKKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFGE--------QPSSRKECYKLDYCYEQNEGNGIIFAR 82 (614)
Q Consensus 11 ~~~~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~--------~~~~~~~~F~FD~VF~~~asQ~eVf~~ 82 (614)
+....|.|+||+||+.+ ..++..|+.|.+ ...+.+..+. ......+.|.|-+||+|+++|.+||+.
T Consensus 28 ~~~d~v~v~~rvrP~~~-~~~~~g~l~v~n-----~~tivL~~P~d~~~~~~~n~~q~e~~fsFt~VF~p~~tQ~dvF~~ 101 (809)
T KOG0247|consen 28 ESKDPVLVVCRVRPLSD-ASEDEGCLRVIN-----EETIVLETPEDSFARRSVNGGQMEKKFSFTKVFGPSVTQADVFDT 101 (809)
T ss_pred hhhcchheeEeecCCCC-CccccceEEEec-----cceeEeeCcHHHHhhhccCccceeeEeeeeeecCCCccHHHHHHH
Confidence 45678999999999886 334466777763 2233333221 112236789999999999999999999
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhcc---------------------------
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISE--------------------------- 135 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~--------------------------- 135 (614)
++.|+|.+++.|.|..+|+||.|||||||||+|+..++||+||+++-||..+.
T Consensus 102 ~~~plV~dlLkgqn~LlFTyGVTgSGKTYTm~G~~~~~GIlPR~Ld~iF~siq~~~~~k~~~kp~~s~~~e~~~~~~alL 181 (809)
T KOG0247|consen 102 TVAPLVKDLLKGQNSLLFTYGVTGSGKTYTMTGTPDRPGILPRALDVIFNSIQGRQAKKPVFKPLRSNLFEIKAEEDALL 181 (809)
T ss_pred HhHHHHHHHHcccceeEEEeeccCCCceEEeecCCCCCCchHHHHHHHHHHhhceeccCceeccccchHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999996332
Q ss_pred -----------------------------------------ccCceEEEEEEEEecceeccccCccc-----cc-ceEEe
Q 035971 136 -----------------------------------------KMGKSITISFYEIFQDHVYDLLDPKQ-----QE-VQILE 168 (614)
Q Consensus 136 -----------------------------------------~~~~sV~vS~~EIYnE~V~DLL~~~~-----~~-l~i~e 168 (614)
+..|.|+|||+|||||-|||||.+.. +. ..+++
T Consensus 182 ~lkr~~~~nd~~~ts~~~~~~~~e~~e~~~~~e~~~~~l~~d~~ysV~VSf~EIYN~~iYDLLe~~s~q~~~~~~~ll~~ 261 (809)
T KOG0247|consen 182 QLKREAMLNDRKSTSKAHRQSTPEYAEHIHVIEQPALELDEDIVYSVFVSFVEIYNNYIYDLLEDASFQGKLQKLKLLRE 261 (809)
T ss_pred hhhhhhccccccCcchhhccccHHHHhhcchhcccccccCcCcEEEEEeeHHHHHHHHHHHhhccccccchhhhhhhhhh
Confidence 12246999999999999999998753 22 66788
Q ss_pred cCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC-----ccccceeEEEeCCCc
Q 035971 169 NGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN-----FLPTGKMNFVDLAGY 243 (614)
Q Consensus 169 d~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~-----~~~~skL~fVDLAGs 243 (614)
|.++..+|+|+++|.|.+.+|++++|..|.++|+.++|.+|..|||||+||+|.+.+... ....|.|.|||||||
T Consensus 262 d~~~~~~Vkgl~~V~VssseEA~~l~~lGqk~r~~asT~lN~~SSRSHsVFtIkl~q~~~~~~s~~i~vSqlsLvDLAGS 341 (809)
T KOG0247|consen 262 DTNGNMYVKGLTEVEVSSSEEALELFQLGQKRRRVASTKLNANSSRSHSVFTIKLVQAPRSQDSNQITVSQLSLVDLAGS 341 (809)
T ss_pred ccCCCeeeccccEEEeccHHHHHHHHHHHHhhhhhhheeccccccccceeEEEEeeecccccccCceeEEeeeeeecccc
Confidence 999999999999999999999999999999999999999999999999999999987665 356799999999999
Q ss_pred cccccccCccchhhhhHHhhhhHHHHHHHHHHHhcC-----CCCccCCCChhhhhhhhccCCCceEEEEEEcCcC-----
Q 035971 244 QDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNAN-----ESHVPYRESKLTRMLQESLGCKSKILMLTCLLPR----- 313 (614)
Q Consensus 244 Er~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~-----~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~----- 313 (614)
||..++.+.|.|++|+.+||+||.+|+.||.+|+++ +.+|||||||||++++.+|.|..++.||.||+|.
T Consensus 342 ERt~rtq~sG~RLrEagNINtSLmTLg~Cie~LR~nqk~ks~~~VPyRdSKLThlfq~~f~G~gki~MIV~vnp~~e~Yd 421 (809)
T KOG0247|consen 342 ERTNRTQNSGERLREAGNINTSLMTLRRCIDVLRENQKSKSQKIVPYRDSKLTHLFKNYFDGKGKIRMIVCVNPKAEDYD 421 (809)
T ss_pred hhcccccchhHHHHhhccccHHHHHHHHHHHHHHHHhhhhccccCcchHHHHHHHHHHhcCCCCcEEEEEecCCchhhHH
Confidence 999999999999999999999999999999999864 3689999999999999999999999999999999
Q ss_pred -chhHHHHHHhHhhhhhcC
Q 035971 314 -SVSTTKTQTGSQMHSSTK 331 (614)
Q Consensus 314 -Tl~TL~~asr~~r~i~nk 331 (614)
+++.++||.-+ ..+...
T Consensus 422 Enl~vlkFaeia-q~v~v~ 439 (809)
T KOG0247|consen 422 ENLNVLKFAEIA-QEVEVA 439 (809)
T ss_pred HHHHHHHHHHhc-cccccc
Confidence 99999999998 655554
No 27
>KOG0244 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=2e-58 Score=518.55 Aligned_cols=326 Identities=27% Similarity=0.429 Sum_probs=284.9
Q ss_pred eCCCCChhhccCCcEEEeCCCCCCCCeEEEEeCCCCCCCceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEe
Q 035971 22 IRGFADLEAESANWVCIQKPNGEDSDSVTVSFGEQPSSRKECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVA 101 (614)
Q Consensus 22 vRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~a 101 (614)
+||+...|...+...++....+.. +|.++. +.+|+||+||....+|.++|+.+|.|+++.+|.|||++++|
T Consensus 1 vRpl~~~e~~~g~~~c~~~~~~~p----qv~ig~-----~~s~t~d~v~~~~~~Q~~~~e~~V~~l~~~lf~gynatvla 71 (913)
T KOG0244|consen 1 VRPLKQMEEEQGCRRCTEVSPRTP----QVAIGK-----DASFTYDKVFLDLESQKEVYESCVRPLREKLFAGYNATVLA 71 (913)
T ss_pred CCCccchHHHhcchhhcccCCCCC----ceeecC-----CcceeeeeeccCchHHHHHHHHHHHHHHHHHhhhhcceeee
Confidence 689998887776555554221221 344433 56899999999999999999999999999999999999999
Q ss_pred eccCCCCcceEeecC----CCCcchhHHHHHHHHhhccc---cCceEEEEEEEEecceeccccCccc--ccceEEecCCC
Q 035971 102 CGAKGSGKTRVIQGS----YEEPGLAALAVDEILSISEK---MGKSITISFYEIFQDHVYDLLDPKQ--QEVQILENGQG 172 (614)
Q Consensus 102 YGqTGSGKTyTm~G~----~~~~GLipral~~LF~~~~~---~~~sV~vS~~EIYnE~V~DLL~~~~--~~l~i~ed~~~ 172 (614)
||||||||||||.+. .+..|++||++..+|..+.+ ..+.|.|||+|+|++.|+|||.|.. ..+.+++ +.|
T Consensus 72 ygQtgsgkTytmgt~~~~~~~~~Gvipr~v~~~f~~i~~~~~~~f~i~vs~vely~e~v~dl~~~~~~~~~i~~~e-~~g 150 (913)
T KOG0244|consen 72 YGQTGSGKTYTMGTNDAPAQDTVGVIPRAVSTLFTRIGKTESFVFRITVSFVELYNEEVLDLLKPSRLKANIKLRE-PKG 150 (913)
T ss_pred ecccCCCceeecccccccccccCCcCcchHHHHHHHHHhhhccceeeeeeeeeccchhhhhhcChhhhhhceeccc-cCC
Confidence 999999999999887 23469999999999999874 4578999999999999999998654 3466777 788
Q ss_pred ceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC----ccccceeEEEeCCCcccccc
Q 035971 173 KIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN----FLPTGKMNFVDLAGYQDIRR 248 (614)
Q Consensus 173 ~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~----~~~~skL~fVDLAGsEr~~k 248 (614)
++.+.|++++.|.+..+....|..|...|++++|+||..|||||+||++.+.+... ...++||+||||||+||.++
T Consensus 151 ~it~~glte~tv~~~~q~~~~L~~g~~~RtvasTnMN~qssRshAifti~lkq~kk~~~~s~~~sKlhlVDLAGSER~kk 230 (913)
T KOG0244|consen 151 EITIRGLTEKTVRMKLQLLSRLEKGSLERTVASTNMNAQSSRSHAIFTITLKQRKKLSKRSSFCSKLHLVDLAGSERVKK 230 (913)
T ss_pred ceEEEeehHHHHHHHHHHHHHHHhchHHHHHHHHhcchhhhhhhHHHHHHHHHHHHhhccchhhhhhheeeccccccccc
Confidence 99999999999999999999999999999999999999999999999999977433 34569999999999999999
Q ss_pred ccCccchhhhhHHhhhhHHHHHHHHHHHhcCCC--CccCCCChhhhhhhhccCCCceEEEEEEcCcC------chhHHHH
Q 035971 249 KSTEGSIFVENTKVNKSIYTLFNVVYALNANES--HVPYRESKLTRMLQESLGCKSKILMLTCLLPR------SVSTTKT 320 (614)
Q Consensus 249 ~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~--~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP~------Tl~TL~~ 320 (614)
+.++|.+++|+.+||.+|++||+||.||..... |||||+|+|||||||+||||++|+||+||||+ |++||+|
T Consensus 231 T~a~gdrlKEgInIN~gLL~LgnVIsaLg~~kk~~~vpyRdSkltrlLQdslgGns~tlmiaCiSpadsn~~EtlnTl~y 310 (913)
T KOG0244|consen 231 TKAEGDRLKEGININGGLLALGNVISALGEAKKGGEVPYRDSKLTRLLQDSLGGNSDTLMIACISPADSNAQETLNTLRY 310 (913)
T ss_pred cccchhhhhhccCcchHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHHHHhcCCcceeeeeecChhhhhhhhHHHHHHH
Confidence 999999999999999999999999999987665 99999999999999999999999999999999 9999999
Q ss_pred HHhHhhhhhcCCCccccccccccchHHHHHHHHHHHHHHH
Q 035971 321 QTGSQMHSSTKKATGVASVVKGRYSLKFSVQVRKLFDEAI 360 (614)
Q Consensus 321 asr~~r~i~nk~~~~~~~~~k~~~~~~~~~q~~~L~~e~~ 360 (614)
|.|+ +.|+|+++.|.. .+..-+..+..|+.+|+.++.
T Consensus 311 a~Ra-k~iknk~vvN~d--~~~~~~~~lK~ql~~l~~ell 347 (913)
T KOG0244|consen 311 ADRA-KQIKNKPVVNQD--PKSFEMLKLKAQLEPLQVELL 347 (913)
T ss_pred hhHH-HHhccccccccc--HHHHHHHHHHHHHHHHHHHHH
Confidence 9999 999999998873 233345566678888877763
No 28
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.2e-54 Score=487.52 Aligned_cols=276 Identities=31% Similarity=0.502 Sum_probs=262.0
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc----
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK---- 136 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~---- 136 (614)
...|.||+||++.++|++||+..+.|++++++.|||+||||||||||||||||.|..+++||||+++.+||+.++.
T Consensus 55 ~~~~~fdkvf~~~~~q~~v~e~~~~~l~~~~l~g~N~TvfayGqTgsgKtyt~~G~~~~~Gii~~~l~~lf~~l~~~~~~ 134 (568)
T COG5059 55 EGTYAFDKVFGPSATQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGTEEEPGIIPLSLKELFSKLEDLSMT 134 (568)
T ss_pred ceEEEEeeccCCCCcHHHHHHHhhhhHHHHHHhcccceEEEEcccCCCceeEeecCccccchHHHHHHHHHHHHHhcccC
Confidence 5679999999999999999999999999999999999999999999999999999999999999999999998774
Q ss_pred cCceEEEEEEEEecceeccccCcccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCce
Q 035971 137 MGKSITISFYEIFQDHVYDLLDPKQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSH 216 (614)
Q Consensus 137 ~~~sV~vS~~EIYnE~V~DLL~~~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH 216 (614)
..+.|.+||+|||||+++|||.+....+.++++..+++.+.|+++..+.+.+|++.+|..|..+|+++.|.+|..|+|||
T Consensus 135 ~~~~v~is~lEiYnEk~~DLl~~~~~~~~~~~~~~~~v~v~~l~~~~~~s~ee~l~~l~~~~~nr~~~~te~n~~ssRsh 214 (568)
T COG5059 135 KDFAVSISYLEIYNEKIYDLLSPNEESLNIREDSLLGVKVAGLTEKHVSSKEEILDLLRKGEKNRTTASTEINDESSRSH 214 (568)
T ss_pred cceeeEeehhHHHhhHHHhhccCccccccccccCCCceEeecceEEecCChHHHHHHHHHhhhhcccccchhccccccce
Confidence 45789999999999999999999888788999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEeeccC---ccccceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhc--CCCCccCCCChhh
Q 035971 217 KGLIVNVSPVSN---FLPTGKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNA--NESHVPYRESKLT 291 (614)
Q Consensus 217 ~if~I~v~~~~~---~~~~skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~--~~~~vPyRdSkLT 291 (614)
++|++.+.+... ....++|+||||||+|++..++..+.++.|+..||+||.+|++||.+|.. +..|||||+||||
T Consensus 215 si~~i~~~~~~~~~~~~~~~~l~lvDLagSE~~~~~~~~~~r~~E~~~iN~sLl~Lg~vI~~L~~~~~~~~ipyReskLT 294 (568)
T COG5059 215 SIFQIELASKNKVSGTSETSKLSLVDLAGSERAARTGNRGTRLKEGASINKSLLTLGNVINALGDKKKSGHIPYRESKLT 294 (568)
T ss_pred EEEEEEEEEeccCccceecceEEEEeeccccccchhhcccchhhhhhhhHhhHHHHHHHHHHHhccccCCccchhhhHHH
Confidence 999999988765 22336899999999999999999999999999999999999999999997 7889999999999
Q ss_pred hhhhhccCCCceEEEEEEcCcC------chhHHHHHHhHhhhhhcCCCcccc
Q 035971 292 RMLQESLGCKSKILMLTCLLPR------SVSTTKTQTGSQMHSSTKKATGVA 337 (614)
Q Consensus 292 rLLqdsLgGnskt~mI~~vsP~------Tl~TL~~asr~~r~i~nk~~~~~~ 337 (614)
|+||++|||+++|.|||||+|. |.+||+||+++ +.|++++..+..
T Consensus 295 RlLq~sLgG~~~~~~i~~Isp~~~~~~et~~tL~~a~ra-k~I~~~~~~~~~ 345 (568)
T COG5059 295 RLLQDSLGGNCNTRVICTISPSSNSFEETINTLKFASRA-KSIKNKIQVNSS 345 (568)
T ss_pred HHHHHhcCCCccEEEEEEEcCCCCchHHHHHHHHHHHHH-hhcCCcccccCc
Confidence 9999999999999999999999 99999999999 999999877753
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=5.7e-47 Score=370.47 Aligned_cols=173 Identities=38% Similarity=0.570 Sum_probs=165.7
Q ss_pred HHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEEecceeccccC
Q 035971 79 IFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEIFQDHVYDLLD 158 (614)
Q Consensus 79 Vf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EIYnE~V~DLL~ 158 (614)
||+.++ |+|+.+++|+|+|||+||+|||||||||+|+.+++||+|+++++
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 999888 99999999999999999999999999999999999999999998
Q ss_pred cccccceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccC------cccc
Q 035971 159 PKQQEVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSN------FLPT 232 (614)
Q Consensus 159 ~~~~~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~------~~~~ 232 (614)
+++++..|..+|+.+.|.+|..|||||++|+|++.+... ....
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 788999999999999999999999999999999987654 2456
Q ss_pred ceeEEEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcCc
Q 035971 233 GKMNFVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLLP 312 (614)
Q Consensus 233 skL~fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP 312 (614)
++|+||||||+|+..+.+..+.+++|+..||+||.+|++||.+|++++.|||||+||||+||||+|||||+|+||+||||
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 89999999999999999999999999999999999999999999999999999999999999999999999999999998
No 30
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=99.36 E-value=7.4e-13 Score=125.33 Aligned_cols=64 Identities=38% Similarity=0.584 Sum_probs=57.3
Q ss_pred hhHHHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 543 SLVQEYLKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 543 ~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
+....-..+||+|+.+||+.|||||+++|++||+||+++ |||++++||.+ .||+++.++++..+
T Consensus 82 ~~~~~~~vNiNtAs~eeL~~lpgIG~~kA~aIi~yRe~~-G~f~sv~dL~~v~GiG~~~~ekl~~~ 146 (149)
T COG1555 82 SAEEEKKVNINTASAEELQALPGIGPKKAQAIIDYREEN-GPFKSVDDLAKVKGIGPKTLEKLKDY 146 (149)
T ss_pred ccCccccccccccCHHHHHHCCCCCHHHHHHHHHHHHHc-CCCCcHHHHHhccCCCHHHHHHHHhh
Confidence 334444567999999999999999999999999999999 47999999999 99999999999765
No 31
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=99.31 E-value=1.9e-12 Score=105.80 Aligned_cols=59 Identities=41% Similarity=0.626 Sum_probs=47.0
Q ss_pred HHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHH
Q 035971 546 QEYLKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMM 605 (614)
Q Consensus 546 ~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~ 605 (614)
+.-..+||+||.+||+++||||++.|++||+||+++ |||++++||.+ .||+++.++++.
T Consensus 2 ~~~~idiN~as~~eL~~lpgi~~~~A~~Iv~~R~~~-G~f~s~~dL~~v~gi~~~~~~~l~ 61 (65)
T PF12836_consen 2 NEQKIDINTASAEELQALPGIGPKQAKAIVEYREKN-GPFKSLEDLKEVPGIGPKTYEKLK 61 (65)
T ss_dssp HHHSEETTTS-HHHHHTSTT--HHHHHHHHHHHHHH--S-SSGGGGGGSTT--HHHHHHHC
T ss_pred CCCCccCccCCHHHHHHcCCCCHHHHHHHHHHHHhC-cCCCCHHHHhhCCCCCHHHHHHHH
Confidence 344557999999999999999999999999999999 56999999999 899999998873
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=99.04 E-value=2.7e-10 Score=104.20 Aligned_cols=58 Identities=34% Similarity=0.562 Sum_probs=53.0
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
..+||+|+.++|++|||||+++|++||+||+.+ |+|++++||.+ .|++.+.+++|...
T Consensus 59 ~iniNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~-g~f~s~eeL~~V~GIg~k~~~~i~~~ 117 (120)
T TIGR01259 59 AVNINAASLEELQALPGIGPAKAKAIIEYREEN-GAFKSVDDLTKVSGIGEKSLEKLKDY 117 (120)
T ss_pred CEeCCcCCHHHHhcCCCCCHHHHHHHHHHHHhc-CCcCCHHHHHcCCCCCHHHHHHHHhc
Confidence 357999999999999999999999999999998 56999999999 69999999988643
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=98.92 E-value=2e-09 Score=88.84 Aligned_cols=57 Identities=33% Similarity=0.541 Sum_probs=53.3
Q ss_pred hhhccCCHHhhcc-CCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 550 KLLNTGGKEDLKR-LKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 550 ~~lN~A~~~~L~~-l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.+||+|+.++|.. +||||++.|++||+||..+|+ |++++||.+ .|++.+.+++++..
T Consensus 8 invNta~~~~L~~~ipgig~~~a~~Il~~R~~~g~-~~s~~dL~~v~gi~~~~~~~i~~~ 66 (69)
T TIGR00426 8 VNINTATAEELQRAMNGVGLKKAEAIVSYREEYGP-FKTVEDLKQVPGIGNSLVEKNLAV 66 (69)
T ss_pred eECcCCCHHHHHhHCCCCCHHHHHHHHHHHHHcCC-cCCHHHHHcCCCCCHHHHHHHHhh
Confidence 4699999999999 999999999999999999954 999999999 79999999999876
No 34
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=98.76 E-value=9.7e-09 Score=93.81 Aligned_cols=50 Identities=22% Similarity=0.391 Sum_probs=43.7
Q ss_pred hhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHH
Q 035971 550 KLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGM 604 (614)
Q Consensus 550 ~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~ 604 (614)
..||+|+.++|+++|||||.+|++||+ + |||+++|||.+ .||++++.+.+
T Consensus 53 IdiN~A~~~el~~lpGigP~~A~~IV~----n-Gpf~sveDL~~V~GIgekqk~~l 103 (132)
T PRK02515 53 IDLNNSSVRAFRQFPGMYPTLAGKIVK----N-APYDSVEDVLNLPGLSERQKELL 103 (132)
T ss_pred ccCCccCHHHHHHCCCCCHHHHHHHHH----C-CCCCCHHHHHcCCCCCHHHHHHH
Confidence 359999999999999999999999993 5 78999999999 69998754433
No 35
>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=98.02 E-value=4.9e-06 Score=57.64 Aligned_cols=28 Identities=39% Similarity=0.503 Sum_probs=24.9
Q ss_pred hhhccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 550 KLLNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 550 ~~lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
+.++.|+.+||++|||||+++|++|+.|
T Consensus 3 ~g~~pas~eeL~~lpGIG~~tA~~I~~~ 30 (30)
T PF00633_consen 3 DGLIPASIEELMKLPGIGPKTANAILSF 30 (30)
T ss_dssp HHHHTSSHHHHHTSTT-SHHHHHHHHHH
T ss_pred CCcCCCCHHHHHhCCCcCHHHHHHHHhC
Confidence 4578999999999999999999999986
No 36
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=97.62 E-value=1.3e-07 Score=107.78 Aligned_cols=258 Identities=19% Similarity=0.118 Sum_probs=149.2
Q ss_pred CCCCCCCCCeEEEEEeCCCCChhhccCCcEEEeCCCCCCCCeEEEEeC--CCCCCCceeeEeeeeecCCCChHHHHhhhh
Q 035971 7 DTGLNISKKARVIAKIRGFADLEAESANWVCIQKPNGEDSDSVTVSFG--EQPSSRKECYKLDYCYEQNEGNGIIFAREV 84 (614)
Q Consensus 7 ~~~~~~~~~VrV~vRvRP~~~~e~~~~~~v~v~~~~~~d~~~v~v~~~--~~~~~~~~~F~FD~VF~~~asQ~eVf~~~v 84 (614)
+.....+ +++|+|+|+|......+..+.+.+... ...-...+... .+...+...|.||.+|.+...+..++. ..
T Consensus 299 ~sLgG~~-~~~~i~~Isp~~~~~~et~~tL~~a~r--ak~I~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~-~~ 374 (568)
T COG5059 299 DSLGGNC-NTRVICTISPSSNSFEETINTLKFASR--AKSIKNKIQVNSSSDSSREIEEIKFDLSEDRSEIEILVFR-EQ 374 (568)
T ss_pred HhcCCCc-cEEEEEEEcCCCCchHHHHHHHHHHHH--HhhcCCcccccCcCcchHHHHHHHhhhhhhhhhhhhHHHH-HH
Confidence 3444444 999999999987543322111111000 00000011111 112234577999999999988888886 56
Q ss_pred HHHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhcccc-----CceEEEEEEEEecceeccccCc
Q 035971 85 KPLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKM-----GKSITISFYEIFQDHVYDLLDP 159 (614)
Q Consensus 85 ~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~-----~~sV~vS~~EIYnE~V~DLL~~ 159 (614)
..+++..++| +++|++++++++++|-- ...++..-.+...|...... .+...+-+.++|-....++...
T Consensus 375 ~~~~~~~~~~----~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e 448 (568)
T COG5059 375 SQLSQSSLSG----IFAYMQSLKKETETLKS--RIDLIMKSIISGTFERKKLLKEEGWKYKSTLQFLRIEIDRLLLLREE 448 (568)
T ss_pred Hhhhhhhhhh----HHHHHhhhhhhhhcccc--hhhhhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7777888888 99999999999999952 23445555556666655432 2223333344442222222211
Q ss_pred ccc---cceEEecCCCceEecCCeEEEcCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCccccceeE
Q 035971 160 KQQ---EVQILENGQGKIQLKGLSQVPVKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNFLPTGKMN 236 (614)
Q Consensus 160 ~~~---~l~i~ed~~~~~~v~gLtev~V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~~~~skL~ 236 (614)
... ........-.......++ .......+.... ..+...+..+.+..|..++++|.+|.............-.++
T Consensus 449 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~n 526 (568)
T COG5059 449 ELSKKKTKIHKLNKLRHDLSSLLS-SIPEETSDRVES-EKASKLRSSASTKLNLRSSRSHSKFRDHLNGSNSSTKELSLN 526 (568)
T ss_pred hcCChHHHHHHHHHHHHHHHHhhh-hcchhhhhhhhh-hhhccchhhcccchhhhhcccchhhhhcccchhhhhHHHHhh
Confidence 100 000000000000000000 001111111111 245667888889999999999999988876655411111179
Q ss_pred EEeCCCccccccccCccchhhhhHHhhhhHHHHHHHHHHHh
Q 035971 237 FVDLAGYQDIRRKSTEGSIFVENTKVNKSIYTLFNVVYALN 277 (614)
Q Consensus 237 fVDLAGsEr~~k~~~~g~~l~E~~~INkSL~aL~~vI~aL~ 277 (614)
.|||||+|+. ....-+.++++...+|++|..++.++.++.
T Consensus 527 ~~~~~~~e~~-~s~~~~~~l~~~~~~~k~l~~~~d~~~~~~ 566 (568)
T COG5059 527 QVDLAGSERK-VSQSVGELLRETQSLNKSLSSLGDVIHALG 566 (568)
T ss_pred hhhccccccc-hhhhhHHHHHhhHhhhhccccchhhhhhcc
Confidence 9999999999 888889999999999999999999998764
No 37
>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=97.45 E-value=0.00025 Score=61.64 Aligned_cols=46 Identities=37% Similarity=0.708 Sum_probs=39.0
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-c-CCCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-I-GLSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~-gl~~~~~~~~~~~ 607 (614)
|..|+|||+..|++|++.|+ . |||++++|+.+ . +++.+.++.|+..
T Consensus 29 l~~Ikglg~~~a~~I~~~R~-~-g~f~s~~df~~R~~~i~~~~le~Li~a 76 (90)
T PF14579_consen 29 LSAIKGLGEEVAEKIVEERE-N-GPFKSLEDFIQRLPKINKRQLEALIKA 76 (90)
T ss_dssp GGGSTTS-HHHHHHHHHHHH-C-SS-SSHHHHHHHS-TS-HHHHHHHHHT
T ss_pred HhhcCCCCHHHHHHHHHhHh-c-CCCCCHHHHHHHHhcCCHHHHHHHHHC
Confidence 67899999999999999999 4 68999999999 8 9999999998764
No 38
>COG1491 Predicted RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=97.45 E-value=0.0002 Score=69.11 Aligned_cols=49 Identities=33% Similarity=0.579 Sum_probs=42.7
Q ss_pred HHHhhhccCC-----HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCC
Q 035971 547 EYLKLLNTGG-----KEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLS 597 (614)
Q Consensus 547 ~~~~~lN~A~-----~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~ 597 (614)
-++.|.|.|. .-+|.-|||||.++..+||+.|++. ||.|.+|+++ +|.-
T Consensus 114 rFV~fFN~A~PIt~RLH~LELLpGiGkK~m~~ILeERkkk--pFeSFeDi~~Rv~~~ 168 (202)
T COG1491 114 RFVKFFNEAEPITLRLHQLELLPGIGKKTMWAILEERKKK--PFESFEDIKERVKGL 168 (202)
T ss_pred HHHHHhcccCcchHHHHHHHhcccccHHHHHHHHHHHhcC--CCcCHHHHHHHhcCC
Confidence 4567888765 5789999999999999999999998 9999999999 6654
No 39
>PF04919 DUF655: Protein of unknown function (DUF655); InterPro: IPR007003 This family includes several uncharacterised archaeal proteins.; PDB: 2I5H_A.
Probab=97.40 E-value=0.00031 Score=68.12 Aligned_cols=48 Identities=29% Similarity=0.622 Sum_probs=34.2
Q ss_pred HHHHhhhccCCH-----HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC
Q 035971 546 QEYLKLLNTGGK-----EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG 595 (614)
Q Consensus 546 ~~~~~~lN~A~~-----~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g 595 (614)
+.+++|.|.|.. -.|.-|||||.++...||+.|++. ||.|.+|+.+ ++
T Consensus 99 ~~FV~FfN~A~PIt~RlH~LeLLPGIGKK~m~~ILeERkkk--pFeSFeDi~~Rv~ 152 (181)
T PF04919_consen 99 ERFVDFFNEAQPITLRLHSLELLPGIGKKTMWKILEERKKK--PFESFEDIEERVK 152 (181)
T ss_dssp HHHHHHH-----B-SSSBGGGGSTT--HHHHHHHHHHHHHS-----SHHHHHHHST
T ss_pred HHHHHHhhcCCCChHHHHHHhhcccccHHHHHHHHHHHccC--CCCCHHHHHHHhc
Confidence 567889998864 577889999999999999999998 9999999999 74
No 40
>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=96.32 E-value=0.0068 Score=48.52 Aligned_cols=45 Identities=33% Similarity=0.559 Sum_probs=36.5
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh--------hh-cCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDL--------KD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL--------~~-~gl~~~~~~~~~~~ 607 (614)
..+|+.|||||+++|++++++ | |.+++|| .+ .|++.+.+++|+..
T Consensus 4 ~~~L~~I~Gig~~~a~~L~~~-----G-~~t~~~l~~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 4 FDDLLSIPGIGPKRAEKLYEA-----G-IKTLEDLANADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp HHHHHTSTTCHHHHHHHHHHT-----T-CSSHHHHHTSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred HHhhccCCCCCHHHHHHHHhc-----C-CCcHHHHHcCCHHHHhcCCCCCHHHHHHHHHH
Confidence 357899999999999999876 4 7777655 45 68999999998764
No 41
>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]
Probab=96.12 E-value=0.0024 Score=66.32 Aligned_cols=51 Identities=33% Similarity=0.451 Sum_probs=45.4
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHHHHHH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQIKGM 604 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~~~~~ 604 (614)
.+|.|+.++|..+||||.+.|++||.-|... =-.+|+|++.|+..|.++.+
T Consensus 323 dvn~A~~~~llRVPGiG~ksa~rIv~~Rr~~---rl~~e~Lkk~GvvlkRak~F 373 (404)
T COG4277 323 DVNKAPYKELLRVPGIGVKSARRIVMTRRRT---RLTLEDLKKLGVVLKRAKPF 373 (404)
T ss_pred cccccCHHHhcccCCCChHHHHHHHHHhhhc---ccCHHHHhhhceeeecccee
Confidence 4999999999999999999999999999876 23899999999988877655
No 42
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=95.32 E-value=0.013 Score=67.99 Aligned_cols=52 Identities=27% Similarity=0.353 Sum_probs=47.7
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKG 603 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~ 603 (614)
.+|||+..-|..+.|+|..+|++|++||+.+| +|.+-.||.+ -.|++|..++
T Consensus 502 dvNtAsa~lL~~VsGL~kt~A~nIv~~r~~~g-~f~~Rk~L~kv~rlg~k~Feq 554 (780)
T COG2183 502 DVNTASASLLSYVSGLNKTLAKNIVAYRDENG-AFDNRKQLKKVPRLGPKAFEQ 554 (780)
T ss_pred ccccCCHHHHHHHhhhchhHHHHHHHHHhhcC-CcccHHHHhcCCCcChhhhhh
Confidence 48999999999999999999999999999995 7999999999 7788887664
No 43
>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=95.10 E-value=0.022 Score=60.48 Aligned_cols=52 Identities=29% Similarity=0.478 Sum_probs=44.1
Q ss_pred ccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhh-----------h-cCCCHHHHHHHHH
Q 035971 553 NTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLK-----------D-IGLSAKQIKGMMK 606 (614)
Q Consensus 553 N~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~-----------~-~gl~~~~~~~~~~ 606 (614)
+-++.+++..|||||+++|+.|.++.+.. .|..+++|. + .|++++.+++|..
T Consensus 40 ~i~~~~~~~~ipgiG~~ia~kI~E~~~tG--~~~~le~l~~~~~~~l~~l~~i~GiGpk~a~~l~~ 103 (307)
T cd00141 40 PIESLEEAKKLPGIGKKIAEKIEEILETG--KLRKLEELREDVPPGLLLLLRVPGVGPKTARKLYE 103 (307)
T ss_pred ccCCHHHhcCCCCccHHHHHHHHHHHHcC--CHHHHHHHhccchHHHHHHHcCCCCCHHHHHHHHH
Confidence 35677789999999999999999999863 688888655 6 8999999999984
No 44
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=95.05 E-value=0.032 Score=62.29 Aligned_cols=48 Identities=27% Similarity=0.493 Sum_probs=41.7
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC---CCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG---LSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g---l~~~~~~~~~~~ 607 (614)
-|..|+|||+..+++||+.|+++ |||+++.|+.. +. ++.+.++.|++.
T Consensus 115 GL~aIKGVG~~~i~~Iv~eR~~~-g~F~sl~DF~~Rvd~~~vnkr~lE~LIka 166 (449)
T PRK07373 115 GLSAVRNLGEGAIESILKAREEG-GEFKSLADFCDRVDLRVVNRRALETLIYC 166 (449)
T ss_pred cchhcCCCCHHHHHHHHHHHHhc-CCCCCHHHHHHHhCcccCCHHHHHHHHHc
Confidence 36789999999999999999876 68999999998 54 788888888763
No 45
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=94.84 E-value=0.027 Score=45.86 Aligned_cols=32 Identities=34% Similarity=0.485 Sum_probs=23.2
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHh
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREE 580 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~ 580 (614)
++.|=.|+.++|..+||||+++|+.|.+|-+.
T Consensus 26 l~~l~~a~~e~L~~i~gIG~~~A~si~~ff~~ 57 (64)
T PF12826_consen 26 LEALMNASVEELSAIPGIGPKIAQSIYEFFQD 57 (64)
T ss_dssp HHHHCC--HHHHCTSTT--HHHHHHHHHHHH-
T ss_pred HHHHHHcCHHHHhccCCcCHHHHHHHHHHHCC
Confidence 34466889999999999999999999998753
No 46
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1.
Probab=94.82 E-value=0.021 Score=38.05 Aligned_cols=22 Identities=45% Similarity=0.650 Sum_probs=19.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELRE 579 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~ 579 (614)
++|++|||||+++|++|+++..
T Consensus 1 ~~L~~i~GiG~k~A~~il~~~~ 22 (26)
T smart00278 1 EELLKVPGIGPKTAEKILEAXX 22 (26)
T ss_pred ChhhhCCCCCHHHHHHHHHhcc
Confidence 3689999999999999998764
No 47
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=94.70 E-value=0.092 Score=51.97 Aligned_cols=64 Identities=27% Similarity=0.415 Sum_probs=49.2
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCCCCC-----C----HHhhhhcCCCHHHHHHHHHHHh
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPEPFK-----N----LDDLKDIGLSAKQIKGMMKKEM 609 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg~f~-----~----~~dL~~~gl~~~~~~~~~~~~~ 609 (614)
..+....|..-+...|.++||||+|.|++|| +.|.+... +. . ++-|...|.+.+++++.+.+..
T Consensus 95 ~~el~~aI~~~D~~~L~~vpGIGkKtAerIilELkdK~~~-~~~~~~~~~~e~~~AL~~LGy~~~ea~~av~~~~ 168 (188)
T PRK14606 95 AETLVTMIASQDVEGLSKLPGISKKTAERIVMELKDEFES-AGIKDMRIYHESLEALVSLGYPEKQAREAVKHVY 168 (188)
T ss_pred HHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhhcc-ccCCCcccHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 3566677888999999999999999999986 66766521 21 1 3446669999999999988764
No 48
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=94.01 E-value=0.067 Score=65.50 Aligned_cols=45 Identities=31% Similarity=0.657 Sum_probs=41.4
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~ 606 (614)
|..|+|||+..|+.|++.|+ . |||++++|+.. ++++.+.++.|++
T Consensus 818 l~~Ikgvg~~~~~~Iv~~R~-~-g~f~s~~Df~~R~~~~~~~le~Li~ 863 (1046)
T PRK05672 818 LRLVRGLGEEAAERIVAARA-R-GPFTSVEDLARRAGLDRRQLEALAD 863 (1046)
T ss_pred hhhcCCCCHHHHHHHHHHhh-c-CCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 67899999999999999997 3 69999999999 9999999999876
No 49
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.71 E-value=0.19 Score=49.51 Aligned_cols=64 Identities=28% Similarity=0.484 Sum_probs=47.5
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCC--CCC-C----HHhhhhcCCCHHHHHHHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPE--PFK-N----LDDLKDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg--~f~-~----~~dL~~~gl~~~~~~~~~~~~ 608 (614)
..+...-|..-+...|.++||||+|.|++|| +.|.+..+ +-. . ++-|...|.+.+.+++.+++.
T Consensus 95 ~~el~~aI~~~D~~~L~~vpGIGkKtAeRIilELkdK~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 95 VNSFYKALSLGDESVLKKVPGIGPKSAKRIIAELSDAKTKLENVSDDKSEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhhccCCCCccHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 3466667888999999999999999999986 67766411 011 1 333556899999999888764
No 50
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=93.63 E-value=0.11 Score=58.30 Aligned_cols=87 Identities=22% Similarity=0.330 Sum_probs=56.4
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeecC---C--------CCcchhHHHHHHHH
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQGS---Y--------EEPGLAALAVDEIL 131 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~---~--------~~~GLipral~~LF 131 (614)
.|....-|.|.-+|-+ ++..+++.+-+|...- ...|.|||||||||-.- . ++.-|......++-
T Consensus 4 ~F~l~s~f~PaGDQP~----AI~~Lv~gi~~g~~~Q-tLLGvTGSGKTfT~AnVI~~~~rPtLV~AhNKTLAaQLy~Efk 78 (663)
T COG0556 4 PFKLHSPFKPAGDQPE----AIAELVEGIENGLKHQ-TLLGVTGSGKTFTMANVIAKVQRPTLVLAHNKTLAAQLYSEFK 78 (663)
T ss_pred ceEeccCCCCCCCcHH----HHHHHHHHHhcCceee-EEeeeccCCchhHHHHHHHHhCCCeEEEecchhHHHHHHHHHH
Confidence 4677777888877754 4567777777666554 44699999999999641 1 22233333333333
Q ss_pred hhccccCceEEEEEEEEecceec
Q 035971 132 SISEKMGKSITISFYEIFQDHVY 154 (614)
Q Consensus 132 ~~~~~~~~sV~vS~~EIYnE~V~ 154 (614)
+...+......||||..|+-..|
T Consensus 79 ~fFP~NaVEYFVSYYDYYQPEAY 101 (663)
T COG0556 79 EFFPENAVEYFVSYYDYYQPEAY 101 (663)
T ss_pred HhCcCcceEEEeeeccccCcccc
Confidence 33335667899999999976544
No 51
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.60 E-value=0.15 Score=50.76 Aligned_cols=63 Identities=22% Similarity=0.362 Sum_probs=46.9
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCCCC-------CC----HHhhhhcCCCHHHHHHHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPEPF-------KN----LDDLKDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg~f-------~~----~~dL~~~gl~~~~~~~~~~~~ 608 (614)
.++....|..-+.+.|.++||||+|+|++|| +.|.+... + .. ++-|...|.+.+.+++.+.+.
T Consensus 94 ~~el~~aI~~~D~~~L~~vpGIGkKtAeRIIlELkdKl~~-~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~al~~v 168 (196)
T PRK13901 94 YNEFRDAIDREDIELISKVKGIGNKMAGKIFLKLRGKLVK-NDELESSLFKFKELEQSIVNMGFDRKLVNSAIKEI 168 (196)
T ss_pred HHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhhcc-ccccccCcccHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 3466677888999999999999999999986 66665411 1 01 234666899999998888764
No 52
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=93.53 E-value=0.076 Score=64.05 Aligned_cols=42 Identities=36% Similarity=0.541 Sum_probs=39.1
Q ss_pred ccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHH
Q 035971 561 KRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGM 604 (614)
Q Consensus 561 ~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~ 604 (614)
-+|||+|+..|+.||+.|++. ||.|++||++ -|++...|+.|
T Consensus 1384 i~i~GlGe~vA~~IV~AR~Ek--~FlS~eDlkkRtkis~t~ie~~ 1426 (1444)
T COG2176 1384 IAIPGLGENVAKSIVEAREEK--EFLSKEDLKKRTKISKTHIEKL 1426 (1444)
T ss_pred eccCChhHHHHHHHHHHhhcC--CcCCHHHHHHhcCccHHHHHHH
Confidence 469999999999999999876 8999999999 89999999987
No 53
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.51 E-value=0.22 Score=49.92 Aligned_cols=65 Identities=23% Similarity=0.400 Sum_probs=48.1
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCC----CC----------CC-----HHhhhhcCCCHHHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPE----PF----------KN-----LDDLKDIGLSAKQIKGM 604 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg----~f----------~~-----~~dL~~~gl~~~~~~~~ 604 (614)
..+....|-..+.+.|.++||||+|+|++|| +.|.+... +. .+ ++-|...|.+...+++.
T Consensus 96 ~~~l~~aI~~~D~~~L~~ipGIGkKtAerIilELkdK~~~~~~~~~~~~~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~a 175 (203)
T PRK14602 96 PDDLRRLVAEEDVAALTRVSGIGKKTAQHIFLELKYKLKVEGLPAAAVLAGTGAVPGSVFRDALAGLANLGYGEEEARPV 175 (203)
T ss_pred HHHHHHHHHhCCHHHHhcCCCcCHHHHHHHHHHHHHhhccccccccccccccccCCCchHHHHHHHHHHcCCCHHHHHHH
Confidence 3566777889999999999999999999986 66766410 00 11 23355689999999998
Q ss_pred HHHHh
Q 035971 605 MKKEM 609 (614)
Q Consensus 605 ~~~~~ 609 (614)
+.+..
T Consensus 176 v~~~~ 180 (203)
T PRK14602 176 LKEVL 180 (203)
T ss_pred HHHHh
Confidence 88763
No 54
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.49 E-value=0.19 Score=49.65 Aligned_cols=62 Identities=23% Similarity=0.345 Sum_probs=45.9
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCCCC-------C-C----HHhhhhcCCCHHHHHHHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPEPF-------K-N----LDDLKDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg~f-------~-~----~~dL~~~gl~~~~~~~~~~~~ 608 (614)
.++...-|-..+.+.| ++||||+|.|++|| +.|.+... + . . ++-|...|.+.+.+++.+.+.
