Query psy12199
Match_columns 597
No_of_seqs 641 out of 3608
Neff 10.4
Searched_HMMs 46136
Date Fri Aug 16 21:21:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12199.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12199hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1074|consensus 100.0 2.1E-30 4.5E-35 259.9 7.0 114 218-385 606-730 (958)
2 KOG2462|consensus 100.0 1.8E-30 3.9E-35 230.1 2.4 130 467-597 129-263 (279)
3 KOG1074|consensus 100.0 1.5E-29 3.3E-34 253.8 3.7 209 329-575 603-933 (958)
4 KOG2462|consensus 99.9 1.1E-27 2.3E-32 212.5 5.9 138 121-267 128-265 (279)
5 KOG3608|consensus 99.9 1.8E-25 4E-30 202.6 10.0 204 331-588 177-397 (467)
6 KOG3623|consensus 99.9 5.3E-26 1.1E-30 224.2 4.5 108 157-267 210-331 (1007)
7 KOG3608|consensus 99.9 3.3E-25 7.1E-30 201.0 9.0 233 188-559 134-397 (467)
8 KOG3623|consensus 99.9 5.6E-25 1.2E-29 217.1 1.1 77 520-597 894-970 (1007)
9 KOG3576|consensus 99.7 4.3E-19 9.4E-24 148.8 -2.1 109 467-575 116-239 (267)
10 KOG3576|consensus 99.7 2.8E-17 6.1E-22 138.1 3.4 109 157-269 117-236 (267)
11 PLN03086 PRLI-interacting fact 99.3 7.2E-12 1.6E-16 126.9 7.6 136 419-591 407-555 (567)
12 PLN03086 PRLI-interacting fact 99.2 4.9E-11 1.1E-15 121.0 7.3 145 124-305 408-564 (567)
13 PHA00733 hypothetical protein 99.0 2.1E-10 4.6E-15 94.5 3.8 82 184-269 36-123 (128)
14 PHA00733 hypothetical protein 99.0 2.5E-10 5.4E-15 94.1 3.9 52 520-573 73-124 (128)
15 PHA02768 hypothetical protein; 98.9 4.6E-10 9.9E-15 74.9 2.6 43 549-594 6-48 (55)
16 PHA02768 hypothetical protein; 98.9 7.3E-10 1.6E-14 73.9 2.0 44 520-565 5-48 (55)
17 KOG3993|consensus 98.8 3.7E-09 8.1E-14 99.9 3.7 81 188-269 267-380 (500)
18 PF13465 zf-H2C2_2: Zinc-finge 98.7 1E-08 2.2E-13 58.4 2.4 26 535-560 1-26 (26)
19 KOG3993|consensus 98.6 4.6E-09 1E-13 99.3 -0.0 113 330-448 266-385 (500)
20 PF13465 zf-H2C2_2: Zinc-finge 98.5 3.5E-08 7.6E-13 56.2 1.5 24 205-228 2-25 (26)
21 PHA00732 hypothetical protein 98.4 1.7E-07 3.7E-12 69.5 2.5 21 496-516 2-22 (79)
22 PHA00616 hypothetical protein 98.4 1.5E-07 3.2E-12 59.7 1.7 34 520-553 1-34 (44)
23 PHA00616 hypothetical protein 98.3 2.2E-07 4.8E-12 58.9 0.4 34 548-582 1-34 (44)
24 PHA00732 hypothetical protein 98.2 4.8E-07 1E-11 67.2 2.1 45 520-570 1-46 (79)
25 KOG1146|consensus 98.0 1.2E-05 2.6E-10 87.8 6.5 105 160-267 439-611 (1406)
26 PF05605 zf-Di19: Drought indu 97.9 1.8E-05 3.9E-10 54.6 4.1 52 419-492 2-53 (54)
27 KOG1146|consensus 97.8 2E-05 4.4E-10 86.1 5.8 77 496-574 1261-1354(1406)
28 PF05605 zf-Di19: Drought indu 97.8 2.2E-05 4.7E-10 54.1 3.5 49 521-572 3-53 (54)
29 PF00096 zf-C2H2: Zinc finger, 97.7 1.9E-05 4.1E-10 43.7 1.9 22 469-490 1-22 (23)
30 PF00096 zf-C2H2: Zinc finger, 97.7 1.4E-05 3E-10 44.2 1.3 22 496-517 1-22 (23)
31 PF12756 zf-C2H2_2: C2H2 type 97.7 2.6E-05 5.6E-10 62.4 2.3 74 497-572 1-74 (100)
32 PF12756 zf-C2H2_2: C2H2 type 97.5 5.6E-05 1.2E-09 60.5 2.1 26 421-446 1-26 (100)
33 PF13894 zf-C2H2_4: C2H2-type 97.4 7E-05 1.5E-09 41.8 1.4 22 549-570 1-22 (24)
34 COG5189 SFP1 Putative transcri 97.4 9.1E-05 2E-09 68.0 2.7 67 417-488 347-418 (423)
35 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00012 2.7E-09 42.2 1.9 25 548-572 1-25 (27)
36 PF13894 zf-C2H2_4: C2H2-type 97.3 0.00012 2.6E-09 40.8 1.8 18 498-515 3-20 (24)
37 PF13912 zf-C2H2_6: C2H2-type 97.3 0.00017 3.6E-09 41.6 1.9 25 468-492 1-25 (27)
38 COG5189 SFP1 Putative transcri 96.9 0.00022 4.7E-09 65.6 -0.0 25 545-569 395-419 (423)
39 KOG2231|consensus 96.9 0.0015 3.3E-08 68.1 5.6 131 421-581 117-275 (669)
40 KOG2231|consensus 96.9 0.0027 5.8E-08 66.3 7.3 24 365-388 183-206 (669)
41 smart00355 ZnF_C2H2 zinc finge 96.5 0.0017 3.6E-08 36.8 1.9 20 522-541 2-21 (26)
42 PF13909 zf-H2C2_5: C2H2-type 96.5 0.0023 4.9E-08 35.6 2.1 21 522-543 2-22 (24)
43 PF13909 zf-H2C2_5: C2H2-type 96.4 0.0012 2.6E-08 36.7 0.8 24 549-573 1-24 (24)
44 smart00355 ZnF_C2H2 zinc finge 96.3 0.0043 9.3E-08 35.1 2.7 22 497-518 2-23 (26)
45 PF09237 GAGA: GAGA factor; I 96.1 0.0029 6.3E-08 41.2 1.4 25 216-240 23-47 (54)
46 PF12874 zf-met: Zinc-finger o 96.0 0.0042 9.1E-08 34.9 1.6 22 469-490 1-22 (25)
47 PRK04860 hypothetical protein; 96.0 0.0042 9E-08 53.4 2.2 37 520-560 119-155 (160)
48 PRK04860 hypothetical protein; 96.0 0.003 6.5E-08 54.3 1.3 40 547-591 118-157 (160)
49 PF09237 GAGA: GAGA factor; I 95.9 0.0031 6.6E-08 41.1 0.8 24 547-570 23-46 (54)
50 PF12874 zf-met: Zinc-finger o 95.9 0.0042 9E-08 34.9 1.2 22 496-517 1-22 (25)
51 KOG2785|consensus 95.8 0.016 3.5E-07 55.6 5.5 155 415-572 64-244 (390)
52 COG5236 Uncharacterized conser 95.7 0.028 6.1E-07 52.7 6.3 24 366-389 222-245 (493)
53 KOG2482|consensus 95.3 0.027 5.8E-07 52.9 5.0 26 420-445 280-305 (423)
54 KOG2482|consensus 95.3 0.028 6E-07 52.8 5.0 92 345-449 129-226 (423)
55 PF12171 zf-C2H2_jaz: Zinc-fin 95.3 0.0085 1.8E-07 34.4 1.1 22 218-239 2-23 (27)
56 KOG2785|consensus 95.2 0.038 8.2E-07 53.1 5.8 73 418-490 165-242 (390)
57 PF12171 zf-C2H2_jaz: Zinc-fin 95.0 0.015 3.3E-07 33.3 1.6 22 549-570 2-23 (27)
58 COG5236 Uncharacterized conser 94.8 0.045 9.8E-07 51.4 4.9 140 188-365 151-315 (493)
59 PF13913 zf-C2HC_2: zinc-finge 92.6 0.085 1.8E-06 29.5 1.6 21 469-490 3-23 (25)
60 KOG2893|consensus 92.5 0.049 1.1E-06 48.3 0.8 46 190-240 12-58 (341)
61 PF13913 zf-C2HC_2: zinc-finge 92.1 0.11 2.5E-06 29.0 1.7 21 496-517 3-23 (25)
62 COG5048 FOG: Zn-finger [Genera 92.0 0.064 1.4E-06 56.0 1.2 62 188-250 289-356 (467)
63 KOG4173|consensus 92.0 0.079 1.7E-06 46.0 1.4 49 467-517 78-128 (253)
64 COG5048 FOG: Zn-finger [Genera 91.4 0.081 1.8E-06 55.2 1.1 138 122-269 288-442 (467)
65 smart00451 ZnF_U1 U1-like zinc 90.6 0.18 4E-06 30.8 1.8 23 468-490 3-25 (35)
66 smart00451 ZnF_U1 U1-like zinc 90.6 0.18 3.9E-06 30.8 1.7 23 548-570 3-25 (35)
67 cd00350 rubredoxin_like Rubred 89.8 0.18 3.9E-06 30.4 1.2 9 244-252 16-24 (33)
68 cd00350 rubredoxin_like Rubred 89.7 0.22 4.8E-06 30.0 1.5 10 576-585 16-25 (33)
69 COG4049 Uncharacterized protei 89.2 0.14 3E-06 34.0 0.4 30 544-573 13-42 (65)
70 PF12013 DUF3505: Protein of u 88.8 2 4.4E-05 34.6 7.1 27 418-444 79-109 (109)
71 PF12013 DUF3505: Protein of u 87.4 1.2 2.7E-05 35.8 5.0 27 329-355 78-108 (109)
72 KOG4173|consensus 86.8 0.3 6.6E-06 42.5 1.1 78 418-519 78-170 (253)
73 KOG2893|consensus 86.4 0.3 6.4E-06 43.5 0.9 51 363-444 9-59 (341)
74 TIGR00622 ssl1 transcription f 85.3 1.1 2.5E-05 35.5 3.5 49 219-269 57-105 (112)
75 TIGR00622 ssl1 transcription f 83.9 3.5 7.6E-05 32.8 5.7 94 366-502 17-110 (112)
76 cd00729 rubredoxin_SM Rubredox 80.1 1.2 2.7E-05 27.0 1.5 10 576-585 17-26 (34)
77 PF09986 DUF2225: Uncharacteri 79.6 0.66 1.4E-05 42.5 0.4 43 216-258 4-61 (214)
78 PHA00626 hypothetical protein 79.5 0.72 1.6E-05 30.9 0.4 12 548-559 23-34 (59)
79 COG4049 Uncharacterized protei 79.0 1.5 3.3E-05 29.3 1.8 29 239-267 11-39 (65)
80 PRK09678 DNA-binding transcrip 78.8 1.2 2.7E-05 32.3 1.4 43 549-594 2-46 (72)
81 KOG2186|consensus 78.2 1.3 2.9E-05 40.2 1.8 47 468-516 3-49 (276)
82 PF10571 UPF0547: Uncharacteri 77.6 1.3 2.8E-05 25.0 1.0 8 498-505 17-24 (26)
83 smart00659 RPOLCX RNA polymera 75.8 2.6 5.6E-05 27.3 2.2 28 549-588 3-30 (44)
84 PF09986 DUF2225: Uncharacteri 73.3 1.4 3.1E-05 40.3 0.8 58 418-481 4-61 (214)
85 PF09538 FYDLN_acid: Protein o 73.0 2.3 4.9E-05 34.0 1.7 13 576-588 25-37 (108)
86 COG2888 Predicted Zn-ribbon RN 72.5 3.2 7E-05 28.4 2.0 34 418-477 26-59 (61)
87 COG2888 Predicted Zn-ribbon RN 72.4 3.1 6.8E-05 28.5 2.0 9 577-585 50-58 (61)
88 TIGR02098 MJ0042_CXXC MJ0042 f 72.3 3.3 7.1E-05 25.8 2.0 34 549-588 3-36 (38)
89 PF02892 zf-BED: BED zinc fing 71.6 2.7 5.8E-05 27.4 1.6 28 545-572 13-44 (45)
90 PF13717 zinc_ribbon_4: zinc-r 71.4 1.5 3.2E-05 27.1 0.3 11 158-168 3-13 (36)
91 TIGR00373 conserved hypothetic 70.7 3.9 8.4E-05 35.4 2.8 29 495-529 109-137 (158)
92 smart00834 CxxC_CXXC_SSSS Puta 70.5 1.5 3.2E-05 27.9 0.1 31 468-504 5-35 (41)
93 COG1592 Rubrerythrin [Energy p 69.5 2.3 4.9E-05 36.7 1.1 11 545-555 146-156 (166)
94 PRK00398 rpoP DNA-directed RNA 68.7 1.8 3.9E-05 28.4 0.2 11 158-168 4-14 (46)
95 PF09723 Zn-ribbon_8: Zinc rib 68.6 3.1 6.7E-05 26.7 1.3 29 332-372 6-34 (42)
96 COG1198 PriA Primosomal protei 68.4 1.9 4E-05 47.0 0.4 49 469-557 436-484 (730)
97 PF09538 FYDLN_acid: Protein o 67.1 4.3 9.4E-05 32.4 2.1 14 419-432 26-39 (108)
98 TIGR00373 conserved hypothetic 67.1 5.9 0.00013 34.3 3.2 33 545-587 106-138 (158)
99 PRK06266 transcription initiat 66.7 3 6.5E-05 36.9 1.3 17 495-511 117-133 (178)
100 COG1592 Rubrerythrin [Energy p 66.5 4.2 9.1E-05 35.2 2.1 24 331-373 134-158 (166)
101 smart00531 TFIIE Transcription 66.3 4.9 0.00011 34.4 2.5 37 186-227 97-133 (147)
102 PRK00464 nrdR transcriptional 65.9 1.3 2.9E-05 37.8 -1.0 11 496-506 29-39 (154)
103 TIGR02605 CxxC_CxxC_SSSS putat 65.8 2.5 5.3E-05 28.6 0.5 11 218-228 6-16 (52)
104 PF13719 zinc_ribbon_5: zinc-r 65.6 2.2 4.7E-05 26.5 0.2 11 158-168 3-13 (37)
105 KOG2186|consensus 65.2 3.6 7.9E-05 37.5 1.5 44 496-541 4-49 (276)
106 PF12907 zf-met2: Zinc-binding 63.6 3.8 8.3E-05 25.8 1.0 32 549-580 2-36 (40)
107 PF06524 NOA36: NOA36 protein; 62.9 3.8 8.2E-05 37.5 1.2 88 467-570 141-231 (314)
108 PF06524 NOA36: NOA36 protein; 62.4 5.9 0.00013 36.3 2.3 95 469-593 126-225 (314)
109 PRK00464 nrdR transcriptional 61.9 2.9 6.4E-05 35.8 0.3 15 218-232 29-43 (154)
110 PF03604 DNA_RNApol_7kD: DNA d 61.5 7.1 0.00015 23.3 1.8 29 549-589 1-29 (32)
111 COG1996 RPC10 DNA-directed RNA 60.6 6.7 0.00014 26.0 1.7 31 547-588 5-35 (49)
112 PTZ00255 60S ribosomal protein 60.3 6.6 0.00014 29.9 1.9 35 515-559 31-65 (90)
113 PRK06266 transcription initiat 59.7 8.5 0.00019 34.1 2.8 17 548-564 117-133 (178)
114 KOG1280|consensus 59.3 2.2 4.7E-05 40.8 -1.0 61 417-488 77-139 (381)
115 smart00531 TFIIE Transcription 58.6 14 0.00031 31.5 4.0 39 545-588 96-134 (147)
116 PF08274 PhnA_Zn_Ribbon: PhnA 58.5 3.9 8.6E-05 23.9 0.4 25 470-504 4-28 (30)
117 PF00301 Rubredoxin: Rubredoxi 57.7 7.6 0.00016 25.6 1.6 42 332-373 2-43 (47)
118 TIGR02300 FYDLN_acid conserved 57.2 7.1 0.00015 31.7 1.7 30 521-561 10-39 (129)
119 PRK14890 putative Zn-ribbon RN 57.2 8.7 0.00019 26.5 1.9 10 576-585 47-56 (59)
120 smart00734 ZnF_Rad18 Rad18-lik 57.0 7.5 0.00016 21.9 1.3 19 550-569 3-21 (26)
121 PF04606 Ogr_Delta: Ogr/Delta- 56.9 5.9 0.00013 26.1 1.1 43 550-595 1-45 (47)
122 PF15269 zf-C2H2_7: Zinc-finge 56.4 7.7 0.00017 24.7 1.4 22 521-542 21-42 (54)
123 TIGR00280 L37a ribosomal prote 55.4 9.2 0.0002 29.2 2.0 35 515-559 30-64 (91)
124 COG1198 PriA Primosomal protei 55.0 6.8 0.00015 42.8 1.7 8 159-166 437-444 (730)
125 PRK09678 DNA-binding transcrip 54.6 3.4 7.3E-05 30.1 -0.4 42 521-564 2-45 (72)
126 PRK03976 rpl37ae 50S ribosomal 54.3 8 0.00017 29.4 1.5 36 514-559 30-65 (90)
127 smart00614 ZnF_BED BED zinc fi 54.3 7.9 0.00017 25.9 1.3 25 549-573 19-48 (50)
128 COG4896 Uncharacterized protei 54.0 6 0.00013 27.1 0.7 36 190-225 4-39 (68)
129 PF09416 UPF1_Zn_bind: RNA hel 52.2 13 0.00028 31.6 2.5 43 543-585 9-68 (152)
130 PF05290 Baculo_IE-1: Baculovi 50.5 13 0.00029 30.4 2.2 15 467-481 79-93 (140)
131 cd00730 rubredoxin Rubredoxin; 50.2 8.5 0.00018 25.8 1.0 13 332-344 2-14 (50)
132 PF01780 Ribosomal_L37ae: Ribo 50.0 5.8 0.00013 30.2 0.2 14 516-529 31-44 (90)
133 KOG2071|consensus 48.4 10 0.00022 39.6 1.6 41 215-255 416-523 (579)
134 PRK04023 DNA polymerase II lar 47.9 23 0.0005 39.7 4.2 10 468-477 626-635 (1121)
135 PF04959 ARS2: Arsenite-resist 47.6 10 0.00022 34.5 1.4 26 548-573 77-102 (214)
136 PF05191 ADK_lid: Adenylate ki 47.6 16 0.00035 22.5 1.8 33 549-590 2-34 (36)
137 PF07649 C1_3: C1-like domain; 46.4 13 0.00028 21.7 1.2 12 547-558 14-25 (30)
138 PF15269 zf-C2H2_7: Zinc-finge 45.8 12 0.00025 23.9 1.0 22 549-570 21-42 (54)
139 COG1997 RPL43A Ribosomal prote 45.6 15 0.00032 27.6 1.7 10 549-558 54-63 (89)
140 TIGR01206 lysW lysine biosynth 45.6 9.5 0.00021 26.0 0.7 30 469-505 3-32 (54)
141 PRK04023 DNA polymerase II lar 45.3 15 0.00033 41.0 2.4 9 469-477 639-647 (1121)
142 KOG2593|consensus 44.5 19 0.00041 36.1 2.7 33 158-196 129-161 (436)
143 PF07754 DUF1610: Domain of un 43.4 12 0.00025 20.7 0.7 9 577-585 16-24 (24)
144 PF09845 DUF2072: Zn-ribbon co 43.3 13 0.00028 30.6 1.2 15 468-482 1-15 (131)
145 COG5151 SSL1 RNA polymerase II 42.8 19 0.00042 33.9 2.4 49 219-269 364-412 (421)
146 TIGR02300 FYDLN_acid conserved 42.3 18 0.00039 29.5 1.9 15 244-258 25-39 (129)
147 KOG2593|consensus 41.6 17 0.00037 36.4 1.9 33 495-527 128-160 (436)
148 PF14353 CpXC: CpXC protein 39.6 31 0.00068 28.6 3.1 20 548-567 38-57 (128)
149 PF14446 Prok-RING_1: Prokaryo 38.2 11 0.00024 25.6 0.1 27 124-168 6-32 (54)
150 PF13451 zf-trcl: Probable zin 37.8 15 0.00031 24.5 0.6 39 546-584 2-40 (49)
151 PF05443 ROS_MUCR: ROS/MUCR tr 37.1 18 0.0004 30.0 1.2 21 495-518 72-92 (132)
152 COG2331 Uncharacterized protei 37.0 17 0.00036 26.4 0.8 32 548-587 12-43 (82)
153 COG5151 SSL1 RNA polymerase II 36.9 43 0.00093 31.7 3.6 25 467-491 387-411 (421)
154 PF05443 ROS_MUCR: ROS/MUCR tr 36.8 22 0.00047 29.6 1.6 25 467-494 71-95 (132)
155 PF02176 zf-TRAF: TRAF-type zi 36.3 20 0.00043 24.9 1.2 21 230-250 23-43 (60)
156 PF12760 Zn_Tnp_IS1595: Transp 35.7 32 0.00069 22.5 2.0 7 189-195 19-25 (46)
157 KOG3408|consensus 32.9 26 0.00056 28.2 1.4 27 464-490 53-79 (129)
158 KOG1280|consensus 32.8 20 0.00044 34.6 0.9 25 549-573 80-104 (381)
159 PF09963 DUF2197: Uncharacteri 32.2 20 0.00043 24.6 0.6 6 218-223 32-37 (56)
160 KOG4167|consensus 32.2 19 0.00041 38.5 0.7 25 245-269 792-816 (907)
161 PF04959 ARS2: Arsenite-resist 31.7 29 0.00063 31.7 1.7 29 329-357 75-103 (214)
162 PF01363 FYVE: FYVE zinc finge 31.4 28 0.00061 25.0 1.3 10 550-559 11-20 (69)
163 PRK03824 hypA hydrogenase nick 30.8 25 0.00054 29.5 1.1 15 547-561 69-83 (135)
164 COG3364 Zn-ribbon containing p 30.5 29 0.00063 26.9 1.2 14 468-481 2-15 (112)
165 PF13878 zf-C2H2_3: zinc-finge 30.2 44 0.00095 21.3 1.9 23 469-491 14-38 (41)
166 PRK14714 DNA polymerase II lar 29.7 52 0.0011 38.1 3.5 8 469-476 668-675 (1337)
167 KOG4167|consensus 29.6 15 0.00034 39.0 -0.4 28 466-493 790-817 (907)
168 PRK14873 primosome assembly pr 29.0 28 0.00062 38.1 1.4 12 214-225 407-418 (665)
169 PF15135 UPF0515: Uncharacteri 28.9 75 0.0016 29.3 3.7 16 330-345 154-169 (278)
170 COG4530 Uncharacterized protei 28.3 32 0.0007 26.9 1.2 27 219-256 11-37 (129)
171 TIGR00595 priA primosomal prot 27.9 33 0.00072 36.3 1.7 15 212-226 235-249 (505)
172 PF08790 zf-LYAR: LYAR-type C2 27.0 25 0.00055 20.2 0.3 17 219-236 2-18 (28)
173 KOG2272|consensus 26.9 28 0.00062 31.8 0.8 20 418-437 98-117 (332)
174 KOG3408|consensus 26.4 42 0.0009 27.0 1.5 26 242-267 54-79 (129)
175 COG4888 Uncharacterized Zn rib 26.0 24 0.00051 27.3 0.1 37 216-256 21-57 (104)
176 PRK12380 hydrogenase nickel in 26.0 35 0.00076 27.6 1.1 11 549-559 71-81 (113)
177 smart00154 ZnF_AN1 AN1-like Zi 26.0 33 0.00072 21.5 0.8 13 548-560 12-24 (39)
178 COG3357 Predicted transcriptio 26.0 33 0.00071 26.0 0.8 13 245-257 58-70 (97)
