Query 005797
Match_columns 677
No_of_seqs 501 out of 2215
Neff 6.9
Searched_HMMs 46136
Date Thu Mar 28 13:52:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005797.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005797hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5226 CEG1 mRNA capping enzy 100.0 7E-65 1.5E-69 508.8 18.5 336 311-661 12-381 (404)
2 KOG2386 mRNA capping enzyme, g 100.0 1.7E-57 3.6E-62 482.0 17.5 372 83-475 4-391 (393)
3 PF01331 mRNA_cap_enzyme: mRNA 100.0 5.7E-45 1.2E-49 362.3 14.1 190 349-547 1-192 (192)
4 cd07895 Adenylation_mRNA_cappi 100.0 9.3E-40 2E-44 330.5 22.2 211 323-548 4-215 (215)
5 cd06846 Adenylation_DNA_ligase 99.9 4.9E-27 1.1E-31 231.6 18.5 178 346-548 1-182 (182)
6 cd07898 Adenylation_DNA_ligase 99.9 5.4E-24 1.2E-28 213.3 16.3 162 361-548 18-200 (201)
7 PTZ00242 protein tyrosine phos 99.9 3.5E-23 7.6E-28 200.9 16.8 147 100-264 14-160 (166)
8 KOG1719 Dual specificity phosp 99.9 1.5E-23 3.3E-28 193.4 11.4 170 67-264 2-172 (183)
9 cd07903 Adenylation_DNA_ligase 99.9 1.7E-22 3.8E-27 205.9 18.3 170 359-551 28-224 (225)
10 PTZ00393 protein tyrosine phos 99.9 3.6E-22 7.9E-27 200.5 16.6 139 102-263 92-230 (241)
11 cd07897 Adenylation_DNA_ligase 99.9 5.3E-22 1.2E-26 199.7 15.8 164 361-549 21-205 (207)
12 PRK09247 ATP-dependent DNA lig 99.9 1.4E-21 3.1E-26 221.8 19.7 169 362-559 223-417 (539)
13 cd07906 Adenylation_DNA_ligase 99.9 2.4E-21 5.2E-26 192.5 15.2 157 363-548 15-189 (190)
14 PF03919 mRNA_cap_C: mRNA capp 99.9 3.3E-22 7.2E-27 178.9 7.7 94 550-646 1-105 (105)
15 cd07901 Adenylation_DNA_ligase 99.9 3E-21 6.6E-26 194.3 15.4 160 363-548 24-206 (207)
16 KOG1720 Protein tyrosine phosp 99.9 3.7E-21 8E-26 186.7 15.1 149 100-260 57-206 (225)
17 cd07900 Adenylation_DNA_ligase 99.9 5.8E-21 1.2E-25 193.7 16.0 164 360-549 27-218 (219)
18 cd07905 Adenylation_DNA_ligase 99.9 8E-21 1.7E-25 189.4 14.7 158 363-549 15-193 (194)
19 cd08039 Adenylation_DNA_ligase 99.8 1.7E-20 3.6E-25 191.8 16.7 182 350-549 4-234 (235)
20 PRK07636 ligB ATP-dependent DN 99.8 5.4E-20 1.2E-24 192.6 18.2 161 363-558 17-194 (275)
21 cd09232 Snurportin-1_C C-termi 99.8 4.8E-20 1E-24 181.3 16.4 163 363-549 20-186 (186)
22 TIGR02779 NHEJ_ligase_lig DNA 99.8 3.3E-20 7.1E-25 196.7 16.1 169 363-559 11-192 (298)
23 PRK08224 ligC ATP-dependent DN 99.8 4.3E-20 9.3E-25 199.0 16.2 163 364-558 24-207 (350)
24 PRK09633 ligD ATP-dependent DN 99.8 1.3E-19 2.8E-24 207.1 20.7 278 363-661 15-362 (610)
25 cd07902 Adenylation_DNA_ligase 99.8 4.7E-20 1E-24 186.4 14.8 161 364-549 34-212 (213)
26 TIGR00574 dnl1 DNA ligase I, A 99.8 7.4E-20 1.6E-24 207.6 16.5 169 365-558 188-385 (514)
27 PHA02587 30 DNA ligase; Provis 99.8 5.5E-19 1.2E-23 198.5 22.7 175 357-559 145-371 (488)
28 smart00195 DSPc Dual specifici 99.8 1.9E-19 4E-24 169.2 13.8 113 139-260 25-137 (138)
29 PF00782 DSPc: Dual specificit 99.8 1.4E-19 3.1E-24 168.7 11.4 116 139-260 17-132 (133)
30 PRK03180 ligB ATP-dependent DN 99.8 2.8E-19 6.1E-24 201.6 15.4 163 364-558 204-389 (508)
31 PLN03113 DNA ligase 1; Provisi 99.8 6.6E-19 1.4E-23 204.2 16.8 174 359-558 386-591 (744)
32 PRK01109 ATP-dependent DNA lig 99.8 7.4E-19 1.6E-23 202.0 15.9 169 364-558 248-445 (590)
33 PF01068 DNA_ligase_A_M: ATP d 99.8 6.7E-19 1.4E-23 176.0 13.2 162 363-547 18-202 (202)
34 PRK09632 ATP-dependent DNA lig 99.8 3.6E-18 7.8E-23 198.0 18.4 165 361-558 474-650 (764)
35 KOG1718 Dual specificity phosp 99.8 2.5E-18 5.5E-23 161.2 12.9 118 139-265 41-158 (198)
36 PRK05972 ligD ATP-dependent DN 99.8 5E-18 1.1E-22 198.6 16.5 166 364-559 249-427 (860)
37 COG1793 CDC9 ATP-dependent DNA 99.8 6E-18 1.3E-22 187.4 15.5 166 365-559 134-322 (444)
38 PHA00454 ATP-dependent DNA lig 99.8 1.3E-17 2.8E-22 178.1 17.5 186 345-558 5-228 (315)
39 cd00127 DSPc Dual specificity 99.7 1.8E-17 3.8E-22 155.4 14.0 114 139-259 26-139 (139)
40 PRK09125 DNA ligase; Provision 99.7 3.9E-16 8.4E-21 164.0 19.7 208 363-618 42-281 (282)
41 cd07896 Adenylation_kDNA_ligas 99.7 9.5E-17 2.1E-21 157.3 12.1 146 363-548 15-174 (174)
42 KOG1717 Dual specificity phosp 99.7 2.6E-16 5.6E-21 157.2 12.2 118 139-264 196-314 (343)
43 PRK12361 hypothetical protein; 99.7 1.3E-15 2.8E-20 174.8 17.0 120 139-264 119-239 (547)
44 KOG1716 Dual specificity phosp 99.7 8.1E-16 1.8E-20 162.2 13.3 121 139-265 99-219 (285)
45 KOG0966 ATP-dependent DNA liga 99.6 6.5E-15 1.4E-19 165.6 14.5 210 322-552 198-441 (881)
46 KOG2386 mRNA capping enzyme, g 99.6 2.5E-16 5.5E-21 168.4 2.0 285 342-648 39-352 (393)
47 TIGR02776 NHEJ_ligase_prk DNA 99.6 7.5E-15 1.6E-19 166.4 12.7 139 390-559 1-153 (552)
48 KOG2836 Protein tyrosine phosp 99.6 3.3E-14 7.1E-19 128.7 13.9 136 102-258 17-152 (173)
49 KOG2283 Clathrin coat dissocia 99.5 8.5E-14 1.8E-18 152.8 11.9 149 100-260 18-172 (434)
50 COG2453 CDC14 Predicted protei 99.4 9.9E-13 2.2E-17 129.7 13.5 100 153-257 62-162 (180)
51 PF03162 Y_phosphatase2: Tyros 99.3 4.4E-12 9.6E-17 123.0 8.1 113 132-256 26-142 (164)
52 KOG0967 ATP-dependent DNA liga 99.3 2.2E-11 4.8E-16 134.8 12.8 178 358-558 359-565 (714)
53 PF05706 CDKN3: Cyclin-depende 99.2 8.1E-11 1.8E-15 112.5 9.2 101 128-235 61-168 (168)
54 smart00012 PTPc_DSPc Protein t 99.1 1.5E-09 3.1E-14 96.0 11.5 91 166-258 5-102 (105)
55 smart00404 PTPc_motif Protein 99.1 1.5E-09 3.1E-14 96.0 11.5 91 166-258 5-102 (105)
56 cd07894 Adenylation_RNA_ligase 99.0 2.9E-09 6.2E-14 114.7 14.3 147 364-538 48-205 (342)
57 TIGR01244 conserved hypothetic 99.0 9.4E-09 2E-13 96.7 13.6 106 122-241 12-124 (135)
58 cd00047 PTPc Protein tyrosine 98.8 2.9E-08 6.3E-13 101.5 11.0 93 164-258 130-228 (231)
59 PLN02727 NAD kinase 98.8 1.1E-07 2.4E-12 111.0 16.5 100 122-231 266-371 (986)
60 PRK15375 pathogenicity island 98.7 8.4E-08 1.8E-12 105.8 11.3 99 164-262 423-529 (535)
61 smart00194 PTPc Protein tyrosi 98.7 1.2E-07 2.6E-12 98.6 10.7 84 171-258 166-255 (258)
62 PF04273 DUF442: Putative phos 98.4 1.4E-06 2.9E-11 79.1 8.4 84 125-221 15-105 (110)
63 PF14566 PTPlike_phytase: Inos 98.4 6.5E-07 1.4E-11 85.7 6.4 66 154-225 83-148 (149)
64 PF13350 Y_phosphatase3: Tyros 98.3 1.1E-06 2.4E-11 85.3 7.4 105 126-239 31-161 (164)
65 PHA02740 protein tyrosine phos 98.3 4.7E-06 1E-10 88.7 11.9 88 170-257 185-282 (298)
66 KOG1572 Predicted protein tyro 98.3 1.1E-05 2.4E-10 81.0 13.2 119 113-244 66-190 (249)
67 PF00102 Y_phosphatase: Protei 98.3 5.8E-06 1.2E-10 83.9 11.1 80 176-258 147-232 (235)
68 PHA02742 protein tyrosine phos 98.2 7.7E-06 1.7E-10 87.4 11.6 89 170-258 190-291 (303)
69 PHA02747 protein tyrosine phos 98.2 9.5E-06 2.1E-10 87.0 11.5 85 170-255 191-288 (312)
70 PHA02746 protein tyrosine phos 98.2 1.1E-05 2.3E-10 87.0 11.2 88 171-258 210-309 (323)
71 PHA02738 hypothetical protein; 98.0 3.4E-05 7.4E-10 83.0 11.1 88 170-257 186-288 (320)
72 COG2365 Protein tyrosine/serin 98.0 1.7E-05 3.7E-10 82.3 8.3 45 201-245 136-180 (249)
73 COG3453 Uncharacterized protei 97.9 0.00021 4.5E-09 64.7 12.1 103 122-238 13-122 (130)
74 KOG0790 Protein tyrosine phosp 97.9 1.2E-05 2.7E-10 86.4 5.0 91 165-256 416-514 (600)
75 KOG3132 m3G-cap-specific nucle 97.8 0.00042 9E-09 69.5 13.9 156 363-541 115-271 (325)
76 KOG0792 Protein tyrosine phosp 97.6 0.00014 3E-09 85.8 8.4 91 170-263 1035-1134(1144)
77 COG5599 PTP2 Protein tyrosine 97.5 0.00013 2.8E-09 74.5 5.7 86 172-262 194-293 (302)
78 KOG0791 Protein tyrosine phosp 97.4 0.00051 1.1E-08 73.2 8.9 94 166-263 255-354 (374)
79 TIGR01209 RNA ligase, Pab1020 97.4 0.0021 4.6E-08 69.7 13.0 162 343-532 57-227 (374)
80 COG5350 Predicted protein tyro 97.2 0.0044 9.5E-08 58.5 11.2 117 130-253 23-146 (172)
81 KOG0793 Protein tyrosine phosp 97.1 0.0076 1.6E-07 68.6 13.7 87 167-256 896-988 (1004)
82 KOG0789 Protein tyrosine phosp 97.1 0.0021 4.5E-08 71.4 9.3 87 167-257 268-361 (415)
83 COG1423 ATP-dependent DNA liga 96.6 0.039 8.4E-07 58.7 13.6 142 363-533 87-236 (382)
84 PF14671 DSPn: Dual specificit 96.3 0.01 2.2E-07 56.1 6.9 72 171-244 38-113 (141)
85 KOG4228 Protein tyrosine phosp 94.6 0.052 1.1E-06 65.5 6.0 85 171-258 703-792 (1087)
86 PF01653 DNA_ligase_aden: NAD- 94.1 0.69 1.5E-05 49.9 12.8 141 365-535 108-293 (315)
87 PF04179 Init_tRNA_PT: Initiat 94.1 0.81 1.8E-05 51.6 13.8 114 139-257 317-448 (451)
88 KOG4228 Protein tyrosine phosp 92.9 0.17 3.6E-06 61.3 6.2 81 177-258 995-1080(1087)
89 PRK07956 ligA NAD-dependent DN 91.7 7 0.00015 46.5 17.7 162 365-552 109-318 (665)
90 PRK14350 ligA NAD-dependent DN 91.5 7.7 0.00017 46.1 17.6 159 364-552 110-315 (669)
91 PF09414 RNA_ligase: RNA ligas 91.3 0.44 9.6E-06 46.9 6.2 102 365-467 2-128 (186)
92 cd00114 LIGANc NAD+ dependent 91.1 5.7 0.00012 42.7 14.7 160 364-549 101-306 (307)
93 TIGR00575 dnlj DNA ligase, NAD 90.4 12 0.00026 44.5 17.8 160 365-554 97-308 (652)
94 PRK14351 ligA NAD-dependent DN 90.2 8.8 0.00019 45.8 16.5 157 365-552 133-340 (689)
95 smart00532 LIGANc Ligase N fam 89.0 4.7 0.0001 45.6 12.5 158 365-551 104-312 (441)
96 PHA02142 putative RNA ligase 87.9 5.4 0.00012 43.7 11.7 104 362-468 167-298 (366)
97 TIGR02307 RNA_lig_RNL2 RNA lig 87.9 3.2 6.9E-05 44.8 9.8 107 361-467 22-144 (325)
98 PRK08097 ligB NAD-dependent DN 87.8 19 0.00041 41.9 16.7 158 365-553 119-311 (562)
99 KOG3673 FtsJ-like RNA methyltr 87.4 1.8 4E-05 48.8 7.8 96 416-523 634-732 (845)
100 PF05098 LEF-4: Late expressio 87.3 16 0.00035 41.0 15.0 206 363-623 233-450 (450)
101 cd01518 RHOD_YceA Member of th 86.6 5 0.00011 35.0 9.0 29 199-230 59-87 (101)
102 PLN02160 thiosulfate sulfurtra 79.0 6.7 0.00014 36.8 7.0 29 199-230 79-107 (136)
103 cd01448 TST_Repeat_1 Thiosulfa 77.8 13 0.00027 33.6 8.3 94 126-230 3-106 (122)
104 KOG4471 Phosphatidylinositol 3 77.4 4.5 9.8E-05 46.3 6.0 29 196-224 369-397 (717)
105 cd01523 RHOD_Lact_B Member of 76.7 18 0.00039 31.3 8.7 28 200-230 60-87 (100)
106 PF00581 Rhodanese: Rhodanese- 70.3 29 0.00064 30.1 8.6 91 126-230 1-98 (113)
107 PF06602 Myotub-related: Myotu 69.4 10 0.00022 41.7 6.3 22 199-220 229-250 (353)
108 PRK01415 hypothetical protein; 69.2 39 0.00084 35.2 10.3 105 101-230 93-197 (247)
109 PRK00142 putative rhodanese-re 65.6 28 0.00061 37.5 8.8 87 122-230 111-197 (314)
110 cd01519 RHOD_HSP67B2 Member of 62.2 32 0.00069 29.9 7.1 29 199-230 64-92 (106)
111 cd01522 RHOD_1 Member of the R 62.1 39 0.00085 30.5 7.8 29 199-230 62-90 (117)
112 PRK05416 glmZ(sRNA)-inactivati 61.3 8.8 0.00019 40.9 3.9 39 181-219 218-263 (288)
113 TIGR02306 RNA_lig_DRB0094 RNA 59.4 74 0.0016 34.8 10.6 103 364-468 159-277 (341)
114 TIGR03865 PQQ_CXXCW PQQ-depend 53.3 1.6E+02 0.0036 28.3 11.0 30 199-230 114-143 (162)
115 PRK05320 rhodanese superfamily 50.9 1.1E+02 0.0024 32.0 9.9 89 123-230 110-201 (257)
116 COG0272 Lig NAD-dependent DNA 50.6 2.1E+02 0.0047 34.0 12.9 158 363-553 108-319 (667)
117 PRK05600 thiamine biosynthesis 46.1 45 0.00097 36.9 6.4 83 124-230 272-358 (370)
118 cd01530 Cdc25 Cdc25 phosphatas 45.9 1.1E+02 0.0025 27.7 8.2 25 199-225 66-91 (121)
119 cd01443 Cdc25_Acr2p Cdc25 enzy 45.4 1.3E+02 0.0027 26.8 8.2 18 200-217 65-82 (113)
120 PRK05569 flavodoxin; Provision 44.3 1.9E+02 0.0042 26.6 9.7 112 134-261 26-138 (141)
121 KOG1089 Myotubularin-related p 43.2 38 0.00083 39.2 5.4 21 200-220 343-363 (573)
122 cd01533 4RHOD_Repeat_2 Member 42.5 34 0.00073 30.2 4.0 81 124-229 11-91 (109)
123 PF10640 Pox_ATPase-GT: mRNA c 41.6 83 0.0018 33.5 7.1 99 316-427 177-282 (313)
124 PF03668 ATP_bind_2: P-loop AT 41.6 41 0.00088 35.8 5.0 39 181-219 215-260 (284)
125 COG0607 PspE Rhodanese-related 36.8 36 0.00079 29.6 3.3 29 199-230 59-87 (110)
126 COG1054 Predicted sulfurtransf 36.7 2E+02 0.0043 30.8 9.0 86 122-229 112-197 (308)
127 KOG1530 Rhodanese-related sulf 35.8 56 0.0012 30.7 4.3 77 124-217 24-104 (136)
128 COG1660 Predicted P-loop-conta 35.4 51 0.0011 34.7 4.4 39 181-219 216-261 (286)
129 TIGR03167 tRNA_sel_U_synt tRNA 35.0 98 0.0021 33.4 6.7 28 201-230 74-101 (311)
130 PRK07411 hypothetical protein; 34.2 1.5E+02 0.0032 33.0 8.3 28 200-230 341-368 (390)
131 PRK11784 tRNA 2-selenouridine 33.6 1.1E+02 0.0024 33.5 7.0 29 200-230 87-115 (345)
132 cd01449 TST_Repeat_2 Thiosulfa 31.6 1.2E+02 0.0027 26.7 5.9 29 199-230 76-104 (118)
133 cd05567 PTS_IIB_mannitol PTS_I 31.3 47 0.001 28.4 2.9 21 202-223 1-21 (87)
134 cd01532 4RHOD_Repeat_1 Member 29.5 77 0.0017 27.0 4.0 29 200-229 49-77 (92)
135 KOG3824 Huntingtin interacting 29.3 2.3E+02 0.005 30.6 8.0 65 164-229 319-396 (472)
136 cd01447 Polysulfide_ST Polysul 26.9 71 0.0015 27.4 3.4 28 199-229 59-86 (103)
137 PF04343 DUF488: Protein of un 26.7 3.3E+02 0.0072 24.7 7.9 44 128-173 3-54 (122)
138 cd01520 RHOD_YbbB Member of th 26.0 84 0.0018 28.7 3.9 30 199-230 84-113 (128)
139 PF05763 DUF835: Protein of un 25.6 1.8E+02 0.0039 27.4 6.0 76 155-245 32-107 (136)
140 PF13292 DXP_synthase_N: 1-deo 25.0 1.1E+02 0.0025 32.2 4.9 40 157-208 229-268 (270)
141 cd01529 4RHOD_Repeats Member o 24.8 82 0.0018 26.9 3.4 28 199-229 54-81 (96)
142 cd01528 RHOD_2 Member of the R 24.2 1.7E+02 0.0037 25.1 5.4 28 200-230 57-84 (101)
143 PRK00162 glpE thiosulfate sulf 23.8 4.5E+02 0.0098 22.8 8.1 28 200-230 57-84 (108)
144 cd01534 4RHOD_Repeat_3 Member 23.5 1E+02 0.0022 26.3 3.7 28 200-230 55-82 (95)
145 COG0696 GpmI Phosphoglyceromut 22.8 3.5E+02 0.0076 31.0 8.4 170 79-267 47-233 (509)
146 cd01526 RHOD_ThiF Member of th 22.3 1E+02 0.0023 27.7 3.7 28 199-229 70-97 (122)
147 cd01531 Acr2p Eukaryotic arsen 21.5 5E+02 0.011 22.8 7.9 19 200-218 61-79 (113)
148 COG5016 Pyruvate/oxaloacetate 21.4 1.9E+02 0.0041 32.3 5.9 88 127-225 127-220 (472)
149 PRK05568 flavodoxin; Provision 20.5 6.6E+02 0.014 22.9 10.1 113 132-262 24-139 (142)
No 1
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=100.00 E-value=7e-65 Score=508.78 Aligned_cols=336 Identities=33% Similarity=0.460 Sum_probs=278.3
Q ss_pred CCCCCccChhHHHHHHHHHHHhhhcccCCCCCCCCCCCcccccchhchhhhccCCeEEEEcccceEEEEEEECC------
Q 005797 311 DVLGDEIPNDQQDAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITID------ 384 (677)
Q Consensus 311 ~~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~FPGsqPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~------ 384 (677)
.++|+.+|++.++.|+.+++.+|+.. .+...|||||||||+.+|++.|..++|+||||+||+|+||+++.+
T Consensus 12 ~~pG~~~P~di~~~Lkt~i~klL~~~---~P~~tFpGsqPVsf~~~~i~~Ll~~dy~VCEKsDGvR~Ll~vte~p~tg~~ 88 (404)
T COG5226 12 FRPGNKVPPDIAEALKTKIYKLLCIT---EPRETFPGSQPVSFTLDNIGLLLNNDYLVCEKSDGVRALLLVTEEPVTGAF 88 (404)
T ss_pred ccCCCcCCchHHHHHHHHHHHHhCCC---CCcccCCCCcceeeehhhHHHHHhCCeEEEEccCCeEEEEEEEecccCCCc
Confidence 46899999999999999999998752 234899999999999999999999999999999999999999753
Q ss_pred EEEEEeCCCcccccc-CcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCCCCceeEEEEeEEeecCCccccCCCHHHHH
Q 005797 385 GCYLIDRCFNFRRVQ-MRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERW 462 (677)
Q Consensus 385 ~vyLidR~~~~~~v~-~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~ 462 (677)
++|++||+|+||.++ ..||..... +| +..+.+|+||||+|.|..+.++-++++|++||||+++|.-++.++.++|+
T Consensus 89 ~~y~~DR~nnfY~v~~~f~p~~~~~k~g--e~l~~dtlldgelV~d~~p~~k~~qlryl~fdcLa~~g~~~~~~~~s~Rl 166 (404)
T COG5226 89 RGYFYDRRNNFYEVHTSFPPCSTVLKDG--EVLLEDTLLDGELVFDCLPYEKVPQLRYLLFDCLAYAGMFVERMEKSERL 166 (404)
T ss_pred ceEEEeccCceEEeccccCCcccccccC--cEEeccceecceEEEEeccccchHHHHHHHHHHhhhcceeEeecchhhHH
Confidence 699999999999886 445533221 22 35588999999999998887644679999999999999999999999999
Q ss_pred HHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCC
Q 005797 463 KMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEG 542 (677)
Q Consensus 463 ~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~ 542 (677)
+.|++++.+|+...... . ..+....||.+.+|.|...+++-++++ -+|.|.|++|||||||++.||+.|++..
T Consensus 167 ~~l~Ke~~kp~~~~r~s-----~-~~~~~~fpf~~s~K~M~~syg~~ki~k-~ip~L~HgnDGLIFTp~~~PY~~Gkd~~ 239 (404)
T COG5226 167 KTLQKEDEKPRERKRVS-----I-EIDSGSFPFHFSVKQMLKSYGFWKIYK-KIPELKHGNDGLIFTPADEPYSVGKDGA 239 (404)
T ss_pred HHhhhhhcccHhhhhhe-----e-eccccccceeeeHHHHHhhhhHHHHHh-hcccccCCCCceEeccCCCCcccCccce
Confidence 99999999998654421 1 122346799999999999999999995 4799999999999999999999999999
Q ss_pred eEEEccCCCceEEEEEEEecC------------CceeEEEEeCCeee-eecCceeEecC-------CCCCCCCceEEEEE
Q 005797 543 LLKWKYARMNSVDFLFEVTDD------------DRQLLYVFERGKKK-LMEGSSVEFTD-------REPSFYSGKIIECT 602 (677)
Q Consensus 543 lLKWKp~~~nTVDF~l~~~~~------------~~~~L~~~~~g~~~-~~~~~~~~f~~-------~~~~~~dg~IvEC~ 602 (677)
+|||||.++|||||++.+... +...|+||.+.+.. +|.... ..+ ..-..+.++||||+
T Consensus 240 lLKWKP~~~NTiDF~lvl~~~~~e~~Dyny~~~p~f~l~Vw~gRk~yrfFa~~~--v~d~ew~~lk~~~~pl~~rivEc~ 317 (404)
T COG5226 240 LLKWKPASLNTIDFRLVLHKKWSEVDDYNYVCSPKFGLDVWFGRKTYRFFASGE--VIDGEWCELKYDCDPLYWRIVECV 317 (404)
T ss_pred eeecCccccCceeeeeeeccccccccCcceeecccccccEEecccceeeeeeeE--echHHHHHHhhhcccchhhHHHHH
Confidence 999999999999999987621 23467888754433 222211 112 23456899999999
Q ss_pred EeCCCCeeEEEEEecCCCCCChHHHHHHHHHhcccCCCHHHHHHHHHHHhc------Cccchhhc
Q 005797 603 WDPDVQLWKCMRIRTDKSTPNDINTYRKVMRSIRDNITEEVLLNEIQEIIR------LPMYADRI 661 (677)
Q Consensus 603 ~d~~~~~W~~~R~R~DK~~pN~~~tv~~v~~SI~~~Vt~e~L~~~i~~i~~------~p~~~~~~ 661 (677)
.+. .|.|+++|+|+||.+|||++||.+|++||+|+||.|+|..+..-|+. .||...|.
T Consensus 318 l~~-e~~W~~lrfRdDK~~~NhisvV~~VLeSi~D~vs~EdL~~~~~vire~~~~R~k~~~~~R~ 381 (404)
T COG5226 318 LKK-EGAWKLLRFRDDKDTPNHISVVCNVLESIRDNVSIEDLSTFYSVIRENSKRREKAMRRGRP 381 (404)
T ss_pred hcc-CCceEEEEeecCCCCCchhhHHHHHHHHHhccCcHHHHHHHHHHHHHHHHhhhhccccCCC
Confidence 985 45899999999999999999999999999999999999998877743 56655554
No 2
>KOG2386 consensus mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=100.00 E-value=1.7e-57 Score=482.03 Aligned_cols=372 Identities=42% Similarity=0.681 Sum_probs=306.9
Q ss_pred CCCCCCCCccCCCCCCc-ccCceeecCCCCccccccCCCCCC-CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhh
Q 005797 83 RNKLPPGWLDCPPFGQE-IGGCIIPSKVPLSEFFNDCIPPGK-RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLK 160 (677)
Q Consensus 83 ~~~lp~~W~~~~~~g~~-I~~~fip~k~Pl~~~~~~~i~~~~-r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~ 160 (677)
...||++|++||+.|++ +.++|||||+||++.|+.+++++. +|++.+++++++.++..|++|||||++.+||+..+++
T Consensus 4 ~~~lp~~w~~~p~~G~~~~~~rfi~~K~pL~~~~~~k~~~~~~~f~~~dl~~~l~~~~~~vgl~iDltnt~ryy~~~~~~ 83 (393)
T KOG2386|consen 4 PGELPPRWLDCPPVGAVIDDTRFIPFKTPLNSSYSTKTFPGSQRFQPKDLFELLKEHNYKVGLKIDLTNTLRYYDKPELE 83 (393)
T ss_pred cccCCcccccCCCCCCccccceEEEEecccCCCCCcCCCCCccccCHHHHHHHHHhcCceEEEEEeccceeeeecccccc
Confidence 45899999999999986 468999999999999999999999 9999999999999999999999999999999989999
Q ss_pred hCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHh
Q 005797 161 KEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAE 240 (677)
Q Consensus 161 ~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~ 240 (677)
..|+.|+++.|.|++.+|+.+.+..|+..+..|......+++.|+|||+||+||||+|||+|||...+|+..+|++.|+.
T Consensus 84 ~~g~~Y~K~~c~g~~~vp~~~~v~~fv~~v~~f~~~~~~~~~LI~vhcthG~NrtgyLI~~yL~~~~~~s~~~aik~f~~ 163 (393)
T KOG2386|consen 84 ERGVKYLKRNCPGRGVVPRTELVDKFVKLVKGFVDDTKLDDELIGVHCTHGLNRTGYLICAYLADVGGYSSSEAIKRFAD 163 (393)
T ss_pred ccceeEEEeccCCcccCCCccchHHHHHHHHHHHhcccCCCCEEEEeCCCcccccceeeeeeeeeccCccHHHHHHHHHH
Confidence 99999999999999999999999999999999999888999999999999999999999999999999999999999999
Q ss_pred cCCCCcCCHHHHHHHHHHHhhcCCCCCCCCCCCccccccccCCC--CCCCCCCCCCc--ccccc--cccc------cccc
Q 005797 241 VRPPGIYKNEYIEALYTFYHEKRLDSTPCPSTPEWKRELDLNGE--AVPDDDDDGVP--AAALH--ENNE------VTMT 308 (677)
Q Consensus 241 ~Rp~~i~~~~~l~~L~~~y~~~~~~~~~~p~~P~W~~~~~~~~~--~~~d~~~~~~~--~~~~~--~~~~------~~~~ 308 (677)
+||++|+++.|+++|+.+|++..+..+.+|..|.|+.+.....+ .+.++|+...+ ..+.. ++.+ .++.
T Consensus 164 ~r~~gi~k~dyi~~L~~~~~~~~p~~vs~p~~~~~~~~~~~~~~~~~~~~~Dg~i~t~~~~pg~~~g~~~~~~k~k~~~~ 243 (393)
T KOG2386|consen 164 ARPPGIEKQDYIDALYSRYHDIFPFKVSCPSMPDWKRSIKLKKPVHKLHGNDGLIFTPAEIPGSKNGKQEALLKWKPFSL 243 (393)
T ss_pred hCCCccCchHHHHHHhhcccccccccccCCCCcchhhhhhhccccccccccCCCcCCcccCccccccchhhhhcCCchhc
Confidence 99999999999999999999999777999999999995443322 22222222111 11221 1111 2233
Q ss_pred CCCCCCCccChhHHHHHHHHHHHhhhcccCCCCCCCCCCCcccccchhchhhhccCCeEEEEcccceEEEEEEECCE-EE
Q 005797 309 NDDVLGDEIPNDQQDAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDG-CY 387 (677)
Q Consensus 309 ~~~~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~FPGsqPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~-vy 387 (677)
|.-++|+.....+ ..++.+.. ....| |+|||| |.|+..+....|.++||+||+||++++++++ +|
T Consensus 244 n~~~~~~~~~~~q-----~~~~~l~~------~~~~~-g~~~~~--r~~~~~~~~~~y~~~We~dg~~~~~L~~~~~~~~ 309 (393)
T KOG2386|consen 244 NTIDFGVKLEKPQ-----PELGDLQC------KRKNE-GAQPVS--RENYKLLVFEYYEASWEADGTRYMMLIDGDGEYY 309 (393)
T ss_pred CCcccceeecCCC-----CCccchhh------hhccc-ccCCcc--ccchhhhhhhhhhhhhcccCcEEEEEecCCceeE
Confidence 3334444432222 12222221 12334 999999 9999999999999999999999999999886 68
Q ss_pred EEeCCCc-cccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCCCCceeEEEEeEEeecCCccccCCCHHHHHHHHH
Q 005797 388 LIDRCFN-FRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLE 466 (677)
Q Consensus 388 LidR~~~-~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~ 466 (677)
++||.+. +..-+++||...+.. ..+..||+||||++|+....+ .++|++||++.+|++++...||. |++++.
T Consensus 310 ~~dR~~~~~~~~~~~~~~~~~~~----~~~~~tl~dge~~lD~l~~~~--~~r~l~Yd~~r~n~~~v~~~~f~-r~~~~~ 382 (393)
T KOG2386|consen 310 DFDRWRFVKGRENLRKIREDSDT----KVLHQTLLDGEMILDRLKEEA--IPRYLIYDMVRFNSQKVEKRPFS-RWQIIE 382 (393)
T ss_pred echhhhHHHhhhhhhcccccccc----hhhhhhhcccceecccccccc--chhheeeeeeeccCcccccCcch-HHHHHH
Confidence 8888765 334467776543321 336789999999999876553 78999999999999999999999 999999
Q ss_pred HHhcCccch
Q 005797 467 KEVIEPRNY 475 (677)
Q Consensus 467 ~~i~~pr~~ 475 (677)
++|++|+..
T Consensus 383 ~evi~~r~~ 391 (393)
T KOG2386|consen 383 KEVIDPREL 391 (393)
T ss_pred HHhcCchhc
Confidence 999999853
No 3
>PF01331 mRNA_cap_enzyme: mRNA capping enzyme, catalytic domain; InterPro: IPR001339 The mRNA capping enzyme in yeasts is composed of two separate chains, alpha a mRNA guanyltransferase and beta an RNA 5'-triphosphate. X-ray crystallography reveals a large conformational change during guanyl transfer by mRNA capping enzymes []. Binding of the enzyme to nucleotides is specific to the GMP moiety of GTP. The viral mRNA capping enzyme is a monomer that transfers a GMP cap onto the end of mRNA that terminates with a 5'-diphosphate tail.; GO: 0004484 mRNA guanylyltransferase activity, 0006370 mRNA capping, 0006397 mRNA processing; PDB: 3RTX_A 3KYH_D 3S24_G 1CKN_B 1CKO_A 1CKM_B 1P16_B.
Probab=100.00 E-value=5.7e-45 Score=362.30 Aligned_cols=190 Identities=46% Similarity=0.836 Sum_probs=157.5
Q ss_pred cccccchhchhhhccCCeEEEEcccceEEEEEEECCEEEEEeCCCcccccc-CcCCCcCCCCcccccCCCCeeeeEEEEE
Q 005797 349 HPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQ-MRFPCRNSNEGLGEKTHHFTLLDGEMII 427 (677)
Q Consensus 349 qPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~-~~FP~~~~~~~~~~~~~~~tlLDGElV~ 427 (677)
|||||+|+||..|.+++|+||||+||+||||++.++++|||||+++++.++ ++||...+.. ....+++||||||||.
T Consensus 1 qPVS~~r~~l~~l~~~~Y~V~eKaDG~Ryll~i~~~~~ylidr~~~~~~v~~~~~p~~~~~~--~~~~~~~TLLDGElV~ 78 (192)
T PF01331_consen 1 QPVSFSRKNLQLLQQKDYFVCEKADGTRYLLLITDNGVYLIDRKNNVFKVDNLHFPSKKDSS--DGRHHQDTLLDGELVL 78 (192)
T ss_dssp EEEE--TTGHHHHHHS-EEEEEEESSEEEEEEEEEEEEEEEETTS-EEEESSST-ECTTC----TTCEGCSEEEEEEEEE
T ss_pred CCcccchhhHHHHhhCCcEEEECCCCcEEEEEEecceEEEEeCCCcEEEecCcccccccccc--cccccCCEEEEEEEEc
Confidence 899999999999999999999999999999999999999999999988887 8999765310 1234789999999999
Q ss_pred ecCCCCCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchh
Q 005797 428 DKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLST 507 (677)
Q Consensus 428 d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~ 507 (677)
|..++. ..++|+|||||+++|++++++||.+|+++|++.|+.|+.... . .+..+..+.+||.++.|+|++++.
T Consensus 79 d~~~~~--~~~~flifD~l~~~G~~v~~~~~~~Rl~~l~~~i~~p~~~~~--~---~~~~~~~~~~pf~i~~K~~~~~~~ 151 (192)
T PF01331_consen 79 DKDPGE--KKPRFLIFDILAINGQNVTDKPLDERLAYLQEEIIEPRKNAE--L---KSGIIKKKKEPFSIRIKDFFPIYQ 151 (192)
T ss_dssp EECTTC--EEEEEEEEEEEEETTEEGCCSBHHHHHHHHHHHTHHHHHHHH--C---HTTSCTCTTSSSEEEE---EEGGG
T ss_pred ccCCCC--CceEEEEEeeehhCCcEeccCCHHHHHHHHHHHHHHHHHhhc--c---ccccccccccceeeeccccHHHHh
Confidence 987653 579999999999999999999999999999999999987653 0 233444567899999999999999
Q ss_pred HHH-HHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEc
Q 005797 508 VNK-LLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWK 547 (677)
Q Consensus 508 ~~~-ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWK 547 (677)
++. +...+++.++|++|||||||.+.||++|||..+||||
T Consensus 152 ~~~~~~~~~~~~l~h~~DGLIFtp~~~pY~~Gt~~~llKWK 192 (192)
T PF01331_consen 152 IEKLLFEEFIPKLPHETDGLIFTPVNTPYVPGTCPNLLKWK 192 (192)
T ss_dssp HHHHCHHCCCCCTTSTEEEEEEEESSSB--SEEEEEEEEE-
T ss_pred hHHHHHHHhhccCCCCCCEEEEecCCCCccCCCCCccEeeC
Confidence 998 4567899999999999999999999999999999998
No 4
>cd07895 Adenylation_mRNA_capping Adenylation domain of GTP-dependent mRNA capping enzymes. RNA capping enzymes transfer GMP from GTP to the 5'-diphosphate end of nascent mRNAs to form a G(5')ppp(5')RNA cap structure. The RNA cap is found only in eukarya. RNA capping is chemically analogous to the first two steps of polynucleotide ligation. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation of nicked nucleic acid substrates using the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. Structural studies reveal a shared structure for DNA ligases and capping enzymes, with a common catalytic core composed of an adenylation or nucleotidyltransferase domain and a C-terminal OB-fold domain containing conserved sequence motifs. The adenylation domain binds ATP and contains many active site residues.
Probab=100.00 E-value=9.3e-40 Score=330.53 Aligned_cols=211 Identities=45% Similarity=0.700 Sum_probs=172.5
Q ss_pred HHHHHHHHHhhhcccCCCCCCCCCCCcccccchhchhhhccCCeEEEEcccceEEEEEEEC-CEEEEEeCCCccccccCc
Q 005797 323 DAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITI-DGCYLIDRCFNFRRVQMR 401 (677)
Q Consensus 323 ~~~r~~~~~~~~~~~~~~~~~~FPGsqPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~-~~vyLidR~~~~~~v~~~ 401 (677)
..++..+..++. .....+|||||||||+|+|+..+...+|+||||+||+|++|++.+ +++||+||+++++.. .
T Consensus 4 ~~l~~~~~~~~~----~~~~~~FpG~~pvs~~~~~~~~~~~~~y~ve~K~DG~R~~l~~~~~~~v~l~sR~~~~~~~--~ 77 (215)
T cd07895 4 SELRRKVAELCP----GWERGGFPGSQPVSFSRKNLELLKQNDYFVCEKSDGVRYLLLITGRGEVYLIDRKNDVFKV--P 77 (215)
T ss_pred HHHHHHHHHHhc----ccCCCCCCCCCccCccHHHHHHHhhCCeEEEEeEcCeEEEEEEecCCcEEEEeCCCCeEEe--c
Confidence 456666666651 245689999999999999999999999999999999999999999 899999999986544 3
Q ss_pred CCCcCCCCcccccCCCCeeeeEEEEEecCCCCCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhccccc
Q 005797 402 FPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIY 481 (677)
Q Consensus 402 FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~ 481 (677)
||....... ......+||||||||.+..++ ...++|+|||||+++|+++++.||.+|+++|++.+..+....+
T Consensus 78 ~~~~~~~~~-~~~~~~~~ilDGElv~~~~~~--~~~~~~~vFDiL~~~g~~l~~~pl~~R~~~L~~~i~~~~~~~~---- 150 (215)
T cd07895 78 GLFFPRRKN-LEPHHQGTLLDGELVIDKVPG--KKRPRYLIFDILAFNGQSVTEKPLSERLKYIKKEVIEPRNELL---- 150 (215)
T ss_pred cccCCCccc-ccccccCeeeEEEEEEEcCCC--ceEEEEEEEEEEEECCcCccCCCHHHHHHHHHHhchhHHHHhh----
Confidence 444321100 012357899999999987544 2468999999999999999999999999999998877654322
Q ss_pred ccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEcc
Q 005797 482 QSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKY 548 (677)
Q Consensus 482 ~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp 548 (677)
.+........+|.|+.|+|++++.++.+++.+.+.+.|++||||||+.++||.+||+..||||||
T Consensus 151 --~~~~~~~~~~~~~i~~k~~~~~~~~~~~~~~~~~~~~~~~EGlIfk~~~~~Y~~Gr~~~~lKwKp 215 (215)
T cd07895 151 --KKGPIDKAKEPFSVRLKDFFPLYKIEKLFEKIIPKLPHENDGLIFTPNDEPYVPGTDKNLLKWKP 215 (215)
T ss_pred --hcChhhcCCCCeEEEecceEeHHhHHHHHHhccccCCCCCCCEEEccCCCCccCccCCcceeeCC
Confidence 01112234678999999999999999999988788999999999999999999999999999998
No 5
>cd06846 Adenylation_DNA_ligase_like Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases. ATP-dependent polynucleotide ligases catalyze the phosphodiester bond formation of nicked nucleic acid substrates using ATP as a cofactor in a three step reaction mechanism. This family includes ATP-dependent DNA and RNA ligases. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent DNA ligases have a highly modular architecture, consisting of a unique arrangement of two or more discrete domains, including a DNA-binding domain, an adenylation or nucleotidyltransferase (NTase) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation domain binds ATP and contains many active site residues. Together with the C-terminal OB-fold domain, it comprises a catalytic core unit that is common to most members of the ATP-dependent DNA ligase family. The catalytic core contains six conserved seq
Probab=99.95 E-value=4.9e-27 Score=231.58 Aligned_cols=178 Identities=21% Similarity=0.287 Sum_probs=139.9
Q ss_pred CCCcccccchhchhhhccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEE
Q 005797 346 PGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEM 425 (677)
Q Consensus 346 PGsqPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGEl 425 (677)
|+++|+|+.+.+...+...+|+|++|+||+|+++++.++++++++|++..+ +..||..... .+ ...+..++|||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~e~K~DG~R~~~~~~~~~v~~~sR~g~~~--~~~~~~~~~~-~~-~~~~~~~ilDGEl 76 (182)
T cd06846 1 PQLLNPILEEALSEYDEQDEYYVQEKYDGKRALIVALNGGVFAISRTGLEV--PLPSILIPGR-EL-LTLKPGFILDGEL 76 (182)
T ss_pred CCccchhhhHHHhhccccCcEEEEEccCceEEEEEEcCCeEEEEeCCCCEE--ecccccccch-HH-hccCCCeeEEEEE
Confidence 467899999998777888999999999999999999999999999999743 4445543210 01 1235789999999
Q ss_pred EEecCCCCCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEc
Q 005797 426 IIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (677)
Q Consensus 426 V~d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~ 505 (677)
|....+. ....++|+|||||+++|.+++++||.+|+++|++.+..... ..++.+..+..++.
T Consensus 77 v~~~~~~-~~~~~~~~~FDil~~~~~~~~~~p~~eR~~~L~~~v~~~~~-----------------~~~~~i~~~~~~~~ 138 (182)
T cd06846 77 VVENREV-ANPKPTYYAFDVVPLSGVGLRDLPYSDRFAYLKSLLKEFEG-----------------LDPVKLVPLENAPS 138 (182)
T ss_pred EeccCCC-ccceeEEEEEEEEEECCCccccCCHHHHHHHHHHHhhhhcc-----------------CCceeEEEeecccc
Confidence 9876433 22468999999999999999999999999999997743211 13455666666665
Q ss_pred hh--HHHHHHHhcccccCCCceEEEEeCCCCC--ccCCCCCeEEEcc
Q 005797 506 ST--VNKLLKEFIPKLSHDADGLVFQGWDDPY--VPRTHEGLLKWKY 548 (677)
Q Consensus 506 ~~--~~~ll~~~~~~l~h~~DGLIf~p~~spY--~~G~~~~lLKWKp 548 (677)
.. +..+++. ...|+.||||||+.++|| .+|++..|+||||
T Consensus 139 ~~~~~~~~~~~---~~~~g~EGvi~K~~~s~Y~~~~gr~~~wlK~Kp 182 (182)
T cd06846 139 YDETLDDLLEK---LKKKGKEGLVFKHPDAPYKGRPGSSGNQLKLKP 182 (182)
T ss_pred cchHHHHHHHH---hhhcCCceEEEEcCCCCccccCCCCCceEeecC
Confidence 54 3455553 566999999999999999 9999999999998
No 6
>cd07898 Adenylation_DNA_ligase Adenylation domain of ATP-dependent DNA Ligases. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. Some organisms express a variety of different ligases which appear to be targeted to specific functions. ATP-dependent DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains including a DNA-binding domain, an adenylation (nucleotidyltransferase (NTase)) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation domain binds ATP and contains many of the active-site residues. The adenylation and C-terminal OB-f
Probab=99.91 E-value=5.4e-24 Score=213.28 Aligned_cols=162 Identities=22% Similarity=0.303 Sum_probs=124.4
Q ss_pred hccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC-------
Q 005797 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS------- 433 (677)
Q Consensus 361 l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~------- 433 (677)
.....|++++|+||+|+++++.++++++++|++.. .+..||..... + ....++++||||||+-..++.