T Consensus 95 ~~~l~~aI~~~D~~~L-~vpGIGkKtAerIilELk~K~~~-~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~al~~v 169 (186)
T PRK14600 95 PEQLFSAIVNEDKAAL-KVNGIGEKLINRIITELQYKVSK-LEINETNFIIINDDALAALISLGYEKTKAFNAIQKI 169 (186)
T ss_pred HHHHHHHHHcCCHhhe-ECCCCcHHHHHHHHHHHHHHhhc-cccccccccccHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 4566677888999999 99999999999986 66665411 1 1 1 334555899999999988764
No 55
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=93.48 E-value=0.11 Score=51.39 Aligned_cols=59 Identities=24% Similarity=0.435 Sum_probs=43.4
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCCCCC-----------CHHhh----hhcCCCHHHHHHHHHHH
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPEPFK-----------NLDDL----KDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg~f~-----------~~~dL----~~~gl~~~~~~~~~~~~ 608 (614)
...|..++.++|.++||||+++|++|+ +++.+.+ .+. .++|+ ...|++.+.+.+++++.
T Consensus 99 ~~~i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~~-~~~~~~~~~~~~~~~~~ev~~aL~~LG~~~~~a~~~~~~~ 173 (192)
T PRK00116 99 VQAIANGDVKALTKVPGIGKKTAERIVLELKDKLA-AAASAAAAAAAASSALEEAVSALVALGYKPKEASKAVAKI 173 (192)
T ss_pred HHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhh-cccccccccccccchHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 344667899999999999999999999 5665552 110 13443 34899999999888765
No 56
>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=93.40 E-value=0.031 Score=56.43 Aligned_cols=50 Identities=26% Similarity=0.385 Sum_probs=31.2
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..|+||..+.. .+++..|. .+..+.+.--..+|. ++-||++|+||||.|.
T Consensus 3 ~~~tFdnfv~g-~~N~~a~~-~~~~ia~~~~~~~~~-l~l~G~~G~GKTHLL~ 52 (219)
T PF00308_consen 3 PKYTFDNFVVG-ESNELAYA-AAKAIAENPGERYNP-LFLYGPSGLGKTHLLQ 52 (219)
T ss_dssp TT-SCCCS--T-TTTHHHHH-HHHHHHHSTTTSSSE-EEEEESTTSSHHHHHH
T ss_pred CCCccccCCcC-CcHHHHHH-HHHHHHhcCCCCCCc-eEEECCCCCCHHHHHH
Confidence 35899987653 44666775 455555542222344 7889999999999764
No 57
>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=93.00 E-value=0.12 Score=64.09 Aligned_cols=46 Identities=33% Similarity=0.551 Sum_probs=41.9
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
|..|+|||+..|+.|++.|++ |||.+++||.+ .+++.+.++.|...
T Consensus 1152 l~aI~glg~~~a~~Iv~~R~~--g~F~s~~Df~~R~~v~k~~le~L~~~ 1198 (1213)
T TIGR01405 1152 FNAIPGLGENVANSIVEARNE--KPFLSKEDLKKRTKISKTHIEKLDSM 1198 (1213)
T ss_pred hhhcCCCCHHHHHHHHHHHhh--CCCCCHHHHHHHhCCCHHHHHHHHhC
Confidence 678999999999999999986 48999999999 99999999998654
No 58
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=92.96 E-value=0.13 Score=63.51 Aligned_cols=47 Identities=34% Similarity=0.618 Sum_probs=41.2
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC---CCHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG---LSAKQIKGMMK 606 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g---l~~~~~~~~~~ 606 (614)
=|..|+|||+..|++|++.|+++ |||+++.|+.. +. ++.+.++.|++
T Consensus 821 gL~~Ikgvg~~~~~~I~~~R~~~-g~f~s~~Df~~R~~~~~~~k~~le~Li~ 871 (1135)
T PRK05673 821 GLGAIKGVGEGAVEAIVEAREEG-GPFKDLFDFCARVDLKKVNKRVLESLIK 871 (1135)
T ss_pred chhhcCCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHhccCCCCHHHHHHHHH
Confidence 36789999999999999999887 68999999999 54 78888888876
No 59
>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=92.90 E-value=0.096 Score=45.63 Aligned_cols=52 Identities=27% Similarity=0.460 Sum_probs=39.2
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKE 608 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~ 608 (614)
.||-|+..+.+.+||.=|.+|..||. + |||++++|+.+ -||+..+-+ ++++.
T Consensus 16 DlNNa~vr~f~~~pGmYPtlA~kIv~----n-aPY~sveDvl~ipgLse~qK~-~lk~~ 68 (93)
T PF06514_consen 16 DLNNANVRAFRQFPGMYPTLAGKIVS----N-APYKSVEDVLNIPGLSERQKA-LLKKY 68 (93)
T ss_dssp ETTSS-GGGGCCSTTTTCCHHHHHHH----S----SSGGGGCCSTT--HHHHH-HHHHH
T ss_pred ecccHhHHHHHHCCCCCHHHHHHHHh----C-CCCCCHHHHHhccCCCHHHHH-HHHHH
Confidence 48999999999999999999999996 3 69999999999 599998754 34443
No 60
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=92.83 E-value=0.15 Score=50.48 Aligned_cols=49 Identities=20% Similarity=0.200 Sum_probs=37.4
Q ss_pred HhhccCCCCCHHHHHHHHHHHHh------CCCCCCCHHhhhh-cCCCHHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREE------SPEPFKNLDDLKD-IGLSAKQIKGMMKKE 608 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~------~gg~f~~~~dL~~-~gl~~~~~~~~~~~~ 608 (614)
..|..+|||||++|.+|+++=.. . --.+.+.|.+ .|++.+++++++...
T Consensus 73 ~~L~~i~GIGpk~A~~il~~fg~~~l~~~i--~~~d~~~L~~v~Gig~k~A~~I~~~l 128 (192)
T PRK00116 73 RLLISVSGVGPKLALAILSGLSPEELVQAI--ANGDVKALTKVPGIGKKTAERIVLEL 128 (192)
T ss_pred HHHhcCCCCCHHHHHHHHHhCCHHHHHHHH--HhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 46778999999999999975211 1 0237788988 699999999998653
No 61
>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=92.72 E-value=0.087 Score=42.08 Aligned_cols=24 Identities=42% Similarity=0.646 Sum_probs=22.1
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
.|+.++|..+||||+++|++|+++
T Consensus 34 ~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 34 NADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp TSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred cCCHHHHhcCCCCCHHHHHHHHHH
Confidence 478999999999999999999975
No 62
>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=92.56 E-value=0.16 Score=62.25 Aligned_cols=48 Identities=33% Similarity=0.591 Sum_probs=41.7
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-c---CCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-I---GLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~---gl~~~~~~~~~~~ 607 (614)
=|..|+|||+..|++|++.|+++ |||+++.|+.. + +++.+.++.|+..
T Consensus 825 gl~~Ikgig~~~~~~Iv~~R~~~-~~f~s~~Df~~R~~~~~~~~~~le~Li~a 876 (1022)
T TIGR00594 825 GLGAIKGVGESVVKSIIEERNKN-GPFKSLFDFINRVDFKKLNKKVLEALIKA 876 (1022)
T ss_pred chhhcCCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHhcccCCCHHHHHHHHHc
Confidence 36789999999999999999876 68999999998 5 4888999888763
No 63
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=92.53 E-value=0.26 Score=49.06 Aligned_cols=63 Identities=25% Similarity=0.422 Sum_probs=44.7
Q ss_pred HHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCCCC---------CC----HHhhhhcCCCHHHHHHHHHHH
Q 035971 546 QEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPEPF---------KN----LDDLKDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 546 ~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg~f---------~~----~~dL~~~gl~~~~~~~~~~~~ 608 (614)
++....|..-+.+.|.++||||+++|++|| +.|.+....+ .. +.-|...|.+...+.+++.+.
T Consensus 96 ~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~~a~~ai~~~ 172 (194)
T PRK14605 96 EALASAIISGNAELLSTIPGIGKKTASRIVLELKDKIAKNWEAGVLSQVTEANSDILATLTALGYSSSEAAKAISSL 172 (194)
T ss_pred HHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHHhhhhccccccccchHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 455566767789999999999999999954 5555541100 11 334566999999999988765
No 64
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=92.50 E-value=0.17 Score=61.34 Aligned_cols=48 Identities=27% Similarity=0.447 Sum_probs=41.7
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-c---CCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-I---GLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~---gl~~~~~~~~~~~ 607 (614)
=|..|+|||+..|++|++.|++. |||+++.|+.. + +++.+.++.|++.
T Consensus 754 gL~~Ikgvg~~~~~~Iv~~R~~~-g~f~s~~Df~~R~~~~~~~k~~le~Li~a 805 (973)
T PRK07135 754 PLIMIKGLGSVAIKKIIDERNKN-GKYKNFFDFILRLKFIGISKSIIEKLIKA 805 (973)
T ss_pred CccccCCcCHHHHHHHHHHHHhC-CCCCCHHHHHHhccccCCCHHHHHHHHHC
Confidence 36789999999999999999876 68999999998 6 6888888888753
No 65
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=92.33 E-value=0.18 Score=62.48 Aligned_cols=47 Identities=28% Similarity=0.559 Sum_probs=41.5
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC---CCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG---LSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g---l~~~~~~~~~~~ 607 (614)
|..|+|||+..|++||+.|+++ |||+++.|+.. ++ ++.+.++.|++.
T Consensus 837 L~aIkgvg~~~~~~Iv~~R~~~-g~f~s~~Df~~R~~~~~~nk~~le~LI~a 887 (1170)
T PRK07374 837 LSAVKNLGDGAIRNIIAARDSD-GPFKSLADLCDRLPSNVLNRRSLESLIHC 887 (1170)
T ss_pred hhhcCCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHhccccCCHHHHHHHHHc
Confidence 6789999999999999999886 68999999999 65 788888888764
No 66
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=92.14 E-value=0.19 Score=62.13 Aligned_cols=48 Identities=27% Similarity=0.523 Sum_probs=41.5
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC---CCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG---LSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g---l~~~~~~~~~~~ 607 (614)
=|..|+|||+..|++|++.|+++ |||+++.|+.. +. ++.+.++.|++.
T Consensus 825 gL~aIkgvg~~~~~~Iv~~R~~~-g~f~s~~Df~~R~~~~~~nk~~le~Li~a 876 (1151)
T PRK06826 825 GLAAVKNVGENAIDSIVEEREKK-GKFKSLVDFCERVDTSQINKRAVESLIKA 876 (1151)
T ss_pred chhhcCCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHhcccCCCHHHHHHHHHc
Confidence 36789999999999999999876 68999999998 54 788888888754
No 67
>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=91.98 E-value=0.17 Score=39.72 Aligned_cols=36 Identities=22% Similarity=0.347 Sum_probs=24.5
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh--cCCCHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD--IGLSAK 599 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~--~gl~~~ 599 (614)
..++.|.|||+..|++-++ . | |++++||.+ ..|+..
T Consensus 2 ~~f~~I~GVG~~tA~~w~~----~-G-~rtl~Dl~~~~~~Lt~~ 39 (52)
T PF10391_consen 2 KLFTGIWGVGPKTARKWYA----K-G-IRTLEDLRKSKSKLTWQ 39 (52)
T ss_dssp HHHHTSTT--HHHHHHHHH----T-T---SHHHHHHGGCGS-HH
T ss_pred cchhhcccccHHHHHHHHH----h-C-CCCHHHHhhhhccCCHH
Confidence 4688999999999999887 2 6 999999986 445444
No 68
>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]
Probab=91.97 E-value=0.098 Score=57.54 Aligned_cols=44 Identities=30% Similarity=0.465 Sum_probs=39.3
Q ss_pred hhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCH
Q 035971 550 KLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSA 598 (614)
Q Consensus 550 ~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~ 598 (614)
..+|+|+.+.|..|||||.+.+..|+..| ||++.|++.+ ++=..
T Consensus 508 l~vn~~s~~vl~~ipgig~~~~~~I~~~R-----p~~s~e~~l~~v~~~~ 552 (560)
T COG1031 508 LDVNSASKDVLRAIPGIGKKTLRKILAER-----PFKSSEEFLKLVPDGE 552 (560)
T ss_pred cccccccHHHHHhcccchhhhHHHHHhcC-----CccchHHHHhccCccc
Confidence 45899999999999999999999999988 8999999988 65433
No 69
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=91.82 E-value=0.41 Score=47.90 Aligned_cols=66 Identities=24% Similarity=0.380 Sum_probs=48.4
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHHH-HHHhCCC--------------CCCC-------HHhhhhcCCCHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYILE-LREESPE--------------PFKN-------LDDLKDIGLSAKQIK 602 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~-~R~~~gg--------------~f~~-------~~dL~~~gl~~~~~~ 602 (614)
..+...-|.+.+.+-|.++||||.|.|++|+- .+.+... +..+ ++-|...|.+.++++
T Consensus 95 ~~~l~~aI~~~d~~~L~k~PGIGkKtAerivleLk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~AL~~LGy~~~e~~ 174 (201)
T COG0632 95 PEELAQAIANEDVKALSKIPGIGKKTAERIVLELKGKLAAFLKGDGGSPAEDLSLDESSPALEEAVEALVALGYKEKEIK 174 (201)
T ss_pred HHHHHHHHHhcChHhhhcCCCCCHHHHHHHHHHHhhhhhhhcccccccccccccccccchhhhHHHHHHHHcCCCHHHHH
Confidence 44556668889999999999999999999863 3433211 1111 467888999999999
Q ss_pred HHHHHHhh
Q 035971 603 GMMKKEME 610 (614)
Q Consensus 603 ~~~~~~~~ 610 (614)
+.+++...
T Consensus 175 ~av~~v~~ 182 (201)
T COG0632 175 KAVKKVLK 182 (201)
T ss_pred HHHHHHHh
Confidence 98887654
No 70
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=91.70 E-value=0.21 Score=62.90 Aligned_cols=46 Identities=33% Similarity=0.473 Sum_probs=41.4
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
|..|+|||+..|+.|++.|+. |||.|++||.+ .+++.+.++.|...
T Consensus 1375 l~~I~glG~~~a~~Iv~~R~~--g~F~s~~Df~~R~~v~k~~ie~L~~~ 1421 (1437)
T PRK00448 1375 FNALPGLGENVAKSIVEAREE--GEFLSKEDLRKRTKVSKTLIEKLDEL 1421 (1437)
T ss_pred chhcCCCCHHHHHHHHHHHhc--CCCCCHHHHHHHhCCCHHHHHHHHHC
Confidence 568999999999999999984 59999999999 89999999998654
No 71
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=91.35 E-value=0.32 Score=51.28 Aligned_cols=77 Identities=21% Similarity=0.312 Sum_probs=57.5
Q ss_pred hhhhhcccccchhhhHHHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhh------------h-cCC
Q 035971 530 WETFNMRSSGMKNSLVQEYLKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLK------------D-IGL 596 (614)
Q Consensus 530 ~~~~~~~~~~~~~~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~------------~-~gl 596 (614)
-+++.++++.+-.++++.+= .|--+.+|+.+|||||+++|+.|.+.=+.. ..+.+++.. + .|+
T Consensus 30 g~~~r~~~y~~Aasvlk~~p--~~I~S~~ea~~lP~iG~kia~ki~EiletG--~l~ele~v~~de~~~~lklFtnifGv 105 (353)
T KOG2534|consen 30 GEEDRARAYRRAASVLKSLP--FPITSGEEAEKLPGIGPKIAEKIQEILETG--VLRELEAVRNDERSQSLKLFTNIFGV 105 (353)
T ss_pred ccHHHHHHHHHHHHHHHhCC--CCcccHHHhcCCCCCCHHHHHHHHHHHHcC--CchhHHHHhcchhHHHHHHHHHHhcc
Confidence 35566666666666666653 466788999999999999999999876543 355555544 4 799
Q ss_pred CHHHHHHHHHHHhh
Q 035971 597 SAKQIKGMMKKEME 610 (614)
Q Consensus 597 ~~~~~~~~~~~~~~ 610 (614)
+.+.+++|.....+
T Consensus 106 G~ktA~~Wy~~Gfr 119 (353)
T KOG2534|consen 106 GLKTAEKWYREGFR 119 (353)
T ss_pred CHHHHHHHHHhhhh
Confidence 99999999887654
No 72
>PRK06893 DNA replication initiation factor; Validated
Probab=91.14 E-value=0.17 Score=51.30 Aligned_cols=47 Identities=21% Similarity=0.305 Sum_probs=31.8
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..++||..+..+ +...+ ..+.+.+-.+++..++-||++|+||||.+.
T Consensus 11 ~~~~fd~f~~~~-~~~~~-----~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ 57 (229)
T PRK06893 11 DDETLDNFYADN-NLLLL-----DSLRKNFIDLQQPFFYIWGGKSSGKSHLLK 57 (229)
T ss_pred CcccccccccCC-hHHHH-----HHHHHHhhccCCCeEEEECCCCCCHHHHHH
Confidence 468899988654 22222 222233334678889999999999999874
No 73
>PRK06620 hypothetical protein; Validated
Probab=90.27 E-value=0.17 Score=50.99 Aligned_cols=51 Identities=25% Similarity=0.322 Sum_probs=33.8
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCc---eEEEeeccCCCCcceEeec
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGIN---ATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N---~tI~aYGqTGSGKTyTm~G 115 (614)
...|+||..+..+ +++..|. .+..+.+. + |+| -.++-||++|+||||.+..
T Consensus 10 ~~~~tfd~Fvvg~-~N~~a~~-~~~~~~~~-~-~~~~~~~~l~l~Gp~G~GKThLl~a 63 (214)
T PRK06620 10 SSKYHPDEFIVSS-SNDQAYN-IIKNWQCG-F-GVNPYKFTLLIKGPSSSGKTYLTKI 63 (214)
T ss_pred CCCCCchhhEecc-cHHHHHH-HHHHHHHc-c-ccCCCcceEEEECCCCCCHHHHHHH
Confidence 4568899877544 4456776 34444431 1 343 4599999999999998853
No 74
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=90.14 E-value=0.37 Score=51.87 Aligned_cols=50 Identities=30% Similarity=0.401 Sum_probs=34.4
Q ss_pred CHHhhccCCCCCHHHHHHHHHHHHhCCCCCC------------CHHhhhh-cCCCHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELREESPEPFK------------NLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~------------~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
+.++|..|||||+++|+.|.++-+.. .+. .+-+|.+ .|++++.+..|...
T Consensus 46 ~~~~l~~lpgIG~~ia~kI~Eil~tG--~~~~~~e~l~~~~p~~l~~l~~i~GiGpk~a~~l~~l 108 (334)
T smart00483 46 SMKDLKGLPGIGDKIKKKIEEIIETG--KSSKVLEILNDEVYKSLKLFTNVFGVGPKTAAKWYRK 108 (334)
T ss_pred CHHHHhcCCCccHHHHHHHHHHHHhC--cHHHHHHHhcCcHHHHHHHHHccCCcCHHHHHHHHHh
Confidence 34577888888888888888776543 343 2445666 78888888887663
No 75
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.96 E-value=0.42 Score=47.63 Aligned_cols=48 Identities=25% Similarity=0.427 Sum_probs=40.8
Q ss_pred HhhccCCCCCHHHHHHHH------HHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYIL------ELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii------~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
+.|.++.||||++|-+|+ +.+... --.++.-|.+ .|++.|.+++++-.
T Consensus 72 ~~LisVsGIGPK~ALaILs~~~~~el~~aI--~~~D~~~L~~vpGIGkKtAeRIIlE 126 (196)
T PRK13901 72 EELIGVDGIGPRAALRVLSGIKYNEFRDAI--DREDIELISKVKGIGNKMAGKIFLK 126 (196)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHH--HhCCHHHHhhCCCCCHHHHHHHHHH
Confidence 367889999999999999 667766 3568999999 99999999999754
No 76
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.56 E-value=0.16 Score=53.53 Aligned_cols=32 Identities=25% Similarity=0.521 Sum_probs=28.9
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+.|++..+.+--++.|+.-|+||||||.||-
T Consensus 112 glP~i~~~~~~~~~GLILVTGpTGSGKSTTlA 143 (353)
T COG2805 112 GLPPIVRELAESPRGLILVTGPTGSGKSTTLA 143 (353)
T ss_pred CCCHHHHHHHhCCCceEEEeCCCCCcHHHHHH
Confidence 46788899999999999999999999999983
No 77
>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=89.20 E-value=0.31 Score=42.75 Aligned_cols=47 Identities=21% Similarity=0.304 Sum_probs=35.2
Q ss_pred ccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHHHHHHHHH
Q 035971 553 NTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQIKGMMKK 607 (614)
Q Consensus 553 N~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~~~~~~~~ 607 (614)
+.+...+|+.|||||+++|+..+ .. | |.+++||. |-++..+..-++.
T Consensus 7 ~~~~~~~L~~iP~IG~a~a~DL~----~L-G-i~s~~~L~--g~dP~~Ly~~lc~ 53 (93)
T PF11731_consen 7 KRAGLSDLTDIPNIGKATAEDLR----LL-G-IRSPADLK--GRDPEELYERLCA 53 (93)
T ss_pred HHHHHHHHhcCCCccHHHHHHHH----Hc-C-CCCHHHHh--CCCHHHHHHHHHH
Confidence 34567899999999999999876 34 5 99999995 5566555554444
No 78
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.15 E-value=0.51 Score=46.97 Aligned_cols=46 Identities=24% Similarity=0.260 Sum_probs=35.9
Q ss_pred HhhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMM 605 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~ 605 (614)
..|.+++||||++|.+|+.. .+.. -=.++.-|.+ .|++.|++++++
T Consensus 73 ~~Li~V~GIGpK~Al~ILs~~~~~~l~~aI--~~~D~~~L~~vpGIGkKtAerIi 125 (194)
T PRK14605 73 ETLIDVSGIGPKLGLAMLSAMNAEALASAI--ISGNAELLSTIPGIGKKTASRIV 125 (194)
T ss_pred HHHhCCCCCCHHHHHHHHHhCCHHHHHHHH--HhCCHHHHHhCCCCCHHHHHHHH
Confidence 36788999999999999984 2222 0147788888 899999999965
No 79
>PRK08084 DNA replication initiation factor; Provisional
Probab=88.67 E-value=0.24 Score=50.47 Aligned_cols=47 Identities=13% Similarity=0.280 Sum_probs=31.0
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..|+||..+.. .+...+. .+..+.. ......++-||++|+||||.+.
T Consensus 17 ~~~~fd~f~~~--~n~~a~~-~l~~~~~---~~~~~~l~l~Gp~G~GKThLl~ 63 (235)
T PRK08084 17 DDETFASFYPG--DNDSLLA-ALQNALR---QEHSGYIYLWSREGAGRSHLLH 63 (235)
T ss_pred CcCCccccccC--ccHHHHH-HHHHHHh---CCCCCeEEEECCCCCCHHHHHH
Confidence 45788876644 5566664 3333332 2223479999999999999874
No 80
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.43 E-value=0.42 Score=47.57 Aligned_cols=64 Identities=25% Similarity=0.312 Sum_probs=47.6
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCC----C-----CCC-HHh----hhhcCCCHHHHHHHHHHH
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPE----P-----FKN-LDD----LKDIGLSAKQIKGMMKKE 608 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg----~-----f~~-~~d----L~~~gl~~~~~~~~~~~~ 608 (614)
..+....|..-+...|.++||||+|+|++|| +.|.+... + -.+ .+| |...|.+.+.+++++.+.
T Consensus 95 ~~el~~aI~~~D~~~L~kvpGIGkKtAerIilELk~K~~~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~ai~~i 173 (195)
T PRK14604 95 PDELQLAIAGGDVARLARVPGIGKKTAERIVLELKGKIDVRQLSGSTSPAVSALDRELSEILISLGYSAAEAAAAIAAL 173 (195)
T ss_pred HHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 4567777889999999999999999999985 66666410 0 011 233 555899999999998875
No 81
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=88.29 E-value=0.58 Score=57.77 Aligned_cols=47 Identities=17% Similarity=0.310 Sum_probs=40.5
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-c---CCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-I---GLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~---gl~~~~~~~~~~~ 607 (614)
=|..|+|||+..|++|++.|++ |||+++.|+.. + +++.+.++.|++.
T Consensus 803 gL~~Ikgvg~~~~~~Iv~~R~~--g~f~s~~Df~~R~~~~~~nk~~le~Li~a 853 (1107)
T PRK06920 803 SLLSIRNIGMATVTALYEEREK--KMFEDLFEFCLRMPSKFVTERNLEAFVWS 853 (1107)
T ss_pred chhhcCCCCHHHHHHHHHHhhc--CCCCCHHHHHHHHhccCCCHHHHHHHHHc
Confidence 3678999999999999999987 58999999988 5 4888998888653
No 82
>PRK12377 putative replication protein; Provisional
Probab=88.25 E-value=0.27 Score=50.73 Aligned_cols=50 Identities=22% Similarity=0.421 Sum_probs=35.7
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
.+||........|..++. .+..+++.+..+. ..++-||++|+||||.+.+
T Consensus 71 ~tFdnf~~~~~~~~~a~~-~a~~~a~~~~~~~-~~l~l~G~~GtGKThLa~A 120 (248)
T PRK12377 71 CSFANYQVQNDGQRYALS-QAKSIADELMTGC-TNFVFSGKPGTGKNHLAAA 120 (248)
T ss_pred CCcCCcccCChhHHHHHH-HHHHHHHHHHhcC-CeEEEECCCCCCHHHHHHH
Confidence 357765554556666775 5677777776654 4688999999999998753
No 83
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.00 E-value=0.47 Score=47.33 Aligned_cols=81 Identities=22% Similarity=0.289 Sum_probs=54.3
Q ss_pred ccCChhhhhhcccccchhhhHHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCC-----------CC--C-CHH
Q 035971 525 NMKSPWETFNMRSSGMKNSLVQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPE-----------PF--K-NLD 589 (614)
Q Consensus 525 ~~~~~~~~~~~~~~~~~~~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg-----------~f--~-~~~ 589 (614)
++--|.-..+..|.. =.++....|-..+...|.++||||+|+|++|| ++|.+... +- . ..+
T Consensus 78 ~GIGpK~AL~iLs~~----~~~~l~~aI~~~D~~~L~kvpGIGkKtAerIilELkdK~~~~~~~~~~~~~~~~~~~~~~~ 153 (197)
T PRK14603 78 SGVGPKLALALLSAL----PPALLARALLEGDARLLTSASGVGKKLAERIALELKGKVPEHLLAGPAGGGGTKVSSTAAE 153 (197)
T ss_pred CCcCHHHHHHHHcCC----CHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhhhhcccccccccccccCCccHH
Confidence 344455555543321 23466677888999999999999999999986 56665411 00 0 123
Q ss_pred h----hhhcCCCHHHHHHHHHHHh
Q 035971 590 D----LKDIGLSAKQIKGMMKKEM 609 (614)
Q Consensus 590 d----L~~~gl~~~~~~~~~~~~~ 609 (614)
| |...|.+.+.+++.+.+..
T Consensus 154 ea~~AL~~LGy~~~ea~~al~~i~ 177 (197)
T PRK14603 154 DAVLALLALGFREAQVRSVVAELL 177 (197)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHH
Confidence 3 4458999999999988764
No 84
>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=87.61 E-value=1.5 Score=43.49 Aligned_cols=65 Identities=23% Similarity=0.424 Sum_probs=44.4
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHH-HHHHhCCC--C--C-----CC----HHhhhhcCCCHHHHHHHHHHHh
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYIL-ELREESPE--P--F-----KN----LDDLKDIGLSAKQIKGMMKKEM 609 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii-~~R~~~gg--~--f-----~~----~~dL~~~gl~~~~~~~~~~~~~ 609 (614)
.++....|-.-+...|.++||||+++|++|+ +.+.+... + . .. ++-|...|.+.+.+++.+.+..
T Consensus 94 ~~el~~aI~~~d~~~L~~ipGiGkKtAerIileLk~k~~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~e~~~ai~~~~ 172 (191)
T TIGR00084 94 PEEFVYAIETEEVKALVKIPGVGKKTAERLLLELKGKLKGNKNLEMFTPTEAARDELFEALVSLGYKPQEIQQALKKIK 172 (191)
T ss_pred HHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHhhhcccccccccccccchHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 4455666666788899999999999999996 33333211 0 0 11 2335558999999999888753
No 85
>PRK09087 hypothetical protein; Validated
Probab=87.49 E-value=0.3 Score=49.61 Aligned_cols=48 Identities=25% Similarity=0.286 Sum_probs=31.7
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
...|+||..+..++ +..+|. +++....-.+..++-||++||||||.+.
T Consensus 15 ~~~~~~~~Fi~~~~-N~~a~~-----~l~~~~~~~~~~l~l~G~~GsGKThLl~ 62 (226)
T PRK09087 15 DPAYGRDDLLVTES-NRAAVS-----LVDHWPNWPSPVVVLAGPVGSGKTHLAS 62 (226)
T ss_pred CCCCChhceeecCc-hHHHHH-----HHHhcccCCCCeEEEECCCCCCHHHHHH
Confidence 34688998775443 344666 2333222235568999999999999885
No 86
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=87.16 E-value=0.33 Score=56.08 Aligned_cols=52 Identities=19% Similarity=0.274 Sum_probs=35.4
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
...|+||..+-.. ++...|. .+..+++..-.++|. ||-||.+|+||||.+..
T Consensus 282 ~~~~TFDnFvvG~-sN~~A~a-aa~avae~~~~~~Np-L~LyG~sGsGKTHLL~A 333 (617)
T PRK14086 282 NPKYTFDTFVIGA-SNRFAHA-AAVAVAEAPAKAYNP-LFIYGESGLGKTHLLHA 333 (617)
T ss_pred CCCCCHhhhcCCC-ccHHHHH-HHHHHHhCccccCCc-EEEECCCCCCHHHHHHH
Confidence 4668998866433 3445553 455555544446775 89999999999998853
No 87
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=87.06 E-value=0.32 Score=54.24 Aligned_cols=50 Identities=20% Similarity=0.325 Sum_probs=33.7
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
...|+||..+-. .++...|. .+..+.+. -..+|. ++-||++|+||||.+.
T Consensus 99 ~~~~tFdnFv~g-~~n~~a~~-~~~~~~~~-~~~~n~-l~lyG~~G~GKTHLl~ 148 (440)
T PRK14088 99 NPDYTFENFVVG-PGNSFAYH-AALEVAKN-PGRYNP-LFIYGGVGLGKTHLLQ 148 (440)
T ss_pred CCCCcccccccC-CchHHHHH-HHHHHHhC-cCCCCe-EEEEcCCCCcHHHHHH
Confidence 467999987743 45566665 34444433 122565 9999999999999874
No 88
>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=86.76 E-value=0.37 Score=52.90 Aligned_cols=51 Identities=20% Similarity=0.290 Sum_probs=32.4
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
...|+||...- ...+...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 104 ~~~~tfd~fi~-g~~n~~a~~-~~~~~~~~~~~~~n-~l~l~G~~G~GKThL~~ 154 (405)
T TIGR00362 104 NPKYTFDNFVV-GKSNRLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 154 (405)
T ss_pred CCCCccccccc-CCcHHHHHH-HHHHHHhCcCccCC-eEEEECCCCCcHHHHHH
Confidence 46789988443 345555664 44444443211234 47889999999999874
No 89
>PRK05642 DNA replication initiation factor; Validated
Probab=86.39 E-value=0.52 Score=47.95 Aligned_cols=46 Identities=17% Similarity=0.357 Sum_probs=28.6
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhc---CC-ceEEEeeccCCCCcceEee
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFN---GI-NATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~---G~-N~tI~aYGqTGSGKTyTm~ 114 (614)
..|+||..+... +...+ ..++...+ +. ...++-||++|+||||.+.
T Consensus 14 ~~~tfdnF~~~~--~~~a~-----~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~ 63 (234)
T PRK05642 14 DDATFANYYPGA--NAAAL-----GYVERLCEADAGWTESLIYLWGKDGVGRSHLLQ 63 (234)
T ss_pred CcccccccCcCC--hHHHH-----HHHHHHhhccccCCCCeEEEECCCCCCHHHHHH
Confidence 468899877432 23333 33333322 22 2468999999999999874
No 90
>PRK08116 hypothetical protein; Validated
Probab=86.01 E-value=0.49 Score=49.31 Aligned_cols=51 Identities=14% Similarity=0.240 Sum_probs=35.6
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhc--CCceEEEeeccCCCCcceEee
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFN--GINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~--G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..++||... .+..+...|. .+...++.+.. ..+..++-||++|+||||.+.
T Consensus 80 ~~~tFdnf~-~~~~~~~a~~-~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~ 132 (268)
T PRK08116 80 RNSTFENFL-FDKGSEKAYK-IARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAA 132 (268)
T ss_pred Hhcchhccc-CChHHHHHHH-HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH
Confidence 446777644 4555666665 66777776643 345569999999999999874
No 91
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=86.00 E-value=0.41 Score=53.41 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=33.4
Q ss_pred CceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 60 RKECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 60 ~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
-...|+||.... ...+...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 115 l~~~~tfd~fv~-g~~n~~a~~-~~~~~~~~~~~~~~-~l~l~G~~G~GKThL~~ 166 (450)
T PRK00149 115 LNPKYTFDNFVV-GKSNRLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 166 (450)
T ss_pred CCCCCccccccc-CCCcHHHHH-HHHHHHhCcCccCC-eEEEECCCCCCHHHHHH
Confidence 346788988543 235555665 44445443222344 48889999999999874
No 92
>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=85.92 E-value=0.55 Score=40.36 Aligned_cols=41 Identities=29% Similarity=0.424 Sum_probs=34.4
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAK 599 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~ 599 (614)
+-|++|||||+..|-.|+..=-.. ..|.+..+|.. .||.+.
T Consensus 2 ~~l~sipGig~~~a~~llaeigd~-~rF~~~~~l~~~~Gl~P~ 43 (87)
T PF02371_consen 2 ELLTSIPGIGPITAATLLAEIGDI-SRFKSAKQLASYAGLAPR 43 (87)
T ss_pred chhcCCCCccHHHHHHHHHHHcCc-hhcccchhhhhccccccc
Confidence 568999999999999999877443 35999999999 998764
No 93
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=85.60 E-value=1.1 Score=54.37 Aligned_cols=45 Identities=18% Similarity=0.316 Sum_probs=38.9
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh----cCCCHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD----IGLSAKQIKGMMK 606 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~----~gl~~~~~~~~~~ 606 (614)
|..|+|||+..|++|++.|+. |||+++.|+.. .+++.++++.|++
T Consensus 754 L~~Ikgig~~~~~~I~~~R~~--g~f~~~~df~~r~~~~~i~k~~le~LI~ 802 (971)
T PRK05898 754 FNTIKGFGDELLKKIKSALQN--KTFSDFISYIDALKKNNVSLSNIEILIN 802 (971)
T ss_pred chhcCCcCHHHHHHHHHHHhc--CCCCCHHHHHHHhhhcCCCHHHHHHHHH
Confidence 678999999999999999974 59999888753 6789999998876
No 94
>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=85.53 E-value=0.36 Score=50.39 Aligned_cols=50 Identities=34% Similarity=0.388 Sum_probs=27.6
Q ss_pred HHHhhhccCCHHhhccC-CCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCH
Q 035971 547 EYLKLLNTGGKEDLKRL-KGIGEKRASYILELREESPEPFKNLDDLKD-IGLSA 598 (614)
Q Consensus 547 ~~~~~lN~A~~~~L~~l-~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~ 598 (614)
....+||||+.+=|+++ +||++..|++||.+|... ||++++|+.. -+++.
T Consensus 182 ~~~iNiNta~~~vL~Al~~~l~~~~a~~ii~~R~~~--~~~~~~d~~~~~~l~~ 233 (280)
T PF03934_consen 182 GTKININTAPAEVLAALLPGLSESQAQAIIAARPEN--GFKSVDDFWAAPALSG 233 (280)
T ss_dssp S--EETTT-GTHHHHHHT---------HHHHT--TT----S-HHHHHTSGGGSS
T ss_pred CCccChhhCCHHHHHHhccCCCHHHHHHHHHhcccc--CCCCHHHHHhhhhccC
Confidence 34557999999999875 559999999999999877 5999999999 45655
No 95
>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=85.40 E-value=0.85 Score=37.41 Aligned_cols=44 Identities=30% Similarity=0.447 Sum_probs=27.7
Q ss_pred hhhcccccchhhhHHHHHhhhccCCHHh-hccCCCCCHHHHHHHHHH
Q 035971 532 TFNMRSSGMKNSLVQEYLKLLNTGGKED-LKRLKGIGEKRASYILEL 577 (614)
Q Consensus 532 ~~~~~~~~~~~~l~~~~~~~lN~A~~~~-L~~l~gig~~~A~~Ii~~ 577 (614)
.|.++++.-=-..+..+=..|.+. +| |..|||||+++|+.|.++
T Consensus 22 ~~r~~aY~~Aa~~i~~l~~~i~~~--~~~~~~l~gIG~~ia~kI~E~ 66 (68)
T PF14716_consen 22 PFRARAYRRAAAAIKALPYPITSG--EEDLKKLPGIGKSIAKKIDEI 66 (68)
T ss_dssp HHHHHHHHHHHHHHHHSSS-HHSH--HHHHCTSTTTTHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHhCCHhHhhH--HHHHhhCCCCCHHHHHHHHHH
Confidence 444444443334444433334444 54 999999999999999875
No 96
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.40 E-value=0.4 Score=53.82 Aligned_cols=32 Identities=25% Similarity=0.360 Sum_probs=26.9
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
-...+..++..-++-|+.-|+||||||.||+.
T Consensus 246 ~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~ 277 (500)
T COG2804 246 QLARLLRLLNRPQGLILVTGPTGSGKTTTLYA 277 (500)
T ss_pred HHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHH
Confidence 34456677888899999999999999999965
No 97
>PRK06526 transposase; Provisional
Probab=85.39 E-value=0.35 Score=50.06 Aligned_cols=44 Identities=23% Similarity=0.321 Sum_probs=27.0
Q ss_pred eeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 67 DYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 67 D~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
|.-+.+.-+...+..-.....++ .+.| |+.||++|+||||.+.+
T Consensus 74 d~~~~~~~~~~~~~~l~~~~fi~---~~~n--lll~Gp~GtGKThLa~a 117 (254)
T PRK06526 74 DFDHQRSLKRDTIAHLGTLDFVT---GKEN--VVFLGPPGTGKTHLAIG 117 (254)
T ss_pred cCccCCCcchHHHHHHhcCchhh---cCce--EEEEeCCCCchHHHHHH
Confidence 33344444555554433334443 3444 79999999999999864
No 98
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=85.39 E-value=1.3 Score=44.40 Aligned_cols=46 Identities=22% Similarity=0.294 Sum_probs=37.6
Q ss_pred hhccCCCCCHHHHHHHHHH-------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILEL-------REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~-------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.|.+++||||++|-+|+.. +.-.. .++.-|.+ .|++.|++++++-.
T Consensus 75 ~Li~V~GIGpK~Al~iLs~~~~~~l~~aI~~---~D~~~L~~ipGIGkKtAerIilE 128 (203)
T PRK14602 75 VLISISKVGAKTALAILSQFRPDDLRRLVAE---EDVAALTRVSGIGKKTAQHIFLE 128 (203)
T ss_pred HHhCCCCcCHHHHHHHHhhCCHHHHHHHHHh---CCHHHHhcCCCcCHHHHHHHHHH
Confidence 5788999999999999985 33232 48889999 99999999999743
No 99
>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=85.08 E-value=1.3 Score=44.01 Aligned_cols=46 Identities=22% Similarity=0.312 Sum_probs=34.1
Q ss_pred HhhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMM 605 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~ 605 (614)
.+|.+++||||++|.+|+.. ++..- =.+..-|.+ .|++.|++++++
T Consensus 72 ~~L~~V~GIGpK~Al~iL~~~~~~el~~aI~--~~d~~~L~~ipGiGkKtAerIi 124 (191)
T TIGR00084 72 KELIKVNGVGPKLALAILSNMSPEEFVYAIE--TEEVKALVKIPGVGKKTAERLL 124 (191)
T ss_pred HHHhCCCCCCHHHHHHHHhcCCHHHHHHHHH--hCCHHHHHhCCCCCHHHHHHHH
Confidence 36888999999999999753 11110 135566777 899999999997
No 100
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=84.70 E-value=0.87 Score=45.63 Aligned_cols=48 Identities=17% Similarity=0.238 Sum_probs=30.7
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...|+||..+... ++.++. .++.++.. .+....++-||++|+||||.+
T Consensus 12 ~~~~~~d~f~~~~--~~~~~~-~l~~~~~~--~~~~~~~~l~G~~G~GKT~La 59 (227)
T PRK08903 12 PPPPTFDNFVAGE--NAELVA-RLRELAAG--PVADRFFYLWGEAGSGRSHLL 59 (227)
T ss_pred CChhhhcccccCC--cHHHHH-HHHHHHhc--cCCCCeEEEECCCCCCHHHHH
Confidence 4568899887322 233333 44444442 234557999999999999876
No 101
>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=84.43 E-value=0.84 Score=45.31 Aligned_cols=47 Identities=23% Similarity=0.390 Sum_probs=30.9
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...|+||.... + .+..+++ .++.++ .......|+-||++|+||||..
T Consensus 9 ~~~~~~~~~~~-~-~~~~~~~-~l~~~~---~~~~~~~lll~G~~G~GKT~la 55 (226)
T TIGR03420 9 PDDPTFDNFYA-G-GNAELLA-ALRQLA---AGKGDRFLYLWGESGSGKSHLL 55 (226)
T ss_pred CCchhhcCcCc-C-CcHHHHH-HHHHHH---hcCCCCeEEEECCCCCCHHHHH
Confidence 34577887663 2 3444554 233332 2566778999999999999876
No 102
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=84.27 E-value=1.4 Score=44.59 Aligned_cols=60 Identities=18% Similarity=0.253 Sum_probs=41.4
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC-CCHHHHHHHHHHHhh
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG-LSAKQIKGMMKKEME 610 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g-l~~~~~~~~~~~~~~ 610 (614)
+..|-.|+.+||++++|||+++|..|...++.. ..+ ..+.+.+ .- -+++.+.+++...+.
T Consensus 51 l~~l~~a~~~eL~~i~GiG~aka~~l~a~~El~-rR~-~~~~~~~~~~l~s~~~v~~~l~~~l~ 112 (218)
T TIGR00608 51 LGHLLSAPPEELSSVPGIGEAKAIQLKAAVELA-KRY-AKSRMLERPVIRSPEAAAEFLHTDLA 112 (218)
T ss_pred HHHHHhCCHHHHHhCcCCcHHHHHHHHHHHHHH-HHH-HhhhhccCCCCCCHHHHHHHHHHHhc
Confidence 555778999999999999999999998887654 212 2233333 22 366777777765543
No 103
>PRK08609 hypothetical protein; Provisional
Probab=84.25 E-value=1.5 Score=50.63 Aligned_cols=48 Identities=21% Similarity=0.353 Sum_probs=35.3
Q ss_pred CHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh----------cCCCHHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD----------IGLSAKQIKGMMKKE 608 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~----------~gl~~~~~~~~~~~~ 608 (614)
..-+|++||||||++|.++.+.- | +++++||.+ .|++.+..++++...
T Consensus 86 ~~~~l~~i~GiGpk~a~~l~~~l----G-i~tl~~L~~a~~~~~~~~~~gfg~k~~~~il~~i 143 (570)
T PRK08609 86 GLLPLLKLPGLGGKKIAKLYKEL----G-VVDKESLKEACENGKVQALAGFGKKTEEKILEAV 143 (570)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHh----C-CCCHHHHHHHHHhCChhhccCcchhHHHHHHHHH
Confidence 34577889999999998886433 4 889999884 367888777776543
No 104
>PRK07952 DNA replication protein DnaC; Validated
Probab=83.50 E-value=0.99 Score=46.50 Aligned_cols=50 Identities=18% Similarity=0.308 Sum_probs=32.8
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..+||........|..++. .+...++.+..|. ..++.+|++|+||||.+.
