Query 005372
Match_columns 699
No_of_seqs 452 out of 3097
Neff 5.9
Searched_HMMs 46136
Date Thu Mar 28 22:25:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005372.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005372hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4280 Kinesin-like protein [ 100.0 5.9E-81 1.3E-85 695.9 25.9 341 24-384 3-361 (574)
2 KOG0245 Kinesin-like protein [ 100.0 3.2E-81 7E-86 711.1 21.0 353 25-397 3-386 (1221)
3 KOG0243 Kinesin-like protein [ 100.0 1.7E-80 3.7E-85 717.6 27.2 333 22-363 45-402 (1041)
4 cd01370 KISc_KIP3_like Kinesin 100.0 2.5E-76 5.4E-81 637.3 34.5 321 27-351 1-338 (338)
5 cd01373 KISc_KLP2_like Kinesin 100.0 1.4E-75 3E-80 631.3 34.5 311 26-351 1-337 (337)
6 PLN03188 kinesin-12 family pro 100.0 3.4E-75 7.4E-80 679.0 35.0 316 25-361 97-444 (1320)
7 cd01368 KISc_KIF23_like Kinesi 100.0 6.7E-75 1.5E-79 627.7 34.0 312 26-349 1-345 (345)
8 KOG0242 Kinesin-like protein [ 100.0 3.8E-75 8.2E-80 670.3 26.5 345 24-380 4-363 (675)
9 cd01365 KISc_KIF1A_KIF1B Kines 100.0 2.2E-73 4.8E-78 618.3 36.3 320 26-357 1-355 (356)
10 KOG0240 Kinesin (SMY1 subfamil 100.0 1.7E-74 3.8E-79 629.5 24.4 324 24-361 5-341 (607)
11 cd01367 KISc_KIF2_like Kinesin 100.0 3.3E-73 7.1E-78 609.3 32.4 309 26-349 1-322 (322)
12 cd01376 KISc_KID_like Kinesin 100.0 1E-72 2.2E-77 604.7 35.5 311 27-349 1-319 (319)
13 cd01364 KISc_BimC_Eg5 Kinesin 100.0 1.7E-72 3.6E-77 610.4 35.9 323 26-359 2-351 (352)
14 cd01371 KISc_KIF3 Kinesin moto 100.0 3.8E-72 8.3E-77 603.6 35.8 315 26-351 1-333 (333)
15 cd01374 KISc_CENP_E Kinesin mo 100.0 3.2E-71 7E-76 593.4 34.5 310 27-351 1-321 (321)
16 cd01369 KISc_KHC_KIF5 Kinesin 100.0 3.7E-71 7.9E-76 593.8 33.8 311 26-351 2-325 (325)
17 cd01372 KISc_KIF4 Kinesin moto 100.0 4.4E-71 9.6E-76 596.7 34.2 310 27-352 2-341 (341)
18 cd01366 KISc_C_terminal Kinesi 100.0 2.3E-69 5.1E-74 580.6 36.7 315 25-353 1-328 (329)
19 KOG0241 Kinesin-like protein [ 100.0 4.2E-71 9.2E-76 617.6 23.6 327 25-361 3-361 (1714)
20 cd01375 KISc_KIF9_like Kinesin 100.0 3.3E-69 7.1E-74 581.0 33.9 308 27-349 1-334 (334)
21 smart00129 KISc Kinesin motor, 100.0 1.2E-67 2.6E-72 568.3 37.0 320 27-356 1-333 (335)
22 cd00106 KISc Kinesin motor dom 100.0 1E-66 2.2E-71 559.0 36.0 310 27-349 1-328 (328)
23 KOG0239 Kinesin (KAR3 subfamil 100.0 2.2E-68 4.7E-73 612.5 23.4 320 24-355 312-644 (670)
24 PF00225 Kinesin: Kinesin moto 100.0 4.5E-67 9.8E-72 563.3 25.8 311 33-351 1-335 (335)
25 KOG0246 Kinesin-like protein [ 100.0 2.8E-66 6E-71 563.3 26.8 323 21-353 203-543 (676)
26 KOG0247 Kinesin-like protein [ 100.0 2.9E-62 6.2E-67 544.8 19.6 331 19-356 24-441 (809)
27 KOG0244 Kinesin-like protein [ 100.0 6.5E-60 1.4E-64 539.4 6.4 310 34-360 1-326 (913)
28 COG5059 KIP1 Kinesin-like prot 100.0 4.3E-56 9.2E-61 507.3 27.7 279 79-359 55-344 (568)
29 cd01363 Motor_domain Myosin an 100.0 3.4E-47 7.3E-52 378.0 18.3 174 98-332 8-186 (186)
30 COG1555 ComEA DNA uptake prote 99.5 5.3E-15 1.2E-19 142.5 6.3 62 582-643 85-148 (149)
31 PF12836 HHH_3: Helix-hairpin- 99.5 2.8E-14 6.1E-19 118.9 4.5 61 583-643 3-65 (65)
32 TIGR01259 comE comEA protein. 99.3 1.5E-12 3.3E-17 121.3 6.5 62 583-644 57-120 (120)
33 TIGR00426 competence protein C 99.2 2.9E-11 6.3E-16 101.7 6.4 61 583-643 5-68 (69)
34 PRK02515 psbU photosystem II c 99.0 2.3E-10 5E-15 106.6 5.5 61 582-645 49-113 (132)
35 COG1491 Predicted RNA-binding 98.4 1.4E-07 3.1E-12 92.4 2.5 80 570-649 101-186 (202)
36 PF04919 DUF655: Protein of un 98.3 2E-07 4.3E-12 91.8 1.6 67 582-649 99-172 (181)
37 PF00633 HHH: Helix-hairpin-he 97.8 1.7E-05 3.6E-10 56.4 2.4 27 587-613 4-30 (30)
38 PF14579 HHH_6: Helix-hairpin- 97.3 0.00058 1.3E-08 60.6 6.1 51 596-649 29-81 (90)
39 COG4277 Predicted DNA-binding 97.0 0.00037 8E-09 73.6 3.0 53 582-635 318-370 (404)
40 COG2183 Tex Transcriptional ac 96.9 0.00072 1.6E-08 79.6 4.3 64 579-642 494-559 (780)
41 COG5059 KIP1 Kinesin-like prot 96.9 5.3E-06 1.1E-10 96.3 -13.6 205 79-297 352-566 (568)
42 PF14520 HHH_5: Helix-hairpin- 96.7 0.0024 5.2E-08 52.3 4.6 45 593-641 4-57 (60)
43 COG1031 Uncharacterized Fe-S o 96.7 0.0013 2.7E-08 73.2 3.3 43 583-628 505-547 (560)
44 PF06514 PsbU: Photosystem II 96.6 0.00097 2.1E-08 59.2 1.9 54 584-640 13-67 (93)
45 cd00141 NT_POLXc Nucleotidyltr 96.3 0.0039 8.5E-08 67.4 4.7 63 586-649 37-111 (307)
46 PF03934 T2SK: Type II secreti 96.0 0.0026 5.6E-08 67.6 1.4 62 583-644 182-246 (280)
47 COG2176 PolC DNA polymerase II 95.8 0.011 2.4E-07 72.1 5.2 51 597-647 1384-1435(1444)
48 PRK00116 ruvA Holliday junctio 94.9 0.027 5.9E-07 56.9 4.3 54 593-646 72-132 (192)
49 TIGR01405 polC_Gram_pos DNA po 94.6 0.045 9.7E-07 69.0 5.8 61 583-643 1128-1200(1213)
50 smart00278 HhH1 Helix-hairpin- 94.2 0.035 7.5E-07 38.0 2.2 21 594-614 1-21 (26)
51 PRK07373 DNA polymerase III su 94.1 0.06 1.3E-06 61.2 5.0 52 595-649 115-171 (449)
52 PRK00448 polC DNA polymerase I 94.1 0.065 1.4E-06 68.5 5.7 63 583-645 1351-1425(1437)
53 PRK12766 50S ribosomal protein 93.8 0.048 1E-06 56.4 3.2 47 593-643 2-57 (232)
54 PRK14605 ruvA Holliday junctio 93.8 0.095 2.1E-06 53.2 5.3 51 593-643 72-133 (194)
55 smart00483 POLXc DNA polymeras 93.7 0.062 1.3E-06 58.9 4.0 64 583-649 39-115 (334)
56 PRK13901 ruvA Holliday junctio 93.7 0.081 1.7E-06 53.8 4.5 47 593-639 71-124 (196)
57 PF12826 HHH_2: Helix-hairpin- 93.6 0.057 1.2E-06 45.0 2.8 30 586-615 27-56 (64)
58 COG0556 UvrB Helicase subunit 93.0 0.097 2.1E-06 59.9 4.1 87 81-173 4-101 (663)
59 PF00308 Bac_DnaA: Bacterial d 92.9 0.04 8.7E-07 56.6 1.0 49 81-133 4-52 (219)
60 KOG2534 DNA polymerase IV (fam 92.9 0.15 3.2E-06 54.9 5.2 97 568-671 32-141 (353)
61 PRK05672 dnaE2 error-prone DNA 92.6 0.15 3.3E-06 63.7 5.6 45 596-640 818-863 (1046)
62 PF12826 HHH_2: Helix-hairpin- 92.3 0.21 4.6E-06 41.5 4.4 40 597-641 6-54 (64)
63 PF14520 HHH_5: Helix-hairpin- 92.3 0.11 2.4E-06 42.4 2.7 28 586-613 30-57 (60)
64 PF10391 DNA_pol_lambd_f: Fing 91.6 0.22 4.7E-06 40.1 3.5 36 594-633 2-39 (52)
65 TIGR00084 ruvA Holliday juncti 91.2 0.24 5.3E-06 50.1 4.3 47 593-639 71-124 (191)
66 PRK06893 DNA replication initi 91.0 0.096 2.1E-06 54.1 1.2 46 81-133 12-57 (229)
67 PRK08609 hypothetical protein; 89.8 0.29 6.2E-06 57.5 3.9 51 592-642 46-108 (570)
68 PRK05673 dnaE DNA polymerase I 89.6 0.4 8.7E-06 60.5 5.2 59 582-640 798-871 (1135)
69 PRK14601 ruvA Holliday junctio 89.5 0.45 9.7E-06 48.0 4.5 46 593-638 72-124 (183)
70 PF11731 Cdd1: Pathogenicity l 89.3 0.29 6.4E-06 44.0 2.7 35 589-627 7-41 (93)
71 PRK14606 ruvA Holliday junctio 89.1 0.49 1.1E-05 47.8 4.5 45 594-638 73-124 (188)
72 PRK06826 dnaE DNA polymerase I 89.0 0.48 1E-05 59.8 5.2 57 583-639 803-874 (1151)
73 PRK14086 dnaA chromosomal repl 88.9 0.22 4.8E-06 58.6 2.1 51 80-134 283-333 (617)
74 PRK07135 dnaE DNA polymerase I 88.7 0.59 1.3E-05 58.0 5.6 65 582-649 731-810 (973)
75 PRK14602 ruvA Holliday junctio 88.6 0.56 1.2E-05 48.0 4.5 50 594-643 74-134 (203)
76 PRK06920 dnaE DNA polymerase I 88.5 0.54 1.2E-05 59.1 5.1 65 582-649 780-858 (1107)
77 TIGR00594 polc DNA-directed DN 88.3 0.56 1.2E-05 58.7 5.1 64 577-640 797-875 (1022)
78 PRK07374 dnaE DNA polymerase I 88.2 0.56 1.2E-05 59.3 5.1 59 582-640 813-886 (1170)
79 PRK06620 hypothetical protein; 88.2 0.22 4.8E-06 51.1 1.3 48 81-133 12-62 (214)
80 PRK14603 ruvA Holliday junctio 87.7 0.61 1.3E-05 47.5 4.1 50 594-643 72-132 (197)
81 PRK08609 hypothetical protein; 87.4 0.66 1.4E-05 54.5 4.8 48 592-642 86-143 (570)
82 PRK09087 hypothetical protein; 87.3 0.34 7.4E-06 50.1 2.1 46 81-133 17-62 (226)
83 COG2805 PilT Tfp pilus assembl 87.3 0.25 5.5E-06 53.2 1.1 31 103-133 113-143 (353)
84 PRK13901 ruvA Holliday junctio 87.1 0.38 8.2E-06 49.0 2.2 27 586-612 99-125 (196)
85 PRK14604 ruvA Holliday junctio 87.0 0.69 1.5E-05 47.1 4.0 46 594-639 73-125 (195)
86 PRK14667 uvrC excinuclease ABC 86.9 0.55 1.2E-05 55.1 3.7 52 591-642 511-565 (567)
87 PRK14601 ruvA Holliday junctio 86.9 0.4 8.6E-06 48.3 2.2 57 586-642 100-166 (183)
88 COG1948 MUS81 ERCC4-type nucle 86.6 0.63 1.4E-05 49.0 3.6 60 586-645 174-237 (254)
89 PF14716 HHH_8: Helix-hairpin- 86.5 0.59 1.3E-05 39.3 2.7 29 583-613 37-66 (68)
90 PRK05898 dnaE DNA polymerase I 86.4 0.82 1.8E-05 56.5 5.0 50 596-648 754-807 (971)
91 PF02371 Transposase_20: Trans 86.4 0.47 1E-05 41.7 2.2 42 594-635 2-45 (87)
92 PRK00116 ruvA Holliday junctio 86.3 0.58 1.3E-05 47.3 3.1 56 588-643 102-174 (192)
93 PRK14670 uvrC excinuclease ABC 86.3 0.6 1.3E-05 54.8 3.6 51 592-642 512-566 (574)
94 PRK14602 ruvA Holliday junctio 85.4 0.53 1.2E-05 48.1 2.3 31 586-616 101-132 (203)
95 PRK14088 dnaA chromosomal repl 85.3 0.44 9.5E-06 54.2 1.8 49 80-133 100-148 (440)
96 PRK14606 ruvA Holliday junctio 85.0 0.56 1.2E-05 47.4 2.2 57 586-642 100-167 (188)
97 PRK14666 uvrC excinuclease ABC 84.8 0.94 2E-05 54.0 4.3 53 590-642 633-689 (694)
98 PRK14604 ruvA Holliday junctio 84.7 0.59 1.3E-05 47.6 2.2 59 585-643 99-174 (195)
99 PRK14600 ruvA Holliday junctio 84.6 0.94 2E-05 45.8 3.6 46 593-639 72-124 (186)
100 PRK14603 ruvA Holliday junctio 84.3 0.62 1.4E-05 47.4 2.2 30 586-615 99-129 (197)
101 PF03934 T2SK: Type II secreti 84.0 1.3 2.7E-05 47.2 4.5 63 583-645 73-179 (280)
102 PRK05642 DNA replication initi 83.9 0.67 1.5E-05 48.1 2.3 48 81-133 15-63 (234)
103 PRK14669 uvrC excinuclease ABC 83.9 1 2.2E-05 53.5 4.0 51 592-643 550-603 (624)
104 COG1796 POL4 DNA polymerase IV 83.7 1.3 2.9E-05 48.0 4.4 47 596-642 55-113 (326)
105 COG0632 RuvA Holliday junction 83.5 1 2.3E-05 46.0 3.4 46 594-639 73-125 (201)
106 PRK00149 dnaA chromosomal repl 83.2 0.62 1.3E-05 52.9 1.9 50 80-133 117-166 (450)
107 TIGR00362 DnaA chromosomal rep 83.1 0.66 1.4E-05 51.9 2.0 51 79-133 104-154 (405)
108 PRK14672 uvrC excinuclease ABC 82.9 1.1 2.4E-05 53.3 3.8 51 593-643 607-661 (691)
109 COG2804 PulE Type II secretory 82.8 0.45 9.8E-06 54.5 0.5 29 105-133 248-276 (500)
110 PRK14600 ruvA Holliday junctio 82.8 0.69 1.5E-05 46.7 1.8 55 587-642 101-169 (186)
111 COG0632 RuvA Holliday junction 82.4 0.78 1.7E-05 46.9 2.0 60 586-645 100-183 (201)
112 PRK12377 putative replication 82.0 0.65 1.4E-05 48.9 1.3 49 82-133 71-119 (248)
113 smart00483 POLXc DNA polymeras 81.8 1.6 3.4E-05 48.0 4.3 32 593-628 88-119 (334)
114 COG0593 DnaA ATPase involved i 81.3 0.62 1.3E-05 52.4 0.9 50 80-133 82-131 (408)
115 PRK08727 hypothetical protein; 80.9 0.72 1.6E-05 47.8 1.2 44 81-133 15-59 (233)
116 PF05673 DUF815: Protein of un 80.8 1.1 2.4E-05 47.2 2.5 124 82-238 24-155 (249)
117 PRK08084 DNA replication initi 80.8 0.7 1.5E-05 47.9 1.0 46 81-133 18-63 (235)
118 PRK06526 transposase; Provisio 80.4 0.93 2E-05 47.9 1.8 21 112-134 97-117 (254)
119 PRK00558 uvrC excinuclease ABC 80.4 1.5 3.3E-05 51.8 3.8 52 591-642 540-595 (598)
120 cd00141 NT_POLXc Nucleotidyltr 80.0 1.7 3.7E-05 47.2 3.7 32 593-628 84-115 (307)
121 TIGR03420 DnaA_homol_Hda DnaA 79.9 1 2.2E-05 45.5 1.9 47 80-133 10-56 (226)
122 PRK07945 hypothetical protein; 79.5 1.6 3.4E-05 48.1 3.3 54 595-649 50-108 (335)
123 PRK10702 endonuclease III; Pro 79.4 1.4 3E-05 45.3 2.7 24 591-614 106-129 (211)
124 PF04851 ResIII: Type III rest 79.2 0.85 1.8E-05 43.7 1.0 30 105-134 14-44 (184)
125 cd00009 AAA The AAA+ (ATPases 79.0 0.94 2E-05 40.9 1.2 19 114-132 18-36 (151)
126 PRK08116 hypothetical protein; 79.0 0.79 1.7E-05 48.7 0.8 50 81-133 81-132 (268)
127 TIGR03252 uncharacterized HhH- 78.7 2.5 5.5E-05 42.4 4.1 47 593-639 114-175 (177)
128 PRK14087 dnaA chromosomal repl 78.4 1.1 2.3E-05 51.2 1.7 49 81-133 111-159 (450)
129 PRK07952 DNA replication prote 78.1 1.2 2.6E-05 46.8 1.8 50 81-133 68-117 (244)
130 PRK08903 DnaA regulatory inact 78.0 1.4 3E-05 45.0 2.2 47 81-133 14-60 (227)
131 PRK07279 dnaE DNA polymerase I 77.9 2.2 4.9E-05 53.3 4.3 41 596-639 752-796 (1034)
132 PRK00254 ski2-like helicase; P 77.5 2.5 5.4E-05 51.0 4.5 49 593-645 644-701 (720)
133 PRK14605 ruvA Holliday junctio 77.3 1.5 3.3E-05 44.5 2.2 57 587-643 101-173 (194)
134 cd00046 DEXDc DEAD-like helica 76.0 1.1 2.4E-05 40.0 0.7 17 118-134 3-19 (144)
135 TIGR00084 ruvA Holliday juncti 75.8 2 4.4E-05 43.5 2.6 23 591-613 104-126 (191)
136 PRK13482 DNA integrity scannin 75.4 4.2 9.2E-05 44.9 5.1 49 592-640 285-337 (352)
137 COG1474 CDC6 Cdc6-related prot 75.3 3.4 7.4E-05 46.0 4.4 26 107-132 33-59 (366)
138 TIGR00575 dnlj DNA ligase, NAD 75.2 2.2 4.7E-05 51.1 3.1 57 586-642 458-518 (652)
139 cd00080 HhH2_motif Helix-hairp 74.9 2.2 4.8E-05 36.6 2.3 27 596-627 24-50 (75)
140 COG0322 UvrC Nuclease subunit 74.9 3.2 6.9E-05 48.9 4.2 48 594-641 530-580 (581)
141 COG0587 DnaE DNA polymerase II 74.3 3.5 7.7E-05 52.0 4.7 65 577-641 795-874 (1139)
142 KOG1921 Endonuclease III [Repl 73.9 2.3 5E-05 44.5 2.5 24 590-613 155-178 (286)
143 TIGR00426 competence protein C 73.8 3.1 6.7E-05 34.8 2.8 22 592-613 45-66 (69)
144 PF13245 AAA_19: Part of AAA d 73.8 1.4 2.9E-05 38.0 0.7 25 108-133 4-28 (76)
145 KOG2841 Structure-specific end 73.6 2.6 5.6E-05 43.9 2.7 35 586-621 219-253 (254)
146 PRK13910 DNA glycosylase MutY; 73.2 2.7 5.8E-05 45.4 2.9 23 592-614 70-92 (289)
147 PF00633 HHH: Helix-hairpin-he 72.2 3.5 7.6E-05 29.4 2.3 21 620-640 8-29 (30)
148 PRK00076 recR recombination pr 72.2 3.1 6.6E-05 42.5 2.9 54 594-649 11-64 (196)
149 COG0177 Nth Predicted EndoIII- 71.9 2.8 6.1E-05 43.2 2.6 23 591-613 106-128 (211)
150 smart00382 AAA ATPases associa 71.8 1.6 3.4E-05 38.8 0.7 18 116-133 3-20 (148)
151 TIGR00615 recR recombination p 71.6 3.2 7E-05 42.3 2.9 54 594-649 11-64 (195)
152 PF13401 AAA_22: AAA domain; P 71.6 1.3 2.8E-05 40.5 0.0 18 115-132 4-21 (131)
153 PRK14668 uvrC excinuclease ABC 71.6 4.1 8.9E-05 48.1 4.2 50 592-641 523-576 (577)
154 PF01935 DUF87: Domain of unkn 71.5 1.5 3.3E-05 44.6 0.6 15 119-133 27-41 (229)
155 PRK10436 hypothetical protein; 71.3 1.3 2.9E-05 50.8 0.0 27 107-133 210-236 (462)
156 TIGR02533 type_II_gspE general 71.1 1.5 3.3E-05 50.6 0.4 28 106-133 233-260 (486)
157 PRK12422 chromosomal replicati 70.9 2.4 5.2E-05 48.4 2.0 51 79-133 105-159 (445)
158 TIGR02928 orc1/cdc6 family rep 70.4 2.6 5.6E-05 46.0 2.1 20 113-132 38-57 (365)
159 PRK09482 flap endonuclease-lik 70.4 3.8 8.1E-05 43.5 3.2 39 596-639 184-224 (256)
160 TIGR02538 type_IV_pilB type IV 70.3 1.4 3E-05 51.8 -0.0 28 106-133 307-334 (564)
161 PRK14976 5'-3' exonuclease; Pr 69.8 3.8 8.1E-05 44.0 3.1 39 596-639 193-233 (281)
162 PRK13844 recombination protein 69.3 3.9 8.4E-05 41.9 2.9 54 594-649 15-68 (200)
163 PRK06835 DNA replication prote 69.3 1.6 3.4E-05 48.0 0.1 30 103-133 172-201 (329)
164 cd01131 PilT Pilus retraction 69.2 2 4.2E-05 43.4 0.7 18 116-133 2-19 (198)
165 PRK08181 transposase; Validate 69.0 2.5 5.3E-05 45.1 1.5 21 112-134 105-125 (269)
166 PRK13913 3-methyladenine DNA g 68.9 3.7 8E-05 42.6 2.7 28 591-618 118-145 (218)
167 cd00008 53EXOc 5'-3' exonuclea 68.7 4.3 9.3E-05 42.5 3.2 28 596-628 185-212 (240)
168 PF00270 DEAD: DEAD/DEAH box h 68.6 1.7 3.7E-05 41.3 0.2 24 108-133 9-32 (169)
169 PF01637 Arch_ATPase: Archaeal 68.6 1.5 3.3E-05 43.7 -0.2 29 104-132 9-37 (234)
170 PRK08939 primosomal protein Dn 68.5 2.6 5.7E-05 45.7 1.6 40 94-134 135-175 (306)
171 smart00279 HhH2 Helix-hairpin- 68.5 3.9 8.4E-05 30.4 2.0 17 597-613 19-35 (36)
172 PRK00411 cdc6 cell division co 68.4 3.3 7.1E-05 45.7 2.4 20 113-132 53-72 (394)
173 PF12846 AAA_10: AAA-like doma 67.7 2.1 4.5E-05 44.6 0.6 19 115-133 1-19 (304)
174 COG0353 RecR Recombinational D 67.4 3.5 7.7E-05 41.9 2.1 54 594-649 12-65 (198)
175 TIGR01420 pilT_fam pilus retra 67.0 2.3 4.9E-05 46.8 0.7 29 105-133 112-140 (343)
176 COG3156 PulK Type II secretory 66.8 6 0.00013 43.2 3.8 61 583-643 212-277 (323)
177 PRK07956 ligA NAD-dependent DN 66.7 3.4 7.3E-05 49.6 2.1 46 586-631 535-581 (665)
178 TIGR01084 mutY A/G-specific ad 66.6 4.3 9.3E-05 43.5 2.7 27 591-617 102-128 (275)
179 PRK10880 adenine DNA glycosyla 66.4 4.4 9.5E-05 44.9 2.8 24 591-614 106-129 (350)
180 PF13191 AAA_16: AAA ATPase do 66.2 2.3 4.9E-05 41.1 0.5 29 104-132 13-41 (185)
181 smart00475 53EXOc 5'-3' exonuc 66.0 4.7 0.0001 42.8 2.8 27 596-627 188-214 (259)
182 PF00437 T2SE: Type II/IV secr 65.3 1.9 4.1E-05 45.2 -0.3 18 115-132 127-144 (270)
183 cd01129 PulE-GspE PulE/GspE Th 65.1 2.4 5.1E-05 45.0 0.4 26 108-133 73-98 (264)
184 TIGR02525 plasmid_TraJ plasmid 64.8 2.6 5.7E-05 47.0 0.7 20 114-133 148-167 (372)
185 PRK13766 Hef nuclease; Provisi 64.8 7.6 0.00016 47.2 4.7 45 596-640 717-765 (773)
186 PRK06921 hypothetical protein; 64.6 3.3 7E-05 44.0 1.3 31 103-133 102-135 (266)
187 TIGR02524 dot_icm_DotB Dot/Icm 64.5 2.8 6E-05 46.6 0.8 23 111-133 130-152 (358)
188 PRK14671 uvrC excinuclease ABC 64.4 5.6 0.00012 47.4 3.4 45 591-641 566-618 (621)
189 TIGR01448 recD_rel helicase, p 64.4 5 0.00011 48.6 3.0 50 593-642 116-167 (720)
190 COG5008 PilU Tfp pilus assembl 64.3 3.8 8.3E-05 43.8 1.7 31 103-133 115-145 (375)
191 PTZ00112 origin recognition co 63.6 3.4 7.4E-05 50.8 1.4 22 112-133 778-799 (1164)
192 PF00004 AAA: ATPase family as 63.1 2.9 6.3E-05 37.9 0.6 15 118-132 1-15 (132)
193 PRK12766 50S ribosomal protein 62.7 5.2 0.00011 41.7 2.4 29 585-613 27-55 (232)
194 TIGR01083 nth endonuclease III 62.6 6.2 0.00013 39.7 2.9 22 592-613 104-125 (191)
195 PF13479 AAA_24: AAA domain 62.6 3.6 7.7E-05 42.0 1.2 19 115-133 3-21 (213)
196 PF13604 AAA_30: AAA domain; P 62.4 2.5 5.3E-05 42.7 -0.1 26 108-133 11-36 (196)
197 PRK07758 hypothetical protein; 62.1 15 0.00033 33.2 4.9 56 562-617 35-90 (95)
198 KOG0335 ATP-dependent RNA heli 62.1 4.2 9.1E-05 46.6 1.7 62 107-170 105-189 (482)
199 PF01695 IstB_IS21: IstB-like 62.0 3.6 7.7E-05 41.0 1.0 19 116-134 48-66 (178)
200 TIGR00596 rad1 DNA repair prot 61.9 8 0.00017 47.5 4.1 52 588-644 751-810 (814)
201 TIGR00631 uvrb excinuclease AB 61.8 4.9 0.00011 48.2 2.3 86 82-173 2-98 (655)
202 PF13086 AAA_11: AAA domain; P 60.9 3.4 7.4E-05 41.1 0.6 17 117-133 19-35 (236)
203 PRK13894 conjugal transfer ATP 60.6 3 6.4E-05 45.6 0.2 28 105-133 139-166 (319)
204 TIGR01259 comE comEA protein. 60.3 7.2 0.00016 36.6 2.7 24 590-613 94-117 (120)
205 PF00448 SRP54: SRP54-type pro 59.9 3.3 7.2E-05 42.0 0.4 17 117-133 3-19 (196)
206 TIGR02236 recomb_radA DNA repa 59.8 8.9 0.00019 41.3 3.6 17 597-613 2-18 (310)
207 cd00056 ENDO3c endonuclease II 58.6 8.3 0.00018 37.1 2.9 25 590-614 79-103 (158)
208 PRK04328 hypothetical protein; 58.5 14 0.00031 38.6 4.8 49 105-166 10-61 (249)
209 TIGR00575 dnlj DNA ligase, NAD 58.1 6.1 0.00013 47.3 2.2 45 587-631 523-568 (652)
210 TIGR02782 TrbB_P P-type conjug 57.9 3.3 7.2E-05 44.8 -0.0 27 105-132 123-149 (299)
211 PRK04301 radA DNA repair and r 57.6 12 0.00025 40.6 4.1 45 595-643 7-60 (317)
212 KOG2543 Origin recognition com 57.5 4.9 0.00011 44.9 1.2 39 115-169 30-68 (438)
213 TIGR00608 radc DNA repair prot 57.5 9.6 0.00021 39.5 3.3 31 585-615 51-81 (218)
214 PF13207 AAA_17: AAA domain; P 57.4 4.6 0.0001 36.5 0.8 16 117-132 1-16 (121)
215 smart00478 ENDO3c endonuclease 57.4 9.1 0.0002 36.5 2.9 23 592-614 70-92 (149)
216 PF11798 IMS_HHH: IMS family H 56.9 8.8 0.00019 27.7 2.0 15 596-610 13-27 (32)
217 COG0275 Predicted S-adenosylme 56.8 7.9 0.00017 42.0 2.5 43 586-628 140-188 (314)
218 PRK12402 replication factor C 56.5 5.2 0.00011 42.9 1.2 21 113-133 34-54 (337)
219 PRK14350 ligA NAD-dependent DN 56.5 6.7 0.00015 47.1 2.2 41 591-631 538-579 (669)
220 PRK07956 ligA NAD-dependent DN 56.1 13 0.00029 44.6 4.6 57 585-641 470-530 (665)
221 PF05970 PIF1: PIF1-like helic 56.0 6.6 0.00014 43.5 1.9 35 94-132 5-39 (364)
222 PRK09183 transposase/IS protei 55.7 8.9 0.00019 40.5 2.8 20 112-133 101-120 (259)
223 PF13671 AAA_33: AAA domain; P 54.4 5.1 0.00011 37.2 0.6 14 118-131 2-15 (143)
224 smart00053 DYNc Dynamin, GTPas 54.1 77 0.0017 33.3 9.4 53 202-268 85-137 (240)
225 PF00910 RNA_helicase: RNA hel 53.7 4.3 9.4E-05 36.7 0.0 26 118-153 1-26 (107)
226 COG1948 MUS81 ERCC4-type nucle 53.6 8.7 0.00019 40.7 2.2 29 585-613 205-233 (254)
227 TIGR00006 S-adenosyl-methyltra 53.6 11 0.00023 41.1 3.0 43 586-628 136-184 (305)
228 KOG1857 Transcription accessor 53.5 6.6 0.00014 44.8 1.4 62 584-649 151-225 (623)
229 COG1484 DnaC DNA replication p 53.4 8 0.00017 40.8 1.9 35 96-133 89-123 (254)
230 PRK00050 16S rRNA m(4)C1402 me 53.3 11 0.00023 40.9 3.0 43 586-628 134-182 (296)
231 PF00063 Myosin_head: Myosin h 53.3 23 0.00049 42.7 6.0 32 112-153 82-113 (689)
232 KOG0926 DEAH-box RNA helicase 53.3 8.9 0.00019 46.5 2.4 28 115-142 271-308 (1172)
233 PF01580 FtsK_SpoIIIE: FtsK/Sp 53.1 4.7 0.0001 40.4 0.1 17 117-133 40-56 (205)
234 TIGR00588 ogg 8-oxoguanine DNA 53.0 9.6 0.00021 41.5 2.5 21 593-613 219-239 (310)
235 smart00487 DEXDc DEAD-like hel 53.0 7.5 0.00016 36.9 1.5 17 117-133 26-42 (201)
236 PRK10308 3-methyl-adenine DNA 52.8 9.7 0.00021 41.0 2.5 22 592-613 205-226 (283)
237 PRK08097 ligB NAD-dependent DN 52.6 7.6 0.00017 45.7 1.8 27 588-614 514-540 (562)
238 KOG0989 Replication factor C, 52.5 6.5 0.00014 42.8 1.1 28 106-133 47-75 (346)
239 PF01795 Methyltransf_5: MraW 51.9 8.5 0.00018 42.0 1.9 43 586-628 137-185 (310)
240 cd01130 VirB11-like_ATPase Typ 51.6 5.1 0.00011 39.8 0.2 27 105-132 16-42 (186)
241 KOG2841 Structure-specific end 51.3 16 0.00034 38.3 3.6 53 592-644 193-249 (254)
242 PRK01229 N-glycosylase/DNA lya 51.3 12 0.00027 38.5 2.8 24 591-614 115-139 (208)
243 PF00580 UvrD-helicase: UvrD/R 51.0 4.9 0.00011 42.1 -0.1 20 114-133 12-31 (315)
244 TIGR03015 pepcterm_ATPase puta 50.8 6.6 0.00014 40.7 0.8 22 111-132 39-60 (269)
245 PRK00024 hypothetical protein; 50.6 14 0.00031 38.4 3.2 30 586-615 58-87 (224)
246 PRK13833 conjugal transfer pro 50.2 5.3 0.00011 43.8 -0.0 27 105-132 135-161 (323)
247 PRK14670 uvrC excinuclease ABC 50.2 13 0.00027 44.0 3.1 30 585-614 537-566 (574)
248 COG0099 RpsM Ribosomal protein 50.0 17 0.00037 34.3 3.2 43 595-643 18-61 (121)
249 PF07728 AAA_5: AAA domain (dy 50.0 5.6 0.00012 37.1 0.1 15 118-132 2-16 (139)
250 PF06414 Zeta_toxin: Zeta toxi 49.4 7.6 0.00016 39.0 1.0 19 114-132 14-32 (199)
251 TIGR03499 FlhF flagellar biosy 49.1 7.2 0.00016 41.7 0.8 17 117-133 196-212 (282)
252 KOG0736 Peroxisome assembly fa 48.8 19 0.00041 43.7 4.1 19 138-156 786-804 (953)
253 cd01378 MYSc_type_I Myosin mot 48.6 39 0.00085 40.8 6.9 22 112-133 83-104 (674)
254 PF02562 PhoH: PhoH-like prote 48.4 8 0.00017 39.7 1.0 19 114-132 18-36 (205)
255 PHA00649 hypothetical protein 48.4 28 0.00061 29.7 3.9 18 648-665 2-19 (83)
256 PHA00729 NTP-binding motif con 48.2 9.5 0.00021 39.8 1.5 28 106-133 8-35 (226)
257 cd01377 MYSc_type_II Myosin mo 47.9 76 0.0016 38.6 9.2 22 112-133 88-109 (693)
258 PRK13851 type IV secretion sys 47.9 7.3 0.00016 43.1 0.6 28 105-133 153-180 (344)
259 PRK14351 ligA NAD-dependent DN 47.9 10 0.00022 45.8 1.8 45 587-631 553-598 (689)
260 TIGR01954 nusA_Cterm_rpt trans 47.8 20 0.00043 27.6 2.9 26 587-612 19-44 (50)
261 PF13238 AAA_18: AAA domain; P 47.7 7.5 0.00016 35.0 0.6 15 118-132 1-15 (129)
262 PRK13482 DNA integrity scannin 47.6 15 0.00033 40.7 3.0 28 586-613 311-338 (352)
263 PF07724 AAA_2: AAA domain (Cd 47.6 8.7 0.00019 38.1 1.0 17 116-132 4-20 (171)
264 cd01382 MYSc_type_VI Myosin mo 47.5 48 0.001 40.4 7.4 22 112-133 88-109 (717)
265 cd00124 MYSc Myosin motor doma 47.3 46 0.00099 40.2 7.2 22 112-133 83-104 (679)
266 PHA02544 44 clamp loader, smal 47.1 9 0.0002 41.0 1.2 19 115-133 43-61 (316)
267 TIGR02655 circ_KaiC circadian 47.0 26 0.00056 40.4 4.9 26 105-130 8-36 (484)
268 PRK06547 hypothetical protein; 46.9 11 0.00024 37.4 1.7 27 106-132 6-32 (172)
269 PRK03992 proteasome-activating 46.5 5.8 0.00013 44.4 -0.4 51 81-132 127-182 (389)
270 cd00268 DEADc DEAD-box helicas 46.5 9.2 0.0002 37.8 1.1 22 108-131 31-52 (203)
271 PF03215 Rad17: Rad17 cell cyc 46.5 8.5 0.00018 44.9 0.9 31 102-132 30-62 (519)
272 COG4962 CpaF Flp pilus assembl 46.5 7 0.00015 43.2 0.2 27 105-132 164-190 (355)
273 TIGR02881 spore_V_K stage V sp 46.2 8.2 0.00018 40.5 0.7 18 115-132 42-59 (261)
274 PRK12723 flagellar biosynthesi 45.8 9.5 0.00021 42.9 1.1 19 115-133 174-192 (388)
275 PRK10702 endonuclease III; Pro 45.7 23 0.0005 36.5 3.8 58 586-643 62-130 (211)
276 CHL00081 chlI Mg-protoporyphyr 45.6 5.5 0.00012 44.2 -0.8 43 81-132 13-55 (350)
277 TIGR02237 recomb_radB DNA repa 45.3 13 0.00029 37.2 2.0 24 108-131 2-28 (209)
278 TIGR00194 uvrC excinuclease AB 45.2 18 0.00038 42.9 3.2 31 592-627 539-569 (574)
279 PRK11776 ATP-dependent RNA hel 45.2 9.4 0.0002 43.4 1.0 22 108-131 36-57 (460)
280 cd01384 MYSc_type_XI Myosin mo 44.9 52 0.0011 39.8 7.1 22 112-133 85-106 (674)
281 PF04994 TfoX_C: TfoX C-termin 44.9 14 0.0003 32.3 1.8 32 594-629 3-34 (81)
282 TIGR03877 thermo_KaiC_1 KaiC d 44.8 32 0.0007 35.5 4.8 47 106-165 9-58 (237)
283 COG1223 Predicted ATPase (AAA+ 44.6 9.6 0.00021 40.8 0.8 17 116-132 152-168 (368)
284 PTZ00424 helicase 45; Provisio 44.5 9.3 0.0002 42.1 0.8 25 106-132 58-82 (401)
285 TIGR02903 spore_lon_C ATP-depe 43.9 9.6 0.00021 45.4 0.8 42 82-132 151-192 (615)
286 PF14635 HHH_7: Helix-hairpin- 43.6 36 0.00078 31.4 4.3 54 584-637 35-96 (104)
287 PRK14722 flhF flagellar biosyn 43.5 10 0.00022 42.5 0.9 19 115-133 137-155 (374)
288 KOG0340 ATP-dependent RNA heli 43.4 24 0.00051 39.3 3.6 41 105-147 36-82 (442)
289 cd01124 KaiC KaiC is a circadi 43.1 23 0.00051 34.3 3.3 15 118-132 2-16 (187)
290 PRK08097 ligB NAD-dependent DN 42.9 33 0.00071 40.6 4.9 41 587-627 452-492 (562)
291 COG0272 Lig NAD-dependent DNA 42.9 17 0.00038 43.3 2.7 48 586-633 535-583 (667)
292 PF06745 KaiC: KaiC; InterPro 42.9 22 0.00048 36.1 3.2 46 105-163 6-55 (226)
293 PF01367 5_3_exonuc: 5'-3' exo 42.8 1.1 2.3E-05 41.0 -5.7 27 596-627 20-46 (101)
294 PRK03980 flap endonuclease-1; 42.6 17 0.00037 39.3 2.5 26 598-628 193-218 (292)
295 PF03118 RNA_pol_A_CTD: Bacter 42.0 22 0.00048 29.9 2.5 27 587-613 37-63 (66)
296 PF01418 HTH_6: Helix-turn-hel 41.8 28 0.0006 29.8 3.1 46 598-643 13-59 (77)
297 PF05729 NACHT: NACHT domain 41.5 12 0.00026 35.1 1.0 16 117-132 2-17 (166)
298 PRK11192 ATP-dependent RNA hel 41.4 12 0.00026 42.1 1.1 24 107-132 32-55 (434)
299 PRK13900 type IV secretion sys 41.4 9.7 0.00021 41.9 0.3 27 105-132 151-177 (332)
300 TIGR00593 pola DNA polymerase 41.3 22 0.00047 44.3 3.3 31 596-631 187-219 (887)
301 TIGR01242 26Sp45 26S proteasom 40.7 11 0.00025 41.5 0.7 51 81-132 118-173 (364)
302 cd01120 RecA-like_NTPases RecA 40.6 11 0.00024 35.0 0.5 16 118-133 2-17 (165)
303 PRK13764 ATPase; Provisional 40.4 10 0.00023 44.9 0.4 19 115-133 257-275 (602)
304 PRK00254 ski2-like helicase; P 40.0 19 0.00041 43.6 2.5 29 585-613 669-697 (720)
305 PF02456 Adeno_IVa2: Adenoviru 39.9 10 0.00023 41.4 0.3 63 117-179 89-186 (369)
306 PLN03025 replication factor C 39.7 13 0.00028 40.2 1.0 17 117-133 36-52 (319)
307 TIGR00618 sbcc exonuclease Sbc 39.7 28 0.0006 44.1 4.0 17 116-132 27-43 (1042)
308 PRK11331 5-methylcytosine-spec 39.6 13 0.00028 42.6 1.0 29 317-347 319-347 (459)
309 PRK04837 ATP-dependent RNA hel 39.5 13 0.00028 41.7 1.0 24 107-132 39-62 (423)
310 COG1219 ClpX ATP-dependent pro 39.4 14 0.00029 40.8 1.0 17 115-131 97-113 (408)
311 PHA02244 ATPase-like protein 38.9 15 0.00033 41.2 1.3 46 81-132 91-136 (383)
312 PRK10590 ATP-dependent RNA hel 38.6 14 0.00031 42.0 1.1 24 107-132 32-55 (456)
313 PRK14973 DNA topoisomerase I; 38.5 32 0.00069 43.1 4.2 49 592-644 875-932 (936)
314 PRK00440 rfc replication facto 38.4 14 0.00031 39.1 1.1 21 112-132 35-55 (319)
315 TIGR01618 phage_P_loop phage n 38.0 13 0.00028 38.6 0.6 20 115-134 12-31 (220)
316 PRK13341 recombination factor 38.0 12 0.00025 45.6 0.3 22 112-133 49-70 (725)
317 PF00735 Septin: Septin; Inte 38.0 12 0.00026 40.1 0.4 19 112-130 1-19 (281)
318 PRK10536 hypothetical protein; 37.9 14 0.00031 39.3 0.9 17 116-132 75-91 (262)
319 PRK05755 DNA polymerase I; Pro 37.7 27 0.00059 43.4 3.4 40 596-640 189-230 (880)
320 COG1201 Lhr Lhr-like helicases 37.4 35 0.00075 42.0 4.1 25 106-132 30-54 (814)
321 PF12836 HHH_3: Helix-hairpin- 37.4 22 0.00048 29.5 1.8 21 591-611 41-61 (65)
322 cd01123 Rad51_DMC1_radA Rad51_ 37.3 20 0.00044 36.4 1.9 28 105-132 6-36 (235)
323 PRK10308 3-methyl-adenine DNA 37.2 62 0.0013 34.8 5.6 53 590-643 163-228 (283)
324 COG2607 Predicted ATPase (AAA+ 37.2 36 0.00078 36.2 3.6 49 109-175 78-127 (287)
325 PLN00020 ribulose bisphosphate 37.2 21 0.00045 40.2 2.1 50 81-131 111-164 (413)
326 PRK13342 recombination factor 37.0 17 0.00037 41.0 1.4 22 111-132 32-53 (413)
327 PRK14961 DNA polymerase III su 36.9 12 0.00025 41.5 0.1 41 83-132 14-55 (363)
328 COG0419 SbcC ATPase involved i 36.9 40 0.00086 42.1 4.7 45 117-164 27-78 (908)
329 KOG0727 26S proteasome regulat 36.9 19 0.0004 38.5 1.5 122 29-158 100-249 (408)
330 PF13555 AAA_29: P-loop contai 36.7 15 0.00032 30.7 0.7 15 118-132 26-40 (62)
331 TIGR00348 hsdR type I site-spe 36.6 17 0.00036 43.8 1.3 30 103-133 247-281 (667)
332 PRK01172 ski2-like helicase; P 36.3 37 0.0008 40.7 4.2 44 594-641 612-664 (674)
333 PF13173 AAA_14: AAA domain 36.3 15 0.00033 34.0 0.8 17 117-133 4-20 (128)
334 PRK09361 radB DNA repair and r 36.2 22 0.00048 36.1 2.0 28 105-132 10-40 (225)
335 COG1419 FlhF Flagellar GTP-bin 36.2 18 0.0004 40.8 1.5 19 115-133 203-221 (407)
336 TIGR01359 UMP_CMP_kin_fam UMP- 36.1 16 0.00036 35.5 1.0 14 118-131 2-15 (183)
337 cd01850 CDC_Septin CDC/Septin. 36.0 17 0.00037 38.7 1.2 21 112-132 1-21 (276)
338 TIGR02640 gas_vesic_GvpN gas v 35.6 20 0.00043 37.8 1.5 29 102-132 10-38 (262)
339 PRK06067 flagellar accessory p 35.6 22 0.00047 36.5 1.8 29 104-132 11-42 (234)
340 PRK04195 replication factor C 35.4 16 0.00034 42.1 0.8 30 103-132 26-56 (482)
341 cd02021 GntK Gluconate kinase 35.3 17 0.00036 34.3 0.9 14 118-131 2-15 (150)
342 PRK00131 aroK shikimate kinase 35.3 18 0.0004 34.4 1.2 16 116-131 5-20 (175)
343 PF12775 AAA_7: P-loop contain 35.2 16 0.00034 39.0 0.7 18 115-132 33-50 (272)
344 COG0258 Exo 5'-3' exonuclease 34.7 30 0.00065 37.5 2.8 25 598-627 202-226 (310)
345 PF10236 DAP3: Mitochondrial r 34.6 19 0.00042 39.0 1.3 24 110-133 18-41 (309)
346 PRK00080 ruvB Holliday junctio 34.6 14 0.00031 40.0 0.3 17 117-133 53-69 (328)
347 PF13476 AAA_23: AAA domain; P 34.5 17 0.00036 35.3 0.7 17 116-132 20-36 (202)
348 PF06309 Torsin: Torsin; Inte 34.4 20 0.00043 34.2 1.2 26 117-152 55-80 (127)
349 COG2231 Uncharacterized protei 33.9 31 0.00067 35.6 2.5 27 592-618 113-139 (215)
350 TIGR02902 spore_lonB ATP-depen 33.9 12 0.00026 43.7 -0.4 42 81-131 61-102 (531)
351 cd01394 radB RadB. The archaea 33.9 26 0.00056 35.3 2.0 27 106-132 7-36 (218)
352 COG2003 RadC DNA repair protei 33.9 55 0.0012 34.2 4.3 43 585-627 57-111 (224)
353 COG5241 RAD10 Nucleotide excis 33.8 24 0.00052 35.7 1.7 30 585-614 190-219 (224)
354 COG1222 RPT1 ATP-dependent 26S 33.8 18 0.0004 40.3 1.0 48 83-131 149-201 (406)
355 PRK14351 ligA NAD-dependent DN 33.4 57 0.0012 39.6 5.0 26 590-615 492-517 (689)
356 COG0122 AlkA 3-methyladenine D 33.4 43 0.00094 36.1 3.7 33 593-625 197-230 (285)
357 PRK00558 uvrC excinuclease ABC 33.4 33 0.00071 40.9 3.0 29 586-614 567-595 (598)
358 PRK11448 hsdR type I restricti 33.3 15 0.00033 46.8 0.2 28 106-134 425-452 (1123)
359 PRK05703 flhF flagellar biosyn 33.2 18 0.00039 41.2 0.8 17 117-133 223-239 (424)
360 TIGR03158 cas3_cyano CRISPR-as 33.1 25 0.00054 38.8 1.9 25 108-132 7-31 (357)
361 TIGR02788 VirB11 P-type DNA tr 33.1 19 0.00042 38.9 1.0 29 103-132 133-161 (308)
362 COG0467 RAD55 RecA-superfamily 33.0 56 0.0012 34.1 4.5 24 107-130 12-38 (260)
363 PRK07261 topology modulation p 32.7 20 0.00043 35.3 1.0 14 118-131 3-16 (171)
364 PF06048 DUF927: Domain of unk 32.7 25 0.00053 37.7 1.7 29 103-132 182-210 (286)
365 PRK14667 uvrC excinuclease ABC 32.7 31 0.00068 40.8 2.7 49 564-613 514-564 (567)
366 cd01126 TraG_VirD4 The TraG/Tr 32.5 24 0.00052 39.2 1.6 16 118-133 2-17 (384)
367 TIGR00614 recQ_fam ATP-depende 32.0 21 0.00046 40.8 1.1 25 106-132 19-43 (470)
368 cd01428 ADK Adenylate kinase ( 32.0 21 0.00045 34.9 1.0 15 118-132 2-16 (194)
369 TIGR01448 recD_rel helicase, p 32.0 40 0.00086 41.1 3.5 44 599-642 89-137 (720)
370 TIGR01241 FtsH_fam ATP-depende 31.5 18 0.0004 41.7 0.5 16 117-132 90-105 (495)
371 KOG3859 Septins (P-loop GTPase 31.5 22 0.00049 38.3 1.1 24 109-132 36-59 (406)
372 PRK08118 topology modulation p 31.3 22 0.00048 34.9 1.0 13 118-130 4-16 (167)
373 cd01127 TrwB Bacterial conjuga 31.3 19 0.00041 40.6 0.6 17 116-132 43-59 (410)
374 TIGR01313 therm_gnt_kin carboh 31.3 18 0.00039 34.7 0.4 14 118-131 1-14 (163)
375 PRK04537 ATP-dependent RNA hel 31.2 20 0.00043 42.3 0.8 24 107-132 40-63 (572)
376 KOG1514 Origin recognition com 31.2 55 0.0012 39.5 4.3 47 301-353 572-629 (767)
377 PTZ00217 flap endonuclease-1; 31.2 34 0.00074 38.6 2.6 26 597-627 238-263 (393)
378 PRK11634 ATP-dependent RNA hel 31.1 20 0.00044 42.8 0.9 24 107-132 37-60 (629)
379 cd00464 SK Shikimate kinase (S 31.0 20 0.00044 33.6 0.7 15 117-131 1-15 (154)
380 COG1125 OpuBA ABC-type proline 31.0 20 0.00043 38.4 0.6 12 121-132 33-44 (309)
381 TIGR00635 ruvB Holliday juncti 31.0 24 0.00052 37.5 1.3 16 117-132 32-47 (305)
382 TIGR02655 circ_KaiC circadian 31.0 61 0.0013 37.4 4.7 50 104-166 249-301 (484)
383 TIGR00376 DNA helicase, putati 31.0 19 0.0004 43.2 0.5 17 117-133 175-191 (637)
384 PF14229 DUF4332: Domain of un 31.0 53 0.0011 30.9 3.4 34 591-628 50-83 (122)
385 PRK02515 psbU photosystem II c 30.7 47 0.001 31.9 3.0 27 590-616 83-109 (132)
386 CHL00181 cbbX CbbX; Provisiona 30.6 22 0.00047 38.2 0.9 15 118-132 62-76 (287)
387 PRK06995 flhF flagellar biosyn 30.5 21 0.00045 41.4 0.8 18 116-133 257-274 (484)
388 PRK14666 uvrC excinuclease ABC 30.5 38 0.00083 40.8 2.9 29 586-614 661-689 (694)
389 PRK09302 circadian clock prote 30.5 55 0.0012 37.9 4.2 28 105-132 18-48 (509)
390 COG5019 CDC3 Septin family pro 30.4 27 0.00058 39.0 1.5 19 112-130 20-38 (373)
391 PRK02362 ski2-like helicase; P 30.3 54 0.0012 39.9 4.3 48 592-643 650-704 (737)
392 TIGR03880 KaiC_arch_3 KaiC dom 30.3 61 0.0013 32.9 4.1 25 107-131 5-32 (224)
393 COG0606 Predicted ATPase with 30.3 20 0.00044 41.2 0.6 24 118-144 201-224 (490)
394 TIGR02688 conserved hypothetic 30.3 25 0.00053 40.2 1.3 30 103-134 199-228 (449)
395 TIGR02030 BchI-ChlI magnesium 30.2 17 0.00037 40.1 -0.0 42 82-132 1-42 (337)
396 PTZ00454 26S protease regulato 30.1 23 0.00049 40.0 0.9 51 81-132 141-196 (398)
397 PHA01747 putative ATP-dependen 30.1 29 0.00063 39.0 1.7 33 100-132 175-207 (425)
398 TIGR03819 heli_sec_ATPase heli 30.0 18 0.00039 39.9 0.1 29 103-132 167-195 (340)
399 PRK05973 replicative DNA helic 30.0 70 0.0015 33.6 4.5 47 107-166 54-102 (237)
400 CHL00176 ftsH cell division pr 29.9 14 0.0003 44.3 -0.8 17 116-132 217-233 (638)
401 COG1796 POL4 DNA polymerase IV 29.9 69 0.0015 35.2 4.5 47 593-642 92-148 (326)
402 TIGR02880 cbbX_cfxQ probable R 29.9 21 0.00045 38.2 0.6 16 117-132 60-75 (284)
403 smart00242 MYSc Myosin. Large 29.7 29 0.00062 42.0 1.7 21 112-132 89-109 (677)
404 TIGR02322 phosphon_PhnN phosph 29.6 22 0.00048 34.6 0.7 16 117-132 3-18 (179)
405 cd01393 recA_like RecA is a b 29.1 30 0.00065 34.9 1.5 29 104-132 5-36 (226)
406 PRK14668 uvrC excinuclease ABC 29.0 42 0.00091 39.8 2.9 28 586-613 549-576 (577)
407 PRK10865 protein disaggregatio 29.0 26 0.00057 43.4 1.3 17 116-132 599-615 (857)
408 KOG0739 AAA+-type ATPase [Post 28.8 26 0.00055 38.4 1.0 50 82-132 130-183 (439)
409 PTZ00361 26 proteosome regulat 28.7 21 0.00047 40.8 0.5 16 117-132 219-234 (438)
410 PRK06851 hypothetical protein; 28.6 50 0.0011 37.0 3.3 28 105-132 20-47 (367)
411 PHA02653 RNA helicase NPH-II; 28.6 30 0.00064 41.8 1.6 24 106-131 172-195 (675)
412 cd02020 CMPK Cytidine monophos 28.6 26 0.00057 32.4 1.0 14 118-131 2-15 (147)
413 TIGR03881 KaiC_arch_4 KaiC dom 28.1 36 0.00079 34.6 2.0 27 106-132 8-37 (229)
414 COG1623 Predicted nucleic-acid 28.1 33 0.00071 37.1 1.6 27 586-612 317-343 (349)
415 PRK06217 hypothetical protein; 28.0 26 0.00057 34.5 0.9 14 118-131 4-17 (183)
416 PF08477 Miro: Miro-like prote 28.0 22 0.00048 31.6 0.3 15 118-132 2-16 (119)
417 KOG1803 DNA helicase [Replicat 27.9 29 0.00062 41.0 1.3 18 116-133 202-219 (649)
418 PRK08233 hypothetical protein; 27.8 27 0.00058 33.7 0.9 16 117-132 5-20 (182)
419 TIGR03878 thermo_KaiC_2 KaiC d 27.7 75 0.0016 33.5 4.3 37 115-164 36-72 (259)
420 PRK14531 adenylate kinase; Pro 27.7 28 0.0006 34.4 1.0 15 117-131 4-18 (183)
421 PLN00206 DEAD-box ATP-dependen 27.5 33 0.00071 39.9 1.7 25 106-132 151-175 (518)
422 KOG0729 26S proteasome regulat 27.5 31 0.00067 37.2 1.3 41 117-157 213-270 (435)
423 PF07693 KAP_NTPase: KAP famil 27.4 33 0.00072 36.6 1.6 34 99-132 4-37 (325)
424 PRK10880 adenine DNA glycosyla 27.3 69 0.0015 35.7 4.1 58 585-643 62-130 (350)
425 KOG2875 8-oxoguanine DNA glyco 27.3 33 0.00071 36.9 1.5 20 593-612 217-236 (323)
426 PRK01297 ATP-dependent RNA hel 27.0 28 0.00061 39.8 1.0 25 106-132 117-141 (475)
427 KOG1534 Putative transcription 26.9 70 0.0015 33.5 3.7 32 117-162 5-36 (273)
428 COG2256 MGS1 ATPase related to 26.9 36 0.00078 38.6 1.8 43 83-131 22-64 (436)
429 PRK14962 DNA polymerase III su 26.8 22 0.00047 41.1 0.1 41 83-132 12-53 (472)
430 TIGR03674 fen_arch flap struct 26.8 47 0.001 36.6 2.7 26 597-627 239-264 (338)
431 TIGR01360 aden_kin_iso1 adenyl 26.7 30 0.00065 33.6 1.0 16 117-132 5-20 (188)
432 cd01383 MYSc_type_VIII Myosin 26.7 39 0.00084 40.9 2.1 21 112-132 89-109 (677)
433 PF04548 AIG1: AIG1 family; I 26.6 28 0.0006 35.4 0.8 16 117-132 2-17 (212)
434 cd00820 PEPCK_HprK Phosphoenol 26.6 29 0.00063 32.0 0.9 17 116-132 16-32 (107)
435 TIGR02746 TraC-F-type type-IV 26.4 25 0.00054 42.9 0.5 19 115-133 430-448 (797)
436 COG1126 GlnQ ABC-type polar am 26.4 32 0.00068 36.1 1.1 14 119-132 32-45 (240)
437 PRK09270 nucleoside triphospha 26.4 40 0.00087 34.6 2.0 36 97-132 14-50 (229)
438 PRK14532 adenylate kinase; Pro 26.4 31 0.00066 33.9 1.0 15 117-131 2-16 (188)
439 CHL00195 ycf46 Ycf46; Provisio 26.4 28 0.0006 40.4 0.8 17 116-132 260-276 (489)
440 PF11372 DUF3173: Domain of un 26.3 72 0.0016 26.5 3.0 26 589-615 2-27 (59)
441 TIGR03689 pup_AAA proteasome A 26.2 27 0.00058 40.8 0.7 16 117-132 218-233 (512)
442 PF00931 NB-ARC: NB-ARC domain 26.2 35 0.00077 35.5 1.5 29 103-131 5-35 (287)
443 PRK01229 N-glycosylase/DNA lya 26.1 62 0.0013 33.4 3.2 50 590-639 68-136 (208)
444 PRK14350 ligA NAD-dependent DN 26.0 80 0.0017 38.2 4.5 42 599-640 507-559 (669)
445 COG0630 VirB11 Type IV secreto 25.9 25 0.00055 38.3 0.4 19 115-133 143-161 (312)
446 PRK11889 flhF flagellar biosyn 25.8 28 0.0006 39.7 0.6 18 116-133 242-259 (436)
447 PF04466 Terminase_3: Phage te 25.7 23 0.0005 39.7 0.0 17 118-134 5-21 (387)
448 TIGR01817 nifA Nif-specific re 25.7 36 0.00078 39.7 1.6 47 78-131 189-235 (534)
449 TIGR00064 ftsY signal recognit 25.7 34 0.00073 36.5 1.2 19 115-133 72-90 (272)
450 TIGR00231 small_GTP small GTP- 25.7 27 0.00058 31.5 0.5 16 117-132 3-18 (161)
451 cd01983 Fer4_NifH The Fer4_Nif 25.6 31 0.00067 28.9 0.8 15 118-132 2-16 (99)
452 cd02023 UMPK Uridine monophosp 25.5 27 0.00058 34.7 0.5 15 118-132 2-16 (198)
453 KOG0652 26S proteasome regulat 25.5 32 0.0007 36.9 1.0 14 117-130 207-220 (424)
454 PHA02624 large T antigen; Prov 25.5 35 0.00075 40.7 1.4 27 106-132 420-448 (647)
455 PRK12726 flagellar biosynthesi 25.5 30 0.00065 39.1 0.8 19 115-133 206-224 (407)
456 cd01381 MYSc_type_VII Myosin m 25.5 41 0.0009 40.6 2.1 22 112-133 83-104 (671)
457 cd01385 MYSc_type_IX Myosin mo 25.5 40 0.00086 40.9 1.9 21 112-132 91-111 (692)
458 PF00416 Ribosomal_S13: Riboso 25.4 49 0.0011 30.3 2.1 43 593-640 14-56 (107)
459 PRK06696 uridine kinase; Valid 25.3 41 0.00089 34.3 1.8 20 112-131 19-38 (223)
460 TIGR02173 cyt_kin_arch cytidyl 25.2 32 0.00069 32.8 0.9 16 117-132 2-17 (171)
461 PF00485 PRK: Phosphoribulokin 25.1 27 0.00058 34.8 0.4 14 118-131 2-15 (194)
462 PRK14721 flhF flagellar biosyn 25.1 31 0.00067 39.3 0.9 19 115-133 191-209 (420)
463 PRK14672 uvrC excinuclease ABC 25.1 47 0.001 40.1 2.4 51 565-615 609-661 (691)
464 PRK13910 DNA glycosylase MutY; 25.0 89 0.0019 33.9 4.3 56 586-642 26-92 (289)
465 PRK00771 signal recognition pa 24.9 36 0.00077 39.0 1.3 20 114-133 94-113 (437)
466 PRK14974 cell division protein 24.5 37 0.00081 37.5 1.4 20 114-133 139-158 (336)
467 PRK14723 flhF flagellar biosyn 24.5 34 0.00073 41.9 1.1 18 116-133 186-203 (767)
468 PF10412 TrwB_AAD_bind: Type I 24.3 25 0.00055 39.3 0.0 17 117-133 17-33 (386)
469 TIGR03744 traC_PFL_4706 conjug 24.3 29 0.00062 43.3 0.4 20 114-133 474-493 (893)
470 KOG0953 Mitochondrial RNA heli 24.2 36 0.00078 40.0 1.2 39 117-155 193-237 (700)
471 PRK00300 gmk guanylate kinase; 24.2 37 0.0008 33.7 1.2 18 115-132 5-22 (205)
472 PF14532 Sigma54_activ_2: Sigm 24.1 32 0.0007 32.2 0.7 20 113-132 19-38 (138)
473 cd01380 MYSc_type_V Myosin mot 23.8 45 0.00097 40.4 1.9 21 112-132 83-103 (691)
474 TIGR03263 guanyl_kin guanylate 23.6 34 0.00073 33.2 0.7 16 117-132 3-18 (180)
475 PRK06762 hypothetical protein; 23.6 39 0.00084 32.5 1.1 15 117-131 4-18 (166)
476 cd02025 PanK Pantothenate kina 23.5 24 0.00052 36.3 -0.3 12 121-132 5-16 (220)
477 TIGR00929 VirB4_CagE type IV s 23.5 31 0.00067 41.9 0.5 19 115-133 434-452 (785)
478 TIGR02236 recomb_radA DNA repa 23.4 49 0.0011 35.5 2.0 28 105-132 82-112 (310)
479 PRK04040 adenylate kinase; Pro 23.4 36 0.00078 34.2 0.9 16 117-132 4-19 (188)
480 cd03279 ABC_sbcCD SbcCD and ot 23.4 1.3E+02 0.0028 30.4 5.0 16 117-132 30-45 (213)
481 PRK03839 putative kinase; Prov 23.3 36 0.00078 33.3 0.9 14 118-131 3-16 (180)
482 cd01387 MYSc_type_XV Myosin mo 23.3 49 0.0011 40.0 2.1 21 112-132 84-104 (677)
483 KOG0743 AAA+-type ATPase [Post 23.2 48 0.001 38.0 1.9 62 118-196 238-302 (457)
484 smart00763 AAA_PrkA PrkA AAA d 23.1 58 0.0013 36.4 2.5 18 114-131 77-94 (361)
485 TIGR03345 VI_ClpV1 type VI sec 23.1 39 0.00085 41.9 1.3 17 116-132 597-613 (852)
486 TIGR03629 arch_S13P archaeal r 23.1 60 0.0013 31.6 2.3 45 594-643 21-65 (144)
487 COG1136 SalX ABC-type antimicr 23.1 32 0.00069 36.0 0.5 15 118-132 34-48 (226)
488 PRK05580 primosome assembly pr 23.0 45 0.00098 40.3 1.8 17 116-132 163-179 (679)
489 PRK10416 signal recognition pa 22.9 41 0.00088 36.8 1.3 19 115-133 114-132 (318)
490 TIGR01389 recQ ATP-dependent D 22.9 38 0.00082 40.0 1.1 25 106-132 21-45 (591)
491 TIGR02639 ClpA ATP-dependent C 22.6 42 0.00092 40.8 1.4 40 86-131 455-500 (731)
492 TIGR01351 adk adenylate kinase 22.4 40 0.00086 34.0 1.0 33 118-150 2-34 (210)
493 PF00158 Sigma54_activat: Sigm 22.4 38 0.00082 33.5 0.8 93 112-218 19-122 (168)
494 PRK10078 ribose 1,5-bisphospho 22.3 36 0.00079 33.6 0.7 16 117-132 4-19 (186)
495 cd03274 ABC_SMC4_euk Eukaryoti 22.2 38 0.00083 34.6 0.8 15 118-132 28-42 (212)
496 PRK11057 ATP-dependent DNA hel 22.2 43 0.00092 39.8 1.3 24 107-132 34-57 (607)
497 PRK14527 adenylate kinase; Pro 22.1 44 0.00095 33.1 1.2 17 116-132 7-23 (191)
498 KOG0726 26S proteasome regulat 22.1 56 0.0012 35.8 2.0 59 117-175 221-297 (440)
499 PRK14530 adenylate kinase; Pro 22.0 39 0.00086 34.2 0.9 15 117-131 5-19 (215)
500 PRK10246 exonuclease subunit S 22.0 76 0.0016 40.4 3.5 17 116-132 31-47 (1047)
No 1
>KOG4280 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=5.9e-81 Score=695.92 Aligned_cols=341 Identities=36% Similarity=0.552 Sum_probs=294.8
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCC---CCceeeeeceeeCCCCCcHhHHHH
Q 005372 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDT---IRSECYQLDSFFGQEDESVSKIFY 100 (699)
Q Consensus 24 ~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~---~~~~~F~FD~VF~~~~~sQ~~Vf~ 100 (699)
...+|+|+||+||+...+.... ...++.+... ...+.++++.. ...+.|+||.||+++. +|++||.