179 PF13453 zf-TFIIB: Transcripti 25.8 35 0.00075 21.6 0.8 16 246-261 20-35 (41)
180 TIGR00100 hypA hydrogenase nic 25.6 34 0.00073 27.8 0.9 11 549-559 71-81 (115)
181 COG1655 Uncharacterized protei 25.4 27 0.00059 31.6 0.4 39 216-254 18-71 (267)
182 COG1779 C4-type Zn-finger prot 25.3 13 0.00029 32.8 -1.5 12 496-507 44-55 (201)
183 KOG1701|consensus 25.1 16 0.00034 36.4 -1.2 19 329-347 300-318 (468)
184 PF08271 TF_Zn_Ribbon: TFIIB z 24.9 39 0.00084 21.7 1.0 12 577-588 19-30 (43)
185 KOG0402|consensus 24.8 36 0.00078 25.2 0.8 32 518-559 34-65 (92)
186 KOG4124|consensus 24.6 27 0.00057 33.7 0.2 69 417-487 347-417 (442)
187 KOG2807|consensus 24.5 1.6E+02 0.0034 28.5 5.1 91 329-440 274-366 (378)
188 PF07295 DUF1451: Protein of u 24.3 30 0.00066 29.4 0.5 8 158-165 113-120 (146)
189 KOG4377|consensus 24.1 26 0.00057 34.6 0.1 102 468-573 271-427 (480)
190 PF01096 TFIIS_C: Transcriptio 23.3 14 0.0003 23.2 -1.3 10 218-227 29-38 (39)
191 cd00065 FYVE FYVE domain; Zinc 22.9 55 0.0012 22.3 1.5 27 522-560 4-30 (57)
192 KOG2807|consensus 22.8 1.1E+02 0.0024 29.5 3.8 23 418-440 289-311 (378)
193 KOG4377|consensus 22.6 32 0.00069 34.1 0.3 112 419-544 271-427 (480)
194 PRK00432 30S ribosomal protein 22.5 39 0.00085 22.7 0.6 9 578-586 38-46 (50)
195 smart00661 RPOL9 RNA polymeras 22.4 88 0.0019 20.8 2.4 11 578-588 21-31 (52)
196 COG4957 Predicted transcriptio 22.3 58 0.0013 26.8 1.7 24 468-494 76-99 (148)
197 PF01428 zf-AN1: AN1-like Zinc 22.0 37 0.0008 21.8 0.4 12 576-587 12-23 (43)
198 PRK05580 primosome assembly pr 21.3 52 0.0011 36.4 1.6 12 215-226 406-417 (679)
199 COG1773 Rubredoxin [Energy pro 20.9 44 0.00095 22.9 0.6 12 577-588 3-14 (55)
200 smart00064 FYVE Protein presen 20.9 60 0.0013 23.2 1.4 13 547-559 25-37 (68)
201 smart00440 ZnF_C2C2 C2C2 Zinc 20.7 26 0.00057 22.1 -0.4 10 218-227 29-38 (40)
202 PRK14714 DNA polymerase II lar 20.6 74 0.0016 37.0 2.6 11 548-558 692-702 (1337)
203 PRK00564 hypA hydrogenase nick 20.4 49 0.0011 26.9 1.0 11 549-559 72-82 (117)
204 TIGR00310 ZPR1_znf ZPR1 zinc f 20.3 22 0.00048 31.9 -1.2 38 470-508 2-43 (192)
205 PF13240 zinc_ribbon_2: zinc-r 20.1 76 0.0017 17.2 1.3 8 366-373 15-22 (23)
206 TIGR00595 priA primosomal prot 20.0 74 0.0016 33.7 2.4 27 218-254 223-249 (505)
No 1
>KOG1074|consensus
Probab=99.96 E-value=2.1e-30 Score=259.93 Aligned_cols=114 Identities=26% Similarity=0.537 Sum_probs=89.0
Q ss_pred cccccccccccCchhhhhhhccccccCccccCccchhhhchHHHHHHHHhhcccccCCcccCCccccccccCCCCchHHH
Q psy12199 218 YECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKAHSVVASNNKVQNCKKCFKCCQVFPSNEENL 297 (597)
Q Consensus 218 ~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~~~~~~~~~~~C~~C~~c~~~f~~~~~~l 297 (597)
-+|-+|-++..-++.|+.|.++|+|||||+|.+||+.|.++++|+.||-+|.....-
T Consensus 606 NqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~----------------------- 662 (958)
T KOG1074|consen 606 NQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPA----------------------- 662 (958)
T ss_pred cceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccc-----------------------
Confidence 568899999999999999999999999999999999999999999998888522111
Q ss_pred HhhhhhccCccccccccchhhhhcccccccccCeeecC---CCcccccchhhhHhHhhhcccCCCCCC----CC----CC
Q psy12199 298 RKHFEKVHFDLEFDEAHFYDVVLKCVYRFRIVQYFLCE---LCDKTSIHYTYLCLHKKLKHSNLTYGG----ES----PV 366 (597)
Q Consensus 298 ~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~---~C~~~f~~~~~L~~H~~~~h~~~~~~~----~~----~~ 366 (597)
...|.|+ +|-+.|.+.-.|..|+++|..+.+-.+ +. -+
T Consensus 663 -------------------------------R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq 711 (958)
T KOG1074|consen 663 -------------------------------RVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAAEGILAADQ 711 (958)
T ss_pred -------------------------------cccccCCchhhhcccccccccccceEEeecCCCCCCCcccccccchhcc
Confidence 1336777 888888888888888887765444333 22 27
Q ss_pred CCcCccCCCCHHHHHHHHH
Q psy12199 367 CEPCNLTFKNEWQYLVHNR 385 (597)
Q Consensus 367 C~~C~~~f~~~~~L~~H~~ 385 (597)
|..|.+.|.....+..++.
T Consensus 712 ~~~~qk~~~~a~~f~~~~s 730 (958)
T KOG1074|consen 712 CSSCQKTFSDARSFSQQIS 730 (958)
T ss_pred cchhhhcccccccchhhhh
Confidence 9999999999888888887
No 2
>KOG2462|consensus
Probab=99.96 E-value=1.8e-30 Score=230.08 Aligned_cols=130 Identities=25% Similarity=0.467 Sum_probs=125.7
Q ss_pred CceecccccccccchhhHHHHHHhccCc----cccCCcChhccCCcHHHHHHhhhcC-CCCCCcCccccCChHHHHHHHH
Q psy12199 467 KPYTCEICSKTYTVEGSLLTHYDMHSGE----FYQCDVCFKEFRSSVTLRNHTRRHD-NFSCDECSVECQDLNALRMHTL 541 (597)
Q Consensus 467 k~~~C~~C~~~f~~~~~L~~H~~~H~~e----~y~C~~C~~~F~~~~~L~~H~~~H~-~~~C~~C~~~f~~~~~L~~H~~ 541 (597)
..|+|+.||+.+.+.++|.+|.++|-.- .+.|+.||+.|.+...|+.|+|+|+ ++.|.+|||.|....-|+-|+|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiR 208 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIR 208 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccc
Confidence 5699999999999999999999999753 6999999999999999999999999 9999999999999999999999
Q ss_pred HhhccceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeeceEEEecC
Q psy12199 542 REHGYKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIEEVIFWIS 597 (597)
Q Consensus 542 ~h~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~ 597 (597)
+|+|||||.|+.|+++|..+++|+.||.+ |.+.++|+|..||++|...+.|.+|.
T Consensus 209 THTGEKPF~C~hC~kAFADRSNLRAHmQT-HS~~K~~qC~~C~KsFsl~SyLnKH~ 263 (279)
T KOG2462|consen 209 THTGEKPFSCPHCGKAFADRSNLRAHMQT-HSDVKKHQCPRCGKSFALKSYLNKHS 263 (279)
T ss_pred cccCCCCccCCcccchhcchHHHHHHHHh-hcCCccccCcchhhHHHHHHHHHHhh
Confidence 99999999999999999999999999999 99999999999999999999999983
No 3
>KOG1074|consensus
Probab=99.95 E-value=1.5e-29 Score=253.81 Aligned_cols=209 Identities=22% Similarity=0.400 Sum_probs=157.0
Q ss_pred cCeeecCCCcccccchhhhHhHhhhcccCCCCCCCCC-CCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCCCC
Q psy12199 329 VQYFLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESP-VCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPY 407 (597)
Q Consensus 329 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~-~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~ 407 (597)
..|-+|-+|-++.+-.+.|+.|.+ +|+|+++ +|.+||+.|.++.+|+.|+. +|...+...
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyr------tHtGERPFkCKiCgRAFtTkGNLkaH~~-vHka~p~~R------------ 663 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYR------THTGERPFKCKICGRAFTTKGNLKAHMS-VHKAKPPAR------------ 663 (958)
T ss_pred CCccceeeeeecccchhhhhhhhh------cccCcCccccccccchhccccchhhccc-ccccCcccc------------
Confidence 346799999999999999999999 8888888 99999999999999999999 887544322
Q ss_pred CCcccccCccCceecc---cCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhH
Q psy12199 408 PPLRKAKQHVKSVTCS---VCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSL 484 (597)
Q Consensus 408 ~~~~~~~~~~~~~~C~---~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L 484 (597)
-.+.|+ +|.+.|.+.-.|..|++.|-++..+.-..... .+ .-.-+|..|.+.|.....+
T Consensus 664 ----------~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~e------~~--~~adq~~~~qk~~~~a~~f 725 (958)
T KOG1074|consen 664 ----------VQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAAE------GI--LAADQCSSCQKTFSDARSF 725 (958)
T ss_pred ----------ccccCCchhhhcccccccccccceEEeecCCCCCCCccccc------cc--chhcccchhhhcccccccc
Confidence 358999 99999999999999999555444332211110 00 0124577777777666666
Q ss_pred HHHHHhc----------------cCc-----cccCCcChhccCCcHHHHHHhhhc-------------------------
Q psy12199 485 LTHYDMH----------------SGE-----FYQCDVCFKEFRSSVTLRNHTRRH------------------------- 518 (597)
Q Consensus 485 ~~H~~~H----------------~~e-----~y~C~~C~~~F~~~~~L~~H~~~H------------------------- 518 (597)
..++..| +++ +..+..|+..+.....+..+--.+
T Consensus 726 ~~~~se~~~~~s~~~~~~~~~t~t~~~~~tp~~~e~~~~~~~~~e~~i~~~g~te~asa~~~~vg~~s~~~~~~~~~~T~ 805 (958)
T KOG1074|consen 726 SQQISEQPSPESEPDEQMDERTETEELDVTPPPPENSCGRELEGEMAISVRGSTEEASANLDEVGTVSAAGEAGEEDDTS 805 (958)
T ss_pred hhhhhccCCcccCCcccccccccccccccCCCccccccccccCcccccccccchhhhhcChhhhcCccccchhhhhcccC
Confidence 6665544 221 345666777666655554442111
Q ss_pred ------------------------------------------------------------------------CCCCCCcC
Q psy12199 519 ------------------------------------------------------------------------DNFSCDEC 526 (597)
Q Consensus 519 ------------------------------------------------------------------------~~~~C~~C 526 (597)
....|..|
T Consensus 806 ~k~~~~~~~~~~~~~~~v~~~pvl~~~~~~~l~eg~~t~~n~~t~~~~~~sv~qs~~~p~l~p~l~~~~pvnn~h~C~vC 885 (958)
T KOG1074|consen 806 EKPTQASSFPGEILAPSVNMDPVLWNQETSMLNEGLATKTNEITPEGPADSVIQSGGVPTLEPSLGRPGPVNNAHVCNVC 885 (958)
T ss_pred CCCcccccCCCcCCccccccCchhhcccccccccccccccccccCCCcchhhhhhccccccCCCCCCCCcccchhhhccc
Confidence 01449999
Q ss_pred ccccCChHHHHHHHHHhhccceeecCcCccccCChhHHHhhhcccCCCC
Q psy12199 527 SVECQDLNALRMHTLREHGYKILACEKCDVKFTHKALLAEHINTKHNTD 575 (597)
Q Consensus 527 ~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~ 575 (597)
|+.|...++|..|+++|+|+|||.|.+|++.|..+.+|++||.+ |...
T Consensus 886 gk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgt-H~w~ 933 (958)
T KOG1074|consen 886 GKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGT-HMWV 933 (958)
T ss_pred hhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhcc-cccc
Confidence 99999999999999999999999999999999999999999998 5443
No 4
>KOG2462|consensus
Probab=99.94 E-value=1.1e-27 Score=212.49 Aligned_cols=138 Identities=27% Similarity=0.535 Sum_probs=122.7
Q ss_pred CCCCCCCccCccCCCchhhHhhhhhccCCCCCCCCCccccChhhhhHHHHHHHHHHhhhhhcccCCCccccCCCCccCCC
Q psy12199 121 LKIPRCEECDINFPSKMRHTFHLQHHLEDPDLPVNFMHECRECGSQFADILKHSLETHLSFIHVQDNQLKCTICNKENFK 200 (597)
Q Consensus 121 ~k~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~C~~C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C~k~~f~ 200 (597)
.-.|+|+.||+.+.+.++|.+|.++|-.-. ....+.|++|++.|. +...|..|++ +|+ -+++|.+||| .|.
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~---s~ka~~C~~C~K~Yv--SmpALkMHir-TH~--l~c~C~iCGK-aFS 198 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHRSLD---SKKAFSCKYCGKVYV--SMPALKMHIR-THT--LPCECGICGK-AFS 198 (279)
T ss_pred CCceeccccccccccccccchhhccccccc---ccccccCCCCCceee--ehHHHhhHhh-ccC--CCcccccccc-ccc
Confidence 346899999999999999999999986432 234489999999998 6788999988 775 7899999999 699
Q ss_pred ChhhHHHHhhccCCCcccccccccccccCchhhhhhhccccccCccccCccchhhhchHHHHHHHHh
Q psy12199 201 NQLSLSIHMRYHENVREYECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKA 267 (597)
Q Consensus 201 ~~~~L~~H~~~H~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~ 267 (597)
....|+-|+|+|+|||||.|+.|++.|.++++|+.||++|.+.++|+|..|+++|...+.|.+|...
T Consensus 199 RPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 199 RPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred chHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999999999999999864
No 5
>KOG3608|consensus
Probab=99.92 E-value=1.8e-25 Score=202.59 Aligned_cols=204 Identities=26% Similarity=0.489 Sum_probs=176.3
Q ss_pred eeecC--CCcccccchhhhHhHhhhcccCCCCCCCCC-CCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCCCC
Q psy12199 331 YFLCE--LCDKTSIHYTYLCLHKKLKHSNLTYGGESP-VCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPY 407 (597)
Q Consensus 331 ~~~C~--~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~-~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~ 407 (597)
.+.|. .|.+.+.+++.|++|++ .|++++. .|+.||.-|.++..|..|.+..-..
T Consensus 177 v~~C~W~~Ct~~~~~k~~LreH~r------~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l----------------- 233 (467)
T KOG3608|consen 177 VTMCNWAMCTKHMGNKYRLREHIR------THSNEKVVACPHCGELFRTKTKLFDHLRRQTEL----------------- 233 (467)
T ss_pred eeeccchhhhhhhccHHHHHHHHH------hcCCCeEEecchHHHHhccccHHHHHHHhhhhh-----------------
Confidence 36675 59999999999999999 7777777 9999999999999999999843221
Q ss_pred CCcccccCccCceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHH
Q psy12199 408 PPLRKAKQHVKSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTH 487 (597)
Q Consensus 408 ~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H 487 (597)
...+|.|..|.|.|++...|..|+++|- .-|+|+.|+.+....++|..|
T Consensus 234 --------~~n~fqC~~C~KrFaTeklL~~Hv~rHv-----------------------n~ykCplCdmtc~~~ssL~~H 282 (467)
T KOG3608|consen 234 --------NTNSFQCAQCFKRFATEKLLKSHVVRHV-----------------------NCYKCPLCDMTCSSASSLTTH 282 (467)
T ss_pred --------cCCchHHHHHHHHHhHHHHHHHHHHHhh-----------------------hcccccccccCCCChHHHHHH
Confidence 1157999999999999999999999554 359999999999999999999
Q ss_pred HHhccCc--cccCCcChhccCCcHHHHHHhhhcC--CCCCCc--CccccCChHHHHHHHHHhh-cc--ceeecCcCcccc
Q psy12199 488 YDMHSGE--FYQCDVCFKEFRSSVTLRNHTRRHD--NFSCDE--CSVECQDLNALRMHTLREH-GY--KILACEKCDVKF 558 (597)
Q Consensus 488 ~~~H~~e--~y~C~~C~~~F~~~~~L~~H~~~H~--~~~C~~--C~~~f~~~~~L~~H~~~h~-~~--k~~~C~~C~~~F 558 (597)
++.-+.+ ||+|+.|++.|.+.+.|.+|..+|. .|+|.. |.++|.+...|+.|++.++ |. -+|.|..|++.|
T Consensus 283 ~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~f 362 (467)
T KOG3608|consen 283 IRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFF 362 (467)
T ss_pred HHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhh
Confidence 9975544 9999999999999999999999998 699999 9999999999999999887 43 569999999999
Q ss_pred CChhHHHhhhcccCCCCcc-----cccCCCCccee
Q psy12199 559 THKALLAEHINTKHNTDVT-----LKCQLCNVVVL 588 (597)
Q Consensus 559 ~~~~~L~~H~~~~H~~~~~-----~~C~~C~~~f~ 588 (597)
++-.+|.+|++++|.-..| |.=.+|.-+|.
T Consensus 363 t~G~~L~~HL~kkH~f~~PsGh~RFtYk~~edG~m 397 (467)
T KOG3608|consen 363 TSGKSLSAHLMKKHGFRLPSGHKRFTYKVDEDGFM 397 (467)
T ss_pred ccchhHHHHHHHhhcccCCCCCCceeeeeccCcee
Confidence 9999999999999975544 55555555553
No 6
>KOG3623|consensus
Probab=99.92 E-value=5.3e-26 Score=224.24 Aligned_cols=108 Identities=29% Similarity=0.636 Sum_probs=95.4
Q ss_pred ccccChhhhhHHHHHHHHHHhhhhhcccC-CCccccCCCCccCCCChhhHHHHhhccCC-------------Cccccccc
Q psy12199 157 MHECRECGSQFADILKHSLETHLSFIHVQ-DNQLKCTICNKENFKNQLSLSIHMRYHEN-------------VREYECEI 222 (597)
Q Consensus 157 ~~~C~~C~~~f~~~~~~~l~~H~~~~h~~-~~~~~C~~C~k~~f~~~~~L~~H~~~H~~-------------~k~~~C~~ 222 (597)
+..|++|...+. .-.+|+.|+.+.|.. +..|.|.+|.+ +|..+..|.+||.+|.. .+.|+|.+
T Consensus 210 lltcpycdrgyk--rltslkeHikyrhekne~nfsC~lCsy-tFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtE 286 (1007)
T KOG3623|consen 210 LLTCPYCDRGYK--RLTSLKEHIKYRHEKNEPNFSCMLCSY-TFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTE 286 (1007)
T ss_pred hhcchhHHHHHH--HHHHHHHHHHHHHhhCCCCCcchhhhh-hhhhHHHHHHHHHhhcCCCcccccccchhhhccccccc
Confidence 467999999998 567899998877754 45689999999 89999999999998842 35699999
Q ss_pred ccccccCchhhhhhhccccccCccccCccchhhhchHHHHHHHHh
Q psy12199 223 CKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKA 267 (597)
Q Consensus 223 C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~ 267 (597)
|||.|..+.+|+.|+|+|.||+||.|+.|++.|...+.+..||..
