Query psy14505
Match_columns 1619
No_of_seqs 821 out of 6319
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 21:35:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14505.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14505hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13979 DNA topoisomerase IV 100.0 2E-195 4E-200 1871.9 87.0 817 6-878 11-929 (957)
2 COG0188 GyrA Type IIA topoisom 100.0 7E-193 2E-197 1794.7 75.2 798 1-850 1-801 (804)
3 TIGR01063 gyrA DNA gyrase, A s 100.0 3E-189 7E-194 1817.0 86.2 798 8-850 1-799 (800)
4 PRK05560 DNA gyrase subunit A; 100.0 5E-189 1E-193 1819.4 87.3 802 5-851 2-803 (805)
5 TIGR01061 parC_Gpos DNA topois 100.0 1E-179 2E-184 1705.7 77.8 732 8-789 1-736 (738)
6 PRK05561 DNA topoisomerase IV 100.0 2E-174 4E-179 1658.2 72.5 725 1-788 3-737 (742)
7 TIGR01062 parC_Gneg DNA topois 100.0 3E-170 8E-175 1596.5 71.6 708 8-784 1-725 (735)
8 PRK09631 DNA topoisomerase IV 100.0 5E-136 1E-140 1257.3 59.7 612 12-732 3-623 (635)
9 PRK12758 DNA topoisomerase IV 100.0 3E-132 7E-137 1231.9 72.1 692 10-820 20-754 (869)
10 cd00187 TOP4c DNA Topoisomeras 100.0 2E-132 4E-137 1198.8 46.3 444 30-510 1-445 (445)
11 smart00434 TOP4c DNA Topoisome 100.0 6E-126 1E-130 1151.1 45.5 438 11-498 1-443 (445)
12 PRK12269 bifunctional cytidyla 100.0 3E-117 6E-122 1137.5 79.8 742 860-1613 35-859 (863)
13 PHA02592 52 DNA topisomerase I 100.0 3E-117 6E-122 1059.4 42.9 431 8-512 3-439 (439)
14 PF00521 DNA_topoisoIV: DNA gy 100.0 3E-117 7E-122 1082.6 33.7 425 32-508 1-426 (426)
15 PRK09630 DNA topoisomerase IV 100.0 2E-112 5E-117 988.0 45.2 457 12-529 3-465 (479)
16 PLN03128 DNA topoisomerase 2; 100.0 3E-104 7E-109 1032.1 38.5 471 8-514 650-1134(1135)
17 PLN03237 DNA topoisomerase 2; 100.0 3E-101 6E-106 999.9 42.4 477 8-516 675-1167(1465)
18 PTZ00108 DNA topoisomerase 2-l 100.0 8E-100 2E-104 993.7 41.0 474 8-516 657-1143(1388)
19 COG0539 RpsA Ribosomal protein 100.0 7.4E-83 1.6E-87 766.6 53.9 515 1078-1598 14-528 (541)
20 PRK06299 rpsA 30S ribosomal pr 100.0 3E-73 6.6E-78 727.0 61.3 546 1070-1617 15-564 (565)
21 TIGR00717 rpsA ribosomal prote 100.0 2.3E-69 4.9E-74 685.9 57.5 509 1071-1582 4-516 (516)
22 PRK13806 rpsA 30S ribosomal pr 100.0 1.2E-60 2.6E-65 594.3 48.6 424 1082-1509 31-464 (491)
23 COG0539 RpsA Ribosomal protein 100.0 3.4E-60 7.5E-65 570.8 39.1 423 1165-1597 17-448 (541)
24 PRK13806 rpsA 30S ribosomal pr 100.0 3.2E-58 7E-63 572.5 48.4 442 1167-1619 32-491 (491)
25 PRK12269 bifunctional cytidyla 100.0 6.3E-55 1.4E-59 561.7 46.4 417 1082-1503 395-829 (863)
26 PRK06299 rpsA 30S ribosomal pr 100.0 5E-53 1.1E-57 540.8 45.2 414 1167-1589 28-451 (565)
27 TIGR00717 rpsA ribosomal prote 100.0 3.4E-52 7.5E-57 528.8 46.6 412 1082-1499 97-516 (516)
28 COG0283 Cmk Cytidylate kinase 100.0 6.5E-52 1.4E-56 441.6 19.2 213 860-1072 5-219 (222)
29 PRK07899 rpsA 30S ribosomal pr 100.0 1.7E-46 3.7E-51 458.9 40.3 335 1082-1418 32-369 (486)
30 PRK07899 rpsA 30S ribosomal pr 100.0 5E-46 1.1E-50 454.8 34.1 332 1249-1588 28-369 (486)
31 PRK06676 rpsA 30S ribosomal pr 100.0 1.5E-45 3.2E-50 451.5 37.6 364 1249-1619 10-389 (390)
32 PRK06676 rpsA 30S ribosomal pr 100.0 9E-44 2E-48 435.8 41.5 344 1081-1425 13-360 (390)
33 PRK00087 4-hydroxy-3-methylbut 100.0 2.1E-41 4.5E-46 435.7 39.6 368 1050-1418 255-638 (647)
34 PRK00087 4-hydroxy-3-methylbut 100.0 1.9E-40 4E-45 426.8 38.4 342 1156-1505 289-638 (647)
35 PRK11860 bifunctional 3-phosph 100.0 2.9E-38 6.2E-43 408.6 20.3 214 859-1072 442-655 (661)
36 PRK07400 30S ribosomal protein 100.0 1E-34 2.2E-39 341.1 27.5 248 1252-1510 27-276 (318)
37 PF02224 Cytidylate_kin: Cytid 100.0 4.8E-36 1E-40 310.0 12.8 152 917-1068 2-157 (157)
38 TIGR00017 cmk cytidylate kinas 100.0 2.3E-35 4.9E-40 330.2 19.1 210 860-1069 3-216 (217)
39 KOG1070|consensus 100.0 5.4E-34 1.2E-38 357.2 32.5 512 1076-1589 500-1330(1710)
40 KOG0355|consensus 100.0 2.7E-36 5.9E-41 368.1 10.9 167 9-202 645-813 (842)
41 KOG1070|consensus 100.0 6.6E-34 1.4E-38 356.4 25.6 507 1073-1593 144-781 (1710)
42 PRK13477 bifunctional pantoate 100.0 1.2E-34 2.6E-39 355.6 18.8 214 859-1072 284-503 (512)
43 PRK07400 30S ribosomal protein 100.0 8E-32 1.7E-36 316.8 30.6 245 1082-1335 28-275 (318)
44 PRK09518 bifunctional cytidyla 100.0 2.5E-33 5.3E-38 366.1 18.1 211 861-1076 3-235 (712)
45 PRK00023 cmk cytidylate kinase 100.0 1.1E-32 2.4E-37 311.1 19.1 214 860-1073 5-222 (225)
46 PRK13979 DNA topoisomerase IV 100.0 8.9E-30 1.9E-34 331.5 26.3 245 543-795 672-953 (957)
47 TIGR01061 parC_Gpos DNA topois 100.0 4.3E-29 9.3E-34 320.9 23.2 252 609-879 461-718 (738)
48 TIGR01063 gyrA DNA gyrase, A s 99.9 4.6E-27 9.9E-32 306.3 21.7 254 609-880 461-721 (800)
49 PRK05561 DNA topoisomerase IV 99.9 3.8E-26 8.3E-31 294.0 24.8 193 647-852 502-698 (742)
50 PRK05560 DNA gyrase subunit A; 99.9 2.9E-26 6.3E-31 299.5 22.7 225 647-880 493-724 (805)
51 TIGR01062 parC_Gneg DNA topois 99.9 4.9E-25 1.1E-29 280.2 23.8 230 604-852 453-691 (735)
52 COG0188 GyrA Type IIA topoisom 99.9 2.9E-24 6.4E-29 272.3 19.2 259 598-877 457-719 (804)
53 COG1102 Cmk Cytidylate kinase 99.9 4.2E-24 9.2E-29 217.1 11.8 169 860-1075 1-175 (179)
54 KOG0355|consensus 99.9 1.2E-26 2.7E-31 284.0 -32.4 743 7-834 75-829 (842)
55 PF13189 Cytidylate_kin2: Cyti 99.7 5.5E-18 1.2E-22 185.4 5.6 170 861-1056 1-179 (179)
56 cd02020 CMPK Cytidine monophos 99.7 4.2E-16 9E-21 165.0 12.5 147 861-1055 1-147 (147)
57 TIGR02173 cyt_kin_arch cytidyl 99.6 1.3E-15 2.8E-20 165.6 14.9 164 860-1070 1-170 (171)
58 PTZ00248 eukaryotic translatio 99.6 1.8E-17 3.9E-22 190.9 -1.2 148 1338-1487 13-173 (319)
59 PTZ00248 eukaryotic translatio 99.6 1.4E-15 3E-20 175.4 6.4 127 1422-1549 10-145 (319)
60 COG2996 Predicted RNA-bindinin 99.6 2E-13 4.3E-18 149.8 22.5 211 1254-1502 3-219 (287)
61 PRK04182 cytidylate kinase; Pr 99.6 2.6E-14 5.7E-19 156.7 15.4 170 860-1075 1-176 (180)
62 COG1098 VacB Predicted RNA bin 99.4 6E-14 1.3E-18 136.0 4.9 81 1426-1508 3-83 (129)
63 COG2996 Predicted RNA-bindinin 99.4 3.8E-11 8.2E-16 132.1 22.1 212 1167-1417 3-221 (287)
64 cd05705 S1_Rrp5_repeat_hs14 S1 99.3 1.8E-12 4E-17 120.1 8.0 72 1426-1497 1-74 (74)
65 cd05703 S1_Rrp5_repeat_hs12_sc 99.3 3.7E-12 8E-17 117.9 8.6 71 1429-1499 1-72 (73)
66 COG1098 VacB Predicted RNA bin 99.3 1.1E-12 2.5E-17 127.2 4.7 80 1338-1419 2-81 (129)
67 cd05705 S1_Rrp5_repeat_hs14 S1 99.3 7.2E-12 1.6E-16 116.2 8.3 71 1339-1410 1-74 (74)
68 cd05694 S1_Rrp5_repeat_hs2_sc2 99.3 2.1E-11 4.5E-16 112.9 9.6 70 1426-1502 2-72 (74)
69 cd05703 S1_Rrp5_repeat_hs12_sc 99.2 1.8E-11 4E-16 113.2 8.4 71 1342-1412 1-72 (73)
70 cd05694 S1_Rrp5_repeat_hs2_sc2 99.2 7.4E-11 1.6E-15 109.3 9.7 71 1338-1415 1-72 (74)
71 PRK08582 hypothetical protein; 99.2 6.9E-11 1.5E-15 122.9 10.3 81 1426-1508 3-83 (139)
72 PF00575 S1: S1 RNA binding do 99.2 7E-11 1.5E-15 109.9 9.1 73 1426-1499 2-74 (74)
73 cd05698 S1_Rrp5_repeat_hs6_sc5 99.2 6.5E-11 1.4E-15 108.9 8.1 70 1429-1499 1-70 (70)
74 PF00575 S1: S1 RNA binding do 99.2 1E-10 2.2E-15 108.9 9.3 74 1338-1412 1-74 (74)
75 cd05696 S1_Rrp5_repeat_hs4 S1_ 99.1 1.1E-10 2.4E-15 107.6 8.4 69 1429-1498 1-71 (71)
76 cd05697 S1_Rrp5_repeat_hs5 S1_ 99.1 1.4E-10 3E-15 106.4 8.5 69 1429-1498 1-69 (69)
77 PRK08582 hypothetical protein; 99.1 2E-10 4.2E-15 119.5 10.2 81 1339-1421 3-83 (139)
78 cd04461 S1_Rrp5_repeat_hs8_sc7 99.1 1.4E-10 3.1E-15 110.4 8.2 78 1419-1498 6-83 (83)
79 cd05696 S1_Rrp5_repeat_hs4 S1_ 99.1 1.8E-10 3.8E-15 106.2 8.5 69 1342-1411 1-71 (71)
80 cd05690 S1_RPS1_repeat_ec5 S1_ 99.1 1.5E-10 3.3E-15 106.1 7.6 69 1429-1497 1-69 (69)
81 cd05706 S1_Rrp5_repeat_sc10 S1 99.1 3.5E-10 7.6E-15 104.9 10.0 72 1427-1499 2-73 (73)
82 cd05697 S1_Rrp5_repeat_hs5 S1_ 99.1 2.1E-10 4.6E-15 105.2 8.3 69 1342-1411 1-69 (69)
83 cd05704 S1_Rrp5_repeat_hs13 S1 99.1 2E-10 4.3E-15 106.2 7.7 71 1339-1412 1-72 (72)
84 cd04461 S1_Rrp5_repeat_hs8_sc7 99.1 2.2E-10 4.8E-15 109.1 8.1 75 1336-1411 9-83 (83)
85 cd05698 S1_Rrp5_repeat_hs6_sc5 99.1 2.6E-10 5.5E-15 104.9 8.1 70 1342-1412 1-70 (70)
86 cd05689 S1_RPS1_repeat_ec4 S1_ 99.1 2.9E-10 6.3E-15 105.2 8.5 72 1426-1497 1-72 (72)
87 cd05704 S1_Rrp5_repeat_hs13 S1 99.1 3E-10 6.5E-15 105.0 7.9 70 1427-1499 2-72 (72)
88 cd05706 S1_Rrp5_repeat_sc10 S1 99.1 5.6E-10 1.2E-14 103.6 9.7 73 1339-1412 1-73 (73)
89 cd05707 S1_Rrp5_repeat_sc11 S1 99.1 3E-10 6.5E-15 103.9 7.6 68 1429-1497 1-68 (68)
90 PRK07252 hypothetical protein; 99.1 6.1E-10 1.3E-14 112.7 10.1 77 1427-1504 2-78 (120)
91 cd05695 S1_Rrp5_repeat_hs3 S1_ 99.0 6.4E-10 1.4E-14 100.9 8.2 66 1429-1497 1-66 (66)
92 cd05690 S1_RPS1_repeat_ec5 S1_ 99.0 5.6E-10 1.2E-14 102.3 7.6 69 1342-1410 1-69 (69)
93 cd04452 S1_IF2_alpha S1_IF2_al 99.0 1.2E-09 2.5E-14 102.3 9.4 73 1427-1500 2-76 (76)
94 cd05686 S1_pNO40 S1_pNO40: pNO 99.0 1.1E-09 2.4E-14 101.6 9.0 70 1427-1498 2-72 (73)
95 PRK13946 shikimate kinase; Pro 99.0 1.3E-09 2.8E-14 120.2 11.1 158 861-1075 12-179 (184)
96 cd05691 S1_RPS1_repeat_ec6 S1_ 99.0 1.1E-09 2.4E-14 101.5 8.9 72 1429-1501 1-72 (73)
97 cd05708 S1_Rrp5_repeat_sc12 S1 99.0 1.2E-09 2.7E-14 102.3 9.1 73 1428-1501 2-75 (77)
98 cd05693 S1_Rrp5_repeat_hs1_sc1 99.0 5.1E-10 1.1E-14 109.9 6.6 78 1339-1416 1-99 (100)
99 cd05707 S1_Rrp5_repeat_sc11 S1 99.0 8.1E-10 1.8E-14 101.0 7.5 68 1342-1410 1-68 (68)
100 cd05693 S1_Rrp5_repeat_hs1_sc1 99.0 4.1E-10 9E-15 110.6 5.8 76 1427-1502 2-98 (100)
101 PRK07252 hypothetical protein; 99.0 1.5E-09 3.3E-14 109.9 10.1 77 1340-1417 2-78 (120)
102 cd05689 S1_RPS1_repeat_ec4 S1_ 99.0 1.2E-09 2.6E-14 101.1 8.4 72 1339-1410 1-72 (72)
103 cd05686 S1_pNO40 S1_pNO40: pNO 99.0 1.8E-09 3.9E-14 100.2 9.0 70 1340-1411 2-72 (73)
104 cd04452 S1_IF2_alpha S1_IF2_al 99.0 2.6E-09 5.6E-14 99.9 9.3 73 1340-1413 2-76 (76)
105 cd05708 S1_Rrp5_repeat_sc12 S1 98.9 2.9E-09 6.3E-14 99.8 9.3 74 1340-1414 1-75 (77)
106 PRK08059 general stress protei 98.9 2.8E-09 6E-14 109.2 9.8 80 1425-1505 4-83 (123)
107 COG1936 Predicted nucleotide k 98.9 4.4E-09 9.6E-14 110.2 11.2 155 860-1071 1-155 (180)
108 cd05695 S1_Rrp5_repeat_hs3 S1_ 98.9 2.5E-09 5.5E-14 97.0 8.2 66 1342-1410 1-66 (66)
109 PRK05807 hypothetical protein; 98.9 3.8E-09 8.3E-14 109.6 10.3 74 1426-1502 3-76 (136)
110 cd05687 S1_RPS1_repeat_ec1_hs1 98.9 3.2E-09 6.9E-14 97.7 8.7 70 1429-1499 1-70 (70)
111 cd05684 S1_DHX8_helicase S1_DH 98.9 4.2E-09 9E-14 99.4 9.5 73 1429-1503 1-76 (79)
112 cd05691 S1_RPS1_repeat_ec6 S1_ 98.9 3.6E-09 7.8E-14 98.1 8.9 72 1342-1414 1-72 (73)
113 cd05687 S1_RPS1_repeat_ec1_hs1 98.9 4.7E-09 1E-13 96.6 8.6 70 1342-1412 1-70 (70)
114 PRK08059 general stress protei 98.9 5.7E-09 1.2E-13 106.9 9.8 81 1337-1418 3-83 (123)
115 PLN00207 polyribonucleotide nu 98.9 2.4E-09 5.2E-14 138.4 8.4 118 1388-1514 720-838 (891)
116 PRK05807 hypothetical protein; 98.9 9.6E-09 2.1E-13 106.6 10.4 75 1338-1415 2-76 (136)
117 PLN00207 polyribonucleotide nu 98.9 3.4E-09 7.3E-14 137.0 8.3 115 1302-1425 721-836 (891)
118 cd05692 S1_RPS1_repeat_hs4 S1_ 98.9 8E-09 1.7E-13 94.3 8.5 69 1429-1499 1-69 (69)
119 cd05684 S1_DHX8_helicase S1_DH 98.8 1.2E-08 2.6E-13 96.2 9.3 73 1342-1416 1-76 (79)
120 cd04465 S1_RPS1_repeat_ec2_hs2 98.8 1.1E-08 2.3E-13 93.3 8.6 67 1429-1499 1-67 (67)
121 cd05692 S1_RPS1_repeat_hs4 S1_ 98.8 9.7E-09 2.1E-13 93.8 8.1 69 1342-1412 1-69 (69)
122 cd05789 S1_Rrp4 S1_Rrp4: Rrp4 98.8 1.1E-08 2.4E-13 98.2 8.5 74 1427-1501 5-81 (86)
123 cd05685 S1_Tex S1_Tex: The C-t 98.8 9.6E-09 2.1E-13 93.6 7.5 68 1429-1497 1-68 (68)
124 cd04465 S1_RPS1_repeat_ec2_hs2 98.8 1.8E-08 3.8E-13 91.9 9.2 67 1257-1325 1-67 (67)
125 cd05789 S1_Rrp4 S1_Rrp4: Rrp4 98.8 1.6E-08 3.6E-13 97.0 7.9 75 1339-1414 4-81 (86)
126 smart00316 S1 Ribosomal protei 98.7 2.8E-08 6E-13 91.1 8.5 71 1428-1499 2-72 (72)
127 cd05685 S1_Tex S1_Tex: The C-t 98.7 2E-08 4.3E-13 91.5 7.3 68 1342-1410 1-68 (68)
128 PHA02945 interferon resistance 98.7 3.4E-08 7.4E-13 91.2 8.6 72 1427-1502 10-85 (88)
129 cd05688 S1_RPS1_repeat_ec3 S1_ 98.7 2.6E-08 5.6E-13 90.8 7.9 68 1428-1497 1-68 (68)
130 cd04472 S1_PNPase S1_PNPase: P 98.7 4.1E-08 8.9E-13 89.6 8.3 68 1429-1498 1-68 (68)
131 smart00316 S1 Ribosomal protei 98.7 5.4E-08 1.2E-12 89.2 8.5 72 1340-1412 1-72 (72)
132 cd04471 S1_RNase_R S1_RNase_R: 98.7 6.9E-08 1.5E-12 91.9 8.9 71 1428-1498 1-82 (83)
133 PHA02945 interferon resistance 98.7 8.7E-08 1.9E-12 88.6 9.0 72 1254-1328 9-85 (88)
134 cd04472 S1_PNPase S1_PNPase: P 98.7 5.6E-08 1.2E-12 88.7 7.8 68 1342-1411 1-68 (68)
135 PRK13947 shikimate kinase; Pro 98.7 5.5E-08 1.2E-12 106.0 8.8 153 861-1068 3-163 (171)
136 cd05688 S1_RPS1_repeat_ec3 S1_ 98.6 9.9E-08 2.1E-12 87.0 8.8 68 1256-1323 1-68 (68)
137 TIGR02696 pppGpp_PNP guanosine 98.6 4.3E-08 9.3E-13 124.5 8.5 71 1426-1497 645-718 (719)
138 cd04453 S1_RNase_E S1_RNase_E: 98.6 8.6E-08 1.9E-12 92.1 8.5 76 1338-1413 4-83 (88)
139 PRK09521 exosome complex RNA-b 98.6 2E-07 4.3E-12 103.0 12.5 103 1387-1500 27-142 (189)
140 COG1093 SUI2 Translation initi 98.6 5.8E-08 1.3E-12 107.1 8.1 85 1513-1598 9-99 (269)
141 PRK03987 translation initiatio 98.6 8.6E-08 1.9E-12 110.1 9.0 76 1427-1503 7-84 (262)
142 cd05702 S1_Rrp5_repeat_hs11_sc 98.6 1.1E-07 2.4E-12 87.4 7.7 64 1429-1492 1-65 (70)
143 cd04453 S1_RNase_E S1_RNase_E: 98.6 1.3E-07 2.8E-12 90.8 8.2 75 1426-1500 5-83 (88)
144 PRK09521 exosome complex RNA-b 98.6 2.8E-07 6.1E-12 101.8 11.8 103 1300-1413 27-142 (189)
145 TIGR02696 pppGpp_PNP guanosine 98.6 9.3E-08 2E-12 121.5 8.4 72 1338-1410 644-718 (719)
146 cd04473 S1_RecJ_like S1_RecJ_l 98.6 3.3E-07 7.1E-12 86.0 9.8 70 1418-1498 7-76 (77)
147 cd04471 S1_RNase_R S1_RNase_R: 98.6 2.5E-07 5.4E-12 88.1 9.1 71 1341-1411 1-82 (83)
148 PRK08154 anaerobic benzoate ca 98.5 2.3E-07 4.9E-12 110.7 10.5 159 860-1074 134-303 (309)
149 PRK00131 aroK shikimate kinase 98.5 1.7E-07 3.7E-12 102.2 8.6 159 860-1073 5-172 (175)
150 cd04454 S1_Rrp4_like S1_Rrp4_l 98.5 2.8E-07 6E-12 87.6 8.8 72 1427-1500 5-76 (82)
151 PRK03987 translation initiatio 98.5 2.9E-07 6.3E-12 105.8 10.5 86 1512-1598 5-96 (262)
152 cd05702 S1_Rrp5_repeat_hs11_sc 98.5 2.2E-07 4.7E-12 85.5 7.5 64 1342-1405 1-65 (70)
153 COG1093 SUI2 Translation initi 98.5 9.8E-08 2.1E-12 105.3 5.2 76 1255-1330 10-88 (269)
154 cd04473 S1_RecJ_like S1_RecJ_l 98.5 5.3E-07 1.2E-11 84.6 9.5 65 1337-1411 12-76 (77)
155 cd04454 S1_Rrp4_like S1_Rrp4_l 98.5 4.2E-07 9.1E-12 86.4 8.4 73 1339-1413 4-76 (82)
156 cd00164 S1_like S1_like: Ribos 98.4 3.9E-07 8.4E-12 81.7 6.7 65 1432-1497 1-65 (65)
157 PRK11824 polynucleotide phosph 98.4 5.1E-07 1.1E-11 117.9 10.1 76 1337-1414 617-692 (693)
158 PRK11824 polynucleotide phosph 98.4 5E-07 1.1E-11 118.0 9.8 75 1425-1501 618-692 (693)
159 PRK09202 nusA transcription el 98.4 3.2E-06 7E-11 104.6 16.4 121 1109-1237 71-200 (470)
160 COG2183 Tex Transcriptional ac 98.4 2.8E-07 6.2E-12 115.9 7.0 78 1338-1416 655-732 (780)
161 COG2183 Tex Transcriptional ac 98.4 2.6E-07 5.7E-12 116.3 6.7 76 1426-1502 656-731 (780)
162 PRK01184 hypothetical protein; 98.4 9.5E-07 2.1E-11 97.5 9.9 173 860-1074 2-180 (184)
163 cd00164 S1_like S1_like: Ribos 98.4 5.8E-07 1.2E-11 80.6 6.7 65 1345-1410 1-65 (65)
164 PRK09202 nusA transcription el 98.4 9E-07 1.9E-11 109.5 9.9 112 1209-1327 85-201 (470)
165 cd04460 S1_RpoE S1_RpoE: RpoE, 98.3 1.3E-06 2.8E-11 86.3 8.1 79 1430-1509 1-94 (99)
166 PF03989 DNA_gyraseA_C: DNA gy 98.3 1.2E-06 2.7E-11 74.1 5.7 47 701-747 1-47 (48)
167 PF03989 DNA_gyraseA_C: DNA gy 98.3 1.1E-06 2.4E-11 74.4 5.4 47 803-849 1-47 (48)
168 PRK03839 putative kinase; Prov 98.3 5.6E-06 1.2E-10 91.1 12.5 148 861-1072 2-153 (180)
169 PRK04163 exosome complex RNA-b 98.3 7.4E-06 1.6E-10 93.5 13.3 73 1339-1413 61-137 (235)
170 cd04460 S1_RpoE S1_RpoE: RpoE, 98.2 3.3E-06 7.2E-11 83.3 8.2 81 1343-1424 1-96 (99)
171 cd04455 S1_NusA S1_NusA: N-uti 98.2 7.7E-06 1.7E-10 74.6 8.8 64 1255-1324 2-67 (67)
172 PRK04163 exosome complex RNA-b 98.2 1.7E-05 3.6E-10 90.6 13.4 73 1427-1500 62-137 (235)
173 PRK13949 shikimate kinase; Pro 98.1 8.2E-06 1.8E-10 88.8 9.6 150 861-1069 3-168 (169)
174 TIGR03591 polynuc_phos polyrib 98.1 3.3E-06 7.1E-11 110.2 7.5 69 1426-1496 616-684 (684)
175 cd04455 S1_NusA S1_NusA: N-uti 98.1 1E-05 2.3E-10 73.7 8.6 64 1084-1151 2-67 (67)
176 COG1185 Pnp Polyribonucleotide 98.1 3.4E-06 7.5E-11 104.8 6.7 100 1312-1414 586-690 (692)
177 PRK04040 adenylate kinase; Pro 98.1 1.6E-05 3.5E-10 87.9 10.7 170 860-1070 3-187 (188)
178 PRK14733 coaE dephospho-CoA ki 98.1 2.4E-05 5.2E-10 87.2 11.8 185 860-1073 7-199 (204)
179 COG1107 Archaea-specific RecJ- 98.0 6.3E-05 1.4E-09 91.0 15.2 146 1426-1580 120-281 (715)
180 PRK03731 aroL shikimate kinase 98.0 9.2E-06 2E-10 88.6 7.6 152 862-1071 5-169 (171)
181 COG1185 Pnp Polyribonucleotide 98.0 6E-06 1.3E-10 102.7 6.6 100 1399-1501 586-690 (692)
182 cd00464 SK Shikimate kinase (S 98.0 1.5E-05 3.2E-10 85.1 8.4 144 862-1061 2-154 (154)
183 TIGR00448 rpoE DNA-directed RN 98.0 2E-05 4.3E-10 86.4 9.5 81 1427-1508 80-175 (179)
184 PRK13948 shikimate kinase; Pro 98.0 2.4E-05 5.2E-10 85.9 10.0 151 861-1072 12-175 (182)
185 PRK05057 aroK shikimate kinase 98.0 4.1E-05 8.9E-10 83.6 11.8 154 861-1071 6-170 (172)
186 PRK12327 nusA transcription el 98.0 1.1E-05 2.3E-10 96.7 7.5 111 1209-1325 85-199 (362)
187 PRK09631 DNA topoisomerase IV 98.0 6.2E-05 1.3E-09 95.7 14.4 151 648-836 465-625 (635)
188 TIGR03591 polynuc_phos polyrib 98.0 2.6E-05 5.6E-10 101.9 10.9 93 1228-1321 589-683 (684)
189 TIGR00448 rpoE DNA-directed RN 97.9 3.1E-05 6.7E-10 84.9 9.3 82 1339-1421 79-175 (179)
190 PLN02199 shikimate kinase 97.9 5.4E-05 1.2E-09 87.7 11.5 160 861-1075 104-291 (303)
191 PRK14021 bifunctional shikimat 97.9 5.5E-05 1.2E-09 97.0 11.9 154 861-1071 8-175 (542)
192 PRK00081 coaE dephospho-CoA ki 97.9 4.6E-05 9.9E-10 84.9 9.7 183 860-1071 3-192 (194)
193 PRK14730 coaE dephospho-CoA ki 97.9 8.3E-05 1.8E-09 82.9 11.4 182 861-1069 3-191 (195)
194 KOG3354|consensus 97.9 0.00012 2.5E-09 75.4 11.2 172 861-1071 14-187 (191)
195 COG3265 GntK Gluconate kinase 97.9 0.0002 4.2E-09 73.7 12.7 157 866-1072 2-159 (161)
196 COG0703 AroK Shikimate kinase 97.8 2.5E-05 5.4E-10 83.5 6.4 154 862-1072 5-168 (172)
197 PF01202 SKI: Shikimate kinase 97.8 8.1E-06 1.7E-10 87.9 2.7 147 868-1071 1-158 (158)
198 TIGR01953 NusA transcription t 97.8 5.5E-05 1.2E-09 90.3 9.5 112 1209-1327 82-199 (341)
199 PRK06217 hypothetical protein; 97.8 3.8E-05 8.2E-10 84.8 7.7 160 860-1070 2-177 (183)
200 TIGR01360 aden_kin_iso1 adenyl 97.8 0.0002 4.4E-09 79.1 12.8 174 860-1071 4-186 (188)
201 PRK14732 coaE dephospho-CoA ki 97.8 7E-05 1.5E-09 83.4 9.0 185 862-1075 2-193 (196)
202 TIGR01953 NusA transcription t 97.8 0.00037 8E-09 83.4 15.3 107 1125-1237 82-198 (341)
203 TIGR02063 RNase_R ribonuclease 97.8 6E-05 1.3E-09 100.0 9.5 72 1427-1498 626-708 (709)
204 PTZ00451 dephospho-CoA kinase; 97.7 0.00024 5.2E-09 81.4 12.9 189 860-1074 2-209 (244)
205 PRK14734 coaE dephospho-CoA ki 97.7 0.00015 3.3E-09 81.1 11.1 184 860-1073 2-195 (200)
206 PRK11642 exoribonuclease R; Pr 97.7 6.5E-05 1.4E-09 99.6 9.1 74 1427-1500 642-726 (813)
207 PRK12758 DNA topoisomerase IV 97.7 0.00044 9.5E-09 89.5 16.0 154 651-836 484-650 (869)
208 KOG1067|consensus 97.7 3.7E-05 8E-10 92.1 5.9 84 1337-1422 664-747 (760)
209 PRK00625 shikimate kinase; Pro 97.7 0.00032 6.9E-09 76.5 12.6 156 862-1068 3-169 (173)
210 PRK07429 phosphoribulokinase; 97.7 8.2E-05 1.8E-09 89.0 8.6 165 858-1049 7-181 (327)
211 KOG1067|consensus 97.7 4.9E-05 1.1E-09 91.1 5.9 83 1427-1511 667-749 (760)
212 PLN02422 dephospho-CoA kinase 97.6 0.00024 5.1E-09 80.7 10.6 184 861-1073 3-195 (232)
213 PRK14532 adenylate kinase; Pro 97.6 0.00015 3.2E-09 80.4 8.6 171 862-1070 3-185 (188)
214 TIGR00358 3_prime_RNase VacB a 97.6 0.00012 2.6E-09 95.9 9.1 72 1427-1498 571-653 (654)
215 TIGR00152 dephospho-CoA kinase 97.6 0.00015 3.3E-09 80.3 8.4 179 862-1066 2-186 (188)
216 TIGR02063 RNase_R ribonuclease 97.6 0.00015 3.3E-09 96.2 9.5 74 1338-1411 624-708 (709)
217 COG0237 CoaE Dephospho-CoA kin 97.6 0.00049 1.1E-08 76.6 12.0 188 859-1075 2-195 (201)
218 TIGR01359 UMP_CMP_kin_fam UMP- 97.6 0.00034 7.4E-09 77.1 10.8 167 862-1069 2-181 (183)
219 cd02022 DPCK Dephospho-coenzym 97.6 0.00023 5.1E-09 78.2 9.4 149 862-1030 2-156 (179)
220 cd05791 S1_CSL4 S1_CSL4: CSL4, 97.6 0.00021 4.5E-09 69.4 7.7 72 1427-1500 5-86 (92)
221 PLN02200 adenylate kinase fami 97.5 0.00043 9.4E-09 79.3 11.2 173 860-1073 44-225 (234)
222 KOG3347|consensus 97.5 0.00045 9.8E-09 70.9 9.6 115 861-1029 9-125 (176)
223 COG1095 RPB7 DNA-directed RNA 97.5 0.00022 4.7E-09 76.0 7.4 75 1428-1503 81-170 (183)
224 cd05699 S1_Rrp5_repeat_hs7 S1_ 97.5 0.00034 7.3E-09 63.6 7.4 64 1516-1582 1-72 (72)
225 PRK14528 adenylate kinase; Pro 97.5 0.00052 1.1E-08 76.0 10.6 169 861-1068 3-184 (186)
226 PRK11642 exoribonuclease R; Pr 97.5 0.00031 6.7E-09 93.4 10.2 74 1340-1413 642-726 (813)
227 cd05791 S1_CSL4 S1_CSL4: CSL4, 97.5 0.00031 6.7E-09 68.2 7.5 73 1339-1413 4-86 (92)
228 PRK03333 coaE dephospho-CoA ki 97.5 0.00041 8.8E-09 85.6 10.1 202 860-1095 2-213 (395)
229 TIGR00358 3_prime_RNase VacB a 97.5 0.0003 6.6E-09 92.2 9.5 73 1339-1411 570-653 (654)
230 COG1095 RPB7 DNA-directed RNA 97.4 0.00034 7.4E-09 74.6 7.9 76 1255-1330 80-171 (183)
231 PRK08563 DNA-directed RNA poly 97.4 0.00038 8.2E-09 77.1 8.3 78 1427-1505 80-172 (187)
232 cd05699 S1_Rrp5_repeat_hs7 S1_ 97.4 0.00041 9E-09 63.0 6.7 67 1257-1325 1-72 (72)
233 PRK13808 adenylate kinase; Pro 97.4 0.001 2.3E-08 79.1 12.2 175 862-1075 3-196 (333)
234 PRK14731 coaE dephospho-CoA ki 97.4 0.00073 1.6E-08 76.2 10.3 188 859-1074 5-204 (208)
235 PRK12327 nusA transcription el 97.4 0.0026 5.5E-08 76.7 15.4 108 1125-1236 85-199 (362)
236 cd02026 PRK Phosphoribulokinas 97.4 0.0001 2.3E-09 86.3 3.5 93 973-1067 96-191 (273)
237 PRK00279 adk adenylate kinase; 97.4 0.0011 2.3E-08 75.3 11.4 37 861-897 2-38 (215)
238 PRK08118 topology modulation p 97.3 0.00051 1.1E-08 74.6 8.1 97 861-1013 3-101 (167)
239 COG0572 Udk Uridine kinase [Nu 97.3 0.00017 3.7E-09 80.0 4.0 177 858-1056 7-191 (218)
240 PRK14530 adenylate kinase; Pro 97.3 0.00094 2E-08 75.8 9.6 35 861-895 5-39 (215)
241 PRK08563 DNA-directed RNA poly 97.2 0.00082 1.8E-08 74.5 8.4 76 1255-1330 80-171 (187)
242 PRK13975 thymidylate kinase; P 97.2 0.0032 6.8E-08 70.2 13.2 77 991-1073 114-191 (196)
243 KOG3079|consensus 97.2 0.0034 7.4E-08 67.2 12.3 167 860-1069 9-190 (195)
244 PRK13951 bifunctional shikimat 97.2 0.00063 1.4E-08 86.0 7.8 145 861-1067 2-156 (488)
245 PRK02496 adk adenylate kinase; 97.2 0.002 4.3E-08 71.2 10.8 36 861-896 3-38 (184)
246 COG0529 CysC Adenylylsulfate k 97.1 0.0031 6.8E-08 67.0 10.6 67 993-1071 123-190 (197)
247 PHA02858 EIF2a-like PKR inhibi 97.1 0.0011 2.5E-08 61.0 6.1 69 1254-1324 14-85 (86)
248 TIGR01351 adk adenylate kinase 97.1 0.0023 4.9E-08 72.4 10.0 35 862-896 2-36 (210)
249 PHA02858 EIF2a-like PKR inhibi 97.0 0.001 2.2E-08 61.4 5.4 69 1427-1498 15-85 (86)
250 TIGR01313 therm_gnt_kin carboh 97.0 0.007 1.5E-07 65.4 12.8 34 863-896 2-35 (163)
251 PRK06762 hypothetical protein; 97.0 0.006 1.3E-07 66.1 12.2 65 993-1070 98-162 (166)
252 PRK14526 adenylate kinase; Pro 97.0 0.0019 4.2E-08 72.8 8.4 34 862-895 3-36 (211)
253 cd00227 CPT Chloramphenicol (C 97.0 0.0041 8.8E-08 68.2 10.8 35 861-895 4-40 (175)
254 PLN02674 adenylate kinase 96.9 0.0036 7.8E-08 71.8 10.2 37 860-896 32-68 (244)
255 PRK05480 uridine/cytidine kina 96.9 0.0017 3.7E-08 73.2 7.5 184 858-1067 5-203 (209)
256 PRK14531 adenylate kinase; Pro 96.9 0.0053 1.2E-07 67.8 11.2 35 861-895 4-38 (183)
257 PRK03846 adenylylsulfate kinas 96.9 0.0041 8.8E-08 69.6 10.3 36 860-895 25-65 (198)
258 PLN02348 phosphoribulokinase 96.9 0.0039 8.3E-08 75.4 10.6 77 972-1050 162-240 (395)
259 PF01121 CoaE: Dephospho-CoA k 96.9 0.0013 2.8E-08 72.2 6.0 148 860-1030 1-157 (180)
260 PRK05541 adenylylsulfate kinas 96.9 0.009 2E-07 65.5 12.4 37 859-895 7-48 (176)
261 PRK05537 bifunctional sulfate 96.9 0.0046 9.9E-08 79.7 11.4 34 860-893 393-432 (568)
262 PRK10078 ribose 1,5-bisphospho 96.8 0.0042 9.1E-08 68.8 9.3 169 861-1072 4-176 (186)
263 cd02023 UMPK Uridine monophosp 96.8 0.0019 4.2E-08 72.1 6.7 179 861-1067 1-192 (198)
264 COG1097 RRP4 RNA-binding prote 96.8 0.013 2.9E-07 65.3 12.9 73 1427-1500 63-138 (239)
265 PLN02459 probable adenylate ki 96.7 0.0055 1.2E-07 70.7 9.2 37 860-896 30-66 (261)
266 cd04462 S1_RNAPII_Rpb7 S1_RNAP 96.7 0.0081 1.8E-07 57.9 8.9 63 1256-1318 1-74 (88)
267 PRK11545 gntK gluconate kinase 96.7 0.0079 1.7E-07 65.1 9.9 45 866-910 2-46 (163)
268 PRK08356 hypothetical protein; 96.6 0.0042 9E-08 69.4 7.6 35 860-895 6-40 (195)
269 PTZ00301 uridine kinase; Provi 96.6 0.0054 1.2E-07 69.1 8.3 81 973-1055 107-190 (210)
270 COG1097 RRP4 RNA-binding prote 96.6 0.027 5.9E-07 62.9 13.4 75 1339-1414 62-139 (239)
271 PRK05416 glmZ(sRNA)-inactivati 96.6 0.013 2.9E-07 69.0 11.8 30 860-890 7-36 (288)
272 PRK06547 hypothetical protein; 96.6 0.0026 5.6E-08 69.5 5.2 38 858-895 14-51 (172)
273 COG1107 Archaea-specific RecJ- 96.5 0.0059 1.3E-07 74.6 8.3 150 1336-1499 117-283 (715)
274 cd04462 S1_RNAPII_Rpb7 S1_RNAP 96.5 0.0099 2.1E-07 57.3 8.1 64 1428-1493 1-75 (88)
275 PRK05054 exoribonuclease II; P 96.5 0.0073 1.6E-07 79.1 9.4 72 1427-1498 558-643 (644)
276 COG0563 Adk Adenylate kinase a 96.5 0.025 5.5E-07 62.0 12.2 35 861-895 2-36 (178)
277 PRK08233 hypothetical protein; 96.5 0.0085 1.9E-07 65.7 8.6 25 860-884 4-28 (182)
278 PRK15453 phosphoribulokinase; 96.5 0.014 3.1E-07 67.6 10.5 178 859-1056 5-215 (290)
279 TIGR00455 apsK adenylylsulfate 96.5 0.022 4.7E-07 63.0 11.7 36 860-895 19-59 (184)
280 PRK12328 nusA transcription el 96.4 0.0092 2E-07 71.4 9.0 110 1210-1326 90-206 (374)
281 PF03668 ATP_bind_2: P-loop AT 96.4 0.0077 1.7E-07 69.7 8.1 151 861-1070 3-154 (284)
282 PRK14529 adenylate kinase; Pro 96.4 0.0099 2.1E-07 67.4 8.8 36 861-896 2-37 (223)
283 PF07931 CPT: Chloramphenicol 96.4 0.016 3.4E-07 63.2 9.9 159 861-1070 3-173 (174)
284 PRK14527 adenylate kinase; Pro 96.4 0.0081 1.8E-07 66.8 8.0 37 860-896 7-43 (191)
285 PF13207 AAA_17: AAA domain; P 96.4 0.0034 7.3E-08 64.1 4.3 34 861-894 1-34 (121)
286 PRK12328 nusA transcription el 96.3 0.018 3.8E-07 69.1 10.3 75 1082-1160 135-213 (374)
287 cd02029 PRK_like Phosphoribulo 96.3 0.025 5.4E-07 65.2 11.1 177 861-1056 1-209 (277)
288 PRK00889 adenylylsulfate kinas 96.3 0.055 1.2E-06 59.2 13.6 36 860-895 5-45 (175)
289 PF13238 AAA_18: AAA domain; P 96.2 0.018 3.9E-07 59.0 9.0 39 969-1008 69-109 (129)
290 cd01428 ADK Adenylate kinase ( 96.2 0.018 4E-07 63.9 9.6 35 862-896 2-36 (194)
291 TIGR00757 RNaseEG ribonuclease 96.2 0.01 2.2E-07 73.3 7.9 77 1338-1414 22-111 (414)
292 cd02021 GntK Gluconate kinase 96.2 0.063 1.4E-06 57.0 13.1 45 862-906 2-46 (150)
293 PRK09825 idnK D-gluconate kina 96.2 0.061 1.3E-06 59.0 13.2 50 861-910 5-54 (176)
294 KOG2916|consensus 96.2 0.002 4.3E-08 71.3 1.3 80 1254-1333 14-96 (304)
295 PF13509 S1_2: S1 domain; PDB: 96.1 0.024 5.1E-07 50.7 7.5 60 1256-1325 1-61 (61)
296 PRK06696 uridine kinase; Valid 96.1 0.011 2.4E-07 67.4 7.0 39 858-896 21-64 (223)
297 PTZ00088 adenylate kinase 1; P 96.1 0.018 3.8E-07 65.9 8.5 38 860-897 7-44 (229)
298 cd05790 S1_Rrp40 S1_Rrp40: Rrp 96.0 0.033 7.2E-07 53.1 8.4 72 1427-1501 5-76 (86)
299 PF13509 S1_2: S1 domain; PDB: 95.9 0.032 6.8E-07 49.9 7.6 61 1341-1412 1-61 (61)
300 PF00485 PRK: Phosphoribulokin 95.9 0.041 9E-07 61.3 10.5 79 973-1055 107-188 (194)
301 cd05790 S1_Rrp40 S1_Rrp40: Rrp 95.9 0.037 8.1E-07 52.8 8.4 72 1339-1413 4-75 (86)
302 PTZ00162 DNA-directed RNA poly 95.9 0.029 6.2E-07 61.3 8.7 75 1339-1414 79-166 (176)
303 PRK12338 hypothetical protein; 95.8 0.02 4.2E-07 68.0 7.5 38 860-897 5-42 (319)
304 PTZ00162 DNA-directed RNA poly 95.8 0.035 7.5E-07 60.7 8.9 73 1255-1327 80-166 (176)
305 TIGR00757 RNaseEG ribonuclease 95.7 0.022 4.7E-07 70.4 7.8 73 1427-1499 24-109 (414)
306 PRK12329 nusA transcription el 95.6 0.054 1.2E-06 66.0 10.3 75 1083-1160 150-232 (449)
307 TIGR03574 selen_PSTK L-seryl-t 95.6 0.12 2.6E-06 60.0 13.2 69 993-1071 98-168 (249)
308 cd02024 NRK1 Nicotinamide ribo 95.6 0.0078 1.7E-07 66.4 3.0 36 861-896 1-37 (187)
309 TIGR02062 RNase_B exoribonucle 95.6 0.027 5.8E-07 73.8 8.3 71 1427-1497 554-638 (639)
310 KOG2916|consensus 95.5 0.0071 1.5E-07 67.1 2.4 75 1427-1502 15-91 (304)
311 TIGR00235 udk uridine kinase. 95.5 0.074 1.6E-06 60.0 10.7 185 859-1071 6-203 (207)
312 PF01583 APS_kinase: Adenylyls 95.5 0.04 8.7E-07 58.8 7.8 32 860-891 3-39 (156)
313 PF00406 ADK: Adenylate kinase 95.5 0.073 1.6E-06 56.7 9.9 32 866-897 3-34 (151)
314 KOG1856|consensus 95.5 0.013 2.8E-07 76.7 4.6 76 1426-1502 983-1061(1299)
315 PRK05054 exoribonuclease II; P 95.4 0.039 8.5E-07 72.4 9.0 65 1516-1581 562-643 (644)
316 COG1096 Predicted RNA-binding 95.4 0.12 2.5E-06 55.8 10.7 86 1318-1412 46-141 (188)
317 KOG1856|consensus 95.4 0.017 3.7E-07 75.6 5.3 78 1251-1328 980-1061(1299)
318 PRK12329 nusA transcription el 95.3 0.3 6.5E-06 59.8 15.3 108 1126-1237 102-225 (449)
319 COG1660 Predicted P-loop-conta 95.3 0.056 1.2E-06 61.1 8.4 154 861-1072 3-157 (286)
320 PRK07261 topology modulation p 95.3 0.027 5.8E-07 61.5 5.8 97 861-1013 2-101 (171)
321 PF10447 EXOSC1: Exosome compo 95.1 0.046 1E-06 51.7 5.9 61 1427-1487 3-82 (82)
322 COG0557 VacB Exoribonuclease R 95.0 0.052 1.1E-06 72.3 8.2 72 1427-1498 621-703 (706)
323 TIGR02322 phosphon_PhnN phosph 94.9 0.077 1.7E-06 58.2 8.3 86 971-1071 88-177 (179)
324 PF10447 EXOSC1: Exosome compo 94.8 0.067 1.5E-06 50.6 6.3 61 1340-1400 3-82 (82)
325 PRK12339 2-phosphoglycerate ki 94.8 0.33 7.1E-06 54.3 13.0 40 860-899 4-43 (197)
326 COG1096 Predicted RNA-binding 94.8 0.17 3.6E-06 54.6 9.7 88 1404-1500 45-142 (188)
327 TIGR02062 RNase_B exoribonucle 94.8 0.068 1.5E-06 70.1 8.4 71 1340-1410 554-638 (639)
328 COG2019 AdkA Archaeal adenylat 94.8 0.36 7.7E-06 51.4 11.9 165 859-1071 4-187 (189)
329 cd05700 S1_Rrp5_repeat_hs9 S1_ 94.7 0.12 2.6E-06 44.7 6.8 65 1516-1581 1-65 (65)
330 PLN02842 nucleotide kinase 94.6 0.14 3E-06 64.4 10.2 172 864-1076 2-206 (505)
331 PRK05506 bifunctional sulfate 94.4 0.13 2.9E-06 67.9 9.8 37 859-895 460-501 (632)
332 PRK14737 gmk guanylate kinase; 94.1 0.11 2.4E-06 57.6 7.1 86 970-1070 91-182 (186)
333 PHA02530 pseT polynucleotide k 94.0 0.52 1.1E-05 56.3 13.0 35 861-895 4-39 (300)
334 PRK05439 pantothenate kinase; 93.9 0.094 2E-06 62.4 6.4 181 858-1061 85-305 (311)
335 TIGR00041 DTMP_kinase thymidyl 93.8 0.48 1E-05 52.7 11.6 25 860-884 4-28 (195)
336 COG0557 VacB Exoribonuclease R 93.8 0.12 2.7E-06 68.7 8.0 75 1338-1412 619-704 (706)
337 cd02028 UMPK_like Uridine mono 93.8 0.12 2.6E-06 56.9 6.6 35 861-895 1-40 (179)
338 cd02025 PanK Pantothenate kina 93.8 0.49 1.1E-05 53.9 11.6 35 861-895 1-42 (220)
339 PRK00698 tmk thymidylate kinas 93.6 0.29 6.3E-06 54.8 9.5 24 860-883 4-27 (205)
340 PRK09270 nucleoside triphospha 93.6 0.082 1.8E-06 60.6 5.1 43 989-1033 159-201 (229)
341 PRK13973 thymidylate kinase; P 93.6 0.37 8.1E-06 54.6 10.2 31 860-890 4-37 (213)
342 PRK07667 uridine kinase; Provi 93.4 0.11 2.3E-06 58.0 5.5 40 859-898 17-61 (193)
343 KOG1240|consensus 93.3 2.7 5.8E-05 56.5 18.2 190 612-817 1029-1222(1431)
344 PLN02318 phosphoribulokinase/u 93.3 0.063 1.4E-06 68.0 3.6 80 972-1053 157-238 (656)
345 cd02030 NDUO42 NADH:Ubiquinone 93.1 0.22 4.7E-06 56.8 7.5 28 861-888 1-28 (219)
346 cd01672 TMPK Thymidine monopho 92.7 1.1 2.4E-05 49.6 12.3 31 860-890 1-34 (200)
347 KOG3220|consensus 92.6 1 2.3E-05 49.4 11.0 181 860-1068 2-190 (225)
348 PF13671 AAA_33: AAA domain; P 91.8 0.22 4.7E-06 52.2 5.0 37 862-898 2-38 (143)
349 PRK10811 rne ribonuclease E; R 91.2 0.44 9.5E-06 62.8 7.6 76 1340-1415 37-122 (1068)
350 PRK04220 2-phosphoglycerate ki 90.8 0.96 2.1E-05 53.5 9.3 36 860-895 93-128 (301)
351 COG2074 2-phosphoglycerate kin 90.6 1.4 3E-05 50.1 9.6 188 859-1077 89-292 (299)
352 PRK11712 ribonuclease G; Provi 89.9 0.65 1.4E-05 58.7 7.4 78 1338-1415 35-125 (489)
353 PF10246 MRP-S35: Mitochondria 89.1 1.4 3E-05 42.9 7.2 52 1084-1139 22-73 (104)
354 PRK10811 rne ribonuclease E; R 88.9 0.85 1.8E-05 60.3 7.4 75 1427-1501 37-121 (1068)
355 KOG3298|consensus 88.5 2.1 4.6E-05 45.0 8.5 62 1256-1317 81-153 (170)
356 PF08292 RNA_pol_Rbc25: RNA po 88.0 2.2 4.7E-05 43.8 8.3 57 1085-1141 3-75 (122)
357 PRK11784 tRNA 2-selenouridine 87.4 1.9 4.2E-05 52.4 8.8 107 861-1013 143-258 (345)
358 cd01673 dNK Deoxyribonucleosid 86.7 2.9 6.3E-05 46.4 9.3 28 862-889 2-29 (193)
359 TIGR00554 panK_bact pantothena 86.6 0.96 2.1E-05 53.6 5.6 37 859-895 62-105 (290)
360 PLN02924 thymidylate kinase 86.3 2.6 5.7E-05 48.0 8.7 30 858-887 15-44 (220)
361 PRK12337 2-phosphoglycerate ki 86.3 4.3 9.3E-05 50.8 11.1 40 860-899 256-295 (475)
362 PF01745 IPT: Isopentenyl tran 85.7 1.1 2.4E-05 49.9 5.0 127 861-1015 3-145 (233)
363 PRK13976 thymidylate kinase; P 85.4 15 0.00033 41.6 14.2 77 992-1078 126-207 (209)
364 PRK11712 ribonuclease G; Provi 85.2 1.7 3.8E-05 54.9 7.1 73 1427-1499 37-122 (489)
365 cd02027 APSK Adenosine 5'-phos 85.1 2.8 6.1E-05 44.6 7.8 34 862-895 2-40 (149)
366 smart00072 GuKc Guanylate kina 84.7 3.2 6.9E-05 45.9 8.3 86 971-1071 91-181 (184)
367 KOG3409|consensus 84.4 3.5 7.5E-05 43.8 7.6 67 1084-1151 67-146 (193)
368 KOG3409|consensus 83.2 3.7 8.1E-05 43.6 7.2 72 1339-1411 66-146 (193)
369 PF02223 Thymidylate_kin: Thym 83.0 2.5 5.5E-05 46.6 6.6 65 992-1066 120-186 (186)
370 PF08292 RNA_pol_Rbc25: RNA po 82.9 4.7 0.0001 41.5 7.8 60 1256-1315 3-76 (122)
371 PRK14738 gmk guanylate kinase; 81.6 3.2 7E-05 46.8 6.8 67 995-1073 128-195 (206)
372 PLN02165 adenylate isopentenyl 81.5 3.1 6.7E-05 50.1 6.8 34 860-893 44-77 (334)
373 PRK00300 gmk guanylate kinase; 81.2 5.6 0.00012 44.5 8.6 26 859-884 5-30 (205)
374 PRK12442 translation initiatio 80.9 7.4 0.00016 37.1 7.6 66 1344-1414 8-74 (87)
375 TIGR00008 infA translation ini 77.3 11 0.00024 34.5 7.3 60 1344-1408 6-66 (68)
376 KOG3327|consensus 77.2 8.8 0.00019 41.9 7.8 97 968-1077 84-200 (208)
377 cd00200 WD40 WD40 domain, foun 77.0 1.3E+02 0.0028 33.6 26.2 223 539-816 60-287 (289)
378 TIGR03263 guanyl_kin guanylate 76.8 10 0.00022 41.4 8.8 29 861-889 3-31 (180)
379 PRK12442 translation initiatio 76.5 12 0.00025 35.8 7.5 65 1431-1500 8-73 (87)
380 PLN02772 guanylate kinase 75.8 13 0.00028 45.8 9.9 40 839-883 119-159 (398)
381 COG1530 CafA Ribonucleases G a 74.4 4.8 0.0001 51.4 6.0 77 1338-1416 34-117 (487)
382 KOG3298|consensus 74.1 15 0.00033 38.9 8.4 61 1169-1229 81-154 (170)
383 COG0125 Tmk Thymidylate kinase 73.6 6.4 0.00014 44.4 6.2 28 859-886 3-30 (208)
384 PF10246 MRP-S35: Mitochondria 72.2 10 0.00023 37.1 6.2 54 1340-1401 22-75 (104)
385 PRK05800 cobU adenosylcobinami 70.5 21 0.00046 39.0 9.1 118 861-989 3-132 (170)
386 COG3709 Uncharacterized compon 70.0 14 0.00031 39.5 7.1 162 861-1070 7-180 (192)
387 KOG1240|consensus 67.7 34 0.00073 46.8 11.4 161 718-898 1027-1188(1431)
388 PRK00091 miaA tRNA delta(2)-is 67.6 11 0.00023 45.3 6.6 38 860-897 5-44 (307)
389 TIGR00008 infA translation ini 67.0 27 0.00059 32.0 7.4 61 1431-1496 6-67 (68)
390 TIGR01663 PNK-3'Pase polynucle 65.6 25 0.00055 45.3 9.7 34 860-893 370-403 (526)
391 COG4088 Predicted nucleotide k 65.6 43 0.00093 37.5 9.9 35 861-895 3-40 (261)
392 PRK07933 thymidylate kinase; V 65.2 58 0.0013 37.0 11.7 25 860-884 1-25 (213)
393 PF00313 CSD: 'Cold-shock' DNA 64.9 58 0.0013 29.4 9.4 51 1519-1569 1-53 (66)
394 COG4185 Uncharacterized protei 63.3 28 0.00062 37.3 7.8 31 863-893 6-38 (187)
395 cd05700 S1_Rrp5_repeat_hs9 S1_ 62.3 29 0.00063 30.7 6.2 62 1429-1498 1-65 (65)
396 KOG3877|consensus 61.7 5.5 0.00012 45.6 2.4 37 859-895 71-110 (393)
397 PF06414 Zeta_toxin: Zeta toxi 61.1 42 0.0009 37.5 9.5 36 860-895 16-54 (199)
398 PHA00728 hypothetical protein 60.8 9.6 0.00021 37.8 3.6 64 470-550 5-68 (151)
399 PRK15464 cold shock-like prote 60.5 29 0.00064 32.1 6.6 51 1519-1569 5-57 (70)
400 PLN02840 tRNA dimethylallyltra 59.5 13 0.00028 46.3 5.4 39 859-897 21-61 (421)
401 cd00200 WD40 WD40 domain, foun 59.4 2.9E+02 0.0063 30.8 27.5 144 650-821 61-208 (289)
402 COG3896 Chloramphenicol 3-O-ph 59.2 45 0.00097 35.6 8.3 91 963-1069 103-202 (205)
403 TIGR03167 tRNA_sel_U_synt tRNA 57.5 54 0.0012 39.5 10.0 106 862-1012 130-244 (311)
404 KOG1004|consensus 57.0 33 0.00071 38.1 7.2 61 1081-1141 61-123 (230)
405 COG1072 CoaA Panthothenate kin 56.6 34 0.00074 40.0 7.7 26 858-883 81-106 (283)
406 COG4148 ModC ABC-type molybdat 55.6 1.6E+02 0.0036 34.7 12.7 114 1340-1488 230-349 (352)
407 TIGR03575 selen_PSTK_euk L-ser 55.3 77 0.0017 38.7 10.9 34 862-895 2-41 (340)
408 COG0194 Gmk Guanylate kinase [ 55.2 24 0.00052 38.9 5.9 169 860-1070 5-180 (191)
409 KOG1999|consensus 54.9 93 0.002 42.0 11.9 188 1365-1566 237-469 (1024)
410 PTZ00322 6-phosphofructo-2-kin 54.1 29 0.00063 46.4 7.8 33 860-892 216-248 (664)
411 PF04799 Fzo_mitofusin: fzo-li 51.9 32 0.00068 37.3 6.0 54 463-516 113-169 (171)
412 PF08433 KTI12: Chromatin asso 51.1 1.5E+02 0.0032 35.0 12.1 22 861-882 3-24 (270)
413 PRK09507 cspE cold shock prote 51.0 57 0.0012 30.1 6.8 54 1518-1571 3-58 (69)
414 KOG0635|consensus 50.8 89 0.0019 33.1 8.8 27 981-1007 118-145 (207)
415 COG1530 CafA Ribonucleases G a 50.6 19 0.00042 46.0 5.0 74 1427-1502 36-116 (487)
416 PRK06761 hypothetical protein; 50.0 20 0.00043 42.4 4.7 27 860-886 4-30 (282)
417 cd02019 NK Nucleoside/nucleoti 50.0 11 0.00024 34.4 2.1 29 862-890 2-33 (69)
418 PRK10943 cold shock-like prote 49.2 59 0.0013 29.9 6.6 52 1518-1569 3-56 (69)
419 COG0361 InfA Translation initi 49.2 89 0.0019 29.3 7.6 67 1342-1413 6-73 (75)
420 KOG4078|consensus 49.0 40 0.00087 34.7 5.8 53 1083-1139 80-132 (173)
421 PRK15463 cold shock-like prote 48.3 60 0.0013 30.0 6.5 51 1519-1569 5-57 (70)
422 PF04201 TPD52: Tumour protein 48.2 33 0.00071 36.8 5.4 50 456-506 16-65 (162)
423 PRK09937 stationary phase/star 47.1 63 0.0014 30.3 6.5 53 1520-1572 3-57 (74)
424 TIGR01650 PD_CobS cobaltochela 46.8 34 0.00073 41.3 6.0 29 861-889 66-94 (327)
425 TIGR00174 miaA tRNA isopenteny 45.9 22 0.00048 42.2 4.2 34 862-895 2-37 (287)
426 KOG4238|consensus 45.2 1.2E+02 0.0026 36.2 9.7 67 993-1070 152-218 (627)
427 TIGR00382 clpX endopeptidase C 44.2 27 0.00058 43.7 4.8 95 861-965 118-217 (413)
428 COG4148 ModC ABC-type molybdat 44.1 1.1E+02 0.0025 35.9 9.2 114 1255-1401 230-349 (352)
429 KOG1999|consensus 43.1 5.5E+02 0.012 35.2 16.1 58 1426-1483 408-469 (1024)
430 COG1428 Deoxynucleoside kinase 43.1 18 0.00039 40.6 2.7 31 859-889 4-34 (216)
431 PRK06763 F0F1 ATP synthase sub 41.6 4E+02 0.0087 29.7 12.3 49 1517-1569 118-177 (213)
432 PRK13974 thymidylate kinase; P 41.6 1.7E+02 0.0037 33.1 10.4 25 860-884 4-28 (212)
433 PRK06386 replication factor A; 41.5 7.7E+02 0.017 30.4 17.7 163 1364-1537 45-240 (358)
434 PF01712 dNK: Deoxynucleoside 41.5 33 0.00072 36.4 4.4 73 992-1071 69-143 (146)
435 PF00004 AAA: ATPase family as 41.0 21 0.00046 36.2 2.8 28 863-890 2-29 (132)
436 KOG1004|consensus 40.8 82 0.0018 35.1 7.1 63 1339-1403 63-125 (230)
437 TIGR02381 cspD cold shock doma 40.4 78 0.0017 29.0 6.0 51 1520-1570 3-55 (68)
438 PF03459 TOBE: TOBE domain; I 40.0 57 0.0012 29.1 5.1 46 1088-1137 6-57 (64)
439 PRK14998 cold shock-like prote 39.8 92 0.002 29.1 6.4 54 1520-1573 3-58 (73)
440 PRK09169 hypothetical protein; 39.7 40 0.00087 49.4 5.8 34 862-895 2113-2146(2316)
441 cd05701 S1_Rrp5_repeat_hs10 S1 39.5 44 0.00095 30.0 3.9 58 1088-1145 3-64 (69)
442 KOG2911|consensus 39.3 2.1E+02 0.0045 35.6 10.8 91 380-512 289-384 (439)
443 PRK09890 cold shock protein Cs 39.0 1.2E+02 0.0026 28.1 7.0 50 1519-1569 5-57 (70)
444 PLN02748 tRNA dimethylallyltra 38.1 46 0.001 42.3 5.5 37 859-895 22-60 (468)
445 KOG1539|consensus 37.6 1.2E+03 0.026 31.6 20.0 130 700-851 124-255 (910)
446 PHA00729 NTP-binding motif con 37.3 89 0.0019 35.8 7.1 26 860-885 18-43 (226)
447 PRK10354 RNA chaperone/anti-te 36.4 1.3E+02 0.0028 27.8 6.8 50 1519-1569 5-57 (70)
448 PHA02575 1 deoxynucleoside mon 36.3 46 0.001 37.9 4.6 37 860-897 1-38 (227)
449 COG0645 Predicted kinase [Gene 34.1 2.4E+02 0.0051 30.9 9.2 34 862-895 4-37 (170)
450 KOG4010|consensus 33.9 74 0.0016 34.6 5.3 39 465-503 39-77 (208)
451 KOG3013|consensus 33.3 78 0.0017 36.2 5.6 69 1081-1150 81-162 (301)
452 cd04458 CSP_CDS Cold-Shock Pro 33.0 1.7E+02 0.0037 26.2 7.0 51 1520-1570 2-54 (65)
453 KOG1539|consensus 33.0 1.4E+03 0.03 31.0 22.8 149 592-768 124-274 (910)
454 PF08317 Spc7: Spc7 kinetochor 32.5 8.5E+02 0.019 29.5 15.1 23 180-202 9-32 (325)
455 KOG0744|consensus 31.4 68 0.0015 38.3 5.0 30 861-890 179-208 (423)
456 PF01330 RuvA_N: RuvA N termin 31.0 1.3E+02 0.0028 26.9 5.7 44 1088-1137 4-48 (61)
457 KOG3078|consensus 31.0 42 0.00092 38.4 3.3 37 860-896 16-52 (235)
458 COG0361 InfA Translation initi 30.7 2.4E+02 0.0052 26.6 7.4 67 1516-1582 6-72 (75)
459 PRK04012 translation initiatio 30.7 2.1E+02 0.0046 28.5 7.6 66 1341-1412 19-85 (100)
460 TIGR02894 DNA_bind_RsfA transc 29.3 1.8E+02 0.0038 31.4 7.2 44 355-399 47-91 (161)
461 PRK13711 conjugal transfer pro 29.1 31 0.00067 32.2 1.4 19 165-183 27-47 (113)
462 KOG3308|consensus 28.6 82 0.0018 35.2 4.7 47 859-905 4-51 (225)
463 TIGR01223 Pmev_kin_anim phosph 28.3 1.7E+02 0.0036 32.3 7.0 44 861-907 1-48 (182)
464 PF00313 CSD: 'Cold-shock' DNA 28.1 3.6E+02 0.0077 24.2 8.2 49 1346-1399 2-53 (66)
465 PF03112 DUF244: Uncharacteriz 27.8 1.6E+02 0.0034 31.1 6.2 41 449-489 61-103 (158)
466 PF07076 DUF1344: Protein of u 27.2 2.7E+02 0.0059 25.2 6.7 56 1518-1580 4-59 (61)
467 PF04762 IKI3: IKI3 family; I 27.2 5.5E+02 0.012 36.0 13.4 122 687-815 20-154 (928)
468 PRK15464 cold shock-like prote 26.9 1.6E+02 0.0034 27.3 5.6 50 1345-1399 5-57 (70)
469 KOG0733|consensus 26.9 2.9E+02 0.0064 36.0 9.6 65 864-936 228-292 (802)
470 PRK09507 cspE cold shock prote 26.6 2E+02 0.0043 26.5 6.3 52 1344-1400 3-57 (69)
471 COG2100 Predicted Fe-S oxidore 26.1 1.7E+02 0.0036 35.0 6.8 80 1451-1536 329-412 (414)
472 COG0324 MiaA tRNA delta(2)-iso 25.5 2.8E+02 0.0061 33.4 8.9 34 860-893 4-37 (308)
473 TIGR00638 Mop molybdenum-pteri 25.5 1.7E+02 0.0038 26.2 5.8 49 1087-1139 7-61 (69)
474 PF13521 AAA_28: AAA domain; P 25.4 38 0.00083 36.3 1.7 27 862-889 2-28 (163)
475 COG3879 Uncharacterized protei 24.9 2.8E+02 0.0061 32.1 8.3 66 471-556 58-127 (247)
476 cd05793 S1_IF1A S1_IF1A: Trans 24.7 2.8E+02 0.0061 26.2 7.0 63 1345-1413 2-65 (77)
477 cd05701 S1_Rrp5_repeat_hs10 S1 24.7 1.1E+02 0.0025 27.5 4.0 57 1258-1315 2-61 (69)
478 COG1579 Zn-ribbon protein, pos 24.6 1E+03 0.022 27.6 12.8 17 561-577 179-195 (239)
479 KOG4212|consensus 24.4 1E+02 0.0023 37.6 5.0 61 259-323 47-109 (608)
480 PRK13020 riboflavin synthase s 24.2 6.8E+02 0.015 28.4 11.2 152 1308-1482 10-181 (206)
481 COG1219 ClpX ATP-dependent pro 24.2 1.6E+02 0.0034 35.3 6.2 96 862-967 100-200 (408)
482 PRK10943 cold shock-like prote 24.1 2.3E+02 0.0049 26.2 6.1 51 1344-1399 3-56 (69)
483 PF09883 DUF2110: Uncharacteri 24.1 2.9E+02 0.0062 31.3 7.9 107 1050-1162 43-157 (225)
484 KOG0319|consensus 23.8 1.9E+03 0.04 29.4 18.7 259 523-821 55-355 (775)
485 cd00544 CobU Adenosylcobinamid 23.7 3.4E+02 0.0073 29.7 8.5 119 862-990 2-133 (169)
486 COG5184 ATS1 Alpha-tubulin sup 23.6 7.7E+02 0.017 31.3 12.2 170 534-716 177-365 (476)
487 KOG1920|consensus 23.6 2.1E+02 0.0045 39.8 7.9 68 689-759 69-138 (1265)
488 PRK05339 PEP synthetase regula 23.5 1.4E+02 0.003 35.1 5.8 86 975-1071 174-263 (269)
489 PHA03011 hypothetical protein; 23.2 2.4E+02 0.0053 27.6 6.2 66 449-516 52-117 (120)
490 COG2106 Uncharacterized conser 23.1 3.9E+02 0.0085 31.4 9.1 66 1321-1400 85-150 (272)
491 KOG1920|consensus 22.9 2E+02 0.0043 40.0 7.6 61 788-848 66-128 (1265)
492 PF00780 CNH: CNH domain; Int 22.1 1.2E+03 0.027 26.8 18.0 68 588-676 3-70 (275)
493 COG1066 Sms Predicted ATP-depe 22.0 4.1E+02 0.0089 33.2 9.4 136 861-1007 95-253 (456)
494 PF07238 PilZ: PilZ domain; I 21.8 5.2E+02 0.011 24.4 8.8 76 1514-1594 20-97 (102)
495 PF12325 TMF_TATA_bd: TATA ele 21.7 9E+02 0.02 25.0 12.4 47 470-516 68-114 (120)
496 PTZ00464 SNF-7-like protein; P 21.5 7.8E+02 0.017 28.0 11.0 50 465-514 119-173 (211)
497 smart00806 AIP3 Actin interact 21.5 1.4E+02 0.0031 36.9 5.5 44 470-513 250-294 (426)
498 PRK15463 cold shock-like prote 21.3 2.4E+02 0.0052 26.1 5.7 50 1345-1399 5-57 (70)
499 PF11197 DUF2835: Protein of u 21.1 2E+02 0.0044 26.5 5.1 44 803-846 21-66 (68)
500 KOG4078|consensus 21.1 1.5E+02 0.0033 30.7 4.6 54 1340-1401 81-134 (173)
No 1
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=1.7e-195 Score=1871.89 Aligned_cols=817 Identities=38% Similarity=0.620 Sum_probs=771.6
Q ss_pred ccceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchH
Q psy14505 6 KEVISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSI 85 (1619)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~ 85 (1619)
++|.+++|+++|+++|++||||||++|||||+|||||||||||||||+++|++++++|+||||+||+|||+||||||+|+
T Consensus 11 ~~i~~~~~~~~~~~~yl~Ya~~vi~~RAlPd~rDGLKPvqRrILyam~~~~~~~~~~~~K~A~ivG~v~g~YHPHGd~si 90 (957)
T PRK13979 11 NNIIKIPLEEAMPENYLPYAVEVAKDRALPDVRDGLKPVHRRILYGAYMLKAFPDKPYYKSARIVGDILGKYHPHGDSSV 90 (957)
T ss_pred CceeeecHHHHHHHHHHHhHHHHHHhhcCCccccCCCchHhHHHHHHHHcCCCCCCCceeehhhHHhHHhccCCCchHHH
Confidence 36889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCce
Q psy14505 86 YDALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPN 165 (1619)
Q Consensus 86 ~~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~ 165 (1619)
|||||||||+|+||||||||||||||+|||+||||||||||||++++.||+|+|++||+|+|||||++.||+||||+|||
T Consensus 91 y~alvrmaQ~f~~~~plidg~GnFGs~dgd~~AA~RYte~rl~~~a~~~~~d~d~~~v~~~~n~d~~~~EP~vlp~~~P~ 170 (957)
T PRK13979 91 YDAMVILAQDFTTRMPLIDGHGNWGSIDGDSAAAMRYTEARLTPIAMEMLRDIDKDVVNMVDNYSDSEKEPEVLPARYPN 170 (957)
T ss_pred HHHHHHHhhhccccceeEeCCCCCCCCCCCchhhhhhhhhcchHHHHHHhhccCccccccccCCCCCeeccccccccCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEE
Q psy14505 166 LLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAK 245 (1619)
Q Consensus 166 ~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~ 245 (1619)
||||||+|||||||||||||||.|||+||+++|++|+++.++||+++|||||||||+|.+.+|+.++|+||+|++.+||+
T Consensus 171 lLvNG~~GIavG~aT~Ipphnl~evi~a~~~~i~~~~~~~~~l~~~~~gpDfptGg~i~~~~~i~~~y~tg~G~~~~r~k 250 (957)
T PRK13979 171 LLVNGAFGIAVGLATNIPPHNLKEVIDGTLAYIDNNEITTKELMNYIKGPDLPTGGILIGKKSLLSAYETGEGKVTLRAK 250 (957)
T ss_pred eeecCCcceeeeeecCCCCCCHHHHHHHHHHHhcCCCCCHHHHhhhccCCCCCCCeEEECchhHHHHhhcCCCCEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccC----cCCcceeecccCCcceEEEEEecCCCCH---HHHHH
Q psy14505 246 THIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKK----LECISNLRDESDKSGMRIVIELKRNEIP---EIVLN 318 (1619)
Q Consensus 246 ~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~----~~~i~~~~d~s~~~~~~i~i~lk~~~~~---~~~~~ 318 (1619)
+++|.. ..++++|+||||||++|+++|+++|++++.+++ +++|+|+|||||++|+||+|++|+++++ +.+++
T Consensus 251 ~~~e~~-~~~~~~ivitEiPy~~~~~~~~~~i~~l~~~~~~~~~~~~i~~~~desd~~g~rivi~lk~~~~~~~~~~v~~ 329 (957)
T PRK13979 251 TKIEKL-ENGRLGIVITEFPYRRNKAKLLQTISEMTADKKHSKALENISDIRDESDRNGIRAVIEFKKSADEDVAEKVLK 329 (957)
T ss_pred EEEEEc-CCCceEEEEEccCCcccHHHHHHHHHHHHhcccccccCccccchhhccCCCceEEEEEECCCCCcccHHHHHH
Confidence 999864 356778999999999999999999999998876 8999999999999999999999999875 88999
Q ss_pred HHHhhcccccceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHH
Q psy14505 319 KLYKQTQLQNTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIR 398 (1619)
Q Consensus 319 ~l~k~t~l~~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir 398 (1619)
+|||+|+||++|++||++|++|+|+.+++++||++|++||+++|+||++|+|+|+++|+||||||++|+++||+||++||
T Consensus 330 ~L~~~t~l~~~~~~n~~~~~~~~p~~~~l~~il~~~~~~r~~~~~rr~~~~l~k~~~r~~i~eGl~~a~~~id~vi~~ir 409 (957)
T PRK13979 330 YLYKKTDLQCNISFNMVALADGKPETMGLKTMLKHYVEHQKEVVTRRTKKELEIAEKRFHIVEGFIKAIGIMDEIIKTIR 409 (957)
T ss_pred HHHHhCCCeeEeeeeEEEEECCEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHH
Q psy14505 399 STSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINK 478 (1619)
Q Consensus 399 ~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e 478 (1619)
+|+++++|+++||++ |+||+.||+|||+|||||||+||+++|++|
T Consensus 410 ~s~~~~~a~~~l~~~-----------------------------------f~~s~~qa~aIl~mrL~~Lt~le~~kl~~E 454 (957)
T PRK13979 410 SSKSKKDASENLIEK-----------------------------------FGFTDEQAEAILELMLYRLTGLEIVAFEKE 454 (957)
T ss_pred cCCCHHHHHHHHHHH-----------------------------------hCCCHHHHHHHHhCcHHhhhhhHHHHHHHH
Confidence 999999999999986 999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccc--cCCCCccccccCcceEEEEccCccEEe
Q psy14505 479 YENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILN--AINPSTEDLIASQDMVITLSNLGYIKS 556 (1619)
Q Consensus 479 ~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~--~~~~~~~~li~~e~~~v~ls~~GyiKr 556 (1619)
+++|+++|++|++||+|+++++++|++||.+++++||+ ||||+|.++ +.+++.+++|++|+++|++|++|||||
T Consensus 455 ~~eL~~~I~~l~~iL~~~~~l~~vi~~EL~eik~kygd----~RRT~I~~~~~~~~i~~edlI~~E~v~v~lS~~GyIKr 530 (957)
T PRK13979 455 YKELEKLIKKLTKILSSEKELLKVIKKELKEVKEKYGD----ERRTSIIEDDEKAKIDVEELIVVEDVVITLSNEGFIKR 530 (957)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC----CCCeeeccccccccCCHhHcCCCcceEEEEecCCEEEE
Confidence 99999999999999999999999999999999999999 999999764 346888999999999999999999999
Q ss_pred ccCchhhhcccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceeccc-CC-CCc
Q psy14505 557 QPISEYRAQKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFS-LK-NKE 634 (1619)
Q Consensus 557 ~~~~~~~~~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~-l~-~~e 634 (1619)
++.++|+.|++| .++++++++|.+.+++.|+|||+|+||||.||+|++++|+||+++|+++|.|+.++++ ++ ++|
T Consensus 531 ~~~~~~~~q~~g---~~~~~~ke~D~i~~~~~~~T~d~LL~FTn~Gkvy~ikvy~IPe~~~~~~G~~I~nll~~~~~~~E 607 (957)
T PRK13979 531 IPLKSYNRSNSN---VEDIEYREGDFNKFLIQSNTKDTLLIFTDKGNMYQIKGINIPEFKWKEKGERLDEIIKGIDLESE 607 (957)
T ss_pred cccccccccccc---ccccccCCCCceEEEEEEcCCCEEEEEECCCeEEEEEeeeCCCCCcCCCCeEHHHhhhccCCCCC
Confidence 999999888665 6678899999999999999999999999999999999999999999999999999996 76 699
Q ss_pred eEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCC---CeEEEEeCCce
Q psy14505 635 KITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGS---YDIMLFSDSGK 711 (1619)
Q Consensus 635 ~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~---d~lll~T~~G~ 711 (1619)
+|++++++ +++.++.+++++|++|++||+++++|...++ |+.+++|+++|+|+.+..+++. +.|+++|++|+
T Consensus 608 kIv~i~~~----~ef~~~~~lv~~Tk~G~VKrt~L~ef~~~r~-~~~aikL~e~DeLV~v~~~~~~~~~~~Iil~Tk~G~ 682 (957)
T PRK13979 608 KIIEAYSI----EDFTPQKDFIFITDSGGIKKTSLDKFVTNYT-KLMALKLKKGEKLIKVKLVDRTREEKFIKIKTKKGL 682 (957)
T ss_pred eEEEEEEe----ccCCCCCEEEEEECCCeEEEEehhhcccccc-ceEEEEcCCCCEEEEEEEcCCCCCCCEEEEEeCCCc
Confidence 99999998 4666677899999999999999999987765 7999999999999999999864 56999999999
Q ss_pred EEEEecccccccCCCCCCccceecCCCCEEEEEEEecC------------------------------------------
Q psy14505 712 AVRFNENSVRAMGRSARGVIGMRLEKKQKVIALLVSNN------------------------------------------ 749 (1619)
Q Consensus 712 ~~~~~~~eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~------------------------------------------ 749 (1619)
+++|+..+||++||.++||++|+|.+||+|+++.++++
T Consensus 683 airF~~~eVr~mGR~a~GVkgI~L~~~D~Vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~T~d~Ll~FTn 762 (957)
T PRK13979 683 SFTVEEPELEPVDRNIIGYQLFDLLPNDSIKKVDFCDNYEYKEFYVNINKKGIIKISDKDNKSSISVFTNSSKNLLIFSD 762 (957)
T ss_pred EEEEEHHHCcccCCCCcCeeeEeeCCCCEEEEEEEEhhhhhcchhhhcccccceeecccccccccceeecCCceEEEEec
Confidence 99999999999999999999999999999998877541
Q ss_pred ---------------------------------------------CCCcEEEEEecCceeEEecccccccccccccceee
Q psy14505 750 ---------------------------------------------QKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISI 784 (1619)
Q Consensus 750 ---------------------------------------------~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~i 784 (1619)
.+.+++++|++|++||+++++|...+| |..+|
T Consensus 763 ~Gkvy~ikv~eIPe~~~kG~~i~nll~~l~~~E~Ii~i~~~~~~~~~~~Ll~vTk~G~iKRt~lsef~~~rr---~~~ai 839 (957)
T PRK13979 763 EGKVYKIPAFMLQNIKNEGINISALTGDFEKDEKIIKIISIFEFEEDLSIYFFSKKGLVKKTLLNEFKGEGN---STQAY 839 (957)
T ss_pred CCeEEEEEeeecccccccCcCHHHhhcccCCCCeEEEEEeecccCCCceEEEEecCCcEEEeEHHHhcccCC---CeEEE
Confidence 123689999999999999999998765 47899
Q ss_pred eeccCCCeEEEEEEec-CCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEeeccccccccccEEE
Q psy14505 785 KTNKRNGKVVAATLVN-RYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLCKITMIKKYIPVIT 863 (1619)
Q Consensus 785 kl~~~~d~Lv~~~~~~-~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~~~~~~k~~~~iIt 863 (1619)
+|++++|+|++|..++ ++++++++|++|+++||++++||++||.|+||++|+|+++|+|+++..+...+ ...++++|
T Consensus 840 kLke~~DeLV~v~~v~~~~~eIvL~T~~G~~iRf~~~eIr~~GR~A~GVk~I~L~~~D~Vv~~~~i~~~~--~~~ll~iT 917 (957)
T PRK13979 840 KFKHKEDELVNVDIKEHEEKNILLITEKGMAIRFKSEAVNPMGKIASGVTGISLKDEDKVIYGSIIDEND--TRKIKLKS 917 (957)
T ss_pred EecCCCCeEEEEEEecCCCCEEEEEECCCeEEEEEhHHCCcccccCCCeEEEEeCCCCEEEEEEEEcCCC--CceEEEEE
Confidence 9987579999999998 68899999999999999999999999999999999999999999999885321 11356677
Q ss_pred ecCCcCCCCchhHHH
Q psy14505 864 IDGPTASGKGTVAQL 878 (1619)
Q Consensus 864 i~g~~gsGK~~~~~~ 878 (1619)
..|.||++....
T Consensus 918 ---e~G~gKr~~~~e 929 (957)
T PRK13979 918 ---KAKDKGEIEIKD 929 (957)
T ss_pred ---cCCceEEeEHHH
Confidence 458899887765
No 2
>COG0188 GyrA Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=7e-193 Score=1794.75 Aligned_cols=798 Identities=56% Similarity=0.889 Sum_probs=770.8
Q ss_pred CchhhccceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCC
Q psy14505 1 MNQFAKEVISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPH 80 (1619)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhph 80 (1619)
|+.....+.+++|+++|+++|++||||||++|||||+|||||||||||||||+++|++|+++|+||||+||+|||+||||
T Consensus 1 m~~~~~~i~~v~i~~e~~~syl~YAmsVIv~RALPdVRDGLKPVqRRILYaM~e~gl~~d~~~kKsAriVGdvmGkyHPH 80 (804)
T COG0188 1 MSDPSEEIEPIDIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVQRRILYAMFELGLTPDKKYKKSARIVGDVMGKYHPH 80 (804)
T ss_pred CCCcccccccccHHHHHHHHHHHHHHHHHhhccCCccccCCccHHHHHHHHHHHcCCCCCCCchhhhhhHHhhcccCCCC
Confidence 55555568999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchHHHHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceec
Q psy14505 81 GDVSIYDALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLP 160 (1619)
Q Consensus 81 gd~s~~~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~ 160 (1619)
||+|+|||||||||+||+|||||||||||||+|||+|||||||||||||+|.+|+.++|++||+|+|||||++.||+|||
T Consensus 81 GDssiYdalVRMAQdfs~RypLVdgqGNFGSiDgD~aAAMRYTEaRLs~ia~elL~di~kdtVdf~~NyDg~~~EP~VLP 160 (804)
T COG0188 81 GDSSIYDALVRMAQDFSLRYPLVDGQGNFGSIDGDPAAAMRYTEARLSKIAEELLEDIDKDTVDFVPNYDGSEKEPEVLP 160 (804)
T ss_pred CchHHHHHHHHHhhhhhhcCcceecCCCCCCCCCChHHHHHHHHhhchHHHHHHHhccccCeeecccCCCCCccCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEE
Q psy14505 161 TRIPNLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRV 240 (1619)
Q Consensus 161 ~~~P~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~ 240 (1619)
++|||||+|||+|||||||||||||||.|||+||+++|+||++++++||+++|||||||||+|.|..||.++|+||+|++
T Consensus 161 a~~PnLLvNGssGIAVGmATnIPPHNl~Evida~~~li~np~~~~~~lm~~i~GPDFPTgg~I~g~~~I~~aY~tGrG~i 240 (804)
T COG0188 161 ARFPNLLVNGSSGIAVGMATNIPPHNLGEVIDALIALIDNPDATIDELMEIIKGPDFPTGGIIIGRSGIREAYETGRGSI 240 (804)
T ss_pred ccCCeeEeccCCceecceecCCCCCCHHHHHHHHHHHHcCCCCchhhhhhccCCCCCCCcceEecchhhHHHHccCCceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeEEEEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHH
Q psy14505 241 IIRAKTHIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKL 320 (1619)
Q Consensus 241 ~~~~~~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l 320 (1619)
.+||+|++|.. ..++++|+||||||++|+++++|+|++++++|++.||+++|||||++|+||||++|+++.++.++|+|
T Consensus 241 ~vRa~~~iE~~-~~gr~~IvItEiPyqvnka~lie~Iaelv~~kki~gis~vrDEsdr~giRivIelk~~~~~~~vln~L 319 (804)
T COG0188 241 RVRAKAEIEDT-KNGREQIVITEIPYQVNKAKLIEKIAELVKEKKIEGISDIRDESDREGIRIVIELKRDAVAEVVLNNL 319 (804)
T ss_pred EEEEEEEEEec-CCCceEEEEEecCccccHHHHHHHHHHHHhcCCccCcccccccccCCCeEEEEEECCccchHHHHHHH
Confidence 99999999975 36889999999999999999999999999999999999999999999999999999999988999999
Q ss_pred HhhcccccceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcC
Q psy14505 321 YKQTQLQNTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRST 400 (1619)
Q Consensus 321 ~k~t~l~~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s 400 (1619)
||+|+||++|++||+++++|+|+++|+++||++|++||+++++||++|+|+|+++|+|||+||++|+++||+||++||+|
T Consensus 320 fk~T~LQ~~f~~nm~ai~~~~P~~~~L~~iL~~~~~hr~~vi~rR~~~~L~Ka~~R~hileGl~~a~~~iDevI~iIr~s 399 (804)
T COG0188 320 FKLTDLQTSFNVNMLALVNGRPKVLNLKEILSEFLEHRLEVVTRRTEYELNKAEERLHILEGLLIALLNIDEVIEIIRES 399 (804)
T ss_pred HHhchHHhhhCceeEEecCCcceecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHH
Q psy14505 401 STPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYE 480 (1619)
Q Consensus 401 ~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~ 480 (1619)
++..+|++.||++ |+||+.||+|||+|||||||+||++++++|++
T Consensus 400 ~~~~~a~~~L~~~-----------------------------------f~lse~Qa~aIl~mrL~rLt~le~~~i~~E~~ 444 (804)
T COG0188 400 KDKPEAKEELMAR-----------------------------------FGLSEKQAEAILDLRLRRLTGLEEEKIEKELK 444 (804)
T ss_pred CCchHHHHHHHHH-----------------------------------cCCcHHHHHHHHhhhHHHhhcchHHHHHHHHH
Confidence 9999999999986 99999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccccC-CCCccccccCcceEEEEccCccEEeccC
Q psy14505 481 NVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNAI-NPSTEDLIASQDMVITLSNLGYIKSQPI 559 (1619)
Q Consensus 481 ~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~-~~~~~~li~~e~~~v~ls~~GyiKr~~~ 559 (1619)
+|+++|++|++||+|++++++++++||.+++++||+ +|||+|..... +++.+++|++|+++|++|+.||+||+++
T Consensus 445 ~L~~~i~~l~~iL~s~~~~~~~i~~eL~~~~~k~gd----~Rrt~i~~~~~~~~~~edli~~e~vvv~ls~~gyikr~~~ 520 (804)
T COG0188 445 ELEKEIADLEKILASEERLLDIIKKELLEIKKKFGD----ERRTEIVEEEEDEIEDEDLIAEEDVVVTLSHKGYIKRVPL 520 (804)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCc----cceeecccccccccchhhhccccceEEEEcccceEEecch
Confidence 999999999999999999999999999999999999 99999987543 7888999999999999999999999999
Q ss_pred chhhhcccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEE
Q psy14505 560 SEYRAQKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVI 639 (1619)
Q Consensus 560 ~~~~~~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i 639 (1619)
+.|+.|+ .+++++|++|.+...+.|+|||+++||||.|++|++++|++|+.+|++.|.|+.++++++++|+++.+
T Consensus 521 ~~~~~q~-----~~~~~~ke~d~~~~~~~~~t~d~ll~ft~~G~~y~~~~~~lp~~~~~~~G~~i~~ll~~~~~E~i~~v 595 (804)
T COG0188 521 KGYEAQR-----VSGLGLKEGDFLERLFEANTHDTLLFFTSKGRVYKLKVYELPEGSRRSRGEPIVNLLSLEKGEKITAV 595 (804)
T ss_pred hhhhhhh-----hhhccccccchhhheeeecccceEEEEcCCCcEEEecceeccccccccCChhhhhhccCCCCceEEEE
Confidence 9999986 56788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEec-CCCeEEEEeCCceEEEEecc
Q psy14505 640 LPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTD-GSYDIMLFSDSGKAVRFNEN 718 (1619)
Q Consensus 640 ~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~-~~d~lll~T~~G~~~~~~~~ 718 (1619)
.+. .++.+++++|++|++|++++++|...+++|+.+++|+++|.+..+..+. ..++++++|+.|++++|+..
T Consensus 596 ~~~-------~~~~~l~~~T~~G~vK~~~l~~f~~~~~~g~~ai~L~~~d~l~~~~~~~~~~~~i~~~t~~G~~~~F~~~ 668 (804)
T COG0188 596 LPV-------NDDQYLFLATKKGYVKKTSLSEFKNIRSKGKIAIKLKEGDELVSVSLTSDGDDDILLVTSNGKALRFPES 668 (804)
T ss_pred EEc-------CCceeEEEEecCCcEEEeehhhhhccccCCeeEEEcCCCcceeeeeeccCCCceEEEEecCCeEEEeehh
Confidence 988 3678999999999999999999999999999999999999999999887 68899999999999999999
Q ss_pred cccccCCCCCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCC-CeEEEEE
Q psy14505 719 SVRAMGRSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRN-GKVVAAT 797 (1619)
Q Consensus 719 eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~-d~Lv~~~ 797 (1619)
++|+++|.++||++|+|+++|.++++..+.+...+++.+|++|++||++.++|+..+|+++|...++..++. +.++++.
T Consensus 669 ~v~~~gr~a~Gv~~i~l~~~d~~~~~~~~~~~~~~~l~~t~~g~~kr~~~~~~~~~~Rg~~G~~~~~~~~~~~~~~~~~~ 748 (804)
T COG0188 669 EVREMGRGAKGVKGIKLKEGDKVVSLSVVEDDEAKLLTVTERGYGKRTKISEYPVTKRGGKGVILIKGTKRNRGKVVAAI 748 (804)
T ss_pred hcccccccccCcceeecCccCeeeeeeeccCCceeEEEEeccCceeccchhhccccccCccceecccccccccceEEeee
Confidence 999999999999999999999999999998733379999999999999999999999999999999988775 7799998
Q ss_pred EecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEee
Q psy14505 798 LVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLC 850 (1619)
Q Consensus 798 ~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~ 850 (1619)
.+.++++++++|+.|+++|.++++++.+||+|+||+.+++.+++.++++....
T Consensus 749 ~v~~~~~~~~~t~~g~~ir~~~~~i~~~~r~t~gv~~~~~~~~~~v~~~~~~~ 801 (804)
T COG0188 749 TVDEDDEIMLITSRGKLIRTAVSEISITGRNTQGVKLINLDEDEKVVSVARVK 801 (804)
T ss_pred ccCCCceEEEEccCceEEEeeccccccccccccceEeeecCCCCeEEEEEecc
Confidence 88899999999999999999999999999999999999999999999887654
No 3
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=100.00 E-value=3.1e-189 Score=1817.02 Aligned_cols=798 Identities=57% Similarity=0.941 Sum_probs=774.1
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYD 87 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~ 87 (1619)
|++++|+++|+++|++||||||.+|||||+|||||||||||||+|+++|++++++|+||||+||+|||+||||||+|+||
T Consensus 1 i~~~~~~~~~~~~~~~ya~~vi~~RaiP~~~DGlKPvqRril~~~~~~~~~~~~~~~K~a~~~G~v~~~YHpHGd~s~~~ 80 (800)
T TIGR01063 1 IVPVNIEEEMKRSYLDYAMSVIVSRALPDVRDGLKPVHRRILYAMYELGLTPDKPYKKSARIVGDVMGKYHPHGDSAIYD 80 (800)
T ss_pred CeeecHHHHHHHHHHHHHHHHHhhccCCchhcCCCchhhhhhHhHHhhCCCCCCCceeehhhhhhHhhccCCCchHHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceee
Q psy14505 88 ALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLL 167 (1619)
Q Consensus 88 ~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L 167 (1619)
|||||||+|+||+|||||||||||+|||+||||||||||||++++.||+++|+++|+|+|||||++.||+||||+|||||
T Consensus 81 a~v~maq~f~~~~pl~~~~GnfGs~~g~~~Aa~RY~e~rls~~~~~~~~~~d~~~v~~~~n~d~~~~EP~~lp~~~P~lL 160 (800)
T TIGR01063 81 TLVRMAQDFSLRYPLVDGQGNFGSIDGDPPAAMRYTEARLTKIAEELLRDIDKETVDFVPNYDGSEQEPTVLPSRFPNLL 160 (800)
T ss_pred HHHHHhhhccccceeeecCCCCCCCCCCchhhHHHHHhhhhHHHHHHhhccCccccccccCCCCcccCccccccccchhe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEE
Q psy14505 168 INGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTH 247 (1619)
Q Consensus 168 ~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~ 247 (1619)
||||+||||||||+||||||.|||+|++++|++|+++.++|++++|||||||||+|.+++|+.++|+||+|++.+||+|+
T Consensus 161 vNG~~GIa~G~at~ip~hn~~evi~~~~~~~~~~~~~~~~l~~~~~gpdfp~gg~i~~~~g~~~~y~~g~g~~~~~~~~~ 240 (800)
T TIGR01063 161 VNGSSGIAVGMATNIPPHNLGEIIDALLAYIDNPDISIQELLEVIKGPDFPTGGIILGRSGIRSAYETGRGSIVIRARAE 240 (800)
T ss_pred ecCCcceeeeeecCCCCCCHHHHHHHHHHHhcCCCCChHHHHhcCCCCCCCCccEEECccchhhhhccCCceEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccc
Q psy14505 248 IEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQ 327 (1619)
Q Consensus 248 ~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~ 327 (1619)
++.. ..++++|+||||||++|+++|+++|+++++++++++|+||+|+||++|+||+|++|++++++.++++|||+|+||
T Consensus 241 ~~~~-~~~~~~i~IteiP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~~~i~~k~~~~~~~~~~~l~k~t~l~ 319 (800)
T TIGR01063 241 IEED-SKGREAIIVTEIPYQVNKARLIEKIAELVREKKIEGISDIRDESDREGIRIVIELKRDAVAEVVLNNLYKQTQLQ 319 (800)
T ss_pred EEec-cCCCcEEEEEecCCcccHHHHHHHHHHHHhcCCCCccccceecCCCCceEEEEEeCCCCCHHHHHHHHHHhcccc
Confidence 9864 346788999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHHHHH
Q psy14505 328 NTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQEAK 407 (1619)
Q Consensus 328 ~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~~a~ 407 (1619)
++|++||++|++|.|+++++++||++|++||+++|+||++|+|+++++|+|+++|+++|+.++|+||++||+|++.++|+
T Consensus 320 ~~~~~n~~~~~~~~~~~~~~~~il~~~~~~r~~~~~~r~~~~l~~~~~~~~~~~g~~~~~~~~d~vi~~ir~~~~~~~~~ 399 (800)
T TIGR01063 320 VSFGINMLALVKGLPKVLNLKELLEAFVEHRKDVITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQNTEEAK 399 (800)
T ss_pred eeeeeeEEEEECCEeeECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHH
Q psy14505 408 NKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVI 487 (1619)
Q Consensus 408 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~ 487 (1619)
+.||+. |+||++||+|||+|||+|||++|+++|++|+++|+++|+
T Consensus 400 ~~L~~~-----------------------------------~~~~~~qa~~il~m~L~~Lt~~e~~kl~~e~~~l~~ei~ 444 (800)
T TIGR01063 400 TRLVER-----------------------------------FSLSEIQAQAILDMRLQRLTGLEREKLQEEYKELLELIA 444 (800)
T ss_pred HHHHHh-----------------------------------cCCCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 999976 899999999999999999999999999999999999999
Q ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCcccccccc-CCCCccccccCcceEEEEccCccEEeccCchhhhcc
Q psy14505 488 DLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNA-INPSTEDLIASQDMVITLSNLGYIKSQPISEYRAQK 566 (1619)
Q Consensus 488 ~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~-~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~~~ 566 (1619)
+|+.||+|+.+++++|++||.+++++||+ ||||+|+++. .+++.+++|++|++++++|++|||||+++++|..|+
T Consensus 445 ~l~~iL~~~~~l~~vi~~EL~eikkkfg~----~RRT~I~~~~~~~i~~edli~~e~~~vllS~~GyIKri~~~~~~~~~ 520 (800)
T TIGR01063 445 DLEDILASEERVLEIIREELEEIKEQFGD----PRRTEIVYDESEDIDIEDLIARENVVVTLSHNGYVKRVPVSAYRLQK 520 (800)
T ss_pred HHHHHHcCHHHHHHHHHHHHHHHHHHhCC----CCCceeecccccccchhhccCcceEEEEEcCCCEEEecchhhhhhhc
Confidence 99999999999999999999999999999 9999997653 468889999999999999999999999999999999
Q ss_pred cCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCCC
Q psy14505 567 RGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNK 646 (1619)
Q Consensus 567 r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~ 646 (1619)
++|+|.+.+++|++|.+.+++.|+++|+|++||+.||+|++++++||.++|+++|.|+.+++++.++|++++++++
T Consensus 521 ~~~~g~s~~klKe~D~l~~~~~~~t~d~LllfTs~Grv~~l~~~~IP~~~r~~~G~~i~~ll~L~~~E~Iv~~i~~---- 596 (800)
T TIGR01063 521 RGGKGVSGADMKDDDFIEQLLVASTHDYLLFFTNRGKVYWLKVYQIPEASRTAKGKPIVNLLPLQPDERITAILSV---- 596 (800)
T ss_pred ccCcCccccccCCCCeeEEEEEecCCCeEEEEeCCCcEEEEEhhhCcCCCcCCCCcCHHHhccCCCCCeEEEEEEe----
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCC
Q psy14505 647 RDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRS 726 (1619)
Q Consensus 647 ~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~ 726 (1619)
+++.++++++++|++||+||+++++|..+++.|+.+++++++|.++++..|++++++++||++|++++|++++||+++|.
T Consensus 597 ~~~~~~~~lvliT~~GyiKRi~l~~~~~~~r~G~~aiklke~D~lv~v~~~~~~d~lll~Ts~Gr~~r~~v~eIp~~gr~ 676 (800)
T TIGR01063 597 KEFDDGLYLFFATKNGVVKKTSLTEFSNIRSNGIIAIKLDDGDELISVRLTSGDDEVMLGSKNGKAVRFPEEDVRPMGRA 676 (800)
T ss_pred ccCCCCCEEEEEeCCCEEEEEEhHHhhhhccCCcccccCCCCCEEEEEEEeCCCCEEEEEECCCcEEEEEhhhcCCcCCC
Confidence 45677789999999999999999999988888999999999999999999999999999999999999999999999999
Q ss_pred CCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCcEEE
Q psy14505 727 ARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEIM 806 (1619)
Q Consensus 727 a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~ 806 (1619)
++|+++++|++||+|+++.++++ +.+++++|++|++||+++++|...+|+++|+.++++++++|+|+++..++++++++
T Consensus 677 ~~Gv~~i~L~~~E~Vv~~~~v~~-~~~ll~vT~~G~~Kr~~l~e~~~~~R~~kGv~~ikl~~~~d~lv~~~~v~~~~~v~ 755 (800)
T TIGR01063 677 ARGVRGIKLKNEDFVVSLLVVSE-ESYLLIVTENGYGKRTSIEEYRETSRGGKGVKSIKITDRNGQVVGAIAVDDDDELM 755 (800)
T ss_pred CCCeecccCCCCCEEEEEEEecc-ccEEEEEecCCcEEEEEHHHccccCCCCcceEEEEccCCCCeEEEEEEecCCCeEE
Confidence 99999999999999999998876 55799999999999999999999999899999999987678999999998888999
Q ss_pred EEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEee
Q psy14505 807 LITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLC 850 (1619)
Q Consensus 807 l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~ 850 (1619)
++|++|+++||++++||++||.|+||++|+|+++|+|+++..++
T Consensus 756 liT~~G~~lrf~~~eI~~~gR~a~GVk~i~L~~~D~vv~~~~i~ 799 (800)
T TIGR01063 756 LITSAGKLIRTSVQDVSEQGRNTQGVRLIRLDEDDKLVSVSKVA 799 (800)
T ss_pred EEecCCeEEEeeHhhCCccccCCCCeeeeeeCCCCEEEEEEEec
Confidence 99999999999999999999999999999999999999987654
No 4
>PRK05560 DNA gyrase subunit A; Validated
Probab=100.00 E-value=5.2e-189 Score=1819.41 Aligned_cols=802 Identities=59% Similarity=0.964 Sum_probs=778.0
Q ss_pred hccceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcch
Q psy14505 5 AKEVISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVS 84 (1619)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s 84 (1619)
.++|++++|+++|.++|++||||||++|||||+|||||||||||||||+++|++++++|+||||+||+|||+||||||+|
T Consensus 2 ~~~i~~~~~~~~~~~~~~~ya~~~i~~RaiP~~~DGlKPvqRril~~~~~~~~~~~~~~~K~a~~~G~v~~~YHpHGd~s 81 (805)
T PRK05560 2 GDRIIPVNIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVHRRILYAMNELGNTPDKPYKKSARIVGDVMGKYHPHGDSA 81 (805)
T ss_pred CCceeEeeHHHHHHHHHHHHHHHHhhhccCCchhcCCCcchhHHHHHHHhhCCCCCCCceeehhhhhhHHhhcCCCchHH
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCc
Q psy14505 85 IYDALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIP 164 (1619)
Q Consensus 85 ~~~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P 164 (1619)
+|||||||||+|+||+|||||||||||+|||+||||||||||||++++.||+++|+++|+|+|||||++.||+||||+||
T Consensus 82 ~~~a~v~maq~f~~~~pll~~~GnfGs~~g~~~Aa~RY~e~rl~~~~~~~~~~~d~~~~~~~~n~d~~~~EP~~~p~~~P 161 (805)
T PRK05560 82 VYDALVRMAQDFSMRYPLVDGQGNFGSIDGDPAAAMRYTEARMSKIAHELLADIDKETVDFVPNYDGSEQEPTVLPARFP 161 (805)
T ss_pred HHHHHHHHhhhccccceeEeCCCCCCCCCCCchhhhHHHHhhhhHHHHHHHhhcCccccccccCCCCcccCcccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeE
Q psy14505 165 NLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRA 244 (1619)
Q Consensus 165 ~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~ 244 (1619)
|||||||+||||||||+||||||.|||+|++++|++|+++.++|++++|||||||||+|.+++|+.++|+||+|++.+||
T Consensus 162 ~~LvNG~~GIa~G~at~ip~hn~~evi~~~~~~l~~~~~~~~~l~~~~~gpdfptgg~i~~~~~~~~~~~~g~g~~~~~~ 241 (805)
T PRK05560 162 NLLVNGSSGIAVGMATNIPPHNLGEVIDACLALIDNPDITIEELMEIIPGPDFPTGGIILGRSGIREAYRTGRGSIVMRA 241 (805)
T ss_pred eeeecCCcceeeeeecCCCCCCHHHHHHHHHHHhcCCCCCHHHHhhcCCCCCCCCccEEECccchhhheecCCceEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhc
Q psy14505 245 KTHIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQT 324 (1619)
Q Consensus 245 ~~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t 324 (1619)
+|+++.. .++++|+||||||++|+++|+++|+++++++++++|+|++|+||++|+||+|++|++++++.++++|||+|
T Consensus 242 ~~~~~~~--~~~~~i~iteiP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~~~i~~~~~~~~~~~~~~l~~~~ 319 (805)
T PRK05560 242 KAEIEEI--KGREAIIVTEIPYQVNKARLIEKIAELVKEKKIEGISDLRDESDRDGMRIVIELKRDAVPEVVLNNLYKHT 319 (805)
T ss_pred EEEEEec--CCCcEEEEEeCCCccCHHHHHHHHHHHHhcCCCCccccchhcCCCCceEEEEEECCCCCHHHHHHHHHHhc
Confidence 9999853 46778999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHH
Q psy14505 325 QLQNTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQ 404 (1619)
Q Consensus 325 ~l~~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~ 404 (1619)
+||++|++||++|++|+|+++++++||++|++||+++|+||++|+|+++++|+|+|+|+++|+.++|+||++||+|++.+
T Consensus 320 ~l~~~~~~n~~~~~~~~~~~~~~~~il~~~~~~r~~~~~~r~~~~l~~~~~~~~~l~g~~~~~~~~d~vI~iir~s~~~~ 399 (805)
T PRK05560 320 QLQTSFGINMLALVDGQPKLLNLKEILEAFLEHRKEVITRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPTPA 399 (805)
T ss_pred CCeeeeeeeEEEEECCEeEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcCCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHH
Q psy14505 405 EAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIK 484 (1619)
Q Consensus 405 ~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~ 484 (1619)
+|+++|++. |+||+.||+|||+|||+|||++|+++|++|+++|++
T Consensus 400 ~~~~~L~~~-----------------------------------f~~~~~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ 444 (805)
T PRK05560 400 EAKEGLMER-----------------------------------FGLSEIQAQAILDMRLQRLTGLERDKIEDEYKELLA 444 (805)
T ss_pred HHHHHHHHh-----------------------------------cCCCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHH
Confidence 999999986 899999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccccCCCCccccccCcceEEEEccCccEEeccCchhhh
Q psy14505 485 KVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNAINPSTEDLIASQDMVITLSNLGYIKSQPISEYRA 564 (1619)
Q Consensus 485 ~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~ 564 (1619)
+|++|+.||+|+.+++++|++||.+++++||+ ||||+|+++..+++.+++|++|+++|++|++||+||+++++|..
T Consensus 445 ei~~l~~iL~~~~~l~~~i~~EL~~ikkkfg~----~RRT~I~~~~~~i~~edlI~~E~v~vllS~~GyIKri~~~~~~~ 520 (805)
T PRK05560 445 LIADLKDILASPERLLEIIKEELLEIKEKFGD----PRRTEIIEGEGDIDDEDLIPEEDVVVTLTHGGYIKRTPLDEYRA 520 (805)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC----CCceEeeccccccchhhccCCCCEEEEEeCCCEEEEcchhhhhh
Confidence 99999999999999999999999999999999 99999987656788899999999999999999999999999999
Q ss_pred cccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCC
Q psy14505 565 QKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSN 644 (1619)
Q Consensus 565 ~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~ 644 (1619)
|+++++|.+++++|++|.+.+++.|+++|+|++||+.||+|++++++||.++|+++|.|+.+++++.++|++++++++
T Consensus 521 ~~~~~~g~~~~klKe~D~l~~~~~~~t~d~LllfTs~Grv~~l~v~~iP~~~~~~~G~~i~~ll~L~~~E~Iv~~i~~-- 598 (805)
T PRK05560 521 QRRGGKGVSGAKTKEDDFVEHLFVASTHDTLLFFTNRGRVYRLKVYEIPEASRTARGRPIVNLLPLEPGEKITAILPV-- 598 (805)
T ss_pred hcccCCCccccccCCCCeeEEEEEecCCCeEEEEecCCeEEEEEhhhCcCCCcCCCCeEHHHhcCCCCCceEEEEEec--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccC
Q psy14505 645 NKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMG 724 (1619)
Q Consensus 645 ~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~ 724 (1619)
++++++++++++|++||+||+++++|..++++|..+++|+++|.++++..|++++++++||++|++++|++++||+++
T Consensus 599 --~~~~~e~~lvlvTk~GyiKRi~l~~~~~~~r~G~~~ikLke~D~lv~v~~~~~~d~lll~T~~Gr~~r~~~~eIp~~g 676 (805)
T PRK05560 599 --REFDDDKYLFFATKNGTVKKTSLSEFSNIRSNGIIAINLDEGDELIGVRLTDGDDDILLATKNGKAIRFPESDVRPMG 676 (805)
T ss_pred --cCCCCCCEEEEEeCCCEEEEEEhHHhhhcccCCceeeccCCCCEEEEEEEeCCCCEEEEEECCCcEEEEEhhhcCccC
Confidence 456688899999999999999999999988889999999999999999999999999999999999999999999999
Q ss_pred CCCCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCcE
Q psy14505 725 RSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHE 804 (1619)
Q Consensus 725 r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~ 804 (1619)
|.++|+++++|++||+|++++++++.+.+++++|++|++||+++++|..++|+++|+.++++++++|+|+++..+.++++
T Consensus 677 r~~~Gv~~i~L~~~E~Vv~~~~v~~~~~~il~vTk~G~iKr~~l~e~~~~~R~~kG~~~lkl~~~~d~lv~v~~v~~~~~ 756 (805)
T PRK05560 677 RTARGVRGIKLREGDEVVSMDVVREDSQEILTVTENGYGKRTPVSEYRLQGRGGKGVITIKITEKNGKLVGALPVDDDDE 756 (805)
T ss_pred cccCCcccccCCCCCEEEEEEEEcCCCcEEEEEEeCCeEEEEEHHHhhccCCCCCcEEeeeccCCCCeEEEEEEecCCCe
Confidence 99999999999999999999998763347999999999999999999999998899999999876799999999988889
Q ss_pred EEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEeec
Q psy14505 805 IMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLCK 851 (1619)
Q Consensus 805 i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~~ 851 (1619)
++++|++|+++||++++||++||.|+||++|+|.+||+|+++..++.
T Consensus 757 v~i~T~~G~~lrf~~~eI~~~gR~a~GVk~I~L~~~D~V~~~~~i~~ 803 (805)
T PRK05560 757 IMLITDSGKLIRTRVSEISITGRNTQGVRLIRLDEGDKVVSVARVAE 803 (805)
T ss_pred EEEEecCCeEEEEEHHHCCccccCCCCeeeEecCCCCEEEEEEEecC
Confidence 99999999999999999999999999999999999999999887764
No 5
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=9.6e-180 Score=1705.73 Aligned_cols=732 Identities=39% Similarity=0.649 Sum_probs=703.3
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYD 87 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~ 87 (1619)
|++++|+++|+++|++||||||++|||||+|||||||||||||||+++|++++++|+||||+||+|||+||||||+|+||
T Consensus 1 ~~~~~~~~~~~~~~l~ya~~vi~~RalP~~~DGlKPvqRril~~m~~~~~~~~~~~~K~A~~vG~v~g~YHpHGd~siy~ 80 (738)
T TIGR01061 1 IFNKPLEEVFGESFGKYAKYIIQDRALPDIRDGLKPVQRRILYAMFQDGNTFDKPYKKSARTVGEIMGKYHPHGDSSIYD 80 (738)
T ss_pred CcccCHHHHHHHHHHHhHHHHHhhccCCccccCCCchhhhhhHhHHhcCCCCCCCceeeeeehhhhhhccCCCchHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceee
Q psy14505 88 ALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLL 167 (1619)
Q Consensus 88 ~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L 167 (1619)
|||||||+|+||||||||||||||+|||+||||||||||||++|+.||+++|++||+|+|||||++.||+||||+|||||
T Consensus 81 a~v~maq~f~~~~pli~~~GnFGs~~gd~~Aa~RYte~rl~~~a~~~~~~~d~~~v~~~~n~d~~~~EP~~lp~~~P~lL 160 (738)
T TIGR01061 81 AMVRMSQDWKNNWTLVEMHGNNGSIDGDNAAAMRYTEARLSLIASELLKDIDKKTVSFIPNFDDSEKEPTVLPALFPNLL 160 (738)
T ss_pred HHHHHhhhccccceeEeCCCCCCCCCCCcchhhHHHhhhhhHHHHHHhhccCccccccccCCCCCccccccccccCCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEE
Q psy14505 168 INGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTH 247 (1619)
Q Consensus 168 ~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~ 247 (1619)
||||+|||||||||||||||.|||+||+++|++|+++.++|++++|||||||||+|.+.+|+.++|+||+|++.+||+|+
T Consensus 161 vNGs~GIavG~aT~Ipphn~~evi~~~~~~i~~~~~~~~~l~~~~~~pdfptGg~i~~~~~i~~~y~tg~G~~~~rg~~~ 240 (738)
T TIGR01061 161 INGATGIAAGYATNIPPHNLNEVIDALIYRIDHPNCSVDKLMEIVKGPDFPTGGIIQGEDGISKAYETGKGKFIIRAKIE 240 (738)
T ss_pred ecCCcceeeeeecCCCCCCHHHHHHHHHHHhcCCCCChHHhcccccCCCCCCCcEEECchhhHHheecCCceEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccc
Q psy14505 248 IEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQ 327 (1619)
Q Consensus 248 ~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~ 327 (1619)
+|.. +.++++|+||||||++|+++|+++|++++++++++||++|+||||++|+||+|++|++++++.++++|||+|+||
T Consensus 241 ~e~~-~~~~~~i~ItEiP~~~~~~~~~~~i~~l~~~~~~~~i~~~~Des~~~~vrivi~lk~~~~~~~~~~~l~k~t~l~ 319 (738)
T TIGR01061 241 IEVN-KNGLNQIVITEIPYETNKANIVKKIEEIIFDNKVAGIEEVRDESDRNGIRIIIELKKDANAEKILNFLFKHTDLQ 319 (738)
T ss_pred EEEc-CCCCcEEEEEecCCccCHHHHHHHHHHHHhcCCccccceeeeccCCCceEEEEEECCCCCHHHHHHHHHHhccCc
Confidence 9864 456789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHHHHH
Q psy14505 328 NTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQEAK 407 (1619)
Q Consensus 328 ~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~~a~ 407 (1619)
++|++||++|+++.|+++++++||++|++||+++|+||++|+|+++++|+|||+|+++|+++||++|++||+|+++++|+
T Consensus 320 ~~~~~n~~~~~~~~p~~~~l~~il~~~~~~R~~~~~rr~~~~l~k~~~r~~il~g~~~~~~~id~~i~iir~~~~~~~~~ 399 (738)
T TIGR01061 320 INYNFNMVAIANRTPIQVGLLSYLDAYIKHCHEVIINRSKYELEKASKRLEIVEGLIKAISIIDEIIKLIRSSEDKSDAK 399 (738)
T ss_pred ceeeeeEEEEECCcceECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhHHHHcCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHH
Q psy14505 408 NKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVI 487 (1619)
Q Consensus 408 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~ 487 (1619)
++|++. |+||++||+|||+|||++||++|+++|++|+++|+++|+
T Consensus 400 ~~l~~~-----------------------------------f~~~~~q~~~il~m~l~~lt~~e~~kl~~e~~~l~~~i~ 444 (738)
T TIGR01061 400 ENLIDN-----------------------------------FKFTENQAEAIVSLRLYRLTNTDIFELKEEQNELEKKII 444 (738)
T ss_pred HHHHHh-----------------------------------cCCCHHHHHHHHhhHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 999986 899999999999999999999999999999999999999
Q ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccc--cCCCCccccccCcceEEEEccCccEEeccCchhhhc
Q psy14505 488 DLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILN--AINPSTEDLIASQDMVITLSNLGYIKSQPISEYRAQ 565 (1619)
Q Consensus 488 ~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~--~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~~ 565 (1619)
+|+.||+|+++++++|++||.+++++||+ ||||+|.++ +.+++.+++|++|+++|++|++|||||+++++|..+
T Consensus 445 ~l~~iL~~~~~~~~~i~~el~~ik~kfg~----~RRT~I~~~~~~~~~~~edli~~E~~lV~lTk~G~IKrt~l~~f~~~ 520 (738)
T TIGR01061 445 SLEQIIASEKARNKLLKKQLEEYKKQFAQ----QRRSQIEDFINQIKINESELIENEDYYVLITKAGYIKRTSNRSFASS 520 (738)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHhCC----CCceeeecccccccCCHhhcccccceEEEEccCCEEEEeehhhhhhh
Confidence 99999999999999999999999999999 999999764 346888999999999999999999999999999988
Q ss_pred ccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCC
Q psy14505 566 KRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNN 645 (1619)
Q Consensus 566 ~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~ 645 (1619)
+++ +++++++|.+..++.|+++++|++||+.|++|++++++||.++|++.|+|+.+.+++.++++++++.++
T Consensus 521 r~~-----ai~Lke~Delv~v~~~~~~d~IllfT~~Gkv~r~~~~eIp~~gr~a~Gv~Ivk~i~L~~~D~Iv~~~~v--- 592 (738)
T TIGR01061 521 KYT-----DFGSKDDDILFAQTIANTTDQILIFTSLGNIINIPVHKLADIRWKDLGEHLSNKITFDENETIVFVGTM--- 592 (738)
T ss_pred ccc-----ccCCCCCCEEEEEEEecCCCEEEEEeCCCcEEEEEHHHCcCCCCCCCCcChhhcccCCCCCeEEEEEEe---
Confidence 753 567889999999999999999999999999999999999999999999999999999999999999887
Q ss_pred CCCCC-CCcEEEEEeCCceEEEeeCCCCcCCC-CCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEeccccccc
Q psy14505 646 KRDFP-KNNYVFMSTSLGIVKKTLLSNFSNPR-KSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAM 723 (1619)
Q Consensus 646 ~~~~~-~e~~~v~iT~~G~iKr~~~~~~~~~~-r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~ 723 (1619)
+++. ++.+++++|++||+||+++++|..++ +.|+.+++++++|.++++..++++++++++|++|++++|++.+||.+
T Consensus 593 -~~~~~~~~~ll~vT~~G~~KRt~l~e~~~~r~~kGv~~ikLk~~d~lV~a~~v~~~d~IlliT~~G~~iRf~~~dI~~~ 671 (738)
T TIGR01061 593 -NEFDVDQPILVLASKLGMVKRIELTELNIKRNSKATLCIKLKDKDHLISAFLQQKDKLICLVSDLGYALVFHTNEIPVV 671 (738)
T ss_pred -ccccCCCcEEEEEecCCeEEEeEHHHhccccCCCceEEEeccCCCcEEEEEEeCCCCEEEEEECCCeEEEEEHHHCCcc
Confidence 2222 23479999999999999999998875 56899999999999999999988889999999999999999999999
Q ss_pred CCCCCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccC
Q psy14505 724 GRSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKR 789 (1619)
Q Consensus 724 ~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~ 789 (1619)
+|.++||.+|+|+++|+|+++..+++ +..++++|++|++||+++++|+.++|+++|+.+++++++
T Consensus 672 gR~a~GV~~I~L~~~D~Vv~~~~v~~-~~~ll~vTe~G~~Kr~~~~e~~~~~RggkGv~~~~l~~~ 736 (738)
T TIGR01061 672 GAKAAGVKGMKLKEDDQVKSGVIFEA-NESLVLLTQRGSVKRLSISELVVTSRAATGKKLLPLKKK 736 (738)
T ss_pred cccCCCeEEEEeCCCCEEEEEEEecC-CCeEEEEECCCceEEecHHHccccCCCCCCeEeeeccCC
Confidence 99999999999999999999888876 457999999999999999999999999999999988663
No 6
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=100.00 E-value=1.8e-174 Score=1658.16 Aligned_cols=725 Identities=40% Similarity=0.665 Sum_probs=691.5
Q ss_pred CchhhccceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCC
Q psy14505 1 MNQFAKEVISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPH 80 (1619)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhph 80 (1619)
|.+..++|.+++|+++|+++|++||||||++|||||+|||||||||||||||+++|++++++|+||||+||+|||+||||
T Consensus 3 ~~~~~~~i~~~~~~~~~~~~~l~ya~~vi~~RalP~~~DGlKPvqRrily~m~~~~~~~~~~~~K~A~~vG~v~g~YHPH 82 (742)
T PRK05561 3 DMSMLEGIEDLPLEEFLEERYLRYAMYVIMDRALPDVRDGLKPVQRRILYAMSELGLTPDAKFKKSARVVGDVLGKYHPH 82 (742)
T ss_pred CccccccceEeeHHHHHHHHHHHHHHHHhhcccCCchhcCCCCchhhhhHhHHhcCCCcCCCceeehhhhhhHhhccCCC
Confidence 44556789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchHHHHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceec
Q psy14505 81 GDVSIYDALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLP 160 (1619)
Q Consensus 81 gd~s~~~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~ 160 (1619)
||+|+|||||||||+|+||||||||||||||+|||+||||||||||||++++.||+++|+++|+|+|||||++.||+|||
T Consensus 83 Gd~siy~a~v~maQ~f~~~~pli~~~GnFGs~~g~~~Aa~RYte~rl~~~~~~l~~~~d~~~v~~~~n~d~~~~EP~~lp 162 (742)
T PRK05561 83 GDSSIYDAMVRMAQDFSYRYPLVDGQGNFGSIDGDPAAAMRYTEARLSPIAELLLEEIDEGTVDFVPNFDGTLKEPTVLP 162 (742)
T ss_pred cHHHHHHHHHHHhhhccccccccccCCCCCCCCCCcHHHHHHHHHhhhHHHHHHhhhcCccccccccCCCCcccCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCce-EEeccccccccceecccE
Q psy14505 161 TRIPNLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAG-IIYGLSSVHDGYYTGKGR 239 (1619)
Q Consensus 161 ~~~P~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~-~i~~~~~~~~~y~~g~G~ 239 (1619)
|+|||||||||+|||||||||||||||.|||+|++++|++|++++++|++++||||||||| ++.+.+|+.++|+||+|+
T Consensus 163 ~~~P~lLvNG~~GIavG~aT~ipphn~~evi~~~~~~i~~~~~~~~~l~~~~~gpdFptGg~ii~~~~~i~~~y~tg~G~ 242 (742)
T PRK05561 163 ARFPNLLLNGATGIAVGMATDIPPHNLREVIDAAIHLIDNPDATLEELMEFVPGPDFPTGGEIITGRDGIRKAYETGRGS 242 (742)
T ss_pred cccchhhccCCcchhhhhhcCCCCCCHHHHHHHHHHHHhCCCCChHHHhhcccCCCCCCCcEEEeCchhHHHHhhcCCce
Confidence 9999999999999999999999999999999999999999999999999999999999999 778999999999999999
Q ss_pred EEEeEEEEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcc-eEEEEEecCC-CCHHHHH
Q psy14505 240 VIIRAKTHIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSG-MRIVIELKRN-EIPEIVL 317 (1619)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~-~~i~i~lk~~-~~~~~~~ 317 (1619)
+.+||+|++++. +.++++|+||||||++|+++|+++|+++++++++++|+|++|+||++| +||+|++|++ ++++.++
T Consensus 243 ~~~r~~~~~~~~-~~~~~~i~itEiP~~~~~~~~~~~i~~l~~~~~~~~i~~~~d~s~~~~~~r~~i~~k~~~~~~~~~~ 321 (742)
T PRK05561 243 IRVRARWEIEDL-AGGRWQIVITELPYQVSKAKLIEQIAELMNAKKLPGIADVRDESDRENPVRIVIEPKSNRVDPEALM 321 (742)
T ss_pred EEEEEEEEEEec-CCCCceEEEEeCCCcccHHHHHHHHHHHHhcCCccccccceeccCCCCCEEEEEEECCCcCCHHHHH
Confidence 999999999863 346789999999999999999999999999999999999999999998 9999999999 8999999
Q ss_pred HHHHhhcccccceeeeEEEEE-CCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHH
Q psy14505 318 NKLYKQTQLQNTFGMNMLALV-NGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQI 396 (1619)
Q Consensus 318 ~~l~k~t~l~~~~~~n~~~~~-~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~i 396 (1619)
++|||+|+||++|++||++|+ +|+|+++++++||++|++||+++|+||++|+|+++++|+|+|+||++|+++||+||++
T Consensus 322 ~~l~k~t~l~~~~~~n~~~~d~~~~p~~~~l~~il~~f~~~R~~~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~i 401 (742)
T PRK05561 322 NHLFATTDLESSYRVNMNAIGLDGRPRVKGLKEILSEWLDHRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRI 401 (742)
T ss_pred HHHHHhcCcceeeeeeEEEEccCCEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 999999999999999999995 9999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHH
Q psy14505 397 IRSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKII 476 (1619)
Q Consensus 397 ir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~ 476 (1619)
||+|++ |+++||+. |+||+.||+|||+|||+|||++|+++|+
T Consensus 402 ir~s~~---ak~~l~~~-----------------------------------f~~~~~qa~~Il~m~L~~Lt~le~~kl~ 443 (742)
T PRK05561 402 IRESDE---PKANLMAR-----------------------------------FDLSEIQAEAILELRLRRLAKLEEIEIR 443 (742)
T ss_pred HhcCcc---HHHHHHHH-----------------------------------hCCCHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 999987 89999976 8999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCcccccccc--CCCCccccccCcceEEEEccCccE
Q psy14505 477 NKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNA--INPSTEDLIASQDMVITLSNLGYI 554 (1619)
Q Consensus 477 ~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~--~~~~~~~li~~e~~~v~ls~~Gyi 554 (1619)
+|+++|+++|++|+.+|+|++++|++|++||.+++++||+ ||||+|.++. .+++.+++|++|+++|++|++|||
T Consensus 444 ~E~~~l~~ei~~l~~iL~s~~~l~~~i~~eL~~ik~kfg~----~RRT~I~~~~~~~~i~~edlI~~e~~lVllTk~GyI 519 (742)
T PRK05561 444 KEQDELRKEIAELEAILASERKLRKLIKKELKADAKKFGD----PRRTPIEEAEEAIAIDEEALIPDEPVTVVLSKKGWV 519 (742)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC----CCceeeeccccccccchhhcccCcceEEEEecCCEE
Confidence 9999999999999999999999999999999999999999 9999997653 467889999999999999999999
Q ss_pred EeccCchhhhcccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCc
Q psy14505 555 KSQPISEYRAQKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKE 634 (1619)
Q Consensus 555 Kr~~~~~~~~~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e 634 (1619)
||+++++|..+ +++++++|.+.+++.|+++++|++||+.|++|++++++||. ++ +.|.|+.+++++.+||
T Consensus 520 KR~~l~~f~~~--------aikLke~D~Lv~v~~~~t~d~LllfT~~Grv~r~~~~eIP~-gr-a~Gv~i~~~i~L~~gE 589 (742)
T PRK05561 520 RRAKGHSIDAS--------GLSFKEGDSLLFAFEARTTDKLLLFTSTGRVYSLPVHELPS-AR-GDGEPLTGLVDLAPGE 589 (742)
T ss_pred Eeccchhhhhh--------ccccCCCCeEEEEEEecCCCeEEEEECCCcEEEeEHHhCCC-cC-CCCcChhhhcCCCCCc
Confidence 99999999865 68899999999999999999999999999999999999999 45 7899999999999999
Q ss_pred eEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEE
Q psy14505 635 KITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVR 714 (1619)
Q Consensus 635 ~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~ 714 (1619)
+++++.++ .++..++++|++|++||+++++|..++|+|+.+++++++|.++++..++.+++++++|++|++++
T Consensus 590 ~Iv~~~~~-------~~~~~lllvT~~G~~KRt~lse~~~~~R~gkg~i~Lk~~D~Lv~a~~v~~~d~I~liT~~G~~ir 662 (742)
T PRK05561 590 EIVHVLAF-------DPDQKLLLASSAGYGFVVTLEDLVARTRAGKAVINLKDGDEVLPPVPVEDDDHLAAITSNGRLLV 662 (742)
T ss_pred eEEEEEEE-------cCCcEEEEEECCCcEEEEEhhhccccCCCCeEEEEeCCCCEEEEEEEeCCCCEEEEEeCCCcEEE
Confidence 99999876 23457999999999999999999999999999999999999999999988889999999999999
Q ss_pred EecccccccCCCCCCccceecC-CCCEEEEEEEecCCCCcEEEEEe-cCceeEEecccccc--cccccccceeeeecc
Q psy14505 715 FNENSVRAMGRSARGVIGMRLE-KKQKVIALLVSNNQKQSVLTATE-NGYGKRTLIKEYTK--HNRGTKGIISIKTNK 788 (1619)
Q Consensus 715 ~~~~eIp~~~r~a~Gv~~i~L~-~~e~Iv~~~~~~~~~~~ll~~T~-~G~~Kr~~l~e~~~--~~R~~kG~~~ikl~~ 788 (1619)
|++.+||.++ .++||.+|+|. ++|.|+++..+.+ +..++++|+ .|++|+ ++++|+. ++|+++|+..++..+
T Consensus 663 f~~~eI~~~g-~a~GVk~i~L~~~~D~Vv~~~~v~~-~~~ll~vt~G~g~~k~-~~~e~~~~~~~RggkG~~~~~~~~ 737 (742)
T PRK05561 663 FPLSELPELG-KGKGVKLINLPKDDDGLVDLRVLNP-EDGLVLLTAGKRKLKL-KPSELEKYRGKRARRGRLLPRGLK 737 (742)
T ss_pred EEHHHCCCcC-CCcCeEEEEecCCCCEEEEEEEEcC-CCeEEEEEecCCceec-CHHHcchhcCCCCCCCccCccccc
Confidence 9999999999 99999999999 9999999988876 346779999 666666 9999999 999999999876443
No 7
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=100.00 E-value=3.5e-170 Score=1596.55 Aligned_cols=708 Identities=35% Similarity=0.583 Sum_probs=661.7
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYD 87 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~ 87 (1619)
+.+++|+++|+++|++||||||++|||||+|||||||||||||||+++|++++.+|+||||+||+|||+||||||+|+||
T Consensus 1 ~~~~~~~~~~~~~yl~ya~~vi~~RalP~v~DGLKPvqRrilyam~~~~l~~~~~~~K~Ar~vG~v~gkyHPHGd~s~y~ 80 (735)
T TIGR01062 1 IENIDLGNFTEEAYLNYSMYVIMDRALPFIGDGLKPVQRRIVYAMSELGLNANAKYKKSARTVGDVLGKYHPHGDSACYE 80 (735)
T ss_pred CccccHHHHHHHHHHHHHHHHhhcccCCchhcCCCcchhhhhHhHHhcCCCcCCCceeehhhHHHHHhhcCCCchHHHHH
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCccccccccCCCCCCCCCC-CcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCcee
Q psy14505 88 ALVRMAQSFSLRCTLVDGQGNFGSIDG-DSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNL 166 (1619)
Q Consensus 88 ~~v~maq~~~~~~pl~~~~GnfGs~~g-~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~ 166 (1619)
|||||||+|+|||||+||||||||++| ++||||||||||||++++.||+++|+++|+|+|||||+..||+||||+||||
T Consensus 81 a~V~mAQ~fs~~~pLvdg~GnFGs~dg~~~~AAmRYte~rl~~~a~~ll~~~d~~~v~~~~n~Dg~~~EP~~lp~~~P~l 160 (735)
T TIGR01062 81 AMVLMAQPFSYRYPLVDGQGNWGAPDDPKSFAAMRYTESRLSKISELLLEELGQGTVDFRPNFDGTLLEPVILPARLPNI 160 (735)
T ss_pred HHHHHhhhcccCceeEecCCCCCCCCCCChhHhHHHHHhhhHHHHHHHhhccCccccccccCCCCCccCCcccccccchh
Confidence 999999999999999999999999987 7789999999999999999999999999999999999999999999999999
Q ss_pred eecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEec-cccccccceecccEEEEeEE
Q psy14505 167 LINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYG-LSSVHDGYYTGKGRVIIRAK 245 (1619)
Q Consensus 167 L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~-~~~~~~~y~~g~G~~~~~~~ 245 (1619)
|||||+|||||||||||||||.|||+||+++|++|++++++|++++|||||||||+|.+ .+|+.++|+||+|++++||+
T Consensus 161 LvNG~~GIavGmaT~IpphN~~ev~~a~~~~i~~~~~~~~~l~~~~~gPDfptgG~ii~~~~~i~~~y~tg~G~~~~r~~ 240 (735)
T TIGR01062 161 LLNGTTGIAVGMATDIPPHNLHELADAALYLIDNPKAGLDDILNIVQGPDFPTEAEIIDKAEEIRKIYETGRGSFRMRAR 240 (735)
T ss_pred hhcCCcceEeeeecCCCCCCHHHHHHHHHHHHhCCCCCHHHHhhhccCCCCCCCcEEecCchhHHHHhccCCceEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999876 58899999999999999999
Q ss_pred EEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCC-cceEEEEEec-CCCCHHHHHHHHHhh
Q psy14505 246 THIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDK-SGMRIVIELK-RNEIPEIVLNKLYKQ 323 (1619)
Q Consensus 246 ~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~-~~~~i~i~lk-~~~~~~~~~~~l~k~ 323 (1619)
|++++ .+|+||||||++|+++|+|+|++++++|++++|+|++||||+ +|+||||++| ++++++.++++||++
T Consensus 241 ~~~e~------~~ivItelP~~v~~~~~~e~i~~~~~~kk~~~i~d~~Des~~~~~vr~vi~~k~~~~~~~~~~~~L~~~ 314 (735)
T TIGR01062 241 WKKED------GQIVISALPHQISKSKVIEQIAIQMKDKKLPMISDIRDESDHENPIRVVIVPRSNRVDPDIVMEHLFAT 314 (735)
T ss_pred EEEEC------CeEEEEeCCCcccHHHHHHHHHHHHhcCCCcceeehhhcCCCcCcEEEEEEECCCCCCHHHHHHHHHHh
Confidence 99983 179999999999999999999999999999999999999997 5899999998 679999999999999
Q ss_pred cccccceeeeEEEE-ECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCC
Q psy14505 324 TQLQNTFGMNMLAL-VNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTST 402 (1619)
Q Consensus 324 t~l~~~~~~n~~~~-~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~ 402 (1619)
|+||++|++||+++ .||+|+.+++++||++|++||+++|+||++|+|+++++|+|||+||++|++|||+||+|||+|+
T Consensus 315 t~L~~~~~~n~~~i~~~~~p~~~~l~~il~~~~~~R~~~~~rR~~~~l~k~~~rl~il~Gl~ia~~~iDevI~iIR~s~- 393 (735)
T TIGR01062 315 TDLEKSYRLNMNMIGLDNVPAVKNLLEILQEWLVFRRNTVIRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREED- 393 (735)
T ss_pred cCCeeeecccEEEEEeCCeeeECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCh-
Confidence 99999999999999 5999999999999999999999999999999999999999999999999999999999999996
Q ss_pred HHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHH
Q psy14505 403 PQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENV 482 (1619)
Q Consensus 403 ~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l 482 (1619)
+||+.||++ |+||+.||+|||+||||+||+||..+|++|+++|
T Consensus 394 --~~k~~L~~~-----------------------------------f~ls~~QaeaIL~mrL~~L~~le~~~i~~E~~~l 436 (735)
T TIGR01062 394 --EPKTILMER-----------------------------------FKLSAIQAEAILNLRLRHLAKLEEHAIIDEQSEL 436 (735)
T ss_pred --hhHHHHHHh-----------------------------------cCCCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHH
Confidence 678999986 9999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccc--cCCCCccccccCcceEEEEccCccEEeccCc
Q psy14505 483 IKKVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILN--AINPSTEDLIASQDMVITLSNLGYIKSQPIS 560 (1619)
Q Consensus 483 ~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~--~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~ 560 (1619)
++++++|+.||+|++++|++|++||.+++++||+ +|||.|.+. ..+++.+++|++|+++|++|++|||||++.+
T Consensus 437 ~~e~~~l~~~L~~~~~~~~~i~~el~~~~~~~g~----~RRt~i~~~~~~~~~~~~~~i~~e~v~VilTk~G~IKr~~~~ 512 (735)
T TIGR01062 437 EKERAILEKILKSERELNQLVKKEIQADATKYGL----ARRSSLEEREEAKQVSEIDMIPKEPVTIILSKMGWVRSAKGH 512 (735)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCC----CCCeeeeccccccccchhhcccCcceEEEEecCCEEEecccc
Confidence 9999999999999999999999999999999999 999999764 2468889999999999999999999999999
Q ss_pred hhhhcccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEE
Q psy14505 561 EYRAQKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVIL 640 (1619)
Q Consensus 561 ~~~~~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~ 640 (1619)
+|. .+++++|+||.+..++.|+++++|+|||+.|++|++++++||.+ + +.|.|+..++++.+|++++++.