T Consensus 3 ~~~~v~vvvr~rPl~~~~~~~~---~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~~ftfD~vf~~~s-tQ~dvy~ 71 (574)
T KOG4280|consen 3 PACKVKVVVRVRPLSAAERSEL---LKSILSVDPA-------HGRVSLKNPVAGIEGKPKSFTFDAVFDSDS-TQDDVYQ 71 (574)
T ss_pred cccceeEEEeecCCCchhhhhh---hccccccccc-------cceeeecCCcccccCCCCCceeeeeecCCC-CHHHHHH
Confidence 4578999999999998775543 2233333322 23455555433 2346799999999875 8999999
Q ss_pred hhccchhhhhcCCCCEEEEeeccCCCCCcceeccC-CCCCCchHHHHHHHHHhhhcCC----ceeEEEEEEEecceeeec
Q 005372 101 SEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGS-EERPGLMPLAMSKILSICQSTG----STAEISYYEVYMDRCYDL 175 (699)
Q Consensus 101 ~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~-~~~~GIipral~~LF~~~~~~~----~~v~vS~~EIYnE~v~DL 175 (699)
.++.|+|+++++|||+||||||||||||||||.|. .+..|||||++++||.+++... +.|++||+|||||.|+||
T Consensus 72 ~~~~~lV~svl~GyNgtvFaYGQTGsGKTyTM~G~~~~~~GiiPraf~~LF~~I~~~~~~~~f~vrvS~lEiYnE~i~DL 151 (574)
T KOG4280|consen 72 ETVAPLVESVLEGYNGTVFAYGQTGSGKTYTMIGPDPELRGLIPRAFEHLFRHIDERKEKTRFLVRVSYLEIYNESIRDL 151 (574)
T ss_pred HHhHHHHHHHhcccCceEEEeccCCCCCceEeeCCChhhCCchhHHHHHHHHHHHhccccceEEEEeehHHHHhHHHHHH
Confidence 99999999999999999999999999999999999 6678999999999999997653 889999999999999999
Q ss_pred cCCCc-cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEee--cCCCCc
Q 005372 176 LEVKT-KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLL--GDDSKA 252 (699)
Q Consensus 176 L~~~~-~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~--~~~~~~ 252 (699)
|++.. +.+.++++++.|+||+||+++.|.++++++.+|..|..+|++++|.||..|||||+||+|+|++.. .++...
T Consensus 152 L~~~~~~~l~lre~p~~Gv~V~nlse~~v~s~~d~~~~l~~G~~nR~vgat~mn~~SsRSH~ift~~i~~~~~~~~~~~~ 231 (574)
T KOG4280|consen 152 LSPVNPKGLELREDPKCGVYVENLSEMDVESAEDAQQLLVVGLANRRVGATSMNEESSRSHAIFTIHIESSEKSDGGLMS 231 (574)
T ss_pred hCccCcCCceeeEcCCCceEecCcceeecCCHHHHHHHHHHHHhhcchhhccCCcccccceEEEEEEEEeecccCCCccc
Confidence 99887 589999999999999999999999999999999999999999999999999999999999999833 234456
Q ss_pred eEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCCC-CCCCCCChhhhhcccccCCCceeEEEE
Q 005372 253 ALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNKP-RVPYRESKLTRILQDSLGGTSHALMVA 328 (699)
Q Consensus 253 ~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~-~IPYRdSKLTrLLqdsLgGnskt~mI~ 328 (699)
...|||+||||||+|| ++++|.|++|+.+||+||++||+||.+|.+++. ||||||||||+||||+|||||+|+||+
T Consensus 232 ~~~~rlnlvDLagsEr~~~tga~G~rlkEa~~IN~SLs~LG~vI~aLvd~~~~HIPYRdSkLT~LLqdSLGGN~kT~mia 311 (574)
T KOG4280|consen 232 GRSSKLNLVDLAGSERQSKTGAEGERLKEATNINLSLSALGNVISALVDGSKTHIPYRDSKLTRLLQDSLGGNSKTTMIA 311 (574)
T ss_pred cccceeeeeeccchhhhcccCccchhhhhhcccchhHHHHHHHHHHHhccccCCCCcchhHHHHHHHHHcCCCceEEEEE
Confidence 6789999999999998 677889999999999999999999999999877 999999999999999999999999999
Q ss_pred EeCCC--ChhhhHHHHHHHHHhhhccccCCCccccCCcchhhHHH-HHHHHHHHhhccc
Q 005372 329 CLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDME-AKLRAWLESKGKT 384 (699)
Q Consensus 329 ~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~~~~-~~l~~~le~~~k~ 384 (699)
||+|+ +++||++||+||+||+.|+|.+.+| .|+. +.++.+.++...+
T Consensus 312 nvsp~~~~~~ETlsTLrfA~Rak~I~nk~~in---------ed~~~~~~~~lq~ei~~L 361 (574)
T KOG4280|consen 312 NVSPSSDNYEETLSTLRFAQRAKAIKNKPVIN---------EDPKDALLRELQEEIERL 361 (574)
T ss_pred ecCchhhhhHHHHHHHHHHHHHHHhhcccccc---------CCcchhhHHHHHHHHHHH
Confidence 99998 4799999999999999999965544 3433 4555555554443
No 2
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=3.2e-81 Score=711.07 Aligned_cols=353 Identities=33% Similarity=0.516 Sum_probs=307.0
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCC------CcHhHH
Q 005372 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQED------ESVSKI 98 (699)
Q Consensus 25 ~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~------~sQ~~V 98 (699)
..+|+|+||||||+.+|... +..|.|.+.+... ++. .+..+.....|+||+.|+..+ .+|..|
T Consensus 3 ~ssv~VAVRVRPfn~rE~s~---~~k~Vvqm~gn~t-------tii-~~~~~k~~~~FtfD~SYWS~d~edPhfAsQ~qV 71 (1221)
T KOG0245|consen 3 GSSVKVAVRVRPFNAREKSR---DAKCVVQMQGNTT-------TII-NPKGSKDAPKFTFDYSYWSHDSEDPHFASQKQV 71 (1221)
T ss_pred CCceEEEEEeccchhhhhhc---ccceEEEecCCce-------eee-cCCCcccCCceecceeeecCCCCCCchhhHHHH
Confidence 46799999999999999765 3677777776533 222 233333445699999998765 378999
Q ss_pred HHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC--CCCCchHHHHHHHHHhhhc-----CCceeEEEEEEEecce
Q 005372 99 FYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE--ERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYMDR 171 (699)
Q Consensus 99 f~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~--~~~GIipral~~LF~~~~~-----~~~~v~vS~~EIYnE~ 171 (699)
|+....++++.+|+|||+||||||||||||||||+|.. +++|||||++++||.++.. ..|.|+|||+|||+|+
T Consensus 72 Yedlg~~mL~~AfEGYN~ClFAYGQTGSGKSYTMMG~~~~~e~GIIPrlCEeLF~ri~~nq~~~~sy~VevSymEIYcEr 151 (1221)
T KOG0245|consen 72 YEDLGREMLDHAFEGYNVCLFAYGQTGSGKSYTMMGFQEPDEPGIIPRLCEELFSRIADNQSQQMSYSVEVSYMEIYCER 151 (1221)
T ss_pred HHHHhHHHHHHHhcccceEEEEeccCCCCcceeeeccCCCCCCCchhHHHHHHHHHHhhcccccceEEEEEeehhHHHHH
Confidence 99999999999999999999999999999999999987 8999999999999998853 4689999999999999
Q ss_pred eeeccC-CC-ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC
Q 005372 172 CYDLLE-VK-TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD 249 (699)
Q Consensus 172 v~DLL~-~~-~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~ 249 (699)
|+|||+ +. ...|++||++--|.||++|+.+.|+|+.|+..+|..|++.|++++|+||+.|||||+||+|.+.+...+.
T Consensus 152 VrDLL~~p~~kg~LRVREHP~lGPYVedLS~~aV~Sy~dI~~~md~GNkqRTtAATnMNdtSSRSHaVFtIvftQk~~~~ 231 (1221)
T KOG0245|consen 152 VRDLLNAPKSKGGLRVREHPILGPYVEDLSKLAVTSYADIQDLMDEGNKQRTTAATNMNDTSSRSHAVFTIVFTQKKHDQ 231 (1221)
T ss_pred HHHHhhCCCCCCCceeeccCccChhHhHhhhcccccHHHHHHHHHhcchhhhhhhhccccccccceeEEEEEEEeeeccc
Confidence 999999 54 4579999999999999999999999999999999999999999999999999999999999999875433
Q ss_pred C---CceEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCC-------CCCCCCCChhhhhccc
Q 005372 250 S---KAALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNK-------PRVPYRESKLTRILQD 316 (699)
Q Consensus 250 ~---~~~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~-------~~IPYRdSKLTrLLqd 316 (699)
. .....|||+||||||||| ++++|+|++||++|||||.+||+||.||++.+ .+||||||.|||||++
T Consensus 232 ~~~l~sek~SKIsLVDLAGSERasstGa~G~RLKEGa~INKSLtTLGkVISALAe~~~~k~~ks~fIPYRDSVLTWLLkE 311 (1221)
T KOG0245|consen 232 DTGLDSEKVSKISLVDLAGSERASSTGANGDRLKEGANINKSLTTLGKVISALAESQKGKKKKSDFIPYRDSVLTWLLKE 311 (1221)
T ss_pred cCCCcceeeeeeeEEeccCcccccccCCCccchhcccccchHHHHHHHHHHHHHHHhccCCCCCccccchHHHHHHHHHH
Confidence 2 356789999999999999 67889999999999999999999999998633 3899999999999999
Q ss_pred ccCCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCCccccCCcchhhHHHHHHHHH-HHhhccchHHHHhhcc
Q 005372 317 SLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDMEAKLRAW-LESKGKTKSAQRMAVR 393 (699)
Q Consensus 317 sLgGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~~~~~~l~~~-le~~~k~~~~~r~~~~ 393 (699)
.|||||||+|||++||+ +|+|||+|||||.|||+|+|. +.+|.|+.++|.+. .++..|+++.++..+.
T Consensus 312 nLGGNSKTaMIAAlSPAdiNyeETLSTLRYAdRAK~Iv~~---------avVNEdpnaKLIRELreEv~rLksll~~~~~ 382 (1221)
T KOG0245|consen 312 NLGGNSKTAMIAALSPADINYEETLSTLRYADRAKQIVNN---------AVVNEDPNAKLIRELREEVARLKSLLRAQGL 382 (1221)
T ss_pred hcCCcchhhhhhccChhhcChHHHHHHHHHhhHhhhhhcc---------ceeCCCccHHHHHHHHHHHHHHHHHHhcccc
Confidence 99999999999999998 699999999999999999995 55666676665544 4556788888887777
Q ss_pred CCCC
Q 005372 394 GTPI 397 (699)
Q Consensus 394 ~~~~ 397 (699)
+.+.
T Consensus 383 ~~~~ 386 (1221)
T KOG0245|consen 383 GDIA 386 (1221)
T ss_pred cccc
Confidence 6554
No 3
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=1.7e-80 Score=717.61 Aligned_cols=333 Identities=35% Similarity=0.560 Sum_probs=289.2
Q ss_pred CCCCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHh
Q 005372 22 TSTSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYS 101 (699)
Q Consensus 22 ~~~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~ 101 (699)
+....||+|+|||||++.+|.... +...|.+.+.. .++.+.-......-.+.|+||+||||+. +|.+||+.
T Consensus 45 ~e~~~NIqVivRcRp~n~~E~~~~---s~~VVs~~~~~-----kEV~v~~~~~sk~~~k~ftFDkVFGpes-~Q~d~Y~~ 115 (1041)
T KOG0243|consen 45 KEKEVNIQVIVRCRPRNDRERKSK---SSVVVSCDGIR-----KEVAVRQTIASKQIDKTFTFDKVFGPES-QQEDLYDQ 115 (1041)
T ss_pred CCCCCceEEEEEeCCCCchhhhcC---CCeEEecCCCc-----ceEEEecccccccccceeecceeeCcch-hHHHHHHH
Confidence 344578999999999999997655 44455554431 2344443322333467899999999986 79999999
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCcceecc--------CCCCCCchHHHHHHHHHhhhc--CCceeEEEEEEEecce
Q 005372 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTMQG--------SEERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMDR 171 (699)
Q Consensus 102 ~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G--------~~~~~GIipral~~LF~~~~~--~~~~v~vS~~EIYnE~ 171 (699)
.|.|+|+.|+.|||||||||||||+||||||.| .+.++|||||++.+||+.+.. ..|.|+|||+|+|||.
T Consensus 116 ~v~p~i~eVl~GyNCTIFAYGQTGTGKTyTMeG~~~~~~g~l~~~aGIIPRal~~IFd~Le~~~~EYsvKVSfLELYNEE 195 (1041)
T KOG0243|consen 116 AVSPIIKEVLEGYNCTIFAYGQTGTGKTYTMEGGERKKNGELPSEAGIIPRALRQIFDTLEAQGAEYSVKVSFLELYNEE 195 (1041)
T ss_pred HHHHHHHHHhccCCceEEEecCCCCCceeeeecCcccccCCCCccCCcchHHHHHHHHHHHhcCCeEEEEEEehhhhhHH
Confidence 999999999999999999999999999999999 467889999999999998865 4689999999999999
Q ss_pred eeeccCCCcc---ceeeeec-----CCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEE
Q 005372 172 CYDLLEVKTK---EISILDD-----KDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVS 243 (699)
Q Consensus 172 v~DLL~~~~~---~l~i~ed-----~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~ 243 (699)
++|||++... .+.+.++ ..|+++|+||.++.|.++.|++++|.+|..+|++++|.||+.|||||+||+|.|+
T Consensus 196 l~DLLa~~~~~~~~~~~k~~~~~~~~kggV~vkGlEEi~V~~A~ei~klLekGs~kRrtAaTl~N~~SSRSHsIFsItvh 275 (1041)
T KOG0243|consen 196 LTDLLASEDTSDKKLRIKDDSTIVDGKGGVIVKGLEEIIVTNADEIYKLLEKGSKKRRTAATLMNDQSSRSHSIFSITVH 275 (1041)
T ss_pred HHHhcCCccccccccccccCCcccCCcCcEEEecceeeeecchhHHHHHHHhhhhHhHHHHHHhhhhccccceEEEEEEE
Confidence 9999987543 3444444 4789999999999999999999999999999999999999999999999999998
Q ss_pred EeecCC--CCceEEEEEEEEEcCCCc---ccccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhccccc
Q 005372 244 TLLGDD--SKAALTGKLNLIDLADNR---RTCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSL 318 (699)
Q Consensus 244 ~~~~~~--~~~~~~skL~fVDLAGse---rt~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsL 318 (699)
...... ......|||+|||||||| |+|+.+.|.+|++.||+||.+||+||+||.++..|||||+|||||||||||
T Consensus 276 ike~t~~geelvK~GKLNLVDLAGSENI~RSGA~~~RArEAG~INqSLLTLGRVInALVe~s~HIPYRESKLTRLLQDSL 355 (1041)
T KOG0243|consen 276 IKENTPEGEELVKIGKLNLVDLAGSENISRSGARNGRAREAGEINQSLLTLGRVINALVEHSGHIPYRESKLTRLLQDSL 355 (1041)
T ss_pred EecCCCcchhhHhhcccceeeccccccccccccccchhHHhhhhhHHHHHHHHHHHHHHccCCCCCchHHHHHHHHHHHh
Confidence 765433 234557999999999998 688888899999999999999999999999999999999999999999999
Q ss_pred CCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCCccccCC
Q 005372 319 GGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKVQT 363 (699)
Q Consensus 319 gGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~~~ 363 (699)
||.++|+||+||||+ +++|||+||.||.||+.|+|+|..|++...
T Consensus 356 GGkTKT~iIATiSPa~~~lEETlSTLEYA~RAKnIkNKPevNQkl~K 402 (1041)
T KOG0243|consen 356 GGKTKTCIIATISPAKHNLEETLSTLEYAHRAKNIKNKPEVNQKLMK 402 (1041)
T ss_pred CCCceeEEEEEeCCCcccHHHHHHHHHHHHHhhhccCCCccchHHHH
Confidence 999999999999998 589999999999999999998877766543
No 4
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=100.00 E-value=2.5e-76 Score=637.25 Aligned_cols=321 Identities=36% Similarity=0.564 Sum_probs=282.4
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceE-EE--ecCCCCCCceeeeeceeeCCCCCcHhHHHHhhc
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVA-VY--LKDPDTIRSECYQLDSFFGQEDESVSKIFYSEV 103 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~-i~--~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v 103 (699)
+|+|+|||||+.+.|...+ ...|+.+.+...+....... .. .........+.|.||+||++++ +|++||+.++
T Consensus 1 ~i~V~vRvRP~~~~E~~~~---~~~~v~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~-~q~~vf~~~~ 76 (338)
T cd01370 1 SLTVAVRVRPFNEKEKQEG---TRRVVKVVDDRMLVFDPKDEEDAFRNLRARRNKELKYSFDRVFDETS-TQEEVYENTT 76 (338)
T ss_pred CeEEEEEcCCCChhhhhcC---CceEEEEcCCCEEEEcCCcccccccchhcccCCceEEEeccccCCCC-CHHHHHHHHH
Confidence 5999999999999985543 56788887653311100000 00 0000122357899999999876 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc----CCceeEEEEEEEecceeeeccCCC
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLEVK 179 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~~~ 179 (699)
+|+|+++++|||+||||||||||||||||+|+.+++||+||++++||+.++. ..+.|++||+|||||+|+|||++.
T Consensus 77 ~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Giipr~~~~LF~~i~~~~~~~~~~v~vS~~EIyne~v~DLL~~~ 156 (338)
T cd01370 77 KPLVDGVLNGYNATVFAYGATGAGKTHTMLGTDSDPGLMVLTMKDLFDKIEERKDDKEFEVSLSYLEIYNETIRDLLSPS 156 (338)
T ss_pred HHHHHHHHCCCCceEEeeCCCCCCCeEEEcCCCCCCchHHHHHHHHHHhhhhcccCceEEEEEEEEEEECCEEEECCCCC
Confidence 9999999999999999999999999999999999999999999999998865 347899999999999999999988
Q ss_pred ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC--CCceEEEE
Q 005372 180 TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALTGK 257 (699)
Q Consensus 180 ~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~--~~~~~~sk 257 (699)
..++.+++++.+++++.|++++.|.|++|++++|+.|..+|++++|.+|..|||||+||+|+|.+..... ......|+
T Consensus 157 ~~~l~i~ed~~~~~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~i~~~~~~~~~~~~~~~s~ 236 (338)
T cd01370 157 SGPLELREDPNQGIVVAGLTEHQPKSAEEILELLMKGNRNRTQEPTEANATSSRSHAVLQITVRQKDRTASINQQVRIGK 236 (338)
T ss_pred CCCceEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccccccCccCcceEEEEEEEEEEecCCCCCCcEEEEE
Confidence 8899999999999999999999999999999999999999999999999999999999999999876542 44567899
Q ss_pred EEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCCC---CCCCCCCChhhhhcccccCCCceeEEEEEeC
Q 005372 258 LNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNNK---PRVPYRESKLTRILQDSLGGTSHALMVACLN 331 (699)
Q Consensus 258 L~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~---~~IPYRdSKLTrLLqdsLgGnskt~mI~~VS 331 (699)
|+||||||+||. +..|.+++|+..||+||.+|++||.+|+.++ .|||||+||||+||||+||||++|+||+|||
T Consensus 237 l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~~L~~~~~~~~~ipyR~SkLT~lL~d~Lggn~~t~~I~~vs 316 (338)
T cd01370 237 LSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINALVDGKKKNKHIPYRDSKLTRLLKDSLGGNCKTVMIANIS 316 (338)
T ss_pred EEEEECCCCccccccCCCCccccccchhhHHHHHHHHHHHHHHhccCCCCcCCCcCCHHHHHHHHhcCCCCeEEEEEEeC
Confidence 999999999984 4578899999999999999999999999987 8999999999999999999999999999999
Q ss_pred CC--ChhhhHHHHHHHHHhhhc
Q 005372 332 PG--EYQESVHTVSLAARSRHI 351 (699)
Q Consensus 332 P~--~~~ETlsTL~fA~rar~I 351 (699)
|. +++||++||+||+|||+|
T Consensus 317 p~~~~~~eTl~TL~fa~ra~~I 338 (338)
T cd01370 317 PSSSHYEETHNTLKYANRAKNI 338 (338)
T ss_pred CchhhHHHHHHHHHHHHHhccC
Confidence 97 699999999999999986
No 5
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=100.00 E-value=1.4e-75 Score=631.27 Aligned_cols=311 Identities=33% Similarity=0.552 Sum_probs=274.2
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccc
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~p 105 (699)
++|+|+|||||+...|... ....|+.+.+++. .+....+ .+.|.||+||++++ +|++||+.+++|
T Consensus 1 ~~i~V~vRvRP~~~~e~~~---~~~~~v~~~~~~~-------~~~~~~~----~~~f~FD~vf~~~~-~q~~vy~~~~~p 65 (337)
T cd01373 1 PAVKVVVRIRPPNEIEADG---GQGQCLKKLSSDT-------LVWHSHP----PRMFTFDHVADSNT-NQEDVFQSVGKP 65 (337)
T ss_pred CCeEEEEEcCcCChhhccc---CCCeEEEEcCCCc-------EEeeCCC----CcEEeCCeEeCCCC-CHHHHHHHHHHH
Confidence 4799999999999888632 2445666554322 2222222 45799999999886 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCC--------CCCchHHHHHHHHHhhhc--------CCceeEEEEEEEec
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEE--------RPGLMPLAMSKILSICQS--------TGSTAEISYYEVYM 169 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~--------~~GIipral~~LF~~~~~--------~~~~v~vS~~EIYn 169 (699)
+|+++++|||+||||||||||||||||+|+.. ++||+||++++||+.++. ..+.|++||+||||
T Consensus 66 ~v~~~~~G~n~ti~aYGqTGSGKTyTm~G~~~~~~~~~~~~~Giipr~~~~Lf~~i~~~~~~~~~~~~~~v~~S~~EIyn 145 (337)
T cd01373 66 LVEDCLSGYNGSIFAYGQTGSGKTYTMMGPSSSDDESPHGLQGVIPRIFEYLFSLIQREEEKRGDGLKFLCKCSFLEIYN 145 (337)
T ss_pred HHHHHhCCCceeEEEeCCCCCCceEEecCCCCccccccccCCCHHHHHHHHHHHHHHhhhhhcccCceEEEEEEEEeecC
Confidence 99999999999999999999999999999753 679999999999987753 24689999999999
Q ss_pred ceeeeccCCCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC
Q 005372 170 DRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD 249 (699)
Q Consensus 170 E~v~DLL~~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~ 249 (699)
|+|||||++....+.+++++.++++++|++++.|.|++|++++|..|..+|++++|.+|..|||||+||+|+|.+.....
T Consensus 146 e~v~DLL~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~ll~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~ 225 (337)
T cd01373 146 EQITDLLDPTSRNLKIREDIKKGVYVENLTEEYVSSYEDVYQVLLKGLSNRKVAATSMNSESSRSHAVFTCTIESWEKKA 225 (337)
T ss_pred CEeeeCCCCCCCCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhccCcccCcCCCCCCCccEEEEEEEEEeecCC
Confidence 99999999988889999999999999999999999999999999999999999999999999999999999998765433
Q ss_pred C-CceEEEEEEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcC----CCCCCCCCCChhhhhcccccCCC
Q 005372 250 S-KAALTGKLNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNN----NKPRVPYRESKLTRILQDSLGGT 321 (699)
Q Consensus 250 ~-~~~~~skL~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~----~~~~IPYRdSKLTrLLqdsLgGn 321 (699)
. .....|+|+||||||+||. +..|.+++|+..||+||++|++||.+|++ +..|||||+||||+||||+||||
T Consensus 226 ~~~~~~~s~l~~VDLAGSEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~aL~~~~~~~~~~ipyR~SkLT~lL~dsLggn 305 (337)
T cd01373 226 SSTNIRTSRLNLVDLAGSERQKDDGAEGVRLKEAKNINKSLSTLGHVIMALVDVAHGKQRHVPYRDSKLTFLLRDSLGGN 305 (337)
T ss_pred CCCcEEEEEEEEEECCCCCcccccCCccHhhhhhccccHHHHHHHHHHHHHHhhccCCCCccCCcccHHHHHHHHhcCCC
Confidence 2 2456799999999999984 45689999999999999999999999974 46899999999999999999999
Q ss_pred ceeEEEEEeCCC--ChhhhHHHHHHHHHhhhc
Q 005372 322 SHALMVACLNPG--EYQESVHTVSLAARSRHI 351 (699)
Q Consensus 322 skt~mI~~VSP~--~~~ETlsTL~fA~rar~I 351 (699)
++|+||+||||+ +++||++||+||+|||+|
T Consensus 306 s~t~~I~~vsP~~~~~~eTl~TL~fa~rak~I 337 (337)
T cd01373 306 AKTTIIANVSPSSKCFGETLSTLKFAQRAKLI 337 (337)
T ss_pred ceEEEEEEECCCcccHHHHHHHHHHHHHhhcC
Confidence 999999999997 689999999999999986
No 6
>PLN03188 kinesin-12 family protein; Provisional
Probab=100.00 E-value=3.4e-75 Score=678.96 Aligned_cols=316 Identities=32% Similarity=0.523 Sum_probs=277.8
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhcc
Q 005372 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVN 104 (699)
Q Consensus 25 ~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~ 104 (699)
.++|+|+|||||+++.|.. .. ++...+.+ .+.+. .+.|.||+||++++ +|++||..++.
T Consensus 97 ds~VkV~VRVRPl~~~E~g-----~~-iV~~~s~d--------sl~I~------~qtFtFD~VFdp~a-TQedVFe~vv~ 155 (1320)
T PLN03188 97 DSGVKVIVRMKPLNKGEEG-----EM-IVQKMSND--------SLTIN------GQTFTFDSIADPES-TQEDIFQLVGA 155 (1320)
T ss_pred CCCeEEEEEcCCCCCccCC-----Ce-eEEEcCCC--------eEEEe------CcEEeCCeeeCCCC-CHHHHHHHHHH
Confidence 5799999999999987621 12 33322222 12222 24799999999975 88999999999
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccCC----------CCCCchHHHHHHHHHhhhc---------CCceeEEEEE
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGSE----------ERPGLMPLAMSKILSICQS---------TGSTAEISYY 165 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~----------~~~GIipral~~LF~~~~~---------~~~~v~vS~~ 165 (699)
|+|+++++|||+||||||||||||||||+|+. .++|||||++++||+.++. ..+.|++||+
T Consensus 156 PLV~svLdGyNaTIFAYGQTGSGKTYTM~G~~~~~~de~~s~~e~GIIPRaledLF~~I~e~q~k~~d~~~~y~V~vSyL 235 (1320)
T PLN03188 156 PLVENCLAGFNSSVFAYGQTGSGKTYTMWGPANGLLEEHLSGDQQGLTPRVFERLFARINEEQIKHADRQLKYQCRCSFL 235 (1320)
T ss_pred HHHHHHhcCCcceeecCCCCCCCCCEeeCCCCCcccccccccccCCchHHHHHHHHHHHHhhhhhccccccceEEEEEEE
Confidence 99999999999999999999999999999963 5689999999999998753 2468999999
Q ss_pred EEecceeeeccCCCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEe
Q 005372 166 EVYMDRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTL 245 (699)
Q Consensus 166 EIYnE~v~DLL~~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~ 245 (699)
|||||+|||||++..+.+.|++++.++++|.||+++.|.|++|+.++|..|..+|++++|.+|..|||||+||+|+|.+.
T Consensus 236 EIYNEkI~DLLsp~~k~L~IRED~kgGv~VeGLTEv~V~S~ED~l~LL~~G~~nR~tasT~mN~~SSRSHaIFtI~Ves~ 315 (1320)
T PLN03188 236 EIYNEQITDLLDPSQKNLQIREDVKSGVYVENLTEEYVKTMKDVTQLLIKGLSNRRTGATSINAESSRSHSVFTCVVESR 315 (1320)
T ss_pred eeecCcceeccccccCCceEEEcCCCCeEeCCCeEEeCCCHHHHHHHHHHHhccceeccCCCCCccCCCceeEEEEEEEe
Confidence 99999999999998888999999999999999999999999999999999999999999999999999999999999864
Q ss_pred ec---CCCCceEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcC-----CCCCCCCCCChhhhhc
Q 005372 246 LG---DDSKAALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNN-----NKPRVPYRESKLTRIL 314 (699)
Q Consensus 246 ~~---~~~~~~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~-----~~~~IPYRdSKLTrLL 314 (699)
.. ++......|+|+||||||+|| ++..|.+++|++.||+||++||+||.+|+. +..|||||+||||+||
T Consensus 316 ~k~~~dg~ss~r~SkLnLVDLAGSER~kkTga~G~RLkEA~~INKSLsaLGnVI~ALae~Sq~gk~~HIPYRDSKLTrLL 395 (1320)
T PLN03188 316 CKSVADGLSSFKTSRINLVDLAGSERQKLTGAAGDRLKEAGNINRSLSQLGNLINILAEISQTGKQRHIPYRDSRLTFLL 395 (1320)
T ss_pred ecccCCCCcceEEEEEEEEECCCchhccccCcccHHHHHHHHHhHHHHHHHHHHHHHHHhhccCCCCcCCCCcchHHHHH
Confidence 32 222344679999999999998 567889999999999999999999999975 3479999999999999
Q ss_pred ccccCCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCCcccc
Q 005372 315 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKV 361 (699)
Q Consensus 315 qdsLgGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~ 361 (699)
||+|||||+|+||+||||+ +++||++||+||+||+.|+|.+.+|...
T Consensus 396 QDSLGGNSKTvMIa~VSPs~~~~eETLSTLrFAsRAK~IKNkpvvNe~~ 444 (1320)
T PLN03188 396 QESLGGNAKLAMVCAISPSQSCKSETFSTLRFAQRAKAIKNKAVVNEVM 444 (1320)
T ss_pred HHhcCCCceEEEEEecCCchhhHHHHHHHHHHHHHHhhcCccceeccch
Confidence 9999999999999999997 6899999999999999999998877554
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=6.7e-75 Score=627.69 Aligned_cols=312 Identities=34% Similarity=0.596 Sum_probs=277.8
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCC---------CCCCceeeeeceeeCCCCCcHh
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP---------DTIRSECYQLDSFFGQEDESVS 96 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~---------~~~~~~~F~FD~VF~~~~~sQ~ 96 (699)
.+|+|+|||||+.+.|.... ..+|+.+.+...+ .+..... .....+.|.||+||++++ +|+
T Consensus 1 ~~i~V~vRvRP~~~~E~~~~---~~~~v~~~~~~~v------~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~-tq~ 70 (345)
T cd01368 1 DPVKVYLRVRPLSKDELESE---DEGCIEVINSTTI------QLHPPKGSAARKSERNGGQKETKFSFSKVFGPNT-TQK 70 (345)
T ss_pred CCEEEEEEeCcCCchhhccC---CCceEEEcCCCEE------EEeCCccccccccccccCCCceEeecCeEECCCC-CHH
Confidence 37999999999999987433 5678887765432 2222111 123467899999999986 889
Q ss_pred HHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEEEecceeeecc
Q 005372 97 KIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDLL 176 (699)
Q Consensus 97 ~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DLL 176 (699)
+||+.++.|+|+++++|||+||||||||||||||||+|+.+++||+||++++||+.++. +.|.+||+|||||+|||||
T Consensus 71 ~vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~G~~~~~Gli~r~~~~lF~~~~~--~~v~~S~~EIyne~v~DLL 148 (345)
T cd01368 71 EFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQGSPGDGGILPRSLDVIFNSIGG--YSVFVSYVEIYNNYIYDLL 148 (345)
T ss_pred HHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEecCCCCCCchHHHHHHHHHHHHHh--eeEEEEEEEEeCCEeEeCC
Confidence 99999999999999999999999999999999999999999999999999999998876 8999999999999999999
Q ss_pred CCCc------cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC-
Q 005372 177 EVKT------KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD- 249 (699)
Q Consensus 177 ~~~~------~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~- 249 (699)
++.. +.+.++++++++++++|++++.|.|++|+.++|..|..+|.+++|.+|..|||||+||+|+|.+.....
T Consensus 149 ~~~~~~~~~~~~l~i~ed~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~N~~SSRSH~i~~i~v~~~~~~~~ 228 (345)
T cd01368 149 EDSPSSTKKRQSLRLREDHNGNMYVAGLTEVEVSSTEEAREVFKRGQKNRRVAGTKLNRESSRSHSVFTIKLVQAPGDSD 228 (345)
T ss_pred CCccccccCCCceEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHhhccceeccccCcCCCCCceEEEEEEEEEeccCcc
Confidence 8754 369999999999999999999999999999999999999999999999999999999999998765432
Q ss_pred ------CCceEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcC------CCCCCCCCCChhhhhc
Q 005372 250 ------SKAALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNN------NKPRVPYRESKLTRIL 314 (699)
Q Consensus 250 ------~~~~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~------~~~~IPYRdSKLTrLL 314 (699)
......|+|+||||||+|| +++.|.+++|+..||+||++|++||.+|++ +..|||||+||||+||
T Consensus 229 ~~~~~~~~~~~~s~l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~aL~~vi~aL~~~~~~~~~~~~iPyR~SkLT~lL 308 (345)
T cd01368 229 GDVDQDKDQITVSQLSLVDLAGSERTSRTQNTGERLKEAGNINTSLMTLGKCIEVLRENQLSGSTNKMVPYRDSKLTHLF 308 (345)
T ss_pred cccccCCCceEEEEEEEEecccccccccccccchhhhhhhhhhHHHHHHHHHHHHHHhhhcccCCCCcCCCcCCHHHHHH
Confidence 2445689999999999998 456889999999999999999999999986 4689999999999999
Q ss_pred ccccCCCceeEEEEEeCCC--ChhhhHHHHHHHHHhh
Q 005372 315 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSR 349 (699)
Q Consensus 315 qdsLgGnskt~mI~~VSP~--~~~ETlsTL~fA~rar 349 (699)
||+||||++|+||+||||+ +++||++||+||++|+
T Consensus 309 ~~~l~g~s~t~~I~~vsp~~~~~~eTl~tL~fa~~a~ 345 (345)
T cd01368 309 QNYFDGEGKARMIVNVNPCASDYDETLHVMKFSAIAQ 345 (345)
T ss_pred HHhcCCCCeEEEEEEeCCchhhHHHHHHHHHHHHhcC
Confidence 9999999999999999997 6999999999999985
No 8
>KOG0242 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=3.8e-75 Score=670.33 Aligned_cols=345 Identities=39% Similarity=0.607 Sum_probs=292.9
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEe--cCCCCCCceeeeeceeeCCCCCcHhHHHHh
Q 005372 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYL--KDPDTIRSECYQLDSFFGQEDESVSKIFYS 101 (699)
Q Consensus 24 ~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~--~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~ 101 (699)
...+|.|+|||||+++.|...+ +...+..+.|... .... ..+.......|.||+||++++ +|++||+.
T Consensus 4 ~~~~i~V~vrvRP~~~~~~~~~--~~~~~~~~~d~~~-------~~~~~~~~~~~~~~~~y~FD~VF~~~~-t~~~VYe~ 73 (675)
T KOG0242|consen 4 TEEKILVSVRVRPLNEREDARG--DRSDWHCINDTTL-------FKRVTKSLPEKSKPEKYEFDRVFGEES-TQEDVYER 73 (675)
T ss_pred ccceeEEEEEeCCCCccccccC--CccceEecCCcee-------EeeccccccccccccceeeeeecCCCC-CHHHHHHh
Confidence 3468999999999998853222 2222222222211 1111 111111246799999999987 67999999
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCC---ceeEEEEEEEecceeeeccCC
Q 005372 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTG---STAEISYYEVYMDRCYDLLEV 178 (699)
Q Consensus 102 ~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~---~~v~vS~~EIYnE~v~DLL~~ 178 (699)
.++|+|+++++|||+||||||||||||||||.|..++|||+|+++.+||+.+.... +.+.|||+|||||.|+|||++
T Consensus 74 ~tkpiv~~~l~G~N~TVFAYG~TgSGKTyTM~G~~~~PGii~la~~dif~~I~~~~~r~f~v~vSYlEIYNE~I~DLL~~ 153 (675)
T KOG0242|consen 74 TTKPLLLSVLEGFNATVFAYGQTGSGKTYTMSGSEDDPGIIPLAMKDIFEKIDKSGEREFSVRVSYLEIYNERIRDLLNP 153 (675)
T ss_pred ccHHHHHHHhcCcccceeeecCCCCCCceEEeccCCCCCeeehHHHHHHHHHHhcCCceeEEEEEEEEEeccccccccCC
Confidence 99999999999999999999999999999999999999999999999999987644 899999999999999999999
Q ss_pred CccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEE
Q 005372 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (699)
Q Consensus 179 ~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL 258 (699)
+..++.++||+.++++|.||++..|.|.++++++|..|..+|+++.|.+|..|||||+||+|.|.+...... . ..++|
T Consensus 154 ~~~~L~irED~~~gi~V~gL~e~~v~s~e~~~~ll~~g~~~R~~g~T~~N~~SSRSHaIl~i~i~s~~~~~~-~-~~s~L 231 (675)
T KOG0242|consen 154 DGGDLRLREDSEGGIVVPGLTEETVSSREELLELLQKGNKNRTTGETNLNEQSSRSHAILRITVESRGREAS-S-RVSKL 231 (675)
T ss_pred CCCCceEeEcCCCCEEecCCeeecCCCHHHHHHHHHHhhccCcccccccccccchhhheeeEEEEecccccc-c-hhhee
Confidence 999999999999999999999999999999999999999999999999999999999999999998764433 2 67899
Q ss_pred EEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCC--CCCCCCCCChhhhhcccccCCCceeEEEEEeCCC
Q 005372 259 NLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNN--KPRVPYRESKLTRILQDSLGGTSHALMVACLNPG 333 (699)
Q Consensus 259 ~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~--~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~ 333 (699)
+||||||+|| +++.|.|++||++||+||++||+||++|.++ ..||||||||||||||++||||++|.|||||+|+
T Consensus 232 ~lIDLAGSERas~T~~~G~RlkEG~~INrSLlaLgtVI~~Ls~~~~~~hipYRDSKLTRiLq~sLgGn~rt~~I~tisp~ 311 (675)
T KOG0242|consen 232 NLIDLAGSERASRTGNEGVRLKEGAHINRSLLALGTVINKLSEGKRPRHIPYRDSKLTRLLQDSLGGNARTAIIATISPS 311 (675)
T ss_pred hhhhhhhhhhhhhhhccceeccccchhhHHHHHHHHHHHHHccccccCCCCccccHHHHhchhhcCCCccEEEEEEeCch
Confidence 9999999997 6778889999999999999999999999987 4689999999999999999999999999999998
Q ss_pred --ChhhhHHHHHHHHHhhhccccCCCccccCCcchhhHH---HHHHHHHHHh
Q 005372 334 --EYQESVHTVSLAARSRHISNTLPSAQKVQTPMVKIDM---EAKLRAWLES 380 (699)
Q Consensus 334 --~~~ETlsTL~fA~rar~I~N~~~~~~~~~~~~~~~~~---~~~l~~~le~ 380 (699)
+|+||.+||+||+||++|++.+..|............ ...|+..++.
T Consensus 312 ~~~~~eT~nTL~fAsrak~i~~~~~~n~~~~~~~~~~~~~~~i~~l~~e~~~ 363 (675)
T KOG0242|consen 312 SSHYEETKNTLKFASRAKEITTKAQVNVILSDKALLKYLQREIAELEAELER 363 (675)
T ss_pred hhHHHHHHHHHHHHHHhhhcccccccceecchhhhhHHHHHHHHHHHHHHHh
Confidence 5999999999999999999988777665544333222 2344444444
No 9
>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=2.2e-73 Score=618.33 Aligned_cols=320 Identities=35% Similarity=0.558 Sum_probs=284.5
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCC-----CCCceeeeeceeeCCCC------Cc
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD-----TIRSECYQLDSFFGQED------ES 94 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~-----~~~~~~F~FD~VF~~~~------~s 94 (699)
++|+|+||+||++..|...+ +..++.+.+. .+.+.++. ......|.||+||++.+ .+
T Consensus 1 ~~i~V~vRvRP~~~~E~~~~---~~~~~~~~~~---------~v~v~~~~~~~~~~~~~~~f~FD~vf~~~~~~~~~~~t 68 (356)
T cd01365 1 ANVKVAVRVRPFNSREKNRG---SKCIVQMPGK---------VTTLKNPKAADATRKKPKSFSFDHSYWSHDSEDPHYAS 68 (356)
T ss_pred CCEEEEEEeCcCChhhhccC---CceEEEECCC---------EEEEEcCCcccccccCceEEECCeEecccCCCCCCCCC
Confidence 48999999999999887654 4667777552 23333333 34567899999998861 38
Q ss_pred HhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc-----CCceeEEEEEEEec
Q 005372 95 VSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYM 169 (699)
Q Consensus 95 Q~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~-----~~~~v~vS~~EIYn 169 (699)
|++||+..+.|+|+++++|||+||||||||||||||||+|+..++||+||++++||+.++. ..+.|.+||+|||+
T Consensus 69 q~~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~G~~~~~Gli~r~~~~Lf~~~~~~~~~~~~~~v~~S~~EIy~ 148 (356)
T cd01365 69 QEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMGYKEEKGIIPRLCEELFQRIESKKEQNLSYEVEVSYMEIYN 148 (356)
T ss_pred HHHHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEEC
Confidence 8999999999999999999999999999999999999999999999999999999998754 34689999999999
Q ss_pred ceeeeccCCCc---cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEee
Q 005372 170 DRCYDLLEVKT---KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLL 246 (699)
Q Consensus 170 E~v~DLL~~~~---~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~ 246 (699)
|+|||||++.. ..+.+++++.++++++|++++.|.|++|+..+|..|.++|..++|.+|..|||||+||+|+|.+..
T Consensus 149 e~v~DLL~~~~~~~~~l~i~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~l~v~~~~ 228 (356)
T cd01365 149 EKVRDLLNPKKKNKGNLKVREHPVLGPYVEDLSKVAVTSYEDIQNLLEEGNKSRTTASTNMNDTSSRSHAVFTIVLTQKK 228 (356)
T ss_pred CeeeeCCCCCccCCcCceEEECCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhcccccCCCCCCCcCCceEEEEEEEEEEe
Confidence 99999999874 679999999999999999999999999999999999999999999999999999999999998865
Q ss_pred cC---CCCceEEEEEEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCC--------CCCCCCCCChhhh
Q 005372 247 GD---DSKAALTGKLNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNN--------KPRVPYRESKLTR 312 (699)
Q Consensus 247 ~~---~~~~~~~skL~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~--------~~~IPYRdSKLTr 312 (699)
.. .......|+|+||||||+|+. +..|.+++|+..||+||++|++||.+|..+ ..|||||+||||+
T Consensus 229 ~~~~~~~~~~~~s~l~~VDLAGsEr~~~~~~~~~~~~E~~~IN~SL~aL~~vi~~l~~~~~~~~~~~~~~ipyR~SkLT~ 308 (356)
T cd01365 229 LDKETDLTTEKVSKISLVDLAGSERASSTGAEGDRLKEGSNINKSLTTLGKVISALADNSSAKSKKKSSFIPYRDSVLTW 308 (356)
T ss_pred cccCCCCCceEEEEEEeeecccccccccccccchhhHHHHHHhHHHHHHHHHHHHHHhcccccccCCCCcCCCcCcHHHH
Confidence 43 244567899999999999984 456889999999999999999999999864 4799999999999
Q ss_pred hcccccCCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCC
Q 005372 313 ILQDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPS 357 (699)
Q Consensus 313 LLqdsLgGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~ 357 (699)
||||+||||++|+||+||+|. +++||++||+||+|+++|+|.+..
T Consensus 309 lL~~~lgg~s~t~~I~~vsp~~~~~~eTl~tL~fa~~~~~i~~~~~~ 355 (356)
T cd01365 309 LLKENLGGNSKTAMIATISPADINYEETLSTLRYADRAKKIVNVAVV 355 (356)
T ss_pred HHHHhcCCCceEEEEEEeCCCcccHHHHHHHHHHHHHHhhccCcccc
Confidence 999999999999999999998 799999999999999999997643
No 10
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=100.00 E-value=1.7e-74 Score=629.49 Aligned_cols=324 Identities=36% Similarity=0.578 Sum_probs=286.1
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhc
Q 005372 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEV 103 (699)
Q Consensus 24 ~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v 103 (699)
..++|+|+||+||++..|...+... ..|. .. .+-++.+...+. ...|.||+||.+++ +|++||...+
T Consensus 5 ~~~~IkV~cR~rP~n~~E~~~~~~~-i~~~--~~-------~~~~v~~~~~~~--~~~y~FDrVF~pna-tQe~Vy~~~a 71 (607)
T KOG0240|consen 5 AECSIKVVCRFRPLNGLENNLGSKF-IDCF--EN-------GENTVVLETTKE--TKTYVFDRVFSPNA-TQEDVYEFAA 71 (607)
T ss_pred CCCceEEEEEeecCCchhhhcCCcC-ccCC--CC-------CcceEEEecccc--cccceeeeecCCCc-cHHHHHHHHH
Confidence 4578999999999999886554221 1111 11 022444443322 26899999999986 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCchHHHHHHHHHhhhcC----CceeEEEEEEEecceeeecc
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQST----GSTAEISYYEVYMDRCYDLL 176 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~---~~GIipral~~LF~~~~~~----~~~v~vS~~EIYnE~v~DLL 176 (699)
.|+|++|+.|||+||||||||||||||||.|... ..||+||++++||..+.+. .|.|+|||||||+|+++|||
T Consensus 72 ~~Iv~dVL~GYNGTvfaYGqT~sGKTytm~G~~~d~~~~GIipRi~~diF~~Iys~~~n~efhVkVsy~EIYmEKi~DLL 151 (607)
T KOG0240|consen 72 KPIVDDVLLGYNGTVFAYGQTGSGKTYTMEGIGHDPEEMGIIPRILNDIFDHIYSMEENLEFHVKVSYFEIYMEKIRDLL 151 (607)
T ss_pred HHHHHHHhcccceeEEEecCCCCCcceeecccCCChhhcCcHHHHHHHHHHHHhcCcccceEEEEEEeehhhhhHHHHHh
Confidence 9999999999999999999999999999999866 4599999999999998753 57899999999999999999
Q ss_pred CCCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEE
Q 005372 177 EVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTG 256 (699)
Q Consensus 177 ~~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~s 256 (699)
++....+.+++|+...++|+|+++..|.++++++++++.|..+|+++.|+||.+|||||+||+|+|.+.+.+.. ....|
T Consensus 152 ~~~k~nlsvheDK~~v~~vkG~t~~~v~s~d~v~~~i~~g~~nr~va~t~mn~~sSRSHsIF~i~VkQ~n~e~~-~~~~g 230 (607)
T KOG0240|consen 152 DPEKTNLSVHEDKNRVPYVKGVTERFVSSPDEVLDVIDEGKSNRHVAVTNMNEHSSRSHSIFLIHVKQENVEDK-RKLSG 230 (607)
T ss_pred CcccCCceeecccCCCceecCceeEEecCHHHHHHHHhcccccchhhhccccccccccceEEEEEEEeccccch-hhccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999876443 45789
Q ss_pred EEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCC-CCCCCCCCChhhhhcccccCCCceeEEEEEeCC
Q 005372 257 KLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNN-KPRVPYRESKLTRILQDSLGGTSHALMVACLNP 332 (699)
Q Consensus 257 kL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~-~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP 332 (699)
||.||||||+|+ ++++|.-+.|+++||+||+|||+||++|+++ +.|||||||||||||||+|||||+|.+|.|++|
T Consensus 231 kLyLVDLaGSEkvsKtga~g~vleEaK~INkSLsaLgnvI~aLa~g~~shipYRDSKLTRILqdSLGGNsRTtlIi~csP 310 (607)
T KOG0240|consen 231 KLYLVDLAGSEKVSKTGAEGAVLEEAKNINKSLSALGNVINALAEGPKSHIPYRDSKLTRILQDSLGGNSRTTLIICCSP 310 (607)
T ss_pred cEEEEEcccccccCCCCccchhHHHHhhhhhhHHHHHHHHHHHhcCCCCCCcchhhHHHHHHHHHhCCCcceEEEEecCC
Confidence 999999999997 6778888999999999999999999999998 789999999999999999999999999999999
Q ss_pred CCh--hhhHHHHHHHHHhhhccccCCCcccc
Q 005372 333 GEY--QESVHTVSLAARSRHISNTLPSAQKV 361 (699)
Q Consensus 333 ~~~--~ETlsTL~fA~rar~I~N~~~~~~~~ 361 (699)
+.| .||.+||+|++||+.|+|.+..|...
T Consensus 311 ss~n~~ET~STl~fg~rak~ikN~v~~n~e~ 341 (607)
T KOG0240|consen 311 SSLNEAETKSTLRFGNRAKTIKNTVWVNLEL 341 (607)
T ss_pred ccccccccccchhhccccccccchhhhhhHh
Confidence 954 69999999999999999977665443
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=3.3e-73 Score=609.25 Aligned_cols=309 Identities=37% Similarity=0.589 Sum_probs=274.8
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecC-----CCCCCceeeeeceeeCCCCCcHhHHHH
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKD-----PDTIRSECYQLDSFFGQEDESVSKIFY 100 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~-----~~~~~~~~F~FD~VF~~~~~sQ~~Vf~ 100 (699)
.+|+|+|||||+.+.|.... ..+++.+.+... +.+.-.. ........|.||+||++++ +|++||+
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~------v~~~~~~~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vf~ 70 (322)
T cd01367 1 MKITVAVRKRPLNDKELSKG---ETDVVSCESNPT------VTVHEPKTKVDLTKYIEKHTFRFDYVFDEAV-TNEEVYR 70 (322)
T ss_pred CCeEEEEEcCcCChhhhccC---CceEEEECCCCE------EEEecCccccccccccCCceEecceEECCCC-CHHHHHH
Confidence 47999999999999886532 344566554322 2222111 1111256899999999986 8899999
Q ss_pred hhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc--CCceeEEEEEEEecceeeeccCC
Q 005372 101 SEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMDRCYDLLEV 178 (699)
Q Consensus 101 ~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~--~~~~v~vS~~EIYnE~v~DLL~~ 178 (699)
..++|+|+.+++|||+||||||||||||||||+|+.+++||+||++++||+.++. ..+.|++||+|||+|+++|||++
T Consensus 71 ~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G~~~~~Glipr~~~~lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~ 150 (322)
T cd01367 71 STVKPLIPHVFEGGVATCFAYGQTGSGKTYTMLGDENQEGLYALAARDIFRLLAQPNDDLGVTVSFFEIYGGKLFDLLND 150 (322)
T ss_pred HHHHHHHHHHhCCCceEEEeccCCCCCCceEecCcCCcCccHHHHHHHHHHHHhccccccEEEEEEEeeecCchhhhccC
Confidence 9999999999999999999999999999999999999999999999999999876 46899999999999999999987
Q ss_pred CccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEE
Q 005372 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (699)
Q Consensus 179 ~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL 258 (699)
.+++.+++++.+++++.|++++.|.|++|++++|+.|..+|+.++|.+|..|||||+||+|+|.+... ....|+|
T Consensus 151 -~~~l~i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~----~~~~s~l 225 (322)
T cd01367 151 -RKRLSVLEDGKGNVQIVGLTEKPVTSVDELLELIESGNSLRTTGSTGANDQSSRSHAILQIILKNKKL----NKLLGKL 225 (322)
T ss_pred -ccceeEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHhcccccccCcCCCCcccceEEEEEEEEEecC----CeeEEEE
Confidence 56799999999999999999999999999999999999999999999999999999999999987653 3568999
Q ss_pred EEEEcCCCcccc----cchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCCCceeEEEEEeCCC-
Q 005372 259 NLIDLADNRRTC----NEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG- 333 (699)
Q Consensus 259 ~fVDLAGsert~----~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~- 333 (699)
+||||||+|+.. ..+.+++|+..||+||++|++||.+|++++.||||||||||+||||+||||++|+||+||||.
T Consensus 226 ~~vDLAGsE~~~~~~~~~~~~~~e~~~IN~SL~~L~~vi~al~~~~~~iPyRdSkLT~lL~~~L~g~~~t~~I~~vsp~~ 305 (322)
T cd01367 226 SFIDLAGSERGADTSEHDRQTRKEGAEINKSLLALKECIRALASNKAHVPFRGSKLTQVLRDSFIGNSKTVMIATISPSA 305 (322)
T ss_pred EEeecCCccccccccccchhhHHhHhHHhHHHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhhCCCCeEEEEEEeCCch
Confidence 999999999843 357889999999999999999999999999999999999999999999999999999999998
Q ss_pred -ChhhhHHHHHHHHHhh
Q 005372 334 -EYQESVHTVSLAARSR 349 (699)
Q Consensus 334 -~~~ETlsTL~fA~rar 349 (699)
+++||++||+||+|+|
T Consensus 306 ~~~~eTl~tL~fa~r~k 322 (322)
T cd01367 306 SSCEHTLNTLRYADRVK 322 (322)
T ss_pred hhHHHHHHHHHHHHhhC
Confidence 7999999999999985
No 12
>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=1e-72 Score=604.67 Aligned_cols=311 Identities=49% Similarity=0.780 Sum_probs=281.0
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCC-CCCceeeeeceeeCCCCCcHhHHHHhhccc
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD-TIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~-~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~p 105 (699)
+|+|+|||||+.+.|.. ...|+.+.+.+.. ....+.+.++. ....+.|.||+||++++ +|++||+..+.|
T Consensus 1 ~i~V~vRvRP~~~~e~~-----~~~~v~~~~~~~~---~~~~v~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vy~~~~~p 71 (319)
T cd01376 1 NVRVVVRVRPFLDCEED-----SSSCVRGIDSDQG---QAKSVEIENPRNRGETKKYQFDAFYGTEC-TQEDIFSREVKP 71 (319)
T ss_pred CcEEEEEeCcCCccccC-----CCceEEEeCCCCC---cceEEEEeCCCCCCCccEEecCeEECCCC-CHHHHHHHHHHH
Confidence 68999999999988832 3456766555321 22355555553 34567899999999886 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcC--CceeEEEEEEEecceeeeccCCCccce
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQST--GSTAEISYYEVYMDRCYDLLEVKTKEI 183 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~--~~~v~vS~~EIYnE~v~DLL~~~~~~l 183 (699)
+|+.+++|||+||||||||||||||||+|+..++||+||++++||+.++.. .+.|++||+|||+|++||||++....+
T Consensus 72 lv~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~~~~l 151 (319)
T cd01376 72 IVPHLLSGQNATVFAYGSTGAGKTHTMLGDPNEPGLIPRTLSDLLRMGRKQAWTGAFSMSYYEIYNEKVYDLLEPAKKEL 151 (319)
T ss_pred HHHHHhCCCceEEEEECCCCCCCcEEEeCCcCccchHHHHHHHHHHHHhhccccceEEEEEEEEECCEeeEccCCCCCCc
Confidence 999999999999999999999999999999999999999999999988664 679999999999999999999988889
Q ss_pred eeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEEEEEEc
Q 005372 184 SILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDL 263 (699)
Q Consensus 184 ~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL~fVDL 263 (699)
.+++++++++++.|++++.|.|++|+.+++..|.++|..++|.+|..|||||+||+|+|.+... .....|+|+||||
T Consensus 152 ~i~~~~~~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~SSRSH~i~~i~v~~~~~---~~~~~s~l~~VDL 228 (319)
T cd01376 152 PIREDKDGNILIVGLTSKPIKSMAEFEEAYIPASKNRTVAATKLNDNSSRSHAVLRIKVTQPAS---NIQLEGKLNLIDL 228 (319)
T ss_pred eEEEcCCCCEEeeCCEEEEeCCHHHHHHHHHHHHhhhccccCcCCCccCCCeEEEEEEEEEECC---CceEEEEEEEEEC
Confidence 9999999999999999999999999999999999999999999999999999999999987643 2357899999999
Q ss_pred CCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCCCceeEEEEEeCCC--Chhhh
Q 005372 264 ADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG--EYQES 338 (699)
Q Consensus 264 AGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~--~~~ET 338 (699)
||+|+ .+.+|.+++|+..||+||++|++||.+|..+..|||||+|+||+||+|+|||||+|+||+||||. +++||
T Consensus 229 AGsE~~~~~~~~g~~~~e~~~iN~Sl~~L~~vi~aL~~~~~~ipyr~S~LT~lL~~~L~g~s~t~~i~~vsp~~~~~~eT 308 (319)
T cd01376 229 AGSEDNRRTGNEGIRLKESAAINSSLFVLSKVVDALNKGLPRIPYRESKLTRLLQDSLGGGSRCIMVANIAPERSFYQDT 308 (319)
T ss_pred CCCCcccccCCccchhhhhhhhhhhHHHHHHHHHHHhcCCCcCCCccCHHHHHHHHhcCCCccEEEEEEeCCchhhHHHH
Confidence 99996 46778999999999999999999999999999999999999999999999999999999999998 69999
Q ss_pred HHHHHHHHHhh
Q 005372 339 VHTVSLAARSR 349 (699)
Q Consensus 339 lsTL~fA~rar 349 (699)
++||+||+|+|
T Consensus 309 l~TL~fa~r~~ 319 (319)
T cd01376 309 LSTLNFASRSK 319 (319)
T ss_pred HHHHHHHHhhC
Confidence 99999999986
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=1.7e-72 Score=610.44 Aligned_cols=323 Identities=36% Similarity=0.600 Sum_probs=285.6
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCC--CCCceeeeeceeeCCCCCcHhHHHHhhc
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD--TIRSECYQLDSFFGQEDESVSKIFYSEV 103 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~--~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v 103 (699)
.+|+|+||+||+...|... +...++.+.+... ++.+.++. ......|.||+||++++ +|++||+..+
T Consensus 2 ~~i~V~vRvRP~~~~e~~~---~~~~~i~~~~~~~-------~i~~~~~~~~~~~~~~f~Fd~vf~~~~-~q~~vy~~~~ 70 (352)
T cd01364 2 SNIQVVVRCRPRNSRERKE---KSSVVVEVSGSSK-------EIIVSTGGADKQSTKTYTFDKVFGPEA-DQIEVYSQVV 70 (352)
T ss_pred CCEEEEEEcCcCCcccccc---CCCeEEEEcCCCc-------EEEEcCCCcccccceeEeccccCCCCC-CHHHHHHHHH
Confidence 5899999999999988543 2556777765422 33333332 33456899999999886 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCC-----------CCCCchHHHHHHHHHhhhc--CCceeEEEEEEEecc
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE-----------ERPGLMPLAMSKILSICQS--TGSTAEISYYEVYMD 170 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~-----------~~~GIipral~~LF~~~~~--~~~~v~vS~~EIYnE 170 (699)
.|+|+++++|||+||||||||||||||||+|+. +++||+||++++||+.++. ..+.|++||+|||+|
T Consensus 71 ~plv~~~~~G~n~~i~ayG~tgSGKTyTl~G~~~~~~~~~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~v~~S~~EIy~e 150 (352)
T cd01364 71 SPILDEVLMGYNCTIFAYGQTGTGKTYTMEGDRTDNKGSTWELSPHAGIIPRALYQLFEKLESQNTEYSVKVSYLELYNE 150 (352)
T ss_pred HHHHHHHhCCCeEEEEECCCCCCCCcEEecCCCcccccccccccccCCchHHHHHHHHHHHHhccceeEEEEEEEEeeCC
Confidence 999999999999999999999999999999974 3489999999999998876 457899999999999
Q ss_pred eeeeccCCC---ccceeeeec--CCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEe
Q 005372 171 RCYDLLEVK---TKEISILDD--KDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTL 245 (699)
Q Consensus 171 ~v~DLL~~~---~~~l~i~ed--~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~ 245 (699)
++||||++. .+++.++++ ..+++++.|++++.|.|++|+.++|+.|.++|++++|.+|..|||||+||+|+|.+.
T Consensus 151 ~v~DLL~~~~~~~~~l~i~e~~~~~~g~~v~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRSH~i~~i~i~~~ 230 (352)
T cd01364 151 ELFDLLSSESDLNKPLRIFDDTNNKGGVVIQGLEEITVNNANEGLKLLEKGSAKRKTAATLMNDQSSRSHSIFSITIHIK 230 (352)
T ss_pred eeeeCCCCccccCccceEEeccCcCCCEEeCCcEEEEeCCHHHHHHHHHHHhhhcccccCcCCCCCCCCceEEEEEEEEe
Confidence 999999986 568999999 689999999999999999999999999999999999999999999999999999876
Q ss_pred ecC--CCCceEEEEEEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCC
Q 005372 246 LGD--DSKAALTGKLNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGG 320 (699)
Q Consensus 246 ~~~--~~~~~~~skL~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgG 320 (699)
... +......|+|+||||||+|+. +..+.+++|+..||+||.+|++||.+|+.++.|||||+||||+||+|+|||
T Consensus 231 ~~~~~~~~~~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~iN~SL~~L~~vi~al~~~~~~vpyR~S~LT~lL~~~Lgg 310 (352)
T cd01364 231 ETTISGEELVKIGKLNLVDLAGSENIGRSGAENKRAREAGNINQSLLTLGRVINALVEKSPHIPYRESKLTRLLQDSLGG 310 (352)
T ss_pred ccCCCCCccEEEEEEEEEECCCccccccccCcchhhHHHhhhhHHHHHHHHHHHHHHcCCCCCCCcccHHHHHHHHhcCC
Confidence 543 223345799999999999974 456679999999999999999999999999999999999999999999999
Q ss_pred CceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCCcc
Q 005372 321 TSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQ 359 (699)
Q Consensus 321 nskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~ 359 (699)
||+|+||+||+|. +++||++||+||+|+|+|+|.|..|+
T Consensus 311 ~s~t~~I~~vsp~~~~~~eTl~TL~~a~~~~~i~n~P~~n~ 351 (352)
T cd01364 311 RTKTSIIATISPASINLEETLSTLEYAHRAKNIKNKPEVNQ 351 (352)
T ss_pred CceEEEEEEeCCCcccHHHHHHHHHHHHHHhhccCccccCC
Confidence 9999999999997 69999999999999999999887665
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=3.8e-72 Score=603.57 Aligned_cols=315 Identities=34% Similarity=0.577 Sum_probs=280.7
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCC---CCceeeeeceeeCCCCCcHhHHHHhh
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDT---IRSECYQLDSFFGQEDESVSKIFYSE 102 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~---~~~~~F~FD~VF~~~~~sQ~~Vf~~~ 102 (699)
.+|+|+|||||+++.|.... ...++.+.+... ++.+.++.. ...+.|.||+||++++ +|++||+..
T Consensus 1 ~~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~-------~v~~~~~~~~~~~~~~~f~fd~vf~~~~-~q~~vy~~~ 69 (333)
T cd01371 1 ENVKVVVRCRPLNKREKSEG---APEIVGVDENRG-------QVTVHNPKADAKEPPKVFTFDAVYDPNS-TQEDVYNET 69 (333)
T ss_pred CCeEEEEEcCcCChhhhhcC---CCeEEEEcCCCC-------EEEEeCCcccccCCCceeeeccccCCCc-cHHHHHHHH
Confidence 37999999999999886543 345666654322 344444432 4467899999999986 889999999
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCchHHHHHHHHHhhhc---CCceeEEEEEEEecceeeecc
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLL 176 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~---~~GIipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL 176 (699)
+.|+|+++++|+|+||||||||||||||||+|+.. ++|||||++++||+.++. ..+.|.+||+|||+|+++|||
T Consensus 70 ~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~Lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL 149 (333)
T cd01371 70 ARPLVDSVLEGYNGTIFAYGQTGTGKTFTMEGVREPPELRGIIPNSFAHIFGHIAKAENVQFLVRVSYLEIYNEEVRDLL 149 (333)
T ss_pred HHHHHHHHhCCCceeEEecCCCCCCCcEeecCCCCcccccchHHHHHHHHHHHHhhccCccEEEEEEEEEeeCCeeeeCC
Confidence 99999999999999999999999999999999887 899999999999998764 457899999999999999999
Q ss_pred CCCc-cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecC--CCCce
Q 005372 177 EVKT-KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD--DSKAA 253 (699)
Q Consensus 177 ~~~~-~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~--~~~~~ 253 (699)
.+.. +.+.+++++.++++|.|++++.|.|++|+..+|+.|.++|..+.|.+|..|||||+||+|+|++.... +....