T Consensus 18 ~~~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~--~t~~~p~i~~~--~-~~~~~~~vLDGElv~~~~~~~~~f~~~~ 92 (201)
T cd07898 18 KKPAAAWVEDKYDGIRAQVHKDGGRVEIFSRSLED--ITDQFPELAAA--A-KALPHEFILDGEILAWDDNRGLPFSELF 92 (201)
T ss_pred hCCCeEEEEEeeceEEEEEEEeCCEEEEEcCCChh--chhhhhhHHHH--H-HhCCCCEEEEEEEEEEeCCCCCcHHHHH
Confidence 44568999999999999999999999999999873 35568865331 1 123578999999986422111
Q ss_pred -------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEec
Q 005797 434 -------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (677)
Q Consensus 434 -------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K 500 (677)
....+.|+|||+|+++|++++++||.+|+++|++.+... +-.|...
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~p~~eR~~~L~~~~~~~---------------------~~~i~~~ 151 (201)
T cd07898 93 KRLGRKFRDKFLDEDVPVVLMAFDLLYLNGESLLDRPLRERRQLLEELFVEI---------------------PGRIRIA 151 (201)
T ss_pred HHhcccccchhhhccCcEEEEEEeEEeECCcchhhCCHHHHHHHHHHhhcCC---------------------CCcEEEe
Confidence 113479999999999999999999999999999966321 0115556
Q ss_pred ceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCC-CCCeEEEcc
Q 005797 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKY 548 (677)
Q Consensus 501 ~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~-~~~lLKWKp 548 (677)
++....+.+.+.+-+...+.++.||||+++.++||.+|+ +..||||||
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~g~EGim~K~~~s~Y~~g~Rs~~wlK~K~ 200 (201)
T cd07898 152 PALPVESAEELEAAFARARARGNEGLMLKDPDSPYEPGRRGLAWLKLKK 200 (201)
T ss_pred eeEEcCCHHHHHHHHHHHHHcCCceEEEeCCCCCcCCCCcCCCcEEeCC
Confidence 666666655444444457889999999999999999996 899999998
No 7
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=99.90 E-value=3.5e-23 Score=200.93 Aligned_cols=147 Identities=19% Similarity=0.241 Sum_probs=127.0
Q ss_pred ccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCC
Q 005797 100 IGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPD 179 (677)
Q Consensus 100 I~~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~ 179 (677)
++.+||||+.|+++.+.. .++.++. .+|++||+++. +.|+++.++..||.|+++|+.|+ .+|+
T Consensus 14 ~~~r~~~~~~P~~~~~~~------------~l~~L~~--~gI~~Iv~l~~--~~~~~~~~~~~gi~~~~~p~~D~-~~P~ 76 (166)
T PTZ00242 14 VLFKFLILDAPSPSNLPL------------YIKELQR--YNVTHLVRVCG--PTYDAELLEKNGIEVHDWPFDDG-APPP 76 (166)
T ss_pred eceEEEEecCCCcccHHH------------HHHHHHh--CCCeEEEecCC--CCCCHHHHHHCCCEEEecCCCCC-CCCC
Confidence 568999999999886653 2344443 58999999984 57888899999999999999986 7999
Q ss_pred HHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHH
Q 005797 180 NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFY 259 (677)
Q Consensus 180 ~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y 259 (677)
.+.+..|++.+.+++......+++|+|||.+|+||||+++|||||++.++++++|+++++++||.++ +..|++.|.+|.
T Consensus 77 ~~~i~~~~~~i~~~~~~~~~~g~~V~VHC~aGigRSgt~~a~yL~~~~~~s~~eAi~~vr~~R~~~i-~~~Q~~~l~~~~ 155 (166)
T PTZ00242 77 KAVIDNWLRLLDQEFAKQSTPPETIAVHCVAGLGRAPILVALALVEYGGMEPLDAVGFVREKRKGAI-NQTQLQFLKKYK 155 (166)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHHhCCCCHHHHHHHHHHHCCCCc-hHHHHHHHHHHH
Confidence 9999999999999887544678999999999999999999999999988999999999999999887 689999998888
Q ss_pred hhcCC
Q 005797 260 HEKRL 264 (677)
Q Consensus 260 ~~~~~ 264 (677)
...+.
T Consensus 156 ~~~~~ 160 (166)
T PTZ00242 156 PRKKA 160 (166)
T ss_pred HHhcc
Confidence 76543
No 8
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.90 E-value=1.5e-23 Score=193.37 Aligned_cols=170 Identities=18% Similarity=0.339 Sum_probs=134.4
Q ss_pred ccceeecccccccccCCCCCCCCCccCCCCCCcccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEE
Q 005797 67 AMHDQYYQNKNYKSYDRNKLPPGWLDCPPFGQEIGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVID 146 (677)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~lp~~W~~~~~~g~~I~~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VId 146 (677)
.+|++||||+.|++-+...--.+|- ++++-+--..+||.. .- ..++. ..+++.||.
T Consensus 2 ~ar~~fyptllynvv~~k~s~~~wy---~~~~~v~~~~~~FrS----~~------------~~~i~-----ke~v~gvv~ 57 (183)
T KOG1719|consen 2 GARVLFYPTLLYNVVREKASAFRWY---RIDEFVILGAMPFRS----MD------------VPLIK-----KENVGGVVT 57 (183)
T ss_pred CceeeecHHHHHHHHHHHHhhhcee---eecceEEEeeccccc----cc------------chHHH-----hcCCCeEEE
Confidence 4799999999999965554446674 444332111244443 11 12332 257999999
Q ss_pred cCCCCCCC-CcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHH
Q 005797 147 LTNTTRYY-PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMR 225 (677)
Q Consensus 147 Lt~~~~~y-~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~ 225 (677)
|+.+.++- ...+|++.||+++.+|+.|...+|+.+.|.+.+ +||++....|+.|+|||++|.+||+|+++||||.
T Consensus 58 ~ne~yE~~a~s~~wk~~giE~L~i~T~D~~~~Ps~~~i~~aV----eFi~k~asLGktvYVHCKAGRtRSaTvV~cYLmq 133 (183)
T KOG1719|consen 58 LNEPYELLAPSNLWKNYGIEFLVIPTRDYTGAPSLENIQKAV----EFIHKNASLGKTVYVHCKAGRTRSATVVACYLMQ 133 (183)
T ss_pred eCCchhhhhhhHHHHhccceeEEeccccccCCCCHHHHHHHH----HHHHhccccCCeEEEEecCCCccchhhhhhhhhh
Confidence 98654333 235899999999999999998999999998765 4676666789999999999999999999999999
Q ss_pred hcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 005797 226 SQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (677)
Q Consensus 226 ~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (677)
+.+|++++|++++++.||.....++|++.|.+||.....
T Consensus 134 ~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~ef~~~~~~ 172 (183)
T KOG1719|consen 134 HKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKEFYKQIVA 172 (183)
T ss_pred hcCCCHHHHHHHHHhcCcceeecHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999998654
No 9
>cd07903 Adenylation_DNA_ligase_IV Adenylation domain of DNA Ligase IV. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. There are three classes of ATP-dependent DNA ligase in eukaryotic cells (I, III and IV). DNA ligase IV is required for DNA non-homologous end joining pathways, including recombination of the V(D)J immunoglobulin gene segments in cells of the mammalian immune system. DNA ligase IV is stabilized by forming a complex with XRCC4, a nuclear phosphoprotein, which is phosphorylated by DNA-dependent protein kinase. DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more di
Probab=99.89 E-value=1.7e-22 Score=205.86 Aligned_cols=170 Identities=21% Similarity=0.274 Sum_probs=123.5
Q ss_pred hhhccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCc-------ccccCCCCeeeeEEEEEecC-
Q 005797 359 QLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEG-------LGEKTHHFTLLDGEMIIDKL- 430 (677)
Q Consensus 359 ~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~-------~~~~~~~~tlLDGElV~d~~- 430 (677)
..+...+|++++|+||+|+++++.++.+.+++|++.. .+..||....... .......+++||||||+-..
T Consensus 28 ~~~~~~~~~~E~K~DG~R~~i~~~~~~v~l~SR~g~~--~t~~~p~~~~~~~~~~~l~~~~~~~~~~~iLDGElv~~~~~ 105 (225)
T cd07903 28 KLLKGKPFYIETKLDGERIQLHKDGNEFKYFSRNGND--YTYLYGASLTPGSLTPYIHLAFNPKVKSCILDGEMVVWDKE 105 (225)
T ss_pred HhhcCCeEEEEEeeCceEEEEEecCCEEEEEeCCCcc--ccccccccccccccchhhhhhccccCcEEEeceEEEEEEcC
Confidence 3445678999999999999999998999999999983 3566776543210 00122467999999997321
Q ss_pred CC------------------CCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCC
Q 005797 431 PD------------------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDL 492 (677)
Q Consensus 431 ~~------------------~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~ 492 (677)
.+ .....+.|+|||||+++|.+++++||.+|+++|++.+. +..
T Consensus 106 ~~~~~~f~~l~~~~~~~~~~~~~~~~~~~vFDiL~~~g~~l~~~pl~eR~~~L~~~~~-~~~------------------ 166 (225)
T cd07903 106 TKRFLPFGTLKDVAKLREVEDSDLQPCFVVFDILYLNGKSLTNLPLHERKKLLEKIIT-PIP------------------ 166 (225)
T ss_pred cCeeccchHHHHHHhhcccccCCccEEEEEEEEEEECCeecccCcHHHHHHHHHHhcC-CCC------------------
Confidence 11 11234789999999999999999999999999999652 210
Q ss_pred CCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEccCCC
Q 005797 493 EPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARM 551 (677)
Q Consensus 493 ~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp~~~ 551 (677)
-.+...+....++.+.+.+-+...+.++.||||+|..+++|.+| ++..|+||||..+
T Consensus 167 --~~i~~~~~~~~~~~~~~~~~~~~~~~~g~EGlv~K~~~s~Y~~g~Rs~~wlK~K~~Y~ 224 (225)
T cd07903 167 --GRLEVVKRTEASTKEEIEEALNEAIDNREEGIVVKDLDSKYKPGKRGGGWIKIKPEYL 224 (225)
T ss_pred --CeEEEEEEEeCCCHHHHHHHHHHHHHcCCceEEEecCCCCCccCCcCCCcEEechhhc
Confidence 01334445555443333333334677999999999999999999 5789999999764
No 10
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=99.88 E-value=3.6e-22 Score=200.48 Aligned_cols=139 Identities=17% Similarity=0.291 Sum_probs=120.0
Q ss_pred CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHH
Q 005797 102 GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNA 181 (677)
Q Consensus 102 ~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e 181 (677)
.+||+|+.|+...+. ..++.++. .+|+.||+++ ++.|+++++++.||.|+++|++|+ .+|+.+
T Consensus 92 ~rfLi~~~P~~~~~~------------~yl~eLk~--~gV~~lVrlc--E~~Yd~~~~~~~GI~~~~lpipDg-~aPs~~ 154 (241)
T PTZ00393 92 IKILILDAPTNDLLP------------LYIKEMKN--YNVTDLVRTC--ERTYNDGEITSAGINVHELIFPDG-DAPTVD 154 (241)
T ss_pred eeEEEeCCCCHHHHH------------HHHHHHHH--cCCCEEEECC--CCCCCHHHHHHcCCeEEEeecCCC-CCCCHH
Confidence 499999999887543 23345544 5799999998 468899999999999999999996 899999
Q ss_pred HHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhh
Q 005797 182 SVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHE 261 (677)
Q Consensus 182 ~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~ 261 (677)
.+.+|++.+..++ ..|+.|+|||.+|.||||+|+|+|||+ .||++++|+++++++||.++ +..|++.|.+|...
T Consensus 155 ~i~~~l~~i~~~l----~~g~~VaVHC~AGlGRTGtl~AayLI~-~GmspeeAI~~VR~~RPgAI-n~~Q~~fL~~y~~~ 228 (241)
T PTZ00393 155 IVSNWLTIVNNVI----KNNRAVAVHCVAGLGRAPVLASIVLIE-FGMDPIDAIVFIRDRRKGAI-NKRQLQFLKAYKKK 228 (241)
T ss_pred HHHHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHH-cCCCHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHh
Confidence 9999998877665 368899999999999999999999998 69999999999999999887 68999999888876
Q ss_pred cC
Q 005797 262 KR 263 (677)
Q Consensus 262 ~~ 263 (677)
..
T Consensus 229 ~~ 230 (241)
T PTZ00393 229 KK 230 (241)
T ss_pred cc
Confidence 53
No 11
>cd07897 Adenylation_DNA_ligase_Bac1 Adenylation domain of putative bacterial ATP-dependent DNA ligases. Bacterial DNA ligases are divided into two broad classes: NAD-dependent and ATP-dependent. All bacterial species have a NAD-dependent DNA ligase (LigA). Some bacterial genomes contain multiple genes for DNA ligases that are predicted to use ATP as their cofactor, including Mycobacterium tuberculosis LigB, LigC, and LigD. This group is composed of predicted bacterial ATP-dependent DNA ligases. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three-step reaction mechanism. The adenylation and C-terminal oligonucleotide/oligosaccharide binding (OB)-fold domains comprise a catalytic core unit that is common to most members of the ATP-dependent DNA ligase family, including this group. The adenylation domain binds ATP and contains many of the active site residues.
Probab=99.88 E-value=5.3e-22 Score=199.73 Aligned_cols=164 Identities=22% Similarity=0.302 Sum_probs=120.3
Q ss_pred hccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC-------
Q 005797 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS------- 433 (677)
Q Consensus 361 l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~------- 433 (677)
+...+|++++|+||+|++++..++++.|++|+++ .++..||..... ......+++||||||+...++.
T Consensus 21 ~~~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~--~~t~~~p~l~~~---~~~l~~~~iLDGElv~~~~~~~~~F~~l~ 95 (207)
T cd07897 21 GDPSDWQAEWKWDGIRGQLIRRGGEVFLWSRGEE--LITGSFPELLAA---AEALPDGTVLDGELLVWRDGRPLPFNDLQ 95 (207)
T ss_pred cCcccEEEEEeEceEEEEEEEcCCEEEEEeCCCC--cccccchHHHHH---HHhCCCCeEEEeEEEEecCCCccCHHHHH
Confidence 3456899999999999999999899999999987 346678876432 1122468999999998542110
Q ss_pred -------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEec
Q 005797 434 -------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (677)
Q Consensus 434 -------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K 500 (677)
....+.|++||||+++|+++++.||.+|+++|++.+. +.. .+ .+.+.
T Consensus 96 ~r~~~~~~~~~~~~~~~~~~~vFDil~l~g~~l~~~pl~eRr~~L~~l~~-~~~----------~~---------~i~~~ 155 (207)
T cd07897 96 QRLGRKTVGKKLLAEAPAAFRAYDLLELNGEDLRALPLRERRARLEALLA-RLP----------PP---------RLDLS 155 (207)
T ss_pred HHhcccccchhhHhhCCeEEEEEeeeeECceEhhhCCHHHHHHHHHHhhh-hcC----------CC---------ceeec
Confidence 0123689999999999999999999999999999653 210 01 13333
Q ss_pred ceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCC-CCCeEEEccC
Q 005797 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYA 549 (677)
Q Consensus 501 ~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~-~~~lLKWKp~ 549 (677)
++...++.+.+.+-+...+.++.||||+|..+++|.+|+ +..|+|.|+.
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~~g~EGiv~K~~~s~Y~~Grr~~~W~K~K~d 205 (207)
T cd07897 156 PLIAFADWEELAALRAQSRERGAEGLMLKRRDSPYLVGRKKGDWWKWKID 205 (207)
T ss_pred ceEecCCHHHHHHHHHHHHHcCCeEEEEeCCCCCcCCCCcCCCeeEeCCC
Confidence 444444333333323346789999999999999999996 5689999974
No 12
>PRK09247 ATP-dependent DNA ligase; Validated
Probab=99.87 E-value=1.4e-21 Score=221.81 Aligned_cols=169 Identities=22% Similarity=0.304 Sum_probs=125.7
Q ss_pred ccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecC--CCC------
Q 005797 362 RQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKL--PDS------ 433 (677)
Q Consensus 362 ~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~--~~~------ 433 (677)
...+|++++|+||+|++++..++++.+++|+++ .++..||+..+.. .....++|||||||.... ++.
T Consensus 223 ~~~~~~~E~K~DG~R~qih~~~~~v~lfSR~g~--d~t~~fPei~~~~---~~l~~~~ILDGElv~~~~~~~~~~~F~~l 297 (539)
T PRK09247 223 DPADWQAEWKWDGIRVQLVRRGGEVRLWSRGEE--LITERFPELAEAA---EALPDGTVLDGELLVWRPEDGRPQPFADL 297 (539)
T ss_pred CCCcEEEEEeEcceEEEEEEeCCEEEEEeCCCc--cchhhhHHHHHHH---HhCCCCEEEEeEEEEEECCCCCcCCHHHH
Confidence 345899999999999999999999999999998 3477899765420 122457999999997541 110
Q ss_pred -----C---------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEe
Q 005797 434 -----R---------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRR 499 (677)
Q Consensus 434 -----~---------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~ 499 (677)
. ...++|++||||++||++++++||.+|+++|++.+.. .. ++ .+..
T Consensus 298 ~~R~~rk~~~~~~~~~~pv~~~vFDiL~l~g~~l~~~Pl~eRr~~L~~~~~~-~~----------~~---------~i~~ 357 (539)
T PRK09247 298 QQRIGRKTVGKKLLADYPAFLRAYDLLEDGGEDLRALPLAERRARLEALIAR-LP----------DP---------RLDL 357 (539)
T ss_pred HHHhcccccchhhhhcCCeEEEEEEeeeeCCcchhhCCHHHHHHHHHHHhcc-cC----------CC---------eEEe
Confidence 0 1246899999999999999999999999999996632 10 00 1233
Q ss_pred cceEEchh---HHHHHHHhcccccCCCceEEEEeCCCCCccCCC-CCeEEEccCCCceEEEEEE
Q 005797 500 KDFWLLST---VNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTH-EGLLKWKYARMNSVDFLFE 559 (677)
Q Consensus 500 K~~~~~~~---~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~-~~lLKWKp~~~nTVDF~l~ 559 (677)
.+.....+ +..+++ ..+.++.||||+|..+++|.+|++ ..|+|||+.. .|+|+++-
T Consensus 358 ~~~~~~~~~~e~~~~~~---~a~~~g~EGlm~K~~~s~Y~~Grr~~~WlK~K~~~-~t~DlVvi 417 (539)
T PRK09247 358 SPLVPFSDWDELAALRA---AARERGVEGLMLKRRDSPYLVGRKKGPWWKWKRDP-LTIDAVLM 417 (539)
T ss_pred cCceecCCHHHHHHHHH---HHHHCCCceEEEecCCCCcCCCCCcchhhcccCCC-CcEEEEEE
Confidence 33333333 344454 467899999999999999999974 6899999753 48999984
No 13
>cd07906 Adenylation_DNA_ligase_LigD_LigC Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases. Bacterial DNA ligases are divided into two broad classes: NAD-dependent and ATP-dependent. All bacterial species have a NAD-dependent DNA ligase (LigA). Some bacterial genomes contain multiple genes for DNA ligases that are predicted to use ATP as their cofactor, including Mycobacterium tuberculosis LigB, LigC, and LigD. This group is composed of ATP-dependent DNA ligases similar to Mycobacterium tuberculosis LigC. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. Members of this group contain adenylation and C-terminal oligonucleotide/oligosaccharide binding (OB)-fold domains, comprising a catalytic cor
Probab=99.86 E-value=2.4e-21 Score=192.47 Aligned_cols=157 Identities=21% Similarity=0.245 Sum_probs=117.7
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCC----------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPD---------- 432 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~---------- 432 (677)
..+|++++|+||+|++++..++++.+++|++.. ++..||..... +....+.+++||||||....++
T Consensus 15 ~~~~~~e~K~DG~R~~i~~~~~~v~~~SR~g~~--~t~~~p~l~~~--~~~~~~~~~iLDGElv~~~~~~~~~F~~l~~~ 90 (190)
T cd07906 15 GEDWLYEIKWDGYRALARVDGGRVRLYSRNGLD--WTARFPELAEA--LAALPVRDAVLDGEIVVLDEGGRPDFQALQNR 90 (190)
T ss_pred CCCeEEEEeEceEEEEEEEECCEEEEEcCCCCc--chhhhHHHHHH--HHhcCCCCEEEEeEEEEECCCCCCCHHHHHHh
Confidence 458999999999999999999999999999973 34567764321 1011357899999999843221
Q ss_pred -------CCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEc
Q 005797 433 -------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (677)
Q Consensus 433 -------~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~ 505 (677)
.....++|+|||||+++|+++.++||.+|+++|++.+. +.. + + +.+.+....
T Consensus 91 ~~~~~~~~~~~~~~~~vFDil~~~~~~~~~~p~~eR~~~L~~~~~-~~~-----------~-------~--i~~~~~~~~ 149 (190)
T cd07906 91 LRLRRRLARTVPVVYYAFDLLYLDGEDLRGLPLLERKELLEELLP-AGS-----------P-------R--LRVSEHFEG 149 (190)
T ss_pred hcccchhcccCceEEEEEeeeeeCCcchhhCCHHHHHHHHHHHhc-cCC-----------C-------c--EEECceEcC
Confidence 11245799999999999999999999999999999652 210 0 1 222333333
Q ss_pred hhHHHHHHHhcccccCCCceEEEEeCCCCCccCC-CCCeEEEcc
Q 005797 506 STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKY 548 (677)
Q Consensus 506 ~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~-~~~lLKWKp 548 (677)
. .+.+++. .+.++.||||++..++||.+|+ +..|||||+
T Consensus 150 ~-~~~~~~~---~~~~g~EGiv~K~~~s~Y~~g~rs~~wlK~K~ 189 (190)
T cd07906 150 G-GAALFAA---ACELGLEGIVAKRADSPYRSGRRSRDWLKIKC 189 (190)
T ss_pred C-HHHHHHH---HHHcCCcEEEEecCCCCcCCCCCCCccEEEec
Confidence 2 2456664 4678999999999999999998 899999995
No 14
>PF03919 mRNA_cap_C: mRNA capping enzyme, C-terminal domain; InterPro: IPR013846 This domain is found at the C terminus of the mRNA capping enzyme. The mRNA capping enzyme in yeasts is composed of two separate chains: alpha a mRNA guanyltransferase and beta an RNA 5'-triphosphate. X-ray crystallography reveals a large conformational change during guanyl transfer by mRNA capping enzymes []. Binding of the enzyme to nucleotides is specific to the GMP moiety of GTP. The viral mRNA capping enzyme is a monomer that transfers a GMP cap onto the end of mRNA that terminates with a 5'-diphosphate tail.; GO: 0004484 mRNA guanylyltransferase activity; PDB: 3S24_G 3RTX_A 3KYH_D 1CKN_B 1CKO_A 1CKM_B 1P16_B.
Probab=99.86 E-value=3.3e-22 Score=178.90 Aligned_cols=94 Identities=37% Similarity=0.568 Sum_probs=65.6
Q ss_pred CCceEEEEEEEecCC-ce-------eE-EEEeCCeeeeecC--ceeEecCCCCCCCCceEEEEEEeCCCCeeEEEEEecC
Q 005797 550 RMNSVDFLFEVTDDD-RQ-------LL-YVFERGKKKLMEG--SSVEFTDREPSFYSGKIIECTWDPDVQLWKCMRIRTD 618 (677)
Q Consensus 550 ~~nTVDF~l~~~~~~-~~-------~L-~~~~~g~~~~~~~--~~~~f~~~~~~~~dg~IvEC~~d~~~~~W~~~R~R~D 618 (677)
++|||||+|++.... .+ .| |+. ++.. ++.. ....+ .+...+++|+||||+||+++|+|+|||+|+|
T Consensus 1 e~NTIDF~l~l~~~~~~~~l~~~~g~ldy~~-~~~~-~f~~~~~~~~~-~~~~~~ld~rIVEC~~d~~~~~W~~~R~R~D 77 (105)
T PF03919_consen 1 EENTIDFKLKLEFPKGDGMLPPKVGKLDYVQ-GGYD-PFMYEEEWERL-KKDGQPLDGRIVECSFDNEKGQWKFMRIRDD 77 (105)
T ss_dssp GC-EEEEEEEEECEEECTTSCEEEEEECCCS-CTCT-ESEEEECCCCC-CCSTCCSTTCEEEEEEETTTTEEEEEEEETT
T ss_pred CCCCEeEeEEEecCCCCCcccCCCCcEEEEc-CCcc-ccchhhHHHHH-hhcccccCCcEEEEEEeCCCCcEeEEEEcCC
Confidence 489999999987431 11 22 221 1111 1100 01111 1667889999999999988999999999999
Q ss_pred CCCCChHHHHHHHHHhcccCCCHHHHHH
Q 005797 619 KSTPNDINTYRKVMRSIRDNITEEVLLN 646 (677)
Q Consensus 619 K~~pN~~~tv~~v~~SI~~~Vt~e~L~~ 646 (677)
|++||+++||.+||+||.++||+++|++
T Consensus 78 K~~pN~~~t~~~v~~sI~d~Vt~e~Ll~ 105 (105)
T PF03919_consen 78 KSTPNHISTVISVLESIEDPVTEEELLE 105 (105)
T ss_dssp SSS--BHHHHHHHHHHHHCS--HHHHHH
T ss_pred CCCCccHHHHHHHHHHHHcCCCHHHhcC
Confidence 9999999999999999999999999984
No 15
>cd07901 Adenylation_DNA_ligase_Arch_LigB Adenylation domain of archaeal and bacterial LigB-like DNA ligases. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. Bacterial DNA ligases are divided into two broad classes: NAD-dependent and ATP-dependent. All bacterial species have a NAD-dependent DNA ligase (LigA). Some bacterial genomes contain multiple genes for DNA ligases that are predicted to use ATP as their cofactor, including Mycobacterium tuberculosis LigB, LigC, and LigD. This group is composed of archaeal DNA ligases and bacterial proteins similar to Mycobacterium tuberculosis LigB. Members of this group contain adeny
Probab=99.86 E-value=3e-21 Score=194.30 Aligned_cols=160 Identities=18% Similarity=0.230 Sum_probs=118.1
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCC-CCeeeeEEEEEecC-CC--------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTH-HFTLLDGEMIIDKL-PD-------- 432 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~-~~tlLDGElV~d~~-~~-------- 432 (677)
..+|++++|+||.|+++++.++++.+++|++. .++..||+.... +..... .+++||||||+... +.
T Consensus 24 ~~~~~~E~K~DG~R~~~~~~~~~v~~~SR~~~--~~t~~~pel~~~--~~~~~~~~~~iLDGElv~~~~~g~~~~F~~l~ 99 (207)
T cd07901 24 GGEAAVEYKYDGIRVQIHKDGDEVRIFSRRLE--DITNALPEVVEA--VRELVKAEDAILDGEAVAYDPDGRPLPFQETL 99 (207)
T ss_pred CCcEEEEEeEcceeEEEEEeCCEEEEEeCCCc--cccchhhHHHHH--HHhcCCCCCEEEeCEEEEECCCCCccCHHHHH
Confidence 46899999999999999999999999999987 346678875431 101122 68999999987541 11
Q ss_pred -----CC-------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEec
Q 005797 433 -----SR-------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (677)
Q Consensus 433 -----~~-------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K 500 (677)
.. ...+.|+|||||+++|++++++||.+|+++|++.+. +. + .+...
T Consensus 100 ~r~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~pl~eR~~~L~~~~~-~~------------~---------~i~~~ 157 (207)
T cd07901 100 RRFRRKYDVEEAAEEIPLTLFLFDILYLDGEDLLDLPLSERRKILEEIVP-ET------------E---------AILLA 157 (207)
T ss_pred HHhccccchhhhhccCcEEEEEEEEEEECCcchhcCCHHHHHHHHHHhcC-cC------------C---------cEEEE
Confidence 00 123689999999999999999999999999999653 21 0 13333
Q ss_pred ceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEcc
Q 005797 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKY 548 (677)
Q Consensus 501 ~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp 548 (677)
+.....+.+.+.+-+...+.++.||||++..+++|.+| ++..||||||
T Consensus 158 ~~~~~~~~~~~~~~~~~~~~~g~EGiv~K~~~s~Y~~g~Rs~~wlK~K~ 206 (207)
T cd07901 158 PRIVTDDPEEAEEFFEEALEAGHEGVMVKSLDSPYQAGRRGKNWLKVKP 206 (207)
T ss_pred EEEecCCHHHHHHHHHHHHHcCCceEEEeCCCCCcCCCCCCCCeEEecC
Confidence 44444333333333334678999999999999999999 6789999998
No 16
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=99.86 E-value=3.7e-21 Score=186.70 Aligned_cols=149 Identities=23% Similarity=0.302 Sum_probs=125.1
Q ss_pred ccCceeecCCCCccccccCCCCCCC-CCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCC
Q 005797 100 IGGCIIPSKVPLSEFFNDCIPPGKR-YSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVP 178 (677)
Q Consensus 100 I~~~fip~k~Pl~~~~~~~i~~~~r-~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P 178 (677)
++++|++|.+|-..... +..... -.+..++..++ +.++++++-|+ .+.|+++.+.+.||.++++++.|. .+|
T Consensus 57 ~p~~~i~f~~p~~~s~g--i~~~f~~~~~~~~~~~~~--~~~v~s~vrln--~~~yd~~~f~~~Gi~h~~l~f~Dg-~tP 129 (225)
T KOG1720|consen 57 IPDRFIAFAGPHLKSRG--IESGFPLHLPQPYIQYFK--NNNVTSIVRLN--KRLYDAKRFTDAGIDHHDLFFADG-STP 129 (225)
T ss_pred ccchhhhhcCccccccc--hhhcccccCChhHHHHhh--hcccceEEEcC--CCCCChHHhcccCceeeeeecCCC-CCC
Confidence 35789999998665431 112222 24455666665 57899999998 678999999999999999999995 899
Q ss_pred CHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHH
Q 005797 179 DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 179 ~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~ 258 (677)
+.+.+.+|++.++.-+ . ++.|+|||++|+||||+|||||||+..|||+.|||+++|..||.++..+.|...+.++
T Consensus 130 ~~~~v~~fv~i~e~~~----~-~g~iaVHCkaGlGRTG~liAc~lmy~~g~ta~eaI~~lR~~RpG~V~gpqQ~~l~~~q 204 (225)
T KOG1720|consen 130 TDAIVKEFVKIVENAE----K-GGKIAVHCKAGLGRTGTLIACYLMYEYGMTAGEAIAWLRICRPGAVIGPQQHKLLHKQ 204 (225)
T ss_pred CHHHHHHHHHHHHHHH----h-cCeEEEEeccCCCchhHHHHHHHHHHhCCCHHHHHHHHHhcCCccccCHHHHHHHHHH
Confidence 9999999999876542 2 8999999999999999999999999999999999999999999999999998888887
Q ss_pred Hh
Q 005797 259 YH 260 (677)
Q Consensus 259 y~ 260 (677)
+.
T Consensus 205 ~~ 206 (225)
T KOG1720|consen 205 RD 206 (225)
T ss_pred HH
Confidence 76
No 17
>cd07900 Adenylation_DNA_ligase_I_Euk Adenylation domain of eukaryotic DNA Ligase I. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. Some organisms express a variety of different ligases which appear to be targeted to specific functions. There are three classes of ATP-dependent DNA ligases in eukaryotic cells (I, III and IV). DNA ligase I is required for the ligation of Okazaki fragments during lagging-strand DNA synthesis and for base excision repair (BER). DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains. The adenylation and C-terminal oligonucleotide/oligo
Probab=99.86 E-value=5.8e-21 Score=193.74 Aligned_cols=164 Identities=16% Similarity=0.240 Sum_probs=119.4
Q ss_pred hhccCCeEEEEcccceEEEEEEEC-CEEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCC-CC---
Q 005797 360 LLRQRYYYATWKADGTRYMMLITI-DGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLP-DS--- 433 (677)
Q Consensus 360 ~l~~~~Y~V~eK~DG~R~ll~i~~-~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~-~~--- 433 (677)
.+...+|++++|+||.|+++++.+ +.+.|++|+++. ++-.||+.... .........++|||||||+.... +.
T Consensus 27 ~~~~~~~~~E~K~DG~R~~~h~~~~~~v~l~SR~g~~--~t~~~pel~~~~~~~~~~~~~~~iLDGElv~~~~~~g~~~~ 104 (219)
T cd07900 27 RFEDKEFTCEYKYDGERAQIHLLEDGKVKIFSRNLEN--NTEKYPDIVAVLPKSLKPSVKSFILDSEIVAYDRETGKILP 104 (219)
T ss_pred HhCCCeEEEEEeecceEEEEEEcCCCeEEEECCCCcc--ccchhhHHHHHHHHHhcccCccEEEeeEEEEEEcCCCCCcC
Confidence 344568999999999999999886 789999999973 36678875432 11101124679999999875321 11
Q ss_pred ----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEE
Q 005797 434 ----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRV 497 (677)
Q Consensus 434 ----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i 497 (677)
....+.|++||||++||++++.+||.+|+++|++.+ .+.. -.+
T Consensus 105 F~~l~~r~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~-~~~~--------------------~~~ 163 (219)
T cd07900 105 FQVLSTRKRKDVDANDIKVQVCVFAFDLLYLNGESLLKKPLRERRELLHSLF-KEVP--------------------GRF 163 (219)
T ss_pred hHHHhhhcccccccccCcccEEEEEEEEEEECCchhhcCCHHHHHHHHHHhc-CCCC--------------------CeE
Confidence 013478999999999999999999999999999965 2210 013
Q ss_pred EecceEEch---hHHHHHHHhcccccCCCceEEEEeCC--CCCccCC-CCCeEEEccC
Q 005797 498 RRKDFWLLS---TVNKLLKEFIPKLSHDADGLVFQGWD--DPYVPRT-HEGLLKWKYA 549 (677)
Q Consensus 498 ~~K~~~~~~---~~~~ll~~~~~~l~h~~DGLIf~p~~--spY~~G~-~~~lLKWKp~ 549 (677)
.+.+....+ .+..+|+ ..+.++.||||+|..+ ++|.+|+ +..|+|+||.
T Consensus 164 ~~~~~~~~~~~~~~~~~~~---~~~~~g~EGiv~K~~~~~s~Y~~g~Rs~~W~K~K~d 218 (219)
T cd07900 164 QFATSKDSEDTEEIQEFLE---EAVKNNCEGLMVKTLDSDATYEPSKRSHNWLKLKKD 218 (219)
T ss_pred EEEEEEecCCHHHHHHHHH---HHHHcCCceEEEecCCCCCccCCCCcCCCceEeCCC
Confidence 333444444 3444554 4678999999999999 9999985 6789999984
No 18
>cd07905 Adenylation_DNA_ligase_LigC Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases. Bacterial DNA ligases are divided into two broad classes: NAD-dependent and ATP-dependent. All bacterial species have a NAD-dependent DNA ligase (LigA). Some bacterial genomes contain multiple genes for DNA ligases that are predicted to use ATP as their cofactor, including Mycobacterium tuberculosis LigB, LigC, and LigD. This group is composed of ATP-dependent DNA ligases similar to Mycobacterium tuberculosis LigC. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. Members of this group contain adenylation and C-terminal oligonucleotide/oligosaccharide binding (OB)-fold domains, comprising a catalytic core unit that is
Probab=99.85 E-value=8e-21 Score=189.36 Aligned_cols=158 Identities=21% Similarity=0.223 Sum_probs=116.2
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC---------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~--------- 433 (677)
..+|++++|+||+|++++..++++.|++|++. .++..||+..+. +......+++||||||+-..+..
T Consensus 15 ~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~--~~t~~~p~~~~~--~~~~~~~~~iLDGElv~~~~~~~~F~~l~~r~ 90 (194)
T cd07905 15 PGGWQYEPKWDGFRCLAFRDGDEVRLQSRSGK--PLTRYFPELVAA--ARALLPPGCVLDGELVVWRGGRLDFDALQQRI 90 (194)
T ss_pred CCceEEEeeeceEEEEEEEeCCEEEEEeCCCC--chhhhhHHHHHH--HHhhCCCCEEEEeEEEEEcCCCCCHHHHHHHh
Confidence 45899999999999999999999999999987 335568875421 11112457999999997422110
Q ss_pred -----------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecce
Q 005797 434 -----------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDF 502 (677)
Q Consensus 434 -----------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~ 502 (677)
....++|++||||+++|.++++.||.+|++.|++.+.. . .+. +.....
T Consensus 91 ~~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~~-~-----------~~~---------i~~~~~ 149 (194)
T cd07905 91 HPAASRVRRLAEETPASFVAFDLLALGGRDLRGRPLRERRAALEALLAG-W-----------GPP---------LHLSPA 149 (194)
T ss_pred cccccchhhhhccCCEEEEEEeeeeeCCcccccCCHHHHHHHHHHHhcc-c-----------CCC---------eEECCc
Confidence 01346899999999999999999999999999996632 1 011 222222
Q ss_pred EE-chhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccC
Q 005797 503 WL-LSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYA 549 (677)
Q Consensus 503 ~~-~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~ 549 (677)
.. ...+..+++. .+.++.||||++..+++|.+|+ ..|+|+||.
T Consensus 150 ~~~~~~~~~~~~~---~~~~g~EGiv~K~~~s~Y~~Gr-~~WlK~K~~ 193 (194)
T cd07905 150 TTDRAEAREWLEE---FEGAGLEGVVAKRLDGPYRPGE-RAMLKVKHR 193 (194)
T ss_pred cCCHHHHHHHHHH---HHHCCCceEEEeCCCCCcCCCC-CcEEEEecc
Confidence 21 1234455554 5679999999999999999999 799999974
No 19
>cd08039 Adenylation_DNA_ligase_Fungal Adenylation domain of uncharacterized fungal ATP-dependent DNA ligase-like proteins. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. This group is composed of uncharacterized fungal proteins with similarity to ATP-dependent DNA ligases. ATP dependent DNA ligases have a highly modular architecture consisting of a unique arrangement of two or more discrete domains including a DNA-binding domain, an adenylation (nucleotidyltransferase (NTase)) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The adenylation domain binds ATP and contains many of the active-site res
Probab=99.85 E-value=1.7e-20 Score=191.84 Aligned_cols=182 Identities=18% Similarity=0.254 Sum_probs=121.8
Q ss_pred ccccchhchh----hhccCCeEEEEcccceEEEEEEE----CCEEEEEeCCCccccccCcCCCcCCC-C-ccc----c-c
Q 005797 350 PVSLNSDNLQ----LLRQRYYYATWKADGTRYMMLIT----IDGCYLIDRCFNFRRVQMRFPCRNSN-E-GLG----E-K 414 (677)
Q Consensus 350 PVsl~r~nl~----~l~~~~Y~V~eK~DG~R~ll~i~----~~~vyLidR~~~~~~v~~~FP~~~~~-~-~~~----~-~ 414 (677)
|-|+.-.+++ .+...+|++++|+||.|+++++. ++.+.|++|+++ .++..||+.... . .+. . .
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~E~K~DG~R~qih~~~~~~~~~v~lfSR~~~--d~T~~~pel~~~~~~~~~~~~~~~~ 81 (235)
T cd08039 4 PKSLKARSIKHCCKMIGSRRMWVETKYDGEYCQIHIDLSKDSSPIRIFSKSGK--DSTADRAGVHSIIRKALRIGKPGCK 81 (235)
T ss_pred cchhcccCHHHHHHHhCCCcEEEEEeecceEEEEEEecccCCCEEEEEeCCCC--cccccchhHHHHHHHHhhccccccC
Confidence 4555555544 45677899999999999999987 678999999987 335678865321 0 010 0 0
Q ss_pred CCCCeeeeEEEEEecC-CCC---------------------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHH
Q 005797 415 THHFTLLDGEMIIDKL-PDS---------------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLE 466 (677)
Q Consensus 415 ~~~~tlLDGElV~d~~-~~~---------------------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~ 466 (677)
..+++|||||||+... ++. ....+.|++||+|++||+++++.||.+|+++|+
T Consensus 82 ~~~~~ILDGEiVv~d~~~g~~~~F~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~vFDlL~lnG~~l~~~pl~eRr~~L~ 161 (235)
T cd08039 82 FSKNCILEGEMVVWSDRQGKIDPFHKIRKHVERSGSFIGTDNDSPPHEYEHLMIVFFDVLLLDDESLLSKPYSERRDLLE 161 (235)
T ss_pred CCccEEEEeEEEEEECCCCccCCHHHHHhhcccccchhccccccccccccceEEEEEEEEEECChhhhcCCHHHHHHHHH
Confidence 1367999999987432 210 012369999999999999999999999999999
Q ss_pred HHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCCC------
Q 005797 467 KEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTH------ 540 (677)
Q Consensus 467 ~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~------ 540 (677)
+.+ .+...... +. +.+.+..........+..+|+ ..+..+.||||+|..+++|.+|+.
T Consensus 162 ~l~-~~~~~~~~-~~-----------~~~~i~~~~~~~~~~l~~~~~---~a~~~g~EGIv~K~~~S~Y~pgr~~~~~r~ 225 (235)
T cd08039 162 SLV-HVIPGYAG-LS-----------ERFPIDFSRSSGYERLRQIFA---RAIAERWEGLVLKGDEEPYFDLFLEQGSFS 225 (235)
T ss_pred Hhc-ccCCCcEE-EE-----------EEEeecccCCCCHHHHHHHHH---HHHHcCCceEEEecCCCCcccCcccccccC
Confidence 965 32110000 00 000011000111123344554 467889999999999999999986
Q ss_pred CCeEEEccC
Q 005797 541 EGLLKWKYA 549 (677)
Q Consensus 541 ~~lLKWKp~ 549 (677)
..||||||.
T Consensus 226 ~~WlKlK~d 234 (235)
T cd08039 226 GCWIKLKKD 234 (235)
T ss_pred CCeEEeCCC
Confidence 699999984
No 20
>PRK07636 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.84 E-value=5.4e-20 Score=192.60 Aligned_cols=161 Identities=22% Similarity=0.243 Sum_probs=122.2
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCCC--------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSR-------- 434 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~-------- 434 (677)
..+|++++|+||+|+++++.++.+.|++|+++. ++..||+..+. . ...+++||||||.-...+..
T Consensus 17 ~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~--~t~~fPe~~~~-~----~~~~~vLDGElv~~d~~g~~~F~~l~~r 89 (275)
T PRK07636 17 SENYITEPKFDGIRLIASKNNGLIRLYTRHNNE--VTAKFPELLNL-D----IPDGTVLDGELIVLGSTGAPDFEAVMER 89 (275)
T ss_pred CCcEEEEEEEceeEEEEEEeCCEEEEEeCCCCC--chhhhhhHHhh-h----cCCCEEEEeEEEEECCCCCCCHHHHHHH
Confidence 458999999999999999999999999999873 36678876442 1 23579999999974321110
Q ss_pred --------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEch
Q 005797 435 --------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLS 506 (677)
Q Consensus 435 --------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~ 506 (677)
...+.|++||+|++||++++++||.+|+++|++.+. +.. . +....... .
T Consensus 90 ~~~~~~~~~~~~~~~vFDlL~~~g~~l~~~pl~eRr~~L~~~~~-~~~------------~---------~~~~~~~~-~ 146 (275)
T PRK07636 90 FQSKKSTKIHPVVFCVFDVLYINGVSLTALPLSERKEILASLLL-PHP------------N---------VKIIEGIE-G 146 (275)
T ss_pred hccccccccCceEEEEEEeEEECceehhhCCHHHHHHHHHHhcC-CCC------------C---------EEEccccc-c
Confidence 134689999999999999999999999999999653 211 1 12212211 2
Q ss_pred hHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEccCCCceEEEEE
Q 005797 507 TVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLF 558 (677)
Q Consensus 507 ~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp~~~nTVDF~l 558 (677)
....+++. ...++.||||+|..+++|.+| ++.+|+|.|. ..++|+.|
T Consensus 147 ~~~~~~~~---~~~~g~EGiV~K~~ds~Y~~g~Rs~~WlKiK~--~~~~e~vV 194 (275)
T PRK07636 147 HGTAYFEL---VEERELEGIVIKKANSPYEINKRSDNWLKVIN--YQYTDVLI 194 (275)
T ss_pred cHHHHHHH---HHHcCCcEEEEeCCCCCCCCCCCCCCeEEEec--CCeEEEEE
Confidence 34556664 456899999999999999999 5789999995 57999988
No 21
>cd09232 Snurportin-1_C C-terminal m3G cap-binding domain of nuclear import adaptor snurportin-1. Snurportin-1 (SPN1 or SNUPN) is a nuclear import adaptor for m3G-capped spliceosomal U small nucleoproteins (snRNPs), which are assembled in the cytoplasm. After capping and assembly, the U snRNPs are transported into the nucleus by SPN1 and importin beta; SPN1 is then returned to the cytoplasm by exportin 1 (CRM1), which also transports the non-capped U snRNPs. The U snRNPs are essential elements of the spliceosome, which catalyzes the excision of introns and the ligation of exons to form a mature mRNA. SPN1 contains two domains, an N-terminal importin beta-binding (IBB) domain and a C-terminal m3G cap-binding domain.
