Query 006504
Match_columns 643
No_of_seqs 496 out of 2381
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 00:14:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006504.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006504hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2386 mRNA capping enzyme, g 100.0 2.9E-59 6.2E-64 493.2 18.0 378 82-475 3-391 (393)
2 COG5226 CEG1 mRNA capping enzy 100.0 1.9E-53 4.1E-58 425.2 14.6 310 311-638 12-351 (404)
3 PF01331 mRNA_cap_enzyme: mRNA 100.0 1.1E-45 2.4E-50 365.0 13.8 190 349-547 1-192 (192)
4 cd07895 Adenylation_mRNA_cappi 100.0 3.6E-40 7.9E-45 331.3 21.6 212 322-548 3-215 (215)
5 cd06846 Adenylation_DNA_ligase 99.9 8.6E-27 1.9E-31 228.3 18.1 178 346-548 1-182 (182)
6 KOG1719 Dual specificity phosp 99.9 4E-26 8.7E-31 209.8 9.8 171 66-264 1-172 (183)
7 cd07898 Adenylation_DNA_ligase 99.9 1.2E-23 2.5E-28 209.5 15.9 163 361-549 18-201 (201)
8 PTZ00242 protein tyrosine phos 99.9 3.5E-23 7.5E-28 199.9 17.2 146 100-263 14-159 (166)
9 PTZ00393 protein tyrosine phos 99.9 2.3E-22 5E-27 201.0 17.1 139 102-263 92-230 (241)
10 cd07903 Adenylation_DNA_ligase 99.9 2.8E-22 6E-27 203.0 17.7 166 360-551 29-224 (225)
11 cd07897 Adenylation_DNA_ligase 99.9 1.3E-21 2.7E-26 195.8 17.0 161 361-549 21-205 (207)
12 KOG1720 Protein tyrosine phosp 99.9 2.8E-21 6.1E-26 186.9 15.2 148 101-260 58-206 (225)
13 cd07906 Adenylation_DNA_ligase 99.9 3.8E-21 8.2E-26 189.8 15.8 157 363-548 15-189 (190)
14 cd07901 Adenylation_DNA_ligase 99.9 7.5E-21 1.6E-25 190.2 15.6 157 363-548 24-206 (207)
15 cd09232 Snurportin-1_C C-termi 99.9 1.6E-20 3.5E-25 183.7 16.8 162 363-548 20-185 (186)
16 cd07905 Adenylation_DNA_ligase 99.8 1.2E-20 2.6E-25 186.9 15.3 158 363-549 15-193 (194)
17 cd07900 Adenylation_DNA_ligase 99.8 1.1E-20 2.5E-25 190.4 15.4 164 360-549 27-218 (219)
18 cd08039 Adenylation_DNA_ligase 99.8 3.5E-20 7.6E-25 188.4 16.6 182 350-549 4-234 (235)
19 TIGR02779 NHEJ_ligase_lig DNA 99.8 4.9E-20 1.1E-24 194.2 16.6 169 363-559 11-192 (298)
20 PRK09247 ATP-dependent DNA lig 99.8 4.2E-20 9.2E-25 208.5 16.6 169 362-559 223-417 (539)
21 PRK07636 ligB ATP-dependent DN 99.8 1.2E-19 2.7E-24 188.8 18.6 162 363-559 17-195 (275)
22 PRK08224 ligC ATP-dependent DN 99.8 7.3E-20 1.6E-24 196.0 17.0 164 364-559 24-208 (350)
23 cd07902 Adenylation_DNA_ligase 99.8 8.7E-20 1.9E-24 183.3 14.8 158 364-549 34-212 (213)
24 TIGR00574 dnl1 DNA ligase I, A 99.8 1.3E-19 2.9E-24 204.2 16.2 167 364-558 187-385 (514)
25 smart00195 DSPc Dual specifici 99.8 2.2E-19 4.8E-24 167.6 13.9 113 139-260 25-137 (138)
26 PF00782 DSPc: Dual specificit 99.8 1.7E-19 3.6E-24 167.1 11.6 116 139-260 17-132 (133)
27 PRK03180 ligB ATP-dependent DN 99.8 6.6E-19 1.4E-23 197.4 15.4 164 364-559 204-390 (508)
28 PF01068 DNA_ligase_A_M: ATP d 99.8 8.4E-19 1.8E-23 174.1 13.2 159 363-547 18-202 (202)
29 PLN03113 DNA ligase 1; Provisi 99.8 2.5E-18 5.4E-23 198.3 17.0 173 360-558 387-591 (744)
30 PHA02587 30 DNA ligase; Provis 99.8 1.1E-17 2.3E-22 187.0 20.9 168 365-560 153-372 (488)
31 PRK01109 ATP-dependent DNA lig 99.8 1.9E-18 4.1E-23 197.3 14.8 167 364-559 248-446 (590)
32 PRK09632 ATP-dependent DNA lig 99.8 8.6E-18 1.9E-22 193.8 18.9 166 361-559 474-651 (764)
33 PRK05972 ligD ATP-dependent DN 99.8 1.2E-17 2.5E-22 194.4 19.0 166 364-559 249-427 (860)
34 PRK09633 ligD ATP-dependent DN 99.8 1.1E-17 2.4E-22 190.2 18.2 177 363-559 15-217 (610)
35 COG1793 CDC9 ATP-dependent DNA 99.8 9.9E-18 2.1E-22 184.7 15.9 167 365-560 134-323 (444)
36 PHA00454 ATP-dependent DNA lig 99.8 1.7E-17 3.6E-22 176.1 16.7 183 346-559 6-229 (315)
37 KOG1718 Dual specificity phosp 99.7 1E-17 2.2E-22 156.7 12.9 118 139-265 41-158 (198)
38 cd00127 DSPc Dual specificity 99.7 1.9E-17 4.1E-22 154.1 14.1 113 139-258 26-138 (139)
39 cd07896 Adenylation_kDNA_ligas 99.7 8.9E-17 1.9E-21 156.4 12.1 143 363-548 15-174 (174)
40 KOG1717 Dual specificity phosp 99.7 2E-16 4.4E-21 157.4 12.1 118 139-264 196-314 (343)
41 PRK12361 hypothetical protein; 99.7 6.7E-16 1.4E-20 175.9 16.2 120 139-264 119-239 (547)
42 PRK09125 DNA ligase; Provision 99.7 4.9E-16 1.1E-20 162.3 13.6 153 362-559 41-210 (282)
43 KOG1716 Dual specificity phosp 99.6 1.5E-15 3.3E-20 159.2 13.2 121 139-265 99-219 (285)
44 KOG2836 Protein tyrosine phosp 99.6 5.4E-15 1.2E-19 133.4 14.5 136 102-258 17-152 (173)
45 KOG0966 ATP-dependent DNA liga 99.6 2.7E-14 5.8E-19 160.0 14.6 210 322-552 198-441 (881)
46 KOG2386 mRNA capping enzyme, g 99.5 8.7E-15 1.9E-19 156.0 4.0 208 341-563 38-255 (393)
47 KOG2283 Clathrin coat dissocia 99.5 1.9E-13 4.2E-18 149.2 11.9 150 99-260 17-172 (434)
48 COG2453 CDC14 Predicted protei 99.4 1.1E-12 2.3E-17 128.7 13.4 101 153-258 62-163 (180)
49 TIGR02776 NHEJ_ligase_prk DNA 99.4 1.3E-12 2.9E-17 147.4 12.7 141 390-560 1-154 (552)
50 PF03162 Y_phosphatase2: Tyros 99.3 9.6E-12 2.1E-16 120.0 7.5 104 132-244 26-133 (164)
51 KOG0967 ATP-dependent DNA liga 99.2 8E-11 1.7E-15 129.9 12.7 177 359-558 360-565 (714)
52 PF03919 mRNA_cap_C: mRNA capp 99.2 5E-12 1.1E-16 112.8 1.9 85 550-639 1-97 (105)
53 PF05706 CDKN3: Cyclin-depende 99.2 8.8E-11 1.9E-15 111.8 9.0 99 130-235 63-168 (168)
54 smart00012 PTPc_DSPc Protein t 99.1 1.2E-09 2.5E-14 95.9 11.6 91 166-258 5-102 (105)
55 smart00404 PTPc_motif Protein 99.1 1.2E-09 2.5E-14 95.9 11.6 91 166-258 5-102 (105)
56 cd07894 Adenylation_RNA_ligase 99.0 3.6E-09 7.7E-14 113.3 13.9 142 364-533 48-195 (342)
57 TIGR01244 conserved hypothetic 98.9 1.4E-08 3E-13 95.0 13.4 108 121-242 11-125 (135)
58 cd00047 PTPc Protein tyrosine 98.8 2.5E-08 5.3E-13 101.3 11.0 93 164-258 130-228 (231)
59 PRK15375 pathogenicity island 98.7 5.4E-08 1.2E-12 106.8 11.1 99 164-262 423-529 (535)
60 PLN02727 NAD kinase 98.7 1.1E-07 2.3E-12 110.6 13.1 103 121-233 265-373 (986)
61 smart00194 PTPc Protein tyrosi 98.7 1.1E-07 2.4E-12 98.2 10.7 84 171-258 166-255 (258)
62 PF14566 PTPlike_phytase: Inos 98.3 9E-07 2E-11 84.2 6.5 66 154-225 83-148 (149)
63 PF04273 DUF442: Putative phos 98.3 2.1E-06 4.5E-11 77.5 8.3 85 124-221 14-105 (110)
64 PHA02740 protein tyrosine phos 98.3 4.3E-06 9.2E-11 88.5 11.8 88 170-257 185-282 (298)
65 PF13350 Y_phosphatase3: Tyros 98.3 2.2E-06 4.8E-11 82.7 7.6 105 126-239 31-161 (164)
66 PHA02742 protein tyrosine phos 98.2 6.5E-06 1.4E-10 87.4 11.6 88 170-257 190-290 (303)
67 PF00102 Y_phosphatase: Protei 98.2 6.3E-06 1.4E-10 83.0 11.0 84 171-258 143-232 (235)
68 PHA02747 protein tyrosine phos 98.2 7.6E-06 1.7E-10 87.2 11.5 85 170-255 191-288 (312)
69 KOG1572 Predicted protein tyro 98.2 1.8E-05 4E-10 79.1 13.1 116 139-261 84-205 (249)
70 PHA02746 protein tyrosine phos 98.2 9E-06 1.9E-10 87.1 11.2 88 171-258 210-309 (323)
71 PHA02738 hypothetical protein; 98.0 3.2E-05 6.9E-10 82.7 11.1 88 170-257 186-288 (320)
72 KOG0790 Protein tyrosine phosp 97.9 8.4E-06 1.8E-10 87.3 5.0 91 165-256 416-514 (600)
73 COG2365 Protein tyrosine/serin 97.9 2.5E-05 5.3E-10 80.7 8.3 47 201-247 136-182 (249)
74 COG3453 Uncharacterized protei 97.7 0.00039 8.4E-09 62.7 11.4 103 121-237 12-121 (130)
75 KOG3132 m3G-cap-specific nucle 97.7 0.00082 1.8E-08 67.3 13.7 154 364-541 116-271 (325)
76 KOG0792 Protein tyrosine phosp 97.7 0.00011 2.4E-09 86.3 8.5 90 170-263 1035-1134(1144)
77 COG5599 PTP2 Protein tyrosine 97.6 8.8E-05 1.9E-09 75.4 5.6 87 171-262 193-293 (302)
78 KOG0791 Protein tyrosine phosp 97.4 0.00067 1.5E-08 72.0 9.0 94 166-263 255-354 (374)
79 TIGR01209 RNA ligase, Pab1020 97.1 0.006 1.3E-07 65.9 13.0 180 343-556 57-245 (374)
80 COG5350 Predicted protein tyro 97.1 0.0063 1.4E-07 57.3 11.2 109 139-253 31-146 (172)
81 KOG0789 Protein tyrosine phosp 97.1 0.002 4.3E-08 71.0 9.4 88 166-257 267-361 (415)
82 PF14671 DSPn: Dual specificit 96.3 0.011 2.4E-07 55.6 6.9 72 171-244 38-113 (141)
83 KOG0793 Protein tyrosine phosp 96.0 0.014 3E-07 66.3 6.9 89 166-257 895-989 (1004)
84 COG1423 ATP-dependent DNA liga 95.5 0.32 6.9E-06 51.8 14.1 158 363-555 87-252 (382)
85 KOG4228 Protein tyrosine phosp 95.0 0.024 5.2E-07 67.9 4.7 83 171-256 703-790 (1087)
86 PF01653 DNA_ligase_aden: NAD- 95.0 0.33 7.3E-06 51.9 13.0 145 365-535 108-293 (315)
87 KOG4228 Protein tyrosine phosp 94.1 0.082 1.8E-06 63.5 6.3 82 176-258 994-1080(1087)
88 PF04179 Init_tRNA_PT: Initiat 93.8 1 2.2E-05 50.5 13.8 114 139-257 317-448 (451)
89 smart00532 LIGANc Ligase N fam 93.2 2.8 6E-05 47.1 16.0 161 365-551 104-312 (441)
90 cd00114 LIGANc NAD+ dependent 92.9 1.6 3.5E-05 46.6 13.1 145 364-535 101-286 (307)
91 KOG3673 FtsJ-like RNA methyltr 92.5 0.51 1.1E-05 52.8 8.8 94 415-523 633-732 (845)
92 PRK07956 ligA NAD-dependent DN 90.6 8.9 0.00019 45.3 17.0 142 365-532 109-292 (665)
93 TIGR00575 dnlj DNA ligase, NAD 89.7 12 0.00025 44.3 17.0 161 365-552 97-306 (652)
94 PHA02142 putative RNA ligase 89.7 7.3 0.00016 42.5 14.1 102 363-467 168-297 (366)
95 PF09414 RNA_ligase: RNA ligas 88.9 0.97 2.1E-05 44.2 6.4 102 365-467 2-128 (186)
96 PRK14351 ligA NAD-dependent DN 88.5 22 0.00049 42.2 18.2 140 365-535 133-317 (689)
97 PRK14350 ligA NAD-dependent DN 88.2 27 0.00059 41.3 18.5 99 364-468 110-242 (669)
98 PRK08097 ligB NAD-dependent DN 86.2 17 0.00037 42.0 15.1 157 365-552 119-310 (562)
99 cd01518 RHOD_YceA Member of th 81.5 8.6 0.00019 33.3 8.1 29 199-230 59-87 (101)
100 PLN02160 thiosulfate sulfurtra 80.5 5.5 0.00012 37.1 6.9 86 124-230 16-107 (136)
101 TIGR02307 RNA_lig_RNL2 RNA lig 80.0 13 0.00028 40.0 10.2 106 361-467 22-144 (325)
102 cd01523 RHOD_Lact_B Member of 74.9 21 0.00045 30.8 8.6 29 199-230 59-87 (100)
103 KOG4471 Phosphatidylinositol 3 72.8 7.2 0.00016 44.6 6.1 27 198-224 371-397 (717)
104 PF06602 Myotub-related: Myotu 66.9 13 0.00027 40.7 6.4 22 199-220 229-250 (353)
105 PF05098 LEF-4: Late expressio 63.6 2.6E+02 0.0056 31.6 16.9 203 363-624 233-450 (450)
106 PF00581 Rhodanese: Rhodanese- 63.3 43 0.00092 28.8 8.1 91 126-230 1-98 (113)
107 cd01522 RHOD_1 Member of the R 59.0 49 0.0011 29.7 7.8 28 199-229 62-89 (117)
108 PRK00142 putative rhodanese-re 57.4 48 0.001 35.5 8.7 88 121-230 110-197 (314)
109 TIGR03865 PQQ_CXXCW PQQ-depend 56.0 1.4E+02 0.003 28.6 10.9 30 199-230 114-143 (162)
110 cd01448 TST_Repeat_1 Thiosulfa 51.7 35 0.00076 30.4 5.7 30 199-230 77-106 (122)
111 PRK01415 hypothetical protein; 50.6 99 0.0021 32.1 9.3 104 102-230 94-197 (247)
112 COG0272 Lig NAD-dependent DNA 46.2 2.9E+02 0.0064 32.7 13.1 159 363-551 108-317 (667)
113 PF03668 ATP_bind_2: P-loop AT 46.2 31 0.00068 36.4 4.9 39 181-219 215-260 (284)
114 PRK05320 rhodanese superfamily 44.9 1.7E+02 0.0037 30.4 10.1 89 123-230 110-201 (257)
115 TIGR02306 RNA_lig_DRB0094 RNA 44.2 2.1E+02 0.0045 31.2 10.9 104 363-468 158-277 (341)
116 cd01530 Cdc25 Cdc25 phosphatas 43.6 1.3E+02 0.0028 27.2 8.1 26 199-225 66-91 (121)
117 cd01443 Cdc25_Acr2p Cdc25 enzy 43.5 1.4E+02 0.003 26.3 8.2 18 200-217 65-82 (113)
118 cd01533 4RHOD_Repeat_2 Member 42.7 33 0.00072 30.1 4.0 27 200-229 65-91 (109)
119 COG0607 PspE Rhodanese-related 41.4 28 0.00061 30.0 3.3 29 199-230 59-87 (110)
120 PRK05416 glmZ(sRNA)-inactivati 39.3 45 0.00097 35.3 4.9 39 181-219 218-263 (288)
121 PRK05600 thiamine biosynthesis 39.3 66 0.0014 35.3 6.4 82 124-229 272-357 (370)
122 PRK05569 flavodoxin; Provision 38.1 2.7E+02 0.0059 25.3 9.6 109 137-261 29-138 (141)
123 COG1660 Predicted P-loop-conta 37.6 44 0.00096 34.9 4.3 39 181-219 216-261 (286)
124 KOG1089 Myotubularin-related p 37.6 55 0.0012 37.8 5.5 21 200-220 343-363 (573)
125 PF10640 Pox_ATPase-GT: mRNA c 33.0 1.6E+02 0.0034 31.4 7.4 100 316-428 177-283 (313)
126 PF05763 DUF835: Protein of un 31.6 1.2E+02 0.0026 28.4 6.0 77 155-246 32-108 (136)
127 cd05567 PTS_IIB_mannitol PTS_I 30.7 49 0.0011 28.1 2.9 19 202-221 1-19 (87)
128 PRK07411 hypothetical protein; 30.6 1.2E+02 0.0027 33.4 6.8 28 200-230 341-368 (390)
129 cd01532 4RHOD_Repeat_1 Member 29.6 78 0.0017 26.8 4.1 29 200-229 49-77 (92)
130 KOG1530 Rhodanese-related sulf 29.1 87 0.0019 29.3 4.3 78 123-217 23-104 (136)
131 KOG3824 Huntingtin interacting 28.4 2.4E+02 0.0053 30.3 8.0 65 164-229 319-396 (472)
132 cd01447 Polysulfide_ST Polysul 27.1 70 0.0015 27.2 3.4 28 199-229 59-86 (103)
133 cd01520 RHOD_YbbB Member of th 26.8 80 0.0017 28.7 3.9 30 199-230 84-113 (128)
134 PF04343 DUF488: Protein of un 26.7 3.4E+02 0.0073 24.5 7.9 44 128-173 3-54 (122)
135 COG1054 Predicted sulfurtransf 26.5 3.9E+02 0.0085 28.6 9.1 86 122-229 112-197 (308)
136 cd01519 RHOD_HSP67B2 Member of 26.2 82 0.0018 27.1 3.7 28 200-230 65-92 (106)
137 COG5016 Pyruvate/oxaloacetate 25.3 1.4E+02 0.003 33.2 5.8 89 126-225 126-220 (472)
138 cd01534 4RHOD_Repeat_3 Member 24.9 93 0.002 26.4 3.7 28 200-230 55-82 (95)
139 cd01529 4RHOD_Repeats Member o 24.3 85 0.0018 26.7 3.3 28 199-229 54-81 (96)
140 PF02673 BacA: Bacitracin resi 22.8 76 0.0017 33.1 3.2 27 209-237 159-185 (259)
141 cd01526 RHOD_ThiF Member of th 22.5 1E+02 0.0023 27.6 3.7 28 199-229 70-97 (122)
142 COG0696 GpmI Phosphoglyceromut 22.2 3.8E+02 0.0082 30.6 8.5 172 79-270 47-236 (509)
143 PF13292 DXP_synthase_N: 1-deo 22.2 1.4E+02 0.003 31.4 4.8 40 157-208 229-268 (270)
144 cd01528 RHOD_2 Member of the R 21.2 1.3E+02 0.0028 25.8 3.9 28 200-230 57-84 (101)
No 1
>KOG2386 consensus mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=100.00 E-value=2.9e-59 Score=493.20 Aligned_cols=378 Identities=40% Similarity=0.651 Sum_probs=308.9
Q ss_pred CCCCCCCCCccCCCCCCc-ccCceeecCCCCccccccCCCCCC-CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchh
Q 006504 82 DRNKLPPGWLDCPPFGQE-IGGCIIPSKVPLSEFFNDCIPPGK-RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDL 159 (643)
Q Consensus 82 ~~~~~p~~W~~~~~~g~~-I~~~flp~K~PL~~~~~~~v~~~~-r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~ 159 (643)
....+|++|++||+.|++ +.++|||+|+||++.++.++++++ +|++.+++++++.++..||+|||||++.+||+..++
T Consensus 3 ~~~~lp~~w~~~p~~G~~~~~~rfi~~K~pL~~~~~~k~~~~~~~f~~~dl~~~l~~~~~~vgl~iDltnt~ryy~~~~~ 82 (393)
T KOG2386|consen 3 APGELPPRWLDCPPVGAVIDDTRFIPFKTPLNSSYSTKTFPGSQRFQPKDLFELLKEHNYKVGLKIDLTNTLRYYDKPEL 82 (393)
T ss_pred CcccCCcccccCCCCCCccccceEEEEecccCCCCCcCCCCCccccCHHHHHHHHHhcCceEEEEEeccceeeeeccccc
Confidence 345899999999999997 468999999999999999999999 999999999999999999999999999999999999
Q ss_pred hcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHH
Q 006504 160 KKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFA 239 (643)
Q Consensus 160 ~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~ 239 (643)
+..|+.|+++.|.|++.+|+.+.+..|++.+..|....+.+++.|+|||+||+||||+|||+|||...+|+..+|++.|+
T Consensus 83 ~~~g~~Y~K~~c~g~~~vp~~~~v~~fv~~v~~f~~~~~~~~~LI~vhcthG~NrtgyLI~~yL~~~~~~s~~~aik~f~ 162 (393)
T KOG2386|consen 83 EERGVKYLKRNCPGRGVVPRTELVDKFVKLVKGFVDDTKLDDELIGVHCTHGLNRTGYLICAYLADVGGYSSSEAIKRFA 162 (393)
T ss_pred cccceeEEEeccCCcccCCCccchHHHHHHHHHHHhcccCCCCEEEEeCCCcccccceeeeeeeeeccCccHHHHHHHHH
Confidence 99999999999999999999999999999999999988899999999999999999999999999999999999999999
Q ss_pred hcCCCCcCCHHHHHHHHHHHhhcCCCCCCCCCCCccccccccC--CCCCCCCCCCCCcc--cccc--cccc-ccccCCCC
Q 006504 240 EVRPPGIYKNEYIEALYTFYHEKRLDSTPCPSTPEWKRELDLN--GEAVPDDDDDGVPA--AALH--ENNE-VTMTNDDV 312 (643)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~~y~~~~~~~~~~p~~P~W~~~~~~~--~~~~~d~~~~~~~~--~~~~--~~~~-~~~~~~~v 312 (643)
.+||++|++++|+.+|+.+|++..+..+.+|..|.|+.+...+ .+.+.++|+...+. .|.. ++.+ ..+.++.+
T Consensus 163 ~~r~~gi~k~dyi~~L~~~~~~~~p~~vs~p~~~~~~~~~~~~~~~~~~~~~Dg~i~t~~~~pg~~~g~~~~~~k~k~~~ 242 (393)
T KOG2386|consen 163 DARPPGIEKQDYIDALYSRYHDIFPFKVSCPSMPDWKRSIKLKKPVHKLHGNDGLIFTPAEIPGSKNGKQEALLKWKPFS 242 (393)
T ss_pred HhCCCccCchHHHHHHhhcccccccccccCCCCcchhhhhhhccccccccccCCCcCCcccCccccccchhhhhcCCchh
Confidence 9999999999999999999999997789999999999954332 22222222221111 1221 1111 11222333
Q ss_pred CCCccChhhHHHHHHHHHHhhcccCCCCCCCCCCCCccccccccchhhhhcCCeEEeEecCceEEEEEEECCE-EEEEeC
Q 006504 313 LGDEIPNDQQDAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDG-CYLIDR 391 (643)
Q Consensus 313 ~G~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~FPG~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~~~-vyLidR 391 (643)
+|+.++..+...-|..++.+.. ....+ |+|||| |.|++++....|.++||+||+|||||+++++ +|++||
T Consensus 243 ~n~~~~~~~~~~~q~~~~~l~~------~~~~~-g~~~~~--r~~~~~~~~~~y~~~We~dg~~~~~L~~~~~~~~~~dR 313 (393)
T KOG2386|consen 243 LNTIDFGVKLEKPQPELGDLQC------KRKNE-GAQPVS--RENYKLLVFEYYEASWEADGTRYMMLIDGDGEYYDFDR 313 (393)
T ss_pred cCCcccceeecCCCCCccchhh------hhccc-ccCCcc--ccchhhhhhhhhhhhhcccCcEEEEEecCCceeEechh
Confidence 3433332222222333333331 11334 999999 9999999999999999999999999999876 788888
Q ss_pred CCc-cccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCCCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhc
Q 006504 392 CFN-FRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVI 470 (643)
Q Consensus 392 ~~~-~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~ 470 (643)
.+. +..-+++||..... ...+..||+||||++|+..... .++|++||++.+|++.+...||. |++++.++|+
T Consensus 314 ~~~~~~~~~~~~~~~~~~----~~~~~~tl~dge~~lD~l~~~~--~~r~l~Yd~~r~n~~~v~~~~f~-r~~~~~~evi 386 (393)
T KOG2386|consen 314 WRFVKGRENLRKIREDSD----TKVLHQTLLDGEMILDRLKEEA--IPRYLIYDMVRFNSQKVEKRPFS-RWQIIEKEVI 386 (393)
T ss_pred hhHHHhhhhhhccccccc----chhhhhhhcccceecccccccc--chhheeeeeeeccCcccccCcch-HHHHHHHHhc
Confidence 765 44446777654332 1345889999999999876554 78999999999999999999999 9999999999
Q ss_pred Ccccc
Q 006504 471 EPRNY 475 (643)
Q Consensus 471 ~p~~~ 475 (643)
+|+..
T Consensus 387 ~~r~~ 391 (393)
T KOG2386|consen 387 DPREL 391 (393)
T ss_pred Cchhc
Confidence 99854
No 2
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=100.00 E-value=1.9e-53 Score=425.20 Aligned_cols=310 Identities=30% Similarity=0.436 Sum_probs=244.6
Q ss_pred CCCCCccChhhHHHHHHHHHHhhcccCCCCCCCCCCCCccccccccchhhhhcCCeEEeEecCceEEEEEEECC------
Q 006504 311 DVLGDEIPNDQQDAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITID------ 384 (643)
Q Consensus 311 ~v~G~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~FPG~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~~------ 384 (643)
.++|..+|++.++.|+-++.++|+.. .....|||||||||+.+|++.|..++|+||||+||+|+||+++.+
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 47899999999999999999999753 234899999999999999999999999999999999999999853
Q ss_pred EEEEEeCCCccccccccCCC-cCC-cccccccCCCCeeeeEEEEEecCCCCCccceEEEEEEEeecCCccccCCCHHHHH
Q 006504 385 GCYLIDRCFNFRRVQMRFPC-RNS-NEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERW 462 (643)
Q Consensus 385 ~vyLidR~~~~~~v~~~FP~-~~~-~~~l~~~~~~~TlLDGElV~d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl 462 (643)
++|++||.|+||.++-.||. ... .+| +..+.+|+||||+|.|..+.++-+.++|++||||+++|.-+++++.++|+
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 69999999999988755544 321 123 35689999999999998876654568999999999999999999999999
Q ss_pred HHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCC
Q 006504 463 KMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEG 542 (643)
Q Consensus 463 ~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~ 542 (643)
+.|++++.+|+...+. .-.++....||.+.+|.|...+++-++++. +|.+.|++|||||||++.||+.|++..
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 KTLQKEDEKPRERKRV------SIEIDSGSFPFHFSVKQMLKSYGFWKIYKK-IPELKHGNDGLIFTPADEPYSVGKDGA 239 (404)
T ss_pred HHhhhhhcccHhhhhh------eeeccccccceeeeHHHHHhhhhHHHHHhh-cccccCCCCceEeccCCCCcccCccce
Confidence 9999999999865442 122344567999999999999999999955 799999999999999999999999999
Q ss_pred eEEEecCCcceEEEEEEEcCC------------CceEEEEEecCccc--cccCceeeecC-----CCCCCcccc-e-EEe
Q 006504 543 LLKWKYARMNSVDFLFEVTDD------------DRQLLYVFERGKKK--LMEGSSVEFTG-----SFSSQLTSF-L-KQT 601 (643)
Q Consensus 543 lLKWKp~~~nTVDF~l~~~~~------------~~~~L~l~~~g~~~--~~~~~~v~f~~-----~~~~~~~d~-I-~~d 601 (643)
+|||||.++|||||++.++.. +...|++.. |++. +|....| .+. ..+-..|.+ | +|-
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 LLKWKPASLNTIDFRLVLHKKWSEVDDYNYVCSPKFGLDVWF-GRKTYRFFASGEV-IDGEWCELKYDCDPLYWRIVECV 317 (404)
T ss_pred eeecCccccCceeeeeeeccccccccCcceeecccccccEEe-cccceeeeeeeEe-chHHHHHHhhhcccchhhHHHHH
Confidence 999999999999999988642 122344433 2221 1222222 100 011122333 3 443
Q ss_pred C-CCCceeEeeeeeecCCCcCCCCcccccccccccccC
Q 006504 602 P-ALLFWMPKFVFYIRSPSHDAYNGIKPKMDPLVMLNG 638 (643)
Q Consensus 602 ~-~~~~W~~~~~~~~~R~Dk~~pN~~~~v~~~l~~~~~ 638 (643)
- ..+.|++-| .|.||+.||+|.+|.+-|++++.
T Consensus 318 l~~e~~W~~lr----fRdDK~~~NhisvV~~VLeSi~D 351 (404)
T COG5226 318 LKKEGAWKLLR----FRDDKDTPNHISVVCNVLESIRD 351 (404)
T ss_pred hccCCceEEEE----eecCCCCCchhhHHHHHHHHHhc
Confidence 2 234799655 99999999999999888887753
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=1.1e-45 Score=364.99 Aligned_cols=190 Identities=46% Similarity=0.832 Sum_probs=158.1
Q ss_pred ccccccccchhhhhcCCeEEeEecCceEEEEEEECCEEEEEeCCCcccccc-ccCCCcCCcccccccCCCCeeeeEEEEE
Q 006504 349 HPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQ-MRFPCRNSNEGLGEKTHHFTLLDGEMII 427 (643)
Q Consensus 349 qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~-~~FP~~~~~~~l~~~~~~~TlLDGElV~ 427 (643)
|||||+|+||+.|.+++|+||||+||+||||++.++++|||||+++++.++ +.||..... .....+++||||||||.
T Consensus 1 qPVS~~r~~l~~l~~~~Y~V~eKaDG~Ryll~i~~~~~ylidr~~~~~~v~~~~~p~~~~~--~~~~~~~~TLLDGElV~ 78 (192)
T PF01331_consen 1 QPVSFSRKNLQLLQQKDYFVCEKADGTRYLLLITDNGVYLIDRKNNVFKVDNLHFPSKKDS--SDGRHHQDTLLDGELVL 78 (192)
T ss_dssp EEEE--TTGHHHHHHS-EEEEEEESSEEEEEEEEEEEEEEEETTS-EEEESSST-ECTTC----TTCEGCSEEEEEEEEE
T ss_pred CCcccchhhHHHHhhCCcEEEECCCCcEEEEEEecceEEEEeCCCcEEEecCccccccccc--ccccccCCEEEEEEEEc
Confidence 899999999999999999999999999999999999999999999988887 899987531 01245689999999999
Q ss_pred ecCCCCCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechh
Q 006504 428 DKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLST 507 (643)
Q Consensus 428 d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~ 507 (643)
|+.++ ...++|||||||+++|++++++||.+|+.+|++.|++|+...+ . ..+.+..+++||.++.|+|++++.
T Consensus 79 d~~~~--~~~~~flifD~l~~~G~~v~~~~~~~Rl~~l~~~i~~p~~~~~--~---~~~~~~~~~~pf~i~~K~~~~~~~ 151 (192)
T PF01331_consen 79 DKDPG--EKKPRFLIFDILAINGQNVTDKPLDERLAYLQEEIIEPRKNAE--L---KSGIIKKKKEPFSIRIKDFFPIYQ 151 (192)
T ss_dssp EECTT--CEEEEEEEEEEEEETTEEGCCSBHHHHHHHHHHHTHHHHHHHH--C---HTTSCTCTTSSSEEEE---EEGGG
T ss_pred ccCCC--CCceEEEEEeeehhCCcEeccCCHHHHHHHHHHHHHHHHHhhc--c---ccccccccccceeeeccccHHHHh
Confidence 98766 3589999999999999999999999999999999999986552 0 134456678999999999999999
Q ss_pred HHH-HHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEe
Q 006504 508 VNK-LLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWK 547 (643)
Q Consensus 508 ~~~-l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWK 547 (643)
++. +...++++++|++|||||||.+.||++|||.++||||
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 999 4568889999999999999999999999999999998
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=3.6e-40 Score=331.33 Aligned_cols=212 Identities=44% Similarity=0.694 Sum_probs=174.7
Q ss_pred HHHHHHHHHHhhcccCCCCCCCCCCCCccccccccchhhhhcCCeEEeEecCceEEEEEEEC-CEEEEEeCCCccccccc
Q 006504 322 QDAFRHFCYQTLKLNFGGRGNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITI-DGCYLIDRCFNFRRVQM 400 (643)
Q Consensus 322 ~~~l~~~~~~~~~~~~~~~~~~~FPG~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~-~~vyLidR~~~~~~v~~ 400 (643)
...|+..+.++|. .....+|||||||||+++|+..+...+|+||||+||+|++|++.+ +++||+||+++++..
T Consensus 3 ~~~l~~~~~~~~~----~~~~~~FpG~~pvs~~~~~~~~~~~~~y~ve~K~DG~R~~l~~~~~~~v~l~sR~~~~~~~-- 76 (215)
T cd07895 3 LSELRRKVAELCP----GWERGGFPGSQPVSFSRKNLELLKQNDYFVCEKSDGVRYLLLITGRGEVYLIDRKNDVFKV-- 76 (215)
T ss_pred HHHHHHHHHHHhc----ccCCCCCCCCCccCccHHHHHHHhhCCeEEEEeEcCeEEEEEEecCCcEEEEeCCCCeEEe--
Confidence 3467777777772 234689999999999999999999999999999999999999999 899999999986644
Q ss_pred cCCCcCCcccccccCCCCeeeeEEEEEecCCCCCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccc
Q 006504 401 RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNI 480 (643)
Q Consensus 401 ~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i 480 (643)
.||....... ......+|+||||||.+..++ +..++|+|||||+++|+++++.||.+|+++|++.+..+.....