T Consensus 150 ~~~~~~~l~i~~~~~~~~~v~~l~~~~v~s~~~~~~~l~~g~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~ 229 (333)
T cd01371 150 GKDQKKKLELKERPDRGVYVKDLSMFVVKNAEEMDKLMTLGNKNRSVGATNMNEDSSRSHSIFTITIECSEKGEDGENHI 229 (333)
T ss_pred CCCCCCceeEEEcCCCCEEeCCCEEEEeCCHHHHHHHHHHHHhhCccccccccCCCCCCcEEEEEEEEEEeccCCCCCcE
Confidence 9876 57999999999999999999999999999999999999999999999999999999999999887543 24455
Q ss_pred EEEEEEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCCCC-CCCCCCChhhhhcccccCCCceeEEEEE
Q 005372 254 LTGKLNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNNKP-RVPYRESKLTRILQDSLGGTSHALMVAC 329 (699)
Q Consensus 254 ~~skL~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~-~IPYRdSKLTrLLqdsLgGnskt~mI~~ 329 (699)
..|+|+||||||+|+. +..|.+++|+..||+||.+|++||.+|.+++. |||||+||||+||+|+||||++|+||+|
T Consensus 230 ~~s~L~~VDLAGsEr~~~~~~~~~~~~E~~~iN~sL~~L~~vi~al~~~~~~~ipyR~SkLT~lL~~~l~g~s~t~~I~~ 309 (333)
T cd01371 230 RVGKLNLVDLAGSERQSKTGATGDRLKEATKINLSLSALGNVISALVDGKSTHIPYRDSKLTRLLQDSLGGNSKTVMCAN 309 (333)
T ss_pred EEEEEEEEECCCCCcccccCCchhhhHhHhhhhhHHHHHHHHHHHHHhCCCCcCCCccCHHHHHHHHhcCCCceEEEEEE
Confidence 6799999999999984 45678999999999999999999999999876 9999999999999999999999999999
Q ss_pred eCCC--ChhhhHHHHHHHHHhhhc
Q 005372 330 LNPG--EYQESVHTVSLAARSRHI 351 (699)
Q Consensus 330 VSP~--~~~ETlsTL~fA~rar~I 351 (699)
|+|. +++||++||+||+|+|+|
T Consensus 310 vsP~~~~~~eTl~TL~fa~r~r~I 333 (333)
T cd01371 310 IGPADYNYDETLSTLRYANRAKNI 333 (333)
T ss_pred eCCccccHHHHHHHHHHHHHhhcC
Confidence 9997 699999999999999986
No 15
>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=3.2e-71 Score=593.43 Aligned_cols=310 Identities=34% Similarity=0.582 Sum_probs=279.4
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccch
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPL 106 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~pl 106 (699)
+|+|+||+||+...|.. +..+++.+.+.. ++.+.++ ...+.|.||+||++++ +|++||+..+.|+
T Consensus 1 ~V~V~vRvRP~~~~e~~----~~~~~~~~~~~~--------~v~~~~~--~~~~~f~fd~vf~~~~-~q~~vy~~~~~p~ 65 (321)
T cd01374 1 KIKVSVRVRPLNPRESD----NEQVAWSIDNDN--------TISLEES--TPGQSFTFDRVFGGES-TNREVYERIAKPV 65 (321)
T ss_pred CeEEEEEcCcCCccccc----CCcceEEECCCC--------EEEEcCC--CCCeEEecCeEECCCC-CHHHHHHHHHHHH
Confidence 69999999999998862 234566665431 2333332 3456899999999986 8899999999999
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc---CCceeEEEEEEEecceeeeccCCCccce
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLLEVKTKEI 183 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL~~~~~~l 183 (699)
|+++++|+|+||||||||||||||||+|+.+++||+||++++||+.++. ..+.|++||+|||||++||||++...++
T Consensus 66 v~~~l~G~n~~i~ayG~tgSGKT~T~~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~DLL~~~~~~l 145 (321)
T cd01374 66 VRSALEGYNGTIFAYGQTSSGKTFTMSGDEQEPGIIPLAVRDIFQRIQDTPDREFLLRVSYLEIYNEKIKDLLSPSPQEL 145 (321)
T ss_pred HHHHHCCCceeEEeecCCCCCCceeccCCCCCCchHHHHHHHHHHHHhcccCceEEEEEEEEEEEcCEeEEccCCCCCCc
Confidence 9999999999999999999999999999999999999999999998754 3568999999999999999999998899
Q ss_pred eeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC--CCceEEEEEEEE
Q 005372 184 SILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALTGKLNLI 261 (699)
Q Consensus 184 ~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~--~~~~~~skL~fV 261 (699)
.+++++.+++++.|++++.|.|++|+..+|..|.++|+.++|.+|..|||||+||+|+|.+..... ......|+|+||
T Consensus 146 ~i~~~~~~~~~v~gl~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~~s~l~~v 225 (321)
T cd01374 146 RIREDPNKGVVVAGLTEEIVTSPEHLLQLIARGEKNRHVGETDFNERSSRSHTIFQLTIESRERGDSESGTVRVSTLNLI 225 (321)
T ss_pred eEEECCCCCEEeCCceEEEeCCHHHHHHHHHHHHhccccccCcCCCccccccEEEEEEEEEEecCCCCCCcEEEEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999876443 355678999999
Q ss_pred EcCCCcccccc--hhhHHHHHhhhhhHHHHHHHHHHhcCCC--CCCCCCCChhhhhcccccCCCceeEEEEEeCCC--Ch
Q 005372 262 DLADNRRTCNE--GIRLLESAKINQSLFALSNVIHALNNNK--PRVPYRESKLTRILQDSLGGTSHALMVACLNPG--EY 335 (699)
Q Consensus 262 DLAGsert~~~--g~rl~E~~~INkSL~aLg~VI~aL~~~~--~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~--~~ 335 (699)
||||+|+.... +.+++|+..||+||.+|++||.+|++++ .|||||+||||+||+|+||||++|+||+||+|. ++
T Consensus 226 DLAGsE~~~~~~~~~~~~e~~~iN~Sl~~L~~vi~al~~~~~~~~vpyR~SkLT~lL~~~L~g~s~t~~i~~vsp~~~~~ 305 (321)
T cd01374 226 DLAGSERASQTGAGERRKEGSFINKSLLTLGTVISKLSEGKNSGHIPYRDSKLTRILQPSLSGNARTAIICTISPASSHV 305 (321)
T ss_pred ECCCCCccccCCCCccccccchhhhHHHHHHHHHHHHHhcCCCCcCCCcCCHHHHHHHHhcCCCceEEEEEEeCCccccH
Confidence 99999986554 8999999999999999999999999986 999999999999999999999999999999998 79
Q ss_pred hhhHHHHHHHHHhhhc
Q 005372 336 QESVHTVSLAARSRHI 351 (699)
Q Consensus 336 ~ETlsTL~fA~rar~I 351 (699)
+||++||+||+|+++|
T Consensus 306 ~eTl~TL~~a~r~~~i 321 (321)
T cd01374 306 EETLNTLKFASRAKKV 321 (321)
T ss_pred HHHHHHHHHHHHHhcC
Confidence 9999999999999976
No 16
>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=3.7e-71 Score=593.82 Aligned_cols=311 Identities=35% Similarity=0.583 Sum_probs=280.6
Q ss_pred CCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccc
Q 005372 26 SKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (699)
Q Consensus 26 ~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~p 105 (699)
.+|+|+|||||+.+.|...+ ..+|+.+.+.+ ++.+.++ ...+.|.||+||++++ +|++||+..++|
T Consensus 2 ~~i~V~vRvRP~~~~e~~~~---~~~~v~~~~~~--------~v~~~~~--~~~~~f~FD~vf~~~~-~q~~vy~~~~~~ 67 (325)
T cd01369 2 CNIKVVCRFRPLNEKEELRG---SKSIVKFPGED--------TVSIAGS--DDGKTFSFDRVFPPNT-TQEDVYNFVAKP 67 (325)
T ss_pred CCeEEEEEcCcCChhhhccC---CceEEEEcCCC--------EEEecCC--CCceEEEcCeEECCCC-CHHHHHHHHHHH
Confidence 48999999999998885433 56778776552 3334433 2346899999999986 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCC---CCCchHHHHHHHHHhhhcC----CceeEEEEEEEecceeeeccCC
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEE---RPGLMPLAMSKILSICQST----GSTAEISYYEVYMDRCYDLLEV 178 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~---~~GIipral~~LF~~~~~~----~~~v~vS~~EIYnE~v~DLL~~ 178 (699)
+|+.+++|+|+||||||||||||||||+|+.. ++||+||++++||+.+... .+.|.+||+|||+|+++|||++
T Consensus 68 ~v~~~~~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~Giipr~~~~Lf~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~ 147 (325)
T cd01369 68 IVDDVLNGYNGTIFAYGQTGSGKTYTMEGPPGDPELKGIIPRIVHDIFEHISSMDENLEFHVKVSYLEIYMEKIRDLLDV 147 (325)
T ss_pred HHHHHHcCccceEEEeCCCCCCceEEecCCCCccccCChHHHHHHHHHHHHhhccCCceEEEEEEEEEEECCChhhcccC
Confidence 99999999999999999999999999999987 8999999999999987543 4789999999999999999999
Q ss_pred CccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEE
Q 005372 179 KTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKL 258 (699)
Q Consensus 179 ~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL 258 (699)
....+.+++++.++++++|++++.|.|.+|+..+|..|.++|+.++|.+|..|||||+||+|+|.+.... ......|+|
T Consensus 148 ~~~~l~i~~~~~~~~~v~gl~~~~v~s~~e~~~~i~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~-~~~~~~s~l 226 (325)
T cd01369 148 SKDNLQVHEDKNRGVYVKGLTERFVSSPEEVLEVINEGKSNRAVASTNMNEESSRSHSIFLITLKQENVE-TGSKKRGKL 226 (325)
T ss_pred ccCCceEEEcCCCCEEEcCCEEEEcCCHHHHHHHHHHHHhhcccccCcCCCccccccEEEEEEEEEEecC-CCCEEEEEE
Confidence 8888999999999999999999999999999999999999999999999999999999999999886543 334578999
Q ss_pred EEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCCC-CCCCCCCChhhhhcccccCCCceeEEEEEeCCC-
Q 005372 259 NLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNNK-PRVPYRESKLTRILQDSLGGTSHALMVACLNPG- 333 (699)
Q Consensus 259 ~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~-~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~- 333 (699)
+||||||+|+. +..|.+++|+..||+||++|++||.+|++++ .|||||+|+||+||+|+|||+|+|+||+||+|.
T Consensus 227 ~~VDLAGsE~~~~~~~~~~~~~e~~~in~sl~~L~~vi~aL~~~~~~~vpyR~S~LT~lL~~~L~g~s~t~~I~~vsp~~ 306 (325)
T cd01369 227 FLVDLAGSEKVSKTGAEGQTLEEAKKINKSLSALGNVINALTDGKSTHIPYRDSKLTRILQDSLGGNSRTTLIICCSPSS 306 (325)
T ss_pred EEEECCCCCcccccCCcchhHHHHHHHhHHHHHHHHHHHHHHcCCCCcCCCccCHHHHHHHHhcCCCCeEEEEEEeCCcc
Confidence 99999999984 4677899999999999999999999999987 999999999999999999999999999999997
Q ss_pred -ChhhhHHHHHHHHHhhhc
Q 005372 334 -EYQESVHTVSLAARSRHI 351 (699)
Q Consensus 334 -~~~ETlsTL~fA~rar~I 351 (699)
+++||++||+||+|+|+|
T Consensus 307 ~~~~eTl~TL~~a~r~~~i 325 (325)
T cd01369 307 YNESETLSTLRFGARAKTI 325 (325)
T ss_pred ccHHHHHHHHHHHHHhhcC
Confidence 689999999999999976
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=4.4e-71 Score=596.66 Aligned_cols=310 Identities=40% Similarity=0.661 Sum_probs=278.4
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccch
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPL 106 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~pl 106 (699)
+|+|+||+||+.+.|.... ...|+.+.+.+. ++.+.+ .+.|.||+||++++ +|++||+..++|+
T Consensus 2 ~i~V~vRvRP~~~~e~~~~---~~~~~~~~~~~~-------~v~~~~-----~~~f~FD~vf~~~~-~q~~vy~~~~~pl 65 (341)
T cd01372 2 SVRVAVRVRPLLPKELLEG---CQVCVSVVPGEP-------QVTVGT-----DKSFTFDYVFDPST-SQEEVYNTCVAPL 65 (341)
T ss_pred CeEEEEECCCCCchhcccC---CCeEEEEeCCCC-------EEEecC-----CcEEeccccCCCCC-CHHHHHHHHHHHH
Confidence 6999999999998886433 556777755432 333332 45799999999876 8899999999999
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCC------CCCCchHHHHHHHHHhhhcC----CceeEEEEEEEecceeeecc
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSE------ERPGLMPLAMSKILSICQST----GSTAEISYYEVYMDRCYDLL 176 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm~G~~------~~~GIipral~~LF~~~~~~----~~~v~vS~~EIYnE~v~DLL 176 (699)
|+++++|||+||||||||||||||||+|+. +++|||||++++||+.++.. .+.|.+||+|||+|++||||
T Consensus 66 v~~~~~G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~~~~~Giipr~~~~LF~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL 145 (341)
T cd01372 66 VDGLFEGYNATVLAYGQTGSGKTYTMGTAFTASEDEEEVGIIPRAIQHIFKKIDEKKDEPDFQLKVSFLELYNEEVRDLL 145 (341)
T ss_pred HHHHhCCCccceeeecCCCCCCcEEecCCCccccccccCChHHHHHHHHHHHHHhccccceEEEEEEEEEeECCeeecCC
Confidence 999999999999999999999999999974 57999999999999988753 46999999999999999999
Q ss_pred CCC---ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecC-----
Q 005372 177 EVK---TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD----- 248 (699)
Q Consensus 177 ~~~---~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~----- 248 (699)
.+. ...+.+++++.+++++.|++++.|.|++|++.+|..|..+|...+|.+|..|||||+||+|+|.+....
T Consensus 146 ~~~~~~~~~l~i~e~~~~~~~i~gl~~~~v~s~~e~~~~l~~g~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~~~~~~ 225 (341)
T cd01372 146 SPSTSEKSPIQIREDSKGNIIIVGLTEVTVNSAQEVMSCLEQGSLSRTTASTAMNSQSSRSHAIFTITLEQTRKNGPIAP 225 (341)
T ss_pred CCcccCCCCceEEECCCCCEecCCCEEEEECCHHHHHHHHHHHHHhcccccccCCCccCcCcEEEEEEEEEEecCCcccc
Confidence 986 468999999999999999999999999999999999999999999999999999999999999987653
Q ss_pred ----CCCceEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCC---CCCCCCCChhhhhccccc
Q 005372 249 ----DSKAALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNK---PRVPYRESKLTRILQDSL 318 (699)
Q Consensus 249 ----~~~~~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~---~~IPYRdSKLTrLLqdsL 318 (699)
.......|+|+||||||+|+ ....|.+++|+..||+||.+|++||.+|..++ .|||||+||||+||+|+|
T Consensus 226 ~~~~~~~~~~~s~l~~VDLAGsE~~~~~~~~~~~~~e~~~in~sl~aL~~vi~al~~~~~~~~~ipyR~S~LT~lL~~~L 305 (341)
T cd01372 226 MSGDDKNSTLTSKFHFVDLAGSERLKKTGATGDRLKEGISINSGLLALGNVISALGDESKKGSHVPYRDSKLTRLLQDSL 305 (341)
T ss_pred ccccCCCceeeEEEEEEECCCCcccccccCchhHhHHHHHHhHHHHHHHHHHHHHHhcCCCCCCCCCcccHHHHHHHHhc
Confidence 33456789999999999997 45678899999999999999999999999876 699999999999999999
Q ss_pred CCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhcc
Q 005372 319 GGTSHALMVACLNPG--EYQESVHTVSLAARSRHIS 352 (699)
Q Consensus 319 gGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~ 352 (699)
|||++|+||+||||. +++||++||+||+|+|+|+
T Consensus 306 gg~s~t~~I~~vsp~~~~~~eTl~tL~~a~~~~~ik 341 (341)
T cd01372 306 GGNSHTLMIACVSPADSNFEETLNTLKYANRARNIK 341 (341)
T ss_pred CCCceEEEEEEeCCChhhHHHHHHHHHHHHHhccCC
Confidence 999999999999997 6899999999999999985
No 18
>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=2.3e-69 Score=580.60 Aligned_cols=315 Identities=37% Similarity=0.579 Sum_probs=282.4
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhcc
Q 005372 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVN 104 (699)
Q Consensus 25 ~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~ 104 (699)
+|+|+|+||+||+.+.|. +...+++.+.+.+. .++.+.+. ......|.||+||++++ +|++||+. ++
T Consensus 1 ~~~i~V~vRirP~~~~e~----~~~~~~~~~~~~~~------~~i~~~~~-~~~~~~f~fD~vf~~~~-~q~~v~~~-v~ 67 (329)
T cd01366 1 KGNIRVFCRVRPLLPSES----TEYSSVISFPDEDG------GTIELSKG-TGKKKSFSFDRVFDPDA-SQEDVFEE-VS 67 (329)
T ss_pred CCCEEEEEEcCcCCcccc----CCCccEEEEcCCCc------eEEEEeCC-CCCceEEecCEEECCCC-CHHHHHHH-HH
Confidence 478999999999998875 22455676665531 24444443 23456899999999876 88999997 69
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc-----CCceeEEEEEEEecceeeeccCCC
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYMDRCYDLLEVK 179 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~-----~~~~v~vS~~EIYnE~v~DLL~~~ 179 (699)
|+|+++++|+|+||||||+|||||||||+|..+++||+||++++||+.++. ..+.|.+||+|||+|+++|||.+.
T Consensus 68 p~v~~~~~G~~~~i~ayG~tgSGKT~tl~G~~~~~Gli~r~~~~lf~~~~~~~~~~~~~~v~~S~~EIy~e~v~DLL~~~ 147 (329)
T cd01366 68 PLVQSALDGYNVCIFAYGQTGSGKTYTMEGPPENPGIIPRALEQLFNTAEELKEKGWSYTITASMLEIYNETIRDLLATK 147 (329)
T ss_pred HHHHHHhCCCceEEEEeCCCCCCCcEEecCCCCCCCcHHHHHHHHHHHHHhhhccCceEEEEEEEEEEECCEeEECCCCC
Confidence 999999999999999999999999999999999999999999999998754 346899999999999999999986
Q ss_pred ---ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEE
Q 005372 180 ---TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTG 256 (699)
Q Consensus 180 ---~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~s 256 (699)
...+.+++++.+++++.|++++.|.|++|+..++..|..+|..+.|.+|..|||||+||+|+|.+.... .+....|
T Consensus 148 ~~~~~~l~i~~~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~sSRsH~i~~i~v~~~~~~-~~~~~~s 226 (329)
T cd01366 148 PAPKKKLEIKHDSKGETYVTNLTEVPVSSPEEVTRLLNLGSKNRSVASTNMNEHSSRSHAVFQLKIRGTNLQ-TGEQTRG 226 (329)
T ss_pred cCCCCceEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHHHhhcccccccccCCCCCccEEEEEEEEEEcCC-CCcEEEE
Confidence 678999999999999999999999999999999999999999999999999999999999999886543 4456789
Q ss_pred EEEEEEcCCCcccc---cchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCCCceeEEEEEeCCC
Q 005372 257 KLNLIDLADNRRTC---NEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG 333 (699)
Q Consensus 257 kL~fVDLAGsert~---~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~ 333 (699)
+|+||||||+|+.. ..+.+++|+..||+||.+|++||.+|+.+..|||||+|+||+||+|+|||+++|+||+||||.
T Consensus 227 ~l~~VDLaGsE~~~~~~~~~~~~~e~~~in~Sl~~L~~vl~~l~~~~~~ipyr~S~LT~lL~~~l~g~~~t~~i~~vsp~ 306 (329)
T cd01366 227 KLNLVDLAGSERLKKSGATGDRLKEAQAINKSLSALGDVISALRSKDSHVPYRNSKLTYLLQDSLGGNSKTLMFVNISPL 306 (329)
T ss_pred EEEEEECCCCcccccccccchhhHhHhhhhhHHHHHHHHHHHHhcCCCcCCCcccHhHHHHHHhcCCCceEEEEEEeCCc
Confidence 99999999999854 567899999999999999999999999999999999999999999999999999999999997
Q ss_pred --ChhhhHHHHHHHHHhhhccc
Q 005372 334 --EYQESVHTVSLAARSRHISN 353 (699)
Q Consensus 334 --~~~ETlsTL~fA~rar~I~N 353 (699)
+++||++||+||+|+++|+|
T Consensus 307 ~~~~~etl~tL~~a~~~~~i~~ 328 (329)
T cd01366 307 ESNLSETLCSLRFASRVRSVEL 328 (329)
T ss_pred hhhHHHHHHHHHHHHHhhcccC
Confidence 79999999999999999987
No 19
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=4.2e-71 Score=617.64 Aligned_cols=327 Identities=34% Similarity=0.547 Sum_probs=287.0
Q ss_pred CCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCC-----CCCCceeeeeceeeCCCC------C
Q 005372 25 SSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-----DTIRSECYQLDSFFGQED------E 93 (699)
Q Consensus 25 ~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~-----~~~~~~~F~FD~VF~~~~------~ 93 (699)
..+|||+|||||++.+|+.-. ..|.+.|..... +++...+ ....+++|.||++|++.+ +
T Consensus 3 ~~kVkVaVRVRP~nrREl~l~---tk~vv~vd~~q~-------vl~~~pp~~~~~~~k~pktFAFDhcF~s~dpes~n~a 72 (1714)
T KOG0241|consen 3 DAKVKVAVRVRPMNRRELELS---TKCVVEVDKNQT-------VLHPPPPNHKIGESKGPKTFAFDHCFWSMDPESKNYA 72 (1714)
T ss_pred CcceEEEEEecccchhhhccc---ccceEEeccCce-------eecCCCccccccccCCCceeecccccccCCccccccc
Confidence 468999999999999998654 455566654433 2332221 223467999999998754 3
Q ss_pred cHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc-----CCceeEEEEEEEe
Q 005372 94 SVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-----TGSTAEISYYEVY 168 (699)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~-----~~~~v~vS~~EIY 168 (699)
.|+.||+....-+|+++|+|||+||||||||||||||||+|..++||||||.++.||..++. ..++|+|||+|||
T Consensus 73 gQE~Vf~~lG~~il~naf~GyNaCifaYGQtGsGKsYsmmGt~~QpGiIPrlc~~lFe~I~k~~n~~~tfkVeVSymEIy 152 (1714)
T KOG0241|consen 73 GQETVFKCLGEGILENAFQGYNACIFAYGQTGSGKSYSMMGTAEQPGIIPRLCESLFERIDKESNPSQTFKVEVSYMEIY 152 (1714)
T ss_pred cchhHHHhcchHHHHHHhhccceeeEEecccCCCceeEeeccCCCCCchhHHHHHHHHHHHhccCCCceEEEEEEHHHHh
Confidence 68999999999999999999999999999999999999999999999999999999999864 3479999999999
Q ss_pred cceeeeccCCCc--cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEee
Q 005372 169 MDRCYDLLEVKT--KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLL 246 (699)
Q Consensus 169 nE~v~DLL~~~~--~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~ 246 (699)
||++||||+|+. +.+.++++.--|.+|.||++..|.|++|+..+|..|.++|+++.|+||..|||||+||.|.|.+.-
T Consensus 153 nEkv~DLLdPk~ssqtlkVrehsvlGp~vdGLS~laV~S~qdId~lm~egnKsrtvaatnmn~EssrsHaVFslvvtQ~l 232 (1714)
T KOG0241|consen 153 NEKVRDLLDPKGSSQTLKVREHSVLGPYVDGLSQLAVTSFQDIDSLMSEGNKSRTVAATNMNEESSRSHAVFSLVVTQTL 232 (1714)
T ss_pred hcchhhhhCCCCCcceeEEeecccccccccchhhhhcccHHHHHHHHHhccccceeeeecccccccccceeEEEEEeeEE
Confidence 999999999875 468999999999999999999999999999999999999999999999999999999999998864
Q ss_pred cCC---CCceEEEEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCC------CCCCCCCCChhhhhc
Q 005372 247 GDD---SKAALTGKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNN------KPRVPYRESKLTRIL 314 (699)
Q Consensus 247 ~~~---~~~~~~skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~------~~~IPYRdSKLTrLL 314 (699)
-+. ......+||.||||||++| +++.|.|++|+.+||+||++||.||.+|+++ .++||||||.||+||
T Consensus 233 ~D~ktg~SgeKvsklslVDLAgserasktga~g~rlkegsNinkSLttLglVIsaLadq~n~kgkdKfvPYrDSVLTwLL 312 (1714)
T KOG0241|consen 233 YDLKTGHSGEKVSKLSLVDLAGSERASKTGAAGSRLKEGSNINKSLTTLGLVISALADQKNGKGKDKFVPYRDSVLTWLL 312 (1714)
T ss_pred eccccCcchhheeeeeEEEeccccccccccchhhhhhhcCCcchhhHHHHHHHHHHHHhhcCCCccccccchhHHHHHHH
Confidence 322 1223579999999999998 5677899999999999999999999999863 358999999999999
Q ss_pred ccccCCCceeEEEEEeCCC--ChhhhHHHHHHHHHhhhccccCCCcccc
Q 005372 315 QDSLGGTSHALMVACLNPG--EYQESVHTVSLAARSRHISNTLPSAQKV 361 (699)
Q Consensus 315 qdsLgGnskt~mI~~VSP~--~~~ETlsTL~fA~rar~I~N~~~~~~~~ 361 (699)
||+|||||+|+||+||||+ +|+|||+|||||.|||+|+|...+|.+.
T Consensus 313 kD~LGGNsrTvMiatvSPaAdnyeeTlStLRYadrAkrIvN~avvNedp 361 (1714)
T KOG0241|consen 313 KDNLGGNSRTVMIATVSPAADNYEETLSTLRYADRAKRIVNHAVVNEDP 361 (1714)
T ss_pred HhhcCCCceeEEEEEecccccchHHHHHHHHHHHHHHHhhccccccCCc
Confidence 9999999999999999994 7999999999999999999987776543
No 20
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=100.00 E-value=3.3e-69 Score=581.03 Aligned_cols=308 Identities=33% Similarity=0.538 Sum_probs=266.9
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCC-------CCCCceeeeeceeeCCCCCcHhHHH
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-------DTIRSECYQLDSFFGQEDESVSKIF 99 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~-------~~~~~~~F~FD~VF~~~~~sQ~~Vf 99 (699)
.|||+||+||+...+.. .+.+.+.+. .+++..... .......|.||+||++ + +|++||
T Consensus 1 ~i~V~vRvRP~~~~~~~--------~~~~~~~~~-----~~~~~~p~~~~~~~~~~~~~~~~f~FD~vf~~-~-~q~~vy 65 (334)
T cd01375 1 TIQVFVRVRPTPTKQGS--------SIKLGPDGK-----SVSSNLPKDLVRGVVNNQQEDFSFKFDGVFHN-A-SQEEVY 65 (334)
T ss_pred CeEEEEECCCCCCCCCc--------cEEEcCCCC-----EEEEecccccccccccCCcCceEEEcCcccCC-C-CHHHHH
Confidence 48999999999874421 233322211 112211111 1123467999999998 4 889999
Q ss_pred HhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC---CCCCchHHHHHHHHHhhhc---CCceeEEEEEEEecceee
Q 005372 100 YSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE---ERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCY 173 (699)
Q Consensus 100 ~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~---~~~GIipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~ 173 (699)
+..+.|+|+++++|+|+||||||||||||||||+|+. .++||+||++++||+.++. ..+.|++||+|||+|++|
T Consensus 66 ~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~G~~~~~~~~Glipr~~~~lf~~~~~~~~~~~~v~~S~~Eiy~e~v~ 145 (334)
T cd01375 66 ETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTGGTESYKDRGLIPRALEQVFREVAMRATKTYTVHVSYLEIYNEQLY 145 (334)
T ss_pred HHHHHHHHHHHhCCCccceeeecCCCCCCeEEccCCCCcccCCchHHHHHHHHHHHHHhccCcceEEEEEEEEEECCEee
Confidence 9999999999999999999999999999999999976 4789999999999998865 357999999999999999
Q ss_pred eccCCCc------cceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeec
Q 005372 174 DLLEVKT------KEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLG 247 (699)
Q Consensus 174 DLL~~~~------~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~ 247 (699)
|||++.. ..+.+++++.++++|+|++++.|.+++|++.++..|..+|.+++|.+|..|||||+||+|+|.+...
T Consensus 146 DLL~~~~~~~~~~~~l~i~e~~~~~~~v~gl~~~~v~s~~e~~~~~~~g~~~R~~~~t~~n~~sSRSH~i~~l~v~~~~~ 225 (334)
T cd01375 146 DLLGDTPEALESLPAVTILEDSEQNIHVKGLSLHSATTEEEALNLLFLGETNRTIAETSMNQASSRSHCIFTIHLESRSR 225 (334)
T ss_pred cCCCCCccccccCCceEEEEcCCCCEEeCCcEEEEeCCHHHHHHHHHHHHhhcccccCcCcCCcCcCeEEEEEEEEEEec
Confidence 9999874 5789999999999999999999999999999999999999999999999999999999999998633
Q ss_pred -CCCCceEEEEEEEEEcCCCcccc---cchhhHHHHHhhhhhHHHHHHHHHHhcCCC-CCCCCCCChhhhhcccccCCCc
Q 005372 248 -DDSKAALTGKLNLIDLADNRRTC---NEGIRLLESAKINQSLFALSNVIHALNNNK-PRVPYRESKLTRILQDSLGGTS 322 (699)
Q Consensus 248 -~~~~~~~~skL~fVDLAGsert~---~~g~rl~E~~~INkSL~aLg~VI~aL~~~~-~~IPYRdSKLTrLLqdsLgGns 322 (699)
........|+|+||||||+|+.. ..+.+++|+..||+||++|++||.+|++++ .||||||||||+||+|+|||||
T Consensus 226 ~~~~~~~~~s~l~~VDLAGsEr~~~~~~~~~~~~e~~~iN~SL~~L~~vi~~l~~~~~~~ipyRdSkLT~lL~d~Lgg~~ 305 (334)
T cd01375 226 EAGSEVVRLSKLNLVDLAGSERVSKTGVSGQVLKEAKYINKSLSFLEQVINALSEKARTHVPYRNSKLTHVLRDSLGGNC 305 (334)
T ss_pred CCCCCceEEEEEEEEECCCCCccccccCchhhhhhhhhhhhhHHHHHHHHHHHHhCCCCCCCCcccHHHHHHHHhcCCCc
Confidence 23345668999999999999854 467889999999999999999999999988 9999999999999999999999
Q ss_pred eeEEEEEeCCC--ChhhhHHHHHHHHHhh
Q 005372 323 HALMVACLNPG--EYQESVHTVSLAARSR 349 (699)
Q Consensus 323 kt~mI~~VSP~--~~~ETlsTL~fA~rar 349 (699)
+|+||+||||. +++||++||+||+|++
T Consensus 306 ~t~~I~~vsp~~~~~~eTl~TL~fa~r~~ 334 (334)
T cd01375 306 KTVMLATIWVEPSNLDETLSTLRFAQRVA 334 (334)
T ss_pred eEEEEEEeCCchhhHHHHHHHHHHHHhcC
Confidence 99999999996 6899999999999984
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=1.2e-67 Score=568.26 Aligned_cols=320 Identities=39% Similarity=0.653 Sum_probs=287.5
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCC-CCCCceeeeeceeeCCCCCcHhHHHHhhccc
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDP-DTIRSECYQLDSFFGQEDESVSKIFYSEVNP 105 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~-~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~p 105 (699)
+|+|+|||||+...|.... ..+++.+.+.+. .++.+.++ .....+.|.||+||++++ +|++||+..+.|
T Consensus 1 ~v~v~vRvrP~~~~e~~~~---~~~~~~~~~~~~------~~v~~~~~~~~~~~~~f~fD~vf~~~~-~q~~v~~~~~~p 70 (335)
T smart00129 1 NIRVVVRVRPLNKREKSRK---SPSVVPFDDKDG------KTLNVNSPKNRKEEKKFTFDKVFGATA-SQEDVFEETAAP 70 (335)
T ss_pred CcEEEEEcCcCCccchhcC---CceEEEEcCCCC------CEEEEeCCCCCCCCeEEecCEEECCCC-ChHHHHHHHHHH
Confidence 5899999999998886543 566888876643 23444333 334567899999999876 889999999999
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc----CCceeEEEEEEEecceeeeccCCCcc
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLEVKTK 181 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~~~~~ 181 (699)
+|+.+++|+|+|||+||+|||||||||+|+.+++||+||++++||+.++. ..+.|.+||+|||+|+++|||++..+
T Consensus 71 ~v~~~~~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~v~~S~~ei~~e~v~DLL~~~~~ 150 (335)
T smart00129 71 LVDSVLEGYNATIFAYGQTGSGKTYTMSGTPDSPGIIPRALKDLFEKIDKLEEGWQFQVKVSYLEIYNEKIRDLLNPSPK 150 (335)
T ss_pred HHHHHhcCCceeEEEeCCCCCCCceEecCCCCCCCHHHHHHHHHHHHhhhcccCceEEEEEEEEEEECCEEEECcCCCCC
Confidence 99999999999999999999999999999999999999999999998865 35789999999999999999999989
Q ss_pred ceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeec-CCCCceEEEEEEE
Q 005372 182 EISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLG-DDSKAALTGKLNL 260 (699)
Q Consensus 182 ~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~-~~~~~~~~skL~f 260 (699)
++.+++++.+++++.|++++.|.|++|+.+++..|..+|.+.+|.+|..|||||+||+|+|.+... ........|+|+|
T Consensus 151 ~l~i~~~~~~~~~i~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRsH~i~~l~v~~~~~~~~~~~~~~s~l~~ 230 (335)
T smart00129 151 KLEIREDKKGGVYVKGLTEISVSSFEEVYNLLEKGNKNRTVAATKMNEESSRSHAVFTITVESKIKNSSSGSGKASKLNL 230 (335)
T ss_pred CcEEEECCCCCEEecCCEEEEeCCHHHHHHHHHHHHhccccccCCCCCCCCcceEEEEEEEEEEecCCCCCCEEEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999997622 3445567899999
Q ss_pred EEcCCCcccc---cchhhHHHHHhhhhhHHHHHHHHHHhcC--CCCCCCCCCChhhhhcccccCCCceeEEEEEeCCC--
Q 005372 261 IDLADNRRTC---NEGIRLLESAKINQSLFALSNVIHALNN--NKPRVPYRESKLTRILQDSLGGTSHALMVACLNPG-- 333 (699)
Q Consensus 261 VDLAGsert~---~~g~rl~E~~~INkSL~aLg~VI~aL~~--~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~-- 333 (699)
|||||+|+.. ..+.+++|+..||+||.+|++||.+|++ +..|+|||+|+||+||+++|||+++++||+||+|.
T Consensus 231 VDLaGse~~~~~~~~~~~~~e~~~in~sl~~L~~~l~~l~~~~~~~~ip~r~S~LT~lL~~~L~g~~~~~~i~~vsp~~~ 310 (335)
T smart00129 231 VDLAGSERASKTGAEGDRLKEAGNINKSLSALGNVINALADGQKSRHIPYRDSKLTRLLQDSLGGNSKTLMIANISPSLS 310 (335)
T ss_pred EECCCCCccccccChhHHHHhhchhhhHHHHHHHHHHHHHhcCCCCCCCCcCcHhHHHHHHHcCCCCeEEEEEEcCCCcc
Confidence 9999999844 5678999999999999999999999998 56799999999999999999999999999999997
Q ss_pred ChhhhHHHHHHHHHhhhccccCC
Q 005372 334 EYQESVHTVSLAARSRHISNTLP 356 (699)
Q Consensus 334 ~~~ETlsTL~fA~rar~I~N~~~ 356 (699)
+++||++||+||+++++|+|.|.
T Consensus 311 ~~~eTl~tL~~a~~~~~i~~~p~ 333 (335)
T smart00129 311 NLEETLSTLRFASRAKEIKNKAI 333 (335)
T ss_pred chHHHHHHHHHHHHHhhcccCCC
Confidence 69999999999999999999764
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=1e-66 Score=559.01 Aligned_cols=310 Identities=38% Similarity=0.680 Sum_probs=279.3
Q ss_pred CeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCC---CCCceeeeeceeeCCCCCcHhHHHHhhc
Q 005372 27 KVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPD---TIRSECYQLDSFFGQEDESVSKIFYSEV 103 (699)
Q Consensus 27 ~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~---~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v 103 (699)
+|+|+||+||+...|. .+...++.+.+.. ++.+.++. ....+.|.||+||++++ +|++||+..+
T Consensus 1 ~i~V~vRvrP~~~~~~----~~~~~~~~~~~~~--------~v~~~~~~~~~~~~~~~f~fd~vf~~~~-~q~~v~~~~~ 67 (328)
T cd00106 1 NIRVVVRIRPLNGRES----KSEESCITVDDNK--------TVTLTPPKDGRKAGPKSFTFDHVFDPNS-TQEDVYETTA 67 (328)
T ss_pred CeEEEEEcCCCCcccc----cCCCcEEEECCCC--------EEEEecCccccCcCceEEECCeEEcCCC-CHHHHHHHHH
Confidence 5899999999987762 2346678776642 33444433 23457899999999876 8899999999
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcC-----CceeEEEEEEEecceeeeccCC
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQST-----GSTAEISYYEVYMDRCYDLLEV 178 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~-----~~~v~vS~~EIYnE~v~DLL~~ 178 (699)
+|+|+++++|+|+|||+||+|||||||||+|+.+++||+||++++||+.++.. .+.|.+||+|||+|+++|||++
T Consensus 68 ~~~v~~~~~G~~~~i~~yG~tgSGKT~tl~G~~~~~Gli~~~~~~Lf~~~~~~~~~~~~~~v~~S~~Ei~~e~v~DLL~~ 147 (328)
T cd00106 68 KPLVESVLEGYNGTIFAYGQTGSGKTYTMFGSPKDPGIIPRALEDLFNLIDERKEKNKSFSVSVSYLEIYNEKVYDLLSP 147 (328)
T ss_pred HHHHHHHhCCCceeEEEecCCCCCCeEEecCCCCCCchHHHHHHHHHHHHhhccccCceEEEEEEEEEEECCEeEECCCC
Confidence 99999999999999999999999999999999999999999999999988754 3789999999999999999999
Q ss_pred C--ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCC-ceEE
Q 005372 179 K--TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSK-AALT 255 (699)
Q Consensus 179 ~--~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~-~~~~ 255 (699)
. ..++.+++++.+++++.|++++.|.|++|++++|..|..+|..+.|.+|..|||||+||+|+|.+....... ....
T Consensus 148 ~~~~~~l~i~~~~~~~~~v~~l~~~~v~s~~e~~~~l~~~~~~R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~ 227 (328)
T cd00106 148 EPPSKPLSLREDPKGGVYVKGLTEVEVGSAEDALSLLQKGLKNRTTASTAMNERSSRSHAIFTIHVEQRNTTNDGRSIKS 227 (328)
T ss_pred CCCCCCcEEEEcCCCCEEEeCCEEEEeCCHHHHHHHHHHHHhhcCcccCcCCCCcCcCcEEEEEEEEEEecCCCCccEEE
Confidence 7 889999999999999999999999999999999999999999999999999999999999999987654332 3678
Q ss_pred EEEEEEEcCCCcccc---cchhhHHHHHhhhhhHHHHHHHHHHhcCCC--CCCCCCCChhhhhcccccCCCceeEEEEEe
Q 005372 256 GKLNLIDLADNRRTC---NEGIRLLESAKINQSLFALSNVIHALNNNK--PRVPYRESKLTRILQDSLGGTSHALMVACL 330 (699)
Q Consensus 256 skL~fVDLAGsert~---~~g~rl~E~~~INkSL~aLg~VI~aL~~~~--~~IPYRdSKLTrLLqdsLgGnskt~mI~~V 330 (699)
|+|+||||||+|+.. ..+.++.|+..||+||.+|++||.+|+.++ .|||||+||||+||||+|||+++++||+||
T Consensus 228 s~l~~VDLaGse~~~~~~~~~~~~~e~~~in~sl~~L~~vl~~l~~~~~~~~ip~r~SkLT~lL~~~l~g~~~t~~I~~v 307 (328)
T cd00106 228 SKLNLVDLAGSERAKKTGAEGDRLKEAKNINKSLSALGNVISALSSGQKKKHIPYRDSKLTRLLQDSLGGNSKTLMIANI 307 (328)
T ss_pred EEEEEEECCCCCcccccCCchhhhHhHHhhhhhHHHHHHHHHHHHhcCCCCcCCCcCcHHHHHHHHhcCCCCeEEEEEEe
Confidence 999999999999854 478899999999999999999999999988 999999999999999999999999999999
Q ss_pred CCC--ChhhhHHHHHHHHHhh
Q 005372 331 NPG--EYQESVHTVSLAARSR 349 (699)
Q Consensus 331 SP~--~~~ETlsTL~fA~rar 349 (699)
+|. +++||++||+||+|+|
T Consensus 308 sp~~~~~~eTl~tL~~a~r~~ 328 (328)
T cd00106 308 SPSSENYDETLSTLRFASRAK 328 (328)
T ss_pred CCchhhHHHHHHHHHHHHhcC
Confidence 998 7999999999999986
No 23
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=100.00 E-value=2.2e-68 Score=612.48 Aligned_cols=320 Identities=36% Similarity=0.561 Sum_probs=278.4
Q ss_pred CCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCC-CCceeeeeceeeCCCCCcHhHHHHhh
Q 005372 24 TSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDT-IRSECYQLDSFFGQEDESVSKIFYSE 102 (699)
Q Consensus 24 ~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~-~~~~~F~FD~VF~~~~~sQ~~Vf~~~ 102 (699)
-+|+|||+|||||+.+.|.... .. .+...+.. .++++...+... .....|.||+||+|.+ +|++||. .
T Consensus 312 LkGnIRV~CRvRP~~~~e~~~~---~~-~~~~~~~~-----~~~~~~~~~~~~~~~~~~f~fdkVf~p~~-sQ~~VF~-e 380 (670)
T KOG0239|consen 312 LKGNIRVFCRVRPLLPSEKQRL---QS-KVIDTEEQ-----GEVQVDSPDKGDKLEPQSFKFDKVFGPLA-SQDDVFE-E 380 (670)
T ss_pred hhcCceEEEEecCCCccccccc---cc-cccccCCc-----ceeEeecCCCCCCCccccceeeeecCCcc-cHHHHHH-H
Confidence 3699999999999999885431 11 11111110 123333222111 1123599999999986 8899997 6
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceecc-CCCCCCchHHHHHHHHHhhhc----CCceeEEEEEEEecceeeeccC
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQG-SEERPGLMPLAMSKILSICQS----TGSTAEISYYEVYMDRCYDLLE 177 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G-~~~~~GIipral~~LF~~~~~----~~~~v~vS~~EIYnE~v~DLL~ 177 (699)
+.|+|+++++|||+||||||||||||||||.| +++++||+||++++||..++. +.|.+.++|+|||||.++|||.
T Consensus 381 ~~~lv~S~lDGYnVCIFAYGQTGSGKTyTM~G~~~~~~Giipral~~lF~~~~~~~~g~~y~~~~s~~EIYNe~i~DlL~ 460 (670)
T KOG0239|consen 381 VSPLVQSALDGYNVCIFAYGQTGSGKTYTMSGPTPEDPGIIPRALEKLFRTITSLKSGWKYDKTVSMLEIYNEAIRDLLS 460 (670)
T ss_pred HHHHHHHHhcCcceeEEEecccCCCccccccCCCcccCCccHHHHHHHHHHHHhhccCceEEeeeehhHHHHHHHHHhcc
Confidence 99999999999999999999999999999999 789999999999999998764 4578999999999999999998
Q ss_pred CC--ccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEE
Q 005372 178 VK--TKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALT 255 (699)
Q Consensus 178 ~~--~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~ 255 (699)
+. ...+.|+++.++..+|.|++.+.|.+.+|+..+++.|..+|++++|.+|++|||||+||+|+|...+ ...+....
T Consensus 461 ~~~~~~k~~I~~~~~~~~~V~~~t~~~V~s~~~v~~ll~~g~~nRsv~~T~~Ne~SSRSH~v~~v~v~g~~-~~t~~~~~ 539 (670)
T KOG0239|consen 461 DESYVGKLEIVDDAEGNLMVPLLTVIKVGSSEEVDILLEIGLSNRSVASTASNERSSRSHLVFRVRIRGIN-ELTGIRVT 539 (670)
T ss_pred ccccccceeEEEcCCCceecccceEEecCCHHHHHHHHHHhhccccccccccchhhhccceEEEEEEeccc-cCcccccc
Confidence 87 4679999999999999999999999999999999999999999999999999999999999998763 33455678
Q ss_pred EEEEEEEcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCCCceeEEEEEeCC
Q 005372 256 GKLNLIDLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNP 332 (699)
Q Consensus 256 skL~fVDLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP 332 (699)
|.|+||||||+|| ++..|+|++|+..||+||++||+||.||+.+..||||||||||+||||+|||++||+|+++|||
T Consensus 540 g~l~LVDLAGSER~~~s~~tG~RlkE~Q~INkSLS~LgdVi~AL~~k~~HiPyRNSKLT~lLq~sLGG~sKTLmfv~isP 619 (670)
T KOG0239|consen 540 GVLNLVDLAGSERVSKSGVTGERLKEAQNINKSLSALGDVISALASKRSHIPYRNSKLTQLLQDSLGGDSKTLMFVNISP 619 (670)
T ss_pred cceeEeecccCcccCcCCCchhhhHHHHHhchhhhhhHHHHHHHhhcCCCCcccccchHHHhHhhhCCccceeeEEEeCc
Confidence 9999999999999 7788999999999999999999999999999999999999999999999999999999999999
Q ss_pred C--ChhhhHHHHHHHHHhhhccccC
Q 005372 333 G--EYQESVHTVSLAARSRHISNTL 355 (699)
Q Consensus 333 ~--~~~ETlsTL~fA~rar~I~N~~ 355 (699)
. ++.||+.+|+||.|++.+....
T Consensus 620 ~~~~~~Etl~sL~FA~rv~~~~lG~ 644 (670)
T KOG0239|consen 620 AAAALFETLCSLRFATRVRSVELGS 644 (670)
T ss_pred cHHHHhhhhhccchHHHhhceeccc
Confidence 7 6899999999999999987753
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=4.5e-67 Score=563.33 Aligned_cols=311 Identities=37% Similarity=0.643 Sum_probs=269.1
Q ss_pred EcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccchhhhhcC
Q 005372 33 RVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH 112 (699)
Q Consensus 33 RvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~ 112 (699)
||||++..|.... ...++.+.+... .................|.||+||++++ +|++||+..+.|+|+++++
T Consensus 1 RvRP~~~~e~~~~---~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~f~FD~vf~~~~-~q~~vy~~~~~~~v~~~l~ 72 (335)
T PF00225_consen 1 RVRPLNESEKESS---AESIVSVDNQDS----NQNKQSVNSNNSQKEKSFRFDRVFDEDA-TQEDVYEEVVSPLVDSVLD 72 (335)
T ss_dssp EEES-CHHHHHTT---TEBCEEEETTET----EEEEEETTEEETTEEEEEEESEEEETTS-THHHHHHHHTHHHHHHHHT
T ss_pred CcCCCCHHHHhCC---CcEEEEecCCcc----ccccccccccCCCCceEEEcCeEECCCC-CHHHHHHHHHHHHHHHhhc
Confidence 9999999997765 333444332110 1112222222334467899999999886 8899999999999999999
Q ss_pred CCCEEEEeeccCCCCCcceeccC--CCCCCchHHHHHHHHHhhhc------CCceeEEEEEEEecceeeeccCCC----c
Q 005372 113 GRNATVFAYGATGSGKTYTMQGS--EERPGLMPLAMSKILSICQS------TGSTAEISYYEVYMDRCYDLLEVK----T 180 (699)
Q Consensus 113 G~N~tIfAYGqTGSGKTyTm~G~--~~~~GIipral~~LF~~~~~------~~~~v~vS~~EIYnE~v~DLL~~~----~ 180 (699)
|+|+||||||+|||||||||+|+ ..++||+||++++||..++. ..+.|.|||+|||+|+|+|||++. .
T Consensus 73 G~n~~i~ayG~tgSGKT~Tm~G~~~~~~~Gli~~~~~~lf~~~~~~~~~~~~~~~v~vS~~EIy~e~v~DLL~~~~~~~~ 152 (335)
T PF00225_consen 73 GYNATIFAYGQTGSGKTYTMFGSNDPSEPGLIPRALRDLFSQIEERKEKSGYEFSVSVSYLEIYNEKVYDLLSPNNSKSR 152 (335)
T ss_dssp T-EEEEEEEESTTSSHHHHHTBSTSTTTBSHHHHHHHHHHHHHHHHTTTSTEEEEEEEEEEEEETTEEEETTSTTSSSTT
T ss_pred CCceEEEeeccccccccccccccccccccchhhhHHHHHhhhhccccccccccccccccchhhhhhhhhhhcCccccccc
Confidence 99999999999999999999999 88999999999999998865 247899999999999999999987 3
Q ss_pred cceeeeecCCCC-eEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCc---eEEE
Q 005372 181 KEISILDDKDGQ-LHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKA---ALTG 256 (699)
Q Consensus 181 ~~l~i~ed~~~~-v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~---~~~s 256 (699)
..+.+++++..+ +++.|++++.|.+++|+..+|..|.++|....|.+|..|||||+||+|+|.+........ ...|
T Consensus 153 ~~l~i~~~~~~g~~~i~~l~~~~v~s~~~~~~~l~~~~~~R~~~~t~~n~~sSRSH~i~~i~v~~~~~~~~~~~~~~~~s 232 (335)
T PF00225_consen 153 KPLKIREDSNKGSVYIKGLTEVEVKSAEEALQLLKKGQKNRRTASTKMNARSSRSHAIFTIHVEQKDRDPSDDEESVKHS 232 (335)
T ss_dssp SEBEEEEETTTEEEEETTSEEEEESSHHHHHHHHHHHHHHHTCTSSSCTHHGGGSEEEEEEEEEEEETTTTTEEEEEEEE
T ss_pred cccceeeccccccceeeccccccccccccccccccchhhccccccccccccccccccccccccccccccccccccceeec
Confidence 579999999865 999999999999999999999999999999999999999999999999999987655443 5789
Q ss_pred EEEEEEcCCCccccc----chhhHHHHHhhhhhHHHHHHHHHHhcCC--CCCCCCCCChhhhhcccccCCCceeEEEEEe
Q 005372 257 KLNLIDLADNRRTCN----EGIRLLESAKINQSLFALSNVIHALNNN--KPRVPYRESKLTRILQDSLGGTSHALMVACL 330 (699)
Q Consensus 257 kL~fVDLAGsert~~----~g~rl~E~~~INkSL~aLg~VI~aL~~~--~~~IPYRdSKLTrLLqdsLgGnskt~mI~~V 330 (699)
+|+||||||+|+... .+.+++|+..||+||.+|++||.+|+.+ ..|+|||+||||+||||+|||||+|+||+||
T Consensus 233 ~l~~vDLaGsE~~~~~~~~~~~~~~e~~~in~Sl~~L~~vi~~L~~~~~~~~vpyr~SkLT~lL~d~l~g~s~t~~I~~v 312 (335)
T PF00225_consen 233 RLTFVDLAGSERLKKSGASDGQRLKESSNINKSLSALGNVIRALAQGSKQSHVPYRDSKLTRLLKDSLGGNSKTILIVCV 312 (335)
T ss_dssp EEEEEEEEESTGGCGCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHCTTSTSSSCGGGSHHHHHTGGGTSSSSEEEEEEEE
T ss_pred ceeeeecccccccccccccccccccccceecchhhhhhhhHhhhhccccchhhhhhcccccceecccccccccceeEEEc
Confidence 999999999998443 3677999999999999999999999999 8999999999999999999999999999999
Q ss_pred CCC--ChhhhHHHHHHHHHhhhc
Q 005372 331 NPG--EYQESVHTVSLAARSRHI 351 (699)
Q Consensus 331 SP~--~~~ETlsTL~fA~rar~I 351 (699)
+|. +++||++||+||+++|+|
T Consensus 313 sp~~~~~~eTl~tL~fa~~~~~I 335 (335)
T PF00225_consen 313 SPSSEDYEETLSTLRFASRAREI 335 (335)
T ss_dssp -SBGGGHHHHHHHHHHHHHHTTE
T ss_pred CCccccHHHHHHHHHHHHHHcCC
Confidence 997 699999999999999986
No 25
>KOG0246 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=2.8e-66 Score=563.28 Aligned_cols=323 Identities=33% Similarity=0.526 Sum_probs=276.5
Q ss_pred CCCCCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHH
Q 005372 21 STSTSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFY 100 (699)
Q Consensus 21 ~~~~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~ 100 (699)
.....++|.|+||-||++..|...++-+ .|+|...+.+. ..+....+.-........|.||++|++.+ +.+.||.
T Consensus 203 ~~v~ehrI~VCVRKRPLnkkE~~~keiD---visvps~~~l~-vHEpk~kVDLtkYlEn~~F~FDyaFDe~~-sNe~VYr 277 (676)
T KOG0246|consen 203 DGVNEHRICVCVRKRPLNKKELTKKEID---VISVPSKNVLV-VHEPKLKVDLTKYLENQKFRFDYAFDESA-SNELVYR 277 (676)
T ss_pred CCCccceEEEEeecCCCCchhccccccc---eEeccccceEE-eeccccccchHHHHhhceEEEeeeccccc-chHHHHH
Confidence 4556789999999999999998766332 44443222211 11111111111223356899999999887 5599999
Q ss_pred hhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC------CCCCchHHHHHHHHHhhhc-----CCceeEEEEEEEec
Q 005372 101 SEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE------ERPGLMPLAMSKILSICQS-----TGSTAEISYYEVYM 169 (699)
Q Consensus 101 ~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~------~~~GIipral~~LF~~~~~-----~~~~v~vS~~EIYn 169 (699)
-+++|||+.+|+|.-+|+||||||||||||||.|+- ...||..++.+|+|..+.. .+..|.+||||||+
T Consensus 278 fTa~PlV~~IF~~G~ATCFAYGQTGSGKT~TMggdfsgk~q~~s~giya~aa~Dvf~~L~~p~Y~~~~l~v~~tFFEIYg 357 (676)
T KOG0246|consen 278 FTAKPLVKTIFEGGMATCFAYGQTGSGKTYTMGGDFSGKAQDCSKGIYALAARDVFRLLRQPTYRKLDLKVYVTFFEIYG 357 (676)
T ss_pred HhhhHHHHHHHhCCceeeeeeccCCCCceeecccccCcccccccccchhhhhhHHHHHhcccchhhcceEEEEEEEEEeC
Confidence 999999999999999999999999999999998863 2459999999999998765 34689999999999
Q ss_pred ceeeeccCCCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC
Q 005372 170 DRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD 249 (699)
Q Consensus 170 E~v~DLL~~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~ 249 (699)
.++||||+. .+.+.++||.+++++|.||.+..|.+.+|++++++.|+..|+.+.|..|..|||||+||+|.+....
T Consensus 358 GKvfDLL~~-k~KLrvLEDg~QQVqVVGLqE~~v~~~eeVl~lIe~Gns~RtsG~TsANs~SSRSHAvfQIilr~~~--- 433 (676)
T KOG0246|consen 358 GKVYDLLND-KKKLRVLEDGNQQVQVVGLQEEEVSGVEEVLELIEKGNSCRTSGQTSANSNSSRSHAVFQIILRKHG--- 433 (676)
T ss_pred cchhhhhcc-ccceEEeecCCceEEEeeceeeeccCHHHHHHHHHhcccccccCcccCcccccccceeEeeeeecCC---
Confidence 999999997 4579999999999999999999999999999999999999999999999999999999999997532
Q ss_pred CCceEEEEEEEEEcCCCcc----cccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCC-Ccee
Q 005372 250 SKAALTGKLNLIDLADNRR----TCNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGG-TSHA 324 (699)
Q Consensus 250 ~~~~~~skL~fVDLAGser----t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgG-nskt 324 (699)
.....||++||||||+|| +.+..++..||+.||+||+||..||+||..++.|+|||.||||++|+|||-| ||+|
T Consensus 434 -~~k~hGKfSlIDLAGnERGaDts~adRqtRlEGAEINKSLLALKECIRaLg~nk~H~PFR~SKLTqVLRDSFIGenSrT 512 (676)
T KOG0246|consen 434 -EFKLHGKFSLIDLAGNERGADTSSADRQTRLEGAEINKSLLALKECIRALGRNKSHLPFRGSKLTQVLRDSFIGENSRT 512 (676)
T ss_pred -cceeEeEEEEEEccCCccCCcccccchhhhhhhhhhhHHHHHHHHHHHHhcCCCCCCCchhhhHHHHHHHhhcCCCCce
Confidence 235789999999999998 3445677889999999999999999999999999999999999999999988 9999
Q ss_pred EEEEEeCCC--ChhhhHHHHHHHHHhhhccc
Q 005372 325 LMVACLNPG--EYQESVHTVSLAARSRHISN 353 (699)
Q Consensus 325 ~mI~~VSP~--~~~ETlsTL~fA~rar~I~N 353 (699)
+||+||||+ +++.||+|||||+|.|...-
T Consensus 513 cMIA~ISPg~~ScEhTLNTLRYAdRVKeLsv 543 (676)
T KOG0246|consen 513 CMIATISPGISSCEHTLNTLRYADRVKELSV 543 (676)
T ss_pred EEEEEeCCCcchhhhhHHHHHHHHHHHhhcC
Confidence 999999997 69999999999999998754
No 26
>KOG0247 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=2.9e-62 Score=544.77 Aligned_cols=331 Identities=33% Similarity=0.567 Sum_probs=281.5
Q ss_pred CCCCCCCCCeEEEEEcCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEE-ecC-CCCCCceeeeeceeeCCCCCcHh
Q 005372 19 PNSTSTSSKVRVIVRVRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVY-LKD-PDTIRSECYQLDSFFGQEDESVS 96 (699)
Q Consensus 19 ~~~~~~~~~VrV~vRvRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~-~~~-~~~~~~~~F~FD~VF~~~~~sQ~ 96 (699)
-.+......|.|+||+||+.+.. +..+|+.|.+...+......-.. ... ........|.|-+||++++ +|.
T Consensus 24 ~~S~~~~d~v~v~~rvrP~~~~~------~~~g~l~v~n~~tivL~~P~d~~~~~~~n~~q~e~~fsFt~VF~p~~-tQ~ 96 (809)
T KOG0247|consen 24 GASCESKDPVLVVCRVRPLSDAS------EDEGCLRVINEETIVLETPEDSFARRSVNGGQMEKKFSFTKVFGPSV-TQA 96 (809)
T ss_pred ccchhhhcchheeEeecCCCCCc------cccceEEEeccceeEeeCcHHHHhhhccCccceeeEeeeeeecCCCc-cHH
Confidence 34455667899999999988521 24678888877553221100000 010 1222356799999999986 889
Q ss_pred HHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhh----------------------
Q 005372 97 KIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQ---------------------- 154 (699)
Q Consensus 97 ~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~---------------------- 154 (699)
+||+.++.|+|.+++.|.|..+|+||.|||||||||+|+..++||+||+++-||..++
T Consensus 97 dvF~~~~~plV~dlLkgqn~LlFTyGVTgSGKTYTm~G~~~~~GIlPR~Ld~iF~siq~~~~~k~~~kp~~s~~~e~~~~ 176 (809)
T KOG0247|consen 97 DVFDTTVAPLVKDLLKGQNSLLFTYGVTGSGKTYTMTGTPDRPGILPRALDVIFNSIQGRQAKKPVFKPLRSNLFEIKAE 176 (809)
T ss_pred HHHHHHhHHHHHHHHcccceeEEEeeccCCCceEEeecCCCCCCchHHHHHHHHHHhhceeccCceeccccchHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999996221
Q ss_pred ----------------------------------------------cCCceeEEEEEEEecceeeeccCCCcc------c
Q 005372 155 ----------------------------------------------STGSTAEISYYEVYMDRCYDLLEVKTK------E 182 (699)
Q Consensus 155 ----------------------------------------------~~~~~v~vS~~EIYnE~v~DLL~~~~~------~ 182 (699)
+..+.|.|||+|||||.|||||.+.+. .
T Consensus 177 ~~alL~lkr~~~~nd~~~ts~~~~~~~~e~~e~~~~~e~~~~~l~~d~~ysV~VSf~EIYN~~iYDLLe~~s~q~~~~~~ 256 (809)
T KOG0247|consen 177 EDALLQLKREAMLNDRKSTSKAHRQSTPEYAEHIHVIEQPALELDEDIVYSVFVSFVEIYNNYIYDLLEDASFQGKLQKL 256 (809)
T ss_pred HHHHHhhhhhhccccccCcchhhccccHHHHhhcchhcccccccCcCcEEEEEeeHHHHHHHHHHHhhccccccchhhhh
Confidence 011367899999999999999986532 2
Q ss_pred eeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecC-CCCceEEEEEEEE
Q 005372 183 ISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGD-DSKAALTGKLNLI 261 (699)
Q Consensus 183 l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~-~~~~~~~skL~fV 261 (699)
..+++|.++..+|.|+++|.|++.+|++++|+.|.++|++++|.+|..|||||+||+|.+.+...+ +......|.|.||
T Consensus 257 ~ll~~d~~~~~~Vkgl~~V~VssseEA~~l~~lGqk~r~~asT~lN~~SSRSHsVFtIkl~q~~~~~~s~~i~vSqlsLv 336 (809)
T KOG0247|consen 257 KLLREDTNGNMYVKGLTEVEVSSSEEALELFQLGQKRRRVASTKLNANSSRSHSVFTIKLVQAPRSQDSNQITVSQLSLV 336 (809)
T ss_pred hhhhhccCCCeeeccccEEEeccHHHHHHHHHHHHhhhhhhheeccccccccceeEEEEeeecccccccCceeEEeeeee
Confidence 567899999999999999999999999999999999999999999999999999999999987765 5667788999999
Q ss_pred EcCCCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCC-----CCCCCCCCChhhhhcccccCCCceeEEEEEeCCC
Q 005372 262 DLADNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNN-----KPRVPYRESKLTRILQDSLGGTSHALMVACLNPG 333 (699)
Q Consensus 262 DLAGser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~-----~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~ 333 (699)
||||||| +.++|.|++|+++||.||.+||+||.+|+++ +.+|||||||||++++.+|.|..+..||.||+|.
T Consensus 337 DLAGSERt~rtq~sG~RLrEagNINtSLmTLg~Cie~LR~nqk~ks~~~VPyRdSKLThlfq~~f~G~gki~MIV~vnp~ 416 (809)
T KOG0247|consen 337 DLAGSERTNRTQNSGERLREAGNINTSLMTLRRCIDVLRENQKSKSQKIVPYRDSKLTHLFKNYFDGKGKIRMIVCVNPK 416 (809)
T ss_pred ecccchhcccccchhHHHHhhccccHHHHHHHHHHHHHHHHhhhhccccCcchHHHHHHHHHHhcCCCCcEEEEEecCCc
Confidence 9999998 5678999999999999999999999999864 3689999999999999999999999999999996
Q ss_pred --ChhhhHHHHHHHHHhhhccccCC
Q 005372 334 --EYQESVHTVSLAARSRHISNTLP 356 (699)
Q Consensus 334 --~~~ETlsTL~fA~rar~I~N~~~ 356 (699)
+|+|+++.|+||.-+..|.+..+
T Consensus 417 ~e~YdEnl~vlkFaeiaq~v~v~~~ 441 (809)
T KOG0247|consen 417 AEDYDENLNVLKFAEIAQEVEVARP 441 (809)
T ss_pred hhhHHHHHHHHHHHHhcccccccCc
Confidence 69999999999999998877533
No 27
>KOG0244 consensus Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=6.5e-60 Score=539.41 Aligned_cols=310 Identities=37% Similarity=0.565 Sum_probs=273.2
Q ss_pred cCCCCChhhhhhcCCCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhhccchhhhhcCC
Q 005372 34 VRPFLSQEIAAKNGNSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHG 113 (699)
Q Consensus 34 vRP~~~~E~~~~~~~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G 113 (699)
|||+...|...+ +..|+.+.+.+. ++.++.. .+|+||+||... +.|.++|+..|.|+++.+|+|
T Consensus 1 vRpl~~~e~~~g---~~~c~~~~~~~p-------qv~ig~~-----~s~t~d~v~~~~-~~Q~~~~e~~V~~l~~~lf~g 64 (913)
T KOG0244|consen 1 VRPLKQMEEEQG---CRRCTEVSPRTP-------QVAIGKD-----ASFTYDKVFLDL-ESQKEVYESCVRPLREKLFAG 64 (913)
T ss_pred CCCccchHHHhc---chhhcccCCCCC-------ceeecCC-----cceeeeeeccCc-hHHHHHHHHHHHHHHHHHhhh
Confidence 699999987665 556777555432 4444433 469999999976 478999999999999999999
Q ss_pred CCEEEEeeccCCCCCcceeccC----CCCCCchHHHHHHHHHhhhc---CCceeEEEEEEEecceeeeccCCCc--ccee
Q 005372 114 RNATVFAYGATGSGKTYTMQGS----EERPGLMPLAMSKILSICQS---TGSTAEISYYEVYMDRCYDLLEVKT--KEIS 184 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~G~----~~~~GIipral~~LF~~~~~---~~~~v~vS~~EIYnE~v~DLL~~~~--~~l~ 184 (699)
||+|++|||||||||||||.+. .+..|+|||+++.+|..+.. ..+.|.|||+|||+|.|+|||.+.. ..+.
T Consensus 65 ynatvlaygQtgsgkTytmgt~~~~~~~~~Gvipr~v~~~f~~i~~~~~~~f~i~vs~vely~e~v~dl~~~~~~~~~i~ 144 (913)
T KOG0244|consen 65 YNATVLAYGQTGSGKTYTMGTNDAPAQDTVGVIPRAVSTLFTRIGKTESFVFRITVSFVELYNEEVLDLLKPSRLKANIK 144 (913)
T ss_pred hcceeeeecccCCCceeecccccccccccCCcCcchHHHHHHHHHhhhccceeeeeeeeeccchhhhhhcChhhhhhcee
Confidence 9999999999999999999887 33459999999999998865 3478999999999999999998543 3466
Q ss_pred eeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEEEEEEcC
Q 005372 185 ILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLA 264 (699)
Q Consensus 185 i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL~fVDLA 264 (699)
+++ +.|++.+.|++++.|.+..++...|..|...|++++|+||..|||||+||+|.+.+...........+||+|||||
T Consensus 145 ~~e-~~g~it~~glte~tv~~~~q~~~~L~~g~~~RtvasTnMN~qssRshAifti~lkq~kk~~~~s~~~sKlhlVDLA 223 (913)
T KOG0244|consen 145 LRE-PKGEITIRGLTEKTVRMKLQLLSRLEKGSLERTVASTNMNAQSSRSHAIFTITLKQRKKLSKRSSFCSKLHLVDLA 223 (913)
T ss_pred ccc-cCCceEEEeehHHHHHHHHHHHHHHHhchHHHHHHHHhcchhhhhhhHHHHHHHHHHHHhhccchhhhhhheeecc
Confidence 777 7888999999999999999999999999999999999999999999999999998754444444567999999999
Q ss_pred CCcc---cccchhhHHHHHhhhhhHHHHHHHHHHhcCCCC--CCCCCCChhhhhcccccCCCceeEEEEEeCCCC--hhh
Q 005372 265 DNRR---TCNEGIRLLESAKINQSLFALSNVIHALNNNKP--RVPYRESKLTRILQDSLGGTSHALMVACLNPGE--YQE 337 (699)
Q Consensus 265 Gser---t~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~--~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~~--~~E 337 (699)
|+|| ++.+|.|++|+.+||.+|++||+||.||.+.+. |||||+|||||||||+||||+.|+||+||||++ .+|
T Consensus 224 GSER~kkT~a~gdrlKEgInIN~gLL~LgnVIsaLg~~kk~~~vpyRdSkltrlLQdslgGns~tlmiaCiSpadsn~~E 303 (913)
T KOG0244|consen 224 GSERVKKTKAEGDRLKEGININGGLLALGNVISALGEAKKGGEVPYRDSKLTRLLQDSLGGNSDTLMIACISPADSNAQE 303 (913)
T ss_pred ccccccccccchhhhhhccCcchHHHHHHHHHHHHHhhhcCCcccchHHHHHHHHHHHhcCCcceeeeeecChhhhhhhh
Confidence 9997 678899999999999999999999999998776 999999999999999999999999999999984 799
Q ss_pred hHHHHHHHHHhhhccccCCCccc
Q 005372 338 SVHTVSLAARSRHISNTLPSAQK 360 (699)
Q Consensus 338 TlsTL~fA~rar~I~N~~~~~~~ 360 (699)
|++||+||.||++|+|++.+|+.
T Consensus 304 tlnTl~ya~Rak~iknk~vvN~d 326 (913)
T KOG0244|consen 304 TLNTLRYADRAKQIKNKPVVNQD 326 (913)
T ss_pred HHHHHHHhhHHHHhccccccccc
Confidence 99999999999999999888773
No 28
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=100.00 E-value=4.3e-56 Score=507.30 Aligned_cols=279 Identities=38% Similarity=0.665 Sum_probs=258.8
Q ss_pred ceeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc---
Q 005372 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS--- 155 (699)
Q Consensus 79 ~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~--- 155 (699)
...|.||+||++.. +|++||+..++|++++++.|||+||||||||||||||||.|..+++||||+++.+||+.+..
T Consensus 55 ~~~~~fdkvf~~~~-~q~~v~e~~~~~l~~~~l~g~N~TvfayGqTgsgKtyt~~G~~~~~Gii~~~l~~lf~~l~~~~~ 133 (568)
T COG5059 55 EGTYAFDKVFGPSA-TQEDVYEETIKPLIDSLLLGYNCTVFAYGQTGSGKTYTMSGTEEEPGIIPLSLKELFSKLEDLSM 133 (568)
T ss_pred ceEEEEeeccCCCC-cHHHHHHHhhhhHHHHHHhcccceEEEEcccCCCceeEeecCccccchHHHHHHHHHHHHHhccc
Confidence 44699999999986 78999999999999999999999999999999999999999999999999999999997754
Q ss_pred -CCceeEEEEEEEecceeeeccCCCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCc
Q 005372 156 -TGSTAEISYYEVYMDRCYDLLEVKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRS 234 (699)
Q Consensus 156 -~~~~v~vS~~EIYnE~v~DLL~~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRS 234 (699)
..+.+.+||+|||||+++|||.+....+.++++..+++.+.|+++..+.+.+|++.+|+.|..+|+++.|.+|+.||||
T Consensus 134 ~~~~~v~is~lEiYnEk~~DLl~~~~~~~~~~~~~~~~v~v~~l~~~~~~s~ee~l~~l~~~~~nr~~~~te~n~~ssRs 213 (568)
T COG5059 134 TKDFAVSISYLEIYNEKIYDLLSPNEESLNIREDSLLGVKVAGLTEKHVSSKEEILDLLRKGEKNRTTASTEINDESSRS 213 (568)
T ss_pred CcceeeEeehhHHHhhHHHhhccCccccccccccCCCceEeecceEEecCChHHHHHHHHHhhhhcccccchhccccccc
Confidence 3578999999999999999999887768899999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEEEEeecCCCCceEEEEEEEEEcCCCccccc---chhhHHHHHhhhhhHHHHHHHHHHhcC--CCCCCCCCCCh
Q 005372 235 HGVLVISVSTLLGDDSKAALTGKLNLIDLADNRRTCN---EGIRLLESAKINQSLFALSNVIHALNN--NKPRVPYRESK 309 (699)
Q Consensus 235 H~If~I~V~~~~~~~~~~~~~skL~fVDLAGsert~~---~g~rl~E~~~INkSL~aLg~VI~aL~~--~~~~IPYRdSK 309 (699)
|+||++++.+........ ..++|+||||||+|+... .+.|++|+..||+||.+||+||.+|.. +..|||||+||
T Consensus 214 hsi~~i~~~~~~~~~~~~-~~~~l~lvDLagSE~~~~~~~~~~r~~E~~~iN~sLl~Lg~vI~~L~~~~~~~~ipyResk 292 (568)
T COG5059 214 HSIFQIELASKNKVSGTS-ETSKLSLVDLAGSERAARTGNRGTRLKEGASINKSLLTLGNVINALGDKKKSGHIPYRESK 292 (568)
T ss_pred eEEEEEEEEEeccCccce-ecceEEEEeeccccccchhhcccchhhhhhhhHhhHHHHHHHHHHHhccccCCccchhhhH
Confidence 999999999876543322 347999999999998554 689999999999999999999999997 78899999999
Q ss_pred hhhhcccccCCCceeEEEEEeCCCC--hhhhHHHHHHHHHhhhccccCCCcc
Q 005372 310 LTRILQDSLGGTSHALMVACLNPGE--YQESVHTVSLAARSRHISNTLPSAQ 359 (699)
Q Consensus 310 LTrLLqdsLgGnskt~mI~~VSP~~--~~ETlsTL~fA~rar~I~N~~~~~~ 359 (699)
|||+|+++|||+++|.|||||+|.. ++||.+||+||.||+.|+|.+..+.