Probab=99.84 E-value=4.8e-20 Score=181.26 Aligned_cols=163 Identities=17% Similarity=0.221 Sum_probs=134.4
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCcc-ccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCCCCceeEEE
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNF-RRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYL 441 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~-~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~~~~~~yl 441 (677)
..+|+|-+-.-|+||||++..+.++++||+|.. ...+..||.... .+++|||+|.|..-+. ..++|+
T Consensus 20 ~~~w~~~~~P~G~R~lvv~~~g~t~~~~r~g~~~~~f~s~lP~g~~----------~~~~~g~tILDci~~~--~~~~yy 87 (186)
T cd09232 20 SEEWLVVPCPVGKRCLVVASKGKTVARSKNGRTLHRFSSALPGGSR----------KTSNSGYTILDCIYNE--DDRTYY 87 (186)
T ss_pred CcceEEEECcCceEEEEEEeCCEEEEEeCCCCEEEecccCCCCCCc----------CCCCCCCEEEEEecCC--CCCEEE
Confidence 458999999999999999999999999999974 333566664321 1278899988876433 358999
Q ss_pred EeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccc--
Q 005797 442 IYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKL-- 519 (677)
Q Consensus 442 iFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l-- 519 (677)
|+|||+++|.++.+.++.-|+..|+..+.+++...+ ....++|.++.++||+... +.|-+.+...+
T Consensus 88 VlDii~w~g~~l~d~~~~~Rf~wl~skl~E~~~~~~-----------~~~~~~~~f~~~p~~~~~~-~~l~~~~~~~~~~ 155 (186)
T cd09232 88 VLDVLCWNGHPLYDCETEFRFFWLRSKLEELPELDE-----------PSEKNPFRFVPLPYFPCTK-ESLQSAYSGPLND 155 (186)
T ss_pred EEEEeeeCCcccccCCcchhHHHHHhhCCCcccccc-----------ccccCCceEEecCcccCcH-HHHHHHHhccccc
Confidence 999999999999999999999999999988764321 2356899999999999987 44445666778
Q ss_pred -cCCCceEEEEeCCCCCccCCCCCeEEEccC
Q 005797 520 -SHDADGLVFQGWDDPYVPRTHEGLLKWKYA 549 (677)
Q Consensus 520 -~h~~DGLIf~p~~spY~~G~~~~lLKWKp~ 549 (677)
+|+.|||+|++.++.|++|+|..++||||.
T Consensus 156 ~~~e~DGLlFyhk~~~Y~~G~tPlvl~wKp~ 186 (186)
T cd09232 156 DPYELDGLLFYHKESHYTPGSTPLVLWLKDY 186 (186)
T ss_pred CCCCCceEEEEeCCCcccCcCCCcEEEecCC
Confidence 999999999999999999999999999983
No 22
>TIGR02779 NHEJ_ligase_lig DNA polymerase LigD, ligase domain. DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see TIGR02772), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NHEJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This model represents the ligase domain.
Probab=99.84 E-value=3.3e-20 Score=196.72 Aligned_cols=169 Identities=22% Similarity=0.289 Sum_probs=123.9
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC---------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~--------- 433 (677)
..+|++++|+||+|+++++.++++.|++|++.. ++..||..... +......+++||||||+....+.
T Consensus 11 ~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~--~t~~~p~l~~~--~~~~~~~~~iLDGElv~~d~~g~~~F~~l~~r 86 (298)
T TIGR02779 11 GDDWRYEVKYDGYRCLARIEGGKVRLISRNGHD--WTEKFPILAAA--LAALPILPAVLDGEIVVLDESGRSDFSALQNR 86 (298)
T ss_pred CCCEEEEEEEceEEEEEEEeCCEEEEEeCCCCc--hHhHhHHHHHH--HHhCCCCcEEEEeEEEEECCCCCCCHHHHHhh
Confidence 357999999999999999999999999999983 35567875432 10112368999999998532211
Q ss_pred ----CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHH
Q 005797 434 ----RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVN 509 (677)
Q Consensus 434 ----~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~ 509 (677)
....+.|++||||++||++++++||.+|+++|++.+.... .+..+............
T Consensus 87 ~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~l~~~~~-------------------~~~~~~~~~~~~~~~~~ 147 (298)
T TIGR02779 87 LRAGRDRPATYYAFDLLYLDGEDLRDLPLSERKKLLEELLKAIK-------------------GPLAPDRYSVHFEGDGQ 147 (298)
T ss_pred hhcCCCCceEEEEEeeeeECceehhcCCHHHHHHHHHHHhcccC-------------------CCceeEecccCchhHHH
Confidence 1134799999999999999999999999999999652210 01111110111223445
Q ss_pred HHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccCCCceEEEEEE
Q 005797 510 KLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (677)
Q Consensus 510 ~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~~~nTVDF~l~ 559 (677)
.+|+. ...++.||||+|..+++|.+|++..|+|+|+. .+.|+.|.
T Consensus 148 ~~~~~---~~~~g~EGiv~K~~ds~Y~~Grs~~WlK~K~~--~~~d~vV~ 192 (298)
T TIGR02779 148 ALLEA---ACRLGLEGVVAKRRDSPYRSGRSADWLKLKCR--RRQEFVIG 192 (298)
T ss_pred HHHHH---HHHcCCceEEEeCCCCCCCCCCCCCcEEEccC--CCCEEEEE
Confidence 56654 56799999999999999999998899999975 58898873
No 23
>PRK08224 ligC ATP-dependent DNA ligase; Reviewed
Probab=99.83 E-value=4.3e-20 Score=198.99 Aligned_cols=163 Identities=22% Similarity=0.288 Sum_probs=123.1
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC----------
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS---------- 433 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~---------- 433 (677)
.+|++++|+||+|+++++.++++.|++|++. .++-.||+..+. +......+++||||||+...++.
T Consensus 24 ~~w~~E~K~DG~R~~~~~~~~~v~l~SRng~--d~t~~fPel~~~--~~~~~~~~~vLDGEiVv~~~~~~~F~~Lq~r~~ 99 (350)
T PRK08224 24 DGWSYEPKWDGFRCLVFRDGDEVELGSRNGK--PLTRYFPELVAA--LRAELPERCVLDGEIVVARDGGLDFEALQQRIH 99 (350)
T ss_pred CcEEEEEeECeeEEEEEEECCEEEEEeCCCC--CchhhhHHHHHH--HHhhCCCCEEEeeEEEEeCCCCCCHHHHHhhhh
Confidence 4799999999999999999999999999997 345679976432 11112468999999998542210
Q ss_pred -C---------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceE
Q 005797 434 -R---------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFW 503 (677)
Q Consensus 434 -~---------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~ 503 (677)
. ...+.|++||+|++||++++++||.+|++.|++.+ .+. + + +.+....
T Consensus 100 ~~~~~~~~~~~~~pv~~~vFDlL~l~G~dl~~~Pl~eRr~~L~~l~-~~~------------~-------~--i~~~~~~ 157 (350)
T PRK08224 100 PAASRVRKLAEETPASFVAFDLLALGDRDLTGRPFAERRAALEAAA-AGS------------G-------P--VHLTPAT 157 (350)
T ss_pred ccccchhhhhhcCCEEEEEEeeeeECCcChhhCCHHHHHHHHHHhc-CCC------------C-------c--EEEeccc
Confidence 0 12368999999999999999999999999999965 211 1 1 2222222
Q ss_pred E-chhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccCCCceEEEEE
Q 005797 504 L-LSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLF 558 (677)
Q Consensus 504 ~-~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~~~nTVDF~l 558 (677)
. ....+.+|+. .+.++.||||+|..+++|.+|+.. |+|+|+ ..++||.|
T Consensus 158 ~~~~~~~~~~~~---a~~~G~EGIV~Kr~dS~Y~~Grr~-WlKiK~--~~~~d~vI 207 (350)
T PRK08224 158 TDPATARRWFEE---FEGAGLDGVIAKPLDGPYQPGKRA-MFKVKH--ERTADCVV 207 (350)
T ss_pred CCHHHHHHHHHH---HHhCCCcEEEEeCCCCCcCCCCcC-EEEEcc--CCcEEEEE
Confidence 2 2344556654 567999999999999999999876 999997 57999998
No 24
>PRK09633 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.83 E-value=1.3e-19 Score=207.08 Aligned_cols=278 Identities=18% Similarity=0.190 Sum_probs=170.8
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC-Cccccc--CCCCeeeeEEEEEecCCCC------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEK--THHFTLLDGEMIIDKLPDS------ 433 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~--~~~~tlLDGElV~d~~~~~------ 433 (677)
..+|+++.|+||.|+++++.++++.|++|++. .++..||+..+. ..+... ....+|||||||+....+.
T Consensus 15 g~~w~~E~K~DG~R~~~h~~~~~V~L~SRng~--d~T~~fPel~~~~~~~~~~~~~~~~~ILDGEiVvld~~g~~~F~~L 92 (610)
T PRK09633 15 GDEWRYEVKYDGFRCLLIIDETGITLISRNGR--ELTNTFPEIIEFCESNFEHLKEELPLTLDGELVCLVNPYRSDFEHV 92 (610)
T ss_pred CCcEEEEEeEcceEEEEEEECCEEEEEeCCCC--cchhhhhHHHHHHHhhhhccccCCceeeeeEEEEecCCCCCCHHHH
Confidence 35799999999999999999999999999997 457789975432 111000 1136899999997432110
Q ss_pred ----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEE
Q 005797 434 ----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRV 497 (677)
Q Consensus 434 ----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i 497 (677)
....+.|++||+|++||++++++||.+|+++|++.+. +.... ..+.. .... .+
T Consensus 93 q~R~~~~~~~~i~~~~~~~pv~~~vFDlL~lnG~dL~~~PL~eRr~~L~~ll~-~~~~~-------~~~~~-~~~~--~i 161 (610)
T PRK09633 93 QQRGRLKNTEVIAKSANARPCQLLAFDLLELKGESLTSLPYLERKKQLDKLMK-AAKLP-------ASPDP-YAKA--RI 161 (610)
T ss_pred HhhhhccccchhhhhhcccceEEEEEeecccCCcccccCCHHHHHHHHHHHhh-hcccc-------ccccc-cccc--ce
Confidence 0123589999999999999999999999999999663 21100 00000 0001 13
Q ss_pred EecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEccCCCceEEEEEEEecCCceeE--EEEeCC
Q 005797 498 RRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLFEVTDDDRQLL--YVFERG 574 (677)
Q Consensus 498 ~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp~~~nTVDF~l~~~~~~~~~L--~~~~~g 574 (677)
...+.+ ...+.+|+. .+.++.||||+|..+++|.+| |+.+|+|.|+ ..++||.|.--..+.+.+ -++++|
T Consensus 162 ~~~~~~--~~~~~l~~~---a~~~g~EGIV~Kr~dS~Y~~G~Rs~~WlKiK~--~~~~d~vI~G~~~~~g~~llgv~~~g 234 (610)
T PRK09633 162 QYIPST--TDFDALWEA---VKRYDGEGIVAKKKTSKWLENKRSKDWLKIKN--WRYVHVIVTGYDPSNGYFTGSVYKDG 234 (610)
T ss_pred EEcCCH--HHHHHHHHH---HHHcCCceEEEeCCCCCCCCCCCCCCeEEEec--cCCceeEEEEEecCCceEEEEEecCC
Confidence 333322 245566664 467899999999999999998 6889999997 478899873221112222 233444
Q ss_pred eeeeecCceeEecCC----------CC--C-------CCCceEEEEEEeCC-CCeeE---EEEEecCCCCCChHHHHHHH
Q 005797 575 KKKLMEGSSVEFTDR----------EP--S-------FYSGKIIECTWDPD-VQLWK---CMRIRTDKSTPNDINTYRKV 631 (677)
Q Consensus 575 ~~~~~~~~~~~f~~~----------~~--~-------~~dg~IvEC~~d~~-~~~W~---~~R~R~DK~~pN~~~tv~~v 631 (677)
+-..++.-..-|++. .. . -.=.-|+|+.|..- .|..+ |.|+|.||+- ...++...+
T Consensus 235 ~l~~vGkvgtGft~~~~~~L~~~l~~l~~~~~~~~~wV~P~LV~EV~~~e~t~g~LR~P~f~glR~DK~~-~ev~~~~~~ 313 (610)
T PRK09633 235 QLTEVGSVKHGMEDEERQTLRAIFKQNGTKTKSGEYTLEPSICVTVACITFDGGTLREPSFVSFLFDMDP-TECTYQQLQ 313 (610)
T ss_pred eEEEEEEecCCCCHHHHHHHHHHHHHhccCCCCCcEEEeeeEEEEEEEeecCCCeEEeeEEeEEEcCCCh-HHcchhhhh
Confidence 321111000012210 00 0 01235788888532 23343 7899999962 332222211
Q ss_pred H--------------Hhc---ccCCCHHHHHHHHHHHhc--Cccchhhc
Q 005797 632 M--------------RSI---RDNITEEVLLNEIQEIIR--LPMYADRI 661 (677)
Q Consensus 632 ~--------------~SI---~~~Vt~e~L~~~i~~i~~--~p~~~~~~ 661 (677)
. .-+ ..++|+.+|+.+-..+.- ||-..+|.
T Consensus 314 ~~~~~~~~~v~~t~~dkv~~p~~g~tK~dl~~Yy~~va~~~lp~l~~Rp 362 (610)
T PRK09633 314 RQLAPLPPKVEITSLDKPIWPKIHKTKADYLLYLQEVSPFLLPFLRDRA 362 (610)
T ss_pred hhhccCCcccccCCCCceecCCCCCCHHHHHHHHHHHHHHHHHHHcCCc
Confidence 0 001 357999999999888754 66666665
No 25
>cd07902 Adenylation_DNA_ligase_III Adenylation domain of DNA Ligase III. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three-step reaction mechanism. DNA ligases play a vital role in the diverse processes of DNA replication, recombination and repair. ATP-dependent ligases are present in many organisms such as viruses, bacteriophages, eukarya, archaea and bacteria. There are three classes of ATP-dependent DNA ligases in eukaryotic cells (I, III and IV). DNA ligase III is not found in lower eukaryotes and is present both in the nucleus and mitochondria. It has several isoforms; two splice forms, III-alpha and III-beta, differ in their carboxy-terminal sequences. DNA ligase III-beta is believed to play a role in homologous recombination during meiotic prophase. DNA ligase III-alpha interacts with X-ray Cross Complementing factor 1 (XRCC1) and functions in single nuc
Probab=99.83 E-value=4.7e-20 Score=186.42 Aligned_cols=161 Identities=19% Similarity=0.295 Sum_probs=113.5
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC--CcccccCCCCeeeeEEEEEecC--CCC------
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN--EGLGEKTHHFTLLDGEMIIDKL--PDS------ 433 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~--~~~~~~~~~~tlLDGElV~d~~--~~~------ 433 (677)
.+|++++|+||+|++++..++.+.+++|++.-+. ...||..... ..+ ....++|||||||+... +..
T Consensus 34 ~~~~~E~K~DG~R~~i~~~~~~v~l~SR~g~~~t-~~~~~~~~~~~~~~~--~~~~~~iLDGEiv~~d~~~g~~~~F~~l 110 (213)
T cd07902 34 NGMYAEIKYDGERVQVHKQGDNFKFFSRSLKPVL-PHKVAHFKDYIPKAF--PHGHSMILDSEVLLVDTKTGKPLPFGTL 110 (213)
T ss_pred CceEEEeccCCEEEEEEEcCCEEEEEcCCCcccc-cchhHHHHHHHHHhc--ccccceeeeeEEEEEECCCCcccccchh
Confidence 4699999999999999999899999999986321 1134432210 111 11457999999987431 111
Q ss_pred --------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEc
Q 005797 434 --------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (677)
Q Consensus 434 --------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~ 505 (677)
....+.|++||||+++|.+++++||.+|+++|++.+. +.. . .+.+.++...
T Consensus 111 ~~~~~~~~~~~~v~~~vFDiL~l~g~~l~~~pl~eR~~~L~~~~~-~~~------------------~--~~~~~~~~~~ 169 (213)
T cd07902 111 GIHKKSAFKDANVCLFVFDCLYYNGESLMDKPLRERRKILEDNMV-EIP------------------N--RIMLSEMKFV 169 (213)
T ss_pred hhhhccccccCceEEEEEEEeeeCCcchhcCcHHHHHHHHHHhcc-CCC------------------C--eEEEEEEEEc
Confidence 0124789999999999999999999999999999652 210 0 1334444444
Q ss_pred hhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccC
Q 005797 506 STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYA 549 (677)
Q Consensus 506 ~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~ 549 (677)
.+.+.+.+-+.....++.||||+|..+++|.+|+. .|+||||.
T Consensus 170 ~~~~~l~~~~~~~~~~g~EGvV~K~~~s~Y~~G~r-~W~K~K~d 212 (213)
T cd07902 170 KKADDLSAMIARVIKEGLEGLVLKDLKSVYEPGKR-HWLKVKKD 212 (213)
T ss_pred CCHHHHHHHHHHHHHCCCCeEEEeCCCCCccCCCC-CceEeCCC
Confidence 44333322222356899999999999999999986 79999974
No 26
>TIGR00574 dnl1 DNA ligase I, ATP-dependent (dnl1). All proteins in this family with known functions are ATP-dependent DNA ligases. Functions include DNA repair, DNA replication, and DNA recombination (or any process requiring ligation of two single-stranded DNA sections). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.82 E-value=7.4e-20 Score=207.59 Aligned_cols=169 Identities=22% Similarity=0.355 Sum_probs=125.1
Q ss_pred CeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCc-CCC--CcccccCCCCeeeeEEEEEecC--CCC------
Q 005797 365 YYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCR-NSN--EGLGEKTHHFTLLDGEMIIDKL--PDS------ 433 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~-~~~--~~~~~~~~~~tlLDGElV~d~~--~~~------ 433 (677)
+|++++|+||+|+++++.++++.+++|++. .++..||.. ... ..+ .....+|||||||.-.. +..
T Consensus 188 ~~~~E~K~DG~R~qih~~~~~v~l~SR~g~--~~t~~~pei~~~~~~~~~--~~~~~~ILDGElv~~d~~~g~~~~F~~l 263 (514)
T TIGR00574 188 KFYVEYKYDGERVQIHKDGDKFKIFSRRLE--NYTYAYPEIFTEFIKEAF--PGIKSCILDGEMVAIDPETGKILPFQTL 263 (514)
T ss_pred ceEEEEeecceEEEEEEcCCEEEEEcCCCc--ccccccchhHHHHHHHhc--CccceeeecceEEEEEcCCCCCcCcHhH
Confidence 899999999999999998889999999987 345678865 321 112 11346799999997532 110
Q ss_pred -------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEec
Q 005797 434 -------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (677)
Q Consensus 434 -------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K 500 (677)
....+.|++||||++||++++++||.+|+++|++.+ .+.. + .+...
T Consensus 264 ~~r~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~-~~~~-----------~---------~i~~~ 322 (514)
T TIGR00574 264 LRRKRRYDIDSMEKKVPVCLFVFDILYLNGESLIDEPLIERREILESIL-KPIP-----------N---------RIEIA 322 (514)
T ss_pred HhhhhhccccccccccceEEEEEEEEEECCcchhcCcHHHHHHHHHHhc-cCCC-----------C---------cEEEE
Confidence 013468999999999999999999999999999854 3321 0 13344
Q ss_pred ceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEccC----CCceEEEEE
Q 005797 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYA----RMNSVDFLF 558 (677)
Q Consensus 501 ~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp~----~~nTVDF~l 558 (677)
+....++.+.+-+.|...+.++.||||++..+++|.+| ++..|+||||. ...|+|+.|
T Consensus 323 ~~~~~~~~e~~~~~~~~~~~~g~EGlv~K~~ds~Y~~G~Rs~~WlK~K~~y~~~~~~~~D~vv 385 (514)
T TIGR00574 323 EMKITSNVEELEKFLNEAISEGCEGLMLKDLKSIYEPGKRGWLWLKFKPEYLEGMGDTLDLVV 385 (514)
T ss_pred EEEecCCHHHHHHHHHHHHHcCCceEEEecCCCcccCCCCCCcceeCchhhcccccCceeEEE
Confidence 44444444444333445778999999999999999999 67899999984 246899988
No 27
>PHA02587 30 DNA ligase; Provisional
Probab=99.82 E-value=5.5e-19 Score=198.49 Aligned_cols=175 Identities=17% Similarity=0.235 Sum_probs=119.9
Q ss_pred chhhhccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC-Ccccc---cCCCCeeeeEEEEEecCCC
Q 005797 357 NLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGE---KTHHFTLLDGEMIIDKLPD 432 (677)
Q Consensus 357 nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~---~~~~~tlLDGElV~d~~~~ 432 (677)
.+......+|++++|+||+|+++++.++++.+++|+++-+ + .||..... ..+.. ....+++||||||......
T Consensus 145 ~~~~~~~~~~~~E~K~DG~R~q~h~~~~~v~l~SR~g~~~--~-~~p~i~~~l~~~~~~~~~~~~~~VLDGElv~~~~~~ 221 (488)
T PHA02587 145 LIKKNIKFPAYAQLKADGARCFADIDADGIEIRSRNGNEY--L-GLDLLKEELKKMTAEARQRPGGVVIDGELVYVEVET 221 (488)
T ss_pred HHHhhccCcEEEEEccCceEEEEEEeCCEEEEEecCCccc--c-CChhHHHHHHHHhhhhcccCCcEEEEeEEEEEeccc
Confidence 3443223389999999999999999999999999998732 2 35654321 11100 1136799999999752100
Q ss_pred ------------------------------------------CCCceeEEEEeEEeecC---CccccCCCHHHHHHHHHH
Q 005797 433 ------------------------------------------SRRQERRYLIYDMMAIN---QASVIERPFYERWKMLEK 467 (677)
Q Consensus 433 ------------------------------------------~~~~~~~yliFDiL~~~---G~~l~~~pf~eR~~~L~~ 467 (677)
.....+.|++||+|.++ |..+..+||.+|++.|++
T Consensus 222 ~~~~~~~f~~~~~~~~~f~q~l~~R~~~~~i~~~~l~~~~~~~~~~pv~~~vFDiL~ld~y~~~~~~~~pl~eRr~~L~~ 301 (488)
T PHA02587 222 KKPNGLSFLFDDSKAKEFVGVVADRATGNGIVNKSLKGTISKEEAQEIVFQVWDIVPLEVYYGKEKSDMPYDDRFSKLAQ 301 (488)
T ss_pred CCCccchhhcccccccchhhhhhhhhhccchhhhhhccccchhhccceEEEEEEeechhhccCCccccCCHHHHHHHHHH
Confidence 00134689999999653 445778999999999999
Q ss_pred HhcCccchhcccccccCCCCccCCCCCcEEEecceEEch---hHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeE
Q 005797 468 EVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLS---TVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLL 544 (677)
Q Consensus 468 ~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~---~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lL 544 (677)
.+.... .+ .+...++.... .+..+++ ..+..+.||||++..+++|.+||+..|+
T Consensus 302 l~~~~~-----------~~---------~i~l~~~~~~~~~ee~~~~~~---~a~~~G~EGimlK~~ds~Y~~GRs~~Wl 358 (488)
T PHA02587 302 MFEDCG-----------YD---------RVELIENQVVNNLEEAKEIYK---RYVDQGLEGIILKNTDGLWEDGRSKDQI 358 (488)
T ss_pred HHhhcC-----------CC---------cEEEEeeEEcCCHHHHHHHHH---HHHhCCCCeEEEECCCCCCCCCCCCCcE
Confidence 763110 01 13333333333 3444554 4677899999999999999999998999
Q ss_pred EEccCCCceEEEEEE
Q 005797 545 KWKYARMNSVDFLFE 559 (677)
Q Consensus 545 KWKp~~~nTVDF~l~ 559 (677)
|||+. .|+|+.+-
T Consensus 359 KiK~~--~~~dlvVv 371 (488)
T PHA02587 359 KFKEV--IDIDLEIV 371 (488)
T ss_pred EecCC--CceEEEEE
Confidence 99975 57998873
No 28
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=99.81 E-value=1.9e-19 Score=169.23 Aligned_cols=113 Identities=19% Similarity=0.359 Sum_probs=97.4
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|++||||+.+...+. ..|++|+++|+.|... ..+..++..+.+||+.....+++|+|||++|.||||++
T Consensus 25 ~gi~~Vi~l~~~~~~~~-----~~~~~~~~ipi~D~~~----~~~~~~~~~~~~~i~~~~~~~~~VlVHC~~G~~RS~~v 95 (138)
T smart00195 25 LGITHVINVTNEVPNLN-----KKGFTYLGVPILDNTE----TKISPYFPEAVEFIEDAEKKGGKVLVHCQAGVSRSATL 95 (138)
T ss_pred cCCCEEEEccCCCCCCC-----CCCCEEEEEECCCCCC----CChHHHHHHHHHHHHHHhcCCCeEEEECCCCCchHHHH
Confidence 68999999997654332 4789999999998422 23445667788888877788999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHh
Q 005797 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYH 260 (677)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~ 260 (677)
++||||...||++++|+++++++||.+.++.+|+.+|..|+.
T Consensus 96 ~~~yl~~~~~~~~~~A~~~v~~~R~~~~p~~~~~~qL~~~e~ 137 (138)
T smart00195 96 IIAYLMKYRNLSLNDAYDFVKDRRPIISPNFGFLRQLIEYER 137 (138)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHCCccCCCHhHHHHHHHHhh
Confidence 999999999999999999999999999999999999998875
No 29
>PF00782 DSPc: Dual specificity phosphatase, catalytic domain; InterPro: IPR000340 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents dual specificity protein-tyrosine phosphatases. Ser/Thr and Tyr dual specificity phosphatases are a group of enzymes with both Ser/Thr (3.1.3.16 from EC) and tyrosine specific protein phosphatase (3.1.3.48 from EC) activity able to remove both the serine/threonine or tyrosine-bound phosphate group from a wide range of phosphoproteins, including a number of enzymes which have been phosphorylated under the action of a kinase. Dual specificity protein phosphatases (DSPs) regulate mitogenic signal transduction and control the cell cycle. The crystal structure of a human DSP, vaccinia H1-related phosphatase (or VHR), has been determined at 2.1 angstrom resolution []. A shallow active site pocket in VHR allows for the hydrolysis of phosphorylated serine, threonine, or tyrosine protein residues, whereas the deeper active site of protein tyrosine phosphatases (PTPs) restricts substrate specificity to only phosphotyrosine. Positively charged crevices near the active site may explain the enzyme's preference for substrates with two phosphorylated residues. The VHR structure defines a conserved structural scaffold for both DSPs and PTPs. A "recognition region" connecting helix alpha1 to strand beta1, may determine differences in substrate specificity between VHR, the PTPs, and other DSPs. These proteins may also have inactive phosphatase domains, and dependent on the domain composition this loss of catalytic activity has different effects on protein function. Inactive single domain phosphatases can still specifically bind substrates, and protect again dephosphorylation, while the inactive domains of tandem phosphatases can be further subdivided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre [].; GO: 0008138 protein tyrosine/serine/threonine phosphatase activity, 0006470 protein dephosphorylation; PDB: 2G6Z_A 1MKP_A 1YZ4_A 2P4D_A 1M3G_A 1ZZW_A 2OUD_A 2HXP_A 3LJ8_A 1OHD_A ....
Probab=99.81 E-value=1.4e-19 Score=168.74 Aligned_cols=116 Identities=24% Similarity=0.386 Sum_probs=97.5
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|++|||++.+.... ......+++|+++|+.|....| +..++..+.+||+++...+++|+|||.+|.||||++
T Consensus 17 ~~I~~Vin~~~~~~~~--~~~~~~~~~~~~i~~~D~~~~~----~~~~~~~~~~~i~~~~~~~~~VlVHC~~G~~RS~~v 90 (133)
T PF00782_consen 17 LGITHVINLQEECPNP--YFYKPEGIEYLRIPIDDDPEEP----ILEHLDQAVEFIENAISEGGKVLVHCKAGLSRSGAV 90 (133)
T ss_dssp TTEEEEEECSSSSSTS--HHHTTTTSEEEEEEEESSTTSH----GGGGHHHHHHHHHHHHHTTSEEEEEESSSSSHHHHH
T ss_pred CCCCEEEEccCCCcCc--hhcccCCCEEEEEEecCCCCcc----hHHHHHHHHHhhhhhhcccceeEEEeCCCcccchHH
Confidence 6899999999765432 3456679999999998843333 344455566677766678899999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHh
Q 005797 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYH 260 (677)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~ 260 (677)
++||||...+|++++|++++++.||.+.++..|+++|.+++.
T Consensus 91 ~~ayLm~~~~~~~~~A~~~v~~~rp~~~~~~~~~~~L~~~e~ 132 (133)
T PF00782_consen 91 AAAYLMKKNGMSLEEAIEYVRSRRPQINPNPSFIRQLYEYEK 132 (133)
T ss_dssp HHHHHHHHHTSSHHHHHHHHHHHSTTSTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHhhc
Confidence 999999999999999999999999999999999999999886
No 30
>PRK03180 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.80 E-value=2.8e-19 Score=201.60 Aligned_cols=163 Identities=21% Similarity=0.288 Sum_probs=122.3
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCCC--------
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDSR-------- 434 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~~-------- 434 (677)
.+|++++|+||+|++++..++++.+++|+++ .++-.||+.... ..+ ...++|||||||.-...+..
T Consensus 204 ~~~~~E~K~DG~R~qih~~~~~v~l~SR~~~--d~T~~fPei~~~~~~~---~~~~~ILDGElv~~d~~g~~~~F~~l~~ 278 (508)
T PRK03180 204 GPAAVEAKLDGARVQVHRDGDDVRVYTRTLD--DITARLPEVVEAVRAL---PVRSLVLDGEAIALRPDGRPRPFQVTAS 278 (508)
T ss_pred CCeEEEEEEceeEEEEEEECCEEEEEeCCCC--cchhhhHHHHHHHHhC---CCcceeecceEEEECCCCCcCCHHHHHH
Confidence 4799999999999999999999999999987 446678876431 111 13579999999974321110
Q ss_pred -------------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecc
Q 005797 435 -------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKD 501 (677)
Q Consensus 435 -------------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~ 501 (677)
...+.|++||+|++||++++++||.+|++.|++.+. +.. ..+. +..
T Consensus 279 R~~~k~~~~~~~~~~pv~~~~FDlL~l~G~dl~~~pl~eRr~~L~~~~~-~~~---------~~~~---------~~~-- 337 (508)
T PRK03180 279 RFGRRVDVAAARATQPLSPFFFDALHLDGRDLLDAPLSERLAALDALVP-AAH---------RVPR---------LVT-- 337 (508)
T ss_pred HhccccchhhhcccCceEEEEEeehhcCCcchhcCCHHHHHHHHHHhhc-ccc---------cccc---------eec--
Confidence 123689999999999999999999999999999653 210 0000 111
Q ss_pred eEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCC-CCCeEEEccCCCceEEEEE
Q 005797 502 FWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYARMNSVDFLF 558 (677)
Q Consensus 502 ~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~-~~~lLKWKp~~~nTVDF~l 558 (677)
.....+..+++. ...++.||||+|..+++|.+|+ +..|+|||+. .|+|+.|
T Consensus 338 -~~~~~~~~~~~~---a~~~g~EGlm~K~~ds~Y~~GrR~~~WlK~K~~--~t~D~Vv 389 (508)
T PRK03180 338 -ADPAAAAAFLAA---ALAAGHEGVMVKSLDAPYAAGRRGAGWLKVKPV--HTLDLVV 389 (508)
T ss_pred -CCHHHHHHHHHH---HHHcCCceEEEeCCCCCcCCCCCCCCcEEEcCC--CceEEEE
Confidence 112344555554 6779999999999999999996 5799999984 6999998
No 31
>PLN03113 DNA ligase 1; Provisional
Probab=99.80 E-value=6.6e-19 Score=204.17 Aligned_cols=174 Identities=18% Similarity=0.237 Sum_probs=125.8
Q ss_pred hhhccCCeEEEEcccceEEEEEEE-CCEEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCC---
Q 005797 359 QLLRQRYYYATWKADGTRYMMLIT-IDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDS--- 433 (677)
Q Consensus 359 ~~l~~~~Y~V~eK~DG~R~ll~i~-~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~--- 433 (677)
..+...+|++++|+||.|++++.. ++.+.+++|+++ .++-.||+.... ..+......++|||||||.-...+.
T Consensus 386 ~~~~g~~~~~E~KyDGeR~QiH~~~~g~v~lfSRn~e--d~T~~fPel~~~~~~~~~~~~~~~ILDGEiVa~d~~~~~~l 463 (744)
T PLN03113 386 NKFQDMEFTCEYKYDGERAQIHFLEDGSVEIYSRNAE--RNTGKYPDVVVAISRLKKPSVKSFILDCELVAYDREKKKIL 463 (744)
T ss_pred hccCCCCEEEEEeeccceEEEEEecCCEEEEEeCCCC--cccccchhHHHHHHHhccccCCCEEEEeEEEEEECCCCCcC
Confidence 345556899999999999999975 568999999997 447789976431 1111111367999999997532111
Q ss_pred -----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcE
Q 005797 434 -----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFR 496 (677)
Q Consensus 434 -----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~ 496 (677)
.+..++|++||||++||++++++||.+|+++|++.+.. .. + .
T Consensus 464 pFq~Lq~R~rk~~~~~~~~~pv~~~aFDlLylnG~~L~~~PL~eRR~~L~~~~~~-~~-----------~---------~ 522 (744)
T PLN03113 464 PFQILSTRARKNVVMSDIKVDVCIFAFDMLYLNGQPLIQEQLKIRREHLYESFEE-DP-----------G---------F 522 (744)
T ss_pred CHHHHHhhhccccchhccccceEEEEEeccccCccChhcCCHHHHHHHHHHHhcc-CC-----------C---------c
Confidence 01236899999999999999999999999999996532 10 0 1
Q ss_pred EEecceEEch---hHHHHHHHhcccccCCCceEEEEeC--CCCCccC-CCCCeEEEccCCC----ceEEEEE
Q 005797 497 VRRKDFWLLS---TVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPR-THEGLLKWKYARM----NSVDFLF 558 (677)
Q Consensus 497 i~~K~~~~~~---~~~~ll~~~~~~l~h~~DGLIf~p~--~spY~~G-~~~~lLKWKp~~~----nTVDF~l 558 (677)
+...+..... .+..+|+ ..+.++.||||+|.. +++|.+| |+..|||||+..+ .|+|+.+
T Consensus 523 i~~~~~~~~~~~ee~~~~~~---~ai~~g~EGlmvK~l~~dS~Y~pGkRs~~WlKlK~dy~~~~~dtlDlVv 591 (744)
T PLN03113 523 FQFATAITSNDLEEIQKFLD---AAVDASCEGLIIKTLNKDATYEPSKRSNNWLKLKKDYMESIGDSLDLVP 591 (744)
T ss_pred EEEeeeeccCCHHHHHHHHH---HHHHcCCceEEEeccCCCCCccCCCCCCCeEEEechhhccccccccEEE
Confidence 2333333333 4445555 467799999999985 7899999 4789999998766 4999986
No 32
>PRK01109 ATP-dependent DNA ligase; Provisional
Probab=99.79 E-value=7.4e-19 Score=201.98 Aligned_cols=169 Identities=18% Similarity=0.274 Sum_probs=124.0
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccC-CCCeeeeEEEEEec-CCCCC-------
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKT-HHFTLLDGEMIIDK-LPDSR------- 434 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~-~~~tlLDGElV~d~-~~~~~------- 434 (677)
.+|++++|+||.|+++++.++++.+++|+++ .++..||+.... +.... ..++|||||||.-. ..+..
T Consensus 248 ~~~~~E~K~DG~R~qih~~~~~v~l~SR~~~--d~T~~~pel~~~--~~~~~~~~~~ILDGElv~~d~~~g~~~~F~~l~ 323 (590)
T PRK01109 248 GEALVEYKYDGERAQIHKKGDKVKIFSRRLE--NITHQYPDVVEY--AKEAIKAEEAIVEGEIVAVDPETGEMRPFQELM 323 (590)
T ss_pred CCeEEEecCCceEEEEEEcCCEEEEEeCCch--hhccccchHHHH--HHHhcCccceEEeeeEEEEECCCCcccChHHHh
Confidence 4699999999999999999999999999987 346779986432 10111 36799999998743 11110
Q ss_pred -------------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecc
Q 005797 435 -------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKD 501 (677)
Q Consensus 435 -------------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~ 501 (677)
...+.|++||||++||++++++||.+|+++|++.+. +.. . +...+
T Consensus 324 ~R~r~~~~~~~~~~~p~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~-~~~-------------------~--~~~~~ 381 (590)
T PRK01109 324 HRKRKYDIEEAIKEYPVNVFLFDLLYVDGEDLTDKPLPERRKKLEEIVK-END-------------------K--VKLAE 381 (590)
T ss_pred hcccccchhhhcccCceEEEEEEEEEECCcchhhCcHHHHHHHHHHhcC-CCC-------------------c--eEEee
Confidence 123579999999999999999999999999999652 210 0 23333
Q ss_pred eEEchhHHHHHHHhcccccCCCceEEEEeC--CCCCccC-CCCCeEEEccC----CCceEEEEE
Q 005797 502 FWLLSTVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPR-THEGLLKWKYA----RMNSVDFLF 558 (677)
Q Consensus 502 ~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~--~spY~~G-~~~~lLKWKp~----~~nTVDF~l 558 (677)
....++.+.+-+-|...+.++.||||+|.. +++|.+| |+..|+|+|+. ...|+|+.+
T Consensus 382 ~~~~~~~~~~~~~~~~a~~~g~EGiv~K~~~~ds~Y~~g~Rs~~WlK~K~dy~~~~~~~~Dlvv 445 (590)
T PRK01109 382 RIITDDVEELEKFFHRAIEEGCEGLMAKSLGKDSIYQAGARGWLWIKYKRDYQSEMADTVDLVV 445 (590)
T ss_pred eEecCCHHHHHHHHHHHHHcCCceEEEecCCCCCCcCCCCCCccHHHhhHHhhcccCCceeEEE
Confidence 333433333322233467899999999999 9999999 57899999973 456899887
No 33
>PF01068 DNA_ligase_A_M: ATP dependent DNA ligase domain; InterPro: IPR012310 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalysing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase, one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC), the latter being restricted to eubacteria. Eukaryotic, archaebacterial, viral and some eubacterial DNA ligases are ATP-dependent. The first step in the ligation reaction is the formation of a covalent enzyme-AMP complex. The co-factor ATP is cleaved to pyrophosphate and AMP, with the AMP being covalently joined to a highly conserved lysine residue in the active site of the ligase. The activated AMP residue is then transferred to the 5'phosphate of the nick, before the nick is sealed by phosphodiester-bond formation and AMP elimination [,]. Vertebrate cells encode three well-characterised DNA ligases (DNA ligases I, III and IV), all of which are related in structure and sequence. With the exception of the atypically small PBCV-1 viral enzyme, two regions of primary sequence are common to all members of the family. The catalytic region comprises six conserved sequence motifs (I, III, IIIa, IV, V-VI), motif I includes the lysine residue that is adenylated in the first step of the ligation reaction. The function of the second, less well-conserved region is unknown. When folded, each protein comprises of two distinct sub-domains: a large amino-terminal sub-domain ('domain 1') and a smaller carboxy-terminal sub-domain ('domain 2'). The ATP-binding site of the enzyme lies in the cleft between the two sub-domains. Domain 1 consists of two antiparallel beta sheets flanked by alpha helices, whereas domain 2 consists of a five-stranded beta barrel and a single alpha helix, which form the oligonucleotide-binding fold [, ]. This domain belongs to a more diverse superfamily, including catalytic domain of the mRNA capping enzyme (IPR001339 from INTERPRO) and NAD-dependent DNA ligase (IPR001679 from INTERPRO) []. ; GO: 0003910 DNA ligase (ATP) activity, 0005524 ATP binding, 0006281 DNA repair, 0006310 DNA recombination; PDB: 3RR5_A 1X9N_A 2CFM_A 3QWU_B 3GDE_A 2Q2U_C 2Q2T_A 1FVI_A 1P8L_A 2VUG_A ....
Probab=99.79 E-value=6.7e-19 Score=176.03 Aligned_cols=162 Identities=24% Similarity=0.385 Sum_probs=115.3
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEe-cCCCC-------
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIID-KLPDS------- 433 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d-~~~~~------- 433 (677)
..+|++++|+||+|++++..++++.+++|++..+ +..||+.... .........+++||||||.- ...+.
T Consensus 18 ~~~~~~e~K~DG~R~~i~~~~~~v~~~SR~g~~~--~~~~~~l~~~l~~~~~~~~~~~vLDGElv~~d~~~~~~~~f~~~ 95 (202)
T PF01068_consen 18 GGPWYVEPKYDGVRCQIHKDGGGVRLFSRNGKDI--TSQFPELAEALRELLFPDGPDFVLDGELVVLDPNTGSPLPFQEL 95 (202)
T ss_dssp TSCEEEEEEESSEEEEEEEETTEEEEEETTSSB---GGGHHHHHHHHHHHBCTSCTEEEEEEEEEEBETTTSSBCCHHHH
T ss_pred CCCeEEEEeEeeEEeeeeeccccceeecccccch--hhHHHHHHHHHHHHhcCCCCceEEEEEEEEEecCCCcchhHHHH
Confidence 6789999999999999999999999999999732 3345543210 00001113469999999982 11100
Q ss_pred --------C-----CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEec
Q 005797 434 --------R-----RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (677)
Q Consensus 434 --------~-----~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K 500 (677)
. ...+.|+|||+|+++|.+++++||.+|.++|++.+..+. + .+...
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~vFDil~l~~~~l~~~p~~eR~~~L~~~~~~~~------------~---------~i~~~ 154 (202)
T PF01068_consen 96 SGRLNRRSKKIPEQSEPLQFVVFDILYLDGKDLLDLPYEERRELLEELLEPPP------------P---------RIRIV 154 (202)
T ss_dssp HHHHBHSSSCHHHHHSCEEEEEEEEEEETTEECTTSCHHHHHHHHHHHBG-BT------------S---------SEEEE
T ss_pred hhhhhhhcccchhccCcEEEEEEEEEEeCCeEeeeccHHHHHHHHHHhhccCC------------C---------ceeEe
Confidence 0 135799999999999999999999999999999762111 1 14444
Q ss_pred ceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCCC-CCeEEEc
Q 005797 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTH-EGLLKWK 547 (677)
Q Consensus 501 ~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~-~~lLKWK 547 (677)
..+...+.+.+.+-+...+.++.||||++..+++|.+|+. ..|+|+|
T Consensus 155 ~~~~~~~~~~~~~~~~~~~~~g~EG~v~K~~~~~Y~~Gkrs~~w~K~K 202 (202)
T PF01068_consen 155 ESYVVNSKEELEELFEEAIDQGFEGLVLKDPDSPYEPGKRSSGWLKVK 202 (202)
T ss_dssp EEEEESSHHHHHHHHHHHHHTTSSEEEEEETTSSC-TTEEEEEEEEEE
T ss_pred eeecCCCHHHHHHHHHHHHHcCCceEEEECCCCccCCCCcCCCcEEEC
Confidence 5555555444443333467789999999999999999975 8999998
No 34
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=99.78 E-value=3.6e-18 Score=197.96 Aligned_cols=165 Identities=19% Similarity=0.250 Sum_probs=125.8
Q ss_pred hccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCC------
Q 005797 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDS------ 433 (677)
Q Consensus 361 l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~------ 433 (677)
+...+|+++.|+||+|+++++.++++.|++|+++ .++..||+.... ..+ ...++|||||||+-...+.