T Consensus 287 CgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 287 CGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred cchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 999999999999999999999999999999999999999999854
No 7
>KOG3608|consensus
Probab=99.92 E-value=3.3e-25 Score=200.97 Aligned_cols=233 Identities=25% Similarity=0.499 Sum_probs=161.1
Q ss_pred cccc--CCCCccCCCChhhHHHHhhccCC------------Cc-ccccc--cccccccCchhhhhhhccccccCccccCc
Q psy12199 188 QLKC--TICNKENFKNQLSLSIHMRYHEN------------VR-EYECE--ICKKKFINKSTLKEHSVSHMSVKPFKCEI 250 (597)
Q Consensus 188 ~~~C--~~C~k~~f~~~~~L~~H~~~H~~------------~k-~~~C~--~C~~~F~~~~~L~~H~~~H~~~~~~~C~~ 250 (597)
-|.| ..|+. .|.+...+..|+..|.. ++ .+.|. .|-+.|.++..|++|+++|++++...|+.
T Consensus 134 ~f~C~WedCe~-~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~ 212 (467)
T KOG3608|consen 134 NFRCGWEDCER-EFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPH 212 (467)
T ss_pred hhccChhhcCC-cccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccHHHHHHHHHhcCCCeEEecch
Confidence 4566 56998 69999999999877731 22 25675 48899999999999999999999999999
Q ss_pred cchhhhchHHHHHHHHhhcccccCCcccCCccccccccCCCCchHHHHhhhhhccCccccccccchhhhhcccccccccC
Q psy12199 251 CGHYLSRASRLRAHLKAHSVVASNNKVQNCKKCFKCCQVFPSNEENLRKHFEKVHFDLEFDEAHFYDVVLKCVYRFRIVQ 330 (597)
Q Consensus 251 C~~~f~~~~~L~~H~~~H~~~~~~~~~~~C~~C~~c~~~f~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 330 (597)
||.-|.++..|-.|++.-+... ..
T Consensus 213 Cg~~F~~~tkl~DH~rRqt~l~--------------------------------------------------------~n 236 (467)
T KOG3608|consen 213 CGELFRTKTKLFDHLRRQTELN--------------------------------------------------------TN 236 (467)
T ss_pred HHHHhccccHHHHHHHhhhhhc--------------------------------------------------------CC
Confidence 9999999999999987654110 13
Q ss_pred eeecCCCcccccchhhhHhHhhhcccCCCCCCCCCCCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCCCCCCc
Q psy12199 331 YFLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESPVCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPYPPL 410 (597)
Q Consensus 331 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~ 410 (597)
+|.|..|.+.|.+...|..|+. .|.
T Consensus 237 ~fqC~~C~KrFaTeklL~~Hv~----------------------------------rHv--------------------- 261 (467)
T KOG3608|consen 237 SFQCAQCFKRFATEKLLKSHVV----------------------------------RHV--------------------- 261 (467)
T ss_pred chHHHHHHHHHhHHHHHHHHHH----------------------------------Hhh---------------------
Confidence 4666666666666666666665 222
Q ss_pred ccccCccCceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHHHHh
Q psy12199 411 RKAKQHVKSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 411 ~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
..|+|+.|+.+....+.|..|++..|... +||+|+.|+++|.+.+.|.+|..+
T Consensus 262 -------n~ykCplCdmtc~~~ssL~~H~r~rHs~d--------------------kpfKCd~Cd~~c~~esdL~kH~~~ 314 (467)
T KOG3608|consen 262 -------NCYKCPLCDMTCSSASSLTTHIRYRHSKD--------------------KPFKCDECDTRCVRESDLAKHVQV 314 (467)
T ss_pred -------hcccccccccCCCChHHHHHHHHhhhccC--------------------CCccccchhhhhccHHHHHHHHHh
Confidence 23666666666666666666666666554 667777777777777777777777
Q ss_pred ccCccccCCc--ChhccCCcHHHHHHhhhcC------CCCCCcCccccCChHHHHHHHHHhhc------cceeecCcCcc
Q psy12199 491 HSGEFYQCDV--CFKEFRSSVTLRNHTRRHD------NFSCDECSVECQDLNALRMHTLREHG------YKILACEKCDV 556 (597)
Q Consensus 491 H~~e~y~C~~--C~~~F~~~~~L~~H~~~H~------~~~C~~C~~~f~~~~~L~~H~~~h~~------~k~~~C~~C~~ 556 (597)
|+...|+|+. |.++|++...|++|++.++ +|.|..|++.|.+..+|..|+..-++ -+.|.=..|.-
T Consensus 315 HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk~~ed 394 (467)
T KOG3608|consen 315 HSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYKVDED 394 (467)
T ss_pred ccccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeeeeccC
Confidence 7644677766 7777777777777766554 46777777777777777777655443 34455556655
Q ss_pred ccC
Q psy12199 557 KFT 559 (597)
Q Consensus 557 ~F~ 559 (597)
+|-
T Consensus 395 G~m 397 (467)
T KOG3608|consen 395 GFM 397 (467)
T ss_pred cee
Confidence 553
No 8
>KOG3623|consensus
Probab=99.90 E-value=5.6e-25 Score=217.08 Aligned_cols=77 Identities=23% Similarity=0.431 Sum_probs=73.7
Q ss_pred CCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeeceEEEecC
Q psy12199 520 NFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIEEVIFWIS 597 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~~H~ 597 (597)
.|.|++|+|.|...+.|.+|..-|+|.+||+|.+|.++|..+..|..|+|. |.|++||+|+.|++.|+....|.+|+
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRL-HSGEKPfQCdKClKRFSHSGSYSQHM 970 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRL-HSGEKPFQCDKCLKRFSHSGSYSQHM 970 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhh-ccCCCcchhhhhhhhcccccchHhhh
Confidence 599999999999999999999999999999999999999999999999999 99999999999999999999998884
No 9
>KOG3576|consensus
Probab=99.71 E-value=4.3e-19 Score=148.84 Aligned_cols=109 Identities=27% Similarity=0.555 Sum_probs=90.2
Q ss_pred CceecccccccccchhhHHHHHHhccCc-cccCCcChhccCCcHHHHHHhhhcC---CCCCCcCccccCChHHHHHHHHH
Q psy12199 467 KPYTCEICSKTYTVEGSLLTHYDMHSGE-FYQCDVCFKEFRSSVTLRNHTRRHD---NFSCDECSVECQDLNALRMHTLR 542 (597)
Q Consensus 467 k~~~C~~C~~~f~~~~~L~~H~~~H~~e-~y~C~~C~~~F~~~~~L~~H~~~H~---~~~C~~C~~~f~~~~~L~~H~~~ 542 (597)
..|.|.+|++.|.....|.+|++-|..- .|-|..||+.|.....|++|+|+|+ ||+|..|++.|.++-.|..|++.
T Consensus 116 d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~k 195 (267)
T KOG3576|consen 116 DSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKK 195 (267)
T ss_pred CeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHH
Confidence 5689999999999999999999998876 7888888888888888888888887 78888888888888888888776
Q ss_pred hhc-----------cceeecCcCccccCChhHHHhhhcccCCCC
Q psy12199 543 EHG-----------YKILACEKCDVKFTHKALLAEHINTKHNTD 575 (597)
Q Consensus 543 h~~-----------~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~ 575 (597)
-+| +|.|.|..||++-.....+..|++.+|...
T Consensus 196 vhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 196 VHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred HcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCC
Confidence 655 356888888888888888888888766543
No 10
>KOG3576|consensus
Probab=99.67 E-value=2.8e-17 Score=138.07 Aligned_cols=109 Identities=36% Similarity=0.708 Sum_probs=99.4
Q ss_pred ccccChhhhhHHHHHHHHHHhhhhhcccCCCccccCCCCccCCCChhhHHHHhhccCCCcccccccccccccCchhhhhh
Q psy12199 157 MHECRECGSQFADILKHSLETHLSFIHVQDNQLKCTICNKENFKNQLSLSIHMRYHENVREYECEICKKKFINKSTLKEH 236 (597)
Q Consensus 157 ~~~C~~C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~~~F~~~~~L~~H 236 (597)
.|.|.+|+|.|. ....|.+|+. .|...+.|.|..||| .|.+..+|++|+|+|+|.+||+|..|+++|..+-.|..|
T Consensus 117 ~ftCrvCgK~F~--lQRmlnrh~k-ch~~vkr~lct~cgk-gfndtfdlkrh~rthtgvrpykc~~c~kaftqrcslesh 192 (267)
T KOG3576|consen 117 SFTCRVCGKKFG--LQRMLNRHLK-CHSDVKRHLCTFCGK-GFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESH 192 (267)
T ss_pred eeeeehhhhhhh--HHHHHHHHhh-hccHHHHHHHhhccC-cccchhhhhhhhccccCccccchhhhhHHHHhhccHHHH
Confidence 389999999999 7899999998 999999999999999 799999999999999999999999999999999999999
Q ss_pred hc-ccc----------ccCccccCccchhhhchHHHHHHHHhhc
Q psy12199 237 SV-SHM----------SVKPFKCEICGHYLSRASRLRAHLKAHS 269 (597)
Q Consensus 237 ~~-~H~----------~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 269 (597)
++ +|. .++.|.|..||.+-.....+..|++.|+
T Consensus 193 l~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~h 236 (267)
T KOG3576|consen 193 LKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHH 236 (267)
T ss_pred HHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcC
Confidence 76 442 2467999999999999999999999887
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.27 E-value=7.2e-12 Score=126.93 Aligned_cols=136 Identities=18% Similarity=0.410 Sum_probs=98.9
Q ss_pred ceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceeccc--ccccccchhhHHHHHHhccCccc
Q psy12199 419 SVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEI--CSKTYTVEGSLLTHYDMHSGEFY 496 (597)
Q Consensus 419 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~--C~~~f~~~~~L~~H~~~H~~e~y 496 (597)
...|+.|...... .+|..|.. .... ..-.|+. ||..| .+..|..| +
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~-~C~r---------------------~~V~Cp~~~Cg~v~-~r~el~~H--------~ 454 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEA-YCSR---------------------HNVVCPHDGCGIVL-RVEEAKNH--------V 454 (567)
T ss_pred eEECCCCCCccch-hHHHHHHh-hCCC---------------------cceeCCccccccee-eccccccC--------c
Confidence 4579999988765 44668876 3332 2356774 88887 34444444 4
Q ss_pred cCCcChhccCCcHHHHHHhhhcC-CCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccC----------ChhHHH
Q psy12199 497 QCDVCFKEFRSSVTLRNHTRRHD-NFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFT----------HKALLA 565 (597)
Q Consensus 497 ~C~~C~~~F~~~~~L~~H~~~H~-~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~----------~~~~L~ 565 (597)
.|+.|++.|. ...|..|+++|+ ++.|+ ||+.+ .+..|..|+.+|.+++|+.|..|++.|. ....|.
T Consensus 455 ~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt 531 (567)
T PLN03086 455 HCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMS 531 (567)
T ss_pred cCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHH
Confidence 7888888885 577888888754 78888 88654 6688888888888888888888888884 235788
Q ss_pred hhhcccCCCCcccccCCCCcceeece
Q psy12199 566 EHINTKHNTDVTLKCQLCNVVVLIEE 591 (597)
Q Consensus 566 ~H~~~~H~~~~~~~C~~C~~~f~~~~ 591 (597)
.|... . +.+++.|..||+.+..+.
T Consensus 532 ~HE~~-C-G~rt~~C~~Cgk~Vrlrd 555 (567)
T PLN03086 532 EHESI-C-GSRTAPCDSCGRSVMLKE 555 (567)
T ss_pred HHHHh-c-CCcceEccccCCeeeehh
Confidence 88876 4 788888888888887653
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.16 E-value=4.9e-11 Score=120.99 Aligned_cols=145 Identities=21% Similarity=0.496 Sum_probs=113.8
Q ss_pred CCCCccCccCCCchhhHhhhhhccCCCCCCCCCccccCh--hhhhHHHHHHHHHHhhhhhcccCCCccccCCCCccCCCC
Q psy12199 124 PRCEECDINFPSKMRHTFHLQHHLEDPDLPVNFMHECRE--CGSQFADILKHSLETHLSFIHVQDNQLKCTICNKENFKN 201 (597)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~C~~--C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C~k~~f~~ 201 (597)
-.|+.|....... +|..|+....... ..|+. |+..|. +..+..| +.|+.|++ .|.
T Consensus 408 V~C~NC~~~i~l~-~l~lHe~~C~r~~-------V~Cp~~~Cg~v~~---r~el~~H----------~~C~~Cgk-~f~- 464 (567)
T PLN03086 408 VECRNCKHYIPSR-SIALHEAYCSRHN-------VVCPHDGCGIVLR---VEEAKNH----------VHCEKCGQ-AFQ- 464 (567)
T ss_pred EECCCCCCccchh-HHHHHHhhCCCcc-------eeCCcccccceee---ccccccC----------ccCCCCCC-ccc-
Confidence 3699998866654 5567875543322 56884 999885 4555555 48999999 685
Q ss_pred hhhHHHHhhccCCCcccccccccccccCchhhhhhhccccccCccccCccchhhh----------chHHHHHHHHhhccc
Q psy12199 202 QLSLSIHMRYHENVREYECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLS----------RASRLRAHLKAHSVV 271 (597)
Q Consensus 202 ~~~L~~H~~~H~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~----------~~~~L~~H~~~H~~~ 271 (597)
...|..|+++|+ ++|.|+ ||+.+ .+..|..|+.+|.+++|+.|..|++.|. ..+.|..|...+
T Consensus 465 ~s~LekH~~~~H--kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C--- 537 (567)
T PLN03086 465 QGEMEKHMKVFH--EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC--- 537 (567)
T ss_pred hHHHHHHHHhcC--CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc---
Confidence 678999999985 889999 99765 6799999999999999999999999995 245899998886
Q ss_pred ccCCcccCCccccccccCCCCchHHHHhhhhhcc
Q psy12199 272 ASNNKVQNCKKCFKCCQVFPSNEENLRKHFEKVH 305 (597)
Q Consensus 272 ~~~~~~~~C~~C~~c~~~f~~~~~~l~~H~~~~~ 305 (597)
+.+++.|..| ++.+. ...+..|+...|
T Consensus 538 --G~rt~~C~~C---gk~Vr--lrdm~~H~~~~h 564 (567)
T PLN03086 538 --GSRTAPCDSC---GRSVM--LKEMDIHQIAVH 564 (567)
T ss_pred --CCcceEcccc---CCeee--ehhHHHHHHHhh
Confidence 8899999888 88776 567788877665
No 13
>PHA00733 hypothetical protein
Probab=99.01 E-value=2.1e-10 Score=94.53 Aligned_cols=82 Identities=18% Similarity=0.334 Sum_probs=60.8
Q ss_pred cCCCccccCCCCccCCCChhhHHHH------hhccCCCcccccccccccccCchhhhhhhccccccCccccCccchhhhc
Q psy12199 184 VQDNQLKCTICNKENFKNQLSLSIH------MRYHENVREYECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSR 257 (597)
Q Consensus 184 ~~~~~~~C~~C~k~~f~~~~~L~~H------~~~H~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~ 257 (597)
...+++.|.+|.+ .|.+...|..+ +. +.+++||.|+.|++.|.+...|..|++.| +.+|.|+.|++.|..
T Consensus 36 ~~~~~~~~~~~~~-~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~ 111 (128)
T PHA00733 36 PEQKRLIRAVVKT-LIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRN 111 (128)
T ss_pred hhhhhHHHHHHhh-hccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCC
Confidence 3455666777766 45555555443 33 34578899999999999999999998876 356899999999999
Q ss_pred hHHHHHHHHhhc
Q psy12199 258 ASRLRAHLKAHS 269 (597)
Q Consensus 258 ~~~L~~H~~~H~ 269 (597)
...|..|+...+
T Consensus 112 ~~sL~~H~~~~h 123 (128)
T PHA00733 112 TDSTLDHVCKKH 123 (128)
T ss_pred HHHHHHHHHHhc
Confidence 999999987655
No 14
>PHA00733 hypothetical protein
Probab=99.01 E-value=2.5e-10 Score=94.11 Aligned_cols=52 Identities=21% Similarity=0.425 Sum_probs=30.2
Q ss_pred CCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCChhHHHhhhcccCC
Q psy12199 520 NFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTHKALLAEHINTKHN 573 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~ 573 (597)
+|.|+.||+.|.+...|..|++.| +.+|.|+.|+++|.....|.+|+...|+
T Consensus 73 Py~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 73 PYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred CccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 455555555555555555555543 2356666666666666666666666554
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.95 E-value=4.6e-10 Score=74.85 Aligned_cols=43 Identities=21% Similarity=0.447 Sum_probs=30.0
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeeceEEE
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIEEVIF 594 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~~~l~ 594 (597)
|+|+.||+.|++.++|..|+++ |+ +||+|..|+++|...+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~-H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRK-HN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHh-cC--CcccCCcccceecccceeE
Confidence 6677777777777777777776 55 5677777777777666664
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.89 E-value=7.3e-10 Score=73.89 Aligned_cols=44 Identities=11% Similarity=0.209 Sum_probs=29.8
Q ss_pred CCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCChhHHH
Q psy12199 520 NFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTHKALLA 565 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~~~L~ 565 (597)
.|.|+.||+.|....+|..|+++|+ +||+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 3666667777777777777777766 5677777777777666554
No 17
>KOG3993|consensus
Probab=98.78 E-value=3.7e-09 Score=99.89 Aligned_cols=81 Identities=27% Similarity=0.549 Sum_probs=53.9
Q ss_pred ccccCCCCccCCCChhhHHHHhhccCCCcccccccccccccCchhhhhhhccccc-------------------------
Q psy12199 188 QLKCTICNKENFKNQLSLSIHMRYHENVREYECEICKKKFINKSTLKEHSVSHMS------------------------- 242 (597)
Q Consensus 188 ~~~C~~C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~~~F~~~~~L~~H~~~H~~------------------------- 242 (597)
.|.|.+|.. .|.+...|.+|.-.-.-.-.|+|++|+|+|+-..+|..|.|+|..
T Consensus 267 dyiCqLCK~-kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 267 DYICQLCKE-KYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHH-hhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 466666665 466666666664321112237777777777777777777766621
Q ss_pred --------cCccccCccchhhhchHHHHHHHHhhc
Q psy12199 243 --------VKPFKCEICGHYLSRASRLRAHLKAHS 269 (597)
Q Consensus 243 --------~~~~~C~~C~~~f~~~~~L~~H~~~H~ 269 (597)
+..|.|.+|++.|.+...|+.|+.+|.
T Consensus 346 ~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq 380 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQ 380 (500)
T ss_pred cccCCcccCceeecHHhhhhhHHHHHHHHhHHhhh
Confidence 125888888888888888888888876
No 18
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.70 E-value=1e-08 Score=58.40 Aligned_cols=26 Identities=31% Similarity=0.546 Sum_probs=19.9
Q ss_pred HHHHHHHHhhccceeecCcCccccCC
Q psy12199 535 ALRMHTLREHGYKILACEKCDVKFTH 560 (597)
Q Consensus 535 ~L~~H~~~h~~~k~~~C~~C~~~F~~ 560 (597)
+|..|+++|+|++||+|++|+++|.+
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 47778888888888888888887753
No 19
>KOG3993|consensus
Probab=98.65 E-value=4.6e-09 Score=99.28 Aligned_cols=113 Identities=16% Similarity=0.267 Sum_probs=78.1
Q ss_pred CeeecCCCcccccchhhhHhHhhhcccCCCCCCCCCCCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCC--CC
Q psy12199 330 QYFLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESPVCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNN--PY 407 (597)
Q Consensus 330 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~--~~ 407 (597)
.-|.|.+|...|.+.-.|.+|.-..- ....|+|+.|++.|+-..+|..|.+ .|...++............ ..
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RI-----V~vEYrCPEC~KVFsCPANLASHRR-WHKPR~eaa~a~~~P~k~~~~~r 339 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRI-----VHVEYRCPECDKVFSCPANLASHRR-WHKPRPEAAKAGSPPPKQAVETR 339 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCee-----EEeeecCCcccccccCchhhhhhhc-ccCCchhhhhcCCCChhhhhhhh
Confidence 44999999999999999999975211 1234599999999999999999999 8876555432111000000 00
Q ss_pred C-----CcccccCccCceecccCccccCChhhHHhHhhhccCCCCC
Q psy12199 408 P-----PLRKAKQHVKSVTCSVCEKAFSSKENCKAHYTRQHGNKEP 448 (597)
Q Consensus 408 ~-----~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~ 448 (597)
. ........+..|.|..|++.|.....|+.|+..+|.....