T Consensus 77 ~~~~~~~~~~-~~~~~~~~ilDGElv~~~~~~--~~~~~~~vFDiL~~~g~~l~~~pl~~R~~~L~~~i~~~~~~~~--- 150 (215)
T cd07895 77 PGLFFPRRKN-LEPHHQGTLLDGELVIDKVPG--KKRPRYLIFDILAFNGQSVTEKPLSERLKYIKKEVIEPRNELL--- 150 (215)
T ss_pred ccccCCCccc-ccccccCeeeEEEEEEEcCCC--ceEEEEEEEEEEEECCcCccCCCHHHHHHHHHHhchhHHHHhh---
Confidence 4444321000 112347899999999987544 2478999999999999999999999999999998877653321
Q ss_pred cccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEec
Q 006504 481 YQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKY 548 (643)
Q Consensus 481 ~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp 548 (643)
.+........+|.|+.|+|+++++++.+|+.+.+.+.|++||||||+.++||.+||+..||||||
T Consensus 151 ---~~~~~~~~~~~~~i~~k~~~~~~~~~~~~~~~~~~~~~~~EGlIfk~~~~~Y~~Gr~~~~lKwKp 215 (215)
T cd07895 151 ---KKGPIDKAKEPFSVRLKDFFPLYKIEKLFEKIIPKLPHENDGLIFTPNDEPYVPGTDKNLLKWKP 215 (215)
T ss_pred ---hcChhhcCCCCeEEEecceEeHHhHHHHHHhccccCCCCCCCEEEccCCCCccCccCCcceeeCC
Confidence 01122345679999999999999999999988788999999999999999999999999999998
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=8.6e-27 Score=228.29 Aligned_cols=178 Identities=21% Similarity=0.287 Sum_probs=138.9
Q ss_pred CCCccccccccchhhhhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEE
Q 006504 346 PGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEM 425 (643)
Q Consensus 346 PG~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGEl 425 (643)
|+++|+|+.+.+...+...+|+|++|+||+|+++++.+++++++||++..+ +..||.... ..+ ...+..++|||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~e~K~DG~R~~~~~~~~~v~~~sR~g~~~--~~~~~~~~~-~~~-~~~~~~~ilDGEl 76 (182)
T cd06846 1 PQLLNPILEEALSEYDEQDEYYVQEKYDGKRALIVALNGGVFAISRTGLEV--PLPSILIPG-REL-LTLKPGFILDGEL 76 (182)
T ss_pred CCccchhhhHHHhhccccCcEEEEEccCceEEEEEEcCCeEEEEeCCCCEE--ecccccccc-hHH-hccCCCeeEEEEE
Confidence 467899999997777788999999999999999999999999999999743 334443311 011 1235789999999
Q ss_pred EEecCCCCCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceec
Q 006504 426 IIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (643)
Q Consensus 426 V~d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~ 505 (643)
|....+. .+..++|++||+|+++|.+++++||.+|+++|++.+..... ..++.+..+.....
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 9975433 23468999999999999999999999999999997743211 03455666666555
Q ss_pred hh--HHHHHHHhcccccCCCceeEEecCCCCC--cCCCCCCeEEEec
Q 006504 506 ST--VNKLLKEFIPKLSHDADGLVFQGWDDPY--VPRTHEGLLKWKY 548 (643)
Q Consensus 506 ~~--~~~l~~~~~~~l~h~~DGLIf~p~~spY--~~Gt~~~lLKWKp 548 (643)
.. +..+++. ...|+.|||||++.++|| .+|++..|+||||
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 44 4566654 467999999999999999 9999999999998
No 6
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.93 E-value=4e-26 Score=209.78 Aligned_cols=171 Identities=18% Similarity=0.331 Sum_probs=138.1
Q ss_pred CccceeecccccccccCCCCCCCCCccCCCCCCcccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEE
Q 006504 66 PAMHDQYYQNKNYKSYDRNKLPPGWLDCPPFGQEIGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVI 145 (643)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~p~~W~~~~~~g~~I~~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VI 145 (643)
+.||++||||+.||+.|...---+| | ++++-+--..+||.. .- ..++. ..+++.||
T Consensus 1 ~~ar~~fyptllynvv~~k~s~~~w--y-~~~~~v~~~~~~FrS----~~------------~~~i~-----ke~v~gvv 56 (183)
T KOG1719|consen 1 MGARVLFYPTLLYNVVREKASAFRW--Y-RIDEFVILGAMPFRS----MD------------VPLIK-----KENVGGVV 56 (183)
T ss_pred CCceeeecHHHHHHHHHHHHhhhce--e-eecceEEEeeccccc----cc------------chHHH-----hcCCCeEE
Confidence 3589999999999999988777888 4 444442111244332 11 12222 26899999
Q ss_pred EcCCCCCCC-CcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHH
Q 006504 146 DLTNTTRYY-PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM 224 (643)
Q Consensus 146 dLt~~~~~Y-d~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm 224 (643)
.||.+..+- ...+|+..||+++.||+.|....|+.+.|.+.+ +||.+....|+.|+|||++|.+||+|+++||||
T Consensus 57 ~~ne~yE~~a~s~~wk~~giE~L~i~T~D~~~~Ps~~~i~~aV----eFi~k~asLGktvYVHCKAGRtRSaTvV~cYLm 132 (183)
T KOG1719|consen 57 TLNEPYELLAPSNLWKNYGIEFLVIPTRDYTGAPSLENIQKAV----EFIHKNASLGKTVYVHCKAGRTRSATVVACYLM 132 (183)
T ss_pred EeCCchhhhhhhHHHHhccceeEEeccccccCCCCHHHHHHHH----HHHHhccccCCeEEEEecCCCccchhhhhhhhh
Confidence 998653332 335899999999999999998999999998777 577766778999999999999999999999999
Q ss_pred HhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 006504 225 RSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (643)
Q Consensus 225 ~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (643)
+..+|++++|++++++.||.....++|++.|.+||.....
T Consensus 133 q~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~ef~~~~~~ 172 (183)
T KOG1719|consen 133 QHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKEFYKQIVA 172 (183)
T ss_pred hhcCCCHHHHHHHHHhcCcceeecHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999998654
No 7
>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=1.2e-23 Score=209.47 Aligned_cols=163 Identities=21% Similarity=0.276 Sum_probs=121.9
Q ss_pred hhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC-------
Q 006504 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS------- 433 (643)
Q Consensus 361 l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~------- 433 (643)
....+|++++|+||+|+++++.+++++++||++.-+ +..||..... .....++++||||||.-..++.
T Consensus 18 ~~~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~~--t~~~p~i~~~---~~~~~~~~vLDGElv~~~~~~~~~f~~~~ 92 (201)
T cd07898 18 KKPAAAWVEDKYDGIRAQVHKDGGRVEIFSRSLEDI--TDQFPELAAA---AKALPHEFILDGEILAWDDNRGLPFSELF 92 (201)
T ss_pred hCCCeEEEEEeeceEEEEEEEeCCEEEEEcCCChhc--hhhhhhHHHH---HHhCCCCEEEEEEEEEEeCCCCCcHHHHH
Confidence 345689999999999999999999999999999733 4567754321 1123578999999986422211
Q ss_pred -------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEec
Q 006504 434 -------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (643)
Q Consensus 434 -------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K 500 (643)
....+.|+|||+|+++|++++++||.+|+++|++.+.... -.+...
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~p~~eR~~~L~~~~~~~~---------------------~~i~~~ 151 (201)
T cd07898 93 KRLGRKFRDKFLDEDVPVVLMAFDLLYLNGESLLDRPLRERRQLLEELFVEIP---------------------GRIRIA 151 (201)
T ss_pred HHhcccccchhhhccCcEEEEEEeEEeECCcchhhCCHHHHHHHHHHhhcCCC---------------------CcEEEe
Confidence 1234799999999999999999999999999999653210 113444
Q ss_pred cceechhHHHHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEecC
Q 006504 501 DFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYA 549 (643)
Q Consensus 501 ~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp~ 549 (643)
++....+.+++.+-+...+.++.||||+++.++||.+|+ +.+|+||||.
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~~g~EGim~K~~~s~Y~~g~Rs~~wlK~K~~ 201 (201)
T cd07898 152 PALPVESAEELEAAFARARARGNEGLMLKDPDSPYEPGRRGLAWLKLKKE 201 (201)
T ss_pred eeEEcCCHHHHHHHHHHHHHcCCceEEEeCCCCCcCCCCcCCCcEEeCCC
Confidence 555555544333333456789999999999999999996 8899999983
No 8
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=99.90 E-value=3.5e-23 Score=199.85 Aligned_cols=146 Identities=19% Similarity=0.247 Sum_probs=126.4
Q ss_pred ccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCC
Q 006504 100 IGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPD 179 (643)
Q Consensus 100 I~~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~ 179 (643)
++.+||||+.|+++.++.. ++.++. .+|++||+++. +.|+++.++..||.|+++|+.|+ .+|+
T Consensus 14 ~~~r~~~~~~P~~~~~~~~------------l~~L~~--~gI~~Iv~l~~--~~~~~~~~~~~gi~~~~~p~~D~-~~P~ 76 (166)
T PTZ00242 14 VLFKFLILDAPSPSNLPLY------------IKELQR--YNVTHLVRVCG--PTYDAELLEKNGIEVHDWPFDDG-APPP 76 (166)
T ss_pred eceEEEEecCCCcccHHHH------------HHHHHh--CCCeEEEecCC--CCCCHHHHHHCCCEEEecCCCCC-CCCC
Confidence 5689999999988866432 233433 68999999984 56888899999999999999986 7899
Q ss_pred HHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHH
Q 006504 180 NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFY 259 (643)
Q Consensus 180 ~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y 259 (643)
.+.+..|++.+.+++......|++|+|||.+|+||||+++|+|||+..+|++++|+++++++||.++ +..|++.|.+|.
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 9999999999999887544679999999999999999999999999988999999999999999987 689999998888
Q ss_pred hhcC
Q 006504 260 HEKR 263 (643)
Q Consensus 260 ~~~~ 263 (643)
...+
T Consensus 156 ~~~~ 159 (166)
T PTZ00242 156 PRKK 159 (166)
T ss_pred HHhc
Confidence 7654
No 9
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=99.89 E-value=2.3e-22 Score=201.01 Aligned_cols=139 Identities=17% Similarity=0.284 Sum_probs=119.9
Q ss_pred CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHH
Q 006504 102 GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNA 181 (643)
Q Consensus 102 ~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~ 181 (643)
-+||+|+.|++..+.. .++.++. .+|+.||+++ ++.|++++++++||+|+++|++|+ .+|+.+
T Consensus 92 ~rfLi~~~P~~~~~~~------------yl~eLk~--~gV~~lVrlc--E~~Yd~~~~~~~GI~~~~lpipDg-~aPs~~ 154 (241)
T PTZ00393 92 IKILILDAPTNDLLPL------------YIKEMKN--YNVTDLVRTC--ERTYNDGEITSAGINVHELIFPDG-DAPTVD 154 (241)
T ss_pred eeEEEeCCCCHHHHHH------------HHHHHHH--cCCCEEEECC--CCCCCHHHHHHcCCeEEEeecCCC-CCCCHH
Confidence 3999999998875532 2344443 6899999997 457899999999999999999996 899999
Q ss_pred HHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhh
Q 006504 182 SVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHE 261 (643)
Q Consensus 182 ~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~ 261 (643)
.+.+|++.+..++. +|+.|+|||++|.||||+|+|+|||+ .||++++|+++++++||.++ +..|++.|.+|...
T Consensus 155 ~i~~~l~~i~~~l~----~g~~VaVHC~AGlGRTGtl~AayLI~-~GmspeeAI~~VR~~RPgAI-n~~Q~~fL~~y~~~ 228 (241)
T PTZ00393 155 IVSNWLTIVNNVIK----NNRAVAVHCVAGLGRAPVLASIVLIE-FGMDPIDAIVFIRDRRKGAI-NKRQLQFLKAYKKK 228 (241)
T ss_pred HHHHHHHHHHHHHh----cCCeEEEECCCCCCHHHHHHHHHHHH-cCCCHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHh
Confidence 99999988776653 78899999999999999999999998 69999999999999999997 68999999988876
Q ss_pred cC
Q 006504 262 KR 263 (643)
Q Consensus 262 ~~ 263 (643)
..
T Consensus 229 ~~ 230 (241)
T PTZ00393 229 KK 230 (241)
T ss_pred cc
Confidence 43
No 10
>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=2.8e-22 Score=203.03 Aligned_cols=166 Identities=22% Similarity=0.299 Sum_probs=121.4
Q ss_pred hhhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCccc-------ccccCCCCeeeeEEEEE-ecCC
Q 006504 360 LLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEG-------LGEKTHHFTLLDGEMII-DKLP 431 (643)
Q Consensus 360 ~l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~-------l~~~~~~~TlLDGElV~-d~~~ 431 (643)
.+...+|++++|+||+|+++++.++++.+++|++..+ +..||....... .......+++||||||. +...
T Consensus 29 ~~~~~~~~~E~K~DG~R~~i~~~~~~v~l~SR~g~~~--t~~~p~~~~~~~~~~~l~~~~~~~~~~~iLDGElv~~~~~~ 106 (225)
T cd07903 29 LLKGKPFYIETKLDGERIQLHKDGNEFKYFSRNGNDY--TYLYGASLTPGSLTPYIHLAFNPKVKSCILDGEMVVWDKET 106 (225)
T ss_pred hhcCCeEEEEEeeCceEEEEEecCCEEEEEeCCCccc--cccccccccccccchhhhhhccccCcEEEeceEEEEEEcCc
Confidence 3456799999999999999999999999999999833 556776533210 01122367899999997 3211
Q ss_pred C------------------CCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCC
Q 006504 432 D------------------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLE 493 (643)
Q Consensus 432 ~------------------~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~ 493 (643)
+ .....+.|++||||+++|++++++||.+|++.|++.+.. ..
T Consensus 107 ~~~~~f~~l~~~~~~~~~~~~~~~~~~~vFDiL~~~g~~l~~~pl~eR~~~L~~~~~~-~~------------------- 166 (225)
T cd07903 107 KRFLPFGTLKDVAKLREVEDSDLQPCFVVFDILYLNGKSLTNLPLHERKKLLEKIITP-IP------------------- 166 (225)
T ss_pred CeeccchHHHHHHhhcccccCCccEEEEEEEEEEECCeecccCcHHHHHHHHHHhcCC-CC-------------------
Confidence 1 112357899999999999999999999999999996532 10
Q ss_pred CcEEEeccceec---hhHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEecCCc
Q 006504 494 PFRVRRKDFWLL---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARM 551 (643)
Q Consensus 494 pf~v~~K~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp~~~ 551 (643)
-.+...+.... .++.++|+. .+.++.||||++..+++|.+| ++..|+||||..+
T Consensus 167 -~~i~~~~~~~~~~~~~~~~~~~~---~~~~g~EGlv~K~~~s~Y~~g~Rs~~wlK~K~~Y~ 224 (225)
T cd07903 167 -GRLEVVKRTEASTKEEIEEALNE---AIDNREEGIVVKDLDSKYKPGKRGGGWIKIKPEYL 224 (225)
T ss_pred -CeEEEEEEEeCCCHHHHHHHHHH---HHHcCCceEEEecCCCCCccCCcCCCcEEechhhc
Confidence 01223333333 345556554 567999999999999999999 5789999999654
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=99.87 E-value=1.3e-21 Score=195.79 Aligned_cols=161 Identities=22% Similarity=0.336 Sum_probs=119.6
Q ss_pred hhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC-------
Q 006504 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS------- 433 (643)
Q Consensus 361 l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~------- 433 (643)
+...+|++++|+||+|++++..++++.|+||+++. .+..||..... ....+..++||||||....++.
T Consensus 21 ~~~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~--~t~~~p~l~~~---~~~l~~~~iLDGElv~~~~~~~~~F~~l~ 95 (207)
T cd07897 21 GDPSDWQAEWKWDGIRGQLIRRGGEVFLWSRGEEL--ITGSFPELLAA---AEALPDGTVLDGELLVWRDGRPLPFNDLQ 95 (207)
T ss_pred cCcccEEEEEeEceEEEEEEEcCCEEEEEeCCCCc--ccccchHHHHH---HHhCCCCeEEEeEEEEecCCCccCHHHHH
Confidence 34569999999999999999999999999999973 35678875431 1223468999999988543210
Q ss_pred -------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEec
Q 006504 434 -------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (643)
Q Consensus 434 -------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K 500 (643)
....+.|++||||++||+++++.||.+|+++|++.+.. .. .+ .+...
T Consensus 96 ~r~~~~~~~~~~~~~~~~~~~vFDil~l~g~~l~~~pl~eRr~~L~~l~~~-~~----------~~---------~i~~~ 155 (207)
T cd07897 96 QRLGRKTVGKKLLAEAPAAFRAYDLLELNGEDLRALPLRERRARLEALLAR-LP----------PP---------RLDLS 155 (207)
T ss_pred HHhcccccchhhHhhCCeEEEEEeeeeECceEhhhCCHHHHHHHHHHhhhh-cC----------CC---------ceeec
Confidence 01236899999999999999999999999999996532 10 00 02222
Q ss_pred cceec---hhHHHHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEecC
Q 006504 501 DFWLL---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYA 549 (643)
Q Consensus 501 ~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp~ 549 (643)
++... .++..+|+. .+.++.||||++..+++|.+|+ +..|+|.|+.
T Consensus 156 ~~~~~~~~~~~~~~~~~---~~~~g~EGiv~K~~~s~Y~~Grr~~~W~K~K~d 205 (207)
T cd07897 156 PLIAFADWEELAALRAQ---SRERGAEGLMLKRRDSPYLVGRKKGDWWKWKID 205 (207)
T ss_pred ceEecCCHHHHHHHHHH---HHHcCCeEEEEeCCCCCcCCCCcCCCeeEeCCC
Confidence 23333 345556654 5789999999999999999997 5679999975
No 12
>KOG1720 consensus Protein tyrosine phosphatase CDC14 [Defense mechanisms]
Probab=99.86 E-value=2.8e-21 Score=186.86 Aligned_cols=148 Identities=23% Similarity=0.293 Sum_probs=124.5
Q ss_pred cCceeecCCCCccccccCCCCCC-CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCC
Q 006504 101 GGCIIPSKVPLSEFFNDCIPPGK-RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPD 179 (643)
Q Consensus 101 ~~~flp~K~PL~~~~~~~v~~~~-r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~ 179 (643)
+++|+++.+|-..... +.... --.+..+++.++ ..++++++-|+ .+.||++.+++.||.++.+++.| |.+|+
T Consensus 58 p~~~i~f~~p~~~s~g--i~~~f~~~~~~~~~~~~~--~~~v~s~vrln--~~~yd~~~f~~~Gi~h~~l~f~D-g~tP~ 130 (225)
T KOG1720|consen 58 PDRFIAFAGPHLKSRG--IESGFPLHLPQPYIQYFK--NNNVTSIVRLN--KRLYDAKRFTDAGIDHHDLFFAD-GSTPT 130 (225)
T ss_pred cchhhhhcCccccccc--hhhcccccCChhHHHHhh--hcccceEEEcC--CCCCChHHhcccCceeeeeecCC-CCCCC
Confidence 5679999998655441 11111 124455666665 57999999998 67899999999999999999999 48999
Q ss_pred HHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHH
Q 006504 180 NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFY 259 (643)
Q Consensus 180 ~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y 259 (643)
.+.+.+|++.+..-+ .++.|+|||++|+||||+|||||||+.+|||+.|||+++|..||.++..+.|...+.+++
T Consensus 131 ~~~v~~fv~i~e~~~-----~~g~iaVHCkaGlGRTG~liAc~lmy~~g~ta~eaI~~lR~~RpG~V~gpqQ~~l~~~q~ 205 (225)
T KOG1720|consen 131 DAIVKEFVKIVENAE-----KGGKIAVHCKAGLGRTGTLIACYLMYEYGMTAGEAIAWLRICRPGAVIGPQQHKLLHKQR 205 (225)
T ss_pred HHHHHHHHHHHHHHH-----hcCeEEEEeccCCCchhHHHHHHHHHHhCCCHHHHHHHHHhcCCccccCHHHHHHHHHHH
Confidence 999999998885532 389999999999999999999999999999999999999999999999999998888877
Q ss_pred h
Q 006504 260 H 260 (643)
Q Consensus 260 ~ 260 (643)
.
T Consensus 206 ~ 206 (225)
T KOG1720|consen 206 D 206 (225)
T ss_pred H
Confidence 6
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=3.8e-21 Score=189.79 Aligned_cols=157 Identities=21% Similarity=0.244 Sum_probs=116.9
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCC----------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPD---------- 432 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~---------- 432 (643)
..+|++++|+||+|+++++.++++.+++|++..+ +..||..... +....+.+++||||||.-..++
T Consensus 15 ~~~~~~e~K~DG~R~~i~~~~~~v~~~SR~g~~~--t~~~p~l~~~--~~~~~~~~~iLDGElv~~~~~~~~~F~~l~~~ 90 (190)
T cd07906 15 GEDWLYEIKWDGYRALARVDGGRVRLYSRNGLDW--TARFPELAEA--LAALPVRDAVLDGEIVVLDEGGRPDFQALQNR 90 (190)
T ss_pred CCCeEEEEeEceEEEEEEEECCEEEEEcCCCCcc--hhhhHHHHHH--HHhcCCCCEEEEeEEEEECCCCCCCHHHHHHh
Confidence 4689999999999999999999999999999833 4457654221 1111357899999999843322
Q ss_pred -------CCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceec
Q 006504 433 -------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (643)
Q Consensus 433 -------~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~ 505 (643)
.....++|+|||+|+++|+++.++||.+|+++|++.+. +.. + + +........
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 12245799999999999999999999999999999653 210 0 1 122222222
Q ss_pred hhHHHHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEec
Q 006504 506 STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKY 548 (643)
Q Consensus 506 ~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp 548 (643)
..+.+++. .+.++.||||++..++||.+|+ +..|+|||.
T Consensus 150 -~~~~~~~~---~~~~g~EGiv~K~~~s~Y~~g~rs~~wlK~K~ 189 (190)
T cd07906 150 -GGAALFAA---ACELGLEGIVAKRADSPYRSGRRSRDWLKIKC 189 (190)
T ss_pred -CHHHHHHH---HHHcCCcEEEEecCCCCcCCCCCCCccEEEec
Confidence 22566665 3678999999999999999999 899999996
No 14
>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=99.85 E-value=7.5e-21 Score=190.21 Aligned_cols=157 Identities=19% Similarity=0.279 Sum_probs=116.8
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCC-CCeeeeEEEEEecCCCC--------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTH-HFTLLDGEMIIDKLPDS-------- 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~-~~TlLDGElV~d~~~~~-------- 433 (643)
..+|++++|+||.|+++++.++++.+++|++.- .+-.||..... +..... .+++||||||.-...+.
T Consensus 24 ~~~~~~E~K~DG~R~~~~~~~~~v~~~SR~~~~--~t~~~pel~~~--~~~~~~~~~~iLDGElv~~~~~g~~~~F~~l~ 99 (207)
T cd07901 24 GGEAAVEYKYDGIRVQIHKDGDEVRIFSRRLED--ITNALPEVVEA--VRELVKAEDAILDGEAVAYDPDGRPLPFQETL 99 (207)
T ss_pred CCcEEEEEeEcceeEEEEEeCCEEEEEeCCCcc--ccchhhHHHHH--HHhcCCCCCEEEeCEEEEECCCCCccCHHHHH
Confidence 468999999999999999999999999999873 35568765321 111122 67999999987542111
Q ss_pred -----C--------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEec
Q 006504 434 -----R--------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (643)
Q Consensus 434 -----~--------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K 500 (643)
. ...+.|+|||||+++|++++++||.+|++.|++.+.. .. . +...
T Consensus 100 ~r~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~pl~eR~~~L~~~~~~-~~-------------------~--i~~~ 157 (207)
T cd07901 100 RRFRRKYDVEEAAEEIPLTLFLFDILYLDGEDLLDLPLSERRKILEEIVPE-TE-------------------A--ILLA 157 (207)
T ss_pred HHhccccchhhhhccCcEEEEEEEEEEECCcchhcCCHHHHHHHHHHhcCc-CC-------------------c--EEEE
Confidence 0 1236899999999999999999999999999986532 10 0 1222
Q ss_pred cceec---hhHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEec
Q 006504 501 DFWLL---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKY 548 (643)
Q Consensus 501 ~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp 548 (643)
+.... .++..+|+. .+.++.||||++..+++|.+| ++..||||||
T Consensus 158 ~~~~~~~~~~~~~~~~~---~~~~g~EGiv~K~~~s~Y~~g~Rs~~wlK~K~ 206 (207)
T cd07901 158 PRIVTDDPEEAEEFFEE---ALEAGHEGVMVKSLDSPYQAGRRGKNWLKVKP 206 (207)
T ss_pred EEEecCCHHHHHHHHHH---HHHcCCceEEEeCCCCCcCCCCCCCCeEEecC
Confidence 22333 355556654 478999999999999999999 6789999998
No 15
>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=99.85 E-value=1.6e-20 Score=183.71 Aligned_cols=162 Identities=17% Similarity=0.227 Sum_probs=135.6
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCcc-ccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCCCccceEEE
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNF-RRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYL 441 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~-~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~~~~~~~yl 441 (643)
..+|+|-+-.-|+||||++..+.++++||+|.. ......||.... .+++|||+|.|..-+. ..++|+
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 468999999999999999999999999999974 444566765432 1177999999876543 357999
Q ss_pred EEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccc--
Q 006504 442 IYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKL-- 519 (643)
Q Consensus 442 iFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l-- 519 (643)
|+|||+++|.++.+.++.-|+..|+..+.+++...+ ....++|+++.++||+... +.|-+.+...+
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 2456899999999999987 44445666778
Q ss_pred -cCCCceeEEecCCCCCcCCCCCCeEEEec
Q 006504 520 -SHDADGLVFQGWDDPYVPRTHEGLLKWKY 548 (643)
Q Consensus 520 -~h~~DGLIf~p~~spY~~Gt~~~lLKWKp 548 (643)
.|+.|||||++.++.|++|+++.++||||
T Consensus 156 ~~~e~DGLlFyhk~~~Y~~G~tPlvl~wKp 185 (186)
T cd09232 156 DPYELDGLLFYHKESHYTPGSTPLVLWLKD 185 (186)
T ss_pred CCCCCceEEEEeCCCcccCcCCCcEEEecC
Confidence 99999999999999999999999999998
No 16
>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=1.2e-20 Score=186.89 Aligned_cols=158 Identities=21% Similarity=0.211 Sum_probs=116.4
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC---------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~--------- 433 (643)
..+|++++|+||+|+++++.++++.|+||++.- ++-.||..... +.....+.++||||||.-..+..
T Consensus 15 ~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~--~t~~~p~~~~~--~~~~~~~~~iLDGElv~~~~~~~~F~~l~~r~ 90 (194)
T cd07905 15 PGGWQYEPKWDGFRCLAFRDGDEVRLQSRSGKP--LTRYFPELVAA--ARALLPPGCVLDGELVVWRGGRLDFDALQQRI 90 (194)
T ss_pred CCceEEEeeeceEEEEEEEeCCEEEEEeCCCCc--hhhhhHHHHHH--HHhhCCCCEEEEeEEEEEcCCCCCHHHHHHHh
Confidence 468999999999999999999999999999983 24567765321 11112468999999997422210
Q ss_pred -----------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccc
Q 006504 434 -----------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDF 502 (643)
Q Consensus 434 -----------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f 502 (643)
....++|++||+|+++|+++++.||.+|++.|++.+.. .. +. +...+.
T Consensus 91 ~~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~~-~~-----------~~---------i~~~~~ 149 (194)
T cd07905 91 HPAASRVRRLAEETPASFVAFDLLALGGRDLRGRPLRERRAALEALLAG-WG-----------PP---------LHLSPA 149 (194)
T ss_pred cccccchhhhhccCCEEEEEEeeeeeCCcccccCCHHHHHHHHHHHhcc-cC-----------CC---------eEECCc
Confidence 02346999999999999999999999999999996532 10 00 111112
Q ss_pred e-echhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecC
Q 006504 503 W-LLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYA 549 (643)
Q Consensus 503 ~-~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~ 549 (643)
. ...++..+|+. .+.++.||||++..+++|.+|+ ..|+|+|+.
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 1 22345566654 4679999999999999999999 689999973
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=99.85 E-value=1.1e-20 Score=190.43 Aligned_cols=164 Identities=16% Similarity=0.249 Sum_probs=118.6
Q ss_pred hhhcCCeEEeEecCceEEEEEEEC-CEEEEEeCCCccccccccCCCcCCc-ccccccCCCCeeeeEEEEEecCC-CC---
Q 006504 360 LLRQRYYYATWKADGTRYMMLITI-DGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLP-DS--- 433 (643)
Q Consensus 360 ~l~~~~Y~Vs~K~DG~R~llli~~-~~vyLidR~~~~~~v~~~FP~~~~~-~~l~~~~~~~TlLDGElV~d~~~-~~--- 433 (643)
.+...+|++++|+||.|+++++.. +.+.|++|+++- .+-.||..... ..........++||||||+-... +.
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 344568999999999999999986 789999999983 35567765321 11111124679999999875321 11
Q ss_pred ----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEE
Q 006504 434 ----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRV 497 (643)
Q Consensus 434 ----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v 497 (643)
.+..+.|++||+|++||++++++||.+|++.|++.+. +.. + .+
T Consensus 105 F~~l~~r~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~-~~~-----------~---------~~ 163 (219)
T cd07900 105 FQVLSTRKRKDVDANDIKVQVCVFAFDLLYLNGESLLKKPLRERRELLHSLFK-EVP-----------G---------RF 163 (219)
T ss_pred hHHHhhhcccccccccCcccEEEEEEEEEEECCchhhcCCHHHHHHHHHHhcC-CCC-----------C---------eE
Confidence 0145689999999999999999999999999999652 210 0 02
Q ss_pred Eeccceec---hhHHHHHHHhcccccCCCceeEEecCC--CCCcCCC-CCCeEEEecC
Q 006504 498 RRKDFWLL---STVNKLLKEFIPKLSHDADGLVFQGWD--DPYVPRT-HEGLLKWKYA 549 (643)
Q Consensus 498 ~~K~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~--spY~~Gt-~~~lLKWKp~ 549 (643)
...+.... .++..+|+. .+.++.||||++..+ ++|.+|+ +..|+|+|+.
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~---~~~~g~EGiv~K~~~~~s~Y~~g~Rs~~W~K~K~d 218 (219)
T cd07900 164 QFATSKDSEDTEEIQEFLEE---AVKNNCEGLMVKTLDSDATYEPSKRSHNWLKLKKD 218 (219)
T ss_pred EEEEEEecCCHHHHHHHHHH---HHHcCCceEEEecCCCCCccCCCCcCCCceEeCCC
Confidence 22222233 355666654 478999999999999 9999985 6789999974
No 18
>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=99.84 E-value=3.5e-20 Score=188.36 Aligned_cols=182 Identities=18% Similarity=0.260 Sum_probs=123.5
Q ss_pred cccccccchh----hhhcCCeEEeEecCceEEEEEEE----CCEEEEEeCCCccccccccCCCcCCc-c-ccc----c-c
Q 006504 350 PVSLNSDNLQ----LLRQRYYYATWKADGTRYMMLIT----IDGCYLIDRCFNFRRVQMRFPCRNSN-E-GLG----E-K 414 (643)
Q Consensus 350 PVSl~r~nl~----~l~~~~Y~Vs~K~DG~R~llli~----~~~vyLidR~~~~~~v~~~FP~~~~~-~-~l~----~-~ 414 (643)
|-|+.-.+++ .+...+|++++|+||.|+++++. ++.+.|++|+++ ..+-.||..... . .+. . .
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 5566655554 34567899999999999999987 678999999997 235568864221 1 110 0 0
Q ss_pred CCCCeeeeEEEEEecC-CCC---------------------------CccceEEEEEEEeecCCccccCCCHHHHHHHHH
Q 006504 415 THHFTLLDGEMIIDKL-PDS---------------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLE 466 (643)
Q Consensus 415 ~~~~TlLDGElV~d~~-~~~---------------------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~ 466 (643)
..+.+|||||||+-.. ++. .+..+.|++||+|++||+++++.||.+|+++|+
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 1367999999986432 211 012369999999999999999999999999999
Q ss_pred HHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccCCCceeEEecCCCCCcCCCC------
Q 006504 467 KEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTH------ 540 (643)
Q Consensus 467 ~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~------ 540 (643)
+.+ .+..... .+. +.+.+.........++..+|+. .+..+.||||++..+++|.+|+.
T Consensus 162 ~l~-~~~~~~~-~~~-----------~~~~i~~~~~~~~~~l~~~~~~---a~~~g~EGIv~K~~~S~Y~pgr~~~~~r~ 225 (235)
T cd08039 162 SLV-HVIPGYA-GLS-----------ERFPIDFSRSSGYERLRQIFAR---AIAERWEGLVLKGDEEPYFDLFLEQGSFS 225 (235)
T ss_pred Hhc-ccCCCcE-EEE-----------EEEeecccCCCCHHHHHHHHHH---HHHcCCceEEEecCCCCcccCcccccccC
Confidence 965 3211000 000 0011111111123355566654 57889999999999999999986
Q ss_pred CCeEEEecC
Q 006504 541 EGLLKWKYA 549 (643)
Q Consensus 541 ~~lLKWKp~ 549 (643)
..||||||.
T Consensus 226 ~~WlKlK~d 234 (235)
T cd08039 226 GCWIKLKKD 234 (235)
T ss_pred CCeEEeCCC
Confidence 689999984
No 19
>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=99.83 E-value=4.9e-20 Score=194.18 Aligned_cols=169 Identities=22% Similarity=0.293 Sum_probs=124.4
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC---------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~--------- 433 (643)
..+|++++|+||+|+++++.++++.|++|++.-+ +..||..... +.....++++||||||.....+.
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 GDDWRYEVKYDGYRCLARIEGGKVRLISRNGHDW--TEKFPILAAA--LAALPILPAVLDGEIVVLDESGRSDFSALQNR 86 (298)
T ss_pred CCCEEEEEEEceEEEEEEEeCCEEEEEeCCCCch--HhHhHHHHHH--HHhCCCCcEEEEeEEEEECCCCCCCHHHHHhh
Confidence 3579999999999999999999999999999833 5567765322 11112368999999998533211
Q ss_pred ----CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHH
Q 006504 434 ----RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVN 509 (643)
Q Consensus 434 ----~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~ 509 (643)
....+.|++||+|++||++++++||.+|+++|++.+..... +..+.........++.
T Consensus 87 ~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~l~~~~~~-------------------~~~~~~~~~~~~~~~~ 147 (298)
T TIGR02779 87 LRAGRDRPATYYAFDLLYLDGEDLRDLPLSERKKLLEELLKAIKG-------------------PLAPDRYSVHFEGDGQ 147 (298)
T ss_pred hhcCCCCceEEEEEeeeeECceehhcCCHHHHHHHHHHHhcccCC-------------------CceeEecccCchhHHH
Confidence 11346999999999999999999999999999996532100 1111110112234566
Q ss_pred HHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEEEEE
Q 006504 510 KLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 510 ~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF~l~ 559 (643)
.+|+. .+.++.||||++..+++|.+|++..|+|+|+. .+.|+.+.
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 67764 46899999999999999999998899999975 58898774
No 20
>PRK09247 ATP-dependent DNA ligase; Validated
Probab=99.83 E-value=4.2e-20 Score=208.50 Aligned_cols=169 Identities=21% Similarity=0.287 Sum_probs=125.1
Q ss_pred hcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecC-CCC-------
Q 006504 362 RQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKL-PDS------- 433 (643)
Q Consensus 362 ~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~-~~~------- 433 (643)
...+|++++|+||+|++++..++++.|++|+++. ++..||..... ......+++||||||.... .+.