T Consensus 474 ~~~~~w~~E~K~DG~R~~~~~~~g~vrL~SRnG~--d~T~~fPel~~~~~~l---~~~~~ILDGEiVvld~~G~~~F~~L 548 (764)
T PRK09632 474 LKASQWAFEGKWDGYRLLAEADHGALRLRSRSGR--DVTAEYPELAALAEDL---ADHHVVLDGEIVALDDSGVPSFGLL 548 (764)
T ss_pred CCCCCEEEEEEECceeEEEEEeCCEEEEEeCCCC--CccccchhHHHHHhhC---CCcceeeeeEEEEeCCCCCCCHHHH
Confidence 3456899999999999999999999999999997 346679976432 112 1258999999997432221
Q ss_pred ----CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHH
Q 005797 434 ----RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVN 509 (677)
Q Consensus 434 ----~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~ 509 (677)
....+.|++||+|++||++++++||.+|+++|++.+. +.. .+...+.+.. +.+
T Consensus 549 q~r~~~~~v~y~vFDLL~lnG~dL~~~Pl~eRR~~L~~l~~-~~~---------------------~i~~s~~~~~-~~~ 605 (764)
T PRK09632 549 QNRGRDTRVEFWAFDLLYLDGRSLLRKPYRDRRKLLEALAP-SGG---------------------SLTVPPLLPG-DGA 605 (764)
T ss_pred hhhhhcCCeEEEEEeeeccCCcccccCCHHHHHHHHHHhhC-CCC---------------------cEEecceecc-cHH
Confidence 1134799999999999999999999999999999663 110 1233333332 345
Q ss_pred HHHHHhcccccCCCceEEEEeCCCCCccCC-CCCeEEEccCCCceEEEEE
Q 005797 510 KLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYARMNSVDFLF 558 (677)
Q Consensus 510 ~ll~~~~~~l~h~~DGLIf~p~~spY~~G~-~~~lLKWKp~~~nTVDF~l 558 (677)
.+|+. ...++.||||+|..+++|.+|+ +.+|||.|+. .+.||.|
T Consensus 606 ~~l~~---a~~~GlEGIVaKr~dS~Y~pGrRs~~WlKiK~~--~~~e~VI 650 (764)
T PRK09632 606 EALAY---SRELGWEGVVAKRRDSTYQPGRRSSSWIKDKHW--RTQEVVI 650 (764)
T ss_pred HHHHH---HHHcCCcEEEEeCCCCCCCCCCcCCCeEEEecC--CceEEEE
Confidence 56664 5678999999999999999996 7899999975 6899987
No 35
>KOG1718 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.77 E-value=2.5e-18 Score=161.17 Aligned_cols=118 Identities=20% Similarity=0.267 Sum_probs=106.1
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|+.|||.|-+.+... + .||+|.++|+.|+ |. ..+..|++.+.+.|+.....||.+||||.+|++||+++
T Consensus 41 ~~It~IiNat~E~pn~~---l--~~~qy~kv~~~D~---p~-~~l~~hfD~vAD~I~~v~~~gG~TLvHC~AGVSRSAsL 111 (198)
T KOG1718|consen 41 RKITCIINATTEVPNTS---L--PDIQYMKVPLEDT---PQ-ARLYDHFDPVADKIHSVIMRGGKTLVHCVAGVSRSASL 111 (198)
T ss_pred cCceEEEEcccCCCCcc---C--CCceeEEEEcccC---Cc-chhhhhhhHHHHHHHHHHhcCCcEEEEEccccchhHHH
Confidence 68999999997654321 2 4799999999985 43 67899999999999998889999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCC
Q 005797 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLD 265 (677)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~ 265 (677)
+.||||++.+|++.||..+++.+||.+.||.||++||..|++.+..+
T Consensus 112 ClAYLmK~~~msLreAy~~vKa~RpiIRPN~GFw~QLi~YE~qL~g~ 158 (198)
T KOG1718|consen 112 CLAYLMKYHCMSLREAYHWVKARRPIIRPNVGFWRQLIDYEQQLFGN 158 (198)
T ss_pred HHHHHHHHccchHHHHHHHHHhhCceeCCCccHHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999999987754
No 36
>PRK05972 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.76 E-value=5e-18 Score=198.57 Aligned_cols=166 Identities=20% Similarity=0.241 Sum_probs=125.6
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCC----------
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS---------- 433 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~---------- 433 (677)
.+|+++.|+||+|+++++.++++.|++|+++ ..+-.||+.... +..-...++|||||||+....+.
T Consensus 249 ~~W~~E~K~DG~R~~a~~~gg~vrL~SRnG~--d~T~~fPel~~~--~~~l~~~~~ILDGEIVvld~~G~~~F~~Lq~r~ 324 (860)
T PRK05972 249 DGWIYEIKFDGYRILARIEGGEVRLFTRNGL--DWTAKLPALAKA--AAALGLPDAWLDGEIVVLDEDGVPDFQALQNAF 324 (860)
T ss_pred CceEEEeeeCcEEEEEEEECCEEEEEeCCCC--ccccccHHHHHH--HHhcCCCceeEeEEEEEECCCCCCCHHHHHHHh
Confidence 4899999999999999999999999999998 346678876432 10112367899999998532211
Q ss_pred ---CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHH
Q 005797 434 ---RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNK 510 (677)
Q Consensus 434 ---~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ 510 (677)
....++|++||||++||++++++||.+|+++|++.+.. . .++ .|+..+.+.. ....
T Consensus 325 ~~~~~~~v~f~vFDLL~l~G~dL~~~PL~eRr~~L~~ll~~-~----------~~~---------~i~~s~~~~~-~g~~ 383 (860)
T PRK05972 325 DEGRTEDLVYFAFDLPFLGGEDLRELPLEERRARLRALLEA-A----------RSD---------RIRFSEHFDA-GGDA 383 (860)
T ss_pred hccCCCceEEEEEeccccCCcccccCCHHHHHHHHHHHhhh-c----------CCC---------cEEEeceecc-hHHH
Confidence 11347899999999999999999999999999996621 1 011 1444444443 2355
Q ss_pred HHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccCCCceEEEEEE
Q 005797 511 LLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (677)
Q Consensus 511 ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~~~nTVDF~l~ 559 (677)
+|+. .+.++.||||+|..+++|.+|++.+|||+|+. .+.+|.|.
T Consensus 384 ll~~---a~~~GlEGIVaKr~dS~Y~~GRs~~WlKiK~~--~~~E~VIg 427 (860)
T PRK05972 384 VLAS---ACRLGLEGVIGKRADSPYVSGRSEDWIKLKCR--ARQEFVIG 427 (860)
T ss_pred HHHH---HHHcCCceEEEeCCCCCCCCCCCCCcEEEecC--CCceEEEE
Confidence 6664 57799999999999999999999999999974 56788773
No 37
>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]
Probab=99.76 E-value=6e-18 Score=187.43 Aligned_cols=166 Identities=22% Similarity=0.261 Sum_probs=123.6
Q ss_pred CeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCC-cCCC-CcccccCCCCeeeeEEEEEecCCCC---------
Q 005797 365 YYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPC-RNSN-EGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~-~~~~-~~~~~~~~~~tlLDGElV~d~~~~~--------- 433 (677)
+|.+++|+||.|+++++.++++.|++|++. .++-.||. .... ..+ ...++|||||+|+....+.
T Consensus 134 ~w~~E~K~DG~R~q~h~~~~~vrl~SR~g~--d~T~~fP~~~~~~~~~l---~~~~~iiDGE~V~~~~~~~~~F~~Lq~r 208 (444)
T COG1793 134 DWAYEEKFDGYRVQIHIDGGKVRLYSRNGE--DWTGRFPDILEAAAEAL---PADDFILDGEIVVLDEEGRLDFQALQQR 208 (444)
T ss_pred CEEEEEeeceEEEEEEEcCCEEEEEeCCCc--cchhhChHHHHHHHhcC---CCCceEEeeeEEEECCCCCCCHHHHHHH
Confidence 699999999999999999999999999997 45677993 2211 111 2357999999998642110
Q ss_pred -----------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecce
Q 005797 434 -----------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDF 502 (677)
Q Consensus 434 -----------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~ 502 (677)
......|++||+|+++|.+++.+||.+|++.|++.+....... ..+ .+. +
T Consensus 209 ~~~k~~v~~~~~~~~~~~~aFDlL~~dG~dL~~~pl~eRr~~Le~lv~~~~~~~-------~~~---------~i~---~ 269 (444)
T COG1793 209 LRRKYDVAKLRRETPLVLFAFDLLYLDGEDLRGLPLEERRALLEELVKSSDKIE-------IAE---------RIP---F 269 (444)
T ss_pred hhhccchhhhccCCceEEEEEEEEeECCcccccCchHHHHHHHHHHhccccccc-------ccc---------cee---c
Confidence 1134689999999999999999999999999999774320000 000 022 2
Q ss_pred EEchhHHHHHHHhcccccCCCceEEEEeCCCCCccC-CCCCeEEEccCCCceEEEEEE
Q 005797 503 WLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLFE 559 (677)
Q Consensus 503 ~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G-~~~~lLKWKp~~~nTVDF~l~ 559 (677)
......+.+|+. ...++.||||.|..++||.+| +...|+|||+. .|.||.|.
T Consensus 270 ~~~~~~~~~~~~---a~~~g~EGvv~K~~ds~Y~~g~R~~~W~K~K~~--~~~d~vv~ 322 (444)
T COG1793 270 SDAEEGEAFLEA---AIELGLEGVVAKRPDSPYRAGGRSNKWLKVKRD--ETLDLVVV 322 (444)
T ss_pred cChhhHHHHHHH---HHhcCceEEEEeCCCCCcCCCCCCCcceEeccC--CcccEEEE
Confidence 333455566654 677899999999999999955 58999999986 89999983
No 38
>PHA00454 ATP-dependent DNA ligase
Probab=99.76 E-value=1.3e-17 Score=178.09 Aligned_cols=186 Identities=16% Similarity=0.124 Sum_probs=127.1
Q ss_pred CCCCc-ccccchhchhhhcc-C-CeEEEEcccceEEEEEEECCE-EEEEeCCCccccccCcCCCcCCCC-------cccc
Q 005797 345 FPGSH-PVSLNSDNLQLLRQ-R-YYYATWKADGTRYMMLITIDG-CYLIDRCFNFRRVQMRFPCRNSNE-------GLGE 413 (677)
Q Consensus 345 FPGsq-PVsl~r~nl~~l~~-~-~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~~v~~~FP~~~~~~-------~~~~ 413 (677)
-|+++ .|+|+.+++..... . .|++++|+||+|+++++.+++ +.|++|++. .||...... .+.+
T Consensus 5 ~~~~~~~~~~~~~~i~~~~~~~g~~~~E~K~DG~R~~~~~~~~~~v~l~SR~g~------~~p~l~~~~~~~~~~~~~~~ 78 (315)
T PHA00454 5 KTNPFRAVDFNESAIEKALEKAGYLIADVKYDGVRGNIVVDNTADHGWLSREGK------TIPALEHLNGFDRRWAKLLN 78 (315)
T ss_pred cCCccccccCCHHHHHHHHHhCCcEEEEEccceEEEEEEEcCCCeEEEEeCCCC------cccchhhhhhhhhhhhhhhh
Confidence 35555 68999999976443 3 455666999999999998765 999999986 245432110 0000
Q ss_pred ----cCCCCeeeeEEEEEecCCC----------------CCCceeEEEEeEEeecC----Cccc---cCCCHHHHHHHHH
Q 005797 414 ----KTHHFTLLDGEMIIDKLPD----------------SRRQERRYLIYDMMAIN----QASV---IERPFYERWKMLE 466 (677)
Q Consensus 414 ----~~~~~tlLDGElV~d~~~~----------------~~~~~~~yliFDiL~~~----G~~l---~~~pf~eR~~~L~ 466 (677)
....+++||||+|+...+. .....+.|+|||+|++| |.++ ..+||.+|.++|+
T Consensus 79 ~~~~~l~~~~vLDGElv~~~~~f~~~~~~l~~k~~~~~~~~~~~v~~~vFDll~l~~~~~g~~l~~l~~~pl~~Rr~~L~ 158 (315)
T PHA00454 79 DDRCIFPDGFMLDGELMVKGVDFNTGSGLLRRKWKVLFELHLKKLHVVVYDVTPLDVLESGEDYDVMSLLMYEHVRAMVP 158 (315)
T ss_pred hhhhcCCCCeEEEEEEEecCCCHHHHHHHhccCccchhhhccCceEEEEEEeeEeccccCCccccccccccHHHHHHHHH
Confidence 0124789999999853210 01134789999999999 6665 7899999999999
Q ss_pred HHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEE
Q 005797 467 KEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKW 546 (677)
Q Consensus 467 ~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKW 546 (677)
+.+. +. +. ..++..+.+..++.+.+-+-+...+.++.||||++..+++|.+|+...|+|+
T Consensus 159 ~l~~-~~------------~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~g~EGiv~K~~ds~Y~~Grr~~~~K~ 218 (315)
T PHA00454 159 LLME-YF------------PE-------IDWFLSESYEVYDMESLQELYEKKRAEGHEGLVVKDPSLIYRRGKKSGWWKM 218 (315)
T ss_pred HHHh-hC------------CC-------cceEeeceEEcCCHHHHHHHHHHHHhCCCceEEEeCCCCCCCCCCccCcEEE
Confidence 8542 11 00 0144445555443333322223467899999999999999999987678899
Q ss_pred ccCCCceEEEEE
Q 005797 547 KYARMNSVDFLF 558 (677)
Q Consensus 547 Kp~~~nTVDF~l 558 (677)
|+. .|+|++|
T Consensus 219 K~~--~~~d~vI 228 (315)
T PHA00454 219 KPE--CEADGTI 228 (315)
T ss_pred ccc--CceeEEE
Confidence 975 5999998
No 39
>cd00127 DSPc Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or Cdc25-like.
Probab=99.74 E-value=1.8e-17 Score=155.43 Aligned_cols=114 Identities=15% Similarity=0.296 Sum_probs=94.1
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|++||||+.+... ......|++|+++|+.|.+..+ +...+..+.+||......+++|+|||.+|.||||++
T Consensus 26 ~gi~~VI~l~~~~~~---~~~~~~~~~~~~~~~~D~~~~~----~~~~~~~~~~~i~~~~~~~~~vlVHC~~G~~Rs~~~ 98 (139)
T cd00127 26 LGITHVLNVAKEVPN---ENLFLSDFNYLYVPILDLPSQD----ISKYFDEAVDFIDDAREKGGKVLVHCLAGVSRSATL 98 (139)
T ss_pred cCCCEEEEcccCCCC---cccCCCCceEEEEEceeCCCCC----hHHHHHHHHHHHHHHHhcCCcEEEECCCCCchhHHH
Confidence 689999999976543 3345679999999999863222 233344555666665667889999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHH
Q 005797 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFY 259 (677)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y 259 (677)
+++|||..++|++++|++++++.||...++++|+.+|.+|.
T Consensus 99 ~~~~l~~~~~~~~~~a~~~vr~~r~~~~~~~~~~~~l~~~~ 139 (139)
T cd00127 99 VIAYLMKTLGLSLREAYEFVKSRRPIISPNAGFMRQLKEYE 139 (139)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHCCccCCCHHHHHHHHHhC
Confidence 99999999999999999999999999999999999998763
No 40
>PRK09125 DNA ligase; Provisional
Probab=99.71 E-value=3.9e-16 Score=164.00 Aligned_cols=208 Identities=23% Similarity=0.291 Sum_probs=132.6
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecC-----------C
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKL-----------P 431 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~-----------~ 431 (677)
..+|++++|+||+|++. +++-|++|++.-. + -|.... .. ..+++||||||.-.. .
T Consensus 42 ~~~~~~E~K~DG~R~~~----~~v~l~SR~g~~i--t--~p~~~~-~~-----~~~~vLDGElv~~~~~F~~l~~r~~~k 107 (282)
T PRK09125 42 ISGYLVSEKLDGVRAYW----DGKQLLTRQGNPI--A--APAWFT-AG-----FPPFPLDGELWAGRGQFEAISSIVRDK 107 (282)
T ss_pred hhhEEEEeeeeeEeEEE----CCeEEEcCCCCcC--C--CchhHH-hc-----CCCccEeEEEEeCCCCHHHHHHHHccC
Confidence 45899999999999952 4688999998721 1 132111 11 247899999996311 0
Q ss_pred CCC---CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchh-
Q 005797 432 DSR---RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLST- 507 (677)
Q Consensus 432 ~~~---~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~- 507 (677)
... ...+.|++||+++++| ||.+|++.|++.+. +. ..+ .++..+.....+
T Consensus 108 ~~~~~~~~~v~~~vFDll~~~g------pl~eRr~~L~~li~-~~----------~~~---------~i~~~~~~~~~~~ 161 (282)
T PRK09125 108 TPDDAAWRKVRFMVFDLPDAPG------DFEERLAVLKKLLA-KL----------PSP---------YIKIIEQIRVRSE 161 (282)
T ss_pred CcchhhhcccEEEEEEcCCCCC------CHHHHHHHHHHHHh-hC----------CCC---------cEEEEeEEEcCCH
Confidence 000 1347999999999886 99999999999652 11 011 144444444443
Q ss_pred --HHHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccCCCceEEEEEEE-ecC-Cc-----eeEEEE-eCCeee
Q 005797 508 --VNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFEV-TDD-DR-----QLLYVF-ERGKKK 577 (677)
Q Consensus 508 --~~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~~~nTVDF~l~~-~~~-~~-----~~L~~~-~~g~~~ 577 (677)
+..+++ ..+.++.||||++..+++|.+|++..|+|+||. .++|++|-= ... ++ +.|.+. ..|...
T Consensus 162 ~~~~~~~~---~~~~~G~EGiV~K~~ds~Y~~GRs~~wlKiK~~--~~~d~vIvG~~~g~Gk~~g~~gsllv~~~~g~~~ 236 (282)
T PRK09125 162 AALQQFLD---QIVAAGGEGLMLHRPDAPYEAGRSDDLLKLKPY--YDAEATVIGHLPGKGKFAGMLGALLVETPDGREF 236 (282)
T ss_pred HHHHHHHH---HHHHcCCCEEEEeCCCCCCcCCCCCCcEEEEec--CCCcEEEEEEEcCCCcccCceeeEEEEeCCCCEE
Confidence 344554 467799999999999999999999999999975 578998722 221 11 123333 234321
Q ss_pred eecCceeEecC--CCCCCCCceEEEEEEeC--CCC---eeEEEEEecC
Q 005797 578 LMEGSSVEFTD--REPSFYSGKIIECTWDP--DVQ---LWKCMRIRTD 618 (677)
Q Consensus 578 ~~~~~~~~f~~--~~~~~~dg~IvEC~~d~--~~~---~W~~~R~R~D 618 (677)
.+. . -|++ .....+-|+||++.|-. .+| .=+|.++|.|
T Consensus 237 ~Vg-s--G~t~~~r~~~~~~g~~~~V~y~e~t~~g~lR~P~f~g~R~D 281 (282)
T PRK09125 237 KIG-S--GFSDAERENPPKIGSIITYKYRGLTKNGLPRFASFLRVRED 281 (282)
T ss_pred EeC-C--CCCHHHhcCCCCCCCEEEEEecccCCCCcccCCEEEEEecC
Confidence 111 1 2433 11234568999999942 122 2458888887
No 41
>cd07896 Adenylation_kDNA_ligase_like Adenylation domain of kDNA ligases and similar proteins. The mitochondrial DNA of parasitic protozoans is highly unusual. It is termed the kinetoplast DNA (kDNA) and consists of circular DNA molecules (maxicircles) and several thousand smaller circular molecules (minicircles). This group is composed of kDNA ligase, Chlorella virus DNA ligase, and similar proteins. kDNA ligase and Chlorella virus DNA ligase are the smallest known ATP-dependent ligases. They are involved in DNA replication or repair. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation using nicked nucleic acid substrates with the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. They have a highly modular architecture consisting of a unique arrangement of two or more discrete domains. The adenylation and the C-terminal oligonucleotide/oligosaccharide binding (OB)-fold domains comprise a catalytic core unit that is common to most me
Probab=99.70 E-value=9.5e-17 Score=157.25 Aligned_cols=146 Identities=22% Similarity=0.274 Sum_probs=100.2
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecC-----------C
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKL-----------P 431 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~-----------~ 431 (677)
...|++++|+||+|+++ .++ .+++|++.-. + .+.. ...+ ...++||||||.-.. .
T Consensus 15 ~~~~~~e~K~DG~R~~~--~~~--~~~SR~g~~~--t--~~~~-~~~~-----l~~~ilDGElv~~~~~f~~l~~~~~~~ 80 (174)
T cd07896 15 ISGYLVSEKLDGVRAYW--DGK--QLLSRSGKPI--A--APAW-FTAG-----LPPFPLDGELWIGRGQFEQTSSIVRSK 80 (174)
T ss_pred hHHeeechhhceEEEEE--ecc--EEEecCCcCC--C--CCHH-HHhh-----CCCCccCceEEcCCCCHHHHHHHHhcC
Confidence 35899999999999975 332 8999998722 1 1100 0011 234999999997321 0
Q ss_pred CC---CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhH
Q 005797 432 DS---RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTV 508 (677)
Q Consensus 432 ~~---~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~ 508 (677)
.. ....+.|++||+|. +.+||.+|++.|++.+.... .+ .++..+.....+.
T Consensus 81 ~~~~~~~~~~~f~vFDil~------~~~p~~eR~~~L~~~i~~~~-----------~~---------~~~~~~~~~~~~~ 134 (174)
T cd07896 81 KPDDEDWRKVKFMVFDLPS------AKGPFEERLERLKNLLEKIP-----------NP---------HIKIVPQIPVKSN 134 (174)
T ss_pred CCChhhcccceEEEEeCCC------CCCCHHHHHHHHHHHHHhCC-----------CC---------cEEEEeeeeeCCH
Confidence 10 12457999999999 78899999999999663210 00 1344445555444
Q ss_pred HHHHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEcc
Q 005797 509 NKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKY 548 (677)
Q Consensus 509 ~~ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp 548 (677)
+.+-+-+...+.++.||||++..+++|.+|++..|+||||
T Consensus 135 ~~i~~~~~~~~~~g~EGlv~K~~ds~Y~~gR~~~wlK~Kp 174 (174)
T cd07896 135 EALDQYLDEVVAAGGEGLMLRRPDAPYETGRSDNLLKLKP 174 (174)
T ss_pred HHHHHHHHHHHhcCCCeEEEecCCCcccCCcCCCceeeCC
Confidence 4333333346789999999999999999999999999998
No 42
>KOG1717 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.68 E-value=2.6e-16 Score=157.15 Aligned_cols=118 Identities=18% Similarity=0.279 Sum_probs=105.5
Q ss_pred CCeeEEEEcCCCCCCCCcchhhh-CCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKK-EGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGY 217 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~-~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~ 217 (677)
.+|++|||+|... |..|++ ..+.|..||+.|| -...+.+|+.++..||++++.++..|||||.+|++||.|
T Consensus 196 ~gI~yviNVTpnl----pn~fe~~g~f~YkqipisDh----~Sqnls~ffpEAIsfIdeArsk~cgvLVHClaGISRSvT 267 (343)
T KOG1717|consen 196 YGIKYVINVTPNL----PNNFENNGEFIYKQIPISDH----ASQNLSQFFPEAISFIDEARSKNCGVLVHCLAGISRSVT 267 (343)
T ss_pred cCceEEEecCCCC----cchhhcCCceeEEeeeccch----hhhhhhhhhHHHHHHHHHhhccCCcEEEeeeccccchhH
Confidence 6899999999543 334443 3478999999997 347899999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 005797 218 MIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (677)
Q Consensus 218 li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (677)
+++||||.+..+++.+|+++++.++..+.||-+|+-||..|...+..
T Consensus 268 vtvaYLMqkl~lslndAyd~Vk~kksnisPNFnFMgQLldfertlgl 314 (343)
T KOG1717|consen 268 VTVAYLMQKLNLSLNDAYDFVKHKKSNISPNFNFMGQLLDFERTLGL 314 (343)
T ss_pred HHHHHHHHHhccchhhHHHHHHHhccCCCCCcchhHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999887654
No 43
>PRK12361 hypothetical protein; Provisional
Probab=99.66 E-value=1.3e-15 Score=174.78 Aligned_cols=120 Identities=21% Similarity=0.411 Sum_probs=99.1
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|++|||||.+.... +......|++|+++|+.|+ ..|+.+++. .+.+||+++.+.+++|+|||++|+|||+++
T Consensus 119 ~gI~~Vldlt~E~~~~-~~~~~~~~i~yl~iPi~D~-~~p~~~~l~----~a~~~i~~~~~~~~~VlVHC~~G~sRSa~v 192 (547)
T PRK12361 119 NKITAILDVTAEFDGL-DWSLTEEDIDYLNIPILDH-SVPTLAQLN----QAINWIHRQVRANKSVVVHCALGRGRSVLV 192 (547)
T ss_pred cCCCEEEEcccccccc-cccccccCceEEEeecCCC-CCCcHHHHH----HHHHHHHHHHHCCCeEEEECCCCCCcHHHH
Confidence 6899999999653221 1122346899999999996 678766544 455677776777899999999999999999
Q ss_pred HHHHHHHh-cCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 005797 219 IVHFLMRS-QSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (677)
Q Consensus 219 i~aYLm~~-~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (677)
++||||.+ .++++++|++.++++||.+.+|+.|+++|.+++.....
T Consensus 193 v~ayLm~~~~~~~~~eA~~~vr~~Rp~v~~n~~q~~~l~~~~~~~~~ 239 (547)
T PRK12361 193 LAAYLLCKDPDLTVEEVLQQIKQIRKTARLNKRQLRALEKMLEQGKL 239 (547)
T ss_pred HHHHHHHhccCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcCCc
Confidence 99999976 48999999999999999999999999999999887654
No 44
>KOG1716 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.65 E-value=8.1e-16 Score=162.23 Aligned_cols=121 Identities=20% Similarity=0.364 Sum_probs=105.7
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~l 218 (677)
.+|++|+|++.....+. .....+|+|+.+++.|. |+ .+|..++..+.+||+.+...++.|||||.+|++||+++
T Consensus 99 ~~it~vln~~~~~~~~~--~~~~~~~~y~~i~~~D~---~~-~~i~~~~~~~~~fI~~a~~~~~~vlVHC~~GvSRSat~ 172 (285)
T KOG1716|consen 99 LGITHVLNVSSSCPNPR--FLKEQGIKYLRIPVEDN---PS-TDILQHFPEAISFIEKAREKGGKVLVHCQAGVSRSATL 172 (285)
T ss_pred cCCCEEEEecccCCccc--cccccCceEEeccccCC---cc-ccHHHHHHHHHHHHHHHHhCCCeEEEEcCCccchhHHH
Confidence 68999999997653321 11223899999999874 44 66777999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCC
Q 005797 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLD 265 (677)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~ 265 (677)
++||||++.+|++++|+++++++||.+.||.+|+.||.++.......
T Consensus 173 viAYlM~~~~~~l~~A~~~vk~~R~~i~PN~gf~~QL~~~e~~l~~~ 219 (285)
T KOG1716|consen 173 VIAYLMKYEGLSLEDAYELVKSRRPIISPNFGFLRQLLEFEKRLSKK 219 (285)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhCCccCCCHHHHHHHHHHHHhhccC
Confidence 99999999999999999999999999999999999999999887654
No 45
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]
Probab=99.60 E-value=6.5e-15 Score=165.60 Aligned_cols=210 Identities=19% Similarity=0.279 Sum_probs=137.3
Q ss_pred HHHHHHHHHHhhhcccCCCCC----CCCCCCcccccch------hchhhhccCCeEEEEcccceEEEEEEECCEEEEEeC
Q 005797 322 QDAFRHFCYQTLKLNFGGRGN----MQFPGSHPVSLNS------DNLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDR 391 (677)
Q Consensus 322 ~~~~r~~~~~~~~~~~~~~~~----~~FPGsqPVsl~r------~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR 391 (677)
..-|+..|..|.--+.+-... .=|-..+|--..+ .++..+...++++++|.||.|++|+.+++..-.++|
T Consensus 198 tsDLk~Vc~~L~Dp~~~l~~~~~~i~lfsa~~PqLa~~~~~~~~~~~e~m~~~~f~lEtK~DGERiQlHk~g~~~~yfSR 277 (881)
T KOG0966|consen 198 TSDLKAVCKKLYDPSVGLKELDEDIELFSAFRPQLAQKQKLGDWAIIEKMGGQDFYLETKFDGERIQLHKDGGEYKYFSR 277 (881)
T ss_pred hhhHHHHHHHhcCCccCccccccceeehhhcCHHHHhhhccchHHHHHHhcCCceEEEeeccCceEEEEecCCEEEEEec
Confidence 345566666664321111111 1244445544443 344567788999999999999999999999999999
Q ss_pred CCc-cccc-cCcCCCcCCC---CcccccCCCCeeeeEEEEEec-C-------CC----------CCCceeEEEEeEEeec
Q 005797 392 CFN-FRRV-QMRFPCRNSN---EGLGEKTHHFTLLDGEMIIDK-L-------PD----------SRRQERRYLIYDMMAI 448 (677)
Q Consensus 392 ~~~-~~~v-~~~FP~~~~~---~~~~~~~~~~tlLDGElV~d~-~-------~~----------~~~~~~~yliFDiL~~ 448 (677)
|+. |... ...+-+.... .++...-...+||||||+.-. . +. .....+.|++||+|++
T Consensus 278 Ng~dyT~~yg~s~~~g~lt~~i~~~f~~~v~~cILDGEMm~wD~~~~~f~~~G~~~dik~~~~~~~~~qp~yvvfDLLyl 357 (881)
T KOG0966|consen 278 NGNDYTYEYGASYAHGTLTQRIHGAFNKEVESCILDGEMMTWDTKTKRFCPFGSNSDIKELSSRDGSQQPCYVVFDLLYL 357 (881)
T ss_pred CCcchhhhcCcccccccccHHHHhhhhhcchheEecceEEEeecchhhhccCCchhhHHHhhccccCCCceEEEeeeeee
Confidence 986 3211 1111111000 111111135689999998732 1 00 1135799999999999
Q ss_pred CCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEE
Q 005797 449 NQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVF 528 (677)
Q Consensus 449 ~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf 528 (677)
||+++...|+.+|+++|++.+ .|....+ +.++.+.......+++.|+ ..+..+.||||.
T Consensus 358 NgksL~~~~l~qR~e~L~~v~-~p~~~~i-----------------ei~~~~~~~~~edi~~~f~---~ai~~~~EGIVl 416 (881)
T KOG0966|consen 358 NGKSLFGAPLHQRLEILKKVI-VPKSGRI-----------------EIVRSEVGSTKEDIEQFFE---EAIDNGEEGIVL 416 (881)
T ss_pred cCcccCCccHHHHHHHHHhcc-cCCCCee-----------------EEeehhhcccHHHHHHHHH---HHHhcCCCceEE
Confidence 999999999999999999844 3322111 1233333444455555555 477889999999
Q ss_pred EeCCCCCccCC-CCCeEEEccCCCc
Q 005797 529 QGWDDPYVPRT-HEGLLKWKYARMN 552 (677)
Q Consensus 529 ~p~~spY~~G~-~~~lLKWKp~~~n 552 (677)
+..++.|++|. ...|+|-||..+.
T Consensus 417 K~~~S~Y~pg~R~~gW~K~KPeYlk 441 (881)
T KOG0966|consen 417 KKPDSSYVPGQRSNGWIKLKPEYLK 441 (881)
T ss_pred eccCcccCccccCCCcEeecHHHHh
Confidence 99999999995 7899999998776
No 46
>KOG2386 consensus mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=99.59 E-value=2.5e-16 Score=168.41 Aligned_cols=285 Identities=23% Similarity=0.224 Sum_probs=177.3
Q ss_pred CCCCCCCcccccchhchhhhccCCeEEEEcccceEEEEEEEC-----CEEEEEeCCCccccccCcCCCcCCCCc---ccc
Q 005797 342 NMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITI-----DGCYLIDRCFNFRRVQMRFPCRNSNEG---LGE 413 (677)
Q Consensus 342 ~~~FPGsqPVsl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~-----~~vyLidR~~~~~~v~~~FP~~~~~~~---~~~ 413 (677)
...|||+| +....++++.|..++|.||+|.||+|.++|+.. .+++.+.++...+. .+|....... +.+
T Consensus 39 ~k~~~~~~-~f~~~dl~~~l~~~~~~vgl~iDltnt~ryy~~~~~~~~g~~Y~K~~c~g~~---~vp~~~~v~~fv~~v~ 114 (393)
T KOG2386|consen 39 TKTFPGSQ-RFQPKDLFELLKEHNYKVGLKIDLTNTLRYYDKPELEERGVKYLKRNCPGRG---VVPRTELVDKFVKLVK 114 (393)
T ss_pred cCCCCCcc-ccCHHHHHHHHHhcCceEEEEEeccceeeeeccccccccceeEEEeccCCcc---cCCCccchHHHHHHHH
Confidence 46688887 888999999999999999999999999999953 25655555543222 2554332222 123
Q ss_pred cCCCCeeeeEEEEEecCCCCCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCC
Q 005797 414 KTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLE 493 (677)
Q Consensus 414 ~~~~~tlLDGElV~d~~~~~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~ 493 (677)
..+.+|.+|||+|...-+.+ .+...||||++|+..|. .+..+-.+|++......+.+.. ....+. ..+ ....
T Consensus 115 ~f~~~~~~~~~LI~vhcthG-~NrtgyLI~~yL~~~~~-~s~~~aik~f~~~r~~gi~k~d-yi~~L~----~~~-~~~~ 186 (393)
T KOG2386|consen 115 GFVDDTKLDDELIGVHCTHG-LNRTGYLICAYLADVGG-YSSSEAIKRFADARPPGIEKQD-YIDALY----SRY-HDIF 186 (393)
T ss_pred HHHhcccCCCCEEEEeCCCc-ccccceeeeeeeeeccC-ccHHHHHHHHHHhCCCccCchH-HHHHHh----hcc-cccc
Confidence 44678999999998866553 36789999999999887 6666666666666554444321 111121 111 2356
Q ss_pred CcEEEecceEEchhHHHHHHHhccccc-CCCceEEEEeCCCCC-ccCCCCCeEEEccCCCceEEEEEEEecCCc--eeEE
Q 005797 494 PFRVRRKDFWLLSTVNKLLKEFIPKLS-HDADGLVFQGWDDPY-VPRTHEGLLKWKYARMNSVDFLFEVTDDDR--QLLY 569 (677)
Q Consensus 494 pf~i~~K~~~~~~~~~~ll~~~~~~l~-h~~DGLIf~p~~spY-~~G~~~~lLKWKp~~~nTVDF~l~~~~~~~--~~L~ 569 (677)
||.+..+..-.-....++.. +... |..||+||++...|| ..|+...++||||-.+||+||.++...... +.|.
T Consensus 187 p~~vs~p~~~~~~~~~~~~~---~~~~~~~~Dg~i~t~~~~pg~~~g~~~~~~k~k~~~~n~~~~~~~~~~~q~~~~~l~ 263 (393)
T KOG2386|consen 187 PFKVSCPSMPDWKRSIKLKK---PVHKLHGNDGLIFTPAEIPGSKNGKQEALLKWKPFSLNTIDFGVKLEKPQPELGDLQ 263 (393)
T ss_pred cccccCCCCcchhhhhhhcc---ccccccccCCCcCCcccCccccccchhhhhcCCchhcCCcccceeecCCCCCccchh
Confidence 67777665544333333332 2222 999999999999999 589999999999999999999998764311 1111
Q ss_pred EEeC--Cee-------eeecCceeEecCCCCCCCCceE--------EEEEEeCCCCeeEEEEEecCCCCCChHHHHHHHH
Q 005797 570 VFER--GKK-------KLMEGSSVEFTDREPSFYSGKI--------IECTWDPDVQLWKCMRIRTDKSTPNDINTYRKVM 632 (677)
Q Consensus 570 ~~~~--g~~-------~~~~~~~~~f~~~~~~~~dg~I--------vEC~~d~~~~~W~~~R~R~DK~~pN~~~tv~~v~ 632 (677)
.... |.. ..+. ...| ...+..+|.+ .||..+ + +|++.+.|.+...|+..++....+
T Consensus 264 ~~~~~~g~~~~~r~~~~~~~--~~~y--~~~We~dg~~~~~L~~~~~~~~~~-d--R~~~~~~~~~~~~~~~~~~~~~~~ 336 (393)
T KOG2386|consen 264 CKRKNEGAQPVSRENYKLLV--FEYY--EASWEADGTRYMMLIDGDGEYYDF-D--RWRFVKGRENLRKIREDSDTKVLH 336 (393)
T ss_pred hhhcccccCCccccchhhhh--hhhh--hhhhcccCcEEEEEecCCceeEec-h--hhhHHHhhhhhhcccccccchhhh
Confidence 1000 100 0000 0001 1122234433 333332 1 777777777777777777777777
Q ss_pred HhcccCCCHHHHHHHH
Q 005797 633 RSIRDNITEEVLLNEI 648 (677)
Q Consensus 633 ~SI~~~Vt~e~L~~~i 648 (677)
+++.|+....+.+...
T Consensus 337 ~tl~dge~~lD~l~~~ 352 (393)
T KOG2386|consen 337 QTLLDGEMILDRLKEE 352 (393)
T ss_pred hhhcccceeccccccc
Confidence 7666665555444433
No 47
>TIGR02776 NHEJ_ligase_prk DNA ligase D. Members of this protein family are DNA ligases involved in the repair of DNA double-stranded breaks by non-homologous end joining (NHEJ). The system of the bacterial Ku protein (TIGR02772) plus this DNA ligase is seen in about 20 % of bacterial genomes to date and at least one archaeon (Archeoglobus fulgidus). This model describes a central and a C-terminal domain. These two domains may be permuted, as in genus Mycobacterium, or divided into tandem ORFs, and therefore not be identified by this model. An additional N-terminal 3'-phosphoesterase (PE) domain present in some but not all examples of this ligase is not included in the seed alignment for this model; This alignment models only the central ATP-dependent ligase domain and the C-terminal polymerase domain. Most examples of genes for this ligase are adjacent to the gene for Ku.
Probab=99.58 E-value=7.5e-15 Score=166.42 Aligned_cols=139 Identities=22% Similarity=0.317 Sum_probs=98.5
Q ss_pred eCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCC-------------CCceeEEEEeEEeecCCccccC
Q 005797 390 DRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDS-------------RRQERRYLIYDMMAINQASVIE 455 (677)
Q Consensus 390 dR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~-------------~~~~~~yliFDiL~~~G~~l~~ 455 (677)
+|++. ..+-.||+.... ..+ ...++|||||||+-...+. ....++|++||+|++||+++++
T Consensus 1 SRng~--d~T~~fPel~~~~~~l---~~~~~ILDGElVvld~~G~~~F~~Lq~~~~~~~~~pv~~~vFDlL~l~G~dL~~ 75 (552)
T TIGR02776 1 TRNGH--DWTKRFPEIVKALALL---KLLPAWIDGEIVVLDERGRADFAALQNALSAGASRPLTYYAFDLLFLSGEDLRD 75 (552)
T ss_pred CCCcC--cchhhhHHHHHHHhhC---CCCCEEEEEEEEEECCCCCCCHHHHHHHHHhcccCceEEEEEeccccCCccccc
Confidence 46765 346678976442 111 1357999999998432211 1134799999999999999999
Q ss_pred CCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccCCCceEEEEeCCCCC
Q 005797 456 RPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPY 535 (677)
Q Consensus 456 ~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~~spY 535 (677)
+||.+|+++|++.+. +.. .+ .+....... ...+.+|+. ...++.||||+|..+++|
T Consensus 76 ~Pl~eRr~~L~~ll~-~~~----------~~---------~i~~~~~~~-~~~~~~~~~---a~~~G~EGIV~K~~dS~Y 131 (552)
T TIGR02776 76 LPLEERKKRLKQLLK-AQD----------EP---------AIRYSDHFE-SDGDALLES---ACRLGLEGVVSKRLDSPY 131 (552)
T ss_pred CCHHHHHHHHHHHhh-hcC----------CC---------cEEEeeeec-ccHHHHHHH---HHHCCCceEEEeCCCCCC
Confidence 999999999999662 210 11 122222322 233466664 577999999999999999
Q ss_pred ccCCCCCeEEEccCCCceEEEEEE
Q 005797 536 VPRTHEGLLKWKYARMNSVDFLFE 559 (677)
Q Consensus 536 ~~G~~~~lLKWKp~~~nTVDF~l~ 559 (677)
.+||+.+|||+|+ ..+.||.|.
T Consensus 132 ~~GRs~~WlKlK~--~~~~e~vI~ 153 (552)
T TIGR02776 132 RSGRSKDWLKLKC--RRRQEFVIT 153 (552)
T ss_pred CCCCCcchhcccc--cccceEEEE
Confidence 9999999999997 457888873
No 48
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=99.58 E-value=3.3e-14 Score=128.72 Aligned_cols=136 Identities=20% Similarity=0.307 Sum_probs=114.7
Q ss_pred CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHH
Q 005797 102 GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNA 181 (677)
Q Consensus 102 ~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e 181 (677)
.+||....|.+.+.+. +++.+++ +++++|+-++ +..||...++..||+.+..|..| |.+|..+
T Consensus 17 MrFLIThnPtnaTln~------------fieELkK--ygvttvVRVC--e~TYdt~~lek~GI~Vldw~f~d-g~ppp~q 79 (173)
T KOG2836|consen 17 MRFLITHNPTNATLNK------------FIEELKK--YGVTTVVRVC--EPTYDTTPLEKEGITVLDWPFDD-GAPPPNQ 79 (173)
T ss_pred eEEEEecCCCchhHHH------------HHHHHHh--cCCeEEEEec--ccccCCchhhhcCceEeeccccc-CCCCchH
Confidence 4888888887776554 4455554 6799999999 67899999999999999999998 5888888
Q ss_pred HHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHH
Q 005797 182 SVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 182 ~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~ 258 (677)
.+..|+..+..-.. .+++..|+|||.+|.||...++|..||+ .||..++|+++++++|.++ .|..|+..|.+|
T Consensus 80 vv~~w~~l~~~~f~--e~p~~cvavhcvaglgrapvlvalalie-~gmkyedave~ir~krrga-~n~kql~~leky 152 (173)
T KOG2836|consen 80 VVDDWLSLVKTKFR--EEPGCCVAVHCVAGLGRAPVLVALALIE-AGMKYEDAVEMIRQKRRGA-INSKQLLYLEKY 152 (173)
T ss_pred HHHHHHHHHHHHHh--hCCCCeEEEEeecccCcchHHHHHHHHH-ccccHHHHHHHHHHHhhcc-ccHHHHHHHHHh
Confidence 99999987765555 5789999999999999999999999998 6999999999999999866 467777777554
No 49
>KOG2283 consensus Clathrin coat dissociation kinase GAK/PTEN/Auxilin and related tyrosine phosphatases [Signal transduction mechanisms; General function prediction only]
Probab=99.50 E-value=8.5e-14 Score=152.83 Aligned_cols=149 Identities=23% Similarity=0.316 Sum_probs=125.6
Q ss_pred ccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCC
Q 005797 100 IGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPD 179 (677)
Q Consensus 100 I~~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~ 179 (677)
|+.+||+|.+|....- .-+|.+..+++..+..++.+-..|-||+. .+.|++..|.. +...+++.|| .+|+
T Consensus 18 IT~rIIamsfPa~~~e-----s~yRN~l~dV~~fL~s~H~~~y~vyNL~~-er~yd~~~f~g---~V~~~~~~Dh-~~P~ 87 (434)
T KOG2283|consen 18 ITSRIIAMSFPAEGIE-----SLYRNNLEDVVLFLDSKHKDHYKVYNLSS-ERLYDPSRFHG---RVARFGFDDH-NPPP 87 (434)
T ss_pred eeeeEEEEeCCCCcch-----hhhcCCHHHHHHHHhhccCCceEEEecCc-cccCCcccccc---ceeecCCCCC-CCCc
Confidence 7889999999976632 24567788999999988778888999998 68899888865 3456899998 7999
Q ss_pred HHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCC-CHHHHHHHHHhcC---C--CCcCCHHHHH
Q 005797 180 NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSM-SVAQAIKKFAEVR---P--PGIYKNEYIE 253 (677)
Q Consensus 180 ~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~-s~~eAi~~~~~~R---p--~~i~~~~~l~ 253 (677)
.+.+..|++.+..|+. .++...|+|||++|.+|||+|||||||..... ++++|+.++.++| . .+...+.|.+
T Consensus 88 L~~l~~~c~~~~~WL~--~d~~nVvvvHCk~Gkgrtg~~icA~L~~~~~~~ta~eald~~~~kR~~~~~~~~~~~PSq~R 165 (434)
T KOG2283|consen 88 LELLCPFCKSMDNWLS--EDPKNVVVVHCKAGKGRTGVMICAYLIYSGISATAEEALDYFNEKRFDEGKSKGVTIPSQRR 165 (434)
T ss_pred HHHHHHHHHCHHHHHh--cCccceEEEEccCCCcceEEEEeHHHHhhhhcCCHHHHHHHHhhhhccccccCCccCchhhH
Confidence 9999999999999998 67889999999999999999999999997666 5999999999999 4 3556677777
Q ss_pred HHHHHHh
Q 005797 254 ALYTFYH 260 (677)
Q Consensus 254 ~L~~~y~ 260 (677)
.++-+..