T Consensus 513 ~~~--------~saikLKegD~L~~~~~~~t~d~LllfTs~Gr~yrf~v~eIP~G-R-~aGgpV~~~L~L~~gE~Iv~~~ 582 (735)
T TIGR01062 513 DID--------LSTLKYKAGDSEKAIIEGKSNQKVVFIDSTGRSYALDPDNLPSA-R-GQGEPLTGKLLLPIGATITNIL 582 (735)
T ss_pred ccc--------hhccCcCCCCeEEEEEEecCCCEEEEEECCCeEEEEEhHhcCcC-c-cCCceeEeeecCCCCCEEEEEE
Confidence 874 34789999999999999999999999999999999999999964 3 6899999999999999999998
Q ss_pred ecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCC-eEEEEeCCceEEEEeccc
Q psy14505 641 PLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSY-DIMLFSDSGKAVRFNENS 719 (1619)
Q Consensus 641 ~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d-~lll~T~~G~~~~~~~~e 719 (1619)
+. ++++.++++|++||+||+++++|..++|+|+.+++++++|.++.+..+++.+ .++++|++|++++|++.+
T Consensus 583 ~v-------~~~~~lLlaT~~GyGKrt~lse~~~~~RaGKgvi~Lk~~d~lv~v~~v~~~dd~V~liT~~GrlLrf~v~E 655 (735)
T TIGR01062 583 MY-------SPNQLLLMASDAGYGFLCNFNDLIARNKAGKALINLPENASVIAPLPVNGDSDMIAAITEAGRMLVFPIDD 655 (735)
T ss_pred Ee-------cCCcEEEEEEcCCcEEEEEhHhccccCcCCeEEEEeCCCCEEEEEEEEcCCCCEEEEEeCCCcEEEEEHHH
Confidence 87 3445799999999999999999999999999999999999999988887764 699999999999999999
Q ss_pred ccccCCCCCCccceecC------CCCEEEEEEEecCCCCcEEEEEecCceeEEe---cccccccccccccceee
Q psy14505 720 VRAMGRSARGVIGMRLE------KKQKVIALLVSNNQKQSVLTATENGYGKRTL---IKEYTKHNRGTKGIISI 784 (1619)
Q Consensus 720 Ip~~~r~a~Gv~~i~L~------~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~---l~e~~~~~R~~kG~~~i 784 (1619)
||.++| ++||.+|+|+ .+|.++++.+++. ...+.+...|...... +..|. ..|+++|....
T Consensus 656 Ip~~gR-gkGVkli~L~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-~~r~~~g~~~~ 725 (735)
T TIGR01062 656 LPELSK-GKGNKLIRIPSANAKRGEDGLLDLKIFNK--QDGLSWNDGKRKIQLEPEELQKFL-GERGRFGTTLP 725 (735)
T ss_pred CCccCC-CCCeEEEEcCcccccCCCceEEEEEEEcC--CceEEEEeCCceEEeCHHHHHHHh-hhhhcCCCCCC
Confidence 999999 8999999995 5678998888876 2345555545544443 34443 46888887654
No 8
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=5.4e-136 Score=1257.29 Aligned_cols=612 Identities=30% Similarity=0.476 Sum_probs=535.5
Q ss_pred cHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHHHH
Q psy14505 12 LLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDALVR 91 (1619)
Q Consensus 12 ~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~v~ 91 (1619)
+|+++|+++||+||||||++|||||++||||||||||||||++++ +++|+|||++||+|| +||||||+|+|||||+
T Consensus 3 ~i~~~~~~~fl~YA~~VI~~RAlP~v~DGLKPvqRrIL~am~~~~---~~~~~K~A~ivG~v~-~YHPHGd~SiydalV~ 78 (635)
T PRK09631 3 DIKTLFKDNFLQYASYVIKDRAIPDVIDGLKPVQRRILHSLFEMH---DGKFHKVANVVGNTM-KYHPHGDASIYEALVN 78 (635)
T ss_pred cHHHHHHHHHHhhhHHhhhhccCCchhhCCCcchhhhhHhhhhcc---CCCceeeeeeccccc-ccCCCchHHHHHHHHH
Confidence 789999999999999999999999999999999999999999984 689999999999999 9999999999999999
Q ss_pred HhhcCccccccccCCCCCCCC-CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeeecC
Q psy14505 92 MAQSFSLRCTLVDGQGNFGSI-DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLING 170 (1619)
Q Consensus 92 maq~~~~~~pl~~~~GnfGs~-~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~ng 170 (1619)
||| |+|||||||||||+ +||+||||||||||||++|++||. ++++|+|+|||||++.||+||||+||||||||
T Consensus 79 maq----~~~Lid~qGnFGs~l~Gd~aAA~RYte~rLs~~a~~~~~--~~~~v~~~~n~Dg~~~EP~~lp~~~P~lLvNG 152 (635)
T PRK09631 79 LAN----KDLFIDKQGNFGNLFTGDPASAARYIECRLTPLAKEVLY--NKEITEYEPSYDGRNNEPLCLPAKIPVILIQG 152 (635)
T ss_pred hcC----CcceeecCCCCCCCCCCChhhhHHHHHHhhhHHHHHHhc--CcCcccCCcCCCCCccCCccccccCceeeecC
Confidence 999 58999999999999 999999999999999999999996 68999999999999999999999999999999
Q ss_pred CcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEEEEE
Q psy14505 171 SSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTHIEE 250 (1619)
Q Consensus 171 ~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~~~~ 250 (1619)
|+|||||||||||||||.|||+|++++|++|+++ ++|||||||+|. .++|+||+|++.+||++++++
T Consensus 153 a~GIavG~aT~IpphN~~evi~a~~~~l~~~~~~--------~~PdFptGgii~-----~~~Y~tG~G~~~~r~~~~~~~ 219 (635)
T PRK09631 153 AEGIAVGMATKILPHNFNEILQAVKSELLGESFA--------LYPDFPTGGIVD-----VSEYADGNGKVLVRAKIETKD 219 (635)
T ss_pred CcceeeeeecCCCCCCHHHHHHHHHHHhcCCCcc--------ccCCCCCCcEEE-----eeeeecCCceEEEEEEEEEec
Confidence 9999999999999999999999999999999875 389999999986 468999999999999999873
Q ss_pred eccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccccce
Q psy14505 251 FNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQNTF 330 (1619)
Q Consensus 251 ~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~~~~ 330 (1619)
.++|+||||||++|+++|+++|++++++|+++ |++++|+|++ ++||+|+|+++++++.++++|||+|+||++|
T Consensus 220 -----~~~ivItEiP~~~~~~~li~~i~~~~~~~ki~-I~~i~D~s~~-~v~i~i~l~~~~~~~~~~~~Lyk~t~lq~s~ 292 (635)
T PRK09631 220 -----EKTIVIREIPFGTTTESLIASIEKAARKGKIK-ISSINDYTAE-NVEIEIKLPRGVYASEVIEALYAYTDCEVSI 292 (635)
T ss_pred -----CCEEEEEeCCCcccHHHHHHHHHHHHHcCCCc-cceeEeCCCC-cEEEEEEECCCCCHHHHHHHHHHhcCceeEe
Confidence 36899999999999999999999999999998 9999999996 6999999999999999999999999999999
Q ss_pred eeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhchhHHHHHHHcCCCHHHHHH
Q psy14505 331 GMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAH--ILEGLTIALTNIDNFIQIIRSTSTPQEAKN 408 (1619)
Q Consensus 331 ~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~--ileg~~~a~~~id~vi~iir~s~~~~~a~~ 408 (1619)
++||++++|++|+++++++||++|++||+++++||++|+|+++++|+| +|||+++| ++||++|++++++++..+++.
T Consensus 293 ~~n~~~i~~~~p~~~~l~~il~~~~~~r~~vl~rr~~~~l~k~~~r~h~~~legl~i~-~~i~~~i~~~~~~~~v~~~i~ 371 (635)
T PRK09631 293 SVNLLVIKDRYPVIYTVTDIIKFHAEHLQKVLKMELELERAKLLEKIFAKTLEQIFIE-ERIYKRIETISSEEDVISIVL 371 (635)
T ss_pred eeeEEEEECCcCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhhHHhh-hhHHHHHHhhcCHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999 79999999 999999999999998888888
Q ss_pred HHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHHH
Q psy14505 409 KIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVID 488 (1619)
Q Consensus 409 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~~ 488 (1619)
++++. ++.- ...+||++||+|||+|||+|||++|++|+++|+++|+++|++
T Consensus 372 ~~~~~------~~~~-----------------------l~~~~t~~qa~ail~mrl~rlt~~e~~k~~~e~~~l~~~i~~ 422 (635)
T PRK09631 372 SELKP------FKEE-----------------------LSRDVTEEDIENLLKIPIRRISLFDIDKNQKEIRILNKELKS 422 (635)
T ss_pred hccch------hhHh-----------------------hhcCCCHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 77653 1100 014799999999999999999999999999999999999999
Q ss_pred HHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccccCCCCccccccCcceEEEEccCccEEeccCchhhhcccC
Q psy14505 489 LTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNAINPSTEDLIASQDMVITLSNLGYIKSQPISEYRAQKRG 568 (1619)
Q Consensus 489 l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~~~r~ 568 (1619)
|+.+|+| +++++++||.+++++||+ ..||||+|.... +++.++ |++++++|++|+.
T Consensus 423 ~~~~L~~---~~~~~~~el~~l~~kyg~--~~~RrT~i~~~~-~i~~~~-i~~~~vkV~id~~----------------- 478 (635)
T PRK09631 423 VEKNLKS---IKGYAINFIDKLLAKYSK--EYPRKTEISLIK-SVDVRE-IATKNLKVYYDLK----------------- 478 (635)
T ss_pred HHHHHHH---HHHHHHHHHHHHHHHhCC--CCCCcceecCcC-ccCHHH-ccCCCeEEEEECC-----------------
Confidence 9999999 999999999999999998 569999997543 566674 9999999999973
Q ss_pred CCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCC-CceEEEEEecCCCCC
Q psy14505 569 GRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKN-KEKITVILPLSNNKR 647 (1619)
Q Consensus 569 g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~-~e~i~~i~~~~~~~~ 647 (1619)
.|..++.+++||+ ++.|++||+||+||++|++ +++++|+.+|.++|.++.+++++.+ +|++.+++..+
T Consensus 479 -~G~iG~~~K~gD~---l~~~st~D~LLvFT~~Gk~---KV~~Ipe~~~~~kGi~i~~~l~k~d~~EkI~svIY~D---- 547 (635)
T PRK09631 479 -TGFVGTSVKDGEF---IGNASYYDKILVIRKDGTY---VVKNIPDKTFIDKKNVYVGVVDINNSKEQVFSIIYRD---- 547 (635)
T ss_pred -CCcccCccCCCce---EEEEeCCCEEEEEeCCCcE---EEEECCccCcCCCCcChheeecCCCCCCeEEEEEEEe----
Confidence 1233456788888 6899999999999999995 8999999999999999999999888 99999988662
Q ss_pred CCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEE-EeC-C---ceEEEEecccccc
Q psy14505 648 DFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIML-FSD-S---GKAVRFNENSVRA 722 (1619)
Q Consensus 648 ~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll-~T~-~---G~~~~~~~~eIp~ 722 (1619)
.+. ..=|+||.....+...+. ..-+.++-.+..+. ++....+-+ |.. . -...-++..+++.
T Consensus 548 ---g~~------~~~YiKRF~i~~~~~dKe----y~~~~e~~~l~~~s-~~~~~~i~v~~~~~~~~~~~~~~~d~~ef~V 613 (635)
T PRK09631 548 ---KKD------NFYYVKRFKIDKFILDKV----YRFLPEGTEILFLS-TFEDFSLNLQFVPKPRQKDIVKMFRIDDFLV 613 (635)
T ss_pred ---CCC------CceEEEEEecccccccce----eeccCCCceEEEEe-cCCCcEEEEEEccCCcccccceEEeHHHcee
Confidence 111 223899999877544331 11112333332222 222222222 222 1 2344556677777
Q ss_pred cCCCCCCccc
Q psy14505 723 MGRSARGVIG 732 (1619)
Q Consensus 723 ~~r~a~Gv~~ 732 (1619)
-|++|+|..+
T Consensus 614 KG~~A~Gnrl 623 (635)
T PRK09631 614 KGRSAIGKRI 623 (635)
T ss_pred ccccccceEe
Confidence 7777777654
No 9
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=3e-132 Score=1231.86 Aligned_cols=692 Identities=26% Similarity=0.414 Sum_probs=564.5
Q ss_pred eccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHH
Q psy14505 10 SILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDAL 89 (1619)
Q Consensus 10 ~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~ 89 (1619)
..+|+++|+++||+||||||++|||||++||||||||||||+|++++ +++|+|||++||+|| +||||||+|+||||
T Consensus 20 ~~~l~~~~~~~fLdYA~yVI~~RAiP~v~DGLKPvQRRIL~am~~~~---~~~~~KvA~ivG~v~-~YHPHGD~Siydai 95 (869)
T PRK12758 20 LTHVSGMYKNWFLDYASYVILERAVPHIEDGLKPVQRRILHSMKEMD---DGRYNKVANVVGHTM-QYHPHGDASIGDAL 95 (869)
T ss_pred cccHHHHHHHHHHhhhHhhhhcccCCchhcCCCcchhhhhHhhhhcC---CCCceeEeeeehhhh-ccCCCchHHHHHHH
Confidence 46899999999999999999999999999999999999999999974 689999999999999 99999999999999
Q ss_pred HHHhhcCccccccccCCCCCCCC-CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeee
Q psy14505 90 VRMAQSFSLRCTLVDGQGNFGSI-DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLI 168 (1619)
Q Consensus 90 v~maq~~~~~~pl~~~~GnfGs~-~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~ 168 (1619)
|+|||+ +|||||||||||+ +||+||||||||||||++|++|+ +++++++|++||||+..||+|||++||||||
T Consensus 96 V~MAQ~----~~Lid~qGNFGsi~~Gd~aAA~RYieaRLs~~a~~~l--~~~~~vd~~~nyDg~~~EP~~LP~k~P~lLv 169 (869)
T PRK12758 96 VQLGQK----DLLIDTQGNWGNILTGDGAAAPRYIEARLSKFALEVV--FNPKTTEWQLSYDGRKKEPVTLPVKFPLLLA 169 (869)
T ss_pred HHHhCc----CcEEeccCCCCCCCCCCcccchhhHhhhhhHHHHHHc--CCccccCCCcCCCCcccccccccCcCceeee
Confidence 999997 5799999999998 99999999999999999999866 4789999999999999999999999999999
Q ss_pred cCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecc--cEEEEeEEE
Q psy14505 169 NGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGK--GRVIIRAKT 246 (1619)
Q Consensus 169 ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~--G~~~~~~~~ 246 (1619)
|||+||||||||+||||||.|||+|++++|++++++. +|||||||+|. .++|+||+ |++.+||++
T Consensus 170 NGs~GIAvG~aT~IpPHN~~Evida~~~~l~~~~~~~--------~PDFpTGgii~-----~~~y~~G~~~G~i~vrgki 236 (869)
T PRK12758 170 QGAEGIAVGLSTKILPHNFNELIDASIAYLKGKEFKL--------YPDFPTGGIID-----VSNYNDGERGGRVRVRAKI 236 (869)
T ss_pred ccCcceeeccccCCCCCCHHHHHHHHHHHhcCCCCCC--------CCCCCCCcEEE-----eeecccCccceEEEEEEEE
Confidence 9999999999999999999999999999999999763 79999999986 36899999 999999998
Q ss_pred EEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhccc
Q psy14505 247 HIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQL 326 (1619)
Q Consensus 247 ~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l 326 (1619)
+.. ++++|+||||||++|+++|+++|++++++++++ |++++|+|+ +++||+|+|+++++++.++++||++|+|
T Consensus 237 e~~-----~~~~ivItEiPy~~~t~~lie~I~~~~~~~ki~-I~di~D~s~-~~vrivI~lk~~~~~~~~~~~Ly~~T~l 309 (869)
T PRK12758 237 EKL-----DKKTLVITEIPYGTTTSSLIDSILKANDKGKIK-IKKVEDNTA-ADVEILVHLAPGVSPDKTIDALYAFTDC 309 (869)
T ss_pred EEc-----CCCEEEEEecCCcccHHHHHHHHHHHHhcCCCc-eeeeEecCC-CceEEEEEeCCCCCHHHHHHHHHhhcCc
Confidence 532 467899999999999999999999999999998 999999998 5699999999999999999999999999
Q ss_pred ccceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhchhHHHHHHHcCCCHH
Q psy14505 327 QNTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHI--LEGLTIALTNIDNFIQIIRSTSTPQ 404 (1619)
Q Consensus 327 ~~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~i--leg~~~a~~~id~vi~iir~s~~~~ 404 (1619)
|++|++||+++++++|+++++++||++|++||+++++||++|+|+++++|+|+ |||+++ +|+||++||+|++.+
T Consensus 310 q~s~s~n~~vi~d~~P~~~~l~eiL~~~~~~r~~vl~rr~~~~l~k~~er~hi~~le~i~i----~d~Ii~~Ir~s~~~~ 385 (869)
T PRK12758 310 EVSISPNACVIIDNKPHFLGVSDILRRSTDHTVSLLKQELEIRLSELEEQWHFASLEKIFI----EERIYKEIEEAETWE 385 (869)
T ss_pred eeEeeeeEEEEECCeeeECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHh----hhHHHHHHHcCCCHH
Confidence 99999999999999999999999999999999999999999999999999999 899986 499999999999999
Q ss_pred HHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHH
Q psy14505 405 EAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIK 484 (1619)
Q Consensus 405 ~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~ 484 (1619)
+|++.|++. |.+. +......||++||+|||+|||+|||++|++|+.+|+++|++
T Consensus 386 ~a~~~l~~~-~~p~-------------------------~~~l~r~lte~qa~aIlemrL~rlt~le~~k~~~e~~~l~~ 439 (869)
T PRK12758 386 AVIEAIDKG-LEPF-------------------------KKQFIREVTEDDIVRLTEIKIKRISKFDSDKADELIARLEA 439 (869)
T ss_pred HHHHHHHHh-cccc-------------------------hhhhcCCCCHHHHHHHHHhHHHHHhchhHHHHHHHHHHHHH
Confidence 999999975 2221 01111369999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccccCCCCccccccCcceEEEEccCccEEeccCchhhh
Q psy14505 485 KVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNAINPSTEDLIASQDMVITLSNLGYIKSQPISEYRA 564 (1619)
Q Consensus 485 ~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~ 564 (1619)
+|++|+.+|+| +++++++||.+++++||+ ..+|||+|.... + |+.+++++. +.+||++|+
T Consensus 440 ~i~~~~~~L~~---l~~~ii~el~~i~~kyg~--~~~RrTeI~~~~-~------i~~~~v~~~-~~~~yi~r~------- 499 (869)
T PRK12758 440 EIAEVKHHLAH---LTDYAIAYFTNLKKKYGK--GRERKTEIRNFD-T------IEATKVVEA-NQKLYVNRE------- 499 (869)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHhCC--CCCCcceecCcC-c------cccceEEEE-ecceEEEec-------
Confidence 99999999999 999999999999999998 569999996432 1 345666666 999999985
Q ss_pred cccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEE--EEec
Q psy14505 565 QKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITV--ILPL 642 (1619)
Q Consensus 565 ~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~--i~~~ 642 (1619)
.|..+++++++|++ ..|++||+|++||+.|++|++++ ..|...|.++.++..+.++++.+- ++.-
T Consensus 500 -----~G~~g~~~k~~d~v---~~~s~~d~ll~ft~~G~~~~~kv-----~~k~~~Gk~i~~~~~~~~~~~~~~~~~iy~ 566 (869)
T PRK12758 500 -----EGFIGTGLKKDEYV---ADCSDIDDVIVFRRDGKYMVTKV-----ADKTFVGKDIIHVAVFKKNDKRTIYNMIYR 566 (869)
T ss_pred -----cceecCcccCCceE---EEecCCCeEEEEecCCEEEEEEC-----CccccCCCcceEEeecCCCCcceEEEEEEE
Confidence 35677889999866 59999999999999999999998 345678999999888776554332 2221
Q ss_pred CCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCC-eEE--EEeC----CceEEEE
Q psy14505 643 SNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSY-DIM--LFSD----SGKAVRF 715 (1619)
Q Consensus 643 ~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d-~ll--l~T~----~G~~~~~ 715 (1619)
+. -+..-|+||.....+...+. .....-.++..+.+...-.+.. .++ .+.. +-..+.+
T Consensus 567 --------d~-----~~~~~~~krf~v~~~~~dk~--y~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 631 (869)
T PRK12758 567 --------DG-----KSGPSYIKRFNVTGVTRDKE--YDLTQGTPGSKVLYFSANPNGEAEVVTVTLKPNGRIKKLKFDL 631 (869)
T ss_pred --------cC-----CCCceEEEEeecccEEecce--eeccCCCCCCEEEEEecCCCCceEEEEEEEecCCccceeEEee
Confidence 11 12334789988776543321 0001112233333322211111 110 1111 1234456
Q ss_pred ecccccccCCCCCCccc-------eecCC-CC-----EEEE----------------EEEecCCCCcEEEEEecCceeEE
Q psy14505 716 NENSVRAMGRSARGVIG-------MRLEK-KQ-----KVIA----------------LLVSNNQKQSVLTATENGYGKRT 766 (1619)
Q Consensus 716 ~~~eIp~~~r~a~Gv~~-------i~L~~-~e-----~Iv~----------------~~~~~~~~~~ll~~T~~G~~Kr~ 766 (1619)
..++++.-||+++|..+ +.|++ |- .-++ +.-+.+ .+.+++++++|..+-+
T Consensus 632 ~~~~~~ikg~~~~g~~~~~~~v~~i~~k~~g~stl~~rkIwfD~~vgRLN~d~rgE~lgefs~-~D~ILVi~kdG~ykvt 710 (869)
T PRK12758 632 DFSEIAIKGRGSKGNILTKYPVKKIELKEKGVSTLGGRKVWFDDDVGRLNYDERGELLGEFKG-DDKILVILQDGDYYTT 710 (869)
T ss_pred chhhhccccccccceEecccceeeEEeeccCccccCCceEEECCccCccccCCCceEEEecCC-CceEEEEecCCeEEEE
Confidence 66899999999999543 33321 10 0000 001111 3679999999988877
Q ss_pred ecccccccccccccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEEEEecC
Q psy14505 767 LIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILIRTRVS 820 (1619)
Q Consensus 767 ~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~lrf~~~ 820 (1619)
.+++ ...-++.+..+---+ .+.+.+|...+++..-+ ++-||.+.
T Consensus 711 ~v~~---k~f~g~dii~iek~D-~~kiys~IY~DG~~~~~------YiKRF~ie 754 (869)
T PRK12758 711 NFEL---TNHYEPNIIVLEKFD-PEKPWSAIYYDGEKKNY------YVKRFLIE 754 (869)
T ss_pred eccc---cceecCCeEEEEEcC-CCceEEEEEECCCCCce------EEEEEEEe
Confidence 7654 223334455443333 46778877777654332 56788875
No 10
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=100.00 E-value=2e-132 Score=1198.77 Aligned_cols=444 Identities=57% Similarity=0.875 Sum_probs=432.4
Q ss_pred ccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHHHHHhhcCccccccccCCCCC
Q psy14505 30 VGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDALVRMAQSFSLRCTLVDGQGNF 109 (1619)
Q Consensus 30 ~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~v~maq~~~~~~pl~~~~Gnf 109 (1619)
++|||||+|||||||||||||||+++|++++++|+||||+||+|||+||||||+|+|||||||||+||||+|||||||||
T Consensus 1 ~~RAiPdv~DGLKPvqRrILyam~~~~~~~~~~~~K~A~lvG~v~g~~hpHGd~Siy~aiV~MAQ~fs~n~pLldg~GnF 80 (445)
T cd00187 1 NGRALPDVRDGLKPVQRRILYAMFKRGLTPDKPEKKVARLVGDVAGKYHPHGDSSLYDTIVRMAQDFSNNIPLLDPQGNF 80 (445)
T ss_pred CCCCCCchhcCCCchHHHHHHHHHHhCCCCCCCceeehhhhhhHhhccCCCchHHHHHHHHHHhhhccccceeEeCCCCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeeecCCcceeeeeecCCCCCChHH
Q psy14505 110 GSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLINGSSGIAVGMATNIPPHNLTE 189 (1619)
Q Consensus 110 Gs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~ng~~Gia~G~at~ip~~n~~e 189 (1619)
||+|||+||||||||||||++|+.||+++|+++|+|+|||||+..||+||||+|||||||||+|||||||||||||||.|
T Consensus 81 GS~~Gd~aAA~RYte~rLs~~a~~l~~d~d~~~v~~~~n~Dg~~~EP~~lp~~iP~lLvNGs~GIavG~aT~IPphN~~e 160 (445)
T cd00187 81 GSRDGDDAAAMRYTETRLSPIARLLLPDIDDPTVDFVPNYDGQEVEPEVLPPIFPNLLVNGSSGIAVGMATNIPPHNLRE 160 (445)
T ss_pred CCCCCCcccchHHHhhhhhHHHHHHHhhcCccccccccCCCCCccCCccccccCCeeeeecCcceeeeeccCCCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEEEEEeccCCccEEEEEecCCccc
Q psy14505 190 VIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTHIEEFNRENRTAIIIDELPYQVN 269 (1619)
Q Consensus 190 v~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~~~~~~~~~~~~i~itelP~~~~ 269 (1619)
||+|++++|++|++++++||+++|+|||||||+|.+.+|+.++|+||+|++++||+|++++. .++++|+||||||++|
T Consensus 161 vi~a~~~~l~~~~~~~~~l~~~~~~Pdfptgg~I~~~~~~~~~y~tG~g~~~~rg~~~~~~~--~~~~~i~ItElP~~~~ 238 (445)
T cd00187 161 VIDALRALIDNPEASIDELMEIIKGPDFPTGGIIEGRAGIREAYETGRGRYIIRGKYEIEDD--EGRNTIEITELPYQVN 238 (445)
T ss_pred HHHHHHHHhcCCCCCHHHHhcCCCCCCCCCCCEEecChhHHHHhhcCCceEEEEEEEEEEcc--CCCceEEEEeCCCccc
Confidence 99999999999999999999999999999999999999999999999999999999999853 2678999999999999
Q ss_pred HHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccccceeeeEEEEE-CCeeeeeCHH
Q psy14505 270 KKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQNTFGMNMLALV-NGQPKLLNLK 348 (1619)
Q Consensus 270 ~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~~~~~~n~~~~~-~~~p~~~~l~ 348 (1619)
+++|+++|+++++++++++|++|+|+|+++|+||+|++|++++++.++++|||+|+||++|++||++|+ +|+|+.+|++
T Consensus 239 ~~~~~e~i~~l~~~~k~~~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t~L~~s~~~Nm~~~~~~g~p~~~~l~ 318 (445)
T cd00187 239 KAKLKEKIAELVKDKKIEGISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQTTFGINMVAFDPNGRPKKLNLK 318 (445)
T ss_pred HHHHHHHHHHHHhcCCCcccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhcCCceeeeeeEEEEecCCeeEEeCHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHHHHHHHHHhhcCCCCchhhhhhccc
Q psy14505 349 EILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQEAKNKIIESTWNLPDVSKIIGFNK 428 (1619)
Q Consensus 349 ~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~ 428 (1619)
+||++|++||+++|+||++|+|+++++|+|+|+|+++|++++|+||++||+| ++|++.||+. +.
T Consensus 319 ~iL~~f~~~R~~~~~rR~~~~l~k~~~rl~il~g~~~~i~~id~vi~~ir~s---~~ak~~L~~~---------l~---- 382 (445)
T cd00187 319 EILQEFLDHRLEVYTRRKEYELGKAEARLHILEGLLKAILNIDEVINLIRSS---DEAKKALIEE---------LE---- 382 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc---HHHHHHHHHH---------HH----
Confidence 9999999999999999999999999999999999999999999999999999 8999999986 00
Q ss_pred ccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Q psy14505 429 KNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELN 508 (1619)
Q Consensus 429 ~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~ 508 (1619)
..+||+.||+|||+|||++||++++++|++|+++|++++++|+.+|+|+.+++++|++||+
T Consensus 383 -------------------~~~~~~~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ei~~l~~~l~~~~~~~~~i~~eL~ 443 (445)
T cd00187 383 -------------------KLGFSEIQADAILDMRLRRLTKLEREKLLKELKELEAEIEDLEKILASEERPKDLWKEELD 443 (445)
T ss_pred -------------------hcCCCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence 0389999999999999999999999999999999999999999999999999999999998
Q ss_pred HH
Q psy14505 509 II 510 (1619)
Q Consensus 509 ~i 510 (1619)
++
T Consensus 444 ~~ 445 (445)
T cd00187 444 EF 445 (445)
T ss_pred hC
Confidence 75
No 11
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=100.00 E-value=6e-126 Score=1151.10 Aligned_cols=438 Identities=58% Similarity=0.892 Sum_probs=424.3
Q ss_pred ccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHHH
Q psy14505 11 ILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDALV 90 (1619)
Q Consensus 11 ~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~v 90 (1619)
++++++|.++|++||||||++|||||+|||||||||||||||+++|+.+++.|+|||+++|++||+||||||+|+|||||
T Consensus 1 ~~~~~~~~~~~i~ya~~vi~~RaiP~v~DGLKPvqRrILyam~~~~~~~~~~~~k~a~~~g~~~~~YHpHGd~Siy~aiV 80 (445)
T smart00434 1 IDIEDFINKEYLDYSMSVINGRAIPDVRDGLKPVQRRILYAMFKRGLTPDEPKVKSARGVGDVMGKYHPHGDSSLYDAIV 80 (445)
T ss_pred CCHHHHHHHHHHHHHHHHHhccCCCccccCCCchhhHHHHHHHHcCCCCCCceeEEEEEEEeeccCCCCCchHHHHHHHH
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCccccccccCCCCCCCC-CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeeec
Q psy14505 91 RMAQSFSLRCTLVDGQGNFGSI-DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLIN 169 (1619)
Q Consensus 91 ~maq~~~~~~pl~~~~GnfGs~-~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~n 169 (1619)
||||+|+||+|||||||||||+ |||+||||||||||||++|+.||+++|+++|+|+|||||+++||+||||+|||||||
T Consensus 81 ~mAQ~f~~n~pLl~~~GnFGs~~~g~~aAA~RYte~rLs~~a~~l~~~~d~~~v~~~~n~Dg~~~EP~~lp~~iP~lLvN 160 (445)
T smart00434 81 RMAQDFSNNYPLLDGQGNFGSRLDGDDAAAMRYTETRLSPLARELLPDIDKDTVDFVPNYDGQEIEPTVLPPIIPNLLVN 160 (445)
T ss_pred HHhcccccccceEeCCCCCCCCCCCCcccchHHHHHhHHHHHHHHHhhcCcccccCCcCCCccccCCccccccCCeeeee
Confidence 9999999999999999999999 999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEEEE
Q psy14505 170 GSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTHIE 249 (1619)
Q Consensus 170 g~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~~~ 249 (1619)
||+||||||||+||||||.|||+|++++|++++++.++||.++|||||||||.+.+ .|++.+||+++++
T Consensus 161 Gs~GIavG~aT~IpphN~~evi~~~~~~l~~~~~~~~~l~~~~~~pdF~~g~~~~~-----------~~~~~~rg~~~~~ 229 (445)
T smart00434 161 GSSGIAVGMATNIPPHNLREVIDAVRRLIDNPEASIDELMMIPWGPDFPTGGEIIG-----------PGSYVVRGKIEIE 229 (445)
T ss_pred cCcceeeeeecCCCCCCHHHHHHHHHHHhCCCCCCHHHHhcCCcCCCCCCeeEEec-----------CCeEEEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999998765 3589999999997
Q ss_pred EeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeeccc-CCcceEEEEEecCCCCHHHHHHHHHhhccccc
Q psy14505 250 EFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDES-DKSGMRIVIELKRNEIPEIVLNKLYKQTQLQN 328 (1619)
Q Consensus 250 ~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s-~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~~ 328 (1619)
+ ++++|+||||||++|+++|+++|++++++++++||.+++||| +++|+||+|++|++++++.++++|||+|+||+
T Consensus 230 ~----~~~~ivItElP~~~~~~~~~e~I~~lv~~~ki~~i~~~~des~~~~~vrivI~lk~~~~~~~~~~~L~k~t~Lq~ 305 (445)
T smart00434 230 D----GRNTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDESHDRTGVRIVIELKRGAMAEVVLNGLYKLTKLQS 305 (445)
T ss_pred c----CCceEEEEeCCCcccHHHHHHHHHHHHhcCCCCcceehhhccCCCCceEEEEEECCCcCHHHHHHHHHHhcCCee
Confidence 4 457899999999999999999999999999999999999998 89999999999999999999999999999999
Q ss_pred ceeeeEEEEE-CCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhchhHHHHHHHcCCCHH-H
Q psy14505 329 TFGMNMLALV-NGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAR-EYAHILEGLTIALTNIDNFIQIIRSTSTPQ-E 405 (1619)
Q Consensus 329 ~~~~n~~~~~-~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~-~r~~ileg~~~a~~~id~vi~iir~s~~~~-~ 405 (1619)
+|++||++++ +|+|+.+++.+||++|++||+++|+||++|+|++++ +|+|+++|++++..++|++|.+||++++.. +
T Consensus 306 s~~~n~~~l~~~g~p~~~~l~~iL~~f~~~R~~~~~rR~~~~l~k~~~~r~~~~~~~fi~~~~~d~ii~~ir~~~~~~~~ 385 (445)
T smart00434 306 TFSINMLALFDNGKPKKYNLKEILKEFLDHRLEVYTRRKEYLLGKLEAERLHILEGLFIALSIIDEIIVLIRSSKDLAKE 385 (445)
T ss_pred eeceeEEEEecCCeeEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHhhccchhHHH
Confidence 9999999999 999999999999999999999999999999999999 999999999999999999999999999965 8
Q ss_pred HHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHH
Q psy14505 406 AKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKK 485 (1619)
Q Consensus 406 a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~ 485 (1619)
|++.|++. |++|+.||+|||+|||+|||++++++|++|+++++++
T Consensus 386 ~~~~l~~~-----------------------------------f~~~~~q~~~IL~m~L~~LT~~e~~kL~~e~~~l~~e 430 (445)
T smart00434 386 AKELLMER-----------------------------------FELSEEQADAILDMRLRRLTKLEVEKLEKELKELEKE 430 (445)
T ss_pred HHHhCCcc-----------------------------------CCCCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHH
Confidence 88888754 8899999999999999999999999999999999999
Q ss_pred HHHHHHHhcCHHH
Q psy14505 486 VIDLTDILSNSKR 498 (1619)
Q Consensus 486 i~~l~~iL~~~~~ 498 (1619)
+++|+++|+++..
T Consensus 431 i~~l~~~l~~~~~ 443 (445)
T smart00434 431 IEDLEKILASELW 443 (445)
T ss_pred HHHHHHhccchhh
Confidence 9999999999654
No 12
>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional
Probab=100.00 E-value=3e-117 Score=1137.52 Aligned_cols=742 Identities=32% Similarity=0.540 Sum_probs=680.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCC--------CCCcHHHHH-----HHHHcccceec
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNI--------QLDNELELV-----ILIKKLNYNFL 926 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~--------~~~~~~~~~-----~~~~~~~~~~~ 926 (1619)
++|+++|++|+||+|.++.+|++||+.|+|||+||||+||+|+++|+ +.++++++. ..+.+..+.+.
T Consensus 35 ~~i~idG~~gsGKst~~~~la~~l~~~~~~~g~~yRa~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 114 (863)
T PRK12269 35 VIIALDGPAGSGKSSVCRLLASRLGAQCLNTGSFYRAFTLAALRRVSELAVQACSPSPDPDAAVGCAAVPHATNLDTSYA 114 (863)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCcEEeHHHHHHHHHHHHHHcCCcccccccCCcCCHHHHhhhhhHHHHhhCceEec
Confidence 58999999999999999999999999999999999999999999997 446666554 44666666552
Q ss_pred ----------------------------CceEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEE
Q psy14505 927 ----------------------------GKEVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVA 978 (1619)
Q Consensus 927 ----------------------------~~~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~ 978 (1619)
...+|+||+||+.+||+++++..+|.+|++|.||++|.++||+++..+++||
T Consensus 115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~dv~~~ir~~~v~~~vS~ia~~p~VR~~l~~~qr~~~~~~~~V~ 194 (863)
T PRK12269 115 PLTAQKKVALFDEAYWVSFARTVALSYRAGVMYVGEENVESLLRSDEVESAVSYFAAMPAIRAIMTGKIRSAVCGARVVC 194 (863)
T ss_pred ccccccccccccccccccccccccccccCceEEECCeEchhhhcchHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCEEE
Confidence 1269999999999999999999999999999999999999999999899999
Q ss_pred eccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCccc
Q psy14505 979 DGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMN 1058 (1619)
Q Consensus 979 ~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ 1058 (1619)
|||||||+|||||++||||+||+++||+||++||.. ..++++++++|.+||++|++|..+||.+|+||++||||+|+
T Consensus 195 eGRDigTvVfPdA~~KifL~As~e~RA~RR~~e~~~---~~~~~~i~~~i~~RD~~D~~R~~~pL~~a~dAi~iDts~l~ 271 (863)
T PRK12269 195 EGRDLTTVVFVDADLKCYLDASIEARVARRWAQGTS---RLSKQELEQRMRARDAHDRARTVGGLRCAPDALYVDTSCLT 271 (863)
T ss_pred ECCCCccEECCCCCEEEEEECCHHHHHHHHHHhhhc---cCCHHHHHHHHHHhhhhhccCccCCCccCCCeEEEECCCCC
Confidence 999999999999999999999999999999999864 37999999999999999999999999999999999999999
Q ss_pred chhhhhhhhhhhhh------------------------hhhhhcccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEe
Q psy14505 1059 INQVVNQILDCFAT------------------------LFKESLLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIP 1114 (1619)
Q Consensus 1059 ieevv~~I~~~i~~------------------------ll~e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~ 1114 (1619)
+|+|++.|++++.. +++ ..+...+++|++|+|+|+++++++++||+|.+.+|+||
T Consensus 272 ieevv~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~G~iV~G~Vv~i~~~~v~VdiG~K~eGiI~ 350 (863)
T PRK12269 272 IEEVCERIAREAHRRALWGGERSVENQEGKGTPLVPRQLQE-RYSFEAPEPGSVRMGTVVQVNAGTVFVDIGGKSEGRVP 350 (863)
T ss_pred HHHHHHHHHHHHHhccccccccccccccccCCCchhHHHHH-hhccccCCCCCEEEEEEEEEECCEEEEEeCCCceEEeE
Confidence 99999999987653 222 22345689999999999999999999999999999999
Q ss_pred cccccccCCCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHHhHHHHHHHccCCCEEEEEEEEEE--eCeEEEEeC-C
Q psy14505 1115 IEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLASWLSLEKAMESGEIITGTINGKV--KGGLTVLTN-G 1191 (1619)
Q Consensus 1115 ~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~~~~~~~~~l~~G~~v~g~V~~v~--~~Gl~V~~g-g 1191 (1619)
.+|+.. .+++|+.|.|.|+++++. + +.||..++.....|..+.++++.|++++|+|.++. ++|++|+++ +
T Consensus 351 ~~E~~~-----~~kvGd~i~~~V~~~~~~-~-~~LS~~~~~~~~~~~~l~~a~~~g~~V~G~Vv~v~~~kgG~~Vdig~~ 423 (863)
T PRK12269 351 VEEFEA-----PPKAGDGVRVYVERVTPY-G-PELSKTKADRLGLKVKLRDAERDGTPVEGRIVRLTEKKSGFEVDLGAG 423 (863)
T ss_pred HHHhcc-----CCCCCCEEEEEEEEEcCC-c-eEEEehHhhhhHHHHHHHHHHhCCCeEEEEEEEEEeecCEEEEEECCC
Confidence 999943 368999999999998875 4 88999999888999999999999999999999974 579999997 8
Q ss_pred EEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEec-----CCCeEEeecchhhhhhhhHHHHHHHhccCCCcEEEEEEEE
Q psy14505 1192 LKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDR-----KRNNVVLSHRAVIEESMGEERQKLIETLKEGCTVKGVVKN 1266 (1619)
Q Consensus 1192 ~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~-----~~~~i~LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~ 1266 (1619)
+.||+|.++++.+..++...++|++++|.|+.+++ ..+++++|++.++.+.........++.+++|++++|+|.+
T Consensus 424 ~~gfiP~se~~~~~~~~~~~~vG~~ie~~V~~~~~~~~~~~~~~iVlSrr~~l~e~~~~~~ee~~~~l~~G~~V~G~Vk~ 503 (863)
T PRK12269 424 MMAFLPISQSDCQKVDAPESLIGLTSKFYIERISQSKQHRGNDNIVINRRRYLEERARQAREEFFNSVHIEDSVSGVVKS 503 (863)
T ss_pred cEEEEEHHHhccccccchHHhCCCeEEEEEEEEecccccCCCCeEEEEHHHHHHHHHHHHHHHHHhcCCCCCEEEEEEEE
Confidence 99999999998877777777799999999999875 3468999999988776666677778899999999999999
Q ss_pred EecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccCCccccccccccceeEE
Q psy14505 1267 ITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLL 1346 (1619)
Q Consensus 1267 v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~ 1346 (1619)
+.++|+||+++|++||+|.++++|.+..+|.+.|++||+++|+|+.+|++++++.||+|+...+||..+.+.+++|++++
T Consensus 504 i~~~G~fVdl~Gv~Gfvp~SeiS~~~v~~~~~~~kvGq~v~vkVi~iD~e~~rI~LSlK~l~~~p~~~~~~~~~vG~iV~ 583 (863)
T PRK12269 504 FTSFGAFIDLGGFDGLLHVNDMSWGHVARPREFVKKGQTIELKVIRLDQAEKRINLSLKHFQPDPWLEFENKFGVNDVVK 583 (863)
T ss_pred EeCCcEEEEECCEEEEEEchhccccccCCHHHhccCCCEEEEEEEEEecCCCeEEEEEeccccchhhhhhccCCCCCEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999888999999999
Q ss_pred EEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCCCCccccccc
Q psy14505 1347 GKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDNPWENFSIIH 1426 (1619)
Q Consensus 1347 g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~ 1426 (1619)
|+|+++.+||+||++++|++||+|.++++|.....+|.+.|++||+|+|+|+++|+++++++||+|++..+||..+.+.|
T Consensus 584 G~V~~I~~fG~fVeL~~gveGLvhiSEls~~~~~~~p~~~~kvGd~V~vkVl~iD~e~~rIsLS~K~l~~~Pw~~~~~~~ 663 (863)
T PRK12269 584 GRVTKIADFGAFIELAEGIEGLAHISEFSWVKKTSKPSDMVKIGDEVECMILGYDIQAGRVSLGLKQVTANPWEEIEARY 663 (863)
T ss_pred EEEEEEeCCeEEEEecCCceeeeEHHHhcCccccCCHHHcCCCCCEEEEEEEEEecccCceEEEehhcccCchHHHHHhC
Confidence 99999999999999999999999999999966678999999999999999999999999999999999999999999999
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCc
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPF 1506 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~ 1506 (1619)
++|++++|+|+++++||+||++++|+.||||.++++|.....++.+.|++||.|+|+|+++|++++||.||+|++..+||
T Consensus 664 ~vG~~v~G~V~~i~~~G~fV~l~~gV~GlIh~sels~~~~~~~~~~~~kvGq~VkvkVl~ID~e~rrI~LS~K~l~~dpw 743 (863)
T PRK12269 664 PVGARFTRRIVKVTNAGAFIEMEEGIDGFLHVDDLSWVKRTRPADHELEVGKEIECMVIECDPQARRIRLGVKQLSDNPW 743 (863)
T ss_pred CCCCEEEEEEEEEecceEEEEeCCCcEEEEEhHHhhccccccchhhccCCCCEEEEEEEEEeccCCEEEEEecccccChH
Confidence 99999999999999999999999999999999999996655566678999999999999999999999999999999999
Q ss_pred ccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccc-------cCcCCCCEEEEEEEEEeCCCCEEEE
Q psy14505 1507 NNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHE-------KKLKIGENIDVLTVLIDHKTRYIQL 1579 (1619)
Q Consensus 1507 ~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~-------~~~~~Gq~V~~~Vl~vd~~~k~i~l 1579 (1619)
..+.+.+++|+.++|+|+++ +++|+||++++|+.|++|.++++++.. ..|++||.|+|+|+++|+++++|.|
T Consensus 744 ~~~~~~~~vG~iV~GkV~~v-~~~GvFVeL~~gVeGlI~~s~lsdd~~~~~~~~~~~f~vGD~V~v~Vl~iD~~~rkI~L 822 (863)
T PRK12269 744 QVFANAYGVGSTVEGEVSSV-TDFGIFVRVPGGVEGLVRKQHLVENRDGDPGEALRKYAVGDRVKAVIVDMNVKDRKVAF 822 (863)
T ss_pred HHHHhhCCCCCEEEEEEEEE-ecCeEEEEcCCCeEEEEEHHHcCCcccccchhhccccCCCCEEEEEEEEEEcCCCEEEE
Confidence 99888899999999999999 599999999999999999999976432 3599999999999999999999999
Q ss_pred eecchHHHHHHHHHHhhcc-C--CCCCcccHHHHHHH
Q psy14505 1580 SFKKKEVIKKKKLLTSINA-N--TISGTTNLGLILKA 1613 (1619)
Q Consensus 1580 Slk~~~~~~~~~~~~~~~~-~--~~~~~~~~~~~~~~ 1613 (1619)
|+|+..+++++++++.|.. + +.++..+||++|+.
T Consensus 823 Slk~~~~~~~~~~~~~~~~~~~~~~~~~~tlg~~l~~ 859 (863)
T PRK12269 823 SVRDYQRKVQRDELSRYMSAPRGEDEGSFTLGDLMRQ 859 (863)
T ss_pred EEechhhHHHHHHHHHhhccccccccCCCCHHHHhhh
Confidence 9999999999998988843 2 23456799998875
No 13
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=100.00 E-value=2.8e-117 Score=1059.39 Aligned_cols=431 Identities=27% Similarity=0.367 Sum_probs=398.7
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhcc-CcCCCCcchHH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMG-KYHPHGDVSIY 86 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~-~yhphgd~s~~ 86 (1619)
..+++++++|.++|+.||||||++|||||+|||||||||||||||+++|+.++++|+||||+||+||| +|| |||+|+|
T Consensus 3 ~~~~~i~~~v~~~~i~ya~~vI~~RAiP~v~DGLKPvQRrILyam~~~~~~~~~~~~KvA~lvG~v~~~~YH-HGd~Sly 81 (439)
T PHA02592 3 LKERSLKSIVNNEALEYAMYTVEERAIPNLIDGLKPVQRFVIHRALEYAKGNKEKFDKVAAIAGGVADLGYH-HGETSAQ 81 (439)
T ss_pred ceeccHHHHHHHHHHHHHHHHhhcccCCccccCCCcchhhhhHhHHhhCCCCCCcchhhHHHHHHHhcccCC-CchHHHH
Confidence 34799999999999999999999999999999999999999999999999999999999999999998 999 9999999
Q ss_pred HHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCc-CCcceecCCCce
Q psy14505 87 DALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKE-KEPSVLPTRIPN 165 (1619)
Q Consensus 87 ~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~-~eP~~~~~~~P~ 165 (1619)
||||+|||+||||+|||+|||||||++||+||||||||||||++|+.||+++| |.||||+.+ .||+||+|+|||
T Consensus 82 ~tiV~MAQ~fsnn~pLl~~~GnFGs~~G~~aAA~RYte~rLs~~a~~l~~d~D-----~~~n~dd~~~~eP~~y~P~iP~ 156 (439)
T PHA02592 82 DAGALMANTWNNNIPLLDGQGNFGSRLVQKAAAARYIFARVHDNFRKIYKDED-----LAPVHEDPEHIPPAFYLPIIPM 156 (439)
T ss_pred HHHHHHhhhhccceeeEecCCCCCCCCCCCccchhhhhcchhHHHHHHhcccC-----CCcCCCCCcccCCcccccCCch
Confidence 99999999999999999999999999999999999999999999999999998 888998877 599999999999
Q ss_pred eeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEE
Q psy14505 166 LLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAK 245 (1619)
Q Consensus 166 ~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~ 245 (1619)
||||||+||||||||+||||||.|||+|++++|++++++. ++||||++ .|.. ++||+|++++||+
T Consensus 157 lLvNG~~GIavG~sT~IPphN~~evi~~~~~~l~~~~~~~-------~~Pdfpg~------~G~i--~~tg~g~~~~rg~ 221 (439)
T PHA02592 157 VLLNGVSGIATGYATNILPHSPKSVIKAVLAALNGKDITE-------PKVQFPEF------KGEV--VEIEPGSYEIRGT 221 (439)
T ss_pred hhccCCcceeeeeecCCCCCCHHHHHHHHHHHhcCCCCCC-------CCCcCCCC------CCeE--EEcCCceEEEEEE
Confidence 9999999999999999999999999999999999999874 79999953 3322 4699999999999
Q ss_pred EEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcc
Q psy14505 246 THIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQ 325 (1619)
Q Consensus 246 ~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~ 325 (1619)
++++ ++++|+||||||++|+++|+++|+++++++++++| .| |+++|++|+|++|++++++.++++|||+|+
T Consensus 222 ~~~~-----~~~~i~ItElP~~~~~~~~~~~i~~l~~~~~i~~i---~d-s~~~~v~i~I~lk~~~~~~~~~~~L~k~~~ 292 (439)
T PHA02592 222 YELN-----GKTKLHITEIPVKYDRETYVAVLDPLEEKGKIVSY---DD-CTEDGFRFKVTLKREENEEATHEKIMKDFG 292 (439)
T ss_pred EEEe-----CCCEEEEEeCCCcccHHHHHHHHHHHHhcCCcCCc---cc-CCCCceEEEEEECCCCCHHHHHHHHHHhcC
Confidence 9986 46789999999999999999999999998886654 55 899999999999999999999999999999
Q ss_pred cccceeeeEEEEE-CCeeeee-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCC-
Q psy14505 326 LQNTFGMNMLALV-NGQPKLL-NLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTST- 402 (1619)
Q Consensus 326 l~~~~~~n~~~~~-~~~p~~~-~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~- 402 (1619)
||++|++||++|+ +|+|+.+ |+++||++|++||+++|+||++|+|+++++|+|+|.+. +..||+||+.++.+.+
T Consensus 293 L~~~~~~Nm~~~d~~g~~~~~~~~~~Il~~f~~~R~~~~~kR~~~~l~k~~~r~~~l~~~---~~fI~~vi~~~~~~~~~ 369 (439)
T PHA02592 293 LIERVSQNITVINENGKLKVYENAEDLIRDFVEIRKTYVQKRIQYEIKETEEAFDLALAK---AEFIKRVIAGEIVLQGK 369 (439)
T ss_pred chheeeeeEEEEecCCeeeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHhccCC
Confidence 9999999999995 8998765 99999999999999999999999999999999999554 4789999999998753
Q ss_pred -HHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHH
Q psy14505 403 -PQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYEN 481 (1619)
Q Consensus 403 -~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~ 481 (1619)
.+++. ++++. |+|++.||+|||+|||++||++++++|++|+++
T Consensus 370 ~~~~~~-~~l~~-----------------------------------~~~~~~q~~~lL~m~L~~LT~~e~~kL~~e~~~ 413 (439)
T PHA02592 370 TRSELT-EELSD-----------------------------------NKDFGEYADKLVAMNIYSMTSDEREKLQKEAEE 413 (439)
T ss_pred CHHHHH-HHHHH-----------------------------------cCCCHHHHHHHHHhHHHHhhHHHHHHHHHHHHH
Confidence 44443 33432 889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Q psy14505 482 VIKKVIDLTDILSNSKRIIEIITDELNIIKN 512 (1619)
Q Consensus 482 l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~ 512 (1619)
|+++++.|++ +...++|++||+++++
T Consensus 414 l~~ei~~l~~-----~t~~~~w~~DL~~~~~ 439 (439)
T PHA02592 414 LEKEHEYWKK-----TTAKKEYIKDLEELKK 439 (439)
T ss_pred HHHHHHHHHc-----CCHHHHHHHHHHHHhC
Confidence 9999999998 5688999999999874
No 14
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=100.00 E-value=3.3e-117 Score=1082.62 Aligned_cols=425 Identities=48% Similarity=0.776 Sum_probs=389.2
Q ss_pred ccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHHHHHhhcCccccccccCCCCCCC
Q psy14505 32 RALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDALVRMAQSFSLRCTLVDGQGNFGS 111 (1619)
Q Consensus 32 Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~v~maq~~~~~~pl~~~~GnfGs 111 (1619)
|||||++||||||||||||+|+++ ..++++|+||||++|+|+|+||||||+|+|+|||+|||+|++|+||++|||||||
T Consensus 1 RaiP~~~DGLKP~qRkil~~~~~~-~~~~~~~~Kva~l~G~v~~~YHpHGe~sl~~tiv~mAq~f~~n~pll~~~GnFGs 79 (426)
T PF00521_consen 1 RAIPSVRDGLKPVQRKILYAMFKL-RNPDKKEIKVAQLVGYVMGKYHPHGESSLYDTIVRMAQDFVGNYPLLDGQGNFGS 79 (426)
T ss_dssp HHS-BTTTS--HHHHHHHHHHHHC-CCTTSS-EEHHHHHHHHHHHTSTSSHHHHHHHHHHCTSTTTTSS-SEEEES-BSC
T ss_pred CCCCccccCCChHHHHHHHHHHHH-hhcccccceeeeehhhhHhhhCCCcchhhhhhhhhhhhccccccceeeCCCCccc
Confidence 899999999999999999999997 6678999999999999999999999999999999999999999999999999999
Q ss_pred C-CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeeecCCcceeeeeecCCCCCChHHH
Q psy14505 112 I-DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLINGSSGIAVGMATNIPPHNLTEV 190 (1619)
Q Consensus 112 ~-~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~ng~~Gia~G~at~ip~~n~~ev 190 (1619)
| +|++||||||||||||++++.||+++|+++|+|++||||+++||+||||+|||||||||+|||||||||||||||.||
T Consensus 80 ~~~g~~~Aa~RYi~~rls~~~~~l~~~~d~~~l~~~~~~Dg~~~EP~~~~p~iP~vLvNG~~GIa~G~sT~Ip~hN~~ev 159 (426)
T PF00521_consen 80 RLDGDKDAAMRYIETRLSKIARDLFPDIDDDTLDYVPNYDGSEIEPEVYPPIIPMVLVNGASGIAVGMSTNIPPHNPREV 159 (426)
T ss_dssp TTTSCTBTTTTTCEEEE-HHHHHHCTTTTTTCS-EEEETTSSSEEESS---SS-HHHHHTEEEESSSEEEEE--B-HHHH
T ss_pred ccCCCCCCccceEEEechHhHHHHHhhhcccccccCcCccccccchHHhhhcCcHHhccCCcchhhhhccCCCCCCHHHH
Confidence 9 888889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEEEEEeccCCccEEEEEecCCcccH
Q psy14505 191 IDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTHIEEFNRENRTAIIIDELPYQVNK 270 (1619)
Q Consensus 191 ~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~~~~~~~~~~~~i~itelP~~~~~ 270 (1619)
|+||+++|+++++ +|+++.++|||||||.+.+..++.+.|.||+|++.+||+++++ + ++|+||||||++|+
T Consensus 160 i~~~~~~l~~~~~---~l~~~~~~P~f~~~~g~i~~~~~~~~y~tg~G~~~~~~~~~~~-----~-~~i~ITELP~~~~t 230 (426)
T PF00521_consen 160 IDAIIRLLDGEEI---ELMKYIMGPDFPTFGGIIEKNGIKNIYETGRGSIEVRGKYEIE-----G-NTIVITELPYGVWT 230 (426)
T ss_dssp HHHHHHHHHTTT----HHCTTSSSB--TTSCEEEECHHHHHHHHHSEEEEEEEEEEEEE-----T-EEEEEEE--TT--H
T ss_pred HHHHHHHhCCCcc---cccccCCCCCCCCCCceeeccchhhhhccCcceEEEeeEEEEe-----c-cEEEEEeCCccccH
Confidence 9999999999998 7899999999999999888899999999999999999999987 4 79999999999999
Q ss_pred HHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccccceeeeEEEEECCeeeeeCHHHH
Q psy14505 271 KSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQNTFGMNMLALVNGQPKLLNLKEI 350 (1619)
Q Consensus 271 ~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~~~~~~n~~~~~~~~p~~~~l~~i 350 (1619)
++|+++|++++++|+++ |+||+|+||+ |+||+|+++++.+++.+++.|||+|+||++|++|+++++++.|+++|+++|
T Consensus 231 ~~~~e~i~~l~~~~~i~-I~d~~D~Sd~-~v~ivI~lk~~~~~~~~~~~L~k~t~Lq~s~~~n~~~l~~~~p~~~~~~eI 308 (426)
T PF00521_consen 231 EKYKEKIEELVEDKKIK-ISDYRDESDR-GVRIVIELKRGADPEKILEGLYKKTKLQSSISTNNMVLFDNGPKYDSLKEI 308 (426)
T ss_dssp HHHHHHHHHHHHTTSST-EEEEEE-BBT-BS-EEEEESTTSHHHHHHHHHHHHSTTEEEEEEETEEEETTEEEESSHHHH
T ss_pred HHHHHHHHHHhccCcch-hhHHHhcCCC-ceeEEEEecCCccHHHHHHHHHHHhhhhccccchheEEecCcceeCCHHHH
Confidence 99999999999999999 9999999887 999999999999999999999999999999999988888778999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHHHHHHHHHhhcCCCCchhhhhhccccc
Q psy14505 351 LYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKN 430 (1619)
Q Consensus 351 l~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~ 430 (1619)
|++|++||+++|+||++|+|+++++|+|+++||++|++++|.|+++||++.+.+++++.|++.
T Consensus 309 L~~f~~~R~~~~~kR~~~~l~kl~~~l~il~gl~~~~~~idfIi~vI~~s~~~~~~k~~L~~~----------------- 371 (426)
T PF00521_consen 309 LKEFYEFRLEYYQKRKQYLLEKLEERLHILEGLIKALNKIDFIIEVIRGSIDKNKAKKDLIEE----------------- 371 (426)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHSSSHHHHHHHHHHH-----------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccccchHHHHHHHhh-----------------
Confidence 999999999999999999999999999999999999999999999999999999999999863
Q ss_pred ccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Q psy14505 431 YNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELN 508 (1619)
Q Consensus 431 ~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~ 508 (1619)
|++.||+|||+|||++||++++++|++|++++++++++|++++++ ++++|++||+
T Consensus 372 --------------------L~~~q~~yLL~m~L~~LT~~e~~kL~~e~~~l~~ei~~l~~~~~~---~~~l~~~dLd 426 (426)
T PF00521_consen 372 --------------------LSEEQADYLLSMPLRRLTKEEIEKLQKEIKELEKEIEELEKILPK---IKDLWKKDLD 426 (426)
T ss_dssp --------------------HCHHHHHHHHTSBGGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHC---HHHHHHHHHH
T ss_pred --------------------chHHHHHHHHhchHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhC
Confidence 678999999999999999999999999999999999999999999 9999999995
No 15
>PRK09630 DNA topoisomerase IV subunit A; Provisional
Probab=100.00 E-value=2.3e-112 Score=987.98 Aligned_cols=457 Identities=27% Similarity=0.467 Sum_probs=417.1
Q ss_pred cHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHHHHHHH
Q psy14505 12 LLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIYDALVR 91 (1619)
Q Consensus 12 ~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~~~~v~ 91 (1619)
+++++|+++||+||||||++|||||++||||||||||||+|++++ +++|+||||+||++|+ ||||||+|+|||||+
T Consensus 3 ~i~~~~~~~fl~YA~yVI~~RAIPdv~DGLKPVQRRILyam~~~~---~~~~~KvA~ivG~~m~-yhpHGDaSiydAlV~ 78 (479)
T PRK09630 3 DVSDLFKTHFMHYASYVILERAIPHILDGLKPVQRRLLWTLFRMD---DGKMHKVANIAGRTMA-LHPHGDAPIVEALVV 78 (479)
T ss_pred cHHHHHHHHHHhhhHHHhhcccCCccccCCCCchhhhhhhhhhcC---CCCceeeeeehhcccc-cCCCchHHHHHHHHH
Confidence 689999999999999999999999999999999999999999997 4899999999999998 999999999999999
Q ss_pred HhhcCccccccccCCCCCCCC-CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCceeeecC
Q psy14505 92 MAQSFSLRCTLVDGQGNFGSI-DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNLLING 170 (1619)
Q Consensus 92 maq~~~~~~pl~~~~GnfGs~-~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~L~ng 170 (1619)
||| |+|||||||||||+ +||+||||||||||||++|++||. ++++++|+|||||++.||+||||+||||||||
T Consensus 79 MAQ----n~~LId~qGNFGSrl~Gd~aAA~RYiEaRLs~~a~~il~--~~~~v~~~~nyDg~~~EP~~lP~~iP~LLvNG 152 (479)
T PRK09630 79 LAN----KGYLIDTQGNFGNPLTGDPHAAARYIEARLSPLAKEVLF--NTDLMTFHDSYDGREKEPDILPAKLPLLLLHG 152 (479)
T ss_pred hcc----CceeeeCCCCCCCCCCCCcchhHHHHHHhhHHHHHHHhc--CcCcccccccCCCcccCCcccCCcCCeecccC
Confidence 999 57999999999996 899999999999999999999764 67799999999999999999999999999999
Q ss_pred CcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEEEEEEE
Q psy14505 171 SSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAKTHIEE 250 (1619)
Q Consensus 171 ~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~~~~~~ 250 (1619)
|+||||||||+||||||.|||+|++++|++++++ ++|||||||+|.. ++|+||+|++++||++++++
T Consensus 153 a~GIAvG~AT~IpPHNl~Evida~i~~L~~~~~~--------~~PDFptGG~I~~-----~~Y~tG~G~~~vrgk~~~~~ 219 (479)
T PRK09630 153 VDGIAVGMTTKIFPHNFCELLEAQIAILNDQPFT--------LLPDFPSGGTMDA-----SEYQDGLGSITLRASIDIIN 219 (479)
T ss_pred CceeeeccccCCCCCCHHHHHHHHHHHhCCCCCc--------CCcCCCCCcEEEE-----eecccCCceEEEEEEEEEec
Confidence 9999999999999999999999999999999876 3899999999874 67999999999999999873
Q ss_pred eccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcccccce
Q psy14505 251 FNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQLQNTF 330 (1619)
Q Consensus 251 ~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~l~~~~ 330 (1619)
.++|+||||||++|+++|+++|++++++|++. |++|+|+|++ +++|+|+|+++++++.++++||++|+||++|
T Consensus 220 -----~~~ivItEIPy~~~t~~lie~I~~l~~~gki~-I~~i~D~s~~-~v~i~I~Lk~~~~~~~vl~~Ly~~T~lq~s~ 292 (479)
T PRK09630 220 -----DKTLLIKEICPSTTTETLIRSIENAAKRGIIK-IDSIQDFSTD-LPHIEIKLPKGIYAKDLLRPLFTHTECQVIL 292 (479)
T ss_pred -----CCEEEEEeCCCcccHHHHHHHHHHHHhcCCCc-cceeeccCCC-CceEEEEECCCCCHHHHHHHHHhhCchhhhc
Confidence 35899999999999999999999999999998 9999999997 6999999999999999999999999999999
Q ss_pred eeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH---HHhchhHHHHHHHcCCCHHH
Q psy14505 331 GMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHI--LEGLTI---ALTNIDNFIQIIRSTSTPQE 405 (1619)
Q Consensus 331 ~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~i--leg~~~---a~~~id~vi~iir~s~~~~~ 405 (1619)
++||+++.+|+|+++++++||+.+.++....++++.+.++.++++++|. ||-+++ .+..+.+.+.-|.++++.++
T Consensus 293 ~~n~~~i~~~~P~~~~l~~il~~~~~~~~~~l~~eLe~~~~~l~~~~~~~sle~ifie~riy~~~~~~~~~~e~~~~~~~ 372 (479)
T PRK09630 293 TSRPTAIYQNKPVETSISEILRLHTETLQGYLKKELLILEDSLSREHYHKTLEYIFIKHKLYDTVREMLSKRKTSPSSSD 372 (479)
T ss_pred cceEEEEECCcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhccCCHHH
Confidence 9999999999999999999999999999999999999999999999987 777664 33344455555677777776
Q ss_pred HHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHH
Q psy14505 406 AKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKK 485 (1619)
Q Consensus 406 a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~ 485 (1619)
+.+.+-+. +.+ ++......+|+++...++++|++|+++++++|..++++.++++
T Consensus 373 ~~~~i~~~-l~p-------------------------~~~~~~r~v~~~d~~~l~~i~i~ri~~fd~~k~~~~~~~~~~~ 426 (479)
T PRK09630 373 LHNAVLEA-LTP-------------------------FLDTLPTPVDKQATAQLASLTIKKILCFNENSYTKELACIEKK 426 (479)
T ss_pred HHHHHHHh-cCc-------------------------chhhccCCCCHHHHHHHhhhhHHHhhhcCHHhHHHHHHHHHHH
Confidence 66554432 222 1122235799999999999999999999999999999999999
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccc
Q psy14505 486 VIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILN 529 (1619)
Q Consensus 486 i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~ 529 (1619)
+++.+.-|++ +.++-++.++.++++||. ..+|||+|...
T Consensus 427 ~~~~~~~l~~---~~~~~i~~~~~l~~kyg~--~~~r~t~i~~f 465 (479)
T PRK09630 427 QAAVQKDLSQ---LKKYTVKYLKGLLETYGQ--LGHRKTQIAKF 465 (479)
T ss_pred HHHHHHHHHH---HHHHHHHHHHHHHHHhcC--CCCccceeecc
Confidence 9999998888 999999999999999997 67999999654
No 16
>PLN03128 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=3.1e-104 Score=1032.14 Aligned_cols=471 Identities=22% Similarity=0.298 Sum_probs=409.6
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhc--cCcCCCCcchH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETM--GKYHPHGDVSI 85 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~--~~yhphgd~s~ 85 (1619)
...++++++|.++|+.|||| |++|||||+|||||||||||||+|+++|+. +.+||||++|+|+ ++|| |||+||
T Consensus 650 ~~~i~~~dfi~~eli~fs~~-~~~RaiP~v~DGLKPvQRkILy~~~~~~~~---~~~Kva~l~G~V~e~~~YH-HGd~Sl 724 (1135)
T PLN03128 650 GNGISYSDFINKELILFSQA-DLARSIPSMVDGLKPSQRKVLFACFKRNLK---SEIKVAQLSGYVAEHSAYH-HGEASL 724 (1135)
T ss_pred CccccHHHHHHHHHHHHHHH-HhcCCCCchhcCCCchhhHHHHHHHhcCCC---ccchHHHHHHHHhhccCCC-CChHHH
Confidence 44789999999999999999 899999999999999999999999999984 5599999999999 7999 999999
Q ss_pred HHHHHHHhhcC--ccccccccCCCCCCC--CCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecC
Q psy14505 86 YDALVRMAQSF--SLRCTLVDGQGNFGS--IDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPT 161 (1619)
Q Consensus 86 ~~~~v~maq~~--~~~~pl~~~~GnfGs--~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~ 161 (1619)
|+|||||||+| |||+||++||||||| +||++||||||||||||++|+.||+++|+.+++|. ||||+.+||+||||
T Consensus 725 ~~tiV~mAQ~f~Gsnn~~Ll~~~GnFGSr~~~G~~aAa~RYi~~rLs~ia~~lf~~~dd~~l~y~-~~Dg~~~EP~~~~p 803 (1135)
T PLN03128 725 ASTIIGMAQDFVGSNNINLLTPSGQFGTRLQGGKDAASARYIFTRLSPITRALFPKDDDVLLNYL-NEDGQSIEPEWYCP 803 (1135)
T ss_pred HHHHHHHhhhccccccceeeccCCCCCCCCCCCChhhhhhHHhhhhhHHHHHHhccccccccCCc-CCCccccCCceecc
Confidence 99999999999 899999999999999 58999999999999999999999999999999998 99999999999999
Q ss_pred CCceeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEE
Q psy14505 162 RIPNLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVI 241 (1619)
Q Consensus 162 ~~P~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~ 241 (1619)
+|||||||||+|||||||||||||||.|||+|++++|++++ .++|++++||| ||+++. +|+||+|+++
T Consensus 804 ~iP~lLvNGs~GIa~G~aT~IPphN~~evi~~~~~~i~~~~--~~~l~p~~~g~---~G~i~~-------~~~tg~g~~~ 871 (1135)
T PLN03128 804 IIPMVLVNGSEGIGTGWSTFIPNYNPRDIIANIRRLLRGEE--LEPMHPWYRGF---KGTITE-------VSTSRSGSYT 871 (1135)
T ss_pred cchhhhccCCcccccccccCCCCCCHHHHHHHHHHHHcCCC--HHHHHhhccCC---CceEEE-------ccccCCceEE
Confidence 99999999999999999999999999999999999999987 46677666664 776643 6889999999
Q ss_pred EeEEEEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHH--hccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHH
Q psy14505 242 IRAKTHIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLV--KEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNK 319 (1619)
Q Consensus 242 ~~~~~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~--~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~ 319 (1619)
+||++++. ++++|+||||||++|+++|.+.|.+++ +++++++|+||+|+|+++|+||+|+++++++++.+++.
T Consensus 872 ~~g~~~~~-----~~~~i~ItElP~~~~~~~y~~~l~~l~~~~~k~~~~I~d~~d~s~~~~v~~~i~l~~~~~~~~~~~~ 946 (1135)
T PLN03128 872 VTGIIEQI-----GDTTIRITELPVRKWTQDYKEFLEALLTGTKKKEPEIKDFKENHTDTTVHFTVTLSEEKMARALAEG 946 (1135)
T ss_pred EEEEEEEe-----cCcEEEEEecCCccchHHHHHHHHHHHhhhccCCcceeeeeeccCCCceEEEEEECcchhHHHHHHH
Confidence 99999884 367899999999999988877777765 46889999999999999999999999999999999999
Q ss_pred HHhhcccccceeee-EEEEE-CCe-eeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhchhHH
Q psy14505 320 LYKQTQLQNTFGMN-MLALV-NGQ-PKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILE---GLTIALTNIDNF 393 (1619)
Q Consensus 320 l~k~t~l~~~~~~n-~~~~~-~~~-p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ile---g~~~a~~~id~v 393 (1619)
|||+|+||++|++| |++++ +|+ ++|.|+++||++|++||+++|+||++|+|++++.++|+++ +|+.++.++|.+
T Consensus 947 l~k~~~L~~~~~~~nm~l~d~~~~i~ky~~~~~il~~f~~~R~~~y~kRk~~~l~~~~~~~~~l~~k~~fi~~v~~~~~~ 1026 (1135)
T PLN03128 947 LEKKFKLSTTISTSNMHLFDKDGKIKKYDSPEDILEEFFHLRLDLYVKRKEVLLENLEYELKKLDNKARFILAVVKGEIV 1026 (1135)
T ss_pred HHhhcceehhcCceEEEEECCCCcccCCCCHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhHHHhheecceEE
Confidence 99999999999975 55554 355 5688999999999999999999999999999999999999 899999999987
Q ss_pred HHHHHcCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHH
Q psy14505 394 IQIIRSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQK 473 (1619)
Q Consensus 394 i~iir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~ 473 (1619)
| ++++++++++.|++.+|++.++....+...+. ..+. ++.... .+..=......++|||+|||++||.++++
T Consensus 1027 i----~~~~k~~~~~~L~~~~f~~~~~~~~~~~~~~~--~~~~-~~~~~~-~~~~~~~~~~~~~yLL~M~l~~LT~e~~~ 1098 (1135)
T PLN03128 1027 V----NNRKRAELLAELEEKGFDKFPKTAKISETNVV--GDRD-GEASEE-EEASDNELAKSYDYLLGMPISSLTLEKVD 1098 (1135)
T ss_pred E----cCCCHHHHHHHHHHcCCCCcchhhhhcccccc--cccc-ccccch-hhhcccccccchHHHHhCHHHHhhHHHHH
Confidence 6 88999999999999999876543322111000 0000 000000 00000011123899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHh
Q psy14505 474 KIINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKY 514 (1619)
Q Consensus 474 ~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f 514 (1619)
+|++|+++++++|+.|+. ..-.++|.+||+++.+++
T Consensus 1099 kL~~e~~~~~~ei~~l~~-----~t~~~~w~~DLd~~~~~~ 1134 (1135)
T PLN03128 1099 ELRAERAKKETEVEELKK-----TTPEDLWRKDLDAFEEAL 1134 (1135)
T ss_pred HHHHHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHHhh
Confidence 999999999999999999 445689999999998875
No 17
>PLN03237 DNA topoisomerase 2; Provisional
Probab=100.00 E-value=2.6e-101 Score=999.85 Aligned_cols=477 Identities=22% Similarity=0.280 Sum_probs=408.7
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhc--cCcCCCCcchH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETM--GKYHPHGDVSI 85 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~--~~yhphgd~s~ 85 (1619)
...++++++|.++|+.||||+| .|||||+|||||||||||||+|+++|+ ++..||||++|+|| ++|| |||+||
T Consensus 675 ~~~i~~~dfinkeli~ySm~~i-~RAIP~v~DGLKPvQRkILya~~k~~~---~~~~KvAqlvG~V~e~~~YH-HGd~Sl 749 (1465)
T PLN03237 675 QKDVKYSDFVNKELILFSMADL-QRSIPSMVDGLKPGQRKILFCSFKRNF---VKEAKVAQLSGYVSEHSAYH-HGEQSL 749 (1465)
T ss_pred CCcccHHHHHHHHHHHHHHHHH-hccCCchhcCCCchHhHHHHHHHhcCC---ccccchhhhHHHHhhhccCC-CcHHHH
Confidence 3579999999999999999998 799999999999999999999999997 45599999999999 8999 999999
Q ss_pred HHHHHHHhhcC--ccccccccCCCCCCC--CCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecC
Q psy14505 86 YDALVRMAQSF--SLRCTLVDGQGNFGS--IDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPT 161 (1619)
Q Consensus 86 ~~~~v~maq~~--~~~~pl~~~~GnfGs--~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~ 161 (1619)
|+|||+|||+| |||+|||+||||||| +||++||||||||||||++++.||+++|+++|+|. ||||+++||+||||
T Consensus 750 y~tiV~MAQdfvGsnnipLl~p~GnFGSR~~gG~daAA~RYietrLs~ia~~lf~~~Dd~~l~~~-n~Dg~~iEP~~y~p 828 (1465)
T PLN03237 750 ASTIIGMAQDFVGSNNINLLLPNGQFGTRLQGGKDHASARYIFTRLSPITRFLFPKDDDILLDYL-NEDGQSIEPTWYMP 828 (1465)
T ss_pred HHHHHHHhhccccccccceeecCCCCCCCCCCCCcccccccceechhHHHHHHhccCCccccCcc-CCCCcccCCceecC
Confidence 99999999999 899999999999999 59999999999999999999999999999999995 99999999999999
Q ss_pred CCceeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEecccc-cccccee-cccE
Q psy14505 162 RIPNLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSS-VHDGYYT-GKGR 239 (1619)
Q Consensus 162 ~~P~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~-~~~~y~~-g~G~ 239 (1619)
+||||||||++||||||||+||||||.|||++++++|+++++ .|+||| +.|+.| +.+.|.| |+|+
T Consensus 829 iiP~lLVNGa~GIatG~sT~IPphNp~eVi~~i~~~i~~e~~----------~~~~P~---~~gf~G~I~~~~~t~g~g~ 895 (1465)
T PLN03237 829 IIPTVLVNGAEGIGTGWSTFIPNYNPRDIVANIRRLLNGESM----------EPMHPW---YRGFKGTIEKTASKEGGCT 895 (1465)
T ss_pred CCcceeecCCcceecccccCCCCCCHHHHHHHHHHHhcCCCc----------CCCCCe---ecCCCceEeEhhhcCCCce
Confidence 999999999999999999999999999999999999999764 378996 799999 8888887 9999
Q ss_pred EEEeEEEEEEEeccCCccEEEEEecCCcccH---HHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHH
Q psy14505 240 VIIRAKTHIEEFNRENRTAIIIDELPYQVNK---KSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIV 316 (1619)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~~i~itelP~~~~~---~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~ 316 (1619)
|.+||+++++. +++|+||||||++|+ ..++++|.++++++++++|+||+|+|+++|+||+|+|+++.+++.+
T Consensus 896 ~~~rG~~~~~~-----~~~i~ITElP~~~~t~~y~~~le~i~~~~~~~k~~~I~d~~d~s~~~~vr~vI~lk~~~~~~~~ 970 (1465)
T PLN03237 896 YTITGLYEEVD-----ETTLRITELPIRRWTDDYKEFLESLKTDNNKNKDPFIKDVKAYNDDTTVHFEVILSEENMLAAK 970 (1465)
T ss_pred EEEEEEEEEec-----CCeEEEEeCCCeecchHHHHHHHHHHHHHhccCcCceeechhccCCceEEEEEEeccchhHHHH
Confidence 99999998872 568999999999998 5567788888888889999999999999999999999999999999
Q ss_pred HHHHHhhcccccceee-eEEEEE-CCe-eeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hchhH
Q psy14505 317 LNKLYKQTQLQNTFGM-NMLALV-NGQ-PKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIAL-TNIDN 392 (1619)
Q Consensus 317 ~~~l~k~t~l~~~~~~-n~~~~~-~~~-p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~-~~id~ 392 (1619)
+++|||+|+||++|++ ||++++ +|+ |+|+|+.+||++|++||+++|++|+++.+++++.++.++++.++.+ ..|+.
T Consensus 971 ~~~L~k~~kL~~s~~~~nm~l~d~~G~i~k~~~~~~Il~~F~~~Rl~~Y~kRk~~~~~~~~~el~k~~~k~~fI~~vi~g 1050 (1465)
T PLN03237 971 QEGLLKKFKLTTTISTSNMHLFDSKGVIKKYDTPEQILEEFFHLRLEYYEKRKEVLLKNLEFELLKLENKVRFILAVVDG 1050 (1465)
T ss_pred HHHHHHhhcCcceeceeEEEEEcCCCCcceeCCHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999986 788887 465 8999999999999999999999999999999999999999987532 22233
Q ss_pred HHHHHHcCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCc-cccCHHHHHHhhccchhhcchHH
Q psy14505 393 FIQIIRSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDM-YKLSDIQAQEILKMPLQRLTNME 471 (1619)
Q Consensus 393 vi~iir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~Qa~aIL~m~L~~Lt~~e 471 (1619)
- |+-+.+.+++..+.|.+.||++.+...............+.-++. ....... =+.....++|||+|+|++||..+
T Consensus 1051 ~--i~i~~k~k~~l~~~L~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ydYLL~M~i~slT~E~ 1127 (1465)
T PLN03237 1051 E--IIVNNRKKADLVEELRQKGFTPFPKKAKSVEAAVAGATDDAAEEE-EEIDVSSSSGVRGSDYDYLLSMAIGTLTLEK 1127 (1465)
T ss_pred c--eEEccCCHHHHHHHHHHcCCCccchhhcccccccccccccccccc-cccccccccccccccchHHhcCcHhhcCHHH
Confidence 2 333778999999999999999865543221100000000000000 0000000 00001246999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCC
Q psy14505 472 QKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGS 516 (1619)
Q Consensus 472 ~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~ 516 (1619)
+++|.+|++++++|++.|+. ..-.++|.++|+++.+++-.
T Consensus 1128 ~~kL~~~~~~k~~el~~l~~-----~t~~~lW~~DLd~f~~~~~~ 1167 (1465)
T PLN03237 1128 VQELCADRDKLNIEVEDLKK-----TTPKSLWLKDLDALEKELDK 1167 (1465)
T ss_pred HHHHHHHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999998 44567888888888877653
No 18
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=100.00 E-value=8.5e-100 Score=993.71 Aligned_cols=474 Identities=23% Similarity=0.293 Sum_probs=410.1
Q ss_pred ceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhc--cCcCCCCcchH
Q psy14505 8 VISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETM--GKYHPHGDVSI 85 (1619)
Q Consensus 8 ~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~--~~yhphgd~s~ 85 (1619)
...+++.+.+.++.+.|||| .+.|||||++||||||||||||+|+++|+ +++.||||++|+|| ++|| |||+||
T Consensus 657 ~~~i~~~dFvnkEli~FS~~-d~~RaIP~v~DGLKP~QRkILy~~~k~nl---~~~~KvAql~G~V~e~~~YH-HGe~Sl 731 (1388)
T PTZ00108 657 KKKLTYSDFVNKELILFSIA-DNERSIPSLVDGLKPGQRKILFACFKRNL---KNEIKVAQLSGYVSEHSAYH-HGEQSL 731 (1388)
T ss_pred CceecHHHhhhHHHHHHhhh-hcccCCCccccCCCchhhHHHHHHHHcCC---CccchHHHHHHHHHhhccCC-CChhHH
Confidence 35789999999999999999 57999999999999999999999999997 56799999999999 6999 999999
Q ss_pred HHHHHHHhhcC--ccccccccCCCCCCCC--CCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecC
Q psy14505 86 YDALVRMAQSF--SLRCTLVDGQGNFGSI--DGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPT 161 (1619)
Q Consensus 86 ~~~~v~maq~~--~~~~pl~~~~GnfGs~--~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~ 161 (1619)
|+|||+|||+| |||+|||+|||||||| ||++||||||||||||++|+.||+++|+++|+|+ ||||+.+||+||||
T Consensus 732 ~~tiV~MAQ~fvGsnni~Ll~p~GnFGsr~~gG~daAA~RYi~trLs~~ar~lf~~~Dd~~l~y~-~~Dg~~~EP~~y~p 810 (1388)
T PTZ00108 732 QQTIVGMAQNFVGSNNINLLYPCGQFGSRLQGGKDHAAARYIFTKLSKITRYIFPEEDDPILDYL-EDDGQSVEPFYYVP 810 (1388)
T ss_pred HHHHHHHhcccchhccceeEecCCCcCCCCCCCCcchhhhhhhhhhhHHHHHHhcccccCccCcc-CCCCCccCCeeecC
Confidence 99999999999 8999999999999997 8999999999999999999999999999999999 89999999999999
Q ss_pred CCceeeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEE
Q psy14505 162 RIPNLLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVI 241 (1619)
Q Consensus 162 ~~P~~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~ 241 (1619)
+|||||||||+||||||||+||||||.|||+|++++|++.+ +++++||+..+ .|.+ |+||+|+|.
T Consensus 811 iiP~lLvNGa~GIatG~sT~IP~hNp~EVi~~i~~~l~~e~-----~~~~~P~~~gf--------~G~i--~~~g~G~~~ 875 (1388)
T PTZ00108 811 IIPMVLVNGAEGIGTGFSTSIPNYNPLDIIDNLRRRLNGEE-----VRPLVPWYRGF--------KGTI--ERNPKGKFI 875 (1388)
T ss_pred ccchhhccCCceeEeeeecCCCCCCHHHHHHHHHHHHcCCc-----hhhhcCcCCCC--------CcEE--EecCCeEEE
Confidence 99999999999999999999999999999999999999954 66777775333 3433 689999999
Q ss_pred EeEEEEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHH
Q psy14505 242 IRAKTHIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLY 321 (1619)
Q Consensus 242 ~~~~~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~ 321 (1619)
+||+++++. +++|+||||||++|+++|++.|++ ...++.++|++|+|+|+++|+||+|+|+++..++.+++.||
T Consensus 876 ~rG~~~~~~-----~~~i~ITELP~~~~t~~y~e~l~~-~~~~~~~~I~d~~d~s~~~~v~~~I~l~~~~~~~~~~~~L~ 949 (1388)
T PTZ00108 876 SKGIYEKVP-----DGTVEITELPIGKWTEDYKEFLES-ETLKEKDVIVDYRDYSTANTVHFTVKLNDGVLEQWEEEGIE 949 (1388)
T ss_pred EEEEEEEec-----CCeEEEEeCCCcccHHHHHHHHHH-HHhcCCCcceeeeeccCCCceEEEEEECCCcCHHHHHHHHH
Confidence 999998873 458999999999999999999988 66778999999999999999999999999999999999999
Q ss_pred hhcccccceee-eEEEEE-CC-eeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhchhHHHHHH
Q psy14505 322 KQTQLQNTFGM-NMLALV-NG-QPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTI-ALTNIDNFIQII 397 (1619)
Q Consensus 322 k~t~l~~~~~~-n~~~~~-~~-~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~-a~~~id~vi~ii 397 (1619)
|+|+||++|++ ||++|+ +| .|+|+++.+||++|++||+++|+||++|+|+++++|+|+|+|+++ +...|+..|.+.
T Consensus 950 k~~kL~~s~~~~Nm~~~d~~g~i~~~~~~~~Il~~f~~~Rl~~y~kR~~~~l~~l~~~~~~l~~~~rFI~~vi~~~i~i~ 1029 (1388)
T PTZ00108 950 KVFKLKSTISTTNMVLFDENGKIKKYSDALDILKEFYLVRLDLYKKRKEYLLGKLERELARLSNKVRFIKHVINGELVIT 1029 (1388)
T ss_pred HhcCCceeecceeEEEEeCCCCcceeCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCeeEEc
Confidence 99999999998 999998 55 499999999999999999999999999999999999999999997 666777777664
Q ss_pred HcCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCcc-ccC--HHHHHHhhccchhhcchHHHHH
Q psy14505 398 RSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMY-KLS--DIQAQEILKMPLQRLTNMEQKK 474 (1619)
Q Consensus 398 r~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~Qa~aIL~m~L~~Lt~~e~~~ 474 (1619)
+ .+++++.+.|.+.||++.+-....+.........+.-++. ....+..- .-. ..|++|||+|+|++||..++++
T Consensus 1030 ~--~~k~~l~~~L~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ydYLL~M~i~sLT~e~v~k 1106 (1388)
T PTZ00108 1030 N--AKKKDLVKELKKLGYVRFKDIIKKKSEKITAEEEEGAEED-DEADDEDDEEELGAAVSYDYLLSMPIWSLTKEKVEK 1106 (1388)
T ss_pred c--CCHHHHHHHHHHcCCCccchhhhhcccccccccccccccc-cccccccccccccchhhhHHHhcCCHHhhhHHHHHH
Confidence 4 4677999999999998754211111100000000000000 00000000 000 1279999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCC
Q psy14505 475 IINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGS 516 (1619)
Q Consensus 475 l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~ 516 (1619)
|++|+++++++++.|+. ....++|.+||++++++|-.
T Consensus 1107 L~~e~~~~~~e~~~L~~-----~t~~~lw~~DL~~~~~~~~~ 1143 (1388)
T PTZ00108 1107 LNAELEKKEKELEKLKN-----TTPKDMWLEDLDKFEEALEE 1143 (1388)
T ss_pred HHHHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999998 66789999999999999875
No 19
>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.4e-83 Score=766.61 Aligned_cols=515 Identities=52% Similarity=0.913 Sum_probs=497.2
Q ss_pred cccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHH
Q psy14505 1078 LLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILSRDKAKRL 1157 (1619)
Q Consensus 1078 l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~ 1157 (1619)
...+.+.+|++|.|+|+++++++++||+|++++|++|.+|+++......|++|+.+.+.|+.+.++.+.++||.+++...
T Consensus 14 ~~~~~~~~G~vV~G~Vv~i~~~~v~Vdig~Kseg~ip~~E~~~~~~~~~~~~gd~v~v~v~~~e~~~g~~~lS~~k~~~~ 93 (541)
T COG0539 14 KSDEEFEPGDVVKGTVVSIEKDGVLVDIGGKSEGVIPISEFSNEPVEDVVQVGDEVEVLVLRVEDGEGELVLSRRKAERE 93 (541)
T ss_pred cchhccCCCCEEEEEEEEEeCCeEEEEecCccccEeEHHHhccccccceecCCCEEEEEEEEEecCCceEEeeHHHHHHH
Confidence 45678999999999999999999999999999999999999987776789999999999999999999999999999999
Q ss_pred HhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecch
Q psy14505 1158 ASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRA 1237 (1619)
Q Consensus 1158 ~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~ 1237 (1619)
.+|..+.+.+..|.+++|.|....++|++|+++|++||+|.|+++.+++++...++|+.+.++|+++|++++++++|+|.
T Consensus 94 ~~w~~l~~~~e~~~~V~~~v~~~vKGG~~Vdi~gvr~FlP~S~v~~r~v~d~~~~~Gk~~~~kiie~d~~~n~vv~SrR~ 173 (541)
T COG0539 94 RAWEKLEEAFENGEIVEGKITGKVKGGLTVDIEGVRAFLPGSLVDVRPVRDLDPLIGKELEFKILELDKKRNNVVLSRRA 173 (541)
T ss_pred HhHHHHHHHHhcCCeEEEEEEEEecCcEEEEECCEEEeccHHHhcccccccccccCCceEEEEEEEEccccCcEEEEhHH
Confidence 99999999999999999999999999999999999999999999999999998999999999999999999999999999
Q ss_pred hhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCC
Q psy14505 1238 VIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEK 1317 (1619)
Q Consensus 1238 ~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~ 1317 (1619)
.++....++....++.+++|+++.|+|++++++|+||+++|++|++|++||||.++.+|.+.|++||+|+|+|+++|+++
T Consensus 174 ~~e~~~~~~r~e~~~~l~~G~vV~G~V~~It~~GafVdigGvdGLlHiseiS~~rv~~P~~vvkvGd~VkvkVi~~D~e~ 253 (541)
T COG0539 174 VLEEERSEQREELLNKLEVGEVVEGVVKNITDYGAFVDIGGVDGLLHISEISWKRVDHPSEVVKVGDEVKVKVISLDEER 253 (541)
T ss_pred HhhHHHHHHHHHHHhcCCCCceEEEEEEEeecCcEEEEecCeeeEEehhhccccccCCHHHhcccCCEEEEEEEEEccCC
Confidence 99988888888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEE
Q psy14505 1318 NRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMI 1397 (1619)
Q Consensus 1318 ~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrV 1397 (1619)
+++.||+|++.++||..+...+++|+.+.|+|+++.+||+||++.+|++||||+|+|||..... |.+.+++||+|.|+|
T Consensus 254 ~RVsLSlK~l~~dPw~~i~~~~~~g~~v~G~Vt~i~~~GafVei~~GvEGlvhvSEisw~~~~~-P~evv~~Gq~V~V~V 332 (541)
T COG0539 254 GRVSLSLKQLEEDPWEGIEKKYPVGDKVEGKVTNLTDYGAFVEIEEGVEGLVHVSEISWTKKNV-PSEVVKVGQEVEVKV 332 (541)
T ss_pred CeEEEEehhcccCcHHHHhhhcCCCCEEEEEEEEeecCcEEEEecCCccceeechhhcccccCC-HHHhcccCCEEEEEE
Confidence 9999999999999999999999999999999999999999999999999999999999966555 999999999999999
Q ss_pred EEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCC
Q psy14505 1398 LEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKG 1477 (1619)
Q Consensus 1398 l~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vG 1477 (1619)
+++|++++||+||+|++..+||..+.+.|++|+++.|.|++++++|+||.+++|++|++|.++++|+.....+. .|+.|
T Consensus 333 l~id~e~rRIsL~iKq~~~~pw~~~~~~~~~g~~v~g~v~~~t~~g~fv~le~gidG~vh~~d~sw~~~~~~~~-~~k~G 411 (541)
T COG0539 333 LDIDPERRRISLGLKQLKENPWEEFADKHPVGDVVEGKVKSITDFGAFVELEGGIDGLVHLSDLSWDRPGEEAE-KYKKG 411 (541)
T ss_pred EeeCchhceEEeeehhhhcChhhhhhhhcCCCCeEEEEEeeecccceEEccCCCccceEEHHhcCccccCcHHH-hhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999977766666 99999
Q ss_pred CEEEEEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccccCc
Q psy14505 1478 DEIEAIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHEKKL 1557 (1619)
Q Consensus 1478 q~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~~~~ 1557 (1619)
++|+|+|+.+|++++|++|++|++..+||..+...+++|..++|+|+++. ++|+||+|.+++.|+++.++++.. .|
T Consensus 412 d~v~~~vl~vd~~~~~isLgiKql~~~p~~~~~~~~~~~~~v~~~v~~i~-~~G~~v~l~~~v~G~i~~~~~~~~---~~ 487 (541)
T COG0539 412 DEVEAKVLAVDKEKERISLGIKQLEESPWEEFSEKYKKGSVVKGKVKSVK-DKGAFVELGGGVEGLIRLSELSRD---VL 487 (541)
T ss_pred cEEEEEEEEEecccceeeeehhhhccCchhhhHhhccCCCeEEEEEEEEc-cCceEEEecCceeeeeecchhhhh---hc
Confidence 99999999999999999999999999999999999999999999999995 999999999999999999999765 89
Q ss_pred CCCCEEEEEEEEEeCCCCEEEEeecchHHHHHHHHHHhhcc
Q psy14505 1558 KIGENIDVLTVLIDHKTRYIQLSFKKKEVIKKKKLLTSINA 1598 (1619)
Q Consensus 1558 ~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~~~~~~~~~~ 1598 (1619)
++||.|.|+|+++|++.+++.||+|+.+.+++|+++..++.
T Consensus 488 ~~gd~v~a~v~~id~k~~ki~lSik~~~~~eek~~~~~~~~ 528 (541)
T COG0539 488 KVGDEVEAVVVSIDKKNRKILLSIKALERKEEKEALESYNK 528 (541)
T ss_pred cCCCEEEEEEEEEcCCCCEEEEEechhhhhhHHHHHHhhcC
Confidence 99999999999999999999999999999999999988873
No 20
>PRK06299 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=3e-73 Score=727.03 Aligned_cols=546 Identities=56% Similarity=0.989 Sum_probs=503.6
Q ss_pred hhhhhhhhcccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEE
Q psy14505 1070 FATLFKESLLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTIL 1149 (1619)
Q Consensus 1070 i~~ll~e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~L 1149 (1619)
+..++++++...++.+|++|.|+|.+++++|++|++|.+.+||||.+|+++......+++|+.++|+|+++++..+.+.|
T Consensus 15 f~~~l~~~~~~~~~~~G~~v~G~V~~v~~~~~~Vdig~k~~g~lp~~e~~~~~~~~~~~vG~~i~~~V~~~~~~~~~i~l 94 (565)
T PRK06299 15 FAELFEESLKESETREGSIVKGTVVAIDKDYVLVDVGLKSEGRIPLEEFKNEQGELEVKVGDEVEVYVERIEDGFGETVL 94 (565)
T ss_pred HHHHHHhhcccccCCCCCEEEEEEEEEECCEEEEEeCCCeEEEEEHHHhcCccccccCCCCCEEEEEEEEEECCCCcEEE
Confidence 34445555433568899999999999999999999999999999999998654445699999999999999998899999
Q ss_pred ehHHHHHHHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCC
Q psy14505 1150 SRDKAKRLASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRN 1229 (1619)
Q Consensus 1150 S~~~~~~~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~ 1229 (1619)
|+++......|..+.+++++|++++|+|.++.++|++|.++|++||+|.++++++...+...++|++++|+|+++|++++
T Consensus 95 S~k~~~~~~~~~~l~~~~~~g~~v~g~V~~~~~~G~~V~~~g~~gfip~s~~~~~~~~~~~~~vG~~i~~~V~~~d~~~~ 174 (565)
T PRK06299 95 SREKAKRLEAWDKLEKAFENGEIVEGVINGKVKGGFTVDLNGVEAFLPGSQVDVRPVRDTDPLEGKELEFKVIKLDKKRN 174 (565)
T ss_pred echHHHHHHHHHHHHHHhhCCCEEEEEEEEEECCEEEEEECCEEEEEEHHHccCcCCCChHHhCCCEEEEEEEEEECCCC
Confidence 99999999999999999999999999999999999999999999999999999877666666799999999999999999
Q ss_pred eEEeecchhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEE
Q psy14505 1230 NVVLSHRAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTK 1309 (1619)
Q Consensus 1230 ~i~LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vr 1309 (1619)
++.||+++++.......|...+..+++|+++.|+|+++.++|+||+++|++|++|.++++|.+..+|.+.|++||+++|+
T Consensus 175 ~i~lS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~i~g~~glv~~se~s~~~~~~~~~~~kvG~~v~v~ 254 (565)
T PRK06299 175 NIVVSRRAVLEEERAEEREELLENLEEGQVVEGVVKNITDYGAFVDLGGVDGLLHITDISWKRVNHPSEVVNVGDEVKVK 254 (565)
T ss_pred EEEEEhHHhhhhhhhhHHHHHHhcCCCCCEEEEEEEEEeCCeEEEEECCEEEEEEHHHhcccccCCHhhcCCCCCEEEEE
Confidence 99999999887666667778889999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccC
Q psy14505 1310 ILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQL 1389 (1619)
Q Consensus 1310 Vl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~v 1389 (1619)
|+++|++++++.||+|+...+||......+++|+++.|+|+++.++|+||+++++++||+|.++++|.....+|...|++
T Consensus 255 V~~~d~~~~~i~lS~k~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~G~fV~l~~~v~Glv~~sel~~~~~~~~~~~~~~~ 334 (565)
T PRK06299 255 VLKFDKEKKRVSLGLKQLGEDPWEAIEKKYPVGSKVKGKVTNITDYGAFVELEEGIEGLVHVSEMSWTKKNKHPSKVVSV 334 (565)
T ss_pred EEEEeCCCCeEEEEEEecccChhHHHHhhCCCCCEEEEEEEEEeCCeEEEEeCCCCEEEEEHHHcCccccccCHHHhcCC
Confidence 99999999999999999999999988888999999999999999999999999999999999999997667788889999
Q ss_pred CCEEEEEEEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccc
Q psy14505 1390 NDTVEIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEE 1469 (1619)
Q Consensus 1390 G~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~ 1469 (1619)
||.|+|+|+++|++++++.||+|++..+||..+...+++|+++.|.|++++++|+||++++++.|++|.++++|.....+
T Consensus 335 G~~v~v~V~~id~~~~~i~ls~k~~~~~p~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l~~~v~g~i~~s~l~~~~~~~~ 414 (565)
T PRK06299 335 GQEVEVMVLEIDEEKRRISLGLKQCKENPWEEFAEKYPVGDVVEGKVKNITDFGAFVGLEGGIDGLVHLSDISWDKKGEE 414 (565)
T ss_pred CCEEEEEEEEEcCCCCEEEEehHHhccchhhhHHHhCCCCCEEEEEEEEEecceEEEECCCCCEEEEEHHHcCccccccC
Confidence 99999999999999999999999999999999888889999999999999999999999989999999999997543478
Q ss_pred cccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEcccc
Q psy14505 1470 IIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEE 1549 (1619)
Q Consensus 1470 ~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~ 1549 (1619)
+.+.|++||.|+|+|+++|+++++|.||+|++..+||......+++|+.|.|+|.++. ++|+||++.+|+.|+||.+++
T Consensus 415 ~~~~~~~Gd~v~v~Il~vd~~~~~i~ls~k~~~~~p~~~~~~~~~~G~vV~G~V~~v~-~~G~fV~l~~gi~g~i~~se~ 493 (565)
T PRK06299 415 AVELYKKGDEVEAVVLKVDVEKERISLGIKQLEEDPFEEFAKKHKKGSIVTGTVTEVK-DKGAFVELEDGVEGLIRASEL 493 (565)
T ss_pred hHhhCCCCCEEEEEEEEEeCCCCEEEEEEehhhcCchhHHHhhcCCCCEEEEEEEEEe-cCceEEecCCCcEEEEEHHHh
Confidence 8899999999999999999999999999999999999988888999999999999996 999999999999999999999
Q ss_pred cccc----ccCcCCCCEEEEEEEEEeCCCCEEEEeecchHHHHHHHHHHhhccCCCCCcccHHHHHHHHHhc
Q psy14505 1550 DNKH----EKKLKIGENIDVLTVLIDHKTRYIQLSFKKKEVIKKKKLLTSINANTISGTTNLGLILKAELEK 1617 (1619)
Q Consensus 1550 ~~~~----~~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1617 (1619)
++.. .+.|++||.|+|+|+++|.+++++.||+|+....++++.++.++. +.+...+||+.|+++|+.
T Consensus 494 s~~~~~~~~~~~~~Gd~v~~~V~~vd~~~~~i~LS~k~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~ 564 (565)
T PRK06299 494 SRDRVEDATEVLKVGDEVEAKVINIDRKNRRISLSIKALDEAEEKEAIAEYNS-ASDSKTTLGDLLKAALKG 564 (565)
T ss_pred cchhccCccccCCCCCEEEEEEEEEccccCEEEEEeeehhhhhhHHHHHhhhc-cCcccCCHHHHHHHHhcC
Confidence 7643 378999999999999999999999999999999888888777765 334457999999998874
No 21
>TIGR00717 rpsA ribosomal protein S1. This model provides trusted hits to most long form (6 repeat) examples of RpsA. Among homologs with only four repeats are some to which other (perhaps secondary) functions have been assigned.
Probab=100.00 E-value=2.3e-69 Score=685.93 Aligned_cols=509 Identities=52% Similarity=0.928 Sum_probs=473.2
Q ss_pred hhhhhhhcccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEEe
Q psy14505 1071 ATLFKESLLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILS 1150 (1619)
Q Consensus 1071 ~~ll~e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS 1150 (1619)
.+++++++...++++|+++.|+|.++++++++|++|.+.+||+|.+|++... ..|++||.+.|+|+++++..+.+.||
T Consensus 4 ~~~~~~~~~~~~~~~G~~v~g~V~~i~~~~~~v~~g~k~~g~i~~~E~~~~~--~~~~vGd~i~~~V~~~~~~~g~i~lS 81 (516)
T TIGR00717 4 AQLLEESLKTEETRPGSIVKGTVVAINKDTVFVDVGLKSEGRIPKEEFLDAP--LEIQVGDEVEVYLDRVEDRFGETVLS 81 (516)
T ss_pred HHHHhhhcccccCCCCCEEEEEEEEEECCEEEEEcCCCcEEEEEHHHhcCCc--cCCCCCCEEEEEEEEEeCCCCcEEEE
Confidence 4456655555578999999999999999999999999999999999998643 45999999999999999888999999
Q ss_pred hHHHHHHHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCe
Q psy14505 1151 RDKAKRLASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNN 1230 (1619)
Q Consensus 1151 ~~~~~~~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~ 1230 (1619)
.++......|..+..++++|++++|+|.++.++|++|+++|++||+|.++++.+..++...++|++++|+|+.+++..++
T Consensus 82 ~~~~~~~~~~~~l~~a~~~g~~v~g~V~~~~~~g~~V~i~g~~~flP~s~~~~~~~~~~~~~vG~~i~~~v~~~~~~~~~ 161 (516)
T TIGR00717 82 REKAQRHELWIKLEKAYEEGSIVEGKIVGKVKGGFIVDLNGVEAFLPGSQVDVKPIKDLDSLIGKTLKFKIIKLDQKRNN 161 (516)
T ss_pred HHHhhhhHHHHHHHHHhhCCCeEEEEEEEEECCEEEEEECCEEEEEeHHHhcCcccCchhhhCCCEEEEEEEEEECCCCc
Confidence 99988888999999999999999999999999999999999999999999987665566667999999999999999999
Q ss_pred EEeecchhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEE
Q psy14505 1231 VVLSHRAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKI 1310 (1619)
Q Consensus 1231 i~LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrV 1310 (1619)
+.+|+++++.......+...++.+++|++++|+|.++.++|+||+++|++||+|.++++|.+..+|.+.|++|+++.|+|
T Consensus 162 iv~Srk~~l~~~~~~~~~~~~~~l~~G~~v~g~V~~i~~~G~~V~l~g~~g~lp~~e~s~~~~~~~~~~~~vG~~v~v~V 241 (516)
T TIGR00717 162 IVVSRRAYLEEERSQAREELLENLKEGDVVKGVVKNITDFGAFVDLGGVDGLLHITDMSWKRVKHPSEYVKVGQEVKVKV 241 (516)
T ss_pred EEEEHHHHHHHHHHHHHHHHHHhccCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHcCCCCCCCHHHhccCCCEEEEEE
Confidence 99999988777655567788899999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCC
Q psy14505 1311 LKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLN 1390 (1619)
Q Consensus 1311 l~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG 1390 (1619)
+++|++++++.||+|+...+||......+++|+++.|+|+++.++|+||++++++.|++|.++++|.....+|.+.|++|
T Consensus 242 l~~d~~~~~i~lS~k~~~~~p~~~~~~~~~~G~i~~g~V~~v~~~G~fV~l~~~v~g~v~~sels~~~~~~~~~~~~~vG 321 (516)
T TIGR00717 242 IKFDKEKGRISLSLKQLGEDPWEAIEKKFPVGDKITGRVTNLTDYGVFVEIEEGIEGLVHVSEMSWVKKNSHPSKVVKKG 321 (516)
T ss_pred EEEECCCCcEEEEEEecchhHHHHHHhhccCCCEEEEEEEEeeCCcEEEEeCCCCEEEEEHHHcCCccccCCHHHhccCC
Confidence 99999999999999999999999888889999999999999999999999999999999999999865567788889999
Q ss_pred CEEEEEEEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCcccc
Q psy14505 1391 DTVEIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEI 1470 (1619)
Q Consensus 1391 ~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~ 1470 (1619)
|.|+|+|+++|++++++.||+|++..+||..+.+.+++|+++.|+|++++++|+||++.+++.|++|.++++|.....++
T Consensus 322 ~~v~v~V~~id~~~~~i~lS~k~~~~~p~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l~~~v~glv~~s~ls~~~~~~~~ 401 (516)
T TIGR00717 322 DEVEVMILDIDPERRRLSLGLKQCKANPWEQFEEKHPVGDRVTGKIKKITDFGAFVELEGGIDGLIHLSDISWDKDGREA 401 (516)
T ss_pred CEEEEEEEEEcCCCCEEEEEehhcccCcHHHHHHhCCCCCEEEEEEEEEecceEEEECCCCCEEEEEHHHCcCcccCCCH
Confidence 99999999999999999999999999999998888899999999999999999999999999999999999996666677
Q ss_pred ccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccc
Q psy14505 1471 IRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEED 1550 (1619)
Q Consensus 1471 ~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~ 1550 (1619)
...|++||.|.|+|+++|+++++|.||+|++..+||....+.+++|+.++|+|+++. ++|+||++.+++.|++|.++++
T Consensus 402 ~~~~~~G~~V~~~Vl~vd~~~~~i~ls~K~~~~~p~~~~~~~~~~G~~v~g~V~~v~-~~G~fV~l~~~~~Glv~~s~l~ 480 (516)
T TIGR00717 402 DHLYKKGDEIEAVVLAVDKEKKRISLGVKQLTENPWEKFAAKYKVGSVVKGKVTEIK-DFGAFVELPGGVEGLIRNSELS 480 (516)
T ss_pred hHccCCCCEEEEEEEEEeCcCCEEEEeeccccCCchhhhhhccCcceEEEEEEEEEe-cceEEEEcCCCeEEEEEHHHcC
Confidence 889999999999999999999999999999999999888888999999999999995 9999999999999999999997
Q ss_pred ccc----ccCcCCCCEEEEEEEEEeCCCCEEEEeec
Q psy14505 1551 NKH----EKKLKIGENIDVLTVLIDHKTRYIQLSFK 1582 (1619)
Q Consensus 1551 ~~~----~~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk 1582 (1619)
++. .+.|++||.|+++|+++|.+++++.||+|
T Consensus 481 ~~~~~~~~~~~~~Gd~v~~~V~~id~~~~~i~ls~k 516 (516)
T TIGR00717 481 ENRDEDKTDEIKVGDEVEAKVVDIDKKNRKVSLSVK 516 (516)
T ss_pred ccccccccccCCCCCEEEEEEEEEeCCCCEEEEEEC
Confidence 653 37899999999999999999999999997
No 22
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=100.00 E-value=1.2e-60 Score=594.31 Aligned_cols=424 Identities=32% Similarity=0.619 Sum_probs=392.7
Q ss_pred cCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHHhHH
Q psy14505 1082 DMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLASWL 1161 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~~~~ 1161 (1619)
++.+|++|.|+|+++++++++|++|.+.+||||.+|+.+......+++|+.+.++|+++++. .+.||.... ....|.
T Consensus 31 ~~~~G~~v~G~V~~v~~~~v~Vdig~k~eg~ip~~e~~~~~~~~~~~~G~~i~~~Vi~~~~~--~~~lS~~~~-~~~~~~ 107 (491)
T PRK13806 31 ELRVGDKITGTVIAITEDSVFVDTGSKVDGVVDRAELLDADGELTVAVGDEVELYVVSVNGQ--EIRLSKALS-GQGGAA 107 (491)
T ss_pred cCCCCCEEEEEEEEEECCEEEEEECCCcEEEEEHHHhcCccccccccCCCEEEEEEEEEcCC--EEEEEhHHh-hhhhHH
Confidence 48999999999999999999999999999999999997544445689999999999998764 689997654 457899
Q ss_pred HHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchhhhh
Q psy14505 1162 SLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEE 1241 (1619)
Q Consensus 1162 ~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~ 1241 (1619)
.+.++++.|++++|+|.++.++|++|+++|++||+|.+++++....+...++|++++|+|+.+|++++++.||++..+..
T Consensus 108 ~l~~~~~~g~~v~g~V~~~~~~G~~V~i~g~~~flP~s~~~~~~~~~~~~~vG~~i~~~V~~id~~~~~v~lSrk~~~~~ 187 (491)
T PRK13806 108 MLEEAYENGVPVEGKVTGTCKGGFNVEVLGRRAFCPVSQIDLRYVEDPESYVGQTFQFLITRVEENGRNIVVSRRALLER 187 (491)
T ss_pred HHHHHHhCCCEEEEEEEEEEcCCEEEEECCEEEEEEHHHhccccCCChHHcCCCeEEEEEEEEECCCCeEEEEeehhhhh
Confidence 99999999999999999999999999999999999999998877767666799999999999999999999999988877
Q ss_pred hhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCC---
Q psy14505 1242 SMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEK--- 1317 (1619)
Q Consensus 1242 ~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~--- 1317 (1619)
.....|...+..+++|++++|+|+++.++|+||+++ |+.||+|+++++|.+..+|.+.|++||.++|+|+++|+++
T Consensus 188 ~~~~~~~~~~~~l~~G~iv~G~V~~v~~~G~fV~l~~gv~g~v~~sels~~~~~~~~~~~~vGd~i~vkVl~id~~~~~~ 267 (491)
T PRK13806 188 EQKEALEAFMETVKEGDVVEGTVTRLAPFGAFVELAPGVEGMVHISELSWSRVQKADEAVSVGDTVRVKVLGIERAKKGK 267 (491)
T ss_pred hhHHHHHHHHhhCCCCCEEEEEEEEEeCCeEEEEcCCCcEEEEEHHHCCCccccChhHhcCCCCEEEEEEEEEecccCCc
Confidence 666677788888999999999999999999999996 8999999999999999999999999999999999999876
Q ss_pred -CeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEE
Q psy14505 1318 -NRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIM 1396 (1619)
Q Consensus 1318 -~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vr 1396 (1619)
+++.||+|++..+||..+..++++|+++.|+|+++.++|+||++++|++||+|.++++|.....+|.+.|++||.|+|+
T Consensus 268 ~~ri~lS~K~~~~~p~~~~~~~~~~G~~v~G~V~~v~~~G~fV~l~~gv~Glvh~sels~~~~~~~~~~~~~~Gd~v~vk 347 (491)
T PRK13806 268 GLRISLSIKQAGGDPWDTVGDRLKAGDKVTGKVVRLAPFGAFVEILPGIEGLVHVSEMSWTRRVNKPEDVVAPGDAVAVK 347 (491)
T ss_pred ceEEEEEehhhhcccchhhhccCCCCCEEEEEEEEEeCceEEEEeCCCcEEEEEHHHcCcccccCCHHHcCCCCCEEEEE
Confidence 4799999999999999999899999999999999999999999999999999999999966678899999999999999
Q ss_pred EEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCC
Q psy14505 1397 ILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKK 1476 (1619)
Q Consensus 1397 Vl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~v 1476 (1619)
|+++|++++++.||+|++..+||..+.+.+++|++++|+|+++++||+||++.+|+.||||.++++| .+..++.+.|++
T Consensus 348 Vl~iD~e~~ri~Ls~K~~~~~p~~~~~~~~~vG~~v~G~V~~i~~~G~FV~l~~gv~Gli~~se~s~-~~~~~~~~~~~~ 426 (491)
T PRK13806 348 IKDIDPAKRRISLSLRDAEGDPWADVAERFAPGTTVTGTVEKRAQFGLFVNLAPGVTGLLPASVISR-AGKPATYEKLKP 426 (491)
T ss_pred EEEEEccCCEEEEEEeecccChhHHhhhhCCCCCEEEEEEEEEecCceEEEcCCCcEEEEEHHHcCc-ccccchhhcCCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999997 555788899999
Q ss_pred CCEEEEEEEEeecCCCeEEEeeecCc-----CCCcccc
Q psy14505 1477 GDEIEAIILSIDVEKERISLGIKQLE-----GDPFNNY 1509 (1619)
Q Consensus 1477 Gq~V~~~Vl~vd~e~~ri~LSlK~~~-----~~p~~~~ 1509 (1619)
||+|+|+|+++|++++||+||+|... .+||..+
T Consensus 427 Gd~v~~~V~~id~e~~ri~Ls~~~~~~~~~~~~~~~~~ 464 (491)
T PRK13806 427 GDSVTLVVEEIDTAKRKISLAPAGAAGSGADDDDWKQF 464 (491)
T ss_pred CCEEEEEEEEEeCCCCEEEEEeehhhhhhhhhhHHHhh
Confidence 99999999999999999999999662 3577665
No 23
>COG0539 RpsA Ribosomal protein S1 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.4e-60 Score=570.76 Aligned_cols=423 Identities=30% Similarity=0.565 Sum_probs=387.0
Q ss_pred HHccCCCEEEEEEEEEEeCeEEEEeCC-EEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchhhhhhh
Q psy14505 1165 KAMESGEIITGTINGKVKGGLTVLTNG-LKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESM 1243 (1619)
Q Consensus 1165 ~~l~~G~~v~g~V~~v~~~Gl~V~~gg-~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~ 1243 (1619)
..+.+|+++.|+|+++.+.+++|++|+ ..|++|.+++......+ ...+|+.+++.|+.+....+.++||++.+...
T Consensus 17 ~~~~~G~vV~G~Vv~i~~~~v~Vdig~Kseg~ip~~E~~~~~~~~-~~~~gd~v~v~v~~~e~~~g~~~lS~~k~~~~-- 93 (541)
T COG0539 17 EEFEPGDVVKGTVVSIEKDGVLVDIGGKSEGVIPISEFSNEPVED-VVQVGDEVEVLVLRVEDGEGELVLSRRKAERE-- 93 (541)
T ss_pred hccCCCCEEEEEEEEEeCCeEEEEecCccccEeEHHHhccccccc-eecCCCEEEEEEEEEecCCceEEeeHHHHHHH--
Confidence 358899999999999999999999985 66999999887655444 33489999999999999889999999876443
Q ss_pred hHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEe
Q psy14505 1244 GEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLG 1323 (1619)
Q Consensus 1244 ~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LS 1323 (1619)
..|......+..|.+|+|+|....+.|+.|+++|++||+|.|+++..++.++... +|.++.++|+.+|++++++.+|
T Consensus 94 -~~w~~l~~~~e~~~~V~~~v~~~vKGG~~Vdi~gvr~FlP~S~v~~r~v~d~~~~--~Gk~~~~kiie~d~~~n~vv~S 170 (541)
T COG0539 94 -RAWEKLEEAFENGEIVEGKITGKVKGGLTVDIEGVRAFLPGSLVDVRPVRDLDPL--IGKELEFKILELDKKRNNVVLS 170 (541)
T ss_pred -HhHHHHHHHHhcCCeEEEEEEEEecCcEEEEECCEEEeccHHHhccccccccccc--CCceEEEEEEEEccccCcEEEE
Confidence 3688888899999999999999999999999999999999999999988887765 9999999999999999999999
Q ss_pred eecccc----CCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1324 MKQLGI----DPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1324 lK~~~~----~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
.|..+. .....+..++++|++++|+|+++++||+||+++ |++||||++|||| .++.+|++.|++||+|+|+|++
T Consensus 171 rR~~~e~~~~~~r~e~~~~l~~G~vV~G~V~~It~~GafVdig-GvdGLlHiseiS~-~rv~~P~~vvkvGd~VkvkVi~ 248 (541)
T COG0539 171 RRAVLEEERSEQREELLNKLEVGEVVEGVVKNITDYGAFVDIG-GVDGLLHISEISW-KRVDHPSEVVKVGDEVKVKVIS 248 (541)
T ss_pred hHHHhhHHHHHHHHHHHhcCCCCceEEEEEEEeecCcEEEEec-CeeeEEehhhccc-cccCCHHHhcccCCEEEEEEEE
Confidence 998765 334456678999999999999999999999995 6999999999999 7899999999999999999999
Q ss_pred eecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCE
Q psy14505 1400 INEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDE 1479 (1619)
Q Consensus 1400 id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~ 1479 (1619)
+|++++|++||+|++.++||..+...|++|+.+.|+|+++++||+||++.+|+.||||.|++||..... |.+.+++||+
T Consensus 249 ~D~e~~RVsLSlK~l~~dPw~~i~~~~~~g~~v~G~Vt~i~~~GafVei~~GvEGlvhvSEisw~~~~~-P~evv~~Gq~ 327 (541)
T COG0539 249 LDEERGRVSLSLKQLEEDPWEGIEKKYPVGDKVEGKVTNLTDYGAFVEIEEGVEGLVHVSEISWTKKNV-PSEVVKVGQE 327 (541)
T ss_pred EccCCCeEEEEehhcccCcHHHHhhhcCCCCEEEEEEEEeecCcEEEEecCCccceeechhhcccccCC-HHHhcccCCE
Confidence 999999999999999999999999999999999999999999999999999999999999999976655 9999999999
Q ss_pred EEEEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccc----c
Q psy14505 1480 IEAIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHE----K 1555 (1619)
Q Consensus 1480 V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~----~ 1555 (1619)
|.|+|++||++++||+||||++..+||......+++|+.++|.|.++ +++|+||.+++|+.|++|.+++++... .
T Consensus 328 V~V~Vl~id~e~rRIsL~iKq~~~~pw~~~~~~~~~g~~v~g~v~~~-t~~g~fv~le~gidG~vh~~d~sw~~~~~~~~ 406 (541)
T COG0539 328 VEVKVLDIDPERRRISLGLKQLKENPWEEFADKHPVGDVVEGKVKSI-TDFGAFVELEGGIDGLVHLSDLSWDRPGEEAE 406 (541)
T ss_pred EEEEEEeeCchhceEEeeehhhhcChhhhhhhhcCCCCeEEEEEeee-cccceEEccCCCccceEEHHhcCccccCcHHH
Confidence 99999999999999999999999999999999999999999999999 699999999999999999999987532 5
Q ss_pred CcCCCCEEEEEEEEEeCCCCEEEEeecchHHHHHHHHHHhhc
Q psy14505 1556 KLKIGENIDVLTVLIDHKTRYIQLSFKKKEVIKKKKLLTSIN 1597 (1619)
Q Consensus 1556 ~~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~~~~~~~~~ 1597 (1619)
.|+.|+.++|+|+.+|+++++++|++|++....-.+....+.
T Consensus 407 ~~k~Gd~v~~~vl~vd~~~~~isLgiKql~~~p~~~~~~~~~ 448 (541)
T COG0539 407 KYKKGDEVEAKVLAVDKEKERISLGIKQLEESPWEEFSEKYK 448 (541)
T ss_pred hhccCcEEEEEEEEEecccceeeeehhhhccCchhhhHhhcc
Confidence 899999999999999999999999999998765554444443
No 24
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=100.00 E-value=3.2e-58 Score=572.53 Aligned_cols=442 Identities=26% Similarity=0.409 Sum_probs=393.0
Q ss_pred ccCCCEEEEEEEEEEeCeEEEEeC-CEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchhhhhhhhH
Q psy14505 1167 MESGEIITGTINGKVKGGLTVLTN-GLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMGE 1245 (1619)
Q Consensus 1167 l~~G~~v~g~V~~v~~~Gl~V~~g-g~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~~ 1245 (1619)
+.+|++++|+|+++.++|++|++| +..||+|.+++.... ......+|++++|+|+.+++ +.+.||++... ..
T Consensus 32 ~~~G~~v~G~V~~v~~~~v~Vdig~k~eg~ip~~e~~~~~-~~~~~~~G~~i~~~Vi~~~~--~~~~lS~~~~~----~~ 104 (491)
T PRK13806 32 LRVGDKITGTVIAITEDSVFVDTGSKVDGVVDRAELLDAD-GELTVAVGDEVELYVVSVNG--QEIRLSKALSG----QG 104 (491)
T ss_pred CCCCCEEEEEEEEEECCEEEEEECCCcEEEEEHHHhcCcc-ccccccCCCEEEEEEEEEcC--CEEEEEhHHhh----hh
Confidence 789999999999999999999998 689999998875322 22334599999999999875 46899976431 23
Q ss_pred HHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1246 ERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMK 1325 (1619)
Q Consensus 1246 ~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK 1325 (1619)
.|....+.++.|++++|+|.++.++|++|+++|++||+|.+++++....++... +|++++|+|+.+|++++++.||+|
T Consensus 105 ~~~~l~~~~~~g~~v~g~V~~~~~~G~~V~i~g~~~flP~s~~~~~~~~~~~~~--vG~~i~~~V~~id~~~~~v~lSrk 182 (491)
T PRK13806 105 GAAMLEEAYENGVPVEGKVTGTCKGGFNVEVLGRRAFCPVSQIDLRYVEDPESY--VGQTFQFLITRVEENGRNIVVSRR 182 (491)
T ss_pred hHHHHHHHHhCCCEEEEEEEEEEcCCEEEEECCEEEEEEHHHhccccCCChHHc--CCCeEEEEEEEEECCCCeEEEEee
Confidence 677788889999999999999999999999999999999999999988888764 999999999999999999999999
Q ss_pred cccc----CCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEee
Q psy14505 1326 QLGI----DPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEIN 1401 (1619)
Q Consensus 1326 ~~~~----~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id 1401 (1619)
+... .+|..+..++++|++++|+|+++.++|+||++++++.||||.++++| ....+|.+.|++||.|+|+|+++|
T Consensus 183 ~~~~~~~~~~~~~~~~~l~~G~iv~G~V~~v~~~G~fV~l~~gv~g~v~~sels~-~~~~~~~~~~~vGd~i~vkVl~id 261 (491)
T PRK13806 183 ALLEREQKEALEAFMETVKEGDVVEGTVTRLAPFGAFVELAPGVEGMVHISELSW-SRVQKADEAVSVGDTVRVKVLGIE 261 (491)
T ss_pred hhhhhhhHHHHHHHHhhCCCCCEEEEEEEEEeCCeEEEEcCCCcEEEEEHHHCCC-ccccChhHhcCCCCEEEEEEEEEe
Confidence 8753 45555566799999999999999999999999889999999999999 567899999999999999999999
Q ss_pred ccc----ceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCC
Q psy14505 1402 EER----RRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKG 1477 (1619)
Q Consensus 1402 ~e~----~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vG 1477 (1619)
+++ +++.||+|++..+||..+...+++|+++.|+|++++++|+||++.+|+.||+|.++++|.....+|.+.|++|
T Consensus 262 ~~~~~~~~ri~lS~K~~~~~p~~~~~~~~~~G~~v~G~V~~v~~~G~fV~l~~gv~Glvh~sels~~~~~~~~~~~~~~G 341 (491)
T PRK13806 262 RAKKGKGLRISLSIKQAGGDPWDTVGDRLKAGDKVTGKVVRLAPFGAFVEILPGIEGLVHVSEMSWTRRVNKPEDVVAPG 341 (491)
T ss_pred cccCCcceEEEEEehhhhcccchhhhccCCCCCEEEEEEEEEeCceEEEEeCCCcEEEEEHHHcCcccccCCHHHcCCCC
Confidence 876 4799999999999999999899999999999999999999999999999999999999866677888999999
Q ss_pred CEEEEEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccc---
Q psy14505 1478 DEIEAIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHE--- 1554 (1619)
Q Consensus 1478 q~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~--- 1554 (1619)
|.|+|+|+++|++++++.||+|++..+||....+.+++|++|+|+|+++. +||+||++.+|+.||||.+++++...
T Consensus 342 d~v~vkVl~iD~e~~ri~Ls~K~~~~~p~~~~~~~~~vG~~v~G~V~~i~-~~G~FV~l~~gv~Gli~~se~s~~~~~~~ 420 (491)
T PRK13806 342 DAVAVKIKDIDPAKRRISLSLRDAEGDPWADVAERFAPGTTVTGTVEKRA-QFGLFVNLAPGVTGLLPASVISRAGKPAT 420 (491)
T ss_pred CEEEEEEEEEEccCCEEEEEEeecccChhHHhhhhCCCCCEEEEEEEEEe-cCceEEEcCCCcEEEEEHHHcCcccccch
Confidence 99999999999999999999999999999999999999999999999995 99999999999999999999986432
Q ss_pred -cCcCCCCEEEEEEEEEeCCCCEEEEeecchHH-HHHHHHHHhhccC----CCCCcccHHHHHHHHHhccC
Q psy14505 1555 -KKLKIGENIDVLTVLIDHKTRYIQLSFKKKEV-IKKKKLLTSINAN----TISGTTNLGLILKAELEKIK 1619 (1619)
Q Consensus 1555 -~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~ 1619 (1619)
+.|++||+|+|+|+++|+++++|+||+|..+. ++.++.++.+... ..++.++||++|+++|+++|
T Consensus 421 ~~~~~~Gd~v~~~V~~id~e~~ri~Ls~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 491 (491)
T PRK13806 421 YEKLKPGDSVTLVVEEIDTAKRKISLAPAGAAGSGADDDDWKQFAPKKSAPASGGLGSLGQALQEAMKKKK 491 (491)
T ss_pred hhcCCCCCEEEEEEEEEeCCCCEEEEEeehhhhhhhhhhHHHhhccccccccccCCCCHHHHHHHHhhccC
Confidence 78999999999999999999999999997753 2234455555221 12556899999999999876
No 25
>PRK12269 bifunctional cytidylate kinase/ribosomal protein S1; Provisional
Probab=100.00 E-value=6.3e-55 Score=561.67 Aligned_cols=417 Identities=27% Similarity=0.565 Sum_probs=371.7
Q ss_pred cCCCCCeEEEEEEEEe--ccEEEEEeCCCeEEEEecccccccCCC-ccccCCCEEEEEEEEEeC-----CCCeEEEehHH
Q psy14505 1082 DMRSGEVISAEVIGLD--RNFVIINADLKSEAFIPIEEFKNDNGE-LEVKIGDFVSVAIESLEN-----GFGDTILSRDK 1153 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~--~~gv~V~lg~~~~Gfi~~~e~~~~~~~-~~~kvG~~v~~~V~~v~~-----~~~~v~LS~~~ 1153 (1619)
.+..|.+|+|+|.+++ ++|++|++|.+.+||+|.+|+.....+ ....+|+.+.+.|+.++. +.+.++||.+.
T Consensus 395 a~~~g~~V~G~Vv~v~~~kgG~~Vdig~~~~gfiP~se~~~~~~~~~~~~vG~~ie~~V~~~~~~~~~~~~~~iVlSrr~ 474 (863)
T PRK12269 395 AERDGTPVEGRIVRLTEKKSGFEVDLGAGMMAFLPISQSDCQKVDAPESLIGLTSKFYIERISQSKQHRGNDNIVINRRR 474 (863)
T ss_pred HHhCCCeEEEEEEEEEeecCEEEEEECCCcEEEEEHHHhccccccchHHhCCCeEEEEEEEEecccccCCCCeEEEEHHH
Confidence 4668999999999985 479999999899999999999653322 234689999999999864 34689999998
Q ss_pred HHHHHhHHHHHH---HccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCC--CCCCeEEEEEEEEecCC
Q psy14505 1154 AKRLASWLSLEK---AMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTP--FEGKTMDFKVIKLDRKR 1228 (1619)
Q Consensus 1154 ~~~~~~~~~~~~---~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~--~vG~~v~~~Vl~vd~~~ 1228 (1619)
......|....+ .+++|+++.|+|.++.++|++|+++|+.||+|.+++++....+... .+|++++|+|+++|+++
T Consensus 475 ~l~e~~~~~~ee~~~~l~~G~~V~G~Vk~i~~~G~fVdl~Gv~Gfvp~SeiS~~~v~~~~~~~kvGq~v~vkVi~iD~e~ 554 (863)
T PRK12269 475 YLEERARQAREEFFNSVHIEDSVSGVVKSFTSFGAFIDLGGFDGLLHVNDMSWGHVARPREFVKKGQTIELKVIRLDQAE 554 (863)
T ss_pred HHHHHHHHHHHHHHhcCCCCCEEEEEEEEEeCCcEEEEECCEEEEEEchhccccccCCHHHhccCCCEEEEEEEEEecCC
Confidence 776666666544 4567999999999999999999999999999999998766544332 38999999999999999
Q ss_pred CeEEeecchhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCc-cccCCCccccccCCEE
Q psy14505 1229 NNVVLSHRAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAW-RRVKHPSEILTIGQDI 1306 (1619)
Q Consensus 1229 ~~i~LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~-~~~~~~~~~~~vG~~v 1306 (1619)
+++.||+++...+ +|....+.+++|++++|+|+++.++|+||+++ |++||+|+++++| .+..+|.+.|++||+|
T Consensus 555 ~rI~LSlK~l~~~----p~~~~~~~~~vG~iV~G~V~~I~~fG~fVeL~~gveGLvhiSEls~~~~~~~p~~~~kvGd~V 630 (863)
T PRK12269 555 KRINLSLKHFQPD----PWLEFENKFGVNDVVKGRVTKIADFGAFIELAEGIEGLAHISEFSWVKKTSKPSDMVKIGDEV 630 (863)
T ss_pred CeEEEEEeccccc----hhhhhhccCCCCCEEEEEEEEEeCCeEEEEecCCceeeeEHHHhcCccccCCHHHcCCCCCEE
Confidence 9999999987543 46667778999999999999999999999997 9999999999999 5788999999999999
Q ss_pred EEEEEEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCcccc
Q psy14505 1307 STKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKI 1386 (1619)
Q Consensus 1307 ~vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~ 1386 (1619)
+|+|+++|++++++.||+|++..+||..+.+++++|++++|+|++++++|+||++++|++||||.++++|.....++...
T Consensus 631 ~vkVl~iD~e~~rIsLS~K~l~~~Pw~~~~~~~~vG~~v~G~V~~i~~~G~fV~l~~gV~GlIh~sels~~~~~~~~~~~ 710 (863)
T PRK12269 631 ECMILGYDIQAGRVSLGLKQVTANPWEEIEARYPVGARFTRRIVKVTNAGAFIEMEEGIDGFLHVDDLSWVKRTRPADHE 710 (863)
T ss_pred EEEEEEEecccCceEEEehhcccCchHHHHHhCCCCCEEEEEEEEEecceEEEEeCCCcEEEEEhHHhhccccccchhhc
Confidence 99999999999999999999999999999889999999999999999999999999999999999999996555566778
Q ss_pred ccCCCEEEEEEEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCC
Q psy14505 1387 VQLNDTVEIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDP 1466 (1619)
Q Consensus 1387 ~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~ 1466 (1619)
|++||.|+|+|+++|+++++|.||+|++..+||..+...+++|+++.|+|++++++|+||++.+++.|++|.++++|+.
T Consensus 711 ~kvGq~VkvkVl~ID~e~rrI~LS~K~l~~dpw~~~~~~~~vG~iV~GkV~~v~~~GvFVeL~~gVeGlI~~s~lsdd~- 789 (863)
T PRK12269 711 LEVGKEIECMVIECDPQARRIRLGVKQLSDNPWQVFANAYGVGSTVEGEVSSVTDFGIFVRVPGGVEGLVRKQHLVENR- 789 (863)
T ss_pred cCCCCEEEEEEEEEeccCCEEEEEecccccChHHHHHhhCCCCCEEEEEEEEEecCeEEEEcCCCeEEEEEHHHcCCcc-
Confidence 9999999999999999999999999999999999998888999999999999999999999999999999999999743
Q ss_pred ccc---cccCCCCCCEEEEEEEEeecCCCeEEEeeecCcC
Q psy14505 1467 GEE---IIRNFKKGDEIEAIILSIDVEKERISLGIKQLEG 1503 (1619)
Q Consensus 1467 ~~~---~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~ 1503 (1619)
..+ ..+.|++||.|+|+|+++|+++++|.||+|+...
T Consensus 790 ~~~~~~~~~~f~vGD~V~v~Vl~iD~~~rkI~LSlk~~~~ 829 (863)
T PRK12269 790 DGDPGEALRKYAVGDRVKAVIVDMNVKDRKVAFSVRDYQR 829 (863)
T ss_pred cccchhhccccCCCCEEEEEEEEEEcCCCEEEEEEechhh
Confidence 322 2456999999999999999999999999997653
No 26
>PRK06299 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=5e-53 Score=540.79 Aligned_cols=414 Identities=28% Similarity=0.506 Sum_probs=376.7
Q ss_pred ccCCCEEEEEEEEEEeCeEEEEeCC-EEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchhhhhhhhH
Q psy14505 1167 MESGEIITGTINGKVKGGLTVLTNG-LKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMGE 1245 (1619)
Q Consensus 1167 l~~G~~v~g~V~~v~~~Gl~V~~gg-~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~~ 1245 (1619)
+++|++++|+|.++.++|++|++|+ ..||+|.+++.... ......+|++++|+|+.+++..+.+.||++..... .