T Consensus 223 ~~~~~~~E~K~DG~R~qih~~~~~v~lfSR~g~d--~t~~fPei~~~---~~~l~~~~ILDGElv~~~~~~~~~~~F~~l 297 (539)
T PRK09247 223 DPADWQAEWKWDGIRVQLVRRGGEVRLWSRGEEL--ITERFPELAEA---AEALPDGTVLDGELLVWRPEDGRPQPFADL 297 (539)
T ss_pred CCCcEEEEEeEcceEEEEEEeCCEEEEEeCCCcc--chhhhHHHHHH---HHhCCCCEEEEeEEEEEECCCCCcCCHHHH
Confidence 3458999999999999999999999999999983 36778876432 1123467999999987542 110
Q ss_pred --------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEe
Q 006504 434 --------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRR 499 (643)
Q Consensus 434 --------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~ 499 (643)
.+.+++|++||||++||++++++||.+|++.|++.+.... ++. +..
T Consensus 298 ~~R~~rk~~~~~~~~~~pv~~~vFDiL~l~g~~l~~~Pl~eRr~~L~~~~~~~~-----------~~~---------i~~ 357 (539)
T PRK09247 298 QQRIGRKTVGKKLLADYPAFLRAYDLLEDGGEDLRALPLAERRARLEALIARLP-----------DPR---------LDL 357 (539)
T ss_pred HHHhcccccchhhhhcCCeEEEEEEeeeeCCcchhhCCHHHHHHHHHHHhcccC-----------CCe---------EEe
Confidence 0134589999999999999999999999999999663210 000 122
Q ss_pred ccceec---hhHHHHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEecCCcceEEEEEE
Q 006504 500 KDFWLL---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 500 K~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp~~~nTVDF~l~ 559 (643)
.+.... .++..+|+. .+.++.||||+|..+++|.+|+ ...|+|||+.. .|+|..+-
T Consensus 358 ~~~~~~~~~~e~~~~~~~---a~~~g~EGlm~K~~~s~Y~~Grr~~~WlK~K~~~-~t~DlVvi 417 (539)
T PRK09247 358 SPLVPFSDWDELAALRAA---ARERGVEGLMLKRRDSPYLVGRKKGPWWKWKRDP-LTIDAVLM 417 (539)
T ss_pred cCceecCCHHHHHHHHHH---HHHCCCceEEEecCCCCcCCCCCcchhhcccCCC-CcEEEEEE
Confidence 222222 345556654 5789999999999999999997 46799999752 49999884
No 21
>PRK07636 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.83 E-value=1.2e-19 Score=188.79 Aligned_cols=162 Identities=21% Similarity=0.239 Sum_probs=122.3
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC---------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~--------- 433 (643)
..+|++++|+||+|+++++.++++.|++|+++-+ +-.||..... ...++++||||||.-...+.
T Consensus 17 ~~~~~~E~K~DG~R~~~~~~~~~v~l~SR~g~~~--t~~fPe~~~~-----~~~~~~vLDGElv~~d~~g~~~F~~l~~r 89 (275)
T PRK07636 17 SENYITEPKFDGIRLIASKNNGLIRLYTRHNNEV--TAKFPELLNL-----DIPDGTVLDGELIVLGSTGAPDFEAVMER 89 (275)
T ss_pred CCcEEEEEEEceeEEEEEEeCCEEEEEeCCCCCc--hhhhhhHHhh-----hcCCCEEEEeEEEEECCCCCCCHHHHHHH
Confidence 4589999999999999999999999999999833 5678875432 12357999999997432211
Q ss_pred -------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceech
Q 006504 434 -------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLS 506 (643)
Q Consensus 434 -------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~ 506 (643)
......|++||+|++||++++++||.+|+++|++.+. +.. . ++..+.. ..
T Consensus 90 ~~~~~~~~~~~~~~~vFDlL~~~g~~l~~~pl~eRr~~L~~~~~-~~~------------~---------~~~~~~~-~~ 146 (275)
T PRK07636 90 FQSKKSTKIHPVVFCVFDVLYINGVSLTALPLSERKEILASLLL-PHP------------N---------VKIIEGI-EG 146 (275)
T ss_pred hccccccccCceEEEEEEeEEECceehhhCCHHHHHHHHHHhcC-CCC------------C---------EEEcccc-cc
Confidence 0134589999999999999999999999999999653 211 0 1111111 12
Q ss_pred hHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEecCCcceEEEEEE
Q 006504 507 TVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 507 ~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp~~~nTVDF~l~ 559 (643)
+...+|+. ...++.||||+|..+++|.+| ++.+|+|.|. ..+.|+.+.
T Consensus 147 ~~~~~~~~---~~~~g~EGiV~K~~ds~Y~~g~Rs~~WlKiK~--~~~~e~vV~ 195 (275)
T PRK07636 147 HGTAYFEL---VEERELEGIVIKKANSPYEINKRSDNWLKVIN--YQYTDVLIT 195 (275)
T ss_pred cHHHHHHH---HHHcCCcEEEEeCCCCCCCCCCCCCCeEEEec--CCeEEEEEE
Confidence 45567764 356899999999999999999 5789999995 479999873
No 22
>PRK08224 ligC ATP-dependent DNA ligase; Reviewed
Probab=99.83 E-value=7.3e-20 Score=196.05 Aligned_cols=164 Identities=22% Similarity=0.274 Sum_probs=123.8
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCCC---------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSR--------- 434 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~~--------- 434 (643)
.+|++++|+||+|+++++.++++.|++|++.- .+-.||+.... +.....+.++||||||.-..++..
T Consensus 24 ~~w~~E~K~DG~R~~~~~~~~~v~l~SRng~d--~t~~fPel~~~--~~~~~~~~~vLDGEiVv~~~~~~~F~~Lq~r~~ 99 (350)
T PRK08224 24 DGWSYEPKWDGFRCLVFRDGDEVELGSRNGKP--LTRYFPELVAA--LRAELPERCVLDGEIVVARDGGLDFEALQQRIH 99 (350)
T ss_pred CcEEEEEeECeeEEEEEEECCEEEEEeCCCCC--chhhhHHHHHH--HHhhCCCCEEEeeEEEEeCCCCCCHHHHHhhhh
Confidence 47999999999999999999999999999973 35568875321 111234689999999986432110
Q ss_pred -----------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccce
Q 006504 435 -----------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFW 503 (643)
Q Consensus 435 -----------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~ 503 (643)
...+.|++||+|++||++++++||.+|++.|++.+. +. + + +++.+..
T Consensus 100 ~~~~~~~~~~~~~pv~~~vFDlL~l~G~dl~~~Pl~eRr~~L~~l~~-~~------------~-------~--i~~~~~~ 157 (350)
T PRK08224 100 PAASRVRKLAEETPASFVAFDLLALGDRDLTGRPFAERRAALEAAAA-GS------------G-------P--VHLTPAT 157 (350)
T ss_pred ccccchhhhhhcCCEEEEEEeeeeECCcChhhCCHHHHHHHHHHhcC-CC------------C-------c--EEEeccc
Confidence 123589999999999999999999999999999652 11 0 1 2222222
Q ss_pred -echhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEEEEE
Q 006504 504 -LLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 504 -~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF~l~ 559 (643)
...+.+.+|+. .+.++.||||+|..+++|.+|+.. |+|+|+ ..++||.+-
T Consensus 158 ~~~~~~~~~~~~---a~~~G~EGIV~Kr~dS~Y~~Grr~-WlKiK~--~~~~d~vI~ 208 (350)
T PRK08224 158 TDPATARRWFEE---FEGAGLDGVIAKPLDGPYQPGKRA-MFKVKH--ERTADCVVA 208 (350)
T ss_pred CCHHHHHHHHHH---HHhCCCcEEEEeCCCCCcCCCCcC-EEEEcc--CCcEEEEEE
Confidence 23355667764 468999999999999999999876 999997 579999883
No 23
>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=99.82 E-value=8.7e-20 Score=183.34 Aligned_cols=158 Identities=20% Similarity=0.326 Sum_probs=112.6
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCC--cccccccCCCCeeeeEEEEEecC-CCC-------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNS--NEGLGEKTHHFTLLDGEMIIDKL-PDS------- 433 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~--~~~l~~~~~~~TlLDGElV~d~~-~~~------- 433 (643)
.+|++++|+||+|++++..++.+.+++|++.-+. ...||.... ...+ ....+++||||||.-.. .+.
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 4799999999999999999999999999986221 112433211 0111 11367999999987432 111
Q ss_pred --------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceec
Q 006504 434 --------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL 505 (643)
Q Consensus 434 --------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~ 505 (643)
....+.|++||||++||.+++++||.+|++.|++.+.. .. . .+.+.++...
T Consensus 111 ~~~~~~~~~~~~v~~~vFDiL~l~g~~l~~~pl~eR~~~L~~~~~~-~~------------------~--~~~~~~~~~~ 169 (213)
T cd07902 111 GIHKKSAFKDANVCLFVFDCLYYNGESLMDKPLRERRKILEDNMVE-IP------------------N--RIMLSEMKFV 169 (213)
T ss_pred hhhhccccccCceEEEEEEEeeeCCcchhcCcHHHHHHHHHHhccC-CC------------------C--eEEEEEEEEc
Confidence 01246899999999999999999999999999996522 10 0 1222233333
Q ss_pred ---hhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecC
Q 006504 506 ---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYA 549 (643)
Q Consensus 506 ---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~ 549 (643)
.++..+|+. .+.++.||||++..+++|.+|+. .|+|||+.
T Consensus 170 ~~~~~l~~~~~~---~~~~g~EGvV~K~~~s~Y~~G~r-~W~K~K~d 212 (213)
T cd07902 170 KKADDLSAMIAR---VIKEGLEGLVLKDLKSVYEPGKR-HWLKVKKD 212 (213)
T ss_pred CCHHHHHHHHHH---HHHCCCCeEEEeCCCCCccCCCC-CceEeCCC
Confidence 345556654 46899999999999999999987 79999974
No 24
>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=1.3e-19 Score=204.20 Aligned_cols=167 Identities=21% Similarity=0.367 Sum_probs=122.6
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCc-CCc--ccccccCCCCeeeeEEEEEecCC-CC------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCR-NSN--EGLGEKTHHFTLLDGEMIIDKLP-DS------ 433 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~-~~~--~~l~~~~~~~TlLDGElV~d~~~-~~------ 433 (643)
.+|++++|+||+|+++++.++++.+++|++. ..+..||.. ... ..+ .....++||||||.-... +.
T Consensus 187 ~~~~~E~K~DG~R~qih~~~~~v~l~SR~g~--~~t~~~pei~~~~~~~~~--~~~~~~ILDGElv~~d~~~g~~~~F~~ 262 (514)
T TIGR00574 187 NKFYVEYKYDGERVQIHKDGDKFKIFSRRLE--NYTYAYPEIFTEFIKEAF--PGIKSCILDGEMVAIDPETGKILPFQT 262 (514)
T ss_pred CceEEEEeecceEEEEEEcCCEEEEEcCCCc--ccccccchhHHHHHHHhc--CccceeeecceEEEEEcCCCCCcCcHh
Confidence 3899999999999999998889999999997 335567765 221 112 112467999999875321 11
Q ss_pred --------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEe
Q 006504 434 --------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRR 499 (643)
Q Consensus 434 --------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~ 499 (643)
....+.|++||||++||+++++.||.+|++.|++.+ .+... . +..
T Consensus 263 l~~r~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~-~~~~~-----------~---------i~~ 321 (514)
T TIGR00574 263 LLRRKRRYDIDSMEKKVPVCLFVFDILYLNGESLIDEPLIERREILESIL-KPIPN-----------R---------IEI 321 (514)
T ss_pred HHhhhhhccccccccccceEEEEEEEEEECCcchhcCcHHHHHHHHHHhc-cCCCC-----------c---------EEE
Confidence 013468999999999999999999999999999854 33210 0 222
Q ss_pred cccee---chhHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEecC----CcceEEEEE
Q 006504 500 KDFWL---LSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYA----RMNSVDFLF 558 (643)
Q Consensus 500 K~f~~---~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp~----~~nTVDF~l 558 (643)
.+... ..++..+|+ ..+.++.||||++..+++|.+| ++..|+|||+. ...|+|+.+
T Consensus 322 ~~~~~~~~~e~~~~~~~---~~~~~g~EGlv~K~~ds~Y~~G~Rs~~WlK~K~~y~~~~~~~~D~vv 385 (514)
T TIGR00574 322 AEMKITSNVEELEKFLN---EAISEGCEGLMLKDLKSIYEPGKRGWLWLKFKPEYLEGMGDTLDLVV 385 (514)
T ss_pred EEEEecCCHHHHHHHHH---HHHHcCCceEEEecCCCcccCCCCCCcceeCchhhcccccCceeEEE
Confidence 22333 344555555 4578999999999999999999 67889999984 245899988
No 25
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=99.81 E-value=2.2e-19 Score=167.58 Aligned_cols=113 Identities=19% Similarity=0.363 Sum_probs=97.7
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|++||||+.+...+ ...|++|+++|+.|.... .+..++..+.+||+.....+++|+|||++|.||||++
T Consensus 25 ~gi~~Vi~l~~~~~~~-----~~~~~~~~~ipi~D~~~~----~~~~~~~~~~~~i~~~~~~~~~VlVHC~~G~~RS~~v 95 (138)
T smart00195 25 LGITHVINVTNEVPNL-----NKKGFTYLGVPILDNTET----KISPYFPEAVEFIEDAEKKGGKVLVHCQAGVSRSATL 95 (138)
T ss_pred cCCCEEEEccCCCCCC-----CCCCCEEEEEECCCCCCC----ChHHHHHHHHHHHHHHhcCCCeEEEECCCCCchHHHH
Confidence 6899999999776443 247899999999984222 2445677777888877778999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHh
Q 006504 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYH 260 (643)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~ 260 (643)
++||||...||++++|+++++++||.+.++.+|+.+|..|+.
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 26
>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=1.7e-19 Score=167.10 Aligned_cols=116 Identities=24% Similarity=0.386 Sum_probs=97.8
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|.+|||++.+.+.. ...+..+++|+++|+.|....| +..++..+.+||++....+++|+|||.+|.||||++
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 6999999999765432 4456688999999998843333 344455566777766678899999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHh
Q 006504 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYH 260 (643)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~ 260 (643)
++||||...+|++++|++++++.||.+.++..|+++|.+|+.
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 999999999999999999999999999999999999999986
No 27
>PRK03180 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.79 E-value=6.6e-19 Score=197.39 Aligned_cols=164 Identities=21% Similarity=0.282 Sum_probs=123.4
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCC-CCeeeeEEEEEecCCCCC--------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTH-HFTLLDGEMIIDKLPDSR-------- 434 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~-~~TlLDGElV~d~~~~~~-------- 434 (643)
.+|++++|+||.|++++..++++.+++|+++ .++-.||..... . ...+ ++++||||||.-...+..
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--DITARLPEVVEA--V-RALPVRSLVLDGEAIALRPDGRPRPFQVTAS 278 (508)
T ss_pred CCeEEEEEEceeEEEEEEECCEEEEEeCCCC--cchhhhHHHHHH--H-HhCCCcceeecceEEEECCCCCcCCHHHHHH
Confidence 5899999999999999999999999999997 335678876431 1 1223 679999999874321110
Q ss_pred -------------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEecc
Q 006504 435 -------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKD 501 (643)
Q Consensus 435 -------------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~ 501 (643)
+....|++||+|++||++++++||.+|++.|++.+. +.. . .+ .+.
T Consensus 279 R~~~k~~~~~~~~~~pv~~~~FDlL~l~G~dl~~~pl~eRr~~L~~~~~-~~~--~-------~~---------~~~--- 336 (508)
T PRK03180 279 RFGRRVDVAAARATQPLSPFFFDALHLDGRDLLDAPLSERLAALDALVP-AAH--R-------VP---------RLV--- 336 (508)
T ss_pred HhccccchhhhcccCceEEEEEeehhcCCcchhcCCHHHHHHHHHHhhc-ccc--c-------cc---------cee---
Confidence 124689999999999999999999999999999653 210 0 00 011
Q ss_pred ceechhHHHHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEecCCcceEEEEEE
Q 006504 502 FWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 502 f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp~~~nTVDF~l~ 559 (643)
.....++..+|+. .+.++.||||+|..+++|.+|+ +.+|+|||+. .|+|+.+-
T Consensus 337 ~~~~~~~~~~~~~---a~~~g~EGlm~K~~ds~Y~~GrR~~~WlK~K~~--~t~D~Vvi 390 (508)
T PRK03180 337 TADPAAAAAFLAA---ALAAGHEGVMVKSLDAPYAAGRRGAGWLKVKPV--HTLDLVVL 390 (508)
T ss_pred cCCHHHHHHHHHH---HHHcCCceEEEeCCCCCcCCCCCCCCcEEEcCC--CceEEEEE
Confidence 1123466667664 4789999999999999999997 5789999984 69999883
No 28
>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=8.4e-19 Score=174.05 Aligned_cols=159 Identities=24% Similarity=0.388 Sum_probs=112.2
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCC-cccccccCCCCeeeeEEEEEe-cCCCC-------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNS-NEGLGEKTHHFTLLDGEMIID-KLPDS------- 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~-~~~l~~~~~~~TlLDGElV~d-~~~~~------- 433 (643)
..+|++++|+||+|++++..++++.+++|++.-+ +..||.... ..........+++||||||.- ...+.
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 5789999999999999999999999999999732 323443211 001111123469999999982 11110
Q ss_pred --------C-----ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEec
Q 006504 434 --------R-----RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRK 500 (643)
Q Consensus 434 --------~-----~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K 500 (643)
. ...+.|++||+++++|.+++++||.+|++.|++.+..+.. .+...
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~vFDil~l~~~~l~~~p~~eR~~~L~~~~~~~~~---------------------~i~~~ 154 (202)
T PF01068_consen 96 SGRLNRRSKKIPEQSEPLQFVVFDILYLDGKDLLDLPYEERRELLEELLEPPPP---------------------RIRIV 154 (202)
T ss_dssp HHHHBHSSSCHHHHHSCEEEEEEEEEEETTEECTTSCHHHHHHHHHHHBG-BTS---------------------SEEEE
T ss_pred hhhhhhhcccchhccCcEEEEEEEEEEeCCeEeeeccHHHHHHHHHHhhccCCC---------------------ceeEe
Confidence 0 1357999999999999999999999999999997622111 12223
Q ss_pred cceech---hHHHHHHHhcccccCCCceeEEecCCCCCcCCCC-CCeEEEe
Q 006504 501 DFWLLS---TVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTH-EGLLKWK 547 (643)
Q Consensus 501 ~f~~~~---~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~-~~lLKWK 547 (643)
+.+.+. ++..+++. .+.++.||||++..+++|.+|+. ..|+|+|
T Consensus 155 ~~~~~~~~~~~~~~~~~---~~~~g~EG~v~K~~~~~Y~~Gkrs~~w~K~K 202 (202)
T PF01068_consen 155 ESYVVNSKEELEELFEE---AIDQGFEGLVLKDPDSPYEPGKRSSGWLKVK 202 (202)
T ss_dssp EEEEESSHHHHHHHHHH---HHHTTSSEEEEEETTSSC-TTEEEEEEEEEE
T ss_pred eeecCCCHHHHHHHHHH---HHHcCCceEEEECCCCccCCCCcCCCcEEEC
Confidence 333333 44555554 57789999999999999999985 8899998
No 29
>PLN03113 DNA ligase 1; Provisional
Probab=99.78 E-value=2.5e-18 Score=198.27 Aligned_cols=173 Identities=18% Similarity=0.247 Sum_probs=125.1
Q ss_pred hhhcCCeEEeEecCceEEEEEEE-CCEEEEEeCCCccccccccCCCcCCc-ccccccCCCCeeeeEEEEEecCCCCC---
Q 006504 360 LLRQRYYYATWKADGTRYMMLIT-IDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDSR--- 434 (643)
Q Consensus 360 ~l~~~~Y~Vs~K~DG~R~llli~-~~~vyLidR~~~~~~v~~~FP~~~~~-~~l~~~~~~~TlLDGElV~d~~~~~~--- 434 (643)
.+...+|++++|+||.|++++.. ++++.+++|+++ .++-.||..... ..+.......+|||||+|.-...+..
T Consensus 387 ~~~g~~~~~E~KyDGeR~QiH~~~~g~v~lfSRn~e--d~T~~fPel~~~~~~~~~~~~~~~ILDGEiVa~d~~~~~~lp 464 (744)
T PLN03113 387 KFQDMEFTCEYKYDGERAQIHFLEDGSVEIYSRNAE--RNTGKYPDVVVAISRLKKPSVKSFILDCELVAYDREKKKILP 464 (744)
T ss_pred ccCCCCEEEEEeeccceEEEEEecCCEEEEEeCCCC--cccccchhHHHHHHHhccccCCCEEEEeEEEEEECCCCCcCC
Confidence 34556899999999999999975 568999999998 336778876321 11111113679999999875322110
Q ss_pred -----------------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEE
Q 006504 435 -----------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRV 497 (643)
Q Consensus 435 -----------------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v 497 (643)
+..+.|++||||++||++++++||.+|+++|++.+.. .. + . +
T Consensus 465 Fq~Lq~R~rk~~~~~~~~~pv~~~aFDlLylnG~~L~~~PL~eRR~~L~~~~~~-~~-----------~-------~--i 523 (744)
T PLN03113 465 FQILSTRARKNVVMSDIKVDVCIFAFDMLYLNGQPLIQEQLKIRREHLYESFEE-DP-----------G-------F--F 523 (744)
T ss_pred HHHHHhhhccccchhccccceEEEEEeccccCccChhcCCHHHHHHHHHHHhcc-CC-----------C-------c--E
Confidence 1345899999999999999999999999999996532 10 0 0 1
Q ss_pred Eeccc---eechhHHHHHHHhcccccCCCceeEEecC--CCCCcCCC-CCCeEEEecCCc----ceEEEEE
Q 006504 498 RRKDF---WLLSTVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPRT-HEGLLKWKYARM----NSVDFLF 558 (643)
Q Consensus 498 ~~K~f---~~~~~~~~l~~~~~~~l~h~~DGLIf~p~--~spY~~Gt-~~~lLKWKp~~~----nTVDF~l 558 (643)
...+. -...++..+|+. .+.++.||||.+.. +++|.+|+ +..|||||+..+ .|+|+.+
T Consensus 524 ~~~~~~~~~~~ee~~~~~~~---ai~~g~EGlmvK~l~~dS~Y~pGkRs~~WlKlK~dy~~~~~dtlDlVv 591 (744)
T PLN03113 524 QFATAITSNDLEEIQKFLDA---AVDASCEGLIIKTLNKDATYEPSKRSNNWLKLKKDYMESIGDSLDLVP 591 (744)
T ss_pred EEeeeeccCCHHHHHHHHHH---HHHcCCceEEEeccCCCCCccCCCCCCCeEEEechhhccccccccEEE
Confidence 22222 223456667664 57889999999985 78999995 779999998755 4999886
No 30
>PHA02587 30 DNA ligase; Provisional
Probab=99.77 E-value=1.1e-17 Score=187.03 Aligned_cols=168 Identities=18% Similarity=0.249 Sum_probs=117.3
Q ss_pred CeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCc-ccccc---cCCCCeeeeEEEEEecCC-C-------
Q 006504 365 YYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGE---KTHHFTLLDGEMIIDKLP-D------- 432 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~-~~l~~---~~~~~TlLDGElV~d~~~-~------- 432 (643)
+|++++|+||+|+++++.++++.+++|+++-+ + .||..... ..+.. ....+++||||||.-... +
T Consensus 153 ~~~~E~K~DG~R~q~h~~~~~v~l~SR~g~~~--~-~~p~i~~~l~~~~~~~~~~~~~~VLDGElv~~~~~~~~~~~~~f 229 (488)
T PHA02587 153 PAYAQLKADGARCFADIDADGIEIRSRNGNEY--L-GLDLLKEELKKMTAEARQRPGGVVIDGELVYVEVETKKPNGLSF 229 (488)
T ss_pred cEEEEEccCceEEEEEEeCCEEEEEecCCccc--c-CChhHHHHHHHHhhhhcccCCcEEEEeEEEEEecccCCCccchh
Confidence 89999999999999999999999999998732 2 35543211 11100 113679999999875210 0
Q ss_pred ----------------------------------CCccceEEEEEEEeecC---CccccCCCHHHHHHHHHHHhcCcccc
Q 006504 433 ----------------------------------SRRQERRYLIYDMMAIN---QASVIERPFYERWKMLEKEVIEPRNY 475 (643)
Q Consensus 433 ----------------------------------~~~~~~~yliFDil~~~---G~~l~~~pf~eRl~~L~~~I~~p~~~ 475 (643)
.....+.|++||+|.++ |..+...||.+|++.|++.+....
T Consensus 230 ~~~~~~~~~f~q~l~~R~~~~~i~~~~l~~~~~~~~~~pv~~~vFDiL~ld~y~~~~~~~~pl~eRr~~L~~l~~~~~-- 307 (488)
T PHA02587 230 LFDDSKAKEFVGVVADRATGNGIVNKSLKGTISKEEAQEIVFQVWDIVPLEVYYGKEKSDMPYDDRFSKLAQMFEDCG-- 307 (488)
T ss_pred hcccccccchhhhhhhhhhccchhhhhhccccchhhccceEEEEEEeechhhccCCccccCCHHHHHHHHHHHHhhcC--
Confidence 01134689999999643 444778999999999999663111
Q ss_pred ccccccccCCCCcccCCCCcEEEeccc---eechhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcc
Q 006504 476 ERHNIYQSRNPYYRYDLEPFRVRRKDF---WLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMN 552 (643)
Q Consensus 476 ~~k~i~k~~~~~~~~~~~pf~v~~K~f---~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~n 552 (643)
.+ .+...++ ....++..+|+. .+..+.||||++..+++|.+|++.+|+|||+. .
T Consensus 308 ---------~~---------~i~l~~~~~~~~~ee~~~~~~~---a~~~G~EGimlK~~ds~Y~~GRs~~WlKiK~~--~ 364 (488)
T PHA02587 308 ---------YD---------RVELIENQVVNNLEEAKEIYKR---YVDQGLEGIILKNTDGLWEDGRSKDQIKFKEV--I 364 (488)
T ss_pred ---------CC---------cEEEEeeEEcCCHHHHHHHHHH---HHhCCCCeEEEECCCCCCCCCCCCCcEEecCC--C
Confidence 00 1122222 223455666654 46789999999999999999999899999974 5
Q ss_pred eEEEEEEE
Q 006504 553 SVDFLFEV 560 (643)
Q Consensus 553 TVDF~l~~ 560 (643)
++|+.+--
T Consensus 365 ~~dlvVvG 372 (488)
T PHA02587 365 DIDLEIVG 372 (488)
T ss_pred ceEEEEEe
Confidence 89988743
No 31
>PRK01109 ATP-dependent DNA ligase; Provisional
Probab=99.77 E-value=1.9e-18 Score=197.34 Aligned_cols=167 Identities=17% Similarity=0.283 Sum_probs=123.6
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccC-CCCeeeeEEEEEec-CCCCC-------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKT-HHFTLLDGEMIIDK-LPDSR------- 434 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~-~~~TlLDGElV~d~-~~~~~------- 434 (643)
.+|++++|+||.|+++++.++++.+++|+++ .++-.||..... +.... .+++|||||||.-. ..+..
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 4799999999999999999999999999987 336678875321 11112 26899999998753 22210
Q ss_pred -------------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEecc
Q 006504 435 -------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKD 501 (643)
Q Consensus 435 -------------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~ 501 (643)
...+.|++||||++||++++++||.+|+++|++.+.. .. . +...+
T Consensus 324 ~R~r~~~~~~~~~~~p~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~~-~~-------------------~--~~~~~ 381 (590)
T PRK01109 324 HRKRKYDIEEAIKEYPVNVFLFDLLYVDGEDLTDKPLPERRKKLEEIVKE-ND-------------------K--VKLAE 381 (590)
T ss_pred hcccccchhhhcccCceEEEEEEEEEECCcchhhCcHHHHHHHHHHhcCC-CC-------------------c--eEEee
Confidence 1235799999999999999999999999999996532 11 0 12222
Q ss_pred ceec---hhHHHHHHHhcccccCCCceeEEecC--CCCCcCC-CCCCeEEEecC----CcceEEEEEE
Q 006504 502 FWLL---STVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPR-THEGLLKWKYA----RMNSVDFLFE 559 (643)
Q Consensus 502 f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~--~spY~~G-t~~~lLKWKp~----~~nTVDF~l~ 559 (643)
.... .++..+|+. .+.++.||||+|.. +++|.+| |+..|+|+|+. ...|+|+.+-
T Consensus 382 ~~~~~~~~~~~~~~~~---a~~~g~EGiv~K~~~~ds~Y~~g~Rs~~WlK~K~dy~~~~~~~~Dlvvi 446 (590)
T PRK01109 382 RIITDDVEELEKFFHR---AIEEGCEGLMAKSLGKDSIYQAGARGWLWIKYKRDYQSEMADTVDLVVV 446 (590)
T ss_pred eEecCCHHHHHHHHHH---HHHcCCceEEEecCCCCCCcCCCCCCccHHHhhHHhhcccCCceeEEEE
Confidence 2222 355566654 57899999999999 9999999 57789999963 3568998873
No 32
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=99.77 E-value=8.6e-18 Score=193.78 Aligned_cols=166 Identities=19% Similarity=0.231 Sum_probs=125.5
Q ss_pred hhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCC-CCeeeeEEEEEecCCCC------
Q 006504 361 LRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTH-HFTLLDGEMIIDKLPDS------ 433 (643)
Q Consensus 361 l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~-~~TlLDGElV~d~~~~~------ 433 (643)
+...+|++++|+||+|+++++.++++.|++|++.- .+-.||..... ..... +.++||||||.-...+.
T Consensus 474 ~~~~~w~~E~K~DG~R~~~~~~~g~vrL~SRnG~d--~T~~fPel~~~---~~~l~~~~~ILDGEiVvld~~G~~~F~~L 548 (764)
T PRK09632 474 LKASQWAFEGKWDGYRLLAEADHGALRLRSRSGRD--VTAEYPELAAL---AEDLADHHVVLDGEIVALDDSGVPSFGLL 548 (764)
T ss_pred CCCCCEEEEEEECceeEEEEEeCCEEEEEeCCCCC--ccccchhHHHH---HhhCCCcceeeeeEEEEeCCCCCCCHHHH
Confidence 44568999999999999999999999999999983 35678875321 11222 58999999998533221
Q ss_pred ----CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHH
Q 006504 434 ----RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVN 509 (643)
Q Consensus 434 ----~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~ 509 (643)
....+.|++||+|++||++++++||.+|++.|++.+.... .++..+.+. .+.+
T Consensus 549 q~r~~~~~v~y~vFDLL~lnG~dL~~~Pl~eRR~~L~~l~~~~~----------------------~i~~s~~~~-~~~~ 605 (764)
T PRK09632 549 QNRGRDTRVEFWAFDLLYLDGRSLLRKPYRDRRKLLEALAPSGG----------------------SLTVPPLLP-GDGA 605 (764)
T ss_pred hhhhhcCCeEEEEEeeeccCCcccccCCHHHHHHHHHHhhCCCC----------------------cEEecceec-ccHH
Confidence 1234799999999999999999999999999999653110 022222222 2356
Q ss_pred HHHHHhcccccCCCceeEEecCCCCCcCCC-CCCeEEEecCCcceEEEEEE
Q 006504 510 KLLKEFIPKLSHDADGLVFQGWDDPYVPRT-HEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 510 ~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt-~~~lLKWKp~~~nTVDF~l~ 559 (643)
.+|+. .+.++.||||+|..+++|.+|+ +.+|||.|+. .+.||.+-
T Consensus 606 ~~l~~---a~~~GlEGIVaKr~dS~Y~pGrRs~~WlKiK~~--~~~e~VI~ 651 (764)
T PRK09632 606 EALAY---SRELGWEGVVAKRRDSTYQPGRRSSSWIKDKHW--RTQEVVIG 651 (764)
T ss_pred HHHHH---HHHcCCcEEEEeCCCCCCCCCCcCCCeEEEecC--CceEEEEE
Confidence 67764 4678999999999999999996 7889999974 58998873
No 33
>PRK05972 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.76 E-value=1.2e-17 Score=194.43 Aligned_cols=166 Identities=20% Similarity=0.234 Sum_probs=124.9
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC----------
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS---------- 433 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~---------- 433 (643)
.+|+++.|+||+|+++++.++++.|++|++.- .+-.||..... +..-..+.++||||||.....+.
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 DGWIYEIKFDGYRILARIEGGEVRLFTRNGLD--WTAKLPALAKA--AAALGLPDAWLDGEIVVLDEDGVPDFQALQNAF 324 (860)
T ss_pred CceEEEeeeCcEEEEEEEECCEEEEEeCCCCc--cccccHHHHHH--HHhcCCCceeEeEEEEEECCCCCCCHHHHHHHh
Confidence 58999999999999999999999999999983 35678875321 11112367899999998543221
Q ss_pred ---CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHH
Q 006504 434 ---RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNK 510 (643)
Q Consensus 434 ---~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~ 510 (643)
....++|++||+|++||++++++||.+|++.|++.+.... ++ .|++.+.+.. +...
T Consensus 325 ~~~~~~~v~f~vFDLL~l~G~dL~~~PL~eRr~~L~~ll~~~~-----------~~---------~i~~s~~~~~-~g~~ 383 (860)
T PRK05972 325 DEGRTEDLVYFAFDLPFLGGEDLRELPLEERRARLRALLEAAR-----------SD---------RIRFSEHFDA-GGDA 383 (860)
T ss_pred hccCCCceEEEEEeccccCCcccccCCHHHHHHHHHHHhhhcC-----------CC---------cEEEeceecc-hHHH
Confidence 1234689999999999999999999999999999653210 11 1333333332 3456
Q ss_pred HHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEEEEE
Q 006504 511 LLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 511 l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF~l~ 559 (643)
+|+. .+.++.||||+|..+++|.+|++.+|||+|+. .+.+|.|-
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 7764 46889999999999999999999999999974 56788763
No 34
>PRK09633 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.76 E-value=1.1e-17 Score=190.25 Aligned_cols=177 Identities=21% Similarity=0.250 Sum_probs=124.1
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCc-ccccccC--CCCeeeeEEEEEecCCCC------
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKT--HHFTLLDGEMIIDKLPDS------ 433 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~-~~l~~~~--~~~TlLDGElV~d~~~~~------ 433 (643)
..+|+++.|+||.|+++++.++++.|++|++. ..+-.||..... ..+.... ...++||||||.-...+.