T Consensus 166 Yv~Y~~~ 172 (434)
T KOG2283|consen 166 YVGYFSR 172 (434)
T ss_pred HHHHHHH
Confidence 7754443
No 50
>COG2453 CDC14 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]
Probab=99.44 E-value=9.9e-13 Score=129.65 Aligned_cols=100 Identities=22% Similarity=0.323 Sum_probs=76.4
Q ss_pred CCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc-CCCH
Q 005797 153 YYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-SMSV 231 (677)
Q Consensus 153 ~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~-~~s~ 231 (677)
.+........|+.++.+|+.|+ .+|+.+++.+++ +||+.....++.|+|||.+|+|||||++|||||.++ ++.+
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~D~-~~p~~~~l~~~v----~~i~~~~~~g~kVvVHC~~GigRSgtviaA~lm~~~~~~~~ 136 (180)
T COG2453 62 LYNVAIEENDGIQVLHLPILDG-TVPDLEDLDKIV----DFIEEALSKGKKVVVHCQGGIGRSGTVIAAYLMLYGGLSLA 136 (180)
T ss_pred ceecceeccCCceeeeeeecCC-CCCcHHHHHHHH----HHHHHHHhcCCeEEEEcCCCCchHHHHHHHHHHHHcCCCCH
Confidence 3444556678999999999996 789886666655 455555567789999999999999999999999994 5678
Q ss_pred HHHHHHHHhcCCCCcCCHHHHHHHHH
Q 005797 232 AQAIKKFAEVRPPGIYKNEYIEALYT 257 (677)
Q Consensus 232 ~eAi~~~~~~Rp~~i~~~~~l~~L~~ 257 (677)
++|+...+.+|+..+....|...+.+
T Consensus 137 ~~~i~~~~~~r~~~v~~~~q~~~~~e 162 (180)
T COG2453 137 DEAIAVKRRRRPGAVVTEIQHLFELE 162 (180)
T ss_pred HHHHHHHHhcCCcccccHHHHHHHHH
Confidence 88888888888864444444444433
No 51
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=99.30 E-value=4.4e-12 Score=122.98 Aligned_cols=113 Identities=19% Similarity=0.321 Sum_probs=65.3
Q ss_pred HHHHHcCCCeeEEEEcCCCCCCCCc-chhhhCCcEEEEEecCCCCC---CCCHHHHHHHHHHHHHHHHhcccCCceEEEE
Q 005797 132 HQLRVLGRKLGLVIDLTNTTRYYPT-SDLKKEGIKHVKIQCKGRDA---VPDNASVNNFVYEVTQFLSRQKHSKKYILVH 207 (677)
Q Consensus 132 ~~~~~~~~~I~~VIdLt~~~~~y~~-~~~~~~gI~y~~ip~~d~~~---~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVH 207 (677)
..++. .++++||+|+.+....+. ..+++.||+++++++.+... .++.+.+.+.++ .+. ...+.+||||
T Consensus 26 ~fL~~--L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~----~il--d~~n~PvLiH 97 (164)
T PF03162_consen 26 PFLER--LGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALE----IIL--DPRNYPVLIH 97 (164)
T ss_dssp HHHHH--HT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHH----HHH---GGG-SEEEE
T ss_pred HHHHH--CCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHH----HHh--CCCCCCEEEE
Confidence 34444 579999999976544322 34578999999999986421 134455555444 333 2346899999
Q ss_pred cCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHH
Q 005797 208 CTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALY 256 (677)
Q Consensus 208 C~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~ 256 (677)
|.+|.+|||++|+||. +.+||+..+|+++++..-.. +..+.++.+
T Consensus 98 C~~G~~rTG~vvg~lR-k~Q~W~~~~i~~Ey~~f~~~---~~~~~~~~f 142 (164)
T PF03162_consen 98 CNHGKDRTGLVVGCLR-KLQGWSLSSIFDEYRRFAGP---KIRYLDEQF 142 (164)
T ss_dssp -SSSSSHHHHHHHHHH-HHTTB-HHHHHHHHHHHHGG---G--HHHHHH
T ss_pred eCCCCcchhhHHHHHH-HHcCCCHHHHHHHHHHhcCC---CCcHHHHHH
Confidence 9999999999999999 67999999999999986433 334444443
No 52
>KOG0967 consensus ATP-dependent DNA ligase I [Replication, recombination and repair]
Probab=99.28 E-value=2.2e-11 Score=134.78 Aligned_cols=178 Identities=17% Similarity=0.284 Sum_probs=123.0
Q ss_pred hhhhccCCeEEEEcccceEEEEEEECC-EEEEEeCCCccccccCcCCCcCCC-CcccccCCCCeeeeEEEEEecCCCCC-
Q 005797 358 LQLLRQRYYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDSR- 434 (677)
Q Consensus 358 l~~l~~~~Y~V~eK~DG~R~ll~i~~~-~vyLidR~~~~~~v~~~FP~~~~~-~~~~~~~~~~tlLDGElV~d~~~~~~- 434 (677)
|..+....|-.+||.||.|..++...+ .+++++||.+ ..+-+||..... ..+......+.|||||+|......+.
T Consensus 359 l~rf~~~~FTCEyKYDGeRAQIH~~edG~v~IfSRN~E--~~T~kYPDi~~~~~~~~kp~v~sFIlD~EvVA~Dr~~~~I 436 (714)
T KOG0967|consen 359 LERFQDKAFTCEYKYDGERAQIHKLEDGTVEIFSRNSE--NNTGKYPDIIEVISKLKKPSVKSFILDCEVVAWDREKGKI 436 (714)
T ss_pred HHHhhCceeEEEeecCceeeeeEEccCCcEEEEecccc--cccccCccHHHHHHHhhCCccceeEEeeeEEEEeccCCcc
Confidence 345778899999999999999998754 6899999987 457789975432 11112234789999999985432211
Q ss_pred -------------------CceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCc
Q 005797 435 -------------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPF 495 (677)
Q Consensus 435 -------------------~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf 495 (677)
+-....++||+|++||+++.++|+.+|.++|.+....- |.
T Consensus 437 lpFQvLSTRkRk~v~v~dikV~Vcvf~FDily~ng~~Li~~pL~eRR~~l~e~f~e~-------------~g-------- 495 (714)
T KOG0967|consen 437 LPFQVLSTRKRKNVDVNDIKVKVCVFVFDILYLNGESLIQEPLRERRELLHESFKEI-------------PG-------- 495 (714)
T ss_pred CchhhhhhhhccccchhhceEEEEEEEEeeeeeCChhhhhhhHHHHHHHHHhhcccC-------------CC--------
Confidence 12357889999999999999999999999998854211 11
Q ss_pred EEEecceEEchhHHHHHHHhcccccCCCceEEEEeC--CCCCccC-CCCCeEEEccCCC----ceEEEEE
Q 005797 496 RVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPR-THEGLLKWKYARM----NSVDFLF 558 (677)
Q Consensus 496 ~i~~K~~~~~~~~~~ll~~~~~~l~h~~DGLIf~p~--~spY~~G-~~~~lLKWKp~~~----nTVDF~l 558 (677)
..........+.++.+-+-+-....+.++||+.+-. ++.|-+- |+..|||-|-..+ -|+|..+
T Consensus 496 ~f~fat~~~tn~~~eiq~Fl~~sv~~~cEGlMvKtLd~~atYep~kRs~~WlKlKkDYldgvgdslDLv~ 565 (714)
T KOG0967|consen 496 EFQFATSLDTNDIDEIQEFLEESVQNSCEGLMVKTLDTNATYEPSKRSNNWLKLKKDYLDGVGDSLDLVV 565 (714)
T ss_pred ceeEeeeeccCCHHHHHHHHHHhhccCcceeEEEeeccccccCchhhccchhhhhhhhhcccccceeeee
Confidence 122222333344443322223478899999999964 5678765 4789999997653 4666665
No 53
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=99.17 E-value=8.1e-11 Score=112.51 Aligned_cols=101 Identities=24% Similarity=0.316 Sum_probs=61.8
Q ss_pred HHHHHHHHHcCCCeeEEEEcCCCC--CCCC----cchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCC
Q 005797 128 KQVIHQLRVLGRKLGLVIDLTNTT--RYYP----TSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSK 201 (677)
Q Consensus 128 ~~l~~~~~~~~~~I~~VIdLt~~~--~~y~----~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~ 201 (677)
..=++.++. .++..|+.|.... ..|. .+..+..||.++++|+.|. .+|+.+...++..++...+ .+|
T Consensus 61 ~~DL~~Lk~--~G~~~Vvtl~~~~EL~~l~Vp~L~~~~~~~Gi~~~h~PI~D~-~aPd~~~~~~i~~eL~~~L----~~g 133 (168)
T PF05706_consen 61 QADLERLKD--WGAQDVVTLLTDHELARLGVPDLGEAAQARGIAWHHLPIPDG-SAPDFAAAWQILEELAARL----ENG 133 (168)
T ss_dssp HHHHHHHHH--TT--EEEE-S-HHHHHHTT-TTHHHHHHHTT-EEEE----TT-S---HHHHHHHHHHHHHHH----HTT
T ss_pred HHHHHHHHH--CCCCEEEEeCcHHHHHHcCCccHHHHHHHcCCEEEecCccCC-CCCCHHHHHHHHHHHHHHH----HcC
Confidence 334556665 4588899887432 2232 2556789999999999996 7898776666665555544 478
Q ss_pred ceEEEEcCCCCChhHHHHHHHHHHhc-CCCHHHHH
Q 005797 202 KYILVHCTHGHNRTGYMIVHFLMRSQ-SMSVAQAI 235 (677)
Q Consensus 202 ~~VlVHC~~G~~RTG~li~aYLm~~~-~~s~~eAi 235 (677)
+.|+|||.+|.||||+++||+|++.. ++++++||
T Consensus 134 ~~V~vHC~GGlGRtGlvAAcLLl~L~~~~~p~~AI 168 (168)
T PF05706_consen 134 RKVLVHCRGGLGRTGLVAACLLLELGDTMSPEQAI 168 (168)
T ss_dssp --EEEE-SSSSSHHHHHHHHHHHHH-SSS-HHHHH
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHcCCCChhhcC
Confidence 89999999999999999999999854 37999997
No 54
>smart00012 PTPc_DSPc Protein tyrosine phosphatase, catalytic domain, undefined specificity. Protein tyrosine phosphatases. Homologues detected by this profile and not by those of "PTPc" or "DSPc" are predicted to be protein phosphatases with a similar fold to DSPs and PTPs, yet with unpredicted specificities.
Probab=99.06 E-value=1.5e-09 Score=95.98 Aligned_cols=91 Identities=24% Similarity=0.355 Sum_probs=72.5
Q ss_pred EEEEecCCCCCCCCH-HHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc------CCCHHHHHHHH
Q 005797 166 HVKIQCKGRDAVPDN-ASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ------SMSVAQAIKKF 238 (677)
Q Consensus 166 y~~ip~~d~~~~P~~-e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~------~~s~~eAi~~~ 238 (677)
|.....+++ .+|.. +.+..|+..+.+..... ..+++|+|||.+|.||||+++++|++..+ ..++.+++..+
T Consensus 5 ~~~~~Wpd~-~~P~~~~~~~~~~~~v~~~~~~~-~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00012 5 YHYTGWPDH-GVPESPDSILEFLRAVKKNLNQS-SSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EeeCCCCCC-CCCCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 445556665 46655 78888988888776532 23679999999999999999999999764 25789999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 005797 239 AEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (677)
++.|+..+.+..+...++..
T Consensus 83 r~~r~~~~~~~~q~~~~~~~ 102 (105)
T smart00012 83 RKQRPGMVQTFEQYLFLYRA 102 (105)
T ss_pred HhhhhhhCCcHHHHHHHHHH
Confidence 99999999998888777653
No 55
>smart00404 PTPc_motif Protein tyrosine phosphatase, catalytic domain motif.
Probab=99.06 E-value=1.5e-09 Score=95.98 Aligned_cols=91 Identities=24% Similarity=0.355 Sum_probs=72.5
Q ss_pred EEEEecCCCCCCCCH-HHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc------CCCHHHHHHHH
Q 005797 166 HVKIQCKGRDAVPDN-ASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ------SMSVAQAIKKF 238 (677)
Q Consensus 166 y~~ip~~d~~~~P~~-e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~------~~s~~eAi~~~ 238 (677)
|.....+++ .+|.. +.+..|+..+.+..... ..+++|+|||.+|.||||+++++|++..+ ..++.+++..+
T Consensus 5 ~~~~~Wpd~-~~P~~~~~~~~~~~~v~~~~~~~-~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00404 5 YHYTGWPDH-GVPESPDSILEFLRAVKKNLNQS-SSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EeeCCCCCC-CCCCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 445556665 46655 78888988888776532 23679999999999999999999999764 25789999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 005797 239 AEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (677)
++.|+..+.+..+...++..
T Consensus 83 r~~r~~~~~~~~q~~~~~~~ 102 (105)
T smart00404 83 RKQRPGMVQTFEQYLFLYRA 102 (105)
T ss_pred HhhhhhhCCcHHHHHHHHHH
Confidence 99999999998888777653
No 56
>cd07894 Adenylation_RNA_ligase Adenylation domain of RNA circularization proteins. RNA circularization proteins are capable of circularizing RNA molecules in an ATP-dependent reaction. RNA circularization may protect RNA from exonuclease activity. This model comprises the adenylation domain, the minimal catalytic unit that is common to all members of the ATP-dependent DNA ligase family, and the carboxy-terminal extension of RNA circularization protein that serves as a dimerization module. ATP-dependent polynucleotide ligases catalyze phosphodiester bond formation of nicked nucleic acid substrates using the high energy nucleotide of ATP as a cofactor in a three step reaction mechanism. The adenylation domain binds ATP and contains many active site residues.
Probab=99.03 E-value=2.9e-09 Score=114.67 Aligned_cols=147 Identities=16% Similarity=0.109 Sum_probs=96.4
Q ss_pred CCeEEEEcccceEEEEEEECCEEEEEeCCCccc-cccCcCCCcCCCCcccccCCCCeeeeEEEEEecCC---CC-CC-ce
Q 005797 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFR-RVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP---DS-RR-QE 437 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~-~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~---~~-~~-~~ 437 (677)
..|+|+||.||.|+.++..++++.+++|++.+. .++-++|..... .+. ..+.+.+||||+|.-..+ .. .. ..
T Consensus 48 ~~~~vEEKlDG~nvri~~~~G~v~a~TR~G~i~e~~T~~~~eiv~~-~~~-~~~p~~iLdGElvg~~~p~v~~~~~~~~~ 125 (342)
T cd07894 48 GPVAVEEKMNGYNVRIVRIGGKVLAFTRGGFICPFTTDRLRDLIDP-EFF-DDHPDLVLCGEVVGPENPYVPGSYPEVED 125 (342)
T ss_pred CCEEEEEeECCcEEEEEEECCEEEEEeCCCccCccchhhHhhhchH-Hhh-ccCCCEEEEEEEEecCCccccccCccccc
Confidence 489999999999999988888999999997632 234445544211 111 123579999999875422 11 11 25
Q ss_pred eEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcc
Q 005797 438 RRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIP 517 (677)
Q Consensus 438 ~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~ 517 (677)
..|++|||+..++ ...+|+.+|.++|++..+ |.. + . +..........+..+++ .
T Consensus 126 v~F~vFDI~~~~~--~~~lp~~eR~~lLe~lg~-~~v-----------~-------~--~~~~~~~d~~~l~~~l~---~ 179 (342)
T cd07894 126 VGFFVFDIRKKNT--GRPLPVEERRELLEKYGL-PTV-----------R-------L--FGEFTADEIEELKEIIR---E 179 (342)
T ss_pred cEEEEEeeEEcCC--CCCCCHHHHHHHHHhcCC-CCc-----------c-------e--EEEEecCCHHHHHHHHH---H
Confidence 7999999999875 567999999999988532 110 0 0 11111111233344444 3
Q ss_pred cccCCCceEEEEeCCC-----CCccC
Q 005797 518 KLSHDADGLVFQGWDD-----PYVPR 538 (677)
Q Consensus 518 ~l~h~~DGLIf~p~~s-----pY~~G 538 (677)
...++.||||+|..++ .|+..
T Consensus 180 ~~~~G~EGVVlK~~~~~~~~~Ky~t~ 205 (342)
T cd07894 180 LDKEGREGVVLKDPDMRVPPLKYTTS 205 (342)
T ss_pred HHHCCCceEEEeccccccCcceeecC
Confidence 5678999999999887 56654
No 57
>TIGR01244 conserved hypothetical protein TIGR01244. No member of this family is characterized. The member from Xylella fastidiosa is a longer protein with an N-terminal region described by this model, followed by a metallo-beta-lactamase family domain and an additional C-terminal region. Members scoring above the trusted cutoff are limited to the proteobacteria.
Probab=98.97 E-value=9.4e-09 Score=96.69 Aligned_cols=106 Identities=10% Similarity=0.118 Sum_probs=77.5
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCC-CCcc------hhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHH
Q 005797 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRY-YPTS------DLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFL 194 (677)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~-y~~~------~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi 194 (677)
...-++.++- .++. .+|++||||...... ..+. .....|++|+++|+... .++.+.+..|...+
T Consensus 12 s~qlt~~d~~-~L~~--~GiktVIdlR~~~E~~~~p~~~~~~~~a~~~gl~y~~iPv~~~--~~~~~~v~~f~~~~---- 82 (135)
T TIGR01244 12 SPQLTKADAA-QAAQ--LGFKTVINNRPDREEESQPDFAQIKAAAEAAGVTYHHQPVTAG--DITPDDVETFRAAI---- 82 (135)
T ss_pred cCCCCHHHHH-HHHH--CCCcEEEECCCCCCCCCCCCHHHHHHHHHHCCCeEEEeecCCC--CCCHHHHHHHHHHH----
Confidence 3455677765 3444 579999999965321 2221 22457999999999864 35778888776544
Q ss_pred HhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhc
Q 005797 195 SRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEV 241 (677)
Q Consensus 195 ~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~ 241 (677)
+ ...++||+||++|. |||.+.+.++.. .|++.+++++..+..
T Consensus 83 ~---~~~~pvL~HC~sG~-Rt~~l~al~~~~-~g~~~~~i~~~~~~~ 124 (135)
T TIGR01244 83 G---AAEGPVLAYCRSGT-RSSLLWGFRQAA-EGVPVEEIVRRAQAA 124 (135)
T ss_pred H---hCCCCEEEEcCCCh-HHHHHHHHHHHH-cCCCHHHHHHHHHHc
Confidence 2 23588999999999 999999888766 799999999998765
No 58
>cd00047 PTPc Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (pTyr) residues, instead of pSer or pThr. This family has a distinctive active site signature motif, HCSAGxGRxG. Characterized as either transmembrane, receptor-like or non-transmembrane (soluble) PTPs. Receptor-like PTP domains tend to occur in two copies in the cytoplasmic region of the transmembrane proteins, only one copy may be active.
Probab=98.79 E-value=2.9e-08 Score=101.46 Aligned_cols=93 Identities=20% Similarity=0.311 Sum_probs=70.0
Q ss_pred cEEEEEe-cCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc-----CCCHHHHHHH
Q 005797 164 IKHVKIQ-CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-----SMSVAQAIKK 237 (677)
Q Consensus 164 I~y~~ip-~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~-----~~s~~eAi~~ 237 (677)
|.++++. ..+++.+++.+.+..|+..+...... ..+++|+|||.+|.||||+++|++++..+ ..++.+|+..
T Consensus 130 V~~~~~~~W~d~~~p~~~~~~~~~~~~v~~~~~~--~~~~pivVHC~~G~gRsg~~~a~~~~~~~~~~~~~~~~~~~v~~ 207 (231)
T cd00047 130 VTHFQYTGWPDHGVPESPDSLLDLLRKVRKSQQQ--PGSGPIVVHCSAGVGRTGTFIAIDILLQRLEAEGVVDIFQTVKE 207 (231)
T ss_pred EEEEeECCCCCCCccCChHHHHHHHHHHHHHhcc--CCCCCeEEECCCCCCccchHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence 4444443 45653333447777887777654321 34679999999999999999999986543 5799999999
Q ss_pred HHhcCCCCcCCHHHHHHHHHH
Q 005797 238 FAEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 238 ~~~~Rp~~i~~~~~l~~L~~~ 258 (677)
+++.|+.++.+..|...++..
T Consensus 208 iR~~R~~~v~~~~Qy~f~~~~ 228 (231)
T cd00047 208 LRSQRPGMVQTEEQYIFLYRA 228 (231)
T ss_pred HHhccccccCCHHHHHHHHHH
Confidence 999999999998888877653
No 59
>PLN02727 NAD kinase
Probab=98.78 E-value=1.1e-07 Score=111.03 Aligned_cols=100 Identities=23% Similarity=0.284 Sum_probs=75.5
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCC---C---CcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHH
Q 005797 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRY---Y---PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLS 195 (677)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~---y---~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~ 195 (677)
...-+++++-. +.+ .++++||||+.+... | ..+..+..|++|+++|+.+. ..|+.++|.+|.+.+.+
T Consensus 266 sgQpspe~la~-LA~--~GfKTIINLRpd~E~~q~~~~ee~eAae~~GL~yVhIPVs~~-~apt~EqVe~fa~~l~~--- 338 (986)
T PLN02727 266 GGQVTEEGLKW-LLE--KGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEVVKIPVEVR-TAPSAEQVEKFASLVSD--- 338 (986)
T ss_pred eCCCCHHHHHH-HHH--CCCeEEEECCCCCcCCCchhHHHHHHHHHcCCeEEEeecCCC-CCCCHHHHHHHHHHHHh---
Confidence 34557888754 443 579999999875542 2 11234568999999999775 68999999998765522
Q ss_pred hcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCH
Q 005797 196 RQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSV 231 (677)
Q Consensus 196 ~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~ 231 (677)
...++||+||++|..|||+|+||||.+.-+-..
T Consensus 339 ---slpkPVLvHCKSGarRAGamvA~yl~~~~~~~~ 371 (986)
T PLN02727 339 ---SSKKPIYLHSKEGVWRTSAMVSRWKQYMTRSAE 371 (986)
T ss_pred ---hcCCCEEEECCCCCchHHHHHHHHHHHHcccch
Confidence 246899999999999999999999998666543
No 60
>PRK15375 pathogenicity island 1 effector protein StpP; Provisional
Probab=98.69 E-value=8.4e-08 Score=105.83 Aligned_cols=99 Identities=15% Similarity=0.260 Sum_probs=74.3
Q ss_pred cEEEEEe-cCCCCCCCCHHHHHHHHHHHHHHHHhcc-----cCCceEEEEcCCCCChhHHHHHHHHHHhcC-CCHHHHHH
Q 005797 164 IKHVKIQ-CKGRDAVPDNASVNNFVYEVTQFLSRQK-----HSKKYILVHCTHGHNRTGYMIVHFLMRSQS-MSVAQAIK 236 (677)
Q Consensus 164 I~y~~ip-~~d~~~~P~~e~i~~f~~~v~~fi~~~~-----~~~~~VlVHC~~G~~RTG~li~aYLm~~~~-~s~~eAi~ 236 (677)
|.++++. .+||+.+|+.+.+..|++.+........ .+...++|||.+|.||||++||+|+|...+ .++++.+.
T Consensus 423 V~QFHyTnWPDHGVPpST~~LleLvr~Vr~~~q~~~~~~~~~nk~~PVVHCSAGVGRTGTFIAi~llk~~~~~sle~IV~ 502 (535)
T PRK15375 423 IPVLHVKNWPDHQPLPSTDQLEYLADRVKNSNQNGAPGRSSSDKHLPMIHCLGGVGRTGTMAAALVLKDNPHSNLEQVRA 502 (535)
T ss_pred EEEEEeCCCCCCCCCCChHHHHHHHHHHHHhhhcccccccccCCCCceEEcCCCCchHHHHHHHHHHhccccCCHHHHHH
Confidence 4444443 4788766666778888877765432110 011234799999999999999999997666 48999999
Q ss_pred HHHhcCCC-CcCCHHHHHHHHHHHhhc
Q 005797 237 KFAEVRPP-GIYKNEYIEALYTFYHEK 262 (677)
Q Consensus 237 ~~~~~Rp~-~i~~~~~l~~L~~~y~~~ 262 (677)
.+|..|++ .+.+..|.+.|++....+
T Consensus 503 dlR~qRng~MVQt~eQy~~l~~~~~~~ 529 (535)
T PRK15375 503 DFRNSRNNRMLEDASQFVQLKAMQAQL 529 (535)
T ss_pred HHHhcCCccccccHHHHHHHHHHHHHH
Confidence 99999998 899999999998876544
No 61
>smart00194 PTPc Protein tyrosine phosphatase, catalytic domain.
Probab=98.65 E-value=1.2e-07 Score=98.63 Aligned_cols=84 Identities=26% Similarity=0.371 Sum_probs=66.6
Q ss_pred cCCCCCCC-CHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHh-----cCCCHHHHHHHHHhcCCC
Q 005797 171 CKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRS-----QSMSVAQAIKKFAEVRPP 244 (677)
Q Consensus 171 ~~d~~~~P-~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~-----~~~s~~eAi~~~~~~Rp~ 244 (677)
.+|+ .+| +.+.+.+|+..+..... ..+++|+|||.+|.||||+++|++++.. ...++.+|+..+++.|+.
T Consensus 166 W~d~-~~P~~~~~~~~~i~~v~~~~~---~~~~pivVHC~~G~gRsg~f~a~~~~~~~l~~~~~v~v~~~v~~lR~~R~~ 241 (258)
T smart00194 166 WPDH-GVPESPKSILDLVRAVRKSQS---TSTGPIVVHCSAGVGRTGTFIAIDILLQQLEAGKEVDIFEIVKELRSQRPG 241 (258)
T ss_pred CCCC-CCCCCHHHHHHHHHHHHHhhc---cCCCCEEEEeCCCCCccchhhHHHHHHHHHHHcCCCCHHHHHHHHHhcccc
Confidence 4565 455 56777777777665432 2268999999999999999999988743 357999999999999999
Q ss_pred CcCCHHHHHHHHHH
Q 005797 245 GIYKNEYIEALYTF 258 (677)
Q Consensus 245 ~i~~~~~l~~L~~~ 258 (677)
++.+..|...++..
T Consensus 242 ~v~~~~Qy~f~~~~ 255 (258)
T smart00194 242 MVQTEEQYIFLYRA 255 (258)
T ss_pred ccCCHHHHHHHHHH
Confidence 99999998887653
No 62
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=98.37 E-value=1.4e-06 Score=79.07 Aligned_cols=84 Identities=21% Similarity=0.285 Sum_probs=48.3
Q ss_pred CCHHHHHHHHHHcCCCeeEEEEcCCCCCCC---C----cchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhc
Q 005797 125 YSFKQVIHQLRVLGRKLGLVIDLTNTTRYY---P----TSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQ 197 (677)
Q Consensus 125 ~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y---~----~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~ 197 (677)
-+++++- .++. .++++|||+..+..-. . .+..+..|+.|+++|+.+. .++.+++..|.+.+ +
T Consensus 15 ~~~~d~~-~la~--~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~--~~~~~~v~~f~~~l----~-- 83 (110)
T PF04273_consen 15 PSPEDLA-QLAA--QGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGG--AITEEDVEAFADAL----E-- 83 (110)
T ss_dssp --HHHHH-HHHH--CT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TT--T--HHHHHHHHHHH----H--
T ss_pred CCHHHHH-HHHH--CCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCC--CCCHHHHHHHHHHH----H--
Confidence 3566665 4444 5799999998553221 1 1346789999999999863 57889999887644 2
Q ss_pred ccCCceEEEEcCCCCChhHHHHHH
Q 005797 198 KHSKKYILVHCTHGHNRTGYMIVH 221 (677)
Q Consensus 198 ~~~~~~VlVHC~~G~~RTG~li~a 221 (677)
...++|++||..|. |++.|-+.
T Consensus 84 -~~~~Pvl~hC~sG~-Ra~~l~~l 105 (110)
T PF04273_consen 84 -SLPKPVLAHCRSGT-RASALWAL 105 (110)
T ss_dssp -TTTTSEEEE-SCSH-HHHHHHHH
T ss_pred -hCCCCEEEECCCCh-hHHHHHHH
Confidence 23579999999996 99876554
No 63
>PF14566 PTPlike_phytase: Inositol hexakisphosphate; PDB: 1U24_A 2PSZ_B 3MOZ_A 3D1H_B 2B4P_B 3D1Q_A 2B4O_A 3MMJ_B 1U25_A 1U26_B ....
Probab=98.36 E-value=6.5e-07 Score=85.67 Aligned_cols=66 Identities=18% Similarity=0.386 Sum_probs=47.5
Q ss_pred CCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHH
Q 005797 154 YPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMR 225 (677)
Q Consensus 154 y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~ 225 (677)
|.....+..|+.|++||+.|+ ..|+.+.+.+|+..+.. . ..+..+.+||.+|.|||.+.+++|.|-
T Consensus 83 ~e~~~~~~~g~~Y~Ripitd~-~~P~~~~iD~fi~~v~~----~-p~~~~l~fhC~~G~GRTTt~Mv~~~li 148 (149)
T PF14566_consen 83 TEEELVEGNGLRYYRIPITDH-QAPDPEDIDAFINFVKS----L-PKDTWLHFHCQAGRGRTTTFMVMYDLI 148 (149)
T ss_dssp -HHHHHHHTT-EEEEEEE-TT-S---HHHHHHHHHHHHT----S--TT-EEEEE-SSSSHHHHHHHHHHHHH
T ss_pred HHHHHHhcCCceEEEEeCCCc-CCCCHHHHHHHHHHHHh----C-CCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 344556678999999999998 89999999999875433 3 457899999999999999999999874
No 64
>PF13350 Y_phosphatase3: Tyrosine phosphatase family; PDB: 1YWF_A 2OZ5_B.
Probab=98.33 E-value=1.1e-06 Score=85.31 Aligned_cols=105 Identities=21% Similarity=0.333 Sum_probs=50.7
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCCCCCC-CcchhhhCCcEEEEEecCCCCCCCCHHHH----------H----------
Q 005797 126 SFKQVIHQLRVLGRKLGLVIDLTNTTRYY-PTSDLKKEGIKHVKIQCKGRDAVPDNASV----------N---------- 184 (677)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~~~~y-~~~~~~~~gI~y~~ip~~d~~~~P~~e~i----------~---------- 184 (677)
++.++ +.+. ..+|++||||+...+.- .|..+. .|++|+++|+.+. .....+.+ .
T Consensus 31 t~~d~-~~L~--~lgI~tIiDLRs~~E~~~~p~~~~-~g~~~~~~p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~ 105 (164)
T PF13350_consen 31 TEADL-ERLR--ELGIRTIIDLRSPTERERAPDPLI-DGVQYVHIPIFGD-DASSPDKLAELLQSSADAPRGMLEFYREM 105 (164)
T ss_dssp -HHHH-HHHH--HTT--EEEE-S-HHHHHHHS-----TT-EEEE--SS-S--TTH----------HHHHHHHHHHHHHHG
T ss_pred CHHHH-HHHH--hCCCCEEEECCCccccccCCCCCc-CCceeeeeccccc-ccccccccccccccccchhhHHHHHHHHH
Confidence 34444 3444 36899999999643221 232222 4999999999874 22211111 1
Q ss_pred -----HHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHH
Q 005797 185 -----NFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFA 239 (677)
Q Consensus 185 -----~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~ 239 (677)
..+..+...|. ..+ ++|||||++|+.|||.++|..|. -.|.+-++.++-+.
T Consensus 106 ~~~~~~~~~~~~~~l~--~~~-~p~l~HC~aGKDRTG~~~alll~-~lGV~~~~I~~DY~ 161 (164)
T PF13350_consen 106 LESYAEAYRKIFELLA--DAP-GPVLFHCTAGKDRTGVVAALLLS-LLGVPDEDIIADYL 161 (164)
T ss_dssp GGSTHHHHHHHHHHHH---TT---EEEE-SSSSSHHHHHHHHHHH-HTT--HHHHHHHHH
T ss_pred HHhhhHHHHHHHHHhc--cCC-CcEEEECCCCCccHHHHHHHHHH-HcCCCHHHHHHHHH
Confidence 11122333333 233 69999999999999987777665 57999888876654
No 65
>PHA02740 protein tyrosine phosphatase; Provisional
Probab=98.30 E-value=4.7e-06 Score=88.66 Aligned_cols=88 Identities=14% Similarity=0.177 Sum_probs=66.2
Q ss_pred ecCCCCCCCCHHHHHHHHHHHHHHHHh-----cccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHHHHH
Q 005797 170 QCKGRDAVPDNASVNNFVYEVTQFLSR-----QKHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIKKFA 239 (677)
Q Consensus 170 p~~d~~~~P~~e~i~~f~~~v~~fi~~-----~~~~~~~VlVHC~~G~~RTG~li~aYLm~-----~~~~s~~eAi~~~~ 239 (677)
..+|+|.+.+...+..|+..|.+.... .....++|+|||.+|.||||+++|...+- ....++.+++..+|
T Consensus 185 ~WPd~gvP~~~~~~l~fi~~V~~~~~~~~~~~~~~~~~PIVVHCSaGvGRTGtFcaiDi~l~~~~~~~~vdi~~~V~~lR 264 (298)
T PHA02740 185 AWPADGFSHDPDAFIDFFCNIDDLCADLEKHKADGKIAPIIIDCIDGISSSAVFCVFDICATEFDKTGMLSIANALKKVR 264 (298)
T ss_pred CCCCCCcCCCHHHHHHHHHHHHHHHHHHHHhhccCCCCCEEEECCCCCchhHHHHHHHHHHHHHHhcCcccHHHHHHHHH
Confidence 446775555677888888777654321 11234799999999999999998876553 23458999999999
Q ss_pred hcCCCCcCCHHHHHHHHH
Q 005797 240 EVRPPGIYKNEYIEALYT 257 (677)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~ 257 (677)
+.|+..+....|...++.
T Consensus 265 ~qR~~~Vqt~~QY~F~y~ 282 (298)
T PHA02740 265 QKKYGCMNCLDDYVFCYH 282 (298)
T ss_pred hhCccccCCHHHHHHHHH
Confidence 999999999887777654
No 66
>KOG1572 consensus Predicted protein tyrosine phosphatase [Defense mechanisms]
Probab=98.28 E-value=1.1e-05 Score=81.00 Aligned_cols=119 Identities=21% Similarity=0.367 Sum_probs=87.6
Q ss_pred cccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCC---CcchhhhCCcEEEEEecCCCC---CCCCHHHHHHH
Q 005797 113 EFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYY---PTSDLKKEGIKHVKIQCKGRD---AVPDNASVNNF 186 (677)
Q Consensus 113 ~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y---~~~~~~~~gI~y~~ip~~d~~---~~P~~e~i~~f 186 (677)
..|....|..--|+.-.. .+++.||.|+++. | +-..++..||+++++-|.+.. .-|.......-
T Consensus 66 ~lyRSg~P~~~NfsFL~~--------L~LksIisL~pE~--yp~~nl~f~~~~~Ik~~~i~ie~~k~~~k~P~~~~~~~~ 135 (249)
T KOG1572|consen 66 GLYRSGFPRPENFSFLKT--------LHLKSIISLCPEP--YPEENLNFLESNGIKLYQIGIEGEKDNKKEPFVNIPDHS 135 (249)
T ss_pred ceeecCCCCccchHHHHH--------hhhheEEEecCCC--CChHHHHHHHhcCceEEEEecccccccccCCCCCChHHH
Confidence 455555554444443222 3688999999764 4 235678999999999998753 14555555555
Q ss_pred HHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Q 005797 187 VYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPP 244 (677)
Q Consensus 187 ~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~ 244 (677)
+..+.+++- ...+.++||||+.|.-|||++|+|.. ..++|++.-.++.+...-..
T Consensus 136 i~~~l~~ll--d~~N~P~Lihc~rGkhRtg~lVgclR-klq~W~lssil~Ey~~fa~s 190 (249)
T KOG1572|consen 136 IRKALKVLL--DKRNYPILIHCKRGKHRTGCLVGCLR-KLQNWSLSSILDEYLRFAGS 190 (249)
T ss_pred HHHHHHHHh--cccCCceEEecCCCCcchhhhHHHHH-HHhccchhHHHHHHHHhccc
Confidence 666666665 45678999999999999999999998 77899999999888877544
No 67
>PF00102 Y_phosphatase: Protein-tyrosine phosphatase; InterPro: IPR000242 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry repesents several receptor and non-receptor protein-tyrosine phosphatases. Structurally, all known receptor PTPases, are made up of a variable length extracellular domain, followed by a transmembrane region and a C-terminal catalytic cytoplasmic domain. Some of the receptor PTPases contain fibronectin type III (FN-III) repeats, immunoglobulin-like domains, MAM domains or carbonic anhydrase-like domains in their extracellular region. The cytoplasmic region generally contains two copies of the PTPase domain. The first seems to have enzymatic activity, while the second is inactive. The inactive domains of tandem phosphatases can be divided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre []. PTPase domains consist of about 300 amino acids. There are two conserved cysteines, the second one has been shown to be absolutely required for activity. Furthermore, a number of conserved residues in its immediate vicinity have also been shown to be important.; GO: 0004725 protein tyrosine phosphatase activity, 0006470 protein dephosphorylation; PDB: 3O4T_A 3O4S_A 3O4U_A 2A3K_A 2QDP_A 2QDC_A 2QDM_A 2HVL_A 1ZC0_A 3D44_A ....
Probab=98.26 E-value=5.8e-06 Score=83.92 Aligned_cols=80 Identities=26% Similarity=0.400 Sum_probs=64.8
Q ss_pred CCC-CHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc-----CCCHHHHHHHHHhcCCCCcCCH
Q 005797 176 AVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-----SMSVAQAIKKFAEVRPPGIYKN 249 (677)
Q Consensus 176 ~~P-~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~-----~~s~~eAi~~~~~~Rp~~i~~~ 249 (677)
.+| +.+.+..|+..+...- ...+++|+|||.+|.||||+++++.++..+ ..++.+++..+++.|++++.+.
T Consensus 147 ~~P~~~~~~~~~~~~v~~~~---~~~~~pivVhc~~G~gRsg~f~~~~~~~~~~~~~~~~~v~~~~~~lR~~R~~~i~~~ 223 (235)
T PF00102_consen 147 GVPPSPESFLDFIRKVNKSK---DDPNGPIVVHCSDGVGRSGTFCAIDILIEQLKKEGEVDVFEIVKKLRQQRPGAIQSP 223 (235)
T ss_dssp SSGSSSHHHHHHHHHHHHHH---STTSSEEEEESSSSSHHHHHHHHHHHHHHHHHHHSEECHHHHHHHHHTTSTTSSSSH
T ss_pred ccccccchhhhhhhhccccc---cCCccceEeecccccccccccccchhhccccccccchhhHHHHHHHHhhCCCccCCH
Confidence 344 5677777777666543 346789999999999999999999987532 3689999999999999999999
Q ss_pred HHHHHHHHH
Q 005797 250 EYIEALYTF 258 (677)
Q Consensus 250 ~~l~~L~~~ 258 (677)
.|...++..
T Consensus 224 ~qy~f~~~~ 232 (235)
T PF00102_consen 224 EQYRFCYMA 232 (235)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 988887754
No 68
>PHA02742 protein tyrosine phosphatase; Provisional
Probab=98.23 E-value=7.7e-06 Score=87.38 Aligned_cols=89 Identities=16% Similarity=0.169 Sum_probs=64.5
Q ss_pred ecCCCCCCCCHHHHHHHHHHHHHHHHhc--------ccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHH
Q 005797 170 QCKGRDAVPDNASVNNFVYEVTQFLSRQ--------KHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIK 236 (677)
Q Consensus 170 p~~d~~~~P~~e~i~~f~~~v~~fi~~~--------~~~~~~VlVHC~~G~~RTG~li~aYLm~-----~~~~s~~eAi~ 236 (677)
..+|+|.+.+...+..|+..+...-... ....++|+|||.+|.||||+++|...+- ....++-+++.
T Consensus 190 ~Wpd~gvP~~~~~~l~~i~~v~~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRTGtF~aid~~i~~~~~~~~v~v~~~V~ 269 (303)
T PHA02742 190 DWPHGGLPRDPNKFLDFVLAVREADLKADVDIKGENIVKEPPILVHCSAGLDRAGAFCAIDICISKYNERAIIPLLSIVR 269 (303)
T ss_pred CCCCCCcCCCHHHHHHHHHHHHHHhhhccccccccccCCCCCeEEECCCCCchhHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 3467754446677888887765522111 1124799999999999999998877654 22458999999
Q ss_pred HHHhcCCCCcCCHHHHHHHHHH
Q 005797 237 KFAEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L~~~ 258 (677)
.+|+.|+..+.+..|...++..
T Consensus 270 ~lR~qR~~~Vqt~~QY~F~y~~ 291 (303)
T PHA02742 270 DLRKQRHNCLSLPQQYIFCYFI 291 (303)
T ss_pred HHHhhcccccCCHHHHHHHHHH
Confidence 9999999999998887776543
No 69
>PHA02747 protein tyrosine phosphatase; Provisional
Probab=98.20 E-value=9.5e-06 Score=87.01 Aligned_cols=85 Identities=19% Similarity=0.270 Sum_probs=62.0
Q ss_pred ecCCCCCCC-CHHHHHHHHHHHHHHHHhcc-------cCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHH
Q 005797 170 QCKGRDAVP-DNASVNNFVYEVTQFLSRQK-------HSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIK 236 (677)
Q Consensus 170 p~~d~~~~P-~~e~i~~f~~~v~~fi~~~~-------~~~~~VlVHC~~G~~RTG~li~aYLm~-----~~~~s~~eAi~ 236 (677)
-.+|++ +| +...+..|+..+...-.... ...++|+|||.+|.||||+++|...+. ....++.+++.
T Consensus 191 ~Wpd~~-~P~~~~~~l~fi~~v~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRtGtfcaidi~i~~l~~~~~v~v~~~V~ 269 (312)
T PHA02747 191 EWFEDE-TPSDHPDFIKFIKIIDINRKKSGKLFNPKDALLCPIVVHCSDGVGKTGIFCAVDICLNQLVKRKAICLAKTAE 269 (312)
T ss_pred CCCCCC-CCCChHHHHHHHHHHHHHHHHhhccccccccCCCCEEEEecCCCcchhHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence 345664 45 45667777766654322111 113699999999999999999987532 23468999999
Q ss_pred HHHhcCCCCcCCHHHHHHH
Q 005797 237 KFAEVRPPGIYKNEYIEAL 255 (677)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L 255 (677)
.+|+.|+..+.+..|...+
T Consensus 270 ~lR~qR~~~Vqt~~QY~F~ 288 (312)
T PHA02747 270 KIREQRHAGIMNFDDYLFI 288 (312)
T ss_pred HHHhccccccCCHHHHHHH
Confidence 9999999999998887777
No 70
>PHA02746 protein tyrosine phosphatase; Provisional
Probab=98.17 E-value=1.1e-05 Score=87.02 Aligned_cols=88 Identities=15% Similarity=0.199 Sum_probs=65.3
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHh----ccc---CCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHHHH
Q 005797 171 CKGRDAVPDNASVNNFVYEVTQFLSR----QKH---SKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIKKF 238 (677)
Q Consensus 171 ~~d~~~~P~~e~i~~f~~~v~~fi~~----~~~---~~~~VlVHC~~G~~RTG~li~aYLm~-----~~~~s~~eAi~~~ 238 (677)
.+|++.+.+...+.+|+..+...... ... ..++|+|||.+|.||||+++|...+. ....++.+++..+
T Consensus 210 Wpd~gvP~~~~~~l~~i~~v~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRTGtfcaid~~l~~l~~~~~vdv~~~V~~l 289 (323)
T PHA02746 210 WPDNGIPTGMAEFLELINKVNEEQAELIKQADNDPQTLGPIVVHCSAGIGRAGTFCAIDNALEQLEKEKEVCLGEIVLKI 289 (323)
T ss_pred CCCCCcCCCHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCEEEEcCCCCCcchhHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 35664334567788888877665321 111 13799999999999999999865532 2346899999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 005797 239 AEVRPPGIYKNEYIEALYTF 258 (677)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (677)
|+.|+..+.+..|...+++.
T Consensus 290 R~qR~~~Vqt~~QY~F~y~~ 309 (323)
T PHA02746 290 RKQRHSSVFLPEQYAFCYKA 309 (323)
T ss_pred HhcccccCCCHHHHHHHHHH
Confidence 99999999999888877654
No 71
>PHA02738 hypothetical protein; Provisional
Probab=98.00 E-value=3.4e-05 Score=83.05 Aligned_cols=88 Identities=20% Similarity=0.225 Sum_probs=63.4
Q ss_pred ecCCCCCCCCHHHHHHHHHHHHHHHHhc----------ccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHH
Q 005797 170 QCKGRDAVPDNASVNNFVYEVTQFLSRQ----------KHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQA 234 (677)
Q Consensus 170 p~~d~~~~P~~e~i~~f~~~v~~fi~~~----------~~~~~~VlVHC~~G~~RTG~li~aYLm~-----~~~~s~~eA 234 (677)
..+|++.+.+...+..|+..+.+..... ....++|+|||.+|.||||+++|...+- ....++.++
T Consensus 186 ~Wpd~gvP~~~~~~l~fi~~V~~~~~~~~~~~~~~~~~~~~~~PIVVHCs~GiGRtGtFcaidi~i~~~~~~~~vdv~~~ 265 (320)
T PHA02738 186 AWPDHDVPKNTSEFLNFVLEVRQCQKELAQESLQIGHNRLQPPPIVVHCNAGLGRTPCYCVVDISISRFDACATVSIPSI 265 (320)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhhhhhcccCccccCCCCeEEEcCCCCChhhhhhHHHHHHHHHHhcCCcCHHHH
Confidence 3466644345667778877776532210 0114699999999999999988776532 224589999
Q ss_pred HHHHHhcCCCCcCCHHHHHHHHH
Q 005797 235 IKKFAEVRPPGIYKNEYIEALYT 257 (677)
Q Consensus 235 i~~~~~~Rp~~i~~~~~l~~L~~ 257 (677)
+..+|+.|+..+.+..|...+++
T Consensus 266 V~~lR~qR~~~vqt~~QY~F~y~ 288 (320)
T PHA02738 266 VSSIRNQRYYSLFIPFQYFFCYR 288 (320)
T ss_pred HHHHHhhhhhccCCHHHHHHHHH
Confidence 99999999999999888877664
No 72
>COG2365 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]
Probab=97.99 E-value=1.7e-05 Score=82.31 Aligned_cols=45 Identities=22% Similarity=0.297 Sum_probs=34.8
Q ss_pred CceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCC
Q 005797 201 KKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPG 245 (677)
Q Consensus 201 ~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~ 245 (677)
+++||+||+||..|||+++|+|+....++....|-++...-++..