T Consensus 28 ~~~G~~v~G~V~~v~~~~~~Vdig~k~~g~lp~~e~~~~~-~~~~~~vG~~i~~~V~~~~~~~~~i~lS~k~~~~~---~ 103 (565)
T PRK06299 28 TREGSIVKGTVVAIDKDYVLVDVGLKSEGRIPLEEFKNEQ-GELEVKVGDEVEVYVERIEDGFGETVLSREKAKRL---E 103 (565)
T ss_pred CCCCCEEEEEEEEEECCEEEEEeCCCeEEEEEHHHhcCcc-ccccCCCCCEEEEEEEEEECCCCcEEEechHHHHH---H
Confidence 6799999999999999999999984 89999999886322 22245699999999999999999999999876433 4
Q ss_pred HHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1246 ERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMK 1325 (1619)
Q Consensus 1246 ~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK 1325 (1619)
.|....+.++.|++++|+|.++.++|++|+++|++||+|.++++|.+..++. +.+|+++.|+|+.+|++++++.||+|
T Consensus 104 ~~~~l~~~~~~g~~v~g~V~~~~~~G~~V~~~g~~gfip~s~~~~~~~~~~~--~~vG~~i~~~V~~~d~~~~~i~lS~k 181 (565)
T PRK06299 104 AWDKLEKAFENGEIVEGVINGKVKGGFTVDLNGVEAFLPGSQVDVRPVRDTD--PLEGKELEFKVIKLDKKRNNIVVSRR 181 (565)
T ss_pred HHHHHHHHhhCCCEEEEEEEEEECCEEEEEECCEEEEEEHHHccCcCCCChH--HhCCCEEEEEEEEEECCCCEEEEEhH
Confidence 6778888899999999999999999999999999999999999998777766 44999999999999999999999999
Q ss_pred ccccC----CccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEee
Q psy14505 1326 QLGID----PWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEIN 1401 (1619)
Q Consensus 1326 ~~~~~----~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id 1401 (1619)
+.... +|.....++++|++++|+|+++.++|+||+++ |++|++|.++++| ....+|.+.|++||+|+|+|+++|
T Consensus 182 ~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~i~-g~~glv~~se~s~-~~~~~~~~~~kvG~~v~v~V~~~d 259 (565)
T PRK06299 182 AVLEEERAEEREELLENLEEGQVVEGVVKNITDYGAFVDLG-GVDGLLHITDISW-KRVNHPSEVVNVGDEVKVKVLKFD 259 (565)
T ss_pred HhhhhhhhhHHHHHHhcCCCCCEEEEEEEEEeCCeEEEEEC-CEEEEEEHHHhcc-cccCCHhhcCCCCCEEEEEEEEEe
Confidence 97653 45556678999999999999999999999996 9999999999999 567899999999999999999999
Q ss_pred cccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEE
Q psy14505 1402 EERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIE 1481 (1619)
Q Consensus 1402 ~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~ 1481 (1619)
++++++.||+|++..+||..+.+.+++|+++.|+|++++++|+||++.+++.|++|.++++|+....+|.+.|++||.|+
T Consensus 260 ~~~~~i~lS~k~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~G~fV~l~~~v~Glv~~sel~~~~~~~~~~~~~~~G~~v~ 339 (565)
T PRK06299 260 KEKKRVSLGLKQLGEDPWEAIEKKYPVGSKVKGKVTNITDYGAFVELEEGIEGLVHVSEMSWTKKNKHPSKVVSVGQEVE 339 (565)
T ss_pred CCCCeEEEEEEecccChhHHHHhhCCCCCEEEEEEEEEeCCeEEEEeCCCCEEEEEHHHcCccccccCHHHhcCCCCEEE
Confidence 99999999999999999999988899999999999999999999999999999999999998766778888899999999
Q ss_pred EEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccc-----cccC
Q psy14505 1482 AIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNK-----HEKK 1556 (1619)
Q Consensus 1482 ~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~-----~~~~ 1556 (1619)
|+|+++|++++++.||+|++..+||..+.+.+++|+.+.|+|.++. ++|+||++++++.|++|.+++++. ....
T Consensus 340 v~V~~id~~~~~i~ls~k~~~~~p~~~~~~~~~~G~~v~g~V~~v~-~~G~fV~l~~~v~g~i~~s~l~~~~~~~~~~~~ 418 (565)
T PRK06299 340 VMVLEIDEEKRRISLGLKQCKENPWEEFAEKYPVGDVVEGKVKNIT-DFGAFVGLEGGIDGLVHLSDISWDKKGEEAVEL 418 (565)
T ss_pred EEEEEEcCCCCEEEEehHHhccchhhhHHHhCCCCCEEEEEEEEEe-cceEEEECCCCCEEEEEHHHcCccccccChHhh
Confidence 9999999999999999999999999988888999999999999995 999999999999999999999743 2377
Q ss_pred cCCCCEEEEEEEEEeCCCCEEEEeecchHHHHH
Q psy14505 1557 LKIGENIDVLTVLIDHKTRYIQLSFKKKEVIKK 1589 (1619)
Q Consensus 1557 ~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~ 1589 (1619)
|++||.|+|+|+++|+++++|.||+|+.....-
T Consensus 419 ~~~Gd~v~v~Il~vd~~~~~i~ls~k~~~~~p~ 451 (565)
T PRK06299 419 YKKGDEVEAVVLKVDVEKERISLGIKQLEEDPF 451 (565)
T ss_pred CCCCCEEEEEEEEEeCCCCEEEEEEehhhcCch
Confidence 999999999999999999999999999865443
No 27
>TIGR00717 rpsA ribosomal protein S1. This model provides trusted hits to most long form (6 repeat) examples of RpsA. Among homologs with only four repeats are some to which other (perhaps secondary) functions have been assigned.
Probab=100.00 E-value=3.4e-52 Score=528.82 Aligned_cols=412 Identities=31% Similarity=0.606 Sum_probs=373.0
Q ss_pred cCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccC-CCccccCCCEEEEEEEEEeCCCCeEEEehHHHHH---H
Q psy14505 1082 DMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDN-GELEVKIGDFVSVAIESLENGFGDTILSRDKAKR---L 1157 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~-~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~---~ 1157 (1619)
.+.+|++++|+|.++.++|++|+++ +.+||+|.+|+.... ......+|+.+.|.|+.++...+.++||+++... .
T Consensus 97 a~~~g~~v~g~V~~~~~~g~~V~i~-g~~~flP~s~~~~~~~~~~~~~vG~~i~~~v~~~~~~~~~iv~Srk~~l~~~~~ 175 (516)
T TIGR00717 97 AYEEGSIVEGKIVGKVKGGFIVDLN-GVEAFLPGSQVDVKPIKDLDSLIGKTLKFKIIKLDQKRNNIVVSRRAYLEEERS 175 (516)
T ss_pred HhhCCCeEEEEEEEEECCEEEEEEC-CEEEEEeHHHhcCcccCchhhhCCCEEEEEEEEEECCCCcEEEEHHHHHHHHHH
Confidence 4568999999999999999999998 899999999996532 2345689999999999999999999999997643 3
Q ss_pred HhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCC--CCCCCeEEEEEEEEecCCCeEEeec
Q psy14505 1158 ASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTT--PFEGKTMDFKVIKLDRKRNNVVLSH 1235 (1619)
Q Consensus 1158 ~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~--~~vG~~v~~~Vl~vd~~~~~i~LS~ 1235 (1619)
..|....+++++|+.++|+|.++.++|++|+++|+.||+|.+++++....+.. ..+|+++.|+|+++|++++++.||+
T Consensus 176 ~~~~~~~~~l~~G~~v~g~V~~i~~~G~~V~l~g~~g~lp~~e~s~~~~~~~~~~~~vG~~v~v~Vl~~d~~~~~i~lS~ 255 (516)
T TIGR00717 176 QAREELLENLKEGDVVKGVVKNITDFGAFVDLGGVDGLLHITDMSWKRVKHPSEYVKVGQEVKVKVIKFDKEKGRISLSL 255 (516)
T ss_pred HHHHHHHHhccCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHcCCCCCCCHHHhccCCCEEEEEEEEEECCCCcEEEEE
Confidence 34666667899999999999999999999999999999999998775554432 3399999999999999999999999
Q ss_pred chhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCcc-ccCCCccccccCCEEEEEEEEe
Q psy14505 1236 RAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWR-RVKHPSEILTIGQDISTKILKY 1313 (1619)
Q Consensus 1236 k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~-~~~~~~~~~~vG~~v~vrVl~v 1313 (1619)
+....+ +|....+.+++|++++|+|+++.++|+||+++ ++.||+|.++++|. ...+|.+.|++||.++|+|+++
T Consensus 256 k~~~~~----p~~~~~~~~~~G~i~~g~V~~v~~~G~fV~l~~~v~g~v~~sels~~~~~~~~~~~~~vG~~v~v~V~~i 331 (516)
T TIGR00717 256 KQLGED----PWEAIEKKFPVGDKITGRVTNLTDYGVFVEIEEGIEGLVHVSEMSWVKKNSHPSKVVKKGDEVEVMILDI 331 (516)
T ss_pred Eecchh----HHHHHHhhccCCCEEEEEEEEeeCCcEEEEeCCCCEEEEEHHHcCCccccCCHHHhccCCCEEEEEEEEE
Confidence 976543 45666778999999999999999999999997 89999999999985 4566777899999999999999
Q ss_pred ecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEE
Q psy14505 1314 DQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTV 1393 (1619)
Q Consensus 1314 d~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V 1393 (1619)
|++++++.||+|++..+||..+.+++++|+++.|+|+++.++|+||+++++++||+|.++++|.....++...|++||.|
T Consensus 332 d~~~~~i~lS~k~~~~~p~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l~~~v~glv~~s~ls~~~~~~~~~~~~~~G~~V 411 (516)
T TIGR00717 332 DPERRRLSLGLKQCKANPWEQFEEKHPVGDRVTGKIKKITDFGAFVELEGGIDGLIHLSDISWDKDGREADHLYKKGDEI 411 (516)
T ss_pred cCCCCEEEEEehhcccCcHHHHHHhCCCCCEEEEEEEEEecceEEEECCCCCEEEEEHHHCcCcccCCCHhHccCCCCEE
Confidence 99999999999999999999888889999999999999999999999999999999999999965556778899999999
Q ss_pred EEEEEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccC
Q psy14505 1394 EIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRN 1473 (1619)
Q Consensus 1394 ~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~ 1473 (1619)
.|+|+++|++++++.||+|++..+||..+.+.+++|+++.|+|++++++|+||++.+++.||||.++++| .+..++.+.
T Consensus 412 ~~~Vl~vd~~~~~i~ls~K~~~~~p~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l~~~~~Glv~~s~l~~-~~~~~~~~~ 490 (516)
T TIGR00717 412 EAVVLAVDKEKKRISLGVKQLTENPWEKFAAKYKVGSVVKGKVTEIKDFGAFVELPGGVEGLIRNSELSE-NRDEDKTDE 490 (516)
T ss_pred EEEEEEEeCcCCEEEEeeccccCCchhhhhhccCcceEEEEEEEEEecceEEEEcCCCeEEEEEHHHcCc-ccccccccc
Confidence 9999999999999999999999999999888889999999999999999999999999999999999996 667789999
Q ss_pred CCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1474 FKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1474 f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|++||.|+++|+++|++++++.||+|
T Consensus 491 ~~~Gd~v~~~V~~id~~~~~i~ls~k 516 (516)
T TIGR00717 491 IKVGDEVEAKVVDIDKKNRKVSLSVK 516 (516)
T ss_pred CCCCCEEEEEEEEEeCCCCEEEEEEC
Confidence 99999999999999999999999987
No 28
>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=100.00 E-value=6.5e-52 Score=441.59 Aligned_cols=213 Identities=52% Similarity=0.825 Sum_probs=206.8
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecC-ceEEeCCcccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLG-KEVYLNGVNVT 938 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~v~ 938 (1619)
++|+|+||+|+||+|+++.+|++|||+|+|||+|||++|+++++++++++++..+.+++.+..+.|.+ .++|+||+|||
T Consensus 5 ~~IAIDGPagsGKsTvak~lA~~Lg~~yldTGamYRa~a~~~l~~~~~~~d~~~~~~l~~~~~i~f~~~~~v~l~gedvs 84 (222)
T COG0283 5 IIIAIDGPAGSGKSTVAKILAEKLGFHYLDTGAMYRAVALAALKHGVDLDDEDALVALAKELDISFVNDDRVFLNGEDVS 84 (222)
T ss_pred eEEEEeCCCccChHHHHHHHHHHhCCCeecccHHHHHHHHHHHHcCCCCccHHHHHHHHHhCCceecccceEEECCchhh
Confidence 68999999999999999999999999999999999999999999999999999999999999999987 68999999999
Q ss_pred ccccccccccccccccccHHHHHHHHHHHHhhhcC-CCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCC
Q psy14505 939 TLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKF-PGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGF 1017 (1619)
Q Consensus 939 ~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~-~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~ 1017 (1619)
+.||+++++..+|.+|++|+||+++.++||++++. ++||||||||||+|||||++||||+||+|+||+|||+|+..+|.
T Consensus 85 ~~ir~~~V~~~aS~vA~~p~VR~~l~~~Qr~~a~~~~~~V~dGRDiGTvV~PdA~lKiFLtAS~e~RA~RR~~q~~~~g~ 164 (222)
T COG0283 85 EEIRTEEVGNAASKVAAIPEVREALVKLQRAFAKNGPGIVADGRDIGTVVFPDAELKIFLTASPEERAERRYKQLQAKGF 164 (222)
T ss_pred hhhhhHHHHHHHHHHHccHHHHHHHHHHHHHHHhcCCCEEEecCCCcceECCCCCeEEEEeCCHHHHHHHHHHHHHhccC
Confidence 99999999999999999999999999999999998 77999999999999999999999999999999999999999996
Q ss_pred CCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1018 SVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1018 ~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
...+++++++|++||++|++|..+||.+|+||++||||+||+|||++.|++++++
T Consensus 165 ~~~~e~ll~eI~~RD~~D~~R~~~PLk~A~DA~~iDTs~msieeVv~~il~~~~~ 219 (222)
T COG0283 165 SEVFEELLAEIKERDERDSNRAVAPLKPAEDALLLDTSSLSIEEVVEKILELIRQ 219 (222)
T ss_pred cchHHHHHHHHHHhhhccccCcCCCCcCCCCeEEEECCCCcHHHHHHHHHHHHHH
Confidence 6669999999999999999999999999999999999999999999999998874
No 29
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=1.7e-46 Score=458.87 Aligned_cols=335 Identities=39% Similarity=0.717 Sum_probs=312.0
Q ss_pred cCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccC---CCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHH
Q psy14505 1082 DMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDN---GELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLA 1158 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~---~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~ 1158 (1619)
.+++|++|.|+|.++.+++++|++|.+++||||..|++... +...|++|+.|.|.|+++++..+.+.||++++....
T Consensus 32 ~~~~GdiV~G~V~~v~~~gv~VdIg~k~eG~Ip~~Els~~~~~~~~~~~~vGd~Ie~~V~~~~~~~g~liLS~k~~~~~~ 111 (486)
T PRK07899 32 YFNDGDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVEVGDEVEALVLQKEDKEGRLILSKKRAQYER 111 (486)
T ss_pred cCCCCCEEEEEEEEEECCcEEEEECCCcEEEEEHHHhcccccCChhhcCCCCCEEEEEEEEEECCCCeEEEEehhhcccc
Confidence 58899999999999999999999999999999999998632 345689999999999999998899999999988788
Q ss_pred hHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchh
Q psy14505 1159 SWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAV 1238 (1619)
Q Consensus 1159 ~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~ 1238 (1619)
.|..+.+.++.|++++|+|+++.++|++|++ |++||+|.+++++....+...++|+.++|+|+++|++++++.||+|..
T Consensus 112 ~w~~ie~~~e~g~~V~G~V~~v~k~G~~Vdl-Gi~gflP~Sel~~~~~~~~~~~vGq~V~vkVleid~~~~~ivLSrr~~ 190 (486)
T PRK07899 112 AWGTIEKIKEKDGVVTGTVIEVVKGGLILDI-GLRGFLPASLVEMRRVRDLQPYIGQEIEAKIIELDKNRNNVVLSRRAW 190 (486)
T ss_pred hHHHHHHHhcCCCEEEEEEEEEECCeEEEEE-CCEEEEEhhHhcccccCChhhcCCCEEEEEEEEEECCCCEEEEEhHHH
Confidence 9999998888999999999999999999999 799999999998877777677899999999999999999999999987
Q ss_pred hhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCC
Q psy14505 1239 IEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKN 1318 (1619)
Q Consensus 1239 ~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~ 1318 (1619)
+.......|...+..+++|++++|+|+++.++|+||+++|++||||.++++|.+..+|.+.|++||.|+|+|+.+|++++
T Consensus 191 l~~~~~~~~~~~~~~lk~G~iv~G~V~~i~~~G~FVdlggv~Glv~~Sels~~~v~~~~~~~kvGd~V~vkVl~iD~e~~ 270 (486)
T PRK07899 191 LEQTQSEVRSEFLNQLQKGQVRKGVVSSIVNFGAFVDLGGVDGLVHVSELSWKHIDHPSEVVEVGQEVTVEVLDVDMDRE 270 (486)
T ss_pred HHhhhHHHHHHHHHhccCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHCCCcccCCHHHhcCCCCEEEEEEEEEECCCC
Confidence 66555566778889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEE
Q psy14505 1319 RVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMIL 1398 (1619)
Q Consensus 1319 ~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl 1398 (1619)
++.||+|+...+||..+...+++|+++.|+|+++.++|+||++.++++||+|.++++| .+..+|...|++||.|+|+|+
T Consensus 271 rI~LSlK~~~~dPw~~~~~~~~vG~vv~G~V~~I~~fGvFVeL~~gieGLvh~SeLs~-~~v~~~~~~~kvGd~V~VkIi 349 (486)
T PRK07899 271 RVSLSLKATQEDPWQQFARTHAIGQIVPGKVTKLVPFGAFVRVEEGIEGLVHISELAE-RHVEVPEQVVQVGDEVFVKVI 349 (486)
T ss_pred EEEEEEeeccccchhhhHHhcCCCCEEEEEEEEEeccEEEEEeCCCcEEEEEHHHcCc-ccccCccceeCCCCEEEEEEE
Confidence 9999999999999998888899999999999999999999999989999999999998 556788899999999999999
Q ss_pred EeecccceEEEeeecccCCC
Q psy14505 1399 EINEERRRISLGMKQCKDNP 1418 (1619)
Q Consensus 1399 ~id~e~~ri~LSlK~~~~~~ 1418 (1619)
++|++++++.||+|++..+.
T Consensus 350 ~ID~e~rrI~LSlK~~~~~~ 369 (486)
T PRK07899 350 DIDLERRRISLSLKQANEGV 369 (486)
T ss_pred EEECCCCEEEEEEEEcccCC
Confidence 99999999999999876543
No 30
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=5e-46 Score=454.76 Aligned_cols=332 Identities=24% Similarity=0.481 Sum_probs=302.9
Q ss_pred HHHhccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeecc
Q psy14505 1249 KLIETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQL 1327 (1619)
Q Consensus 1249 ~~~~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~ 1327 (1619)
..+..++.|++|+|+|+++.++|++|+++ +++|+||.+++++....+|.+.|++|++++|+|+.++..++++.||+|+.
T Consensus 28 ~~~~~~~~GdiV~G~V~~v~~~gv~VdIg~k~eG~Ip~~Els~~~~~~~~~~~~vGd~Ie~~V~~~~~~~g~liLS~k~~ 107 (486)
T PRK07899 28 KTIKYFNDGDIVEGTVVKVDRDEVLLDIGYKTEGVIPSRELSIKHDVDPNEVVEVGDEVEALVLQKEDKEGRLILSKKRA 107 (486)
T ss_pred HHHhcCCCCCEEEEEEEEEECCcEEEEECCCcEEEEEHHHhcccccCChhhcCCCCCEEEEEEEEEECCCCeEEEEehhh
Confidence 34677999999999999999999999998 79999999999999888999999999999999999999999999999987
Q ss_pred c-cCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccce
Q psy14505 1328 G-IDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRR 1406 (1619)
Q Consensus 1328 ~-~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~r 1406 (1619)
. .++|..+.+.++.|++++|+|+++.++|+||++ |++||+|.++++| ....++.. .+|++|+|+|+++|+++++
T Consensus 108 ~~~~~w~~ie~~~e~g~~V~G~V~~v~k~G~~Vdl--Gi~gflP~Sel~~-~~~~~~~~--~vGq~V~vkVleid~~~~~ 182 (486)
T PRK07899 108 QYERAWGTIEKIKEKDGVVTGTVIEVVKGGLILDI--GLRGFLPASLVEM-RRVRDLQP--YIGQEIEAKIIELDKNRNN 182 (486)
T ss_pred cccchHHHHHHHhcCCCEEEEEEEEEECCeEEEEE--CCEEEEEhhHhcc-cccCChhh--cCCCEEEEEEEEEECCCCE
Confidence 6 678887766667999999999999999999999 6999999999998 44555554 4999999999999999999
Q ss_pred EEEeeecccC----CCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEE
Q psy14505 1407 ISLGMKQCKD----NPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEA 1482 (1619)
Q Consensus 1407 i~LSlK~~~~----~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~ 1482 (1619)
+.||.|..+. .+|..+...+++|+++.|+|++++++|+||.+ +++.||||.++++| ..+.+|.+.|++||.|+|
T Consensus 183 ivLSrr~~l~~~~~~~~~~~~~~lk~G~iv~G~V~~i~~~G~FVdl-ggv~Glv~~Sels~-~~v~~~~~~~kvGd~V~v 260 (486)
T PRK07899 183 VVLSRRAWLEQTQSEVRSEFLNQLQKGQVRKGVVSSIVNFGAFVDL-GGVDGLVHVSELSW-KHIDHPSEVVEVGQEVTV 260 (486)
T ss_pred EEEEhHHHHHhhhHHHHHHHHHhccCCCEEEEEEEEEECCeEEEEE-CCEEEEEEHHHCCC-cccCCHHHhcCCCCEEEE
Confidence 9999996543 56777777889999999999999999999999 57999999999998 567888899999999999
Q ss_pred EEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccc----cCcC
Q psy14505 1483 IILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHE----KKLK 1558 (1619)
Q Consensus 1483 ~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~----~~~~ 1558 (1619)
+|+++|++++||.||+|++..+||..+...+++|+.+.|+|+++. ++|+||++.+|+.|++|.+++++... ..|+
T Consensus 261 kVl~iD~e~~rI~LSlK~~~~dPw~~~~~~~~vG~vv~G~V~~I~-~fGvFVeL~~gieGLvh~SeLs~~~v~~~~~~~k 339 (486)
T PRK07899 261 EVLDVDMDRERVSLSLKATQEDPWQQFARTHAIGQIVPGKVTKLV-PFGAFVRVEEGIEGLVHISELAERHVEVPEQVVQ 339 (486)
T ss_pred EEEEEECCCCEEEEEEeeccccchhhhHHhcCCCCEEEEEEEEEe-ccEEEEEeCCCcEEEEEHHHcCcccccCccceeC
Confidence 999999999999999999999999988888999999999999995 99999999999999999999976432 5699
Q ss_pred CCCEEEEEEEEEeCCCCEEEEeecchHHHH
Q psy14505 1559 IGENIDVLTVLIDHKTRYIQLSFKKKEVIK 1588 (1619)
Q Consensus 1559 ~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~ 1588 (1619)
+||.|+|+|+++|.+++++.||+|+.....
T Consensus 340 vGd~V~VkIi~ID~e~rrI~LSlK~~~~~~ 369 (486)
T PRK07899 340 VGDEVFVKVIDIDLERRRISLSLKQANEGV 369 (486)
T ss_pred CCCEEEEEEEEEECCCCEEEEEEEEcccCC
Confidence 999999999999999999999999876554
No 31
>PRK06676 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=1.5e-45 Score=451.50 Aligned_cols=364 Identities=25% Similarity=0.452 Sum_probs=324.1
Q ss_pred HHHhccCCCcEEEEEEEEEecCeEEEEe-C-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1249 KLIETLKEGCTVKGVVKNITDYGAFIDL-G-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQ 1326 (1619)
Q Consensus 1249 ~~~~~l~~G~iv~g~V~~v~~~G~~V~l-~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~ 1326 (1619)
....++++|++++|+|+++.++|++|++ + +++|+||.+++++.+..+|...|++|++++|+|+.++.+++++.||+|+
T Consensus 10 ~~~~~~~~G~iv~G~V~~i~~~g~~V~i~~~~~~g~lp~~e~~~~~~~~~~~~~~vGd~v~~~V~~v~~~~~~i~lS~k~ 89 (390)
T PRK06676 10 NSVKEVEVGDVVTGEVLKVEDKQVFVNIEGYKVEGVIPISELSNDHIEDINDVVKVGDELEVYVLKVEDGEGNLLLSKRR 89 (390)
T ss_pred hhhhcccCCCEEEEEEEEEECCeEEEEEecCCcEEEEEHHHhccccccCcccccCCCCEEEEEEEEEECCCCCEEEEHHH
Confidence 3567899999999999999999999999 6 8999999999999988999999999999999999999999999999998
Q ss_pred ccc-CCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccc
Q psy14505 1327 LGI-DPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERR 1405 (1619)
Q Consensus 1327 ~~~-~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ 1405 (1619)
... .+|......+++|++++|+|+++.++|+||++ +|+.||+|.++++| ....+|... +|+.+.|+|+++|++++
T Consensus 90 ~~~~~~~~~~~~~~~~G~~v~g~V~~v~~~G~~V~~-~G~~gflp~~el~~-~~~~~~~~~--vG~~v~~~Vl~~d~~~~ 165 (390)
T PRK06676 90 LEAEKAWDKLEEKFEEGEVVEVKVTEVVKGGLVVDV-EGVRGFIPASLIST-RFVEDFSDF--KGKTLEVKIIELDPEKN 165 (390)
T ss_pred hhhhhhHHHHHHhccCCCEEEEEEEEEECCeEEEEE-CCEEEEEEHHHcCC-ccCCChHHc--CCCEEEEEEEEEECCCC
Confidence 653 56777777789999999999999999999999 58899999999998 555666543 99999999999999999
Q ss_pred eEEEeeecccC----CCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEE
Q psy14505 1406 RISLGMKQCKD----NPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIE 1481 (1619)
Q Consensus 1406 ri~LSlK~~~~----~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~ 1481 (1619)
++.||+|.+.. ++|..+...+++|+++.|+|++++++|+||.+ +++.|++|.++++| .+..++.+.|++||.|+
T Consensus 166 ~i~lS~k~~~~~~~~~~~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l-~~v~g~v~~sels~-~~~~~~~~~~~vGd~i~ 243 (390)
T PRK06676 166 RVILSRRAVVEEERAAKKEELLSSLKEGDVVEGTVARLTDFGAFVDI-GGVDGLVHISELSH-ERVEKPSEVVSVGQEVE 243 (390)
T ss_pred EEEEEeHHHhhhhhhhHHHHHHhhCCCCCEEEEEEEEEecceEEEEe-CCeEEEEEHHHcCc-cccCCHHHhcCCCCEEE
Confidence 99999998754 35666656678999999999999999999999 57999999999997 66788889999999999
Q ss_pred EEEEEeecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccc----cCc
Q psy14505 1482 AIILSIDVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHE----KKL 1557 (1619)
Q Consensus 1482 ~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~----~~~ 1557 (1619)
|+|+++|++++++.||+|+...+||....+.+.+|+.++|+|+++. ++|+||++.+|+.|++|.+++++... ..|
T Consensus 244 ~~Vl~vd~~~~~i~lS~k~~~~~~~~~~~~~~~~G~~v~g~V~~i~-~~G~fV~l~~gi~Glv~~se~~~~~~~~~~~~~ 322 (390)
T PRK06676 244 VKVLSIDWETERISLSLKDTLPGPWEGVEEKLPEGDVIEGTVKRLT-DFGAFVEVLPGVEGLVHISQISHKHIATPSEVL 322 (390)
T ss_pred EEEEEEeCCCCEEEEEEeecccCccccchhhhcCCcEEEEEEEEEe-CceEEEEECCCCeEEEEhHHcCccccCChhhcc
Confidence 9999999999999999999999999988889999999999999995 99999999999999999999875432 569
Q ss_pred CCCCEEEEEEEEEeCCCCEEEEeecchHHHHHHHH-----HHhhccCCCCCcccHHHHHHHHHhccC
Q psy14505 1558 KIGENIDVLTVLIDHKTRYIQLSFKKKEVIKKKKL-----LTSINANTISGTTNLGLILKAELEKIK 1619 (1619)
Q Consensus 1558 ~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1619 (1619)
++||.|+|+|+++|.+++++.||+|+......++. ++.+++++.++..+||++|+.+|+.+|
T Consensus 323 ~~Gd~v~v~V~~id~e~~~i~ls~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 389 (390)
T PRK06676 323 EEGQEVKVKVLEVNEEEKRISLSIKALEEAPAEEEDRREEYRQYELPEEETGFSLGDLIGDKLKKLK 389 (390)
T ss_pred CCCCEEEEEEEEEECCCCEEEEEEEecccChhhhhhhhcchhhhccccccCCCCHHHHHHHHHhhcc
Confidence 99999999999999999999999998876555444 455654444555799999999998765
No 32
>PRK06676 rpsA 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=9e-44 Score=435.80 Aligned_cols=344 Identities=40% Similarity=0.717 Sum_probs=318.0
Q ss_pred ccCCCCCeEEEEEEEEeccEEEEEe-CCCeEEEEeccccccc---CCCccccCCCEEEEEEEEEeCCCCeEEEehHHHHH
Q psy14505 1081 HDMRSGEVISAEVIGLDRNFVIINA-DLKSEAFIPIEEFKND---NGELEVKIGDFVSVAIESLENGFGDTILSRDKAKR 1156 (1619)
Q Consensus 1081 ~~l~~G~iv~G~V~~v~~~gv~V~l-g~~~~Gfi~~~e~~~~---~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~ 1156 (1619)
+++++|+++.|+|.+++++|++|++ +.+.+||+|.+|+++. .+...|++|+.|.|+|++++.+.+.+.||+++...
T Consensus 13 ~~~~~G~iv~G~V~~i~~~g~~V~i~~~~~~g~lp~~e~~~~~~~~~~~~~~vGd~v~~~V~~v~~~~~~i~lS~k~~~~ 92 (390)
T PRK06676 13 KEVEVGDVVTGEVLKVEDKQVFVNIEGYKVEGVIPISELSNDHIEDINDVVKVGDELEVYVLKVEDGEGNLLLSKRRLEA 92 (390)
T ss_pred hcccCCCEEEEEEEEEECCeEEEEEecCCcEEEEEHHHhccccccCcccccCCCCEEEEEEEEEECCCCCEEEEHHHhhh
Confidence 4789999999999999999999999 8899999999999763 34456899999999999999998899999999888
Q ss_pred HHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecc
Q psy14505 1157 LASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHR 1236 (1619)
Q Consensus 1157 ~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k 1236 (1619)
...|..+.+++++|+++.|+|.++.++|++|+++|+.||+|.+++++.+..+...++|+.++|+|+++|++++++.||++
T Consensus 93 ~~~~~~~~~~~~~G~~v~g~V~~v~~~G~~V~~~G~~gflp~~el~~~~~~~~~~~vG~~v~~~Vl~~d~~~~~i~lS~k 172 (390)
T PRK06676 93 EKAWDKLEEKFEEGEVVEVKVTEVVKGGLVVDVEGVRGFIPASLISTRFVEDFSDFKGKTLEVKIIELDPEKNRVILSRR 172 (390)
T ss_pred hhhHHHHHHhccCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHcCCccCCChHHcCCCEEEEEEEEEECCCCEEEEEeH
Confidence 88999998889999999999999999999999999999999999887766655566999999999999999999999999
Q ss_pred hhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecC
Q psy14505 1237 AVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQE 1316 (1619)
Q Consensus 1237 ~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~ 1316 (1619)
..........|...+..+++|++++|+|+++.++|+||++++++||+|.++++|.+..+|.+.|++|+.++|+|+++|++
T Consensus 173 ~~~~~~~~~~~~~~~~~~~~G~~v~g~V~~v~~~G~fV~l~~v~g~v~~sels~~~~~~~~~~~~vGd~i~~~Vl~vd~~ 252 (390)
T PRK06676 173 AVVEEERAAKKEELLSSLKEGDVVEGTVARLTDFGAFVDIGGVDGLVHISELSHERVEKPSEVVSVGQEVEVKVLSIDWE 252 (390)
T ss_pred HHhhhhhhhHHHHHHhhCCCCCEEEEEEEEEecceEEEEeCCeEEEEEHHHcCccccCCHHHhcCCCCEEEEEEEEEeCC
Confidence 87665555567777888999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEE
Q psy14505 1317 KNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIM 1396 (1619)
Q Consensus 1317 ~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vr 1396 (1619)
++++.||+|+...+||.....++++|+++.|+|+++.++|+||++.+++.|++|.++++| ....+|...|++||.|+|+
T Consensus 253 ~~~i~lS~k~~~~~~~~~~~~~~~~G~~v~g~V~~i~~~G~fV~l~~gi~Glv~~se~~~-~~~~~~~~~~~~Gd~v~v~ 331 (390)
T PRK06676 253 TERISLSLKDTLPGPWEGVEEKLPEGDVIEGTVKRLTDFGAFVEVLPGVEGLVHISQISH-KHIATPSEVLEEGQEVKVK 331 (390)
T ss_pred CCEEEEEEeecccCccccchhhhcCCcEEEEEEEEEeCceEEEEECCCCeEEEEhHHcCc-cccCChhhccCCCCEEEEE
Confidence 999999999999999998888999999999999999999999999989999999999998 4567888899999999999
Q ss_pred EEEeecccceEEEeeecccCCCCcccccc
Q psy14505 1397 ILEINEERRRISLGMKQCKDNPWENFSII 1425 (1619)
Q Consensus 1397 Vl~id~e~~ri~LSlK~~~~~~~~~~~~~ 1425 (1619)
|+.+|++++++.||+|++..+||..+.+.
T Consensus 332 V~~id~e~~~i~ls~k~~~~~~~~~~~~~ 360 (390)
T PRK06676 332 VLEVNEEEKRISLSIKALEEAPAEEEDRR 360 (390)
T ss_pred EEEEECCCCEEEEEEEecccChhhhhhhh
Confidence 99999999999999999999999887543
No 33
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=100.00 E-value=2.1e-41 Score=435.67 Aligned_cols=368 Identities=36% Similarity=0.705 Sum_probs=328.4
Q ss_pred eEEccCcccchhhhhhhhhhhhhhhh------------hhcccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEeccc
Q psy14505 1050 HLLNTSKMNINQVVNQILDCFATLFK------------ESLLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEE 1117 (1619)
Q Consensus 1050 l~Idts~l~ieevv~~I~~~i~~ll~------------e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e 1117 (1619)
+=|=+..=|++..++.+.+.++.+.+ .+...+.+.+|++|.|+|.+++++|++|++|.+.+||||.+|
T Consensus 255 vgitagaStP~~~i~~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~G~iV~G~V~~v~~~gv~Vdig~~~~G~lp~~e 334 (647)
T PRK00087 255 IGVTAGASTPDWIIEEVIKKMSELDNMEEVEENEQLEYMNELEKQIRRGDIVKGTVVSVNENEVFVDVGYKSEGVIPLRE 334 (647)
T ss_pred EEEEeccCCCHHHHHHHHHHHHHhccccccCHHHHHHHHHHHHhhccCCCEEEEEEEEEECCEEEEEECCCeEEEEEHHH
Confidence 44444444677777766666554311 122345799999999999999999999999999999999999
Q ss_pred ccccC---CCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEE
Q psy14505 1118 FKNDN---GELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLASWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKA 1194 (1619)
Q Consensus 1118 ~~~~~---~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~g 1194 (1619)
+++.. +...|++|+.+.|+|++++...+.+.||+++......|..+.+++++|+++.|+|+++.++|++|+++|++|
T Consensus 335 ls~~~~~~~~~~~~vGd~V~v~V~~vd~~~g~i~LS~k~~~~~~~~~~l~~~~~~G~iv~g~V~~v~~~G~~V~lggi~g 414 (647)
T PRK00087 335 LTLDEISSLKESVKVGDEIEVKVLKLEDEDGYVVLSKKEADREKAWKELEEAFENGEPVKGKVKEVVKGGLLVDYGGVRA 414 (647)
T ss_pred hcccccCChhhccCCCCEEEEEEEEEECCCCcEEEEeehhcchhHHHHHHHHhhCCCEEEEEEEEEECCeEEEEECCEEE
Confidence 98532 335699999999999999988899999999987788999999999999999999999999999999999999
Q ss_pred EEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCe-EEeecchhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEE
Q psy14505 1195 FLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNN-VVLSHRAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAF 1273 (1619)
Q Consensus 1195 flp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~-i~LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~ 1273 (1619)
|+|.++++.....+...++|+.++|+|+++|+++++ +.+|++..+.......+...++.+++|+++.|+|.++.++|+|
T Consensus 415 fiP~sel~~~~~~d~~~~vG~~v~v~Vl~vd~e~~~~l~lS~k~~~~~~~~~~~~~~~~~l~~G~iV~g~V~~v~~~G~f 494 (647)
T PRK00087 415 FLPASHVELGYVEDLSEYKGQELEVKIIEFNRKRRKKVVLSRKAILEEEKEKKKEETWNSLEEGDVVEGEVKRLTDFGAF 494 (647)
T ss_pred EEEHHHhCccccCCHHHhCCCEEEEEEEEEEcCCCcEEEEEeHHHhhhhhhhHHHHHHHhCCCCCEEEEEEEEEeCCcEE
Confidence 999999887766666666999999999999999988 9999988765444456677788899999999999999999999
Q ss_pred EEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEc
Q psy14505 1274 IDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLT 1353 (1619)
Q Consensus 1274 V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~ 1353 (1619)
|++++++||+|.++++|.+..+|.+.|++|+.++|+|+++|++++++.||+|+...+||.....++++|+++.|+|+++.
T Consensus 495 V~l~gv~Gll~~sels~~~~~~~~~~~~vGd~V~vkV~~id~~~~~I~lS~K~~~~~p~~~~~~~~~~G~~v~g~V~~i~ 574 (647)
T PRK00087 495 VDIGGVDGLLHVSEISWGRVEKPSDVLKVGDEIKVYILDIDKENKKLSLSLKKLLPDPWENVEEKYPVGSIVLGKVVRIA 574 (647)
T ss_pred EEECCEEEEEEHHHcCccccCCHHHhcCCCCEEEEEEEEEECCCCEEEEEeeccccChhhhhhhhccCCeEEEEEEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999988888999999999999999
Q ss_pred CCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCCC
Q psy14505 1354 DYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDNP 1418 (1619)
Q Consensus 1354 ~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~ 1418 (1619)
++|+||++.+++.||+|.++++| .+..++.+.|++||.|+|+|+++|++++++.||+|+...+|
T Consensus 575 ~~G~fV~l~~~i~Gli~~sel~~-~~~~~~~~~~kvGd~V~vkV~~id~e~~rI~lslk~~~~~~ 638 (647)
T PRK00087 575 PFGAFVELEPGVDGLVHISQISW-KRIDKPEDVLSEGEEVKAKILEVDPEEKRIRLSIKEVEEEP 638 (647)
T ss_pred CCeEEEEECCCCEEEEEhhhcCc-cccCCHhhcCCCCCEEEEEEEEEeCCCCEEEEEEeecccCc
Confidence 99999999999999999999998 56788899999999999999999999999999999988877
No 34
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=100.00 E-value=1.9e-40 Score=426.84 Aligned_cols=342 Identities=30% Similarity=0.549 Sum_probs=306.8
Q ss_pred HHHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEeC-CEEEEEcCcccccCCCCCCC--CCCCCeEEEEEEEEecCCCeEE
Q psy14505 1156 RLASWLSLEKAMESGEIITGTINGKVKGGLTVLTN-GLKAFLPGSLVDIRPVKDTT--PFEGKTMDFKVIKLDRKRNNVV 1232 (1619)
Q Consensus 1156 ~~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~g-g~~gflp~s~~~~~~~~~~~--~~vG~~v~~~Vl~vd~~~~~i~ 1232 (1619)
....|....+.+++|+++.|+|.++.++|++|+++ +..||+|.+++.+....+.. ..+|+.++|+|+.++...+++.
T Consensus 289 ~~~~~~~~~~~l~~G~iV~G~V~~v~~~gv~Vdig~~~~G~lp~~els~~~~~~~~~~~~vGd~V~v~V~~vd~~~g~i~ 368 (647)
T PRK00087 289 QLEYMNELEKQIRRGDIVKGTVVSVNENEVFVDVGYKSEGVIPLRELTLDEISSLKESVKVGDEIEVKVLKLEDEDGYVV 368 (647)
T ss_pred HHHHHHHHHhhccCCCEEEEEEEEEECCEEEEEECCCeEEEEEHHHhcccccCChhhccCCCCEEEEEEEEEECCCCcEE
Confidence 34456666777999999999999999999999987 58899999988754433322 3499999999999999999999
Q ss_pred eecchhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEE
Q psy14505 1233 LSHRAVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILK 1312 (1619)
Q Consensus 1233 LS~k~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~ 1312 (1619)
||++..... ..|....+.+++|+++.|+|+++.++|++|++++++||+|.+++++.+..++..+ +|+.+.|+|++
T Consensus 369 LS~k~~~~~---~~~~~l~~~~~~G~iv~g~V~~v~~~G~~V~lggi~gfiP~sel~~~~~~d~~~~--vG~~v~v~Vl~ 443 (647)
T PRK00087 369 LSKKEADRE---KAWKELEEAFENGEPVKGKVKEVVKGGLLVDYGGVRAFLPASHVELGYVEDLSEY--KGQELEVKIIE 443 (647)
T ss_pred EEeehhcch---hHHHHHHHHhhCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHhCccccCCHHHh--CCCEEEEEEEE
Confidence 999876432 3567777788999999999999999999999999999999999999888888754 99999999999
Q ss_pred eecCCCe-EEEeeecccc----CCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccc
Q psy14505 1313 YDQEKNR-VSLGMKQLGI----DPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIV 1387 (1619)
Q Consensus 1313 vd~~~~~-i~LSlK~~~~----~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~ 1387 (1619)
+|+++++ +.+|+|.... .++....+++++|+++.|+|+++.++|+||++ ++++||+|.++++| ....+|.+.|
T Consensus 444 vd~e~~~~l~lS~k~~~~~~~~~~~~~~~~~l~~G~iV~g~V~~v~~~G~fV~l-~gv~Gll~~sels~-~~~~~~~~~~ 521 (647)
T PRK00087 444 FNRKRRKKVVLSRKAILEEEKEKKKEETWNSLEEGDVVEGEVKRLTDFGAFVDI-GGVDGLLHVSEISW-GRVEKPSDVL 521 (647)
T ss_pred EEcCCCcEEEEEeHHHhhhhhhhHHHHHHHhCCCCCEEEEEEEEEeCCcEEEEE-CCEEEEEEHHHcCc-cccCCHHHhc
Confidence 9999998 9999988742 45555666789999999999999999999999 79999999999999 5678899999
Q ss_pred cCCCEEEEEEEEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCc
Q psy14505 1388 QLNDTVEIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPG 1467 (1619)
Q Consensus 1388 ~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~ 1467 (1619)
++||.|+|+|+++|++++++.||+|+...+||..+.+.+++|+++.|+|++++++|+||++.+++.||+|.++++| +..
T Consensus 522 ~vGd~V~vkV~~id~~~~~I~lS~K~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~G~fV~l~~~i~Gli~~sel~~-~~~ 600 (647)
T PRK00087 522 KVGDEIKVYILDIDKENKKLSLSLKKLLPDPWENVEEKYPVGSIVLGKVVRIAPFGAFVELEPGVDGLVHISQISW-KRI 600 (647)
T ss_pred CCCCEEEEEEEEEECCCCEEEEEeeccccChhhhhhhhccCCeEEEEEEEEEECCeEEEEECCCCEEEEEhhhcCc-ccc
Confidence 9999999999999999999999999999999999988889999999999999999999999999999999999996 667
Q ss_pred cccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCC
Q psy14505 1468 EEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDP 1505 (1619)
Q Consensus 1468 ~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p 1505 (1619)
.++.+.|++||.|+|+|+++|++++++.||+|...++|
T Consensus 601 ~~~~~~~kvGd~V~vkV~~id~e~~rI~lslk~~~~~~ 638 (647)
T PRK00087 601 DKPEDVLSEGEEVKAKILEVDPEEKRIRLSIKEVEEEP 638 (647)
T ss_pred CCHhhcCCCCCEEEEEEEEEeCCCCEEEEEEeecccCc
Confidence 88889999999999999999999999999999988877
No 35
>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional
Probab=100.00 E-value=2.9e-38 Score=408.64 Aligned_cols=214 Identities=50% Similarity=0.834 Sum_probs=207.6
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccc
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVT 938 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 938 (1619)
.++|+++|+.|+||+++++.+|+++||+|+|+|+|||++||.|+++|+++++++++.+.+.+..+.+....+|+||+||+
T Consensus 442 ~~~i~i~g~~~~gks~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 521 (661)
T PRK11860 442 VPVICIDGPTASGKGTVAARVAEALGYHYLDSGALYRLTALAALRAGVALDDEAAIAALARGLPVRFEGDRIWLGGEDVT 521 (661)
T ss_pred cceEEeeCCCCCCHHHHHHHHHHHhCCeEecHHHhhhHHHHHHHHcCcCCCCHHHHHHHHhcCCeeecCCeEEECCeEch
Confidence 45899999999999999999999999999999999999999999999999999999999999999997778999999999
Q ss_pred ccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCC
Q psy14505 939 TLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFS 1018 (1619)
Q Consensus 939 ~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~ 1018 (1619)
.+||+++++..+|.+|.+|.||+++.++||++++.+++|||||||||+|||||++||||+||+++||+||++||..+|.+
T Consensus 522 ~~i~~~~v~~~~s~~a~~~~vr~~l~~~qr~~~~~~~~v~eGRdigtvv~p~a~~kifl~a~~~~Ra~Rr~~~~~~~~~~ 601 (661)
T PRK11860 522 DAIRTEAAGMGASRVSALPAVRAALLALQRSFRRLPGLVADGRDMGTVIFPDAALKVFLTASAEARAERRYKQLISKGIS 601 (661)
T ss_pred hhhCcHHHHHHHHHHhCCHHHHHHHHHHHHHHhhCCCEEEECCCCccEECCCCCeEEEEECChhHHHHHHHHHHHhCCCC
Confidence 99999999999999999999999999999999998899999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1019 VSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1019 ~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
.++++++++|++||++|++|..+||.+++||++||||+|++|||++.|++++++
T Consensus 602 ~~~~~~~~~~~~Rd~~d~~R~~~pl~~~~da~~idts~~~~~~v~~~i~~~i~~ 655 (661)
T PRK11860 602 ANIADLLADLEARDARDTQRSVAPLKPAQDALLLDNSDLTIEQAVAQVLDWWQE 655 (661)
T ss_pred CCHHHHHHHHHHHhHHhhcCCCCCCccCCCEEEEECCCCCHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999988764
No 36
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=1e-34 Score=341.15 Aligned_cols=248 Identities=27% Similarity=0.461 Sum_probs=225.1
Q ss_pred hccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccc-c
Q psy14505 1252 ETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLG-I 1329 (1619)
Q Consensus 1252 ~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~-~ 1329 (1619)
..+++|+++.|+|+++.++|++|++| ..+||+|.++++|.+..+|.+.|++|++++|+|++++++++++.||+|+.. .
T Consensus 27 ~~~~~G~iv~G~V~~i~~~g~~Vdig~k~~g~lp~sEis~~~~~~~~~~~~~G~~v~~~Vi~~~~~~~~i~lS~k~~~~~ 106 (318)
T PRK07400 27 YHFKPGDIVNGTVFSLEPRGALIDIGAKTAAFMPIQEMSINRVEGPEEVLQPNETREFFILSDENEDGQLTLSIRRIEYM 106 (318)
T ss_pred hhcCCCCEEEEEEEEEECCEEEEEECCCeEEEEEHHHhccccccCHHHccCCCCEEEEEEEEEeCCCCeEEEehhhhhhh
Confidence 35899999999999999999999998 599999999999999999999999999999999999999999999999875 4
Q ss_pred CCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEE
Q psy14505 1330 DPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISL 1409 (1619)
Q Consensus 1330 ~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~L 1409 (1619)
++|..+.+.+..|++|.|+|+++.++|+||++ +|++||||.|++||. . +.+. .+|+.+.|+|+.+|++++++.|
T Consensus 107 ~~w~~l~~~~~~~~~V~g~V~~~~~~G~~V~l-~Gv~gfip~s~ls~~-~---~~~~-~vG~~i~~kVl~id~~~~~i~l 180 (318)
T PRK07400 107 RAWERVRQLQKEDATVRSEVFATNRGGALVRI-EGLRGFIPGSHISTR-K---PKEE-LVGEELPLKFLEVDEERNRLVL 180 (318)
T ss_pred hHHHHHHHhccCCCEEEEEEEEEECCeEEEEE-CCEEEEEEHHHcCcc-C---Cccc-cCCCEEEEEEEEEEcccCEEEE
Confidence 78888777777899999999999999999999 599999999999983 2 2333 4999999999999999999999
Q ss_pred eeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeec
Q psy14505 1410 GMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDV 1489 (1619)
Q Consensus 1410 SlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~ 1489 (1619)
|+|++..+. ....+++|+++.|+|+++++||+||++ +++.||+|.++++| .+..++.+.|++||.|+|+|+++|.
T Consensus 181 S~K~~~~~~---~~~~~k~G~vv~G~V~~I~~~G~fV~i-~gv~Gllhisels~-~~~~~~~~~~~vGd~VkvkVl~iD~ 255 (318)
T PRK07400 181 SHRRALVER---KMNRLEVGEVVVGTVRGIKPYGAFIDI-GGVSGLLHISEISH-EHIETPHSVFNVNDEMKVMIIDLDA 255 (318)
T ss_pred EhhHhhhhh---hhccCCCCCEEEEEEEEEECCeEEEEE-CCEEEEEEHHHccc-ccccChhhccCCCCEEEEEEEEEeC
Confidence 999876543 334568999999999999999999999 58999999999997 5577899999999999999999999
Q ss_pred CCCeEEEeeecCcCCCccccc
Q psy14505 1490 EKERISLGIKQLEGDPFNNYV 1510 (1619)
Q Consensus 1490 e~~ri~LSlK~~~~~p~~~~~ 1510 (1619)
+++++.||+|++.++||....
T Consensus 256 e~~rI~LS~K~l~~~P~~~~~ 276 (318)
T PRK07400 256 ERGRISLSTKQLEPEPGDMLK 276 (318)
T ss_pred CCCEEEEEEeccccChhhhhh
Confidence 999999999999999997543
No 37
>PF02224 Cytidylate_kin: Cytidylate kinase; InterPro: IPR011994 Cytidylate kinase (2.7.4.14 from EC) catalyses the phosphorylation of cytidine 5'-monophosphate (dCMP) to cytidine 5'-diphosphate (dCDP) in the presence of ATP or GTP. ; GO: 0004127 cytidylate kinase activity, 0005524 ATP binding, 0006139 nucleobase-containing compound metabolic process; PDB: 3R20_A 4DIE_A 3R8C_B 2H92_B 1KDT_A 1KDP_B 2FEO_A 1KDO_B 2CMK_A 1KDR_A ....
Probab=100.00 E-value=4.8e-36 Score=310.05 Aligned_cols=152 Identities=47% Similarity=0.733 Sum_probs=133.3
Q ss_pred HHHcccceec----CceEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCC
Q psy14505 917 LIKKLNYNFL----GKEVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAF 992 (1619)
Q Consensus 917 ~~~~~~~~~~----~~~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~ 992 (1619)
++.+..+.|. +..+|+||+||+.+||+++++..+|.+|++|.||+++.++||++|..+++|||||||||+|||||+
T Consensus 2 ~~~~~~i~~~~~~~~~~v~l~g~dvt~~ir~~eV~~~aS~vA~~~~VR~~l~~~Qr~~a~~~~vV~eGRDigTvVfPdA~ 81 (157)
T PF02224_consen 2 LLKNLKISFSYDPDGDRVFLDGEDVTDEIRTEEVSKAASKVAAIPEVREALVEIQREIAKKGGVVMEGRDIGTVVFPDAD 81 (157)
T ss_dssp HHHTS-EEEEEETTSEEEEETTEEETTGGGSHHHHHHHHHHHTSHHHHHHHHHHHHHHHTTSCEEEEESSCCCCCCTT-S
T ss_pred ccccCeEEEEEcCCCCEEEECCEEchHhhccHHHHHHHHHHhCCHHHHHHHHHHHHHHHHcCCeEEecCCCceEEcCCCC
Confidence 4566666663 358999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhh
Q psy14505 993 LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILD 1068 (1619)
Q Consensus 993 ~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~ 1068 (1619)
+||||+||+++||+||++||...|...++++++++|++||++|++|..+||.+|+||++||||+||++||++.|++
T Consensus 82 ~KifLtAs~e~RA~RR~~e~~~~g~~~~~e~v~~~i~~RD~~D~~R~~aPL~~a~DAi~IDts~lti~evv~~il~ 157 (157)
T PF02224_consen 82 LKIFLTASPEVRARRRYKELQEKGKKVSYEEVLEDIKERDERDSNREVAPLKKAEDAIVIDTSNLTIEEVVEKILE 157 (157)
T ss_dssp EEEEEE--HHHHHHHHHHHHHHTT----HHHHHHHHHHHHHHHHCTSSS-SS--TTSEEEETTTS-HHHHHHHHHH
T ss_pred EEEEEECCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhChhhccCccCCCccCCCeEEEECCCCCHHHHHHHHhC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999864
No 38
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=100.00 E-value=2.3e-35 Score=330.15 Aligned_cols=210 Identities=48% Similarity=0.776 Sum_probs=200.4
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecC----ceEEeCCc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLG----KEVYLNGV 935 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~ 935 (1619)
++|++.|++|+||+|+++.+|+++|++|+|+|.|||+++++++..|++..+...+.+.+....+.+.. .++++||+
T Consensus 3 ~~i~i~G~~GsGKst~~~~la~~~~~~~~~~g~~~r~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 82 (217)
T TIGR00017 3 MIIAIDGPSGAGKSTVAKAVAEKLGYAYLDSGAMYRAIALAALQNRVDLTSEDALAELISHLDIRFIPTNGEVEVFLNGE 82 (217)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCceeeCchHHHHHHHHHHHcCCCCCCHHHHHHHHHhCCCEEecCCCceeEEEcCc
Confidence 57999999999999999999999999999999999999999999999999888898888888888742 26999999
Q ss_pred cccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhc
Q psy14505 936 NVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQK 1015 (1619)
Q Consensus 936 ~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~ 1015 (1619)
+++.+||+++++..+|.++.+|.||+++.+.||+++++++|||+|||+||++||+|++||||+||+++||+||+.|+...
T Consensus 83 ~v~~~ir~~~v~~~~s~~a~~p~VR~~l~~~qr~~a~~~~~Vi~Gr~~~~~v~~~a~~~ifl~a~~~~Ra~Rr~~~~~~~ 162 (217)
T TIGR00017 83 DVSEAIRTQEVANAASKVAVFPKVREALLKRQQALAKNDGIIADGRDIGTVVFPNAEVKIFLDASVEERAKRRYKQLQIK 162 (217)
T ss_pred chHHHhcCHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcCCEEEEEcCcceEEeCCCCEEEEEECCHHHHHHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred CCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1016 GFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1016 ~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
|...+++++++.+++||..|++|..+|+.+++|+++||||.|++|+|++.|+++
T Consensus 163 g~~~~~e~~~~~i~~RD~~D~~R~~~~~~~a~~~i~Idts~l~ieevv~~I~~~ 216 (217)
T TIGR00017 163 GNEVNFEELLAEIKERDDRDSNREVAPLKKADDALYLDTSNLSIDEVVEKILEY 216 (217)
T ss_pred CCCCCHHHHHHHHHHHHhcccccccCcccCCCCeEEEECCCCCHHHHHHHHHHh
Confidence 878899999999999999999999999999999999999999999999999765
No 39
>KOG1070|consensus
Probab=100.00 E-value=5.4e-34 Score=357.18 Aligned_cols=512 Identities=19% Similarity=0.274 Sum_probs=408.9
Q ss_pred hhcccccCCCCCeEEEEEEEEeccEEEEEeCC-CeEEEEecccccccC---CCccccCCCEEEEEEEEEeCCCCeEEEeh
Q psy14505 1076 ESLLRHDMRSGEVISAEVIGLDRNFVIINADL-KSEAFIPIEEFKNDN---GELEVKIGDFVSVAIESLENGFGDTILSR 1151 (1619)
Q Consensus 1076 e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~-~~~Gfi~~~e~~~~~---~~~~~kvG~~v~~~V~~v~~~~~~v~LS~ 1151 (1619)
+.+..+++..|++|.|+|.++.+.|+.|-+-. +..|++|.+|+++.. +...|++|..++++|+.++..++++.|++
T Consensus 500 k~~~~nDI~iG~~V~~~I~~vt~~Gv~v~v~~~ni~g~lp~~hlsd~~~~~p~~~f~v~~~~k~RVl~~~~~~~~v~l~~ 579 (1710)
T KOG1070|consen 500 KFLRVNDIEIGQLVPGVIRKVTPQGVEVLVTFGNIKGVLPKEHLSDHPLQPPLRDFKVGSGVKLRVLSVNRDRNRVALTL 579 (1710)
T ss_pred cccccccccccceeeeEEEEecCCcEEEEEecCceeeecChHhhhhcccccccceeeeccccEEEEEEEEccCCeeEEEe
Confidence 34455789999999999999999999988866 499999999998743 45679999999999999999999999999
Q ss_pred HHHHHHHhH--HHHHHHccCCCEEEEEEEEEEeCeEEE-EeCCEEEEEcCcccccCCCCCCC-C-CCCCeEEEEEEEEec
Q psy14505 1152 DKAKRLASW--LSLEKAMESGEIITGTINGKVKGGLTV-LTNGLKAFLPGSLVDIRPVKDTT-P-FEGKTMDFKVIKLDR 1226 (1619)
Q Consensus 1152 ~~~~~~~~~--~~~~~~l~~G~~v~g~V~~v~~~Gl~V-~~gg~~gflp~s~~~~~~~~~~~-~-~vG~~v~~~Vl~vd~ 1226 (1619)
+++...... ..-.+...||+++.|+|..+.+.|++| ++||+.||.|.+.+...++.+.. . .+||++.+.|..+|+
T Consensus 580 K~slv~~~~plp~d~~~~~pg~~~~G~l~~~~~~g~~V~F~g~lsGf~p~s~~sd~~v~~~~ehf~vGqTv~~~i~nvd~ 659 (1710)
T KOG1070|consen 580 KKSLVNTQLPLPSDFEQAIPGKITKGTLCAIKENGAFVTFTGGLSGFAPVSEMSDDFVLSDSEHFPVGQTVRAKIVNVDD 659 (1710)
T ss_pred chhhhcccCCCccchhhcCCCceEEEEEeeeccCCeEEEecCccccccchhhhhhhhhcChhhhcccccEEEEEEEecCc
Confidence 987554322 112334679999999999999999999 66789999999987654443322 2 399999999999999
Q ss_pred CCCeEEeecchhhhh-----------------------------------------------------------------
Q psy14505 1227 KRNNVVLSHRAVIEE----------------------------------------------------------------- 1241 (1619)
Q Consensus 1227 ~~~~i~LS~k~~~~~----------------------------------------------------------------- 1241 (1619)
++.++.+|++.....
T Consensus 660 ek~rm~l~~r~s~~~~a~~~~~~e~~~~g~v~s~~~~~~tkd~viVei~~~~~~~v~~~~~L~dg~v~~~~~~~~kl~~~ 739 (1710)
T KOG1070|consen 660 EKRRMPLGLRASSCARACVKRSVENFVKGGVKSLKSIDKTKDSVIVEIVDQGITGVGVFGELVDGSVVVNKVLENKLRKN 739 (1710)
T ss_pred hhceeehhhhhhhhHHHHHHHHHHHhhccccccceeehhccccEEEEccCcceEEEEEEEEEccCceEEccchhhhhhhc
Confidence 999999998764311
Q ss_pred --------------------------------------------------------------------------------
Q psy14505 1242 -------------------------------------------------------------------------------- 1241 (1619)
Q Consensus 1242 -------------------------------------------------------------------------------- 1241 (1619)
T Consensus 740 t~~~~lv~gq~~~~~i~~isl~k~lv~~s~~~~L~~~~~~l~k~~~~~~~v~~is~~~~~~a~~~~~i~~v~~s~~v~s~ 819 (1710)
T KOG1070|consen 740 TSLLHLVVGQVTVGVILSISLKKSLVLISLCTDLPNNATKLLKGSYALALVRSISKEGKFVAFVSNLIALVKVSHLVDSE 819 (1710)
T ss_pred chhheeeecceeEEEEEEeehhhhhhhccccccccchHHHHhcCchhHHHHHhhhhheeheeecccccceeecccccccc
Confidence
Q ss_pred ---------------------------------hh------------------hHHHHHHHhccCCCcEEEEEEEEEecC
Q psy14505 1242 ---------------------------------SM------------------GEERQKLIETLKEGCTVKGVVKNITDY 1270 (1619)
Q Consensus 1242 ---------------------------------~~------------------~~~~~~~~~~l~~G~iv~g~V~~v~~~ 1270 (1619)
+. -........++.+|++++|+|+++.++
T Consensus 820 ~~d~~~~~y~Q~v~~~~~st~~~~~~~~~a~e~p~~K~~~~~~~~~~~~~d~~Vd~a~k~~~~~~igsiv~a~v~svKp~ 899 (1710)
T KOG1070|consen 820 LDDLTKAEYGQSVTVKLLSTEPKVVKDLKAVEKPKKKKEKKFIKVSSNDSDNEVDLAIKSTEDLSIGSIVRAYVKSVKPD 899 (1710)
T ss_pred ccccceeeeecccceEEEecChhHHHHHHhhcchhhccceeEEEeccccCCCccccccccccceeeeeEEEEEEeeeccc
Confidence 00 000111244678999999999999999
Q ss_pred eEEEEeC-CEEEEeeccccCcc--ccCCCccccccCCEEEEEEEEeecCC-----------CeEEEeeeccccC--Cccc
Q psy14505 1271 GAFIDLG-GIDGLLHITDIAWR--RVKHPSEILTIGQDISTKILKYDQEK-----------NRVSLGMKQLGID--PWIG 1334 (1619)
Q Consensus 1271 G~~V~l~-gi~g~l~~sels~~--~~~~~~~~~~vG~~v~vrVl~vd~~~-----------~~i~LSlK~~~~~--~~~~ 1334 (1619)
++.|.++ ++.|.+|++|.-+. .+.+|.+.|++|+.|.|||+.....+ ....||+||+..+ +...
T Consensus 900 ~L~v~l~~~~~gri~isev~d~~~eitDp~~k~~vG~~I~vrviG~~D~k~lpith~i~k~~v~ElSvkps~les~~~~t 979 (1710)
T KOG1070|consen 900 QLNVLLAANHHGRIHISEVLDNLHEITDPLDKFKVGDGIFVRVIGGHDVKDLPITHLISKEQVLELSVKPSELESDEFNT 979 (1710)
T ss_pred ceEEeccccccCceehHHhhccccccCChhhhcccCCeEEEEEEcCCccccCccccccchhhhhhhccChhhhccccccc
Confidence 9999997 89999999999774 46679999999999999999762111 2356788887654 2222
Q ss_pred cc-cccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccC-ccccCCCccccccCCCEEEEEEEEeeccc--------
Q psy14505 1335 LS-FRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMD-WINKNVTPSKIVQLNDTVEIMILEINEER-------- 1404 (1619)
Q Consensus 1335 ~~-~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels-~~~~~~~~~~~~~vG~~V~vrVl~id~e~-------- 1404 (1619)
.. ..++.|+.|.|+|.++...-++|.+.+.++|.+|.-+++ +.....+|.+.|+.|+-++|.|+..|...
T Consensus 980 ~s~~q~~~gq~vtGfV~nv~ke~~w~~isp~v~~RIplld~s~~~~~le~~e~~F~~g~al~~~V~~~~~~~tv~~iG~~ 1059 (1710)
T KOG1070|consen 980 TSTKQFKAGQEVTGFVNNVSKEWLWVRISPFVDGRIPLLDTSLDLHVLELPESLFPLGKALDEYVVRNDKSKTVRAIGFS 1059 (1710)
T ss_pred cchhhhhcCCeEEEEEEccccceeEEEccccccceeeeeeccchhhhhhCchhhcccccceeeEEecccceeEEEecccc
Confidence 22 478999999999999999999999999999999999997 44445688999999999998888776211
Q ss_pred -----------------------------------------------------------------------ceEEEeeec
Q psy14505 1405 -----------------------------------------------------------------------RRISLGMKQ 1413 (1619)
Q Consensus 1405 -----------------------------------------------------------------------~ri~LSlK~ 1413 (1619)
+.+.||++.
T Consensus 1060 ~~~k~~s~G~~l~Grv~kv~~~~~~l~~~~~~~G~~~~i~~~~d~~~~~P~~~f~~~~~v~~~~L~vs~~n~~leLslr~ 1139 (1710)
T KOG1070|consen 1060 KSDKNPSPGDILFGRVSKVLPGYLILQLPFKVFGRVSFIEDMSDSYSMTPVEHFTKIQIVYVCVLSVSALNKGLELSLRE 1139 (1710)
T ss_pred cCCCCCCcchhhcceeeeeccceeEEecCCccccceEEeeehhccccCChHHhcccccEEEEEEEEEecccccceeeccc
Confidence 112222221
Q ss_pred ccC--------CCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEE
Q psy14505 1414 CKD--------NPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIIL 1485 (1619)
Q Consensus 1414 ~~~--------~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl 1485 (1619)
+.. ++-.+..+.+++|+++.|+|.++.+.|+|+.+..++.++++.++++ +.+...|..+|.+||.|.++|+
T Consensus 1140 sr~~~t~~~~kd~~iks~eDlk~g~iv~G~V~nv~~~glfi~ls~~v~a~v~is~~~-ds~~k~w~k~~~~gklv~~rv~ 1218 (1710)
T KOG1070|consen 1140 SRTKITPVDSKDGSIKSIEDLKIGDIVRGFVKNVETKGLFIALSRKVEAFVPISGLS-DSFEKEWEKHLPVGKLVTGRVL 1218 (1710)
T ss_pred ccccCccccccCCcccchhhcccCceeEEEEEEecCCcEEEEEccceEEEEEccccc-cchhhhhhccCCccceeeeEEE
Confidence 110 1111233445899999999999999999999999999999999999 6888999999999999999999
Q ss_pred EeecCCCeEEEeeecCcCCCcc---cccccCCCCCeEEEEEEEEecCceEEEEecCC--eEEEEEccccccccc----cC
Q psy14505 1486 SIDVEKERISLGIKQLEGDPFN---NYVNINDKGSLVNGIIKSIDTNKGAIIQLSNE--VEGYLRISEEDNKHE----KK 1556 (1619)
Q Consensus 1486 ~vd~e~~ri~LSlK~~~~~p~~---~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~g--v~G~i~~~~~~~~~~----~~ 1556 (1619)
++++..+|+.|++|++...... .....+++|+...|+|.++ .++|+|+++..+ +.|++|.++..+... ..
T Consensus 1219 ~ve~~s~riel~Lk~s~~~d~~~~~~~~~~l~~gd~~~g~v~~~-~~~G~fi~l~~tv~~~g~~~~~e~~d~~~e~it~~ 1297 (1710)
T KOG1070|consen 1219 SVEEDSKRIELSLKNSDIKDTVKLLKDSKDLKKGDREDGTVEVV-DPFGLFIKLDVTVNMVGLCHISEEADDRGENITAL 1297 (1710)
T ss_pred EeeccCceEEEEEeccccCCchhhhhhhhhhhccccccceEEEe-cCCceEEEecCcceecccccceeecchhhhhcccc
Confidence 9999999999999997543222 2224667999999999999 599999999985 599999998866543 78
Q ss_pred cCCCCEEEEEEEEEeCCCCEEEEeecchHHHHH
Q psy14505 1557 LKIGENIDVLTVLIDHKTRYIQLSFKKKEVIKK 1589 (1619)
Q Consensus 1557 ~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~~~~ 1589 (1619)
+..|+.|+|.+++.+.++++|++++|.+-..+.
T Consensus 1298 ~~~~~~V~a~~lk~~~ek~rIsl~~k~s~~~~~ 1330 (1710)
T KOG1070|consen 1298 YYAGDRVKACVLKEDSEKKRISLGLKSSYLSSE 1330 (1710)
T ss_pred eeccceeeeEeeeccchhhhhhhhhhhhccCCh
Confidence 999999999999999999999999988744433
No 40
>KOG0355|consensus
Probab=100.00 E-value=2.7e-36 Score=368.12 Aligned_cols=167 Identities=30% Similarity=0.519 Sum_probs=159.2
Q ss_pred eeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhcc--CcCCCCcchHH
Q psy14505 9 ISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMG--KYHPHGDVSIY 86 (1619)
Q Consensus 9 ~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~--~yhphgd~s~~ 86 (1619)
-.+++++.. ++|+-|+|.= |||++.|||||+||++||+|++++. +...|+||++|+|+. .|| ||++|+.
T Consensus 645 ~~v~~sdf~-~elilf~~~~----sIp~~~dglkpgqRkv~~~~~k~n~---~~E~Kv~ql~g~v~~~s~yh-hge~sl~ 715 (842)
T KOG0355|consen 645 KFVTISDFV-KELILFSNAD----SIPSLVDGLKPGQRKVLFTCFKRND---KREVKVAQLAGSVAEMSAYH-HGEQSLM 715 (842)
T ss_pred ceeEHHHHH-HHHHHHHhcc----ccHhHHhccCccchhhhhhhhhhcC---CCceeEeeecchHHHHHHhh-cccHhHH
Confidence 457899999 9999999962 9999999999999999999999985 799999999999985 899 9999999
Q ss_pred HHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHHhhccCCCCccccccCCCCCcCCcceecCCCcee
Q psy14505 87 DALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNELLIDLDKETIDFISNYDGKEKEPSVLPTRIPNL 166 (1619)
Q Consensus 87 ~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~~ 166 (1619)
.|+|+|||+|.+ .|||++||++++|||+++.+|+.-|+.++.|. |.||+.+||+ |+|++||+
T Consensus 716 ~ti~~l~q~~~g----------------kdaa~~ryi~t~l~~~tr~~f~~~dd~ll~~~-~~~~~~vep~-y~pi~p~v 777 (842)
T KOG0355|consen 716 STIVNLAQDFVG----------------KDAASARYIFTKLSPLTRLLFPPADDLLLKYL-NEDGQRVEPE-YCPIIPMV 777 (842)
T ss_pred HHHHHHHHhhcC----------------CcchhhHHHHHhcChhhhhcCCCCchhHhhhh-ccCCcCcCcc-cccceeEE
Confidence 999999999975 89999999999999999999999999999997 8999999999 99999999
Q ss_pred eecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCC
Q psy14505 167 LINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPE 202 (1619)
Q Consensus 167 L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~ 202 (1619)
|+||+.||||||||+||+|||.||+.++++++++.+
T Consensus 778 lvngaegiGtGws~~i~n~n~~~iv~~~r~~~~~~~ 813 (842)
T KOG0355|consen 778 LVNGAEGIGTGWSTFIPNYNPREIVKNIRRLINGEP 813 (842)
T ss_pred EeeccccccCCccccCCCCCHHHHHHHHHHhhcCCC
Confidence 999999999999999999999999999999999985
No 41
>KOG1070|consensus
Probab=100.00 E-value=6.6e-34 Score=356.43 Aligned_cols=507 Identities=17% Similarity=0.233 Sum_probs=384.3
Q ss_pred hhhhhcccccCCCCCeEEEEEEEEeccEEEEEeCC-CeEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEEeh
Q psy14505 1073 LFKESLLRHDMRSGEVISAEVIGLDRNFVIINADL-KSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILSR 1151 (1619)
Q Consensus 1073 ll~e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~-~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~ 1151 (1619)
..+.+++.+.+.+|+++.+.|.+++++|.++++|. -..||+..+++.+. ...||+||.+.|.|++.+. + ++.+|.
T Consensus 144 v~~t~lS~~~~~~~~~l~~~v~S~ed~g~~l~~g~~~~~~~~e~~q~pn~--~~~lKvGq~l~~~V~k~~s-~-~v~ks~ 219 (1710)
T KOG1070|consen 144 VLNTHLSDEMLAAGEVLDTAVVSIEDHGAILDVGLDEITGFIEKSQFPNL--GAKLKVGQWLRVSVTKSTS-E-RVVKST 219 (1710)
T ss_pred ccccccCHhHhhhhhhhccccccccccccchhcCCccccchhhhccCchh--hhhcccCceEEEEEEeccC-c-eEEecc
Confidence 35667778889999999999999999999999997 46789988888653 3459999999999999877 3 666665
Q ss_pred HHHH-------HHHhHHHHHHHccCCCEEEEEEEEEEeCeEEEEe-CCEEEEEcCcccccCCC--CC-------------
Q psy14505 1152 DKAK-------RLASWLSLEKAMESGEIITGTINGKVKGGLTVLT-NGLKAFLPGSLVDIRPV--KD------------- 1208 (1619)
Q Consensus 1152 ~~~~-------~~~~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~-gg~~gflp~s~~~~~~~--~~------------- 1208 (1619)
++.. ....|. .+.|-||+.++|.|.++.++|+++++ .|+.||+|..|++.... ..
T Consensus 220 ~~~~~~t~~~t~~~~~~--~~~LvpGt~vqa~V~sv~~~Gi~~dil~~ftG~l~~~hl~~~~~~~~~~~~l~~vi~~s~R 297 (1710)
T KOG1070|consen 220 KFVEVLTLNPTSCNGLA--LNDLVPGTMVQAEVQSVEDHGITLDILNGFTGFLDKKHLPPFLRYFENQEKLGKVIHKSDR 297 (1710)
T ss_pred cceeeecccchhccccc--hhhcCCcceEEEEecceecCcEEEEecccccceeehhhCCchhhccccHHHhhcccchhhh
Confidence 5421 122222 22488999999999999999999965 47999999877753221 00
Q ss_pred -------------------------CC---------CCCCCeEEEEEEEEecCCCeEEeecchhhhhhhhHHHHHHHhcc
Q psy14505 1209 -------------------------TT---------PFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMGEERQKLIETL 1254 (1619)
Q Consensus 1209 -------------------------~~---------~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~~~~~~~~~~l 1254 (1619)
.. ...|..++|+|+.+-+.+.....+++....+- ......++
T Consensus 298 v~~~~f~~ka~ki~~l~~~v~ai~p~~~~~~~~~e~~k~G~~~K~~vi~~~~~~~~~~~tl~~s~ie~----k~~~~s~V 373 (1710)
T KOG1070|consen 298 VFVVDFFDKASKILVLKAGVDAIAPSRIEKVLSFEIFKIGNKVKCRVIDVLQMDSLALFTLKESAIEG----KFSLVSDV 373 (1710)
T ss_pred eeeechhhccceEEEecCccceEccCCcccccchhhcccCceEEEEEEEEeeccceEEeecchhhccC----ceEEEecc
Confidence 00 01488899999988777776666666321110 01112222
Q ss_pred CCCcEEEEE-------------------------------------E-----EEEe-cCeEEEEe--CCEEEEeeccccC
Q psy14505 1255 KEGCTVKGV-------------------------------------V-----KNIT-DYGAFIDL--GGIDGLLHITDIA 1289 (1619)
Q Consensus 1255 ~~G~iv~g~-------------------------------------V-----~~v~-~~G~~V~l--~gi~g~l~~sels 1289 (1619)
.+|.++.+. | +... ..++++.. +-+.++.++..++
T Consensus 374 ~~r~l~~~~~svdt~~~~l~~L~hv~~f~~a~p~~~~~~~~di~~~vl~~~ak~~~vt~~v~~~sK~pvis~y~~~~~~t 453 (1710)
T KOG1070|consen 374 SPRGLLKKPVSVDTEEVGLSPLPHVLGFEYADPSKKISDGKDIGFRVLTCKAKCGSVTLKVLCVSKLPVISMYADAVKLT 453 (1710)
T ss_pred CCceEEEecccCChhhhhccccchhhceeecCCCcccccccceeeEEeeccceeeeeeeeeeEeecCcceEEEeeccccC
Confidence 333333222 2 2221 12233333 2467888888777
Q ss_pred ccccCCC----ccccccCCEEEEEEEEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCC-
Q psy14505 1290 WRRVKHP----SEILTIGQDISTKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKG- 1364 (1619)
Q Consensus 1290 ~~~~~~~----~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~g- 1364 (1619)
+.++... ...|++|.++.|+|+.+-+..+.+.+|..++..........++++|+.|.|+|.++.+.|+.|.+..+
T Consensus 454 ~~~l~~v~q~~v~~~e~~te~~~rv~~v~~v~~v~~v~~~~svl~lk~~~~nDI~iG~~V~~~I~~vt~~Gv~v~v~~~n 533 (1710)
T KOG1070|consen 454 HGMLSKVPQGMVPIYEVGTEVKSRVWQVFYVGKVVIVSVRESVLGLKFLRVNDIEIGQLVPGVIRKVTPQGVEVLVTFGN 533 (1710)
T ss_pred cchhhccccCCCCceecCCcccCccceecccCcEEEEEEehHhhcccccccccccccceeeeEEEEecCCcEEEEEecCc
Confidence 6654433 23488999999999999999999999999887776666667899999999999999999999988665
Q ss_pred EEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCCC----CcccccccccceEEEEEEEEEe
Q psy14505 1365 IEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDNP----WENFSIIHKKGEKIKGIIKSIT 1440 (1619)
Q Consensus 1365 v~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~----~~~~~~~~~vG~~v~G~V~~i~ 1440 (1619)
+.|++|.+++++ -..+.|...|.+|..+++||+.++.+.+++.|++|+++.+. ..++... .+|.++.|+|.++.
T Consensus 534 i~g~lp~~hlsd-~~~~~p~~~f~v~~~~k~RVl~~~~~~~~v~l~~K~slv~~~~plp~d~~~~-~pg~~~~G~l~~~~ 611 (1710)
T KOG1070|consen 534 IKGVLPKEHLSD-HPLQPPLRDFKVGSGVKLRVLSVNRDRNRVALTLKKSLVNTQLPLPSDFEQA-IPGKITKGTLCAIK 611 (1710)
T ss_pred eeeecChHhhhh-cccccccceeeeccccEEEEEEEEccCCeeEEEechhhhcccCCCccchhhc-CCCceEEEEEeeec
Confidence 999999999998 45678899999999999999999999999999999987543 2334444 68999999999999
Q ss_pred cceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCC--CcccccccCCCCCe
Q psy14505 1441 DFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGD--PFNNYVNINDKGSL 1518 (1619)
Q Consensus 1441 ~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~--p~~~~~~~~~~G~~ 1518 (1619)
++||||+|++++.||.|.++++ +.++.++.++|.+||+|.++|+++|++++|+.+|+|.+... ........+..|.+
T Consensus 612 ~~g~~V~F~g~lsGf~p~s~~s-d~~v~~~~ehf~vGqTv~~~i~nvd~ek~rm~l~~r~s~~~~a~~~~~~e~~~~g~v 690 (1710)
T KOG1070|consen 612 ENGAFVTFTGGLSGFAPVSEMS-DDFVLSDSEHFPVGQTVRAKIVNVDDEKRRMPLGLRASSCARACVKRSVENFVKGGV 690 (1710)
T ss_pred cCCeEEEecCccccccchhhhh-hhhhcChhhhcccccEEEEEEEecCchhceeehhhhhhhhHHHHHHHHHHHhhcccc
Confidence 9999999999999999999999 68999999999999999999999999999999999987531 11122234456666
Q ss_pred EEEEEEEEecCceEEEEecC-CeEEEEEcccccccc----------------ccCcCCCCEEEEEEEEEeCCCCEEEEee
Q psy14505 1519 VNGIIKSIDTNKGAIIQLSN-EVEGYLRISEEDNKH----------------EKKLKIGENIDVLTVLIDHKTRYIQLSF 1581 (1619)
Q Consensus 1519 v~g~V~~i~~~~G~~V~l~~-gv~G~i~~~~~~~~~----------------~~~~~~Gq~V~~~Vl~vd~~~k~i~lSl 1581 (1619)
..+.+... +..-++|++.+ |+.|.+-..++.+.. ...+.+||.+.++|++++..++.+.+|+
T Consensus 691 ~s~~~~~~-tkd~viVei~~~~~~~v~~~~~L~dg~v~~~~~~~~kl~~~t~~~~lv~gq~~~~~i~~isl~k~lv~~s~ 769 (1710)
T KOG1070|consen 691 KSLKSIDK-TKDSVIVEIVDQGITGVGVFGELVDGSVVVNKVLENKLRKNTSLLHLVVGQVTVGVILSISLKKSLVLISL 769 (1710)
T ss_pred ccceeehh-ccccEEEEccCcceEEEEEEEEEccCceEEccchhhhhhhcchhheeeecceeEEEEEEeehhhhhhhccc
Confidence 66666666 35557777777 577777666653321 1347899999999999999999999999
Q ss_pred cchHHHHHHHHH
Q psy14505 1582 KKKEVIKKKKLL 1593 (1619)
Q Consensus 1582 k~~~~~~~~~~~ 1593 (1619)
++..+...+.++
T Consensus 770 ~~~L~~~~~~l~ 781 (1710)
T KOG1070|consen 770 CTDLPNNATKLL 781 (1710)
T ss_pred cccccchHHHHh
Confidence 999888744443
No 42
>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional
Probab=100.00 E-value=1.2e-34 Score=355.64 Aligned_cols=214 Identities=41% Similarity=0.660 Sum_probs=203.0
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceec-----CceEEeC
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFL-----GKEVYLN 933 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~ 933 (1619)
.++|+++|++|+||+|+++.+|+++|+.|+|+|.|||++|+.+.+.|++.++...+.+++.+..+.+. +..+++|
T Consensus 284 ~~ii~i~G~sgsGKst~a~~la~~l~~~~~d~g~~YR~~a~~~l~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~i~~~ 363 (512)
T PRK13477 284 QPIIAIDGPAGAGKSTVTRAVAKKLGLLYLDTGAMYRAVTWLVLQEGIDPQDEEALAELLSDLKIELKPSSGSPQRVWIN 363 (512)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHcCCeEecCCceehHHHHHHHHcCcCCcCHHHHHHHHhcCCeeeccCCCCCceEEeC
Confidence 36899999999999999999999999999999999999999999999999999999999998888873 2369999
Q ss_pred CccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 934 GVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 934 ~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
|+|++..||+++++..+|.+|.+|.||+++.++||++++.+++|||||||||+|||||++||||+||+++|++||+.++.
T Consensus 364 ~~dv~~~iRs~eV~~~vS~ia~~p~VR~~l~~~qr~~~~~~~iV~eGRDigtvV~P~AdlKIfL~As~evRa~RR~~~l~ 443 (512)
T PRK13477 364 GEDVTEAIRSPEVTSSVSAIAAQPAVRQALVKQQQRIGEKGGLVAEGRDIGTHVFPDAELKIFLTASVEERARRRALDLQ 443 (512)
T ss_pred CcchHhhhcchhHHHHHHHHhCCHHHHHHHHHHHHHHhhcCCEEEEcccceeEEcCCCCEEEEEECCHHHHHHHHHhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred hcCC-CCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1014 QKGF-SVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1014 ~~~~-~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
.++. ..+++++++.+++||+.|++|.++||.++.|+++||||++++|++++.|++.+++
T Consensus 444 ~Rpll~~~~e~i~~~i~eRd~~D~~R~i~PLy~a~dai~IDTs~lsieeVv~~Il~~i~~ 503 (512)
T PRK13477 444 AQGFPVIDLEQLEAQIAERDRLDSTREIAPLRKADDAIELITDGLSIEEVVDKIIDLYRD 503 (512)
T ss_pred hCCCccCCHHHHHHHHHHHHhhhcccccccccccCCeEEEECCCCCHHHHHHHHHHHHHH
Confidence 7776 5679999999999999999999999999999999999999999999999988764
No 43
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=100.00 E-value=8e-32 Score=316.77 Aligned_cols=245 Identities=30% Similarity=0.546 Sum_probs=224.7
Q ss_pred cCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccC---CCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHH
Q psy14505 1082 DMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDN---GELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLA 1158 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~---~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~ 1158 (1619)
.+++|++|.|+|+++.++|++|++|.+..||+|.+|++... +...|++|+.+.|+|++++...+.+.||+++.....
T Consensus 28 ~~~~G~iv~G~V~~i~~~g~~Vdig~k~~g~lp~sEis~~~~~~~~~~~~~G~~v~~~Vi~~~~~~~~i~lS~k~~~~~~ 107 (318)
T PRK07400 28 HFKPGDIVNGTVFSLEPRGALIDIGAKTAAFMPIQEMSINRVEGPEEVLQPNETREFFILSDENEDGQLTLSIRRIEYMR 107 (318)
T ss_pred hcCCCCEEEEEEEEEECCEEEEEECCCeEEEEEHHHhccccccCHHHccCCCCEEEEEEEEEeCCCCeEEEehhhhhhhh
Confidence 57899999999999999999999999999999999998643 345689999999999999998899999999987778
Q ss_pred hHHHHHHHccCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchh
Q psy14505 1159 SWLSLEKAMESGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAV 1238 (1619)
Q Consensus 1159 ~~~~~~~~l~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~ 1238 (1619)
.|..+.+....|++++|+|+++.++|++|.++|++||+|.++++++..+ ..++|+.++|+|+.+|++++++.||+|+.
T Consensus 108 ~w~~l~~~~~~~~~V~g~V~~~~~~G~~V~l~Gv~gfip~s~ls~~~~~--~~~vG~~i~~kVl~id~~~~~i~lS~K~~ 185 (318)
T PRK07400 108 AWERVRQLQKEDATVRSEVFATNRGGALVRIEGLRGFIPGSHISTRKPK--EELVGEELPLKFLEVDEERNRLVLSHRRA 185 (318)
T ss_pred HHHHHHHhccCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHcCccCCc--cccCCCEEEEEEEEEEcccCEEEEEhhHh
Confidence 9999998888999999999999999999999999999999999875433 34599999999999999999999999976
Q ss_pred hhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCC
Q psy14505 1239 IEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKN 1318 (1619)
Q Consensus 1239 ~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~ 1318 (1619)
+.+ ..+..+++|+++.|+|+++.++|+||+++|+.|++|.++++|.+..++.+.|++||.++|+|+++|++++
T Consensus 186 ~~~-------~~~~~~k~G~vv~G~V~~I~~~G~fV~i~gv~Gllhisels~~~~~~~~~~~~vGd~VkvkVl~iD~e~~ 258 (318)
T PRK07400 186 LVE-------RKMNRLEVGEVVVGTVRGIKPYGAFIDIGGVSGLLHISEISHEHIETPHSVFNVNDEMKVMIIDLDAERG 258 (318)
T ss_pred hhh-------hhhccCCCCCEEEEEEEEEECCeEEEEECCEEEEEEHHHcccccccChhhccCCCCEEEEEEEEEeCCCC
Confidence 543 2457799999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEeeeccccCCcccc
Q psy14505 1319 RVSLGMKQLGIDPWIGL 1335 (1619)
Q Consensus 1319 ~i~LSlK~~~~~~~~~~ 1335 (1619)
++.||+|+...+||..+
T Consensus 259 rI~LS~K~l~~~P~~~~ 275 (318)
T PRK07400 259 RISLSTKQLEPEPGDML 275 (318)
T ss_pred EEEEEEeccccChhhhh
Confidence 99999999999999644
No 44
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=100.00 E-value=2.5e-33 Score=366.12 Aligned_cols=211 Identities=28% Similarity=0.473 Sum_probs=194.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCc--------HHHHHHHHHcccceec----Cc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDN--------ELELVILIKKLNYNFL----GK 928 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~--------~~~~~~~~~~~~~~~~----~~ 928 (1619)
+|+++|++|+||+|+++.||+++||.|+|+|+|||++||.+.+.|++.++ .+.+.+.+.+..+.+. ..
T Consensus 3 ~i~I~G~~GsGKST~ak~la~~l~~~~~~~g~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (712)
T PRK09518 3 IVAIDGPAGVGKSSVSRALAQYLGYAYLDTGAMYRACAWWCLKQGIDLDAELVDEQVVTEAVGEFFTGLHFDISVDPDSP 82 (712)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEeecCcEeHHHHHHHHhcCCCcchhhhhhhhhHHHHHHHHhCCcEEEecCCCCc
Confidence 68999999999999999999999999999999999999999999998877 4566666666666653 24
Q ss_pred eEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhh-cCC---------CeEEeccccCeeeecCCCeEEEEE
Q psy14505 929 EVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFR-KFP---------GLVADGRDMGTTVFPDAFLKIFLT 998 (1619)
Q Consensus 929 ~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a-~~~---------~~V~~GRd~~~~v~p~a~~kifl~ 998 (1619)
.+++||+|++..||+++++..+|.+|.+|.||+.+..+||+++ ..+ ++|||||||||+|||||++||||+
T Consensus 83 ~i~~~~~~v~~~i~~~~v~~~~s~ia~~~~vr~~l~~~qr~~~~~~~~~~~~~~~~~~v~eGRdigtvv~p~a~~K~~l~ 162 (712)
T PRK09518 83 GVFADGEDISEEIRSPEVSSHVSAVAAIPPVRNVLIAAQRAYIAREASADSFSGGLGIVAEGRDITTVVAPDAEVRILLT 162 (712)
T ss_pred EEEECCeEchHhhCcHHHHHHHHHHhCCHHHHHHHHHHHHHHHhhcCccccccccCcEEEecCccceEEecCCCeEEEEE
Confidence 7999999999999999999999999999999999999999996 454 899999999999999999999999
Q ss_pred cCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhhh
Q psy14505 999 ADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFKE 1076 (1619)
Q Consensus 999 A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~e 1076 (1619)
||+++||+||+.|+.. .++++++++|++||+.|+ |..+||.+++||++||||+|++|+|++.|.++++..+.+
T Consensus 163 A~~~~Ra~Rr~~~~~~----~~~~~~~~~~~~Rd~~d~-R~~~pl~~~~da~~idts~~~~~~v~~~i~~~i~~~~~~ 235 (712)
T PRK09518 163 AREEVRQARRSGQDRS----ETPGVVLEDVAARDEADS-KVTSFLSAADGVTTLDNSDLDFDETLDLLIGLVEDAIEE 235 (712)
T ss_pred CCHHHHHHHHHHhhhc----CCHHHHHHHHHHHhhhcc-cccCCCCCCCCeEEEECCCCCHHHHHHHHHHHHHhhhhh
Confidence 9999999999999754 799999999999999999 999999999999999999999999999999998877653
No 45
>PRK00023 cmk cytidylate kinase; Provisional
Probab=100.00 E-value=1.1e-32 Score=311.09 Aligned_cols=214 Identities=51% Similarity=0.807 Sum_probs=202.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceec----CceEEeCCc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFL----GKEVYLNGV 935 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~ 935 (1619)
++|++.|++|+||+++++.+|+++|++|+|+|.+||++|+.|++.|+++++++.+.+.+....+.+. ...++++|+
T Consensus 5 ~~i~i~g~~gsGksti~~~la~~~~~~~~~~~~~~r~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (225)
T PRK00023 5 IVIAIDGPAGSGKGTVAKILAKKLGFHYLDTGAMYRAVALAALRHGVDLEDEEALVALAAHLDISFESDPGGQRVFLNGE 84 (225)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCCCcccCchhHHHHHHHHHHcCCCCCCHHHHHHHHhcCCeEEecCCCcceEEECCc
Confidence 5799999999999999999999999999999999999999999999999999889898888777763 236899999
Q ss_pred cccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhc
Q psy14505 936 NVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQK 1015 (1619)
Q Consensus 936 ~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~ 1015 (1619)
+++..||+++++..+|.++..|.+|+.+...|++++.+++|||+|||++++++|+++++|||+||+++|++||+.++...
T Consensus 85 ~i~~~lr~~~i~~~~s~~a~~~~ir~~l~~~q~~ia~~~~~Vi~GR~~~~~vl~~a~~~ifl~a~~e~R~~Rr~~~~~~~ 164 (225)
T PRK00023 85 DVTDEIRTEEVGNAASKVAAIPEVREALVERQRAFAREPGLVMDGRDIGTVVFPDAELKIFLTASAEERAERRYKELQAK 164 (225)
T ss_pred chHHhhChHHHHHHHHHHcCCHHHHHHHHHHHHHHhhCCCEEEEecChheEEeCCCCEEEEEECCHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999998899999999999999999999999999998888
Q ss_pred CCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1016 GFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1016 ~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
|.+.+++++++.|++||+.|++|...|+.++.|+++||||.|++|++++.|.++++..
T Consensus 165 g~~~~~~~~~~~i~~rD~~~~~r~~~~l~~~~d~l~IDTs~l~~ee~v~~I~~~i~~~ 222 (225)
T PRK00023 165 GISVDFEDLLAEIKERDERDSNRAVAPLKPAEDALLLDTSGLSIEEVVEKILALVEEK 222 (225)
T ss_pred CCCCCHHHHHHHHHHHHHhhhhcccccccccCCEEEEECCCCCHHHHHHHHHHHHHHH
Confidence 8889999999999999999999999999999999999999999999999999988653
No 46
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=99.97 E-value=8.9e-30 Score=331.48 Aligned_cols=245 Identities=22% Similarity=0.344 Sum_probs=222.2
Q ss_pred ceEEEEccCccEEeccCchhhhcccCCCCccccccCCCCeEEEEEE---------------------------------e
Q psy14505 543 DMVITLSNLGYIKSQPISEYRAQKRGGRGKKAMMTKDEDWINQLFI---------------------------------A 589 (1619)
Q Consensus 543 ~~~v~ls~~GyiKr~~~~~~~~~~r~g~g~~~~~~k~~D~~~~~~~---------------------------------~ 589 (1619)
+.++++|++|+.=|.+.++.+.+.|.++|+.+++++++|.+..+.. |
T Consensus 672 ~~Iil~Tk~G~airF~~~eVr~mGR~a~GVkgI~L~~~D~Vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 751 (957)
T PRK13979 672 KFIKIKTKKGLSFTVEEPELEPVDRNIIGYQLFDLLPNDSIKKVDFCDNYEYKEFYVNINKKGIIKISDKDNKSSISVFT 751 (957)
T ss_pred CEEEEEeCCCcEEEEEHHHCcccCCCCcCeeeEeeCCCCEEEEEEEEhhhhhcchhhhcccccceeecccccccccceee
Confidence 5789999999999999999999999999999999999999987664 6
Q ss_pred eCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecc-cCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEee
Q psy14505 590 NTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMF-SLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTL 668 (1619)
Q Consensus 590 ~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll-~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~ 668 (1619)
+|||+|+||||.|++|++++|+||+ |+++|.|+.+++ +++++|++++++++ +++.++.+++++|++|++||++
T Consensus 752 ~T~d~Ll~FTn~Gkvy~ikv~eIPe--~~~kG~~i~nll~~l~~~E~Ii~i~~~----~~~~~~~~Ll~vTk~G~iKRt~ 825 (957)
T PRK13979 752 NSSKNLLIFSDEGKVYKIPAFMLQN--IKNEGINISALTGDFEKDEKIIKIISI----FEFEEDLSIYFFSKKGLVKKTL 825 (957)
T ss_pred cCCceEEEEecCCeEEEEEeeeccc--ccccCcCHHHhhcccCCCCeEEEEEee----cccCCCceEEEEecCCcEEEeE
Confidence 7999999999999999999999999 789999999999 79999999999988 4555556899999999999999
Q ss_pred CCCCcCCCCCCceeeecCC-CCeEEEEEEec-CCCeEEEEeCCceEEEEecccccccCCCCCCccceecCCCCEEEEEEE
Q psy14505 669 LSNFSNPRKSGIIAVNLSN-EDFLIGAALTD-GSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIGMRLEKKQKVIALLV 746 (1619)
Q Consensus 669 ~~~~~~~~r~G~~~~~lke-~D~l~~~~~~~-~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~ 746 (1619)
+++|...++ |..+++|++ +|+|+++..+. ++++++++|++|+++||+..+||++||.++||++|+|.+||+|+++.+
T Consensus 826 lsef~~~rr-~~~aikLke~~DeLV~v~~v~~~~~eIvL~T~~G~~iRf~~~eIr~~GR~A~GVk~I~L~~~D~Vv~~~~ 904 (957)
T PRK13979 826 LNEFKGEGN-STQAYKFKHKEDELVNVDIKEHEEKNILLITEKGMAIRFKSEAVNPMGKIASGVTGISLKDEDKVIYGSI 904 (957)
T ss_pred HHHhcccCC-CeEEEEecCCCCeEEEEEEecCCCCEEEEEECCCeEEEEEhHHCCcccccCCCeEEEEeCCCCEEEEEEE
Confidence 999998876 578899996 69999999998 688999999999999999999999999999999999999999999998
Q ss_pred ecCC-CCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEE
Q psy14505 747 SNNQ-KQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVA 795 (1619)
Q Consensus 747 ~~~~-~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~ 795 (1619)
+++. ++.++++|++|++||+++++|+.++|+++|+.++.|-- +|.+..
T Consensus 905 i~~~~~~~ll~iTe~G~gKr~~~~e~r~~~Rg~kGv~~~~~~~-~~~~~~ 953 (957)
T PRK13979 905 IDENDTRKIKLKSKAKDKGEIEIKDIKLQNRAGRGNSLMPLLL-NDFIKD 953 (957)
T ss_pred EcCCCCceEEEEEcCCceEEeEHHHccccCCCCCCcEEEEecc-ccceee
Confidence 8642 24699999999999999999999999999999999765 555443
No 47
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=99.96 E-value=4.3e-29 Score=320.92 Aligned_cols=252 Identities=15% Similarity=0.198 Sum_probs=211.1
Q ss_pred cccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCC
Q psy14505 609 VWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNE 688 (1619)
Q Consensus 609 v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~ 688 (1619)
..||.+.+ +.+|.|+++.+.-. ++. ..+. +++.+++++++|++|++|||||+++++|..+++ .+++++++
T Consensus 461 ~~el~~ik-~kfg~~RRT~I~~~-~~~-~~~~----~edli~~E~~lV~lTk~G~IKrt~l~~f~~~r~---~ai~Lke~ 530 (738)
T TIGR01061 461 KKQLEEYK-KQFAQQRRSQIEDF-INQ-IKIN----ESELIENEDYYVLITKAGYIKRTSNRSFASSKY---TDFGSKDD 530 (738)
T ss_pred HHHHHHHH-HHhCCCCceeeecc-ccc-ccCC----HhhcccccceEEEEccCCEEEEeehhhhhhhcc---cccCCCCC
Confidence 34555543 34788887776221 111 1111 123578899999999999999999999988764 46788999
Q ss_pred CeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCc---cceecCCCCEEEEEEEecCCC---CcEEEEEecCc
Q psy14505 689 DFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGV---IGMRLEKKQKVIALLVSNNQK---QSVLTATENGY 762 (1619)
Q Consensus 689 D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv---~~i~L~~~e~Iv~~~~~~~~~---~~ll~~T~~G~ 762 (1619)
|+++.+..++++++|++||++|++|+|++++||.++|+++|+ ++++|++||+|+++.++.+++ .+++++|++|+
T Consensus 531 Delv~v~~~~~~d~IllfT~~Gkv~r~~~~eIp~~gr~a~Gv~Ivk~i~L~~~D~Iv~~~~v~~~~~~~~~ll~vT~~G~ 610 (738)
T TIGR01061 531 DILFAQTIANTTDQILIFTSLGNIINIPVHKLADIRWKDLGEHLSNKITFDENETIVFVGTMNEFDVDQPILVLASKLGM 610 (738)
T ss_pred CEEEEEEEecCCCEEEEEeCCCcEEEEEHHHCcCCCCCCCCcChhhcccCCCCCeEEEEEEeccccCCCcEEEEEecCCe
Confidence 999999999999999999999999999999999999999997 678999999999999987642 47999999999
Q ss_pred eeEEecccccccccccccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCce
Q psy14505 763 GKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSK 842 (1619)
Q Consensus 763 ~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~ 842 (1619)
+||+++++|... |+++|+.++++++ +|+++++..++++++++++|++|+++||++++||.+||.|+||++|+|+++|+
T Consensus 611 ~KRt~l~e~~~~-r~~kGv~~ikLk~-~d~lV~a~~v~~~d~IlliT~~G~~iRf~~~dI~~~gR~a~GV~~I~L~~~D~ 688 (738)
T TIGR01061 611 VKRIELTELNIK-RNSKATLCIKLKD-KDHLISAFLQQKDKLICLVSDLGYALVFHTNEIPVVGAKAAGVKGMKLKEDDQ 688 (738)
T ss_pred EEEeEHHHhccc-cCCCceEEEeccC-CCcEEEEEEeCCCCEEEEEECCCeEEEEEHHHCCcccccCCCeEEEEeCCCCE
Confidence 999999999977 5778999999988 68999999998888999999999999999999999999999999999999999
Q ss_pred EEEEEEeeccccccccccEEEecCCcCCCCchhHHHH
Q psy14505 843 LCGVQRLCKITMIKKYIPVITIDGPTASGKGTVAQLV 879 (1619)
Q Consensus 843 v~~~~~~~~~~~~k~~~~iIti~g~~gsGK~~~~~~l 879 (1619)
|+++..++++ ...+++|. .|.||++....+
T Consensus 689 Vv~~~~v~~~----~~ll~vTe---~G~~Kr~~~~e~ 718 (738)
T TIGR01061 689 VKSGVIFEAN----ESLVLLTQ---RGSVKRLSISEL 718 (738)
T ss_pred EEEEEEecCC----CeEEEEEC---CCceEEecHHHc
Confidence 9998888654 24556663 477787776653
No 48
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=99.95 E-value=4.6e-27 Score=306.26 Aligned_cols=254 Identities=20% Similarity=0.336 Sum_probs=213.6
Q ss_pred cccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCC--CceeeecC
Q psy14505 609 VWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKS--GIIAVNLS 686 (1619)
Q Consensus 609 v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~--G~~~~~lk 686 (1619)
..||.+.+. .+|.|+++.+.- +....+. . .+.++++++++++|++||+||+++++|..++++ |...++++
T Consensus 461 ~~EL~eikk-kfg~~RRT~I~~---~~~~~i~-~---edli~~e~~~vllS~~GyIKri~~~~~~~~~~~~~g~s~~klK 532 (800)
T TIGR01063 461 REELEEIKE-QFGDPRRTEIVY---DESEDID-I---EDLIARENVVVTLSHNGYVKRVPVSAYRLQKRGGKGVSGADMK 532 (800)
T ss_pred HHHHHHHHH-HhCCCCCceeec---ccccccc-h---hhccCcceEEEEEcCCCEEEecchhhhhhhcccCcCccccccC
Confidence 345554433 478888777621 1111111 1 135688999999999999999999999887654 67788999
Q ss_pred CCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCccc---eecCCCCEEEEEEEecCC--CCcEEEEEecC
Q psy14505 687 NEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIG---MRLEKKQKVIALLVSNNQ--KQSVLTATENG 761 (1619)
Q Consensus 687 e~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~---i~L~~~e~Iv~~~~~~~~--~~~ll~~T~~G 761 (1619)
++|.+.+++.|+++|++++||+.|++|++++++||.++|.++|+++ ++|.++|+|+++++++++ +.+++++|++|
T Consensus 533 e~D~l~~~~~~~t~d~LllfTs~Grv~~l~~~~IP~~~r~~~G~~i~~ll~L~~~E~Iv~~i~~~~~~~~~~lvliT~~G 612 (800)
T TIGR01063 533 DDDFIEQLLVASTHDYLLFFTNRGKVYWLKVYQIPEASRTAKGKPIVNLLPLQPDERITAILSVKEFDDGLYLFFATKNG 612 (800)
T ss_pred CCCeeEEEEEecCCCeEEEEeCCCcEEEEEhhhCcCCCcCCCCcCHHHhccCCCCCeEEEEEEeccCCCCCEEEEEeCCC
Confidence 9999999999999999999999999999999999999999999987 789999999999997653 45799999999
Q ss_pred ceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCc
Q psy14505 762 YGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKS 841 (1619)
Q Consensus 762 ~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d 841 (1619)
|+||+++++|...+| .|+.++++++ +|.|+++..++..++++++|++|++++|++++||+++|.++|+++|+|++||
T Consensus 613 yiKRi~l~~~~~~~r--~G~~aiklke-~D~lv~v~~~~~~d~lll~Ts~Gr~~r~~v~eIp~~gr~~~Gv~~i~L~~~E 689 (800)
T TIGR01063 613 VVKKTSLTEFSNIRS--NGIIAIKLDD-GDELISVRLTSGDDEVMLGSKNGKAVRFPEEDVRPMGRAARGVRGIKLKNED 689 (800)
T ss_pred EEEEEEhHHhhhhcc--CCcccccCCC-CCEEEEEEEeCCCCEEEEEECCCcEEEEEhhhcCCcCCCCCCeecccCCCCC
Confidence 999999999997765 5999999988 8999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEEeeccccccccccEEEecCCcCCCCchhHHHHH
Q psy14505 842 KLCGVQRLCKITMIKKYIPVITIDGPTASGKGTVAQLVA 880 (1619)
Q Consensus 842 ~v~~~~~~~~~~~~k~~~~iIti~g~~gsGK~~~~~~la 880 (1619)
+|+++..++++ ..++++| ..|.+|++....+.
T Consensus 690 ~Vv~~~~v~~~----~~ll~vT---~~G~~Kr~~l~e~~ 721 (800)
T TIGR01063 690 FVVSLLVVSEE----SYLLIVT---ENGYGKRTSIEEYR 721 (800)
T ss_pred EEEEEEEeccc----cEEEEEe---cCCcEEEEEHHHcc
Confidence 99999888653 2455566 44888888776543
No 49
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=99.94 E-value=3.8e-26 Score=293.97 Aligned_cols=193 Identities=19% Similarity=0.310 Sum_probs=177.1
Q ss_pred CCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCC
Q psy14505 647 RDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRS 726 (1619)
Q Consensus 647 ~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~ 726 (1619)
+.++++++++++|++|||||+++++|..+ +++|+++|++++++.|+++++|++||++|++|+|++++||. +|
T Consensus 502 dlI~~e~~lVllTk~GyIKR~~l~~f~~~------aikLke~D~Lv~v~~~~t~d~LllfT~~Grv~r~~~~eIP~-gr- 573 (742)
T PRK05561 502 ALIPDEPVTVVLSKKGWVRRAKGHSIDAS------GLSFKEGDSLLFAFEARTTDKLLLFTSTGRVYSLPVHELPS-AR- 573 (742)
T ss_pred hcccCcceEEEEecCCEEEeccchhhhhh------ccccCCCCeEEEEEEecCCCeEEEEECCCcEEEeEHHhCCC-cC-
Confidence 35789999999999999999999999875 68999999999999999999999999999999999999999 77
Q ss_pred CCCc---cceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCc
Q psy14505 727 ARGV---IGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYH 803 (1619)
Q Consensus 727 a~Gv---~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~ 803 (1619)
+.|+ .+++|.+||+|+++..+++ +.+++++|++|++||+++++|...+|+ |+.++++++ +|+|+++..+.+++
T Consensus 574 a~Gv~i~~~i~L~~gE~Iv~~~~~~~-~~~lllvT~~G~~KRt~lse~~~~~R~--gkg~i~Lk~-~D~Lv~a~~v~~~d 649 (742)
T PRK05561 574 GDGEPLTGLVDLAPGEEIVHVLAFDP-DQKLLLASSAGYGFVVTLEDLVARTRA--GKAVINLKD-GDEVLPPVPVEDDD 649 (742)
T ss_pred CCCcChhhhcCCCCCceEEEEEEEcC-CcEEEEEECCCcEEEEEhhhccccCCC--CeEEEEeCC-CCEEEEEEEeCCCC
Confidence 8899 7799999999999998865 457999999999999999999988775 556677765 89999999998888
Q ss_pred EEEEEECCCeEEEEecCcccccCCCCCCeEEEEcC-CCceEEEEEEeecc
Q psy14505 804 EIMLITTGGILIRTRVSEIRKMGRSTQGVILITVE-NKSKLCGVQRLCKI 852 (1619)
Q Consensus 804 ~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~-~~d~v~~~~~~~~~ 852 (1619)
+++++|++|+++||++++||.+| .|+||++|+|. ++|.|+++..+.++
T Consensus 650 ~I~liT~~G~~irf~~~eI~~~g-~a~GVk~i~L~~~~D~Vv~~~~v~~~ 698 (742)
T PRK05561 650 HLAAITSNGRLLVFPLSELPELG-KGKGVKLINLPKDDDGLVDLRVLNPE 698 (742)
T ss_pred EEEEEeCCCcEEEEEHHHCCCcC-CCcCeEEEEecCCCCEEEEEEEEcCC
Confidence 99999999999999999999999 99999999999 99999999888654
No 50
>PRK05560 DNA gyrase subunit A; Validated
Probab=99.94 E-value=2.9e-26 Score=299.48 Aligned_cols=225 Identities=24% Similarity=0.382 Sum_probs=200.7
Q ss_pred CCCCCCcEEEEEeCCceEEEeeCCCCcCCCCC--CceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccC
Q psy14505 647 RDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKS--GIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMG 724 (1619)
Q Consensus 647 ~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~--G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~ 724 (1619)
+.++++++++++|++||+||+++++|..++++ |...++++++|.+.+++.|+++++|++||+.|++|++++++||.++
T Consensus 493 dlI~~E~v~vllS~~GyIKri~~~~~~~~~~~~~g~~~~klKe~D~l~~~~~~~t~d~LllfTs~Grv~~l~v~~iP~~~ 572 (805)
T PRK05560 493 DLIPEEDVVVTLTHGGYIKRTPLDEYRAQRRGGKGVSGAKTKEDDFVEHLFVASTHDTLLFFTNRGRVYRLKVYEIPEAS 572 (805)
T ss_pred hccCCCCEEEEEeCCCEEEEcchhhhhhhcccCCCccccccCCCCeeEEEEEecCCCeEEEEecCCeEEEEEhhhCcCCC
Confidence 35788999999999999999999999886654 6788999999999999999999999999999999999999999999
Q ss_pred CCCCCccc---eecCCCCEEEEEEEecCC--CCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEe
Q psy14505 725 RSARGVIG---MRLEKKQKVIALLVSNNQ--KQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLV 799 (1619)
Q Consensus 725 r~a~Gv~~---i~L~~~e~Iv~~~~~~~~--~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~ 799 (1619)
|.++|+++ ++|.++|+|+++++++++ +..++++|++||+||+++++|...+|+ |..++++++ +|+|+++..+
T Consensus 573 ~~~~G~~i~~ll~L~~~E~Iv~~i~~~~~~~e~~lvlvTk~GyiKRi~l~~~~~~~r~--G~~~ikLke-~D~lv~v~~~ 649 (805)
T PRK05560 573 RTARGRPIVNLLPLEPGEKITAILPVREFDDDKYLFFATKNGTVKKTSLSEFSNIRSN--GIIAINLDE-GDELIGVRLT 649 (805)
T ss_pred cCCCCeEHHHhcCCCCCceEEEEEeccCCCCCCEEEEEeCCCEEEEEEhHHhhhcccC--CceeeccCC-CCEEEEEEEe
Confidence 99999987 789999999999998853 567999999999999999999987664 999999987 8999999999
Q ss_pred cCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEeeccccccccccEEEecCCcCCCCchhHHHH
Q psy14505 800 NRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLCKITMIKKYIPVITIDGPTASGKGTVAQLV 879 (1619)
Q Consensus 800 ~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~~~~~~k~~~~iIti~g~~gsGK~~~~~~l 879 (1619)
+..++++++|++|++++|++++||+++|.++|+++|+|++||+|+++..+.+++ ..++++|- .|.+|++....+
T Consensus 650 ~~~d~lll~T~~Gr~~r~~~~eIp~~gr~~~Gv~~i~L~~~E~Vv~~~~v~~~~---~~il~vTk---~G~iKr~~l~e~ 723 (805)
T PRK05560 650 DGDDDILLATKNGKAIRFPESDVRPMGRTARGVRGIKLREGDEVVSMDVVREDS---QEILTVTE---NGYGKRTPVSEY 723 (805)
T ss_pred CCCCEEEEEECCCcEEEEEhhhcCccCcccCCcccccCCCCCEEEEEEEEcCCC---cEEEEEEe---CCeEEEEEHHHh
Confidence 998999999999999999999999999999999999999999999998886531 23555663 488888877654
Q ss_pred H
Q psy14505 880 A 880 (1619)
Q Consensus 880 a 880 (1619)
.
T Consensus 724 ~ 724 (805)
T PRK05560 724 R 724 (805)
T ss_pred h
Confidence 3
No 51
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=99.93 E-value=4.9e-25 Score=280.18 Aligned_cols=230 Identities=17% Similarity=0.249 Sum_probs=185.6
Q ss_pred EEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceee
Q psy14505 604 LYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAV 683 (1619)
Q Consensus 604 v~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~ 683 (1619)
+..+...||.+.. ..+|.++++.+.-.+.+. .+ . +++.+++++++|++|++|||||+++++|... ++
T Consensus 453 ~~~~i~~el~~~~-~~~g~~RRt~i~~~~~~~--~~-~---~~~~i~~e~v~VilTk~G~IKr~~~~~~~~s------ai 519 (735)
T TIGR01062 453 LNQLVKKEIQADA-TKYGLARRSSLEEREEAK--QV-S---EIDMIPKEPVTIILSKMGWVRSAKGHDIDLS------TL 519 (735)
T ss_pred HHHHHHHHHHHHH-HHhCCCCCeeeecccccc--cc-c---hhhcccCcceEEEEecCCEEEeccccccchh------cc
Confidence 3333444554443 236667666652111111 11 1 1245789999999999999999999998653 68
Q ss_pred ecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCC-ccc-eecCCCCEEEEEEEecCCCCcEEEEEecC
Q psy14505 684 NLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARG-VIG-MRLEKKQKVIALLVSNNQKQSVLTATENG 761 (1619)
Q Consensus 684 ~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~G-v~~-i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G 761 (1619)
+++++|.+++++.|+++++|++||++|++|+|++++|| ++|++.| +.. ++|.+||+|++++++++ +++++++|++|
T Consensus 520 kLKegD~L~~~~~~~t~d~LllfTs~Gr~yrf~v~eIP-~GR~aGgpV~~~L~L~~gE~Iv~~~~v~~-~~~lLlaT~~G 597 (735)
T TIGR01062 520 KYKAGDSEKAIIEGKSNQKVVFIDSTGRSYALDPDNLP-SARGQGEPLTGKLLLPIGATITNILMYSP-NQLLLMASDAG 597 (735)
T ss_pred CcCCCCeEEEEEEecCCCEEEEEECCCeEEEEEhHhcC-cCccCCceeEeeecCCCCCEEEEEEEecC-CcEEEEEEcCC
Confidence 99999999999999999999999999999999999998 4777666 444 67899999999999976 45799999999
Q ss_pred ceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCc-EEEEEECCCeEEEEecCcccccCCCCCCeEEEEcC--
Q psy14505 762 YGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYH-EIMLITTGGILIRTRVSEIRKMGRSTQGVILITVE-- 838 (1619)
Q Consensus 762 ~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~-~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~-- 838 (1619)
++||+++++|...+|+ |+.++++++ +|+++++..+++++ .++++|++|++++|++++||.++| ++||++|+|+
T Consensus 598 yGKrt~lse~~~~~Ra--GKgvi~Lk~-~d~lv~v~~v~~~dd~V~liT~~GrlLrf~v~EIp~~gR-gkGVkli~L~~~ 673 (735)
T TIGR01062 598 YGFLCNFNDLIARNKA--GKALINLPE-NASVIAPLPVNGDSDMIAAITEAGRMLVFPIDDLPELSK-GKGNKLIRIPSA 673 (735)
T ss_pred cEEEEEhHhccccCcC--CeEEEEeCC-CCEEEEEEEEcCCCCEEEEEeCCCcEEEEEHHHCCccCC-CCCeEEEEcCcc
Confidence 9999999999988886 445566665 78999988888765 699999999999999999999999 9999999995
Q ss_pred ----CCceEEEEEEeecc
Q psy14505 839 ----NKSKLCGVQRLCKI 852 (1619)
Q Consensus 839 ----~~d~v~~~~~~~~~ 852 (1619)
.+|.++++..++..
T Consensus 674 ~~~~~~~~~~~~~~~~~~ 691 (735)
T TIGR01062 674 NAKRGEDGLLDLKIFNKQ 691 (735)
T ss_pred cccCCCceEEEEEEEcCC
Confidence 56779988888765
No 52
>COG0188 GyrA Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit [DNA replication, recombination, and repair]
Probab=99.91 E-value=2.9e-24 Score=272.30 Aligned_cols=259 Identities=23% Similarity=0.342 Sum_probs=211.9
Q ss_pred EeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCC
Q psy14505 598 FSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRK 677 (1619)
Q Consensus 598 fT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r 677 (1619)
+.+..+.+.+..++|-+..+ .+|.++++-+...+.+ .+ +.++.++++++++.+|+.||+||++.+.|..++
T Consensus 457 L~s~~~~~~~i~~eL~~~~~-k~gd~Rrt~i~~~~~~---~~----~~edli~~e~vvv~ls~~gyikr~~~~~~~~q~- 527 (804)
T COG0188 457 LASEERLLDIIKKELLEIKK-KFGDERRTEIVEEEED---EI----EDEDLIAEEDVVVTLSHKGYIKRVPLKGYEAQR- 527 (804)
T ss_pred hcCHHHHHHHHHHHHHHHHH-HhCccceeeccccccc---cc----chhhhccccceEEEEcccceEEecchhhhhhhh-
Confidence 34444455555556655433 3666655544221111 11 112356789999999999999999999999886
Q ss_pred CCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCccc---eecCCCCEEEEEEEecCCCCcE
Q psy14505 678 SGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIG---MRLEKKQKVIALLVSNNQKQSV 754 (1619)
Q Consensus 678 ~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~---i~L~~~e~Iv~~~~~~~~~~~l 754 (1619)
...+.++++|.+...+.++++|.+++||+.|++|+++++++|..+|++.|.++ +.+.++|+|..+...++ +.++
T Consensus 528 --~~~~~~ke~d~~~~~~~~~t~d~ll~ft~~G~~y~~~~~~lp~~~~~~~G~~i~~ll~~~~~E~i~~v~~~~~-~~~l 604 (804)
T COG0188 528 --VSGLGLKEGDFLERLFEANTHDTLLFFTSKGRVYKLKVYELPEGSRRSRGEPIVNLLSLEKGEKITAVLPVND-DQYL 604 (804)
T ss_pred --hhhccccccchhhheeeecccceEEEEcCCCcEEEecceeccccccccCChhhhhhccCCCCceEEEEEEcCC-ceeE
Confidence 45678899999999999999999999999999999999999999999999776 55778899999999885 6789
Q ss_pred EEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEec-CCcEEEEEECCCeEEEEecCcccccCCCCCCeE
Q psy14505 755 LTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVN-RYHEIMLITTGGILIRTRVSEIRKMGRSTQGVI 833 (1619)
Q Consensus 755 l~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~-~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~ 833 (1619)
+++|++|++|++++++|...++ +|+.+++|++ +|.++++..+. ++++++++|++|+++||+.+++|+|||+|+||+
T Consensus 605 ~~~T~~G~vK~~~l~~f~~~~~--~g~~ai~L~~-~d~l~~~~~~~~~~~~i~~~t~~G~~~~F~~~~v~~~gr~a~Gv~ 681 (804)
T COG0188 605 FLATKKGYVKKTSLSEFKNIRS--KGKIAIKLKE-GDELVSVSLTSDGDDDILLVTSNGKALRFPESEVREMGRGAKGVK 681 (804)
T ss_pred EEEecCCcEEEeehhhhhcccc--CCeeEEEcCC-CcceeeeeeccCCCceEEEEecCCeEEEeehhhcccccccccCcc
Confidence 9999999999999999997755 7999999995 89999998877 688999999999999999999999999999999
Q ss_pred EEEcCCCceEEEEEEeeccccccccccEEEecCCcCCCCchhHH
Q psy14505 834 LITVENKSKLCGVQRLCKITMIKKYIPVITIDGPTASGKGTVAQ 877 (1619)
Q Consensus 834 ~i~L~~~d~v~~~~~~~~~~~~k~~~~iIti~g~~gsGK~~~~~ 877 (1619)
+|+|+++|.++++..+.++. ...+.+| ..|.||++...
T Consensus 682 ~i~l~~~d~~~~~~~~~~~~---~~~l~~t---~~g~~kr~~~~ 719 (804)
T COG0188 682 GIKLKEGDKVVSLSVVEDDE---AKLLTVT---ERGYGKRTKIS 719 (804)
T ss_pred eeecCccCeeeeeeeccCCc---eeEEEEe---ccCceeccchh
Confidence 99999999999999887652 1355666 44888877765
No 53
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=99.91 E-value=4.2e-24 Score=217.07 Aligned_cols=169 Identities=29% Similarity=0.359 Sum_probs=147.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++||++|++|||++|+++.||+.+|++|+++|.+||.+|. +.|++..+..+
T Consensus 1 m~ItIsG~pGsG~TTva~~lAe~~gl~~vsaG~iFR~~A~---e~gmsl~ef~~-------------------------- 51 (179)
T COG1102 1 MVITISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMAR---ERGMSLEEFSR-------------------------- 51 (179)
T ss_pred CEEEeccCCCCChhHHHHHHHHHhCCceeeccHHHHHHHH---HcCCCHHHHHH--------------------------
Confidence 4799999999999999999999999999999999998876 99998654433
Q ss_pred ccccccccccccccc-ccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCC
Q psy14505 940 LIRNEKVSNNASKIA-KFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFS 1018 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a-~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~ 1018 (1619)
+| .+|++...+.+.|+++|++++||++||.+||++.+.|++||||.|++++||+| ++++.+
T Consensus 52 -------------~AE~~p~iD~~iD~rq~e~a~~~nvVlegrLA~Wi~k~~adlkI~L~Apl~vRa~R-----ia~REg 113 (179)
T COG1102 52 -------------YAEEDPEIDKEIDRRQKELAKEGNVVLEGRLAGWIVREYADLKIWLKAPLEVRAER-----IAKREG 113 (179)
T ss_pred -------------HHhcCchhhHHHHHHHHHHHHcCCeEEhhhhHHHHhccccceEEEEeCcHHHHHHH-----HHHhcC
Confidence 34 67899999999999999999999999999999999999999999999999999 777788
Q ss_pred CCHHHHHHHHHhhhhhcccCC-----CCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1019 VSMSDLLINLIKRDIRDKTRN-----LSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1019 ~~~~~~~~~i~~rD~~d~~r~-----~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
.+++++++++..|++.++.|. +..=+-.-++++|||+.+++++|+..+...+..+..
T Consensus 114 i~~~~a~~~~~~RE~se~kRY~~~YgIDidDlSiyDLVinTs~~~~~~v~~il~~aid~~~~ 175 (179)
T COG1102 114 IDVDEALAETVEREESEKKRYKKIYGIDIDDLSIYDLVINTSKWDPEEVFLILLDAIDALSI 175 (179)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhCCCCccceeeEEEEecccCCHHHHHHHHHHHHHhhcc
Confidence 999999999999999999993 222222334699999999999999999877665443
No 54
>KOG0355|consensus
Probab=99.85 E-value=1.2e-26 Score=284.04 Aligned_cols=743 Identities=10% Similarity=-0.032 Sum_probs=496.2
Q ss_pred cceeccHHHHHHHHHHhhhhhhhccccCCCCccCCCcchhHHHHHHHhcCCCCCCCceeEEEehhhhccCcCCCCcchHH
Q psy14505 7 EVISILLEEEMCKSYLDYAMSVIVGRALPDVRDGLKPVHRRVLFAMHEMNNLWNRPFVKCARVVGETMGKYHPHGDVSIY 86 (1619)
Q Consensus 7 ~~~~~~~~~~~~~~~~~ya~~~i~~Ralp~~~DGlKp~qRril~~~~~~~~~~~~~~~K~a~~~g~v~~~yhphgd~s~~ 86 (1619)
+.+++.|..|-...++-|+-+.|--|+.|...++++|.++++|++|++.+.+..|.+.+++...+.+.+.||||++...|
T Consensus 75 ~~i~v~i~~e~~~isv~nnGkGIPv~~H~~ek~yvpelifg~Lltssny~d~ekK~tggrngygakLcniFs~~f~~Et~ 154 (842)
T KOG0355|consen 75 NTIKVTIDKEKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFTVETA 154 (842)
T ss_pred ceeEEEEccCCCEEEEEeCCCcceeeecccccccchHHHHhhhhhccccCCCccccccCCCccceeeeeeccccceeeee
Confidence 67788888888888999999999999999999999999999999999999988889999999999999999999999999
Q ss_pred HHHHHHhhcCccccccccCCCCCCCCCCCcccccccccccccHHHHH-hhccCCCCccccccCCCCCcCCcceecCCCce
Q psy14505 87 DALVRMAQSFSLRCTLVDGQGNFGSIDGDSAAAMRYTECRLNKISNE-LLIDLDKETIDFISNYDGKEKEPSVLPTRIPN 165 (1619)
Q Consensus 87 ~~~v~maq~~~~~~pl~~~~GnfGs~~g~~~aa~RY~~~~ls~~~~~-~~~~~d~~~~~~~~n~d~~~~eP~~~~~~~P~ 165 (1619)
+..++||+-++-..|+..++++|++..-+++ ||+++++|-... .+.++|+++|+++.+++-...+|. .+..+|.
T Consensus 155 d~~~~~~~kQ~w~~nm~~~~~~~i~~~~~~~----yTkitF~PDl~~F~m~eLD~Div~l~~rr~~d~a~~~-~~vkv~l 229 (842)
T KOG0355|consen 155 DREYKMAFKQTWINNMTRDEEPKIVPSTDED----YTKITFSPDLEKFKMKELDDDIVALMARRAYDLAGSV-KSVKVEL 229 (842)
T ss_pred ehHhHHHHHHhhhcCCcccCCceeecCCCCC----cceEEeCcChHhcCchhhcchHHHhHHhhhhhhcccc-cceeeee
Confidence 9999999998888899999999999976666 999999999888 578999999999999999999999 9999999
Q ss_pred eeecCCcceeeeeecCCCCCChHHHHHHHHHHhcCCCCChHHHhccCCCCCCCCceEEeccccccccceecccEEEEeEE
Q psy14505 166 LLINGSSGIAVGMATNIPPHNLTEVIDGVLYVLHNPECSINDLIKIIPAPDFPTAGIIYGLSSVHDGYYTGKGRVIIRAK 245 (1619)
Q Consensus 166 ~L~ng~~Gia~G~at~ip~~n~~ev~~~~~~~l~~~~~~~~~l~~~~~~p~~p~g~~i~~~~~~~~~y~~g~G~~~~~~~ 245 (1619)
.+-|++.+++++|++.+|| |+ -.+.....|.++.-+--|+.-..+-+.|++ +..........+-|..+.+.-+.+
T Consensus 230 n~~~~~~~~f~~yv~~~~~-~~--~~~~~~~~ihe~~~~RwEv~~a~s~~~fqq--isfvNsI~T~kGGThVd~V~D~iv 304 (842)
T KOG0355|consen 230 NGKNIPVKGFYDYVKMYLE-VL--WLNDDLKPLHEVLNFRWEVALALSDVGFQQ--VSFVNSIATTKGGTHVDYVVDQIV 304 (842)
T ss_pred cCCCCccchHHHHHhhccc-cc--cccCcchhhhcccchHHHHhhhccccccce--eeeecceeecCCCcccchhhhhHH
Confidence 9999999999999999999 66 444455667777777777888888899998 112211111122233333333333
Q ss_pred EEEEEeccCCccEEEEEecCCcccHHHHHHHHHHHHhccCcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhhcc
Q psy14505 246 THIEEFNRENRTAIIIDELPYQVNKKSLLEKISQLVKEKKLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQTQ 325 (1619)
Q Consensus 246 ~~~~~~~~~~~~~i~itelP~~~~~~~~~~~i~~~~~~~~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~t~ 325 (1619)
-+++..-++ ++.-.++++|+...++-+.-.+..++++....+.+.-+..+...+.....++++.......... +-.+-
T Consensus 305 ~~l~~vvkK-k~~~~~~svk~f~vkn~L~vfVN~lIENPtFesQTke~lt~~~~~fgs~~elsek~~k~~~~~~-i~esi 382 (842)
T KOG0355|consen 305 AKLIDVVKK-KKVKKDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKRFGSDCELSEKFTKAIELKG-VVESI 382 (842)
T ss_pred HHHHHHhcc-cccccccccchhhhhcceEEEEEEEecCccccccchhhcccccccccceEeehhHHHHHHHhCc-hHHHH
Confidence 333322111 1111467888888888888888888888888888888888888888888888887776555444 34445
Q ss_pred cccceeeeEEEEECCeeeeeCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHcCCCHHH
Q psy14505 326 LQNTFGMNMLALVNGQPKLLNLKEILYYFILHRKEVIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRSTSTPQE 405 (1619)
Q Consensus 326 l~~~~~~n~~~~~~~~p~~~~l~~il~~f~~~R~~~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~s~~~~~ 405 (1619)
++.+++.++..+..+.++.++..+-+..+.+.+..... +...-..-++++-+..++-+-.+...+..+--| .=
T Consensus 383 ls~s~~~~~~dL~kk~~~~~s~~e~I~KleDa~~ag~k-~s~kctlIltEgdsaksLavsGl~vvgRd~~gV------fp 455 (842)
T KOG0355|consen 383 LSKSLNKYKDDLAKKRGKLTSRSKGIPKLEDANDAGTK-TSEKCTLILTEGDSAKSLAVSGLSVVGRDYYGV------FP 455 (842)
T ss_pred HHHHHHHHHHhhhhhhhhhhccccchhHhhhccccccc-ccccceeEEeccccchhheecccccccceeEee------cc
Confidence 67777888888888888777888888888888887777 443333334444443333222222222211000 00
Q ss_pred HHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHH
Q psy14505 406 AKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKK 485 (1619)
Q Consensus 406 a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~ 485 (1619)
++-.|... + ..+.+..+...|+++|+.+-+.++++.+ ...|--.+-+.
T Consensus 456 lrgklLNv-------~----------------------e~s~kqilkn~EI~aIikIlgl~~~~~y---~~~eslryg~~ 503 (842)
T KOG0355|consen 456 LRGKLLNV-------R----------------------EASHKQILKNAEINAIIKILGLQYKKKY---FDVESLRYGKL 503 (842)
T ss_pred cccchhhh-------H----------------------HHHHHHHHHHHHHHHHHHHHHHHHhhhh---ccccccchhhe
Confidence 00000000 0 0011144566677777777666666655 11111111122
Q ss_pred HHHHHHHhcCHHHHHHHHHHHHH-HHHHHhCCCCCCCCccccccccCC-CCccccccCcceEEEEccCccEEeccCchhh
Q psy14505 486 VIDLTDILSNSKRIIEIITDELN-IIKNKYGSHKKNIRRSEIILNAIN-PSTEDLIASQDMVITLSNLGYIKSQPISEYR 563 (1619)
Q Consensus 486 i~~l~~iL~~~~~~~~~i~~el~-~ik~~f~~~~~~~RrT~I~~~~~~-~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~ 563 (1619)
+.-..+. -|=..+..++++.+. ....-|.- | =|++.... +-...-.+++. ..|-.+|.|++....+
T Consensus 504 mimtDQd-~dgshikgllInf~~~~~psl~~~----~---fleefitpi~k~~~~~~~~~---fys~pey~kw~~~~~~- 571 (842)
T KOG0355|consen 504 MIMTDQD-HDGSHIKGLLINFIHHFWPSLLQI----P---FLEEFITPIVKATKGKQEVS---FYSLPEYEKWKKNTDN- 571 (842)
T ss_pred Eeeeccc-cccchHHHHHHHHHHHhhHHhhcC----C---cceecCCcceEeccCCccee---eeccHHHHHHHhcCcc-
Confidence 2211221 122233333333332 23333333 2 22222211 12222233333 7888999999988876
Q ss_pred hcccCCCCccccccCCCCeEEEEEEeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecC
Q psy14505 564 AQKRGGRGKKAMMTKDEDWINQLFIANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLS 643 (1619)
Q Consensus 564 ~~~r~g~g~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~ 643 (1619)
.+.++-++..+.++.-.|.....+.|..|++++|+.+.|..+......+|..++.+.+.++++..+...+ +.+..+++
T Consensus 572 ~~~~~ikyykglgts~~~e~keyf~~~~~h~~~F~~~~~~d~~~i~~af~k~k~~~rk~wL~~~~~~~~~-~~~~~v~~- 649 (842)
T KOG0355|consen 572 WKSWKIKYYKGLGTSTSKEAKEYFSDLDRHRILFKYDGGIDDEAIDMAFSKKKIDARKEWLRKYMPEYLY-KTTKFVTI- 649 (842)
T ss_pred ccccceEEeecCCcccHHHHHHHhcCcchheEEEeccCcchHHHHhhhcccccHHHHHHHHHHHhHHhcc-cccceeEH-
Confidence 4445556677778888888888999999999999999999999999999999999999999999886556 78888887
Q ss_pred CCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEeccccccc
Q psy14505 644 NNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAM 723 (1619)
Q Consensus 644 ~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~ 723 (1619)
++|. .+++++.+.+ -|+.+...-+..|++-+..+++..+++++..+..|...+.+-.....++++.-.+--+...
T Consensus 650 ---sdf~-~elilf~~~~-sIp~~~dglkpgqRkv~~~~~k~n~~~E~Kv~ql~g~v~~~s~yhhge~sl~~ti~~l~q~ 724 (842)
T KOG0355|consen 650 ---SDFV-KELILFSNAD-SIPSLVDGLKPGQRKVLFTCFKRNDKREVKVAQLAGSVAEMSAYHHGEQSLMSTIVNLAQD 724 (842)
T ss_pred ---HHHH-HHHHHHHhcc-ccHhHHhccCccchhhhhhhhhhcCCCceeEeeecchHHHHHHhhcccHhHHHHHHHHHHh
Confidence 4555 6677888888 6666665556666666888999999999999999887666555555555443333222221
Q ss_pred CCC--CCCccce--ecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEE---
Q psy14505 724 GRS--ARGVIGM--RLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAA--- 796 (1619)
Q Consensus 724 ~r~--a~Gv~~i--~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~--- 796 (1619)
.++ |.--+-| .|.+=-+ +..++ .++.++...+|+++|++.+ |.... -|.|-. +.+=++-
T Consensus 725 ~~gkdaa~~ryi~t~l~~~tr----~~f~~-~dd~ll~~~~~~~~~vep~-y~pi~-------p~vlvn-gaegiGtGws 790 (842)
T KOG0355|consen 725 FVGKDAASARYIFTKLSPLTR----LLFPP-ADDLLLKYLNEDGQRVEPE-YCPII-------PMVLVN-GAEGIGTGWS 790 (842)
T ss_pred hcCCcchhhHHHHHhcChhhh----hcCCC-CchhHhhhhccCCcCcCcc-cccce-------eEEEee-ccccccCCcc
Confidence 111 1000111 1211111 11222 4567888899999999998 87542 222222 1111111
Q ss_pred -EEe-cCCcEEEEEECCCeEEEEecCcccccCCCCCCeEE
Q psy14505 797 -TLV-NRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVIL 834 (1619)
Q Consensus 797 -~~~-~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~ 834 (1619)
++. -...+|+.....+..-+ +..++.+..|+.+|..-
T Consensus 791 ~~i~n~n~~~iv~~~r~~~~~~-~~~~~~p~yr~frg~i~ 829 (842)
T KOG0355|consen 791 TFIPNYNPREIVKNIRRLINGE-PPKAMAPWYRNFRGTIE 829 (842)
T ss_pred ccCCCCCHHHHHHHHHHhhcCC-CcccCCchhhhcceEEE
Confidence 111 12334554444444444 67788888888888543
No 55
>PF13189 Cytidylate_kin2: Cytidylate kinase-like family; PDB: 3FDI_A.
Probab=99.71 E-value=5.5e-18 Score=185.41 Aligned_cols=170 Identities=21% Similarity=0.212 Sum_probs=109.3
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHH-cccce-ecCceEEeCCcccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIK-KLNYN-FLGKEVYLNGVNVT 938 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~v~ 938 (1619)
+|||+|+.|||++++++.||++|||+|||..++.+ +|.+.|++++..+.+++... +..+. +.. ..+.
T Consensus 1 IITIsr~~Gsgg~~Ia~~LA~~Lg~~~~d~~ii~~----~a~~~~~~~~~~~~~~e~~~~~~~~~~~~~-~~~~------ 69 (179)
T PF13189_consen 1 IITISRQYGSGGREIAERLAEKLGYPYYDREIIEE----AAKESGISEEEFEEFDEKKPFNSFLYDFFR-GMFP------ 69 (179)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHCT--EE-HHHHHH----CT------------SS-HHH--HH---HHS-----------
T ss_pred CEEECCCCCCChHHHHHHHHHHcCCccCCHHHHHH----HHHHccCCHHHHHHHhccccCcchhhhhhc-cccc------
Confidence 68999999999999999999999999999977777 77799998877666655544 11111 110 0000
Q ss_pred ccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCC--eEEEEEcCHHHHHHhchHHHHhcC
Q psy14505 939 TLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAF--LKIFLTADIKQRTKRRYKQLMQKG 1016 (1619)
Q Consensus 939 ~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~--~kifl~A~~e~Ra~Rr~~~l~~~~ 1016 (1619)
...........++..+.++++++|++++||++|| ||.+++.+.+ ++|||+||.+.|++| +++.