T Consensus 68 ~~tFdnf~~~~~~q~~al~-~a~~~~~~~~~~~-~~~~l~G~~GtGKThLa~ 117 (244)
T PRK07952 68 NCSFENYRVECEGQMNALS-KARQYVEEFDGNI-ASFIFSGKPGTGKNHLAA 117 (244)
T ss_pred CCccccccCCCchHHHHHH-HHHHHHHhhccCC-ceEEEECCCCCCHHHHHH
Confidence 3567665434445656665 4555566554443 368999999999999874
No 105
>PRK06835 DNA replication protein DnaC; Validated
Probab=82.57 E-value=0.61 Score=50.16 Aligned_cols=36 Identities=22% Similarity=0.308 Sum_probs=26.1
Q ss_pred HHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 78 IIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 78 eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
.+++ .+...++.+-.+. -.++-||++|+||||.+.+
T Consensus 167 ~~~~-~~~~f~~~f~~~~-~~Lll~G~~GtGKThLa~a 202 (329)
T PRK06835 167 KILE-KCKNFIENFDKNN-ENLLFYGNTGTGKTFLSNC 202 (329)
T ss_pred HHHH-HHHHHHHHHhccC-CcEEEECCCCCcHHHHHHH
Confidence 4443 4556777766554 5699999999999997743
No 106
>PRK10702 endonuclease III; Provisional
Probab=82.42 E-value=0.91 Score=45.76 Aligned_cols=25 Identities=28% Similarity=0.505 Sum_probs=22.0
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
..+.++|++|||||++.|..|+-|=
T Consensus 105 p~~~~~Ll~lpGVG~ktA~~ill~a 129 (211)
T PRK10702 105 PEDRAALEALPGVGRKTANVVLNTA 129 (211)
T ss_pred CchHHHHhcCCcccHHHHHHHHHHH
Confidence 3578999999999999999998764
No 107
>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=82.22 E-value=0.83 Score=40.60 Aligned_cols=28 Identities=21% Similarity=0.268 Sum_probs=19.1
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+...+.......++.+|++|+|||+.+
T Consensus 9 ~i~~~~~~~~~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 9 ALREALELPPPKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred HHHHHHhCCCCCeEEEECCCCCCHHHHH
Confidence 3344443434557889999999999654
No 108
>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=81.84 E-value=0.71 Score=43.52 Aligned_cols=32 Identities=22% Similarity=0.318 Sum_probs=21.8
Q ss_pred hHHHHHHHhcC-CceEEEeeccCCCCcceEeec
Q 035971 84 VKPLISEVFNG-INATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 84 v~plV~~vl~G-~N~tI~aYGqTGSGKTyTm~G 115 (614)
+..+++.+-.+ ...-++..++||||||++|..
T Consensus 12 i~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~ 44 (184)
T PF04851_consen 12 IARIINSLENKKEERRVLLNAPTGSGKTIIALA 44 (184)
T ss_dssp HHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHH
T ss_pred HHHHHHHHHhcCCCCCEEEEECCCCCcChhhhh
Confidence 33444444444 456677788999999999864
No 109
>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=81.73 E-value=0.91 Score=48.68 Aligned_cols=27 Identities=22% Similarity=0.443 Sum_probs=19.5
Q ss_pred HHHHHhc-CCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFN-GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~-G~N~tI~aYGqTGSGKTyTm 113 (614)
.+..++. +....++.||++|+|||+++
T Consensus 30 ~l~~~~~~~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 30 ALRPILRGSRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred HHHHHHcCCCCCcEEEECCCCCCHHHHH
Confidence 3334343 45568999999999999765
No 110
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=81.32 E-value=0.72 Score=50.89 Aligned_cols=52 Identities=23% Similarity=0.346 Sum_probs=32.3
Q ss_pred CceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 60 RKECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 60 ~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
-...|+||.... ..+++..|. .+ ..+...-.+.---+|-||++|+||||.|.
T Consensus 80 l~~~ytFdnFv~-g~~N~~A~a-a~-~~va~~~g~~~nplfi~G~~GlGKTHLl~ 131 (408)
T COG0593 80 LNPKYTFDNFVV-GPSNRLAYA-AA-KAVAENPGGAYNPLFIYGGVGLGKTHLLQ 131 (408)
T ss_pred CCCCCchhheee-CCchHHHHH-HH-HHHHhccCCcCCcEEEECCCCCCHHHHHH
Confidence 345799998664 444455553 22 22222222333458999999999999985
No 111
>PRK08609 hypothetical protein; Provisional
Probab=81.20 E-value=1.8 Score=49.97 Aligned_cols=47 Identities=38% Similarity=0.562 Sum_probs=37.7
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHh-----------hhh-cCCCHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDD-----------LKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~d-----------L~~-~gl~~~~~~~~~~ 606 (614)
.+|..|||||+++|+.|-++=+.. .+.-+++ |.+ .|++++.+.+|..
T Consensus 48 ~~l~~ipgIG~~ia~kI~Eil~tG--~~~~le~l~~~~p~~~~~l~~i~GiGpk~a~~l~~ 106 (570)
T PRK08609 48 DDFTKLKGIGKGTAEVIQEYRETG--ESSVLQELKKEVPEGLLPLLKLPGLGGKKIAKLYK 106 (570)
T ss_pred hhhccCCCcCHHHHHHHHHHHHhC--ChHHHHHHHhhCcHHHHHHhcCCCCCHHHHHHHHH
Confidence 589999999999999999987543 4655554 455 6999999999875
No 112
>PRK08727 hypothetical protein; Validated
Probab=80.88 E-value=1 Score=45.72 Aligned_cols=18 Identities=28% Similarity=0.440 Sum_probs=15.6
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
-.++-||++|+||||.+.
T Consensus 42 ~~l~l~G~~G~GKThL~~ 59 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLAL 59 (233)
T ss_pred CeEEEECCCCCCHHHHHH
Confidence 359999999999998874
No 113
>KOG2841 consensus Structure-specific endonuclease ERCC1-XPF, ERCC1 component [Replication, recombination and repair]
Probab=80.70 E-value=1.2 Score=45.17 Aligned_cols=34 Identities=18% Similarity=0.463 Sum_probs=28.2
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCC
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKN 587 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~ 587 (614)
.|=.|+.+||..+||+|+.+|++|.++=.+ ||.+
T Consensus 220 ~~~~AS~~ele~~~G~G~~kak~l~~~l~~---pf~~ 253 (254)
T KOG2841|consen 220 QISNASEGELEQCPGLGPAKAKRLHKFLHQ---PFLS 253 (254)
T ss_pred HHHhcCHhHHHhCcCcCHHHHHHHHHHHhc---cccC
Confidence 355689999999999999999999998743 5653
No 114
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=80.67 E-value=0.83 Score=51.18 Aligned_cols=49 Identities=18% Similarity=0.230 Sum_probs=32.0
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.|+||..+..+ +++..|. .+..+...--..+| .++-||++|+||||.|.
T Consensus 111 ~~tFdnFv~g~-~n~~A~~-aa~~~a~~~~~~~n-pl~i~G~~G~GKTHLl~ 159 (450)
T PRK14087 111 ENTFENFVIGS-SNEQAFI-AVQTVSKNPGISYN-PLFIYGESGMGKTHLLK 159 (450)
T ss_pred ccchhcccCCC-cHHHHHH-HHHHHHhCcCcccC-ceEEECCCCCcHHHHHH
Confidence 58999866443 4555664 44555432111234 48999999999999874
No 115
>PRK08181 transposase; Validated
Probab=80.57 E-value=1.4 Score=46.09 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.2
Q ss_pred cCCceEEEeeccCCCCcceEeec
Q 035971 93 NGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
.|.| ++-||++|+||||.+.+
T Consensus 105 ~~~n--lll~Gp~GtGKTHLa~A 125 (269)
T PRK08181 105 KGAN--LLLFGPPGGGKSHLAAA 125 (269)
T ss_pred cCce--EEEEecCCCcHHHHHHH
Confidence 4544 89999999999998754
No 116
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=80.37 E-value=2.4 Score=41.87 Aligned_cols=48 Identities=23% Similarity=0.317 Sum_probs=37.2
Q ss_pred HhhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
+.|.++.||||++|-+|+.. +... -=.++.-|.+ .|++.|.+++++-.
T Consensus 73 ~~Li~VsGIGpK~Al~ILs~~~~~el~~aI--~~~D~~~L~~vpGIGkKtAeRIilE 127 (183)
T PRK14601 73 EMLLKVNGIGANTAMAVCSSLDVNSFYKAL--SLGDESVLKKVPGIGPKSAKRIIAE 127 (183)
T ss_pred HHHhccCCccHHHHHHHHcCCCHHHHHHHH--HhCCHHHHhhCCCCCHHHHHHHHHH
Confidence 36788999999999999952 3322 1247888888 99999999999743
No 117
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=80.03 E-value=1.6 Score=47.72 Aligned_cols=26 Identities=27% Similarity=0.597 Sum_probs=18.9
Q ss_pred HHHHhcCCce-EEEeeccCCCCcceEe
Q 035971 88 ISEVFNGINA-TIVACGAKGSGKTRVI 113 (614)
Q Consensus 88 V~~vl~G~N~-tI~aYGqTGSGKTyTm 113 (614)
+..++.|.-. .++.||.||+|||.|+
T Consensus 33 l~~~~~~~~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 33 LAPALRGERPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred HHHHhcCCCCccEEEECCCCCCHhHHH
Confidence 4444544444 4999999999999775
No 118
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=79.27 E-value=2.7 Score=41.66 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=37.1
Q ss_pred hhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.|.++.||||++|=+|+.. .+.. --.++.-|.+ .|++.|++++++-.
T Consensus 74 ~Li~V~GIGpK~AL~iLs~~~~~el~~aI--~~~D~~~L~~vpGIGkKtAerIilE 127 (188)
T PRK14606 74 SLTKVSRLGPKTALKIISNEDAETLVTMI--ASQDVEGLSKLPGISKKTAERIVME 127 (188)
T ss_pred HHhccCCccHHHHHHHHcCCCHHHHHHHH--HhCCHHHHhhCCCCCHHHHHHHHHH
Confidence 5778999999999999942 3333 1358888988 99999999999743
No 119
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=79.11 E-value=1.4 Score=47.91 Aligned_cols=27 Identities=19% Similarity=0.407 Sum_probs=19.1
Q ss_pred HHHHHhc-CCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFN-GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~-G~N~tI~aYGqTGSGKTyTm 113 (614)
.+...+. +....++-||++|+|||+++
T Consensus 45 ~l~~~~~~~~~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 45 ALRPALRGSRPLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred HHHHHhCCCCCCeEEEECCCCCCHHHHH
Confidence 3333443 44567899999999999765
No 120
>PRK08939 primosomal protein DnaI; Reviewed
Probab=78.86 E-value=0.91 Score=48.30 Aligned_cols=51 Identities=12% Similarity=0.059 Sum_probs=32.4
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcC-CceEEEeeccCCCCcceEeec
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNG-INATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G-~N~tI~aYGqTGSGKTyTm~G 115 (614)
.+||.+-..+..+..++. .+...++....| ..-.++.||++|+||||.+.+
T Consensus 124 atf~~~~~~~~~~~~~~~-~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~A 175 (306)
T PRK08939 124 ASLADIDLDDRDRLDALM-AALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAA 175 (306)
T ss_pred CcHHHhcCCChHHHHHHH-HHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHH
Confidence 345544333335566665 345666665543 234699999999999998854
No 121
>PF13245 AAA_19: Part of AAA domain
Probab=78.77 E-value=0.95 Score=38.05 Aligned_cols=26 Identities=23% Similarity=0.408 Sum_probs=17.8
Q ss_pred HHHHhcCCceEEEeeccCCCCcceEee
Q 035971 88 ISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 88 V~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
|...+. -+..++..|+.|||||+|+.
T Consensus 3 v~~al~-~~~~~vv~g~pGtGKT~~~~ 28 (76)
T PF13245_consen 3 VRRALA-GSPLFVVQGPPGTGKTTTLA 28 (76)
T ss_pred HHHHHh-hCCeEEEECCCCCCHHHHHH
Confidence 344455 34445568999999998863
No 122
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=78.13 E-value=3.1 Score=41.55 Aligned_cols=46 Identities=20% Similarity=0.136 Sum_probs=36.0
Q ss_pred hhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~ 606 (614)
.|.++.||||++|-+|+.- ++.. -=.++.-|.+ .|++.|.+++++-
T Consensus 73 ~L~~V~GIGpK~AL~iLs~~~~~~l~~aI--~~~D~~~L~kvpGIGkKtAerIil 125 (197)
T PRK14603 73 LLLGVSGVGPKLALALLSALPPALLARAL--LEGDARLLTSASGVGKKLAERIAL 125 (197)
T ss_pred HHhCcCCcCHHHHHHHHcCCCHHHHHHHH--HhCCHHHHhhCCCCCHHHHHHHHH
Confidence 5778999999999999972 2222 1247788888 9999999999874
No 123
>PRK10436 hypothetical protein; Provisional
Probab=77.42 E-value=1 Score=50.62 Aligned_cols=28 Identities=25% Similarity=0.389 Sum_probs=23.5
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+..++..-++.|+..|+||||||.||.
T Consensus 209 ~l~~~~~~~~GliLvtGpTGSGKTTtL~ 236 (462)
T PRK10436 209 QFRQALQQPQGLILVTGPTGSGKTVTLY 236 (462)
T ss_pred HHHHHHHhcCCeEEEECCCCCChHHHHH
Confidence 4556667778899999999999999984
No 124
>PRK13910 DNA glycosylase MutY; Provisional
Probab=77.40 E-value=1.7 Score=46.00 Aligned_cols=24 Identities=33% Similarity=0.426 Sum_probs=21.8
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHH
Q 035971 555 GGKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
.+.++|++|||||++.|.+|+-+=
T Consensus 69 ~~~~~L~~LpGIG~kTA~aIl~~a 92 (289)
T PRK13910 69 NDYQSLLKLPGIGAYTANAILCFG 92 (289)
T ss_pred hhHHHHHhCCCCCHHHHHHHHHHH
Confidence 468999999999999999999874
No 125
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=77.29 E-value=1.6 Score=48.99 Aligned_cols=52 Identities=21% Similarity=0.254 Sum_probs=33.9
Q ss_pred CceeeEeeeeecCCCChHHHHhhhhHHHHHHH--hcC--CceEEEeeccCCCCcceEee
Q 035971 60 RKECYKLDYCYEQNEGNGIIFAREVKPLISEV--FNG--INATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 60 ~~~~F~FD~VF~~~asQ~eVf~~~v~plV~~v--l~G--~N~tI~aYGqTGSGKTyTm~ 114 (614)
-...|+||..+-. .+++..|. .+..+.+.. ..| +| .++-||++|+||||.+.
T Consensus 104 l~~~~tFdnFv~g-~~N~~a~~-~a~~~a~~~~~~~~~~~n-pl~L~G~~G~GKTHLl~ 159 (445)
T PRK12422 104 LDPLMTFANFLVT-PENDLPHR-ILQEFTKVSEQGKGFPFN-PIYLFGPEGSGKTHLMQ 159 (445)
T ss_pred CCccccccceeeC-CcHHHHHH-HHHHHHhccccccCCCCc-eEEEEcCCCCCHHHHHH
Confidence 3567999987753 35555554 455554432 223 34 37789999999999874
No 126
>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=77.19 E-value=2.2 Score=43.96 Aligned_cols=29 Identities=31% Similarity=0.526 Sum_probs=20.4
Q ss_pred HHHHHHHhcCC---ceEEEeeccCCCCcceEe
Q 035971 85 KPLISEVFNGI---NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 85 ~plV~~vl~G~---N~tI~aYGqTGSGKTyTm 113 (614)
.+.+..++... .+.|+..|+||||||.+|
T Consensus 113 ~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 113 PEEIAEFLRSAVRGRGNILISGPTGSGKTTLL 144 (270)
T ss_dssp HHHHHHHHHHCHHTTEEEEEEESTTSSHHHHH
T ss_pred HHHHHHHHhhccccceEEEEECCCccccchHH
Confidence 34444444444 667788899999999887
No 127
>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=76.97 E-value=4.5 Score=43.04 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=25.9
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhc
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDI 594 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~ 594 (614)
.+|+.|||||+++|+++. + . | +++++||...
T Consensus 85 ~~l~~i~GiGpk~a~~l~--~--l-G-i~sl~dL~~a 115 (307)
T cd00141 85 LLLLRVPGVGPKTARKLY--E--L-G-IRTLEDLRKA 115 (307)
T ss_pred HHHHcCCCCCHHHHHHHH--H--c-C-CCCHHHHHHH
Confidence 356689999999999998 2 3 5 9999999993
No 128
>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=76.24 E-value=1.1 Score=43.95 Aligned_cols=31 Identities=32% Similarity=0.514 Sum_probs=22.1
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+..+.+.+-.|.+.+++.||+.|+|||+.|
T Consensus 7 el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 7 ELEKLKELLESGPSQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp HHHHHHHCHHH--SSEEEEEESTTSSHHHHH
T ss_pred HHHHHHHHHHhhcCcEEEEEcCCcCCHHHHH
Confidence 3445555555677889999999999999755
No 129
>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=76.16 E-value=1.2 Score=51.44 Aligned_cols=28 Identities=29% Similarity=0.434 Sum_probs=23.8
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+..++..-++.|+..|+||||||.||.
T Consensus 307 ~l~~~~~~~~Glilv~G~tGSGKTTtl~ 334 (564)
T TIGR02538 307 LFLEAIHKPQGMVLVTGPTGSGKTVSLY 334 (564)
T ss_pred HHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence 4566777788999999999999999974
No 130
>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=76.00 E-value=1.3 Score=50.05 Aligned_cols=28 Identities=25% Similarity=0.411 Sum_probs=23.3
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+..++..-.+.|+..|+||||||.||.
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL~ 260 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTLY 260 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4556677777889999999999999984
No 131
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=75.91 E-value=2.3 Score=45.81 Aligned_cols=31 Identities=23% Similarity=0.382 Sum_probs=26.3
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
..+|+.|||||+++|+++.+ . | +++++||.+
T Consensus 88 l~~l~~i~GiGpk~a~~l~~----l-G-i~tl~eL~~ 118 (334)
T smart00483 88 LKLFTNVFGVGPKTAAKWYR----K-G-IRTLEELKK 118 (334)
T ss_pred HHHHHccCCcCHHHHHHHHH----h-C-CCCHHHHHh
Confidence 35788899999999999954 2 5 999999987
No 132
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=75.88 E-value=3.9 Score=40.80 Aligned_cols=47 Identities=19% Similarity=0.223 Sum_probs=36.6
Q ss_pred hhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.|.++.||||++|-+|+.. .... -=.+..-|.+ .|++.|.+++++-.
T Consensus 74 ~Li~V~GIGpK~Al~iLs~~~~~el~~aI--~~~D~~~L~kvpGIGkKtAerIilE 127 (195)
T PRK14604 74 LLIGVSGVGPKAALNLLSSGTPDELQLAI--AGGDVARLARVPGIGKKTAERIVLE 127 (195)
T ss_pred HHhCcCCcCHHHHHHHHcCCCHHHHHHHH--HhCCHHHHhhCCCCCHHHHHHHHHH
Confidence 6788999999999999972 1111 1247788888 99999999999754
No 133
>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=75.22 E-value=2.5 Score=34.51 Aligned_cols=23 Identities=35% Similarity=0.458 Sum_probs=21.3
Q ss_pred CCHHhhccCCCCCHHHHHHHHHH
Q 035971 555 GGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
-+.+||..++|||+++|++|..|
T Consensus 44 ~s~~dL~~v~gi~~~~~~~i~~~ 66 (69)
T TIGR00426 44 KTVEDLKQVPGIGNSLVEKNLAV 66 (69)
T ss_pred CCHHHHHcCCCCCHHHHHHHHhh
Confidence 38899999999999999999987
No 134
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=74.95 E-value=6.4 Score=31.92 Aligned_cols=39 Identities=23% Similarity=0.485 Sum_probs=25.3
Q ss_pred ccCCCCCHHHHHHHHHHHHhCCCCCC--------CHHhhhh-cCCCHHHHHHHHH
Q 035971 561 KRLKGIGEKRASYILELREESPEPFK--------NLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 561 ~~l~gig~~~A~~Ii~~R~~~gg~f~--------~~~dL~~-~gl~~~~~~~~~~ 606 (614)
..|||||+..|+.+.++ |. ++++|.. .|++++.++.+..
T Consensus 6 LGI~~VG~~~ak~L~~~-------f~sl~~l~~a~~e~L~~i~gIG~~~A~si~~ 53 (64)
T PF12826_consen 6 LGIPGVGEKTAKLLAKH-------FGSLEALMNASVEELSAIPGIGPKIAQSIYE 53 (64)
T ss_dssp CTSTT--HHHHHHHHHC-------CSCHHHHCC--HHHHCTSTT--HHHHHHHHH
T ss_pred CCCCCccHHHHHHHHHH-------cCCHHHHHHcCHHHHhccCCcCHHHHHHHHH
Confidence 46999999999999742 44 4567777 6899887776653
No 135
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=74.94 E-value=2.1 Score=43.40 Aligned_cols=54 Identities=20% Similarity=0.198 Sum_probs=36.0
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHHHhCCCCCC---CHHhhhh-cCC---CHHHHHHHHHHHh
Q 035971 555 GGKEDLKRLKGIGEKRASYILELREESPEPFK---NLDDLKD-IGL---SAKQIKGMMKKEM 609 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~---~~~dL~~-~gl---~~~~~~~~~~~~~ 609 (614)
.+.++|.+|||||++.|+.|+-|=-.... |- .+-=+.. +|+ +...+++++...+
T Consensus 118 ~~re~Ll~l~GIG~kTAd~iLlya~~rp~-fvVDty~~Rv~~RlG~~~~~y~~~~~~~~~~l 178 (218)
T PRK13913 118 VTREWLLDQKGIGKESADAILCYVCAKEV-MVVDKYSYLFLKKLGIEIEDYDELQHFFEKGV 178 (218)
T ss_pred hHHHHHHcCCCccHHHHHHHHHHHcCCCc-cccchhHHHHHHHcCCCCCCHHHHHHHHHHhh
Confidence 46689999999999999999998644422 31 1122333 666 3466777776644
No 136
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=74.93 E-value=3.8 Score=40.54 Aligned_cols=47 Identities=21% Similarity=0.244 Sum_probs=35.8
Q ss_pred HhhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
..|.++.||||++|=+|+.- +... -=.+..-| + .|++.|.+++++-.
T Consensus 73 ~~LisV~GIGpK~Al~iLs~~~~~~l~~aI--~~~D~~~L-~vpGIGkKtAerIilE 126 (186)
T PRK14600 73 RMLVKVSGVNYKTAMSILSKLTPEQLFSAI--VNEDKAAL-KVNGIGEKLINRIITE 126 (186)
T ss_pred HHHhCcCCcCHHHHHHHHccCCHHHHHHHH--HcCCHhhe-ECCCCcHHHHHHHHHH
Confidence 36788999999999999972 2222 12477788 7 99999999999743
No 137
>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=74.88 E-value=1 Score=39.52 Aligned_cols=17 Identities=29% Similarity=0.341 Sum_probs=14.6
Q ss_pred EEeeccCCCCcceEeec
Q 035971 99 IVACGAKGSGKTRVIQG 115 (614)
Q Consensus 99 I~aYGqTGSGKTyTm~G 115 (614)
++.+|++|+|||+++..
T Consensus 3 ~~i~~~~G~GKT~~~~~ 19 (144)
T cd00046 3 VLLAAPTGSGKTLAALL 19 (144)
T ss_pred EEEECCCCCchhHHHHH
Confidence 57889999999998754
No 138
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=74.20 E-value=2.2 Score=50.24 Aligned_cols=47 Identities=28% Similarity=0.439 Sum_probs=36.4
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSA 598 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~ 598 (614)
.|..|+.++|..++|||+++|+.|.+|-..- ....-++.|...|+..
T Consensus 536 ~l~~As~eeL~~i~GIG~~~A~sI~~ff~~~-~~~~~i~~L~~~gv~~ 582 (665)
T PRK07956 536 ALRAASEEELAAVEGVGEVVAQSIVEFFAVE-ENRELIDELLEAGVNM 582 (665)
T ss_pred HHHhCCHHHHhccCCcCHHHHHHHHHHHhhh-hHHHHHHHHHHcCCCc
Confidence 4556899999999999999999999998643 1245566777777653
No 139
>PF14635 HHH_7: Helix-hairpin-helix motif ; PDB: 3PSI_A 3PSF_A.
Probab=74.14 E-value=5.6 Score=35.75 Aligned_cols=44 Identities=18% Similarity=0.268 Sum_probs=28.9
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcC-CCHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIG-LSAKQI 601 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~g-l~~~~~ 601 (614)
.-|+=+.|.||.+|.++++.=.+.||.+.+-.||...+ ++++..
T Consensus 50 ~~LqfV~GLGPRKA~~Ll~~l~~~g~~l~~R~~Lv~~~~~g~~Vf 94 (104)
T PF14635_consen 50 NLLQFVCGLGPRKAQALLKALKQNGGRLENRSQLVTKCLMGPKVF 94 (104)
T ss_dssp GGGGGSTT--HHHHHHHHHHHHHC-S----TTHHHHTTSS-HHHH
T ss_pred hhHhHhcCCChHHHHHHHHHHHHcCCccccHHHHHhcCCCCCeEE
Confidence 34666999999999999999888888899999998855 555543
No 140
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=74.02 E-value=3.2 Score=44.13 Aligned_cols=45 Identities=38% Similarity=0.513 Sum_probs=33.9
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh------------cCCCHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD------------IGLSAKQIKGMMK 606 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~------------~gl~~~~~~~~~~ 606 (614)
+..|||||+.+|..|-+|.+.. -++-+++|++ -|+++|.|..+-+
T Consensus 55 ~t~l~gIGk~ia~~I~e~l~tG--~~~~le~lk~~~P~gl~~Ll~v~GlGpkKi~~Ly~ 111 (326)
T COG1796 55 LTELPGIGKGIAEKISEYLDTG--EVKKLEALKKEVPEGLEPLLKVPGLGPKKIVSLYK 111 (326)
T ss_pred cCCCCCccHHHHHHHHHHHHcC--ccHHHHHHHHhCCcchHHHhhCCCCCcHHHHHHHH
Confidence 6689999999999999999764 4777766655 4567766665544
No 141
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=73.82 E-value=3.2 Score=41.63 Aligned_cols=49 Identities=22% Similarity=0.260 Sum_probs=38.0
Q ss_pred HhhccCCCCCHHHHHHHHHH------HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILEL------REESPEPFKNLDDLKD-IGLSAKQIKGMMKKE 608 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~------R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~ 608 (614)
..|.++.||||++|=+|+.. +... -=.++.-|.+ .|++.|.+++|+-..
T Consensus 73 ~~LisVnGIGpK~ALaiLs~~~~~~l~~aI--~~~d~~~L~k~PGIGkKtAerivleL 128 (201)
T COG0632 73 RLLISVNGIGPKLALAILSNLDPEELAQAI--ANEDVKALSKIPGIGKKTAERIVLEL 128 (201)
T ss_pred HHHHccCCccHHHHHHHHcCCCHHHHHHHH--HhcChHhhhcCCCCCHHHHHHHHHHH
Confidence 36788999999999999976 3222 1247788888 999999999997543
No 142
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=73.62 E-value=2.8 Score=43.25 Aligned_cols=124 Identities=16% Similarity=0.249 Sum_probs=68.9
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceE-EEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEE
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNGINAT-IVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSIT 142 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~t-I~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~ 142 (614)
..+|...+-+...+.+.+ -...+++|..+- ++.||..|+|||.++ ..++....+.+
T Consensus 24 ~~l~~L~Gie~Qk~~l~~-----Nt~~Fl~G~pannvLL~G~rGtGKSSlV--------------kall~~y~~~G---- 80 (249)
T PF05673_consen 24 IRLDDLIGIERQKEALIE-----NTEQFLQGLPANNVLLWGARGTGKSSLV--------------KALLNEYADQG---- 80 (249)
T ss_pred CCHHHhcCHHHHHHHHHH-----HHHHHHcCCCCcceEEecCCCCCHHHHH--------------HHHHHHHhhcC----
Confidence 456666665554444444 336777887664 778999999998654 44444444433
Q ss_pred EEEEEEecceecccc------CcccccceEEecCCCceEecCCeEEE-cCCHHHHHHHHHHHHhcCcccccccCCCCCCc
Q 035971 143 ISFYEIFQDHVYDLL------DPKQQEVQILENGQGKIQLKGLSQVP-VKSISEFQKLYISMHNSRKPVQKITMDLPRRS 215 (614)
Q Consensus 143 vS~~EIYnE~V~DLL------~~~~~~l~i~ed~~~~~~v~gLtev~-V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRS 215 (614)
+-.+||..+.+.||- ...+...-+ ++.+|+--. =.+...+..+|..|...| .........|.|-
T Consensus 81 LRlIev~k~~L~~l~~l~~~l~~~~~kFIl--------f~DDLsFe~~d~~yk~LKs~LeGgle~~-P~NvliyATSNRR 151 (249)
T PF05673_consen 81 LRLIEVSKEDLGDLPELLDLLRDRPYKFIL--------FCDDLSFEEGDTEYKALKSVLEGGLEAR-PDNVLIYATSNRR 151 (249)
T ss_pred ceEEEECHHHhccHHHHHHHHhcCCCCEEE--------EecCCCCCCCcHHHHHHHHHhcCccccC-CCcEEEEEecchh
Confidence 678899888766653 322222222 222333111 123455666666655443 3334445566666
Q ss_pred eEEE
Q 035971 216 HKGL 219 (614)
Q Consensus 216 H~if 219 (614)
|.+=
T Consensus 152 HLv~ 155 (249)
T PF05673_consen 152 HLVP 155 (249)
T ss_pred hccc
Confidence 6543
No 143
>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=73.39 E-value=1.7 Score=46.89 Aligned_cols=30 Identities=27% Similarity=0.514 Sum_probs=23.0
Q ss_pred HHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 85 KPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 85 ~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+.+..++.--.+.|+..|+||||||+||.
T Consensus 111 ~~~l~~~~~~~~g~ili~G~tGSGKTT~l~ 140 (343)
T TIGR01420 111 PPVLRELAERPRGLILVTGPTGSGKSTTLA 140 (343)
T ss_pred CHHHHHHHhhcCcEEEEECCCCCCHHHHHH
Confidence 345566665456789999999999999883
No 144
>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=73.35 E-value=1.2 Score=38.94 Aligned_cols=17 Identities=41% Similarity=0.651 Sum_probs=14.7
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..++-+|++|||||+++
T Consensus 3 ~~~~l~G~~G~GKTtl~ 19 (148)
T smart00382 3 EVILIVGPPGSGKTTLA 19 (148)
T ss_pred CEEEEECCCCCcHHHHH
Confidence 46788999999999776
No 145
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=73.34 E-value=2.7 Score=43.50 Aligned_cols=50 Identities=18% Similarity=0.165 Sum_probs=31.3
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
+|.+..+-.....+...|. .+..+++.+-+| ..++-||++|+||||...+
T Consensus 75 ~~~~~d~~~~~~~~~~~l~-~~~~~~~~~~~~--~nl~l~G~~G~GKThLa~A 124 (254)
T COG1484 75 TFEEFDFEFQPGIDKKALE-DLASLVEFFERG--ENLVLLGPPGVGKTHLAIA 124 (254)
T ss_pred CcccccccCCcchhHHHHH-HHHHHHHHhccC--CcEEEECCCCCcHHHHHHH
Confidence 4444333334445666665 455666555533 3467899999999998743
No 146
>KOG1921 consensus Endonuclease III [Replication, recombination and repair]
Probab=73.33 E-value=2.3 Score=43.52 Aligned_cols=24 Identities=33% Similarity=0.501 Sum_probs=21.3
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
-++.++|.+||||||++|--.+..
T Consensus 155 P~~v~dLlsLPGVGPKMa~L~m~~ 178 (286)
T KOG1921|consen 155 PDTVEDLLSLPGVGPKMAHLTMQV 178 (286)
T ss_pred chhHHHHhcCCCCchHHHHHHHHH
Confidence 578999999999999999988764
No 147
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=73.25 E-value=7.2 Score=41.81 Aligned_cols=28 Identities=29% Similarity=0.474 Sum_probs=19.9
Q ss_pred HHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 85 KPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 85 ~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..++..++.+. ..|+..|+||||||++|
T Consensus 138 ~~~L~~~v~~~-~~ilI~G~tGSGKTTll 165 (319)
T PRK13894 138 REAIIAAVRAH-RNILVIGGTGSGKTTLV 165 (319)
T ss_pred HHHHHHHHHcC-CeEEEECCCCCCHHHHH
Confidence 34566666653 55677799999999765
No 148
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=72.72 E-value=1.8 Score=42.86 Aligned_cols=27 Identities=22% Similarity=0.422 Sum_probs=20.0
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+..++...+..++..|+.||||||+|
T Consensus 9 a~~~~l~~~~~~~~l~G~aGtGKT~~l 35 (196)
T PF13604_consen 9 AVRAILTSGDRVSVLQGPAGTGKTTLL 35 (196)
T ss_dssp HHHHHHHCTCSEEEEEESTTSTHHHHH
T ss_pred HHHHHHhcCCeEEEEEECCCCCHHHHH
Confidence 445566555555666899999999987
No 149
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=72.69 E-value=2.5 Score=44.95 Aligned_cols=37 Identities=19% Similarity=0.243 Sum_probs=24.1
Q ss_pred HHHHhhhhHHHHHHHhcC-CceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVFNG-INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl~G-~N~tI~aYGqTGSGKTyTm 113 (614)
+.++++.+..++...+.+ .---.+-||+.|+|||.|.
T Consensus 37 e~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTSta 74 (346)
T KOG0989|consen 37 ELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTA 74 (346)
T ss_pred hhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHH
Confidence 334444444455554544 4445788999999999886
No 150
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=72.55 E-value=4.6 Score=46.61 Aligned_cols=48 Identities=25% Similarity=0.373 Sum_probs=37.8
Q ss_pred CHHhhccCCCCCHHHHHHHHHHHHhCCCCC-----CCHHhhhhcCCCHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELREESPEPF-----KNLDDLKDIGLSAKQIKGMMKK 607 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f-----~~~~dL~~~gl~~~~~~~~~~~ 607 (614)
....|..|||||+++.++++++= |+ + -+++||.++|++.+.++++...
T Consensus 512 ~~S~Ld~I~GiG~kr~~~Ll~~F---gs-~~~ik~As~eeL~~vgi~~~~A~~I~~~ 564 (567)
T PRK14667 512 LKDILDKIKGIGEVKKEIIYRNF---KT-LYDFLKADDEELKKLGIPPSVKQEVKKY 564 (567)
T ss_pred ccCccccCCCCCHHHHHHHHHHh---CC-HHHHHhCCHHHHHHcCCCHHHHHHHHHH
Confidence 34678899999999999999752 22 2 3678888899999999888653
No 151
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=72.51 E-value=1.1 Score=40.27 Aligned_cols=18 Identities=44% Similarity=0.704 Sum_probs=12.4
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
..+++.+|++|+|||.++
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 457899999999999654
No 152
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=72.30 E-value=4.6 Score=47.48 Aligned_cols=55 Identities=20% Similarity=0.379 Sum_probs=41.2
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCC-----CHHhhhh-cCCCHHHHHHHHHHHhhhhc
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELREESPEPFK-----NLDDLKD-IGLSAKQIKGMMKKEMECLF 613 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~-----~~~dL~~-~gl~~~~~~~~~~~~~~~~~ 613 (614)
.+....|..|||||++++++++++ .|. +. ++++|.+ -|++.+.+++++.. +.-+|
T Consensus 633 ~~~~s~L~~IPGIGpkr~k~LL~~---FGS-le~I~~AS~eELa~V~Gig~k~Ae~I~~~-L~~~~ 693 (694)
T PRK14666 633 AALTGELQRVEGIGPATARLLWER---FGS-LQAMAAAGEEGLAAVPGIGPARAAALHEH-LKTLF 693 (694)
T ss_pred hhhHhHHhhCCCCCHHHHHHHHHH---hCC-HHHHHhcCHHHHHhcCCcCHHHHHHHHHH-HHHhh
Confidence 334578999999999999999985 322 33 6778888 59999998888654 45554
No 153
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=72.13 E-value=2.3 Score=44.40 Aligned_cols=31 Identities=19% Similarity=0.423 Sum_probs=27.1
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
+.++++++.--.-+.|+..|+|||||+.||-
T Consensus 115 LPevlk~la~~kRGLviiVGaTGSGKSTtmA 145 (375)
T COG5008 115 LPEVLKDLALAKRGLVIIVGATGSGKSTTMA 145 (375)
T ss_pred CcHHHHHhhcccCceEEEECCCCCCchhhHH
Confidence 6678888887888899999999999999983
No 154
>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=72.03 E-value=2.5 Score=44.34 Aligned_cols=27 Identities=33% Similarity=0.412 Sum_probs=23.0
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHHHhC
Q 035971 555 GGKEDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
.+.++|.+|||||++.|..|+-+=-..
T Consensus 102 ~~~~~L~~LpGIG~~TA~~Il~~a~~~ 128 (275)
T TIGR01084 102 QDFEDLAALPGVGRYTAGAILSFALNK 128 (275)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHHCCC
Confidence 468999999999999999999876433
No 155
>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=71.96 E-value=2.6 Score=39.28 Aligned_cols=26 Identities=31% Similarity=0.485 Sum_probs=19.6
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
+++.+.+|.+ ++..|+||+|||....
T Consensus 7 ~~~~i~~~~~--~li~aptGsGKT~~~~ 32 (169)
T PF00270_consen 7 AIEAIISGKN--VLISAPTGSGKTLAYI 32 (169)
T ss_dssp HHHHHHTTSE--EEEECSTTSSHHHHHH
T ss_pred HHHHHHcCCC--EEEECCCCCccHHHHH
Confidence 3445556766 7889999999998764
No 156
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=71.94 E-value=3 Score=49.06 Aligned_cols=85 Identities=22% Similarity=0.350 Sum_probs=51.6
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEeecCC---CCcc--------hhHHHHHHHHh
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQGSY---EEPG--------LAALAVDEILS 132 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~---~~~G--------Lipral~~LF~ 132 (614)
|....=|.|.-.|..-++. +++.+-+|...- +.+|.||||||+||..-- ..|- +.....+++-.
T Consensus 2 f~~~~~~~~~~~Q~~ai~~----l~~~~~~~~~~~-~l~Gvtgs~kt~~~a~~~~~~~~p~Lvi~~n~~~A~ql~~el~~ 76 (655)
T TIGR00631 2 FKLHSPFQPAGDQPKAIAK----LVEGLTDGEKHQ-TLLGVTGSGKTFTMANVIAQVNRPTLVIAHNKTLAAQLYNEFKE 76 (655)
T ss_pred ceeccCCCCChHHHHHHHH----HHHhhhcCCCcE-EEECCCCcHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHHHHH
Confidence 4555567788888877763 555555664332 378999999999986521 1222 22223333322
Q ss_pred hccccCceEEEEEEEEeccee
Q 035971 133 ISEKMGKSITISFYEIFQDHV 153 (614)
Q Consensus 133 ~~~~~~~sV~vS~~EIYnE~V 153 (614)
...+......||||..|+-..
T Consensus 77 f~p~~~V~~f~sy~d~y~pe~ 97 (655)
T TIGR00631 77 FFPENAVEYFVSYYDYYQPEA 97 (655)
T ss_pred hCCCCeEEEEeeecccCCccc
Confidence 233444668899999997654
No 157
>PRK07945 hypothetical protein; Provisional
Probab=71.81 E-value=2.5 Score=45.61 Aligned_cols=33 Identities=30% Similarity=0.364 Sum_probs=29.8
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+|..|||||..+|+.|.++-+. |.+.-+++|..
T Consensus 50 ~l~~~~giG~~~a~~i~e~~~t--g~~~~l~~l~~ 82 (335)
T PRK07945 50 SLTSLPGIGPKTAKVIAQALAG--RVPDYLAELRA 82 (335)
T ss_pred CcccCCCcCHHHHHHHHHHHhc--CCHHHHHHHHH
Confidence 8999999999999999999874 36889999988
No 158
>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=71.73 E-value=2 Score=47.02 Aligned_cols=26 Identities=27% Similarity=0.548 Sum_probs=19.4
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+++.++. .++.|+..|+||||||+||
T Consensus 141 ~~~~l~~-~~GlilI~G~TGSGKTT~l 166 (372)
T TIGR02525 141 LFNSLLP-AAGLGLICGETGSGKSTLA 166 (372)
T ss_pred HHHHHHh-cCCEEEEECCCCCCHHHHH
Confidence 4444443 4567888999999999987
No 159
>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=71.61 E-value=1.4 Score=43.49 Aligned_cols=17 Identities=29% Similarity=0.655 Sum_probs=15.3
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
+.|+-.|+||||||.++
T Consensus 2 GlilI~GptGSGKTTll 18 (198)
T cd01131 2 GLVLVTGPTGSGKSTTL 18 (198)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 57889999999999887
No 160
>PRK10880 adenine DNA glycosylase; Provisional
Probab=71.55 E-value=2.8 Score=45.52 Aligned_cols=24 Identities=33% Similarity=0.480 Sum_probs=22.0
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHH
Q 035971 555 GGKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
.+.++|++|||||++.|..|+-+=
T Consensus 106 ~~~~~L~~LpGIG~~TA~aIl~~a 129 (350)
T PRK10880 106 ETFEEVAALPGVGRSTAGAILSLS 129 (350)
T ss_pred hhHHHHhcCCCccHHHHHHHHHHH
Confidence 577999999999999999999875
No 161
>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=71.55 E-value=2 Score=44.60 Aligned_cols=27 Identities=26% Similarity=0.532 Sum_probs=21.1
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+..++..-.+.|+-.|+||||||.+|
T Consensus 71 ~l~~~~~~~~GlilisG~tGSGKTT~l 97 (264)
T cd01129 71 IFRKLLEKPHGIILVTGPTGSGKTTTL 97 (264)
T ss_pred HHHHHHhcCCCEEEEECCCCCcHHHHH
Confidence 345556555667888999999999887
No 162
>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=71.43 E-value=2 Score=46.72 Aligned_cols=26 Identities=23% Similarity=0.441 Sum_probs=20.3
Q ss_pred HHHhcCCceEEEeeccCCCCcceEee
Q 035971 89 SEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 89 ~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
..++.--.+.|+..|+||||||.||.