T Consensus 293 LTRlLq~sLgG~~~~~~i~~Isp~~~~~~et~~tL~~a~rak~I~~~~~~~~ 344 (568)
T COG5059 293 LTRLLQDSLGGNCNTRVICTISPSSNSFEETINTLKFASRAKSIKNKIQVNS 344 (568)
T ss_pred HHHHHHHhcCCCccEEEEEEEcCCCCchHHHHHHHHHHHHHhhcCCcccccC
Confidence 9999999999999999999999984 9999999999999999999877764
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=3.4e-47 Score=378.00 Aligned_cols=174 Identities=47% Similarity=0.745 Sum_probs=162.7
Q ss_pred HHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEEEecceeeeccC
Q 005372 98 IFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDLLE 177 (699)
Q Consensus 98 Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DLL~ 177 (699)
||+.+. |+|+.+++|||+|||+||||||||||||+|+.+++||+|+++++
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 898888 99999999999999999999999999999999999999999988
Q ss_pred CCccceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCC--CCceEE
Q 005372 178 VKTKEISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDD--SKAALT 255 (699)
Q Consensus 178 ~~~~~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~--~~~~~~ 255 (699)
+++++..|..+|+.+.|.+|+.|||||+||+|++.+..... ......
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 78999999999999999999999999999999998865433 244567
Q ss_pred EEEEEEEcCCCccc---ccchhhHHHHHhhhhhHHHHHHHHHHhcCCCCCCCCCCChhhhhcccccCCCceeEEEEEeCC
Q 005372 256 GKLNLIDLADNRRT---CNEGIRLLESAKINQSLFALSNVIHALNNNKPRVPYRESKLTRILQDSLGGTSHALMVACLNP 332 (699)
Q Consensus 256 skL~fVDLAGsert---~~~g~rl~E~~~INkSL~aLg~VI~aL~~~~~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP 332 (699)
++|+||||||+|+. +..+.+++|+..||+||.+|++||.+|.+++.|||||+||||+||||+|||||+|+||+||||
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 99999999999974 456788999999999999999999999999999999999999999999999999999999998
No 30
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=99.54 E-value=5.3e-15 Score=142.54 Aligned_cols=62 Identities=39% Similarity=0.512 Sum_probs=59.0
Q ss_pred ccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 582 QEYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 582 ~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
....||||||+.+||+.|||||+++|++||+||+++ ||++++||.+| |||++.+++|++++.
T Consensus 85 ~~~~vNiNtAs~eeL~~lpgIG~~kA~aIi~yRe~~G~f~sv~dL~~v~GiG~~~~ekl~~~i~ 148 (149)
T COG1555 85 EEKKVNINTASAEELQALPGIGPKKAQAIIDYREENGPFKSVDDLAKVKGIGPKTLEKLKDYIT 148 (149)
T ss_pred ccccccccccCHHHHHHCCCCCHHHHHHHHHHHHHcCCCCcHHHHHhccCCCHHHHHHHHhhcc
Confidence 356899999999999999999999999999999999 99999999999 999999999999864
No 31
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=99.48 E-value=2.8e-14 Score=118.89 Aligned_cols=61 Identities=41% Similarity=0.490 Sum_probs=51.8
Q ss_pred cccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 583 EYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
..++|||+|+.+||+.+||||++.|++||+||+++ ||++++||.+| ||+++.+++|+..++
T Consensus 3 ~~~idiN~as~~eL~~lpgi~~~~A~~Iv~~R~~~G~f~s~~dL~~v~gi~~~~~~~l~~~l~ 65 (65)
T PF12836_consen 3 EQKIDINTASAEELQALPGIGPKQAKAIVEYREKNGPFKSLEDLKEVPGIGPKTYEKLKPYLT 65 (65)
T ss_dssp HHSEETTTS-HHHHHTSTT--HHHHHHHHHHHHHH-S-SSGGGGGGSTT--HHHHHHHCCCEE
T ss_pred CCCccCccCCHHHHHHcCCCCHHHHHHHHHHHHhCcCCCCHHHHhhCCCCCHHHHHHHHhhcC
Confidence 46799999999999999999999999999999988 99999999999 999999999998764
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=99.33 E-value=1.5e-12 Score=121.29 Aligned_cols=62 Identities=37% Similarity=0.409 Sum_probs=58.8
Q ss_pred cccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhccccc
Q 005372 583 EYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAAK 644 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 644 (699)
..++|||||+.++|++|||||+++|++||+||+.+ ||.+++||.+| ||+++.+++|++.+++
T Consensus 57 ~~~iniNtA~~~eL~~lpGIG~~~A~~Ii~~R~~~g~f~s~eeL~~V~GIg~k~~~~i~~~l~v 120 (120)
T TIGR01259 57 LAAVNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120 (120)
T ss_pred CCCEeCCcCCHHHHhcCCCCCHHHHHHHHHHHHhcCCcCCHHHHHcCCCCCHHHHHHHHhceEC
Confidence 55899999999999999999999999999999988 99999999999 9999999999998763
No 33
>TIGR00426 competence protein ComEA helix-hairpin-helix repeat region. Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model.
Probab=99.19 E-value=2.9e-11 Score=101.72 Aligned_cols=61 Identities=28% Similarity=0.432 Sum_probs=57.4
Q ss_pred cccccCcccCHHHHhc-CCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 583 EYIDFLNTASREELVE-LKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~-lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
..++|||||+.++|.. +||||++.|++||++|... +|++++||.++ ||+.+.+++|++.++
T Consensus 5 ~~~invNta~~~~L~~~ipgig~~~a~~Il~~R~~~g~~~s~~dL~~v~gi~~~~~~~i~~~~~ 68 (69)
T TIGR00426 5 GTRVNINTATAEELQRAMNGVGLKKAEAIVSYREEYGPFKTVEDLKQVPGIGNSLVEKNLAVIT 68 (69)
T ss_pred CCeeECcCCCHHHHHhHCCCCCHHHHHHHHHHHHHcCCcCCHHHHHcCCCCCHHHHHHHHhhcc
Confidence 3569999999999999 9999999999999999987 89999999999 999999999998865
No 34
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=99.04 E-value=2.3e-10 Score=106.60 Aligned_cols=61 Identities=21% Similarity=0.217 Sum_probs=53.6
Q ss_pred ccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHH---HHHHhhcccccc
Q 005372 582 QEYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTK---QVYNLFGKAAKG 645 (699)
Q Consensus 582 ~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~---~~~~l~~~~~~~ 645 (699)
...+||||+|+.++|+.+|||||++|++||+ ..||+++|||.+| |||++ .+++.++++++.
T Consensus 49 ~~~kIdiN~A~~~el~~lpGigP~~A~~IV~---nGpf~sveDL~~V~GIgekqk~~l~k~~~~ftV~ 113 (132)
T PRK02515 49 FGEKIDLNNSSVRAFRQFPGMYPTLAGKIVK---NAPYDSVEDVLNLPGLSERQKELLEANLDNFTVT 113 (132)
T ss_pred cCCcccCCccCHHHHHHCCCCCHHHHHHHHH---CCCCCCHHHHHcCCCCCHHHHHHHHHhhcceeeC
Confidence 3568999999999999999999999999994 2399999999999 99975 677778877764
No 35
>COG1491 Predicted RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=98.39 E-value=1.4e-07 Score=92.37 Aligned_cols=80 Identities=19% Similarity=0.251 Sum_probs=58.3
Q ss_pred chhhhhhhhhccccccccCc-----ccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-cCCCHHHHHHhhcccc
Q 005372 570 SARSIRLKNSLVQEYIDFLN-----TASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK-IGLSTKQVYNLFGKAA 643 (699)
Q Consensus 570 ~~~~~~~~~s~~~~~~v~iN-----tA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-vGi~~~~~~~l~~~~~ 643 (699)
+.....+-..-...+.-++| |+..++|+.|||||+|+++.||+.|++.||.|++|+.+ ||+.....+-|-.|+.
T Consensus 101 pyvve~iV~~~E~rFV~fFN~A~PIt~RLH~LELLpGiGkK~m~~ILeERkkkpFeSFeDi~~Rv~~~~~p~~~I~~RIl 180 (202)
T COG1491 101 PYVVEKIVKENEDRFVKFFNEAEPITLRLHQLELLPGIGKKTMWAILEERKKKPFESFEDIKERVKGLHDPAKMIAERIL 180 (202)
T ss_pred HHHHHHHHHhhhhHHHHHhcccCcchHHHHHHHhcccccHHHHHHHHHHHhcCCCcCHHHHHHHhcCCCCHHHHHHHHHH
Confidence 33333333333346778888 55689999999999999999999999999999999988 6444345555666666
Q ss_pred ccccCC
Q 005372 644 KGIFDR 649 (699)
Q Consensus 644 ~~~~~~ 649 (699)
.++-++
T Consensus 181 ~El~~~ 186 (202)
T COG1491 181 DELKDE 186 (202)
T ss_pred HHhcCC
Confidence 555433
No 36
>PF04919 DUF655: Protein of unknown function (DUF655); InterPro: IPR007003 This family includes several uncharacterised archaeal proteins.; PDB: 2I5H_A.
Probab=98.31 E-value=2e-07 Score=91.77 Aligned_cols=67 Identities=27% Similarity=0.453 Sum_probs=47.0
Q ss_pred ccccccCcc-----cCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHhhccccccccCC
Q 005372 582 QEYIDFLNT-----ASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 582 ~~~~v~iNt-----A~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
+.++.++|. ...+.|+-|||||+|+++.||+.|++.||.|++|+.+ | |+. ...+-|-+|+..++-++
T Consensus 99 ~~FV~FfN~A~PIt~RlH~LeLLPGIGKK~m~~ILeERkkkpFeSFeDi~~Rv~gl~-~p~~~i~~RIl~EL~~~ 172 (181)
T PF04919_consen 99 ERFVDFFNEAQPITLRLHSLELLPGIGKKTMWKILEERKKKPFESFEDIEERVKGLH-DPVKLIVERILEELQGE 172 (181)
T ss_dssp HHHHHHH-----B-SSSBGGGGSTT--HHHHHHHHHHHHHS---SHHHHHHHSTT----HHHHHHHHHHHHHH-T
T ss_pred HHHHHHhhcCCCChHHHHHHhhcccccHHHHHHHHHHHccCCCCCHHHHHHHhccCC-CHHHHHHHHHHHHHcCC
Confidence 467788884 4579999999999999999999999999999999977 7 664 56667777777776543
No 37
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=97.77 E-value=1.7e-05 Score=56.40 Aligned_cols=27 Identities=44% Similarity=0.509 Sum_probs=23.6
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 587 FLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
.++.++.+||+.|||||+++|++|+++
T Consensus 4 g~~pas~eeL~~lpGIG~~tA~~I~~~ 30 (30)
T PF00633_consen 4 GLIPASIEELMKLPGIGPKTANAILSF 30 (30)
T ss_dssp HHHTSSHHHHHTSTT-SHHHHHHHHHH
T ss_pred CcCCCCHHHHHhCCCcCHHHHHHHHhC
Confidence 457899999999999999999999975
No 38
>PF14579 HHH_6: Helix-hairpin-helix motif; PDB: 2HPM_A 2HPI_A 3E0D_A 3F2C_A 3F2B_A 3F2D_A 2HQA_A 2HNH_A.
Probab=97.26 E-value=0.00058 Score=60.55 Aligned_cols=51 Identities=35% Similarity=0.639 Sum_probs=40.5
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHhhccccccccCC
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
|..|+|||++.|++|++.|+..||++++||.+ + +|+.+.++.|.. .|.|+.
T Consensus 29 l~~Ikglg~~~a~~I~~~R~~g~f~s~~df~~R~~~i~~~~le~Li~---aGafd~ 81 (90)
T PF14579_consen 29 LSAIKGLGEEVAEKIVEERENGPFKSLEDFIQRLPKINKRQLEALIK---AGAFDS 81 (90)
T ss_dssp GGGSTTS-HHHHHHHHHHHHCSS-SSHHHHHHHS-TS-HHHHHHHHH---TTTTTT
T ss_pred HhhcCCCCHHHHHHHHHhHhcCCCCCHHHHHHHHhcCCHHHHHHHHH---CCCccc
Confidence 67899999999999999999559999999866 8 999999988874 455543
No 39
>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]
Probab=97.05 E-value=0.00037 Score=73.58 Aligned_cols=53 Identities=30% Similarity=0.463 Sum_probs=45.0
Q ss_pred ccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHH
Q 005372 582 QEYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQV 635 (699)
Q Consensus 582 ~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~ 635 (699)
..+||++|.|+.++|..+||||.+.|.+||..|..... .+|||+++|+.-|..
T Consensus 318 d~FPVdvn~A~~~~llRVPGiG~ksa~rIv~~Rr~~rl-~~e~Lkk~GvvlkRa 370 (404)
T COG4277 318 DRFPVDVNKAPYKELLRVPGIGVKSARRIVMTRRRTRL-TLEDLKKLGVVLKRA 370 (404)
T ss_pred ccccccccccCHHHhcccCCCChHHHHHHHHHhhhccc-CHHHHhhhceeeecc
Confidence 47899999999999999999999999999999953322 469999999865544
No 40
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=96.92 E-value=0.00072 Score=79.55 Aligned_cols=64 Identities=25% Similarity=0.231 Sum_probs=56.6
Q ss_pred hccccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 579 SLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 579 s~~~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
..+...=||+|||+..-|..+.|+|+.+|++|++||++. +|.+-+||.+| .+|+|..++--+-+
T Consensus 494 d~VN~VGVdvNtAsa~lL~~VsGL~kt~A~nIv~~r~~~g~f~~Rk~L~kv~rlg~k~Feq~aGFL 559 (780)
T COG2183 494 DCVNAVGVDVNTASASLLSYVSGLNKTLAKNIVAYRDENGAFDNRKQLKKVPRLGPKAFEQCAGFL 559 (780)
T ss_pred HHhcccccccccCCHHHHHHHhhhchhHHHHHHHHHhhcCCcccHHHHhcCCCcChhhhhhcceee
Confidence 334455699999999999999999999999999999999 89999999999 99999998865543
No 41
>COG5059 KIP1 Kinesin-like protein [Cytoskeleton]
Probab=96.88 E-value=5.3e-06 Score=96.32 Aligned_cols=205 Identities=24% Similarity=0.197 Sum_probs=118.6
Q ss_pred ceeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCc
Q 005372 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGS 158 (699)
Q Consensus 79 ~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~ 158 (699)
...|.||.+|.+.. ....++. ....+++.-++| +++||++++|++++|.- ...++..-.+...|........
T Consensus 352 ~~~~~~d~~~~~~~-~~~~~~~-~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~ 423 (568)
T COG5059 352 IEEIKFDLSEDRSE-IEILVFR-EQSQLSQSSLSG----IFAYMQSLKKETETLKS--RIDLIMKSIISGTFERKKLLKE 423 (568)
T ss_pred HHHHHhhhhhhhhh-hhhHHHH-HHHhhhhhhhhh----HHHHHhhhhhhhhcccc--hhhhhhhhhhhhhhhhhhhhhh
Confidence 35699999998764 4344443 456677777778 99999999999999963 2334555554666655443222
Q ss_pred -----eeEEEEEEEecceeeeccCCCc-c--ceeeeecCCCCeEecCCEEEEeCChhHHHHHHHHHHhcCcccccCCCCC
Q 005372 159 -----TAEISYYEVYMDRCYDLLEVKT-K--EISILDDKDGQLHLKGLSRVPVNSMTEFQEIFSRGIQRRKVAHTGLNDV 230 (699)
Q Consensus 159 -----~v~vS~~EIYnE~v~DLL~~~~-~--~l~i~ed~~~~v~v~gLsev~V~S~ee~~~ll~~g~~~R~~~sT~~N~~ 230 (699)
...+-+.++|.....++..... . ........-+......++ .......+..... .+...+..+.+..|..
T Consensus 424 ~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~n~~ 501 (568)
T COG5059 424 EGWKYKSTLQFLRIEIDRLLLLREEELSKKKTKIHKLNKLRHDLSSLLS-SIPEETSDRVESE-KASKLRSSASTKLNLR 501 (568)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhhh-hcchhhhhhhhhh-hhccchhhcccchhhh
Confidence 2223333444122222221110 0 000000000000000000 1111111111111 4567788889999999
Q ss_pred CCCceEEEEEEEEEeecCCCCceEEEEEEEEEcCCCccc--ccchhhHHHHHhhhhhHHHHHHHHHHhc
Q 005372 231 SSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLADNRRT--CNEGIRLLESAKINQSLFALSNVIHALN 297 (699)
Q Consensus 231 SSRSH~If~I~V~~~~~~~~~~~~~skL~fVDLAGsert--~~~g~rl~E~~~INkSL~aLg~VI~aL~ 297 (699)
++++|.+|+.+........... . ++.||||++++. ..-|.++++...+|++|..++.+|.++.
T Consensus 502 ~~~~~~~~~~~~~~~~~~~~~~--~--~n~~~~~~~e~~~s~~~~~~l~~~~~~~k~l~~~~d~~~~~~ 566 (568)
T COG5059 502 SSRSHSKFRDHLNGSNSSTKEL--S--LNQVDLAGSERKVSQSVGELLRETQSLNKSLSSLGDVIHALG 566 (568)
T ss_pred hcccchhhhhcccchhhhhHHH--H--hhhhhccccccchhhhhHHHHHhhHhhhhccccchhhhhhcc
Confidence 9999999988775432211111 1 799999999985 3357899999999999999999998864
No 42
>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=96.70 E-value=0.0024 Score=52.29 Aligned_cols=45 Identities=29% Similarity=0.546 Sum_probs=37.1
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHH--------Hhhc-CCCHHHHHHhhcc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSD--------LEKI-GLSTKQVYNLFGK 641 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~d--------L~~v-Gi~~~~~~~l~~~ 641 (699)
.++|..|||||+++|++++++ +|.+++| |.++ |||++..++|...
T Consensus 4 ~~~L~~I~Gig~~~a~~L~~~----G~~t~~~l~~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 4 FDDLLSIPGIGPKRAEKLYEA----GIKTLEDLANADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp HHHHHTSTTCHHHHHHHHHHT----TCSSHHHHHTSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred HHhhccCCCCCHHHHHHHHhc----CCCcHHHHHcCCHHHHhcCCCCCHHHHHHHHHH
Confidence 368999999999999999886 5777654 5567 9999999998754
No 43
>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]
Probab=96.65 E-value=0.0013 Score=73.21 Aligned_cols=43 Identities=30% Similarity=0.363 Sum_probs=41.3
Q ss_pred cccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 583 EYIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..++++|+|+.++|.+|||||.+.+..|+..| ||+|.|||.+.
T Consensus 505 p~pl~vn~~s~~vl~~ipgig~~~~~~I~~~R---p~~s~e~~l~~ 547 (560)
T COG1031 505 PVPLDVNSASKDVLRAIPGIGKKTLRKILAER---PFKSSEEFLKL 547 (560)
T ss_pred ccccccccccHHHHHhcccchhhhHHHHHhcC---CccchHHHHhc
Confidence 67899999999999999999999999999999 99999999985
No 44
>PF06514 PsbU: Photosystem II 12 kDa extrinsic protein (PsbU); InterPro: IPR010527 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII extrinsic protein PsbU, which forms part of the OEC in cyanobacteria and red algae. PsbU acts to stabilise the oxygen-evolving machinery of PSII against heat-induced inactivation, which is crucial for cellular thermo-tolerance [].; GO: 0015979 photosynthesis, 0042549 photosystem II stabilization, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 3BZ1_U 3KZI_U 3PRQ_U 2AXT_u 3BZ2_U 4FBY_U 3PRR_U 1S5L_U 3A0H_U 3ARC_U ....
Probab=96.64 E-value=0.00097 Score=59.17 Aligned_cols=54 Identities=31% Similarity=0.273 Sum_probs=43.2
Q ss_pred ccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhc
Q 005372 584 YIDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 584 ~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
.+|+||.|+..+.+.+||+=|.+|.+||..= ||++++|+.++ |++..+-+-+++
T Consensus 13 ~KIDlNNa~vr~f~~~pGmYPtlA~kIv~na---PY~sveDvl~ipgLse~qK~~lk~ 67 (93)
T PF06514_consen 13 QKIDLNNANVRAFRQFPGMYPTLAGKIVSNA---PYKSVEDVLNIPGLSERQKALLKK 67 (93)
T ss_dssp TCEETTSS-GGGGCCSTTTTCCHHHHHHHS------SSGGGGCCSTT--HHHHHHHHH
T ss_pred CceecccHhHHHHHHCCCCCHHHHHHHHhCC---CCCCHHHHHhccCCCHHHHHHHHH
Confidence 6799999999999999999999999999876 99999999999 999877555443
No 45
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=96.33 E-value=0.0039 Score=67.42 Aligned_cols=63 Identities=24% Similarity=0.400 Sum_probs=50.2
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHh-----------hc-CCCHHHHHHhhccccccccCC
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLE-----------KI-GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~-----------~v-Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
.+.+-++.+++..|||||+++|++|.++.+...|..+++|. +| |||++++.+|. ..=..-++|
T Consensus 37 l~~~i~~~~~~~~ipgiG~~ia~kI~E~~~tG~~~~le~l~~~~~~~l~~l~~i~GiGpk~a~~l~-~lGi~sl~d 111 (307)
T cd00141 37 LPEPIESLEEAKKLPGIGKKIAEKIEEILETGKLRKLEELREDVPPGLLLLLRVPGVGPKTARKLY-ELGIRTLED 111 (307)
T ss_pred CCcccCCHHHhcCCCCccHHHHHHHHHHHHcCCHHHHHHHhccchHHHHHHHcCCCCCHHHHHHHH-HcCCCCHHH
Confidence 34445778899999999999999999999988887777554 79 99999999998 443333433
No 46
>PF03934 T2SK: Type II secretion system (T2SS), protein K; InterPro: IPR005628 Members of this family are involved in the general secretion pathway. The family includes proteins such as ExeK, PulK, OutX and XcpX.; GO: 0009306 protein secretion, 0016021 integral to membrane; PDB: 3CI0_K.
Probab=96.03 E-value=0.0026 Score=67.59 Aligned_cols=62 Identities=26% Similarity=0.180 Sum_probs=35.7
Q ss_pred cccccCcccCHHHHhcC-CCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCH-HHHHHhhccccc
Q 005372 583 EYIDFLNTASREELVEL-KGIGQRLADYICELRQSSPVKSLSDLEKI-GLST-KQVYNLFGKAAK 644 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~l-pGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~-~~~~~l~~~~~~ 644 (699)
..+||||||+.+-|+.| +||++..|++||.+|...||++++||... +++. .....+...+.+
T Consensus 182 ~~~iNiNta~~~vL~Al~~~l~~~~a~~ii~~R~~~~~~~~~d~~~~~~l~~~~~~~~~~~~l~v 246 (280)
T PF03934_consen 182 GTKININTAPAEVLAALLPGLSESQAQAIIAARPENGFKSVDDFWAAPALSGSDQSAAIKPLLTV 246 (280)
T ss_dssp S--EETTT-GTHHHHHHT---------HHHHT--TT--S-HHHHHTSGGGSS-HHHHHHHHHEES
T ss_pred CCccChhhCCHHHHHHhccCCCHHHHHHHHHhccccCCCCHHHHHhhhhccCcchhhhhcceeee
Confidence 45799999999999875 45999999999999999999999999887 6655 555556655554
No 47
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=95.76 E-value=0.011 Score=72.15 Aligned_cols=51 Identities=24% Similarity=0.309 Sum_probs=45.5
Q ss_pred hcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccccccc
Q 005372 597 VELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAAKGIF 647 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~ 647 (699)
-+|||+|+..|+.||+.|++.||.|++||++- ||+...++++..--..+-+
T Consensus 1384 i~i~GlGe~vA~~IV~AR~Ek~FlS~eDlkkRtkis~t~ie~~~~~G~l~~l 1435 (1444)
T COG2176 1384 IAIPGLGENVAKSIVEAREEKEFLSKEDLKKRTKISKTHIEKLDEMGCLEGL 1435 (1444)
T ss_pred eccCChhHHHHHHHHHHhhcCCcCCHHHHHHhcCccHHHHHHHHhcCcccCC
Confidence 47999999999999999999999999999998 9999999999876554444
No 48
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=94.94 E-value=0.027 Score=56.90 Aligned_cols=54 Identities=19% Similarity=0.236 Sum_probs=41.8
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhc------CCCCCHHHHhhc-CCCHHHHHHhhccccccc
Q 005372 593 REELVELKGIGQRLADYICELRQS------SPVKSLSDLEKI-GLSTKQVYNLFGKAAKGI 646 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~------~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~ 646 (699)
...|..+||||||+|.+|+++=.. .--.+.++|.++ |||+++.++|...+-...
T Consensus 72 f~~L~~i~GIGpk~A~~il~~fg~~~l~~~i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~ 132 (192)
T PRK00116 72 FRLLISVSGVGPKLALAILSGLSPEELVQAIANGDVKALTKVPGIGKKTAERIVLELKDKL 132 (192)
T ss_pred HHHHhcCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHh
Confidence 467899999999999999985321 123477899999 999999999887665443
No 49
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=94.58 E-value=0.045 Score=68.98 Aligned_cols=61 Identities=23% Similarity=0.248 Sum_probs=51.2
Q ss_pred cccccCcccCHH-----------HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 583 EYIDFLNTASRE-----------ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 583 ~~~v~iNtA~~~-----------eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
..+++||.-... =|..|+|||+..|+.||+.|++.||.|++||.+- +++.+.++.|...-+
T Consensus 1128 vlppdin~S~~~~f~i~~~~I~~~l~aI~glg~~~a~~Iv~~R~~g~F~s~~Df~~R~~v~k~~le~L~~~Ga 1200 (1213)
T TIGR01405 1128 FQPIDLYKSQATEFLIEGNTLIPPFNAIPGLGENVANSIVEARNEKPFLSKEDLKKRTKISKTHIEKLDSMGV 1200 (1213)
T ss_pred EeCCcccccCCceeEeeCCEEEeehhhcCCCCHHHHHHHHHHHhhCCCCCHHHHHHHhCCCHHHHHHHHhCCC
Confidence 356788875542 2678999999999999999998899999999986 999999999885443
No 50
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1.
Probab=94.24 E-value=0.035 Score=37.99 Aligned_cols=21 Identities=43% Similarity=0.657 Sum_probs=18.6
Q ss_pred HHHhcCCCCcHHHHHHHHHHH
Q 005372 594 EELVELKGIGQRLADYICELR 614 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R 614 (699)
++|..|||||+++|++|+++.
T Consensus 1 ~~L~~i~GiG~k~A~~il~~~ 21 (26)
T smart00278 1 EELLKVPGIGPKTAEKILEAX 21 (26)
T ss_pred ChhhhCCCCCHHHHHHHHHhc
Confidence 368999999999999999865
No 51
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=94.09 E-value=0.06 Score=61.24 Aligned_cols=52 Identities=23% Similarity=0.414 Sum_probs=42.9
Q ss_pred HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhhccccccccCC
Q 005372 595 ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 595 eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
=|..|+|||+..+++||+.|++. ||+|+.||.. + +++.+.+|.|. ..|.|+.
T Consensus 115 GL~aIKGVG~~~i~~Iv~eR~~~g~F~sl~DF~~Rvd~~~vnkr~lE~LI---kaGAFD~ 171 (449)
T PRK07373 115 GLSAVRNLGEGAIESILKAREEGGEFKSLADFCDRVDLRVVNRRALETLI---YCGAFDK 171 (449)
T ss_pred cchhcCCCCHHHHHHHHHHHHhcCCCCCHHHHHHHhCcccCCHHHHHHHH---HcCcccc
Confidence 37889999999999999999986 9999999976 5 48888888876 3455543
No 52
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=94.07 E-value=0.065 Score=68.51 Aligned_cols=63 Identities=22% Similarity=0.166 Sum_probs=51.9
Q ss_pred cccccCcccCHH-----------HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccccc
Q 005372 583 EYIDFLNTASRE-----------ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAAKG 645 (699)
Q Consensus 583 ~~~v~iNtA~~~-----------eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~ 645 (699)
-.+++||..... =|..|+|||...|+.|++.|++.||.|++||.+- +|+.+.++.|...-+..
T Consensus 1351 ~lp~din~S~~~~f~i~~~~i~~pl~~I~glG~~~a~~Iv~~R~~g~F~s~~Df~~R~~v~k~~ie~L~~~Ga~d 1425 (1437)
T PRK00448 1351 FQKVDLYKSDATEFIIEGDSLIPPFNALPGLGENVAKSIVEAREEGEFLSKEDLRKRTKVSKTLIEKLDELGVLD 1425 (1437)
T ss_pred EeCCcccccCCcceEeeCCEEEecchhcCCCCHHHHHHHHHHHhcCCCCCHHHHHHHhCCCHHHHHHHHHCCCCc
Confidence 356788865542 2578999999999999999998899999999987 99999999988554433
No 53
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=93.83 E-value=0.048 Score=56.44 Aligned_cols=47 Identities=23% Similarity=0.390 Sum_probs=39.2
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCC--------HHHHhhc-CCCHHHHHHhhcccc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKS--------LSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~--------~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
.++|..|||||+++|++++++ +|.| .++|.+| ||+.+.+++|...+-
T Consensus 2 ~~~L~~IpGIG~krakkLl~~----GF~Sve~Ik~AS~eEL~~V~GIg~k~AekI~e~l~ 57 (232)
T PRK12766 2 PEELEDISGVGPSKAEALREA----GFESVEDVRAADQSELAEVDGIGNALAARIKADVG 57 (232)
T ss_pred ccccccCCCcCHHHHHHHHHc----CCCCHHHHHhCCHHHHHHccCCCHHHHHHHHHHhc
Confidence 457999999999999999886 3555 4578889 999999999988764
No 54
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.81 E-value=0.095 Score=53.19 Aligned_cols=51 Identities=25% Similarity=0.292 Sum_probs=39.2
Q ss_pred HHHHhcCCCCcHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHH----hhcccc
Q 005372 593 REELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYN----LFGKAA 643 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~----l~~~~~ 643 (699)
...|..++|||||+|.+|+..= +..-=.+.+-|.+| |||+|+.++ |++|+.
T Consensus 72 F~~Li~V~GIGpK~Al~ILs~~~~~~l~~aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~ 133 (194)
T PRK14605 72 FETLIDVSGIGPKLGLAMLSAMNAEALASAIISGNAELLSTIPGIGKKTASRIVLELKDKIA 133 (194)
T ss_pred HHHHhCCCCCCHHHHHHHHHhCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 3568999999999999999951 11123577778899 999999998 566664
No 55
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=93.68 E-value=0.062 Score=58.89 Aligned_cols=64 Identities=20% Similarity=0.315 Sum_probs=47.8
Q ss_pred cccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCC------------CCHHHHhhc-CCCHHHHHHhhccccccccCC
Q 005372 583 EYIDFLNTASREELVELKGIGQRLADYICELRQSSPV------------KSLSDLEKI-GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 583 ~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf------------~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
..+.+|++ .++|..|||||+++|++|.++-+...+ ..+-+|.+| |||++++.+|.+ .=..-+++
T Consensus 39 ~l~~~i~~--~~~l~~lpgIG~~ia~kI~Eil~tG~~~~~~e~l~~~~p~~l~~l~~i~GiGpk~a~~l~~-lGi~tl~e 115 (334)
T smart00483 39 SLPFPINS--MKDLKGLPGIGDKIKKKIEEIIETGKSSKVLEILNDEVYKSLKLFTNVFGVGPKTAAKWYR-KGIRTLEE 115 (334)
T ss_pred hCCCCCCC--HHHHhcCCCccHHHHHHHHHHHHhCcHHHHHHHhcCcHHHHHHHHHccCCcCHHHHHHHHH-hCCCCHHH
Confidence 34445544 569999999999999999988765532 347788899 999999999988 44444444
No 56
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=93.68 E-value=0.081 Score=53.76 Aligned_cols=47 Identities=30% Similarity=0.485 Sum_probs=39.4
Q ss_pred HHHHhcCCCCcHHHHHHHH------HHHhcCCCCCHHHHhhc-CCCHHHHHHhh
Q 005372 593 REELVELKGIGQRLADYIC------ELRQSSPVKSLSDLEKI-GLSTKQVYNLF 639 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii------~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~ 639 (699)
.+.|..+.|||||+|-+|+ +.++..--.+..-|.++ |||+|+.++|.
T Consensus 71 F~~LisVsGIGPK~ALaILs~~~~~el~~aI~~~D~~~L~~vpGIGkKtAeRII 124 (196)
T PRK13901 71 FEELIGVDGIGPRAALRVLSGIKYNEFRDAIDREDIELISKVKGIGNKMAGKIF 124 (196)
T ss_pred HHHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHH
Confidence 4578899999999999999 55555577888999999 99999988754
No 57
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=93.61 E-value=0.057 Score=44.95 Aligned_cols=30 Identities=43% Similarity=0.558 Sum_probs=22.5
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
-+|=.|+.++|..+||||+++|+.|.+|-+
T Consensus 27 ~~l~~a~~e~L~~i~gIG~~~A~si~~ff~ 56 (64)
T PF12826_consen 27 EALMNASVEELSAIPGIGPKIAQSIYEFFQ 56 (64)
T ss_dssp HHHCC--HHHHCTSTT--HHHHHHHHHHHH
T ss_pred HHHHHcCHHHHhccCCcCHHHHHHHHHHHC
Confidence 355588999999999999999999999864
No 58
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=92.95 E-value=0.097 Score=59.87 Aligned_cols=87 Identities=29% Similarity=0.471 Sum_probs=54.6
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccC---CCCCCchH----HHHHHHHHhh
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGS---EERPGLMP----LAMSKILSIC 153 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~---~~~~GIip----ral~~LF~~~ 153 (699)
.|....-|.|.. +|. ..+..|++.+-+|...-++ .|.|||||||||--- -..|-|+- -...+||+..
T Consensus 4 ~F~l~s~f~PaG-DQP----~AI~~Lv~gi~~g~~~QtL-LGvTGSGKTfT~AnVI~~~~rPtLV~AhNKTLAaQLy~Ef 77 (663)
T COG0556 4 PFKLHSPFKPAG-DQP----EAIAELVEGIENGLKHQTL-LGVTGSGKTFTMANVIAKVQRPTLVLAHNKTLAAQLYSEF 77 (663)
T ss_pred ceEeccCCCCCC-CcH----HHHHHHHHHHhcCceeeEE-eeeccCCchhHHHHHHHHhCCCeEEEecchhHHHHHHHHH
Confidence 477778888764 544 3456788887777655443 699999999999531 11122111 1223444433
Q ss_pred ----hcCCceeEEEEEEEecceee
Q 005372 154 ----QSTGSTAEISYYEVYMDRCY 173 (699)
Q Consensus 154 ----~~~~~~v~vS~~EIYnE~v~ 173 (699)
.++.....||||..|+-..|
T Consensus 78 k~fFP~NaVEYFVSYYDYYQPEAY 101 (663)
T COG0556 78 KEFFPENAVEYFVSYYDYYQPEAY 101 (663)
T ss_pred HHhCcCcceEEEeeeccccCcccc
Confidence 34556788999999986655
No 59
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=92.92 E-value=0.04 Score=56.63 Aligned_cols=49 Identities=27% Similarity=0.411 Sum_probs=30.0
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+..+. + +..|. .+..+.+.--..+|. +|-||++|+||||-|.
T Consensus 4 ~~tFdnfv~g~~-N-~~a~~-~~~~ia~~~~~~~~~-l~l~G~~G~GKTHLL~ 52 (219)
T PF00308_consen 4 KYTFDNFVVGES-N-ELAYA-AAKAIAENPGERYNP-LFLYGPSGLGKTHLLQ 52 (219)
T ss_dssp T-SCCCS--TTT-T-HHHHH-HHHHHHHSTTTSSSE-EEEEESTTSSHHHHHH
T ss_pred CCccccCCcCCc-H-HHHHH-HHHHHHhcCCCCCCc-eEEECCCCCCHHHHHH
Confidence 499999986542 4 44553 445555552223455 7889999999999764
No 60
>KOG2534 consensus DNA polymerase IV (family X) [Replication, recombination and repair]
Probab=92.90 E-value=0.15 Score=54.86 Aligned_cols=97 Identities=23% Similarity=0.359 Sum_probs=61.6
Q ss_pred ccchhhhhhhhhccccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCC------------CCCHHHHhhc-CCCHHH
Q 005372 568 KFSARSIRLKNSLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSSP------------VKSLSDLEKI-GLSTKQ 634 (699)
Q Consensus 568 ~~~~~~~~~~~s~~~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~p------------f~~~~dL~~v-Gi~~~~ 634 (699)
++.+++.....+.++.+ +.|--|.+|++.|||||+++|+.|.+.=+..- +.++.=|.+| |||.+.
T Consensus 32 ~~r~~~y~~Aasvlk~~--p~~I~S~~ea~~lP~iG~kia~ki~EiletG~l~ele~v~~de~~~~lklFtnifGvG~kt 109 (353)
T KOG2534|consen 32 EDRARAYRRAASVLKSL--PFPITSGEEAEKLPGIGPKIAEKIQEILETGVLRELEAVRNDERSQSLKLFTNIFGVGLKT 109 (353)
T ss_pred HHHHHHHHHHHHHHHhC--CCCcccHHHhcCCCCCCHHHHHHHHHHHHcCCchhHHHHhcchhHHHHHHHHHHhccCHHH
Confidence 34444444445555544 45567889999999999999999988655432 3344445678 999999
Q ss_pred HHHhhccccccccCCCCCCCCchhhhhhhHHHHHHhh
Q 005372 635 VYNLFGKAAKGIFDRPESATPSCQETFSAAWRICLSF 671 (699)
Q Consensus 635 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 671 (699)
.++|-..-.. -|+|.. ..| .-+---|++.|.+
T Consensus 110 A~~Wy~~Gfr-Tled~R-k~~---~kft~qqk~Gl~y 141 (353)
T KOG2534|consen 110 AEKWYREGFR-TLEDVR-KKP---DKFTRQQKAGLKY 141 (353)
T ss_pred HHHHHHhhhh-HHHHHH-hCH---HHHHHHHHHhHHH
Confidence 9998766552 333332 111 2333445666655
No 61
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=92.62 E-value=0.15 Score=63.66 Aligned_cols=45 Identities=31% Similarity=0.514 Sum_probs=40.7
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhc
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
|..|+|||+..|+.||+.|+..||+|++||.+- +++.+.++.|..
T Consensus 818 l~~Ikgvg~~~~~~Iv~~R~~g~f~s~~Df~~R~~~~~~~le~Li~ 863 (1046)
T PRK05672 818 LRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALAD 863 (1046)
T ss_pred hhhcCCCCHHHHHHHHHHhhcCCCCCHHHHHHHhCCCHHHHHHHHH
Confidence 678999999999999999986699999999885 999999888864
No 62
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=92.32 E-value=0.21 Score=41.53 Aligned_cols=40 Identities=20% Similarity=0.475 Sum_probs=28.8
Q ss_pred hcCCCCcHHHHHHHHHHHhcCCCCC--------HHHHhhc-CCCHHHHHHhhcc
Q 005372 597 VELKGIGQRLADYICELRQSSPVKS--------LSDLEKI-GLSTKQVYNLFGK 641 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~R~~~pf~~--------~~dL~~v-Gi~~~~~~~l~~~ 641 (699)
..|||||++.|+.+.+ -|.+ ++||.+| |||++..+.|.+.
T Consensus 6 LGI~~VG~~~ak~L~~-----~f~sl~~l~~a~~e~L~~i~gIG~~~A~si~~f 54 (64)
T PF12826_consen 6 LGIPGVGEKTAKLLAK-----HFGSLEALMNASVEELSAIPGIGPKIAQSIYEF 54 (64)
T ss_dssp CTSTT--HHHHHHHHH-----CCSCHHHHCC--HHHHCTSTT--HHHHHHHHHH
T ss_pred CCCCCccHHHHHHHHH-----HcCCHHHHHHcCHHHHhccCCcCHHHHHHHHHH
Confidence 3689999999999986 4655 5788889 9999998888754
No 63
>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=92.30 E-value=0.11 Score=42.43 Aligned_cols=28 Identities=43% Similarity=0.597 Sum_probs=24.0
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-+|=.++.++|..+||||++.|++|+++
T Consensus 30 ~~l~~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 30 EDLANADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp HHHHTSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred HHHHcCCHHHHhcCCCCCHHHHHHHHHH
Confidence 3444678999999999999999999975
No 64
>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=91.60 E-value=0.22 Score=40.07 Aligned_cols=36 Identities=22% Similarity=0.368 Sum_probs=25.3
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc--CCCHH
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKI--GLSTK 633 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v--Gi~~~ 633 (699)
..+..|.|||++.|++-++ + +|++++||.+- .+...
T Consensus 2 ~~f~~I~GVG~~tA~~w~~-~---G~rtl~Dl~~~~~~Lt~~ 39 (52)
T PF10391_consen 2 KLFTGIWGVGPKTARKWYA-K---GIRTLEDLRKSKSKLTWQ 39 (52)
T ss_dssp HHHHTSTT--HHHHHHHHH-T---T--SHHHHHHGGCGS-HH
T ss_pred cchhhcccccHHHHHHHHH-h---CCCCHHHHhhhhccCCHH
Confidence 5788999999999999998 5 99999999763 44443
No 65
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=91.18 E-value=0.24 Score=50.13 Aligned_cols=47 Identities=28% Similarity=0.398 Sum_probs=34.9
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhc------CCCCCHHHHhhc-CCCHHHHHHhh
Q 005372 593 REELVELKGIGQRLADYICELRQS------SPVKSLSDLEKI-GLSTKQVYNLF 639 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~------~pf~~~~dL~~v-Gi~~~~~~~l~ 639 (699)
..+|..+||||||+|.+|+..=.- .-=.+..-|.++ |||+|+.++|.
T Consensus 71 F~~L~~V~GIGpK~Al~iL~~~~~~el~~aI~~~d~~~L~~ipGiGkKtAerIi 124 (191)
T TIGR00084 71 FKELIKVNGVGPKLALAILSNMSPEEFVYAIETEEVKALVKIPGVGKKTAERLL 124 (191)
T ss_pred HHHHhCCCCCCHHHHHHHHhcCCHHHHHHHHHhCCHHHHHhCCCCCHHHHHHHH
Confidence 357899999999999999763100 012455667788 99999999874
No 66
>PRK06893 DNA replication initiation factor; Validated
Probab=90.96 E-value=0.096 Score=54.06 Aligned_cols=46 Identities=17% Similarity=0.360 Sum_probs=31.3
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++||.+++.+. . ..+ .-+.+.+-.+++..++-||++|+||||.+.
T Consensus 12 ~~~fd~f~~~~~-~-~~~-----~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ 57 (229)
T PRK06893 12 DETLDNFYADNN-L-LLL-----DSLRKNFIDLQQPFFYIWGGKSSGKSHLLK 57 (229)
T ss_pred cccccccccCCh-H-HHH-----HHHHHHhhccCCCeEEEECCCCCCHHHHHH
Confidence 489999997642 2 211 122233334677788999999999999765
No 67
>PRK08609 hypothetical protein; Provisional
Probab=89.83 E-value=0.29 Score=57.50 Aligned_cols=51 Identities=31% Similarity=0.518 Sum_probs=39.9
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCCCC-----------CHHHHhhc-CCCHHHHHHhhccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSSPVK-----------SLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~-----------~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
+..+|..|||||+++|++|-++=+...+. .+-+|.+| |||++++.+|.+..
T Consensus 46 ~~~~l~~ipgIG~~ia~kI~Eil~tG~~~~le~l~~~~p~~~~~l~~i~GiGpk~a~~l~~~l 108 (570)
T PRK08609 46 EIDDFTKLKGIGKGTAEVIQEYRETGESSVLQELKKEVPEGLLPLLKLPGLGGKKIAKLYKEL 108 (570)
T ss_pred hhhhhccCCCcCHHHHHHHHHHHHhCChHHHHHHHhhCcHHHHHHhcCCCCCHHHHHHHHHHh
Confidence 34589999999999999999886654332 45667788 99999999987543
No 68
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=89.64 E-value=0.4 Score=60.46 Aligned_cols=59 Identities=22% Similarity=0.307 Sum_probs=46.1
Q ss_pred ccccccCcccCH----H------HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhhc
Q 005372 582 QEYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFG 640 (699)
Q Consensus 582 ~~~~v~iNtA~~----~------eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~ 640 (699)
...+.+||.-.. + =|..|+|||+..|++||+.|++. ||+|++||.+ + +++.+.++.|..
T Consensus 798 ~vl~pdin~S~~~f~~~~~~I~~gL~~Ikgvg~~~~~~I~~~R~~~g~f~s~~Df~~R~~~~~~~k~~le~Li~ 871 (1135)
T PRK05673 798 KVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKRVLESLIK 871 (1135)
T ss_pred eEeCCceeccCCccEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhccCCCCHHHHHHHHH
Confidence 345567784332 1 36789999999999999999987 9999999977 4 488888877763
No 69
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.50 E-value=0.45 Score=47.97 Aligned_cols=46 Identities=26% Similarity=0.411 Sum_probs=30.5
Q ss_pred HHHHhcCCCCcHHHHHHHHHH------HhcCCCCCHHHHhhc-CCCHHHHHHh
Q 005372 593 REELVELKGIGQRLADYICEL------RQSSPVKSLSDLEKI-GLSTKQVYNL 638 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~------R~~~pf~~~~dL~~v-Gi~~~~~~~l 638 (699)
.+.|..+.|||||+|-+|+.. ++..-=.+..-|.++ |||+|+.++|
T Consensus 72 F~~Li~VsGIGpK~Al~ILs~~~~~el~~aI~~~D~~~L~~vpGIGkKtAeRI 124 (183)
T PRK14601 72 FEMLLKVNGIGANTAMAVCSSLDVNSFYKALSLGDESVLKKVPGIGPKSAKRI 124 (183)
T ss_pred HHHHhccCCccHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHH
Confidence 345777888888888888842 111133566667777 8888887764
No 70
>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=89.32 E-value=0.29 Score=43.96 Aligned_cols=35 Identities=26% Similarity=0.398 Sum_probs=28.7
Q ss_pred cccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 589 NTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 589 NtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
+.+...+|+.|||||+++|+..+.. +|.+++||..
T Consensus 7 ~~~~~~~L~~iP~IG~a~a~DL~~L----Gi~s~~~L~g 41 (93)
T PF11731_consen 7 KRAGLSDLTDIPNIGKATAEDLRLL----GIRSPADLKG 41 (93)
T ss_pred HHHHHHHHhcCCCccHHHHHHHHHc----CCCCHHHHhC
Confidence 4456789999999999999977743 7888888864
No 71
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=89.12 E-value=0.49 Score=47.84 Aligned_cols=45 Identities=20% Similarity=0.256 Sum_probs=26.0
Q ss_pred HHHhcCCCCcHHHHHHHHHH------HhcCCCCCHHHHhhc-CCCHHHHHHh
Q 005372 594 EELVELKGIGQRLADYICEL------RQSSPVKSLSDLEKI-GLSTKQVYNL 638 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~------R~~~pf~~~~dL~~v-Gi~~~~~~~l 638 (699)
+.|..+.|||||+|-+|+.. .+..--.+..-|.++ |||+|+.++|
T Consensus 73 ~~Li~V~GIGpK~AL~iLs~~~~~el~~aI~~~D~~~L~~vpGIGkKtAerI 124 (188)
T PRK14606 73 LSLTKVSRLGPKTALKIISNEDAETLVTMIASQDVEGLSKLPGISKKTAERI 124 (188)
T ss_pred HHHhccCCccHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHH
Confidence 34566677777777777632 111133555666666 7777766653
No 72
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=89.02 E-value=0.48 Score=59.82 Aligned_cols=57 Identities=26% Similarity=0.351 Sum_probs=45.0
Q ss_pred cccccCcccCH----H------HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhh
Q 005372 583 EYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLF 639 (699)
Q Consensus 583 ~~~v~iNtA~~----~------eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~ 639 (699)
..+.+||.-.. + =|..|+|||+..|++||+.|++. ||+|++||.+ + +++.+.++.|.
T Consensus 803 vlpPdIN~S~~~f~v~~~~Ir~gL~aIkgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~nk~~le~Li 874 (1151)
T PRK06826 803 VLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKGKFKSLVDFCERVDTSQINKRAVESLI 874 (1151)
T ss_pred EeCCceecCCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhcccCCCHHHHHHHH
Confidence 45567885332 1 36789999999999999999986 9999999976 5 37888877776
No 73
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=88.87 E-value=0.22 Score=58.58 Aligned_cols=51 Identities=22% Similarity=0.340 Sum_probs=34.9
Q ss_pred eeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceecc
Q 005372 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 80 ~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G 134 (699)
..|+||.++.... + ...| ..+..+++..-.+||. ||-||.+|+||||.+..
T Consensus 283 ~~~TFDnFvvG~s-N-~~A~-aaa~avae~~~~~~Np-L~LyG~sGsGKTHLL~A 333 (617)
T PRK14086 283 PKYTFDTFVIGAS-N-RFAH-AAAVAVAEAPAKAYNP-LFIYGESGLGKTHLLHA 333 (617)
T ss_pred CCCCHhhhcCCCc-c-HHHH-HHHHHHHhCccccCCc-EEEECCCCCCHHHHHHH
Confidence 4699998886543 4 3344 3444555554456776 78999999999998753
No 74
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=88.69 E-value=0.59 Score=57.95 Aligned_cols=65 Identities=20% Similarity=0.311 Sum_probs=49.2
Q ss_pred ccccccCcccCH------H----HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhhccccccc
Q 005372 582 QEYIDFLNTASR------E----ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFGKAAKGI 646 (699)
Q Consensus 582 ~~~~v~iNtA~~------~----eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~~~~~~~ 646 (699)
...+.+||.-.. + =|..|+|||+..|++||+.|++. ||+|++||.+ + +++.+.++.|. ..|.
T Consensus 731 ~vlpPdin~S~~~~~~~~~~Ir~gL~~Ikgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~~k~~le~Li---~aGa 807 (973)
T PRK07135 731 KVYSPDINFSTENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGISKSIIEKLI---KANT 807 (973)
T ss_pred EEeCCceeccCCcceeECCEEEECccccCCcCHHHHHHHHHHHHhCCCCCCHHHHHHhccccCCCHHHHHHHH---HCCC
Confidence 345567775332 1 26789999999999999999986 9999999976 5 58888888876 4456
Q ss_pred cCC
Q 005372 647 FDR 649 (699)
Q Consensus 647 ~~~ 649 (699)
|+.
T Consensus 808 fD~ 810 (973)
T PRK07135 808 LRS 810 (973)
T ss_pred Ccc
Confidence 643
No 75
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=88.55 E-value=0.56 Score=47.96 Aligned_cols=50 Identities=18% Similarity=0.210 Sum_probs=37.9
Q ss_pred HHHhcCCCCcHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHH----hhcccc
Q 005372 594 EELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYN----LFGKAA 643 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~----l~~~~~ 643 (699)
..|..+.|||||+|-+|+..= +..-=.+..-|.++ |||+|+.++ |++|+.
T Consensus 74 ~~Li~V~GIGpK~Al~iLs~~~~~~l~~aI~~~D~~~L~~ipGIGkKtAerIilELkdK~~ 134 (203)
T PRK14602 74 IVLISISKVGAKTALAILSQFRPDDLRRLVAEEDVAALTRVSGIGKKTAQHIFLELKYKLK 134 (203)
T ss_pred HHHhCCCCcCHHHHHHHHhhCCHHHHHHHHHhCCHHHHhcCCCcCHHHHHHHHHHHHHhhc
Confidence 567889999999999999851 11134677888899 999999887 456653
No 76
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=88.50 E-value=0.54 Score=59.07 Aligned_cols=65 Identities=17% Similarity=0.242 Sum_probs=49.9
Q ss_pred ccccccCcccCH----H------HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHhhcccccccc
Q 005372 582 QEYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLFGKAAKGIF 647 (699)
Q Consensus 582 ~~~~v~iNtA~~----~------eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~~~~~~~~~ 647 (699)
...+.+||.-.. + =|..|+|||+..|++||+.|++.||+|+.||.+ + +++.+.++.|. ..|.|
T Consensus 780 ~vlpPdin~S~~~f~~~~~~Ir~gL~~Ikgvg~~~~~~Iv~~R~~g~f~s~~Df~~R~~~~~~nk~~le~Li---~aGaf 856 (1107)
T PRK06920 780 HVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFV---WSGCF 856 (1107)
T ss_pred EEeCCeeecCCCCcEEECCeeEechhhcCCCCHHHHHHHHHHhhcCCCCCHHHHHHHHhccCCCHHHHHHHH---HcCCc
Confidence 345667775331 1 377899999999999999998889999999976 4 48888888885 45555
Q ss_pred CC
Q 005372 648 DR 649 (699)
Q Consensus 648 ~~ 649 (699)
+.
T Consensus 857 D~ 858 (1107)
T PRK06920 857 DD 858 (1107)
T ss_pred cc
Confidence 43
No 77
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.33 E-value=0.56 Score=58.70 Aligned_cols=64 Identities=28% Similarity=0.372 Sum_probs=48.6
Q ss_pred hhhccccccccCcccCH----H------HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhhc
Q 005372 577 KNSLVQEYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFG 640 (699)
Q Consensus 577 ~~s~~~~~~v~iNtA~~----~------eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~ 640 (699)
+..-....+.+||.-.. + =|..|+|||++.|++|++.|++. ||+|+.||.+ + +++.+.++.|..
T Consensus 797 ~~~gi~v~ppdin~S~~~f~~~~~~i~~gl~~Ikgig~~~~~~Iv~~R~~~~~f~s~~Df~~R~~~~~~~~~~le~Li~ 875 (1022)
T TIGR00594 797 KKMGIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKKLNKKVLEALIK 875 (1022)
T ss_pred HHCCCEEECCcccccCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhcccCCCHHHHHHHHH
Confidence 33334456678885432 1 36789999999999999999975 9999999976 4 488888887764
No 78
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=88.23 E-value=0.56 Score=59.29 Aligned_cols=59 Identities=25% Similarity=0.322 Sum_probs=46.1
Q ss_pred ccccccCcccCH----H------HHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-c---CCCHHHHHHhhc
Q 005372 582 QEYIDFLNTASR----E------ELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-I---GLSTKQVYNLFG 640 (699)
Q Consensus 582 ~~~~v~iNtA~~----~------eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-v---Gi~~~~~~~l~~ 640 (699)
...+.+||.-.. + =|..|+|||+..|++||+.|++. ||+|++||.+ + +++.+.++.|..
T Consensus 813 ~vlpPdIN~S~~~f~~~~~~Ir~GL~aIkgvg~~~~~~Iv~~R~~~g~f~s~~Df~~R~~~~~~nk~~le~LI~ 886 (1170)
T PRK07374 813 EVMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAARDSDGPFKSLADLCDRLPSNVLNRRSLESLIH 886 (1170)
T ss_pred EEeCCceecCCCCcEEECCEEEechhhcCCCCHHHHHHHHHHHHhCCCCCCHHHHHHHhccccCCHHHHHHHHH
Confidence 345667785332 1 26789999999999999999986 9999999977 5 378888887763
No 79
>PRK06620 hypothetical protein; Validated
Probab=88.17 E-value=0.22 Score=51.08 Aligned_cols=48 Identities=29% Similarity=0.483 Sum_probs=32.2
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCC---EEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRN---ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N---~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+..+. + +..|.. ++.+.+. + |+| -.++-||++|+||||.+.
T Consensus 12 ~~tfd~Fvvg~~-N-~~a~~~-~~~~~~~-~-~~~~~~~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 12 KYHPDEFIVSSS-N-DQAYNI-IKNWQCG-F-GVNPYKFTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred CCCchhhEeccc-H-HHHHHH-HHHHHHc-c-ccCCCcceEEEECCCCCCHHHHHH
Confidence 589999997653 3 456653 3333321 1 343 358999999999999886
No 80
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=87.69 E-value=0.61 Score=47.53 Aligned_cols=50 Identities=24% Similarity=0.260 Sum_probs=37.3
Q ss_pred HHHhcCCCCcHHHHHHHHHH-H-----hcCCCCCHHHHhhc-CCCHHHHHH----hhcccc
Q 005372 594 EELVELKGIGQRLADYICEL-R-----QSSPVKSLSDLEKI-GLSTKQVYN----LFGKAA 643 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~-R-----~~~pf~~~~dL~~v-Gi~~~~~~~----l~~~~~ 643 (699)
..|.++.|||||+|-+|+.. . +..-=.+..-|.++ |||+|+.++ |++|+.
T Consensus 72 ~~L~~V~GIGpK~AL~iLs~~~~~~l~~aI~~~D~~~L~kvpGIGkKtAerIilELkdK~~ 132 (197)
T PRK14603 72 ELLLGVSGVGPKLALALLSALPPALLARALLEGDARLLTSASGVGKKLAERIALELKGKVP 132 (197)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhh
Confidence 56888999999999999973 2 11134677778888 999999877 456653
No 81
>PRK08609 hypothetical protein; Provisional
Probab=87.44 E-value=0.66 Score=54.52 Aligned_cols=48 Identities=17% Similarity=0.257 Sum_probs=39.6
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh---------c-CCCHHHHHHhhccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEK---------I-GLSTKQVYNLFGKA 642 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~---------v-Gi~~~~~~~l~~~~ 642 (699)
..-+|..|||||+++|.++-+.- ++++++||.+ + |+|+|+.++|...+
T Consensus 86 ~~~~l~~i~GiGpk~a~~l~~~l---Gi~tl~~L~~a~~~~~~~~~~gfg~k~~~~il~~i 143 (570)
T PRK08609 86 GLLPLLKLPGLGGKKIAKLYKEL---GVVDKESLKEACENGKVQALAGFGKKTEEKILEAV 143 (570)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHh---CCCCHHHHHHHHHhCChhhccCcchhHHHHHHHHH
Confidence 35588999999999999998776 8999999973 4 78988888775444
No 82
>PRK09087 hypothetical protein; Validated
Probab=87.30 E-value=0.34 Score=50.14 Aligned_cols=46 Identities=22% Similarity=0.203 Sum_probs=31.0
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+.... + ..+|.. ++....-.+-.++-||++||||||.+.
T Consensus 17 ~~~~~~Fi~~~~-N-~~a~~~-----l~~~~~~~~~~l~l~G~~GsGKThLl~ 62 (226)
T PRK09087 17 AYGRDDLLVTES-N-RAAVSL-----VDHWPNWPSPVVVLAGPVGSGKTHLAS 62 (226)
T ss_pred CCChhceeecCc-h-HHHHHH-----HHhcccCCCCeEEEECCCCCCHHHHHH
Confidence 489999996442 3 446652 333222235558999999999999875
No 83
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.28 E-value=0.25 Score=53.25 Aligned_cols=31 Identities=26% Similarity=0.523 Sum_probs=27.7
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+.+++..+.+--++.|+.-|+||||||.||-
T Consensus 113 lP~i~~~~~~~~~GLILVTGpTGSGKSTTlA 143 (353)
T COG2805 113 LPPIVRELAESPRGLILVTGPTGSGKSTTLA 143 (353)
T ss_pred CCHHHHHHHhCCCceEEEeCCCCCcHHHHHH
Confidence 4578888889999999999999999999974
No 84
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=87.08 E-value=0.38 Score=48.96 Aligned_cols=27 Identities=30% Similarity=0.474 Sum_probs=22.9
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICE 612 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~ 612 (699)
.-|..-+.+.|..+||||+|+|++||-
T Consensus 99 ~aI~~~D~~~L~~vpGIGkKtAeRIIl 125 (196)
T PRK13901 99 DAIDREDIELISKVKGIGNKMAGKIFL 125 (196)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHH
Confidence 345577889999999999999999974
No 85
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=87.02 E-value=0.69 Score=47.05 Aligned_cols=46 Identities=17% Similarity=0.331 Sum_probs=34.7
Q ss_pred HHHhcCCCCcHHHHHHHHHHH---h---cCCCCCHHHHhhc-CCCHHHHHHhh
Q 005372 594 EELVELKGIGQRLADYICELR---Q---SSPVKSLSDLEKI-GLSTKQVYNLF 639 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R---~---~~pf~~~~dL~~v-Gi~~~~~~~l~ 639 (699)
..|..+.|||||+|-+|+..= + ..-=.+..-|.++ |||+|+.++|.
T Consensus 73 ~~Li~V~GIGpK~Al~iLs~~~~~el~~aI~~~D~~~L~kvpGIGkKtAerIi 125 (195)
T PRK14604 73 ELLIGVSGVGPKAALNLLSSGTPDELQLAIAGGDVARLARVPGIGKKTAERIV 125 (195)
T ss_pred HHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHhCCHHHHhhCCCCCHHHHHHHH
Confidence 567889999999999999831 1 1134677778888 99999987754
No 86
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=86.94 E-value=0.55 Score=55.05 Aligned_cols=52 Identities=17% Similarity=0.199 Sum_probs=40.6
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHhhccc
Q 005372 591 ASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGKA 642 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~~ 642 (699)
.....|..|||||+++.++++++=..- .=.|+|||.+|||+.+..++|.+.+
T Consensus 511 ~~~S~Ld~I~GiG~kr~~~Ll~~Fgs~~~ik~As~eeL~~vgi~~~~A~~I~~~l 565 (567)
T PRK14667 511 GLKDILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELKKLGIPPSVKQEVKKYL 565 (567)
T ss_pred cccCccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHcCCCHHHHHHHHHHh
Confidence 344789999999999999999853311 3456688888899999999987654
No 87
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=86.89 E-value=0.4 Score=48.32 Aligned_cols=57 Identities=19% Similarity=0.353 Sum_probs=38.7
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHH-HHHhcC-CC----CCHHHHhh----cCCCHHHHHHhhccc
Q 005372 586 DFLNTASREELVELKGIGQRLADYIC-ELRQSS-PV----KSLSDLEK----IGLSTKQVYNLFGKA 642 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~~~-pf----~~~~dL~~----vGi~~~~~~~l~~~~ 642 (699)
.-|.+-+...|..+||||+|+|++|| +.|.+- .. ...+|... .|..++.+++...++
T Consensus 100 ~aI~~~D~~~L~~vpGIGkKtAeRIilELkdK~~~~~~~~~~~~ea~~AL~~LGy~~~ea~~a~~~~ 166 (183)
T PRK14601 100 KALSLGDESVLKKVPGIGPKSAKRIIAELSDAKTKLENVSDDKSEALAALLTLGFKQEKIIKVLASC 166 (183)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhhccCCCCccHHHHHHHHHHcCCCHHHHHHHHHhc
Confidence 34556788899999999999999987 455442 11 12244433 378888877776654
No 88
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=86.59 E-value=0.63 Score=49.04 Aligned_cols=60 Identities=22% Similarity=0.257 Sum_probs=48.3
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhcccccc
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKAAKG 645 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~ 645 (699)
..++..-..-|..+||||+++|.+.+++.... -..+.++|.+| |||++....|+..+..+
T Consensus 174 ~t~~e~q~~il~s~pgig~~~a~~ll~~fgS~~~~~tas~~eL~~v~gig~k~A~~I~~~~~t~ 237 (254)
T COG1948 174 KTLKELQLYILESIPGIGPKLAERLLKKFGSVEDVLTASEEELMKVKGIGEKKAREIYRFLRTE 237 (254)
T ss_pred cchHHHHHHHHHcCCCccHHHHHHHHHHhcCHHHHhhcCHHHHHHhcCccHHHHHHHHHHHhch
Confidence 34455566678999999999999999987643 46677888999 99999999998877653
No 89
>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=86.46 E-value=0.59 Score=39.26 Aligned_cols=29 Identities=34% Similarity=0.455 Sum_probs=21.9
Q ss_pred cccccCcccCHHH-HhcCCCCcHHHHHHHHHH
Q 005372 583 EYIDFLNTASREE-LVELKGIGQRLADYICEL 613 (699)
Q Consensus 583 ~~~v~iNtA~~~e-L~~lpGIG~k~A~~Ii~~ 613 (699)
.++..|.+. ++ |..|||||+++|.+|.++
T Consensus 37 ~l~~~i~~~--~~~~~~l~gIG~~ia~kI~E~ 66 (68)
T PF14716_consen 37 ALPYPITSG--EEDLKKLPGIGKSIAKKIDEI 66 (68)
T ss_dssp HSSS-HHSH--HHHHCTSTTTTHHHHHHHHHH
T ss_pred hCCHhHhhH--HHHHhhCCCCCHHHHHHHHHH
Confidence 344455554 55 999999999999999875
No 90
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=86.44 E-value=0.82 Score=56.51 Aligned_cols=50 Identities=22% Similarity=0.296 Sum_probs=42.0
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh---c-CCCHHHHHHhhccccccccC
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK---I-GLSTKQVYNLFGKAAKGIFD 648 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~---v-Gi~~~~~~~l~~~~~~~~~~ 648 (699)
|..|+|||+..|++|++.|+..||+++.|+.. . +++.+.++.|.. .|.|+
T Consensus 754 L~~Ikgig~~~~~~I~~~R~~g~f~~~~df~~r~~~~~i~k~~le~LI~---aGAfD 807 (971)
T PRK05898 754 FNTIKGFGDELLKKIKSALQNKTFSDFISYIDALKKNNVSLSNIEILIN---VGTFD 807 (971)
T ss_pred chhcCCcCHHHHHHHHHHHhcCCCCCHHHHHHHhhhcCCCHHHHHHHHH---CCCCc
Confidence 67899999999999999998779999999854 3 799998888874 45554
No 91
>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=86.37 E-value=0.47 Score=41.70 Aligned_cols=42 Identities=26% Similarity=0.283 Sum_probs=35.8
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHH
Q 005372 594 EELVELKGIGQRLADYICELRQSS-PVKSLSDLEKI-GLSTKQV 635 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~ 635 (699)
+.|.+|||||+..|-.||.+=-.- .|.+..+|..- |+.|..-
T Consensus 2 ~~l~sipGig~~~a~~llaeigd~~rF~~~~~l~~~~Gl~P~~~ 45 (87)
T PF02371_consen 2 ELLTSIPGIGPITAATLLAEIGDISRFKSAKQLASYAGLAPRPY 45 (87)
T ss_pred chhcCCCCccHHHHHHHHHHHcCchhcccchhhhhccccccccc
Confidence 568999999999999999976544 79999999997 9987543
No 92
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=86.32 E-value=0.58 Score=47.35 Aligned_cols=56 Identities=20% Similarity=0.352 Sum_probs=41.7
Q ss_pred CcccCHHHHhcCCCCcHHHHHHHHH-HHhcCC-CC-----------CHHHHhh----cCCCHHHHHHhhcccc
Q 005372 588 LNTASREELVELKGIGQRLADYICE-LRQSSP-VK-----------SLSDLEK----IGLSTKQVYNLFGKAA 643 (699)
Q Consensus 588 iNtA~~~eL~~lpGIG~k~A~~Ii~-~R~~~p-f~-----------~~~dL~~----vGi~~~~~~~l~~~~~ 643 (699)
|..++.++|..+||||+++|++|+. ++.+.. +. .++|+.. .|++++.+.++.+++-
T Consensus 102 i~~~d~~~L~~v~Gig~k~A~~I~~~l~~~~~~~~~~~~~~~~~~~~~~ev~~aL~~LG~~~~~a~~~~~~~~ 174 (192)
T PRK00116 102 IANGDVKALTKVPGIGKKTAERIVLELKDKLAAAASAAAAAAAASSALEEAVSALVALGYKPKEASKAVAKIL 174 (192)
T ss_pred HHhCCHHHHHhCCCCCHHHHHHHHHHHHHHhhcccccccccccccchHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 5678999999999999999999994 444332 21 1456544 3999999988887774
No 93
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=86.31 E-value=0.6 Score=54.82 Aligned_cols=51 Identities=16% Similarity=0.169 Sum_probs=40.8
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
....|..|||||+++.++++++=..- .-.|+|||.+| ||+.+..++|...+
T Consensus 512 ~~s~L~~I~GiG~kr~~~LL~~Fgs~~~I~~As~eeL~~v~gi~~~~A~~I~~~l 566 (574)
T PRK14670 512 IKLNYTKIKGIGEKKAKKILKSLGTYKDILLLNEDEIAEKMKINIKMAKKIKKFA 566 (574)
T ss_pred cccccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 34589999999999999999863311 34567899999 99999999887765
No 94
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=85.40 E-value=0.53 Score=48.14 Aligned_cols=31 Identities=26% Similarity=0.442 Sum_probs=25.2
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHH-HHHhc
Q 005372 586 DFLNTASREELVELKGIGQRLADYIC-ELRQS 616 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~~ 616 (699)
--|-+.+.+.|..+||||+|+|++|| +.|.+
T Consensus 101 ~aI~~~D~~~L~~ipGIGkKtAerIilELkdK 132 (203)
T PRK14602 101 RLVAEEDVAALTRVSGIGKKTAQHIFLELKYK 132 (203)
T ss_pred HHHHhCCHHHHhcCCCcCHHHHHHHHHHHHHh
Confidence 44567888999999999999999997 44443
No 95
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=85.28 E-value=0.44 Score=54.22 Aligned_cols=49 Identities=24% Similarity=0.336 Sum_probs=32.2
Q ss_pred eeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 80 ~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..|+||..+.... + ...|. .+..+.++ -..+|. +|-||++|+||||.+.