T Consensus 70 ---------~~~~~~~~~~~~~~~~~~~i~~la~~~~~Vi~GR-~a~~il~~~~~~l~V~i~A~~~~Rv~r-----i~~~ 134 (179)
T PF13189_consen 70 ---------GSFEDHPDDDKIFRAQSEIIRELAAKGNCVIVGR-CANYILRDIPNVLHVFIYAPLEFRVER-----IMER 134 (179)
T ss_dssp -------------------HHHHHHHHHHHHHHH---EEEEST-THHHHTTT-TTEEEEEEEE-HHHHHHH-----HHHH
T ss_pred ---------cccccccHHHHHHHHHHHHHHHHhccCCEEEEec-CHhhhhCCCCCeEEEEEECCHHHHHHH-----HHHH
Confidence 0000235667889999999999999999999999 7888888865 999999999999999 6666
Q ss_pred CCCCHHHHHHHHHhhhhhcccC-----CCCCCCCCCCceEEccCc
Q psy14505 1017 FSVSMSDLLINLIKRDIRDKTR-----NLSPLKCPEQAHLLNTSK 1056 (1619)
Q Consensus 1017 ~~~~~~~~~~~i~~rD~~d~~r-----~~~~l~~~~dal~Idts~ 1056 (1619)
++++.+++.+.|++.|+.+..+ ...|.++..++++||||.
T Consensus 135 ~~~s~~~A~~~i~~~D~~R~~~~~~~~~~~~~d~~~YDLvint~k 179 (179)
T PF13189_consen 135 EGISEEEAEKLIKKEDKRRRAYYKYYTGIDWGDPSNYDLVINTSK 179 (179)
T ss_dssp HT--HHHHHHHHHHHHHHHHHHHHHH-SS-TTBGGG-SEEEEES-
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchhceEEEeCcC
Confidence 7889999999999999998877 577888888999999984
No 56
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=99.66 E-value=4.2e-16 Score=164.97 Aligned_cols=147 Identities=51% Similarity=0.768 Sum_probs=123.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
+|++.|++|+||++.++.||+++|++|+|.|.+.. + .+...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~~~~~~~~~~i~~-------------e---~~~~~----------------------- 41 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTGGIRT-------------E---EVGKL----------------------- 41 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCceeccccCCH-------------H---HHHHH-----------------------
Confidence 47889999999999999999999999999883322 0 11000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVS 1020 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~ 1020 (1619)
.+..+..+.++..+.+.+.+++..++||++||++++.++|.+++.|||+||++.|++|+.++....+.+.+
T Consensus 42 ---------~~~~~~~~~i~~~l~~~~~~~~~~~~~Vidg~~~~~~~~~~~~~~i~l~~~~~~r~~R~~~r~~~~~~~~~ 112 (147)
T cd02020 42 ---------ASEVAAIPEVRKALDERQRELAKKPGIVLEGRDIGTVVFPDADLKIFLTASPEVRAKRRAKQLQAKGEGVD 112 (147)
T ss_pred ---------HHHhcccHhHHHHHHHHHHHHhhCCCEEEEeeeeeeEEcCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCC
Confidence 11233456788888999999988889999999888988899999999999999999998887655467789
Q ss_pred HHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccC
Q psy14505 1021 MSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTS 1055 (1619)
Q Consensus 1021 ~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts 1055 (1619)
.+++.+.+++||+.+..|...||+...+++||||+
T Consensus 113 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~dl~i~~~ 147 (147)
T cd02020 113 LEEILAEIIERDERDSTRYVAPLKLAEDAIVIDTS 147 (147)
T ss_pred HHHHHHHHHHHHHHhhhcccccccCCCCcEEEeCc
Confidence 99999999999999988899999999999999996
No 57
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=99.65 E-value=1.3e-15 Score=165.62 Aligned_cols=164 Identities=28% Similarity=0.354 Sum_probs=126.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|++.|++||||+++++.+++++|++|+|+|.+++.++. +.|+++......
T Consensus 1 ~iI~i~G~~GSGKstia~~la~~lg~~~~~~~~~~~~~~~---~~g~~~~~~~~~------------------------- 52 (171)
T TIGR02173 1 MIITISGPPGSGKTTVAKILAEKLSLKLISAGDIFRELAA---KMGLDLIEFLNY------------------------- 52 (171)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHcCCceecHHHHHHHHHH---HcCCCHHHHHHH-------------------------
Confidence 3689999999999999999999999999999998886543 556543211100
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhh-cCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCC
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFR-KFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFS 1018 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a-~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~ 1018 (1619)
....|.+...+.+.+.+++ ..++||++||+.++.+-+..+++|||+||++.|++| .+.+.+
T Consensus 53 -------------~~~~~~~~~~~~~~i~~~~~~~~~~Vi~g~~~~~~~~~~~d~~v~v~a~~~~r~~R-----~~~R~~ 114 (171)
T TIGR02173 53 -------------AEENPEIDKKIDRRIHEIALKEKNVVLESRLAGWIVREYADVKIWLKAPLEVRARR-----IAKREG 114 (171)
T ss_pred -------------HhcCcHHHHHHHHHHHHHHhcCCCEEEEecccceeecCCcCEEEEEECCHHHHHHH-----HHHccC
Confidence 0112234555556667776 667899999977776655567999999999999999 444456
Q ss_pred CCHHHHHHHHHhhhhhcccC-----CCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1019 VSMSDLLINLIKRDIRDKTR-----NLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1019 ~~~~~~~~~i~~rD~~d~~r-----~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
.+.+++.+.+.++|..+..| ...+.++..++++||||.+++|+ ++.|.+++
T Consensus 115 ~s~~~a~~~~~~~d~~~~~~~~~~~~~~~~~~~~ydl~i~t~~~~~~~-~~~i~~~~ 170 (171)
T TIGR02173 115 KSLTVARSETIEREESEKRRYLKFYGIDIDDLSIYDLVINTSNWDPNN-VDIILDAL 170 (171)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhCCCccccccccEEEECCCCCHHH-HHHHHHHh
Confidence 79999999999999888776 34455567778999999999999 99998764
No 58
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=99.64 E-value=1.8e-17 Score=190.86 Aligned_cols=148 Identities=20% Similarity=0.328 Sum_probs=130.5
Q ss_pred ccc-cceeEEEEEEEEcCCeEEEEEc--CCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1338 RYP-RGTRLLGKVTNLTDYGAFVEIE--KGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1338 ~l~-~G~iv~g~V~~v~~~G~fV~l~--~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
+++ +|++|.|+|+++.++|+||+|. +|++||||+|++|| .++.+|.+.+++||+|.|+|+.+|+++++|.||+|++
T Consensus 13 ~~P~~GdvV~g~V~~I~d~GafV~L~EY~gvEGlIhiSElS~-~ri~~i~d~vkvGd~v~vkVl~VD~ekg~IdLS~K~v 91 (319)
T PTZ00248 13 KFPEEDDLVMVKVVRITEMGAYVSLLEYDDIEGMILMSELSK-RRIRSINKLIRVGRHEVVVVLRVDKEKGYIDLSKKRV 91 (319)
T ss_pred hCCCCCCEEEEEEEEEeCCeEEEEecCCCCcEEEEEHHHhcc-cccCCHHHhcCCCCEEEEEEEEEeCCCCEEEEEeeec
Confidence 566 8999999999999999999996 69999999999999 7789999999999999999999999999999999999
Q ss_pred cCCCCcccccccccceEEEEEEEEEec-ceEEEe------eCCCeEEEEeCCCCCCCCCccccccCCC---CCCEEEEEE
Q psy14505 1415 KDNPWENFSIIHKKGEKIKGIIKSITD-FGIFIG------LDGNIDGLIHLSDLSWTDPGEEIIRNFK---KGDEIEAII 1484 (1619)
Q Consensus 1415 ~~~~~~~~~~~~~vG~~v~G~V~~i~~-~GvfV~------~~~~v~Glv~~sels~~~~~~~~~~~f~---vGq~V~~~V 1484 (1619)
..+||..+...|+.|++++|+|.++.. +|+|++ ..+.+.++.|..+.+ ...+.++.+.|. +++.++..+
T Consensus 92 ~~~pw~~~~e~~~~g~~v~~~V~~ia~~~g~~~eely~~i~~pl~~~~gh~y~af-~~~v~~~~evl~~l~i~~ev~~~l 170 (319)
T PTZ00248 92 SPEDIEACEEKFSKSKKVHSIMRHIAQKHGMSVEELYTKIIWPLYKKYGHALDAL-KEALTNPDNVFEGLDIPEEVKESL 170 (319)
T ss_pred ccchHHHHHHhCcCCCEEEEEEEEchhhcCCCHHHHHHHHHHHHHHhcCCHHHHH-HHHhcCchhhhccCCCCHHHHHHH
Confidence 999999999999999999999999954 999998 567899999988887 344455554555 787776666
Q ss_pred EEe
Q psy14505 1485 LSI 1487 (1619)
Q Consensus 1485 l~v 1487 (1619)
+.+
T Consensus 171 ~~~ 173 (319)
T PTZ00248 171 LQD 173 (319)
T ss_pred HHH
Confidence 543
No 59
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=99.58 E-value=1.4e-15 Score=175.35 Aligned_cols=127 Identities=20% Similarity=0.300 Sum_probs=114.8
Q ss_pred cccccc-cceEEEEEEEEEecceEEEeeC--CCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1422 FSIIHK-KGEKIKGIIKSITDFGIFIGLD--GNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1422 ~~~~~~-vG~~v~G~V~~i~~~GvfV~~~--~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
+...|+ +|++|.|+|++|++||+||.+. +|+.||||.|++|| ..+.++.+.+++||.|.|+|++||+++++|.||+
T Consensus 10 ~~~~~P~~GdvV~g~V~~I~d~GafV~L~EY~gvEGlIhiSElS~-~ri~~i~d~vkvGd~v~vkVl~VD~ekg~IdLS~ 88 (319)
T PTZ00248 10 YEQKFPEEDDLVMVKVVRITEMGAYVSLLEYDDIEGMILMSELSK-RRIRSINKLIRVGRHEVVVVLRVDKEKGYIDLSK 88 (319)
T ss_pred hhhhCCCCCCEEEEEEEEEeCCeEEEEecCCCCcEEEEEHHHhcc-cccCCHHHhcCCCCEEEEEEEEEeCCCCEEEEEe
Confidence 345566 7999999999999999999996 69999999999998 6779999999999999999999999999999999
Q ss_pred ecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEE------ecCCeEEEEEcccc
Q psy14505 1499 KQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQ------LSNEVEGYLRISEE 1549 (1619)
Q Consensus 1499 K~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~------l~~gv~G~i~~~~~ 1549 (1619)
|+..++||......++.|+.++|+|.++.+++|++++ ....+.+|.|..+.
T Consensus 89 K~v~~~pw~~~~e~~~~g~~v~~~V~~ia~~~g~~~eely~~i~~pl~~~~gh~y~a 145 (319)
T PTZ00248 89 KRVSPEDIEACEEKFSKSKKVHSIMRHIAQKHGMSVEELYTKIIWPLYKKYGHALDA 145 (319)
T ss_pred eecccchHHHHHHhCcCCCEEEEEEEEchhhcCCCHHHHHHHHHHHHHHhcCCHHHH
Confidence 9999999999999999999999999999656999987 34467888887654
No 60
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=99.57 E-value=2e-13 Score=149.76 Aligned_cols=211 Identities=19% Similarity=0.267 Sum_probs=170.3
Q ss_pred cCCCcEEEEEEEEEecCeEEEEeCC--EEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccCC
Q psy14505 1254 LKEGCTVKGVVKNITDYGAFIDLGG--IDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGIDP 1331 (1619)
Q Consensus 1254 l~~G~iv~g~V~~v~~~G~~V~l~g--i~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~ 1331 (1619)
..+|++.+..|.+..++|+|++-++ -+-++|.++... ...++|++|++. +++|.+ +++.+|.+..
T Consensus 3 ~~iG~~~~l~V~~~~~~g~fL~~~~~~~~ilL~k~~~~~-------~e~evGdev~vF-iY~D~~-~rl~aTt~~p---- 69 (287)
T COG2996 3 IKIGQINSLEVVEFSDFGYFLDAGEDGTTILLPKSEPEE-------DELEVGDEVTVF-IYVDSE-DRLIATTREP---- 69 (287)
T ss_pred ccccceEEEEEEEeeceeEEEecCCCceEEeccccCCcC-------CccccCcEEEEE-EEECCC-Cceeheeecc----
Confidence 5789999999999999999999873 478888776532 236799999995 678854 6677777654
Q ss_pred ccccccccccceeEEEEEEEEc-CCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1332 WIGLSFRYPRGTRLLGKVTNLT-DYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1332 ~~~~~~~l~~G~iv~g~V~~v~-~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
...+|+.-.++|+.+. +-|+||+++-.-+-+||.+++.. .++-.+++|+.+-|.+ .+|..+ ||.-+
T Consensus 70 ------~~tvg~~g~~~Vv~v~~~lGaFlD~Gl~KDl~vp~~elp~-----~~~~wpq~Gd~l~v~l-~~Dkk~-Ri~g~ 136 (287)
T COG2996 70 ------KATVGEYGWLKVVEVNKDLGAFLDWGLPKDLLVPLDELPT-----LKSLWPQKGDKLLVYL-YVDKKG-RIWGT 136 (287)
T ss_pred ------eEeecceeEEEEEEEcCCcceEEecCCCcceeeehhhccc-----ccccCCCCCCEEEEEE-EEccCC-cEEEE
Confidence 5789999999999999 78999999888999999999842 1233578999999984 688554 77777
Q ss_pred eecccCCCCccccccccc---ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEe
Q psy14505 1411 MKQCKDNPWENFSIIHKK---GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSI 1487 (1619)
Q Consensus 1411 lK~~~~~~~~~~~~~~~v---G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~v 1487 (1619)
++.- +.+.++...+.. |+.++|.|.+....|.||-.+++..|++|+||... ..+.||.++++|+.+
T Consensus 137 ~a~~--~~l~~l~~~~~~~l~nq~v~~tVYr~~~~G~fv~~e~~~~GfIh~sEr~~---------~prlG~~l~~rVi~~ 205 (287)
T COG2996 137 LAIE--KILENLATPAYNNLKNQEVDATVYRLLESGTFVITENGYLGFIHKSERFA---------EPRLGERLTARVIGV 205 (287)
T ss_pred ecch--hHHHhcCCccchhhhcCeeeeEEEEEeccceEEEEcCCeEEEEcchhhcc---------cccCCceEEEEEEEE
Confidence 7642 333333333333 99999999999999999999999999999999972 368999999999999
Q ss_pred ecCCCeEEEeeecCc
Q psy14505 1488 DVEKERISLGIKQLE 1502 (1619)
Q Consensus 1488 d~e~~ri~LSlK~~~ 1502 (1619)
.. +++|.||+++..
T Consensus 206 re-Dg~lnLSl~p~~ 219 (287)
T COG2996 206 RE-DGKLNLSLRPRA 219 (287)
T ss_pred cc-CCeeeccccccc
Confidence 95 999999999863
No 61
>PRK04182 cytidylate kinase; Provisional
Probab=99.57 E-value=2.6e-14 Score=156.68 Aligned_cols=170 Identities=29% Similarity=0.382 Sum_probs=124.1
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|++.|.+||||+++++.+|+++|++++|+|.++|.++. +.|++..+.. +. .
T Consensus 1 ~~I~i~G~~GsGKstia~~la~~lg~~~id~~~~~~~~~~---~~g~~~~~~~---~~--------~------------- 53 (180)
T PRK04182 1 MIITISGPPGSGKTTVARLLAEKLGLKHVSAGEIFRELAK---ERGMSLEEFN---KY--------A------------- 53 (180)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHcCCcEecHHHHHHHHHH---HcCCCHHHHH---HH--------h-------------
Confidence 3688999999999999999999999999999999997654 6676543211 11 0
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhh-cCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCC
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFR-KFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFS 1018 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a-~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~ 1018 (1619)
...+.+...+...+.+++ ..++||++||+.+++..+..++.|||+||++.|++| .+...+
T Consensus 54 --------------~~~~~~~~~~~~~~~~~~~~~~~~Vi~g~~~~~~~~~~~~~~V~l~a~~e~~~~R-----l~~r~~ 114 (180)
T PRK04182 54 --------------EEDPEIDKEIDRRQLEIAEKEDNVVLEGRLAGWMAKDYADLKIWLKAPLEVRAER-----IAEREG 114 (180)
T ss_pred --------------hcCchHHHHHHHHHHHHHhcCCCEEEEEeecceEecCCCCEEEEEECCHHHHHHH-----HHhccC
Confidence 001123344444555666 678999999976665543467999999999999999 333445
Q ss_pred CCHHHHHHHHHhhhhhcccCC-----CCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1019 VSMSDLLINLIKRDIRDKTRN-----LSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1019 ~~~~~~~~~i~~rD~~d~~r~-----~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
.+.+++.+.++++|..+..+. ..+-+....+++|||+.++++++++.|.+++....+
T Consensus 115 ~~~~~a~~~~~~~d~~~~~~~~~~~~~~~~~~~~~d~~idt~~~~~~~~~~~I~~~~~~~~~ 176 (180)
T PRK04182 115 ISVEEALEETIEREESEAKRYKEYYGIDIDDLSIYDLVINTSRWDPEGVFDIILTAIDKLLK 176 (180)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHhCCCccccccccEEEECCCCCHHHHHHHHHHHHHHHhc
Confidence 688889999999998776552 111112345699999999999999999998876544
No 62
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=99.44 E-value=6e-14 Score=135.98 Aligned_cols=81 Identities=37% Similarity=0.664 Sum_probs=76.1
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCC
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDP 1505 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p 1505 (1619)
+++|++++|+|+.|++||+||+|+++-+||||+|+++ +.++.++.+++++||.|+|+|+++|. +++++||+|.++..|
T Consensus 3 ~kvG~~l~GkItgI~~yGAFV~l~~g~tGLVHISEIa-~~fVkdI~d~L~vG~eV~vKVl~ide-~GKisLSIr~~~e~p 80 (129)
T COG1098 3 MKVGSKLKGKITGITPYGAFVELEGGKTGLVHISEIA-DGFVKDIHDHLKVGQEVKVKVLDIDE-NGKISLSIRKLEEEP 80 (129)
T ss_pred ccccceEEEEEEeeEecceEEEecCCCcceEEehHhh-hhhHHhHHHHhcCCCEEEEEEEeecc-CCCcceehHHhhhCc
Confidence 4789999999999999999999999999999999999 69999999999999999999999996 999999999988766
Q ss_pred ccc
Q psy14505 1506 FNN 1508 (1619)
Q Consensus 1506 ~~~ 1508 (1619)
...
T Consensus 81 e~~ 83 (129)
T COG1098 81 EKQ 83 (129)
T ss_pred ccc
Confidence 543
No 63
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=99.38 E-value=3.8e-11 Score=132.12 Aligned_cols=212 Identities=18% Similarity=0.204 Sum_probs=163.5
Q ss_pred ccCCCEEEEEEEEEEeCeEEEEeCCE--EEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCCeEEeecchhhhhhhh
Q psy14505 1167 MESGEIITGTINGKVKGGLTVLTNGL--KAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMG 1244 (1619)
Q Consensus 1167 l~~G~~v~g~V~~v~~~Gl~V~~gg~--~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~ 1244 (1619)
..+|......|.+..++|++++-++. .-++|.+... .....+|+.|.+.| +.|.+ +++.++.+.
T Consensus 3 ~~iG~~~~l~V~~~~~~g~fL~~~~~~~~ilL~k~~~~-----~~e~evGdev~vFi-Y~D~~-~rl~aTt~~------- 68 (287)
T COG2996 3 IKIGQINSLEVVEFSDFGYFLDAGEDGTTILLPKSEPE-----EDELEVGDEVTVFI-YVDSE-DRLIATTRE------- 68 (287)
T ss_pred ccccceEEEEEEEeeceeEEEecCCCceEEeccccCCc-----CCccccCcEEEEEE-EECCC-Cceeheeec-------
Confidence 56899999999999999999977654 6777765442 22234899999987 45554 456666542
Q ss_pred HHHHHHHhccCCCcEEEEEEEEEe-cCeEEEEeC-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEE
Q psy14505 1245 EERQKLIETLKEGCTVKGVVKNIT-DYGAFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSL 1322 (1619)
Q Consensus 1245 ~~~~~~~~~l~~G~iv~g~V~~v~-~~G~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~L 1322 (1619)
..+++|..-.++|+.+. +.|+||++| ..+.++|.++++..+.- ..++|+++-|. +.+|.++ ++..
T Consensus 69 -------p~~tvg~~g~~~Vv~v~~~lGaFlD~Gl~KDl~vp~~elp~~~~~----wpq~Gd~l~v~-l~~Dkk~-Ri~g 135 (287)
T COG2996 69 -------PKATVGEYGWLKVVEVNKDLGAFLDWGLPKDLLVPLDELPTLKSL----WPQKGDKLLVY-LYVDKKG-RIWG 135 (287)
T ss_pred -------ceEeecceeEEEEEEEcCCcceEEecCCCcceeeehhhccccccc----CCCCCCEEEEE-EEEccCC-cEEE
Confidence 24688999999999999 789999998 89999999998753222 25699999997 5888654 7777
Q ss_pred eeeccccCCccccccccc---cceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1323 GMKQLGIDPWIGLSFRYP---RGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1323 SlK~~~~~~~~~~~~~l~---~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
+++.. ........... .++.+.|+|.+....|.||-++++.-||||.||.- ..++.|+++++||+.
T Consensus 136 ~~a~~--~~l~~l~~~~~~~l~nq~v~~tVYr~~~~G~fv~~e~~~~GfIh~sEr~---------~~prlG~~l~~rVi~ 204 (287)
T COG2996 136 TLAIE--KILENLATPAYNNLKNQEVDATVYRLLESGTFVITENGYLGFIHKSERF---------AEPRLGERLTARVIG 204 (287)
T ss_pred Eecch--hHHHhcCCccchhhhcCeeeeEEEEEeccceEEEEcCCeEEEEcchhhc---------ccccCCceEEEEEEE
Confidence 76532 11111222233 49999999999999999999999999999999972 345699999999999
Q ss_pred eecccceEEEeeecccCC
Q psy14505 1400 INEERRRISLGMKQCKDN 1417 (1619)
Q Consensus 1400 id~e~~ri~LSlK~~~~~ 1417 (1619)
+.+ +++|.||+++...+
T Consensus 205 ~re-Dg~lnLSl~p~~~E 221 (287)
T COG2996 205 VRE-DGKLNLSLRPRAHE 221 (287)
T ss_pred Ecc-CCeeecccccccHH
Confidence 986 99999999986543
No 64
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.35 E-value=1.8e-12 Score=120.12 Aligned_cols=72 Identities=24% Similarity=0.396 Sum_probs=64.8
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCC--CccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTD--PGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~--~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
+++|++|.|+|++++++|+||++.+++.|++|.++++|.. ...++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 ~k~G~~V~g~V~~i~~~G~fV~l~~~v~G~v~~~~ls~~~~~~~~~~~~~~~~G~~v~~kVl~id~~~~~i~LS 74 (74)
T cd05705 1 IKEGQLLRGYVSSVTKQGVFFRLSSSIVGRVLFQNVTKYFVSDPSLYNKYLPEGKLLTAKVLSVNSEKNLVELS 74 (74)
T ss_pred CCCCCEEEEEEEEEeCCcEEEEeCCCCEEEEEHHHccCccccChhhHhcccCCCCEEEEEEEEEECCCCEEecC
Confidence 4789999999999999999999999999999999999743 22335689999999999999999999999986
No 65
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 12 (hs12) and S. cerevisiae S1 repeat 9 (sc9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.33 E-value=3.7e-12 Score=117.86 Aligned_cols=71 Identities=21% Similarity=0.414 Sum_probs=66.9
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCC-CCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWT-DPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~-~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|+++.|+|++++++|+||++.+++.|+||.++++|+ ...+++.+.|++||.|+|+|+++|+++++|.||+|
T Consensus 1 G~~V~g~V~~i~~~g~~V~l~~~i~G~i~~~~ls~~~~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~Ls~k 72 (73)
T cd05703 1 GQEVTGFVNNVSKEFVWLTISPDVKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAKVVGVDKEHKLLRLSAR 72 (73)
T ss_pred CCEEEEEEEEEeCCEEEEEeCCCcEEEEEHHHcCCccccccCHHHhCCCCCEEEEEEEEEeCCCCEEEEEec
Confidence 789999999999999999999999999999999975 34778999999999999999999999999999986
No 66
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=99.32 E-value=1.1e-12 Score=127.23 Aligned_cols=80 Identities=36% Similarity=0.601 Sum_probs=74.6
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCC
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDN 1417 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~ 1417 (1619)
.+++|++++|+|+.+.+||+||+|+++-+||||+|++++ ..+.+..+.+++||+|+|+|+++|. ++++.||+|.+...
T Consensus 2 ~~kvG~~l~GkItgI~~yGAFV~l~~g~tGLVHISEIa~-~fVkdI~d~L~vG~eV~vKVl~ide-~GKisLSIr~~~e~ 79 (129)
T COG1098 2 SMKVGSKLKGKITGITPYGAFVELEGGKTGLVHISEIAD-GFVKDIHDHLKVGQEVKVKVLDIDE-NGKISLSIRKLEEE 79 (129)
T ss_pred CccccceEEEEEEeeEecceEEEecCCCcceEEehHhhh-hhHHhHHHHhcCCCEEEEEEEeecc-CCCcceehHHhhhC
Confidence 478999999999999999999999999999999999987 6788999999999999999999996 99999999998765
Q ss_pred CC
Q psy14505 1418 PW 1419 (1619)
Q Consensus 1418 ~~ 1419 (1619)
|-
T Consensus 80 pe 81 (129)
T COG1098 80 PE 81 (129)
T ss_pred cc
Confidence 53
No 67
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.29 E-value=7.2e-12 Score=116.17 Aligned_cols=71 Identities=21% Similarity=0.293 Sum_probs=64.7
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCC---ccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVT---PSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~---~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
+++|++|.|+|+++.++|+||+++++++|+||.+++||. ...+ +.+.|++||.|+|+|+++|++++++.||
T Consensus 1 ~k~G~~V~g~V~~i~~~G~fV~l~~~v~G~v~~~~ls~~-~~~~~~~~~~~~~~G~~v~~kVl~id~~~~~i~LS 74 (74)
T cd05705 1 IKEGQLLRGYVSSVTKQGVFFRLSSSIVGRVLFQNVTKY-FVSDPSLYNKYLPEGKLLTAKVLSVNSEKNLVELS 74 (74)
T ss_pred CCCCCEEEEEEEEEeCCcEEEEeCCCCEEEEEHHHccCc-cccChhhHhcccCCCCEEEEEEEEEECCCCEEecC
Confidence 579999999999999999999999999999999999993 4344 4589999999999999999999999886
No 68
>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 2 (hs2) and S. cerevisiae S1 repeat 2 (sc2). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.26 E-value=2.1e-11 Score=112.94 Aligned_cols=70 Identities=16% Similarity=0.292 Sum_probs=65.0
Q ss_pred cccceEEEEEEEEEecceEEEeeC-CCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLD-GNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~-~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
+++|++++|+|++|+++|+||+|+ +++.||+|.++++|. ..|++||.+.|+|+++|++++++.||+|++.
T Consensus 2 l~~G~~v~g~V~si~d~G~~v~~g~~gv~Gfl~~~~~~~~-------~~~~~Gq~v~~~V~~vd~~~~~v~ls~k~~~ 72 (74)
T cd05694 2 LVEGMVLSGCVSSVEDHGYILDIGIPGTTGFLPKKDAGNF-------SKLKVGQLLLCVVEKVKDDGRVVSLSADPSK 72 (74)
T ss_pred CCCCCEEEEEEEEEeCCEEEEEeCCCCcEEEEEHHHCCcc-------cccCCCCEEEEEEEEEECCCCEEEEEEeecc
Confidence 478999999999999999999996 689999999999973 5799999999999999999999999999864
No 69
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 12 (hs12) and S. cerevisiae S1 repeat 9 (sc9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.24 E-value=1.8e-11 Score=113.23 Aligned_cols=71 Identities=14% Similarity=0.304 Sum_probs=66.7
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCcc-ccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWI-NKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~-~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
|+++.|+|+++.++|+||+++++++|++|.++++|. ....+|.+.|++||.|+|+|+++|++++++.||+|
T Consensus 1 G~~V~g~V~~i~~~g~~V~l~~~i~G~i~~~~ls~~~~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~Ls~k 72 (73)
T cd05703 1 GQEVTGFVNNVSKEFVWLTISPDVKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAKVVGVDKEHKLLRLSAR 72 (73)
T ss_pred CCEEEEEEEEEeCCEEEEEeCCCcEEEEEHHHcCCccccccCHHHhCCCCCEEEEEEEEEeCCCCEEEEEec
Confidence 789999999999999999999999999999999984 24678999999999999999999999999999986
No 70
>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 2 (hs2) and S. cerevisiae S1 repeat 2 (sc2). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.20 E-value=7.4e-11 Score=109.28 Aligned_cols=71 Identities=18% Similarity=0.334 Sum_probs=66.1
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEc-CCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeeccc
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIE-KGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCK 1415 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~-~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~ 1415 (1619)
++++|+++.|+|+++.++|+||+++ ++++||+|.++++|. ..+++||.+.|+|+++|++++++.||+|++.
T Consensus 1 dl~~G~~v~g~V~si~d~G~~v~~g~~gv~Gfl~~~~~~~~-------~~~~~Gq~v~~~V~~vd~~~~~v~ls~k~~~ 72 (74)
T cd05694 1 DLVEGMVLSGCVSSVEDHGYILDIGIPGTTGFLPKKDAGNF-------SKLKVGQLLLCVVEKVKDDGRVVSLSADPSK 72 (74)
T ss_pred CCCCCCEEEEEEEEEeCCEEEEEeCCCCcEEEEEHHHCCcc-------cccCCCCEEEEEEEEEECCCCEEEEEEeecc
Confidence 4789999999999999999999996 689999999999982 7889999999999999999999999999864
No 71
>PRK08582 hypothetical protein; Provisional
Probab=99.19 E-value=6.9e-11 Score=122.85 Aligned_cols=81 Identities=31% Similarity=0.565 Sum_probs=75.2
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCC
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDP 1505 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p 1505 (1619)
+++|++|.|+|++|+++|+||++.+++.||||.++++| .+..++.+.|++||.|+|+|+++|. +++|.||+|+...+|
T Consensus 3 ~kvG~iv~G~V~~I~~fG~fV~L~~~~~GlVhiSels~-~~v~~~~~~l~vGD~VkvkV~~id~-~gkI~LSlk~~~~~~ 80 (139)
T PRK08582 3 IEVGSKLQGKVTGITNFGAFVELPEGKTGLVHISEVAD-NYVKDINDHLKVGDEVEVKVLNVED-DGKIGLSIKKAKDRP 80 (139)
T ss_pred CcCCCEEEEEEEEEECCeEEEEECCCCEEEEEeeccCc-ccccccccccCCCCEEEEEEEEECC-CCcEEEEEEecccCc
Confidence 47899999999999999999999999999999999996 5678888999999999999999997 599999999999889
Q ss_pred ccc
Q psy14505 1506 FNN 1508 (1619)
Q Consensus 1506 ~~~ 1508 (1619)
|..
T Consensus 81 ~~~ 83 (139)
T PRK08582 81 KRQ 83 (139)
T ss_pred hhh
Confidence 864
No 72
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=99.18 E-value=7e-11 Score=109.93 Aligned_cols=73 Identities=34% Similarity=0.644 Sum_probs=69.0
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
+++|+++.|+|+++.++|+||++.+++.|+||.+++++ ....++...|++||.|.|+|+++|++++++.||+|
T Consensus 2 ~~~G~iv~g~V~~v~~~g~~V~l~~~~~g~ip~~~l~~-~~~~~~~~~~~~G~~v~v~v~~vd~~~~~i~lS~k 74 (74)
T PF00575_consen 2 LKEGDIVEGKVTSVEDFGVFVDLGNGIEGFIPISELSD-DRIDDPSEVYKIGQTVRVKVIKVDKEKGRIRLSLK 74 (74)
T ss_dssp SSTTSEEEEEEEEEETTEEEEEESTSSEEEEEGGGSSS-SEESSSHGTCETTCEEEEEEEEEETTTTEEEEEST
T ss_pred CCCCCEEEEEEEEEECCEEEEEECCcEEEEEEeehhcC-ccccccccccCCCCEEEEEEEEEECCCCeEEEEEC
Confidence 47899999999999999999999999999999999995 56678899999999999999999999999999986
No 73
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.17 E-value=6.5e-11 Score=108.90 Aligned_cols=70 Identities=27% Similarity=0.402 Sum_probs=66.1
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|+++.|+|++++++|+||++++++.||+|.+++++ ++..++.+.|++||.++|+|+++|++++++.||+|
T Consensus 1 g~~~~g~V~~v~~~G~~V~l~~~~~gli~~s~l~~-~~~~~~~~~~~~G~~i~v~v~~~d~~~~~i~ls~k 70 (70)
T cd05698 1 GLKTHGTIVKVKPNGCIVSFYNNVKGFLPKSELSE-AFIKDPEEHFRVGQVVKVKVLSCDPEQQRLLLSCK 70 (70)
T ss_pred CCEEEEEEEEEecCcEEEEECCCCEEEEEHHHcCh-hhcCCHHHcccCCCEEEEEEEEEcCCCCEEEEEeC
Confidence 78999999999999999999999999999999995 55778889999999999999999999999999986
No 74
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=99.17 E-value=1e-10 Score=108.86 Aligned_cols=74 Identities=34% Similarity=0.688 Sum_probs=69.3
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
++++|+++.|+|+++.++|+||+++++++||||.++++| ....++...|++||.++|+|+++|++++++.||+|
T Consensus 1 k~~~G~iv~g~V~~v~~~g~~V~l~~~~~g~ip~~~l~~-~~~~~~~~~~~~G~~v~v~v~~vd~~~~~i~lS~k 74 (74)
T PF00575_consen 1 KLKEGDIVEGKVTSVEDFGVFVDLGNGIEGFIPISELSD-DRIDDPSEVYKIGQTVRVKVIKVDKEKGRIRLSLK 74 (74)
T ss_dssp -SSTTSEEEEEEEEEETTEEEEEESTSSEEEEEGGGSSS-SEESSSHGTCETTCEEEEEEEEEETTTTEEEEEST
T ss_pred CCCCCCEEEEEEEEEECCEEEEEECCcEEEEEEeehhcC-ccccccccccCCCCEEEEEEEEEECCCCeEEEEEC
Confidence 378999999999999999999999989999999999998 45678999999999999999999999999999986
No 75
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 4 (hs4). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.15 E-value=1.1e-10 Score=107.58 Aligned_cols=69 Identities=23% Similarity=0.343 Sum_probs=64.2
Q ss_pred ceEEE-EEEEEE-ecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1429 GEKIK-GIIKSI-TDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1429 G~~v~-G~V~~i-~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
|+++. |+|+++ .++|+||++.+++.||+|.++++| +..+++.+.|++||.++|+|+++|++++++.||+
T Consensus 1 G~v~~~g~V~~v~~~~G~~V~l~~gv~G~i~~s~l~~-~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~lS~ 71 (71)
T cd05696 1 GAVVDSVKVTKVEPDLGAVFELKDGLLGFVHISHLSD-DKVPSDTGPFKAGTTHKARIIGYSPMDGLLQLSL 71 (71)
T ss_pred CcEeeeeEEEEEccCceEEEEeCCCCEEEEEHHHCCc-chhcCcccccCCCCEEEEEEEEEeCCCCEEEEeC
Confidence 78899 999999 699999999999999999999995 5667788999999999999999999999999996
No 76
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.13 E-value=1.4e-10 Score=106.39 Aligned_cols=69 Identities=29% Similarity=0.505 Sum_probs=64.6
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
|+++.|+|+++.++|+||++.+++.|++|.++++| .+..++.+.|++||.++|+|+++|++++++.||+
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~~v~g~i~~~~l~~-~~~~~~~~~~~~Gd~i~~~V~~id~~~~~i~ls~ 69 (69)
T cd05697 1 GQVVKGTIRKLRPSGIFVKLSDHIKGLVPPMHLAD-VRLKHPEKKFKPGLKVKCRVLSVEPERKRLVLTL 69 (69)
T ss_pred CCEEEEEEEEEeccEEEEEecCCcEEEEEHHHCCC-ccccCHHHcCCCCCEEEEEEEEEECCCCEEEEEC
Confidence 78999999999999999999999999999999996 4556788899999999999999999999999985
No 77
>PRK08582 hypothetical protein; Provisional
Probab=99.13 E-value=2e-10 Score=119.49 Aligned_cols=81 Identities=38% Similarity=0.637 Sum_probs=75.4
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCCC
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDNP 1418 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~ 1418 (1619)
+++|++|.|+|++++++|+||+|+++++|+||+++++| ....++.+.|++||.|+|+|+++|. +++|.||+|++..+|
T Consensus 3 ~kvG~iv~G~V~~I~~fG~fV~L~~~~~GlVhiSels~-~~v~~~~~~l~vGD~VkvkV~~id~-~gkI~LSlk~~~~~~ 80 (139)
T PRK08582 3 IEVGSKLQGKVTGITNFGAFVELPEGKTGLVHISEVAD-NYVKDINDHLKVGDEVEVKVLNVED-DGKIGLSIKKAKDRP 80 (139)
T ss_pred CcCCCEEEEEEEEEECCeEEEEECCCCEEEEEeeccCc-ccccccccccCCCCEEEEEEEEECC-CCcEEEEEEecccCc
Confidence 78999999999999999999999999999999999998 4577888999999999999999997 589999999999889
Q ss_pred Ccc
Q psy14505 1419 WEN 1421 (1619)
Q Consensus 1419 ~~~ 1421 (1619)
|..
T Consensus 81 ~~~ 83 (139)
T PRK08582 81 KRQ 83 (139)
T ss_pred hhh
Confidence 865
No 78
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.12 E-value=1.4e-10 Score=110.44 Aligned_cols=78 Identities=33% Similarity=0.480 Sum_probs=70.5
Q ss_pred CcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1419 WENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1419 ~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
+..+.+ +++|+++.|+|++++++|+||++.+++.|++|.+++++ .+..++.+.|++||.|+|+|+++|++++++.|||
T Consensus 6 ~~~~~~-~~~G~i~~g~V~~v~~~G~fv~l~~~~~g~v~~~el~~-~~~~~~~~~~~~Gd~v~vkV~~id~~~~~i~lsl 83 (83)
T cd04461 6 PTNFSD-LKPGMVVHGYVRNITPYGVFVEFLGGLTGLAPKSYISD-EFVTDPSFGFKKGQSVTAKVTSVDEEKQRFLLSL 83 (83)
T ss_pred hhhHHh-CCCCCEEEEEEEEEeeceEEEEcCCCCEEEEEHHHCCc-ccccCHHHhcCCCCEEEEEEEEEcCCCCEEEEeC
Confidence 334444 48999999999999999999999999999999999996 5677899999999999999999999999999996
No 79
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 4 (hs4). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.12 E-value=1.8e-10 Score=106.19 Aligned_cols=69 Identities=26% Similarity=0.355 Sum_probs=64.3
Q ss_pred ceeEE-EEEEEE-cCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1342 GTRLL-GKVTNL-TDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1342 G~iv~-g~V~~v-~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
|++++ |+|+++ .++|+||++.++++||+|.|+++| ....++.+.|++||.++|+|+++|+.++++.||+
T Consensus 1 G~v~~~g~V~~v~~~~G~~V~l~~gv~G~i~~s~l~~-~~~~~~~~~~~vG~~v~~kV~~id~~~~~i~lS~ 71 (71)
T cd05696 1 GAVVDSVKVTKVEPDLGAVFELKDGLLGFVHISHLSD-DKVPSDTGPFKAGTTHKARIIGYSPMDGLLQLSL 71 (71)
T ss_pred CcEeeeeEEEEEccCceEEEEeCCCCEEEEEHHHCCc-chhcCcccccCCCCEEEEEEEEEeCCCCEEEEeC
Confidence 78899 999999 699999999999999999999998 5567788999999999999999999999999986
No 80
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 5 (ec5) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=99.11 E-value=1.5e-10 Score=106.09 Aligned_cols=69 Identities=62% Similarity=1.061 Sum_probs=64.5
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
|+++.|.|++++++|+||++.+++.||+|.++++|.....++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 G~~~~g~V~~i~~~G~fv~l~~~~~Glv~~~~l~~~~~~~~~~~~~~~G~~v~v~v~~id~~~~~i~l~ 69 (69)
T cd05690 1 GTVVSGKIKSITDFGIFVGLDGGIDGLVHISDISWTQRVRHPSEIYKKGQEVEAVVLNIDVERERISLG 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEeCCCCEEEEEHHHCCCccccCChhhEECCCCEEEEEEEEEECCcCEEeCC
Confidence 789999999999999999999999999999999975566788889999999999999999999999885
No 81
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.11 E-value=3.5e-10 Score=104.95 Aligned_cols=72 Identities=28% Similarity=0.478 Sum_probs=67.1
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
++|+++.|+|++++++|+||+++++++|++|.++++| ++..++.+.|++||.|+|+|+++|++++++.||++
T Consensus 2 ~~G~iv~g~V~~v~~~gi~v~l~~~~~g~v~~s~l~~-~~~~~~~~~~~~Gd~v~~~V~~~d~~~~~i~ls~~ 73 (73)
T cd05706 2 KVGDILPGRVTKVNDRYVLVQLGNKVTGPSFITDALD-DYSEALPYKFKKNDIVRACVLSVDVPNKKIALSLR 73 (73)
T ss_pred CCCCEEEEEEEEEeCCeEEEEeCCCcEEEEEhhhccC-ccccccccccCCCCEEEEEEEEEeCCCCEEEEEEC
Confidence 6899999999999999999999999999999999996 45567788999999999999999999999999985
No 82
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.10 E-value=2.1e-10 Score=105.19 Aligned_cols=69 Identities=26% Similarity=0.403 Sum_probs=64.5
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
|+++.|+|+++.++|+||+++++++|++|.++++| ....++.+.|++||.++|+|+++|++++++.||+
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~~v~g~i~~~~l~~-~~~~~~~~~~~~Gd~i~~~V~~id~~~~~i~ls~ 69 (69)
T cd05697 1 GQVVKGTIRKLRPSGIFVKLSDHIKGLVPPMHLAD-VRLKHPEKKFKPGLKVKCRVLSVEPERKRLVLTL 69 (69)
T ss_pred CCEEEEEEEEEeccEEEEEecCCcEEEEEHHHCCC-ccccCHHHcCCCCCEEEEEEEEEECCCCEEEEEC
Confidence 78999999999999999999999999999999998 4456788899999999999999999999999985
No 83
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 13 (hs13). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.10 E-value=2e-10 Score=106.19 Aligned_cols=71 Identities=24% Similarity=0.310 Sum_probs=65.4
Q ss_pred cccceeEEEEEEEEcC-CeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1339 YPRGTRLLGKVTNLTD-YGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~-~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
+++|+++.|+|+++.+ +|+||++.++.+|++|+++++| ....+|.+.|++||.|+|+|++++. +++.||+|
T Consensus 1 l~~G~iv~G~V~~i~~~~g~~v~l~~~~~Glvhis~~s~-~~~~~~~~~~~~Gd~v~~kV~~~~~--~~i~LSl~ 72 (72)
T cd05704 1 LEEGAVTLGMVTKVIPHSGLTVQLPFGKTGLVSIFHLSD-SYTENPLEGFKPGKIVRCCILSKKD--GKYQLSLR 72 (72)
T ss_pred CCCCCEEEEEEEEeeCCcEEEEECCCCCEEEEEHHHhcC-cccCCHHHhCCCCCEEEEEEEEecC--CEEEEEeC
Confidence 4689999999999986 8999999999999999999998 5678888999999999999999984 89999985
No 84
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.09 E-value=2.2e-10 Score=109.12 Aligned_cols=75 Identities=28% Similarity=0.368 Sum_probs=70.0
Q ss_pred ccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1336 SFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1336 ~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
..++++|+++.|+|+++.++|+||+++++++||+|.++++| ....+|.+.|++||.|+|+|+++|.+++++.||+
T Consensus 9 ~~~~~~G~i~~g~V~~v~~~G~fv~l~~~~~g~v~~~el~~-~~~~~~~~~~~~Gd~v~vkV~~id~~~~~i~lsl 83 (83)
T cd04461 9 FSDLKPGMVVHGYVRNITPYGVFVEFLGGLTGLAPKSYISD-EFVTDPSFGFKKGQSVTAKVTSVDEEKQRFLLSL 83 (83)
T ss_pred HHhCCCCCEEEEEEEEEeeceEEEEcCCCCEEEEEHHHCCc-ccccCHHHhcCCCCEEEEEEEEEcCCCCEEEEeC
Confidence 34689999999999999999999999999999999999998 4577899999999999999999999999999986
No 85
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.09 E-value=2.6e-10 Score=104.94 Aligned_cols=70 Identities=20% Similarity=0.378 Sum_probs=65.8
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
|+++.|+|+++.++|+||+++++++||+|.+++++ ....+|.+.|++||.++|+|+++|++++++.||+|
T Consensus 1 g~~~~g~V~~v~~~G~~V~l~~~~~gli~~s~l~~-~~~~~~~~~~~~G~~i~v~v~~~d~~~~~i~ls~k 70 (70)
T cd05698 1 GLKTHGTIVKVKPNGCIVSFYNNVKGFLPKSELSE-AFIKDPEEHFRVGQVVKVKVLSCDPEQQRLLLSCK 70 (70)
T ss_pred CCEEEEEEEEEecCcEEEEECCCCEEEEEHHHcCh-hhcCCHHHcccCCCEEEEEEEEEcCCCCEEEEEeC
Confidence 78999999999999999999989999999999987 44778899999999999999999999999999986
No 86
>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (ec4) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=99.09 E-value=2.9e-10 Score=105.20 Aligned_cols=72 Identities=36% Similarity=0.763 Sum_probs=65.5
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
|++|+++.|+|++++++|+||++.+++.||+|.++++|.....++...|++||.|+|+|+++|++++++.|+
T Consensus 1 ~~~g~~~~g~V~~i~~~G~fv~l~~~~~Gl~~~~~l~~~~~~~~~~~~~~~Gd~v~v~v~~id~~~~~i~~~ 72 (72)
T cd05689 1 YPEGTRLFGKVTNLTDYGCFVELEEGVEGLVHVSEMDWTNKNIHPSKVVSLGDEVEVMVLDIDEERRRISLG 72 (72)
T ss_pred CcCCCEEEEEEEEEEeeEEEEEcCCCCEEEEEEEeccCcccccCcccEeCCCCEEEEEEEEeeCCcCEEeCC
Confidence 578999999999999999999999999999999999975444567788999999999999999999999875
No 87
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 13 (hs13). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.07 E-value=3e-10 Score=104.97 Aligned_cols=70 Identities=23% Similarity=0.346 Sum_probs=64.9
Q ss_pred ccceEEEEEEEEEec-ceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1427 KKGEKIKGIIKSITD-FGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~-~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
++|+++.|+|+++.+ +|+||++.++.+|++|.++++| ++..++.+.|++||.|+|+|+++|. +++.||+|
T Consensus 2 ~~G~iv~G~V~~i~~~~g~~v~l~~~~~Glvhis~~s~-~~~~~~~~~~~~Gd~v~~kV~~~~~--~~i~LSl~ 72 (72)
T cd05704 2 EEGAVTLGMVTKVIPHSGLTVQLPFGKTGLVSIFHLSD-SYTENPLEGFKPGKIVRCCILSKKD--GKYQLSLR 72 (72)
T ss_pred CCCCEEEEEEEEeeCCcEEEEECCCCCEEEEEHHHhcC-cccCCHHHhCCCCCEEEEEEEEecC--CEEEEEeC
Confidence 689999999999986 8999999999999999999996 6678888999999999999999984 99999986
No 88
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.07 E-value=5.6e-10 Score=103.60 Aligned_cols=73 Identities=21% Similarity=0.312 Sum_probs=67.2
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
+++|+++.|+|+++.++|+||+++++++|++|.++++| ....++.+.|++||.++|+|+++|++++++.||++
T Consensus 1 ~~~G~iv~g~V~~v~~~gi~v~l~~~~~g~v~~s~l~~-~~~~~~~~~~~~Gd~v~~~V~~~d~~~~~i~ls~~ 73 (73)
T cd05706 1 LKVGDILPGRVTKVNDRYVLVQLGNKVTGPSFITDALD-DYSEALPYKFKKNDIVRACVLSVDVPNKKIALSLR 73 (73)
T ss_pred CCCCCEEEEEEEEEeCCeEEEEeCCCcEEEEEhhhccC-ccccccccccCCCCEEEEEEEEEeCCCCEEEEEEC
Confidence 46899999999999999999999999999999999998 34556788999999999999999999999999975
No 89
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.07 E-value=3e-10 Score=103.89 Aligned_cols=68 Identities=29% Similarity=0.548 Sum_probs=64.0
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
|+++.|+|+++.++|+||++.+++.|++|.+++++ ++..++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~~~~G~v~~s~l~~-~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls 68 (68)
T cd05707 1 GDVVRGFVKNIANNGVFVTLGRGVDARVRVSELSD-SYLKDWKKRFKVGQLVKGKIVSIDPDNGRIEMT 68 (68)
T ss_pred CCEEEEEEEEEECccEEEEeCCCCEEEEEHHHCCc-hhhcCHhhccCCCCEEEEEEEEEeCCCCEEecC
Confidence 78999999999999999999999999999999995 667788999999999999999999999999886
No 90
>PRK07252 hypothetical protein; Provisional
Probab=99.06 E-value=6.1e-10 Score=112.74 Aligned_cols=77 Identities=31% Similarity=0.561 Sum_probs=71.6
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCC
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGD 1504 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~ 1504 (1619)
++|+++.|+|++++++|+||++.+++.|++|.++++| .+..++...|++||.|+|+|+++|++++++.||+|....+
T Consensus 2 kvG~iv~G~V~~V~~~G~fVei~~~~~GllhiseLs~-~~~~~~~~~~~vGD~V~VkI~~iD~~~~ri~lSlk~~~~~ 78 (120)
T PRK07252 2 KIGDKLKGTITGIKPYGAFVALENGTTGLIHISEIKT-GFIDNIHQLLKVGEEVLVQVVDFDEYTGKASLSLRTLEEE 78 (120)
T ss_pred CCCCEEEEEEEEEeCcEEEEEECCCCEEEEEHHHcCC-ccccChhhccCCCCEEEEEEEEEeCCCCEEEEEEeecccC
Confidence 4799999999999999999999999999999999996 5667788899999999999999999999999999998664
No 91
>cd05695 S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 3 (hs3). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.03 E-value=6.4e-10 Score=100.88 Aligned_cols=66 Identities=18% Similarity=0.377 Sum_probs=59.9
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
|+++.|+|+++.++|+||++.++++|++|.++++. .... .+.|++||.|+|+|+++|++++++.||
T Consensus 1 G~~V~g~V~~i~~~G~~v~l~~~v~g~v~~~~l~~-~~~~--~~~~~~G~~i~~kVi~id~~~~~i~LS 66 (66)
T cd05695 1 GMLVNARVKKVLSNGLILDFLSSFTGTVDFLHLDP-EKSS--KSTYKEGQKVRARILYVDPSTKVVGLS 66 (66)
T ss_pred CCEEEEEEEEEeCCcEEEEEcCCceEEEEHHHcCC-ccCc--ccCcCCCCEEEEEEEEEeCCCCEEecC
Confidence 78999999999999999999989999999999983 3322 678999999999999999999999886
No 92
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 5 (ec5) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=99.03 E-value=5.6e-10 Score=102.34 Aligned_cols=69 Identities=46% Similarity=0.860 Sum_probs=64.3
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
|+++.|+|+++.++|+||++.++++|++|.++++|.....++.+.|++||.|+|+|+++|++++++.|+
T Consensus 1 G~~~~g~V~~i~~~G~fv~l~~~~~Glv~~~~l~~~~~~~~~~~~~~~G~~v~v~v~~id~~~~~i~l~ 69 (69)
T cd05690 1 GTVVSGKIKSITDFGIFVGLDGGIDGLVHISDISWTQRVRHPSEIYKKGQEVEAVVLNIDVERERISLG 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEeCCCCEEEEEHHHCCCccccCChhhEECCCCEEEEEEEEEECCcCEEeCC
Confidence 789999999999999999999999999999999985566788899999999999999999999999875
No 93
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=99.02 E-value=1.2e-09 Score=102.29 Aligned_cols=73 Identities=34% Similarity=0.470 Sum_probs=67.4
Q ss_pred ccceEEEEEEEEEecceEEEeeCC--CeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG--NIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~--~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
++|+++.|+|+++.++|+||++.+ ++.|++|.++++| .+..++.+.|++||.|+|+|+++|.+++++.||+|+
T Consensus 2 ~~G~~~~g~V~~v~~~g~~v~l~~~~~~~gll~~s~l~~-~~~~~~~~~~~~Gd~v~vkv~~~d~~~~~i~ls~k~ 76 (76)
T cd04452 2 EEGELVVVTVKSIADMGAYVSLLEYGNIEGMILLSELSR-RRIRSIRKLVKVGRKEVVKVIRVDKEKGYIDLSKKR 76 (76)
T ss_pred CCCCEEEEEEEEEEccEEEEEEcCCCCeEEEEEhHHcCC-cccCCHHHeeCCCCEEEEEEEEEECCCCEEEEEEcC
Confidence 479999999999999999999974 6999999999996 667788999999999999999999999999999974
No 94
>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was identified through a yeast two-hybrid interaction screen of a human kidney cDNA library using the pinin (pnn) protein as bait. pNO40 is thought to play a role in ribosome maturation and/or biogenesis.
Probab=99.01 E-value=1.1e-09 Score=101.61 Aligned_cols=70 Identities=20% Similarity=0.403 Sum_probs=63.2
Q ss_pred ccceEEEEEEEEEecceEEEeeCC-CeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG-NIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~-~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
..|+++.|.|+++++||+||++.+ +.+||+|.++++| ....++.+.|++||.|+|+|+++|.++ ++.||+
T Consensus 2 ~~g~~~~g~V~~i~~fG~fv~l~~~~~eGlvh~sel~~-~~~~~~~~~~~~Gd~v~vkv~~vd~~~-ki~ls~ 72 (73)
T cd05686 2 ALYQIFKGEVASVTEYGAFVKIPGCRKQGLVHKSHMSS-CRVDDPSEVVDVGEKVWVKVIGREMKD-KMKLSL 72 (73)
T ss_pred cCCCEEEEEEEEEEeeeEEEEECCCCeEEEEEchhhCC-CcccCHhhEECCCCEEEEEEEEECCCC-cEEEEe
Confidence 479999999999999999999954 3799999999997 466788889999999999999999876 999987
No 95
>PRK13946 shikimate kinase; Provisional
Probab=99.01 E-value=1.3e-09 Score=120.25 Aligned_cols=158 Identities=15% Similarity=0.183 Sum_probs=106.2
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|..|+||+++++.||++||++|+|++.+.... .|.+.. ++.+.
T Consensus 12 ~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D~~~~~~------~g~~~~---e~~~~----------------------- 59 (184)
T PRK13946 12 TVVLVGLMGAGKSTVGRRLATMLGLPFLDADTEIERA------ARMTIA---EIFAA----------------------- 59 (184)
T ss_pred eEEEECCCCCCHHHHHHHHHHHcCCCeECcCHHHHHH------hCCCHH---HHHHH-----------------------
Confidence 5777789999999999999999999999998754411 244321 11000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecC-------CCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPD-------AFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~-------a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
...+.+|+...++++++...++||+.++ +|++..|+ ..+.|||+||++.+.+|.
T Consensus 60 -------------~ge~~~~~~e~~~l~~l~~~~~~Vi~~g-gg~~~~~~~r~~l~~~~~~v~L~a~~e~~~~Rl----- 120 (184)
T PRK13946 60 -------------YGEPEFRDLERRVIARLLKGGPLVLATG-GGAFMNEETRAAIAEKGISVWLKADLDVLWERV----- 120 (184)
T ss_pred -------------HCHHHHHHHHHHHHHHHHhcCCeEEECC-CCCcCCHHHHHHHHcCCEEEEEECCHHHHHHHh-----
Confidence 0113456666777788887788999998 77888873 569999999999999993
Q ss_pred hcCCCC---CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1014 QKGFSV---SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1014 ~~~~~~---~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
....+. +.++..+.+++.++.+... |. ..+++|||+.++++++++.|++.+...++
T Consensus 121 ~~r~~rp~~~~~~~~~~i~~~~~~R~~~----y~--~~dl~i~~~~~~~~~~~~~i~~~i~~~~~ 179 (184)
T PRK13946 121 SRRDTRPLLRTADPKETLARLMEERYPV----YA--EADLTVASRDVPKEVMADEVIEALAAYLE 179 (184)
T ss_pred cCCCCCCcCCCCChHHHHHHHHHHHHHH----HH--hCCEEEECCCCCHHHHHHHHHHHHHHhhc
Confidence 322221 1111222233322222221 11 12488999999999999999998877654
No 96
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 6 (ec6) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=99.01 E-value=1.1e-09 Score=101.51 Aligned_cols=72 Identities=32% Similarity=0.542 Sum_probs=67.6
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
|+++.|+|+++.++|+||++.+++.|++|.+++++ ++..++.+.|++||.|+|+|+++|++++++.||+|..
T Consensus 1 G~~v~g~V~~v~~~g~~v~l~~~~~g~i~~~~~~~-~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls~k~~ 72 (73)
T cd05691 1 GSIVTGKVTEVDAKGATVKLGDGVEGFLRAAELSR-DRVEDATERFKVGDEVEAKITNVDRKNRKISLSIKAK 72 (73)
T ss_pred CCEEEEEEEEEECCeEEEEeCCCCEEEEEHHHCCC-ccccCHHHccCCCCEEEEEEEEEeCCCCEEEEEEEEc
Confidence 78999999999999999999999999999999995 5567889999999999999999999999999999874
No 97
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 12 (sc12). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.00 E-value=1.2e-09 Score=102.28 Aligned_cols=73 Identities=42% Similarity=0.778 Sum_probs=67.8
Q ss_pred cceEEEEEEEEEecceEEEeeCC-CeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDG-NIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~-~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
+|+++.|+|++++++|+||++.+ ++.|++|.++++| ++..++.+.|++||.|+|+|+++|++++++.||+|++
T Consensus 2 ~g~~v~g~V~~i~~~g~~v~l~~~~~~g~i~~~~l~~-~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls~k~~ 75 (77)
T cd05708 2 VGQKIDGTVRRVEDYGVFIDIDGTNVSGLCHKSEISD-NRVADASKLFRVGDKVRAKVLKIDAEKKRISLGLKAS 75 (77)
T ss_pred CCCEEEEEEEEEEcceEEEEECCCCeEEEEEHHHCCC-CccCCHhHeecCCCEEEEEEEEEeCCCCEEEEEEEee
Confidence 69999999999999999999985 8999999999996 5567788899999999999999999999999999975
No 98
>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 1 (hs1) and S. cerevisiae S1 repeat 1 (sc1). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.00 E-value=5.1e-10 Score=109.92 Aligned_cols=78 Identities=17% Similarity=0.355 Sum_probs=69.5
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccc--c----------------CCCccccccCCCEEEEEEEEe
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWIN--K----------------NVTPSKIVQLNDTVEIMILEI 1400 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~--~----------------~~~~~~~~~vG~~V~vrVl~i 1400 (1619)
+++|++|.|+|+++.++|+||.+.+++.|++|.++++|.. . ..++.+.|++||.|+|+|+++
T Consensus 1 L~~G~vV~G~V~~v~~~gl~v~L~~g~~G~v~~seis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~vGd~V~~kVi~~ 80 (100)
T cd05693 1 LSEGMLVLGQVKEITKLDLVISLPNGLTGYVPITNISDAYTERLEELDEESEEEDDEEELPDLEDLFSVGQLVRCKVVSL 80 (100)
T ss_pred CCCCCEEEEEEEEEcCCCEEEECCCCcEEEEEHHHhhHHHHHHHHHhhhhccccccccccCCHHHhccCCCEEEEEEEEc
Confidence 5789999999999999999999999999999999998721 1 235788999999999999999
Q ss_pred ecc---cceEEEeeecccC
Q psy14505 1401 NEE---RRRISLGMKQCKD 1416 (1619)
Q Consensus 1401 d~e---~~ri~LSlK~~~~ 1416 (1619)
|++ ++++.||+|++..
T Consensus 81 d~~~~~~~~i~LSlr~~~v 99 (100)
T cd05693 81 DKSKSGKKRIELSLEPELV 99 (100)
T ss_pred cCCcCCCcEEEEEecHHHC
Confidence 997 7999999998754
No 99
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.00 E-value=8.1e-10 Score=101.01 Aligned_cols=68 Identities=25% Similarity=0.388 Sum_probs=63.7
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
|+++.|+|+++.++|+||++.++++|++|.++++| ....+|.+.|++||.++|+|+++|++++++.||
T Consensus 1 G~~v~g~V~~v~~~Gv~V~l~~~~~G~v~~s~l~~-~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls 68 (68)
T cd05707 1 GDVVRGFVKNIANNGVFVTLGRGVDARVRVSELSD-SYLKDWKKRFKVGQLVKGKIVSIDPDNGRIEMT 68 (68)
T ss_pred CCEEEEEEEEEECccEEEEeCCCCEEEEEHHHCCc-hhhcCHhhccCCCCEEEEEEEEEeCCCCEEecC
Confidence 78999999999999999999999999999999987 456788999999999999999999999999886
No 100
>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 1 (hs1) and S. cerevisiae S1 repeat 1 (sc1). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=99.00 E-value=4.1e-10 Score=110.56 Aligned_cols=76 Identities=22% Similarity=0.383 Sum_probs=67.9
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCC------------------CccccccCCCCCCEEEEEEEEee
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTD------------------PGEEIIRNFKKGDEIEAIILSID 1488 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~------------------~~~~~~~~f~vGq~V~~~Vl~vd 1488 (1619)
++|++|.|+|+++.++|+||.+++++.|++|.++++|+. ...++.+.|++||.|+|+|+++|
T Consensus 2 ~~G~vV~G~V~~v~~~gl~v~L~~g~~G~v~~seis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~vGd~V~~kVi~~d 81 (100)
T cd05693 2 SEGMLVLGQVKEITKLDLVISLPNGLTGYVPITNISDAYTERLEELDEESEEEDDEEELPDLEDLFSVGQLVRCKVVSLD 81 (100)
T ss_pred CCCCEEEEEEEEEcCCCEEEECCCCcEEEEEHHHhhHHHHHHHHHhhhhccccccccccCCHHHhccCCCEEEEEEEEcc
Confidence 689999999999999999999999999999999999621 12347789999999999999999
Q ss_pred cC---CCeEEEeeecCc
Q psy14505 1489 VE---KERISLGIKQLE 1502 (1619)
Q Consensus 1489 ~e---~~ri~LSlK~~~ 1502 (1619)
++ +++|.||+|++.
T Consensus 82 ~~~~~~~~i~LSlr~~~ 98 (100)
T cd05693 82 KSKSGKKRIELSLEPEL 98 (100)
T ss_pred CCcCCCcEEEEEecHHH
Confidence 98 899999999853
No 101
>PRK07252 hypothetical protein; Provisional
Probab=99.00 E-value=1.5e-09 Score=109.86 Aligned_cols=77 Identities=27% Similarity=0.539 Sum_probs=71.7
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCC
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDN 1417 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~ 1417 (1619)
++|+++.|+|+++.++|+||++.+++.|++|.++++| ....++.+.|++||.|+|+|+++|++.+++.||+|....+
T Consensus 2 kvG~iv~G~V~~V~~~G~fVei~~~~~GllhiseLs~-~~~~~~~~~~~vGD~V~VkI~~iD~~~~ri~lSlk~~~~~ 78 (120)
T PRK07252 2 KIGDKLKGTITGIKPYGAFVALENGTTGLIHISEIKT-GFIDNIHQLLKVGEEVLVQVVDFDEYTGKASLSLRTLEEE 78 (120)
T ss_pred CCCCEEEEEEEEEeCcEEEEEECCCCEEEEEHHHcCC-ccccChhhccCCCCEEEEEEEEEeCCCCEEEEEEeecccC
Confidence 5799999999999999999999989999999999998 5667888899999999999999999999999999998754
No 102
>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (ec4) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.99 E-value=1.2e-09 Score=101.08 Aligned_cols=72 Identities=75% Similarity=1.287 Sum_probs=65.4
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
+++|+++.|+|+++.++|+||++.++++||+|.++++|.....++.+.|++||.|+|+|+++|.+++++.|+
T Consensus 1 ~~~g~~~~g~V~~i~~~G~fv~l~~~~~Gl~~~~~l~~~~~~~~~~~~~~~Gd~v~v~v~~id~~~~~i~~~ 72 (72)
T cd05689 1 YPEGTRLFGKVTNLTDYGCFVELEEGVEGLVHVSEMDWTNKNIHPSKVVSLGDEVEVMVLDIDEERRRISLG 72 (72)
T ss_pred CcCCCEEEEEEEEEEeeEEEEEcCCCCEEEEEEEeccCcccccCcccEeCCCCEEEEEEEEeeCCcCEEeCC
Confidence 578999999999999999999999999999999999985445577889999999999999999999998774
No 103
>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was identified through a yeast two-hybrid interaction screen of a human kidney cDNA library using the pinin (pnn) protein as bait. pNO40 is thought to play a role in ribosome maturation and/or biogenesis.
Probab=98.98 E-value=1.8e-09 Score=100.16 Aligned_cols=70 Identities=29% Similarity=0.466 Sum_probs=63.3
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcC-CEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEK-GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~-gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
..|+++.|+|+++.+||+||++.+ +.+||+|.++++| ....++.+.|++||.|+|+|+++|.++ ++.||+
T Consensus 2 ~~g~~~~g~V~~i~~fG~fv~l~~~~~eGlvh~sel~~-~~~~~~~~~~~~Gd~v~vkv~~vd~~~-ki~ls~ 72 (73)
T cd05686 2 ALYQIFKGEVASVTEYGAFVKIPGCRKQGLVHKSHMSS-CRVDDPSEVVDVGEKVWVKVIGREMKD-KMKLSL 72 (73)
T ss_pred cCCCEEEEEEEEEEeeeEEEEECCCCeEEEEEchhhCC-CcccCHhhEECCCCEEEEEEEEECCCC-cEEEEe
Confidence 479999999999999999999943 2799999999999 467789999999999999999999876 899886
No 104
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=98.96 E-value=2.6e-09 Score=99.95 Aligned_cols=73 Identities=23% Similarity=0.462 Sum_probs=67.5
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcC--CEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEK--GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~--gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
++|+++.|+|+++.++|+||++.+ +++|++|.++++| ....++.+.|++||.|+|+|+++|.+++++.||+|+
T Consensus 2 ~~G~~~~g~V~~v~~~g~~v~l~~~~~~~gll~~s~l~~-~~~~~~~~~~~~Gd~v~vkv~~~d~~~~~i~ls~k~ 76 (76)
T cd04452 2 EEGELVVVTVKSIADMGAYVSLLEYGNIEGMILLSELSR-RRIRSIRKLVKVGRKEVVKVIRVDKEKGYIDLSKKR 76 (76)
T ss_pred CCCCEEEEEEEEEEccEEEEEEcCCCCeEEEEEhHHcCC-cccCCHHHeeCCCCEEEEEEEEEECCCCEEEEEEcC
Confidence 579999999999999999999963 5999999999998 567888999999999999999999999999999974
No 105
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 12 (sc12). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.95 E-value=2.9e-09 Score=99.78 Aligned_cols=74 Identities=36% Similarity=0.680 Sum_probs=68.3
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcC-CEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEK-GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~-gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
++|+++.|+|+++.++|+||++.+ +.+|++|.++++| ....++.+.|++||.|+|+|+++|++.+++.||+|++
T Consensus 1 ~~g~~v~g~V~~i~~~g~~v~l~~~~~~g~i~~~~l~~-~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls~k~~ 75 (77)
T cd05708 1 KVGQKIDGTVRRVEDYGVFIDIDGTNVSGLCHKSEISD-NRVADASKLFRVGDKVRAKVLKIDAEKKRISLGLKAS 75 (77)
T ss_pred CCCCEEEEEEEEEEcceEEEEECCCCeEEEEEHHHCCC-CccCCHhHeecCCCEEEEEEEEEeCCCCEEEEEEEee
Confidence 369999999999999999999975 7999999999998 4567788999999999999999999999999999975
No 106
>PRK08059 general stress protein 13; Validated
Probab=98.95 E-value=2.8e-09 Score=109.15 Aligned_cols=80 Identities=33% Similarity=0.581 Sum_probs=74.1
Q ss_pred ccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCC
Q psy14505 1425 IHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGD 1504 (1619)
Q Consensus 1425 ~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~ 1504 (1619)
.+++|+++.|.|.+++++|+||++.+++.|++|.+++++ .+..++...|++||.|+|+|+++|++++++.||+|....+
T Consensus 4 ~~k~G~iv~G~V~~i~~~G~fV~i~~~~~Gli~~sel~~-~~~~~~~~~~~vGD~I~vkI~~id~~~~~i~lslk~~~~~ 82 (123)
T PRK08059 4 QYEVGSVVTGKVTGIQPYGAFVALDEETQGLVHISEITH-GFVKDIHDFLSVGDEVKVKVLSVDEEKGKISLSIRATEEA 82 (123)
T ss_pred cCCCCCEEEEEEEEEecceEEEEECCCCEEEEEHHHCCc-ccccCHHHcCCCCCEEEEEEEEEECCCCeEEEEEEEcccC
Confidence 368899999999999999999999999999999999995 5667788899999999999999999999999999998776
Q ss_pred C
Q psy14505 1505 P 1505 (1619)
Q Consensus 1505 p 1505 (1619)
|
T Consensus 83 ~ 83 (123)
T PRK08059 83 P 83 (123)
T ss_pred c
Confidence 6
No 107
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=98.94 E-value=4.4e-09 Score=110.20 Aligned_cols=155 Identities=25% Similarity=0.344 Sum_probs=117.5
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
+.|.+.|.+|.||+|+++.|+ .+||.++.-+ ..|.++|+-.+ . +
T Consensus 1 m~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~-------el~~e~~~~~~-------------------------~---d 44 (180)
T COG1936 1 MLIAITGTPGVGKTTVCKLLR-ELGYKVIELN-------ELAKENGLYTE-------------------------Y---D 44 (180)
T ss_pred CeEEEeCCCCCchHHHHHHHH-HhCCceeeHH-------HHHHhcCCeec-------------------------c---C
Confidence 358889999999999999999 9999999953 24557765211 0 0
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCC
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSV 1019 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~ 1019 (1619)
+.|. |.+...+.+|.++.... .++++|++|+-++ ++|+.++-|-|.|+|+.-.+| |..+||
T Consensus 45 e~r~-------s~~vD~d~~~~~le~~~----~~~~~Ivd~H~~h--l~~~~dlVvVLR~~p~~L~~R----Lk~RGy-- 105 (180)
T COG1936 45 ELRK-------SVIVDVDKLRKRLEELL----REGSGIVDSHLSH--LLPDCDLVVVLRADPEVLYER----LKGRGY-- 105 (180)
T ss_pred Cccc-------eEEeeHHHHHHHHHHHh----ccCCeEeechhhh--cCCCCCEEEEEcCCHHHHHHH----HHHcCC--
Confidence 1122 44567778888776543 5578999999888 889999999999999999999 777888
Q ss_pred CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1020 SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1020 ~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
+.+++.+++.+ ...|--. .......+..+.+||++.+++++++.|.+.+.
T Consensus 106 ~~eKI~ENveA-Ei~~vi~-~EA~E~~~~v~evdtt~~s~ee~~~~i~~ii~ 155 (180)
T COG1936 106 SEEKILENVEA-EILDVIL-IEAVERFEAVIEVDTTNRSPEEVAEEIIDIIG 155 (180)
T ss_pred CHHHHHHHHHH-HHHHHHH-HHHHHhcCceEEEECCCCCHHHHHHHHHHHHc
Confidence 88999998877 4444332 11111225569999999999999999998876
No 108
>cd05695 S1_Rrp5_repeat_hs3 S1_Rrp5_repeat_hs3: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 3 (hs3). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.94 E-value=2.5e-09 Score=97.00 Aligned_cols=66 Identities=17% Similarity=0.267 Sum_probs=59.3
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
|+++.|+|+++.++|+||++.++++|++|.++++.. .. . .+.|++|++++|+|+++|++++++.||
T Consensus 1 G~~V~g~V~~i~~~G~~v~l~~~v~g~v~~~~l~~~-~~-~-~~~~~~G~~i~~kVi~id~~~~~i~LS 66 (66)
T cd05695 1 GMLVNARVKKVLSNGLILDFLSSFTGTVDFLHLDPE-KS-S-KSTYKEGQKVRARILYVDPSTKVVGLS 66 (66)
T ss_pred CCEEEEEEEEEeCCcEEEEEcCCceEEEEHHHcCCc-cC-c-ccCcCCCCEEEEEEEEEeCCCCEEecC
Confidence 789999999999999999998899999999999642 12 2 778999999999999999999999886
No 109
>PRK05807 hypothetical protein; Provisional
Probab=98.93 E-value=3.8e-09 Score=109.60 Aligned_cols=74 Identities=32% Similarity=0.547 Sum_probs=69.1
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
+++|++|.|+|+.++++|+||++ ++..||||.+++++ .++.++...|++||.|+|+|+++|. +++|.||+|+..
T Consensus 3 ~~vG~vv~G~Vt~i~~~GafV~L-~~~~Glvhiseis~-~~v~~~~~~~kvGd~V~VkV~~id~-~gkI~LSlk~~~ 76 (136)
T PRK05807 3 LKAGSILEGTVVNITNFGAFVEV-EGKTGLVHISEVAD-TYVKDIREHLKEQDKVKVKVISIDD-NGKISLSIKQAM 76 (136)
T ss_pred ccCCCEEEEEEEEEECCeEEEEE-CCEEEEEEhhhccc-ccccCccccCCCCCEEEEEEEEECC-CCcEEEEEEecc
Confidence 47899999999999999999999 78999999999995 7788889999999999999999997 799999999975
No 110
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.93 E-value=3.2e-09 Score=97.66 Aligned_cols=70 Identities=29% Similarity=0.491 Sum_probs=65.8
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|+++.|+|.++.++|+||.+..+..|++|.++++| ....++.+.|++||.++|+|+++|++++++.||+|
T Consensus 1 G~iv~g~V~~i~~~~~~v~l~~~~~g~l~~~e~~~-~~~~~~~~~~~~Gd~i~~~i~~~~~~~~~i~lS~~ 70 (70)
T cd05687 1 GDIVKGTVVSVDDDEVLVDIGYKSEGIIPISEFSD-DPIENGEDEVKVGDEVEVYVLRVEDEEGNVVLSKR 70 (70)
T ss_pred CCEEEEEEEEEeCCEEEEEeCCCceEEEEHHHhCc-cccCCHhHcCCCCCEEEEEEEEEECCCCeEEEEeC
Confidence 78999999999999999999889999999999996 56778899999999999999999999999999985
No 111
>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide. The DEAH-box RNA helicases are thought to play key roles in pre-mRNA splicing and DHX8 facilitates nuclear export of spliced mRNA by releasing the RNA from the spliceosome. DHX8 is also known as HRH1 (human RNA helicase 1) in Homo sapiens and PRP22 in Saccharomyces cerevisiae.
Probab=98.93 E-value=4.2e-09 Score=99.38 Aligned_cols=73 Identities=34% Similarity=0.642 Sum_probs=65.4
Q ss_pred ceEEEEEEEEEecceEEEeeC---CCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcC
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLD---GNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEG 1503 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~---~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~ 1503 (1619)
|+++.|.|++++++|+||++. +++.||+|.++++|.....++.+.|++||.|+|+|+++| ++++.||+|...+
T Consensus 1 G~~~~g~V~~v~~~G~fv~l~~~~~~~~gll~~s~l~~~~~~~~~~~~~~~Gd~v~v~v~~vd--~~~i~~s~k~~~~ 76 (79)
T cd05684 1 GKIYKGKVTSIMDFGCFVQLEGLKGRKEGLVHISQLSFEGRVANPSDVVKRGQKVKVKVISIQ--NGKISLSMKDVDQ 76 (79)
T ss_pred CCEEEEEEEEEEeeeEEEEEeCCCCCcEEEEEhHhccCCCCcCChhheeCCCCEEEEEEEEEe--CCEEEEEEEeccc
Confidence 689999999999999999998 479999999999974333678889999999999999999 8999999998654
No 112
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 6 (ec6) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.92 E-value=3.6e-09 Score=98.07 Aligned_cols=72 Identities=29% Similarity=0.520 Sum_probs=67.1
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
|+++.|+|+++.++|+||++.++++|++|.+++++ ....++.+.|++||.++|+|+++|++++++.||+|..
T Consensus 1 G~~v~g~V~~v~~~g~~v~l~~~~~g~i~~~~~~~-~~~~~~~~~~~~Gd~v~~~v~~~d~~~~~i~ls~k~~ 72 (73)
T cd05691 1 GSIVTGKVTEVDAKGATVKLGDGVEGFLRAAELSR-DRVEDATERFKVGDEVEAKITNVDRKNRKISLSIKAK 72 (73)
T ss_pred CCEEEEEEEEEECCeEEEEeCCCCEEEEEHHHCCC-ccccCHHHccCCCCEEEEEEEEEeCCCCEEEEEEEEc
Confidence 78999999999999999999999999999999987 4567889999999999999999999999999999864
No 113
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.90 E-value=4.7e-09 Score=96.57 Aligned_cols=70 Identities=26% Similarity=0.414 Sum_probs=65.7
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
|++|.|+|.++.++|+||+++.+.+|++|.++++| ....+|.+.|++||.++|+|+++|++++++.||+|
T Consensus 1 G~iv~g~V~~i~~~~~~v~l~~~~~g~l~~~e~~~-~~~~~~~~~~~~Gd~i~~~i~~~~~~~~~i~lS~~ 70 (70)
T cd05687 1 GDIVKGTVVSVDDDEVLVDIGYKSEGIIPISEFSD-DPIENGEDEVKVGDEVEVYVLRVEDEEGNVVLSKR 70 (70)
T ss_pred CCEEEEEEEEEeCCEEEEEeCCCceEEEEHHHhCc-cccCCHhHcCCCCCEEEEEEEEEECCCCeEEEEeC
Confidence 78999999999999999999889999999999998 56778999999999999999999988899999985
No 114
>PRK08059 general stress protein 13; Validated
Probab=98.89 E-value=5.7e-09 Score=106.87 Aligned_cols=81 Identities=33% Similarity=0.626 Sum_probs=74.7
Q ss_pred cccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccC
Q psy14505 1337 FRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKD 1416 (1619)
Q Consensus 1337 ~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~ 1416 (1619)
.++++|+++.|+|+++.++|+||++.++++|++|.+++++ ....++.+.|++||.|+|+|+++|++++++.||+|++..
T Consensus 3 ~~~k~G~iv~G~V~~i~~~G~fV~i~~~~~Gli~~sel~~-~~~~~~~~~~~vGD~I~vkI~~id~~~~~i~lslk~~~~ 81 (123)
T PRK08059 3 SQYEVGSVVTGKVTGIQPYGAFVALDEETQGLVHISEITH-GFVKDIHDFLSVGDEVKVKVLSVDEEKGKISLSIRATEE 81 (123)
T ss_pred ccCCCCCEEEEEEEEEecceEEEEECCCCEEEEEHHHCCc-ccccCHHHcCCCCCEEEEEEEEEECCCCeEEEEEEEccc
Confidence 3588999999999999999999999999999999999987 456778889999999999999999999999999999877
Q ss_pred CC
Q psy14505 1417 NP 1418 (1619)
Q Consensus 1417 ~~ 1418 (1619)
+|
T Consensus 82 ~~ 83 (123)
T PRK08059 82 AP 83 (123)
T ss_pred Cc
Confidence 66
No 115
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=98.89 E-value=2.4e-09 Score=138.38 Aligned_cols=118 Identities=20% Similarity=0.319 Sum_probs=91.6
Q ss_pred cCCCEEEEEEEEeecccceEEEeeecccCCCCcccccccccceEEE-EEEEEEecceEEEeeCCCeEEEEeCCCCCCCCC
Q psy14505 1388 QLNDTVEIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIK-GIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDP 1466 (1619)
Q Consensus 1388 ~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~-G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~ 1466 (1619)
.+.+.-.+.|...|.+ +++.+.. -...+....++|+++. |+|++|++||+||++.++++||||.|+++| ++
T Consensus 720 di~ddg~V~I~a~d~~------~i~~A~~-~I~~l~~~~~vG~iy~~g~V~~I~~FGaFVeL~~g~EGLVHISeLs~-~r 791 (891)
T PLN00207 720 DTQDDGTVKITAKDLS------SLEKSKA-IISSLTMVPTVGDIYRNCEIKSIAPYGAFVEIAPGREGLCHISELSS-NW 791 (891)
T ss_pred CcCCCeeEEEEeCCHH------HHHHHHH-HHHHHhcCcCCCcEEECcEEEEEeccEEEEEeCCCCEEEEEhhhcCC-cc
Confidence 3556677777776643 2222210 0111112247899995 699999999999999999999999999997 55
Q ss_pred ccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCcccccccCC
Q psy14505 1467 GEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPFNNYVNIND 1514 (1619)
Q Consensus 1467 ~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~~~~~ 1514 (1619)
..++.+.|++||.|+|+|+++|+ ++||.||+|.+.++||....+..+
T Consensus 792 v~~~~dv~kvGD~V~VkVi~ID~-~grI~LSlK~l~~~Pw~~~~~~~~ 838 (891)
T PLN00207 792 LAKPEDAFKVGDRIDVKLIEVND-KGQLRLSRRALLPEANSEKSSQKQ 838 (891)
T ss_pred ccCHHHhcCCCCEEEEEEEEECC-CCcEEEEEeccccCchhhhhhhhh
Confidence 68888999999999999999997 899999999999999997765433
No 116
>PRK05807 hypothetical protein; Provisional
Probab=98.86 E-value=9.6e-09 Score=106.63 Aligned_cols=75 Identities=36% Similarity=0.568 Sum_probs=69.4
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeeccc
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCK 1415 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~ 1415 (1619)
.+++|++|.|+|+.+.++|+||++ ++..||||++++++ ....++...|++||.|+|+|+++|+ ++++.||+|+..
T Consensus 2 ~~~vG~vv~G~Vt~i~~~GafV~L-~~~~Glvhiseis~-~~v~~~~~~~kvGd~V~VkV~~id~-~gkI~LSlk~~~ 76 (136)
T PRK05807 2 TLKAGSILEGTVVNITNFGAFVEV-EGKTGLVHISEVAD-TYVKDIREHLKEQDKVKVKVISIDD-NGKISLSIKQAM 76 (136)
T ss_pred CccCCCEEEEEEEEEECCeEEEEE-CCEEEEEEhhhccc-ccccCccccCCCCCEEEEEEEEECC-CCcEEEEEEecc
Confidence 367999999999999999999999 68999999999998 5677888999999999999999997 799999999875
No 117
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=98.86 E-value=3.4e-09 Score=137.00 Aligned_cols=115 Identities=24% Similarity=0.352 Sum_probs=92.4
Q ss_pred cCCEEEEEEEEeecCCCeEEEeeeccccCCccccccccccceeEE-EEEEEEcCCeEEEEEcCCEEEEEeccccCccccC
Q psy14505 1302 IGQDISTKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLL-GKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKN 1380 (1619)
Q Consensus 1302 vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~-g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~ 1380 (1619)
+.+...+.|+..|.+ ++..+. .--.......++|+++. |+|+++.+||+||++.++++||||+|+|+| .+.
T Consensus 721 i~ddg~V~I~a~d~~------~i~~A~-~~I~~l~~~~~vG~iy~~g~V~~I~~FGaFVeL~~g~EGLVHISeLs~-~rv 792 (891)
T PLN00207 721 TQDDGTVKITAKDLS------SLEKSK-AIISSLTMVPTVGDIYRNCEIKSIAPYGAFVEIAPGREGLCHISELSS-NWL 792 (891)
T ss_pred cCCCeeEEEEeCCHH------HHHHHH-HHHHHHhcCcCCCcEEECcEEEEEeccEEEEEeCCCCEEEEEhhhcCC-ccc
Confidence 556677777777754 222211 00011222467999996 699999999999999999999999999999 567
Q ss_pred CCccccccCCCEEEEEEEEeecccceEEEeeecccCCCCcccccc
Q psy14505 1381 VTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDNPWENFSII 1425 (1619)
Q Consensus 1381 ~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~ 1425 (1619)
.++.+.|++||.|+|+|+++|+ +++|.||+|....+||..+.+.
T Consensus 793 ~~~~dv~kvGD~V~VkVi~ID~-~grI~LSlK~l~~~Pw~~~~~~ 836 (891)
T PLN00207 793 AKPEDAFKVGDRIDVKLIEVND-KGQLRLSRRALLPEANSEKSSQ 836 (891)
T ss_pred cCHHHhcCCCCEEEEEEEEECC-CCcEEEEEeccccCchhhhhhh
Confidence 8999999999999999999997 7899999999999999988765
No 118
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.86 E-value=8e-09 Score=94.34 Aligned_cols=69 Identities=36% Similarity=0.722 Sum_probs=64.3
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|+++.|+|++++++|+||++.+++.|++|.+++++ .+..++.+.|++||.|+|+|+++|+ ++++.||+|
T Consensus 1 G~~~~g~V~~i~~~g~~v~i~~~~~g~l~~~~l~~-~~~~~~~~~~~~Gd~v~v~v~~~~~-~~~i~ls~k 69 (69)
T cd05692 1 GSVVEGTVTRLKPFGAFVELGGGISGLVHISQIAH-KRVKDVKDVLKEGDKVKVKVLSIDA-RGRISLSIK 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEECCCCEEEEEhHHcCC-cccCCHHHccCCCCEEEEEEEEECC-CCcEEEEEC
Confidence 78999999999999999999999999999999996 5567788899999999999999998 899999986
No 119
>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide. The DEAH-box RNA helicases are thought to play key roles in pre-mRNA splicing and DHX8 facilitates nuclear export of spliced mRNA by releasing the RNA from the spliceosome. DHX8 is also known as HRH1 (human RNA helicase 1) in Homo sapiens and PRP22 in Saccharomyces cerevisiae.
Probab=98.84 E-value=1.2e-08 Score=96.23 Aligned_cols=73 Identities=37% Similarity=0.669 Sum_probs=64.9
Q ss_pred ceeEEEEEEEEcCCeEEEEEc---CCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccC
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIE---KGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKD 1416 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~---~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~ 1416 (1619)
|+++.|+|+++.++|+||+++ ++.+||+|.++++|.....++.+.|++||.|+|+|+++| .+++.+|+|...+
T Consensus 1 G~~~~g~V~~v~~~G~fv~l~~~~~~~~gll~~s~l~~~~~~~~~~~~~~~Gd~v~v~v~~vd--~~~i~~s~k~~~~ 76 (79)
T cd05684 1 GKIYKGKVTSIMDFGCFVQLEGLKGRKEGLVHISQLSFEGRVANPSDVVKRGQKVKVKVISIQ--NGKISLSMKDVDQ 76 (79)
T ss_pred CCEEEEEEEEEEeeeEEEEEeCCCCCcEEEEEhHhccCCCCcCChhheeCCCCEEEEEEEEEe--CCEEEEEEEeccc
Confidence 789999999999999999998 479999999999984322788889999999999999999 8899999998644
No 120
>cd04465 S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain.While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 2 of the Escherichia coli and Homo sapiens RPS1 (ec2 and hs2, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.84 E-value=1.1e-08 Score=93.30 Aligned_cols=67 Identities=22% Similarity=0.425 Sum_probs=59.7
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
|+++.|+|+++.++|+||++ +++.||+|.+++++ ....++.. .+||.++|+|+++|.+++++.||.|
T Consensus 1 G~iv~g~V~~v~~~G~~v~l-~g~~gfip~s~~~~-~~~~~~~~--~vG~~i~~~i~~vd~~~~~i~lS~k 67 (67)
T cd04465 1 GEIVEGKVTEKVKGGLIVDI-EGVRAFLPASQVDL-RPVEDLDE--YVGKELKFKIIEIDRERNNIVLSRR 67 (67)
T ss_pred CCEEEEEEEEEECCeEEEEE-CCEEEEEEHHHCCC-cccCChHH--hCCCEEEEEEEEEeCCCCEEEEEcC
Confidence 78999999999999999999 88999999999996 44445544 4999999999999999999999975
No 121
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.83 E-value=9.7e-09 Score=93.78 Aligned_cols=69 Identities=41% Similarity=0.687 Sum_probs=64.2
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
|+++.|+|+++.++|+||+++++.+|++|.++++| ....++.+.|++||.++|+|+++|+ ++++.||+|
T Consensus 1 G~~~~g~V~~i~~~g~~v~i~~~~~g~l~~~~l~~-~~~~~~~~~~~~Gd~v~v~v~~~~~-~~~i~ls~k 69 (69)
T cd05692 1 GSVVEGTVTRLKPFGAFVELGGGISGLVHISQIAH-KRVKDVKDVLKEGDKVKVKVLSIDA-RGRISLSIK 69 (69)
T ss_pred CCEEEEEEEEEEeeeEEEEECCCCEEEEEhHHcCC-cccCCHHHccCCCCEEEEEEEEECC-CCcEEEEEC
Confidence 78999999999999999999989999999999988 5567888899999999999999998 899999986
No 122
>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.82 E-value=1.1e-08 Score=98.19 Aligned_cols=74 Identities=19% Similarity=0.311 Sum_probs=67.2
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCC---CCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSW---TDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~---~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
++|++|.|.|++++++|++|.+.+++.|++|.++++| +....++.+.|++||.|+|+|++++++ +++.||++..
T Consensus 5 ~~GdiV~g~V~~i~~~g~~v~i~~~~~G~l~~se~~~~~~~~~~~~~~~~l~vGd~i~~~V~~~~~~-~~i~LS~~~~ 81 (86)
T cd05789 5 EVGDVVIGRVTEVGFKRWKVDINSPYDAVLPLSEVNLPRTDEDELNMRSYLDEGDLIVAEVQSVDSD-GSVSLHTRSL 81 (86)
T ss_pred CCCCEEEEEEEEECCCEEEEECCCCeEEEEEHHHccCCCCccchHHHHhhCCCCCEEEEEEEEECCC-CCEEEEeCcc
Confidence 6799999999999999999999999999999999996 345567778899999999999999976 9999999874
No 123
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.
Probab=98.81 E-value=9.6e-09 Score=93.57 Aligned_cols=68 Identities=35% Similarity=0.568 Sum_probs=62.8
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
|+++.|+|++++++|+||++.++..|++|.+++++ ....++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 g~~~~g~V~~i~~~G~fv~l~~~~~g~~~~~~l~~-~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05685 1 GMVLEGVVTNVTDFGAFVDIGVKQDGLIHISKMAD-RFVSHPSDVVSVGDIVEVKVISIDEERGRISLS 68 (68)
T ss_pred CCEEEEEEEEEecccEEEEcCCCCEEEEEHHHCCC-ccccCHHHhcCCCCEEEEEEEEEECCCCEEecC
Confidence 68899999999999999999999999999999995 556678888999999999999999999999886
No 124
>cd04465 S1_RPS1_repeat_ec2_hs2 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain.While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 2 of the Escherichia coli and Homo sapiens RPS1 (ec2 and hs2, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.81 E-value=1.8e-08 Score=91.90 Aligned_cols=67 Identities=27% Similarity=0.524 Sum_probs=62.2
Q ss_pred CcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1257 GCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMK 1325 (1619)
Q Consensus 1257 G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK 1325 (1619)
|++++|+|+++.++|++|+++|++||+|.+++++.+..++... +|+.++|+|+++|++++++.||+|
T Consensus 1 G~iv~g~V~~v~~~G~~v~l~g~~gfip~s~~~~~~~~~~~~~--vG~~i~~~i~~vd~~~~~i~lS~k 67 (67)
T cd04465 1 GEIVEGKVTEKVKGGLIVDIEGVRAFLPASQVDLRPVEDLDEY--VGKELKFKIIEIDRERNNIVLSRR 67 (67)
T ss_pred CCEEEEEEEEEECCeEEEEECCEEEEEEHHHCCCcccCChHHh--CCCEEEEEEEEEeCCCCEEEEEcC
Confidence 7899999999999999999999999999999999877777663 999999999999999999999975
No 125
>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.77 E-value=1.6e-08 Score=96.98 Aligned_cols=75 Identities=15% Similarity=0.220 Sum_probs=66.6
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCc---cccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDW---INKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~---~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
+++|++|.|+|+++.++|++|+++++++|++|.++++| .....++.+.+++||.++|+|++++++ +++.||+++.
T Consensus 4 p~~GdiV~g~V~~i~~~g~~v~i~~~~~G~l~~se~~~~~~~~~~~~~~~~l~vGd~i~~~V~~~~~~-~~i~LS~~~~ 81 (86)
T cd05789 4 PEVGDVVIGRVTEVGFKRWKVDINSPYDAVLPLSEVNLPRTDEDELNMRSYLDEGDLIVAEVQSVDSD-GSVSLHTRSL 81 (86)
T ss_pred CCCCCEEEEEEEEECCCEEEEECCCCeEEEEEHHHccCCCCccchHHHHhhCCCCCEEEEEEEEECCC-CCEEEEeCcc
Confidence 57999999999999999999999999999999999986 233356677899999999999999876 8999999874
No 126
>smart00316 S1 Ribosomal protein S1-like RNA-binding domain.
Probab=98.75 E-value=2.8e-08 Score=91.14 Aligned_cols=71 Identities=38% Similarity=0.628 Sum_probs=65.5
Q ss_pred cceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
+|+++.|.|.+++++|+||++.+++.|++|.+++++ .+..++.+.|++||.|.|+|++++++++++.||++
T Consensus 2 ~G~~v~g~V~~v~~~g~~v~i~~~~~g~l~~~~~~~-~~~~~~~~~~~~G~~v~~~V~~~~~~~~~i~ls~~ 72 (72)
T smart00316 2 VGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSD-KRVKDPEEVLKVGDEVKVKVLSVDEEKGRIILSLK 72 (72)
T ss_pred CCCEEEEEEEEEEccEEEEEeCCCCEEEEEHHHCCc-cccCCHHHeecCCCEEEEEEEEEeCCCCEEEEEeC
Confidence 699999999999999999999989999999999995 54566778899999999999999999999999985
No 127
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.
Probab=98.75 E-value=2e-08 Score=91.48 Aligned_cols=68 Identities=49% Similarity=0.721 Sum_probs=62.4
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
|+++.|+|+++.++|+||++.++..|++|.+++++ ....++.+.|++||.++|+|+++|++++++.||
T Consensus 1 g~~~~g~V~~i~~~G~fv~l~~~~~g~~~~~~l~~-~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05685 1 GMVLEGVVTNVTDFGAFVDIGVKQDGLIHISKMAD-RFVSHPSDVVSVGDIVEVKVISIDEERGRISLS 68 (68)
T ss_pred CCEEEEEEEEEecccEEEEcCCCCEEEEEHHHCCC-ccccCHHHhcCCCCEEEEEEEEEECCCCEEecC
Confidence 78899999999999999999999999999999987 445678888999999999999999999998876
No 128
>PHA02945 interferon resistance protein; Provisional
Probab=98.75 E-value=3.4e-08 Score=91.19 Aligned_cols=72 Identities=15% Similarity=0.273 Sum_probs=65.0
Q ss_pred ccceEEEEEEEEEecceEEEeeCC--CeEEEEeCCCC--CCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG--NIDGLIHLSDL--SWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~--~v~Glv~~sel--s~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
.+|+++.|+|.. .++|+||.+.. |..||+|.|+. + +..+++ .+++ +||+|.|+|+.+|+.++.|.||+|...
T Consensus 10 ~~GelvigtV~~-~d~ga~v~L~EY~g~eg~i~~seveva-~~wvK~-rd~l-~GqkvV~KVirVd~~kg~IDlSlK~V~ 85 (88)
T PHA02945 10 NVGDVLKGKVYE-NGYALYIDLFDYPHSEAILAESVQMHM-NRYFKY-RDKL-VGKTVKVKVIRVDYTKGYIDVNYKRMC 85 (88)
T ss_pred CCCcEEEEEEEe-cCceEEEEecccCCcEEEEEeehhhhc-cceEee-eeEe-cCCEEEEEEEEECCCCCEEEeEeeEcc
Confidence 579999999999 99999999964 99999999966 7 466777 7888 999999999999999999999999864
No 129
>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.74 E-value=2.6e-08 Score=90.85 Aligned_cols=68 Identities=47% Similarity=0.861 Sum_probs=62.6
Q ss_pred cceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
+|+++.|.|.+++++|+||++. ++.|++|.++++| .+..++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 ~g~~~~g~V~~v~~~g~~v~l~-~~~g~l~~~e~~~-~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05688 1 EGDVVEGTVKSITDFGAFVDLG-GVDGLLHISDMSW-GRVKHPSEVVNVGDEVEVKVLKIDKERKRISLG 68 (68)
T ss_pred CCCEEEEEEEEEEeeeEEEEEC-CeEEEEEhHHCCC-ccccCHhHEECCCCEEEEEEEEEECCCCEEecC
Confidence 4899999999999999999996 7999999999996 566778889999999999999999999999886
No 130
>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA. This family is classified based on the S1 domain. PNPase nonspecifically removes the 3' nucleotides from mRNA, but is stalled by double-stranded RNA structures such as a stem-loop. Evidence shows that a minimum of 7-10 unpaired nucleotides at the 3' end, is required for PNPase degradation. It is suggested that PNPase also dephosphorylates the RNA 5' end. This additional activity may regulate the 5'-dependent activity of RNaseE in vivo.
Probab=98.71 E-value=4.1e-08 Score=89.56 Aligned_cols=68 Identities=35% Similarity=0.586 Sum_probs=62.5
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
|+++.|.|.++.++|+||++.++..|++|.+++++ .+..++.+.|++||.|+|+|.++|+ ++++.||+
T Consensus 1 g~~~~g~V~~v~~~G~~v~l~~~~~g~l~~~~l~~-~~~~~~~~~~~~Gd~v~v~v~~~d~-~~~i~ls~ 68 (68)
T cd04472 1 GKIYEGKVVKIKDFGAFVEILPGKDGLVHISELSD-ERVEKVEDVLKVGDEVKVKVIEVDD-RGRISLSR 68 (68)
T ss_pred CCEEEEEEEEEEEeEEEEEeCCCCEEEEEhHHcCC-ccccCHHHccCCCCEEEEEEEEECC-CCcEEeeC
Confidence 68899999999999999999999999999999996 4566777889999999999999998 99999884
No 131
>smart00316 S1 Ribosomal protein S1-like RNA-binding domain.
Probab=98.69 E-value=5.4e-08 Score=89.23 Aligned_cols=72 Identities=36% Similarity=0.694 Sum_probs=65.4
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
++|+++.|+|.++.++|+||++++++.|++|.+++++ ....++...|++||.+.|+|++++++++++.||++
T Consensus 1 ~~G~~v~g~V~~v~~~g~~v~i~~~~~g~l~~~~~~~-~~~~~~~~~~~~G~~v~~~V~~~~~~~~~i~ls~~ 72 (72)
T smart00316 1 EVGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSD-KRVKDPEEVLKVGDEVKVKVLSVDEEKGRIILSLK 72 (72)
T ss_pred CCCCEEEEEEEEEEccEEEEEeCCCCEEEEEHHHCCc-cccCCHHHeecCCCEEEEEEEEEeCCCCEEEEEeC
Confidence 3699999999999999999999889999999999987 33556778899999999999999999899999975
No 132
>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important role in the degradation of RNA with extensive secondary structure, such as rRNA, tRNA, and certain mRNA which contains repetitive extragenic palindromic sequences. The C-terminal S1 domain binds ssRNA.
Probab=98.67 E-value=6.9e-08 Score=91.88 Aligned_cols=71 Identities=30% Similarity=0.665 Sum_probs=62.2
Q ss_pred cceEEEEEEEEEecceEEEeeCC-CeEEEEeCCCCCCCCCc----------cccccCCCCCCEEEEEEEEeecCCCeEEE
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDG-NIDGLIHLSDLSWTDPG----------EEIIRNFKKGDEIEAIILSIDVEKERISL 1496 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~-~v~Glv~~sels~~~~~----------~~~~~~f~vGq~V~~~Vl~vd~e~~ri~L 1496 (1619)
+|+++.|.|++++++|+||++.+ ++.|++|.++++|+... ..+...|++||.|+|+|.++|++++++.|
T Consensus 1 ~g~~~~g~V~~v~~~G~fv~l~~~~~~G~v~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~gd~v~v~v~~vd~~~~~i~~ 80 (83)
T cd04471 1 VGEEFDGVISGVTSFGLFVELDNLTVEGLVHVSTLGDDYYEFDEENHALVGERTGKVFRLGDKVKVRVVRVDLDRRKIDF 80 (83)
T ss_pred CCCEEEEEEEeEEeeeEEEEecCCCEEEEEEEEecCCCcEEEcccceEEEeccCCCEEcCCCEEEEEEEEeccccCEEEE
Confidence 38899999999999999999998 89999999999864321 13457899999999999999999999999
Q ss_pred ee
Q psy14505 1497 GI 1498 (1619)
Q Consensus 1497 Sl 1498 (1619)
++
T Consensus 81 ~l 82 (83)
T cd04471 81 EL 82 (83)
T ss_pred EE
Confidence 86
No 133
>PHA02945 interferon resistance protein; Provisional
Probab=98.67 E-value=8.7e-08 Score=88.57 Aligned_cols=72 Identities=24% Similarity=0.360 Sum_probs=66.4
Q ss_pred cCCCcEEEEEEEEEecCeEEEEeC---CEEEEeecccc--CccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccc
Q psy14505 1254 LKEGCTVKGVVKNITDYGAFIDLG---GIDGLLHITDI--AWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLG 1328 (1619)
Q Consensus 1254 l~~G~iv~g~V~~v~~~G~~V~l~---gi~g~l~~sel--s~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~ 1328 (1619)
-.+|+++-|+|.. .++|+||.|. |.+||+|.++. +..++++ ++.+ +||++.|+|+.+|+.++.|.||+|...
T Consensus 9 P~~GelvigtV~~-~d~ga~v~L~EY~g~eg~i~~seveva~~wvK~-rd~l-~GqkvV~KVirVd~~kg~IDlSlK~V~ 85 (88)
T PHA02945 9 PNVGDVLKGKVYE-NGYALYIDLFDYPHSEAILAESVQMHMNRYFKY-RDKL-VGKTVKVKVIRVDYTKGYIDVNYKRMC 85 (88)
T ss_pred CCCCcEEEEEEEe-cCceEEEEecccCCcEEEEEeehhhhccceEee-eeEe-cCCEEEEEEEEECCCCCEEEeEeeEcc
Confidence 3789999999999 9999999984 89999999965 9999999 8888 999999999999999999999999764
No 134
>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA. This family is classified based on the S1 domain. PNPase nonspecifically removes the 3' nucleotides from mRNA, but is stalled by double-stranded RNA structures such as a stem-loop. Evidence shows that a minimum of 7-10 unpaired nucleotides at the 3' end, is required for PNPase degradation. It is suggested that PNPase also dephosphorylates the RNA 5' end. This additional activity may regulate the 5'-dependent activity of RNaseE in vivo.
Probab=98.67 E-value=5.6e-08 Score=88.66 Aligned_cols=68 Identities=40% Similarity=0.685 Sum_probs=62.4
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
|+++.|+|+++.++|+||+++++..|++|.++++| ....++.+.|++||.++|+|+++|+ .+++.||+
T Consensus 1 g~~~~g~V~~v~~~G~~v~l~~~~~g~l~~~~l~~-~~~~~~~~~~~~Gd~v~v~v~~~d~-~~~i~ls~ 68 (68)
T cd04472 1 GKIYEGKVVKIKDFGAFVEILPGKDGLVHISELSD-ERVEKVEDVLKVGDEVKVKVIEVDD-RGRISLSR 68 (68)
T ss_pred CCEEEEEEEEEEEeEEEEEeCCCCEEEEEhHHcCC-ccccCHHHccCCCCEEEEEEEEECC-CCcEEeeC
Confidence 68899999999999999999989999999999988 4566778899999999999999998 88998874
No 135
>PRK13947 shikimate kinase; Provisional
Probab=98.66 E-value=5.5e-08 Score=105.98 Aligned_cols=153 Identities=20% Similarity=0.196 Sum_probs=93.7
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|++|+||+++++.||+++|++|+|++.+.+.. .|.++. +.+.+
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~~~~~~------~g~~~~--~~~~~------------------------ 50 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDKEIEKM------TGMTVA--EIFEK------------------------ 50 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCEEECchhhhhh------cCCcHH--HHHHH------------------------
Confidence 3667799999999999999999999999998865522 344321 00100
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecC-------CCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPD-------AFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~-------a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
.-.+.+|....++.++++..++||+ ++..|.++-|+ ..+.|||+||++.+++|...+
T Consensus 51 -------------~ge~~~~~~e~~~~~~l~~~~~~vi-~~g~g~vl~~~~~~~l~~~~~vv~L~~~~~~l~~Rl~~r-- 114 (171)
T PRK13947 51 -------------DGEVRFRSEEKLLVKKLARLKNLVI-ATGGGVVLNPENVVQLRKNGVVICLKARPEVILRRVGKK-- 114 (171)
T ss_pred -------------hChHHHHHHHHHHHHHHhhcCCeEE-ECCCCCcCCHHHHHHHHhCCEEEEEECCHHHHHHHhcCC--
Confidence 0112455556666677777777887 65344444332 225899999999999993211
Q ss_pred hcCCCC-CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhh
Q psy14505 1014 QKGFSV-SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILD 1068 (1619)
Q Consensus 1014 ~~~~~~-~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~ 1068 (1619)
.+.+. ...+..+.+.+-+..+.. +.. ..+++|||+.++++++++.|.+
T Consensus 115 -~~rp~~~~~~~~~~i~~~~~~r~~-----~y~-~ad~~Idt~~~~~~~i~~~I~~ 163 (171)
T PRK13947 115 -KSRPLLMVGDPEERIKELLKEREP-----FYD-FADYTIDTGDMTIDEVAEEIIK 163 (171)
T ss_pred -CCCCCCCCCChHHHHHHHHHHHHH-----HHH-hcCEEEECCCCCHHHHHHHHHH
Confidence 11111 112223333222222111 111 1239999999999999999987
No 136
>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=98.65 E-value=9.9e-08 Score=86.98 Aligned_cols=68 Identities=60% Similarity=1.164 Sum_probs=64.3
Q ss_pred CCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEe
Q psy14505 1256 EGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLG 1323 (1619)
Q Consensus 1256 ~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LS 1323 (1619)
+|+++.|+|.++.++|++|++++..|++|.+++++.+..++.+.|++||.++|+|+++|++++++.||
T Consensus 1 ~g~~~~g~V~~v~~~g~~v~l~~~~g~l~~~e~~~~~~~~~~~~~~~Gd~v~v~i~~vd~~~~~i~ls 68 (68)
T cd05688 1 EGDVVEGTVKSITDFGAFVDLGGVDGLLHISDMSWGRVKHPSEVVNVGDEVEVKVLKIDKERKRISLG 68 (68)
T ss_pred CCCEEEEEEEEEEeeeEEEEECCeEEEEEhHHCCCccccCHhHEECCCCEEEEEEEEEECCCCEEecC
Confidence 58999999999999999999999999999999999888888888999999999999999999998876
No 137
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=98.65 E-value=4.3e-08 Score=124.52 Aligned_cols=71 Identities=30% Similarity=0.483 Sum_probs=66.1
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCC---CCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLS---WTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels---~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
+++|+++.|+|++|++||+||++.+|++||||.|+++ |...+.++.+.|++||.|+|+|+++| +++|+.|+
T Consensus 645 ~~vG~i~~GkV~~I~dfGaFVel~~G~eGLvHISeisdls~~~rv~~~~dv~kvGd~V~VKVl~ID-~~gKI~L~ 718 (719)
T TIGR02696 645 PEVGERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIADID-DRGKLSLV 718 (719)
T ss_pred CCCCCEEEEEEEEEECceEEEEecCCceEEEEhhhccccccccCcCCHHHcCCCCCEEEEEEEEEC-CCCCeeec
Confidence 5789999999999999999999999999999999886 66788899999999999999999999 48899886
No 138
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=98.64 E-value=8.6e-08 Score=92.06 Aligned_cols=76 Identities=20% Similarity=0.280 Sum_probs=66.3
Q ss_pred ccccceeEEEEEEEEcCC--eEEEEEcCCEEEEEeccccCcc--ccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1338 RYPRGTRLLGKVTNLTDY--GAFVEIEKGIEGLVHISEMDWI--NKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~--G~fV~l~~gv~GlV~~sels~~--~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
.+++|+++.|+|+++.++ |+||+++++.+||+|.++++|. ....++.+.+++||.|.|+|+......+.-.||.+.
T Consensus 4 ~~~~G~iy~g~V~~i~~~~~GaFV~l~~g~~Gllh~seis~~~~~~v~~~~~~~~~Gd~v~VqV~~~~~~~K~~~lt~~~ 83 (88)
T cd04453 4 EPIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEPIGTKGPRLTTNI 83 (88)
T ss_pred cCCCCCEEEEEEEEeccCCcEEEEEeCCCCEEEEEhHHcCchhccccCCHHHcCCCCCEEEEEEEEecCCCCCceEEEEE
Confidence 578999999999999997 9999999999999999999983 246678889999999999999987777777777654
No 139
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=98.64 E-value=2e-07 Score=103.00 Aligned_cols=103 Identities=23% Similarity=0.330 Sum_probs=84.4
Q ss_pred ccCCCEEEEEE---EEeecccceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeC----------CCeE
Q psy14505 1387 VQLNDTVEIMI---LEINEERRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLD----------GNID 1453 (1619)
Q Consensus 1387 ~~vG~~V~vrV---l~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~----------~~v~ 1453 (1619)
|..+..+.+.+ +++|.+++++.| +||..+...+++|++|.|+|+++.++|+||++. .++.
T Consensus 27 y~~~~~i~as~~G~~~id~~~~~Isv-------~P~~~~~~~~~~GdiV~GkV~~i~~~g~~V~I~~~~~~~~~l~~~~~ 99 (189)
T PRK09521 27 YEDNGEVYASVVGKVFIDDINRKISV-------IPFKKTPPLLKKGDIVYGRVVDVKEQRALVRIVSIEGSERELATSKL 99 (189)
T ss_pred EeeCCEEEEEeeEEEEEcCCCCEEEE-------ecCcCCCCCCCCCCEEEEEEEEEcCCeEEEEEEEecccccccCCCce
Confidence 44455565554 455767777766 478776666789999999999999999999984 3689
Q ss_pred EEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1454 GLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1454 Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
|++|.+++++ ....++.+.|++||.|.|+|++++ +++.||+|.
T Consensus 100 G~l~~s~i~~-~~~~~~~~~~~~GD~V~akV~~i~---~~i~LS~k~ 142 (189)
T PRK09521 100 AYIHISQVSD-GYVESLTDAFKIGDIVRAKVISYT---DPLQLSTKG 142 (189)
T ss_pred eeEEhhHcCh-hhhhhHHhccCCCCEEEEEEEecC---CcEEEEEec
Confidence 9999999996 555678889999999999999998 799999986
No 140
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=98.64 E-value=5.8e-08 Score=107.08 Aligned_cols=85 Identities=25% Similarity=0.415 Sum_probs=75.2
Q ss_pred CCCCCeEEEEEEEEecCceEEEEecC--CeEEEEEccccccccc----cCcCCCCEEEEEEEEEeCCCCEEEEeecchHH
Q psy14505 1513 NDKGSLVNGIIKSIDTNKGAIIQLSN--EVEGYLRISEEDNKHE----KKLKIGENIDVLTVLIDHKTRYIQLSFKKKEV 1586 (1619)
Q Consensus 1513 ~~~G~~v~g~V~~i~~~~G~~V~l~~--gv~G~i~~~~~~~~~~----~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~~ 1586 (1619)
+..|++|-|+|.+|. +||+||.|.. |++||+|.|+++.... +.+++||+|-|+|++||++++.|.||||..-.
T Consensus 9 PeeGEiVv~tV~~V~-~~GAyv~L~EY~g~Eg~ihiSEvas~wVknIrd~vkegqkvV~kVlrVd~~rg~IDLSlkrV~~ 87 (269)
T COG1093 9 PEEGEIVVGTVKQVA-DYGAYVELDEYPGKEGFIHISEVASGWVKNIRDYVKEGQKVVAKVLRVDPKRGHIDLSLKRVTE 87 (269)
T ss_pred CCCCcEEEEEEEEee-ccccEEEeeccCCeeeeEEHHHHHHHHHHHHHHHhhcCCeEEEEEEEEcCCCCeEeeehhhCCH
Confidence 458999999999996 9999999977 8999999999976543 78999999999999999999999999999988
Q ss_pred HHHHHHHHhhcc
Q psy14505 1587 IKKKKLLTSINA 1598 (1619)
Q Consensus 1587 ~~~~~~~~~~~~ 1598 (1619)
.++++.++.++.
T Consensus 88 ~q~~~k~~~wk~ 99 (269)
T COG1093 88 HQRRKKIQEWKK 99 (269)
T ss_pred HHHHHHHHHHHH
Confidence 888776655533
No 141
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=98.62 E-value=8.6e-08 Score=110.12 Aligned_cols=76 Identities=29% Similarity=0.577 Sum_probs=69.8
Q ss_pred ccceEEEEEEEEEecceEEEeeCC--CeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcC
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG--NIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEG 1503 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~--~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~ 1503 (1619)
++|++|.|+|+++.++|+||++.+ ++.|++|.+++++ +...++.+.|++||.|.|+|+++|++++++.||+|....
T Consensus 7 ~~GdiV~G~V~~I~~~G~fV~L~e~~gieGlI~iSEls~-~~i~~i~~~~kvGd~V~vkVi~VD~~k~~I~LSlK~v~~ 84 (262)
T PRK03987 7 EEGELVVGTVKEVKDFGAFVTLDEYPGKEGFIHISEVAS-GWVKNIRDHVKEGQKVVCKVIRVDPRKGHIDLSLKRVNE 84 (262)
T ss_pred CCCCEEEEEEEEEECCEEEEEECCCCCcEEEEEHHHcCc-ccccCHHHhCCCCCEEEEEEEEEecccCeEEEEEEeccc
Confidence 579999999999999999999975 8999999999995 566788899999999999999999999999999997653
No 142
>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 11 (hs11) and S. cerevisiae S1 repeat 8 (sc8). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.60 E-value=1.1e-07 Score=87.45 Aligned_cols=64 Identities=27% Similarity=0.394 Sum_probs=58.0
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCC-CccccccCCCCCCEEEEEEEEeecCCC
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTD-PGEEIIRNFKKGDEIEAIILSIDVEKE 1492 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~-~~~~~~~~f~vGq~V~~~Vl~vd~e~~ 1492 (1619)
|++|.|+|+++.++|+||++.++++|++|.++++++. ...++.+.|++||.|+|+|+++|.++.
T Consensus 1 G~iV~g~V~~i~~~gi~v~l~~~i~g~i~~~~i~~~~~~~~~~~~~~~~Gd~i~~kVl~~d~~~~ 65 (70)
T cd05702 1 GDLVKAKVKSVKPTQLNVQLADNVHGRIHVSEVFDEWPDGKNPLSKFKIGQKIKARVIGGHDAKT 65 (70)
T ss_pred CCEEEEEEEEEECCcEEEEeCCCcEEEEEHHHhccccccccChhHhCCCCCEEEEEEEEEeCccc
Confidence 7899999999999999999999999999999999642 467888899999999999999997654
No 143
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=98.59 E-value=1.3e-07 Score=90.83 Aligned_cols=75 Identities=21% Similarity=0.282 Sum_probs=65.6
Q ss_pred cccceEEEEEEEEEecc--eEEEeeCCCeEEEEeCCCCCCC--CCccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1426 HKKGEKIKGIIKSITDF--GIFIGLDGNIDGLIHLSDLSWT--DPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~--GvfV~~~~~v~Glv~~sels~~--~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
+++|+++.|+|+++.++ |+||++.++..||+|.++++|. ..+.++.+.|++||.|.|+|+......+.-.||.+.
T Consensus 5 ~~~G~iy~g~V~~i~~~~~GaFV~l~~g~~Gllh~seis~~~~~~v~~~~~~~~~Gd~v~VqV~~~~~~~K~~~lt~~~ 83 (88)
T cd04453 5 PIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEPIGTKGPRLTTNI 83 (88)
T ss_pred CCCCCEEEEEEEEeccCCcEEEEEeCCCCEEEEEhHHcCchhccccCCHHHcCCCCCEEEEEEEEecCCCCCceEEEEE
Confidence 46899999999999997 9999999999999999999973 245677889999999999999988777777777654
No 144
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=98.59 E-value=2.8e-07 Score=101.82 Aligned_cols=103 Identities=16% Similarity=0.248 Sum_probs=82.3
Q ss_pred cccCCEEEEEE---EEeecCCCeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEc----------CCEE
Q psy14505 1300 LTIGQDISTKI---LKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIE----------KGIE 1366 (1619)
Q Consensus 1300 ~~vG~~v~vrV---l~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~----------~gv~ 1366 (1619)
|..+..+.+.+ +.+|++++++.| +||......+++|++|.|+|+++.++|+||++. .++.
T Consensus 27 y~~~~~i~as~~G~~~id~~~~~Isv-------~P~~~~~~~~~~GdiV~GkV~~i~~~g~~V~I~~~~~~~~~l~~~~~ 99 (189)
T PRK09521 27 YEDNGEVYASVVGKVFIDDINRKISV-------IPFKKTPPLLKKGDIVYGRVVDVKEQRALVRIVSIEGSERELATSKL 99 (189)
T ss_pred EeeCCEEEEEeeEEEEEcCCCCEEEE-------ecCcCCCCCCCCCCEEEEEEEEEcCCeEEEEEEEecccccccCCCce
Confidence 33445555543 455766667766 366665567889999999999999999999984 3689
Q ss_pred EEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1367 GLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1367 GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
|++|.++++| ....++.+.|++||.|.|+|++++ +++.||+|.
T Consensus 100 G~l~~s~i~~-~~~~~~~~~~~~GD~V~akV~~i~---~~i~LS~k~ 142 (189)
T PRK09521 100 AYIHISQVSD-GYVESLTDAFKIGDIVRAKVISYT---DPLQLSTKG 142 (189)
T ss_pred eeEEhhHcCh-hhhhhHHhccCCCCEEEEEEEecC---CcEEEEEec
Confidence 9999999988 445677889999999999999998 789999985
No 145
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=98.57 E-value=9.3e-08 Score=121.53 Aligned_cols=72 Identities=29% Similarity=0.522 Sum_probs=66.3
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccC---ccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMD---WINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels---~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
.+++|+++.|+|+++.+||+||++.+|++||||+|+++ |..++.++.+.|++||.|+|+|+++|. ++|+.|+
T Consensus 644 ~~~vG~i~~GkV~~I~dfGaFVel~~G~eGLvHISeisdls~~~rv~~~~dv~kvGd~V~VKVl~ID~-~gKI~L~ 718 (719)
T TIGR02696 644 MPEVGERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIADIDD-RGKLSLV 718 (719)
T ss_pred cCCCCCEEEEEEEEEECceEEEEecCCceEEEEhhhccccccccCcCCHHHcCCCCCEEEEEEEEECC-CCCeeec
Confidence 47899999999999999999999999999999999886 667788999999999999999999994 7788875
No 146
>cd04473 S1_RecJ_like S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease. The function of this family is not fully understood. In Escherichia coli, RecJ degrades single-stranded DNA in the 5'-3' direction and participates in homologous recombination and mismatch repair.
Probab=98.56 E-value=3.3e-07 Score=86.00 Aligned_cols=70 Identities=30% Similarity=0.539 Sum_probs=61.2
Q ss_pred CCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1418 PWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1418 ~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
+...+.+ +++|+.+.|.|++++++|+||++.+++.|++|.+++. +.|++||.++++|.++ .+++++.||
T Consensus 7 ~~~~~~~-~~~G~~~~g~V~~i~~~G~fV~l~~~~~Glv~~se~~---------~~~~iGd~v~v~I~~i-~e~~~i~l~ 75 (77)
T cd04473 7 PACTMED-LEVGKLYKGKVNGVAKYGVFVDLNDHVRGLIHRSNLL---------RDYEVGDEVIVQVTDI-PENGNIDLI 75 (77)
T ss_pred cccchhh-CCCCCEEEEEEEeEecceEEEEECCCcEEEEEchhcc---------CcCCCCCEEEEEEEEE-CCCCcEEEE
Confidence 3333433 5889999999999999999999999999999999875 3599999999999999 899999998
Q ss_pred e
Q psy14505 1498 I 1498 (1619)
Q Consensus 1498 l 1498 (1619)
+
T Consensus 76 ~ 76 (77)
T cd04473 76 P 76 (77)
T ss_pred E
Confidence 6
No 147
>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important role in the degradation of RNA with extensive secondary structure, such as rRNA, tRNA, and certain mRNA which contains repetitive extragenic palindromic sequences. The C-terminal S1 domain binds ssRNA.
Probab=98.56 E-value=2.5e-07 Score=88.06 Aligned_cols=71 Identities=28% Similarity=0.579 Sum_probs=61.7
Q ss_pred cceeEEEEEEEEcCCeEEEEEcC-CEEEEEeccccCccccC----------CCccccccCCCEEEEEEEEeecccceEEE
Q psy14505 1341 RGTRLLGKVTNLTDYGAFVEIEK-GIEGLVHISEMDWINKN----------VTPSKIVQLNDTVEIMILEINEERRRISL 1409 (1619)
Q Consensus 1341 ~G~iv~g~V~~v~~~G~fV~l~~-gv~GlV~~sels~~~~~----------~~~~~~~~vG~~V~vrVl~id~e~~ri~L 1409 (1619)
+|+++.|+|+++.++|+||++.+ +++|++|.++++|.... .++...|++||.|+|+|.++|.+++++.+
T Consensus 1 ~g~~~~g~V~~v~~~G~fv~l~~~~~~G~v~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~gd~v~v~v~~vd~~~~~i~~ 80 (83)
T cd04471 1 VGEEFDGVISGVTSFGLFVELDNLTVEGLVHVSTLGDDYYEFDEENHALVGERTGKVFRLGDKVKVRVVRVDLDRRKIDF 80 (83)
T ss_pred CCCEEEEEEEeEEeeeEEEEecCCCEEEEEEEEecCCCcEEEcccceEEEeccCCCEEcCCCEEEEEEEEeccccCEEEE
Confidence 48899999999999999999987 89999999999763211 24457899999999999999999999998
Q ss_pred ee
Q psy14505 1410 GM 1411 (1619)
Q Consensus 1410 Sl 1411 (1619)
++
T Consensus 81 ~l 82 (83)
T cd04471 81 EL 82 (83)
T ss_pred EE
Confidence 86
No 148
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=98.55 E-value=2.3e-07 Score=110.72 Aligned_cols=159 Identities=12% Similarity=0.159 Sum_probs=99.7
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
..|.+-|..|+||+++++.+|+++|++|||++.. ...+.|++..+... .
T Consensus 134 ~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D~~------i~~~~G~~i~ei~~---~---------------------- 182 (309)
T PRK08154 134 RRIALIGLRGAGKSTLGRMLAARLGVPFVELNRE------IEREAGLSVSEIFA---L---------------------- 182 (309)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHcCCCEEeHHHH------HHHHhCCCHHHHHH---H----------------------
Confidence 3577779999999999999999999999997643 22355664321100 0
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeec-------CCCeEEEEEcCHHHHHHhchHHH
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFP-------DAFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p-------~a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
.-.+.+|....+.+.+++...++++.++..|.+..| ...+.|||+||++.|.+|
T Consensus 183 --------------~G~~~fr~~e~~~l~~ll~~~~~~VI~~Ggg~v~~~~~~~~l~~~~~~V~L~a~~e~~~~R----- 243 (309)
T PRK08154 183 --------------YGQEGYRRLERRALERLIAEHEEMVLATGGGIVSEPATFDLLLSHCYTVWLKASPEEHMAR----- 243 (309)
T ss_pred --------------HCHHHHHHHHHHHHHHHHhhCCCEEEECCCchhCCHHHHHHHHhCCEEEEEECCHHHHHHH-----
Confidence 001244555566666665544556667633332222 235899999999999999
Q ss_pred HhcCCCC----CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhh
Q psy14505 1013 MQKGFSV----SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLF 1074 (1619)
Q Consensus 1013 ~~~~~~~----~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll 1074 (1619)
+++..+. +.++..+.+++.+..+..+. . . .+++|||+.++++++++.|.+++...+
T Consensus 244 l~~r~~~rp~~~~~~~~e~i~~~~~~R~~~y----~-~-ad~~I~t~~~s~ee~~~~I~~~l~~~~ 303 (309)
T PRK08154 244 VRAQGDLRPMADNREAMEDLRRILASREPLY----A-R-ADAVVDTSGLTVAQSLARLRELVRPAL 303 (309)
T ss_pred HhcCCCCCCCCCCCChHHHHHHHHHHHHHHH----H-h-CCEEEECCCCCHHHHHHHHHHHHHHHh
Confidence 3322111 12223344444444433321 1 1 248999999999999999998876554
No 149
>PRK00131 aroK shikimate kinase; Reviewed
Probab=98.54 E-value=1.7e-07 Score=102.18 Aligned_cols=159 Identities=18% Similarity=0.229 Sum_probs=95.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
..|.+.|++|+||++.++.||+++|++|+|.+.+.+.. .|.+..+. +.+
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l~~~~~d~d~~~~~~------~g~~~~~~--~~~----------------------- 53 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTDHLIEAR------AGKSIPEI--FEE----------------------- 53 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEChHHHHHH------cCCCHHHH--HHH-----------------------
Confidence 46777899999999999999999999999998876521 23321100 000
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEE-eccccCeeeec--------CCCeEEEEEcCHHHHHHhchH
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVA-DGRDMGTTVFP--------DAFLKIFLTADIKQRTKRRYK 1010 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~-~GRd~~~~v~p--------~a~~kifl~A~~e~Ra~Rr~~ 1010 (1619)
...+..++...+.+.+++...++|+ .| +++++. ...+.|||+||++.+.+|...
T Consensus 54 --------------~g~~~~~~~~~~~~~~l~~~~~~vi~~g---~~~~~~~~~r~~l~~~~~~v~l~~~~~~~~~R~~~ 116 (175)
T PRK00131 54 --------------EGEAAFRELEEEVLAELLARHNLVISTG---GGAVLREENRALLRERGTVVYLDASFEELLRRLRR 116 (175)
T ss_pred --------------HCHHHHHHHHHHHHHHHHhcCCCEEEeC---CCEeecHHHHHHHHhCCEEEEEECCHHHHHHHhcC
Confidence 0113456666666777775544433 34 233332 235899999999999998432
Q ss_pred HHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1011 QLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1011 ~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
+ ..+.. ...+...+.+......+.......+ .++|||+.++++++++.|++.++..
T Consensus 117 ~-~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~-----dl~idt~~~~~~e~~~~I~~~v~~~ 172 (175)
T PRK00131 117 D-RNRPL-LQTNDPKEKLRDLYEERDPLYEEVA-----DITVETDGRSPEEVVNEILEKLEAA 172 (175)
T ss_pred C-CCCCc-CCCCChHHHHHHHHHHHHHHHHhhc-----CeEEeCCCCCHHHHHHHHHHHHHhh
Confidence 2 11111 1111122222222222211111112 3899999999999999999887643
No 150
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.54 E-value=2.8e-07 Score=87.64 Aligned_cols=72 Identities=17% Similarity=0.209 Sum_probs=66.9
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
++|++|.|+|+++.+.|++|.+.....|++|.++++ .....++.+.|++||.+.|+|+++|.+ +++.||++.
T Consensus 5 ~~GdiV~G~V~~v~~~~~~V~i~~~~~g~l~~~~~~-~~~~~~~~~~~~~GD~i~~~V~~~~~~-~~i~LS~~~ 76 (82)
T cd04454 5 DVGDIVIGIVTEVNSRFWKVDILSRGTARLEDSSAT-EKDKKEIRKSLQPGDLILAKVISLGDD-MNVLLTTAD 76 (82)
T ss_pred CCCCEEEEEEEEEcCCEEEEEeCCCceEEeechhcc-CcchHHHHhcCCCCCEEEEEEEEeCCC-CCEEEEECC
Confidence 579999999999999999999999999999999998 455678888999999999999999986 899999986
No 151
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=98.54 E-value=2.9e-07 Score=105.82 Aligned_cols=86 Identities=23% Similarity=0.417 Sum_probs=75.1
Q ss_pred cCCCCCeEEEEEEEEecCceEEEEecC--CeEEEEEccccccccc----cCcCCCCEEEEEEEEEeCCCCEEEEeecchH
Q psy14505 1512 INDKGSLVNGIIKSIDTNKGAIIQLSN--EVEGYLRISEEDNKHE----KKLKIGENIDVLTVLIDHKTRYIQLSFKKKE 1585 (1619)
Q Consensus 1512 ~~~~G~~v~g~V~~i~~~~G~~V~l~~--gv~G~i~~~~~~~~~~----~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk~~~ 1585 (1619)
.+++|++|.|+|++|. ++|+||++.+ |+.|++|.+++++... +.|++||.|.|+|+++|.+++++.||+|...
T Consensus 5 ~P~~GdiV~G~V~~I~-~~G~fV~L~e~~gieGlI~iSEls~~~i~~i~~~~kvGd~V~vkVi~VD~~k~~I~LSlK~v~ 83 (262)
T PRK03987 5 WPEEGELVVGTVKEVK-DFGAFVTLDEYPGKEGFIHISEVASGWVKNIRDHVKEGQKVVCKVIRVDPRKGHIDLSLKRVN 83 (262)
T ss_pred CCCCCCEEEEEEEEEE-CCEEEEEECCCCCcEEEEEHHHcCcccccCHHHhCCCCCEEEEEEEEEecccCeEEEEEEecc
Confidence 3568999999999996 9999999986 8999999999976533 6799999999999999999999999999888
Q ss_pred HHHHHHHHHhhcc
Q psy14505 1586 VIKKKKLLTSINA 1598 (1619)
Q Consensus 1586 ~~~~~~~~~~~~~ 1598 (1619)
..++++.++.++.
T Consensus 84 ~~e~~~~~~~~~~ 96 (262)
T PRK03987 84 EHQRREKIQEWKN 96 (262)
T ss_pred cchHHHHHHHHHH
Confidence 8877777766644
No 152
>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 11 (hs11) and S. cerevisiae S1 repeat 8 (sc8). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=98.53 E-value=2.2e-07 Score=85.51 Aligned_cols=64 Identities=14% Similarity=0.233 Sum_probs=57.7
Q ss_pred ceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccc-cCCCccccccCCCEEEEEEEEeecccc
Q psy14505 1342 GTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWIN-KNVTPSKIVQLNDTVEIMILEINEERR 1405 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~-~~~~~~~~~~vG~~V~vrVl~id~e~~ 1405 (1619)
|++|.|+|+++.++|++|+++++++|++|.++++|.. ...+|.+.|++||.|+|+|+++|.++.
T Consensus 1 G~iV~g~V~~i~~~gi~v~l~~~i~g~i~~~~i~~~~~~~~~~~~~~~~Gd~i~~kVl~~d~~~~ 65 (70)
T cd05702 1 GDLVKAKVKSVKPTQLNVQLADNVHGRIHVSEVFDEWPDGKNPLSKFKIGQKIKARVIGGHDAKT 65 (70)
T ss_pred CCEEEEEEEEEECCcEEEEeCCCcEEEEEHHHhccccccccChhHhCCCCCEEEEEEEEEeCccc
Confidence 7899999999999999999999999999999998732 467888999999999999999997653
No 153
>COG1093 SUI2 Translation initiation factor 2, alpha subunit (eIF-2alpha) [Translation, ribosomal structure and biogenesis]
Probab=98.50 E-value=9.8e-08 Score=105.31 Aligned_cols=76 Identities=33% Similarity=0.650 Sum_probs=71.8
Q ss_pred CCCcEEEEEEEEEecCeEEEEe---CCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccC
Q psy14505 1255 KEGCTVKGVVKNITDYGAFIDL---GGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGID 1330 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~~G~~V~l---~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~ 1330 (1619)
..|++|-|+|..|.++|+||.| +|.+||+|+|+++..+++++++++++||++-|+||.+||..+.+.||+|....+
T Consensus 10 eeGEiVv~tV~~V~~~GAyv~L~EY~g~Eg~ihiSEvas~wVknIrd~vkegqkvV~kVlrVd~~rg~IDLSlkrV~~~ 88 (269)
T COG1093 10 EEGEIVVGTVKQVADYGAYVELDEYPGKEGFIHISEVASGWVKNIRDYVKEGQKVVAKVLRVDPKRGHIDLSLKRVTEH 88 (269)
T ss_pred CCCcEEEEEEEEeeccccEEEeeccCCeeeeEEHHHHHHHHHHHHHHHhhcCCeEEEEEEEEcCCCCeEeeehhhCCHH
Confidence 6799999999999999999998 489999999999999999999999999999999999999999999999986543
No 154
>cd04473 S1_RecJ_like S1_RecJ_like: The S1 domain of the archaea-specific RecJ-like exonuclease. The function of this family is not fully understood. In Escherichia coli, RecJ degrades single-stranded DNA in the 5'-3' direction and participates in homologous recombination and mismatch repair.
Probab=98.50 E-value=5.3e-07 Score=84.57 Aligned_cols=65 Identities=28% Similarity=0.451 Sum_probs=59.5
Q ss_pred cccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEee
Q psy14505 1337 FRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGM 1411 (1619)
Q Consensus 1337 ~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSl 1411 (1619)
.++++|+.+.|+|+++.++|+||++.++.+|++|.+++. +.|++||.++|+|.++ .+++++.+|+
T Consensus 12 ~~~~~G~~~~g~V~~i~~~G~fV~l~~~~~Glv~~se~~---------~~~~iGd~v~v~I~~i-~e~~~i~l~~ 76 (77)
T cd04473 12 EDLEVGKLYKGKVNGVAKYGVFVDLNDHVRGLIHRSNLL---------RDYEVGDEVIVQVTDI-PENGNIDLIP 76 (77)
T ss_pred hhCCCCCEEEEEEEeEecceEEEEECCCcEEEEEchhcc---------CcCCCCCEEEEEEEEE-CCCCcEEEEE
Confidence 458999999999999999999999999999999999973 4589999999999999 7899999875
No 155
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=98.48 E-value=4.2e-07 Score=86.42 Aligned_cols=73 Identities=15% Similarity=0.090 Sum_probs=66.0
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
.++|++|.|+|+++.+.|++|+++.+.+|++|.++++. ....++...|++||.+.|+|++++.+ +++.||++.
T Consensus 4 p~~GdiV~G~V~~v~~~~~~V~i~~~~~g~l~~~~~~~-~~~~~~~~~~~~GD~i~~~V~~~~~~-~~i~LS~~~ 76 (82)
T cd04454 4 PDVGDIVIGIVTEVNSRFWKVDILSRGTARLEDSSATE-KDKKEIRKSLQPGDLILAKVISLGDD-MNVLLTTAD 76 (82)
T ss_pred CCCCCEEEEEEEEEcCCEEEEEeCCCceEEeechhccC-cchHHHHhcCCCCCEEEEEEEEeCCC-CCEEEEECC
Confidence 47899999999999999999999999999999999975 33556778899999999999999986 899999986
No 156
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=98.44 E-value=3.9e-07 Score=81.75 Aligned_cols=65 Identities=43% Similarity=0.716 Sum_probs=58.8
Q ss_pred EEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEe
Q psy14505 1432 IKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLG 1497 (1619)
Q Consensus 1432 v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LS 1497 (1619)
+.|+|+++.++|+||.+.+++.|++|.+++++ .+..++.+.|++||.|+|+|+++|++++++.||
T Consensus 1 v~g~V~~v~~~g~~v~l~~~~~g~~~~~~~~~-~~~~~~~~~~~~G~~v~~~v~~~d~~~~~i~ls 65 (65)
T cd00164 1 VTGKVVSITKFGVFVELEDGVEGLVHISELSD-KFVKDPSEVFKVGDEVEVKVLEVDPEKGRISLS 65 (65)
T ss_pred CEEEEEEEEeeeEEEEecCCCEEEEEHHHCCC-ccccCHhhEeCCCCEEEEEEEEEcCCcCEEecC
Confidence 47999999999999999989999999999995 444667788999999999999999999999876
No 157
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=98.43 E-value=5.1e-07 Score=117.88 Aligned_cols=76 Identities=37% Similarity=0.538 Sum_probs=71.1
Q ss_pred cccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1337 FRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1337 ~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
..+++|+++.|+|+++.++|+||++.++.+||+|+|+++| .+..++.+.|++||.|+|+|+++|++ +++.||+|..