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 35799999999999999999999999999998 346678875321 1111111 135899999988432111
Q ss_pred ----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEE
Q 006504 434 ----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRV 497 (643)
Q Consensus 434 ----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v 497 (643)
......|++||+|++||+++++.||.+|++.|++.+.. ..... .+.. .... .+
T Consensus 93 q~R~~~~~~~~i~~~~~~~pv~~~vFDlL~lnG~dL~~~PL~eRr~~L~~ll~~-~~~~~-------~~~~-~~~~--~i 161 (610)
T PRK09633 93 QQRGRLKNTEVIAKSANARPCQLLAFDLLELKGESLTSLPYLERKKQLDKLMKA-AKLPA-------SPDP-YAKA--RI 161 (610)
T ss_pred HhhhhccccchhhhhhcccceEEEEEeecccCCcccccCCHHHHHHHHHHHhhh-ccccc-------cccc-cccc--ce
Confidence 01235899999999999999999999999999996632 11000 0000 0001 12
Q ss_pred EeccceechhHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEecCCcceEEEEEE
Q 006504 498 RRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 498 ~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp~~~nTVDF~l~ 559 (643)
...+. ..+.+.+|+. .+.++.||||+|..+++|.+| ++.+|+|.|+ ..+.|+.+-
T Consensus 162 ~~~~~--~~~~~~l~~~---a~~~g~EGIV~Kr~dS~Y~~G~Rs~~WlKiK~--~~~~d~vI~ 217 (610)
T PRK09633 162 QYIPS--TTDFDALWEA---VKRYDGEGIVAKKKTSKWLENKRSKDWLKIKN--WRYVHVIVT 217 (610)
T ss_pred EEcCC--HHHHHHHHHH---HHHcCCceEEEeCCCCCCCCCCCCCCeEEEec--cCCceeEEE
Confidence 33332 2356677765 357899999999999999999 5789999997 468899863
No 35
>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]
Probab=99.75 E-value=9.9e-18 Score=184.66 Aligned_cols=167 Identities=22% Similarity=0.249 Sum_probs=124.8
Q ss_pred CeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCC-cCCc-ccccccCCCCeeeeEEEEEecCCCC---------
Q 006504 365 YYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPC-RNSN-EGLGEKTHHFTLLDGEMIIDKLPDS--------- 433 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~-~~~~-~~l~~~~~~~TlLDGElV~d~~~~~--------- 433 (643)
+|.+++|+||.|+++++.++++.|++|++. .++-.||. .... ..+ ...++|||||+|.....+.
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 33566883 2111 111 2357999999998643211
Q ss_pred -----------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccc
Q 006504 434 -----------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDF 502 (643)
Q Consensus 434 -----------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f 502 (643)
.+....|++||+|++||++++.+||.+|++.|++.|....... . .....+
T Consensus 209 ~~~k~~v~~~~~~~~~~~~aFDlL~~dG~dL~~~pl~eRr~~Le~lv~~~~~~~----------~---------~~~i~~ 269 (444)
T COG1793 209 LRRKYDVAKLRRETPLVLFAFDLLYLDGEDLRGLPLEERRALLEELVKSSDKIE----------I---------AERIPF 269 (444)
T ss_pred hhhccchhhhccCCceEEEEEEEEeECCcccccCchHHHHHHHHHHhccccccc----------c---------ccceec
Confidence 1134589999999999999999999999999999764321000 0 011122
Q ss_pred eechhHHHHHHHhcccccCCCceeEEecCCCCCcCC-CCCCeEEEecCCcceEEEEEEE
Q 006504 503 WLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYVPR-THEGLLKWKYARMNSVDFLFEV 560 (643)
Q Consensus 503 ~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~G-t~~~lLKWKp~~~nTVDF~l~~ 560 (643)
........+|+. .+.++.||||.+..++||.+| +...|+|||+. .|.||.|.-
T Consensus 270 ~~~~~~~~~~~~---a~~~g~EGvv~K~~ds~Y~~g~R~~~W~K~K~~--~~~d~vv~G 323 (444)
T COG1793 270 SDAEEGEAFLEA---AIELGLEGVVAKRPDSPYRAGGRSNKWLKVKRD--ETLDLVVVG 323 (444)
T ss_pred cChhhHHHHHHH---HHhcCceEEEEeCCCCCcCCCCCCCcceEeccC--CcccEEEEE
Confidence 445566777764 468899999999999999955 58899999996 899998843
No 36
>PHA00454 ATP-dependent DNA ligase
Probab=99.75 E-value=1.7e-17 Score=176.14 Aligned_cols=183 Identities=15% Similarity=0.129 Sum_probs=127.0
Q ss_pred CCCc-cccccccchhhhh-cC-CeEEeEecCceEEEEEEECCE-EEEEeCCCccccccccCCCcCCcc-------cccc-
Q 006504 346 PGSH-PVSLNSDNLQLLR-QR-YYYATWKADGTRYMMLITIDG-CYLIDRCFNFRRVQMRFPCRNSNE-------GLGE- 413 (643)
Q Consensus 346 PG~q-PVSl~r~nl~~l~-~~-~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~~v~~~FP~~~~~~-------~l~~- 413 (643)
|+++ -|+|+.+++.... .. .|++++|+||+|+++++.+++ +.|++|++. .||...... .+.+
T Consensus 6 ~~~~~~~~~~~~~i~~~~~~~g~~~~E~K~DG~R~~~~~~~~~~v~l~SR~g~------~~p~l~~~~~~~~~~~~~~~~ 79 (315)
T PHA00454 6 TNPFRAVDFNESAIEKALEKAGYLIADVKYDGVRGNIVVDNTADHGWLSREGK------TIPALEHLNGFDRRWAKLLND 79 (315)
T ss_pred CCccccccCCHHHHHHHHHhCCcEEEEEccceEEEEEEEcCCCeEEEEeCCCC------cccchhhhhhhhhhhhhhhhh
Confidence 4444 6899999998544 33 566666999999999998764 999999996 245432110 0000
Q ss_pred ---cCCCCeeeeEEEEEecCCC----------------CCccceEEEEEEEeecC----Cccc---cCCCHHHHHHHHHH
Q 006504 414 ---KTHHFTLLDGEMIIDKLPD----------------SRRQERRYLIYDMMAIN----QASV---IERPFYERWKMLEK 467 (643)
Q Consensus 414 ---~~~~~TlLDGElV~d~~~~----------------~~~~~~~yliFDil~~~----G~~l---~~~pf~eRl~~L~~ 467 (643)
.....++||||+|....+. ..+..+.|++||+|++| |.++ ..+||.+|.++|++
T Consensus 80 ~~~~l~~~~vLDGElv~~~~~f~~~~~~l~~k~~~~~~~~~~~v~~~vFDll~l~~~~~g~~l~~l~~~pl~~Rr~~L~~ 159 (315)
T PHA00454 80 DRCIFPDGFMLDGELMVKGVDFNTGSGLLRRKWKVLFELHLKKLHVVVYDVTPLDVLESGEDYDVMSLLMYEHVRAMVPL 159 (315)
T ss_pred hhhcCCCCeEEEEEEEecCCCHHHHHHHhccCccchhhhccCceEEEEEEeeEeccccCCccccccccccHHHHHHHHHH
Confidence 1124789999999853211 01234699999999999 6665 78999999999997
Q ss_pred HhcCccccccccccccCCCCcccCCCCcEEEeccceec---hhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeE
Q 006504 468 EVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL---STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLL 544 (643)
Q Consensus 468 ~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~---~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lL 544 (643)
.+. +... ..++..+.+.. .++.++|+. .+.++.||||++..+++|.+|+...|+
T Consensus 160 l~~-~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~---~~~~g~EGiv~K~~ds~Y~~Grr~~~~ 216 (315)
T PHA00454 160 LME-YFPE-------------------IDWFLSESYEVYDMESLQELYEK---KRAEGHEGLVVKDPSLIYRRGKKSGWW 216 (315)
T ss_pred HHh-hCCC-------------------cceEeeceEEcCCHHHHHHHHHH---HHhCCCceEEEeCCCCCCCCCCccCcE
Confidence 542 1100 01333344433 355666654 578999999999999999999877798
Q ss_pred EEecCCcceEEEEEE
Q 006504 545 KWKYARMNSVDFLFE 559 (643)
Q Consensus 545 KWKp~~~nTVDF~l~ 559 (643)
|+|+. .++|+.+.
T Consensus 217 K~K~~--~~~d~vIv 229 (315)
T PHA00454 217 KMKPE--CEADGTIV 229 (315)
T ss_pred EEccc--CceeEEEE
Confidence 99974 59999883
No 37
>KOG1718 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.75 E-value=1e-17 Score=156.67 Aligned_cols=118 Identities=20% Similarity=0.267 Sum_probs=105.9
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|..|||.|-+.+... + .||+|.++|+.|+ | ...+..|++.+.+-|+.....|+.+||||.+|++||+.+
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---P-QARLYDHFDPVADKIHSVIMRGGKTLVHCVAGVSRSASL 111 (198)
T ss_pred cCceEEEEcccCCCCcc---C--CCceeEEEEcccC---C-cchhhhhhhHHHHHHHHHHhcCCcEEEEEccccchhHHH
Confidence 69999999997764322 1 5799999999986 3 367899999999999988889999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCC
Q 006504 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLD 265 (643)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~ 265 (643)
+.||||+..+|++.||..+++.+||.+.+|.+|++||..|+..+..+
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 99999999999999999999999999999999999999999887653
No 38
>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=1.9e-17 Score=154.10 Aligned_cols=113 Identities=15% Similarity=0.307 Sum_probs=94.2
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|++||||+.+... ......|++|+++|+.|.+..+ +...+..+.+|+......+++|+|||.+|.||||++
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 3445689999999999864222 233445555666665667889999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHH
Q 006504 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~ 258 (643)
+++|||..++|++++|++++++.||...++++|+.+|.+|
T Consensus 99 ~~~~l~~~~~~~~~~a~~~vr~~r~~~~~~~~~~~~l~~~ 138 (139)
T cd00127 99 VIAYLMKTLGLSLREAYEFVKSRRPIISPNAGFMRQLKEY 138 (139)
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHCCccCCCHHHHHHHHHh
Confidence 9999999999999999999999999999999999999876
No 39
>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=8.9e-17 Score=156.40 Aligned_cols=143 Identities=23% Similarity=0.311 Sum_probs=98.5
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecC-----------C
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKL-----------P 431 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~-----------~ 431 (643)
..+|++++|+||+|+++. ++ .+++|++.-+ ..+.. ...+ ...++||||||.-.. .
T Consensus 15 ~~~~~~e~K~DG~R~~~~--~~--~~~SR~g~~~----t~~~~-~~~~-----l~~~ilDGElv~~~~~f~~l~~~~~~~ 80 (174)
T cd07896 15 ISGYLVSEKLDGVRAYWD--GK--QLLSRSGKPI----AAPAW-FTAG-----LPPFPLDGELWIGRGQFEQTSSIVRSK 80 (174)
T ss_pred hHHeeechhhceEEEEEe--cc--EEEecCCcCC----CCCHH-HHhh-----CCCCccCceEEcCCCCHHHHHHHHhcC
Confidence 358999999999999653 33 8999998722 11110 0111 234899999997321 0
Q ss_pred CC---CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceech--
Q 006504 432 DS---RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLS-- 506 (643)
Q Consensus 432 ~~---~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~-- 506 (643)
.. ....+.|++||+++ +..||.+|++.|++.+..... + .++..+.....
T Consensus 81 ~~~~~~~~~~~f~vFDil~------~~~p~~eR~~~L~~~i~~~~~-----------~---------~~~~~~~~~~~~~ 134 (174)
T cd07896 81 KPDDEDWRKVKFMVFDLPS------AKGPFEERLERLKNLLEKIPN-----------P---------HIKIVPQIPVKSN 134 (174)
T ss_pred CCChhhcccceEEEEeCCC------CCCCHHHHHHHHHHHHHhCCC-----------C---------cEEEEeeeeeCCH
Confidence 00 12457999999998 788999999999996632100 0 12333333333
Q ss_pred -hHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEec
Q 006504 507 -TVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKY 548 (643)
Q Consensus 507 -~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp 548 (643)
++..+++. .+.++.||||++..+++|.+|++.+|+||||
T Consensus 135 ~~i~~~~~~---~~~~g~EGlv~K~~ds~Y~~gR~~~wlK~Kp 174 (174)
T cd07896 135 EALDQYLDE---VVAAGGEGLMLRRPDAPYETGRSDNLLKLKP 174 (174)
T ss_pred HHHHHHHHH---HHhcCCCeEEEecCCCcccCCcCCCceeeCC
Confidence 44555543 5788999999999999999999999999997
No 40
>KOG1717 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.68 E-value=2e-16 Score=157.41 Aligned_cols=118 Identities=19% Similarity=0.305 Sum_probs=106.2
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCC-cEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEG-IKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGY 217 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~G-I~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~ 217 (643)
.+|++|||+|... |..|+..| +.|..||+.|| ....+.+|+.++..||++++.++..|||||-+|++||.|
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 6899999999654 34455444 78999999997 457899999999999999998999999999999999999
Q ss_pred HHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 006504 218 MIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (643)
Q Consensus 218 li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (643)
+++||||.+...+..+|+++|+.++..+.+|-+|+-||..|...+.-
T Consensus 268 vtvaYLMqkl~lslndAyd~Vk~kksnisPNFnFMgQLldfertlgl 314 (343)
T KOG1717|consen 268 VTVAYLMQKLNLSLNDAYDFVKHKKSNISPNFNFMGQLLDFERTLGL 314 (343)
T ss_pred HHHHHHHHHhccchhhHHHHHHHhccCCCCCcchhHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999887653
No 41
>PRK12361 hypothetical protein; Provisional
Probab=99.67 E-value=6.7e-16 Score=175.87 Aligned_cols=120 Identities=20% Similarity=0.397 Sum_probs=99.3
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|++|||||.+...- +......|++|+++|+.|+ ..|+.+++ +.+.+||++..+.+++|+|||++|+|||+++
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-SVPTLAQL----NQAINWIHRQVRANKSVVVHCALGRGRSVLV 192 (547)
T ss_pred cCCCEEEEcccccccc-cccccccCceEEEeecCCC-CCCcHHHH----HHHHHHHHHHHHCCCeEEEECCCCCCcHHHH
Confidence 6899999999654221 1122346899999999996 67776554 4455677776778899999999999999999
Q ss_pred HHHHHHHh-cCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCC
Q 006504 219 IVHFLMRS-QSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRL 264 (643)
Q Consensus 219 i~aYLm~~-~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~ 264 (643)
++||||.+ .++++++|++.++++||.+.+|+.|+++|.+++...+.
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 48999999999999999999999999999999987664
No 42
>PRK09125 DNA ligase; Provisional
Probab=99.67 E-value=4.9e-16 Score=162.29 Aligned_cols=153 Identities=22% Similarity=0.285 Sum_probs=106.7
Q ss_pred hcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCC----------
Q 006504 362 RQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP---------- 431 (643)
Q Consensus 362 ~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~---------- 431 (643)
...+|++++|+||+|++. +++-|++|++.-. +-|.... . ...+++||||||.-...
T Consensus 41 ~~~~~~~E~K~DG~R~~~----~~v~l~SR~g~~i----t~p~~~~-~-----~~~~~vLDGElv~~~~~F~~l~~r~~~ 106 (282)
T PRK09125 41 DISGYLVSEKLDGVRAYW----DGKQLLTRQGNPI----AAPAWFT-A-----GFPPFPLDGELWAGRGQFEAISSIVRD 106 (282)
T ss_pred ChhhEEEEeeeeeEeEEE----CCeEEEcCCCCcC----CCchhHH-h-----cCCCccEeEEEEeCCCCHHHHHHHHcc
Confidence 346999999999999952 4688999999721 1132111 1 12478999999862110
Q ss_pred ---CC-CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceec--
Q 006504 432 ---DS-RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLL-- 505 (643)
Q Consensus 432 ---~~-~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~-- 505 (643)
.. ....+.|++||+++++| ||.+|++.|++.+.. . ..+ .++..+....
T Consensus 107 k~~~~~~~~~v~~~vFDll~~~g------pl~eRr~~L~~li~~-~----------~~~---------~i~~~~~~~~~~ 160 (282)
T PRK09125 107 KTPDDAAWRKVRFMVFDLPDAPG------DFEERLAVLKKLLAK-L----------PSP---------YIKIIEQIRVRS 160 (282)
T ss_pred CCcchhhhcccEEEEEEcCCCCC------CHHHHHHHHHHHHhh-C----------CCC---------cEEEEeEEEcCC
Confidence 00 01346999999999876 999999999996532 1 011 1233333333
Q ss_pred -hhHHHHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEEEEE
Q 006504 506 -STVNKLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFE 559 (643)
Q Consensus 506 -~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF~l~ 559 (643)
.++..+++. .+.++.||||++..+++|.+|++..|+|+|+- .+.|+.+-
T Consensus 161 ~~~~~~~~~~---~~~~G~EGiV~K~~ds~Y~~GRs~~wlKiK~~--~~~d~vIv 210 (282)
T PRK09125 161 EAALQQFLDQ---IVAAGGEGLMLHRPDAPYEAGRSDDLLKLKPY--YDAEATVI 210 (282)
T ss_pred HHHHHHHHHH---HHHcCCCEEEEeCCCCCCcCCCCCCcEEEEec--CCCcEEEE
Confidence 345566654 47889999999999999999999999999984 58898873
No 43
>KOG1716 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=99.64 E-value=1.5e-15 Score=159.18 Aligned_cols=121 Identities=20% Similarity=0.364 Sum_probs=105.6
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYM 218 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~l 218 (643)
.+|.+|+|++.....+. .....+|+|+.+++.|. |+ .+|..+++.+.+||+.++..++.|+|||++|++||+++
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 69999999997654321 11223899999999884 43 56777999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCC
Q 006504 219 IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLD 265 (643)
Q Consensus 219 i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~ 265 (643)
++||||++++|++++|+++++++||.+.+|.+|+.||.++.......
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 99999999999999999999999999999999999999999887653
No 44
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=99.63 E-value=5.4e-15 Score=133.42 Aligned_cols=136 Identities=21% Similarity=0.316 Sum_probs=115.8
Q ss_pred CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHH
Q 006504 102 GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNA 181 (643)
Q Consensus 102 ~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~ 181 (643)
.+||....|.+.+++.. ++.+++ .++.+|+-++ +..||...+++.||+.+..|..| |.+|+.+
T Consensus 17 MrFLIThnPtnaTln~f------------ieELkK--ygvttvVRVC--e~TYdt~~lek~GI~Vldw~f~d-g~ppp~q 79 (173)
T KOG2836|consen 17 MRFLITHNPTNATLNKF------------IEELKK--YGVTTVVRVC--EPTYDTTPLEKEGITVLDWPFDD-GAPPPNQ 79 (173)
T ss_pred eEEEEecCCCchhHHHH------------HHHHHh--cCCeEEEEec--ccccCCchhhhcCceEeeccccc-CCCCchH
Confidence 48999999977766543 344443 6899999999 56799999999999999999988 5889999
Q ss_pred HHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHH
Q 006504 182 SVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 182 ~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~ 258 (643)
.+..|+..+..-+. .++|..|+|||.+|.||...++|..||+ .||..++|+++++++|..++ |..|+..|.+|
T Consensus 80 vv~~w~~l~~~~f~--e~p~~cvavhcvaglgrapvlvalalie-~gmkyedave~ir~krrga~-n~kql~~leky 152 (173)
T KOG2836|consen 80 VVDDWLSLVKTKFR--EEPGCCVAVHCVAGLGRAPVLVALALIE-AGMKYEDAVEMIRQKRRGAI-NSKQLLYLEKY 152 (173)
T ss_pred HHHHHHHHHHHHHh--hCCCCeEEEEeecccCcchHHHHHHHHH-ccccHHHHHHHHHHHhhccc-cHHHHHHHHHh
Confidence 99999998876666 6799999999999999999999999998 69999999999999998875 46777776554
No 45
>KOG0966 consensus ATP-dependent DNA ligase IV [Replication, recombination and repair]
Probab=99.56 E-value=2.7e-14 Score=160.03 Aligned_cols=210 Identities=20% Similarity=0.305 Sum_probs=139.6
Q ss_pred HHHHHHHHHHhhcccCC----CCCCCCCCCCccccccccc------hhhhhcCCeEEeEecCceEEEEEEECCEEEEEeC
Q 006504 322 QDAFRHFCYQTLKLNFG----GRGNMQFPGSHPVSLNSDN------LQLLRQRYYYATWKADGTRYMMLITIDGCYLIDR 391 (643)
Q Consensus 322 ~~~l~~~~~~~~~~~~~----~~~~~~FPG~qPVSl~r~n------l~~l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR 391 (643)
..-|+..|.++..=+.+ +..-.=|-..+|.-..+.+ +..+...+++++.|.||.|++|+.+++....++|
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 45667777776531111 1001224555565554443 4456778999999999999999999999999999
Q ss_pred CCc-cccccccCCCcCCc----ccccccCCCCeeeeEEEEE-ecCCC-----------------CCccceEEEEEEEeec
Q 006504 392 CFN-FRRVQMRFPCRNSN----EGLGEKTHHFTLLDGEMII-DKLPD-----------------SRRQERRYLIYDMMAI 448 (643)
Q Consensus 392 ~~~-~~~v~~~FP~~~~~----~~l~~~~~~~TlLDGElV~-d~~~~-----------------~~~~~~~yliFDil~~ 448 (643)
|+. |...=-.++..... .++...-...+|||||||. |+... .....|.|++||+|++
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 32110111111000 1111112356899999976 32110 0135689999999999
Q ss_pred CCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccCCCceeEE
Q 006504 449 NQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVF 528 (643)
Q Consensus 449 ~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf 528 (643)
||+++...|+.+|+++|+..+. |....+ +.++.+.-..+.+++++|++ .+..+.||||.
T Consensus 358 NgksL~~~~l~qR~e~L~~v~~-p~~~~i-----------------ei~~~~~~~~~edi~~~f~~---ai~~~~EGIVl 416 (881)
T KOG0966|consen 358 NGKSLFGAPLHQRLEILKKVIV-PKSGRI-----------------EIVRSEVGSTKEDIEQFFEE---AIDNGEEGIVL 416 (881)
T ss_pred cCcccCCccHHHHHHHHHhccc-CCCCee-----------------EEeehhhcccHHHHHHHHHH---HHhcCCCceEE
Confidence 9999999999999999999543 321111 12344444455667777764 57889999999
Q ss_pred ecCCCCCcCCC-CCCeEEEecCCcc
Q 006504 529 QGWDDPYVPRT-HEGLLKWKYARMN 552 (643)
Q Consensus 529 ~p~~spY~~Gt-~~~lLKWKp~~~n 552 (643)
+..++.|.+|. .+.|+|-||.-+-
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 99999999996 7889999998765
No 46
>KOG2386 consensus mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=99.50 E-value=8.7e-15 Score=155.97 Aligned_cols=208 Identities=25% Similarity=0.282 Sum_probs=142.3
Q ss_pred CCCCCCCCccccccccchhhhhcCCeEEeEecCceEEEEEEEC-----CEEEEEeCCCccccccccCCCcCCccc---cc
Q 006504 341 GNMQFPGSHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITI-----DGCYLIDRCFNFRRVQMRFPCRNSNEG---LG 412 (643)
Q Consensus 341 ~~~~FPG~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~-----~~vyLidR~~~~~~v~~~FP~~~~~~~---l~ 412 (643)
....|||+| +....++++.|+.++|.||+|.||+|.++|+.. .++.-+.++...+ ..+|....... +.
T Consensus 38 ~~k~~~~~~-~f~~~dl~~~l~~~~~~vgl~iDltnt~ryy~~~~~~~~g~~Y~K~~c~g~---~~vp~~~~v~~fv~~v 113 (393)
T KOG2386|consen 38 STKTFPGSQ-RFQPKDLFELLKEHNYKVGLKIDLTNTLRYYDKPELEERGVKYLKRNCPGR---GVVPRTELVDKFVKLV 113 (393)
T ss_pred CcCCCCCcc-ccCHHHHHHHHHhcCceEEEEEeccceeeeeccccccccceeEEEeccCCc---ccCCCccchHHHHHHH
Confidence 346688887 888999999999999999999999999999953 2444444443322 12554433222 22
Q ss_pred ccCCCCeeeeEEEEEecCCCCCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCC
Q 006504 413 EKTHHFTLLDGEMIIDKLPDSRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDL 492 (643)
Q Consensus 413 ~~~~~~TlLDGElV~d~~~~~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~ 492 (643)
+.++.+|.+|||+|...-+.+ .+...||||++|+.+|. .+...-.+|++......+.+.... .++.. . ....
T Consensus 114 ~~f~~~~~~~~~LI~vhcthG-~NrtgyLI~~yL~~~~~-~s~~~aik~f~~~r~~gi~k~dyi-~~L~~---~--~~~~ 185 (393)
T KOG2386|consen 114 KGFVDDTKLDDELIGVHCTHG-LNRTGYLICAYLADVGG-YSSSEAIKRFADARPPGIEKQDYI-DALYS---R--YHDI 185 (393)
T ss_pred HHHHhcccCCCCEEEEeCCCc-ccccceeeeeeeeeccC-ccHHHHHHHHHHhCCCccCchHHH-HHHhh---c--cccc
Confidence 456678999999999865543 35678999999999876 555555666666555444432111 11221 1 1234
Q ss_pred CCcEEEeccceechhHHHHHHHhccccc-CCCceeEEecCCCCC-cCCCCCCeEEEecCCcceEEEEEEEcCC
Q 006504 493 EPFRVRRKDFWLLSTVNKLLKEFIPKLS-HDADGLVFQGWDDPY-VPRTHEGLLKWKYARMNSVDFLFEVTDD 563 (643)
Q Consensus 493 ~pf~v~~K~f~~~~~~~~l~~~~~~~l~-h~~DGLIf~p~~spY-~~Gt~~~lLKWKp~~~nTVDF~l~~~~~ 563 (643)
.||.+..+.+-.-....++.. +... |..||+||++...|| ..|+...++||||-.+||+||.++....
T Consensus 186 ~p~~vs~p~~~~~~~~~~~~~---~~~~~~~~Dg~i~t~~~~pg~~~g~~~~~~k~k~~~~n~~~~~~~~~~~ 255 (393)
T KOG2386|consen 186 FPFKVSCPSMPDWKRSIKLKK---PVHKLHGNDGLIFTPAEIPGSKNGKQEALLKWKPFSLNTIDFGVKLEKP 255 (393)
T ss_pred ccccccCCCCcchhhhhhhcc---ccccccccCCCcCCcccCccccccchhhhhcCCchhcCCcccceeecCC
Confidence 567777766533333333322 2222 999999999999999 4899999999999999999999988654
No 47
>KOG2283 consensus Clathrin coat dissociation kinase GAK/PTEN/Auxilin and related tyrosine phosphatases [Signal transduction mechanisms; General function prediction only]
Probab=99.47 E-value=1.9e-13 Score=149.23 Aligned_cols=150 Identities=23% Similarity=0.307 Sum_probs=124.3
Q ss_pred cccCceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCC
Q 006504 99 EIGGCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVP 178 (643)
Q Consensus 99 ~I~~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P 178 (643)
-|+.+||+|.+|....- ...|.+..+++..+.++..+-..|-||+. .+.|++..|.. +...+++.|| .+|
T Consensus 17 YIT~rIIamsfPa~~~e-----s~yRN~l~dV~~fL~s~H~~~y~vyNL~~-er~yd~~~f~g---~V~~~~~~Dh-~~P 86 (434)
T KOG2283|consen 17 YITSRIIAMSFPAEGIE-----SLYRNNLEDVVLFLDSKHKDHYKVYNLSS-ERLYDPSRFHG---RVARFGFDDH-NPP 86 (434)
T ss_pred eeeeeEEEEeCCCCcch-----hhhcCCHHHHHHHHhhccCCceEEEecCc-cccCCcccccc---ceeecCCCCC-CCC
Confidence 37889999999966532 24678889999999887667777999997 67899888865 3455899998 799
Q ss_pred CHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCC-CHHHHHHHHHhcC---C--CCcCCHHHH
Q 006504 179 DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSM-SVAQAIKKFAEVR---P--PGIYKNEYI 252 (643)
Q Consensus 179 ~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~-s~~eAi~~~~~~R---p--~~i~~~~~l 252 (643)
+.+.+..|++.+..|+. .++...|+|||++|.+|||+|||||||..... ++++|+.++..+| . .+...+.|.
T Consensus 87 ~L~~l~~~c~~~~~WL~--~d~~nVvvvHCk~Gkgrtg~~icA~L~~~~~~~ta~eald~~~~kR~~~~~~~~~~~PSq~ 164 (434)
T KOG2283|consen 87 PLELLCPFCKSMDNWLS--EDPKNVVVVHCKAGKGRTGVMICAYLIYSGISATAEEALDYFNEKRFDEGKSKGVTIPSQR 164 (434)
T ss_pred cHHHHHHHHHCHHHHHh--cCccceEEEEccCCCcceEEEEeHHHHhhhhcCCHHHHHHHHhhhhccccccCCccCchhh
Confidence 99999999999999998 67889999999999999999999999997666 5999999999999 4 345566677
Q ss_pred HHHHHHHh
Q 006504 253 EALYTFYH 260 (643)
Q Consensus 253 ~~L~~~y~ 260 (643)
+.++-+..
T Consensus 165 RYv~Y~~~ 172 (434)
T KOG2283|consen 165 RYVGYFSR 172 (434)
T ss_pred HHHHHHHH
Confidence 76644433
No 48
>COG2453 CDC14 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]
Probab=99.44 E-value=1.1e-12 Score=128.70 Aligned_cols=101 Identities=22% Similarity=0.312 Sum_probs=77.4
Q ss_pred CCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhc-CCCH
Q 006504 153 YYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-SMSV 231 (643)
Q Consensus 153 ~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~-~~s~ 231 (643)
.+.....+..|+.++.+|+.|+ .+|+..++.+++ +||......|+.|+|||.+|+||||+++|||||.++ ++.+
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 4445566778999999999997 788876665555 555555567889999999999999999999999984 5688
Q ss_pred HHHHHHHHhcCCCCcCCHHHHHHHHHH
Q 006504 232 AQAIKKFAEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 232 ~eAi~~~~~~Rp~~i~~~~~l~~L~~~ 258 (643)
++|+...+.+|+..+....|...+.+.
T Consensus 137 ~~~i~~~~~~r~~~v~~~~q~~~~~e~ 163 (180)
T COG2453 137 DEAIAVKRRRRPGAVVTEIQHLFELEQ 163 (180)
T ss_pred HHHHHHHHhcCCcccccHHHHHHHHHH
Confidence 888888888888655544444444333
No 49
>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=99.40 E-value=1.3e-12 Score=147.38 Aligned_cols=141 Identities=21% Similarity=0.290 Sum_probs=98.3
Q ss_pred eCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEecCCCC-------------CccceEEEEEEEeecCCccccCC
Q 006504 390 DRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS-------------RRQERRYLIYDMMAINQASVIER 456 (643)
Q Consensus 390 dR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~-------------~~~~~~yliFDil~~~G~~l~~~ 456 (643)
+|++. ..+-+||+.... +.......++||||||.-...+. ....++|++||+|++||++++++
T Consensus 1 SRng~--d~T~~fPel~~~--~~~l~~~~~ILDGElVvld~~G~~~F~~Lq~~~~~~~~~pv~~~vFDlL~l~G~dL~~~ 76 (552)
T TIGR02776 1 TRNGH--DWTKRFPEIVKA--LALLKLLPAWIDGEIVVLDERGRADFAALQNALSAGASRPLTYYAFDLLFLSGEDLRDL 76 (552)
T ss_pred CCCcC--cchhhhHHHHHH--HhhCCCCCEEEEEEEEEECCCCCCCHHHHHHHHHhcccCceEEEEEeccccCCcccccC
Confidence 46766 235678876432 11112267999999988433221 12356999999999999999999
Q ss_pred CHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccCCCceeEEecCCCCCc
Q 006504 457 PFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGWDDPYV 536 (643)
Q Consensus 457 pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~~spY~ 536 (643)
||.+|++.|++.+.... .+. ++..... ....+.+|+. .+.++.||||+|..+++|.
T Consensus 77 Pl~eRr~~L~~ll~~~~-----------~~~---------i~~~~~~-~~~~~~~~~~---a~~~G~EGIV~K~~dS~Y~ 132 (552)
T TIGR02776 77 PLEERKKRLKQLLKAQD-----------EPA---------IRYSDHF-ESDGDALLES---ACRLGLEGVVSKRLDSPYR 132 (552)
T ss_pred CHHHHHHHHHHHhhhcC-----------CCc---------EEEeeee-cccHHHHHHH---HHHCCCceEEEeCCCCCCC
Confidence 99999999999653210 110 1222222 2344567764 4689999999999999999
Q ss_pred CCCCCCeEEEecCCcceEEEEEEE
Q 006504 537 PRTHEGLLKWKYARMNSVDFLFEV 560 (643)
Q Consensus 537 ~Gt~~~lLKWKp~~~nTVDF~l~~ 560 (643)
+||+.+|||+|+ ..+.||.+--
T Consensus 133 ~GRs~~WlKlK~--~~~~e~vI~G 154 (552)
T TIGR02776 133 SGRSKDWLKLKC--RRRQEFVITG 154 (552)
T ss_pred CCCCcchhcccc--cccceEEEEE
Confidence 999999999998 4588887743
No 50
>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=99.26 E-value=9.6e-12 Score=119.98 Aligned_cols=104 Identities=19% Similarity=0.295 Sum_probs=62.2
Q ss_pred HHHHHcCCCeeEEEEcCCCCCCCC-cchhhcCCcEEEEEeccCCCC---CCCHHHHHHHHHHHHHHHHhhccCCceEEEE
Q 006504 132 HQLRVLGRKLGLVIDLTNTTRYYP-TSDLKKEGIKHVKIQCKGRDA---VPDNASVNNFVYEVTQFLSRQKHSKKYILVH 207 (643)
Q Consensus 132 ~~~~~~~~~I~~VIdLt~~~~~Yd-~~~~~~~GI~y~~ip~~d~~~---~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVH 207 (643)
..++. .+|++||+|+.+....+ ...++++||+++++++.+... .++.+.+.+.++ .+. .....+||||
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 58999999997654432 234578999999999976421 234455555544 333 2345799999
Q ss_pred cCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Q 006504 208 CTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPP 244 (643)
Q Consensus 208 C~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~ 244 (643)
|.+|.+|||++|+||. +.+||+..+|+++++..-..
T Consensus 98 C~~G~~rTG~vvg~lR-k~Q~W~~~~i~~Ey~~f~~~ 133 (164)
T PF03162_consen 98 CNHGKDRTGLVVGCLR-KLQGWSLSSIFDEYRRFAGP 133 (164)
T ss_dssp -SSSSSHHHHHHHHHH-HHTTB-HHHHHHHHHHHHGG
T ss_pred eCCCCcchhhHHHHHH-HHcCCCHHHHHHHHHHhcCC
Confidence 9999999999999999 67999999999999875433
No 51
>KOG0967 consensus ATP-dependent DNA ligase I [Replication, recombination and repair]
Probab=99.21 E-value=8e-11 Score=129.91 Aligned_cols=177 Identities=18% Similarity=0.316 Sum_probs=121.7
Q ss_pred hhhhcCCeEEeEecCceEEEEEEECC-EEEEEeCCCccccccccCCCcCCc-ccccccCCCCeeeeEEEEEecCCCCC--
Q 006504 359 QLLRQRYYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFPCRNSN-EGLGEKTHHFTLLDGEMIIDKLPDSR-- 434 (643)
Q Consensus 359 ~~l~~~~Y~Vs~K~DG~R~llli~~~-~vyLidR~~~~~~v~~~FP~~~~~-~~l~~~~~~~TlLDGElV~d~~~~~~-- 434 (643)
..+.+..|--+||+||.|++++...+ .+++++||.+ ..+.+||..... ..+....-...|||||+|.-...+++
T Consensus 360 ~rf~~~~FTCEyKYDGeRAQIH~~edG~v~IfSRN~E--~~T~kYPDi~~~~~~~~kp~v~sFIlD~EvVA~Dr~~~~Il 437 (714)
T KOG0967|consen 360 ERFQDKAFTCEYKYDGERAQIHKLEDGTVEIFSRNSE--NNTGKYPDIIEVISKLKKPSVKSFILDCEVVAWDREKGKIL 437 (714)
T ss_pred HHhhCceeEEEeecCceeeeeEEccCCcEEEEecccc--cccccCccHHHHHHHhhCCccceeEEeeeEEEEeccCCccC
Confidence 34567788888999999999998754 6999999987 457789865322 11111222678999999984332211
Q ss_pred ------------------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcE
Q 006504 435 ------------------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFR 496 (643)
Q Consensus 435 ------------------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~ 496 (643)
+-....++||+|++||+++.++|+.+|+++|.+...+-. +...+
T Consensus 438 pFQvLSTRkRk~v~v~dikV~Vcvf~FDily~ng~~Li~~pL~eRR~~l~e~f~e~~------------g~f~f------ 499 (714)
T KOG0967|consen 438 PFQVLSTRKRKNVDVNDIKVKVCVFVFDILYLNGESLIQEPLRERRELLHESFKEIP------------GEFQF------ 499 (714)
T ss_pred chhhhhhhhccccchhhceEEEEEEEEeeeeeCChhhhhhhHHHHHHHHHhhcccCC------------CceeE------
Confidence 234577899999999999999999999999988543211 00000
Q ss_pred EEeccceechhHHHHHHHhcccccCCCceeEEecC--CCCCcCCC-CCCeEEEecCCc----ceEEEEE
Q 006504 497 VRRKDFWLLSTVNKLLKEFIPKLSHDADGLVFQGW--DDPYVPRT-HEGLLKWKYARM----NSVDFLF 558 (643)
Q Consensus 497 v~~K~f~~~~~~~~l~~~~~~~l~h~~DGLIf~p~--~spY~~Gt-~~~lLKWKp~~~----nTVDF~l 558 (643)
....+--.+..++.+|++ .+.+.++||+.+-. ++.|.|-. +.+|||-|-..+ -|+|...
