Query psy9353
Match_columns 543
No_of_seqs 453 out of 1980
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 16:58:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9353.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9353hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5226 CEG1 mRNA capping enzy 100.0 2.7E-59 5.8E-64 454.0 14.6 306 232-542 13-347 (404)
2 KOG2386|consensus 100.0 4.4E-51 9.6E-56 419.1 13.1 319 58-388 60-391 (393)
3 PF01331 mRNA_cap_enzyme: mRNA 100.0 7.5E-47 1.6E-51 363.5 17.2 187 266-453 1-192 (192)
4 cd07895 Adenylation_mRNA_cappi 100.0 2.6E-43 5.6E-48 344.8 21.6 210 244-454 3-215 (215)
5 cd06846 Adenylation_DNA_ligase 100.0 5.5E-28 1.2E-32 230.5 17.0 175 263-454 1-182 (182)
6 TIGR02779 NHEJ_ligase_lig DNA 99.9 1.7E-25 3.7E-30 229.1 18.4 228 280-530 11-293 (298)
7 PRK09247 ATP-dependent DNA lig 99.9 2E-24 4.3E-29 237.0 19.1 242 279-542 223-536 (539)
8 cd07898 Adenylation_DNA_ligase 99.9 6E-25 1.3E-29 212.9 13.2 155 279-454 19-200 (201)
9 PRK03180 ligB ATP-dependent DN 99.9 5.6E-24 1.2E-28 231.7 16.6 235 281-540 204-505 (508)
10 PHA02587 30 DNA ligase; Provis 99.9 2.2E-23 4.8E-28 226.2 19.3 235 282-540 153-486 (488)
11 cd07903 Adenylation_DNA_ligase 99.9 1.2E-23 2.6E-28 207.3 14.5 159 278-457 30-224 (225)
12 TIGR00574 dnl1 DNA ligase I, A 99.9 3.1E-23 6.7E-28 227.4 19.2 240 281-540 187-512 (514)
13 cd07897 Adenylation_DNA_ligase 99.9 1.4E-23 3E-28 204.2 13.2 158 279-456 22-206 (207)
14 PRK09632 ATP-dependent DNA lig 99.9 1.5E-22 3.2E-27 226.6 21.4 183 278-486 474-671 (764)
15 PLN03113 DNA ligase 1; Provisi 99.9 1.2E-22 2.5E-27 227.5 19.6 175 277-469 387-596 (744)
16 cd07900 Adenylation_DNA_ligase 99.9 6.5E-23 1.4E-27 201.0 12.9 160 278-455 28-218 (219)
17 PRK08224 ligC ATP-dependent DN 99.9 1.9E-22 4E-27 210.1 16.6 177 281-485 24-225 (350)
18 cd08039 Adenylation_DNA_ligase 99.9 1.3E-22 2.9E-27 200.3 14.0 177 267-455 4-234 (235)
19 PRK05972 ligD ATP-dependent DN 99.9 3.3E-22 7.2E-27 225.8 18.8 180 281-485 249-445 (860)
20 PHA00454 ATP-dependent DNA lig 99.9 8.6E-22 1.9E-26 203.2 20.1 238 263-526 6-314 (315)
21 PRK01109 ATP-dependent DNA lig 99.9 3.1E-22 6.6E-27 222.3 17.9 184 281-485 248-465 (590)
22 cd07906 Adenylation_DNA_ligase 99.9 1.4E-22 3E-27 194.6 12.8 153 280-454 15-189 (190)
23 cd09232 Snurportin-1_C C-termi 99.9 3.6E-22 7.7E-27 189.7 14.9 162 280-455 20-186 (186)
24 cd07901 Adenylation_DNA_ligase 99.9 2E-22 4.2E-27 196.2 12.0 153 280-454 24-206 (207)
25 PRK09125 DNA ligase; Provision 99.9 8.5E-22 1.9E-26 199.8 16.7 212 279-528 41-282 (282)
26 cd07905 Adenylation_DNA_ligase 99.9 4.1E-22 8.8E-27 192.0 13.6 154 280-455 15-193 (194)
27 PRK07636 ligB ATP-dependent DN 99.9 1E-21 2.3E-26 198.7 16.1 161 280-466 17-196 (275)
28 PRK09633 ligD ATP-dependent DN 99.9 1.5E-21 3.2E-26 215.6 17.2 172 280-466 15-218 (610)
29 cd07902 Adenylation_DNA_ligase 99.9 5.2E-22 1.1E-26 194.0 12.0 154 281-455 34-212 (213)
30 PTZ00393 protein tyrosine phos 99.9 7.5E-21 1.6E-25 184.7 15.0 144 29-179 81-227 (241)
31 KOG1720|consensus 99.8 6.9E-21 1.5E-25 178.7 13.0 115 59-179 92-206 (225)
32 COG1793 CDC9 ATP-dependent DNA 99.8 2E-20 4.3E-25 200.3 18.3 165 282-468 134-325 (444)
33 PTZ00242 protein tyrosine phos 99.8 1E-20 2.2E-25 177.5 13.4 116 59-178 38-155 (166)
34 PF01068 DNA_ligase_A_M: ATP d 99.8 2.7E-20 5.8E-25 180.0 10.6 155 280-453 18-202 (202)
35 PF03919 mRNA_cap_C: mRNA capp 99.8 1.1E-19 2.4E-24 157.1 9.0 85 456-542 1-92 (105)
36 smart00195 DSPc Dual specifici 99.8 3.3E-18 7.2E-23 155.4 14.0 114 59-179 24-137 (138)
37 PF00782 DSPc: Dual specificit 99.8 2E-18 4.4E-23 155.7 12.2 117 58-178 15-131 (133)
38 KOG2283|consensus 99.8 2.3E-19 5.1E-24 189.9 6.5 140 12-161 5-149 (434)
39 KOG1719|consensus 99.8 5.5E-18 1.2E-22 151.5 11.1 127 53-181 43-170 (183)
40 cd07896 Adenylation_kDNA_ligas 99.7 3.8E-18 8.3E-23 161.5 9.0 141 280-454 15-174 (174)
41 cd00127 DSPc Dual specificity 99.7 6.5E-17 1.4E-21 146.6 13.4 119 54-177 19-138 (139)
42 TIGR02776 NHEJ_ligase_prk DNA 99.7 7E-17 1.5E-21 176.8 13.2 195 308-529 1-253 (552)
43 KOG0966|consensus 99.7 3.2E-16 6.8E-21 170.5 14.4 179 262-458 225-441 (881)
44 KOG2836|consensus 99.7 1.2E-15 2.5E-20 133.4 12.1 117 54-175 33-150 (173)
45 PRK12361 hypothetical protein; 99.6 9.6E-15 2.1E-19 162.0 15.9 126 53-182 111-238 (547)
46 KOG2386|consensus 99.6 1.3E-15 2.9E-20 157.6 5.4 205 257-468 37-254 (393)
47 KOG1718|consensus 99.5 2.3E-13 5.1E-18 123.8 12.8 140 25-178 11-152 (198)
48 COG2453 CDC14 Predicted protei 99.5 2.1E-13 4.5E-18 129.9 12.4 91 74-167 62-153 (180)
49 KOG1716|consensus 99.4 2.5E-12 5.4E-17 131.3 12.4 116 58-179 97-214 (285)
50 PF05706 CDKN3: Cyclin-depende 99.4 5.9E-13 1.3E-17 122.7 5.0 111 41-154 43-168 (168)
51 KOG1717|consensus 99.4 3.5E-12 7.6E-17 123.7 10.4 117 54-178 189-309 (343)
52 KOG0967|consensus 99.3 1.7E-11 3.7E-16 131.4 14.9 174 277-468 361-569 (714)
53 smart00404 PTPc_motif Protein 99.2 1.4E-10 3E-15 99.2 11.1 90 86-176 4-101 (105)
54 smart00012 PTPc_DSPc Protein t 99.2 1.4E-10 3E-15 99.2 11.1 90 86-176 4-101 (105)
55 cd07894 Adenylation_RNA_ligase 99.1 4.8E-10 1E-14 116.6 14.2 144 281-444 48-205 (342)
56 PF03162 Y_phosphatase2: Tyros 99.1 1.2E-10 2.6E-15 109.2 5.7 110 46-160 13-130 (164)
57 PRK15375 pathogenicity island 99.0 1.5E-09 3.2E-14 115.5 11.2 94 85-178 423-526 (535)
58 cd00047 PTPc Protein tyrosine 99.0 3E-09 6.4E-14 105.1 10.9 93 84-176 129-227 (231)
59 TIGR01244 conserved hypothetic 98.9 1.7E-08 3.7E-13 91.6 10.6 99 54-161 19-125 (135)
60 smart00194 PTPc Protein tyrosi 98.8 2E-08 4.4E-13 100.9 10.5 91 85-176 158-254 (258)
61 PLN02727 NAD kinase 98.7 4.6E-08 1E-12 110.5 10.0 86 59-149 279-370 (986)
62 PF14566 PTPlike_phytase: Inos 98.6 4.7E-08 1E-12 90.3 5.8 66 75-144 83-148 (149)
63 PHA02740 protein tyrosine phos 98.6 3.5E-07 7.5E-12 94.0 11.2 86 85-170 178-276 (298)
64 PF13350 Y_phosphatase3: Tyros 98.5 1.7E-07 3.6E-12 87.9 6.6 96 59-158 40-161 (164)
65 PHA02742 protein tyrosine phos 98.5 6.1E-07 1.3E-11 92.5 11.0 88 85-172 183-286 (303)
66 PF00102 Y_phosphatase: Protei 98.5 5.5E-07 1.2E-11 88.3 10.1 85 91-176 142-231 (235)
67 PHA02747 protein tyrosine phos 98.5 7.3E-07 1.6E-11 92.3 10.9 87 85-171 184-285 (312)
68 PHA02746 protein tyrosine phos 98.5 9.1E-07 2E-11 92.0 11.7 90 85-174 202-306 (323)
69 PHA02738 hypothetical protein; 98.4 2.3E-06 4.9E-11 88.9 11.3 87 85-171 179-283 (320)
70 KOG0790|consensus 98.2 1.7E-06 3.8E-11 89.8 5.6 94 86-179 416-529 (600)
71 PF04273 DUF442: Putative phos 98.1 8.4E-06 1.8E-10 71.3 7.0 75 59-141 25-106 (110)
72 KOG0792|consensus 98.0 1.6E-05 3.5E-10 90.5 9.2 90 90-182 1034-1134(1144)
73 COG2365 Protein tyrosine/serin 97.9 4.8E-05 1E-09 76.3 8.7 68 97-165 113-180 (249)
74 KOG0791|consensus 97.9 6E-05 1.3E-09 77.4 9.4 95 84-179 251-351 (374)
75 COG5599 PTP2 Protein tyrosine 97.9 2E-05 4.3E-10 77.6 5.4 89 85-177 185-289 (302)
76 KOG1572|consensus 97.8 0.00017 3.6E-09 70.2 10.8 121 53-180 79-205 (249)
77 TIGR01209 RNA ligase, Pab1020 97.7 0.00019 4.1E-09 75.1 9.7 119 260-381 57-186 (374)
78 KOG3132|consensus 97.7 0.00081 1.8E-08 65.3 13.0 149 281-447 116-271 (325)
79 KOG0789|consensus 97.5 0.00033 7.1E-09 75.1 9.1 81 87-169 267-354 (415)
80 COG3453 Uncharacterized protei 97.0 0.0062 1.3E-07 53.3 9.9 95 53-156 19-121 (130)
81 COG1423 ATP-dependent DNA liga 97.0 0.0065 1.4E-07 62.3 11.7 137 280-439 87-236 (382)
82 PF14671 DSPn: Dual specificit 96.7 0.0032 6.9E-08 57.4 6.0 71 92-163 38-113 (141)
83 KOG4228|consensus 96.6 0.0036 7.9E-08 72.6 6.5 84 84-168 694-783 (1087)
84 COG5350 Predicted protein tyro 96.5 0.0086 1.9E-07 54.6 7.1 106 59-170 30-144 (172)
85 KOG0793|consensus 96.3 0.0077 1.7E-07 66.4 6.8 82 90-172 898-985 (1004)
86 KOG4228|consensus 95.5 0.027 5.8E-07 65.6 6.7 80 97-176 994-1079(1087)
87 PF09414 RNA_ligase: RNA ligas 95.2 0.14 3E-06 48.7 9.9 153 282-453 2-186 (186)
88 PF01653 DNA_ligase_aden: NAD- 95.1 0.085 1.8E-06 54.8 8.5 153 282-455 108-313 (315)
89 smart00532 LIGANc Ligase N fam 94.4 1 2.2E-05 49.0 15.0 173 282-475 104-331 (441)
90 cd00114 LIGANc NAD+ dependent 93.9 0.55 1.2E-05 48.6 11.1 152 281-455 101-306 (307)
91 PF05098 LEF-4: Late expressio 93.7 4.2 9E-05 43.9 17.4 203 281-532 234-450 (450)
92 TIGR00575 dnlj DNA ligase, NAD 93.3 1.6 3.4E-05 50.0 14.6 171 282-475 97-324 (652)
93 PRK07956 ligA NAD-dependent DN 92.9 2.2 4.7E-05 48.9 14.8 173 282-475 109-336 (665)
94 PRK14351 ligA NAD-dependent DN 92.7 2.2 4.8E-05 49.0 14.7 171 282-475 133-358 (689)
95 KOG3673|consensus 92.1 0.23 5E-06 53.8 5.3 65 350-420 657-721 (845)
96 PRK14350 ligA NAD-dependent DN 91.9 4.4 9.6E-05 46.4 15.7 174 281-475 110-333 (669)
97 PHA02142 putative RNA ligase 91.6 2.3 5E-05 44.9 12.1 100 280-381 168-298 (366)
98 PRK08097 ligB NAD-dependent DN 90.4 9.5 0.00021 42.8 16.1 169 282-475 119-328 (562)
99 PF14743 DNA_ligase_OB_2: DNA 88.5 0.35 7.6E-06 38.3 2.3 53 472-525 3-66 (66)
100 TIGR02307 RNA_lig_RNL2 RNA lig 87.7 4.6 9.9E-05 42.0 10.5 101 278-380 22-144 (325)
101 cd01518 RHOD_YceA Member of th 87.0 1.9 4.1E-05 36.4 6.2 41 106-149 47-87 (101)
102 TIGR02306 RNA_lig_DRB0094 RNA 83.1 13 0.00028 39.1 11.3 98 280-381 158-277 (341)
103 PF04179 Init_tRNA_PT: Initiat 82.7 18 0.00039 39.5 12.7 85 58-147 315-403 (451)
104 PRK01415 hypothetical protein; 80.0 4.3 9.4E-05 40.7 6.3 102 30-149 92-197 (247)
105 PRK00142 putative rhodanese-re 75.5 5 0.00011 41.7 5.5 44 103-149 154-197 (314)
106 cd01523 RHOD_Lact_B Member of 75.4 6.3 0.00014 33.0 5.2 29 118-149 59-87 (100)
107 PRK05320 rhodanese superfamily 72.9 7.6 0.00017 39.2 5.9 70 63-149 132-201 (257)
108 COG0272 Lig NAD-dependent DNA 71.5 1E+02 0.0022 35.2 14.7 173 280-475 108-336 (667)
109 cd08041 OBF_kDNA_ligase_like T 66.3 21 0.00044 28.9 6.1 64 459-525 2-77 (77)
110 PF06602 Myotub-related: Myotu 61.6 33 0.00072 36.3 8.2 24 118-141 229-252 (353)
111 KOG4471|consensus 60.7 18 0.00038 40.4 6.0 25 119-143 373-397 (717)
112 COG1054 Predicted sulfurtransf 59.5 32 0.00069 35.3 7.2 117 15-148 72-197 (308)
113 cd01448 TST_Repeat_1 Thiosulfa 54.0 35 0.00076 29.5 5.9 30 118-149 77-106 (122)
114 COG0607 PspE Rhodanese-related 49.9 22 0.00047 29.8 3.8 29 118-149 59-87 (110)
115 PLN02160 thiosulfate sulfurtra 43.9 27 0.00059 31.4 3.6 76 63-149 30-107 (136)
116 cd01533 4RHOD_Repeat_2 Member 43.8 47 0.001 28.1 5.0 28 118-148 64-91 (109)
117 cd01522 RHOD_1 Member of the R 43.8 48 0.001 28.7 5.1 29 118-149 62-90 (117)
118 TIGR03865 PQQ_CXXCW PQQ-depend 41.3 45 0.00097 31.0 4.7 30 118-149 114-143 (162)
119 cd05567 PTS_IIB_mannitol PTS_I 39.2 30 0.00065 28.5 2.9 20 122-142 2-21 (87)
120 cd08621 PI-PLCXDc_like_2 Catal 38.7 52 0.0011 34.0 5.1 34 101-134 86-119 (300)
121 PF10640 Pox_ATPase-GT: mRNA c 37.5 2E+02 0.0043 29.6 8.8 94 241-342 181-282 (313)
122 cd08616 PI-PLCXD1c Catalytic d 37.2 66 0.0014 33.0 5.6 30 103-132 98-127 (290)
123 cd08619 PI-PLCXDc_plant Cataly 37.0 97 0.0021 31.8 6.7 49 83-132 68-121 (285)
124 cd00137 PI-PLCc Catalytic doma 35.6 1.1E+02 0.0023 31.1 6.9 49 83-131 46-103 (274)
125 KOG2947|consensus 35.0 4.9E+02 0.011 26.3 11.1 103 61-167 106-221 (308)
126 cd08587 PI-PLCXDc_like Catalyt 34.6 65 0.0014 32.8 5.1 31 102-132 92-122 (288)
127 PF00581 Rhodanese: Rhodanese- 33.5 91 0.002 25.8 5.2 82 59-149 10-98 (113)
128 cd08586 PI-PLCc_BcPLC_like Cat 33.2 82 0.0018 32.1 5.6 39 95-133 66-104 (279)
129 PF04679 DNA_ligase_A_C: ATP d 32.6 45 0.00098 28.0 3.0 20 509-528 71-97 (97)
130 KOG4306|consensus 31.7 97 0.0021 32.0 5.6 52 83-134 78-140 (306)
131 cd08557 PI-PLCc_bacteria_like 31.6 87 0.0019 31.1 5.4 31 102-132 79-109 (271)
132 COG0422 ThiC Thiamine biosynth 31.4 1.2E+02 0.0026 32.3 6.3 104 58-181 88-219 (432)
133 cd08590 PI-PLCc_Rv2075c_like C 30.8 98 0.0021 31.4 5.6 31 102-132 88-118 (267)
134 cd01447 Polysulfide_ST Polysul 30.0 67 0.0015 26.5 3.7 29 118-149 59-87 (103)
135 smart00148 PLCXc Phospholipase 29.6 1.6E+02 0.0035 26.4 6.3 31 101-131 68-98 (135)
136 cd01532 4RHOD_Repeat_1 Member 29.3 83 0.0018 25.8 4.1 29 119-148 49-77 (92)
137 KOG3824|consensus 28.6 2.3E+02 0.0049 29.6 7.6 69 80-149 314-397 (472)
138 cd01520 RHOD_YbbB Member of th 27.4 1.5E+02 0.0033 25.9 5.7 30 118-149 84-113 (128)
139 PF03668 ATP_bind_2: P-loop AT 27.2 92 0.002 31.9 4.6 19 121-139 243-261 (284)
140 cd01443 Cdc25_Acr2p Cdc25 enzy 26.9 1.3E+02 0.0029 25.5 5.1 20 118-137 64-83 (113)
141 cd01528 RHOD_2 Member of the R 26.1 1.5E+02 0.0034 24.4 5.2 29 118-149 56-84 (101)
142 PF00388 PI-PLC-X: Phosphatidy 25.6 84 0.0018 28.4 3.7 32 101-132 66-97 (146)
143 cd01519 RHOD_HSP67B2 Member of 25.5 89 0.0019 26.0 3.7 28 119-149 65-92 (106)
144 cd08620 PI-PLCXDc_like_1 Catal 24.4 1.2E+02 0.0025 31.2 4.8 28 102-129 77-104 (281)
145 PF00255 GSHPx: Glutathione pe 24.4 1.3E+02 0.0028 26.1 4.5 56 54-109 15-80 (108)
146 KOG1089|consensus 23.7 1.3E+02 0.0028 33.8 5.2 23 119-141 343-365 (573)
147 cd01530 Cdc25 Cdc25 phosphatas 23.6 1.4E+02 0.0031 26.0 4.7 26 118-144 66-91 (121)
148 COG4096 HsdR Type I site-speci 23.2 4.6E+02 0.01 31.0 9.6 65 98-164 165-242 (875)
149 cd01526 RHOD_ThiF Member of th 23.0 1E+02 0.0022 26.7 3.7 28 118-148 70-97 (122)
150 cd01529 4RHOD_Repeats Member o 22.7 99 0.0022 25.4 3.4 29 118-149 54-82 (96)
151 cd01525 RHOD_Kc Member of the 22.4 1.4E+02 0.003 24.7 4.3 28 119-149 64-91 (105)
152 PF14555 UBA_4: UBA-like domai 22.4 1.1E+02 0.0023 21.7 3.0 23 138-160 17-39 (43)
153 PRK05416 glmZ(sRNA)-inactivati 21.8 1.3E+02 0.0028 30.9 4.6 36 103-138 219-263 (288)
154 cd01449 TST_Repeat_2 Thiosulfa 21.4 1.8E+02 0.004 24.6 4.9 28 119-149 77-104 (118)
155 PRK13352 thiamine biosynthesis 20.9 2.7E+02 0.0058 30.1 6.7 104 58-181 87-221 (431)
156 PF02302 PTS_IIB: PTS system, 20.9 85 0.0018 25.5 2.6 18 122-140 1-18 (90)
157 cd01444 GlpE_ST GlpE sulfurtra 20.7 2.2E+02 0.0048 22.9 5.1 28 118-148 54-81 (96)
158 cd01534 4RHOD_Repeat_3 Member 20.6 1.3E+02 0.0028 24.7 3.6 28 119-149 55-82 (95)
159 COG1660 Predicted P-loop-conta 20.0 1.3E+02 0.0028 30.6 4.0 37 103-139 217-262 (286)
No 1
>COG5226 CEG1 mRNA capping enzyme, guanylyltransferase (alpha) subunit [RNA processing and modification]
Probab=100.00 E-value=2.7e-59 Score=454.01 Aligned_cols=306 Identities=32% Similarity=0.476 Sum_probs=260.4
Q ss_pred CCcceeccChHHHHHHHHHHHHHhCCC--CCCCCCCeeeccccccccccccCCcEEEEcCCceEEEEEEEe-----CCeE
Q psy9353 232 VSGVKALYDEDKIVQLQNEIKDLCNYE--RVGFPGSQPVSMDRNNIGYLAEKKYMVSWKADGTRYMMYIKN-----ADEI 304 (543)
Q Consensus 232 v~g~~~~~d~~~~~~l~~~v~~~~~~~--~~~FPG~qPVsl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~-----~~~v 304 (543)
+||+.++.| .++.|+.+|.++++.. ...|||||||||+.+|++.|..++|+||||+||+|+||+++. .-++
T Consensus 13 ~pG~~~P~d--i~~~Lkt~i~klL~~~~P~~tFpGsqPVsf~~~~i~~Ll~~dy~VCEKsDGvR~Ll~vte~p~tg~~~~ 90 (404)
T COG5226 13 RPGNKVPPD--IAEALKTKIYKLLCITEPRETFPGSQPVSFTLDNIGLLLNNDYLVCEKSDGVRALLLVTEEPVTGAFRG 90 (404)
T ss_pred cCCCcCCch--HHHHHHHHHHHHhCCCCCcccCCCCcceeeehhhHHHHHhCCeEEEEccCCeEEEEEEEecccCCCcce
Confidence 578766655 7899999999999975 388999999999999999999999999999999999999873 3469
Q ss_pred EEEECCCCeeEecCccCCCCCC---CCcCCCCeEEEEEEEEeccC--CccccEEEEEEEEEECCccccCCCHHHHHHHHH
Q psy9353 305 YFTDRDFSMYKISGLTFPHRKD---PNKRLTNTLLDGEMVIDRVQ--GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIK 379 (543)
Q Consensus 305 yLidR~~~~~~v~~~~fP~~~~---~~~~~~~tlLDGElV~d~~~--~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~ 379 (543)
||+||.|++|.+.+..||.... ....+.+|+||||+|.|... +-+++||++||||+++|.-++.++..+|++.|+
T Consensus 91 y~~DR~nnfY~v~~~f~p~~~~~k~ge~l~~dtlldgelV~d~~p~~k~~qlryl~fdcLa~~g~~~~~~~~s~Rl~~l~ 170 (404)
T COG5226 91 YFYDRRNNFYEVHTSFPPCSTVLKDGEVLLEDTLLDGELVFDCLPYEKVPQLRYLLFDCLAYAGMFVERMEKSERLKTLQ 170 (404)
T ss_pred EEEeccCceEEeccccCCcccccccCcEEeccceecceEEEEeccccchHHHHHHHHHHhhhcceeEeecchhhHHHHhh
Confidence 9999999999998887775533 22346899999999998653 335789999999999999999999999999999
Q ss_pred HhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccc-cccCCceEEEeeCCCCcccCCCcceEEecCCcce
Q psy9353 380 VEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFT-LCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMN 458 (543)
Q Consensus 380 ~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~-~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~n 458 (543)
+++.+|+.......+++...-||.+.+|.+...++.-++++ +++ ++|++|||||||.+.||..|++..+|||||.++|
T Consensus 171 Ke~~kp~~~~r~s~~~~~~~fpf~~s~K~M~~syg~~ki~k-~ip~L~HgnDGLIFTp~~~PY~~Gkd~~lLKWKP~~~N 249 (404)
T COG5226 171 KEDEKPRERKRVSIEIDSGSFPFHFSVKQMLKSYGFWKIYK-KIPELKHGNDGLIFTPADEPYSVGKDGALLKWKPASLN 249 (404)
T ss_pred hhhcccHhhhhheeeccccccceeeeHHHHHhhhhHHHHHh-hcccccCCCCceEeccCCCCcccCccceeeecCccccC
Confidence 99999998877777778888999999999999999888887 677 9999999999999999999999999999999999
Q ss_pred eEEEEEEEEee-cCCC-----ccccceeeEeec-cCCcccccceeEEccc----c----cccCCcEEEEEEe-CCeeEEE
Q psy9353 459 SIDFLMKIETR-SGLG-----ILPTKVGKLYAG-SNRSQQQFAEMKITKA----T----KDLDGKIVECKWE-NNQWVFM 522 (543)
Q Consensus 459 tvDF~l~~~~~-~~~g-----~~~~~~~~L~v~-~~~~~~~f~~~~~t~e----~----~~~~g~IvEc~~~-~g~W~f~ 522 (543)
||||++.+... ...| ..|. ..|+|. |.+.+..|+.+++.++ + .++.++||||..+ .|.|+++
T Consensus 250 TiDF~lvl~~~~~e~~Dyny~~~p~--f~l~Vw~gRk~yrfFa~~~v~d~ew~~lk~~~~pl~~rivEc~l~~e~~W~~l 327 (404)
T COG5226 250 TIDFRLVLHKKWSEVDDYNYVCSPK--FGLDVWFGRKTYRFFASGEVIDGEWCELKYDCDPLYWRIVECVLKKEGAWKLL 327 (404)
T ss_pred ceeeeeeeccccccccCcceeeccc--ccccEEecccceeeeeeeEechHHHHHHhhhcccchhhHHHHHhccCCceEEE
Confidence 99999988643 1111 2232 345553 3344667888877653 2 5899999999999 4569999
Q ss_pred EeeCCCCCCChHHHHHHhhc
Q psy9353 523 RERTDKSFPNAVETAMGEWN 542 (543)
Q Consensus 523 R~R~DK~~pN~~~t~~~v~~ 542 (543)
|+|+||.+|||++||.+|++
T Consensus 328 rfRdDK~~~NhisvV~~VLe 347 (404)
T COG5226 328 RFRDDKDTPNHISVVCNVLE 347 (404)
T ss_pred EeecCCCCCchhhHHHHHHH
Confidence 99999999999999999986
No 2
>KOG2386|consensus
Probab=100.00 E-value=4.4e-51 Score=419.10 Aligned_cols=319 Identities=38% Similarity=0.602 Sum_probs=271.4
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHh--hCCCCeEEEEcCCCCChhH
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFIS--KSPLEKIGVHCTHGFNRTG 135 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~--~~~~~~V~VHC~~G~~RTG 135 (543)
.+..+++|||||+|.+||+..+++..|+.|+++.|.||+.+|+.+.+..|++++++|.. +.+++.|+|||+||+||||
T Consensus 60 ~~~~vgl~iDltnt~ryy~~~~~~~~g~~Y~K~~c~g~~~vp~~~~v~~fv~~v~~f~~~~~~~~~LI~vhcthG~Nrtg 139 (393)
T KOG2386|consen 60 HNYKVGLKIDLTNTLRYYDKPELEERGVKYLKRNCPGRGVVPRTELVDKFVKLVKGFVDDTKLDDELIGVHCTHGLNRTG 139 (393)
T ss_pred cCceEEEEEeccceeeeeccccccccceeEEEeccCCcccCCCccchHHHHHHHHHHHhcccCCCCEEEEeCCCcccccc
Confidence 46899999999999999998899999999999999999999999999999999999998 5789999999999999999
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCCCC----CCCCCCCCCCcccCc---CccCCCCCCC
Q psy9353 136 FLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDDVPC----NLPAPPSYDDSEASS---SSKSHHSNNS 208 (543)
Q Consensus 136 ~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~~~~----~~~~p~~~~~~~~~~---~~~~~~~~~~ 208 (543)
+|||+||+..++|+..+|++.|+.+|+++|++++|+++||.+|++..+ +|..|.|..+..... .-.++++...
T Consensus 140 yLI~~yL~~~~~~s~~~aik~f~~~r~~gi~k~dyi~~L~~~~~~~~p~~vs~p~~~~~~~~~~~~~~~~~~~~~Dg~i~ 219 (393)
T KOG2386|consen 140 YLICAYLADVGGYSSSEAIKRFADARPPGIEKQDYIDALYSRYHDIFPFKVSCPSMPDWKRSIKLKKPVHKLHGNDGLIF 219 (393)
T ss_pred eeeeeeeeeccCccHHHHHHHHHHhCCCccCchHHHHHHhhcccccccccccCCCCcchhhhhhhccccccccccCCCcC
Confidence 999999999999999999999999999999999999999999999773 344455522211000 0011222211
Q ss_pred CCC-Ccc-ccccccccCCCCCccCC--CCcceeccChHHHHHHHHHHHHHhCCCCCCCCCCeeeccccccccccccCCcE
Q psy9353 209 SHS-NSR-NRNNKSRIAKNPTFMPG--VSGVKALYDEDKIVQLQNEIKDLCNYERVGFPGSQPVSMDRNNIGYLAEKKYM 284 (543)
Q Consensus 209 ~~~-~~~-~~~~~~~~~~~~~~~~~--v~g~~~~~d~~~~~~l~~~v~~~~~~~~~~FPG~qPVsl~r~~l~~l~~~~y~ 284 (543)
+.. ..+ ...+.+.+.+...|+.+ ++|+.+..+++....++...... |+|||| |.|++.+....|.
T Consensus 220 t~~~~pg~~~g~~~~~~k~k~~~~n~~~~~~~~~~~q~~~~~l~~~~~~~---------g~~~~~--r~~~~~~~~~~y~ 288 (393)
T KOG2386|consen 220 TPAEIPGSKNGKQEALLKWKPFSLNTIDFGVKLEKPQPELGDLQCKRKNE---------GAQPVS--RENYKLLVFEYYE 288 (393)
T ss_pred CcccCccccccchhhhhcCCchhcCCcccceeecCCCCCccchhhhhccc---------ccCCcc--ccchhhhhhhhhh
Confidence 110 113 24556667777888877 89999988888888877766555 999999 9999999999999
Q ss_pred EEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCCCCeEEEEEEEEeccCCccccEEEEEEEEEECCc
Q psy9353 285 VSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRLTNTLLDGEMVIDRVQGQNIPRYLVYDIIRFDNN 364 (543)
Q Consensus 285 v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~~~tlLDGElV~d~~~~~~~~~ylifDil~~~G~ 364 (543)
++||+||+||++++++++.+|++||.+.++...+++|+.......++..||+||||++|+..+...+||++||++.+|++
T Consensus 289 ~~We~dg~~~~~L~~~~~~~~~~dR~~~~~~~~~~~~~~~~~~~~~~~~tl~dge~~lD~l~~~~~~r~l~Yd~~r~n~~ 368 (393)
T KOG2386|consen 289 ASWEADGTRYMMLIDGDGEYYDFDRWRFVKGRENLRKIREDSDTKVLHQTLLDGEMILDRLKEEAIPRYLIYDMVRFNSQ 368 (393)
T ss_pred hhhcccCcEEEEEecCCceeEechhhhHHHhhhhhhcccccccchhhhhhhcccceeccccccccchhheeeeeeeccCc
Confidence 99999999999999988889999999998888788888766666777899999999999877666889999999999999
Q ss_pred cccCCCHHHHHHHHHHhhhhhhHH
Q psy9353 365 DVTRQKFTTRIQIIKVEIIEPRHR 388 (543)
Q Consensus 365 ~v~~~p~~eR~~~L~~~i~~p~~~ 388 (543)
++...||. |++++.++|+.||..
T Consensus 369 ~v~~~~f~-r~~~~~~evi~~r~~ 391 (393)
T KOG2386|consen 369 KVEKRPFS-RWQIIEKEVIDPREL 391 (393)
T ss_pred ccccCcch-HHHHHHHHhcCchhc
Confidence 99999999 999999999999864
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=7.5e-47 Score=363.50 Aligned_cols=187 Identities=44% Similarity=0.822 Sum_probs=161.4
Q ss_pred eeeccccccccccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCC--CCcCCCCeEEEEEEEEe
Q psy9353 266 QPVSMDRNNIGYLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKD--PNKRLTNTLLDGEMVID 343 (543)
Q Consensus 266 qPVsl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~--~~~~~~~tlLDGElV~d 343 (543)
|||||+|+|++.|.+++|+||||+||+||||+++.. ++||+||+++++.++++.||...+ ...++.+||||||||.|
T Consensus 1 qPVS~~r~~l~~l~~~~Y~V~eKaDG~Ryll~i~~~-~~ylidr~~~~~~v~~~~~p~~~~~~~~~~~~~TLLDGElV~d 79 (192)
T PF01331_consen 1 QPVSFSRKNLQLLQQKDYFVCEKADGTRYLLLITDN-GVYLIDRKNNVFKVDNLHFPSKKDSSDGRHHQDTLLDGELVLD 79 (192)
T ss_dssp EEEE--TTGHHHHHHS-EEEEEEESSEEEEEEEEEE-EEEEEETTS-EEEESSST-ECTTC--TTCEGCSEEEEEEEEEE
T ss_pred CCcccchhhHHHHhhCCcEEEECCCCcEEEEEEecc-eEEEEeCCCcEEEecCcccccccccccccccCCEEEEEEEEcc
Confidence 899999999999999999999999999999999864 899999999999998899998754 45677999999999999
Q ss_pred ccCCccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHh-hhhccccCCCCeEEEeccccchhhHhhhhccc
Q psy9353 344 RVQGQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAM-ENSRINKLAEPFSVRVKDFWSVDKAGYLLSDK 422 (543)
Q Consensus 344 ~~~~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~-~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~ 422 (543)
...+...++|+|||||+++|++++++||.+|+++|++.|+.|+.... +++....+.+||.++.|+|++++.+++++...
T Consensus 80 ~~~~~~~~~flifD~l~~~G~~v~~~~~~~Rl~~l~~~i~~p~~~~~~~~~~~~~~~~pf~i~~K~~~~~~~~~~~~~~~ 159 (192)
T PF01331_consen 80 KDPGEKKPRFLIFDILAINGQNVTDKPLDERLAYLQEEIIEPRKNAELKSGIIKKKKEPFSIRIKDFFPIYQIEKLLFEE 159 (192)
T ss_dssp ECTTCEEEEEEEEEEEEETTEEGCCSBHHHHHHHHHHHTHHHHHHHHCHTTSCTCTTSSSEEEE---EEGGGHHHHCHHC
T ss_pred cCCCCCceEEEEEeeehhCCcEeccCCHHHHHHHHHHHHHHHHHhhccccccccccccceeeeccccHHHHhhHHHHHHH
Confidence 87767789999999999999999999999999999999999999886 77788888899999999999999999855434
Q ss_pred cc--cccCCceEEEeeCCCCcccCCCcceEEec
Q psy9353 423 FT--LCHEPDGLIFQPVDEPYVMGKAVDTLKWK 453 (543)
Q Consensus 423 ~~--~~h~~DGLIf~~~~spY~~G~~~~~lKWK 453 (543)
+. ++|++|||||||.+.||++|||..+||||
T Consensus 160 ~~~~l~h~~DGLIFtp~~~pY~~Gt~~~llKWK 192 (192)
T PF01331_consen 160 FIPKLPHETDGLIFTPVNTPYVPGTCPNLLKWK 192 (192)
T ss_dssp CCCCTTSTEEEEEEEESSSB--SEEEEEEEEE-
T ss_pred hhccCCCCCCEEEEecCCCCccCCCCCccEeeC
Confidence 44 99999999999999999999999999998
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=2.6e-43 Score=344.82 Aligned_cols=210 Identities=46% Similarity=0.871 Sum_probs=182.1
Q ss_pred HHHHHHHHHHHh-CCCCCCCCCCeeeccccccccccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCC
Q psy9353 244 IVQLQNEIKDLC-NYERVGFPGSQPVSMDRNNIGYLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFP 322 (543)
Q Consensus 244 ~~~l~~~v~~~~-~~~~~~FPG~qPVsl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP 322 (543)
..+|+..++++| .++..+|||||||||+|+|+..+...+|+||||+||+|++|++++.+++||+||+++++.+....++
T Consensus 3 ~~~l~~~~~~~~~~~~~~~FpG~~pvs~~~~~~~~~~~~~y~ve~K~DG~R~~l~~~~~~~v~l~sR~~~~~~~~~~~~~ 82 (215)
T cd07895 3 LSELRRKVAELCPGWERGGFPGSQPVSFSRKNLELLKQNDYFVCEKSDGVRYLLLITGRGEVYLIDRKNDVFKVPGLFFP 82 (215)
T ss_pred HHHHHHHHHHHhcccCCCCCCCCCccCccHHHHHHHhhCCeEEEEeEcCeEEEEEEecCCcEEEEeCCCCeEEeccccCC
Confidence 468999999999 6778999999999999999999999999999999999999999753699999999998865432233
Q ss_pred CCCCCCcCCCCeEEEEEEEEeccCCccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCe
Q psy9353 323 HRKDPNKRLTNTLLDGEMVIDRVQGQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPF 402 (543)
Q Consensus 323 ~~~~~~~~~~~tlLDGElV~d~~~~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf 402 (543)
+.........+|+||||||.+..+++.+++|+|||||+++|+++++.||.+|+++|++.+..++...+..++......+|
T Consensus 83 ~~~~~~~~~~~~ilDGElv~~~~~~~~~~~~~vFDiL~~~g~~l~~~pl~~R~~~L~~~i~~~~~~~~~~~~~~~~~~~~ 162 (215)
T cd07895 83 RRKNLEPHHQGTLLDGELVIDKVPGKKRPRYLIFDILAFNGQSVTEKPLSERLKYIKKEVIEPRNELLKKGPIDKAKEPF 162 (215)
T ss_pred CcccccccccCeeeEEEEEEEcCCCceEEEEEEEEEEEECCcCccCCCHHHHHHHHHHhchhHHHHhhhcChhhcCCCCe
Confidence 22223344578999999999876556778999999999999999999999999999999988877666556666778899
Q ss_pred EEEeccccchhhHhhhhccccc--cccCCceEEEeeCCCCcccCCCcceEEecC
Q psy9353 403 SVRVKDFWSVDKAGYLLSDKFT--LCHEPDGLIFQPVDEPYVMGKAVDTLKWKP 454 (543)
Q Consensus 403 ~i~~k~~~~~~~~~~ll~~~~~--~~h~~DGLIf~~~~spY~~G~~~~~lKWKp 454 (543)
.|+.|+|++++.++++++. +. +.|++|||||||.++||.+||+..||||||
T Consensus 163 ~i~~k~~~~~~~~~~~~~~-~~~~~~~~~EGlIfk~~~~~Y~~Gr~~~~lKwKp 215 (215)
T cd07895 163 SVRLKDFFPLYKIEKLFEK-IIPKLPHENDGLIFTPNDEPYVPGTDKNLLKWKP 215 (215)
T ss_pred EEEecceEeHHhHHHHHHh-ccccCCCCCCCEEEccCCCCccCccCCcceeeCC
Confidence 9999999999999999984 43 899999999999999999999999999998
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=99.96 E-value=5.5e-28 Score=230.47 Aligned_cols=175 Identities=21% Similarity=0.282 Sum_probs=138.4
Q ss_pred CCCeeeccccccccccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCC--CCcCCCCeEEEEEE
Q psy9353 263 PGSQPVSMDRNNIGYLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKD--PNKRLTNTLLDGEM 340 (543)
Q Consensus 263 PG~qPVsl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~--~~~~~~~tlLDGEl 340 (543)
|.++|+|+.+.+...+...+|+|++|+||+|+++++++ ++++++||++..+. ..||.... +.....+++|||||
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~e~K~DG~R~~~~~~~-~~v~~~sR~g~~~~---~~~~~~~~~~~~~~~~~~ilDGEl 76 (182)
T cd06846 1 PQLLNPILEEALSEYDEQDEYYVQEKYDGKRALIVALN-GGVFAISRTGLEVP---LPSILIPGRELLTLKPGFILDGEL 76 (182)
T ss_pred CCccchhhhHHHhhccccCcEEEEEccCceEEEEEEcC-CeEEEEeCCCCEEe---cccccccchHHhccCCCeeEEEEE
Confidence 56789999999776677889999999999999999974 79999999999773 34554321 22345789999999
Q ss_pred EEeccC-CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhh--Hhh
Q psy9353 341 VIDRVQ-GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDK--AGY 417 (543)
Q Consensus 341 V~d~~~-~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~--~~~ 417 (543)
|+.... +...++|++||+|+++|.+++++||.+|+++|++.+..... ..++.+..+..++... +..
T Consensus 77 v~~~~~~~~~~~~~~~FDil~~~~~~~~~~p~~eR~~~L~~~v~~~~~-----------~~~~~i~~~~~~~~~~~~~~~ 145 (182)
T cd06846 77 VVENREVANPKPTYYAFDVVPLSGVGLRDLPYSDRFAYLKSLLKEFEG-----------LDPVKLVPLENAPSYDETLDD 145 (182)
T ss_pred EeccCCCccceeEEEEEEEEEECCCccccCCHHHHHHHHHHHhhhhcc-----------CCceeEEEeecccccchHHHH
Confidence 986432 34568999999999999999999999999999987753211 1456676666665544 345
Q ss_pred hhccccccccCCceEEEeeCCCCc--ccCCCcceEEecC
Q psy9353 418 LLSDKFTLCHEPDGLIFQPVDEPY--VMGKAVDTLKWKP 454 (543)
Q Consensus 418 ll~~~~~~~h~~DGLIf~~~~spY--~~G~~~~~lKWKp 454 (543)
+++. ...|+.||||||+.++|| .+|++..|+||||
T Consensus 146 ~~~~--~~~~g~EGvi~K~~~s~Y~~~~gr~~~wlK~Kp 182 (182)
T cd06846 146 LLEK--LKKKGKEGLVFKHPDAPYKGRPGSSGNQLKLKP 182 (182)
T ss_pred HHHH--hhhcCCceEEEEcCCCCccccCCCCCceEeecC
Confidence 5541 267999999999999999 9999999999998
No 6
>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=99.93 E-value=1.7e-25 Score=229.14 Aligned_cols=228 Identities=19% Similarity=0.290 Sum_probs=155.7
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcC--CCCeEEEEEEEEeccCC----------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKR--LTNTLLDGEMVIDRVQG---------- 347 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~--~~~tlLDGElV~d~~~~---------- 347 (543)
..+|++++|+||+|++++++ ++++.|++|+++.+ +..||+...+... ..+++||||||+...+|
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 GDDWRYEVKYDGYRCLARIE-GGKVRLISRNGHDW---TEKFPILAAALAALPILPAVLDGEIVVLDESGRSDFSALQNR 86 (298)
T ss_pred CCCEEEEEEEceEEEEEEEe-CCEEEEEeCCCCch---HhHhHHHHHHHHhCCCCcEEEEeEEEEECCCCCCCHHHHHhh
Confidence 35799999999999999997 47999999999976 3578876543222 25899999999842211
Q ss_pred -----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccc
Q psy9353 348 -----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDK 422 (543)
Q Consensus 348 -----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~ 422 (543)
..++.|++||||+++|++++++||.+|+++|++.+. +. ..+..+..........+.++++
T Consensus 87 ~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~l~~-~~------------~~~~~~~~~~~~~~~~~~~~~~-- 151 (298)
T TIGR02779 87 LRAGRDRPATYYAFDLLYLDGEDLRDLPLSERKKLLEELLK-AI------------KGPLAPDRYSVHFEGDGQALLE-- 151 (298)
T ss_pred hhcCCCCceEEEEEeeeeECceehhcCCHHHHHHHHHHHhc-cc------------CCCceeEecccCchhHHHHHHH--
Confidence 135689999999999999999999999999998553 21 0111122101122234556665
Q ss_pred cccccCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeeccCC--ccccccee--EE
Q psy9353 423 FTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAGSNR--SQQQFAEM--KI 498 (543)
Q Consensus 423 ~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~~~--~~~~f~~~--~~ 498 (543)
.+..++.||||+|..+|+|.+|++..|+|+|+ ..+.|++|. ....+.|.- ..+|.|.++-.+ ....++.+ ++
T Consensus 152 ~~~~~g~EGiv~K~~ds~Y~~Grs~~WlK~K~--~~~~d~vV~-G~~~g~g~~-~~~gslll~~~~~~~l~~vg~vgsG~ 227 (298)
T TIGR02779 152 AACRLGLEGVVAKRRDSPYRSGRSADWLKLKC--RRRQEFVIG-GYTPPNGSR-SGFGALLLGVYEGGGLRYVGRVGTGF 227 (298)
T ss_pred HHHHcCCceEEEeCCCCCCCCCCCCCcEEEcc--CCCCEEEEE-EEECCCCCC-CccceEEEEEECCCeEEEEeEecCCC
Confidence 23789999999999999999999788999998 468888764 333344422 345777766321 11122222 34
Q ss_pred ccc--------cccc----------C---------CcEEEEEEe----CCe---eEEEEeeCCCCC
Q psy9353 499 TKA--------TKDL----------D---------GKIVECKWE----NNQ---WVFMRERTDKSF 530 (543)
Q Consensus 499 t~e--------~~~~----------~---------g~IvEc~~~----~g~---W~f~R~R~DK~~ 530 (543)
+++ +.++ . ..|+|+.|. +|. .+|.|+|.||+-
T Consensus 228 s~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~wv~P~lV~eV~~~~~t~~~~lR~P~~~~~R~Dk~~ 293 (298)
T TIGR02779 228 SEAELATIKERLKPLESKPDKPGAREKRGVHWVKPELVAEVEFAGWTRDGRLRQASFVGLREDKPA 293 (298)
T ss_pred CHHHHHHHHHHHHhhccCcCCCCcccCCCCEEeCCeEEEEEEecccCCCCeEeccEEEeeeCCCCH
Confidence 331 1111 1 147999997 233 789999999973
No 7
>PRK09247 ATP-dependent DNA ligase; Validated
Probab=99.92 E-value=2e-24 Score=236.96 Aligned_cols=242 Identities=20% Similarity=0.298 Sum_probs=164.0
Q ss_pred ccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCC-CCeEEEEEEEEec--cCC--------
Q psy9353 279 AEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRL-TNTLLDGEMVIDR--VQG-------- 347 (543)
Q Consensus 279 ~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~-~~tlLDGElV~d~--~~~-------- 347 (543)
...+|++++|+||+|++++.. ++++++++|+++.+ +..||+..++..++ .++|||||||+.. .++
T Consensus 223 ~~~~~~~E~K~DG~R~qih~~-~~~v~lfSR~g~d~---t~~fPei~~~~~~l~~~~ILDGElv~~~~~~~~~~~F~~l~ 298 (539)
T PRK09247 223 DPADWQAEWKWDGIRVQLVRR-GGEVRLWSRGEELI---TERFPELAEAAEALPDGTVLDGELLVWRPEDGRPQPFADLQ 298 (539)
T ss_pred CCCcEEEEEeEcceEEEEEEe-CCEEEEEeCCCccc---hhhhHHHHHHHHhCCCCEEEEeEEEEEECCCCCcCCHHHHH
Confidence 345899999999999999886 47999999999976 46899876532333 4699999999843 110
Q ss_pred --------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecccc---
Q psy9353 348 --------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFW--- 410 (543)
Q Consensus 348 --------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~--- 410 (543)
+.++.|++||||++||+++++.||.+|+++|++.+.. .. ...+. ..+..