T Consensus 617 ~~~~vG~v~~G~V~~I~~fGafVei~~~~~GllhiSels~-~~v~~~~~v~kvGD~V~VkV~~iD~~-grI~LS~k~~ 692 (693)
T PRK11824 617 AEPEVGEIYEGKVVRIVDFGAFVEILPGKDGLVHISEIAD-ERVEKVEDVLKEGDEVKVKVLEIDKR-GRIRLSRKAV 692 (693)
T ss_pred ccCcCCeEEEEEEEEEECCeEEEEECCCCEEEEEeeeccC-ccccCccceeCCCCEEEEEEEEECCC-CcEEEEEEec
Confidence 3578999999999999999999999999999999999998 66889999999999999999999987 9999999864
No 158
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=98.43 E-value=5e-07 Score=118.01 Aligned_cols=75 Identities=33% Similarity=0.539 Sum_probs=69.8
Q ss_pred ccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1425 IHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1425 ~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
.+++|+++.|+|+++.+||+||++.++++||+|.++++| ++..++.+.|++||.|+|+|+++|++ +++.||+|..
T Consensus 618 ~~~vG~v~~G~V~~I~~fGafVei~~~~~GllhiSels~-~~v~~~~~v~kvGD~V~VkV~~iD~~-grI~LS~k~~ 692 (693)
T PRK11824 618 EPEVGEIYEGKVVRIVDFGAFVEILPGKDGLVHISEIAD-ERVEKVEDVLKEGDEVKVKVLEIDKR-GRIRLSRKAV 692 (693)
T ss_pred cCcCCeEEEEEEEEEECCeEEEEECCCCEEEEEeeeccC-ccccCccceeCCCCEEEEEEEEECCC-CcEEEEEEec
Confidence 347899999999999999999999999999999999996 66788899999999999999999987 9999999864
No 159
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=98.42 E-value=3.2e-06 Score=104.62 Aligned_cols=121 Identities=21% Similarity=0.314 Sum_probs=94.3
Q ss_pred eEEEEecccccccCCCccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHHhHH-----HHHHHcc--CCCEEEEEEEEEE
Q psy14505 1109 SEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLASWL-----SLEKAME--SGEIITGTINGKV 1181 (1619)
Q Consensus 1109 ~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~~~~-----~~~~~l~--~G~~v~g~V~~v~ 1181 (1619)
..++++.+++.... ..+++|+.+.+.|...+ .+++.++..+....+.|. .+.+.++ .|++|+|+|.++.
T Consensus 71 ~~~eI~L~eAk~~~--~~~~vGD~ie~~I~~~~--fgRia~q~aKq~i~Qkire~ere~i~~eyk~~~GeIV~G~V~ri~ 146 (470)
T PRK09202 71 PTKEISLEEARKID--PDAEVGDYIEEEIESVD--FGRIAAQTAKQVIVQKIREAERERVYEEYKDRVGEIITGVVKRVE 146 (470)
T ss_pred CcceeeHHHHhhhC--ccccCCCeEEEEEcccc--CChHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCEEEEEEEEEe
Confidence 45788888886533 34899999999998765 344555554444444444 6677787 8999999999999
Q ss_pred eCeEEEEeCCEEEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCCC--eEEeecch
Q psy14505 1182 KGGLTVLTNGLKAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKRN--NVVLSHRA 1237 (1619)
Q Consensus 1182 ~~Gl~V~~gg~~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~~--~i~LS~k~ 1237 (1619)
++|++|++||+.||||.+++. ....+.+|+.++|+|+.+++.++ +|+||++.
T Consensus 147 ~~giiVDLggvea~LP~sE~i----p~E~~~~GdrIka~I~~Vd~~~kg~qIilSRt~ 200 (470)
T PRK09202 147 RGNIIVDLGRAEAILPRKEQI----PRENFRPGDRVRAYVYEVRKEARGPQIILSRTH 200 (470)
T ss_pred cCCEEEEECCeEEEecHHHcC----CCccCCCCCEEEEEEEEEecCCCCCeEEEEeCc
Confidence 999999999999999998773 23345699999999999999877 89999964
No 160
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=98.42 E-value=2.8e-07 Score=115.95 Aligned_cols=78 Identities=35% Similarity=0.614 Sum_probs=74.5
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccC
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKD 1416 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~ 1416 (1619)
++++|+++.|+|+++.+||+||.++-+.+|+||+|++|+ .++.+|.+.+++||.|+|+|+++|..+++|.|||+....
T Consensus 655 dLk~Gm~leg~Vrnv~~fgafVdIgv~qDglvHis~ls~-~fv~~P~~vv~vGdiV~v~V~~vD~~r~rI~Lsmr~~~~ 732 (780)
T COG2183 655 DLKPGMILEGTVRNVVDFGAFVDIGVHQDGLVHISQLSD-KFVKDPNEVVKVGDIVKVKVIEVDTARKRIALSMRLDEE 732 (780)
T ss_pred hccCCCEEEEEEEEeeeccceEEeccccceeeeHHHhhh-hhcCChHHhcccCCEEEEEEEEEecccCeeeeEeeccCC
Confidence 799999999999999999999999999999999999998 788999999999999999999999999999999997644
No 161
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=98.42 E-value=2.6e-07 Score=116.27 Aligned_cols=76 Identities=29% Similarity=0.544 Sum_probs=72.9
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
+++|+++.|.|+|+++||+||.++-..+|+||.|.++ +.++.+|.+.+++||.|+|+|++||..++||.|||+...
T Consensus 656 Lk~Gm~leg~Vrnv~~fgafVdIgv~qDglvHis~ls-~~fv~~P~~vv~vGdiV~v~V~~vD~~r~rI~Lsmr~~~ 731 (780)
T COG2183 656 LKPGMILEGTVRNVVDFGAFVDIGVHQDGLVHISQLS-DKFVKDPNEVVKVGDIVKVKVIEVDTARKRIALSMRLDE 731 (780)
T ss_pred ccCCCEEEEEEEEeeeccceEEeccccceeeeHHHhh-hhhcCChHHhcccCCEEEEEEEEEecccCeeeeEeeccC
Confidence 4899999999999999999999999999999999999 699999999999999999999999999999999999754
No 162
>PRK01184 hypothetical protein; Provisional
Probab=98.40 E-value=9.5e-07 Score=97.52 Aligned_cols=173 Identities=19% Similarity=0.268 Sum_probs=99.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|.+.|++|+||+|.++ +++++|++++|+|.+.|.... +.++.... +.+.+....
T Consensus 2 ~~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~~d~lr~~~~---~~~~~~~~-~~~g~~~~~------------------- 57 (184)
T PRK01184 2 KIIGVVGMPGSGKGEFSK-IAREMGIPVVVMGDVIREEVK---KRGLEPTD-ENIGKVAID------------------- 57 (184)
T ss_pred cEEEEECCCCCCHHHHHH-HHHHcCCcEEEhhHHHHHHHH---HcCCCCCc-HHHHHHHHH-------------------
Confidence 467888999999999987 789999999999999885442 44554321 222222111
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEec-cccCee-----eecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADG-RDMGTT-----VFPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~G-Rd~~~~-----v~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
+|..... .+......+.+ +. .....+|++| |....+ ++|.....||++||++.|.+|..
T Consensus 58 -~~~~~~~-~~~~~~~~~~i--------~~-~~~~~vvidg~r~~~e~~~~~~~~~~~~~~i~v~~~~~~~~~Rl~---- 122 (184)
T PRK01184 58 -LRKELGM-DAVAKRTVPKI--------RE-KGDEVVVIDGVRGDAEVEYFRKEFPEDFILIAIHAPPEVRFERLK---- 122 (184)
T ss_pred -HHHHHCh-HHHHHHHHHHH--------Hh-cCCCcEEEeCCCCHHHHHHHHHhCCcccEEEEEECCHHHHHHHHH----
Confidence 1110000 00000111222 22 2456799999 643332 45555689999999999999933
Q ss_pred hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhh
Q psy14505 1014 QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLF 1074 (1619)
Q Consensus 1014 ~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll 1074 (1619)
.++..-+... .+++.+|+..+..+..+......|.++.|++ +++++...+..++..++
T Consensus 123 ~R~~~~d~~~-~~~~~~r~~~q~~~~~~~~~~~ad~vI~N~~--~~~~l~~~v~~~~~~~~ 180 (184)
T PRK01184 123 KRGRSDDPKS-WEELEERDERELSWGIGEVIALADYMIVNDS--TLEEFRARVRKLLERIL 180 (184)
T ss_pred HcCCCCChhh-HHHHHHHHHHHhccCHHHHHHhcCEEEeCCC--CHHHHHHHHHHHHHHHh
Confidence 3332111111 3445556655443334444445555555555 78888888876655443
No 163
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=98.40 E-value=5.8e-07 Score=80.63 Aligned_cols=65 Identities=46% Similarity=0.796 Sum_probs=58.5
Q ss_pred EEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1345 LLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1345 v~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
+.|+|+++.++|+||+++++.+|++|.+++++ ....++...|++||.|+|+|+++|++++++.||
T Consensus 1 v~g~V~~v~~~g~~v~l~~~~~g~~~~~~~~~-~~~~~~~~~~~~G~~v~~~v~~~d~~~~~i~ls 65 (65)
T cd00164 1 VTGKVVSITKFGVFVELEDGVEGLVHISELSD-KFVKDPSEVFKVGDEVEVKVLEVDPEKGRISLS 65 (65)
T ss_pred CEEEEEEEEeeeEEEEecCCCEEEEEHHHCCC-ccccCHhhEeCCCCEEEEEEEEEcCCcCEEecC
Confidence 47999999999999999989999999999987 334567889999999999999999988888875
No 164
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=98.38 E-value=9e-07 Score=109.47 Aligned_cols=112 Identities=21% Similarity=0.317 Sum_probs=89.6
Q ss_pred CCCCCCCeEEEEEEEEecCCCeEEeecchhhhhh-hhHHHHHHHhccC--CCcEEEEEEEEEecCeEEEEeCCEEEEeec
Q psy14505 1209 TTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEES-MGEERQKLIETLK--EGCTVKGVVKNITDYGAFIDLGGIDGLLHI 1285 (1619)
Q Consensus 1209 ~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~-~~~~~~~~~~~l~--~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~ 1285 (1619)
+...+|+.+.+.|...+..+ ....+.|+.+... ....+...++.++ .|++|+|+|.++.++|++|+++++.||||.
T Consensus 85 ~~~~vGD~ie~~I~~~~fgR-ia~q~aKq~i~Qkire~ere~i~~eyk~~~GeIV~G~V~ri~~~giiVDLggvea~LP~ 163 (470)
T PRK09202 85 PDAEVGDYIEEEIESVDFGR-IAAQTAKQVIVQKIREAERERVYEEYKDRVGEIITGVVKRVERGNIIVDLGRAEAILPR 163 (470)
T ss_pred ccccCCCeEEEEEccccCCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCEEEEEEEEEecCCEEEEECCeEEEecH
Confidence 34459999999998776332 2233334443333 3345667788887 999999999999999999999999999999
Q ss_pred cccCccccCCCccccccCCEEEEEEEEeecCCC--eEEEeeecc
Q psy14505 1286 TDIAWRRVKHPSEILTIGQDISTKILKYDQEKN--RVSLGMKQL 1327 (1619)
Q Consensus 1286 sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~--~i~LSlK~~ 1327 (1619)
++++ |.+.|++|+.++|.|+.++++++ ++.||++..
T Consensus 164 sE~i------p~E~~~~GdrIka~I~~Vd~~~kg~qIilSRt~p 201 (470)
T PRK09202 164 KEQI------PRENFRPGDRVRAYVYEVRKEARGPQIILSRTHP 201 (470)
T ss_pred HHcC------CCccCCCCCEEEEEEEEEecCCCCCeEEEEeCcH
Confidence 9986 77889999999999999999887 899998753
No 165
>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. RpoE is subunit E of archaeal RNA polymerase. Archaeal cells contain a single RNA polymerase made up of 12 subunits, which are homologous to the 12 subunits (RPB1-12) of eukaryotic RNA polymerase II. RpoE is homologous to Rpa43 of eukaryotic RNA polymerase I, RPB7 of eukaryotic RNA polymerase II, and Rpc25 of eukaryotic RNA polymerase III. RpoE is composed of two domains, the N-terminal RNP (ribonucleoprotein) domain and the C-terminal S1 domain. This S1 domain binds ssRNA and ssDNA. This family is classified based on the C-terminal S1 domain. The function of RpoE is not fully understood. In eukaryotes, RPB7 and RPB4 form a heterodimer that reversibly associates with the RNA polymerase II core.
Probab=98.34 E-value=1.3e-06 Score=86.27 Aligned_cols=79 Identities=25% Similarity=0.454 Sum_probs=66.2
Q ss_pred eEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccc----------cccCCCCCCEEEEEEEEeecCC-----CeE
Q psy14505 1430 EKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEE----------IIRNFKKGDEIEAIILSIDVEK-----ERI 1494 (1619)
Q Consensus 1430 ~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~----------~~~~f~vGq~V~~~Vl~vd~e~-----~ri 1494 (1619)
+++.|.|+++.++|+||++. ++.|++|.++++++....+ +...|++||.|+++|.++|.+. .++
T Consensus 1 ~vv~g~V~~i~~~GifV~l~-~v~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~Gd~v~vkI~~vd~~~~~~~~~~i 79 (99)
T cd04460 1 EVVEGEVVEVVDFGAFVRIG-PVDGLLHISQIMDDYISYDPKNKRLIGEETKRVLKVGDVVRARIVAVSLKERRPRESKI 79 (99)
T ss_pred CEEEEEEEEEEeccEEEEEc-CeEEEEEEEEccCCceEechhheeecccCcCCEECCCCEEEEEEEEEeHHHCcCCCceE
Confidence 47899999999999999997 5999999999985432222 3477999999999999999874 589
Q ss_pred EEeeecCcCCCcccc
Q psy14505 1495 SLGIKQLEGDPFNNY 1509 (1619)
Q Consensus 1495 ~LSlK~~~~~p~~~~ 1509 (1619)
.||+|.....||...
T Consensus 80 ~ls~k~~~~g~~~~~ 94 (99)
T cd04460 80 GLTMRQPGLGKLEWI 94 (99)
T ss_pred EEEEecCCCCcHHHh
Confidence 999999888887654
No 166
>PF03989 DNA_gyraseA_C: DNA gyrase C-terminal domain, beta-propeller; InterPro: IPR006691 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents the beta-pinwheel repeat found at the C-terminal end of subunit A of topoisomerase IV (ParC) and subunit A of DNA gyrase (GyrA). DNA gyrase is the topoisomerase II found primarily in bacteria and archaea that consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. This is distinct from the topoisomerase II found in most eukaryotes, which consists of a single polypeptide, with the N- and C-terminal regions corresponding to gyrB and gyrA, respectively, and which is not represented in this entry. The ability of DNA gyrase to introduce negative supercoils into DNA is mediated in part by the C-terminal domain of subunit A, which forms a beta-pinwheel fold that is similar to a beta-propeller but with a different blade topology, and which forms a superhelical spiral domain [, ]. This beta-pinwheel is capable of bending DNA by over 180 degrees over a 40 bp region, possibly by wrapping the DNA around the GyrA C-terminal beta-pinwheel domain. In topoisomerase IV, although the C-terminal domain forms a similar superhelical spiral to that of DNA gyrase A, it assembles as a broken form of a beta-pinwheel as distinct from that of gyrA, due to the absence of a DNA gyrase-specific GyrA box motif []. This difference may account for parC being less efficient than gyrA in mediating DNA-bending, leading to their divergence in terms of activity, where topoisomerase IV acts to relax positive supercoils, and DNA gyrase acts to introduce negative supercoils []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3L6V_A 3UC1_A 1ZI0_B 1SUU_A 1ZVU_A 1ZVT_B 3NO0_B.
Probab=98.29 E-value=1.2e-06 Score=74.15 Aligned_cols=47 Identities=26% Similarity=0.507 Sum_probs=44.8
Q ss_pred CeEEEEeCCceEEEEecccccccCCCCCCccceecCCCCEEEEEEEe
Q psy14505 701 YDIMLFSDSGKAVRFNENSVRAMGRSARGVIGMRLEKKQKVIALLVS 747 (1619)
Q Consensus 701 d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~~ 747 (1619)
|+|+++|++|++++++.+++|.++|+++|+++++|+++|+|+++.++
T Consensus 1 d~il~~T~~G~~~r~~~~~i~~~~r~~~G~~~~~l~~~d~iv~~~~v 47 (48)
T PF03989_consen 1 DEILLITSNGYVKRIPLSEIPEQGRGSKGVKIMKLKKGDEIVSVIVV 47 (48)
T ss_dssp EEEEEEETTSEEEEEEGGGSHBCSTTSTTEESSECTTTCSEEEEEEE
T ss_pred CEEEEEeCCCeEEEeeeccccccccCcceeEEEecCCCCEEEEEEEe
Confidence 57999999999999999999999999999999999999999999876
No 167
>PF03989 DNA_gyraseA_C: DNA gyrase C-terminal domain, beta-propeller; InterPro: IPR006691 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. This entry represents the beta-pinwheel repeat found at the C-terminal end of subunit A of topoisomerase IV (ParC) and subunit A of DNA gyrase (GyrA). DNA gyrase is the topoisomerase II found primarily in bacteria and archaea that consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. This is distinct from the topoisomerase II found in most eukaryotes, which consists of a single polypeptide, with the N- and C-terminal regions corresponding to gyrB and gyrA, respectively, and which is not represented in this entry. The ability of DNA gyrase to introduce negative supercoils into DNA is mediated in part by the C-terminal domain of subunit A, which forms a beta-pinwheel fold that is similar to a beta-propeller but with a different blade topology, and which forms a superhelical spiral domain [, ]. This beta-pinwheel is capable of bending DNA by over 180 degrees over a 40 bp region, possibly by wrapping the DNA around the GyrA C-terminal beta-pinwheel domain. In topoisomerase IV, although the C-terminal domain forms a similar superhelical spiral to that of DNA gyrase A, it assembles as a broken form of a beta-pinwheel as distinct from that of gyrA, due to the absence of a DNA gyrase-specific GyrA box motif []. This difference may account for parC being less efficient than gyrA in mediating DNA-bending, leading to their divergence in terms of activity, where topoisomerase IV acts to relax positive supercoils, and DNA gyrase acts to introduce negative supercoils []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3L6V_A 3UC1_A 1ZI0_B 1SUU_A 1ZVU_A 1ZVT_B 3NO0_B.
Probab=98.28 E-value=1.1e-06 Score=74.44 Aligned_cols=47 Identities=32% Similarity=0.567 Sum_probs=44.4
Q ss_pred cEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEe
Q psy14505 803 HEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRL 849 (1619)
Q Consensus 803 ~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~ 849 (1619)
++++++|++|++.|++++++|.++|+++|+++|+|+++|+|+++..+
T Consensus 1 d~il~~T~~G~~~r~~~~~i~~~~r~~~G~~~~~l~~~d~iv~~~~v 47 (48)
T PF03989_consen 1 DEILLITSNGYVKRIPLSEIPEQGRGSKGVKIMKLKKGDEIVSVIVV 47 (48)
T ss_dssp EEEEEEETTSEEEEEEGGGSHBCSTTSTTEESSECTTTCSEEEEEEE
T ss_pred CEEEEEeCCCeEEEeeeccccccccCcceeEEEecCCCCEEEEEEEe
Confidence 47899999999999999999999999999999999999999998765
No 168
>PRK03839 putative kinase; Provisional
Probab=98.28 E-value=5.6e-06 Score=91.08 Aligned_cols=148 Identities=25% Similarity=0.348 Sum_probs=88.6
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|.+|+||+|.++.||+++|++|+|+|.+++. .++... +.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d~~~~~-------~~~~~~---------------~~-------------- 45 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLTEFALK-------KGIGEE---------------KD-------------- 45 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEehhhhhhh-------cCCccc---------------CC--------------
Confidence 466779999999999999999999999999988762 222110 00
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVS 1020 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~ 1020 (1619)
.+. ...++.....+.... ..+++|++|. ... +.++++.|||+|+++...+|. ..++. +
T Consensus 46 ---~~~---------~~~~~~l~~~~~~~~-~~~~vIidG~-~~~--l~~~~~vi~L~~~~~~~~~Rl----~~R~~--~ 103 (180)
T PRK03839 46 ---DEM---------EIDFDKLAYFIEEEF-KEKNVVLDGH-LSH--LLPVDYVIVLRAHPKIIKERL----KERGY--S 103 (180)
T ss_pred ---hhh---------hcCHHHHHHHHHHhc-cCCCEEEEec-ccc--ccCCCEEEEEECCHHHHHHHH----HHcCC--C
Confidence 000 001122222222222 3467999996 332 235778999999999999983 22332 1
Q ss_pred HHHH----HHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1021 MSDL----LINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1021 ~~~~----~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
.... .+.+......+ +|......+.||+++.+++++++.|.+.+..
T Consensus 104 ~~~~~~~~~~~~~~~~~~~------~~~~r~~~~~Id~~~~s~eev~~~I~~~l~~ 153 (180)
T PRK03839 104 KKKILENVEAELVDVCLCE------ALEEKEKVIEVDTTGKTPEEVVEEILELIKS 153 (180)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHhcCCEEEEECCCCCHHHHHHHHHHHHhc
Confidence 1111 12221110000 1111122378999999999999999877654
No 169
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=98.27 E-value=7.4e-06 Score=93.48 Aligned_cols=73 Identities=22% Similarity=0.276 Sum_probs=65.2
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccC----CCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKN----VTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~----~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
.++||+|.|+|+++.++|+||+++....|++|.++++| .+. .++...|++||.|.|+|+++++++ .+.||+|.
T Consensus 61 P~vGDiViG~V~~i~~~~~~vdI~~~~~g~L~~s~i~~-~~~~~d~~~~~~~~~~GDlV~akV~~i~~~~-~~~LS~k~ 137 (235)
T PRK04163 61 PKVGDLVIGKVTDVTFSGWEVDINSPYKAYLPVSEVLG-RPVNVEGTDLRKYLDIGDYIIAKVKDVDRTR-DVVLTLKG 137 (235)
T ss_pred CCCCCEEEEEEEEEeCceEEEEeCCCceeEEEHHHcCC-CccccchhhhHhhCCCCCEEEEEEEEECCCC-cEEEEEcC
Confidence 58999999999999999999999889999999999998 333 677888999999999999998654 59999975
No 170
>cd04460 S1_RpoE S1_RpoE: RpoE, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. RpoE is subunit E of archaeal RNA polymerase. Archaeal cells contain a single RNA polymerase made up of 12 subunits, which are homologous to the 12 subunits (RPB1-12) of eukaryotic RNA polymerase II. RpoE is homologous to Rpa43 of eukaryotic RNA polymerase I, RPB7 of eukaryotic RNA polymerase II, and Rpc25 of eukaryotic RNA polymerase III. RpoE is composed of two domains, the N-terminal RNP (ribonucleoprotein) domain and the C-terminal S1 domain. This S1 domain binds ssRNA and ssDNA. This family is classified based on the C-terminal S1 domain. The function of RpoE is not fully understood. In eukaryotes, RPB7 and RPB4 form a heterodimer that reversibly associates with the RNA polymerase II core.
Probab=98.23 E-value=3.3e-06 Score=83.34 Aligned_cols=81 Identities=26% Similarity=0.395 Sum_probs=66.8
Q ss_pred eeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCC----------CccccccCCCEEEEEEEEeeccc-----ceE
Q psy14505 1343 TRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNV----------TPSKIVQLNDTVEIMILEINEER-----RRI 1407 (1619)
Q Consensus 1343 ~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~----------~~~~~~~vG~~V~vrVl~id~e~-----~ri 1407 (1619)
+++.|+|+++.++|+||++. +++|++|.+++++..... ++...|++||.|+|+|.++|.+. .++
T Consensus 1 ~vv~g~V~~i~~~GifV~l~-~v~G~v~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~Gd~v~vkI~~vd~~~~~~~~~~i 79 (99)
T cd04460 1 EVVEGEVVEVVDFGAFVRIG-PVDGLLHISQIMDDYISYDPKNKRLIGEETKRVLKVGDVVRARIVAVSLKERRPRESKI 79 (99)
T ss_pred CEEEEEEEEEEeccEEEEEc-CeEEEEEEEEccCCceEechhheeecccCcCCEECCCCEEEEEEEEEeHHHCcCCCceE
Confidence 46899999999999999997 599999999997632221 23578999999999999999874 589
Q ss_pred EEeeecccCCCCccccc
Q psy14505 1408 SLGMKQCKDNPWENFSI 1424 (1619)
Q Consensus 1408 ~LSlK~~~~~~~~~~~~ 1424 (1619)
.||+|+....||..+.+
T Consensus 80 ~ls~k~~~~g~~~~~~~ 96 (99)
T cd04460 80 GLTMRQPGLGKLEWIEE 96 (99)
T ss_pred EEEEecCCCCcHHHhhh
Confidence 99999988888766543
No 171
>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three RNA binding domains (RBD's). The RBD's include one S1 domain and two KH domains that form an RNA binding surface. DNA transcription by RNA polymerase (RNAP) includes three phases - initiation, elongation, and termination. During initiation, sigma factors bind RNAP and target RNAP to specific promoters. During elongation, N-utilization substances (NusA, B, E, and G) replace sigma factors and regulate pausing, termination, and antitermination. NusA is cold-shock-inducible.
Probab=98.18 E-value=7.7e-06 Score=74.56 Aligned_cols=64 Identities=23% Similarity=0.388 Sum_probs=55.7
Q ss_pred CCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCC--CeEEEee
Q psy14505 1255 KEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEK--NRVSLGM 1324 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~--~~i~LSl 1324 (1619)
..|++++|+|.++.++|++|++++.+|+||.++++. .+.|++|+++++.|..++..+ ..+.||+
T Consensus 2 ~~g~iV~G~V~~~~~~~~~vdig~~eg~lp~~e~~~------~~~~~~Gd~v~v~v~~v~~~~~~~~i~lSr 67 (67)
T cd04455 2 REGEIVTGIVKRVDRGNVIVDLGKVEAILPKKEQIP------GESYRPGDRIKAYVLEVRKTSKGPQIILSR 67 (67)
T ss_pred CCCCEEEEEEEEEcCCCEEEEcCCeEEEeeHHHCCC------CCcCCCCCEEEEEEEEEecCCCCCEEEEeC
Confidence 469999999999999999999999999999999973 345799999999999999654 3677774
No 172
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=98.17 E-value=1.7e-05 Score=90.62 Aligned_cols=73 Identities=19% Similarity=0.310 Sum_probs=64.5
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCC---ccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDP---GEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~---~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
++|++|.|.|++++++|+||.+.....|++|.++++|... ..++...|++||.|.|+|+++++++ .+.||+|.
T Consensus 62 ~vGDiViG~V~~i~~~~~~vdI~~~~~g~L~~s~i~~~~~~~d~~~~~~~~~~GDlV~akV~~i~~~~-~~~LS~k~ 137 (235)
T PRK04163 62 KVGDLVIGKVTDVTFSGWEVDINSPYKAYLPVSEVLGRPVNVEGTDLRKYLDIGDYIIAKVKDVDRTR-DVVLTLKG 137 (235)
T ss_pred CCCCEEEEEEEEEeCceEEEEeCCCceeEEEHHHcCCCccccchhhhHhhCCCCCEEEEEEEEECCCC-cEEEEEcC
Confidence 6799999999999999999999989999999999997321 2677888999999999999999654 59999976
No 173
>PRK13949 shikimate kinase; Provisional
Probab=98.13 E-value=8.2e-06 Score=88.76 Aligned_cols=150 Identities=17% Similarity=0.189 Sum_probs=91.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|++|+||++.++.+|+.+|++|+|++.+... ..+.+. .++ ..+
T Consensus 3 ~I~liG~~GsGKstl~~~La~~l~~~~id~D~~i~~------~~~~~~---~~~---~~~-------------------- 50 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARELGLSFIDLDFFIEN------RFHKTV---GDI---FAE-------------------- 50 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCeecccHHHHH------HHCccH---HHH---HHH--------------------
Confidence 356668999999999999999999999999876551 112111 010 000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEE-eccccCee-------eecCCCeEEEEEcCHHHHHHhchHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVA-DGRDMGTT-------VFPDAFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~-~GRd~~~~-------v~p~a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
.-.+..|+...++..++...+++|+ .|- |.+ .++.+++-|||++|++...+|.-..
T Consensus 51 -------------~g~~~fr~~e~~~l~~l~~~~~~vis~Gg--g~~~~~~~~~~l~~~~~vi~L~~~~~~~~~Ri~~~- 114 (169)
T PRK13949 51 -------------RGEAVFRELERNMLHEVAEFEDVVISTGG--GAPCFFDNMELMNASGTTVYLKVSPEVLFVRLRLA- 114 (169)
T ss_pred -------------hCHHHHHHHHHHHHHHHHhCCCEEEEcCC--cccCCHHHHHHHHhCCeEEEEECCHHHHHHHHhcC-
Confidence 0112456666666677765556665 662 222 4456778999999999988872110
Q ss_pred HhcCC----CCCHHHHHHH----HHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1013 MQKGF----SVSMSDLLIN----LIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1013 ~~~~~----~~~~~~~~~~----i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
.++. +.+.++..+. ..+|+.. |..| | +.||+++++++++++.|++.
T Consensus 115 -~~~RP~~~~~~~~~~~~~i~~l~~~R~~~--------Y~~a-d-~~id~~~~~~~e~~~~I~~~ 168 (169)
T PRK13949 115 -KQQRPLLKGKSDEELLDFIIEALEKRAPF--------YRQA-K-IIFNADKLEDESQIEQLVQR 168 (169)
T ss_pred -CCCCCCCCCCChHHHHHHHHHHHHHHHHH--------HHhC-C-EEEECCCCCHHHHHHHHHHh
Confidence 0111 1122333322 2332221 2222 2 88999999999999999764
No 174
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=98.13 E-value=3.3e-06 Score=110.20 Aligned_cols=69 Identities=33% Similarity=0.585 Sum_probs=63.5
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEE
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISL 1496 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~L 1496 (1619)
+++|+++.|+|+++.+||+||++.++++||+|.|+++| ++..++.+.|++||.|+|+|+++|. ++++.|
T Consensus 616 ~~~G~i~~G~V~~I~~~GafVei~~g~~GllHiSei~~-~~v~~~~~~~kvGD~V~VkVi~id~-~gki~L 684 (684)
T TIGR03591 616 PEVGKIYEGKVVRIMDFGAFVEILPGKDGLVHISEIAN-ERVEKVEDVLKEGDEVKVKVLEIDK-QGRIKL 684 (684)
T ss_pred cccCcEEEEEEEEEeCCEEEEEECCCcEEEEEHHHcCC-CcccChhhccCCCCEEEEEEEEECC-CCCccC
Confidence 47899999999999999999999999999999999996 6778899999999999999999997 677754
No 175
>cd04455 S1_NusA S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three RNA binding domains (RBD's). The RBD's include one S1 domain and two KH domains that form an RNA binding surface. DNA transcription by RNA polymerase (RNAP) includes three phases - initiation, elongation, and termination. During initiation, sigma factors bind RNAP and target RNAP to specific promoters. During elongation, N-utilization substances (NusA, B, E, and G) replace sigma factors and regulate pausing, termination, and antitermination. NusA is cold-shock-inducible.
Probab=98.13 E-value=1e-05 Score=73.71 Aligned_cols=64 Identities=28% Similarity=0.356 Sum_probs=55.2
Q ss_pred CCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCC--CCeEEEeh
Q psy14505 1084 RSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENG--FGDTILSR 1151 (1619)
Q Consensus 1084 ~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~--~~~v~LS~ 1151 (1619)
..|++|.|+|.++++++++|+++. .+||||.+|+.. ...|++|+.+++.|.+++.. .+.+.||+
T Consensus 2 ~~g~iV~G~V~~~~~~~~~vdig~-~eg~lp~~e~~~---~~~~~~Gd~v~v~v~~v~~~~~~~~i~lSr 67 (67)
T cd04455 2 REGEIVTGIVKRVDRGNVIVDLGK-VEAILPKKEQIP---GESYRPGDRIKAYVLEVRKTSKGPQIILSR 67 (67)
T ss_pred CCCCEEEEEEEEEcCCCEEEEcCC-eEEEeeHHHCCC---CCcCCCCCEEEEEEEEEecCCCCCEEEEeC
Confidence 479999999999999999999986 999999999964 23589999999999999854 35688874
No 176
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=98.11 E-value=3.4e-06 Score=104.77 Aligned_cols=100 Identities=25% Similarity=0.440 Sum_probs=81.1
Q ss_pred EeecCCCeEEEeeeccc-----cCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCcccc
Q psy14505 1312 KYDQEKNRVSLGMKQLG-----IDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKI 1386 (1619)
Q Consensus 1312 ~vd~~~~~i~LSlK~~~-----~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~ 1386 (1619)
.++ +++.+..+..... ..--......+++|+++.|+|+++.+||+||.+.++-+|+||+|+++| .+..+..+.
T Consensus 586 die-ddGtv~i~~s~~~~~~~ak~~I~~i~~e~evg~iy~G~V~ri~~fGaFv~l~~gkdgl~hiS~~~~-~rv~kv~dv 663 (692)
T COG1185 586 DIE-DDGTVKIAASDGESAKKAKERIEAITREVEVGEVYEGTVVRIVDFGAFVELLPGKDGLVHISQLAK-ERVEKVEDV 663 (692)
T ss_pred Eec-CCCcEEEEecchHHHHHHHHHHHHHHhhcccccEEEEEEEEEeecceEEEecCCcceeEEehhhhh-hhhhcccce
Confidence 455 5677766654321 011123345789999999999999999999999999999999999998 567788899
Q ss_pred ccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1387 VQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1387 ~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
+++||.+.|+|+.+| ..+++.||+|..
T Consensus 664 lk~Gd~v~Vkv~~iD-~~Gri~ls~~~~ 690 (692)
T COG1185 664 LKEGDEVKVKVIEID-KQGRIRLSIKAV 690 (692)
T ss_pred eecCceEEEEEeeec-ccCCccceehhc
Confidence 999999999999999 578899999864
No 177
>PRK04040 adenylate kinase; Provisional
Probab=98.08 E-value=1.6e-05 Score=87.94 Aligned_cols=170 Identities=15% Similarity=0.183 Sum_probs=108.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh--CCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL--GFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNV 937 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l--~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 937 (1619)
++|.+.|.+|+||+|.++.+++++ ++.+++.|.+++.+|. +.|+... .+++
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~~~g~~~~~~a~---~~g~~~~-~d~~----------------------- 55 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKLKEDYKIVNFGDVMLEVAK---EEGLVEH-RDEM----------------------- 55 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHhccCCeEEecchHHHHHHH---HcCCCCC-HHHH-----------------------
Confidence 467888999999999999999999 9999999999986654 7776322 1121
Q ss_pred cccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEecccc-----Cee------eec--CCCeEEEEEcCHHHH
Q psy14505 938 TTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDM-----GTT------VFP--DAFLKIFLTADIKQR 1004 (1619)
Q Consensus 938 ~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~-----~~~------v~p--~a~~kifl~A~~e~R 1004 (1619)
|. .......+++....+.+++++..+.+|++|+.+ |+. ++. ..+.-|||.|+|++-
T Consensus 56 ----r~-------l~~~~~~~~~~~a~~~i~~~~~~~~~~~~~h~~i~~~~g~~~~~~~~~~~~l~pd~ii~l~a~p~~i 124 (188)
T PRK04040 56 ----RK-------LPPEEQKELQREAAERIAEMAGEGPVIVDTHATIKTPAGYLPGLPEWVLEELNPDVIVLIEADPDEI 124 (188)
T ss_pred ----hh-------CChhhhHHHHHHHHHHHHHhhcCCCEEEeeeeeeccCCCCcCCCCHHHHhhcCCCEEEEEeCCHHHH
Confidence 10 011233355556666667777677899999854 211 111 124789999999999
Q ss_pred HHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1005 TKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1005 a~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
.+||...-.+.+...+.+.+...+.. ...... ..+.+..+.+.+++|-... +|++++.+.+.+
T Consensus 125 ~~Rrl~d~~R~R~~es~e~I~~~~~~-a~~~a~-~~a~~~g~~~~iI~N~d~~-~e~a~~~i~~ii 187 (188)
T PRK04040 125 LMRRLRDETRRRDVETEEDIEEHQEM-NRAAAM-AYAVLTGATVKIVENREGL-LEEAAEEIVEVL 187 (188)
T ss_pred HHHHhcccccCCCCCCHHHHHHHHHH-HHHHHH-HHHHhcCCeEEEEECCCCC-HHHHHHHHHHHh
Confidence 99977541112223455555443322 111111 1233445556688887765 899988887654
No 178
>PRK14733 coaE dephospho-CoA kinase; Provisional
Probab=98.07 E-value=2.4e-05 Score=87.21 Aligned_cols=185 Identities=14% Similarity=0.171 Sum_probs=108.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|.+.|..|+||+++++.+++++|++++|++.+.+.+.. .+ +-+.+.....+- .++-+|+ +..
T Consensus 7 ~~IglTG~iGsGKStv~~~l~~~lg~~vidaD~i~~~l~~----~~------~~~~~i~~~fG~-----~i~~~g~-idR 70 (204)
T PRK14733 7 YPIGITGGIASGKSTATRILKEKLNLNVVCADTISREITK----KP------SVIKKIAEKFGD-----EIVMNKQ-INR 70 (204)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHcCCeEEeccHHHHHHHC----ch------HHHHHHHHHhCH-----HhccCCC-cCH
Confidence 4688889999999999999999999999999999885432 11 011111111111 1111221 111
Q ss_pred -cccccccccccc----cccccHHHHHHHHHHHHhhhcCCCeEEecccc---CeeeecCCCeEEEEEcCHHHHHHhchHH
Q psy14505 940 -LIRNEKVSNNAS----KIAKFKNIRKELFKIQVKFRKFPGLVADGRDM---GTTVFPDAFLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 940 -~ir~~~~~~~~s----~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~---~~~v~p~a~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
.|+..-.+.... .--.+|.|++.+.+...+. ...-+|+|--.. ++-.....+..|+++||.+.|.+|
T Consensus 71 ~~L~~~vF~d~~~~~~Le~i~HP~V~~~~~~~~~~~-~~~~vv~eipLL~E~~~~~~~~~D~vi~V~a~~e~ri~R---- 145 (204)
T PRK14733 71 AMLRAIITESKEAKKWLEDYLHPVINKEIKKQVKES-DTVMTIVDIPLLGPYNFRHYDYLKKVIVIKADLETRIRR---- 145 (204)
T ss_pred HHHHHHHhCCHHHHHHHHhhhhHHHHHHHHHHHHhc-CCCeEEEEechhhhccCchhhhCCEEEEEECCHHHHHHH----
Confidence 122211111100 0126888888876655442 233466766322 110112246899999999999999
Q ss_pred HHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1012 LMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1012 l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
.+++.+.+.+++.+.|..-=-.+..+..+ +.+||++..++++.-..+...+.++
T Consensus 146 -l~~Rd~~s~~~a~~ri~~Q~~~eek~~~a-------D~VI~N~g~~~~~l~~~~~~~~~~~ 199 (204)
T PRK14733 146 -LMERDGKNRQQAVAFINLQISDKEREKIA-------DFVIDNTELTDQELESKLITTINEI 199 (204)
T ss_pred -HHHcCCCCHHHHHHHHHhCCCHHHHHHhC-------CEEEECcCCCHHHHHHHHHHHHHHH
Confidence 56666789999988765421111111111 2678888878888877776665554
No 179
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=98.04 E-value=6.3e-05 Score=91.01 Aligned_cols=146 Identities=21% Similarity=0.371 Sum_probs=107.9
Q ss_pred cccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCC
Q psy14505 1426 HKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDP 1505 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p 1505 (1619)
+..|..++|.|.++..||+||+++..+.||+|.++++.+. .|.+|+.+-++|..+.++++.+.|.......-.
T Consensus 120 ve~g~~Y~g~v~~v~~~GvFv~Ln~~v~GL~~~~d~~~~~-------~~~vgdeiiV~v~~vr~~~geidf~~~~~~~Y~ 192 (715)
T COG1107 120 VEAGKYYKGIVSRVEKYGVFVELNSHVRGLIHRRDLGGDP-------DYAVGDEIIVQVSDVRPEKGEIDFEPVGLDRYR 192 (715)
T ss_pred cccceeeeccccchhhhcceeecChhhhccccccccCCCC-------CCCCCCeEEEEeeccCCCCCccceeecCCccch
Confidence 3789999999999999999999999999999999999411 489999999999999999999988887654211
Q ss_pred cccccccC----------CCCCeE--EEEEEEEecCceEEE-EecCCeEEEEEccccccccc---cCcCCCCEEEEEEEE
Q psy14505 1506 FNNYVNIN----------DKGSLV--NGIIKSIDTNKGAII-QLSNEVEGYLRISEEDNKHE---KKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1506 ~~~~~~~~----------~~G~~v--~g~V~~i~~~~G~~V-~l~~gv~G~i~~~~~~~~~~---~~~~~Gq~V~~~Vl~ 1569 (1619)
..+..+.+ .+|+.| .|.|+.|+...|-.| .+.+ =+|+++...+..... ...++|+.|.+ +=.
T Consensus 193 ~~~~~ke~~r~~i~~id~~ig~tV~I~GeV~qikqT~GPTVFtltD-etg~i~aAAFe~aGvRAyP~IevGdiV~V-iG~ 270 (715)
T COG1107 193 EVQVEKELPRTLIDDLDEMIGKTVRIEGEVTQIKQTSGPTVFTLTD-ETGAIWAAAFEEAGVRAYPEIEVGDIVEV-IGE 270 (715)
T ss_pred hhhhhhhcccccHHHHHhhcCceEEEEEEEEEEEEcCCCEEEEEec-CCCceehhhhccCCcccCCCCCCCceEEE-EEE
Confidence 11111111 368775 499999986777555 4443 467888776653322 67899998874 344
Q ss_pred EeCCCCEEEEe
Q psy14505 1570 IDHKTRYIQLS 1580 (1619)
Q Consensus 1570 vd~~~k~i~lS 1580 (1619)
++.-..++.+-
T Consensus 271 V~~r~g~lQiE 281 (715)
T COG1107 271 VTRRDGRLQIE 281 (715)
T ss_pred EeecCCcEEEe
Confidence 66666666543
No 180
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=98.04 E-value=9.2e-06 Score=88.56 Aligned_cols=152 Identities=18% Similarity=0.290 Sum_probs=88.3
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+-|..|+||+++++.+|+++|++|+|++.+.... .|.+.. ++ ...
T Consensus 5 i~~~G~~GsGKst~~~~la~~lg~~~~d~D~~~~~~------~g~~~~---~~---~~~--------------------- 51 (171)
T PRK03731 5 LFLVGARGCGKTTVGMALAQALGYRFVDTDQWLQST------SNMTVA---EI---VER--------------------- 51 (171)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCEEEccHHHHHH------hCCCHH---HH---HHH---------------------
Confidence 555689999999999999999999999998776522 122211 11 000
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeec--------CCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFP--------DAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p--------~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
...+..|+...+.++.+.. +.+ +.+. .|.+|+. ++.+.|||++|++.+.+|...+..
T Consensus 52 ------------~g~~~~~~~e~~~~~~~~~-~~~-vi~~-ggg~vl~~~~~~~l~~~~~~v~l~~~~~~~~~Rl~~r~~ 116 (171)
T PRK03731 52 ------------EGWAGFRARESAALEAVTA-PST-VIAT-GGGIILTEENRHFMRNNGIVIYLCAPVSVLANRLEANPE 116 (171)
T ss_pred ------------HCHHHHHHHHHHHHHHhcC-CCe-EEEC-CCCccCCHHHHHHHHhCCEEEEEECCHHHHHHHHccccc
Confidence 0012344555555555543 333 3444 3334443 367999999999999999332100
Q ss_pred hcC-C---CCC-HHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1014 QKG-F---SVS-MSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1014 ~~~-~---~~~-~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
... . +.+ .+++.+.+++|...-.. . ..++||++ .+++++++.|.+.+.
T Consensus 117 ~~~rp~~~~~~~~~~~~~~~~~r~~~y~~--~-------a~~~Id~~-~~~e~v~~~i~~~l~ 169 (171)
T PRK03731 117 EDQRPTLTGKPISEEVAEVLAEREALYRE--V-------AHHIIDAT-QPPSQVVSEILSALA 169 (171)
T ss_pred cccCCcCCCCChHHHHHHHHHHHHHHHHH--h-------CCEEEcCC-CCHHHHHHHHHHHHh
Confidence 000 0 111 23344444444322111 1 12789988 699999999887654
No 181
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=98.03 E-value=6e-06 Score=102.68 Aligned_cols=100 Identities=29% Similarity=0.503 Sum_probs=80.6
Q ss_pred EeecccceEEEeeecccC-----CCCcccccccccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccC
Q psy14505 1399 EINEERRRISLGMKQCKD-----NPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRN 1473 (1619)
Q Consensus 1399 ~id~e~~ri~LSlK~~~~-----~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~ 1473 (1619)
.++ +++.+.++-..... .-...+...+.+|+++.|+|+++.+||+||+|.++-.|+||+|++++ ..+.+..+.
T Consensus 586 die-ddGtv~i~~s~~~~~~~ak~~I~~i~~e~evg~iy~G~V~ri~~fGaFv~l~~gkdgl~hiS~~~~-~rv~kv~dv 663 (692)
T COG1185 586 DIE-DDGTVKIAASDGESAKKAKERIEAITREVEVGEVYEGTVVRIVDFGAFVELLPGKDGLVHISQLAK-ERVEKVEDV 663 (692)
T ss_pred Eec-CCCcEEEEecchHHHHHHHHHHHHHHhhcccccEEEEEEEEEeecceEEEecCCcceeEEehhhhh-hhhhcccce
Confidence 344 56666655543211 11233445668999999999999999999999999999999999995 677888899
Q ss_pred CCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1474 FKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1474 f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
+++||.|.|+|+.+| .++|+.||+|..
T Consensus 664 lk~Gd~v~Vkv~~iD-~~Gri~ls~~~~ 690 (692)
T COG1185 664 LKEGDEVKVKVIEID-KQGRIRLSIKAV 690 (692)
T ss_pred eecCceEEEEEeeec-ccCCccceehhc
Confidence 999999999999999 579999999864
No 182
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=98.01 E-value=1.5e-05 Score=85.13 Aligned_cols=144 Identities=16% Similarity=0.168 Sum_probs=85.7
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+-|++|+||++.++.+|+.+|++++|++.+.+... |.+. .++.+.
T Consensus 2 i~l~G~~GsGKstla~~la~~l~~~~~~~d~~~~~~~------~~~~---~~~~~~------------------------ 48 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLDELIEQRA------GMSI---PEIFAE------------------------ 48 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEEchHHHHHHc------CCCH---HHHHHH------------------------
Confidence 4566899999999999999999999999987755221 2211 111000
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeec-------CCCeEEEEEcCHHHHHHhchHHHHh
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFP-------DAFLKIFLTADIKQRTKRRYKQLMQ 1014 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p-------~a~~kifl~A~~e~Ra~Rr~~~l~~ 1014 (1619)
...+.++....+.+..+...+++|+.+ ..+.+.-+ +..+.|||+||++++++|...+. .
T Consensus 49 ------------~~~~~~~~~e~~~~~~~~~~~~~vi~~-g~~~i~~~~~~~~~~~~~~~i~l~~~~e~~~~R~~~r~-~ 114 (154)
T cd00464 49 ------------EGEEGFRELEREVLLLLLTKENAVIAT-GGGAVLREENRRLLLENGIVVWLDASPEELLERLARDK-T 114 (154)
T ss_pred ------------HCHHHHHHHHHHHHHHHhccCCcEEEC-CCCccCcHHHHHHHHcCCeEEEEeCCHHHHHHHhccCC-C
Confidence 011244555555666677777788875 22322222 24589999999999999943221 0
Q ss_pred cC--CCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchh
Q psy14505 1015 KG--FSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQ 1061 (1619)
Q Consensus 1015 ~~--~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~iee 1061 (1619)
+. ...+.+.+.+...+|... |... -.+.|||+++++++
T Consensus 115 r~~~~~~~~~~~~~~~~~r~~~--------Y~~~-ad~~i~~~~~~~~~ 154 (154)
T cd00464 115 RPLLQDEDPERLRELLEEREPL--------YREV-ADLTIDTDELSPEE 154 (154)
T ss_pred CCCCCCCCHHHHHHHHHHHHHH--------HHHh-CcEEEECCCCCCCC
Confidence 11 112223445544444332 1111 13779999999874
No 183
>TIGR00448 rpoE DNA-directed RNA polymerase (rpoE), archaeal and eukaryotic form. This family seems to be confined to the archea and eukaryotic taxa and are quite dissimilar to E.coli rpoE.
Probab=98.00 E-value=2e-05 Score=86.44 Aligned_cols=81 Identities=28% Similarity=0.451 Sum_probs=66.7
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCcc----------ccccCCCCCCEEEEEEEEee-----cCC
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGE----------EIIRNFKKGDEIEAIILSID-----VEK 1491 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~----------~~~~~f~vGq~V~~~Vl~vd-----~e~ 1491 (1619)
.+|+++.|.|++++++|+||++ +.++|++|.+++.++...- +....|++||.|+++|.+++ ++.
T Consensus 80 ~~gEvv~G~V~~v~~~GifV~l-g~~~gi~~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvrV~~v~~~~~~~~~ 158 (179)
T TIGR00448 80 ELGEIVEGEVIEIVEFGAFVSL-GPFDGLFHVSQVTDDYCYYDPKESALIGKETKKVLDEGDKVRARIVALSLKDRRPEG 158 (179)
T ss_pred cCCCEEEEEEEEEEeeEEEEEe-CCceEEEEcHHhCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEccCCCCCc
Confidence 4699999999999999999999 5699999999998533211 22367999999999999998 678
Q ss_pred CeEEEeeecCcCCCccc
Q psy14505 1492 ERISLGIKQLEGDPFNN 1508 (1619)
Q Consensus 1492 ~ri~LSlK~~~~~p~~~ 1508 (1619)
.++.+|+|+....|+.+
T Consensus 159 ~~I~lt~k~~~LG~~~w 175 (179)
T TIGR00448 159 SKIGLTMRQPLLGKLEW 175 (179)
T ss_pred ceEEEEeccCcCCcccc
Confidence 89999999866555543
No 184
>PRK13948 shikimate kinase; Provisional
Probab=98.00 E-value=2.4e-05 Score=85.89 Aligned_cols=151 Identities=14% Similarity=0.145 Sum_probs=98.4
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|..|+||+++++.+|+++|++|+|++.+.+. ..|.+..+ -+.+ + |
T Consensus 12 ~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D~~ie~------~~g~si~~--if~~--------~--------G------ 61 (182)
T PRK13948 12 WVALAGFMGTGKSRIGWELSRALMLHFIDTDRYIER------VTGKSIPE--IFRH--------L--------G------ 61 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCEEECCHHHHH------HHhCCHHH--HHHH--------h--------C------
Confidence 456668999999999999999999999999865542 22332210 0000 0 1
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEe-ccccCeeeecC-------CCeEEEEEcCHHHHHHhchHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVAD-GRDMGTTVFPD-------AFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~-GRd~~~~v~p~-------a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
....|+...++.+++...+++|+. |- |+++.|+ ...-|||+||++.-.+|..
T Consensus 62 ---------------e~~fR~~E~~~l~~l~~~~~~VIa~Gg--G~v~~~~n~~~l~~~g~vV~L~~~~e~l~~Rl~--- 121 (182)
T PRK13948 62 ---------------EAYFRRCEAEVVRRLTRLDYAVISLGG--GTFMHEENRRKLLSRGPVVVLWASPETIYERTR--- 121 (182)
T ss_pred ---------------HHHHHHHHHHHHHHHHhcCCeEEECCC--cEEcCHHHHHHHHcCCeEEEEECCHHHHHHHhc---
Confidence 135677777777777665666654 43 6666663 2478999999999999831
Q ss_pred HhcCCC-----CCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1013 MQKGFS-----VSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1013 ~~~~~~-----~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
....+ .+.+++.+.+.+|+.. | .. .+++|||++.+++++++.|.+.+..
T Consensus 122 -~~~RPll~~~~~~~~l~~l~~~R~~~--------Y-~~-a~~~i~t~~~~~~ei~~~i~~~l~~ 175 (182)
T PRK13948 122 -PGDRPLLQVEDPLGRIRTLLNEREPV--------Y-RQ-ATIHVSTDGRRSEEVVEEIVEKLWA 175 (182)
T ss_pred -CCCCCCCCCCChHHHHHHHHHHHHHH--------H-Hh-CCEEEECCCCCHHHHHHHHHHHHHH
Confidence 11111 1234555555665432 2 11 2478999999999999999887755
No 185
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=98.00 E-value=4.1e-05 Score=83.58 Aligned_cols=154 Identities=17% Similarity=0.242 Sum_probs=91.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|+.|+||++.++.+|+.+|++++|++.... ...|.+.. .+.+.
T Consensus 6 ~I~liG~~GaGKStl~~~La~~l~~~~vd~D~~i~------~~~g~~i~---~~~~~----------------------- 53 (172)
T PRK05057 6 NIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIE------KRTGADIG---WVFDV----------------------- 53 (172)
T ss_pred EEEEECCCCcCHHHHHHHHHHHcCCcEEECCchHH------HHhCcCHh---HHHHH-----------------------
Confidence 46667899999999999999999999999976422 12343221 11000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEe-ccccCeee-------ecCCCeEEEEEcCHHHHHHhchHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVAD-GRDMGTTV-------FPDAFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~-GRd~~~~v-------~p~a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
......|....++..+++..+++|+. |. |.++ +..+...|||++|++++.+|....
T Consensus 54 -------------~g~~~fr~~e~~~l~~l~~~~~~vi~~gg--g~v~~~~~~~~l~~~~~vv~L~~~~e~~~~Ri~~~- 117 (172)
T PRK05057 54 -------------EGEEGFRDREEKVINELTEKQGIVLATGG--GSVKSRETRNRLSARGVVVYLETTIEKQLARTQRD- 117 (172)
T ss_pred -------------hCHHHHHHHHHHHHHHHHhCCCEEEEcCC--chhCCHHHHHHHHhCCEEEEEeCCHHHHHHHHhCC-
Confidence 01123344445555666655566553 32 3332 344678999999999999993211
Q ss_pred HhcC-C-CCCHHHHH-HHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1013 MQKG-F-SVSMSDLL-INLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1013 ~~~~-~-~~~~~~~~-~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
..+. . +.+.++.. .-..+|+.. |.... +++|||++++++++++.|++.++
T Consensus 118 ~~rP~~~~~~~~~~~~~l~~~R~~~--------Y~~~A-d~~idt~~~s~~ei~~~i~~~l~ 170 (172)
T PRK05057 118 KKRPLLQVDDPREVLEALANERNPL--------YEEIA-DVTIRTDDQSAKVVANQIIHMLE 170 (172)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHH--------HHhhC-CEEEECCCCCHHHHHHHHHHHHh
Confidence 0110 0 11222223 333343222 22212 27899999999999999987654
No 186
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=97.98 E-value=1.1e-05 Score=96.73 Aligned_cols=111 Identities=19% Similarity=0.323 Sum_probs=86.1
Q ss_pred CCCCCCCeEEEEEEEEecCCCeEEeecchhhhhhhhHHHHHHHhcc--CCCcEEEEEEEEEecCeEEEEeCCEEEEeecc
Q psy14505 1209 TTPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMGEERQKLIETL--KEGCTVKGVVKNITDYGAFIDLGGIDGLLHIT 1286 (1619)
Q Consensus 1209 ~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~~~~~~~~~~l--~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~s 1286 (1619)
+...+|+.+.+.+...+..+..+..+.+...+......+...++.+ +.|++++|+|.++.++|++|++|++.||||.+
T Consensus 85 ~~~~vGD~i~~~I~~~~fgR~aaq~akqvI~Qkire~ere~v~~ef~~k~GeiV~G~V~~~~~~~~~Vdlg~vEa~LP~~ 164 (362)
T PRK12327 85 PAYELGDVIEIEVTPKDFGRIAAQTAKQVIMQRLREAEREIIYNEFSEREGDIVTGVVQRRDNRFVYVNLGKIEAVLPPA 164 (362)
T ss_pred ccccCCCEEEEecCcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEEEEEeCCcEEEEeCCeEEEecHH
Confidence 4445899999988765544444444444444444444567778888 99999999999999999999999999999988
Q ss_pred ccCccccCCCccccccCCEEEEEEEEeecCCC--eEEEeee
Q psy14505 1287 DIAWRRVKHPSEILTIGQDISTKILKYDQEKN--RVSLGMK 1325 (1619)
Q Consensus 1287 els~~~~~~~~~~~~vG~~v~vrVl~vd~~~~--~i~LSlK 1325 (1619)
++. |.+.|++|+.++|.|++++...+ .+.||+.
T Consensus 165 E~i------p~e~~~~Gd~Ika~V~~V~~~~kgp~IivSRt 199 (362)
T PRK12327 165 EQI------PGETYKHGDRIKVYVVKVEKTTKGPQIFVSRT 199 (362)
T ss_pred HcC------CCCCCCCCCEEEEEEEEEecCCCCCeEEEEeC
Confidence 875 45669999999999999996654 5888864
No 187
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=97.98 E-value=6.2e-05 Score=95.73 Aligned_cols=151 Identities=12% Similarity=0.180 Sum_probs=102.6
Q ss_pred CCCCCcEEEEEeCC-ceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCC
Q psy14505 648 DFPKNNYVFMSTSL-GIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRS 726 (1619)
Q Consensus 648 ~~~~e~~~v~iT~~-G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~ 726 (1619)
++++++..|++|+. |+ ..+.+++||. ++.|+++|+|++||++|++ +++++|..++.
T Consensus 465 ~i~~~~vkV~id~~~G~-----------------iG~~~K~gD~---l~~~st~D~LLvFT~~Gk~---KV~~Ipe~~~~ 521 (635)
T PRK09631 465 EIATKNLKVYYDLKTGF-----------------VGTSVKDGEF---IGNASYYDKILVIRKDGTY---VVKNIPDKTFI 521 (635)
T ss_pred HccCCCeEEEEECCCCc-----------------ccCccCCCce---EEEEeCCCEEEEEeCCCcE---EEEECCccCcC
Confidence 46788899999973 44 3355678887 6889999999999999994 99999999999
Q ss_pred CCCccc---eecCC-CCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEecCC
Q psy14505 727 ARGVIG---MRLEK-KQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRY 802 (1619)
Q Consensus 727 a~Gv~~---i~L~~-~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~ 802 (1619)
++|... +.+.+ +|+|.+++-.+..... =|+||..+..+...+. -..+ .+ +-.|..+. .+..
T Consensus 522 ~kGi~i~~~l~k~d~~EkI~svIY~Dg~~~~-------~YiKRF~i~~~~~dKe----y~~~--~e-~~~l~~~s-~~~~ 586 (635)
T PRK09631 522 DKKNVYVGVVDINNSKEQVFSIIYRDKKDNF-------YYVKRFKIDKFILDKV----YRFL--PE-GTEILFLS-TFED 586 (635)
T ss_pred CCCcChheeecCCCCCCeEEEEEEEeCCCCc-------eEEEEEecccccccce----eecc--CC-CceEEEEe-cCCC
Confidence 999887 66777 9999999877752211 1689998876543221 0111 12 22232221 1222
Q ss_pred cEEEE-EEC----CCeEEEEecCcccccCCCCCCeEEEE
Q psy14505 803 HEIML-ITT----GGILIRTRVSEIRKMGRSTQGVILIT 836 (1619)
Q Consensus 803 ~~i~l-~T~----~g~~lrf~~~eI~~~gr~a~Gv~~i~ 836 (1619)
..+-+ +.. .-....|+.+|+.+-||.|+|.++-+
T Consensus 587 ~~i~v~~~~~~~~~~~~~~~d~~ef~VKG~~A~GnrlT~ 625 (635)
T PRK09631 587 FSLNLQFVPKPRQKDIVKMFRIDDFLVKGRSAIGKRISS 625 (635)
T ss_pred cEEEEEEccCCcccccceEEeHHHceeccccccceEecc
Confidence 22222 122 22456778899999999999998743
No 188
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=97.96 E-value=2.6e-05 Score=101.91 Aligned_cols=93 Identities=28% Similarity=0.493 Sum_probs=73.1
Q ss_pred CCeEEeecc-hhhhhhhhHHHHHHHhccCCCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCccccCCCccccccCCE
Q psy14505 1228 RNNVVLSHR-AVIEESMGEERQKLIETLKEGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQD 1305 (1619)
Q Consensus 1228 ~~~i~LS~k-~~~~~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~ 1305 (1619)
.+.+.++.. ..................++|+++.|+|+++.++|+||++. +.+||+|+++++|.+..++.+.|++||.
T Consensus 589 dG~V~i~~~~~~~~~~a~~~I~~~~~~~~~G~i~~G~V~~I~~~GafVei~~g~~GllHiSei~~~~v~~~~~~~kvGD~ 668 (684)
T TIGR03591 589 DGTVKIAASDGEAAEAAIKMIEGITAEPEVGKIYEGKVVRIMDFGAFVEILPGKDGLVHISEIANERVEKVEDVLKEGDE 668 (684)
T ss_pred CeEEEEEECcHHHHHHHHHHHHhhhcccccCcEEEEEEEEEeCCEEEEEECCCcEEEEEHHHcCCCcccChhhccCCCCE
Confidence 466665543 22222222222334456799999999999999999999995 8999999999999999999999999999
Q ss_pred EEEEEEEeecCCCeEE
Q psy14505 1306 ISTKILKYDQEKNRVS 1321 (1619)
Q Consensus 1306 v~vrVl~vd~~~~~i~ 1321 (1619)
++|+|+++|+ ++++.
T Consensus 669 V~VkVi~id~-~gki~ 683 (684)
T TIGR03591 669 VKVKVLEIDK-QGRIK 683 (684)
T ss_pred EEEEEEEECC-CCCcc
Confidence 9999999997 56654
No 189
>TIGR00448 rpoE DNA-directed RNA polymerase (rpoE), archaeal and eukaryotic form. This family seems to be confined to the archea and eukaryotic taxa and are quite dissimilar to E.coli rpoE.
Probab=97.93 E-value=3.1e-05 Score=84.95 Aligned_cols=82 Identities=26% Similarity=0.351 Sum_probs=66.6
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccC----------CCccccccCCCEEEEEEEEee-----cc
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKN----------VTPSKIVQLNDTVEIMILEIN-----EE 1403 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~----------~~~~~~~~vG~~V~vrVl~id-----~e 1403 (1619)
..+|+++.|+|++++++|+||+++ .++|++|.+++.+.... .+....|+.|+.|+++|.+++ ++
T Consensus 79 p~~gEvv~G~V~~v~~~GifV~lg-~~~gi~~~~~l~~~~~~~d~~~~~~~~~~~~~~~~~Gd~VrvrV~~v~~~~~~~~ 157 (179)
T TIGR00448 79 PELGEIVEGEVIEIVEFGAFVSLG-PFDGLFHVSQVTDDYCYYDPKESALIGKETKKVLDEGDKVRARIVALSLKDRRPE 157 (179)
T ss_pred ccCCCEEEEEEEEEEeeEEEEEeC-CceEEEEcHHhCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEccCCCCC
Confidence 346999999999999999999995 69999999998642111 123478999999999999998 67
Q ss_pred cceEEEeeecccCCCCcc
Q psy14505 1404 RRRISLGMKQCKDNPWEN 1421 (1619)
Q Consensus 1404 ~~ri~LSlK~~~~~~~~~ 1421 (1619)
..++.+|+|+.-..++..
T Consensus 158 ~~~I~lt~k~~~LG~~~w 175 (179)
T TIGR00448 158 GSKIGLTMRQPLLGKLEW 175 (179)
T ss_pred cceEEEEeccCcCCcccc
Confidence 789999999876655443
No 190
>PLN02199 shikimate kinase
Probab=97.93 E-value=5.4e-05 Score=87.67 Aligned_cols=160 Identities=16% Similarity=0.179 Sum_probs=101.3
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|..|+||+++++.+|+.+|++|+|++.+.+... .|.+.. ++-+.
T Consensus 104 ~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~lIe~~~-----~G~sI~---eIf~~----------------------- 152 (303)
T PLN02199 104 SMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDTLIEQAM-----NGTSVA---EIFVH----------------------- 152 (303)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCEEehHHHHHHHh-----cCCCHH---HHHHH-----------------------
Confidence 46666899999999999999999999999988877321 133221 11000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecC------CCeEEEEEcCHHHHHHhchHHHH-
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPD------AFLKIFLTADIKQRTKRRYKQLM- 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~------a~~kifl~A~~e~Ra~Rr~~~l~- 1013 (1619)
--.+.+|+...++.+++....+|||-=. .|.++.|. ..+.|||+||+|.+++|....-.
T Consensus 153 -------------~GE~~FR~~E~e~L~~L~~~~~~VIStG-GG~V~~~~n~~~L~~G~vV~Ldas~E~l~~RL~~~~~~ 218 (303)
T PLN02199 153 -------------HGENFFRGKETDALKKLSSRYQVVVSTG-GGAVIRPINWKYMHKGISIWLDVPLEALAHRIAAVGTD 218 (303)
T ss_pred -------------hCHHHHHHHHHHHHHHHHhcCCEEEECC-CcccCCHHHHHHHhCCeEEEEECCHHHHHHHHhhcCCC
Confidence 0112667778888888876666666221 35554443 34889999999999999332100
Q ss_pred hcC-C-CCC-------HHHHHHHHHhhhhhcccCCCCCCCCCCCceEEc------------cCcccchhhhhhhhhhhhh
Q psy14505 1014 QKG-F-SVS-------MSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLN------------TSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1014 ~~~-~-~~~-------~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Id------------ts~l~ieevv~~I~~~i~~ 1072 (1619)
.+. . ..+ .+.+.+-+++|... .... +++|| |+++++++++..|++.+..
T Consensus 219 ~RPLL~~~~~d~~~~~~~~L~~L~~~R~pl---------Y~~A-d~~V~~~~~~~~~~~~~td~~s~~ei~~eIl~~l~~ 288 (303)
T PLN02199 219 SRPLLHDESGDAYSVAFKRLSAIWDERGEA---------YTNA-NARVSLENIAAKRGYKNVSDLTPTEIAIEAFEQVLS 288 (303)
T ss_pred CCCcCCCCCcchhhhHHHHHHHHHHHHHHH---------HHhC-CEEEecccccccccccccCCCCHHHHHHHHHHHHHH
Confidence 000 0 011 23344444444322 2122 25677 8999999999999998877
Q ss_pred hhh
Q psy14505 1073 LFK 1075 (1619)
Q Consensus 1073 ll~ 1075 (1619)
.+.
T Consensus 289 ~l~ 291 (303)
T PLN02199 289 FLE 291 (303)
T ss_pred HHh
Confidence 765
No 191
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=97.88 E-value=5.5e-05 Score=96.99 Aligned_cols=154 Identities=14% Similarity=0.104 Sum_probs=100.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|..|+||+|+++.+|++||++|+|++.... .+.|.+..+. +.+.
T Consensus 8 ~i~LiG~~GaGKttvg~~LA~~L~~~fiD~D~~ie------~~~g~si~ei--f~~~----------------------- 56 (542)
T PRK14021 8 QAVIIGMMGAGKTRVGKEVAQMMRLPFADADVEIE------REIGMSIPSY--FEEY----------------------- 56 (542)
T ss_pred cEEEECCCCCCHHHHHHHHHHHhCCCEEEchHHHH------HHHCcCHHHH--HHHH-----------------------
Confidence 45566899999999999999999999999987544 3445543211 1000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEE-eccccCeeeecC-----------CCeEEEEEcCHHHHHHhc
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVA-DGRDMGTTVFPD-----------AFLKIFLTADIKQRTKRR 1008 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~-~GRd~~~~v~p~-----------a~~kifl~A~~e~Ra~Rr 1008 (1619)
-.+..|+...+..++++...++|+ -|- |.+..|+ ..+.|||+||++..++|.
T Consensus 57 --------------Ge~~FR~~E~~~l~~~~~~~~~VIs~GG--G~v~~~~n~~~L~~~~~~~g~vv~L~~~~~~l~~Rl 120 (542)
T PRK14021 57 --------------GEPAFREVEADVVADMLEDFDGIFSLGG--GAPMTPSTQHALASYIAHGGRVVYLDADPKEAMERA 120 (542)
T ss_pred --------------HHHHHHHHHHHHHHHHHhcCCeEEECCC--chhCCHHHHHHHHHHHhcCCEEEEEECCHHHHHHHH
Confidence 112558888888888775555555 553 4444332 236899999999999992
Q ss_pred hHHHHhc-CC-CCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1009 YKQLMQK-GF-SVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1009 ~~~l~~~-~~-~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
... ..+ -. ..+.+++.+-..+|+..-.. --+++|||+.++++++++.|++.+.
T Consensus 121 ~~~-~~RPll~~~~~~~~~~l~~~R~~~Y~~---------~Ad~~i~~~~~~~~~~~~~i~~~~~ 175 (542)
T PRK14021 121 NRG-GGRPMLNGDANKRWKKLFKQRDPVFRQ---------VANVHVHTRGLTPQAAAKKLIDMVA 175 (542)
T ss_pred hCC-CCCCCCCCCcHHHHHHHHHHHHHHHHh---------hCCEEEECCCCCHHHHHHHHHHHHH
Confidence 111 000 01 11245566666666544321 1137799999999999999988765
No 192
>PRK00081 coaE dephospho-CoA kinase; Reviewed
Probab=97.88 E-value=4.6e-05 Score=84.93 Aligned_cols=183 Identities=17% Similarity=0.191 Sum_probs=103.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCcccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVT 938 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~ 938 (1619)
.+|.+.|+.|+||+++++.+++ +|++++|++.+.|.+. +.+ .....+.... |+ ..++. +|. ++
T Consensus 3 ~~i~ltG~~gsGKst~~~~l~~-~g~~~i~~D~~~~~~~----~~~-----~~~~~~i~~~----fg-~~~~~~~g~-id 66 (194)
T PRK00081 3 LIIGLTGGIGSGKSTVANLFAE-LGAPVIDADAIAHEVV----EPG-----GPALQAIVEA----FG-PEILDADGE-LD 66 (194)
T ss_pred eEEEEECCCCCCHHHHHHHHHH-cCCEEEEecHHHHHHh----hcc-----HHHHHHHHHH----hC-HHhcCCCCC-cC
Confidence 3678889999999999999988 9999999999998432 221 1111111111 11 01111 111 11
Q ss_pred cc-ccccccccccc--cc--cccHHHHHHHHHHHHhhhcCCCeEEeccccC-eeeecCCCeEEEEEcCHHHHHHhchHHH
Q psy14505 939 TL-IRNEKVSNNAS--KI--AKFKNIRKELFKIQVKFRKFPGLVADGRDMG-TTVFPDAFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 939 ~~-ir~~~~~~~~s--~~--a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~-~~v~p~a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
.. |+..-.+.... .+ -.+|.|++.+.+.+++....+-+|+|+-..- +-.....|.-||++||++.|.+|
T Consensus 67 r~~L~~~vf~~~~~~~~L~~i~hP~v~~~~~~~~~~~~~~~~vv~e~pll~e~~~~~~~D~vi~V~a~~e~~~~R----- 141 (194)
T PRK00081 67 RAKLRELVFSDPEARKKLEAILHPLIREEILEQLQEAESSPYVVLDIPLLFENGLEKLVDRVLVVDAPPETQLER----- 141 (194)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHcccCCEEEEEehHhhcCCchhhCCeEEEEECCHHHHHHH-----
Confidence 11 21111111100 01 2678888887766655433356777774321 11222346889999999999999
Q ss_pred HhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1013 MQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1013 ~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
.+++.+.+.+++.+.+.. ..... ...... +++||++. +++++...+.++++
T Consensus 142 l~~R~~~s~e~~~~ri~~-Q~~~~-----~~~~~a-d~vI~N~g-~~e~l~~qv~~i~~ 192 (194)
T PRK00081 142 LMARDGLSEEEAEAIIAS-QMPRE-----EKLARA-DDVIDNNG-DLEELRKQVERLLQ 192 (194)
T ss_pred HHHcCCCCHHHHHHHHHH-hCCHH-----HHHHhC-CEEEECCC-CHHHHHHHHHHHHH
Confidence 444456788877776553 11111 111112 36677764 88888887765543
No 193
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=97.86 E-value=8.3e-05 Score=82.86 Aligned_cols=182 Identities=13% Similarity=0.092 Sum_probs=98.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVTT 939 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~ 939 (1619)
+|.+.|+.||||+++++.+++.+|++++|++.+.+.+- +.|- .-.+.+.+. |+. .++. +|..+..
T Consensus 3 ~i~itG~~gsGKst~~~~l~~~~g~~~i~~D~~~~~~~----~~~~--~~~~~l~~~-------fg~-~i~~~~g~~idr 68 (195)
T PRK14730 3 RIGLTGGIASGKSTVGNYLAQQKGIPILDADIYAREAL----APGS--PILKAILQR-------YGN-KIIDPDGSELNR 68 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCCeEeeCcHHHHHHH----hcCc--hHHHHHHHH-------hCH-HhcCCCCCeeCH
Confidence 57888999999999999999999999999999988442 3321 001111111 110 1111 1201111
Q ss_pred -cccccccccccc--cc--cccHHHHHHHHHHHHhhhcCCCeEEeccccCeeee-cCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 940 -LIRNEKVSNNAS--KI--AKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVF-PDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 940 -~ir~~~~~~~~s--~~--a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~-p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
.|+..-.+.... .+ -.+|.|++.+.+...+....+-+|+|--..-..-+ ...|..||++||.+.|.+| .
T Consensus 69 ~~L~~~vf~d~~~~~~l~~i~hP~i~~~~~~~~~~~~~~~~vv~e~pll~E~~~~~~~D~ii~V~a~~e~r~~R-----l 143 (195)
T PRK14730 69 KALGEIIFNDPEERRWLENLIHPYVRERFEEELAQLKSNPIVVLVIPLLFEAKLTDLCSEIWVVDCSPEQQLQR-----L 143 (195)
T ss_pred HHHHHHHhCCHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCEEEEEeHHhcCcchHhCCCEEEEEECCHHHHHHH-----H
Confidence 011110000000 00 15677777776655554333445555432111111 2357899999999999999 3
Q ss_pred hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1014 QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1014 ~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
.++.+.+.+++.+.+..- .. ..+.....| ++|+++. ++++.-..+..+
T Consensus 144 ~~R~g~s~e~~~~ri~~Q----~~--~~~k~~~aD-~vI~N~g-~~e~l~~qv~~~ 191 (195)
T PRK14730 144 IKRDGLTEEEAEARINAQ----WP--LEEKVKLAD-VVLDNSG-DLEKLYQQVDQL 191 (195)
T ss_pred HHcCCCCHHHHHHHHHhC----CC--HHHHHhhCC-EEEECCC-CHHHHHHHHHHH
Confidence 344467888877755441 11 111222233 4566554 788876666443
No 194
>KOG3354|consensus
Probab=97.86 E-value=0.00012 Score=75.37 Aligned_cols=172 Identities=20% Similarity=0.300 Sum_probs=107.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
+|.+-|.+|+||+|+++.++++||++|+|.+.+.--...--+.+|++.+|.+++ .|+.+......
T Consensus 14 ~i~vmGvsGsGKSTigk~L~~~l~~~F~dgDd~Hp~~NveKM~~GipLnD~DR~-pWL~~i~~~~~-------------- 78 (191)
T KOG3354|consen 14 VIVVMGVSGSGKSTIGKALSEELGLKFIDGDDLHPPANVEKMTQGIPLNDDDRW-PWLKKIAVELR-------------- 78 (191)
T ss_pred eEEEEecCCCChhhHHHHHHHHhCCcccccccCCCHHHHHHHhcCCCCCccccc-HHHHHHHHHHH--------------
Confidence 677778999999999999999999999999998876666677889988877665 34443332221
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCC-eEEEEEcCHHHHHHhchHHHHhcCCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAF-LKIFLTADIKQRTKRRYKQLMQKGFSV 1019 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~-~kifl~A~~e~Ra~Rr~~~l~~~~~~~ 1019 (1619)
....+..- .|-+...+++.-..++|.- -+ +||. | -.|++. .=|||.||.|+-++|. ..+..+.
T Consensus 79 --~~l~~~q~-vVlACSaLKk~YRdILr~s-l~-----~gk~-~--~~~~~~l~fi~l~~s~evi~~Rl----~~R~gHF 142 (191)
T KOG3354|consen 79 --KALASGQG-VVLACSALKKKYRDILRHS-LK-----DGKP-G--KCPESQLHFILLSASFEVILKRL----KKRKGHF 142 (191)
T ss_pred --HHhhcCCe-EEEEhHHHHHHHHHHHHhh-cc-----cCCc-c--CCccceEEEeeeeccHHHHHHHH----hhccccc
Confidence 11011111 1223445566666666662 11 4552 1 234444 2389999999999993 3333334
Q ss_pred CHHHHHH-HHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1020 SMSDLLI-NLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1020 ~~~~~~~-~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
-..++++ +..- -..|--..+|.+.||--..++|++++.|++.+.
T Consensus 143 Mp~~lleSQf~~--------LE~p~~~e~div~isv~~~~~e~iv~tI~k~~~ 187 (191)
T KOG3354|consen 143 MPADLLESQFAT--------LEAPDADEEDIVTISVKTYSVEEIVDTIVKMVA 187 (191)
T ss_pred CCHHHHHHHHHh--------ccCCCCCccceEEEeeccCCHHHHHHHHHHHHH
Confidence 3333333 2111 112333334678888887999999999976544
No 195
>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]
Probab=97.85 E-value=0.0002 Score=73.73 Aligned_cols=157 Identities=17% Similarity=0.225 Sum_probs=101.8
Q ss_pred CCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccccccc
Q psy14505 866 GPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLIRNEK 945 (1619)
Q Consensus 866 g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ir~~~ 945 (1619)
|.+|+||++++..+|+++|++|+|...+.-...-.-+.+|++++|.++. .++..++-.. ++..
T Consensus 2 GVsG~GKStvg~~lA~~lg~~fidGDdlHp~aNi~KM~~GiPL~DdDR~-pWL~~l~~~~----------------~~~~ 64 (161)
T COG3265 2 GVSGSGKSTVGSALAERLGAKFIDGDDLHPPANIEKMSAGIPLNDDDRW-PWLEALGDAA----------------ASLA 64 (161)
T ss_pred CCCccCHHHHHHHHHHHcCCceecccccCCHHHHHHHhCCCCCCcchhh-HHHHHHHHHH----------------HHhh
Confidence 5679999999999999999999999998877776667889988877654 3333222111 1111
Q ss_pred cccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHH-
Q psy14505 946 VSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDL- 1024 (1619)
Q Consensus 946 ~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~- 1024 (1619)
-... ..+.+...+.+.-.+++|+- ++.+.| |||+++.+.-.+| +..+..+.-....
T Consensus 65 ~~~~-~~vi~CSALKr~YRD~LR~~------------~~~~~F------v~L~g~~~~i~~R----m~~R~gHFM~~~ll 121 (161)
T COG3265 65 QKNK-HVVIACSALKRSYRDLLREA------------NPGLRF------VYLDGDFDLILER----MKARKGHFMPASLL 121 (161)
T ss_pred cCCC-ceEEecHHHHHHHHHHHhcc------------CCCeEE------EEecCCHHHHHHH----HHhcccCCCCHHHH
Confidence 1111 12344445555555555542 344678 9999999999999 3333333333332
Q ss_pred HHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1025 LINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1025 ~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
..+... .++-...+|++.||-+. ++++++..++..+..
T Consensus 122 ~SQfa~---------LE~P~~de~vi~idi~~-~~e~vv~~~~~~l~~ 159 (161)
T COG3265 122 DSQFAT---------LEEPGADEDVLTIDIDQ-PPEEVVAQALAWLKE 159 (161)
T ss_pred HHHHHH---------hcCCCCCCCEEEeeCCC-CHHHHHHHHHHHHhc
Confidence 222222 33445566899999985 899999998876653
No 196
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=97.84 E-value=2.5e-05 Score=83.54 Aligned_cols=154 Identities=16% Similarity=0.229 Sum_probs=99.1
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|..-|..|+||+|+++.||+.||++|+|++.... .+.|.+.. ++-+. .|
T Consensus 5 IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D~~Ie------~~~g~sI~---eIF~~---------------~G------- 53 (172)
T COG0703 5 IVLIGFMGAGKSTIGRALAKALNLPFIDTDQEIE------KRTGMSIA---EIFEE---------------EG------- 53 (172)
T ss_pred EEEEcCCCCCHhHHHHHHHHHcCCCcccchHHHH------HHHCcCHH---HHHHH---------------Hh-------
Confidence 3444788999999999999999999999977755 23344322 11000 01
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCC-CeEEeccccCeeeecC-------CCeEEEEEcCHHHHHHhchHHHH
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFP-GLVADGRDMGTTVFPD-------AFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~-~~V~~GRd~~~~v~p~-------a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
-+..|+...++++++...+ .||.-|- |.|..+. ..+.|||+||+|.-.+|-..+-.
T Consensus 54 --------------E~~FR~~E~~vl~~l~~~~~~ViaTGG--G~v~~~enr~~l~~~g~vv~L~~~~e~l~~Rl~~~~~ 117 (172)
T COG0703 54 --------------EEGFRRLETEVLKELLEEDNAVIATGG--GAVLSEENRNLLKKRGIVVYLDAPFETLYERLQRDRK 117 (172)
T ss_pred --------------HHHHHHHHHHHHHHHhhcCCeEEECCC--ccccCHHHHHHHHhCCeEEEEeCCHHHHHHHhccccC
Confidence 2366888888888887665 6777775 6666443 34889999999999999331100
Q ss_pred hcC-CCCCH-HHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1014 QKG-FSVSM-SDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1014 ~~~-~~~~~-~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
+.- ...+. +++.+-+++|+-. .......++++.+-+ +++++.|+..+..
T Consensus 118 RPll~~~~~~~~l~~L~~~R~~~---------Y~e~a~~~~~~~~~~-~~v~~~i~~~l~~ 168 (172)
T COG0703 118 RPLLQTEDPREELEELLEERQPL---------YREVADFIIDTDDRS-EEVVEEILEALEG 168 (172)
T ss_pred CCcccCCChHHHHHHHHHHHHHH---------HHHhCcEEecCCCCc-HHHHHHHHHHHHH
Confidence 000 11233 4466666666543 222245778888877 8888888776543
No 197
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=97.84 E-value=8.1e-06 Score=87.88 Aligned_cols=147 Identities=19% Similarity=0.212 Sum_probs=89.1
Q ss_pred cCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccccccccc
Q psy14505 868 TASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLIRNEKVS 947 (1619)
Q Consensus 868 ~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ir~~~~~ 947 (1619)
.|+||+|+++.+|+.||++|+|++.++... .|.+.. ++..
T Consensus 1 ~GsGKStvg~~lA~~L~~~fiD~D~~i~~~------~g~si~---~i~~------------------------------- 40 (158)
T PF01202_consen 1 MGSGKSTVGKLLAKRLGRPFIDLDDEIEER------TGMSIS---EIFA------------------------------- 40 (158)
T ss_dssp TTSSHHHHHHHHHHHHTSEEEEHHHHHHHH------HTSHHH---HHHH-------------------------------
T ss_pred CCCcHHHHHHHHHHHhCCCccccCHHHHHH------hCCcHH---HHHH-------------------------------
Confidence 489999999999999999999998876522 232111 1100
Q ss_pred cccccccccHHHHHHHHHHHHhhhcCCCeEE-eccccCeeeecCC-------CeEEEEEcCHHHHHHhchHHHHhcCCCC
Q psy14505 948 NNASKIAKFKNIRKELFKIQVKFRKFPGLVA-DGRDMGTTVFPDA-------FLKIFLTADIKQRTKRRYKQLMQKGFSV 1019 (1619)
Q Consensus 948 ~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~-~GRd~~~~v~p~a-------~~kifl~A~~e~Ra~Rr~~~l~~~~~~~ 1019 (1619)
-.-.+..|+...++.+++....+||+ -|- |.+..|++ ..-|||++|++.-.+|...+ ..+..-.
T Consensus 41 -----~~G~~~fr~~E~~~l~~l~~~~~~VIa~GG--G~~~~~~~~~~L~~~g~vI~L~~~~~~l~~Rl~~~-~~Rp~l~ 112 (158)
T PF01202_consen 41 -----EEGEEAFRELESEALRELLKENNCVIACGG--GIVLKEENRELLKENGLVIYLDADPEELAERLRAR-DNRPLLK 112 (158)
T ss_dssp -----HHHHHHHHHHHHHHHHHHHCSSSEEEEE-T--TGGGSHHHHHHHHHHSEEEEEE--HHHHHHHHHHH-CTSGGTC
T ss_pred -----cCChHHHHHHHHHHHHHHhccCcEEEeCCC--CCcCcHHHHHHHHhCCEEEEEeCCHHHHHHHHhCC-CCCCCCC
Confidence 00123568888888888888745444 553 55555542 47899999999998883211 1100001
Q ss_pred CH---HHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1020 SM---SDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1020 ~~---~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
.. ++..+.+.+|+..- ...+.+++|++..+++++++.|++.++
T Consensus 113 ~~~~~~~~~~~~~~R~~~Y---------~~~a~~~v~~~~~~~~~i~~~i~~~l~ 158 (158)
T PF01202_consen 113 GKMEHEEILELLFEREPLY---------EQAADIVVDTDGSPPEEIAEEILEFLK 158 (158)
T ss_dssp SHHHHHHHHHHHHHHHHHH---------HHHSSEEEETSSCHHHHHHHHHHHHH-
T ss_pred CCChHHHHHHHHHHHHHHH---------HhcCeEEEeCCCCCHHHHHHHHHHHhC
Confidence 11 13344444433321 122457899999999999999987653
No 198
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=97.82 E-value=5.5e-05 Score=90.32 Aligned_cols=112 Identities=20% Similarity=0.351 Sum_probs=83.2
Q ss_pred CCCCCCCeEEEEEEEEecCCCeEEeecchhh-hhhhhHHHHHHHhcc--CCCcEEEEEEEEEecCe-EEEEeCCEEEEee
Q psy14505 1209 TTPFEGKTMDFKVIKLDRKRNNVVLSHRAVI-EESMGEERQKLIETL--KEGCTVKGVVKNITDYG-AFIDLGGIDGLLH 1284 (1619)
Q Consensus 1209 ~~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~-~~~~~~~~~~~~~~l--~~G~iv~g~V~~v~~~G-~~V~l~gi~g~l~ 1284 (1619)
+...+|+.+++.|..-+. .+....+.++.+ +......+...++.+ +.|++++|+|.++.+.| ++|++|+..|+||
T Consensus 82 ~~~~vGD~I~~~I~~~~f-gR~aaq~aKqvi~Qkire~ere~i~~ey~~k~GeiV~G~V~~v~~~g~v~VdiG~~ea~LP 160 (341)
T TIGR01953 82 PDVQIGDEVKKEIPPENF-GRIAAQTAKQVILQKIREAERERVYDEFSSKEGEIISGTVKRVNRRGNLYVELGKTEGILP 160 (341)
T ss_pred cccccCCEEEEEecccCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCEEEEEEEEEecCCcEEEEECCeEEEec
Confidence 445599999988843322 223333345543 222233566677777 49999999999999987 6999999999999
Q ss_pred ccccCccccCCCccccccCCEEEEEEEEeecCC--CeEEEeeecc
Q psy14505 1285 ITDIAWRRVKHPSEILTIGQDISTKILKYDQEK--NRVSLGMKQL 1327 (1619)
Q Consensus 1285 ~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~--~~i~LSlK~~ 1327 (1619)
.++.. |.+.|++|+.++|.|+.++... ..+.||++..
T Consensus 161 ~~E~i------p~E~~~~Gd~ik~~V~~V~~~~kg~qIivSRt~~ 199 (341)
T TIGR01953 161 KKEQI------PGEKFRIGDRIKAYVYEVRKTAKGPQIILSRTHP 199 (341)
T ss_pred HHHcC------CCcCCCCCCEEEEEEEEEEcCCCCCeEEEEeCcH
Confidence 99987 4555999999999999999554 5799998754
No 199
>PRK06217 hypothetical protein; Validated
Probab=97.82 E-value=3.8e-05 Score=84.79 Aligned_cols=160 Identities=21% Similarity=0.255 Sum_probs=92.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
+.|.+.|.+||||+|.++.|++++|++|+|.+.+++. ..+.+..
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~------~~~~~~~------------------------------ 45 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWL------PTDPPFT------------------------------ 45 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeec------cCCCCcc------------------------------
Confidence 4578889999999999999999999999999888761 1111000
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCe--eeecCCCeEEEEEcCHHHHHHhchHHHHh-cC
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT--TVFPDAFLKIFLTADIKQRTKRRYKQLMQ-KG 1016 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~--~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~-~~ 1016 (1619)
...+. . ..+..+...+..+.++|++|.-..+ .+++.+++.|||.+|.+.+.+|...+-.. .+
T Consensus 46 -----------~~~~~--~--~~~~~~~~~~~~~~~~vi~G~~~~~~~~~~~~~d~~i~Ld~~~~~~~~Rl~~R~~~~~~ 110 (183)
T PRK06217 46 -----------TKRPP--E--ERLRLLLEDLRPREGWVLSGSALGWGDPLEPLFDLVVFLTIPPELRLERLRLREFQRYG 110 (183)
T ss_pred -----------ccCCH--H--HHHHHHHHHHhcCCCEEEEccHHHHHHHHHhhCCEEEEEECCHHHHHHHHHcCcccccC
Confidence 00000 1 1122222334455689999964322 24567889999999999999996654211 11
Q ss_pred C----CCCHHHHHHHHHhhhhhcccCCC--CCCC-------CCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1017 F----SVSMSDLLINLIKRDIRDKTRNL--SPLK-------CPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1017 ~----~~~~~~~~~~i~~rD~~d~~r~~--~~l~-------~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
. +.+.++...++.++...-..+.. .++. ......++-++..+++++++.+...+
T Consensus 111 ~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~~~~~~~~~~~~i~~~~ 177 (183)
T PRK06217 111 NRILPGGDMHKASLEFLEWAASYDTAGPEGRSLAAHEQWLADQSCPVLRLDGDLTVEDLLDEVLDHL 177 (183)
T ss_pred cccCCCCCHHHHHHHHHHHHHhccCCCCCcccHHHHHHHHHhCCCCeEEEcCCCCHHHHHHHHHHHH
Confidence 1 22344444445554322111100 0111 11233444566678888887776554
No 200
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=97.78 E-value=0.0002 Score=79.07 Aligned_cols=174 Identities=17% Similarity=0.211 Sum_probs=96.4
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
.++.+-|++|+||+|.++.+++++|+.++++|.+.|... ..+ .. ....+.....+ |.
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~g~~~~~~~----~~~-~~-~~~~~~~~~~~-------------~~---- 60 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKYGFTHLSTGDLLRAEV----ASG-SE-RGKQLQAIMES-------------GD---- 60 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCcEEeHHHHHHHHH----hcC-CH-HHHHHHHHHHC-------------CC----
Confidence 467888999999999999999999999999999988421 111 10 01111111110 00
Q ss_pred cccccccccccccccccHHHHHHHHHHHH-hhhcCCCeEEeccccCe-------eeecCCCeEEEEEcCHHHHHHhchHH
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQV-KFRKFPGLVADGRDMGT-------TVFPDAFLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r-~~a~~~~~V~~GRd~~~-------~v~p~a~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
......+.+.+...+. .++...++|+||-.... --+...++-|||.+|++.+.+|...+
T Consensus 61 -------------~~~~~~~~~~l~~~~~~~~~~~~~~i~dg~~~~~~q~~~~~~~~~~~~~vi~l~~~~~~~~~Rl~~R 127 (188)
T TIGR01360 61 -------------LVPLDTVLDLLKDAMVAALGTSKGFLIDGYPREVKQGEEFERRIGPPTLVLYFDCSEDTMVKRLLKR 127 (188)
T ss_pred -------------CCCHHHHHHHHHHHHHcccCcCCeEEEeCCCCCHHHHHHHHHcCCCCCEEEEEECCHHHHHHHHHcc
Confidence 0111223333333332 34556789999953211 01123568999999999999994433
Q ss_pred HHh-cCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1012 LMQ-KGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1012 l~~-~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
-.. .....+.+.+.+.+..-...... -..-|......+.||++ .+++++...|...+.
T Consensus 128 ~~~~~r~d~~~~~~~~r~~~~~~~~~~-~~~~y~~~~~~~~id~~-~~~~~v~~~i~~~l~ 186 (188)
T TIGR01360 128 AETSGRVDDNEKTIKKRLETYYKATEP-VIAYYETKGKLRKINAE-GTVDDVFLQVCTAID 186 (188)
T ss_pred cccCCCCCCCHHHHHHHHHHHHHhhHH-HHHHHHhCCCEEEEECC-CCHHHHHHHHHHHHh
Confidence 100 01112444455544331111100 00112222345788876 799999998877654
No 201
>PRK14732 coaE dephospho-CoA kinase; Provisional
Probab=97.78 E-value=7e-05 Score=83.40 Aligned_cols=185 Identities=15% Similarity=0.118 Sum_probs=105.4
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCccccc-
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVTT- 939 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~- 939 (1619)
|.+.|..|+||+++++.+++ +|+.++|.+.+-+.+ .+.|- .-+.+.....+-. ++- +|. +..
T Consensus 2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D~i~~~~----~~~~~-----~~~~~i~~~fG~~-----i~~~~g~-idr~ 65 (196)
T PRK14732 2 IGITGMIGGGKSTALKILEE-LGAFGISADRLAKRY----TEPDS-----PILSELVSLLGPS-----ILDENGK-PNRK 65 (196)
T ss_pred EEEECCCCccHHHHHHHHHH-CCCEEEecchHHHHH----HhcCc-----HHHHHHHHHhChh-----hcCCCCc-cCHH
Confidence 56779999999999998765 799999999888842 23221 1111221111111 111 121 111
Q ss_pred ccccccccccccc----ccccHHHHHHHHHHHHhhhcCCCeEEeccccCe-eeecCCCeEEEEEcCHHHHHHhchHHHHh
Q psy14505 940 LIRNEKVSNNASK----IAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT-TVFPDAFLKIFLTADIKQRTKRRYKQLMQ 1014 (1619)
Q Consensus 940 ~ir~~~~~~~~s~----~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~-~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~ 1014 (1619)
.|+..-.+..... --.+|.|++.+.+.+++....+-+|+|-...-. -..+..|..||++||++.|.+| .+
T Consensus 66 ~L~~~vF~~~~~~~~L~~i~hP~v~~~~~~~~~~~~~~~~vi~e~pLL~E~~~~~~~D~vi~V~a~~e~r~~R-----L~ 140 (196)
T PRK14732 66 KISEIVFNDEEKLKALNELIHPLVRKDFQKILQTTAEGKLVIWEVPLLFETDAYTLCDATVTVDSDPEESILR-----TI 140 (196)
T ss_pred HHHHHHhCCHHHHHHHHHHhhHHHHHHHHHHHHHHhcCCcEEEEeeeeeEcCchhhCCEEEEEECCHHHHHHH-----HH
Confidence 1222211111110 126889988877766665433446666653211 1122357999999999999999 34
Q ss_pred cCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1015 KGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1015 ~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
++.+.+.+++.+.+.. +.. ..+.....| ++|+++. ++++....+..+++.+++
T Consensus 141 ~R~g~s~e~a~~ri~~-Q~~-----~~~k~~~aD-~vI~N~~-~~~~l~~~v~~l~~~~~~ 193 (196)
T PRK14732 141 SRDGMKKEDVLARIAS-QLP-----ITEKLKRAD-YIVRNDG-NREGLKEECKILYSTLLK 193 (196)
T ss_pred HcCCCCHHHHHHHHHH-cCC-----HHHHHHhCC-EEEECCC-CHHHHHHHHHHHHHHHHH
Confidence 4456788888876654 321 112222333 4555554 888888888766655544
No 202
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=97.76 E-value=0.00037 Score=83.37 Aligned_cols=107 Identities=24% Similarity=0.266 Sum_probs=79.3
Q ss_pred ccccCCCEEEEEEEEEeCCCCeEEEehHHH-----HHHHhHHHHHHHcc--CCCEEEEEEEEEEeCe-EEEEeCCEEEEE
Q psy14505 1125 LEVKIGDFVSVAIESLENGFGDTILSRDKA-----KRLASWLSLEKAME--SGEIITGTINGKVKGG-LTVLTNGLKAFL 1196 (1619)
Q Consensus 1125 ~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~-----~~~~~~~~~~~~l~--~G~~v~g~V~~v~~~G-l~V~~gg~~gfl 1196 (1619)
..+++||.+...+... +.++..++..+. .....++.+.+.+. .|++++|+|.++.++| ++|++|+..|||
T Consensus 82 ~~~~vGD~I~~~I~~~--~fgR~aaq~aKqvi~Qkire~ere~i~~ey~~k~GeiV~G~V~~v~~~g~v~VdiG~~ea~L 159 (341)
T TIGR01953 82 PDVQIGDEVKKEIPPE--NFGRIAAQTAKQVILQKIREAERERVYDEFSSKEGEIISGTVKRVNRRGNLYVELGKTEGIL 159 (341)
T ss_pred cccccCCEEEEEeccc--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCEEEEEEEEEecCCcEEEEECCeEEEe
Confidence 4689999999887442 233443433332 23455666666774 8999999999999988 588999999999
Q ss_pred cCcccccCCCCCCCCCCCCeEEEEEEEEecC--CCeEEeecch
Q psy14505 1197 PGSLVDIRPVKDTTPFEGKTMDFKVIKLDRK--RNNVVLSHRA 1237 (1619)
Q Consensus 1197 p~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~--~~~i~LS~k~ 1237 (1619)
|.++.... ..+.+|+.++|.|+.++.. ...+.||++.
T Consensus 160 P~~E~ip~----E~~~~Gd~ik~~V~~V~~~~kg~qIivSRt~ 198 (341)
T TIGR01953 160 PKKEQIPG----EKFRIGDRIKAYVYEVRKTAKGPQIILSRTH 198 (341)
T ss_pred cHHHcCCC----cCCCCCCEEEEEEEEEEcCCCCCeEEEEeCc
Confidence 98876521 2245999999999999955 4579999964
No 203
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=97.76 E-value=6e-05 Score=99.98 Aligned_cols=72 Identities=31% Similarity=0.621 Sum_probs=62.9
Q ss_pred ccceEEEEEEEEEecceEEEeeCC-CeEEEEeCCCCCCCCCc----------cccccCCCCCCEEEEEEEEeecCCCeEE
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG-NIDGLIHLSDLSWTDPG----------EEIIRNFKKGDEIEAIILSIDVEKERIS 1495 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~-~v~Glv~~sels~~~~~----------~~~~~~f~vGq~V~~~Vl~vd~e~~ri~ 1495 (1619)
++|+++.|.|++|++||+||++.+ ++.|+||.++++++.+. .+....|++||.|+|+|.++|.++++|.
T Consensus 626 ~iG~~~~g~V~~v~~fGifV~L~~~~~eGlvhis~l~~d~~~~d~~~~~l~g~~~~~~~~lGd~V~Vkv~~vd~~~~~I~ 705 (709)
T TIGR02063 626 KIGEEFEGVISGVTSFGLFVELENNTIEGLVHISTLKDDYYVFDEKGLALVGERTGKVFRLGDRVKVRVVKADLDTGKID 705 (709)
T ss_pred cCCcEEEEEEEEEEeCCEEEEecCCceEEEEEeeecCCCcEEEcccceEEEeccCCcEECCCCEEEEEEEEEecccCeEE
Confidence 679999999999999999999988 89999999999853221 2334679999999999999999999999
Q ss_pred Eee
Q psy14505 1496 LGI 1498 (1619)
Q Consensus 1496 LSl 1498 (1619)
|++
T Consensus 706 ~~l 708 (709)
T TIGR02063 706 FEL 708 (709)
T ss_pred EEE
Confidence 986
No 204
>PTZ00451 dephospho-CoA kinase; Provisional
Probab=97.75 E-value=0.00024 Score=81.43 Aligned_cols=189 Identities=15% Similarity=0.139 Sum_probs=108.8
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCcccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVT 938 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~ 938 (1619)
++|.+.|..||||+++++.+.+++|++++|++.+.|.+ .+.|- ....+..+.. + ..++- ||+ +.
T Consensus 2 ~iIGlTGgIgSGKStVs~~L~~~~G~~viDaD~iar~l----~~~~~-----~~~~~i~~~F----g-~~i~~~dg~-id 66 (244)
T PTZ00451 2 ILIGLTGGIACGKSTVSRILREEHHIEVIDADLVVREL----QAPNM-----ACTRKIAARW----P-LCVHPETGE-LN 66 (244)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCeEEehHHHHHHH----HcCCh-----HHHHHHHHHh----c-hhhcCCCCc-CC
Confidence 47888899999999999999999999999999999843 23331 1111221111 1 11111 222 22
Q ss_pred c-cccccccccccc--cc--cccHHHHHHHHHHHHhh---------h-c-CCCeEEeccccCee-eec-CCCeEEEEEcC
Q psy14505 939 T-LIRNEKVSNNAS--KI--AKFKNIRKELFKIQVKF---------R-K-FPGLVADGRDMGTT-VFP-DAFLKIFLTAD 1000 (1619)
Q Consensus 939 ~-~ir~~~~~~~~s--~~--a~~~~vr~~~~~~~r~~---------a-~-~~~~V~~GRd~~~~-v~p-~a~~kifl~A~ 1000 (1619)
. .|+.--.+.... .+ -.+|.|++.+.+.+.+. . . ..-||+|.-..-.- .+. -.|..||++||
T Consensus 67 R~~L~~~VF~d~~~~~~Le~i~HP~V~~~i~~~i~~~~~~~~~~~~~~~~~~~vv~evPLL~E~~~~~~~~D~iv~V~a~ 146 (244)
T PTZ00451 67 RAELGKIIFSDAQARRALGRIMNPPIFRAILKRIAAAWWEDLWRSGAGSSPLIVVLDAPTLFETKTFTYFVSASVVVSCS 146 (244)
T ss_pred HHHHHHHHhCCHHHHHHHHHHhCHHHHHHHHHHHHHhhhhhhhhhhhccCCCEEEEEechhhccCchhhcCCeEEEEECC
Confidence 1 122211111111 01 26888888776555321 1 1 23578777432100 111 14789999999
Q ss_pred HHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhh
Q psy14505 1001 IKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLF 1074 (1619)
Q Consensus 1001 ~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll 1074 (1619)
.+.|.+| |. ++.+.+.+++.+.+.. +..+.. .....|.++.|+|.-++++....+.+.+..+.
T Consensus 147 ~e~ri~R----L~-~R~g~s~eea~~Ri~~-Q~~~~e-----k~~~aD~VI~N~~~g~~~~L~~~v~~~~~~~~ 209 (244)
T PTZ00451 147 EERQIER----LR-KRNGFSKEEALQRIGS-QMPLEE-----KRRLADYIIENDSADDLDELRGSVCDCVAWMS 209 (244)
T ss_pred HHHHHHH----HH-HcCCCCHHHHHHHHHh-CCCHHH-----HHHhCCEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence 9999999 33 3446798888887755 322222 12233445555533489998888877665443
No 205
>PRK14734 coaE dephospho-CoA kinase; Provisional
Probab=97.74 E-value=0.00015 Score=81.07 Aligned_cols=184 Identities=18% Similarity=0.194 Sum_probs=100.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|.+.|..|+||+++++.++. +|++++|++.+.|.+. +.|- ....++....+-.+.. -+|. +..
T Consensus 2 ~~igitG~igsGKst~~~~l~~-~g~~vid~D~i~~~~~----~~~~-----~~~~~l~~~fg~~~~~----~~g~-idR 66 (200)
T PRK14734 2 LRIGLTGGIGSGKSTVADLLSS-EGFLIVDADQVARDIV----EPGQ-----PALAELAEAFGDDILN----PDGT-LDR 66 (200)
T ss_pred eEEEEECCCCCCHHHHHHHHHH-CCCeEEeCcHHHHHHH----hcCC-----HHHHHHHHHhCccccC----CCCh-hhH
Confidence 3678889999999999999987 8999999999988433 3331 1111121111111110 0111 111
Q ss_pred -ccccccccccccc----ccccHHHHHHHHHHHHhhhcC--CCeEEecccc---CeeeecCCCeEEEEEcCHHHHHHhch
Q psy14505 940 -LIRNEKVSNNASK----IAKFKNIRKELFKIQVKFRKF--PGLVADGRDM---GTTVFPDAFLKIFLTADIKQRTKRRY 1009 (1619)
Q Consensus 940 -~ir~~~~~~~~s~----~a~~~~vr~~~~~~~r~~a~~--~~~V~~GRd~---~~~v~p~a~~kifl~A~~e~Ra~Rr~ 1009 (1619)
.|+..-.+..... --.+|.|+..+.+.+....+. .-+|++-... +.. ...|..||++||+++|.+|
T Consensus 67 ~~L~~~vF~~~~~~~~le~i~hP~v~~~~~~~~~~~~~~~~~~vv~e~plL~e~g~~--~~~D~vi~V~a~~e~ri~R-- 142 (200)
T PRK14734 67 AGLAAKAFASPEQTALLNAITHPRIAEETARRFNEARAQGAKVAVYDMPLLVEKGLD--RKMDLVVVVDVDVEERVRR-- 142 (200)
T ss_pred HHHHHHHhCCHHHHHHHHHhhCHHHHHHHHHHHHHHHhcCCCEEEEEeeceeEcCcc--ccCCeEEEEECCHHHHHHH--
Confidence 1222111111111 126888888776655443332 2344444321 211 1246899999999999999
Q ss_pred HHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1010 KQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1010 ~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
...+.+.+.+++.+.+..-=.....+ ...| ++||++. ++++....+..+++.+
T Consensus 143 ---l~~R~g~s~e~~~~ri~~Q~~~~~k~------~~ad-~vI~N~g-~~e~l~~~v~~~~~~~ 195 (200)
T PRK14734 143 ---LVEKRGLDEDDARRRIAAQIPDDVRL------KAAD-IVVDNNG-TREQLLAQVDGLIAEI 195 (200)
T ss_pred ---HHHcCCCCHHHHHHHHHhcCCHHHHH------HhCC-EEEECcC-CHHHHHHHHHHHHHHH
Confidence 33334578888888766411111111 1122 5677654 7787777776555444
No 206
>PRK11642 exoribonuclease R; Provisional
Probab=97.73 E-value=6.5e-05 Score=99.61 Aligned_cols=74 Identities=30% Similarity=0.563 Sum_probs=64.4
Q ss_pred ccceEEEEEEEEEecceEEEeeCCC-eEEEEeCCCCCCCCCcc----------ccccCCCCCCEEEEEEEEeecCCCeEE
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGN-IDGLIHLSDLSWTDPGE----------EIIRNFKKGDEIEAIILSIDVEKERIS 1495 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~-v~Glv~~sels~~~~~~----------~~~~~f~vGq~V~~~Vl~vd~e~~ri~ 1495 (1619)
++|+++.|.|++|+++|+||++.+. +.|+||.+++.++.+.. +....|++||.|+|+|.++|.++++|.
T Consensus 642 ~iGe~f~G~Is~V~~fGifVeL~~~~vEGlV~vs~L~~d~y~~d~~~~~L~g~~~~~~~~lGD~V~VkV~~vD~~~rkI~ 721 (813)
T PRK11642 642 QVGNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLIGESSGQTYRLGDRVEVRVEAVNMDERKID 721 (813)
T ss_pred cCCcEEEEEEEEeecCceEEEECCCCeeeeEEEeecCCcceEecchheEEecccCCcEECCCCEEEEEEEEeecCCCeEE
Confidence 6899999999999999999999874 99999999998642221 234679999999999999999999999
Q ss_pred Eeeec
Q psy14505 1496 LGIKQ 1500 (1619)
Q Consensus 1496 LSlK~ 1500 (1619)
|++-.
T Consensus 722 f~l~~ 726 (813)
T PRK11642 722 FSLIS 726 (813)
T ss_pred EEEec
Confidence 99954
No 207
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=97.72 E-value=0.00044 Score=89.54 Aligned_cols=154 Identities=21% Similarity=0.280 Sum_probs=88.9
Q ss_pred CCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCc
Q psy14505 651 KNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGV 730 (1619)
Q Consensus 651 ~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv 730 (1619)
.++ +++.+..||++|. .|..+++++++|.+ +.|+++|+|++||++|++|++++++ |...|.
T Consensus 484 ~~~-v~~~~~~~yi~r~----------~G~~g~~~k~~d~v---~~~s~~d~ll~ft~~G~~~~~kv~~-----k~~~Gk 544 (869)
T PRK12758 484 ATK-VVEANQKLYVNRE----------EGFIGTGLKKDEYV---ADCSDIDDVIVFRRDGKYMVTKVAD-----KTFVGK 544 (869)
T ss_pred cce-EEEEecceEEEec----------cceecCcccCCceE---EEecCCCeEEEEecCCEEEEEECCc-----cccCCC
Confidence 344 4445999999986 35667788888855 5899999999999999999999954 445564
Q ss_pred cc---eecCCCC--EEEEEEEecCCCCcEEEEEecCceeEEecccccccc-----cccccceeeeeccC-C--CeEEEEE
Q psy14505 731 IG---MRLEKKQ--KVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHN-----RGTKGIISIKTNKR-N--GKVVAAT 797 (1619)
Q Consensus 731 ~~---i~L~~~e--~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~-----R~~kG~~~ikl~~~-~--d~Lv~~~ 797 (1619)
.+ ..+++++ .|-.++--+.... .-|+||.....+..-+ .+..|..++-+... + -+++.+.
T Consensus 545 ~i~~~~~~~~~~~~~~~~~iy~d~~~~-------~~~~krf~v~~~~~dk~y~~~~~~~~s~~~~~~~~~~~~~~~~~~~ 617 (869)
T PRK12758 545 DIIHVAVFKKNDKRTIYNMIYRDGKSG-------PSYIKRFNVTGVTRDKEYDLTQGTPGSKVLYFSANPNGEAEVVTVT 617 (869)
T ss_pred cceEEeecCCCCcceEEEEEEEcCCCC-------ceEEEEeecccEEecceeeccCCCCCCEEEEEecCCCCceEEEEEE
Confidence 44 3344443 3444443332111 1257887776553211 11223333222110 1 1222221
Q ss_pred EecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEE
Q psy14505 798 LVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILIT 836 (1619)
Q Consensus 798 ~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~ 836 (1619)
+... .+.+-....|..+++..-||+|+|..+-+
T Consensus 618 ~~~~------~~~~~~~~~~~~~~~~ikg~~~~g~~~~~ 650 (869)
T PRK12758 618 LKPN------GRIKKLKFDLDFSEIAIKGRGSKGNILTK 650 (869)
T ss_pred EecC------CccceeEEeechhhhccccccccceEecc
Confidence 1110 01112334566789999999999988743
No 208
>KOG1067|consensus
Probab=97.72 E-value=3.7e-05 Score=92.11 Aligned_cols=84 Identities=21% Similarity=0.324 Sum_probs=74.0
Q ss_pred cccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccC
Q psy14505 1337 FRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKD 1416 (1619)
Q Consensus 1337 ~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~ 1416 (1619)
.++..|.++.|+|+++.++|+||+++++..|++|.|+|+. +++.+|.+.+.+||.++++.+..|+..+ +.++.|..++
T Consensus 664 ~~l~~g~vy~~tIt~~rd~G~~V~l~p~~~~Llh~sqL~~-e~iakpsd~levGq~I~vk~ie~d~~g~-~~ls~ralLp 741 (760)
T KOG1067|consen 664 QDLEFGGVYTATITEIRDTGVMVELYPMQQGLLHNSQLDQ-EKIAKPSDLLEVGQEIQVKYIERDPRGG-IMLSSRALLP 741 (760)
T ss_pred cceEeeeEEEEEEeeecccceEEEecCCchhhccchhccc-ccccChHHHHhhcceeEEEEEeecCccc-eeehhhhhcC
Confidence 3688999999999999999999999999999999999986 7789999999999999999999997554 5677777888
Q ss_pred CCCccc
Q psy14505 1417 NPWENF 1422 (1619)
Q Consensus 1417 ~~~~~~ 1422 (1619)
+|....
T Consensus 742 ~p~~~~ 747 (760)
T KOG1067|consen 742 DPATKE 747 (760)
T ss_pred CcccCC
Confidence 775544
No 209
>PRK00625 shikimate kinase; Provisional
Probab=97.71 E-value=0.00032 Score=76.55 Aligned_cols=156 Identities=19% Similarity=0.218 Sum_probs=89.7
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCC-CCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQ-LDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
|.+-|.+|+||++.++.+|+++|++|+|++.+.+. +.|.. .....++-+
T Consensus 3 I~LiG~pGsGKTT~~k~La~~l~~~~id~D~~I~~------~~g~~~~~~i~eif~------------------------ 52 (173)
T PRK00625 3 IFLCGLPTVGKTSFGKALAKFLSLPFFDTDDLIVS------NYHGALYSSPKEIYQ------------------------ 52 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCEEEhhHHHHH------HhCCCCCCCHHHHHH------------------------
Confidence 55668999999999999999999999999877661 11221 011111100
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeee-------ecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTV-------FPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v-------~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
..-.+.+|+...+..+++...+.+|..|- |.+. +.....-|||.+|++...+|..
T Consensus 53 ------------~~Ge~~fr~~E~~~l~~l~~~~~VIs~GG--g~~~~~e~~~~l~~~~~Vv~L~~~~e~l~~Rl~---- 114 (173)
T PRK00625 53 ------------AYGEEGFCREEFLALTSLPVIPSIVALGG--GTLMIEPSYAHIRNRGLLVLLSLPIATIYQRLQ---- 114 (173)
T ss_pred ------------HHCHHHHHHHHHHHHHHhccCCeEEECCC--CccCCHHHHHHHhcCCEEEEEECCHHHHHHHHh----
Confidence 01122455555566666654444444442 2222 2334578999999999999932
Q ss_pred hcCCC--C-CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhh
Q psy14505 1014 QKGFS--V-SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILD 1068 (1619)
Q Consensus 1014 ~~~~~--~-~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~ 1068 (1619)
.++.. . +.+++.+.+.+|...=.. .+.+... -.-+++|+..++.++++.++.
T Consensus 115 ~R~~~~~~~~~~~~~~ll~~R~~~Y~~--~ad~~i~-~~~~~~~~~~~~~~~~~~~~~ 169 (173)
T PRK00625 115 KRGLPERLKHAPSLEEILSQRIDRMRS--IADYIFS-LDHVAETSSESLMRACQSFCT 169 (173)
T ss_pred cCCCCcccCcHHHHHHHHHHHHHHHHH--HCCEEEe-CCCcccCCCCCHHHHHHHHHH
Confidence 23331 1 345566666666554211 1221110 012467888888777777654
No 210
>PRK07429 phosphoribulokinase; Provisional
Probab=97.70 E-value=8.2e-05 Score=89.03 Aligned_cols=165 Identities=15% Similarity=0.090 Sum_probs=96.3
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHhC---CEEechhhHHHHHHHHHHHcCCCCCc-----HHHHHHHHHcccceecCce
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKLG---FHYLDSGALYRLVTLSAINNNIQLDN-----ELELVILIKKLNYNFLGKE 929 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l~---~~~~dtg~~yr~~~~~a~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~ 929 (1619)
..++|.+.|.+|+||+|.++.++..++ +..+..+.+++.-.......|+..-+ .+.+.+.+.
T Consensus 7 ~~~IIgI~G~SGSGKSTla~~L~~ll~~~~~~vi~~Dd~~~~~~~~r~~~g~~~l~p~~~~~d~l~~~l~---------- 76 (327)
T PRK07429 7 RPVLLGVAGDSGCGKTTFLRGLADLLGEELVTVICTDDYHSYDRKQRKELGITALDPRANNLDIMYEHLK---------- 76 (327)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHhHhccCceEEEEecccccCCHHHHHhcCCcccCccchHHHHHHHHHH----------
Confidence 456899999999999999999999987 55555555542100011223432211 111211111
Q ss_pred EEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccc--cCeeeecCCCeEEEEEcCHHHHHHh
Q psy14505 930 VYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRD--MGTTVFPDAFLKIFLTADIKQRTKR 1007 (1619)
Q Consensus 930 ~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd--~~~~v~p~a~~kifl~A~~e~Ra~R 1007 (1619)
.+.+|+++...+.....+..... . .+....-+|+||.. ....+.+..|++|||+|+.+.|.+|
T Consensus 77 ~L~~g~~I~~P~yd~~~g~~~~~-----~----------~i~p~~iVIvEG~~~l~~~~lr~~~D~~I~Vda~~evr~~R 141 (327)
T PRK07429 77 ALKTGQPILKPIYNHETGTFDPP-----E----------YIEPNKIVVVEGLHPLYDERVRELYDFKVYLDPPEEVKIAW 141 (327)
T ss_pred HHHCCCceecceeecCCCCcCCc-----E----------ecCCCcEEEEechhhcCcHhHHhhCCEEEEEECCHHHHHHH
Confidence 11123333332222222211110 0 11234568999974 2334456678999999999999999
Q ss_pred chHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc
Q psy14505 1008 RYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA 1049 (1619)
Q Consensus 1008 r~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da 1049 (1619)
|.++...+ .+.+.+++.+.+.+| ..+..+.+.|.....|.
T Consensus 142 ri~Rd~~r-rG~s~eei~~~i~~r-~pd~~~yI~P~k~~ADi 181 (327)
T PRK07429 142 KIKRDMAK-RGHTYEQVLAEIEAR-EPDFEAYIRPQRQWADV 181 (327)
T ss_pred HHHHHHhh-cCCCHHHHHHHHHHh-CccHhhhhcccccCCCE
Confidence 88775543 234889999998876 45556667776655553
No 211
>KOG1067|consensus
Probab=97.67 E-value=4.9e-05 Score=91.09 Aligned_cols=83 Identities=24% Similarity=0.294 Sum_probs=72.7
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCc
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPF 1506 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~ 1506 (1619)
..|-+++|+|+++.++|+||+|+++..||+|.++|+ .+.+.+|++.+++||.+.++.+..|+ ++.+.+|-|...++|.
T Consensus 667 ~~g~vy~~tIt~~rd~G~~V~l~p~~~~Llh~sqL~-~e~iakpsd~levGq~I~vk~ie~d~-~g~~~ls~ralLp~p~ 744 (760)
T KOG1067|consen 667 EFGGVYTATITEIRDTGVMVELYPMQQGLLHNSQLD-QEKIAKPSDLLEVGQEIQVKYIERDP-RGGIMLSSRALLPDPA 744 (760)
T ss_pred EeeeEEEEEEeeecccceEEEecCCchhhccchhcc-cccccChHHHHhhcceeEEEEEeecC-ccceeehhhhhcCCcc
Confidence 568999999999999999999999999999999999 58889999999999999999999996 5666677777777776
Q ss_pred ccccc
Q psy14505 1507 NNYVN 1511 (1619)
Q Consensus 1507 ~~~~~ 1511 (1619)
.....
T Consensus 745 ~~~~s 749 (760)
T KOG1067|consen 745 TKESS 749 (760)
T ss_pred cCCcc
Confidence 65443
No 212
>PLN02422 dephospho-CoA kinase
Probab=97.64 E-value=0.00024 Score=80.73 Aligned_cols=184 Identities=16% Similarity=0.143 Sum_probs=101.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVTT 939 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~ 939 (1619)
+|.+.|..|+||+++++.++ .+|++++|++.+.+.+- +.|- +-+.++.+..+-. ++. ||. +..
T Consensus 3 ~igltG~igsGKstv~~~l~-~~g~~~idaD~~~~~l~----~~g~-----~~~~~l~~~FG~~-----il~~dG~-idR 66 (232)
T PLN02422 3 VVGLTGGIASGKSTVSNLFK-SSGIPVVDADKVARDVL----KKGS-----GGWKRVVAAFGED-----ILLPDGE-VDR 66 (232)
T ss_pred EEEEECCCCCCHHHHHHHHH-HCCCeEEehhHHHHHHH----HhhH-----HHHHHHHHHhCHH-----hcCCCCc-CCH
Confidence 57788999999999999998 68999999999999443 2221 1111111111111 111 121 111
Q ss_pred -ccccccccccccc--c--cccHHHHHHHHHHHHhhh-c-CCCeEEeccccCee-eecCCCeEEEEEcCHHHHHHhchHH
Q psy14505 940 -LIRNEKVSNNASK--I--AKFKNIRKELFKIQVKFR-K-FPGLVADGRDMGTT-VFPDAFLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 940 -~ir~~~~~~~~s~--~--a~~~~vr~~~~~~~r~~a-~-~~~~V~~GRd~~~~-v~p~a~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
.|+..-.+..... + -.+|.|++.+.+.+.+.. . .+-+|+|--..-.. .....|.-||++||++.|.+|
T Consensus 67 ~~L~~~VF~d~~~~~~Le~IlHP~V~~~~~~~~~~~~~~~~~~vv~eipLL~E~~~~~~~D~vI~V~a~~e~ri~R---- 142 (232)
T PLN02422 67 EKLGQIVFSDPSKRQLLNRLLAPYISSGIFWEILKLWLKGCKVIVLDIPLLFETKMDKWTKPVVVVWVDPETQLER---- 142 (232)
T ss_pred HHHHHHHhCCHHHHHHHHHHhhHHHHHHHHHHHHHHHhcCCCEEEEEehhhhhcchhhhCCEEEEEECCHHHHHHH----
Confidence 1222111111110 1 268888877654443321 2 24566665422110 112256889999999999999
Q ss_pred HHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1012 LMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1012 l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
.+++.+.+.+++.+.+...--... .....| ++|+++. ++++....+..+++.+
T Consensus 143 -L~~R~g~s~eea~~Ri~~Q~~~ee------k~~~AD-~VI~N~g-s~e~L~~qv~~ll~~l 195 (232)
T PLN02422 143 -LMARDGLSEEQARNRINAQMPLDW------KRSKAD-IVIDNSG-SLEDLKQQFQKVLEKI 195 (232)
T ss_pred -HHHcCCCCHHHHHHHHHHcCChhH------HHhhCC-EEEECCC-CHHHHHHHHHHHHHHH
Confidence 444456788888876533111111 112233 5566654 8888877776665554
No 213
>PRK14532 adenylate kinase; Provisional
Probab=97.62 E-value=0.00015 Score=80.38 Aligned_cols=171 Identities=18% Similarity=0.143 Sum_probs=91.4
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+-|++|+||+|.++.||+++|++++|+|.+.|.. ...+.... ..+.+... .|+-+.+
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~g~~~is~~d~lr~~----~~~~~~~~--~~~~~~~~-------------~g~~~~~-- 61 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEERGMVQLSTGDMLRAA----IASGSELG--QRVKGIMD-------------RGELVSD-- 61 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEeCcHHHHHH----HHcCCHHH--HHHHHHHH-------------CCCccCH--
Confidence 555689999999999999999999999999999942 23332110 11111111 1111111
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccc-------cC-eeee---cCCCeEEEEEcCHHHHHHhchH
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRD-------MG-TTVF---PDAFLKIFLTADIKQRTKRRYK 1010 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd-------~~-~~v~---p~a~~kifl~A~~e~Ra~Rr~~ 1010 (1619)
.-+...+.+.+......+++|++|-. +- ..+- ..-++-|||.+|++.-.+|...
T Consensus 62 ---------------~~~~~~~~~~~~~~~~~~g~vldg~pr~~~q~~~~~~~l~~~g~~pd~vi~L~v~~~~~~~Rl~~ 126 (188)
T PRK14532 62 ---------------EIVIALIEERLPEAEAAGGAIFDGFPRTVAQAEALDKMLASRGQKIDVVIRLKVDDEALIERIVK 126 (188)
T ss_pred ---------------HHHHHHHHHHHhCcCccCcEEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHHc
Confidence 12223333333344456789999821 10 0000 0123789999999998877433
Q ss_pred HHH-hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1011 QLM-QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1011 ~l~-~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
+.. ..+...+.+.+.+.+..-...... -..-|....-.+.||.+ .+++++.+.|...+
T Consensus 127 R~~~~~r~dd~~~~~~~Rl~~~~~~~~~-i~~~y~~~~~~~~id~~-~~~eev~~~I~~~l 185 (188)
T PRK14532 127 RFEEQGRPDDNPEVFVTRLDAYNAQTAP-LLPYYAGQGKLTEVDGM-GSIEAVAASIDAAL 185 (188)
T ss_pred CcCcCCCCCCCHHHHHHHHHHHHHHHHH-HHHHHHhcCCEEEEECC-CCHHHHHHHHHHHH
Confidence 311 112223444555555332211100 00112222224667765 59999999987665
No 214
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases. This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases.
Probab=97.62 E-value=0.00012 Score=95.89 Aligned_cols=72 Identities=32% Similarity=0.550 Sum_probs=63.1
Q ss_pred ccceEEEEEEEEEecceEEEeeC-CCeEEEEeCCCCCCCCCc----------cccccCCCCCCEEEEEEEEeecCCCeEE
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLD-GNIDGLIHLSDLSWTDPG----------EEIIRNFKKGDEIEAIILSIDVEKERIS 1495 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~-~~v~Glv~~sels~~~~~----------~~~~~~f~vGq~V~~~Vl~vd~e~~ri~ 1495 (1619)
++|+.+.|.|++++++|+||++. .++.|+||.+++.|+.+. ++....|++||.|+|+|.++|+++++|.
T Consensus 571 ~iG~~~~g~I~~v~~~GifV~L~~~~veGlV~~s~l~~d~y~~d~~~~~l~g~~~~~~~~lGD~V~Vki~~vd~~~~~I~ 650 (654)
T TIGR00358 571 KVGTEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIGDRVTVKLTEVNMETRSII 650 (654)
T ss_pred CCCcEEEEEEEeEEcCcEEEEecCCceEEEEEeEeCCCcceEEeccccEEEeccCCcEECCCCEEEEEEEEEecccCeEE
Confidence 57999999999999999999998 689999999999875321 2234679999999999999999999999
Q ss_pred Eee
Q psy14505 1496 LGI 1498 (1619)
Q Consensus 1496 LSl 1498 (1619)
+++
T Consensus 651 f~l 653 (654)
T TIGR00358 651 FEL 653 (654)
T ss_pred EEE
Confidence 986
No 215
>TIGR00152 dephospho-CoA kinase. This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases.
Probab=97.60 E-value=0.00015 Score=80.33 Aligned_cols=179 Identities=15% Similarity=0.139 Sum_probs=99.8
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+.|..|+||+++++.+++..|++++|++.+.+.+- +.|-.. ...+.+. .+-.+.. -+|+---..|
T Consensus 2 i~itG~~gsGKst~~~~l~~~~~~~~i~~D~~~~~~~----~~~~~~--~~~i~~~---fg~~i~~----~~g~idr~~L 68 (188)
T TIGR00152 2 IGLTGGIGSGKSTVANYLADKYHFPVIDADKIAHQVV----EKGSPA--YEKIVDH---FGAQILN----EDGELDRKAL 68 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHhcCCeEEeCCHHHHHHH----hcCChH--HHHHHHH---HCHHHhC----CCCCCCHHHH
Confidence 5677999999999999999988899999999988333 332110 1111111 1111100 0111000001
Q ss_pred cccccccccc----cccccHHHHHHHHHHHHhhhcCC-CeEEeccccCe-eeecCCCeEEEEEcCHHHHHHhchHHHHhc
Q psy14505 942 RNEKVSNNAS----KIAKFKNIRKELFKIQVKFRKFP-GLVADGRDMGT-TVFPDAFLKIFLTADIKQRTKRRYKQLMQK 1015 (1619)
Q Consensus 942 r~~~~~~~~s----~~a~~~~vr~~~~~~~r~~a~~~-~~V~~GRd~~~-~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~ 1015 (1619)
+..-.+.... .--.+|.+++.+.+.+++....+ .+|++....-+ -+....+..+|++|+.+.|.+| ...
T Consensus 69 ~~~vf~~~~~~~~le~ilhP~i~~~i~~~i~~~~~~~~~vvi~~pll~e~~~~~~~D~vv~V~~~~~~~~~R-----l~~ 143 (188)
T TIGR00152 69 GERVFNDPEELKWLNNLLHPLIREWMKKLLAQFQSKLAYVLLDVPLLFENKLRSLCDRVIVVDVSPQLQLER-----LMQ 143 (188)
T ss_pred HHHHhCCHHHHHHHHHhhCHHHHHHHHHHHHHhhcCCCEEEEEchHhhhCCcHHhCCEEEEEECCHHHHHHH-----HHH
Confidence 1100000000 01268888888888777765443 45555543321 1333467899999999999999 333
Q ss_pred CCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhh
Q psy14505 1016 GFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQI 1066 (1619)
Q Consensus 1016 ~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I 1066 (1619)
+.+.+.+++.+.+...-.... .....| .+|+++. ++++....+
T Consensus 144 R~~~s~~~~~~r~~~q~~~~~------~~~~ad-~vI~N~~-~~e~l~~~~ 186 (188)
T TIGR00152 144 RDNLTEEEVQKRLASQMDIEE------RLARAD-DVIDNSA-TLADLVKQL 186 (188)
T ss_pred cCCCCHHHHHHHHHhcCCHHH------HHHhCC-EEEECCC-CHHHHHHHH
Confidence 446788888887776421111 111122 5555553 777766554
No 216
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=97.59 E-value=0.00015 Score=96.17 Aligned_cols=74 Identities=28% Similarity=0.492 Sum_probs=63.4
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcC-CEEEEEeccccCcccc----------CCCccccccCCCEEEEEEEEeecccce
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEK-GIEGLVHISEMDWINK----------NVTPSKIVQLNDTVEIMILEINEERRR 1406 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~-gv~GlV~~sels~~~~----------~~~~~~~~~vG~~V~vrVl~id~e~~r 1406 (1619)
.-++|+++.|+|+++.++|+||++.+ +++|+||.+++++... ..+..+.|++||.|+|+|.++|..+++
T Consensus 624 ~~~iG~~~~g~V~~v~~fGifV~L~~~~~eGlvhis~l~~d~~~~d~~~~~l~g~~~~~~~~lGd~V~Vkv~~vd~~~~~ 703 (709)
T TIGR02063 624 SEKIGEEFEGVISGVTSFGLFVELENNTIEGLVHISTLKDDYYVFDEKGLALVGERTGKVFRLGDRVKVRVVKADLDTGK 703 (709)
T ss_pred hccCCcEEEEEEEEEEeCCEEEEecCCceEEEEEeeecCCCcEEEcccceEEEeccCCcEECCCCEEEEEEEEEecccCe
Confidence 34689999999999999999999987 7999999999974211 123457899999999999999999999
Q ss_pred EEEee
Q psy14505 1407 ISLGM 1411 (1619)
Q Consensus 1407 i~LSl 1411 (1619)
+.+++
T Consensus 704 I~~~l 708 (709)
T TIGR02063 704 IDFEL 708 (709)
T ss_pred EEEEE
Confidence 99986
No 217
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=97.59 E-value=0.00049 Score=76.61 Aligned_cols=188 Identities=21% Similarity=0.232 Sum_probs=98.6
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccc
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVT 938 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 938 (1619)
+++|.+.|..||||+|+++.+++ +|++.+|+|.+-|.+- +.|- ..+.+.....+..+.+ -||.-.-
T Consensus 2 ~~iIglTG~igsGKStva~~~~~-~G~~vidaD~v~r~~~----~~~~-----~~~~~i~~~fG~~i~~----~dg~~~r 67 (201)
T COG0237 2 MLIIGLTGGIGSGKSTVAKILAE-LGFPVIDADDVAREVV----EPGG-----EALQEIAERFGLEILD----EDGGLDR 67 (201)
T ss_pred ceEEEEecCCCCCHHHHHHHHHH-cCCeEEEccHHHHHHH----hccc-----hHHHHHHHHcCCcccC----CCchhHH
Confidence 35788899999999999999888 9999999999999332 2221 1111111111111110 0121111
Q ss_pred cccccccccccccc----ccccHHHHHHHHHHHHhhhcCCCeEEeccccCee-eecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 939 TLIRNEKVSNNASK----IAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTT-VFPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 939 ~~ir~~~~~~~~s~----~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~-v~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
..||.......... --.+|.++..+. .+.+.+..+-|++|=-..-.. .....+.-|.++||++.|.+| .
T Consensus 68 ~~L~~~vf~~~~~~~~Le~i~hPli~~~~~-~~~~~~~~~~~~~eiplL~e~~~~~~~d~Vi~V~a~~e~r~eR-----l 141 (201)
T COG0237 68 RKLREKVFNDPEARLKLEKILHPLIRAEIK-VVIDGARSPYVVLEIPLLFEAGGEKYFDKVIVVYAPPEIRLER-----L 141 (201)
T ss_pred HHHHHHHcCCHHHHHHHHHhhhHHHHHHHH-HHHHHhhCCceEEEchHHHhccccccCCEEEEEECCHHHHHHH-----H
Confidence 22333222111111 115677777665 333333433344332100000 000034679999999999999 4
Q ss_pred hcCCCCCHHHHHHHHHh-hhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1014 QKGFSVSMSDLLINLIK-RDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1014 ~~~~~~~~~~~~~~i~~-rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
+++.+.|.+++...+.. +|...+ +..+ | .+||++. ++++..+.+.+.++.++.
T Consensus 142 ~~R~~~~~e~~~~~~~~Q~~~~ek-~~~a------d-~vi~n~~-~i~~l~~~i~~~~~~~~~ 195 (201)
T COG0237 142 MKRDGLDEEDAEARLASQRDLEEK-LALA------D-VVIDNDG-SIENLLEQIEKLLKELLG 195 (201)
T ss_pred HhcCCCCHHHHHHHHHhcCCHHHH-Hhhc------C-ChhhcCC-CHHHHHHHHHHHHHHHHh
Confidence 44447887777654433 333322 2222 2 3456554 677776666665555444
No 218
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=97.58 E-value=0.00034 Score=77.07 Aligned_cols=167 Identities=19% Similarity=0.201 Sum_probs=88.3
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+-|++||||+|.++.+|+++|++++++|.+.|. ....+-. ....+.+.+. +|+.++.
T Consensus 2 i~i~G~pGsGKst~a~~la~~~~~~~is~~d~lr~----~~~~~~~--~~~~~~~~~~-------------~g~~~~~-- 60 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENFGFTHLSAGDLLRA----EIKSGSE--NGELIESMIK-------------NGKIVPS-- 60 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEECChHHHH----HHhcCCh--HHHHHHHHHH-------------CCCcCCH--
Confidence 45668999999999999999999999999999883 2222211 0111111111 1111111
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEecccc------------CeeeecCCCeEEEEEcCHHHHHHhch
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDM------------GTTVFPDAFLKIFLTADIKQRTKRRY 1009 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~------------~~~v~p~a~~kifl~A~~e~Ra~Rr~ 1009 (1619)
..+...+.+.+.+.. ..++|+||-.- ..... .++-|||.+|+++..+|..
T Consensus 61 ---------------~~~~~ll~~~~~~~~-~~~~vlDg~p~~~~q~~~~~~~~~~~~~--~d~~i~l~~~~~~~~~Rl~ 122 (183)
T TIGR01359 61 ---------------EVTVKLLKNAIQADG-SKKFLIDGFPRNEENLEAWEKLMDNKVN--FKFVLFFDCPEEVMIKRLL 122 (183)
T ss_pred ---------------HHHHHHHHHHHhccC-CCcEEEeCCCCCHHHHHHHHHHHhcCCC--CCEEEEEECCHHHHHHHHh
Confidence 111222333222222 45799999311 11122 3478999999999999944
Q ss_pred HHHHhcC-CCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1010 KQLMQKG-FSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1010 ~~l~~~~-~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
.+-...+ ..-+.+.+.+.+......-.. -...|......+.||++ -+++++.+.|.+.
T Consensus 123 ~R~~~~~r~dd~~e~~~~r~~~y~~~~~~-i~~~~~~~~~~~~Id~~-~~~~~v~~~i~~~ 181 (183)
T TIGR01359 123 KRGQSSGRVDDNIESIKKRFRTYNEQTLP-VIEHYENKGKVKEINAE-GSVEEVFEDVEKI 181 (183)
T ss_pred cCCccCCCCCCCHHHHHHHHHHHHHHHHH-HHHHHHhCCCEEEEECC-CCHHHHHHHHHHH
Confidence 3311001 112344444433322111000 01112222335789988 4889888887654
No 219
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=97.58 E-value=0.00023 Score=78.24 Aligned_cols=149 Identities=20% Similarity=0.169 Sum_probs=88.1
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc-
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL- 940 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~- 940 (1619)
|.+.|..|+||+|.++.+++ +|++++|++.+.|.+. +.+- ....++... |+ ..++..+..+...