T Consensus 340 ae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~ 385 (500)
T KOG3993|consen 340 AEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLA 385 (500)
T ss_pred hhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccc
Confidence 0 0011123345799999999999999999998877765443
No 20
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.53 E-value=3.5e-08 Score=56.19 Aligned_cols=24 Identities=42% Similarity=0.823 Sum_probs=13.4
Q ss_pred HHHHhhccCCCccccccccccccc
Q psy12199 205 LSIHMRYHENVREYECEICKKKFI 228 (597)
Q Consensus 205 L~~H~~~H~~~k~~~C~~C~~~F~ 228 (597)
|..|+++|+|++||.|++|++.|.
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFS 25 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEES
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeC
Confidence 455555555555555555555554
No 21
>PHA00732 hypothetical protein
Probab=98.39 E-value=1.7e-07 Score=69.51 Aligned_cols=21 Identities=24% Similarity=0.604 Sum_probs=8.4
Q ss_pred ccCCcChhccCCcHHHHHHhh
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTR 516 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~ 516 (597)
|.|+.||+.|.+...|+.|++
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 334444444444444444433
No 22
>PHA00616 hypothetical protein
Probab=98.38 E-value=1.5e-07 Score=59.68 Aligned_cols=34 Identities=21% Similarity=0.269 Sum_probs=20.3
Q ss_pred CCCCCcCccccCChHHHHHHHHHhhccceeecCc
Q psy12199 520 NFSCDECSVECQDLNALRMHTLREHGYKILACEK 553 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~ 553 (597)
+|+|..||+.|...+.|..|++.|+|+++|.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 3556666666666666666666666666665543
No 23
>PHA00616 hypothetical protein
Probab=98.26 E-value=2.2e-07 Score=58.86 Aligned_cols=34 Identities=21% Similarity=0.409 Sum_probs=31.4
Q ss_pred eeecCcCccccCChhHHHhhhcccCCCCcccccCC
Q psy12199 548 ILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQL 582 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~ 582 (597)
||+|+.||+.|..+++|.+|+++ |++++|+.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~-~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS-VHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH-hcCCCccceeE
Confidence 79999999999999999999998 77889998875
No 24
>PHA00732 hypothetical protein
Probab=98.25 E-value=4.8e-07 Score=67.17 Aligned_cols=45 Identities=27% Similarity=0.531 Sum_probs=38.3
Q ss_pred CCCCCcCccccCChHHHHHHHHH-hhccceeecCcCccccCChhHHHhhhcc
Q psy12199 520 NFSCDECSVECQDLNALRMHTLR-EHGYKILACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~-h~~~k~~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
||.|..||+.|.+...|+.|++. |.+ +.|+.|++.|. .|..|+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhcc
Confidence 58899999999999999999985 543 58999999997 58888876
No 25
>KOG1146|consensus
Probab=97.96 E-value=1.2e-05 Score=87.79 Aligned_cols=105 Identities=30% Similarity=0.493 Sum_probs=73.0
Q ss_pred cChhhhhHHHHHHHHHHhhhhhcccCCCccccCCCCccCCCChhhHHHHhhc-c------------------------CC
Q psy12199 160 CRECGSQFADILKHSLETHLSFIHVQDNQLKCTICNKENFKNQLSLSIHMRY-H------------------------EN 214 (597)
Q Consensus 160 C~~C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C~k~~f~~~~~L~~H~~~-H------------------------~~ 214 (597)
|.-|+..+. .+..+..|+...+...+.|+|+.|+. .|.....|..|||. | .+
T Consensus 439 ~~~~e~~~~--s~r~~~~~t~~L~S~~kt~~cpkc~~-~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~ 515 (1406)
T KOG1146|consen 439 LTKAEPLLE--SKRSLEGQTVVLHSFFKTLKCPKCNW-HYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCP 515 (1406)
T ss_pred ccchhhhhh--hhcccccceeeeecccccccCCccch-hhhhHHHhhhcccccccccchhHhHhccccccccccccccCC
Confidence 444444454 34555555555555566666666666 56666666666665 1 23
Q ss_pred CcccccccccccccCchhhhhhhcc--ccc-----------------------------------------cCccccCcc
Q psy12199 215 VREYECEICKKKFINKSTLKEHSVS--HMS-----------------------------------------VKPFKCEIC 251 (597)
Q Consensus 215 ~k~~~C~~C~~~F~~~~~L~~H~~~--H~~-----------------------------------------~~~~~C~~C 251 (597)
.++|.|..|..++..+.+|.+|++. |.. .-.+.|.+|
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc 595 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVC 595 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhh
Confidence 4689999999999999999999864 311 014889999
Q ss_pred chhhhchHHHHHHHHh
Q psy12199 252 GHYLSRASRLRAHLKA 267 (597)
Q Consensus 252 ~~~f~~~~~L~~H~~~ 267 (597)
++.-.-..+|+.||..
T Consensus 596 ~yetniarnlrihmts 611 (1406)
T KOG1146|consen 596 SYETNIARNLRIHMTA 611 (1406)
T ss_pred cchhhhhhcccccccc
Confidence 9999999999999864
No 26
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.88 E-value=1.8e-05 Score=54.56 Aligned_cols=52 Identities=31% Similarity=0.536 Sum_probs=37.8
Q ss_pred ceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHHHHhcc
Q psy12199 419 SVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHYDMHS 492 (597)
Q Consensus 419 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~H~ 492 (597)
.|.|++|++ ..+...|..|....|..+. +.+.|++|...+. .+|..|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~-------------------~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSES-------------------KNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCC-------------------CCccCCCchhhhh--hHHHHHHHHhc
Confidence 378888888 4556778888887776642 5678888887654 38888887654
No 27
>KOG1146|consensus
Probab=97.85 E-value=2e-05 Score=86.09 Aligned_cols=77 Identities=14% Similarity=0.317 Sum_probs=62.9
Q ss_pred ccCCcChhccCCcHHHHHHhhhcCCCCCCcCccccCChHHHHHHHHHhh-----------------ccceeecCcCcccc
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVECQDLNALRMHTLREH-----------------GYKILACEKCDVKF 558 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~-----------------~~k~~~C~~C~~~F 558 (597)
+.|..|++.|.....+. |+-.-..|.|..|...|.....|..|.+.-. ..++| |..|...|
T Consensus 1261 ~~c~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~l~~~d~~~~-c~~c~~~~ 1338 (1406)
T KOG1146|consen 1261 GECGAVDELLTPSFGIS-TLDVTHRYLCRQCKMAFDGEAPLTAHQRKFCFAGRGSGGSMPPPLRVPDCTYH-CLACEVLL 1338 (1406)
T ss_pred chhhhccccccCcccee-ecccchhHHHHHHHhhhcchhHHHHHHHHHHhccCccccCCCCcccCcccccc-chHHHhhc
Confidence 77899999988888888 7777678999999999999999999874321 23457 99999999
Q ss_pred CChhHHHhhhcccCCC
Q psy12199 559 THKALLAEHINTKHNT 574 (597)
Q Consensus 559 ~~~~~L~~H~~~~H~~ 574 (597)
.....|..||+..+..
T Consensus 1339 ~~~~alqihm~~~~~~ 1354 (1406)
T KOG1146|consen 1339 SGREALQIHMRSSAHR 1354 (1406)
T ss_pred chhHHHHHHHHHhhhc
Confidence 9999999999886653
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.81 E-value=2.2e-05 Score=54.14 Aligned_cols=49 Identities=31% Similarity=0.548 Sum_probs=32.7
Q ss_pred CCCCcCccccCChHHHHHHHHHhhc--cceeecCcCccccCChhHHHhhhcccC
Q psy12199 521 FSCDECSVECQDLNALRMHTLREHG--YKILACEKCDVKFTHKALLAEHINTKH 572 (597)
Q Consensus 521 ~~C~~C~~~f~~~~~L~~H~~~h~~--~k~~~C~~C~~~F~~~~~L~~H~~~~H 572 (597)
|.|++|++ -.+...|..|....+. .+.+.|++|...+. .+|..|+...|
T Consensus 3 f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQH 53 (54)
T ss_pred cCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhc
Confidence 67777777 3445667777655433 24688888887654 38888887755
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.73 E-value=1.9e-05 Score=43.66 Aligned_cols=22 Identities=32% Similarity=0.804 Sum_probs=11.6
Q ss_pred eecccccccccchhhHHHHHHh
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
|.|+.|++.|.++..|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 3455555555555555555544
No 30
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.73 E-value=1.4e-05 Score=44.21 Aligned_cols=22 Identities=45% Similarity=0.958 Sum_probs=13.1
Q ss_pred ccCCcChhccCCcHHHHHHhhh
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTRR 517 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~~ 517 (597)
|+|+.|++.|.++..|..|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 4566666666666666666554
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.65 E-value=2.6e-05 Score=62.43 Aligned_cols=74 Identities=26% Similarity=0.406 Sum_probs=18.2
Q ss_pred cCCcChhccCCcHHHHHHhhhcCCCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCChhHHHhhhcccC
Q psy12199 497 QCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTHKALLAEHINTKH 572 (597)
Q Consensus 497 ~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~~~L~~H~~~~H 572 (597)
+|..|+..|.+...|..||...+.+.-. ....+.....|..+...-. ...+.|..|++.|.+...|..||+.++
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~-~~~~l~~~~~~~~~~~~~~-~~~~~C~~C~~~f~s~~~l~~Hm~~~~ 74 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIP-DQKYLVDPNRLLNYLRKKV-KESFRCPYCNKTFRSREALQEHMRSKH 74 (100)
T ss_dssp --------------------------------------------------SSEEBSSSS-EESSHHHHHHHHHHTT
T ss_pred Cccccccccccccccccccccccccccc-ccccccccccccccccccc-CCCCCCCccCCCCcCHHHHHHHHcCcc
Confidence 3666666666666666666554433322 1111223333333333211 125778888888888888888877643
No 32
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.48 E-value=5.6e-05 Score=60.47 Aligned_cols=26 Identities=31% Similarity=0.730 Sum_probs=0.0
Q ss_pred ecccCccccCChhhHHhHhhhccCCC
Q psy12199 421 TCSVCEKAFSSKENCKAHYTRQHGNK 446 (597)
Q Consensus 421 ~C~~C~~~f~~~~~L~~H~~~~h~~~ 446 (597)
+|..|+..|.+...|..|+...|+..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~ 26 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFD 26 (100)
T ss_dssp --------------------------
T ss_pred Cccccccccccccccccccccccccc
Confidence 47778888888888888877677643
No 33
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.42 E-value=7e-05 Score=41.84 Aligned_cols=22 Identities=32% Similarity=0.685 Sum_probs=11.5
Q ss_pred eecCcCccccCChhHHHhhhcc
Q psy12199 549 LACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
|.|++|++.|.+...|..|+++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 4555555555555555555554
No 34
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.41 E-value=9.1e-05 Score=67.96 Aligned_cols=67 Identities=33% Similarity=0.577 Sum_probs=49.2
Q ss_pred cCceeccc--CccccCChhhHHhHhhhccCCCCCCC---CCCCCCcchhhhhcCCCceecccccccccchhhHHHHH
Q psy12199 417 VKSVTCSV--CEKAFSSKENCKAHYTRQHGNKEPKE---PKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHY 488 (597)
Q Consensus 417 ~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~---~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~ 488 (597)
++||+|++ |+|.+.+...|+.|+.--|......+ +.....| ....|||+|++|+|++.....|+.|.
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F-----~~~~KPYrCevC~KRYKNlNGLKYHr 418 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIF-----SAKDKPYRCEVCDKRYKNLNGLKYHR 418 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccc-----cccCCceeccccchhhccCccceecc
Confidence 59999987 99999999999999984454433322 2223333 23458899999999888888888874
No 35
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.35 E-value=0.00012 Score=42.17 Aligned_cols=25 Identities=24% Similarity=0.573 Sum_probs=19.1
Q ss_pred eeecCcCccccCChhHHHhhhcccC
Q psy12199 548 ILACEKCDVKFTHKALLAEHINTKH 572 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H~~~~H 572 (597)
||+|..|++.|.+...|..|++.++
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 5778888888888888888887633
No 36
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=97.34 E-value=0.00012 Score=40.85 Aligned_cols=18 Identities=50% Similarity=0.949 Sum_probs=5.9
Q ss_pred CCcChhccCCcHHHHHHh
Q psy12199 498 CDVCFKEFRSSVTLRNHT 515 (597)
Q Consensus 498 C~~C~~~F~~~~~L~~H~ 515 (597)
|++|++.|.+...|..|+
T Consensus 3 C~~C~~~~~~~~~l~~H~ 20 (24)
T PF13894_consen 3 CPICGKSFRSKSELRQHM 20 (24)
T ss_dssp -SSTS-EESSHHHHHHHH
T ss_pred CcCCCCcCCcHHHHHHHH
Confidence 333333333333333333
No 37
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=97.27 E-value=0.00017 Score=41.63 Aligned_cols=25 Identities=32% Similarity=0.747 Sum_probs=15.0
Q ss_pred ceecccccccccchhhHHHHHHhcc
Q psy12199 468 PYTCEICSKTYTVEGSLLTHYDMHS 492 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~~L~~H~~~H~ 492 (597)
||.|..|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 3566666666666666666665553
No 38
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.91 E-value=0.00022 Score=65.55 Aligned_cols=25 Identities=28% Similarity=0.422 Sum_probs=19.8
Q ss_pred ccceeecCcCccccCChhHHHhhhc
Q psy12199 545 GYKILACEKCDVKFTHKALLAEHIN 569 (597)
Q Consensus 545 ~~k~~~C~~C~~~F~~~~~L~~H~~ 569 (597)
..|||+|++|++.+....-|+-|..
T Consensus 395 ~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 395 KDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCCceeccccchhhccCccceeccc
Confidence 4578888888888888888888864
No 39
>KOG2231|consensus
Probab=96.88 E-value=0.0015 Score=68.11 Aligned_cols=131 Identities=26% Similarity=0.440 Sum_probs=87.6
Q ss_pred ecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceeccccc---------ccccchhhHHHHHHhc
Q psy12199 421 TCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICS---------KTYTVEGSLLTHYDMH 491 (597)
Q Consensus 421 ~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~---------~~f~~~~~L~~H~~~H 491 (597)
.|..| -.|.+...|+.|+...|. .+.|.+|- ...-+...|..|++.-
T Consensus 117 ~~~~c-~~~~s~~~Lk~H~~~~H~-----------------------~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~g 172 (669)
T KOG2231|consen 117 ECLHC-TEFKSVENLKNHMRDQHK-----------------------LHLCSLCLQNLKIFINERKLYTRAELNLHLMFG 172 (669)
T ss_pred CCccc-cchhHHHHHHHHHHHhhh-----------------------hhccccccccceeeeeeeehehHHHHHHHHhcC
Confidence 35555 555588999999987884 35555542 2334667888887653
Q ss_pred cC-c-----cccCCcChhccCCcHHHHHHhhhcCCCCCCcCc------cccCChHHHHHHHHHhhccceeecC--cC-cc
Q psy12199 492 SG-E-----FYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECS------VECQDLNALRMHTLREHGYKILACE--KC-DV 556 (597)
Q Consensus 492 ~~-e-----~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~------~~f~~~~~L~~H~~~h~~~k~~~C~--~C-~~ 556 (597)
.. + --.|..|...|-....|.+|++.++ |.|.+|+ ..|.....|..|.+.+| |.|. .| .+
T Consensus 173 d~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h-~~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE~~~C~~~ 247 (669)
T KOG2231|consen 173 DPDDESCRGHPLCKFCHERFLDDDELYRHLRFDH-EFCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCEEEFCRTK 247 (669)
T ss_pred CCccccccCCccchhhhhhhccHHHHHHhhccce-eheeecCcccccchhcccchHHHHHhhhcC----ccccccccccc
Confidence 22 2 1479999999999999999999876 6677774 45778889999999877 5665 55 23
Q ss_pred ccC----ChhHHHhhhcccCCCCcccccC
Q psy12199 557 KFT----HKALLAEHINTKHNTDVTLKCQ 581 (597)
Q Consensus 557 ~F~----~~~~L~~H~~~~H~~~~~~~C~ 581 (597)
.|. ....|.+|.+ .+..++-|.|.
T Consensus 248 ~f~~~~~~ei~lk~~~~-~~~~e~~~~~~ 275 (669)
T KOG2231|consen 248 KFYVAFELEIELKAHNR-FIQHEKCYICR 275 (669)
T ss_pred eeeehhHHHHHHHhhcc-ccchheeccCC
Confidence 333 3344555543 24445556554
No 40
>KOG2231|consensus
Probab=96.86 E-value=0.0027 Score=66.30 Aligned_cols=24 Identities=29% Similarity=0.567 Sum_probs=15.4
Q ss_pred CCCCcCccCCCCHHHHHHHHHHhc
Q psy12199 365 PVCEPCNLTFKNEWQYLVHNRAVH 388 (597)
Q Consensus 365 ~~C~~C~~~f~~~~~L~~H~~~~H 388 (597)
+.|..|...|-....|..|++..|
T Consensus 183 p~C~~C~~~fld~~el~rH~~~~h 206 (669)
T KOG2231|consen 183 PLCKFCHERFLDDDELYRHLRFDH 206 (669)
T ss_pred ccchhhhhhhccHHHHHHhhccce
Confidence 366667777776667776666433
No 41
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.53 E-value=0.0017 Score=36.82 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=8.5
Q ss_pred CCCcCccccCChHHHHHHHH
Q psy12199 522 SCDECSVECQDLNALRMHTL 541 (597)
Q Consensus 522 ~C~~C~~~f~~~~~L~~H~~ 541 (597)
.|..|++.|.+...|..|++
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCcchhCCHHHHHHHHH
Confidence 34444444444444444443
No 42
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.47 E-value=0.0023 Score=35.59 Aligned_cols=21 Identities=29% Similarity=0.556 Sum_probs=7.6
Q ss_pred CCCcCccccCChHHHHHHHHHh
Q psy12199 522 SCDECSVECQDLNALRMHTLRE 543 (597)
Q Consensus 522 ~C~~C~~~f~~~~~L~~H~~~h 543 (597)
+|+.|++... ...|..|++.|
T Consensus 2 ~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 2 KCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp E-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCcCC-HHHHHHHHHhh
Confidence 3444444433 33444444433
No 43
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.43 E-value=0.0012 Score=36.70 Aligned_cols=24 Identities=25% Similarity=0.582 Sum_probs=19.6
Q ss_pred eecCcCccccCChhHHHhhhcccCC
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHN 573 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~ 573 (597)
|+|+.|++... ...|.+|++.+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 78999999998 9999999998663
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.29 E-value=0.0043 Score=35.05 Aligned_cols=22 Identities=41% Similarity=0.804 Sum_probs=10.7
Q ss_pred cCCcChhccCCcHHHHHHhhhc
Q psy12199 497 QCDVCFKEFRSSVTLRNHTRRH 518 (597)
Q Consensus 497 ~C~~C~~~F~~~~~L~~H~~~H 518 (597)
.|+.|++.|.....|..|++.|
T Consensus 2 ~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 2 RCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCcchhCCHHHHHHHHHHh
Confidence 4445555555555555554433
No 45
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=96.12 E-value=0.0029 Score=41.17 Aligned_cols=25 Identities=20% Similarity=0.396 Sum_probs=8.7
Q ss_pred cccccccccccccCchhhhhhhccc
Q psy12199 216 REYECEICKKKFINKSTLKEHSVSH 240 (597)
Q Consensus 216 k~~~C~~C~~~F~~~~~L~~H~~~H 240 (597)
.|-.|++|+..+....+|++|+.++
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~ 47 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIR 47 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHH
T ss_pred CCCCCCcchhhccchhhHHHHHHHH
Confidence 3444444444444444444444333
No 46
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.02 E-value=0.0042 Score=34.90 Aligned_cols=22 Identities=36% Similarity=0.854 Sum_probs=12.2
Q ss_pred eecccccccccchhhHHHHHHh
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
|.|.+|++.|.+...|..|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 3455555555555555555543
No 47
>PRK04860 hypothetical protein; Provisional
Probab=95.99 E-value=0.0042 Score=53.41 Aligned_cols=37 Identities=19% Similarity=0.544 Sum_probs=22.9
Q ss_pred CCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCC
Q psy12199 520 NFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTH 560 (597)
Q Consensus 520 ~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~ 560 (597)
+|.|. |+. ....++.|.++|+|+++|.|..|+..|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 56665 665 45556666666666666666666666543
No 48
>PRK04860 hypothetical protein; Provisional
Probab=95.98 E-value=0.003 Score=54.29 Aligned_cols=40 Identities=15% Similarity=0.462 Sum_probs=31.2
Q ss_pred ceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeece
Q psy12199 547 KILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIEE 591 (597)
Q Consensus 547 k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~~ 591 (597)
-+|.|. |+. ....+.+|.++ |+++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri-~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRV-VRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHH-hcCCccEECCCCCceeEEec
Confidence 468887 877 77778888887 88888888888888877554
No 49
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.91 E-value=0.0031 Score=41.07 Aligned_cols=24 Identities=17% Similarity=0.398 Sum_probs=8.1
Q ss_pred ceeecCcCccccCChhHHHhhhcc
Q psy12199 547 KILACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 547 k~~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
.|-.|++|+..+.+..+|.+|+..