T Consensus 299 ~R~~rk~~~~~~~~~~pv~~~vFDiL~l~g~~l~~~Pl~eRr~~L~~~~~~-~~-----------~~~i~--~~~~~~~~ 364 (539)
T PRK09247 299 QRIGRKTVGKKLLADYPAFLRAYDLLEDGGEDLRALPLAERRARLEALIAR-LP-----------DPRLD--LSPLVPFS 364 (539)
T ss_pred HHhcccccchhhhhcCCeEEEEEEeeeeCCcchhhCCHHHHHHHHHHHhcc-cC-----------CCeEE--ecCceecC
Confidence 1246899999999999999999999999999986631 10 01111 11111
Q ss_pred chhhHhhhhccccccccCCceEEEeeCCCCcccCCC-cceEEecCCcceeEEEEEEEEeecCCC----ccccceeeEeec
Q psy9353 411 SVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKA-VDTLKWKPHTMNSIDFLMKIETRSGLG----ILPTKVGKLYAG 485 (543)
Q Consensus 411 ~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~-~~~lKWKp~~~ntvDF~l~~~~~~~~g----~~~~~~~~L~v~ 485 (543)
....+.++++. ++.++.||||+|+.+++|.+|++ ..|+|||+.. .|+|+++.-... |.| .+...+..+|..
T Consensus 365 ~~~e~~~~~~~--a~~~g~EGlm~K~~~s~Y~~Grr~~~WlK~K~~~-~t~DlVvig~~~-G~Gkr~g~~~~~lla~~~~ 440 (539)
T PRK09247 365 DWDELAALRAA--ARERGVEGLMLKRRDSPYLVGRKKGPWWKWKRDP-LTIDAVLMYAQR-GHGRRASLYTDYTFGVWDG 440 (539)
T ss_pred CHHHHHHHHHH--HHHCCCceEEEecCCCCcCCCCCcchhhcccCCC-CcEEEEEEEeec-CCCCcCCccccEEEEEEcC
Confidence 22234455551 37899999999999999999976 4699999853 499998865443 333 232222333432
Q ss_pred cCC--ccccccee--EEccc--------cccc------------CCcEEEEEEe---------CC----eeEEEEeeCCC
Q psy9353 486 SNR--SQQQFAEM--KITKA--------TKDL------------DGKIVECKWE---------NN----QWVFMRERTDK 528 (543)
Q Consensus 486 ~~~--~~~~f~~~--~~t~e--------~~~~------------~g~IvEc~~~---------~g----~W~f~R~R~DK 528 (543)
+.+ ..++++.+ ++|++ +++. -..|+|+.|. .| ..+|.|+|+||
T Consensus 441 ~~~~~~~~~v~kvgsGftd~~l~~l~~~l~~~~~~~~~~~~~v~P~~V~EV~~~eit~S~~~~~G~~LRfPr~~~~R~DK 520 (539)
T PRK09247 441 PEGGRQLVPFAKAYSGLTDEEIKQLDRWVRKNTVERFGPVRSVRPELVFEIAFEGIQRSKRHKSGIAVRFPRILRWRWDK 520 (539)
T ss_pred CCCceeEEEEEEECCCCCHHHHHHHHHHHhhcccccCCCceEecCceEEEEEeceeeecCCcCCCcEEEcceEEEEeCCC
Confidence 210 12244432 34432 1100 1489999987 23 18999999999
Q ss_pred C--CCChHHHHHHhhc
Q psy9353 529 S--FPNAVETAMGEWN 542 (543)
Q Consensus 529 ~--~pN~~~t~~~v~~ 542 (543)
+ ..+....+...++
T Consensus 521 ~~~ea~t~~~l~~l~~ 536 (539)
T PRK09247 521 PAREADTLETLQALLD 536 (539)
T ss_pred ChHHCcCHHHHHHHHh
Confidence 9 4888888877665
No 8
>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=99.92 E-value=6e-25 Score=212.90 Aligned_cols=155 Identities=18% Similarity=0.265 Sum_probs=117.7
Q ss_pred ccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-CcCCCCeEEEEEEEE-eccC----------
Q psy9353 279 AEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-NKRLTNTLLDGEMVI-DRVQ---------- 346 (543)
Q Consensus 279 ~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-~~~~~~tlLDGElV~-d~~~---------- 346 (543)
...+|++++|+||+|+++++++ ++++++||++..+ +..||+..+. .....+++||||||+ +..+
T Consensus 19 ~~~~~~~E~K~DG~R~~~~~~~-~~v~l~SR~g~~~---t~~~p~i~~~~~~~~~~~vLDGElv~~~~~~~~~f~~~~~~ 94 (201)
T cd07898 19 KPAAAWVEDKYDGIRAQVHKDG-GRVEIFSRSLEDI---TDQFPELAAAAKALPHEFILDGEILAWDDNRGLPFSELFKR 94 (201)
T ss_pred CCCeEEEEEeeceEEEEEEEeC-CEEEEEcCCChhc---hhhhhhHHHHHHhCCCCEEEEEEEEEEeCCCCCcHHHHHHH
Confidence 3558999999999999999975 7999999999876 3578866442 123368999999997 3221
Q ss_pred -----------CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhh-
Q psy9353 347 -----------GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDK- 414 (543)
Q Consensus 347 -----------~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~- 414 (543)
.+.++.|+|||+|+++|++++++||.+|+++|++.+... ... |...+++..++
T Consensus 95 ~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~p~~eR~~~L~~~~~~~-------------~~~--i~~~~~~~~~~~ 159 (201)
T cd07898 95 LGRKFRDKFLDEDVPVVLMAFDLLYLNGESLLDRPLRERRQLLEELFVEI-------------PGR--IRIAPALPVESA 159 (201)
T ss_pred hcccccchhhhccCcEEEEEEeEEeECCcchhhCCHHHHHHHHHHhhcCC-------------CCc--EEEeeeEEcCCH
Confidence 123478999999999999999999999999999866321 011 23334444333
Q ss_pred --HhhhhccccccccCCceEEEeeCCCCcccCC-CcceEEecC
Q psy9353 415 --AGYLLSDKFTLCHEPDGLIFQPVDEPYVMGK-AVDTLKWKP 454 (543)
Q Consensus 415 --~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~-~~~~lKWKp 454 (543)
+..+++ -.+.++.||||+|+.++||.+|+ +.+|+||||
T Consensus 160 ~~~~~~~~--~~~~~g~EGim~K~~~s~Y~~g~Rs~~wlK~K~ 200 (201)
T cd07898 160 EELEAAFA--RARARGNEGLMLKDPDSPYEPGRRGLAWLKLKK 200 (201)
T ss_pred HHHHHHHH--HHHHcCCceEEEeCCCCCcCCCCcCCCcEEeCC
Confidence 334444 12789999999999999999996 678999998
No 9
>PRK03180 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.91 E-value=5.6e-24 Score=231.66 Aligned_cols=235 Identities=20% Similarity=0.303 Sum_probs=160.5
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCc--CCCCeEEEEEEEEeccCC-----------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNK--RLTNTLLDGEMVIDRVQG----------- 347 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~--~~~~tlLDGElV~d~~~~----------- 347 (543)
.+|+++||+||.|+++++.+ +++.+++|+++.+ +-.||+..+... +..++|||||||+-..+|
T Consensus 204 ~~~~~E~K~DG~R~qih~~~-~~v~l~SR~~~d~---T~~fPei~~~~~~~~~~~~ILDGElv~~d~~g~~~~F~~l~~R 279 (508)
T PRK03180 204 GPAAVEAKLDGARVQVHRDG-DDVRVYTRTLDDI---TARLPEVVEAVRALPVRSLVLDGEAIALRPDGRPRPFQVTASR 279 (508)
T ss_pred CCeEEEEEEceeEEEEEEEC-CEEEEEeCCCCcc---hhhhHHHHHHHHhCCCcceeecceEEEECCCCCcCCHHHHHHH
Confidence 47999999999999999964 6999999999866 457997754222 225799999999832111
Q ss_pred ------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhH
Q psy9353 348 ------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKA 415 (543)
Q Consensus 348 ------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~ 415 (543)
+.++.|++||+|++||++++++||.+|++.|++.+. |.. . -+ .+.. .....+
T Consensus 280 ~~~k~~~~~~~~~~pv~~~~FDlL~l~G~dl~~~pl~eRr~~L~~~~~-~~~-~----------~~-~~~~---~~~~~~ 343 (508)
T PRK03180 280 FGRRVDVAAARATQPLSPFFFDALHLDGRDLLDAPLSERLAALDALVP-AAH-R----------VP-RLVT---ADPAAA 343 (508)
T ss_pred hccccchhhhcccCceEEEEEeehhcCCcchhcCCHHHHHHHHHHhhc-ccc-c----------cc-ceec---CCHHHH
Confidence 124689999999999999999999999999998653 210 0 01 1111 123455
Q ss_pred hhhhccccccccCCceEEEeeCCCCcccCCC-cceEEecCCcceeEEEEEEEEeecCCCccccceeeEeec--c--CCcc
Q psy9353 416 GYLLSDKFTLCHEPDGLIFQPVDEPYVMGKA-VDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAG--S--NRSQ 490 (543)
Q Consensus 416 ~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~-~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~--~--~~~~ 490 (543)
+++++. +..++.||||+|..+++|.+|++ .+|+|||+. .|+|++|.-.. .+.|.-....+.+.+| + .+..
T Consensus 344 ~~~~~~--a~~~g~EGlm~K~~ds~Y~~GrR~~~WlK~K~~--~t~D~VviG~~-~G~Gkr~g~~~~~llg~~d~~~~~l 418 (508)
T PRK03180 344 AAFLAA--ALAAGHEGVMVKSLDAPYAAGRRGAGWLKVKPV--HTLDLVVLAAE-WGSGRRTGKLSNLHLGARDPATGGF 418 (508)
T ss_pred HHHHHH--HHHcCCceEEEeCCCCCcCCCCCCCCcEEEcCC--CceEEEEEeee-cCCCCCCCCccceEEEEEeCCCCeE
Confidence 566652 37899999999999999999965 689999994 69999885443 3444333333444443 1 1123
Q ss_pred ccccee--EEccc--------ccc------------cCCcEEEEEEe---------CC----eeEEEEeeCCCC--CCCh
Q psy9353 491 QQFAEM--KITKA--------TKD------------LDGKIVECKWE---------NN----QWVFMRERTDKS--FPNA 533 (543)
Q Consensus 491 ~~f~~~--~~t~e--------~~~------------~~g~IvEc~~~---------~g----~W~f~R~R~DK~--~pN~ 533 (543)
++++.+ ++|++ +++ .-..|+|+.|+ .| ..+|.|+|+||+ .+++
T Consensus 419 ~~vgkv~sG~td~~l~~l~~~l~~~~~~~~~~~vwv~P~~V~EV~~~~it~S~~~~~G~~LRfPr~~r~R~DK~~~ea~t 498 (508)
T PRK03180 419 VMLGKTFKGMTDAMLAWQTERFLELAVGRDGWTVYVRPELVVEIAFDGVQRSTRYPGGVALRFARVLRYRPDKTPAEADT 498 (508)
T ss_pred EEecCccCCCCHHHHHHHHHHHHhhccCCCCCCEEeeCCEEEEEEeeEeeeCCcccCCeEEECCeeeEeeCCCChHHCcC
Confidence 344432 34442 100 01379999997 24 188999999998 6666
Q ss_pred HHHHHHh
Q psy9353 534 VETAMGE 540 (543)
Q Consensus 534 ~~t~~~v 540 (543)
...+...
T Consensus 499 l~~~~~l 505 (508)
T PRK03180 499 IDTVRAL 505 (508)
T ss_pred HHHHHHH
Confidence 6666554
No 10
>PHA02587 30 DNA ligase; Provisional
Probab=99.91 E-value=2.2e-23 Score=226.21 Aligned_cols=235 Identities=21% Similarity=0.272 Sum_probs=155.0
Q ss_pred CcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC----Cc----CCCCeEEEEEEEEecc-C------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP----NK----RLTNTLLDGEMVIDRV-Q------ 346 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~----~~----~~~~tlLDGElV~d~~-~------ 346 (543)
+|++++|+||+|+++++.+ +++.+++|+++.+ + .||+.... .. ...+++||||||+-.. +
T Consensus 153 ~~~~E~K~DG~R~q~h~~~-~~v~l~SR~g~~~--~--~~p~i~~~l~~~~~~~~~~~~~~VLDGElv~~~~~~~~~~~~ 227 (488)
T PHA02587 153 PAYAQLKADGARCFADIDA-DGIEIRSRNGNEY--L--GLDLLKEELKKMTAEARQRPGGVVIDGELVYVEVETKKPNGL 227 (488)
T ss_pred cEEEEEccCceEEEEEEeC-CEEEEEecCCccc--c--CChhHHHHHHHHhhhhcccCCcEEEEeEEEEEecccCCCccc
Confidence 8999999999999999964 7999999999976 2 46655321 11 1267999999998411 0
Q ss_pred -------------------------------------CccccEEEEEEEEEEC---CccccCCCHHHHHHHHHHhhhhhh
Q psy9353 347 -------------------------------------GQNIPRYLVYDIIRFD---NNDVTRQKFTTRIQIIKVEIIEPR 386 (543)
Q Consensus 347 -------------------------------------~~~~~~ylifDil~~~---G~~v~~~p~~eR~~~L~~~i~~p~ 386 (543)
.+.++.|++||+|.++ |.+....||.+|++.|++.+..+.
T Consensus 228 ~f~~~~~~~~~f~q~l~~R~~~~~i~~~~l~~~~~~~~~~pv~~~vFDiL~ld~y~~~~~~~~pl~eRr~~L~~l~~~~~ 307 (488)
T PHA02587 228 SFLFDDSKAKEFVGVVADRATGNGIVNKSLKGTISKEEAQEIVFQVWDIVPLEVYYGKEKSDMPYDDRFSKLAQMFEDCG 307 (488)
T ss_pred hhhcccccccchhhhhhhhhhccchhhhhhccccchhhccceEEEEEEeechhhccCCccccCCHHHHHHHHHHHHhhcC
Confidence 0134689999999653 445778999999999998663110
Q ss_pred HHHhhhhccccCCCCeEEE-eccccchhhHhhhhccccccccCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEE
Q psy9353 387 HRAMENSRINKLAEPFSVR-VKDFWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMK 465 (543)
Q Consensus 387 ~~~~~~~~~~~~~~pf~i~-~k~~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~ 465 (543)
...+.+. .........+.++++. ++..+.||||+|..+++|.+||+.+|+|||+. .++|+++.
T Consensus 308 ------------~~~i~l~~~~~~~~~ee~~~~~~~--a~~~G~EGimlK~~ds~Y~~GRs~~WlKiK~~--~~~dlvVv 371 (488)
T PHA02587 308 ------------YDRVELIENQVVNNLEEAKEIYKR--YVDQGLEGIILKNTDGLWEDGRSKDQIKFKEV--IDIDLEIV 371 (488)
T ss_pred ------------CCcEEEEeeEEcCCHHHHHHHHHH--HHhCCCCeEEEECCCCCCCCCCCCCcEEecCC--CceEEEEE
Confidence 1112111 1112233455556652 37889999999999999999998889999984 57998875
Q ss_pred EEeecCCCccccceeeEeeccCCcc--cccceeEEcccc----------------------------cccCCcEEEEEEe
Q psy9353 466 IETRSGLGILPTKVGKLYAGSNRSQ--QQFAEMKITKAT----------------------------KDLDGKIVECKWE 515 (543)
Q Consensus 466 ~~~~~~~g~~~~~~~~L~v~~~~~~--~~f~~~~~t~e~----------------------------~~~~g~IvEc~~~ 515 (543)
-...++ + -...+|.+.+....+. .+. +.++|++. ..+-+.|+||.|+
T Consensus 372 G~~~~~-k-~~~~~gs~ll~~~~g~~~~~v-gsGftd~~~~~l~~~~~~~p~~~~~~~~r~~~~~~~~~~~~~V~EV~~~ 448 (488)
T PHA02587 372 GVYEHK-K-DPNKVGGFTLESACGKITVNT-GSGLTDTTHRKKDGKKVVIPLSERHELDREELMANKGKYIGKIAECECN 448 (488)
T ss_pred eEEeCC-C-CCCceeEEEEEecCCcEEEEE-CCCCChHHhhhhccccceecccccchhcchhhhhCcccccceEEEEEec
Confidence 544321 1 1223444443321111 011 11222211 1345689999997
Q ss_pred -----C----C----eeEEEEeeCCCCCCChHHHHHHh
Q psy9353 516 -----N----N----QWVFMRERTDKSFPNAVETAMGE 540 (543)
Q Consensus 516 -----~----g----~W~f~R~R~DK~~pN~~~t~~~v 540 (543)
+ | ..+|.|+|.||+.+|++..+...
T Consensus 449 ~it~S~~~~~g~sLRfPrf~r~R~DK~~Adt~~~v~~~ 486 (488)
T PHA02587 449 GLQRSKGRKDKVSLFLPIIKRIRIDKTEANTLEDVFAD 486 (488)
T ss_pred eEEeCCCCCCCeeEEccceeEEeCCCCcccCHHHHhhc
Confidence 1 1 18999999999999999887654
No 11
>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=99.90 E-value=1.2e-23 Score=207.34 Aligned_cols=159 Identities=22% Similarity=0.392 Sum_probs=119.1
Q ss_pred cccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-----------CcCCCCeEEEEEEEE-ecc
Q psy9353 278 LAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-----------NKRLTNTLLDGEMVI-DRV 345 (543)
Q Consensus 278 l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-----------~~~~~~tlLDGElV~-d~~ 345 (543)
....+|++++|+||+|++++++ ++++.+++|+++.+ +..||+.... .....+++||||||+ +..
T Consensus 30 ~~~~~~~~E~K~DG~R~~i~~~-~~~v~l~SR~g~~~---t~~~p~~~~~~~~~~~l~~~~~~~~~~~iLDGElv~~~~~ 105 (225)
T cd07903 30 LKGKPFYIETKLDGERIQLHKD-GNEFKYFSRNGNDY---TYLYGASLTPGSLTPYIHLAFNPKVKSCILDGEMVVWDKE 105 (225)
T ss_pred hcCCeEEEEEeeCceEEEEEec-CCEEEEEeCCCccc---cccccccccccccchhhhhhccccCcEEEeceEEEEEEcC
Confidence 3457899999999999999997 57999999999977 4568866432 123478999999997 421
Q ss_pred C--------------------CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEE
Q psy9353 346 Q--------------------GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVR 405 (543)
Q Consensus 346 ~--------------------~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~ 405 (543)
+ .+..+.|+|||||+++|++++++||.+|+++|++.+. +.. .. +.
T Consensus 106 ~~~~~~f~~l~~~~~~~~~~~~~~~~~~~vFDiL~~~g~~l~~~pl~eR~~~L~~~~~-~~~------------~~--i~ 170 (225)
T cd07903 106 TKRFLPFGTLKDVAKLREVEDSDLQPCFVVFDILYLNGKSLTNLPLHERKKLLEKIIT-PIP------------GR--LE 170 (225)
T ss_pred cCeeccchHHHHHHhhcccccCCccEEEEEEEEEEECCeecccCcHHHHHHHHHHhcC-CCC------------Ce--EE
Confidence 1 2335789999999999999999999999999998653 210 11 11
Q ss_pred eccccch---hhHhhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecCCcc
Q psy9353 406 VKDFWSV---DKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHTM 457 (543)
Q Consensus 406 ~k~~~~~---~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~~ 457 (543)
..+.... ..+.++++ -.+.++.||||+|+.++||.+| |+..|+||||..+
T Consensus 171 ~~~~~~~~~~~~~~~~~~--~~~~~g~EGlv~K~~~s~Y~~g~Rs~~wlK~K~~Y~ 224 (225)
T cd07903 171 VVKRTEASTKEEIEEALN--EAIDNREEGIVVKDLDSKYKPGKRGGGWIKIKPEYL 224 (225)
T ss_pred EEEEEeCCCHHHHHHHHH--HHHHcCCceEEEecCCCCCccCCcCCCcEEechhhc
Confidence 2222222 34455555 1378999999999999999999 5678999999654
No 12
>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=99.90 E-value=3.1e-23 Score=227.36 Aligned_cols=240 Identities=20% Similarity=0.293 Sum_probs=161.2
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCC-CC-CCc---CCCCeEEEEEEEE-eccCC-------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHR-KD-PNK---RLTNTLLDGEMVI-DRVQG------- 347 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~-~~-~~~---~~~~tlLDGElV~-d~~~~------- 347 (543)
.+|++++|+||+|+++++. ++++.+++|+++.+ +..||+. .+ +.. ...+++||||||+ +...|
T Consensus 187 ~~~~~E~K~DG~R~qih~~-~~~v~l~SR~g~~~---t~~~pei~~~~~~~~~~~~~~~ILDGElv~~d~~~g~~~~F~~ 262 (514)
T TIGR00574 187 NKFYVEYKYDGERVQIHKD-GDKFKIFSRRLENY---TYAYPEIFTEFIKEAFPGIKSCILDGEMVAIDPETGKILPFQT 262 (514)
T ss_pred CceEEEEeecceEEEEEEc-CCEEEEEcCCCccc---ccccchhHHHHHHHhcCccceeeecceEEEEEcCCCCCcCcHh
Confidence 3899999999999999985 46999999999876 4578876 33 111 1246799999997 43211
Q ss_pred ---------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeE-EEeccccc
Q psy9353 348 ---------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFS-VRVKDFWS 411 (543)
Q Consensus 348 ---------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~-i~~k~~~~ 411 (543)
..++.|++||||++||+++++.||.+|+++|++.+ .+.. ..+. +.......
T Consensus 263 l~~r~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~-~~~~------------~~i~~~~~~~~~~ 329 (514)
T TIGR00574 263 LLRRKRRYDIDSMEKKVPVCLFVFDILYLNGESLIDEPLIERREILESIL-KPIP------------NRIEIAEMKITSN 329 (514)
T ss_pred HHhhhhhccccccccccceEEEEEEEEEECCcchhcCcHHHHHHHHHHhc-cCCC------------CcEEEEEEEecCC
Confidence 12458999999999999999999999999999854 3321 1121 12222223
Q ss_pred hhhHhhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecCCc----ceeEEEEEEEEeecCCCccccceeeEeecc
Q psy9353 412 VDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHT----MNSIDFLMKIETRSGLGILPTKVGKLYAGS 486 (543)
Q Consensus 412 ~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~----~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~ 486 (543)
...+.++++. .+.++.||||+|+.+++|.+| |+..|+||||.. ..|+|+++.-... +.|...+.+|.++++-
T Consensus 330 ~e~~~~~~~~--~~~~g~EGlv~K~~ds~Y~~G~Rs~~WlK~K~~y~~~~~~~~D~vvig~~~-g~gk~~g~~~~~l~g~ 406 (514)
T TIGR00574 330 VEELEKFLNE--AISEGCEGLMLKDLKSIYEPGKRGWLWLKFKPEYLEGMGDTLDLVVIGAYY-GKGKRTGMYGSFLLAC 406 (514)
T ss_pred HHHHHHHHHH--HHHcCCceEEEecCCCcccCCCCCCcceeCchhhcccccCceeEEEEeeEe-cCCccCCceeEEEEEE
Confidence 3455555551 378999999999999999999 667899999842 4589998754443 3444344556666653
Q ss_pred CC----ccccccee--EEccc--------cc----------------------ccCCcEEEEEEe--C--------Ce--
Q psy9353 487 NR----SQQQFAEM--KITKA--------TK----------------------DLDGKIVECKWE--N--------NQ-- 518 (543)
Q Consensus 487 ~~----~~~~f~~~--~~t~e--------~~----------------------~~~g~IvEc~~~--~--------g~-- 518 (543)
.+ ....++.. ++|++ ++ ..-..|+|+.|. . |.
T Consensus 407 ~d~~~~~~~~v~kvgsG~sd~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~~w~~p~~V~eV~~~e~t~s~~~~~~g~~L 486 (514)
T TIGR00574 407 YDPESEEFKTITKVGTGFTDADLQELGKKLPPLWIDPPGSRVPSILSDEPDIWFDPAIVWEVTGAEITRSPTYKANGISL 486 (514)
T ss_pred EcCCCCeEEEEEEECCCCCHHHHHHHHHhccCcEecCCCCCCcccccCCCeEEecCCeEEEEEhhheeecCcccccceEE
Confidence 21 11122211 23321 10 001478899987 2 52
Q ss_pred --eEEEEeeCCCCC--CChHHHHHHh
Q psy9353 519 --WVFMRERTDKSF--PNAVETAMGE 540 (543)
Q Consensus 519 --W~f~R~R~DK~~--pN~~~t~~~v 540 (543)
.+|.|+|.||+. .+.++-+..+
T Consensus 487 RfPr~~~~R~DK~~~d~~~~~~~~~l 512 (514)
T TIGR00574 487 RFPRFSRIRDDKGPEDATTIEEIKEL 512 (514)
T ss_pred EcceEEEEcCCCChHHCCCHHHHHHH
Confidence 899999999984 5566555544
No 13
>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=99.90 E-value=1.4e-23 Score=204.20 Aligned_cols=158 Identities=20% Similarity=0.366 Sum_probs=117.7
Q ss_pred ccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCC-CCeEEEEEEEEeccCC----------
Q psy9353 279 AEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRL-TNTLLDGEMVIDRVQG---------- 347 (543)
Q Consensus 279 ~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~-~~tlLDGElV~d~~~~---------- 347 (543)
...+|++++|+||+|++++.. ++++.|++|+++.+ +..||+..++...+ .+++||||||+...++
T Consensus 22 ~~~~~~~E~K~DG~R~~~~~~-~~~v~l~SR~g~~~---t~~~p~l~~~~~~l~~~~iLDGElv~~~~~~~~~F~~l~~r 97 (207)
T cd07897 22 DPSDWQAEWKWDGIRGQLIRR-GGEVFLWSRGEELI---TGSFPELLAAAEALPDGTVLDGELLVWRDGRPLPFNDLQQR 97 (207)
T ss_pred CcccEEEEEeEceEEEEEEEc-CCEEEEEeCCCCcc---cccchHHHHHHHhCCCCeEEEeEEEEecCCCccCHHHHHHH
Confidence 456899999999999999885 47999999999976 45799775433333 4899999999843211
Q ss_pred ------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecccc---ch
Q psy9353 348 ------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFW---SV 412 (543)
Q Consensus 348 ------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~---~~ 412 (543)
..++.|++||||+++|+++++.||.+|+++|++.+. +.. ... +...+.. ..
T Consensus 98 ~~~~~~~~~~~~~~~~~~~vFDil~l~g~~l~~~pl~eRr~~L~~l~~-~~~-----------~~~--i~~~~~~~~~~~ 163 (207)
T cd07897 98 LGRKTVGKKLLAEAPAAFRAYDLLELNGEDLRALPLRERRARLEALLA-RLP-----------PPR--LDLSPLIAFADW 163 (207)
T ss_pred hcccccchhhHhhCCeEEEEEeeeeECceEhhhCCHHHHHHHHHHhhh-hcC-----------CCc--eeecceEecCCH
Confidence 124689999999999999999999999999998653 210 011 1122222 22
Q ss_pred hhHhhhhccccccccCCceEEEeeCCCCcccCCC-cceEEecCCc
Q psy9353 413 DKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKA-VDTLKWKPHT 456 (543)
Q Consensus 413 ~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~-~~~lKWKp~~ 456 (543)
..+..+++ ..+.++.||||+|..+++|.+|++ ..|+|.|+..
T Consensus 164 ~~~~~~~~--~~~~~g~EGiv~K~~~s~Y~~Grr~~~W~K~K~d~ 206 (207)
T cd07897 164 EELAALRA--QSRERGAEGLMLKRRDSPYLVGRKKGDWWKWKIDP 206 (207)
T ss_pred HHHHHHHH--HHHHcCCeEEEEeCCCCCcCCCCcCCCeeEeCCCC
Confidence 34455555 237899999999999999999965 5699999853
No 14
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=99.90 E-value=1.5e-22 Score=226.64 Aligned_cols=183 Identities=17% Similarity=0.260 Sum_probs=134.2
Q ss_pred cccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCC--CCeEEEEEEEEeccCC--------
Q psy9353 278 LAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRL--TNTLLDGEMVIDRVQG-------- 347 (543)
Q Consensus 278 l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~--~~tlLDGElV~d~~~~-------- 347 (543)
+...+|++++|+||+|+++.++ ++++.|++|+++.+ +-.||+...+...+ .++|||||||+-..+|
T Consensus 474 ~~~~~w~~E~K~DG~R~~~~~~-~g~vrL~SRnG~d~---T~~fPel~~~~~~l~~~~~ILDGEiVvld~~G~~~F~~Lq 549 (764)
T PRK09632 474 LKASQWAFEGKWDGYRLLAEAD-HGALRLRSRSGRDV---TAEYPELAALAEDLADHHVVLDGEIVALDDSGVPSFGLLQ 549 (764)
T ss_pred CCCCCEEEEEEECceeEEEEEe-CCEEEEEeCCCCCc---cccchhHHHHHhhCCCcceeeeeEEEEeCCCCCCCHHHHh
Confidence 3456899999999999999996 47999999999977 45799875533333 4799999999843222
Q ss_pred ----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhcccc
Q psy9353 348 ----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKF 423 (543)
Q Consensus 348 ----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~ 423 (543)
..++.|++||+|++||+++++.||.+|+++|++.+. +. .. +...+.+.. ..+++|+ .
T Consensus 550 ~r~~~~~v~y~vFDLL~lnG~dL~~~Pl~eRR~~L~~l~~-~~-------------~~--i~~s~~~~~-~~~~~l~--~ 610 (764)
T PRK09632 550 NRGRDTRVEFWAFDLLYLDGRSLLRKPYRDRRKLLEALAP-SG-------------GS--LTVPPLLPG-DGAEALA--Y 610 (764)
T ss_pred hhhhcCCeEEEEEeeeccCCcccccCCHHHHHHHHHHhhC-CC-------------Cc--EEecceecc-cHHHHHH--H
Confidence 235789999999999999999999999999998653 10 11 222333332 2455665 2
Q ss_pred ccccCCceEEEeeCCCCcccCC-CcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeecc
Q psy9353 424 TLCHEPDGLIFQPVDEPYVMGK-AVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAGS 486 (543)
Q Consensus 424 ~~~h~~DGLIf~~~~spY~~G~-~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~ 486 (543)
+..++.||||+|..+|+|.+|+ +.+|+|+|+ ..++||+|.- ...+.|.-...+|.|.+|-
T Consensus 611 a~~~GlEGIVaKr~dS~Y~pGrRs~~WlKiK~--~~~~e~VI~G-~~~g~G~r~g~~gsLLlGv 671 (764)
T PRK09632 611 SRELGWEGVVAKRRDSTYQPGRRSSSWIKDKH--WRTQEVVIGG-WRPGEGGRSSGIGSLLLGI 671 (764)
T ss_pred HHHcCCcEEEEeCCCCCCCCCCcCCCeEEEec--CCceEEEEEE-EEcCCCCcCCceeeEEEEE
Confidence 3789999999999999999996 668999998 4688987643 3333343223456777663
No 15
>PLN03113 DNA ligase 1; Provisional
Probab=99.90 E-value=1.2e-22 Score=227.54 Aligned_cols=175 Identities=16% Similarity=0.226 Sum_probs=128.6
Q ss_pred ccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCC-----cCCCCeEEEEEEEE-eccCC---
Q psy9353 277 YLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPN-----KRLTNTLLDGEMVI-DRVQG--- 347 (543)
Q Consensus 277 ~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~-----~~~~~tlLDGElV~-d~~~~--- 347 (543)
.+...+|++++|+||.|++++...+|++.+++|+++.+ +-.||+..... ....++|||||||+ |..++
T Consensus 387 ~~~g~~~~~E~KyDGeR~QiH~~~~g~v~lfSRn~ed~---T~~fPel~~~~~~~~~~~~~~~ILDGEiVa~d~~~~~~l 463 (744)
T PLN03113 387 KFQDMEFTCEYKYDGERAQIHFLEDGSVEIYSRNAERN---TGKYPDVVVAISRLKKPSVKSFILDCELVAYDREKKKIL 463 (744)
T ss_pred ccCCCCEEEEEeeccceEEEEEecCCEEEEEeCCCCcc---cccchhHHHHHHHhccccCCCEEEEeEEEEEECCCCCcC
Confidence 34455899999999999999875557899999999976 46899775321 12367999999998 43222
Q ss_pred ------------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEE-ecc
Q psy9353 348 ------------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVR-VKD 408 (543)
Q Consensus 348 ------------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~-~k~ 408 (543)
+.++.|++||||++||+++++.||.+|+++|++.+. +. ...|.+. ...
T Consensus 464 pFq~Lq~R~rk~~~~~~~~~pv~~~aFDlLylnG~~L~~~PL~eRR~~L~~~~~-~~------------~~~i~~~~~~~ 530 (744)
T PLN03113 464 PFQILSTRARKNVVMSDIKVDVCIFAFDMLYLNGQPLIQEQLKIRREHLYESFE-ED------------PGFFQFATAIT 530 (744)
T ss_pred CHHHHHhhhccccchhccccceEEEEEeccccCccChhcCCHHHHHHHHHHHhc-cC------------CCcEEEeeeec
Confidence 124589999999999999999999999999998653 21 0112221 111
Q ss_pred ccchhhHhhhhccccccccCCceEEEeeC--CCCcccCC-CcceEEecCCcc----eeEEEEEEEEee
Q psy9353 409 FWSVDKAGYLLSDKFTLCHEPDGLIFQPV--DEPYVMGK-AVDTLKWKPHTM----NSIDFLMKIETR 469 (543)
Q Consensus 409 ~~~~~~~~~ll~~~~~~~h~~DGLIf~~~--~spY~~G~-~~~~lKWKp~~~----ntvDF~l~~~~~ 469 (543)
.-....+.++|+. ++.++.||||.|.. +++|.||+ ..+|+|||+..+ .|+|+++.-...
T Consensus 531 ~~~~ee~~~~~~~--ai~~g~EGlmvK~l~~dS~Y~pGkRs~~WlKlK~dy~~~~~dtlDlVvIGa~~ 596 (744)
T PLN03113 531 SNDLEEIQKFLDA--AVDASCEGLIIKTLNKDATYEPSKRSNNWLKLKKDYMESIGDSLDLVPIAAFH 596 (744)
T ss_pred cCCHHHHHHHHHH--HHHcCCceEEEeccCCCCCccCCCCCCCeEEEechhhccccccccEEEEEEEe
Confidence 2234455666662 37899999999985 78999994 568999998655 499998755543
No 16
>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=99.89 E-value=6.5e-23 Score=201.01 Aligned_cols=160 Identities=18% Similarity=0.302 Sum_probs=117.6
Q ss_pred cccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-C----cCCCCeEEEEEEEE-eccCC----
Q psy9353 278 LAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-N----KRLTNTLLDGEMVI-DRVQG---- 347 (543)
Q Consensus 278 l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-~----~~~~~tlLDGElV~-d~~~~---- 347 (543)
+...+|++++|+||.|+++++.+++.+.|++|+++.+ +-.||+.... . ....++|||||||+ +..+|
T Consensus 28 ~~~~~~~~E~K~DG~R~~~h~~~~~~v~l~SR~g~~~---t~~~pel~~~~~~~~~~~~~~~iLDGElv~~~~~~g~~~~ 104 (219)
T cd07900 28 FEDKEFTCEYKYDGERAQIHLLEDGKVKIFSRNLENN---TEKYPDIVAVLPKSLKPSVKSFILDSEIVAYDRETGKILP 104 (219)
T ss_pred hCCCeEEEEEeecceEEEEEEcCCCeEEEECCCCccc---cchhhHHHHHHHHHhcccCccEEEeeEEEEEEcCCCCCcC
Confidence 3446899999999999999886547999999999976 4578876432 1 12468999999998 32211
Q ss_pred -----------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEE-eccc
Q psy9353 348 -----------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVR-VKDF 409 (543)
Q Consensus 348 -----------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~-~k~~ 409 (543)
+.++.|++||||++||++++..||.+|+++|++.+. +. ...+.+. ....
T Consensus 105 F~~l~~r~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~-~~------------~~~~~~~~~~~~ 171 (219)
T cd07900 105 FQVLSTRKRKDVDANDIKVQVCVFAFDLLYLNGESLLKKPLRERRELLHSLFK-EV------------PGRFQFATSKDS 171 (219)
T ss_pred hHHHhhhcccccccccCcccEEEEEEEEEEECCchhhcCCHHHHHHHHHHhcC-CC------------CCeEEEEEEEec
Confidence 135689999999999999999999999999998652 21 0112211 1111
Q ss_pred cchhhHhhhhccccccccCCceEEEeeCC--CCcccCC-CcceEEecCC
Q psy9353 410 WSVDKAGYLLSDKFTLCHEPDGLIFQPVD--EPYVMGK-AVDTLKWKPH 455 (543)
Q Consensus 410 ~~~~~~~~ll~~~~~~~h~~DGLIf~~~~--spY~~G~-~~~~lKWKp~ 455 (543)
-....+..+++ -.+.++.||||+|+.+ ++|.+|+ +..|+||||.
T Consensus 172 ~~~~~~~~~~~--~~~~~g~EGiv~K~~~~~s~Y~~g~Rs~~W~K~K~d 218 (219)
T cd07900 172 EDTEEIQEFLE--EAVKNNCEGLMVKTLDSDATYEPSKRSHNWLKLKKD 218 (219)
T ss_pred CCHHHHHHHHH--HHHHcCCceEEEecCCCCCccCCCCcCCCceEeCCC
Confidence 12234555665 2378999999999999 9999995 4579999984
No 17
>PRK08224 ligC ATP-dependent DNA ligase; Reviewed
Probab=99.89 E-value=1.9e-22 Score=210.06 Aligned_cols=177 Identities=22% Similarity=0.305 Sum_probs=129.7
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCc-C-CCCeEEEEEEEEeccCC-----------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNK-R-LTNTLLDGEMVIDRVQG----------- 347 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~-~-~~~tlLDGElV~d~~~~----------- 347 (543)
.+|++++|+||+|++++++ ++++.|++|+++.+ +-.||+..++.. . ..+++||||||+...++
T Consensus 24 ~~w~~E~K~DG~R~~~~~~-~~~v~l~SRng~d~---t~~fPel~~~~~~~~~~~~vLDGEiVv~~~~~~~F~~Lq~r~~ 99 (350)
T PRK08224 24 DGWSYEPKWDGFRCLVFRD-GDEVELGSRNGKPL---TRYFPELVAALRAELPERCVLDGEIVVARDGGLDFEALQQRIH 99 (350)
T ss_pred CcEEEEEeECeeEEEEEEE-CCEEEEEeCCCCCc---hhhhHHHHHHHHhhCCCCEEEeeEEEEeCCCCCCHHHHHhhhh
Confidence 4799999999999999997 47999999999976 457998754221 2 25799999999843211
Q ss_pred -----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecccc-chhhH
Q psy9353 348 -----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFW-SVDKA 415 (543)
Q Consensus 348 -----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~-~~~~~ 415 (543)
..++.|++||+|++||++++..||.+|++.|++.+. + ..++. ..+.. .....
T Consensus 100 ~~~~~~~~~~~~~pv~~~vFDlL~l~G~dl~~~Pl~eRr~~L~~l~~-~-------------~~~i~--~~~~~~~~~~~ 163 (350)
T PRK08224 100 PAASRVRKLAEETPASFVAFDLLALGDRDLTGRPFAERRAALEAAAA-G-------------SGPVH--LTPATTDPATA 163 (350)
T ss_pred ccccchhhhhhcCCEEEEEEeeeeECCcChhhCCHHHHHHHHHHhcC-C-------------CCcEE--EecccCCHHHH
Confidence 124589999999999999999999999999998652 1 01222 22222 23345
Q ss_pred hhhhccccccccCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeec
Q psy9353 416 GYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAG 485 (543)
Q Consensus 416 ~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~ 485 (543)
+.+++ ..+.++.||||+|..+|+|.+|++. |+|+|+ ..++||+|.--. .+.|. ..+|.|.+|
T Consensus 164 ~~~~~--~a~~~G~EGIV~Kr~dS~Y~~Grr~-WlKiK~--~~~~d~vI~G~~-~g~~~--~~~gslllg 225 (350)
T PRK08224 164 RRWFE--EFEGAGLDGVIAKPLDGPYQPGKRA-MFKVKH--ERTADCVVAGYR-YHKSG--PVVGSLLLG 225 (350)
T ss_pred HHHHH--HHHhCCCcEEEEeCCCCCcCCCCcC-EEEEcc--CCcEEEEEEEEE-cCCCC--CccccEEEE
Confidence 56665 2378999999999999999999877 999998 579999874332 22221 234555555
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=99.89 E-value=1.3e-22 Score=200.33 Aligned_cols=177 Identities=17% Similarity=0.223 Sum_probs=122.4
Q ss_pred eecccccccc----ccccCCcEEEEcCCceEEEEEEEe---CCeEEEEECCCCeeEecCccCCCCCCCC-c---------
Q psy9353 267 PVSMDRNNIG----YLAEKKYMVSWKADGTRYMMYIKN---ADEIYFTDRDFSMYKISGLTFPHRKDPN-K--------- 329 (543)
Q Consensus 267 PVsl~r~~l~----~l~~~~y~v~~K~DG~R~ll~i~~---~~~vyLidR~~~~~~v~~~~fP~~~~~~-~--------- 329 (543)
|-|+...+++ .+...+|++++|+||.|++++++. .+++.|++|+++.+ +..||+..+.. .
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~E~K~DG~R~qih~~~~~~~~~v~lfSR~~~d~---T~~~pel~~~~~~~~~~~~~~~ 80 (235)
T cd08039 4 PKSLKARSIKHCCKMIGSRRMWVETKYDGEYCQIHIDLSKDSSPIRIFSKSGKDS---TADRAGVHSIIRKALRIGKPGC 80 (235)
T ss_pred cchhcccCHHHHHHHhCCCcEEEEEeecceEEEEEEecccCCCEEEEEeCCCCcc---cccchhHHHHHHHHhhcccccc
Confidence 4555555544 355678999999999999999851 46899999999976 45788754311 0
Q ss_pred -CCCCeEEEEEEEE-eccCC-----------------------------ccccEEEEEEEEEECCccccCCCHHHHHHHH
Q psy9353 330 -RLTNTLLDGEMVI-DRVQG-----------------------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQII 378 (543)
Q Consensus 330 -~~~~tlLDGElV~-d~~~~-----------------------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L 378 (543)
..+++|||||||+ +..+| +.++.|++||+|++||+++++.||.+|+++|
T Consensus 81 ~~~~~~ILDGEiVv~d~~~g~~~~F~~L~~~~~~~~~~~~~~~~~~~~~~~~v~~~vFDlL~lnG~~l~~~pl~eRr~~L 160 (235)
T cd08039 81 KFSKNCILEGEMVVWSDRQGKIDPFHKIRKHVERSGSFIGTDNDSPPHEYEHLMIVFFDVLLLDDESLLSKPYSERRDLL 160 (235)
T ss_pred CCCccEEEEeEEEEEECCCCccCCHHHHHhhcccccchhccccccccccccceEEEEEEEEEECChhhhcCCHHHHHHHH
Confidence 1367999999987 43221 1236899999999999999999999999999
Q ss_pred HHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccccccCCceEEEeeCCCCcccCCC------cceEEe
Q psy9353 379 KVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKA------VDTLKW 452 (543)
Q Consensus 379 ~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~------~~~lKW 452 (543)
++.+ .|... .... .+.+.+..........++++|+. ++..+.||||+|..+++|.+|+. ..|+||
T Consensus 161 ~~l~-~~~~~-----~~~~-~~~~~i~~~~~~~~~~l~~~~~~--a~~~g~EGIv~K~~~S~Y~pgr~~~~~r~~~WlKl 231 (235)
T cd08039 161 ESLV-HVIPG-----YAGL-SERFPIDFSRSSGYERLRQIFAR--AIAERWEGLVLKGDEEPYFDLFLEQGSFSGCWIKL 231 (235)
T ss_pred HHhc-ccCCC-----cEEE-EEEEeecccCCCCHHHHHHHHHH--HHHcCCceEEEecCCCCcccCcccccccCCCeEEe
Confidence 9855 22110 0000 00011111111123345556652 37889999999999999999986 589999
Q ss_pred cCC
Q psy9353 453 KPH 455 (543)
Q Consensus 453 Kp~ 455 (543)
||.