T Consensus 100 ~~~tFdnFv~g~~-n-~~a~~-~~~~~~~~-~~~~n~-l~lyG~~G~GKTHLl~ 148 (440)
T PRK14088 100 PDYTFENFVVGPG-N-SFAYH-AALEVAKN-PGRYNP-LFIYGGVGLGKTHLLQ 148 (440)
T ss_pred CCCcccccccCCc-h-HHHHH-HHHHHHhC-cCCCCe-EEEEcCCCCcHHHHHH
Confidence 4599999885432 3 44454 33334433 123665 8999999999999875
No 96
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=85.01 E-value=0.56 Score=47.44 Aligned_cols=57 Identities=21% Similarity=0.310 Sum_probs=39.4
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHH-HHHhcC-CCC-----CHHHHh----hcCCCHHHHHHhhccc
Q 005372 586 DFLNTASREELVELKGIGQRLADYIC-ELRQSS-PVK-----SLSDLE----KIGLSTKQVYNLFGKA 642 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~~~-pf~-----~~~dL~----~vGi~~~~~~~l~~~~ 642 (699)
.-|..-+.+.|.++||||+|.|++|| +.+.+- .+. ..+|.. ..|..++.+++...++
T Consensus 100 ~aI~~~D~~~L~~vpGIGkKtAerIilELkdK~~~~~~~~~~~~~e~~~AL~~LGy~~~ea~~av~~~ 167 (188)
T PRK14606 100 TMIASQDVEGLSKLPGISKKTAERIVMELKDEFESAGIKDMRIYHESLEALVSLGYPEKQAREAVKHV 167 (188)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHhhccccCCCcccHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 34556788899999999999999997 444443 221 234443 3388888888777665
No 97
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=84.85 E-value=0.94 Score=54.02 Aligned_cols=53 Identities=23% Similarity=0.262 Sum_probs=40.4
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 590 TASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
.+...+|..|||||++++++++++=..- .-.+.+||.+| ||+++..++|...+
T Consensus 633 ~~~~s~L~~IPGIGpkr~k~LL~~FGSle~I~~AS~eELa~V~Gig~k~Ae~I~~~L 689 (694)
T PRK14666 633 AALTGELQRVEGIGPATARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHL 689 (694)
T ss_pred hhhHhHHhhCCCCCHHHHHHHHHHhCCHHHHHhcCHHHHHhcCCcCHHHHHHHHHHH
Confidence 4445889999999999999999951100 12256788889 99999999987664
No 98
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=84.70 E-value=0.59 Score=47.56 Aligned_cols=59 Identities=17% Similarity=0.224 Sum_probs=39.5
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHH-HHhcCC-C----------CC-HHHHhh----cCCCHHHHHHhhcccc
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICE-LRQSSP-V----------KS-LSDLEK----IGLSTKQVYNLFGKAA 643 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~-~R~~~p-f----------~~-~~dL~~----vGi~~~~~~~l~~~~~ 643 (699)
..-|..-+.+.|.++||||+|+|++||- .|.+-+ + .+ .+|... .|..++.+++...++.
T Consensus 99 ~~aI~~~D~~~L~kvpGIGkKtAerIilELk~K~~~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~ai~~i~ 174 (195)
T PRK14604 99 QLAIAGGDVARLARVPGIGKKTAERIVLELKGKIDVRQLSGSTSPAVSALDRELSEILISLGYSAAEAAAAIAALP 174 (195)
T ss_pred HHHHHhCCHHHHhhCCCCCHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 3445677889999999999999999874 444322 1 01 244433 2777777777776653
No 99
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=84.57 E-value=0.94 Score=45.76 Aligned_cols=46 Identities=22% Similarity=0.297 Sum_probs=34.1
Q ss_pred HHHHhcCCCCcHHHHHHHHHH---Hh---cCCCCCHHHHhhc-CCCHHHHHHhh
Q 005372 593 REELVELKGIGQRLADYICEL---RQ---SSPVKSLSDLEKI-GLSTKQVYNLF 639 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~---R~---~~pf~~~~dL~~v-Gi~~~~~~~l~ 639 (699)
...|..+.|||||+|-+|+.. .+ ..-=.+..-| ++ |||+|+.++|.
T Consensus 72 F~~LisV~GIGpK~Al~iLs~~~~~~l~~aI~~~D~~~L-~vpGIGkKtAerIi 124 (186)
T PRK14600 72 LRMLVKVSGVNYKTAMSILSKLTPEQLFSAIVNEDKAAL-KVNGIGEKLINRII 124 (186)
T ss_pred HHHHhCcCCcCHHHHHHHHccCCHHHHHHHHHcCCHhhe-ECCCCcHHHHHHHH
Confidence 356888999999999999983 11 1134667777 88 99999988754
No 100
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=84.32 E-value=0.62 Score=47.44 Aligned_cols=30 Identities=30% Similarity=0.457 Sum_probs=24.3
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHH-HHHh
Q 005372 586 DFLNTASREELVELKGIGQRLADYIC-ELRQ 615 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~ 615 (699)
.-|-..+...|..+||||+|+|++|| +.|.
T Consensus 99 ~aI~~~D~~~L~kvpGIGkKtAerIilELkd 129 (197)
T PRK14603 99 RALLEGDARLLTSASGVGKKLAERIALELKG 129 (197)
T ss_pred HHHHhCCHHHHhhCCCCCHHHHHHHHHHHHH
Confidence 34557788899999999999999997 4444
No 101
>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=84.05 E-value=1.3 Score=47.18 Aligned_cols=63 Identities=25% Similarity=0.297 Sum_probs=46.1
Q ss_pred cccccCccc----------CH---HHHhcCCCCc----HHHHHHHHHHHhcC--------------------------CC
Q 005372 583 EYIDFLNTA----------SR---EELVELKGIG----QRLADYICELRQSS--------------------------PV 619 (699)
Q Consensus 583 ~~~v~iNtA----------~~---~eL~~lpGIG----~k~A~~Ii~~R~~~--------------------------pf 619 (699)
..++|||.+ .. .-|....|+. +.+|.+|++++..- ||
T Consensus 73 ~g~fNLN~L~~~~~~~~~~~~~~~~rLl~~lg~~~~~a~~la~~i~Dw~D~d~~~~~~~GaE~~~Y~~~~~py~~~n~~~ 152 (280)
T PF03934_consen 73 QGRFNLNNLVDNDGQIDPEAQAQFQRLLEALGLDEQEAERLADAIVDWIDADSNPTRPGGAEDSYYQSLDPPYRPANRPF 152 (280)
T ss_dssp TSSEEGGGGGS---SSS-HHHHHHHHHHHTTT--HHHHHHHHHHHHHHHSSSSS--SSS---HHHHHTSSS-B----S--
T ss_pred CCeeeHHHhcccccccchHHHHHHHHHHHHcCCchhHHHHHHHHHHHHHhccCcccCCCCccccchhhcCCCCCCcCCCC
Confidence 467899988 33 4456679999 89999999988743 69
Q ss_pred CCHHHHhhc-CCCHHHHHHhhcccccc
Q 005372 620 KSLSDLEKI-GLSTKQVYNLFGKAAKG 645 (699)
Q Consensus 620 ~~~~dL~~v-Gi~~~~~~~l~~~~~~~ 645 (699)
.+++||..| |+++..+++|+..+++-
T Consensus 153 ~~~~EL~~v~G~~~~~~~~l~p~vtv~ 179 (280)
T PF03934_consen 153 ASVSELRLVPGMDPELYERLRPYVTVL 179 (280)
T ss_dssp SSGGGGGGSTT--HHHHHHHTTTEE--
T ss_pred CCHHHHHhhhhcCHHHHHhhcCcEEEe
Confidence 999999999 99999999999999864
No 102
>PRK05642 DNA replication initiation factor; Validated
Probab=83.89 E-value=0.67 Score=48.07 Aligned_cols=48 Identities=15% Similarity=0.307 Sum_probs=28.2
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+... + ...+. .++.+.+.. .++ ...++-||++|+||||-+.
T Consensus 15 ~~tfdnF~~~~--~-~~a~~-~~~~~~~~~-~~~~~~~l~l~G~~G~GKTHLl~ 63 (234)
T PRK05642 15 DATFANYYPGA--N-AAALG-YVERLCEAD-AGWTESLIYLWGKDGVGRSHLLQ 63 (234)
T ss_pred cccccccCcCC--h-HHHHH-HHHHHhhcc-ccCCCCeEEEECCCCCCHHHHHH
Confidence 48999998542 2 22332 222222211 122 2457889999999999764
No 103
>PRK14669 uvrC excinuclease ABC subunit C; Provisional
Probab=83.89 E-value=1 Score=53.50 Aligned_cols=51 Identities=14% Similarity=0.240 Sum_probs=37.6
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHhhcccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGKAA 643 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~~~ 643 (699)
....|..|||||++++++++++=..- .-.|++||.+| |+.+..++|...+.
T Consensus 550 ~~S~L~~IpGIG~kr~~~LL~~FgSi~~I~~As~eeL~~v-i~~k~A~~I~~~l~ 603 (624)
T PRK14669 550 RTSELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAV-VGRAAAEAIIAHFT 603 (624)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHHH-hCHHHHHHHHHHhc
Confidence 35789999999999999999952110 22346666666 88888988887764
No 104
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=83.66 E-value=1.3 Score=47.95 Aligned_cols=47 Identities=38% Similarity=0.617 Sum_probs=36.1
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCC-----------CHHHHhhc-CCCHHHHHHhhccc
Q 005372 596 LVELKGIGQRLADYICELRQSSPVK-----------SLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~-----------~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
|..|||||+.+|..|-+|.+..-+. .+++|.++ |+||+.+..+-..+
T Consensus 55 ~t~l~gIGk~ia~~I~e~l~tG~~~~le~lk~~~P~gl~~Ll~v~GlGpkKi~~Ly~el 113 (326)
T COG1796 55 LTELPGIGKGIAEKISEYLDTGEVKKLEALKKEVPEGLEPLLKVPGLGPKKIVSLYKEL 113 (326)
T ss_pred cCCCCCccHHHHHHHHHHHHcCccHHHHHHHHhCCcchHHHhhCCCCCcHHHHHHHHHH
Confidence 5689999999999999998765333 35677778 89998877665544
No 105
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=83.46 E-value=1 Score=45.98 Aligned_cols=46 Identities=28% Similarity=0.388 Sum_probs=35.1
Q ss_pred HHHhcCCCCcHHHHHHHHHHH------hcCCCCCHHHHhhc-CCCHHHHHHhh
Q 005372 594 EELVELKGIGQRLADYICELR------QSSPVKSLSDLEKI-GLSTKQVYNLF 639 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R------~~~pf~~~~dL~~v-Gi~~~~~~~l~ 639 (699)
..|..+.|||||+|-+|+..= +..-=.++.-|.++ |||.|..++|.
T Consensus 73 ~~LisVnGIGpK~ALaiLs~~~~~~l~~aI~~~d~~~L~k~PGIGkKtAeriv 125 (201)
T COG0632 73 RLLISVNGIGPKLALAILSNLDPEELAQAIANEDVKALSKIPGIGKKTAERIV 125 (201)
T ss_pred HHHHccCCccHHHHHHHHcCCCHHHHHHHHHhcChHhhhcCCCCCHHHHHHHH
Confidence 467889999999999999762 11133566778888 99999988754
No 106
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=83.24 E-value=0.62 Score=52.95 Aligned_cols=50 Identities=22% Similarity=0.308 Sum_probs=31.3
Q ss_pred eeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 80 ~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..|+||.....+. + ...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 117 ~~~tfd~fv~g~~-n-~~a~~-~~~~~~~~~~~~~~-~l~l~G~~G~GKThL~~ 166 (450)
T PRK00149 117 PKYTFDNFVVGKS-N-RLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 166 (450)
T ss_pred CCCcccccccCCC-c-HHHHH-HHHHHHhCcCccCC-eEEEECCCCCCHHHHHH
Confidence 4689998664332 3 33443 34444443223345 47889999999999874
No 107
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=83.08 E-value=0.66 Score=51.87 Aligned_cols=51 Identities=24% Similarity=0.299 Sum_probs=30.8
Q ss_pred ceeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 79 ~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
...|+||...... .+...|. .+..+.+.--..+| .++-||++|+||||.+.
T Consensus 104 ~~~~tfd~fi~g~--~n~~a~~-~~~~~~~~~~~~~n-~l~l~G~~G~GKThL~~ 154 (405)
T TIGR00362 104 NPKYTFDNFVVGK--SNRLAHA-AALAVAENPGKAYN-PLFIYGGVGLGKTHLLH 154 (405)
T ss_pred CCCCcccccccCC--cHHHHHH-HHHHHHhCcCccCC-eEEEECCCCCcHHHHHH
Confidence 3468999866432 2233443 34444443212244 47789999999999874
No 108
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=82.93 E-value=1.1 Score=53.34 Aligned_cols=51 Identities=14% Similarity=0.086 Sum_probs=41.3
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 593 REELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
...|..|||||+++.++++++=..- .-.+++||.+| ||+.+..++|....+
T Consensus 607 ~s~L~~IpGiG~kr~~~LL~~FgS~~~i~~As~eel~~v~gi~~~~A~~i~~~~~ 661 (691)
T PRK14672 607 VLSFERLPHVGKVRAHRLLAHFGSFRSLQSATPQDIATAIHIPLTQAHTILHAAT 661 (691)
T ss_pred ccccccCCCCCHHHHHHHHHHhcCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHhh
Confidence 3578999999999999999864311 34567889999 999999999988765
No 109
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=82.80 E-value=0.45 Score=54.49 Aligned_cols=29 Identities=28% Similarity=0.428 Sum_probs=24.7
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..+..++..-++.|+.-|+||||||.||+
T Consensus 248 ~~~~~~~~~p~GliLvTGPTGSGKTTTLY 276 (500)
T COG2804 248 ARLLRLLNRPQGLILVTGPTGSGKTTTLY 276 (500)
T ss_pred HHHHHHHhCCCeEEEEeCCCCCCHHHHHH
Confidence 34456778889999999999999999997
No 110
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=82.79 E-value=0.69 Score=46.75 Aligned_cols=55 Identities=22% Similarity=0.391 Sum_probs=36.4
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHH-HHHhcC-CCC--------CHHHHhh----cCCCHHHHHHhhccc
Q 005372 587 FLNTASREELVELKGIGQRLADYIC-ELRQSS-PVK--------SLSDLEK----IGLSTKQVYNLFGKA 642 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~~~-pf~--------~~~dL~~----vGi~~~~~~~l~~~~ 642 (699)
-|-+-+.+.| ++||||+|+|++|| +.|.+- .+. ..+|... .|..++.+++...++
T Consensus 101 aI~~~D~~~L-~vpGIGkKtAerIilELk~K~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~ea~~al~~v 169 (186)
T PRK14600 101 AIVNEDKAAL-KVNGIGEKLINRIITELQYKVSKLEINETNFIIINDDALAALISLGYEKTKAFNAIQKI 169 (186)
T ss_pred HHHcCCHhhe-ECCCCcHHHHHHHHHHHHHHhhccccccccccccHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3446778889 99999999999997 445432 210 1234332 377777777777665
No 111
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=82.39 E-value=0.78 Score=46.90 Aligned_cols=60 Identities=20% Similarity=0.307 Sum_probs=39.9
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC--CC---------------CC-------HHHHhhcCCCHHHHHHhhcc
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSS--PV---------------KS-------LSDLEKIGLSTKQVYNLFGK 641 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~--pf---------------~~-------~~dL~~vGi~~~~~~~l~~~ 641 (699)
--|.+.+.+.|.++||||+|.|++|+-.=+.+ .| .+ ++-|...|..++.+++..++
T Consensus 100 ~aI~~~d~~~L~k~PGIGkKtAerivleLk~K~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~AL~~LGy~~~e~~~av~~ 179 (201)
T COG0632 100 QAIANEDVKALSKIPGIGKKTAERIVLELKGKLAAFLKGDGGSPAEDLSLDESSPALEEAVEALVALGYKEKEIKKAVKK 179 (201)
T ss_pred HHHHhcChHhhhcCCCCCHHHHHHHHHHHhhhhhhhcccccccccccccccccchhhhHHHHHHHHcCCCHHHHHHHHHH
Confidence 34567788999999999999999998544322 22 11 23344447777777776666
Q ss_pred cccc
Q 005372 642 AAKG 645 (699)
Q Consensus 642 ~~~~ 645 (699)
+..+
T Consensus 180 v~~~ 183 (201)
T COG0632 180 VLKE 183 (201)
T ss_pred HHhc
Confidence 6544
No 112
>PRK12377 putative replication protein; Provisional
Probab=82.00 E-value=0.65 Score=48.90 Aligned_cols=49 Identities=14% Similarity=0.240 Sum_probs=32.9
Q ss_pred eeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.+||......+ .|..++. .+..+++.+..+. ..++-||++|+||||.+.
T Consensus 71 ~tFdnf~~~~~-~~~~a~~-~a~~~a~~~~~~~-~~l~l~G~~GtGKThLa~ 119 (248)
T PRK12377 71 CSFANYQVQND-GQRYALS-QAKSIADELMTGC-TNFVFSGKPGTGKNHLAA 119 (248)
T ss_pred CCcCCcccCCh-hHHHHHH-HHHHHHHHHHhcC-CeEEEECCCCCCHHHHHH
Confidence 46777654433 4444554 4566666666554 457789999999999875
No 113
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=81.81 E-value=1.6 Score=48.01 Aligned_cols=32 Identities=19% Similarity=0.357 Sum_probs=28.5
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
.-+|..|||||+++|.++.+ - ++++++||.+.
T Consensus 88 l~~l~~i~GiGpk~a~~l~~-l---Gi~tl~eL~~a 119 (334)
T smart00483 88 LKLFTNVFGVGPKTAAKWYR-K---GIRTLEELKKN 119 (334)
T ss_pred HHHHHccCCcCHHHHHHHHH-h---CCCCHHHHHhc
Confidence 46889999999999999988 5 89999999774
No 114
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=81.28 E-value=0.62 Score=52.44 Aligned_cols=50 Identities=24% Similarity=0.365 Sum_probs=30.8
Q ss_pred eeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 80 ~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..|+||....... + ...|. .+ ..+...-.+.---+|-||.+|+||||-|.
T Consensus 82 ~~ytFdnFv~g~~-N-~~A~a-a~-~~va~~~g~~~nplfi~G~~GlGKTHLl~ 131 (408)
T COG0593 82 PKYTFDNFVVGPS-N-RLAYA-AA-KAVAENPGGAYNPLFIYGGVGLGKTHLLQ 131 (408)
T ss_pred CCCchhheeeCCc-h-HHHHH-HH-HHHHhccCCcCCcEEEECCCCCCHHHHHH
Confidence 3599999887653 3 33332 22 22222222223347889999999999885
No 115
>PRK08727 hypothetical protein; Validated
Probab=80.92 E-value=0.72 Score=47.76 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=26.6
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+.... + . ... +..+. .|. .-.|+-||++|+||||.+.
T Consensus 15 ~~~f~~f~~~~~-n-~--~~~-~~~~~----~~~~~~~l~l~G~~G~GKThL~~ 59 (233)
T PRK08727 15 DQRFDSYIAAPD-G-L--LAQ-LQALA----AGQSSDWLYLSGPAGTGKTHLAL 59 (233)
T ss_pred cCChhhccCCcH-H-H--HHH-HHHHH----hccCCCeEEEECCCCCCHHHHHH
Confidence 379999886442 2 1 111 11221 122 2348999999999999764
No 116
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=80.82 E-value=1.1 Score=47.22 Aligned_cols=124 Identities=22% Similarity=0.309 Sum_probs=71.6
Q ss_pred eeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCE-EEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCcee
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNA-TVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTA 160 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~-tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v 160 (699)
..+|...+-+. +.+.+...+ ..+++|..+ -++.||..|+|||.++ ..++......+
T Consensus 24 ~~l~~L~Gie~-Qk~~l~~Nt-----~~Fl~G~pannvLL~G~rGtGKSSlV--------------kall~~y~~~G--- 80 (249)
T PF05673_consen 24 IRLDDLIGIER-QKEALIENT-----EQFLQGLPANNVLLWGARGTGKSSLV--------------KALLNEYADQG--- 80 (249)
T ss_pred CCHHHhcCHHH-HHHHHHHHH-----HHHHcCCCCcceEEecCCCCCHHHHH--------------HHHHHHHhhcC---
Confidence 57777777653 434444432 456677644 3666999999999765 33444333333
Q ss_pred EEEEEEEecceeeecc------CCCccceeeeecCCCCeEecCCEEEE-eCChhHHHHHHHHHHhcCcccccCCCCCCCC
Q 005372 161 EISYYEVYMDRCYDLL------EVKTKEISILDDKDGQLHLKGLSRVP-VNSMTEFQEIFSRGIQRRKVAHTGLNDVSSR 233 (699)
Q Consensus 161 ~vS~~EIYnE~v~DLL------~~~~~~l~i~ed~~~~v~v~gLsev~-V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSR 233 (699)
+-.+||..+.+.||- ...+.... +++.+|+--. =.++..+..+|+-|...| ....-+..+|.|
T Consensus 81 -LRlIev~k~~L~~l~~l~~~l~~~~~kFI--------lf~DDLsFe~~d~~yk~LKs~LeGgle~~-P~NvliyATSNR 150 (249)
T PF05673_consen 81 -LRLIEVSKEDLGDLPELLDLLRDRPYKFI--------LFCDDLSFEEGDTEYKALKSVLEGGLEAR-PDNVLIYATSNR 150 (249)
T ss_pred -ceEEEECHHHhccHHHHHHHHhcCCCCEE--------EEecCCCCCCCcHHHHHHHHHhcCccccC-CCcEEEEEecch
Confidence 677899888776653 22222221 2344444221 134566777777666544 344455667777
Q ss_pred ceEEE
Q 005372 234 SHGVL 238 (699)
Q Consensus 234 SH~If 238 (699)
-|.|=
T Consensus 151 RHLv~ 155 (249)
T PF05673_consen 151 RHLVP 155 (249)
T ss_pred hhccc
Confidence 77553
No 117
>PRK08084 DNA replication initiation factor; Provisional
Probab=80.76 E-value=0.7 Score=47.92 Aligned_cols=46 Identities=11% Similarity=0.356 Sum_probs=29.0
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+.. . + ...+. .+..+.. ......++-||++|+||||.+.
T Consensus 18 ~~~fd~f~~~-~-n-~~a~~-~l~~~~~---~~~~~~l~l~Gp~G~GKThLl~ 63 (235)
T PRK08084 18 DETFASFYPG-D-N-DSLLA-ALQNALR---QEHSGYIYLWSREGAGRSHLLH 63 (235)
T ss_pred cCCccccccC-c-c-HHHHH-HHHHHHh---CCCCCeEEEECCCCCCHHHHHH
Confidence 4789988854 2 3 33443 2333322 2222468999999999999875
No 118
>PRK06526 transposase; Provisional
Probab=80.45 E-value=0.93 Score=47.85 Aligned_cols=21 Identities=38% Similarity=0.490 Sum_probs=17.0
Q ss_pred CCCCEEEEeeccCCCCCcceecc
Q 005372 112 HGRNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~G 134 (699)
.+.| |+.||++|+||||.+.+
T Consensus 97 ~~~n--lll~Gp~GtGKThLa~a 117 (254)
T PRK06526 97 GKEN--VVFLGPPGTGKTHLAIG 117 (254)
T ss_pred cCce--EEEEeCCCCchHHHHHH
Confidence 3444 78899999999999864
No 119
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=80.36 E-value=1.5 Score=51.81 Aligned_cols=52 Identities=21% Similarity=0.291 Sum_probs=40.7
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 591 ASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
.....|..|||||++++++|+++=..- --.+.++|.++ |||++.++.|.+.+
T Consensus 540 ~~~s~L~~IpGIG~k~~k~Ll~~FgS~~~i~~As~eeL~~v~Gig~~~A~~I~~~l 595 (598)
T PRK00558 540 RLTSALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEAL 595 (598)
T ss_pred hhhhhHhhCCCcCHHHHHHHHHHcCCHHHHHhCCHHHHhhcCCcCHHHHHHHHHHh
Confidence 345778999999999999999965321 13467888889 99999999887653
No 120
>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=79.97 E-value=1.7 Score=47.16 Aligned_cols=32 Identities=25% Similarity=0.374 Sum_probs=28.0
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..+|..|||||+++|+++. .- ++++++||.+-
T Consensus 84 l~~l~~i~GiGpk~a~~l~-~l---Gi~sl~dL~~a 115 (307)
T cd00141 84 LLLLLRVPGVGPKTARKLY-EL---GIRTLEDLRKA 115 (307)
T ss_pred HHHHHcCCCCCHHHHHHHH-Hc---CCCCHHHHHHH
Confidence 3577899999999999999 54 89999999885
No 121
>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=79.88 E-value=1 Score=45.52 Aligned_cols=47 Identities=19% Similarity=0.422 Sum_probs=30.0
Q ss_pred eeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 80 ECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 80 ~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..|+||.+..+. + ...+. .++.++ ..+....|+-||++|+||||...
T Consensus 10 ~~~~~~~~~~~~--~-~~~~~-~l~~~~---~~~~~~~lll~G~~G~GKT~la~ 56 (226)
T TIGR03420 10 DDPTFDNFYAGG--N-AELLA-ALRQLA---AGKGDRFLYLWGESGSGKSHLLQ 56 (226)
T ss_pred CchhhcCcCcCC--c-HHHHH-HHHHHH---hcCCCCeEEEECCCCCCHHHHHH
Confidence 347888887421 2 33443 233332 24566789999999999999763
No 122
>PRK07945 hypothetical protein; Provisional
Probab=79.48 E-value=1.6 Score=48.05 Aligned_cols=54 Identities=22% Similarity=0.265 Sum_probs=42.9
Q ss_pred HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHhhccccc-cccCC
Q 005372 595 ELVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLFGKAAK-GIFDR 649 (699)
Q Consensus 595 eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~~~~~~-~~~~~ 649 (699)
+|..|||||+.+|++|.++-+...+.-+++|+. + | |+.....|+.-.-. -.++|
T Consensus 50 ~l~~~~giG~~~a~~i~e~~~tg~~~~l~~l~~~~~~~~-g~~l~~~~~~D~H~HT~~Sd 108 (335)
T PRK07945 50 SLTSLPGIGPKTAKVIAQALAGRVPDYLAELRADAEPLG-GGALRAALRGDLHTHSDWSD 108 (335)
T ss_pred CcccCCCcCHHHHHHHHHHHhcCCHHHHHHHHHhhcCCc-cHHHHHHHhhhcccccCCCC
Confidence 789999999999999999998888889999977 4 6 77777777763332 23555
No 123
>PRK10702 endonuclease III; Provisional
Probab=79.37 E-value=1.4 Score=45.33 Aligned_cols=24 Identities=25% Similarity=0.473 Sum_probs=21.4
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 591 ASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
.+.++|..|||||+|.|..|+-+=
T Consensus 106 ~~~~~Ll~lpGVG~ktA~~ill~a 129 (211)
T PRK10702 106 EDRAALEALPGVGRKTANVVLNTA 129 (211)
T ss_pred chHHHHhcCCcccHHHHHHHHHHH
Confidence 468999999999999999998764
No 124
>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=79.19 E-value=0.85 Score=43.71 Aligned_cols=30 Identities=27% Similarity=0.324 Sum_probs=19.9
Q ss_pred chhhhhcCC-CCEEEEeeccCCCCCcceecc
Q 005372 105 PLIPGIFHG-RNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 105 plV~~vl~G-~N~tIfAYGqTGSGKTyTm~G 134 (699)
.+++.+-.+ ...-++..++||||||++|..
T Consensus 14 ~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~ 44 (184)
T PF04851_consen 14 RIINSLENKKEERRVLLNAPTGSGKTIIALA 44 (184)
T ss_dssp HHHHHHHTTSGCSEEEEEESTTSSHHHHHHH
T ss_pred HHHHHHHhcCCCCCEEEEECCCCCcChhhhh
Confidence 344333333 345566678999999999873
No 125
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=78.98 E-value=0.94 Score=40.90 Aligned_cols=19 Identities=32% Similarity=0.566 Sum_probs=15.4
Q ss_pred CCEEEEeeccCCCCCccee
Q 005372 114 RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm 132 (699)
....++.+|++|+|||+.+
T Consensus 18 ~~~~v~i~G~~G~GKT~l~ 36 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLA 36 (151)
T ss_pred CCCeEEEECCCCCCHHHHH
Confidence 3456888999999999765
No 126
>PRK08116 hypothetical protein; Validated
Probab=78.97 E-value=0.79 Score=48.67 Aligned_cols=50 Identities=18% Similarity=0.355 Sum_probs=32.8
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcC--CCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH--GRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~--G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++||.... . ..+...|. .+...++.+.+ ..+..++-||.+|+||||.+.
T Consensus 81 ~~tFdnf~~-~-~~~~~a~~-~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~ 132 (268)
T PRK08116 81 NSTFENFLF-D-KGSEKAYK-IARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAA 132 (268)
T ss_pred hcchhcccC-C-hHHHHHHH-HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHH
Confidence 477887663 2 24344443 45666666543 345568999999999999764
No 127
>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=78.70 E-value=2.5 Score=42.40 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=30.5
Q ss_pred HHHHhcCCCCcHHHHHHHHH------------HHhcC-CCCCHHHHhhc-CC-CHHHHHHhh
Q 005372 593 REELVELKGIGQRLADYICE------------LRQSS-PVKSLSDLEKI-GL-STKQVYNLF 639 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~------------~R~~~-pf~~~~dL~~v-Gi-~~~~~~~l~ 639 (699)
.++|..|||||+|.|.=++. +|+.. ||.....+..| .| .+..+.+++
T Consensus 114 re~Ll~LpGVG~KTAnvVL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 175 (177)
T TIGR03252 114 LRRLKALPGFGKQKAKIFLALLGKQLGVTPEGWREAAGPYGEPGSFRSVADITDPESLTQVR 175 (177)
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHhCCCCcchHHhccccCCCCcccchhhcCCHHHHHHHh
Confidence 47899999999999998775 36654 65544444444 33 344444443
No 128
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=78.36 E-value=1.1 Score=51.25 Aligned_cols=49 Identities=22% Similarity=0.343 Sum_probs=31.4
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||..+.... + +..|. .+..+.+.--..|| .+|-||.+|+||||.|.
T Consensus 111 ~~tFdnFv~g~~-n-~~A~~-aa~~~a~~~~~~~n-pl~i~G~~G~GKTHLl~ 159 (450)
T PRK14087 111 ENTFENFVIGSS-N-EQAFI-AVQTVSKNPGISYN-PLFIYGESGMGKTHLLK 159 (450)
T ss_pred ccchhcccCCCc-H-HHHHH-HHHHHHhCcCcccC-ceEEECCCCCcHHHHHH
Confidence 489999886542 4 34453 34444432111244 47889999999999874
No 129
>PRK07952 DNA replication protein DnaC; Validated
Probab=78.15 E-value=1.2 Score=46.82 Aligned_cols=50 Identities=10% Similarity=0.113 Sum_probs=31.3
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..+||...... ..|..++. .+...++.+..|.. .++-||.+|+||||.+.
T Consensus 68 ~~tFdnf~~~~-~~q~~al~-~a~~~~~~~~~~~~-~~~l~G~~GtGKThLa~ 117 (244)
T PRK07952 68 NCSFENYRVEC-EGQMNALS-KARQYVEEFDGNIA-SFIFSGKPGTGKNHLAA 117 (244)
T ss_pred CCccccccCCC-chHHHHHH-HHHHHHHhhccCCc-eEEEECCCCCCHHHHHH
Confidence 35777655333 24444554 34445555544433 68889999999999875
No 130
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=77.96 E-value=1.4 Score=44.97 Aligned_cols=47 Identities=21% Similarity=0.442 Sum_probs=29.9
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+||.++... + +.++ ..++.++.. .+.+..++-||++|+||||.+.
T Consensus 14 ~~~~d~f~~~~--~-~~~~-~~l~~~~~~--~~~~~~~~l~G~~G~GKT~La~ 60 (227)
T PRK08903 14 PPTFDNFVAGE--N-AELV-ARLRELAAG--PVADRFFYLWGEAGSGRSHLLQ 60 (227)
T ss_pred hhhhcccccCC--c-HHHH-HHHHHHHhc--cCCCCeEEEECCCCCCHHHHHH
Confidence 48999988543 2 2233 234444432 2334578899999999999753
No 131
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=77.87 E-value=2.2 Score=53.29 Aligned_cols=41 Identities=29% Similarity=0.410 Sum_probs=35.4
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLF 639 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~ 639 (699)
|..|+|||+..+++|++.| ||+|+.||.. + +++.+.++.|.
T Consensus 752 L~aIkgvg~~~~~~I~~~R---~f~s~~Df~~R~~~~~~~k~~le~LI 796 (1034)
T PRK07279 752 LKNIKGLPRDLAYWIIENR---PFSSIEDFLTRLPENYQKKEFLEPLI 796 (1034)
T ss_pred hhhcCCCCHHHHHHHHHCC---CCCCHHHHHHhcCcCCCCHHHHHHHH
Confidence 6789999999999999999 9999999976 5 36777777765
No 132
>PRK00254 ski2-like helicase; Provisional
Probab=77.52 E-value=2.5 Score=51.03 Aligned_cols=49 Identities=29% Similarity=0.386 Sum_probs=38.4
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHH--------Hhhc-CCCHHHHHHhhcccccc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSD--------LEKI-GLSTKQVYNLFGKAAKG 645 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~d--------L~~v-Gi~~~~~~~l~~~~~~~ 645 (699)
.-.|..|||||+++|++..++ +|++++| |.++ |||.+..++|++.+-..
T Consensus 644 ~~~L~~ipgig~~~~~~l~~~----g~~s~~~i~~a~~~el~~~~gi~~~~a~~i~~~~~~~ 701 (720)
T PRK00254 644 LLELMRLPMIGRKRARALYNA----GFRSIEDIVNAKPSELLKVEGIGAKIVEGIFKHLGVE 701 (720)
T ss_pred HhhhhcCCCCCHHHHHHHHHc----cCCCHHHHHhCCHHHHhcCCCCCHHHHHHHHHHhccc
Confidence 345778999999999999875 4666655 4558 99999999998876633
No 133
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=77.30 E-value=1.5 Score=44.51 Aligned_cols=57 Identities=23% Similarity=0.342 Sum_probs=38.2
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHH-HHHhcCCC-----------CCHHHHh----hcCCCHHHHHHhhcccc
Q 005372 587 FLNTASREELVELKGIGQRLADYIC-ELRQSSPV-----------KSLSDLE----KIGLSTKQVYNLFGKAA 643 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii-~~R~~~pf-----------~~~~dL~----~vGi~~~~~~~l~~~~~ 643 (699)
-|..-+.+.|..+||||+|+|++|| +.|.+-.. ...+|+. ..|.+.+.+.++.+++.
T Consensus 101 aI~~~D~~~L~~vpGIGkKtAerIilELk~Ki~~~~~~~~~~~~~~~~~e~~~aL~~LGy~~~~a~~ai~~~~ 173 (194)
T PRK14605 101 AIISGNAELLSTIPGIGKKTASRIVLELKDKIAKNWEAGVLSQVTEANSDILATLTALGYSSSEAAKAISSLG 173 (194)
T ss_pred HHHhCCHHHHHhCCCCCHHHHHHHHHHHHHHHHhhhhccccccccchHHHHHHHHHHcCCCHHHHHHHHHHhh
Confidence 3445578889999999999999965 44433211 1224443 33888888888877663
No 134
>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=75.99 E-value=1.1 Score=39.99 Aligned_cols=17 Identities=41% Similarity=0.399 Sum_probs=14.5
Q ss_pred EEeeccCCCCCcceecc
Q 005372 118 VFAYGATGSGKTYTMQG 134 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G 134 (699)
++.+|+||+|||+++..
T Consensus 3 ~~i~~~~G~GKT~~~~~ 19 (144)
T cd00046 3 VLLAAPTGSGKTLAALL 19 (144)
T ss_pred EEEECCCCCchhHHHHH
Confidence 56789999999999864
No 135
>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=75.77 E-value=2 Score=43.50 Aligned_cols=23 Identities=22% Similarity=0.413 Sum_probs=19.5
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHH
Q 005372 591 ASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-+...|..+||||+|+|++|+-.
T Consensus 104 ~d~~~L~~ipGiGkKtAerIile 126 (191)
T TIGR00084 104 EEVKALVKIPGVGKKTAERLLLE 126 (191)
T ss_pred CCHHHHHhCCCCCHHHHHHHHHH
Confidence 35678999999999999999743
No 136
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=75.39 E-value=4.2 Score=44.94 Aligned_cols=49 Identities=14% Similarity=0.204 Sum_probs=34.0
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhc
Q 005372 592 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
.+.-|..+|+|++.+|+++++.=..- =-.+.+||.+| |||++....|++
T Consensus 285 GyRiLs~IPrl~k~iAk~Ll~~FGSL~~Il~As~eeL~~VeGIGe~rA~~I~e 337 (352)
T PRK13482 285 GYRLLSKIPRLPSAVIENLVEHFGSLQGLLAASIEDLDEVEGIGEVRARAIRE 337 (352)
T ss_pred HHHHHhcCCCCCHHHHHHHHHHcCCHHHHHcCCHHHHhhCCCcCHHHHHHHHH
Confidence 45678889999999999998842100 01346788888 898888776553
No 137
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=75.27 E-value=3.4 Score=46.03 Aligned_cols=26 Identities=38% Similarity=0.745 Sum_probs=18.3
Q ss_pred hhhhcCC-CCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHG-RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G-~N~tIfAYGqTGSGKTyTm 132 (699)
+..++.| ....++.||.||+|||.|+
T Consensus 33 l~~~~~~~~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 33 LAPALRGERPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred HHHHhcCCCCccEEEECCCCCCHhHHH
Confidence 3344443 3334999999999999875
No 138
>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=75.23 E-value=2.2 Score=51.06 Aligned_cols=57 Identities=25% Similarity=0.275 Sum_probs=42.7
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
.+|=+++.++|..|||+|++.|+.|++.=+.. ||..+=....+ |||++....|..+.
T Consensus 458 ~Dl~~L~~~~L~~L~GfG~Ksa~nIl~~Ie~sk~~~l~r~L~aLgIpgVG~~~ak~L~~~f 518 (652)
T TIGR00575 458 ADLYALKKEDLLELEGFGEKSAQNLLNAIEKSKEKPLARLLFALGIRHVGEVTAKNLAKHF 518 (652)
T ss_pred HHHHhcCHHHHhhccCccHHHHHHHHHHHHHhccCcHHHHHhhccCCCcCHHHHHHHHHHh
Confidence 34557889999999999999999999988755 44333333446 88988887777654
No 139
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif. HhH2 domains are found in Rad2 family of prokaryotic and eukaryotic replication and repair nucleases, i.e., DNA polymerase I, Taq DNA polymerase, DNA repair protein Rad2 endonuclease, flap endonuclease, exonuclease I and IX, 5'-3' exonuclease and also bacteriophage Rnase H. These nucleases degrade RNA-DNA or DNA-DNA duplexes, or both and play essential roles in DNA duplication, repair, and recombination.
Probab=74.90 E-value=2.2 Score=36.61 Aligned_cols=27 Identities=26% Similarity=0.305 Sum_probs=22.8
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
+..|||||+|+|.+||.. |.+++.+..
T Consensus 24 i~gv~giG~k~A~~ll~~-----~~~~~~~~~ 50 (75)
T cd00080 24 IPGVPGIGPKTALKLLKE-----YGSLENLLE 50 (75)
T ss_pred CCCCCcccHHHHHHHHHH-----hCCHHHHHH
Confidence 457999999999999974 788888866
No 140
>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]
Probab=74.85 E-value=3.2 Score=48.93 Aligned_cols=48 Identities=23% Similarity=0.359 Sum_probs=37.5
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhcCCCHHHHHHhhcc
Q 005372 594 EELVELKGIGQRLADYICELRQSS---PVKSLSDLEKIGLSTKQVYNLFGK 641 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~vGi~~~~~~~l~~~ 641 (699)
..|..|||||+++.++++++=..- .=.+++||.+|||+.+..+++...
T Consensus 530 s~Ld~I~GiG~~r~~~LL~~Fgs~~~i~~As~eel~~vgi~~~~a~~i~~~ 580 (581)
T COG0322 530 SSLDDIPGIGPKRRKALLKHFGSLKGIKSASVEELAKVGISKKLAEKIYEA 580 (581)
T ss_pred CccccCCCcCHHHHHHHHHHhhCHHHHHhcCHHHHHHcCCCHHHHHHHHhh
Confidence 467889999999999999964321 224568998999999998888654
No 141
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=74.33 E-value=3.5 Score=51.99 Aligned_cols=65 Identities=29% Similarity=0.426 Sum_probs=49.4
Q ss_pred hhhccccccccCcccCH----HH-------HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c---CCCHHHHHHhhcc
Q 005372 577 KNSLVQEYIDFLNTASR----EE-------LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I---GLSTKQVYNLFGK 641 (699)
Q Consensus 577 ~~s~~~~~~v~iNtA~~----~e-------L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v---Gi~~~~~~~l~~~ 641 (699)
++.-.+..+.+||.... ++ |..|.|||...++.|++.|++.||+++.|+.. + +++.+.++.|.+-
T Consensus 795 r~~Gi~VlpPdIN~S~~~f~~~~~~~I~~gL~~IKGvg~~~i~~Iv~~R~~~~~~~~~df~~r~~~~~l~kr~lE~Lika 874 (1139)
T COG0587 795 RRMGIEVLPPDINRSGWDFTVEEKKAIRLGLGAIKGVGEDAIEEIVEARKEKPFKSLEDFCDRIDRKGLNKRVLESLIKA 874 (1139)
T ss_pred HHcCCeEeCCcccccCCcceecCCCcEEEhhhhhcCCcHHHHHHHHHHhhcccCCcHhHHHHHhhhccCCHHHHHHHHHc
Confidence 33334456777884432 22 67899999999999999998889999999855 3 7999999888643
No 142
>KOG1921 consensus Endonuclease III [Replication, recombination and repair]
Probab=73.92 E-value=2.3 Score=44.53 Aligned_cols=24 Identities=25% Similarity=0.576 Sum_probs=21.1
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 590 TASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-++.++|.+|||||||+|--.++.
T Consensus 155 P~~v~dLlsLPGVGPKMa~L~m~~ 178 (286)
T KOG1921|consen 155 PDTVEDLLSLPGVGPKMAHLTMQV 178 (286)
T ss_pred chhHHHHhcCCCCchHHHHHHHHH
Confidence 468899999999999999988764
No 143
>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=73.82 E-value=3.1 Score=34.80 Aligned_cols=22 Identities=27% Similarity=0.469 Sum_probs=20.8
Q ss_pred CHHHHhcCCCCcHHHHHHHHHH
Q 005372 592 SREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
+.++|..++|||++.|++|..+
T Consensus 45 s~~dL~~v~gi~~~~~~~i~~~ 66 (69)
T TIGR00426 45 TVEDLKQVPGIGNSLVEKNLAV 66 (69)
T ss_pred CHHHHHcCCCCCHHHHHHHHhh
Confidence 8899999999999999999876
No 144
>PF13245 AAA_19: Part of AAA domain
Probab=73.75 E-value=1.4 Score=37.97 Aligned_cols=25 Identities=24% Similarity=0.356 Sum_probs=16.8
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
...+. -+..+...|+.|||||+|+.
T Consensus 4 ~~al~-~~~~~vv~g~pGtGKT~~~~ 28 (76)
T PF13245_consen 4 RRALA-GSPLFVVQGPPGTGKTTTLA 28 (76)
T ss_pred HHHHh-hCCeEEEECCCCCCHHHHHH
Confidence 33444 23334558999999999874
No 145
>KOG2841 consensus Structure-specific endonuclease ERCC1-XPF, ERCC1 component [Replication, recombination and repair]
Probab=73.61 E-value=2.6 Score=43.91 Aligned_cols=35 Identities=26% Similarity=0.349 Sum_probs=28.3
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCC
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSSPVKS 621 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~ 621 (699)
-.|=.|+.+||+.+||+|+.+|++|.++= ..||.+
T Consensus 219 q~~~~AS~~ele~~~G~G~~kak~l~~~l-~~pf~~ 253 (254)
T KOG2841|consen 219 QQISNASEGELEQCPGLGPAKAKRLHKFL-HQPFLS 253 (254)
T ss_pred HHHHhcCHhHHHhCcCcCHHHHHHHHHHH-hccccC
Confidence 34567999999999999999999999975 226643
No 146
>PRK13910 DNA glycosylase MutY; Provisional
Probab=73.17 E-value=2.7 Score=45.41 Aligned_cols=23 Identities=30% Similarity=0.404 Sum_probs=21.1
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHH
Q 005372 592 SREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
+.++|.+|||||++.|..|+-+=
T Consensus 70 ~~~~L~~LpGIG~kTA~aIl~~a 92 (289)
T PRK13910 70 DYQSLLKLPGIGAYTANAILCFG 92 (289)
T ss_pred hHHHHHhCCCCCHHHHHHHHHHH
Confidence 58999999999999999999864
No 147
>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=72.24 E-value=3.5 Score=29.40 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=17.5
Q ss_pred CCHHHHhhc-CCCHHHHHHhhc
Q 005372 620 KSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 620 ~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
.++|||.++ |||+++.+.|+.
T Consensus 8 as~eeL~~lpGIG~~tA~~I~~ 29 (30)
T PF00633_consen 8 ASIEELMKLPGIGPKTANAILS 29 (30)
T ss_dssp SSHHHHHTSTT-SHHHHHHHHH
T ss_pred CCHHHHHhCCCcCHHHHHHHHh
Confidence 578999999 999999988764
No 148
>PRK00076 recR recombination protein RecR; Reviewed
Probab=72.20 E-value=3.1 Score=42.48 Aligned_cols=54 Identities=19% Similarity=0.172 Sum_probs=33.5
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhccccccccCC
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~ 649 (699)
++|..|||||+|.|+++.-+=-+.|=...++|.+. |. ...++++..-.++-|.+
T Consensus 11 ~~l~~LPGIG~KsA~Rla~~ll~~~~~~~~~la~~-i~-~~~~~i~~C~~C~~lse 64 (196)
T PRK00076 11 EALRKLPGIGPKSAQRLAFHLLQRDREDVLRLAQA-LE-EAKEKIKHCSVCGNLTE 64 (196)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-HH-HHHHcCCcCCCCCCcCC
Confidence 57899999999999999887644432233333321 11 23444555555677755
No 149
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=71.90 E-value=2.8 Score=43.20 Aligned_cols=23 Identities=35% Similarity=0.710 Sum_probs=21.0
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHH
Q 005372 591 ASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
.+.++|.+|||||+|+|.=++..
T Consensus 106 ~~~~eL~~LPGVGrKTAnvVL~~ 128 (211)
T COG0177 106 DTREELLSLPGVGRKTANVVLSF 128 (211)
T ss_pred chHHHHHhCCCcchHHHHHHHHh
Confidence 57899999999999999998876
No 150
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=71.81 E-value=1.6 Score=38.83 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=15.0
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
..++-+|++|+|||+++.
T Consensus 3 ~~~~l~G~~G~GKTtl~~ 20 (148)
T smart00382 3 EVILIVGPPGSGKTTLAR 20 (148)
T ss_pred CEEEEECCCCCcHHHHHH
Confidence 357789999999999864
No 151
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=71.65 E-value=3.2 Score=42.26 Aligned_cols=54 Identities=22% Similarity=0.191 Sum_probs=33.8
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhccccccccCC
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~ 649 (699)
++|..|||||+|.|+++.-+=-+.|=...++|.+. | ....++++..-.++-+.+
T Consensus 11 ~~l~~LPGIG~KsA~RlA~~ll~~~~~~~~~la~a-i-~~~~~~i~~C~~C~~lse 64 (195)
T TIGR00615 11 ESLKKLPGIGPKSAQRLAFHLLKRDPSEVLRLAQA-L-LEAKENLRTCSVCGAISD 64 (195)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-H-HHHHHcCCcCCCCCCCCC
Confidence 57899999999999999877643332233344331 1 134455555556777755
No 152
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=71.63 E-value=1.3 Score=40.54 Aligned_cols=18 Identities=33% Similarity=0.484 Sum_probs=12.7
Q ss_pred CEEEEeeccCCCCCccee
Q 005372 115 NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm 132 (699)
..+++.+|.+|+|||.++
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 357889999999999865
No 153
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=71.62 E-value=4.1 Score=48.06 Aligned_cols=50 Identities=18% Similarity=0.246 Sum_probs=38.5
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhcc
Q 005372 592 SREELVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFGK 641 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~~ 641 (699)
..-.|..|||||++++++++++=..- --.+.++|.++ ||+.+.+++|...
T Consensus 523 ~~~~L~~IpGIG~kr~~~LL~~FGS~~~I~~As~eeL~~vpGi~~~~A~~I~~~ 576 (577)
T PRK14668 523 VSTVLDDVPGVGPETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETIRER 576 (577)
T ss_pred HHhHHhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHhCCCCCHHHHHHHHHh
Confidence 34678999999999999999952211 23456888889 9999999988754
No 154
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=71.51 E-value=1.5 Score=44.62 Aligned_cols=15 Identities=47% Similarity=0.800 Sum_probs=12.6
Q ss_pred EeeccCCCCCcceec
Q 005372 119 FAYGATGSGKTYTMQ 133 (699)
Q Consensus 119 fAYGqTGSGKTyTm~ 133 (699)
..+|.||||||+|+.
T Consensus 27 ~I~G~TGsGKS~~~~ 41 (229)
T PF01935_consen 27 AIFGTTGSGKSNTVK 41 (229)
T ss_pred EEECCCCCCHHHHHH
Confidence 456999999999974
No 155
>PRK10436 hypothetical protein; Provisional
Probab=71.26 E-value=1.3 Score=50.76 Aligned_cols=27 Identities=30% Similarity=0.443 Sum_probs=22.4
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+..++..-++.|+..|+||||||.||.
T Consensus 210 l~~~~~~~~GliLvtGpTGSGKTTtL~ 236 (462)
T PRK10436 210 FRQALQQPQGLILVTGPTGSGKTVTLY 236 (462)
T ss_pred HHHHHHhcCCeEEEECCCCCChHHHHH
Confidence 445566678899999999999999985
No 156
>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=71.12 E-value=1.5 Score=50.61 Aligned_cols=28 Identities=29% Similarity=0.434 Sum_probs=22.6
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.+..++..-++.|+..|+||||||.||.
T Consensus 233 ~l~~~~~~~~GlilitGptGSGKTTtL~ 260 (486)
T TIGR02533 233 RFERLIRRPHGIILVTGPTGSGKTTTLY 260 (486)
T ss_pred HHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence 4455666677789999999999999985
No 157
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=70.92 E-value=2.4 Score=48.41 Aligned_cols=51 Identities=24% Similarity=0.312 Sum_probs=31.9
Q ss_pred ceeeeeceeeCCCCCcHhHHHHhhccchhhhh--cCC--CCEEEEeeccCCCCCcceec
Q 005372 79 SECYQLDSFFGQEDESVSKIFYSEVNPLIPGI--FHG--RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 79 ~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~v--l~G--~N~tIfAYGqTGSGKTyTm~ 133 (699)
...|+||..+... .+ +..| ..+..+.+.. ..| ||. ++-||++|+||||.+.
T Consensus 105 ~~~~tFdnFv~g~-~N-~~a~-~~a~~~a~~~~~~~~~~~np-l~L~G~~G~GKTHLl~ 159 (445)
T PRK12422 105 DPLMTFANFLVTP-EN-DLPH-RILQEFTKVSEQGKGFPFNP-IYLFGPEGSGKTHLMQ 159 (445)
T ss_pred CccccccceeeCC-cH-HHHH-HHHHHHHhccccccCCCCce-EEEEcCCCCCHHHHHH
Confidence 3469999988643 23 3334 3444444332 223 454 6779999999999874
No 158
>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=70.45 E-value=2.6 Score=45.98 Aligned_cols=20 Identities=50% Similarity=0.825 Sum_probs=16.9
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005372 113 GRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 113 G~N~tIfAYGqTGSGKTyTm 132 (699)
+....++-||++|+|||+++
T Consensus 38 ~~~~~i~I~G~~GtGKT~l~ 57 (365)
T TIGR02928 38 SRPSNVFIYGKTGTGKTAVT 57 (365)
T ss_pred CCCCcEEEECCCCCCHHHHH
Confidence 45567899999999999875
No 159
>PRK09482 flap endonuclease-like protein; Provisional
Probab=70.40 E-value=3.8 Score=43.53 Aligned_cols=39 Identities=23% Similarity=0.328 Sum_probs=29.1
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLF 639 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~ 639 (699)
+-.+||||+|.|.++|+ -|.+++.+.+ + -+.++.-++|+
T Consensus 184 IpGVpGIG~KtA~~LL~-----~~gsle~i~~~~~~~~~~~~~~L~ 224 (256)
T PRK09482 184 IPGVAGIGPKSAAELLN-----QFRSLENIYESLDALPEKWRKKLE 224 (256)
T ss_pred CCCCCCcChHHHHHHHH-----HhCCHHHHHHhHHHhhHHHHHHHH
Confidence 45789999999999999 6889999876 4 45444444443
No 160
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=70.33 E-value=1.4 Score=51.76 Aligned_cols=28 Identities=36% Similarity=0.504 Sum_probs=23.2
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.+..++..-++.|+..|+||||||.||.
T Consensus 307 ~l~~~~~~~~Glilv~G~tGSGKTTtl~ 334 (564)
T TIGR02538 307 LFLEAIHKPQGMVLVTGPTGSGKTVSLY 334 (564)
T ss_pred HHHHHHHhcCCeEEEECCCCCCHHHHHH
Confidence 4456666778899999999999999975
No 161
>PRK14976 5'-3' exonuclease; Provisional
Probab=69.77 E-value=3.8 Score=44.04 Aligned_cols=39 Identities=21% Similarity=0.285 Sum_probs=28.8
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLF 639 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~ 639 (699)
+-.+||||+|.|.++|. .|.+++++.+ + -+..+.-++|+
T Consensus 193 ipGVpGIG~KtA~~LL~-----~~gsle~i~~~~~~~~~~~~~~L~ 233 (281)
T PRK14976 193 IKGVKGIGPKTAIKLLN-----KYGNIENIYENIDKIKKKIKNKLS 233 (281)
T ss_pred CCCCCcccHHHHHHHHH-----HcCCHHHHHHhHHHHhHHHHHHHH
Confidence 45689999999999997 6899999876 4 55443333333
No 162
>PRK13844 recombination protein RecR; Provisional
Probab=69.31 E-value=3.9 Score=41.85 Aligned_cols=54 Identities=13% Similarity=0.091 Sum_probs=34.4
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhccccccccCC
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~ 649 (699)
+.|..|||||+|.|+++.-+=-+.|=...++|.+- |. ...++++..-.++-|.+
T Consensus 15 ~~l~~LPGIG~KsA~Rla~~lL~~~~~~~~~la~~-i~-~~~~~i~~C~~C~~lte 68 (200)
T PRK13844 15 ESLRKLPTIGKKSSQRLALYLLDKSPETAIAIANS-LL-DATANIKKCVYCQALTE 68 (200)
T ss_pred HHHHHCCCCCHHHHHHHHHHHHcCCHHHHHHHHHH-HH-HHHHhCCcCCCCCCCCC
Confidence 57899999999999999887644332233333221 11 34555666666777765
No 163
>PRK06835 DNA replication protein DnaC; Validated
Probab=69.30 E-value=1.6 Score=47.96 Aligned_cols=30 Identities=27% Similarity=0.509 Sum_probs=22.7
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+...++++-.+. -.++-||++|+||||.+.
T Consensus 172 ~~~f~~~f~~~~-~~Lll~G~~GtGKThLa~ 201 (329)
T PRK06835 172 CKNFIENFDKNN-ENLLFYGNTGTGKTFLSN 201 (329)
T ss_pred HHHHHHHHhccC-CcEEEECCCCCcHHHHHH
Confidence 455677665544 558999999999999765
No 164
>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=69.17 E-value=2 Score=43.37 Aligned_cols=18 Identities=44% Similarity=0.658 Sum_probs=15.7
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
+.|+-.|+||||||.++.
T Consensus 2 GlilI~GptGSGKTTll~ 19 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLA 19 (198)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 568889999999999874
No 165
>PRK08181 transposase; Validated
Probab=69.02 E-value=2.5 Score=45.15 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=17.1
Q ss_pred CCCCEEEEeeccCCCCCcceecc
Q 005372 112 HGRNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~G 134 (699)
.|.| |+-||++|+||||.+.+
T Consensus 105 ~~~n--lll~Gp~GtGKTHLa~A 125 (269)
T PRK08181 105 KGAN--LLLFGPPGGGKSHLAAA 125 (269)
T ss_pred cCce--EEEEecCCCcHHHHHHH
Confidence 4555 78899999999998764
No 166
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=68.91 E-value=3.7 Score=42.57 Aligned_cols=28 Identities=36% Similarity=0.399 Sum_probs=23.8
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcCC
Q 005372 591 ASREELVELKGIGQRLADYICELRQSSP 618 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~p 618 (699)
...++|.+|||||++.|+.|+-|=-.+|
T Consensus 118 ~~re~Ll~l~GIG~kTAd~iLlya~~rp 145 (218)
T PRK13913 118 VTREWLLDQKGIGKESADAILCYVCAKE 145 (218)
T ss_pred hHHHHHHcCCCccHHHHHHHHHHHcCCC
Confidence 4568999999999999999999875554
No 167
>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=68.66 E-value=4.3 Score=42.47 Aligned_cols=28 Identities=21% Similarity=0.316 Sum_probs=24.4
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
+..+||||+|.|.++|+ .|.++|++.+-
T Consensus 185 ipGv~GiG~ktA~~Ll~-----~~gsle~i~~~ 212 (240)
T cd00008 185 IPGVPGIGEKTAAKLLK-----EYGSLEGILEN 212 (240)
T ss_pred CCCCCccCHHHHHHHHH-----HhCCHHHHHHh
Confidence 45789999999999997 69999999774
No 168
>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=68.64 E-value=1.7 Score=41.31 Aligned_cols=24 Identities=42% Similarity=0.605 Sum_probs=18.3
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+.+.+|.+ ++..|+||+|||....
T Consensus 9 ~~i~~~~~--~li~aptGsGKT~~~~ 32 (169)
T PF00270_consen 9 EAIISGKN--VLISAPTGSGKTLAYI 32 (169)
T ss_dssp HHHHTTSE--EEEECSTTSSHHHHHH
T ss_pred HHHHcCCC--EEEECCCCCccHHHHH
Confidence 34446666 6788999999999864
No 169
>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=68.56 E-value=1.5 Score=43.65 Aligned_cols=29 Identities=31% Similarity=0.474 Sum_probs=20.5
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+.+.+.+-.|.+..++-||+.|+|||+.|
T Consensus 9 ~~l~~~l~~~~~~~~~l~G~rg~GKTsLl 37 (234)
T PF01637_consen 9 EKLKELLESGPSQHILLYGPRGSGKTSLL 37 (234)
T ss_dssp HHHHHCHHH--SSEEEEEESTTSSHHHHH
T ss_pred HHHHHHHHhhcCcEEEEEcCCcCCHHHHH
Confidence 34444444566888999999999999865
No 170
>PRK08939 primosomal protein DnaI; Reviewed
Probab=68.46 E-value=2.6 Score=45.72 Aligned_cols=40 Identities=18% Similarity=0.361 Sum_probs=26.2
Q ss_pred cHhHHHHhhccchhhhhcCC-CCEEEEeeccCCCCCcceecc
Q 005372 94 SVSKIFYSEVNPLIPGIFHG-RNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G-~N~tIfAYGqTGSGKTyTm~G 134 (699)
.+..++. .+...++....| ..-.++-||++|+||||.+.+
T Consensus 135 ~~~~~~~-~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~A 175 (306)
T PRK08939 135 DRLDALM-AALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAA 175 (306)
T ss_pred HHHHHHH-HHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHH
Confidence 3445555 335556555433 234689999999999998754
No 171
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=68.45 E-value=3.9 Score=30.37 Aligned_cols=17 Identities=29% Similarity=0.315 Sum_probs=15.1
Q ss_pred hcCCCCcHHHHHHHHHH
Q 005372 597 VELKGIGQRLADYICEL 613 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~ 613 (699)
-.+||||+|.|.++|+.
T Consensus 19 ~Gv~giG~ktA~~ll~~ 35 (36)
T smart00279 19 PGVKGIGPKTALKLLRE 35 (36)
T ss_pred CCCCcccHHHHHHHHHh
Confidence 57899999999999874
No 172
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=68.38 E-value=3.3 Score=45.75 Aligned_cols=20 Identities=45% Similarity=0.758 Sum_probs=16.4
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005372 113 GRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 113 G~N~tIfAYGqTGSGKTyTm 132 (699)
+....++-||++|+|||+++
T Consensus 53 ~~~~~~lI~G~~GtGKT~l~ 72 (394)
T PRK00411 53 SRPLNVLIYGPPGTGKTTTV 72 (394)
T ss_pred CCCCeEEEECCCCCCHHHHH
Confidence 44556889999999999875
No 173
>PF12846 AAA_10: AAA-like domain
Probab=67.75 E-value=2.1 Score=44.61 Aligned_cols=19 Identities=42% Similarity=0.630 Sum_probs=15.6
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
|.-++..|.||||||++|.
T Consensus 1 n~h~~i~G~tGsGKT~~~~ 19 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLK 19 (304)
T ss_pred CCeEEEECCCCCcHHHHHH
Confidence 4456788999999998874
No 174
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=67.41 E-value=3.5 Score=41.85 Aligned_cols=54 Identities=19% Similarity=0.192 Sum_probs=33.4
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhccccccccCC
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~~~~~~~ 649 (699)
+.|..|||||+|.|++|-=+=-+.+=..+++|.+. +. ...+++...-.++-|.+
T Consensus 12 ~~l~kLPGvG~KsA~R~AfhLL~~~~~~~~~la~a-l~-~a~~~i~~C~~C~~~te 65 (198)
T COG0353 12 DALKKLPGVGPKSAQRLAFHLLQRDREDVERLAKA-LL-EAKENIKHCSVCGNLTE 65 (198)
T ss_pred HHHhhCCCCChhHHHHHHHHHHccCHHHHHHHHHH-HH-HHHhcCccccccCCcCC
Confidence 57899999999999998655433322233333321 21 34556666666777765
No 175
>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=67.00 E-value=2.3 Score=46.78 Aligned_cols=29 Identities=28% Similarity=0.518 Sum_probs=21.7
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+.+..++.--.+.|+-.|+||||||.||.
T Consensus 112 ~~l~~~~~~~~g~ili~G~tGSGKTT~l~ 140 (343)
T TIGR01420 112 PVLRELAERPRGLILVTGPTGSGKSTTLA 140 (343)
T ss_pred HHHHHHHhhcCcEEEEECCCCCCHHHHHH
Confidence 44555554445778999999999999984
No 176
>COG3156 PulK Type II secretory pathway, component PulK [Intracellular trafficking and secretion]
Probab=66.79 E-value=6 Score=43.20 Aligned_cols=61 Identities=16% Similarity=0.051 Sum_probs=46.3
Q ss_pred cccccCcccCHHHH-hcCCC-CcHHHHHHHHHHHhcCCCCCHHHHhhc-C--CCHHHHHHhhcccc
Q 005372 583 EYIDFLNTASREEL-VELKG-IGQRLADYICELRQSSPVKSLSDLEKI-G--LSTKQVYNLFGKAA 643 (699)
Q Consensus 583 ~~~v~iNtA~~~eL-~~lpG-IG~k~A~~Ii~~R~~~pf~~~~dL~~v-G--i~~~~~~~l~~~~~ 643 (699)
..+||+|||+.+-| ..+|+ ++..-|+++++.|-...|.+.+|+.+. | ......++.++++.
T Consensus 212 ~~~IN~Ntapa~llaA~~~~~~s~~~a~~vl~ar~~~gw~~~~df~~~l~~~~~~~~~~~v~~~l~ 277 (323)
T COG3156 212 RLLINVNTAPAELLAAAFPSLSSLGQARAVLDARPRNGWLNRDDFSGQLGSHGAGSINEKVKDTLA 277 (323)
T ss_pred cceeecccCcHHHHHHHhcCCCCHHHHHHHHhcCcccCCcchHHHHHHhhhccCcchhhhhhhhcc
Confidence 56799999997778 44555 559999999999977789999999886 5 33345556665444
No 177
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=66.71 E-value=3.4 Score=49.61 Aligned_cols=46 Identities=28% Similarity=0.452 Sum_probs=34.6
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 631 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 631 (699)
.+|..|+.++|..++|||+++|+.|.++-... -..-+++|.+.||.
T Consensus 535 ~~l~~As~eeL~~i~GIG~~~A~sI~~ff~~~~~~~~i~~L~~~gv~ 581 (665)
T PRK07956 535 EALRAASEEELAAVEGVGEVVAQSIVEFFAVEENRELIDELLEAGVN 581 (665)
T ss_pred HHHHhCCHHHHhccCCcCHHHHHHHHHHHhhhhHHHHHHHHHHcCCC
Confidence 45667899999999999999999999987543 33444556555654
No 178
>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=66.58 E-value=4.3 Score=43.50 Aligned_cols=27 Identities=26% Similarity=0.364 Sum_probs=22.5
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcC
Q 005372 591 ASREELVELKGIGQRLADYICELRQSS 617 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~ 617 (699)
.+.++|..|||||++.|..|+-+=-.+
T Consensus 102 ~~~~~L~~LpGIG~~TA~~Il~~a~~~ 128 (275)
T TIGR01084 102 QDFEDLAALPGVGRYTAGAILSFALNK 128 (275)
T ss_pred HHHHHHHhCCCCCHHHHHHHHHHHCCC
Confidence 458999999999999999998765333
No 179
>PRK10880 adenine DNA glycosylase; Provisional
Probab=66.39 E-value=4.4 Score=44.94 Aligned_cols=24 Identities=33% Similarity=0.472 Sum_probs=21.7
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 591 ASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
.+.++|..|||||++.|..|+-+=
T Consensus 106 ~~~~~L~~LpGIG~~TA~aIl~~a 129 (350)
T PRK10880 106 ETFEEVAALPGVGRSTAGAILSLS 129 (350)
T ss_pred hhHHHHhcCCCccHHHHHHHHHHH
Confidence 467999999999999999999865
No 180
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=66.23 E-value=2.3 Score=41.13 Aligned_cols=29 Identities=28% Similarity=0.432 Sum_probs=16.1
Q ss_pred cchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 104 NPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 104 ~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
..+++....|....++-+|..|+|||+.+
T Consensus 13 ~~~l~~~~~~~~~~~ll~G~~G~GKT~ll 41 (185)
T PF13191_consen 13 RDLLDAAQSGSPRNLLLTGESGSGKTSLL 41 (185)
T ss_dssp HHTTGGTSS-----EEE-B-TTSSHHHHH
T ss_pred HHHHHHHHcCCCcEEEEECCCCCCHHHHH
Confidence 34444445677788999999999999864
No 181
>smart00475 53EXOc 5'-3' exonuclease.