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~ 46 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEI 46 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHH
T ss_pred CCCCCCcchhhccchhhHHHHHHH
Confidence 334444444444444444444433
No 50
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=95.87 E-value=0.0042 Score=34.91 Aligned_cols=22 Identities=45% Similarity=0.933 Sum_probs=11.7
Q ss_pred ccCCcChhccCCcHHHHHHhhh
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTRR 517 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~~ 517 (597)
|.|++|++.|.+...|+.|++.
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s 22 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRS 22 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTT
T ss_pred CCCCCCCCCcCCHHHHHHHHCc
Confidence 3455555555555555555543
No 51
>KOG2785|consensus
Probab=95.82 E-value=0.016 Score=55.59 Aligned_cols=155 Identities=19% Similarity=0.227 Sum_probs=80.2
Q ss_pred CccCceecccCccccCChhhHHhHhhhccCCCCCCC-C--CCCCCcchhhhh-------cCCCceecccccccccchhhH
Q psy12199 415 QHVKSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKE-P--KSGEGLPALEQL-------LKMKPYTCEICSKTYTVEGSL 484 (597)
Q Consensus 415 ~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~-~--~~~~~~~~~~~~-------~~~k~~~C~~C~~~f~~~~~L 484 (597)
....++.|.+|.+.|.+......|+...-..+.... . .-+. .+...++ .+.+.-.+..+...+......
T Consensus 64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d-~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~ 142 (390)
T KOG2785|consen 64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGD-SAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSS 142 (390)
T ss_pred hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhcccccc-chhhhhccccCccccccCCCcccchhhcccccccc
Confidence 344679999999999999999999874432221111 0 0000 0001111 111111244444444443333
Q ss_pred HHHHHhc------c-C----c--cccCCcChhccCCcHHHHHHhhhcCCCCCCcCccccCChHHHHHHHHHhhccceeec
Q psy12199 485 LTHYDMH------S-G----E--FYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVECQDLNALRMHTLREHGYKILAC 551 (597)
Q Consensus 485 ~~H~~~H------~-~----e--~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C 551 (597)
..+...- . + + |-.|-+|++.|.+...-..||..++.|.=+.=.+ ..+...|..-+..--+ .-|.|
T Consensus 143 ~e~~~dd~~Edi~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreY-L~D~~GLl~YLgeKV~-~~~~C 220 (390)
T KOG2785|consen 143 EEEEEDDEEEDIEEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREY-LTDEKGLLKYLGEKVG-IGFIC 220 (390)
T ss_pred hhhccCcchhhhhhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHh-hhchhHHHHHHHHHhc-cCceE
Confidence 3332211 0 1 1 5678889999998888889988876432221111 1112222222211111 23677
Q ss_pred CcCc---cccCChhHHHhhhcccC
Q psy12199 552 EKCD---VKFTHKALLAEHINTKH 572 (597)
Q Consensus 552 ~~C~---~~F~~~~~L~~H~~~~H 572 (597)
-.|+ +.|.+....+.||..+-
T Consensus 221 L~CN~~~~~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 221 LFCNELGRPFSSLEAVRAHMRDKG 244 (390)
T ss_pred EEeccccCcccccHHHHHHHhhcc
Confidence 7777 77777777777776543
No 52
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.66 E-value=0.028 Score=52.71 Aligned_cols=24 Identities=29% Similarity=0.520 Sum_probs=15.6
Q ss_pred CCCcCccCCCCHHHHHHHHHHhcC
Q psy12199 366 VCEPCNLTFKNEWQYLVHNRAVHE 389 (597)
Q Consensus 366 ~C~~C~~~f~~~~~L~~H~~~~H~ 389 (597)
.|..|...|.+...|..|++..|.
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE 245 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHE 245 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhh
Confidence 566666666666666666665553
No 53
>KOG2482|consensus
Probab=95.34 E-value=0.027 Score=52.87 Aligned_cols=26 Identities=19% Similarity=0.293 Sum_probs=23.7
Q ss_pred eecccCccccCChhhHHhHhhhccCC
Q psy12199 420 VTCSVCEKAFSSKENCKAHYTRQHGN 445 (597)
Q Consensus 420 ~~C~~C~~~f~~~~~L~~H~~~~h~~ 445 (597)
..|-.|.....+...|..||...|.-
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~ 305 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEF 305 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHh
Confidence 68999999999999999999988864
No 54
>KOG2482|consensus
Probab=95.32 E-value=0.028 Score=52.81 Aligned_cols=92 Identities=27% Similarity=0.334 Sum_probs=54.2
Q ss_pred hhhHhHhhhcccCCCCCCCCC--CCCcCccCC-CCHHHHHHHHHHhcCCCCCCCCCCCccccCCCCC--CcccccCccCc
Q psy12199 345 TYLCLHKKLKHSNLTYGGESP--VCEPCNLTF-KNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPYP--PLRKAKQHVKS 419 (597)
Q Consensus 345 ~~L~~H~~~~h~~~~~~~~~~--~C~~C~~~f-~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 419 (597)
..|..+++.. .+..+ +|-.|...+ .+++....|+-.+|......... ..+. -+......-..
T Consensus 129 eaLeqqQ~Er------edt~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDn-------iVyvnelLehLkekL~r 195 (423)
T KOG2482|consen 129 EALEQQQKER------EDTIFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDN-------IVYVNELLEHLKEKLER 195 (423)
T ss_pred HHHHHHHHHh------cCCeeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcc-------eeeHHHHHHHHHHHHhh
Confidence 4566666632 23333 788887765 46677788887777643321110 0000 01122222346
Q ss_pred eecccCccccCChhhHHhHhhhc-cCCCCCC
Q psy12199 420 VTCSVCEKAFSSKENCKAHYTRQ-HGNKEPK 449 (597)
Q Consensus 420 ~~C~~C~~~f~~~~~L~~H~~~~-h~~~~~~ 449 (597)
+.|-.|.+.|..+..|+.||+.. |..-.|.
T Consensus 196 ~~CLyCekifrdkntLkeHMrkK~HrrinPk 226 (423)
T KOG2482|consen 196 LRCLYCEKIFRDKNTLKEHMRKKRHRRINPK 226 (423)
T ss_pred heeeeeccccCCcHHHHHHHHhccCcccCCC
Confidence 89999999999999999999854 4333333
No 55
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.30 E-value=0.0085 Score=34.35 Aligned_cols=22 Identities=36% Similarity=0.774 Sum_probs=14.7
Q ss_pred cccccccccccCchhhhhhhcc
Q psy12199 218 YECEICKKKFINKSTLKEHSVS 239 (597)
Q Consensus 218 ~~C~~C~~~F~~~~~L~~H~~~ 239 (597)
|.|.+|++.|.+...|..|+++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 5566777777777777766654
No 56
>KOG2785|consensus
Probab=95.24 E-value=0.038 Score=53.13 Aligned_cols=73 Identities=19% Similarity=0.289 Sum_probs=47.0
Q ss_pred CceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhc--CCCceeccccc---ccccchhhHHHHHHh
Q psy12199 418 KSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLL--KMKPYTCEICS---KTYTVEGSLLTHYDM 490 (597)
Q Consensus 418 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~--~~k~~~C~~C~---~~f~~~~~L~~H~~~ 490 (597)
.|-.|-.|++.+.+-..-..||..+|+---|........-.....|. -..-+.|-.|. +.|.+....+.||+.
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 46789999999999999999999889764443221111111111110 12346677777 778888888888753
No 57
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=95.02 E-value=0.015 Score=33.32 Aligned_cols=22 Identities=27% Similarity=0.753 Sum_probs=18.0
Q ss_pred eecCcCccccCChhHHHhhhcc
Q psy12199 549 LACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
|-|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6788888888888888888865
No 58
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.83 E-value=0.045 Score=51.40 Aligned_cols=140 Identities=27% Similarity=0.459 Sum_probs=79.7
Q ss_pred ccccCC--CCccCCCChhhHHHHhhccCCCccccccccc---cccc------CchhhhhhhccccccCcc----ccCccc
Q psy12199 188 QLKCTI--CNKENFKNQLSLSIHMRYHENVREYECEICK---KKFI------NKSTLKEHSVSHMSVKPF----KCEICG 252 (597)
Q Consensus 188 ~~~C~~--C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~---~~F~------~~~~L~~H~~~H~~~~~~----~C~~C~ 252 (597)
.|.|+. |.. +......|..|.+..++ .+-|.+|- +.|. +...|..|...-..+..| .|..|.
T Consensus 151 ~F~CP~skc~~-~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC~ 227 (493)
T COG5236 151 SFKCPKSKCHR-RCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCK 227 (493)
T ss_pred HhcCCchhhhh-hhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhcc
Confidence 356643 554 45556677778776443 26676663 2333 455566665443222223 488888
Q ss_pred hhhhchHHHHHHHHhhcccccCCcccCCcccccc----ccCCCCchHHHHhhhhhccCccccccccchhhhhcccccccc
Q psy12199 253 HYLSRASRLRAHLKAHSVVASNNKVQNCKKCFKC----CQVFPSNEENLRKHFEKVHFDLEFDEAHFYDVVLKCVYRFRI 328 (597)
Q Consensus 253 ~~f~~~~~L~~H~~~H~~~~~~~~~~~C~~C~~c----~~~f~~~~~~l~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 328 (597)
..|.....|..|++.-+ + .|..|... .+.|.+ ...|..|.+..|
T Consensus 228 ~~FYdDDEL~~HcR~~H-----E---~ChICD~v~p~~~QYFK~-Y~~Le~HF~~~h----------------------- 275 (493)
T COG5236 228 IYFYDDDELRRHCRLRH-----E---ACHICDMVGPIRYQYFKS-YEDLEAHFRNAH----------------------- 275 (493)
T ss_pred ceecChHHHHHHHHhhh-----h---hhhhhhccCccchhhhhC-HHHHHHHhhcCc-----------------------
Confidence 88888888888887643 2 34444222 234444 667777776665
Q ss_pred cCeeecCC--Cc----ccccchhhhHhHhhhcccCCCCCCCCC
Q psy12199 329 VQYFLCEL--CD----KTSIHYTYLCLHKKLKHSNLTYGGESP 365 (597)
Q Consensus 329 ~~~~~C~~--C~----~~f~~~~~L~~H~~~~h~~~~~~~~~~ 365 (597)
|.|.+ |- .+|.....|..|+...|+....+.+.+
T Consensus 276 ---y~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~~~~~~~~ 315 (493)
T COG5236 276 ---YCCTFQTCRVGKCYVFPYHTELLEHLTRFHKVNARLSEIP 315 (493)
T ss_pred ---eEEEEEEEecCcEEEeccHHHHHHHHHHHhhcccccCcCC
Confidence 33321 21 456667777777776666554444444
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.63 E-value=0.085 Score=29.47 Aligned_cols=21 Identities=24% Similarity=0.613 Sum_probs=14.8
Q ss_pred eecccccccccchhhHHHHHHh
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577788877 66777777653
No 60
>KOG2893|consensus
Probab=92.51 E-value=0.049 Score=48.30 Aligned_cols=46 Identities=30% Similarity=0.647 Sum_probs=34.6
Q ss_pred ccCCCCccCCCChhhHHHHhhccCCCcccccccccccccCchhhhhh-hccc
Q psy12199 190 KCTICNKENFKNQLSLSIHMRYHENVREYECEICKKKFINKSTLKEH-SVSH 240 (597)
Q Consensus 190 ~C~~C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~~~F~~~~~L~~H-~~~H 240 (597)
-|.+|++ .|.+..-|.+|++.- -|+|.+|.+...+--.|..| |++|
T Consensus 12 wcwycnr-efddekiliqhqkak----hfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 12 WCWYCNR-EFDDEKILIQHQKAK----HFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred eeeeccc-ccchhhhhhhhhhhc----cceeeeehhhhccCCCceeehhhhh
Confidence 3888888 588888888887653 38888888877777777777 5555
No 61
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=92.10 E-value=0.11 Score=28.96 Aligned_cols=21 Identities=24% Similarity=0.626 Sum_probs=14.4
Q ss_pred ccCCcChhccCCcHHHHHHhhh
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTRR 517 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~~ 517 (597)
..|+.||+.| ..+.|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3577777777 56677777653
No 62
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=92.02 E-value=0.064 Score=55.96 Aligned_cols=62 Identities=31% Similarity=0.624 Sum_probs=40.7
Q ss_pred ccccCCCCccCCCChhhHHHHhh--ccCCC--cccccc--cccccccCchhhhhhhccccccCccccCc
Q psy12199 188 QLKCTICNKENFKNQLSLSIHMR--YHENV--REYECE--ICKKKFINKSTLKEHSVSHMSVKPFKCEI 250 (597)
Q Consensus 188 ~~~C~~C~k~~f~~~~~L~~H~~--~H~~~--k~~~C~--~C~~~F~~~~~L~~H~~~H~~~~~~~C~~ 250 (597)
++.|..|.. .|.....|..|.+ .|.++ +++.|+ .|++.|.+...+..|...|.+..++.+..
T Consensus 289 ~~~~~~~~~-~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (467)
T COG5048 289 PIKSKQCNI-SFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKL 356 (467)
T ss_pred CCCCccccC-CccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCcccccc
Confidence 566666666 5666666666666 56666 666666 56666666666666666666666655543
No 63
>KOG4173|consensus
Probab=91.96 E-value=0.079 Score=45.98 Aligned_cols=49 Identities=20% Similarity=0.588 Sum_probs=36.3
Q ss_pred Cceeccc--ccccccchhhHHHHHHhccCccccCCcChhccCCcHHHHHHhhh
Q psy12199 467 KPYTCEI--CSKTYTVEGSLLTHYDMHSGEFYQCDVCFKEFRSSVTLRNHTRR 517 (597)
Q Consensus 467 k~~~C~~--C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~F~~~~~L~~H~~~ 517 (597)
..|.|.+ |...|........|..+-++ -.|.+|.+.|.+...|..|+..
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~--~sCs~C~r~~Pt~hLLd~HI~E 128 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHG--NSCSFCKRAFPTGHLLDAHILE 128 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhccc--chhHHHHHhCCchhhhhHHHHH
Confidence 4577877 77888888888888755443 2688888888888888888643
No 64
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.39 E-value=0.081 Score=55.20 Aligned_cols=138 Identities=24% Similarity=0.405 Sum_probs=99.9
Q ss_pred CCCCCCccCccCCCchhhHhhhh--hccCC--CCCCCCCccccC--hhhhhHHHHHHHHHHhhhhhcccCCCccccCCC-
Q psy12199 122 KIPRCEECDINFPSKMRHTFHLQ--HHLED--PDLPVNFMHECR--ECGSQFADILKHSLETHLSFIHVQDNQLKCTIC- 194 (597)
Q Consensus 122 k~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~~~~~~~C~--~C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C- 194 (597)
.++.|..|...|.....|..|.+ .|.++ .+ +.|+ .|++.|. ....+..|.. .|.+..++.+..-
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~------~~~p~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~ 358 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKP------FSCPYSLCGKLFS--RNDALKRHIL-LHTSISPAKEKLLN 358 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCc------eeeeccCCCcccc--ccccccCCcc-cccCCCcccccccc
Confidence 47899999999999999999999 78888 66 8899 7999998 6778888887 8888777776543
Q ss_pred -CccCCCChhh-----HHHHhhccCCCccccccc--ccccccCchhhhhhhccccccC--ccccCccchhhhchHHHHHH
Q psy12199 195 -NKENFKNQLS-----LSIHMRYHENVREYECEI--CKKKFINKSTLKEHSVSHMSVK--PFKCEICGHYLSRASRLRAH 264 (597)
Q Consensus 195 -~k~~f~~~~~-----L~~H~~~H~~~k~~~C~~--C~~~F~~~~~L~~H~~~H~~~~--~~~C~~C~~~f~~~~~L~~H 264 (597)
.+ .+..... .......-.....+.+.. |...+.....+..|...|.... .+.+..|.+.|.....+..|
T Consensus 359 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 (467)
T COG5048 359 SSS-KFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPH 437 (467)
T ss_pred Ccc-ccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccc
Confidence 22 1222111 111111122334455543 7788888888888888777665 46778899999999999999
Q ss_pred HHhhc
Q psy12199 265 LKAHS 269 (597)
Q Consensus 265 ~~~H~ 269 (597)
++.|.
T Consensus 438 ~~~~~ 442 (467)
T COG5048 438 KKIHT 442 (467)
T ss_pred ccccc
Confidence 88876
No 65
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=90.59 E-value=0.18 Score=30.81 Aligned_cols=23 Identities=30% Similarity=0.564 Sum_probs=17.2
Q ss_pred ceecccccccccchhhHHHHHHh
Q psy12199 468 PYTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
+|.|++|+..|.+...+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888877777777653
No 66
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=90.57 E-value=0.18 Score=30.85 Aligned_cols=23 Identities=26% Similarity=0.603 Sum_probs=18.8
Q ss_pred eeecCcCccccCChhHHHhhhcc
Q psy12199 548 ILACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
+|.|.+|+..|.....+..|+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 57788888888888888888764
No 67
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=89.80 E-value=0.18 Score=30.44 Aligned_cols=9 Identities=44% Similarity=1.527 Sum_probs=4.4
Q ss_pred CccccCccc
Q psy12199 244 KPFKCEICG 252 (597)
Q Consensus 244 ~~~~C~~C~ 252 (597)
.++.|++||
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 344555554
No 68
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=89.73 E-value=0.22 Score=30.02 Aligned_cols=10 Identities=20% Similarity=0.763 Sum_probs=5.8
Q ss_pred cccccCCCCc
Q psy12199 576 VTLKCQLCNV 585 (597)
Q Consensus 576 ~~~~C~~C~~ 585 (597)
.|+.|+.||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 4556666654
No 69
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.15 E-value=0.14 Score=33.99 Aligned_cols=30 Identities=27% Similarity=0.660 Sum_probs=25.7
Q ss_pred hccceeecCcCccccCChhHHHhhhcccCC
Q psy12199 544 HGYKILACEKCDVKFTHKALLAEHINTKHN 573 (597)
Q Consensus 544 ~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~ 573 (597)
-||-.++|+.|+..|....++.+|+...|.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 477789999999999999999999987674
No 70
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=88.85 E-value=2 Score=34.58 Aligned_cols=27 Identities=26% Similarity=0.621 Sum_probs=24.5
Q ss_pred Cceec----ccCccccCChhhHHhHhhhccC
Q psy12199 418 KSVTC----SVCEKAFSSKENCKAHYTRQHG 444 (597)
Q Consensus 418 ~~~~C----~~C~~~f~~~~~L~~H~~~~h~ 444 (597)
..|.| ..|++.+.+...|..|++..|+
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 45999 9999999999999999998874
No 71
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.45 E-value=1.2 Score=35.81 Aligned_cols=27 Identities=15% Similarity=0.255 Sum_probs=20.5
Q ss_pred cCeeec----CCCcccccchhhhHhHhhhcc
Q psy12199 329 VQYFLC----ELCDKTSIHYTYLCLHKKLKH 355 (597)
Q Consensus 329 ~~~~~C----~~C~~~f~~~~~L~~H~~~~h 355 (597)
...|.| ..|++.+.+...+..|++.+|
T Consensus 78 ~~G~~C~~~~~~C~y~~~~~~~m~~H~~~~H 108 (109)
T PF12013_consen 78 YDGYRCQCDPPHCGYITRSKKTMRKHWRKEH 108 (109)
T ss_pred CCCeeeecCCCCCCcEeccHHHHHHHHHHhc
Confidence 355888 888888888888888887655
No 72
>KOG4173|consensus
Probab=86.75 E-value=0.3 Score=42.53 Aligned_cols=78 Identities=31% Similarity=0.707 Sum_probs=63.6
Q ss_pred Cceeccc--CccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHHHHh-c---
Q psy12199 418 KSVTCSV--CEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHYDM-H--- 491 (597)
Q Consensus 418 ~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~-H--- 491 (597)
..+.|++ |...|.+......|+...|++ .|.+|.+.|.+..-|..|+.. |
T Consensus 78 ~~~~cqvagc~~~~d~lD~~E~hY~~~h~~------------------------sCs~C~r~~Pt~hLLd~HI~E~HDs~ 133 (253)
T KOG4173|consen 78 PAFACQVAGCCQVFDALDDYEHHYHTLHGN------------------------SCSFCKRAFPTGHLLDAHILEWHDSL 133 (253)
T ss_pred ccccccccchHHHHhhhhhHHHhhhhcccc------------------------hhHHHHHhCCchhhhhHHHHHHHHHH
Confidence 4578886 788999999999998878875 599999999999999999754 2
Q ss_pred ------cCc-cccCCc--ChhccCCcHHHHHHhhhcC
Q psy12199 492 ------SGE-FYQCDV--CFKEFRSSVTLRNHTRRHD 519 (597)
Q Consensus 492 ------~~e-~y~C~~--C~~~F~~~~~L~~H~~~H~ 519 (597)
.|. .|+|-+ |+..|.+...-..|+-.-+
T Consensus 134 Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 134 FQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 234 699965 9999999999999975533
No 73
>KOG2893|consensus
Probab=86.42 E-value=0.3 Score=43.54 Aligned_cols=51 Identities=29% Similarity=0.563 Sum_probs=34.1
Q ss_pred CCCCCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCCCCCCcccccCccCceecccCccccCChhhHHhHhhhc
Q psy12199 363 ESPVCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPYPPLRKAKQHVKSVTCSVCEKAFSSKENCKAHYTRQ 442 (597)
Q Consensus 363 ~~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~ 442 (597)
.++.|-+|++.|.....|.+|++. +-|+|.+|.+...+--.|..|-..+
T Consensus 9 ~kpwcwycnrefddekiliqhqka-------------------------------khfkchichkkl~sgpglsihcmqv 57 (341)
T KOG2893|consen 9 DKPWCWYCNREFDDEKILIQHQKA-------------------------------KHFKCHICHKKLFSGPGLSIHCMQV 57 (341)
T ss_pred CCceeeecccccchhhhhhhhhhh-------------------------------ccceeeeehhhhccCCCceeehhhh
Confidence 344677777777777777777764 3477777777766666666665545
Q ss_pred cC
Q psy12199 443 HG 444 (597)
Q Consensus 443 h~ 444 (597)
|.