T Consensus 232 K~d 234 (235)
T cd08039 232 KKD 234 (235)
T ss_pred CCC
Confidence 984
No 19
>PRK05972 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.89 E-value=3.3e-22 Score=225.79 Aligned_cols=180 Identities=20% Similarity=0.317 Sum_probs=131.6
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcC--CCCeEEEEEEEEeccCC-----------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKR--LTNTLLDGEMVIDRVQG----------- 347 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~--~~~tlLDGElV~d~~~~----------- 347 (543)
.+|+++.|+||+|++++++ .+++.|++|+++.+ +-.||+..+.... ..++|||||||+...+|
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 DGWIYEIKFDGYRILARIE-GGEVRLFTRNGLDW---TAKLPALAKAAAALGLPDAWLDGEIVVLDEDGVPDFQALQNAF 324 (860)
T ss_pred CceEEEeeeCcEEEEEEEE-CCEEEEEeCCCCcc---ccccHHHHHHHHhcCCCceeEeEEEEEECCCCCCCHHHHHHHh
Confidence 5899999999999999997 47999999999976 4579977543222 36899999999943221
Q ss_pred ----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhcccc
Q psy9353 348 ----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKF 423 (543)
Q Consensus 348 ----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~ 423 (543)
...+.|++||||++||++++++||.+|+++|++.+. +. ...+ |+..+.+... .+.+|+ .
T Consensus 325 ~~~~~~~v~f~vFDLL~l~G~dL~~~PL~eRr~~L~~ll~-~~-----------~~~~--i~~s~~~~~~-g~~ll~--~ 387 (860)
T PRK05972 325 DEGRTEDLVYFAFDLPFLGGEDLRELPLEERRARLRALLE-AA-----------RSDR--IRFSEHFDAG-GDAVLA--S 387 (860)
T ss_pred hccCCCceEEEEEeccccCCcccccCCHHHHHHHHHHHhh-hc-----------CCCc--EEEeceecch-HHHHHH--H
Confidence 234689999999999999999999999999998653 11 0011 3333333332 345665 2
Q ss_pred ccccCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeec
Q psy9353 424 TLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAG 485 (543)
Q Consensus 424 ~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~ 485 (543)
++.++.||||+|+.+|+|.+||+.+|+|+|+. .+.+|+|. ....+.|.-. .+|.|.+|
T Consensus 388 a~~~GlEGIVaKr~dS~Y~~GRs~~WlKiK~~--~~~E~VIg-Gy~~~~Gkr~-g~gSLLlG 445 (860)
T PRK05972 388 ACRLGLEGVIGKRADSPYVSGRSEDWIKLKCR--ARQEFVIG-GYTDPKGSRS-GFGSLLLG 445 (860)
T ss_pred HHHcCCceEEEeCCCCCCCCCCCCCcEEEecC--CCceEEEE-EEeCCCCccc-cceeEEEE
Confidence 37899999999999999999999999999984 56788763 3333333211 24666665
No 20
>PHA00454 ATP-dependent DNA ligase
Probab=99.88 E-value=8.6e-22 Score=203.20 Aligned_cols=238 Identities=17% Similarity=0.174 Sum_probs=154.3
Q ss_pred CCCe-eecccccccccccc--CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCC-----------
Q psy9353 263 PGSQ-PVSMDRNNIGYLAE--KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPN----------- 328 (543)
Q Consensus 263 PG~q-PVsl~r~~l~~l~~--~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~----------- 328 (543)
|+++ -|+|+.+++..... ..|++++|+||+|+++++++++++.|++|+++. ||+...+.
T Consensus 6 ~~~~~~~~~~~~~i~~~~~~~g~~~~E~K~DG~R~~~~~~~~~~v~l~SR~g~~-------~p~l~~~~~~~~~~~~~~~ 78 (315)
T PHA00454 6 TNPFRAVDFNESAIEKALEKAGYLIADVKYDGVRGNIVVDNTADHGWLSREGKT-------IPALEHLNGFDRRWAKLLN 78 (315)
T ss_pred CCccccccCCHHHHHHHHHhCCcEEEEEccceEEEEEEEcCCCeEEEEeCCCCc-------ccchhhhhhhhhhhhhhhh
Confidence 5555 68899988875433 246666699999999999653359999999974 34322110
Q ss_pred ---cCC-CCeEEEEEEEEeccC------------------CccccEEEEEEEEEEC----Cccc---cCCCHHHHHHHHH
Q psy9353 329 ---KRL-TNTLLDGEMVIDRVQ------------------GQNIPRYLVYDIIRFD----NNDV---TRQKFTTRIQIIK 379 (543)
Q Consensus 329 ---~~~-~~tlLDGElV~d~~~------------------~~~~~~ylifDil~~~----G~~v---~~~p~~eR~~~L~ 379 (543)
..+ .+++||||+|+...+ .+.++.|+|||+|+++ |.++ ...||.+|.++|+
T Consensus 79 ~~~~~l~~~~vLDGElv~~~~~f~~~~~~l~~k~~~~~~~~~~~v~~~vFDll~l~~~~~g~~l~~l~~~pl~~Rr~~L~ 158 (315)
T PHA00454 79 DDRCIFPDGFMLDGELMVKGVDFNTGSGLLRRKWKVLFELHLKKLHVVVYDVTPLDVLESGEDYDVMSLLMYEHVRAMVP 158 (315)
T ss_pred hhhhcCCCCeEEEEEEEecCCCHHHHHHHhccCccchhhhccCceEEEEEEeeEeccccCCccccccccccHHHHHHHHH
Confidence 112 478999999985211 0235689999999999 5554 7899999999998
Q ss_pred HhhhhhhHHHhhhhccccCCCCeEEEeccccc---hhhHhhhhccccccccCCceEEEeeCCCCcccCCCcceEEecCCc
Q psy9353 380 VEIIEPRHRAMENSRINKLAEPFSVRVKDFWS---VDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHT 456 (543)
Q Consensus 380 ~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~---~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~ 456 (543)
+.+. +.. ...++..+.+. .....++++ -.+.++.||||+|..+++|.+|++..|+|+|+.
T Consensus 159 ~l~~-~~~-------------~~~~~~~~~~~~~~~~~~~~~~~--~~~~~g~EGiv~K~~ds~Y~~Grr~~~~K~K~~- 221 (315)
T PHA00454 159 LLME-YFP-------------EIDWFLSESYEVYDMESLQELYE--KKRAEGHEGLVVKDPSLIYRRGKKSGWWKMKPE- 221 (315)
T ss_pred HHHh-hCC-------------CcceEeeceEEcCCHHHHHHHHH--HHHhCCCceEEEeCCCCCCCCCCccCcEEEccc-
Confidence 7442 110 00122333332 234556665 137899999999999999999988789999984
Q ss_pred ceeEEEEEEEEeecCCC-ccccceeeEeeccCCcccccceeEEccc-----------------ccccCCcEEEEEEe---
Q psy9353 457 MNSIDFLMKIETRSGLG-ILPTKVGKLYAGSNRSQQQFAEMKITKA-----------------TKDLDGKIVECKWE--- 515 (543)
Q Consensus 457 ~ntvDF~l~~~~~~~~g-~~~~~~~~L~v~~~~~~~~f~~~~~t~e-----------------~~~~~g~IvEc~~~--- 515 (543)
.++|++|.-...+..| .....++.+++...++. .+.+.++|++ ..+..+.|+|+.|.
T Consensus 222 -~~~d~vIvG~~~g~g~~~~~g~~~~~~~~~~~g~-l~~gtGfs~~~~~~l~~~l~~~~~~~~~~p~~~~v~eV~y~e~T 299 (315)
T PHA00454 222 -CEADGTIVGVVWGTPGLANEGKVIGFRVLLEDGR-VVNATGISRALMEEFTANVKEHGEDYEAMPYNGRACQVSYMERT 299 (315)
T ss_pred -CceeEEEEEEEECCCCccCCceEEEEEEEeCCCc-EEEccCCCHHHHHHHHHHHHhhccCccccCCCCeEEEEEEEEcC
Confidence 5999987544332212 11233455454322111 1113334332 12567889999997
Q ss_pred -CCe---eEEEEeeC
Q psy9353 516 -NNQ---WVFMRERT 526 (543)
Q Consensus 516 -~g~---W~f~R~R~ 526 (543)
+|. .+|.++|+
T Consensus 300 ~~g~lR~P~F~g~Rd 314 (315)
T PHA00454 300 PDGSLRHPSFDRFRD 314 (315)
T ss_pred CCCcccCceeeeeec
Confidence 443 88888885
No 21
>PRK01109 ATP-dependent DNA ligase; Provisional
Probab=99.88 E-value=3.1e-22 Score=222.26 Aligned_cols=184 Identities=18% Similarity=0.280 Sum_probs=131.3
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-CcC--CCCeEEEEEEEE-eccCCc--------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-NKR--LTNTLLDGEMVI-DRVQGQ-------- 348 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-~~~--~~~tlLDGElV~-d~~~~~-------- 348 (543)
.+|++++|+||.|++++++ .+++.+++|+++.+ +..||+.... ... ..++|||||||+ ++.+|.
T Consensus 248 ~~~~~E~K~DG~R~qih~~-~~~v~l~SR~~~d~---T~~~pel~~~~~~~~~~~~~ILDGElv~~d~~~g~~~~F~~l~ 323 (590)
T PRK01109 248 GEALVEYKYDGERAQIHKK-GDKVKIFSRRLENI---THQYPDVVEYAKEAIKAEEAIVEGEIVAVDPETGEMRPFQELM 323 (590)
T ss_pred CCeEEEecCCceEEEEEEc-CCEEEEEeCCchhh---ccccchHHHHHHHhcCccceEEeeeEEEEECCCCcccChHHHh
Confidence 4699999999999999997 47999999999876 4689987542 121 368999999998 422221
Q ss_pred --------------cccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEe-ccccchh
Q psy9353 349 --------------NIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRV-KDFWSVD 413 (543)
Q Consensus 349 --------------~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~-k~~~~~~ 413 (543)
.++.|++||||++||+++++.||.+|+++|++.+. +. ..+.+.. ...-...
T Consensus 324 ~R~r~~~~~~~~~~~p~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~-~~-------------~~~~~~~~~~~~~~~ 389 (590)
T PRK01109 324 HRKRKYDIEEAIKEYPVNVFLFDLLYVDGEDLTDKPLPERRKKLEEIVK-EN-------------DKVKLAERIITDDVE 389 (590)
T ss_pred hcccccchhhhcccCceEEEEEEEEEECCcchhhCcHHHHHHHHHHhcC-CC-------------CceEEeeeEecCCHH
Confidence 24579999999999999999999999999998553 21 1121111 1112233
Q ss_pred hHhhhhccccccccCCceEEEeeC--CCCcccC-CCcceEEecCC----cceeEEEEEEEEeecCCCccccceeeEeec
Q psy9353 414 KAGYLLSDKFTLCHEPDGLIFQPV--DEPYVMG-KAVDTLKWKPH----TMNSIDFLMKIETRSGLGILPTKVGKLYAG 485 (543)
Q Consensus 414 ~~~~ll~~~~~~~h~~DGLIf~~~--~spY~~G-~~~~~lKWKp~----~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~ 485 (543)
.+.++|+ .++.++.||||.|+. +++|.+| |..+|+|+|+. ...|+|+++.-... +.|.-...+|.+.++
T Consensus 390 ~~~~~~~--~a~~~g~EGiv~K~~~~ds~Y~~g~Rs~~WlK~K~dy~~~~~~~~DlvviG~~~-g~Gkr~~~~g~~ll~ 465 (590)
T PRK01109 390 ELEKFFH--RAIEEGCEGLMAKSLGKDSIYQAGARGWLWIKYKRDYQSEMADTVDLVVVGAFY-GRGRRGGKYGSLLMA 465 (590)
T ss_pred HHHHHHH--HHHHcCCceEEEecCCCCCCcCCCCCCccHHHhhHHhhcccCCceeEEEEEeEe-CCCccCCccccEEEE
Confidence 4556665 237899999999999 9999999 55689999973 35689998755443 334333344555554
No 22
>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=99.88 E-value=1.4e-22 Score=194.61 Aligned_cols=153 Identities=18% Similarity=0.305 Sum_probs=115.4
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCc--CCCCeEEEEEEEEeccC-----------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNK--RLTNTLLDGEMVIDRVQ----------- 346 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~--~~~~tlLDGElV~d~~~----------- 346 (543)
..+|++++|+||+|+++++++ +++.+++|+++.+ +..||+..+... ...+++||||||+-..+
T Consensus 15 ~~~~~~e~K~DG~R~~i~~~~-~~v~~~SR~g~~~---t~~~p~l~~~~~~~~~~~~iLDGElv~~~~~~~~~F~~l~~~ 90 (190)
T cd07906 15 GEDWLYEIKWDGYRALARVDG-GRVRLYSRNGLDW---TARFPELAEALAALPVRDAVLDGEIVVLDEGGRPDFQALQNR 90 (190)
T ss_pred CCCeEEEEeEceEEEEEEEEC-CEEEEEcCCCCcc---hhhhHHHHHHHHhcCCCCEEEEeEEEEECCCCCCCHHHHHHh
Confidence 358999999999999999974 6999999999976 346886543211 34789999999983221
Q ss_pred --------CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhh
Q psy9353 347 --------GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYL 418 (543)
Q Consensus 347 --------~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~l 418 (543)
....+.|+|||||+++|+++.++||.+|+++|++.+. +. ..++. ........ .+.+
T Consensus 91 ~~~~~~~~~~~~~~~~vFDil~~~~~~~~~~p~~eR~~~L~~~~~-~~------------~~~i~--~~~~~~~~-~~~~ 154 (190)
T cd07906 91 LRLRRRLARTVPVVYYAFDLLYLDGEDLRGLPLLERKELLEELLP-AG------------SPRLR--VSEHFEGG-GAAL 154 (190)
T ss_pred hcccchhcccCceEEEEEeeeeeCCcchhhCCHHHHHHHHHHHhc-cC------------CCcEE--ECceEcCC-HHHH
Confidence 2245789999999999999999999999999998553 21 11222 22222222 2455
Q ss_pred hccccccccCCceEEEeeCCCCcccCC-CcceEEecC
Q psy9353 419 LSDKFTLCHEPDGLIFQPVDEPYVMGK-AVDTLKWKP 454 (543)
Q Consensus 419 l~~~~~~~h~~DGLIf~~~~spY~~G~-~~~~lKWKp 454 (543)
++. .+.++.||||+|..++||.+|+ +..|+|||+
T Consensus 155 ~~~--~~~~g~EGiv~K~~~s~Y~~g~rs~~wlK~K~ 189 (190)
T cd07906 155 FAA--ACELGLEGIVAKRADSPYRSGRRSRDWLKIKC 189 (190)
T ss_pred HHH--HHHcCCcEEEEecCCCCcCCCCCCCccEEEec
Confidence 541 2688999999999999999998 678999996
No 23
>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=99.88 E-value=3.6e-22 Score=189.69 Aligned_cols=162 Identities=15% Similarity=0.200 Sum_probs=137.6
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCCCCeEEEEEEEEeccCCccccEEEEEEEE
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRLTNTLLDGEMVIDRVQGQNIPRYLVYDII 359 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~~~tlLDGElV~d~~~~~~~~~ylifDil 359 (543)
..+|+|-+-.-|+||||++. +|.+++++|+|.++...+..||...... ++|||+|.|..-+...++|+|+|||
T Consensus 20 ~~~w~~~~~P~G~R~lvv~~-~g~t~~~~r~g~~~~~f~s~lP~g~~~~------~~~g~tILDci~~~~~~~yyVlDii 92 (186)
T cd09232 20 SEEWLVVPCPVGKRCLVVAS-KGKTVARSKNGRTLHRFSSALPGGSRKT------SNSGYTILDCIYNEDDRTYYVLDVL 92 (186)
T ss_pred CcceEEEECcCceEEEEEEe-CCEEEEEeCCCCEEEecccCCCCCCcCC------CCCCCEEEEEecCCCCCEEEEEEEe
Confidence 45899999999999999997 6899999999999877677888653321 6788888887655566899999999
Q ss_pred EECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccc--c---ccCCceEEE
Q psy9353 360 RFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFT--L---CHEPDGLIF 434 (543)
Q Consensus 360 ~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~--~---~h~~DGLIf 434 (543)
.++|+++.+.++.-|+..|+..+.+++...+ ....++|+++.++||+.+. +.|++.+. + .|+.|||+|
T Consensus 93 ~w~g~~l~d~~~~~Rf~wl~skl~E~~~~~~-----~~~~~~~~f~~~p~~~~~~--~~l~~~~~~~~~~~~~e~DGLlF 165 (186)
T cd09232 93 CWNGHPLYDCETEFRFFWLRSKLEELPELDE-----PSEKNPFRFVPLPYFPCTK--ESLQSAYSGPLNDDPYELDGLLF 165 (186)
T ss_pred eeCCcccccCCcchhHHHHHhhCCCcccccc-----ccccCCceEEecCcccCcH--HHHHHHHhcccccCCCCCceEEE
Confidence 9999999999999999999999988775443 3567899999999999986 34443454 6 899999999
Q ss_pred eeCCCCcccCCCcceEEecCC
Q psy9353 435 QPVDEPYVMGKAVDTLKWKPH 455 (543)
Q Consensus 435 ~~~~spY~~G~~~~~lKWKp~ 455 (543)
++.++.|++|+++.++||||.
T Consensus 166 yhk~~~Y~~G~tPlvl~wKp~ 186 (186)
T cd09232 166 YHKESHYTPGSTPLVLWLKDY 186 (186)
T ss_pred EeCCCcccCcCCCcEEEecCC
Confidence 999999999999999999983
No 24
>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=99.88 E-value=2e-22 Score=196.21 Aligned_cols=153 Identities=22% Similarity=0.351 Sum_probs=114.8
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-CcCC--CCeEEEEEEEEeccCC---------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-NKRL--TNTLLDGEMVIDRVQG--------- 347 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-~~~~--~~tlLDGElV~d~~~~--------- 347 (543)
..+|++++|+||.|+++++++ +++.+++|++..+ +-.||+.... .... .+++||||||+-..+|
T Consensus 24 ~~~~~~E~K~DG~R~~~~~~~-~~v~~~SR~~~~~---t~~~pel~~~~~~~~~~~~~iLDGElv~~~~~g~~~~F~~l~ 99 (207)
T cd07901 24 GGEAAVEYKYDGIRVQIHKDG-DEVRIFSRRLEDI---TNALPEVVEAVRELVKAEDAILDGEAVAYDPDGRPLPFQETL 99 (207)
T ss_pred CCcEEEEEeEcceeEEEEEeC-CEEEEEeCCCccc---cchhhHHHHHHHhcCCCCCEEEeCEEEEECCCCCccCHHHHH
Confidence 458999999999999999974 6999999999865 4578876542 1222 6899999999843111
Q ss_pred --------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccc--
Q psy9353 348 --------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWS-- 411 (543)
Q Consensus 348 --------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~-- 411 (543)
..++.|+|||||+++|++++++||.+|++.|++.+. +. ..+.+ ...+.
T Consensus 100 ~r~~~~~~~~~~~~~~~~~~~vFDil~~~g~~l~~~pl~eR~~~L~~~~~-~~-------------~~i~~--~~~~~~~ 163 (207)
T cd07901 100 RRFRRKYDVEEAAEEIPLTLFLFDILYLDGEDLLDLPLSERRKILEEIVP-ET-------------EAILL--APRIVTD 163 (207)
T ss_pred HHhccccchhhhhccCcEEEEEEEEEEECCcchhcCCHHHHHHHHHHhcC-cC-------------CcEEE--EEEEecC
Confidence 124689999999999999999999999999998653 21 11111 11122
Q ss_pred -hhhHhhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecC
Q psy9353 412 -VDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKP 454 (543)
Q Consensus 412 -~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp 454 (543)
...+.++++. .+.++.||||+|..+++|.+| |...||||||
T Consensus 164 ~~~~~~~~~~~--~~~~g~EGiv~K~~~s~Y~~g~Rs~~wlK~K~ 206 (207)
T cd07901 164 DPEEAEEFFEE--ALEAGHEGVMVKSLDSPYQAGRRGKNWLKVKP 206 (207)
T ss_pred CHHHHHHHHHH--HHHcCCceEEEeCCCCCcCCCCCCCCeEEecC
Confidence 2344555551 278999999999999999999 5678999998
No 25
>PRK09125 DNA ligase; Provisional
Probab=99.88 E-value=8.5e-22 Score=199.76 Aligned_cols=212 Identities=23% Similarity=0.298 Sum_probs=146.5
Q ss_pred ccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCCCCeEEEEEEEEecc------------C
Q psy9353 279 AEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRLTNTLLDGEMVIDRV------------Q 346 (543)
Q Consensus 279 ~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~~~tlLDGElV~d~~------------~ 346 (543)
...+|++++|+||+|++ + +++.|++|+++.+ ++ |+. ....+++++||||||+... .
T Consensus 41 ~~~~~~~E~K~DG~R~~--~---~~v~l~SR~g~~i--t~---p~~--~~~~~~~~vLDGElv~~~~~F~~l~~r~~~k~ 108 (282)
T PRK09125 41 DISGYLVSEKLDGVRAY--W---DGKQLLTRQGNPI--AA---PAW--FTAGFPPFPLDGELWAGRGQFEAISSIVRDKT 108 (282)
T ss_pred ChhhEEEEeeeeeEeEE--E---CCeEEEcCCCCcC--CC---chh--HHhcCCCccEeEEEEeCCCCHHHHHHHHccCC
Confidence 34589999999999996 4 3589999999865 22 321 1123458899999997321 0
Q ss_pred C----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecccc---chhhHhhhh
Q psy9353 347 G----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFW---SVDKAGYLL 419 (543)
Q Consensus 347 ~----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~---~~~~~~~ll 419 (543)
. ..++.|++||+++++| ||.+|++.|++.+. +. .... +...+.. ....+++++
T Consensus 109 ~~~~~~~~v~~~vFDll~~~g------pl~eRr~~L~~li~-~~-----------~~~~--i~~~~~~~~~~~~~~~~~~ 168 (282)
T PRK09125 109 PDDAAWRKVRFMVFDLPDAPG------DFEERLAVLKKLLA-KL-----------PSPY--IKIIEQIRVRSEAALQQFL 168 (282)
T ss_pred cchhhhcccEEEEEEcCCCCC------CHHHHHHHHHHHHh-hC-----------CCCc--EEEEeEEEcCCHHHHHHHH
Confidence 0 1457999999999876 99999999998652 11 0011 2222222 233445565
Q ss_pred ccccccccCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeeccCCcccccc-eeEE
Q psy9353 420 SDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAGSNRSQQQFA-EMKI 498 (543)
Q Consensus 420 ~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~~~~~~~f~-~~~~ 498 (543)
+ ..+.++.||||+|..+++|.+||+.+|+||||. .++|++|.- ...+.|....++|.|.|+..++. .|. +.++
T Consensus 169 ~--~~~~~G~EGiV~K~~ds~Y~~GRs~~wlKiK~~--~~~d~vIvG-~~~g~Gk~~g~~gsllv~~~~g~-~~~VgsG~ 242 (282)
T PRK09125 169 D--QIVAAGGEGLMLHRPDAPYEAGRSDDLLKLKPY--YDAEATVIG-HLPGKGKFAGMLGALLVETPDGR-EFKIGSGF 242 (282)
T ss_pred H--HHHHcCCCEEEEeCCCCCCcCCCCCCcEEEEec--CCCcEEEEE-EEcCCCcccCceeeEEEEeCCCC-EEEeCCCC
Confidence 5 237899999999999999999998899999984 578998743 33455555556788888754322 122 2345
Q ss_pred cccc---cccCCcEEEEEEe----CCe---eEEEEeeCCC
Q psy9353 499 TKAT---KDLDGKIVECKWE----NNQ---WVFMRERTDK 528 (543)
Q Consensus 499 t~e~---~~~~g~IvEc~~~----~g~---W~f~R~R~DK 528 (543)
|++. +++.|+|+++.|. +|. .+|.++|.|.
T Consensus 243 t~~~r~~~~~~g~~~~V~y~e~t~~g~lR~P~f~g~R~D~ 282 (282)
T PRK09125 243 SDAERENPPKIGSIITYKYRGLTKNGLPRFASFLRVREDE 282 (282)
T ss_pred CHHHhcCCCCCCCEEEEEecccCCCCcccCCEEEEEecCC
Confidence 6543 4678999999997 453 9999999984
No 26
>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=99.88 E-value=4.1e-22 Score=192.03 Aligned_cols=154 Identities=19% Similarity=0.251 Sum_probs=115.6
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-Cc-CCCCeEEEEEEEEeccC-----------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-NK-RLTNTLLDGEMVIDRVQ----------- 346 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-~~-~~~~tlLDGElV~d~~~----------- 346 (543)
..+|++++|+||+|+++++++ +++.|++|+++.+ +..||+..+. .. ...+++||||||+-..+
T Consensus 15 ~~~~~~E~K~DG~R~~~~~~~-~~v~l~SR~g~~~---t~~~p~~~~~~~~~~~~~~iLDGElv~~~~~~~~F~~l~~r~ 90 (194)
T cd07905 15 PGGWQYEPKWDGFRCLAFRDG-DEVRLQSRSGKPL---TRYFPELVAAARALLPPGCVLDGELVVWRGGRLDFDALQQRI 90 (194)
T ss_pred CCceEEEeeeceEEEEEEEeC-CEEEEEeCCCCch---hhhhHHHHHHHHhhCCCCEEEEeEEEEEcCCCCCHHHHHHHh
Confidence 458999999999999999975 6999999999976 3578876542 12 22579999999983211
Q ss_pred -----------CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecccc-chhh
Q psy9353 347 -----------GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFW-SVDK 414 (543)
Q Consensus 347 -----------~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~-~~~~ 414 (543)
...+++|++||+|+++|+++++.||.+|++.|++.+. +. ...+.+ .+.. ....
T Consensus 91 ~~~~~~~~~~~~~~~~~~~vFDiL~l~g~~l~~~pl~eRr~~L~~~~~-~~------------~~~i~~--~~~~~~~~~ 155 (194)
T cd07905 91 HPAASRVRRLAEETPASFVAFDLLALGGRDLRGRPLRERRAALEALLA-GW------------GPPLHL--SPATTDRAE 155 (194)
T ss_pred cccccchhhhhccCCEEEEEEeeeeeCCcccccCCHHHHHHHHHHHhc-cc------------CCCeEE--CCccCCHHH
Confidence 0234689999999999999999999999999998653 21 111222 2222 2234
Q ss_pred HhhhhccccccccCCceEEEeeCCCCcccCCCcceEEecCC
Q psy9353 415 AGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPH 455 (543)
Q Consensus 415 ~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~ 455 (543)
+.++++ ..+.++.||||+|..+++|.+|+ .+|+|+||.
T Consensus 156 ~~~~~~--~~~~~g~EGiv~K~~~s~Y~~Gr-~~WlK~K~~ 193 (194)
T cd07905 156 AREWLE--EFEGAGLEGVVAKRLDGPYRPGE-RAMLKVKHR 193 (194)
T ss_pred HHHHHH--HHHHCCCceEEEeCCCCCcCCCC-CcEEEEecc
Confidence 455665 23789999999999999999998 689999973
No 27
>PRK07636 ligB ATP-dependent DNA ligase; Reviewed
Probab=99.87 E-value=1e-21 Score=198.68 Aligned_cols=161 Identities=18% Similarity=0.293 Sum_probs=121.8
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCCCCeEEEEEEEEeccCC------------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRLTNTLLDGEMVIDRVQG------------ 347 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~~~tlLDGElV~d~~~~------------ 347 (543)
..+|++++|+||+|+++++. ++++.|++|+++.+ +-.||+..+... ..+++||||||.-..+|
T Consensus 17 ~~~~~~E~K~DG~R~~~~~~-~~~v~l~SR~g~~~---t~~fPe~~~~~~-~~~~vLDGElv~~d~~g~~~F~~l~~r~~ 91 (275)
T PRK07636 17 SENYITEPKFDGIRLIASKN-NGLIRLYTRHNNEV---TAKFPELLNLDI-PDGTVLDGELIVLGSTGAPDFEAVMERFQ 91 (275)
T ss_pred CCcEEEEEEEceeEEEEEEe-CCEEEEEeCCCCCc---hhhhhhHHhhhc-CCCEEEEeEEEEECCCCCCCHHHHHHHhc
Confidence 45899999999999999886 47999999999977 457998755322 25799999999832211
Q ss_pred ------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhcc
Q psy9353 348 ------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSD 421 (543)
Q Consensus 348 ------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~ 421 (543)
+.++.|++||+|++||++++++||.+|+++|++.+. |. .++ ...+... .....+++
T Consensus 92 ~~~~~~~~~~~~~vFDlL~~~g~~l~~~pl~eRr~~L~~~~~-~~-------------~~~--~~~~~~~-~~~~~~~~- 153 (275)
T PRK07636 92 SKKSTKIHPVVFCVFDVLYINGVSLTALPLSERKEILASLLL-PH-------------PNV--KIIEGIE-GHGTAYFE- 153 (275)
T ss_pred cccccccCceEEEEEEeEEECceehhhCCHHHHHHHHHHhcC-CC-------------CCE--EEccccc-ccHHHHHH-
Confidence 134589999999999999999999999999998653 21 111 1222222 23445665
Q ss_pred ccccccCCceEEEeeCCCCcccC-CCcceEEecCCcceeEEEEEEE
Q psy9353 422 KFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHTMNSIDFLMKI 466 (543)
Q Consensus 422 ~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~~ntvDF~l~~ 466 (543)
....++.||||+|..+|+|.+| |+.+|+|.|. ..++|++|.-
T Consensus 154 -~~~~~g~EGiV~K~~ds~Y~~g~Rs~~WlKiK~--~~~~e~vV~G 196 (275)
T PRK07636 154 -LVEERELEGIVIKKANSPYEINKRSDNWLKVIN--YQYTDVLITG 196 (275)
T ss_pred -HHHHcCCcEEEEeCCCCCCCCCCCCCCeEEEec--CCeEEEEEEE
Confidence 2367999999999999999999 5678999996 5799998743
No 28
>PRK09633 ligD ATP-dependent DNA ligase; Reviewed
Probab=99.87 E-value=1.5e-21 Score=215.61 Aligned_cols=172 Identities=15% Similarity=0.134 Sum_probs=122.3
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCC----cC---CCCeEEEEEEEEeccCC-----
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPN----KR---LTNTLLDGEMVIDRVQG----- 347 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~----~~---~~~tlLDGElV~d~~~~----- 347 (543)
..+|++++|+||.|+++++++ +++.|++|+++.+ +-+||+..+.. .+ ...+|||||||+-..+|
T Consensus 15 g~~w~~E~K~DG~R~~~h~~~-~~V~L~SRng~d~---T~~fPel~~~~~~~~~~~~~~~~~ILDGEiVvld~~g~~~F~ 90 (610)
T PRK09633 15 GDEWRYEVKYDGFRCLLIIDE-TGITLISRNGREL---TNTFPEIIEFCESNFEHLKEELPLTLDGELVCLVNPYRSDFE 90 (610)
T ss_pred CCcEEEEEeEcceEEEEEEEC-CEEEEEeCCCCcc---hhhhhHHHHHHHhhhhccccCCceeeeeEEEEecCCCCCCHH
Confidence 357999999999999999964 6899999999976 56899864321 11 13689999999832110
Q ss_pred -------------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEecc
Q psy9353 348 -------------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKD 408 (543)
Q Consensus 348 -------------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~ 408 (543)
..++.|++||+|++||+++++.||.+|++.|++.+. +...... .......+ +...+
T Consensus 91 ~Lq~R~~~~~~~~i~~~~~~~pv~~~vFDlL~lnG~dL~~~PL~eRr~~L~~ll~-~~~~~~~--~~~~~~~~--i~~~~ 165 (610)
T PRK09633 91 HVQQRGRLKNTEVIAKSANARPCQLLAFDLLELKGESLTSLPYLERKKQLDKLMK-AAKLPAS--PDPYAKAR--IQYIP 165 (610)
T ss_pred HHHhhhhccccchhhhhhcccceEEEEEeecccCCcccccCCHHHHHHHHHHHhh-hcccccc--cccccccc--eEEcC
Confidence 123589999999999999999999999999998653 2110000 00000111 22222
Q ss_pred ccchhhHhhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecCCcceeEEEEEEE
Q psy9353 409 FWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHTMNSIDFLMKI 466 (543)
Q Consensus 409 ~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~~ntvDF~l~~ 466 (543)
.+ ...+.+|+ .++.++.||||+|..+|+|.+| |+.+|+|+|+ ..++||+|.-
T Consensus 166 ~~--~~~~~l~~--~a~~~g~EGIV~Kr~dS~Y~~G~Rs~~WlKiK~--~~~~d~vI~G 218 (610)
T PRK09633 166 ST--TDFDALWE--AVKRYDGEGIVAKKKTSKWLENKRSKDWLKIKN--WRYVHVIVTG 218 (610)
T ss_pred CH--HHHHHHHH--HHHHcCCceEEEeCCCCCCCCCCCCCCeEEEec--cCCceeEEEE
Confidence 22 24556766 2368899999999999999999 6678999998 5788998643
No 29
>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=99.87 E-value=5.2e-22 Score=194.01 Aligned_cols=154 Identities=18% Similarity=0.283 Sum_probs=111.9
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCC-CC---cCCCCeEEEEEEEE-eccCC--------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKD-PN---KRLTNTLLDGEMVI-DRVQG-------- 347 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~-~~---~~~~~tlLDGElV~-d~~~~-------- 347 (543)
.+|++++|+||+|+++++++ +++.+++|++..+ ++..||+..+ .. ....++|||||||+ |..+|
T Consensus 34 ~~~~~E~K~DG~R~~i~~~~-~~v~l~SR~g~~~--t~~~~~~~~~~~~~~~~~~~~~iLDGEiv~~d~~~g~~~~F~~l 110 (213)
T cd07902 34 NGMYAEIKYDGERVQVHKQG-DNFKFFSRSLKPV--LPHKVAHFKDYIPKAFPHGHSMILDSEVLLVDTKTGKPLPFGTL 110 (213)
T ss_pred CceEEEeccCCEEEEEEEcC-CEEEEEcCCCccc--ccchhHHHHHHHHHhcccccceeeeeEEEEEECCCCcccccchh
Confidence 46999999999999998864 7999999999865 2223554322 11 11468999999998 32111
Q ss_pred ---------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccc---hhhH
Q psy9353 348 ---------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWS---VDKA 415 (543)
Q Consensus 348 ---------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~---~~~~ 415 (543)
...+.|++||||+++|.+++++||.+|++.|++.+. +. ..+ +...++.. ...+
T Consensus 111 ~~~~~~~~~~~~v~~~vFDiL~l~g~~l~~~pl~eR~~~L~~~~~-~~------------~~~--~~~~~~~~~~~~~~l 175 (213)
T cd07902 111 GIHKKSAFKDANVCLFVFDCLYYNGESLMDKPLRERRKILEDNMV-EI------------PNR--IMLSEMKFVKKADDL 175 (213)
T ss_pred hhhhccccccCceEEEEEEEeeeCCcchhcCcHHHHHHHHHHhcc-CC------------CCe--EEEEEEEEcCCHHHH
Confidence 124689999999999999999999999999998652 11 011 22222222 2344
Q ss_pred hhhhccccccccCCceEEEeeCCCCcccCCCcceEEecCC
Q psy9353 416 GYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKPH 455 (543)
Q Consensus 416 ~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp~ 455 (543)
.++++ ....++.||||+|..+++|.+|++ .|+||||.
T Consensus 176 ~~~~~--~~~~~g~EGvV~K~~~s~Y~~G~r-~W~K~K~d 212 (213)
T cd07902 176 SAMIA--RVIKEGLEGLVLKDLKSVYEPGKR-HWLKVKKD 212 (213)
T ss_pred HHHHH--HHHHCCCCeEEEeCCCCCccCCCC-CceEeCCC
Confidence 55555 127899999999999999999987 79999984
No 30
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=99.85 E-value=7.5e-21 Score=184.66 Aligned_cols=144 Identities=18% Similarity=0.254 Sum_probs=114.2
Q ss_pred cc-ccccccCCeeeEEeecCCCCCC-CchhHh-cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHH
Q psy9353 29 YN-KSEVEENDIAYIKIQCEGHKEA-PNEKQT-RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTR 105 (543)
Q Consensus 29 Y~-~~~i~~~G~~~~Ki~c~gr~~~-p~~es~-~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~ 105 (543)
|+ ..+++..++..+-+..+..... .+++.+ ..+|+.||++|. +.|+++++++.||+|+++|++|+ .+|+.+.+.
T Consensus 81 ~~~~~~ie~~~~rfLi~~~P~~~~~~~yl~eLk~~gV~~lVrlcE--~~Yd~~~~~~~GI~~~~lpipDg-~aPs~~~i~ 157 (241)
T PTZ00393 81 LNHPTKIEHGKIKILILDAPTNDLLPLYIKEMKNYNVTDLVRTCE--RTYNDGEITSAGINVHELIFPDG-DAPTVDIVS 157 (241)
T ss_pred cccchhhccCceeEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCC--CCCCHHHHHHcCCeEEEeecCCC-CCCCHHHHH
Confidence 55 4445555554444444333322 233443 589999999985 58899999999999999999995 799999999
Q ss_pred HHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhC
Q psy9353 106 VFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYD 179 (543)
Q Consensus 106 ~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~ 179 (543)
+|+++++++++ +++.|+|||+||.||||+|+|+|||+ .||++++|++.++++||++|. ..+++.|.++..
T Consensus 158 ~~l~~i~~~l~--~g~~VaVHC~AGlGRTGtl~AayLI~-~GmspeeAI~~VR~~RPgAIn-~~Q~~fL~~y~~ 227 (241)
T PTZ00393 158 NWLTIVNNVIK--NNRAVAVHCVAGLGRAPVLASIVLIE-FGMDPIDAIVFIRDRRKGAIN-KRQLQFLKAYKK 227 (241)
T ss_pred HHHHHHHHHHh--cCCeEEEECCCCCCHHHHHHHHHHHH-cCCCHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Confidence 99999998875 46789999999999999999999998 599999999999999999984 566666655443
No 31
>KOG1720|consensus
Probab=99.85 E-value=6.9e-21 Score=178.71 Aligned_cols=115 Identities=23% Similarity=0.397 Sum_probs=103.8
Q ss_pred cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHH
Q psy9353 59 RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLL 138 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~i 138 (543)
+.+++.++.|++ +-||++.+++.||.++.+|+.| |.+|+++.+.+|+++++..++ ++.|+|||++|+||||+||
T Consensus 92 ~~~v~s~vrln~--~~yd~~~f~~~Gi~h~~l~f~D-g~tP~~~~v~~fv~i~e~~~~---~g~iaVHCkaGlGRTG~li 165 (225)
T KOG1720|consen 92 NNNVTSIVRLNK--RLYDAKRFTDAGIDHHDLFFAD-GSTPTDAIVKEFVKIVENAEK---GGKIAVHCKAGLGRTGTLI 165 (225)
T ss_pred hcccceEEEcCC--CCCChHHhcccCceeeeeecCC-CCCCCHHHHHHHHHHHHHHHh---cCeEEEEeccCCCchhHHH
Confidence 688999999985 6899999999999999999999 799999999999999998775 6899999999999999999
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhC
Q psy9353 139 ISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYD 179 (543)
Q Consensus 139 a~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~ 179 (543)
|||||+..+||+.|||+.+|..||++|..+..-..+++.+.
T Consensus 166 Ac~lmy~~g~ta~eaI~~lR~~RpG~V~gpqQ~~l~~~q~~ 206 (225)
T KOG1720|consen 166 ACYLMYEYGMTAGEAIAWLRICRPGAVIGPQQHKLLHKQRD 206 (225)
T ss_pred HHHHHHHhCCCHHHHHHHHHhcCCccccCHHHHHHHHHHHH
Confidence 99999999999999999999999999987655555544443
No 32
>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]
Probab=99.85 E-value=2e-20 Score=200.26 Aligned_cols=165 Identities=17% Similarity=0.282 Sum_probs=123.4
Q ss_pred CcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCC-CCCCCc--CCCCeEEEEEEEEeccC------------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPH-RKDPNK--RLTNTLLDGEMVIDRVQ------------ 346 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~-~~~~~~--~~~~tlLDGElV~d~~~------------ 346 (543)
+|.+++|+||+|+++++++ +++.|++|++..+ +-.||. ...... ...++|||||+|+....
T Consensus 134 ~w~~E~K~DG~R~q~h~~~-~~vrl~SR~g~d~---T~~fP~~~~~~~~~l~~~~~iiDGE~V~~~~~~~~~F~~Lq~r~ 209 (444)
T COG1793 134 DWAYEEKFDGYRVQIHIDG-GKVRLYSRNGEDW---TGRFPDILEAAAEALPADDFILDGEIVVLDEEGRLDFQALQQRL 209 (444)
T ss_pred CEEEEEeeceEEEEEEEcC-CEEEEEeCCCccc---hhhChHHHHHHHhcCCCCceEEeeeEEEECCCCCCCHHHHHHHh
Confidence 6999999999999999975 5999999999866 457993 322211 23579999999995311
Q ss_pred ----------CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEE-EeccccchhhH
Q psy9353 347 ----------GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSV-RVKDFWSVDKA 415 (543)
Q Consensus 347 ----------~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i-~~k~~~~~~~~ 415 (543)
...+..|++||+|+++|++++.+||.+|++.|++.+... . ++.+ ....+......
T Consensus 210 ~~k~~v~~~~~~~~~~~~aFDlL~~dG~dL~~~pl~eRr~~Le~lv~~~--~------------~~~~~~~i~~~~~~~~ 275 (444)
T COG1793 210 RRKYDVAKLRRETPLVLFAFDLLYLDGEDLRGLPLEERRALLEELVKSS--D------------KIEIAERIPFSDAEEG 275 (444)
T ss_pred hhccchhhhccCCceEEEEEEEEeECCcccccCchHHHHHHHHHHhccc--c------------ccccccceeccChhhH
Confidence 012558999999999999999999999999999866421 0 0000 01112333455
Q ss_pred hhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecCCcceeEEEEEEEEe
Q psy9353 416 GYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHTMNSIDFLMKIET 468 (543)
Q Consensus 416 ~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~~ntvDF~l~~~~ 468 (543)
..+|+ .+..++.||+|.|..++||.+| +...|+|||+. .|.||.|.-..
T Consensus 276 ~~~~~--~a~~~g~EGvv~K~~ds~Y~~g~R~~~W~K~K~~--~~~d~vv~G~~ 325 (444)
T COG1793 276 EAFLE--AAIELGLEGVVAKRPDSPYRAGGRSNKWLKVKRD--ETLDLVVVGAE 325 (444)
T ss_pred HHHHH--HHHhcCceEEEEeCCCCCcCCCCCCCcceEeccC--CcccEEEEEEE
Confidence 56666 3478999999999999999966 57789999995 89999885544
No 33
>PTZ00242 protein tyrosine phosphatase; Provisional
Probab=99.85 E-value=1e-20 Score=177.50 Aligned_cols=116 Identities=23% Similarity=0.282 Sum_probs=102.8
Q ss_pred cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhh--CCCCeEEEEcCCCCChhHH
Q psy9353 59 RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISK--SPLEKIGVHCTHGFNRTGF 136 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~--~~~~~V~VHC~~G~~RTG~ 136 (543)
..+|++|+++|. +.|+++.++..|++|.++|+.|+ .+|+.+.+..|++.++++++. .+++.|+|||.||+||||+
T Consensus 38 ~~gI~~Iv~l~~--~~~~~~~~~~~gi~~~~~p~~D~-~~P~~~~i~~~~~~i~~~~~~~~~~g~~V~VHC~aGigRSgt 114 (166)
T PTZ00242 38 RYNVTHLVRVCG--PTYDAELLEKNGIEVHDWPFDDG-APPPKAVIDNWLRLLDQEFAKQSTPPETIAVHCVAGLGRAPI 114 (166)
T ss_pred hCCCeEEEecCC--CCCCHHHHHHCCCEEEecCCCCC-CCCCHHHHHHHHHHHHHHHHhhccCCCeEEEECCCCCCHHHH
Confidence 479999999985 57888889999999999999985 799999999999999999876 5789999999999999999
Q ss_pred HHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHh
Q psy9353 137 LLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRY 178 (543)
Q Consensus 137 ~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y 178 (543)
++|+|||+..++++++|++.++++||.++. +.+++.|.++.
T Consensus 115 ~~a~yL~~~~~~s~~eAi~~vr~~R~~~i~-~~Q~~~l~~~~ 155 (166)
T PTZ00242 115 LVALALVEYGGMEPLDAVGFVREKRKGAIN-QTQLQFLKKYK 155 (166)
T ss_pred HHHHHHHHhCCCCHHHHHHHHHHHCCCCch-HHHHHHHHHHH
Confidence 999999999889999999999999999884 55666554433
No 34
>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=99.82 E-value=2.7e-20 Score=180.04 Aligned_cols=155 Identities=22% Similarity=0.305 Sum_probs=110.9
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCC-----CCcCCCCeEEEEEEEE-eccC-------
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKD-----PNKRLTNTLLDGEMVI-DRVQ------- 346 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~-----~~~~~~~tlLDGElV~-d~~~------- 346 (543)
..+|++++|+||+|+++... ++++.+++|++..+ +..||+... +.....+++||||||. |...