T Consensus 500 at~~~tn~~~eiq~Fl~~---sv~~~cEGlMvKtLd~~atYep~kRs~~WlKlKkDYldgvgdslDLv~ 565 (714)
T KOG0967|consen 500 ATSLDTNDIDEIQEFLEE---SVQNSCEGLMVKTLDTNATYEPSKRSNNWLKLKKDYLDGVGDSLDLVV 565 (714)
T ss_pred eeeeccCCHHHHHHHHHH---hhccCcceeEEEeeccccccCchhhccchhhhhhhhhcccccceeeee
Confidence 111122335556666654 67899999999964 56787664 788999996653 4667665
No 52
>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=99.19 E-value=5e-12 Score=112.84 Aligned_cols=85 Identities=14% Similarity=0.046 Sum_probs=56.1
Q ss_pred CcceEEEEEEEcCCC-ceEEEEEecCcccccc-Cce------eeecCCCCCCcccc-e---EEeCCCCceeEeeeeeecC
Q 006504 550 RMNSVDFLFEVTDDD-RQLLYVFERGKKKLME-GSS------VEFTGSFSSQLTSF-L---KQTPALLFWMPKFVFYIRS 617 (643)
Q Consensus 550 ~~nTVDF~l~~~~~~-~~~L~l~~~g~~~~~~-~~~------v~f~~~~~~~~~d~-I---~~d~~~~~W~~~~~~~~~R 617 (643)
++|||||+|++.... .+.| ....|..+.+. +.. .....+++.++++| | .||.+.+.|+++| .|
T Consensus 1 e~NTIDF~l~l~~~~~~~~l-~~~~g~ldy~~~~~~~f~~~~~~~~~~~~~~~ld~rIVEC~~d~~~~~W~~~R----~R 75 (105)
T PF03919_consen 1 EENTIDFKLKLEFPKGDGML-PPKVGKLDYVQGGYDPFMYEEEWERLKKDGQPLDGRIVECSFDNEKGQWKFMR----IR 75 (105)
T ss_dssp GC-EEEEEEEEECEEECTTS-CEEEEEECCCSCTCTESEEEECCCCCCCSTCCSTTCEEEEEEETTTTEEEEEE----EE
T ss_pred CCCCEeEeEEEecCCCCCcc-cCCCCcEEEEcCCccccchhhHHHHHhhcccccCCcEEEEEEeCCCCcEeEEE----Ec
Confidence 589999999998652 2222 11122221121 111 11234677999999 3 7888899999999 99
Q ss_pred CCcCCCCcccccccccccccCC
Q 006504 618 PSHDAYNGIKPKMDPLVMLNGA 639 (643)
Q Consensus 618 ~Dk~~pN~~~~v~~~l~~~~~~ 639 (643)
+||+.||+++||.+.|.+++.+
T Consensus 76 ~DK~~pN~~~t~~~v~~sI~d~ 97 (105)
T PF03919_consen 76 DDKSTPNHISTVISVLESIEDP 97 (105)
T ss_dssp TTSSS--BHHHHHHHHHHHHCS
T ss_pred CCCCCCccHHHHHHHHHHHHcC
Confidence 9999999999999999887653
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=8.8e-11 Score=111.82 Aligned_cols=99 Identities=24% Similarity=0.315 Sum_probs=60.3
Q ss_pred HHHHHHHcCCCeeEEEEcCCCC--CCCC----cchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCce
Q 006504 130 VIHQLRVLGRKLGLVIDLTNTT--RYYP----TSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKY 203 (643)
Q Consensus 130 l~~~~~~~~~~I~~VIdLt~~~--~~Yd----~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~ 203 (643)
=++.++. .++..|+.|.... ..|. .+..+..||.++++|+.|. .+|+.+...+++..+...+ .+|+.
T Consensus 63 DL~~Lk~--~G~~~Vvtl~~~~EL~~l~Vp~L~~~~~~~Gi~~~h~PI~D~-~aPd~~~~~~i~~eL~~~L----~~g~~ 135 (168)
T PF05706_consen 63 DLERLKD--WGAQDVVTLLTDHELARLGVPDLGEAAQARGIAWHHLPIPDG-SAPDFAAAWQILEELAARL----ENGRK 135 (168)
T ss_dssp HHHHHHH--TT--EEEE-S-HHHHHHTT-TTHHHHHHHTT-EEEE----TT-S---HHHHHHHHHHHHHHH----HTT--
T ss_pred HHHHHHH--CCCCEEEEeCcHHHHHHcCCccHHHHHHHcCCEEEecCccCC-CCCCHHHHHHHHHHHHHHH----HcCCE
Confidence 3445554 4688888887432 2332 2456789999999999996 7898776666665555544 47899
Q ss_pred EEEEcCCCCChhHHHHHHHHHHhcC-CCHHHHH
Q 006504 204 ILVHCTHGHNRTGYMIVHFLMRSQS-MSVAQAI 235 (643)
Q Consensus 204 VlVHC~~G~nRTG~li~aYLm~~~~-~s~~eAi 235 (643)
|+|||.+|.||||+++||+|++... +++++||
T Consensus 136 V~vHC~GGlGRtGlvAAcLLl~L~~~~~p~~AI 168 (168)
T PF05706_consen 136 VLVHCRGGLGRTGLVAACLLLELGDTMSPEQAI 168 (168)
T ss_dssp EEEE-SSSSSHHHHHHHHHHHHH-SSS-HHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHHHcCCCChhhcC
Confidence 9999999999999999999998643 7999997
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=99.08 E-value=1.2e-09 Score=95.90 Aligned_cols=91 Identities=24% Similarity=0.355 Sum_probs=72.5
Q ss_pred EEEEeccCCCCCCCH-HHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhc------CCCHHHHHHHH
Q 006504 166 HVKIQCKGRDAVPDN-ASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ------SMSVAQAIKKF 238 (643)
Q Consensus 166 y~~ip~~d~~~~P~~-~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~------~~s~~eAi~~~ 238 (643)
|....++++ .+|.. +.+.+|+..+.+.... ...+++|+|||.+|.||||+++++|++..+ ..++.+++..+
T Consensus 5 ~~~~~Wpd~-~~P~~~~~~~~~~~~v~~~~~~-~~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00012 5 YHYTGWPDH-GVPESPDSILEFLRAVKKNLNQ-SSSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EeeCCCCCC-CCCCCHHHHHHHHHHHHHHHHh-cCCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 445556665 46655 7888888888777553 223679999999999999999999999764 25889999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 006504 239 AEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (643)
++.|+..+.+..+...++..
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=99.08 E-value=1.2e-09 Score=95.90 Aligned_cols=91 Identities=24% Similarity=0.355 Sum_probs=72.5
Q ss_pred EEEEeccCCCCCCCH-HHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhc------CCCHHHHHHHH
Q 006504 166 HVKIQCKGRDAVPDN-ASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ------SMSVAQAIKKF 238 (643)
Q Consensus 166 y~~ip~~d~~~~P~~-~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~------~~s~~eAi~~~ 238 (643)
|....++++ .+|.. +.+.+|+..+.+.... ...+++|+|||.+|.||||+++++|++..+ ..++.+++..+
T Consensus 5 ~~~~~Wpd~-~~P~~~~~~~~~~~~v~~~~~~-~~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00404 5 YHYTGWPDH-GVPESPDSILEFLRAVKKNLNQ-SSSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EeeCCCCCC-CCCCCHHHHHHHHHHHHHHHHh-cCCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 445556665 46655 7888888888777553 223679999999999999999999999764 25889999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 006504 239 AEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (643)
++.|+..+.+..+...++..
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=99.01 E-value=3.6e-09 Score=113.31 Aligned_cols=142 Identities=16% Similarity=0.116 Sum_probs=94.2
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCccc-cccccCCCcCCcccccccCCCCeeeeEEEEEecCC---C--CCccc
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFNFR-RVQMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP---D--SRRQE 437 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~-~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~---~--~~~~~ 437 (643)
..|+|+||.||.|+.++..++++.+++|++.+. ..+-++|.... ..+. ..+.+.+||||+|.-..+ + .....
T Consensus 48 ~~~~vEEKlDG~nvri~~~~G~v~a~TR~G~i~e~~T~~~~eiv~-~~~~-~~~p~~iLdGElvg~~~p~v~~~~~~~~~ 125 (342)
T cd07894 48 GPVAVEEKMNGYNVRIVRIGGKVLAFTRGGFICPFTTDRLRDLID-PEFF-DDHPDLVLCGEVVGPENPYVPGSYPEVED 125 (342)
T ss_pred CCEEEEEeECCcEEEEEEECCEEEEEeCCCccCccchhhHhhhch-HHhh-ccCCCEEEEEEEEecCCccccccCccccc
Confidence 589999999999999988888999999997532 12334444321 1111 123679999999865422 1 11135
Q ss_pred eEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcc
Q 006504 438 RRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIP 517 (643)
Q Consensus 438 ~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~ 517 (643)
..|++||++..++ ...+|+.+|+++|++... |.. + .+ .....-.+..+..+|+.
T Consensus 126 v~F~vFDI~~~~~--~~~lp~~eR~~lLe~lg~-~~v-----------~-------~~--~~~~~~d~~~l~~~l~~--- 179 (342)
T cd07894 126 VGFFVFDIRKKNT--GRPLPVEERRELLEKYGL-PTV-----------R-------LF--GEFTADEIEELKEIIRE--- 179 (342)
T ss_pred cEEEEEeeEEcCC--CCCCCHHHHHHHHHhcCC-CCc-----------c-------eE--EEEecCCHHHHHHHHHH---
Confidence 6999999999875 667999999999988422 110 0 01 11111223455666654
Q ss_pred cccCCCceeEEecCCC
Q 006504 518 KLSHDADGLVFQGWDD 533 (643)
Q Consensus 518 ~l~h~~DGLIf~p~~s 533 (643)
...++.||||++..++
T Consensus 180 ~~~~G~EGVVlK~~~~ 195 (342)
T cd07894 180 LDKEGREGVVLKDPDM 195 (342)
T ss_pred HHHCCCceEEEecccc
Confidence 4688999999999887
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=98.94 E-value=1.4e-08 Score=95.00 Aligned_cols=108 Identities=9% Similarity=0.102 Sum_probs=78.1
Q ss_pred CCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCC-CCCcc------hhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHH
Q 006504 121 PGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTR-YYPTS------DLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQF 193 (643)
Q Consensus 121 ~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~-~Yd~~------~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~f 193 (643)
....-++.++-. +++ .+|++||||..... .-.+. ..+..|++|+++|+... .++.+++..|...+
T Consensus 11 ~s~qlt~~d~~~-L~~--~GiktVIdlR~~~E~~~~p~~~~~~~~a~~~gl~y~~iPv~~~--~~~~~~v~~f~~~~--- 82 (135)
T TIGR01244 11 VSPQLTKADAAQ-AAQ--LGFKTVINNRPDREEESQPDFAQIKAAAEAAGVTYHHQPVTAG--DITPDDVETFRAAI--- 82 (135)
T ss_pred EcCCCCHHHHHH-HHH--CCCcEEEECCCCCCCCCCCCHHHHHHHHHHCCCeEEEeecCCC--CCCHHHHHHHHHHH---
Confidence 344567777754 443 57999999986432 12221 22457999999999764 35777887776544
Q ss_pred HHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcC
Q 006504 194 LSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVR 242 (643)
Q Consensus 194 i~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~R 242 (643)
+ ...++||+||++|. |||.+.+.++.. .|++.+++++..+..-
T Consensus 83 -~---~~~~pvL~HC~sG~-Rt~~l~al~~~~-~g~~~~~i~~~~~~~G 125 (135)
T TIGR01244 83 -G---AAEGPVLAYCRSGT-RSSLLWGFRQAA-EGVPVEEIVRRAQAAG 125 (135)
T ss_pred -H---hCCCCEEEEcCCCh-HHHHHHHHHHHH-cCCCHHHHHHHHHHcC
Confidence 2 23578999999999 999998887766 7999999999887653
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=98.81 E-value=2.5e-08 Score=101.26 Aligned_cols=93 Identities=20% Similarity=0.311 Sum_probs=69.8
Q ss_pred cEEEEEe-ccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhc-----CCCHHHHHHH
Q 006504 164 IKHVKIQ-CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-----SMSVAQAIKK 237 (643)
Q Consensus 164 I~y~~ip-~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~-----~~s~~eAi~~ 237 (643)
|.+++.. +++++.+++.+.+..|+..+...... ..+++|+|||.+|.||||+++|++++..+ .+++.+|+..
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 4444433 45664333446777777777654321 34679999999999999999999986543 5799999999
Q ss_pred HHhcCCCCcCCHHHHHHHHHH
Q 006504 238 FAEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 238 ~~~~Rp~~i~~~~~l~~L~~~ 258 (643)
+++.|+.++.+..|...++..
T Consensus 208 iR~~R~~~v~~~~Qy~f~~~~ 228 (231)
T cd00047 208 LRSQRPGMVQTEEQYIFLYRA 228 (231)
T ss_pred HHhccccccCCHHHHHHHHHH
Confidence 999999999998888877653
No 59
>PRK15375 pathogenicity island 1 effector protein StpP; Provisional
Probab=98.73 E-value=5.4e-08 Score=106.85 Aligned_cols=99 Identities=15% Similarity=0.258 Sum_probs=74.6
Q ss_pred cEEEEE-eccCCCCCCCHHHHHHHHHHHHHHHHhhc-----cCCceEEEEcCCCCChhHHHHHHHHHHhcCC-CHHHHHH
Q 006504 164 IKHVKI-QCKGRDAVPDNASVNNFVYEVTQFLSRQK-----HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM-SVAQAIK 236 (643)
Q Consensus 164 I~y~~i-p~~d~~~~P~~~~i~~f~~~v~~fi~~~~-----~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~-s~~eAi~ 236 (643)
|.++++ .++|||.+|+.+.+..|++.|........ .+....+|||.+|+||||++||+|++...++ ++++.+.
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 334443 35888766666778888877765432110 0112347999999999999999999976664 8999999
Q ss_pred HHHhcCCC-CcCCHHHHHHHHHHHhhc
Q 006504 237 KFAEVRPP-GIYKNEYIEALYTFYHEK 262 (643)
Q Consensus 237 ~~~~~Rp~-~i~~~~~l~~L~~~y~~~ 262 (643)
.+|..|+. .+.+.+|...|++....+
T Consensus 503 dlR~qRng~MVQt~eQy~~l~~~~~~~ 529 (535)
T PRK15375 503 DFRNSRNNRMLEDASQFVQLKAMQAQL 529 (535)
T ss_pred HHHhcCCccccccHHHHHHHHHHHHHH
Confidence 99999998 999999999998876554
No 60
>PLN02727 NAD kinase
Probab=98.70 E-value=1.1e-07 Score=110.64 Aligned_cols=103 Identities=22% Similarity=0.289 Sum_probs=77.0
Q ss_pred CCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCC---CC---CcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHH
Q 006504 121 PGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTR---YY---PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFL 194 (643)
Q Consensus 121 ~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~---~Y---d~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi 194 (643)
...+-+++++-. +.+ .++++||||+.+.. .| ..+..+..|++|+++|+.+. ..|+.++|.+|.+.+.+
T Consensus 265 rsgQpspe~la~-LA~--~GfKTIINLRpd~E~~q~~~~ee~eAae~~GL~yVhIPVs~~-~apt~EqVe~fa~~l~~-- 338 (986)
T PLN02727 265 RGGQVTEEGLKW-LLE--KGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEVVKIPVEVR-TAPSAEQVEKFASLVSD-- 338 (986)
T ss_pred EeCCCCHHHHHH-HHH--CCCeEEEECCCCCcCCCchhHHHHHHHHHcCCeEEEeecCCC-CCCCHHHHHHHHHHHHh--
Confidence 344568888854 333 58999999986543 22 12334568999999999775 68999999998865522
Q ss_pred HhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHH
Q 006504 195 SRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQ 233 (643)
Q Consensus 195 ~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~e 233 (643)
...++||+||+.|..|||+|+||||.+.-+-....
T Consensus 339 ----slpkPVLvHCKSGarRAGamvA~yl~~~~~~~~~~ 373 (986)
T PLN02727 339 ----SSKKPIYLHSKEGVWRTSAMVSRWKQYMTRSAERL 373 (986)
T ss_pred ----hcCCCEEEECCCCCchHHHHHHHHHHHHcccchhh
Confidence 24689999999999999999999999865554333
No 61
>smart00194 PTPc Protein tyrosine phosphatase, catalytic domain.
Probab=98.66 E-value=1.1e-07 Score=98.24 Aligned_cols=84 Identities=26% Similarity=0.371 Sum_probs=66.5
Q ss_pred ccCCCCCC-CHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHh-----cCCCHHHHHHHHHhcCCC
Q 006504 171 CKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRS-----QSMSVAQAIKKFAEVRPP 244 (643)
Q Consensus 171 ~~d~~~~P-~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~-----~~~s~~eAi~~~~~~Rp~ 244 (643)
.+|+ .+| +.+.+..|+..+..... ..+++|+|||.+|.||||+++|++++.. ...++.+|+..+++.|+.
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 4566 455 55677777777655432 2267999999999999999999988742 357999999999999999
Q ss_pred CcCCHHHHHHHHHH
Q 006504 245 GIYKNEYIEALYTF 258 (643)
Q Consensus 245 ~i~~~~~l~~L~~~ 258 (643)
++.+..|...++..
T Consensus 242 ~v~~~~Qy~f~~~~ 255 (258)
T smart00194 242 MVQTEEQYIFLYRA 255 (258)
T ss_pred ccCCHHHHHHHHHH
Confidence 99999998887753
No 62
>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=98.33 E-value=9e-07 Score=84.22 Aligned_cols=66 Identities=18% Similarity=0.383 Sum_probs=47.7
Q ss_pred CCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHH
Q 006504 154 YPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMR 225 (643)
Q Consensus 154 Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~ 225 (643)
|.....+..|+.|++||+.|+ ..|+.+.+..|+..+.+ ..++..+.+||.+|.|||.+..+.|.|.
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-----LPKDTWLHFHCQAGRGRTTTFMVMYDLI 148 (149)
T ss_dssp -HHHHHHHTT-EEEEEEE-TT-S---HHHHHHHHHHHHT-----S-TT-EEEEE-SSSSHHHHHHHHHHHHH
T ss_pred HHHHHHhcCCceEEEEeCCCc-CCCCHHHHHHHHHHHHh-----CCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 344556779999999999998 89999999999965533 2457899999999999999999998874
No 63
>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=98.32 E-value=2.1e-06 Score=77.50 Aligned_cols=85 Identities=20% Similarity=0.281 Sum_probs=48.4
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCC---C----cchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHh
Q 006504 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYY---P----TSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSR 196 (643)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Y---d----~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~ 196 (643)
.-+++++-. +.+ .++++|||+..+..-- . .+..+..|+.|+++|+.+. .++.+++..|.+.+.
T Consensus 14 Q~~~~d~~~-la~--~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~--~~~~~~v~~f~~~l~----- 83 (110)
T PF04273_consen 14 QPSPEDLAQ-LAA--QGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGG--AITEEDVEAFADALE----- 83 (110)
T ss_dssp S--HHHHHH-HHH--CT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TT--T--HHHHHHHHHHHH-----
T ss_pred CCCHHHHHH-HHH--CCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCC--CCCHHHHHHHHHHHH-----
Confidence 346777764 333 6899999998543211 1 1345689999999999863 578899998876542
Q ss_pred hccCCceEEEEcCCCCChhHHHHHH
Q 006504 197 QKHSKKYILVHCTHGHNRTGYMIVH 221 (643)
Q Consensus 197 ~~~~~~~VlVHC~~G~nRTG~li~a 221 (643)
...++|++||..|. |++.|.+.
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 23568999999995 99877553
No 64
>PHA02740 protein tyrosine phosphatase; Provisional
Probab=98.31 E-value=4.3e-06 Score=88.48 Aligned_cols=88 Identities=14% Similarity=0.177 Sum_probs=66.1
Q ss_pred eccCCCCCCCHHHHHHHHHHHHHHHHh-----hccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHHHHH
Q 006504 170 QCKGRDAVPDNASVNNFVYEVTQFLSR-----QKHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIKKFA 239 (643)
Q Consensus 170 p~~d~~~~P~~~~i~~f~~~v~~fi~~-----~~~~~~~VlVHC~~G~nRTG~li~aYLm~-----~~~~s~~eAi~~~~ 239 (643)
..+|+|.+.+...+..|+..|.+.... .....++|+|||.+|+||||+++|...+- ....++.+++..+|
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 457775555677888888777654321 11234699999999999999998876653 33459999999999
Q ss_pred hcCCCCcCCHHHHHHHHH
Q 006504 240 EVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~ 257 (643)
+.|+..+....|...++.
T Consensus 265 ~qR~~~Vqt~~QY~F~y~ 282 (298)
T PHA02740 265 QKKYGCMNCLDDYVFCYH 282 (298)
T ss_pred hhCccccCCHHHHHHHHH
Confidence 999999999887766554
No 65
>PF13350 Y_phosphatase3: Tyrosine phosphatase family; PDB: 1YWF_A 2OZ5_B.
Probab=98.26 E-value=2.2e-06 Score=82.66 Aligned_cols=105 Identities=22% Similarity=0.328 Sum_probs=49.9
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCCCCCC-CcchhhcCCcEEEEEeccCCCCCCCHHHH----------HHH--------
Q 006504 126 SFKQVIHQLRVLGRKLGLVIDLTNTTRYY-PTSDLKKEGIKHVKIQCKGRDAVPDNASV----------NNF-------- 186 (643)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~~~~Y-d~~~~~~~GI~y~~ip~~d~~~~P~~~~i----------~~f-------- 186 (643)
+..++- .+. ..+|++||||......- .|..+ ..|++|+++|+.+.. ......+ ..+
T Consensus 31 t~~d~~-~L~--~lgI~tIiDLRs~~E~~~~p~~~-~~g~~~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~Y~~~ 105 (164)
T PF13350_consen 31 TEADLE-RLR--ELGIRTIIDLRSPTERERAPDPL-IDGVQYVHIPIFGDD-ASSPDKLAELLQSSADAPRGMLEFYREM 105 (164)
T ss_dssp -HHHHH-HHH--HTT--EEEE-S-HHHHHHHS-----TT-EEEE--SS-S--TTH----------HHHHHHHHHHHHHHG
T ss_pred CHHHHH-HHH--hCCCCEEEECCCccccccCCCCC-cCCceeeeecccccc-cccccccccccccccchhhHHHHHHHHH
Confidence 444443 333 36899999998643211 12222 249999999997742 2211111 111
Q ss_pred -------HHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHH
Q 006504 187 -------VYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFA 239 (643)
Q Consensus 187 -------~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~ 239 (643)
+..+...|. ..+ ++|+|||++|..|||.++|..|. ..|.+.++.++-+.
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 222323333 233 69999999999999977766654 57999988876553
No 66
>PHA02742 protein tyrosine phosphatase; Provisional
Probab=98.25 E-value=6.5e-06 Score=87.38 Aligned_cols=88 Identities=16% Similarity=0.167 Sum_probs=64.2
Q ss_pred eccCCCCCCCHHHHHHHHHHHHHHHHhh--------ccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHH
Q 006504 170 QCKGRDAVPDNASVNNFVYEVTQFLSRQ--------KHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIK 236 (643)
Q Consensus 170 p~~d~~~~P~~~~i~~f~~~v~~fi~~~--------~~~~~~VlVHC~~G~nRTG~li~aYLm~-----~~~~s~~eAi~ 236 (643)
..+|+|.+.+...+.+|+..+...-... ....++|+|||.+|.||||+++|...+. ....++.+++.
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 3467754445677888887765421110 1124699999999999999998877653 22458999999
Q ss_pred HHHhcCCCCcCCHHHHHHHHH
Q 006504 237 KFAEVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L~~ 257 (643)
.+|+.|+..+.+..|...++.
T Consensus 270 ~lR~qR~~~Vqt~~QY~F~y~ 290 (303)
T PHA02742 270 DLRKQRHNCLSLPQQYIFCYF 290 (303)
T ss_pred HHHhhcccccCCHHHHHHHHH
Confidence 999999999999888776654
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=98.25 E-value=6.3e-06 Score=82.98 Aligned_cols=84 Identities=24% Similarity=0.360 Sum_probs=65.8
Q ss_pred ccCCCCCC-CHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHh-----cCCCHHHHHHHHHhcCCC
Q 006504 171 CKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRS-----QSMSVAQAIKKFAEVRPP 244 (643)
Q Consensus 171 ~~d~~~~P-~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~-----~~~s~~eAi~~~~~~Rp~ 244 (643)
..++ .+| +...+..|+..+...- .....+|+|||.+|.||||+++++.++.. ...++.+++..+++.|+.
T Consensus 143 W~~~-~~P~~~~~~~~~~~~v~~~~---~~~~~pivVhc~~G~gRsg~f~~~~~~~~~~~~~~~~~v~~~~~~lR~~R~~ 218 (235)
T PF00102_consen 143 WPDD-GVPPSPESFLDFIRKVNKSK---DDPNGPIVVHCSDGVGRSGTFCAIDILIEQLKKEGEVDVFEIVKKLRQQRPG 218 (235)
T ss_dssp SSSS-SSGSSSHHHHHHHHHHHHHH---STTSSEEEEESSSSSHHHHHHHHHHHHHHHHHHHSEECHHHHHHHHHTTSTT
T ss_pred cccc-ccccccchhhhhhhhccccc---cCCccceEeecccccccccccccchhhccccccccchhhHHHHHHHHhhCCC
Confidence 3444 344 5566667776665543 34678999999999999999999998742 246999999999999999
Q ss_pred CcCCHHHHHHHHHH
Q 006504 245 GIYKNEYIEALYTF 258 (643)
Q Consensus 245 ~i~~~~~l~~L~~~ 258 (643)
++.+..|...++..
T Consensus 219 ~i~~~~qy~f~~~~ 232 (235)
T PF00102_consen 219 AIQSPEQYRFCYMA 232 (235)
T ss_dssp SSSSHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHH
Confidence 99999998887754
No 68
>PHA02747 protein tyrosine phosphatase; Provisional
Probab=98.23 E-value=7.6e-06 Score=87.20 Aligned_cols=85 Identities=19% Similarity=0.270 Sum_probs=62.4
Q ss_pred eccCCCCCC-CHHHHHHHHHHHHHHHHhhc-------cCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHH
Q 006504 170 QCKGRDAVP-DNASVNNFVYEVTQFLSRQK-------HSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIK 236 (643)
Q Consensus 170 p~~d~~~~P-~~~~i~~f~~~v~~fi~~~~-------~~~~~VlVHC~~G~nRTG~li~aYLm~-----~~~~s~~eAi~ 236 (643)
-++|++ +| +...+..|+..+...-+... ...++|+|||.+|.||||+++|...+. ....++.+++.
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 356664 45 45667777766654322111 113689999999999999999987532 23468999999
Q ss_pred HHHhcCCCCcCCHHHHHHH
Q 006504 237 KFAEVRPPGIYKNEYIEAL 255 (643)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L 255 (643)
.+|+.|+..+.+..|...+
T Consensus 270 ~lR~qR~~~Vqt~~QY~F~ 288 (312)
T PHA02747 270 KIREQRHAGIMNFDDYLFI 288 (312)
T ss_pred HHHhccccccCCHHHHHHH
Confidence 9999999999998887777
No 69
>KOG1572 consensus Predicted protein tyrosine phosphatase [Defense mechanisms]
Probab=98.22 E-value=1.8e-05 Score=79.11 Aligned_cols=116 Identities=19% Similarity=0.296 Sum_probs=84.2
Q ss_pred CCeeEEEEcCCCCCCC---CcchhhcCCcEEEEEeccCCC---CCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCC
Q 006504 139 RKLGLVIDLTNTTRYY---PTSDLKKEGIKHVKIQCKGRD---AVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGH 212 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Y---d~~~~~~~GI~y~~ip~~d~~---~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~ 212 (643)
.+++.||.|+++. | +-..++.+||++++|.|.+.. ..|.......-+..+.+++- ...+.++||||+.|.
T Consensus 84 L~LksIisL~pE~--yp~~nl~f~~~~~Ik~~~i~ie~~k~~~k~P~~~~~~~~i~~~l~~ll--d~~N~P~Lihc~rGk 159 (249)
T KOG1572|consen 84 LHLKSIISLCPEP--YPEENLNFLESNGIKLYQIGIEGEKDNKKEPFVNIPDHSIRKALKVLL--DKRNYPILIHCKRGK 159 (249)
T ss_pred hhhheEEEecCCC--CChHHHHHHHhcCceEEEEecccccccccCCCCCChHHHHHHHHHHHh--cccCCceEEecCCCC
Confidence 3788999999875 4 345788999999999998853 14555555555666666655 456789999999999
Q ss_pred ChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhh
Q 006504 213 NRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHE 261 (643)
Q Consensus 213 nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~ 261 (643)
-|||++|+|.. +.++|++.-.++.+...-... ...+.+++-+-|..
T Consensus 160 hRtg~lVgclR-klq~W~lssil~Ey~~fa~sk--~r~~d~~Fie~fd~ 205 (249)
T KOG1572|consen 160 HRTGCLVGCLR-KLQNWSLSSILDEYLRFAGSK--GRRVDLRFIEMFDT 205 (249)
T ss_pred cchhhhHHHHH-HHhccchhHHHHHHHHhccch--hHHHHHHHHHHhcc
Confidence 99999999998 778999888888877665443 23333333344443
No 70
>PHA02746 protein tyrosine phosphatase; Provisional
Probab=98.19 E-value=9e-06 Score=87.05 Aligned_cols=88 Identities=15% Similarity=0.194 Sum_probs=65.4
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHhh----cc---CCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHHHHHH
Q 006504 171 CKGRDAVPDNASVNNFVYEVTQFLSRQ----KH---SKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQAIKKF 238 (643)
Q Consensus 171 ~~d~~~~P~~~~i~~f~~~v~~fi~~~----~~---~~~~VlVHC~~G~nRTG~li~aYLm~-----~~~~s~~eAi~~~ 238 (643)
.+|+|.+.+...+.+|+..+....... .. ..++|+|||.+|.||||+++|...+. ....++.+++..+
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 466653334677888887776653211 11 13699999999999999999865542 2346999999999
Q ss_pred HhcCCCCcCCHHHHHHHHHH
Q 006504 239 AEVRPPGIYKNEYIEALYTF 258 (643)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~~ 258 (643)
|+.|+..+.+..|...+++.
T Consensus 290 R~qR~~~Vqt~~QY~F~y~~ 309 (323)
T PHA02746 290 RKQRHSSVFLPEQYAFCYKA 309 (323)
T ss_pred HhcccccCCCHHHHHHHHHH
Confidence 99999999999888777654
No 71
>PHA02738 hypothetical protein; Provisional
Probab=98.01 E-value=3.2e-05 Score=82.75 Aligned_cols=88 Identities=20% Similarity=0.225 Sum_probs=63.4
Q ss_pred eccCCCCCCCHHHHHHHHHHHHHHHHhh----------ccCCceEEEEcCCCCChhHHHHHHHHHH-----hcCCCHHHH
Q 006504 170 QCKGRDAVPDNASVNNFVYEVTQFLSRQ----------KHSKKYILVHCTHGHNRTGYMIVHFLMR-----SQSMSVAQA 234 (643)
Q Consensus 170 p~~d~~~~P~~~~i~~f~~~v~~fi~~~----------~~~~~~VlVHC~~G~nRTG~li~aYLm~-----~~~~s~~eA 234 (643)
.++|+|.+.+...+..|+..|.+..... ....++|+|||.+|.||||+++|...+. ....++.++
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 3567644335667777877776532210 0113689999999999999988776542 224689999
Q ss_pred HHHHHhcCCCCcCCHHHHHHHHH
Q 006504 235 IKKFAEVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 235 i~~~~~~Rp~~i~~~~~l~~L~~ 257 (643)
+..+|+.|+..+....|...+++
T Consensus 266 V~~lR~qR~~~vqt~~QY~F~y~ 288 (320)
T PHA02738 266 VSSIRNQRYYSLFIPFQYFFCYR 288 (320)
T ss_pred HHHHHhhhhhccCCHHHHHHHHH
Confidence 99999999999999988866654
No 72
>KOG0790 consensus Protein tyrosine phosphatase Corkscrew and related SH2 domain enzymes [Signal transduction mechanisms]
Probab=97.94 E-value=8.4e-06 Score=87.34 Aligned_cols=91 Identities=22% Similarity=0.322 Sum_probs=68.3
Q ss_pred EEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHH----HhcC----CCHHHHHH
Q 006504 165 KHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM----RSQS----MSVAQAIK 236 (643)
Q Consensus 165 ~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm----~~~~----~s~~eAi~ 236 (643)
+|+.+..+|||.+-++--+..|++.|..- ++....-++|.|||.||+||||++|+.=++ .+.| +++...|+
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 56677788997655677888999888654 222233459999999999999998876554 3334 57999999
Q ss_pred HHHhcCCCCcCCHHHHHHHH
Q 006504 237 KFAEVRPPGIYKNEYIEALY 256 (643)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L~ 256 (643)
+++..|......+.|.+.+|
T Consensus 495 mVRsqRSGmVQTEaQYkFiY 514 (600)
T KOG0790|consen 495 MVRSQRSGMVQTEAQYKFIY 514 (600)
T ss_pred HHHHHhcchhhhHHhHHHHH
Confidence 99999999888776665554
No 73
>COG2365 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]
Probab=97.94 E-value=2.5e-05 Score=80.69 Aligned_cols=47 Identities=21% Similarity=0.247 Sum_probs=35.7
Q ss_pred CceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcC
Q 006504 201 KKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIY 247 (643)
Q Consensus 201 ~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~ 247 (643)
+++||+||+||..|||+++|+|+....++....|-++...-++....