Probab=66.02 E-value=4.7 Score=42.80 Aligned_cols=27 Identities=22% Similarity=0.402 Sum_probs=23.2
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
+-.+||||+|.|.++|+ .|.+++.+.+
T Consensus 188 ipGV~GIG~KtA~~Ll~-----~ygsle~i~~ 214 (259)
T smart00475 188 IPGVPGIGEKTAAKLLK-----EFGSLENILE 214 (259)
T ss_pred CCCCCCCCHHHHHHHHH-----HhCCHHHHHH
Confidence 45689999999999997 6889988866
No 182
>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=65.34 E-value=1.9 Score=45.25 Aligned_cols=18 Identities=39% Similarity=0.626 Sum_probs=15.1
Q ss_pred CEEEEeeccCCCCCccee
Q 005372 115 NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm 132 (699)
.+.|+-.|.||||||.+|
T Consensus 127 ~~~ili~G~tGSGKTT~l 144 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLL 144 (270)
T ss_dssp TEEEEEEESTTSSHHHHH
T ss_pred ceEEEEECCCccccchHH
Confidence 566777899999999886
No 183
>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=65.06 E-value=2.4 Score=45.00 Aligned_cols=26 Identities=31% Similarity=0.486 Sum_probs=19.6
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..++..-.+.|+-.|.||||||.+|.
T Consensus 73 ~~~~~~~~GlilisG~tGSGKTT~l~ 98 (264)
T cd01129 73 RKLLEKPHGIILVTGPTGSGKTTTLY 98 (264)
T ss_pred HHHHhcCCCEEEEECCCCCcHHHHHH
Confidence 44455445678888999999999874
No 184
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=64.81 E-value=2.6 Score=47.02 Aligned_cols=20 Identities=30% Similarity=0.348 Sum_probs=16.7
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005372 114 RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++.|+..|+||||||+||.
T Consensus 148 ~~GlilI~G~TGSGKTT~l~ 167 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTLAA 167 (372)
T ss_pred cCCEEEEECCCCCCHHHHHH
Confidence 45578889999999999874
No 185
>PRK13766 Hef nuclease; Provisional
Probab=64.81 E-value=7.6 Score=47.17 Aligned_cols=45 Identities=22% Similarity=0.236 Sum_probs=34.2
Q ss_pred HhcCCCCcHHHHHHHHHHHhcC---CCCCHHHHhhc-CCCHHHHHHhhc
Q 005372 596 LVELKGIGQRLADYICELRQSS---PVKSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~---pf~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
|..|||||++.|.+|+++=..- --.+.++|.++ |+|++..+.|.+
T Consensus 717 L~~ipgig~~~a~~Ll~~fgs~~~i~~as~~~L~~i~Gig~~~a~~i~~ 765 (773)
T PRK13766 717 VESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRIRE 765 (773)
T ss_pred HhcCCCCCHHHHHHHHHHcCCHHHHHhCCHHHHHhCCCCCHHHHHHHHH
Confidence 6889999999999999852100 12345588888 999999988865
No 186
>PRK06921 hypothetical protein; Provisional
Probab=64.63 E-value=3.3 Score=44.03 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=20.8
Q ss_pred ccchhhhhcC---CCCEEEEeeccCCCCCcceec
Q 005372 103 VNPLIPGIFH---GRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 103 v~plV~~vl~---G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+...++++-. +..-.++-||++|+||||.+.
T Consensus 102 ~~~~~~~f~~~~~~~~~~l~l~G~~G~GKThLa~ 135 (266)
T PRK06921 102 AVEYVKDFEKIQESRKNSIALLGQPGSGKTHLLT 135 (266)
T ss_pred HHHHHHHHHHhcccCCCeEEEECCCCCcHHHHHH
Confidence 3445554431 234467889999999999765
No 187
>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=64.54 E-value=2.8 Score=46.58 Aligned_cols=23 Identities=39% Similarity=0.575 Sum_probs=18.8
Q ss_pred cCCCCEEEEeeccCCCCCcceec
Q 005372 111 FHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 111 l~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+.--.+.|+..|+||||||.||.
T Consensus 130 ~~~~~glilI~GpTGSGKTTtL~ 152 (358)
T TIGR02524 130 IAPQEGIVFITGATGSGKSTLLA 152 (358)
T ss_pred HhccCCEEEEECCCCCCHHHHHH
Confidence 33356889999999999999874
No 188
>PRK14671 uvrC excinuclease ABC subunit C; Provisional
Probab=64.45 E-value=5.6 Score=47.37 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=32.9
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcCCCCC--------HHHHhhcCCCHHHHHHhhcc
Q 005372 591 ASREELVELKGIGQRLADYICELRQSSPVKS--------LSDLEKIGLSTKQVYNLFGK 641 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~--------~~dL~~vGi~~~~~~~l~~~ 641 (699)
.....|..|||||+++|.+|+.+ |.+ .++|.+| ||++..++|...
T Consensus 566 ~~~s~L~~I~GIG~k~a~~Ll~~-----Fgs~~~i~~As~eeL~~v-ig~k~A~~I~~~ 618 (621)
T PRK14671 566 TLQTELTDIAGIGEKTAEKLLEH-----FGSVEKVAKASLEELAAV-AGPKTAETIYRY 618 (621)
T ss_pred HhhhhhhcCCCcCHHHHHHHHHH-----cCCHHHHHhCCHHHHHHH-hCHHHHHHHHHH
Confidence 34467899999999999999984 555 4555555 777777776543
No 189
>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=64.42 E-value=5 Score=48.60 Aligned_cols=50 Identities=16% Similarity=0.207 Sum_probs=32.2
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhh-cCCCHHHHHHhhccc
Q 005372 593 REELVELKGIGQRLADYICELRQSS-PVKSLSDLEK-IGLSTKQVYNLFGKA 642 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~-vGi~~~~~~~l~~~~ 642 (699)
.+.|..+||||+++|+.|++.=++. ....+-.+.. .||+++.+.+|.++.
T Consensus 116 ~~~L~~v~gi~~~~~~~i~~~~~~~~~~~~~~~~L~~~gi~~~~a~ki~~~y 167 (720)
T TIGR01448 116 PEKLLEVPGISKANLEKFVSQWSQQGDERRLLAGLQGLGIGIKLAQRIYKFY 167 (720)
T ss_pred HHHHhcCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence 5677788888888888887755444 3333333333 388888777776643
No 190
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=64.33 E-value=3.8 Score=43.83 Aligned_cols=31 Identities=32% Similarity=0.480 Sum_probs=25.2
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+.++++.+.--.-+.|+-.|+|||||+.||-
T Consensus 115 LPevlk~la~~kRGLviiVGaTGSGKSTtmA 145 (375)
T COG5008 115 LPEVLKDLALAKRGLVIIVGATGSGKSTTMA 145 (375)
T ss_pred CcHHHHHhhcccCceEEEECCCCCCchhhHH
Confidence 3456777766777889999999999999984
No 191
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=63.63 E-value=3.4 Score=50.77 Aligned_cols=22 Identities=36% Similarity=0.607 Sum_probs=17.7
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|-+.++|.||++|+|||.|+.
T Consensus 778 sgpnnvLYIyG~PGTGKTATVK 799 (1164)
T PTZ00112 778 SGSNQILYISGMPGTGKTATVY 799 (1164)
T ss_pred CCCCceEEEECCCCCCHHHHHH
Confidence 3455678899999999998863
No 192
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=63.14 E-value=2.9 Score=37.86 Aligned_cols=15 Identities=33% Similarity=0.561 Sum_probs=12.8
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|+-||+.|+|||+..
T Consensus 1 ill~G~~G~GKT~l~ 15 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLA 15 (132)
T ss_dssp EEEESSTTSSHHHHH
T ss_pred CEEECcCCCCeeHHH
Confidence 578999999999864
No 193
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=62.74 E-value=5.2 Score=41.74 Aligned_cols=29 Identities=34% Similarity=0.472 Sum_probs=26.1
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
.-.|-.|+.++|..+||||+++|++|+++
T Consensus 27 ve~Ik~AS~eEL~~V~GIg~k~AekI~e~ 55 (232)
T PRK12766 27 VEDVRAADQSELAEVDGIGNALAARIKAD 55 (232)
T ss_pred HHHHHhCCHHHHHHccCCCHHHHHHHHHH
Confidence 35667899999999999999999999886
No 194
>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=62.61 E-value=6.2 Score=39.72 Aligned_cols=22 Identities=41% Similarity=0.779 Sum_probs=19.6
Q ss_pred CHHHHhcCCCCcHHHHHHHHHH
Q 005372 592 SREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
..++|..|||||++.|..|+-+
T Consensus 104 ~~~~L~~l~GIG~ktA~~ill~ 125 (191)
T TIGR01083 104 DREELVKLPGVGRKTANVVLNV 125 (191)
T ss_pred HHHHHHhCCCCcHHHHHHHHHH
Confidence 4689999999999999999854
No 195
>PF13479 AAA_24: AAA domain
Probab=62.60 E-value=3.6 Score=41.99 Aligned_cols=19 Identities=37% Similarity=0.606 Sum_probs=16.0
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
+..++.||++|+|||++..
T Consensus 3 ~~~~lIyG~~G~GKTt~a~ 21 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLAA 21 (213)
T ss_pred ceEEEEECCCCCCHHHHHH
Confidence 4568899999999998764
No 196
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=62.38 E-value=2.5 Score=42.67 Aligned_cols=26 Identities=23% Similarity=0.405 Sum_probs=17.7
Q ss_pred hhhcCCCCEEEEeeccCCCCCcceec
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
..++...+..++..|..|+||||+|.
T Consensus 11 ~~~l~~~~~~~~l~G~aGtGKT~~l~ 36 (196)
T PF13604_consen 11 RAILTSGDRVSVLQGPAGTGKTTLLK 36 (196)
T ss_dssp HHHHHCTCSEEEEEESTTSTHHHHHH
T ss_pred HHHHhcCCeEEEEEECCCCCHHHHHH
Confidence 34444444445558999999999873
No 197
>PRK07758 hypothetical protein; Provisional
Probab=62.07 E-value=15 Score=33.20 Aligned_cols=56 Identities=20% Similarity=0.159 Sum_probs=38.8
Q ss_pred CCCCccccchhhhhhhhhccccccccCcccCHHHHhcCCCCcHHHHHHHHHHHhcC
Q 005372 562 IGTPLDKFSARSIRLKNSLVQEYIDFLNTASREELVELKGIGQRLADYICELRQSS 617 (699)
Q Consensus 562 ~~~p~~~~~~~~~~~~~s~~~~~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~ 617 (699)
..+...+++.++.+.=....-..+-+|-.-+.+||..|+|+|++..+.|.+.-.+.
T Consensus 35 ~~~~~~~LSvRA~N~Lk~AGI~TL~dLv~~te~ELl~iknlGkKSL~EIkekL~E~ 90 (95)
T PRK07758 35 KEGFLSLLSAPARRALEHHGIHTVEELSKYSEKEILKLHGMGPASLPKLRKALEES 90 (95)
T ss_pred CCCCCccccHHHHHHHHHcCCCcHHHHHcCCHHHHHHccCCCHHHHHHHHHHHHHc
Confidence 33445567776665433333344556667889999999999999999988765543
No 198
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=62.05 E-value=4.2 Score=46.62 Aligned_cols=62 Identities=29% Similarity=0.326 Sum_probs=41.6
Q ss_pred hhhhcCCCCEEEEeeccCCCCCcceeccCC---------C-----CCCchHH---------HHHHHHHhhhcCCceeEEE
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTMQGSE---------E-----RPGLMPL---------AMSKILSICQSTGSTAEIS 163 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm~G~~---------~-----~~GIipr---------al~~LF~~~~~~~~~v~vS 163 (699)
|..+.+|.+. +|++|||||||+...++- . ..|..|+ .+.++|+......+...+-
T Consensus 105 ip~i~~Grdl--~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~ 182 (482)
T KOG0335|consen 105 IPIISGGRDL--MACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMK 182 (482)
T ss_pred cceeecCCce--EEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccce
Confidence 4455667765 899999999999987640 0 1112333 3577787777666666777
Q ss_pred EEEEecc
Q 005372 164 YYEVYMD 170 (699)
Q Consensus 164 ~~EIYnE 170 (699)
...+|+.
T Consensus 183 ~~~~ygg 189 (482)
T KOG0335|consen 183 SVVVYGG 189 (482)
T ss_pred eeeeeCC
Confidence 7788876
No 199
>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=61.99 E-value=3.6 Score=41.02 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=15.4
Q ss_pred EEEEeeccCCCCCcceecc
Q 005372 116 ATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~G 134 (699)
-.++-||++|+||||...+
T Consensus 48 ~~l~l~G~~G~GKThLa~a 66 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVA 66 (178)
T ss_dssp -EEEEEESTTSSHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHH
Confidence 3588899999999998653
No 200
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=61.93 E-value=8 Score=47.51 Aligned_cols=52 Identities=19% Similarity=0.327 Sum_probs=37.5
Q ss_pred CcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-------CCC-HHHHHHhhccccc
Q 005372 588 LNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-------GLS-TKQVYNLFGKAAK 644 (699)
Q Consensus 588 iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-------Gi~-~~~~~~l~~~~~~ 644 (699)
-|....+-|..|||||++.|.+|++ .|+|+++|.+. +|| ++..++|..-+..
T Consensus 751 ~~~~~q~~L~~lPgI~~~~a~~ll~-----~f~si~~l~~as~eeL~~~iG~~~~A~~i~~fl~~ 810 (814)
T TIGR00596 751 FNDGPQDFLLKLPGVTKKNYRNLRK-----KVKSIRELAKLSQNELNELIGDEEAAKRLYDFLRT 810 (814)
T ss_pred ccHHHHHHHHHCCCCCHHHHHHHHH-----HcCCHHHHHhCCHHHHHHHhCCHHHHHHHHHHhcc
Confidence 3555567799999999999999999 38876665441 255 7777777655443
No 201
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=61.79 E-value=4.9 Score=48.15 Aligned_cols=86 Identities=28% Similarity=0.465 Sum_probs=49.3
Q ss_pred eeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceeccCC---CCCCchH----HHHHHHHHhh-
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQGSE---ERPGLMP----LAMSKILSIC- 153 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~~---~~~GIip----ral~~LF~~~- 153 (699)
|....-|.|.. .|..-+. .+++.+-+|...-+ .+|.||||||+||-.-- ..|-|+- ....+|++.+
T Consensus 2 f~~~~~~~~~~-~Q~~ai~----~l~~~~~~~~~~~~-l~Gvtgs~kt~~~a~~~~~~~~p~Lvi~~n~~~A~ql~~el~ 75 (655)
T TIGR00631 2 FKLHSPFQPAG-DQPKAIA----KLVEGLTDGEKHQT-LLGVTGSGKTFTMANVIAQVNRPTLVIAHNKTLAAQLYNEFK 75 (655)
T ss_pred ceeccCCCCCh-HHHHHHH----HHHHhhhcCCCcEE-EECCCCcHHHHHHHHHHHHhCCCEEEEECCHHHHHHHHHHHH
Confidence 55556676654 6665555 45666656642323 68999999999986521 1222221 1223333332
Q ss_pred ---hcCCceeEEEEEEEecceee
Q 005372 154 ---QSTGSTAEISYYEVYMDRCY 173 (699)
Q Consensus 154 ---~~~~~~v~vS~~EIYnE~v~ 173 (699)
........||||..|+-..|
T Consensus 76 ~f~p~~~V~~f~sy~d~y~pe~y 98 (655)
T TIGR00631 76 EFFPENAVEYFVSYYDYYQPEAY 98 (655)
T ss_pred HhCCCCeEEEEeeecccCCcccc
Confidence 33335667899999886554
No 202
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=60.94 E-value=3.4 Score=41.07 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=12.7
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
..+..|+.|||||+|+.
T Consensus 19 ~~~i~GpPGTGKT~~l~ 35 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLA 35 (236)
T ss_dssp -EEEE-STTSSHHHHHH
T ss_pred CEEEECCCCCChHHHHH
Confidence 45668999999999875
No 203
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=60.58 E-value=3 Score=45.62 Aligned_cols=28 Identities=29% Similarity=0.423 Sum_probs=18.9
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++..++.+. ..|+-.|.||||||++|.
T Consensus 139 ~~L~~~v~~~-~~ilI~G~tGSGKTTll~ 166 (319)
T PRK13894 139 EAIIAAVRAH-RNILVIGGTGSGKTTLVN 166 (319)
T ss_pred HHHHHHHHcC-CeEEEECCCCCCHHHHHH
Confidence 3455555543 455666999999997763
No 204
>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=60.34 E-value=7.2 Score=36.59 Aligned_cols=24 Identities=21% Similarity=0.441 Sum_probs=21.5
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 590 TASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-++.+||..+||||++++++|-+|
T Consensus 94 f~s~eeL~~V~GIg~k~~~~i~~~ 117 (120)
T TIGR01259 94 FKSVDDLTKVSGIGEKSLEKLKDY 117 (120)
T ss_pred cCCHHHHHcCCCCCHHHHHHHHhc
Confidence 478999999999999999998654
No 205
>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=59.92 E-value=3.3 Score=41.96 Aligned_cols=17 Identities=41% Similarity=0.563 Sum_probs=14.5
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.|+-.|+||+|||.|+.
T Consensus 3 vi~lvGptGvGKTTt~a 19 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIA 19 (196)
T ss_dssp EEEEEESTTSSHHHHHH
T ss_pred EEEEECCCCCchHhHHH
Confidence 46788999999999964
No 206
>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=59.76 E-value=8.9 Score=41.26 Aligned_cols=17 Identities=29% Similarity=0.479 Sum_probs=9.6
Q ss_pred hcCCCCcHHHHHHHHHH
Q 005372 597 VELKGIGQRLADYICEL 613 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~ 613 (699)
..+||||+++++++.++
T Consensus 2 ~~i~gig~~~~~~L~~~ 18 (310)
T TIGR02236 2 EDLPGVGPATAEKLREA 18 (310)
T ss_pred cccCCCCHHHHHHHHHc
Confidence 34566666666655554
No 207
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=58.64 E-value=8.3 Score=37.08 Aligned_cols=25 Identities=32% Similarity=0.599 Sum_probs=21.7
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 590 TASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
....++|..|||||++.|+.|+-+-
T Consensus 79 ~~~~~~L~~l~GIG~~tA~~~l~~~ 103 (158)
T cd00056 79 PDAREELLALPGVGRKTANVVLLFA 103 (158)
T ss_pred cccHHHHHcCCCCCHHHHHHHHHHH
Confidence 4467889999999999999998864
No 208
>PRK04328 hypothetical protein; Provisional
Probab=58.54 E-value=14 Score=38.65 Aligned_cols=49 Identities=20% Similarity=0.248 Sum_probs=32.5
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEE
Q 005372 105 PLIPGIFHG---RNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (699)
Q Consensus 105 plV~~vl~G---~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~E 166 (699)
+-+|.++.| ....++-+|.+|+|||.- +++-++..+......+.+|+-|
T Consensus 10 ~~LD~lL~GGip~gs~ili~G~pGsGKT~l-------------~~~fl~~~~~~ge~~lyis~ee 61 (249)
T PRK04328 10 PGMDEILYGGIPERNVVLLSGGPGTGKSIF-------------SQQFLWNGLQMGEPGVYVALEE 61 (249)
T ss_pred hhHHHHhcCCCcCCcEEEEEcCCCCCHHHH-------------HHHHHHHHHhcCCcEEEEEeeC
Confidence 456777766 478889999999999852 3444555454545556666544
No 209
>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=58.08 E-value=6.1 Score=47.33 Aligned_cols=45 Identities=29% Similarity=0.522 Sum_probs=32.7
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005372 587 FLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 631 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 631 (699)
.|-.|+.++|..++|||+++|+.|+++=... -..-+++|.+.||.
T Consensus 523 ~l~~As~eeL~~i~GIG~~~A~~I~~ff~~~~~~~~i~~L~~~gv~ 568 (652)
T TIGR00575 523 KLKAASLEELLSVEGVGPKVAESIVNFFHDPNNRQLIKKLEELGVE 568 (652)
T ss_pred HHHhCCHHHHhcCCCcCHHHHHHHHHHHhhhhHHHHHHHHHHcCCC
Confidence 4556899999999999999999999975332 23345556555664
No 210
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=57.95 E-value=3.3 Score=44.77 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=19.4
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.++..++.+ ...|+-.|.||||||.+|
T Consensus 123 ~~L~~~v~~-~~~ilI~G~tGSGKTTll 149 (299)
T TIGR02782 123 DVLREAVLA-RKNILVVGGTGSGKTTLA 149 (299)
T ss_pred HHHHHHHHc-CCeEEEECCCCCCHHHHH
Confidence 445555554 346778899999999876
No 211
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=57.63 E-value=12 Score=40.61 Aligned_cols=45 Identities=18% Similarity=0.360 Sum_probs=29.9
Q ss_pred HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHH--------hhc-CCCHHHHHHhhcccc
Q 005372 595 ELVELKGIGQRLADYICELRQSSPVKSLSDL--------EKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 595 eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL--------~~v-Gi~~~~~~~l~~~~~ 643 (699)
.|..+||||+++|++..+. .|.+++|| .++ |++.+..++|..++.
T Consensus 7 ~l~~l~gIg~~~a~~L~~~----Gi~t~~dl~~~~~~~L~~~~g~~~~~a~~l~~~a~ 60 (317)
T PRK04301 7 DLEDLPGVGPATAEKLREA----GYDTVEAIAVASPKELSEAAGIGESTAAKIIEAAR 60 (317)
T ss_pred cHhhcCCCCHHHHHHHHHc----CCCCHHHHHcCCHHHHHHhcCCCHHHHHHHHHHHH
Confidence 4677888888888776665 46655444 345 777777777666554
No 212
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=57.55 E-value=4.9 Score=44.89 Aligned_cols=39 Identities=26% Similarity=0.452 Sum_probs=28.8
Q ss_pred CEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEEEec
Q 005372 115 NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYM 169 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~EIYn 169 (699)
-.-|+-||.+||||||++ +.+|+.. ....|.++++|.|.
T Consensus 30 PS~~~iyG~sgTGKT~~~--------------r~~l~~~--n~~~vw~n~~ecft 68 (438)
T KOG2543|consen 30 PSIVHIYGHSGTGKTYLV--------------RQLLRKL--NLENVWLNCVECFT 68 (438)
T ss_pred ceeEEEeccCCCchhHHH--------------HHHHhhc--CCcceeeehHHhcc
Confidence 344689999999999974 5667655 34567788888775
No 213
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.48 E-value=9.6 Score=39.50 Aligned_cols=31 Identities=29% Similarity=0.328 Sum_probs=26.1
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
...+-.|+.+||..++|||+.+|..|...+|
T Consensus 51 l~~l~~a~~~eL~~i~GiG~aka~~l~a~~E 81 (218)
T TIGR00608 51 LGHLLSAPPEELSSVPGIGEAKAIQLKAAVE 81 (218)
T ss_pred HHHHHhCCHHHHHhCcCCcHHHHHHHHHHHH
Confidence 4556689999999999999999988876554
No 214
>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=57.39 E-value=4.6 Score=36.47 Aligned_cols=16 Identities=31% Similarity=0.513 Sum_probs=13.6
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+-.|.+|||||+..
T Consensus 1 vI~I~G~~gsGKST~a 16 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLA 16 (121)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 4788999999999854
No 215
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=57.37 E-value=9.1 Score=36.50 Aligned_cols=23 Identities=35% Similarity=0.690 Sum_probs=20.0
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHH
Q 005372 592 SREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
..++|.+|||||++.|+.|+-+=
T Consensus 70 ~~~~L~~l~GIG~~tA~~~l~~~ 92 (149)
T smart00478 70 DREELLKLPGVGRKTANAVLSFA 92 (149)
T ss_pred HHHHHHcCCCCcHHHHHHHHHHH
Confidence 56889999999999999988763
No 216
>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=56.87 E-value=8.8 Score=27.65 Aligned_cols=15 Identities=27% Similarity=0.539 Sum_probs=11.9
Q ss_pred HhcCCCCcHHHHHHH
Q 005372 596 LVELKGIGQRLADYI 610 (699)
Q Consensus 596 L~~lpGIG~k~A~~I 610 (699)
+..++|||+++++++
T Consensus 13 i~~~~GIG~kt~~kL 27 (32)
T PF11798_consen 13 IRKFWGIGKKTAKKL 27 (32)
T ss_dssp GGGSTTS-HHHHHHH
T ss_pred HHhhCCccHHHHHHH
Confidence 567999999999874
No 217
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=56.84 E-value=7.9 Score=42.04 Aligned_cols=43 Identities=35% Similarity=0.605 Sum_probs=36.6
Q ss_pred ccCcccCHHHHhcC-CCCc-----HHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 586 DFLNTASREELVEL-KGIG-----QRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 586 v~iNtA~~~eL~~l-pGIG-----~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..||+++.++|..| .--| +.+|++|+++|++.||.+--||.++
T Consensus 140 evvN~~~e~~L~~I~~~yGEEr~arrIA~aIv~~R~~~pi~tT~eLaei 188 (314)
T COG0275 140 EVVNTYSEEDLARIFKEYGEERFAKRIARAIVERRKKKPIETTKELAEI 188 (314)
T ss_pred HHHhcCCHHHHHHHHHHhccHhhHHHHHHHHHHHhccCCCccHHHHHHH
Confidence 57899999999885 4444 5789999999998899999999885
No 218
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=56.51 E-value=5.2 Score=42.91 Aligned_cols=21 Identities=29% Similarity=0.438 Sum_probs=16.1
Q ss_pred CCCEEEEeeccCCCCCcceec
Q 005372 113 GRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 113 G~N~tIfAYGqTGSGKTyTm~ 133 (699)
|....++-||++|+|||+++.
T Consensus 34 ~~~~~lll~Gp~GtGKT~la~ 54 (337)
T PRK12402 34 PNLPHLLVQGPPGSGKTAAVR 54 (337)
T ss_pred CCCceEEEECCCCCCHHHHHH
Confidence 433357889999999999763
No 219
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=56.50 E-value=6.7 Score=47.10 Aligned_cols=41 Identities=22% Similarity=0.404 Sum_probs=31.5
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005372 591 ASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 631 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 631 (699)
++.++|..|+|||+++|+.|+++-... -..-+++|.++||.
T Consensus 538 ~~~e~l~~i~giG~~~a~si~~ff~~~~~~~~i~~l~~~gv~ 579 (669)
T PRK14350 538 FALSKLLKIKGIGEKIALNIIEAFNDKIILDKFNFFKNLGFK 579 (669)
T ss_pred CCHHHHhhCCCccHHHHHHHHHHHcCHHHHHHHHHHHHcCCC
Confidence 688999999999999999999986432 23445666666765
No 220
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=56.11 E-value=13 Score=44.62 Aligned_cols=57 Identities=23% Similarity=0.247 Sum_probs=38.7
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHh---hc-CCCHHHHHHhhcc
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLE---KI-GLSTKQVYNLFGK 641 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~---~v-Gi~~~~~~~l~~~ 641 (699)
+.+|-+++.++|..|||+|+|.|++|++.-+...-..++.+. .+ |||.+..+.|.++
T Consensus 470 i~DL~~L~~~~L~~l~gfG~Ksa~~ll~~Ie~sk~~~l~R~l~algi~~IG~~~ak~L~~~ 530 (665)
T PRK07956 470 PADLFKLTAEDLLGLEGFGEKSAQNLLDAIEKSKETSLARFLYALGIRHVGEKAAKALARH 530 (665)
T ss_pred HHHHHhcCHHHHhcCcCcchHHHHHHHHHHHHhhcCCHHHhhHhhhccCcCHHHHHHHHHH
Confidence 344558888999999999999999999877644223333332 24 6677666655543
No 221
>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=56.00 E-value=6.6 Score=43.49 Aligned_cols=35 Identities=17% Similarity=0.471 Sum_probs=25.5
Q ss_pred cHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 94 SVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 94 sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|..+|+.++..+.. .....+|.-|+.|+||||.+
T Consensus 5 eQ~~~~~~v~~~~~~----~~~~~~fv~G~~GtGKs~l~ 39 (364)
T PF05970_consen 5 EQRRVFDTVIEAIEN----EEGLNFFVTGPAGTGKSFLI 39 (364)
T ss_pred HHHHHHHHHHHHHHc----cCCcEEEEEcCCCCChhHHH
Confidence 578888876554433 33456788999999999975
No 222
>PRK09183 transposase/IS protein; Provisional
Probab=55.67 E-value=8.9 Score=40.50 Aligned_cols=20 Identities=30% Similarity=0.458 Sum_probs=15.7
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.| ++-+|++|+||||.+.
T Consensus 101 ~~~~--v~l~Gp~GtGKThLa~ 120 (259)
T PRK09183 101 RNEN--IVLLGPSGVGKTHLAI 120 (259)
T ss_pred cCCe--EEEEeCCCCCHHHHHH
Confidence 4554 5578999999999875
No 223
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=54.37 E-value=5.1 Score=37.20 Aligned_cols=14 Identities=36% Similarity=0.627 Sum_probs=12.6
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+..|.+|||||+.
T Consensus 2 ii~~G~pgsGKSt~ 15 (143)
T PF13671_consen 2 IILCGPPGSGKSTL 15 (143)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 78899999999985
No 224
>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=54.13 E-value=77 Score=33.33 Aligned_cols=53 Identities=19% Similarity=0.168 Sum_probs=33.2
Q ss_pred EeCChhHHHHHHHHHHhcCcccccCCCCCCCCceEEEEEEEEEeecCCCCceEEEEEEEEEcCCCcc
Q 005372 202 PVNSMTEFQEIFSRGIQRRKVAHTGLNDVSSRSHGVLVISVSTLLGDDSKAALTGKLNLIDLADNRR 268 (699)
Q Consensus 202 ~V~S~ee~~~ll~~g~~~R~~~sT~~N~~SSRSH~If~I~V~~~~~~~~~~~~~skL~fVDLAGser 268 (699)
...+.+++...+...... .... + ..-|.-++.|.|.... .-.|+||||+|-.+
T Consensus 85 ~~~~~~~v~~~i~~~~~~-~~~~---~--~~~s~~~i~l~i~~p~--------~~~ltLIDlPGl~~ 137 (240)
T smart00053 85 KFTDFDEVRNEIEAETDR-VTGT---N--KGISPVPINLRVYSPH--------VLNLTLIDLPGITK 137 (240)
T ss_pred ccCCHHHHHHHHHHHHHH-hcCC---C--CcccCcceEEEEeCCC--------CCceEEEeCCCccc
Confidence 346788888888766542 1111 1 2245567888876542 23589999999854
No 225
>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=53.73 E-value=4.3 Score=36.70 Aligned_cols=26 Identities=23% Similarity=0.436 Sum_probs=19.7
Q ss_pred EEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhh
Q 005372 118 VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSIC 153 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~ 153 (699)
|+-||++|.|||+.+. ..+.+|.+..
T Consensus 1 I~i~G~~G~GKS~l~~----------~l~~~l~~~~ 26 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAK----------ELAKDLLKHI 26 (107)
T ss_pred CEEECCCCCCHHHHHH----------HHHHHHHHHh
Confidence 5779999999998653 5666666655
No 226
>COG1948 MUS81 ERCC4-type nuclease [DNA replication, recombination, and repair]
Probab=53.63 E-value=8.7 Score=40.71 Aligned_cols=29 Identities=41% Similarity=0.591 Sum_probs=24.8
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
+-++=||+.+||+.+.|||+++|.+|=+.
T Consensus 205 ~~~~~tas~~eL~~v~gig~k~A~~I~~~ 233 (254)
T COG1948 205 VEDVLTASEEELMKVKGIGEKKAREIYRF 233 (254)
T ss_pred HHHHhhcCHHHHHHhcCccHHHHHHHHHH
Confidence 34666899999999999999999999653
No 227
>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=53.57 E-value=11 Score=41.12 Aligned_cols=43 Identities=33% Similarity=0.556 Sum_probs=36.1
Q ss_pred ccCcccCHHHHhcC-CCC-----cHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 586 DFLNTASREELVEL-KGI-----GQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 586 v~iNtA~~~eL~~l-pGI-----G~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..||+.+.++|..| .-- -.++|.+|+++|+..||.+-.||.++
T Consensus 136 ~~ln~~~e~~L~~i~~~yGEe~~a~~IA~~Iv~~R~~~~i~tt~~L~~i 184 (305)
T TIGR00006 136 EILNTYSEEDLERILKKYGEEKFSKRIARAIVERRKKKPIQTTKELAEL 184 (305)
T ss_pred HHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence 57899999999774 333 46899999999998899999999885
No 228
>KOG1857 consensus Transcription accessory protein TEX, contains S1 domain [Transcription]
Probab=53.53 E-value=6.6 Score=44.85 Aligned_cols=62 Identities=11% Similarity=0.078 Sum_probs=50.6
Q ss_pred ccccCcccCHHHHhcC------CCCcHHHHHH-----HHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhccccccccCC
Q 005372 584 YIDFLNTASREELVEL------KGIGQRLADY-----ICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAAKGIFDR 649 (699)
Q Consensus 584 ~~v~iNtA~~~eL~~l------pGIG~k~A~~-----Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~~~~~~ 649 (699)
..+++|+|....++.. -|+-+|++-- |.+.|..| ||++++|+.+. ||... +.++...-.|+.
T Consensus 151 ~~~~~~sA~p~r~~~~~~~~~kRG~~EK~~~~~~~~~~~d~~R~H~~f~gf~e~~~~~~I~~~----FnD~~~~~~F~~ 225 (623)
T KOG1857|consen 151 RQLLLTSAVPGRTLMGVDPGYKRGCKEKIISPTSQILHTDVVRLHCGFQGFREAEKIKTILLN----FNDSTVVIGFGT 225 (623)
T ss_pred hhHHhccCCchhhhhccCchhhcchHHHhhccccchhhhhHHHHhCcccchHHHHHhhhhhhc----cccceEEeeccc
Confidence 4589999999999888 8999999988 89999988 99999999998 87543 445555555544
No 229
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=53.41 E-value=8 Score=40.84 Aligned_cols=35 Identities=26% Similarity=0.342 Sum_probs=22.7
Q ss_pred hHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 96 SKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 96 ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
...+. ....+++.+-+|.| ++-||++|+||||-..
T Consensus 89 ~~~l~-~~~~~~~~~~~~~n--l~l~G~~G~GKThLa~ 123 (254)
T COG1484 89 KKALE-DLASLVEFFERGEN--LVLLGPPGVGKTHLAI 123 (254)
T ss_pred HHHHH-HHHHHHHHhccCCc--EEEECCCCCcHHHHHH
Confidence 44554 34455555544433 4669999999999765
No 230
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=53.33 E-value=11 Score=40.93 Aligned_cols=43 Identities=35% Similarity=0.567 Sum_probs=36.2
Q ss_pred ccCcccCHHHHhcC-CC-----CcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 586 DFLNTASREELVEL-KG-----IGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 586 v~iNtA~~~eL~~l-pG-----IG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..||+.+.++|..| .- -.+++|.+|+++|+..||.+-.||.++
T Consensus 134 ~~ln~~~~~~L~~i~~~yGee~~a~~iA~~Iv~~R~~~~~~tt~~L~~~ 182 (296)
T PRK00050 134 EVVNTYSEEELARIFKEYGEERFARRIARAIVEARPKKPITTTGELAEI 182 (296)
T ss_pred HHHhhCCHHHHHHHHHHhcCcchHHHHHHHHHHHhccCCCCCHHHHHHH
Confidence 57899999999764 33 346899999999998899999999885
No 231
>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=53.32 E-value=23 Score=42.69 Aligned_cols=32 Identities=31% Similarity=0.482 Sum_probs=26.0
Q ss_pred CCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhh
Q 005372 112 HGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSIC 153 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~ 153 (699)
.+.|-||+..|.+|||||.++. .+++.|....
T Consensus 82 ~~~~Q~IiisGeSGsGKTe~~k----------~il~~L~~~~ 113 (689)
T PF00063_consen 82 TRQNQSIIISGESGSGKTETSK----------LILRYLASLS 113 (689)
T ss_dssp HTSEEEEEEEESTTSSHHHHHH----------HHHHHHHHHS
T ss_pred cccccceeeccccccccccchH----------HHHHHHhhhc
Confidence 5889999999999999999864 5666666544
No 232
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=53.27 E-value=8.9 Score=46.46 Aligned_cols=28 Identities=46% Similarity=0.718 Sum_probs=21.0
Q ss_pred CEEEEeeccCCCCCccee--------ccCC--CCCCch
Q 005372 115 NATVFAYGATGSGKTYTM--------QGSE--ERPGLM 142 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm--------~G~~--~~~GIi 142 (699)
|-.++.+|+||||||.-+ ||++ .++|||
T Consensus 271 n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmI 308 (1172)
T KOG0926|consen 271 NPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMI 308 (1172)
T ss_pred CCeEEEecCCCCCccccchHHHHHcccCCccCCCCCee
Confidence 556788899999999887 4443 347776
No 233
>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=53.09 E-value=4.7 Score=40.41 Aligned_cols=17 Identities=41% Similarity=0.651 Sum_probs=12.4
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
-++.+|+||||||.+|.
T Consensus 40 h~li~G~tgsGKS~~l~ 56 (205)
T PF01580_consen 40 HLLIAGATGSGKSTLLR 56 (205)
T ss_dssp SEEEE--TTSSHHHHHH
T ss_pred eEEEEcCCCCCccHHHH
Confidence 46789999999998764
No 234
>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=53.00 E-value=9.6 Score=41.52 Aligned_cols=21 Identities=52% Similarity=0.983 Sum_probs=18.5
Q ss_pred HHHHhcCCCCcHHHHHHHHHH
Q 005372 593 REELVELKGIGQRLADYICEL 613 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
.++|.+|||||++.|+.|+-+
T Consensus 219 ~~~L~~l~GIG~~tAd~vll~ 239 (310)
T TIGR00588 219 REALCELPGVGPKVADCICLM 239 (310)
T ss_pred HHHHHhCCCccHHHHHHHHHH
Confidence 688999999999999987654
No 235
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=52.96 E-value=7.5 Score=36.91 Aligned_cols=17 Identities=41% Similarity=0.466 Sum_probs=13.8
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.++..|++|||||.++.
T Consensus 26 ~~~i~~~~GsGKT~~~~ 42 (201)
T smart00487 26 DVILAAPTGSGKTLAAL 42 (201)
T ss_pred cEEEECCCCCchhHHHH
Confidence 44667899999999775
No 236
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=52.80 E-value=9.7 Score=40.96 Aligned_cols=22 Identities=27% Similarity=0.441 Sum_probs=18.5
Q ss_pred CHHHHhcCCCCcHHHHHHHHHH
Q 005372 592 SREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
..++|.+|||||++.|+.|+-.
T Consensus 205 ~~~~L~~LpGIGpwTA~~vllr 226 (283)
T PRK10308 205 AMKTLQTFPGIGRWTANYFALR 226 (283)
T ss_pred HHHHHhcCCCcCHHHHHHHHHH
Confidence 3589999999999999986643
No 237
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=52.58 E-value=7.6 Score=45.66 Aligned_cols=27 Identities=26% Similarity=0.352 Sum_probs=24.0
Q ss_pred CcccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 588 LNTASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 588 iNtA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
|-.|+.++|..|+|||+++|+.|+++=
T Consensus 514 l~~a~~e~l~~i~gIG~~~a~si~~~f 540 (562)
T PRK08097 514 LLSRSEQQWQQLPGIGEGRARQLIAFL 540 (562)
T ss_pred HHcCCHHHHhcCCCchHHHHHHHHHHH
Confidence 345789999999999999999999974
No 238
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=52.48 E-value=6.5 Score=42.85 Aligned_cols=28 Identities=25% Similarity=0.351 Sum_probs=18.7
Q ss_pred hhhhhcCC-CCEEEEeeccCCCCCcceec
Q 005372 106 LIPGIFHG-RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 106 lV~~vl~G-~N~tIfAYGqTGSGKTyTm~ 133 (699)
++.+.+.+ .---.+-||+.|+|||.|..
T Consensus 47 ~L~~a~~~~~lp~~LFyGPpGTGKTStal 75 (346)
T KOG0989|consen 47 VLKNALLRRILPHYLFYGPPGTGKTSTAL 75 (346)
T ss_pred HHHHHHhhcCCceEEeeCCCCCcHhHHHH
Confidence 33333333 33446779999999999974
No 239
>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=51.91 E-value=8.5 Score=42.01 Aligned_cols=43 Identities=37% Similarity=0.599 Sum_probs=33.9
Q ss_pred ccCcccCHHHHhcC------CCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 586 DFLNTASREELVEL------KGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 586 v~iNtA~~~eL~~l------pGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
..||+.+.++|..| ---..++|.+|+++|++.||.+-.||.++
T Consensus 137 ~ilN~~se~~L~~I~~~yGee~~a~~IA~~Iv~~R~~~pi~tT~~L~~i 185 (310)
T PF01795_consen 137 DILNTYSEEELARIFREYGEEKFARRIARAIVEARKKKPITTTKELAEI 185 (310)
T ss_dssp HHHHHS-HHHHHHHHHHHH--TTHHHHHHHHHHHHHHSS--BHHHHHHH
T ss_pred HHHHhcCHHHHHHHHHhcCchhHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence 57899999999775 23467999999999999999999999885
No 240
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=51.58 E-value=5.1 Score=39.79 Aligned_cols=27 Identities=26% Similarity=0.335 Sum_probs=18.0
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+++...+.. ...+.-.|++|||||.+|
T Consensus 16 ~~l~~~v~~-g~~i~I~G~tGSGKTTll 42 (186)
T cd01130 16 AYLWLAVEA-RKNILISGGTGSGKTTLL 42 (186)
T ss_pred HHHHHHHhC-CCEEEEECCCCCCHHHHH
Confidence 344444443 234566799999999876
No 241
>KOG2841 consensus Structure-specific endonuclease ERCC1-XPF, ERCC1 component [Replication, recombination and repair]
Probab=51.35 E-value=16 Score=38.29 Aligned_cols=53 Identities=19% Similarity=0.157 Sum_probs=39.2
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhc--C-CCCCHHHHhhc-CCCHHHHHHhhccccc
Q 005372 592 SREELVELKGIGQRLADYICELRQS--S-PVKSLSDLEKI-GLSTKQVYNLFGKAAK 644 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~--~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~~ 644 (699)
-..-|.++|||++.-|+.++..=-. + -=.|.+||.++ |+|+...++|-+-+..
T Consensus 193 ~~~~Lt~i~~VnKtda~~LL~~FgsLq~~~~AS~~ele~~~G~G~~kak~l~~~l~~ 249 (254)
T KOG2841|consen 193 LLGFLTTIPGVNKTDAQLLLQKFGSLQQISNASEGELEQCPGLGPAKAKRLHKFLHQ 249 (254)
T ss_pred HHHHHHhCCCCCcccHHHHHHhcccHHHHHhcCHhHHHhCcCcCHHHHHHHHHHHhc
Confidence 3456899999999999999873110 0 11456788888 9999999998876553
No 242
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=51.26 E-value=12 Score=38.51 Aligned_cols=24 Identities=38% Similarity=0.429 Sum_probs=20.4
Q ss_pred cCHHHHh-cCCCCcHHHHHHHHHHH
Q 005372 591 ASREELV-ELKGIGQRLADYICELR 614 (699)
Q Consensus 591 A~~~eL~-~lpGIG~k~A~~Ii~~R 614 (699)
...++|. .|||||+|.|.-|+-+=
T Consensus 115 ~~R~~Ll~~lpGIG~KTAd~vL~~~ 139 (208)
T PRK01229 115 EAREFLVKNIKGIGYKEASHFLRNV 139 (208)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHHc
Confidence 4568898 99999999999999643
No 243
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=51.03 E-value=4.9 Score=42.08 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=14.9
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005372 114 RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++.++..|..|||||+||.
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 45667777899999999974
No 244
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=50.77 E-value=6.6 Score=40.74 Aligned_cols=22 Identities=27% Similarity=0.501 Sum_probs=16.8
Q ss_pred cCCCCEEEEeeccCCCCCccee
Q 005372 111 FHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 111 l~G~N~tIfAYGqTGSGKTyTm 132 (699)
++.....++-+|+.|+|||+.+
T Consensus 39 ~~~~~~~~~l~G~~G~GKTtl~ 60 (269)
T TIGR03015 39 LSQREGFILITGEVGAGKTTLI 60 (269)
T ss_pred HhcCCCEEEEEcCCCCCHHHHH
Confidence 4444556788999999999765
No 245
>PRK00024 hypothetical protein; Reviewed
Probab=50.58 E-value=14 Score=38.37 Aligned_cols=30 Identities=37% Similarity=0.299 Sum_probs=24.6
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
-.+=.|+.+||..++|||+.+|..|...+|
T Consensus 58 ~~l~~as~~eL~~i~GIG~akA~~L~a~~E 87 (224)
T PRK00024 58 RGLLDASLEELQSIKGIGPAKAAQLKAALE 87 (224)
T ss_pred HHHHhCCHHHHhhccCccHHHHHHHHHHHH
Confidence 344579999999999999999988866554
No 246
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=50.17 E-value=5.3 Score=43.81 Aligned_cols=27 Identities=33% Similarity=0.470 Sum_probs=18.3
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.++..++.+. ..|+-.|.||||||.+|
T Consensus 135 ~~L~~~v~~~-~nilI~G~tGSGKTTll 161 (323)
T PRK13833 135 SVIRSAIDSR-LNIVISGGTGSGKTTLA 161 (323)
T ss_pred HHHHHHHHcC-CeEEEECCCCCCHHHHH
Confidence 3344444432 34678899999999987
No 247
>PRK14670 uvrC excinuclease ABC subunit C; Provisional
Probab=50.16 E-value=13 Score=44.03 Aligned_cols=30 Identities=17% Similarity=0.165 Sum_probs=27.0
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
.-+|=.||.+||..+||||+++|+.|.++=
T Consensus 537 ~~~I~~As~eeL~~v~gi~~~~A~~I~~~l 566 (574)
T PRK14670 537 YKDILLLNEDEIAEKMKINIKMAKKIKKFA 566 (574)
T ss_pred HHHHHhCCHHHHHhCCCCCHHHHHHHHHHH
Confidence 467779999999999999999999998864
No 248
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=50.00 E-value=17 Score=34.30 Aligned_cols=43 Identities=23% Similarity=0.397 Sum_probs=31.3
Q ss_pred HHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 595 ELVELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 595 eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
.|..|.|||..+|+.|++.= .++.=.++ .++..++++|++.+-
T Consensus 18 ALt~IyGIG~~~a~~I~~~~------gi~~~~r~~eLteeei~~ir~~i~ 61 (121)
T COG0099 18 ALTYIYGIGRRRAKEICKKA------GIDPDKRVGELTEEEIERLRDAIQ 61 (121)
T ss_pred hhhhhccccHHHHHHHHHHc------CCCHhHhhccCCHHHHHHHHHHHH
Confidence 58899999999999999865 23333455 567777777766544
No 249
>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=49.95 E-value=5.6 Score=37.06 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=13.0
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|+-+|++|+|||+.+
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 678999999999754
No 250
>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=49.37 E-value=7.6 Score=38.97 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=14.0
Q ss_pred CCEEEEeeccCCCCCccee
Q 005372 114 RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm 132 (699)
.-..+|..|+.|||||+.+
T Consensus 14 ~P~~~i~aG~~GsGKSt~~ 32 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLA 32 (199)
T ss_dssp S-EEEEEES-TTSTTHHHH
T ss_pred CCEEEEEeCCCCCCHHHHH
Confidence 3456889999999999765
No 251
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=49.06 E-value=7.2 Score=41.68 Aligned_cols=17 Identities=41% Similarity=0.569 Sum_probs=14.2
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.|.-.|++|+|||+|+.
T Consensus 196 vi~~vGptGvGKTTt~~ 212 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLA 212 (282)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 56666999999999975
No 252
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=48.76 E-value=19 Score=43.72 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=15.0
Q ss_pred CCCchHHHHHHHHHhhhcC
Q 005372 138 RPGLMPLAMSKILSICQST 156 (699)
Q Consensus 138 ~~GIipral~~LF~~~~~~ 156 (699)
..|++.|.+.+|+..+...
T Consensus 786 SGGVMDRVVSQLLAELDgl 804 (953)
T KOG0736|consen 786 SGGVMDRVVSQLLAELDGL 804 (953)
T ss_pred ccccHHHHHHHHHHHhhcc
Confidence 3589999999999877653
No 253
>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=48.58 E-value=39 Score=40.79 Aligned_cols=22 Identities=32% Similarity=0.498 Sum_probs=20.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|-||+.-|.+|||||.+..
T Consensus 83 ~~~~QsIiisGESGaGKTe~~K 104 (674)
T cd01378 83 ENENQCVIISGESGAGKTEAAK 104 (674)
T ss_pred cCCCceEEEEcCCCCCcchHHH
Confidence 5899999999999999999863
No 254
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=48.40 E-value=8 Score=39.72 Aligned_cols=19 Identities=37% Similarity=0.643 Sum_probs=13.3
Q ss_pred CCEEEEeeccCCCCCccee
Q 005372 114 RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm 132 (699)
.+-.+++.|+.||||||.-
T Consensus 18 ~~~~v~~~G~AGTGKT~LA 36 (205)
T PF02562_consen 18 NNDLVIVNGPAGTGKTFLA 36 (205)
T ss_dssp H-SEEEEE--TTSSTTHHH
T ss_pred hCCeEEEECCCCCcHHHHH
Confidence 4457899999999999864
No 255
>PHA00649 hypothetical protein
Probab=48.35 E-value=28 Score=29.73 Aligned_cols=18 Identities=33% Similarity=0.505 Sum_probs=13.6
Q ss_pred CCCCCCCCchhhhhhhHH
Q 005372 648 DRPESATPSCQETFSAAW 665 (699)
Q Consensus 648 ~~~~~~~~~~~~~~~~~~ 665 (699)
+|.+-|+|.||+++--|.
T Consensus 2 sdqhcdtpacqEAA~rAV 19 (83)
T PHA00649 2 SDQHCDTPACQEAADRAV 19 (83)
T ss_pred CcccCCchHHHHHHHHHH
Confidence 466778999999876553
No 256
>PHA00729 NTP-binding motif containing protein
Probab=48.21 E-value=9.5 Score=39.79 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=19.2
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+++.+..|--..|+.+|.+|+||||...
T Consensus 8 ~~~~l~~~~f~nIlItG~pGvGKT~LA~ 35 (226)
T PHA00729 8 IVSAYNNNGFVSAVIFGKQGSGKTTYAL 35 (226)
T ss_pred HHHHHhcCCeEEEEEECCCCCCHHHHHH
Confidence 3444443333478999999999998653
No 257
>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=47.95 E-value=76 Score=38.55 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=20.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|.||+.-|.+|||||.+..
T Consensus 88 ~~~~QsIiiSGESGAGKTes~K 109 (693)
T cd01377 88 DRENQSILITGESGAGKTENTK 109 (693)
T ss_pred cCCCceEEEEcCCCCCchHHHH
Confidence 5899999999999999999863
No 258
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=47.89 E-value=7.3 Score=43.08 Aligned_cols=28 Identities=32% Similarity=0.474 Sum_probs=18.7
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceec
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.++..++.+ ...|+..|+||||||.+|.
T Consensus 153 ~~l~~~v~~-~~nilI~G~tGSGKTTll~ 180 (344)
T PRK13851 153 AFLHACVVG-RLTMLLCGPTGSGKTTMSK 180 (344)
T ss_pred HHHHHHHHc-CCeEEEECCCCccHHHHHH
Confidence 344444432 3446778999999999873
No 259
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=47.85 E-value=10 Score=45.80 Aligned_cols=45 Identities=24% Similarity=0.318 Sum_probs=27.0
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHHhhcCCC
Q 005372 587 FLNTASREELVELKGIGQRLADYICELRQSS-PVKSLSDLEKIGLS 631 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL~~vGi~ 631 (699)
+|-.|+.++|..++|||++.|+.|.++=... -..-+++|.+.|+.
T Consensus 553 ~L~~As~eeL~~i~GIG~k~A~sI~~ff~~~~n~~~i~~L~~~Gv~ 598 (689)
T PRK14351 553 AIMDADEEALRAVDDVGPTVAEEIREFFDSERNRAVIDDLLDHGVD 598 (689)
T ss_pred HHHhCCHHHHhccCCcCHHHHHHHHHHHhhhHHHHHHHHHHhcccc
Confidence 3445777777777777777777777763322 33344455544553
No 260
>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=47.85 E-value=20 Score=27.58 Aligned_cols=26 Identities=19% Similarity=0.296 Sum_probs=22.2
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHH
Q 005372 587 FLNTASREELVELKGIGQRLADYICE 612 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~ 612 (699)
.+=.++.++|..++||++..|.+|+.
T Consensus 19 ~la~~~~~eL~~i~g~~~e~a~~ii~ 44 (50)
T TIGR01954 19 DLAYVPIDELLSIEGFDEETAKELIN 44 (50)
T ss_pred HHHccCHHHHhcCCCCCHHHHHHHHH
Confidence 34478899999999999999999875
No 261
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=47.72 E-value=7.5 Score=34.98 Aligned_cols=15 Identities=40% Similarity=0.423 Sum_probs=12.7
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|+-.|.+|||||+..
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 567899999999864
No 262
>PRK13482 DNA integrity scanning protein DisA; Provisional
Probab=47.62 E-value=15 Score=40.73 Aligned_cols=28 Identities=43% Similarity=0.348 Sum_probs=23.7
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-+|=.|+.++|+.++|||+++|..|-+.
T Consensus 311 ~~Il~As~eeL~~VeGIGe~rA~~I~e~ 338 (352)
T PRK13482 311 QGLLAASIEDLDEVEGIGEVRARAIREG 338 (352)
T ss_pred HHHHcCCHHHHhhCCCcCHHHHHHHHHH
Confidence 3445899999999999999999997653
No 263
>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=47.57 E-value=8.7 Score=38.08 Aligned_cols=17 Identities=29% Similarity=0.431 Sum_probs=14.4
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+.++-+|+||+|||++.
T Consensus 4 ~~~ll~GpsGvGKT~la 20 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELA 20 (171)
T ss_dssp EEEEEESSTTSSHHHHH
T ss_pred EEEEEECCCCCCHHHHH
Confidence 46788999999999854
No 264
>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=47.50 E-value=48 Score=40.41 Aligned_cols=22 Identities=23% Similarity=0.404 Sum_probs=20.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|.||+.-|.+|||||.+.-
T Consensus 88 ~~~~QsIiisGESGaGKTes~K 109 (717)
T cd01382 88 LKMSQSIIVSGESGAGKTENTK 109 (717)
T ss_pred cCCCCeEEEecCCCCChhHHHH
Confidence 5899999999999999999863
No 265
>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=47.34 E-value=46 Score=40.25 Aligned_cols=22 Identities=32% Similarity=0.567 Sum_probs=20.0
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|.||+.-|.+|||||.+..
T Consensus 83 ~~~~QsIiisGESGaGKTe~~k 104 (679)
T cd00124 83 DRRNQSIIISGESGAGKTENTK 104 (679)
T ss_pred cCCCceEEEecCCCCCchHHHH
Confidence 5899999999999999999863
No 266
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=47.12 E-value=9 Score=40.95 Aligned_cols=19 Identities=21% Similarity=0.321 Sum_probs=15.4
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...++-||++|+|||+.+.
T Consensus 43 ~~~lll~G~~G~GKT~la~ 61 (316)
T PHA02544 43 PNMLLHSPSPGTGKTTVAK 61 (316)
T ss_pred CeEEEeeCcCCCCHHHHHH
Confidence 4567779999999999763
No 267
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=47.01 E-value=26 Score=40.44 Aligned_cols=26 Identities=31% Similarity=0.482 Sum_probs=20.2
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCcc
Q 005372 105 PLIPGIFHG---RNATVFAYGATGSGKTY 130 (699)
Q Consensus 105 plV~~vl~G---~N~tIfAYGqTGSGKTy 130 (699)
+=+|.++.| .+.+++-+|++|||||.
T Consensus 8 ~gLD~il~GGlp~g~~~Li~G~pGsGKT~ 36 (484)
T TIGR02655 8 EGFDDISHGGLPIGRSTLVSGTSGTGKTL 36 (484)
T ss_pred hhHHHhcCCCCCCCeEEEEEcCCCCCHHH
Confidence 345667764 36889999999999995
No 268
>PRK06547 hypothetical protein; Provisional
Probab=46.89 E-value=11 Score=37.35 Aligned_cols=27 Identities=33% Similarity=0.415 Sum_probs=18.3
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
++..+..+.---|.-+|.+|||||+.-
T Consensus 6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a 32 (172)
T PRK06547 6 IAARLCGGGMITVLIDGRSGSGKTTLA 32 (172)
T ss_pred HHHHhhcCCCEEEEEECCCCCCHHHHH
Confidence 344444455556677799999999753
No 269
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=46.54 E-value=5.8 Score=44.41 Aligned_cols=51 Identities=25% Similarity=0.402 Sum_probs=29.0
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhh-hcC--C--CCEEEEeeccCCCCCccee
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--G--RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~-vl~--G--~N~tIfAYGqTGSGKTyTm 132 (699)
.+.||.+.+-+. .-+++.+....|+... .+. | ....|+-||++|+|||+..
T Consensus 127 ~~~~~di~Gl~~-~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lA 182 (389)
T PRK03992 127 NVTYEDIGGLEE-QIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLA 182 (389)
T ss_pred CCCHHHhCCcHH-HHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHH
Confidence 366777766542 3244444333343331 222 1 2345888999999999754
No 270
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=46.53 E-value=9.2 Score=37.78 Aligned_cols=22 Identities=45% Similarity=0.751 Sum_probs=16.5
Q ss_pred hhhcCCCCEEEEeeccCCCCCcce
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
+.+++|.| ++..++||+|||.+
T Consensus 31 ~~~~~~~~--~li~~~TG~GKT~~ 52 (203)
T cd00268 31 PPLLSGRD--VIGQAQTGSGKTAA 52 (203)
T ss_pred HHHhcCCc--EEEECCCCCcHHHH
Confidence 34445777 46778999999987
No 271
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=46.49 E-value=8.5 Score=44.92 Aligned_cols=31 Identities=32% Similarity=0.583 Sum_probs=23.3
Q ss_pred hccchhhhhcCCCC--EEEEeeccCCCCCccee
Q 005372 102 EVNPLIPGIFHGRN--ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 102 ~v~plV~~vl~G~N--~tIfAYGqTGSGKTyTm 132 (699)
.|+..++..+.|.. ..++.+|++|+|||.|+
T Consensus 30 eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 30 EVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTV 62 (519)
T ss_pred HHHHHHHHHhccCCCcceEEEECCCCCCHHHHH
Confidence 35566666665543 46788999999999997
No 272
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=46.47 E-value=7 Score=43.16 Aligned_cols=27 Identities=30% Similarity=0.422 Sum_probs=20.3
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.++..++++. +.|+-.|.||||||.++
T Consensus 164 ~~L~~av~~r-~NILisGGTGSGKTTlL 190 (355)
T COG4962 164 KFLRRAVGIR-CNILISGGTGSGKTTLL 190 (355)
T ss_pred HHHHHHHhhc-eeEEEeCCCCCCHHHHH
Confidence 3444555555 77888999999999887
No 273
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=46.23 E-value=8.2 Score=40.47 Aligned_cols=18 Identities=28% Similarity=0.348 Sum_probs=14.8
Q ss_pred CEEEEeeccCCCCCccee
Q 005372 115 NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm 132 (699)
...++-||++|+|||++.
T Consensus 42 ~~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVA 59 (261)
T ss_pred cceEEEEcCCCCCHHHHH
Confidence 345778999999999875
No 274
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=45.76 E-value=9.5 Score=42.90 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=16.4
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...|+.+|+||+|||.|+.
T Consensus 174 ~~vi~lvGptGvGKTTT~a 192 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIA 192 (388)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 4578889999999999974
No 275
>PRK10702 endonuclease III; Provisional
Probab=45.67 E-value=23 Score=36.50 Aligned_cols=58 Identities=19% Similarity=0.232 Sum_probs=39.4
Q ss_pred ccCcccCHHHHhc-CCCCc--HHHHH-------HHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 586 DFLNTASREELVE-LKGIG--QRLAD-------YICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 586 v~iNtA~~~eL~~-lpGIG--~k~A~-------~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
-.|-.|+.++|+. |.|+| ..+|+ .|++.....--.+.++|.++ |||+++..-+.-...
T Consensus 62 e~l~~a~~~~l~~~i~~~G~y~~kA~~l~~~a~~i~~~~~~~~p~~~~~Ll~lpGVG~ktA~~ill~a~ 130 (211)
T PRK10702 62 AAMLELGVEGVKTYIKTIGLYNSKAENVIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAF 130 (211)
T ss_pred HHHHCCCHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCCchHHHHhcCCcccHHHHHHHHHHHc
Confidence 4566788999976 67778 34444 44443222223688999999 999999888765443
No 276
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=45.60 E-value=5.5 Score=44.18 Aligned_cols=43 Identities=26% Similarity=0.505 Sum_probs=27.9
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|+.|.+++. +-. -|+..+.+-.-+.|+-+|.+|||||+.+
T Consensus 13 ~~pf~~ivGq~~-----~k~----al~~~~~~p~~~~vli~G~~GtGKs~~a 55 (350)
T CHL00081 13 VFPFTAIVGQEE-----MKL----ALILNVIDPKIGGVMIMGDRGTGKSTTI 55 (350)
T ss_pred CCCHHHHhChHH-----HHH----HHHHhccCCCCCeEEEEcCCCCCHHHHH
Confidence 699999998653 222 2233333322235779999999999875
No 277
>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=45.32 E-value=13 Score=37.15 Aligned_cols=24 Identities=33% Similarity=0.534 Sum_probs=18.3
Q ss_pred hhhcCCC---CEEEEeeccCCCCCcce
Q 005372 108 PGIFHGR---NATVFAYGATGSGKTYT 131 (699)
Q Consensus 108 ~~vl~G~---N~tIfAYGqTGSGKTyT 131 (699)
|.++.|- ...+.-||++|||||..
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 4455544 67788999999999964
No 278
>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=45.20 E-value=18 Score=42.86 Aligned_cols=31 Identities=19% Similarity=0.407 Sum_probs=27.3
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 592 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
-...|..|||||+++.+++++ -|.|++++.+
T Consensus 539 ~~S~Ld~I~GIG~kr~~~LL~-----~Fgs~~~i~~ 569 (574)
T TIGR00194 539 LQSPLLKIPGVGEKRVQKLLK-----YFGSLKGIKK 569 (574)
T ss_pred HHHHHhcCCCCCHHHHHHHHH-----HcCCHHHHHh
Confidence 346899999999999999998 5999999875
No 279
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=45.20 E-value=9.4 Score=43.36 Aligned_cols=22 Identities=50% Similarity=0.788 Sum_probs=17.4
Q ss_pred hhhcCCCCEEEEeeccCCCCCcce
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
..+++|.| ++..++||||||.+
T Consensus 36 ~~~l~g~d--vi~~a~TGsGKT~a 57 (460)
T PRK11776 36 PAILAGKD--VIAQAKTGSGKTAA 57 (460)
T ss_pred HHHhcCCC--EEEECCCCCcHHHH
Confidence 34567887 67778999999975
No 280
>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=44.94 E-value=52 Score=39.80 Aligned_cols=22 Identities=32% Similarity=0.667 Sum_probs=20.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|.||+.-|.+|||||.+..
T Consensus 85 ~~~~QsIiisGESGaGKTe~~K 106 (674)
T cd01384 85 EGKSQSILVSGESGAGKTETTK 106 (674)
T ss_pred cCCCceEEEECCCCCCchhHHH
Confidence 5899999999999999999863
No 281
>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=44.93 E-value=14 Score=32.33 Aligned_cols=32 Identities=22% Similarity=0.544 Sum_probs=20.6
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcC
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIG 629 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vG 629 (699)
..|..||+||+++.+...+. +..+++||.++|
T Consensus 3 ~~l~~LpNig~~~e~~L~~v----GI~t~~~L~~~G 34 (81)
T PF04994_consen 3 NRLKDLPNIGPKSERMLAKV----GIHTVEDLRELG 34 (81)
T ss_dssp --GCGSTT--HHHHHHHHHT----T--SHHHHHHHH
T ss_pred cchhhCCCCCHHHHHHHHHc----CCCCHHHHHHhC
Confidence 46889999999998755443 788888888876
No 282
>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=44.79 E-value=32 Score=35.53 Aligned_cols=47 Identities=19% Similarity=0.241 Sum_probs=29.5
Q ss_pred hhhhhcC-CC--CEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEE
Q 005372 106 LIPGIFH-GR--NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYY 165 (699)
Q Consensus 106 lV~~vl~-G~--N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~ 165 (699)
-+|.++. |+ ..+++-+|.+|+|||. .+++-++..++.....+.+|+-
T Consensus 9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~-------------la~~~l~~~~~~ge~~lyvs~e 58 (237)
T TIGR03877 9 GMDEILHGGIPERNVVLLSGGPGTGKSI-------------FSQQFLWNGLQMGEPGIYVALE 58 (237)
T ss_pred hHHHHhcCCCcCCeEEEEEcCCCCCHHH-------------HHHHHHHHHHHcCCcEEEEEee
Confidence 3455554 43 5678889999999985 2344555555444455566643
No 283
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=44.61 E-value=9.6 Score=40.84 Aligned_cols=17 Identities=41% Similarity=0.724 Sum_probs=14.0
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
-.|+-||++|+|||++-
T Consensus 152 knVLFyGppGTGKTm~A 168 (368)
T COG1223 152 KNVLFYGPPGTGKTMMA 168 (368)
T ss_pred ceeEEECCCCccHHHHH
Confidence 46788999999999753
No 284
>PTZ00424 helicase 45; Provisional
Probab=44.48 E-value=9.3 Score=42.15 Aligned_cols=25 Identities=32% Similarity=0.472 Sum_probs=18.8
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.+..+++|.|. +..++||||||.+.
T Consensus 58 ai~~i~~~~d~--ii~apTGsGKT~~~ 82 (401)
T PTZ00424 58 GIKPILDGYDT--IGQAQSGTGKTATF 82 (401)
T ss_pred HHHHHhCCCCE--EEECCCCChHHHHH
Confidence 34556788885 46789999999764
No 285
>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=43.94 E-value=9.6 Score=45.38 Aligned_cols=42 Identities=24% Similarity=0.373 Sum_probs=29.1
Q ss_pred eeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
..||.+++++. ... .++..+..++...++-||++|+|||+..
T Consensus 151 ~~~~~iiGqs~-----~~~----~l~~~ia~~~~~~vlL~Gp~GtGKTTLA 192 (615)
T TIGR02903 151 RAFSEIVGQER-----AIK----ALLAKVASPFPQHIILYGPPGVGKTTAA 192 (615)
T ss_pred CcHHhceeCcH-----HHH----HHHHHHhcCCCCeEEEECCCCCCHHHHH
Confidence 57888887542 222 2344555677777888999999999764
No 286
>PF14635 HHH_7: Helix-hairpin-helix motif ; PDB: 3PSI_A 3PSF_A.