T Consensus 136 ~~PvL~HC~~GkdRTGl~~al~r~~~~~~~~~v~~dyl~~~~~~~ 180 (249)
T COG2365 136 NGPVLIHCTAGKDRTGLVAALYRKLVGGSDETVAADYLLTNRYGE 180 (249)
T ss_pred cCCEEEecCCCCcchHHHHHHHHHHhCCchhHHHHHHHHcCCccc
Confidence 589999999999999999999999865555555555555555543
No 73
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.89 E-value=0.00021 Score=64.65 Aligned_cols=103 Identities=14% Similarity=0.060 Sum_probs=72.7
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCC-C------cchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHH
Q 005797 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYY-P------TSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFL 194 (677)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y-~------~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi 194 (677)
.-.-++.++.+. +. .++++|||.....+-- - .+..+..|+.|.++|+.+. .++.++|..|.+.+.+
T Consensus 13 sgQi~~~D~~~i-aa--~GFksiI~nRPDgEe~~QP~~~~i~~aa~~aGl~y~~iPV~~~--~iT~~dV~~f~~Al~e-- 85 (130)
T COG3453 13 SGQISPADIASI-AA--LGFKSIICNRPDGEEPGQPGFAAIAAAAEAAGLTYTHIPVTGG--GITEADVEAFQRALDE-- 85 (130)
T ss_pred cCCCCHHHHHHH-HH--hccceecccCCCCCCCCCCChHHHHHHHHhcCCceEEeecCCC--CCCHHHHHHHHHHHHH--
Confidence 344567777653 32 5799999998643221 1 2456789999999999874 5678999998876644
Q ss_pred HhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHH
Q 005797 195 SRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKF 238 (677)
Q Consensus 195 ~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eAi~~~ 238 (677)
.+++||.||..| .||-.+=..-. ...||+.+++.++=
T Consensus 86 -----aegPVlayCrsG-tRs~~ly~~~~-~~~gm~~de~~a~g 122 (130)
T COG3453 86 -----AEGPVLAYCRSG-TRSLNLYGLGE-LDGGMSRDEIEALG 122 (130)
T ss_pred -----hCCCEEeeecCC-chHHHHHHHHH-HhcCCCHHHHHHHH
Confidence 468999999999 47765544333 34689998877653
No 74
>KOG0790 consensus Protein tyrosine phosphatase Corkscrew and related SH2 domain enzymes [Signal transduction mechanisms]
Probab=97.89 E-value=1.2e-05 Score=86.42 Aligned_cols=91 Identities=22% Similarity=0.322 Sum_probs=68.6
Q ss_pred EEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHH----HhcC----CCHHHHHH
Q 005797 165 KHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM----RSQS----MSVAQAIK 236 (677)
Q Consensus 165 ~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm----~~~~----~s~~eAi~ 236 (677)
.|+-+-.+|||.+-++--+..|++.|..- ++....-++|.|||.||+||||++|+.=++ ...| +++...|+
T Consensus 416 ~yh~~tWPDHGvP~dPg~vLnFLe~V~~r-q~~l~~AgpIvVHCSAGIGrTGTfiViD~lld~I~~~Gldc~iDi~ktIq 494 (600)
T KOG0790|consen 416 HYHYLTWPDHGVPSDPGGVLNFLEEVNHR-QESLMDAGPIVVHCSAGIGRTGTFIVIDMLLDQIREKGLDCDIDIQKTIQ 494 (600)
T ss_pred hhheeecccCCCcCCccHHHHHHHHhhhh-hccccccCcEEEEccCCcCCcceEEEhHHHHHHHHhcCCCCcccHHHHHH
Confidence 56666778887666778888898888654 222233469999999999999998776543 3334 56889999
Q ss_pred HHHhcCCCCcCCHHHHHHHH
Q 005797 237 KFAEVRPPGIYKNEYIEALY 256 (677)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L~ 256 (677)
+++..|.+....+.|.+.+|
T Consensus 495 mVRsqRSGmVQTEaQYkFiY 514 (600)
T KOG0790|consen 495 MVRSQRSGMVQTEAQYKFIY 514 (600)
T ss_pred HHHHHhcchhhhHHhHHHHH
Confidence 99999999888877666665
No 75
>KOG3132 consensus m3G-cap-specific nuclear import receptor (Snurportin1) [RNA processing and modification]
Probab=97.81 E-value=0.00042 Score=69.53 Aligned_cols=156 Identities=19% Similarity=0.240 Sum_probs=108.1
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccc-cCCCCeeeeEEEEEecCCCCCCceeEEE
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGE-KTHHFTLLDGEMIIDKLPDSRRQERRYL 441 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~-~~~~~tlLDGElV~d~~~~~~~~~~~yl 441 (677)
..+|+|---.-|.|+|++..++.+.-..+++. .+ -+||.......... .....||||...--. .-+|+
T Consensus 115 sqdW~vv~~PvGKR~lvVaSrG~Tvay~k~G~--~v-~rF~S~LPGGnrr~~~a~~ytILDCIy~es--------nQTYY 183 (325)
T KOG3132|consen 115 SQDWYVVARPVGKRCLVVASRGTTVAYVKNGS--TV-HRFPSALPGGNRRKGPANSYTILDCIYHES--------NQTYY 183 (325)
T ss_pred CcceEEEEeecCceEEEEecCCceEEEecCCe--eE-eeccccCCCCCcCCCCcccceeeeeeeccc--------CceEE
Confidence 34899999999999999988887777888875 12 24664322111111 123569999854211 23799
Q ss_pred EeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHHHHHHhcccccC
Q 005797 442 IYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSH 521 (677)
Q Consensus 442 iFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~~~~l~h 521 (677)
|.|+++++|.++.+++..=|.-.|+.-+-+.-. +.+ .. ...+|......|++.+... |-..+.-.++.
T Consensus 184 VlD~~cWrgh~~yec~~dFRffwl~SKL~E~~~-----l~~-~t-----~~~~f~Fs~vp~~pC~q~~-l~~~~~~~~pf 251 (325)
T KOG3132|consen 184 VLDMVCWRGHSLYECTSDFRFFWLQSKLAETGA-----LDP-PT-----VYHKFRFSVVPFYPCDQSG-LHSAYTGSLPF 251 (325)
T ss_pred EEEEEeecCcccccCchHHHHHHHhhhcccccc-----CCC-CC-----cCccceecccCCCCCCHHH-HHHHHcCCCce
Confidence 999999999999999999999999875532211 111 11 2346777777888876533 33334457889
Q ss_pred CCceEEEEeCCCCCccCCCC
Q 005797 522 DADGLVFQGWDDPYVPRTHE 541 (677)
Q Consensus 522 ~~DGLIf~p~~spY~~G~~~ 541 (677)
..|||.|.....-|.||.+.
T Consensus 252 ~~DGLLFYhks~~yqpgqsp 271 (325)
T KOG3132|consen 252 VRDGLLFYHKSVVYQPGQSP 271 (325)
T ss_pred eeeeEEEeecceeeCCCCCc
Confidence 99999999999999999863
No 76
>KOG0792 consensus Protein tyrosine phosphatase PTPMEG, contains FERM domain [Signal transduction mechanisms]
Probab=97.61 E-value=0.00014 Score=85.83 Aligned_cols=91 Identities=20% Similarity=0.350 Sum_probs=64.4
Q ss_pred ecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHH----HHHHhc-CCCHHHHHHHHHhcCCC
Q 005797 170 QCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVH----FLMRSQ-SMSVAQAIKKFAEVRPP 244 (677)
Q Consensus 170 p~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~a----YLm~~~-~~s~~eAi~~~~~~Rp~ 244 (677)
..+|||.+-+......|++++..- + ...+.+|+|||.+|+||||++|++ ||+++. ...+-+.+..+|..|-.
T Consensus 1035 aWPDHg~P~D~~~FL~Fleevrsv-R--~~t~pPilvHCSAGiGRTGVlIl~e~~l~lle~Ne~vdi~divr~mR~QR~~ 1111 (1144)
T KOG0792|consen 1035 AWPDHGVPDDPNDFLDFLEEVRSV-R--RGTNPPILVHCSAGIGRTGVLILMETALCLLEHNEPVDILDIVRTMRDQRAM 1111 (1144)
T ss_pred ccccCCCCCChHHHHHHHHHHHHH-h--ccCCCCeEEEccCCCCcceehHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhh
Confidence 356775443455556666555432 2 233669999999999999999864 666643 35789999999999999
Q ss_pred CcCCHHHHHHHH----HHHhhcC
Q 005797 245 GIYKNEYIEALY----TFYHEKR 263 (677)
Q Consensus 245 ~i~~~~~l~~L~----~~y~~~~ 263 (677)
.|.+.+|-...+ .+|++..
T Consensus 1112 mVQT~~QYkFVyevil~~l~~~~ 1134 (1144)
T KOG0792|consen 1112 MVQTLSQYKFVYEVILRVLKRGR 1134 (1144)
T ss_pred hccchHHhhHHHHHHHHHHHhcc
Confidence 999988776654 5566543
No 77
>COG5599 PTP2 Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.52 E-value=0.00013 Score=74.49 Aligned_cols=86 Identities=21% Similarity=0.286 Sum_probs=58.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCC-----------C---HHHHHHH
Q 005797 172 KGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSM-----------S---VAQAIKK 237 (677)
Q Consensus 172 ~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~-----------s---~~eAi~~ 237 (677)
.|. ..|+...+.+++..+ ....-.+++++|||.||.||||++||.--+-+.-- + +.+.+..
T Consensus 194 ~D~-~~p~i~sl~~~~~sl----~~sp~~t~piiVHCSAGvGRTGTFIalD~ll~~~~~~~~~t~~~~~t~D~if~iV~~ 268 (302)
T COG5599 194 VDF-NVPDIRSLTEVIHSL----NDSPVRTGPIIVHCSAGVGRTGTFIALDILLRMPNDTLNHTDTWEDTQDLIFQIVLS 268 (302)
T ss_pred ccc-CCcCHHHHHHHHHHh----hcCcCCCCCEEEEeccCCCCcceeeeHHHHHhccccccCCCchhhhhhhHHHHHHHH
Confidence 454 456545555444332 21112578999999999999999999877654421 1 3345667
Q ss_pred HHhcCCCCcCCHHHHHHHHHHHhhc
Q 005797 238 FAEVRPPGIYKNEYIEALYTFYHEK 262 (677)
Q Consensus 238 ~~~~Rp~~i~~~~~l~~L~~~y~~~ 262 (677)
+|+.|-....+..|...|+....++
T Consensus 269 LRsQRmkmVQn~~Qf~flY~~~~~l 293 (302)
T COG5599 269 LRSQRMKMVQNKTQFKFLYDAFLEL 293 (302)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 7888888888999999888766554
No 78
>KOG0791 consensus Protein tyrosine phosphatase, contains fn3 domain [Signal transduction mechanisms]
Probab=97.42 E-value=0.00051 Score=73.20 Aligned_cols=94 Identities=23% Similarity=0.219 Sum_probs=71.6
Q ss_pred EEEEecCCCCCCC-CHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhc-C----CCHHHHHHHHH
Q 005797 166 HVKIQCKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-S----MSVAQAIKKFA 239 (677)
Q Consensus 166 y~~ip~~d~~~~P-~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~-~----~s~~eAi~~~~ 239 (677)
++....+|+| +| +...+.+|+..+.+.+. ...+++.|||.+|.|||||++|.--+-.+ + .+.-..+-..+
T Consensus 255 f~y~~wPd~g-vp~~~~sl~~f~~~~r~~~~---~~~~p~iVhCSAGVgRTGTFiald~LLqq~~~~~~vdi~~iv~~lR 330 (374)
T KOG0791|consen 255 FHYTAWPDFG-VPSSTESLLQFVRMVRQSLD---TSKGPTIVHCSAGVGRTGTFIALDRLLQQIDSEETVDIFGVVLELR 330 (374)
T ss_pred EEEeeccccC-CCCCchhHHHHHHHHHhhcc---cCCCceeEEeecccccccchHhHHHHHHHhcccccccHHHHHHHhh
Confidence 4445567874 55 45778888888877775 34789999999999999999998765433 2 24667788889
Q ss_pred hcCCCCcCCHHHHHHHHHHHhhcC
Q 005797 240 EVRPPGIYKNEYIEALYTFYHEKR 263 (677)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~~y~~~~ 263 (677)
+.|+....+..|...|+.=..+..
T Consensus 331 ~~R~~mVqte~Qyvfl~~c~~~~l 354 (374)
T KOG0791|consen 331 SARMLMVQTEDQYVFLHQCVLESL 354 (374)
T ss_pred hccccccchHHHHHHHHHHHHHHH
Confidence 999999999999999887666543
No 79
>TIGR01209 RNA ligase, Pab1020 family. Members of this family are found, so far, in a single copy per genome and largely in thermophiles, of which only Aquifex aeolicus is bacterial rather than archaeal. PSI-BLAST converges after a single iteration to the whole of this family and reveals no convincing similarity to any other protein. The member protein Pab1020 has been characterized as an RNA ligase with circularization activity.
Probab=97.37 E-value=0.0021 Score=69.73 Aligned_cols=162 Identities=16% Similarity=0.172 Sum_probs=92.8
Q ss_pred CCCCCCcccccchhchh-hhccCCeEEEEcccceEEEEEEECCEEEEEeCCCccccc-cCcCCCcCCCCcccccCCCCee
Q 005797 343 MQFPGSHPVSLNSDNLQ-LLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRV-QMRFPCRNSNEGLGEKTHHFTL 420 (677)
Q Consensus 343 ~~FPGsqPVsl~r~nl~-~l~~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v-~~~FP~~~~~~~~~~~~~~~tl 420 (677)
.+||--.-+-+-..-|. .+....++|+||.||..+-++..++.+++++|.+-+..- +-+++...+. .+. .-+.+.+
T Consensus 57 ~GyP~I~R~~~L~~gi~~~f~~~~v~vEEKlDG~Nvri~~~~g~l~a~tRGgyicp~tt~r~~~~~~~-~~~-~d~p~l~ 134 (374)
T TIGR01209 57 RGFPHIKRILLLRPGIKRHFKDPEVVVEEKMNGYNVRIVKYGGNVYALTRGGFICPFTTERLPDLIDL-EFF-DDNPDLV 134 (374)
T ss_pred cCCCCcceeeccchhhHHhcCCCcEEEEEeecCceEEEEeECCEEEEEccCcccCCCcHHHHHHHhhH-Hhh-ccCCCeE
Confidence 35555443322222232 234444999999999999988788899999999864310 1111111111 110 1246788
Q ss_pred eeEEEEEecCCCCC----C--ceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCC
Q 005797 421 LDGEMIIDKLPDSR----R--QERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEP 494 (677)
Q Consensus 421 LDGElV~d~~~~~~----~--~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~p 494 (677)
|=|||+--..+-.. . ....|++|||. +...-.-+|..+|.+++++.-+..
T Consensus 135 LcGE~iGpenpY~~hs~~y~~l~~~FfvFDI~--d~~t~~~L~~~er~~l~e~yglp~---------------------- 190 (374)
T TIGR01209 135 LCGEMAGPENPYTPEYYPEVKEDLGFFLFDIR--EGKTNRSLPVEERLELAEKYGLPH---------------------- 190 (374)
T ss_pred EEEEEcCCCCCCcccCccccCCCceEEEEEEE--ECCCCccCCHHHHHHHHHHCCCCc----------------------
Confidence 99999943322111 0 12479999997 455567789999999998743211
Q ss_pred cEEEecceEEchhHHHHHHHhcccc-cCCCceEEEEeCC
Q 005797 495 FRVRRKDFWLLSTVNKLLKEFIPKL-SHDADGLVFQGWD 532 (677)
Q Consensus 495 f~i~~K~~~~~~~~~~ll~~~~~~l-~h~~DGLIf~p~~ 532 (677)
|..-.-++...+..-+.+++..| .++-||+|+|+.+
T Consensus 191 --Vpvlg~~~~~~~~~~~~eii~~L~~~gREGVVlK~~~ 227 (374)
T TIGR01209 191 --VEILGVYTADEAVEEIYEIIERLNKEGREGVVMKDPE 227 (374)
T ss_pred --cceeeEEcHHHHHHHHHHHHHHhhhcCcceEEEcCcc
Confidence 11111134444331223344444 4789999999864
No 80
>COG5350 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=97.19 E-value=0.0044 Score=58.53 Aligned_cols=117 Identities=15% Similarity=0.228 Sum_probs=71.1
Q ss_pred HHHHHHHcCCCeeEEEEcCCCCCCC-Ccchhhh---CCcEEEEEecCCCC-CCCCHHHHHHHHHHHHHHHHhcccCCceE
Q 005797 130 VIHQLRVLGRKLGLVIDLTNTTRYY-PTSDLKK---EGIKHVKIQCKGRD-AVPDNASVNNFVYEVTQFLSRQKHSKKYI 204 (677)
Q Consensus 130 l~~~~~~~~~~I~~VIdLt~~~~~y-~~~~~~~---~gI~y~~ip~~d~~-~~P~~e~i~~f~~~v~~fi~~~~~~~~~V 204 (677)
.+.++..+ .+-+.+|.|.....+. .+..... .-+.+-.|...|.+ ..|..+.+.. +.+|+++.. ...++
T Consensus 23 ~~ae~~~r-h~~t~mlsl~a~~t~~~~pa~~~~erhL~l~fnDI~~~~~g~~ap~e~Hv~~----i~DF~~~wp-~~apl 96 (172)
T COG5350 23 VIAETAAR-HGPTHMLSLLAKGTYFHRPAVIAAERHLTLHFNDIAEPDDGWIAPGEAHVRA----IIDFADEWP-RFAPL 96 (172)
T ss_pred HHHHHHhh-cCCceEEEeecccccccCccccchhhceeEeeccccCCCccccCCCHHHHHH----HHHHHhcCc-cccce
Confidence 33344333 3577888887643222 3332221 11222333333332 5666665555 455666443 35689
Q ss_pred EEEcCCCCChhHHHH--HHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHH
Q 005797 205 LVHCTHGHNRTGYMI--VHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIE 253 (677)
Q Consensus 205 lVHC~~G~~RTG~li--~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~ 253 (677)
+|||.+|+|||..++ ++.-+ ...+.-.++-+.++..+|..-||+..+.
T Consensus 97 lIHC~aGISRStA~A~i~a~al-a~~~de~ela~~Lra~sp~atPN~Rlia 146 (172)
T COG5350 97 LIHCYAGISRSTAAALIAALAL-APDMDETELAERLRALSPYATPNPRLIA 146 (172)
T ss_pred eeeeccccccchHHHHHHHHhh-ccccChHHHHHHHHhcCcccCCChhHHH
Confidence 999999999986543 33333 3578899999999999999999987664
No 81
>KOG0793 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.08 E-value=0.0076 Score=68.61 Aligned_cols=87 Identities=18% Similarity=0.294 Sum_probs=62.1
Q ss_pred EEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHH----Hhc--CCCHHHHHHHHHh
Q 005797 167 VKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM----RSQ--SMSVAQAIKKFAE 240 (677)
Q Consensus 167 ~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm----~~~--~~s~~eAi~~~~~ 240 (677)
+-+...+.+.+-+...+..|-..|++... ....+|+|||..|-||||+-|+.=++ -+. .+++...++.++.
T Consensus 896 HfLSWp~egvPasarslLdFRRKVNK~YR---GRScpIiVH~sdGaGRTG~YiliDmvl~Rm~kGakeIDIaATlEHlRD 972 (1004)
T KOG0793|consen 896 HFLSWPDEGVPASARSLLDFRRKVNKCYR---GRSCPIIVHCSDGAGRTGTYILIDMVLNRMAKGAKEIDIAATLEHLRD 972 (1004)
T ss_pred eeecccccCCccchHHHHHHHHHhhhhcc---CCCCceEEEccCCCCccceeeeHHHHHHHHhccchhhhHHHHHHHHhh
Confidence 33445555444556778888888877553 45789999999999999997655443 221 2467888999999
Q ss_pred cCCCCcCCHHHHHHHH
Q 005797 241 VRPPGIYKNEYIEALY 256 (677)
Q Consensus 241 ~Rp~~i~~~~~l~~L~ 256 (677)
.||+..-..+|.+..+
T Consensus 973 QR~GmVaTkdQFef~l 988 (1004)
T KOG0793|consen 973 QRPGMVATKDQFEFAL 988 (1004)
T ss_pred cCCcceeehhhhHHHH
Confidence 9999887777666544
No 82
>KOG0789 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.05 E-value=0.0021 Score=71.39 Aligned_cols=87 Identities=17% Similarity=0.277 Sum_probs=56.2
Q ss_pred EEEecCCCCCCCC-HHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHH-Hh--c--C-CCHHHHHHHHH
Q 005797 167 VKIQCKGRDAVPD-NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM-RS--Q--S-MSVAQAIKKFA 239 (677)
Q Consensus 167 ~~ip~~d~~~~P~-~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm-~~--~--~-~s~~eAi~~~~ 239 (677)
+....+|+ .+|+ ...+..++.. .... .....+++.|||.+|.||||++++.-.+ .. . + ..+.+.+..++
T Consensus 268 ~~~~WPd~-~~p~~~~~~l~~~~~--~~~~-~~~~~~P~vVhcsaG~gRtgt~v~~~~~~~~~~~~~~~~~~~~~~~~iR 343 (415)
T KOG0789|consen 268 HYINWPDH-GAPDSVKSILPLLRQ--SVLE-LRPKQEPIEVHCSAGAGRAGTLVLIEHALIELQGPEGEPPIDEILREIR 343 (415)
T ss_pred eeCCCccc-cCCcchHHHHHHHHh--hhhh-hcCCCCCeEEECCCCCCccchHHHHHHHHHHHhcCCCCccHHHHHHHHH
Confidence 33344565 4554 3444444332 1111 1234689999999999999999975522 11 2 1 34889999999
Q ss_pred hcCCCCcCCHHHHHHHHH
Q 005797 240 EVRPPGIYKNEYIEALYT 257 (677)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~ 257 (677)
..|+.++.+..|...++.
T Consensus 344 ~qR~~~vqt~~Qy~f~~~ 361 (415)
T KOG0789|consen 344 YQRPGAVQSPLQYLFIYA 361 (415)
T ss_pred HHhhhcccchhHHHHHHH
Confidence 999999988777766553
No 83
>COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III [DNA replication, recombination, and repair]
Probab=96.58 E-value=0.039 Score=58.73 Aligned_cols=142 Identities=18% Similarity=0.152 Sum_probs=89.9
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCcccccc-CcCCCcCCCCcccccCCCCeeeeEEEEEecCCCCC-----Cc
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQ-MRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSR-----RQ 436 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~-~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~-----~~ 436 (677)
....+|.||.||.-+=++..++.+|.++|.+-+..-+ -+-+..-+..-+ ..+.+++|=||||--..|=.. +.
T Consensus 87 ~~~v~VEEKmnGYNVRV~k~~g~vyAiTRgG~ICPfTT~r~~~l~~~eff--~d~p~lvlcgEmvG~enPYv~~~~y~~e 164 (382)
T COG1423 87 RGKVVVEEKMNGYNVRVVKLGGEVYAITRGGLICPFTTERLRDLIDLEFF--DDYPDLVLCGEMVGPENPYVPGPYYEKE 164 (382)
T ss_pred CCcEEEEEeccCceEEEEEECCEEEEEecCceecCchhHHHHhhcchhhH--hhCCCcEEEEEeccCCCCCCCCCCCccC
Confidence 4589999999999888888889999999998743111 111111111111 125789999999965433111 13
Q ss_pred eeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhH-HHHHHHh
Q 005797 437 ERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTV-NKLLKEF 515 (677)
Q Consensus 437 ~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~-~~ll~~~ 515 (677)
.+-|.+||+.--+. -..+|..+|+.++++.-+. + |+.=.-++.+.+ +.+. .+
T Consensus 165 ~v~fFvFDire~~t--gr~Lp~eer~~l~ekYgl~-~-----------------------V~~fg~~~~~e~~eei~-eI 217 (382)
T COG1423 165 DVGFFVFDIREKNT--GRPLPVEERLELAEKYGLP-H-----------------------VEIFGEFPADEAGEEIY-EI 217 (382)
T ss_pred CceEEEEEEEecCC--CCCCCHHHHHHHHHHcCCC-c-----------------------eEEeeeechhHhHHHHH-HH
Confidence 46899999988553 3678999999999985421 1 222222344444 3332 34
Q ss_pred ccccc-CCCceEEEEeCCC
Q 005797 516 IPKLS-HDADGLVFQGWDD 533 (677)
Q Consensus 516 ~~~l~-h~~DGLIf~p~~s 533 (677)
+..|. .+-+|+|+|..+.
T Consensus 218 ve~L~keGREGVV~Kdpdm 236 (382)
T COG1423 218 VERLNKEGREGVVMKDPDM 236 (382)
T ss_pred HHHHhhcCCcceEecCccc
Confidence 44453 6899999997654
No 84
>PF14671 DSPn: Dual specificity protein phosphatase, N-terminal half; PDB: 1OHD_A 1OHE_A 1OHC_A.
Probab=96.33 E-value=0.01 Score=56.08 Aligned_cols=72 Identities=22% Similarity=0.320 Sum_probs=48.6
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCCh----hHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Q 005797 171 CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNR----TGYMIVHFLMRSQSMSVAQAIKKFAEVRPP 244 (677)
Q Consensus 171 ~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~R----TG~li~aYLm~~~~~s~~eAi~~~~~~Rp~ 244 (677)
..|+ .+.....+-+|+..+.+.+++... .+..+|||+..-.+ +++||+||+|-.+|||+++|++-+.+.-|+
T Consensus 38 ~~DF-GPlnL~~lyrfc~~l~~~L~~~~~-~~k~iv~yts~d~~kRaNAA~Lig~y~Vi~l~~spe~A~~~l~~~~p~ 113 (141)
T PF14671_consen 38 YADF-GPLNLAQLYRFCCKLNKKLKSPEL-KKKKIVHYTSSDPKKRANAAFLIGAYAVIYLGMSPEEAYKPLASIQPP 113 (141)
T ss_dssp SS-------HHHHHHHHHHHHHHHH-GGG-TTSEEEEEE-S-HHHHHHHHHHHHHHHHHTS---HHHHHHHHTTTT--
T ss_pred cCcC-CCccHHHHHHHHHHHHHHHcCHHh-cCCeEEEECCCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Confidence 3466 478899999999999999886543 45688888865443 689999999999999999999999887543
No 85
>KOG4228 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=94.57 E-value=0.052 Score=65.49 Aligned_cols=85 Identities=20% Similarity=0.215 Sum_probs=56.7
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHH-----HhcCCCHHHHHHHHHhcCCCC
Q 005797 171 CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM-----RSQSMSVAQAIKKFAEVRPPG 245 (677)
Q Consensus 171 ~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm-----~~~~~s~~eAi~~~~~~Rp~~ 245 (677)
.+||+.+-.+.-+.+|+..+..|- .-..++|+|||.+|.||||++|+.=-| .....++-.-+..++..|...
T Consensus 703 Wpd~gvPe~~t~lL~f~rrvk~~~---p~~aGPiVVHCSAGvGRTG~fi~iDaml~~~~~e~~vdiy~~v~~lR~QR~~m 779 (1087)
T KOG4228|consen 703 WPDHGVPETPTGLLKFRRRVKTFN---PPDAGPIVVHCSAGVGRTGCFIVIDAMLDRLECEGKVDIYGHVKTLRRQRNNM 779 (1087)
T ss_pred CCCCCCcccchHHHHHHHHhccCC---CcCCCCEEEECCCCCCCcceEEEeHHHHHHHHhhCccceechhHHHHhccccc
Confidence 566643334466777777766552 113489999999999999998754322 222346777788888888888
Q ss_pred cCCHHHHHHHHHH
Q 005797 246 IYKNEYIEALYTF 258 (677)
Q Consensus 246 i~~~~~l~~L~~~ 258 (677)
+....|--.+++.
T Consensus 780 VQt~eQYiFi~~A 792 (1087)
T KOG4228|consen 780 VQTEEQYIFIHEA 792 (1087)
T ss_pred cccHHHHHHHHHH
Confidence 7776665554443
No 86
>PF01653 DNA_ligase_aden: NAD-dependent DNA ligase adenylation domain; InterPro: IPR013839 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase: one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC). This entry represents the N-terminal adenylation domain of NAD-dependent DNA ligases. These are proteins of about 75 to 85 Kd whose sequence is well conserved [, ]. They also show similarity to yicF, an Escherichia coli hypothetical protein of 63 Kd. Despite a complete lack of detectable sequence similarity, the fold of the central core of this adenyaltion domain shares homology with the equivalent region of ATP-dependent DNA ligases [, ].; GO: 0003911 DNA ligase (NAD+) activity; PDB: 1ZAU_A 3SGI_A 1B04_A 3JSL_A 3JSN_A 1DGS_A 1V9P_A 3PN1_A 3BAC_A 3UQ8_A ....
Probab=94.08 E-value=0.69 Score=49.86 Aligned_cols=141 Identities=18% Similarity=0.182 Sum_probs=78.2
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--cccC------cCCCcCCCCcccccCCCCeeeeEEEEEecC-----
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQM------RFPCRNSNEGLGEKTHHFTLLDGEMIIDKL----- 430 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~~------~FP~~~~~~~~~~~~~~~tlLDGElV~d~~----- 430 (677)
.|+|++|.||.-+-|...++. +..++|-+-.. .++. ..|..... . .....+=||+++.+.
T Consensus 108 ~~~~e~KiDGlsi~L~Y~~G~L~~a~TRGdG~~GeDvT~n~~~i~~iP~~i~~-----~-p~~~eVRGEv~m~~~~F~~l 181 (315)
T PF01653_consen 108 EFVVEPKIDGLSISLIYENGKLVRAATRGDGEVGEDVTHNVRTIKSIPLRIPE-----K-PGRLEVRGEVYMSKSDFEKL 181 (315)
T ss_dssp EEEEEEEESSEEEEEEEETTEEEEEEEETTSSEEEB-HHHHCTSTTS-SB-SS-----S-SSEEEEEEEEE--HHHHHHH
T ss_pred ceeEeeccceeEEEEEEeCCEEEEEEEcCCCccchhHHHHHHHHhcCchhhcc-----C-CcceEEEEEEEEehhhHHHH
Confidence 699999999999988877765 57889964321 1111 11211100 0 245678899997421
Q ss_pred -------CCC---------------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccc
Q 005797 431 -------PDS---------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQ 482 (677)
Q Consensus 431 -------~~~---------------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~ 482 (677)
+.. ....+.|++|++...+| +..-....+++..|.++-+..
T Consensus 182 n~~~~~~~~~~faNpRN~aAGsLr~~d~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v---------- 250 (315)
T PF01653_consen 182 NEEREEEGEKPFANPRNAAAGSLRQKDPSITAERKLSFFAYGIGEPEG-DLGFNTQSERLQFLKEWGFPV---------- 250 (315)
T ss_dssp HHHHHHTTS---SSHHHHHHHHHTSSSHHHHHTS--EEEEEEEEEETT-STT-SBHHHHHHHHHHTT--B----------
T ss_pred HHHHHHhccchhhhhhHHHHHhhhhccchhhhcCeeEEEEEEeccccc-ccChHHHHHHHHHHHHcCCCC----------
Confidence 100 12468999999999988 333345678888887643221
Q ss_pred cCCCCccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCCC
Q 005797 483 SRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY 535 (677)
Q Consensus 483 ~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~spY 535 (677)
++. +... -.+..+...++.+ ...+.+..||||++-.+..+
T Consensus 251 --~~~---------~~~~--~~~~~v~~~~~~~~~~R~~l~y~iDGiVikvn~~~~ 293 (315)
T PF01653_consen 251 --NPY---------IRFC--KSIEEVEEYIEEWEERREELPYPIDGIVIKVNDLAL 293 (315)
T ss_dssp ---TT---------EEEE--SSHHHHHHHHHHHHHHGCCSSS-EEEEEEEESBHHH
T ss_pred --Ccc---------eEec--CCHHHHHHHHHHHHhhhhccccccCcEEEEecCHHH
Confidence 000 1111 1222333333333 35889999999999866544
No 87
>PF04179 Init_tRNA_PT: Initiator tRNA phosphoribosyl transferase ; InterPro: IPR007306 This enzyme (2.4.2 from EC) modifies exclusively the initiator tRNA in position 64 using 5'-phosphoribosyl-1'-pyrophosphate as the modification donor. As the initiator tRNA participates both in the initiation and elongation of translation, the 2'-O-ribosyl phosphate modification discriminates the initiator tRNAs from the elongator tRNAs. ; GO: 0016763 transferase activity, transferring pentosyl groups
Probab=94.06 E-value=0.81 Score=51.57 Aligned_cols=114 Identities=14% Similarity=0.216 Sum_probs=77.1
Q ss_pred CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccC--CceEEEEcCCCCChhH
Q 005797 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHS--KKYILVHCTHGHNRTG 216 (677)
Q Consensus 139 ~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~--~~~VlVHC~~G~~RTG 216 (677)
.....||+++.+. +..... .....|+++++.+. -. ...++...+..+..|+...... +..|+|+|..|...|.
T Consensus 317 ~~~~~vI~~s~~~--~~~~~~-~~~~~~L~l~i~~~-K~-gs~~LR~~LP~i~~fv~~~L~~~~~~~iLV~C~sGkDlSV 391 (451)
T PF04179_consen 317 SEFDCVINCSESP--TPKESW-PKSPKYLHLPIPSS-KK-GSRDLRKALPKICSFVRSHLSSDPGKPILVCCDSGKDLSV 391 (451)
T ss_pred CCcCEEEEcCCCc--cccccc-CCCceEEeCcCCCC-cc-cHHHHHHHHHHHHHHHHHHhcccCCCcEEEEcCCcchHHH
Confidence 4566788887432 111122 24678999999864 33 4467888888889998866444 7899999999999999
Q ss_pred HHHHHHHHHhcCC--C--------------HHHHHHHHHhcCCCCcCCHHHHHHHHH
Q 005797 217 YMIVHFLMRSQSM--S--------------VAQAIKKFAEVRPPGIYKNEYIEALYT 257 (677)
Q Consensus 217 ~li~aYLm~~~~~--s--------------~~eAi~~~~~~Rp~~i~~~~~l~~L~~ 257 (677)
-++.|.|+...+- . +..-+.++.+.+|.+.|..+-+++...
T Consensus 392 gVaLaILc~~Fd~~g~~~~~~~~~~itK~~IR~rL~~I~~~~p~aNPSRaTLqsVNs 448 (451)
T PF04179_consen 392 GVALAILCKLFDDDGNFRDSFERPSITKDDIRQRLAWIISSRPDANPSRATLQSVNS 448 (451)
T ss_pred HHHHHHHHHhcCcccCcccccccCCCCHHHHHHHHHHHHHhCCCCCCCHHHHHHHHH
Confidence 9999999876542 1 234455555555655555555555443
No 88
>KOG4228 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=92.90 E-value=0.17 Score=61.31 Aligned_cols=81 Identities=21% Similarity=0.301 Sum_probs=57.1
Q ss_pred CCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHH----HhcC-CCHHHHHHHHHhcCCCCcCCHHH
Q 005797 177 VPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM----RSQS-MSVAQAIKKFAEVRPPGIYKNEY 251 (677)
Q Consensus 177 ~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm----~~~~-~s~~eAi~~~~~~Rp~~i~~~~~ 251 (677)
+|.......++..+.+-.+. ..+.+++.|||..|.+|||+++|+-++ +..+ +++=+|++.++..||..+...++
T Consensus 995 ~p~~~~~~~~i~~~~~~~q~-~~~~~P~~Vhc~nG~~rsg~f~ai~~l~e~~~~e~~vDVfq~vk~Lr~~rp~mv~t~~Q 1073 (1087)
T KOG4228|consen 995 PPQSKGPISKIPSVASKWQQ-LGADGPIIVHCLNGVGRTGTFCAISILLERMRKEGVVDVFQTVKTLRFQRPGMVDTSDQ 1073 (1087)
T ss_pred CCCCcchhhhHHHHHHHHHh-hcCCCCEEEEEcCCCcceeehHHHHHHHHHHhhcCceeeehhhhhhhhcCccccCcHHH
Confidence 44433333334444333332 233789999999999999999877654 3334 47889999999999999998888
Q ss_pred HHHHHHH
Q 005797 252 IEALYTF 258 (677)
Q Consensus 252 l~~L~~~ 258 (677)
.+.+|+-
T Consensus 1074 Y~fcYdv 1080 (1087)
T KOG4228|consen 1074 YQFCYDV 1080 (1087)
T ss_pred HHHHHHH
Confidence 8777654
No 89
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=91.72 E-value=7 Score=46.50 Aligned_cols=162 Identities=15% Similarity=0.182 Sum_probs=87.0
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc--C-cCCCcCCCCcccccCCCCeeeeEEEEEecCC-------
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--M-RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~--~-~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~------- 431 (677)
.|+|++|.||.-+-|...++. +..++|-+-.. .++ + ..+.. +..+.........+-||+++.+..
T Consensus 109 ~~~~epKiDGlsisL~Y~~G~L~~a~TRGDG~~GeDvT~n~~~I~~I--P~~l~~~~p~~levRGEv~m~~~~F~~lN~~ 186 (665)
T PRK07956 109 TYLCELKIDGLAVSLLYENGVLVRAATRGDGTTGEDITANVRTIRSI--PLRLHGNEPERLEVRGEVFMPKADFEALNEE 186 (665)
T ss_pred ceEEEEecccEEEEEEEECCEEEEEEecCCCccchhHhhhhhhhccC--ChhhcccCCCeEEEEEEEEEEHHHHHHHHHH
Confidence 599999999999987777654 57789954321 111 1 11100 001100112236789999974311
Q ss_pred -----C-----C----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCC
Q 005797 432 -----D-----S----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRN 485 (677)
Q Consensus 432 -----~-----~----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~ 485 (677)
+ . ....+.|++|++...++ ........+++..|.++-+.- +
T Consensus 187 ~~~~g~~~faNpRNaaAGslr~ld~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v------------~ 253 (665)
T PRK07956 187 RREEGEKPFANPRNAAAGSLRQLDPKITAKRPLSFFAYGVGEVEG-GELPDSQSEALEFLKAWGFPV------------N 253 (665)
T ss_pred HHhcCCCcccChHHHHhhhhhccChHHHhcCCCEEEEEecccccC-CCCCCCHHHHHHHHHHCCCCc------------C
Confidence 0 0 02457899999864431 111235677888887743211 0
Q ss_pred CCccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCC------CccCCCCCeEEEccCCCc
Q 005797 486 PYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDP------YVPRTHEGLLKWKYARMN 552 (677)
Q Consensus 486 p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~sp------Y~~G~~~~lLKWKp~~~n 552 (677)
+...... .+..+...++.+ ...+++..||||++-.+.. |..+....-+=||+|...
T Consensus 254 --------~~~~~~~---~~~ei~~~~~~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~t~~~PrWaiA~Kf~~~~ 318 (665)
T PRK07956 254 --------PYRKLCT---SIEEVLAFYEEIEEERHDLPYDIDGVVIKVDDLALQEELGFTAKAPRWAIAYKFPAEE 318 (665)
T ss_pred --------CceEeeC---CHHHHHHHHHHHHHhhccCCCCCCcEEEEecCHHHHHhcCccCCCCCceeEecCCCce
Confidence 1111111 122333333333 4678899999999976533 333334456667777554
No 90
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=91.51 E-value=7.7 Score=46.10 Aligned_cols=159 Identities=16% Similarity=0.133 Sum_probs=84.8
Q ss_pred CCeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc--Cc----CCCcCCCCcccccCCCCeeeeEEEEEecC----
Q 005797 364 RYYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--MR----FPCRNSNEGLGEKTHHFTLLDGEMIIDKL---- 430 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~--~~----FP~~~~~~~~~~~~~~~tlLDGElV~d~~---- 430 (677)
..|+|++|.||.-+-|...++. +..++|-+-.. .++ ++ .|.. +. ......+-||+++.+.
T Consensus 110 ~~~~~epKiDGlaisL~YenG~L~~a~TRGDG~~GEDVT~n~~~I~~IP~~-----l~--~~~~levRGEv~m~~~~F~~ 182 (669)
T PRK14350 110 FGISVEPKIDGCSIVLYYKDGILEKALTRGDGRFGNDVTENVRTIRNVPLF-----ID--EKVELVLRGEIYITKENFLK 182 (669)
T ss_pred ceEEEEEecccEEEEEEEECCEEEEEEecCCCCcchhHhhhhhhhcccchh-----cC--CCceEEEEEEEEeeHHHHHH
Confidence 3699999999999988777654 57889954321 111 11 1211 10 0123678899997431
Q ss_pred -----------CCC--------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCC
Q 005797 431 -----------PDS--------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRN 485 (677)
Q Consensus 431 -----------~~~--------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~ 485 (677)
+.+ ....+.|++|++...++ ......++++.|+++-+.. +
T Consensus 183 lN~~~~~~faNpRNaaAGsLr~~d~~~~a~r~L~f~~y~~~~~~~---~~~t~~e~l~~L~~~GF~v------------~ 247 (669)
T PRK14350 183 INKTLEKPYTNARNLASGILRRIDSREVANFPLDIFVYDILYSSL---ELKTNHDAFDKLKKFGFKV------------N 247 (669)
T ss_pred HHHhhhccCCChhHHHHHHHHccCchhhhcCceEEEEEEcccCCC---CCCCHHHHHHHHHHCCCCC------------C
Confidence 100 12357899999853222 1235678888887743221 0
Q ss_pred CCccCCCCCcEEEecceEEchhHHHHHH---HhcccccCCCceEEEEeCCCC------CccCCCCCeEEEccCCCc
Q 005797 486 PYYRYDLEPFRVRRKDFWLLSTVNKLLK---EFIPKLSHDADGLVFQGWDDP------YVPRTHEGLLKWKYARMN 552 (677)
Q Consensus 486 p~~~~~~~pf~i~~K~~~~~~~~~~ll~---~~~~~l~h~~DGLIf~p~~sp------Y~~G~~~~lLKWKp~~~n 552 (677)
|........-.+..+...++ .....++++.||||++-.+.- |..+....-+=||++...
T Consensus 248 --------~~~~~~~~~~~~~e~~~~~~~~~~~R~~l~y~iDGiViKvn~~~~q~~lG~ts~~PrWaiA~Kf~~~~ 315 (669)
T PRK14350 248 --------PFCRFFDGKNSIEEILNYVKDIEKKRNSFEYEIDGVVLKVSDFALREILGYTSHHPKWSMAYKFESLS 315 (669)
T ss_pred --------cceEEEcCCCcHHHHHHHHHHHHHHHhcCCCCCCcEEEEecCHHHHHhcCCcCCCCCceEEEcCCCce
Confidence 11011000000111222222 234578899999999985542 333333455667776554
No 91
>PF09414 RNA_ligase: RNA ligase; InterPro: IPR021122 This entry represents the RNA ligase domain. RNA ligase enzyme repairs RNA strand breaks in nicked DNA:RNA and RNA:RNA but not in DNA:DNA duplexes []. Members of this RNA ligase family include: RNA editing ligase 1 (REL1) , which is essential for RNA editing and may be active in U-deletion editing [, , ]. RNA editing ligase 2 (REL2), which may be active in U-insertion editing []. RnlB RNA ligase 2 (or Rnl2), second RNA ligase of Enterobacteria phage T4 (Bacteriophage T4); unlike RNA ligase 1, RnlB prefers doule stranded substrates [, ]. ; PDB: 2HVS_B 2HVR_A 1S68_A 2HVQ_A 1XDN_A.