T Consensus 136 ~~PvL~HC~~GkdRTGl~~al~r~~~~~~~~~v~~dyl~~~~~~~~~ 182 (249)
T COG2365 136 NGPVLIHCTAGKDRTGLVAALYRKLVGGSDETVAADYLLTNRYGEPE 182 (249)
T ss_pred cCCEEEecCCCCcchHHHHHHHHHHhCCchhHHHHHHHHcCCccchh
Confidence 48999999999999999999999986555555555555555554433
No 74
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.75 E-value=0.00039 Score=62.72 Aligned_cols=103 Identities=14% Similarity=0.089 Sum_probs=72.4
Q ss_pred CCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCC-----C--CcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHH
Q 006504 121 PGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRY-----Y--PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQF 193 (643)
Q Consensus 121 ~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~-----Y--d~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~f 193 (643)
..-.-+++++.+-. ..++++|||......- + -.+..+..|+.|.++|+.+. .++.++|..|.+.+.+
T Consensus 12 VsgQi~~~D~~~ia---a~GFksiI~nRPDgEe~~QP~~~~i~~aa~~aGl~y~~iPV~~~--~iT~~dV~~f~~Al~e- 85 (130)
T COG3453 12 VSGQISPADIASIA---ALGFKSIICNRPDGEEPGQPGFAAIAAAAEAAGLTYTHIPVTGG--GITEADVEAFQRALDE- 85 (130)
T ss_pred ecCCCCHHHHHHHH---HhccceecccCCCCCCCCCCChHHHHHHHHhcCCceEEeecCCC--CCCHHHHHHHHHHHHH-
Confidence 33455778886543 2689999998854321 1 12455679999999999874 5778999998876643
Q ss_pred HHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHHHHH
Q 006504 194 LSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQAIKK 237 (643)
Q Consensus 194 i~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eAi~~ 237 (643)
.+++||.||..| .||-.+=..=. ...||+.+++.++
T Consensus 86 ------aegPVlayCrsG-tRs~~ly~~~~-~~~gm~~de~~a~ 121 (130)
T COG3453 86 ------AEGPVLAYCRSG-TRSLNLYGLGE-LDGGMSRDEIEAL 121 (130)
T ss_pred ------hCCCEEeeecCC-chHHHHHHHHH-HhcCCCHHHHHHH
Confidence 578999999999 67655433333 3468999887665
No 75
>KOG3132 consensus m3G-cap-specific nuclear import receptor (Snurportin1) [RNA processing and modification]
Probab=97.68 E-value=0.00082 Score=67.25 Aligned_cols=154 Identities=18% Similarity=0.236 Sum_probs=107.2
Q ss_pred CCeEEeEecCceEEEEEEECCEEEEEeCCCc-cccccccCCCcCCccccc-ccCCCCeeeeEEEEEecCCCCCccceEEE
Q 006504 364 RYYYATWKADGTRYMMLITIDGCYLIDRCFN-FRRVQMRFPCRNSNEGLG-EKTHHFTLLDGEMIIDKLPDSRRQERRYL 441 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~-~~~v~~~FP~~~~~~~l~-~~~~~~TlLDGElV~d~~~~~~~~~~~yl 441 (643)
.+|+|---.-|.|+|++...+.+.-..+++. +. +||.......-. ......||||-..- .. .-+|+
T Consensus 116 qdW~vv~~PvGKR~lvVaSrG~Tvay~k~G~~v~----rF~S~LPGGnrr~~~a~~ytILDCIy~--es------nQTYY 183 (325)
T KOG3132|consen 116 QDWYVVARPVGKRCLVVASRGTTVAYVKNGSTVH----RFPSALPGGNRRKGPANSYTILDCIYH--ES------NQTYY 183 (325)
T ss_pred cceEEEEeecCceEEEEecCCceEEEecCCeeEe----eccccCCCCCcCCCCcccceeeeeeec--cc------CceEE
Confidence 4899999999999999998888888888885 33 465542211111 12236799997542 11 23699
Q ss_pred EEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHHHHHHHhcccccC
Q 006504 442 IYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEFIPKLSH 521 (643)
Q Consensus 442 iFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~~~~l~h 521 (643)
|.|+++++|.++.+++.+=|.-.|+.-+.+... +.+ .. ...+|.....+|++-... .|-+-+.-.++.
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-----VYHKFRFSVVPFYPCDQS-GLHSAYTGSLPF 251 (325)
T ss_pred EEEEEeecCcccccCchHHHHHHHhhhcccccc-----CCC-CC-----cCccceecccCCCCCCHH-HHHHHHcCCCce
Confidence 999999999999999999999999876543211 111 11 224666667778876542 233333456889
Q ss_pred CCceeEEecCCCCCcCCCCC
Q 006504 522 DADGLVFQGWDDPYVPRTHE 541 (643)
Q Consensus 522 ~~DGLIf~p~~spY~~Gt~~ 541 (643)
..|||.|-....-|.||...
T Consensus 252 ~~DGLLFYhks~~yqpgqsp 271 (325)
T KOG3132|consen 252 VRDGLLFYHKSVVYQPGQSP 271 (325)
T ss_pred eeeeEEEeecceeeCCCCCc
Confidence 99999999999999999964
No 76
>KOG0792 consensus Protein tyrosine phosphatase PTPMEG, contains FERM domain [Signal transduction mechanisms]
Probab=97.66 E-value=0.00011 Score=86.29 Aligned_cols=90 Identities=21% Similarity=0.384 Sum_probs=64.2
Q ss_pred eccCCCCCC-CHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHH----HHHHhc-CCCHHHHHHHHHhcCC
Q 006504 170 QCKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVH----FLMRSQ-SMSVAQAIKKFAEVRP 243 (643)
Q Consensus 170 p~~d~~~~P-~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~a----YLm~~~-~~s~~eAi~~~~~~Rp 243 (643)
.++||| +| +......|++.+.. +. ...+.+|+|||.+|+||||++|++ ||++.. .+.+-+.+..+|..|-
T Consensus 1035 aWPDHg-~P~D~~~FL~Fleevrs-vR--~~t~pPilvHCSAGiGRTGVlIl~e~~l~lle~Ne~vdi~divr~mR~QR~ 1110 (1144)
T KOG0792|consen 1035 AWPDHG-VPDDPNDFLDFLEEVRS-VR--RGTNPPILVHCSAGIGRTGVLILMETALCLLEHNEPVDILDIVRTMRDQRA 1110 (1144)
T ss_pred ccccCC-CCCChHHHHHHHHHHHH-Hh--ccCCCCeEEEccCCCCcceehHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Confidence 357785 55 44555666655533 22 223669999999999999999865 666643 3689999999999999
Q ss_pred CCcCCHHHHHH----HHHHHhhcC
Q 006504 244 PGIYKNEYIEA----LYTFYHEKR 263 (643)
Q Consensus 244 ~~i~~~~~l~~----L~~~y~~~~ 263 (643)
..|.+..|... |..+|++..
T Consensus 1111 ~mVQT~~QYkFVyevil~~l~~~~ 1134 (1144)
T KOG0792|consen 1111 MMVQTLSQYKFVYEVILRVLKRGR 1134 (1144)
T ss_pred hhccchHHhhHHHHHHHHHHHhcc
Confidence 99999887655 445666543
No 77
>COG5599 PTP2 Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.59 E-value=8.8e-05 Score=75.36 Aligned_cols=87 Identities=21% Similarity=0.275 Sum_probs=59.4
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCC--------------HHHHHH
Q 006504 171 CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS--------------VAQAIK 236 (643)
Q Consensus 171 ~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s--------------~~eAi~ 236 (643)
..|. ..|+...+.+++..+ ......+++++|||.||.||||++||.--+.+.--+ +.+.+.
T Consensus 193 W~D~-~~p~i~sl~~~~~sl----~~sp~~t~piiVHCSAGvGRTGTFIalD~ll~~~~~~~~~t~~~~~t~D~if~iV~ 267 (302)
T COG5599 193 WVDF-NVPDIRSLTEVIHSL----NDSPVRTGPIIVHCSAGVGRTGTFIALDILLRMPNDTLNHTDTWEDTQDLIFQIVL 267 (302)
T ss_pred cccc-CCcCHHHHHHHHHHh----hcCcCCCCCEEEEeccCCCCcceeeeHHHHHhccccccCCCchhhhhhhHHHHHHH
Confidence 3454 456444444444322 211125789999999999999999998776544211 345567
Q ss_pred HHHhcCCCCcCCHHHHHHHHHHHhhc
Q 006504 237 KFAEVRPPGIYKNEYIEALYTFYHEK 262 (643)
Q Consensus 237 ~~~~~Rp~~i~~~~~l~~L~~~y~~~ 262 (643)
.+|+.|-....+..|...||....+.
T Consensus 268 ~LRsQRmkmVQn~~Qf~flY~~~~~l 293 (302)
T COG5599 268 SLRSQRMKMVQNKTQFKFLYDAFLEL 293 (302)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 77888988999999999998776554
No 78
>KOG0791 consensus Protein tyrosine phosphatase, contains fn3 domain [Signal transduction mechanisms]
Probab=97.37 E-value=0.00067 Score=72.01 Aligned_cols=94 Identities=23% Similarity=0.219 Sum_probs=71.6
Q ss_pred EEEEeccCCCCCC-CHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhc-C----CCHHHHHHHHH
Q 006504 166 HVKIQCKGRDAVP-DNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQ-S----MSVAQAIKKFA 239 (643)
Q Consensus 166 y~~ip~~d~~~~P-~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~-~----~s~~eAi~~~~ 239 (643)
++....+||| +| +...+.+|+..+.+.+. ....++.|||.+|.||||+++|.--+-.+ + .++-..+-..+
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 4445678884 55 34677888887777765 33689999999999999999997665432 1 35667788889
Q ss_pred hcCCCCcCCHHHHHHHHHHHhhcC
Q 006504 240 EVRPPGIYKNEYIEALYTFYHEKR 263 (643)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~~y~~~~ 263 (643)
..|+....+..|...|++=..+..
T Consensus 331 ~~R~~mVqte~Qyvfl~~c~~~~l 354 (374)
T KOG0791|consen 331 SARMLMVQTEDQYVFLHQCVLESL 354 (374)
T ss_pred hccccccchHHHHHHHHHHHHHHH
Confidence 999999999999998887666544
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=97.11 E-value=0.006 Score=65.93 Aligned_cols=180 Identities=16% Similarity=0.165 Sum_probs=101.2
Q ss_pred CCCCCCccccccccchh-hhhcCCeEEeEecCceEEEEEEECCEEEEEeCCCccccc-cccCCCcCCcccccccCCCCee
Q 006504 343 MQFPGSHPVSLNSDNLQ-LLRQRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRV-QMRFPCRNSNEGLGEKTHHFTL 420 (643)
Q Consensus 343 ~~FPG~qPVSl~r~nl~-~l~~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v-~~~FP~~~~~~~l~~~~~~~Tl 420 (643)
.+||--+-+-.-..-|. .+.....+|+||.||...-++..++.+++++|.+-+-.- +-+++...+. .+. .-+.+.+
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 46775443333333333 334445999999999999887778899999999853200 0011111111 111 2246788
Q ss_pred eeEEEEEecCCCCC------ccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCC
Q 006504 421 LDGEMIIDKLPDSR------RQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEP 494 (643)
Q Consensus 421 LDGElV~d~~~~~~------~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~p 494 (643)
|-|||+--..+-.. .....|++|||. +...-.-+|..+|.+++++.=+.+ .|
T Consensus 135 LcGE~iGpenpY~~hs~~y~~l~~~FfvFDI~--d~~t~~~L~~~er~~l~e~yglp~--------------------Vp 192 (374)
T TIGR01209 135 LCGEMAGPENPYTPEYYPEVKEDLGFFLFDIR--EGKTNRSLPVEERLELAEKYGLPH--------------------VE 192 (374)
T ss_pred EEEEEcCCCCCCcccCccccCCCceEEEEEEE--ECCCCccCCHHHHHHHHHHCCCCc--------------------cc
Confidence 89999843222110 113479999997 445567789999999998742211 01
Q ss_pred cEEEeccceechhHHHHHHHhcccc-cCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEE
Q 006504 495 FRVRRKDFWLLSTVNKLLKEFIPKL-SHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDF 556 (643)
Q Consensus 495 f~v~~K~f~~~~~~~~l~~~~~~~l-~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF 556 (643)
. -.-++..++..-+.+++..| .++-||+|+|+.+. ....+|+--++-|--|.
T Consensus 193 v----lg~~~~~~~~~~~~eii~~L~~~gREGVVlK~~~~------~~~~~KYtT~~~n~~Di 245 (374)
T TIGR01209 193 I----LGVYTADEAVEEIYEIIERLNKEGREGVVMKDPEM------RVKPLKYTTSYANINDI 245 (374)
T ss_pred e----eeEEcHHHHHHHHHHHHHHhhhcCcceEEEcCccc------cCCcceeecCccChHHH
Confidence 1 01133444331122233333 46899999998653 23456666555555553
No 80
>COG5350 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=97.09 E-value=0.0063 Score=57.33 Aligned_cols=109 Identities=16% Similarity=0.260 Sum_probs=68.3
Q ss_pred CCeeEEEEcCCCCCCC-CcchhhcC---CcEEEEEeccCCC-CCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCC
Q 006504 139 RKLGLVIDLTNTTRYY-PTSDLKKE---GIKHVKIQCKGRD-AVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHN 213 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Y-d~~~~~~~---GI~y~~ip~~d~~-~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~n 213 (643)
.+-..+|.|.....+. .+..+-.. -+.+-.|...|.| ..|.++.+ ..+.+|+++.. ....++|||.+|+|
T Consensus 31 h~~t~mlsl~a~~t~~~~pa~~~~erhL~l~fnDI~~~~~g~~ap~e~Hv----~~i~DF~~~wp-~~apllIHC~aGIS 105 (172)
T COG5350 31 HGPTHMLSLLAKGTYFHRPAVIAAERHLTLHFNDIAEPDDGWIAPGEAHV----RAIIDFADEWP-RFAPLLIHCYAGIS 105 (172)
T ss_pred cCCceEEEeecccccccCccccchhhceeEeeccccCCCccccCCCHHHH----HHHHHHHhcCc-cccceeeeeccccc
Confidence 4677888887643332 33222211 1222223333333 45665554 44556777543 45789999999999
Q ss_pred hhHHH--HHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHH
Q 006504 214 RTGYM--IVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIE 253 (643)
Q Consensus 214 RTG~l--i~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~ 253 (643)
||..+ +++.-+ ...+...++-+.++..+|.+.+|+..+.
T Consensus 106 RStA~A~i~a~al-a~~~de~ela~~Lra~sp~atPN~Rlia 146 (172)
T COG5350 106 RSTAAALIAALAL-APDMDETELAERLRALSPYATPNPRLIA 146 (172)
T ss_pred cchHHHHHHHHhh-ccccChHHHHHHHHhcCcccCCChhHHH
Confidence 98654 333333 4588999999999999999999987653
No 81
>KOG0789 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.07 E-value=0.002 Score=70.97 Aligned_cols=88 Identities=17% Similarity=0.264 Sum_probs=56.5
Q ss_pred EEEEeccCCCCCCC-HHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHH-Hh--c---CCCHHHHHHHH
Q 006504 166 HVKIQCKGRDAVPD-NASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM-RS--Q---SMSVAQAIKKF 238 (643)
Q Consensus 166 y~~ip~~d~~~~P~-~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm-~~--~---~~s~~eAi~~~ 238 (643)
|+....+|+ .+|. ...+..++.. .... .....+++.|||.+|.||||++++.-.+ .. . ...+.+.+..+
T Consensus 267 ~~~~~WPd~-~~p~~~~~~l~~~~~--~~~~-~~~~~~P~vVhcsaG~gRtgt~v~~~~~~~~~~~~~~~~~~~~~~~~i 342 (415)
T KOG0789|consen 267 YHYINWPDH-GAPDSVKSILPLLRQ--SVLE-LRPKQEPIEVHCSAGAGRAGTLVLIEHALIELQGPEGEPPIDEILREI 342 (415)
T ss_pred EeeCCCccc-cCCcchHHHHHHHHh--hhhh-hcCCCCCeEEECCCCCCccchHHHHHHHHHHHhcCCCCccHHHHHHHH
Confidence 333445566 4554 3344433332 1121 1234679999999999999999975522 11 2 13588999999
Q ss_pred HhcCCCCcCCHHHHHHHHH
Q 006504 239 AEVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 239 ~~~Rp~~i~~~~~l~~L~~ 257 (643)
+..|+.++.+..|...++.
T Consensus 343 R~qR~~~vqt~~Qy~f~~~ 361 (415)
T KOG0789|consen 343 RYQRPGAVQSPLQYLFIYA 361 (415)
T ss_pred HHHhhhcccchhHHHHHHH
Confidence 9999999988877755543
No 82
>PF14671 DSPn: Dual specificity protein phosphatase, N-terminal half; PDB: 1OHD_A 1OHE_A 1OHC_A.
Probab=96.30 E-value=0.011 Score=55.58 Aligned_cols=72 Identities=22% Similarity=0.320 Sum_probs=48.4
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCCh----hHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Q 006504 171 CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNR----TGYMIVHFLMRSQSMSVAQAIKKFAEVRPP 244 (643)
Q Consensus 171 ~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nR----TG~li~aYLm~~~~~s~~eAi~~~~~~Rp~ 244 (643)
..|+ .+.....+-+|+..+.+.+++... .+..+|||+..-.+ +++||+||+|-.++||+++|++-+.+.-|+
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 3566 478889999999999998886443 45677888865443 689999999999999999999999887543
No 83
>KOG0793 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=96.00 E-value=0.014 Score=66.30 Aligned_cols=89 Identities=19% Similarity=0.300 Sum_probs=64.5
Q ss_pred EEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHH-h--cC---CCHHHHHHHHH
Q 006504 166 HVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMR-S--QS---MSVAQAIKKFA 239 (643)
Q Consensus 166 y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~-~--~~---~s~~eAi~~~~ 239 (643)
++-+.+.+.|.+-+...+..|-..|++... ....+|+|||..|-||||+-|+.=++- + .| .++...++.++
T Consensus 895 FHfLSWp~egvPasarslLdFRRKVNK~YR---GRScpIiVH~sdGaGRTG~YiliDmvl~Rm~kGakeIDIaATlEHlR 971 (1004)
T KOG0793|consen 895 FHFLSWPDEGVPASARSLLDFRRKVNKCYR---GRSCPIIVHCSDGAGRTGTYILIDMVLNRMAKGAKEIDIAATLEHLR 971 (1004)
T ss_pred eeeecccccCCccchHHHHHHHHHhhhhcc---CCCCceEEEccCCCCccceeeeHHHHHHHHhccchhhhHHHHHHHHh
Confidence 444555555444456778888888877653 457899999999999999876544431 1 13 46888899999
Q ss_pred hcCCCCcCCHHHHHHHHH
Q 006504 240 EVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 240 ~~Rp~~i~~~~~l~~L~~ 257 (643)
..||...-..+|.+..+.
T Consensus 972 DQR~GmVaTkdQFef~l~ 989 (1004)
T KOG0793|consen 972 DQRPGMVATKDQFEFALT 989 (1004)
T ss_pred hcCCcceeehhhhHHHHH
Confidence 999999988777766543
No 84
>COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III [DNA replication, recombination, and repair]
Probab=95.47 E-value=0.32 Score=51.81 Aligned_cols=158 Identities=18% Similarity=0.157 Sum_probs=94.2
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccc-cccCCCcCCcccccccCCCCeeeeEEEEEecCCCC-----Ccc
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRV-QMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDS-----RRQ 436 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v-~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~-----~~~ 436 (643)
....+|.||.||.-.=+...++.+|-++|.+-+-.- +-+-+..-+.+-+ .-+++++|=||||--..+=. ...
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 468999999999887777788999999999863100 1111111111111 23578999999987443311 123
Q ss_pred ceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhH-HHHHHHh
Q 006504 437 ERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTV-NKLLKEF 515 (643)
Q Consensus 437 ~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~-~~l~~~~ 515 (643)
.+-|.+||+.-.+ .=..+|..+|++++++.=+. . |+.=.-++.+.+ +.+. .+
T Consensus 165 ~v~fFvFDire~~--tgr~Lp~eer~~l~ekYgl~-~-----------------------V~~fg~~~~~e~~eei~-eI 217 (382)
T COG1423 165 DVGFFVFDIREKN--TGRPLPVEERLELAEKYGLP-H-----------------------VEIFGEFPADEAGEEIY-EI 217 (382)
T ss_pred CceEEEEEEEecC--CCCCCCHHHHHHHHHHcCCC-c-----------------------eEEeeeechhHhHHHHH-HH
Confidence 4579999998754 23467899999999985321 1 122122334444 2332 23
Q ss_pred cccc-cCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEE
Q 006504 516 IPKL-SHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVD 555 (643)
Q Consensus 516 ~~~l-~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVD 555 (643)
+..| ..+-+|+|++..+. ....||+--+.-|--|
T Consensus 218 ve~L~keGREGVV~Kdpdm------~~~plKYtTsyan~~D 252 (382)
T COG1423 218 VERLNKEGREGVVMKDPDM------RVPPLKYTTSYANIED 252 (382)
T ss_pred HHHHhhcCCcceEecCccc------ccCcceeecccccHHH
Confidence 3333 45889999998664 2234565544444444
No 85
>KOG4228 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=95.03 E-value=0.024 Score=67.91 Aligned_cols=83 Identities=20% Similarity=0.229 Sum_probs=56.6
Q ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHH-----HhcCCCHHHHHHHHHhcCCCC
Q 006504 171 CKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM-----RSQSMSVAQAIKKFAEVRPPG 245 (643)
Q Consensus 171 ~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm-----~~~~~s~~eAi~~~~~~Rp~~ 245 (643)
.+|||.+-....+..|+..+..|- .-..++|+|||.+|.||||+.|+.=-| .....++-.-+..++..|...
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 677743333466777777776552 113489999999999999998764332 223357778888899999988
Q ss_pred cCCHHHHHHHH
Q 006504 246 IYKNEYIEALY 256 (643)
Q Consensus 246 i~~~~~l~~L~ 256 (643)
+....|--.++
T Consensus 780 VQt~eQYiFi~ 790 (1087)
T KOG4228|consen 780 VQTEEQYIFIH 790 (1087)
T ss_pred cccHHHHHHHH
Confidence 87766554433
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=95.02 E-value=0.33 Score=51.94 Aligned_cols=145 Identities=15% Similarity=0.123 Sum_probs=79.4
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cccccCCCc-CCcccccccC-CCCeeeeEEEEEecC---------
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQMRFPCR-NSNEGLGEKT-HHFTLLDGEMIIDKL--------- 430 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v~~~FP~~-~~~~~l~~~~-~~~TlLDGElV~d~~--------- 430 (643)
.|+|++|.||.-+-|....+. +..++|.+... .++...... ..+..+ .. +....+=||+++.+.
T Consensus 108 ~~~~e~KiDGlsi~L~Y~~G~L~~a~TRGdG~~GeDvT~n~~~i~~iP~~i--~~~p~~~eVRGEv~m~~~~F~~ln~~~ 185 (315)
T PF01653_consen 108 EFVVEPKIDGLSISLIYENGKLVRAATRGDGEVGEDVTHNVRTIKSIPLRI--PEKPGRLEVRGEVYMSKSDFEKLNEER 185 (315)
T ss_dssp EEEEEEEESSEEEEEEEETTEEEEEEEETTSSEEEB-HHHHCTSTTS-SB---SSSSSEEEEEEEEE--HHHHHHHHHHH
T ss_pred ceeEeeccceeEEEEEEeCCEEEEEEEcCCCccchhHHHHHHHHhcCchhh--ccCCcceEEEEEEEEehhhHHHHHHHH
Confidence 699999999999988887765 67899966421 111100000 001111 11 245677899997421
Q ss_pred ---CCC---------------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCC
Q 006504 431 ---PDS---------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNP 486 (643)
Q Consensus 431 ---~~~---------------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~ 486 (643)
+.. ....+.|++|++...+| +..-....++++.|+++=+... +
T Consensus 186 ~~~~~~~faNpRN~aAGsLr~~d~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v~------------~ 252 (315)
T PF01653_consen 186 EEEGEKPFANPRNAAAGSLRQKDPSITAERKLSFFAYGIGEPEG-DLGFNTQSERLQFLKEWGFPVN------------P 252 (315)
T ss_dssp HHTTS---SSHHHHHHHHHTSSSHHHHHTS--EEEEEEEEEETT-STT-SBHHHHHHHHHHTT--B-------------T
T ss_pred HHhccchhhhhhHHHHHhhhhccchhhhcCeeEEEEEEeccccc-ccChHHHHHHHHHHHHcCCCCC------------c
Confidence 100 03568999999999888 3333456788888876432210 0
Q ss_pred CcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCCC
Q 006504 487 YYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY 535 (643)
Q Consensus 487 ~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~spY 535 (643)
. +... -.+..+..+++.+ ...+.+..||||++-.+..+
T Consensus 253 ~---------~~~~--~~~~~v~~~~~~~~~~R~~l~y~iDGiVikvn~~~~ 293 (315)
T PF01653_consen 253 Y---------IRFC--KSIEEVEEYIEEWEERREELPYPIDGIVIKVNDLAL 293 (315)
T ss_dssp T---------EEEE--SSHHHHHHHHHHHHHHGCCSSS-EEEEEEEESBHHH
T ss_pred c---------eEec--CCHHHHHHHHHHHHhhhhccccccCcEEEEecCHHH
Confidence 0 1111 1233444444433 35789999999999865433
No 87
>KOG4228 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=94.10 E-value=0.082 Score=63.53 Aligned_cols=82 Identities=21% Similarity=0.295 Sum_probs=59.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHH----HhcC-CCHHHHHHHHHhcCCCCcCCHH
Q 006504 176 AVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLM----RSQS-MSVAQAIKKFAEVRPPGIYKNE 250 (643)
Q Consensus 176 ~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm----~~~~-~s~~eAi~~~~~~Rp~~i~~~~ 250 (643)
.+|.......++..+.+-.+. ..+.+++.|||..|.+|||+.+|+-++ +..+ +++=+|++.++..||..+...+
T Consensus 994 ~~p~~~~~~~~i~~~~~~~q~-~~~~~P~~Vhc~nG~~rsg~f~ai~~l~e~~~~e~~vDVfq~vk~Lr~~rp~mv~t~~ 1072 (1087)
T KOG4228|consen 994 KPPQSKGPISKIPSVASKWQQ-LGADGPIIVHCLNGVGRTGTFCAISILLERMRKEGVVDVFQTVKTLRFQRPGMVDTSD 1072 (1087)
T ss_pred cCCCCcchhhhHHHHHHHHHh-hcCCCCEEEEEcCCCcceeehHHHHHHHHHHhhcCceeeehhhhhhhhcCccccCcHH
Confidence 345444444444444444442 334789999999999999999887654 3334 5899999999999999999988
Q ss_pred HHHHHHHH
Q 006504 251 YIEALYTF 258 (643)
Q Consensus 251 ~l~~L~~~ 258 (643)
|.+.+|+-
T Consensus 1073 QY~fcYdv 1080 (1087)
T KOG4228|consen 1073 QYQFCYDV 1080 (1087)
T ss_pred HHHHHHHH
Confidence 88777754
No 88
>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=93.79 E-value=1 Score=50.54 Aligned_cols=114 Identities=14% Similarity=0.216 Sum_probs=77.1
Q ss_pred CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccC--CceEEEEcCCCCChhH
Q 006504 139 RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHS--KKYILVHCTHGHNRTG 216 (643)
Q Consensus 139 ~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~--~~~VlVHC~~G~nRTG 216 (643)
.....||+++.... .... ......|+++++.+. . -...++...+..+..|+...... +..|+|||.-|...|.
T Consensus 317 ~~~~~vI~~s~~~~--~~~~-~~~~~~~L~l~i~~~-K-~gs~~LR~~LP~i~~fv~~~L~~~~~~~iLV~C~sGkDlSV 391 (451)
T PF04179_consen 317 SEFDCVINCSESPT--PKES-WPKSPKYLHLPIPSS-K-KGSRDLRKALPKICSFVRSHLSSDPGKPILVCCDSGKDLSV 391 (451)
T ss_pred CCcCEEEEcCCCcc--cccc-cCCCceEEeCcCCCC-c-ccHHHHHHHHHHHHHHHHHHhcccCCCcEEEEcCCcchHHH
Confidence 45667787774421 1111 234678999999764 3 34567888899999999876544 8899999999999999
Q ss_pred HHHHHHHHHhcCC--C--------------HHHHHHHHHhcCCCCcCCHHHHHHHHH
Q 006504 217 YMIVHFLMRSQSM--S--------------VAQAIKKFAEVRPPGIYKNEYIEALYT 257 (643)
Q Consensus 217 ~li~aYLm~~~~~--s--------------~~eAi~~~~~~Rp~~i~~~~~l~~L~~ 257 (643)
-++.|-|+...+- . +.+-+..+.+.+|.+-|...-+++...
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 9999998876542 1 333455555555555555555555543
No 89
>smart00532 LIGANc Ligase N family.
Probab=93.22 E-value=2.8 Score=47.08 Aligned_cols=161 Identities=16% Similarity=0.127 Sum_probs=87.6
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--ccc--cc-CCCcCCcccccccCCCCeeeeEEEEEecCC-------
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RVQ--MR-FPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v~--~~-FP~~~~~~~l~~~~~~~TlLDGElV~d~~~------- 431 (643)
.|++++|.||.-+-|....+. +..++|.+... .++ +. .+. .+..+.........+-||+++.+..
T Consensus 104 ~~~~epKiDGlsisL~Ye~G~l~~a~TRGDG~~GeDVT~nv~~i~~--iP~~i~~~~p~~leiRGEv~~~~~~F~~ln~~ 181 (441)
T smart00532 104 AYVVEPKIDGLSVSLLYENGKLVQAATRGDGTVGEDVTQNVKTIRS--IPLRLSGDVPERLEVRGEVFMPKEDFLALNEE 181 (441)
T ss_pred eEEEEEecccEEEEEEEECCEEEEEEecCCCCcceehhhhhhhhcC--cChhhcccCCCeEEEEceEEEEHHHHHHHHHH
Confidence 699999999999987777665 78899965321 111 10 000 0011100012235678999985421
Q ss_pred ----C------C----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCC
Q 006504 432 ----D------S----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRN 485 (643)
Q Consensus 432 ----~------~----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~ 485 (643)
+ . ....+.|++|++...++.. ......+++..|.+.=+..
T Consensus 182 ~~~~g~~~faNpRN~aAG~lr~ld~~~~~~r~L~~~~y~~~~~~~~~-~~~t~~e~l~~L~~~GF~v------------- 247 (441)
T smart00532 182 LEEEGEKPFANPRNAAAGSLRQLDPRITAKRKLRAFFYGLGTGEELF-LPKTQSEALKWLKELGFPV------------- 247 (441)
T ss_pred HHhcCCCcccChHHHHHHHHHhcCchhhhhccceEEEEEcccCCCCC-CccCHHHHHHHHHHCCCCC-------------
Confidence 0 0 0235799999986443311 1235678888888743211
Q ss_pred CCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCCCcC--CC----CCCeEEEecCCc
Q 006504 486 PYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPYVP--RT----HEGLLKWKYARM 551 (643)
Q Consensus 486 ~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~spY~~--Gt----~~~lLKWKp~~~ 551 (643)
.++....+. +.++..+.+.+ ...+.+..||||++-.+..+.- |. ..--+=||++..
T Consensus 248 -------~~~~~~~~~---~~ei~~~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~lG~ts~~PrwaiA~Kf~~~ 312 (441)
T smart00532 248 -------SPHTRLCKN---ADEVIEYYEEWEEKRAELPYEIDGVVVKVDDLALQRELGFTSKAPRWAIAYKFPAE 312 (441)
T ss_pred -------CCCeEeeCC---HHHHHHHHHHHHHhcccCCCCcCcEEEEecCHHHHHHhCccCCCCCeeEEECCCCc
Confidence 111112222 23344444333 3578899999999986655543 42 222455665543
No 90
>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=92.88 E-value=1.6 Score=46.56 Aligned_cols=145 Identities=18% Similarity=0.120 Sum_probs=81.3
Q ss_pred CCeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--cccCCCcCCcccccccCCCCeeeeEEEEEecCC-------
Q 006504 364 RYYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~------- 431 (643)
..|+|++|.||.-+-|....+. +..++|.+... .+ ++..- ...+..+. .......+-||+++.+..
T Consensus 101 ~~~~vepKiDGlsisL~Y~~G~L~~a~TRGdG~~GeDVT~nv~~I-~~IP~~i~-~~~~~levRGEv~m~~~~F~~~n~~ 178 (307)
T cd00114 101 PAYVVEPKIDGLSISLRYENGVLVQAATRGDGTTGEDVTENVRTI-RSIPLTLA-GAPETLEVRGEVFMPKADFEALNKE 178 (307)
T ss_pred CcEEEEEeccceEEEEEEECCEEEEEEecCCCcchhhHHhhHhhh-cccChhhc-CCCCeEEEEEEEEEEHHHHHHHHHH
Confidence 3799999999999987777664 77899965321 11 11100 00011110 012346778999984310
Q ss_pred ----------CC----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCC
Q 006504 432 ----------DS----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRN 485 (643)
Q Consensus 432 ----------~~----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~ 485 (643)
+. ....+.|++|++...++. ......+++..|++.-+..-
T Consensus 179 ~~~~~~~~faNpRNaaAGsLr~ld~~~~~~r~L~f~~y~~~~~~~~--~~~t~~e~l~~L~~~GF~v~------------ 244 (307)
T cd00114 179 REERGEKPFANPRNAAAGSLRQLDPKITAKRPLRFFIYGLGEAEGL--GPKTQSEALAFLKEWGFPVS------------ 244 (307)
T ss_pred HHHcCCCCccChHHHHHHHHHhcCcchhhcCcceEEEEecccccCC--CCCCHHHHHHHHHHCCCCCC------------
Confidence 00 034578999998644321 13467888888887432210
Q ss_pred CCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCCC
Q 006504 486 PYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY 535 (643)
Q Consensus 486 ~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~spY 535 (643)
+.....+ .+.++...++.+ ...+.+..||||++-.+..+
T Consensus 245 --------~~~~~~~---~~~ev~~~~~~~~~~R~~l~y~iDGiViKvn~~~~ 286 (307)
T cd00114 245 --------PETRLCK---NIEEVLAFYDEIEAKRDSLPYEIDGVVVKVDDLAL 286 (307)
T ss_pred --------CCeEEeC---CHHHHHHHHHHHHHhhhcCCCCCCcEEEEEeCHHH
Confidence 1111112 234444454433 45789999999998765443
No 91
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=92.51 E-value=0.51 Score=52.78 Aligned_cols=94 Identities=21% Similarity=0.267 Sum_probs=61.5
Q ss_pred CCCCeeeeEEEEEecCCCCC-ccc-eEEEEEEEeecCCccccCCCHHHHHHHHHHHhcC---ccccccccccccCCCCcc
Q 006504 415 THHFTLLDGEMIIDKLPDSR-RQE-RRYLIYDMMAINQASVIERPFYERWKMLEKEVIE---PRNYERHNIYQSRNPYYR 489 (643)
Q Consensus 415 ~~~~TlLDGElV~d~~~~~~-~~~-~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~---p~~~~~k~i~k~~~~~~~ 489 (643)
.+.+|+|=-++|..-.+.++ .+. -...|.|++.++|.+|.++||.+|..+.++++.. |....