Probab=43.64 E-value=36 Score=31.38 Aligned_cols=54 Identities=20% Similarity=0.121 Sum_probs=34.7
Q ss_pred ccccCcccCH-----HHHhcCCCCcHHHHHHHHHHHhcC--CCCCHHHHhhc-CCCHHHHHH
Q 005372 584 YIDFLNTASR-----EELVELKGIGQRLADYICELRQSS--PVKSLSDLEKI-GLSTKQVYN 637 (699)
Q Consensus 584 ~~v~iNtA~~-----~eL~~lpGIG~k~A~~Ii~~R~~~--pf~~~~dL~~v-Gi~~~~~~~ 637 (699)
.=|+||.|-. ..|+-+.|.||.+|.++++.=+.. ...+-+||... .+|++...+
T Consensus 35 vGVDIN~a~~~~~~~~~LqfV~GLGPRKA~~Ll~~l~~~g~~l~~R~~Lv~~~~~g~~Vf~N 96 (104)
T PF14635_consen 35 VGVDINRAVSHPHLANLLQFVCGLGPRKAQALLKALKQNGGRLENRSQLVTKCLMGPKVFIN 96 (104)
T ss_dssp H-EEHHHHCT-HHHHGGGGGSTT--HHHHHHHHHHHHHC-S----TTHHHHTTSS-HHHHHH
T ss_pred hCccHHHHhcChHHHhhHhHhcCCChHHHHHHHHHHHHcCCccccHHHHHhcCCCCCeEEEe
Confidence 3478886643 457889999999999999876644 78899999887 577765443
No 287
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=43.54 E-value=10 Score=42.52 Aligned_cols=19 Identities=37% Similarity=0.429 Sum_probs=15.8
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...+.-+|+||+|||+|+.
T Consensus 137 g~ii~lvGptGvGKTTtia 155 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTA 155 (374)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 4567789999999999974
No 288
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=43.35 E-value=24 Score=39.31 Aligned_cols=41 Identities=34% Similarity=0.588 Sum_probs=29.4
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCcceeccC------CCCCCchHHHHH
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTMQGS------EERPGLMPLAMS 147 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm~G~------~~~~GIipral~ 147 (699)
..|..+++|.+| +....||||||..+-++ .+..|+...++.
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 356778999998 56678999999998774 334466555443
No 289
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=43.10 E-value=23 Score=34.31 Aligned_cols=15 Identities=33% Similarity=0.483 Sum_probs=12.5
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
++.+|.+|+|||...
T Consensus 2 ~li~G~~G~GKT~l~ 16 (187)
T cd01124 2 TLLSGGPGTGKTTFA 16 (187)
T ss_pred EEEEcCCCCCHHHHH
Confidence 577999999999743
No 290
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=42.93 E-value=33 Score=40.56 Aligned_cols=41 Identities=20% Similarity=0.176 Sum_probs=28.1
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 587 FLNTASREELVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
+|=+.+.++|..++|+|+|.|+.|++.=++..=..++-|.-
T Consensus 452 Diy~L~~~~l~~l~gfgeks~~nll~aIe~sk~~~l~r~l~ 492 (562)
T PRK08097 452 SWLALTPEQLANTPGIGKARAEQLWHQFNLARQQPFSRWLK 492 (562)
T ss_pred HHhcCCHHHHhcCcCccHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 33355688999999999999999988755332233344433
No 291
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=42.89 E-value=17 Score=43.29 Aligned_cols=48 Identities=29% Similarity=0.389 Sum_probs=35.8
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHHhcCCCC-CHHHHhhcCCCHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELRQSSPVK-SLSDLEKIGLSTK 633 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~-~~~dL~~vGi~~~ 633 (699)
-+|=.|+.++|..|||||+++|+.|+++-..--.+ -+++|...|+..+
T Consensus 535 ~~l~~a~~e~l~~i~giG~~vA~si~~ff~~~~~~~li~~L~~~g~~~~ 583 (667)
T COG0272 535 EALLAASEEELASIPGIGEVVARSIIEFFANEENRELIDELLAAGVKWE 583 (667)
T ss_pred HHHHhcCHHHHhhccchhHHHHHHHHHHHcCHHHHHHHHHHHHcCCCcc
Confidence 55668999999999999999999999998544232 4455555565443
No 292
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=42.86 E-value=22 Score=36.13 Aligned_cols=46 Identities=26% Similarity=0.388 Sum_probs=28.7
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc-CCceeEEE
Q 005372 105 PLIPGIFHG---RNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-TGSTAEIS 163 (699)
Q Consensus 105 plV~~vl~G---~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~-~~~~v~vS 163 (699)
+-+|.++.| .+..++.+|++|||||. .+++-+++.+.+ ....+.+|
T Consensus 6 ~~LD~~l~GGip~gs~~li~G~~GsGKT~-------------l~~q~l~~~~~~~ge~vlyvs 55 (226)
T PF06745_consen 6 PGLDELLGGGIPKGSVVLISGPPGSGKTT-------------LALQFLYNGLKNFGEKVLYVS 55 (226)
T ss_dssp TTHHHHTTTSEETTSEEEEEESTTSSHHH-------------HHHHHHHHHHHHHT--EEEEE
T ss_pred hhHHHhhcCCCCCCcEEEEEeCCCCCcHH-------------HHHHHHHHhhhhcCCcEEEEE
Confidence 345666643 36788999999999985 345556665555 44444444
No 293
>PF01367 5_3_exonuc: 5'-3' exonuclease, C-terminal SAM fold; InterPro: IPR020045 This entry represents the C-terminal domain of 5' to 3' exonucleases. The 5'-3' exonucleases are conserved in organisms as diverse as bacteriophage and mammals. It adopts a SAM fold consisting of 4-5 helices packed into a bundle of two orthogonally packed alpha-hairpins. This domain is involved in interactions with DNA and proteins. 5' to 3' exonucleases that contain this domain include: Bacteriophage T4 RNase H, which has sequence similarity to the RAD2 family of eukaryotic proteins []. 5' to 3' exonuclease domain of DNA polymerase Taq, which is homologous to Escherichia coli DNA polymerase I (pol I) [, ]. Bacteriophage T5 5'-exonuclease, which are structure-specific endonucleases []. Flap endonuclease-1 (Fen-1 nuclease), a structure specific nuclease that is an essential enzyme for eukaryotic DNA replication and repair []. ; GO: 0003677 DNA binding, 0003824 catalytic activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B.
Probab=42.82 E-value=1.1 Score=41.00 Aligned_cols=27 Identities=22% Similarity=0.351 Sum_probs=19.9
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
+-.+||||+|.|.++|+ -|.++|++.+
T Consensus 20 IPGV~GIG~KtA~~LL~-----~ygsle~i~~ 46 (101)
T PF01367_consen 20 IPGVPGIGPKTAAKLLQ-----EYGSLENILA 46 (101)
T ss_dssp B---TTSTCHCCCCCHH-----HHTSCHCCCC
T ss_pred CCCCCCCCHHHHHHHHH-----HcCCHHHHHH
Confidence 45689999999999998 4777777755
No 294
>PRK03980 flap endonuclease-1; Provisional
Probab=42.61 E-value=17 Score=39.27 Aligned_cols=26 Identities=23% Similarity=0.281 Sum_probs=23.4
Q ss_pred cCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 598 ELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 598 ~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
.|||||+|+|-++|. -|.++|++.+.
T Consensus 193 GI~GIG~ktA~kLi~-----~~~sle~i~~~ 218 (292)
T PRK03980 193 GIKGIGPKTALKLIK-----KHGDLEKVLEE 218 (292)
T ss_pred CCCCccHHHHHHHHH-----HCCCHHHHHHh
Confidence 789999999999997 68999999874
No 295
>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=41.95 E-value=22 Score=29.86 Aligned_cols=27 Identities=30% Similarity=0.356 Sum_probs=20.8
Q ss_pred cCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 587 FLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 587 ~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
+|=..+.++|..++|+|++..+.|.+.
T Consensus 37 dL~~~s~~~L~~i~n~G~ksl~EI~~~ 63 (66)
T PF03118_consen 37 DLVKYSEEDLLKIKNFGKKSLEEIKEK 63 (66)
T ss_dssp HHHCS-HHHHHTSTTSHHHHHHHHHHH
T ss_pred HHHhCCHHHHHhCCCCCHhHHHHHHHH
Confidence 344668899999999999999888764
No 296
>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=41.81 E-value=28 Score=29.82 Aligned_cols=46 Identities=26% Similarity=0.381 Sum_probs=33.8
Q ss_pred cCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 598 ELKGIGQRLADYICELRQSSPVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 598 ~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
.++.--+++|+.|+++....++-++.||.+. |+++..+-++-.++=
T Consensus 13 ~ls~~e~~Ia~yil~~~~~~~~~si~elA~~~~vS~sti~Rf~kkLG 59 (77)
T PF01418_consen 13 SLSPTEKKIADYILENPDEIAFMSISELAEKAGVSPSTIVRFCKKLG 59 (77)
T ss_dssp GS-HHHHHHHHHHHH-HHHHCT--HHHHHHHCTS-HHHHHHHHHHCT
T ss_pred hCCHHHHHHHHHHHhCHHHHHHccHHHHHHHcCCCHHHHHHHHHHhC
Confidence 3444457899999999988899999999996 999999988877654
No 297
>PF05729 NACHT: NACHT domain
Probab=41.47 E-value=12 Score=35.06 Aligned_cols=16 Identities=31% Similarity=0.607 Sum_probs=13.7
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.++-+|..|+|||..|
T Consensus 2 ~l~I~G~~G~GKStll 17 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLL 17 (166)
T ss_pred EEEEECCCCCChHHHH
Confidence 3678999999999866
No 298
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=41.44 E-value=12 Score=42.10 Aligned_cols=24 Identities=42% Similarity=0.733 Sum_probs=18.8
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+..+++|.| +++.++||||||.+.
T Consensus 32 i~~~~~g~d--~l~~apTGsGKT~~~ 55 (434)
T PRK11192 32 IPPALDGRD--VLGSAPTGTGKTAAF 55 (434)
T ss_pred HHHHhCCCC--EEEECCCCChHHHHH
Confidence 445667877 788899999999863
No 299
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=41.40 E-value=9.7 Score=41.87 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=18.3
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.++..++.+. ..|+..|.||||||.+|
T Consensus 151 ~~L~~~v~~~-~nili~G~tgSGKTTll 177 (332)
T PRK13900 151 EFLEHAVISK-KNIIISGGTSTGKTTFT 177 (332)
T ss_pred HHHHHHHHcC-CcEEEECCCCCCHHHHH
Confidence 4444444432 34677899999999876
No 300
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=41.32 E-value=22 Score=44.33 Aligned_cols=31 Identities=23% Similarity=0.448 Sum_probs=25.6
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCC
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLS 631 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~ 631 (699)
+-.+||||+|.|.++|+ .|.++|++.+ + -|.
T Consensus 187 IpGVpGIG~KtA~kLL~-----~ygsle~i~~~~~~i~ 219 (887)
T TIGR00593 187 IPGVKGIGEKTAAKLLQ-----EFGSLENIYENLDQIK 219 (887)
T ss_pred CCCCCCcCHHHHHHHHH-----HcCCHHHHHHHHHHhc
Confidence 34689999999999998 6899999966 4 554
No 301
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=40.69 E-value=11 Score=41.46 Aligned_cols=51 Identities=27% Similarity=0.397 Sum_probs=28.6
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhh-hcC--CC--CEEEEeeccCCCCCccee
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--GR--NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~-vl~--G~--N~tIfAYGqTGSGKTyTm 132 (699)
.+.||.+.+-+. .-+++.+....|+... .+. |. ...|+-||++|+|||+..
T Consensus 118 ~~~~~di~Gl~~-~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~la 173 (364)
T TIGR01242 118 NVSYEDIGGLEE-QIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLA 173 (364)
T ss_pred CCCHHHhCChHH-HHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 467777776542 3234443333333321 111 21 335888999999999865
No 302
>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=40.64 E-value=11 Score=35.03 Aligned_cols=16 Identities=44% Similarity=0.735 Sum_probs=13.0
Q ss_pred EEeeccCCCCCcceec
Q 005372 118 VFAYGATGSGKTYTMQ 133 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~ 133 (699)
++-+|++|+|||+.+.
T Consensus 2 ~~i~G~~G~GKT~l~~ 17 (165)
T cd01120 2 ILVFGPTGSGKTTLAL 17 (165)
T ss_pred eeEeCCCCCCHHHHHH
Confidence 4569999999998653
No 303
>PRK13764 ATPase; Provisional
Probab=40.42 E-value=10 Score=44.94 Aligned_cols=19 Identities=32% Similarity=0.469 Sum_probs=16.0
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...|+..|+||||||+++.
T Consensus 257 ~~~ILIsG~TGSGKTTll~ 275 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQ 275 (602)
T ss_pred CCEEEEECCCCCCHHHHHH
Confidence 4458999999999999874
No 304
>PRK00254 ski2-like helicase; Provisional
Probab=39.97 E-value=19 Score=43.62 Aligned_cols=29 Identities=28% Similarity=0.489 Sum_probs=26.0
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
+-+|-.|+.++|..+||||+++|+.|.++
T Consensus 669 ~~~i~~a~~~el~~~~gi~~~~a~~i~~~ 697 (720)
T PRK00254 669 IEDIVNAKPSELLKVEGIGAKIVEGIFKH 697 (720)
T ss_pred HHHHHhCCHHHHhcCCCCCHHHHHHHHHH
Confidence 45667899999999999999999999886
No 305
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=39.89 E-value=10 Score=41.35 Aligned_cols=63 Identities=24% Similarity=0.424 Sum_probs=38.4
Q ss_pred EEEeeccCCCCCcceecc---C-------------CCCCCchHHHHHHHHH--hhhc------CC-----------ceeE
Q 005372 117 TVFAYGATGSGKTYTMQG---S-------------EERPGLMPLAMSKILS--ICQS------TG-----------STAE 161 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~G---~-------------~~~~GIipral~~LF~--~~~~------~~-----------~~v~ 161 (699)
-...||+|||||++.+-. . ..+.|+||--=...++ .++. .+ .-|+
T Consensus 89 I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~mIpp~E~~aW~~Ql~EgNY~~~~~gTi~P~t~t~~P~Fv~ 168 (369)
T PF02456_consen 89 IGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKDMIPPQEITAWETQLCEGNYDCGPDGTIVPQTGTFRPKFVE 168 (369)
T ss_pred EEEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCCCCCHHHHHHHHHHHHhcCCCCCCCCeecccccccccccee
Confidence 345699999999998742 1 1356888765444443 1211 11 1356
Q ss_pred EEEEEEecceeeeccCCC
Q 005372 162 ISYYEVYMDRCYDLLEVK 179 (699)
Q Consensus 162 vS~~EIYnE~v~DLL~~~ 179 (699)
++|=|.-.+.=+|.=+|+
T Consensus 169 msy~e~t~~~NldI~~p~ 186 (369)
T PF02456_consen 169 MSYDEATSPENLDITNPN 186 (369)
T ss_pred ecHhhhCCccccCCCCch
Confidence 777777777777876654
No 306
>PLN03025 replication factor C subunit; Provisional
Probab=39.73 E-value=13 Score=40.21 Aligned_cols=17 Identities=29% Similarity=0.552 Sum_probs=14.2
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
-++-||+.|+|||++..
T Consensus 36 ~lll~Gp~G~GKTtla~ 52 (319)
T PLN03025 36 NLILSGPPGTGKTTSIL 52 (319)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 35669999999999865
No 307
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.69 E-value=28 Score=44.07 Aligned_cols=17 Identities=35% Similarity=0.565 Sum_probs=13.7
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+.+.-+|+||||||..|
T Consensus 27 gl~~I~G~nGaGKSTil 43 (1042)
T TIGR00618 27 PIFLICGKTGAGKTTLL 43 (1042)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 45567899999999765
No 308
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=39.60 E-value=13 Score=42.65 Aligned_cols=29 Identities=17% Similarity=0.252 Sum_probs=20.2
Q ss_pred ccCCCceeEEEEEeCCCChhhhHHHHHHHHH
Q 005372 317 SLGGTSHALMVACLNPGEYQESVHTVSLAAR 347 (699)
Q Consensus 317 sLgGnskt~mI~~VSP~~~~ETlsTL~fA~r 347 (699)
.|.-..+..+||+++..+. ++..|.+|-|
T Consensus 319 ~f~iP~Nl~IIgTMNt~Dr--s~~~lD~Alr 347 (459)
T PRK11331 319 RFYVPENVYIIGLMNTADR--SLAVVDYALR 347 (459)
T ss_pred cccCCCCeEEEEecCcccc--chhhccHHHH
Confidence 3555688999999998763 4555666644
No 309
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=39.46 E-value=13 Score=41.72 Aligned_cols=24 Identities=33% Similarity=0.582 Sum_probs=17.9
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+..+++|.|. ++-++||||||.+.
T Consensus 39 ip~il~g~dv--i~~ApTGsGKTla~ 62 (423)
T PRK04837 39 LPLTLAGRDV--AGQAQTGTGKTMAF 62 (423)
T ss_pred HHHHhCCCcE--EEECCCCchHHHHH
Confidence 3456788885 55679999999763
No 310
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=39.45 E-value=14 Score=40.75 Aligned_cols=17 Identities=41% Similarity=0.683 Sum_probs=14.0
Q ss_pred CEEEEeeccCCCCCcce
Q 005372 115 NATVFAYGATGSGKTYT 131 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyT 131 (699)
.+-|+..|+||||||+.
T Consensus 97 KSNILLiGPTGsGKTlL 113 (408)
T COG1219 97 KSNILLIGPTGSGKTLL 113 (408)
T ss_pred eccEEEECCCCCcHHHH
Confidence 35688899999999964
No 311
>PHA02244 ATPase-like protein
Probab=38.85 E-value=15 Score=41.18 Aligned_cols=46 Identities=15% Similarity=0.078 Sum_probs=26.3
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
...||.-|-.........+ ..+...+-.|.+. +-+|++|+|||+..
T Consensus 91 l~~~d~~~ig~sp~~~~~~----~ri~r~l~~~~PV--LL~GppGtGKTtLA 136 (383)
T PHA02244 91 ISGIDTTKIASNPTFHYET----ADIAKIVNANIPV--FLKGGAGSGKNHIA 136 (383)
T ss_pred hhhCCCcccCCCHHHHHHH----HHHHHHHhcCCCE--EEECCCCCCHHHHH
Confidence 4566666654432222233 3333334456654 45899999999754
No 312
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=38.61 E-value=14 Score=42.01 Aligned_cols=24 Identities=42% Similarity=0.785 Sum_probs=18.6
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
|..+++|.| +++..+||||||.+.
T Consensus 32 i~~il~g~d--vlv~apTGsGKTla~ 55 (456)
T PRK10590 32 IPAVLEGRD--LMASAQTGTGKTAGF 55 (456)
T ss_pred HHHHhCCCC--EEEECCCCCcHHHHH
Confidence 445677887 577789999999873
No 313
>PRK14973 DNA topoisomerase I; Provisional
Probab=38.54 E-value=32 Score=43.09 Aligned_cols=49 Identities=29% Similarity=0.422 Sum_probs=37.8
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCCCCC--------HHHHhhc-CCCHHHHHHhhccccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSSPVKS--------LSDLEKI-GLSTKQVYNLFGKAAK 644 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~--------~~dL~~v-Gi~~~~~~~l~~~~~~ 644 (699)
...||..|+|||++.++..... ++.+ +++|.++ ||+.+++.+++.++-.
T Consensus 875 ~~~el~~vkg~ge~t~~~l~~a----g~~~~e~l~~~d~~~la~~~~i~~k~~~~~~~~~~~ 932 (936)
T PRK14973 875 GRAELLSVPGLGETTLEKLYLA----GVYDGDLLVSADPKKLAKVTGIDEKKLRNLQAYAKK 932 (936)
T ss_pred cchhhhhccCCCHHHHHHHHHc----CCCCHHHhccCCHHHHhhhcCCCHHHHHHHHHHHhh
Confidence 3445999999999999765443 5656 6677778 9999999999877643
No 314
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=38.41 E-value=14 Score=39.10 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=15.9
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|...-++-||+.|+|||+++
T Consensus 35 ~~~~~~~ll~G~~G~GKt~~~ 55 (319)
T PRK00440 35 EKNMPHLLFAGPPGTGKTTAA 55 (319)
T ss_pred CCCCCeEEEECCCCCCHHHHH
Confidence 344344688999999999875
No 315
>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=38.05 E-value=13 Score=38.58 Aligned_cols=20 Identities=35% Similarity=0.557 Sum_probs=16.3
Q ss_pred CEEEEeeccCCCCCcceecc
Q 005372 115 NATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~G 134 (699)
...++-||..|+|||++.-+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~ 31 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKY 31 (220)
T ss_pred CcEEEEECCCCCCHHHHHHh
Confidence 34589999999999997643
No 316
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=38.03 E-value=12 Score=45.60 Aligned_cols=22 Identities=32% Similarity=0.542 Sum_probs=17.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.-..++-||++|+|||++..
T Consensus 49 ~~~~~slLL~GPpGtGKTTLA~ 70 (725)
T PRK13341 49 ADRVGSLILYGPPGVGKTTLAR 70 (725)
T ss_pred cCCCceEEEECCCCCCHHHHHH
Confidence 3444567889999999998764
No 317
>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=37.99 E-value=12 Score=40.11 Aligned_cols=19 Identities=37% Similarity=0.574 Sum_probs=17.3
Q ss_pred CCCCEEEEeeccCCCCCcc
Q 005372 112 HGRNATVFAYGATGSGKTY 130 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTy 130 (699)
.|++-+||..|++|+|||.
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 3888999999999999996
No 318
>PRK10536 hypothetical protein; Provisional
Probab=37.89 E-value=14 Score=39.31 Aligned_cols=17 Identities=41% Similarity=0.733 Sum_probs=14.9
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
.-++..|+.||||||..
T Consensus 75 ~lV~i~G~aGTGKT~La 91 (262)
T PRK10536 75 QLIFATGEAGCGKTWIS 91 (262)
T ss_pred CeEEEECCCCCCHHHHH
Confidence 47899999999999864
No 319
>PRK05755 DNA polymerase I; Provisional
Probab=37.74 E-value=27 Score=43.39 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=30.2
Q ss_pred HhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh-c-CCCHHHHHHhhc
Q 005372 596 LVELKGIGQRLADYICELRQSSPVKSLSDLEK-I-GLSTKQVYNLFG 640 (699)
Q Consensus 596 L~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~-v-Gi~~~~~~~l~~ 640 (699)
+-.+||||+|.|..+|+ .|.++|.+.+ + .+..+.-++|..
T Consensus 189 ipGv~GiG~ktA~~Ll~-----~~gsle~i~~~~~~~~~~~~~~l~~ 230 (880)
T PRK05755 189 IPGVPGIGEKTAAKLLQ-----EYGSLEGLYENLDEIKGKKKEKLRE 230 (880)
T ss_pred CCCCCCccHHHHHHHHH-----HcCCHHHHHHhHHHhchHHHHHHHH
Confidence 45789999999999997 6889999976 5 555455444544
No 320
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=37.37 E-value=35 Score=42.02 Aligned_cols=25 Identities=48% Similarity=0.674 Sum_probs=20.7
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.+..+.+|.|+.|+| +||||||-+-
T Consensus 30 a~~~i~~G~nvLiiA--PTGsGKTeAA 54 (814)
T COG1201 30 AIPEIHSGENVLIIA--PTGSGKTEAA 54 (814)
T ss_pred HHHHHhCCCceEEEc--CCCCChHHHH
Confidence 345678999999887 9999999874
No 321
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=37.37 E-value=22 Score=29.45 Aligned_cols=21 Identities=33% Similarity=0.474 Sum_probs=16.5
Q ss_pred cCHHHHhcCCCCcHHHHHHHH
Q 005372 591 ASREELVELKGIGQRLADYIC 611 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii 611 (699)
-+.+||..++|||++..++|-
T Consensus 41 ~s~~dL~~v~gi~~~~~~~l~ 61 (65)
T PF12836_consen 41 KSLEDLKEVPGIGPKTYEKLK 61 (65)
T ss_dssp SSGGGGGGSTT--HHHHHHHC
T ss_pred CCHHHHhhCCCCCHHHHHHHH
Confidence 478999999999999998873
No 322
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=37.25 E-value=20 Score=36.42 Aligned_cols=28 Identities=25% Similarity=0.384 Sum_probs=21.2
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHG---RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G---~N~tIfAYGqTGSGKTyTm 132 (699)
+-+|.++.| ....+.-+|++|||||..+
T Consensus 6 ~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (235)
T cd01123 6 KALDELLGGGIETGSITEIFGEFGSGKTQLC 36 (235)
T ss_pred hhhHhhccCCCCCCeEEEEECCCCCCHHHHH
Confidence 456677765 3567888999999999754
No 323
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=37.20 E-value=62 Score=34.85 Aligned_cols=53 Identities=17% Similarity=0.295 Sum_probs=39.1
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHHHhc----C-CCC---C----HHHHhhc-CCCHHHHHHhhcccc
Q 005372 590 TASREELVELKGIGQRLADYICELRQS----S-PVK---S----LSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~R~~----~-pf~---~----~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
.++.++|..+ |++..+|++|++.=+. . ++. + .++|..+ |||+++.+-+.-+..
T Consensus 163 ~~~~~eL~~~-Gl~~~Ra~~L~~lA~~i~~g~l~l~~~~~~~~~~~~L~~LpGIGpwTA~~vllr~l 228 (283)
T PRK10308 163 AADPQALKAL-GMPLKRAEALIHLANAALEGTLPLTIPGDVEQAMKTLQTFPGIGRWTANYFALRGW 228 (283)
T ss_pred cCCHHHHHHC-CCCHHHHHHHHHHHHHHHcCCCCccccCCHHHHHHHHhcCCCcCHHHHHHHHHHhC
Confidence 4678888887 9999999998865542 2 332 2 5678889 999999887765544
No 324
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=37.20 E-value=36 Score=36.24 Aligned_cols=49 Identities=27% Similarity=0.358 Sum_probs=32.8
Q ss_pred hhcCCCCEE-EEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEEEecceeeec
Q 005372 109 GIFHGRNAT-VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYEVYMDRCYDL 175 (699)
Q Consensus 109 ~vl~G~N~t-IfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~EIYnE~v~DL 175 (699)
.+++|+-+- |+.||..|+||+.. +..++......+- ..+||..+.+.+|
T Consensus 78 ~F~~G~pANnVLLwGaRGtGKSSL--------------VKA~~~e~~~~gl----rLVEV~k~dl~~L 127 (287)
T COG2607 78 QFAEGLPANNVLLWGARGTGKSSL--------------VKALLNEYADEGL----RLVEVDKEDLATL 127 (287)
T ss_pred HHHcCCcccceEEecCCCCChHHH--------------HHHHHHHHHhcCC----eEEEEcHHHHhhH
Confidence 566787653 88999999999864 3444544433332 3788888876654
No 325
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=37.18 E-value=21 Score=40.21 Aligned_cols=50 Identities=12% Similarity=0.197 Sum_probs=31.5
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcC----CCCEEEEeeccCCCCCcce
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFH----GRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~----G~N~tIfAYGqTGSGKTyT 131 (699)
++.||.+.+.-. .-..+.+..+..+..+++. -.---+.-||+.|+|||+.
T Consensus 111 ~~~f~~~~g~~~-~~p~f~dk~~~hi~kn~l~~~~ik~PlgllL~GPPGcGKTll 164 (413)
T PLN00020 111 TRSFDNLVGGYY-IAPAFMDKVAVHIAKNFLALPNIKVPLILGIWGGKGQGKSFQ 164 (413)
T ss_pred hcchhhhcCccc-cCHHHHHHHHHHHHhhhhhccCCCCCeEEEeeCCCCCCHHHH
Confidence 456666654432 2245566666666666663 2234577799999999976
No 326
>PRK13342 recombination factor protein RarA; Reviewed
Probab=36.97 E-value=17 Score=40.95 Aligned_cols=22 Identities=32% Similarity=0.534 Sum_probs=16.6
Q ss_pred cCCCCEEEEeeccCCCCCccee
Q 005372 111 FHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 111 l~G~N~tIfAYGqTGSGKTyTm 132 (699)
-.+.-..++-||++|+|||+..
T Consensus 32 ~~~~~~~ilL~GppGtGKTtLA 53 (413)
T PRK13342 32 EAGRLSSMILWGPPGTGKTTLA 53 (413)
T ss_pred HcCCCceEEEECCCCCCHHHHH
Confidence 3455456777999999999765
No 327
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.95 E-value=12 Score=41.54 Aligned_cols=41 Identities=24% Similarity=0.378 Sum_probs=25.1
Q ss_pred eeceeeCCCCCcHhHHHHhhccchhhhhcCC-CCEEEEeeccCCCCCccee
Q 005372 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHG-RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 83 ~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G-~N~tIfAYGqTGSGKTyTm 132 (699)
.||.|.|++. +- +.+...+-.| ..-.++-||+.|+|||++.
T Consensus 14 ~~~~iiGq~~-----~~----~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla 55 (363)
T PRK14961 14 YFRDIIGQKH-----IV----TAISNGLSLGRIHHAWLLSGTRGVGKTTIA 55 (363)
T ss_pred chhhccChHH-----HH----HHHHHHHHcCCCCeEEEEecCCCCCHHHHH
Confidence 5777776432 22 2222333333 3456788999999999865
No 328
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=36.87 E-value=40 Score=42.05 Aligned_cols=45 Identities=18% Similarity=0.499 Sum_probs=25.5
Q ss_pred EEEeeccCCCCCccee-------ccCCCCCCchHHHHHHHHHhhhcCCceeEEEE
Q 005372 117 TVFAYGATGSGKTYTM-------QGSEERPGLMPLAMSKILSICQSTGSTAEISY 164 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm-------~G~~~~~GIipral~~LF~~~~~~~~~v~vS~ 164 (699)
..+-+|+||||||..| ||.....| .....++....... ..|.+-|
T Consensus 27 i~lI~G~nGsGKSSIldAI~~ALyG~~~~~~--~~~~~~~i~~g~~~-~~V~l~F 78 (908)
T COG0419 27 IFLIVGPNGAGKSSILDAITFALYGKTPRLG--AFSLDDLIRAGEKS-ASVELEF 78 (908)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHcCCCCCcc--chhhhHHHhcCCcc-EEEEEEE
Confidence 3456899999998654 77655444 34444444432222 4455444
No 329
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=36.86 E-value=19 Score=38.48 Aligned_cols=122 Identities=20% Similarity=0.304 Sum_probs=62.5
Q ss_pred EEEEEcCCCCChhhhhhcC------CCeeEEEEcCCCCcccCcceEEEecCCCCCCceeeeeceeeCCCCCcHhHHHHhh
Q 005372 29 RVIVRVRPFLSQEIAAKNG------NSICCISVLDRGSLSCNEEVAVYLKDPDTIRSECYQLDSFFGQEDESVSKIFYSE 102 (699)
Q Consensus 29 rV~vRvRP~~~~E~~~~~~------~~~~~i~v~d~~~~~~~~~~~i~~~~~~~~~~~~F~FD~VF~~~~~sQ~~Vf~~~ 102 (699)
.-+|||--..++|+...+. .+...+.+..++. ...+..-.++.... ..+-.|=+-+ -+-+++-+.+
T Consensus 100 ny~vrilstidrellkps~svalhrhsnalvdvlppea-----dssi~ml~~~ekpd--vsy~diggld-~qkqeireav 171 (408)
T KOG0727|consen 100 NYYVRILSTIDRELLKPSASVALHRHSNALVDVLPPEA-----DSSISMLGPDEKPD--VSYADIGGLD-VQKQEIREAV 171 (408)
T ss_pred ceEEeehhhhhHHHcCCccchhhhhcccceeeccCCcc-----cccccccCCCCCCC--ccccccccch-hhHHHHHHHH
Confidence 5688988888888654211 1222344443322 11222222222111 1222222222 2334555555
Q ss_pred ccchhhhhcC---CCC--EEEEeeccCCCCCcceec--------------cCC---CCCCchHHHHHHHHHhhhcCCc
Q 005372 103 VNPLIPGIFH---GRN--ATVFAYGATGSGKTYTMQ--------------GSE---ERPGLMPLAMSKILSICQSTGS 158 (699)
Q Consensus 103 v~plV~~vl~---G~N--~tIfAYGqTGSGKTyTm~--------------G~~---~~~GIipral~~LF~~~~~~~~ 158 (699)
--|+...=+- |.+ -.|+.||+.|+|||-... |++ .--|==||.++++|....+..-
T Consensus 172 elplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvqkylgegprmvrdvfrlakenap 249 (408)
T KOG0727|consen 172 ELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAP 249 (408)
T ss_pred hccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHHHHhccCcHHHHHHHHHHhccCC
Confidence 5566554321 333 358899999999985432 221 1135558999999998766543
No 330
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=36.72 E-value=15 Score=30.67 Aligned_cols=15 Identities=33% Similarity=0.587 Sum_probs=12.1
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
.+-+|++|||||..|
T Consensus 26 tli~G~nGsGKSTll 40 (62)
T PF13555_consen 26 TLITGPNGSGKSTLL 40 (62)
T ss_pred EEEECCCCCCHHHHH
Confidence 455799999999765
No 331
>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=36.57 E-value=17 Score=43.80 Aligned_cols=30 Identities=30% Similarity=0.400 Sum_probs=20.3
Q ss_pred ccchhhhhcC-----CCCEEEEeeccCCCCCcceec
Q 005372 103 VNPLIPGIFH-----GRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 103 v~plV~~vl~-----G~N~tIfAYGqTGSGKTyTm~ 133 (699)
+..+++.+.+ |.+..++.. +||||||+||.
T Consensus 247 v~~~~~~~~~~~~~~~~~~gli~~-~TGsGKT~t~~ 281 (667)
T TIGR00348 247 VKKIVESITRKTWGKDERGGLIWH-TQGSGKTLTML 281 (667)
T ss_pred HHHHHHHHHhcccCCCCceeEEEE-ecCCCccHHHH
Confidence 4555666555 345555443 99999999996
No 332
>PRK01172 ski2-like helicase; Provisional
Probab=36.31 E-value=37 Score=40.73 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=33.4
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHh--------hc-CCCHHHHHHhhcc
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLE--------KI-GLSTKQVYNLFGK 641 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~--------~v-Gi~~~~~~~l~~~ 641 (699)
-+|..|||||+.+|.+..+. +|++++||. ++ |++.++++++...
T Consensus 612 ~~L~~ip~~~~~~a~~l~~~----g~~~~~di~~~~~~~~~~i~~~~~~~~~~i~~~ 664 (674)
T PRK01172 612 IDLVLIPKVGRVRARRLYDA----GFKTVDDIARSSPERIKKIYGFSDTLANAIVNR 664 (674)
T ss_pred HhhcCCCCCCHHHHHHHHHc----CCCCHHHHHhCCHHHHHHHhccCHHHHHHHHHH
Confidence 35788999999999988765 688887774 34 7777777776654
No 333
>PF13173 AAA_14: AAA domain
Probab=36.28 E-value=15 Score=33.98 Aligned_cols=17 Identities=29% Similarity=0.513 Sum_probs=14.3
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.++-+|+.|+|||+.|.
T Consensus 4 ~~~l~G~R~vGKTtll~ 20 (128)
T PF13173_consen 4 IIILTGPRGVGKTTLLK 20 (128)
T ss_pred eEEEECCCCCCHHHHHH
Confidence 46789999999998763
No 334
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=36.16 E-value=22 Score=36.07 Aligned_cols=28 Identities=29% Similarity=0.507 Sum_probs=20.7
Q ss_pred chhhhhcCCC---CEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGR---NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~---N~tIfAYGqTGSGKTyTm 132 (699)
+-+|.++.|- ...+.-+|.+|+|||...
T Consensus 10 ~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 40 (225)
T PRK09361 10 KMLDELLGGGFERGTITQIYGPPGSGKTNIC 40 (225)
T ss_pred HHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 4466777543 457788999999999754
No 335
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=36.16 E-value=18 Score=40.80 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=15.8
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
..-|.-.|+||-|||.|+-
T Consensus 203 ~~vi~LVGPTGVGKTTTlA 221 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLA 221 (407)
T ss_pred CcEEEEECCCCCcHHHHHH
Confidence 5567778999999999973
No 336
>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=36.09 E-value=16 Score=35.52 Aligned_cols=14 Identities=50% Similarity=0.793 Sum_probs=12.4
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+.+|..|||||+.
T Consensus 2 i~i~G~pGsGKst~ 15 (183)
T TIGR01359 2 VFVLGGPGSGKGTQ 15 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 68899999999975
No 337
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=35.95 E-value=17 Score=38.74 Aligned_cols=21 Identities=24% Similarity=0.460 Sum_probs=18.4
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|+...|+..|++|+|||..+
T Consensus 1 ~g~~f~I~vvG~sg~GKSTli 21 (276)
T cd01850 1 KGFQFNIMVVGESGLGKSTFI 21 (276)
T ss_pred CCcEEEEEEEcCCCCCHHHHH
Confidence 488999999999999999643
No 338
>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=35.60 E-value=20 Score=37.81 Aligned_cols=29 Identities=21% Similarity=0.220 Sum_probs=19.5
Q ss_pred hccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 102 EVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 102 ~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
..+.++..+..|.+. +-+|++|+|||...
T Consensus 10 l~~~~l~~l~~g~~v--LL~G~~GtGKT~lA 38 (262)
T TIGR02640 10 VTSRALRYLKSGYPV--HLRGPAGTGKTTLA 38 (262)
T ss_pred HHHHHHHHHhcCCeE--EEEcCCCCCHHHHH
Confidence 344455555566655 45899999999753
No 339
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=35.58 E-value=22 Score=36.49 Aligned_cols=29 Identities=21% Similarity=0.321 Sum_probs=20.8
Q ss_pred cchhhhhcCCC---CEEEEeeccCCCCCccee
Q 005372 104 NPLIPGIFHGR---NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 104 ~plV~~vl~G~---N~tIfAYGqTGSGKTyTm 132 (699)
-+-+|.++.|- ...++.+|.+|+|||+-.
T Consensus 11 i~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~ 42 (234)
T PRK06067 11 NEELDRKLGGGIPFPSLILIEGDHGTGKSVLS 42 (234)
T ss_pred CHHHHHhhCCCCcCCcEEEEECCCCCChHHHH
Confidence 34566666543 667888899999999743
No 340
>PRK04195 replication factor C large subunit; Provisional
Probab=35.41 E-value=16 Score=42.09 Aligned_cols=30 Identities=27% Similarity=0.526 Sum_probs=21.4
Q ss_pred ccchhhhhcCCC-CEEEEeeccCCCCCccee
Q 005372 103 VNPLIPGIFHGR-NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 103 v~plV~~vl~G~-N~tIfAYGqTGSGKTyTm 132 (699)
+..++.....|. .-.++-||++|+|||++.
T Consensus 26 l~~~l~~~~~g~~~~~lLL~GppG~GKTtla 56 (482)
T PRK04195 26 LREWIESWLKGKPKKALLLYGPPGVGKTSLA 56 (482)
T ss_pred HHHHHHHHhcCCCCCeEEEECCCCCCHHHHH
Confidence 444555555554 456888999999999875
No 341
>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=35.35 E-value=17 Score=34.32 Aligned_cols=14 Identities=36% Similarity=0.703 Sum_probs=12.0
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+..|..|||||+.
T Consensus 2 i~l~G~~GsGKST~ 15 (150)
T cd02021 2 IVVMGVSGSGKSTV 15 (150)
T ss_pred EEEEcCCCCCHHHH
Confidence 56789999999875
No 342
>PRK00131 aroK shikimate kinase; Reviewed
Probab=35.31 E-value=18 Score=34.43 Aligned_cols=16 Identities=25% Similarity=0.465 Sum_probs=13.9
Q ss_pred EEEEeeccCCCCCcce
Q 005372 116 ATVFAYGATGSGKTYT 131 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyT 131 (699)
-.|+.+|.+|||||+.
T Consensus 5 ~~i~l~G~~GsGKstl 20 (175)
T PRK00131 5 PNIVLIGFMGAGKSTI 20 (175)
T ss_pred CeEEEEcCCCCCHHHH
Confidence 3688999999999975
No 343
>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=35.20 E-value=16 Score=39.02 Aligned_cols=18 Identities=33% Similarity=0.576 Sum_probs=14.8
Q ss_pred CEEEEeeccCCCCCccee
Q 005372 115 NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm 132 (699)
+--++-.|++|+|||-++
T Consensus 33 ~~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 33 GRPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp TEEEEEESSTTSSHHHHH
T ss_pred CCcEEEECCCCCchhHHH
Confidence 556688999999999765
No 344
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=34.69 E-value=30 Score=37.47 Aligned_cols=25 Identities=32% Similarity=0.377 Sum_probs=21.8
Q ss_pred cCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 598 ELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 598 ~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
.|||||+|.|..+|+ -|.+++.|.+
T Consensus 202 GV~GIG~ktA~~Ll~-----~~gs~e~i~~ 226 (310)
T COG0258 202 GVKGIGPKTALKLLQ-----EYGSLEGLYE 226 (310)
T ss_pred CCCCcCHHHHHHHHH-----HhCCHHHHHH
Confidence 399999999999998 5778888876
No 345
>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=34.62 E-value=19 Score=39.04 Aligned_cols=24 Identities=25% Similarity=0.303 Sum_probs=19.7
Q ss_pred hcCCCCEEEEeeccCCCCCcceec
Q 005372 110 IFHGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 110 vl~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
-....+.-++-||+.|||||.+|.
T Consensus 18 ~~~~~~~r~vL~G~~GsGKS~~L~ 41 (309)
T PF10236_consen 18 DKSSKNNRYVLTGERGSGKSVLLA 41 (309)
T ss_pred cccCCceEEEEECCCCCCHHHHHH
Confidence 345667789999999999999874
No 346
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=34.55 E-value=14 Score=40.01 Aligned_cols=17 Identities=41% Similarity=0.634 Sum_probs=14.3
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.++-||++|+|||+...
T Consensus 53 ~~ll~GppG~GKT~la~ 69 (328)
T PRK00080 53 HVLLYGPPGLGKTTLAN 69 (328)
T ss_pred cEEEECCCCccHHHHHH
Confidence 56779999999998764
No 347
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=34.47 E-value=17 Score=35.35 Aligned_cols=17 Identities=35% Similarity=0.626 Sum_probs=13.8
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+..+-||.+|+|||..|
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 44567999999999876
No 348
>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=34.42 E-value=20 Score=34.24 Aligned_cols=26 Identities=23% Similarity=0.330 Sum_probs=19.1
Q ss_pred EEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHh
Q 005372 117 TVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSI 152 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~ 152 (699)
.+--.|.||+||||+- ..+.+.||..
T Consensus 55 VlSfHG~tGtGKn~v~----------~liA~~ly~~ 80 (127)
T PF06309_consen 55 VLSFHGWTGTGKNFVS----------RLIAEHLYKS 80 (127)
T ss_pred EEEeecCCCCcHHHHH----------HHHHHHHHhc
Confidence 4455799999999963 4666777764
No 349
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=33.93 E-value=31 Score=35.57 Aligned_cols=27 Identities=44% Similarity=0.620 Sum_probs=23.7
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCC
Q 005372 592 SREELVELKGIGQRLADYICELRQSSP 618 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~p 618 (699)
..++|..|.|||+..|+.|+=|=-.+|
T Consensus 113 ~R~~LL~iKGIG~ETaDsILlYa~~rp 139 (215)
T COG2231 113 LREELLSIKGIGKETADSILLYALDRP 139 (215)
T ss_pred HHHHHHccCCcchhhHHHHHHHHhcCc
Confidence 478999999999999999999876664
No 350
>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=33.91 E-value=12 Score=43.70 Aligned_cols=42 Identities=29% Similarity=0.472 Sum_probs=27.3
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
...||.+++++. . ++.+...++.+...-|+-||++|+|||+.
T Consensus 61 p~~f~~iiGqs~-~--------i~~l~~al~~~~~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 61 PKSFDEIIGQEE-G--------IKALKAALCGPNPQHVIIYGPPGVGKTAA 102 (531)
T ss_pred cCCHHHeeCcHH-H--------HHHHHHHHhCCCCceEEEECCCCCCHHHH
Confidence 357888888653 1 12222334455566778899999999964
No 351
>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=33.88 E-value=26 Score=35.34 Aligned_cols=27 Identities=26% Similarity=0.444 Sum_probs=19.5
Q ss_pred hhhhhcC-CC--CEEEEeeccCCCCCccee
Q 005372 106 LIPGIFH-GR--NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~-G~--N~tIfAYGqTGSGKTyTm 132 (699)
-+|.++. |+ ...+..+|.+|||||...
T Consensus 7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~ 36 (218)
T cd01394 7 GLDELLGGGVERGTVTQVYGPPGTGKTNIA 36 (218)
T ss_pred HHHHHhcCCccCCeEEEEECCCCCCHHHHH
Confidence 3566675 43 345788999999999754
No 352
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=33.87 E-value=55 Score=34.21 Aligned_cols=43 Identities=33% Similarity=0.302 Sum_probs=32.5
Q ss_pred cccCcccCHHHHhcCCCCcHHHH----------HHHHHHHhcC--CCCCHHHHhh
Q 005372 585 IDFLNTASREELVELKGIGQRLA----------DYICELRQSS--PVKSLSDLEK 627 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A----------~~Ii~~R~~~--pf~~~~dL~~ 627 (699)
.-.+=.|+.++|..+||||+.+| ++|.+.+... .|.|.++..+
T Consensus 57 L~~l~~a~~~el~~v~GiG~aka~~l~a~~El~~R~~~~~~~~~~~i~sp~~~~~ 111 (224)
T COG2003 57 LAELLKASVEELSSVKGIGLAKAIQIKAAIELGKRILAERLREGVVITSPEAVAE 111 (224)
T ss_pred HHHHHhCCHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHHhccCCccCCHHHHHH
Confidence 34455899999999999997654 5566666544 7888888766
No 353
>COG5241 RAD10 Nucleotide excision repair endonuclease NEF1, RAD10 subunit [DNA replication, recombination, and repair]
Probab=33.80 E-value=24 Score=35.65 Aligned_cols=30 Identities=33% Similarity=0.284 Sum_probs=27.1
Q ss_pred cccCcccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 585 IDFLNTASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 585 ~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
.--.|-|+.+|++.|-|.|+.+|.++|+|=
T Consensus 190 L~rf~gaSrdE~e~l~g~g~~ka~~~ieyl 219 (224)
T COG5241 190 LCRFNGASRDEFELLLGFGFEKAAKYIEYL 219 (224)
T ss_pred HHHHhccchhHHHHHHccCHHHHHHHHHHh
Confidence 345689999999999999999999999986
No 354
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=33.77 E-value=18 Score=40.27 Aligned_cols=48 Identities=29% Similarity=0.456 Sum_probs=29.4
Q ss_pred eeceeeCCCCCcHhHHHHhhccchhhh-hcC--CCC--EEEEeeccCCCCCcce
Q 005372 83 QLDSFFGQEDESVSKIFYSEVNPLIPG-IFH--GRN--ATVFAYGATGSGKTYT 131 (699)
Q Consensus 83 ~FD~VF~~~~~sQ~~Vf~~~v~plV~~-vl~--G~N--~tIfAYGqTGSGKTyT 131 (699)
+|+.|=+-+ .+-+++.+.+--||.+- .|+ |.. --|+.||+.|+|||-.
T Consensus 149 tY~dIGGL~-~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLL 201 (406)
T COG1222 149 TYEDIGGLD-EQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLL 201 (406)
T ss_pred ChhhccCHH-HHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHH
Confidence 344443333 24466777666777653 332 443 3589999999999843
No 355
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=33.41 E-value=57 Score=39.58 Aligned_cols=26 Identities=23% Similarity=0.340 Sum_probs=16.7
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 590 TASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
+++.++|..|+|+|+|.|++|++.=+
T Consensus 492 ~L~~~~L~~l~g~g~Ksa~~Ll~~Ie 517 (689)
T PRK14351 492 DLTVADLAELEGWGETSAENLLAELE 517 (689)
T ss_pred HcCHHHHhcCcCcchhHHHHHHHHHH
Confidence 45566677777777777777666533
No 356
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=33.40 E-value=43 Score=36.12 Aligned_cols=33 Identities=36% Similarity=0.396 Sum_probs=25.9
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcC-CCCCHHHH
Q 005372 593 REELVELKGIGQRLADYICELRQSS-PVKSLSDL 625 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~-pf~~~~dL 625 (699)
.++|.+|+|||+..|+-|+-+--.+ .--..+|+
T Consensus 197 ~e~L~~i~GIG~WTAe~~llf~lgr~dvfP~~D~ 230 (285)
T COG0122 197 IEELTALKGIGPWTAEMFLLFGLGRPDVFPADDL 230 (285)
T ss_pred HHHHHcCCCcCHHHHHHHHHHcCCCCCCCChHHH
Confidence 5789999999999999999887654 33345665
No 357
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=33.38 E-value=33 Score=40.89 Aligned_cols=29 Identities=38% Similarity=0.504 Sum_probs=24.8
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
-+|=.|+.++|..+||||+++|+.|.++-
T Consensus 567 ~~i~~As~eeL~~v~Gig~~~A~~I~~~l 595 (598)
T PRK00558 567 KAIKEASVEELAKVPGISKKLAEAIYEAL 595 (598)
T ss_pred HHHHhCCHHHHhhcCCcCHHHHHHHHHHh
Confidence 34446999999999999999999998863
No 358
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=33.27 E-value=15 Score=46.81 Aligned_cols=28 Identities=32% Similarity=0.398 Sum_probs=19.3
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcceecc
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm~G 134 (699)
+++.+-+|....++ ..+||||||+||.+
T Consensus 425 i~~a~~~g~r~~Ll-~maTGSGKT~tai~ 452 (1123)
T PRK11448 425 VEKAIVEGQREILL-AMATGTGKTRTAIA 452 (1123)
T ss_pred HHHHHHhccCCeEE-EeCCCCCHHHHHHH
Confidence 34444456655444 48999999999865
No 359
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=33.21 E-value=18 Score=41.17 Aligned_cols=17 Identities=47% Similarity=0.575 Sum_probs=14.4
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.++-.|++|+|||+|+.
T Consensus 223 ~i~~vGptGvGKTTt~~ 239 (424)
T PRK05703 223 VVALVGPTGVGKTTTLA 239 (424)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 56667999999999974
No 360
>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=33.14 E-value=25 Score=38.84 Aligned_cols=25 Identities=24% Similarity=0.377 Sum_probs=20.1
Q ss_pred hhhcCCCCEEEEeeccCCCCCccee
Q 005372 108 PGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 108 ~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+.+.+|.+..++..++||||||...
T Consensus 7 ~~~~~~~~~~~~i~apTGsGKT~~~ 31 (357)
T TIGR03158 7 EALQSKDADIIFNTAPTGAGKTLAW 31 (357)
T ss_pred HHHHcCCCCEEEEECCCCCCHHHHH
Confidence 3556787777888899999999874
No 361
>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=33.07 E-value=19 Score=38.89 Aligned_cols=29 Identities=28% Similarity=0.441 Sum_probs=20.1
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+..++...+.+. ..++-.|.||||||..|
T Consensus 133 ~~~~l~~~v~~~-~~ili~G~tGsGKTTll 161 (308)
T TIGR02788 133 IKEFLRLAIASR-KNIIISGGTGSGKTTFL 161 (308)
T ss_pred HHHHHHHHhhCC-CEEEEECCCCCCHHHHH
Confidence 445566666544 35566799999999875
No 362
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=32.99 E-value=56 Score=34.08 Aligned_cols=24 Identities=38% Similarity=0.668 Sum_probs=17.4
Q ss_pred hhhhcCC---CCEEEEeeccCCCCCcc
Q 005372 107 IPGIFHG---RNATVFAYGATGSGKTY 130 (699)
Q Consensus 107 V~~vl~G---~N~tIfAYGqTGSGKTy 130 (699)
+|.++.| ....++-||..|||||.
T Consensus 12 lD~~l~GG~p~g~~~lI~G~pGsGKT~ 38 (260)
T COG0467 12 LDEILGGGLPRGSVVLITGPPGTGKTI 38 (260)
T ss_pred hHHHhcCCCcCCcEEEEEcCCCCcHHH
Confidence 4444543 35678899999999985
No 363
>PRK07261 topology modulation protein; Provisional
Probab=32.75 E-value=20 Score=35.26 Aligned_cols=14 Identities=36% Similarity=0.527 Sum_probs=12.0
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+-.|.+|||||+-
T Consensus 3 i~i~G~~GsGKSTl 16 (171)
T PRK07261 3 IAIIGYSGSGKSTL 16 (171)
T ss_pred EEEEcCCCCCHHHH
Confidence 67789999999974
No 364
>PF06048 DUF927: Domain of unknown function (DUF927); InterPro: IPR009270 This entry is represented by Bacteriophage PT1028, Orf1. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=32.73 E-value=25 Score=37.71 Aligned_cols=29 Identities=28% Similarity=0.495 Sum_probs=22.7
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
..||+ ..+.--+..+--||++++|||.++
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 455666788999999999999887
No 365
>PRK14667 uvrC excinuclease ABC subunit C; Provisional
Probab=32.70 E-value=31 Score=40.76 Aligned_cols=49 Identities=22% Similarity=0.241 Sum_probs=35.8
Q ss_pred CCccccchhhhhhhhhccccc--cccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 564 TPLDKFSARSIRLKNSLVQEY--IDFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 564 ~p~~~~~~~~~~~~~s~~~~~--~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
++++..+-....-+..|...+ .-+|=.||.+||..+ |||+++|+.|.++
T Consensus 514 S~Ld~I~GiG~kr~~~Ll~~Fgs~~~ik~As~eeL~~v-gi~~~~A~~I~~~ 564 (567)
T PRK14667 514 DILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEVKKY 564 (567)
T ss_pred CccccCCCCCHHHHHHHHHHhCCHHHHHhCCHHHHHHc-CCCHHHHHHHHHH
Confidence 455555555544455555433 467789999999999 9999999999875
No 366
>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=32.52 E-value=24 Score=39.18 Aligned_cols=16 Identities=31% Similarity=0.453 Sum_probs=13.8
Q ss_pred EEeeccCCCCCcceec
Q 005372 118 VFAYGATGSGKTYTMQ 133 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~ 133 (699)
++.+|+||||||+++.
T Consensus 2 ~lv~g~tGsGKt~~~v 17 (384)
T cd01126 2 VLVFAPTRSGKGVGFV 17 (384)
T ss_pred eeEecCCCCCCccEEE
Confidence 5778999999999873
No 367
>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=32.05 E-value=21 Score=40.84 Aligned_cols=25 Identities=32% Similarity=0.607 Sum_probs=18.4
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|..+++|.++ ++..+||||||.+.
T Consensus 19 ai~~~l~g~dv--lv~apTGsGKTl~y 43 (470)
T TIGR00614 19 VINAVLLGRDC--FVVMPTGGGKSLCY 43 (470)
T ss_pred HHHHHHcCCCE--EEEcCCCCcHhHHH
Confidence 34456788874 55679999999764
No 368
>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=32.01 E-value=21 Score=34.94 Aligned_cols=15 Identities=33% Similarity=0.574 Sum_probs=12.6
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|+.+|..|||||+..
T Consensus 2 I~i~G~pGsGKst~a 16 (194)
T cd01428 2 ILLLGPPGSGKGTQA 16 (194)
T ss_pred EEEECCCCCCHHHHH
Confidence 688999999998643
No 369
>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=31.98 E-value=40 Score=41.06 Aligned_cols=44 Identities=20% Similarity=0.342 Sum_probs=23.1
Q ss_pred CCCCcHHHHHHHHHHHhcC----CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 599 LKGIGQRLADYICELRQSS----PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 599 lpGIG~k~A~~Ii~~R~~~----pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
+||||+++|++|++.=-.. =-.+.+.|.+| ||+++.++.|.+..
T Consensus 89 ~~GIG~~~A~~iv~~fg~~~~~~i~~~~~~L~~v~gi~~~~~~~i~~~~ 137 (720)
T TIGR01448 89 IKGVGKKLAQRIVKTFGEAAFDVLDDDPEKLLEVPGISKANLEKFVSQW 137 (720)
T ss_pred CCCcCHHHHHHHHHHhCHhHHHHHHhCHHHHhcCCCCCHHHHHHHHHHH
Confidence 5666666666666432111 11234555666 66666666555544
No 370
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=31.53 E-value=18 Score=41.69 Aligned_cols=16 Identities=38% Similarity=0.571 Sum_probs=14.2
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.++-||++|+|||+..
T Consensus 90 giLL~GppGtGKT~la 105 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLA 105 (495)
T ss_pred cEEEECCCCCCHHHHH
Confidence 5888999999999875
No 371
>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]
Probab=31.52 E-value=22 Score=38.32 Aligned_cols=24 Identities=29% Similarity=0.448 Sum_probs=20.8
Q ss_pred hhcCCCCEEEEeeccCCCCCccee
Q 005372 109 GIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 109 ~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
++-+||.--|+|.|.||.|||..|
T Consensus 36 sv~~GF~FNilCvGETg~GKsTLm 59 (406)
T KOG3859|consen 36 SVSQGFCFNILCVGETGLGKSTLM 59 (406)
T ss_pred HHhcCceEEEEEeccCCccHHHHH
Confidence 456899999999999999998754
No 372
>PRK08118 topology modulation protein; Reviewed
Probab=31.30 E-value=22 Score=34.90 Aligned_cols=13 Identities=38% Similarity=0.693 Sum_probs=11.6
Q ss_pred EEeeccCCCCCcc
Q 005372 118 VFAYGATGSGKTY 130 (699)
Q Consensus 118 IfAYGqTGSGKTy 130 (699)
|+-.|+.|||||+
T Consensus 4 I~I~G~~GsGKST 16 (167)
T PRK08118 4 IILIGSGGSGKST 16 (167)
T ss_pred EEEECCCCCCHHH
Confidence 6788999999995
No 373
>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=31.30 E-value=19 Score=40.61 Aligned_cols=17 Identities=41% Similarity=0.645 Sum_probs=13.9
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
--++.+|.||||||..|
T Consensus 43 ~h~~i~g~tGsGKt~~i 59 (410)
T cd01127 43 AHTMIIGTTGTGKTTQI 59 (410)
T ss_pred ccEEEEcCCCCCHHHHH
Confidence 35678999999999764
No 374
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=31.29 E-value=18 Score=34.66 Aligned_cols=14 Identities=36% Similarity=0.565 Sum_probs=11.1
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+..|.+|||||+.
T Consensus 1 i~l~G~~GsGKSTl 14 (163)
T TIGR01313 1 FVLMGVAGSGKSTI 14 (163)
T ss_pred CEEECCCCCCHHHH
Confidence 35679999999864
No 375
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=31.24 E-value=20 Score=42.30 Aligned_cols=24 Identities=33% Similarity=0.560 Sum_probs=18.7
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
|..+++|.| |++..+||||||.+.
T Consensus 40 ip~~l~G~D--vi~~ApTGSGKTlaf 63 (572)
T PRK04537 40 LPVALPGGD--VAGQAQTGTGKTLAF 63 (572)
T ss_pred HHHHhCCCC--EEEEcCCCCcHHHHH
Confidence 345788998 456789999999764
No 376
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=31.22 E-value=55 Score=39.49 Aligned_cols=47 Identities=17% Similarity=0.330 Sum_probs=32.8
Q ss_pred CCCCCCCChhhhhcccccCCCceeEEEEEeCCCC-----------hhhhHHHHHHHHHhhhccc
Q 005372 301 PRVPYRESKLTRILQDSLGGTSHALMVACLNPGE-----------YQESVHTVSLAARSRHISN 353 (699)
Q Consensus 301 ~~IPYRdSKLTrLLqdsLgGnskt~mI~~VSP~~-----------~~ETlsTL~fA~rar~I~N 353 (699)
.+-||-...|-.++...|.|- .++++.. -.++-..|.++.||.+|.-
T Consensus 572 ~F~pYth~qLq~Ii~~RL~~~------~~f~~~aielvarkVAavSGDaRraldic~RA~Eia~ 629 (767)
T KOG1514|consen 572 CFQPYTHEQLQEIISARLKGL------DAFENKAIELVARKVAAVSGDARRALDICRRAAEIAE 629 (767)
T ss_pred ecCCCCHHHHHHHHHHhhcch------hhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhh
Confidence 467888888888888888775 2223321 1367778889999988764
No 377
>PTZ00217 flap endonuclease-1; Provisional
Probab=31.16 E-value=34 Score=38.59 Aligned_cols=26 Identities=27% Similarity=0.417 Sum_probs=22.6
Q ss_pred hcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 597 VELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
..|||||++.|-+||. -|.++|++.+
T Consensus 238 pgi~GIG~ktA~~Li~-----~~gsle~il~ 263 (393)
T PTZ00217 238 DTIKGIGPKTAYKLIK-----KYKSIEEILE 263 (393)
T ss_pred CCCCCccHHHHHHHHH-----HcCCHHHHHH
Confidence 4799999999999997 4889998865
No 378
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=31.14 E-value=20 Score=42.79 Aligned_cols=24 Identities=46% Similarity=0.823 Sum_probs=18.5
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
|..++.|.+ |+..+|||||||.+.
T Consensus 37 i~~ll~g~d--vl~~ApTGsGKT~af 60 (629)
T PRK11634 37 IPHLLNGRD--VLGMAQTGSGKTAAF 60 (629)
T ss_pred HHHHHcCCC--EEEEcCCCCcHHHHH
Confidence 445567876 677889999999874
No 379
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=31.05 E-value=20 Score=33.55 Aligned_cols=15 Identities=33% Similarity=0.561 Sum_probs=12.8
Q ss_pred EEEeeccCCCCCcce
Q 005372 117 TVFAYGATGSGKTYT 131 (699)
Q Consensus 117 tIfAYGqTGSGKTyT 131 (699)
+|+.+|..|||||+.
T Consensus 1 ~i~l~G~~GsGKstl 15 (154)
T cd00464 1 NIVLIGMMGAGKTTV 15 (154)
T ss_pred CEEEEcCCCCCHHHH
Confidence 478899999999974
No 380
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=31.01 E-value=20 Score=38.44 Aligned_cols=12 Identities=58% Similarity=0.894 Sum_probs=11.2
Q ss_pred eccCCCCCccee
Q 005372 121 YGATGSGKTYTM 132 (699)
Q Consensus 121 YGqTGSGKTyTm 132 (699)
.|++|||||.||
T Consensus 33 iGpSGsGKTTtL 44 (309)
T COG1125 33 IGPSGSGKTTTL 44 (309)
T ss_pred ECCCCCcHHHHH
Confidence 599999999997
No 381
>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=30.97 E-value=24 Score=37.49 Aligned_cols=16 Identities=38% Similarity=0.625 Sum_probs=13.5
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.++-||+.|+|||+..
T Consensus 32 ~~ll~Gp~G~GKT~la 47 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLA 47 (305)
T ss_pred eEEEECCCCCCHHHHH
Confidence 3667999999999865
No 382
>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=30.96 E-value=61 Score=37.42 Aligned_cols=50 Identities=24% Similarity=0.390 Sum_probs=32.2
Q ss_pred cchhhhhcCC---CCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEE
Q 005372 104 NPLIPGIFHG---RNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (699)
Q Consensus 104 ~plV~~vl~G---~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~E 166 (699)
-+-+|.++.| ...+++-.|++|+|||.. +++-+...++.....+.+||-|
T Consensus 249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l-------------~~~f~~~~~~~ge~~~y~s~eE 301 (484)
T TIGR02655 249 VVRLDEMCGGGFFKDSIILATGATGTGKTLL-------------VSKFLENACANKERAILFAYEE 301 (484)
T ss_pred hHhHHHHhcCCccCCcEEEEECCCCCCHHHH-------------HHHHHHHHHHCCCeEEEEEeeC
Confidence 3456777765 256789999999999963 3344444444444556666554
No 383
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=30.96 E-value=19 Score=43.20 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=14.7
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
.++-.|++|||||||+.
T Consensus 175 ~~lI~GpPGTGKT~t~~ 191 (637)
T TIGR00376 175 LFLIHGPPGTGKTRTLV 191 (637)
T ss_pred eEEEEcCCCCCHHHHHH
Confidence 45689999999999985
No 384
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=30.96 E-value=53 Score=30.87 Aligned_cols=34 Identities=21% Similarity=0.468 Sum_probs=28.7
Q ss_pred cCHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc
Q 005372 591 ASREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI 628 (699)
Q Consensus 591 A~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v 628 (699)
....+|..+||||+..|.-..+. ++.+++||.+.
T Consensus 50 ~~~AdL~ri~gi~~~~a~LL~~A----Gv~Tv~~LA~~ 83 (122)
T PF14229_consen 50 VNQADLMRIPGIGPQYAELLEHA----GVDTVEELAQR 83 (122)
T ss_pred HhHHHhhhcCCCCHHHHHHHHHh----CcCcHHHHHhC
Confidence 55678999999999999866654 89999999874
No 385
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=30.68 E-value=47 Score=31.90 Aligned_cols=27 Identities=19% Similarity=0.316 Sum_probs=23.2
Q ss_pred ccCHHHHhcCCCCcHHHHHHHHHHHhc
Q 005372 590 TASREELVELKGIGQRLADYICELRQS 616 (699)
Q Consensus 590 tA~~~eL~~lpGIG~k~A~~Ii~~R~~ 616 (699)
--+.|+|..+||||++..+.+=+++..
T Consensus 83 f~sveDL~~V~GIgekqk~~l~k~~~~ 109 (132)
T PRK02515 83 YDSVEDVLNLPGLSERQKELLEANLDN 109 (132)
T ss_pred CCCHHHHHcCCCCCHHHHHHHHHhhcc
Confidence 568899999999999988888888753
No 386
>CHL00181 cbbX CbbX; Provisional
Probab=30.58 E-value=22 Score=38.24 Aligned_cols=15 Identities=33% Similarity=0.450 Sum_probs=12.8
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
++-||++|+|||+..
T Consensus 62 ill~G~pGtGKT~lA 76 (287)
T CHL00181 62 MSFTGSPGTGKTTVA 76 (287)
T ss_pred EEEECCCCCCHHHHH
Confidence 677999999999864
No 387
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=30.50 E-value=21 Score=41.40 Aligned_cols=18 Identities=39% Similarity=0.445 Sum_probs=15.6
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
..+.-.|++|+|||.|+.
T Consensus 257 ~Vi~LvGpnGvGKTTTia 274 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTA 274 (484)
T ss_pred cEEEEECCCCccHHHHHH
Confidence 567889999999999974
No 388
>PRK14666 uvrC excinuclease ABC subunit C; Provisional
Probab=30.46 E-value=38 Score=40.85 Aligned_cols=29 Identities=28% Similarity=0.324 Sum_probs=25.0
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICELR 614 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R 614 (699)
-+|=.|+.++|..++|||+++|++|.++=
T Consensus 661 e~I~~AS~eELa~V~Gig~k~Ae~I~~~L 689 (694)
T PRK14666 661 QAMAAAGEEGLAAVPGIGPARAAALHEHL 689 (694)
T ss_pred HHHHhcCHHHHHhcCCcCHHHHHHHHHHH
Confidence 44447999999999999999999998863
No 389
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=30.45 E-value=55 Score=37.91 Aligned_cols=28 Identities=29% Similarity=0.453 Sum_probs=20.3
Q ss_pred chhhhhcCC---CCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHG---RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G---~N~tIfAYGqTGSGKTyTm 132 (699)
+-+|.++.| ....++.+|.+|+|||.-.
T Consensus 18 ~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~ 48 (509)
T PRK09302 18 EGFDDITHGGLPKGRPTLVSGTAGTGKTLFA 48 (509)
T ss_pred hhHHHhhcCCCCCCcEEEEEeCCCCCHHHHH
Confidence 345666653 3578889999999999643
No 390
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=30.42 E-value=27 Score=38.96 Aligned_cols=19 Identities=37% Similarity=0.595 Sum_probs=17.9
Q ss_pred CCCCEEEEeeccCCCCCcc
Q 005372 112 HGRNATVFAYGATGSGKTY 130 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTy 130 (699)
.|+.-+|+..|+.|+|||.