T Consensus 127 ~~~~~~~~glilI~GpTGSGKTTtL~ 152 (358)
T TIGR02524 127 IDAIAPQEGIVFITGATGSGKSTLLA 152 (358)
T ss_pred HHHHhccCCEEEEECCCCCCHHHHHH
Confidence 33444457899999999999998873
No 163
>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=71.39 E-value=2.6 Score=41.09 Aligned_cols=21 Identities=24% Similarity=0.471 Sum_probs=16.0
Q ss_pred CceEEEeeccCCCCcceEeec
Q 035971 95 INATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm~G 115 (614)
..-.++-+|++|+||||...+
T Consensus 46 ~~~~l~l~G~~G~GKThLa~a 66 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVA 66 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHH
T ss_pred cCeEEEEEhhHhHHHHHHHHH
Confidence 345699999999999998643
No 164
>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=71.04 E-value=13 Score=38.28 Aligned_cols=52 Identities=12% Similarity=0.072 Sum_probs=34.6
Q ss_pred cCCHHHHHHHHHHHHhcCcccccccCCCCCCceEEEEEEEeeccCccccceeEEEeCCCccc
Q 035971 184 VKSISEFQKLYISMHNSRKPVQKITMDLPRRSHKGLIVNVSPVSNFLPTGKMNFVDLAGYQD 245 (614)
Q Consensus 184 V~S~ee~~~ll~~g~~~R~~~~t~~n~~SSRSH~if~I~v~~~~~~~~~skL~fVDLAGsEr 245 (614)
+.+++++...+..+... ... ....-|.-++.+.+.... .-.|+||||+|..+
T Consensus 86 ~~~~~~v~~~i~~~~~~-~~~-----~~~~~s~~~i~l~i~~p~----~~~ltLIDlPGl~~ 137 (240)
T smart00053 86 FTDFDEVRNEIEAETDR-VTG-----TNKGISPVPINLRVYSPH----VLNLTLIDLPGITK 137 (240)
T ss_pred cCCHHHHHHHHHHHHHH-hcC-----CCCcccCcceEEEEeCCC----CCceEEEeCCCccc
Confidence 46788888888765542 111 112346668888887754 36899999999854
No 165
>PRK04328 hypothetical protein; Provisional
Probab=70.75 E-value=7.4 Score=39.94 Aligned_cols=50 Identities=16% Similarity=0.267 Sum_probs=35.3
Q ss_pred HHHHHHHhcC---CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEE
Q 035971 85 KPLISEVFNG---INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYE 147 (614)
Q Consensus 85 ~plV~~vl~G---~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~E 147 (614)
-+-+|.++.| ....++.+|++|+|||.. +++.+++.+......+.+|+-|
T Consensus 9 i~~LD~lL~GGip~gs~ili~G~pGsGKT~l-------------~~~fl~~~~~~ge~~lyis~ee 61 (249)
T PRK04328 9 IPGMDEILYGGIPERNVVLLSGGPGTGKSIF-------------SQQFLWNGLQMGEPGVYVALEE 61 (249)
T ss_pred chhHHHHhcCCCcCCcEEEEEcCCCCCHHHH-------------HHHHHHHHHhcCCcEEEEEeeC
Confidence 3557788876 578899999999999832 4455666555555567777655
No 166
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=70.64 E-value=1.6 Score=52.40 Aligned_cols=20 Identities=35% Similarity=0.617 Sum_probs=16.6
Q ss_pred CCceEEEeeccCCCCcceEe
Q 035971 94 GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm 113 (614)
|-+.+++.||++|+|||.|+
T Consensus 779 gpnnvLYIyG~PGTGKTATV 798 (1164)
T PTZ00112 779 GSNQILYISGMPGTGKTATV 798 (1164)
T ss_pred CCCceEEEECCCCCCHHHHH
Confidence 45567889999999999776
No 167
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=70.42 E-value=3.6 Score=41.97 Aligned_cols=22 Identities=9% Similarity=0.148 Sum_probs=12.5
Q ss_pred CCCHHhhhh-cCCCHHHHHHHHH
Q 035971 585 FKNLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 585 f~~~~dL~~-~gl~~~~~~~~~~ 606 (614)
..+.++|.+ .||+.+.+++++.
T Consensus 32 ~AS~eEL~~V~GIg~k~AekI~e 54 (232)
T PRK12766 32 AADQSELAEVDGIGNALAARIKA 54 (232)
T ss_pred hCCHHHHHHccCCCHHHHHHHHH
Confidence 345666666 3666666655543
No 168
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=69.81 E-value=3.1 Score=41.95 Aligned_cols=55 Identities=22% Similarity=0.461 Sum_probs=39.1
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHHHhCCCCC---CCHHhhhh-cCCC----HHHHHHHHHHHh
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELREESPEPF---KNLDDLKD-IGLS----AKQIKGMMKKEM 609 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f---~~~~dL~~-~gl~----~~~~~~~~~~~~ 609 (614)
-.+.++|++|||||+|+|.-++.+=--..+ | ..+.=+.+ +|+. ++.+++.|.+.+
T Consensus 105 P~~~~eL~~LPGVGrKTAnvVL~~a~g~p~-i~VDTHV~Rvs~R~gl~~~~~p~~ve~~L~~~i 167 (211)
T COG0177 105 PDTREELLSLPGVGRKTANVVLSFAFGIPA-IAVDTHVHRVSNRLGLVPGKTPEEVEEALMKLI 167 (211)
T ss_pred CchHHHHHhCCCcchHHHHHHHHhhcCCCc-ccccchHHHHHHHhCCCCCCCHHHHHHHHHHHC
Confidence 467899999999999999999987422212 3 34555666 7765 577777776655
No 169
>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=69.76 E-value=3 Score=42.53 Aligned_cols=24 Identities=29% Similarity=0.386 Sum_probs=17.8
Q ss_pred HHhcCCceEEEeeccCCCCcceEe
Q 035971 90 EVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 90 ~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+......++.+|+.|+|||+.+
T Consensus 37 ~~~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 37 YGLSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HHHhcCCCEEEEEcCCCCCHHHHH
Confidence 334444567888999999999665
No 170
>KOG1857 consensus Transcription accessory protein TEX, contains S1 domain [Transcription]
Probab=69.63 E-value=1.6 Score=48.61 Aligned_cols=76 Identities=11% Similarity=-0.055 Sum_probs=60.9
Q ss_pred ChhhhhhcccccchhhhHHHHHhhhccCC-H-HhhccCCC---CCHHHHHH-HHHHHHhCCCCCCCHHhhhh-cCCCHHH
Q 035971 528 SPWETFNMRSSGMKNSLVQEYLKLLNTGG-K-EDLKRLKG---IGEKRASY-ILELREESPEPFKNLDDLKD-IGLSAKQ 600 (614)
Q Consensus 528 ~~~~~~~~~~~~~~~~l~~~~~~~lN~A~-~-~~L~~l~g---ig~~~A~~-Ii~~R~~~gg~f~~~~dL~~-~gl~~~~ 600 (614)
.+-.+|..+-.+..+.||.+--.++|++. . ++|+.++| .--..++. |..|||..+| ||..+++.- .|+.+..
T Consensus 28 ~H~~~~~~~~~~~~~~lV~q~~LNn~~~~~~~~~la~~~G~~~k~~~v~R~i~d~~kEY~~G-~K~~~~~A~~sG~~p~~ 106 (623)
T KOG1857|consen 28 AHVSSKKVNEKDVDKFLVYQHFLNNIRNIHHHQILAINRGENLKVLTVKRNISDGVKEYFCG-WKIQNRWAPRSGARPEL 106 (623)
T ss_pred hhhhhcchhhhhHHHHHHhHHhhcccchhhhHhHHhhcCCCceeEEEEEeechhhhhhhhcc-hhhhhhhhhhccCCchh
Confidence 55667777778888899988888888884 3 68999999 44445666 8899999999 999999999 9998876
Q ss_pred HHHH
Q 035971 601 IKGM 604 (614)
Q Consensus 601 ~~~~ 604 (614)
.+.+
T Consensus 107 ~~il 110 (623)
T KOG1857|consen 107 MKIL 110 (623)
T ss_pred HHHh
Confidence 6544
No 171
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=69.41 E-value=4.7 Score=49.57 Aligned_cols=43 Identities=28% Similarity=0.536 Sum_probs=37.0
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC---CCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG---LSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g---l~~~~~~~~~~~ 607 (614)
|..|+|||+..+++|++.| ||+++.|+.. +. ++.+.++.|++.
T Consensus 752 L~aIkgvg~~~~~~I~~~R-----~f~s~~Df~~R~~~~~~~k~~le~LI~a 798 (1034)
T PRK07279 752 LKNIKGLPRDLAYWIIENR-----PFSSIEDFLTRLPENYQKKEFLEPLIKI 798 (1034)
T ss_pred hhhcCCCCHHHHHHHHHCC-----CCCCHHHHHHhcCcCCCCHHHHHHHHHc
Confidence 6789999999999999987 7999999998 54 678888887653
No 172
>PRK09183 transposase/IS protein; Provisional
Probab=69.00 E-value=2.8 Score=43.41 Aligned_cols=44 Identities=18% Similarity=0.280 Sum_probs=25.1
Q ss_pred eeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEee
Q 035971 66 LDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 66 FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
||.-|.+..+...+..-..-.. +-.|. .++-+|++|+||||.+.
T Consensus 77 fd~~~~~~~~~~~i~~L~~~~~---i~~~~--~v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 77 YDFTFATGAPQKQLQSLRSLSF---IERNE--NIVLLGPSGVGKTHLAI 120 (259)
T ss_pred cccccCCCCCHHHHHHHhcCCc---hhcCC--eEEEEeCCCCCHHHHHH
Confidence 4444555555544443111111 22344 46689999999998874
No 173
>PRK06921 hypothetical protein; Provisional
Probab=68.68 E-value=3.4 Score=43.07 Aligned_cols=32 Identities=22% Similarity=0.327 Sum_probs=22.1
Q ss_pred hhHHHHHHHhc---CCceEEEeeccCCCCcceEee
Q 035971 83 EVKPLISEVFN---GINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 83 ~v~plV~~vl~---G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+...++.+-. +..-.++.||++|+||||.+.
T Consensus 101 ~~~~~~~~f~~~~~~~~~~l~l~G~~G~GKThLa~ 135 (266)
T PRK06921 101 CAVEYVKDFEKIQESRKNSIALLGQPGSGKTHLLT 135 (266)
T ss_pred HHHHHHHHHHHhcccCCCeEEEECCCCCcHHHHHH
Confidence 44455655432 234568999999999999874
No 174
>PRK00024 hypothetical protein; Reviewed
Probab=68.62 E-value=5.5 Score=40.56 Aligned_cols=59 Identities=24% Similarity=0.343 Sum_probs=37.8
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cC-CCHHHHHHHHHHHh
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IG-LSAKQIKGMMKKEM 609 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~g-l~~~~~~~~~~~~~ 609 (614)
+..|=.|+.+||+.++|||+++|..|...++.. ..+ ...++.+ .- -+++.+.+++....
T Consensus 57 L~~l~~as~~eL~~i~GIG~akA~~L~a~~El~-~R~-~~~~~~~~~~i~~~~~~~~~l~~~l 117 (224)
T PRK00024 57 LRGLLDASLEELQSIKGIGPAKAAQLKAALELA-RRI-LAERLREREVLLSPEDVADYLMAEL 117 (224)
T ss_pred HHHHHhCCHHHHhhccCccHHHHHHHHHHHHHH-HHH-HhchhccCCCCCCHHHHHHHHHHHc
Confidence 344557999999999999999999887776643 111 1222222 11 35666666666544
No 175
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=68.38 E-value=5.1 Score=41.52 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=22.1
Q ss_pred hccCCCCCHHHHHHHHHHHHhCC-CCCCCHHhhhh-cCCCHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESP-EPFKNLDDLKD-IGLSAKQIKGM 604 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~g-g~f~~~~dL~~-~gl~~~~~~~~ 604 (614)
|..+||||+.+|.+++++.--.+ .-..+.++|+. .|++.+.+..+
T Consensus 184 l~s~pgig~~~a~~ll~~fgS~~~~~tas~~eL~~v~gig~k~A~~I 230 (254)
T COG1948 184 LESIPGIGPKLAERLLKKFGSVEDVLTASEEELMKVKGIGEKKAREI 230 (254)
T ss_pred HHcCCCccHHHHHHHHHHhcCHHHHhhcCHHHHHHhcCccHHHHHHH
Confidence 44566666666666665543221 11234455555 56655544433
No 176
>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=68.05 E-value=3.6 Score=48.30 Aligned_cols=47 Identities=21% Similarity=0.409 Sum_probs=35.7
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSA 598 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~ 598 (614)
.|-.|+.++|.+++|||+++|+.|+++=... ....-++.|.+.|+..
T Consensus 523 ~l~~As~eeL~~i~GIG~~~A~~I~~ff~~~-~~~~~i~~L~~~gv~~ 569 (652)
T TIGR00575 523 KLKAASLEELLSVEGVGPKVAESIVNFFHDP-NNRQLIKKLEELGVEM 569 (652)
T ss_pred HHHhCCHHHHhcCCCcCHHHHHHHHHHHhhh-hHHHHHHHHHHcCCCc
Confidence 3445899999999999999999999986433 1135577787777753
No 177
>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=67.83 E-value=3.7 Score=40.54 Aligned_cols=23 Identities=35% Similarity=0.704 Sum_probs=20.1
Q ss_pred CHHhhccCCCCCHHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
..++|.+|||||++.|+.|+-+=
T Consensus 104 ~~~~L~~l~GIG~ktA~~ill~~ 126 (191)
T TIGR01083 104 DREELVKLPGVGRKTANVVLNVA 126 (191)
T ss_pred HHHHHHhCCCCcHHHHHHHHHHH
Confidence 46889999999999999999553
No 178
>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=67.82 E-value=1.8 Score=43.34 Aligned_cols=49 Identities=18% Similarity=0.221 Sum_probs=25.1
Q ss_pred hhhHHHHHHHHHHHhcCCCCccCCCChhhhhhhhccCCCceEEEEEEcCc
Q 035971 263 NKSIYTLFNVVYALNANESHVPYRESKLTRMLQESLGCKSKILMLTCLLP 312 (614)
Q Consensus 263 NkSL~aL~~vI~aL~~~~~~vPyRdSkLTrLLqdsLgGnskt~mI~~vsP 312 (614)
.....++.+.+..|.......+--...+...|-++++.+.++++| -+|-
T Consensus 164 ~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~i~Ii-DLs~ 212 (229)
T PF01935_consen 164 SSTIRALLRRLERLFRRGSFFSSTPEDIIKLLLDYLNKPGKIVII-DLSG 212 (229)
T ss_pred HHHHHHHHHHHHHHHhcccccccCcccHHHHhhhhcCCCCCEEEE-ECCC
Confidence 344455555555555544333333345555565666655665554 4444
No 179
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=67.72 E-value=7.7 Score=39.45 Aligned_cols=51 Identities=29% Similarity=0.367 Sum_probs=32.9
Q ss_pred hhhHHHH--HhhhccCCHHhhccCCCCCHHHHH----------HHHHHHHhCCCCCCCHHhhh
Q 035971 542 NSLVQEY--LKLLNTGGKEDLKRLKGIGEKRAS----------YILELREESPEPFKNLDDLK 592 (614)
Q Consensus 542 ~~l~~~~--~~~lN~A~~~~L~~l~gig~~~A~----------~Ii~~R~~~gg~f~~~~dL~ 592 (614)
+.|++.+ |..+=.|+.++|+.++|||+.+|- +|.+++...+..|.|.++..
T Consensus 48 ~~lL~~fg~L~~l~~a~~~el~~v~GiG~aka~~l~a~~El~~R~~~~~~~~~~~i~sp~~~~ 110 (224)
T COG2003 48 KELLQEFGSLAELLKASVEELSSVKGIGLAKAIQIKAAIELGKRILAERLREGVVITSPEAVA 110 (224)
T ss_pred HHHHHHcccHHHHHhCCHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHHhccCCccCCHHHHH
Confidence 3344433 556668999999999999988764 44555554444455544443
No 180
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=67.36 E-value=4.5 Score=29.24 Aligned_cols=18 Identities=39% Similarity=0.529 Sum_probs=15.5
Q ss_pred hccCCCCCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILEL 577 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~ 577 (614)
+-.+||||++.|.++|+.
T Consensus 18 i~Gv~giG~ktA~~ll~~ 35 (36)
T smart00279 18 IPGVKGIGPKTALKLLRE 35 (36)
T ss_pred CCCCCcccHHHHHHHHHh
Confidence 457999999999999864
No 181
>PRK07758 hypothetical protein; Provisional
Probab=66.95 E-value=5.7 Score=35.03 Aligned_cols=35 Identities=20% Similarity=0.285 Sum_probs=29.5
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCC
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREESPE 583 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg 583 (614)
|..|-.-+.+||..|+|+|++--+.|.+.-.+.|=
T Consensus 58 L~dLv~~te~ELl~iknlGkKSL~EIkekL~E~GL 92 (95)
T PRK07758 58 VEELSKYSEKEILKLHGMGPASLPKLRKALEESGL 92 (95)
T ss_pred HHHHHcCCHHHHHHccCCCHHHHHHHHHHHHHcCC
Confidence 44566789999999999999999999988777743
No 182
>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=66.72 E-value=6.3 Score=40.37 Aligned_cols=47 Identities=19% Similarity=0.439 Sum_probs=32.6
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHHhh
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKEME 610 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~~~ 610 (614)
.+-+..|||||++.|..+|+. |.+++++.+ +..-...+.+.+....+
T Consensus 182 sDnipGv~GiG~ktA~~Ll~~-------~gsle~i~~~~~~~~~~~~~~l~~~~~ 229 (240)
T cd00008 182 SDNIPGVPGIGEKTAAKLLKE-------YGSLEGILENLDKIKGKLREKLEEGKE 229 (240)
T ss_pred ccCCCCCCccCHHHHHHHHHH-------hCCHHHHHHhHHHHhHHHHHHHHHhHH
Confidence 345678999999999999953 558999888 44333355555555443
No 183
>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=66.67 E-value=2.8 Score=44.43 Aligned_cols=29 Identities=28% Similarity=0.479 Sum_probs=21.3
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...++..++.+ ...|+..|+||||||++|
T Consensus 121 ~~~~L~~~v~~-~~~ilI~G~tGSGKTTll 149 (299)
T TIGR02782 121 QRDVLREAVLA-RKNILVVGGTGSGKTTLA 149 (299)
T ss_pred HHHHHHHHHHc-CCeEEEECCCCCCHHHHH
Confidence 34556666654 456788999999999876
No 184
>PF12846 AAA_10: AAA-like domain
Probab=66.52 E-value=2 Score=43.93 Aligned_cols=19 Identities=37% Similarity=0.632 Sum_probs=15.7
Q ss_pred ceEEEeeccCCCCcceEee
Q 035971 96 NATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm~ 114 (614)
|.-++..|.||||||++|.
T Consensus 1 n~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 4567889999999998873
No 185
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=66.22 E-value=6.8 Score=42.39 Aligned_cols=51 Identities=22% Similarity=0.196 Sum_probs=27.4
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHH-Hhc--C--CceEEEeeccCCCCcceEe
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISE-VFN--G--INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~-vl~--G--~N~tI~aYGqTGSGKTyTm 113 (614)
.+.||.+.+-+..-+++.+....|+... .+. | ....++-||++|+|||++.
T Consensus 118 ~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 3445555554443344444333333221 111 2 1345899999999999765
No 186
>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=66.16 E-value=4.6 Score=37.06 Aligned_cols=24 Identities=29% Similarity=0.495 Sum_probs=21.6
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
-++.+||..++|||++++++|.+|
T Consensus 94 f~s~eeL~~V~GIg~k~~~~i~~~ 117 (120)
T TIGR01259 94 FKSVDDLTKVSGIGEKSLEKLKDY 117 (120)
T ss_pred cCCHHHHHcCCCCCHHHHHHHHhc
Confidence 478999999999999999999765
No 187
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=66.08 E-value=2.7 Score=41.03 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=16.2
Q ss_pred HHHHhcCCceEEEeeccCCCCcceEee
Q 035971 88 ISEVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 88 V~~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
|..++..-. ..+..|+.|||||+|+.
T Consensus 10 i~~~~~~~~-~~~i~GpPGTGKT~~l~ 35 (236)
T PF13086_consen 10 IQSALSSNG-ITLIQGPPGTGKTTTLA 35 (236)
T ss_dssp HHHHCTSSE--EEEE-STTSSHHHHHH
T ss_pred HHHHHcCCC-CEEEECCCCCChHHHHH
Confidence 344444333 56668999999998864
No 188
>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=65.24 E-value=8 Score=45.49 Aligned_cols=51 Identities=35% Similarity=0.332 Sum_probs=34.9
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh----cCCCHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD----IGLSAKQIKGMMK 606 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~----~gl~~~~~~~~~~ 606 (614)
.++.++|.+|||+|++.|+.|++.=+.. .-..++.+.. .|++.+.++.|++
T Consensus 462 ~L~~~~L~~L~GfG~Ksa~nIl~~Ie~s--k~~~l~r~L~aLgIpgVG~~~ak~L~~ 516 (652)
T TIGR00575 462 ALKKEDLLELEGFGEKSAQNLLNAIEKS--KEKPLARLLFALGIRHVGEVTAKNLAK 516 (652)
T ss_pred hcCHHHHhhccCccHHHHHHHHHHHHHh--ccCcHHHHHhhccCCCcCHHHHHHHHH
Confidence 6778888889999999999998887754 2344444433 3456666666655
No 189
>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=65.21 E-value=3.4 Score=44.88 Aligned_cols=37 Identities=22% Similarity=0.385 Sum_probs=27.2
Q ss_pred CCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 73 NEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 73 ~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+..|+.+|+.++..+.. .....+|.-|+.|+||||.+
T Consensus 3 n~eQ~~~~~~v~~~~~~----~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 3 NEEQRRVFDTVIEAIEN----EEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred CHHHHHHHHHHHHHHHc----cCCcEEEEEcCCCCChhHHH
Confidence 45688999866554443 34456788999999999876
No 190
>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=65.17 E-value=5 Score=39.42 Aligned_cols=37 Identities=35% Similarity=0.633 Sum_probs=27.6
Q ss_pred HHhhccCCCCCHHHHHHHHHH------------HHhCC-----CCCCCHHhhhh
Q 035971 557 KEDLKRLKGIGEKRASYILEL------------REESP-----EPFKNLDDLKD 593 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~------------R~~~g-----g~f~~~~dL~~ 593 (614)
.++|++|||||++.|.-++.+ |+..| |.|+++.|+.+
T Consensus 114 re~Ll~LpGVG~KTAnvVL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (177)
T TIGR03252 114 LRRLKALPGFGKQKAKIFLALLGKQLGVTPEGWREAAGPYGEPGSFRSVADITD 167 (177)
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHhCCCCcchHHhccccCCCCcccchhhcCC
Confidence 478999999999999988764 66542 34677777654
No 191
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=64.95 E-value=3.2 Score=47.73 Aligned_cols=44 Identities=25% Similarity=0.349 Sum_probs=31.8
Q ss_pred ccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCC
Q 035971 553 NTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLS 597 (614)
Q Consensus 553 N~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~ 597 (614)
-.|+.++|..|+|||+.+|+.|++|=..- ....-+++|.+.|+.
T Consensus 515 ~~a~~e~l~~i~gIG~~~a~si~~~f~~~-~~~~~i~~L~~~gv~ 558 (562)
T PRK08097 515 LSRSEQQWQQLPGIGEGRARQLIAFLQHP-EVKALADWLAAQGIT 558 (562)
T ss_pred HcCCHHHHhcCCCchHHHHHHHHHHHcCH-HHHHHHHHHHHcCCC
Confidence 34789999999999999999999985322 113345566666654
No 192
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=64.92 E-value=5.4 Score=37.63 Aligned_cols=25 Identities=32% Similarity=0.561 Sum_probs=21.8
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
....++|++|||||++.|+.|+-+-
T Consensus 79 ~~~~~~L~~l~GIG~~tA~~~l~~~ 103 (158)
T cd00056 79 PDAREELLALPGVGRKTANVVLLFA 103 (158)
T ss_pred cccHHHHHcCCCCCHHHHHHHHHHH
Confidence 4467889999999999999999864
No 193
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=64.47 E-value=8.1 Score=41.89 Aligned_cols=26 Identities=46% Similarity=0.532 Sum_probs=22.6
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
|=.|+.++|+.++|||+++|+.|-+-
T Consensus 313 Il~As~eeL~~VeGIGe~rA~~I~e~ 338 (352)
T PRK13482 313 LLAASIEDLDEVEGIGEVRARAIREG 338 (352)
T ss_pred HHcCCHHHHhhCCCcCHHHHHHHHHH
Confidence 44699999999999999999997653
No 194
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=64.11 E-value=2.8 Score=45.78 Aligned_cols=37 Identities=22% Similarity=0.351 Sum_probs=28.7
Q ss_pred EEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEEec
Q 035971 98 TIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEIFQ 150 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EIYn 150 (614)
-|+-||.+||||||++ +.+|+.. ..-.|+++++|-|.
T Consensus 32 ~~~iyG~sgTGKT~~~--------------r~~l~~~--n~~~vw~n~~ecft 68 (438)
T KOG2543|consen 32 IVHIYGHSGTGKTYLV--------------RQLLRKL--NLENVWLNCVECFT 68 (438)
T ss_pred eEEEeccCCCchhHHH--------------HHHHhhc--CCcceeeehHHhcc
Confidence 4699999999999875 7777776 33458888888774
No 195
>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=64.09 E-value=3 Score=37.08 Aligned_cols=15 Identities=40% Similarity=0.685 Sum_probs=12.7
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
|+-||+.|+|||+..
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 678999999999654
No 196
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=63.24 E-value=4.4 Score=42.73 Aligned_cols=21 Identities=29% Similarity=0.411 Sum_probs=16.3
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.|....++-||++|+|||++.
T Consensus 33 ~~~~~~lll~Gp~GtGKT~la 53 (337)
T PRK12402 33 SPNLPHLLVQGPPGSGKTAAV 53 (337)
T ss_pred CCCCceEEEECCCCCCHHHHH
Confidence 344345888999999999876
No 197
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=62.88 E-value=4.2 Score=42.74 Aligned_cols=21 Identities=29% Similarity=0.458 Sum_probs=16.0
Q ss_pred cCC-ceEEEeeccCCCCcceEe
Q 035971 93 NGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~-N~tI~aYGqTGSGKTyTm 113 (614)
.|. ...++-||++|+|||+.+
T Consensus 39 ~~~~~~~lll~G~~G~GKT~la 60 (316)
T PHA02544 39 KGRIPNMLLHSPSPGTGKTTVA 60 (316)
T ss_pred cCCCCeEEEeeCcCCCCHHHHH
Confidence 443 356677999999999876
No 198
>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=62.43 E-value=2.6 Score=41.88 Aligned_cols=16 Identities=44% Similarity=0.659 Sum_probs=14.2
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.|+-.|+||+|||.|+
T Consensus 3 vi~lvGptGvGKTTt~ 18 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTI 18 (196)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred EEEEECCCCCchHhHH
Confidence 4788999999999986
No 199
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=62.40 E-value=1.9 Score=40.95 Aligned_cols=22 Identities=32% Similarity=0.564 Sum_probs=12.6
Q ss_pred hcCCceEEEeeccCCCCcceEe
Q 035971 92 FNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 92 l~G~N~tI~aYGqTGSGKTyTm 113 (614)
..|....++.+|.+|+|||+.+
T Consensus 20 ~~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 20 QSGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp SS-----EEE-B-TTSSHHHHH
T ss_pred HcCCCcEEEEECCCCCCHHHHH
Confidence 3566778999999999999764
No 200
>PRK00076 recR recombination protein RecR; Reviewed
Probab=62.31 E-value=5.8 Score=39.60 Aligned_cols=24 Identities=33% Similarity=0.403 Sum_probs=19.8
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhC
Q 035971 558 EDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
++|..|||||+|.|+++.-|=-+.
T Consensus 11 ~~l~~LPGIG~KsA~Rla~~ll~~ 34 (196)
T PRK00076 11 EALRKLPGIGPKSAQRLAFHLLQR 34 (196)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcC
Confidence 578899999999999998765433
No 201
>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=62.31 E-value=12 Score=31.21 Aligned_cols=41 Identities=34% Similarity=0.485 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 565 GIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 565 gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.--.++|+.|+++.... ++.++.||.+ .|+|+..|-++.++
T Consensus 16 ~~e~~Ia~yil~~~~~~--~~~si~elA~~~~vS~sti~Rf~kk 57 (77)
T PF01418_consen 16 PTEKKIADYILENPDEI--AFMSISELAEKAGVSPSTIVRFCKK 57 (77)
T ss_dssp HHHHHHHHHHHH-HHHH--CT--HHHHHHHCTS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCHHHH--HHccHHHHHHHcCCCHHHHHHHHHH
Confidence 33467999999999998 6999999999 99999999999876
No 202
>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=62.11 E-value=3.6 Score=36.47 Aligned_cols=15 Identities=40% Similarity=0.764 Sum_probs=12.9
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|+-.|++|||||+.
T Consensus 1 vI~I~G~~gsGKST~ 15 (121)
T PF13207_consen 1 VIIISGPPGSGKSTL 15 (121)
T ss_dssp EEEEEESTTSSHHHH
T ss_pred CEEEECCCCCCHHHH
Confidence 478899999999964
No 203
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=61.59 E-value=6.2 Score=39.39 Aligned_cols=24 Identities=38% Similarity=0.414 Sum_probs=19.4
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhC
Q 035971 558 EDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
++|..|||||+|.|+++.-|=-+.
T Consensus 11 ~~l~~LPGIG~KsA~RlA~~ll~~ 34 (195)
T TIGR00615 11 ESLKKLPGIGPKSAQRLAFHLLKR 34 (195)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcC
Confidence 578899999999999997665433
No 204
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=61.37 E-value=6.1 Score=36.91 Aligned_cols=23 Identities=35% Similarity=0.676 Sum_probs=20.1
Q ss_pred CHHhhccCCCCCHHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
..++|.+|||||++.|+.|+-+=
T Consensus 70 ~~~~L~~l~GIG~~tA~~~l~~~ 92 (149)
T smart00478 70 DREELLKLPGVGRKTANAVLSFA 92 (149)
T ss_pred HHHHHHcCCCCcHHHHHHHHHHH
Confidence 56889999999999999998763
No 205
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=61.17 E-value=5.7 Score=46.24 Aligned_cols=51 Identities=22% Similarity=0.361 Sum_probs=36.7
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCC-CCCCHHhhhhc-CCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPE-PFKNLDDLKDI-GLSAKQIKGMMKK 607 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg-~f~~~~dL~~~-gl~~~~~~~~~~~ 607 (614)
...|..|||||++.+++|+++=..... .-.+.++|.++ |++.+.++.+...
T Consensus 542 ~s~L~~IpGIG~k~~k~Ll~~FgS~~~i~~As~eeL~~v~Gig~~~A~~I~~~ 594 (598)
T PRK00558 542 TSALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEA 594 (598)
T ss_pred hhhHhhCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHhhcCCcCHHHHHHHHHH
Confidence 456889999999999999986421111 01356788884 9999988887653
No 206
>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=60.65 E-value=4.4 Score=39.50 Aligned_cols=29 Identities=24% Similarity=0.402 Sum_probs=20.2
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+++...+.. ...++-.|++|||||.+|
T Consensus 14 ~~~~l~~~v~~-g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 14 QAAYLWLAVEA-RKNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHHHHHHHhC-CCEEEEECCCCCCHHHHH
Confidence 44455555554 345777899999999876
No 207
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=60.64 E-value=4.1 Score=43.76 Aligned_cols=27 Identities=33% Similarity=0.527 Sum_probs=19.3
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.++..++.+. ..|+..|+||||||.+|
T Consensus 135 ~~L~~~v~~~-~nilI~G~tGSGKTTll 161 (323)
T PRK13833 135 SVIRSAIDSR-LNIVISGGTGSGKTTLA 161 (323)
T ss_pred HHHHHHHHcC-CeEEEECCCCCCHHHHH
Confidence 4455555433 35788899999999887
No 208
>PF13479 AAA_24: AAA domain
Probab=60.56 E-value=4 Score=40.81 Aligned_cols=18 Identities=39% Similarity=0.576 Sum_probs=15.3
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
+..++.||++|+|||++.
T Consensus 3 ~~~~lIyG~~G~GKTt~a 20 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLA 20 (213)
T ss_pred ceEEEEECCCCCCHHHHH
Confidence 457899999999999765
No 209
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=60.50 E-value=6.2 Score=43.61 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=32.6
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHH-HHhc--C--CceEEEeeccCCCCcceEe
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLIS-EVFN--G--INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~-~vl~--G--~N~tI~aYGqTGSGKTyTm 113 (614)
....|+.|-+.+..-+++-+....|+.. ..+. | ....|+-||++|+|||+..
T Consensus 140 p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 3466777777665555555544445443 2333 2 3456899999999999654
No 210
>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=60.10 E-value=3.7 Score=37.39 Aligned_cols=14 Identities=50% Similarity=1.080 Sum_probs=12.5
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+.+|++|||||+.
T Consensus 2 ii~~G~pgsGKSt~ 15 (143)
T PF13671_consen 2 IILCGPPGSGKSTL 15 (143)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 78899999999965
No 211
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=59.91 E-value=4.7 Score=43.52 Aligned_cols=28 Identities=25% Similarity=0.436 Sum_probs=20.9
Q ss_pred HHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 85 KPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 85 ~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..++..+.++. +.|+..|.||||||+++
T Consensus 163 a~~L~~av~~r-~NILisGGTGSGKTTlL 190 (355)
T COG4962 163 AKFLRRAVGIR-CNILISGGTGSGKTTLL 190 (355)
T ss_pred HHHHHHHHhhc-eeEEEeCCCCCCHHHHH
Confidence 34444555555 78899999999999876
No 212
>PHA00729 NTP-binding motif containing protein
Probab=59.86 E-value=7.4 Score=39.75 Aligned_cols=30 Identities=33% Similarity=0.362 Sum_probs=22.0
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
++.+++.+..|--..|+.+|.+|+||||..
T Consensus 5 ~k~~~~~l~~~~f~nIlItG~pGvGKT~LA 34 (226)
T PHA00729 5 AKKIVSAYNNNGFVSAVIFGKQGSGKTTYA 34 (226)
T ss_pred HHHHHHHHhcCCeEEEEEECCCCCCHHHHH
Confidence 344566665544467999999999999764
No 213
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=59.42 E-value=12 Score=43.22 Aligned_cols=47 Identities=32% Similarity=0.476 Sum_probs=35.7
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCC-----CCHHhhhh-cCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPF-----KNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f-----~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
...|..|||||+++.++++++= |+ + -+++||.+ .|++.+.++++...
T Consensus 513 ~s~L~~I~GiG~kr~~~LL~~F---gs-~~~I~~As~eeL~~v~gi~~~~A~~I~~~ 565 (574)
T PRK14670 513 KLNYTKIKGIGEKKAKKILKSL---GT-YKDILLLNEDEIAEKMKINIKMAKKIKKF 565 (574)
T ss_pred ccccccCCCCCHHHHHHHHHHh---CC-HHHHHhCCHHHHHhCCCCCHHHHHHHHHH
Confidence 3588899999999999999752 22 3 36788988 59998777776543
No 214
>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=59.30 E-value=16 Score=36.98 Aligned_cols=49 Identities=20% Similarity=0.356 Sum_probs=32.0
Q ss_pred HHHHHHhc-CC--ceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEE
Q 035971 86 PLISEVFN-GI--NATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYE 147 (614)
Q Consensus 86 plV~~vl~-G~--N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~E 147 (614)
+-+|.++. |+ ..+++.+|++|||||.. +++.+++.+......+.+|+-|
T Consensus 8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~l-------------a~~~l~~~~~~ge~~lyvs~ee 59 (237)
T TIGR03877 8 PGMDEILHGGIPERNVVLLSGGPGTGKSIF-------------SQQFLWNGLQMGEPGIYVALEE 59 (237)
T ss_pred HhHHHHhcCCCcCCeEEEEEcCCCCCHHHH-------------HHHHHHHHHHcCCcEEEEEeeC
Confidence 34566664 43 56789999999999932 4455666555555566777544
No 215
>PRK06547 hypothetical protein; Provisional
Probab=59.15 E-value=8 Score=37.56 Aligned_cols=29 Identities=31% Similarity=0.425 Sum_probs=20.3
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceE
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
++.++..+..+.---|..+|.+|||||+.
T Consensus 3 ~~~~~~~~~~~~~~~i~i~G~~GsGKTt~ 31 (172)
T PRK06547 3 VALIAARLCGGGMITVLIDGRSGSGKTTL 31 (172)
T ss_pred HHHHHHHhhcCCCEEEEEECCCCCCHHHH
Confidence 34455555555556677779999999964
No 216
>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=58.97 E-value=7.2 Score=32.68 Aligned_cols=29 Identities=28% Similarity=0.562 Sum_probs=21.9
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+-+..|||||+++|.+||.. |.+++.+..
T Consensus 22 D~i~gv~giG~k~A~~ll~~-------~~~~~~~~~ 50 (75)
T cd00080 22 DNIPGVPGIGPKTALKLLKE-------YGSLENLLE 50 (75)
T ss_pred ccCCCCCcccHHHHHHHHHH-------hCCHHHHHH
Confidence 44668999999999999954 336666655
No 217
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=58.77 E-value=12 Score=46.63 Aligned_cols=46 Identities=39% Similarity=0.720 Sum_probs=39.7
Q ss_pred hccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh----cCCCHHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELREESPEPFKNLDDLKD----IGLSAKQIKGMMKK 607 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~----~gl~~~~~~~~~~~ 607 (614)
|-.|+|||...++.|++.|++. ||+++.|+-+ .+++.+.++.|++.
T Consensus 825 L~~IKGvg~~~i~~Iv~~R~~~--~~~~~~df~~r~~~~~l~kr~lE~Lika 874 (1139)
T COG0587 825 LGAIKGVGEDAIEEIVEARKEK--PFKSLEDFCDRIDRKGLNKRVLESLIKA 874 (1139)
T ss_pred hhhhcCCcHHHHHHHHHHhhcc--cCCcHhHHHHHhhhccCCHHHHHHHHHc
Confidence 6779999999999999999887 8999998655 56888999888764
No 218
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=58.67 E-value=13 Score=43.09 Aligned_cols=45 Identities=24% Similarity=0.468 Sum_probs=36.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCC-----CCHHhhhhcCCCHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPF-----KNLDDLKDIGLSAKQIKGMMK 606 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f-----~~~~dL~~~gl~~~~~~~~~~ 606 (614)
..|..|||||+++.+++++|= |+ + -+++||..+|++.+.++++..
T Consensus 530 s~Ld~I~GiG~~r~~~LL~~F---gs-~~~i~~As~eel~~vgi~~~~a~~i~~ 579 (581)
T COG0322 530 SSLDDIPGIGPKRRKALLKHF---GS-LKGIKSASVEELAKVGISKKLAEKIYE 579 (581)
T ss_pred CccccCCCcCHHHHHHHHHHh---hC-HHHHHhcCHHHHHHcCCCHHHHHHHHh
Confidence 457789999999999999874 23 4 357899999999999888754
No 219
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=58.42 E-value=3.4 Score=45.36 Aligned_cols=50 Identities=22% Similarity=0.235 Sum_probs=27.5
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHH-HHhc--C--CceEEEeeccCCCCcceEe
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLIS-EVFN--G--INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~-~vl~--G--~N~tI~aYGqTGSGKTyTm 113 (614)
+.||.+.+-+..-+++.+....|+.. ..+. | ....|+-||++|+|||+..
T Consensus 128 ~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 128 VTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHH
Confidence 44555555444444444433333333 2222 1 2346899999999999543
No 220
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=58.34 E-value=5.6 Score=45.52 Aligned_cols=31 Identities=32% Similarity=0.665 Sum_probs=24.7
Q ss_pred hhHHHHHHHhcCCc--eEEEeeccCCCCcceEe
Q 035971 83 EVKPLISEVFNGIN--ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 83 ~v~plV~~vl~G~N--~tI~aYGqTGSGKTyTm 113 (614)
.|+..++..+.|.. ..++.+||+|+|||.|+
T Consensus 30 eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 30 EVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTV 62 (519)
T ss_pred HHHHHHHHHhccCCCcceEEEECCCCCCHHHHH
Confidence 46777887776654 46888999999999886
No 221
>PRK13844 recombination protein RecR; Provisional
Probab=58.24 E-value=7.5 Score=38.91 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=19.8
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhC
Q 035971 558 EDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
+.|..|||||+|.|+++.-|=-+.
T Consensus 15 ~~l~~LPGIG~KsA~Rla~~lL~~ 38 (200)
T PRK13844 15 ESLRKLPTIGKKSSQRLALYLLDK 38 (200)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcC
Confidence 478889999999999998775444
No 222
>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=58.10 E-value=3.8 Score=42.21 Aligned_cols=20 Identities=25% Similarity=0.443 Sum_probs=15.5
Q ss_pred CceEEEeeccCCCCcceEee
Q 035971 95 INATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+..++..|..|||||+||.
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 67788888999999999873
No 223
>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=58.10 E-value=15 Score=41.60 Aligned_cols=48 Identities=17% Similarity=0.293 Sum_probs=31.5
Q ss_pred HHHHHHhcC---CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc-cCceEEEEEE
Q 035971 86 PLISEVFNG---INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK-MGKSITISFY 146 (614)
Q Consensus 86 plV~~vl~G---~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-~~~sV~vS~~ 146 (614)
+=+|.++.| .+.+++.+|++|||||.- +++.+++.+.+ .+..++||+-
T Consensus 8 ~gLD~il~GGlp~g~~~Li~G~pGsGKT~l-------------a~qfl~~g~~~~ge~~lyvs~e 59 (484)
T TIGR02655 8 EGFDDISHGGLPIGRSTLVSGTSGTGKTLF-------------SIQFLYNGIIHFDEPGVFVTFE 59 (484)
T ss_pred hhHHHhcCCCCCCCeEEEEEcCCCCCHHHH-------------HHHHHHHHHHhCCCCEEEEEEe
Confidence 446777765 478899999999999933 44555555443 3444556553
No 224
>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=58.03 E-value=6.4 Score=39.57 Aligned_cols=19 Identities=32% Similarity=0.503 Sum_probs=13.5
Q ss_pred CceEEEeeccCCCCcceEe
Q 035971 95 INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm 113 (614)
.+-.+++.|+.|||||+.-
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 5568999999999999764
No 225
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=57.71 E-value=5.4 Score=46.97 Aligned_cols=43 Identities=28% Similarity=0.393 Sum_probs=33.4
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCH
Q 035971 555 GGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSA 598 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~ 598 (614)
|+.++|..|+|||+.+|+.|++|-... ....-+++|.+.|+..
T Consensus 538 ~~~e~l~~i~giG~~~a~si~~ff~~~-~~~~~i~~l~~~gv~~ 580 (669)
T PRK14350 538 FALSKLLKIKGIGEKIALNIIEAFNDK-IILDKFNFFKNLGFKM 580 (669)
T ss_pred CCHHHHhhCCCccHHHHHHHHHHHcCH-HHHHHHHHHHHcCCCc
Confidence 688999999999999999999987432 1134567787777753
No 226
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=57.65 E-value=14 Score=43.22 Aligned_cols=49 Identities=12% Similarity=0.228 Sum_probs=31.1
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCC-CCCCHHhhhhcCCCHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPE-PFKNLDDLKDIGLSAKQIKGMMK 606 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg-~f~~~~dL~~~gl~~~~~~~~~~ 606 (614)
...|..|||||++++++++++=..... .--++++|.++ ++.+.++++..
T Consensus 551 ~S~L~~IpGIG~kr~~~LL~~FgSi~~I~~As~eeL~~v-i~~k~A~~I~~ 600 (624)
T PRK14669 551 TSELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAV-VGRAAAEAIIA 600 (624)
T ss_pred HHHHhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHHH-hCHHHHHHHHH
Confidence 367889999999999999974210000 01245666665 67776666643
No 227
>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=57.64 E-value=4.6 Score=37.59 Aligned_cols=26 Identities=23% Similarity=0.322 Sum_probs=19.0
Q ss_pred EEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhh
Q 035971 98 TIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSI 133 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~ 133 (614)
.+--.|+||+||||+- ..+.+.||..
T Consensus 55 VlSfHG~tGtGKn~v~----------~liA~~ly~~ 80 (127)
T PF06309_consen 55 VLSFHGWTGTGKNFVS----------RLIAEHLYKS 80 (127)
T ss_pred EEEeecCCCCcHHHHH----------HHHHHHHHhc
Confidence 3556799999999863 4566777765
No 228
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=57.63 E-value=16 Score=43.12 Aligned_cols=48 Identities=21% Similarity=0.321 Sum_probs=38.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCC-----CCHHhhhh-cCCCHHHHHHHHHHHh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPF-----KNLDDLKD-IGLSAKQIKGMMKKEM 609 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f-----~~~~dL~~-~gl~~~~~~~~~~~~~ 609 (614)
..|..|||||++++++++++= |+ | -+++||.+ .||+.+++++++-...