T Consensus 18 ~~~~~~e~K~DG~R~~i~~~-~~~v~~~SR~g~~~---~~~~~~l~~~l~~~~~~~~~~~vLDGElv~~d~~~~~~~~f~ 93 (202)
T PF01068_consen 18 GGPWYVEPKYDGVRCQIHKD-GGGVRLFSRNGKDI---TSQFPELAEALRELLFPDGPDFVLDGELVVLDPNTGSPLPFQ 93 (202)
T ss_dssp TSCEEEEEEESSEEEEEEEE-TTEEEEEETTSSB----GGGHHHHHHHHHHHBCTSCTEEEEEEEEEEBETTTSSBCCHH
T ss_pred CCCeEEEEeEeeEEeeeeec-cccceeecccccch---hhHHHHHHHHHHHHhcCCCCceEEEEEEEEEecCCCcchhHH
Confidence 56899999999999998885 57999999999976 234554421 1122356999999999 3211
Q ss_pred ----------C-----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeE-EEecccc
Q psy9353 347 ----------G-----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFS-VRVKDFW 410 (543)
Q Consensus 347 ----------~-----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~-i~~k~~~ 410 (543)
. ...+.|+|||+|+++|.++++.||.+|++.|++.+..+. ..+. +......
T Consensus 94 ~~~~~~~~~~~~~~~~~~~~~~~vFDil~l~~~~l~~~p~~eR~~~L~~~~~~~~-------------~~i~~~~~~~~~ 160 (202)
T PF01068_consen 94 ELSGRLNRRSKKIPEQSEPLQFVVFDILYLDGKDLLDLPYEERRELLEELLEPPP-------------PRIRIVESYVVN 160 (202)
T ss_dssp HHHHHHBHSSSCHHHHHSCEEEEEEEEEEETTEECTTSCHHHHHHHHHHHBG-BT-------------SSEEEEEEEEES
T ss_pred HHhhhhhhhcccchhccCcEEEEEEEEEEeCCeEeeeccHHHHHHHHHHhhccCC-------------CceeEeeeecCC
Confidence 1 246799999999999999999999999999998662111 1111 1111122
Q ss_pred chhhHhhhhccccccccCCceEEEeeCCCCcccCCC-cceEEec
Q psy9353 411 SVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKA-VDTLKWK 453 (543)
Q Consensus 411 ~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~-~~~lKWK 453 (543)
....+.++++. .+.++.||||++..+++|.+|++ .+|+|+|
T Consensus 161 ~~~~~~~~~~~--~~~~g~EG~v~K~~~~~Y~~Gkrs~~w~K~K 202 (202)
T PF01068_consen 161 SKEELEELFEE--AIDQGFEGLVLKDPDSPYEPGKRSSGWLKVK 202 (202)
T ss_dssp SHHHHHHHHHH--HHHTTSSEEEEEETTSSC-TTEEEEEEEEEE
T ss_pred CHHHHHHHHHH--HHHcCCceEEEECCCCccCCCCcCCCcEEEC
Confidence 33445555551 26899999999999999999976 7899998
No 35
>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=99.80 E-value=1.1e-19 Score=157.11 Aligned_cols=85 Identities=44% Similarity=0.755 Sum_probs=68.6
Q ss_pred cceeEEEEEEEEeecCCCccccceeeE-eeccCCccccc----ceeEEcccccccCCcEEEEEEe--CCeeEEEEeeCCC
Q psy9353 456 TMNSIDFLMKIETRSGLGILPTKVGKL-YAGSNRSQQQF----AEMKITKATKDLDGKIVECKWE--NNQWVFMRERTDK 528 (543)
Q Consensus 456 ~~ntvDF~l~~~~~~~~g~~~~~~~~L-~v~~~~~~~~f----~~~~~t~e~~~~~g~IvEc~~~--~g~W~f~R~R~DK 528 (543)
++|||||+|++....+.|+++...|.| |+.+.. . +| ....+++...+++|+||||+|+ .|+|+|||+|+||
T Consensus 1 e~NTIDF~l~l~~~~~~~~l~~~~g~ldy~~~~~-~-~f~~~~~~~~~~~~~~~ld~rIVEC~~d~~~~~W~~~R~R~DK 78 (105)
T PF03919_consen 1 EENTIDFKLKLEFPKGDGMLPPKVGKLDYVQGGY-D-PFMYEEEWERLKKDGQPLDGRIVECSFDNEKGQWKFMRIRDDK 78 (105)
T ss_dssp GC-EEEEEEEEECEEECTTSCEEEEEECCCSCTC-T-ESEEEECCCCCCCSTCCSTTCEEEEEEETTTTEEEEEEEETTS
T ss_pred CCCCEeEeEEEecCCCCCcccCCCCcEEEEcCCc-c-ccchhhHHHHHhhcccccCCcEEEEEEeCCCCcEeEEEEcCCC
Confidence 479999999998876667788888999 885331 2 56 3445667778999999999999 5999999999999
Q ss_pred CCCChHHHHHHhhc
Q psy9353 529 SFPNAVETAMGEWN 542 (543)
Q Consensus 529 ~~pN~~~t~~~v~~ 542 (543)
++||+++||.+||+
T Consensus 79 ~~pN~~~t~~~v~~ 92 (105)
T PF03919_consen 79 STPNHISTVISVLE 92 (105)
T ss_dssp SS--BHHHHHHHHH
T ss_pred CCCccHHHHHHHHH
Confidence 99999999999986
No 36
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=99.77 E-value=3.3e-18 Score=155.41 Aligned_cols=114 Identities=19% Similarity=0.229 Sum_probs=92.2
Q ss_pred cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHH
Q psy9353 59 RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLL 138 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~i 138 (543)
..+|++||||+.+.+.+ ...|++|+++|+.|+...+..+.+...++.+...+ ..++.|+|||.+|.||||+++
T Consensus 24 ~~gi~~Vi~l~~~~~~~-----~~~~~~~~~ipi~D~~~~~~~~~~~~~~~~i~~~~--~~~~~VlVHC~~G~~RS~~v~ 96 (138)
T smart00195 24 KLGITHVINVTNEVPNL-----NKKGFTYLGVPILDNTETKISPYFPEAVEFIEDAE--KKGGKVLVHCQAGVSRSATLI 96 (138)
T ss_pred HcCCCEEEEccCCCCCC-----CCCCCEEEEEECCCCCCCChHHHHHHHHHHHHHHh--cCCCeEEEECCCCCchHHHHH
Confidence 58999999999875433 24689999999999533444444444445444443 346899999999999999999
Q ss_pred HHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhC
Q psy9353 139 ISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYD 179 (543)
Q Consensus 139 a~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~ 179 (543)
+||||...+|++++|++.++++||....++.|+.+|..+..
T Consensus 97 ~~yl~~~~~~~~~~A~~~v~~~R~~~~p~~~~~~qL~~~e~ 137 (138)
T smart00195 97 IAYLMKYRNLSLNDAYDFVKDRRPIISPNFGFLRQLIEYER 137 (138)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHCCccCCCHhHHHHHHHHhh
Confidence 99999999999999999999999988899999999987653
No 37
>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=99.77 E-value=2e-18 Score=155.65 Aligned_cols=117 Identities=21% Similarity=0.311 Sum_probs=99.5
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHH
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFL 137 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ 137 (543)
...+|.+|||++.+.+.. ......++.|+++|+.|+...|..+.+..+++.+.++.++ ++.|+|||.+|.||||++
T Consensus 15 ~~~~I~~Vin~~~~~~~~--~~~~~~~~~~~~i~~~D~~~~~~~~~~~~~~~~i~~~~~~--~~~VlVHC~~G~~RS~~v 90 (133)
T PF00782_consen 15 KNLGITHVINLQEECPNP--YFYKPEGIEYLRIPIDDDPEEPILEHLDQAVEFIENAISE--GGKVLVHCKAGLSRSGAV 90 (133)
T ss_dssp HHTTEEEEEECSSSSSTS--HHHTTTTSEEEEEEEESSTTSHGGGGHHHHHHHHHHHHHT--TSEEEEEESSSSSHHHHH
T ss_pred HHCCCCEEEEccCCCcCc--hhcccCCCEEEEEEecCCCCcchHHHHHHHHHhhhhhhcc--cceeEEEeCCCcccchHH
Confidence 357899999999865432 3345578999999999965677777788888888877554 689999999999999999
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHh
Q psy9353 138 LISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRY 178 (543)
Q Consensus 138 ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y 178 (543)
+|||||...+|++++|++.+++.||....++.|+.+|.+++
T Consensus 91 ~~ayLm~~~~~~~~~A~~~v~~~rp~~~~~~~~~~~L~~~e 131 (133)
T PF00782_consen 91 AAAYLMKKNGMSLEEAIEYVRSRRPQINPNPSFIRQLYEYE 131 (133)
T ss_dssp HHHHHHHHHTSSHHHHHHHHHHHSTTSTHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHhh
Confidence 99999999999999999999999988788889999998875
No 38
>KOG2283|consensus
Probab=99.77 E-value=2.3e-19 Score=189.86 Aligned_cols=140 Identities=20% Similarity=0.224 Sum_probs=127.1
Q ss_pred ccceeeeeeecccccccccccccccCCeeeEEeecCCCCCCC----chhHhcccceEEecccccccCCChhhhhcCCcEE
Q psy9353 12 TSVEFESKSNLTKTSRFYNKSEVEENDIAYIKIQCEGHKEAP----NEKQTRLKIGLWIDLTKTSRFYDKSEVEENDIAY 87 (543)
Q Consensus 12 ~~~~~~~~idlt~t~ryY~~~~i~~~G~~~~Ki~c~gr~~~p----~~es~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y 87 (543)
...+-|..+|+| |++++|++|+||+.-++..+||... ++++.+.+.+.|.|||. .+.|+++.|.. +.
T Consensus 5 r~~~~~~DLDlt-----YIT~rIIamsfPa~~~es~yRN~l~dV~~fL~s~H~~~y~vyNL~~-er~yd~~~f~g---~V 75 (434)
T KOG2283|consen 5 RYNEGGFDLDLT-----YITSRIIAMSFPAEGIESLYRNNLEDVVLFLDSKHKDHYKVYNLSS-ERLYDPSRFHG---RV 75 (434)
T ss_pred hhhhccccccce-----eeeeeEEEEeCCCCcchhhhcCCHHHHHHHHhhccCCceEEEecCc-cccCCcccccc---ce
Confidence 445678889999 9999999999999999999999864 55667889999999998 58999998875 56
Q ss_pred EEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCC-CHHHHHHHHHhcC
Q psy9353 88 IKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNF-DVSAAIFAFSMAR 161 (543)
Q Consensus 88 ~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~-s~~~Al~~~~~~R 161 (543)
..+++.|| .+|+.+.+..||+.+++|+++++.++|+|||++|.+|||+||||||++..-+ ++++|+..|.++|
T Consensus 76 ~~~~~~Dh-~~P~L~~l~~~c~~~~~WL~~d~~nVvvvHCk~Gkgrtg~~icA~L~~~~~~~ta~eald~~~~kR 149 (434)
T KOG2283|consen 76 ARFGFDDH-NPPPLELLCPFCKSMDNWLSEDPKNVVVVHCKAGKGRTGVMICAYLIYSGISATAEEALDYFNEKR 149 (434)
T ss_pred eecCCCCC-CCCcHHHHHHHHHCHHHHHhcCccceEEEEccCCCcceEEEEeHHHHhhhhcCCHHHHHHHHhhhh
Confidence 77999999 6999999999999999999999999999999999999999999999998666 5999999999999
No 39
>KOG1719|consensus
Probab=99.75 E-value=5.5e-18 Score=151.53 Aligned_cols=127 Identities=17% Similarity=0.244 Sum_probs=111.5
Q ss_pred CchhHhcccceEEecccccccCCCh-hhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 53 PNEKQTRLKIGLWIDLTKTSRFYDK-SEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 53 p~~es~~~~i~~VIdLt~~~~~y~~-~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
......+.+++.||.|+.+-++--+ ++|.+.||+++.+|..|.-..|+.+.|++.++.+.++... ++.|.|||+||.
T Consensus 43 ~~~~i~ke~v~gvv~~ne~yE~~a~s~~wk~~giE~L~i~T~D~~~~Ps~~~i~~aVeFi~k~asL--GktvYVHCKAGR 120 (183)
T KOG1719|consen 43 DVPLIKKENVGGVVTLNEPYELLAPSNLWKNYGIEFLVIPTRDYTGAPSLENIQKAVEFIHKNASL--GKTVYVHCKAGR 120 (183)
T ss_pred cchHHHhcCCCeEEEeCCchhhhhhhHHHHhccceeEEeccccccCCCCHHHHHHHHHHHHhcccc--CCeEEEEecCCC
Confidence 4444567899999999965443322 3788899999999999999999999999999988877653 689999999999
Q ss_pred ChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCC
Q psy9353 132 NRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDDV 181 (543)
Q Consensus 132 ~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~~ 181 (543)
+||.+|++||||++.+|++++|.+.+++.||....++...+.|-++|...
T Consensus 121 tRSaTvV~cYLmq~~~wtpe~A~~~vr~iRp~VlL~~~Qw~~l~ef~~~~ 170 (183)
T KOG1719|consen 121 TRSATVVACYLMQHKNWTPEAAVEHVRKIRPRVLLRPAQWDVLKEFYKQI 170 (183)
T ss_pred ccchhhhhhhhhhhcCCCHHHHHHHHHhcCcceeecHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999863
No 40
>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=99.74 E-value=3.8e-18 Score=161.53 Aligned_cols=141 Identities=23% Similarity=0.323 Sum_probs=99.2
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCCCcCCCCeEEEEEEEEecc------------C-
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDPNKRLTNTLLDGEMVIDRV------------Q- 346 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~~~~~~~tlLDGElV~d~~------------~- 346 (543)
..+|++++|+||+|+++ + +. .+++|+++.+. + + ..+...+..++||||||.... +
T Consensus 15 ~~~~~~e~K~DG~R~~~--~--~~-~~~SR~g~~~t--~---~--~~~~~~l~~~ilDGElv~~~~~f~~l~~~~~~~~~ 82 (174)
T cd07896 15 ISGYLVSEKLDGVRAYW--D--GK-QLLSRSGKPIA--A---P--AWFTAGLPPFPLDGELWIGRGQFEQTSSIVRSKKP 82 (174)
T ss_pred hHHeeechhhceEEEEE--e--cc-EEEecCCcCCC--C---C--HHHHhhCCCCccCceEEcCCCCHHHHHHHHhcCCC
Confidence 35899999999999974 3 23 89999998652 2 1 112233456999999998321 1
Q ss_pred ---CccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccch---hhHhhhhc
Q psy9353 347 ---GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSV---DKAGYLLS 420 (543)
Q Consensus 347 ---~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~---~~~~~ll~ 420 (543)
....+.|++||+|. +..||.+|++.|++.+.... ...+ ...+.+.. ..+..+++
T Consensus 83 ~~~~~~~~~f~vFDil~------~~~p~~eR~~~L~~~i~~~~------------~~~~--~~~~~~~~~~~~~i~~~~~ 142 (174)
T cd07896 83 DDEDWRKVKFMVFDLPS------AKGPFEERLERLKNLLEKIP------------NPHI--KIVPQIPVKSNEALDQYLD 142 (174)
T ss_pred ChhhcccceEEEEeCCC------CCCCHHHHHHHHHHHHHhCC------------CCcE--EEEeeeeeCCHHHHHHHHH
Confidence 12457999999998 77899999999998663210 0111 22222222 24445554
Q ss_pred cccccccCCceEEEeeCCCCcccCCCcceEEecC
Q psy9353 421 DKFTLCHEPDGLIFQPVDEPYVMGKAVDTLKWKP 454 (543)
Q Consensus 421 ~~~~~~h~~DGLIf~~~~spY~~G~~~~~lKWKp 454 (543)
..+.++.||||++..+++|.+||+.+|+||||
T Consensus 143 --~~~~~g~EGlv~K~~ds~Y~~gR~~~wlK~Kp 174 (174)
T cd07896 143 --EVVAAGGEGLMLRRPDAPYETGRSDNLLKLKP 174 (174)
T ss_pred --HHHhcCCCeEEEecCCCcccCCcCCCceeeCC
Confidence 13789999999999999999999889999998
No 41
>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=99.72 E-value=6.5e-17 Score=146.61 Aligned_cols=119 Identities=18% Similarity=0.227 Sum_probs=96.2
Q ss_pred chhHh-cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 54 NEKQT-RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 54 ~~es~-~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
+.+.+ ..+|++||||+.+.+. ......|+.|+++|+.|.+..+....+..+++.+...+++ ++.|+|||.+|.|
T Consensus 19 d~~~L~~~gi~~VI~l~~~~~~---~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~i~~~~~~--~~~vlVHC~~G~~ 93 (139)
T cd00127 19 DKELLKKLGITHVLNVAKEVPN---ENLFLSDFNYLYVPILDLPSQDISKYFDEAVDFIDDAREK--GGKVLVHCLAGVS 93 (139)
T ss_pred CHHHHHHcCCCEEEEcccCCCC---cccCCCCceEEEEEceeCCCCChHHHHHHHHHHHHHHHhc--CCcEEEECCCCCc
Confidence 34444 4899999999987543 2344579999999999965344445556666666665543 5799999999999
Q ss_pred hhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHH
Q psy9353 133 RTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRR 177 (543)
Q Consensus 133 RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~ 177 (543)
|||+++++|||...+|++++|++.+++.||....++.|+.+|..+
T Consensus 94 Rs~~~~~~~l~~~~~~~~~~a~~~vr~~r~~~~~~~~~~~~l~~~ 138 (139)
T cd00127 94 RSATLVIAYLMKTLGLSLREAYEFVKSRRPIISPNAGFMRQLKEY 138 (139)
T ss_pred hhHHHHHHHHHHHcCCCHHHHHHHHHHHCCccCCCHHHHHHHHHh
Confidence 999999999999999999999999999999988999999999654
No 42
>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=99.70 E-value=7e-17 Score=176.84 Aligned_cols=195 Identities=19% Similarity=0.279 Sum_probs=127.8
Q ss_pred ECCCCeeEecCccCCCCCCCCcC--CCCeEEEEEEEEeccCC---------------ccccEEEEEEEEEECCccccCCC
Q psy9353 308 DRDFSMYKISGLTFPHRKDPNKR--LTNTLLDGEMVIDRVQG---------------QNIPRYLVYDIIRFDNNDVTRQK 370 (543)
Q Consensus 308 dR~~~~~~v~~~~fP~~~~~~~~--~~~tlLDGElV~d~~~~---------------~~~~~ylifDil~~~G~~v~~~p 370 (543)
+|+++.+ +-+||+..+.... ..++|||||||+-..+| ..+++|++||+|++||++++++|
T Consensus 1 SRng~d~---T~~fPel~~~~~~l~~~~~ILDGElVvld~~G~~~F~~Lq~~~~~~~~~pv~~~vFDlL~l~G~dL~~~P 77 (552)
T TIGR02776 1 TRNGHDW---TKRFPEIVKALALLKLLPAWIDGEIVVLDERGRADFAALQNALSAGASRPLTYYAFDLLFLSGEDLRDLP 77 (552)
T ss_pred CCCcCcc---hhhhHHHHHHHhhCCCCCEEEEEEEEEECCCCCCCHHHHHHHHHhcccCceEEEEEeccccCCcccccCC
Confidence 5888766 4689987553222 25799999999832221 23568999999999999999999
Q ss_pred HHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccccccCCceEEEeeCCCCcccCCCcceE
Q psy9353 371 FTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMGKAVDTL 450 (543)
Q Consensus 371 ~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G~~~~~l 450 (543)
|.+|+++|++.+. +.. ... +....... ...+++|+ ..+.++.||||+|..+++|.+||+.+|+
T Consensus 78 l~eRr~~L~~ll~-~~~-----------~~~--i~~~~~~~-~~~~~~~~--~a~~~G~EGIV~K~~dS~Y~~GRs~~Wl 140 (552)
T TIGR02776 78 LEERKKRLKQLLK-AQD-----------EPA--IRYSDHFE-SDGDALLE--SACRLGLEGVVSKRLDSPYRSGRSKDWL 140 (552)
T ss_pred HHHHHHHHHHHhh-hcC-----------CCc--EEEeeeec-ccHHHHHH--HHHHCCCceEEEeCCCCCCCCCCCcchh
Confidence 9999999998653 210 011 11222222 22345665 2378999999999999999999888999
Q ss_pred EecCCcceeEEEEEEEEeecCCCccccceeeEeeccCC--ccccccee--EEccc--------cc-------cc------
Q psy9353 451 KWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAGSNR--SQQQFAEM--KITKA--------TK-------DL------ 505 (543)
Q Consensus 451 KWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~~~--~~~~f~~~--~~t~e--------~~-------~~------ 505 (543)
|+|+ ..+.||+|.--. .+.| .+|.|.+|-.+ ..+.++.+ +|+++ ++ +.
T Consensus 141 KlK~--~~~~e~vI~Gy~-~~~r----~~gslLlg~~d~g~l~~vgkVgsGfsd~~~~~L~~~l~~~~~~~~Pf~~~~~~ 213 (552)
T TIGR02776 141 KLKC--RRRQEFVITGYT-PPNR----RFGALLVGVYEGGQLVYAGKVGTGFGADTLKTLLARLKALGAKASPFSGPAGA 213 (552)
T ss_pred cccc--cccceEEEEEEe-cCCC----ceeeEEEEEecCCeEEEEEEEcCCCCHHHHHHHHHHHHhhcccCCCccCCccc
Confidence 9998 457888764333 2322 25666665321 11122222 33332 10 11
Q ss_pred CC---------cEEEEEEe----CCe---eEEEEeeCCCC
Q psy9353 506 DG---------KIVECKWE----NNQ---WVFMRERTDKS 529 (543)
Q Consensus 506 ~g---------~IvEc~~~----~g~---W~f~R~R~DK~ 529 (543)
.+ -|+|+.|. +|. .+|+|+|.||+
T Consensus 214 ~~~~~~Wv~P~lV~EV~~~e~T~~g~LR~Prf~~~R~DK~ 253 (552)
T TIGR02776 214 KTRGVHWVRPSLVAEVEYAGITRDGILREASFKGLREDKP 253 (552)
T ss_pred cCCCcEEEccCEEEEEEeeeccCCCeeEccEEEEEeCCCC
Confidence 12 37899997 333 88999999997
No 43
>KOG0966|consensus
Probab=99.68 E-value=3.2e-16 Score=170.53 Aligned_cols=179 Identities=21% Similarity=0.392 Sum_probs=130.4
Q ss_pred CCCCeeeccccc------cccccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCC---CCC-----
Q psy9353 262 FPGSQPVSMDRN------NIGYLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHR---KDP----- 327 (543)
Q Consensus 262 FPG~qPVsl~r~------~l~~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~---~~~----- 327 (543)
|--.+|.-..+. ++..+...+++++.|.||.|++|+.++ +....++|||..|. ..|-.. ..+
T Consensus 225 fsa~~PqLa~~~~~~~~~~~e~m~~~~f~lEtK~DGERiQlHk~g-~~~~yfSRNg~dyT---~~yg~s~~~g~lt~~i~ 300 (881)
T KOG0966|consen 225 FSAFRPQLAQKQKLGDWAIIEKMGGQDFYLETKFDGERIQLHKDG-GEYKYFSRNGNDYT---YEYGASYAHGTLTQRIH 300 (881)
T ss_pred hhhcCHHHHhhhccchHHHHHHhcCCceEEEeeccCceEEEEecC-CEEEEEecCCcchh---hhcCcccccccccHHHH
Confidence 445556544443 444577789999999999999999974 68889999998772 223111 111
Q ss_pred ---CcCCCCeEEEEEEEE-ecc-------------------CCccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhh
Q psy9353 328 ---NKRLTNTLLDGEMVI-DRV-------------------QGQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIE 384 (543)
Q Consensus 328 ---~~~~~~tlLDGElV~-d~~-------------------~~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~ 384 (543)
...+..+||||||+. |+. ++...|.|++||+|++||+++...|+.+|+.+|++.+.
T Consensus 301 ~~f~~~v~~cILDGEMm~wD~~~~~f~~~G~~~dik~~~~~~~~~qp~yvvfDLLylNgksL~~~~l~qR~e~L~~v~~- 379 (881)
T KOG0966|consen 301 GAFNKEVESCILDGEMMTWDTKTKRFCPFGSNSDIKELSSRDGSQQPCYVVFDLLYLNGKSLFGAPLHQRLEILKKVIV- 379 (881)
T ss_pred hhhhhcchheEecceEEEeecchhhhccCCchhhHHHhhccccCCCceEEEeeeeeecCcccCCccHHHHHHHHHhccc-
Confidence 122467999999998 642 13457899999999999999999999999999998443
Q ss_pred hhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccccccCCceEEEeeCCCCcccC-CCcceEEecCCcce
Q psy9353 385 PRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPYVMG-KAVDTLKWKPHTMN 458 (543)
Q Consensus 385 p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY~~G-~~~~~lKWKp~~~n 458 (543)
|... .-+.++.+....+..++++|++ ++..+.||||.|..+|.|.+| |...|+|-||....
T Consensus 380 p~~~-----------~iei~~~~~~~~~edi~~~f~~--ai~~~~EGIVlK~~~S~Y~pg~R~~gW~K~KPeYlk 441 (881)
T KOG0966|consen 380 PKSG-----------RIEIVRSEVGSTKEDIEQFFEE--AIDNGEEGIVLKKPDSSYVPGQRSNGWIKLKPEYLK 441 (881)
T ss_pred CCCC-----------eeEEeehhhcccHHHHHHHHHH--HHhcCCCceEEeccCcccCccccCCCcEeecHHHHh
Confidence 3211 1122333444556666777762 478899999999999999999 55679999998766
No 44
>KOG2836|consensus
Probab=99.65 E-value=1.2e-15 Score=133.41 Aligned_cols=117 Identities=17% Similarity=0.256 Sum_probs=103.4
Q ss_pred chhHh-cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 54 NEKQT-RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 54 ~~es~-~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
+.+.+ +.+++.|+.+|. ..||...+++.||..+..|+.| |.+|..+.+..|++++.--.+++|+..|+|||.+|.|
T Consensus 33 fieELkKygvttvVRVCe--~TYdt~~lek~GI~Vldw~f~d-g~ppp~qvv~~w~~l~~~~f~e~p~~cvavhcvaglg 109 (173)
T KOG2836|consen 33 FIEELKKYGVTTVVRVCE--PTYDTTPLEKEGITVLDWPFDD-GAPPPNQVVDDWLSLVKTKFREEPGCCVAVHCVAGLG 109 (173)
T ss_pred HHHHHHhcCCeEEEEecc--cccCCchhhhcCceEeeccccc-CCCCchHHHHHHHHHHHHHHhhCCCCeEEEEeecccC
Confidence 44444 589999999995 5899999999999999999998 8999999999999999887788899999999999999
Q ss_pred hhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHH
Q psy9353 133 RTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELF 175 (543)
Q Consensus 133 RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~ 175 (543)
|...++|.-||+. ||..++|++.+++.|.++|.. ..+..|.
T Consensus 110 rapvlvalalie~-gmkyedave~ir~krrga~n~-kql~~le 150 (173)
T KOG2836|consen 110 RAPVLVALALIEA-GMKYEDAVEMIRQKRRGAINS-KQLLYLE 150 (173)
T ss_pred cchHHHHHHHHHc-cccHHHHHHHHHHHhhccccH-HHHHHHH
Confidence 9999999999996 999999999999999988853 4444443
No 45
>PRK12361 hypothetical protein; Provisional
Probab=99.60 E-value=9.6e-15 Score=162.01 Aligned_cols=126 Identities=21% Similarity=0.271 Sum_probs=103.7
Q ss_pred CchhHh-cccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 53 PNEKQT-RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 53 p~~es~-~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
.+.+.+ ..+|++|||||.+.+.. +......|++|+++|+.|+ .+|+.+++.+.++.+++.+++ ++.|+|||.+|+
T Consensus 111 ~d~~~L~~~gI~~Vldlt~E~~~~-~~~~~~~~i~yl~iPi~D~-~~p~~~~l~~a~~~i~~~~~~--~~~VlVHC~~G~ 186 (547)
T PRK12361 111 ADLEKLKSNKITAILDVTAEFDGL-DWSLTEEDIDYLNIPILDH-SVPTLAQLNQAINWIHRQVRA--NKSVVVHCALGR 186 (547)
T ss_pred ccHHHHHHcCCCEEEEcccccccc-cccccccCceEEEeecCCC-CCCcHHHHHHHHHHHHHHHHC--CCeEEEECCCCC
Confidence 344443 48999999999653321 1122235899999999996 688988888888888887654 578999999999
Q ss_pred ChhHHHHHHHHHHh-CCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCCC
Q psy9353 132 NRTGFLLISYLVEE-MNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDDVP 182 (543)
Q Consensus 132 ~RTG~~ia~yLi~~-~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~~~ 182 (543)
|||+++++||||.+ .++++++|++.++++||....++.++++|.++|....
T Consensus 187 sRSa~vv~ayLm~~~~~~~~~eA~~~vr~~Rp~v~~n~~q~~~l~~~~~~~~ 238 (547)
T PRK12361 187 GRSVLVLAAYLLCKDPDLTVEEVLQQIKQIRKTARLNKRQLRALEKMLEQGK 238 (547)
T ss_pred CcHHHHHHHHHHHhccCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcCC
Confidence 99999999999976 4899999999999999999999999999998887644
No 46
>KOG2386|consensus
Probab=99.58 E-value=1.3e-15 Score=157.58 Aligned_cols=205 Identities=26% Similarity=0.318 Sum_probs=141.9
Q ss_pred CCCCCCCCCeeeccccccccccccCCcEEEEcCCceEEEEEEEeC----CeEEEEECCCCeeEecCccCCCCCCC-----
Q psy9353 257 YERVGFPGSQPVSMDRNNIGYLAEKKYMVSWKADGTRYMMYIKNA----DEIYFTDRDFSMYKISGLTFPHRKDP----- 327 (543)
Q Consensus 257 ~~~~~FPG~qPVsl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~~----~~vyLidR~~~~~~v~~~~fP~~~~~----- 327 (543)
.....|||+| +....+++..|...+|.|++|.||+|.++|++.. .++.-+.++...+ ..+|.....
T Consensus 37 ~~~k~~~~~~-~f~~~dl~~~l~~~~~~vgl~iDltnt~ryy~~~~~~~~g~~Y~K~~c~g~----~~vp~~~~v~~fv~ 111 (393)
T KOG2386|consen 37 YSTKTFPGSQ-RFQPKDLFELLKEHNYKVGLKIDLTNTLRYYDKPELEERGVKYLKRNCPGR----GVVPRTELVDKFVK 111 (393)
T ss_pred CCcCCCCCcc-ccCHHHHHHHHHhcCceEEEEEeccceeeeeccccccccceeEEEeccCCc----ccCCCccchHHHHH
Confidence 3456789998 8888999999999999999999999999998421 2344344443322 135543221
Q ss_pred --CcCCCCeEEEEEEEEecc-CCccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEE
Q psy9353 328 --NKRLTNTLLDGEMVIDRV-QGQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSV 404 (543)
Q Consensus 328 --~~~~~~tlLDGElV~d~~-~~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i 404 (543)
.....++.+|||||...- .|.....||||++|+..|. .+..+-.+|++......+.+..-..+-..-..+..||.+
T Consensus 112 ~v~~f~~~~~~~~~LI~vhcthG~NrtgyLI~~yL~~~~~-~s~~~aik~f~~~r~~gi~k~dyi~~L~~~~~~~~p~~v 190 (393)
T KOG2386|consen 112 LVKGFVDDTKLDDELIGVHCTHGLNRTGYLICAYLADVGG-YSSSEAIKRFADARPPGIEKQDYIDALYSRYHDIFPFKV 190 (393)
T ss_pred HHHHHHhcccCCCCEEEEeCCCcccccceeeeeeeeeccC-ccHHHHHHHHHHhCCCccCchHHHHHHhhcccccccccc
Confidence 233467899999998643 4666779999999999987 666666777776666555443322222222335567777
Q ss_pred EeccccchhhHhhhhccccccccCCceEEEeeCCCCc-ccCCCcceEEecCCcceeEEEEEEEEe
Q psy9353 405 RVKDFWSVDKAGYLLSDKFTLCHEPDGLIFQPVDEPY-VMGKAVDTLKWKPHTMNSIDFLMKIET 468 (543)
Q Consensus 405 ~~k~~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~spY-~~G~~~~~lKWKp~~~ntvDF~l~~~~ 468 (543)
..+..-.-....++..+...+ |..||+||++...|| ..|+...++||||..+||+||.++...
T Consensus 191 s~p~~~~~~~~~~~~~~~~~~-~~~Dg~i~t~~~~pg~~~g~~~~~~k~k~~~~n~~~~~~~~~~ 254 (393)
T KOG2386|consen 191 SCPSMPDWKRSIKLKKPVHKL-HGNDGLIFTPAEIPGSKNGKQEALLKWKPFSLNTIDFGVKLEK 254 (393)
T ss_pred cCCCCcchhhhhhhccccccc-cccCCCcCCcccCccccccchhhhhcCCchhcCCcccceeecC
Confidence 666543333333333311112 999999999999999 478999999999999999999987754
No 47
>KOG1718|consensus
Probab=99.50 E-value=2.3e-13 Score=123.76 Aligned_cols=140 Identities=19% Similarity=0.204 Sum_probs=106.0
Q ss_pred ccccccccccccCCeeeEEeecCCCCCCCchhHhcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHH
Q psy9353 25 TSRFYNKSEVEENDIAYIKIQCEGHKEAPNEKQTRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQT 104 (543)
Q Consensus 25 t~ryY~~~~i~~~G~~~~Ki~c~gr~~~p~~es~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i 104 (543)
..-|+.-++|... .+.|.|--...-..-.+.+|++|||.|.+.+- ..+ .+++|.++|+.|+ |. ..+
T Consensus 11 ~~~~~~~SqIt~s-----Lfl~~GvaA~~k~~l~~~~It~IiNat~E~pn---~~l--~~~qy~kv~~~D~---p~-~~l 76 (198)
T KOG1718|consen 11 QPSIGGMSQITPS-----LFLSNGVAANDKLLLKKRKITCIINATTEVPN---TSL--PDIQYMKVPLEDT---PQ-ARL 76 (198)
T ss_pred CCCccchhhcCcc-----eeEeccccccCHHHHHhcCceEEEEcccCCCC---ccC--CCceeEEEEcccC---Cc-chh
Confidence 3445666666665 23343333322222346899999999976432 112 4799999999996 33 357
Q ss_pred HHHHHHHHHHHhh--CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHh
Q psy9353 105 RVFINLCSKFISK--SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRY 178 (543)
Q Consensus 105 ~~f~~~v~~fl~~--~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y 178 (543)
..|++.+.+.|+. -.++..+|||.||.+||+.++.||||...+|++.||..+++..||-.-++.+|.+||-.+-
T Consensus 77 ~~hfD~vAD~I~~v~~~gG~TLvHC~AGVSRSAsLClAYLmK~~~msLreAy~~vKa~RpiIRPN~GFw~QLi~YE 152 (198)
T KOG1718|consen 77 YDHFDPVADKIHSVIMRGGKTLVHCVAGVSRSASLCLAYLMKYHCMSLREAYHWVKARRPIIRPNVGFWRQLIDYE 152 (198)
T ss_pred hhhhhHHHHHHHHHHhcCCcEEEEEccccchhHHHHHHHHHHHccchHHHHHHHHHhhCceeCCCccHHHHHHHHH
Confidence 7888888877765 3679999999999999999999999999999999999999999998888999999995443
No 48
>COG2453 CDC14 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]
Probab=99.49 E-value=2.1e-13 Score=129.94 Aligned_cols=91 Identities=21% Similarity=0.320 Sum_probs=77.7
Q ss_pred CCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhC-CCCHHH
Q psy9353 74 FYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEM-NFDVSA 152 (543)
Q Consensus 74 ~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~-~~s~~~ 152 (543)
++.....+..|+.++.+|+.|| .+|+.+++.+++..+.+.+++ ++.|+|||.+|+||||+++|||||... .+.+++
T Consensus 62 ~~~~~~~~~~~~~~~~~~~~D~-~~p~~~~l~~~v~~i~~~~~~--g~kVvVHC~~GigRSgtviaA~lm~~~~~~~~~~ 138 (180)
T COG2453 62 LYNVAIEENDGIQVLHLPILDG-TVPDLEDLDKIVDFIEEALSK--GKKVVVHCQGGIGRSGTVIAAYLMLYGGLSLADE 138 (180)
T ss_pred ceecceeccCCceeeeeeecCC-CCCcHHHHHHHHHHHHHHHhc--CCeEEEEcCCCCchHHHHHHHHHHHHcCCCCHHH
Confidence 4445556678999999999996 799999999999999998876 459999999999999999999999984 568999
Q ss_pred HHHHHHhcCCCCCCC
Q psy9353 153 AIFAFSMARPPGIYK 167 (543)
Q Consensus 153 Al~~~~~~R~~~i~~ 167 (543)
|+...+..|+..+..
T Consensus 139 ~i~~~~~~r~~~v~~ 153 (180)
T COG2453 139 AIAVKRRRRPGAVVT 153 (180)
T ss_pred HHHHHHhcCCccccc
Confidence 999999999854443
No 49
>KOG1716|consensus
Probab=99.39 E-value=2.5e-12 Score=131.26 Aligned_cols=116 Identities=22% Similarity=0.315 Sum_probs=94.2
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhh--CCCCeEEEEcCCCCChhH
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISK--SPLEKIGVHCTHGFNRTG 135 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~--~~~~~V~VHC~~G~~RTG 135 (543)
...+|++|+|++.....+. -....+++|..+|+.| .|+. .|..++..+-.||.. ..++.|+|||.+|++||.
T Consensus 97 ~~~~it~vln~~~~~~~~~--~~~~~~~~y~~i~~~D---~~~~-~i~~~~~~~~~fI~~a~~~~~~vlVHC~~GvSRSa 170 (285)
T KOG1716|consen 97 KKLGITHVLNVSSSCPNPR--FLKEQGIKYLRIPVED---NPST-DILQHFPEAISFIEKAREKGGKVLVHCQAGVSRSA 170 (285)
T ss_pred HHcCCCEEEEecccCCccc--cccccCceEEeccccC---Cccc-cHHHHHHHHHHHHHHHHhCCCeEEEEcCCccchhH
Confidence 3578999999997643311 0112389999999998 3443 466677777778765 368999999999999999
Q ss_pred HHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhC
Q psy9353 136 FLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYD 179 (543)
Q Consensus 136 ~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~ 179 (543)
++++||||...+|++++|++.++++|+-.-++.+|+.||.++-.
T Consensus 171 t~viAYlM~~~~~~l~~A~~~vk~~R~~i~PN~gf~~QL~~~e~ 214 (285)
T KOG1716|consen 171 TLVIAYLMKYEGLSLEDAYELVKSRRPIISPNFGFLRQLLEFEK 214 (285)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHhCCccCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999988789999999966554
No 50
>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=99.35 E-value=5.9e-13 Score=122.73 Aligned_cols=111 Identities=17% Similarity=0.164 Sum_probs=68.1
Q ss_pred eEEeecCCCCC---CCc----hhHh-cccceEEeccccccc--CCC----hhhhhcCCcEEEEEEecCCCCCCChHHHHH
Q psy9353 41 YIKIQCEGHKE---APN----EKQT-RLKIGLWIDLTKTSR--FYD----KSEVEENDIAYIKIQCEGHKEAPNEKQTRV 106 (543)
Q Consensus 41 ~~Ki~c~gr~~---~p~----~es~-~~~i~~VIdLt~~~~--~y~----~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~ 106 (543)
.....|+|... -.+ ++++ .+++..|+.|+...+ .|. .+..+..|+.|+++||+| +.+|+.+...+
T Consensus 43 Lglt~~PG~k~~d~~RdL~~DL~~Lk~~G~~~Vvtl~~~~EL~~l~Vp~L~~~~~~~Gi~~~h~PI~D-~~aPd~~~~~~ 121 (168)
T PF05706_consen 43 LGLTFLPGCKFKDWRRDLQADLERLKDWGAQDVVTLLTDHELARLGVPDLGEAAQARGIAWHHLPIPD-GSAPDFAAAWQ 121 (168)
T ss_dssp EEEES-TT-EETTEEB-HHHHHHHHHHTT--EEEE-S-HHHHHHTT-TTHHHHHHHTT-EEEE----T-TS---HHHHHH
T ss_pred eeeecCCCcccccccchHHHHHHHHHHCCCCEEEEeCcHHHHHHcCCccHHHHHHHcCCEEEecCccC-CCCCCHHHHHH
Confidence 34556677432 223 3343 589999999987543 343 235667999999999999 57999887777
Q ss_pred HHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhC-CCCHHHHH
Q psy9353 107 FINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEM-NFDVSAAI 154 (543)
Q Consensus 107 f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~-~~s~~~Al 154 (543)
++..+...+++ ++.|+|||.+|.||||+++||+|++-. ++++++||
T Consensus 122 i~~eL~~~L~~--g~~V~vHC~GGlGRtGlvAAcLLl~L~~~~~p~~AI 168 (168)
T PF05706_consen 122 ILEELAARLEN--GRKVLVHCRGGLGRTGLVAACLLLELGDTMSPEQAI 168 (168)
T ss_dssp HHHHHHHHHHT--T--EEEE-SSSSSHHHHHHHHHHHHH-SSS-HHHHH
T ss_pred HHHHHHHHHHc--CCEEEEECCCCCCHHHHHHHHHHHHHcCCCChhhcC
Confidence 77777777765 689999999999999999999999864 47999997
No 51
>KOG1717|consensus
Probab=99.35 E-value=3.5e-12 Score=123.75 Aligned_cols=117 Identities=19% Similarity=0.285 Sum_probs=95.0
Q ss_pred chhHh-cccceEEecccccccCCChhhhhc-CCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhh--CCCCeEEEEcCC
Q psy9353 54 NEKQT-RLKIGLWIDLTKTSRFYDKSEVEE-NDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISK--SPLEKIGVHCTH 129 (543)
Q Consensus 54 ~~es~-~~~i~~VIdLt~~~~~y~~~~~~~-~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~--~~~~~V~VHC~~ 129 (543)
+.+.+ +.+|..|||+|... |.-|+. ..++|..||+.|| . .+.+.+|+...-.||.+ .++..|+|||-+
T Consensus 189 NldvLkk~gI~yviNVTpnl----pn~fe~~g~f~YkqipisDh-~---Sqnls~ffpEAIsfIdeArsk~cgvLVHCla 260 (343)
T KOG1717|consen 189 NLDVLKKYGIKYVINVTPNL----PNNFENNGEFIYKQIPISDH-A---SQNLSQFFPEAISFIDEARSKNCGVLVHCLA 260 (343)
T ss_pred cHHHHHhcCceEEEecCCCC----cchhhcCCceeEEeeeccch-h---hhhhhhhhHHHHHHHHHhhccCCcEEEeeec
Confidence 33443 57999999999653 344553 3578999999998 2 24577787777777765 356889999999
Q ss_pred CCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHh
Q psy9353 130 GFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRY 178 (543)
Q Consensus 130 G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y 178 (543)
|++||.++.++|||.++.+|+++|.++++.++...-++-+|+-||..+-
T Consensus 261 GISRSvTvtvaYLMqkl~lslndAyd~Vk~kksnisPNFnFMgQLldfe 309 (343)
T KOG1717|consen 261 GISRSVTVTVAYLMQKLNLSLNDAYDFVKHKKSNISPNFNFMGQLLDFE 309 (343)
T ss_pred cccchhHHHHHHHHHHhccchhhHHHHHHHhccCCCCCcchhHHHHHHH
Confidence 9999999999999999999999999999999998889999999995543
No 52
>KOG0967|consensus
Probab=99.33 E-value=1.7e-11 Score=131.42 Aligned_cols=174 Identities=18% Similarity=0.301 Sum_probs=125.1
Q ss_pred ccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-----CcCCCCeEEEEEEEE-eccCC---
Q psy9353 277 YLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-----NKRLTNTLLDGEMVI-DRVQG--- 347 (543)
Q Consensus 277 ~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-----~~~~~~tlLDGElV~-d~~~~--- 347 (543)
.+....|-.+||.||.|+.++...+|.++.++||.+.- +-+||..... .....+.|||+|+|. |..++
T Consensus 361 rf~~~~FTCEyKYDGeRAQIH~~edG~v~IfSRN~E~~---T~kYPDi~~~~~~~~kp~v~sFIlD~EvVA~Dr~~~~Il 437 (714)
T KOG0967|consen 361 RFQDKAFTCEYKYDGERAQIHKLEDGTVEIFSRNSENN---TGKYPDIIEVISKLKKPSVKSFILDCEVVAWDREKGKIL 437 (714)
T ss_pred HhhCceeEEEeecCceeeeeEEccCCcEEEEecccccc---cccCccHHHHHHHhhCCccceeEEeeeEEEEeccCCccC
Confidence 46677899999999999999988889999999999844 4689976431 122367899999998 54332
Q ss_pred ------------------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeE-EEecc
Q psy9353 348 ------------------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFS-VRVKD 408 (543)
Q Consensus 348 ------------------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~-i~~k~ 408 (543)
+..+..++||+|++||+++.++|+.+|+++|.+..-. ....|. ....+
T Consensus 438 pFQvLSTRkRk~v~v~dikV~Vcvf~FDily~ng~~Li~~pL~eRR~~l~e~f~e-------------~~g~f~fat~~~ 504 (714)
T KOG0967|consen 438 PFQVLSTRKRKNVDVNDIKVKVCVFVFDILYLNGESLIQEPLRERRELLHESFKE-------------IPGEFQFATSLD 504 (714)
T ss_pred chhhhhhhhccccchhhceEEEEEEEEeeeeeCChhhhhhhHHHHHHHHHhhccc-------------CCCceeEeeeec
Confidence 1235678999999999999999999999999874421 011111 11122
Q ss_pred ccchhhHhhhhccccccccCCceEEEeeCC--CCcccC-CCcceEEecCCc----ceeEEEEEEEEe
Q psy9353 409 FWSVDKAGYLLSDKFTLCHEPDGLIFQPVD--EPYVMG-KAVDTLKWKPHT----MNSIDFLMKIET 468 (543)
Q Consensus 409 ~~~~~~~~~ll~~~~~~~h~~DGLIf~~~~--spY~~G-~~~~~lKWKp~~----~ntvDF~l~~~~ 468 (543)
.-.+..++++|++ ++.+..||||.|-.+ +-|.|- |..+|||.|-.. --|+|.++--+.