T Consensus 20 ~Gi~f~im~~G~sG~GKtt 38 (373)
T COG5019 20 KGIDFTIMVVGESGLGKTT 38 (373)
T ss_pred cCCceEEEEecCCCCchhH
Confidence 5999999999999999996
No 391
>PRK02362 ski2-like helicase; Provisional
Probab=30.34 E-value=54 Score=39.85 Aligned_cols=48 Identities=27% Similarity=0.395 Sum_probs=37.2
Q ss_pred CHHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhc--C-----CCHHHHHHhhcccc
Q 005372 592 SREELVELKGIGQRLADYICELRQSSPVKSLSDLEKI--G-----LSTKQVYNLFGKAA 643 (699)
Q Consensus 592 ~~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~v--G-----i~~~~~~~l~~~~~ 643 (699)
..-+|..|||||+++|.+.-+ .+|++++||... + +|.+..++|...+-
T Consensus 650 ~~~~L~~ip~i~~~~a~~l~~----~gi~s~~dl~~~~~~~l~~~~g~~~~~~i~~~~~ 704 (737)
T PRK02362 650 ELLDLVGLRGVGRVRARRLYN----AGIESRADLRAADKSVVLAILGEKIAENILEQAG 704 (737)
T ss_pred HHHHHhCCCCCCHHHHHHHHH----cCCCCHHHHHhCCHHHHHHHHCHHHHHHHHHHhC
Confidence 445788999999999987775 389999999763 2 77777777777654
No 392
>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=30.34 E-value=61 Score=32.85 Aligned_cols=25 Identities=24% Similarity=0.414 Sum_probs=17.7
Q ss_pred hhhhcC-CC--CEEEEeeccCCCCCcce
Q 005372 107 IPGIFH-GR--NATVFAYGATGSGKTYT 131 (699)
Q Consensus 107 V~~vl~-G~--N~tIfAYGqTGSGKTyT 131 (699)
+|.++. |+ ...++-+|.+|+|||.-
T Consensus 5 LD~~l~gGi~~g~~~li~G~~G~GKt~~ 32 (224)
T TIGR03880 5 LDEMLGGGFPEGHVIVVIGEYGTGKTTF 32 (224)
T ss_pred hHHHhcCCCCCCeEEEEECCCCCCHHHH
Confidence 455554 43 55677799999999864
No 393
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=30.31 E-value=20 Score=41.20 Aligned_cols=24 Identities=38% Similarity=0.714 Sum_probs=17.8
Q ss_pred EEeeccCCCCCcceeccCCCCCCchHH
Q 005372 118 VFAYGATGSGKTYTMQGSEERPGLMPL 144 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G~~~~~GIipr 144 (699)
++.||+.|||||.... .-+||+|-
T Consensus 201 Ll~~GpPGtGKTmla~---Rl~~lLPp 224 (490)
T COG0606 201 LLLVGPPGTGKTMLAS---RLPGLLPP 224 (490)
T ss_pred EEEecCCCCchHHhhh---hhcccCCC
Confidence 5779999999998763 44566653
No 394
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=30.30 E-value=25 Score=40.24 Aligned_cols=30 Identities=27% Similarity=0.488 Sum_probs=20.8
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCcceecc
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTMQG 134 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm~G 134 (699)
+..++.-+-.++|.+ -.|++|+||||.-.+
T Consensus 199 L~rl~~fve~~~Nli--~lGp~GTGKThla~~ 228 (449)
T TIGR02688 199 LARLLPLVEPNYNLI--ELGPKGTGKSYIYNN 228 (449)
T ss_pred HHhhHHHHhcCCcEE--EECCCCCCHHHHHHH
Confidence 334444445677765 569999999998765
No 395
>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=30.25 E-value=17 Score=40.14 Aligned_cols=42 Identities=19% Similarity=0.463 Sum_probs=28.3
Q ss_pred eeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
|.|..+.+++ ++ ..-++-.+++..-+-++-.|.+|+|||..+
T Consensus 1 ~pf~~ivgq~-----~~----~~al~~~~~~~~~g~vli~G~~G~gKttl~ 42 (337)
T TIGR02030 1 FPFTAIVGQD-----EM----KLALLLNVIDPKIGGVMVMGDRGTGKSTAV 42 (337)
T ss_pred CCccccccHH-----HH----HHHHHHHhcCCCCCeEEEEcCCCCCHHHHH
Confidence 5677777643 22 334555566655566888999999999876
No 396
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=30.14 E-value=23 Score=40.03 Aligned_cols=51 Identities=24% Similarity=0.292 Sum_probs=31.1
Q ss_pred eeeeceeeCCCCCcHhHHHHhhccchhh-hhcC--C--CCEEEEeeccCCCCCccee
Q 005372 81 CYQLDSFFGQEDESVSKIFYSEVNPLIP-GIFH--G--RNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 81 ~F~FD~VF~~~~~sQ~~Vf~~~v~plV~-~vl~--G--~N~tIfAYGqTGSGKTyTm 132 (699)
...|+.|-+.+. .-+++.+.+..|+.. ..+. | ....|+-||++|+|||+..
T Consensus 141 ~v~~~digGl~~-~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LA 196 (398)
T PTZ00454 141 DVTYSDIGGLDI-QKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLA 196 (398)
T ss_pred CCCHHHcCCHHH-HHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHH
Confidence 367888877643 334444444445443 2332 2 2356888999999999865
No 397
>PHA01747 putative ATP-dependent protease
Probab=30.08 E-value=29 Score=38.99 Aligned_cols=33 Identities=24% Similarity=0.396 Sum_probs=26.5
Q ss_pred HhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 100 YSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 100 ~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
=.-+-|+|+.-..+.|.-++=.|+.|+||||+.
T Consensus 175 L~RLiPlVE~~~~~~NyNliELgPRGTGKS~~f 207 (425)
T PHA01747 175 LPRLLPLFTSPVSKRPVHIIELSNRGTGKTTTF 207 (425)
T ss_pred HHhhhhheeccCCCCCeeEEEecCCCCChhhHH
Confidence 333567888666788888999999999999974
No 398
>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=30.04 E-value=18 Score=39.94 Aligned_cols=29 Identities=38% Similarity=0.532 Sum_probs=21.3
Q ss_pred ccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 103 VNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 103 v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
...++..++.+. ..|+-.|.||||||.+|
T Consensus 167 ~~~~L~~~v~~~-~~ili~G~tGsGKTTll 195 (340)
T TIGR03819 167 VARLLRAIVAAR-LAFLISGGTGSGKTTLL 195 (340)
T ss_pred HHHHHHHHHhCC-CeEEEECCCCCCHHHHH
Confidence 445566666643 67888899999999765
No 399
>PRK05973 replicative DNA helicase; Provisional
Probab=30.04 E-value=70 Score=33.63 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=27.9
Q ss_pred hhhhcCCCC--EEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEEEE
Q 005372 107 IPGIFHGRN--ATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISYYE 166 (699)
Q Consensus 107 V~~vl~G~N--~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~~E 166 (699)
.+.+..|+. ..++.+|.+|+|||.. +++-++..+......+.+|+-|
T Consensus 54 ~~~l~GGl~~Gsl~LIaG~PG~GKT~l-------------alqfa~~~a~~Ge~vlyfSlEe 102 (237)
T PRK05973 54 AEELFSQLKPGDLVLLGARPGHGKTLL-------------GLELAVEAMKSGRTGVFFTLEY 102 (237)
T ss_pred HHHhcCCCCCCCEEEEEeCCCCCHHHH-------------HHHHHHHHHhcCCeEEEEEEeC
Confidence 344556653 3567789999999964 3444455444433445555443
No 400
>CHL00176 ftsH cell division protein; Validated
Probab=29.93 E-value=14 Score=44.30 Aligned_cols=17 Identities=35% Similarity=0.530 Sum_probs=14.7
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
-.|+-||++|+|||+..
T Consensus 217 ~gVLL~GPpGTGKT~LA 233 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLA 233 (638)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 35889999999999875
No 401
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=29.93 E-value=69 Score=35.15 Aligned_cols=47 Identities=19% Similarity=0.380 Sum_probs=34.5
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh---------c-CCCHHHHHHhhccc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSDLEK---------I-GLSTKQVYNLFGKA 642 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~---------v-Gi~~~~~~~l~~~~ 642 (699)
..+|..+||+|+|+....-++= .++++++|++ + |.|.+.-++|...+
T Consensus 92 l~~Ll~v~GlGpkKi~~Ly~el---gi~~~e~l~~a~~~~~~~~l~GfG~kse~~il~~i 148 (326)
T COG1796 92 LEPLLKVPGLGPKKIVSLYKEL---GIKDLEELQEALENGKIRGLRGFGKKSEAKILENI 148 (326)
T ss_pred hHHHhhCCCCCcHHHHHHHHHH---CcccHHHHHHHHHhCCccccCCccchhHHHHHHHH
Confidence 8999999999997655444433 7999999864 3 57777777665544
No 402
>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=29.89 E-value=21 Score=38.22 Aligned_cols=16 Identities=31% Similarity=0.387 Sum_probs=13.5
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
-++-+|++|+|||+.-
T Consensus 60 ~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVA 75 (284)
T ss_pred eEEEEcCCCCCHHHHH
Confidence 4778999999999764
No 403
>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=29.71 E-value=29 Score=41.96 Aligned_cols=21 Identities=29% Similarity=0.501 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|.||+.-|.+|||||.+.
T Consensus 89 ~~~~QsIiisGESGaGKTe~~ 109 (677)
T smart00242 89 DKENQSIIISGESGAGKTENT 109 (677)
T ss_pred cCCCceEEEecCCCCcchHHH
Confidence 589999999999999999987
No 404
>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=29.61 E-value=22 Score=34.57 Aligned_cols=16 Identities=25% Similarity=0.654 Sum_probs=13.6
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+..|++|||||..+
T Consensus 3 ~~~i~G~sGsGKttl~ 18 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLL 18 (179)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4678899999999865
No 405
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=29.10 E-value=30 Score=34.93 Aligned_cols=29 Identities=24% Similarity=0.337 Sum_probs=20.6
Q ss_pred cchhhhhcCC-C--CEEEEeeccCCCCCccee
Q 005372 104 NPLIPGIFHG-R--NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 104 ~plV~~vl~G-~--N~tIfAYGqTGSGKTyTm 132 (699)
-+-+|.++.| + ...+.-+|++|+|||..+
T Consensus 5 ~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~ 36 (226)
T cd01393 5 SKALDELLGGGIPTGRITEIFGEFGSGKTQLC 36 (226)
T ss_pred cHHHHHHhCCCCcCCcEEEEeCCCCCChhHHH
Confidence 3456677753 3 446777999999999764
No 406
>PRK14668 uvrC excinuclease ABC subunit C; Provisional
Probab=29.01 E-value=42 Score=39.82 Aligned_cols=28 Identities=32% Similarity=0.478 Sum_probs=24.1
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICEL 613 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~~ 613 (699)
-+|=.|+.++|..+||||+++|++|.++
T Consensus 549 ~~I~~As~eeL~~vpGi~~~~A~~I~~~ 576 (577)
T PRK14668 549 EGVREASVEDLRDVPGVGEKTAETIRER 576 (577)
T ss_pred HHHHhCCHHHHHhCCCCCHHHHHHHHHh
Confidence 3444799999999999999999999764
No 407
>PRK10865 protein disaggregation chaperone; Provisional
Probab=28.98 E-value=26 Score=43.40 Aligned_cols=17 Identities=35% Similarity=0.475 Sum_probs=14.6
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+.++-+|++|+|||++.
T Consensus 599 ~~~Lf~Gp~G~GKT~lA 615 (857)
T PRK10865 599 GSFLFLGPTGVGKTELC 615 (857)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 57788899999999965
No 408
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=28.81 E-value=26 Score=38.38 Aligned_cols=50 Identities=24% Similarity=0.551 Sum_probs=32.9
Q ss_pred eeeceeeCCCCCcHhHHHHhhccch-hhhhcCCCC---EEEEeeccCCCCCccee
Q 005372 82 YQLDSFFGQEDESVSKIFYSEVNPL-IPGIFHGRN---ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 82 F~FD~VF~~~~~sQ~~Vf~~~v~pl-V~~vl~G~N---~tIfAYGqTGSGKTyTm 132 (699)
-.++-|-+-+..- +.+-+.++-|+ ..++|-|.- ..|+.||+.|+||+|.-
T Consensus 130 VkWsDVAGLE~AK-eALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLA 183 (439)
T KOG0739|consen 130 VKWSDVAGLEGAK-EALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLA 183 (439)
T ss_pred CchhhhccchhHH-HHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHH
Confidence 3556666655423 44555555554 456676654 67999999999999954
No 409
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=28.67 E-value=21 Score=40.77 Aligned_cols=16 Identities=44% Similarity=0.735 Sum_probs=13.5
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+-||++|+|||++.
T Consensus 219 gVLL~GPPGTGKT~LA 234 (438)
T PTZ00361 219 GVILYGPPGTGKTLLA 234 (438)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4777999999999765
No 410
>PRK06851 hypothetical protein; Provisional
Probab=28.63 E-value=50 Score=37.01 Aligned_cols=28 Identities=32% Similarity=0.512 Sum_probs=22.3
Q ss_pred chhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.+.+.+++|.+-.++--|.+|+|||++|
T Consensus 20 s~~~~~~~~~~~~~il~G~pGtGKStl~ 47 (367)
T PRK06851 20 SLYDSIIDGANRIFILKGGPGTGKSTLM 47 (367)
T ss_pred hhhhhhccccceEEEEECCCCCCHHHHH
Confidence 3445566777888899999999999876
No 411
>PHA02653 RNA helicase NPH-II; Provisional
Probab=28.58 E-value=30 Score=41.82 Aligned_cols=24 Identities=25% Similarity=0.367 Sum_probs=17.9
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCcce
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
++..+.+|.+. +..|+||||||..
T Consensus 172 il~~i~~gkdv--Iv~A~TGSGKTtq 195 (675)
T PHA02653 172 IFEAWISRKPV--VLTGGTGVGKTSQ 195 (675)
T ss_pred HHHHHHhCCCE--EEECCCCCCchhH
Confidence 44455667654 8899999999975
No 412
>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=28.58 E-value=26 Score=32.36 Aligned_cols=14 Identities=36% Similarity=0.546 Sum_probs=11.9
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+-.|++|||||..
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 56789999999974
No 413
>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=28.15 E-value=36 Score=34.55 Aligned_cols=27 Identities=26% Similarity=0.304 Sum_probs=19.4
Q ss_pred hhhhhcC-CC--CEEEEeeccCCCCCccee
Q 005372 106 LIPGIFH-GR--NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~-G~--N~tIfAYGqTGSGKTyTm 132 (699)
-+|.++. |+ ...+.-+|++|+|||+..
T Consensus 8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~ 37 (229)
T TIGR03881 8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFC 37 (229)
T ss_pred hHHHhhcCCCcCCeEEEEECCCCCChHHHH
Confidence 3455553 43 567888999999999754
No 414
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=28.11 E-value=33 Score=37.14 Aligned_cols=27 Identities=41% Similarity=0.426 Sum_probs=23.6
Q ss_pred ccCcccCHHHHhcCCCCcHHHHHHHHH
Q 005372 586 DFLNTASREELVELKGIGQRLADYICE 612 (699)
Q Consensus 586 v~iNtA~~~eL~~lpGIG~k~A~~Ii~ 612 (699)
..|=.|+.++|..+.|||+..|++|=+
T Consensus 317 ~~il~As~edL~~VeGIGe~rAr~i~~ 343 (349)
T COG1623 317 DGILEASAEDLDAVEGIGEARARAIKE 343 (349)
T ss_pred HHHHHhcHhHHhhhcchhHHHHHHHHH
Confidence 345589999999999999999999865
No 415
>PRK06217 hypothetical protein; Validated
Probab=27.96 E-value=26 Score=34.53 Aligned_cols=14 Identities=43% Similarity=0.610 Sum_probs=12.2
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+-.|.+|||||+.
T Consensus 4 I~i~G~~GsGKSTl 17 (183)
T PRK06217 4 IHITGASGSGTTTL 17 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 77889999999964
No 416
>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=27.96 E-value=22 Score=31.63 Aligned_cols=15 Identities=33% Similarity=0.629 Sum_probs=12.5
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|+..|..|+|||..+
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 577899999999754
No 417
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=27.90 E-value=29 Score=41.03 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=14.8
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
-..+-.|+.|+|||||+.
T Consensus 202 ~l~~I~GPPGTGKT~Tlv 219 (649)
T KOG1803|consen 202 DLLIIHGPPGTGKTRTLV 219 (649)
T ss_pred CceEeeCCCCCCceeeHH
Confidence 345668999999999984
No 418
>PRK08233 hypothetical protein; Provisional
Probab=27.76 E-value=27 Score=33.74 Aligned_cols=16 Identities=25% Similarity=0.312 Sum_probs=12.2
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|.--|++|||||+..
T Consensus 5 iI~I~G~~GsGKtTla 20 (182)
T PRK08233 5 IITIAAVSGGGKTTLT 20 (182)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3455799999999753
No 419
>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=27.73 E-value=75 Score=33.45 Aligned_cols=37 Identities=8% Similarity=0.108 Sum_probs=23.9
Q ss_pred CEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEEEE
Q 005372 115 NATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEISY 164 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~vS~ 164 (699)
..+++-+|.+|+|||.- +++-++..+......+.+|+
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 46788899999999862 34445554444444555654
No 420
>PRK14531 adenylate kinase; Provisional
Probab=27.72 E-value=28 Score=34.41 Aligned_cols=15 Identities=27% Similarity=0.507 Sum_probs=12.8
Q ss_pred EEEeeccCCCCCcce
Q 005372 117 TVFAYGATGSGKTYT 131 (699)
Q Consensus 117 tIfAYGqTGSGKTyT 131 (699)
-|+.+|..|||||+.
T Consensus 4 ~i~i~G~pGsGKsT~ 18 (183)
T PRK14531 4 RLLFLGPPGAGKGTQ 18 (183)
T ss_pred EEEEECCCCCCHHHH
Confidence 378899999999875
No 421
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=27.54 E-value=33 Score=39.88 Aligned_cols=25 Identities=40% Similarity=0.638 Sum_probs=18.9
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.+..++.|.|. ++..+||||||...
T Consensus 151 aip~il~g~dv--iv~ApTGSGKTlay 175 (518)
T PLN00206 151 AIPAALSGRSL--LVSADTGSGKTASF 175 (518)
T ss_pred HHHHHhcCCCE--EEEecCCCCccHHH
Confidence 35567788874 66779999999753
No 422
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=27.53 E-value=31 Score=37.16 Aligned_cols=41 Identities=27% Similarity=0.480 Sum_probs=27.3
Q ss_pred EEEeeccCCCCCcceec--------------cCC---CCCCchHHHHHHHHHhhhcCC
Q 005372 117 TVFAYGATGSGKTYTMQ--------------GSE---ERPGLMPLAMSKILSICQSTG 157 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~--------------G~~---~~~GIipral~~LF~~~~~~~ 157 (699)
.|+.||+.|+|||..-- |++ .--|==.|.+++||++.....
T Consensus 213 gvllygppgtgktl~aravanrtdacfirvigselvqkyvgegarmvrelf~martkk 270 (435)
T KOG0729|consen 213 GVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELVQKYVGEGARMVRELFEMARTKK 270 (435)
T ss_pred ceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHHHHHhhhhHHHHHHHHHHhcccc
Confidence 58999999999997542 221 011333588899998775543
No 423
>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=27.43 E-value=33 Score=36.55 Aligned_cols=34 Identities=21% Similarity=0.259 Sum_probs=23.0
Q ss_pred HHhhccchhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 99 FYSEVNPLIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 99 f~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
|...+..+|.+.=..-+.+|.-||+=|||||+-|
T Consensus 4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l 37 (325)
T PF07693_consen 4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFL 37 (325)
T ss_pred HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHH
Confidence 3333444444432356789999999999999865
No 424
>PRK10880 adenine DNA glycosylase; Provisional
Probab=27.32 E-value=69 Score=35.68 Aligned_cols=58 Identities=16% Similarity=0.375 Sum_probs=42.2
Q ss_pred cccCcccCHHHHhc-CCCCcH--------HHHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhcccc
Q 005372 585 IDFLNTASREELVE-LKGIGQ--------RLADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKAA 643 (699)
Q Consensus 585 ~v~iNtA~~~eL~~-lpGIG~--------k~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~~ 643 (699)
+-.|-.|+.++|.. +.|+|= +.|+.|++..... | .+.++|.++ |||+++..-+..-..
T Consensus 62 ~~~La~a~~eel~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~p-~~~~~L~~LpGIG~~TA~aIl~~af 130 (350)
T PRK10880 62 VTDLANAPLDEVLHLWTGLGYYARARNLHKAAQQVATLHGGEFP-ETFEEVAALPGVGRSTAGAILSLSL 130 (350)
T ss_pred HHHHHCcCHHHHHHHHHcCChHHHHHHHHHHHHHHHHHhCCCch-hhHHHHhcCCCccHHHHHHHHHHHC
Confidence 34566889999865 688887 5666666654333 4 678999999 999999887775444
No 425
>KOG2875 consensus 8-oxoguanine DNA glycosylase [Replication, recombination and repair]
Probab=27.29 E-value=33 Score=36.92 Aligned_cols=20 Identities=50% Similarity=0.929 Sum_probs=17.2
Q ss_pred HHHHhcCCCCcHHHHHHHHH
Q 005372 593 REELVELKGIGQRLADYICE 612 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~ 612 (699)
.++|..|||||+|.|+=|.=
T Consensus 217 r~~L~~lpGVG~KVADCI~L 236 (323)
T KOG2875|consen 217 REALCSLPGVGPKVADCICL 236 (323)
T ss_pred HHHHhcCCCCcchHhhhhhh
Confidence 36799999999999998764
No 426
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=26.98 E-value=28 Score=39.79 Aligned_cols=25 Identities=28% Similarity=0.387 Sum_probs=19.2
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
.+..+++|.|+.+ ..+||||||.+.
T Consensus 117 ai~~~~~G~dvi~--~apTGSGKTlay 141 (475)
T PRK01297 117 VLGYTLAGHDAIG--RAQTGTGKTAAF 141 (475)
T ss_pred HHHHHhCCCCEEE--ECCCCChHHHHH
Confidence 4567789988654 569999999764
No 427
>KOG1534 consensus Putative transcription factor FET5 [Transcription]
Probab=26.94 E-value=70 Score=33.51 Aligned_cols=32 Identities=25% Similarity=0.549 Sum_probs=24.8
Q ss_pred EEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeEE
Q 005372 117 TVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAEI 162 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~v 162 (699)
.+|..|+.||||+. .+..++++++..+.++.+
T Consensus 5 a~lV~GpAgSGKST--------------yC~~~~~h~e~~gRs~~v 36 (273)
T KOG1534|consen 5 AQLVMGPAGSGKST--------------YCSSMYEHCETVGRSVHV 36 (273)
T ss_pred eEEEEccCCCCcch--------------HHHHHHHHHHhhCceeEE
Confidence 56889999999974 467788888877766554
No 428
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=26.89 E-value=36 Score=38.56 Aligned_cols=43 Identities=30% Similarity=0.490 Sum_probs=27.4
Q ss_pred eeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005372 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 83 ~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
+||.|+++ +.+.. ..+++=.-+-.|.-...+-||+.|+|||..
T Consensus 22 ~lde~vGQ-----~HLlg-~~~~lrr~v~~~~l~SmIl~GPPG~GKTTl 64 (436)
T COG2256 22 SLDEVVGQ-----EHLLG-EGKPLRRAVEAGHLHSMILWGPPGTGKTTL 64 (436)
T ss_pred CHHHhcCh-----HhhhC-CCchHHHHHhcCCCceeEEECCCCCCHHHH
Confidence 56666653 33432 244444444456667788899999999963
No 429
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.82 E-value=22 Score=41.06 Aligned_cols=41 Identities=20% Similarity=0.347 Sum_probs=25.1
Q ss_pred eeceeeCCCCCcHhHHHHhhccchhhhhcCCC-CEEEEeeccCCCCCccee
Q 005372 83 QLDSFFGQEDESVSKIFYSEVNPLIPGIFHGR-NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 83 ~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~-N~tIfAYGqTGSGKTyTm 132 (699)
.||.+.+++. + ++.+...+-.|. ...++-||+.|+|||++.
T Consensus 12 ~~~divGq~~-----i----~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA 53 (472)
T PRK14962 12 TFSEVVGQDH-----V----KKLIINALKKNSISHAYIFAGPRGTGKTTVA 53 (472)
T ss_pred CHHHccCcHH-----H----HHHHHHHHHcCCCCeEEEEECCCCCCHHHHH
Confidence 6778887532 2 222222233343 345788999999999875
No 430
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=26.82 E-value=47 Score=36.63 Aligned_cols=26 Identities=27% Similarity=0.305 Sum_probs=23.0
Q ss_pred hcCCCCcHHHHHHHHHHHhcCCCCCHHHHhh
Q 005372 597 VELKGIGQRLADYICELRQSSPVKSLSDLEK 627 (699)
Q Consensus 597 ~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~ 627 (699)
..|||||+|+|-++|. -|.+++.+.+
T Consensus 239 ~Gv~GIG~ktA~kli~-----~~gsie~il~ 264 (338)
T TIGR03674 239 EGVKGIGPKTALKLIK-----EHGDLEKVLK 264 (338)
T ss_pred CCCCCccHHHHHHHHH-----HcCCHHHHHH
Confidence 5799999999999998 5888888866
No 431
>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=26.71 E-value=30 Score=33.58 Aligned_cols=16 Identities=38% Similarity=0.615 Sum_probs=13.3
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+..|..|||||+..
T Consensus 5 ii~i~G~~GsGKsTl~ 20 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQC 20 (188)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4677999999999865
No 432
>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=26.70 E-value=39 Score=40.88 Aligned_cols=21 Identities=33% Similarity=0.498 Sum_probs=19.7
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|-||+.-|.+|||||.+.
T Consensus 89 ~~~~QsIiisGESGaGKTe~~ 109 (677)
T cd01383 89 DEVNQSIIISGESGAGKTETA 109 (677)
T ss_pred cCCCceEEEecCCCCCcchHH
Confidence 589999999999999999986
No 433
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=26.63 E-value=28 Score=35.39 Aligned_cols=16 Identities=38% Similarity=0.538 Sum_probs=13.8
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+..|.||||||.+.
T Consensus 2 ~IlllG~tGsGKSs~~ 17 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLG 17 (212)
T ss_dssp EEEEECSTTSSHHHHH
T ss_pred EEEEECCCCCCHHHHH
Confidence 5888999999999764
No 434
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=26.58 E-value=29 Score=32.04 Aligned_cols=17 Identities=35% Similarity=0.431 Sum_probs=13.5
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
-.+.-.|++|||||.++
T Consensus 16 e~v~I~GpSGsGKSTLl 32 (107)
T cd00820 16 VGVLITGDSGIGKTELA 32 (107)
T ss_pred EEEEEEcCCCCCHHHHH
Confidence 34566799999999876
No 435
>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=26.44 E-value=25 Score=42.91 Aligned_cols=19 Identities=37% Similarity=0.691 Sum_probs=15.4
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
|.-++..|.||||||++|.
T Consensus 430 n~n~~I~G~tGsGKS~~~~ 448 (797)
T TIGR02746 430 NYNIAVVGGSGAGKSFFMQ 448 (797)
T ss_pred ccceEEEcCCCCCHHHHHH
Confidence 4446778999999999874
No 436
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=26.44 E-value=32 Score=36.06 Aligned_cols=14 Identities=36% Similarity=0.636 Sum_probs=11.1
Q ss_pred EeeccCCCCCccee
Q 005372 119 FAYGATGSGKTYTM 132 (699)
Q Consensus 119 fAYGqTGSGKTyTm 132 (699)
.-.|++|||||..+
T Consensus 32 ~iiGpSGSGKSTlL 45 (240)
T COG1126 32 VIIGPSGSGKSTLL 45 (240)
T ss_pred EEECCCCCCHHHHH
Confidence 34699999999754
No 437
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=26.42 E-value=40 Score=34.56 Aligned_cols=36 Identities=19% Similarity=0.149 Sum_probs=21.9
Q ss_pred HHHHhhccchhhhhcC-CCCEEEEeeccCCCCCccee
Q 005372 97 KIFYSEVNPLIPGIFH-GRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 97 ~Vf~~~v~plV~~vl~-G~N~tIfAYGqTGSGKTyTm 132 (699)
.+|...+.-+....-. +..-.|.-.|.+|||||+.+
T Consensus 14 ~~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~ 50 (229)
T PRK09270 14 AVHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLA 50 (229)
T ss_pred HHHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHH
Confidence 4454444444333322 45556677799999999754
No 438
>PRK14532 adenylate kinase; Provisional
Probab=26.36 E-value=31 Score=33.94 Aligned_cols=15 Identities=20% Similarity=0.503 Sum_probs=12.8
Q ss_pred EEEeeccCCCCCcce
Q 005372 117 TVFAYGATGSGKTYT 131 (699)
Q Consensus 117 tIfAYGqTGSGKTyT 131 (699)
.|+..|..|||||+.
T Consensus 2 ~i~~~G~pGsGKsT~ 16 (188)
T PRK14532 2 NLILFGPPAAGKGTQ 16 (188)
T ss_pred EEEEECCCCCCHHHH
Confidence 378899999999865
No 439
>CHL00195 ycf46 Ycf46; Provisional
Probab=26.35 E-value=28 Score=40.44 Aligned_cols=17 Identities=29% Similarity=0.526 Sum_probs=14.6
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
-.|+-||+.|+|||++.
T Consensus 260 kGILL~GPpGTGKTllA 276 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTA 276 (489)
T ss_pred ceEEEECCCCCcHHHHH
Confidence 46899999999999764
No 440
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=26.32 E-value=72 Score=26.55 Aligned_cols=26 Identities=27% Similarity=0.466 Sum_probs=22.6
Q ss_pred cccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 589 NTASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 589 NtA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
.|.+.++|..+ |.++..|+.||..=+
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 999999999997643
No 441
>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=26.22 E-value=27 Score=40.79 Aligned_cols=16 Identities=44% Similarity=0.742 Sum_probs=13.4
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+-||++|+|||+..
T Consensus 218 GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIA 233 (512)
T ss_pred ceEEECCCCCcHHHHH
Confidence 4788999999999753
No 442
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=26.19 E-value=35 Score=35.52 Aligned_cols=29 Identities=24% Similarity=0.251 Sum_probs=21.1
Q ss_pred ccchhhhhcC--CCCEEEEeeccCCCCCcce
Q 005372 103 VNPLIPGIFH--GRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 103 v~plV~~vl~--G~N~tIfAYGqTGSGKTyT 131 (699)
+..+.+.+.+ .-...|.-+|..|.|||..
T Consensus 5 ~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~L 35 (287)
T PF00931_consen 5 IEKLKDWLLDNSNEVRVVAIVGMGGIGKTTL 35 (287)
T ss_dssp HHHHHHHHHTTTTSSEEEEEEESTTSSHHHH
T ss_pred HHHHHHHhhCCCCCeEEEEEEcCCcCCccee
Confidence 3444555555 6677889999999999974
No 443
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=26.05 E-value=62 Score=33.43 Aligned_cols=50 Identities=30% Similarity=0.359 Sum_probs=38.6
Q ss_pred ccCHHHHhcC-CC----CcHHHHHHHHHHHhc----------C--CCCCHHHHh-hc-CCCHHHHHHhh
Q 005372 590 TASREELVEL-KG----IGQRLADYICELRQS----------S--PVKSLSDLE-KI-GLSTKQVYNLF 639 (699)
Q Consensus 590 tA~~~eL~~l-pG----IG~k~A~~Ii~~R~~----------~--pf~~~~dL~-~v-Gi~~~~~~~l~ 639 (699)
.++.++|+.+ .. .-..+|++|++.++. . .....++|. ++ |||+|+..-+.
T Consensus 68 ~~~~eeL~~~Ir~~Gygf~~~KAk~I~~~~~~~~~l~~~~~~~~~~~~~R~~Ll~~lpGIG~KTAd~vL 136 (208)
T PRK01229 68 YLSEEELEEKLKEVGHRFYNKRAEYIVEARKLYGKLKEIIKADKDQFEAREFLVKNIKGIGYKEASHFL 136 (208)
T ss_pred CCCHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHhccCCchHHHHHHHHcCCCCcHHHHHHHH
Confidence 6788888764 33 559999999887753 1 356778898 89 99999988877
No 444
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=25.97 E-value=80 Score=38.23 Aligned_cols=42 Identities=24% Similarity=0.340 Sum_probs=25.1
Q ss_pred CCCCcHHHHHHHHH--------HHhc-C-CCCCHHHHhhc-CCCHHHHHHhhc
Q 005372 599 LKGIGQRLADYICE--------LRQS-S-PVKSLSDLEKI-GLSTKQVYNLFG 640 (699)
Q Consensus 599 lpGIG~k~A~~Ii~--------~R~~-~-pf~~~~dL~~v-Gi~~~~~~~l~~ 640 (699)
||+||+..|+.+.+ .++. . +-.+.+||.+| |||++..+.|.+
T Consensus 507 I~~vG~~~ak~La~~~f~~~~~l~~~~~~~~~~~e~l~~i~giG~~~a~si~~ 559 (669)
T PRK14350 507 IKDLGENTILLLINNNLNSFDKISTLCQDREFALSKLLKIKGIGEKIALNIIE 559 (669)
T ss_pred CCchhHHHHHHHHHHhhCCHHHHHhhhhccCCCHHHHhhCCCccHHHHHHHHH
Confidence 66666666665552 1110 0 11356678888 999988777653
No 445
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=25.92 E-value=25 Score=38.28 Aligned_cols=19 Identities=32% Similarity=0.511 Sum_probs=15.1
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
.-+|+-.|.||||||+.|.
T Consensus 143 ~~siii~G~t~sGKTt~ln 161 (312)
T COG0630 143 RKSIIICGGTASGKTTLLN 161 (312)
T ss_pred CCcEEEECCCCCCHHHHHH
Confidence 3456778999999998874
No 446
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=25.78 E-value=28 Score=39.66 Aligned_cols=18 Identities=44% Similarity=0.588 Sum_probs=15.6
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
..|+-.|++|+|||+|+.
T Consensus 242 ~vI~LVGptGvGKTTTia 259 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLA 259 (436)
T ss_pred cEEEEECCCCCcHHHHHH
Confidence 568889999999999874
No 447
>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=25.70 E-value=23 Score=39.68 Aligned_cols=17 Identities=29% Similarity=0.473 Sum_probs=0.0
Q ss_pred EEeeccCCCCCcceecc
Q 005372 118 VFAYGATGSGKTYTMQG 134 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G 134 (699)
+++||..||||||++..
T Consensus 5 ~v~~GGrGS~KS~~~a~ 21 (387)
T PF04466_consen 5 IVLKGGRGSGKSSFIAQ 21 (387)
T ss_dssp -----------------
T ss_pred EEEECCCCchHHHHHHH
Confidence 56899999999999865
No 448
>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=25.69 E-value=36 Score=39.66 Aligned_cols=47 Identities=21% Similarity=0.360 Sum_probs=30.1
Q ss_pred CceeeeeceeeCCCCCcHhHHHHhhccchhhhhcCCCCEEEEeeccCCCCCcce
Q 005372 78 RSECYQLDSFFGQEDESVSKIFYSEVNPLIPGIFHGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 78 ~~~~F~FD~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~N~tIfAYGqTGSGKTyT 131 (699)
+...|.||.+++... .-..+. ..+..+ ...+..|+-+|.+||||++.
T Consensus 189 ~~~~~~~~~liG~s~-~~~~~~-----~~~~~~-a~~~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 189 RRRSGKEDGIIGKSP-AMRQVV-----DQARVV-ARSNSTVLLRGESGTGKELI 235 (534)
T ss_pred ccccCccCceEECCH-HHHHHH-----HHHHHH-hCcCCCEEEECCCCccHHHH
Confidence 344589999998643 212222 223332 25677889999999999864
No 449
>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=25.69 E-value=34 Score=36.54 Aligned_cols=19 Identities=32% Similarity=0.501 Sum_probs=14.7
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
..+|...|++|+|||.|..
T Consensus 72 ~~vi~l~G~~G~GKTTt~a 90 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIA 90 (272)
T ss_pred CeEEEEECCCCCcHHHHHH
Confidence 3456566999999999864
No 450
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=25.66 E-value=27 Score=31.51 Aligned_cols=16 Identities=19% Similarity=0.378 Sum_probs=13.1
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
-|..+|.+|||||..+
T Consensus 3 ki~~~G~~~~GKstl~ 18 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLL 18 (161)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3667899999999854
No 451
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=25.56 E-value=31 Score=28.86 Aligned_cols=15 Identities=33% Similarity=0.457 Sum_probs=11.8
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
++.+|..|+|||.+.
T Consensus 2 ~~~~g~~G~Gktt~~ 16 (99)
T cd01983 2 IVVTGKGGVGKTTLA 16 (99)
T ss_pred EEEECCCCCCHHHHH
Confidence 456788899999875
No 452
>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=25.54 E-value=27 Score=34.71 Aligned_cols=15 Identities=40% Similarity=0.490 Sum_probs=12.3
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
|.--|++|||||+++
T Consensus 2 igi~G~~GsGKSTl~ 16 (198)
T cd02023 2 IGIAGGSGSGKTTVA 16 (198)
T ss_pred EEEECCCCCCHHHHH
Confidence 445799999999875
No 453
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=25.54 E-value=32 Score=36.93 Aligned_cols=14 Identities=50% Similarity=0.923 Sum_probs=12.5
Q ss_pred EEEeeccCCCCCcc
Q 005372 117 TVFAYGATGSGKTY 130 (699)
Q Consensus 117 tIfAYGqTGSGKTy 130 (699)
.++.||+.|+|||.
T Consensus 207 GvLmYGPPGTGKTl 220 (424)
T KOG0652|consen 207 GVLMYGPPGTGKTL 220 (424)
T ss_pred ceEeeCCCCCcHHH
Confidence 58899999999984
No 454
>PHA02624 large T antigen; Provisional
Probab=25.51 E-value=35 Score=40.70 Aligned_cols=27 Identities=22% Similarity=0.165 Sum_probs=20.7
Q ss_pred hhhhhcCCCCE--EEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNA--TVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~--tIfAYGqTGSGKTyTm 132 (699)
+++.++.|... |++-||+.|||||+-.
T Consensus 420 ~lk~~l~giPKk~~il~~GPpnTGKTtf~ 448 (647)
T PHA02624 420 ILKLIVENVPKRRYWLFKGPVNSGKTTLA 448 (647)
T ss_pred HHHHHHhcCCCCeEEEEECCCCCCHHHHH
Confidence 35566677655 8999999999999743
No 455
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=25.50 E-value=30 Score=39.15 Aligned_cols=19 Identities=37% Similarity=0.476 Sum_probs=15.6
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
.-.+.-.|++|+|||+|+.
T Consensus 206 ~~ii~lvGptGvGKTTt~a 224 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLV 224 (407)
T ss_pred CeEEEEECCCCCCHHHHHH
Confidence 3457788999999999975
No 456
>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=25.50 E-value=41 Score=40.60 Aligned_cols=22 Identities=27% Similarity=0.521 Sum_probs=20.1
Q ss_pred CCCCEEEEeeccCCCCCcceec
Q 005372 112 HGRNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|.|-||+.-|.+|||||.+..
T Consensus 83 ~~~~QsIiisGESGaGKTes~K 104 (671)
T cd01381 83 EKKNQCIIISGESGAGKTESTK 104 (671)
T ss_pred cCCCceEEEEcCCCCCeehHHH
Confidence 5899999999999999999863
No 457
>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=25.47 E-value=40 Score=40.88 Aligned_cols=21 Identities=33% Similarity=0.453 Sum_probs=19.6
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|-||+.-|.+|||||.|.
T Consensus 91 ~~~~QsIiisGESGAGKTet~ 111 (692)
T cd01385 91 KKVNQCIVISGESGSGKTEST 111 (692)
T ss_pred cCCCceEEEecCCCCCchHHH
Confidence 588999999999999999987
No 458
>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=25.40 E-value=49 Score=30.32 Aligned_cols=43 Identities=35% Similarity=0.473 Sum_probs=28.4
Q ss_pred HHHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhc
Q 005372 593 REELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFG 640 (699)
Q Consensus 593 ~~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~ 640 (699)
.-.|..|.|||+.+|..|.+.=.-.|...+.|| +..++++|..
T Consensus 14 ~~aLt~IyGIG~~~A~~Ic~~lgi~~~~~~~~L-----s~~~i~~l~~ 56 (107)
T PF00416_consen 14 YIALTKIYGIGRRKAKQICKKLGINPNKKVGDL-----SDEQIDKLRK 56 (107)
T ss_dssp HHHHTTSTTBCHHHHHHHHHHTTS-SSSBTTTS-----THHHHHHHHH
T ss_pred HhHHhhhhccCHHHHHHHHHHcCCChhhhcccC-----CHHHHHHHHH
Confidence 457999999999999999886533355444443 4444444443
No 459
>PRK06696 uridine kinase; Validated
Probab=25.27 E-value=41 Score=34.34 Aligned_cols=20 Identities=40% Similarity=0.270 Sum_probs=16.0
Q ss_pred CCCCEEEEeeccCCCCCcce
Q 005372 112 HGRNATVFAYGATGSGKTYT 131 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyT 131 (699)
.+....|.--|.+|||||+.
T Consensus 19 ~~~~~iI~I~G~sgsGKSTl 38 (223)
T PRK06696 19 LTRPLRVAIDGITASGKTTF 38 (223)
T ss_pred CCCceEEEEECCCCCCHHHH
Confidence 45566788889999999975
No 460
>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=25.22 E-value=32 Score=32.83 Aligned_cols=16 Identities=38% Similarity=0.482 Sum_probs=13.1
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|.-+|+.|||||+..
T Consensus 2 iI~i~G~~GSGKstia 17 (171)
T TIGR02173 2 IITISGPPGSGKTTVA 17 (171)
T ss_pred EEEEECCCCCCHHHHH
Confidence 3678999999998754
No 461
>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=25.12 E-value=27 Score=34.81 Aligned_cols=14 Identities=43% Similarity=0.506 Sum_probs=11.8
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|.-.|++|||||+.
T Consensus 2 IgI~G~sgSGKTTl 15 (194)
T PF00485_consen 2 IGIAGPSGSGKTTL 15 (194)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 55679999999975
No 462
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=25.09 E-value=31 Score=39.33 Aligned_cols=19 Identities=37% Similarity=0.399 Sum_probs=16.0
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...|...|++|+|||.|+.
T Consensus 191 g~vi~lvGpnG~GKTTtla 209 (420)
T PRK14721 191 GGVYALIGPTGVGKTTTTA 209 (420)
T ss_pred CcEEEEECCCCCCHHHHHH
Confidence 3567889999999999974
No 463
>PRK14672 uvrC excinuclease ABC subunit C; Provisional
Probab=25.08 E-value=47 Score=40.05 Aligned_cols=51 Identities=12% Similarity=0.112 Sum_probs=35.8
Q ss_pred Cccccchhhhhhhhhcccc--ccccCcccCHHHHhcCCCCcHHHHHHHHHHHh
Q 005372 565 PLDKFSARSIRLKNSLVQE--YIDFLNTASREELVELKGIGQRLADYICELRQ 615 (699)
Q Consensus 565 p~~~~~~~~~~~~~s~~~~--~~v~iNtA~~~eL~~lpGIG~k~A~~Ii~~R~ 615 (699)
.++..+-....-+..|... ..-+|=.||.+||..+||||+++|+.|...-.
T Consensus 609 ~L~~IpGiG~kr~~~LL~~FgS~~~i~~As~eel~~v~gi~~~~A~~i~~~~~ 661 (691)
T PRK14672 609 SFERLPHVGKVRAHRLLAHFGSFRSLQSATPQDIATAIHIPLTQAHTILHAAT 661 (691)
T ss_pred ccccCCCCCHHHHHHHHHHhcCHHHHHhCCHHHHHhCCCCCHHHHHHHHHHhh
Confidence 3444444443334444433 34677799999999999999999999998754
No 464
>PRK13910 DNA glycosylase MutY; Provisional
Probab=25.01 E-value=89 Score=33.87 Aligned_cols=56 Identities=21% Similarity=0.294 Sum_probs=38.4
Q ss_pred ccCcccCHHHHhc-CCCCcH-H-------HHHHHHHHHhcC-CCCCHHHHhhc-CCCHHHHHHhhccc
Q 005372 586 DFLNTASREELVE-LKGIGQ-R-------LADYICELRQSS-PVKSLSDLEKI-GLSTKQVYNLFGKA 642 (699)
Q Consensus 586 v~iNtA~~~eL~~-lpGIG~-k-------~A~~Ii~~R~~~-pf~~~~dL~~v-Gi~~~~~~~l~~~~ 642 (699)
-.|-.|+.+||.. +.|+|= . .|+.|++.-... |- +.++|.++ |||+++..-+....
T Consensus 26 e~La~a~~~el~~~~~glGyy~RAr~L~~~A~~i~~~~~g~~P~-~~~~L~~LpGIG~kTA~aIl~~a 92 (289)
T PRK13910 26 KDLANAPLEEVLLLWRGLGYYSRAKNLKKSAEICVKEHHSQLPN-DYQSLLKLPGIGAYTANAILCFG 92 (289)
T ss_pred HHHHCCCHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhCCCCCh-hHHHHHhCCCCCHHHHHHHHHHH
Confidence 4677899999866 689993 3 444444432222 53 68999999 99999987776543
No 465
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=24.87 E-value=36 Score=39.00 Aligned_cols=20 Identities=40% Similarity=0.546 Sum_probs=16.5
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005372 114 RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~ 133 (699)
.-..|+-+|.+|+|||+|..
T Consensus 94 ~p~vI~lvG~~GsGKTTtaa 113 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAA 113 (437)
T ss_pred CCeEEEEECCCCCcHHHHHH
Confidence 34678889999999999863
No 466
>PRK14974 cell division protein FtsY; Provisional
Probab=24.54 E-value=37 Score=37.47 Aligned_cols=20 Identities=30% Similarity=0.537 Sum_probs=16.8
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005372 114 RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~ 133 (699)
....|.-.|.+|+|||.|+.
T Consensus 139 ~~~vi~~~G~~GvGKTTtia 158 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIA 158 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHH
Confidence 34688899999999999863
No 467
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=24.52 E-value=34 Score=41.88 Aligned_cols=18 Identities=39% Similarity=0.460 Sum_probs=15.7
Q ss_pred EEEEeeccCCCCCcceec
Q 005372 116 ATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm~ 133 (699)
..|.-.|++|+|||.|+.
T Consensus 186 ~Vi~lVGpnGvGKTTTia 203 (767)
T PRK14723 186 GVLALVGPTGVGKTTTTA 203 (767)
T ss_pred eEEEEECCCCCcHHHHHH
Confidence 577889999999999984
No 468
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=24.34 E-value=25 Score=39.31 Aligned_cols=17 Identities=47% Similarity=0.761 Sum_probs=12.1
Q ss_pred EEEeeccCCCCCcceec
Q 005372 117 TVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~ 133 (699)
-++..|.||||||.+|.
T Consensus 17 ~~li~G~~GsGKT~~i~ 33 (386)
T PF10412_consen 17 HILIIGATGSGKTQAIR 33 (386)
T ss_dssp -EEEEE-TTSSHHHHHH
T ss_pred cEEEECCCCCCHHHHHH
Confidence 35678999999997653
No 469
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=24.28 E-value=29 Score=43.31 Aligned_cols=20 Identities=40% Similarity=0.718 Sum_probs=16.6
Q ss_pred CCEEEEeeccCCCCCcceec
Q 005372 114 RNATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyTm~ 133 (699)
.|+-.+.+|+||||||++|.
T Consensus 474 ~n~n~~I~G~TGSGKS~l~~ 493 (893)
T TIGR03744 474 KNAHLLILGPTGAGKSATLT 493 (893)
T ss_pred CcccEEEECCCCCCHHHHHH
Confidence 36667788999999999874
No 470
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=24.23 E-value=36 Score=39.95 Aligned_cols=39 Identities=26% Similarity=0.318 Sum_probs=26.7
Q ss_pred EEEeeccCCCCCcceecc---CC---CCCCchHHHHHHHHHhhhc
Q 005372 117 TVFAYGATGSGKTYTMQG---SE---ERPGLMPLAMSKILSICQS 155 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~G---~~---~~~GIipral~~LF~~~~~ 155 (699)
-||..|+|.|||||--.- .. --.|-+-....++|+..+.
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 489999999999997532 11 1135566677778876654
No 471
>PRK00300 gmk guanylate kinase; Provisional
Probab=24.16 E-value=37 Score=33.74 Aligned_cols=18 Identities=22% Similarity=0.442 Sum_probs=14.0
Q ss_pred CEEEEeeccCCCCCccee
Q 005372 115 NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm 132 (699)
...|.-.|++|||||..+
T Consensus 5 g~~i~i~G~sGsGKstl~ 22 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLV 22 (205)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 345778899999999643
No 472
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=24.06 E-value=32 Score=32.23 Aligned_cols=20 Identities=25% Similarity=0.461 Sum_probs=15.6
Q ss_pred CCCEEEEeeccCCCCCccee
Q 005372 113 GRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 113 G~N~tIfAYGqTGSGKTyTm 132 (699)
..+.-|+-+|..||||++..
T Consensus 19 ~~~~pvli~GE~GtGK~~~A 38 (138)
T PF14532_consen 19 KSSSPVLITGEPGTGKSLLA 38 (138)
T ss_dssp CSSS-EEEECCTTSSHHHHH
T ss_pred CCCCcEEEEcCCCCCHHHHH
Confidence 55677888999999998753
No 473
>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=23.78 E-value=45 Score=40.44 Aligned_cols=21 Identities=29% Similarity=0.596 Sum_probs=19.8
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|-||+.-|.+|||||.+.
T Consensus 83 ~~~~QsIiiSGESGaGKTes~ 103 (691)
T cd01380 83 DEKNQSIIVSGESGAGKTVSA 103 (691)
T ss_pred cCCCceEEEEcCCCCCchHHH
Confidence 699999999999999999986
No 474
>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=23.60 E-value=34 Score=33.21 Aligned_cols=16 Identities=25% Similarity=0.478 Sum_probs=13.0
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|...|++|||||..+
T Consensus 3 ii~l~G~~GsGKsTl~ 18 (180)
T TIGR03263 3 LIVISGPSGVGKSTLV 18 (180)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4678899999999743
No 475
>PRK06762 hypothetical protein; Provisional
Probab=23.60 E-value=39 Score=32.45 Aligned_cols=15 Identities=40% Similarity=0.592 Sum_probs=12.1
Q ss_pred EEEeeccCCCCCcce
Q 005372 117 TVFAYGATGSGKTYT 131 (699)
Q Consensus 117 tIfAYGqTGSGKTyT 131 (699)
.|.-.|..|||||+.
T Consensus 4 li~i~G~~GsGKST~ 18 (166)
T PRK06762 4 LIIIRGNSGSGKTTI 18 (166)
T ss_pred EEEEECCCCCCHHHH
Confidence 466689999999863
No 476
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=23.54 E-value=24 Score=36.29 Aligned_cols=12 Identities=33% Similarity=0.451 Sum_probs=10.6
Q ss_pred eccCCCCCccee
Q 005372 121 YGATGSGKTYTM 132 (699)
Q Consensus 121 YGqTGSGKTyTm 132 (699)
-|++|||||+++
T Consensus 5 ~G~sGSGKTTla 16 (220)
T cd02025 5 AGSVAVGKSTTA 16 (220)
T ss_pred eCCCCCCHHHHH
Confidence 499999999875
No 477
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=23.48 E-value=31 Score=41.90 Aligned_cols=19 Identities=37% Similarity=0.602 Sum_probs=16.3
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
|.-++..|.||||||++|.
T Consensus 434 ~~n~~I~G~tGsGKS~~~~ 452 (785)
T TIGR00929 434 LGHTLIFGPTGSGKTTLLN 452 (785)
T ss_pred CceEEEECCCCCCHHHHHH
Confidence 6677888999999999873
No 478
>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=23.42 E-value=49 Score=35.55 Aligned_cols=28 Identities=29% Similarity=0.394 Sum_probs=20.5
Q ss_pred chhhhhcCCC---CEEEEeeccCCCCCccee
Q 005372 105 PLIPGIFHGR---NATVFAYGATGSGKTYTM 132 (699)
Q Consensus 105 plV~~vl~G~---N~tIfAYGqTGSGKTyTm 132 (699)
+-++.++.|- ...+.-||.+|+|||..+
T Consensus 82 ~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~ 112 (310)
T TIGR02236 82 KELDELLGGGIETQAITEVFGEFGSGKTQIC 112 (310)
T ss_pred HHHHHHhcCCCCCCeEEEEECCCCCCHHHHH
Confidence 4466677643 456778999999999754
No 479
>PRK04040 adenylate kinase; Provisional
Probab=23.41 E-value=36 Score=34.18 Aligned_cols=16 Identities=38% Similarity=0.569 Sum_probs=13.5
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+.+|..|||||+..
T Consensus 4 ~i~v~G~pG~GKtt~~ 19 (188)
T PRK04040 4 VVVVTGVPGVGKTTVL 19 (188)
T ss_pred EEEEEeCCCCCHHHHH
Confidence 4788999999999754
No 480
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=23.39 E-value=1.3e+02 Score=30.38 Aligned_cols=16 Identities=31% Similarity=0.588 Sum_probs=13.4
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.+.-.|++|||||..|
T Consensus 30 ~~~i~G~NGsGKSTll 45 (213)
T cd03279 30 LFLICGPTGAGKSTIL 45 (213)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4557899999999877
No 481
>PRK03839 putative kinase; Provisional
Probab=23.29 E-value=36 Score=33.25 Aligned_cols=14 Identities=36% Similarity=0.510 Sum_probs=12.0
Q ss_pred EEeeccCCCCCcce
Q 005372 118 VFAYGATGSGKTYT 131 (699)
Q Consensus 118 IfAYGqTGSGKTyT 131 (699)
|+-.|..|||||+.
T Consensus 3 I~l~G~pGsGKsT~ 16 (180)
T PRK03839 3 IAITGTPGVGKTTV 16 (180)
T ss_pred EEEECCCCCCHHHH
Confidence 67789999999874
No 482
>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=23.27 E-value=49 Score=40.04 Aligned_cols=21 Identities=38% Similarity=0.491 Sum_probs=19.7
Q ss_pred CCCCEEEEeeccCCCCCccee
Q 005372 112 HGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm 132 (699)
.|.|-||+.-|.+|||||.+.
T Consensus 84 ~~~~QsIiisGESGaGKTe~~ 104 (677)
T cd01387 84 AKQNQCVIISGESGSGKTEAT 104 (677)
T ss_pred cCCCceEEEEcCCCCCeehHH
Confidence 589999999999999999987
No 483
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=23.24 E-value=48 Score=37.96 Aligned_cols=62 Identities=26% Similarity=0.353 Sum_probs=33.3
Q ss_pred EEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhcCCceeE-EEEEEEe-cceeeeccC-CCccceeeeecCCCCeE
Q 005372 118 VFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQSTGSTAE-ISYYEVY-MDRCYDLLE-VKTKEISILDDKDGQLH 194 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~~~~~v~-vS~~EIY-nE~v~DLL~-~~~~~l~i~ed~~~~v~ 194 (699)
-+-||+.|+|||.-+. || .+..++.|. +..-+|. +..++-||. ..++.+.+.||-+..+.
T Consensus 238 YLLYGPPGTGKSS~Ia-----------Am------An~L~ydIydLeLt~v~~n~dLr~LL~~t~~kSIivIEDIDcs~~ 300 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIA-----------AM------ANYLNYDIYDLELTEVKLDSDLRHLLLATPNKSILLIEDIDCSFD 300 (457)
T ss_pred ceeeCCCCCCHHHHHH-----------HH------HhhcCCceEEeeeccccCcHHHHHHHHhCCCCcEEEEeecccccc
Confidence 4789999999986431 22 222233221 2222333 223566664 34456777888776554
Q ss_pred ec
Q 005372 195 LK 196 (699)
Q Consensus 195 v~ 196 (699)
+.
T Consensus 301 l~ 302 (457)
T KOG0743|consen 301 LR 302 (457)
T ss_pred cc
Confidence 33
No 484
>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=23.10 E-value=58 Score=36.42 Aligned_cols=18 Identities=28% Similarity=0.601 Sum_probs=14.8
Q ss_pred CCEEEEeeccCCCCCcce
Q 005372 114 RNATVFAYGATGSGKTYT 131 (699)
Q Consensus 114 ~N~tIfAYGqTGSGKTyT 131 (699)
.+-.+.-.|++|+|||..
T Consensus 77 ~r~il~L~GPPGsGKStl 94 (361)
T smart00763 77 RKQILYLLGPVGGGKSSL 94 (361)
T ss_pred CCcEEEEECCCCCCHHHH
Confidence 456788899999999964
No 485
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=23.10 E-value=39 Score=41.90 Aligned_cols=17 Identities=35% Similarity=0.505 Sum_probs=14.7
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+.++-+|++|+|||+..
T Consensus 597 ~~~lf~Gp~GvGKT~lA 613 (852)
T TIGR03345 597 GVFLLVGPSGVGKTETA 613 (852)
T ss_pred eEEEEECCCCCCHHHHH
Confidence 56888999999999864
No 486
>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=23.05 E-value=60 Score=31.64 Aligned_cols=45 Identities=27% Similarity=0.327 Sum_probs=30.2
Q ss_pred HHHhcCCCCcHHHHHHHHHHHhcCCCCCHHHHhhcCCCHHHHHHhhcccc
Q 005372 594 EELVELKGIGQRLADYICELRQSSPVKSLSDLEKIGLSTKQVYNLFGKAA 643 (699)
Q Consensus 594 ~eL~~lpGIG~k~A~~Ii~~R~~~pf~~~~dL~~vGi~~~~~~~l~~~~~ 643 (699)
-.|..|.|||+..|..|++.=.-.|..-+. -++..++++|.+-+-
T Consensus 21 ~aLt~I~GIG~~~a~~I~~~lgi~~~~~~~-----~Lt~~qi~~l~~~i~ 65 (144)
T TIGR03629 21 YALTGIKGIGRRFARAIARKLGVDPNAKLG-----YLDDEEIEKLEEAVE 65 (144)
T ss_pred EeecceeccCHHHHHHHHHHcCcCCCCCcc-----cCCHHHHHHHHHHHH
Confidence 358889999999999997754222443333 356677777766553
No 487
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=23.05 E-value=32 Score=35.96 Aligned_cols=15 Identities=40% Similarity=0.607 Sum_probs=12.2
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
+.-.|++|||||.-|
T Consensus 34 vaI~GpSGSGKSTLL 48 (226)
T COG1136 34 VAIVGPSGSGKSTLL 48 (226)
T ss_pred EEEECCCCCCHHHHH
Confidence 455799999999765
No 488
>PRK05580 primosome assembly protein PriA; Validated
Probab=23.00 E-value=45 Score=40.28 Aligned_cols=17 Identities=41% Similarity=0.524 Sum_probs=14.1
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
..++.+|+||||||...
T Consensus 163 ~~~Ll~~~TGSGKT~v~ 179 (679)
T PRK05580 163 SPFLLDGVTGSGKTEVY 179 (679)
T ss_pred CcEEEECCCCChHHHHH
Confidence 34788999999999764
No 489
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=22.90 E-value=41 Score=36.82 Aligned_cols=19 Identities=32% Similarity=0.494 Sum_probs=15.3
Q ss_pred CEEEEeeccCCCCCcceec
Q 005372 115 NATVFAYGATGSGKTYTMQ 133 (699)
Q Consensus 115 N~tIfAYGqTGSGKTyTm~ 133 (699)
...|.-.|++|+|||.|+.
T Consensus 114 ~~vi~lvGpnGsGKTTt~~ 132 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIG 132 (318)
T ss_pred CeEEEEECCCCCcHHHHHH
Confidence 3466777999999999873
No 490
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=22.87 E-value=38 Score=39.97 Aligned_cols=25 Identities=28% Similarity=0.571 Sum_probs=18.8
Q ss_pred hhhhhcCCCCEEEEeeccCCCCCccee
Q 005372 106 LIPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 106 lV~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+|..+++|.|+ ++..+||+|||.+.
T Consensus 21 ~i~~il~g~dv--lv~~PTG~GKTl~y 45 (591)
T TIGR01389 21 IISHVLDGRDV--LVVMPTGGGKSLCY 45 (591)
T ss_pred HHHHHHcCCCE--EEEcCCCccHhHHH
Confidence 34466788885 55569999999874
No 491
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=22.61 E-value=42 Score=40.81 Aligned_cols=40 Identities=28% Similarity=0.338 Sum_probs=0.0
Q ss_pred eeeCCCCCcHhHHHHhhccchhhhhcCCC------CEEEEeeccCCCCCcce
Q 005372 86 SFFGQEDESVSKIFYSEVNPLIPGIFHGR------NATVFAYGATGSGKTYT 131 (699)
Q Consensus 86 ~VF~~~~~sQ~~Vf~~~v~plV~~vl~G~------N~tIfAYGqTGSGKTyT 131 (699)
+||+++. .-..+...+.....|. .+.++-+|++|+|||++
T Consensus 455 ~v~GQ~~------ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~l 500 (731)
T TIGR02639 455 KIFGQDE------AIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTEL 500 (731)
T ss_pred ceeCcHH------HHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHH
No 492
>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=22.42 E-value=40 Score=34.03 Aligned_cols=33 Identities=27% Similarity=0.431 Sum_probs=18.9
Q ss_pred EEeeccCCCCCcceeccCCCCCCchHHHHHHHH
Q 005372 118 VFAYGATGSGKTYTMQGSEERPGLMPLAMSKIL 150 (699)
Q Consensus 118 IfAYGqTGSGKTyTm~G~~~~~GIipral~~LF 150 (699)
|+.+|..|||||+.-.--.+..|+....+.+|+
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~gdll 34 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTGDLL 34 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeehhHHH
Confidence 677999999998643111122344444444444
No 493
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=22.35 E-value=38 Score=33.47 Aligned_cols=93 Identities=16% Similarity=0.284 Sum_probs=48.0
Q ss_pred CCCCEEEEeeccCCCCCcceeccCCCCCCchHHHHHHHHHhhhc-CCceeEEEEEEEecceee-eccCCC--------cc
Q 005372 112 HGRNATVFAYGATGSGKTYTMQGSEERPGLMPLAMSKILSICQS-TGSTAEISYYEVYMDRCY-DLLEVK--------TK 181 (699)
Q Consensus 112 ~G~N~tIfAYGqTGSGKTyTm~G~~~~~GIipral~~LF~~~~~-~~~~v~vS~~EIYnE~v~-DLL~~~--------~~ 181 (699)
..++..|+-+|.+||||+. +.+.|++.... ...-+.|.+-.+..|.+- .|+... ..
T Consensus 19 a~~~~pVlI~GE~GtGK~~--------------lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~~ 84 (168)
T PF00158_consen 19 ASSDLPVLITGETGTGKEL--------------LARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARSD 84 (168)
T ss_dssp TTSTS-EEEECSTTSSHHH--------------HHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSSE
T ss_pred hCCCCCEEEEcCCCCcHHH--------------HHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccccccccccc
Confidence 3677899999999999974 34444544332 222344433332222221 122111 01
Q ss_pred ceeeeec-CCCCeEecCCEEEEeCChhHHHHHHHHHHh
Q 005372 182 EISILDD-KDGQLHLKGLSRVPVNSMTEFQEIFSRGIQ 218 (699)
Q Consensus 182 ~l~i~ed-~~~~v~v~gLsev~V~S~ee~~~ll~~g~~ 218 (699)
..-..+. .+|.+++.++.......-..++++|+.+.-
T Consensus 85 ~~G~l~~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~ 122 (168)
T PF00158_consen 85 KKGLLEQANGGTLFLDEIEDLPPELQAKLLRVLEEGKF 122 (168)
T ss_dssp BEHHHHHTTTSEEEEETGGGS-HHHHHHHHHHHHHSEE
T ss_pred cCCceeeccceEEeecchhhhHHHHHHHHHHHHhhchh
Confidence 1122233 345567888777777777777777776543
No 494
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=22.34 E-value=36 Score=33.61 Aligned_cols=16 Identities=31% Similarity=0.638 Sum_probs=12.8
Q ss_pred EEEeeccCCCCCccee
Q 005372 117 TVFAYGATGSGKTYTM 132 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm 132 (699)
.|+-.|++|||||..+
T Consensus 4 ~i~l~G~sGsGKsTl~ 19 (186)
T PRK10078 4 LIWLMGPSGSGKDSLL 19 (186)
T ss_pred EEEEECCCCCCHHHHH
Confidence 4566899999999754
No 495
>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=22.24 E-value=38 Score=34.56 Aligned_cols=15 Identities=33% Similarity=0.521 Sum_probs=12.7
Q ss_pred EEeeccCCCCCccee
Q 005372 118 VFAYGATGSGKTYTM 132 (699)
Q Consensus 118 IfAYGqTGSGKTyTm 132 (699)
+.-.|+.|||||.+|
T Consensus 28 ~~ivGpNGaGKSTll 42 (212)
T cd03274 28 SAIVGPNGSGKSNVI 42 (212)
T ss_pred EEEECCCCCCHHHHH
Confidence 346799999999987
No 496
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=22.20 E-value=43 Score=39.83 Aligned_cols=24 Identities=33% Similarity=0.564 Sum_probs=17.7
Q ss_pred hhhhcCCCCEEEEeeccCCCCCccee
Q 005372 107 IPGIFHGRNATVFAYGATGSGKTYTM 132 (699)
Q Consensus 107 V~~vl~G~N~tIfAYGqTGSGKTyTm 132 (699)
+..+++|.++.+ .++||+|||.+.
T Consensus 34 i~~il~g~dvlv--~apTGsGKTl~y 57 (607)
T PRK11057 34 IDAVLSGRDCLV--VMPTGGGKSLCY 57 (607)
T ss_pred HHHHHcCCCEEE--EcCCCchHHHHH
Confidence 345678888754 479999999753
No 497
>PRK14527 adenylate kinase; Provisional
Probab=22.14 E-value=44 Score=33.13 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=14.1
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
-.|+.+|++|||||...
T Consensus 7 ~~i~i~G~pGsGKsT~a 23 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQA 23 (191)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 45888999999998754
No 498
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=22.10 E-value=56 Score=35.77 Aligned_cols=59 Identities=25% Similarity=0.390 Sum_probs=35.4
Q ss_pred EEEeeccCCCCCcceec--------------cCC---CCCCchHHHHHHHHHhhhcCCc-eeEEEEEEEecceeeec
Q 005372 117 TVFAYGATGSGKTYTMQ--------------GSE---ERPGLMPLAMSKILSICQSTGS-TAEISYYEVYMDRCYDL 175 (699)
Q Consensus 117 tIfAYGqTGSGKTyTm~--------------G~~---~~~GIipral~~LF~~~~~~~~-~v~vS~~EIYnE~v~DL 175 (699)
.|+-||..|+|||..-- |++ ..-|==|+.+++||+..+...- -|.+-=+.-...+-||-
T Consensus 221 GVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQkylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds 297 (440)
T KOG0726|consen 221 GVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDS 297 (440)
T ss_pred eeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHHHhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccC
Confidence 47889999999986432 221 1235558999999998876443 33332222233444553
No 499
>PRK14530 adenylate kinase; Provisional
Probab=22.01 E-value=39 Score=34.18 Aligned_cols=15 Identities=33% Similarity=0.607 Sum_probs=12.5
Q ss_pred EEEeeccCCCCCcce
Q 005372 117 TVFAYGATGSGKTYT 131 (699)
Q Consensus 117 tIfAYGqTGSGKTyT 131 (699)
.|+-.|++|||||+.
T Consensus 5 ~I~i~G~pGsGKsT~ 19 (215)
T PRK14530 5 RILLLGAPGAGKGTQ 19 (215)
T ss_pred EEEEECCCCCCHHHH
Confidence 367789999999864
No 500
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=21.98 E-value=76 Score=40.39 Aligned_cols=17 Identities=35% Similarity=0.458 Sum_probs=13.1
Q ss_pred EEEEeeccCCCCCccee
Q 005372 116 ATVFAYGATGSGKTYTM 132 (699)
Q Consensus 116 ~tIfAYGqTGSGKTyTm 132 (699)
+.+.-+|+||||||..+
T Consensus 31 ~l~~I~G~tGaGKStil 47 (1047)
T PRK10246 31 GLFAITGPTGAGKTTLL 47 (1047)
T ss_pred CEEEEECCCCCCHHHHH
Confidence 34556899999999754
Done!