T Consensus 2 i~itG~~gsGKst~~~~l~~-~g~~~i~~D~~~~~~~----~~~~-----~~~~~i~~~----fg-~~~~~~~g~idr~~ 66 (179)
T cd02022 2 IGLTGGIGSGKSTVAKLLKE-LGIPVIDADKIAHEVY----EPGG-----PALQAIVEA----FG-PDILLEDGELDRKK 66 (179)
T ss_pred EEEECCCCCCHHHHHHHHHH-CCCCEEecCHHHHhhh----hccc-----HHHHHHHHH----cC-cceeCCCCcCCHHH
Confidence 66779999999999999988 9999999999999543 2221 111111111 11 1222222222221
Q ss_pred ccccccccccc----cccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeee-cCCCeEEEEEcCHHHHHHhchHHHHhc
Q psy14505 941 IRNEKVSNNAS----KIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVF-PDAFLKIFLTADIKQRTKRRYKQLMQK 1015 (1619)
Q Consensus 941 ir~~~~~~~~s----~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~-p~a~~kifl~A~~e~Ra~Rr~~~l~~~ 1015 (1619)
|+..-...... .--.+|.|++.+.+.+.+....+-+|+|+-..-..-+ ...+..+|++||++.|.+| ..+
T Consensus 67 L~~~vf~~~~~~~~l~~i~hp~i~~~~~~~~~~~~~~~~vive~plL~e~~~~~~~D~vv~V~a~~~~ri~R-----l~~ 141 (179)
T cd02022 67 LGEIVFADPEKRKKLEAITHPLIRKEIEEQLAEARKEKVVVLDIPLLFETGLEKLVDRVIVVDAPPEIQIER-----LMK 141 (179)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCEEEEEehHhhcCCcHHhCCeEEEEECCHHHHHHH-----HHH
Confidence 33322221111 1136888988887766664333456667642211111 2357999999999999999 334
Q ss_pred CCCCCHHHHHHHHHh
Q psy14505 1016 GFSVSMSDLLINLIK 1030 (1619)
Q Consensus 1016 ~~~~~~~~~~~~i~~ 1030 (1619)
+.+.+.+++.+.+..
T Consensus 142 Rd~~s~~~~~~r~~~ 156 (179)
T cd02022 142 RDGLSEEEAEARIAS 156 (179)
T ss_pred cCCCCHHHHHHHHHh
Confidence 446788888776655
No 220
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=97.57 E-value=0.00021 Score=69.43 Aligned_cols=72 Identities=18% Similarity=0.283 Sum_probs=62.7
Q ss_pred ccceEEEEEEEEEecceEEEee--------CCCeEEEEeCCCCCCCCCcc--ccccCCCCCCEEEEEEEEeecCCCeEEE
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGL--------DGNIDGLIHLSDLSWTDPGE--EIIRNFKKGDEIEAIILSIDVEKERISL 1496 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~--------~~~v~Glv~~sels~~~~~~--~~~~~f~vGq~V~~~Vl~vd~e~~ri~L 1496 (1619)
++|++|.|.|++++...++|++ .....|++|.+++.. .+.+ ++.+.|++||.|+|+|++++. .+.+.|
T Consensus 5 ~~GDiVig~V~~v~~~~~~v~I~~v~~~~l~~~~~g~l~~~dv~~-~~~d~~~~~~~f~~GDiV~AkVis~~~-~~~~~L 82 (92)
T cd05791 5 KVGSIVIARVTRINPRFAKVDILCVGGRPLKESFRGVIRKEDIRA-TEKDKVEMYKCFRPGDIVRAKVISLGD-ASSYYL 82 (92)
T ss_pred CCCCEEEEEEEEEcCCEEEEEEEEecCeecCCCcccEEEHHHccc-cccchHHHHhhcCCCCEEEEEEEEcCC-CCCcEE
Confidence 6899999999999999999999 778999999999873 4444 677899999999999999984 466889
Q ss_pred eeec
Q psy14505 1497 GIKQ 1500 (1619)
Q Consensus 1497 SlK~ 1500 (1619)
|++.
T Consensus 83 st~~ 86 (92)
T cd05791 83 STAE 86 (92)
T ss_pred EecC
Confidence 9876
No 221
>PLN02200 adenylate kinase family protein
Probab=97.54 E-value=0.00043 Score=79.35 Aligned_cols=173 Identities=17% Similarity=0.186 Sum_probs=92.7
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|.+-|++|+||+|.++.+|+++|++++++|.+.|.-. ..+ + .....+.+.+. .|..+++
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~g~~his~gdllR~~i----~~~-s-~~~~~i~~~~~-------------~G~~vp~ 104 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETFGFKHLSAGDLLRREI----ASN-S-EHGAMILNTIK-------------EGKIVPS 104 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCeEEEccHHHHHHH----hcc-C-hhHHHHHHHHH-------------cCCCCcH
Confidence 467888999999999999999999999999999999322 111 1 11111111110 0111111
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC--------eeeecCCCeEEEEEcCHHHHHHhchHH
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG--------TTVFPDAFLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~--------~~v~p~a~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
+.+...+.+.+.. ....++|+||.... ..+-...++-|||.+++++..+|...+
T Consensus 105 -----------------e~~~~~l~~~l~~-~~~~~~ILDG~Prt~~q~~~l~~~~~~~pd~vi~Ld~~~e~~~~Rl~~R 166 (234)
T PLN02200 105 -----------------EVTVKLIQKEMES-SDNNKFLIDGFPRTEENRIAFERIIGAEPNVVLFFDCPEEEMVKRVLNR 166 (234)
T ss_pred -----------------HHHHHHHHHHHhc-CCCCeEEecCCcccHHHHHHHHHHhccCCCEEEEEECCHHHHHHHHHcC
Confidence 1111111211111 13457999994211 000012458899999999999994433
Q ss_pred HHhcCCCCCHHHHHHHHHhhhhhcccCC-CCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 1012 LMQKGFSVSMSDLLINLIKRDIRDKTRN-LSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 1012 l~~~~~~~~~~~~~~~i~~rD~~d~~r~-~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
.. .+..-+.+.+.+.++.-... ... ..-|......+.||.+. ++|+|.+.+.+.+...
T Consensus 167 ~~-~r~dd~~e~~~~Rl~~y~~~--~~pv~~~y~~~~~~~~IDa~~-~~eeV~~~v~~~l~~~ 225 (234)
T PLN02200 167 NQ-GRVDDNIDTIKKRLKVFNAL--NLPVIDYYSKKGKLYTINAVG-TVDEIFEQVRPIFAAC 225 (234)
T ss_pred cC-CCCCCCHHHHHHHHHHHHHH--HHHHHHHHHhcCCEEEEECCC-CHHHHHHHHHHHHHHc
Confidence 11 11222333333333321111 000 11122222358899886 9999999998776543
No 222
>KOG3347|consensus
Probab=97.53 E-value=0.00045 Score=70.92 Aligned_cols=115 Identities=24% Similarity=0.362 Sum_probs=82.3
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
-|-+.|.+|.||++.+..+|+..|++||+-|.+-+ ++++-....+.
T Consensus 9 NILvtGTPG~GKstl~~~lae~~~~~~i~isd~vk-------En~l~~gyDE~--------------------------- 54 (176)
T KOG3347|consen 9 NILVTGTPGTGKSTLAERLAEKTGLEYIEISDLVK-------ENNLYEGYDEE--------------------------- 54 (176)
T ss_pred CEEEeCCCCCCchhHHHHHHHHhCCceEehhhHHh-------hhcchhccccc---------------------------
Confidence 46677999999999999999999999999776655 55442110000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCC--CeEEEEEcCHHHHHHhchHHHHhcCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDA--FLKIFLTADIKQRTKRRYKQLMQKGFS 1018 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a--~~kifl~A~~e~Ra~Rr~~~l~~~~~~ 1018 (1619)
.-+.+-..+.|+..|..+.+ + ||+|+|=+-|+ +||+. ++-|.|+++.+.--.| |..+||
T Consensus 55 --------y~c~i~DEdkv~D~Le~~m~---~-Gg~IVDyHgCd--~FperwfdlVvVLr~~~s~LY~R----L~sRgY- 115 (176)
T KOG3347|consen 55 --------YKCHILDEDKVLDELEPLMI---E-GGNIVDYHGCD--FFPERWFDLVVVLRTPNSVLYDR----LKSRGY- 115 (176)
T ss_pred --------ccCccccHHHHHHHHHHHHh---c-CCcEEeecccC--ccchhheeEEEEEecCchHHHHH----HHHcCC-
Confidence 01223344466666654333 3 89999999899 89975 6999999999998888 777887
Q ss_pred CCHHHHHHHHH
Q psy14505 1019 VSMSDLLINLI 1029 (1619)
Q Consensus 1019 ~~~~~~~~~i~ 1029 (1619)
+..++.++++
T Consensus 116 -~e~Ki~eNie 125 (176)
T KOG3347|consen 116 -SEKKIKENIE 125 (176)
T ss_pred -CHHHHhhhcc
Confidence 5566665543
No 223
>COG1095 RPB7 DNA-directed RNA polymerase, subunit E' [Transcription]
Probab=97.51 E-value=0.00022 Score=76.04 Aligned_cols=75 Identities=29% Similarity=0.530 Sum_probs=61.3
Q ss_pred cceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCC---------c-cccccCCCCCCEEEEEEEEeecCC-----C
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDP---------G-EEIIRNFKKGDEIEAIILSIDVEK-----E 1492 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~---------~-~~~~~~f~vGq~V~~~Vl~vd~e~-----~ 1492 (1619)
.|++|.|.|+++.++|+||.+. -.+||+|.+++.++.. . +.-...|++|+.|++||+++.... -
T Consensus 81 ~gEVV~GeVv~~~~~G~fV~ig-p~dglvh~sqi~dd~~~~d~~~~~~~g~~tk~~i~~gd~VR~RIv~~s~~~~~~~~~ 159 (183)
T COG1095 81 RGEVVEGEVVEVVEFGAFVRIG-PLDGLVHVSQIMDDYIDYDEKNKVLIGEETKRVLKVGDKVRARIVGVSLKSRRPRES 159 (183)
T ss_pred cccEEEEEEEEEeecceEEEec-cccccccHhhccCcccccCcccceeeecccceEEecCCEEEEEEEEEecccCccccc
Confidence 4999999999999999999995 6899999999996411 1 112237999999999999998766 5
Q ss_pred eEEEeeecCcC
Q psy14505 1493 RISLGIKQLEG 1503 (1619)
Q Consensus 1493 ri~LSlK~~~~ 1503 (1619)
++.|+||+...
T Consensus 160 ~I~lTmrq~~L 170 (183)
T COG1095 160 KIGLTMRQPGL 170 (183)
T ss_pred eEEEEeccccC
Confidence 78999998543
No 224
>cd05699 S1_Rrp5_repeat_hs7 S1_Rrp5_repeat_hs7: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 7 (hs7). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.50 E-value=0.00034 Score=63.57 Aligned_cols=64 Identities=20% Similarity=0.308 Sum_probs=57.3
Q ss_pred CCeEEEEEEEEecCceEEEEecC-CeEEEEEccccccccc------cCcCCCCEE-EEEEEEEeCCCCEEEEeec
Q psy14505 1516 GSLVNGIIKSIDTNKGAIIQLSN-EVEGYLRISEEDNKHE------KKLKIGENI-DVLTVLIDHKTRYIQLSFK 1582 (1619)
Q Consensus 1516 G~~v~g~V~~i~~~~G~~V~l~~-gv~G~i~~~~~~~~~~------~~~~~Gq~V-~~~Vl~vd~~~k~i~lSlk 1582 (1619)
|++|+|+|.+. ++.+++|++.+ |+.|++|..|+++... ..+++||++ .+.|+ +...+.+.+|.|
T Consensus 1 G~lV~~~V~EK-t~D~l~v~l~~~~l~a~l~~~HLsD~~~k~~~~~~klrvG~~L~~~lvL--~~~~r~i~lt~K 72 (72)
T cd05699 1 GKLVDARVLKK-TLNGLEVAILPEEIRAFLPTMHLSDHVSNCPLLWHCLQEGDTIPNLMCL--SNYKGRIILTKK 72 (72)
T ss_pred CceEEEEEEEE-cCCcEEEEecCCCcEEEEEccccCCchhhCHHHHhhhhcCCCccceEEE--eccccEEEEecC
Confidence 78999999999 58889999999 9999999999988322 789999999 99999 999999999875
No 225
>PRK14528 adenylate kinase; Provisional
Probab=97.49 E-value=0.00052 Score=76.01 Aligned_cols=169 Identities=18% Similarity=0.157 Sum_probs=94.6
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|++|+||++.++.+++.+|++++++|.+.| .+.+.+-.. ...+..... .|+-+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~~~~lr----~~~~~~~~~--g~~~~~~~~-------------~g~lv--- 60 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERLSIPQISTGDILR----EAVKNQTAM--GIEAKRYMD-------------AGDLV--- 60 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeeeCCHHHH----HHhhcCCHH--HHHHHHHHh-------------CCCcc---
Confidence 46677999999999999999999999999999998 333433110 001111110 01100
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCe--------ee---ecCCCeEEEEEcCHHHHHHhch
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT--------TV---FPDAFLKIFLTADIKQRTKRRY 1009 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~--------~v---~p~a~~kifl~A~~e~Ra~Rr~ 1009 (1619)
+ ...+...+.+.+.+.....++|+||..-.. .+ .+..++-|+|++|.++..+|..
T Consensus 61 -------------p-~~~~~~~~~~~l~~~~~~~g~viDG~Pr~~~qa~~l~~~~~~~~~~~d~vI~Ld~~~~~~~~Rl~ 126 (186)
T PRK14528 61 -------------P-DSVVIGIIKDRIREADCKNGFLLDGFPRTVEQADALDALLKNEGKSIDKAINLEVPDGELLKRLL 126 (186)
T ss_pred -------------C-HHHHHHHHHHHHhCcCccCcEEEeCCCCCHHHHHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHh
Confidence 0 112222333333444445679999953211 01 1346799999999999999955
Q ss_pred HHHHhcCCC-CCHHHHHHHHHhhhhhcccC-CCCCCCCCCCceEEccCcccchhhhhhhhh
Q psy14505 1010 KQLMQKGFS-VSMSDLLINLIKRDIRDKTR-NLSPLKCPEQAHLLNTSKMNINQVVNQILD 1068 (1619)
Q Consensus 1010 ~~l~~~~~~-~~~~~~~~~i~~rD~~d~~r-~~~~l~~~~dal~Idts~l~ieevv~~I~~ 1068 (1619)
.+....+.. -+.+.+.+.+.. ....+. -++.|....=...||.+. ++|+|...|..
T Consensus 127 ~R~~~~gr~dd~~e~i~~Rl~~--y~~~~~pv~~~y~~~~~~~~i~~~~-~~~~v~~~~~~ 184 (186)
T PRK14528 127 GRAEIEGRADDNEATIKNRLDN--YNKKTLPLLDFYAAQKKLSQVNGVG-SLEEVTSLIQK 184 (186)
T ss_pred cCccccCCCCCCHHHHHHHHHH--HHHHhHHHHHHHHhCCCEEEEECCC-CHHHHHHHHHH
Confidence 443222322 245555554433 111111 022232222357788664 88888877653
No 226
>PRK11642 exoribonuclease R; Provisional
Probab=97.48 E-value=0.00031 Score=93.36 Aligned_cols=74 Identities=27% Similarity=0.512 Sum_probs=63.7
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcCC-EEEEEeccccCcc--ccC--------CCccccccCCCEEEEEEEEeecccceEE
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEKG-IEGLVHISEMDWI--NKN--------VTPSKIVQLNDTVEIMILEINEERRRIS 1408 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~g-v~GlV~~sels~~--~~~--------~~~~~~~~vG~~V~vrVl~id~e~~ri~ 1408 (1619)
++|+++.|+|++++++|+||+|.+. ++|+||.++|+|. ... .+....|++||.|+|+|..+|.++++|.
T Consensus 642 ~iGe~f~G~Is~V~~fGifVeL~~~~vEGlV~vs~L~~d~y~~d~~~~~L~g~~~~~~~~lGD~V~VkV~~vD~~~rkI~ 721 (813)
T PRK11642 642 QVGNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLIGESSGQTYRLGDRVEVRVEAVNMDERKID 721 (813)
T ss_pred cCCcEEEEEEEEeecCceEEEECCCCeeeeEEEeecCCcceEecchheEEecccCCcEECCCCEEEEEEEEeecCCCeEE
Confidence 6899999999999999999999764 9999999999752 111 1345789999999999999999999999
Q ss_pred Eeeec
Q psy14505 1409 LGMKQ 1413 (1619)
Q Consensus 1409 LSlK~ 1413 (1619)
+++-.
T Consensus 722 f~l~~ 726 (813)
T PRK11642 722 FSLIS 726 (813)
T ss_pred EEEec
Confidence 99854
No 227
>cd05791 S1_CSL4 S1_CSL4: CSL4, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. ScCSL4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In S. cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=97.47 E-value=0.00031 Score=68.20 Aligned_cols=73 Identities=15% Similarity=0.233 Sum_probs=61.8
Q ss_pred cccceeEEEEEEEEcCCeEEEEE--------cCCEEEEEeccccCccccCC--CccccccCCCEEEEEEEEeecccceEE
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEI--------EKGIEGLVHISEMDWINKNV--TPSKIVQLNDTVEIMILEINEERRRIS 1408 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l--------~~gv~GlV~~sels~~~~~~--~~~~~~~vG~~V~vrVl~id~e~~ri~ 1408 (1619)
.++|++|-|+|+++....+.|++ .....|++|.+++.. .... +..+.|++||.|+|+|++++. .+.+.
T Consensus 4 P~~GDiVig~V~~v~~~~~~v~I~~v~~~~l~~~~~g~l~~~dv~~-~~~d~~~~~~~f~~GDiV~AkVis~~~-~~~~~ 81 (92)
T cd05791 4 PKVGSIVIARVTRINPRFAKVDILCVGGRPLKESFRGVIRKEDIRA-TEKDKVEMYKCFRPGDIVRAKVISLGD-ASSYY 81 (92)
T ss_pred CCCCCEEEEEEEEEcCCEEEEEEEEecCeecCCCcccEEEHHHccc-cccchHHHHhhcCCCCEEEEEEEEcCC-CCCcE
Confidence 47999999999999999999999 778999999999854 2222 567899999999999999984 45688
Q ss_pred Eeeec
Q psy14505 1409 LGMKQ 1413 (1619)
Q Consensus 1409 LSlK~ 1413 (1619)
||++.
T Consensus 82 Lst~~ 86 (92)
T cd05791 82 LSTAE 86 (92)
T ss_pred EEecC
Confidence 99875
No 228
>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional
Probab=97.45 E-value=0.00041 Score=85.65 Aligned_cols=202 Identities=16% Similarity=0.192 Sum_probs=109.7
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
++|.+.|..||||+|+++.|++ +|++++|++.+.+.+ .+.|-. .+.+.....+-.+.+ -+|+ +..
T Consensus 2 ~~IgltG~igsGKStv~~~L~~-~G~~vidaD~i~~~l----~~~~~~-----~~~~i~~~fG~~il~----~~G~-idr 66 (395)
T PRK03333 2 LRIGLTGGIGAGKSTVAARLAE-LGAVVVDADVLAREV----VEPGTE-----GLAALVAAFGDDILL----ADGA-LDR 66 (395)
T ss_pred eEEEEECCCCCCHHHHHHHHHH-CCCeEEehHHHHHHH----hcCChH-----HHHHHHHHhChHhcC----CCCc-CCH
Confidence 4578889999999999999987 899999999888833 233211 111111111111100 0111 111
Q ss_pred -cccccccc-----cccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeee----ecCCCeEEEEEcCHHHHHHhch
Q psy14505 940 -LIRNEKVS-----NNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTV----FPDAFLKIFLTADIKQRTKRRY 1009 (1619)
Q Consensus 940 -~ir~~~~~-----~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v----~p~a~~kifl~A~~e~Ra~Rr~ 1009 (1619)
.|+..-.. ..... ..+|.|+..+.+.+... ..+.+|+++- .... ....+..|||+||++.|.+|
T Consensus 67 ~~L~~~vF~~~~~~~~le~-i~hP~I~~~i~~~i~~~-~~~~vvv~ei--pLL~E~~~~~~~D~iI~V~ap~e~ri~R-- 140 (395)
T PRK03333 67 PALAAKAFADDEARAVLNG-IVHPLVGARRAELIAAA-PEDAVVVEDI--PLLVESGMAPLFHLVVVVDADVEVRVRR-- 140 (395)
T ss_pred HHHHHHHhCCHHHHHHHHH-hhhHHHHHHHHHHHHhc-CCCCEEEEEe--eeeecCCchhhCCEEEEEECCHHHHHHH--
Confidence 11111110 11111 27888888776655443 3456777652 2111 11246899999999999999
Q ss_pred HHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhhhhcccccCCCCCeE
Q psy14505 1010 KQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFKESLLRHDMRSGEVI 1089 (1619)
Q Consensus 1010 ~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~e~l~~~~l~~G~iv 1089 (1619)
++...+.+.+++...+...-..+ +.....| ++||++. +++++...+.+.++..+--.+ .+++.|...
T Consensus 141 ---l~~rRg~s~~~a~~ri~~Q~~~e------~k~~~AD-~vIdN~~-s~e~l~~~v~~~l~~~~~~~~--~~~~~~~~~ 207 (395)
T PRK03333 141 ---LVEQRGMAEADARARIAAQASDE------QRRAVAD-VWLDNSG-TPDELVEAVRALWADRLLPFA--HNLRARRRA 207 (395)
T ss_pred ---HHhcCCCCHHHHHHHHHhcCChH------HHHHhCC-EEEECCC-CHHHHHHHHHHHHHHHHhhHH--HHHhcCCCC
Confidence 33334567777766554421111 1122223 5567543 788888887766655544222 255666655
Q ss_pred EEEEEE
Q psy14505 1090 SAEVIG 1095 (1619)
Q Consensus 1090 ~G~V~~ 1095 (1619)
...-+.
T Consensus 208 ~~~~v~ 213 (395)
T PRK03333 208 ARAPPR 213 (395)
T ss_pred CCCCce
Confidence 443333
No 229
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases. This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases.
Probab=97.45 E-value=0.0003 Score=92.18 Aligned_cols=73 Identities=30% Similarity=0.560 Sum_probs=63.1
Q ss_pred cccceeEEEEEEEEcCCeEEEEEc-CCEEEEEeccccCcccc----------CCCccccccCCCEEEEEEEEeecccceE
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIE-KGIEGLVHISEMDWINK----------NVTPSKIVQLNDTVEIMILEINEERRRI 1407 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~-~gv~GlV~~sels~~~~----------~~~~~~~~~vG~~V~vrVl~id~e~~ri 1407 (1619)
-++|+.+.|+|+++.++|+||++. .+++|+||.+++.|... ..+....|++||+|+|+|.++|.++++|
T Consensus 570 ~~iG~~~~g~I~~v~~~GifV~L~~~~veGlV~~s~l~~d~y~~d~~~~~l~g~~~~~~~~lGD~V~Vki~~vd~~~~~I 649 (654)
T TIGR00358 570 DKVGTEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIGDRVTVKLTEVNMETRSI 649 (654)
T ss_pred hCCCcEEEEEEEeEEcCcEEEEecCCceEEEEEeEeCCCcceEEeccccEEEeccCCcEECCCCEEEEEEEEEecccCeE
Confidence 367999999999999999999997 68999999999976321 1234578999999999999999999999
Q ss_pred EEee
Q psy14505 1408 SLGM 1411 (1619)
Q Consensus 1408 ~LSl 1411 (1619)
.+++
T Consensus 650 ~f~l 653 (654)
T TIGR00358 650 IFEL 653 (654)
T ss_pred EEEE
Confidence 9875
No 230
>COG1095 RPB7 DNA-directed RNA polymerase, subunit E' [Transcription]
Probab=97.44 E-value=0.00034 Score=74.59 Aligned_cols=76 Identities=26% Similarity=0.603 Sum_probs=62.8
Q ss_pred CCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccC----------C-CccccccCCEEEEEEEEeecCC-----C
Q psy14505 1255 KEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVK----------H-PSEILTIGQDISTKILKYDQEK-----N 1318 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~----------~-~~~~~~vG~~v~vrVl~vd~~~-----~ 1318 (1619)
..|.+|.|.|+++.++|+||.++..+||+|.+++.+.+.. . -...+++|+.|++||+.++... .
T Consensus 80 ~~gEVV~GeVv~~~~~G~fV~igp~dglvh~sqi~dd~~~~d~~~~~~~g~~tk~~i~~gd~VR~RIv~~s~~~~~~~~~ 159 (183)
T COG1095 80 FRGEVVEGEVVEVVEFGAFVRIGPLDGLVHVSQIMDDYIDYDEKNKVLIGEETKRVLKVGDKVRARIVGVSLKSRRPRES 159 (183)
T ss_pred ccccEEEEEEEEEeecceEEEeccccccccHhhccCcccccCcccceeeecccceEEecCCEEEEEEEEEecccCccccc
Confidence 3599999999999999999999999999999999886321 1 2225889999999999987665 5
Q ss_pred eEEEeeeccccC
Q psy14505 1319 RVSLGMKQLGID 1330 (1619)
Q Consensus 1319 ~i~LSlK~~~~~ 1330 (1619)
++.+|+|+.-..
T Consensus 160 ~I~lTmrq~~LG 171 (183)
T COG1095 160 KIGLTMRQPGLG 171 (183)
T ss_pred eEEEEeccccCC
Confidence 789999986543
No 231
>PRK08563 DNA-directed RNA polymerase subunit E'; Provisional
Probab=97.41 E-value=0.00038 Score=77.11 Aligned_cols=78 Identities=26% Similarity=0.465 Sum_probs=63.4
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCc----------cccccCCCCCCEEEEEEEEeecCCC----
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPG----------EEIIRNFKKGDEIEAIILSIDVEKE---- 1492 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~----------~~~~~~f~vGq~V~~~Vl~vd~e~~---- 1492 (1619)
.+|+++.|.|++++++|+||++. .+.|++|.+++.++... .+....|++||.|+++|.+++.+.+
T Consensus 80 ~~GEVv~g~V~~v~~~Gi~V~lg-~~~g~v~~~~l~~~~~~~d~~~~~~~~~~~~~~i~~Gd~VrvrV~~v~~~~~~~~~ 158 (187)
T PRK08563 80 ELQEVVEGEVVEVVEFGAFVRIG-PVDGLLHISQIMDDYISYDPKNGRLIGKESKRVLKVGDVVRARIVAVSLKERRPRG 158 (187)
T ss_pred cCCCEEEEEEEEEEccEEEEEEe-CceEEEEcHHcCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEcccCCCCC
Confidence 46999999999999999999996 59999999999853211 1234578999999999999997653
Q ss_pred -eEEEeeecCcCCC
Q psy14505 1493 -RISLGIKQLEGDP 1505 (1619)
Q Consensus 1493 -ri~LSlK~~~~~p 1505 (1619)
++.+|++.....+
T Consensus 159 ~~I~ls~~~~~LG~ 172 (187)
T PRK08563 159 SKIGLTMRQPGLGK 172 (187)
T ss_pred CEEEEEecCCCCCc
Confidence 8999999854444
No 232
>cd05699 S1_Rrp5_repeat_hs7 S1_Rrp5_repeat_hs7: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 7 (hs7). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=97.40 E-value=0.00041 Score=63.00 Aligned_cols=67 Identities=24% Similarity=0.192 Sum_probs=56.6
Q ss_pred CcEEEEEEEEEecCeEEEEeC--CEEEEeeccccCccccCCC--ccccccCCEE-EEEEEEeecCCCeEEEeee
Q psy14505 1257 GCTVKGVVKNITDYGAFIDLG--GIDGLLHITDIAWRRVKHP--SEILTIGQDI-STKILKYDQEKNRVSLGMK 1325 (1619)
Q Consensus 1257 G~iv~g~V~~v~~~G~~V~l~--gi~g~l~~sels~~~~~~~--~~~~~vG~~v-~vrVl~vd~~~~~i~LSlK 1325 (1619)
|++|+|+|..-.+.+++|++. |++|++|..|+|+...+++ -+.+++||++ ++.|+ ++..+.+.+|.|
T Consensus 1 G~lV~~~V~EKt~D~l~v~l~~~~l~a~l~~~HLsD~~~k~~~~~~klrvG~~L~~~lvL--~~~~r~i~lt~K 72 (72)
T cd05699 1 GKLVDARVLKKTLNGLEVAILPEEIRAFLPTMHLSDHVSNCPLLWHCLQEGDTIPNLMCL--SNYKGRIILTKK 72 (72)
T ss_pred CceEEEEEEEEcCCcEEEEecCCCcEEEEEccccCCchhhCHHHHhhhhcCCCccceEEE--eccccEEEEecC
Confidence 789999999999999999995 8999999999999433332 2447899999 88888 888888998875
No 233
>PRK13808 adenylate kinase; Provisional
Probab=97.40 E-value=0.001 Score=79.11 Aligned_cols=175 Identities=18% Similarity=0.180 Sum_probs=96.0
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
|.+-|++|+||++.++.|++++|++++|+|.|.|. ....+-... ..+.+.+. +|.-|.
T Consensus 3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~gdlLR~----~i~~~s~~g--~~~~~~~~-------------~G~lVP--- 60 (333)
T PRK13808 3 LILLGPPGAGKGTQAQRLVQQYGIVQLSTGDMLRA----AVAAGTPVG--LKAKDIMA-------------SGGLVP--- 60 (333)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceecccHHHHH----HhhcCChhh--HHHHHHHH-------------cCCCCC---
Confidence 55678999999999999999999999999999993 333332110 11111110 011111
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC--ee-----eec----CCCeEEEEEcCHHHHHHhchH
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG--TT-----VFP----DAFLKIFLTADIKQRTKRRYK 1010 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~--~~-----v~p----~a~~kifl~A~~e~Ra~Rr~~ 1010 (1619)
...+...+.+.+.+.....++|+||=.-. .. ++. ..++-|||.+|+++-.+|...
T Consensus 61 --------------deiv~~li~e~l~~~~~~~G~ILDGFPRt~~QA~~L~~ll~~~gi~PDlVI~LDVp~evll~Rl~~ 126 (333)
T PRK13808 61 --------------DEVVVGIISDRIEQPDAANGFILDGFPRTVPQAEALDALLKDKQLKLDAVVELRVNEGALLARVET 126 (333)
T ss_pred --------------HHHHHHHHHHHHhcccccCCEEEeCCCCCHHHHHHHHHHHHhcCCCcCeEEEEECCHHHHHHHHHc
Confidence 11222223232222223468999992111 00 111 246899999999998888433
Q ss_pred HHH---hcC----CCCCHHHHHHHHHhhhhhcccCC-CCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhh
Q psy14505 1011 QLM---QKG----FSVSMSDLLINLIKRDIRDKTRN-LSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFK 1075 (1619)
Q Consensus 1011 ~l~---~~~----~~~~~~~~~~~i~~rD~~d~~r~-~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~ 1075 (1619)
++. ..+ ..-+.+.+.+.+.. +.+..+. ...|....-.+.||.+ .++|+|.+.|...+..++.
T Consensus 127 R~~~~~~rg~~~R~DD~~E~i~kRL~~--Y~~~t~PLl~~Y~e~~~lv~IDa~-~siEEV~eeI~~~L~~~~~ 196 (333)
T PRK13808 127 RVAEMRARGEEVRADDTPEVLAKRLAS--YRAQTEPLVHYYSEKRKLLTVDGM-MTIDEVTREIGRVLAAVGA 196 (333)
T ss_pred CcccccccCCccCCCCCHHHHHHHHHH--HHHHhHHHHHHhhccCcEEEEECC-CCHHHHHHHHHHHHHHHhC
Confidence 211 011 22245555554432 2222221 1122222235788875 5899999999888776554
No 234
>PRK14731 coaE dephospho-CoA kinase; Provisional
Probab=97.39 E-value=0.00073 Score=76.21 Aligned_cols=188 Identities=11% Similarity=0.135 Sum_probs=98.0
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-C--Cc
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-N--GV 935 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~ 935 (1619)
-++|.+.|..||||+++++.++. +|++++|++.+.+.+. +.| ...+.......+- .++- + |.
T Consensus 5 ~~~igitG~igsGKSt~~~~l~~-~g~~v~d~D~i~~~~~----~~~-----~~~~~~~~~~fg~-----~i~~~~~~~~ 69 (208)
T PRK14731 5 PFLVGVTGGIGSGKSTVCRFLAE-MGCELFEADRVAKELQ----VTD-----PEVIEGIKKLFGK-----DVYSKDASGK 69 (208)
T ss_pred CEEEEEECCCCCCHHHHHHHHHH-CCCeEEeccHHHHHHc----CCc-----HHHHHHHHHHhCH-----HHhCCCCCCC
Confidence 35788899999999999999886 9999999988887442 111 1111111110000 1110 0 10
Q ss_pred -cccc-cccccccccccc--c--ccccHHHHHHHHHHHHhhhcC-CCeE-Eecccc-CeeeecCCCeEEEEEcCHHHHHH
Q psy14505 936 -NVTT-LIRNEKVSNNAS--K--IAKFKNIRKELFKIQVKFRKF-PGLV-ADGRDM-GTTVFPDAFLKIFLTADIKQRTK 1006 (1619)
Q Consensus 936 -~v~~-~ir~~~~~~~~s--~--~a~~~~vr~~~~~~~r~~a~~-~~~V-~~GRd~-~~~v~p~a~~kifl~A~~e~Ra~ 1006 (1619)
.+.. .|+..-...... . --.+|.|+..+.+.+.+.... .++| +++... .+-.....+..||+.||.++|.+
T Consensus 70 ~~idr~~l~~~vf~~~~~~~~l~~i~hp~i~~~~~~~i~~~~~~~~~vvv~e~pLL~e~~~~~~~d~ii~V~a~~e~~~~ 149 (208)
T PRK14731 70 LLLDRKRIAQVVFSDPEKLGALNRLIHPKVFAAFQRAVDRAARRGKRILVKEAAILFESGGDAGLDFIVVVAADTELRLE 149 (208)
T ss_pred cccCHHHHHHHHhCCHHHHHHHHHHHCHHHHHHHHHHHHHHHhcCCCEEEEEeeeeeecCchhcCCeEEEEECCHHHHHH
Confidence 0100 011000000000 0 125788887766555443322 2444 444321 11111224688999999999999
Q ss_pred hchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhh
Q psy14505 1007 RRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLF 1074 (1619)
Q Consensus 1007 Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll 1074 (1619)
| .+++...+.+++.+.+... ..... +.. ..|. +|+++. ++|++...+..++..++
T Consensus 150 R-----l~~R~~~s~e~~~~Ri~~q-~~~~~----~~~-~ad~-vI~N~g-~~e~l~~~i~~~~~~~~ 204 (208)
T PRK14731 150 R-----AVQRGMGSREEIRRRIAAQ-WPQEK----LIE-RADY-VIYNNG-TLDELKAQTEQLYQVLL 204 (208)
T ss_pred H-----HHHcCCCCHHHHHHHHHHc-CChHH----HHH-hCCE-EEECCC-CHHHHHHHHHHHHHHHH
Confidence 9 3333345777777765431 11111 111 2344 455543 89999888877665543
No 235
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=97.39 E-value=0.0026 Score=76.72 Aligned_cols=108 Identities=17% Similarity=0.229 Sum_probs=75.5
Q ss_pred ccccCCCEEEEEEEEEeCCCCeEEEehHH---HHHHHhHHHHHHHc--cCCCEEEEEEEEEEeCeEEEEeCCEEEEEcCc
Q psy14505 1125 LEVKIGDFVSVAIESLENGFGDTILSRDK---AKRLASWLSLEKAM--ESGEIITGTINGKVKGGLTVLTNGLKAFLPGS 1199 (1619)
Q Consensus 1125 ~~~kvG~~v~~~V~~v~~~~~~v~LS~~~---~~~~~~~~~~~~~l--~~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s 1199 (1619)
...++|+.+...+...+-++..+..+... .........+.+.+ +.|++++|+|.++.++|++|++|++.||||.+
T Consensus 85 ~~~~vGD~i~~~I~~~~fgR~aaq~akqvI~Qkire~ere~v~~ef~~k~GeiV~G~V~~~~~~~~~Vdlg~vEa~LP~~ 164 (362)
T PRK12327 85 PAYELGDVIEIEVTPKDFGRIAAQTAKQVIMQRLREAEREIIYNEFSEREGDIVTGVVQRRDNRFVYVNLGKIEAVLPPA 164 (362)
T ss_pred ccccCCCEEEEecCcCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEEEEEeCCcEEEEeCCeEEEecHH
Confidence 35899999998876543332112111111 12223334455556 78999999999999999999999999999976
Q ss_pred ccccCCCCCCCCCCCCeEEEEEEEEecCC--CeEEeecc
Q psy14505 1200 LVDIRPVKDTTPFEGKTMDFKVIKLDRKR--NNVVLSHR 1236 (1619)
Q Consensus 1200 ~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~--~~i~LS~k 1236 (1619)
+... ...+.+|+.++|.|+.++... ..+.||+.
T Consensus 165 E~ip----~e~~~~Gd~Ika~V~~V~~~~kgp~IivSRt 199 (362)
T PRK12327 165 EQIP----GETYKHGDRIKVYVVKVEKTTKGPQIFVSRT 199 (362)
T ss_pred HcCC----CCCCCCCCEEEEEEEEEecCCCCCeEEEEeC
Confidence 4421 233459999999999999654 36999985
No 236
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=97.38 E-value=0.0001 Score=86.26 Aligned_cols=93 Identities=14% Similarity=0.141 Sum_probs=68.9
Q ss_pred CCCeEEecccc--CeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCce
Q psy14505 973 FPGLVADGRDM--GTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAH 1050 (1619)
Q Consensus 973 ~~~~V~~GRd~--~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal 1050 (1619)
..-+|+||=-. ..-+.+..+++|||+|+.+.|.+||.++..+++ +.+.+++.+.+.+| ..+..+.+.|.....|.+
T Consensus 96 ~~ivIvEG~~~l~~~~l~~~~D~~I~vd~~~e~r~~r~i~Rd~~rr-G~s~e~v~~~i~~r-~~~~~~~I~P~~~~ADvV 173 (273)
T cd02026 96 TKIVVIEGLHPLYDERVRELLDFSVYLDISDEVKFAWKIQRDMAER-GHSLEDVLASIEAR-KPDFEAYIDPQKQYADVV 173 (273)
T ss_pred CCEEEEeeehhhCchhhhhhccEEEEEECChhHHHHHHHHHHHHHh-CCCHHHHHHHHHhh-chhHHHHhccccccCcEE
Confidence 34588888411 112223467999999999999999888766542 35899999999876 456666788988888877
Q ss_pred E-EccCcccchhhhhhhh
Q psy14505 1051 L-LNTSKMNINQVVNQIL 1067 (1619)
Q Consensus 1051 ~-Idts~l~ieevv~~I~ 1067 (1619)
+ ++.|.+.+++....++
T Consensus 174 I~~~p~~l~~~~~~~~~~ 191 (273)
T cd02026 174 IQVLPTQLIPDDTEGKVL 191 (273)
T ss_pred EEccCccCCcccccceEE
Confidence 6 8999999888766653
No 237
>PRK00279 adk adenylate kinase; Reviewed
Probab=97.36 E-value=0.0011 Score=75.34 Aligned_cols=37 Identities=32% Similarity=0.621 Sum_probs=33.6
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLV 897 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~ 897 (1619)
.|.+-|++|+||++.++.+|+++|++++++|.+.|..
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~~dl~r~~ 38 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEKYGIPHISTGDMLRAA 38 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEECCccHHHH
Confidence 4667799999999999999999999999999999943
No 238
>PRK08118 topology modulation protein; Reviewed
Probab=97.35 E-value=0.00051 Score=74.65 Aligned_cols=97 Identities=26% Similarity=0.285 Sum_probs=70.2
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|++|+||+|.++.|++++|+++++.+.++. +.|..
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~-------~~~w~--------------------------------- 42 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW-------KPNWE--------------------------------- 42 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc-------ccCCc---------------------------------
Confidence 47778999999999999999999999999877765 11110
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCe--eeecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT--TVFPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~--~v~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
.++ ++...+++.++...++.|+||...++ ..++.++..|||++|.+.+..|..++-.
T Consensus 43 -----------~~~-----~~~~~~~~~~~~~~~~wVidG~~~~~~~~~l~~~d~vi~Ld~p~~~~~~R~~~R~~ 101 (167)
T PRK08118 43 -----------GVP-----KEEQITVQNELVKEDEWIIDGNYGGTMDIRLNAADTIIFLDIPRTICLYRAFKRRV 101 (167)
T ss_pred -----------CCC-----HHHHHHHHHHHhcCCCEEEeCCcchHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHH
Confidence 001 11233445556666789999974432 3467799999999999998888666633
No 239
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=97.32 E-value=0.00017 Score=80.05 Aligned_cols=177 Identities=18% Similarity=0.175 Sum_probs=97.8
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHhCCE---EechhhHHHHHHHH--HHHcCCCCCcHHHHHHHHHcccceecCceEEe
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKLGFH---YLDSGALYRLVTLS--AINNNIQLDNELELVILIKKLNYNFLGKEVYL 932 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l~~~---~~dtg~~yr~~~~~--a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 932 (1619)
...+|.|+|.+||||+|+++.+++.++-. .+.-+..|...... +.+.+++.+.+++++--+-...+. .++
T Consensus 7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~-----~L~ 81 (218)
T COG0572 7 KVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLK-----DLK 81 (218)
T ss_pred ceEEEEEeCCCCCCHHHHHHHHHHHhCcCcceEeeccccccchhhcCHhhcCCcCccChhhhcHHHHHHHHH-----HHH
Confidence 34689999999999999999999999933 32222344422222 224455555444432211111111 011
Q ss_pred CCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC---eeeecCCCeEEEEEcCHHHHHHhch
Q psy14505 933 NGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG---TTVFPDAFLKIFLTADIKQRTKRRY 1009 (1619)
Q Consensus 933 ~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~---~~v~p~a~~kifl~A~~e~Ra~Rr~ 1009 (1619)
+|..|.. ......... |... ...+....-+|+||= .+ .-+.+-.++|||+.+|.++|+.||.
T Consensus 82 ~g~~v~~---------P~yd~~~~~--r~~~---~i~~~p~~VVIvEGi-~~l~d~~lr~~~d~kIfvdtd~D~RliRri 146 (218)
T COG0572 82 QGKPVDL---------PVYDYKTHT--REPE---TIKVEPNDVVIVEGI-LLLYDERLRDLMDLKIFVDTDADVRLIRRI 146 (218)
T ss_pred cCCcccc---------cccchhccc--ccCC---ccccCCCcEEEEecc-cccccHHHHhhcCEEEEEeCCccHHHHHHH
Confidence 1211111 111111111 1100 011223445788883 11 1122235799999999999999999
Q ss_pred HHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCc
Q psy14505 1010 KQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSK 1056 (1619)
Q Consensus 1010 ~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~ 1056 (1619)
.+ -....+.+++.++++-..+=+-...+.+.|-...+|.+ |.++.
T Consensus 147 ~R-D~~~rg~~~e~vi~qy~~~vkp~~~~fIeptk~~ADii-ip~~~ 191 (218)
T COG0572 147 KR-DVQERGRDLESVIEQYVKTVRPMYEQFIEPTKKYADII-IPSGG 191 (218)
T ss_pred HH-HHHHhCCCHHHHHHHHHHhhChhhhhccCcccccceEE-eecCC
Confidence 88 33333459999999887655555556788877666544 55553
No 240
>PRK14530 adenylate kinase; Provisional
Probab=97.27 E-value=0.00094 Score=75.78 Aligned_cols=35 Identities=29% Similarity=0.471 Sum_probs=33.0
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
.|.+-|++|+||+|.++.||+++|++|+|+|.+.|
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~g~~lr 39 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTTGDALR 39 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEeccHHHH
Confidence 46677999999999999999999999999999999
No 241
>PRK08563 DNA-directed RNA polymerase subunit E'; Provisional
Probab=97.24 E-value=0.00082 Score=74.47 Aligned_cols=76 Identities=28% Similarity=0.580 Sum_probs=63.7
Q ss_pred CCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccC-----------CCccccccCCEEEEEEEEeecCCC-----
Q psy14505 1255 KEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVK-----------HPSEILTIGQDISTKILKYDQEKN----- 1318 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~-----------~~~~~~~vG~~v~vrVl~vd~~~~----- 1318 (1619)
..|+++.|+|+++.++|++|+++...|++|.+++++.+.. +....|++|+.++++|.+++...+
T Consensus 80 ~~GEVv~g~V~~v~~~Gi~V~lg~~~g~v~~~~l~~~~~~~d~~~~~~~~~~~~~~i~~Gd~VrvrV~~v~~~~~~~~~~ 159 (187)
T PRK08563 80 ELQEVVEGEVVEVVEFGAFVRIGPVDGLLHISQIMDDYISYDPKNGRLIGKESKRVLKVGDVVRARIVAVSLKERRPRGS 159 (187)
T ss_pred cCCCEEEEEEEEEEccEEEEEEeCceEEEEcHHcCCCceEEccccceEEEccCCeEEcCCCEEEEEEEEEEcccCCCCCC
Confidence 4699999999999999999999999999999999875322 344568999999999999997653
Q ss_pred eEEEeeeccccC
Q psy14505 1319 RVSLGMKQLGID 1330 (1619)
Q Consensus 1319 ~i~LSlK~~~~~ 1330 (1619)
.+.+|+++.-.-
T Consensus 160 ~I~ls~~~~~LG 171 (187)
T PRK08563 160 KIGLTMRQPGLG 171 (187)
T ss_pred EEEEEecCCCCC
Confidence 788999876443
No 242
>PRK13975 thymidylate kinase; Provisional
Probab=97.23 E-value=0.0032 Score=70.23 Aligned_cols=77 Identities=18% Similarity=0.202 Sum_probs=44.4
Q ss_pred CCeEEEEEcCHHHHHHhchHHHHhcCCC-CCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 991 AFLKIFLTADIKQRTKRRYKQLMQKGFS-VSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 991 a~~kifl~A~~e~Ra~Rr~~~l~~~~~~-~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
.++-|||++|++...+|... ++.. .+..+..+.+.+.= .+.. ....+.+....++||+++++++++++.|.+.
T Consensus 114 pd~vi~L~~~~e~~~~Rl~~----r~~~~~~~~~~~~~~~~~y-~~~~-~~~~~~~~~~~~~Id~~~~~~eev~~~I~~~ 187 (196)
T PRK13975 114 PDLVFLLDVDIEEALKRMET----RDKEIFEKKEFLKKVQEKY-LELA-NNEKFMPKYGFIVIDTTNKSIEEVFNEILNK 187 (196)
T ss_pred CCEEEEEcCCHHHHHHHHhc----cCccccchHHHHHHHHHHH-HHHH-hhcccCCcCCEEEEECCCCCHHHHHHHHHHH
Confidence 45899999999999999322 2211 12222223222211 1111 0111222223689999999999999999877
Q ss_pred hhhh
Q psy14505 1070 FATL 1073 (1619)
Q Consensus 1070 i~~l 1073 (1619)
+...
T Consensus 188 i~~~ 191 (196)
T PRK13975 188 IKDK 191 (196)
T ss_pred HHHh
Confidence 6543
No 243
>KOG3079|consensus
Probab=97.22 E-value=0.0034 Score=67.22 Aligned_cols=167 Identities=20% Similarity=0.254 Sum_probs=96.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
.+|-+=|.+||||+|....+++++||.++++|.+-|+..--+ | .+.-..+.+...+ |.
T Consensus 9 ~IifVlGGPGsgKgTqC~kiv~ky~ftHlSaGdLLR~E~~~~---g--se~g~~I~~~i~~-------------G~---- 66 (195)
T KOG3079|consen 9 PIIFVLGGPGSGKGTQCEKIVEKYGFTHLSAGDLLRAEIASA---G--SERGALIKEIIKN-------------GD---- 66 (195)
T ss_pred CEEEEEcCCCCCcchHHHHHHHHcCceeecHHHHHHHHHccc---c--ChHHHHHHHHHHc-------------CC----
Confidence 467777899999999999999999999999999999555311 1 1111222222221 21
Q ss_pred cccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEec------------cccCeeeecCCCeEEEEEcCHHHHHHh
Q psy14505 940 LIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADG------------RDMGTTVFPDAFLKIFLTADIKQRTKR 1007 (1619)
Q Consensus 940 ~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~G------------Rd~~~~v~p~a~~kifl~A~~e~Ra~R 1007 (1619)
+.-..-+...|.+.+++.....+++||| |.+.- ++++.+|+.++.|.-.+|
T Consensus 67 -------------iVP~ei~~~LL~~am~~~~~~~~fLIDGyPR~~~q~~~fe~~i~~----~~~fvl~fdc~ee~~l~R 129 (195)
T KOG3079|consen 67 -------------LVPVEITLSLLEEAMRSSGDSNGFLIDGYPRNVDQLVEFERKIQG----DPDFVLFFDCPEETMLKR 129 (195)
T ss_pred -------------cCcHHHHHHHHHHHHHhcCCCCeEEecCCCCChHHHHHHHHHhcC----CCCEEEEEeCCHHHHHHH
Confidence 1222244555555556655556699999 32321 467999999999999999
Q ss_pred chHHHHhc-CCCCCHHHHHHHHHhhhhhcccC--CCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1008 RYKQLMQK-GFSVSMSDLLINLIKRDIRDKTR--NLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1008 r~~~l~~~-~~~~~~~~~~~~i~~rD~~d~~r--~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
...+-... +..-+.+.+.+.++- -.... -+.-|....-...||.+. ++|+|...+...
T Consensus 130 ll~R~q~~~R~DDn~esikkR~et---~~~~t~Pvi~~~e~kg~l~~i~a~~-~~d~Vf~~v~~~ 190 (195)
T KOG3079|consen 130 LLHRGQSNSRSDDNEESIKKRLET---YNKSTLPVIEYYEKKGKLLKINAER-SVDDVFEEVVTA 190 (195)
T ss_pred HHhhcccCCCCCCchHHHHHHHHH---HHHcchHHHHHHHccCcEEEecCCC-CHHHHHHHHHHH
Confidence 55442210 112244444443322 11111 122233333345677664 666665555443
No 244
>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=97.19 E-value=0.00063 Score=85.97 Aligned_cols=145 Identities=17% Similarity=0.147 Sum_probs=88.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|..|+||+++++.+|+++|++|+|++.... .+.|.+..+. +.+. |
T Consensus 2 ~I~l~G~~GsGKSTv~~~La~~lg~~~id~D~~i~------~~~g~~i~~i--~~~~----------------G------ 51 (488)
T PRK13951 2 RIFLVGMMGSGKSTIGKRVSEVLDLQFIDMDEEIE------RREGRSVRRI--FEED----------------G------ 51 (488)
T ss_pred eEEEECCCCCCHHHHHHHHHHHcCCeEEECcHHHH------HHcCCCHHHH--HHHh----------------h------
Confidence 46677899999999999999999999999987643 2445442210 1000 0
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEE-eccccCeeeecC------CCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVA-DGRDMGTTVFPD------AFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~-~GRd~~~~v~p~------a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
.+..|+...+.++++....++|+ .|. |.++-++ ...-|||+||++.+.+|...
T Consensus 52 ---------------e~~fr~~E~~~l~~l~~~~~~Vis~Gg--gvv~~~~~r~~l~~~~vI~L~as~e~l~~Rl~~--- 111 (488)
T PRK13951 52 ---------------EEYFRLKEKELLRELVERDNVVVATGG--GVVIDPENRELLKKEKTLFLYAPPEVLMERVTT--- 111 (488)
T ss_pred ---------------hHHHHHHHHHHHHHHhhcCCEEEECCC--ccccChHHHHHHhcCeEEEEECCHHHHHHHhcc---
Confidence 12346666666667765555555 442 4333322 12479999999999999322
Q ss_pred hcCCCC---CHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhh
Q psy14505 1014 QKGFSV---SMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQIL 1067 (1619)
Q Consensus 1014 ~~~~~~---~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~ 1067 (1619)
++.+. ..+++.+..++|+.. |.. ...||++++++++++..|+
T Consensus 112 -~~RPLl~~~~e~l~~L~~~R~~l--------Y~~---~~~IDt~~~s~~e~~~~iv 156 (488)
T PRK13951 112 -ENRPLLREGKERIREIWERRKQF--------YTE---FRGIDTSKLNEWETTALVV 156 (488)
T ss_pred -CCCCCccccHHHHHHHHHHHHHH--------Hhc---ccEEECCCCCHHHHHHHHH
Confidence 22221 123444444443321 111 1479999999999887773
No 245
>PRK02496 adk adenylate kinase; Provisional
Probab=97.18 E-value=0.002 Score=71.19 Aligned_cols=36 Identities=31% Similarity=0.515 Sum_probs=32.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
.+.+-|++|+||++.++.+|+++|++++++|.+.|.
T Consensus 3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~~~~~~~ 38 (184)
T PRK02496 3 RLIFLGPPGAGKGTQAVVLAEHLHIPHISTGDILRQ 38 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEEhHHHHHH
Confidence 466679999999999999999999999999999884
No 246
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=97.12 E-value=0.0031 Score=67.01 Aligned_cols=67 Identities=19% Similarity=0.304 Sum_probs=45.0
Q ss_pred eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCC-CCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 993 LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLK-CPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 993 ~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~-~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
+-||+.||++++.+| +.+-+.+.-.+=+-..-+=-.+||. |.+..+.|||+..++|++++.|++++.
T Consensus 123 iEVyV~~pl~vce~R------------DpKGLYkKAr~GeI~~fTGid~pYE~P~~Pel~l~t~~~~vee~v~~i~~~l~ 190 (197)
T COG0529 123 IEVYVDTPLEVCERR------------DPKGLYKKARAGEIKNFTGIDSPYEAPENPELHLDTDRNSVEECVEQILDLLK 190 (197)
T ss_pred EEEEeCCCHHHHHhc------------CchHHHHHHHcCCCCCCcCCCCCCCCCCCCeeEeccccCCHHHHHHHHHHHHH
Confidence 559999999999999 3333333211112122221255676 445579999999999999999988764
No 247
>PHA02858 EIF2a-like PKR inhibitor; Provisional
Probab=97.08 E-value=0.0011 Score=61.03 Aligned_cols=69 Identities=16% Similarity=0.278 Sum_probs=63.1
Q ss_pred cCCCcEEEEEEEEEecCeEEEEeC--CEEEEee-ccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEee
Q psy14505 1254 LKEGCTVKGVVKNITDYGAFIDLG--GIDGLLH-ITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGM 1324 (1619)
Q Consensus 1254 l~~G~iv~g~V~~v~~~G~~V~l~--gi~g~l~-~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSl 1324 (1619)
-++|+.+. .|+.+.+.|++|.|- +++|++. .++++..+..+..+.+ +|....+.|+.+|++++-|.||.
T Consensus 14 P~v~dvv~-~Vv~i~d~~~YV~LleY~iegmIl~~selsr~rirsi~kll-VGk~e~v~ViRVDk~KGYIDLs~ 85 (86)
T PHA02858 14 PNINEVTK-GIVFVKDNIFYVKLIDYGLEALIVNYVNVNADRAEKLKKKL-VGKTINVQVIRTDKLKGYIDVRH 85 (86)
T ss_pred CCCCeEEE-EEEEEeccEEEEEEecCccceEEecHHHHhHHHHHhhhhhh-cCCeeEEEEEEECCCCCEEEeEc
Confidence 47899998 899999999999973 7999988 9999999999999988 99999999999999999999884
No 248
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=97.07 E-value=0.0023 Score=72.39 Aligned_cols=35 Identities=40% Similarity=0.672 Sum_probs=32.0
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
|.+-|++||||+|.++.||+++|++++++|.+.|.
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~gdllr~ 36 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTGDLLRA 36 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeehhHHHHH
Confidence 44568999999999999999999999999999994
No 249
>PHA02858 EIF2a-like PKR inhibitor; Provisional
Probab=97.05 E-value=0.001 Score=61.35 Aligned_cols=69 Identities=20% Similarity=0.277 Sum_probs=61.8
Q ss_pred ccceEEEEEEEEEecceEEEeeCC-CeEEEEe-CCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDG-NIDGLIH-LSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~-~v~Glv~-~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
.+|+++. .|+.+.+.|++|.+.+ ++.|++. .++++ .+......+.+ +|....++|+.+|++++-|.||.
T Consensus 15 ~v~dvv~-~Vv~i~d~~~YV~LleY~iegmIl~~sels-r~rirsi~kll-VGk~e~v~ViRVDk~KGYIDLs~ 85 (86)
T PHA02858 15 NINEVTK-GIVFVKDNIFYVKLIDYGLEALIVNYVNVN-ADRAEKLKKKL-VGKTINVQVIRTDKLKGYIDVRH 85 (86)
T ss_pred CCCeEEE-EEEEEeccEEEEEEecCccceEEecHHHHh-HHHHHhhhhhh-cCCeeEEEEEEECCCCCEEEeEc
Confidence 5799998 8899999999999865 7999998 99999 46667788888 99999999999999999999985
No 250
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=97.01 E-value=0.007 Score=65.40 Aligned_cols=34 Identities=29% Similarity=0.503 Sum_probs=30.0
Q ss_pred EecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 863 TIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 863 ti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
.+.|++|+||+|.++.++..+|..++|...++..
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l~~~~v~~D~~~~~ 35 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRLGAKFIEGDDLHPA 35 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhcCCeEEeCccccCh
Confidence 3558999999999999999999999999887653
No 251
>PRK06762 hypothetical protein; Provisional
Probab=97.01 E-value=0.006 Score=66.13 Aligned_cols=65 Identities=11% Similarity=0.171 Sum_probs=46.0
Q ss_pred eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 993 LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 993 ~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
..|||.||++++.+|...+- .....+.+.+......||.. .. .+.+|+|++++++++++.|+..+
T Consensus 98 ~~v~Ldap~e~~~~R~~~R~--~~~~~~~~~l~~~~~~~~~~------~~-----~~~~~~~~~~~~~~v~~~i~~~~ 162 (166)
T PRK06762 98 YTYYFDLSFEETLRRHSTRP--KSHEFGEDDMRRWWNPHDTL------GV-----IGETIFTDNLSLKDIFDAILTDI 162 (166)
T ss_pred EEEEEeCCHHHHHHHHhccc--ccccCCHHHHHHHHhhcCCc------CC-----CCeEEecCCCCHHHHHHHHHHHh
Confidence 56999999999999954431 12335667777766665533 11 13589999999999999998754
No 252
>PRK14526 adenylate kinase; Provisional
Probab=96.99 E-value=0.0019 Score=72.77 Aligned_cols=34 Identities=35% Similarity=0.789 Sum_probs=31.8
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
+.+-|++|+||+|.++.+|+.+|++++++|.+.|
T Consensus 3 i~l~G~pGsGKsT~a~~La~~~~~~~is~G~llr 36 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILSNELNYYHISTGDLFR 36 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceeecChHHH
Confidence 4567899999999999999999999999999999
No 253
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=96.99 E-value=0.0041 Score=68.17 Aligned_cols=35 Identities=23% Similarity=0.471 Sum_probs=27.7
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEe--chhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYL--DSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~--dtg~~yr 895 (1619)
+|.+.|++|+||+|.++.+++.++.+++ +...++.
T Consensus 4 ~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D~~~~ 40 (175)
T cd00227 4 IIILNGGSSAGKSSIARALQSVLAEPWLHFGVDSFIE 40 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCCCccccCccHHHH
Confidence 5777899999999999999999877654 5444443
No 254
>PLN02674 adenylate kinase
Probab=96.95 E-value=0.0036 Score=71.80 Aligned_cols=37 Identities=27% Similarity=0.500 Sum_probs=33.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
+.|.+-|++|+||+|.++.||+++|++|+++|.+.|.
T Consensus 32 ~~i~l~G~PGsGKgT~a~~La~~~~~~his~GdllR~ 68 (244)
T PLN02674 32 KRLILIGPPGSGKGTQSPIIKDEYCLCHLATGDMLRA 68 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHcCCcEEchhHHHHH
Confidence 3466779999999999999999999999999999994
No 255
>PRK05480 uridine/cytidine kinase; Provisional
Probab=96.94 E-value=0.0017 Score=73.24 Aligned_cols=184 Identities=16% Similarity=0.164 Sum_probs=94.3
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHh---CCEEechhhHHHHHHHH--HHHcCCCCC-----cHHHHHHHHHcccceecC
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKL---GFHYLDSGALYRLVTLS--AINNNIQLD-----NELELVILIKKLNYNFLG 927 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l---~~~~~dtg~~yr~~~~~--a~~~~~~~~-----~~~~~~~~~~~~~~~~~~ 927 (1619)
...+|.+.|++|+||+|.++.|+..+ .+.+++.+..|+..... ..+..+... +.+.+.+.+....
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~----- 79 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQDSYYKDQSHLSFEERVKTNYDHPDAFDHDLLIEHLKALK----- 79 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCCccccCcccCCHHHhcccCccCcccccHHHHHHHHHHHH-----
Confidence 34689999999999999999999988 46777877776522100 001111111 1122222221110
Q ss_pred ceEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCe--eeecCCCeEEEEEcCHHHHH
Q psy14505 928 KEVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT--TVFPDAFLKIFLTADIKQRT 1005 (1619)
Q Consensus 928 ~~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~--~v~p~a~~kifl~A~~e~Ra 1005 (1619)
.|..+... .. ..+........ -.+....-+|+||-.... -+.+..+++|||+|+.+.|.
T Consensus 80 -----~~~~v~~p----~~-----d~~~~~~~~~~-----~~~~~~~~vivEg~~l~~~~~~~~~~d~~I~v~~~~~~~~ 140 (209)
T PRK05480 80 -----AGKAIEIP----VY-----DYTEHTRSKET-----IRVEPKDVIILEGILLLEDERLRDLMDIKIFVDTPLDIRL 140 (209)
T ss_pred -----cCCccccC----cc-----cccccccCCCe-----EEeCCCCEEEEEeehhcCchhHhhhhceeEEEeCChhHHH
Confidence 01111000 00 00000000000 012234468889974432 12234679999999999999
Q ss_pred HhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcc---cchhhhhhhh
Q psy14505 1006 KRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKM---NINQVVNQIL 1067 (1619)
Q Consensus 1006 ~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l---~ieevv~~I~ 1067 (1619)
+||..+-.. ..+.+.+++.+.+.++........+.|+....| ++|+++.. +++++.+.|.
T Consensus 141 ~R~~~Rd~~-~rg~~~e~~~~~~~~~~~~~~~~~i~~~~~~AD-~vI~~~~~~~~~~~~l~~~i~ 203 (209)
T PRK05480 141 IRRLKRDVN-ERGRSLESVINQYLSTVRPMHLQFIEPSKRYAD-IIIPEGGKNRVAIDILKAKIR 203 (209)
T ss_pred HHHHhhcch-hcCCCHHHHHHHHHHhhhhhHHhhccHhhccee-EEecCCCcchHHHHHHHHHHH
Confidence 997765221 224588888887766443322223455555554 45665432 4454444443
No 256
>PRK14531 adenylate kinase; Provisional
Probab=96.93 E-value=0.0053 Score=67.80 Aligned_cols=35 Identities=34% Similarity=0.562 Sum_probs=32.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
.|.+-|++||||+|.++.+|+++|++++++|.+.|
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is~gd~lr 38 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHGLRHLSTGDLLR 38 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeEecccHHH
Confidence 46667999999999999999999999999999999
No 257
>PRK03846 adenylylsulfate kinase; Provisional
Probab=96.93 E-value=0.0041 Score=69.65 Aligned_cols=36 Identities=31% Similarity=0.351 Sum_probs=29.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh-----CCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL-----GFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg~~yr 895 (1619)
.++.+.|.+|+||+|.++.++..+ +..++|...+..
T Consensus 25 ~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~~~ 65 (198)
T PRK03846 25 VVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNVRH 65 (198)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeHHh
Confidence 467778999999999999999886 468888755543
No 258
>PLN02348 phosphoribulokinase
Probab=96.92 E-value=0.0039 Score=75.43 Aligned_cols=77 Identities=16% Similarity=0.060 Sum_probs=52.3
Q ss_pred cCCCeEEecccc-C-eeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc
Q psy14505 972 KFPGLVADGRDM-G-TTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA 1049 (1619)
Q Consensus 972 ~~~~~V~~GRd~-~-~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da 1049 (1619)
..+-+|+||=-. . ..+.+..+++|||+++.+.|..||.+|...++ +.+.+++++.+.+| ..+..+.+.|.....|.
T Consensus 162 p~~VVIVEGlh~L~~e~lr~l~D~~IyVd~~~dvrl~RRI~RD~~eR-G~S~EeV~~~i~ar-~pd~~~yI~pqk~~ADi 239 (395)
T PLN02348 162 PPKILVIEGLHPMYDERVRDLLDFSIYLDISDDVKFAWKIQRDMAER-GHSLESIKASIEAR-KPDFDAYIDPQKQYADV 239 (395)
T ss_pred CCcEEEEechhhccCccccccCcEEEEEECCHHHHHHHHHHhhHhhc-CCCHHHHHHHHHhc-CcchhhhcccccccCCE
Confidence 344588899311 0 11233467999999999999999888865432 34899999999887 34555566777766554
Q ss_pred e
Q psy14505 1050 H 1050 (1619)
Q Consensus 1050 l 1050 (1619)
+
T Consensus 240 V 240 (395)
T PLN02348 240 V 240 (395)
T ss_pred E
Confidence 3
No 259
>PF01121 CoaE: Dephospho-CoA kinase; InterPro: IPR001977 This family contains dephospho-CoA kinases (2.7.1.24 from EC), which catalyzes the final step in CoA biosynthesis, the phosphorylation of the 3'-hydroxyl group of ribose using ATP as a phosphate donor. The crystal structures of a number of the proteins in this entry have been determined, including the structure of the protein from Haemophilus influenzae to 2.0-A resolution in a comlex with ATP. The protein consists of three domains: the nucleotide-binding domain with a five-stranded parallel beta-sheet, the substrate-binding alpha-helical domain, and the lid domain formed by a pair of alpha-helices; the overall topology of the protein resembles the structures of other nucleotide kinases [].; GO: 0004140 dephospho-CoA kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 1VHL_A 1N3B_A 1VIY_A 1VHT_B 1T3H_B 1UF9_C 2F6R_A 2GRJ_D 2IF2_C 1JJV_A.
Probab=96.91 E-value=0.0013 Score=72.21 Aligned_cols=148 Identities=19% Similarity=0.183 Sum_probs=84.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEe-CCcccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYL-NGVNVT 938 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~ 938 (1619)
++|.+.|.-||||+++++.+++ +|++++|.+.+-+.+ .+.| .+.+.++....+-. ++. +|+ +.
T Consensus 1 ~iIglTG~igsGKStv~~~l~~-~G~~vidaD~i~~~l----~~~~-----~~~~~~l~~~FG~~-----il~~~g~-id 64 (180)
T PF01121_consen 1 MIIGLTGGIGSGKSTVSKILAE-LGFPVIDADEIAHEL----YEPG-----SEGYKALKERFGEE-----ILDEDGE-ID 64 (180)
T ss_dssp EEEEEEESTTSSHHHHHHHHHH-TT-EEEEHHHHHHHC----TSCT-----CHHHHHHHHHHGGG-----GBETTSS-B-
T ss_pred CEEEEECCCcCCHHHHHHHHHH-CCCCEECccHHHHHH----hhcC-----HHHHHHHHHHcCcc-----ccCCCCC-Ch
Confidence 3678889999999999999888 999999998876622 1211 12222222211111 111 121 11
Q ss_pred c-cccccccccccc--cc--cccHHHHHHHHHHHHhhhcCCCeEEeccc---cCeeeecCCCeEEEEEcCHHHHHHhchH
Q psy14505 939 T-LIRNEKVSNNAS--KI--AKFKNIRKELFKIQVKFRKFPGLVADGRD---MGTTVFPDAFLKIFLTADIKQRTKRRYK 1010 (1619)
Q Consensus 939 ~-~ir~~~~~~~~s--~~--a~~~~vr~~~~~~~r~~a~~~~~V~~GRd---~~~~v~p~a~~kifl~A~~e~Ra~Rr~~ 1010 (1619)
. .|+.--.+.... .+ -.+|.|++.+.+.+.......-+|+|.-. .++ ....|.-|+++||.+.|.+|
T Consensus 65 R~~L~~~vF~d~~~~~~L~~iihP~I~~~~~~~~~~~~~~~~~v~e~pLL~E~~~--~~~~D~vi~V~a~~e~ri~R--- 139 (180)
T PF01121_consen 65 RKKLAEIVFSDPEKLKKLENIIHPLIREEIEKFIKRNKSEKVVVVEIPLLFESGL--EKLCDEVIVVYAPEEIRIKR--- 139 (180)
T ss_dssp HHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHCHSTSEEEEE-TTTTTTTG--GGGSSEEEEEE--HHHHHHH---
T ss_pred HHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHHHHHhccCCCEEEEEcchhhhhhH--hhhhceEEEEECCHHHHHHH---
Confidence 1 122221111110 01 26888888887766665554567777643 222 22357899999999999999
Q ss_pred HHHhcCCCCCHHHHHHHHHh
Q psy14505 1011 QLMQKGFSVSMSDLLINLIK 1030 (1619)
Q Consensus 1011 ~l~~~~~~~~~~~~~~~i~~ 1030 (1619)
.+++.+.+.+++...+..
T Consensus 140 --l~~R~~~~~~~~~~ri~~ 157 (180)
T PF01121_consen 140 --LMERDGLSEEEAEARIAS 157 (180)
T ss_dssp --HHHHHTSTHHHHHHHHHT
T ss_pred --HHhhCCCcHHHHHHHHHh
Confidence 444456799988887665
No 260
>PRK05541 adenylylsulfate kinase; Provisional
Probab=96.89 E-value=0.009 Score=65.46 Aligned_cols=37 Identities=38% Similarity=0.432 Sum_probs=30.7
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC-----CEEechhhHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG-----FHYLDSGALYR 895 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~-----~~~~dtg~~yr 895 (1619)
..+|.+.|.+|+||+|.++.+++++. +.++|...+++
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~d~~r~ 48 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDELRE 48 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEecHHHHh
Confidence 35788889999999999999999986 88888655544
No 261
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=96.87 E-value=0.0046 Score=79.69 Aligned_cols=34 Identities=26% Similarity=0.342 Sum_probs=30.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCC------EEechhhH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGF------HYLDSGAL 893 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~------~~~dtg~~ 893 (1619)
.+|.+.|.+|+||+|+++.|+++++. .|+|+..+
T Consensus 393 ~~Ivl~Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~D~v 432 (568)
T PRK05537 393 FTVFFTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDGDVV 432 (568)
T ss_pred eEEEEECCCCChHHHHHHHHHHHhhhccCceEEEeCCcHH
Confidence 36677799999999999999999996 99998766
No 262
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=96.83 E-value=0.0042 Score=68.81 Aligned_cols=169 Identities=15% Similarity=0.181 Sum_probs=86.4
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.+.+-|++|+||+|+++.|+..++..+++.+-.....+.......+..... ++....++..+...
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-------------- 68 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQREQTQLLVAHRYITRPASAGSENHIALSEQ-EFFTRAGQNLFALS-------------- 68 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCeEEEcCEECCCccchhHHhheeEcHH-HHHHHHHCCchhhH--------------
Confidence 466779999999999999999988888776532221111111122222211 11111111100000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC----eeeecCCCeEEEEEcCHHHHHHhchHHHHhcC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG----TTVFPDAFLKIFLTADIKQRTKRRYKQLMQKG 1016 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~----~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~ 1016 (1619)
-.+......++. .+. +.++...++|+.|=-.. --.+++...-|||.||.+++++|. ..+
T Consensus 69 ---~~~~g~~yg~~~--~~~-------~~l~~g~~VI~~G~~~~~~~~~~~~~~~~~vi~l~~s~e~l~~RL----~~R- 131 (186)
T PRK10078 69 ---WHANGLYYGVGI--EID-------LWLHAGFDVLVNGSRAHLPQARARYQSALLPVCLQVSPEILRQRL----ENR- 131 (186)
T ss_pred ---HHHhCCccCCcH--HHH-------HHHhCCCEEEEeChHHHHHHHHHHcCCCEEEEEEeCCHHHHHHHH----HHh-
Confidence 000001111121 122 23444455777552000 001343445699999999999992 222
Q ss_pred CCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1017 FSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1017 ~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
...+.+++.+.+.. . ++....|.++||++ .+++++++.|.+.+..
T Consensus 132 ~~~~~~~i~~rl~r-~---------~~~~~ad~~vi~~~-~s~ee~~~~i~~~l~~ 176 (186)
T PRK10078 132 GRENASEINARLAR-A---------ARYQPQDCHTLNND-GSLRQSVDTLLTLLHL 176 (186)
T ss_pred CCCCHHHHHHHHHH-h---------hhhccCCEEEEeCC-CCHHHHHHHHHHHHhh
Confidence 23366666666532 1 11123456778854 5999999999776654
No 263
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=96.83 E-value=0.0019 Score=72.14 Aligned_cols=179 Identities=16% Similarity=0.191 Sum_probs=94.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHh---CCEEechhhHHHHHHHH--HHHcCCC-----CCcHHHHHHHHHcccceecCceE
Q psy14505 861 VITIDGPTASGKGTVAQLVASKL---GFHYLDSGALYRLVTLS--AINNNIQ-----LDNELELVILIKKLNYNFLGKEV 930 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l---~~~~~dtg~~yr~~~~~--a~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~ 930 (1619)
+|.+.|++|+||+|.++.++..+ ++.+++.+..|...... ....+.. ..+.+.+.+.+......
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~------ 74 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQDSYYKDLSHEELEERKNNNYDHPDAFDFDLLISHLQDLKNG------ 74 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCCCeEEEEecccccccccccHHHhccCCCCCCCcccHHHHHHHHHHHHCC------
Confidence 36788999999999999999887 47788877766422210 0011111 01122222222211100
Q ss_pred EeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCe--eeecCCCeEEEEEcCHHHHHHhc
Q psy14505 931 YLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGT--TVFPDAFLKIFLTADIKQRTKRR 1008 (1619)
Q Consensus 931 ~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~--~v~p~a~~kifl~A~~e~Ra~Rr 1008 (1619)
..+ .......+..+.+.... .+....-+|++|=..+. .+.+..+++|||.|+.+.|.+||
T Consensus 75 ----~~~---------~~p~~d~~~~~~~~~~~-----~i~~~~~vI~eg~~~~~~~~~~~~~d~~i~v~~~~~~~~~R~ 136 (198)
T cd02023 75 ----KSV---------EIPVYDFKTHSRLKETV-----TVYPADVIILEGILALYDKELRDLMDLKIFVDTDADVRLIRR 136 (198)
T ss_pred ----CCE---------eccccccccCcccCCce-----ecCCCCEEEEechhhccchhHHhhcCeEEEEECChhHHHHHH
Confidence 000 00000011111111111 12334568888864433 22334679999999999999998
Q ss_pred hHHHH-hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhh
Q psy14505 1009 YKQLM-QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQIL 1067 (1619)
Q Consensus 1009 ~~~l~-~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~ 1067 (1619)
..+=. .++ .+.+++.+.+..++.....+...|+....|. +|+++. +.++.+..|.
T Consensus 137 ~~Rd~~~rg--~~~~~~~~~~~~~~~~~~~~~i~~~~~~aD~-ii~~~~-~~~~~~~~~~ 192 (198)
T cd02023 137 IERDIVERG--RDLESVINQYLKFVKPMHEQFIEPTKRYADV-IIPRGG-DNHVAIDLIV 192 (198)
T ss_pred HHHHhhhcC--CCHHHHHHHHHHhhhhhHHHhCccchhceeE-EECCCC-CccHHHHHHH
Confidence 76622 233 4777777777766665554455666655554 455554 2334444443
No 264
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=96.82 E-value=0.013 Score=65.32 Aligned_cols=73 Identities=19% Similarity=0.332 Sum_probs=64.2
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCC---CccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTD---PGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~---~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
++||+|-|.|..+...++.|.+..-..+++|.+++.+.. ...++...|++||.|.|+|..+| ......|++|.
T Consensus 63 ~~gD~VIG~I~~v~~~~W~VDI~sp~~A~L~ls~~~~r~~~~~~~~~r~~l~vGD~v~AkV~~vd-~~~~~~L~~k~ 138 (239)
T COG1097 63 EVGDVVIGKIIEVGPSGWKVDIGSPYPALLSLSDFLRRKFENAEKDLRPFLNVGDLVYAKVVDVD-RDGEVELTLKD 138 (239)
T ss_pred CCCCEEEEEEEEEcccceEEEcCCccceEeehhhhhcccccccccccccccccCCEEEEEEEEcc-CCCceEEEeec
Confidence 679999999999999999999999999999999995422 23577889999999999999999 57888999865
No 265
>PLN02459 probable adenylate kinase
Probab=96.71 E-value=0.0055 Score=70.66 Aligned_cols=37 Identities=30% Similarity=0.325 Sum_probs=33.7
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
+.|.+-|++|+||+|.++.+|+++|++|+++|.+.|.
T Consensus 30 ~~ii~~G~PGsGK~T~a~~la~~~~~~~is~gdllR~ 66 (261)
T PLN02459 30 VNWVFLGCPGVGKGTYASRLSKLLGVPHIATGDLVRE 66 (261)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCcEEeCcHHHHH
Confidence 4566679999999999999999999999999999994
No 266
>cd04462 S1_RNAPII_Rpb7 S1_RNAPII_Rpb7: Eukaryotic RNA polymerase II (RNAPII) Rpb7 subunit C-terminal S1 domain. RNAPII is composed of 12 subunits (Rpb1-12). Rpb4 and Rpb7 form a heterodimer that associate with the RNAPII core. Rpb7 is a homolog of the Rpc25 of RNA polymerase III, RpoE of the archaeal RNA polymerase, and Rpa43 of eukaryotic RNA polymerase I. Rpb7 has two domains, an N-terminal ribonucleoprotein (RNP) domain and a C-terminal S1 domain, both of which bind single-stranded RNA. It is possible that the S1 domain interacts with the nascent RNA transcript, assisted by the RNP domain. In yeast, Rpb4/Rpb7 is necessary for promoter-directed transcription initiation. They also play a role in regulating transcription-coupled repair in the Rad26-dependent pathway, in efficient mRNA export, and in transcription termination.
Probab=96.70 E-value=0.0081 Score=57.88 Aligned_cols=63 Identities=16% Similarity=0.274 Sum_probs=49.3
Q ss_pred CCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCccccCCC-----------ccccccCCEEEEEEEEeecCCC
Q psy14505 1256 EGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRVKHP-----------SEILTIGQDISTKILKYDQEKN 1318 (1619)
Q Consensus 1256 ~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~~~~-----------~~~~~vG~~v~vrVl~vd~~~~ 1318 (1619)
.|+++.|+|+++.+.|+||++|.+++|+|...++.....+| ...+.+|+.|++||+.+..+.+
T Consensus 1 kgEVi~g~V~~v~~~G~~v~~Gpl~~f~~~~~ip~~~~~~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~~~~~ 74 (88)
T cd04462 1 KGEVVDAIVTSVNKTGFFAEVGPLSIFISRHLIPSDMEFDPNASPPCFTSNEDIVIKKDTEVRLKIIGTRVDAT 74 (88)
T ss_pred CCcEEEEEEEEEeccEEEEEEcCceEEEEeeecCccceECCcCCCCeEeCCCcEEECCCCEEEEEEEEEEEccC
Confidence 48999999999999999999999999999988876433322 2236778888888877765543
No 267
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=96.69 E-value=0.0079 Score=65.14 Aligned_cols=45 Identities=29% Similarity=0.375 Sum_probs=32.9
Q ss_pred CCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCc
Q psy14505 866 GPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDN 910 (1619)
Q Consensus 866 g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~ 910 (1619)
|++|+||+++++.++.++|..++|...++..........|+...+
T Consensus 2 G~sGsGKSTla~~la~~l~~~~~~~d~~~~~~~~~~~~~g~~~~~ 46 (163)
T PRK11545 2 GVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRNIEKMASGEPLND 46 (163)
T ss_pred CCCCCcHHHHHHHHHHHhCCeEEeCccCCchhhhccccCCCCCCh
Confidence 788999999999999999999999987643222222234665544
No 268
>PRK08356 hypothetical protein; Provisional
Probab=96.64 E-value=0.0042 Score=69.39 Aligned_cols=35 Identities=26% Similarity=0.380 Sum_probs=31.1
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
++|.+.|++|+||+|.++.|+ ++|++++.+|..++
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l~-~~g~~~is~~~~~~ 40 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFFE-EKGFCRVSCSDPLI 40 (195)
T ss_pred EEEEEECCCCCCHHHHHHHHH-HCCCcEEeCCCccc
Confidence 567888999999999999996 58999999998766
No 269
>PTZ00301 uridine kinase; Provisional
Probab=96.62 E-value=0.0054 Score=69.09 Aligned_cols=81 Identities=15% Similarity=0.066 Sum_probs=56.3
Q ss_pred CCCeEEeccccCe--eeecCCCeEEEEEcCHHHHHHhchHHHHh-cCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc
Q psy14505 973 FPGLVADGRDMGT--TVFPDAFLKIFLTADIKQRTKRRYKQLMQ-KGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA 1049 (1619)
Q Consensus 973 ~~~~V~~GRd~~~--~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~-~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da 1049 (1619)
.+=||+||=-+-+ -+.+--+++|||.++.++|..||..+=.. +| .+.+++++....+......+.+.|.....|.
T Consensus 107 ~~ViIvEGi~~l~~~~l~~l~D~~ifvd~~~d~~~~Rr~~Rd~~~rG--~~~e~v~~~~~~~v~~~~~~~I~p~k~~ADi 184 (210)
T PTZ00301 107 KSVLIVEGILLFTNAELRNEMDCLIFVDTPLDICLIRRAKRDMRERG--RTFESVIEQYEATVRPMYYAYVEPSKVYADI 184 (210)
T ss_pred CcEEEEechhhhCCHHHHHhCCEEEEEeCChhHHHHHHHhhhHHhcC--CCHHHHHHHHHHhhcccHHHHcCccccCCcE
Confidence 3457779953310 12233579999999999999999887444 34 4888888877776555556678898877777
Q ss_pred eEEccC
Q psy14505 1050 HLLNTS 1055 (1619)
Q Consensus 1050 l~Idts 1055 (1619)
++-++.
T Consensus 185 Ii~~~~ 190 (210)
T PTZ00301 185 IVPSWK 190 (210)
T ss_pred EEcCCC
Confidence 764444
No 270
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=96.62 E-value=0.027 Score=62.92 Aligned_cols=75 Identities=16% Similarity=0.247 Sum_probs=64.2
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccc---cCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWIN---KNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~---~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
.++||+|-|+|..+...++.|+++....+++|.|++-+.. ...+.+..|++||.|.|+|..+| ......|++|..
T Consensus 62 P~~gD~VIG~I~~v~~~~W~VDI~sp~~A~L~ls~~~~r~~~~~~~~~r~~l~vGD~v~AkV~~vd-~~~~~~L~~k~~ 139 (239)
T COG1097 62 PEVGDVVIGKIIEVGPSGWKVDIGSPYPALLSLSDFLRRKFENAEKDLRPFLNVGDLVYAKVVDVD-RDGEVELTLKDE 139 (239)
T ss_pred CCCCCEEEEEEEEEcccceEEEcCCccceEeehhhhhcccccccccccccccccCCEEEEEEEEcc-CCCceEEEeecC
Confidence 6789999999999999999999998899999999994421 13567889999999999999999 456788888653
No 271
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=96.61 E-value=0.013 Score=69.03 Aligned_cols=30 Identities=20% Similarity=0.512 Sum_probs=26.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEech
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDS 890 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dt 890 (1619)
.+|.+.|.+|+||++.++.+. .+|+.++|.
T Consensus 7 ~~i~i~G~~GsGKtt~~~~l~-~~g~~~~d~ 36 (288)
T PRK05416 7 RLVIVTGLSGAGKSVALRALE-DLGYYCVDN 36 (288)
T ss_pred eEEEEECCCCCcHHHHHHHHH-HcCCeEECC
Confidence 468889999999999999985 679999984
No 272
>PRK06547 hypothetical protein; Provisional
Probab=96.58 E-value=0.0026 Score=69.47 Aligned_cols=38 Identities=34% Similarity=0.543 Sum_probs=34.7
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
...+|.+.|++|+||++.++.+++.+++++++.+.+|.
T Consensus 14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d~~~~ 51 (172)
T PRK06547 14 GMITVLIDGRSGSGKTTLAGALAARTGFQLVHLDDLYP 51 (172)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhCCCeecccceec
Confidence 45688999999999999999999999999999988886
No 273
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=96.55 E-value=0.0059 Score=74.58 Aligned_cols=150 Identities=21% Similarity=0.384 Sum_probs=104.5
Q ss_pred ccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeeccc
Q psy14505 1336 SFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCK 1415 (1619)
Q Consensus 1336 ~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~ 1415 (1619)
.+++..|..++|+|.++..||+||+++..+.|++|.++++. ...|.+|+++-+.|..+.++++.+.+......
T Consensus 117 ~~Dve~g~~Y~g~v~~v~~~GvFv~Ln~~v~GL~~~~d~~~-------~~~~~vgdeiiV~v~~vr~~~geidf~~~~~~ 189 (715)
T COG1107 117 MEDVEAGKYYKGIVSRVEKYGVFVELNSHVRGLIHRRDLGG-------DPDYAVGDEIIVQVSDVRPEKGEIDFEPVGLD 189 (715)
T ss_pred hhhcccceeeeccccchhhhcceeecChhhhccccccccCC-------CCCCCCCCeEEEEeeccCCCCCccceeecCCc
Confidence 34789999999999999999999999999999999999974 23578999999999999998887776554432
Q ss_pred C---------CC---CcccccccccceE--EEEEEEEEecc-e--EEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCC
Q psy14505 1416 D---------NP---WENFSIIHKKGEK--IKGIIKSITDF-G--IFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGD 1478 (1619)
Q Consensus 1416 ~---------~~---~~~~~~~~~vG~~--v~G~V~~i~~~-G--vfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq 1478 (1619)
. -| ...+.+ .+|+. +.|.|+.+... | +| .+.++ +|.++..-+. ......--..++|+
T Consensus 190 ~Y~~~~~~ke~~r~~i~~id~--~ig~tV~I~GeV~qikqT~GPTVF-tltDe-tg~i~aAAFe--~aGvRAyP~IevGd 263 (715)
T COG1107 190 RYREVQVEKELPRTLIDDLDE--MIGKTVRIEGEVTQIKQTSGPTVF-TLTDE-TGAIWAAAFE--EAGVRAYPEIEVGD 263 (715)
T ss_pred cchhhhhhhhcccccHHHHHh--hcCceEEEEEEEEEEEEcCCCEEE-EEecC-CCceehhhhc--cCCcccCCCCCCCc
Confidence 1 01 111222 35665 57889988765 2 44 33333 5666554443 22223334688999
Q ss_pred EEEEEEEEeecCCCeEEEeee
Q psy14505 1479 EIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1479 ~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
.|.+ +=.|+.-.+++.+-.-
T Consensus 264 iV~V-iG~V~~r~g~lQiE~~ 283 (715)
T COG1107 264 IVEV-IGEVTRRDGRLQIEIE 283 (715)
T ss_pred eEEE-EEEEeecCCcEEEeeh
Confidence 9976 3456667788876553
No 274
>cd04462 S1_RNAPII_Rpb7 S1_RNAPII_Rpb7: Eukaryotic RNA polymerase II (RNAPII) Rpb7 subunit C-terminal S1 domain. RNAPII is composed of 12 subunits (Rpb1-12). Rpb4 and Rpb7 form a heterodimer that associate with the RNAPII core. Rpb7 is a homolog of the Rpc25 of RNA polymerase III, RpoE of the archaeal RNA polymerase, and Rpa43 of eukaryotic RNA polymerase I. Rpb7 has two domains, an N-terminal ribonucleoprotein (RNP) domain and a C-terminal S1 domain, both of which bind single-stranded RNA. It is possible that the S1 domain interacts with the nascent RNA transcript, assisted by the RNP domain. In yeast, Rpb4/Rpb7 is necessary for promoter-directed transcription initiation. They also play a role in regulating transcription-coupled repair in the Rad26-dependent pathway, in efficient mRNA export, and in transcription termination.
Probab=96.52 E-value=0.0099 Score=57.28 Aligned_cols=64 Identities=22% Similarity=0.278 Sum_probs=49.8
Q ss_pred cceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccc-----------cccCCCCCCEEEEEEEEeecCCCe
Q psy14505 1428 KGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEE-----------IIRNFKKGDEIEAIILSIDVEKER 1493 (1619)
Q Consensus 1428 vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~-----------~~~~f~vGq~V~~~Vl~vd~e~~r 1493 (1619)
+|+++.|.|++++++|+||.+ +.++||+|.+.+..+ ...+ -...+++|+.|++||.++..+.+.
T Consensus 1 kgEVi~g~V~~v~~~G~~v~~-Gpl~~f~~~~~ip~~-~~~~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~~~~~~ 75 (88)
T cd04462 1 KGEVVDAIVTSVNKTGFFAEV-GPLSIFISRHLIPSD-MEFDPNASPPCFTSNEDIVIKKDTEVRLKIIGTRVDATD 75 (88)
T ss_pred CCcEEEEEEEEEeccEEEEEE-cCceEEEEeeecCcc-ceECCcCCCCeEeCCCcEEECCCCEEEEEEEEEEEccCc
Confidence 489999999999999999999 668999998888632 1111 134588999999999988765443
No 275
>PRK05054 exoribonuclease II; Provisional
Probab=96.48 E-value=0.0073 Score=79.06 Aligned_cols=72 Identities=22% Similarity=0.170 Sum_probs=58.8
Q ss_pred ccc--eEEEEEEEEEecceEEEeeCC-CeEEEEeCCCCCCC--CCcc--c-------cccCCCCCCEEEEEEEEeecCCC
Q psy14505 1427 KKG--EKIKGIIKSITDFGIFIGLDG-NIDGLIHLSDLSWT--DPGE--E-------IIRNFKKGDEIEAIILSIDVEKE 1492 (1619)
Q Consensus 1427 ~vG--~~v~G~V~~i~~~GvfV~~~~-~v~Glv~~sels~~--~~~~--~-------~~~~f~vGq~V~~~Vl~vd~e~~ 1492 (1619)
.+| +.+.|.|+.++++|+||++.+ ++.|+||.+.+..+ .+.- + -...|++||.|+++|.++|.+++
T Consensus 558 ~~G~~~~f~g~I~~v~~~G~fV~l~~~~veglV~~~~l~~~~~~y~~~~~~~~~~~~~~~~~~lGd~V~V~v~~vd~~~~ 637 (644)
T PRK05054 558 KAGTDTRFAAEIIDISRGGMRVRLLENGAVAFIPASFLHAVRDELVCNQENGTVQIKGETVYKLGDVIDVTLAEVRMETR 637 (644)
T ss_pred ccCCCeEEEEEEEeeecCcEEEEEeCCceEEEEEccccCCCccceEEccccceEEEeCCEEEcCCCEEEEEEEEEccccC
Confidence 465 499999999999999999966 79999999999642 1110 1 12479999999999999999999
Q ss_pred eEEEee
Q psy14505 1493 RISLGI 1498 (1619)
Q Consensus 1493 ri~LSl 1498 (1619)
+|.+++
T Consensus 638 ~i~~~~ 643 (644)
T PRK05054 638 SIIARP 643 (644)
T ss_pred eEEEEE
Confidence 998875
No 276
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=96.48 E-value=0.025 Score=62.04 Aligned_cols=35 Identities=46% Similarity=0.702 Sum_probs=32.6
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
.|.+=|++|+||+|.++.||++++++++|||.|+|
T Consensus 2 riiilG~pGaGK~T~A~~La~~~~i~hlstgd~~r 36 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILR 36 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhH
Confidence 35666899999999999999999999999999999
No 277
>PRK08233 hypothetical protein; Provisional
Probab=96.48 E-value=0.0085 Score=65.74 Aligned_cols=25 Identities=32% Similarity=0.470 Sum_probs=23.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhC
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLG 884 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~ 884 (1619)
++|.+.|++|+||+|.++.|++.++
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHKLK 28 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhCC
Confidence 5789999999999999999999987
No 278
>PRK15453 phosphoribulokinase; Provisional
Probab=96.47 E-value=0.014 Score=67.64 Aligned_cols=178 Identities=15% Similarity=0.170 Sum_probs=100.8
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC-----CEEechhhHHH----HHHH---HHHHcC--CCC-----CcHHHHHHHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG-----FHYLDSGALYR----LVTL---SAINNN--IQL-----DNELELVILIK 919 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~-----~~~~dtg~~yr----~~~~---~a~~~~--~~~-----~~~~~~~~~~~ 919 (1619)
..+|.+.|.+|+||+|+++.+++.++ ..+++.+..|+ .+.. .+.+.| ++. .+.+.+.+.+.
T Consensus 5 ~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL~~~l~ 84 (290)
T PRK15453 5 HPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDELEQLFR 84 (290)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHHHHHHH
Confidence 35799999999999999999998664 66788888886 1111 123343 333 23344444443
Q ss_pred cccceec-CceEEeCCccccccccccccccccccccccHHHHHHHHHHHHhh-hcCCCeEEeccccCeeeec------CC
Q psy14505 920 KLNYNFL-GKEVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKF-RKFPGLVADGRDMGTTVFP------DA 991 (1619)
Q Consensus 920 ~~~~~~~-~~~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~-a~~~~~V~~GRd~~~~v~p------~a 991 (1619)
.+.-.-. ....|..+.+ ...... ..+..+..- ..+ ....=+++||= -+-+++. ..
T Consensus 85 ~l~~~~~g~~~~Y~h~f~-~a~~~~-----------~~~gtft~~----e~i~~p~dvIivEGL-h~~~~~~~~~lr~~~ 147 (290)
T PRK15453 85 EYGETGTGKTRKYLHTDD-EAVPYN-----------QVPGTFTPW----EPLPEGTDLLFYEGL-HGGVVTDQVDVAQHV 147 (290)
T ss_pred HHhcCCCcceeecccccc-ccccCC-----------CCCCccCCc----eEecCCCcEEEEecc-ccccccccHHHHHhC
Confidence 3211100 0112210000 000000 000000000 011 12345888885 3333432 35
Q ss_pred CeEEEEEcCHHHHHHhchHH-HHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc-----eEEccCc
Q psy14505 992 FLKIFLTADIKQRTKRRYKQ-LMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA-----HLLNTSK 1056 (1619)
Q Consensus 992 ~~kifl~A~~e~Ra~Rr~~~-l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da-----l~Idts~ 1056 (1619)
|+|||+.++.+.|-.||..+ ..++|+ +.|.+.++|.+| .-|..+.+.|-....|. -.+|||+
T Consensus 148 DlkIfVdp~~dlr~irRI~RD~~ERGr--s~EsVi~qilrr-mPdy~~yI~PQ~~~tdInfqrvp~vdts~ 215 (290)
T PRK15453 148 DLLIGVVPIVNLEWIQKIHRDTSERGY--SREAVMDTILRR-MPDYINYITPQFSRTHINFQRVPTVDTSN 215 (290)
T ss_pred CeeEeeCCcHhHHHHHHHHhhhHhhCC--CHHHHHHHHHHh-CChHhhhCCCCcccCcEEEEeCCccCCCC
Confidence 79999999999999888877 334565 999999999999 47777777776655552 2467775
No 279
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=96.46 E-value=0.022 Score=62.98 Aligned_cols=36 Identities=33% Similarity=0.422 Sum_probs=29.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh-----CCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL-----GFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg~~yr 895 (1619)
.++.+.|.+|+||++.++.++..+ +..++|...+-+
T Consensus 19 ~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~r~ 59 (184)
T TIGR00455 19 VVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVRH 59 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHHHh
Confidence 578888999999999999999886 367888765544
No 280
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=96.44 E-value=0.0092 Score=71.44 Aligned_cols=110 Identities=15% Similarity=0.232 Sum_probs=75.0
Q ss_pred CCCCCCeEEEEEEEEecCCCeEEeecchhhhhhhh-HHHHHHHhcc--CCCcEEEEEEEEEec-CeEEEEeCCEEEEeec
Q psy14505 1210 TPFEGKTMDFKVIKLDRKRNNVVLSHRAVIEESMG-EERQKLIETL--KEGCTVKGVVKNITD-YGAFIDLGGIDGLLHI 1285 (1619)
Q Consensus 1210 ~~~vG~~v~~~Vl~vd~~~~~i~LS~k~~~~~~~~-~~~~~~~~~l--~~G~iv~g~V~~v~~-~G~~V~l~gi~g~l~~ 1285 (1619)
...+|+.+...+..-+- .+...-+.++.+..... ......++.+ +.|++++|+|.++.. .+++|++|+..|+||.
T Consensus 90 ~~~vGd~i~~~i~~~~f-gRiaaq~akq~i~Qkir~~er~~i~~ey~~~~Geiv~g~V~r~~~~~~i~vdlg~~ea~LP~ 168 (374)
T PRK12328 90 SVEIGDELTYELSLENM-GRTAANTLFKELEYHIQRLLEESIFEKYKKKVGKIVFGTVVRVDNEENTFIEIDEIRAVLPM 168 (374)
T ss_pred CCCCCCEEEEecChhhC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcEEEEEEEEEecCCCEEEEcCCeEEEeCH
Confidence 34489998775532211 11222223333322111 1222333333 689999999999987 4699999999999999
Q ss_pred cccCccccCCCccccccCCEEEEEEEEeecCCC---eEEEeeec
Q psy14505 1286 TDIAWRRVKHPSEILTIGQDISTKILKYDQEKN---RVSLGMKQ 1326 (1619)
Q Consensus 1286 sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~---~i~LSlK~ 1326 (1619)
.+.. |.+.|++|+.++|.|..++...+ .+.||+..
T Consensus 169 ~eqi------p~E~~~~Gdrik~~i~~V~~~~k~gp~IilSRt~ 206 (374)
T PRK12328 169 KNRI------KGEKFKVGDVVKAVLKRVKIDKNNGILIELSRTS 206 (374)
T ss_pred HHcC------CCCcCCCCCEEEEEEEEEecCCCCCCEEEEEcCC
Confidence 8875 66779999999999999998766 78888753
No 281
>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=96.43 E-value=0.0077 Score=69.67 Aligned_cols=151 Identities=24% Similarity=0.398 Sum_probs=82.2
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
++-+.|.+|+||++..+. -+-+||-++|- +++.-...+.+.+....-.... + -+.-+
T Consensus 3 ~vIiTGlSGaGKs~Al~~-lED~Gy~cvDN---------------lP~~Ll~~l~~~~~~~~~~~~~--~-----Ai~iD 59 (284)
T PF03668_consen 3 LVIITGLSGAGKSTALRA-LEDLGYYCVDN---------------LPPSLLPQLIELLAQSNSKIEK--V-----AIVID 59 (284)
T ss_pred EEEEeCCCcCCHHHHHHH-HHhcCeeEEcC---------------CcHHHHHHHHHHHHhcCCCCce--E-----EEEEe
Confidence 566779999999998885 59999999993 5554444444444321111110 0 00111
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVS 1020 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~ 1020 (1619)
+|+. .....+.+...++.+. | +..-+ +||+||.++-.+| |++ .++..+.+
T Consensus 60 ~R~~-------------~~~~~~~~~~~~l~~~------~--~~~~i-------lFLdA~d~~LirR-y~e-TRR~HPL~ 109 (284)
T PF03668_consen 60 IRSR-------------EFFEDLFEALDELRKK------G--IDVRI-------LFLDASDEVLIRR-YSE-TRRRHPLS 109 (284)
T ss_pred CCCh-------------HHHHHHHHHHHHHHhc------C--CceEE-------EEEECChHHHHHH-HHh-ccCCCCCC
Confidence 2221 1122222333333332 1 22222 8999999998877 777 55555443
Q ss_pred HHH-HHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1021 MSD-LLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1021 ~~~-~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
... +++.|++ ++. ..+|+....| ++||||+|++.+.-+.|.+.+
T Consensus 110 ~~~~~le~I~~-Er~----~L~~lr~~Ad-~vIDTs~l~~~~Lr~~i~~~~ 154 (284)
T PF03668_consen 110 SDGSLLEAIEK-ERE----LLEPLRERAD-LVIDTSNLSVHQLRERIRERF 154 (284)
T ss_pred CCCCcHHHHHH-HHH----HHHHHHHhCC-EEEECCCCCHHHHHHHHHHHh
Confidence 221 2222222 211 2334443333 779999999998888876543
No 282
>PRK14529 adenylate kinase; Provisional
Probab=96.43 E-value=0.0099 Score=67.40 Aligned_cols=36 Identities=44% Similarity=0.658 Sum_probs=33.2
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
.|.+-|++|+||+|.++.|+++++++++++|.+.|.
T Consensus 2 ~I~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr~ 37 (223)
T PRK14529 2 NILIFGPNGSGKGTQGALVKKKYDLAHIESGAIFRE 37 (223)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHCCCCcccchhhhh
Confidence 366779999999999999999999999999999993
No 283
>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae. Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.
Probab=96.41 E-value=0.016 Score=63.22 Aligned_cols=159 Identities=13% Similarity=0.144 Sum_probs=81.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEech--hhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDS--GALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVT 938 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dt--g~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 938 (1619)
+|-.+|++.|||+++++.|.+.+.-+|+-- +.+.+++. .+... ....+.+.. +.+..
T Consensus 3 iI~LNG~sSSGKSsia~~Lq~~~~~p~~~l~~D~f~~~~~-----~~~~~----------~~~g~~~~~------~~~~~ 61 (174)
T PF07931_consen 3 IIILNGPSSSGKSSIARALQERLPEPWLHLSVDTFVDMMP-----PGRYR----------PGDGLEPAG------DRPDG 61 (174)
T ss_dssp EEEEEE-TTSSHHHHHHHHHHHSSS-EEEEEHHHHHHHS------GGGGT----------STTSEEEET------TSEEE
T ss_pred EEEEeCCCCCCHHHHHHHHHHhCcCCeEEEecChHHhhcC-----ccccc----------CCccccccc------cCCch
Confidence 677789999999999999999999886542 23333111 00000 001111110 00000
Q ss_pred ccccccccccccccccccHHHHHHHHHHHHhhhcCC-CeEEecc--------ccCeeeecCCC-eEEEEEcCHHHHHHhc
Q psy14505 939 TLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFP-GLVADGR--------DMGTTVFPDAF-LKIFLTADIKQRTKRR 1008 (1619)
Q Consensus 939 ~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~-~~V~~GR--------d~~~~v~p~a~-~kifl~A~~e~Ra~Rr 1008 (1619)
-+..+.+.......+..+++.| ++|+|+= |+-.-+|...+ +=|-++||+++-++|-
T Consensus 62 --------------~~~~~~~~~~~~~~iaa~a~aG~~VIvD~v~~~~~~l~d~l~~~L~~~~vl~VgV~Cpleil~~RE 127 (174)
T PF07931_consen 62 --------------GPLFRRLYAAMHAAIAAMARAGNNVIVDDVFLGPRWLQDCLRRLLAGLPVLFVGVRCPLEILERRE 127 (174)
T ss_dssp ---------------HHHHHHHHHHHHHHHHHHHTT-EEEEEE--TTTHHHHHHHHHHHTTS-EEEEEEE--HHHHHHHH
T ss_pred --------------hHHHHHHHHHHHHHHHHHHhCCCCEEEecCccCcHHHHHHHHHHhCCCceEEEEEECCHHHHHHHH
Confidence 1233455555666666777665 6777752 11101232233 6688999999998882
Q ss_pred hHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1009 YKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1009 ~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
..+|... .-- . +-+.+.-+.-.+|+ +.||||.++++||++.|++.+
T Consensus 128 ----~~RgDR~-~G~--a----~~q~~~Vh~~~~YD-----leVDTs~~sp~ecA~~I~~~~ 173 (174)
T PF07931_consen 128 ----RARGDRP-IGL--A----AWQAEHVHEGGRYD-----LEVDTSATSPEECAREILARL 173 (174)
T ss_dssp ----HHHTSSS-TTH--H----HHHTTGGGTT---S-----EEEETTSS-HHHHHHHHHTT-
T ss_pred ----HhcCCcc-hHH--H----HHHHhhcccCCCCC-----EEEECCCCCHHHHHHHHHHHh
Confidence 3334321 111 1 11122222333555 999999999999999998754
No 284
>PRK14527 adenylate kinase; Provisional
Probab=96.41 E-value=0.0081 Score=66.80 Aligned_cols=37 Identities=38% Similarity=0.631 Sum_probs=34.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
.+|.+-|++|+||+|.++.+++++|+.++++|.+.|.
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~is~gd~~r~ 43 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQELGLKKLSTGDILRD 43 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCCCCccHHHHH
Confidence 4677789999999999999999999999999999983
No 285
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=96.36 E-value=0.0034 Score=64.05 Aligned_cols=34 Identities=44% Similarity=0.700 Sum_probs=30.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALY 894 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~y 894 (1619)
+|.+.|++|+||+|.++.||+++|+++++.+.++
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~~~ 34 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERLGFPVISMDDLI 34 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCeEEEecceE
Confidence 4678899999999999999999999999998854
No 286
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=96.31 E-value=0.018 Score=69.11 Aligned_cols=75 Identities=21% Similarity=0.299 Sum_probs=60.5
Q ss_pred cCCCCCeEEEEEEEEec-cEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEEEeCCC---CeEEEehHHHHHH
Q psy14505 1082 DMRSGEVISAEVIGLDR-NFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENGF---GDTILSRDKAKRL 1157 (1619)
Q Consensus 1082 ~l~~G~iv~G~V~~v~~-~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~~---~~v~LS~~~~~~~ 1157 (1619)
.-+.|+++.|+|.+++. ++++|++| +.+|+||..+.. +.+.|++|+.+.|+|..+.... ..+.||+......
T Consensus 135 ~~~~Geiv~g~V~r~~~~~~i~vdlg-~~ea~LP~~eqi---p~E~~~~Gdrik~~i~~V~~~~k~gp~IilSRt~p~~v 210 (374)
T PRK12328 135 KKKVGKIVFGTVVRVDNEENTFIEID-EIRAVLPMKNRI---KGEKFKVGDVVKAVLKRVKIDKNNGILIELSRTSPKFL 210 (374)
T ss_pred HHhcCcEEEEEEEEEecCCCEEEEcC-CeEEEeCHHHcC---CCCcCCCCCEEEEEEEEEecCCCCCCEEEEEcCCHHHH
Confidence 34689999999999996 46999998 799999998774 3456999999999999997654 4799998865444
Q ss_pred HhH
Q psy14505 1158 ASW 1160 (1619)
Q Consensus 1158 ~~~ 1160 (1619)
...
T Consensus 211 ~~L 213 (374)
T PRK12328 211 EAL 213 (374)
T ss_pred HHH
Confidence 333
No 287
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=96.29 E-value=0.025 Score=65.16 Aligned_cols=177 Identities=15% Similarity=0.153 Sum_probs=99.7
Q ss_pred EEEecCCcCCCCchhHHHHHHHhC-----CEEechhhHHH----HHHH---HHHHc--CCCC-----CcHHHHHHHHHcc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLG-----FHYLDSGALYR----LVTL---SAINN--NIQL-----DNELELVILIKKL 921 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~-----~~~~dtg~~yr----~~~~---~a~~~--~~~~-----~~~~~~~~~~~~~ 921 (1619)
+|.+.|.+|+||+|+++.+++.++ ..+++....|| .... .|.+. +++- .+.+.+.+.+..+
T Consensus 1 IIgItG~SGSGKTTv~~~l~~~l~~~g~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~~L 80 (277)
T cd02029 1 VIAVTGSSGAGTTTVKRAFEHIFAREGIHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFRTY 80 (277)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHhcCCceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHHHH
Confidence 367889999999999999987653 57888888888 1111 12222 3332 2233333333322
Q ss_pred cceec-CceEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeec------CCCeE
Q psy14505 922 NYNFL-GKEVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFP------DAFLK 994 (1619)
Q Consensus 922 ~~~~~-~~~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p------~a~~k 994 (1619)
.-.-. ...+|.-+.+ ++ ......+.-|.-- ........=+|+||= -|-+++. ..|+|
T Consensus 81 ~~g~~i~~p~Y~h~~~--~~----------~~~~~~~gtft~~---~~~~~p~dvIivEGL-hg~~~~~~~~lr~~~Dlk 144 (277)
T cd02029 81 GETGRGRSRYYLHSDE--EA----------APFNQEPGTFTPW---EDLPEDTDLLFYEGL-HGGVVTEGYNVAQHADLL 144 (277)
T ss_pred HcCCCcccceeecccc--cc----------ccccCCCCccCCc---ccccCCCcEEEECCC-CcccccccHHHHHhCCeE
Confidence 11100 0122321110 00 0000000101000 000123445788885 3334433 25799
Q ss_pred EEEEcCHHHHHHhchHH-HHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCce-----EEccCc
Q psy14505 995 IFLTADIKQRTKRRYKQ-LMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAH-----LLNTSK 1056 (1619)
Q Consensus 995 ifl~A~~e~Ra~Rr~~~-l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal-----~Idts~ 1056 (1619)
||+.++.+.|-.||..+ ..++|+ +.+.+.+++.+|= -|..+.+.|.....|.. ++|||+
T Consensus 145 IfVd~~~dlr~irRI~RD~~ERGr--s~EsVi~qilrrm-pdy~~yI~PQ~~~tDI~fqr~p~vdts~ 209 (277)
T cd02029 145 VGVVPIINLEWIQKIHRDTAERGY--SAEAVMDTILRRM-PDYINYICPQFSRTDINFQRVPTVDTSN 209 (277)
T ss_pred EEecCcHHHHHHHHHHhhhHhhCC--CHHHHHHHHHHhC-chHHhhCCcccccCcEEEeccCcccCCC
Confidence 99999999999988877 334555 9999999999987 77777788887666633 467774
No 288
>PRK00889 adenylylsulfate kinase; Provisional
Probab=96.29 E-value=0.055 Score=59.21 Aligned_cols=36 Identities=31% Similarity=0.409 Sum_probs=29.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh-----CCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL-----GFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg~~yr 895 (1619)
.+|.+.|.+|+||++.++.++..+ ++.++|++.+..
T Consensus 5 ~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~~~ 45 (175)
T PRK00889 5 VTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAVRT 45 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccHHH
Confidence 367777999999999999999888 378899876644
No 289
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=96.24 E-value=0.018 Score=59.00 Aligned_cols=39 Identities=23% Similarity=0.266 Sum_probs=24.6
Q ss_pred hhhcCCCeEEeccccCeeeecCC-CeE-EEEEcCHHHHHHhc
Q psy14505 969 KFRKFPGLVADGRDMGTTVFPDA-FLK-IFLTADIKQRTKRR 1008 (1619)
Q Consensus 969 ~~a~~~~~V~~GRd~~~~v~p~a-~~k-ifl~A~~e~Ra~Rr 1008 (1619)
.......+|++|.. .....+.. ... |||+||+++|.+|+
T Consensus 69 ~~~~~~~~iid~~~-~~~~~~~~~~~~~i~L~~~~e~~~~R~ 109 (129)
T PF13238_consen 69 RMNKGRNIIIDGIL-SNLELERLFDIKFIFLDCSPEELRKRL 109 (129)
T ss_dssp HHTTTSCEEEEESS-EEECETTEEEESSEEEE--HHHHHHHH
T ss_pred ccccCCcEEEeccc-chhcccccceeeEEEEECCHHHHHHHH
Confidence 34567889999973 32222211 134 99999999999993
No 290
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=96.24 E-value=0.018 Score=63.85 Aligned_cols=35 Identities=43% Similarity=0.644 Sum_probs=31.8
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
|.+-|++|+||++.++.||+++|++++++|.+.|.
T Consensus 2 I~i~G~pGsGKst~a~~La~~~~~~~i~~~~l~~~ 36 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKYGLPHISTGDLLRE 36 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEECcHHHHH
Confidence 45668999999999999999999999999999883
No 291
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=96.21 E-value=0.01 Score=73.30 Aligned_cols=77 Identities=19% Similarity=0.276 Sum_probs=58.9
Q ss_pred ccccceeEEEEEEEEcCC--eEEEEEcCCEEEEEeccccCccc-----------cCCCccccccCCCEEEEEEEEeeccc
Q psy14505 1338 RYPRGTRLLGKVTNLTDY--GAFVEIEKGIEGLVHISEMDWIN-----------KNVTPSKIVQLNDTVEIMILEINEER 1404 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~--G~fV~l~~gv~GlV~~sels~~~-----------~~~~~~~~~~vG~~V~vrVl~id~e~ 1404 (1619)
...+|+++.|+|.++.++ |+||+++.+-.||+|.+++.+.. ...++.+.+++||.|.|.|..--...
T Consensus 22 ~~~vGnIY~GrV~~i~p~l~aAFVdiG~~k~gfL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~G~~IlVQV~Ke~~~~ 101 (414)
T TIGR00757 22 RQLKGNIYKGRVTRILPSLQAAFVDIGLEKNGFLHASDIGPNYECLAPAEAKREAGPSISELLRPGQSVLVQVVKEPRGN 101 (414)
T ss_pred cCCCCCEEEEEEeeecCCCceEEEEcCCCceEEEEHHHcCchhhccccccccccccCCHHHhCcCCCEEEEEEeeCCcCC
Confidence 467999999999999999 99999999999999999996521 12244557999999999998743334
Q ss_pred ceEEEeeecc
Q psy14505 1405 RRISLGMKQC 1414 (1619)
Q Consensus 1405 ~ri~LSlK~~ 1414 (1619)
+.-.||..-+
T Consensus 102 Kgp~lT~~Is 111 (414)
T TIGR00757 102 KGARLTTDIS 111 (414)
T ss_pred CCCeEEEEEE
Confidence 4444555433
No 292
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=96.20 E-value=0.063 Score=57.04 Aligned_cols=45 Identities=29% Similarity=0.491 Sum_probs=35.1
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCC
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNI 906 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~ 906 (1619)
+.+.|++|+||+|.++.+++.+++.++|...+++.........|.
T Consensus 2 i~l~G~~GsGKST~a~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~ 46 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAERLGAPFIDGDDLHPPANIAKMAAGI 46 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhhcCCEEEeCcccccHHHHHHHHcCC
Confidence 456699999999999999999999999998887754432233444
No 293
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=96.19 E-value=0.061 Score=59.03 Aligned_cols=50 Identities=18% Similarity=0.341 Sum_probs=39.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDN 910 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~ 910 (1619)
++.+-|++|+||+|.++.++..++..++|...+++..+......|+...+
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~~l~~~~i~gd~~~~~~~~r~~~~g~~~~~ 54 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAALFSAKFIDGDDLHPAKNIDKMSQGIPLTD 54 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCCEEECCcccCCHhHHHHHhcCCCCCc
Confidence 46677999999999999999999999999988877554444456666554
No 294
>KOG2916|consensus
Probab=96.16 E-value=0.002 Score=71.33 Aligned_cols=80 Identities=20% Similarity=0.447 Sum_probs=72.7
Q ss_pred cCCCcEEEEEEEEEecCeEEEEe---CCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccC
Q psy14505 1254 LKEGCTVKGVVKNITDYGAFIDL---GGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGID 1330 (1619)
Q Consensus 1254 l~~G~iv~g~V~~v~~~G~~V~l---~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~ 1330 (1619)
-.++++|-+.|..|...|++|.| +++.|++-.+++|..++.++++..+||..=.|.||.+|++++.|.||.+...++
T Consensus 14 Pev~e~VmvnV~sIaemGayv~LlEYnniEGmiLlsELSrRRIRSI~klirVGr~E~vvVlrVDkekGYIDLSkrrVs~e 93 (304)
T KOG2916|consen 14 PEVEEIVMVNVRSIAEMGAYVKLLEYNNIEGMILLSELSRRRIRSIQKLIRVGRNEPVVVLRVDKEKGYIDLSKRRVSPE 93 (304)
T ss_pred CCcccEEEEEeeEehhccceEeeeecCCcccchhhhHHHHHHHHHHHHHHhcCCcceEEEEEEcCCCCceechhccCCHH
Confidence 36799999999999999999996 589999999999999999999999999999999999999999999999876655
Q ss_pred Ccc
Q psy14505 1331 PWI 1333 (1619)
Q Consensus 1331 ~~~ 1333 (1619)
...
T Consensus 94 d~~ 96 (304)
T KOG2916|consen 94 DKE 96 (304)
T ss_pred HHH
Confidence 443
No 295
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=96.08 E-value=0.024 Score=50.71 Aligned_cols=60 Identities=23% Similarity=0.341 Sum_probs=35.8
Q ss_pred CCcEEEEEEEEEecCeEEEEeCC-EEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1256 EGCTVKGVVKNITDYGAFIDLGG-IDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMK 1325 (1619)
Q Consensus 1256 ~G~iv~g~V~~v~~~G~~V~l~g-i~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK 1325 (1619)
+|++.+.+|..+.+.|+|++.++ -+-+||.+++... +++|+++.|. ++.|.+ +++..|+|
T Consensus 1 iG~~~~L~V~~~~~~g~fL~~~~~~~vlLp~~e~~~~--------~~~Gd~v~VF-vY~D~~-~rl~AT~k 61 (61)
T PF13509_consen 1 IGQINTLKVVDKNEFGYFLDDGEGKEVLLPKSEVPEP--------LKVGDEVEVF-VYLDKE-GRLVATTK 61 (61)
T ss_dssp --------EEEE-SSEEEEEETT-EEEEEEGGG--------------TTSEEEEE-EEE-TT-S-EEEE--
T ss_pred CCCCcceEEEEEeCCEEEEECCCCCEEEechHHcCCC--------CCCCCEEEEE-EEECCC-CCEEEecC
Confidence 48899999999999999999984 9999999988532 7799999995 577754 47777764
No 296
>PRK06696 uridine kinase; Validated
Probab=96.07 E-value=0.011 Score=67.41 Aligned_cols=39 Identities=31% Similarity=0.303 Sum_probs=31.7
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHh---CCEEe--chhhHHHH
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKL---GFHYL--DSGALYRL 896 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l---~~~~~--dtg~~yr~ 896 (1619)
..++|.|+|.+|+||+|.++.|++.| |.+++ .+..+|+.
T Consensus 21 ~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~~ 64 (223)
T PRK06696 21 RPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHNP 64 (223)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccCC
Confidence 45789999999999999999999998 65554 46677763
No 297
>PTZ00088 adenylate kinase 1; Provisional
Probab=96.07 E-value=0.018 Score=65.89 Aligned_cols=38 Identities=26% Similarity=0.419 Sum_probs=34.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLV 897 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~ 897 (1619)
+.|.+-|++|+||+|.++.+|+++|++++++|.++|..
T Consensus 7 mrIvl~G~PGsGK~T~a~~La~~~g~~~is~gdllr~~ 44 (229)
T PTZ00088 7 LKIVLFGAPGVGKGTFAEILSKKENLKHINMGNILREE 44 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCCcEEECChHHHHH
Confidence 34677799999999999999999999999999999943
No 298
>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=95.97 E-value=0.033 Score=53.14 Aligned_cols=72 Identities=14% Similarity=0.152 Sum_probs=60.4
Q ss_pred ccceEEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecC
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQL 1501 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~ 1501 (1619)
++||.|-|.|+.+...+++|.+.....|++|..++.. ..++....|++||.|-|+|.++|+. ....||+...
T Consensus 5 ~~gD~VIG~V~~~~~~~~~VdI~s~~~a~L~~~~f~g--atk~~rp~L~~GDlV~ArV~~~~~~-~~~eLtc~~~ 76 (86)
T cd05790 5 AKGDHVIGIVVAKAGDFFKVDIGGSEPASLSYLAFEG--ATKRNRPNLNVGDLVYARVVKANRD-MEPELSCVDS 76 (86)
T ss_pred CCCCEEEEEEEEEcCCeEEEEcCCCcceEechHHccc--ccccccccCCCCCEEEEEEEecCCC-CCeEEEEeCC
Confidence 5799999999999999999999888999999987752 1234456799999999999999965 5588888763
No 299
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=95.92 E-value=0.032 Score=49.92 Aligned_cols=61 Identities=25% Similarity=0.387 Sum_probs=36.1
Q ss_pred cceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1341 RGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1341 ~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
+|++...+|+.+.++|+|++.+.+-+-++|.+++. ..+++|++|.|.|. .|. .+++..|+|
T Consensus 1 iG~~~~L~V~~~~~~g~fL~~~~~~~vlLp~~e~~---------~~~~~Gd~v~VFvY-~D~-~~rl~AT~k 61 (61)
T PF13509_consen 1 IGQINTLKVVDKNEFGYFLDDGEGKEVLLPKSEVP---------EPLKVGDEVEVFVY-LDK-EGRLVATTK 61 (61)
T ss_dssp --------EEEE-SSEEEEEETT-EEEEEEGGG---------------TTSEEEEEEE-E-T-TS-EEEE--
T ss_pred CCCCcceEEEEEeCCEEEEECCCCCEEEechHHcC---------CCCCCCCEEEEEEE-ECC-CCCEEEecC
Confidence 48899999999999999999988899999999883 24789999999864 564 457777765
No 300
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=95.92 E-value=0.041 Score=61.35 Aligned_cols=79 Identities=22% Similarity=0.200 Sum_probs=50.2
Q ss_pred CCCeEEeccccC--eeeecCCCeEEEEEcCHHHHHHhchHHHH-hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc
Q psy14505 973 FPGLVADGRDMG--TTVFPDAFLKIFLTADIKQRTKRRYKQLM-QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA 1049 (1619)
Q Consensus 973 ~~~~V~~GRd~~--~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~-~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da 1049 (1619)
.+-+|+||=-.. .-+.+-.|++|||+++.+.|..||..+=. .+|. +.+++.+.+. +-..+..+.+.|.....|
T Consensus 107 ~~ivIvEG~~~l~~~~l~~l~D~~ifld~~~~~~l~Rri~RD~~~rG~--~~~~~~~~~~-~~~~~~~~~I~p~~~~AD- 182 (194)
T PF00485_consen 107 SDIVIVEGIYALYDEELRDLFDLKIFLDADEDLRLERRIQRDVAERGR--SPEEVIAQYE-RVRPGYERYIEPQKERAD- 182 (194)
T ss_dssp -SEEEEEETTTTSSHCHGGG-SEEEEEEE-HHHHHHHHHHHHHHHS-S---HHHHHHHHH-THHHHHHHCTGGGGGG-S-
T ss_pred CCEEEEcccceeeeeeecccceeEEEecccHHHHHHHHhhhhccccCC--cceeEEEEee-cCChhhhhheeccccccE-
Confidence 345889994211 11334468999999999999999988843 3455 8899999888 444555557888765544
Q ss_pred eEEccC
Q psy14505 1050 HLLNTS 1055 (1619)
Q Consensus 1050 l~Idts 1055 (1619)
++|++.
T Consensus 183 ivi~~~ 188 (194)
T PF00485_consen 183 IVIPSG 188 (194)
T ss_dssp EEEESC
T ss_pred EEECCC
Confidence 445654
No 301
>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=95.91 E-value=0.037 Score=52.80 Aligned_cols=72 Identities=13% Similarity=0.087 Sum_probs=60.4
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
.++||.|-|+|+.+...+++|+++....|++|.+++.- .....+..+++||.|-|||..+++. ....||+..
T Consensus 4 P~~gD~VIG~V~~~~~~~~~VdI~s~~~a~L~~~~f~g--atk~~rp~L~~GDlV~ArV~~~~~~-~~~eLtc~~ 75 (86)
T cd05790 4 PAKGDHVIGIVVAKAGDFFKVDIGGSEPASLSYLAFEG--ATKRNRPNLNVGDLVYARVVKANRD-MEPELSCVD 75 (86)
T ss_pred CCCCCEEEEEEEEEcCCeEEEEcCCCcceEechHHccc--ccccccccCCCCCEEEEEEEecCCC-CCeEEEEeC
Confidence 46899999999999999999999888999999988742 1334466799999999999999965 457888875
No 302
>PTZ00162 DNA-directed RNA polymerase II subunit 7; Provisional
Probab=95.89 E-value=0.029 Score=61.32 Aligned_cols=75 Identities=12% Similarity=0.075 Sum_probs=56.3
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCcc----cc-------CCCccccccCCCEEEEEEEEeecc--cc
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWI----NK-------NVTPSKIVQLNDTVEIMILEINEE--RR 1405 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~----~~-------~~~~~~~~~vG~~V~vrVl~id~e--~~ 1405 (1619)
...|+++.|.|++++++|+||+++ -+++|||.++|... .. ..+....+..|+.|++||..+..+ +-
T Consensus 79 Pf~gEVv~g~V~~v~~~G~~v~~G-p~~ifI~~~~l~~~~~fd~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~~~~~~~ 157 (176)
T PTZ00162 79 PFKDEVLDAIVTDVNKLGFFAQAG-PLKAFVSRSAIPPDFVYDSDSAYPCYISSDGQIQIKPNTEVRLRLQGVRYDASNL 157 (176)
T ss_pred cCCCCEEEEEEEEEecceEEEEee-CeEEEEcHHHCCCccEECCCCCcceEecCCCcEEECCCCEEEEEEEEEEecCCCc
Confidence 457999999999999999999995 77799999999411 00 112345788999999999776543 34
Q ss_pred eEEEeeecc
Q psy14505 1406 RISLGMKQC 1414 (1619)
Q Consensus 1406 ri~LSlK~~ 1414 (1619)
....|+|+-
T Consensus 158 ~~i~T~~~~ 166 (176)
T PTZ00162 158 FAIATINSD 166 (176)
T ss_pred EEEEEecCC
Confidence 566777753
No 303
>PRK12338 hypothetical protein; Provisional
Probab=95.79 E-value=0.02 Score=68.01 Aligned_cols=38 Identities=32% Similarity=0.327 Sum_probs=33.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLV 897 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~ 897 (1619)
.+|.+.|.+|+||+|.+..+|+++|+.++..+...|.+
T Consensus 5 ~ii~i~G~sGsGKST~a~~la~~l~~~~~~~tD~~r~~ 42 (319)
T PRK12338 5 YVILIGSASGIGKSTIASELARTLNIKHLIETDFIREV 42 (319)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHCCCeEEccChHHHHH
Confidence 57889999999999999999999999999666666643
No 304
>PTZ00162 DNA-directed RNA polymerase II subunit 7; Provisional
Probab=95.79 E-value=0.035 Score=60.67 Aligned_cols=73 Identities=8% Similarity=0.103 Sum_probs=56.4
Q ss_pred CCCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCcccc------------CCCccccccCCEEEEEEEEeecCC--CeE
Q psy14505 1255 KEGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWRRV------------KHPSEILTIGQDISTKILKYDQEK--NRV 1320 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~~~------------~~~~~~~~vG~~v~vrVl~vd~~~--~~i 1320 (1619)
-.|+++.|.|+++.+.|++|++|-.++|+|.+.|.+... ++-...+..|+.|++||..+.... ..+
T Consensus 80 f~gEVv~g~V~~v~~~G~~v~~Gp~~ifI~~~~l~~~~~fd~~~~~~~~~~~~~~~~i~~g~~VR~rV~~v~~~~~~~~~ 159 (176)
T PTZ00162 80 FKDEVLDAIVTDVNKLGFFAQAGPLKAFVSRSAIPPDFVYDSDSAYPCYISSDGQIQIKPNTEVRLRLQGVRYDASNLFA 159 (176)
T ss_pred CCCCEEEEEEEEEecceEEEEeeCeEEEEcHHHCCCccEECCCCCcceEecCCCcEEECCCCEEEEEEEEEEecCCCcEE
Confidence 469999999999999999999998889999999974311 111345789999999998776443 346
Q ss_pred EEeeecc
Q psy14505 1321 SLGMKQL 1327 (1619)
Q Consensus 1321 ~LSlK~~ 1327 (1619)
..|+|+.
T Consensus 160 i~T~~~~ 166 (176)
T PTZ00162 160 IATINSD 166 (176)
T ss_pred EEEecCC
Confidence 6677764
No 305
>TIGR00757 RNaseEG ribonuclease, Rne/Rng family. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome.
Probab=95.72 E-value=0.022 Score=70.41 Aligned_cols=73 Identities=19% Similarity=0.284 Sum_probs=57.5
Q ss_pred ccceEEEEEEEEEecc--eEEEeeCCCeEEEEeCCCCCCCC-----------CccccccCCCCCCEEEEEEEEeecCCCe
Q psy14505 1427 KKGEKIKGIIKSITDF--GIFIGLDGNIDGLIHLSDLSWTD-----------PGEEIIRNFKKGDEIEAIILSIDVEKER 1493 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~--GvfV~~~~~v~Glv~~sels~~~-----------~~~~~~~~f~vGq~V~~~Vl~vd~e~~r 1493 (1619)
.+|+++.|.|.++.+. |+||.++.+-.||+|.+++.+.. ...++.+.+++||.|.|+|..--...+.
T Consensus 24 ~vGnIY~GrV~~i~p~l~aAFVdiG~~k~gfL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~G~~IlVQV~Ke~~~~Kg 103 (414)
T TIGR00757 24 LKGNIYKGRVTRILPSLQAAFVDIGLEKNGFLHASDIGPNYECLAPAEAKREAGPSISELLRPGQSVLVQVVKEPRGNKG 103 (414)
T ss_pred CCCCEEEEEEeeecCCCceEEEEcCCCceEEEEHHHcCchhhccccccccccccCCHHHhCcCCCEEEEEEeeCCcCCCC
Confidence 6899999999999999 99999999999999999987421 1234556799999999999985444444
Q ss_pred EEEeee
Q psy14505 1494 ISLGIK 1499 (1619)
Q Consensus 1494 i~LSlK 1499 (1619)
-.||..
T Consensus 104 p~lT~~ 109 (414)
T TIGR00757 104 ARLTTD 109 (414)
T ss_pred CeEEEE
Confidence 444443
No 306
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=95.62 E-value=0.054 Score=65.99 Aligned_cols=75 Identities=20% Similarity=0.214 Sum_probs=60.2
Q ss_pred CCCCCeEEEEEEEEeccEEEEEeC----C-CeEEEEecccccccCCCccccCCCEEEEEEEEEeCC---CCeEEEehHHH
Q psy14505 1083 MRSGEVISAEVIGLDRNFVIINAD----L-KSEAFIPIEEFKNDNGELEVKIGDFVSVAIESLENG---FGDTILSRDKA 1154 (1619)
Q Consensus 1083 l~~G~iv~G~V~~v~~~gv~V~lg----~-~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~v~~~---~~~v~LS~~~~ 1154 (1619)
=+.|++|.|+|.+++.++++|+++ . +++|+||.++.. +.+.|++|+.++|+|..|... +..+.||+...
T Consensus 150 ~~~GeIV~G~V~r~e~~~viv~l~~~~g~~~~EaiLP~~Eqi---p~E~y~~Gdrika~i~~V~~~~~kGpqIilSRt~p 226 (449)
T PRK12329 150 DLEDTVLTARVLRFERQSVIMAVSSGFGQPEVEAELPKREQL---PNDNYRANATFKVFLKEVSEGPRRGPQLFVSRANA 226 (449)
T ss_pred HhcCcEEEEEEEEEcCCCEEEEecccCCCcceEEEecHHHcC---CCCcCCCCCEEEEEEEEeecCCCCCCEEEEEcCCH
Confidence 368999999999999999999994 3 489999998774 345699999999999999654 34799998765
Q ss_pred HHHHhH
Q psy14505 1155 KRLASW 1160 (1619)
Q Consensus 1155 ~~~~~~ 1160 (1619)
.....+
T Consensus 227 ~lv~~L 232 (449)
T PRK12329 227 GLVVYL 232 (449)
T ss_pred HHHHHH
Confidence 444333
No 307
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=95.61 E-value=0.12 Score=60.04 Aligned_cols=69 Identities=16% Similarity=0.353 Sum_probs=40.3
Q ss_pred eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHh-hhhhcccCCCCCCCCCCCceEEccCc-ccchhhhhhhhhhh
Q psy14505 993 LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIK-RDIRDKTRNLSPLKCPEQAHLLNTSK-MNINQVVNQILDCF 1070 (1619)
Q Consensus 993 ~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~-rD~~d~~r~~~~l~~~~dal~Idts~-l~ieevv~~I~~~i 1070 (1619)
.-||+.+|.+...+|. ..++...+ +++.+.+.. .+.-...+ .+ ....++||++. ++++++++.|++.+
T Consensus 98 ~~I~l~~p~e~~~~Rn----~~R~~~~~-~~~i~~l~~r~e~p~~~~---~w--d~~~~~vd~~~~~~~~ei~~~i~~~~ 167 (249)
T TIGR03574 98 IIIYLKAPLDTLLRRN----IERGEKIP-NEVIKDMYEKFDEPGTKY---SW--DLPDLTIDTTKKIDYNEILEEILEIS 167 (249)
T ss_pred EEEEecCCHHHHHHHH----HhCCCCCC-HHHHHHHHHhhCCCCCCC---Cc--cCceEEecCCCCCCHHHHHHHHHHHh
Confidence 4589999999999983 33344334 334333332 22121111 11 12348899975 68899999987654
Q ss_pred h
Q psy14505 1071 A 1071 (1619)
Q Consensus 1071 ~ 1071 (1619)
.
T Consensus 168 ~ 168 (249)
T TIGR03574 168 E 168 (249)
T ss_pred h
Confidence 3
No 308
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=95.60 E-value=0.0078 Score=66.43 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=31.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHh-CCEEechhhHHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKL-GFHYLDSGALYRL 896 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l-~~~~~dtg~~yr~ 896 (1619)
+|.+.|.+||||+|.++.+++.+ ++.++..+.+|.-
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~~~~~~~i~~Ddf~~~ 37 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRILPNCCVIHQDDFFKP 37 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCCeEEccccccCC
Confidence 36788999999999999999998 7999998888873
No 309
>TIGR02062 RNase_B exoribonuclease II. This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing.
Probab=95.58 E-value=0.027 Score=73.80 Aligned_cols=71 Identities=20% Similarity=0.223 Sum_probs=56.8
Q ss_pred ccc--eEEEEEEEEEecceEEEeeC-CCeEEEEeCCCCCC--CCCc--c-----cc--ccCCCCCCEEEEEEEEeecCCC
Q psy14505 1427 KKG--EKIKGIIKSITDFGIFIGLD-GNIDGLIHLSDLSW--TDPG--E-----EI--IRNFKKGDEIEAIILSIDVEKE 1492 (1619)
Q Consensus 1427 ~vG--~~v~G~V~~i~~~GvfV~~~-~~v~Glv~~sels~--~~~~--~-----~~--~~~f~vGq~V~~~Vl~vd~e~~ 1492 (1619)
++| +.+.|.|+.++.+|+||++. +++.|+||.+.+.. +.+. . .+ ...|+.||.|+++|.++|.+++
T Consensus 554 ~~g~~~~f~g~I~~v~~~g~~v~l~~~~~~g~v~~~~l~~~~~~~~~~~~~~~~~l~g~~~~~lgd~v~V~v~~vd~~~~ 633 (639)
T TIGR02062 554 KAAKNTRFAAEIVDISRGGMRVRLLENGAIAFIPAAFLHANREELVCNQENGTVQIKGETVYKIGDVIDVVLTEVRMETR 633 (639)
T ss_pred ccCCCcEEEEEEEeeeCCcEEEEEecCceEEEEEhhhcCCCCcceEEcccccEEEEeccEEEecCCEEEEEEEEeccccC
Confidence 455 48999999999999999994 57999999999974 2221 1 11 1259999999999999999999
Q ss_pred eEEEe
Q psy14505 1493 RISLG 1497 (1619)
Q Consensus 1493 ri~LS 1497 (1619)
+|.+.
T Consensus 634 ~i~~~ 638 (639)
T TIGR02062 634 SIIAR 638 (639)
T ss_pred cEeee
Confidence 98764
No 310
>KOG2916|consensus
Probab=95.55 E-value=0.0071 Score=67.13 Aligned_cols=75 Identities=28% Similarity=0.446 Sum_probs=69.6
Q ss_pred ccceEEEEEEEEEecceEEEee--CCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGL--DGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~--~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
.++++|-+.|.+|.+-|++|.+ ++++.|++-.|+|| ...+....+..+||..=-|.|+.||.+++-|.||.+...