T Consensus 633 ~Pr~t~l~v~iv~E~~GeGk~~~~~~avhIiD~~vL~G~Dvr~~py~eR~~~aeKFv~al~kp~Rkd------------- 699 (845)
T KOG3673|consen 633 IPRNTILLVDIVEEVVGEGKISSEPQAVHIIDAAVLFGDDVRNLPYEERMKAAEKFVAALKKPNRKD------------- 699 (845)
T ss_pred cccceeehHHHHHHHhcCccccccchheeeeeeeeecCchhhcccHHHHHHHHHHHHHHhcCCCCcc-------------
Confidence 34667764444444333221 122 3678999999999999999999999999997632 22111
Q ss_pred cCCCCcEEEeccceechhHHHHHHHhc-ccccCCC
Q 006504 490 YDLEPFRVRRKDFWLLSTVNKLLKEFI-PKLSHDA 523 (643)
Q Consensus 490 ~~~~pf~v~~K~f~~~~~~~~l~~~~~-~~l~h~~ 523 (643)
+.-=.++.|+.|.+...+++|.++. ..+.|.+
T Consensus 700 --~~~~a~r~Kp~yrL~em~~ff~nlehy~lk~ns 732 (845)
T KOG3673|consen 700 --KKHRAERIKPTYRLAEMDEFFSNLEHYKLKHNS 732 (845)
T ss_pred --ccccceecccceeHHHHHHHHHhhhhhhhcCCc
Confidence 1111268899999999999887542 2455554
No 92
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=90.61 E-value=8.9 Score=45.33 Aligned_cols=142 Identities=16% Similarity=0.168 Sum_probs=78.5
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--cc-cCCCcCCcccccccCCCCeeeeEEEEEecCC-------
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QM-RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~-~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~------- 431 (643)
.|++++|.||.-+-|.+..+. +..++|.+... .+ ++ ..+. .+..+.........+-||+++.+..
T Consensus 109 ~~~~epKiDGlsisL~Y~~G~L~~a~TRGDG~~GeDvT~n~~~I~~--IP~~l~~~~p~~levRGEv~m~~~~F~~lN~~ 186 (665)
T PRK07956 109 TYLCELKIDGLAVSLLYENGVLVRAATRGDGTTGEDITANVRTIRS--IPLRLHGNEPERLEVRGEVFMPKADFEALNEE 186 (665)
T ss_pred ceEEEEecccEEEEEEEECCEEEEEEecCCCccchhHhhhhhhhcc--CChhhcccCCCeEEEEEEEEEEHHHHHHHHHH
Confidence 599999999999987777654 67899965321 01 11 1110 0011100112335679999984321
Q ss_pred ----CC----------------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCC
Q 006504 432 ----DS----------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRN 485 (643)
Q Consensus 432 ----~~----------------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~ 485 (643)
+. ....+.|++|++...++ ........+++..|.+.=+..
T Consensus 187 ~~~~g~~~faNpRNaaAGslr~ld~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v------------- 252 (665)
T PRK07956 187 RREEGEKPFANPRNAAAGSLRQLDPKITAKRPLSFFAYGVGEVEG-GELPDSQSEALEFLKAWGFPV------------- 252 (665)
T ss_pred HHhcCCCcccChHHHHhhhhhccChHHHhcCCCEEEEEecccccC-CCCCCCHHHHHHHHHHCCCCc-------------
Confidence 10 02457899999864331 111245678888887743211
Q ss_pred CCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCC
Q 006504 486 PYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWD 532 (643)
Q Consensus 486 ~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~ 532 (643)
.+...... .+.++...++.+ ...+.+..||||++-.+
T Consensus 253 -------~~~~~~~~---~~~ei~~~~~~~~~~R~~l~y~iDGiViKvn~ 292 (665)
T PRK07956 253 -------NPYRKLCT---SIEEVLAFYEEIEEERHDLPYDIDGVVIKVDD 292 (665)
T ss_pred -------CCceEeeC---CHHHHHHHHHHHHHhhccCCCCCCcEEEEecC
Confidence 01111111 233444444433 36789999999998765
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=89.75 E-value=12 Score=44.35 Aligned_cols=161 Identities=16% Similarity=0.162 Sum_probs=86.3
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--ccc-CCCcCCcccccc-cCCCCeeeeEEEEEecC-------
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QMR-FPCRNSNEGLGE-KTHHFTLLDGEMIIDKL------- 430 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~~-FP~~~~~~~l~~-~~~~~TlLDGElV~d~~------- 430 (643)
.|++++|.||.-+-|.+..+. +..++|.+... .+ ++. .+. .+..+.. .......+-||+++.+.
T Consensus 97 ~~~~epKiDGlaisL~Ye~G~L~~a~TRGDG~~GeDvT~nv~~I~~--iP~~i~~~~~p~~levRGEv~m~~~~F~~~N~ 174 (652)
T TIGR00575 97 EYVVEPKIDGLSVSLTYENGVLVRALTRGDGTVGEDVTANVRTIRS--IPLRLAGDNPPERLEVRGEVFMPKEDFEALNE 174 (652)
T ss_pred eEEEEEeccceEEEEEEECCEEEEEEecCCCccchhHhhhhhhhcc--cchhhcCCCCCceEEEEEEEEEEHHHHHHHHH
Confidence 699999999999988777664 77899965321 01 111 000 0011100 01223567899998421
Q ss_pred -----CC-----C----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccC
Q 006504 431 -----PD-----S----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSR 484 (643)
Q Consensus 431 -----~~-----~----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~ 484 (643)
+. . ....+.|++|++.. +.........++++.|.++-+..
T Consensus 175 ~~~~~g~~~faNpRN~aAGslr~ld~~~~~~r~L~~~~y~~~~--~~~~~~~t~~e~l~~L~~~GF~v------------ 240 (652)
T TIGR00575 175 ERREQGEKPFANPRNAAAGSLRQLDPRITAKRKLRFFAYGLGE--GLELPDATQYEALAWLKKWGFPV------------ 240 (652)
T ss_pred HHHHcCCCCCCCcHHHHHHHHHcCCchhhhcCccEEEEEeccc--cCCCCCCCHHHHHHHHHHCCCCC------------
Confidence 10 0 03457899999752 22222246678888887743221
Q ss_pred CCCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCCC------cCCCCCCeEEEecCCcc
Q 006504 485 NPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY------VPRTHEGLLKWKYARMN 552 (643)
Q Consensus 485 ~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~spY------~~Gt~~~lLKWKp~~~n 552 (643)
+ +.....+. +..+...++.+ ...+.+..||+|++-.+.++ +.....--+=||+|...
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 0 11111222 33344444333 46789999999999765544 22222234566666544
No 94
>PHA02142 putative RNA ligase
Probab=89.70 E-value=7.3 Score=42.48 Aligned_cols=102 Identities=13% Similarity=0.095 Sum_probs=56.5
Q ss_pred cCCeEEeEecCceEEEEEEEC---------------------CEEEEEeCCCccccc--cccCCCcCCccccccc---CC
Q 006504 363 QRYYYATWKADGTRYMMLITI---------------------DGCYLIDRCFNFRRV--QMRFPCRNSNEGLGEK---TH 416 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~---------------------~~vyLidR~~~~~~v--~~~FP~~~~~~~l~~~---~~ 416 (643)
...|.+|+|.||+-+-+|... +...+-+|++..... +...- .....++.+. ..
T Consensus 168 ~~~f~~TeKLDGsS~tvy~~~~~~~~~~~~~~~~~~~~~~~~~~~gv~srn~~l~~~~~~~~W~-~a~~~~i~~~l~~~~ 246 (366)
T PHA02142 168 DVKFAKSLKLDGSSITMAWVTDPDLFLDLGTEDEPYAHDYDDAQFIVASRNQVLRYNADSKWWK-GVENYQIVDRLKELG 246 (366)
T ss_pred CceEEEEEEecceeEEEEEecCCcccccccccccccccccCCCceeEeeccccccccCCchHHH-HHHHcCcHHHHHhhC
Confidence 468999999999998887441 223334455531100 00000 0000111111 22
Q ss_pred CCeeeeEEEEEecCCCCC--ccceEEEEEEEeecCCccccCCCHHHHHHHHHH
Q 006504 417 HFTLLDGEMIIDKLPDSR--RQERRYLIYDMMAINQASVIERPFYERWKMLEK 467 (643)
Q Consensus 417 ~~TlLDGElV~d~~~~~~--~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~ 467 (643)
.+.-+=|||+--...+.. -..+.|++||+..++++. -++..++.+++++
T Consensus 247 ~~iaIqGEl~Gp~IQ~N~~~~~~~~F~vF~v~~i~~~~--yl~~~e~~~~~~~ 297 (366)
T PHA02142 247 MSVAIQGELMGPGIQKNRENFDKYRIFAFRAWFIDEQR--FATDEEFQDLCRT 297 (366)
T ss_pred CcEEEEEEEecccccCccccCCCCceEEEEEEEeccce--eCCHHHHHHHHHH
Confidence 456688999864332211 113589999998777654 5677888887776
No 95
>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=88.92 E-value=0.97 Score=44.19 Aligned_cols=102 Identities=17% Similarity=0.216 Sum_probs=54.2
Q ss_pred CeEEeEecCceEEEEEEECC-EEEEEeCCCccccccccCCCcC--------C---c---c---ccc-ccCCCCeeeeEEE
Q 006504 365 YYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFPCRN--------S---N---E---GLG-EKTHHFTLLDGEM 425 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~-~vyLidR~~~~~~v~~~FP~~~--------~---~---~---~l~-~~~~~~TlLDGEl 425 (643)
+|+|+||.||+=+-+++..+ .+.+-.|+..+ .....|.... . . . .+. ........|=||+
T Consensus 2 e~vvtEKldGtn~~i~~~~~~~~~~~~R~~~l-~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~GE~ 80 (186)
T PF09414_consen 2 EVVVTEKLDGTNFSIYFDNDGRVRFQSRSHIL-DPNEDFFGYQSGDNRYWAQARWLFELLKLAELASELLPENIIIYGEL 80 (186)
T ss_dssp EEEEEEE-SSEEEEEEEEECTCEEEEETTEE---TT---TTCHHHHHHCHHHHHHHHHHHHHHCCEC----SEEEEEEEE
T ss_pred eEEEEEEeCCccEEEEEeCCCceeEecccccc-CccccccccccchHHHHHHHHHHHhhhhhhhhcccccceEEEEEEEe
Confidence 68999999999998887654 47777787632 1111111000 0 0 0 000 0123455666999
Q ss_pred EE--ecCCCCCc--c-ceEEEEEEEeecCCc-cccCCCHHHHHHHHHH
Q 006504 426 II--DKLPDSRR--Q-ERRYLIYDMMAINQA-SVIERPFYERWKMLEK 467 (643)
Q Consensus 426 V~--d~~~~~~~--~-~~~yliFDil~~~G~-~l~~~pf~eRl~~L~~ 467 (643)
+- ........ . ...|++||+...+.. ...-++..+...+++.
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 568999999998533 3355566676666654
No 96
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=88.49 E-value=22 Score=42.20 Aligned_cols=140 Identities=16% Similarity=0.152 Sum_probs=78.3
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--ccc----CCCcCCcccccccCCCCeeeeEEEEEecCC----
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QMR----FPCRNSNEGLGEKTHHFTLLDGEMIIDKLP---- 431 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~~----FP~~~~~~~l~~~~~~~TlLDGElV~d~~~---- 431 (643)
.|++++|.||+=+-|.+..+. +..++|.+... .+ ++. .|.. +.........+=||+++.+..
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 699999999999988777664 77899965321 11 111 1111 100011234567999884320
Q ss_pred -------CC----------------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccc
Q 006504 432 -------DS----------------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQ 482 (643)
Q Consensus 432 -------~~----------------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k 482 (643)
+. ....+.|++|++...++. .....++++.|.+.=+.--
T Consensus 208 N~~~~~~g~~~faNpRN~aAGslR~ldp~~~~~r~L~f~~y~~~~~~~~---~~t~~e~l~~L~~~GF~v~--------- 275 (689)
T PRK14351 208 NRERIERGEEPFANPRNAAAGTLRQLDPSVVAERPLDIFFFDVLDASEL---FDSHWEELERFPEWGLRVT--------- 275 (689)
T ss_pred HHHHHHcCCCCcCCHHHHHhhHhhccChHHHhcCCceEEEEecccCCCC---CCCHHHHHHHHHHCCCCcC---------
Confidence 10 024579999998644431 2356778888876432110
Q ss_pred cCCCCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCCC
Q 006504 483 SRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDPY 535 (643)
Q Consensus 483 ~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~spY 535 (643)
+....... +.++...++.+ ...+.+..||||++-.+..+
T Consensus 276 -----------~~~~~~~~---~~~~~~~~~~~~~~R~~l~y~iDGiViKvn~~~~ 317 (689)
T PRK14351 276 -----------DRTERVDD---IDDAIAYRDRLLAARDDLNYEIDGVVIKVDDRDA 317 (689)
T ss_pred -----------CceEeeCC---HHHHHHHHHHHHHhhhcCCCCCceEEEEeCCHHH
Confidence 11111122 23333333332 35789999999999866543
No 97
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=88.16 E-value=27 Score=41.34 Aligned_cols=99 Identities=17% Similarity=0.067 Sum_probs=56.5
Q ss_pred CCeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--cccCCCcCCcccccccCCCCeeeeEEEEEecCC-------
Q 006504 364 RYYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QMRFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (643)
Q Consensus 364 ~~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~------- 431 (643)
..|++++|.||.-.-|.+..+. +..++|.+... .+ +++.- ...+..+. ......+-||+++.+..
T Consensus 110 ~~~~~epKiDGlaisL~YenG~L~~a~TRGDG~~GEDVT~n~~~I-~~IP~~l~--~~~~levRGEv~m~~~~F~~lN~~ 186 (669)
T PRK14350 110 FGISVEPKIDGCSIVLYYKDGILEKALTRGDGRFGNDVTENVRTI-RNVPLFID--EKVELVLRGEIYITKENFLKINKT 186 (669)
T ss_pred ceEEEEEecccEEEEEEEECCEEEEEEecCCCCcchhHhhhhhhh-cccchhcC--CCceEEEEEEEEeeHHHHHHHHHh
Confidence 3699999999999987777654 77899965321 11 11100 00011110 01335678999984310
Q ss_pred ------CC----------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHH
Q 006504 432 ------DS----------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKE 468 (643)
Q Consensus 432 ------~~----------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~ 468 (643)
+. ....+.|++|++...++ ...+..++++.|++.
T Consensus 187 ~~~~faNpRNaaAGsLr~~d~~~~a~r~L~f~~y~~~~~~~---~~~t~~e~l~~L~~~ 242 (669)
T PRK14350 187 LEKPYTNARNLASGILRRIDSREVANFPLDIFVYDILYSSL---ELKTNHDAFDKLKKF 242 (669)
T ss_pred hhccCCChhHHHHHHHHccCchhhhcCceEEEEEEcccCCC---CCCCHHHHHHHHHHC
Confidence 00 12467899999843221 123567888888774
No 98
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=86.18 E-value=17 Score=42.00 Aligned_cols=157 Identities=15% Similarity=0.198 Sum_probs=85.0
Q ss_pred CeEEeEecCceEEEEEEECCE-EEEEeCCCccc--cc--cc-cCCCcCCcccccccCCCCeeeeEEEEEecCC-------
Q 006504 365 YYYATWKADGTRYMMLITIDG-CYLIDRCFNFR--RV--QM-RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP------- 431 (643)
Q Consensus 365 ~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~--~v--~~-~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~------- 431 (643)
.|++++|.||.=+-|.+..+. +..++|.+... .+ ++ .++. .+..+. .......+-||+++.+..
T Consensus 119 ~~~vepKiDGlsisL~Ye~G~Lv~a~TRGDG~~GEDVT~nv~~I~~--IP~~l~-~~~~~levRGEv~m~~~~F~~~~~g 195 (562)
T PRK08097 119 DLWVQPKVDGVAVTLVYRDGKLVQAISRGNGLKGEDWTAKARLIPA--IPQQLP-GALANLVLQGELFLRREGHIQQQMG 195 (562)
T ss_pred ceEEEEecccEEEEEEEECCEEEEEEecCCCccchhHHhhHhhhcc--cchhhc-CCCCeEEEEEEEEEeHHHHHHHhcC
Confidence 599999999999988777654 67899965321 11 11 1110 011110 011235678999984321
Q ss_pred --CC---------------CccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccccccCCCCcccCCCC
Q 006504 432 --DS---------------RRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEP 494 (643)
Q Consensus 432 --~~---------------~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~p 494 (643)
+. ....+.|++|++. +| .....++++.|++.-+.- ++ .
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 0234689999973 34 235678888887642210 00 0
Q ss_pred cEEEeccceechhHHHHHHHh-cccccCCCceeEEecCCCCCcCCC---C-CCeEEEecCCcc
Q 006504 495 FRVRRKDFWLLSTVNKLLKEF-IPKLSHDADGLVFQGWDDPYVPRT---H-EGLLKWKYARMN 552 (643)
Q Consensus 495 f~v~~K~f~~~~~~~~l~~~~-~~~l~h~~DGLIf~p~~spY~~Gt---~-~~lLKWKp~~~n 552 (643)
+...... +.++....+.+ ...+.++.||||++-.+..|.-|. . .--+=||++...
T Consensus 251 ~~~~~~~---~~~i~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~~ts~~PrWAiAyKf~~~~ 310 (562)
T PRK08097 251 YTHPVKN---AEEVARWRERWYRAPLPFVTDGVVVRQAKEPPGRYWQPGQGEWAVAWKYPPVQ 310 (562)
T ss_pred ceEeeCC---HHHHHHHHHHHhhccCCCCCCcEEEEecCHHHHhhccCCCCCceEEEcCCCcE
Confidence 1111111 23444444433 357889999999998776665432 2 224455555443
No 99
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=81.55 E-value=8.6 Score=33.33 Aligned_cols=29 Identities=24% Similarity=0.408 Sum_probs=20.4
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.+++.|+|+|..| +||.. ++.+| ...|++
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 4667899999988 78864 34455 456764
No 100
>PLN02160 thiosulfate sulfurtransferase
Probab=80.49 E-value=5.5 Score=37.14 Aligned_cols=86 Identities=19% Similarity=0.235 Sum_probs=44.0
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCc---EEEEEeccCC---CCCCCHHHHHHHHHHHHHHHHhh
Q 006504 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGI---KHVKIQCKGR---DAVPDNASVNNFVYEVTQFLSRQ 197 (643)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI---~y~~ip~~d~---~~~P~~~~i~~f~~~v~~fi~~~ 197 (643)
..++.++.+.++. + ..|||+.... ++....| ..+.+|.... +...+. .|...+...
T Consensus 16 ~i~~~e~~~~~~~---~-~~lIDVR~~~------E~~~ghIpgA~~iniP~~~~~~~~~l~~~----~~~~~~~~~---- 77 (136)
T PLN02160 16 SVDVSQAKTLLQS---G-HQYLDVRTQD------EFRRGHCEAAKIVNIPYMLNTPQGRVKNQ----EFLEQVSSL---- 77 (136)
T ss_pred EeCHHHHHHHHhC---C-CEEEECCCHH------HHhcCCCCCcceecccchhcCcccccCCH----HHHHHHHhc----
Confidence 4567777765542 2 2689998533 3332223 2355665321 011111 222222221
Q ss_pred ccCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 198 KHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 198 ~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
..+++.|+|||..| +||... +..| ...|++
T Consensus 78 ~~~~~~IivyC~sG-~RS~~A-a~~L-~~~G~~ 107 (136)
T PLN02160 78 LNPADDILVGCQSG-ARSLKA-TTEL-VAAGYK 107 (136)
T ss_pred cCCCCcEEEECCCc-HHHHHH-HHHH-HHcCCC
Confidence 23567899999998 888754 3333 445664
No 101
>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=79.97 E-value=13 Score=39.99 Aligned_cols=106 Identities=13% Similarity=0.055 Sum_probs=59.4
Q ss_pred hhcCCeEEeEecCceEEEEEEECC-EEEEEeCCCccccccccCCC---c-CC----ccc----cccc---CCCCeeeeEE
Q 006504 361 LRQRYYYATWKADGTRYMMLITID-GCYLIDRCFNFRRVQMRFPC---R-NS----NEG----LGEK---THHFTLLDGE 424 (643)
Q Consensus 361 l~~~~Y~Vs~K~DG~R~llli~~~-~vyLidR~~~~~~v~~~FP~---~-~~----~~~----l~~~---~~~~TlLDGE 424 (643)
|....|+|+||.||.-+=++++++ .+-.-+|++.+.... .|-- . .. ... +... ......+=||
T Consensus 22 l~~~ewvatEKlhGaNfsi~~~~~~~i~~akR~~~l~~~e-~f~G~~~i~~~l~~~~~~l~~~l~~~~~~~~~~v~IyGE 100 (325)
T TIGR02307 22 LGLTEWVAREKIHGTNFSIIIERDFKVTCAKRTGIILPNE-DFFGYHILIKNYTASVKAIQDILETKAIIVVVSVQVFGE 100 (325)
T ss_pred cCCceEEEEEEecCcceEEEEeCCceEEEeecccccCccc-ccccHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEEE
Confidence 455699999999999998888877 787888886543211 1100 0 00 000 0000 1134567899
Q ss_pred EEEecCCCCC-ccceEEEEEEEeecCCccccCCCHHHHHHHHHH
Q 006504 425 MIIDKLPDSR-RQERRYLIYDMMAINQASVIERPFYERWKMLEK 467 (643)
Q Consensus 425 lV~d~~~~~~-~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~ 467 (643)
++--...+.. -....|++||+......+..-+++++-.+.+.+
T Consensus 101 l~G~~~q~~~~Y~~~~fyaFdI~~~~~~~~~~L~~d~~~e~~~~ 144 (325)
T TIGR02307 101 LAGPGYQKPVVYSDKDFYAFDIKYTETSDDVTLVDDYMMESFCN 144 (325)
T ss_pred eecCcccCccccccccEEEEEEEEeccCcceEecHHHHHHHHHH
Confidence 9843221111 012579999996642222445666666555554
No 102
>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=74.89 E-value=21 Score=30.75 Aligned_cols=29 Identities=10% Similarity=0.314 Sum_probs=19.7
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.+++.|+|+|..| +||. .++..|. ..|++
T Consensus 59 ~~~~~ivv~C~~G-~rs~-~aa~~L~-~~G~~ 87 (100)
T cd01523 59 PDDQEVTVICAKE-GSSQ-FVAELLA-ERGYD 87 (100)
T ss_pred CCCCeEEEEcCCC-CcHH-HHHHHHH-HcCce
Confidence 3567899999998 5774 4445554 45764
No 103
>KOG4471 consensus Phosphatidylinositol 3-phosphate 3-phosphatase myotubularin MTM1 [Lipid transport and metabolism; Intracellular trafficking, secretion, and vesicular transport]
Probab=72.80 E-value=7.2 Score=44.56 Aligned_cols=27 Identities=26% Similarity=0.646 Sum_probs=22.6
Q ss_pred ccCCceEEEEcCCCCChhHHHHHHHHH
Q 006504 198 KHSKKYILVHCTHGHNRTGYMIVHFLM 224 (643)
Q Consensus 198 ~~~~~~VlVHC~~G~nRTG~li~aYLm 224 (643)
...+..|+|||.-|-.||+-+++..++
T Consensus 371 e~~~~sVlVHCSDGWDRT~QlvsLA~L 397 (717)
T KOG4471|consen 371 ESESRSVLVHCSDGWDRTAQLVSLAML 397 (717)
T ss_pred hcCCceEEEEcCCCccchHHHHHHHHH
Confidence 456789999999999999988876554
No 104
>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=66.92 E-value=13 Score=40.66 Aligned_cols=22 Identities=32% Similarity=0.629 Sum_probs=17.2
Q ss_pred cCCceEEEEcCCCCChhHHHHH
Q 006504 199 HSKKYILVHCTHGHNRTGYMIV 220 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~ 220 (643)
..+..|+|||..|-.||.-+++
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 5788999999999999976654
No 105
>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=63.60 E-value=2.6e+02 Score=31.56 Aligned_cols=203 Identities=14% Similarity=0.101 Sum_probs=101.4
Q ss_pred cCCeEEeEecCceEEEEEEECCEEEEEeCCCccccccc-cCCCcCCcccccccCCCCeeeeEEEEEecCCCCCccceEEE
Q 006504 363 QRYYYATWKADGTRYMMLITIDGCYLIDRCFNFRRVQM-RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLPDSRRQERRYL 441 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~vyLidR~~~~~~v~~-~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~~~~~~~~~yl 441 (643)
..-++...|.||+|.=-++..+.+|+.--++.++...+ .-|.. ...-.-|=-|+|.++ +|+
T Consensus 233 ~dv~~WAlKLDGvRGkG~~~~~~~~i~~DDMq~fsg~l~~~~f~---------~Nnvv~fQcE~i~~~---------~~Y 294 (450)
T PF05098_consen 233 SDVKKWALKLDGVRGKGYFTNGFIIIQMDDMQMFSGKLDPSPFS---------LNNVVAFQCELIDDE---------TFY 294 (450)
T ss_pred cceeEEEEeecccceeeEEeccEEEEEEchhhhhhcccccchhh---------cccEEEEEEEEecCc---------eEE
Confidence 34678889999999988888888887777776654433 11111 112244556666431 377
Q ss_pred EEEEeec-----CCccccCCCH-------HHHHHHHHHHhcCccccccccccccCCCCcccCCCCcEEEeccceechhHH
Q 006504 442 IYDMMAI-----NQASVIERPF-------YERWKMLEKEVIEPRNYERHNIYQSRNPYYRYDLEPFRVRRKDFWLLSTVN 509 (643)
Q Consensus 442 iFDil~~-----~G~~l~~~pf-------~eRl~~L~~~I~~p~~~~~k~i~k~~~~~~~~~~~pf~v~~K~f~~~~~~~ 509 (643)
|=|+|.+ |....-+..+ ..=+.+|... .. ..... .+ .....+.+.|+.-.|+...-..
T Consensus 295 ITDlL~VfkY~YnNrtQYe~s~~~Y~id~~~Ai~~ln~l-~~-~~~~~-~l-------~~~~~~~~~vkFQ~F~~~p~~~ 364 (450)
T PF05098_consen 295 ITDLLHVFKYKYNNRTQYECSLDPYNIDPLDAIECLNYL-NN-ANKKI-TL-------KTNTNKTISVKFQQFFDPPLNV 364 (450)
T ss_pred EeeeeeeEEEeccCcceeEeccCccccCHHHHHHHHHHh-hc-cccce-EE-------eccCCceEEEEEEeecCCcccc
Confidence 7777754 3322222222 3334444431 00 00000 00 0112345677777776532110
Q ss_pred HHHHHhcccccCCCceeEEecCCCCCcCCCCCCeEEEecCCcceEEEEEEEcCCCceEEEEEecCccccccCceeeecCC
Q 006504 510 KLLKEFIPKLSHDADGLVFQGWDDPYVPRTHEGLLKWKYARMNSVDFLFEVTDDDRQLLYVFERGKKKLMEGSSVEFTGS 589 (643)
Q Consensus 510 ~l~~~~~~~l~h~~DGLIf~p~~spY~~Gt~~~lLKWKp~~~nTVDF~l~~~~~~~~~L~l~~~g~~~~~~~~~v~f~~~ 589 (643)
. -.-.-.+||.|.--.+. .+.|.|+ .-|+...... +...|..-.|.- ....+ .
T Consensus 365 ~------~y~t~ptDGfVvld~~~--------~yvKyK~--~kT~EleYd~----~~~~F~~~~G~~---~~~~i----~ 417 (450)
T PF05098_consen 365 N------GYSTVPTDGFVVLDSNG--------RYVKYKY--VKTVELEYDA----GNNTFKSLFGPL---KNYEI----V 417 (450)
T ss_pred C------CcccCCcCCEEEECCCC--------CEEEEee--cceEEEEEEc----CCCeEEcCCCcc---cccee----c
Confidence 0 01234689998876554 4556664 4477665532 112332222221 11222 1
Q ss_pred CCCCcccc-e-EEeCCCCceeEeeeeeecCCCcCCCC
Q 006504 590 FSSQLTSF-L-KQTPALLFWMPKFVFYIRSPSHDAYN 624 (643)
Q Consensus 590 ~~~~~~d~-I-~~d~~~~~W~~~~~~~~~R~Dk~~pN 624 (643)
.+..-.-| | ++--..+.-.+.+ .|+|+-.||
T Consensus 418 ~~~~l~~~~IYE~vi~d~~i~ViK----~RpDRlvpn 450 (450)
T PF05098_consen 418 SDVQLEHGSIYECVITDNVINVIK----ERPDRLVPN 450 (450)
T ss_pred cccCccCCCEEEEEEECCEEEEEe----eCCccCCCC
Confidence 11112223 5 4443346667666 999999998
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=63.32 E-value=43 Score=28.81 Aligned_cols=91 Identities=18% Similarity=0.334 Sum_probs=45.2
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCc-EEEEEeccCC---CCCCCHHHHHHHHHHHHHHHHhhccCC
Q 006504 126 SFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGI-KHVKIQCKGR---DAVPDNASVNNFVYEVTQFLSRQKHSK 201 (643)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI-~y~~ip~~d~---~~~P~~~~i~~f~~~v~~fi~~~~~~~ 201 (643)
||+++.+.+ +..=-+|||+... .++....| .-+++|.... ......+.+..+.... ......+
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 2344479999843 23333222 1366777321 1222233333332222 1123466
Q ss_pred ceEEEEcCCCCChhHHHHHH---HHHHhcCCC
Q 006504 202 KYILVHCTHGHNRTGYMIVH---FLMRSQSMS 230 (643)
Q Consensus 202 ~~VlVHC~~G~nRTG~li~a---YLm~~~~~s 230 (643)
..|+|+|..| .|++..+++ |.+...|++
T Consensus 68 ~~iv~yc~~~-~~~~~~~~~~~~~~l~~~g~~ 98 (113)
T PF00581_consen 68 KDIVFYCSSG-WRSGSAAAARVAWILKKLGFK 98 (113)
T ss_dssp SEEEEEESSS-CHHHHHHHHHHHHHHHHTTTS
T ss_pred ccceeeeecc-cccchhHHHHHHHHHHHcCCC
Confidence 7899999555 555554444 445555654
No 107
>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=59.00 E-value=49 Score=29.66 Aligned_cols=28 Identities=18% Similarity=0.292 Sum_probs=18.3
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
.+.+.|+|+|..| .||.. ++.+| ...|.
T Consensus 62 ~~~~~ivv~C~~G-~rs~~-aa~~L-~~~G~ 89 (117)
T cd01522 62 GKDRPVLLLCRSG-NRSIA-AAEAA-AQAGF 89 (117)
T ss_pred CCCCeEEEEcCCC-ccHHH-HHHHH-HHCCC
Confidence 3567899999988 56664 34444 34555
No 108
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=57.37 E-value=48 Score=35.55 Aligned_cols=88 Identities=19% Similarity=0.229 Sum_probs=47.1
Q ss_pred CCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccC
Q 006504 121 PGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHS 200 (643)
Q Consensus 121 ~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~ 200 (643)
.....++.++.+.+.. .+ -.|||+.+.. +++...| +|. ..++...+..|...+.+.+. ..+
T Consensus 110 ~~~~is~~el~~~l~~--~~-~vlIDVR~~~------E~~~GhI-------~GA-i~ip~~~~~~~~~~l~~~~~--~~k 170 (314)
T PRK00142 110 VGTYLKPKEVNELLDD--PD-VVFIDMRNDY------EYEIGHF-------ENA-IEPDIETFREFPPWVEENLD--PLK 170 (314)
T ss_pred CCcccCHHHHHHHhcC--CC-eEEEECCCHH------HHhcCcC-------CCC-EeCCHHHhhhhHHHHHHhcC--CCC
Confidence 3445678888765542 23 3699998542 3322111 221 11222334444333322222 236
Q ss_pred CceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 201 KKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 201 ~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
++.|+|+|+.| .||. .+++||.. .|++
T Consensus 171 dk~IvvyC~~G-~Rs~-~aa~~L~~-~Gf~ 197 (314)
T PRK00142 171 DKKVVMYCTGG-IRCE-KASAWMKH-EGFK 197 (314)
T ss_pred cCeEEEECCCC-cHHH-HHHHHHHH-cCCC
Confidence 78999999988 6775 45666665 5663
No 109
>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=56.04 E-value=1.4e+02 Score=28.62 Aligned_cols=30 Identities=7% Similarity=-0.055 Sum_probs=22.2
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.++..|+|.|..|..||.. +++++...|++
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 4678999999988777765 56666666764
No 110
>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=51.72 E-value=35 Score=30.44 Aligned_cols=30 Identities=13% Similarity=-0.035 Sum_probs=20.9
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.++..|+|+|..| ++++..++.+| ...|++
T Consensus 77 ~~~~~vv~~c~~g-~~~a~~~~~~l-~~~G~~ 106 (122)
T cd01448 77 SNDDTVVVYDDGG-GFFAARAWWTL-RYFGHE 106 (122)
T ss_pred CCCCEEEEECCCC-CccHHHHHHHH-HHcCCC
Confidence 4678999999998 56666655555 446764
No 111
>PRK01415 hypothetical protein; Validated
Probab=50.60 E-value=99 Score=32.08 Aligned_cols=104 Identities=20% Similarity=0.154 Sum_probs=53.0
Q ss_pred CceeecCCCCccccccCCCCCCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHH
Q 006504 102 GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNA 181 (643)
Q Consensus 102 ~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~ 181 (643)
-.|++|..|- .+.....+..-+|.++.+.+.. .+ ..|||+.+.. +++.- +| ++. ..|+..
T Consensus 94 ~eiV~~g~~~---~~~~~~~g~~i~p~e~~~ll~~--~~-~vvIDVRn~~------E~~~G-----hi--~gA-inip~~ 153 (247)
T PRK01415 94 KEIVAMNVDD---LNVDLFKGEYIEPKDWDEFITK--QD-VIVIDTRNDY------EVEVG-----TF--KSA-INPNTK 153 (247)
T ss_pred ceEEecCCCC---CCccccCccccCHHHHHHHHhC--CC-cEEEECCCHH------HHhcC-----Cc--CCC-CCCChH
Confidence 4566666541 1111124556788887766642 23 3589998542 33211 11 121 122233
Q ss_pred HHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 182 SVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 182 ~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.+.+|-..+..... ...++.|+++|++| .||. .++++|.. +|++
T Consensus 154 ~f~e~~~~~~~~~~--~~k~k~Iv~yCtgG-iRs~-kAa~~L~~-~Gf~ 197 (247)
T PRK01415 154 TFKQFPAWVQQNQE--LLKGKKIAMVCTGG-IRCE-KSTSLLKS-IGYD 197 (247)
T ss_pred HHhhhHHHHhhhhh--hcCCCeEEEECCCC-hHHH-HHHHHHHH-cCCC
Confidence 34333222222111 34678999999999 6764 55667754 5653
No 112
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=46.25 E-value=2.9e+02 Score=32.70 Aligned_cols=159 Identities=16% Similarity=0.182 Sum_probs=89.3
Q ss_pred cCCeEEeEecCceEEEEEEECCE-EEEEeCCCcccc--c--cc----cCCCcCCcccccccCCCCeeeeEEEEEecCC--
Q 006504 363 QRYYYATWKADGTRYMMLITIDG-CYLIDRCFNFRR--V--QM----RFPCRNSNEGLGEKTHHFTLLDGEMIIDKLP-- 431 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~~-vyLidR~~~~~~--v--~~----~FP~~~~~~~l~~~~~~~TlLDGElV~d~~~-- 431 (643)
...|++++|.||.-.-|++..+. +.-.+|.+...= + ++ ..|..-. ..+...-+=||+...+.+
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 35899999999999977777653 667888654210 1 11 1121110 012344568998874311
Q ss_pred ---------C----------------------CCccceEEEEEEEeecCCccccCCCHHHHHHHHHHHhcCccccccccc
Q 006504 432 ---------D----------------------SRRQERRYLIYDMMAINQASVIERPFYERWKMLEKEVIEPRNYERHNI 480 (643)
Q Consensus 432 ---------~----------------------~~~~~~~yliFDil~~~G~~l~~~pf~eRl~~L~~~I~~p~~~~~k~i 480 (643)
+ +.+..+.+.+|.+-...+. ..-....+++..|+.+=+.-
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 0145678999988765544 44456788998888743220
Q ss_pred cccCCCCcccCCCCcEEEeccceechhHHHHHHHh---cccccCCCceeEEecCCCC------CcCCCCCCeEEEecCCc
Q 006504 481 YQSRNPYYRYDLEPFRVRRKDFWLLSTVNKLLKEF---IPKLSHDADGLVFQGWDDP------YVPRTHEGLLKWKYARM 551 (643)
Q Consensus 481 ~k~~~~~~~~~~~pf~v~~K~f~~~~~~~~l~~~~---~~~l~h~~DGLIf~p~~sp------Y~~Gt~~~lLKWKp~~~ 551 (643)
++ ..+-+-.+..+..+++.+ -+.+++..||+|.+=.+-+ |+.+.-.--+=||+|-.