Probab=91.28 E-value=0.44 Score=46.93 Aligned_cols=102 Identities=17% Similarity=0.224 Sum_probs=53.7
Q ss_pred CeEEEEcccceEEEEEEECC-EEEEEeCCCccccccCcCCCcC-----------------CCCccc-ccCCCCeeeeEEE
Q 005797 365 YYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFPCRN-----------------SNEGLG-EKTHHFTLLDGEM 425 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~-~vyLidR~~~~~~v~~~FP~~~-----------------~~~~~~-~~~~~~tlLDGEl 425 (677)
.|+|+||.||+-+-+++..+ .+.+-.|+..+. ....|.... ....+. .....+.+|=||+
T Consensus 2 e~vvtEKldGtn~~i~~~~~~~~~~~~R~~~l~-~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~GE~ 80 (186)
T PF09414_consen 2 EVVVTEKLDGTNFSIYFDNDGRVRFQSRSHILD-PNEDFFGYQSGDNRYWAQARWLFELLKLAELASELLPENIIIYGEL 80 (186)
T ss_dssp EEEEEEE-SSEEEEEEEEECTCEEEEETTEE---TT---TTCHHHHHHCHHHHHHHHHHHHHHCCEC----SEEEEEEEE
T ss_pred eEEEEEEeCCccEEEEEeCCCceeEeccccccC-ccccccccccchHHHHHHHHHHHhhhhhhhhcccccceEEEEEEEe
Confidence 68999999999998888654 477777776321 111111000 000000 0123455666999
Q ss_pred EE--ecCCCCCC--c-eeEEEEeEEeecCCc-cccCCCHHHHHHHHHH
Q 005797 426 II--DKLPDSRR--Q-ERRYLIYDMMAINQA-SVIERPFYERWKMLEK 467 (677)
Q Consensus 426 V~--d~~~~~~~--~-~~~yliFDiL~~~G~-~l~~~pf~eR~~~L~~ 467 (677)
+- ........ . ...|++|||...+.. ...-+++.+...+++.
T Consensus 81 ~G~~~~Iq~~~~~~~~~~~F~~Fdi~~~~~~~~~~~l~~~~~~~~~~~ 128 (186)
T PF09414_consen 81 VGAKPSIQKNRYQLDPPKDFYVFDIYDIDEQGEIRYLSWDEVREFAEE 128 (186)
T ss_dssp ECEECTTCSS----ECCCEEEEEEEEEEETCCGEEE-HHHHHHHHHCC
T ss_pred eeecccccccccccCCCceEEEEEEEEcCCCCeeEECCHHHHHHHHHH
Confidence 96 32222211 1 578999999998533 3344566666655544
No 92
>cd00114 LIGANc NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction mechanism. The enzyme reacts with the cofactor to form a phosphoamide-linked AMP with the amino group of a conserved Lysine in the KXDG motif, and subsequently transfers it to the DNA substrate to yield adenylated DNA. This alignment contains members of the NAD+ dependent subfamily only.
Probab=91.05 E-value=5.7 Score=42.72 Aligned_cols=160 Identities=17% Similarity=0.119 Sum_probs=86.2
Q ss_pred CCeEEEEcccceEEEEEEECCE-EEEEeCCCccc--cccCcCCCcCC-CCcccccCCCCeeeeEEEEEecC---------
Q 005797 364 RYYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQMRFPCRNS-NEGLGEKTHHFTLLDGEMIIDKL--------- 430 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~~~FP~~~~-~~~~~~~~~~~tlLDGElV~d~~--------- 430 (677)
..|+|++|.||.-+-|...++. +..++|-+-.. .|+..-....+ +..+. .......+=||+++.+.
T Consensus 101 ~~~~vepKiDGlsisL~Y~~G~L~~a~TRGdG~~GeDVT~nv~~I~~IP~~i~-~~~~~levRGEv~m~~~~F~~~n~~~ 179 (307)
T cd00114 101 PAYVVEPKIDGLSISLRYENGVLVQAATRGDGTTGEDVTENVRTIRSIPLTLA-GAPETLEVRGEVFMPKADFEALNKER 179 (307)
T ss_pred CcEEEEEeccceEEEEEEECCEEEEEEecCCCcchhhHHhhHhhhcccChhhc-CCCCeEEEEEEEEEEHHHHHHHHHHH
Confidence 3799999999999987777654 57899954311 11100000000 01110 00224678999997431
Q ss_pred ----------CC-----------C---CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCC
Q 005797 431 ----------PD-----------S---RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNP 486 (677)
Q Consensus 431 ----------~~-----------~---~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p 486 (677)
+. . ....+.|++|++...++.. .....+++..|+++-+.. ++
T Consensus 180 ~~~~~~~faNpRNaaAGsLr~ld~~~~~~r~L~f~~y~~~~~~~~~--~~t~~e~l~~L~~~GF~v------------~~ 245 (307)
T cd00114 180 EERGEKPFANPRNAAAGSLRQLDPKITAKRPLRFFIYGLGEAEGLG--PKTQSEALAFLKEWGFPV------------SP 245 (307)
T ss_pred HHcCCCCccChHHHHHHHHHhcCcchhhcCcceEEEEecccccCCC--CCCHHHHHHHHHHCCCCC------------CC
Confidence 00 0 0245789999986544312 246788888888743221 11
Q ss_pred CccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCCCc--cCC----CCCeEEEccC
Q 005797 487 YYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPYV--PRT----HEGLLKWKYA 549 (677)
Q Consensus 487 ~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~spY~--~G~----~~~lLKWKp~ 549 (677)
.....+ .+..+...++.+ ...+.+..||||++-.+..+. .|. ...-+=||+|
T Consensus 246 --------~~~~~~---~~~ev~~~~~~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~tsk~PrWaiA~Kf~ 306 (307)
T cd00114 246 --------ETRLCK---NIEEVLAFYDEIEAKRDSLPYEIDGVVVKVDDLALQRELGFTSKAPRWAIAYKFP 306 (307)
T ss_pred --------CeEEeC---CHHHHHHHHHHHHHhhhcCCCCCCcEEEEEeCHHHHHHhCccCCCCCceEEeCCC
Confidence 111111 123333333333 467889999999998665442 222 2345556654
No 93
>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=90.36 E-value=12 Score=44.53 Aligned_cols=160 Identities=17% Similarity=0.188 Sum_probs=87.4
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc--C----cCCCcCCCCcccc-cCCCCeeeeEEEEEecC----
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--M----RFPCRNSNEGLGE-KTHHFTLLDGEMIIDKL---- 430 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~--~----~FP~~~~~~~~~~-~~~~~tlLDGElV~d~~---- 430 (677)
.|+|++|.||.-+-|...++. +..++|-+-.. .++ + ..|.. +.. .......+-||+++.+.
T Consensus 97 ~~~~epKiDGlaisL~Ye~G~L~~a~TRGDG~~GeDvT~nv~~I~~iP~~-----i~~~~~p~~levRGEv~m~~~~F~~ 171 (652)
T TIGR00575 97 EYVVEPKIDGLSVSLTYENGVLVRALTRGDGTVGEDVTANVRTIRSIPLR-----LAGDNPPERLEVRGEVFMPKEDFEA 171 (652)
T ss_pred eEEEEEeccceEEEEEEECCEEEEEEecCCCccchhHhhhhhhhcccchh-----hcCCCCCceEEEEEEEEEEHHHHHH
Confidence 699999999999988777654 57889954311 111 1 11211 100 01223678899997421
Q ss_pred --------CC-----C----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhccccc
Q 005797 431 --------PD-----S----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIY 481 (677)
Q Consensus 431 --------~~-----~----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~ 481 (677)
+. . ....+.|++|++.. +.........+++..|.++-+.-
T Consensus 172 ~N~~~~~~g~~~faNpRN~aAGslr~ld~~~~~~r~L~~~~y~~~~--~~~~~~~t~~e~l~~L~~~GF~v--------- 240 (652)
T TIGR00575 172 LNEERREQGEKPFANPRNAAAGSLRQLDPRITAKRKLRFFAYGLGE--GLELPDATQYEALAWLKKWGFPV--------- 240 (652)
T ss_pred HHHHHHHcCCCCCCCcHHHHHHHHHcCCchhhhcCccEEEEEeccc--cCCCCCCCHHHHHHHHHHCCCCC---------
Confidence 00 0 12457899999853 22222246677888887743211
Q ss_pred ccCCCCccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCCC------ccCCCCCeEEEccCCCc
Q 005797 482 QSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY------VPRTHEGLLKWKYARMN 552 (677)
Q Consensus 482 ~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~spY------~~G~~~~lLKWKp~~~n 552 (677)
+ +....... +..+...++.+ ...+++..||||++-.+.++ ..+....-+=||+|...
T Consensus 241 ---~--------~~~~~~~~---~~ei~~~~~~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~t~~~PrwaiA~Kf~~~~ 306 (652)
T TIGR00575 241 ---S--------PHIRLCDS---IEEVLEYYREIEEKRDSLPYEIDGVVVKVDDLALQDELGFTSKAPRWAIAYKFPAEE 306 (652)
T ss_pred ---C--------CCeEeeCC---HHHHHHHHHHHHHhhhcCCCCCCcEEEEecCHHHHHHhCccCCCCCceEEEcCCCce
Confidence 1 11111111 22222222322 46788999999999866554 22223456777877654
Q ss_pred eE
Q 005797 553 SV 554 (677)
Q Consensus 553 TV 554 (677)
-+
T Consensus 307 ~~ 308 (652)
T TIGR00575 307 AQ 308 (652)
T ss_pred ee
Confidence 33
No 94
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=90.17 E-value=8.8 Score=45.82 Aligned_cols=157 Identities=15% Similarity=0.153 Sum_probs=86.3
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc--C----cCCCcCCCCcccccCCCCeeeeEEEEEecC-----
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--M----RFPCRNSNEGLGEKTHHFTLLDGEMIIDKL----- 430 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~--~----~FP~~~~~~~~~~~~~~~tlLDGElV~d~~----- 430 (677)
.|++++|.||+=+-|...++. +..++|-+-.. .++ + ..|.. +.........+=||+++.+.
T Consensus 133 ~~~~epKiDGlaisL~Ye~G~L~~a~TRGDG~~GeDVT~nv~~I~~IP~~-----l~~~~p~~levRGEv~m~~~~F~~l 207 (689)
T PRK14351 133 EYVCEPKFDGLSVEVVYEDGEYQRAATRGDGREGDDVTANVRTIRSVPQK-----LRGDYPDFLAVRGEVYMPKDAFQAY 207 (689)
T ss_pred eEEEEEecccEEEEEEEECCEEEEEEecCCCCcceeHhhhhhhhcccchh-----hcccCCCeEEEEEEEEEEHHHHHHH
Confidence 699999999999988877664 57889954321 111 1 01211 10001123567899997431
Q ss_pred -------CC------------C---------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccc
Q 005797 431 -------PD------------S---------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQ 482 (677)
Q Consensus 431 -------~~------------~---------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~ 482 (677)
+. . ....+.|++|++...++. .....+++..|.++-+.-
T Consensus 208 N~~~~~~g~~~faNpRN~aAGslR~ldp~~~~~r~L~f~~y~~~~~~~~---~~t~~e~l~~L~~~GF~v---------- 274 (689)
T PRK14351 208 NRERIERGEEPFANPRNAAAGTLRQLDPSVVAERPLDIFFFDVLDASEL---FDSHWEELERFPEWGLRV---------- 274 (689)
T ss_pred HHHHHHcCCCCcCCHHHHHhhHhhccChHHHhcCCceEEEEecccCCCC---CCCHHHHHHHHHHCCCCc----------
Confidence 10 0 024578999998654431 235677888887643211
Q ss_pred cCCCCccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCCC------ccCCCCCeEEEccCCCc
Q 005797 483 SRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY------VPRTHEGLLKWKYARMN 552 (677)
Q Consensus 483 ~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~spY------~~G~~~~lLKWKp~~~n 552 (677)
+ +....... +..+....+.+ ...+++..||||++-.+..+ ..+....-+=||++...
T Consensus 275 --~--------~~~~~~~~---~~~~~~~~~~~~~~R~~l~y~iDGiViKvn~~~~q~~lG~ts~~PrWaiA~Kf~~~~ 340 (689)
T PRK14351 275 --T--------DRTERVDD---IDDAIAYRDRLLAARDDLNYEIDGVVIKVDDRDAREELGATARAPRWAFAYKFPARA 340 (689)
T ss_pred --C--------CceEeeCC---HHHHHHHHHHHHHhhhcCCCCCceEEEEeCCHHHHHHhCccCCCCCceEEEcCCCce
Confidence 0 10111111 12222222222 35788999999999866544 33333456677777553
No 95
>smart00532 LIGANc Ligase N family.
Probab=88.97 E-value=4.7 Score=45.55 Aligned_cols=158 Identities=18% Similarity=0.163 Sum_probs=88.1
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc--C----cCCCcCCCCcccccCCCCeeeeEEEEEecC-----
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--M----RFPCRNSNEGLGEKTHHFTLLDGEMIIDKL----- 430 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~--~----~FP~~~~~~~~~~~~~~~tlLDGElV~d~~----- 430 (677)
.|+|++|.||.-+-|...++. +..++|-+-.. .++ + ..|.. +.........+-||+++.+.
T Consensus 104 ~~~~epKiDGlsisL~Ye~G~l~~a~TRGDG~~GeDVT~nv~~i~~iP~~-----i~~~~p~~leiRGEv~~~~~~F~~l 178 (441)
T smart00532 104 AYVVEPKIDGLSVSLLYENGKLVQAATRGDGTVGEDVTQNVKTIRSIPLR-----LSGDVPERLEVRGEVFMPKEDFLAL 178 (441)
T ss_pred eEEEEEecccEEEEEEEECCEEEEEEecCCCCcceehhhhhhhhcCcChh-----hcccCCCeEEEEceEEEEHHHHHHH
Confidence 699999999999987777665 67899954321 111 0 11211 10001223678899998532
Q ss_pred -------C-----CC----------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccc
Q 005797 431 -------P-----DS----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQ 482 (677)
Q Consensus 431 -------~-----~~----------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~ 482 (677)
+ +. ....+.|++|++...++... .....+++..|.++-+..
T Consensus 179 n~~~~~~g~~~faNpRN~aAG~lr~ld~~~~~~r~L~~~~y~~~~~~~~~~-~~t~~e~l~~L~~~GF~v---------- 247 (441)
T smart00532 179 NEELEEEGEKPFANPRNAAAGSLRQLDPRITAKRKLRAFFYGLGTGEELFL-PKTQSEALKWLKELGFPV---------- 247 (441)
T ss_pred HHHHHhcCCCcccChHHHHHHHHHhcCchhhhhccceEEEEEcccCCCCCC-ccCHHHHHHHHHHCCCCC----------
Confidence 0 00 01357899999864443211 235678888887743211
Q ss_pred cCCCCccCCCCCcEEEecceEEchhHHHHHHHh---cccccCCCceEEEEeCCCCCcc--CC----CCCeEEEccCCC
Q 005797 483 SRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPYVP--RT----HEGLLKWKYARM 551 (677)
Q Consensus 483 ~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~~~---~~~l~h~~DGLIf~p~~spY~~--G~----~~~lLKWKp~~~ 551 (677)
+ ++....+. +..+....+.+ ...+.+..||||++-.+..+.- |. ...-+=||++..
T Consensus 248 --~--------~~~~~~~~---~~ei~~~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~lG~ts~~PrwaiA~Kf~~~ 312 (441)
T smart00532 248 --S--------PHTRLCKN---ADEVIEYYEEWEEKRAELPYEIDGVVVKVDDLALQRELGFTSKAPRWAIAYKFPAE 312 (441)
T ss_pred --C--------CCeEeeCC---HHHHHHHHHHHHHhcccCCCCcCcEEEEecCHHHHHHhCccCCCCCeeEEECCCCc
Confidence 1 11111111 22233333322 3578899999999987766543 42 345666777654
No 96
>PHA02142 putative RNA ligase
Probab=87.91 E-value=5.4 Score=43.71 Aligned_cols=104 Identities=13% Similarity=0.094 Sum_probs=57.0
Q ss_pred ccCCeEEEEcccceEEEEEEEC---------------------CEEEEEeCCCccccc--cCcCCCcCCCCccccc---C
Q 005797 362 RQRYYYATWKADGTRYMMLITI---------------------DGCYLIDRCFNFRRV--QMRFPCRNSNEGLGEK---T 415 (677)
Q Consensus 362 ~~~~Y~V~eK~DG~R~ll~i~~---------------------~~vyLidR~~~~~~v--~~~FP~~~~~~~~~~~---~ 415 (677)
+...|.+|+|.||+-+-+|... +...+-+|++..... +...- .....++.+. .
T Consensus 167 ~~~~f~~TeKLDGsS~tvy~~~~~~~~~~~~~~~~~~~~~~~~~~~gv~srn~~l~~~~~~~~W~-~a~~~~i~~~l~~~ 245 (366)
T PHA02142 167 ADVKFAKSLKLDGSSITMAWVTDPDLFLDLGTEDEPYAHDYDDAQFIVASRNQVLRYNADSKWWK-GVENYQIVDRLKEL 245 (366)
T ss_pred cCceEEEEEEecceeEEEEEecCCcccccccccccccccccCCCceeEeeccccccccCCchHHH-HHHHcCcHHHHHhh
Confidence 3568999999999999888541 122333455431100 00000 0000011111 1
Q ss_pred CCCeeeeEEEEEecCCCCCC--ceeEEEEeEEeecCCccccCCCHHHHHHHHHHH
Q 005797 416 HHFTLLDGEMIIDKLPDSRR--QERRYLIYDMMAINQASVIERPFYERWKMLEKE 468 (677)
Q Consensus 416 ~~~tlLDGElV~d~~~~~~~--~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~ 468 (677)
..+.-+=||++--...++.. ....|++||+..++++. =+++.++..++++.
T Consensus 246 ~~~iaIqGEl~Gp~IQ~N~~~~~~~~F~vF~v~~i~~~~--yl~~~e~~~~~~~~ 298 (366)
T PHA02142 246 GMSVAIQGELMGPGIQKNRENFDKYRIFAFRAWFIDEQR--FATDEEFQDLCRTL 298 (366)
T ss_pred CCcEEEEEEEecccccCccccCCCCceEEEEEEEeccce--eCCHHHHHHHHHHc
Confidence 24667899999643322111 23589999998777653 56777887777763
No 97
>TIGR02307 RNA_lig_RNL2 RNA ligase, Rnl2 family. Members of this family ligate (seal breaks in) RNA. Members so far include phage proteins that can counteract a host defense of cleavage of specific tRNA molecules, trypanosome ligases involved in RNA editing, but no prokaryotic host proteins.
Probab=87.88 E-value=3.2 Score=44.78 Aligned_cols=107 Identities=13% Similarity=0.046 Sum_probs=60.2
Q ss_pred hccCCeEEEEcccceEEEEEEECC-EEEEEeCCCccccccCcCC--C-cCCC----C---c-cccc---CCCCeeeeEEE
Q 005797 361 LRQRYYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFP--C-RNSN----E---G-LGEK---THHFTLLDGEM 425 (677)
Q Consensus 361 l~~~~Y~V~eK~DG~R~ll~i~~~-~vyLidR~~~~~~v~~~FP--~-~~~~----~---~-~~~~---~~~~tlLDGEl 425 (677)
|....|+|+||.||.-+=++++++ .+-.-.|++.+..-...|- . .... . . +... .....++=||+
T Consensus 22 l~~~ewvatEKlhGaNfsi~~~~~~~i~~akR~~~l~~~e~f~G~~~i~~~l~~~~~~l~~~l~~~~~~~~~~v~IyGEl 101 (325)
T TIGR02307 22 LGLTEWVAREKIHGTNFSIIIERDFKVTCAKRTGIILPNEDFFGYHILIKNYTASVKAIQDILETKAIIVVVSVQVFGEL 101 (325)
T ss_pred cCCceEEEEEEecCcceEEEEeCCceEEEeecccccCcccccccHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEEEe
Confidence 555699999999999999888877 7777888865432111111 0 0000 0 0 0000 12446788999
Q ss_pred EEecCCCCC-CceeEEEEeEEeecCCccccCCCHHHHHHHHHH
Q 005797 426 IIDKLPDSR-RQERRYLIYDMMAINQASVIERPFYERWKMLEK 467 (677)
Q Consensus 426 V~d~~~~~~-~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~ 467 (677)
+.-...... .....|++|||.........=+++.+-...+.+
T Consensus 102 ~G~~~q~~~~Y~~~~fyaFdI~~~~~~~~~~L~~d~~~e~~~~ 144 (325)
T TIGR02307 102 AGPGYQKPVVYSDKDFYAFDIKYTETSDDVTLVDDYMMESFCN 144 (325)
T ss_pred ecCcccCccccccccEEEEEEEEeccCcceEecHHHHHHHHHH
Confidence 854332211 113589999996642212344566655555544
No 98
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=87.84 E-value=19 Score=41.90 Aligned_cols=158 Identities=15% Similarity=0.169 Sum_probs=85.8
Q ss_pred CeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc---CcCCCcCCCCcccccCCCCeeeeEEEEEecCC-------
Q 005797 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ---MRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (677)
Q Consensus 365 ~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~---~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~------- 431 (677)
.|++++|.||.=+-|...++. +..++|-+-.. .++ ..++.. +..+. .......+-||+++....
T Consensus 119 ~~~vepKiDGlsisL~Ye~G~Lv~a~TRGDG~~GEDVT~nv~~I~~I--P~~l~-~~~~~levRGEv~m~~~~F~~~~~g 195 (562)
T PRK08097 119 DLWVQPKVDGVAVTLVYRDGKLVQAISRGNGLKGEDWTAKARLIPAI--PQQLP-GALANLVLQGELFLRREGHIQQQMG 195 (562)
T ss_pred ceEEEEecccEEEEEEEECCEEEEEEecCCCccchhHHhhHhhhccc--chhhc-CCCCeEEEEEEEEEeHHHHHHHhcC
Confidence 599999999999988777654 57889954321 111 011100 01110 001236789999974311
Q ss_pred ----CC-------------CCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCCC
Q 005797 432 ----DS-------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEP 494 (677)
Q Consensus 432 ----~~-------------~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~p 494 (677)
.+ ....+.|++|++. +| .....+++..|++.-+.- ++ .
T Consensus 196 ~aNPRN~AAGsLr~~d~~~~~r~L~~f~y~~~--~~----~~t~~e~l~~L~~~GF~v------------~~-------~ 250 (562)
T PRK08097 196 GINARAKVAGLMMRKDPSPTLNQIGVFVWAWP--DG----PASMPERLAQLATAGFPL------------TQ-------R 250 (562)
T ss_pred cCCchHHHhHHHhhcCcHhhhccceEEEEECC--CC----CCCHHHHHHHHHHCCCCc------------Cc-------c
Confidence 00 0134679999973 44 235677888887643210 11 0
Q ss_pred cEEEecceEEchhHHHHHHHh-cccccCCCceEEEEeCCCCCccCC----CCCeEEEccCCCce
Q 005797 495 FRVRRKDFWLLSTVNKLLKEF-IPKLSHDADGLVFQGWDDPYVPRT----HEGLLKWKYARMNS 553 (677)
Q Consensus 495 f~i~~K~~~~~~~~~~ll~~~-~~~l~h~~DGLIf~p~~spY~~G~----~~~lLKWKp~~~nT 553 (677)
+..... .+..+....+.+ ...+.++.||||++-.+..|.-|. ...-+=||++...-
T Consensus 251 ~~~~~~---~~~~i~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~~ts~~PrWAiAyKf~~~~~ 311 (562)
T PRK08097 251 YTHPVK---NAEEVARWRERWYRAPLPFVTDGVVVRQAKEPPGRYWQPGQGEWAVAWKYPPVQQ 311 (562)
T ss_pred ceEeeC---CHHHHHHHHHHHhhccCCCCCCcEEEEecCHHHHhhccCCCCCceEEEcCCCcEE
Confidence 111111 122333333332 357789999999998776665442 23456667765543
No 99
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=87.44 E-value=1.8 Score=48.77 Aligned_cols=96 Identities=23% Similarity=0.276 Sum_probs=59.9
Q ss_pred CCCeeeeEEEEEecCCCCCC-ce-eEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccccccCCCCccCCCC
Q 005797 416 HHFTLLDGEMIIDKLPDSRR-QE-RRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLE 493 (677)
Q Consensus 416 ~~~tlLDGElV~d~~~~~~~-~~-~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~ 493 (677)
+.+|+|=-++|..-.+.+.. +. -..-|.|+++++|.+|.++||.+|..+.++++..-.+ |. +..+.
T Consensus 634 Pr~t~l~v~iv~E~~GeGk~~~~~~avhIiD~~vL~G~Dvr~~py~eR~~~aeKFv~al~k-----------p~-Rkd~~ 701 (845)
T KOG3673|consen 634 PRNTILLVDIVEEVVGEGKISSEPQAVHIIDAAVLFGDDVRNLPYEERMKAAEKFVAALKK-----------PN-RKDKK 701 (845)
T ss_pred ccceeehHHHHHHHhcCccccccchheeeeeeeeecCchhhcccHHHHHHHHHHHHHHhcC-----------CC-Ccccc
Confidence 45677654555443332221 22 3567899999999999999999999999998732110 11 00110
Q ss_pred CcEEEecceEEchhHHHHHHHhc-ccccCCC
Q 005797 494 PFRVRRKDFWLLSTVNKLLKEFI-PKLSHDA 523 (677)
Q Consensus 494 pf~i~~K~~~~~~~~~~ll~~~~-~~l~h~~ 523 (677)
-=.++.|+-|.+...+++|.++. ..++|.+
T Consensus 702 ~~a~r~Kp~yrL~em~~ff~nlehy~lk~ns 732 (845)
T KOG3673|consen 702 HRAERIKPTYRLAEMDEFFSNLEHYKLKHNS 732 (845)
T ss_pred ccceecccceeHHHHHHHHHhhhhhhhcCCc
Confidence 11278888888888787776432 2455554
No 100
>PF05098 LEF-4: Late expression factor 4 (LEF-4); InterPro: IPR007790 The baculovirus Autographa californica nuclear polyhedrosis virus (AcMNPV) virus encodes a DNA-dependent RNA polymerase that is required for transcription of viral late genes. This polymerase is composed of four equimolar subunits, LEF-8, LEF-4, LEF-9, and p47. LEF-4 carries out all the enzymatic functions related to mRNA capping []. ; GO: 0006355 regulation of transcription, DNA-dependent
Probab=87.34 E-value=16 Score=40.98 Aligned_cols=206 Identities=16% Similarity=0.222 Sum_probs=108.6
Q ss_pred cCCeEEEEcccceEEEEEEECCEEEEEeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEEecCCCCCCceeEEEE
Q 005797 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLI 442 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~vyLidR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~~~~~~~~~yli 442 (677)
..-|+..-|.||+|.=-++..+.+|+.-=++.++...+. |.+ + ....-+-|=-|+|-++ +|+|
T Consensus 233 ~dv~~WAlKLDGvRGkG~~~~~~~~i~~DDMq~fsg~l~-~~~-----f--~~Nnvv~fQcE~i~~~---------~~YI 295 (450)
T PF05098_consen 233 SDVKKWALKLDGVRGKGYFTNGFIIIQMDDMQMFSGKLD-PSP-----F--SLNNVVAFQCELIDDE---------TFYI 295 (450)
T ss_pred cceeEEEEeecccceeeEEeccEEEEEEchhhhhhcccc-cch-----h--hcccEEEEEEEEecCc---------eEEE
Confidence 446788999999999988888877776555554433320 111 0 0112255666777432 5777
Q ss_pred eEEeec-----CCccccCCCH-------HHHHHHHHHHhcCccchhcccccccCCCCccCCCCCcEEEecceEEchhHHH
Q 005797 443 YDMMAI-----NQASVIERPF-------YERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNK 510 (677)
Q Consensus 443 FDiL~~-----~G~~l~~~pf-------~eR~~~L~~~i~~pr~~~~~~i~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ 510 (677)
=|+|.+ |.+..-+..+ ..=+.+|... ......+ .+ + ......+.|+.-.|+.......
T Consensus 296 TDlL~VfkY~YnNrtQYe~s~~~Y~id~~~Ai~~ln~l--~~~~~~~-~l-----~--~~~~~~~~vkFQ~F~~~p~~~~ 365 (450)
T PF05098_consen 296 TDLLHVFKYKYNNRTQYECSLDPYNIDPLDAIECLNYL--NNANKKI-TL-----K--TNTNKTISVKFQQFFDPPLNVN 365 (450)
T ss_pred eeeeeeEEEeccCcceeEeccCccccCHHHHHHHHHHh--hccccce-EE-----e--ccCCceEEEEEEeecCCccccC
Confidence 788753 3332222222 2233344421 0000000 00 0 0123346677767765321100
Q ss_pred HHHHhcccccCCCceEEEEeCCCCCccCCCCCeEEEccCCCceEEEEEEEecCCceeEEEEeCCeeeeecCceeEecCCC
Q 005797 511 LLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFEVTDDDRQLLYVFERGKKKLMEGSSVEFTDRE 590 (677)
Q Consensus 511 ll~~~~~~l~h~~DGLIf~p~~spY~~G~~~~lLKWKp~~~nTVDF~l~~~~~~~~~L~~~~~g~~~~~~~~~~~f~~~~ 590 (677)
-.-.-.+||.|.--.+. .+.|.|. .-|+...-.. ....|....|. +....+. .+
T Consensus 366 ------~y~t~ptDGfVvld~~~--------~yvKyK~--~kT~EleYd~----~~~~F~~~~G~---~~~~~i~---~~ 419 (450)
T PF05098_consen 366 ------GYSTVPTDGFVVLDSNG--------RYVKYKY--VKTVELEYDA----GNNTFKSLFGP---LKNYEIV---SD 419 (450)
T ss_pred ------CcccCCcCCEEEECCCC--------CEEEEee--cceEEEEEEc----CCCeEEcCCCc---cccceec---cc
Confidence 01224689988766544 4556663 4566655422 22334333332 1111111 23
Q ss_pred CCCCCceEEEEEEeCCCCeeEEEEEecCCCCCC
Q 005797 591 PSFYSGKIIECTWDPDVQLWKCMRIRTDKSTPN 623 (677)
Q Consensus 591 ~~~~dg~IvEC~~d~~~~~W~~~R~R~DK~~pN 623 (677)
.....|+|-||.... ..=..++.|.|.-.||
T Consensus 420 ~~l~~~~IYE~vi~d--~~i~ViK~RpDRlvpn 450 (450)
T PF05098_consen 420 VQLEHGSIYECVITD--NVINVIKERPDRLVPN 450 (450)
T ss_pred cCccCCCEEEEEEEC--CEEEEEeeCCccCCCC
Confidence 335689999999974 6679999999999998
No 101
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=86.61 E-value=5 Score=35.04 Aligned_cols=29 Identities=24% Similarity=0.408 Sum_probs=20.3
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|+|..| +||.. ++.+| ...|++
T Consensus 59 ~~~~~ivvyC~~G-~rs~~-a~~~L-~~~G~~ 87 (101)
T cd01518 59 LKGKKVLMYCTGG-IRCEK-ASAYL-KERGFK 87 (101)
T ss_pred cCCCEEEEECCCc-hhHHH-HHHHH-HHhCCc
Confidence 4567899999988 68864 44455 456764
No 102
>PLN02160 thiosulfate sulfurtransferase
Probab=78.96 E-value=6.7 Score=36.80 Aligned_cols=29 Identities=24% Similarity=0.283 Sum_probs=19.6
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
..+..|+|||..| +||... +..| ...|++
T Consensus 79 ~~~~~IivyC~sG-~RS~~A-a~~L-~~~G~~ 107 (136)
T PLN02160 79 NPADDILVGCQSG-ARSLKA-TTEL-VAAGYK 107 (136)
T ss_pred CCCCcEEEECCCc-HHHHHH-HHHH-HHcCCC
Confidence 3567899999999 688744 3333 445664
No 103
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=77.85 E-value=13 Score=33.63 Aligned_cols=94 Identities=11% Similarity=-0.014 Sum_probs=47.5
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCCCCCCCc-chhhhCCc-EEEEEecCCC--------CCCCCHHHHHHHHHHHHHHHH
Q 005797 126 SFKQVIHQLRVLGRKLGLVIDLTNTTRYYPT-SDLKKEGI-KHVKIQCKGR--------DAVPDNASVNNFVYEVTQFLS 195 (677)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~-~~~~~~gI-~y~~ip~~d~--------~~~P~~e~i~~f~~~v~~fi~ 195 (677)
+++++.+.+.. .+ -.|||++...+++.. +++....| .-+.+|..+. +..|+.+.+.+++...
T Consensus 3 ~~~~l~~~l~~--~~-~~ivDvR~~~~~~~~~~~~~~ghI~ga~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 74 (122)
T cd01448 3 SPDWLAEHLDD--PD-VRILDARWYLPDRDGRKEYLEGHIPGAVFFDLDEDLDDKSPGPHMLPSPEEFAELLGSL----- 74 (122)
T ss_pred CHHHHHHHhCC--CC-eEEEEeecCCCCCchhhHHhhCCCCCCEEcChhhccccCCCCCCCCCCHHHHHHHHHHc-----
Confidence 34556555432 22 369999976443321 23332112 1133443221 1234445555443211
Q ss_pred hcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 196 RQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 196 ~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
...++..|+|+|..| ++++..++.+| ...|++
T Consensus 75 -~~~~~~~vv~~c~~g-~~~a~~~~~~l-~~~G~~ 106 (122)
T cd01448 75 -GISNDDTVVVYDDGG-GFFAARAWWTL-RYFGHE 106 (122)
T ss_pred -CCCCCCEEEEECCCC-CccHHHHHHHH-HHcCCC
Confidence 134678999999998 56666665555 446764
No 104
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=77.35 E-value=4.5 Score=46.31 Aligned_cols=29 Identities=24% Similarity=0.615 Sum_probs=23.3
Q ss_pred hcccCCceEEEEcCCCCChhHHHHHHHHH
Q 005797 196 RQKHSKKYILVHCTHGHNRTGYMIVHFLM 224 (677)
Q Consensus 196 ~~~~~~~~VlVHC~~G~~RTG~li~aYLm 224 (677)
.....+..|||||.-|..||+-+++.-++
T Consensus 369 kVe~~~~sVlVHCSDGWDRT~QlvsLA~L 397 (717)
T KOG4471|consen 369 KVESESRSVLVHCSDGWDRTAQLVSLAML 397 (717)
T ss_pred HHhcCCceEEEEcCCCccchHHHHHHHHH
Confidence 33456789999999999999988876554
No 105
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=76.66 E-value=18 Score=31.34 Aligned_cols=28 Identities=11% Similarity=0.338 Sum_probs=19.3
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.+..|+|+|.+| +||. .++..|. ..|++
T Consensus 60 ~~~~ivv~C~~G-~rs~-~aa~~L~-~~G~~ 87 (100)
T cd01523 60 DDQEVTVICAKE-GSSQ-FVAELLA-ERGYD 87 (100)
T ss_pred CCCeEEEEcCCC-CcHH-HHHHHHH-HcCce
Confidence 567899999999 4774 4455554 46764
No 106
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=70.33 E-value=29 Score=30.07 Aligned_cols=91 Identities=18% Similarity=0.344 Sum_probs=46.9
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCc-EEEEEecCCC---CCCCCHHHHHHHHHHHHHHHHhcccCC
Q 005797 126 SFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGI-KHVKIQCKGR---DAVPDNASVNNFVYEVTQFLSRQKHSK 201 (677)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI-~y~~ip~~d~---~~~P~~e~i~~f~~~v~~fi~~~~~~~ 201 (677)
||+++.+.+ +..=.+|||++.. .++....| .-+++|.... ......+.+..+.... ......+
T Consensus 1 s~~el~~~l---~~~~~~liD~R~~------~~~~~~hI~ga~~i~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ 67 (113)
T PF00581_consen 1 SPEELKEML---ENESVLLIDVRSP------EEYERGHIPGAVNIPFPSLDPDEPSLSEDKLDEFLKEL----GKKIDKD 67 (113)
T ss_dssp -HHHHHHHH---TTTTEEEEEESSH------HHHHHSBETTEEEEEGGGGSSSSSBCHHHHHHHHHHHH----THGSTTT
T ss_pred CHHHHHhhh---hCCCeEEEEeCCH------HHHHcCCCCCCccccccccccccccccccccccccccc----ccccccc
Confidence 466777665 3445679999843 33333333 1467777321 1222333333332221 1123456
Q ss_pred ceEEEEcCCCCChhHHHHHH---HHHHhcCCC
Q 005797 202 KYILVHCTHGHNRTGYMIVH---FLMRSQSMS 230 (677)
Q Consensus 202 ~~VlVHC~~G~~RTG~li~a---YLm~~~~~s 230 (677)
..|+|+|..|. |++..+++ |.+...|++
T Consensus 68 ~~iv~yc~~~~-~~~~~~~~~~~~~l~~~g~~ 98 (113)
T PF00581_consen 68 KDIVFYCSSGW-RSGSAAAARVAWILKKLGFK 98 (113)
T ss_dssp SEEEEEESSSC-HHHHHHHHHHHHHHHHTTTS
T ss_pred ccceeeeeccc-ccchhHHHHHHHHHHHcCCC
Confidence 78999996554 56555544 445555664
No 107
>PF06602 Myotub-related: Myotubularin-like phosphatase domain; InterPro: IPR010569 This family represents a region within eukaryotic myotubularin-related proteins that is sometimes found with IPR004182 from INTERPRO. Myotubularin is a dual-specific lipid phosphatase that dephosphorylates phosphatidylinositol 3-phosphate and phosphatidylinositol (3,5)-bi-phosphate []. Mutations in gene encoding myotubularin-related proteins have been associated with disease [].; GO: 0016791 phosphatase activity, 0016311 dephosphorylation; PDB: 1M7R_B 1LW3_A 1ZVR_A 1ZSQ_A 2YF0_A.
Probab=69.45 E-value=10 Score=41.67 Aligned_cols=22 Identities=32% Similarity=0.629 Sum_probs=17.0
Q ss_pred cCCceEEEEcCCCCChhHHHHH
Q 005797 199 HSKKYILVHCTHGHNRTGYMIV 220 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~ 220 (677)
..+..|+|||..|..||.-+++
T Consensus 229 ~~~~~Vlvh~~dGwDrt~q~~s 250 (353)
T PF06602_consen 229 DEGSSVLVHCSDGWDRTSQLSS 250 (353)
T ss_dssp TT--EEEEECTTSSSHHHHHHH
T ss_pred ccCceEEEEcCCCCcccHHHHH
Confidence 5788999999999999976544
No 108
>PRK01415 hypothetical protein; Validated
Probab=69.19 E-value=39 Score=35.23 Aligned_cols=105 Identities=20% Similarity=0.130 Sum_probs=53.6
Q ss_pred cCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCH
Q 005797 101 GGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDN 180 (677)
Q Consensus 101 ~~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~ 180 (677)
...|++|..|- .+.....+..-+|.++-+.+.. .=..|||+++.. ++... ++ .+- ..|..
T Consensus 93 k~eiV~~g~~~---~~~~~~~g~~i~p~e~~~ll~~---~~~vvIDVRn~~------E~~~G-----hi--~gA-inip~ 152 (247)
T PRK01415 93 KKEIVAMNVDD---LNVDLFKGEYIEPKDWDEFITK---QDVIVIDTRNDY------EVEVG-----TF--KSA-INPNT 152 (247)
T ss_pred eceEEecCCCC---CCccccCccccCHHHHHHHHhC---CCcEEEECCCHH------HHhcC-----Cc--CCC-CCCCh
Confidence 34566666541 1111123555678877766542 224589999542 33221 11 121 12333
Q ss_pred HHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 181 ASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 181 e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
..+.+|-..+..... ...+++|+++|++|. || ..++++|.. +|+.
T Consensus 153 ~~f~e~~~~~~~~~~--~~k~k~Iv~yCtgGi-Rs-~kAa~~L~~-~Gf~ 197 (247)
T PRK01415 153 KTFKQFPAWVQQNQE--LLKGKKIAMVCTGGI-RC-EKSTSLLKS-IGYD 197 (247)
T ss_pred HHHhhhHHHHhhhhh--hcCCCeEEEECCCCh-HH-HHHHHHHHH-cCCC
Confidence 344443322222111 345789999999994 76 456677754 5663
No 109
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=65.57 E-value=28 Score=37.52 Aligned_cols=87 Identities=20% Similarity=0.248 Sum_probs=47.0
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCC
Q 005797 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSK 201 (677)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~ 201 (677)
...-++.++.+.+.. .+ ..|||+++.. ++... +| +|- ..+....+..|...+.+.+. ..++
T Consensus 111 ~~~is~~el~~~l~~--~~-~vlIDVR~~~------E~~~G-----hI--~GA-i~ip~~~~~~~~~~l~~~~~--~~kd 171 (314)
T PRK00142 111 GTYLKPKEVNELLDD--PD-VVFIDMRNDY------EYEIG-----HF--ENA-IEPDIETFREFPPWVEENLD--PLKD 171 (314)
T ss_pred CcccCHHHHHHHhcC--CC-eEEEECCCHH------HHhcC-----cC--CCC-EeCCHHHhhhhHHHHHHhcC--CCCc
Confidence 445678887765542 23 4699998542 33321 11 221 11223344444333322222 2356
Q ss_pred ceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 202 KYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 202 ~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
++|+|+|++|. ||. .+++||.. .|++
T Consensus 172 k~IvvyC~~G~-Rs~-~aa~~L~~-~Gf~ 197 (314)
T PRK00142 172 KKVVMYCTGGI-RCE-KASAWMKH-EGFK 197 (314)
T ss_pred CeEEEECCCCc-HHH-HHHHHHHH-cCCC
Confidence 89999999994 775 45667764 5664
No 110
>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily. This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.
Probab=62.21 E-value=32 Score=29.92 Aligned_cols=29 Identities=24% Similarity=0.320 Sum_probs=19.3
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|+|..|. ||. .+ ++++...|+.
T Consensus 64 ~~~~~ivv~c~~g~-~s~-~~-~~~l~~~G~~ 92 (106)
T cd01519 64 SKDKELIFYCKAGV-RSK-AA-AELARSLGYE 92 (106)
T ss_pred CCCCeEEEECCCcH-HHH-HH-HHHHHHcCCc
Confidence 34679999999885 653 33 4555566763
No 111
>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.
Probab=62.10 E-value=39 Score=30.47 Aligned_cols=29 Identities=17% Similarity=0.299 Sum_probs=18.8
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|+|..| .||.. ++.+| ...|.+
T Consensus 62 ~~~~~ivv~C~~G-~rs~~-aa~~L-~~~G~~ 90 (117)
T cd01522 62 GKDRPVLLLCRSG-NRSIA-AAEAA-AQAGFT 90 (117)
T ss_pred CCCCeEEEEcCCC-ccHHH-HHHHH-HHCCCC
Confidence 3567899999988 46654 34444 445653
No 112
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=61.30 E-value=8.8 Score=40.90 Aligned_cols=39 Identities=23% Similarity=0.372 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHhc----cc---CCceEEEEcCCCCChhHHHH
Q 005797 181 ASVNNFVYEVTQFLSRQ----KH---SKKYILVHCTHGHNRTGYMI 219 (677)
Q Consensus 181 e~i~~f~~~v~~fi~~~----~~---~~~~VlVHC~~G~~RTG~li 219 (677)
+...+|++.+.+++... .. ..-.|.|=||+|..||.+++
T Consensus 218 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~igCtGG~HRSV~~~ 263 (288)
T PRK05416 218 PEVEEFLDKIRDLLEFWLPGYEREGKSYLTIAIGCTGGQHRSVAIA 263 (288)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEecCCCcccHHHHH
Confidence 45566666655555422 12 23479999999999999874
No 113
>TIGR02306 RNA_lig_DRB0094 RNA ligase, DRB0094 family. The member of this family from Deinococcus radiodurans, a species that withstands and recovers from extensive radiation or dessication damage, is an apparent RNA ligase. It repairs RNA stand breaks in nicked DNA:RNA and RNA:RNA but not DNA:DNA duplexes. It has adenylyltransferase activity associated with the C-terminal domain. Related proteins also in this family are found in Streptomyces avermitilis MA-4680 and in bacteriophage 44RR2.8t. The phage example is unsurprising since one mechanism of host cell defense against phage is cleavage and inactivation of certain tRNA molecules. A fungal sequence from Neurospora crassa scores between trusted and noise cutofffs and may be similar in function.
Probab=59.45 E-value=74 Score=34.78 Aligned_cols=103 Identities=11% Similarity=0.032 Sum_probs=50.4
Q ss_pred CCeEEEEcccceEEEEEEEC-CEEEEE------eCCCccccc--cCcCC--CcCCC-Ccccc-cCCCCeeeeEEEEEecC
Q 005797 364 RYYYATWKADGTRYMMLITI-DGCYLI------DRCFNFRRV--QMRFP--CRNSN-EGLGE-KTHHFTLLDGEMIIDKL 430 (677)
Q Consensus 364 ~~Y~V~eK~DG~R~ll~i~~-~~vyLi------dR~~~~~~v--~~~FP--~~~~~-~~~~~-~~~~~tlLDGElV~d~~ 430 (677)
..|.+++|.||+-+.+|... ++-|+. +|+..+..- +...- ..... ..+.+ ....+.-+=||++--..
T Consensus 159 ~~~~~TeKldGss~tv~~~~~~~~~~~~~~Gvcsr~~~l~~~~~~~~W~~a~~~~i~~~l~~~~~~~~vaiqGEl~G~gI 238 (341)
T TIGR02306 159 EKVAKTEKLHGTSITVAWVTDEERFLVLSKGVASRNLVLRENADNKYWKAVENYQIVDRAKAAELRMSVAIFGEVMGPGI 238 (341)
T ss_pred ceEEEEEEecceeEEEEEecCCcccccccceeecCCcccccCCCchhHHHHHhcChHHHHhhcccCceEEEEEEEeCccc
Confidence 68999999999999777643 222222 344332110 00000 00000 11100 01134558899995433
Q ss_pred CCCCC--ceeE-EEEeEEeecCCccccCCCHHHHHHHHHHH
Q 005797 431 PDSRR--QERR-YLIYDMMAINQASVIERPFYERWKMLEKE 468 (677)
Q Consensus 431 ~~~~~--~~~~-yliFDiL~~~G~~l~~~pf~eR~~~L~~~ 468 (677)
.+... .... |.+|++ ..+|.. .=++..++..++.+.