T Consensus 608 s~L~~IpGiG~kr~~~LL~~F---gS-~~~i~~As~eel~~v~gi~~~~A~~i~~~~~ 661 (691)
T PRK14672 608 LSFERLPHVGKVRAHRLLAHF---GS-FRSLQSATPQDIATAIHIPLTQAHTILHAAT 661 (691)
T ss_pred cccccCCCCCHHHHHHHHHHh---cC-HHHHHhCCHHHHHhCCCCCHHHHHHHHHHhh
Confidence 568899999999999999752 22 3 36788988 6999999999987653
No 229
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=57.35 E-value=6.1 Score=39.28 Aligned_cols=21 Identities=33% Similarity=0.460 Sum_probs=17.4
Q ss_pred HhhccCCCCCHHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R 578 (614)
+.|..|||||+|.|+++-=|=
T Consensus 12 ~~l~kLPGvG~KsA~R~AfhL 32 (198)
T COG0353 12 DALKKLPGVGPKSAQRLAFHL 32 (198)
T ss_pred HHHhhCCCCChhHHHHHHHHH
Confidence 468889999999999986543
No 230
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=57.34 E-value=6.8 Score=46.35 Aligned_cols=47 Identities=23% Similarity=0.335 Sum_probs=33.3
Q ss_pred hhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCH
Q 035971 551 LLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSA 598 (614)
Q Consensus 551 ~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~ 598 (614)
.|-.|+.++|..++|||+++|+.|.++=..- ....-+++|.+.|+..
T Consensus 553 ~L~~As~eeL~~i~GIG~k~A~sI~~ff~~~-~n~~~i~~L~~~Gv~~ 599 (689)
T PRK14351 553 AIMDADEEALRAVDDVGPTVAEEIREFFDSE-RNRAVIDDLLDHGVDP 599 (689)
T ss_pred HHHhCCHHHHhccCCcCHHHHHHHHHHHhhh-HHHHHHHHHHhccccc
Confidence 3556888999999999999999998884322 1255667777766653
No 231
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=57.31 E-value=7 Score=39.42 Aligned_cols=23 Identities=43% Similarity=0.479 Sum_probs=20.1
Q ss_pred CCHHhhc-cCCCCCHHHHHHHHHH
Q 035971 555 GGKEDLK-RLKGIGEKRASYILEL 577 (614)
Q Consensus 555 A~~~~L~-~l~gig~~~A~~Ii~~ 577 (614)
...++|+ +|||||++.|.-|+-|
T Consensus 115 ~~R~~Ll~~lpGIG~KTAd~vL~~ 138 (208)
T PRK01229 115 EAREFLVKNIKGIGYKEASHFLRN 138 (208)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHH
Confidence 4568899 9999999999999954
No 232
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=56.77 E-value=6 Score=36.93 Aligned_cols=24 Identities=25% Similarity=0.508 Sum_probs=16.8
Q ss_pred HHhcCCceEEEeeccCCCCcceEee
Q 035971 90 EVFNGINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 90 ~vl~G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.+.++. ..++..|++|||||.++.
T Consensus 19 ~~~~~~-~~~~i~~~~GsGKT~~~~ 42 (201)
T smart00487 19 ALLSGL-RDVILAAPTGSGKTLAAL 42 (201)
T ss_pred HHHcCC-CcEEEECCCCCchhHHHH
Confidence 444442 455777999999998764
No 233
>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=56.46 E-value=7.2 Score=41.61 Aligned_cols=21 Identities=38% Similarity=0.523 Sum_probs=18.6
Q ss_pred HHhhccCCCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~ 577 (614)
.++|++|||||++.|+.|+=+
T Consensus 219 ~~~L~~l~GIG~~tAd~vll~ 239 (310)
T TIGR00588 219 REALCELPGVGPKVADCICLM 239 (310)
T ss_pred HHHHHhCCCccHHHHHHHHHH
Confidence 588999999999999998754
No 234
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=56.11 E-value=4.9 Score=43.66 Aligned_cols=124 Identities=23% Similarity=0.272 Sum_probs=64.7
Q ss_pred CCCeEEEEEeCCCCChhhcc-CCcEEEeCCCCCCCCeEEEEeCCCCCCCcee--------eEeeeeecCCCChHHHHhhh
Q 035971 13 SKKARVIAKIRGFADLEAES-ANWVCIQKPNGEDSDSVTVSFGEQPSSRKEC--------YKLDYCYEQNEGNGIIFARE 83 (614)
Q Consensus 13 ~~~VrV~vRvRP~~~~e~~~-~~~v~v~~~~~~d~~~v~v~~~~~~~~~~~~--------F~FD~VF~~~asQ~eVf~~~ 83 (614)
++.-+.+|++.+.-+.+.-. +..|.++. ++..+.-.++......-.. -+|+.|=+-+..-++|.+.+
T Consensus 92 ~~g~~~vV~i~~~vd~~~L~pG~rVal~~----~s~~Iv~vLp~~~Dp~V~~M~v~e~PdvtY~dIGGL~~Qi~EirE~V 167 (406)
T COG1222 92 STGPKFVVNILSFVDRDLLEPGMRVALNR----DSYSIVRVLPPEVDPRVSVMEVEEKPDVTYEDIGGLDEQIQEIREVV 167 (406)
T ss_pred CCCCeEEEeccCCcCHHHcCCCCEEEEcC----CcceeeeeCCCccCchhheeeeccCCCCChhhccCHHHHHHHHHHHh
Confidence 34557788888877665433 44555532 2223333333222211111 12222323333345566655
Q ss_pred hHHHHHH-Hhc--CCce--EEEeeccCCCCcceEe--------------ecCC---CCcchhHHHHHHHHhhccccCce
Q 035971 84 VKPLISE-VFN--GINA--TIVACGAKGSGKTRVI--------------QGSY---EEPGLAALAVDEILSISEKMGKS 140 (614)
Q Consensus 84 v~plV~~-vl~--G~N~--tI~aYGqTGSGKTyTm--------------~G~~---~~~GLipral~~LF~~~~~~~~s 140 (614)
.-|+.+- .|. |..- -|+.||+.|+|||-.- .|+. ..-|==+|.++++|..+.+..-+
T Consensus 168 ELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGEGaRlVRelF~lArekaPs 246 (406)
T COG1222 168 ELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPS 246 (406)
T ss_pred cccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhccchHHHHHHHHHHhhcCCe
Confidence 5555432 232 4433 4999999999998432 2221 12344468999999998865543
No 235
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=55.90 E-value=5.9 Score=42.71 Aligned_cols=29 Identities=21% Similarity=0.393 Sum_probs=20.2
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+..++..++.+. ..|+..|+||||||.+|
T Consensus 149 ~~~~L~~~v~~~-~nili~G~tgSGKTTll 177 (332)
T PRK13900 149 IKEFLEHAVISK-KNIIISGGTSTGKTTFT 177 (332)
T ss_pred HHHHHHHHHHcC-CcEEEECCCCCCHHHHH
Confidence 344555555443 44778899999999876
No 236
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=55.76 E-value=8 Score=40.77 Aligned_cols=21 Identities=29% Similarity=0.419 Sum_probs=18.2
Q ss_pred HHhhccCCCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~ 577 (614)
.++|++|||||++.|+.|+-+
T Consensus 206 ~~~L~~LpGIGpwTA~~vllr 226 (283)
T PRK10308 206 MKTLQTFPGIGRWTANYFALR 226 (283)
T ss_pred HHHHhcCCCcCHHHHHHHHHH
Confidence 478999999999999997643
No 237
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=54.93 E-value=9.6 Score=41.90 Aligned_cols=51 Identities=12% Similarity=0.092 Sum_probs=35.0
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhc----CCceEEEeeccCCCCcceE
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFN----GINATIVACGAKGSGKTRV 112 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~----G~N~tI~aYGqTGSGKTyT 112 (614)
+.+.||.+.+.----..+.+..+..+.+.++. -.---+..||+.|+|||+.
T Consensus 110 ~~~~f~~~~g~~~~~p~f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTll 164 (413)
T PLN00020 110 RTRSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQ 164 (413)
T ss_pred hhcchhhhcCccccCHHHHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHH
Confidence 45667777665555566666666677777663 2334578899999999965
No 238
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=54.79 E-value=9.7 Score=44.08 Aligned_cols=54 Identities=11% Similarity=0.086 Sum_probs=37.4
Q ss_pred ChhhhhhcccccchhhhHHHH--HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhC
Q 035971 528 SPWETFNMRSSGMKNSLVQEY--LKLLNTGGKEDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 528 ~~~~~~~~~~~~~~~~l~~~~--~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
+.++.--.-...-++.|++.+ +..|=.||.+||.++|||+.++|+.|.++=.+.
T Consensus 514 s~L~~I~GiG~kr~~~LL~~Fgs~~~I~~As~eeL~~v~gi~~~~A~~I~~~l~~~ 569 (574)
T PRK14670 514 LNYTKIKGIGEKKAKKILKSLGTYKDILLLNEDEIAEKMKINIKMAKKIKKFAEKQ 569 (574)
T ss_pred cccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence 334433333333445555543 455789999999999999999999998875443
No 239
>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=54.25 E-value=8.2 Score=45.10 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=29.7
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...||.+++.+. .. ..++..+..++...++-||++|+|||+..
T Consensus 150 p~~~~~iiGqs~----~~----~~l~~~ia~~~~~~vlL~Gp~GtGKTTLA 192 (615)
T TIGR02903 150 PRAFSEIVGQER----AI----KALLAKVASPFPQHIILYGPPGVGKTTAA 192 (615)
T ss_pred cCcHHhceeCcH----HH----HHHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 346777776542 22 23455556678888999999999999654
No 240
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=54.07 E-value=7.8 Score=40.18 Aligned_cols=26 Identities=42% Similarity=0.675 Sum_probs=22.8
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
+=+|+.++|+.++|||+++|.+|=+.
T Consensus 208 ~~tas~~eL~~v~gig~k~A~~I~~~ 233 (254)
T COG1948 208 VLTASEEELMKVKGIGEKKAREIYRF 233 (254)
T ss_pred HhhcCHHHHHHhcCccHHHHHHHHHH
Confidence 45788899999999999999999654
No 241
>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=54.03 E-value=3.7 Score=36.40 Aligned_cols=26 Identities=23% Similarity=0.323 Sum_probs=19.0
Q ss_pred EEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhc
Q 035971 99 IVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSIS 134 (614)
Q Consensus 99 I~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~ 134 (614)
|+-||++|.|||+.+ ..++.++.+.+
T Consensus 1 I~i~G~~G~GKS~l~----------~~l~~~l~~~~ 26 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLA----------KELAKDLLKHI 26 (107)
T ss_pred CEEECCCCCCHHHHH----------HHHHHHHHHHh
Confidence 578999999999655 44566666554
No 242
>PLN03025 replication factor C subunit; Provisional
Probab=53.85 E-value=8.1 Score=41.03 Aligned_cols=21 Identities=33% Similarity=0.558 Sum_probs=15.8
Q ss_pred CCceEEEeeccCCCCcceEee
Q 035971 94 GINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~ 114 (614)
|.-..++-||+.|+|||++..
T Consensus 32 ~~~~~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 32 GNMPNLILSGPPGTGKTTSIL 52 (319)
T ss_pred CCCceEEEECCCCCCHHHHHH
Confidence 333346779999999998764
No 243
>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=53.61 E-value=5.7 Score=38.54 Aligned_cols=16 Identities=31% Similarity=0.642 Sum_probs=14.0
Q ss_pred eEEEeeccCCCCcceE
Q 035971 97 ATIVACGAKGSGKTRV 112 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyT 112 (614)
+.++-+|++|+|||++
T Consensus 4 ~~~ll~GpsGvGKT~l 19 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTEL 19 (171)
T ss_dssp EEEEEESSTTSSHHHH
T ss_pred EEEEEECCCCCCHHHH
Confidence 5688999999999974
No 244
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=53.55 E-value=8.3 Score=37.42 Aligned_cols=23 Identities=30% Similarity=0.585 Sum_probs=17.6
Q ss_pred HHHHhcCCceEEEeeccCCCCcceE
Q 035971 88 ISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 88 V~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
++.++.|.| ++..++||+|||.+
T Consensus 30 ~~~~~~~~~--~li~~~TG~GKT~~ 52 (203)
T cd00268 30 IPPLLSGRD--VIGQAQTGSGKTAA 52 (203)
T ss_pred HHHHhcCCc--EEEECCCCCcHHHH
Confidence 345556777 57889999999976
No 245
>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=53.55 E-value=8.7 Score=40.12 Aligned_cols=39 Identities=18% Similarity=0.227 Sum_probs=22.8
Q ss_pred CChHHHHhhhhHHHHHHHhc--CCceEEEeeccCCCCcceEe
Q 035971 74 EGNGIIFAREVKPLISEVFN--GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 74 asQ~eVf~~~v~plV~~vl~--G~N~tI~aYGqTGSGKTyTm 113 (614)
..|+++.+. +..++..... +....++-||++|+|||+..
T Consensus 7 iG~~~~~~~-l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 7 IGQEKVKEQ-LQLFIEAAKMRQEALDHLLLYGPPGLGKTTLA 47 (305)
T ss_pred cCHHHHHHH-HHHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 345555543 4444443322 22234778999999999665
No 246
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=53.13 E-value=4.4 Score=44.02 Aligned_cols=45 Identities=20% Similarity=0.301 Sum_probs=30.6
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...|.|+.|.+++ + ...-++..+.+..-+.|+.+|.+|||||+.+
T Consensus 11 ~~~~pf~~ivGq~----~----~k~al~~~~~~p~~~~vli~G~~GtGKs~~a 55 (350)
T CHL00081 11 RPVFPFTAIVGQE----E----MKLALILNVIDPKIGGVMIMGDRGTGKSTTI 55 (350)
T ss_pred CCCCCHHHHhChH----H----HHHHHHHhccCCCCCeEEEEcCCCCCHHHHH
Confidence 3478899888854 2 3334444444444456889999999999765
No 247
>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=52.93 E-value=7.7 Score=41.37 Aligned_cols=44 Identities=34% Similarity=0.548 Sum_probs=36.2
Q ss_pred HHhhhccCCHHhhccC-CCCC-----HHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 548 YLKLLNTGGKEDLKRL-KGIG-----EKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 548 ~~~~lN~A~~~~L~~l-~gig-----~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
.-++||+++.++|..| .--| .++|++|+++|+.. ||.+-.||.+
T Consensus 134 A~~~ln~~~e~~L~~i~~~yGEe~~a~~IA~~Iv~~R~~~--~i~tt~~L~~ 183 (305)
T TIGR00006 134 AAEILNTYSEEDLERILKKYGEEKFSKRIARAIVERRKKK--PIQTTKELAE 183 (305)
T ss_pred HHHHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHHhcC--CCCCHHHHHH
Confidence 3567999999999874 4444 47899999999865 8999999987
No 248
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=52.62 E-value=10 Score=44.30 Aligned_cols=51 Identities=29% Similarity=0.418 Sum_probs=39.1
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHH
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQ 600 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~ 600 (614)
+..|=.|+.++|..|+|||+.+|+.|++|-..- ..=.-+++|...|+..+.
T Consensus 534 l~~l~~a~~e~l~~i~giG~~vA~si~~ff~~~-~~~~li~~L~~~g~~~~~ 584 (667)
T COG0272 534 LEALLAASEEELASIPGIGEVVARSIIEFFANE-ENRELIDELLAAGVKWEE 584 (667)
T ss_pred HHHHHhcCHHHHhhccchhHHHHHHHHHHHcCH-HHHHHHHHHHHcCCCccc
Confidence 455778999999999999999999999998754 212356777777755443
No 249
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=52.59 E-value=11 Score=41.66 Aligned_cols=18 Identities=33% Similarity=0.589 Sum_probs=16.0
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
...|+.+|+||+|||.|+
T Consensus 174 ~~vi~lvGptGvGKTTT~ 191 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTI 191 (388)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 467899999999999987
No 250
>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=52.10 E-value=6.1 Score=34.90 Aligned_cols=15 Identities=47% Similarity=0.632 Sum_probs=12.4
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
|+-.|.+|||||+..
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 577899999999653
No 251
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=52.09 E-value=15 Score=41.09 Aligned_cols=16 Identities=31% Similarity=0.603 Sum_probs=13.4
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.++-||++|+|||++.
T Consensus 219 gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 219 GVILYGPPGTGKTLLA 234 (438)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4788999999999654
No 252
>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=51.99 E-value=16 Score=37.38 Aligned_cols=39 Identities=26% Similarity=0.330 Sum_probs=25.6
Q ss_pred cCCCChHHHHhhhhHHHHHHHhc-C-CceEEEeeccCCCCcc
Q 035971 71 EQNEGNGIIFAREVKPLISEVFN-G-INATIVACGAKGSGKT 110 (614)
Q Consensus 71 ~~~asQ~eVf~~~v~plV~~vl~-G-~N~tI~aYGqTGSGKT 110 (614)
++-..|+++-. ..+.+++.+.. | .-..++-||+.|.|||
T Consensus 24 ~efiGQ~~l~~-~l~i~i~aa~~r~~~l~h~lf~GPPG~GKT 64 (233)
T PF05496_consen 24 DEFIGQEHLKG-NLKILIRAAKKRGEALDHMLFYGPPGLGKT 64 (233)
T ss_dssp CCS-S-HHHHH-HHHHHHHHHHCTTS---EEEEESSTTSSHH
T ss_pred HHccCcHHHHh-hhHHHHHHHHhcCCCcceEEEECCCccchh
Confidence 34456778876 46777777654 2 2346899999999999
No 253
>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=51.84 E-value=4.5 Score=39.76 Aligned_cols=16 Identities=38% Similarity=0.783 Sum_probs=12.1
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
-++.+|++|||||.+|
T Consensus 40 h~li~G~tgsGKS~~l 55 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLL 55 (205)
T ss_dssp SEEEE--TTSSHHHHH
T ss_pred eEEEEcCCCCCccHHH
Confidence 4789999999999776
No 254
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=51.78 E-value=5.3 Score=43.31 Aligned_cols=29 Identities=31% Similarity=0.647 Sum_probs=20.1
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
...++..+..+ ...|+..|+||||||++|
T Consensus 151 ~~~~l~~~v~~-~~nilI~G~tGSGKTTll 179 (344)
T PRK13851 151 LEAFLHACVVG-RLTMLLCGPTGSGKTTMS 179 (344)
T ss_pred HHHHHHHHHHc-CCeEEEECCCCccHHHHH
Confidence 34455555542 345788899999999877
No 255
>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=51.63 E-value=12 Score=26.14 Aligned_cols=16 Identities=31% Similarity=0.638 Sum_probs=12.6
Q ss_pred hhccCCCCCHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYI 574 (614)
Q Consensus 559 ~L~~l~gig~~~A~~I 574 (614)
.+..++|||+++++++
T Consensus 12 pi~~~~GIG~kt~~kL 27 (32)
T PF11798_consen 12 PIRKFWGIGKKTAKKL 27 (32)
T ss_dssp BGGGSTTS-HHHHHHH
T ss_pred CHHhhCCccHHHHHHH
Confidence 4677999999999985
No 256
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=51.60 E-value=8 Score=41.08 Aligned_cols=44 Identities=30% Similarity=0.474 Sum_probs=36.3
Q ss_pred HHhhhccCCHHhhccC-CCCC-----HHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 548 YLKLLNTGGKEDLKRL-KGIG-----EKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 548 ~~~~lN~A~~~~L~~l-~gig-----~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
.-++||+++.++|..| .--| .++|++|+++|++. ||.+-.||.+
T Consensus 132 A~~~ln~~~~~~L~~i~~~yGee~~a~~iA~~Iv~~R~~~--~~~tt~~L~~ 181 (296)
T PRK00050 132 AAEVVNTYSEEELARIFKEYGEERFARRIARAIVEARPKK--PITTTGELAE 181 (296)
T ss_pred HHHHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHhccC--CCCCHHHHHH
Confidence 4577999999999874 4444 57899999999875 8999999988
No 257
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=51.30 E-value=10 Score=40.37 Aligned_cols=43 Identities=35% Similarity=0.559 Sum_probs=36.6
Q ss_pred HhhhccCCHHhhccC-CCCCH-----HHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 549 LKLLNTGGKEDLKRL-KGIGE-----KRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l-~gig~-----~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
-++||+++.++|..| .--|+ .+|++|+++|++. ||.+--||.+
T Consensus 139 ~evvN~~~e~~L~~I~~~yGEEr~arrIA~aIv~~R~~~--pi~tT~eLae 187 (314)
T COG0275 139 AEVVNTYSEEDLARIFKEYGEERFAKRIARAIVERRKKK--PIETTKELAE 187 (314)
T ss_pred HHHHhcCCHHHHHHHHHHhccHhhHHHHHHHHHHHhccC--CCccHHHHHH
Confidence 568999999999985 55554 6899999999977 9999999987
No 258
>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=51.25 E-value=4.9 Score=42.91 Aligned_cols=45 Identities=27% Similarity=0.448 Sum_probs=34.1
Q ss_pred HHHhhhccCCHHhhccC-CCC-----CHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 547 EYLKLLNTGGKEDLKRL-KGI-----GEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 547 ~~~~~lN~A~~~~L~~l-~gi-----g~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
...++||+.+.++|..| .-- ..++|++|+++|++. ||.+-.||.+
T Consensus 134 tAa~ilN~~se~~L~~I~~~yGee~~a~~IA~~Iv~~R~~~--pi~tT~~L~~ 184 (310)
T PF01795_consen 134 TAADILNTYSEEELARIFREYGEEKFARRIARAIVEARKKK--PITTTKELAE 184 (310)
T ss_dssp -HHHHHHHS-HHHHHHHHHHHH--TTHHHHHHHHHHHHHHS--S--BHHHHHH
T ss_pred cHHHHHHhcCHHHHHHHHHhcCchhHHHHHHHHHHHHhCCC--CCCCHHHHHH
Confidence 45678999999999874 333 458999999999987 8999999977
No 259
>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=50.83 E-value=10 Score=44.82 Aligned_cols=36 Identities=31% Similarity=0.389 Sum_probs=26.2
Q ss_pred HHHHhhhhHHHHHHH-hcCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEV-FNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~v-l~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. ++......+ -.+.|.||+..|.+|||||.+.
T Consensus 66 PHif~-~a~~A~~~m~~~~~~Q~IiisGeSGsGKTe~~ 102 (689)
T PF00063_consen 66 PHIFA-VAQRAYRQMLRTRQNQSIIISGESGSGKTETS 102 (689)
T ss_dssp SSHHH-HHHHHHHHHHHHTSEEEEEEEESTTSSHHHHH
T ss_pred Cccch-hhhcccccccccccccceeeccccccccccch
Confidence 45665 333333443 3689999999999999999884
No 260
>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=50.74 E-value=18 Score=37.59 Aligned_cols=46 Identities=20% Similarity=0.388 Sum_probs=32.2
Q ss_pred hhccCCCCC----HHHHHHHHHHHHhC------------------------CCCCCCHHhhhh-cCCCHHHHHHH
Q 035971 559 DLKRLKGIG----EKRASYILELREES------------------------PEPFKNLDDLKD-IGLSAKQIKGM 604 (614)
Q Consensus 559 ~L~~l~gig----~~~A~~Ii~~R~~~------------------------gg~f~~~~dL~~-~gl~~~~~~~~ 604 (614)
.|....|+. +.+|++|++|+... ++||.++++|.. .|++++...++
T Consensus 98 rLl~~lg~~~~~a~~la~~i~Dw~D~d~~~~~~~GaE~~~Y~~~~~py~~~n~~~~~~~EL~~v~G~~~~~~~~l 172 (280)
T PF03934_consen 98 RLLEALGLDEQEAERLADAIVDWIDADSNPTRPGGAEDSYYQSLDPPYRPANRPFASVSELRLVPGMDPELYERL 172 (280)
T ss_dssp HHHHTTT--HHHHHHHHHHHHHHHSSSSS--SSS---HHHHHTSSS-B----S--SSGGGGGGSTT--HHHHHHH
T ss_pred HHHHHcCCchhHHHHHHHHHHHHHhccCcccCCCCccccchhhcCCCCCCcCCCCCCHHHHHhhhhcCHHHHHhh
Confidence 455567888 88999999998766 367999999999 79999887765
No 261
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=50.52 E-value=5.8 Score=41.59 Aligned_cols=18 Identities=33% Similarity=0.569 Sum_probs=14.7
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
..|+-.|++|+|||+|+.
T Consensus 195 ~vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLA 212 (282)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 356677999999999973
No 262
>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=50.33 E-value=9.6 Score=37.43 Aligned_cols=24 Identities=33% Similarity=0.531 Sum_probs=18.4
Q ss_pred HHHhcCC---ceEEEeeccCCCCcceE
Q 035971 89 SEVFNGI---NATIVACGAKGSGKTRV 112 (614)
Q Consensus 89 ~~vl~G~---N~tI~aYGqTGSGKTyT 112 (614)
|.++.|- ...+.-||++|||||..
T Consensus 2 D~~l~GGi~~g~i~~i~G~~GsGKT~l 28 (209)
T TIGR02237 2 DELLGGGVERGTITQIYGPPGSGKTNI 28 (209)
T ss_pred hhhhcCCCCCCeEEEEECCCCCCHHHH
Confidence 4555554 67899999999999944
No 263
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=49.98 E-value=11 Score=42.58 Aligned_cols=59 Identities=24% Similarity=0.323 Sum_probs=41.8
Q ss_pred HhcCCceEEEeeccCCCCcceEeecCC-------------C-----CcchhH-----HHHHHHHhhccccCceEEEEEEE
Q 035971 91 VFNGINATIVACGAKGSGKTRVIQGSY-------------E-----EPGLAA-----LAVDEILSISEKMGKSITISFYE 147 (614)
Q Consensus 91 vl~G~N~tI~aYGqTGSGKTyTm~G~~-------------~-----~~GLip-----ral~~LF~~~~~~~~sV~vS~~E 147 (614)
+.+|.+ ++|++|||||||+...++- . .|+.+- -.+.+||+...+..+.-.+-.+.
T Consensus 108 i~~Grd--l~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~ 185 (482)
T KOG0335|consen 108 ISGGRD--LMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVV 185 (482)
T ss_pred eecCCc--eEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeee
Confidence 345555 4999999999999987631 0 122111 24678999988888888888888
Q ss_pred Eecc
Q 035971 148 IFQD 151 (614)
Q Consensus 148 IYnE 151 (614)
+|+.
T Consensus 186 ~ygg 189 (482)
T KOG0335|consen 186 VYGG 189 (482)
T ss_pred eeCC
Confidence 9966
No 264
>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=49.85 E-value=6.2 Score=40.60 Aligned_cols=18 Identities=33% Similarity=0.469 Sum_probs=14.8
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
...++-||++|+|||++.
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 345788999999999764
No 265
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=49.59 E-value=9.4 Score=42.13 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=19.3
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
.+..+++|.| +++.++||||||.+
T Consensus 31 ai~~~~~g~d--~l~~apTGsGKT~~ 54 (434)
T PRK11192 31 AIPPALDGRD--VLGSAPTGTGKTAA 54 (434)
T ss_pred HHHHHhCCCC--EEEECCCCChHHHH
Confidence 3456678877 78889999999976
No 266
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=49.47 E-value=12 Score=37.63 Aligned_cols=53 Identities=30% Similarity=0.503 Sum_probs=35.2
Q ss_pred CHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHh-----hhhcCC----CHHHHHHHHHHHhh
Q 035971 556 GKEDLKRLKGIGEKRASYILELREESPEPFKNLDD-----LKDIGL----SAKQIKGMMKKEME 610 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~d-----L~~~gl----~~~~~~~~~~~~~~ 610 (614)
..++|..|+|||+..|+.|+-|=-..+- | -+|. |..+|. +-++|++++.+.+.
T Consensus 113 ~R~~LL~iKGIG~ETaDsILlYa~~rp~-F-VvD~Yt~R~l~rlg~i~~k~ydeik~~fe~~l~ 174 (215)
T COG2231 113 LREELLSIKGIGKETADSILLYALDRPV-F-VVDKYTRRLLSRLGGIEEKKYDEIKELFEENLP 174 (215)
T ss_pred HHHHHHccCCcchhhHHHHHHHHhcCcc-c-chhHHHHHHHHHhcccccccHHHHHHHHHhcch
Confidence 4789999999999999999999765533 4 1221 222332 24567777766553
No 267
>PRK13764 ATPase; Provisional
Probab=49.35 E-value=7.9 Score=45.03 Aligned_cols=21 Identities=33% Similarity=0.479 Sum_probs=16.8
Q ss_pred CCceEEEeeccCCCCcceEee
Q 035971 94 GINATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm~ 114 (614)
.....|+..|+||||||+++.
T Consensus 255 ~~~~~ILIsG~TGSGKTTll~ 275 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTFAQ 275 (602)
T ss_pred hcCCEEEEECCCCCCHHHHHH
Confidence 334558999999999998873
No 268
>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=49.13 E-value=7.2 Score=35.59 Aligned_cols=15 Identities=33% Similarity=0.694 Sum_probs=12.9
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
|+.+|++|+|||+.+
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 788999999999654
No 269
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=49.10 E-value=9.4 Score=42.07 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=18.5
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
.+..++.|.| |++.++||||||.+
T Consensus 38 aip~il~g~d--vi~~ApTGsGKTla 61 (423)
T PRK04837 38 ALPLTLAGRD--VAGQAQTGTGKTMA 61 (423)
T ss_pred HHHHHhCCCc--EEEECCCCchHHHH
Confidence 4456778987 56677999999975
No 270
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=48.89 E-value=12 Score=41.67 Aligned_cols=24 Identities=29% Similarity=0.551 Sum_probs=18.8
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
.+..+++|.| ++..++||||||.+
T Consensus 34 ai~~~l~g~d--vi~~a~TGsGKT~a 57 (460)
T PRK11776 34 SLPAILAGKD--VIAQAKTGSGKTAA 57 (460)
T ss_pred HHHHHhcCCC--EEEECCCCCcHHHH
Confidence 3445678887 67888999999965
No 271
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=48.89 E-value=6.9 Score=40.96 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=14.1
Q ss_pred ceEEEeeccCCCCcceE
Q 035971 96 NATIVACGAKGSGKTRV 112 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyT 112 (614)
--.|+-||++|+|||++
T Consensus 151 PknVLFyGppGTGKTm~ 167 (368)
T COG1223 151 PKNVLFYGPPGTGKTMM 167 (368)
T ss_pred cceeEEECCCCccHHHH
Confidence 34689999999999965
No 272
>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=48.66 E-value=21 Score=42.63 Aligned_cols=50 Identities=18% Similarity=0.287 Sum_probs=38.4
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCH-HhhhhcCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNL-DDLKDIGLSAKQIKGMMKK 607 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~-~dL~~~gl~~~~~~~~~~~ 607 (614)
.+.|..+||||+++|+.|.+.=+++.+ ...+ .-|...|++++.+.++.+.
T Consensus 116 ~~~L~~v~gi~~~~~~~i~~~~~~~~~-~~~~~~~L~~~gi~~~~a~ki~~~ 166 (720)
T TIGR01448 116 PEKLLEVPGISKANLEKFVSQWSQQGD-ERRLLAGLQGLGIGIKLAQRIYKF 166 (720)
T ss_pred HHHHhcCCCCCHHHHHHHHHHHHHhHH-HHHHHHHHHHcCCCHHHHHHHHHH
Confidence 678999999999999999986655533 3333 3444599999999998874
No 273
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.37 E-value=10 Score=41.23 Aligned_cols=19 Identities=32% Similarity=0.594 Sum_probs=15.4
Q ss_pred CceEEEeeccCCCCcceEe
Q 035971 95 INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm 113 (614)
...+++-||+.|+|||++.
T Consensus 37 ~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 37 IHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred CCeEEEEecCCCCCHHHHH
Confidence 4457899999999999654
No 274
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=47.95 E-value=28 Score=35.69 Aligned_cols=47 Identities=21% Similarity=0.338 Sum_probs=29.0
Q ss_pred HHHHhcC---CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEE
Q 035971 88 ISEVFNG---INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYE 147 (614)
Q Consensus 88 V~~vl~G---~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~E 147 (614)
++.++.| ....++.+|..|||||.- +++.+.+.+......+.||+-|
T Consensus 12 lD~~l~GG~p~g~~~lI~G~pGsGKT~f-------------~~qfl~~~~~~ge~vlyvs~~e 61 (260)
T COG0467 12 LDEILGGGLPRGSVVLITGPPGTGKTIF-------------ALQFLYEGAREGEPVLYVSTEE 61 (260)
T ss_pred hHHHhcCCCcCCcEEEEEcCCCCcHHHH-------------HHHHHHHHHhcCCcEEEEEecC
Confidence 4444543 456789999999999832 4455555555544445555544
No 275
>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=47.83 E-value=22 Score=31.82 Aligned_cols=32 Identities=31% Similarity=0.461 Sum_probs=23.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDL 591 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL 591 (614)
-.|..|+|||+.+|..|.+.=.-+ |...+.+|
T Consensus 15 ~aLt~IyGIG~~~A~~Ic~~lgi~--~~~~~~~L 46 (107)
T PF00416_consen 15 IALTKIYGIGRRKAKQICKKLGIN--PNKKVGDL 46 (107)
T ss_dssp HHHTTSTTBCHHHHHHHHHHTTS---SSSBTTTS
T ss_pred hHHhhhhccCHHHHHHHHHHcCCC--hhhhcccC
Confidence 468899999999999998765444 45555444
No 276
>PRK13342 recombination factor protein RarA; Reviewed
Probab=47.56 E-value=11 Score=41.64 Aligned_cols=27 Identities=26% Similarity=0.408 Sum_probs=19.0
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+...+-.+.-..++-||++|+|||+..
T Consensus 27 L~~~i~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 27 LRRMIEAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred HHHHHHcCCCceEEEECCCCCCHHHHH
Confidence 333334555557788999999999654
No 277
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=46.94 E-value=12 Score=39.03 Aligned_cols=21 Identities=24% Similarity=0.373 Sum_probs=16.2
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.|...-++-||+.|+|||+++
T Consensus 35 ~~~~~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 35 EKNMPHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CCCCCeEEEECCCCCCHHHHH
Confidence 444445788999999999665
No 278
>PTZ00424 helicase 45; Provisional
Probab=46.73 E-value=13 Score=40.15 Aligned_cols=26 Identities=23% Similarity=0.471 Sum_probs=19.7
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+..+++|.|. +..++||||||.+.
T Consensus 57 ~ai~~i~~~~d~--ii~apTGsGKT~~~ 82 (401)
T PTZ00424 57 RGIKPILDGYDT--IGQAQSGTGKTATF 82 (401)
T ss_pred HHHHHHhCCCCE--EEECCCCChHHHHH
Confidence 345567889885 46789999999754
No 279
>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=46.15 E-value=21 Score=26.82 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=21.6
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILE 576 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~ 576 (614)
+=.++.++|..++||++..|..|+.
T Consensus 20 la~~~~~eL~~i~g~~~e~a~~ii~ 44 (50)
T TIGR01954 20 LAYVPIDELLSIEGFDEETAKELIN 44 (50)
T ss_pred HHccCHHHHhcCCCCCHHHHHHHHH
Confidence 4468899999999999999998865
No 280
>PRK10536 hypothetical protein; Provisional
Probab=46.06 E-value=12 Score=39.13 Aligned_cols=42 Identities=21% Similarity=0.288 Sum_probs=27.6
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..|.|-.|-+-+..|..... .+.+ +.-++..|++||||||..
T Consensus 50 ~~~~~~~i~p~n~~Q~~~l~--------al~~--~~lV~i~G~aGTGKT~La 91 (262)
T PRK10536 50 DSRDTSPILARNEAQAHYLK--------AIES--KQLIFATGEAGCGKTWIS 91 (262)
T ss_pred hhcCCccccCCCHHHHHHHH--------HHhc--CCeEEEECCCCCCHHHHH
Confidence 34556666666655554443 2233 348999999999999874
No 281
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=45.96 E-value=12 Score=41.24 Aligned_cols=36 Identities=22% Similarity=0.447 Sum_probs=23.2
Q ss_pred HHHhhhhHHHHHHHhcC----CceEEEeeccCCCCcceEe
Q 035971 78 IIFAREVKPLISEVFNG----INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 78 eVf~~~v~plV~~vl~G----~N~tI~aYGqTGSGKTyTm 113 (614)
..|.....-++.++..- ...-|.-.||||.|||+|+
T Consensus 181 ~~~~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTl 220 (407)
T COG1419 181 RYFSEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTL 220 (407)
T ss_pred hhHHHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHH
Confidence 33444444444444433 2566788899999999997
No 282
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=45.94 E-value=29 Score=40.33 Aligned_cols=46 Identities=20% Similarity=0.400 Sum_probs=35.9
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCC-----CCHHhhhhc-CCCHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPF-----KNLDDLKDI-GLSAKQIKGMMK 606 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f-----~~~~dL~~~-gl~~~~~~~~~~ 606 (614)
.-.|..|||||++++++++++= |. + .+.++|.++ |++.+.++.+..
T Consensus 524 ~~~L~~IpGIG~kr~~~LL~~F---GS-~~~I~~As~eeL~~vpGi~~~~A~~I~~ 575 (577)
T PRK14668 524 STVLDDVPGVGPETRKRLLRRF---GS-VEGVREASVEDLRDVPGVGEKTAETIRE 575 (577)
T ss_pred HhHHhcCCCCCHHHHHHHHHHc---CC-HHHHHhCCHHHHHhCCCCCHHHHHHHHH
Confidence 3568899999999999999852 21 2 467888885 999999988854
No 283
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=45.79 E-value=31 Score=26.04 Aligned_cols=36 Identities=17% Similarity=0.240 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 569 KRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 569 ~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.+++.|-++|+..| + +.+||.+ +|++...+.+|.+.
T Consensus 2 ~~~~~l~~~r~~~g--l-tq~~lA~~~gvs~~~vs~~e~g 38 (58)
T TIGR03070 2 QIGMLVRARRKALG--L-TQADLADLAGVGLRFIRDVENG 38 (58)
T ss_pred hHHHHHHHHHHHcC--C-CHHHHHHHhCCCHHHHHHHHCC
Confidence 35778888999883 3 7899999 99999999999765
No 284
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=45.52 E-value=12 Score=41.73 Aligned_cols=24 Identities=33% Similarity=0.552 Sum_probs=19.2
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
.+..+++|.| +++..+||||||.+
T Consensus 31 ai~~il~g~d--vlv~apTGsGKTla 54 (456)
T PRK10590 31 AIPAVLEGRD--LMASAQTGTGKTAG 54 (456)
T ss_pred HHHHHhCCCC--EEEECCCCCcHHHH
Confidence 3456678887 67888999999976
No 285
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=45.46 E-value=11 Score=39.66 Aligned_cols=28 Identities=43% Similarity=0.550 Sum_probs=23.9
Q ss_pred HhhhccCCHHhhccCCCCCHHHHHHHHH
Q 035971 549 LKLLNTGGKEDLKRLKGIGEKRASYILE 576 (614)
Q Consensus 549 ~~~lN~A~~~~L~~l~gig~~~A~~Ii~ 576 (614)
|+-|=.|+.+||.++.|||+..|++|=+
T Consensus 316 l~~il~As~edL~~VeGIGe~rAr~i~~ 343 (349)
T COG1623 316 LDGILEASAEDLDAVEGIGEARARAIKE 343 (349)
T ss_pred HHHHHHhcHhHHhhhcchhHHHHHHHHH
Confidence 3446679999999999999999999843
No 286
>PRK04195 replication factor C large subunit; Provisional
Probab=45.45 E-value=9.9 Score=42.91 Aligned_cols=30 Identities=23% Similarity=0.460 Sum_probs=21.7
Q ss_pred hHHHHHHHhcCC-ceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
+..++.....|. ...++.||++|+|||++.
T Consensus 26 l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 26 LREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred HHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 445555555554 557889999999999664
No 287
>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=45.16 E-value=8 Score=38.05 Aligned_cols=20 Identities=30% Similarity=0.484 Sum_probs=14.3
Q ss_pred CCceEEEeeccCCCCcceEe
Q 035971 94 GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 94 G~N~tI~aYGqTGSGKTyTm 113 (614)
..-..+|..|+.|||||+.+
T Consensus 13 ~~P~~~i~aG~~GsGKSt~~ 32 (199)
T PF06414_consen 13 EKPTLIIIAGQPGSGKSTLA 32 (199)
T ss_dssp SS-EEEEEES-TTSTTHHHH
T ss_pred cCCEEEEEeCCCCCCHHHHH
Confidence 34457899999999999654
No 288
>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=44.95 E-value=19 Score=35.95 Aligned_cols=46 Identities=26% Similarity=0.416 Sum_probs=30.2
Q ss_pred HHHHHhcC---CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccc-cCceEEEEE
Q 035971 87 LISEVFNG---INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEK-MGKSITISF 145 (614)
Q Consensus 87 lV~~vl~G---~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~-~~~sV~vS~ 145 (614)
-+|.++.| .++.++.+|++|||||.. +++.+++.+.. .+..+.+|+
T Consensus 7 ~LD~~l~GGip~gs~~li~G~~GsGKT~l-------------~~q~l~~~~~~~ge~vlyvs~ 56 (226)
T PF06745_consen 7 GLDELLGGGIPKGSVVLISGPPGSGKTTL-------------ALQFLYNGLKNFGEKVLYVSF 56 (226)
T ss_dssp THHHHTTTSEETTSEEEEEESTTSSHHHH-------------HHHHHHHHHHHHT--EEEEES
T ss_pred hHHHhhcCCCCCCcEEEEEeCCCCCcHHH-------------HHHHHHHhhhhcCCcEEEEEe
Confidence 35566643 367899999999999832 55667777666 555566655
No 289
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=44.87 E-value=8.2 Score=42.35 Aligned_cols=18 Identities=28% Similarity=0.446 Sum_probs=15.7
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
...++-+|++|+|||+|+
T Consensus 137 g~ii~lvGptGvGKTTti 154 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTT 154 (374)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 457888999999999987
No 290
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=44.72 E-value=19 Score=29.05 Aligned_cols=26 Identities=35% Similarity=0.404 Sum_probs=22.4
Q ss_pred ccCCHHhhccCCCCCHHHHHHHHHHHH
Q 035971 553 NTGGKEDLKRLKGIGEKRASYILELRE 579 (614)
Q Consensus 553 N~A~~~~L~~l~gig~~~A~~Ii~~R~ 579 (614)
.+.+.+||+.+ |.++..|+.||..=.
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 46789999999 999999999997543
No 291
>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=44.72 E-value=14 Score=39.29 Aligned_cols=29 Identities=28% Similarity=0.505 Sum_probs=21.4
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+.+++...+.+. ..++-.|++|||||..|
T Consensus 133 ~~~~l~~~v~~~-~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 133 IKEFLRLAIASR-KNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHHHhhCC-CEEEEECCCCCCHHHHH
Confidence 556666666654 46677799999999765
No 292
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=44.55 E-value=10 Score=40.85 Aligned_cols=16 Identities=44% Similarity=0.684 Sum_probs=13.7
Q ss_pred eEEEeeccCCCCcceE
Q 035971 97 ATIVACGAKGSGKTRV 112 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyT 112 (614)
+-|+..||||||||+.
T Consensus 98 SNILLiGPTGsGKTlL 113 (408)
T COG1219 98 SNILLIGPTGSGKTLL 113 (408)
T ss_pred ccEEEECCCCCcHHHH
Confidence 5689999999999954
No 293
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=44.43 E-value=15 Score=41.41 Aligned_cols=32 Identities=3% Similarity=0.048 Sum_probs=24.0
Q ss_pred ccCCCceEEEEEEcCcC--chhHHHHHHhHhhhh
Q 035971 297 SLGCKSKILMLTCLLPR--SVSTTKTQTGSQMHS 328 (614)
Q Consensus 297 sLgGnskt~mI~~vsP~--Tl~TL~~asr~~r~i 328 (614)
.+.-..+..+||+++.. ++..+.+|-+=|+..