T Consensus 505 tn~~~eiq~Fl~~--sv~~~cEGlMvKtLd~~atYep~kRs~~WlKlKkDYldgvgdslDLv~iga~ 569 (714)
T KOG0967|consen 505 TNDIDEIQEFLEE--SVQNSCEGLMVKTLDTNATYEPSKRSNNWLKLKKDYLDGVGDSLDLVVIGAY 569 (714)
T ss_pred cCCHHHHHHHHHH--hhccCcceeEEEeeccccccCchhhccchhhhhhhhhcccccceeeeeeeee
Confidence 2445566666662 478999999999864 688887 456799999765 357777654443
No 53
>smart00404 PTPc_motif Protein tyrosine phosphatase, catalytic domain motif.
Probab=99.20 E-value=1.4e-10 Score=99.19 Aligned_cols=90 Identities=20% Similarity=0.312 Sum_probs=72.3
Q ss_pred EEEEEEecCCCCCCCh-HHHHHHHHHHHHHHhhC-CCCeEEEEcCCCCChhHHHHHHHHHHhC------CCCHHHHHHHH
Q psy9353 86 AYIKIQCEGHKEAPNE-KQTRVFINLCSKFISKS-PLEKIGVHCTHGFNRTGFLLISYLVEEM------NFDVSAAIFAF 157 (543)
Q Consensus 86 ~y~~ip~~dhg~~P~~-e~i~~f~~~v~~fl~~~-~~~~V~VHC~~G~~RTG~~ia~yLi~~~------~~s~~~Al~~~ 157 (543)
.|....++|++ +|+. +.+.+|+..+....... .+++|+|||.+|.||||+++++|++... ..++.+++..+
T Consensus 4 ~~~~~~Wpd~~-~P~~~~~~~~~~~~v~~~~~~~~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00404 4 HYHYTGWPDHG-VPESPDSILEFLRAVKKNLNQSSSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EEeeCCCCCCC-CCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 34556677764 6654 78899999998887653 3689999999999999999999988653 25899999999
Q ss_pred HhcCCCCCCCHHHHHHHHH
Q psy9353 158 SMARPPGIYKQDYLNELFR 176 (543)
Q Consensus 158 ~~~R~~~i~~~~yi~~L~~ 176 (543)
++.|+..+........++.
T Consensus 83 r~~r~~~~~~~~q~~~~~~ 101 (105)
T smart00404 83 RKQRPGMVQTFEQYLFLYR 101 (105)
T ss_pred HhhhhhhCCcHHHHHHHHH
Confidence 9999999998876665554
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=99.20 E-value=1.4e-10 Score=99.19 Aligned_cols=90 Identities=20% Similarity=0.312 Sum_probs=72.3
Q ss_pred EEEEEEecCCCCCCCh-HHHHHHHHHHHHHHhhC-CCCeEEEEcCCCCChhHHHHHHHHHHhC------CCCHHHHHHHH
Q psy9353 86 AYIKIQCEGHKEAPNE-KQTRVFINLCSKFISKS-PLEKIGVHCTHGFNRTGFLLISYLVEEM------NFDVSAAIFAF 157 (543)
Q Consensus 86 ~y~~ip~~dhg~~P~~-e~i~~f~~~v~~fl~~~-~~~~V~VHC~~G~~RTG~~ia~yLi~~~------~~s~~~Al~~~ 157 (543)
.|....++|++ +|+. +.+.+|+..+....... .+++|+|||.+|.||||+++++|++... ..++.+++..+
T Consensus 4 ~~~~~~Wpd~~-~P~~~~~~~~~~~~v~~~~~~~~~~~pvlVHC~~G~gRtg~~~~~~~~~~~~~~~~~~~~~~~~~~~i 82 (105)
T smart00012 4 HYHYTGWPDHG-VPESPDSILEFLRAVKKNLNQSSSSGPVVVHCSAGVGRTGTFVALDILLQQLESETGEVDIFQTVKEL 82 (105)
T ss_pred EEeeCCCCCCC-CCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEeCCCCChhhHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence 34556677764 6654 78899999998887653 3689999999999999999999988653 25899999999
Q ss_pred HhcCCCCCCCHHHHHHHHH
Q psy9353 158 SMARPPGIYKQDYLNELFR 176 (543)
Q Consensus 158 ~~~R~~~i~~~~yi~~L~~ 176 (543)
++.|+..+........++.
T Consensus 83 r~~r~~~~~~~~q~~~~~~ 101 (105)
T smart00012 83 RKQRPGMVQTFEQYLFLYR 101 (105)
T ss_pred HhhhhhhCCcHHHHHHHHH
Confidence 9999999998876665554
No 55
>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=99.15 E-value=4.8e-10 Score=116.56 Aligned_cols=144 Identities=13% Similarity=0.117 Sum_probs=97.0
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC--CcCCCCeEEEEEEEEecc-------CCcccc
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP--NKRLTNTLLDGEMVIDRV-------QGQNIP 351 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~--~~~~~~tlLDGElV~d~~-------~~~~~~ 351 (543)
..|+|+||.||.|+.++.. +|++.+++|+|.+..-.+-++|..... ....++.+||||+|.-.. ....++
T Consensus 48 ~~~~vEEKlDG~nvri~~~-~G~v~a~TR~G~i~e~~T~~~~eiv~~~~~~~~p~~iLdGElvg~~~p~v~~~~~~~~~v 126 (342)
T cd07894 48 GPVAVEEKMNGYNVRIVRI-GGKVLAFTRGGFICPFTTDRLRDLIDPEFFDDHPDLVLCGEVVGPENPYVPGSYPEVEDV 126 (342)
T ss_pred CCEEEEEeECCcEEEEEEE-CCEEEEEeCCCccCccchhhHhhhchHHhhccCCCEEEEEEEEecCCccccccCcccccc
Confidence 5899999999999988664 478999999987542123345544221 122467999999997431 112356
Q ss_pred EEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhccccccccCCce
Q psy9353 352 RYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLSDKFTLCHEPDG 431 (543)
Q Consensus 352 ~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~~~~~~~h~~DG 431 (543)
.|++||++..++ ...+|+.+|+++|++..+ |.. ..+. .........+.++++. ...++.||
T Consensus 127 ~F~vFDI~~~~~--~~~lp~~eR~~lLe~lg~-~~v------------~~~~--~~~~~d~~~l~~~l~~--~~~~G~EG 187 (342)
T cd07894 127 GFFVFDIRKKNT--GRPLPVEERRELLEKYGL-PTV------------RLFG--EFTADEIEELKEIIRE--LDKEGREG 187 (342)
T ss_pred EEEEEeeEEcCC--CCCCCHHHHHHHHHhcCC-CCc------------ceEE--EEecCCHHHHHHHHHH--HHHCCCce
Confidence 999999999875 567899999999987533 211 0111 1112234455556551 26899999
Q ss_pred EEEeeCCC-----CcccC
Q psy9353 432 LIFQPVDE-----PYVMG 444 (543)
Q Consensus 432 LIf~~~~s-----pY~~G 444 (543)
||+|+.++ .|+..
T Consensus 188 VVlK~~~~~~~~~Ky~t~ 205 (342)
T cd07894 188 VVLKDPDMRVPPLKYTTS 205 (342)
T ss_pred EEEeccccccCcceeecC
Confidence 99999988 67765
No 56
>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=99.08 E-value=1.2e-10 Score=109.16 Aligned_cols=110 Identities=22% Similarity=0.263 Sum_probs=63.9
Q ss_pred cCCCCCCCchhHh----cccceEEecccccccCCChhh-hhcCCcEEEEEEecCCCC---CCChHHHHHHHHHHHHHHhh
Q psy9353 46 CEGHKEAPNEKQT----RLKIGLWIDLTKTSRFYDKSE-VEENDIAYIKIQCEGHKE---APNEKQTRVFINLCSKFISK 117 (543)
Q Consensus 46 c~gr~~~p~~es~----~~~i~~VIdLt~~~~~y~~~~-~~~~gi~y~~ip~~dhg~---~P~~e~i~~f~~~v~~fl~~ 117 (543)
..+|...|..... ..++..||+|+.+....+-.. +++.||+++++++..... .++.+.+.+.++.+- .
T Consensus 13 ~vYRS~~P~~~n~~fL~~L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~il---d- 88 (164)
T PF03162_consen 13 GVYRSAQPTPANFPFLERLGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIIL---D- 88 (164)
T ss_dssp TEEEESS--HHHHHHHHHHT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-----
T ss_pred CccCCCCCChhhHHHHHHCCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHh---C-
Confidence 3456665544432 368999999997643322222 467999999999986422 245566666665542 2
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhc
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMA 160 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~ 160 (543)
..+.+|+|||.+|..|||++||||- ...||+..+|+++++.-
T Consensus 89 ~~n~PvLiHC~~G~~rTG~vvg~lR-k~Q~W~~~~i~~Ey~~f 130 (164)
T PF03162_consen 89 PRNYPVLIHCNHGKDRTGLVVGCLR-KLQGWSLSSIFDEYRRF 130 (164)
T ss_dssp GGG-SEEEE-SSSSSHHHHHHHHHH-HHTTB-HHHHHHHHHHH
T ss_pred CCCCCEEEEeCCCCcchhhHHHHHH-HHcCCCHHHHHHHHHHh
Confidence 2357999999999999999999999 44699999999999873
No 57
>PRK15375 pathogenicity island 1 effector protein StpP; Provisional
Probab=99.01 E-value=1.5e-09 Score=115.53 Aligned_cols=94 Identities=14% Similarity=0.194 Sum_probs=75.0
Q ss_pred cEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhhC-------CCCeEEEEcCCCCChhHHHHHHHHHHhCC-CCHHHHHH
Q psy9353 85 IAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISKS-------PLEKIGVHCTHGFNRTGFLLISYLVEEMN-FDVSAAIF 155 (543)
Q Consensus 85 i~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~~-------~~~~V~VHC~~G~~RTG~~ia~yLi~~~~-~s~~~Al~ 155 (543)
|.++++. ++|||.+|+.+.+..|++.|.+..+.. +...++|||.+|.||||++||++++...+ .++++.+.
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 5566655 799987777777888988887764321 11234799999999999999999997555 59999999
Q ss_pred HHHhcCCC-CCCCHHHHHHHHHHh
Q psy9353 156 AFSMARPP-GIYKQDYLNELFRRY 178 (543)
Q Consensus 156 ~~~~~R~~-~i~~~~yi~~L~~~y 178 (543)
.+|..|++ .+.+.+.++.|++.-
T Consensus 503 dlR~qRng~MVQt~eQy~~l~~~~ 526 (535)
T PRK15375 503 DFRNSRNNRMLEDASQFVQLKAMQ 526 (535)
T ss_pred HHHhcCCccccccHHHHHHHHHHH
Confidence 99999998 899999888887653
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=98.97 E-value=3e-09 Score=105.10 Aligned_cols=93 Identities=16% Similarity=0.216 Sum_probs=72.5
Q ss_pred CcEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHh-----CCCCHHHHHHHH
Q psy9353 84 DIAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEE-----MNFDVSAAIFAF 157 (543)
Q Consensus 84 gi~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~-----~~~s~~~Al~~~ 157 (543)
.|.++++. ++|++.+++.+.+.+|+..+.+......+++|+|||.+|.||||+++|++++.. ..+++.+|+..+
T Consensus 129 ~V~~~~~~~W~d~~~p~~~~~~~~~~~~v~~~~~~~~~~pivVHC~~G~gRsg~~~a~~~~~~~~~~~~~~~~~~~v~~i 208 (231)
T cd00047 129 TVTHFQYTGWPDHGVPESPDSLLDLLRKVRKSQQQPGSGPIVVHCSAGVGRTGTFIAIDILLQRLEAEGVVDIFQTVKEL 208 (231)
T ss_pred EEEEEeECCCCCCCccCChHHHHHHHHHHHHHhccCCCCCeEEECCCCCCccchHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 45566655 678765555578888888887765434568999999999999999999996533 257999999999
Q ss_pred HhcCCCCCCCHHHHHHHHH
Q psy9353 158 SMARPPGIYKQDYLNELFR 176 (543)
Q Consensus 158 ~~~R~~~i~~~~yi~~L~~ 176 (543)
++.|+.++.+..+..-++.
T Consensus 209 R~~R~~~v~~~~Qy~f~~~ 227 (231)
T cd00047 209 RSQRPGMVQTEEQYIFLYR 227 (231)
T ss_pred HhccccccCCHHHHHHHHH
Confidence 9999999998866655554
No 59
>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=98.86 E-value=1.7e-08 Score=91.64 Aligned_cols=99 Identities=12% Similarity=0.077 Sum_probs=75.0
Q ss_pred chhHh-cccceEEecccccccC-CChh------hhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEE
Q psy9353 54 NEKQT-RLKIGLWIDLTKTSRF-YDKS------EVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGV 125 (543)
Q Consensus 54 ~~es~-~~~i~~VIdLt~~~~~-y~~~------~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~V 125 (543)
+.+.+ ..++..||||....+. ..|. ..+..|+.|+++|+... .++.+.+..|.+.++. ..++|++
T Consensus 19 d~~~L~~~GiktVIdlR~~~E~~~~p~~~~~~~~a~~~gl~y~~iPv~~~--~~~~~~v~~f~~~~~~-----~~~pvL~ 91 (135)
T TIGR01244 19 DAAQAAQLGFKTVINNRPDREEESQPDFAQIKAAAEAAGVTYHHQPVTAG--DITPDDVETFRAAIGA-----AEGPVLA 91 (135)
T ss_pred HHHHHHHCCCcEEEECCCCCCCCCCCCHHHHHHHHHHCCCeEEEeecCCC--CCCHHHHHHHHHHHHh-----CCCCEEE
Confidence 34443 4799999999975432 2221 12447999999998763 4688888888877752 2478999
Q ss_pred EcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcC
Q psy9353 126 HCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMAR 161 (543)
Q Consensus 126 HC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R 161 (543)
||++|. |||++.+.++.. .|++.+++++..+++.
T Consensus 92 HC~sG~-Rt~~l~al~~~~-~g~~~~~i~~~~~~~G 125 (135)
T TIGR01244 92 YCRSGT-RSSLLWGFRQAA-EGVPVEEIVRRAQAAG 125 (135)
T ss_pred EcCCCh-HHHHHHHHHHHH-cCCCHHHHHHHHHHcC
Confidence 999999 999999888877 5899999999887654
No 60
>smart00194 PTPc Protein tyrosine phosphatase, catalytic domain.
Probab=98.81 E-value=2e-08 Score=100.93 Aligned_cols=91 Identities=19% Similarity=0.254 Sum_probs=70.0
Q ss_pred cEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHh-----CCCCHHHHHHHHH
Q psy9353 85 IAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEE-----MNFDVSAAIFAFS 158 (543)
Q Consensus 85 i~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~-----~~~s~~~Al~~~~ 158 (543)
+.++++. ++|++.+++.+.+.+|+..+...... ..++|+|||.+|.||||+++|++++.. ..+++.+|+..++
T Consensus 158 v~~~~y~~W~d~~~P~~~~~~~~~i~~v~~~~~~-~~~pivVHC~~G~gRsg~f~a~~~~~~~l~~~~~v~v~~~v~~lR 236 (258)
T smart00194 158 VTHYHYTNWPDHGVPESPKSILDLVRAVRKSQST-STGPIVVHCSAGVGRTGTFIAIDILLQQLEAGKEVDIFEIVKELR 236 (258)
T ss_pred EEEEeeCCCCCCCCCCCHHHHHHHHHHHHHhhcc-CCCCEEEEeCCCCCccchhhHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 4444443 67876444667788888887765432 257899999999999999999986632 3579999999999
Q ss_pred hcCCCCCCCHHHHHHHHH
Q psy9353 159 MARPPGIYKQDYLNELFR 176 (543)
Q Consensus 159 ~~R~~~i~~~~yi~~L~~ 176 (543)
+.|+.++.+..+..-+|.
T Consensus 237 ~~R~~~v~~~~Qy~f~~~ 254 (258)
T smart00194 237 SQRPGMVQTEEQYIFLYR 254 (258)
T ss_pred hccccccCCHHHHHHHHH
Confidence 999999999877666654
No 61
>PLN02727 NAD kinase
Probab=98.71 E-value=4.6e-08 Score=110.48 Aligned_cols=86 Identities=22% Similarity=0.243 Sum_probs=69.1
Q ss_pred cccceEEecccccccC---C---ChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 59 RLKIGLWIDLTKTSRF---Y---DKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~---y---~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
..++..||||+.+.+- | ..+..++.|++|+++|+.+. .+|+.+++.+|.+.+++ ...++|++||+.|..
T Consensus 279 ~~GfKTIINLRpd~E~~q~~~~ee~eAae~~GL~yVhIPVs~~-~apt~EqVe~fa~~l~~----slpkPVLvHCKSGar 353 (986)
T PLN02727 279 EKGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEVVKIPVEVR-TAPSAEQVEKFASLVSD----SSKKPIYLHSKEGVW 353 (986)
T ss_pred HCCCeEEEECCCCCcCCCchhHHHHHHHHHcCCeEEEeecCCC-CCCCHHHHHHHHHHHHh----hcCCCEEEECCCCCc
Confidence 5899999999876542 2 11234568999999999874 69999999999998854 124889999999999
Q ss_pred hhHHHHHHHHHHhCCCC
Q psy9353 133 RTGFLLISYLVEEMNFD 149 (543)
Q Consensus 133 RTG~~ia~yLi~~~~~s 149 (543)
|||+|+||||++--+-.
T Consensus 354 RAGamvA~yl~~~~~~~ 370 (986)
T PLN02727 354 RTSAMVSRWKQYMTRSA 370 (986)
T ss_pred hHHHHHHHHHHHHcccc
Confidence 99999999999865543
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=98.62 E-value=4.7e-08 Score=90.29 Aligned_cols=66 Identities=26% Similarity=0.463 Sum_probs=49.7
Q ss_pred CChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHH
Q psy9353 75 YDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVE 144 (543)
Q Consensus 75 y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~ 144 (543)
|.....+..|+.|+++|++|| ..|+++.+.+|++.+... .++..+.+||.+|.|||.+.+++|.|-
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-QAPDPEDIDAFINFVKSL---PKDTWLHFHCQAGRGRTTTFMVMYDLI 148 (149)
T ss_dssp -HHHHHHHTT-EEEEEEE-TT-S---HHHHHHHHHHHHTS----TT-EEEEE-SSSSHHHHHHHHHHHHH
T ss_pred HHHHHHhcCCceEEEEeCCCc-CCCCHHHHHHHHHHHHhC---CCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 445566778999999999998 799999999999998765 346899999999999999999999663
No 63
>PHA02740 protein tyrosine phosphatase; Provisional
Probab=98.57 E-value=3.5e-07 Score=93.96 Aligned_cols=86 Identities=8% Similarity=0.091 Sum_probs=65.5
Q ss_pred cEEEEE-EecCCCCCCChHHHHHHHHHHHHHHh-------hCCCCeEEEEcCCCCChhHHHHHHHHH-----HhCCCCHH
Q psy9353 85 IAYIKI-QCEGHKEAPNEKQTRVFINLCSKFIS-------KSPLEKIGVHCTHGFNRTGFLLISYLV-----EEMNFDVS 151 (543)
Q Consensus 85 i~y~~i-p~~dhg~~P~~e~i~~f~~~v~~fl~-------~~~~~~V~VHC~~G~~RTG~~ia~yLi-----~~~~~s~~ 151 (543)
|.|+++ .++|||.|.+...+..|+..|.+..+ ....++|+|||.+|.||||+++|.... .....++-
T Consensus 178 V~Hfqyt~WPd~gvP~~~~~~l~fi~~V~~~~~~~~~~~~~~~~~PIVVHCSaGvGRTGtFcaiDi~l~~~~~~~~vdi~ 257 (298)
T PHA02740 178 ISHFQYTAWPADGFSHDPDAFIDFFCNIDDLCADLEKHKADGKIAPIIIDCIDGISSSAVFCVFDICATEFDKTGMLSIA 257 (298)
T ss_pred EEEEeecCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHhhccCCCCCEEEECCCCCchhHHHHHHHHHHHHHHhcCcccHH
Confidence 444443 47899866678888888887776432 123479999999999999999988733 22346999
Q ss_pred HHHHHHHhcCCCCCCCHHH
Q psy9353 152 AAIFAFSMARPPGIYKQDY 170 (543)
Q Consensus 152 ~Al~~~~~~R~~~i~~~~y 170 (543)
+++..+|+.|+..+...+.
T Consensus 258 ~~V~~lR~qR~~~Vqt~~Q 276 (298)
T PHA02740 258 NALKKVRQKKYGCMNCLDD 276 (298)
T ss_pred HHHHHHHhhCccccCCHHH
Confidence 9999999999999998743
No 64
>PF13350 Y_phosphatase3: Tyrosine phosphatase family; PDB: 1YWF_A 2OZ5_B.
Probab=98.52 E-value=1.7e-07 Score=87.91 Aligned_cols=96 Identities=20% Similarity=0.284 Sum_probs=49.4
Q ss_pred cccceEEecccccccCC-ChhhhhcCCcEEEEEEecCCCCCCChHHHH-------------------------HHHHHHH
Q psy9353 59 RLKIGLWIDLTKTSRFY-DKSEVEENDIAYIKIQCEGHKEAPNEKQTR-------------------------VFINLCS 112 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y-~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~-------------------------~f~~~v~ 112 (543)
+.+|..||||....+.- .|..+. .|++|+++|+.+. .....+.+. ..+..+-
T Consensus 40 ~lgI~tIiDLRs~~E~~~~p~~~~-~g~~~~~~p~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~~~~ 117 (164)
T PF13350_consen 40 ELGIRTIIDLRSPTERERAPDPLI-DGVQYVHIPIFGD-DASSPDKLAELLQSSADAPRGMLEFYREMLESYAEAYRKIF 117 (164)
T ss_dssp HTT--EEEE-S-HHHHHHHS-----TT-EEEE--SS-S--TTH----------HHHHHHHHHHHHHHGGGSTHHHHHHHH
T ss_pred hCCCCEEEECCCccccccCCCCCc-CCceeeeeccccc-ccccccccccccccccchhhHHHHHHHHHHHhhhHHHHHHH
Confidence 68999999999865422 232222 4999999998774 222111111 1122222
Q ss_pred HHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHH
Q psy9353 113 KFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFS 158 (543)
Q Consensus 113 ~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~ 158 (543)
+.+...+ +.|++||++|+.|||+++|..|.- .|.+-++.++-+.
T Consensus 118 ~~l~~~~-~p~l~HC~aGKDRTG~~~alll~~-lGV~~~~I~~DY~ 161 (164)
T PF13350_consen 118 ELLADAP-GPVLFHCTAGKDRTGVVAALLLSL-LGVPDEDIIADYL 161 (164)
T ss_dssp HHHH-TT---EEEE-SSSSSHHHHHHHHHHHH-TT--HHHHHHHHH
T ss_pred HHhccCC-CcEEEECCCCCccHHHHHHHHHHH-cCCCHHHHHHHHH
Confidence 2334445 799999999999999998888765 5999888887654
No 65
>PHA02742 protein tyrosine phosphatase; Provisional
Probab=98.51 E-value=6.1e-07 Score=92.53 Aligned_cols=88 Identities=13% Similarity=0.077 Sum_probs=65.1
Q ss_pred cEEEEE-EecCCCCCCChHHHHHHHHHHHHHHhh----------CCCCeEEEEcCCCCChhHHHHHHHHH-Hh----CCC
Q psy9353 85 IAYIKI-QCEGHKEAPNEKQTRVFINLCSKFISK----------SPLEKIGVHCTHGFNRTGFLLISYLV-EE----MNF 148 (543)
Q Consensus 85 i~y~~i-p~~dhg~~P~~e~i~~f~~~v~~fl~~----------~~~~~V~VHC~~G~~RTG~~ia~yLi-~~----~~~ 148 (543)
|.|+++ .++|||.|.+...+..|+..+.+.... ...++|+|||.+|.||||+++|...+ .. ...
T Consensus 183 V~h~~y~~Wpd~gvP~~~~~~l~~i~~v~~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRTGtF~aid~~i~~~~~~~~v 262 (303)
T PHA02742 183 IKHFAYEDWPHGGLPRDPNKFLDFVLAVREADLKADVDIKGENIVKEPPILVHCSAGLDRAGAFCAIDICISKYNERAII 262 (303)
T ss_pred EEEEEECCCCCCCcCCCHHHHHHHHHHHHHHhhhccccccccccCCCCCeEEECCCCCchhHHHHHHHHHHHHHHhcCCC
Confidence 444444 378888666777888888888763211 12468999999999999999988743 22 245
Q ss_pred CHHHHHHHHHhcCCCCCCCHHHHH
Q psy9353 149 DVSAAIFAFSMARPPGIYKQDYLN 172 (543)
Q Consensus 149 s~~~Al~~~~~~R~~~i~~~~yi~ 172 (543)
++-+++..+|+.|+..+...++..
T Consensus 263 ~v~~~V~~lR~qR~~~Vqt~~QY~ 286 (303)
T PHA02742 263 PLLSIVRDLRKQRHNCLSLPQQYI 286 (303)
T ss_pred CHHHHHHHHHhhcccccCCHHHHH
Confidence 899999999999999999875433
No 66
>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=98.50 E-value=5.5e-07 Score=88.33 Aligned_cols=85 Identities=21% Similarity=0.269 Sum_probs=67.2
Q ss_pred EecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHh-----CCCCHHHHHHHHHhcCCCCC
Q psy9353 91 QCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEE-----MNFDVSAAIFAFSMARPPGI 165 (543)
Q Consensus 91 p~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~-----~~~s~~~Al~~~~~~R~~~i 165 (543)
.+++++.+++.+.+..|++.+.+.. ..+..+|+|||.+|.||||+++|+.++.. ...++.+++..+++.|+++|
T Consensus 142 ~W~~~~~P~~~~~~~~~~~~v~~~~-~~~~~pivVhc~~G~gRsg~f~~~~~~~~~~~~~~~~~v~~~~~~lR~~R~~~i 220 (235)
T PF00102_consen 142 NWPDDGVPPSPESFLDFIRKVNKSK-DDPNGPIVVHCSDGVGRSGTFCAIDILIEQLKKEGEVDVFEIVKKLRQQRPGAI 220 (235)
T ss_dssp SSSSSSSGSSSHHHHHHHHHHHHHH-STTSSEEEEESSSSSHHHHHHHHHHHHHHHHHHHSEECHHHHHHHHHTTSTTSS
T ss_pred eccccccccccchhhhhhhhccccc-cCCccceEeecccccccccccccchhhccccccccchhhHHHHHHHHhhCCCcc
Confidence 3555544446777778887777765 34679999999999999999999996633 24699999999999999999
Q ss_pred CCHHHHHHHHH
Q psy9353 166 YKQDYLNELFR 176 (543)
Q Consensus 166 ~~~~yi~~L~~ 176 (543)
.+..+..-+|.
T Consensus 221 ~~~~qy~f~~~ 231 (235)
T PF00102_consen 221 QSPEQYRFCYM 231 (235)
T ss_dssp SSHHHHHHHHH
T ss_pred CCHHHHHHHHH
Confidence 99877666654
No 67
>PHA02747 protein tyrosine phosphatase; Provisional
Probab=98.49 E-value=7.3e-07 Score=92.31 Aligned_cols=87 Identities=20% Similarity=0.231 Sum_probs=64.0
Q ss_pred cEEEEE-EecCCCCCCChHHHHHHHHHHHHHHhhC---------CCCeEEEEcCCCCChhHHHHHHHHH-----HhCCCC
Q psy9353 85 IAYIKI-QCEGHKEAPNEKQTRVFINLCSKFISKS---------PLEKIGVHCTHGFNRTGFLLISYLV-----EEMNFD 149 (543)
Q Consensus 85 i~y~~i-p~~dhg~~P~~e~i~~f~~~v~~fl~~~---------~~~~V~VHC~~G~~RTG~~ia~yLi-----~~~~~s 149 (543)
|.|+++ -++|||.|.+...+..|+..+....+.. ..++|+|||.+|.||||+++|...+ .....+
T Consensus 184 V~h~~y~~Wpd~~~P~~~~~~l~fi~~v~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRtGtfcaidi~i~~l~~~~~v~ 263 (312)
T PHA02747 184 ISHFQCSEWFEDETPSDHPDFIKFIKIIDINRKKSGKLFNPKDALLCPIVVHCSDGVGKTGIFCAVDICLNQLVKRKAIC 263 (312)
T ss_pred EEEEEECCCCCCCCCCChHHHHHHHHHHHHHHHHhhccccccccCCCCEEEEecCCCcchhHHHHHHHHHHHHHhcCCCC
Confidence 444443 4788865545667778887776654321 1268999999999999999998732 223569
Q ss_pred HHHHHHHHHhcCCCCCCCHHHH
Q psy9353 150 VSAAIFAFSMARPPGIYKQDYL 171 (543)
Q Consensus 150 ~~~Al~~~~~~R~~~i~~~~yi 171 (543)
+.+++..+|+.|+..+...+..
T Consensus 264 v~~~V~~lR~qR~~~Vqt~~QY 285 (312)
T PHA02747 264 LAKTAEKIREQRHAGIMNFDDY 285 (312)
T ss_pred HHHHHHHHHhccccccCCHHHH
Confidence 9999999999999999987533
No 68
>PHA02746 protein tyrosine phosphatase; Provisional
Probab=98.49 E-value=9.1e-07 Score=92.00 Aligned_cols=90 Identities=16% Similarity=0.190 Sum_probs=66.4
Q ss_pred cEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhh------C-C--CCeEEEEcCCCCChhHHHHHHHHH----Hh-CCCC
Q psy9353 85 IAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISK------S-P--LEKIGVHCTHGFNRTGFLLISYLV----EE-MNFD 149 (543)
Q Consensus 85 i~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~------~-~--~~~V~VHC~~G~~RTG~~ia~yLi----~~-~~~s 149 (543)
|.|+++. ++|||.|.+...+.+|+..+.+..+. . + .++|+|||.+|.||||+++|...+ .. ...+
T Consensus 202 V~h~~y~~Wpd~gvP~~~~~~l~~i~~v~~~~~~~~~~~~~~~~~~~PIvVHCsaGvGRTGtfcaid~~l~~l~~~~~vd 281 (323)
T PHA02746 202 IHHFWFPDWPDNGIPTGMAEFLELINKVNEEQAELIKQADNDPQTLGPIVVHCSAGIGRAGTFCAIDNALEQLEKEKEVC 281 (323)
T ss_pred EEEEEECCCCCCCcCCCHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCEEEEcCCCCCcchhHHHHHHHHHHHHhcCCCC
Confidence 4444443 68887555677888888888775421 1 1 368999999999999999997633 22 3469
Q ss_pred HHHHHHHHHhcCCCCCCCHHHHHHH
Q psy9353 150 VSAAIFAFSMARPPGIYKQDYLNEL 174 (543)
Q Consensus 150 ~~~Al~~~~~~R~~~i~~~~yi~~L 174 (543)
+-+++..+|+.|+..+...++..-+
T Consensus 282 v~~~V~~lR~qR~~~Vqt~~QY~F~ 306 (323)
T PHA02746 282 LGEIVLKIRKQRHSSVFLPEQYAFC 306 (323)
T ss_pred HHHHHHHHHhcccccCCCHHHHHHH
Confidence 9999999999999999987544433
No 69
>PHA02738 hypothetical protein; Provisional
Probab=98.37 E-value=2.3e-06 Score=88.92 Aligned_cols=87 Identities=13% Similarity=0.186 Sum_probs=63.5
Q ss_pred cEEEEE-EecCCCCCCChHHHHHHHHHHHHHHhh---------C---CCCeEEEEcCCCCChhHHHHHHHH-HHh----C
Q psy9353 85 IAYIKI-QCEGHKEAPNEKQTRVFINLCSKFISK---------S---PLEKIGVHCTHGFNRTGFLLISYL-VEE----M 146 (543)
Q Consensus 85 i~y~~i-p~~dhg~~P~~e~i~~f~~~v~~fl~~---------~---~~~~V~VHC~~G~~RTG~~ia~yL-i~~----~ 146 (543)
|.|+++ .++|||.|.+...+..|+..|.+..+. + ..++|+|||.+|.||||+++|... +.+ .
T Consensus 179 V~h~~y~~Wpd~gvP~~~~~~l~fi~~V~~~~~~~~~~~~~~~~~~~~~~PIVVHCs~GiGRtGtFcaidi~i~~~~~~~ 258 (320)
T PHA02738 179 VTHFNFTAWPDHDVPKNTSEFLNFVLEVRQCQKELAQESLQIGHNRLQPPPIVVHCNAGLGRTPCYCVVDISISRFDACA 258 (320)
T ss_pred EEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHhhhhhcccCccccCCCCeEEEcCCCCChhhhhhHHHHHHHHHHhcC
Confidence 444443 378887555667788888877764321 1 136899999999999999988773 222 2
Q ss_pred CCCHHHHHHHHHhcCCCCCCCHHHH
Q psy9353 147 NFDVSAAIFAFSMARPPGIYKQDYL 171 (543)
Q Consensus 147 ~~s~~~Al~~~~~~R~~~i~~~~yi 171 (543)
..++-+++..+++.|+..+...+.-
T Consensus 259 ~vdv~~~V~~lR~qR~~~vqt~~QY 283 (320)
T PHA02738 259 TVSIPSIVSSIRNQRYYSLFIPFQY 283 (320)
T ss_pred CcCHHHHHHHHHhhhhhccCCHHHH
Confidence 4699999999999999999987533
No 70
>KOG0790|consensus
Probab=98.20 E-value=1.7e-06 Score=89.84 Aligned_cols=94 Identities=20% Similarity=0.327 Sum_probs=72.4
Q ss_pred EEEEEEecCCCCCCChHHHHHHHHHHHHHHhhC-CCCeEEEEcCCCCChhHHHHHHHHH----HhC----CCCHHHHHHH
Q psy9353 86 AYIKIQCEGHKEAPNEKQTRVFINLCSKFISKS-PLEKIGVHCTHGFNRTGFLLISYLV----EEM----NFDVSAAIFA 156 (543)
Q Consensus 86 ~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~-~~~~V~VHC~~G~~RTG~~ia~yLi----~~~----~~s~~~Al~~ 156 (543)
+|..+-++|||.|-++.-+..|++.|+.-.+.- .-++|.|||.||+||||++|+.-++ ... .+++..-|+.
T Consensus 416 ~yh~~tWPDHGvP~dPg~vLnFLe~V~~rq~~l~~AgpIvVHCSAGIGrTGTfiViD~lld~I~~~Gldc~iDi~ktIqm 495 (600)
T KOG0790|consen 416 HYHYLTWPDHGVPSDPGGVLNFLEEVNHRQESLMDAGPIVVHCSAGIGRTGTFIVIDMLLDQIREKGLDCDIDIQKTIQM 495 (600)
T ss_pred hhheeecccCCCcCCccHHHHHHHHhhhhhccccccCcEEEEccCCcCCcceEEEhHHHHHHHHhcCCCCcccHHHHHHH
Confidence 466677899997778889999999998653321 2369999999999999999887643 333 4578999999
Q ss_pred HHhcCCCCCCC-----------HHHHHHHHHHhC
Q psy9353 157 FSMARPPGIYK-----------QDYLNELFRRYD 179 (543)
Q Consensus 157 ~~~~R~~~i~~-----------~~yi~~L~~~y~ 179 (543)
++..|.+-+.. +.||+.|..|-.
T Consensus 496 VRsqRSGmVQTEaQYkFiY~Avqhyietl~~r~e 529 (600)
T KOG0790|consen 496 VRSQRSGMVQTEAQYKFIYVAVQHYIETLQKRIE 529 (600)
T ss_pred HHHHhcchhhhHHhHHHHHHHHHHHHHHHHHHHH
Confidence 99999986653 478888877644
No 71
>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=98.09 E-value=8.4e-06 Score=71.29 Aligned_cols=75 Identities=19% Similarity=0.244 Sum_probs=46.1
Q ss_pred cccceEEecccccccCCC-------hhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 59 RLKIGLWIDLTKTSRFYD-------KSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y~-------~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
..|+..|||+....+--+ .+..++.|+.|+++|+.. ..++.+.+..|.+.+.+ . .++|++||+.|.
T Consensus 25 ~~GfktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~--~~~~~~~v~~f~~~l~~----~-~~Pvl~hC~sG~ 97 (110)
T PF04273_consen 25 AQGFKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDG--GAITEEDVEAFADALES----L-PKPVLAHCRSGT 97 (110)
T ss_dssp HCT--EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----T--TT--HHHHHHHHHHHHT----T-TTSEEEE-SCSH
T ss_pred HCCCcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCC--CCCCHHHHHHHHHHHHh----C-CCCEEEECCCCh
Confidence 589999999986543211 134667999999999986 46889999999887754 2 368999999995
Q ss_pred ChhHHHHHHH
Q psy9353 132 NRTGFLLISY 141 (543)
Q Consensus 132 ~RTG~~ia~y 141 (543)
|++.+.+..
T Consensus 98 -Ra~~l~~l~ 106 (110)
T PF04273_consen 98 -RASALWALA 106 (110)
T ss_dssp -HHHHHHHHH
T ss_pred -hHHHHHHHH
Confidence 887776543
No 72
>KOG0792|consensus
Probab=98.02 E-value=1.6e-05 Score=90.49 Aligned_cols=90 Identities=20% Similarity=0.332 Sum_probs=63.3
Q ss_pred EEecCCCCCCChHHHHHHHHHHHHHHhh--CCCCeEEEEcCCCCChhHHHHHH----HHHHhC-CCCHHHHHHHHHhcCC
Q psy9353 90 IQCEGHKEAPNEKQTRVFINLCSKFISK--SPLEKIGVHCTHGFNRTGFLLIS----YLVEEM-NFDVSAAIFAFSMARP 162 (543)
Q Consensus 90 ip~~dhg~~P~~e~i~~f~~~v~~fl~~--~~~~~V~VHC~~G~~RTG~~ia~----yLi~~~-~~s~~~Al~~~~~~R~ 162 (543)
..++||| +|+ +.+.|+..+.+-.+. ..+.+|+|||.||+||||++|++ ||+++. .+.+-+-+..++..|-
T Consensus 1034 taWPDHg-~P~--D~~~FL~FleevrsvR~~t~pPilvHCSAGiGRTGVlIl~e~~l~lle~Ne~vdi~divr~mR~QR~ 1110 (1144)
T KOG0792|consen 1034 TAWPDHG-VPD--DPNDFLDFLEEVRSVRRGTNPPILVHCSAGIGRTGVLILMETALCLLEHNEPVDILDIVRTMRDQRA 1110 (1144)
T ss_pred cccccCC-CCC--ChHHHHHHHHHHHHHhccCCCCeEEEccCCCCcceehHHHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Confidence 3488997 553 345555555443332 23569999999999999999865 567764 5689999999999999
Q ss_pred CCCCCHH---HH-HHHHHHhCCCC
Q psy9353 163 PGIYKQD---YL-NELFRRYDDVP 182 (543)
Q Consensus 163 ~~i~~~~---yi-~~L~~~y~~~~ 182 (543)
..|.... |+ +.|.+.|.+..
T Consensus 1111 ~mVQT~~QYkFVyevil~~l~~~~ 1134 (1144)
T KOG0792|consen 1111 MMVQTLSQYKFVYEVILRVLKRGR 1134 (1144)
T ss_pred hhccchHHhhHHHHHHHHHHHhcc
Confidence 9898764 22 23566676544
No 73
>COG2365 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]
Probab=97.87 E-value=4.8e-05 Score=76.30 Aligned_cols=68 Identities=15% Similarity=0.187 Sum_probs=43.7
Q ss_pred CCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCC
Q psy9353 97 EAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGI 165 (543)
Q Consensus 97 ~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i 165 (543)
..|+.+...+-+..+.+.+....+.+|++||+||..|||+++|+|+... +++.+++++.+.....++.
T Consensus 113 ~~~~~~~~~e~~~~~~~l~~~~e~~PvL~HC~~GkdRTGl~~al~r~~~-~~~~~~v~~dyl~~~~~~~ 180 (249)
T COG2365 113 SFPTREDAAERLVELLQLLADAENGPVLIHCTAGKDRTGLVAALYRKLV-GGSDETVAADYLLTNRYGE 180 (249)
T ss_pred cCccchhhHHHHHHHHHHHhhcccCCEEEecCCCCcchHHHHHHHHHHh-CCchhHHHHHHHHcCCccc
Confidence 3444443333333333333333458999999999999999999999986 6655555555555444433
No 74
>KOG0791|consensus
Probab=97.86 E-value=6e-05 Score=77.43 Aligned_cols=95 Identities=17% Similarity=0.229 Sum_probs=69.8
Q ss_pred CcE-EEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHH-HHHhCCC----CHHHHHHHH
Q psy9353 84 DIA-YIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISY-LVEEMNF----DVSAAIFAF 157 (543)
Q Consensus 84 gi~-y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~y-Li~~~~~----s~~~Al~~~ 157 (543)
.++ ++...++|||.+-+...+.+|++.+.+.+... ..++.|||.+|.||||++||.- |+++.+- ..-..+...
T Consensus 251 ~ir~f~y~~wPd~gvp~~~~sl~~f~~~~r~~~~~~-~~p~iVhCSAGVgRTGTFiald~LLqq~~~~~~vdi~~iv~~l 329 (374)
T KOG0791|consen 251 KIRHFHYTAWPDFGVPSSTESLLQFVRMVRQSLDTS-KGPTIVHCSAGVGRTGTFIALDRLLQQIDSEETVDIFGVVLEL 329 (374)
T ss_pred eeEEEEEeeccccCCCCCchhHHHHHHHHHhhcccC-CCceeEEeecccccccchHhHHHHHHHhcccccccHHHHHHHh
Confidence 344 34456889964434567888999888887664 5799999999999999999988 5555433 466677888
Q ss_pred HhcCCCCCCCHHHHHHHHHHhC
Q psy9353 158 SMARPPGIYKQDYLNELFRRYD 179 (543)
Q Consensus 158 ~~~R~~~i~~~~yi~~L~~~y~ 179 (543)
+.+|+..+.+.....-|+.=..
T Consensus 330 R~~R~~mVqte~Qyvfl~~c~~ 351 (374)
T KOG0791|consen 330 RSARMLMVQTEDQYVFLHQCVL 351 (374)
T ss_pred hhccccccchHHHHHHHHHHHH
Confidence 8999998888765555554443
No 75
>COG5599 PTP2 Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=97.85 E-value=2e-05 Score=77.56 Aligned_cols=89 Identities=16% Similarity=0.237 Sum_probs=54.7
Q ss_pred cEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhhC-CCCeEEEEcCCCCChhHHHHHHHHHHhC-C----------CC--
Q psy9353 85 IAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISKS-PLEKIGVHCTHGFNRTGFLLISYLVEEM-N----------FD-- 149 (543)
Q Consensus 85 i~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~~-~~~~V~VHC~~G~~RTG~~ia~yLi~~~-~----------~s-- 149 (543)
|+++.++ +.|. ..|+...+ .+.+....... ..++++|||.||.||||++||.--+-+. . ++
T Consensus 185 Ihhf~y~nW~D~-~~p~i~sl---~~~~~sl~~sp~~t~piiVHCSAGvGRTGTFIalD~ll~~~~~~~~~t~~~~~t~D 260 (302)
T COG5599 185 IHHFQYINWVDF-NVPDIRSL---TEVIHSLNDSPVRTGPIIVHCSAGVGRTGTFIALDILLRMPNDTLNHTDTWEDTQD 260 (302)
T ss_pred EEEEEecCcccc-CCcCHHHH---HHHHHHhhcCcCCCCCEEEEeccCCCCcceeeeHHHHHhccccccCCCchhhhhhh
Confidence 4444444 6675 46644444 44444333332 4689999999999999999999855443 1 11
Q ss_pred -HHHHHHHHHhcCCCCCCCHHHHHHHHHH
Q psy9353 150 -VSAAIFAFSMARPPGIYKQDYLNELFRR 177 (543)
Q Consensus 150 -~~~Al~~~~~~R~~~i~~~~yi~~L~~~ 177 (543)
..+.+..+|..|-..+.+-..+..||.-
T Consensus 261 ~if~iV~~LRsQRmkmVQn~~Qf~flY~~ 289 (302)
T COG5599 261 LIFQIVLSLRSQRMKMVQNKTQFKFLYDA 289 (302)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 2334456677777777776655555543
No 76
>KOG1572|consensus
Probab=97.81 E-value=0.00017 Score=70.17 Aligned_cols=121 Identities=21% Similarity=0.237 Sum_probs=80.9
Q ss_pred CchhHhcccceEEecccccccCCCh---hhhhcCCcEEEEEEecCCCC---CCChHHHHHHHHHHHHHHhhCCCCeEEEE
Q psy9353 53 PNEKQTRLKIGLWIDLTKTSRFYDK---SEVEENDIAYIKIQCEGHKE---APNEKQTRVFINLCSKFISKSPLEKIGVH 126 (543)
Q Consensus 53 p~~es~~~~i~~VIdLt~~~~~y~~---~~~~~~gi~y~~ip~~dhg~---~P~~e~i~~f~~~v~~fl~~~~~~~V~VH 126 (543)
+++.+ -++..||.||++. |.. .-++.++|+++++-|.+-.. -|.......-+..+-+++-...+.+++||
T Consensus 79 sFL~~--L~LksIisL~pE~--yp~~nl~f~~~~~Ik~~~i~ie~~k~~~k~P~~~~~~~~i~~~l~~lld~~N~P~Lih 154 (249)
T KOG1572|consen 79 SFLKT--LHLKSIISLCPEP--YPEENLNFLESNGIKLYQIGIEGEKDNKKEPFVNIPDHSIRKALKVLLDKRNYPILIH 154 (249)
T ss_pred HHHHH--hhhheEEEecCCC--CChHHHHHHHhcCceEEEEecccccccccCCCCCChHHHHHHHHHHHhcccCCceEEe
Confidence 34445 4578999999863 432 24778999999999988531 44444444444444444433457899999
Q ss_pred cCCCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCC
Q psy9353 127 CTHGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDD 180 (543)
Q Consensus 127 C~~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~ 180 (543)
|+-|.-|||++|+|.- .-++|++--.++.+...=.+- ...+..++-+.|..