T Consensus 239 Q~n~Yg~~~~~~~f~F~v-~~~~~~-ryld~~~~~~~~~~~ 277 (341)
T TIGR02306 239 QKNRYGFDKYRTVFAFRA-FFDGEQ-RFLTDEDFQDLCLTL 277 (341)
T ss_pred cCCcCCCCCCceEEEEEE-EEcCcc-eecCHHHHHHHHHhc
Confidence 11111 2234 667777 334432 345788888877763
No 114
>TIGR03865 PQQ_CXXCW PQQ-dependent catabolism-associated CXXCW motif protein. Members of this protein family have a CXXXCW motif, consistent with a possible role in redox cofactor binding. This protein family shows strong relationships by phylogenetic profiling and conserved gene neighborhoods with a transport system for alcohols metabolized by PQQ-dependent enzymes.
Probab=53.32 E-value=1.6e+02 Score=28.31 Aligned_cols=30 Identities=7% Similarity=-0.055 Sum_probs=22.1
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|.|..|..||.. +++++...|++
T Consensus 114 ~~d~~IVvYC~~G~~~S~~--aa~~L~~~G~~ 143 (162)
T TIGR03865 114 DKDRPLVFYCLADCWMSWN--AAKRALAYGYS 143 (162)
T ss_pred CCCCEEEEEECCCCHHHHH--HHHHHHhcCCc
Confidence 4678999999988767765 56666667764
No 115
>PRK05320 rhodanese superfamily protein; Provisional
Probab=50.88 E-value=1.1e+02 Score=32.00 Aligned_cols=89 Identities=11% Similarity=0.097 Sum_probs=46.7
Q ss_pred CCCCHHHHHHHHHHcC---CCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhccc
Q 005797 123 KRYSFKQVIHQLRVLG---RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKH 199 (677)
Q Consensus 123 ~r~~~~~l~~~~~~~~---~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~ 199 (677)
...++.++.+.++... ..-..|||+++.. +++...| .|.-.+| ...+..|...+.+.... .
T Consensus 110 ~~is~~el~~~l~~~~~~~~~~~vlIDVR~~~------E~~~Ghi-------~GAiniP-l~~f~~~~~~l~~~~~~--~ 173 (257)
T PRK05320 110 PSVDAATLKRWLDQGHDDAGRPVVMLDTRNAF------EVDVGTF-------DGALDYR-IDKFTEFPEALAAHRAD--L 173 (257)
T ss_pred ceeCHHHHHHHHhccccccCCCeEEEECCCHH------HHccCcc-------CCCEeCC-hhHhhhhHHHHHhhhhh--c
Confidence 3456777766554311 1234799999542 3322111 2211233 24444443333333221 2
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.+++|+++|+.|. ||. .++.+|.. .|++
T Consensus 174 kdk~IvvyC~~G~-Rs~-~Aa~~L~~-~Gf~ 201 (257)
T PRK05320 174 AGKTVVSFCTGGI-RCE-KAAIHMQE-VGID 201 (257)
T ss_pred CCCeEEEECCCCH-HHH-HHHHHHHH-cCCc
Confidence 5678999999994 665 56677764 5663
No 116
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=50.58 E-value=2.1e+02 Score=33.96 Aligned_cols=158 Identities=17% Similarity=0.230 Sum_probs=91.5
Q ss_pred cCCeEEEEcccceEEEEEEECCE-EEEEeCCCccc--ccc------CcCCCcCCCCcccccCCCCeeeeEEEEEecCC--
Q 005797 363 QRYYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ------MRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP-- 431 (677)
Q Consensus 363 ~~~Y~V~eK~DG~R~ll~i~~~~-vyLidR~~~~~--~v~------~~FP~~~~~~~~~~~~~~~tlLDGElV~d~~~-- 431 (677)
...|++++|.||.=+-|+..++. +-..+|-+-.. .++ -..|.... ......-+=||+...+.+
T Consensus 108 ~~~y~~EpKiDGlsisL~YenG~Lv~aaTRGdG~~GEDiT~NvrtI~~IP~~l~------~~p~~lEVRGEvfm~k~~F~ 181 (667)
T COG0272 108 SVEYVVEPKIDGLAISLVYENGKLVRAATRGDGTTGEDITANVRTIRSIPLKLP------GAPAVLEVRGEVFMPKEDFE 181 (667)
T ss_pred CcceEEEeecceEEEEEEEECCEEEEeeccCCCccccchhhhhhhHhhhhhhcc------CCCceEEEEeEEEEeHHHHH
Confidence 45899999999999987777653 45667754321 111 01222111 013445688999875421
Q ss_pred -----------------C--------------CCCceeEEEEeEEeecCCccccCCCHHHHHHHHHHHhcCccchhcccc
Q 005797 432 -----------------D--------------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNI 480 (677)
Q Consensus 432 -----------------~--------------~~~~~~~yliFDiL~~~G~~l~~~pf~eR~~~L~~~i~~pr~~~~~~i 480 (677)
. ..+..+.+++|.+-...+. ..-....+++..|+++-+.-
T Consensus 182 ~lN~~~~~~g~~~faNpRNaAAGsLRqlD~~ita~R~L~~f~y~~~~~~~~-~~~~t~~e~l~~L~~~GF~v-------- 252 (667)
T COG0272 182 ALNEEREEEGEKPFANPRNAAAGSLRQLDPKITAKRKLGFFIYAVGDGEEG-LLADTQSERLAFLKAWGFPV-------- 252 (667)
T ss_pred HHHHHHHHhCCCCcCChhhhhhhhhhccCHHHHhcCCceEEEEeCCccCCC-CCccCHHHHHHHHHHcCCCC--------
Confidence 0 0134688999988766554 44456778888888753210
Q ss_pred cccCCCCccCCCCCcEEEecceEEchhHHHHHH---Hh---cccccCCCceEEEEeCCCC------CccCCCCCeEEEcc
Q 005797 481 YQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLK---EF---IPKLSHDADGLVFQGWDDP------YVPRTHEGLLKWKY 548 (677)
Q Consensus 481 ~~~~~p~~~~~~~pf~i~~K~~~~~~~~~~ll~---~~---~~~l~h~~DGLIf~p~~sp------Y~~G~~~~lLKWKp 548 (677)
++. +-...+++.+++ .+ .+.+++..||+|.+=.+-+ |+.+....-+=||+
T Consensus 253 ----~~~--------------~~~~~~~~ev~~~~~~~~~~R~~L~y~IDGvViKvn~l~~q~~lG~tsk~PrWAiAyKF 314 (667)
T COG0272 253 ----NPY--------------TRLCKNADEVLAFYEEWEKKRASLPYDIDGVVIKVNDLALQRELGFTSKAPRWAIAYKF 314 (667)
T ss_pred ----CcH--------------hhhcCCHHHHHHHHHHHHhhcccCCCccceEEEEeccHHHHHHhCCccCCCceeeeecC
Confidence 110 111223333332 22 3689999999999975543 44444555667787
Q ss_pred CCCce
Q 005797 549 ARMNS 553 (677)
Q Consensus 549 ~~~nT 553 (677)
|-...
T Consensus 315 pa~e~ 319 (667)
T COG0272 315 PAEEA 319 (667)
T ss_pred Cchhe
Confidence 65433
No 117
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=46.12 E-value=45 Score=36.86 Aligned_cols=83 Identities=13% Similarity=0.205 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcE----EEEEecCCCCCCCCHHHHHHHHHHHHHHHHhccc
Q 005797 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIK----HVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKH 199 (677)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~----y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~ 199 (677)
+.++.++.+.++. + +. .+||++.. ++|+...|. .+++|... +......... +. ..
T Consensus 272 ~~~~~el~~~l~~-~-~~-~lIDVR~~------~E~~~ghI~~~~gAinIPl~~---------l~~~~~~~~~-l~--~~ 330 (370)
T PRK05600 272 RTDTTSLIDATLN-G-SA-TLLDVREP------HEVLLKDLPEGGASLKLPLSA---------ITDDADILHA-LS--PI 330 (370)
T ss_pred ccCHHHHHHHHhc-C-Ce-EEEECCCH------HHhhhccCCCCCccEeCcHHH---------hhcchhhhhh-cc--cc
Confidence 4577777766643 2 23 68999943 455443332 34555432 2111000011 11 11
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
++.+|+|||.+| .||. .++.+|.. .|++
T Consensus 331 ~~~~Ivv~C~sG-~RS~-~Aa~~L~~-~G~~ 358 (370)
T PRK05600 331 DGDNVVVYCASG-IRSA-DFIEKYSH-LGHE 358 (370)
T ss_pred CCCcEEEECCCC-hhHH-HHHHHHHH-cCCC
Confidence 233899999999 4776 45666654 5663
No 118
>cd01530 Cdc25 Cdc25 phosphatases are members of the Rhodanese Homology Domain superfamily. They activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. Cdc25A phosphatase functions to regulate S phase entry and Cdc25B is required for G2/M phase transition of the cell cycle. The Cdc25 domain binds oxyanions at the catalytic site and has the signature motif (H/YCxxxxxR).
Probab=45.86 E-value=1.1e+02 Score=27.70 Aligned_cols=25 Identities=16% Similarity=0.469 Sum_probs=17.0
Q ss_pred cCCceEEEEcC-CCCChhHHHHHHHHHH
Q 005797 199 HSKKYILVHCT-HGHNRTGYMIVHFLMR 225 (677)
Q Consensus 199 ~~~~~VlVHC~-~G~~RTG~li~aYLm~ 225 (677)
..+..|+|||. +| .||+ .++.+|..
T Consensus 66 ~~~~~vv~yC~~sg-~rs~-~aa~~L~~ 91 (121)
T cd01530 66 KKRRVLIFHCEFSS-KRGP-RMARHLRN 91 (121)
T ss_pred CCCCEEEEECCCcc-ccHH-HHHHHHHH
Confidence 45789999997 55 5665 45556654
No 119
>cd01443 Cdc25_Acr2p Cdc25 enzymes are members of the Rhodanese Homology Domain (RHOD) superfamily. Also included in this CD are eukaryotic arsenate resistance proteins such as Saccharomyces cerevisiae Acr2p and similar proteins. Cdc25 phosphatases activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. The Cdc25 and Acr2p RHOD domains have the signature motif (H/YCxxxxxR).
Probab=45.37 E-value=1.3e+02 Score=26.78 Aligned_cols=18 Identities=17% Similarity=0.265 Sum_probs=13.1
Q ss_pred CCceEEEEcCCCCChhHH
Q 005797 200 SKKYILVHCTHGHNRTGY 217 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~ 217 (677)
....|+|||..|-.||..
T Consensus 65 ~~~~iv~~C~~~g~rs~~ 82 (113)
T cd01443 65 GVKLAIFYCGSSQGRGPR 82 (113)
T ss_pred CCCEEEEECCCCCcccHH
Confidence 346899999976567653
No 120
>PRK05569 flavodoxin; Provisional
Probab=44.29 E-value=1.9e+02 Score=26.55 Aligned_cols=112 Identities=7% Similarity=0.072 Sum_probs=60.9
Q ss_pred HHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCC
Q 005797 134 LRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHN 213 (677)
Q Consensus 134 ~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~ 213 (677)
+...|..+ .++++.. ++..++.+...=.+-.|+-+.+..| +.++..|++.+... ..+++.|++-|++|.+
T Consensus 26 ~~~~g~~v-~~~~~~~----~~~~~~~~~d~iilgsPty~~~~~~-~~~~~~~~~~l~~~----~~~~K~v~~f~t~g~~ 95 (141)
T PRK05569 26 AKEAGAEV-TIKHVAD----AKVEDVLEADAVAFGSPSMDNNNIE-QEEMAPFLDQFKLT----PNENKKCILFGSYGWD 95 (141)
T ss_pred HHhCCCeE-EEEECCc----CCHHHHhhCCEEEEECCCcCCCcCC-hHHHHHHHHHhhcc----CcCCCEEEEEeCCCCC
Confidence 33334433 4556653 2334566666667777776543233 35666776654321 2367899999999865
Q ss_pred -hhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhh
Q 005797 214 -RTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHE 261 (677)
Q Consensus 214 -RTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~ 261 (677)
..+.-...-++...|+.+-..+.. .+.|+..-++++.++-..
T Consensus 96 ~~~~~~~~~~~l~~~g~~~~~~~~~------~~~p~~~~~~~~~~~g~~ 138 (141)
T PRK05569 96 NGEFMKLWKDRMKDYGFNVIGDLAV------NESPNKEELNSAKELGKK 138 (141)
T ss_pred CCcHHHHHHHHHHHCCCeEeeeEEE------ccCCCHHHHHHHHHHHHH
Confidence 233222334445567755332111 244677777777666543
No 121
>KOG1089 consensus Myotubularin-related phosphatidylinositol 3-phosphate 3-phosphatase MTM6 [General function prediction only]
Probab=43.19 E-value=38 Score=39.19 Aligned_cols=21 Identities=33% Similarity=0.588 Sum_probs=17.4
Q ss_pred CCceEEEEcCCCCChhHHHHH
Q 005797 200 SKKYILVHCTHGHNRTGYMIV 220 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~ 220 (677)
.+-.|+|||.-|..||.-++.
T Consensus 343 ~~~sVlvhcsdGwDrT~qV~S 363 (573)
T KOG1089|consen 343 EGASVLVHCSDGWDRTCQVSS 363 (573)
T ss_pred CCCeEEEEccCCcchhHHHHH
Confidence 557999999999999975543
No 122
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=42.54 E-value=34 Score=30.23 Aligned_cols=81 Identities=19% Similarity=0.215 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCce
Q 005797 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKY 203 (677)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~ 203 (677)
.-++.++.+.+.. +.. ..|||++.. .+|... +| +|--.+|- ..+... +..+ . ...+.+
T Consensus 11 ~i~~~~l~~~~~~-~~~-~~liDvR~~------~e~~~g-----hI--pgainip~-~~l~~~---~~~l-~--~~~~~~ 68 (109)
T cd01533 11 SVSADELAALQAR-GAP-LVVLDGRRF------DEYRKM-----TI--PGSVSCPG-AELVLR---VGEL-A--PDPRTP 68 (109)
T ss_pred cCCHHHHHHHHhc-CCC-cEEEeCCCH------HHHhcC-----cC--CCceeCCH-HHHHHH---HHhc-C--CCCCCe
Confidence 4567777765532 222 358999843 334321 22 22223443 223222 2221 1 234678
Q ss_pred EEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 204 ILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 204 VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
|+|||.+|. ||. .++..| ...|+
T Consensus 69 ivv~C~~G~-rs~-~a~~~L-~~~G~ 91 (109)
T cd01533 69 IVVNCAGRT-RSI-IGAQSL-INAGL 91 (109)
T ss_pred EEEECCCCc-hHH-HHHHHH-HHCCC
Confidence 999999995 773 344445 45676
No 123
>PF10640 Pox_ATPase-GT: mRNA capping enzyme N-terminal, ATPase and guanylyltransferase; InterPro: IPR019602 Viral mRNA capping enzymes catalyse the first two reactions in the mRNA cap formation pathway. They are a heterodimer consisting of a large and small subunit. This domain is the N terminus of the large subunit viral mRNA capping enzyme, and carries both the ATPase and the guanylyltransferase activities of the enzyme. The guanylyltransferase enzymatic region runs from residues 242 (leucine)-273(arginine) [], the core of the active site being the lysine residue at 260 []. The ATPase activity is at the very N-terminal part of the domain []. ; GO: 0004484 mRNA guanylyltransferase activity, 0004651 polynucleotide 5'-phosphatase activity
Probab=41.62 E-value=83 Score=33.49 Aligned_cols=99 Identities=21% Similarity=0.356 Sum_probs=58.9
Q ss_pred ccCh-hHHHHHHHHHHHhhhcccCCCCCCCC--CCCc-cc---ccchhchhhhccCCeEEEEcccceEEEEEEECCEEEE
Q 005797 316 EIPN-DQQDAFRHFCYQTLKLNFGGRGNMQF--PGSH-PV---SLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYL 388 (677)
Q Consensus 316 ~~~~-~~~~~~r~~~~~~~~~~~~~~~~~~F--PGsq-PV---sl~r~nl~~l~~~~Y~V~eK~DG~R~ll~i~~~~vyL 388 (677)
.++. +..+++...+..+. ++ ...+-.. |+.. || -|-++.|..+.-.+|+++-|+||+=..+.+...++|+
T Consensus 177 ki~~~~l~~eL~~~~~~iF-m~--~~~ni~L~~~~~k~pvkT~MLkkqdi~~ldl~~ly~tsKtDGv~~~V~i~~~~i~C 253 (313)
T PF10640_consen 177 KIDKDELLNELTTLFRAIF-MA--NPDNIFLVTPNIKPPVKTHMLKKQDIPGLDLENLYITSKTDGVGTVVKITVKGIYC 253 (313)
T ss_pred CCCHHHHHHHHHHHHHHHh-cc--CcccEEEeCCCCCCCceeeeeccccccccchhheEEEEeecCceEEEEEecCceEE
Confidence 3443 34566777776664 21 1111111 2222 33 4567778888889999999999999988888887665
Q ss_pred EeCCCccccccCcCCCcCCCCcccccCCCCeeeeEEEEE
Q 005797 389 IDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMII 427 (677)
Q Consensus 389 idR~~~~~~v~~~FP~~~~~~~~~~~~~~~tlLDGElV~ 427 (677)
.=-...| ..+||.... ......|=||++.
T Consensus 254 ~f~hl~y---~irY~~~~~-------i~~~i~l~gEa~K 282 (313)
T PF10640_consen 254 YFSHLGY---IIRYNANRN-------IDNPIVLYGEAIK 282 (313)
T ss_pred EEEEeeE---EEEcccccC-------CCCceEEEeeeee
Confidence 3222221 123443221 2456778899996
No 124
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=41.57 E-value=41 Score=35.76 Aligned_cols=39 Identities=18% Similarity=0.338 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHh----cccC---CceEEEEcCCCCChhHHHH
Q 005797 181 ASVNNFVYEVTQFLSR----QKHS---KKYILVHCTHGHNRTGYMI 219 (677)
Q Consensus 181 e~i~~f~~~v~~fi~~----~~~~---~~~VlVHC~~G~~RTG~li 219 (677)
+.+.+|++.+.+++.- .... .-.|+|=||+|.-||.+++
T Consensus 215 ~~~~~f~~~~~~~l~~~lp~y~~egk~~ltIaiGCTGG~HRSV~ia 260 (284)
T PF03668_consen 215 PEAQEFLEKIEDLLDFLLPRYEKEGKSYLTIAIGCTGGQHRSVAIA 260 (284)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEEcCCCcCcHHHHH
Confidence 3445555555444432 1222 2489999999999999875
No 125
>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=36.80 E-value=36 Score=29.56 Aligned_cols=29 Identities=21% Similarity=0.277 Sum_probs=20.9
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
..++.|+|+|.+|. || ..++.+|.. .|++
T Consensus 59 ~~~~~ivv~C~~G~-rS-~~aa~~L~~-~G~~ 87 (110)
T COG0607 59 PDDDPIVVYCASGV-RS-AAAAAALKL-AGFT 87 (110)
T ss_pred CCCCeEEEEeCCCC-Ch-HHHHHHHHH-cCCc
Confidence 45789999999995 77 456666765 4543
No 126
>COG1054 Predicted sulfurtransferase [General function prediction only]
Probab=36.71 E-value=2e+02 Score=30.83 Aligned_cols=86 Identities=24% Similarity=0.259 Sum_probs=54.5
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCC
Q 005797 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSK 201 (677)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~ 201 (677)
+.--.|.++-+.+.. .=..|||..|.-.+ . |-+. .| ...|..+...+|-..+.+..+ ...+
T Consensus 112 G~yl~p~~wn~~l~D---~~~vviDtRN~YE~-~--------iG~F----~g-Av~p~~~tFrefP~~v~~~~~--~~~~ 172 (308)
T COG1054 112 GTYLSPKDWNELLSD---PDVVVIDTRNDYEV-A--------IGHF----EG-AVEPDIETFREFPAWVEENLD--LLKD 172 (308)
T ss_pred cCccCHHHHHHHhcC---CCeEEEEcCcceeE-e--------eeee----cC-ccCCChhhhhhhHHHHHHHHH--hccC
Confidence 334467777665543 23789999975211 1 2222 23 245777888888888887666 4456
Q ss_pred ceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 202 KYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 202 ~~VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
++|+.-||+|+ |.- -+.+||.. .|+
T Consensus 173 KkVvmyCTGGI-RCE-Kas~~m~~-~GF 197 (308)
T COG1054 173 KKVVMYCTGGI-RCE-KASAWMKE-NGF 197 (308)
T ss_pred CcEEEEcCCce-eeh-hhHHHHHH-hcc
Confidence 79999999998 553 45566665 454
No 127
>KOG1530 consensus Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=35.79 E-value=56 Score=30.66 Aligned_cols=77 Identities=22% Similarity=0.313 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCc-EEEEEecCCC---CCCCCHHHHHHHHHHHHHHHHhccc
Q 005797 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGI-KHVKIQCKGR---DAVPDNASVNNFVYEVTQFLSRQKH 199 (677)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI-~y~~ip~~d~---~~~P~~e~i~~f~~~v~~fi~~~~~ 199 (677)
.++.+++-+.+. .+=...||++. |++|+..++ .-+.||..-+ +..+.. .|.+.+. +.. ..
T Consensus 24 sv~~~qvk~L~~---~~~~~llDVRe------peEfk~gh~~~siNiPy~~~~~~~~l~~~----eF~kqvg-~~k--p~ 87 (136)
T KOG1530|consen 24 SVSVEQVKNLLQ---HPDVVLLDVRE------PEEFKQGHIPASINIPYMSRPGAGALKNP----EFLKQVG-SSK--PP 87 (136)
T ss_pred EEEHHHHHHHhc---CCCEEEEeecC------HHHhhccCCcceEeccccccccccccCCH----HHHHHhc-ccC--CC
Confidence 444555443332 22267888883 456665554 4566666321 122232 2333322 211 23
Q ss_pred CCceEEEEcCCCCChhHH
Q 005797 200 SKKYILVHCTHGHNRTGY 217 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~ 217 (677)
....|.|||..|. ||..
T Consensus 88 ~d~eiIf~C~SG~-Rs~~ 104 (136)
T KOG1530|consen 88 HDKEIIFGCASGV-RSLK 104 (136)
T ss_pred CCCcEEEEeccCc-chhH
Confidence 4458999999995 7754
No 128
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=35.42 E-value=51 Score=34.67 Aligned_cols=39 Identities=23% Similarity=0.422 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHh----cccCC---ceEEEEcCCCCChhHHHH
Q 005797 181 ASVNNFVYEVTQFLSR----QKHSK---KYILVHCTHGHNRTGYMI 219 (677)
Q Consensus 181 e~i~~f~~~v~~fi~~----~~~~~---~~VlVHC~~G~~RTG~li 219 (677)
..+.+|++.+.+|+.- .+..| -.|+|=||+|..||.+++
T Consensus 216 ~e~~ef~~~l~~~l~~~LP~y~~egks~lTIaIGCTGGqHRSV~ia 261 (286)
T COG1660 216 PEVEEFYEKLRDLLEFWLPRYEKEGKSYLTIAIGCTGGQHRSVYIA 261 (286)
T ss_pred hHHHHHHHHHHHHHHHHhHHHHhcCCeEEEEEEccCCCccchHHHH
Confidence 4555666665555542 22333 489999999999999876
No 129
>TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase. The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene.
Probab=35.01 E-value=98 Score=33.39 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=18.1
Q ss_pred CceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 201 KKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 201 ~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
+..|+|+|..|-.||+.+ ++++...|+.
T Consensus 74 ~~~vvvyC~~gG~RS~~a--a~~L~~~G~~ 101 (311)
T TIGR03167 74 PPQPLLYCWRGGMRSGSL--AWLLAQIGFR 101 (311)
T ss_pred CCcEEEEECCCChHHHHH--HHHHHHcCCC
Confidence 345999997655788754 3444556773
No 130
>PRK07411 hypothetical protein; Validated
Probab=34.25 E-value=1.5e+02 Score=32.99 Aligned_cols=28 Identities=18% Similarity=0.487 Sum_probs=19.4
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
++..|+|||..|. ||.. ++.+| ...|++
T Consensus 341 ~d~~IVvyC~~G~-RS~~-aa~~L-~~~G~~ 368 (390)
T PRK07411 341 NGHRLIAHCKMGG-RSAK-ALGIL-KEAGIE 368 (390)
T ss_pred CCCeEEEECCCCH-HHHH-HHHHH-HHcCCC
Confidence 4678999999885 7754 44444 556774
No 131
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=33.57 E-value=1.1e+02 Score=33.45 Aligned_cols=29 Identities=17% Similarity=0.331 Sum_probs=20.5
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
++..|+|+|..|-.||+.+ ++++...|+.
T Consensus 87 ~~~~ivvyC~rgG~RS~~a--a~~L~~~G~~ 115 (345)
T PRK11784 87 ANPRGLLYCWRGGLRSGSV--QQWLKEAGID 115 (345)
T ss_pred CCCeEEEEECCCChHHHHH--HHHHHHcCCC
Confidence 5678999998666788775 3444456764
No 132
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=31.64 E-value=1.2e+02 Score=26.75 Aligned_cols=29 Identities=14% Similarity=0.236 Sum_probs=19.0
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|+|..|. ||.. +++++...|..
T Consensus 76 ~~~~~iv~yc~~g~-~s~~--~~~~l~~~G~~ 104 (118)
T cd01449 76 TPDKPVIVYCGSGV-TACV--LLLALELLGYK 104 (118)
T ss_pred CCCCCEEEECCcHH-HHHH--HHHHHHHcCCC
Confidence 35678999999874 6554 34445556663
No 133
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=31.27 E-value=47 Score=28.39 Aligned_cols=21 Identities=29% Similarity=0.415 Sum_probs=14.9
Q ss_pred ceEEEEcCCCCChhHHHHHHHH
Q 005797 202 KYILVHCTHGHNRTGYMIVHFL 223 (677)
Q Consensus 202 ~~VlVHC~~G~~RTG~li~aYL 223 (677)
+.|+|.|..|.| |++|++.=+
T Consensus 1 ~kilvvCg~G~g-tS~ml~~ki 21 (87)
T cd05567 1 KKIVFACDAGMG-SSAMGASVL 21 (87)
T ss_pred CEEEEECCCCcc-HHHHHHHHH
Confidence 369999999998 555554433
No 134
>cd01532 4RHOD_Repeat_1 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative catalytic Cys residue.
Probab=29.53 E-value=77 Score=27.04 Aligned_cols=29 Identities=14% Similarity=0.006 Sum_probs=18.3
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
++.+|+|+|..|...+...++..| ...|.
T Consensus 49 ~~~~ivl~c~~G~~~~s~~aa~~L-~~~G~ 77 (92)
T cd01532 49 RDTPIVVYGEGGGEDLAPRAARRL-SELGY 77 (92)
T ss_pred CCCeEEEEeCCCCchHHHHHHHHH-HHcCc
Confidence 467899999998533344444444 44565
No 135
>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]
Probab=29.33 E-value=2.3e+02 Score=30.64 Aligned_cols=65 Identities=15% Similarity=0.335 Sum_probs=45.2
Q ss_pred cEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhc------------ccCCceEEEEc-CCCCChhHHHHHHHHHHhcCC
Q 005797 164 IKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQ------------KHSKKYILVHC-THGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 164 I~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~------------~~~~~~VlVHC-~~G~~RTG~li~aYLm~~~~~ 229 (677)
+.--.+-+-+| .+|.++++..-++...+|+..- ...-+.|+||= +-|-|||.-+..-.+|.+-|+
T Consensus 319 fRttQVyVG~h-iPp~P~dv~~qmq~fv~WLNsE~~~tlhPve~AAlAHYKLV~iHPF~DGNGRTsRLLmNlilMraGy 396 (472)
T KOG3824|consen 319 FRTTQVYVGRH-IPPSPEDVMEQMQDFVDWLNSESTLTLHPVERAALAHYKLVLIHPFTDGNGRTSRLLMNLILMRAGY 396 (472)
T ss_pred eeeeeEEecCC-CCCChHHHHHHHHHHHHHhccccccccChHHHHHHhhheeEEEeccccCCchHHHHHHHHHHHhcCC
Confidence 44445555444 7889988888777777787532 11236789997 579999998888777665454
No 136
>cd01447 Polysulfide_ST Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.
Probab=26.89 E-value=71 Score=27.40 Aligned_cols=28 Identities=14% Similarity=0.280 Sum_probs=18.6
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
..+.+|+|+|..| +|+. .++ +++...|+
T Consensus 59 ~~~~~ivv~c~~g-~~s~-~~~-~~l~~~G~ 86 (103)
T cd01447 59 AEDKPFVFYCASG-WRSA-LAG-KTLQDMGL 86 (103)
T ss_pred CCCCeEEEEcCCC-CcHH-HHH-HHHHHcCh
Confidence 4567999999887 5764 333 44455665
No 137
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=26.66 E-value=3.3e+02 Score=24.67 Aligned_cols=44 Identities=18% Similarity=0.261 Sum_probs=30.0
Q ss_pred HHHHHHHHHcCCCeeEEEEcCCCCC----CCCcc----hhhhCCcEEEEEecCC
Q 005797 128 KQVIHQLRVLGRKLGLVIDLTNTTR----YYPTS----DLKKEGIKHVKIQCKG 173 (677)
Q Consensus 128 ~~l~~~~~~~~~~I~~VIdLt~~~~----~y~~~----~~~~~gI~y~~ip~~d 173 (677)
+.+++.++. .+|..|||+..--+ .++.+ .+...||.|++++-.+
T Consensus 3 e~f~~~l~~--~~i~~lVDVR~~P~S~~~~~~k~~l~~~l~~~gi~Y~~~~~Lg 54 (122)
T PF04343_consen 3 ERFYDLLKK--NGIRVLVDVRLWPRSRKPGFNKEDLASFLEEAGIEYVWLPELG 54 (122)
T ss_pred HHHHHHHHH--CCCeEEEEECCCCCCCCCCCCHHHHHHHHHHCCceEeechhhc
Confidence 456665543 67999999874333 44443 4567899999998765
No 138
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=26.00 E-value=84 Score=28.74 Aligned_cols=30 Identities=20% Similarity=0.452 Sum_probs=21.3
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.++..|+|.|.+|-.||. .+++++...|+.
T Consensus 84 ~~~~~vvvyC~~~G~rs~--~a~~~L~~~G~~ 113 (128)
T cd01520 84 ERDPKLLIYCARGGMRSQ--SLAWLLESLGID 113 (128)
T ss_pred CCCCeEEEEeCCCCccHH--HHHHHHHHcCCc
Confidence 457789999986545766 344777777874
No 139
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=25.63 E-value=1.8e+02 Score=27.44 Aligned_cols=76 Identities=7% Similarity=0.225 Sum_probs=50.6
Q ss_pred CcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHH
Q 005797 155 PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQA 234 (677)
Q Consensus 155 ~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s~~eA 234 (677)
+|+.+...+..++.+.-......=++..+....+.+.+|+.+ ..++.|++-| .=||+-..| .+.+
T Consensus 32 ~Pe~~~~~~~~viWlT~~~~~~~I~Pt~L~~l~~~i~~fl~~--~~~~vViiD~-----------lEYL~l~Ng--F~~v 96 (136)
T PF05763_consen 32 NPEEWREKNTPVIWLTKVEGENAISPTNLHKLLDTIVRFLKE--NGNGVVIIDG-----------LEYLILENG--FESV 96 (136)
T ss_pred ChhhccccCCcEEEEeccCCCCccCchhhHHHHHHHHHHHHh--CCCcEEEEec-----------HHHHHHHcC--HHHH
Confidence 455565556777777655322333456788888899999984 4567999998 458887766 5566
Q ss_pred HHHHHhcCCCC
Q 005797 235 IKKFAEVRPPG 245 (677)
Q Consensus 235 i~~~~~~Rp~~ 245 (677)
++++...|-.+
T Consensus 97 ~KFL~~LkD~~ 107 (136)
T PF05763_consen 97 LKFLASLKDYA 107 (136)
T ss_pred HHHHHHhHHHe
Confidence 66666665433
No 140
>PF13292 DXP_synthase_N: 1-deoxy-D-xylulose-5-phosphate synthase; PDB: 2O1X_C 2O1S_B.
Probab=24.96 E-value=1.1e+02 Score=32.15 Aligned_cols=40 Identities=15% Similarity=0.198 Sum_probs=27.4
Q ss_pred chhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEc
Q 005797 157 SDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHC 208 (677)
Q Consensus 157 ~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC 208 (677)
..|++.|++|+ =|+.|| +.+.+.+.++ ..++-.++|+||.
T Consensus 229 ~lFe~LG~~Y~-GPiDGH----dl~~Li~~l~-------~~K~~~gPvllHV 268 (270)
T PF13292_consen 229 NLFEELGFDYI-GPIDGH----DLEELIEVLE-------NAKDIDGPVLLHV 268 (270)
T ss_dssp CCCHHCT-EEE-EEEETT-----HHHHHHHHH-------HHCCSSSEEEEEE
T ss_pred HHHHHcCCeEE-eccCCC----CHHHHHHHHH-------HHhcCCCCEEEEE
Confidence 67899999999 589898 3444444333 3356689999996
No 141
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=24.77 E-value=82 Score=26.94 Aligned_cols=28 Identities=7% Similarity=0.046 Sum_probs=18.9
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
.++..|+|+|..| +||+. ++.+| ...|.
T Consensus 54 ~~~~~ivv~c~~g-~~s~~-~~~~l-~~~G~ 81 (96)
T cd01529 54 GRATRYVLTCDGS-LLARF-AAQEL-LALGG 81 (96)
T ss_pred CCCCCEEEEeCCh-HHHHH-HHHHH-HHcCC
Confidence 4567899999877 57755 34455 45665
No 142
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=24.18 E-value=1.7e+02 Score=25.13 Aligned_cols=28 Identities=36% Similarity=0.701 Sum_probs=19.2
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
++.+|+|+|..| .||. .++.+|.. .|++
T Consensus 57 ~~~~vv~~c~~g-~rs~-~~~~~l~~-~G~~ 84 (101)
T cd01528 57 PDKDIVVLCHHG-GRSM-QVAQWLLR-QGFE 84 (101)
T ss_pred CCCeEEEEeCCC-chHH-HHHHHHHH-cCCc
Confidence 467899999988 5764 44555554 6664
No 143
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=23.81 E-value=4.5e+02 Score=22.81 Aligned_cols=28 Identities=21% Similarity=0.426 Sum_probs=17.8
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.+..|+|+|..|. |+. .++..| ...|++
T Consensus 57 ~~~~ivv~c~~g~-~s~-~a~~~L-~~~G~~ 84 (108)
T PRK00162 57 FDTPVMVMCYHGN-SSQ-GAAQYL-LQQGFD 84 (108)
T ss_pred CCCCEEEEeCCCC-CHH-HHHHHH-HHCCch
Confidence 5678999999885 553 344444 445653
No 144
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=23.51 E-value=1e+02 Score=26.31 Aligned_cols=28 Identities=18% Similarity=0.239 Sum_probs=19.0
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 005797 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~li~aYLm~~~~~s 230 (677)
.+..|+|+|..|. ||. .++.+| ...|++
T Consensus 55 ~~~~iv~~c~~G~-rs~-~aa~~L-~~~G~~ 82 (95)
T cd01534 55 RGARIVLADDDGV-RAD-MTASWL-AQMGWE 82 (95)
T ss_pred CCCeEEEECCCCC-hHH-HHHHHH-HHcCCE
Confidence 3578999999984 664 445555 556764
No 145
>COG0696 GpmI Phosphoglyceromutase [Carbohydrate transport and metabolism]
Probab=22.78 E-value=3.5e+02 Score=31.01 Aligned_cols=170 Identities=18% Similarity=0.196 Sum_probs=98.7
Q ss_pred cccCCCCCCCCCccCCCCCCc-cc-CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHc--CCCeeEEEEcCCCCCCC
Q 005797 79 KSYDRNKLPPGWLDCPPFGQE-IG-GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVL--GRKLGLVIDLTNTTRYY 154 (677)
Q Consensus 79 ~~~~~~~lp~~W~~~~~~g~~-I~-~~fip~k~Pl~~~~~~~i~~~~r~~~~~l~~~~~~~--~~~I~~VIdLt~~~~~y 154 (677)
.|++.-+||++-..-+-+|.. |+ ++++....+ ..+..+..+..|.-..+...+..- ....-+|+-|.......
T Consensus 47 aSG~~VGLP~GQmGNSEVGHlnIGAGRivyq~l~---rI~~aie~g~f~~n~~l~~~~~~v~~~~~~lHlmGl~S~GGVH 123 (509)
T COG0696 47 ASGLAVGLPEGQMGNSEVGHLNIGAGRIVYQDLT---RIDKAIEDGSFFENPALLNAIDEVKANGSALHLMGLVSDGGVH 123 (509)
T ss_pred ccccccCCCCCcccCccccceeeecceEeecccc---hhhhhhhcCcccccHHHHHHHHHhhhcCceEEEEecccCCccc
Confidence 367778999999888888866 64 688887753 334444444444444444433211 11234666666544332
Q ss_pred C--------cchhhhCCc--EEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCCCChhHHHHHHHH-
Q 005797 155 P--------TSDLKKEGI--KHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFL- 223 (677)
Q Consensus 155 ~--------~~~~~~~gI--~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~~RTG~li~aYL- 223 (677)
+ .+...+.|+ -|+|.-..|++.+| ....++++.+..++. ..|.+|.+++...|-
T Consensus 124 Sh~~Hl~ali~~a~k~g~~kV~~H~f~DGRD~~P--~s~~~~le~l~~~~~-------------~~g~~~iasi~GRYYa 188 (509)
T COG0696 124 SHIDHLLALIELAAKNGMKKVYLHAFLDGRDTAP--RSALQYLEELEAKAK-------------EYGNGRIASISGRYYA 188 (509)
T ss_pred chHHHHHHHHHHHHhcCCcEEEEEEecCCCCCCc--hhHHHHHHHHHHHhh-------------ccCceEEEEEeeeeec
Confidence 2 133345664 57777778876555 356677777777654 123344444444443
Q ss_pred HHh-cCCC-HHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCCCC
Q 005797 224 MRS-QSMS-VAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLDST 267 (677)
Q Consensus 224 m~~-~~~s-~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~~~ 267 (677)
|.+ +.|. .+.|.+.+....... ......+.+...|......++
T Consensus 189 MDRD~rWdRve~Ay~a~~~~~~~~-~~~~~~~~~~~~Y~~~~tDEF 233 (509)
T COG0696 189 MDRDNRWDRVEKAYDALTYGEGEF-TANSAVEAVQASYARGITDEF 233 (509)
T ss_pred cccccchHHHHHHHHHHHcccccc-ccCCHHHHHHHHHhcCCCccc
Confidence 332 3476 889999888887532 234556667777776544333
No 146
>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily. This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.
Probab=22.31 E-value=1e+02 Score=27.75 Aligned_cols=28 Identities=25% Similarity=0.402 Sum_probs=19.2
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 005797 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (677)
Q Consensus 199 ~~~~~VlVHC~~G~~RTG~li~aYLm~~~~~ 229 (677)
..+..|+|+|.+| .||. .++.+| ...|+
T Consensus 70 ~~~~~ivv~C~~G-~rs~-~aa~~L-~~~G~ 97 (122)
T cd01526 70 DKDSPIYVVCRRG-NDSQ-TAVRKL-KELGL 97 (122)
T ss_pred CCCCcEEEECCCC-CcHH-HHHHHH-HHcCC
Confidence 4567899999998 4765 444555 44566
No 147
>cd01531 Acr2p Eukaryotic arsenate resistance proteins are members of the Rhodanese Homology Domain superfamily. Included in this CD is the Saccharomyces cerevisiae arsenate reductase protein, Acr2p, and other yeast and plant homologs.
Probab=21.47 E-value=5e+02 Score=22.78 Aligned_cols=19 Identities=21% Similarity=0.385 Sum_probs=12.9
Q ss_pred CCceEEEEcCCCCChhHHH
Q 005797 200 SKKYILVHCTHGHNRTGYM 218 (677)
Q Consensus 200 ~~~~VlVHC~~G~~RTG~l 218 (677)
.+..|+|||..|-.|+...
T Consensus 61 ~~~~iv~yC~~~~~r~~~a 79 (113)
T cd01531 61 KKDTVVFHCALSQVRGPSA 79 (113)
T ss_pred CCCeEEEEeecCCcchHHH
Confidence 4568999998444566543
No 148
>COG5016 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]
Probab=21.35 E-value=1.9e+02 Score=32.33 Aligned_cols=88 Identities=17% Similarity=0.259 Sum_probs=52.6
Q ss_pred HHHHHHHHHHcCCCeeEEEEcCCC----CCCC--CcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccC
Q 005797 127 FKQVIHQLRVLGRKLGLVIDLTNT----TRYY--PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHS 200 (677)
Q Consensus 127 ~~~l~~~~~~~~~~I~~VIdLt~~----~~~y--~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~ 200 (677)
.+..++..++.|.++...|+-|-+ ..+| -..++.+.|+..+.| .|....-++....+.+..+.+ .-
T Consensus 127 l~~ai~a~kk~G~h~q~~i~YT~sPvHt~e~yv~~akel~~~g~DSIci--KDmaGlltP~~ayelVk~iK~------~~ 198 (472)
T COG5016 127 LKTAIKAAKKHGAHVQGTISYTTSPVHTLEYYVELAKELLEMGVDSICI--KDMAGLLTPYEAYELVKAIKK------EL 198 (472)
T ss_pred HHHHHHHHHhcCceeEEEEEeccCCcccHHHHHHHHHHHHHcCCCEEEe--ecccccCChHHHHHHHHHHHH------hc
Confidence 345566677778888888877632 1233 135666788866665 444334555555554444332 23
Q ss_pred CceEEEEcCCCCChhHHHHHHHHHH
Q 005797 201 KKYILVHCTHGHNRTGYMIVHFLMR 225 (677)
Q Consensus 201 ~~~VlVHC~~G~~RTG~li~aYLm~ 225 (677)
+-+|.|||++- ||.-.+|||..
T Consensus 199 ~~pv~lHtH~T---sG~a~m~ylkA 220 (472)
T COG5016 199 PVPVELHTHAT---SGMAEMTYLKA 220 (472)
T ss_pred CCeeEEecccc---cchHHHHHHHH
Confidence 47899998754 45667777764
No 149
>PRK05568 flavodoxin; Provisional
Probab=20.50 E-value=6.6e+02 Score=22.90 Aligned_cols=113 Identities=12% Similarity=0.153 Sum_probs=60.7
Q ss_pred HHHHHcCCCeeEEEEcCCCCCCCCcchhhhCCcEEEEEecCCCCCCCCHHHHHHHHHHHHHHHHhcccCCceEEEEcCCC
Q 005797 132 HQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHG 211 (677)
Q Consensus 132 ~~~~~~~~~I~~VIdLt~~~~~y~~~~~~~~gI~y~~ip~~d~~~~P~~e~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G 211 (677)
+.+...|..+ .+++++.. +..++.+...=.+-.|+-..+ .+....+..|++.+... .+++.+++-|++|
T Consensus 24 ~~~~~~g~~v-~~~~~~~~----~~~~~~~~d~iilgsp~y~~~-~~~~~~~~~f~~~~~~~-----~~~k~~~~f~t~G 92 (142)
T PRK05568 24 EGAKENGAEV-KLLNVSEA----SVDDVKGADVVALGSPAMGDE-VLEEGEMEPFVESISSL-----VKGKKLVLFGSYG 92 (142)
T ss_pred HHHHHCCCeE-EEEECCCC----CHHHHHhCCEEEEECCccCcc-cccchhHHHHHHHhhhh-----hCCCEEEEEEccC
Confidence 3333334433 45677642 233565666666777776543 33224677777655332 2577888888888
Q ss_pred CC--hhHHHHHHHHHHhcCCCHHHH-HHHHHhcCCCCcCCHHHHHHHHHHHhhc
Q 005797 212 HN--RTGYMIVHFLMRSQSMSVAQA-IKKFAEVRPPGIYKNEYIEALYTFYHEK 262 (677)
Q Consensus 212 ~~--RTG~li~aYLm~~~~~s~~eA-i~~~~~~Rp~~i~~~~~l~~L~~~y~~~ 262 (677)
.+ .+.-.+... +...|+..-.. + +-.+.+++..+++..++-.++
T Consensus 93 ~~~~~~~~~~~~~-l~~~g~~~~~~~~------~~~~~p~~~~l~~~~~~g~~l 139 (142)
T PRK05568 93 WGDGEWMRDWVER-MEGYGANLVNEGL------IVNNTPEGEGIEKCKALGEAL 139 (142)
T ss_pred CCCChHHHHHHHH-HHHCCCEEeCCcE------EEecCCCHHHHHHHHHHHHHH
Confidence 74 333333333 45566642221 1 111235777777777665543
Done!