T Consensus 319 ~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrRRF~f 352 (459)
T PRK11331 319 RFYVPENVYIIGLMNTADRSLAVVDYALRRRFSF 352 (459)
T ss_pred cccCCCCeEEEEecCccccchhhccHHHHhhhhe
Confidence 35557899999999999 777787777654444
No 294
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=44.29 E-value=16 Score=39.15 Aligned_cols=18 Identities=39% Similarity=0.591 Sum_probs=15.1
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
...|...|++|+|||.|+
T Consensus 114 ~~vi~lvGpnGsGKTTt~ 131 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTI 131 (318)
T ss_pred CeEEEEECCCCCcHHHHH
Confidence 356777899999999886
No 295
>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=44.25 E-value=23 Score=33.75 Aligned_cols=14 Identities=36% Similarity=0.641 Sum_probs=12.0
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
++.+|++|+|||..
T Consensus 2 ~li~G~~G~GKT~l 15 (187)
T cd01124 2 TLLSGGPGTGKTTF 15 (187)
T ss_pred EEEEcCCCCCHHHH
Confidence 67899999999954
No 296
>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=44.17 E-value=12 Score=39.25 Aligned_cols=26 Identities=27% Similarity=0.593 Sum_probs=18.2
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+++..+.. +.-++-+|++|+|||.++
T Consensus 25 ll~~l~~~-~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 25 LLDLLLSN-GRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp HHHHHHHC-TEEEEEESSTTSSHHHHH
T ss_pred HHHHHHHc-CCcEEEECCCCCchhHHH
Confidence 34444433 567799999999999654
No 297
>PRK06851 hypothetical protein; Provisional
Probab=44.13 E-value=18 Score=39.54 Aligned_cols=51 Identities=18% Similarity=0.283 Sum_probs=34.4
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEEec
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEIFQ 150 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EIYn 150 (614)
.+.+.++.|.+-.++..|.+|+|||++| +.|.+.+.+.++.|..=+...-+
T Consensus 20 s~~~~~~~~~~~~~il~G~pGtGKStl~--------------~~i~~~~~~~g~~Ve~~~~~~d~ 70 (367)
T PRK06851 20 SLYDSIIDGANRIFILKGGPGTGKSTLM--------------KKIGEEFLEKGYDVEFLHCSSDN 70 (367)
T ss_pred hhhhhhccccceEEEEECCCCCCHHHHH--------------HHHHHHHHHcCCeEEEEEcCCCC
Confidence 3455666788888999999999999776 45555554456666554444333
No 298
>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=44.10 E-value=26 Score=41.84 Aligned_cols=43 Identities=23% Similarity=0.362 Sum_probs=31.8
Q ss_pred CCCCCHHHHHHHHHHHHhCCCC-----CCCHHhhhh-cCCCHHHHHHHHHHH
Q 035971 563 LKGIGEKRASYILELREESPEP-----FKNLDDLKD-IGLSAKQIKGMMKKE 608 (614)
Q Consensus 563 l~gig~~~A~~Ii~~R~~~gg~-----f~~~~dL~~-~gl~~~~~~~~~~~~ 608 (614)
+||||+++|++|+++ .|.. -.+.+.|.+ .||+.+.++.|....
T Consensus 89 ~~GIG~~~A~~iv~~---fg~~~~~~i~~~~~~L~~v~gi~~~~~~~i~~~~ 137 (720)
T TIGR01448 89 IKGVGKKLAQRIVKT---FGEAAFDVLDDDPEKLLEVPGISKANLEKFVSQW 137 (720)
T ss_pred CCCcCHHHHHHHHHH---hCHhHHHHHHhCHHHHhcCCCCCHHHHHHHHHHH
Confidence 999999999999954 2211 134566777 599999998887754
No 299
>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=44.02 E-value=49 Score=35.81 Aligned_cols=30 Identities=27% Similarity=0.480 Sum_probs=22.8
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
....++..++.+. ..++..|+||||||.+|
T Consensus 166 ~~~~~L~~~v~~~-~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 166 GVARLLRAIVAAR-LAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHHHHHHhCC-CeEEEECCCCCCHHHHH
Confidence 4456666666654 68889999999999765
No 300
>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=43.86 E-value=14 Score=42.41 Aligned_cols=41 Identities=27% Similarity=0.357 Sum_probs=28.0
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcce
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTR 111 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTy 111 (614)
...|+.+++++.. ++.+...+..+....|+-||++|+|||+
T Consensus 61 p~~f~~iiGqs~~--------i~~l~~al~~~~~~~vLi~Ge~GtGKt~ 101 (531)
T TIGR02902 61 PKSFDEIIGQEEG--------IKALKAALCGPNPQHVIIYGPPGVGKTA 101 (531)
T ss_pred cCCHHHeeCcHHH--------HHHHHHHHhCCCCceEEEECCCCCCHHH
Confidence 3457888876533 2333334456666778899999999994
No 301
>PRK00254 ski2-like helicase; Provisional
Probab=43.55 E-value=19 Score=42.83 Aligned_cols=47 Identities=32% Similarity=0.439 Sum_probs=32.4
Q ss_pred hhccCCCCCHHHHHHHHHH----HHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILEL----REESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~----R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
.|..|||||+++|++.+++ -+.. .--+.++|.. .||+.+.++++.+.
T Consensus 646 ~L~~ipgig~~~~~~l~~~g~~s~~~i--~~a~~~el~~~~gi~~~~a~~i~~~ 697 (720)
T PRK00254 646 ELMRLPMIGRKRARALYNAGFRSIEDI--VNAKPSELLKVEGIGAKIVEGIFKH 697 (720)
T ss_pred hhhcCCCCCHHHHHHHHHccCCCHHHH--HhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 3567888888888888887 2222 1346788888 58888877777543
No 302
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=43.42 E-value=17 Score=36.62 Aligned_cols=30 Identities=20% Similarity=0.308 Sum_probs=22.3
Q ss_pred hhHHHHHHHhcCC---ceEEEeeccCCCCcceE
Q 035971 83 EVKPLISEVFNGI---NATIVACGAKGSGKTRV 112 (614)
Q Consensus 83 ~v~plV~~vl~G~---N~tI~aYGqTGSGKTyT 112 (614)
+.-+-+|.++.|- ...++.+|.+|||||+-
T Consensus 9 tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l 41 (234)
T PRK06067 9 TGNEELDRKLGGGIPFPSLILIEGDHGTGKSVL 41 (234)
T ss_pred cCCHHHHHhhCCCCcCCcEEEEECCCCCChHHH
Confidence 3445677777644 67788889999999954
No 303
>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=43.36 E-value=8.1 Score=41.28 Aligned_cols=64 Identities=19% Similarity=0.292 Sum_probs=37.1
Q ss_pred EEEeeccCCCCcceEeec---C-------------CCCcchhHHHHHHHH--hhcc-------c-----cC-----ceEE
Q 035971 98 TIVACGAKGSGKTRVIQG---S-------------YEEPGLAALAVDEIL--SISE-------K-----MG-----KSIT 142 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~G---~-------------~~~~GLipral~~LF--~~~~-------~-----~~-----~sV~ 142 (614)
-...||+|||||++.+-. . ..+.|+||--=.... +..+ + .. .-|.
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 356799999999987642 1 134577774322222 1121 1 01 1277
Q ss_pred EEEEEEecceeccccCccc
Q 035971 143 ISFYEIFQDHVYDLLDPKQ 161 (614)
Q Consensus 143 vS~~EIYnE~V~DLL~~~~ 161 (614)
++|=|.-.++=+|.=+|++
T Consensus 169 msy~e~t~~~NldI~~p~N 187 (369)
T PF02456_consen 169 MSYDEATSPENLDITNPNN 187 (369)
T ss_pred ecHhhhCCccccCCCCchH
Confidence 7777777777778766643
No 304
>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=43.18 E-value=17 Score=36.19 Aligned_cols=30 Identities=27% Similarity=0.396 Sum_probs=22.7
Q ss_pred hHHHHHHHhcC---CceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNG---INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G---~N~tI~aYGqTGSGKTyTm 113 (614)
.-+-+|.++.| ....+.-+|++|||||..+
T Consensus 4 G~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (235)
T cd01123 4 GSKALDELLGGGIETGSITEIFGEFGSGKTQLC 36 (235)
T ss_pred CchhhHhhccCCCCCCeEEEEECCCCCCHHHHH
Confidence 34557777875 4567899999999999543
No 305
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=43.07 E-value=24 Score=41.36 Aligned_cols=21 Identities=43% Similarity=0.684 Sum_probs=17.9
Q ss_pred HHhhccCCCCCHHHHHHHHHH
Q 035971 557 KEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~ 577 (614)
...|..|||||+++|.+|+++
T Consensus 568 ~s~L~~I~GIG~k~a~~Ll~~ 588 (621)
T PRK14671 568 QTELTDIAGIGEKTAEKLLEH 588 (621)
T ss_pred hhhhhcCCCcCHHHHHHHHHH
Confidence 356788999999999999864
No 306
>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=42.95 E-value=18 Score=42.73 Aligned_cols=36 Identities=25% Similarity=0.393 Sum_probs=26.0
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 73 PHifa-vA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 109 (677)
T smart00242 73 PHVFA-IADNAYRNMLNDKENQSIIISGESGAGKTENT 109 (677)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEecCCCCcchHHH
Confidence 45665 3333333333 689999999999999999885
No 307
>PRK00254 ski2-like helicase; Provisional
Probab=42.92 E-value=28 Score=41.37 Aligned_cols=26 Identities=23% Similarity=0.386 Sum_probs=24.0
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
|-.|+.++|.+++|||+++|+.|.++
T Consensus 672 i~~a~~~el~~~~gi~~~~a~~i~~~ 697 (720)
T PRK00254 672 IVNAKPSELLKVEGIGAKIVEGIFKH 697 (720)
T ss_pred HHhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 56899999999999999999999887
No 308
>PHA01976 helix-turn-helix protein
Probab=42.22 E-value=36 Score=27.06 Aligned_cols=35 Identities=14% Similarity=0.220 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 570 RASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 570 ~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
++++|-.+|+..| + +.+||.+ +|++...+.+|.++
T Consensus 3 ~~~rl~~~R~~~g--l-t~~~lA~~~gvs~~~v~~~e~g 38 (67)
T PHA01976 3 FAIQLIKARNARA--W-SAPELSRRAGVRHSLIYDFEAD 38 (67)
T ss_pred HHHHHHHHHHHcC--C-CHHHHHHHhCCCHHHHHHHHcC
Confidence 5788899999883 3 8899999 99999999998764
No 309
>PRK09482 flap endonuclease-like protein; Provisional
Probab=42.18 E-value=27 Score=36.39 Aligned_cols=29 Identities=28% Similarity=0.607 Sum_probs=23.1
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+-+-.+||||++.|..+|+. |.+++.+.+
T Consensus 182 DnIpGVpGIG~KtA~~LL~~-------~gsle~i~~ 210 (256)
T PRK09482 182 SKIPGVAGIGPKSAAELLNQ-------FRSLENIYE 210 (256)
T ss_pred cCCCCCCCcChHHHHHHHHH-------hCCHHHHHH
Confidence 44678999999999999963 457777776
No 310
>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=42.02 E-value=21 Score=36.90 Aligned_cols=28 Identities=21% Similarity=0.318 Sum_probs=18.6
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceE
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
..+.++..+..|.+ |+-+|++|+|||..
T Consensus 10 l~~~~l~~l~~g~~--vLL~G~~GtGKT~l 37 (262)
T TIGR02640 10 VTSRALRYLKSGYP--VHLRGPAGTGKTTL 37 (262)
T ss_pred HHHHHHHHHhcCCe--EEEEcCCCCCHHHH
Confidence 34444555555654 45689999999954
No 311
>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=41.99 E-value=19 Score=38.96 Aligned_cols=25 Identities=20% Similarity=0.195 Sum_probs=20.7
Q ss_pred HHHhcCCceEEEeeccCCCCcceEe
Q 035971 89 SEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 89 ~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
+.+.+|.+..++..++||||||...
T Consensus 7 ~~~~~~~~~~~~i~apTGsGKT~~~ 31 (357)
T TIGR03158 7 EALQSKDADIIFNTAPTGAGKTLAW 31 (357)
T ss_pred HHHHcCCCCEEEEECCCCCCHHHHH
Confidence 4667888878888999999999863
No 312
>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=41.92 E-value=11 Score=39.74 Aligned_cols=19 Identities=42% Similarity=0.691 Sum_probs=17.3
Q ss_pred cCCceEEEeeccCCCCcce
Q 035971 93 NGINATIVACGAKGSGKTR 111 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTy 111 (614)
.|++-+||..|++|+|||.
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 4888999999999999995
No 313
>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=41.88 E-value=18 Score=38.05 Aligned_cols=29 Identities=24% Similarity=0.357 Sum_probs=22.5
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..|++ ..+.--+..+-.||++++|||.++
T Consensus 182 a~pLL-~~l~~~~~~~hl~G~Ss~GKTt~~ 210 (286)
T PF06048_consen 182 AAPLL-SLLGVEGFGFHLYGQSSSGKTTAL 210 (286)
T ss_pred HHHHH-HHhCCCceEEEEEeCCCCCHHHHH
Confidence 44555 455677788999999999999875
No 314
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=41.67 E-value=22 Score=35.44 Aligned_cols=30 Identities=27% Similarity=0.401 Sum_probs=22.7
Q ss_pred hHHHHHHHhcCC---ceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGI---NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~---N~tI~aYGqTGSGKTyTm 113 (614)
.-+-+|.++.|- ...+..+|++|+|||...
T Consensus 8 Gi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 40 (225)
T PRK09361 8 GCKMLDELLGGGFERGTITQIYGPPGSGKTNIC 40 (225)
T ss_pred CcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 445677888654 567899999999999553
No 315
>PF05729 NACHT: NACHT domain
Probab=41.63 E-value=10 Score=34.94 Aligned_cols=16 Identities=31% Similarity=0.625 Sum_probs=13.6
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.++.+|..|+|||..|
T Consensus 2 ~l~I~G~~G~GKStll 17 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLL 17 (166)
T ss_pred EEEEECCCCCChHHHH
Confidence 4788999999999765
No 316
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=41.59 E-value=32 Score=40.73 Aligned_cols=27 Identities=41% Similarity=0.511 Sum_probs=19.4
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHHHHh
Q 035971 554 TGGKEDLKRLKGIGEKRASYILELREE 580 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~R~~ 580 (614)
.++.++|..|+|+|++.|+.|++.-+.
T Consensus 475 ~L~~~~L~~l~gfG~Ksa~~ll~~Ie~ 501 (665)
T PRK07956 475 KLTAEDLLGLEGFGEKSAQNLLDAIEK 501 (665)
T ss_pred hcCHHHHhcCcCcchHHHHHHHHHHHH
Confidence 666777777888888887777765543
No 317
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=41.55 E-value=34 Score=38.87 Aligned_cols=29 Identities=21% Similarity=0.311 Sum_probs=21.8
Q ss_pred hHHHHHHHhcC---CceEEEeeccCCCCcceE
Q 035971 84 VKPLISEVFNG---INATIVACGAKGSGKTRV 112 (614)
Q Consensus 84 v~plV~~vl~G---~N~tI~aYGqTGSGKTyT 112 (614)
.-+=++.++.| ....++.+|.+|+|||..
T Consensus 16 GI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l 47 (509)
T PRK09302 16 GIEGFDDITHGGLPKGRPTLVSGTAGTGKTLF 47 (509)
T ss_pred CchhHHHhhcCCCCCCcEEEEEeCCCCCHHHH
Confidence 34456677764 467899999999999954
No 318
>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=41.47 E-value=15 Score=43.31 Aligned_cols=32 Identities=22% Similarity=0.295 Sum_probs=22.4
Q ss_pred hhHHHHHHHhc-----CCceEEEeeccCCCCcceEeec
Q 035971 83 EVKPLISEVFN-----GINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 83 ~v~plV~~vl~-----G~N~tI~aYGqTGSGKTyTm~G 115 (614)
++..+++.+.+ |.+..++. -+||||||+||..
T Consensus 246 av~~~~~~~~~~~~~~~~~~gli~-~~TGsGKT~t~~~ 282 (667)
T TIGR00348 246 AVKKIVESITRKTWGKDERGGLIW-HTQGSGKTLTMLF 282 (667)
T ss_pred HHHHHHHHHHhcccCCCCceeEEE-EecCCCccHHHHH
Confidence 46667777766 34455544 4999999999963
No 319
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=41.37 E-value=39 Score=35.88 Aligned_cols=23 Identities=35% Similarity=0.557 Sum_probs=10.5
Q ss_pred CCHHhhccCCCCCHHHHHHHHHH
Q 035971 555 GGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
++.++|.++.|++++.|+.|++.
T Consensus 36 ~~~~~L~~~~g~~~~~a~~l~~~ 58 (317)
T PRK04301 36 ASPKELSEAAGIGESTAAKIIEA 58 (317)
T ss_pred CCHHHHHHhcCCCHHHHHHHHHH
Confidence 34444444444444444444433
No 320
>PRK14976 5'-3' exonuclease; Provisional
Probab=41.29 E-value=22 Score=37.38 Aligned_cols=30 Identities=30% Similarity=0.642 Sum_probs=23.7
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
.+-+-.+||||++.|..+|+. |.+++++.+
T Consensus 190 sDnipGVpGIG~KtA~~LL~~-------~gsle~i~~ 219 (281)
T PRK14976 190 SDNIKGVKGIGPKTAIKLLNK-------YGNIENIYE 219 (281)
T ss_pred cCCCCCCCcccHHHHHHHHHH-------cCCHHHHHH
Confidence 445678999999999999942 457888776
No 321
>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=41.07 E-value=23 Score=41.98 Aligned_cols=36 Identities=25% Similarity=0.491 Sum_probs=26.6
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 73 PHifa-iA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 109 (677)
T cd01383 73 PHVYA-IADTAYNEMMRDEVNQSIIISGESGAGKTETA 109 (677)
T ss_pred CCHHH-HHHHHHHHHHHcCCCceEEEecCCCCCcchHH
Confidence 35665 3444444444 599999999999999999885
No 322
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.97 E-value=14 Score=41.82 Aligned_cols=41 Identities=22% Similarity=0.298 Sum_probs=25.0
Q ss_pred EeeeeecCCCChHHHHhhhhHHHHHHHhcCCc-eEEEeeccCCCCcceEe
Q 035971 65 KLDYCYEQNEGNGIIFAREVKPLISEVFNGIN-ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 65 ~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N-~tI~aYGqTGSGKTyTm 113 (614)
.||.|+++ +.+ +..+...+-.|.- ..++-||+.|+|||++.
T Consensus 12 ~~~divGq----~~i----~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA 53 (472)
T PRK14962 12 TFSEVVGQ----DHV----KKLIINALKKNSISHAYIFAGPRGTGKTTVA 53 (472)
T ss_pred CHHHccCc----HHH----HHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 36777764 333 2333333334443 45899999999999664
No 323
>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=40.92 E-value=12 Score=40.41 Aligned_cols=42 Identities=17% Similarity=0.331 Sum_probs=29.6
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
|.|..|.+++ ....-++-.+++..-+-++-.|.+|+|||..+
T Consensus 1 ~pf~~ivgq~--------~~~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQD--------EMKLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHH--------HHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 4566666643 23445666677766677889999999999665
No 324
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=40.78 E-value=13 Score=39.57 Aligned_cols=49 Identities=18% Similarity=0.328 Sum_probs=35.2
Q ss_pred eEeeeeecCCCChHHHHhhhhHHH-HHHHhcCCc---eEEEeeccCCCCcceE
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPL-ISEVFNGIN---ATIVACGAKGSGKTRV 112 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~pl-V~~vl~G~N---~tI~aYGqTGSGKTyT 112 (614)
-+++-|-+-+..-+.+-+.++-|+ ..++|.|.- ..|+.||+.|+||+|.
T Consensus 130 VkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYL 182 (439)
T KOG0739|consen 130 VKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYL 182 (439)
T ss_pred CchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHH
Confidence 445666666655566666666665 567777765 5799999999999985
No 325
>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=40.68 E-value=26 Score=38.24 Aligned_cols=46 Identities=22% Similarity=0.400 Sum_probs=27.2
Q ss_pred eeeE-ee-eeecCCCChHHHHhhhhHHHHHHHhcC---CceEEEeeccCCCCcceE
Q 035971 62 ECYK-LD-YCYEQNEGNGIIFAREVKPLISEVFNG---INATIVACGAKGSGKTRV 112 (614)
Q Consensus 62 ~~F~-FD-~VF~~~asQ~eVf~~~v~plV~~vl~G---~N~tI~aYGqTGSGKTyT 112 (614)
+.|. || .+|+.+.. -+..+. .+.....| .+..+.-.|++|+|||..
T Consensus 44 ~~y~~F~~~~~G~~~~----i~~lv~-~l~~~a~g~~~~r~il~L~GPPGsGKStl 94 (361)
T smart00763 44 KRYRFFDHDFFGMEEA----IERFVN-YFKSAAQGLEERKQILYLLGPVGGGKSSL 94 (361)
T ss_pred eeccccchhccCcHHH----HHHHHH-HHHHHHhcCCCCCcEEEEECCCCCCHHHH
Confidence 3454 45 68875433 333332 33333343 456789999999999843
No 326
>PF13173 AAA_14: AAA domain
Probab=40.66 E-value=10 Score=34.42 Aligned_cols=16 Identities=38% Similarity=0.765 Sum_probs=13.9
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.++-+|+.|+|||+.+
T Consensus 4 ~~~l~G~R~vGKTtll 19 (128)
T PF13173_consen 4 IIILTGPRGVGKTTLL 19 (128)
T ss_pred eEEEECCCCCCHHHHH
Confidence 5788999999999765
No 327
>PRK14974 cell division protein FtsY; Provisional
Probab=40.45 E-value=26 Score=37.95 Aligned_cols=18 Identities=44% Similarity=0.667 Sum_probs=15.9
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
...|+..|++|+|||.|+
T Consensus 140 ~~vi~~~G~~GvGKTTti 157 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTI 157 (336)
T ss_pred CeEEEEEcCCCCCHHHHH
Confidence 467899999999999886
No 328
>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=40.45 E-value=20 Score=35.48 Aligned_cols=27 Identities=26% Similarity=0.549 Sum_probs=20.2
Q ss_pred HHHHHHhc-CC--ceEEEeeccCCCCcceE
Q 035971 86 PLISEVFN-GI--NATIVACGAKGSGKTRV 112 (614)
Q Consensus 86 plV~~vl~-G~--N~tI~aYGqTGSGKTyT 112 (614)
+-+|.++. |+ ...+..+|++|||||..
T Consensus 6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l 35 (218)
T cd01394 6 KGLDELLGGGVERGTVTQVYGPPGTGKTNI 35 (218)
T ss_pred hHHHHHhcCCccCCeEEEEECCCCCCHHHH
Confidence 45677776 43 34588999999999955
No 329
>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]
Probab=40.36 E-value=17 Score=35.76 Aligned_cols=28 Identities=21% Similarity=0.437 Sum_probs=24.3
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILELRE 579 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~R~ 579 (614)
.|-|+.+|++.|-|.|+.+|+++|+|=.
T Consensus 193 f~gaSrdE~e~l~g~g~~ka~~~ieyln 220 (224)
T COG5241 193 FNGASRDEFELLLGFGFEKAAKYIEYLN 220 (224)
T ss_pred HhccchhHHHHHHccCHHHHHHHHHHhc
Confidence 4556777999999999999999999974
No 330
>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=40.13 E-value=22 Score=42.00 Aligned_cols=36 Identities=25% Similarity=0.441 Sum_probs=25.5
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 69 PHifa-iA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 105 (674)
T cd01384 69 PHVFA-IADAAYRAMINEGKSQSILVSGESGAGKTETT 105 (674)
T ss_pred CCHHH-HHHHHHHHHHHcCCCceEEEECCCCCCchhHH
Confidence 34664 3333333333 599999999999999999885
No 331
>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=40.08 E-value=13 Score=35.57 Aligned_cols=14 Identities=36% Similarity=0.574 Sum_probs=12.1
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+.+|+.|||||+.
T Consensus 2 i~i~G~pGsGKst~ 15 (183)
T TIGR01359 2 VFVLGGPGSGKGTQ 15 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999853
No 332
>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=40.03 E-value=24 Score=41.76 Aligned_cols=36 Identities=28% Similarity=0.350 Sum_probs=25.8
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. ++......++ .|.|.||+.-|.+|||||.+.
T Consensus 67 PHifa-vA~~Ay~~m~~~~~~QsIiisGESGaGKTes~ 103 (671)
T cd01381 67 PHIFA-ISDNAYTNMQREKKNQCIIISGESGAGKTEST 103 (671)
T ss_pred CCHHH-HHHHHHHHHHHcCCCceEEEEcCCCCCeehHH
Confidence 34664 3333333333 589999999999999999885
No 333
>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=40.00 E-value=22 Score=42.14 Aligned_cols=36 Identities=25% Similarity=0.397 Sum_probs=27.0
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. ++......++ .|.|.||+.-|.+|||||.+.
T Consensus 67 PHifa-vA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 103 (679)
T cd00124 67 PHVFA-IADRAYRNMLRDRRNQSIIISGESGAGKTENT 103 (679)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 45665 4444444544 599999999999999999885
No 334
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=39.96 E-value=24 Score=32.98 Aligned_cols=43 Identities=21% Similarity=0.269 Sum_probs=31.1
Q ss_pred cchhhhHHHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhC
Q 035971 539 GMKNSLVQEYLKLLNTGGKEDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 539 ~~~~~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
++=-.+.+..+.+=.=-+.|||..+||||++..+.+=+|+...
T Consensus 68 GigP~~A~~IV~nGpf~sveDL~~V~GIgekqk~~l~k~~~~f 110 (132)
T PRK02515 68 GMYPTLAGKIVKNAPYDSVEDVLNLPGLSERQKELLEANLDNF 110 (132)
T ss_pred CCCHHHHHHHHHCCCCCCHHHHHcCCCCCHHHHHHHHHhhcce
Confidence 3334445555543345688999999999999999998888654
No 335
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=39.81 E-value=23 Score=28.63 Aligned_cols=37 Identities=24% Similarity=0.315 Sum_probs=24.2
Q ss_pred cchhhhHHHHHhhh----ccCCHHhhccCCCCCHHHHHHHH
Q 035971 539 GMKNSLVQEYLKLL----NTGGKEDLKRLKGIGEKRASYIL 575 (614)
Q Consensus 539 ~~~~~l~~~~~~~l----N~A~~~~L~~l~gig~~~A~~Ii 575 (614)
++...+.+..+..- .=-+.+||..++|||++..+.|-
T Consensus 21 gi~~~~A~~Iv~~R~~~G~f~s~~dL~~v~gi~~~~~~~l~ 61 (65)
T PF12836_consen 21 GIGPKQAKAIVEYREKNGPFKSLEDLKEVPGIGPKTYEKLK 61 (65)
T ss_dssp T--HHHHHHHHHHHHHH-S-SSGGGGGGSTT--HHHHHHHC
T ss_pred CCCHHHHHHHHHHHHhCcCCCCHHHHhhCCCCCHHHHHHHH
Confidence 45555566665555 34588999999999999998874
No 336
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=39.59 E-value=20 Score=37.89 Aligned_cols=34 Identities=41% Similarity=0.555 Sum_probs=24.8
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDL 591 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL 591 (614)
.+.|++|+|||+..|+.|+=+--....-| ..+|+
T Consensus 197 ~e~L~~i~GIG~WTAe~~llf~lgr~dvf-P~~D~ 230 (285)
T COG0122 197 IEELTALKGIGPWTAEMFLLFGLGRPDVF-PADDL 230 (285)
T ss_pred HHHHHcCCCcCHHHHHHHHHHcCCCCCCC-ChHHH
Confidence 47899999999999999998875432223 44554
No 337
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=39.51 E-value=14 Score=46.33 Aligned_cols=31 Identities=23% Similarity=0.395 Sum_probs=21.1
Q ss_pred hHHHHHHHhcCCceEEEeeccCCCCcceEeec
Q 035971 84 VKPLISEVFNGINATIVACGAKGSGKTRVIQG 115 (614)
Q Consensus 84 v~plV~~vl~G~N~tI~aYGqTGSGKTyTm~G 115 (614)
+..+++.+-+|....+ ...+||||||+||.+
T Consensus 422 I~ai~~a~~~g~r~~L-l~maTGSGKT~tai~ 452 (1123)
T PRK11448 422 IQAVEKAIVEGQREIL-LAMATGTGKTRTAIA 452 (1123)
T ss_pred HHHHHHHHHhccCCeE-EEeCCCCCHHHHHHH
Confidence 4444555556765544 448999999999865
No 338
>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=39.44 E-value=43 Score=37.88 Aligned_cols=53 Identities=23% Similarity=0.320 Sum_probs=35.3
Q ss_pred hhHHHHHHHhcC---CceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEE
Q 035971 83 EVKPLISEVFNG---INATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEI 148 (614)
Q Consensus 83 ~v~plV~~vl~G---~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EI 148 (614)
+.-+-+|.++.| ..++++..|++|+|||.. +++.+.+.+...+..+++||-|=
T Consensus 247 tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l-------------~~~f~~~~~~~ge~~~y~s~eEs 302 (484)
T TIGR02655 247 SGVVRLDEMCGGGFFKDSIILATGATGTGKTLL-------------VSKFLENACANKERAILFAYEES 302 (484)
T ss_pred CChHhHHHHhcCCccCCcEEEEECCCCCCHHHH-------------HHHHHHHHHHCCCeEEEEEeeCC
Confidence 445667888876 356799999999999942 44445555444445577776653
No 339
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=39.38 E-value=32 Score=41.63 Aligned_cols=32 Identities=22% Similarity=0.370 Sum_probs=23.2
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 555 GGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
.-.+-|.+|||||++.|.+|++. |.++.+|.+
T Consensus 754 ~~q~~L~~lPgI~~~~a~~ll~~-------f~si~~l~~ 785 (814)
T TIGR00596 754 GPQDFLLKLPGVTKKNYRNLRKK-------VKSIRELAK 785 (814)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHH-------cCCHHHHHh
Confidence 33445779999999999999973 556554443
No 340
>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=39.35 E-value=23 Score=42.05 Aligned_cols=36 Identities=33% Similarity=0.423 Sum_probs=25.6
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.|.
T Consensus 75 PHiy~-iA~~Ay~~m~~~~~~QsIiisGESGAGKTet~ 111 (692)
T cd01385 75 PHIFA-IADVAYYNMLRKKVNQCIVISGESGSGKTEST 111 (692)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 44564 3333333333 589999999999999999885
No 341
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=39.17 E-value=10 Score=30.82 Aligned_cols=15 Identities=33% Similarity=0.713 Sum_probs=12.2
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
.+-.|++|||||..|
T Consensus 26 tli~G~nGsGKSTll 40 (62)
T PF13555_consen 26 TLITGPNGSGKSTLL 40 (62)
T ss_pred EEEECCCCCCHHHHH
Confidence 566799999999654
No 342
>PRK00131 aroK shikimate kinase; Reviewed
Probab=38.95 E-value=15 Score=34.44 Aligned_cols=16 Identities=38% Similarity=0.640 Sum_probs=13.8
Q ss_pred eEEEeeccCCCCcceE
Q 035971 97 ATIVACGAKGSGKTRV 112 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyT 112 (614)
..|+.+|.+|||||+.
T Consensus 5 ~~i~l~G~~GsGKstl 20 (175)
T PRK00131 5 PNIVLIGFMGAGKSTI 20 (175)
T ss_pred CeEEEEcCCCCCHHHH
Confidence 4789999999999954
No 343
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=38.82 E-value=27 Score=41.17 Aligned_cols=49 Identities=8% Similarity=0.113 Sum_probs=32.8
Q ss_pred CccCCCChhhhhhhhccCCCce---------EEEEEEcCcCchhHHHHHHhHhhhhhcC
Q 035971 282 HVPYRESKLTRMLQESLGCKSK---------ILMLTCLLPRSVSTTKTQTGSQMHSSTK 331 (614)
Q Consensus 282 ~vPyRdSkLTrLLqdsLgGnsk---------t~mI~~vsP~Tl~TL~~asr~~r~i~nk 331 (614)
+-||-...|-.++..-|.|-.. .-=||.||-++...|.++.|+ ..|.-+
T Consensus 573 F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA-~Eia~~ 630 (767)
T KOG1514|consen 573 FQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRA-AEIAEE 630 (767)
T ss_pred cCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHH-HHHhhh
Confidence 5577777777777777766400 012566677788899999888 666554
No 344
>PF12482 DUF3701: Phage integrase protein; InterPro: IPR022169 This domain family is found in bacteria, and is approximately 100 amino acids in length. The family is found in association with PF00589 from PFAM.
Probab=38.75 E-value=29 Score=30.75 Aligned_cols=37 Identities=16% Similarity=0.238 Sum_probs=30.8
Q ss_pred HHHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhC
Q 035971 545 VQEYLKLLNTGGKEDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 545 ~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
+.++++.||..-..=-..|||||...|++|..+=..|
T Consensus 37 L~dL~~~i~~rg~~Wwr~vpglG~~~A~~I~awLa~h 73 (96)
T PF12482_consen 37 LADLVDRINRRGGRWWRAVPGLGAAGARRIEAWLAAH 73 (96)
T ss_pred HHHHHHHHHHccchHHHhCcccchHHHHHHHHHHHHh
Confidence 4567777888887777889999999999999886665
No 345
>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=38.58 E-value=23 Score=42.03 Aligned_cols=36 Identities=28% Similarity=0.378 Sum_probs=26.4
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 72 PHiya-iA~~Ay~~m~~~~~~QsIiiSGESGAGKTes~ 108 (693)
T cd01377 72 PHIFA-IADNAYRSMLQDRENQSILITGESGAGKTENT 108 (693)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEEcCCCCCchHHH
Confidence 45665 3334444443 599999999999999999874
No 346
>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=38.58 E-value=14 Score=33.68 Aligned_cols=15 Identities=47% Similarity=0.756 Sum_probs=12.7
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
++-+|++|+|||+.+
T Consensus 2 ~~i~G~~G~GKT~l~ 16 (165)
T cd01120 2 ILVFGPTGSGKTTLA 16 (165)
T ss_pred eeEeCCCCCCHHHHH
Confidence 467999999999765
No 347
>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=38.54 E-value=25 Score=41.56 Aligned_cols=36 Identities=22% Similarity=0.322 Sum_probs=26.0
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. ++......++ .|.|.||+.-|.+|||||.+.
T Consensus 67 PHifa-iA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 103 (674)
T cd01378 67 PHIYA-LADNAYRSMKSENENQCVIISGESGAGKTEAA 103 (674)
T ss_pred CCHHH-HHHHHHHHHHHcCCCceEEEEcCCCCCcchHH
Confidence 44665 3333333433 599999999999999999885
No 348
>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=38.39 E-value=17 Score=42.67 Aligned_cols=17 Identities=35% Similarity=0.630 Sum_probs=14.9
Q ss_pred EEEeeccCCCCcceEee
Q 035971 98 TIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~ 114 (614)
.++..|++|||||||+.
T Consensus 175 ~~lI~GpPGTGKT~t~~ 191 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLV 191 (637)
T ss_pred eEEEEcCCCCCHHHHHH
Confidence 46789999999999985
No 349
>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=38.38 E-value=18 Score=39.33 Aligned_cols=16 Identities=19% Similarity=0.194 Sum_probs=14.0
Q ss_pred EEeeccCCCCcceEee
Q 035971 99 IVACGAKGSGKTRVIQ 114 (614)
Q Consensus 99 I~aYGqTGSGKTyTm~ 114 (614)
++.+|+||||||+++.
T Consensus 2 ~lv~g~tGsGKt~~~v 17 (384)
T cd01126 2 VLVFAPTRSGKGVGFV 17 (384)
T ss_pred eeEecCCCCCCccEEE
Confidence 5789999999999874
No 350
>PRK10865 protein disaggregation chaperone; Provisional
Probab=38.37 E-value=18 Score=43.91 Aligned_cols=44 Identities=23% Similarity=0.268 Sum_probs=26.2
Q ss_pred EeeeeecCCCChHHHHhhhhHHHHHHHhcCCc------eEEEeeccCCCCcceEe
Q 035971 65 KLDYCYEQNEGNGIIFAREVKPLISEVFNGIN------ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 65 ~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N------~tI~aYGqTGSGKTyTm 113 (614)
-+.+|++++..-..|. ..|.....|.. +.++-+|++|+|||++.
T Consensus 566 l~~~viGQ~~ai~~l~-----~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 566 LHHRVIGQNEAVEAVS-----NAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELC 615 (857)
T ss_pred hCCeEeCCHHHHHHHH-----HHHHHHHhcccCCCCCCceEEEECCCCCCHHHHH
Confidence 3566777554333333 23333333332 57888899999999854
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=38.32 E-value=14 Score=34.12 Aligned_cols=14 Identities=57% Similarity=0.873 Sum_probs=11.8
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+..|..|||||+.
T Consensus 2 i~l~G~~GsGKST~ 15 (150)
T cd02021 2 IVVMGVSGSGKSTV 15 (150)
T ss_pred EEEEcCCCCCHHHH
Confidence 57789999999854
No 352
>KOG1857 consensus Transcription accessory protein TEX, contains S1 domain [Transcription]
Probab=38.27 E-value=18 Score=40.59 Aligned_cols=48 Identities=15% Similarity=0.066 Sum_probs=41.7
Q ss_pred hhccCCHHhhccC------CCCCHHHHHH-----HHHHHHhCCCCCCCHHhhhh-cCCCHH
Q 035971 551 LLNTGGKEDLKRL------KGIGEKRASY-----ILELREESPEPFKNLDDLKD-IGLSAK 599 (614)
Q Consensus 551 ~lN~A~~~~L~~l------~gig~~~A~~-----Ii~~R~~~gg~f~~~~dL~~-~gl~~~ 599 (614)
.+|+|....++.. .|+-++++-- |.+.|..|++ |+.++|+.. +||...
T Consensus 154 ~~~sA~p~r~~~~~~~~~kRG~~EK~~~~~~~~~~~d~~R~H~~-f~gf~e~~~~~~I~~~ 213 (623)
T KOG1857|consen 154 LLTSAVPGRTLMGVDPGYKRGCKEKIISPTSQILHTDVVRLHCG-FQGFREAEKIKTILLN 213 (623)
T ss_pred HhccCCchhhhhccCchhhcchHHHhhccccchhhhhHHHHhCc-ccchHHHHHhhhhhhc
Confidence 4799999999888 8999999988 9999999965 999999998 776543
No 353
>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=38.26 E-value=13 Score=37.78 Aligned_cols=19 Identities=32% Similarity=0.515 Sum_probs=15.7
Q ss_pred ceEEEeeccCCCCcceEee
Q 035971 96 NATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm~ 114 (614)
...++-||+.|+|||++.-
T Consensus 12 ~~~~liyG~~G~GKtt~a~ 30 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIK 30 (220)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 3569999999999998653
No 354
>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=38.21 E-value=23 Score=42.20 Aligned_cols=36 Identities=22% Similarity=0.345 Sum_probs=25.7
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 72 PHifa-iA~~Ay~~m~~~~~~QsIiisGESGaGKTes~ 108 (717)
T cd01382 72 PHVFA-IADKAYRDMKVLKMSQSIIVSGESGAGKTENT 108 (717)
T ss_pred CcHHH-HHHHHHHHHHhcCCCCeEEEecCCCCChhHHH
Confidence 34565 3333333333 699999999999999999885
No 355
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=38.11 E-value=23 Score=42.62 Aligned_cols=36 Identities=39% Similarity=0.659 Sum_probs=25.5
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhh
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSI 133 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~ 133 (614)
.+..+.+|.|+.|+| |||||||-+ +++| +++.|+..
T Consensus 30 a~~~i~~G~nvLiiA--PTGsGKTeA--------AfLp-il~~l~~~ 65 (814)
T COG1201 30 AIPEIHSGENVLIIA--PTGSGKTEA--------AFLP-VINELLSL 65 (814)
T ss_pred HHHHHhCCCceEEEc--CCCCChHHH--------HHHH-HHHHHHhc
Confidence 345678999998887 999999954 4444 45555555
No 356
>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=37.97 E-value=19 Score=41.18 Aligned_cols=45 Identities=20% Similarity=0.186 Sum_probs=31.3
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcce
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTR 111 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTy 111 (614)
...+.||.+++.+..-..+.+ .+..+ ...+..|+-+|.+||||++
T Consensus 190 ~~~~~~~~liG~s~~~~~~~~-----~~~~~-a~~~~pvli~Ge~GtGK~~ 234 (534)
T TIGR01817 190 RRSGKEDGIIGKSPAMRQVVD-----QARVV-ARSNSTVLLRGESGTGKEL 234 (534)
T ss_pred cccCccCceEECCHHHHHHHH-----HHHHH-hCcCCCEEEECCCCccHHH
Confidence 345889999987655444443 22222 3567889999999999984
No 357
>PHA02244 ATPase-like protein
Probab=37.96 E-value=29 Score=38.14 Aligned_cols=26 Identities=27% Similarity=0.387 Sum_probs=16.9
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+...+-.|.+ |+-+|++|+|||+..
T Consensus 111 ri~r~l~~~~P--VLL~GppGtGKTtLA 136 (383)
T PHA02244 111 DIAKIVNANIP--VFLKGGAGSGKNHIA 136 (383)
T ss_pred HHHHHHhcCCC--EEEECCCCCCHHHHH
Confidence 33333334554 556899999999654
No 358
>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=37.94 E-value=27 Score=28.64 Aligned_cols=26 Identities=35% Similarity=0.390 Sum_probs=21.2
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
|=..+.++|..++|+|++..+.|.+-
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 44568899999999999999998753
No 359
>COG1194 MutY A/G-specific DNA glycosylase [DNA replication, recombination, and repair]
Probab=37.91 E-value=21 Score=38.53 Aligned_cols=30 Identities=27% Similarity=0.326 Sum_probs=24.8
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHHHHhC
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILELREES 581 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~ 581 (614)
+=.-+.++|.+|||||+..|.+|+..=-.+
T Consensus 107 ~~P~~~~~l~~LpGiG~yTa~Ail~~a~~~ 136 (342)
T COG1194 107 EFPDDEEELAALPGVGPYTAGAILSFAFNQ 136 (342)
T ss_pred CCCCCHHHHHhCCCCcHHHHHHHHHHHhCC
Confidence 335688999999999999999999875444
No 360
>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=37.90 E-value=27 Score=41.38 Aligned_cols=36 Identities=25% Similarity=0.399 Sum_probs=26.4
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. ++......++ .|.|.||+.-|.+|||||.+.