T Consensus 253 ----~~-----------~~~~~~~~~ev~~~~~~~~~~R~~L~y~IDGvViKvn~l~~q~~lG~tsk~PrWAiAyKFpa~ 317 (667)
T COG0272 253 ----NP-----------YTRLCKNADEVLAFYEEWEKKRASLPYDIDGVVIKVNDLALQRELGFTSKAPRWAIAYKFPAE 317 (667)
T ss_pred ----Cc-----------HhhhcCCHHHHHHHHHHHHhhcccCCCccceEEEEeccHHHHHHhCCccCCCceeeeecCCch
Confidence 00 011111223333333333 3579999999999975533 44444333455665543
No 113
>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=46.19 E-value=31 Score=36.42 Aligned_cols=39 Identities=21% Similarity=0.414 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHH----hhccCC---ceEEEEcCCCCChhHHHH
Q 006504 181 ASVNNFVYEVTQFLS----RQKHSK---KYILVHCTHGHNRTGYMI 219 (643)
Q Consensus 181 ~~i~~f~~~v~~fi~----~~~~~~---~~VlVHC~~G~nRTG~li 219 (643)
..+..|++.+.+++. .....| -.|+|=||+|..||.+++
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 344555555444443 222222 489999999999999875
No 114
>PRK05320 rhodanese superfamily protein; Provisional
Probab=44.86 E-value=1.7e+02 Score=30.45 Aligned_cols=89 Identities=11% Similarity=0.094 Sum_probs=46.7
Q ss_pred CCCCHHHHHHHHHHcC---CCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhcc
Q 006504 123 KRYSFKQVIHQLRVLG---RKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKH 199 (643)
Q Consensus 123 ~r~~~~~l~~~~~~~~---~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~ 199 (643)
...++.++.+.++... ..-..|||+.+.. +++...| +|.-.+| ...+..|...+.+.... .
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 4567777776554311 1234699998543 3322111 2211233 23444443333333221 2
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
+++.|+++|+.| .||. .++++|.. .|++
T Consensus 174 kdk~IvvyC~~G-~Rs~-~Aa~~L~~-~Gf~ 201 (257)
T PRK05320 174 AGKTVVSFCTGG-IRCE-KAAIHMQE-VGID 201 (257)
T ss_pred CCCeEEEECCCC-HHHH-HHHHHHHH-cCCc
Confidence 568899999999 6665 46677764 5653
No 115
>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=44.20 E-value=2.1e+02 Score=31.20 Aligned_cols=104 Identities=12% Similarity=0.034 Sum_probs=51.2
Q ss_pred cCCeEEeEecCceEEEEEEECC-EEEEE------eCCCccccc--cccCCC--cCC-cccccccCC-CCeeeeEEEEEec
Q 006504 363 QRYYYATWKADGTRYMMLITID-GCYLI------DRCFNFRRV--QMRFPC--RNS-NEGLGEKTH-HFTLLDGEMIIDK 429 (643)
Q Consensus 363 ~~~Y~Vs~K~DG~R~llli~~~-~vyLi------dR~~~~~~v--~~~FP~--~~~-~~~l~~~~~-~~TlLDGElV~d~ 429 (643)
...|.+|+|.||+-+-++...+ +-|+. +|+..+... +...-. ... .+.+.+..+ ...-+=||++--.
T Consensus 158 ~~~~~~TeKldGss~tv~~~~~~~~~~~~~~Gvcsr~~~l~~~~~~~~W~~a~~~~i~~~l~~~~~~~~vaiqGEl~G~g 237 (341)
T TIGR02306 158 GEKVAKTEKLHGTSITVAWVTDEERFLVLSKGVASRNLVLRENADNKYWKAVENYQIVDRAKAAELRMSVAIFGEVMGPG 237 (341)
T ss_pred CceEEEEEEecceeEEEEEecCCcccccccceeecCCcccccCCCchhHHHHHhcChHHHHhhcccCceEEEEEEEeCcc
Confidence 3689999999999987765432 22332 354432110 000000 000 011111112 3345789998543
Q ss_pred CCCCC--ccceE-EEEEEEeecCCccccCCCHHHHHHHHHHH
Q 006504 430 LPDSR--RQERR-YLIYDMMAINQASVIERPFYERWKMLEKE 468 (643)
Q Consensus 430 ~~~~~--~~~~~-yliFDil~~~G~~l~~~pf~eRl~~L~~~ 468 (643)
..+.. ..... |.+|++ ..+|.. .=++..++.+++.+.
T Consensus 238 IQ~n~Yg~~~~~~~f~F~v-~~~~~~-ryld~~~~~~~~~~~ 277 (341)
T TIGR02306 238 IQKNRYGFDKYRTVFAFRA-FFDGEQ-RFLTDEDFQDLCLTL 277 (341)
T ss_pred ccCCcCCCCCCceEEEEEE-EEcCcc-eecCHHHHHHHHHhc
Confidence 31111 12234 667776 344442 346888888877763
No 116
>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=43.62 E-value=1.3e+02 Score=27.16 Aligned_cols=26 Identities=15% Similarity=0.448 Sum_probs=17.1
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHH
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMR 225 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~ 225 (643)
.+...|+|||..+-.||+. +|.+|..
T Consensus 66 ~~~~~vv~yC~~sg~rs~~-aa~~L~~ 91 (121)
T cd01530 66 KKRRVLIFHCEFSSKRGPR-MARHLRN 91 (121)
T ss_pred CCCCEEEEECCCccccHHH-HHHHHHH
Confidence 4578999999844367654 5555554
No 117
>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=43.48 E-value=1.4e+02 Score=26.30 Aligned_cols=18 Identities=17% Similarity=0.265 Sum_probs=13.4
Q ss_pred CCceEEEEcCCCCChhHH
Q 006504 200 SKKYILVHCTHGHNRTGY 217 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~ 217 (643)
....|+|||..|-.||..
T Consensus 65 ~~~~iv~~C~~~g~rs~~ 82 (113)
T cd01443 65 GVKLAIFYCGSSQGRGPR 82 (113)
T ss_pred CCCEEEEECCCCCcccHH
Confidence 346899999986667654
No 118
>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=42.75 E-value=33 Score=30.07 Aligned_cols=27 Identities=19% Similarity=0.293 Sum_probs=18.4
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
++..|+|||..|. ||. .++..| ...|+
T Consensus 65 ~~~~ivv~C~~G~-rs~-~a~~~L-~~~G~ 91 (109)
T cd01533 65 PRTPIVVNCAGRT-RSI-IGAQSL-INAGL 91 (109)
T ss_pred CCCeEEEECCCCc-hHH-HHHHHH-HHCCC
Confidence 4678999999984 774 344444 45676
No 119
>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=41.39 E-value=28 Score=30.05 Aligned_cols=29 Identities=21% Similarity=0.306 Sum_probs=20.8
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
..++.|+|+|.+| +||+ .++.+|.. .|++
T Consensus 59 ~~~~~ivv~C~~G-~rS~-~aa~~L~~-~G~~ 87 (110)
T COG0607 59 PDDDPIVVYCASG-VRSA-AAAAALKL-AGFT 87 (110)
T ss_pred CCCCeEEEEeCCC-CChH-HHHHHHHH-cCCc
Confidence 3578999999999 6774 56666665 4543
No 120
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=39.30 E-value=45 Score=35.34 Aligned_cols=39 Identities=21% Similarity=0.364 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHhh----ccCC---ceEEEEcCCCCChhHHHH
Q 006504 181 ASVNNFVYEVTQFLSRQ----KHSK---KYILVHCTHGHNRTGYMI 219 (643)
Q Consensus 181 ~~i~~f~~~v~~fi~~~----~~~~---~~VlVHC~~G~nRTG~li 219 (643)
..+.+|++.+.++++.. ...| -.|+|=||.|..||.+++
T Consensus 218 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~igCtGG~HRSV~~~ 263 (288)
T PRK05416 218 PEVEEFLDKIRDLLEFWLPGYEREGKSYLTIAIGCTGGQHRSVAIA 263 (288)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEecCCCcccHHHHH
Confidence 44566666655555422 2223 479999999999998874
No 121
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=39.30 E-value=66 Score=35.34 Aligned_cols=82 Identities=15% Similarity=0.249 Sum_probs=43.2
Q ss_pred CCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcE----EEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhcc
Q 006504 124 RYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIK----HVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKH 199 (643)
Q Consensus 124 r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~----y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~ 199 (643)
+.++.++.+.++. + +. .+||+... ++|+...|. -+++|.... .... .+.... . ..
T Consensus 272 ~~~~~el~~~l~~-~-~~-~lIDVR~~------~E~~~ghI~~~~gAinIPl~~l---~~~~---~~~~~l----~--~~ 330 (370)
T PRK05600 272 RTDTTSLIDATLN-G-SA-TLLDVREP------HEVLLKDLPEGGASLKLPLSAI---TDDA---DILHAL----S--PI 330 (370)
T ss_pred ccCHHHHHHHHhc-C-Ce-EEEECCCH------HHhhhccCCCCCccEeCcHHHh---hcch---hhhhhc----c--cc
Confidence 5577888776643 2 33 68999843 445443332 345554221 1100 011111 1 11
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
+..+|+|||..| .||. .++.+|.. .|+
T Consensus 331 ~~~~Ivv~C~sG-~RS~-~Aa~~L~~-~G~ 357 (370)
T PRK05600 331 DGDNVVVYCASG-IRSA-DFIEKYSH-LGH 357 (370)
T ss_pred CCCcEEEECCCC-hhHH-HHHHHHHH-cCC
Confidence 234899999999 7776 45566654 565
No 122
>PRK05569 flavodoxin; Provisional
Probab=38.07 E-value=2.7e+02 Score=25.35 Aligned_cols=109 Identities=7% Similarity=0.075 Sum_probs=58.1
Q ss_pred cCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCC-hh
Q 006504 137 LGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHN-RT 215 (643)
Q Consensus 137 ~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~n-RT 215 (643)
.|..+ .++++.. ++...+.+...-.+-.|+-+.+..| ..++..|++.+... ...++.|++-|++|-+ ..
T Consensus 29 ~g~~v-~~~~~~~----~~~~~~~~~d~iilgsPty~~~~~~-~~~~~~~~~~l~~~----~~~~K~v~~f~t~g~~~~~ 98 (141)
T PRK05569 29 AGAEV-TIKHVAD----AKVEDVLEADAVAFGSPSMDNNNIE-QEEMAPFLDQFKLT----PNENKKCILFGSYGWDNGE 98 (141)
T ss_pred CCCeE-EEEECCc----CCHHHHhhCCEEEEECCCcCCCcCC-hHHHHHHHHHhhcc----CcCCCEEEEEeCCCCCCCc
Confidence 34333 4556542 2334565566666666765542232 34566666654321 2368899999999865 23
Q ss_pred HHHHHHHHHHhcCCCHHHHHHHHHhcCCCCcCCHHHHHHHHHHHhh
Q 006504 216 GYMIVHFLMRSQSMSVAQAIKKFAEVRPPGIYKNEYIEALYTFYHE 261 (643)
Q Consensus 216 G~li~aYLm~~~~~s~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~ 261 (643)
+.-...-++...|+.+-..+.. .+.++..-++++.++-..
T Consensus 99 ~~~~~~~~l~~~g~~~~~~~~~------~~~p~~~~~~~~~~~g~~ 138 (141)
T PRK05569 99 FMKLWKDRMKDYGFNVIGDLAV------NESPNKEELNSAKELGKK 138 (141)
T ss_pred HHHHHHHHHHHCCCeEeeeEEE------ccCCCHHHHHHHHHHHHH
Confidence 3222333445567754332111 234667777777665443
No 123
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=37.59 E-value=44 Score=34.93 Aligned_cols=39 Identities=23% Similarity=0.422 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHh----hccCC---ceEEEEcCCCCChhHHHH
Q 006504 181 ASVNNFVYEVTQFLSR----QKHSK---KYILVHCTHGHNRTGYMI 219 (643)
Q Consensus 181 ~~i~~f~~~v~~fi~~----~~~~~---~~VlVHC~~G~nRTG~li 219 (643)
..+..|++.+.+|++- .+..| -.|+|=||+|..||.+++
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 4556666666555542 22333 479999999999999875
No 124
>KOG1089 consensus Myotubularin-related phosphatidylinositol 3-phosphate 3-phosphatase MTM6 [General function prediction only]
Probab=37.56 E-value=55 Score=37.77 Aligned_cols=21 Identities=33% Similarity=0.588 Sum_probs=17.8
Q ss_pred CCceEEEEcCCCCChhHHHHH
Q 006504 200 SKKYILVHCTHGHNRTGYMIV 220 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~ 220 (643)
.+-.|+|||.-|..||.-++.
T Consensus 343 ~~~sVlvhcsdGwDrT~qV~S 363 (573)
T KOG1089|consen 343 EGASVLVHCSDGWDRTCQVSS 363 (573)
T ss_pred CCCeEEEEccCCcchhHHHHH
Confidence 568999999999999976554
No 125
>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=32.98 E-value=1.6e+02 Score=31.39 Aligned_cols=100 Identities=20% Similarity=0.322 Sum_probs=60.2
Q ss_pred ccChh-hHHHHHHHHHHhhcccCCCCCCCCC--CC----CccccccccchhhhhcCCeEEeEecCceEEEEEEECCEEEE
Q 006504 316 EIPND-QQDAFRHFCYQTLKLNFGGRGNMQF--PG----SHPVSLNSDNLQLLRQRYYYATWKADGTRYMMLITIDGCYL 388 (643)
Q Consensus 316 ~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~F--PG----~qPVSl~r~nl~~l~~~~Y~Vs~K~DG~R~llli~~~~vyL 388 (643)
+++.+ ..++|...++-+. .. ...+-.. |+ -+-..|-++.|..|.-.+++++-|+||+=..+.+...++|.
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 34433 4677777777665 21 1222222 12 22345667888888889999999999998888888877554
Q ss_pred EeCCCccccccccCCCcCCcccccccCCCCeeeeEEEEEe
Q 006504 389 IDRCFNFRRVQMRFPCRNSNEGLGEKTHHFTLLDGEMIID 428 (643)
Q Consensus 389 idR~~~~~~v~~~FP~~~~~~~l~~~~~~~TlLDGElV~d 428 (643)
.=-+..+ .++||.... ......|=||++..
T Consensus 254 ~f~hl~y---~irY~~~~~-------i~~~i~l~gEa~K~ 283 (313)
T PF10640_consen 254 YFSHLGY---IIRYNANRN-------IDNPIVLYGEAIKQ 283 (313)
T ss_pred EEEEeeE---EEEcccccC-------CCCceEEEeeeeec
Confidence 3222221 134443322 23456778999873
No 126
>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=31.64 E-value=1.2e+02 Score=28.40 Aligned_cols=77 Identities=6% Similarity=0.235 Sum_probs=51.6
Q ss_pred CcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHHHHhcCCCHHHH
Q 006504 155 PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFLMRSQSMSVAQA 234 (643)
Q Consensus 155 d~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s~~eA 234 (643)
+|+.++..+..++.+.-......=++..+....+.+.+|+++ ..++.|++-| .=||+-..| .+.+
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 455666557777777655322334456788888899999984 4567999998 468887766 5666
Q ss_pred HHHHHhcCCCCc
Q 006504 235 IKKFAEVRPPGI 246 (643)
Q Consensus 235 i~~~~~~Rp~~i 246 (643)
++++...|-.++
T Consensus 97 ~KFL~~LkD~~~ 108 (136)
T PF05763_consen 97 LKFLASLKDYAL 108 (136)
T ss_pred HHHHHHhHHHee
Confidence 666666664433
No 127
>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=30.71 E-value=49 Score=28.13 Aligned_cols=19 Identities=26% Similarity=0.387 Sum_probs=14.0
Q ss_pred ceEEEEcCCCCChhHHHHHH
Q 006504 202 KYILVHCTHGHNRTGYMIVH 221 (643)
Q Consensus 202 ~~VlVHC~~G~nRTG~li~a 221 (643)
+.|+|.|..|+| |++|++.
T Consensus 1 ~kilvvCg~G~g-tS~ml~~ 19 (87)
T cd05567 1 KKIVFACDAGMG-SSAMGAS 19 (87)
T ss_pred CEEEEECCCCcc-HHHHHHH
Confidence 369999999998 5555443
No 128
>PRK07411 hypothetical protein; Validated
Probab=30.63 E-value=1.2e+02 Score=33.40 Aligned_cols=28 Identities=18% Similarity=0.487 Sum_probs=19.1
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
++..|+|||..|. ||.. ++.+| ...|++
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 4678999998874 7754 44444 556764
No 129
>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=29.61 E-value=78 Score=26.85 Aligned_cols=29 Identities=14% Similarity=0.006 Sum_probs=18.2
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
+..+|+|+|..|...++..++..| ...|.
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 467899999988443344444444 44565
No 130
>KOG1530 consensus Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=29.06 E-value=87 Score=29.33 Aligned_cols=78 Identities=22% Similarity=0.315 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCc-EEEEEeccCC---CCCCCHHHHHHHHHHHHHHHHhhc
Q 006504 123 KRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGI-KHVKIQCKGR---DAVPDNASVNNFVYEVTQFLSRQK 198 (643)
Q Consensus 123 ~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI-~y~~ip~~d~---~~~P~~~~i~~f~~~v~~fi~~~~ 198 (643)
..++.+++-+... ..=...||+.. |++|+.-++ .-++||.--+ +..+. ..|.+.+. +.. .
T Consensus 23 ~sv~~~qvk~L~~---~~~~~llDVRe------peEfk~gh~~~siNiPy~~~~~~~~l~~----~eF~kqvg-~~k--p 86 (136)
T KOG1530|consen 23 QSVSVEQVKNLLQ---HPDVVLLDVRE------PEEFKQGHIPASINIPYMSRPGAGALKN----PEFLKQVG-SSK--P 86 (136)
T ss_pred EEEEHHHHHHHhc---CCCEEEEeecC------HHHhhccCCcceEeccccccccccccCC----HHHHHHhc-ccC--C
Confidence 3455555554432 22267888873 556665554 5566776321 12222 23444332 221 2
Q ss_pred cCCceEEEEcCCCCChhHH
Q 006504 199 HSKKYILVHCTHGHNRTGY 217 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~ 217 (643)
...+-|.|+|..| .||..
T Consensus 87 ~~d~eiIf~C~SG-~Rs~~ 104 (136)
T KOG1530|consen 87 PHDKEIIFGCASG-VRSLK 104 (136)
T ss_pred CCCCcEEEEeccC-cchhH
Confidence 3345899999999 56653
No 131
>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]
Probab=28.42 E-value=2.4e+02 Score=30.35 Aligned_cols=65 Identities=15% Similarity=0.335 Sum_probs=44.8
Q ss_pred cEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhh------------ccCCceEEEEc-CCCCChhHHHHHHHHHHhcCC
Q 006504 164 IKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQ------------KHSKKYILVHC-THGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 164 I~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~------------~~~~~~VlVHC-~~G~nRTG~li~aYLm~~~~~ 229 (643)
++--.+.+-+| .+|.++++..-++...+|+.+. ...-+.|+||= +-|-|||.-+..-.++.+-|+
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 55555555444 7888888877777777776531 11237889997 689999999888777665454
No 132
>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=27.14 E-value=70 Score=27.24 Aligned_cols=28 Identities=14% Similarity=0.303 Sum_probs=18.7
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
.++..|+|+|..| +|+. .+ ++++...|+
T Consensus 59 ~~~~~ivv~c~~g-~~s~-~~-~~~l~~~G~ 86 (103)
T cd01447 59 AEDKPFVFYCASG-WRSA-LA-GKTLQDMGL 86 (103)
T ss_pred CCCCeEEEEcCCC-CcHH-HH-HHHHHHcCh
Confidence 4578999999887 6764 33 345555665
No 133
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=26.83 E-value=80 Score=28.69 Aligned_cols=30 Identities=20% Similarity=0.452 Sum_probs=21.6
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.++..|+|.|.+|-.||. .++++++..|.+
T Consensus 84 ~~~~~vvvyC~~~G~rs~--~a~~~L~~~G~~ 113 (128)
T cd01520 84 ERDPKLLIYCARGGMRSQ--SLAWLLESLGID 113 (128)
T ss_pred CCCCeEEEEeCCCCccHH--HHHHHHHHcCCc
Confidence 467899999986556766 344777777763
No 134
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=26.73 E-value=3.4e+02 Score=24.47 Aligned_cols=44 Identities=18% Similarity=0.265 Sum_probs=29.5
Q ss_pred HHHHHHHHHcCCCeeEEEEcCCCCC----CCCcc----hhhcCCcEEEEEeccC
Q 006504 128 KQVIHQLRVLGRKLGLVIDLTNTTR----YYPTS----DLKKEGIKHVKIQCKG 173 (643)
Q Consensus 128 ~~l~~~~~~~~~~I~~VIdLt~~~~----~Yd~~----~~~~~GI~y~~ip~~d 173 (643)
+.+++.++ ..+|..|||+..--+ .++++ .+...||.|++++-.|
T Consensus 3 e~f~~~l~--~~~i~~lVDVR~~P~S~~~~~~k~~l~~~l~~~gi~Y~~~~~Lg 54 (122)
T PF04343_consen 3 ERFYDLLK--KNGIRVLVDVRLWPRSRKPGFNKEDLASFLEEAGIEYVWLPELG 54 (122)
T ss_pred HHHHHHHH--HCCCeEEEEECCCCCCCCCCCCHHHHHHHHHHCCceEeechhhc
Confidence 45555444 368999999764333 44543 4456899999998765
No 135
>COG1054 Predicted sulfurtransferase [General function prediction only]
Probab=26.51 E-value=3.9e+02 Score=28.58 Aligned_cols=86 Identities=23% Similarity=0.249 Sum_probs=52.9
Q ss_pred CCCCCHHHHHHHHHHcCCCeeEEEEcCCCCCCCCcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCC
Q 006504 122 GKRYSFKQVIHQLRVLGRKLGLVIDLTNTTRYYPTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSK 201 (643)
Q Consensus 122 ~~r~~~~~l~~~~~~~~~~I~~VIdLt~~~~~Yd~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~ 201 (643)
+.--.|.++-+.+.. .+ ..|||..|.-. |+ |-+. .|- ..|..+....|-..+.+..+ ...+
T Consensus 112 G~yl~p~~wn~~l~D--~~-~vviDtRN~YE-~~--------iG~F----~gA-v~p~~~tFrefP~~v~~~~~--~~~~ 172 (308)
T COG1054 112 GTYLSPKDWNELLSD--PD-VVVIDTRNDYE-VA--------IGHF----EGA-VEPDIETFREFPAWVEENLD--LLKD 172 (308)
T ss_pred cCccCHHHHHHHhcC--CC-eEEEEcCccee-Ee--------eeee----cCc-cCCChhhhhhhHHHHHHHHH--hccC
Confidence 334466777665542 23 68999886421 11 2222 232 45777888888888877666 4456
Q ss_pred ceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 202 KYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 202 ~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
++|+.-||.|+- . =-+.+||.. .|+
T Consensus 173 KkVvmyCTGGIR-C-EKas~~m~~-~GF 197 (308)
T COG1054 173 KKVVMYCTGGIR-C-EKASAWMKE-NGF 197 (308)
T ss_pred CcEEEEcCCcee-e-hhhHHHHHH-hcc
Confidence 799999999974 3 245566665 354
No 136
>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=26.21 E-value=82 Score=27.06 Aligned_cols=28 Identities=25% Similarity=0.326 Sum_probs=18.9
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
++..|+|+|..|. ||.. +++++...|+.
T Consensus 65 ~~~~ivv~c~~g~-~s~~--~~~~l~~~G~~ 92 (106)
T cd01519 65 KDKELIFYCKAGV-RSKA--AAELARSLGYE 92 (106)
T ss_pred CCCeEEEECCCcH-HHHH--HHHHHHHcCCc
Confidence 5679999999884 6543 34555566763
No 137
>COG5016 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]
Probab=25.31 E-value=1.4e+02 Score=33.19 Aligned_cols=89 Identities=17% Similarity=0.260 Sum_probs=53.7
Q ss_pred CHHHHHHHHHHcCCCeeEEEEcCCC----CCCC--CcchhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhcc
Q 006504 126 SFKQVIHQLRVLGRKLGLVIDLTNT----TRYY--PTSDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKH 199 (643)
Q Consensus 126 ~~~~l~~~~~~~~~~I~~VIdLt~~----~~~Y--d~~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~ 199 (643)
+....++..+++|..+-..|.-|-+ ..+| -..++.+.|+..+.| +|.-..-++....+.+..+.+ .
T Consensus 126 Nl~~ai~a~kk~G~h~q~~i~YT~sPvHt~e~yv~~akel~~~g~DSIci--KDmaGlltP~~ayelVk~iK~------~ 197 (472)
T COG5016 126 NLKTAIKAAKKHGAHVQGTISYTTSPVHTLEYYVELAKELLEMGVDSICI--KDMAGLLTPYEAYELVKAIKK------E 197 (472)
T ss_pred HHHHHHHHHHhcCceeEEEEEeccCCcccHHHHHHHHHHHHHcCCCEEEe--ecccccCChHHHHHHHHHHHH------h
Confidence 3456677777788888888877632 1233 235666788866665 444334455544444443322 2
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHH
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMR 225 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~ 225 (643)
-+-.|.|||++- ||...++||..
T Consensus 198 ~~~pv~lHtH~T---sG~a~m~ylkA 220 (472)
T COG5016 198 LPVPVELHTHAT---SGMAEMTYLKA 220 (472)
T ss_pred cCCeeEEecccc---cchHHHHHHHH
Confidence 347899998765 55667777754
No 138
>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=24.95 E-value=93 Score=26.42 Aligned_cols=28 Identities=18% Similarity=0.236 Sum_probs=18.8
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
.+..|+|+|..| +||. .++.+| ...|++
T Consensus 55 ~~~~iv~~c~~G-~rs~-~aa~~L-~~~G~~ 82 (95)
T cd01534 55 RGARIVLADDDG-VRAD-MTASWL-AQMGWE 82 (95)
T ss_pred CCCeEEEECCCC-ChHH-HHHHHH-HHcCCE
Confidence 467899999988 4665 445555 556663
No 139
>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=24.31 E-value=85 Score=26.67 Aligned_cols=28 Identities=7% Similarity=0.047 Sum_probs=18.9
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
.++..|+|+|..| +||+.+ +.+| ...|.
T Consensus 54 ~~~~~ivv~c~~g-~~s~~~-~~~l-~~~G~ 81 (96)
T cd01529 54 GRATRYVLTCDGS-LLARFA-AQEL-LALGG 81 (96)
T ss_pred CCCCCEEEEeCCh-HHHHHH-HHHH-HHcCC
Confidence 4567899999876 677553 4455 44565
No 140
>PF02673 BacA: Bacitracin resistance protein BacA; InterPro: IPR003824 This is a family of small, highly hydrophobic proteins. Over-expression of this protein in Escherichia coli is associated with bacitracin resistance [], and the protein was originally proposed to be an undecaprenol kinase called bacA. BacA protein, however, does not show undecaprenol phosphokinase activity []. It is now known to be an undecaprenyl pyrophosphate phosphatase (3.6.1.27 from EC) and is renamed UppP. It is not the only protein associated with bacitracin resistance [, ].; GO: 0050380 undecaprenyl-diphosphatase activity, 0016311 dephosphorylation, 0016020 membrane
Probab=22.77 E-value=76 Score=33.11 Aligned_cols=27 Identities=22% Similarity=0.263 Sum_probs=23.3
Q ss_pred CCCCChhHHHHHHHHHHhcCCCHHHHHHH
Q 006504 209 THGHNRTGYMIVHFLMRSQSMSVAQAIKK 237 (643)
Q Consensus 209 ~~G~nRTG~li~aYLm~~~~~s~~eAi~~ 237 (643)
-=|+||||.-+++-|+ .|++.++|.++
T Consensus 159 ~PGiSRSG~Ti~~~l~--~G~~r~~A~~f 185 (259)
T PF02673_consen 159 IPGISRSGATITAGLL--LGLDREEAARF 185 (259)
T ss_pred CCCcChHHHHHHHHHH--CCCCHHHHHHH
Confidence 4599999999999887 59999999765
No 141
>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=22.49 E-value=1e+02 Score=27.60 Aligned_cols=28 Identities=25% Similarity=0.402 Sum_probs=19.2
Q ss_pred cCCceEEEEcCCCCChhHHHHHHHHHHhcCC
Q 006504 199 HSKKYILVHCTHGHNRTGYMIVHFLMRSQSM 229 (643)
Q Consensus 199 ~~~~~VlVHC~~G~nRTG~li~aYLm~~~~~ 229 (643)
..++.|+|+|..| .||. .++.+| ...|+
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 3568899999998 5765 444444 44566
No 142
>COG0696 GpmI Phosphoglyceromutase [Carbohydrate transport and metabolism]
Probab=22.22 E-value=3.8e+02 Score=30.60 Aligned_cols=172 Identities=19% Similarity=0.207 Sum_probs=100.2
Q ss_pred cccCCCCCCCCCccCCCCCCc-cc-CceeecCCCCccccccCCCCCCCCCHHHHHHHHH---HcCCCeeEEEEcCCCCCC
Q 006504 79 KSYDRNKLPPGWLDCPPFGQE-IG-GCIIPSKVPLSEFFNDCIPPGKRYSFKQVIHQLR---VLGRKLGLVIDLTNTTRY 153 (643)
Q Consensus 79 ~~~~~~~~p~~W~~~~~~g~~-I~-~~flp~K~PL~~~~~~~v~~~~r~~~~~l~~~~~---~~~~~I~~VIdLt~~~~~ 153 (643)
.+++.-.||++-..-+-.|.. |+ +|++....+ +++..+..+.-|.-..+...+. ..+ ..-+|+-|....-.
T Consensus 47 aSG~~VGLP~GQmGNSEVGHlnIGAGRivyq~l~---rI~~aie~g~f~~n~~l~~~~~~v~~~~-~~lHlmGl~S~GGV 122 (509)
T COG0696 47 ASGLAVGLPEGQMGNSEVGHLNIGAGRIVYQDLT---RIDKAIEDGSFFENPALLNAIDEVKANG-SALHLMGLVSDGGV 122 (509)
T ss_pred ccccccCCCCCcccCccccceeeecceEeecccc---hhhhhhhcCcccccHHHHHHHHHhhhcC-ceEEEEecccCCcc
Confidence 367888999999888888877 64 689886643 2444454444444444443332 222 22356666543321
Q ss_pred C---C-----cchhhcCCc--EEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEcCCCCChhHHHHHHHH
Q 006504 154 Y---P-----TSDLKKEGI--KHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHCTHGHNRTGYMIVHFL 223 (643)
Q Consensus 154 Y---d-----~~~~~~~GI--~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC~~G~nRTG~li~aYL 223 (643)
- + .+...+.|+ -|++.-..|++.+|. ...++++.+..++. ..|.+|.+++...|.
T Consensus 123 HSh~~Hl~ali~~a~k~g~~kV~~H~f~DGRD~~P~--s~~~~le~l~~~~~-------------~~g~~~iasi~GRYY 187 (509)
T COG0696 123 HSHIDHLLALIELAAKNGMKKVYLHAFLDGRDTAPR--SALQYLEELEAKAK-------------EYGNGRIASISGRYY 187 (509)
T ss_pred cchHHHHHHHHHHHHhcCCcEEEEEEecCCCCCCch--hHHHHHHHHHHHhh-------------ccCceEEEEEeeeee
Confidence 1 1 233445664 577777888865554 46777877777754 134444555555544
Q ss_pred -HHh-cCCC-HHHHHHHHHhcCCCCcCCHHHHHHHHHHHhhcCCCCCCCC
Q 006504 224 -MRS-QSMS-VAQAIKKFAEVRPPGIYKNEYIEALYTFYHEKRLDSTPCP 270 (643)
Q Consensus 224 -m~~-~~~s-~~eAi~~~~~~Rp~~i~~~~~l~~L~~~y~~~~~~~~~~p 270 (643)
|.+ +.|. .+.|+..+....... -....++.+...|..-..+++..|
T Consensus 188 aMDRD~rWdRve~Ay~a~~~~~~~~-~~~~~~~~~~~~Y~~~~tDEFv~p 236 (509)
T COG0696 188 AMDRDNRWDRVEKAYDALTYGEGEF-TANSAVEAVQASYARGITDEFVKP 236 (509)
T ss_pred ccccccchHHHHHHHHHHHcccccc-ccCCHHHHHHHHHhcCCCcccccc
Confidence 322 3486 889999988887532 223556677777776554444333
No 143
>PF13292 DXP_synthase_N: 1-deoxy-D-xylulose-5-phosphate synthase; PDB: 2O1X_C 2O1S_B.
Probab=22.18 E-value=1.4e+02 Score=31.40 Aligned_cols=40 Identities=15% Similarity=0.203 Sum_probs=27.7
Q ss_pred chhhcCCcEEEEEeccCCCCCCCHHHHHHHHHHHHHHHHhhccCCceEEEEc
Q 006504 157 SDLKKEGIKHVKIQCKGRDAVPDNASVNNFVYEVTQFLSRQKHSKKYILVHC 208 (643)
Q Consensus 157 ~~~~~~GI~y~~ip~~d~~~~P~~~~i~~f~~~v~~fi~~~~~~~~~VlVHC 208 (643)
..|++.|++|+ =|+.|| +.+.+...++. .++-.++|+||.
T Consensus 229 ~lFe~LG~~Y~-GPiDGH----dl~~Li~~l~~-------~K~~~gPvllHV 268 (270)
T PF13292_consen 229 NLFEELGFDYI-GPIDGH----DLEELIEVLEN-------AKDIDGPVLLHV 268 (270)
T ss_dssp CCCHHCT-EEE-EEEETT-----HHHHHHHHHH-------HCCSSSEEEEEE
T ss_pred HHHHHcCCeEE-eccCCC----CHHHHHHHHHH-------HhcCCCCEEEEE
Confidence 67899999999 589998 33444444433 356689999996
No 144
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=21.16 E-value=1.3e+02 Score=25.82 Aligned_cols=28 Identities=36% Similarity=0.701 Sum_probs=19.1
Q ss_pred CCceEEEEcCCCCChhHHHHHHHHHHhcCCC
Q 006504 200 SKKYILVHCTHGHNRTGYMIVHFLMRSQSMS 230 (643)
Q Consensus 200 ~~~~VlVHC~~G~nRTG~li~aYLm~~~~~s 230 (643)
++..|+|+|..| .||. .++.+|.+ .|++
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 6764 44555554 5664
Done!