T Consensus 58 hk 59 (341)
T KOG2893|consen 58 HK 59 (341)
T ss_pred hh
Confidence 53
No 74
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.33 E-value=1.1 Score=35.53 Aligned_cols=49 Identities=14% Similarity=0.276 Sum_probs=29.6
Q ss_pred ccccccccccCchhhhhhhccccccCccccCccchhhhchHHHHHHHHhhc
Q psy12199 219 ECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKAHS 269 (597)
Q Consensus 219 ~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 269 (597)
.|--|+..|........=. -.....|.|+.|...|-..-++-.|...|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~--~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDE--LKDSHRYVCAVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred cccCcCCCCCCcccccccc--cccccceeCCCCCCccccccchhhhhhccC
Confidence 3777888776543211000 112335888888888877777777776663
No 75
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.90 E-value=3.5 Score=32.85 Aligned_cols=94 Identities=20% Similarity=0.412 Sum_probs=52.0
Q ss_pred CCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccccCCCCCCcccccCccCceecccCccccCChhhHHhHhhhccCC
Q psy12199 366 VCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVLQNNPYPPLRKAKQHVKSVTCSVCEKAFSSKENCKAHYTRQHGN 445 (597)
Q Consensus 366 ~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~h~~ 445 (597)
.|+.||.+..+...|.+-. +|..+..+- ..+... .......|--|...|....... .+
T Consensus 17 ~CpiCgLtLVss~HLARSy--HHLfPl~~f------------~ev~~~-~~~~~~~C~~C~~~f~~~~~~~-------~~ 74 (112)
T TIGR00622 17 ECPICGLTLILSTHLARSY--HHLFPLKAF------------QEIPLE-EYNGSRFCFGCQGPFPKPPVSP-------FD 74 (112)
T ss_pred cCCcCCCEEeccchHHHhh--hccCCCccc------------cccccc-ccCCCCcccCcCCCCCCccccc-------cc
Confidence 8999999998888887753 343222111 000000 0112234888888886543111 00
Q ss_pred CCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHHHHhccCccccCCcCh
Q psy12199 446 KEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCF 502 (597)
Q Consensus 446 ~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~ 502 (597)
+ +.....|+|+.|...|=..-++-.|...|. |+-|.
T Consensus 75 ~----------------~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~-----CPGC~ 110 (112)
T TIGR00622 75 E----------------LKDSHRYVCAVCKNVFCVDCDVFVHESLHC-----CPGCI 110 (112)
T ss_pred c----------------cccccceeCCCCCCccccccchhhhhhccC-----CcCCC
Confidence 0 011146888888888877777777766664 66554
No 76
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=80.11 E-value=1.2 Score=26.99 Aligned_cols=10 Identities=30% Similarity=0.889 Sum_probs=6.0
Q ss_pred cccccCCCCc
Q psy12199 576 VTLKCQLCNV 585 (597)
Q Consensus 576 ~~~~C~~C~~ 585 (597)
.|..|+.||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4556666665
No 77
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=79.63 E-value=0.66 Score=42.55 Aligned_cols=43 Identities=23% Similarity=0.509 Sum_probs=27.1
Q ss_pred cccccccccccccCchhhhhhhcc---c-------cccCc-----cccCccchhhhch
Q psy12199 216 REYECEICKKKFINKSTLKEHSVS---H-------MSVKP-----FKCEICGHYLSRA 258 (597)
Q Consensus 216 k~~~C~~C~~~F~~~~~L~~H~~~---H-------~~~~~-----~~C~~C~~~f~~~ 258 (597)
+.+.||+|+..|.+..-+....+. . .+..| ..|+.||++|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 557788888888776665555443 1 12222 4799999887644
No 78
>PHA00626 hypothetical protein
Probab=79.47 E-value=0.72 Score=30.93 Aligned_cols=12 Identities=17% Similarity=0.379 Sum_probs=6.3
Q ss_pred eeecCcCccccC
Q psy12199 548 ILACEKCDVKFT 559 (597)
Q Consensus 548 ~~~C~~C~~~F~ 559 (597)
.|+|+.||+.|+
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 355555555554
No 79
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=78.96 E-value=1.5 Score=29.26 Aligned_cols=29 Identities=17% Similarity=0.391 Sum_probs=24.9
Q ss_pred cccccCccccCccchhhhchHHHHHHHHh
Q psy12199 239 SHMSVKPFKCEICGHYLSRASRLRAHLKA 267 (597)
Q Consensus 239 ~H~~~~~~~C~~C~~~f~~~~~L~~H~~~ 267 (597)
+-.||.-+.|+-||..|....++.+|...
T Consensus 11 ~RDGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 11 DRDGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred ccCCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 44578889999999999999999999854
No 80
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=78.78 E-value=1.2 Score=32.32 Aligned_cols=43 Identities=14% Similarity=0.254 Sum_probs=23.0
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccC--CCCcceeeceEEE
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQ--LCNVVVLIEEVIF 594 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~--~C~~~f~~~~~l~ 594 (597)
+.|+.||........-...-. ..+.-++|. +||..|.....+.
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~---~~~~Y~qC~N~eCg~tF~t~es~s 46 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT---TKERYHQCQNVNCSATFITYESVQ 46 (72)
T ss_pred ccCCCCCCccEEEEChhcChh---hheeeeecCCCCCCCEEEEEEEEE
Confidence 456777665533332222211 234566777 7777777665554
No 81
>KOG2186|consensus
Probab=78.21 E-value=1.3 Score=40.23 Aligned_cols=47 Identities=26% Similarity=0.636 Sum_probs=39.2
Q ss_pred ceecccccccccchhhHHHHHHhccCccccCCcChhccCCcHHHHHHhh
Q psy12199 468 PYTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKEFRSSVTLRNHTR 516 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~F~~~~~L~~H~~ 516 (597)
-|.|..||.+.. +..|.+|+-.-++.-|.|-.|++.|.. .....|..
T Consensus 3 ~FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 388999999864 567788999888889999999999988 77788864
No 82
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=77.61 E-value=1.3 Score=24.98 Aligned_cols=8 Identities=38% Similarity=0.945 Sum_probs=3.7
Q ss_pred CCcChhcc
Q psy12199 498 CDVCFKEF 505 (597)
Q Consensus 498 C~~C~~~F 505 (597)
|+.||+.|
T Consensus 17 Cp~CG~~F 24 (26)
T PF10571_consen 17 CPHCGYDF 24 (26)
T ss_pred CCCCCCCC
Confidence 44444444
No 83
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=75.80 E-value=2.6 Score=27.34 Aligned_cols=28 Identities=21% Similarity=0.589 Sum_probs=18.7
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccCCCCccee
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVL 588 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~ 588 (597)
|.|..||..|... ...+.+|++||..-.
T Consensus 3 Y~C~~Cg~~~~~~------------~~~~irC~~CG~rIl 30 (44)
T smart00659 3 YICGECGRENEIK------------SKDVVRCRECGYRIL 30 (44)
T ss_pred EECCCCCCEeecC------------CCCceECCCCCceEE
Confidence 7788888777532 234677888887654
No 84
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=73.33 E-value=1.4 Score=40.34 Aligned_cols=58 Identities=22% Similarity=0.369 Sum_probs=31.6
Q ss_pred CceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccch
Q psy12199 418 KSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVE 481 (597)
Q Consensus 418 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~ 481 (597)
+.+.|++|+..|....-.....+...... ...+.-+...+..- ....|+.||.+|...
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~-D~~~~Y~~vnP~~Y-----~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDS-DFCPRYKGVNPLFY-----EVWVCPHCGYAAFEE 61 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecC-CCccccCCCCCeee-----eEEECCCCCCccccc
Confidence 56899999999998776555554322111 11111111000000 235799999887644
No 85
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=73.01 E-value=2.3 Score=33.95 Aligned_cols=13 Identities=15% Similarity=0.393 Sum_probs=6.0
Q ss_pred cccccCCCCccee
Q psy12199 576 VTLKCQLCNVVVL 588 (597)
Q Consensus 576 ~~~~C~~C~~~f~ 588 (597)
.|..|+.||..|.
T Consensus 25 ~PivCP~CG~~~~ 37 (108)
T PF09538_consen 25 DPIVCPKCGTEFP 37 (108)
T ss_pred CCccCCCCCCccC
Confidence 3444555554443
No 86
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.46 E-value=3.2 Score=28.41 Aligned_cols=34 Identities=21% Similarity=0.447 Sum_probs=22.6
Q ss_pred CceecccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceeccccccc
Q psy12199 418 KSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKT 477 (597)
Q Consensus 418 ~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~ 477 (597)
-.|.|+.||..-..+..-=+ .++ .+|.|+.||+.
T Consensus 26 v~F~CPnCGe~~I~Rc~~CR----k~g----------------------~~Y~Cp~CGF~ 59 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKCR----KLG----------------------NPYRCPKCGFE 59 (61)
T ss_pred eEeeCCCCCceeeehhhhHH----HcC----------------------CceECCCcCcc
Confidence 35899999976655433221 232 57999999964
No 87
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.43 E-value=3.1 Score=28.46 Aligned_cols=9 Identities=22% Similarity=0.888 Sum_probs=5.5
Q ss_pred ccccCCCCc
Q psy12199 577 TLKCQLCNV 585 (597)
Q Consensus 577 ~~~C~~C~~ 585 (597)
+|+|+.||.
T Consensus 50 ~Y~Cp~CGF 58 (61)
T COG2888 50 PYRCPKCGF 58 (61)
T ss_pred ceECCCcCc
Confidence 566666664
No 88
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=72.26 E-value=3.3 Score=25.81 Aligned_cols=34 Identities=18% Similarity=0.435 Sum_probs=19.3
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccCCCCccee
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVL 588 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~ 588 (597)
+.|+.|+..|.-...... .......|+.||..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~------~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLG------ANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcC------CCCCEEECCCCCCEEE
Confidence 467777777765544321 1112466777777664
No 89
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=71.64 E-value=2.7 Score=27.38 Aligned_cols=28 Identities=25% Similarity=0.433 Sum_probs=17.2
Q ss_pred ccceeecCcCccccCCh----hHHHhhhcccC
Q psy12199 545 GYKILACEKCDVKFTHK----ALLAEHINTKH 572 (597)
Q Consensus 545 ~~k~~~C~~C~~~F~~~----~~L~~H~~~~H 572 (597)
+....+|.+|++.+... ++|.+|++..|
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~~~h 44 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLKKKH 44 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHHHTT
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhhhhC
Confidence 45567888888888764 78888885545
No 90
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=71.37 E-value=1.5 Score=27.05 Aligned_cols=11 Identities=18% Similarity=0.830 Sum_probs=6.0
Q ss_pred cccChhhhhHH
Q psy12199 158 HECRECGSQFA 168 (597)
Q Consensus 158 ~~C~~C~~~f~ 168 (597)
..|+.|+..|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 44555555554
No 91
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=70.74 E-value=3.9 Score=35.44 Aligned_cols=29 Identities=24% Similarity=0.599 Sum_probs=19.4
Q ss_pred cccCCcChhccCCcHHHHHHhhhcCCCCCCcCccc
Q psy12199 495 FYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVE 529 (597)
Q Consensus 495 ~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~ 529 (597)
-|.|+.|+..|+...++. ..|.|+.||..
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME------LNFTCPRCGAM 137 (158)
T ss_pred eEECCCCCcEeeHHHHHH------cCCcCCCCCCE
Confidence 577777777777666664 25777777754
No 92
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=70.51 E-value=1.5 Score=27.85 Aligned_cols=31 Identities=26% Similarity=0.597 Sum_probs=19.6
Q ss_pred ceecccccccccchhhHHHHHHhccCccccCCcChhc
Q psy12199 468 PYTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKE 504 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~ 504 (597)
.|+|..||..|....... .++.-.|+.||..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~------~~~~~~CP~Cg~~ 35 (41)
T smart00834 5 EYRCEDCGHTFEVLQKIS------DDPLATCPECGGD 35 (41)
T ss_pred EEEcCCCCCEEEEEEecC------CCCCCCCCCCCCc
Confidence 478888888876543321 1345678888763
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=69.51 E-value=2.3 Score=36.74 Aligned_cols=11 Identities=27% Similarity=0.567 Sum_probs=6.0
Q ss_pred ccceeecCcCc
Q psy12199 545 GYKILACEKCD 555 (597)
Q Consensus 545 ~~k~~~C~~C~ 555 (597)
|+-|-+||+||
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 45555555555
No 94
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=68.69 E-value=1.8 Score=28.44 Aligned_cols=11 Identities=27% Similarity=0.908 Sum_probs=6.2
Q ss_pred cccChhhhhHH
Q psy12199 158 HECRECGSQFA 168 (597)
Q Consensus 158 ~~C~~C~~~f~ 168 (597)
|.|+.||..|.
T Consensus 4 y~C~~CG~~~~ 14 (46)
T PRK00398 4 YKCARCGREVE 14 (46)
T ss_pred EECCCCCCEEE
Confidence 55666665543
No 95
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=68.64 E-value=3.1 Score=26.69 Aligned_cols=29 Identities=17% Similarity=0.460 Sum_probs=20.9
Q ss_pred eecCCCcccccchhhhHhHhhhcccCCCCCCCCCCCCcCcc
Q psy12199 332 FLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESPVCEPCNL 372 (597)
Q Consensus 332 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~C~~C~~ 372 (597)
|.|..||..|.....+. ......|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~------------~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSIS------------EDDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEcC------------CCCCCcCCCCCC
Confidence 89999999987654431 123348999997
No 96
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=68.39 E-value=1.9 Score=46.99 Aligned_cols=49 Identities=20% Similarity=0.518 Sum_probs=30.4
Q ss_pred eecccccccccchhhHHHHHHhccCccccCCcChhccCCcHHHHHHhhhcCCCCCCcCccccCChHHHHHHHHHhhccce
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVECQDLNALRMHTLREHGYKI 548 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~ 548 (597)
..|..||..+ +|+.|+.. |..|+.. ....|..||.. ...|
T Consensus 436 l~C~~Cg~v~------------------~Cp~Cd~~------lt~H~~~-~~L~CH~Cg~~---------------~~~p 475 (730)
T COG1198 436 LLCRDCGYIA------------------ECPNCDSP------LTLHKAT-GQLRCHYCGYQ---------------EPIP 475 (730)
T ss_pred eecccCCCcc------------------cCCCCCcc------eEEecCC-CeeEeCCCCCC---------------CCCC
Confidence 4688888764 68878755 3334333 24667777753 4567
Q ss_pred eecCcCccc
Q psy12199 549 LACEKCDVK 557 (597)
Q Consensus 549 ~~C~~C~~~ 557 (597)
..|+.||-.
T Consensus 476 ~~Cp~Cgs~ 484 (730)
T COG1198 476 QSCPECGSE 484 (730)
T ss_pred CCCCCCCCC
Confidence 777777644
No 97
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=67.11 E-value=4.3 Score=32.36 Aligned_cols=14 Identities=21% Similarity=0.797 Sum_probs=7.8
Q ss_pred ceecccCccccCCh
Q psy12199 419 SVTCSVCEKAFSSK 432 (597)
Q Consensus 419 ~~~C~~C~~~f~~~ 432 (597)
|..|+.||..|.-.
T Consensus 26 PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 26 PIVCPKCGTEFPPE 39 (108)
T ss_pred CccCCCCCCccCcc
Confidence 45566666665544
No 98
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=67.07 E-value=5.9 Score=34.32 Aligned_cols=33 Identities=18% Similarity=0.549 Sum_probs=18.1
Q ss_pred ccceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcce
Q psy12199 545 GYKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVV 587 (597)
Q Consensus 545 ~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f 587 (597)
+..-|.|+.|+..|+....+. .-|.|+.||...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~----------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME----------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH----------cCCcCCCCCCEe
Confidence 334466666666666555553 136666666543
No 99
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=66.73 E-value=3 Score=36.91 Aligned_cols=17 Identities=24% Similarity=0.663 Sum_probs=7.9
Q ss_pred cccCCcChhccCCcHHH
Q psy12199 495 FYQCDVCFKEFRSSVTL 511 (597)
Q Consensus 495 ~y~C~~C~~~F~~~~~L 511 (597)
-|.|+.|+..|+...++
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 34454454444444443
No 100
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=66.52 E-value=4.2 Score=35.16 Aligned_cols=24 Identities=38% Similarity=0.966 Sum_probs=18.6
Q ss_pred eeecCCCcccccchhhhHhHhhhcccCCCCCCCCC-CCCcCccC
Q psy12199 331 YFLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESP-VCEPCNLT 373 (597)
Q Consensus 331 ~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~-~C~~C~~~ 373 (597)
.|.|.+||+.+ .++.| +||+||-.
T Consensus 134 ~~vC~vCGy~~-------------------~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTH-------------------EGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcc-------------------cCCCCCcCCCCCCh
Confidence 69999999853 34666 99999943
No 101
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=66.33 E-value=4.9 Score=34.41 Aligned_cols=37 Identities=14% Similarity=0.449 Sum_probs=17.4
Q ss_pred CCccccCCCCccCCCChhhHHHHhhccCCCcccccccccccc
Q psy12199 186 DNQLKCTICNKENFKNQLSLSIHMRYHENVREYECEICKKKF 227 (597)
Q Consensus 186 ~~~~~C~~C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~~~F 227 (597)
...|.|+.|+. .|.....+.. . .. ...|.|+.||...
T Consensus 97 ~~~Y~Cp~C~~-~y~~~ea~~~-~--d~-~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQS-KYTFLEANQL-L--DM-DGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCC-EeeHHHHHHh-c--CC-CCcEECCCCCCEE
Confidence 34566666666 4554332221 0 01 2226666666543
No 102
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=65.90 E-value=1.3 Score=37.80 Aligned_cols=11 Identities=36% Similarity=0.733 Sum_probs=4.5
Q ss_pred ccCCcChhccC
Q psy12199 496 YQCDVCFKEFR 506 (597)
Q Consensus 496 y~C~~C~~~F~ 506 (597)
|+|+.||++|.
T Consensus 29 ~~c~~c~~~f~ 39 (154)
T PRK00464 29 RECLACGKRFT 39 (154)
T ss_pred eeccccCCcce
Confidence 33444444443
No 103
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=65.81 E-value=2.5 Score=28.63 Aligned_cols=11 Identities=36% Similarity=1.114 Sum_probs=5.2
Q ss_pred ccccccccccc
Q psy12199 218 YECEICKKKFI 228 (597)
Q Consensus 218 ~~C~~C~~~F~ 228 (597)
|.|..||..|.
T Consensus 6 y~C~~Cg~~fe 16 (52)
T TIGR02605 6 YRCTACGHRFE 16 (52)
T ss_pred EEeCCCCCEeE
Confidence 44444444444
No 104
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=65.57 E-value=2.2 Score=26.50 Aligned_cols=11 Identities=27% Similarity=0.881 Sum_probs=6.1
Q ss_pred cccChhhhhHH
Q psy12199 158 HECRECGSQFA 168 (597)
Q Consensus 158 ~~C~~C~~~f~ 168 (597)
..|+.|+..|.
T Consensus 3 i~CP~C~~~f~ 13 (37)
T PF13719_consen 3 ITCPNCQTRFR 13 (37)
T ss_pred EECCCCCceEE
Confidence 45566665554
No 105
>KOG2186|consensus
Probab=65.19 E-value=3.6 Score=37.52 Aligned_cols=44 Identities=25% Similarity=0.584 Sum_probs=20.8
Q ss_pred ccCCcChhccCCcHHHHHHhhhcC--CCCCCcCccccCChHHHHHHHH
Q psy12199 496 YQCDVCFKEFRSSVTLRNHTRRHD--NFSCDECSVECQDLNALRMHTL 541 (597)
Q Consensus 496 y~C~~C~~~F~~~~~L~~H~~~H~--~~~C~~C~~~f~~~~~L~~H~~ 541 (597)
|.|..||.+-. +..|.+|+-+-+ .|.|-.|++.|.. .....|..