T Consensus 68 PHifa-vA~~Ay~~m~~~~~~QsIiisGESGaGKTe~~ 104 (677)
T cd01387 68 PHLFA-IANLAFAKMLDAKQNQCVIISGESGSGKTEAT 104 (677)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEEcCCCCCeehHH
Confidence 44665 3333344444 699999999999999999885
No 361
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=37.86 E-value=12 Score=38.22 Aligned_cols=15 Identities=40% Similarity=0.802 Sum_probs=11.9
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
+.-.|++|||||+.+
T Consensus 31 v~iiGpSGSGKSTlL 45 (240)
T COG1126 31 VVIIGPSGSGKSTLL 45 (240)
T ss_pred EEEECCCCCCHHHHH
Confidence 456799999999654
No 362
>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=37.62 E-value=19 Score=38.40 Aligned_cols=22 Identities=32% Similarity=0.489 Sum_probs=18.7
Q ss_pred hcCCceEEEeeccCCCCcceEe
Q 035971 92 FNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 92 l~G~N~tI~aYGqTGSGKTyTm 113 (614)
....+.-++.||+.|||||.+|
T Consensus 19 ~~~~~~r~vL~G~~GsGKS~~L 40 (309)
T PF10236_consen 19 KSSKNNRYVLTGERGSGKSVLL 40 (309)
T ss_pred ccCCceEEEEECCCCCCHHHHH
Confidence 3567778999999999999877
No 363
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=37.55 E-value=33 Score=38.47 Aligned_cols=32 Identities=19% Similarity=0.318 Sum_probs=21.1
Q ss_pred hhHHHHHhhhccCCHHhhccCCCCCHHHHHHH
Q 035971 543 SLVQEYLKLLNTGGKEDLKRLKGIGEKRASYI 574 (614)
Q Consensus 543 ~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~I 574 (614)
.-++.+.-.||+-|.+|+..-.=|...+.++|
T Consensus 362 ~~~~~~~~ii~SMt~~Er~~p~~~~~sR~~Ri 393 (437)
T PRK00771 362 EKLKKYKAIMDSMTEEELENPEIINASRIRRI 393 (437)
T ss_pred HHHHHHHHHHHcCCHHHHhCcccccHHHHHHH
Confidence 34566777888888888885554555554444
No 364
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=37.54 E-value=43 Score=30.98 Aligned_cols=31 Identities=35% Similarity=0.363 Sum_probs=22.8
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDL 591 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL 591 (614)
.|..|+|||+..|.+|.+.=.-. |...+.||
T Consensus 18 aLt~i~GIG~~~A~~ic~~lgi~--~~~~~~~L 48 (122)
T CHL00137 18 ALTYIYGIGLTSAKEILEKANID--PDIRTKDL 48 (122)
T ss_pred eecccccccHHHHHHHHHHcCcC--cCcCcccC
Confidence 57889999999999999864333 45555554
No 365
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=37.47 E-value=20 Score=39.63 Aligned_cols=40 Identities=33% Similarity=0.426 Sum_probs=28.2
Q ss_pred eeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcc
Q 035971 66 LDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKT 110 (614)
Q Consensus 66 FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKT 110 (614)
||.|++ |+.+.. ...++-.-+-.|.-.+.+-||+.|+|||
T Consensus 23 lde~vG----Q~HLlg-~~~~lrr~v~~~~l~SmIl~GPPG~GKT 62 (436)
T COG2256 23 LDEVVG----QEHLLG-EGKPLRRAVEAGHLHSMILWGPPGTGKT 62 (436)
T ss_pred HHHhcC----hHhhhC-CCchHHHHHhcCCCceeEEECCCCCCHH
Confidence 455554 556664 2455555555688888999999999999
No 366
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=37.30 E-value=12 Score=39.17 Aligned_cols=14 Identities=50% Similarity=0.757 Sum_probs=12.0
Q ss_pred EeeccCCCCcceEe
Q 035971 100 VACGAKGSGKTRVI 113 (614)
Q Consensus 100 ~aYGqTGSGKTyTm 113 (614)
.-.|++|||||+||
T Consensus 31 vliGpSGsGKTTtL 44 (309)
T COG1125 31 VLIGPSGSGKTTTL 44 (309)
T ss_pred EEECCCCCcHHHHH
Confidence 44699999999987
No 367
>PRK13766 Hef nuclease; Provisional
Probab=37.12 E-value=46 Score=39.74 Aligned_cols=44 Identities=20% Similarity=0.305 Sum_probs=32.5
Q ss_pred hccCCCCCHHHHHHHHHHH----HhCCCCCCCHHhhhhc-CCCHHHHHHHHH
Q 035971 560 LKRLKGIGEKRASYILELR----EESPEPFKNLDDLKDI-GLSAKQIKGMMK 606 (614)
Q Consensus 560 L~~l~gig~~~A~~Ii~~R----~~~gg~f~~~~dL~~~-gl~~~~~~~~~~ 606 (614)
|..|||||++.|++|+++= +-. -.+.++|.++ |++++.++.+..
T Consensus 717 L~~ipgig~~~a~~Ll~~fgs~~~i~---~as~~~L~~i~Gig~~~a~~i~~ 765 (773)
T PRK13766 717 VESLPDVGPVLARNLLEHFGSVEAVM---TASEEELMEVEGIGEKTAKRIRE 765 (773)
T ss_pred HhcCCCCCHHHHHHHHHHcCCHHHHH---hCCHHHHHhCCCCCHHHHHHHHH
Confidence 7889999999999999751 111 1256688884 999888887643
No 368
>PHA02624 large T antigen; Provisional
Probab=37.07 E-value=26 Score=40.94 Aligned_cols=28 Identities=18% Similarity=0.253 Sum_probs=21.9
Q ss_pred HHHHHHHhcCCce--EEEeeccCCCCcceE
Q 035971 85 KPLISEVFNGINA--TIVACGAKGSGKTRV 112 (614)
Q Consensus 85 ~plV~~vl~G~N~--tI~aYGqTGSGKTyT 112 (614)
..+++.++.|... |++-||+.|||||+-
T Consensus 418 ~~~lk~~l~giPKk~~il~~GPpnTGKTtf 447 (647)
T PHA02624 418 YDILKLIVENVPKRRYWLFKGPVNSGKTTL 447 (647)
T ss_pred HHHHHHHHhcCCCCeEEEEECCCCCCHHHH
Confidence 3446667777666 999999999999954
No 369
>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=37.04 E-value=26 Score=41.65 Aligned_cols=36 Identities=28% Similarity=0.386 Sum_probs=26.0
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 67 PHifa-iA~~Ay~~m~~~~~~QsIiiSGESGaGKTes~ 103 (691)
T cd01380 67 PHIFA-IAEEAYKQMTRDEKNQSIIVSGESGAGKTVSA 103 (691)
T ss_pred CCHHH-HHHHHHHHHHhcCCCceEEEEcCCCCCchHHH
Confidence 34664 3333333433 699999999999999999875
No 370
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=36.78 E-value=39 Score=26.19 Aligned_cols=42 Identities=12% Similarity=0.239 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHHh
Q 035971 568 EKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKEM 609 (614)
Q Consensus 568 ~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~~ 609 (614)
+.+.+.|+...-..|+.+.+..||.+ .|++...+.+.+++-.
T Consensus 8 ~~i~~~i~~~~~~~~~~~~~~~~la~~~~is~~~v~~~l~~L~ 50 (66)
T cd07377 8 DQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELE 50 (66)
T ss_pred HHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34445555544345455667999999 9999999999988765
No 371
>PRK07261 topology modulation protein; Provisional
Probab=36.78 E-value=16 Score=35.28 Aligned_cols=14 Identities=43% Similarity=0.677 Sum_probs=11.9
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+..|++|||||+.
T Consensus 3 i~i~G~~GsGKSTl 16 (171)
T PRK07261 3 IAIIGYSGSGKSTL 16 (171)
T ss_pred EEEEcCCCCCHHHH
Confidence 67889999999954
No 372
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=36.65 E-value=26 Score=38.16 Aligned_cols=41 Identities=27% Similarity=0.503 Sum_probs=29.7
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEeecC------CCCcchhHHHHH
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVIQGS------YEEPGLAALAVD 128 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm~G~------~~~~GLipral~ 128 (614)
.+|..++.|.+| +.+..||||||..+-++ .+..|++..++.
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 467778999997 56678999999998774 234466665544
No 373
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=36.52 E-value=22 Score=42.45 Aligned_cols=21 Identities=24% Similarity=0.420 Sum_probs=17.1
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+.-..++-||++|+|||++.
T Consensus 49 ~~~~~slLL~GPpGtGKTTLA 69 (725)
T PRK13341 49 ADRVGSLILYGPPGVGKTTLA 69 (725)
T ss_pred cCCCceEEEECCCCCCHHHHH
Confidence 455557888999999999876
No 374
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=36.51 E-value=22 Score=40.41 Aligned_cols=31 Identities=19% Similarity=0.587 Sum_probs=21.7
Q ss_pred hHHHHHHHhcCCce------EEEeeccCCCCcceEee
Q 035971 84 VKPLISEVFNGINA------TIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 84 v~plV~~vl~G~N~------tI~aYGqTGSGKTyTm~ 114 (614)
+..=+..+++|.+. .++-+|++|||||+.|-
T Consensus 14 Ie~~l~~vL~~Vsl~i~~GEiv~L~G~SGsGKSTLLr 50 (504)
T TIGR03238 14 IQTDLERILVKFNKELPSSSLLFLCGSSGDGKSEILA 50 (504)
T ss_pred HHHHHHHHHhCCceeecCCCEEEEECCCCCCHHHHHh
Confidence 33334456666444 47889999999998875
No 375
>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=36.49 E-value=15 Score=38.50 Aligned_cols=21 Identities=33% Similarity=0.626 Sum_probs=18.2
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.|+...|+..|++|+|||..+
T Consensus 1 ~g~~f~I~vvG~sg~GKSTli 21 (276)
T cd01850 1 KGFQFNIMVVGESGLGKSTFI 21 (276)
T ss_pred CCcEEEEEEEcCCCCCHHHHH
Confidence 488999999999999999543
No 376
>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=36.23 E-value=46 Score=34.33 Aligned_cols=37 Identities=11% Similarity=0.179 Sum_probs=24.8
Q ss_pred ceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEE
Q 035971 96 NATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISF 145 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~ 145 (614)
..+++.+|++|+|||.. +++-+++.+......+++|+
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 46788999999999942 44555555544444566665
No 377
>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=36.10 E-value=59 Score=32.31 Aligned_cols=26 Identities=35% Similarity=0.576 Sum_probs=18.8
Q ss_pred HHHHHhc-CC--ceEEEeeccCCCCcceE
Q 035971 87 LISEVFN-GI--NATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~-G~--N~tI~aYGqTGSGKTyT 112 (614)
-++.++. |+ ...++-+|.+|+|||..
T Consensus 4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred hhHHHhcCCCCCCeEEEEECCCCCCHHHH
Confidence 3566665 43 56778899999999853
No 378
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=36.09 E-value=20 Score=41.44 Aligned_cols=25 Identities=20% Similarity=0.355 Sum_probs=19.6
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.|..+++|.| |++..+||||||.+.
T Consensus 39 ~ip~~l~G~D--vi~~ApTGSGKTlaf 63 (572)
T PRK04537 39 TLPVALPGGD--VAGQAQTGTGKTLAF 63 (572)
T ss_pred HHHHHhCCCC--EEEEcCCCCcHHHHH
Confidence 3556789988 567889999999763
No 379
>PRK08118 topology modulation protein; Reviewed
Probab=36.02 E-value=16 Score=35.06 Aligned_cols=13 Identities=46% Similarity=0.802 Sum_probs=11.7
Q ss_pred EEeeccCCCCcce
Q 035971 99 IVACGAKGSGKTR 111 (614)
Q Consensus 99 I~aYGqTGSGKTy 111 (614)
|+..|+.|||||+
T Consensus 4 I~I~G~~GsGKST 16 (167)
T PRK08118 4 IILIGSGGSGKST 16 (167)
T ss_pred EEEECCCCCCHHH
Confidence 7889999999994
No 380
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=35.85 E-value=25 Score=38.00 Aligned_cols=82 Identities=20% Similarity=0.266 Sum_probs=48.6
Q ss_pred eeeeecCCCChHHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHh-hccccCceEEE
Q 035971 66 LDYCYEQNEGNGIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILS-ISEKMGKSITI 143 (614)
Q Consensus 66 FD~VF~~~asQ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~-~~~~~~~sV~v 143 (614)
|-+|=..+.++.+-=......+|+.+| .|+ .+|.||..|.|||+.+. ..+|.--+-.++|. ...+-+.-+.|
T Consensus 60 f~~v~a~~~~~~eWdrs~~P~lId~~fr~g~--~~~~~gdsg~GKttllL----~l~IalaaG~~lfG~~v~epGkvlyv 133 (402)
T COG3598 60 FIQVQAEAMRLSEWDRSNSPQLIDEFFRKGY--VSILYGDSGVGKTTLLL----YLCIALAAGKNLFGNKVKEPGKVLYV 133 (402)
T ss_pred eeEehhhhcChhhcCcccChhhhhHHhhcCe--eEEEecCCcccHhHHHH----HHHHHHHhhHHHhcccccCCCeEEEE
Confidence 335655555554433345566777766 354 35889999999998764 34555555666776 33333333444
Q ss_pred EEEEEecceec
Q 035971 144 SFYEIFQDHVY 154 (614)
Q Consensus 144 S~~EIYnE~V~ 154 (614)
| +|.|.|.+.
T Consensus 134 s-lEl~re~~L 143 (402)
T COG3598 134 S-LELYREDIL 143 (402)
T ss_pred E-eccChHHHH
Confidence 3 577766543
No 381
>PRK06696 uridine kinase; Validated
Probab=35.81 E-value=33 Score=34.38 Aligned_cols=29 Identities=24% Similarity=0.299 Sum_probs=20.0
Q ss_pred hHHHHHHHh---cCCceEEEeeccCCCCcceE
Q 035971 84 VKPLISEVF---NGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 84 v~plV~~vl---~G~N~tI~aYGqTGSGKTyT 112 (614)
+..+.+.++ .+....|...|.+|||||+.
T Consensus 7 ~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTl 38 (223)
T PRK06696 7 IKELAEHILTLNLTRPLRVAIDGITASGKTTF 38 (223)
T ss_pred HHHHHHHHHHhCCCCceEEEEECCCCCCHHHH
Confidence 444455554 45566788889999999954
No 382
>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=35.59 E-value=42 Score=30.60 Aligned_cols=32 Identities=41% Similarity=0.480 Sum_probs=22.6
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDL 591 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL 591 (614)
-.|..|+|||...|.+|.+.=.-+ |...+.+|
T Consensus 15 ~aL~~i~GIG~~~a~~i~~~lgi~--~~~~~~~L 46 (113)
T TIGR03631 15 IALTYIYGIGRTRARKILEKAGID--PDKRVKDL 46 (113)
T ss_pred eeeeeeecccHHHHHHHHHHhCcC--cccccccC
Confidence 357889999999999999764333 44444444
No 383
>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=35.52 E-value=12 Score=41.00 Aligned_cols=17 Identities=47% Similarity=0.706 Sum_probs=0.0
Q ss_pred EEeeccCCCCcceEeec
Q 035971 99 IVACGAKGSGKTRVIQG 115 (614)
Q Consensus 99 I~aYGqTGSGKTyTm~G 115 (614)
+++||..|||||+++..
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 384
>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=35.49 E-value=25 Score=30.00 Aligned_cols=32 Identities=28% Similarity=0.575 Sum_probs=21.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcC
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIG 595 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~g 595 (614)
..|..||.||++..+...+ - | +.+++||.++|
T Consensus 3 ~~l~~LpNig~~~e~~L~~----v-G-I~t~~~L~~~G 34 (81)
T PF04994_consen 3 NRLKDLPNIGPKSERMLAK----V-G-IHTVEDLRELG 34 (81)
T ss_dssp --GCGSTT--HHHHHHHHH----T-T---SHHHHHHHH
T ss_pred cchhhCCCCCHHHHHHHHH----c-C-CCCHHHHHHhC
Confidence 4688999999999887642 4 5 89999999877
No 385
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=35.46 E-value=14 Score=35.19 Aligned_cols=17 Identities=35% Similarity=0.628 Sum_probs=14.1
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
...+-||++|+|||..|
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 56678999999999665
No 386
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=35.45 E-value=28 Score=40.34 Aligned_cols=53 Identities=17% Similarity=0.215 Sum_probs=39.9
Q ss_pred hccCChhhhhhcccccchhhhHHHH--HhhhccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 524 ANMKSPWETFNMRSSGMKNSLVQEY--LKLLNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 524 ~~~~~~~~~~~~~~~~~~~~l~~~~--~~~lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
....++++.--.-...-++.|++.+ +..|=.||.+||.++ |||+++|+.|.++
T Consensus 510 ~~~~S~Ld~I~GiG~kr~~~Ll~~Fgs~~~ik~As~eeL~~v-gi~~~~A~~I~~~ 564 (567)
T PRK14667 510 EGLKDILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEVKKY 564 (567)
T ss_pred ccccCccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHc-CCCHHHHHHHHHH
Confidence 3345666665555555566676654 556889999999999 9999999999775
No 387
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=35.34 E-value=22 Score=37.90 Aligned_cols=17 Identities=29% Similarity=0.520 Sum_probs=14.4
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..++-||++|+|||+..
T Consensus 52 ~~~ll~GppG~GKT~la 68 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLA 68 (328)
T ss_pred CcEEEECCCCccHHHHH
Confidence 35788999999999775
No 388
>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=35.28 E-value=14 Score=34.68 Aligned_cols=14 Identities=43% Similarity=0.752 Sum_probs=11.0
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+..|++|||||+.
T Consensus 1 i~l~G~~GsGKSTl 14 (163)
T TIGR01313 1 FVLMGVAGSGKSTI 14 (163)
T ss_pred CEEECCCCCCHHHH
Confidence 35679999999843
No 389
>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=35.28 E-value=17 Score=34.91 Aligned_cols=14 Identities=43% Similarity=0.601 Sum_probs=12.1
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+.+|+.|||||+.
T Consensus 2 I~i~G~pGsGKst~ 15 (194)
T cd01428 2 ILLLGPPGSGKGTQ 15 (194)
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999843
No 390
>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=35.19 E-value=36 Score=34.83 Aligned_cols=30 Identities=23% Similarity=0.359 Sum_probs=23.2
Q ss_pred hhHHHHHHHhc--CCceEEEeeccCCCCcceE
Q 035971 83 EVKPLISEVFN--GINATIVACGAKGSGKTRV 112 (614)
Q Consensus 83 ~v~plV~~vl~--G~N~tI~aYGqTGSGKTyT 112 (614)
.+..+.+.+.+ .-...|.-+|..|.|||..
T Consensus 4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~L 35 (287)
T PF00931_consen 4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTL 35 (287)
T ss_dssp HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHH
T ss_pred HHHHHHHHhhCCCCCeEEEEEEcCCcCCccee
Confidence 45566666666 6778899999999999943
No 391
>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=35.05 E-value=29 Score=39.03 Aligned_cols=25 Identities=24% Similarity=0.360 Sum_probs=18.9
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.|..++.|.+ +++..+||||||.+.
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 4456788987 466679999999753
No 392
>PRK02362 ski2-like helicase; Provisional
Probab=34.84 E-value=50 Score=39.39 Aligned_cols=46 Identities=24% Similarity=0.411 Sum_probs=32.2
Q ss_pred CHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcC-------CCHHHHHHHHHH
Q 035971 556 GKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIG-------LSAKQIKGMMKK 607 (614)
Q Consensus 556 ~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~g-------l~~~~~~~~~~~ 607 (614)
+.-+|.+|||||+++|++..+ . | |++++||.... ++.+.+++++..
T Consensus 650 ~~~~L~~ip~i~~~~a~~l~~----~-g-i~s~~dl~~~~~~~l~~~~g~~~~~~i~~~ 702 (737)
T PRK02362 650 ELLDLVGLRGVGRVRARRLYN----A-G-IESRADLRAADKSVVLAILGEKIAENILEQ 702 (737)
T ss_pred HHHHHhCCCCCCHHHHHHHHH----c-C-CCCHHHHHhCCHHHHHHHHCHHHHHHHHHH
Confidence 344688999999999988763 3 5 99999998421 455555555543
No 393
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=34.83 E-value=24 Score=40.43 Aligned_cols=44 Identities=20% Similarity=0.324 Sum_probs=31.0
Q ss_pred ceeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcc
Q 035971 61 KECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKT 110 (614)
Q Consensus 61 ~~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKT 110 (614)
...|+||.+.+....-.++-+ ++ .-..+.+++|+-+|.||+||-
T Consensus 239 ~a~y~f~~Iig~S~~m~~~~~-----~a-kr~A~tdstVLi~GESGTGKE 282 (560)
T COG3829 239 KAKYTFDDIIGESPAMLRVLE-----LA-KRIAKTDSTVLILGESGTGKE 282 (560)
T ss_pred ccccchhhhccCCHHHHHHHH-----HH-HhhcCCCCcEEEecCCCccHH
Confidence 356899999987643322222 22 235789999999999999994
No 394
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=34.78 E-value=1.1e+02 Score=23.04 Aligned_cols=41 Identities=20% Similarity=0.464 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHHhhhh
Q 035971 569 KRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKEMECL 612 (614)
Q Consensus 569 ~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~~~~~ 612 (614)
..-+.||.+|-.. | .++.|+.+ .|++...|.++..+++..|
T Consensus 7 ~~er~vi~~~y~~-~--~t~~eIa~~lg~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 7 PREREVIRLRYFE-G--LTLEEIAERLGISRSTVRRILKRALKKL 48 (50)
T ss_dssp HHHHHHHHHHHTS-T---SHHHHHHHHTSCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcC-C--CCHHHHHHHHCCcHHHHHHHHHHHHHHh
Confidence 3457788888644 3 38999999 9999999999999988654
No 395
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=34.70 E-value=32 Score=34.05 Aligned_cols=30 Identities=27% Similarity=0.334 Sum_probs=22.3
Q ss_pred hHHHHHHHhcCC---ceEEEeeccCCCCcceEe
Q 035971 84 VKPLISEVFNGI---NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 84 v~plV~~vl~G~---N~tI~aYGqTGSGKTyTm 113 (614)
.-+-+|.++.|. ...+.-+|++|+|||..+
T Consensus 4 G~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~ 36 (226)
T cd01393 4 GSKALDELLGGGIPTGRITEIFGEFGSGKTQLC 36 (226)
T ss_pred CcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHH
Confidence 346677888643 456888999999999654
No 396
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=34.69 E-value=51 Score=30.47 Aligned_cols=31 Identities=35% Similarity=0.459 Sum_probs=22.3
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhh
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDL 591 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL 591 (614)
.|..|.|||+..|..|++.=.-+ |...+.||
T Consensus 18 aL~~I~GIG~~~a~~i~~~lgi~--~~~~~~~L 48 (122)
T PRK05179 18 ALTYIYGIGRTRAKEILAAAGID--PDTRVKDL 48 (122)
T ss_pred eecccccccHHHHHHHHHHhCcC--cccccccC
Confidence 57889999999999999864333 44444444
No 397
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=34.49 E-value=15 Score=41.02 Aligned_cols=18 Identities=28% Similarity=0.553 Sum_probs=14.8
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
..++..|++|+|||+|+.
T Consensus 222 ~~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLA 239 (424)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 367777999999999873
No 398
>CHL00181 cbbX CbbX; Provisional
Probab=34.47 E-value=17 Score=38.22 Aligned_cols=15 Identities=40% Similarity=0.636 Sum_probs=12.8
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
++-||++|+|||+..
T Consensus 62 ill~G~pGtGKT~lA 76 (287)
T CHL00181 62 MSFTGSPGTGKTTVA 76 (287)
T ss_pred EEEECCCCCCHHHHH
Confidence 788999999999653
No 399
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=34.22 E-value=20 Score=41.50 Aligned_cols=18 Identities=33% Similarity=0.647 Sum_probs=15.2
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
-..+-.||.|+|||||+.
T Consensus 202 ~l~~I~GPPGTGKT~Tlv 219 (649)
T KOG1803|consen 202 DLLIIHGPPGTGKTRTLV 219 (649)
T ss_pred CceEeeCCCCCCceeeHH
Confidence 456778999999999973
No 400
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.92 E-value=19 Score=40.99 Aligned_cols=21 Identities=33% Similarity=0.374 Sum_probs=16.5
Q ss_pred hcCCce-EEEeeccCCCCcceE
Q 035971 92 FNGINA-TIVACGAKGSGKTRV 112 (614)
Q Consensus 92 l~G~N~-tI~aYGqTGSGKTyT 112 (614)
-.|.-. .++-||+.|+|||.+
T Consensus 30 ~~~ri~ha~Lf~Gp~G~GKTT~ 51 (491)
T PRK14964 30 TLNKIPQSILLVGASGVGKTTC 51 (491)
T ss_pred HcCCCCceEEEECCCCccHHHH
Confidence 345444 799999999999975
No 401
>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=33.76 E-value=17 Score=33.42 Aligned_cols=15 Identities=53% Similarity=0.740 Sum_probs=12.6
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
+|+.+|..|||||+.
T Consensus 1 ~i~l~G~~GsGKstl 15 (154)
T cd00464 1 NIVLIGMMGAGKTTV 15 (154)
T ss_pred CEEEEcCCCCCHHHH
Confidence 478899999999943
No 402
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=33.51 E-value=24 Score=39.24 Aligned_cols=17 Identities=41% Similarity=0.659 Sum_probs=14.3
Q ss_pred ceEEEeeccCCCCcceE
Q 035971 96 NATIVACGAKGSGKTRV 112 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyT 112 (614)
...|+.+|++|+|||+.
T Consensus 108 ~~~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 108 KSNILLIGPTGSGKTLL 124 (412)
T ss_pred CceEEEEcCCCCCHHHH
Confidence 35699999999999954
No 403
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=33.50 E-value=15 Score=41.28 Aligned_cols=30 Identities=37% Similarity=0.630 Sum_probs=20.7
Q ss_pred EEeeccCCCCcceEeecCCCCcchhH-HHHHHHH
Q 035971 99 IVACGAKGSGKTRVIQGSYEEPGLAA-LAVDEIL 131 (614)
Q Consensus 99 I~aYGqTGSGKTyTm~G~~~~~GLip-ral~~LF 131 (614)
++.||+.|||||... ..-+||+| ....++.
T Consensus 201 Ll~~GpPGtGKTmla---~Rl~~lLPpls~~E~l 231 (490)
T COG0606 201 LLLVGPPGTGKTMLA---SRLPGLLPPLSIPEAL 231 (490)
T ss_pred EEEecCCCCchHHhh---hhhcccCCCCChHHHH
Confidence 688999999999775 23467766 3344443
No 404
>smart00475 53EXOc 5'-3' exonuclease.
Probab=33.49 E-value=34 Score=35.56 Aligned_cols=29 Identities=31% Similarity=0.653 Sum_probs=22.0
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+-+-.+||||++.|..+|+. |.+++.+.+
T Consensus 186 DnipGV~GIG~KtA~~Ll~~-------ygsle~i~~ 214 (259)
T smart00475 186 DNIPGVPGIGEKTAAKLLKE-------FGSLENILE 214 (259)
T ss_pred cCCCCCCCCCHHHHHHHHHH-------hCCHHHHHH
Confidence 34778999999999999953 346666665
No 405
>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=33.41 E-value=48 Score=22.93 Aligned_cols=21 Identities=14% Similarity=0.452 Sum_probs=17.8
Q ss_pred CCHHhhhh-cCCCHHHHHHHHH
Q 035971 586 KNLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 586 ~~~~dL~~-~gl~~~~~~~~~~ 606 (614)
.+++||++ .|++++++..++.
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 48999999 9999999998875
No 406
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=33.40 E-value=29 Score=40.70 Aligned_cols=25 Identities=32% Similarity=0.584 Sum_probs=19.5
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+..++.|.+ +++.++||||||.+.
T Consensus 36 ai~~ll~g~d--vl~~ApTGsGKT~af 60 (629)
T PRK11634 36 CIPHLLNGRD--VLGMAQTGSGKTAAF 60 (629)
T ss_pred HHHHHHcCCC--EEEEcCCCCcHHHHH
Confidence 4556678876 788889999999764
No 407
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=33.31 E-value=26 Score=38.25 Aligned_cols=19 Identities=47% Similarity=0.751 Sum_probs=17.9
Q ss_pred cCCceEEEeeccCCCCcce
Q 035971 93 NGINATIVACGAKGSGKTR 111 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTy 111 (614)
.|+.-+||..|+.|+|||.
T Consensus 20 ~Gi~f~im~~G~sG~GKtt 38 (373)
T COG5019 20 KGIDFTIMVVGESGLGKTT 38 (373)
T ss_pred cCCceEEEEecCCCCchhH
Confidence 6999999999999999995
No 408
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=33.29 E-value=23 Score=42.29 Aligned_cols=19 Identities=42% Similarity=0.833 Sum_probs=15.8
Q ss_pred CceEEEeeccCCCCcceEe
Q 035971 95 INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm 113 (614)
-|-.++.+|+||||||+-+
T Consensus 270 ~n~vvIIcGeTGsGKTTQv 288 (1172)
T KOG0926|consen 270 ENPVVIICGETGSGKTTQV 288 (1172)
T ss_pred cCCeEEEecCCCCCccccc
Confidence 3556888899999999876
No 409
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=33.28 E-value=34 Score=39.75 Aligned_cols=54 Identities=22% Similarity=0.342 Sum_probs=45.5
Q ss_pred hhccCChhhhhhcccccchhhhHHHHHhh--hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 523 IANMKSPWETFNMRSSGMKNSLVQEYLKL--LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 523 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
.....+++|.--.-....++.|++-+-.. |=.|+.+||..+ ||+.++|++|.++
T Consensus 525 k~~~~s~Ld~I~GiG~~r~~~LL~~Fgs~~~i~~As~eel~~v-gi~~~~a~~i~~~ 580 (581)
T COG0322 525 KAMLQSSLDDIPGIGPKRRKALLKHFGSLKGIKSASVEELAKV-GISKKLAEKIYEA 580 (581)
T ss_pred hhhhcCccccCCCcCHHHHHHHHHHhhCHHHHHhcCHHHHHHc-CCCHHHHHHHHhh
Confidence 36677888887777778888888887665 889999999999 9999999999753
No 410
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=33.14 E-value=35 Score=41.76 Aligned_cols=48 Identities=25% Similarity=0.554 Sum_probs=28.2
Q ss_pred ceEEEeeccCCCCcceE-------eecCCCCcchhHHHHHHHHhhccccCceEEEEEE
Q 035971 96 NATIVACGAKGSGKTRV-------IQGSYEEPGLAALAVDEILSISEKMGKSITISFY 146 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyT-------m~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~ 146 (614)
.+..+-+|+||||||.. |||.....| ....+++...-... ..|.+-|-
T Consensus 25 ~gi~lI~G~nGsGKSSIldAI~~ALyG~~~~~~--~~~~~~~i~~g~~~-~~V~l~F~ 79 (908)
T COG0419 25 SGIFLIVGPNGAGKSSILDAITFALYGKTPRLG--AFSLDDLIRAGEKS-ASVELEFE 79 (908)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHcCCCCCcc--chhhhHHHhcCCcc-EEEEEEEE
Confidence 34556789999999854 577655444 44445555443333 44555443
No 411
>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=33.07 E-value=39 Score=39.30 Aligned_cols=30 Identities=33% Similarity=0.664 Sum_probs=25.2
Q ss_pred HHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 557 KEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 557 ~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
...|..|||||+++.++++++ |.+++.+.+
T Consensus 540 ~S~Ld~I~GIG~kr~~~LL~~-------Fgs~~~i~~ 569 (574)
T TIGR00194 540 QSPLLKIPGVGEKRVQKLLKY-------FGSLKGIKK 569 (574)
T ss_pred HHHHhcCCCCCHHHHHHHHHH-------cCCHHHHHh
Confidence 367889999999999999963 778888876
No 412
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=33.03 E-value=63 Score=38.43 Aligned_cols=65 Identities=9% Similarity=0.079 Sum_probs=35.0
Q ss_pred hhhHHHHHhhhccCCHHhhcc------CCCCCHHHHHHHHHHHHhCCC-CCCCHHhhhh-cCCCHHHHHHHHH
Q 035971 542 NSLVQEYLKLLNTGGKEDLKR------LKGIGEKRASYILELREESPE-PFKNLDDLKD-IGLSAKQIKGMMK 606 (614)
Q Consensus 542 ~~l~~~~~~~lN~A~~~~L~~------l~gig~~~A~~Ii~~R~~~gg-~f~~~~dL~~-~gl~~~~~~~~~~ 606 (614)
....+..++-|+.+-.-.|.. |||||++.|++|.++=..... .-.+.++|.+ .||+.+.++.+..
T Consensus 506 ~Ksa~~Ll~~Ie~sk~~~l~r~l~ALgIpgIG~~~ak~L~~~F~si~~L~~As~eeL~~i~GIG~k~A~sI~~ 578 (689)
T PRK14351 506 ETSAENLLAELEASREPPLADFLVALGIPEVGPTTARNLAREFGTFEAIMDADEEALRAVDDVGPTVAEEIRE 578 (689)
T ss_pred hhHHHHHHHHHHHHccCCHHHHHHHcCCCCcCHHHHHHHHHHhCCHHHHHhCCHHHHhccCCcCHHHHHHHHH
Confidence 344555666666553333333 788888877777642100000 0124456666 5788877766643
No 413
>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=32.77 E-value=26 Score=36.63 Aligned_cols=34 Identities=24% Similarity=0.310 Sum_probs=22.9
Q ss_pred HhhhhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 80 FAREVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 80 f~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
|...+..+|...=..-+.+|.-+|+=|||||+.|
T Consensus 4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l 37 (325)
T PF07693_consen 4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFL 37 (325)
T ss_pred HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHH
Confidence 3334444444332356789999999999999755
No 414
>PHA02653 RNA helicase NPH-II; Provisional
Probab=32.66 E-value=33 Score=40.61 Aligned_cols=24 Identities=25% Similarity=0.383 Sum_probs=17.7
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
++..+..|.+ ++..|+||||||..
T Consensus 172 il~~i~~gkd--vIv~A~TGSGKTtq 195 (675)
T PHA02653 172 IFEAWISRKP--VVLTGGTGVGKTSQ 195 (675)
T ss_pred HHHHHHhCCC--EEEECCCCCCchhH
Confidence 3444556654 58999999999975
No 415
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=32.65 E-value=35 Score=39.88 Aligned_cols=51 Identities=22% Similarity=0.302 Sum_probs=33.1
Q ss_pred ChhhhhhcccccchhhhHHHHH--hhhccCCHHhhccCCCCCHHHHHHHHHHH
Q 035971 528 SPWETFNMRSSGMKNSLVQEYL--KLLNTGGKEDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 528 ~~~~~~~~~~~~~~~~l~~~~~--~~lN~A~~~~L~~l~gig~~~A~~Ii~~R 578 (614)
++|+.-..-...-.+.|++.+- ..|=.|+.++|..+||||+++|+.|.++-
T Consensus 543 s~L~~IpGIG~k~~k~Ll~~FgS~~~i~~As~eeL~~v~Gig~~~A~~I~~~l 595 (598)
T PRK00558 543 SALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEAL 595 (598)
T ss_pred hhHhhCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHhhcCCcCHHHHHHHHHHh
Confidence 3444333333333444444332 22446999999999999999999998874
No 416
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=32.31 E-value=35 Score=38.90 Aligned_cols=24 Identities=29% Similarity=0.499 Sum_probs=19.0
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
.+..++.|.| +++..+||||||.+
T Consensus 151 aip~il~g~d--viv~ApTGSGKTla 174 (518)
T PLN00206 151 AIPAALSGRS--LLVSADTGSGKTAS 174 (518)
T ss_pred HHHHHhcCCC--EEEEecCCCCccHH
Confidence 4666778876 57788999999965
No 417
>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=32.29 E-value=17 Score=34.75 Aligned_cols=16 Identities=31% Similarity=0.638 Sum_probs=13.5
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.++..|++|||||..+
T Consensus 3 ~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLL 18 (179)
T ss_pred EEEEECCCCCCHHHHH
Confidence 5778899999999665
No 418
>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=32.20 E-value=33 Score=34.17 Aligned_cols=28 Identities=25% Similarity=0.437 Sum_probs=20.5
Q ss_pred HHHHHHhc-CC--ceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFN-GI--NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~-G~--N~tI~aYGqTGSGKTyTm 113 (614)
+-+|.++. |+ ...++.+|++|+|||+..
T Consensus 7 ~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~ 37 (229)
T TIGR03881 7 EGLDKLLEGGIPRGFFVAVTGEPGTGKTIFC 37 (229)
T ss_pred hhHHHhhcCCCcCCeEEEEECCCCCChHHHH
Confidence 44666664 43 567889999999999653
No 419
>PRK14531 adenylate kinase; Provisional
Probab=32.19 E-value=21 Score=34.61 Aligned_cols=15 Identities=27% Similarity=0.481 Sum_probs=12.7
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
-|+.+|+.|||||+.
T Consensus 4 ~i~i~G~pGsGKsT~ 18 (183)
T PRK14531 4 RLLFLGPPGAGKGTQ 18 (183)
T ss_pred EEEEECCCCCCHHHH
Confidence 378899999999854
No 420
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.19 E-value=34 Score=42.47 Aligned_cols=17 Identities=35% Similarity=0.860 Sum_probs=13.8
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
+.+.-+|++|||||..|
T Consensus 27 gl~~I~G~nGaGKSTil 43 (1042)
T TIGR00618 27 PIFLICGKTGAGKTTLL 43 (1042)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 56678899999999654
No 421
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=32.05 E-value=38 Score=35.26 Aligned_cols=51 Identities=24% Similarity=0.445 Sum_probs=36.1
Q ss_pred HHHHhcCCceE-EEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEEEEecceeccc
Q 035971 88 ISEVFNGINAT-IVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFYEIFQDHVYDL 156 (614)
Q Consensus 88 V~~vl~G~N~t-I~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~EIYnE~V~DL 156 (614)
...+++|+-+- |+.||..|+||+.. +..++....+.... .+||..+.+.+|
T Consensus 76 T~~F~~G~pANnVLLwGaRGtGKSSL--------------VKA~~~e~~~~glr----LVEV~k~dl~~L 127 (287)
T COG2607 76 TEQFAEGLPANNVLLWGARGTGKSSL--------------VKALLNEYADEGLR----LVEVDKEDLATL 127 (287)
T ss_pred HHHHHcCCcccceEEecCCCCChHHH--------------HHHHHHHHHhcCCe----EEEEcHHHHhhH
Confidence 34677898886 99999999999843 35555554443332 889988876655
No 422
>PF13730 HTH_36: Helix-turn-helix domain
Probab=31.91 E-value=78 Score=24.12 Aligned_cols=40 Identities=15% Similarity=0.278 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHHh
Q 035971 570 RASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKEM 609 (614)
Q Consensus 570 ~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~~ 609 (614)
+--.|..+-...|+-|-+.+.|.+ .|++..+|.+.++.-.
T Consensus 10 v~~~l~~~~~~~~~~~pS~~~la~~~g~s~~Tv~~~i~~L~ 50 (55)
T PF13730_consen 10 VYLYLASYANKNGGCFPSQETLAKDLGVSRRTVQRAIKELE 50 (55)
T ss_pred HHHHHHHhcCCCCCCCcCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 334566666566667889999999 9999999999998765
No 423
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=31.71 E-value=20 Score=42.69 Aligned_cols=17 Identities=29% Similarity=0.534 Sum_probs=14.5
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..|+-||++|+|||+.+
T Consensus 213 ~giLL~GppGtGKT~la 229 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLA 229 (733)
T ss_pred ceEEEECCCCCChHHHH
Confidence 46899999999999764
No 424
>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=31.70 E-value=20 Score=37.57 Aligned_cols=15 Identities=40% Similarity=0.616 Sum_probs=13.2
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
-++-+|++|+|||+.
T Consensus 60 ~vll~G~pGTGKT~l 74 (284)
T TIGR02880 60 HMSFTGNPGTGKTTV 74 (284)
T ss_pred eEEEEcCCCCCHHHH
Confidence 588999999999965
No 425
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=31.50 E-value=17 Score=41.23 Aligned_cols=17 Identities=29% Similarity=0.464 Sum_probs=15.3
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..+.-.|++|+|||+|+
T Consensus 257 ~Vi~LvGpnGvGKTTTi 273 (484)
T PRK06995 257 GVFALMGPTGVGKTTTT 273 (484)
T ss_pred cEEEEECCCCccHHHHH
Confidence 57888999999999997
No 426
>cd01386 MYSc_type_XVIII Myosin motor domain, type XVIII myosins. 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
Probab=31.48 E-value=35 Score=41.06 Aligned_cols=36 Identities=19% Similarity=0.323 Sum_probs=26.0
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
-.||. +.......++ .|.|.||+.-|.+|||||.+.
T Consensus 67 PHifa-iA~~Ay~~m~~~~~~QsIiiSGESGAGKTe~t 103 (767)
T cd01386 67 PHIYS-LAQTAYRALLETRRDQSIIFLGRSGAGKTTSC 103 (767)
T ss_pred CCHHH-HHHHHHHHHHHcCCCceEEEecCCCCCcHHHH
Confidence 34665 3333334443 599999999999999999885
No 427
>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=31.39 E-value=37 Score=35.74 Aligned_cols=29 Identities=31% Similarity=0.402 Sum_probs=22.0
Q ss_pred hHHHHHHHhcCC---ceEEEeeccCCCCcceE
Q 035971 84 VKPLISEVFNGI---NATIVACGAKGSGKTRV 112 (614)
Q Consensus 84 v~plV~~vl~G~---N~tI~aYGqTGSGKTyT 112 (614)
..+-++.++.|- ...+..||++|||||..
T Consensus 80 g~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l 111 (310)
T TIGR02236 80 GSKELDELLGGGIETQAITEVFGEFGSGKTQI 111 (310)
T ss_pred CCHHHHHHhcCCCCCCeEEEEECCCCCCHHHH
Confidence 445677777754 56678999999999954
No 428
>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=31.36 E-value=19 Score=32.50 Aligned_cols=17 Identities=29% Similarity=0.540 Sum_probs=13.7
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..+...|++|||||.++
T Consensus 16 e~v~I~GpSGsGKSTLl 32 (107)
T cd00820 16 VGVLITGDSGIGKTELA 32 (107)
T ss_pred EEEEEEcCCCCCHHHHH
Confidence 35677899999999765
No 429
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=31.33 E-value=51 Score=33.14 Aligned_cols=37 Identities=14% Similarity=0.200 Sum_probs=21.6
Q ss_pred HHHHhhhhHHHHHHHhc-CCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVFN-GINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl~-G~N~tI~aYGqTGSGKTyTm 113 (614)
..+|...+.-+....-. +....|.-.|++|||||+.+
T Consensus 13 ~~~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~ 50 (229)
T PRK09270 13 EAVHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLA 50 (229)
T ss_pred HHHHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHH
Confidence 33444333333333222 55556777799999999654
No 430
>PRK06217 hypothetical protein; Validated
Probab=31.04 E-value=22 Score=34.40 Aligned_cols=13 Identities=54% Similarity=0.708 Sum_probs=11.6
Q ss_pred EEeeccCCCCcce
Q 035971 99 IVACGAKGSGKTR 111 (614)
Q Consensus 99 I~aYGqTGSGKTy 111 (614)
|+-.|.+|||||+
T Consensus 4 I~i~G~~GsGKST 16 (183)
T PRK06217 4 IHITGASGSGTTT 16 (183)
T ss_pred EEEECCCCCCHHH
Confidence 7889999999994
No 431
>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=30.94 E-value=54 Score=31.19 Aligned_cols=39 Identities=28% Similarity=0.367 Sum_probs=25.8
Q ss_pred hhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQIKGM 604 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~~~~~ 604 (614)
.|..|+|||+..|..|++.=.-. |...+.|| +.+++.++
T Consensus 22 aLt~I~GIG~~~a~~I~~~lgi~--~~~~~~~L-----t~~qi~~l 60 (144)
T TIGR03629 22 ALTGIKGIGRRFARAIARKLGVD--PNAKLGYL-----DDEEIEKL 60 (144)
T ss_pred eecceeccCHHHHHHHHHHcCcC--CCCCcccC-----CHHHHHHH
Confidence 57889999999999997654333 34444444 55555444
No 432
>PRK06851 hypothetical protein; Provisional
Probab=30.75 E-value=39 Score=37.02 Aligned_cols=46 Identities=17% Similarity=0.407 Sum_probs=30.4
Q ss_pred HHHHHhcCCceEEEeeccCCCCcceEeecCCCCcchhHHHHHHHHhhccccCceEEEEEE
Q 035971 87 LISEVFNGINATIVACGAKGSGKTRVIQGSYEEPGLAALAVDEILSISEKMGKSITISFY 146 (614)
Q Consensus 87 lV~~vl~G~N~tI~aYGqTGSGKTyTm~G~~~~~GLipral~~LF~~~~~~~~sV~vS~~ 146 (614)
.++.++++.+-.++.-|++|+|||..| ..+...+.+.++.|.+-.+
T Consensus 205 ~~~~l~~~~~~~~~i~G~pG~GKstl~--------------~~i~~~a~~~G~~v~~~hC 250 (367)
T PRK06851 205 FVPSLTEGVKNRYFLKGRPGTGKSTML--------------KKIAKAAEERGFDVEVYHC 250 (367)
T ss_pred hHHhHhcccceEEEEeCCCCCcHHHHH--------------HHHHHHHHhCCCeEEEEeC
Confidence 556666777788888888999988544 4555555555665544443
No 433
>PRK01172 ski2-like helicase; Provisional
Probab=30.66 E-value=69 Score=37.73 Aligned_cols=44 Identities=25% Similarity=0.477 Sum_probs=34.1
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhh--------h-cCCCHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLK--------D-IGLSAKQIKGMMKK 607 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~--------~-~gl~~~~~~~~~~~ 607 (614)
-+|++|||||...|++..+ .| |+++.||. + .|++.+++++++..