T Consensus 155 c~rGkhRtg~lVgclR-klq~W~lssil~Ey~~fa~sk--~r~~d~~Fie~fd~ 205 (249)
T KOG1572|consen 155 CKRGKHRTGCLVGCLR-KLQNWSLSSILDEYLRFAGSK--GRRVDLRFIEMFDT 205 (249)
T ss_pred cCCCCcchhhhHHHHH-HHhccchhHHHHHHHHhccch--hHHHHHHHHHHhcc
Confidence 9999999999999997 556898888777666543322 22344444455554
No 77
>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=97.68 E-value=0.00019 Score=75.08 Aligned_cols=119 Identities=16% Similarity=0.185 Sum_probs=74.2
Q ss_pred CCCCCCeeeccccccccc-cccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCC--CCcCCCCeEE
Q psy9353 260 VGFPGSQPVSMDRNNIGY-LAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKD--PNKRLTNTLL 336 (543)
Q Consensus 260 ~~FPG~qPVsl~r~~l~~-l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~--~~~~~~~tlL 336 (543)
.+||--+-+-+-..-|.. +.....+|+||.||..+-++.. +|++++++|.+-+..-++-+++...+ .-...++.+|
T Consensus 57 ~GyP~I~R~~~L~~gi~~~f~~~~v~vEEKlDG~Nvri~~~-~g~l~a~tRGgyicp~tt~r~~~~~~~~~~~d~p~l~L 135 (374)
T TIGR01209 57 RGFPHIKRILLLRPGIKRHFKDPEVVVEEKMNGYNVRIVKY-GGNVYALTRGGFICPFTTERLPDLIDLEFFDDNPDLVL 135 (374)
T ss_pred cCCCCcceeeccchhhHHhcCCCcEEEEEeecCceEEEEeE-CCEEEEEccCcccCCCcHHHHHHHhhHHhhccCCCeEE
Confidence 356655544333333433 3333499999999999988554 58999999999655222212222211 1122367899
Q ss_pred EEEEEEecc-----C---CccccEEEEEEEEEECCccccCCCHHHHHHHHHHh
Q psy9353 337 DGEMVIDRV-----Q---GQNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVE 381 (543)
Q Consensus 337 DGElV~d~~-----~---~~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~ 381 (543)
=|||+--.. + ......|++|||. +...-.-+|..+|.+++++.
T Consensus 136 cGE~iGpenpY~~hs~~y~~l~~~FfvFDI~--d~~t~~~L~~~er~~l~e~y 186 (374)
T TIGR01209 136 CGEMAGPENPYTPEYYPEVKEDLGFFLFDIR--EGKTNRSLPVEERLELAEKY 186 (374)
T ss_pred EEEEcCCCCCCcccCccccCCCceEEEEEEE--ECCCCccCCHHHHHHHHHHC
Confidence 999994211 0 0123479999996 44456678999999999874
No 78
>KOG3132|consensus
Probab=97.67 E-value=0.00081 Score=65.26 Aligned_cols=149 Identities=17% Similarity=0.214 Sum_probs=103.5
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC-----CcCCCCeEEEEEEEEeccCCccccEEEE
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP-----NKRLTNTLLDGEMVIDRVQGQNIPRYLV 355 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~-----~~~~~~tlLDGElV~d~~~~~~~~~yli 355 (543)
.+|+|---.-|-|+++... +|.+.-..|+|... .+||+.... ...-..||||...-. ..-+|+|
T Consensus 116 qdW~vv~~PvGKR~lvVaS-rG~Tvay~k~G~~v----~rF~S~LPGGnrr~~~a~~ytILDCIy~e------snQTYYV 184 (325)
T KOG3132|consen 116 QDWYVVARPVGKRCLVVAS-RGTTVAYVKNGSTV----HRFPSALPGGNRRKGPANSYTILDCIYHE------SNQTYYV 184 (325)
T ss_pred cceEEEEeecCceEEEEec-CCceEEEecCCeeE----eeccccCCCCCcCCCCcccceeeeeeecc------cCceEEE
Confidence 4898888899999998774 67888888999744 367755221 112246899975531 1238999
Q ss_pred EEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhH--hhhhccccccccCCceEE
Q psy9353 356 YDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKA--GYLLSDKFTLCHEPDGLI 433 (543)
Q Consensus 356 fDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~--~~ll~~~~~~~h~~DGLI 433 (543)
.|+++++|.++-+++..-|.-.|+.-+.+.- ++.. .....+|....-+|++.++. ..++. ..++...|||+
T Consensus 185 lD~~cWrgh~~yec~~dFRffwl~SKL~E~~--~l~~---~t~~~~f~Fs~vp~~pC~q~~l~~~~~--~~~pf~~DGLL 257 (325)
T KOG3132|consen 185 LDMVCWRGHSLYECTSDFRFFWLQSKLAETG--ALDP---PTVYHKFRFSVVPFYPCDQSGLHSAYT--GSLPFVRDGLL 257 (325)
T ss_pred EEEEeecCcccccCchHHHHHHHhhhccccc--cCCC---CCcCccceecccCCCCCCHHHHHHHHc--CCCceeeeeEE
Confidence 9999999999999999999999986543210 0100 11234566666677776653 22322 12788999999
Q ss_pred EeeCCCCcccCCCc
Q psy9353 434 FQPVDEPYVMGKAV 447 (543)
Q Consensus 434 f~~~~spY~~G~~~ 447 (543)
|.....-|.||..+
T Consensus 258 FYhks~~yqpgqsp 271 (325)
T KOG3132|consen 258 FYHKSVVYQPGQSP 271 (325)
T ss_pred EeecceeeCCCCCc
Confidence 99999999999875
No 79
>KOG0789|consensus
Probab=97.51 E-value=0.00033 Score=75.12 Aligned_cols=81 Identities=23% Similarity=0.308 Sum_probs=53.1
Q ss_pred EEEEEecCCCCCCC-hHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHH-HHHh--C--C-CCHHHHHHHHHh
Q psy9353 87 YIKIQCEGHKEAPN-EKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISY-LVEE--M--N-FDVSAAIFAFSM 159 (543)
Q Consensus 87 y~~ip~~dhg~~P~-~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~y-Li~~--~--~-~s~~~Al~~~~~ 159 (543)
|....++||| +|. ...+..++.. .........+++.|||.+|.||||++++.- .+.. . + ....+.+..++.
T Consensus 267 ~~~~~WPd~~-~p~~~~~~l~~~~~-~~~~~~~~~~P~vVhcsaG~gRtgt~v~~~~~~~~~~~~~~~~~~~~~~~~iR~ 344 (415)
T KOG0789|consen 267 YHYINWPDHG-APDSVKSILPLLRQ-SVLELRPKQEPIEVHCSAGAGRAGTLVLIEHALIELQGPEGEPPIDEILREIRY 344 (415)
T ss_pred EeeCCCcccc-CCcchHHHHHHHHh-hhhhhcCCCCCeEEECCCCCCccchHHHHHHHHHHHhcCCCCccHHHHHHHHHH
Confidence 4444477884 665 3444444433 112222236899999999999999999765 2221 1 2 358999999999
Q ss_pred cCCCCCCCHH
Q psy9353 160 ARPPGIYKQD 169 (543)
Q Consensus 160 ~R~~~i~~~~ 169 (543)
.|+.++....
T Consensus 345 qR~~~vqt~~ 354 (415)
T KOG0789|consen 345 QRPGAVQSPL 354 (415)
T ss_pred Hhhhcccchh
Confidence 9999998753
No 80
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.04 E-value=0.0062 Score=53.34 Aligned_cols=95 Identities=13% Similarity=0.019 Sum_probs=65.4
Q ss_pred CchhHh-cccceEEecccccccCC-------ChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEE
Q psy9353 53 PNEKQT-RLKIGLWIDLTKTSRFY-------DKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIG 124 (543)
Q Consensus 53 p~~es~-~~~i~~VIdLt~~~~~y-------~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~ 124 (543)
.++.++ ..++..||+.....+-- ..+..+..|+.|.++|+.+ ..++.+.+..|.+.+.++ +++|+
T Consensus 19 ~D~~~iaa~GFksiI~nRPDgEe~~QP~~~~i~~aa~~aGl~y~~iPV~~--~~iT~~dV~~f~~Al~ea-----egPVl 91 (130)
T COG3453 19 ADIASIAALGFKSIICNRPDGEEPGQPGFAAIAAAAEAAGLTYTHIPVTG--GGITEADVEAFQRALDEA-----EGPVL 91 (130)
T ss_pred HHHHHHHHhccceecccCCCCCCCCCCChHHHHHHHHhcCCceEEeecCC--CCCCHHHHHHHHHHHHHh-----CCCEE
Confidence 344444 47888888876532211 1234667899999999987 368889999999988864 58999
Q ss_pred EEcCCCCChhHHHHHHHHHHhCCCCHHHHHHH
Q psy9353 125 VHCTHGFNRTGFLLISYLVEEMNFDVSAAIFA 156 (543)
Q Consensus 125 VHC~~G~~RTG~~ia~yLi~~~~~s~~~Al~~ 156 (543)
.||+.| .|+-.+=..-. ...||+.+++.+.
T Consensus 92 ayCrsG-tRs~~ly~~~~-~~~gm~~de~~a~ 121 (130)
T COG3453 92 AYCRSG-TRSLNLYGLGE-LDGGMSRDEIEAL 121 (130)
T ss_pred eeecCC-chHHHHHHHHH-HhcCCCHHHHHHH
Confidence 999999 45543322222 2348998887654
No 81
>COG1423 ATP-dependent DNA ligase, homolog of eukaryotic ligase III [DNA replication, recombination, and repair]
Probab=97.04 E-value=0.0065 Score=62.28 Aligned_cols=137 Identities=18% Similarity=0.193 Sum_probs=87.9
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCCCC--CcCCCCeEEEEEEEEecc-------CCccc
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRKDP--NKRLTNTLLDGEMVIDRV-------QGQNI 350 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~~~--~~~~~~tlLDGElV~d~~-------~~~~~ 350 (543)
....+|+||.||.-.-++.. +|++|.++|.|-+.--++-+.+..-++ -...++.+|=||||--.. -+...
T Consensus 87 ~~~v~VEEKmnGYNVRV~k~-~g~vyAiTRgG~ICPfTT~r~~~l~~~eff~d~p~lvlcgEmvG~enPYv~~~~y~~e~ 165 (382)
T COG1423 87 RGKVVVEEKMNGYNVRVVKL-GGEVYAITRGGLICPFTTERLRDLIDLEFFDDYPDLVLCGEMVGPENPYVPGPYYEKED 165 (382)
T ss_pred CCcEEEEEeccCceEEEEEE-CCEEEEEecCceecCchhHHHHhhcchhhHhhCCCcEEEEEeccCCCCCCCCCCCccCC
Confidence 56899999999987776665 489999999997764333333322222 123488999999996321 12234
Q ss_pred cEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhH----hhhhccccccc
Q psy9353 351 PRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKA----GYLLSDKFTLC 426 (543)
Q Consensus 351 ~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~----~~ll~~~~~~~ 426 (543)
+-|.+||+--.+ .-..+|..+|++++++.-+ |+. +.|.. ++.+.+ ..+.+ .+ -.
T Consensus 166 v~fFvFDire~~--tgr~Lp~eer~~l~ekYgl-~~V------------~~fg~-----~~~~e~~eei~eIve-~L-~k 223 (382)
T COG1423 166 VGFFVFDIREKN--TGRPLPVEERLELAEKYGL-PHV------------EIFGE-----FPADEAGEEIYEIVE-RL-NK 223 (382)
T ss_pred ceEEEEEEEecC--CCCCCCHHHHHHHHHHcCC-Cce------------EEeee-----echhHhHHHHHHHHH-HH-hh
Confidence 679999997654 3456789999999988543 211 12222 222222 22332 11 36
Q ss_pred cCCceEEEeeCCC
Q psy9353 427 HEPDGLIFQPVDE 439 (543)
Q Consensus 427 h~~DGLIf~~~~s 439 (543)
.+-||+|+|..+.
T Consensus 224 eGREGVV~Kdpdm 236 (382)
T COG1423 224 EGREGVVMKDPDM 236 (382)
T ss_pred cCCcceEecCccc
Confidence 7899999998764
No 82
>PF14671 DSPn: Dual specificity protein phosphatase, N-terminal half; PDB: 1OHD_A 1OHE_A 1OHC_A.
Probab=96.73 E-value=0.0032 Score=57.35 Aligned_cols=71 Identities=21% Similarity=0.179 Sum_probs=49.1
Q ss_pred ecCCCCCCChHHHHHHHHHHHHHHhhC-CCCeEEEEcCCCCCh----hHHHHHHHHHHhCCCCHHHHHHHHHhcCCC
Q psy9353 92 CEGHKEAPNEKQTRVFINLCSKFISKS-PLEKIGVHCTHGFNR----TGFLLISYLVEEMNFDVSAAIFAFSMARPP 163 (543)
Q Consensus 92 ~~dhg~~P~~e~i~~f~~~v~~fl~~~-~~~~V~VHC~~G~~R----TG~~ia~yLi~~~~~s~~~Al~~~~~~R~~ 163 (543)
..|+| |.+..++-+|+..+++.|++. ..+..+|||+..-.+ ++++|+||+|-..+||+++|++.+++.-|+
T Consensus 38 ~~DFG-PlnL~~lyrfc~~l~~~L~~~~~~~k~iv~yts~d~~kRaNAA~Lig~y~Vi~l~~spe~A~~~l~~~~p~ 113 (141)
T PF14671_consen 38 YADFG-PLNLAQLYRFCCKLNKKLKSPELKKKKIVHYTSSDPKKRANAAFLIGAYAVIYLGMSPEEAYKPLASIQPP 113 (141)
T ss_dssp SS-------HHHHHHHHHHHHHHHH-GGGTTSEEEEEE-S-HHHHHHHHHHHHHHHHHTS---HHHHHHHHTTTT--
T ss_pred cCcCC-CccHHHHHHHHHHHHHHHcCHHhcCCeEEEECCCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhcCCC
Confidence 46775 999999999999999999873 347788999876543 689999999999999999999999887643
No 83
>KOG4228|consensus
Probab=96.57 E-value=0.0036 Score=72.55 Aligned_cols=84 Identities=17% Similarity=0.237 Sum_probs=58.6
Q ss_pred CcEEEEEE-ecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHH----HHHhC-CCCHHHHHHHH
Q psy9353 84 DIAYIKIQ-CEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISY----LVEEM-NFDVSAAIFAF 157 (543)
Q Consensus 84 gi~y~~ip-~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~y----Li~~~-~~s~~~Al~~~ 157 (543)
-|+++++- ++|||.+-....+.+|++-+..|-. -..++|+|||.||.||||++|+.- ++++. ..+.-.-+..+
T Consensus 694 ~v~qfhFt~Wpd~gvPe~~t~lL~f~rrvk~~~p-~~aGPiVVHCSAGvGRTG~fi~iDaml~~~~~e~~vdiy~~v~~l 772 (1087)
T KOG4228|consen 694 EVRQFHFTAWPDHGVPETPTGLLKFRRRVKTFNP-PDAGPIVVHCSAGVGRTGCFIVIDAMLDRLECEGKVDIYGHVKTL 772 (1087)
T ss_pred eeeeeeeccCCCCCCcccchHHHHHHHHhccCCC-cCCCCEEEECCCCCCCcceEEEeHHHHHHHHhhCccceechhHHH
Confidence 34555444 8899744445667777777765531 124899999999999999988755 22333 35778888899
Q ss_pred HhcCCCCCCCH
Q psy9353 158 SMARPPGIYKQ 168 (543)
Q Consensus 158 ~~~R~~~i~~~ 168 (543)
+..|..-+...
T Consensus 773 R~QR~~mVQt~ 783 (1087)
T KOG4228|consen 773 RRQRNNMVQTE 783 (1087)
T ss_pred HhccccccccH
Confidence 99999877654
No 84
>COG5350 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=96.51 E-value=0.0086 Score=54.63 Aligned_cols=106 Identities=14% Similarity=0.230 Sum_probs=69.6
Q ss_pred cccceEEeccccc-ccCCChhhhhcCCcEEEEEEe-----cCCC-CCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 59 RLKIGLWIDLTKT-SRFYDKSEVEENDIAYIKIQC-----EGHK-EAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 59 ~~~i~~VIdLt~~-~~~y~~~~~~~~gi~y~~ip~-----~dhg-~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
..+...+++|..- +++-.+..+.. =+++.+.+ +|-| ..|.++.+...++++++|=+ ...++|||.+|+
T Consensus 30 rh~~t~mlsl~a~~t~~~~pa~~~~--erhL~l~fnDI~~~~~g~~ap~e~Hv~~i~DF~~~wp~---~apllIHC~aGI 104 (172)
T COG5350 30 RHGPTHMLSLLAKGTYFHRPAVIAA--ERHLTLHFNDIAEPDDGWIAPGEAHVRAIIDFADEWPR---FAPLLIHCYAGI 104 (172)
T ss_pred hcCCceEEEeecccccccCccccch--hhceeEeeccccCCCccccCCCHHHHHHHHHHHhcCcc---ccceeeeecccc
Confidence 4678888888873 33333332211 12344333 3323 56777777777777776633 478999999999
Q ss_pred ChhHH--HHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHH
Q psy9353 132 NRTGF--LLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDY 170 (543)
Q Consensus 132 ~RTG~--~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~y 170 (543)
|||.. ++++.-+. ..+.-.++-+.++..+|..-+|+.-
T Consensus 105 SRStA~A~i~a~ala-~~~de~ela~~Lra~sp~atPN~Rl 144 (172)
T COG5350 105 SRSTAAALIAALALA-PDMDETELAERLRALSPYATPNPRL 144 (172)
T ss_pred ccchHHHHHHHHhhc-cccChHHHHHHHHhcCcccCCChhH
Confidence 99864 34444444 4888889999999999987777653
No 85
>KOG0793|consensus
Probab=96.33 E-value=0.0077 Score=66.42 Aligned_cols=82 Identities=20% Similarity=0.258 Sum_probs=58.4
Q ss_pred EEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHh---C---CCCHHHHHHHHHhcCCC
Q psy9353 90 IQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEE---M---NFDVSAAIFAFSMARPP 163 (543)
Q Consensus 90 ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~---~---~~s~~~Al~~~~~~R~~ 163 (543)
+.+++.|.+-+...+..|-+-|++--.- ....|+|||..|-||||+.|+.-|+-. + .+++.+-++.++..|++
T Consensus 898 LSWp~egvPasarslLdFRRKVNK~YRG-RScpIiVH~sdGaGRTG~YiliDmvl~Rm~kGakeIDIaATlEHlRDQR~G 976 (1004)
T KOG0793|consen 898 LSWPDEGVPASARSLLDFRRKVNKCYRG-RSCPIIVHCSDGAGRTGTYILIDMVLNRMAKGAKEIDIAATLEHLRDQRPG 976 (1004)
T ss_pred ecccccCCccchHHHHHHHHHhhhhccC-CCCceEEEccCCCCccceeeeHHHHHHHHhccchhhhHHHHHHHHhhcCCc
Confidence 3455555455556677777666654433 368999999999999999887775532 1 35788889999999999
Q ss_pred CCCCHHHHH
Q psy9353 164 GIYKQDYLN 172 (543)
Q Consensus 164 ~i~~~~yi~ 172 (543)
.+...+..+
T Consensus 977 mVaTkdQFe 985 (1004)
T KOG0793|consen 977 MVATKDQFE 985 (1004)
T ss_pred ceeehhhhH
Confidence 887655443
No 86
>KOG4228|consensus
Probab=95.47 E-value=0.027 Score=65.65 Aligned_cols=80 Identities=23% Similarity=0.306 Sum_probs=56.9
Q ss_pred CCCChHHHHHHH-HHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHH----HhCC-CCHHHHHHHHHhcCCCCCCCHHH
Q psy9353 97 EAPNEKQTRVFI-NLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLV----EEMN-FDVSAAIFAFSMARPPGIYKQDY 170 (543)
Q Consensus 97 ~~P~~e~i~~f~-~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi----~~~~-~s~~~Al~~~~~~R~~~i~~~~y 170 (543)
.+|.......++ .....+.+..+.+++.|||..|.||||+++|+-++ +..+ +++=+|++.++..||..+...+.
T Consensus 994 ~~p~~~~~~~~i~~~~~~~q~~~~~~P~~Vhc~nG~~rsg~f~ai~~l~e~~~~e~~vDVfq~vk~Lr~~rp~mv~t~~Q 1073 (1087)
T KOG4228|consen 994 KPPQSKGPISKIPSVASKWQQLGADGPIIVHCLNGVGRTGTFCAISILLERMRKEGVVDVFQTVKTLRFQRPGMVDTSDQ 1073 (1087)
T ss_pred cCCCCcchhhhHHHHHHHHHhhcCCCCEEEEEcCCCcceeehHHHHHHHHHHhhcCceeeehhhhhhhhcCccccCcHHH
Confidence 455544444444 44455544455899999999999999999887644 3334 48999999999999999987665
Q ss_pred HHHHHH
Q psy9353 171 LNELFR 176 (543)
Q Consensus 171 i~~L~~ 176 (543)
.+-+|+
T Consensus 1074 Y~fcYd 1079 (1087)
T KOG4228|consen 1074 YQFCYD 1079 (1087)
T ss_pred HHHHHH
Confidence 554443
No 87
>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=95.21 E-value=0.14 Score=48.71 Aligned_cols=153 Identities=20% Similarity=0.275 Sum_probs=76.5
Q ss_pred CcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCCC--------------------CCC--cCCCCeEEEEE
Q psy9353 282 KYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHRK--------------------DPN--KRLTNTLLDGE 339 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~~--------------------~~~--~~~~~tlLDGE 339 (543)
+|+|+||.||+-+-+++..++.+.+-.|+..+- ++..|.... ... ....+.+|=||
T Consensus 2 e~vvtEKldGtn~~i~~~~~~~~~~~~R~~~l~--~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~GE 79 (186)
T PF09414_consen 2 EVVVTEKLDGTNFSIYFDNDGRVRFQSRSHILD--PNEDFFGYQSGDNRYWAQARWLFELLKLAELASELLPENIIIYGE 79 (186)
T ss_dssp EEEEEEE-SSEEEEEEEEECTCEEEEETTEE----TT---TTCHHHHHHCHHHHHHHHHHHHHHCCEC----SEEEEEEE
T ss_pred eEEEEEEeCCccEEEEEeCCCceeEeccccccC--ccccccccccchHHHHHHHHHHHhhhhhhhhcccccceEEEEEEE
Confidence 689999999999998887665688888887321 111221110 000 02245566799
Q ss_pred EEE--eccC-Ccc----ccEEEEEEEEEECCc-cccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccc
Q psy9353 340 MVI--DRVQ-GQN----IPRYLVYDIIRFDNN-DVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWS 411 (543)
Q Consensus 340 lV~--d~~~-~~~----~~~ylifDil~~~G~-~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~ 411 (543)
++- .... ... ...|++|||...+.. ...-+++.+...++++.=+. . -|. +..-.+.+
T Consensus 80 ~~G~~~~Iq~~~~~~~~~~~F~~Fdi~~~~~~~~~~~l~~~~~~~~~~~~gl~-~-------------VPv-l~~g~~~~ 144 (186)
T PF09414_consen 80 LVGAKPSIQKNRYQLDPPKDFYVFDIYDIDEQGEIRYLSWDEVREFAEELGLK-T-------------VPV-LYRGTFTE 144 (186)
T ss_dssp EECEECTTCSS----ECCCEEEEEEEEEEETCCGEEE-HHHHHHHHHCCCT-E-E-------------S-E-CEEECHHH
T ss_pred eeeecccccccccccCCCceEEEEEEEEcCCCCeeEECCHHHHHHHHHHCCCC-E-------------eCE-EEEEccch
Confidence 996 3221 112 578999999999643 33555677777766543211 0 010 00011111
Q ss_pred hhhHhhhhcc-ccc-cccCCceEEEeeCCCCcccCCCcceEEec
Q psy9353 412 VDKAGYLLSD-KFT-LCHEPDGLIFQPVDEPYVMGKAVDTLKWK 453 (543)
Q Consensus 412 ~~~~~~ll~~-~~~-~~h~~DGLIf~~~~spY~~G~~~~~lKWK 453 (543)
......+++. .-. -.+..||||+++.+..+ +....++|.|
T Consensus 145 ~~~~~~~~~~~~~~~~~~~~EGiVik~~~~~~--~~~r~~~K~k 186 (186)
T PF09414_consen 145 LDDLDDLFESGKPSGEGNIREGIVIKPEDEFH--DGSRVIFKAK 186 (186)
T ss_dssp HCTS-CCGBBTTS-STT-B--EEEEEETTTT---TTEBSEEEEE
T ss_pred hhhhhHHHhhcccCCCCCccCEEEEEEeEecC--CCceEEEEEC
Confidence 1111111110 001 35778999999997766 3344578876
No 88
>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=95.09 E-value=0.085 Score=54.79 Aligned_cols=153 Identities=16% Similarity=0.209 Sum_probs=80.8
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCeeE--ec-Cc----cCCCCCCCCcCCCCeEEEEEEEEecc-----C--
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMYK--IS-GL----TFPHRKDPNKRLTNTLLDGEMVIDRV-----Q-- 346 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~~--v~-~~----~fP~~~~~~~~~~~tlLDGElV~d~~-----~-- 346 (543)
.|+|++|.||.-+-|... +|. +..++|.+-..- |+ ++ ..|.. +........+=||+++.+. +
T Consensus 108 ~~~~e~KiDGlsi~L~Y~-~G~L~~a~TRGdG~~GeDvT~n~~~i~~iP~~--i~~~p~~~eVRGEv~m~~~~F~~ln~~ 184 (315)
T PF01653_consen 108 EFVVEPKIDGLSISLIYE-NGKLVRAATRGDGEVGEDVTHNVRTIKSIPLR--IPEKPGRLEVRGEVYMSKSDFEKLNEE 184 (315)
T ss_dssp EEEEEEEESSEEEEEEEE-TTEEEEEEEETTSSEEEB-HHHHCTSTTS-SB---SSSSSEEEEEEEEE--HHHHHHHHHH
T ss_pred ceeEeeccceeEEEEEEe-CCEEEEEEEcCCCccchhHHHHHHHHhcCchh--hccCCcceEEEEEEEEehhhHHHHHHH
Confidence 699999999999988775 455 578899765331 11 11 12211 1111245677899998521 0
Q ss_pred -----------------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccC
Q psy9353 347 -----------------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKL 398 (543)
Q Consensus 347 -----------------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~ 398 (543)
| ...+.|++|++...+| +..-....++++.|+++-+...
T Consensus 185 ~~~~~~~~faNpRN~aAGsLr~~d~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v~------------ 251 (315)
T PF01653_consen 185 REEEGEKPFANPRNAAAGSLRQKDPSITAERKLSFFAYGIGEPEG-DLGFNTQSERLQFLKEWGFPVN------------ 251 (315)
T ss_dssp HHHTTS---SSHHHHHHHHHTSSSHHHHHTS--EEEEEEEEEETT-STT-SBHHHHHHHHHHTT--B-------------
T ss_pred HHHhccchhhhhhHHHHHhhhhccchhhhcCeeEEEEEEeccccc-ccChHHHHHHHHHHHHcCCCCC------------
Confidence 0 1357999999999988 3333456788888876433100
Q ss_pred CCCeEEEeccccchhhHhhhhc----cccccccCCceEEEeeCCCCccc--C---CCcce-EEecCC
Q psy9353 399 AEPFSVRVKDFWSVDKAGYLLS----DKFTLCHEPDGLIFQPVDEPYVM--G---KAVDT-LKWKPH 455 (543)
Q Consensus 399 ~~pf~i~~k~~~~~~~~~~ll~----~~~~~~h~~DGLIf~~~~spY~~--G---~~~~~-lKWKp~ 455 (543)
.... ... ....+..+.+ ..-.+.++.||||++-.+..+.- | +.+.| +=||+|
T Consensus 252 -~~~~-~~~---~~~~v~~~~~~~~~~R~~l~y~iDGiVikvn~~~~~~~LG~t~~~PrwAiAyKfp 313 (315)
T PF01653_consen 252 -PYIR-FCK---SIEEVEEYIEEWEERREELPYPIDGIVIKVNDLALQERLGYTSKHPRWAIAYKFP 313 (315)
T ss_dssp -TTEE-EES---SHHHHHHHHHHHHHHGCCSSS-EEEEEEEESBHHHHHHH-BESSSBSSEEEEE--
T ss_pred -cceE-ecC---CHHHHHHHHHHHHhhhhccccccCcEEEEecCHHHHHhcCCcCCCCCeEEEECcC
Confidence 0000 111 1222222222 11127899999999998765543 3 23344 555544
No 89
>smart00532 LIGANc Ligase N family.
Probab=94.43 E-value=1 Score=49.02 Aligned_cols=173 Identities=16% Similarity=0.164 Sum_probs=92.1
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCc-CCCCeEEEEEEEEecc-------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNK-RLTNTLLDGEMVIDRV------- 345 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~-~~~~tlLDGElV~d~~------- 345 (543)
.|++++|.||.-+-|... +|. +..++|.+-.. .|+ ++ ..|.. +.. ......+=||+++.+.
T Consensus 104 ~~~~epKiDGlsisL~Ye-~G~l~~a~TRGDG~~GeDVT~nv~~i~~iP~~--i~~~~p~~leiRGEv~~~~~~F~~ln~ 180 (441)
T smart00532 104 AYVVEPKIDGLSVSLLYE-NGKLVQAATRGDGTVGEDVTQNVKTIRSIPLR--LSGDVPERLEVRGEVFMPKEDFLALNE 180 (441)
T ss_pred eEEEEEecccEEEEEEEE-CCEEEEEEecCCCCcceehhhhhhhhcCcChh--hcccCCCeEEEEceEEEEHHHHHHHHH
Confidence 699999999999987775 355 67899955432 111 11 11211 111 1123678899998531
Q ss_pred -----------C------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhcccc
Q psy9353 346 -----------Q------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINK 397 (543)
Q Consensus 346 -----------~------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~ 397 (543)
+ | ...+.|++|++...++... .....+++..|+++-+..
T Consensus 181 ~~~~~g~~~faNpRN~aAG~lr~ld~~~~~~r~L~~~~y~~~~~~~~~~-~~t~~e~l~~L~~~GF~v------------ 247 (441)
T smart00532 181 ELEEEGEKPFANPRNAAAGSLRQLDPRITAKRKLRAFFYGLGTGEELFL-PKTQSEALKWLKELGFPV------------ 247 (441)
T ss_pred HHHhcCCCcccChHHHHHHHHHhcCchhhhhccceEEEEEcccCCCCCC-ccCHHHHHHHHHHCCCCC------------
Confidence 0 1 1257899999853332110 135678888887643310
Q ss_pred CCCCeEEEeccccchhhHhhhhc----cccccccCCceEEEeeCCCCccc--CC---Ccce-EEecCCcceeEEEEEEEE
Q psy9353 398 LAEPFSVRVKDFWSVDKAGYLLS----DKFTLCHEPDGLIFQPVDEPYVM--GK---AVDT-LKWKPHTMNSIDFLMKIE 467 (543)
Q Consensus 398 ~~~pf~i~~k~~~~~~~~~~ll~----~~~~~~h~~DGLIf~~~~spY~~--G~---~~~~-lKWKp~~~ntvDF~l~~~ 467 (543)
.++.-..+. ...+..+.+ ..-.+.+..||||++-.+..+.- |. .+.| +=||++...-+--+..+.
T Consensus 248 --~~~~~~~~~---~~ei~~~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~lG~ts~~PrwaiA~Kf~~~~~~T~l~~I~ 322 (441)
T smart00532 248 --SPHTRLCKN---ADEVIEYYEEWEEKRAELPYEIDGVVVKVDDLALQRELGFTSKAPRWAIAYKFPAEEAETKLLDII 322 (441)
T ss_pred --CCCeEeeCC---HHHHHHHHHHHHHhcccCCCCcCcEEEEecCHHHHHHhCccCCCCCeeEEECCCCceeEEEEEEEE
Confidence 111111122 222222222 11127899999999998876654 42 2345 666666543333333333
Q ss_pred e-ecCCCcc
Q psy9353 468 T-RSGLGIL 475 (543)
Q Consensus 468 ~-~~~~g~~ 475 (543)
. .++.|.+
T Consensus 323 ~qVGRTG~i 331 (441)
T smart00532 323 VQVGRTGKI 331 (441)
T ss_pred EecCCCcee
Confidence 2 2455543
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=93.86 E-value=0.55 Score=48.60 Aligned_cols=152 Identities=16% Similarity=0.215 Sum_probs=83.9
Q ss_pred CCcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCcCCCCeEEEEEEEEecc-------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNKRLTNTLLDGEMVIDRV------- 345 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~~~~~tlLDGElV~d~~------- 345 (543)
..|+|++|.||.-+-|... +|. +..++|.+-.. .|+ ++ ..|.. +........+=||+++.+.
T Consensus 101 ~~~~vepKiDGlsisL~Y~-~G~L~~a~TRGdG~~GeDVT~nv~~I~~IP~~--i~~~~~~levRGEv~m~~~~F~~~n~ 177 (307)
T cd00114 101 PAYVVEPKIDGLSISLRYE-NGVLVQAATRGDGTTGEDVTENVRTIRSIPLT--LAGAPETLEVRGEVFMPKADFEALNK 177 (307)
T ss_pred CcEEEEEeccceEEEEEEE-CCEEEEEEecCCCcchhhHHhhHhhhcccChh--hcCCCCeEEEEEEEEEEHHHHHHHHH
Confidence 3799999999999987775 345 57899965422 011 11 11211 1111123678899998521
Q ss_pred -----------C------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhcccc
Q psy9353 346 -----------Q------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINK 397 (543)
Q Consensus 346 -----------~------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~ 397 (543)
+ | ...+.|++|++...++. ......+++..|+++-+..
T Consensus 178 ~~~~~~~~~faNpRNaaAGsLr~ld~~~~~~r~L~f~~y~~~~~~~~--~~~t~~e~l~~L~~~GF~v------------ 243 (307)
T cd00114 178 EREERGEKPFANPRNAAAGSLRQLDPKITAKRPLRFFIYGLGEAEGL--GPKTQSEALAFLKEWGFPV------------ 243 (307)
T ss_pred HHHHcCCCCccChHHHHHHHHHhcCcchhhcCcceEEEEecccccCC--CCCCHHHHHHHHHHCCCCC------------
Confidence 0 1 13568999998543321 1246688888887644311
Q ss_pred CCCCeEEEeccccchhhHhhhhcccc-----ccccCCceEEEeeCCCCcc--cC---CCcce-EEecCC
Q psy9353 398 LAEPFSVRVKDFWSVDKAGYLLSDKF-----TLCHEPDGLIFQPVDEPYV--MG---KAVDT-LKWKPH 455 (543)
Q Consensus 398 ~~~pf~i~~k~~~~~~~~~~ll~~~~-----~~~h~~DGLIf~~~~spY~--~G---~~~~~-lKWKp~ 455 (543)
.+.....+. +..+....+ .+ .+.+..||||++-.+.++. .| +.+.| +=||+|
T Consensus 244 --~~~~~~~~~---~~ev~~~~~-~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~tsk~PrWaiA~Kf~ 306 (307)
T cd00114 244 --SPETRLCKN---IEEVLAFYD-EIEAKRDSLPYEIDGVVVKVDDLALQRELGFTSKAPRWAIAYKFP 306 (307)
T ss_pred --CCCeEEeCC---HHHHHHHHH-HHHHhhhcCCCCCCcEEEEEeCHHHHHHhCccCCCCCceEEeCCC
Confidence 111111111 223333332 12 1789999999998876544 22 22444 666654
No 91
>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=93.65 E-value=4.2 Score=43.89 Aligned_cols=203 Identities=17% Similarity=0.273 Sum_probs=106.2
Q ss_pred CCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccC-CCCCCCCcCCCCeEEEEEEEEeccCCccccEEEEEEEE
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTF-PHRKDPNKRLTNTLLDGEMVIDRVQGQNIPRYLVYDII 359 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~f-P~~~~~~~~~~~tlLDGElV~d~~~~~~~~~ylifDil 359 (543)
.-++..-|.||+|.=.++.+ +.+++.--++..|.. .+ |.+-..+ .-.-|=-|+|-+ -+|+|-|+|
T Consensus 234 dv~~WAlKLDGvRGkG~~~~-~~~~i~~DDMq~fsg---~l~~~~f~~N---nvv~fQcE~i~~-------~~~YITDlL 299 (450)
T PF05098_consen 234 DVKKWALKLDGVRGKGYFTN-GFIIIQMDDMQMFSG---KLDPSPFSLN---NVVAFQCELIDD-------ETFYITDLL 299 (450)
T ss_pred ceeEEEEeecccceeeEEec-cEEEEEEchhhhhhc---ccccchhhcc---cEEEEEEEEecC-------ceEEEeeee
Confidence 34788889999999988875 477776666655521 23 2111111 124556677743 268888888
Q ss_pred EECC-----cccc--CC-CH----HHHHHHHHHhhhhhhHHHhhhhcc-ccCCCCeEEEeccccchhhHhhhhccccccc
Q psy9353 360 RFDN-----NDVT--RQ-KF----TTRIQIIKVEIIEPRHRAMENSRI-NKLAEPFSVRVKDFWSVDKAGYLLSDKFTLC 426 (543)
Q Consensus 360 ~~~G-----~~v~--~~-p~----~eR~~~L~~~i~~p~~~~~~~~~~-~~~~~pf~i~~k~~~~~~~~~~ll~~~~~~~ 426 (543)
..-. +.-- ++ |+ ..=+.+|... +... .+-.+ +.....+.|+.-.|++-... .. .+ -.
T Consensus 300 ~VfkY~YnNrtQYe~s~~~Y~id~~~Ai~~ln~l----~~~~-~~~~l~~~~~~~~~vkFQ~F~~~p~~---~~-~y-~t 369 (450)
T PF05098_consen 300 HVFKYKYNNRTQYECSLDPYNIDPLDAIECLNYL----NNAN-KKITLKTNTNKTISVKFQQFFDPPLN---VN-GY-ST 369 (450)
T ss_pred eeEEEeccCcceeEeccCccccCHHHHHHHHHHh----hccc-cceEEeccCCceEEEEEEeecCCccc---cC-Cc-cc
Confidence 7632 1111 11 22 2233334321 0000 00000 11244567777777653211 00 01 24
Q ss_pred cCCceEEEeeCCCCcccCCCcceEEecCCcceeEEEEEEEEeecCCCccccceeeEeeccCCcccccceeEEcccccccC
Q psy9353 427 HEPDGLIFQPVDEPYVMGKAVDTLKWKPHTMNSIDFLMKIETRSGLGILPTKVGKLYAGSNRSQQQFAEMKITKATKDLD 506 (543)
Q Consensus 427 h~~DGLIf~~~~spY~~G~~~~~lKWKp~~~ntvDF~l~~~~~~~~g~~~~~~~~L~v~~~~~~~~f~~~~~t~e~~~~~ 506 (543)
-++||.|.--.+.. ..|.|. .-|+...-. .+.+ .|.... -|+.......+..-..
T Consensus 370 ~ptDGfVvld~~~~--------yvKyK~--~kT~EleYd----~~~~--------~F~~~~---G~~~~~~i~~~~~l~~ 424 (450)
T PF05098_consen 370 VPTDGFVVLDSNGR--------YVKYKY--VKTVELEYD----AGNN--------TFKSLF---GPLKNYEIVSDVQLEH 424 (450)
T ss_pred CCcCCEEEECCCCC--------EEEEee--cceEEEEEE----cCCC--------eEEcCC---CccccceeccccCccC
Confidence 56999997665443 445553 346665321 1211 222211 1332222222212348
Q ss_pred CcEEEEEEeCCeeEEEEeeCCCCCCC
Q psy9353 507 GKIVECKWENNQWVFMRERTDKSFPN 532 (543)
Q Consensus 507 g~IvEc~~~~g~W~f~R~R~DK~~pN 532 (543)
|+|-||...+..-..++.|+|.-.||
T Consensus 425 ~~IYE~vi~d~~i~ViK~RpDRlvpn 450 (450)
T PF05098_consen 425 GSIYECVITDNVINVIKERPDRLVPN 450 (450)
T ss_pred CCEEEEEEECCEEEEEeeCCccCCCC
Confidence 99999999988889999999999998
No 92
>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=93.33 E-value=1.6 Score=49.98 Aligned_cols=171 Identities=15% Similarity=0.181 Sum_probs=92.0
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCc--CCCCeEEEEEEEEecc------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNK--RLTNTLLDGEMVIDRV------ 345 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~--~~~~tlLDGElV~d~~------ 345 (543)
.|++++|.||.-+-|... +|. +..++|.+-.. .|+ ++ ..|.. +.. ......+=||+++.+.
T Consensus 97 ~~~~epKiDGlaisL~Ye-~G~L~~a~TRGDG~~GeDvT~nv~~I~~iP~~--i~~~~~p~~levRGEv~m~~~~F~~~N 173 (652)
T TIGR00575 97 EYVVEPKIDGLSVSLTYE-NGVLVRALTRGDGTVGEDVTANVRTIRSIPLR--LAGDNPPERLEVRGEVFMPKEDFEALN 173 (652)
T ss_pred eEEEEEeccceEEEEEEE-CCEEEEEEecCCCccchhHhhhhhhhcccchh--hcCCCCCceEEEEEEEEEEHHHHHHHH
Confidence 699999999999987775 345 57889965432 011 11 11211 110 1123578899998521
Q ss_pred ------------C------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccc
Q psy9353 346 ------------Q------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRIN 396 (543)
Q Consensus 346 ------------~------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~ 396 (543)
+ | ...+.|++|++. ++.+.......++++.|+++-+.
T Consensus 174 ~~~~~~g~~~faNpRN~aAGslr~ld~~~~~~r~L~~~~y~~~--~~~~~~~~t~~e~l~~L~~~GF~------------ 239 (652)
T TIGR00575 174 EERREQGEKPFANPRNAAAGSLRQLDPRITAKRKLRFFAYGLG--EGLELPDATQYEALAWLKKWGFP------------ 239 (652)
T ss_pred HHHHHcCCCCCCCcHHHHHHHHHcCCchhhhcCccEEEEEecc--ccCCCCCCCHHHHHHHHHHCCCC------------
Confidence 0 1 135689999874 22221124567788888764331
Q ss_pred cCCCCeEEEeccccchhhHhhhhcccc-----ccccCCceEEEeeCCCCcc-----cCCCcce-EEecCCcceeEEEEEE
Q psy9353 397 KLAEPFSVRVKDFWSVDKAGYLLSDKF-----TLCHEPDGLIFQPVDEPYV-----MGKAVDT-LKWKPHTMNSIDFLMK 465 (543)
Q Consensus 397 ~~~~pf~i~~k~~~~~~~~~~ll~~~~-----~~~h~~DGLIf~~~~spY~-----~G~~~~~-lKWKp~~~ntvDF~l~ 465 (543)
..++....+. +..+.+..+ .+ .+.+..||+|++-.+-++. .++.+.| +=||+|.....--+..
T Consensus 240 --v~~~~~~~~~---~~ei~~~~~-~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~t~~~PrwaiA~Kf~~~~~~T~l~~ 313 (652)
T TIGR00575 240 --VSPHIRLCDS---IEEVLEYYR-EIEEKRDSLPYEIDGVVVKVDDLALQDELGFTSKAPRWAIAYKFPAEEAQTKLLD 313 (652)
T ss_pred --CCCCeEeeCC---HHHHHHHHH-HHHHhhhcCCCCCCcEEEEecCHHHHHHhCccCCCCCceEEEcCCCceeeEEEEE
Confidence 0111111122 222222222 12 2789999999998876553 2234455 6677666554444444
Q ss_pred EEe-ecCCCcc
Q psy9353 466 IET-RSGLGIL 475 (543)
Q Consensus 466 ~~~-~~~~g~~ 475 (543)
+.. .++.|.+
T Consensus 314 I~~qVGRTG~i 324 (652)
T TIGR00575 314 VVVQVGRTGAI 324 (652)
T ss_pred EEEecCCCcee
Confidence 432 2555543
No 93
>PRK07956 ligA NAD-dependent DNA ligase LigA; Validated
Probab=92.86 E-value=2.2 Score=48.94 Aligned_cols=173 Identities=15% Similarity=0.246 Sum_probs=90.2
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCc-CCCCeEEEEEEEEecc-------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNK-RLTNTLLDGEMVIDRV------- 345 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~-~~~~tlLDGElV~d~~------- 345 (543)
.|++++|.||.-+-|... +|. +..++|.+-.. .|+ ++ ..|.. +.. ......+=||+++.+.
T Consensus 109 ~~~~epKiDGlsisL~Y~-~G~L~~a~TRGDG~~GeDvT~n~~~I~~IP~~--l~~~~p~~levRGEv~m~~~~F~~lN~ 185 (665)
T PRK07956 109 TYLCELKIDGLAVSLLYE-NGVLVRAATRGDGTTGEDITANVRTIRSIPLR--LHGNEPERLEVRGEVFMPKADFEALNE 185 (665)
T ss_pred ceEEEEecccEEEEEEEE-CCEEEEEEecCCCccchhHhhhhhhhccCChh--hcccCCCeEEEEEEEEEEHHHHHHHHH
Confidence 699999999999987775 344 56789965432 011 11 12211 111 1123578999998521
Q ss_pred -----C------------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhcccc
Q psy9353 346 -----Q------------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINK 397 (543)
Q Consensus 346 -----~------------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~ 397 (543)
+ | ...+.|++|++...++ ........+++..|+++-+..