T Consensus 4 FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 45555655543 233444544433 3555555555554 44444443
No 106
>PF12907 zf-met2: Zinc-binding
Probab=63.56 E-value=3.8 Score=25.84 Aligned_cols=32 Identities=28% Similarity=0.646 Sum_probs=22.0
Q ss_pred eecCcCccccC---ChhHHHhhhcccCCCCccccc
Q psy12199 549 LACEKCDVKFT---HKALLAEHINTKHNTDVTLKC 580 (597)
Q Consensus 549 ~~C~~C~~~F~---~~~~L~~H~~~~H~~~~~~~C 580 (597)
+.|.+|..+|. +...|..|...+|....+-.|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~~~~~C 36 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKNTFEEC 36 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCCCHHHc
Confidence 57888886663 456688888887876544444
No 107
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=62.91 E-value=3.8 Score=37.46 Aligned_cols=88 Identities=20% Similarity=0.436 Sum_probs=51.0
Q ss_pred CceecccccccccchhhHHHHHHhc---cCccccCCcChhccCCcHHHHHHhhhcCCCCCCcCccccCChHHHHHHHHHh
Q psy12199 467 KPYTCEICSKTYTVEGSLLTHYDMH---SGEFYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECSVECQDLNALRMHTLRE 543 (597)
Q Consensus 467 k~~~C~~C~~~f~~~~~L~~H~~~H---~~e~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h 543 (597)
+.|+|.+|.. |.-...--.|+..- ..+.|+|.-|++. ..|.|-.|.-.|-.-...+.=.+.-
T Consensus 141 rif~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrl--------------Gq~sCLRCK~cfCddHvrrKg~ky~ 205 (314)
T PF06524_consen 141 RIFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCNRL--------------GQYSCLRCKICFCDDHVRRKGFKYE 205 (314)
T ss_pred eEEEeecCCC-eeeccchhhhhhhhhhhhcccccccccccc--------------cchhhhheeeeehhhhhhhcccccc
Confidence 6788998875 34444445666443 3347888888753 2344555544443322221111111
Q ss_pred hccceeecCcCccccCChhHHHhhhcc
Q psy12199 544 HGYKILACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 544 ~~~k~~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
..+|+.|+.|++....-..|..-.|+
T Consensus 206 -k~k~~PCPKCg~et~eTkdLSmStR~ 231 (314)
T PF06524_consen 206 -KGKPIPCPKCGYETQETKDLSMSTRS 231 (314)
T ss_pred -cCCCCCCCCCCCcccccccceeeeec
Confidence 23678888888888777777766665
No 108
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=62.36 E-value=5.9 Score=36.29 Aligned_cols=95 Identities=16% Similarity=0.408 Sum_probs=60.1
Q ss_pred eecccccccccchhhHHHHHHhccCccccCCcChhccCCcHHHHHHhhhc-----CCCCCCcCccccCChHHHHHHHHHh
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKEFRSSVTLRNHTRRH-----DNFSCDECSVECQDLNALRMHTLRE 543 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~F~~~~~L~~H~~~H-----~~~~C~~C~~~f~~~~~L~~H~~~h 543 (597)
-.|-+|.+... .|.|..|+|.+|+.- --...--.|+..- ..|+|.-|.+.
T Consensus 126 a~C~EC~R~vw----------~hGGrif~CsfC~~f-lCEDDQFEHQAsCQvLe~E~~KC~SCNrl-------------- 180 (314)
T PF06524_consen 126 AVCIECERGVW----------DHGGRIFKCSFCDNF-LCEDDQFEHQASCQVLESETFKCQSCNRL-------------- 180 (314)
T ss_pred cEeeeeecccc----------cCCCeEEEeecCCCe-eeccchhhhhhhhhhhhcccccccccccc--------------
Confidence 46777877532 367779999999753 3333334565443 27999999864
Q ss_pred hccceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeeceEE
Q psy12199 544 HGYKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIEEVI 593 (597)
Q Consensus 544 ~~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~~~l 593 (597)
-.|.|..|...|-.-....+=++. ...+|+.|+.||+-...-..|
T Consensus 181 ---Gq~sCLRCK~cfCddHvrrKg~ky--~k~k~~PCPKCg~et~eTkdL 225 (314)
T PF06524_consen 181 ---GQYSCLRCKICFCDDHVRRKGFKY--EKGKPIPCPKCGYETQETKDL 225 (314)
T ss_pred ---cchhhhheeeeehhhhhhhccccc--ccCCCCCCCCCCCcccccccc
Confidence 347788888888643333333222 234789999999877644433
No 109
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=61.94 E-value=2.9 Score=35.78 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=7.6
Q ss_pred cccccccccccCchh
Q psy12199 218 YECEICKKKFINKST 232 (597)
Q Consensus 218 ~~C~~C~~~F~~~~~ 232 (597)
++|+.||++|.+...
T Consensus 29 ~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 29 RECLACGKRFTTFER 43 (154)
T ss_pred eeccccCCcceEeEe
Confidence 555555555554433
No 110
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=61.54 E-value=7.1 Score=23.32 Aligned_cols=29 Identities=17% Similarity=0.613 Sum_probs=16.3
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceee
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLI 589 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~ 589 (597)
|.|..|+..+. +. ...+.+|++||..-..
T Consensus 1 Y~C~~Cg~~~~--------~~----~~~~irC~~CG~RIly 29 (32)
T PF03604_consen 1 YICGECGAEVE--------LK----PGDPIRCPECGHRILY 29 (32)
T ss_dssp EBESSSSSSE---------BS----TSSTSSBSSSS-SEEB
T ss_pred CCCCcCCCeeE--------cC----CCCcEECCcCCCeEEE
Confidence 56777777664 11 1335678888865443
No 111
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=60.59 E-value=6.7 Score=25.99 Aligned_cols=31 Identities=16% Similarity=0.537 Sum_probs=17.6
Q ss_pred ceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCccee
Q psy12199 547 KILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVL 588 (597)
Q Consensus 547 k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~ 588 (597)
..|.|..||+.|. . -.......|+.||..-.
T Consensus 5 ~~Y~C~~Cg~~~~----------~-~~~~~~irCp~Cg~rIl 35 (49)
T COG1996 5 MEYKCARCGREVE----------L-DQETRGIRCPYCGSRIL 35 (49)
T ss_pred EEEEhhhcCCeee----------h-hhccCceeCCCCCcEEE
Confidence 3577777777771 0 11234567777776543
No 112
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=60.26 E-value=6.6 Score=29.89 Aligned_cols=35 Identities=17% Similarity=0.470 Sum_probs=18.7
Q ss_pred hhhcCCCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccC
Q psy12199 515 TRRHDNFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFT 559 (597)
Q Consensus 515 ~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~ 559 (597)
...|..|.|++|++.-..+ .+.-.+.|..|++.|.
T Consensus 31 ~~q~a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~A 65 (90)
T PTZ00255 31 ISQHAKYFCPFCGKHAVKR----------QAVGIWRCKGCKKTVA 65 (90)
T ss_pred HHHhCCccCCCCCCCceee----------eeeEEEEcCCCCCEEe
Confidence 4445566777776431111 1234567777777664
No 113
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=59.72 E-value=8.5 Score=34.06 Aligned_cols=17 Identities=24% Similarity=0.817 Sum_probs=8.0
Q ss_pred eeecCcCccccCChhHH
Q psy12199 548 ILACEKCDVKFTHKALL 564 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L 564 (597)
-|.|+.|+..|+....+
T Consensus 117 ~Y~Cp~C~~rytf~eA~ 133 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAM 133 (178)
T ss_pred EEECCCCCcEEeHHHHh
Confidence 34555555444444443
No 114
>KOG1280|consensus
Probab=59.30 E-value=2.2 Score=40.81 Aligned_cols=61 Identities=21% Similarity=0.196 Sum_probs=41.8
Q ss_pred cCceecccCccccCChhhHHhHhhhccCCCCCCC--CCCCCCcchhhhhcCCCceecccccccccchhhHHHHH
Q psy12199 417 VKSVTCSVCEKAFSSKENCKAHYTRQHGNKEPKE--PKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTHY 488 (597)
Q Consensus 417 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~--~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H~ 488 (597)
...|.|++|++.=.+...|..|....|....+.. +.|+. .++.|+.|++--.....++.|.
T Consensus 77 ~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~~-----------~~~~qp~~~~~~~~~~~~~~~~ 139 (381)
T KOG1280|consen 77 PQSFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCAA-----------NPEMQPIHSKETENLSVHWTEI 139 (381)
T ss_pred cccccCCcccccccchhHHHHHhhhcCcccCcceeeecccc-----------CcccCchhhhhhhhhhhhhhhh
Confidence 3579999999999999999999998887754322 33332 4566666666555544444443
No 115
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=58.61 E-value=14 Score=31.54 Aligned_cols=39 Identities=21% Similarity=0.388 Sum_probs=21.0
Q ss_pred ccceeecCcCccccCChhHHHhhhcccCCCCcccccCCCCccee
Q psy12199 545 GYKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVL 588 (597)
Q Consensus 545 ~~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~ 588 (597)
+..-|.|+.|+..|+....+.. . .. ..-|.|+.||....
T Consensus 96 ~~~~Y~Cp~C~~~y~~~ea~~~-~---d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 96 NNAYYKCPNCQSKYTFLEANQL-L---DM-DGTFTCPRCGEELE 134 (147)
T ss_pred CCcEEECcCCCCEeeHHHHHHh-c---CC-CCcEECCCCCCEEE
Confidence 3345777777777765443322 0 11 22277777776553
No 116
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=58.50 E-value=3.9 Score=23.94 Aligned_cols=25 Identities=36% Similarity=0.879 Sum_probs=10.4
Q ss_pred ecccccccccchhhHHHHHHhccCccccCCcChhc
Q psy12199 470 TCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKE 504 (597)
Q Consensus 470 ~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~ 504 (597)
+|+.|+-.+.. +.+..|.|+.|+..
T Consensus 4 ~Cp~C~se~~y----------~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTY----------EDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----E----------E-SSSEEETTTTEE
T ss_pred CCCCCCCccee----------ccCCEEeCCccccc
Confidence 46666665544 44446777777643
No 117
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=57.67 E-value=7.6 Score=25.61 Aligned_cols=42 Identities=12% Similarity=0.093 Sum_probs=19.6
Q ss_pred eecCCCcccccchhhhHhHhhhcccCCCCCCCCCCCCcCccC
Q psy12199 332 FLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESPVCEPCNLT 373 (597)
Q Consensus 332 ~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~C~~C~~~ 373 (597)
|+|..|+..+.-...-..+--........-.+.+.|+.|+..
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 789999988866543322211000000111334489999864
No 118
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=57.22 E-value=7.1 Score=31.72 Aligned_cols=30 Identities=13% Similarity=0.163 Sum_probs=16.8
Q ss_pred CCCCcCccccCChHHHHHHHHHhhccceeecCcCccccCCh
Q psy12199 521 FSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTHK 561 (597)
Q Consensus 521 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~~ 561 (597)
..|+.||+.|... +..|..|+.||..|.-.
T Consensus 10 r~Cp~cg~kFYDL-----------nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDL-----------NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCcccccc-----------CCCCccCCCcCCccCcc
Confidence 4566666666542 33556666666665443
No 119
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=57.17 E-value=8.7 Score=26.50 Aligned_cols=10 Identities=20% Similarity=0.640 Sum_probs=6.5
Q ss_pred cccccCCCCc
Q psy12199 576 VTLKCQLCNV 585 (597)
Q Consensus 576 ~~~~C~~C~~ 585 (597)
.+|+|+.||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 3577777764
No 120
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=57.05 E-value=7.5 Score=21.90 Aligned_cols=19 Identities=21% Similarity=0.578 Sum_probs=13.7
Q ss_pred ecCcCccccCChhHHHhhhc
Q psy12199 550 ACEKCDVKFTHKALLAEHIN 569 (597)
Q Consensus 550 ~C~~C~~~F~~~~~L~~H~~ 569 (597)
.|++|++.+ ....+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 578888777 5567777764
No 121
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=56.91 E-value=5.9 Score=26.13 Aligned_cols=43 Identities=14% Similarity=0.221 Sum_probs=27.5
Q ss_pred ecCcCccccCChhHHHhhhcccCCCCcccccCC--CCcceeeceEEEe
Q psy12199 550 ACEKCDVKFTHKALLAEHINTKHNTDVTLKCQL--CNVVVLIEEVIFW 595 (597)
Q Consensus 550 ~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~--C~~~f~~~~~l~~ 595 (597)
.|+.||.....+..-..+... .+.-|+|.. ||..|.....+..
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~---~~~Y~qC~N~~Cg~tfv~~~~~~~ 45 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLT---RELYCQCTNPECGHTFVANLEFSH 45 (47)
T ss_pred CcCCCCCeeEEEEchhhCcce---EEEEEEECCCcCCCEEEEEEEEEE
Confidence 377887766555544444322 356688888 9998887666543
No 122
>PF15269 zf-C2H2_7: Zinc-finger
Probab=56.43 E-value=7.7 Score=24.65 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=15.8
Q ss_pred CCCCcCccccCChHHHHHHHHH
Q psy12199 521 FSCDECSVECQDLNALRMHTLR 542 (597)
Q Consensus 521 ~~C~~C~~~f~~~~~L~~H~~~ 542 (597)
|+|-.|.++...++.|..||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6677777777777777777753
No 123
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=55.45 E-value=9.2 Score=29.16 Aligned_cols=35 Identities=23% Similarity=0.569 Sum_probs=18.4
Q ss_pred hhhcCCCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccC
Q psy12199 515 TRRHDNFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFT 559 (597)
Q Consensus 515 ~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~ 559 (597)
...|..|.|++|++.-..+ .+.-.+.|..|++.|.
T Consensus 30 ~~q~a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~A 64 (91)
T TIGR00280 30 IQQKAKYVCPFCGKKTVKR----------GSTGIWTCRKCGAKFA 64 (91)
T ss_pred HHHhcCccCCCCCCCceEE----------EeeEEEEcCCCCCEEe
Confidence 3445566677776431110 1233467777776664
No 124
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=55.02 E-value=6.8 Score=42.80 Aligned_cols=8 Identities=50% Similarity=1.265 Sum_probs=4.2
Q ss_pred ccChhhhh
Q psy12199 159 ECRECGSQ 166 (597)
Q Consensus 159 ~C~~C~~~ 166 (597)
.|..||..
T Consensus 437 ~C~~Cg~v 444 (730)
T COG1198 437 LCRDCGYI 444 (730)
T ss_pred ecccCCCc
Confidence 46666543
No 125
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=54.65 E-value=3.4 Score=30.11 Aligned_cols=42 Identities=14% Similarity=0.381 Sum_probs=23.6
Q ss_pred CCCCcCccccCChHHHHHHHHHhhccceeecC--cCccccCChhHH
Q psy12199 521 FSCDECSVECQDLNALRMHTLREHGYKILACE--KCDVKFTHKALL 564 (597)
Q Consensus 521 ~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~--~C~~~F~~~~~L 564 (597)
+.|+.||........-..... ..++-++|. .||.+|.....+
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~--~~~~Y~qC~N~eCg~tF~t~es~ 45 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT--TKERYHQCQNVNCSATFITYESV 45 (72)
T ss_pred ccCCCCCCccEEEEChhcChh--hheeeeecCCCCCCCEEEEEEEE
Confidence 456666655433222222211 355678887 888888765544
No 126
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=54.28 E-value=8 Score=29.45 Aligned_cols=36 Identities=25% Similarity=0.520 Sum_probs=19.4
Q ss_pred HhhhcCCCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccC
Q psy12199 514 HTRRHDNFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFT 559 (597)
Q Consensus 514 H~~~H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~ 559 (597)
.+..|..|.|++|++.-..+ .+.-.+.|..|++.|.
T Consensus 30 e~~q~a~y~CpfCgk~~vkR----------~a~GIW~C~~C~~~~A 65 (90)
T PRK03976 30 EEKMRAKHVCPVCGRPKVKR----------VGTGIWECRKCGAKFA 65 (90)
T ss_pred HHHHhcCccCCCCCCCceEE----------EEEEEEEcCCCCCEEe
Confidence 34455667777776431111 1233467777777664
No 127
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=54.25 E-value=7.9 Score=25.91 Aligned_cols=25 Identities=28% Similarity=0.606 Sum_probs=16.8
Q ss_pred eecCcCccccCCh-----hHHHhhhcccCC
Q psy12199 549 LACEKCDVKFTHK-----ALLAEHINTKHN 573 (597)
Q Consensus 549 ~~C~~C~~~F~~~-----~~L~~H~~~~H~ 573 (597)
-.|..|++.++.. +.|.+|++..|.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h~ 48 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKHP 48 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHCc
Confidence 4677787777654 578888874353
No 128
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.05 E-value=6 Score=27.12 Aligned_cols=36 Identities=22% Similarity=0.593 Sum_probs=15.4
Q ss_pred ccCCCCccCCCChhhHHHHhhccCCCcccccccccc
Q psy12199 190 KCTICNKENFKNQLSLSIHMRYHENVREYECEICKK 225 (597)
Q Consensus 190 ~C~~C~k~~f~~~~~L~~H~~~H~~~k~~~C~~C~~ 225 (597)
+|.+|++..+.+...+..-...-...+.|.|+.|.-
T Consensus 4 kCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~ 39 (68)
T COG4896 4 KCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEH 39 (68)
T ss_pred eEEEecceeeecchhHHHHHhhCCCceeEechhhHh
Confidence 455555533444333333322222334455555543
No 129
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=52.24 E-value=13 Score=31.56 Aligned_cols=43 Identities=23% Similarity=0.571 Sum_probs=22.4
Q ss_pred hhccceeecCcCcccc------CChhHHHhhhcc-cCC----------CCcccccCCCCc
Q psy12199 543 EHGYKILACEKCDVKF------THKALLAEHINT-KHN----------TDVTLKCQLCNV 585 (597)
Q Consensus 543 h~~~k~~~C~~C~~~F------~~~~~L~~H~~~-~H~----------~~~~~~C~~C~~ 585 (597)
|...-..+|..|++.| +..+.+..|+.. +|. ++..++|-.||-
T Consensus 9 ~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 9 HDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp --CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred CCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 3455668899999988 355677888643 232 234589999975
No 130
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=50.46 E-value=13 Score=30.39 Aligned_cols=15 Identities=47% Similarity=0.904 Sum_probs=11.6
Q ss_pred Cceecccccccccch
Q psy12199 467 KPYTCEICSKTYTVE 481 (597)
Q Consensus 467 k~~~C~~C~~~f~~~ 481 (597)
+.|.|.+|..+...+
T Consensus 79 ~lYeCnIC~etS~ee 93 (140)
T PF05290_consen 79 KLYECNICKETSAEE 93 (140)
T ss_pred CceeccCcccccchh
Confidence 679999998876554
No 131
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=50.22 E-value=8.5 Score=25.77 Aligned_cols=13 Identities=15% Similarity=0.434 Sum_probs=10.5
Q ss_pred eecCCCcccccch
Q psy12199 332 FLCELCDKTSIHY 344 (597)
Q Consensus 332 ~~C~~C~~~f~~~ 344 (597)
|+|..||+.+.-.
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 7899999988643
No 132
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 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 ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=49.96 E-value=5.8 Score=30.17 Aligned_cols=14 Identities=21% Similarity=0.748 Sum_probs=7.1
Q ss_pred hhcCCCCCCcCccc
Q psy12199 516 RRHDNFSCDECSVE 529 (597)
Q Consensus 516 ~~H~~~~C~~C~~~ 529 (597)
..|..|.|+.||+.
T Consensus 31 ~q~~ky~Cp~Cgk~ 44 (90)
T PF01780_consen 31 SQHAKYTCPFCGKT 44 (90)
T ss_dssp HHHS-BEESSSSSS
T ss_pred HHhCCCcCCCCCCc
Confidence 34555666666653
No 133
>KOG2071|consensus
Probab=48.42 E-value=10 Score=39.58 Aligned_cols=41 Identities=22% Similarity=0.429 Sum_probs=0.0
Q ss_pred CcccccccccccccCchhhhhhhccc------------------------------------------------------
Q psy12199 215 VREYECEICKKKFINKSTLKEHSVSH------------------------------------------------------ 240 (597)
Q Consensus 215 ~k~~~C~~C~~~F~~~~~L~~H~~~H------------------------------------------------------ 240 (597)
..|-+|..||..|.+......||..|
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh~r~n~~~r~s~~~~~sR~Wf~s~s~W~~~K~~e~t~e~~~~~~~~~~~~~ 495 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWHRRKNTTIRGSSKWQKSRSWFPSKSGWLAAKAGEETDEKEKVEHEELQIKK 495 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhhhhhhhhcccccccccccceeechhhhccccccccccccccccchhhcchh
Q ss_pred -------------cccCccccCccchhh
Q psy12199 241 -------------MSVKPFKCEICGHYL 255 (597)
Q Consensus 241 -------------~~~~~~~C~~C~~~f 255 (597)
++++...|++|+..|
T Consensus 496 ~~s~~~k~~~Vp~d~e~~~~C~IC~EkF 523 (579)
T KOG2071|consen 496 ELSLRSKYELVPADSERQASCPICQEKF 523 (579)
T ss_pred hhhhhccceecccCcccccCCccccccc
No 134
>PRK04023 DNA polymerase II large subunit; Validated
Probab=47.87 E-value=23 Score=39.66 Aligned_cols=10 Identities=30% Similarity=0.720 Sum_probs=5.1
Q ss_pred ceeccccccc
Q psy12199 468 PYTCEICSKT 477 (597)
Q Consensus 468 ~~~C~~C~~~ 477 (597)
...|+.||..