T Consensus 612 ~~L~~ip~~~~~~a~~l~~-----~g-~~~~~di~~~~~~~~~~i~~~~~~~~~~i~~~ 664 (674)
T PRK01172 612 IDLVLIPKVGRVRARRLYD-----AG-FKTVDDIARSSPERIKKIYGFSDTLANAIVNR 664 (674)
T ss_pred HhhcCCCCCCHHHHHHHHH-----cC-CCCHHHHHhCCHHHHHHHhccCHHHHHHHHHH
Confidence 3578999999999998764 25 88887775 3 57888888888765
No 434
>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=30.61 E-value=22 Score=40.32 Aligned_cols=49 Identities=18% Similarity=0.239 Sum_probs=28.5
Q ss_pred eeEeeeeecCCCChHHHHhhhhHHHHHH--Hh----cCCceEEEeeccCCCCcceEe
Q 035971 63 CYKLDYCYEQNEGNGIIFAREVKPLISE--VF----NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 63 ~F~FD~VF~~~asQ~eVf~~~v~plV~~--vl----~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+||.|.+.+...+++.+ .+.. +.. .+ ....-.++.||++|+|||+..
T Consensus 51 ~~~~~di~g~~~~k~~l~~-~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la 105 (495)
T TIGR01241 51 KVTFKDVAGIDEAKEELME-IVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLA 105 (495)
T ss_pred CCCHHHhCCHHHHHHHHHH-HHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHH
Confidence 4678888776554444432 2222 111 11 112235899999999999775
No 435
>PRK08233 hypothetical protein; Provisional
Probab=30.51 E-value=23 Score=33.60 Aligned_cols=15 Identities=33% Similarity=0.550 Sum_probs=11.6
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|.--|++|||||+.
T Consensus 5 iI~I~G~~GsGKtTl 19 (182)
T PRK08233 5 IITIAAVSGGGKTTL 19 (182)
T ss_pred EEEEECCCCCCHHHH
Confidence 355579999999954
No 436
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=30.42 E-value=34 Score=38.40 Aligned_cols=26 Identities=23% Similarity=0.409 Sum_probs=19.7
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+..+++|.|.. ...+||||||.+.
T Consensus 116 ~ai~~~~~G~dvi--~~apTGSGKTlay 141 (475)
T PRK01297 116 QVLGYTLAGHDAI--GRAQTGTGKTAAF 141 (475)
T ss_pred HHHHHHhCCCCEE--EECCCCChHHHHH
Confidence 3566788998864 4569999999654
No 437
>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=30.38 E-value=17 Score=40.08 Aligned_cols=18 Identities=39% Similarity=0.595 Sum_probs=14.5
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
+.-++.+|+||||||..|
T Consensus 42 ~~h~~i~g~tGsGKt~~i 59 (410)
T cd01127 42 EAHTMIIGTTGTGKTTQI 59 (410)
T ss_pred hccEEEEcCCCCCHHHHH
Confidence 345789999999999654
No 438
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=30.33 E-value=54 Score=34.78 Aligned_cols=29 Identities=31% Similarity=0.587 Sum_probs=22.3
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+-+-.|||||++.|..+|+. |.+++.|.+
T Consensus 198 DnipGV~GIG~ktA~~Ll~~-------~gs~e~i~~ 226 (310)
T COG0258 198 DNIPGVKGIGPKTALKLLQE-------YGSLEGLYE 226 (310)
T ss_pred cCCCCCCCcCHHHHHHHHHH-------hCCHHHHHH
Confidence 33556999999999999863 337888777
No 439
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=30.32 E-value=26 Score=36.85 Aligned_cols=41 Identities=27% Similarity=0.385 Sum_probs=27.6
Q ss_pred EEEeeccCCCCcceEee--------------cCC---CCcchhHHHHHHHHhhccccC
Q 035971 98 TIVACGAKGSGKTRVIQ--------------GSY---EEPGLAALAVDEILSISEKMG 138 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~--------------G~~---~~~GLipral~~LF~~~~~~~ 138 (614)
.|+.||+.|+|||.+-- |+. ..-|==.|.+++||++.....
T Consensus 213 gvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvrelf~martkk 270 (435)
T KOG0729|consen 213 GVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVRELFEMARTKK 270 (435)
T ss_pred ceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHHHHHHHhcccc
Confidence 48999999999996532 221 122444578899998876443
No 440
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=30.31 E-value=24 Score=36.98 Aligned_cols=14 Identities=36% Similarity=0.646 Sum_probs=12.4
Q ss_pred EEEeeccCCCCcce
Q 035971 98 TIVACGAKGSGKTR 111 (614)
Q Consensus 98 tI~aYGqTGSGKTy 111 (614)
.++.||+.|+|||.
T Consensus 207 GvLmYGPPGTGKTl 220 (424)
T KOG0652|consen 207 GVLMYGPPGTGKTL 220 (424)
T ss_pred ceEeeCCCCCcHHH
Confidence 48999999999983
No 441
>PRK14532 adenylate kinase; Provisional
Probab=30.24 E-value=25 Score=33.87 Aligned_cols=15 Identities=20% Similarity=0.430 Sum_probs=12.6
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|+..|+.|||||+.
T Consensus 2 ~i~~~G~pGsGKsT~ 16 (188)
T PRK14532 2 NLILFGPPAAGKGTQ 16 (188)
T ss_pred EEEEECCCCCCHHHH
Confidence 478899999999844
No 442
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=30.20 E-value=1e+02 Score=28.22 Aligned_cols=33 Identities=24% Similarity=0.459 Sum_probs=26.4
Q ss_pred CCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh
Q 035971 555 GGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKD 593 (614)
Q Consensus 555 A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~ 593 (614)
+...+|+.+||||+..|.-.+. - | +.++++|.+
T Consensus 50 ~~~AdL~ri~gi~~~~a~LL~~----A-G-v~Tv~~LA~ 82 (122)
T PF14229_consen 50 VNQADLMRIPGIGPQYAELLEH----A-G-VDTVEELAQ 82 (122)
T ss_pred HhHHHhhhcCCCCHHHHHHHHH----h-C-cCcHHHHHh
Confidence 3456888999999999988764 2 5 889998876
No 443
>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=30.19 E-value=23 Score=33.68 Aligned_cols=16 Identities=38% Similarity=0.499 Sum_probs=13.1
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
.|+..|+.|||||+..
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4677999999999654
No 444
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=30.14 E-value=38 Score=40.08 Aligned_cols=21 Identities=33% Similarity=0.290 Sum_probs=16.6
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+...-++..|+||||||...
T Consensus 279 ~~~~~~~Ll~~~TGSGKT~va 299 (681)
T PRK10917 279 SPKPMNRLLQGDVGSGKTVVA 299 (681)
T ss_pred ccCCceEEEECCCCCcHHHHH
Confidence 344557899999999999764
No 445
>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]
Probab=29.97 E-value=25 Score=37.14 Aligned_cols=24 Identities=29% Similarity=0.534 Sum_probs=20.9
Q ss_pred HHhcCCceEEEeeccCCCCcceEe
Q 035971 90 EVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 90 ~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
++-+|+.--|++.|.||.|||..|
T Consensus 36 sv~~GF~FNilCvGETg~GKsTLm 59 (406)
T KOG3859|consen 36 SVSQGFCFNILCVGETGLGKSTLM 59 (406)
T ss_pred HHhcCceEEEEEeccCCccHHHHH
Confidence 456899999999999999999655
No 446
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=29.91 E-value=24 Score=40.47 Aligned_cols=39 Identities=26% Similarity=0.159 Sum_probs=28.4
Q ss_pred EEEeeccCCCCcceEeec---C---CCCcchhHHHHHHHHhhccc
Q 035971 98 TIVACGAKGSGKTRVIQG---S---YEEPGLAALAVDEILSISEK 136 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~G---~---~~~~GLipral~~LF~~~~~ 136 (614)
-||..|+|.|||||--.- + .-.-|=+-+...++|+....
T Consensus 193 Ii~H~GPTNSGKTy~ALqrl~~aksGvycGPLrLLA~EV~~r~na 237 (700)
T KOG0953|consen 193 IIMHVGPTNSGKTYRALQRLKSAKSGVYCGPLRLLAHEVYDRLNA 237 (700)
T ss_pred EEEEeCCCCCchhHHHHHHHhhhccceecchHHHHHHHHHHHhhh
Confidence 489999999999997542 1 12346667778888887664
No 447
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=29.78 E-value=34 Score=31.56 Aligned_cols=20 Identities=35% Similarity=0.476 Sum_probs=17.5
Q ss_pred hhccCCCCCHHHHHHHHHHH
Q 035971 559 DLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 559 ~L~~l~gig~~~A~~Ii~~R 578 (614)
.|..|+|||...|++|++.=
T Consensus 18 ALt~IyGIG~~~a~~I~~~~ 37 (121)
T COG0099 18 ALTYIYGIGRRRAKEICKKA 37 (121)
T ss_pred hhhhhccccHHHHHHHHHHc
Confidence 57889999999999999753
No 448
>CHL00195 ycf46 Ycf46; Provisional
Probab=29.67 E-value=21 Score=40.58 Aligned_cols=16 Identities=25% Similarity=0.547 Sum_probs=14.0
Q ss_pred eEEEeeccCCCCcceE
Q 035971 97 ATIVACGAKGSGKTRV 112 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyT 112 (614)
-.|+.||+.|+|||++
T Consensus 260 kGILL~GPpGTGKTll 275 (489)
T CHL00195 260 RGLLLVGIQGTGKSLT 275 (489)
T ss_pred ceEEEECCCCCcHHHH
Confidence 4699999999999954
No 449
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=29.65 E-value=40 Score=39.87 Aligned_cols=41 Identities=27% Similarity=0.434 Sum_probs=30.2
Q ss_pred chhhhHHHH--HhhhccCCHHhhccCCCCCHHHHHHHHHHHHh
Q 035971 540 MKNSLVQEY--LKLLNTGGKEDLKRLKGIGEKRASYILELREE 580 (614)
Q Consensus 540 ~~~~l~~~~--~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~ 580 (614)
..+.|++.+ +..|=.|+.++|.+++|||+++|+.|.++=..
T Consensus 649 r~k~LL~~FGSle~I~~AS~eELa~V~Gig~k~Ae~I~~~L~~ 691 (694)
T PRK14666 649 TARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHLKT 691 (694)
T ss_pred HHHHHHHHhCCHHHHHhcCHHHHHhcCCcCHHHHHHHHHHHHH
Confidence 334444432 23355799999999999999999999987543
No 450
>PRK01172 ski2-like helicase; Provisional
Probab=29.54 E-value=35 Score=40.13 Aligned_cols=38 Identities=13% Similarity=0.093 Sum_probs=26.7
Q ss_pred HHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHHHhhhhc
Q 035971 575 LELREESPEPFKNLDDLKD-IGLSAKQIKGMMKKEMECLF 613 (614)
Q Consensus 575 i~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~~~~~~~ 613 (614)
+..|-.+|- -..+-+|++ .|++...++++.+.-++-++
T Consensus 599 ~~~rl~~gv-~~~~~~L~~ip~~~~~~a~~l~~~g~~~~~ 637 (674)
T PRK01172 599 LNIRIKEGI-REDLIDLVLIPKVGRVRARRLYDAGFKTVD 637 (674)
T ss_pred HHHHHHcCC-CHHHHhhcCCCCCCHHHHHHHHHcCCCCHH
Confidence 444556644 456777888 68999999998887766554
No 451
>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=29.53 E-value=25 Score=31.93 Aligned_cols=14 Identities=50% Similarity=0.712 Sum_probs=11.7
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+..|++|||||..
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 57789999999953
No 452
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=29.48 E-value=26 Score=37.34 Aligned_cols=43 Identities=28% Similarity=0.393 Sum_probs=30.7
Q ss_pred EEEeeccCCCCcceEe--------------ecCC---CCcchhHHHHHHHHhhccccCce
Q 035971 98 TIVACGAKGSGKTRVI--------------QGSY---EEPGLAALAVDEILSISEKMGKS 140 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm--------------~G~~---~~~GLipral~~LF~~~~~~~~s 140 (614)
.|+.||..|+|||..- .|+. ...|==|+.+++||+..++..-+
T Consensus 221 GVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvRqlF~vA~e~apS 280 (440)
T KOG0726|consen 221 GVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPS 280 (440)
T ss_pred eeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHHHHHHHHHhcCCc
Confidence 4899999999998542 1221 23466689999999998865543
No 453
>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=29.40 E-value=18 Score=38.62 Aligned_cols=18 Identities=39% Similarity=0.848 Sum_probs=15.2
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
..+|+-.|.||||||+.|
T Consensus 143 ~~siii~G~t~sGKTt~l 160 (312)
T COG0630 143 RKSIIICGGTASGKTTLL 160 (312)
T ss_pred CCcEEEECCCCCCHHHHH
Confidence 456788899999999877
No 454
>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=29.33 E-value=27 Score=30.46 Aligned_cols=15 Identities=53% Similarity=0.798 Sum_probs=12.3
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
|+..|..|+|||..+
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 678899999999543
No 455
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=29.32 E-value=70 Score=30.64 Aligned_cols=40 Identities=30% Similarity=0.365 Sum_probs=26.4
Q ss_pred HhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQIKGM 604 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~~~~~ 604 (614)
-.|..|+|||+.+|.+|++-=.-+ |...+.|| +.+++..+
T Consensus 25 ~aLt~IyGIG~~~a~~Ic~~lgi~--~~~~~~~L-----t~~qi~~l 64 (149)
T PRK04053 25 YALTGIKGIGRRTARAIARKLGLD--PNAKLGYL-----SDEEIEKI 64 (149)
T ss_pred eeccccccccHHHHHHHHHHcCcC--CCCccCcC-----CHHHHHHH
Confidence 458889999999999997654333 34444444 55554444
No 456
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=29.32 E-value=53 Score=31.64 Aligned_cols=21 Identities=29% Similarity=0.385 Sum_probs=18.2
Q ss_pred HhhccCCCCCHHHHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYILELR 578 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii~~R 578 (614)
-.|..|+|||..+|.+|++-=
T Consensus 30 ~aLt~I~GIG~~~A~~I~~~l 50 (154)
T PTZ00134 30 YALTAIKGIGRRFAYLVCKKA 50 (154)
T ss_pred EeecccccccHHHHHHHHHHc
Confidence 458899999999999999754
No 457
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=29.29 E-value=29 Score=41.07 Aligned_cols=42 Identities=14% Similarity=0.214 Sum_probs=26.4
Q ss_pred eEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcce
Q 035971 64 YKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTR 111 (614)
Q Consensus 64 F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTy 111 (614)
+.|+.+++....-..+.+ .+.. +...+..|+-+|.+|||||+
T Consensus 373 ~~~~~liG~S~~~~~~~~-----~~~~-~a~~~~pVLI~GE~GTGK~~ 414 (686)
T PRK15429 373 SEFGEIIGRSEAMYSVLK-----QVEM-VAQSDSTVLILGETGTGKEL 414 (686)
T ss_pred ccccceeecCHHHHHHHH-----HHHH-HhCCCCCEEEECCCCcCHHH
Confidence 456666665443333332 2222 34567789999999999985
No 458
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=29.26 E-value=39 Score=39.31 Aligned_cols=26 Identities=38% Similarity=0.563 Sum_probs=23.1
Q ss_pred hccCCHHhhccCCCCCHHHHHHHHHH
Q 035971 552 LNTGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 552 lN~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
|=.|+.++|..+||||+++|++|.++
T Consensus 551 I~~As~eeL~~vpGi~~~~A~~I~~~ 576 (577)
T PRK14668 551 VREASVEDLRDVPGVGEKTAETIRER 576 (577)
T ss_pred HHhCCHHHHHhCCCCCHHHHHHHHHh
Confidence 33699999999999999999999765
No 459
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.17 E-value=27 Score=41.23 Aligned_cols=41 Identities=24% Similarity=0.361 Sum_probs=25.5
Q ss_pred EeeeeecCCCChHHHHhhhhHHHHHHHhcCC-ceEEEeeccCCCCcceEe
Q 035971 65 KLDYCYEQNEGNGIIFAREVKPLISEVFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 65 ~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
+||.|++++ .+ ++.+...+-.|. ...++-||+.|+|||.+.
T Consensus 13 tFddVIGQe----~v----v~~L~~aI~~grl~HAyLF~GPpGvGKTTlA 54 (702)
T PRK14960 13 NFNELVGQN----HV----SRALSSALERGRLHHAYLFTGTRGVGKTTIA 54 (702)
T ss_pred CHHHhcCcH----HH----HHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 367777643 22 333333333454 457899999999999654
No 460
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=29.13 E-value=29 Score=38.98 Aligned_cols=41 Identities=20% Similarity=0.252 Sum_probs=25.6
Q ss_pred EeeeeecCCCChHHHHhhhhHHHHHHHhcCCc-eEEEeeccCCCCcceEe
Q 035971 65 KLDYCYEQNEGNGIIFAREVKPLISEVFNGIN-ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 65 ~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N-~tI~aYGqTGSGKTyTm 113 (614)
.||.|++++ .+ +..+...+-.|.- .+++-||+.|+|||.+.
T Consensus 15 ~~~diiGq~----~~----v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A 56 (451)
T PRK06305 15 TFSEILGQD----AV----VAVLKNALRFNRAAHAYLFSGIRGTGKTTLA 56 (451)
T ss_pred CHHHhcCcH----HH----HHHHHHHHHcCCCceEEEEEcCCCCCHHHHH
Confidence 467777643 22 3333334444543 46778999999999664
No 461
>PRK05580 primosome assembly protein PriA; Validated
Probab=29.07 E-value=34 Score=40.53 Aligned_cols=19 Identities=37% Similarity=0.455 Sum_probs=15.3
Q ss_pred ceEEEeeccCCCCcceEee
Q 035971 96 NATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm~ 114 (614)
...++.+|+||||||...+
T Consensus 162 ~~~~Ll~~~TGSGKT~v~l 180 (679)
T PRK05580 162 FSPFLLDGVTGSGKTEVYL 180 (679)
T ss_pred CCcEEEECCCCChHHHHHH
Confidence 3458999999999997653
No 462
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=29.00 E-value=42 Score=40.36 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=15.4
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
.+.++-+|++|+|||++.
T Consensus 488 ~~~~Lf~GP~GvGKT~lA 505 (758)
T PRK11034 488 VGSFLFAGPTGVGKTEVT 505 (758)
T ss_pred cceEEEECCCCCCHHHHH
Confidence 367999999999999764
No 463
>PHA01747 putative ATP-dependent protease
Probab=28.98 E-value=24 Score=38.74 Aligned_cols=31 Identities=23% Similarity=0.416 Sum_probs=25.2
Q ss_pred hhHHHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 83 EVKPLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 83 ~v~plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
-+-|+|+.-..+.|.-++=.|+.||||||+.
T Consensus 177 RLiPlVE~~~~~~NyNliELgPRGTGKS~~f 207 (425)
T PHA01747 177 RLLPLFTSPVSKRPVHIIELSNRGTGKTTTF 207 (425)
T ss_pred hhhhheeccCCCCCeeEEEecCCCCChhhHH
Confidence 3557777666788888999999999999875
No 464
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=28.93 E-value=26 Score=40.93 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=18.9
Q ss_pred HHHHHhcCC-ceEEEeeccCCCCcceEe
Q 035971 87 LISEVFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 87 lV~~vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
+...+-.|. .-.++-||+.|+|||.+.
T Consensus 36 L~~~~~~gri~ha~L~~Gp~GvGKTt~A 63 (598)
T PRK09111 36 LTNAFETGRIAQAFMLTGVRGVGKTTTA 63 (598)
T ss_pred HHHHHHcCCCCceEEEECCCCCCHHHHH
Confidence 333334554 347889999999999774
No 465
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=28.86 E-value=39 Score=39.38 Aligned_cols=20 Identities=10% Similarity=0.346 Sum_probs=16.3
Q ss_pred cCCHHhhccCCCCCHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASY 573 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~ 573 (614)
-++.++|..|+|||++++++
T Consensus 571 P~t~~~l~~i~Gvg~~K~~~ 590 (607)
T PRK11057 571 PITASEMLSVNGVGQRKLER 590 (607)
T ss_pred CCCHHHHcCCCCCCHHHHHH
Confidence 44889999999999888764
No 466
>PRK06762 hypothetical protein; Provisional
Probab=28.75 E-value=27 Score=32.82 Aligned_cols=14 Identities=50% Similarity=0.717 Sum_probs=11.9
Q ss_pred EEEeeccCCCCcce
Q 035971 98 TIVACGAKGSGKTR 111 (614)
Q Consensus 98 tI~aYGqTGSGKTy 111 (614)
.|+..|..|||||+
T Consensus 4 li~i~G~~GsGKST 17 (166)
T PRK06762 4 LIIIRGNSGSGKTT 17 (166)
T ss_pred EEEEECCCCCCHHH
Confidence 56778999999984
No 467
>CHL00176 ftsH cell division protein; Validated
Probab=28.65 E-value=25 Score=41.41 Aligned_cols=17 Identities=29% Similarity=0.544 Sum_probs=14.5
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..|+-||++|+|||+..
T Consensus 217 ~gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLA 233 (638)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 35899999999999764
No 468
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=28.63 E-value=19 Score=36.73 Aligned_cols=15 Identities=33% Similarity=0.753 Sum_probs=12.4
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
+.-.|++|||||+.|
T Consensus 34 vaI~GpSGSGKSTLL 48 (226)
T COG1136 34 VAIVGPSGSGKSTLL 48 (226)
T ss_pred EEEECCCCCCHHHHH
Confidence 566799999999665
No 469
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=28.40 E-value=41 Score=37.54 Aligned_cols=18 Identities=33% Similarity=0.567 Sum_probs=15.8
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
.-++.+|+||||||.++.
T Consensus 45 ~h~lvig~tgSGKt~~~v 62 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFV 62 (469)
T ss_pred eEEEEEeCCCCCccceee
Confidence 568999999999998873
No 470
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=28.32 E-value=42 Score=39.35 Aligned_cols=19 Identities=37% Similarity=0.420 Sum_probs=15.0
Q ss_pred CceEEEeeccCCCCcceEe
Q 035971 95 INATIVACGAKGSGKTRVI 113 (614)
Q Consensus 95 ~N~tI~aYGqTGSGKTyTm 113 (614)
...-.+..|+||||||...
T Consensus 255 ~~~~~Ll~g~TGSGKT~va 273 (630)
T TIGR00643 255 VPMNRLLQGDVGSGKTLVA 273 (630)
T ss_pred CCccEEEECCCCCcHHHHH
Confidence 3345799999999999754
No 471
>cd01379 MYSc_type_III Myosin motor domain, type III myosins. Myosin III has been shown to play a role in the vision process in insects and in hearing in mammals. Myosin III, 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 piconewtons of force. Upon ATP binding, the
Probab=28.28 E-value=39 Score=39.85 Aligned_cols=36 Identities=31% Similarity=0.371 Sum_probs=25.4
Q ss_pred HHHHhhhhHHHHHHHh-cCCceEEEeeccCCCCcceEe
Q 035971 77 GIIFAREVKPLISEVF-NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 77 ~eVf~~~v~plV~~vl-~G~N~tI~aYGqTGSGKTyTm 113 (614)
..+|. +.......++ .+.|-||+.-|.+|||||.+.
T Consensus 67 PHifa-vA~~Ay~~m~~~~~~QsIiisGESGsGKTet~ 103 (653)
T cd01379 67 PHIFA-IADAAYQSLVTYNQDQCIVISGESGSGKTESA 103 (653)
T ss_pred CcHHH-HHHHHHHHHHhcCCCceEEEecCCCCCchHHH
Confidence 34664 3333333333 589999999999999999885
No 472
>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=28.27 E-value=20 Score=31.81 Aligned_cols=16 Identities=31% Similarity=0.574 Sum_probs=13.1
Q ss_pred EEEeeccCCCCcceEe
Q 035971 98 TIVACGAKGSGKTRVI 113 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm 113 (614)
-|..+|.+|||||..+
T Consensus 3 ki~~~G~~~~GKstl~ 18 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLL 18 (161)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3678899999999654
No 473
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=27.97 E-value=39 Score=35.93 Aligned_cols=23 Identities=30% Similarity=0.556 Sum_probs=17.0
Q ss_pred HhcCC-ceEEEeeccCCCCcceEe
Q 035971 91 VFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 91 vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
+-.|. ...++-||+.|+|||.+.
T Consensus 30 ~~~~~~~~~~Ll~G~~G~GKt~~a 53 (355)
T TIGR02397 30 IKNGRIAHAYLFSGPRGTGKTSIA 53 (355)
T ss_pred HHcCCCCeEEEEECCCCCCHHHHH
Confidence 33443 457899999999999654
No 474
>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=27.86 E-value=43 Score=38.75 Aligned_cols=26 Identities=27% Similarity=0.478 Sum_probs=19.6
Q ss_pred HHHHHHhcCCceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~N~tI~aYGqTGSGKTyTm 113 (614)
.++..+++|.|+ ++..+||+|||.+.
T Consensus 20 ~~i~~il~g~dv--lv~~PTG~GKTl~y 45 (591)
T TIGR01389 20 EIISHVLDGRDV--LVVMPTGGGKSLCY 45 (591)
T ss_pred HHHHHHHcCCCE--EEEcCCCccHhHHH
Confidence 344577889874 56679999999874
No 475
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=27.79 E-value=60 Score=34.02 Aligned_cols=72 Identities=19% Similarity=0.218 Sum_probs=43.5
Q ss_pred eeeecCCCChHHHHhhhhHHHHHHHhc---CCc--eEEEeeccCCCCcceEe--------------ecCC---CCcchhH
Q 035971 67 DYCYEQNEGNGIIFAREVKPLISEVFN---GIN--ATIVACGAKGSGKTRVI--------------QGSY---EEPGLAA 124 (614)
Q Consensus 67 D~VF~~~asQ~eVf~~~v~plV~~vl~---G~N--~tI~aYGqTGSGKTyTm--------------~G~~---~~~GLip 124 (614)
..|=+-+..-++|-+.+--|+.+.=+- |.+ -.|+.||+.|+|||-.. .|+. ..-|==|
T Consensus 155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgegp 234 (408)
T KOG0727|consen 155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEGP 234 (408)
T ss_pred cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccCc
Confidence 334444455566666555565554331 333 34899999999998432 1211 2246668
Q ss_pred HHHHHHHhhccccC
Q 035971 125 LAVDEILSISEKMG 138 (614)
Q Consensus 125 ral~~LF~~~~~~~ 138 (614)
|.++++|....+..
T Consensus 235 rmvrdvfrlakena 248 (408)
T KOG0727|consen 235 RMVRDVFRLAKENA 248 (408)
T ss_pred HHHHHHHHHHhccC
Confidence 88999998877644
No 476
>COG1813 Predicted transcription factor, homolog of eukaryotic MBF1 [Transcription]
Probab=27.67 E-value=60 Score=31.61 Aligned_cols=42 Identities=21% Similarity=0.223 Sum_probs=36.4
Q ss_pred CCCCCHHHHHHHHHHHHhCCCCCCCHHhhhh-cCCCHHHHHHHHHH
Q 035971 563 LKGIGEKRASYILELREESPEPFKNLDDLKD-IGLSAKQIKGMMKK 607 (614)
Q Consensus 563 l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~-~gl~~~~~~~~~~~ 607 (614)
++-|.+..+++|-+.|++.|= |-+||.+ +++....|.+|=.+
T Consensus 73 ~~elvedY~e~Ir~ARE~~G~---SqedLA~ki~ek~svI~~iE~g 115 (165)
T COG1813 73 LPELVEDYGERIREAREKRGL---SQEDLAAKLKEKVSVIRRIERG 115 (165)
T ss_pred HHHHHHHHHHHHHHHHHHcCC---CHHHHHHHhcccHHHHHHHHhc
Confidence 556889999999999999954 9999999 99999999887543
No 477
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=27.66 E-value=28 Score=32.00 Aligned_cols=20 Identities=20% Similarity=0.459 Sum_probs=15.9
Q ss_pred cCCceEEEeeccCCCCcceE
Q 035971 93 NGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyT 112 (614)
...+..|+-+|..||||++.
T Consensus 18 a~~~~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 18 AKSSSPVLITGEPGTGKSLL 37 (138)
T ss_dssp HCSSS-EEEECCTTSSHHHH
T ss_pred hCCCCcEEEEcCCCCCHHHH
Confidence 36677889999999999864
No 478
>PRK10867 signal recognition particle protein; Provisional
Probab=27.45 E-value=55 Score=36.72 Aligned_cols=60 Identities=15% Similarity=0.161 Sum_probs=35.6
Q ss_pred hhhHHHHHhhhccCCHHhhccCCCCCHHHHHHHHHHHHhCCCCCCCHHhhhhcCCCHHHHHHHHHH
Q 035971 542 NSLVQEYLKLLNTGGKEDLKRLKGIGEKRASYILELREESPEPFKNLDDLKDIGLSAKQIKGMMKK 607 (614)
Q Consensus 542 ~~l~~~~~~~lN~A~~~~L~~l~gig~~~A~~Ii~~R~~~gg~f~~~~dL~~~gl~~~~~~~~~~~ 607 (614)
..-++.+...||+-|.+|+..-.=|...+-++| ..|. =.+++|+.+.=-..++++++|++
T Consensus 365 ~~~~~~~~~ii~SMt~~Er~~p~~~~~sR~~RI-----a~Gs-G~~~~~v~~ll~~~~~~~~~~~~ 424 (433)
T PRK10867 365 DKELKRIEAIINSMTPKERANPDILNGSRKRRI-----AKGS-GTTVQEVNRLLKQFEQMKKMMKK 424 (433)
T ss_pred HHHHHHHHHHHHcCCHHHHhCccccchHHHHHH-----HccC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 356777888899999999986555555555544 3332 24555554422234455555544
No 479
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.35 E-value=30 Score=40.48 Aligned_cols=41 Identities=17% Similarity=0.228 Sum_probs=25.1
Q ss_pred EeeeeecCCCChHHHHhhhhHHHHHHHhcCC-ceEEEeeccCCCCcceEe
Q 035971 65 KLDYCYEQNEGNGIIFAREVKPLISEVFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 65 ~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
.||.|++ |+.+.+ -+...+-.|. ...++-||+.|+|||++.
T Consensus 14 ~f~dviG----Qe~vv~----~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlA 55 (618)
T PRK14951 14 SFSEMVG----QEHVVQ----ALTNALTQQRLHHAYLFTGTRGVGKTTVS 55 (618)
T ss_pred CHHHhcC----cHHHHH----HHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3677775 344433 2222233343 346789999999999875
No 480
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=27.30 E-value=32 Score=35.17 Aligned_cols=38 Identities=24% Similarity=0.330 Sum_probs=22.2
Q ss_pred EEEeeccCCCCcceEee------cCC-----CCcchhHHHHHHHHhhcc
Q 035971 98 TIVACGAKGSGKTRVIQ------GSY-----EEPGLAALAVDEILSISE 135 (614)
Q Consensus 98 tI~aYGqTGSGKTyTm~------G~~-----~~~GLipral~~LF~~~~ 135 (614)
+-..+|++|+|||.|+- |-. -.+++=...+..||.-+.
T Consensus 34 ~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~ 82 (231)
T PF12774_consen 34 GGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLA 82 (231)
T ss_dssp EEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHH
T ss_pred CCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHh
Confidence 33569999999999963 311 233444555555555444
No 481
>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=27.26 E-value=21 Score=34.75 Aligned_cols=15 Identities=53% Similarity=0.691 Sum_probs=12.1
Q ss_pred EEeeccCCCCcceEe
Q 035971 99 IVACGAKGSGKTRVI 113 (614)
Q Consensus 99 I~aYGqTGSGKTyTm 113 (614)
|.--|++|||||+++
T Consensus 2 igi~G~~GsGKSTl~ 16 (198)
T cd02023 2 IGIAGGSGSGKTTVA 16 (198)
T ss_pred EEEECCCCCCHHHHH
Confidence 456799999999765
No 482
>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=27.16 E-value=27 Score=36.52 Aligned_cols=18 Identities=39% Similarity=0.584 Sum_probs=14.5
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
..+|...|++|+|||.|.
T Consensus 72 ~~vi~l~G~~G~GKTTt~ 89 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTI 89 (272)
T ss_pred CeEEEEECCCCCcHHHHH
Confidence 346666699999999886
No 483
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=27.16 E-value=43 Score=36.11 Aligned_cols=28 Identities=29% Similarity=0.589 Sum_probs=19.2
Q ss_pred HHHHHHhcCC-ceEEEeeccCCCCcceEe
Q 035971 86 PLISEVFNGI-NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 86 plV~~vl~G~-N~tI~aYGqTGSGKTyTm 113 (614)
.+...+-.|. ...++-||+.|+|||++.
T Consensus 28 ~l~~~i~~~~~~~~~L~~G~~G~GKt~~a 56 (367)
T PRK14970 28 TLLNAIENNHLAQALLFCGPRGVGKTTCA 56 (367)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 3333444554 447888999999999664
No 484
>KOG2875 consensus 8-oxoguanine DNA glycosylase [Replication, recombination and repair]
Probab=27.13 E-value=33 Score=36.06 Aligned_cols=18 Identities=44% Similarity=0.549 Sum_probs=16.0
Q ss_pred HhhccCCCCCHHHHHHHH
Q 035971 558 EDLKRLKGIGEKRASYIL 575 (614)
Q Consensus 558 ~~L~~l~gig~~~A~~Ii 575 (614)
+.|+.|||||+|.|+=|.
T Consensus 218 ~~L~~lpGVG~KVADCI~ 235 (323)
T KOG2875|consen 218 EALCSLPGVGPKVADCIC 235 (323)
T ss_pred HHHhcCCCCcchHhhhhh
Confidence 568999999999999875
No 485
>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=26.92 E-value=27 Score=39.98 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=13.0
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|+-||++|+|||+.
T Consensus 218 GILLyGPPGTGKT~L 232 (512)
T TIGR03689 218 GVLLYGPPGCGKTLI 232 (512)
T ss_pred ceEEECCCCCcHHHH
Confidence 488999999999954
No 486
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=26.78 E-value=23 Score=39.41 Aligned_cols=17 Identities=41% Similarity=0.620 Sum_probs=15.2
Q ss_pred eEEEeeccCCCCcceEe
Q 035971 97 ATIVACGAKGSGKTRVI 113 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm 113 (614)
..|+..|++|+|||+|+
T Consensus 242 ~vI~LVGptGvGKTTTi 258 (436)
T PRK11889 242 QTIALIGPTGVGKTTTL 258 (436)
T ss_pred cEEEEECCCCCcHHHHH
Confidence 57889999999999887
No 487
>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=26.74 E-value=27 Score=34.08 Aligned_cols=14 Identities=50% Similarity=0.717 Sum_probs=11.6
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|.-.|++|||||+.
T Consensus 2 IgI~G~sgSGKTTl 15 (194)
T PF00485_consen 2 IGIAGPSGSGKTTL 15 (194)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 56679999999964
No 488
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=26.67 E-value=51 Score=34.96 Aligned_cols=29 Identities=28% Similarity=0.363 Sum_probs=21.5
Q ss_pred hHHHHHHHhcCC---ceEEEeeccCCCCcceE
Q 035971 84 VKPLISEVFNGI---NATIVACGAKGSGKTRV 112 (614)
Q Consensus 84 v~plV~~vl~G~---N~tI~aYGqTGSGKTyT 112 (614)
..+-++.++.|- ...+.-||++|||||..
T Consensus 87 g~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l 118 (317)
T PRK04301 87 GSKELDELLGGGIETQSITEFYGEFGSGKTQI 118 (317)
T ss_pred CCHHHHHHhcCCccCCcEEEEECCCCCCHhHH
Confidence 445667777653 56688899999999954
No 489
>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=26.66 E-value=29 Score=32.46 Aligned_cols=15 Identities=53% Similarity=0.740 Sum_probs=12.5
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|..+|+.|||||+.
T Consensus 2 iI~i~G~~GSGKsti 16 (171)
T TIGR02173 2 IITISGPPGSGKTTV 16 (171)
T ss_pred EEEEECCCCCCHHHH
Confidence 478899999999854
No 490
>PRK03839 putative kinase; Provisional
Probab=26.66 E-value=29 Score=33.27 Aligned_cols=14 Identities=50% Similarity=0.726 Sum_probs=11.9
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+-.|..|||||+.
T Consensus 3 I~l~G~pGsGKsT~ 16 (180)
T PRK03839 3 IAITGTPGVGKTTV 16 (180)
T ss_pred EEEECCCCCCHHHH
Confidence 67889999999853
No 491
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=26.57 E-value=42 Score=38.36 Aligned_cols=45 Identities=11% Similarity=0.174 Sum_probs=29.6
Q ss_pred eeeEeeeeecCCCChHHHHhhhhHHHHHHHhcCCceEEEeeccCCCCcceE
Q 035971 62 ECYKLDYCYEQNEGNGIIFAREVKPLISEVFNGINATIVACGAKGSGKTRV 112 (614)
Q Consensus 62 ~~F~FD~VF~~~asQ~eVf~~~v~plV~~vl~G~N~tI~aYGqTGSGKTyT 112 (614)
..+.||.+++.+..-..+.+ .+.. +...+..|+-+|.+||||++.
T Consensus 199 ~~~~f~~~ig~s~~~~~~~~-----~~~~-~A~~~~pvlI~GE~GtGK~~l 243 (520)
T PRK10820 199 DDSAFSQIVAVSPKMRQVVE-----QARK-LAMLDAPLLITGDTGTGKDLL 243 (520)
T ss_pred ccccccceeECCHHHHHHHH-----HHHH-HhCCCCCEEEECCCCccHHHH
Confidence 45789998886644333333 1222 234577899999999999843
No 492
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=26.55 E-value=27 Score=40.68 Aligned_cols=18 Identities=28% Similarity=0.543 Sum_probs=15.2
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
.-+++-||+.|+|||.++
T Consensus 38 ~hA~Lf~GP~GvGKTTlA 55 (605)
T PRK05896 38 THAYIFSGPRGIGKTSIA 55 (605)
T ss_pred CceEEEECCCCCCHHHHH
Confidence 447899999999999765
No 493
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=26.49 E-value=24 Score=38.99 Aligned_cols=18 Identities=33% Similarity=0.464 Sum_probs=15.2
Q ss_pred eEEEeeccCCCCcceEee
Q 035971 97 ATIVACGAKGSGKTRVIQ 114 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyTm~ 114 (614)
-.++..|++|+|||+|+.
T Consensus 207 ~ii~lvGptGvGKTTt~a 224 (407)
T PRK12726 207 RIISLIGQTGVGKTTTLV 224 (407)
T ss_pred eEEEEECCCCCCHHHHHH
Confidence 457889999999998873
No 494
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=26.35 E-value=32 Score=32.67 Aligned_cols=15 Identities=40% Similarity=0.687 Sum_probs=12.6
Q ss_pred EEEeeccCCCCcceE
Q 035971 98 TIVACGAKGSGKTRV 112 (614)
Q Consensus 98 tI~aYGqTGSGKTyT 112 (614)
.|+..|++|||||..
T Consensus 3 ii~l~G~~GsGKsTl 17 (180)
T TIGR03263 3 LIVISGPSGVGKSTL 17 (180)
T ss_pred EEEEECCCCCCHHHH
Confidence 578899999999953
No 495
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=26.22 E-value=50 Score=31.51 Aligned_cols=24 Identities=29% Similarity=0.475 Sum_probs=20.9
Q ss_pred cCCHHhhccCCCCCHHHHHHHHHH
Q 035971 554 TGGKEDLKRLKGIGEKRASYILEL 577 (614)
Q Consensus 554 ~A~~~~L~~l~gig~~~A~~Ii~~ 577 (614)
=.+.+||..++|||+++-+++..|
T Consensus 123 f~sv~dL~~v~GiG~~~~ekl~~~ 146 (149)
T COG1555 123 FKSVDDLAKVKGIGPKTLEKLKDY 146 (149)
T ss_pred CCcHHHHHhccCCCHHHHHHHHhh
Confidence 368899999999999999988665
No 496
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=26.15 E-value=30 Score=34.20 Aligned_cols=14 Identities=43% Similarity=0.610 Sum_probs=11.8
Q ss_pred EEeeccCCCCcceE
Q 035971 99 IVACGAKGSGKTRV 112 (614)
Q Consensus 99 I~aYGqTGSGKTyT 112 (614)
|+.+|+.|||||+.
T Consensus 2 I~i~G~pGsGKsT~ 15 (210)
T TIGR01351 2 LVLLGPPGSGKGTQ 15 (210)
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999853
No 497
>PTZ00014 myosin-A; Provisional
Probab=26.13 E-value=51 Score=39.98 Aligned_cols=21 Identities=33% Similarity=0.504 Sum_probs=19.0
Q ss_pred cCCceEEEeeccCCCCcceEe
Q 035971 93 NGINATIVACGAKGSGKTRVI 113 (614)
Q Consensus 93 ~G~N~tI~aYGqTGSGKTyTm 113 (614)
.+.|.||+.-|.+|||||.+.
T Consensus 180 ~~~~QsIiiSGESGAGKTe~t 200 (821)
T PTZ00014 180 VKKSQTIIVSGESGAGKTEAT 200 (821)
T ss_pred cCCCceEEEEcCCCCCchHHH
Confidence 589999999999999999663
No 498
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=26.08 E-value=49 Score=31.70 Aligned_cols=27 Identities=30% Similarity=0.457 Sum_probs=21.4
Q ss_pred HHHHHHhc-CCceEEEeeccCCCCcceE
Q 035971 86 PLISEVFN-GINATIVACGAKGSGKTRV 112 (614)
Q Consensus 86 plV~~vl~-G~N~tI~aYGqTGSGKTyT 112 (614)
.++..++. .....|+..|..|||||..
T Consensus 3 ~~~~~~~~~~~~~~ililGl~~sGKTtl 30 (175)
T PF00025_consen 3 SVLSKLKSKKKEIKILILGLDGSGKTTL 30 (175)
T ss_dssp HHHHHCTTTTSEEEEEEEESTTSSHHHH
T ss_pred HHHHHhcccCcEEEEEEECCCccchHHH
Confidence 45666665 7788899999999999953
No 499
>PRK14527 adenylate kinase; Provisional
Probab=26.08 E-value=33 Score=33.34 Aligned_cols=16 Identities=25% Similarity=0.480 Sum_probs=13.6
Q ss_pred eEEEeeccCCCCcceE
Q 035971 97 ATIVACGAKGSGKTRV 112 (614)
Q Consensus 97 ~tI~aYGqTGSGKTyT 112 (614)
..|+.+|++|||||+.
T Consensus 7 ~~i~i~G~pGsGKsT~ 22 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQ 22 (191)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4689999999999864
No 500
>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=26.08 E-value=23 Score=42.46 Aligned_cols=18 Identities=33% Similarity=0.591 Sum_probs=15.2
Q ss_pred ceEEEeeccCCCCcceEe
Q 035971 96 NATIVACGAKGSGKTRVI 113 (614)
Q Consensus 96 N~tI~aYGqTGSGKTyTm 113 (614)
|.-++..|.||||||++|
T Consensus 430 n~n~~I~G~tGsGKS~~~ 447 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFM 447 (797)
T ss_pred ccceEEEcCCCCCHHHHH
Confidence 445688899999999987
Done!