T Consensus 15 ev~e~VmvnV~sIaemGayv~LlEYnniEGmiLlsELS-rRRIRSI~klirVGr~E~vvVlrVDkekGYIDLSkrrVs 91 (304)
T KOG2916|consen 15 EVEEIVMVNVRSIAEMGAYVKLLEYNNIEGMILLSELS-RRRIRSIQKLIRVGRNEPVVVLRVDKEKGYIDLSKRRVS 91 (304)
T ss_pred CcccEEEEEeeEehhccceEeeeecCCcccchhhhHHH-HHHHHHHHHHHhcCCcceEEEEEEcCCCCceechhccCC
Confidence 4599999999999999999998 46999999999999 588889999999999999999999999999999998764
No 311
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=95.54 E-value=0.074 Score=59.98 Aligned_cols=185 Identities=18% Similarity=0.159 Sum_probs=91.8
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC---CEEechhhHHHHHHH--HHHHcCCCCCcHHH-----HHHHHHcccceecCc
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG---FHYLDSGALYRLVTL--SAINNNIQLDNELE-----LVILIKKLNYNFLGK 928 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~---~~~~dtg~~yr~~~~--~a~~~~~~~~~~~~-----~~~~~~~~~~~~~~~ 928 (1619)
..+|.+.|++|+||+|.++.++..++ +.++..+..|..... .+...+.....+.. +.+.+..+
T Consensus 6 g~vi~I~G~sGsGKSTl~~~l~~~l~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l------- 78 (207)
T TIGR00235 6 GIIIGIGGGSGSGKTTVARKIYEQLGKLEIVIISQDNYYKDQSHLEMAERKKTNFDHPDAFDNDLLYEHLKNL------- 78 (207)
T ss_pred eEEEEEECCCCCCHHHHHHHHHHHhcccCCeEecccccccChhhCCHHHhcCCCCCCccHhHHHHHHHHHHHH-------
Confidence 46789999999999999999998775 566666555432111 11223332222211 11111111
Q ss_pred eEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC--eeeecCCCeEEEEEcCHHHHHH
Q psy14505 929 EVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG--TTVFPDAFLKIFLTADIKQRTK 1006 (1619)
Q Consensus 929 ~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~--~~v~p~a~~kifl~A~~e~Ra~ 1006 (1619)
.+|+.+.-. ..+...... ..+. ..+....-+|+||=-.- ..+.+..++.|||+|+.+.|.+
T Consensus 79 ---~~g~~v~~p----~yd~~~~~~-~~~~---------~~~~~~~~vIieG~~~~~~~~~~~~~d~~I~v~~~~~~~l~ 141 (207)
T TIGR00235 79 ---KNGSPIDVP----VYDYVNHTR-PKET---------VHIEPKDVVILEGIMPLFDERLRDLMDLKIFVDTPLDIRLI 141 (207)
T ss_pred ---HCCCCEecc----cceeecCCC-CCce---------EEeCCCCEEEEEehhhhchHhHHHhCCEEEEEECChhHHHH
Confidence 011111000 000000000 0000 01223456888984221 1122246799999999999999
Q ss_pred hchHHHHh-cCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1007 RRYKQLMQ-KGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1007 Rr~~~l~~-~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
||..+-.. +| .+.+++.+....+++......+.|.....| ++|++.. .-|..++.+...++
T Consensus 142 R~~~R~~~~rg--~~~~~~~~~~~~~~~~~~~~~i~~~~~~Ad-~vi~~~~-~~~~~~~~~~~~~~ 203 (207)
T TIGR00235 142 RRIERDINERG--RSLDSVIDQYRKTVRPMYEQFVEPTKQYAD-LIIPEGG-RNEVAINVLDTKIK 203 (207)
T ss_pred HHHHHHHHhhC--CCHHHHHHHHHHhhhhhHHHhCcccccccE-EEEcCCC-CchHHHHHHHHHHH
Confidence 98766322 33 356666665544433333223445554443 5566644 45555555544444
No 312
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=95.51 E-value=0.04 Score=58.81 Aligned_cols=32 Identities=34% Similarity=0.432 Sum_probs=26.5
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh-----CCEEechh
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL-----GFHYLDSG 891 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg 891 (1619)
.+|-+.|.+|+||+|+++.+.++| ...++|.+
T Consensus 3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD 39 (156)
T PF01583_consen 3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGD 39 (156)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHH
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCc
Confidence 467778999999999999999888 47788864
No 313
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=95.47 E-value=0.073 Score=56.73 Aligned_cols=32 Identities=41% Similarity=0.626 Sum_probs=30.1
Q ss_pred CCcCCCCchhHHHHHHHhCCEEechhhHHHHH
Q psy14505 866 GPTASGKGTVAQLVASKLGFHYLDSGALYRLV 897 (1619)
Q Consensus 866 g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~ 897 (1619)
|++||||++.++.+|+++|+.+++.|.+-|..
T Consensus 3 G~PgsGK~t~~~~la~~~~~~~is~~~llr~~ 34 (151)
T PF00406_consen 3 GPPGSGKGTQAKRLAKRYGLVHISVGDLLREE 34 (151)
T ss_dssp ESTTSSHHHHHHHHHHHHTSEEEEHHHHHHHH
T ss_pred CCCCCChHHHHHHHHHhcCcceechHHHHHHH
Confidence 78999999999999999999999999999943
No 314
>KOG1856|consensus
Probab=95.47 E-value=0.013 Score=76.69 Aligned_cols=76 Identities=18% Similarity=0.274 Sum_probs=67.5
Q ss_pred cccceEEEEEEEEEecce---EEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc
Q psy14505 1426 HKKGEKIKGIIKSITDFG---IFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE 1502 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~G---vfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~ 1502 (1619)
+.+|.+|.+.|++++.-- |-|.+.+|++|+|+.+++| +..+.+|...+++||.|.|+|+++|.++=.+.||++.+.
T Consensus 983 ~~~g~iV~~~V~~vt~rr~~Cv~v~ld~G~~g~i~~~~~S-d~~v~~p~~~v~vgq~v~~kvi~id~e~f~v~Ls~r~sd 1061 (1299)
T KOG1856|consen 983 FYEGAIVPVTVTKVTHRRGICVRVRLDCGVTGFILAKNLS-DRDVRRPENRVKVGQTVYCKVIKIDKERFSVELSCRTSD 1061 (1299)
T ss_pred hccCceEEEeeeEEEecccceeEEEecCCCceeeeccccC-hhhccCHHHhhccCceEEEEeeeeeHhhhhhhhhhhhHH
Confidence 467889999999998664 5789999999999999999 577889999999999999999999999999999998763
No 315
>PRK05054 exoribonuclease II; Provisional
Probab=95.42 E-value=0.039 Score=72.41 Aligned_cols=65 Identities=22% Similarity=0.207 Sum_probs=55.9
Q ss_pred CCeEEEEEEEEecCceEEEEecC-CeEEEEEccccccc---------c-------ccCcCCCCEEEEEEEEEeCCCCEEE
Q psy14505 1516 GSLVNGIIKSIDTNKGAIIQLSN-EVEGYLRISEEDNK---------H-------EKKLKIGENIDVLTVLIDHKTRYIQ 1578 (1619)
Q Consensus 1516 G~~v~g~V~~i~~~~G~~V~l~~-gv~G~i~~~~~~~~---------~-------~~~~~~Gq~V~~~Vl~vd~~~k~i~ 1578 (1619)
|+...|.|+.+. ++|+||++.+ +++|+||.+.+.+. . ...|+.||.|+++|.++|..+++|.
T Consensus 562 ~~~f~g~I~~v~-~~G~fV~l~~~~veglV~~~~l~~~~~~y~~~~~~~~~~~~~~~~~~lGd~V~V~v~~vd~~~~~i~ 640 (644)
T PRK05054 562 DTRFAAEIIDIS-RGGMRVRLLENGAVAFIPASFLHAVRDELVCNQENGTVQIKGETVYKLGDVIDVTLAEVRMETRSII 640 (644)
T ss_pred CeEEEEEEEeee-cCcEEEEEeCCceEEEEEccccCCCccceEEccccceEEEeCCEEEcCCCEEEEEEEEEccccCeEE
Confidence 459999999995 9999999987 79999999887431 0 1469999999999999999999998
Q ss_pred Eee
Q psy14505 1579 LSF 1581 (1619)
Q Consensus 1579 lSl 1581 (1619)
+.+
T Consensus 641 ~~~ 643 (644)
T PRK05054 641 ARP 643 (644)
T ss_pred EEE
Confidence 865
No 316
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=95.39 E-value=0.12 Score=55.78 Aligned_cols=86 Identities=19% Similarity=0.178 Sum_probs=61.7
Q ss_pred CeEEEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcC----------CEEEEEeccccCccccCCCccccc
Q psy14505 1318 NRVSLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEK----------GIEGLVHISEMDWINKNVTPSKIV 1387 (1619)
Q Consensus 1318 ~~i~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~----------gv~GlV~~sels~~~~~~~~~~~~ 1387 (1619)
+....|.++... ...-+++|++|-|.|+++....+.|++.. ...|-+|+|+.+. ....+..+.|
T Consensus 46 ~n~~~~V~p~~~-----~~~~~K~GdiV~grV~~v~~~~a~V~i~~ve~~~r~~~~~~~~~ihvs~~~~-~~~~~~~d~f 119 (188)
T COG1096 46 KNRVISVKPGKK-----TPPLPKGGDIVYGRVTDVREQRALVRIVGVEGKERELATSGAADIHVSQVRD-GYVEKLSDAF 119 (188)
T ss_pred cceEEEeccCCC-----CCCCCCCCCEEEEEEeeccceEEEEEEEEEecccccCCCCceeeEEEEeccc-cccccccccc
Confidence 334455554433 23348899999999999999999888752 2456778888865 4566778888
Q ss_pred cCCCEEEEEEEEeecccceEEEeee
Q psy14505 1388 QLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1388 ~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
++||-|+++|++.- ..+.||.+
T Consensus 120 ~~GDivrA~Vis~~---~~~~Lst~ 141 (188)
T COG1096 120 RIGDIVRARVISTG---DPIQLSTK 141 (188)
T ss_pred ccccEEEEEEEecC---CCeEEEec
Confidence 89999999888764 34666665
No 317
>KOG1856|consensus
Probab=95.38 E-value=0.017 Score=75.64 Aligned_cols=78 Identities=27% Similarity=0.448 Sum_probs=68.6
Q ss_pred HhccCCCcEEEEEEEEEecCe---EEEEeC-CEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1251 IETLKEGCTVKGVVKNITDYG---AFIDLG-GIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQ 1326 (1619)
Q Consensus 1251 ~~~l~~G~iv~g~V~~v~~~G---~~V~l~-gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~ 1326 (1619)
-+++..|.+|.|+|++|...- +-|.+. |++||||..++|+..+.+|...+++||.+.|+|+++|.++=.+.||++.
T Consensus 980 ~et~~~g~iV~~~V~~vt~rr~~Cv~v~ld~G~~g~i~~~~~Sd~~v~~p~~~v~vgq~v~~kvi~id~e~f~v~Ls~r~ 1059 (1299)
T KOG1856|consen 980 PETFYEGAIVPVTVTKVTHRRGICVRVRLDCGVTGFILAKNLSDRDVRRPENRVKVGQTVYCKVIKIDKERFSVELSCRT 1059 (1299)
T ss_pred hhHhccCceEEEeeeEEEecccceeEEEecCCCceeeeccccChhhccCHHHhhccCceEEEEeeeeeHhhhhhhhhhhh
Confidence 456889999999999998653 456675 9999999999999889999999999999999999999988888899887
Q ss_pred cc
Q psy14505 1327 LG 1328 (1619)
Q Consensus 1327 ~~ 1328 (1619)
+.
T Consensus 1060 sd 1061 (1299)
T KOG1856|consen 1060 SD 1061 (1299)
T ss_pred HH
Confidence 64
No 318
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=95.34 E-value=0.3 Score=59.76 Aligned_cols=108 Identities=12% Similarity=0.145 Sum_probs=69.6
Q ss_pred cccCCCEEEEEEEEEeCCCCeEEEe-hHH----HHHHHhHHHHHHHc--cCCCEEEEEEEEEEeCeEEEEe----CC--E
Q psy14505 1126 EVKIGDFVSVAIESLENGFGDTILS-RDK----AKRLASWLSLEKAM--ESGEIITGTINGKVKGGLTVLT----NG--L 1192 (1619)
Q Consensus 1126 ~~kvG~~v~~~V~~v~~~~~~v~LS-~~~----~~~~~~~~~~~~~l--~~G~~v~g~V~~v~~~Gl~V~~----gg--~ 1192 (1619)
.+++|+.+...|.....+.|++... .++ .........+.+.+ +.|++++|+|.++..++++|++ |. +
T Consensus 102 ~~~iGD~v~~~v~~~~~~fgRiAAq~aKQvi~Qkire~ER~~i~~ef~~~~GeIV~G~V~r~e~~~viv~l~~~~g~~~~ 181 (449)
T PRK12329 102 EAQLGDTVVLDVTPEQEDFGRMAAIQTKQVLAQKLRDQQRKMIQEEFQDLEDTVLTARVLRFERQSVIMAVSSGFGQPEV 181 (449)
T ss_pred CCcCCCEEEEecCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcEEEEEEEEEcCCCEEEEecccCCCcce
Confidence 5899999987663211222333221 111 11111222233333 4699999999999999999977 43 8
Q ss_pred EEEEcCcccccCCCCCCCCCCCCeEEEEEEEEecCC---CeEEeecch
Q psy14505 1193 KAFLPGSLVDIRPVKDTTPFEGKTMDFKVIKLDRKR---NNVVLSHRA 1237 (1619)
Q Consensus 1193 ~gflp~s~~~~~~~~~~~~~vG~~v~~~Vl~vd~~~---~~i~LS~k~ 1237 (1619)
.|+||.++.- ....+..|+.++|.|..|.... -.|.||+..
T Consensus 182 EaiLP~~Eqi----p~E~y~~Gdrika~i~~V~~~~~kGpqIilSRt~ 225 (449)
T PRK12329 182 EAELPKREQL----PNDNYRANATFKVFLKEVSEGPRRGPQLFVSRAN 225 (449)
T ss_pred EEEecHHHcC----CCCcCCCCCEEEEEEEEeecCCCCCCEEEEEcCC
Confidence 9999976432 2334559999999999997653 379999853
No 319
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=95.30 E-value=0.056 Score=61.07 Aligned_cols=154 Identities=20% Similarity=0.345 Sum_probs=88.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
+|.+.|.+|+||++..+. -+-+||-++|. +++.-..++.++.....-... .+ -|.-+
T Consensus 3 lvIVTGlSGAGKsvAl~~-lEDlGyycvDN---------------LPp~Llp~~~~~~~~~~~~~~--kv-----Av~iD 59 (286)
T COG1660 3 LVIVTGLSGAGKSVALRV-LEDLGYYCVDN---------------LPPQLLPKLADLMLTLESRIT--KV-----AVVID 59 (286)
T ss_pred EEEEecCCCCcHHHHHHH-HHhcCeeeecC---------------CCHHHHHHHHHHHhhcccCCc--eE-----EEEEe
Confidence 566779999999887775 59999999993 555444444442221111100 00 01112
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCC
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVS 1020 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~ 1020 (1619)
||+- +.+..+.+..-++...++ +..-| +||.|+.++-.+| |++ .++..+.+
T Consensus 60 iRs~-------------~~~~~l~~~l~~l~~~~~-------~~~~i-------LFLeA~~~~Lv~R-Y~e-tRR~HPL~ 110 (286)
T COG1660 60 VRSR-------------EFFGDLEEVLDELKDNGD-------IDPRV-------LFLEADDETLVRR-YSE-TRRSHPLS 110 (286)
T ss_pred cccc-------------hhHHHHHHHHHHHHhcCC-------CCceE-------EEEECchhHHHHH-Hhh-hhhcCCCC
Confidence 3331 222233333334443311 11112 6999999999887 887 66666666
Q ss_pred HHH-HHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhh
Q psy14505 1021 MSD-LLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFAT 1072 (1619)
Q Consensus 1021 ~~~-~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ 1072 (1619)
... +++.|.+ ++. -.+|++...| ++||||.|++-+.-+.|...+..
T Consensus 111 ~~~~l~~~I~~-ERe----lL~pLk~~A~-~vIDTs~ls~~~Lr~~i~~~f~~ 157 (286)
T COG1660 111 EDGLLLEAIAK-ERE----LLAPLREIAD-LVIDTSELSVHELRERIRTRFLG 157 (286)
T ss_pred ccCcHHHHHHH-HHH----HHHHHHHHhh-hEeecccCCHHHHHHHHHHHHcc
Confidence 554 3333322 211 3567764333 67999999999998888766554
No 320
>PRK07261 topology modulation protein; Provisional
Probab=95.27 E-value=0.027 Score=61.55 Aligned_cols=97 Identities=22% Similarity=0.162 Sum_probs=65.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.|.+-|++|+||+|.++.+++.+|+++++.+.++- ..+....
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~-------~~~~~~~------------------------------- 43 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF-------QPNWQER------------------------------- 43 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe-------ccccccC-------------------------------
Confidence 46777999999999999999999999998765532 1111000
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC---eeeecCCCeEEEEEcCHHHHHHhchHHHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG---TTVFPDAFLKIFLTADIKQRTKRRYKQLM 1013 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~---~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~ 1013 (1619)
..++ +.+.+.++...+..||||--.. ...++.|+..|||+.|.+.+..|..++-.
T Consensus 44 --------------~~~~----~~~~~~~~~~~~~wIidg~~~~~~~~~~l~~ad~vI~Ld~p~~~~~~R~lkR~~ 101 (171)
T PRK07261 44 --------------DDDD----MIADISNFLLKHDWIIDGNYSWCLYEERMQEADQIIFLNFSRFNCLYRAFKRYL 101 (171)
T ss_pred --------------CHHH----HHHHHHHHHhCCCEEEcCcchhhhHHHHHHHCCEEEEEcCCHHHHHHHHHHHHH
Confidence 0011 1122223334456999997433 23455799999999999999999776643
No 321
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=95.10 E-value=0.046 Score=51.67 Aligned_cols=61 Identities=18% Similarity=0.333 Sum_probs=34.8
Q ss_pred ccceEEEEEEEEEecceEEEee------------------CCCeEEEEeCCCCCCCCC-ccccccCCCCCCEEEEEEEEe
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGL------------------DGNIDGLIHLSDLSWTDP-GEEIIRNFKKGDEIEAIILSI 1487 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~------------------~~~v~Glv~~sels~~~~-~~~~~~~f~vGq~V~~~Vl~v 1487 (1619)
++|++|.|.|+++++.-+.+++ .....|+++++++...+. .-++.+.|++||.|+|+|++.
T Consensus 3 ~vGdiV~~rVtrv~~~~a~v~Il~v~~~~~~~~~~~~~~l~~~f~GiIR~~DVR~te~Dkv~~~~~FrpGDIVrA~ViSl 82 (82)
T PF10447_consen 3 KVGDIVIARVTRVNPRQAKVEILCVEGKGNDSINAGDRPLKEPFQGIIRKQDVRATEKDKVKMYDCFRPGDIVRARVISL 82 (82)
T ss_dssp -TT-EEEEEEEEE-SSEEEEEEEES----------SSS----SS-S-EEEEGGGT-SS----GGGT--SSSEEEEEEEEE
T ss_pred CCCCEEEEEEEEEeccEEEEEEEEEEeccccccccCCcccccccEEEEEeeeecccccchhhHHhccCCCCEEEEEEeeC
Confidence 3566666666666665554443 235789999999874332 124688999999999999974
No 322
>COG0557 VacB Exoribonuclease R [Transcription]
Probab=94.96 E-value=0.052 Score=72.30 Aligned_cols=72 Identities=29% Similarity=0.647 Sum_probs=61.8
Q ss_pred ccceEEEEEEEEEecceEEEeeCCC-eEEEEeCCCCCCCC----------CccccccCCCCCCEEEEEEEEeecCCCeEE
Q psy14505 1427 KKGEKIKGIIKSITDFGIFIGLDGN-IDGLIHLSDLSWTD----------PGEEIIRNFKKGDEIEAIILSIDVEKERIS 1495 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~GvfV~~~~~-v~Glv~~sels~~~----------~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~ 1495 (1619)
.+|+...|+|++++.+|+||.+++. ++|+||.+.+..+. ..+.....|+.||.|+++|.+++...+++.
T Consensus 621 ~vg~~f~g~V~~v~~~g~~V~l~~~~ieglV~~s~L~~d~y~~~~~~~~l~~~~~~~~~~lgd~v~v~v~~v~~~~~~i~ 700 (706)
T COG0557 621 RVGEEFDGVVTGVTSFGFFVELPELGLEGLVHISSLPDDYYHFDERGQALVGEKSGKVYRLGDEVKVKVTSVDLDERKID 700 (706)
T ss_pred hcCCEEEEEEEEEEeccEEEEecccccccceEcccCCCceeeeccccceeeccccccccccCCEEEEEEEEEcccccceE
Confidence 6899999999999999999999884 99999999998421 222334579999999999999999999998
Q ss_pred Eee
Q psy14505 1496 LGI 1498 (1619)
Q Consensus 1496 LSl 1498 (1619)
+++
T Consensus 701 ~~~ 703 (706)
T COG0557 701 FEL 703 (706)
T ss_pred EEe
Confidence 876
No 323
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=94.94 E-value=0.077 Score=58.22 Aligned_cols=86 Identities=16% Similarity=0.173 Sum_probs=48.1
Q ss_pred hcCCCeEEeccccC----eeeecCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCC
Q psy14505 971 RKFPGLVADGRDMG----TTVFPDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCP 1046 (1619)
Q Consensus 971 a~~~~~V~~GRd~~----~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~ 1046 (1619)
+....||++|--.. .-.++ ..+-|||++|++...+| +..+...+.+.+.+.+. |.... .. ..
T Consensus 88 ~~g~~vv~~g~~~~~~~~~~~~~-~~~~i~l~~~~~~~~~R-----l~~R~~~~~~~~~~rl~-~~~~~---~~----~~ 153 (179)
T TIGR02322 88 EAGDVVVVNGSRAVLPEARQRYP-NLLVVNITASPDVLAQR-----LAARGRESREEIEERLA-RSARF---AA----AP 153 (179)
T ss_pred hcCCEEEEECCHHHHHHHHHHCC-CcEEEEEECCHHHHHHH-----HHHcCCCCHHHHHHHHH-HHhhc---cc----cc
Confidence 45556777773111 00122 23679999999999999 32233335555555442 22211 11 12
Q ss_pred CCceEEccCcccchhhhhhhhhhhh
Q psy14505 1047 EQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1047 ~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
.|.++||++ .+++++++.|.+++.
T Consensus 154 ~~~~vi~~~-~~~ee~~~~i~~~l~ 177 (179)
T TIGR02322 154 ADVTTIDNS-GSLEVAGETLLRLLR 177 (179)
T ss_pred CCEEEEeCC-CCHHHHHHHHHHHHc
Confidence 244546665 599999999987653
No 324
>PF10447 EXOSC1: Exosome component EXOSC1/CSL4; InterPro: IPR019495 The exosome mediates degradation of unstable mRNAs that contain AU-rich elements (AREs) within their 3' untranslated regions []. The proteins in this entry are components of the exosome 3'->5' exoribonuclease complex. They do not have exonuclease activity, but are required for the 3'-processing of the 7S pre-RNA to the mature 5.8S rRNA and for mRNA decay [, ].; PDB: 2NN6_I.
Probab=94.85 E-value=0.067 Score=50.57 Aligned_cols=61 Identities=20% Similarity=0.318 Sum_probs=34.9
Q ss_pred ccceeEEEEEEEEcCCeEEEEE------------------cCCEEEEEeccccCccccC-CCccccccCCCEEEEEEEEe
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEI------------------EKGIEGLVHISEMDWINKN-VTPSKIVQLNDTVEIMILEI 1400 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l------------------~~gv~GlV~~sels~~~~~-~~~~~~~~vG~~V~vrVl~i 1400 (1619)
++|++|.|+|+++++.-+++++ .+.+.|.++.+++-.++.- ..+.+.|++||-|+|+|++.
T Consensus 3 ~vGdiV~~rVtrv~~~~a~v~Il~v~~~~~~~~~~~~~~l~~~f~GiIR~~DVR~te~Dkv~~~~~FrpGDIVrA~ViSl 82 (82)
T PF10447_consen 3 KVGDIVIARVTRVNPRQAKVEILCVEGKGNDSINAGDRPLKEPFQGIIRKQDVRATEKDKVKMYDCFRPGDIVRARVISL 82 (82)
T ss_dssp -TT-EEEEEEEEE-SSEEEEEEEES----------SSS----SS-S-EEEEGGGT-SS----GGGT--SSSEEEEEEEEE
T ss_pred CCCCEEEEEEEEEeccEEEEEEEEEEeccccccccCCcccccccEEEEEeeeecccccchhhHHhccCCCCEEEEEEeeC
Confidence 4566666666666666555543 2367899999998432322 24688999999999999874
No 325
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=94.85 E-value=0.33 Score=54.29 Aligned_cols=40 Identities=20% Similarity=0.248 Sum_probs=36.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTL 899 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~ 899 (1619)
.+|.+.|.+|+||++.++.+++++|+.++-+|.+.|....
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~~~~~~~~~~~D~~r~~~r 43 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIARHRAIDIVLSGDYLREFLR 43 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcCCeEEehhHHHHHHHH
Confidence 4678889999999999999999999999999999996655
No 326
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=94.78 E-value=0.17 Score=54.60 Aligned_cols=88 Identities=19% Similarity=0.311 Sum_probs=67.4
Q ss_pred cceEEEeeecccCCCCcccccccccceEEEEEEEEEecceEEEeeCC----------CeEEEEeCCCCCCCCCccccccC
Q psy14505 1404 RRRISLGMKQCKDNPWENFSIIHKKGEKIKGIIKSITDFGIFIGLDG----------NIDGLIHLSDLSWTDPGEEIIRN 1473 (1619)
Q Consensus 1404 ~~ri~LSlK~~~~~~~~~~~~~~~vG~~v~G~V~~i~~~GvfV~~~~----------~v~Glv~~sels~~~~~~~~~~~ 1473 (1619)
.+....+.++- .......++|++|-|.|+.+....+.|++.. .-.|-+|.|+.+ +.+..+.++.
T Consensus 45 ~~n~~~~V~p~-----~~~~~~~K~GdiV~grV~~v~~~~a~V~i~~ve~~~r~~~~~~~~~ihvs~~~-~~~~~~~~d~ 118 (188)
T COG1096 45 DKNRVISVKPG-----KKTPPLPKGGDIVYGRVTDVREQRALVRIVGVEGKERELATSGAADIHVSQVR-DGYVEKLSDA 118 (188)
T ss_pred ccceEEEeccC-----CCCCCCCCCCCEEEEEEeeccceEEEEEEEEEecccccCCCCceeeEEEEecc-cccccccccc
Confidence 44455555543 3333445889999999999999999998843 255678999998 6788899999
Q ss_pred CCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1474 FKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1474 f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
|++||.|+|+|++.- -.+.||.+.
T Consensus 119 f~~GDivrA~Vis~~---~~~~Lst~~ 142 (188)
T COG1096 119 FRIGDIVRARVISTG---DPIQLSTKG 142 (188)
T ss_pred cccccEEEEEEEecC---CCeEEEecC
Confidence 999999999999884 467777755
No 327
>TIGR02062 RNase_B exoribonuclease II. This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing.
Probab=94.77 E-value=0.068 Score=70.09 Aligned_cols=71 Identities=17% Similarity=0.302 Sum_probs=55.8
Q ss_pred ccc--eeEEEEEEEEcCCeEEEEE-cCCEEEEEeccccCc--ccc--CC-----Cc--cccccCCCEEEEEEEEeecccc
Q psy14505 1340 PRG--TRLLGKVTNLTDYGAFVEI-EKGIEGLVHISEMDW--INK--NV-----TP--SKIVQLNDTVEIMILEINEERR 1405 (1619)
Q Consensus 1340 ~~G--~iv~g~V~~v~~~G~fV~l-~~gv~GlV~~sels~--~~~--~~-----~~--~~~~~vG~~V~vrVl~id~e~~ 1405 (1619)
++| ..+.|.|+.+.++|+||++ ..+++|+||.+.|.. ... .. .. ...|+.||.|+++|.++|.+++
T Consensus 554 ~~g~~~~f~g~I~~v~~~g~~v~l~~~~~~g~v~~~~l~~~~~~~~~~~~~~~~~l~g~~~~~lgd~v~V~v~~vd~~~~ 633 (639)
T TIGR02062 554 KAAKNTRFAAEIVDISRGGMRVRLLENGAIAFIPAAFLHANREELVCNQENGTVQIKGETVYKIGDVIDVVLTEVRMETR 633 (639)
T ss_pred ccCCCcEEEEEEEeeeCCcEEEEEecCceEEEEEhhhcCCCCcceEEcccccEEEEeccEEEecCCEEEEEEEEeccccC
Confidence 454 5899999999999999999 557999999999943 111 01 01 1369999999999999999998
Q ss_pred eEEEe
Q psy14505 1406 RISLG 1410 (1619)
Q Consensus 1406 ri~LS 1410 (1619)
+|.+.
T Consensus 634 ~i~~~ 638 (639)
T TIGR02062 634 SIIAR 638 (639)
T ss_pred cEeee
Confidence 88763
No 328
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=94.75 E-value=0.36 Score=51.39 Aligned_cols=165 Identities=16% Similarity=0.226 Sum_probs=97.8
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHh-CCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccc
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKL-GFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNV 937 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l-~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 937 (1619)
.+++.+.|-+|.||+|+.+...+.+ ++++++-|.+--. .|.+.|+... -
T Consensus 4 ~kvvvitGVpGvGKTTVl~~~~~~l~~~~ivNyG~~Mle---~A~k~glve~-r-------------------------- 53 (189)
T COG2019 4 RKVVVITGVPGVGKTTVLKIALKELVKHKIVNYGDLMLE---IAKKKGLVEH-R-------------------------- 53 (189)
T ss_pred ceEEEEEcCCCCChHHHHHHHHHHHhhceeeeHhHHHHH---HHHHhCCccc-H--------------------------
Confidence 3567788999999999999999999 9999998876443 5558887432 0
Q ss_pred cccccccccccccccccccHHHHHHHHHHHHhhhcCCC-eEEecccc-----Ce-eeec-------CCCeEEEEEcCHHH
Q psy14505 938 TTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPG-LVADGRDM-----GT-TVFP-------DAFLKIFLTADIKQ 1003 (1619)
Q Consensus 938 ~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~-~V~~GRd~-----~~-~v~p-------~a~~kifl~A~~e~ 1003 (1619)
++||.. ..+.-++.|....+.+++... +|+|+++. |+ --+| +.++-|.|.|||++
T Consensus 54 -D~~Rkl----------p~e~Q~~lq~~Aa~rI~~~~~~iivDtH~~IkTP~GylpgLP~~Vl~~l~pd~ivllEaDp~~ 122 (189)
T COG2019 54 -DEMRKL----------PLENQRELQAEAAKRIAEMALEIIVDTHATIKTPAGYLPGLPSWVLEELNPDVIVLLEADPEE 122 (189)
T ss_pred -HHHhcC----------CHHHHHHHHHHHHHHHHHhhhceEEeccceecCCCccCCCCcHHHHHhcCCCEEEEEeCCHHH
Confidence 112210 011223333444445555555 99999852 11 1123 24578889999999
Q ss_pred HHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCC----CCCCCCCCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1004 RTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRN----LSPLKCPEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1004 Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~----~~~l~~~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
-+.||.+.-.+.+.-.+.+++.+- ++.+|. .+-+..+ -.-+|..-.-.+|+.+..|+..+.
T Consensus 123 Il~RR~~D~~r~Rd~es~e~i~eH------qe~nR~aA~a~A~~~ga-tVkIV~n~~~~~e~Aa~eiv~~l~ 187 (189)
T COG2019 123 ILERRLRDSRRDRDVESVEEIREH------QEMNRAAAMAYAILLGA-TVKIVENHEGDPEEAAEEIVELLD 187 (189)
T ss_pred HHHHHhcccccccccccHHHHHHH------HHHHHHHHHHHHHHhCC-eEEEEeCCCCCHHHHHHHHHHHHh
Confidence 999998874444443455555442 344442 1111111 113444445577777777766543
No 329
>cd05700 S1_Rrp5_repeat_hs9 S1_Rrp5_repeat_hs9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes Homo sapiens S1 repeat 9 (hs9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=94.72 E-value=0.12 Score=44.65 Aligned_cols=65 Identities=12% Similarity=0.319 Sum_probs=50.2
Q ss_pred CCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccccCcCCCCEEEEEEEEEeCCCCEEEEee
Q psy14505 1516 GSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGENIDVLTVLIDHKTRYIQLSF 1581 (1619)
Q Consensus 1516 G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd~~~k~i~lSl 1581 (1619)
|+..+-.|.++. +.|-.+...+.+.|+.-...-......++.+||++++.|+.+|.-+-++.+||
T Consensus 1 G~~L~LvV~~~~-edgsv~fs~g~v~g~tv~AtryH~~g~nl~pGqK~kaviLhvD~l~~~VhVSl 65 (65)
T cd05700 1 GDQLKLVVQDVT-EDGSVMFSGGQVSGLTVLASRYHKEGVNVTPGCKLKAVILHVDFVKSQVHVSL 65 (65)
T ss_pred CceEEEEEeeec-cCCcEEEecCCcCCcEEEEEEEEecceecCCCceeEEEEEEEeeEEeEEEEeC
Confidence 677888888885 66666666666777755443333445889999999999999999999999886
No 330
>PLN02842 nucleotide kinase
Probab=94.64 E-value=0.14 Score=64.44 Aligned_cols=172 Identities=17% Similarity=0.171 Sum_probs=92.2
Q ss_pred ecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccccc
Q psy14505 864 IDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLIRN 943 (1619)
Q Consensus 864 i~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ir~ 943 (1619)
+-|++||||+|.++.+++++|+.|+++|.+.|.. ...+= +.-..+.+.+. +|+-+
T Consensus 2 I~G~PGSGKSTqa~~Lak~lg~~hIs~gdLLR~e----v~~~T--~iG~~Ire~l~-------------~G~lv------ 56 (505)
T PLN02842 2 ISGAPASGKGTQCELIVHKFGLVHISTGDLLRAE----VSAGT--DIGKRAKEFMN-------------SGRLV------ 56 (505)
T ss_pred eeCCCCCCHHHHHHHHHHHhCCCEEEccHHHHHH----hccCC--HHHHHHHHHHh-------------CCCCC------
Confidence 3588999999999999999999999999999832 12211 00111222211 11111
Q ss_pred cccccccccccccHHHHHHHHHHHHh-hhcCCCeEEecc--ccCee-----eecCCCeEEEEEcCHHHHHHhchHHHHh-
Q psy14505 944 EKVSNNASKIAKFKNIRKELFKIQVK-FRKFPGLVADGR--DMGTT-----VFPDAFLKIFLTADIKQRTKRRYKQLMQ- 1014 (1619)
Q Consensus 944 ~~~~~~~s~~a~~~~vr~~~~~~~r~-~a~~~~~V~~GR--d~~~~-----v~p~a~~kifl~A~~e~Ra~Rr~~~l~~- 1014 (1619)
....+...+.+.... -+...++|+||= ....+ ..+..++-|||.+|.++-.+|...+...
T Consensus 57 -----------Pdeiv~~ll~drl~~~~~~~~G~ILDGfPRt~~Qa~~Le~~~~~PDlVI~LDvpdevlleRl~gR~~dp 125 (505)
T PLN02842 57 -----------PDEIVIAMVTGRLSREDAKEKGWLLDGYPRSFAQAQSLEKLKIRPDIFILLDVPDEILIDRCVGRRLDP 125 (505)
T ss_pred -----------cHHHHHHHHHHHHhCccccCCcEEEeCCCCcHHHHHHHHhcCCCCCEEEEEeCCHHHHHHHHhcccccc
Confidence 111222223222222 123457999982 11100 1123568999999999987774333110
Q ss_pred -----------------------cCCCCCHHHHHHHHHhhhhhcccCC-CCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1015 -----------------------KGFSVSMSDLLINLIKRDIRDKTRN-LSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1015 -----------------------~~~~~~~~~~~~~i~~rD~~d~~r~-~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
.+..-+++.+.+.++.-.+. ... ...|. .-...||.+. ++++|.+.|...+
T Consensus 126 ~tG~iYh~~~~pP~~~~~~~rL~~R~DD~eE~IkkRL~~Y~~~--t~pIl~~Y~--~rl~~IDAsq-s~EeVfeeI~~iL 200 (505)
T PLN02842 126 VTGKIYHIKNFPPESEEIKARLITRPDDTEEKVKARLQIYKKN--AEAILSTYS--DIMVKIDGNR-PKEVVFEEISSLL 200 (505)
T ss_pred ccCCccccccCCCCccccccccccCCCCCHHHHHHHHHHHHHH--hhhHHHhcC--cEEEEEECCC-CHHHHHHHHHHHH
Confidence 01111344444444331111 111 11121 1135678765 9999999999888
Q ss_pred hhhhhh
Q psy14505 1071 ATLFKE 1076 (1619)
Q Consensus 1071 ~~ll~e 1076 (1619)
.+.+..
T Consensus 201 ~~~L~~ 206 (505)
T PLN02842 201 SQIQKD 206 (505)
T ss_pred HHHHhh
Confidence 776653
No 331
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=94.36 E-value=0.13 Score=67.92 Aligned_cols=37 Identities=30% Similarity=0.391 Sum_probs=30.8
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHh-----CCEEechhhHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKL-----GFHYLDSGALYR 895 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg~~yr 895 (1619)
..+|.+.|.+|+||++.++.++++| ++.++|.+.+.+
T Consensus 460 ~~~i~~~G~~gsGKst~a~~l~~~l~~~~~~~~~l~~D~~r~ 501 (632)
T PRK05506 460 PATVWFTGLSGSGKSTIANLVERRLHALGRHTYLLDGDNVRH 501 (632)
T ss_pred cEEEEecCCCCchHHHHHHHHHHHHHHcCCCEEEEcChhhhh
Confidence 3567788999999999999999997 568999876654
No 332
>PRK14737 gmk guanylate kinase; Provisional
Probab=94.15 E-value=0.11 Score=57.61 Aligned_cols=86 Identities=10% Similarity=0.180 Sum_probs=49.7
Q ss_pred hhcCCCeEEeccc-----cCeeeecCCCeEEEEEc-CHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCC
Q psy14505 970 FRKFPGLVADGRD-----MGTTVFPDAFLKIFLTA-DIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPL 1043 (1619)
Q Consensus 970 ~a~~~~~V~~GRd-----~~~~v~p~a~~kifl~A-~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l 1043 (1619)
++....||++--- +-. .+|+.-+-|||.+ |.+.+.+|+ ..++ ..+.+++.+.+..-. .+..+
T Consensus 91 ~~~g~~~i~d~~~~g~~~l~~-~~~~~~~~Ifi~pps~e~l~~RL----~~R~-~~s~e~i~~Rl~~~~-~e~~~----- 158 (186)
T PRK14737 91 FKEGRSAIMDIDVQGAKIIKE-KFPERIVTIFIEPPSEEEWEERL----IHRG-TDSEESIEKRIENGI-IELDE----- 158 (186)
T ss_pred HHcCCeEEEEcCHHHHHHHHH-hCCCCeEEEEEECCCHHHHHHHH----HhcC-CCCHHHHHHHHHHHH-HHHhh-----
Confidence 4566678887411 111 2465447899999 578888882 3333 347777877776532 22221
Q ss_pred CCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1044 KCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1044 ~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
....| .+|+++ +++++...+..++
T Consensus 159 ~~~~D-~vI~N~--dle~a~~ql~~ii 182 (186)
T PRK14737 159 ANEFD-YKIIND--DLEDAIADLEAII 182 (186)
T ss_pred hccCC-EEEECc--CHHHHHHHHHHHH
Confidence 11223 445555 6788887776554
No 333
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=93.96 E-value=0.52 Score=56.33 Aligned_cols=35 Identities=29% Similarity=0.244 Sum_probs=30.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHh-CCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKL-GFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l-~~~~~dtg~~yr 895 (1619)
+|.+.|.+|+||+|.++.+++++ ++.++|++.+.+
T Consensus 4 liil~G~pGSGKSTla~~L~~~~~~~~~l~~D~~r~ 39 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKNPKAVNVNRDDLRQ 39 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHCCCCEEEeccHHHH
Confidence 46667999999999999999999 999999977654
No 334
>PRK05439 pantothenate kinase; Provisional
Probab=93.94 E-value=0.094 Score=62.41 Aligned_cols=181 Identities=15% Similarity=0.144 Sum_probs=90.4
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHhC-------CEEechhhHHHHHHHHHH-----HcCCCCC-cHHHHHHHHHcccce
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKLG-------FHYLDSGALYRLVTLSAI-----NNNIQLD-NELELVILIKKLNYN 924 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l~-------~~~~dtg~~yr~~~~~a~-----~~~~~~~-~~~~~~~~~~~~~~~ 924 (1619)
..++|.|.|.+|+||+|.++.|++.++ +..+.+..+|..-+.... +.|.+.. |.+.+.+.+..+.-
T Consensus 85 ~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy~~~~~l~~~~l~~~kg~Pes~D~~~l~~~L~~Lk~- 163 (311)
T PRK05439 85 VPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFLYPNAVLEERGLMKRKGFPESYDMRALLRFLSDVKS- 163 (311)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccccCHHHHhhhhccccCCCcccccHHHHHHHHHHHHc-
Confidence 346899999999999999999998664 345555555543322111 1233211 33334333332211
Q ss_pred ecCceEEeCCcc-ccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC-------ee-eecCCCeEE
Q psy14505 925 FLGKEVYLNGVN-VTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG-------TT-VFPDAFLKI 995 (1619)
Q Consensus 925 ~~~~~~~~~~~~-v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~-------~~-v~p~a~~ki 995 (1619)
|.. |.- +..+........ ++. ..+....-+|+||=... +. +..-.|++|
T Consensus 164 ---------G~~~v~~----P~Yd~~~~d~~~-~~~--------~~v~~~dIvIVEGi~~L~~~~~~~~~~l~d~~D~~I 221 (311)
T PRK05439 164 ---------GKPNVTA----PVYSHLIYDIVP-GEK--------QTVDQPDILIVEGLNVLQTGQNHHRLFVSDFFDFSI 221 (311)
T ss_pred ---------CCCeEEe----eeEEeecCCcCC-Cce--------EEeCCCCEEEEcCchhccCcccccchhhHHhCCEEE
Confidence 110 100 000000000000 000 01112334777884322 11 112236999
Q ss_pred EEEcCHHHHHHhchHHHHhc-----C---------CCCCHHHHHHHHHh----hhhhcccCCCCCCCCCCCceEEccCcc
Q psy14505 996 FLTADIKQRTKRRYKQLMQK-----G---------FSVSMSDLLINLIK----RDIRDKTRNLSPLKCPEQAHLLNTSKM 1057 (1619)
Q Consensus 996 fl~A~~e~Ra~Rr~~~l~~~-----~---------~~~~~~~~~~~i~~----rD~~d~~r~~~~l~~~~dal~Idts~l 1057 (1619)
||.|+.+.+.+|+.++..+. . .+.+.+++.+.+.. -|..-....+.|.....|.++-...+-
T Consensus 222 fVda~~~~~~~w~i~R~~~lr~~~~rdp~s~~~~~~~~s~~~a~~~a~~~w~~~~~pn~~~~I~Ptk~~ADlIi~~~~~h 301 (311)
T PRK05439 222 YVDADEDLIEKWYIERFLKLRETAFSDPDSYFHRYAKLSEEEAIAIARQIWDEINLPNLEENILPTRERADLILHKGADH 301 (311)
T ss_pred EEECCHHHHHHHHHHHHHHHHHhhhcCcchhhhhhccCCHHHHHHHHHHHHHhcchhhHHHhccCCCcCCCEEEeCCCCC
Confidence 99999999888766664431 0 24566776666552 233333235677777777666555544
Q ss_pred cchh
Q psy14505 1058 NINQ 1061 (1619)
Q Consensus 1058 ~iee 1061 (1619)
.++.
T Consensus 302 ~i~~ 305 (311)
T PRK05439 302 SIER 305 (311)
T ss_pred ceeE
Confidence 4443
No 335
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=93.81 E-value=0.48 Score=52.70 Aligned_cols=25 Identities=36% Similarity=0.444 Sum_probs=22.8
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhC
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLG 884 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~ 884 (1619)
++|.+.|..|+||+|.++.|++.++
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~l~ 28 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKLLQ 28 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHH
Confidence 5789999999999999999998884
No 336
>COG0557 VacB Exoribonuclease R [Transcription]
Probab=93.80 E-value=0.12 Score=68.75 Aligned_cols=75 Identities=29% Similarity=0.487 Sum_probs=61.8
Q ss_pred ccccceeEEEEEEEEcCCeEEEEEcCC-EEEEEeccccCcc-----c-----cCCCccccccCCCEEEEEEEEeecccce
Q psy14505 1338 RYPRGTRLLGKVTNLTDYGAFVEIEKG-IEGLVHISEMDWI-----N-----KNVTPSKIVQLNDTVEIMILEINEERRR 1406 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~G~fV~l~~g-v~GlV~~sels~~-----~-----~~~~~~~~~~vG~~V~vrVl~id~e~~r 1406 (1619)
.-.+|+.+.|+|+++..+|+||.+.+. ++|+||.+.|... . ........|+.|+.|+++|.+++...++
T Consensus 619 ~~~vg~~f~g~V~~v~~~g~~V~l~~~~ieglV~~s~L~~d~y~~~~~~~~l~~~~~~~~~~lgd~v~v~v~~v~~~~~~ 698 (706)
T COG0557 619 KKRVGEEFDGVVTGVTSFGFFVELPELGLEGLVHISSLPDDYYHFDERGQALVGEKSGKVYRLGDEVKVKVTSVDLDERK 698 (706)
T ss_pred HHhcCCEEEEEEEEEEeccEEEEecccccccceEcccCCCceeeeccccceeeccccccccccCCEEEEEEEEEcccccc
Confidence 457999999999999999999999764 9999999999621 1 1223345799999999999999999998
Q ss_pred EEEeee
Q psy14505 1407 ISLGMK 1412 (1619)
Q Consensus 1407 i~LSlK 1412 (1619)
+.+++-
T Consensus 699 i~~~~v 704 (706)
T COG0557 699 IDFELV 704 (706)
T ss_pred eEEEec
Confidence 888763
No 337
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=93.79 E-value=0.12 Score=56.89 Aligned_cols=35 Identities=34% Similarity=0.538 Sum_probs=30.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHh-----CCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKL-----GFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l-----~~~~~dtg~~yr 895 (1619)
+|.+.|.+|+||++.++.+++.+ +..++..+.+|+
T Consensus 1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~~ 40 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYV 40 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhccc
Confidence 36788999999999999999986 567888888887
No 338
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=93.75 E-value=0.49 Score=53.93 Aligned_cols=35 Identities=26% Similarity=0.450 Sum_probs=26.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhC-------CEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLG-------FHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~-------~~~~dtg~~yr 895 (1619)
++.+.|++||||+|.++.|+..+. +.++.....|.
T Consensus 1 IigI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~~ 42 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFLY 42 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCcccC
Confidence 367889999999999999998873 34444444553
No 339
>PRK00698 tmk thymidylate kinase; Validated
Probab=93.65 E-value=0.29 Score=54.76 Aligned_cols=24 Identities=38% Similarity=0.502 Sum_probs=22.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL 883 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l 883 (1619)
++|.+.|+.|+||+|.++.|++.+
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~l 27 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKELL 27 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 578999999999999999999876
No 340
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=93.62 E-value=0.082 Score=60.64 Aligned_cols=43 Identities=16% Similarity=0.031 Sum_probs=32.8
Q ss_pred cCCCeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhh
Q psy14505 989 PDAFLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDI 1033 (1619)
Q Consensus 989 p~a~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~ 1033 (1619)
+.+++.|||.++.+.|.+|...+-.. .+.+.+++.+.+.+++.
T Consensus 159 ~~~D~vi~v~~~~~~~~~R~~~R~~~--~g~s~~~~~~~~~~~~~ 201 (229)
T PRK09270 159 GLFDFTIFLDAPAEVLRERLVARKLA--GGLSPEAAEAFVLRNDG 201 (229)
T ss_pred hhCCEEEEEECCHHHHHHHHHHHHHh--cCCCHHHHHHHHHhcCh
Confidence 35689999999999999996655322 34588999988876543
No 341
>PRK13973 thymidylate kinase; Provisional
Probab=93.56 E-value=0.37 Score=54.62 Aligned_cols=31 Identities=35% Similarity=0.608 Sum_probs=28.4
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh---CCEEech
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL---GFHYLDS 890 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l---~~~~~dt 890 (1619)
+.|++.|..|+||+|.++.+++.| |++++-+
T Consensus 4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~ 37 (213)
T PRK13973 4 RFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVT 37 (213)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 568889999999999999999999 9999876
No 342
>PRK07667 uridine kinase; Provisional
Probab=93.43 E-value=0.11 Score=58.02 Aligned_cols=40 Identities=23% Similarity=0.274 Sum_probs=32.7
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC-----CEEechhhHHHHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG-----FHYLDSGALYRLVT 898 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~-----~~~~dtg~~yr~~~ 898 (1619)
-++|.++|.+|+||++.++.|++.++ ...++....|+...
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~~~~~~ 61 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDYIVERN 61 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcccchhh
Confidence 36899999999999999999998763 55888878777443
No 343
>KOG1240|consensus
Probab=93.31 E-value=2.7 Score=56.52 Aligned_cols=190 Identities=14% Similarity=0.120 Sum_probs=116.5
Q ss_pred CCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecC-CCCe
Q psy14505 612 IPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLS-NEDF 690 (1619)
Q Consensus 612 lp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lk-e~D~ 690 (1619)
.|..+|+-+|.-+..+- +....+..+... -++..+++..|.+|-+|--...+.......-.....+. ++-.
T Consensus 1029 ~p~~gW~p~G~lVAhL~--Ehs~~v~k~a~s------~~~~s~FvsgS~DGtVKvW~~~k~~~~~~s~rS~ltys~~~sr 1100 (1431)
T KOG1240|consen 1029 SPPPGWNPRGILVAHLH--EHSSAVIKLAVS------SEHTSLFVSGSDDGTVKVWNLRKLEGEGGSARSELTYSPEGSR 1100 (1431)
T ss_pred CCCCCCCccceEeehhh--hccccccceeec------CCCCceEEEecCCceEEEeeehhhhcCcceeeeeEEEeccCCc
Confidence 35555555665555443 122222232222 13348999999999999988877654321122334555 7888
Q ss_pred EEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCccceecCCCCEEEEEEEecCCCC--cEEEEEecCceeEEec
Q psy14505 691 LIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIGMRLEKKQKVIALLVSNNQKQ--SVLTATENGYGKRTLI 768 (1619)
Q Consensus 691 l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~--~ll~~T~~G~~Kr~~l 768 (1619)
+..+..|.+.+.+.+.|++|.+..+.+.......+...-+...+++....++.|-......+ -++.+|..|.+--
T Consensus 1101 ~~~vt~~~~~~~~Av~t~DG~v~~~~id~~~~~~~~~~~~ri~n~~~~g~vv~m~a~~~~~~S~~lvy~T~~~~iv~--- 1177 (1431)
T KOG1240|consen 1101 VEKVTMCGNGDQFAVSTKDGSVRVLRIDHYNVSKRVATQVRIPNLKKDGVVVSMHAFTAIVQSHVLVYATDLSRIVS--- 1177 (1431)
T ss_pred eEEEEeccCCCeEEEEcCCCeEEEEEccccccccceeeeeecccccCCCceEEeecccccccceeEEEEEeccceEE---
Confidence 88888999999999999999999999877543344433455577888888998876654333 3556788765532
Q ss_pred ccccccccccccceeeeeccCCCeEEEEEEecCCcE-EEEEECCCeEEEE
Q psy14505 769 KEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHE-IMLITTGGILIRT 817 (1619)
Q Consensus 769 ~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~-i~l~T~~g~~lrf 817 (1619)
-+.+...+ .-.++...+ .-+|.-..+++... +++.|+.|.++..
T Consensus 1178 ~D~r~~~~----~w~lk~~~~-hG~vTSi~idp~~~WlviGts~G~l~lW 1222 (1431)
T KOG1240|consen 1178 WDTRMRHD----AWRLKNQLR-HGLVTSIVIDPWCNWLVIGTSRGQLVLW 1222 (1431)
T ss_pred ecchhhhh----HHhhhcCcc-ccceeEEEecCCceEEEEecCCceEEEE
Confidence 23322221 123344442 33555556666554 5567999988633
No 344
>PLN02318 phosphoribulokinase/uridine kinase
Probab=93.29 E-value=0.063 Score=67.97 Aligned_cols=80 Identities=10% Similarity=0.068 Sum_probs=52.9
Q ss_pred cCCCeEEeccccC-eeeecCCCeEEEEEcCHHHHHHhchHHHH-hcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCc
Q psy14505 972 KFPGLVADGRDMG-TTVFPDAFLKIFLTADIKQRTKRRYKQLM-QKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQA 1049 (1619)
Q Consensus 972 ~~~~~V~~GRd~~-~~v~p~a~~kifl~A~~e~Ra~Rr~~~l~-~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~da 1049 (1619)
...-+|+||=-+- .-+.+-.|++||++++.+.|..||..+=. .+|. +.+++.+++....+-.....+.|.....|.
T Consensus 157 p~~VVIVEGIyaL~~~Lr~LlDlkIFVDtdvDirL~RRI~RD~~eRGr--s~EsVi~q~~~~VkP~y~~FIeP~kk~ADI 234 (656)
T PLN02318 157 SSRIVIIEGIYALSEKLRPLLDLRVSVTGGVHFDLVKRVLRDIQRAGQ--EPEEIIHQISETVYPMYKAFIEPDLQTAHI 234 (656)
T ss_pred CCcEEEEechhhccHhHHhhCCEEEEEcCCccHHHHHHHHHHHHHhCC--CHHHHHHHHHHhhcchHHHHhCcchhcceE
Confidence 3445888884211 11223357999999998888888776533 3344 888998888776666666667887766666
Q ss_pred eEEc
Q psy14505 1050 HLLN 1053 (1619)
Q Consensus 1050 l~Id 1053 (1619)
++.|
T Consensus 235 II~n 238 (656)
T PLN02318 235 KIVN 238 (656)
T ss_pred EEec
Confidence 6544
No 345
>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK). Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.
Probab=93.12 E-value=0.22 Score=56.78 Aligned_cols=28 Identities=57% Similarity=0.916 Sum_probs=24.9
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEe
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYL 888 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~ 888 (1619)
+|++.|.-|+||+|.++.|++++++.++
T Consensus 1 ~I~iEG~~GsGKSTl~~~L~~~l~~~~~ 28 (219)
T cd02030 1 VITVDGNIASGKGKLAKELAEKLGMKYF 28 (219)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHhCCCee
Confidence 3788899999999999999999988655
No 346
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=92.70 E-value=1.1 Score=49.62 Aligned_cols=31 Identities=29% Similarity=0.542 Sum_probs=26.8
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh---CCEEech
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL---GFHYLDS 890 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l---~~~~~dt 890 (1619)
++|.+.|..|+||+|.++.|++.+ |+.++..
T Consensus 1 ~~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~ 34 (200)
T cd01672 1 MFIVFEGIDGAGKTTLIELLAERLEARGYEVVLT 34 (200)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 368889999999999999999988 7777655
No 347
>KOG3220|consensus
Probab=92.57 E-value=1 Score=49.36 Aligned_cols=181 Identities=18% Similarity=0.230 Sum_probs=95.0
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTT 939 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ 939 (1619)
+++...|..++||+++.+.+ +.+|++.+|++-|-| -+.+-|-+- +....+ .|+ +.+++.+-++..
T Consensus 2 ~iVGLTGgiatGKStVs~~f-~~~G~~vIDaD~vaR----~vv~PG~p~-----~~~ive----~FG-~eiLl~~G~inR 66 (225)
T KOG3220|consen 2 LIVGLTGGIATGKSTVSQVF-KALGIPVIDADVVAR----EVVEPGTPA-----YRRIVE----AFG-TEILLEDGEINR 66 (225)
T ss_pred eEEEeecccccChHHHHHHH-HHcCCcEecHHHHHH----HHhcCCChH-----HHHHHH----HhC-ceeeccCCcccH
Confidence 56778889999999999865 699999999999888 555555431 111111 122 122332222211
Q ss_pred c-ccccccccc----cccccccHHHHHHHHHHH-HhhhcCCC-eEEecccc-CeeeecCCCeEEEEEcCHHHHHHhchHH
Q psy14505 940 L-IRNEKVSNN----ASKIAKFKNIRKELFKIQ-VKFRKFPG-LVADGRDM-GTTVFPDAFLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 940 ~-ir~~~~~~~----~s~~a~~~~vr~~~~~~~-r~~a~~~~-~V~~GRd~-~~~v~p~a~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
+ |+.--.+.. +-.--.+|.||..+.+-+ +-++..-. ||+|=-.- -+....-...-|-+++|.+.-.+|
T Consensus 67 ~~LG~~vF~~~~~r~~Ln~IthP~Ir~em~ke~~~~~l~G~r~ivlDiPLLFE~~~~~~~~~tvvV~cd~~~Ql~R---- 142 (225)
T KOG3220|consen 67 KVLGKRVFSDPKKRQALNKITHPAIRKEMFKEILKLLLRGYRVIVLDIPLLFEAKLLKICHKTVVVTCDEELQLER---- 142 (225)
T ss_pred HHHhHHHhCCHHHHHHHHhcccHHHHHHHHHHHHHHHhcCCeEEEEechHHHHHhHHhheeeEEEEEECcHHHHHH----
Confidence 1 111111100 001126788887776433 44444332 44332100 000000012457789999999999
Q ss_pred HHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhh
Q psy14505 1012 LMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILD 1068 (1619)
Q Consensus 1012 l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~ 1068 (1619)
.+++.+.|.+++...+.+-=-.+..+..+ .++||+. -++++.-+.+..
T Consensus 143 -l~~Rd~lse~dAe~Rl~sQmp~~~k~~~a-------~~Vi~Nn-g~~~~l~~qv~~ 190 (225)
T KOG3220|consen 143 -LVERDELSEEDAENRLQSQMPLEKKCELA-------DVVIDNN-GSLEDLYEQVEK 190 (225)
T ss_pred -HHHhccccHHHHHHHHHhcCCHHHHHHhh-------heeecCC-CChHHHHHHHHH
Confidence 44555889998888665522222222211 2556554 477776666544
No 348
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=91.84 E-value=0.22 Score=52.23 Aligned_cols=37 Identities=32% Similarity=0.522 Sum_probs=32.4
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVT 898 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~ 898 (1619)
|-+.|++|+||++.++.+++.+++.++|.+.+++.+.
T Consensus 2 ii~~G~pgsGKSt~a~~l~~~~~~~~i~~D~~~~~~~ 38 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAKRLGAVVISQDEIRRRLA 38 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHHHSTEEEEEHHHHHHHHC
T ss_pred EEEECCCCCCHHHHHHHHHHHCCCEEEeHHHHHHHHc
Confidence 4566899999999999999999999999998887443
No 349
>PRK10811 rne ribonuclease E; Reviewed
Probab=91.20 E-value=0.44 Score=62.84 Aligned_cols=76 Identities=14% Similarity=0.153 Sum_probs=57.5
Q ss_pred ccceeEEEEEEEEcCC--eEEEEEcCCEEEEEeccccCccccC--------CCccccccCCCEEEEEEEEeecccceEEE
Q psy14505 1340 PRGTRLLGKVTNLTDY--GAFVEIEKGIEGLVHISEMDWINKN--------VTPSKIVQLNDTVEIMILEINEERRRISL 1409 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~--G~fV~l~~gv~GlV~~sels~~~~~--------~~~~~~~~vG~~V~vrVl~id~e~~ri~L 1409 (1619)
.+|.||.|+|.+|.+. ++||+++.+..||+|.++....... .+....+++||.|-|.|..-....+--.|
T Consensus 37 ~vGnIYkGkVenIvPGInAAFVDIG~gknGFL~L~Di~~~~f~~~~~~~~~~~i~~~Lk~GqeILVQV~KEa~gtKGp~L 116 (1068)
T PRK10811 37 KKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNKGAAL 116 (1068)
T ss_pred CccceEEEEEecccCCcceeEEEecCCcceEEEhhhccccccccccccccccccccccCCCCEEEEEEeecccCCCCCce
Confidence 5899999999999885 8999999999999999998531110 12234688999999999876655555556
Q ss_pred eeeccc
Q psy14505 1410 GMKQCK 1415 (1619)
Q Consensus 1410 SlK~~~ 1415 (1619)
|.+-+.
T Consensus 117 Tt~ISL 122 (1068)
T PRK10811 117 TTFISL 122 (1068)
T ss_pred eeeEEe
Confidence 655444
No 350
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=90.81 E-value=0.96 Score=53.53 Aligned_cols=36 Identities=31% Similarity=0.401 Sum_probs=30.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
++|.+.|.+|+||++.+..||.++|++++=++..+|
T Consensus 93 ~iIlI~G~sgsGKStlA~~La~~l~~~~vi~~D~~r 128 (301)
T PRK04220 93 IIILIGGASGVGTSTIAFELASRLGIRSVIGTDSIR 128 (301)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHH
Confidence 578899999999999999999999998544455556
No 351
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=90.55 E-value=1.4 Score=50.07 Aligned_cols=188 Identities=16% Similarity=0.154 Sum_probs=96.8
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHH-----HHHHHHHcccceecCceEEeC
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNEL-----ELVILIKKLNYNFLGKEVYLN 933 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~ 933 (1619)
-.+|-+.|.+|.||++++..+|.+|||..+=+....|.+- +.=++++... -+.++ +.+...-.
T Consensus 89 p~IILIGGasGVGkStIA~ElA~rLgI~~visTD~IREvl----R~ii~~~l~PtLh~Ssy~Aw-kalr~~~~------- 156 (299)
T COG2074 89 PLIILIGGASGVGKSTIAGELARRLGIRSVISTDSIREVL----RKIISPELLPTLHTSSYDAW-KALRDPTD------- 156 (299)
T ss_pred CeEEEecCCCCCChhHHHHHHHHHcCCceeecchHHHHHH----HHhCCHHhcchhhHhHHHHH-HHhcCCCC-------
Confidence 3588999999999999999999999999887777778443 3333332111 11111 00000000
Q ss_pred CccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEecc-c----cCeeeecCCCeEEEEEcCHHHHHHhc
Q psy14505 934 GVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGR-D----MGTTVFPDAFLKIFLTADIKQRTKRR 1008 (1619)
Q Consensus 934 ~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GR-d----~~~~v~p~a~~kifl~A~~e~Ra~Rr 1008 (1619)
.+.|=..+. ..++. ..+.|-.. +.|.+.+..++|+||= . +..-.+-.+.+-+||+++.|+--+.|
T Consensus 157 ----~~piiaGF~-dqa~~--V~~GI~~V---I~RAi~eG~~lIIEGvHlVPg~i~~~~~~~n~~~~~l~i~dee~Hr~R 226 (299)
T COG2074 157 ----ENPIIAGFE-DQASA--VMVGIEAV---IERAIEEGEDLIIEGVHLVPGLIKEEALGNNVFMFMLYIADEELHRER 226 (299)
T ss_pred ----CcchhhhHH-HHhHH--HHHHHHHH---HHHHHhcCcceEEEeeeeccccccHhhhccceEEEEEEeCCHHHHHHH
Confidence 000000000 11221 22233222 2266777789999992 1 22222222456788888877766666
Q ss_pred hHHHHhcC---CCC-CHHHHHHHHH--hhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhhhh
Q psy14505 1009 YKQLMQKG---FSV-SMSDLLINLI--KRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFKES 1077 (1619)
Q Consensus 1009 ~~~l~~~~---~~~-~~~~~~~~i~--~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~e~ 1077 (1619)
+-.-++.- .+. -+-+=+++|. .+-..+..|.. +.=+||+. +++++++.|++.+.+...+.
T Consensus 227 F~~R~~~t~~~rp~~Ryl~yf~EiR~I~Dyl~~~Are~-------gVPvI~n~--di~etv~~il~~i~~~~~r~ 292 (299)
T COG2074 227 FYDRIRYTHASRPGGRYLEYFKEIRTIHDYLVERAREH-------GVPVIEND--DIDETVDRILEDIRKRTVRG 292 (299)
T ss_pred HHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHhc-------CCCeeccc--cHHHHHHHHHHHHHHHHHHH
Confidence 65533322 111 1111111111 11122222221 12357887 78999999998887665443
No 352
>PRK11712 ribonuclease G; Provisional
Probab=89.94 E-value=0.65 Score=58.68 Aligned_cols=78 Identities=17% Similarity=0.147 Sum_probs=56.4
Q ss_pred ccccceeEEEEEEEEcCC--eEEEEEcCCEEEEEeccccCcc-------c----cCCCccccccCCCEEEEEEEEeeccc
Q psy14505 1338 RYPRGTRLLGKVTNLTDY--GAFVEIEKGIEGLVHISEMDWI-------N----KNVTPSKIVQLNDTVEIMILEINEER 1404 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~--G~fV~l~~gv~GlV~~sels~~-------~----~~~~~~~~~~vG~~V~vrVl~id~e~ 1404 (1619)
...+|.++.|+|.++.+. ++||+++.+-.||+|.+++... . ......+.+++||.|-|.|..--...
T Consensus 35 ~~~vGnIY~G~V~~v~pg~~AAFVdIG~~k~gFL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~Gq~iLVQV~Ke~~~~ 114 (489)
T PRK11712 35 RGIVGNIYKGRVSRVLPGMQAAFVDIGLDKAAFLHASDIVPHTECVAGEEQKQFVVRDISELVRQGQDIMVQVVKDPLGT 114 (489)
T ss_pred ccccccEEEEEEeecCCCCceeEEeeCCCccEEEEhhhccchhhhcccccccccccccHHHhccCCCEEEEEEEeCCcCC
Confidence 456899999999999985 8999999999999999987210 0 01112345899999999988654444
Q ss_pred ceEEEeeeccc
Q psy14505 1405 RRISLGMKQCK 1415 (1619)
Q Consensus 1405 ~ri~LSlK~~~ 1415 (1619)
+--.||..-+.
T Consensus 115 KG~~lT~~Isl 125 (489)
T PRK11712 115 KGARLTTDITL 125 (489)
T ss_pred CCCeEEEEEEe
Confidence 44555554433
No 353
>PF10246 MRP-S35: Mitochondrial ribosomal protein MRP-S35; InterPro: IPR019375 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of short mitochondrial ribosomal proteins, less than 200 amino acids long. MRP-S35 was proposed as a more appropriate name to this group of proteins [].
Probab=89.12 E-value=1.4 Score=42.94 Aligned_cols=52 Identities=10% Similarity=0.111 Sum_probs=44.9
Q ss_pred CCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEE
Q psy14505 1084 RSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIES 1139 (1619)
Q Consensus 1084 ~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~ 1139 (1619)
.+|.+|.|+|..+.++.+++|+|.|..++.+...... +.|..|..|..++..
T Consensus 22 ~~gk~V~G~I~hvv~ddLYIDfG~KFhcVc~rp~~~~----~~y~~G~rV~lrLkd 73 (104)
T PF10246_consen 22 PEGKIVIGKIFHVVDDDLYIDFGGKFHCVCKRPAVNG----EKYVRGSRVRLRLKD 73 (104)
T ss_pred ccCCEEEEEEEEEecCceEEEeCCceeEEEecccccc----cccccCCEEEEEECC
Confidence 4799999999999999999999999999998765522 359999999998855
No 354
>PRK10811 rne ribonuclease E; Reviewed
Probab=88.87 E-value=0.85 Score=60.31 Aligned_cols=75 Identities=19% Similarity=0.209 Sum_probs=58.1
Q ss_pred ccceEEEEEEEEEecc--eEEEeeCCCeEEEEeCCCCCCCCCc--------cccccCCCCCCEEEEEEEEeecCCCeEEE
Q psy14505 1427 KKGEKIKGIIKSITDF--GIFIGLDGNIDGLIHLSDLSWTDPG--------EEIIRNFKKGDEIEAIILSIDVEKERISL 1496 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~--GvfV~~~~~v~Glv~~sels~~~~~--------~~~~~~f~vGq~V~~~Vl~vd~e~~ri~L 1496 (1619)
.+|.++.|+|.+|.+. ++||.++.+-.||+|.++.....+. .+....+++||.|-|.|..-....+--.|
T Consensus 37 ~vGnIYkGkVenIvPGInAAFVDIG~gknGFL~L~Di~~~~f~~~~~~~~~~~i~~~Lk~GqeILVQV~KEa~gtKGp~L 116 (1068)
T PRK10811 37 KKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPANYSAHGRPNIKDVLREGQEVIVQIDKEERGNKGAAL 116 (1068)
T ss_pred CccceEEEEEecccCCcceeEEEecCCcceEEEhhhccccccccccccccccccccccCCCCEEEEEEeecccCCCCCce
Confidence 4799999999999877 8999999999999999988532111 12345689999999999987666666555
Q ss_pred eeecC
Q psy14505 1497 GIKQL 1501 (1619)
Q Consensus 1497 SlK~~ 1501 (1619)
|.+-+
T Consensus 117 Tt~IS 121 (1068)
T PRK10811 117 TTFIS 121 (1068)
T ss_pred eeeEE
Confidence 55544
No 355
>KOG3298|consensus
Probab=88.49 E-value=2.1 Score=45.02 Aligned_cols=62 Identities=19% Similarity=0.333 Sum_probs=44.3
Q ss_pred CCcEEEEEEEEEecCeEEEEeCCEEEEeeccccCcc----ccCCC-------ccccccCCEEEEEEEEeecCC
Q psy14505 1256 EGCTVKGVVKNITDYGAFIDLGGIDGLLHITDIAWR----RVKHP-------SEILTIGQDISTKILKYDQEK 1317 (1619)
Q Consensus 1256 ~G~iv~g~V~~v~~~G~~V~l~gi~g~l~~sels~~----~~~~~-------~~~~~vG~~v~vrVl~vd~~~ 1317 (1619)
.|+++.|+|+++.+.|+|.+.|.++.|+...-+..+ ..++| .+...+|.+|+++|+...-..
T Consensus 81 KGEVvdgvV~~Vnk~G~F~~~GPl~~f~sshl~ppd~~f~p~~n~P~f~~~d~s~I~~~~~VR~kiigtr~~~ 153 (170)
T KOG3298|consen 81 KGEVVDGVVTKVNKMGVFARSGPLEVFYSSHLKPPDYEFDPGENPPNFQTEDESVIQKGVEVRLKIIGTRVDE 153 (170)
T ss_pred CCcEEEEEEEEEeeeeEEEeccceEeeeecccCCCCcccCCCCCCCcccccccceeeeCcEEEEEEEEEEEee
Confidence 499999999999999999999988887765444321 22221 123567888888888765433
No 356
>PF08292 RNA_pol_Rbc25: RNA polymerase III subunit Rpc25; InterPro: IPR013238 Rpc25 is a strongly conserved subunit of RNA polymerase III and has homology to Rpa43 in RNA polymerase I, Rpb7 in RNA polymerase II and the archaeal RpoE subunit. Rpc25 is required for transcription initiation and is not essential for the elongating properties of RNA polymerase III [].; PDB: 2CKZ_D 3AYH_B.
Probab=87.99 E-value=2.2 Score=43.82 Aligned_cols=57 Identities=21% Similarity=0.306 Sum_probs=44.1
Q ss_pred CCCeEEEEEEEEeccEEEEEeCCCeEEEEeccccccc----------------CCCccccCCCEEEEEEEEEe
Q psy14505 1085 SGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKND----------------NGELEVKIGDFVSVAIESLE 1141 (1619)
Q Consensus 1085 ~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~----------------~~~~~~kvG~~v~~~V~~v~ 1141 (1619)
+|+++.|+|.+-+.+|+.|++|.--.=|||.+.+..+ .....+..|+.|+++|..+.
T Consensus 3 ~gEvl~g~I~~~~~~Gi~vslgFFddI~IP~~~L~~ps~fd~~~~~W~W~~~~~~~l~~d~ge~IRFRV~~~~ 75 (122)
T PF08292_consen 3 VGEVLTGKIKSSTAEGIRVSLGFFDDIFIPPSLLPEPSRFDEEEQAWVWEYDEEQELFFDIGEEIRFRVESEI 75 (122)
T ss_dssp TT-EEEEEEEEEETTEEEEEECCEEEEEEECCCC-TTEEEECCCTEEEEEESSSEEEEE-TT-EEEEEEEEEE
T ss_pred CCCEEEEEEEecCCCcEEEEecccccEEECHHHCCCCCccCccCCEEEEECCCCceeEccCCCEEEEEEeEEE
Confidence 6999999999999999999999988899999888521 11235689999999998864
No 357
>PRK11784 tRNA 2-selenouridine synthase; Provisional
Probab=87.38 E-value=1.9 Score=52.38 Aligned_cols=107 Identities=21% Similarity=0.319 Sum_probs=70.7
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcccccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTL 940 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~ 940 (1619)
.+.+.|..|+||.++...|.+. |+..+|...+-+ -.| -.|+.
T Consensus 143 ~ivl~G~TGsGKT~iL~~L~~~-~~~vlDlE~~ae-------hrG-----------------S~fG~------------- 184 (345)
T PRK11784 143 LVVLGGNTGSGKTELLQALANA-GAQVLDLEGLAN-------HRG-----------------SSFGR------------- 184 (345)
T ss_pred eEecCCCCcccHHHHHHHHHhc-CCeEEECCchhh-------hcc-----------------ccccC-------------
Confidence 4668899999999999988655 888899622211 111 01110
Q ss_pred ccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEec--cccCeeeecCC-------CeEEEEEcCHHHHHHhchHH
Q psy14505 941 IRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADG--RDMGTTVFPDA-------FLKIFLTADIKQRTKRRYKQ 1011 (1619)
Q Consensus 941 ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~G--Rd~~~~v~p~a-------~~kifl~A~~e~Ra~Rr~~~ 1011 (1619)
..-.-.+.......+....+.+...++|++|+ |-||.+.+|++ --.|+|.+|.|.|.+|..++
T Consensus 185 --------~~~~qpsQ~~Fe~~l~~~l~~~~~~~~i~vE~Es~~IG~~~lP~~l~~~m~~~~~v~i~~~~e~Rv~~l~~~ 256 (345)
T PRK11784 185 --------LGGPQPSQKDFENLLAEALLKLDPARPIVVEDESRRIGRVHLPEALYEAMQQAPIVVVEAPLEERVERLLED 256 (345)
T ss_pred --------CCCCCcchHHHHHHHHHHHHcCCCCCeEEEEeccccccCccCCHHHHHHHhhCCEEEEECCHHHHHHHHHHH
Confidence 00001223344555555566665667899886 67999999973 37899999999999996666
Q ss_pred HH
Q psy14505 1012 LM 1013 (1619)
Q Consensus 1012 l~ 1013 (1619)
..
T Consensus 257 Y~ 258 (345)
T PRK11784 257 YV 258 (345)
T ss_pred hh
Confidence 54
No 358
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=86.73 E-value=2.9 Score=46.38 Aligned_cols=28 Identities=32% Similarity=0.634 Sum_probs=24.5
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEec
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLD 889 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~d 889 (1619)
|++.|..|+||+|.++.|++.+|+.++.
T Consensus 2 I~ieG~~GsGKSTl~~~L~~~~~~~~~~ 29 (193)
T cd01673 2 IVVEGNIGAGKSTLAKELAEHLGYEVVP 29 (193)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcccc
Confidence 7788999999999999999988876653
No 359
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=86.63 E-value=0.96 Score=53.58 Aligned_cols=37 Identities=24% Similarity=0.428 Sum_probs=28.2
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC-------CEEechhhHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG-------FHYLDSGALYR 895 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~-------~~~~dtg~~yr 895 (1619)
..+|.+.|+.|+||+|.++.++..+. +..+.+...|.
T Consensus 62 p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~~ 105 (290)
T TIGR00554 62 PYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFLH 105 (290)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEecccccc
Confidence 46899999999999999998876653 45555555554
No 360
>PLN02924 thymidylate kinase
Probab=86.31 E-value=2.6 Score=48.00 Aligned_cols=30 Identities=27% Similarity=0.149 Sum_probs=25.7
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHhCCEE
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKLGFHY 887 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l~~~~ 887 (1619)
..+.|++.|.-|+||+|.++.|++.+....
T Consensus 15 ~g~~IviEGiDGsGKsTq~~~L~~~l~~~g 44 (220)
T PLN02924 15 RGALIVLEGLDRSGKSTQCAKLVSFLKGLG 44 (220)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence 346899999999999999999999986543
No 361
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=86.30 E-value=4.3 Score=50.77 Aligned_cols=40 Identities=28% Similarity=0.297 Sum_probs=31.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTL 899 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~ 899 (1619)
.+|.+.|.+|+||++.+..+|.++|+.++-+...+|.+.+
T Consensus 256 ~vil~~G~~G~GKSt~a~~LA~~lg~~~ii~tD~iR~~lr 295 (475)
T PRK12337 256 LHVLIGGVSGVGKSVLASALAYRLGITRIVSTDAVREVLR 295 (475)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCcEEeehhHHHHHHH
Confidence 5788889999999999999999999986544455664443
No 362
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=85.74 E-value=1.1 Score=49.92 Aligned_cols=127 Identities=21% Similarity=0.316 Sum_probs=62.0
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhH--HHHHHHHHHHcCCCCCcHHHHHHHHHcccceec-CceEEeCCccc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGAL--YRLVTLSAINNNIQLDNELELVILIKKLNYNFL-GKEVYLNGVNV 937 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~--yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~v 937 (1619)
++.+-|+.|+||+..+-.+|+++|.+++.-+-+ |+.++- -+|= ...-++. ..++||++..+
T Consensus 3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l~v---~Sgr-------------p~~~el~~~~RiyL~~r~l 66 (233)
T PF01745_consen 3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPELSV---GSGR-------------PTPSELKGTRRIYLDDRPL 66 (233)
T ss_dssp EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGGTT---TTT----------------SGGGTT-EEEES----G
T ss_pred EEEEECCCCCChhHHHHHHHHHhCCCEEEecceeccccccc---ccCC-------------CCHHHHcccceeeeccccc
Confidence 567789999999999999999999999864332 331111 0110 0001111 23788887766
Q ss_pred cccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEecc------ccCeeeecCCC----eEEEEEcCHH---HH
Q psy14505 938 TTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGR------DMGTTVFPDAF----LKIFLTADIK---QR 1004 (1619)
Q Consensus 938 ~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GR------d~~~~v~p~a~----~kifl~A~~e---~R 1004 (1619)
.+.+ ++.. +-.+.+....-++..+++||+||- ++..-.+-.++ ++.+--.+.+ .|
T Consensus 67 ~~G~-----------i~a~-ea~~~Li~~v~~~~~~~~~IlEGGSISLl~~m~~~~~w~~~f~w~i~rl~l~d~~~f~~r 134 (233)
T PF01745_consen 67 SDGI-----------INAE-EAHERLISEVNSYSAHGGLILEGGSISLLNCMAQDPYWSLDFRWHIRRLRLPDEEVFMAR 134 (233)
T ss_dssp GG-S-------------HH-HHHHHHHHHHHTTTTSSEEEEEE--HHHHHHHHH-TTTSSSSEEEEEE-----HHHHHHH
T ss_pred cCCC-----------cCHH-HHHHHHHHHHHhccccCceEEeCchHHHHHHHHhcccccCCCeEEEEEEECCChHHHHHH
Confidence 6551 2221 234444444555566889999992 22211111122 3333333433 59
Q ss_pred HHhchHHHHhc
Q psy14505 1005 TKRRYKQLMQK 1015 (1619)
Q Consensus 1005 a~Rr~~~l~~~ 1015 (1619)
|+||.+|+...
T Consensus 135 a~~Rv~~ML~p 145 (233)
T PF01745_consen 135 AKRRVRQMLRP 145 (233)
T ss_dssp HHHHHHHHHS-
T ss_pred HHHHHHHhcCC
Confidence 99999997765
No 363
>PRK13976 thymidylate kinase; Provisional
Probab=85.38 E-value=15 Score=41.55 Aligned_cols=77 Identities=22% Similarity=0.296 Sum_probs=42.8
Q ss_pred CeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCc--cc---chhhhhhh
Q psy14505 992 FLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSK--MN---INQVVNQI 1066 (1619)
Q Consensus 992 ~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~--l~---ieevv~~I 1066 (1619)
|+-|||.+|+++..+|+-+ +++.....+..+.+.+. ..... ...|. ...+||.+. .+ +|++.+.|
T Consensus 126 Dl~i~Ldv~~e~a~~Ri~~----~~~e~~~~~~l~~v~~~-Y~~l~-~~~~~----~~~~id~~~~~~~~~~~e~v~~~i 195 (209)
T PRK13976 126 DITFVLDIDIELSLSRADK----NGYEFMDLEFYDKVRKG-FREIV-IKNPH----RCHVITCIDAKDNIEDINSVHLEI 195 (209)
T ss_pred CEEEEEeCCHHHHHHHhcc----cchhcccHHHHHHHHHH-HHHHH-HhCCC----CeEEEECCCCccCcCCHHHHHHHH
Confidence 6999999999999999421 22211112222322221 11111 01111 146778742 34 99999999
Q ss_pred hhhhhhhhhhhc
Q psy14505 1067 LDCFATLFKESL 1078 (1619)
Q Consensus 1067 ~~~i~~ll~e~l 1078 (1619)
.+.+...+...+
T Consensus 196 ~~~i~~~~~~~~ 207 (209)
T PRK13976 196 VKLLHAVTKDKL 207 (209)
T ss_pred HHHHHHHHHHhh
Confidence 988877775543
No 364
>PRK11712 ribonuclease G; Provisional
Probab=85.21 E-value=1.7 Score=54.91 Aligned_cols=73 Identities=15% Similarity=0.219 Sum_probs=54.5
Q ss_pred ccceEEEEEEEEEecc--eEEEeeCCCeEEEEeCCCCCCC-------C----CccccccCCCCCCEEEEEEEEeecCCCe
Q psy14505 1427 KKGEKIKGIIKSITDF--GIFIGLDGNIDGLIHLSDLSWT-------D----PGEEIIRNFKKGDEIEAIILSIDVEKER 1493 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~--GvfV~~~~~v~Glv~~sels~~-------~----~~~~~~~~f~vGq~V~~~Vl~vd~e~~r 1493 (1619)
.+|.++.|+|.+|.+. ++||.++.+-.||+|.+++... . ......+.+++||.|-|+|+.--...+.
T Consensus 37 ~vGnIY~G~V~~v~pg~~AAFVdIG~~k~gFL~~~d~~~~~~~~~~~~~~~~~~~~i~~~l~~Gq~iLVQV~Ke~~~~KG 116 (489)
T PRK11712 37 IVGNIYKGRVSRVLPGMQAAFVDIGLDKAAFLHASDIVPHTECVAGEEQKQFVVRDISELVRQGQDIMVQVVKDPLGTKG 116 (489)
T ss_pred ccccEEEEEEeecCCCCceeEEeeCCCccEEEEhhhccchhhhcccccccccccccHHHhccCCCEEEEEEEeCCcCCCC
Confidence 5799999999999987 8999999999999999987410 0 0112345589999999999876544444
Q ss_pred EEEeee
Q psy14505 1494 ISLGIK 1499 (1619)
Q Consensus 1494 i~LSlK 1499 (1619)
-.||..
T Consensus 117 ~~lT~~ 122 (489)
T PRK11712 117 ARLTTD 122 (489)
T ss_pred CeEEEE
Confidence 444443
No 365
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=85.07 E-value=2.8 Score=44.62 Aligned_cols=34 Identities=35% Similarity=0.515 Sum_probs=25.9
Q ss_pred EEecCCcCCCCchhHHHHHHHh---C--CEEechhhHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKL---G--FHYLDSGALYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l---~--~~~~dtg~~yr 895 (1619)
+.+.|.+|+||++.++.++..+ | +.++|...+-+
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r~ 40 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVRH 40 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHH
Confidence 4566899999999999999998 5 45667544433
No 366
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=84.70 E-value=3.2 Score=45.86 Aligned_cols=86 Identities=9% Similarity=0.133 Sum_probs=46.7
Q ss_pred hcCCCeEEeccccCee----eecCCCeEEEEE-cCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCC
Q psy14505 971 RKFPGLVADGRDMGTT----VFPDAFLKIFLT-ADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKC 1045 (1619)
Q Consensus 971 a~~~~~V~~GRd~~~~----v~p~a~~kifl~-A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~ 1045 (1619)
++...||+++---|-- ..+ .++.|||. .|.++..+| |..++. .+.+++.+.+..-++.... ...+
T Consensus 91 ~~~~~~ild~~~~~~~~l~~~~~-~~~vIfi~~~s~~~l~~r----l~~R~~-~~~~~i~~rl~~a~~~~~~--~~~f-- 160 (184)
T smart00072 91 EQGKHCLLDIDPQGVKQLRKAQL-YPIVIFIAPPSSEELERR----LRGRGT-ETAERIQKRLAAAQKEAQE--YHLF-- 160 (184)
T ss_pred HcCCeEEEEECHHHHHHHHHhCC-CcEEEEEeCcCHHHHHHH----HHhcCC-CCHHHHHHHHHHHHHHHhh--hccC--
Confidence 3456799988311100 012 35889998 666667777 233333 3667777777653332221 1122
Q ss_pred CCCceEEccCcccchhhhhhhhhhhh
Q psy14505 1046 PEQAHLLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1046 ~~dal~Idts~l~ieevv~~I~~~i~ 1071 (1619)
| .+|+.. +++++++.+.+.+.
T Consensus 161 --d-~~I~n~--~l~~~~~~l~~~i~ 181 (184)
T smart00072 161 --D-YVIVND--DLEDAYEELKEILE 181 (184)
T ss_pred --C-EEEECc--CHHHHHHHHHHHHH
Confidence 3 445554 57777777766543
No 367
>KOG3409|consensus
Probab=84.45 E-value=3.5 Score=43.85 Aligned_cols=67 Identities=18% Similarity=0.339 Sum_probs=49.5
Q ss_pred CCCCeEEEEEEEEeccEEEEEe---CC-----CeEEEEecccccccCCC-----ccccCCCEEEEEEEEEeCCCCeEEEe
Q psy14505 1084 RSGEVISAEVIGLDRNFVIINA---DL-----KSEAFIPIEEFKNDNGE-----LEVKIGDFVSVAIESLENGFGDTILS 1150 (1619)
Q Consensus 1084 ~~G~iv~G~V~~v~~~gv~V~l---g~-----~~~Gfi~~~e~~~~~~~-----~~~kvG~~v~~~V~~v~~~~~~v~LS 1150 (1619)
..|.+|.++|..++....-+++ +. ...|.|+..+++....+ ..|++||.|.+.|++...+ ....||
T Consensus 67 ~~G~IVtarV~~i~~rfAkv~I~~V~d~~lk~~FrglirkqdvR~tEkdrv~v~ksFrPgDiVlAkVis~~~~-~~y~LT 145 (193)
T KOG3409|consen 67 FVGAIVTARVSRINLRFAKVDILSVGDKPLKKSFRGLIRKQDVRATEKDRVKVYKSFRPGDIVLAKVISLGDG-SNYLLT 145 (193)
T ss_pred ccCcEEEEEEEeeccceeeEEEEEEcCEEhhhhhcceeehhhccccccchhhhhhccCCCcEEEEEEeecCCC-CcEEEE
Confidence 5799999999999988876665 33 35699999888653322 4689999999999885444 345566
Q ss_pred h
Q psy14505 1151 R 1151 (1619)
Q Consensus 1151 ~ 1151 (1619)
.
T Consensus 146 t 146 (193)
T KOG3409|consen 146 T 146 (193)
T ss_pred E
Confidence 4
No 368
>KOG3409|consensus
Probab=83.15 E-value=3.7 Score=43.61 Aligned_cols=72 Identities=19% Similarity=0.183 Sum_probs=51.3
Q ss_pred cccceeEEEEEEEEcCCeEEEEEc--------CCEEEEEeccccCcccc-CCCccccccCCCEEEEEEEEeecccceEEE
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIE--------KGIEGLVHISEMDWINK-NVTPSKIVQLNDTVEIMILEINEERRRISL 1409 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~--------~gv~GlV~~sels~~~~-~~~~~~~~~vG~~V~vrVl~id~e~~ri~L 1409 (1619)
..+|++|.++|..+...=+-|++. +...|++|..++--+++ ...+-+.|++||.|.++|++.. ......|
T Consensus 66 P~~G~IVtarV~~i~~rfAkv~I~~V~d~~lk~~FrglirkqdvR~tEkdrv~v~ksFrPgDiVlAkVis~~-~~~~y~L 144 (193)
T KOG3409|consen 66 PFVGAIVTARVSRINLRFAKVDILSVGDKPLKKSFRGLIRKQDVRATEKDRVKVYKSFRPGDIVLAKVISLG-DGSNYLL 144 (193)
T ss_pred CccCcEEEEEEEeeccceeeEEEEEEcCEEhhhhhcceeehhhccccccchhhhhhccCCCcEEEEEEeecC-CCCcEEE
Confidence 357888888888887665544432 46899999999843222 2467789999999999999955 3444555
Q ss_pred ee
Q psy14505 1410 GM 1411 (1619)
Q Consensus 1410 Sl 1411 (1619)
|.
T Consensus 145 Tt 146 (193)
T KOG3409|consen 145 TT 146 (193)
T ss_pred EE
Confidence 54
No 369
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=83.00 E-value=2.5 Score=46.57 Aligned_cols=65 Identities=26% Similarity=0.256 Sum_probs=36.1
Q ss_pred CeEEEEEcCHHHHHHhchHHHHhcCC--CCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhh
Q psy14505 992 FLKIFLTADIKQRTKRRYKQLMQKGF--SVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQI 1066 (1619)
Q Consensus 992 ~~kifl~A~~e~Ra~Rr~~~l~~~~~--~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I 1066 (1619)
|+-|||++|++++.+|...+ +. ....+.....-+-|...+.-.. .....++||++. ++|++.+.|
T Consensus 120 Dl~~~Ldv~pe~~~~R~~~r----~~~~~~~~~~~~~~~~~~~~y~~l~~-----~~~~~~iid~~~-~~e~v~~~I 186 (186)
T PF02223_consen 120 DLTFFLDVDPEEALKRIAKR----GEKDDEEEEDLEYLRRVREAYLELAK-----DPNNWVIIDASR-SIEEVHEQI 186 (186)
T ss_dssp SEEEEEECCHHHHHHHHHHT----SSTTTTTTHHHHHHHHHHHHHHHHHH-----TTTTEEEEETTS--HHHHHHHH
T ss_pred CEEEEEecCHHHHHHHHHcC----CccchHHHHHHHHHHHHHHHHHHHHc-----CCCCEEEEECCC-CHHHHHhhC
Confidence 69999999999999994332 22 2223322222222222221111 123357888886 799988765
No 370
>PF08292 RNA_pol_Rbc25: RNA polymerase III subunit Rpc25; InterPro: IPR013238 Rpc25 is a strongly conserved subunit of RNA polymerase III and has homology to Rpa43 in RNA polymerase I, Rpb7 in RNA polymerase II and the archaeal RpoE subunit. Rpc25 is required for transcription initiation and is not essential for the elongating properties of RNA polymerase III [].; PDB: 2CKZ_D 3AYH_B.
Probab=82.87 E-value=4.7 Score=41.45 Aligned_cols=60 Identities=18% Similarity=0.153 Sum_probs=43.3
Q ss_pred CCcEEEEEEEEEecCeEEEEeC-CEEEEeeccccCccc-------------cCCCccccccCCEEEEEEEEeec
Q psy14505 1256 EGCTVKGVVKNITDYGAFIDLG-GIDGLLHITDIAWRR-------------VKHPSEILTIGQDISTKILKYDQ 1315 (1619)
Q Consensus 1256 ~G~iv~g~V~~v~~~G~~V~l~-gi~g~l~~sels~~~-------------~~~~~~~~~vG~~v~vrVl~vd~ 1315 (1619)
+|+++.|+|.+....|+.|.++ --+-+||.+.|.... ...-.-+|..|+.|++||.++.-
T Consensus 3 ~gEvl~g~I~~~~~~Gi~vslgFFddI~IP~~~L~~ps~fd~~~~~W~W~~~~~~~l~~d~ge~IRFRV~~~~f 76 (122)
T PF08292_consen 3 VGEVLTGKIKSSTAEGIRVSLGFFDDIFIPPSLLPEPSRFDEEEQAWVWEYDEEQELFFDIGEEIRFRVESEIF 76 (122)
T ss_dssp TT-EEEEEEEEEETTEEEEEECCEEEEEEECCCC-TTEEEECCCTEEEEEESSSEEEEE-TT-EEEEEEEEEEE
T ss_pred CCCEEEEEEEecCCCcEEEEecccccEEECHHHCCCCCccCccCCEEEEECCCCceeEccCCCEEEEEEeEEEE
Confidence 6999999999999999999998 356789998886421 12222336899999999988764
No 371
>PRK14738 gmk guanylate kinase; Provisional
Probab=81.58 E-value=3.2 Score=46.79 Aligned_cols=67 Identities=19% Similarity=0.233 Sum_probs=37.6
Q ss_pred EEEE-cCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhh
Q psy14505 995 IFLT-ADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATL 1073 (1619)
Q Consensus 995 ifl~-A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~l 1073 (1619)
||+. ++.++-.+|. ..++. .+.+++.+.+..-. .+.. ...+ .|.++||++. ++|++++.|.+++...
T Consensus 128 if~~pps~e~l~~Rl----~~R~~-~~~~~~~~Rl~~~~-~e~~-~~~~----~~~~iId~~~-~~e~v~~~i~~~l~~~ 195 (206)
T PRK14738 128 IFLAPPSMDELTRRL----ELRRT-ESPEELERRLATAP-LELE-QLPE----FDYVVVNPED-RLDEAVAQIMAIISAE 195 (206)
T ss_pred EEEeCCCHHHHHHHH----HHcCC-CCHHHHHHHHHHHH-HHHh-cccC----CCEEEECCCC-CHHHHHHHHHHHHHHH
Confidence 4454 4566666772 22332 25666666655421 1111 1112 2567788874 8999999998777543
No 372
>PLN02165 adenylate isopentenyltransferase
Probab=81.49 E-value=3.1 Score=50.06 Aligned_cols=34 Identities=26% Similarity=0.411 Sum_probs=31.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGAL 893 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~ 893 (1619)
.++.+-|+.|+||++.+..||+.++..++|.|.|
T Consensus 44 ~iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs~ 77 (334)
T PLN02165 44 KVVVIMGATGSGKSRLSVDLATRFPSEIINSDKM 77 (334)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHcCCceecCChh
Confidence 4788889999999999999999999999998877
No 373
>PRK00300 gmk guanylate kinase; Provisional
Probab=81.19 E-value=5.6 Score=44.54 Aligned_cols=26 Identities=23% Similarity=0.417 Sum_probs=22.7
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhC
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLG 884 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~ 884 (1619)
..+|.+.|++|+||++.++.++..+.
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence 34688889999999999999998875
No 374
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=80.86 E-value=7.4 Score=37.11 Aligned_cols=66 Identities=21% Similarity=0.185 Sum_probs=51.7
Q ss_pred eEEEEEEEEcCCeEE-EEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecc
Q psy14505 1344 RLLGKVTNLTDYGAF-VEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQC 1414 (1619)
Q Consensus 1344 iv~g~V~~v~~~G~f-V~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~ 1414 (1619)
.++|+|+.+.+.+.| |++.+|..-+.|++== ...-.-...+||.|.+.+-.+|..+++|....++.
T Consensus 8 e~~G~V~e~Lp~~~frV~LenG~~vla~isGK-----mR~~rIrIl~GD~V~VE~spYDltkGRIiyR~~~~ 74 (87)
T PRK12442 8 ELDGIVDEVLPDSRFRVTLENGVEVGAYASGR-----MRKHRIRILAGDRVTLELSPYDLTKGRINFRHKDE 74 (87)
T ss_pred EEEEEEEEECCCCEEEEEeCCCCEEEEEeccc-----eeeeeEEecCCCEEEEEECcccCCceeEEEEecCC
Confidence 467999999998866 4899998888876642 22223345689999999999999999999988853
No 375
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=77.27 E-value=11 Score=34.50 Aligned_cols=60 Identities=32% Similarity=0.341 Sum_probs=46.5
Q ss_pred eEEEEEEEEcCCeEE-EEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEE
Q psy14505 1344 RLLGKVTNLTDYGAF-VEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRIS 1408 (1619)
Q Consensus 1344 iv~g~V~~v~~~G~f-V~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~ 1408 (1619)
.+.|.|+...+.|.| |++.+|..-+.|++== ...-.-...+||.|.+.+-.+|..+++|.
T Consensus 6 e~~G~V~e~L~~~~f~V~l~ng~~vla~i~GK-----mr~~rI~I~~GD~V~Ve~spyd~tkgrIi 66 (68)
T TIGR00008 6 EMEGKVTESLPNAMFRVELENGHEVLAHISGK-----IRMHYIRILPGDKVKVELSPYDLTRGRIT 66 (68)
T ss_pred EEEEEEEEECCCCEEEEEECCCCEEEEEecCc-----chhccEEECCCCEEEEEECcccCCcEeEE
Confidence 467999999998865 5889998888876642 22224456789999999999998888875
No 376
>KOG3327|consensus
Probab=77.21 E-value=8.8 Score=41.90 Aligned_cols=97 Identities=20% Similarity=0.146 Sum_probs=56.0
Q ss_pred HhhhcCCCeEEec-------------cccCeeeecCC-----CeEEEEEcCHHHHHHhchHHHHhcCCCCCHHHH--HHH
Q psy14505 968 VKFRKFPGLVADG-------------RDMGTTVFPDA-----FLKIFLTADIKQRTKRRYKQLMQKGFSVSMSDL--LIN 1027 (1619)
Q Consensus 968 r~~a~~~~~V~~G-------------Rd~~~~v~p~a-----~~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~--~~~ 1027 (1619)
.++++...||+|= =|..|+.-||. |+-+||++||++-|+| ..-|....+... .+.
T Consensus 84 e~l~kg~~~ivDRY~~SGvAyS~AKgl~~dWc~~pd~gL~KPDlvlfL~v~p~~~a~r-----ggfG~Erye~v~fqekv 158 (208)
T KOG3327|consen 84 EKLAKGTTLIVDRYSFSGVAYSAAKGLDLDWCKQPDVGLPKPDLVLFLDVSPEDAARR-----GGFGEERYETVAFQEKV 158 (208)
T ss_pred HHHhcCCeEEEecceecchhhhhhcCCCcchhhCCccCCCCCCeEEEEeCCHHHHHHh-----cCcchhHHHHHHHHHHH
Confidence 3556655577663 34455555653 5999999999996666 222322111111 111
Q ss_pred HHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhhhhhhhhh
Q psy14505 1028 LIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCFATLFKES 1077 (1619)
Q Consensus 1028 i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i~~ll~e~ 1077 (1619)
..-+-+. .|.-.++- .++|.| .++|+|...|...++..+.+.
T Consensus 159 ~~~~q~l--~r~e~~~~-----~~vDAs-~sve~V~~~V~~i~e~~~~~~ 200 (208)
T KOG3327|consen 159 LVFFQKL--LRKEDLNW-----HVVDAS-KSVEKVHQQVRSLVENVLSEP 200 (208)
T ss_pred HHHHHHH--HhccCCCe-----EEEecC-ccHHHHHHHHHHHHHHhccCC
Confidence 1111111 13333443 789999 699999999987777766643
No 377
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=76.95 E-value=1.3e+02 Score=33.63 Aligned_cols=223 Identities=12% Similarity=0.054 Sum_probs=107.1
Q ss_pred ccCcceEEEEccCccEEeccCchhhhcccCCCCccccccCCCC-eEEEEEEeeCccEEEEEee-CceEEEEEcccCCCCC
Q psy14505 539 IASQDMVITLSNLGYIKSQPISEYRAQKRGGRGKKAMMTKDED-WINQLFIANTHDYILCFSN-YGRLYWLKVWQIPQGS 616 (1619)
Q Consensus 539 i~~e~~~v~ls~~GyiKr~~~~~~~~~~r~g~g~~~~~~k~~D-~~~~~~~~~t~d~llifT~-~Gkv~~i~v~elp~~~ 616 (1619)
.++.+.+++.+.+|.++-.+....+ ....+...+ .+..+.. .....+++.+. .|.++..... .
T Consensus 60 ~~~~~~l~~~~~~~~i~i~~~~~~~---------~~~~~~~~~~~i~~~~~-~~~~~~~~~~~~~~~i~~~~~~---~-- 124 (289)
T cd00200 60 SADGTYLASGSSDKTIRLWDLETGE---------CVRTLTGHTSYVSSVAF-SPDGRILSSSSRDKTIKVWDVE---T-- 124 (289)
T ss_pred CCCCCEEEEEcCCCeEEEEEcCccc---------ceEEEeccCCcEEEEEE-cCCCCEEEEecCCCeEEEEECC---C--
Confidence 4455677778888888876554311 111222222 3333333 33355666666 7776655432 1
Q ss_pred ccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCC-CCeEEEEE
Q psy14505 617 RNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSN-EDFLIGAA 695 (1619)
Q Consensus 617 ~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke-~D~l~~~~ 695 (1619)
+.+...+- .....+..+... ++..+++..+.+|.++..+....... ..+.. .+.+..+.
T Consensus 125 ----~~~~~~~~--~~~~~i~~~~~~-------~~~~~l~~~~~~~~i~i~d~~~~~~~-------~~~~~~~~~i~~~~ 184 (289)
T cd00200 125 ----GKCLTTLR--GHTDWVNSVAFS-------PDGTFVASSSQDGTIKLWDLRTGKCV-------ATLTGHTGEVNSVA 184 (289)
T ss_pred ----cEEEEEec--cCCCcEEEEEEc-------CcCCEEEEEcCCCcEEEEEccccccc-------eeEecCccccceEE
Confidence 22222222 122345554433 34566666666999988776532111 11222 22444444
Q ss_pred EecCCCeEEEEeCCceEEEEecccccccCCCCCCccceec-CCCCEEEEEEEecCCCCcEEEEEe-cCceeEEecccccc
Q psy14505 696 LTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIGMRL-EKKQKVIALLVSNNQKQSVLTATE-NGYGKRTLIKEYTK 773 (1619)
Q Consensus 696 ~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~i~L-~~~e~Iv~~~~~~~~~~~ll~~T~-~G~~Kr~~l~e~~~ 773 (1619)
.......+++.+..|.+..+.... |.....+ .....+.++...++ ..+++... +|.++...+...
T Consensus 185 ~~~~~~~l~~~~~~~~i~i~d~~~---------~~~~~~~~~~~~~i~~~~~~~~--~~~~~~~~~~~~i~i~~~~~~-- 251 (289)
T cd00200 185 FSPDGEKLLSSSSDGTIKLWDLST---------GKCLGTLRGHENGVNSVAFSPD--GYLLASGSEDGTIRVWDLRTG-- 251 (289)
T ss_pred ECCCcCEEEEecCCCcEEEEECCC---------CceecchhhcCCceEEEEEcCC--CcEEEEEcCCCcEEEEEcCCc--
Confidence 444444677777788888776643 1111222 11224555443333 34444443 787776655331
Q ss_pred cccccccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEEE
Q psy14505 774 HNRGTKGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILIR 816 (1619)
Q Consensus 774 ~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~lr 816 (1619)
.....+......+..+........++..+.+|.+..
T Consensus 252 -------~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~d~~i~i 287 (289)
T cd00200 252 -------ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRI 287 (289)
T ss_pred -------eeEEEccccCCcEEEEEECCCCCEEEEecCCCeEEe
Confidence 111222221233444443333355666666665543
No 378
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=76.76 E-value=10 Score=41.37 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=23.5
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEec
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLD 889 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~d 889 (1619)
++.+-|++|+||++.++.|+..+...++.
T Consensus 3 ii~l~G~~GsGKsTl~~~L~~~~~~~~~~ 31 (180)
T TIGR03263 3 LIVISGPSGVGKSTLVKALLEEDPNLKFS 31 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHccCcccccc
Confidence 57788999999999999999876554443
No 379
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=76.47 E-value=12 Score=35.84 Aligned_cols=65 Identities=18% Similarity=0.227 Sum_probs=53.0
Q ss_pred EEEEEEEEEecceEEE-eeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeec
Q psy14505 1431 KIKGIIKSITDFGIFI-GLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQ 1500 (1619)
Q Consensus 1431 ~v~G~V~~i~~~GvfV-~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~ 1500 (1619)
.+.|.|+.+.+.+.|. ++.+|..-++|.+---...+ -...+||.|.+-+...|.++++|..-.+.
T Consensus 8 e~~G~V~e~Lp~~~frV~LenG~~vla~isGKmR~~r-----IrIl~GD~V~VE~spYDltkGRIiyR~~~ 73 (87)
T PRK12442 8 ELDGIVDEVLPDSRFRVTLENGVEVGAYASGRMRKHR-----IRILAGDRVTLELSPYDLTKGRINFRHKD 73 (87)
T ss_pred EEEEEEEEECCCCEEEEEeCCCCEEEEEeccceeeee-----EEecCCCEEEEEECcccCCceeEEEEecC
Confidence 5789999999998775 99999999988764331112 23779999999999999999999999985
No 380
>PLN02772 guanylate kinase
Probab=75.85 E-value=13 Score=45.75 Aligned_cols=40 Identities=20% Similarity=0.340 Sum_probs=28.0
Q ss_pred CCceEEEEEE-eeccccccccccEEEecCCcCCCCchhHHHHHHHh
Q psy14505 839 NKSKLCGVQR-LCKITMIKKYIPVITIDGPTASGKGTVAQLVASKL 883 (1619)
Q Consensus 839 ~~d~v~~~~~-~~~~~~~k~~~~iIti~g~~gsGK~~~~~~la~~l 883 (1619)
.|++|+.... .+.. ....+.+.|++|+||+++.+.|.+.+
T Consensus 119 ~~~eV~~~~~~~~~~-----~~k~iVlsGPSGvGKsTL~~~L~~~~ 159 (398)
T PLN02772 119 LGTEVVAWSKGVRGN-----AEKPIVISGPSGVGKGTLISMLMKEF 159 (398)
T ss_pred ccceeeecccCCCCC-----CCcEEEEECCCCCCHHHHHHHHhhhc
Confidence 3667776543 2221 33567888999999999999987754
No 381
>COG1530 CafA Ribonucleases G and E [Translation, ribosomal structure and biogenesis]
Probab=74.36 E-value=4.8 Score=51.35 Aligned_cols=77 Identities=17% Similarity=0.147 Sum_probs=59.7
Q ss_pred ccccceeEEEEEEEEcCC--eEEEEEcCCEEEEEeccccCccccCCCc-----cccccCCCEEEEEEEEeecccceEEEe
Q psy14505 1338 RYPRGTRLLGKVTNLTDY--GAFVEIEKGIEGLVHISEMDWINKNVTP-----SKIVQLNDTVEIMILEINEERRRISLG 1410 (1619)
Q Consensus 1338 ~l~~G~iv~g~V~~v~~~--G~fV~l~~gv~GlV~~sels~~~~~~~~-----~~~~~vG~~V~vrVl~id~e~~ri~LS 1410 (1619)
...+|.++.|+|+++.+. .+||+++.+-.||+|.+++.+ +...+ ...++.||.+-+.|+.-....+--.||
T Consensus 34 ~~~~gniy~grv~~i~p~~~aafvdig~~r~gfl~~~~~~~--~~~~~~~~~i~~~lr~~~~~~Vqv~ke~~G~Kga~lT 111 (487)
T COG1530 34 EQIVGNIYKGRVTRVLPSLEAAFVDIGLERNGFLHLSEIVP--YFRAVLEEKIKVRLRGGQATLVQVVKEPRGTKGARLT 111 (487)
T ss_pred EeeecCceEEEecccCccchhheeeccCCccceEEecccch--hhhhcccccceeeecCCceEEEEEEeecCccccccce
Confidence 456899999999999986 799999999999999999976 22222 357888999999888766555555566
Q ss_pred eecccC
Q psy14505 1411 MKQCKD 1416 (1619)
Q Consensus 1411 lK~~~~ 1416 (1619)
..-+..
T Consensus 112 ~~Is~~ 117 (487)
T COG1530 112 TDISLA 117 (487)
T ss_pred eEEeec
Confidence 555443
No 382
>KOG3298|consensus
Probab=74.06 E-value=15 Score=38.91 Aligned_cols=61 Identities=20% Similarity=0.329 Sum_probs=43.6
Q ss_pred CCCEEEEEEEEEEeCeEEEEeCCEEEEEcCcccc----cCCCCC-C--------CCCCCCeEEEEEEEEecCCC
Q psy14505 1169 SGEIITGTINGKVKGGLTVLTNGLKAFLPGSLVD----IRPVKD-T--------TPFEGKTMDFKVIKLDRKRN 1229 (1619)
Q Consensus 1169 ~G~~v~g~V~~v~~~Gl~V~~gg~~gflp~s~~~----~~~~~~-~--------~~~vG~~v~~~Vl~vd~~~~ 1229 (1619)
.|+++.|+|+++.+.|+.+..|-+.-|+...... ..+.++ + .-.+|..|+++|+.+.-...
T Consensus 81 KGEVvdgvV~~Vnk~G~F~~~GPl~~f~sshl~ppd~~f~p~~n~P~f~~~d~s~I~~~~~VR~kiigtr~~~~ 154 (170)
T KOG3298|consen 81 KGEVVDGVVTKVNKMGVFARSGPLEVFYSSHLKPPDYEFDPGENPPNFQTEDESVIQKGVEVRLKIIGTRVDET 154 (170)
T ss_pred CCcEEEEEEEEEeeeeEEEeccceEeeeecccCCCCcccCCCCCCCcccccccceeeeCcEEEEEEEEEEEeee
Confidence 6999999999999999999999998887654332 112211 1 11268889999988765443
No 383
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=73.60 E-value=6.4 Score=44.41 Aligned_cols=28 Identities=32% Similarity=0.376 Sum_probs=23.4
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCE
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFH 886 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~ 886 (1619)
.+.|++.|.-|+||+|.++.+++++.-.
T Consensus 3 g~fI~iEGiDGaGKTT~~~~L~~~l~~~ 30 (208)
T COG0125 3 GMFIVIEGIDGAGKTTQAELLKERLEER 30 (208)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3679999999999999999998766444
No 384
>PF10246 MRP-S35: Mitochondrial ribosomal protein MRP-S35; InterPro: IPR019375 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of short mitochondrial ribosomal proteins, less than 200 amino acids long. MRP-S35 was proposed as a more appropriate name to this group of proteins [].
Probab=72.16 E-value=10 Score=37.14 Aligned_cols=54 Identities=11% Similarity=0.318 Sum_probs=46.0
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEee
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEIN 1401 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id 1401 (1619)
..|.+|.|+|..+.+.-+|++++....++++..... .+.|..|+.|..++....
T Consensus 22 ~~gk~V~G~I~hvv~ddLYIDfG~KFhcVc~rp~~~--------~~~y~~G~rV~lrLkdlE 75 (104)
T PF10246_consen 22 PEGKIVIGKIFHVVDDDLYIDFGGKFHCVCKRPAVN--------GEKYVRGSRVRLRLKDLE 75 (104)
T ss_pred ccCCEEEEEEEEEecCceEEEeCCceeEEEeccccc--------ccccccCCEEEEEECCHh
Confidence 579999999999999999999999999999866552 346889999999987654
No 385
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=70.50 E-value=21 Score=39.00 Aligned_cols=118 Identities=19% Similarity=0.306 Sum_probs=65.1
Q ss_pred EEEecCCcCCCCchhHHHHHHHhC--CEEechhhHHHHH-----HHHHHHcCCCC---CcHHHHHHHHHcccceecCceE
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLG--FHYLDSGALYRLV-----TLSAINNNIQL---DNELELVILIKKLNYNFLGKEV 930 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~--~~~~dtg~~yr~~-----~~~a~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~ 930 (1619)
++.+.|++||||++.+..++..++ +.|++|+..++.- ...-.+++-.. +.+..+.+.+... . -.+..+
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~-~-~~~~~V 80 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRAD-A-APGRCV 80 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhh-c-CCCCEE
Confidence 577789999999999999999977 7899998776532 11111222111 1122333333221 0 011234
Q ss_pred EeCCccccccccccccccccccccc-cHHHHHHHHHHHHhhhcCC-CeEEeccccCeeeec
Q psy14505 931 YLNGVNVTTLIRNEKVSNNASKIAK-FKNIRKELFKIQVKFRKFP-GLVADGRDMGTTVFP 989 (1619)
Q Consensus 931 ~~~~~~v~~~ir~~~~~~~~s~~a~-~~~vr~~~~~~~r~~a~~~-~~V~~GRd~~~~v~p 989 (1619)
.+|+- +.-++.... .. ...++..+.++++.+.+.+ .+|+++-..|+=+-|
T Consensus 81 lID~L--t~~~~n~l~-------~~~~~~~~~~l~~li~~L~~~~~tvVlVs~Evg~g~vp 132 (170)
T PRK05800 81 LVDCL--TTWVTNLLF-------EEGEEAIAAEIDALLAALQQLPAKIILVTNEVGMGIVP 132 (170)
T ss_pred EehhH--HHHHHHHhc-------ccchHHHHHHHHHHHHHHHcCCCCEEEEEcCCcccccC
Confidence 44432 111110000 01 1345666666777776644 799999888877777
No 386
>COG3709 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=70.04 E-value=14 Score=39.53 Aligned_cols=162 Identities=19% Similarity=0.260 Sum_probs=88.6
Q ss_pred EEEecCCcCCCCchhHHHHHHHhC----CEEechhhHHHHHHHHHHHc--CCCCCcHHHHHHHHHcccceecCceEEeCC
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLG----FHYLDSGALYRLVTLSAINN--NIQLDNELELVILIKKLNYNFLGKEVYLNG 934 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~----~~~~dtg~~yr~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 934 (1619)
.|.+-||+|+||.+.......++- +.|.- |.++.-|.-- +-+.-+..++.+.+.+-.+.+.
T Consensus 7 lI~vvGPSGAGKDtl~~~ar~~l~~~~r~~fvr-----RvITRpa~ag~EdH~avs~~eF~~~a~~g~FAls-------- 73 (192)
T COG3709 7 LIAVVGPSGAGKDTLLDAARARLAGRPRLHFVR-----RVITRPADAGGEDHDALSEAEFNTRAGQGAFALS-------- 73 (192)
T ss_pred EEEEECCCCCChHHHHHHHHHHhccCCceEEEE-----EEecccCCCCcccccccCHHHHHHHhhcCceeEE--------
Confidence 567778999999998776655443 55554 3233222111 1122234455555554433332
Q ss_pred ccccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccCeeeecCCC------eEEEEEcCHHHHHHhc
Q psy14505 935 VNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMGTTVFPDAF------LKIFLTADIKQRTKRR 1008 (1619)
Q Consensus 935 ~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~~~v~p~a~------~kifl~A~~e~Ra~Rr 1008 (1619)
+.-. .. .+..--+|..+ ++...-+|+-|- -+ ++|++- +-|-|+|+|++-|+|
T Consensus 74 ----WqAh-----GL--~Ygip~eId~w-------l~~G~vvl~NgS-Ra--~Lp~arrry~~Llvv~ita~p~VLaqR- 131 (192)
T COG3709 74 ----WQAH-----GL--SYGIPAEIDLW-------LAAGDVVLVNGS-RA--VLPQARRRYPQLLVVCITASPEVLAQR- 131 (192)
T ss_pred ----ehhc-----Cc--cccCchhHHHH-------HhCCCEEEEecc-Hh--hhHHHHHhhhcceeEEEecCHHHHHHH-
Confidence 0000 00 01111144433 445445555563 13 667642 778999999999999
Q ss_pred hHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1009 YKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1009 ~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
|.++|- .|.+++++.+.+ -..+.. ...|...||.|. .+|...+..+..+
T Consensus 132 ---L~~RGR-Es~eeI~aRL~R----~a~~~~----~~~dv~~idNsG-~l~~ag~~ll~~l 180 (192)
T COG3709 132 ---LAERGR-ESREEILARLAR----AARYTA----GPGDVTTIDNSG-ELEDAGERLLALL 180 (192)
T ss_pred ---HHHhcc-CCHHHHHHHHHh----hccccc----CCCCeEEEcCCC-cHHHHHHHHHHHH
Confidence 555554 477777775543 222222 245688999997 6666666665544
No 387
>KOG1240|consensus
Probab=67.68 E-value=34 Score=46.82 Aligned_cols=161 Identities=13% Similarity=0.142 Sum_probs=108.0
Q ss_pred ccccccCCCCCCccceecCCCCE-EEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEE
Q psy14505 718 NSVRAMGRSARGVIGMRLEKKQK-VIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAA 796 (1619)
Q Consensus 718 ~eIp~~~r~a~Gv~~i~L~~~e~-Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~ 796 (1619)
...|..||+-+|+.+..|.++.. +....+.++....++..+.+|.+|.=.+.+.....- .-..-.+...-+..+-.+
T Consensus 1027 ~~~p~~gW~p~G~lVAhL~Ehs~~v~k~a~s~~~~s~FvsgS~DGtVKvW~~~k~~~~~~--s~rS~ltys~~~sr~~~v 1104 (1431)
T KOG1240|consen 1027 VGSPPPGWNPRGILVAHLHEHSSAVIKLAVSSEHTSLFVSGSDDGTVKVWNLRKLEGEGG--SARSELTYSPEGSRVEKV 1104 (1431)
T ss_pred cCCCCCCCCccceEeehhhhccccccceeecCCCCceEEEecCCceEEEeeehhhhcCcc--eeeeeEEEeccCCceEEE
Confidence 45788898989988877766543 334444444236778889999999988888763310 011122222114556666
Q ss_pred EEecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCCceEEEEEEeeccccccccccEEEecCCcCCCCchhH
Q psy14505 797 TLVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENKSKLCGVQRLCKITMIKKYIPVITIDGPTASGKGTVA 876 (1619)
Q Consensus 797 ~~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~d~v~~~~~~~~~~~~k~~~~iIti~g~~gsGK~~~~ 876 (1619)
..+...+.+.+.|++|.+..+.++....-.+.+.-++..++++++.++++......... ..+++.|
T Consensus 1105 t~~~~~~~~Av~t~DG~v~~~~id~~~~~~~~~~~~ri~n~~~~g~vv~m~a~~~~~~S-~~lvy~T------------- 1170 (1431)
T KOG1240|consen 1105 TMCGNGDQFAVSTKDGSVRVLRIDHYNVSKRVATQVRIPNLKKDGVVVSMHAFTAIVQS-HVLVYAT------------- 1170 (1431)
T ss_pred EeccCCCeEEEEcCCCeEEEEEccccccccceeeeeecccccCCCceEEeecccccccc-eeEEEEE-------------
Confidence 77788899999999999999999887666677777888889999999998766544200 0111222
Q ss_pred HHHHHHhCCEEechhhHHHHHH
Q psy14505 877 QLVASKLGFHYLDSGALYRLVT 898 (1619)
Q Consensus 877 ~~la~~l~~~~~dtg~~yr~~~ 898 (1619)
.--++.+.|++.+.++-.
T Consensus 1171 ----~~~~iv~~D~r~~~~~w~ 1188 (1431)
T KOG1240|consen 1171 ----DLSRIVSWDTRMRHDAWR 1188 (1431)
T ss_pred ----eccceEEecchhhhhHHh
Confidence 233688999987777433
No 388
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=67.59 E-value=11 Score=45.31 Aligned_cols=38 Identities=39% Similarity=0.536 Sum_probs=33.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhh--HHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGA--LYRLV 897 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~--~yr~~ 897 (1619)
.+|.+.|+.|+||++.+..||+.++..+++.+. +|+.+
T Consensus 5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~Ds~Qvy~~l 44 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIELAKRLNGEIISADSMQVYRGM 44 (307)
T ss_pred eEEEEECCCCcCHHHHHHHHHHhCCCcEEeccccceeecc
Confidence 468888999999999999999999999998877 68743
No 389
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=67.04 E-value=27 Score=32.03 Aligned_cols=61 Identities=18% Similarity=0.287 Sum_probs=47.9
Q ss_pred EEEEEEEEEecceEEE-eeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEE
Q psy14505 1431 KIKGIIKSITDFGIFI-GLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISL 1496 (1619)
Q Consensus 1431 ~v~G~V~~i~~~GvfV-~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~L 1496 (1619)
.+.|.|+...+.|.|- ++.+|..-++|.+---.... -...+||.|.+.+-..|.++++|..
T Consensus 6 e~~G~V~e~L~~~~f~V~l~ng~~vla~i~GKmr~~r-----I~I~~GD~V~Ve~spyd~tkgrIi~ 67 (68)
T TIGR00008 6 EMEGKVTESLPNAMFRVELENGHEVLAHISGKIRMHY-----IRILPGDKVKVELSPYDLTRGRITY 67 (68)
T ss_pred EEEEEEEEECCCCEEEEEECCCCEEEEEecCcchhcc-----EEECCCCEEEEEECcccCCcEeEEe
Confidence 4789999999998765 99999999998764331112 2478999999999999999888863
No 390
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=65.62 E-value=25 Score=45.25 Aligned_cols=34 Identities=15% Similarity=0.299 Sum_probs=30.4
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGAL 893 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~ 893 (1619)
.++.+.|.+||||++.++.++...|+.+++.+.+
T Consensus 370 ~LVil~G~pGSGKST~A~~l~~~~g~~~vn~D~l 403 (526)
T TIGR01663 370 EMVIAVGFPGAGKSHFCKKFFQPAGYKHVNADTL 403 (526)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHcCCeEECcHHH
Confidence 3566678999999999999999999999999876
No 391
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=65.59 E-value=43 Score=37.47 Aligned_cols=35 Identities=29% Similarity=0.347 Sum_probs=26.3
Q ss_pred EEEecCCcCCCCchhHHHHHHHh---CCEEechhhHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASKL---GFHYLDSGALYR 895 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l---~~~~~dtg~~yr 895 (1619)
.|...|++|+||.+.++.||+.| ++..++-+.=|+
T Consensus 3 LiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~kdy~ 40 (261)
T COG4088 3 LIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKDYL 40 (261)
T ss_pred eEEEecCCCCCchHHHHHHHHHHHHhhhhccccchhhh
Confidence 46667999999999999999655 566666555444
No 392
>PRK07933 thymidylate kinase; Validated
Probab=65.20 E-value=58 Score=36.95 Aligned_cols=25 Identities=28% Similarity=0.486 Sum_probs=22.3
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhC
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLG 884 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~ 884 (1619)
+.|++.|.-|+||+|.++.|++.|.
T Consensus 1 ~~IviEG~dGsGKST~~~~L~~~L~ 25 (213)
T PRK07933 1 MLIAIEGVDGAGKRTLTEALRAALE 25 (213)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3688999999999999999998874
No 393
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=64.89 E-value=58 Score=29.38 Aligned_cols=51 Identities=20% Similarity=0.269 Sum_probs=38.7
Q ss_pred EEEEEEEEec--CceEEEEecCCeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1519 VNGIIKSIDT--NKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1519 v~g~V~~i~~--~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
.+|+|+.... .||.+..-.++-.-|+|.+.+.......+.+|+.|.+.+..
T Consensus 1 ~~G~V~~~~~~kgyGFI~~~~~~~diFfh~s~~~~~~~~~l~~G~~V~F~~~~ 53 (66)
T PF00313_consen 1 MTGTVKWFDDEKGYGFITSDDGGEDIFFHISDLSGNGFRSLKEGDRVEFEVEE 53 (66)
T ss_dssp EEEEEEEEETTTTEEEEEETTSSSEEEEEGGGBCSSSSTS--TTSEEEEEEEE
T ss_pred CeEEEEEEECCCCceEEEEcccceeEEeccccccccccccCCCCCEEEEEEEE
Confidence 3688888874 67766665556689999999876655789999999999987
No 394
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.31 E-value=28 Score=37.29 Aligned_cols=31 Identities=26% Similarity=0.455 Sum_probs=22.3
Q ss_pred EecCCcCCCCchhHHHHH--HHhCCEEechhhH
Q psy14505 863 TIDGPTASGKGTVAQLVA--SKLGFHYLDSGAL 893 (1619)
Q Consensus 863 ti~g~~gsGK~~~~~~la--~~l~~~~~dtg~~ 893 (1619)
.+.|+.|+||+|+....- ..-++.|+|++.|
T Consensus 6 IvaG~NGsGKstv~~~~~~~~~~~~~~VN~D~i 38 (187)
T COG4185 6 IVAGPNGSGKSTVYASTLAPLLPGIVFVNADEI 38 (187)
T ss_pred EEecCCCCCceeeeeccchhhcCCeEEECHHHH
Confidence 345899999998865433 2336899998766
No 395
>cd05700 S1_Rrp5_repeat_hs9 S1_Rrp5_repeat_hs9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes Homo sapiens S1 repeat 9 (hs9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=62.35 E-value=29 Score=30.66 Aligned_cols=62 Identities=23% Similarity=0.417 Sum_probs=41.7
Q ss_pred ceEEEEEEEEEecceEEEeeCCCeEEEE---eCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEee
Q psy14505 1429 GEKIKGIIKSITDFGIFIGLDGNIDGLI---HLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGI 1498 (1619)
Q Consensus 1429 G~~v~G~V~~i~~~GvfV~~~~~v~Glv---~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSl 1498 (1619)
|+..+-.|..+++.|--+--.+.+.|+. .+-+.. ...+.+||.+++.|+.||.-+-.+.+|+
T Consensus 1 G~~L~LvV~~~~edgsv~fs~g~v~g~tv~AtryH~~--------g~nl~pGqK~kaviLhvD~l~~~VhVSl 65 (65)
T cd05700 1 GDQLKLVVQDVTEDGSVMFSGGQVSGLTVLASRYHKE--------GVNVTPGCKLKAVILHVDFVKSQVHVSL 65 (65)
T ss_pred CceEEEEEeeeccCCcEEEecCCcCCcEEEEEEEEec--------ceecCCCceeEEEEEEEeeEEeEEEEeC
Confidence 5666777888777775554555566653 222222 1247899999999999998776666664
No 396
>KOG3877|consensus
Probab=61.67 E-value=5.5 Score=45.64 Aligned_cols=37 Identities=32% Similarity=0.526 Sum_probs=31.7
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEe---chhhHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYL---DSGALYR 895 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~---dtg~~yr 895 (1619)
-.+|+++|.-|+||+..++.||++||+.|+ +.|++|-
T Consensus 71 SkvI~VeGnI~sGK~klAKelAe~Lgf~hfP~~~~d~iyv 110 (393)
T KOG3877|consen 71 SKVIVVEGNIGSGKTKLAKELAEQLGFVHFPEFRMDDIYV 110 (393)
T ss_pred ceEEEEeCCcccCchhHHHHHHHHhCCcccccccccceee
Confidence 468999999999999999999999999887 4555554
No 397
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=61.06 E-value=42 Score=37.54 Aligned_cols=36 Identities=28% Similarity=0.500 Sum_probs=27.1
Q ss_pred cEEEecCCcCCCCchhHHHHHHHh---CCEEechhhHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKL---GFHYLDSGALYR 895 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l---~~~~~dtg~~yr 895 (1619)
..+.+.|++|+||++....+...+ ++.++|.+.+-+
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~ 54 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQ 54 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGG
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHH
Confidence 456778999999999999998875 999999876533
No 398
>PHA00728 hypothetical protein
Probab=60.83 E-value=9.6 Score=37.84 Aligned_cols=64 Identities=25% Similarity=0.411 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCCCCCccccccccCCCCccccccCcceEEEEc
Q psy14505 470 MEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGSHKKNIRRSEIILNAINPSTEDLIASQDMVITLS 549 (1619)
Q Consensus 470 ~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~~~~~~~li~~e~~~v~ls 549 (1619)
.+++.|++|.++|.+++++|+.+++++.. -=.++|++|.+-|-- .-|+ ..+|++..+.++.+|
T Consensus 5 teveql~keneelkkkla~leal~nn~~~---~~~e~lqEiEnPYTV----TNRa----------IsElV~PkDTMfYLs 67 (151)
T PHA00728 5 TEVEQLKKENEELKKKLAELEALMNNESA---EEDEELQEIENPYTV----TNRA----------ISELVEPKDTMFYLS 67 (151)
T ss_pred hHHHHHHHhHHHHHHHHHHHHHHHcCCCc---hhhhhHHHhcCCcee----hhHH----------HHHhcCCccceEEec
Confidence 57889999999999999999999999653 224688899888876 2232 345677777777766
Q ss_pred c
Q psy14505 550 N 550 (1619)
Q Consensus 550 ~ 550 (1619)
.
T Consensus 68 g 68 (151)
T PHA00728 68 G 68 (151)
T ss_pred C
Confidence 4
No 399
>PRK15464 cold shock-like protein CspH; Provisional
Probab=60.54 E-value=29 Score=32.05 Aligned_cols=51 Identities=25% Similarity=0.328 Sum_probs=40.3
Q ss_pred EEEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1519 VNGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1519 v~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
++|+|+.-..+.|. |+.-++ +-.-|+|.+.+.......+.+||.|.+.|..
T Consensus 5 ~~G~Vk~fn~~KGfGFI~~~~g~~DvFvH~s~l~~~g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15464 5 MTGIVKTFDRKSGKGFIIPSDGRKEVQVHISAFTPRDAEVLIPGLRVEFCRVN 57 (70)
T ss_pred ceEEEEEEECCCCeEEEccCCCCccEEEEehhehhcCCCCCCCCCEEEEEEEE
Confidence 47899887755665 676666 5789999999976655789999999998875
No 400
>PLN02840 tRNA dimethylallyltransferase
Probab=59.51 E-value=13 Score=46.27 Aligned_cols=39 Identities=38% Similarity=0.474 Sum_probs=31.5
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCE--EechhhHHHHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFH--YLDSGALYRLV 897 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~--~~dtg~~yr~~ 897 (1619)
..+|.+.|+.|+||++.+..||++++.. ..|+--+||.+
T Consensus 21 ~~vi~I~GptgsGKTtla~~La~~~~~~iis~Ds~qvYr~~ 61 (421)
T PLN02840 21 EKVIVISGPTGAGKSRLALELAKRLNGEIISADSVQVYRGL 61 (421)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHCCCCeEeccccceecce
Confidence 4578999999999999999999999854 45555678733
No 401
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=59.37 E-value=2.9e+02 Score=30.76 Aligned_cols=144 Identities=12% Similarity=0.118 Sum_probs=75.5
Q ss_pred CCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCC-eEEEEEEecCCCeEEEEeC-CceEEEEecccccccCCCC
Q psy14505 650 PKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNED-FLIGAALTDGSYDIMLFSD-SGKAVRFNENSVRAMGRSA 727 (1619)
Q Consensus 650 ~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D-~l~~~~~~~~~d~lll~T~-~G~~~~~~~~eIp~~~r~a 727 (1619)
++...+++.+.+|.++......-.. ...+...+ .+..+..... ..+++.+. .|.+..+....
T Consensus 61 ~~~~~l~~~~~~~~i~i~~~~~~~~-------~~~~~~~~~~i~~~~~~~~-~~~~~~~~~~~~i~~~~~~~-------- 124 (289)
T cd00200 61 ADGTYLASGSSDKTIRLWDLETGEC-------VRTLTGHTSYVSSVAFSPD-GRILSSSSRDKTIKVWDVET-------- 124 (289)
T ss_pred CCCCEEEEEcCCCeEEEEEcCcccc-------eEEEeccCCcEEEEEEcCC-CCEEEEecCCCeEEEEECCC--------
Confidence 4456888899999999887754211 12222222 4444443333 55666666 88888776641
Q ss_pred CCccceecC-CCCEEEEEEEecCCCCcEEEEEe-cCceeEEecccccccccccccceeeeeccCCCeEEEEEEecCCcEE
Q psy14505 728 RGVIGMRLE-KKQKVIALLVSNNQKQSVLTATE-NGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEI 805 (1619)
Q Consensus 728 ~Gv~~i~L~-~~e~Iv~~~~~~~~~~~ll~~T~-~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i 805 (1619)
+.....+. ....|..+...++ ..+++... +|.++...+.... -...+. ...+.+..+.....+..+
T Consensus 125 -~~~~~~~~~~~~~i~~~~~~~~--~~~l~~~~~~~~i~i~d~~~~~-------~~~~~~--~~~~~i~~~~~~~~~~~l 192 (289)
T cd00200 125 -GKCLTTLRGHTDWVNSVAFSPD--GTFVASSSQDGTIKLWDLRTGK-------CVATLT--GHTGEVNSVAFSPDGEKL 192 (289)
T ss_pred -cEEEEEeccCCCcEEEEEEcCc--CCEEEEEcCCCcEEEEEccccc-------cceeEe--cCccccceEEECCCcCEE
Confidence 11112222 2234555444333 33444444 8887776653211 122222 212234444443444477
Q ss_pred EEEECCCeEEEEecCc
Q psy14505 806 MLITTGGILIRTRVSE 821 (1619)
Q Consensus 806 ~l~T~~g~~lrf~~~e 821 (1619)
++.+.+|.+..++...
T Consensus 193 ~~~~~~~~i~i~d~~~ 208 (289)
T cd00200 193 LSSSSDGTIKLWDLST 208 (289)
T ss_pred EEecCCCcEEEEECCC
Confidence 7777788888887754
No 402
>COG3896 Chloramphenicol 3-O-phosphotransferase [Defense mechanisms]
Probab=59.15 E-value=45 Score=35.61 Aligned_cols=91 Identities=10% Similarity=0.029 Sum_probs=51.0
Q ss_pred HHHHHHhhhcCC-CeEEeccccCeeeecCC-------C-eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhh
Q psy14505 963 LFKIQVKFRKFP-GLVADGRDMGTTVFPDA-------F-LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDI 1033 (1619)
Q Consensus 963 ~~~~~r~~a~~~-~~V~~GRd~~~~v~p~a-------~-~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~ 1033 (1619)
....++.+|..| +++.|---+.--.+||+ + .-|=++++.|+-++|+..| .+...-+. |-.
T Consensus 103 ~r~ai~a~ad~G~~~i~Ddv~~~r~~L~Dc~r~l~g~~v~~VGV~~p~E~~~~Re~rr---~dR~pG~~--------rg~ 171 (205)
T COG3896 103 RRRAIRAYADNGMNVIADDVIWTREWLVDCLRVLEGCRVWMVGVHVPDEEGARRELRR---GDRHPGWN--------RGS 171 (205)
T ss_pred HHHHHHHHhccCcceeehhcccchhhHHHHHHHHhCCceEEEEeeccHHHHHHHHhhc---CCcCcchh--------hhh
Confidence 334556677776 45544322222344442 1 4456789999999996543 11111111 111
Q ss_pred hcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 1034 RDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 1034 ~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
.+.-.. .+++++.+|||.+++.||+..|.+.
T Consensus 172 ~r~vHa-----~~~YDlevDTS~~tp~EcAr~i~~r 202 (205)
T COG3896 172 ARAVHA-----DAEYDLEVDTSATTPHECAREIHER 202 (205)
T ss_pred HHHhcC-----CcceeeeecccCCCHHHHHHHHHHH
Confidence 111112 2344599999999999999988654
No 403
>TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase. The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene.
Probab=57.51 E-value=54 Score=39.49 Aligned_cols=106 Identities=24% Similarity=0.320 Sum_probs=66.4
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCccccccc
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVNVTTLI 941 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i 941 (1619)
+...|..|+||..+...++.. |+..+|...+ |. -.|= .|+ ++-+ +
T Consensus 130 ~vl~g~tg~gKt~Ll~~L~~~-~~~VvDlr~~----a~---hrGs-----------------~fG--~~~~-~------- 174 (311)
T TIGR03167 130 IVLGGMTGSGKTELLHALANA-GAQVLDLEGL----AN---HRGS-----------------SFG--ALGL-G------- 174 (311)
T ss_pred eccCCCCCcCHHHHHHHHhcC-CCeEEECCch----HH---hcCc-----------------ccC--CCCC-C-------
Confidence 346688999999999988766 8889996322 21 1110 000 0000 0
Q ss_pred cccccccccccccccHHHHHHHHHHHHhhhcCCCeEEec--cccCeeeecC-------CCeEEEEEcCHHHHHHhchHHH
Q psy14505 942 RNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADG--RDMGTTVFPD-------AFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 942 r~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~G--Rd~~~~v~p~-------a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
.-++....+..+....+.+.....+|+++ +-+|.+.+|+ +--.|+|.+|.|.|.+|..++.