T Consensus 186 ~~~~~g~~~faNpRNaaAGslr~ld~~~~~~r~L~f~~y~~~~~~~-~~~~~t~~e~l~~L~~~GF~v------------ 252 (665)
T PRK07956 186 ERREEGEKPFANPRNAAAGSLRQLDPKITAKRPLSFFAYGVGEVEG-GELPDSQSEALEFLKAWGFPV------------ 252 (665)
T ss_pred HHHhcCCCcccChHHHHhhhhhccChHHHhcCCCEEEEEecccccC-CCCCCCHHHHHHHHHHCCCCc------------
Confidence 0 1 1356899999853321 111235677888887643310
Q ss_pred CCCCeEEEeccccchhhHhhhhcc----ccccccCCceEEEeeCCCCcc--cC---CCcce-EEecCCcceeEEEEEEEE
Q psy9353 398 LAEPFSVRVKDFWSVDKAGYLLSD----KFTLCHEPDGLIFQPVDEPYV--MG---KAVDT-LKWKPHTMNSIDFLMKIE 467 (543)
Q Consensus 398 ~~~pf~i~~k~~~~~~~~~~ll~~----~~~~~h~~DGLIf~~~~spY~--~G---~~~~~-lKWKp~~~ntvDF~l~~~ 467 (543)
.++...... +..+....+. .-.+.++.||||++=.+-.|. .| +.+.| +=||+|...-.--+..+.
T Consensus 253 --~~~~~~~~~---~~ei~~~~~~~~~~R~~l~y~iDGiViKvn~~~~~~~lG~t~~~PrWaiA~Kf~~~~~~T~l~~I~ 327 (665)
T PRK07956 253 --NPYRKLCTS---IEEVLAFYEEIEEERHDLPYDIDGVVIKVDDLALQEELGFTAKAPRWAIAYKFPAEEATTKLLDIE 327 (665)
T ss_pred --CCceEeeCC---HHHHHHHHHHHHHhhccCCCCCCcEEEEecCHHHHHhcCccCCCCCceeEecCCCceeEEEEEEEE
Confidence 011111111 2222222221 112789999999998874332 12 23445 666666554433333333
Q ss_pred e-ecCCCcc
Q psy9353 468 T-RSGLGIL 475 (543)
Q Consensus 468 ~-~~~~g~~ 475 (543)
. .++.|.+
T Consensus 328 ~qVGRTG~i 336 (665)
T PRK07956 328 VQVGRTGAV 336 (665)
T ss_pred EecCCCcee
Confidence 2 2555543
No 94
>PRK14351 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=92.74 E-value=2.2 Score=48.96 Aligned_cols=171 Identities=15% Similarity=0.128 Sum_probs=90.4
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Ccc----CCCCCCCCcCC-CCeEEEEEEEEecc-------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GLT----FPHRKDPNKRL-TNTLLDGEMVIDRV------- 345 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~~----fP~~~~~~~~~-~~tlLDGElV~d~~------- 345 (543)
.|++++|.||+=+-|... +|. +..++|.+-.. .|+ ++. .|.. +.... ....+=||+++.+.
T Consensus 133 ~~~~epKiDGlaisL~Ye-~G~L~~a~TRGDG~~GeDVT~nv~~I~~IP~~--l~~~~p~~levRGEv~m~~~~F~~lN~ 209 (689)
T PRK14351 133 EYVCEPKFDGLSVEVVYE-DGEYQRAATRGDGREGDDVTANVRTIRSVPQK--LRGDYPDFLAVRGEVYMPKDAFQAYNR 209 (689)
T ss_pred eEEEEEecccEEEEEEEE-CCEEEEEEecCCCCcceeHhhhhhhhcccchh--hcccCCCeEEEEEEEEEEHHHHHHHHH
Confidence 699999999999988775 344 57899965432 111 111 1211 11111 22457799998521
Q ss_pred -----C------------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhcccc
Q psy9353 346 -----Q------------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINK 397 (543)
Q Consensus 346 -----~------------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~ 397 (543)
+ | ...+.|++|++...++. .....++++.|.++-+.-
T Consensus 210 ~~~~~g~~~faNpRN~aAGslR~ldp~~~~~r~L~f~~y~~~~~~~~---~~t~~e~l~~L~~~GF~v------------ 274 (689)
T PRK14351 210 ERIERGEEPFANPRNAAAGTLRQLDPSVVAERPLDIFFFDVLDASEL---FDSHWEELERFPEWGLRV------------ 274 (689)
T ss_pred HHHHcCCCCcCCHHHHHhhHhhccChHHHhcCCceEEEEecccCCCC---CCCHHHHHHHHHHCCCCc------------
Confidence 0 1 13568999998544431 235677888887643310
Q ss_pred CCCCeEEEeccccchhhHhhhhc----cccccccCCceEEEeeCCCCcc-----cCCCcce-EEecCCcceeEEEEEEEE
Q psy9353 398 LAEPFSVRVKDFWSVDKAGYLLS----DKFTLCHEPDGLIFQPVDEPYV-----MGKAVDT-LKWKPHTMNSIDFLMKIE 467 (543)
Q Consensus 398 ~~~pf~i~~k~~~~~~~~~~ll~----~~~~~~h~~DGLIf~~~~spY~-----~G~~~~~-lKWKp~~~ntvDF~l~~~ 467 (543)
.+....... +..+....+ ..-.++++.||||++-.+.++. ..+.+.| +=||+|...-.--+..+.
T Consensus 275 --~~~~~~~~~---~~~~~~~~~~~~~~R~~l~y~iDGiViKvn~~~~q~~lG~ts~~PrWaiA~Kf~~~~~~T~l~~I~ 349 (689)
T PRK14351 275 --TDRTERVDD---IDDAIAYRDRLLAARDDLNYEIDGVVIKVDDRDAREELGATARAPRWAFAYKFPARAEETTIRDIV 349 (689)
T ss_pred --CCceEeeCC---HHHHHHHHHHHHHhhhcCCCCCceEEEEeCCHHHHHHhCccCCCCCceEEEcCCCceeEEEEEEEE
Confidence 011111111 122222222 1112789999999998876553 1233445 666666554443333333
Q ss_pred e-ecCCCcc
Q psy9353 468 T-RSGLGIL 475 (543)
Q Consensus 468 ~-~~~~g~~ 475 (543)
. .++.|.+
T Consensus 350 ~qVGRTG~i 358 (689)
T PRK14351 350 VQVGRTGRL 358 (689)
T ss_pred EecCCCcee
Confidence 2 2555543
No 95
>KOG3673|consensus
Probab=92.06 E-value=0.23 Score=53.84 Aligned_cols=65 Identities=14% Similarity=0.153 Sum_probs=46.2
Q ss_pred ccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEeccccchhhHhhhhc
Q psy9353 350 IPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVKDFWSVDKAGYLLS 420 (543)
Q Consensus 350 ~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k~~~~~~~~~~ll~ 420 (543)
+-...|.|.+.++|.+|+++||.||..+.++.+. ++++ +.+..+..=.++.|+-+.+....++|.
T Consensus 657 ~~avhIiD~~vL~G~Dvr~~py~eR~~~aeKFv~-----al~k-p~Rkd~~~~a~r~Kp~yrL~em~~ff~ 721 (845)
T KOG3673|consen 657 PQAVHIIDAAVLFGDDVRNLPYEERMKAAEKFVA-----ALKK-PNRKDKKHRAERIKPTYRLAEMDEFFS 721 (845)
T ss_pred chheeeeeeeeecCchhhcccHHHHHHHHHHHHH-----HhcC-CCCccccccceecccceeHHHHHHHHH
Confidence 3467899999999999999999999999999774 2211 112221122367788888877777765
No 96
>PRK14350 ligA NAD-dependent DNA ligase LigA; Provisional
Probab=91.87 E-value=4.4 Score=46.41 Aligned_cols=174 Identities=17% Similarity=0.171 Sum_probs=88.9
Q ss_pred CCcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Ccc----CCCCCCCCcCCCCeEEEEEEEEecc-------
Q psy9353 281 KKYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GLT----FPHRKDPNKRLTNTLLDGEMVIDRV------- 345 (543)
Q Consensus 281 ~~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~~----fP~~~~~~~~~~~tlLDGElV~d~~------- 345 (543)
..|++++|.||.-+-|... +|. +..++|.+-.. .|+ +++ .|.. +.. .....+=||+++.+.
T Consensus 110 ~~~~~epKiDGlaisL~Ye-nG~L~~a~TRGDG~~GEDVT~n~~~I~~IP~~--l~~-~~~levRGEv~m~~~~F~~lN~ 185 (669)
T PRK14350 110 FGISVEPKIDGCSIVLYYK-DGILEKALTRGDGRFGNDVTENVRTIRNVPLF--IDE-KVELVLRGEIYITKENFLKINK 185 (669)
T ss_pred ceEEEEEecccEEEEEEEE-CCEEEEEEecCCCCcchhHhhhhhhhcccchh--cCC-CceEEEEEEEEeeHHHHHHHHH
Confidence 3699999999999988775 344 57889965432 011 111 1211 111 133678899998531
Q ss_pred -------C------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCC
Q psy9353 346 -------Q------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEP 401 (543)
Q Consensus 346 -------~------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~p 401 (543)
+ | ...+.|++|++...++ ......++++.|+++-+.. .|
T Consensus 186 ~~~~~faNpRNaaAGsLr~~d~~~~a~r~L~f~~y~~~~~~~---~~~t~~e~l~~L~~~GF~v--------------~~ 248 (669)
T PRK14350 186 TLEKPYTNARNLASGILRRIDSREVANFPLDIFVYDILYSSL---ELKTNHDAFDKLKKFGFKV--------------NP 248 (669)
T ss_pred hhhccCCChhHHHHHHHHccCchhhhcCceEEEEEEcccCCC---CCCCHHHHHHHHHHCCCCC--------------Cc
Confidence 1 1 1256899999742111 1135677888887643311 01
Q ss_pred eEEEeccccchhhHhhhhcc---cc-ccccCCceEEEeeCCCCcc-----cCCCcce-EEecCCcceeEEEEEEEEe-ec
Q psy9353 402 FSVRVKDFWSVDKAGYLLSD---KF-TLCHEPDGLIFQPVDEPYV-----MGKAVDT-LKWKPHTMNSIDFLMKIET-RS 470 (543)
Q Consensus 402 f~i~~k~~~~~~~~~~ll~~---~~-~~~h~~DGLIf~~~~spY~-----~G~~~~~-lKWKp~~~ntvDF~l~~~~-~~ 470 (543)
..-.....-....+...+++ .- .+.++.||||++-.+..+. .++.+.| +=||+|...-.--+..+.. .+
T Consensus 249 ~~~~~~~~~~~~e~~~~~~~~~~~R~~l~y~iDGiViKvn~~~~q~~lG~ts~~PrWaiA~Kf~~~~~~T~l~~I~~qVG 328 (669)
T PRK14350 249 FCRFFDGKNSIEEILNYVKDIEKKRNSFEYEIDGVVLKVSDFALREILGYTSHHPKWSMAYKFESLSGFSKVNDIVVQVG 328 (669)
T ss_pred ceEEEcCCCcHHHHHHHHHHHHHHHhcCCCCCCcEEEEecCHHHHHhcCCcCCCCCceEEEcCCCceeEEEEEEEEEecC
Confidence 11100000001112222210 01 1789999999998764222 2233445 6666665544433333332 25
Q ss_pred CCCcc
Q psy9353 471 GLGIL 475 (543)
Q Consensus 471 ~~g~~ 475 (543)
+.|.+
T Consensus 329 RTG~i 333 (669)
T PRK14350 329 RSGKI 333 (669)
T ss_pred Cceee
Confidence 55543
No 97
>PHA02142 putative RNA ligase
Probab=91.62 E-value=2.3 Score=44.89 Aligned_cols=100 Identities=12% Similarity=0.082 Sum_probs=57.4
Q ss_pred cCCcEEEEcCCceEEEEEEEe--------------------CCeEEEEECCCCeeEecCccCCC---CC----CCCcCCC
Q psy9353 280 EKKYMVSWKADGTRYMMYIKN--------------------ADEIYFTDRDFSMYKISGLTFPH---RK----DPNKRLT 332 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~--------------------~~~vyLidR~~~~~~v~~~~fP~---~~----~~~~~~~ 332 (543)
...|.+++|.||+=+-+|... .+....-+|++.....+...|=. .. .+...-.
T Consensus 168 ~~~f~~TeKLDGsS~tvy~~~~~~~~~~~~~~~~~~~~~~~~~~~gv~srn~~l~~~~~~~~W~~a~~~~i~~~l~~~~~ 247 (366)
T PHA02142 168 DVKFAKSLKLDGSSITMAWVTDPDLFLDLGTEDEPYAHDYDDAQFIVASRNQVLRYNADSKWWKGVENYQIVDRLKELGM 247 (366)
T ss_pred CceEEEEEEecceeEEEEEecCCcccccccccccccccccCCCceeEeeccccccccCCchHHHHHHHcCcHHHHHhhCC
Confidence 457999999999999888542 12333444555421111000000 00 0111114
Q ss_pred CeEEEEEEEEeccCC----ccccEEEEEEEEEECCccccCCCHHHHHHHHHHh
Q psy9353 333 NTLLDGEMVIDRVQG----QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVE 381 (543)
Q Consensus 333 ~tlLDGElV~d~~~~----~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~ 381 (543)
+..+=|||+--...+ -..+.|++||+..++++. -+++.++.+++++.
T Consensus 248 ~iaIqGEl~Gp~IQ~N~~~~~~~~F~vF~v~~i~~~~--yl~~~e~~~~~~~~ 298 (366)
T PHA02142 248 SVAIQGELMGPGIQKNRENFDKYRIFAFRAWFIDEQR--FATDEEFQDLCRTL 298 (366)
T ss_pred cEEEEEEEecccccCccccCCCCceEEEEEEEeccce--eCCHHHHHHHHHHc
Confidence 567899999643321 123589999998777654 56778888877753
No 98
>PRK08097 ligB NAD-dependent DNA ligase LigB; Reviewed
Probab=90.38 E-value=9.5 Score=42.76 Aligned_cols=169 Identities=16% Similarity=0.227 Sum_probs=91.4
Q ss_pred CcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCcCCCCeEEEEEEEEeccC-------
Q psy9353 282 KYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNKRLTNTLLDGEMVIDRVQ------- 346 (543)
Q Consensus 282 ~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~~~~~tlLDGElV~d~~~------- 346 (543)
.|+++||.||.=+-|... +|. +..++|.+-.. .|+ ++ ..|.. +........+-||+++.+.+
T Consensus 119 ~~~vepKiDGlsisL~Ye-~G~Lv~a~TRGDG~~GEDVT~nv~~I~~IP~~--l~~~~~~levRGEv~m~~~~F~~~~~g 195 (562)
T PRK08097 119 DLWVQPKVDGVAVTLVYR-DGKLVQAISRGNGLKGEDWTAKARLIPAIPQQ--LPGALANLVLQGELFLRREGHIQQQMG 195 (562)
T ss_pred ceEEEEecccEEEEEEEE-CCEEEEEEecCCCccchhHHhhHhhhcccchh--hcCCCCeEEEEEEEEEeHHHHHHHhcC
Confidence 599999999999988775 344 57889966433 011 11 12211 11111236789999985310
Q ss_pred ---------C----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhhhhHHHhhhhccccCCCCeEEEec
Q psy9353 347 ---------G----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIEPRHRAMENSRINKLAEPFSVRVK 407 (543)
Q Consensus 347 ---------~----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~p~~~~~~~~~~~~~~~pf~i~~k 407 (543)
| ...+.|++|++. +| .....++++.|+++-+.- .+++.....
T Consensus 196 ~aNPRN~AAGsLr~~d~~~~~r~L~~f~y~~~--~~----~~t~~e~l~~L~~~GF~v-------------~~~~~~~~~ 256 (562)
T PRK08097 196 GINARAKVAGLMMRKDPSPTLNQIGVFVWAWP--DG----PASMPERLAQLATAGFPL-------------TQRYTHPVK 256 (562)
T ss_pred cCCchHHHhHHHhhcCcHhhhccceEEEEECC--CC----CCCHHHHHHHHHHCCCCc-------------CccceEeeC
Confidence 1 124578999872 34 235677888877643310 000111111
Q ss_pred cccchhhHhhhhcc--ccccccCCceEEEeeCCCCcccC---CCcce-EEecCCcceeEEEEEEEEe-ecCCCcc
Q psy9353 408 DFWSVDKAGYLLSD--KFTLCHEPDGLIFQPVDEPYVMG---KAVDT-LKWKPHTMNSIDFLMKIET-RSGLGIL 475 (543)
Q Consensus 408 ~~~~~~~~~~ll~~--~~~~~h~~DGLIf~~~~spY~~G---~~~~~-lKWKp~~~ntvDF~l~~~~-~~~~g~~ 475 (543)
. ...+....+. .-.+.++.||||+|-.+.+|.-| +.+.| +=||+|....+--...+.. .++.|.+
T Consensus 257 ~---~~~i~~~~~~~~r~~l~y~iDGiViKvn~~~~~~~~ts~~PrWAiAyKf~~~~~~T~l~~I~~qVGRTG~i 328 (562)
T PRK08097 257 N---AEEVARWRERWYRAPLPFVTDGVVVRQAKEPPGRYWQPGQGEWAVAWKYPPVQQVAEVRAVQFAVGRTGKI 328 (562)
T ss_pred C---HHHHHHHHHHHhhccCCCCCCcEEEEecCHHHHhhccCCCCCceEEEcCCCcEEEEEEEEEEEecCCCcee
Confidence 1 2222222221 11278999999999888766654 23445 5666665544444444432 2555644
No 99
>PF14743 DNA_ligase_OB_2: DNA ligase OB-like domain; PDB: 2Q2U_D 2Q2T_A 1FVI_A 1P8L_A.
Probab=88.45 E-value=0.35 Score=38.28 Aligned_cols=53 Identities=25% Similarity=0.377 Sum_probs=31.7
Q ss_pred CCccccceeeEeeccCCcccccc-eeEEcccc---cccCCcEEEEEEe----CCe---eEEEEee
Q psy9353 472 LGILPTKVGKLYAGSNRSQQQFA-EMKITKAT---KDLDGKIVECKWE----NNQ---WVFMRER 525 (543)
Q Consensus 472 ~g~~~~~~~~L~v~~~~~~~~f~-~~~~t~e~---~~~~g~IvEc~~~----~g~---W~f~R~R 525 (543)
.|.+...+|.|.|...++ +.|. +..+|++. .++.|+||+++|. +|. .+|+|+|
T Consensus 3 ~Gk~~g~~Galv~~~~~G-~~f~iGsG~td~~R~~~~~iG~iit~ky~~~t~~g~pRfP~f~~~R 66 (66)
T PF14743_consen 3 KGKFKGMLGALVCETEDG-VEFKIGSGFTDEEREEPPYIGKIITVKYQGLTKDGSPRFPVFVRVR 66 (66)
T ss_dssp --EEEEEEEEEEEEE-TT-EEEEE-SS--HHHHHHHHHTT-EEEEEEE-TTSSSS-EEEEEEEE-
T ss_pred ccccCCCEEEEEEEeCCC-CEEEECCCCCHHHHhcCCCCCCEEEEEEEccCCCCccccCEEEEeC
Confidence 445556678888876532 3444 35667654 3589999999998 454 7888887
No 100
>TIGR02307 RNA_lig_RNL2 RNA ligase, Rnl2 family. Members of this family ligate (seal breaks in) RNA. Members so far include phage proteins that can counteract a host defense of cleavage of specific tRNA molecules, trypanosome ligases involved in RNA editing, but no prokaryotic host proteins.
Probab=87.72 E-value=4.6 Score=42.04 Aligned_cols=101 Identities=14% Similarity=0.095 Sum_probs=59.7
Q ss_pred cccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCCeeEecCccCCCC----CCC------------C---cCCCCeEEEE
Q psy9353 278 LAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFSMYKISGLTFPHR----KDP------------N---KRLTNTLLDG 338 (543)
Q Consensus 278 l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~~~~v~~~~fP~~----~~~------------~---~~~~~tlLDG 338 (543)
+....|.++||.||.-+-+++++++++..-+|++.+- ++-.|-.. ..+ . ......++=|
T Consensus 22 l~~~ewvatEKlhGaNfsi~~~~~~~i~~akR~~~l~--~~e~f~G~~~i~~~l~~~~~~l~~~l~~~~~~~~~~v~IyG 99 (325)
T TIGR02307 22 LGLTEWVAREKIHGTNFSIIIERDFKVTCAKRTGIIL--PNEDFFGYHILIKNYTASVKAIQDILETKAIIVVVSVQVFG 99 (325)
T ss_pred cCCceEEEEEEecCcceEEEEeCCceEEEeecccccC--cccccccHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEE
Confidence 4556999999999999988887533788888986532 11122110 000 0 0124467889
Q ss_pred EEEEeccCC---ccccEEEEEEEEEECCccccCCCHHHHHHHHHH
Q psy9353 339 EMVIDRVQG---QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKV 380 (543)
Q Consensus 339 ElV~d~~~~---~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~ 380 (543)
|++-..... -....|++|||......+..-+++.+-...+.+
T Consensus 100 El~G~~~q~~~~Y~~~~fyaFdI~~~~~~~~~~L~~d~~~e~~~~ 144 (325)
T TIGR02307 100 ELAGPGYQKPVVYSDKDFYAFDIKYTETSDDVTLVDDYMMESFCN 144 (325)
T ss_pred EeecCcccCccccccccEEEEEEEEeccCcceEecHHHHHHHHHH
Confidence 998432211 112589999996652223445566665555554
No 101
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=86.96 E-value=1.9 Score=36.37 Aligned_cols=41 Identities=24% Similarity=0.244 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 106 VFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 106 ~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.+...+.++....++..|+|+|..| +||.. +|.+| ...|++
T Consensus 47 ~~~~~~~~~~~~~~~~~ivvyC~~G-~rs~~-a~~~L-~~~G~~ 87 (101)
T cd01518 47 EFPFWLDENLDLLKGKKVLMYCTGG-IRCEK-ASAYL-KERGFK 87 (101)
T ss_pred HhHHHHHhhhhhcCCCEEEEECCCc-hhHHH-HHHHH-HHhCCc
Confidence 3333344433335678999999988 77764 34455 445764
No 102
>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=83.06 E-value=13 Score=39.13 Aligned_cols=98 Identities=12% Similarity=0.083 Sum_probs=51.5
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCeEEEE------ECCCCeeEec-Cc--------cCCCCCCCC--cCCCCeEEEEEEEE
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADEIYFT------DRDFSMYKIS-GL--------TFPHRKDPN--KRLTNTLLDGEMVI 342 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~vyLi------dR~~~~~~v~-~~--------~fP~~~~~~--~~~~~tlLDGElV~ 342 (543)
...|.+++|.||+=+.++...+.+-|+. +|+.....-+ +. ..+. .+. ..-.+.-+=||++-
T Consensus 158 ~~~~~~TeKldGss~tv~~~~~~~~~~~~~~Gvcsr~~~l~~~~~~~~W~~a~~~~i~~--~l~~~~~~~~vaiqGEl~G 235 (341)
T TIGR02306 158 GEKVAKTEKLHGTSITVAWVTDEERFLVLSKGVASRNLVLRENADNKYWKAVENYQIVD--RAKAAELRMSVAIFGEVMG 235 (341)
T ss_pred CceEEEEEEecceeEEEEEecCCcccccccceeecCCcccccCCCchhHHHHHhcChHH--HHhhcccCceEEEEEEEeC
Confidence 3579999999999997776433332332 2554322111 00 0010 011 11134557899996
Q ss_pred eccCC----ccccE-EEEEEEEEECCccccCCCHHHHHHHHHHh
Q psy9353 343 DRVQG----QNIPR-YLVYDIIRFDNNDVTRQKFTTRIQIIKVE 381 (543)
Q Consensus 343 d~~~~----~~~~~-ylifDil~~~G~~v~~~p~~eR~~~L~~~ 381 (543)
-...+ ..... |.+|++ ..+|. .+=++..++..++++.
T Consensus 236 ~gIQ~n~Yg~~~~~~~f~F~v-~~~~~-~ryld~~~~~~~~~~~ 277 (341)
T TIGR02306 236 PGIQKNRYGFDKYRTVFAFRA-FFDGE-QRFLTDEDFQDLCLTL 277 (341)
T ss_pred ccccCCcCCCCCCceEEEEEE-EEcCc-ceecCHHHHHHHHHhc
Confidence 43311 12234 666766 44444 2345888888877763
No 103
>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=82.68 E-value=18 Score=39.52 Aligned_cols=85 Identities=13% Similarity=0.191 Sum_probs=58.8
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhh----CCCCeEEEEcCCCCCh
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISK----SPLEKIGVHCTHGFNR 133 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~----~~~~~V~VHC~~G~~R 133 (543)
......+||++..+. +..... .....|+++|+... --....+...+..+..|+.. .++..|+|||--|...
T Consensus 315 ~~~~~~~vI~~s~~~--~~~~~~-~~~~~~L~l~i~~~--K~gs~~LR~~LP~i~~fv~~~L~~~~~~~iLV~C~sGkDl 389 (451)
T PF04179_consen 315 LESEFDCVINCSESP--TPKESW-PKSPKYLHLPIPSS--KKGSRDLRKALPKICSFVRSHLSSDPGKPILVCCDSGKDL 389 (451)
T ss_pred cCCCcCEEEEcCCCc--cccccc-CCCceEEeCcCCCC--cccHHHHHHHHHHHHHHHHHHhcccCCCcEEEEcCCcchH
Confidence 346677899988642 111112 24678999999874 33344566666666666654 4578999999999999
Q ss_pred hHHHHHHHHHHhCC
Q psy9353 134 TGFLLISYLVEEMN 147 (543)
Q Consensus 134 TG~~ia~yLi~~~~ 147 (543)
+.-++.|.|....+
T Consensus 390 SVgVaLaILc~~Fd 403 (451)
T PF04179_consen 390 SVGVALAILCKLFD 403 (451)
T ss_pred HHHHHHHHHHHhcC
Confidence 99998888887653
No 104
>PRK01415 hypothetical protein; Validated
Probab=79.95 E-value=4.3 Score=40.68 Aligned_cols=102 Identities=20% Similarity=0.112 Sum_probs=51.7
Q ss_pred cccccccCCeeeEEeecCCCCCCCchhH----hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHH
Q psy9353 30 NKSEVEENDIAYIKIQCEGHKEAPNEKQ----TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTR 105 (543)
Q Consensus 30 ~~~~i~~~G~~~~Ki~c~gr~~~p~~es----~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~ 105 (543)
.++||..+|++-.. +....+..-+.++ +...=..|||+.+..++ +. -.+++- ..|....+.
T Consensus 92 ~k~eiV~~g~~~~~-~~~~~g~~i~p~e~~~ll~~~~~vvIDVRn~~E~------~~-------Ghi~gA-inip~~~f~ 156 (247)
T PRK01415 92 LKKEIVAMNVDDLN-VDLFKGEYIEPKDWDEFITKQDVIVIDTRNDYEV------EV-------GTFKSA-INPNTKTFK 156 (247)
T ss_pred eeceEEecCCCCCC-ccccCccccCHHHHHHHHhCCCcEEEECCCHHHH------hc-------CCcCCC-CCCChHHHh
Confidence 35778888876432 1212222111222 23333568999875433 21 112221 123333444
Q ss_pred HHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 106 VFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 106 ~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
+|-..+.+.....++..|+++|++| .|+ ..++++|.+ .|+.
T Consensus 157 e~~~~~~~~~~~~k~k~Iv~yCtgG-iRs-~kAa~~L~~-~Gf~ 197 (247)
T PRK01415 157 QFPAWVQQNQELLKGKKIAMVCTGG-IRC-EKSTSLLKS-IGYD 197 (247)
T ss_pred hhHHHHhhhhhhcCCCeEEEECCCC-hHH-HHHHHHHHH-cCCC
Confidence 4444443333335678999999999 565 455666655 4664
No 105
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=75.53 E-value=5 Score=41.73 Aligned_cols=44 Identities=18% Similarity=0.218 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 103 QTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 103 ~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.+..|...+.+.+...++..|+|||+.| .|+. .+++||.. .|++
T Consensus 154 ~~~~~~~~l~~~~~~~kdk~IvvyC~~G-~Rs~-~aa~~L~~-~Gf~ 197 (314)
T PRK00142 154 TFREFPPWVEENLDPLKDKKVVMYCTGG-IRCE-KASAWMKH-EGFK 197 (314)
T ss_pred HhhhhHHHHHHhcCCCCcCeEEEECCCC-cHHH-HHHHHHHH-cCCC
Confidence 3444544444433344678999999998 6664 45666665 4764
No 106
>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=75.45 E-value=6.3 Score=33.00 Aligned_cols=29 Identities=17% Similarity=0.390 Sum_probs=19.3
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|+|.+| +||. .++..|. ..|++
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 3568899999998 4664 4444554 44764
No 107
>PRK05320 rhodanese superfamily protein; Provisional
Probab=72.91 E-value=7.6 Score=39.16 Aligned_cols=70 Identities=14% Similarity=0.127 Sum_probs=38.7
Q ss_pred eEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHH
Q psy9353 63 GLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYL 142 (543)
Q Consensus 63 ~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yL 142 (543)
..|||+.+..+| ....+ +|--.+| ...+..|...+.+.+...++..|+++|+.| .|+.. ++++|
T Consensus 132 ~vlIDVR~~~E~-~~Ghi------------~GAiniP-l~~f~~~~~~l~~~~~~~kdk~IvvyC~~G-~Rs~~-Aa~~L 195 (257)
T PRK05320 132 VVMLDTRNAFEV-DVGTF------------DGALDYR-IDKFTEFPEALAAHRADLAGKTVVSFCTGG-IRCEK-AAIHM 195 (257)
T ss_pred eEEEECCCHHHH-ccCcc------------CCCEeCC-hhHhhhhHHHHHhhhhhcCCCeEEEECCCC-HHHHH-HHHHH
Confidence 478999975433 11111 2211233 234455555454444333568899999998 45544 56667
Q ss_pred HHhCCCC
Q psy9353 143 VEEMNFD 149 (543)
Q Consensus 143 i~~~~~s 149 (543)
.. .|++
T Consensus 196 ~~-~Gf~ 201 (257)
T PRK05320 196 QE-VGID 201 (257)
T ss_pred HH-cCCc
Confidence 65 4664
No 108
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=71.52 E-value=1e+02 Score=35.23 Aligned_cols=173 Identities=17% Similarity=0.227 Sum_probs=92.9
Q ss_pred cCCcEEEEcCCceEEEEEEEeCCe-EEEEECCCCee--Eec-Cc----cCCCCCCCCcCCCCeEEEEEEEEeccC-----
Q psy9353 280 EKKYMVSWKADGTRYMMYIKNADE-IYFTDRDFSMY--KIS-GL----TFPHRKDPNKRLTNTLLDGEMVIDRVQ----- 346 (543)
Q Consensus 280 ~~~y~v~~K~DG~R~ll~i~~~~~-vyLidR~~~~~--~v~-~~----~fP~~~~~~~~~~~tlLDGElV~d~~~----- 346 (543)
...|++++|.||.=.-|...+ |. +...+|.+-.. .|+ |+ ..|.. +.......-+=||+...+.+
T Consensus 108 ~~~y~~EpKiDGlsisL~Yen-G~Lv~aaTRGdG~~GEDiT~NvrtI~~IP~~--l~~~p~~lEVRGEvfm~k~~F~~lN 184 (667)
T COG0272 108 SVEYVVEPKIDGLAISLVYEN-GKLVRAATRGDGTTGEDITANVRTIRSIPLK--LPGAPAVLEVRGEVFMPKEDFEALN 184 (667)
T ss_pred CcceEEEeecceEEEEEEEEC-CEEEEeeccCCCccccchhhhhhhHhhhhhh--ccCCCceEEEEeEEEEeHHHHHHHH
Confidence 458999999999999877753 33 46667766432 011 11 12321 11122345678999986420
Q ss_pred -------------------C-----------ccccEEEEEEEEEECCccccCCCHHHHHHHHHHhhhh--hhHHHhhhhc
Q psy9353 347 -------------------G-----------QNIPRYLVYDIIRFDNNDVTRQKFTTRIQIIKVEIIE--PRHRAMENSR 394 (543)
Q Consensus 347 -------------------~-----------~~~~~ylifDil~~~G~~v~~~p~~eR~~~L~~~i~~--p~~~~~~~~~ 394 (543)
| +.++.+.+|.+-...+. ..-....+++..|+++-+. |+...
T Consensus 185 ~~~~~~g~~~faNpRNaAAGsLRqlD~~ita~R~L~~f~y~~~~~~~~-~~~~t~~e~l~~L~~~GF~v~~~~~~----- 258 (667)
T COG0272 185 EEREEEGEKPFANPRNAAAGSLRQLDPKITAKRKLGFFIYAVGDGEEG-LLADTQSERLAFLKAWGFPVNPYTRL----- 258 (667)
T ss_pred HHHHHhCCCCcCChhhhhhhhhhccCHHHHhcCCceEEEEeCCccCCC-CCccCHHHHHHHHHHcCCCCCcHhhh-----
Confidence 1 23678888887544433 3334568888888875431 21111
Q ss_pred cccCCCCeEEEeccccchhhHh----hhhccccccccCCceEEEeeCCCCccc--C---CCcce-EEecCCcceeEEEEE
Q psy9353 395 INKLAEPFSVRVKDFWSVDKAG----YLLSDKFTLCHEPDGLIFQPVDEPYVM--G---KAVDT-LKWKPHTMNSIDFLM 464 (543)
Q Consensus 395 ~~~~~~pf~i~~k~~~~~~~~~----~ll~~~~~~~h~~DGLIf~~~~spY~~--G---~~~~~-lKWKp~~~ntvDF~l 464 (543)
+-....+. .+....-.+++..||+|.+=.+-+..- | +.+.| +=||+|-...+--++
T Consensus 259 --------------~~~~~ev~~~~~~~~~~R~~L~y~IDGvViKvn~l~~q~~lG~tsk~PrWAiAyKFpa~e~~T~l~ 324 (667)
T COG0272 259 --------------CKNADEVLAFYEEWEKKRASLPYDIDGVVIKVNDLALQRELGFTSKAPRWAIAYKFPAEEAVTKLL 324 (667)
T ss_pred --------------cCCHHHHHHHHHHHHhhcccCCCccceEEEEeccHHHHHHhCCccCCCceeeeecCCchheeeEEE
Confidence 11111111 222211128999999999987643322 2 23344 777776655444444
Q ss_pred EEEe-ecCCCcc
Q psy9353 465 KIET-RSGLGIL 475 (543)
Q Consensus 465 ~~~~-~~~~g~~ 475 (543)
.+.. .++.|.+
T Consensus 325 dI~~qVGRTG~i 336 (667)
T COG0272 325 DIEVQVGRTGAI 336 (667)
T ss_pred EEEEecCCceee
Confidence 3332 2455543
No 109
>cd08041 OBF_kDNA_ligase_like The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit. 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, bacteriohages, eukarya, archaea and bacteria. The mitochondrial DNA of parasitic protozoan 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-de
Probab=66.32 E-value=21 Score=28.87 Aligned_cols=64 Identities=20% Similarity=0.317 Sum_probs=37.1
Q ss_pred eEEEEEEEEeecCCCccccceeeEeeccCCcccccc-eeEEccc----ccccCCcEEEEEEe----CCe---eEEEEee
Q psy9353 459 SIDFLMKIETRSGLGILPTKVGKLYAGSNRSQQQFA-EMKITKA----TKDLDGKIVECKWE----NNQ---WVFMRER 525 (543)
Q Consensus 459 tvDF~l~~~~~~~~g~~~~~~~~L~v~~~~~~~~f~-~~~~t~e----~~~~~g~IvEc~~~----~g~---W~f~R~R 525 (543)
+.|++| +....+.|.....+|.|.|+..++. -+. +..+|++ +.+ -|+|+|+.|. +|. .+|.++|
T Consensus 2 ~~e~vI-vG~~~g~g~~~~~~g~llv~~~~g~-~~~vgtG~t~~~r~~~~~-~g~v~~V~y~e~t~~g~lR~P~f~g~R 77 (77)
T cd08041 2 DAEARV-VGYEEGKGKYEGMLGALVVETKDGI-RFKIGSGFSDEQRRNPPP-IGSIITYKYQGLTKNGLPRFPVFLRVR 77 (77)
T ss_pred ceeEEE-EEEEcCCCccCCcEEEEEEEecCCC-EEEEcCCCCHHHHhcCCC-CCCEEEEEEEecCCCCcccCCEEEecC
Confidence 456665 3344455555556788888755322 222 2345543 334 4899999997 443 6666665
No 110
>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=61.59 E-value=33 Score=36.26 Aligned_cols=24 Identities=29% Similarity=0.426 Sum_probs=18.3
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHH
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISY 141 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~y 141 (543)
..+..|+|||..|..||..+.+.-
T Consensus 229 ~~~~~Vlvh~~dGwDrt~q~~sL~ 252 (353)
T PF06602_consen 229 DEGSSVLVHCSDGWDRTSQLSSLA 252 (353)
T ss_dssp TT--EEEEECTTSSSHHHHHHHHH
T ss_pred ccCceEEEEcCCCCcccHHHHHHH
Confidence 357899999999999998776644
No 111
>KOG4471|consensus
Probab=60.72 E-value=18 Score=40.36 Aligned_cols=25 Identities=28% Similarity=0.550 Sum_probs=21.3
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHH
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLV 143 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi 143 (543)
.+..|+|||.-|..||.-+++.-++
T Consensus 373 ~~~sVlVHCSDGWDRT~QlvsLA~L 397 (717)
T KOG4471|consen 373 ESRSVLVHCSDGWDRTAQLVSLAML 397 (717)
T ss_pred CCceEEEEcCCCccchHHHHHHHHH
Confidence 4689999999999999998876644
No 112
>COG1054 Predicted sulfurtransferase [General function prediction only]
Probab=59.46 E-value=32 Score=35.33 Aligned_cols=117 Identities=17% Similarity=0.168 Sum_probs=72.0
Q ss_pred eeeeeeecccccccc-----cccccccCCeee--EEeecCCCCCCC--chhHhcccceEEecccccccCCChhhhhcCCc
Q psy9353 15 EFESKSNLTKTSRFY-----NKSEVEENDIAY--IKIQCEGHKEAP--NEKQTRLKIGLWIDLTKTSRFYDKSEVEENDI 85 (543)
Q Consensus 15 ~~~~~idlt~t~ryY-----~~~~i~~~G~~~--~Ki~c~gr~~~p--~~es~~~~i~~VIdLt~~~~~y~~~~~~~~gi 85 (543)
.+-+.|++.+..-|+ -+++|.++|++= -+..-.|..-.| ..+.+...=..|||..|.-++ .|
T Consensus 72 ~l~~K~s~~~~~pF~r~kVk~kkEIV~lg~~ddv~p~~~vG~yl~p~~wn~~l~D~~~vviDtRN~YE~---------~i 142 (308)
T COG1054 72 DLRFKISEADEKPFWRLKVKLKKEIVALGVEDDVDPLENVGTYLSPKDWNELLSDPDVVVIDTRNDYEV---------AI 142 (308)
T ss_pred cceeeeccccCCCcceEEEeehhhheecCCCCCcCccccccCccCHHHHHHHhcCCCeEEEEcCcceeE---------ee
Confidence 355667777776664 357888888873 222333443322 122233344789998875221 12
Q ss_pred EEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHHHHHHhCCC
Q psy9353 86 AYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLISYLVEEMNF 148 (543)
Q Consensus 86 ~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~ 148 (543)
-+ +.|- ..|..+...+|...+.+..+...+++|+.-||+|+= . =-..+||.+. |+
T Consensus 143 G~----F~gA-v~p~~~tFrefP~~v~~~~~~~~~KkVvmyCTGGIR-C-EKas~~m~~~-GF 197 (308)
T COG1054 143 GH----FEGA-VEPDIETFREFPAWVEENLDLLKDKKVVMYCTGGIR-C-EKASAWMKEN-GF 197 (308)
T ss_pred ee----ecCc-cCCChhhhhhhHHHHHHHHHhccCCcEEEEcCCcee-e-hhhHHHHHHh-cc
Confidence 22 3442 467778888999999988887778899999999963 2 2334566554 54
No 113
>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=53.99 E-value=35 Score=29.47 Aligned_cols=30 Identities=13% Similarity=-0.111 Sum_probs=20.9
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|+|..| ++.+..++..|. ..|++
T Consensus 77 ~~~~~vv~~c~~g-~~~a~~~~~~l~-~~G~~ 106 (122)
T cd01448 77 SNDDTVVVYDDGG-GFFAARAWWTLR-YFGHE 106 (122)
T ss_pred CCCCEEEEECCCC-CccHHHHHHHHH-HcCCC
Confidence 4678999999998 666666555554 45664
No 114
>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=49.86 E-value=22 Score=29.83 Aligned_cols=29 Identities=24% Similarity=0.260 Sum_probs=20.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
..+..|+|+|.+| +|| ..++.+|... |++
T Consensus 59 ~~~~~ivv~C~~G-~rS-~~aa~~L~~~-G~~ 87 (110)
T COG0607 59 PDDDPIVVYCASG-VRS-AAAAAALKLA-GFT 87 (110)
T ss_pred CCCCeEEEEeCCC-CCh-HHHHHHHHHc-CCc
Confidence 3578999999999 566 5566666664 554
No 115
>PLN02160 thiosulfate sulfurtransferase
Probab=43.88 E-value=27 Score=31.43 Aligned_cols=76 Identities=18% Similarity=0.363 Sum_probs=38.0
Q ss_pred eEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHH--HHHHHHHHHHHhhCCCCeEEEEcCCCCChhHHHHHH
Q psy9353 63 GLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQT--RVFINLCSKFISKSPLEKIGVHCTHGFNRTGFLLIS 140 (543)
Q Consensus 63 ~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i--~~f~~~v~~fl~~~~~~~V~VHC~~G~~RTG~~ia~ 140 (543)
..|||+....+| ....+. |..++.+|...+ .|. ..+ ..|...+...+ .++..|+|||..| +|+... +.
T Consensus 30 ~~lIDVR~~~E~-~~ghIp--gA~~iniP~~~~--~~~-~~l~~~~~~~~~~~~~--~~~~~IivyC~sG-~RS~~A-a~ 99 (136)
T PLN02160 30 HQYLDVRTQDEF-RRGHCE--AAKIVNIPYMLN--TPQ-GRVKNQEFLEQVSSLL--NPADDILVGCQSG-ARSLKA-TT 99 (136)
T ss_pred CEEEECCCHHHH-hcCCCC--Ccceecccchhc--Ccc-cccCCHHHHHHHHhcc--CCCCcEEEECCCc-HHHHHH-HH
Confidence 368999865444 222222 222456665332 111 011 12222222222 3567899999999 777754 33
Q ss_pred HHHHhCCCC
Q psy9353 141 YLVEEMNFD 149 (543)
Q Consensus 141 yLi~~~~~s 149 (543)
.| ...|++
T Consensus 100 ~L-~~~G~~ 107 (136)
T PLN02160 100 EL-VAAGYK 107 (136)
T ss_pred HH-HHcCCC
Confidence 34 445664
No 116
>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=43.79 E-value=47 Score=28.15 Aligned_cols=28 Identities=21% Similarity=0.234 Sum_probs=18.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNF 148 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~ 148 (543)
+++..|+|||..|. |+. .++..| ...|+
T Consensus 64 ~~~~~ivv~C~~G~-rs~-~a~~~L-~~~G~ 91 (109)
T cd01533 64 DPRTPIVVNCAGRT-RSI-IGAQSL-INAGL 91 (109)
T ss_pred CCCCeEEEECCCCc-hHH-HHHHHH-HHCCC
Confidence 34678999999984 663 344444 44576
No 117
>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=43.77 E-value=48 Score=28.72 Aligned_cols=29 Identities=17% Similarity=0.212 Sum_probs=18.5
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|+|..| .|+.. ++.+| ...|++
T Consensus 62 ~~~~~ivv~C~~G-~rs~~-aa~~L-~~~G~~ 90 (117)
T cd01522 62 GKDRPVLLLCRSG-NRSIA-AAEAA-AQAGFT 90 (117)
T ss_pred CCCCeEEEEcCCC-ccHHH-HHHHH-HHCCCC
Confidence 3568899999988 45554 34444 445653
No 118
>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=41.34 E-value=45 Score=31.05 Aligned_cols=30 Identities=3% Similarity=-0.108 Sum_probs=21.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|.|..|..|+.. +++++...|++
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 4678999999987666665 56665656764
No 119
>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=39.24 E-value=30 Score=28.46 Aligned_cols=20 Identities=30% Similarity=0.414 Sum_probs=15.4
Q ss_pred eEEEEcCCCCChhHHHHHHHH
Q psy9353 122 KIGVHCTHGFNRTGFLLISYL 142 (543)
Q Consensus 122 ~V~VHC~~G~~RTG~~ia~yL 142 (543)
.|+|.|..|+| |++|++.=+
T Consensus 2 kilvvCg~G~g-tS~ml~~ki 21 (87)
T cd05567 2 KIVFACDAGMG-SSAMGASVL 21 (87)
T ss_pred EEEEECCCCcc-HHHHHHHHH
Confidence 69999999999 666665543
No 120
>cd08621 PI-PLCXDc_like_2 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins. This subfamily corresponds to the catalytic domain present in a group of uncharacterized hypothetical proteins found in bacteria and fungi, which are similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins (PI-PLCXD). The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, eukaryotic PI-PLCXDs contain a single TIM-barrel type catalytic domain, X domain, and are more closely related to bacterial PI-PLCs, which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidyl
Probab=38.68 E-value=52 Score=33.99 Aligned_cols=34 Identities=15% Similarity=0.257 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChh
Q psy9353 101 EKQTRVFINLCSKFISKSPLEKIGVHCTHGFNRT 134 (543)
Q Consensus 101 ~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RT 134 (543)
...+..+++.|.+|+.++|++.|++.++|-.+-+
T Consensus 86 ~~~l~~vL~~v~~Fl~~~p~EvViL~~~h~~~~~ 119 (300)
T cd08621 86 GESLDDILDEVNRFTDENPGELVILNFSHILNTD 119 (300)
T ss_pred CCcHHHHHHHHHHHHHhCCCcEEEEEEEeccCCC
Confidence 3578999999999999999999999999987644
No 121
>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=37.48 E-value=2e+02 Score=29.62 Aligned_cols=94 Identities=17% Similarity=0.303 Sum_probs=58.1
Q ss_pred hHHHHHHHHHHHHHhCCCCCC-C---CCCe-ee---ccccccccccccCCcEEEEcCCceEEEEEEEeCCeEEEEECCCC
Q psy9353 241 EDKIVQLQNEIKDLCNYERVG-F---PGSQ-PV---SMDRNNIGYLAEKKYMVSWKADGTRYMMYIKNADEIYFTDRDFS 312 (543)
Q Consensus 241 ~~~~~~l~~~v~~~~~~~~~~-F---PG~q-PV---sl~r~~l~~l~~~~y~v~~K~DG~R~ll~i~~~~~vyLidR~~~ 312 (543)
.+...+|...++.+.--.... | |... || .+.++.|..+.-++++++-|+||+=..+.++.. ++|..=-+-.