T Consensus 175 ----------~qpsq~~fe~~L~~~l~~~~~~~~i~~e~es~~ig~~~~p~~l~~~m~~~~~i~i~~~~e~Rv~~l~~~Y 244 (311)
T TIGR03167 175 ----------PQPSQKRFENALAEALRRLDPGRPIFVEDESRRIGRVALPDALFEAMRAAPLVELEASLEERVERLVEEY 244 (311)
T ss_pred ----------CCCchHHHHHHHHHHHHhCCCCceEEEEeCchhhccccCCHHHHHHHhhCCEEEEECCHHHHHHHHHHHh
Confidence 01122234555555555554556788877 4488888888 2378999999999999966654
No 404
>KOG1004|consensus
Probab=57.03 E-value=33 Score=38.07 Aligned_cols=61 Identities=10% Similarity=0.145 Sum_probs=48.9
Q ss_pred ccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccC--CCccccCCCEEEEEEEEEe
Q psy14505 1081 HDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDN--GELEVKIGDFVSVAIESLE 1141 (1619)
Q Consensus 1081 ~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~--~~~~~kvG~~v~~~V~~v~ 1141 (1619)
+-..+|+.|-|.|++-..+.+.||+|+-..+-+|.-.|.+.. ....+++|+.|.|+|..-+
T Consensus 61 YiP~~~D~VIGiV~~~~gd~ykVDigg~~~a~L~~laFe~AtkrNrPnl~vGdliyakv~~a~ 123 (230)
T KOG1004|consen 61 YIPVKGDHVIGIVTSKSGDIYKVDIGGSEPASLSYLAFEGATKRNRPNLQVGDLIYAKVVDAN 123 (230)
T ss_pred ecCCCCCEEEEEEEeccCceEEEecCCCCeeeeeeccccCccccCCCccccccEEEEEEEecC
Confidence 356789999999999999999999999777888887775432 1125899999999996643
No 405
>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]
Probab=56.59 E-value=34 Score=39.95 Aligned_cols=26 Identities=35% Similarity=0.436 Sum_probs=22.5
Q ss_pred cccEEEecCCcCCCCchhHHHHHHHh
Q psy14505 858 YIPVITIDGPTASGKGTVAQLVASKL 883 (1619)
Q Consensus 858 ~~~iIti~g~~gsGK~~~~~~la~~l 883 (1619)
.-++|.+.|..|.||+|.++.+...+
T Consensus 81 ~pfIIgiaGsvavGKST~ar~L~~ll 106 (283)
T COG1072 81 RPFIIGIAGSVAVGKSTTARILQALL 106 (283)
T ss_pred CCEEEEeccCccccHHHHHHHHHHHH
Confidence 45789999999999999999887665
No 406
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=55.56 E-value=1.6e+02 Score=34.66 Aligned_cols=114 Identities=16% Similarity=0.165 Sum_probs=71.8
Q ss_pred ccceeEEEEEEEEcC-CeEEE-EEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeecccCC
Q psy14505 1340 PRGTRLLGKVTNLTD-YGAFV-EIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQCKDN 1417 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~-~G~fV-~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~~~~~ 1417 (1619)
+.|.+++|+|..-.+ ||+-. .+ +...-.||. ....+|+.++++|-.-| ++|.+++-...
T Consensus 230 e~~~vl~~~V~~hd~~y~lt~l~l-~~~~l~v~~-------------~~a~~g~~~R~~I~a~D-----Vslal~~P~~~ 290 (352)
T COG4148 230 EQSSVLEGTVLEHDPRYGLTALAL-GDQHLWVPK-------------LDAPVGARLRIRIQARD-----VSLALQKPEQT 290 (352)
T ss_pred ccceEEEEEehhcCCCcceEEEec-CceEEEeec-------------cCCCCCCcEEEEEEccc-----eEEEecCcccc
Confidence 578999999998865 67643 33 233333322 22358999999987655 67777642221
Q ss_pred CCcccccccccceEEEEEEEEEecce----EEEeeCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEee
Q psy14505 1418 PWENFSIIHKKGEKIKGIIKSITDFG----IFIGLDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSID 1488 (1619)
Q Consensus 1418 ~~~~~~~~~~vG~~v~G~V~~i~~~G----vfV~~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd 1488 (1619)
..-.++.|+|+.+.+.+ +++.+. |-.=+..++..+.++ -.+++||.|-+.|.+|-
T Consensus 291 ---------SirNiLp~~v~~i~~~~~~V~v~ld~~-g~~l~Arit~~srd~------L~l~~G~~v~AqIKsVs 349 (352)
T COG4148 291 ---------SIRNILPGKVVGIEDDDGQVDVQLDCG-GKTLWARITPWARDE------LALKPGQWVYAQIKSVS 349 (352)
T ss_pred ---------chhhccceeEEEEEcCCCcEEEEEEcC-CcEEEEEccHhhHHh------hcCCCCCeEEEEEEEEE
Confidence 22346778888887663 344443 444455556666322 25899999999998874
No 407
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=55.31 E-value=77 Score=38.67 Aligned_cols=34 Identities=21% Similarity=0.262 Sum_probs=27.7
Q ss_pred EEecCCcCCCCchhHHHHHHHhCC------EEechhhHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGF------HYLDSGALYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~------~~~dtg~~yr 895 (1619)
.+..|..|+||+|.++.++..+.- .++|.+.++.
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i~ 41 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDIIP 41 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccccccc
Confidence 345689999999999999988863 4888888875
No 408
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=55.18 E-value=24 Score=38.85 Aligned_cols=169 Identities=15% Similarity=0.197 Sum_probs=82.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCC--CcHHHHHHHHHc-ccceecCceEEeCCcc
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQL--DNELELVILIKK-LNYNFLGKEVYLNGVN 936 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 936 (1619)
+++.++||+|+||+|+.+.|-+..++.|-=| +--|.-- --...|.+. -..+++.++... ..++.. .+
T Consensus 5 ~l~vlsgPSG~GKsTl~k~L~~~~~l~~SVS-~TTR~pR-~gEv~G~dY~Fvs~~EF~~~i~~~~fLE~a----~~---- 74 (191)
T COG0194 5 LLIVLSGPSGVGKSTLVKALLEDDKLRFSVS-ATTRKPR-PGEVDGVDYFFVTEEEFEELIERDEFLEWA----EY---- 74 (191)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhcCeEEEEE-eccCCCC-CCCcCCceeEeCCHHHHHHHHhcCCcEEEE----EE----
Confidence 5677889999999999999998886665433 2222000 011124433 233455544432 222221 01
Q ss_pred ccccccccccccccccccccHHHHHHHHHHHHhhhcCCCeEEeccccC----eeeecCCCeEEEEEcCHHHHHHhchHHH
Q psy14505 937 VTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFPGLVADGRDMG----TTVFPDAFLKIFLTADIKQRTKRRYKQL 1012 (1619)
Q Consensus 937 v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~~~V~~GRd~~----~~v~p~a~~kifl~A~~e~Ra~Rr~~~l 1012 (1619)
.+ +... ...+.|.+. ++....|++|=---| ---+| .-+-|||..+.-+..+||.
T Consensus 75 ---------~g-nyYG-T~~~~ve~~-------~~~G~~vildId~qGa~qvk~~~p-~~v~IFi~pPs~eeL~~RL--- 132 (191)
T COG0194 75 ---------HG-NYYG-TSREPVEQA-------LAEGKDVILDIDVQGALQVKKKMP-NAVSIFILPPSLEELERRL--- 132 (191)
T ss_pred ---------cC-Cccc-CcHHHHHHH-------HhcCCeEEEEEehHHHHHHHHhCC-CeEEEEEcCCCHHHHHHHH---
Confidence 01 1111 122344333 345555665420000 01223 2256999999888888865
Q ss_pred HhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 1013 MQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 1013 ~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
..+|. -+.+.+.+.+.+ .+.+... ..-|+ .+++| . .+|.++..+...+
T Consensus 133 ~~Rgt-ds~e~I~~Rl~~-a~~Ei~~-~~~fd----yvivN-d--d~e~a~~~l~~ii 180 (191)
T COG0194 133 KGRGT-DSEEVIARRLEN-AKKEISH-ADEFD----YVIVN-D--DLEKALEELKSII 180 (191)
T ss_pred HccCC-CCHHHHHHHHHH-HHHHHHH-HHhCC----EEEEC-c--cHHHHHHHHHHHH
Confidence 44554 366666555543 3332221 11133 34444 4 5677777665543
No 409
>KOG1999|consensus
Probab=54.89 E-value=93 Score=41.97 Aligned_cols=188 Identities=18% Similarity=0.201 Sum_probs=95.3
Q ss_pred EEEEEeccccCccccCCCccccccCCCEEE----------EEEEEeecccceEEEeeecccC--------C---CCcc--
Q psy14505 1365 IEGLVHISEMDWINKNVTPSKIVQLNDTVE----------IMILEINEERRRISLGMKQCKD--------N---PWEN-- 1421 (1619)
Q Consensus 1365 v~GlV~~sels~~~~~~~~~~~~~vG~~V~----------vrVl~id~e~~ri~LSlK~~~~--------~---~~~~-- 1421 (1619)
-.-+||+.||.+.-.+..-...+++|+.|+ |.|..+|...+++.|-|-|-.. . .+..
T Consensus 237 ~~~lVPikEM~dvLkV~K~~v~L~~gswVRiKrG~YKgDLAqVd~Vd~~~n~v~lKlIPRIDyq~~~~~~~~~~~~ka~~ 316 (1024)
T KOG1999|consen 237 RILLVPIKEMPDVLKVVKKVVQLSEGSWVRIKRGKYKGDLAQVDDVDENRNRVRLKLIPRIDYQKLLGKLEETTDKKAFR 316 (1024)
T ss_pred cEEEEehhHhhhhhhhhhhhhccCccceEEEeccccccceeeeeeecccCCEEEEEEeccccHHhhhccccccchhhccC
Confidence 445788888854222222233667787776 4477788777777776644211 0 0000
Q ss_pred -----cccccccceEEEEEEEEEecceEEEeeCCC---eEEEEeCC----CCCCC--CCccccccCCCCCCEEEEEEEEe
Q psy14505 1422 -----FSIIHKKGEKIKGIIKSITDFGIFIGLDGN---IDGLIHLS----DLSWT--DPGEEIIRNFKKGDEIEAIILSI 1487 (1619)
Q Consensus 1422 -----~~~~~~vG~~v~G~V~~i~~~GvfV~~~~~---v~Glv~~s----els~~--~~~~~~~~~f~vGq~V~~~Vl~v 1487 (1619)
.....-.-..+.-...++...|-|..+.++ .+||+.++ .+.-+ .+.-+-.+.|..-.. .+
T Consensus 317 p~~R~~~~~~~~~~~ir~~~~~~~~~Gd~l~~~gn~~~~dGFLyK~v~i~sI~t~gV~PT~dELekF~~~~e------~~ 390 (1024)
T KOG1999|consen 317 PAPRRPNQKEFDEEAIRSEGRRDHSRGDYLEFEGNELFKDGFLYKDVSISSIITDGVKPTLDELEKFNPSNE------EG 390 (1024)
T ss_pred CcccCCCccccchhhhhhccccccccCceEEecCCceeccceeeeeeecceeeecCcccCHHHHHhhcCCCc------cc
Confidence 000000122234445667778988888876 78887653 22211 111122233443332 22
Q ss_pred ecCCCeEEEeeecCcCCCcccccccCCCCCeEEEEEEEEecCceEEEEecCCeEEEEEcccccccc--------ccCcCC
Q psy14505 1488 DVEKERISLGIKQLEGDPFNNYVNINDKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKH--------EKKLKI 1559 (1619)
Q Consensus 1488 d~e~~ri~LSlK~~~~~p~~~~~~~~~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~--------~~~~~~ 1559 (1619)
|.+--....+.|.. ...+.+|+.|...+-.-+.-.|++..+.+.+.-+.++.+-.+.+ -+.|++
T Consensus 391 Dl~~~st~~~~r~~--------~~~F~~GD~VeV~~Gel~glkG~ve~vdg~~vti~~~~e~l~~pl~~~~~eLrKyF~~ 462 (1024)
T KOG1999|consen 391 DLEWVSTLKSNRKK--------KHLFSPGDAVEVIVGELKGLKGKVESVDGTIVTIMSKHEDLKGPLEVPASELRKYFEP 462 (1024)
T ss_pred cceeeeeecccccc--------ccccCCCCeEEEeeeeeccceeEEEeccCceEEEeeccccCCCccccchHhhhhhccC
Confidence 22111111222211 12367788877666555433456666666555556654332221 178999
Q ss_pred CCEEEEE
Q psy14505 1560 GENIDVL 1566 (1619)
Q Consensus 1560 Gq~V~~~ 1566 (1619)
|++|++.
T Consensus 463 GDhVKVi 469 (1024)
T KOG1999|consen 463 GDHVKVI 469 (1024)
T ss_pred CCeEEEE
Confidence 9999863
No 410
>PTZ00322 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase; Provisional
Probab=54.13 E-value=29 Score=46.43 Aligned_cols=33 Identities=21% Similarity=0.282 Sum_probs=28.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhh
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGA 892 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~ 892 (1619)
.++.+-|.+|+||+++++.|++.++|.++|+-.
T Consensus 216 ~~~~~vglp~~GKStia~~L~~~l~~~~~~~~~ 248 (664)
T PTZ00322 216 LIVIMVGLPGRGKTYVARQIQRYFQWNGLQSRI 248 (664)
T ss_pred eeEEecccCCCChhHHHHHHHHHHHhcCCCcEE
Confidence 467778899999999999999999988888743
No 411
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=51.91 E-value=32 Score=37.33 Aligned_cols=54 Identities=19% Similarity=0.303 Sum_probs=46.4
Q ss_pred chhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHH---HHHHHHHHHHHHHhCC
Q psy14505 463 PLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRII---EIITDELNIIKNKYGS 516 (1619)
Q Consensus 463 ~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~---~~i~~el~~ik~~f~~ 516 (1619)
+|.+....-..+|..|+++|.++|..|+.+.+.-+.++ ..+..||+.+.+.|=.
T Consensus 113 rL~~~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~LrnKa~~L~~eL~~F~~~yL~ 169 (171)
T PF04799_consen 113 RLCQQVDQTKNELEDEIKQLEKEIQRLEEIQSKSKTLRNKANWLESELERFQEQYLQ 169 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 56777778889999999999999999999998877777 5788999999999843
No 412
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=51.11 E-value=1.5e+02 Score=35.05 Aligned_cols=22 Identities=32% Similarity=0.329 Sum_probs=17.5
Q ss_pred EEEecCCcCCCCchhHHHHHHH
Q psy14505 861 VITIDGPTASGKGTVAQLVASK 882 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~ 882 (1619)
.|.+.|.+||||++.++.|++.
T Consensus 3 Liil~G~P~SGKTt~a~~L~~~ 24 (270)
T PF08433_consen 3 LIILCGLPCSGKTTRAKELKKY 24 (270)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH
T ss_pred EEEEEcCCCCcHHHHHHHHHHH
Confidence 5777899999999999999875
No 413
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=51.00 E-value=57 Score=30.06 Aligned_cols=54 Identities=17% Similarity=0.221 Sum_probs=38.3
Q ss_pred eEEEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEEEe
Q psy14505 1518 LVNGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVLID 1571 (1619)
Q Consensus 1518 ~v~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd 1571 (1619)
.++|+|+.-..+.|. |++-++ +-.-|+|.+.+.......+.+||.|.+.+..=+
T Consensus 3 ~~~G~Vk~f~~~kGyGFI~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK09507 3 KIKGNVKWFNESKGFGFITPEDGSKDVFVHFSAIQTNGFKTLAEGQRVEFEITNGA 58 (69)
T ss_pred ccceEEEEEeCCCCcEEEecCCCCeeEEEEeecccccCCCCCCCCCEEEEEEEECC
Confidence 456888876533333 455555 578999999986554578999999999776533
No 414
>KOG0635|consensus
Probab=50.78 E-value=89 Score=33.14 Aligned_cols=27 Identities=19% Similarity=0.461 Sum_probs=22.4
Q ss_pred cccCeeeecCCC-eEEEEEcCHHHHHHh
Q psy14505 981 RDMGTTVFPDAF-LKIFLTADIKQRTKR 1007 (1619)
Q Consensus 981 Rd~~~~v~p~a~-~kifl~A~~e~Ra~R 1007 (1619)
||..--++|+.+ +-||+..+.++-.+|
T Consensus 118 RdacRel~~~~~FiEvfmdvpl~vcE~R 145 (207)
T KOG0635|consen 118 RDACRELLPEGDFIEVFMDVPLEVCEAR 145 (207)
T ss_pred HHHHHHhccCCCeEEEEecCcHHHhhcc
Confidence 666666777777 889999999999999
No 415
>COG1530 CafA Ribonucleases G and E [Translation, ribosomal structure and biogenesis]
Probab=50.60 E-value=19 Score=46.00 Aligned_cols=74 Identities=15% Similarity=0.156 Sum_probs=60.3
Q ss_pred ccceEEEEEEEEEecc--eEEEeeCCCeEEEEeCCCCCCCCCccc-----cccCCCCCCEEEEEEEEeecCCCeEEEeee
Q psy14505 1427 KKGEKIKGIIKSITDF--GIFIGLDGNIDGLIHLSDLSWTDPGEE-----IIRNFKKGDEIEAIILSIDVEKERISLGIK 1499 (1619)
Q Consensus 1427 ~vG~~v~G~V~~i~~~--GvfV~~~~~v~Glv~~sels~~~~~~~-----~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK 1499 (1619)
.+|.++.|.|++|.+. .+||.++.+=.||+|.+++.+ +... ....++.||.+-+.|+.-...++--.||-.
T Consensus 36 ~~gniy~grv~~i~p~~~aafvdig~~r~gfl~~~~~~~--~~~~~~~~~i~~~lr~~~~~~Vqv~ke~~G~Kga~lT~~ 113 (487)
T COG1530 36 IVGNIYKGRVTRVLPSLEAAFVDIGLERNGFLHLSEIVP--YFRAVLEEKIKVRLRGGQATLVQVVKEPRGTKGARLTTD 113 (487)
T ss_pred eecCceEEEecccCccchhheeeccCCccceEEecccch--hhhhcccccceeeecCCceEEEEEEeecCccccccceeE
Confidence 5799999999999987 799999999999999999986 2222 245899999999999988776666666666
Q ss_pred cCc
Q psy14505 1500 QLE 1502 (1619)
Q Consensus 1500 ~~~ 1502 (1619)
-+.
T Consensus 114 Is~ 116 (487)
T COG1530 114 ISL 116 (487)
T ss_pred Eee
Confidence 544
No 416
>PRK06761 hypothetical protein; Provisional
Probab=50.03 E-value=20 Score=42.44 Aligned_cols=27 Identities=30% Similarity=0.442 Sum_probs=23.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCE
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFH 886 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~ 886 (1619)
.+|.+.|++|+||+|.++.+++++...
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~ 30 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQN 30 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence 368888999999999999999999853
No 417
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=50.02 E-value=11 Score=34.38 Aligned_cols=29 Identities=41% Similarity=0.526 Sum_probs=25.3
Q ss_pred EEecCCcCCCCchhHHHHHHH---hCCEEech
Q psy14505 862 ITIDGPTASGKGTVAQLVASK---LGFHYLDS 890 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~---l~~~~~dt 890 (1619)
|.+.|.+|+||++.++.+++. .++.++|.
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l~~~~~~~i~~ 33 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQLGGRSVVVLDE 33 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHhcCCCEEEEeE
Confidence 556799999999999999999 77888876
No 418
>PRK10943 cold shock-like protein CspC; Provisional
Probab=49.18 E-value=59 Score=29.93 Aligned_cols=52 Identities=19% Similarity=0.277 Sum_probs=38.0
Q ss_pred eEEEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1518 LVNGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1518 ~v~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
.++|+|+.-..+.|. |++-++ +-.-|+|.+.+.......+.+||.|.+.+..
T Consensus 3 ~~~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~~g~~~l~~G~~V~f~~~~ 56 (69)
T PRK10943 3 KIKGQVKWFNESKGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQD 56 (69)
T ss_pred ccceEEEEEeCCCCcEEEecCCCCeeEEEEhhHccccCCCCCCCCCEEEEEEEE
Confidence 457888876543443 555544 6799999999876545779999999998765
No 419
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=49.15 E-value=89 Score=29.33 Aligned_cols=67 Identities=25% Similarity=0.266 Sum_probs=49.8
Q ss_pred ceeEEEEEEEEcCCe-EEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1342 GTRLLGKVTNLTDYG-AFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1342 G~iv~g~V~~v~~~G-~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
.-.+.|+|....+.+ +.|++.+|..-+.|++-= ...-.-...+||.|.+.....|.++.+|.-..++
T Consensus 6 ~~e~~g~V~e~L~~~~f~v~~edg~~~~ahI~GK-----mr~~~i~I~~GD~V~Ve~~~~d~~kg~I~~Ry~~ 73 (75)
T COG0361 6 EIEMEGTVIEMLPNGRFRVELENGHERLAHISGK-----MRKNRIRILPGDVVLVELSPYDLTKGRIVYRYKK 73 (75)
T ss_pred ccEEEEEEEEecCCCEEEEEecCCcEEEEEccCc-----chheeEEeCCCCEEEEEecccccccccEEEEecC
Confidence 345789999999887 568898888888876643 1111335678999999999999888888765543
No 420
>KOG4078|consensus
Probab=49.02 E-value=40 Score=34.69 Aligned_cols=53 Identities=9% Similarity=0.075 Sum_probs=43.6
Q ss_pred CCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCCccccCCCEEEEEEEE
Q psy14505 1083 MRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGELEVKIGDFVSVAIES 1139 (1619)
Q Consensus 1083 l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~ 1139 (1619)
-..|.+|.|+|..+..+.+|+|+|.+..++.....+. .+.|.-|--|..+++.
T Consensus 80 ~a~gklV~GkIfhiV~~DlYIDFG~KFhcVC~rP~~n----~e~Y~~GaRVrlRl~D 132 (173)
T KOG4078|consen 80 DAKGKLVIGKIFHIVEEDLYIDFGGKFHCVCKRPALN----GEAYQKGARVRLRLID 132 (173)
T ss_pred CcCCcEEEeeeeeeeccceEEecCCeEEEEEcCcCcC----HHHhhcCceEEEEEcC
Confidence 3479999999999999999999999998887665552 2468889988888765
No 421
>PRK15463 cold shock-like protein CspF; Provisional
Probab=48.35 E-value=60 Score=30.02 Aligned_cols=51 Identities=22% Similarity=0.393 Sum_probs=38.4
Q ss_pred EEEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1519 VNGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1519 v~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
.+|+|+.-..+.|. |++-++ +-.-|+|.+.+.......+.+||.|.+.+..
T Consensus 5 ~~G~Vk~fn~~kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15463 5 MTGIVKTFDGKSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRIN 57 (70)
T ss_pred ceEEEEEEeCCCceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEE
Confidence 37888877644554 555555 6789999999876556789999999997764
No 422
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=48.17 E-value=33 Score=36.78 Aligned_cols=50 Identities=16% Similarity=0.259 Sum_probs=41.3
Q ss_pred HHHhhccchhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Q psy14505 456 AQEILKMPLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDE 506 (1619)
Q Consensus 456 a~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~e 506 (1619)
+..+..-+ -.||-.|.++|+.|+.++++||..|++.|..+++...-|+..
T Consensus 16 ~~~~~~~~-~~LsEeE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrk 65 (162)
T PF04201_consen 16 AASISASE-EGLSEEEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRK 65 (162)
T ss_pred hhhccCCc-ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 44454433 688999999999999999999999999999988887766666
No 423
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=47.06 E-value=63 Score=30.27 Aligned_cols=53 Identities=17% Similarity=0.164 Sum_probs=37.8
Q ss_pred EEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEEEeC
Q psy14505 1520 NGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVLIDH 1572 (1619)
Q Consensus 1520 ~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd~ 1572 (1619)
+|+|+.-..+.|. |+.-++ +-.-|+|.+.+.......+.+||.|.+.+..=..
T Consensus 3 ~G~Vkwfn~~KGfGFI~~~~gg~dVFvH~s~i~~~g~~~l~~G~~V~f~~~~~~~ 57 (74)
T PRK09937 3 KGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDVHQGPK 57 (74)
T ss_pred CeEEEEEeCCCCeEEEeeCCCCccEEEEEeeccccCCCCCCCCCEEEEEEEECCC
Confidence 4777766533443 454444 6899999999875555789999999999875433
No 424
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=46.79 E-value=34 Score=41.32 Aligned_cols=29 Identities=21% Similarity=0.425 Sum_probs=26.4
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEec
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLD 889 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~d 889 (1619)
.|.+.|++|+||++.++.+|+++|++++-
T Consensus 66 ~ilL~G~pGtGKTtla~~lA~~l~~~~~r 94 (327)
T TIGR01650 66 RVMVQGYHGTGKSTHIEQIAARLNWPCVR 94 (327)
T ss_pred cEEEEeCCCChHHHHHHHHHHHHCCCeEE
Confidence 46778999999999999999999999984
No 425
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=45.89 E-value=22 Score=42.18 Aligned_cols=34 Identities=38% Similarity=0.568 Sum_probs=29.0
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhh--HHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGA--LYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~--~yr 895 (1619)
|.+.|+.|+||++.+..|++.++..+++.+. +||
T Consensus 2 i~i~G~t~~GKs~la~~l~~~~~~~iis~Ds~qvY~ 37 (287)
T TIGR00174 2 IFIMGPTAVGKSQLAIQLAKKLNAEIISVDSMQIYK 37 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHhCCCcEEEechhheee
Confidence 5677999999999999999999987777655 677
No 426
>KOG4238|consensus
Probab=45.22 E-value=1.2e+02 Score=36.24 Aligned_cols=67 Identities=18% Similarity=0.224 Sum_probs=41.8
Q ss_pred eEEEEEcCHHHHHHhchHHHHhcCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhhh
Q psy14505 993 LKIFLTADIKQRTKRRYKQLMQKGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDCF 1070 (1619)
Q Consensus 993 ~kifl~A~~e~Ra~Rr~~~l~~~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~i 1070 (1619)
+-||+.|+.++..+|-.++|-.+-. .-+|+----.|+.|+ .+..--++++|..-++.+||..+++.+
T Consensus 152 ~ev~v~a~l~vceqrd~k~lykkar-------agei~gftgids~ye----~pe~~e~vl~t~~~~v~~cvqqvve~l 218 (627)
T KOG4238|consen 152 FEVFVDAPLNVCEQRDVKGLYKKAR-------AGEIKGFTGIDSDYE----KPETPERVLKTNLSTVSDCVQQVVELL 218 (627)
T ss_pred EEEEecCchhhhhhcChHHHHhhhh-------ccccccccccccccC----CCCChhHHhhcCCchHHHHHHHHHHHH
Confidence 5599999999999996666532211 011222223444432 122234788998889999999887653
No 427
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=44.17 E-value=27 Score=43.69 Aligned_cols=95 Identities=22% Similarity=0.379 Sum_probs=57.4
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHH-HHHHHHccccee---cCceEEeCCcc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELE-LVILIKKLNYNF---LGKEVYLNGVN 936 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~ 936 (1619)
.+.+.|++|+||++.++.+|+.++++|. ++++.++ .+.|+.-.+.+. +...+......+ ..+-+|+|+.|
T Consensus 118 ~iLL~GP~GsGKT~lAraLA~~l~~pf~----~~da~~L--~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEId 191 (413)
T TIGR00382 118 NILLIGPTGSGKTLLAQTLARILNVPFA----IADATTL--TEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEID 191 (413)
T ss_pred eEEEECCCCcCHHHHHHHHHHhcCCCeE----Eechhhc--cccccccccHHHHHHHHHHhCcccHHhcccceEEecccc
Confidence 4666799999999999999999999985 3443333 134443333332 333333322222 23468888887
Q ss_pred -ccccccccccccccccccccHHHHHHHHH
Q psy14505 937 -VTTLIRNEKVSNNASKIAKFKNIRKELFK 965 (1619)
Q Consensus 937 -v~~~ir~~~~~~~~s~~a~~~~vr~~~~~ 965 (1619)
++...+++.++..+|. +.|..++.+
T Consensus 192 kl~~~~~~~s~~~dvsg----~~vq~~LL~ 217 (413)
T TIGR00382 192 KISRKSENPSITRDVSG----EGVQQALLK 217 (413)
T ss_pred hhchhhccccccccccc----hhHHHHHHH
Confidence 5666666666666554 244555554
No 428
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=44.14 E-value=1.1e+02 Score=35.89 Aligned_cols=114 Identities=19% Similarity=0.235 Sum_probs=71.1
Q ss_pred CCCcEEEEEEEEEec-CeEE-EEeCCEEEEeeccccCccccCCCccccccCCEEEEEEEEeecCCCeEEEeeeccccCCc
Q psy14505 1255 KEGCTVKGVVKNITD-YGAF-IDLGGIDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQEKNRVSLGMKQLGIDPW 1332 (1619)
Q Consensus 1255 ~~G~iv~g~V~~v~~-~G~~-V~l~gi~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~~~~~i~LSlK~~~~~~~ 1332 (1619)
+.|.+++|+|....+ +|+. +.++...-++|.-. ..+|+.++++|-.-| +++.+++..
T Consensus 230 e~~~vl~~~V~~hd~~y~lt~l~l~~~~l~v~~~~------------a~~g~~~R~~I~a~D-----Vslal~~P~---- 288 (352)
T COG4148 230 EQSSVLEGTVLEHDPRYGLTALALGDQHLWVPKLD------------APVGARLRIRIQARD-----VSLALQKPE---- 288 (352)
T ss_pred ccceEEEEEehhcCCCcceEEEecCceEEEeeccC------------CCCCCcEEEEEEccc-----eEEEecCcc----
Confidence 568899999999876 4544 44565555555433 348999999987665 556665431
Q ss_pred cccccccccceeEEEEEEEEcCCe--E--EEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEee
Q psy14505 1333 IGLSFRYPRGTRLLGKVTNLTDYG--A--FVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEIN 1401 (1619)
Q Consensus 1333 ~~~~~~l~~G~iv~g~V~~v~~~G--~--fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id 1401 (1619)
....=.++.|+|+.+.+.+ + .++++ |..-...++..+. -.-.+++|+.|-+.|.++.
T Consensus 289 -----~~SirNiLp~~v~~i~~~~~~V~v~ld~~-g~~l~Arit~~sr------d~L~l~~G~~v~AqIKsVs 349 (352)
T COG4148 289 -----QTSIRNILPGKVVGIEDDDGQVDVQLDCG-GKTLWARITPWAR------DELALKPGQWVYAQIKSVS 349 (352)
T ss_pred -----ccchhhccceeEEEEEcCCCcEEEEEEcC-CcEEEEEccHhhH------HhhcCCCCCeEEEEEEEEE
Confidence 2223345678888887654 2 33332 3344444454432 2346789999999887764
No 429
>KOG1999|consensus
Probab=43.13 E-value=5.5e+02 Score=35.16 Aligned_cols=58 Identities=21% Similarity=0.401 Sum_probs=37.4
Q ss_pred cccceEEEEEEEEEecc-eEEEeeCCCeEEEEeCCCCCCC---CCccccccCCCCCCEEEEE
Q psy14505 1426 HKKGEKIKGIIKSITDF-GIFIGLDGNIDGLIHLSDLSWT---DPGEEIIRNFKKGDEIEAI 1483 (1619)
Q Consensus 1426 ~~vG~~v~G~V~~i~~~-GvfV~~~~~v~Glv~~sels~~---~~~~~~~~~f~vGq~V~~~ 1483 (1619)
+.+|+.|.-++-..... |+...+.+.+.-+++..+...+ -+...+.+.|++|+.|++.
T Consensus 408 F~~GD~VeV~~Gel~glkG~ve~vdg~~vti~~~~e~l~~pl~~~~~eLrKyF~~GDhVKVi 469 (1024)
T KOG1999|consen 408 FSPGDAVEVIVGELKGLKGKVESVDGTIVTIMSKHEDLKGPLEVPASELRKYFEPGDHVKVI 469 (1024)
T ss_pred cCCCCeEEEeeeeeccceeEEEeccCceEEEeeccccCCCccccchHhhhhhccCCCeEEEE
Confidence 46777776655555443 7777777666666666444321 2334667899999999975
No 430
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=43.11 E-value=18 Score=40.60 Aligned_cols=31 Identities=42% Similarity=0.600 Sum_probs=27.4
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEec
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLD 889 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~d 889 (1619)
.++|++.|+-|.||+|.++.||+++|.+.+-
T Consensus 4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~~~~ 34 (216)
T COG1428 4 AMVIVIEGMIGAGKSTLAQALAEHLGFKVFY 34 (216)
T ss_pred ccEEEEecccccCHHHHHHHHHHHhCCceee
Confidence 3689999999999999999999999976553
No 431
>PRK06763 F0F1 ATP synthase subunit alpha; Validated
Probab=41.61 E-value=4e+02 Score=29.70 Aligned_cols=49 Identities=10% Similarity=0.198 Sum_probs=30.7
Q ss_pred CeEEEEEEEEec---------CceEEEEecC--CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1517 SLVNGIIKSIDT---------NKGAIIQLSN--EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1517 ~~v~g~V~~i~~---------~~G~~V~l~~--gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
+-+-|+|+.+.. +| +.|+.++ |-...++..- .....|++||+|++.-..
T Consensus 118 dYvIG~Iskv~k~~~~~~~~~dy-VvV~YP~~~G~~~~V~V~L---T~GQkFnVGDkVKV~~~~ 177 (213)
T PRK06763 118 DYVIGEVSKVYTMEDDGDGATKY-VVVEYPSLNGKKLIIDVFL---TKGQVFHVGDKVKVDMKY 177 (213)
T ss_pred ceEEEEEEEecccccCCCCcccE-EEEEcCCCCCCeeEEEEEe---ccCCEEecCCEEEEEeee
Confidence 457788888841 22 6677776 4333333321 123679999999987655
No 432
>PRK13974 thymidylate kinase; Provisional
Probab=41.56 E-value=1.7e+02 Score=33.06 Aligned_cols=25 Identities=24% Similarity=0.314 Sum_probs=22.2
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhC
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLG 884 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~ 884 (1619)
.+|++.|..|+||+|.++.+++.+.
T Consensus 4 ~~i~~eG~dGsGKsT~~~~l~~~l~ 28 (212)
T PRK13974 4 KFIVLEGIDGCGKTTQIDHLSKWLP 28 (212)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHHH
Confidence 4788899999999999999998874
No 433
>PRK06386 replication factor A; Reviewed
Probab=41.52 E-value=7.7e+02 Score=30.43 Aligned_cols=163 Identities=12% Similarity=0.107 Sum_probs=88.4
Q ss_pred CEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee-cccC----C---------CCcccccccccc
Q psy14505 1364 GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK-QCKD----N---------PWENFSIIHKKG 1429 (1619)
Q Consensus 1364 gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK-~~~~----~---------~~~~~~~~~~vG 1429 (1619)
.=+|.++.+- |.. ...++.|+.++..=-.++.-++++.|.+- .+.. + +...+.+. .+|
T Consensus 45 DeTG~I~fT~--W~~-----~~~l~~Gd~v~i~na~v~~~~G~~~Lnv~~~t~v~~~~d~~iev~~~~~~~KI~DL-~~g 116 (358)
T PRK06386 45 DETGTVPFTA--WEF-----PDAVKSGDVIEIKYCYSKEYNGKIRIYFDSRSEVMLKPDENIEVKRTYKLVKIRDL-SLV 116 (358)
T ss_pred CCcceEEEEe--cCC-----cccCCCCCEEEEEeEEEeeECCEEEEEEcCceEEEecCccccccccccCccEeEec-cCC
Confidence 4467776665 631 23578999998775555555666666662 1110 0 11233333 444
Q ss_pred e---EEEEEEEEEecceEEEeeCCCeEEEEeCCCCCCCC---CccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCc-
Q psy14505 1430 E---KIKGIIKSITDFGIFIGLDGNIDGLIHLSDLSWTD---PGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLE- 1502 (1619)
Q Consensus 1430 ~---~v~G~V~~i~~~GvfV~~~~~v~Glv~~sels~~~---~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~- 1502 (1619)
+ .+.|+|..+.+. -| + ..+-.|.+..--+.+.. +...|.+.+..|+.|+..=..++.-++++.|++-...
T Consensus 117 ~~~v~V~akVle~~e~-e~-~-~~g~~~~v~sg~lgDeTGrIr~TlW~~~l~eGd~v~i~na~v~e~~G~~el~v~~~t~ 193 (358)
T PRK06386 117 TPYVSVIGKITGITKK-EY-D-SDGTSKIVYQGYIEDDTARVRISSFGKPLEDNRFVRIENARVSQYNGYIEISVGNKSV 193 (358)
T ss_pred CCceEEEEEEEEccCc-eE-e-cCCCccEEEEEEEEcCCCeEEEEEccccccCCCEEEEeeeEEEccCCeEEEEeCCeEE
Confidence 3 368888877553 22 2 22333444333333211 2335555689999999887778877899999885431
Q ss_pred --C-CCcccc------cccCC---CCCeEEEEEEEEecCceEEEEec
Q psy14505 1503 --G-DPFNNY------VNIND---KGSLVNGIIKSIDTNKGAIIQLS 1537 (1619)
Q Consensus 1503 --~-~p~~~~------~~~~~---~G~~v~g~V~~i~~~~G~~V~l~ 1537 (1619)
. ++-.+. ..... -+..+.|+|.++....|++=+-|
T Consensus 194 I~~~~~~iev~~~~~~I~di~~~~g~v~i~G~iv~i~~gsgli~rCP 240 (358)
T PRK06386 194 IKEVESDINLESRNIFIFEIKSPVGGITIMGFIVSVGQGSRIFTKCS 240 (358)
T ss_pred EEECCCCcccCccccchhhhhccCCeEEEEEEEEEEcCCcEeEecCc
Confidence 1 111111 11111 13567788888874455554444
No 434
>PF01712 dNK: Deoxynucleoside kinase; InterPro: IPR002624 This family consists of various deoxynucleoside kinases including cytidine (2.7.1.74 from EC), guanosine (2.7.1.113 from EC), adenosine (2.7.1.76 from EC) and thymidine kinase (2.7.1.21 from EC, which also phosphorylates deoxyuridine and deoxycytosine. These enzymes catalyse the production of deoxynucleotide 5'-monophosphate from a deoxynucleoside, using ATP and yielding ADP in the process.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0006139 nucleobase-containing compound metabolic process; PDB: 2JAS_B 2JAT_B 2JAQ_A 2VP4_D 1ZMX_F 1ZM7_C 1OE0_B 2VP9_C 2VPP_B 2VP6_G ....
Probab=41.51 E-value=33 Score=36.39 Aligned_cols=73 Identities=12% Similarity=0.085 Sum_probs=40.9
Q ss_pred CeEEEEEcCHHHHHHhchHHHHhcCC-CCCHHHHHHHHH-hhhhhcccCCCCCCCCCCCceEEccCcccchhhhhhhhhh
Q psy14505 992 FLKIFLTADIKQRTKRRYKQLMQKGF-SVSMSDLLINLI-KRDIRDKTRNLSPLKCPEQAHLLNTSKMNINQVVNQILDC 1069 (1619)
Q Consensus 992 ~~kifl~A~~e~Ra~Rr~~~l~~~~~-~~~~~~~~~~i~-~rD~~d~~r~~~~l~~~~dal~Idts~l~ieevv~~I~~~ 1069 (1619)
++-|||.||++.-.+|..++ .+... +++ .+=++.|. ++=..-.. .+. +...++||++.+++.+..+.+...
T Consensus 69 dl~IYL~~~~e~~~~RI~kR-gR~~E~~i~-~~Yl~~L~~~~y~~~~~----~~~-~~~vl~id~~~~d~~~~~~~~~~~ 141 (146)
T PF01712_consen 69 DLIIYLDASPETCLERIKKR-GREEEKNIP-LEYLERLHEEAYEDWLK----KYD-STPVLVIDADNLDFVENPEDIEQV 141 (146)
T ss_dssp SEEEEEE--HHHHHHHHHHC-TTGGGTTS--HHHHHHHHHHHHCCHHS----CCT-TTTGCEEEECEEECCSHHTTHHHH
T ss_pred CeEEEEeCCHHHHHHHHHHh-CCchhcCCC-HHHHHHHhHHHHHHHHH----hCC-CCceEEEECCccCcccCHHHHHHH
Confidence 58899999999999984433 11111 122 23455555 22111111 111 234689999999999888877654
Q ss_pred hh
Q psy14505 1070 FA 1071 (1619)
Q Consensus 1070 i~ 1071 (1619)
+.
T Consensus 142 ~~ 143 (146)
T PF01712_consen 142 IN 143 (146)
T ss_dssp HC
T ss_pred HH
Confidence 43
No 435
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=40.96 E-value=21 Score=36.25 Aligned_cols=28 Identities=36% Similarity=0.732 Sum_probs=24.1
Q ss_pred EecCCcCCCCchhHHHHHHHhCCEEech
Q psy14505 863 TIDGPTASGKGTVAQLVASKLGFHYLDS 890 (1619)
Q Consensus 863 ti~g~~gsGK~~~~~~la~~l~~~~~dt 890 (1619)
-+-|++|+||++.++.+|+.++++++.-
T Consensus 2 ll~G~~G~GKT~l~~~la~~l~~~~~~i 29 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYLGFPFIEI 29 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHTTSEEEEE
T ss_pred EEECcCCCCeeHHHHHHHhhcccccccc
Confidence 3568999999999999999999887543
No 436
>KOG1004|consensus
Probab=40.84 E-value=82 Score=35.12 Aligned_cols=63 Identities=14% Similarity=0.145 Sum_probs=48.7
Q ss_pred cccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecc
Q psy14505 1339 YPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEE 1403 (1619)
Q Consensus 1339 l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e 1403 (1619)
..+||.|-|.|+.....+..|++++.-.+.++...+.. ....-+-.+++||.|-|+|..-+++
T Consensus 63 P~~~D~VIGiV~~~~gd~ykVDigg~~~a~L~~laFe~--AtkrNrPnl~vGdliyakv~~a~~~ 125 (230)
T KOG1004|consen 63 PVKGDHVIGIVTSKSGDIYKVDIGGSEPASLSYLAFEG--ATKRNRPNLQVGDLIYAKVVDANKD 125 (230)
T ss_pred CCCCCEEEEEEEeccCceEEEecCCCCeeeeeeccccC--ccccCCCccccccEEEEEEEecCCC
Confidence 45899999999999999999999876778777666632 2222334588999999999877643
No 437
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=40.42 E-value=78 Score=29.05 Aligned_cols=51 Identities=22% Similarity=0.233 Sum_probs=36.5
Q ss_pred EEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEEE
Q psy14505 1520 NGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVLI 1570 (1619)
Q Consensus 1520 ~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~v 1570 (1619)
+|+|+.-..+.|. |+.-++ +-.-|+|.+.+.......+.+||.|.+.+..=
T Consensus 3 ~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~~~~~g~~~l~~G~~V~f~~~~~ 55 (68)
T TIGR02381 3 IGIVKWFNNAKGFGFICPEGVDGDIFAHYSTIQMDGYRTLKAGQKVQFEVVQG 55 (68)
T ss_pred CeEEEEEeCCCCeEEEecCCCCccEEEEHHHhhhcCCCCCCCCCEEEEEEEEC
Confidence 4777765534443 555555 68899999998655457899999999977643
No 438
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=40.01 E-value=57 Score=29.05 Aligned_cols=46 Identities=24% Similarity=0.174 Sum_probs=34.3
Q ss_pred eEEEEEEEEeccE----EEEEeCCC--eEEEEecccccccCCCccccCCCEEEEEE
Q psy14505 1088 VISAEVIGLDRNF----VIINADLK--SEAFIPIEEFKNDNGELEVKIGDFVSVAI 1137 (1619)
Q Consensus 1088 iv~G~V~~v~~~g----v~V~lg~~--~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V 1137 (1619)
.+.|+|..+++.| +.++++.+ +.+.++...+.. ..+++|+.|.+.+
T Consensus 6 ~l~g~V~~ie~~g~~~~v~~~~~~~~~l~a~it~~~~~~----L~L~~G~~V~~~i 57 (64)
T PF03459_consen 6 QLPGTVESIENLGSEVEVTLDLGGGETLTARITPESAEE----LGLKPGDEVYASI 57 (64)
T ss_dssp EEEEEEEEEEESSSEEEEEEEETTSEEEEEEEEHHHHHH----CT-STT-EEEEEE
T ss_pred EEEEEEEEEEECCCeEEEEEEECCCCEEEEEEcHHHHHH----cCCCCCCEEEEEE
Confidence 5899999999988 77777774 678887765532 3488999999876
No 439
>PRK14998 cold shock-like protein CspD; Provisional
Probab=39.80 E-value=92 Score=29.10 Aligned_cols=54 Identities=17% Similarity=0.145 Sum_probs=38.2
Q ss_pred EEEEEEEecCceE-EEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEEEeCC
Q psy14505 1520 NGIIKSIDTNKGA-IIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVLIDHK 1573 (1619)
Q Consensus 1520 ~g~V~~i~~~~G~-~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd~~ 1573 (1619)
+|+|+.-..+.|. |+.-++ +-.-|+|.+.+.......+.+||.|.+.+..=+.-
T Consensus 3 ~G~Vkwfn~~kGfGFI~~~~g~~dVFvH~s~l~~~g~~~l~~G~~V~f~~~~~~~G 58 (73)
T PRK14998 3 TGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDVHQGPKG 58 (73)
T ss_pred CeEEEEEeCCCceEEEecCCCCccEEEEeeeecccCCCCCCCCCEEEEEEEECCCC
Confidence 4777765533443 555544 67999999998655557899999999998764443
No 440
>PRK09169 hypothetical protein; Validated
Probab=39.66 E-value=40 Score=49.35 Aligned_cols=34 Identities=15% Similarity=-0.039 Sum_probs=28.6
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
+.+-|+.|+||+++++.++.+|+++|+|+.....
T Consensus 2113 IvLIG~MGaGKTTIGr~LA~~Lg~~FiDtD~kIe 2146 (2316)
T PRK09169 2113 RRIEREVGPLLQALLQKLAGGLRVDKPHSVRKIA 2146 (2316)
T ss_pred cceeeCCCCCHhHHHHHHHHHhCCCccccHHHHH
Confidence 4555788999999999999999999999855443
No 441
>cd05701 S1_Rrp5_repeat_hs10 S1_Rrp5_repeat_hs10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 10 (hs10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=39.51 E-value=44 Score=30.00 Aligned_cols=58 Identities=17% Similarity=0.232 Sum_probs=40.6
Q ss_pred eEEEEEEEEeccEEEEEeCC-CeEEEEe-cccccccCC--CccccCCCEEEEEEEEEeCCCC
Q psy14505 1088 VISAEVIGLDRNFVIINADL-KSEAFIP-IEEFKNDNG--ELEVKIGDFVSVAIESLENGFG 1145 (1619)
Q Consensus 1088 iv~G~V~~v~~~gv~V~lg~-~~~Gfi~-~~e~~~~~~--~~~~kvG~~v~~~V~~v~~~~~ 1145 (1619)
.-.+.|..+.+...+|++.. +-..++| .+|+.+... .+++++||.+.+.+...+...+
T Consensus 3 ~htA~VQh~~kdfAvvSL~~t~~L~a~p~~sHLNdtfrf~seklkvG~~l~v~lk~~~~~~~ 64 (69)
T cd05701 3 RHTAIVQHADKDFAIVSLATTGDLAAFPTRSHLNDTFRFDSEKLSVGQCLDVTLKDPNCLAG 64 (69)
T ss_pred ccchhhhhhhhceEEEEeeccccEEEEEchhhccccccccceeeeccceEEEEEecCccCcc
Confidence 34678889999999999966 3334454 456655332 3679999999999877655433
No 442
>KOG2911|consensus
Probab=39.31 E-value=2.1e+02 Score=35.55 Aligned_cols=91 Identities=15% Similarity=0.203 Sum_probs=63.7
Q ss_pred HHHHHHHHhchhHHHHHHHcCCCHHHHHHHHHhhcCCCCchhhhhhcccccccccccccccccccCCCccccCHHHHHHh
Q psy14505 380 LEGLTIALTNIDNFIQIIRSTSTPQEAKNKIIESTWNLPDVSKIIGFNKKNYNTISKINNISKLQNNDMYKLSDIQAQEI 459 (1619)
Q Consensus 380 leg~~~a~~~id~vi~iir~s~~~~~a~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qa~aI 459 (1619)
+|-+..++++++.|+.-|-+|.+.+..-+++... -+=..+|
T Consensus 289 ~er~~~~l~~l~~vl~~Id~s~~nkvvl~AyksG---------------------------------------s~alK~i 329 (439)
T KOG2911|consen 289 LERKVSSLNNLETVLSQIDNSQTNKVVLQAYKSG---------------------------------------SEALKAI 329 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHh---------------------------------------HHHHHHH
Confidence 4556677888888888888888877665554432 1111344
Q ss_pred hccchhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHH-----HHHHHHHHHHHHH
Q psy14505 460 LKMPLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRI-----IEIITDELNIIKN 512 (1619)
Q Consensus 460 L~m~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~-----~~~i~~el~~ik~ 512 (1619)
|. +-++-..++.+.++.++...+-++.+++|++...- .+-+-+||+++..
T Consensus 330 l~---~~~s~ekVed~Ldev~et~d~~~EV~~~la~~~~~~~d~~de~lEkEL~~L~~ 384 (439)
T KOG2911|consen 330 LA---QGGSTEKVEDVLDEVNETLDRQEEVEDALASYNVNNIDFEDEDLEKELEDLEA 384 (439)
T ss_pred Hh---ccCChhhHHHHHHHHHHHHhhHHHHHHHHhcCCCCCCccchHHHHHHHHHHHh
Confidence 43 34455569999999999999999999999875443 4667778888763
No 443
>PRK09890 cold shock protein CspG; Provisional
Probab=39.03 E-value=1.2e+02 Score=28.08 Aligned_cols=50 Identities=10% Similarity=0.263 Sum_probs=36.7
Q ss_pred EEEEEEEEec--CceEEEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1519 VNGIIKSIDT--NKGAIIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1519 v~g~V~~i~~--~~G~~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
.+|+|..-.. .|| |++-++ +-.-|+|.+.+.......+.+||.|.+.+..
T Consensus 5 ~~G~Vk~f~~~kGfG-FI~~~~g~~dvFvH~s~l~~~~~~~l~~G~~V~f~~~~ 57 (70)
T PRK09890 5 MTGLVKWFNADKGFG-FITPDDGSKDVFVHFTAIQSNEFRTLNENQKVEFSIEQ 57 (70)
T ss_pred ceEEEEEEECCCCcE-EEecCCCCceEEEEEeeeccCCCCCCCCCCEEEEEEEE
Confidence 4788887653 455 455555 5789999999876555679999999997754
No 444
>PLN02748 tRNA dimethylallyltransferase
Probab=38.13 E-value=46 Score=42.26 Aligned_cols=37 Identities=30% Similarity=0.519 Sum_probs=32.9
Q ss_pred ccEEEecCCcCCCCchhHHHHHHHhCCEEechhh--HHH
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASKLGFHYLDSGA--LYR 895 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~--~yr 895 (1619)
..+|.+-|+.|+||++.+..||++++..+++.+. +||
T Consensus 22 ~~~i~i~GptgsGKs~la~~la~~~~~eii~~DsmQVYr 60 (468)
T PLN02748 22 AKVVVVMGPTGSGKSKLAVDLASHFPVEIINADSMQVYS 60 (468)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhcCeeEEcCchheeeC
Confidence 3478888999999999999999999999998876 677
No 445
>KOG1539|consensus
Probab=37.56 E-value=1.2e+03 Score=31.56 Aligned_cols=130 Identities=11% Similarity=0.131 Sum_probs=83.0
Q ss_pred CCeEEEEeCCceEEEEecccc-cccCCCCCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEeccccccccccc
Q psy14505 700 SYDIMLFSDSGKAVRFNENSV-RAMGRSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGT 778 (1619)
Q Consensus 700 ~d~lll~T~~G~~~~~~~~eI-p~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~ 778 (1619)
.++++-.+..|-++..+.+++ .+. .-+ ...++...++ |++++-.+.+-+.+++.+++|..+..++ |
T Consensus 124 Ge~lia~d~~~~l~vw~~s~~~~e~--~l~-~~~~~~~~~~-Ital~HP~TYLNKIvvGs~~G~lql~Nv-------r-- 190 (910)
T KOG1539|consen 124 GEHLIAVDISNILFVWKTSSIQEEL--YLQ-STFLKVEGDF-ITALLHPSTYLNKIVVGSSQGRLQLWNV-------R-- 190 (910)
T ss_pred cceEEEEEccCcEEEEEeccccccc--ccc-ceeeeccCCc-eeeEecchhheeeEEEeecCCcEEEEEe-------c--
Confidence 356777888887777777764 221 111 3334444444 8887766655567899999999887764 2
Q ss_pred ccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEEEEecCcccccCCCCCCeEEEEcCCC-ceEEEEEEeec
Q psy14505 779 KGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILIRTRVSEIRKMGRSTQGVILITVENK-SKLCGVQRLCK 851 (1619)
Q Consensus 779 kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~lrf~~~eI~~~gr~a~Gv~~i~L~~~-d~v~~~~~~~~ 851 (1619)
.|+.++.+..-.+.+-++....--|-+.+-+.+|+++.|++. .|-.+|..+-+ .+|.++..=.+
T Consensus 191 t~K~v~~f~~~~s~IT~ieqsPaLDVVaiG~~~G~ViifNlK---------~dkil~sFk~d~g~VtslSFrtD 255 (910)
T KOG1539|consen 191 TGKVVYTFQEFFSRITAIEQSPALDVVAIGLENGTVIIFNLK---------FDKILMSFKQDWGRVTSLSFRTD 255 (910)
T ss_pred cCcEEEEecccccceeEeccCCcceEEEEeccCceEEEEEcc---------cCcEEEEEEccccceeEEEeccC
Confidence 255677776544555555444445678889999999999864 34556666654 56666654333
No 446
>PHA00729 NTP-binding motif containing protein
Probab=37.32 E-value=89 Score=35.83 Aligned_cols=26 Identities=35% Similarity=0.254 Sum_probs=22.6
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCC
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGF 885 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~ 885 (1619)
..|.+.|++|+||++.+..++++++.
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l~~ 43 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDVFW 43 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 45778899999999999999998863
No 447
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=36.38 E-value=1.3e+02 Score=27.81 Aligned_cols=50 Identities=20% Similarity=0.297 Sum_probs=36.7
Q ss_pred EEEEEEEEec--CceEEEEecC-CeEEEEEccccccccccCcCCCCEEEEEEEE
Q psy14505 1519 VNGIIKSIDT--NKGAIIQLSN-EVEGYLRISEEDNKHEKKLKIGENIDVLTVL 1569 (1619)
Q Consensus 1519 v~g~V~~i~~--~~G~~V~l~~-gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~ 1569 (1619)
..|+|+.-.. .||. ++-++ +-.-|+|.+.+.......+.+||.|.+.+..
T Consensus 5 ~~G~Vk~f~~~kGfGF-I~~~~g~~dvfvH~s~l~~~g~~~l~~G~~V~f~~~~ 57 (70)
T PRK10354 5 MTGIVKWFNADKGFGF-ITPDDGSKDVFVHFSAIQNDGYKSLDEGQKVSFTIES 57 (70)
T ss_pred ceEEEEEEeCCCCcEE-EecCCCCccEEEEEeeccccCCCCCCCCCEEEEEEEE
Confidence 3688877643 4554 55544 5789999999865545779999999997765
No 448
>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional
Probab=36.32 E-value=46 Score=37.93 Aligned_cols=37 Identities=24% Similarity=0.208 Sum_probs=30.5
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEE-echhhHHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHY-LDSGALYRLV 897 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~-~dtg~~yr~~ 897 (1619)
++|.+.|.+||||+++++. ++..|+++ |..|...|..
T Consensus 1 miI~i~G~~gsGKstva~~-~~~~g~~~~~~~~d~ik~~ 38 (227)
T PHA02575 1 MLIAISGKKRSGKDTVADF-IIENYNAVKYQLADPIKEI 38 (227)
T ss_pred CEEEEeCCCCCCHHHHHHH-HHhcCCcEEEehhHHHHHH
Confidence 3688899999999999996 47778888 9988777733
No 449
>COG0645 Predicted kinase [General function prediction only]
Probab=34.07 E-value=2.4e+02 Score=30.90 Aligned_cols=34 Identities=32% Similarity=0.418 Sum_probs=29.3
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHH
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYR 895 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr 895 (1619)
+-+.|.+|+||++.++.+++.+|...+-+..+-.
T Consensus 4 ~l~~Gl~GsGKstlA~~l~~~lgA~~lrsD~irk 37 (170)
T COG0645 4 VLVGGLPGSGKSTLARGLAELLGAIRLRSDVIRK 37 (170)
T ss_pred EEEecCCCccHhHHHHHHHhhcCceEEehHHHHH
Confidence 3455789999999999999999999999976654
No 450
>KOG4010|consensus
Probab=33.89 E-value=74 Score=34.59 Aligned_cols=39 Identities=15% Similarity=0.351 Sum_probs=33.3
Q ss_pred hhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Q psy14505 465 QRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRIIEII 503 (1619)
Q Consensus 465 ~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i 503 (1619)
--|+-.|.++|..|+.++++||.-|+..|+.+++--.-+
T Consensus 39 ~~LSe~Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~EL 77 (208)
T KOG4010|consen 39 EALSEEEKEELRTELAKVEEEIVTLRQVLAAKERHAAEL 77 (208)
T ss_pred hhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347889999999999999999999999999987754433
No 451
>KOG3013|consensus
Probab=33.26 E-value=78 Score=36.23 Aligned_cols=69 Identities=17% Similarity=0.274 Sum_probs=50.4
Q ss_pred ccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCCC-------------ccccCCCEEEEEEEEEeCCCCeE
Q psy14505 1081 HDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNGE-------------LEVKIGDFVSVAIESLENGFGDT 1147 (1619)
Q Consensus 1081 ~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~~-------------~~~kvG~~v~~~V~~v~~~~~~v 1147 (1619)
..-..|++|-|.|..|..+---|+++.+..++++.+-+.-+... .-|+.||.+-+-|..+-.+ |.+
T Consensus 81 Y~pEvGDvVVgRV~eVq~KRWkvd~nsk~d~vL~LsSvNLPGg~~RRk~~~DEl~MR~fl~egDLi~AEVQ~v~~d-Gs~ 159 (301)
T KOG3013|consen 81 YAPEVGDVVVGRVIEVQQKRWKVDLNSKQDAVLMLSSVNLPGGIQRRKSEEDELQMRSFLKEGDLIVAEVQNVFHD-GSL 159 (301)
T ss_pred cCCccCCEEEEEeeeeecceeEEecccccceEEEeecccCCchhhhccchhhHHHHHHHhhccCeehHHHHHhccC-CeE
Confidence 35568999999999999999999999999999988766322110 2477888887777666444 344
Q ss_pred EEe
Q psy14505 1148 ILS 1150 (1619)
Q Consensus 1148 ~LS 1150 (1619)
.|-
T Consensus 160 sLh 162 (301)
T KOG3013|consen 160 SLH 162 (301)
T ss_pred EEE
Confidence 443
No 452
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=33.02 E-value=1.7e+02 Score=26.23 Aligned_cols=51 Identities=18% Similarity=0.199 Sum_probs=37.7
Q ss_pred EEEEEEEec--CceEEEEecCCeEEEEEccccccccccCcCCCCEEEEEEEEE
Q psy14505 1520 NGIIKSIDT--NKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGENIDVLTVLI 1570 (1619)
Q Consensus 1520 ~g~V~~i~~--~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~v 1570 (1619)
.|+|+.... .||.+..-..+-.-|+|.+.+.......+++|+.|.+.+..-
T Consensus 2 ~G~Vk~~~~~kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 2 TGTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred cEEEEEEECCCCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 467776653 566554444478889999998765457899999999988765
No 453
>KOG1539|consensus
Probab=32.98 E-value=1.4e+03 Score=30.98 Aligned_cols=149 Identities=13% Similarity=0.122 Sum_probs=88.3
Q ss_pred ccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEeeCCC
Q psy14505 592 HDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKTLLSN 671 (1619)
Q Consensus 592 ~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~~~~~ 671 (1619)
.++++-.+..+-++-.....+.+ .-+.. ..+.+.+.+. |+++... ..+- .-+++.++.|-++-....
T Consensus 124 Ge~lia~d~~~~l~vw~~s~~~~----e~~l~-~~~~~~~~~~-Ital~HP----~TYL--NKIvvGs~~G~lql~Nvr- 190 (910)
T KOG1539|consen 124 GEHLIAVDISNILFVWKTSSIQE----ELYLQ-STFLKVEGDF-ITALLHP----STYL--NKIVVGSSQGRLQLWNVR- 190 (910)
T ss_pred cceEEEEEccCcEEEEEeccccc----ccccc-ceeeeccCCc-eeeEecc----hhhe--eeEEEeecCCcEEEEEec-
Confidence 46677777777777666555411 01222 2333333344 7777643 2222 236777889988876652
Q ss_pred CcCCCCCCceeeecCC-CCeEEEEEEecCCCeEEEEeCCceEEEEecccccccCCCCCCccceecCCC-CEEEEEEEecC
Q psy14505 672 FSNPRKSGIIAVNLSN-EDFLIGAALTDGSYDIMLFSDSGKAVRFNENSVRAMGRSARGVIGMRLEKK-QKVIALLVSNN 749 (1619)
Q Consensus 672 ~~~~~r~G~~~~~lke-~D~l~~~~~~~~~d~lll~T~~G~~~~~~~~eIp~~~r~a~Gv~~i~L~~~-e~Iv~~~~~~~ 749 (1619)
.|+....+++ .+.+..+..+.--|-+.+-+.+|.++.|+.- .|..+++++-+ -+|.++..-.+
T Consensus 191 ------t~K~v~~f~~~~s~IT~ieqsPaLDVVaiG~~~G~ViifNlK---------~dkil~sFk~d~g~VtslSFrtD 255 (910)
T KOG1539|consen 191 ------TGKVVYTFQEFFSRITAIEQSPALDVVAIGLENGTVIIFNLK---------FDKILMSFKQDWGRVTSLSFRTD 255 (910)
T ss_pred ------cCcEEEEecccccceeEeccCCcceEEEEeccCceEEEEEcc---------cCcEEEEEEccccceeEEEeccC
Confidence 2445555555 4677777677777889999999999999872 34456677654 56776655544
Q ss_pred CCCcEEEEEecCceeEEec
Q psy14505 750 QKQSVLTATENGYGKRTLI 768 (1619)
Q Consensus 750 ~~~~ll~~T~~G~~Kr~~l 768 (1619)
.+.-+...+++|..---.|
T Consensus 256 G~p~las~~~~G~m~~wDL 274 (910)
T KOG1539|consen 256 GNPLLASGRSNGDMAFWDL 274 (910)
T ss_pred CCeeEEeccCCceEEEEEc
Confidence 2233334456676554444
No 454
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=32.54 E-value=8.5e+02 Score=29.55 Aligned_cols=23 Identities=13% Similarity=0.299 Sum_probs=13.8
Q ss_pred cCCCCCChHHHHHHH-HHHhcCCC
Q psy14505 180 TNIPPHNLTEVIDGV-LYVLHNPE 202 (1619)
Q Consensus 180 t~ip~~n~~ev~~~~-~~~l~~~~ 202 (1619)
.+.+|+.+.+-++.+ ++++++.+
T Consensus 9 ~~~~~isL~~FL~~~~I~F~dDl~ 32 (325)
T PF08317_consen 9 EDYEPISLQDFLNMTGIRFYDDLE 32 (325)
T ss_pred CCCCCcCHHHHHHHhCceeCCCcc
Confidence 355667777776666 55655443
No 455
>KOG0744|consensus
Probab=31.43 E-value=68 Score=38.26 Aligned_cols=30 Identities=30% Similarity=0.556 Sum_probs=27.0
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCCEEech
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGFHYLDS 890 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~~~~dt 890 (1619)
+|-.-||+|+||.+.++.||++|.++..|+
T Consensus 179 liLlhGPPGTGKTSLCKaLaQkLSIR~~~~ 208 (423)
T KOG0744|consen 179 LILLHGPPGTGKTSLCKALAQKLSIRTNDR 208 (423)
T ss_pred EEEEeCCCCCChhHHHHHHHHhheeeecCc
Confidence 466669999999999999999999998885
No 456
>PF01330 RuvA_N: RuvA N terminal domain; InterPro: IPR013849 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. This entry represents domain I of RuvA, which has an OB-fold structure. This domain forms the RuvA tetramer contacts [].; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJP_A 1D8L_B 1CUK_A 1C7Y_A 1IXR_B 2ZTC_A 2ZTD_B 2H5X_A 2ZTE_A 1BVS_E ....
Probab=30.99 E-value=1.3e+02 Score=26.91 Aligned_cols=44 Identities=18% Similarity=0.384 Sum_probs=32.9
Q ss_pred eEEEEEEEEeccEEEEEeCC-CeEEEEecccccccCCCccccCCCEEEEEE
Q psy14505 1088 VISAEVIGLDRNFVIINADL-KSEAFIPIEEFKNDNGELEVKIGDFVSVAI 1137 (1619)
Q Consensus 1088 iv~G~V~~v~~~gv~V~lg~-~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V 1137 (1619)
-+.|+|..+.++.++++.++ +.+-++|...+.. +..++.+...+
T Consensus 4 ~l~G~v~~~~~~~vvi~~~GvGy~v~v~~~~~~~------l~~~~~v~l~t 48 (61)
T PF01330_consen 4 YLKGKVVEKNPDYVVIDVNGVGYEVFVPSNTLSE------LPEGGEVKLYT 48 (61)
T ss_dssp EEEEEEEEEESSEEEEEETTEEEEEEE-HHHHHT------S-TTSEEEEEE
T ss_pred EEEEEEEEEcCCEEEEEECCEEEEEEeCCchHHh------CCCCCEEEEEE
Confidence 37899999999999999987 7888898776643 45566665554
No 457
>KOG3078|consensus
Probab=30.98 E-value=42 Score=38.43 Aligned_cols=37 Identities=30% Similarity=0.404 Sum_probs=33.9
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhHHHH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRL 896 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~ 896 (1619)
..+.+-|.+|+||++.+..+++.++..++.||.|-|+
T Consensus 16 ~~~v~~G~pg~gkgt~a~~l~~~~~~~hl~tGdllr~ 52 (235)
T KOG3078|consen 16 VRAVLLGAPGSGKGTQAPRLTKNFGVIHISTGDLLRD 52 (235)
T ss_pred eEEEEEeCCCCCCCccCHHHHHhcCCccchhHHHHHH
Confidence 4567778999999999999999999999999999994
No 458
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=30.68 E-value=2.4e+02 Score=26.62 Aligned_cols=67 Identities=19% Similarity=0.159 Sum_probs=48.2
Q ss_pred CCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccccCcCCCCEEEEEEEEEeCCCCEEEEeec
Q psy14505 1516 GSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGENIDVLTVLIDHKTRYIQLSFK 1582 (1619)
Q Consensus 1516 G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd~~~k~i~lSlk 1582 (1619)
.-.+.|+|.+...+.-+-|++.+|..-+.|.+---...--...+||.|.+.....|.++.+|.--.+
T Consensus 6 ~~e~~g~V~e~L~~~~f~v~~edg~~~~ahI~GKmr~~~i~I~~GD~V~Ve~~~~d~~kg~I~~Ry~ 72 (75)
T COG0361 6 EIEMEGTVIEMLPNGRFRVELENGHERLAHISGKMRKNRIRILPGDVVLVELSPYDLTKGRIVYRYK 72 (75)
T ss_pred ccEEEEEEEEecCCCEEEEEecCCcEEEEEccCcchheeEEeCCCCEEEEEecccccccccEEEEec
Confidence 3467899999975555778999987776666522111124578999999999999988888865444
No 459
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=30.66 E-value=2.1e+02 Score=28.51 Aligned_cols=66 Identities=15% Similarity=0.199 Sum_probs=48.9
Q ss_pred cceeEEEEEEEEcCCeEE-EEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeee
Q psy14505 1341 RGTRLLGKVTNLTDYGAF-VEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMK 1412 (1619)
Q Consensus 1341 ~G~iv~g~V~~v~~~G~f-V~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK 1412 (1619)
.-..+.|+|+.....+.| |.+.+|..-++|++-= ... .-.+++||.|.|.....+..+++|..-+.
T Consensus 19 ~e~e~~g~V~~~lG~~~~~V~~~dG~~~la~i~GK-----~Rk-~IwI~~GD~VlVe~~~~~~~kg~Iv~r~~ 85 (100)
T PRK04012 19 EEGEVFGVVEQMLGANRVRVRCMDGVERMGRIPGK-----MKK-RMWIREGDVVIVAPWDFQDEKADIIWRYT 85 (100)
T ss_pred CCCEEEEEEEEEcCCCEEEEEeCCCCEEEEEEchh-----hcc-cEEecCCCEEEEEecccCCCEEEEEEEcC
Confidence 345588999999988865 4888888888876532 222 45678999999999888877777766554
No 460
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=29.34 E-value=1.8e+02 Score=31.39 Aligned_cols=44 Identities=9% Similarity=0.123 Sum_probs=22.3
Q ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHc
Q psy14505 355 ILHRKE-VIKRRTIFELRKAREYAHILEGLTIALTNIDNFIQIIRS 399 (1619)
Q Consensus 355 ~~~R~~-~~~rR~~~~l~k~~~r~~ileg~~~a~~~id~vi~iir~ 399 (1619)
|.||=+ +++++++..++.+++.-....... ....+|.||..+++
T Consensus 47 CGFRWNs~VRkqY~~~i~~AKkqRk~~~~~~-~~ltl~~vI~fLq~ 91 (161)
T TIGR02894 47 CGFRWNAYVRKQYEEAIELAKKQRKELKREA-GSLTLQDVISFLQN 91 (161)
T ss_pred hcchHHHHHHHHHHHHHHHHHHHHhccccCc-ccCCHHHHHHHHHH
Confidence 556654 555566666666655443322110 12235666666543
No 461
>PRK13711 conjugal transfer protein TrbJ; Provisional
Probab=29.09 E-value=31 Score=32.24 Aligned_cols=19 Identities=63% Similarity=0.943 Sum_probs=15.4
Q ss_pred eeeecCCcceeeee--ecCCC
Q psy14505 165 NLLINGSSGIAVGM--ATNIP 183 (1619)
Q Consensus 165 ~~L~ng~~Gia~G~--at~ip 183 (1619)
.+|+-|.+|||+|. +-|||
T Consensus 27 vlliagisgiatgiivslnip 47 (113)
T PRK13711 27 VLLIAGISGIATGIIVSLNIP 47 (113)
T ss_pred EEEEeccccceeeEEEEecch
Confidence 47899999999997 45665
No 462
>KOG3308|consensus
Probab=28.59 E-value=82 Score=35.23 Aligned_cols=47 Identities=23% Similarity=0.323 Sum_probs=36.9
Q ss_pred ccEEEecCCcCCCCchhHHHHHHH-hCCEEechhhHHHHHHHHHHHcC
Q psy14505 859 IPVITIDGPTASGKGTVAQLVASK-LGFHYLDSGALYRLVTLSAINNN 905 (1619)
Q Consensus 859 ~~iIti~g~~gsGK~~~~~~la~~-l~~~~~dtg~~yr~~~~~a~~~~ 905 (1619)
.++|.++|-..|||+|.++.+..- -|..++.-+.+|.-.+......+
T Consensus 4 ~~ivgiSG~TnsGKTTLak~l~~~f~~~~lIhqDDFyKp~~Ei~v~~~ 51 (225)
T KOG3308|consen 4 TLIVGISGCTNSGKTTLAKSLHRFFPGCSLIHQDDFYKPENEIEVDYN 51 (225)
T ss_pred EEEEEeecccCCCHhHHHHHHHHHccCCeeeccccccCchhhhhcccC
Confidence 468899999999999999998854 46788888888886666554444
No 463
>TIGR01223 Pmev_kin_anim phosphomevalonate kinase, animal type. This enzyme is part of the mevalonate pathway, one of two alternative pathways for the biosynthesis of IPP. In an example of nonorthologous gene displacement, two different types of phosphomevalonate kinase are found. One is this type, found in animals. The other is the ERG8 type, found in plants and fungi (TIGR01219) and in Gram-positive bacteria (TIGR01220).
Probab=28.32 E-value=1.7e+02 Score=32.30 Aligned_cols=44 Identities=27% Similarity=0.354 Sum_probs=30.4
Q ss_pred EEEecCCcCCCCchhHHHHHHHhCC----EEechhhHHHHHHHHHHHcCCC
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLGF----HYLDSGALYRLVTLSAINNNIQ 907 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~~----~~~dtg~~yr~~~~~a~~~~~~ 907 (1619)
+|.++|..++||.+++..+.++++. .+==++.+-|+.|. ..|++
T Consensus 1 iilisGKrksGKD~~a~~l~~~l~~~~~~~vriS~piK~~~A~---~~gld 48 (182)
T TIGR01223 1 VLLFSGKRKSGKDFVTEALQSRLGADVCAVLRLSGPLKEQYAQ---EHGLN 48 (182)
T ss_pred CEEEecCCCCChHHHHHHHHHhhccccceEEEecHHHHHHHHH---HhChh
Confidence 3667899999999999999888874 12224566664443 55553
No 464
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=28.11 E-value=3.6e+02 Score=24.21 Aligned_cols=49 Identities=27% Similarity=0.345 Sum_probs=34.2
Q ss_pred EEEEEEEcC---CeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1346 LGKVTNLTD---YGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1346 ~g~V~~v~~---~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
.|+|+...+ ||....-+.+-+-|+|.+++... ....++.|+.|+..+..
T Consensus 2 ~G~V~~~~~~kgyGFI~~~~~~~diFfh~s~~~~~-----~~~~l~~G~~V~F~~~~ 53 (66)
T PF00313_consen 2 TGTVKWFDDEKGYGFITSDDGGEDIFFHISDLSGN-----GFRSLKEGDRVEFEVEE 53 (66)
T ss_dssp EEEEEEEETTTTEEEEEETTSSSEEEEEGGGBCSS-----SSTS--TTSEEEEEEEE
T ss_pred eEEEEEEECCCCceEEEEcccceeEEecccccccc-----ccccCCCCCEEEEEEEE
Confidence 688988875 45554444455999999999641 13567899999999876
No 465
>PF03112 DUF244: Uncharacterized protein family (ORF7) DUF; InterPro: IPR004335 Many of the proteins in this entry are Borrelia burgdorferi plasmid proteins of unknown function.
Probab=27.83 E-value=1.6e+02 Score=31.11 Aligned_cols=41 Identities=27% Similarity=0.311 Sum_probs=24.5
Q ss_pred cccCHHHHHHhhccchhhcc--hHHHHHHHHHHHHHHHHHHHH
Q psy14505 449 YKLSDIQAQEILKMPLQRLT--NMEQKKIINKYENVIKKVIDL 489 (1619)
Q Consensus 449 ~~~~~~Qa~aIL~m~L~~Lt--~~e~~~l~~e~~~l~~~i~~l 489 (1619)
.+++.+|+.+-|+-.|.-+. +.|+.|+++|.++.++.++++
T Consensus 61 LeI~~eq~a~nLe~~L~EI~~lq~ElnKiqnEn~k~ekp~Kd~ 103 (158)
T PF03112_consen 61 LEIKTEQSAENLECSLMEIDSLQTELNKIQNENKKREKPIKDL 103 (158)
T ss_pred hhccchHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhhchHHHH
Confidence 67888999998888774332 234445555555544444443
No 466
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=27.18 E-value=2.7e+02 Score=25.16 Aligned_cols=56 Identities=27% Similarity=0.200 Sum_probs=39.8
Q ss_pred eEEEEEEEEecCceEEEEecCCeEEEEEccccccccccCcCCCCEEEEEEEEEeCCCCEEEEe
Q psy14505 1518 LVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGENIDVLTVLIDHKTRYIQLS 1580 (1619)
Q Consensus 1518 ~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~V~~~Vl~vd~~~k~i~lS 1580 (1619)
-++|+|.+|. ....-+.|.+|-.=-+|... ..+.+++|.+|.+..-..+ .+++.=+
T Consensus 4 ~veG~I~~id-~~~~titLdDGksy~lp~ef----~~~~L~~G~kV~V~yd~~~--gk~vitd 59 (61)
T PF07076_consen 4 DVEGTIKSID-PETMTITLDDGKSYKLPEEF----DFDGLKPGMKVVVFYDEVD--GKRVITD 59 (61)
T ss_pred cceEEEEEEc-CCceEEEecCCCEEECCCcc----cccccCCCCEEEEEEEccC--CcEEeee
Confidence 4789999996 77899999998655555432 1367999999987776655 3355433
No 467
>PF04762 IKI3: IKI3 family; InterPro: IPR006849 Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation [].
Probab=27.18 E-value=5.5e+02 Score=35.98 Aligned_cols=122 Identities=13% Similarity=0.081 Sum_probs=0.0
Q ss_pred CCCeEEEEEEecCCCeEEEEeCCceE-EEEecccccccCCCCCCccceecC------CCCEEEEEEEecCCCCcEEEEEe
Q psy14505 687 NEDFLIGAALTDGSYDIMLFSDSGKA-VRFNENSVRAMGRSARGVIGMRLE------KKQKVIALLVSNNQKQSVLTATE 759 (1619)
Q Consensus 687 e~D~l~~~~~~~~~d~lll~T~~G~~-~~~~~~eIp~~~r~a~Gv~~i~L~------~~e~Iv~~~~~~~~~~~ll~~T~ 759 (1619)
.++.+.........+.+++++..... +.+.+......+ .=..+.+++ ++++|+++-.+.+ ...++++++
T Consensus 20 ~~~~~~~~~~d~~sd~i~~~~~~~~~~~~i~~~~~~~~~---~~~~l~s~~~~~~~~~~~~ivs~~yl~d-~~~l~~~~~ 95 (928)
T PF04762_consen 20 PDLPITATAFDSDSDSIYFVLGPNEIDYVIELDRFSQDG---SVEVLASWDAPLPDDPNDKIVSFQYLAD-SESLCIALA 95 (928)
T ss_pred cccccceEEEecCCCeEEEEECCCCcceEEEEEeeccCC---ceeEEEeccccCCcCCCCcEEEEEeccC-CCcEEEEEC
Q ss_pred cCceeEE------ecccccccccccccceeeeeccCCCeEEEEEEecCCcEEEEEECCCeEE
Q psy14505 760 NGYGKRT------LIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNRYHEIMLITTGGILI 815 (1619)
Q Consensus 760 ~G~~Kr~------~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~~~~i~l~T~~g~~l 815 (1619)
+|-+-.+ .-.+.+....=..|+.|+.-.. +++++++ +++++.+++.|.+-..+
T Consensus 96 ~Gdi~~~~~~~~~~~~~~E~VG~vd~GI~a~~WSP-D~Ella~--vT~~~~l~~mt~~fd~i 154 (928)
T PF04762_consen 96 SGDIILVREDPDPDEDEIEIVGSVDSGILAASWSP-DEELLAL--VTGEGNLLLMTRDFDPI 154 (928)
T ss_pred CceEEEEEccCCCCCceeEEEEEEcCcEEEEEECC-CcCEEEE--EeCCCEEEEEeccceEE
No 468
>PRK15464 cold shock-like protein CspH; Provisional
Probab=26.89 E-value=1.6e+02 Score=27.34 Aligned_cols=50 Identities=22% Similarity=0.235 Sum_probs=36.5
Q ss_pred EEEEEEEEcC-CeE-EEEEcC-CEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1345 LLGKVTNLTD-YGA-FVEIEK-GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1345 v~g~V~~v~~-~G~-fV~l~~-gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
+.|+|+...+ .|. |+.-++ +-+-|+|++.+.. .....+.+||.|.+.|..
T Consensus 5 ~~G~Vk~fn~~KGfGFI~~~~g~~DvFvH~s~l~~-----~g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15464 5 MTGIVKTFDRKSGKGFIIPSDGRKEVQVHISAFTP-----RDAEVLIPGLRVEFCRVN 57 (70)
T ss_pred ceEEEEEEECCCCeEEEccCCCCccEEEEehhehh-----cCCCCCCCCCEEEEEEEE
Confidence 4799998865 465 676654 5799999999942 113457899999998764
No 469
>KOG0733|consensus
Probab=26.87 E-value=2.9e+02 Score=35.95 Aligned_cols=65 Identities=20% Similarity=0.400 Sum_probs=45.7
Q ss_pred ecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHHHHHHHHcccceecCceEEeCCcc
Q psy14505 864 IDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELELVILIKKLNYNFLGKEVYLNGVN 936 (1619)
Q Consensus 864 i~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 936 (1619)
+-|++|+||...++.+|..+|+|||.- +---+=+|++=+.++.+.++..+-. .....-+|+|.-|
T Consensus 228 lHGPPGCGKT~lA~AiAgel~vPf~~i-------sApeivSGvSGESEkkiRelF~~A~-~~aPcivFiDeID 292 (802)
T KOG0733|consen 228 LHGPPGCGKTSLANAIAGELGVPFLSI-------SAPEIVSGVSGESEKKIRELFDQAK-SNAPCIVFIDEID 292 (802)
T ss_pred eeCCCCccHHHHHHHHhhhcCCceEee-------cchhhhcccCcccHHHHHHHHHHHh-ccCCeEEEeeccc
Confidence 348999999999999999999999994 2122346887777777776644321 1122457777765
No 470
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=26.61 E-value=2e+02 Score=26.50 Aligned_cols=52 Identities=21% Similarity=0.277 Sum_probs=35.9
Q ss_pred eEEEEEEEEcC-CeE-EEEE-cCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEe
Q psy14505 1344 RLLGKVTNLTD-YGA-FVEI-EKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEI 1400 (1619)
Q Consensus 1344 iv~g~V~~v~~-~G~-fV~l-~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~i 1400 (1619)
.+.|+|+...+ .|. |+.- +++-+-|+|++.+.. .....+.+|+.|.+.+..-
T Consensus 3 ~~~G~Vk~f~~~kGyGFI~~~~g~~dvfvH~s~l~~-----~g~~~l~~G~~V~f~~~~~ 57 (69)
T PRK09507 3 KIKGNVKWFNESKGFGFITPEDGSKDVFVHFSAIQT-----NGFKTLAEGQRVEFEITNG 57 (69)
T ss_pred ccceEEEEEeCCCCcEEEecCCCCeeEEEEeecccc-----cCCCCCCCCCEEEEEEEEC
Confidence 45789998864 343 5555 445799999999942 1124567999999976543
No 471
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=26.14 E-value=1.7e+02 Score=35.01 Aligned_cols=80 Identities=16% Similarity=0.156 Sum_probs=46.1
Q ss_pred CeEEEEeCCCCCCCCCccccccCCCCCCEEEEEEEEeecCCCeEEEeeecCcCCCccccc----ccCCCCCeEEEEEEEE
Q psy14505 1451 NIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEAIILSIDVEKERISLGIKQLEGDPFNNYV----NINDKGSLVNGIIKSI 1526 (1619)
Q Consensus 1451 ~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~~Vl~vd~e~~ri~LSlK~~~~~p~~~~~----~~~~~G~~v~g~V~~i 1526 (1619)
|+.+|+...+-....+-+.+..-|+.|++|++.|+-- +++.--+-....+-..... ....+|+.|+..|++-
T Consensus 329 g~kpLilkP~~fG~~pRp~lp~PF~rGevv~aevV~~----Gr~kGEmlavArdRvIav~~~~~~~~~vG~~vkvrIvr~ 404 (414)
T COG2100 329 GVKPLILKPGEFGMHPRPRLPKPFKRGEVVKAEVVLP----GRLKGEMLAVARDRVIAVINSNEGALLVGDRVKVRIVRT 404 (414)
T ss_pred CCCccccChhhcCCCcCCCCCCccccCcEEEEEEEec----ceecceEEEEecccEEEEecCchhhhccCceEEEEEEEc
Confidence 4555554443332334445566799999999998743 3333333222112111111 1357999999999997
Q ss_pred ecCceEEEEe
Q psy14505 1527 DTNKGAIIQL 1536 (1619)
Q Consensus 1527 ~~~~G~~V~l 1536 (1619)
+ .|+||-.
T Consensus 405 k--hnI~Ia~ 412 (414)
T COG2100 405 K--HNIYIAV 412 (414)
T ss_pred c--CceEEee
Confidence 4 5688754
No 472
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=25.48 E-value=2.8e+02 Score=33.35 Aligned_cols=34 Identities=38% Similarity=0.568 Sum_probs=29.4
Q ss_pred cEEEecCCcCCCCchhHHHHHHHhCCEEechhhH
Q psy14505 860 PVITIDGPTASGKGTVAQLVASKLGFHYLDSGAL 893 (1619)
Q Consensus 860 ~iIti~g~~gsGK~~~~~~la~~l~~~~~dtg~~ 893 (1619)
.++.+-||.++||+..+-.||+++|.+.++.+.|
T Consensus 4 ~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~DSm 37 (308)
T COG0324 4 KLIVIAGPTASGKTALAIALAKRLGGEIISLDSM 37 (308)
T ss_pred cEEEEECCCCcCHHHHHHHHHHHcCCcEEecchh
Confidence 3677889999999999999999999998876554
No 473
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=25.47 E-value=1.7e+02 Score=26.22 Aligned_cols=49 Identities=22% Similarity=0.257 Sum_probs=33.2
Q ss_pred CeEEEEEEEEeccE----EEEEeCC--CeEEEEecccccccCCCccccCCCEEEEEEEE
Q psy14505 1087 EVISAEVIGLDRNF----VIINADL--KSEAFIPIEEFKNDNGELEVKIGDFVSVAIES 1139 (1619)
Q Consensus 1087 ~iv~G~V~~v~~~g----v~V~lg~--~~~Gfi~~~e~~~~~~~~~~kvG~~v~~~V~~ 1139 (1619)
-.+.|+|.++...+ +.+++++ .+.+.++.+.+.. ..+++|+.+.+.+..
T Consensus 7 N~l~g~I~~i~~~g~~~~v~l~~~~~~~l~a~i~~~~~~~----l~l~~G~~v~~~ik~ 61 (69)
T TIGR00638 7 NQLKGKVVAIEDGDVNAEVDLLLGGGTKLTAVITLESVAE----LGLKPGKEVYAVIKA 61 (69)
T ss_pred cEEEEEEEEEEECCCeEEEEEEECCCCEEEEEecHHHHhh----CCCCCCCEEEEEEEC
Confidence 35889999998766 4455544 3556666654432 357899999988744
No 474
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=25.39 E-value=38 Score=36.35 Aligned_cols=27 Identities=30% Similarity=0.581 Sum_probs=21.4
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEec
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLD 889 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~d 889 (1619)
|.+.|.+|+||+|.++.|++. |++++.
T Consensus 2 I~i~G~~stGKTTL~~~L~~~-g~~~v~ 28 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR-GYPVVP 28 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH-T-EEE-
T ss_pred EEEECCCCCCHHHHHHHHHHc-CCeEEe
Confidence 667899999999999999999 999994
No 475
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.92 E-value=2.8e+02 Score=32.08 Aligned_cols=66 Identities=23% Similarity=0.352 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCHH----HHHHHHHHHHHHHHHHhCCCCCCCCccccccccCCCCccccccCcceEE
Q psy14505 471 EQKKIINKYENVIKKVIDLTDILSNSK----RIIEIITDELNIIKNKYGSHKKNIRRSEIILNAINPSTEDLIASQDMVI 546 (1619)
Q Consensus 471 e~~~l~~e~~~l~~~i~~l~~iL~~~~----~~~~~i~~el~~ik~~f~~~~~~~RrT~I~~~~~~~~~~~li~~e~~~v 546 (1619)
+...++++..+|+.|+++|++-++|-. .....+-++|+.++..-|. +. +.-+-++|
T Consensus 58 e~~s~Q~~~~~L~~ev~~~~~~~~s~~~~~~t~~~~ie~~l~~l~~~aG~-------v~-------------V~G~Gl~I 117 (247)
T COG3879 58 ELRSLQKKVNTLAAEVEDLENKLDSVRRSVLTDDAALEDRLEKLRMLAGS-------VP-------------VTGPGLVI 117 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHHhcc-------CC-------------CcCCcEEE
Confidence 566777788888888888888887777 7778888888888877775 11 34466777
Q ss_pred EEccCccEEe
Q psy14505 547 TLSNLGYIKS 556 (1619)
Q Consensus 547 ~ls~~GyiKr 556 (1619)
+++..||.--
T Consensus 118 Ti~d~~~~~~ 127 (247)
T COG3879 118 TIDDPGYSPN 127 (247)
T ss_pred EecCCCCCcc
Confidence 7777665443
No 476
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=24.71 E-value=2.8e+02 Score=26.24 Aligned_cols=63 Identities=16% Similarity=0.204 Sum_probs=0.0
Q ss_pred EEEEEEEEcCCeEEE-EEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEeecccceEEEeeec
Q psy14505 1345 LLGKVTNLTDYGAFV-EIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEINEERRRISLGMKQ 1413 (1619)
Q Consensus 1345 v~g~V~~v~~~G~fV-~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id~e~~ri~LSlK~ 1413 (1619)
+.|+|+.....+.|- .+.+|..-+++++ .+... .-.+++||.|.|.....|..+++|.--+.+
T Consensus 2 ~~g~V~~~~g~~~~~V~~~~g~~~la~i~-----gK~rk-~iwI~~GD~V~Ve~~~~d~~kg~Iv~r~~~ 65 (77)
T cd05793 2 EYGQVEKMLGNGRLEVRCFDGKKRLCRIR-----GKMRK-RVWINEGDIVLVAPWDFQDDKADIIYKYTP 65 (77)
T ss_pred EEEEEEEEcCCCEEEEEECCCCEEEEEEc-----hhhcc-cEEEcCCCEEEEEeccccCCEEEEEEEcCH
No 477
>cd05701 S1_Rrp5_repeat_hs10 S1_Rrp5_repeat_hs10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 10 (hs10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=24.69 E-value=1.1e+02 Score=27.53 Aligned_cols=57 Identities=16% Similarity=0.166 Sum_probs=39.4
Q ss_pred cEEEEEEEEEecCeEEEEeC--C-EEEEeeccccCccccCCCccccccCCEEEEEEEEeec
Q psy14505 1258 CTVKGVVKNITDYGAFIDLG--G-IDGLLHITDIAWRRVKHPSEILTIGQDISTKILKYDQ 1315 (1619)
Q Consensus 1258 ~iv~g~V~~v~~~G~~V~l~--g-i~g~l~~sels~~~~~~~~~~~~vG~~v~vrVl~vd~ 1315 (1619)
...++.|..+.+.-++|.+. + ..+|=-.+|+.+-+..+ .+++++||.+.+.+...+.
T Consensus 2 S~htA~VQh~~kdfAvvSL~~t~~L~a~p~~sHLNdtfrf~-seklkvG~~l~v~lk~~~~ 61 (69)
T cd05701 2 SRHTAIVQHADKDFAIVSLATTGDLAAFPTRSHLNDTFRFD-SEKLSVGQCLDVTLKDPNC 61 (69)
T ss_pred CccchhhhhhhhceEEEEeeccccEEEEEchhhcccccccc-ceeeeccceEEEEEecCcc
Confidence 34567888888888999984 3 55555557776643333 3458999999998876654
No 478
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=24.64 E-value=1e+03 Score=27.59 Aligned_cols=17 Identities=18% Similarity=0.364 Sum_probs=9.6
Q ss_pred hhhhcccCCCCcccccc
Q psy14505 561 EYRAQKRGGRGKKAMMT 577 (1619)
Q Consensus 561 ~~~~~~r~g~g~~~~~~ 577 (1619)
.|..++++++|.....+
T Consensus 179 ~yeri~~~~kg~gvvpl 195 (239)
T COG1579 179 EYERIRKNKKGVGVVPL 195 (239)
T ss_pred HHHHHHhcCCCceEEee
Confidence 46666666656544443
No 479
>KOG4212|consensus
Probab=24.43 E-value=1e+02 Score=37.59 Aligned_cols=61 Identities=36% Similarity=0.478 Sum_probs=43.3
Q ss_pred EEEEecCCcccHHHHHHHHHHHHhcc--CcCCcceeecccCCcceEEEEEecCCCCHHHHHHHHHhh
Q psy14505 259 IIIDELPYQVNKKSLLEKISQLVKEK--KLECISNLRDESDKSGMRIVIELKRNEIPEIVLNKLYKQ 323 (1619)
Q Consensus 259 i~itelP~~~~~~~~~~~i~~~~~~~--~~~~i~~~~d~s~~~~~~i~i~lk~~~~~~~~~~~l~k~ 323 (1619)
.-||.|||.+--++| .+|+++| .+.-+.=+-|++.+.-=+-|+|+|-..+.+.-+++|-|+
T Consensus 47 vfItNIpyd~rWqdL----KdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~ 109 (608)
T KOG4212|consen 47 VFITNIPYDYRWQDL----KDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKY 109 (608)
T ss_pred EEEecCcchhhhHhH----HHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhc
Confidence 789999999855544 4555553 344455677888887667889999777777767777553
No 480
>PRK13020 riboflavin synthase subunit alpha; Provisional
Probab=24.20 E-value=6.8e+02 Score=28.35 Aligned_cols=152 Identities=14% Similarity=0.241 Sum_probs=77.0
Q ss_pred EEEEEeecCCCeEEEeeeccccCCccccccccccceeEE--E---EEEEEcCCeEEEEEcCCEEEEEeccccCccccCCC
Q psy14505 1308 TKILKYDQEKNRVSLGMKQLGIDPWIGLSFRYPRGTRLL--G---KVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVT 1382 (1619)
Q Consensus 1308 vrVl~vd~~~~~i~LSlK~~~~~~~~~~~~~l~~G~iv~--g---~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~ 1382 (1619)
++|.++.+..+...++++.. . .....+.+|+-+- | +|.++.+..+.+.+.+..-..-....+.- ....|
T Consensus 10 g~I~~i~~~~~~~~l~i~~~--~---~~~~~l~~g~SIavnGVcLTV~~v~~~~f~~~lipeTl~~T~l~~~~~-G~~VN 83 (206)
T PRK13020 10 AEVVAIHKKDGLNTLEIAFP--P---ELLEGLEIGASVAVNGVCLTVTKIEGDRVFFDVMEETLRLTNLADLRV-GDRVN 83 (206)
T ss_pred EEEEEEEECCCcEEEEEEeC--h---hHhccCCCCCEEEECCEEEEEEEECCCEEEEEEhHHHHhhCchhhccC-CCEEe
Confidence 45667776666666666532 1 1223567777664 3 67777766677776432111111111100 01124
Q ss_pred ccccccCCCEE-----------EEEEEEeecccceEEEeeecccCCCCcccccccccceE-EEE---EEEEEecceEEEe
Q psy14505 1383 PSKIVQLNDTV-----------EIMILEINEERRRISLGMKQCKDNPWENFSIIHKKGEK-IKG---IIKSITDFGIFIG 1447 (1619)
Q Consensus 1383 ~~~~~~vG~~V-----------~vrVl~id~e~~ri~LSlK~~~~~~~~~~~~~~~vG~~-v~G---~V~~i~~~GvfV~ 1447 (1619)
.+..++.|+.+ .++|.++.+..+...+.++-. ..+.. .....|.+ +.| +|.++.+..++|.
T Consensus 84 lEral~~~~rlgGH~v~GhVd~~~~i~~i~~~~~~~~~~i~~~--~~~~~--~i~~kgSIaidGvsLTV~~v~~~~f~v~ 159 (206)
T PRK13020 84 IERSAKFGAEIGGHILSGHVDTTATVVEISDTEENYDIRFRVP--PEWMK--YIFAKGFIGVNGCSLTVGEVDESEFEVH 159 (206)
T ss_pred eEecccCCCccCCEeEEEEccEEEEEEEEEEcCCCEEEEEEEC--hHHhc--ccccCCEEEEeeEEEEEEeEcCCEEEEE
Confidence 45555555542 256788887777776666532 11111 12233554 445 5777766666665
Q ss_pred eCCCeEEEEeCCCCCCCCCccccccCCCCCCEEEE
Q psy14505 1448 LDGNIDGLIHLSDLSWTDPGEEIIRNFKKGDEIEA 1482 (1619)
Q Consensus 1448 ~~~~v~Glv~~sels~~~~~~~~~~~f~vGq~V~~ 1482 (1619)
+-+ - -+. ..+ -..+++|+.|..
T Consensus 160 lIp-------~-Tl~----~T~-l~~~k~G~~VNi 181 (206)
T PRK13020 160 LIP-------E-TLR----ATN-LGAKKVGDLVNI 181 (206)
T ss_pred EeH-------H-HHh----hcc-cccCCCCCEEEE
Confidence 522 1 111 011 124899999985
No 481
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=24.16 E-value=1.6e+02 Score=35.35 Aligned_cols=96 Identities=23% Similarity=0.364 Sum_probs=59.6
Q ss_pred EEecCCcCCCCchhHHHHHHHhCCEEechhhHHHHHHHHHHHcCCCCCcHHH-HHHHHHcccceec---CceEEeCCcc-
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLGFHYLDSGALYRLVTLSAINNNIQLDNELE-LVILIKKLNYNFL---GKEVYLNGVN- 936 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~~~~~dtg~~yr~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~- 936 (1619)
|..=||.||||...++-||+.|++||-=++|. + .-+.|+-=+|.+. +..++...++... .+-+|+|.-|
T Consensus 100 ILLiGPTGsGKTlLAqTLAk~LnVPFaiADAT----t--LTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDK 173 (408)
T COG1219 100 ILLIGPTGSGKTLLAQTLAKILNVPFAIADAT----T--LTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDK 173 (408)
T ss_pred EEEECCCCCcHHHHHHHHHHHhCCCeeecccc----c--hhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhh
Confidence 33346899999999999999999999755443 2 2367776566665 4455555555542 2467887765
Q ss_pred ccccccccccccccccccccHHHHHHHHHHH
Q psy14505 937 VTTLIRNEKVSNNASKIAKFKNIRKELFKIQ 967 (1619)
Q Consensus 937 v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~ 967 (1619)
++..=-.+.+++.+|. ..|.++|.+++
T Consensus 174 IarkSeN~SITRDVSG----EGVQQALLKii 200 (408)
T COG1219 174 IARKSENPSITRDVSG----EGVQQALLKII 200 (408)
T ss_pred hhccCCCCCcccccCc----hHHHHHHHHHH
Confidence 3322223444444443 46677776643
No 482
>PRK10943 cold shock-like protein CspC; Provisional
Probab=24.14 E-value=2.3e+02 Score=26.17 Aligned_cols=51 Identities=22% Similarity=0.289 Sum_probs=36.1
Q ss_pred eEEEEEEEEcC-CeE-EEEEc-CCEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1344 RLLGKVTNLTD-YGA-FVEIE-KGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1344 iv~g~V~~v~~-~G~-fV~l~-~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
.+.|+|+...+ .|. |+.-. ++-+-|+|++.+... -...+.+|+.|.+.+..
T Consensus 3 ~~~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~~-----g~~~l~~G~~V~f~~~~ 56 (69)
T PRK10943 3 KIKGQVKWFNESKGFGFITPADGSKDVFVHFSAIQGN-----GFKTLAEGQNVEFEIQD 56 (69)
T ss_pred ccceEEEEEeCCCCcEEEecCCCCeeEEEEhhHcccc-----CCCCCCCCCEEEEEEEE
Confidence 45799998865 443 56554 468999999999431 12456799999998654
No 483
>PF09883 DUF2110: Uncharacterized protein conserved in archaea (DUF2110); InterPro: IPR016757 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.10 E-value=2.9e+02 Score=31.29 Aligned_cols=107 Identities=18% Similarity=0.207 Sum_probs=66.2
Q ss_pred eEEccCcccchhhhhhhhhhhhhhhhhhcccccCCCCCeEEEEEEEEeccEEEEEeCCCeEEEEecccccccCC------
Q psy14505 1050 HLLNTSKMNINQVVNQILDCFATLFKESLLRHDMRSGEVISAEVIGLDRNFVIINADLKSEAFIPIEEFKNDNG------ 1123 (1619)
Q Consensus 1050 l~Idts~l~ieevv~~I~~~i~~ll~e~l~~~~l~~G~iv~G~V~~v~~~gv~V~lg~~~~Gfi~~~e~~~~~~------ 1123 (1619)
..+.-+.-..+-..+.+.+.+-+... ..+.+. |++..|++.+..+.|+.++++ +...-+|.+++..-..
T Consensus 43 v~vtl~GeD~eva~Nll~eefGei~~---~le~v~-Ge~y~G~l~s~~~~G~~~~v~-G~~~~ip~d~L~~Lg~g~~~Qi 117 (225)
T PF09883_consen 43 VKVTLEGEDEEVAANLLREEFGEIVY---SLEPVK-GETYVGTLISWDEDGYGVDVD-GIFVPIPKDELKPLGPGSPRQI 117 (225)
T ss_pred eEEEEecCcHHHHHHHHHHHhCCCCc---hhcccC-CceEEEEEEeecccceEEEee-cccccCcHHHhcccCCCCHHHH
Confidence 34444533444444444443333222 112344 999999999999999999998 7778888888832111
Q ss_pred --CccccCCCEEEEEEEEEeCCCCeEEEehHHHHHHHhHHH
Q psy14505 1124 --ELEVKIGDFVSVAIESLENGFGDTILSRDKAKRLASWLS 1162 (1619)
Q Consensus 1124 --~~~~kvG~~v~~~V~~v~~~~~~v~LS~~~~~~~~~~~~ 1162 (1619)
..-+-.-.+|...|...+.. ....||-++......|.+
T Consensus 118 ~~rFG~V~hlPvev~~v~~~~~-~~~rltd~q~d~l~~W~~ 157 (225)
T PF09883_consen 118 RRRFGLVQHLPVEVEFVKVEDG-IEARLTDEQVDRLYEWTR 157 (225)
T ss_pred HHHhCcccCCceEEEEEEcccC-cccccCHHHHHHHHHHhh
Confidence 11245566777888887665 445666666555566654
No 484
>KOG0319|consensus
Probab=23.82 E-value=1.9e+03 Score=29.44 Aligned_cols=259 Identities=12% Similarity=0.065 Sum_probs=0.0
Q ss_pred ccccccccCCCCccccccCcceEEEEccCccEEeccCchhhhcccCCCCccccccCC-CCeEEEEEEeeCccEEEEEeeC
Q psy14505 523 RSEIILNAINPSTEDLIASQDMVITLSNLGYIKSQPISEYRAQKRGGRGKKAMMTKD-EDWINQLFIANTHDYILCFSNY 601 (1619)
Q Consensus 523 rT~I~~~~~~~~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~~~r~g~g~~~~~~k~-~D~~~~~~~~~t~d~llifT~~ 601 (1619)
++-..+....++.-++.+++++.+.+++.+.++-.++.+ |.-.-..|. +..++....++... .+++.-
T Consensus 55 ~s~~~ed~d~ita~~l~~d~~~L~~a~rs~llrv~~L~t---------gk~irswKa~He~Pvi~ma~~~~g--~LlAtg 123 (775)
T KOG0319|consen 55 PSGSNEDEDEITALALTPDEEVLVTASRSQLLRVWSLPT---------GKLIRSWKAIHEAPVITMAFDPTG--TLLATG 123 (775)
T ss_pred ccCCccchhhhheeeecCCccEEEEeeccceEEEEEccc---------chHhHhHhhccCCCeEEEEEcCCC--ceEEec
Q ss_pred ceEEEEEcccCCCC----CccCCCccceecccCCCCceE-------------------------------EEEEecCCCC
Q psy14505 602 GRLYWLKVWQIPQG----SRNSRGKPIINMFSLKNKEKI-------------------------------TVILPLSNNK 646 (1619)
Q Consensus 602 Gkv~~i~v~elp~~----~~~~~G~~i~~ll~l~~~e~i-------------------------------~~i~~~~~~~ 646 (1619)
|-.-.++++++... .-++.|-++..++ +-++... .++..+
T Consensus 124 gaD~~v~VWdi~~~~~th~fkG~gGvVssl~-F~~~~~~~lL~sg~~D~~v~vwnl~~~~tcl~~~~~H~S~vtsL---- 198 (775)
T KOG0319|consen 124 GADGRVKVWDIKNGYCTHSFKGHGGVVSSLL-FHPHWNRWLLASGATDGTVRVWNLNDKRTCLHTMILHKSAVTSL---- 198 (775)
T ss_pred cccceEEEEEeeCCEEEEEecCCCceEEEEE-eCCccchhheeecCCCceEEEEEcccCchHHHHHHhhhhheeee----
Q ss_pred CCCCCCcEEEEEeCCceEEEeeCCCCcCCCCCCceeeecCCCCeEEEEEEecC-----CCeEEEEeCCceEEEEeccccc
Q psy14505 647 RDFPKNNYVFMSTSLGIVKKTLLSNFSNPRKSGIIAVNLSNEDFLIGAALTDG-----SYDIMLFSDSGKAVRFNENSVR 721 (1619)
Q Consensus 647 ~~~~~e~~~v~iT~~G~iKr~~~~~~~~~~r~G~~~~~lke~D~l~~~~~~~~-----~d~lll~T~~G~~~~~~~~eIp 721 (1619)
...++...++.++++-.+---.+.+++.-+ .+..-+.+-++..... ...++-....|.+-.+....-.
T Consensus 199 ~~~~d~~~~ls~~RDkvi~vwd~~~~~~l~-------~lp~ye~~E~vv~l~~~~~~~~~~~~TaG~~g~~~~~d~es~~ 271 (775)
T KOG0319|consen 199 AFSEDSLELLSVGRDKVIIVWDLVQYKKLK-------TLPLYESLESVVRLREELGGKGEYIITAGGSGVVQYWDSESGK 271 (775)
T ss_pred eeccCCceEEEeccCcEEEEeehhhhhhhh-------eechhhheeeEEEechhcCCcceEEEEecCCceEEEEecccch
Q ss_pred ccCCCCCCccceecCCCCEEEEEEEecCCCCcEEEEEecCceeEEecccccccccccccceeeeeccCCCeEEEEEEecC
Q psy14505 722 AMGRSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATENGYGKRTLIKEYTKHNRGTKGIISIKTNKRNGKVVAATLVNR 801 (1619)
Q Consensus 722 ~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~~G~~Kr~~l~e~~~~~R~~kG~~~ikl~~~~d~Lv~~~~~~~ 801 (1619)
..-+..+.- ++++.....+.. ...++++|..-...-....++...++ +-.-+|++..+....+
T Consensus 272 ~~~~~~~~~-------~~e~~~~~~~~~-~~~~l~vtaeQnl~l~d~~~l~i~k~---------ivG~ndEI~Dm~~lG~ 334 (775)
T KOG0319|consen 272 CVYKQRQSD-------SEEIDHLLAIES-MSQLLLVTAEQNLFLYDEDELTIVKQ---------IVGYNDEILDMKFLGP 334 (775)
T ss_pred hhhhhccCC-------chhhhcceeccc-cCceEEEEccceEEEEEccccEEehh---------hcCCchhheeeeecCC
Q ss_pred Cc-EEEEEECCCeEEEEecCc
Q psy14505 802 YH-EIMLITTGGILIRTRVSE 821 (1619)
Q Consensus 802 ~~-~i~l~T~~g~~lrf~~~e 821 (1619)
++ .++++|+.+.+-.+....
T Consensus 335 e~~~laVATNs~~lr~y~~~~ 355 (775)
T KOG0319|consen 335 EESHLAVATNSPELRLYTLPT 355 (775)
T ss_pred ccceEEEEeCCCceEEEecCC
No 485
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=23.67 E-value=3.4e+02 Score=29.68 Aligned_cols=119 Identities=23% Similarity=0.353 Sum_probs=59.2
Q ss_pred EEecCCcCCCCchhHHHHHHHhC--CEEechhh-----HHHHHHHHHHHcC--CCC-CcHHHHHHHHHcccceecCceEE
Q psy14505 862 ITIDGPTASGKGTVAQLVASKLG--FHYLDSGA-----LYRLVTLSAINNN--IQL-DNELELVILIKKLNYNFLGKEVY 931 (1619)
Q Consensus 862 Iti~g~~gsGK~~~~~~la~~l~--~~~~dtg~-----~yr~~~~~a~~~~--~~~-~~~~~~~~~~~~~~~~~~~~~~~ 931 (1619)
+.+.|++||||++.+..++...+ ..|++|.. |-+.+...-.+++ +.. +....+.+.+.+.. ..+-++
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~---~~~~VL 78 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELD---PGDVVL 78 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcC---CCCEEE
Confidence 34568999999999999997755 56776642 2222222222222 211 12223333332221 112345
Q ss_pred eCCcc--ccccccccccccccccccccHHHHHHHHHHHHhhhcCC-CeEEeccccCeeeecC
Q psy14505 932 LNGVN--VTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFP-GLVADGRDMGTTVFPD 990 (1619)
Q Consensus 932 ~~~~~--v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~-~~V~~GRd~~~~v~p~ 990 (1619)
+|.-. ++..+... .. .....+.+.+.++++.+...+ .+|++....|+=+.|.
T Consensus 79 IDclt~~~~n~l~~~---~~----~~~~~~~~~i~~l~~~l~~~~~~~viVsnEvG~g~vp~ 133 (169)
T cd00544 79 IDCLTLWVTNLLFAD---LE----EWEAAIADEIDALLAAVRNKPGTLILVSNEVGLGVVPE 133 (169)
T ss_pred EEcHhHHHHHhCCCc---cc----cchhHHHHHHHHHHHHHHcCCCcEEEEECCcCCCCCCC
Confidence 54421 11111000 00 000234555666777776544 6888888888777773
No 486
>COG5184 ATS1 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]
Probab=23.64 E-value=7.7e+02 Score=31.26 Aligned_cols=170 Identities=15% Similarity=0.160 Sum_probs=84.3
Q ss_pred CccccccCcceEEEEccCccEEeccCchhhhcccCCCC---------ccccccCCCCeEEEEEEeeCccEEEEEeeCceE
Q psy14505 534 STEDLIASQDMVITLSNLGYIKSQPISEYRAQKRGGRG---------KKAMMTKDEDWINQLFIANTHDYILCFSNYGRL 604 (1619)
Q Consensus 534 ~~~~li~~e~~~v~ls~~GyiKr~~~~~~~~~~r~g~g---------~~~~~~k~~D~~~~~~~~~t~d~llifT~~Gkv 604 (1619)
..-+|..-.++.++++++|.+-.- -+|+... ++-| .....++.++.- ....+...|+++++|+.|++
T Consensus 177 ~vv~l~cg~e~svil~~~G~V~~~--gt~r~~e-~~~g~~~~s~k~~~~~~p~~v~~~~-i~qla~G~dh~i~lt~~G~v 252 (476)
T COG5184 177 RVVKLACGWEISVILTADGRVYSW--GTFRCGE-LGQGSYKNSQKTSIQFTPLKVPKKA-IVQLAAGADHLIALTNEGKV 252 (476)
T ss_pred heEEeecCCceEEEEccCCcEEEe--cCccccc-cccccccccccceeeeeeeecCchh-eeeeccCCceEEEEecCCcE
Confidence 345678889999999999966542 1121111 1112 112333344222 22344566799999999999
Q ss_pred EEEEcccCCCCCccCCCccceecccCCC-CceEEEEEecCCCCCCC-CCCcEEEEEeCCceEEEeeCCCCcCCCCC--C-
Q psy14505 605 YWLKVWQIPQGSRNSRGKPIINMFSLKN-KEKITVILPLSNNKRDF-PKNNYVFMSTSLGIVKKTLLSNFSNPRKS--G- 679 (1619)
Q Consensus 605 ~~i~v~elp~~~~~~~G~~i~~ll~l~~-~e~i~~i~~~~~~~~~~-~~e~~~v~iT~~G~iKr~~~~~~~~~~r~--G- 679 (1619)
|..--.+ +...|.+.+.-+.+.. ..+.-++..+ ..+ -.....+.+.+.|-|=.--.+-|....-+ |
T Consensus 253 y~~Gs~q-----kgqlG~~~~e~~~~~~lv~~~f~i~~i----~~vacG~~h~~al~~~G~i~a~G~n~fgqlg~~~~~~ 323 (476)
T COG5184 253 YGWGSNQ-----KGQLGRPTSERLKLVVLVGDPFAIRNI----KYVACGKDHSLALDEDGEIYAWGVNIFGQLGAGSDGE 323 (476)
T ss_pred EEecCCc-----ccccCCchhhhcccccccCChhhhhhh----hhcccCcceEEEEcCCCeEEEeccchhcccccCcccc
Confidence 9543322 2345555554432111 1111111000 000 23456788888886633223222211110 0
Q ss_pred ceeeecCC-----CCeEEEEEEecCCCeEEEEeCCceEEEEe
Q psy14505 680 IIAVNLSN-----EDFLIGAALTDGSYDIMLFSDSGKAVRFN 716 (1619)
Q Consensus 680 ~~~~~lke-----~D~l~~~~~~~~~d~lll~T~~G~~~~~~ 716 (1619)
..+...++ .+-+.-...+.++.+.++++..|.+|.|-
T Consensus 324 ~~a~~tk~~~~~~~~~~~i~~is~ge~H~l~L~~~G~l~a~G 365 (476)
T COG5184 324 IGALTTKPNYKQLLSGVTICSISAGESHSLILRKDGTLYAFG 365 (476)
T ss_pred cceeeccccccccCCCceEEEEecCcceEEEEecCceEEEec
Confidence 11122222 22222244455677899999999888873
No 487
>KOG1920|consensus
Probab=23.59 E-value=2.1e+02 Score=39.82 Aligned_cols=68 Identities=15% Similarity=0.331 Sum_probs=54.8
Q ss_pred CeEEEEEEecCCCeEEEEeCCceEEEEecc--cccccCCCCCCccceecCCCCEEEEEEEecCCCCcEEEEEe
Q psy14505 689 DFLIGAALTDGSYDIMLFSDSGKAVRFNEN--SVRAMGRSARGVIGMRLEKKQKVIALLVSNNQKQSVLTATE 759 (1619)
Q Consensus 689 D~l~~~~~~~~~d~lll~T~~G~~~~~~~~--eIp~~~r~a~Gv~~i~L~~~e~Iv~~~~~~~~~~~ll~~T~ 759 (1619)
|+++++..-.....++++|..|.++..+.. ++..+|.-+.|+..+.-.++|++++++.-. +.+++.|+
T Consensus 69 ~~i~s~~fl~d~~~i~v~~~~G~iilvd~et~~~eivg~vd~GI~aaswS~Dee~l~liT~~---~tll~mT~ 138 (1265)
T KOG1920|consen 69 DEIVSVQFLADTNSICVITALGDIILVDPETLELEIVGNVDNGISAASWSPDEELLALITGR---QTLLFMTK 138 (1265)
T ss_pred cceEEEEEecccceEEEEecCCcEEEEcccccceeeeeeccCceEEEeecCCCcEEEEEeCC---cEEEEEec
Confidence 588888777777889999999999999875 456678889999999999999988876543 35777775
No 488
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=23.49 E-value=1.4e+02 Score=35.10 Aligned_cols=86 Identities=16% Similarity=0.188 Sum_probs=55.1
Q ss_pred CeEEeccccCeeeecCCC-eEEEEEcCHHHHHHhchHHHHh---cCCCCCHHHHHHHHHhhhhhcccCCCCCCCCCCCce
Q psy14505 975 GLVADGRDMGTTVFPDAF-LKIFLTADIKQRTKRRYKQLMQ---KGFSVSMSDLLINLIKRDIRDKTRNLSPLKCPEQAH 1050 (1619)
Q Consensus 975 ~~V~~GRd~~~~v~p~a~-~kifl~A~~e~Ra~Rr~~~l~~---~~~~~~~~~~~~~i~~rD~~d~~r~~~~l~~~~dal 1050 (1619)
++|-+-. .-..+++-.+ .-|=|+.||+.-.+=|-.+|.. ..| .+.+.+.+++..=.+.=+ .. +.-
T Consensus 174 PLvpe~~-lP~~L~~~~~~kivGLtIdp~rL~~IR~~Rl~~lg~s~Y-a~~~~i~~El~~A~~l~~--k~-------~~p 242 (269)
T PRK05339 174 PLVPEVP-LPEELFPIDPKKIFGLTIDPERLIEIRKERLPNLGLSRY-ASLEQCREELAEAERLFR--RE-------GIP 242 (269)
T ss_pred CCCCCCC-CCHHHHhCCCCcEEEEeCCHHHHHHHHHHHhcccCcCcC-CCHHHHHHHHHHHHHHHH--Hc-------CCC
Confidence 4554433 4444555444 4567999998776666666554 223 577888887765222211 11 225
Q ss_pred EEccCcccchhhhhhhhhhhh
Q psy14505 1051 LLNTSKMNINQVVNQILDCFA 1071 (1619)
Q Consensus 1051 ~Idts~l~ieevv~~I~~~i~ 1071 (1619)
+||+|+.++||++..|++.+.
T Consensus 243 vIdvT~kSIEEtA~~Il~~~~ 263 (269)
T PRK05339 243 VIDVTNKSIEETAAKILEILG 263 (269)
T ss_pred EEECCCCcHHHHHHHHHHHHH
Confidence 799999999999999998765
No 489
>PHA03011 hypothetical protein; Provisional
Probab=23.22 E-value=2.4e+02 Score=27.55 Aligned_cols=66 Identities=15% Similarity=0.396 Sum_probs=51.2
Q ss_pred cccCHHHHHHhhccchhhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCC
Q psy14505 449 YKLSDIQAQEILKMPLQRLTNMEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGS 516 (1619)
Q Consensus 449 ~~~~~~Qa~aIL~m~L~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~ 516 (1619)
|+|.+-+.+||.+. |-.| .+.-..|.+|+.-+..+++.|+.++.+...-...++.|++.+|+..+.
T Consensus 52 ~dfk~GD~Nai~e~-ldeL-~~qYN~L~dEYn~i~Ne~k~~~~iIQdn~d~I~~LraeIDkLK~niaN 117 (120)
T PHA03011 52 FDFKEGDINAIIEI-LDEL-IAQYNELLDEYNLIENEIKDLEIIIQDNDDEIHFLRAEIDKLKENIAN 117 (120)
T ss_pred hhcccccHHHHHHH-HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHhc
Confidence 66666667777653 2222 246788999999999999999999988777778899999999987654
No 490
>COG2106 Uncharacterized conserved protein [Function unknown]
Probab=23.11 E-value=3.9e+02 Score=31.37 Aligned_cols=66 Identities=18% Similarity=0.068 Sum_probs=50.4
Q ss_pred EEeeeccccCCccccccccccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEe
Q psy14505 1321 SLGMKQLGIDPWIGLSFRYPRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEI 1400 (1619)
Q Consensus 1321 ~LSlK~~~~~~~~~~~~~l~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~i 1400 (1619)
+.|+-+.+.-|..........|.+-+|.|.+....|.+|.++.+.-+.++ +.+++|..|.++|.+.
T Consensus 85 yAg~lPPL~ip~h~~~~~~~~Ge~ReG~v~~~~~~~~~v~iG~~~~~~l~--------------~~~~~~~RvTvri~~~ 150 (272)
T COG2106 85 YAGLLPPLRIPSHTVSTSPKEGEYREGLVIRRGKKGNLVDIGKDKLAKLS--------------SPAPPGARVTVRIISR 150 (272)
T ss_pred cccccCCCCCCCccCcCCccceeecceEEEEecCCceEEEecCCcceecc--------------CCCCCCceEEEEEEec
Confidence 36666666666666666788999999999999999999999754444432 2267999999999876
No 491
>KOG1920|consensus
Probab=22.93 E-value=2e+02 Score=39.97 Aligned_cols=61 Identities=15% Similarity=0.244 Sum_probs=51.5
Q ss_pred cCCCeEEEEEEecCCcEEEEEECCCeEEEEecCc--ccccCCCCCCeEEEEcCCCceEEEEEE
Q psy14505 788 KRNGKVVAATLVNRYHEIMLITTGGILIRTRVSE--IRKMGRSTQGVILITVENKSKLCGVQR 848 (1619)
Q Consensus 788 ~~~d~Lv~~~~~~~~~~i~l~T~~g~~lrf~~~e--I~~~gr~a~Gv~~i~L~~~d~v~~~~~ 848 (1619)
+++|+++++....+...++++|+.|.++..+.++ +..+|....||.+|.-.+++++.++..
T Consensus 66 ~gd~~i~s~~fl~d~~~i~v~~~~G~iilvd~et~~~eivg~vd~GI~aaswS~Dee~l~liT 128 (1265)
T KOG1920|consen 66 DGDDEIVSVQFLADTNSICVITALGDIILVDPETLELEIVGNVDNGISAASWSPDEELLALIT 128 (1265)
T ss_pred CCCcceEEEEEecccceEEEEecCCcEEEEcccccceeeeeeccCceEEEeecCCCcEEEEEe
Confidence 3457999999888899999999999999998765 566899999999999988888876643
No 492
>PF00780 CNH: CNH domain; InterPro: IPR001180 Based on sequence similarities a domain of homology has been identified in the following proteins []: Citron and Citron kinase. These two proteins interact with the GTP-bound forms of the small GTPases Rho and Rac but not with Cdc42. Myotonic dystrophy kinase-related Cdc42-binding kinase (MRCKalpha). This serine/threonine kinase interacts with the GTP-bound form of the small GTPase Cdc42 and to a lesser extent with that of Rac. NCK Interacting Kinase (NIK), a serine/threonine protein kinase. ROM-1 and ROM-2, from yeast. These proteins are GDP/GTP exchange proteins (GEPs) for the small GTP binding protein Rho1. This domain, called the citron homology domain, is often found after cysteine rich and pleckstrin homology (PH) domains at the C-terminal end of the proteins []. It acts as a regulatory domain and could be involved in macromolecular interactions [, ].; GO: 0005083 small GTPase regulator activity
Probab=22.15 E-value=1.2e+03 Score=26.76 Aligned_cols=68 Identities=21% Similarity=0.237 Sum_probs=44.0
Q ss_pred EeeCccEEEEEeeCceEEEEEcccCCCCCccCCCccceecccCCCCceEEEEEecCCCCCCCCCCcEEEEEeCCceEEEe
Q psy14505 588 IANTHDYILCFSNYGRLYWLKVWQIPQGSRNSRGKPIINMFSLKNKEKITVILPLSNNKRDFPKNNYVFMSTSLGIVKKT 667 (1619)
Q Consensus 588 ~~~t~d~llifT~~Gkv~~i~v~elp~~~~~~~G~~i~~ll~l~~~e~i~~i~~~~~~~~~~~~e~~~v~iT~~G~iKr~ 667 (1619)
.+...++|++=|+.| +|.... +.+....+.....+ |..+..+ ++.+.+++++. |++.-.
T Consensus 3 ~~~~~~~L~vGt~~G-l~~~~~---------~~~~~~~~i~~~~~---I~ql~vl-------~~~~~llvLsd-~~l~~~ 61 (275)
T PF00780_consen 3 ADSWGDRLLVGTEDG-LYVYDL---------SDPSKPTRILKLSS---ITQLSVL-------PELNLLLVLSD-GQLYVY 61 (275)
T ss_pred cccCCCEEEEEECCC-EEEEEe---------cCCccceeEeecce---EEEEEEe-------cccCEEEEEcC-CccEEE
Confidence 456788999999999 666655 11122233332222 6666665 55667777765 999999
Q ss_pred eCCCCcCCC
Q psy14505 668 LLSNFSNPR 676 (1619)
Q Consensus 668 ~~~~~~~~~ 676 (1619)
++..+....
T Consensus 62 ~L~~l~~~~ 70 (275)
T PF00780_consen 62 DLDSLEPVS 70 (275)
T ss_pred Echhhcccc
Confidence 998876554
No 493
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=22.04 E-value=4.1e+02 Score=33.17 Aligned_cols=136 Identities=18% Similarity=0.256 Sum_probs=77.8
Q ss_pred EEEecCCcCCCCchhHHHHHHHhC----CEEechhhHHHHHHHHHHHcCCC--------CCcHHHHHHHHHcccceecCc
Q psy14505 861 VITIDGPTASGKGTVAQLVASKLG----FHYLDSGALYRLVTLSAINNNIQ--------LDNELELVILIKKLNYNFLGK 928 (1619)
Q Consensus 861 iIti~g~~gsGK~~~~~~la~~l~----~~~~dtg~~yr~~~~~a~~~~~~--------~~~~~~~~~~~~~~~~~~~~~ 928 (1619)
.+-|.|.+|-||+|..-+++.++. +-|+...-=--.+.+.|.+.|+. ..+.+.+.+.+.+....+.
T Consensus 95 ~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lv-- 172 (456)
T COG1066 95 VILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLV-- 172 (456)
T ss_pred EEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEE--
Confidence 678889999999998877776665 77888766666677888888853 3455666666665444432
Q ss_pred eEEeCCccccccccccccccccccccccHHHHHHHHHHHHhhhcCC--CeEEeccc------cCeeeecC-CCeEEEEEc
Q psy14505 929 EVYLNGVNVTTLIRNEKVSNNASKIAKFKNIRKELFKIQVKFRKFP--GLVADGRD------MGTTVFPD-AFLKIFLTA 999 (1619)
Q Consensus 929 ~~~~~~~~v~~~ir~~~~~~~~s~~a~~~~vr~~~~~~~r~~a~~~--~~V~~GRd------~~~~v~p~-a~~kifl~A 999 (1619)
-+|. |-+-+.....|.--+.-.||+--.++ .++|+.. .++++||- +|--|+.+ -|..+|...
T Consensus 173 --VIDS------IQT~~s~~~~SapGsVsQVRe~t~~L-~~~AK~~~i~~fiVGHVTKeG~IAGPrvLEHmVDtVlyFEG 243 (456)
T COG1066 173 --VIDS------IQTLYSEEITSAPGSVSQVREVAAEL-MRLAKTKNIAIFIVGHVTKEGAIAGPRVLEHMVDTVLYFEG 243 (456)
T ss_pred --EEec------cceeecccccCCCCcHHHHHHHHHHH-HHHHHHcCCeEEEEEEEcccccccCchheeeeeeEEEEEec
Confidence 1111 11221211112112344566654443 4467654 57778862 22222222 356677776
Q ss_pred C--HHHHHHh
Q psy14505 1000 D--IKQRTKR 1007 (1619)
Q Consensus 1000 ~--~e~Ra~R 1007 (1619)
+ ...|.-|
T Consensus 244 d~~~~~RiLR 253 (456)
T COG1066 244 DRHSRYRILR 253 (456)
T ss_pred cCCCceeeee
Confidence 5 5555555
No 494
>PF07238 PilZ: PilZ domain; InterPro: IPR009875 The ubiquitous bacterial second messenger cyclic-di-GMP (c-di-GMP) is associated with the regulation of biofilm formation, the control of exopolysaccharide synthesis, flagellar- and pili-based motility, gene expression, interactions of bacteria with eukaryotic hosts and multicellular behaviour in diverse bacteria. With the exception of bacterial cellulose synthases, the identities of c-di-GMP receptors and end targets of the proteins having one or more PilZ domains are mostly uncharacterised. However it was suggested that the PilZ domains present in the BcsA subunits of bacterial cellulose synthases function in c-di-GMP binding []. More recently YcgR (see IPR023787 from INTERPRO) was found to bind c-di-GMP tightly and specifically; also isolated PilZ domains from YcgR and BcsA bound c-di-GMP indicating that the PilZ domain was sufficient for binding of c-di-GMP and significantly that site-directed mutagenesis performed on YcgR implicated the most conserved residues in the PilZ domain directly in c-di-GMP binding []. It was suggested that c-di-GMP binding to PilZ brings about conformational changes in the protein that stabilise the bound ligand and probability initiates the downstream signal transduction cascade. In the case of YcgR, c-di-GMP binding regulates flagellum-based motility in a c-di-GMP-dependent manner (see IPR023787 from INTERPRO) []. The association of the PilZ domain with a variety of other domains, including likely components of bacterial multidrug secretion system, could provide clues to multiple functions of the c-di-GMP in bacterial pathogenesis and cell development. Binding and mutagenesis studies of several PilZ domain proteins have confirmed this observation and demonstrated that c-di-GMP binding depends on residues in RxxxR and D/NxSxxG sequence motifs. The crystal structure, at 1.7 A, of a PilZ domain::c-di-GMP complex from Vibrio cholerae shows c-di-GMP contacting seven of nine strongly conserved residues. Binding of c-di-GMP causes a conformational switch whereby the C- and N-terminal domains are brought into close opposition forming a new allosteric interaction surface that spans these domains and the c-di-GMP at their interface []. ; GO: 0035438 cyclic-di-GMP binding; PDB: 2RDE_B 1YLN_A 3KYG_A 3DSG_B 2GJG_A 3KYF_A 1YWU_A 2L74_A 2L1T_A 3CNR_A ....
Probab=21.80 E-value=5.2e+02 Score=24.42 Aligned_cols=76 Identities=16% Similarity=0.136 Sum_probs=48.9
Q ss_pred CCCCeEEEEEEEEecCceEEEEecCCeEEEEEccccccccccCcCCCCE-EEEEEEEEeCCCCEEEEeecchHHHHH-HH
Q psy14505 1514 DKGSLVNGIIKSIDTNKGAIIQLSNEVEGYLRISEEDNKHEKKLKIGEN-IDVLTVLIDHKTRYIQLSFKKKEVIKK-KK 1591 (1619)
Q Consensus 1514 ~~G~~v~g~V~~i~~~~G~~V~l~~gv~G~i~~~~~~~~~~~~~~~Gq~-V~~~Vl~vd~~~k~i~lSlk~~~~~~~-~~ 1591 (1619)
..|..+.|++.++ +..|+.+..+. -++..+.-.-.......+.. +.|+|+.+.+......++++-...... ++
T Consensus 20 ~~~~~~~~~~~di-S~~G~~~~~~~----~~~~~~~v~l~~~~~~~~~~~~~~~V~~~~~~~~~~~~g~~f~~~~~~~~~ 94 (102)
T PF07238_consen 20 PGGSSFQGTIVDI-SEGGCAFRSPK----PLEPGDRVRLSFSLPGGGFPIVTGRVVRIQKDSDGYRVGVEFVDLDEQQRQ 94 (102)
T ss_dssp ETTEEEEEEEEEE-TTSEEEEEECT----G--TTSEEEEEEECTTTSCEEEEEEEEEEEEESSEEEEEEEECHHHHHHHH
T ss_pred cCCcEEEEEEEEE-CccceEEEECC----CCCCCCEEEEEEEeCCCCeeEEEEEEEEEECCCCceEEEEEEeeCCHHHHH
Confidence 4578889999999 59999999965 11111100000011112223 999999999999999999988666666 33
Q ss_pred HHH
Q psy14505 1592 LLT 1594 (1619)
Q Consensus 1592 ~~~ 1594 (1619)
.|.
T Consensus 95 ~l~ 97 (102)
T PF07238_consen 95 LLA 97 (102)
T ss_dssp HHH
T ss_pred HHH
Confidence 443
No 495
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=21.68 E-value=9e+02 Score=24.98 Aligned_cols=47 Identities=15% Similarity=0.302 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCC
Q psy14505 470 MEQKKIINKYENVIKKVIDLTDILSNSKRIIEIITDELNIIKNKYGS 516 (1619)
Q Consensus 470 ~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~~~i~~el~~ik~~f~~ 516 (1619)
-+..+|..++++|+.+...+..+|+-+...-+-+..++.++|+-|..
T Consensus 68 ~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~myr~ 114 (120)
T PF12325_consen 68 KEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMYRE 114 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHH
Confidence 46778899999999999999999999999999999999999988864
No 496
>PTZ00464 SNF-7-like protein; Provisional
Probab=21.54 E-value=7.8e+02 Score=28.05 Aligned_cols=50 Identities=8% Similarity=0.195 Sum_probs=36.0
Q ss_pred hhcchHHHHHHHHHHHHHHHHHHHHHHHhcCHH-----HHHHHHHHHHHHHHHHh
Q psy14505 465 QRLTNMEQKKIINKYENVIKKVIDLTDILSNSK-----RIIEIITDELNIIKNKY 514 (1619)
Q Consensus 465 ~~Lt~~e~~~l~~e~~~l~~~i~~l~~iL~~~~-----~~~~~i~~el~~ik~~f 514 (1619)
..++--.++++.+++.+..+.-.++.++|+++- .=..-+-+||+++..+.
T Consensus 119 k~i~id~Vd~l~Dei~E~~e~~~EI~e~Ls~~~~~~~~~DEdELe~ELe~Le~e~ 173 (211)
T PTZ00464 119 KKLNVDKVEDLQDELADLYEDTQEIQEIMGRAYDVPDDIDEDEMLGELDALDFDM 173 (211)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHHH
Confidence 335567888999999999999999999998632 11245567777777543
No 497
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=21.49 E-value=1.4e+02 Score=36.95 Aligned_cols=44 Identities=16% Similarity=0.249 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCHHHHH-HHHHHHHHHHHHH
Q psy14505 470 MEQKKIINKYENVIKKVIDLTDILSNSKRII-EIITDELNIIKNK 513 (1619)
Q Consensus 470 ~e~~~l~~e~~~l~~~i~~l~~iL~~~~~~~-~~i~~el~~ik~~ 513 (1619)
-..+.+.++++...++++.+++-|+.++..| ++|-.||+.+.++
T Consensus 250 ~qLe~v~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEE 294 (426)
T smart00806 250 KQLETVQKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEE 294 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHH
Confidence 3456678899999999999999999999999 8999999999875
No 498
>PRK15463 cold shock-like protein CspF; Provisional
Probab=21.33 E-value=2.4e+02 Score=26.13 Aligned_cols=50 Identities=18% Similarity=0.240 Sum_probs=35.9
Q ss_pred EEEEEEEEcC-CeE-EEEEcC-CEEEEEeccccCccccCCCccccccCCCEEEEEEEE
Q psy14505 1345 LLGKVTNLTD-YGA-FVEIEK-GIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILE 1399 (1619)
Q Consensus 1345 v~g~V~~v~~-~G~-fV~l~~-gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~ 1399 (1619)
+.|+|+...+ .|. |++-.+ +-+-|+|++.+... -...+.+||.|.+.+..
T Consensus 5 ~~G~Vk~fn~~kGfGFI~~~~g~~DvFvH~sal~~~-----g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15463 5 MTGIVKTFDGKSGKGLITPSDGRKDVQVHISALNLR-----DAEELTTGLRVEFCRIN 57 (70)
T ss_pred ceEEEEEEeCCCceEEEecCCCCccEEEEehhhhhc-----CCCCCCCCCEEEEEEEE
Confidence 3799998865 454 666544 67999999999531 12356799999998654
No 499
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=21.10 E-value=2e+02 Score=26.53 Aligned_cols=44 Identities=9% Similarity=0.307 Sum_probs=33.3
Q ss_pred cEEEEEECCCeEEEEecCcccc-cCC-CCCCeEEEEcCCCceEEEE
Q psy14505 803 HEIMLITTGGILIRTRVSEIRK-MGR-STQGVILITVENKSKLCGV 846 (1619)
Q Consensus 803 ~~i~l~T~~g~~lrf~~~eI~~-~gr-~a~Gv~~i~L~~~d~v~~~ 846 (1619)
..|.+.|.+|+-+.||++-+++ ..+ +-+|..-|.++++.+.+++
T Consensus 21 ~~V~v~s~~Gr~v~~Pa~~lRpFvt~~Gv~G~F~l~~d~~~kf~sl 66 (68)
T PF11197_consen 21 SKVVVRSDDGRRVQFPARHLRPFVTHDGVHGRFRLEFDDNNKFVSL 66 (68)
T ss_pred cEEEEEecCCcEEEEeHHHCcceecCCCceEEEEEEECCCCCEEEe
Confidence 5688999999999999999887 333 3366666777777666654
No 500
>KOG4078|consensus
Probab=21.09 E-value=1.5e+02 Score=30.73 Aligned_cols=54 Identities=9% Similarity=0.350 Sum_probs=45.6
Q ss_pred ccceeEEEEEEEEcCCeEEEEEcCCEEEEEeccccCccccCCCccccccCCCEEEEEEEEee
Q psy14505 1340 PRGTRLLGKVTNLTDYGAFVEIEKGIEGLVHISEMDWINKNVTPSKIVQLNDTVEIMILEIN 1401 (1619)
Q Consensus 1340 ~~G~iv~g~V~~v~~~G~fV~l~~gv~GlV~~sels~~~~~~~~~~~~~vG~~V~vrVl~id 1401 (1619)
..|..|.|+|-.+...-+|++++....+.+..-.+. .+.|.-|..|.-|++...
T Consensus 81 a~gklV~GkIfhiV~~DlYIDFG~KFhcVC~rP~~n--------~e~Y~~GaRVrlRl~DlE 134 (173)
T KOG4078|consen 81 AKGKLVIGKIFHIVEEDLYIDFGGKFHCVCKRPALN--------GEAYQKGARVRLRLIDLE 134 (173)
T ss_pred cCCcEEEeeeeeeeccceEEecCCeEEEEEcCcCcC--------HHHhhcCceEEEEEcChh
Confidence 468999999999999999999998899998766663 456889999999987655
Done!