T Consensus 181 ~~l~~eL~~~~~~iFm~~~~ni~L~~~~~k~pvkT~MLkkqdi~~ldl~~ly~tsKtDGv~~~V~i~~~-~i~C~f~hl~ 259 (313)
T PF10640_consen 181 DELLNELTTLFRAIFMANPDNIFLVTPNIKPPVKTHMLKKQDIPGLDLENLYITSKTDGVGTVVKITVK-GIYCYFSHLG 259 (313)
T ss_pred HHHHHHHHHHHHHHhccCcccEEEeCCCCCCCceeeeeccccccccchhheEEEEeecCceEEEEEecC-ceEEEEEEee
Confidence 356777777777776322211 1 3332 33 577888888888999999999999888888754 4332211222
Q ss_pred eeEecCccCCCCCCCCcCCCCeEEEEEEEE
Q psy9353 313 MYKISGLTFPHRKDPNKRLTNTLLDGEMVI 342 (543)
Q Consensus 313 ~~~v~~~~fP~~~~~~~~~~~tlLDGElV~ 342 (543)
+. .+||...... ....|=||++.
T Consensus 260 y~----irY~~~~~i~---~~i~l~gEa~K 282 (313)
T PF10640_consen 260 YI----IRYNANRNID---NPIVLYGEAIK 282 (313)
T ss_pred EE----EEcccccCCC---CceEEEeeeee
Confidence 11 3555443322 34677899996
No 122
>cd08616 PI-PLCXD1c Catalytic domain of phosphatidylinositol-specific phospholipase C, X domain containing 1. This subfamily corresponds to the catalytic domain present in a group of phosphatidylinositol-specific phospholipase C X domain containing 1 (PI-PLCXD1), 2 (PI-PLCXD2) and 3 (PI-PLCXD3), which are bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) sequence homologs found in vertebrates. The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, members in this group contain a single TIM-barrel type catalytic domain, X domain, and are more closely related to bacterial PI-PLCs, which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to
Probab=37.17 E-value=66 Score=33.02 Aligned_cols=30 Identities=13% Similarity=0.311 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 103 QTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 103 ~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
.+..++..|.+|+.++|++.|.+++.|-.+
T Consensus 98 ~~~~~L~~i~~fl~~~p~Evvil~~~~~~~ 127 (290)
T cd08616 98 LVKEILEEINDFLTEHPKEVVILDFNHFYG 127 (290)
T ss_pred hHHHHHHHHHHHHHHCCCcEEEEEEEccCC
Confidence 788999999999999999999999998654
No 123
>cd08619 PI-PLCXDc_plant Catalytic domain of phosphatidylinositol-specific phospholipase C, X domain containing proteins found in plants. The CD corresponds to the catalytic domain present in uncharacterized plant phosphatidylinositol-specific phospholipase C, X domain containing proteins (PI-PLCXD). The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, plant PI-PLCXDs contain a single TIM-barrel type catalytic domain, X domain, and are more closely related to bacterial PI-PLCs, which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). Although the biological function of plant PI-PLCXDs still remains u
Probab=37.01 E-value=97 Score=31.78 Aligned_cols=49 Identities=14% Similarity=0.207 Sum_probs=37.1
Q ss_pred CCcEEEEEEecC-----CCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 83 NDIAYIKIQCEG-----HKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 83 ~gi~y~~ip~~d-----hg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
.||+|+-+-+.. ||..+. ..+..+++.|.+|++++|++.|++.+++=++
T Consensus 68 ~GiRyfDiRv~~~~~~~HG~~~~-~~~~dvL~~i~~FL~~hp~EvVIL~~k~ey~ 121 (285)
T cd08619 68 SGARVLDIRVQEDRRVCHGCLKT-YPVDVVLNDIKRFLSETKSEFVILEIRTEYG 121 (285)
T ss_pred CCceEEEEEecCCeEEECCCcCC-CcHHHHHHHHHHHHHHCCCeEEEEEEeeccc
Confidence 688888666432 454332 4578899999999999999999999986543
No 124
>cd00137 PI-PLCc Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C. This subfamily corresponds to the catalytic domain present in prokaryotic and eukaryotic phosphoinositide-specific phospholipase C (PI-PLC), which is a ubiquitous enzyme catalyzing the cleavage of the sn3-phosphodiester bond in the membrane phosphoinositides (phosphatidylinositol, PI; Phosphatidylinositol-4-phosphate, PIP; phosphatidylinositol 4,5-bisphosphate, PIP2) to yield inositol phosphates (inositol monosphosphate, InsP; inositol diphosphate, InsP2; inositol trisphosphate, InsP3) and diacylglycerol (DAG). The higher eukaryotic PI-PLCs (EC 3.1.4.11) have a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. They play a critical role in most signal transduction pathways, controlling numerous cellular events, such as cell growth, proliferation, excitation and secretion. These PI-PLCs strictly require Ca2+ for their catalytic a
Probab=35.63 E-value=1.1e+02 Score=31.15 Aligned_cols=49 Identities=18% Similarity=0.268 Sum_probs=33.9
Q ss_pred CCcEEEEEEecC---------CCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 83 NDIAYIKIQCEG---------HKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 83 ~gi~y~~ip~~d---------hg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
.||+++-+-|.+ ||.....-.+...++.|.+|+.+++..+|++...+-.
T Consensus 46 ~G~R~lDir~~~~~~~~~~v~HG~~~~~~~f~dvl~~i~~fl~~~p~e~vIlsl~~~~ 103 (274)
T cd00137 46 SGCRCVDIRCWDGKPEEPIIYHGPTFLDIFLKEVIEAIAQFLKKNPPETIIMSLKNEV 103 (274)
T ss_pred cCCcEEEEEeecCCCCCeEEEECCcccCcCHHHHHHHHHHHHHHCCCCeEEEEEEecC
Confidence 466666666654 2323333457888999999999999998887655443
No 125
>KOG2947|consensus
Probab=35.00 E-value=4.9e+02 Score=26.29 Aligned_cols=103 Identities=17% Similarity=0.164 Sum_probs=60.5
Q ss_pred cceEEecccccccCCChhhhhcCCc-EEEEEEecCCCCCCChHHHHHHHHHHHHHHhhCCC-CeEEEEcCCCCChhHHHH
Q psy9353 61 KIGLWIDLTKTSRFYDKSEVEENDI-AYIKIQCEGHKEAPNEKQTRVFINLCSKFISKSPL-EKIGVHCTHGFNRTGFLL 138 (543)
Q Consensus 61 ~i~~VIdLt~~~~~y~~~~~~~~gi-~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~~~~-~~V~VHC~~G~~RTG~~i 138 (543)
+-..|+-..+..++-..++|++-.. +|-++++..+ .| .+..+.+..|.+|-+..+. ..|.|-=----.|-.++-
T Consensus 106 ~trTil~~dks~p~vT~~dF~kvdl~qy~WihfE~R--np--~etlkM~~~I~~~N~r~pe~qrI~vSvd~en~req~~~ 181 (308)
T KOG2947|consen 106 GTRTILYCDKSLPDVTATDFEKVDLTQYGWIHFEAR--NP--SETLKMLQRIDAHNTRQPEEQRIRVSVDVENPREQLFQ 181 (308)
T ss_pred CceEEEEecCCCccccHHHhhhcccceeeeEEEecC--Ch--HHHHHHHHHHHHhhcCCCccceEEEEEEecCcHHHHHH
Confidence 3334444333333333445665433 4666777665 23 3567778888888766543 556665444455555443
Q ss_pred HH----------HHHHhCCC-CHHHHHHHHHhcCCCCCCC
Q psy9353 139 IS----------YLVEEMNF-DVSAAIFAFSMARPPGIYK 167 (543)
Q Consensus 139 a~----------yLi~~~~~-s~~~Al~~~~~~R~~~i~~ 167 (543)
.+ +++++.|| |+.||+..+...=|.+++|
T Consensus 182 l~am~DyVf~sK~~a~~~gfks~rea~~~l~~r~~~~~pk 221 (308)
T KOG2947|consen 182 LFAMCDYVFVSKDVAKHLGFKSPREACEGLYGRVPKGKPK 221 (308)
T ss_pred HhhcccEEEEEHHHHhhhccCCHHHHHHHHHhhcccCCCC
Confidence 32 47788898 9999999885555555544
No 126
>cd08587 PI-PLCXDc_like Catalytic domain of phosphatidylinositol-specific phospholipase C X domain containing and similar proteins. This family corresponds to the catalytic domain present in phosphatidylinositol-specific phospholipase C X domain containing proteins (PI-PLCXD) which are bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) sequence homologs mainly found in eukaryota. The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) have a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, eukaryotic PI-PLCXDs and their bacterial homologs contain a single TIM-barrel type catalytic domain, X domain, which is more closely related to that of bacterial PI-PLCs. Although the biological function of eukaryotic PI-PLCXDs still remains unclear, it may be
Probab=34.62 E-value=65 Score=32.84 Aligned_cols=31 Identities=13% Similarity=0.276 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 102 KQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 102 e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
..+..+++.|.+|+.++|++.|.+++.|-.+
T Consensus 92 ~~~~~~l~~i~~fl~~~p~Evvil~~~~~~~ 122 (288)
T cd08587 92 EPVDEVLEDVNDFLDEHPKEVVILDFNHFYG 122 (288)
T ss_pred cCHHHHHHHHHHHHHhCCCcEEEEEEEcccc
Confidence 4678899999999999999999999988644
No 127
>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=33.53 E-value=91 Score=25.84 Aligned_cols=82 Identities=16% Similarity=0.302 Sum_probs=40.8
Q ss_pred cccceEEecccccccCCChhhhhcCCcEEEEEEecCC---CCCCChHHHHHHHHHHHHHHh-hCCCCeEEEEcCCCCChh
Q psy9353 59 RLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGH---KEAPNEKQTRVFINLCSKFIS-KSPLEKIGVHCTHGFNRT 134 (543)
Q Consensus 59 ~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dh---g~~P~~e~i~~f~~~v~~fl~-~~~~~~V~VHC~~G~~RT 134 (543)
+..=.+|||+....+ |....+. | -+++|+..- ........+..+ ...... .+.+..|+|+|..| .|+
T Consensus 10 ~~~~~~liD~R~~~~-~~~~hI~--g--a~~i~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~iv~yc~~~-~~~ 80 (113)
T PF00581_consen 10 ENESVLLIDVRSPEE-YERGHIP--G--AVNIPFPSLDPDEPSLSEDKLDEF---LKELGKKIDKDKDIVFYCSSG-WRS 80 (113)
T ss_dssp TTTTEEEEEESSHHH-HHHSBET--T--EEEEEGGGGSSSSSBCHHHHHHHH---HHHHTHGSTTTSEEEEEESSS-CHH
T ss_pred hCCCeEEEEeCCHHH-HHcCCCC--C--Cccccccccccccccccccccccc---cccccccccccccceeeeecc-ccc
Confidence 345578899886543 3333333 2 367777321 112222222222 222222 24567899999555 555
Q ss_pred HHHHHH---HHHHhCCCC
Q psy9353 135 GFLLIS---YLVEEMNFD 149 (543)
Q Consensus 135 G~~ia~---yLi~~~~~s 149 (543)
+.++++ |++...|++
T Consensus 81 ~~~~~~~~~~~l~~~g~~ 98 (113)
T PF00581_consen 81 GSAAAARVAWILKKLGFK 98 (113)
T ss_dssp HHHHHHHHHHHHHHTTTS
T ss_pred chhHHHHHHHHHHHcCCC
Confidence 555544 445555653
No 128
>cd08586 PI-PLCc_BcPLC_like Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins. This subfamily corresponds to the catalytic domain present in Bacillus cereus phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) and its sequence homologs found in bacteria and eukaryota. Bacterial PI-PLCs participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). Although their precise physiological function remains unclear, bacterial PI-PLCs may function as virulence factors in some pathogenic bacteria. Bacterial PI-PLCs contain a single TIM-barrel type catalytic domain. Their catalytic mechanism is based on general base and acid catalysis utilizing two well conserved histidines, and consists of two steps, a phosphotransfer and a phosphodiesterase reaction. This family also includes some uncharacterized eukaryotic homologs, which
Probab=33.24 E-value=82 Score=32.12 Aligned_cols=39 Identities=18% Similarity=0.163 Sum_probs=31.1
Q ss_pred CCCCCChHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCCh
Q psy9353 95 HKEAPNEKQTRVFINLCSKFISKSPLEKIGVHCTHGFNR 133 (543)
Q Consensus 95 hg~~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~R 133 (543)
||..+....+..++..|.+||+++|++.|++..++-.+-
T Consensus 66 Hg~~~~~~~~~dvL~~i~~FL~~nP~E~Vil~l~~e~~~ 104 (279)
T cd08586 66 HGPFYQGLTFGDVLNECYSFLDANPSETIIMSLKQEGSG 104 (279)
T ss_pred ccCccccCcHHHHHHHHHHHHHhCCCcEEEEEEEecCCC
Confidence 444444456889999999999999999999998876553
No 129
>PF04679 DNA_ligase_A_C: ATP dependent DNA ligase C terminal region ; InterPro: IPR012309 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 region is found in many but not all ATP-dependent DNA ligase enzymes (6.5.1.1 from EC). It is thought to constitute part of the catalytic core of ATP dependent DNA ligase []. ; GO: 0003910 DNA ligase (ATP) activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 3RR5_A 2CFM_A 1X9N_A 1VS0_B 3GDE_A 2HIX_A 2HIV_A 3L2P_A 4EQ5_A.
Probab=32.63 E-value=45 Score=27.99 Aligned_cols=20 Identities=40% Similarity=0.526 Sum_probs=16.7
Q ss_pred EEEEEEe----CCe---eEEEEeeCCC
Q psy9353 509 IVECKWE----NNQ---WVFMRERTDK 528 (543)
Q Consensus 509 IvEc~~~----~g~---W~f~R~R~DK 528 (543)
|+|+.|. +|. .+|.|+|+||
T Consensus 71 V~eV~~~e~t~~G~lR~P~~~~~R~DK 97 (97)
T PF04679_consen 71 VVEVKFAEITPSGSLRFPRFKRIREDK 97 (97)
T ss_dssp EEEEEESEEEEESEEESEEEEEEETTS
T ss_pred EEEEEEEEEcCCCeEECCEEeEEeCCC
Confidence 8888887 444 8899999998
No 130
>KOG4306|consensus
Probab=31.67 E-value=97 Score=32.01 Aligned_cols=52 Identities=19% Similarity=0.293 Sum_probs=40.1
Q ss_pred CCcEEEEEEecCCCCCCCh-----------HHHHHHHHHHHHHHhhCCCCeEEEEcCCCCChh
Q psy9353 83 NDIAYIKIQCEGHKEAPNE-----------KQTRVFINLCSKFISKSPLEKIGVHCTHGFNRT 134 (543)
Q Consensus 83 ~gi~y~~ip~~dhg~~P~~-----------e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~RT 134 (543)
.|++|+-+-+.-....|+. ..+..-+..|.+|+.+++..+|..-|.||+|-+
T Consensus 78 ~GvRylDlRi~~~~~~~D~~~~i~HGl~~~~~v~~vL~ev~~Fl~~h~eEVViL~f~~~fg~~ 140 (306)
T KOG4306|consen 78 AGVRYLDLRIGYKLMDPDREFYICHGLFSTYPVLEVLNEVRQFLSEHPEEVVILEFRHFFGMT 140 (306)
T ss_pred hcceEEEEEeeeccCCCCcceEEEeeccccccHHHHHHHHHHHHHhCCCEEEEEeccchhccC
Confidence 6899988776522222333 557788999999999999999999999998744
No 131
>cd08557 PI-PLCc_bacteria_like Catalytic domain of bacterial phosphatidylinositol-specific phospholipase C and similar proteins. This subfamily corresponds to the catalytic domain present in bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) and their sequence homologs found in eukaryota. Bacterial PI-PLCs participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). Although their precise physiological function remains unclear, bacterial PI-PLCs may function as virulence factors in some pathogenic bacteria. Bacterial PI-PLCs contain a single TIM-barrel type catalytic domain. Its catalytic mechanism is based on general base and acid catalysis utilizing two well conserved histidines, and consists of two steps, a phosphotransfer and a phosphodiesterase reaction. Eukaryotic homologs in this family are named as phosphatidylinositol-specific phospholipase C X
Probab=31.59 E-value=87 Score=31.09 Aligned_cols=31 Identities=16% Similarity=0.315 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 102 KQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 102 e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
..+..+++.|.+|+.++|+++|++...+-.+
T Consensus 79 ~~~~~vL~~i~~fl~~~p~E~vil~~~~~~~ 109 (271)
T cd08557 79 QTLEDVLNEVKDFLDAHPSEVVILDLEHEYG 109 (271)
T ss_pred ccHHHHHHHHHHHHHHCCCcEEEEEEEccCC
Confidence 5688999999999999999999999998754
No 132
>COG0422 ThiC Thiamine biosynthesis protein ThiC [Coenzyme metabolism]
Probab=31.40 E-value=1.2e+02 Score=32.33 Aligned_cols=104 Identities=18% Similarity=0.240 Sum_probs=64.7
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHHH------------HHHHHHHHHhhCCCCeEEE
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTRV------------FINLCSKFISKSPLEKIGV 125 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~~------------f~~~v~~fl~~~~~~~V~V 125 (543)
.+.+..+|.||..- =+-.++.++=++-..+|+ |.+|=-+.+.. |+..+.+..++ -=..+-|
T Consensus 88 ~~~GADtvMDLStG---gdl~eiR~~ii~~s~vPv---GTVPIYqA~~~~~~~~~~~t~d~~~~~v~~qa~~-GVdfmTI 160 (432)
T COG0422 88 IKWGADTVMDLSTG---GDLHEIREWIIRNSPVPV---GTVPIYQALEEVNGKVEDLTEDDFFDTVEKQAEQ-GVDFMTI 160 (432)
T ss_pred HHhCcceeEecccC---CCHHHHHHHHHhcCCCCc---CCchHHHHHHHHhcchhhCCHHHHHHHHHHHHHh-CCcEEEe
Confidence 45788899999853 234445554455666776 57885433322 23333332222 2257899
Q ss_pred EcC----------------CCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCC
Q psy9353 126 HCT----------------HGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDDV 181 (543)
Q Consensus 126 HC~----------------~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~~ 181 (543)
||. .=.+|-|.++++|++....-+ |-..+-+||-++++.|.=.
T Consensus 161 HaGV~~~~~~~~~~~~R~~giVSRGGsi~a~Wml~~~~EN-------------ply~~fd~lleI~k~yDvt 219 (432)
T COG0422 161 HAGVLLEYVPRTKRSGRVTGIVSRGGSIMAAWMLHNHKEN-------------PLYEHFDELLEIFKEYDVT 219 (432)
T ss_pred ehhhhHHHHHHHHhcCceeeeeccchHHHHHHHHHcCCcC-------------chhhhHHHHHHHHHHhCee
Confidence 992 235899999999999863222 2233568999999999843
No 133
>cd08590 PI-PLCc_Rv2075c_like Catalytic domain of uncharacterized Mycobacterium tuberculosis Rv2075c-like proteins. This subfamily corresponds to the catalytic domain present in uncharacterized Mycobacterium tuberculosis Rv2075c and its homologs. Members in this family are more closely related to the Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1(SaPLC1)-like proteins rather than the typical bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). In contrast, SaPLC1-like proteins have two Ca2+-chelating amino acid substitutions which convert them to metal-dependent bacterial PI-PLC. Rv2075c and its homologs have the same amino acid substitutions as well, which might suggest they have metal-dependent PI-PLC activity.
Probab=30.77 E-value=98 Score=31.40 Aligned_cols=31 Identities=10% Similarity=0.017 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 102 KQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 102 e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
..+...++.|.+|+.++|+++|.+...++.+
T Consensus 88 ~~l~d~L~eI~~fL~~nP~EvViL~~e~~~~ 118 (267)
T cd08590 88 RLFEDGLNEIADWLNANPDEVVILYLEDHGD 118 (267)
T ss_pred chHHHHHHHHHHHHHhCCCCcEEEEEecCCC
Confidence 3578899999999999999999999988754
No 134
>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=29.99 E-value=67 Score=26.48 Aligned_cols=29 Identities=17% Similarity=0.287 Sum_probs=18.8
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|+|..| +|+ ..+ +++++..|+.
T Consensus 59 ~~~~~ivv~c~~g-~~s-~~~-~~~l~~~G~~ 87 (103)
T cd01447 59 AEDKPFVFYCASG-WRS-ALA-GKTLQDMGLK 87 (103)
T ss_pred CCCCeEEEEcCCC-CcH-HHH-HHHHHHcChH
Confidence 3568999999887 565 333 4455555653
No 135
>smart00148 PLCXc Phospholipase C, catalytic domain (part); domain X. Phosphoinositide-specific phospholipases C. These enzymes contain 2 regions (X and Y) which together form a TIM barrel-like structure containing the active site residues. Phospholipase C enzymes (PI-PLC) act as signal transducers that generate two second messengers, inositol-1,4,5-trisphosphate and diacylglycerol. The bacterial enzyme [6] appears to be a homologue of the mammalian PLCs.
Probab=29.57 E-value=1.6e+02 Score=26.42 Aligned_cols=31 Identities=3% Similarity=-0.070 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHhhCCCCeEEEEcCCCC
Q psy9353 101 EKQTRVFINLCSKFISKSPLEKIGVHCTHGF 131 (543)
Q Consensus 101 ~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~ 131 (543)
.-.+...++.|.+|+.++|..+|++-+.+-.
T Consensus 68 ~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~ 98 (135)
T smart00148 68 PIKLSEVLEAIKDFAFVTSPYPVILSLENHC 98 (135)
T ss_pred cEEHHHHHHHHHHHHHhCCCCcEEEeehhhC
Confidence 3457889999999999999999999887654
No 136
>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=29.31 E-value=83 Score=25.78 Aligned_cols=29 Identities=14% Similarity=-0.044 Sum_probs=17.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHhCCC
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLVEEMNF 148 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~ 148 (543)
++..|+|+|..|...+...++ .++...|+
T Consensus 49 ~~~~ivl~c~~G~~~~s~~aa-~~L~~~G~ 77 (92)
T cd01532 49 RDTPIVVYGEGGGEDLAPRAA-RRLSELGY 77 (92)
T ss_pred CCCeEEEEeCCCCchHHHHHH-HHHHHcCc
Confidence 467899999988433334444 44444465
No 137
>KOG3824|consensus
Probab=28.65 E-value=2.3e+02 Score=29.64 Aligned_cols=69 Identities=17% Similarity=0.290 Sum_probs=46.5
Q ss_pred hhcCCcEEEEEEecCCCCCCChHHHHHHHHHHHHHHhh------CC--------CCeEEEEc-CCCCChhHHHHHHHHHH
Q psy9353 80 VEENDIAYIKIQCEGHKEAPNEKQTRVFINLCSKFISK------SP--------LEKIGVHC-THGFNRTGFLLISYLVE 144 (543)
Q Consensus 80 ~~~~gi~y~~ip~~dhg~~P~~e~i~~f~~~v~~fl~~------~~--------~~~V~VHC-~~G~~RTG~~ia~yLi~ 144 (543)
++..-++--.+-+-+| .+|+++.+..-.+...+|+.. +| -+.|+||= +-|-|||.-+..-.++.
T Consensus 314 vEaGrfRttQVyVG~h-iPp~P~dv~~qmq~fv~WLNsE~~~tlhPve~AAlAHYKLV~iHPF~DGNGRTsRLLmNlilM 392 (472)
T KOG3824|consen 314 VEAGRFRTTQVYVGRH-IPPSPEDVMEQMQDFVDWLNSESTLTLHPVERAALAHYKLVLIHPFTDGNGRTSRLLMNLILM 392 (472)
T ss_pred ccccceeeeeEEecCC-CCCChHHHHHHHHHHHHHhccccccccChHHHHHHhhheeEEEeccccCCchHHHHHHHHHHH
Confidence 4433445555656555 899998887777777777743 11 25788885 58999999888777555
Q ss_pred hCCCC
Q psy9353 145 EMNFD 149 (543)
Q Consensus 145 ~~~~s 149 (543)
+-|+.
T Consensus 393 raGyP 397 (472)
T KOG3824|consen 393 RAGYP 397 (472)
T ss_pred hcCCC
Confidence 44664
No 138
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=27.42 E-value=1.5e+02 Score=25.93 Aligned_cols=30 Identities=23% Similarity=0.432 Sum_probs=20.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|.|.+|=.|+. .++++++..|+.
T Consensus 84 ~~~~~vvvyC~~~G~rs~--~a~~~L~~~G~~ 113 (128)
T cd01520 84 ERDPKLLIYCARGGMRSQ--SLAWLLESLGID 113 (128)
T ss_pred CCCCeEEEEeCCCCccHH--HHHHHHHHcCCc
Confidence 456889999985545555 444777777764
No 139
>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=27.17 E-value=92 Score=31.94 Aligned_cols=19 Identities=26% Similarity=0.366 Sum_probs=16.8
Q ss_pred CeEEEEcCCCCChhHHHHH
Q psy9353 121 EKIGVHCTHGFNRTGFLLI 139 (543)
Q Consensus 121 ~~V~VHC~~G~~RTG~~ia 139 (543)
-.|+|=||+|.=||.+++=
T Consensus 243 ltIaiGCTGG~HRSV~iae 261 (284)
T PF03668_consen 243 LTIAIGCTGGQHRSVAIAE 261 (284)
T ss_pred EEEEEEcCCCcCcHHHHHH
Confidence 4899999999999998863
No 140
>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=26.89 E-value=1.3e+02 Score=25.55 Aligned_cols=20 Identities=10% Similarity=-0.014 Sum_probs=13.8
Q ss_pred CCCCeEEEEcCCCCChhHHH
Q psy9353 118 SPLEKIGVHCTHGFNRTGFL 137 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ 137 (543)
.....|+|||..|-.|+..+
T Consensus 64 ~~~~~iv~~C~~~g~rs~~a 83 (113)
T cd01443 64 AGVKLAIFYCGSSQGRGPRA 83 (113)
T ss_pred cCCCEEEEECCCCCcccHHH
Confidence 34578999999765665443
No 141
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=26.11 E-value=1.5e+02 Score=24.44 Aligned_cols=29 Identities=31% Similarity=0.683 Sum_probs=19.2
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
+++..|+|+|..| .|+ ..++.+|.+ .|++
T Consensus 56 ~~~~~vv~~c~~g-~rs-~~~~~~l~~-~G~~ 84 (101)
T cd01528 56 NPDKDIVVLCHHG-GRS-MQVAQWLLR-QGFE 84 (101)
T ss_pred CCCCeEEEEeCCC-chH-HHHHHHHHH-cCCc
Confidence 3568899999987 565 444555554 5664
No 142
>PF00388 PI-PLC-X: Phosphatidylinositol-specific phospholipase C, X domain This entry is for the whole phospholipase C protein; InterPro: IPR000909 Phosphatidylinositol-specific phospholipase C (3.1.4.11 from EC), a eukaryotic intracellular enzyme, plays an important role in signal transduction processes []. It catalyzes the hydrolysis of 1-phosphatidyl-D-myo-inositol-3,4,5-triphosphate into the second messenger molecules diacylglycerol and inositol-1,4,5-triphosphate. This catalytic process is tightly regulated by reversible phosphorylation and binding of regulatory proteins [, , ]. In mammals, there are at least 6 different isoforms of PI-PLC, they differ in their domain structure, their regulation, and their tissue distribution. Lower eukaryotes also possess multiple isoforms of PI-PLC. All eukaryotic PI-PLCs contain two regions of homology, sometimes referred to as the 'X-box' and 'Y-box'. The order of these two regions is always the same (NH2-X-Y-COOH), but the spacing is variable. In most isoforms, the distance between these two regions is only 50-100 residues but in the gamma isoforms one PH domain, two SH2 domains, and one SH3 domain are inserted between the two PLC-specific domains. The two conserved regions have been shown to be important for the catalytic activity. By profile analysis, we could show that sequences with significant similarity to the X-box domain occur also in prokaryotic and trypanosome PI-specific phospholipases C. Apart from this region, the prokaryotic enzymes show no similarity to their eukaryotic counterparts.; GO: 0004629 phospholipase C activity, 0006629 lipid metabolic process, 0035556 intracellular signal transduction; PDB: 2FJU_B 2ZKM_X 3V18_A 3V1H_A 3V16_A 3QR1_D 3EA3_A 3EA1_A 2OR2_A 1T6M_B ....
Probab=25.62 E-value=84 Score=28.36 Aligned_cols=32 Identities=16% Similarity=0.218 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHHHHHhhCCCCeEEEEcCCCCC
Q psy9353 101 EKQTRVFINLCSKFISKSPLEKIGVHCTHGFN 132 (543)
Q Consensus 101 ~e~i~~f~~~v~~fl~~~~~~~V~VHC~~G~~ 132 (543)
.-.+..+++.|.+|+.++|...|++...+-.+
T Consensus 66 ~~~~~dvL~~i~~fl~~~p~E~VIl~~~~~~~ 97 (146)
T PF00388_consen 66 GITFEDVLNDIRDFLFEHPSEPVILSLKHEYS 97 (146)
T ss_dssp EEEHHHHHHHHHHHTTHSTTS-EEEEEEEEST
T ss_pred eEeHHHHHHHHHHHHhcCCCeEEEEEeecccc
Confidence 34678899999999999999999998877543
No 143
>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=25.47 E-value=89 Score=25.97 Aligned_cols=28 Identities=14% Similarity=0.343 Sum_probs=18.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
++..|+|+|..|. |+. . +++++...|+.
T Consensus 65 ~~~~ivv~c~~g~-~s~-~-~~~~l~~~G~~ 92 (106)
T cd01519 65 KDKELIFYCKAGV-RSK-A-AAELARSLGYE 92 (106)
T ss_pred CCCeEEEECCCcH-HHH-H-HHHHHHHcCCc
Confidence 4678999999884 543 3 34545555763
No 144
>cd08620 PI-PLCXDc_like_1 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins. This subfamily corresponds to the catalytic domain present in a group of uncharacterized hypothetical proteins found in bacteria and fungi, which are similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins (PI-PLCXD). The typical eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11) has a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. The catalytic core domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. In contrast, eukaryotic PI-PLCXDs contain a single TIM-barrel type catalytic domain, X domain, and are more closely related to bacterial PI-PLCs, which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidyl
Probab=24.44 E-value=1.2e+02 Score=31.19 Aligned_cols=28 Identities=25% Similarity=0.377 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHhhCCCCeEEEEcCC
Q psy9353 102 KQTRVFINLCSKFISKSPLEKIGVHCTH 129 (543)
Q Consensus 102 e~i~~f~~~v~~fl~~~~~~~V~VHC~~ 129 (543)
..+..+++.|.+|+.++|++.|.++++.
T Consensus 77 ~~l~~~L~~i~~FL~~~p~EvVil~~~~ 104 (281)
T cd08620 77 QGFDTFLQDVVTFLKANPTEIVVVHITW 104 (281)
T ss_pred CcHHHHHHHHHHHHHHCCCcEEEEEEEc
Confidence 4688999999999999999999999974
No 145
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=24.38 E-value=1.3e+02 Score=26.15 Aligned_cols=56 Identities=9% Similarity=0.259 Sum_probs=36.8
Q ss_pred chhHhcccceEEecccccccCCC--------hhhhhcCCcEEEEEEecCCC--CCCChHHHHHHHH
Q psy9353 54 NEKQTRLKIGLWIDLTKTSRFYD--------KSEVEENDIAYIKIQCEGHK--EAPNEKQTRVFIN 109 (543)
Q Consensus 54 ~~es~~~~i~~VIdLt~~~~~y~--------~~~~~~~gi~y~~ip~~dhg--~~P~~e~i~~f~~ 109 (543)
++.+.+.++.+|+|+.....+-+ .+.+...|...+.+||...+ ++-+.++|..|+.
T Consensus 15 ~l~~y~Gkv~LIVNvAs~Cg~t~qy~~L~~L~~ky~~~gl~ILaFPcnqFg~QEp~~~~ei~~~~~ 80 (108)
T PF00255_consen 15 SLSKYKGKVLLIVNVASKCGYTKQYKQLNELYEKYKDKGLEILAFPCNQFGNQEPGSNEEIKEFCK 80 (108)
T ss_dssp EGGGGTTSEEEEEEEESSSTTHHHHHHHHHHHHHHGGGTEEEEEEEBSTTTTTTSSCHHHHHHHHC
T ss_pred CHHHcCCCEEEEEecccccCCccccHHHHHHHHHHhcCCeEEEeeehHHhccccCCCHHHHHHHHH
Confidence 45667778999999876543321 12355579999999999874 3345555555543
No 146
>KOG1089|consensus
Probab=23.66 E-value=1.3e+02 Score=33.82 Aligned_cols=23 Identities=26% Similarity=0.368 Sum_probs=19.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHH
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISY 141 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~y 141 (543)
.+..|+|||.-|..||-.+...-
T Consensus 343 ~~~sVlvhcsdGwDrT~qV~SLa 365 (573)
T KOG1089|consen 343 EGASVLVHCSDGWDRTCQVSSLA 365 (573)
T ss_pred CCCeEEEEccCCcchhHHHHHHH
Confidence 45899999999999998876654
No 147
>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=23.64 E-value=1.4e+02 Score=26.05 Aligned_cols=26 Identities=15% Similarity=0.161 Sum_probs=16.7
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHH
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVE 144 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~ 144 (543)
+++..|+|||..+-.|+. .+|.+|..
T Consensus 66 ~~~~~vv~yC~~sg~rs~-~aa~~L~~ 91 (121)
T cd01530 66 KKRRVLIFHCEFSSKRGP-RMARHLRN 91 (121)
T ss_pred CCCCEEEEECCCccccHH-HHHHHHHH
Confidence 457899999983335544 45556554
No 148
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=23.22 E-value=4.6e+02 Score=30.99 Aligned_cols=65 Identities=26% Similarity=0.251 Sum_probs=43.6
Q ss_pred CCChHHHHHHHHHHHHHHhhCCCCeEEEEcC-CCCChhHHHHHHHHHHhCCCC------------HHHHHHHHHhcCCCC
Q psy9353 98 APNEKQTRVFINLCSKFISKSPLEKIGVHCT-HGFNRTGFLLISYLVEEMNFD------------VSAAIFAFSMARPPG 164 (543)
Q Consensus 98 ~P~~e~i~~f~~~v~~fl~~~~~~~V~VHC~-~G~~RTG~~ia~yLi~~~~~s------------~~~Al~~~~~~R~~~ 164 (543)
.|-.-++...-..+.. ++++.....+|.-| .|+-||++-++--||++ +|- +++|...|...+|.+
T Consensus 165 ~~RyyQ~~AI~rv~Ea-f~~g~~raLlvMATGTGKTrTAiaii~rL~r~-~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~ 242 (875)
T COG4096 165 GPRYYQIIAIRRVIEA-FSKGQNRALLVMATGTGKTRTAIAIIDRLIKS-GWVKRVLFLADRNALVDQAYGAFEDFLPFG 242 (875)
T ss_pred cchHHHHHHHHHHHHH-HhcCCceEEEEEecCCCcceeHHHHHHHHHhc-chhheeeEEechHHHHHHHHHHHHHhCCCc
Confidence 4444444444444444 44444445555544 78899999998889986 542 899999999999954
No 149
>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=22.98 E-value=1e+02 Score=26.70 Aligned_cols=28 Identities=25% Similarity=0.379 Sum_probs=18.8
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNF 148 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~ 148 (543)
.++..|+|+|.+| .|+. .+|.+| ...|+
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 4568899999998 4654 444444 44576
No 150
>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=22.75 E-value=99 Score=25.36 Aligned_cols=29 Identities=10% Similarity=0.066 Sum_probs=19.1
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.++..|+|+|..| +|+..+ +.+| ...|+.
T Consensus 54 ~~~~~ivv~c~~g-~~s~~~-~~~l-~~~G~~ 82 (96)
T cd01529 54 GRATRYVLTCDGS-LLARFA-AQEL-LALGGK 82 (96)
T ss_pred CCCCCEEEEeCCh-HHHHHH-HHHH-HHcCCC
Confidence 4568899999876 566553 4455 445653
No 151
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=22.41 E-value=1.4e+02 Score=24.74 Aligned_cols=28 Identities=4% Similarity=-0.028 Sum_probs=17.7
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
.+..|+|+|..|. |++.+ ++.+...|+.
T Consensus 64 ~~~~vv~~c~~g~-~s~~~--a~~L~~~G~~ 91 (105)
T cd01525 64 KGKIIVIVSHSHK-HAALF--AAFLVKCGVP 91 (105)
T ss_pred cCCeEEEEeCCCc-cHHHH--HHHHHHcCCC
Confidence 3578999999885 65543 3344445663
No 152
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=22.39 E-value=1.1e+02 Score=21.68 Aligned_cols=23 Identities=26% Similarity=0.306 Sum_probs=15.4
Q ss_pred HHHHHHHhCCCCHHHHHHHHHhc
Q psy9353 138 LISYLVEEMNFDVSAAIFAFSMA 160 (543)
Q Consensus 138 ia~yLi~~~~~s~~~Al~~~~~~ 160 (543)
.|..+++..+|.++.|+..|=..
T Consensus 17 ~A~~~L~~~~wdle~Av~~y~~~ 39 (43)
T PF14555_consen 17 VAIQYLEANNWDLEAAVNAYFDD 39 (43)
T ss_dssp HHHHHHHHTTT-HHHHHHHHHHS
T ss_pred HHHHHHHHcCCCHHHHHHHHHhC
Confidence 34444555699999999887554
No 153
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=21.84 E-value=1.3e+02 Score=30.92 Aligned_cols=36 Identities=17% Similarity=0.370 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHh--------hC-CCCeEEEEcCCCCChhHHHH
Q psy9353 103 QTRVFINLCSKFIS--------KS-PLEKIGVHCTHGFNRTGFLL 138 (543)
Q Consensus 103 ~i~~f~~~v~~fl~--------~~-~~~~V~VHC~~G~~RTG~~i 138 (543)
.+.+|++.+..++. +. ..-.|+|=||+|.=||-+++
T Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~i~igCtGG~HRSV~~~ 263 (288)
T PRK05416 219 EVEEFLDKIRDLLEFWLPGYEREGKSYLTIAIGCTGGQHRSVAIA 263 (288)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEecCCCcccHHHHH
Confidence 35566665555443 22 23569999999999998874
No 154
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=21.39 E-value=1.8e+02 Score=24.59 Aligned_cols=28 Identities=18% Similarity=0.362 Sum_probs=18.6
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
++..|+|+|..|. |+.. +++++...|+.
T Consensus 77 ~~~~iv~yc~~g~-~s~~--~~~~l~~~G~~ 104 (118)
T cd01449 77 PDKPVIVYCGSGV-TACV--LLLALELLGYK 104 (118)
T ss_pred CCCCEEEECCcHH-HHHH--HHHHHHHcCCC
Confidence 5678999999873 5443 34555656763
No 155
>PRK13352 thiamine biosynthesis protein ThiC; Provisional
Probab=20.93 E-value=2.7e+02 Score=30.13 Aligned_cols=104 Identities=18% Similarity=0.296 Sum_probs=60.6
Q ss_pred hcccceEEecccccccCCChhhhhcCCcEEEEEEecCCCCCCChHHHH---------------HHHHHHHHHHhhCCCCe
Q psy9353 58 TRLKIGLWIDLTKTSRFYDKSEVEENDIAYIKIQCEGHKEAPNEKQTR---------------VFINLCSKFISKSPLEK 122 (543)
Q Consensus 58 ~~~~i~~VIdLt~~~~~y~~~~~~~~gi~y~~ip~~dhg~~P~~e~i~---------------~f~~~v~~fl~~~~~~~ 122 (543)
++.+..+|.||.... +..++.+.=++...+|+ |.+|=-+.+. .|++.+.+..++ -=..
T Consensus 87 ~~~GADtiMDLStgg---dl~~iR~~il~~s~vpv---GTVPiYqa~~~~~~k~~~~~~mt~d~~~~~ie~qa~~-GVDf 159 (431)
T PRK13352 87 VKYGADTIMDLSTGG---DLDEIRRAIIEASPVPV---GTVPIYQAAVEAARKYGSVVDMTEDDLFDVIEKQAKD-GVDF 159 (431)
T ss_pred HHcCCCeEeeccCCC---CHHHHHHHHHHcCCCCC---cChhHHHHHHHHHhcCCChhhCCHHHHHHHHHHHHHh-CCCE
Confidence 467888999998542 22333332233334444 4566433222 334444443332 2267
Q ss_pred EEEEcC----------------CCCChhHHHHHHHHHHhCCCCHHHHHHHHHhcCCCCCCCHHHHHHHHHHhCCC
Q psy9353 123 IGVHCT----------------HGFNRTGFLLISYLVEEMNFDVSAAIFAFSMARPPGIYKQDYLNELFRRYDDV 181 (543)
Q Consensus 123 V~VHC~----------------~G~~RTG~~ia~yLi~~~~~s~~~Al~~~~~~R~~~i~~~~yi~~L~~~y~~~ 181 (543)
+.|||. .=.+|-|.++++|+++...=+ |-..+-+|+-++.++|.=.
T Consensus 160 mTiHcGi~~~~~~~~~~~~R~~giVSRGGs~~~~WM~~n~~EN-------------Plye~fD~lLeI~~~yDVt 221 (431)
T PRK13352 160 MTIHCGVTRETLERLKKSGRIMGIVSRGGSFLAAWMLHNNKEN-------------PLYEHFDYLLEILKEYDVT 221 (431)
T ss_pred EEEccchhHHHHHHHHhcCCccCeecCCHHHHHHHHHHcCCcC-------------chHHHHHHHHHHHHHhCee
Confidence 999995 235899999999999862222 1122458888899999843
No 156
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=20.88 E-value=85 Score=25.46 Aligned_cols=18 Identities=33% Similarity=0.593 Sum_probs=13.0
Q ss_pred eEEEEcCCCCChhHHHHHH
Q psy9353 122 KIGVHCTHGFNRTGFLLIS 140 (543)
Q Consensus 122 ~V~VHC~~G~~RTG~~ia~ 140 (543)
+|++-|.+|++ |.+|++.
T Consensus 1 kIlvvC~~Gi~-TS~~~~~ 18 (90)
T PF02302_consen 1 KILVVCGSGIG-TSLMVAN 18 (90)
T ss_dssp EEEEEESSSSH-HHHHHHH
T ss_pred CEEEECCChHH-HHHHHHH
Confidence 48999999988 5555443
No 157
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=20.69 E-value=2.2e+02 Score=22.91 Aligned_cols=28 Identities=29% Similarity=0.392 Sum_probs=16.8
Q ss_pred CCCCeEEEEcCCCCChhHHHHHHHHHHhCCC
Q psy9353 118 SPLEKIGVHCTHGFNRTGFLLISYLVEEMNF 148 (543)
Q Consensus 118 ~~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~ 148 (543)
.++..|+|+|..| .+...++.+| ...|+
T Consensus 54 ~~~~~ivv~c~~g--~~s~~a~~~l-~~~G~ 81 (96)
T cd01444 54 DRDRPVVVYCYHG--NSSAQLAQAL-REAGF 81 (96)
T ss_pred CCCCCEEEEeCCC--ChHHHHHHHH-HHcCC
Confidence 3568999999955 2333344444 44465
No 158
>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=20.64 E-value=1.3e+02 Score=24.65 Aligned_cols=28 Identities=21% Similarity=0.356 Sum_probs=18.4
Q ss_pred CCCeEEEEcCCCCChhHHHHHHHHHHhCCCC
Q psy9353 119 PLEKIGVHCTHGFNRTGFLLISYLVEEMNFD 149 (543)
Q Consensus 119 ~~~~V~VHC~~G~~RTG~~ia~yLi~~~~~s 149 (543)
++..|+|+|..| +|+. .+|.+| ...|++
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 357899999988 4554 445555 555663
No 159
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=20.04 E-value=1.3e+02 Score=30.57 Aligned_cols=37 Identities=16% Similarity=0.315 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHhh--------C-CCCeEEEEcCCCCChhHHHHH
Q psy9353 103 QTRVFINLCSKFISK--------S-PLEKIGVHCTHGFNRTGFLLI 139 (543)
Q Consensus 103 ~i~~f~~~v~~fl~~--------~-~~~~V~VHC~~G~~RTG~~ia 139 (543)
++..|++.+..++.. + .--.|+|=||+|.-||-+++=
T Consensus 217 e~~ef~~~l~~~l~~~LP~y~~egks~lTIaIGCTGGqHRSV~iae 262 (286)
T COG1660 217 EVEEFYEKLRDLLEFWLPRYEKEGKSYLTIAIGCTGGQHRSVYIAE 262 (286)
T ss_pred HHHHHHHHHHHHHHHHhHHHHhcCCeEEEEEEccCCCccchHHHHH
Confidence 455666666665532 2 225799999999999988753
Done!