T Consensus 626 ~RfCpsCG~~ 635 (1121)
T PRK04023 626 RRKCPSCGKE 635 (1121)
T ss_pred CccCCCCCCc
Confidence 3455555554
No 135
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=47.61 E-value=10 Score=34.51 Aligned_cols=26 Identities=27% Similarity=0.494 Sum_probs=13.7
Q ss_pred eeecCcCccccCChhHHHhhhcccCC
Q psy12199 548 ILACEKCDVKFTHKALLAEHINTKHN 573 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H~~~~H~ 573 (597)
.|.|..|+|.|.-..-..+|+.++|.
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred EECCCCCCcccCChHHHHHHHhhcCH
Confidence 46666666666666666666665554
No 136
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=47.57 E-value=16 Score=22.49 Aligned_cols=33 Identities=21% Similarity=0.430 Sum_probs=20.6
Q ss_pred eecCcCccccCChhHHHhhhcccCCCCcccccCCCCcceeec
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVVLIE 590 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f~~~ 590 (597)
..|+.||..|. +.. -....+-.|+.||-.+.++
T Consensus 2 r~C~~Cg~~Yh--------~~~-~pP~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 2 RICPKCGRIYH--------IEF-NPPKVEGVCDNCGGELVQR 34 (36)
T ss_dssp EEETTTTEEEE--------TTT-B--SSTTBCTTTTEBEBEE
T ss_pred cCcCCCCCccc--------ccc-CCCCCCCccCCCCCeeEeC
Confidence 46888888773 332 3345567788888776654
No 137
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=46.39 E-value=13 Score=21.68 Aligned_cols=12 Identities=25% Similarity=0.794 Sum_probs=4.3
Q ss_pred ceeecCcCcccc
Q psy12199 547 KILACEKCDVKF 558 (597)
Q Consensus 547 k~~~C~~C~~~F 558 (597)
..|.|..|++.+
T Consensus 14 ~~Y~C~~Cdf~l 25 (30)
T PF07649_consen 14 WFYRCSECDFDL 25 (30)
T ss_dssp -EEE-TTT----
T ss_pred ceEECccCCCcc
Confidence 467777776544
No 138
>PF15269 zf-C2H2_7: Zinc-finger
Probab=45.79 E-value=12 Score=23.88 Aligned_cols=22 Identities=23% Similarity=0.489 Sum_probs=20.3
Q ss_pred eecCcCccccCChhHHHhhhcc
Q psy12199 549 LACEKCDVKFTHKALLAEHINT 570 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~ 570 (597)
|+|=+|.++...++.|-.||+-
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 8999999999999999999974
No 139
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=45.65 E-value=15 Score=27.64 Aligned_cols=10 Identities=50% Similarity=1.195 Sum_probs=4.5
Q ss_pred eecCcCcccc
Q psy12199 549 LACEKCDVKF 558 (597)
Q Consensus 549 ~~C~~C~~~F 558 (597)
+.|..|+..|
T Consensus 54 W~C~kCg~~f 63 (89)
T COG1997 54 WKCRKCGAKF 63 (89)
T ss_pred EEcCCCCCee
Confidence 4444444444
No 140
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=45.62 E-value=9.5 Score=26.00 Aligned_cols=30 Identities=30% Similarity=0.657 Sum_probs=17.5
Q ss_pred eecccccccccchhhHHHHHHhccCccccCCcChhcc
Q psy12199 469 YTCEICSKTYTVEGSLLTHYDMHSGEFYQCDVCFKEF 505 (597)
Q Consensus 469 ~~C~~C~~~f~~~~~L~~H~~~H~~e~y~C~~C~~~F 505 (597)
+.|+.||..+.-.... .|+...|+.||..|
T Consensus 3 ~~CP~CG~~iev~~~~-------~GeiV~Cp~CGael 32 (54)
T TIGR01206 3 FECPDCGAEIELENPE-------LGELVICDECGAEL 32 (54)
T ss_pred cCCCCCCCEEecCCCc-------cCCEEeCCCCCCEE
Confidence 5677777766443221 24456777777654
No 141
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.33 E-value=15 Score=41.01 Aligned_cols=9 Identities=22% Similarity=0.803 Sum_probs=4.4
Q ss_pred eeccccccc
Q psy12199 469 YTCEICSKT 477 (597)
Q Consensus 469 ~~C~~C~~~ 477 (597)
+.|+.||..
T Consensus 639 frCP~CG~~ 647 (1121)
T PRK04023 639 RRCPFCGTH 647 (1121)
T ss_pred ccCCCCCCC
Confidence 445555543
No 142
>KOG2593|consensus
Probab=44.47 E-value=19 Score=36.07 Aligned_cols=33 Identities=15% Similarity=0.550 Sum_probs=21.0
Q ss_pred cccChhhhhHHHHHHHHHHhhhhhcccCCCccccCCCCc
Q psy12199 158 HECRECGSQFADILKHSLETHLSFIHVQDNQLKCTICNK 196 (597)
Q Consensus 158 ~~C~~C~~~f~~~~~~~l~~H~~~~h~~~~~~~C~~C~k 196 (597)
|.|+.|.+.|..+....| +-..+..|.|..|+-
T Consensus 129 Y~Cp~C~kkyt~Lea~~L------~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLEALQL------LDNETGEFHCENCGG 161 (436)
T ss_pred ccCCccccchhhhHHHHh------hcccCceEEEecCCC
Confidence 888888888874322212 344456788888874
No 143
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=43.38 E-value=12 Score=20.68 Aligned_cols=9 Identities=22% Similarity=0.807 Sum_probs=5.0
Q ss_pred ccccCCCCc
Q psy12199 577 TLKCQLCNV 585 (597)
Q Consensus 577 ~~~C~~C~~ 585 (597)
+|.|+.||+
T Consensus 16 ~f~CPnCG~ 24 (24)
T PF07754_consen 16 PFPCPNCGF 24 (24)
T ss_pred eEeCCCCCC
Confidence 456666653
No 144
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=43.32 E-value=13 Score=30.57 Aligned_cols=15 Identities=20% Similarity=0.689 Sum_probs=10.1
Q ss_pred ceecccccccccchh
Q psy12199 468 PYTCEICSKTYTVEG 482 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~ 482 (597)
|++|..||+.|.+-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 467777777776544
No 145
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=42.79 E-value=19 Score=33.93 Aligned_cols=49 Identities=18% Similarity=0.390 Sum_probs=29.2
Q ss_pred ccccccccccCchhhhhhhccccccCccccCccchhhhchHHHHHHHHhhc
Q psy12199 219 ECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLSRASRLRAHLKAHS 269 (597)
Q Consensus 219 ~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~~~~~L~~H~~~H~ 269 (597)
-|-.|.-.|.....-.--. -+....|+|+.|...|-..-+.-.|...|.
T Consensus 364 ~Cf~CQ~~fp~~~~~~~~~--~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~ 412 (421)
T COG5151 364 HCFVCQGPFPKPPVSPFDE--STSSGRYQCELCKSTFCSDCDVFIHETLHF 412 (421)
T ss_pred cceeccCCCCCCCCCcccc--cccccceechhhhhhhhhhhHHHHHHHHhh
Confidence 3777766665432211111 112234888888888888877778877763
No 146
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=42.28 E-value=18 Score=29.45 Aligned_cols=15 Identities=13% Similarity=0.257 Sum_probs=8.0
Q ss_pred CccccCccchhhhch
Q psy12199 244 KPFKCEICGHYLSRA 258 (597)
Q Consensus 244 ~~~~C~~C~~~f~~~ 258 (597)
.|..|+.||..|.-.
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 455556665555443
No 147
>KOG2593|consensus
Probab=41.60 E-value=17 Score=36.38 Aligned_cols=33 Identities=27% Similarity=0.632 Sum_probs=15.3
Q ss_pred cccCCcChhccCCcHHHHHHhhhcCCCCCCcCc
Q psy12199 495 FYQCDVCFKEFRSSVTLRNHTRRHDNFSCDECS 527 (597)
Q Consensus 495 ~y~C~~C~~~F~~~~~L~~H~~~H~~~~C~~C~ 527 (597)
-|.|+.|.+.|+....++.=-..-..|.|..|+
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCG 160 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCC
Confidence 355555555555544443322212245555554
No 148
>PF14353 CpXC: CpXC protein
Probab=39.64 E-value=31 Score=28.59 Aligned_cols=20 Identities=30% Similarity=0.541 Sum_probs=10.6
Q ss_pred eeecCcCccccCChhHHHhh
Q psy12199 548 ILACEKCDVKFTHKALLAEH 567 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H 567 (597)
.|.|+.||..|.-...+.-|
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~ 57 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYH 57 (128)
T ss_pred EEECCCCCCceecCCCEEEE
Confidence 45666666666544444333
No 149
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.16 E-value=11 Score=25.58 Aligned_cols=27 Identities=26% Similarity=0.653 Sum_probs=19.2
Q ss_pred CCCCccCccCCCchhhHhhhhhccCCCCCCCCCccccChhhhhHH
Q psy12199 124 PRCEECDINFPSKMRHTFHLQHHLEDPDLPVNFMHECRECGSQFA 168 (597)
Q Consensus 124 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~~~~~~~C~~C~~~f~ 168 (597)
.+|+.||+.|...... ..|+.|+..+-
T Consensus 6 ~~C~~Cg~~~~~~dDi------------------VvCp~CgapyH 32 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDI------------------VVCPECGAPYH 32 (54)
T ss_pred ccChhhCCcccCCCCE------------------EECCCCCCccc
Confidence 4688898887655432 67888887664
No 150
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=37.76 E-value=15 Score=24.48 Aligned_cols=39 Identities=23% Similarity=0.456 Sum_probs=18.6
Q ss_pred cceeecCcCccccCChhHHHhhhcccCCCCcccccCCCC
Q psy12199 546 YKILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCN 584 (597)
Q Consensus 546 ~k~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~ 584 (597)
++.+.|..||..|..-..=+.-....--...|-.|..|-
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ~fy~eKgf~n~p~RC~~CR 40 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQKFYAEKGFDNEPKRCPSCR 40 (49)
T ss_pred CeeEEcccCCCeEEEehhHHHHHHhcCCcCCCccCHHHH
Confidence 355667777766654444333333211112355555553
No 151
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=37.15 E-value=18 Score=30.00 Aligned_cols=21 Identities=38% Similarity=0.828 Sum_probs=10.0
Q ss_pred cccCCcChhccCCcHHHHHHhhhc
Q psy12199 495 FYQCDVCFKEFRSSVTLRNHTRRH 518 (597)
Q Consensus 495 ~y~C~~C~~~F~~~~~L~~H~~~H 518 (597)
--.|-+||+.|.. |++|++.|
T Consensus 72 ~i~clecGk~~k~---LkrHL~~~ 92 (132)
T PF05443_consen 72 YIICLECGKKFKT---LKRHLRTH 92 (132)
T ss_dssp -EE-TBT--EESB---HHHHHHHT
T ss_pred eeEEccCCcccch---HHHHHHHc
Confidence 3467777777654 35555555
No 152
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.97 E-value=17 Score=26.42 Aligned_cols=32 Identities=19% Similarity=0.566 Sum_probs=15.9
Q ss_pred eeecCcCccccCChhHHHhhhcccCCCCcccccCCCCcce
Q psy12199 548 ILACEKCDVKFTHKALLAEHINTKHNTDVTLKCQLCNVVV 587 (597)
Q Consensus 548 ~~~C~~C~~~F~~~~~L~~H~~~~H~~~~~~~C~~C~~~f 587 (597)
.|+|..|+..| .+..||.. ...-.|+.||-.+
T Consensus 12 ~Y~c~~cg~~~----dvvq~~~d----dplt~ce~c~a~~ 43 (82)
T COG2331 12 SYECTECGNRF----DVVQAMTD----DPLTTCEECGARL 43 (82)
T ss_pred EEeecccchHH----HHHHhccc----CccccChhhChHH
Confidence 36666666555 34444432 2223466666543
No 153
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=36.87 E-value=43 Score=31.75 Aligned_cols=25 Identities=28% Similarity=0.773 Sum_probs=18.3
Q ss_pred CceecccccccccchhhHHHHHHhc
Q psy12199 467 KPYTCEICSKTYTVEGSLLTHYDMH 491 (597)
Q Consensus 467 k~~~C~~C~~~f~~~~~L~~H~~~H 491 (597)
..|+|+.|...|-.--+...|...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 4588888888887777777776655
No 154
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=36.76 E-value=22 Score=29.61 Aligned_cols=25 Identities=28% Similarity=0.519 Sum_probs=16.6
Q ss_pred CceecccccccccchhhHHHHHHhccCc
Q psy12199 467 KPYTCEICSKTYTVEGSLLTHYDMHSGE 494 (597)
Q Consensus 467 k~~~C~~C~~~f~~~~~L~~H~~~H~~e 494 (597)
.-..|-+||+.|.. |.+|++.|+|-
T Consensus 71 d~i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 71 DYIICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp S-EE-TBT--EESB---HHHHHHHTT-S
T ss_pred CeeEEccCCcccch---HHHHHHHccCC
Confidence 45789999999865 59999999774
No 155
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=36.26 E-value=20 Score=24.90 Aligned_cols=21 Identities=19% Similarity=0.494 Sum_probs=10.1
Q ss_pred chhhhhhhccccccCccccCc
Q psy12199 230 KSTLKEHSVSHMSVKPFKCEI 250 (597)
Q Consensus 230 ~~~L~~H~~~H~~~~~~~C~~ 250 (597)
+..|..|...--..++..|+.
T Consensus 23 r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 23 RKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CCCHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHHHccCCCCcEECCC
Confidence 445555555444444555555
No 156
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=35.67 E-value=32 Score=22.48 Aligned_cols=7 Identities=29% Similarity=1.027 Sum_probs=3.4
Q ss_pred cccCCCC
Q psy12199 189 LKCTICN 195 (597)
Q Consensus 189 ~~C~~C~ 195 (597)
+.|+.||
T Consensus 19 ~~CP~Cg 25 (46)
T PF12760_consen 19 FVCPHCG 25 (46)
T ss_pred CCCCCCC
Confidence 3455554
No 157
>KOG3408|consensus
Probab=32.89 E-value=26 Score=28.16 Aligned_cols=27 Identities=19% Similarity=0.390 Sum_probs=23.3
Q ss_pred cCCCceecccccccccchhhHHHHHHh
Q psy12199 464 LKMKPYTCEICSKTYTVEGSLLTHYDM 490 (597)
Q Consensus 464 ~~~k~~~C~~C~~~f~~~~~L~~H~~~ 490 (597)
.|...|.|-.|.+-|.+...|..|.++
T Consensus 53 PG~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 53 PGGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCCceeehhhhhhhhcchHHHHHHHhc
Confidence 355679999999999999999999875
No 158
>KOG1280|consensus
Probab=32.84 E-value=20 Score=34.56 Aligned_cols=25 Identities=16% Similarity=0.437 Sum_probs=11.9
Q ss_pred eecCcCccccCChhHHHhhhcccCC
Q psy12199 549 LACEKCDVKFTHKALLAEHINTKHN 573 (597)
Q Consensus 549 ~~C~~C~~~F~~~~~L~~H~~~~H~ 573 (597)
|.|++|+..=.+...|..|+...|.
T Consensus 80 ftCPyC~~~Gfte~~f~~Hv~s~Hp 104 (381)
T KOG1280|consen 80 FTCPYCGIMGFTERQFGTHVLSQHP 104 (381)
T ss_pred ccCCcccccccchhHHHHHhhhcCc
Confidence 4444444444444444444444443
No 159
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=32.23 E-value=20 Score=24.57 Aligned_cols=6 Identities=50% Similarity=1.597 Sum_probs=2.6
Q ss_pred cccccc
Q psy12199 218 YECEIC 223 (597)
Q Consensus 218 ~~C~~C 223 (597)
|.|+.|
T Consensus 32 YmC~eC 37 (56)
T PF09963_consen 32 YMCDEC 37 (56)
T ss_pred eeChhH
Confidence 444444
No 160
>KOG4167|consensus
Probab=32.15 E-value=19 Score=38.45 Aligned_cols=25 Identities=32% Similarity=0.673 Sum_probs=23.7
Q ss_pred ccccCccchhhhchHHHHHHHHhhc
Q psy12199 245 PFKCEICGHYLSRASRLRAHLKAHS 269 (597)
Q Consensus 245 ~~~C~~C~~~f~~~~~L~~H~~~H~ 269 (597)
.|.|.+|++.|.....+..||++|.
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHH
Confidence 4999999999999999999999996
No 161
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=31.73 E-value=29 Score=31.65 Aligned_cols=29 Identities=24% Similarity=0.323 Sum_probs=23.3
Q ss_pred cCeeecCCCcccccchhhhHhHhhhcccC
Q psy12199 329 VQYFLCELCDKTSIHYTYLCLHKKLKHSN 357 (597)
Q Consensus 329 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~ 357 (597)
+..|.|.+|+|.|.-......|+...|.+
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred CCEECCCCCCcccCChHHHHHHHhhcCHH
Confidence 45699999999999999999999988864
No 162
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=31.36 E-value=28 Score=25.02 Aligned_cols=10 Identities=40% Similarity=0.956 Sum_probs=3.2
Q ss_pred ecCcCccccC
Q psy12199 550 ACEKCDVKFT 559 (597)
Q Consensus 550 ~C~~C~~~F~ 559 (597)
.|..|++.|+
T Consensus 11 ~C~~C~~~F~ 20 (69)
T PF01363_consen 11 NCMICGKKFS 20 (69)
T ss_dssp B-TTT--B-B
T ss_pred cCcCcCCcCC
Confidence 4555666663
No 163
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.82 E-value=25 Score=29.52 Aligned_cols=15 Identities=27% Similarity=0.800 Sum_probs=10.3
Q ss_pred ceeecCcCccccCCh
Q psy12199 547 KILACEKCDVKFTHK 561 (597)
Q Consensus 547 k~~~C~~C~~~F~~~ 561 (597)
..+.|..||+.|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 347888888777543
No 164
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=30.53 E-value=29 Score=26.85 Aligned_cols=14 Identities=21% Similarity=0.688 Sum_probs=10.0
Q ss_pred ceecccccccccch
Q psy12199 468 PYTCEICSKTYTVE 481 (597)
Q Consensus 468 ~~~C~~C~~~f~~~ 481 (597)
|++|.-||..|.+-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 56777777777764
No 165
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=30.18 E-value=44 Score=21.28 Aligned_cols=23 Identities=26% Similarity=0.460 Sum_probs=11.0
Q ss_pred eeccccccccc--chhhHHHHHHhc
Q psy12199 469 YTCEICSKTYT--VEGSLLTHYDMH 491 (597)
Q Consensus 469 ~~C~~C~~~f~--~~~~L~~H~~~H 491 (597)
-.|+.||..|. ....-..|.+-|
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH 38 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYH 38 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHH
Confidence 45666665543 234444444444
No 166
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=29.73 E-value=52 Score=38.14 Aligned_cols=8 Identities=25% Similarity=0.800 Sum_probs=4.3
Q ss_pred eecccccc
Q psy12199 469 YTCEICSK 476 (597)
Q Consensus 469 ~~C~~C~~ 476 (597)
++|+.||.
T Consensus 668 rkCPkCG~ 675 (1337)
T PRK14714 668 RRCPSCGT 675 (1337)
T ss_pred EECCCCCC
Confidence 45555554
No 167
>KOG4167|consensus
Probab=29.61 E-value=15 Score=39.05 Aligned_cols=28 Identities=21% Similarity=0.367 Sum_probs=25.1
Q ss_pred CCceecccccccccchhhHHHHHHhccC
Q psy12199 466 MKPYTCEICSKTYTVEGSLLTHYDMHSG 493 (597)
Q Consensus 466 ~k~~~C~~C~~~f~~~~~L~~H~~~H~~ 493 (597)
..-|.|.+|++.|....++..||++|.-
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 4569999999999999999999999953
No 168
>PRK14873 primosome assembly protein PriA; Provisional
Probab=28.98 E-value=28 Score=38.06 Aligned_cols=12 Identities=17% Similarity=0.440 Sum_probs=6.2
Q ss_pred CCcccccccccc
Q psy12199 214 NVREYECEICKK 225 (597)
Q Consensus 214 ~~k~~~C~~C~~ 225 (597)
+.....|..||.
T Consensus 407 ~~~~l~Ch~CG~ 418 (665)
T PRK14873 407 AGGTPRCRWCGR 418 (665)
T ss_pred CCCeeECCCCcC
Confidence 334455666654
No 169
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=28.90 E-value=75 Score=29.28 Aligned_cols=16 Identities=19% Similarity=0.470 Sum_probs=12.3
Q ss_pred CeeecCCCcccccchh
Q psy12199 330 QYFLCELCDKTSIHYT 345 (597)
Q Consensus 330 ~~~~C~~C~~~f~~~~ 345 (597)
..|.|..|+..|....
T Consensus 154 aef~C~~C~h~F~G~~ 169 (278)
T PF15135_consen 154 AEFHCPKCRHNFRGFA 169 (278)
T ss_pred eeeecccccccchhhh
Confidence 4588999998887654
No 170
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.29 E-value=32 Score=26.94 Aligned_cols=27 Identities=19% Similarity=0.156 Sum_probs=16.8
Q ss_pred ccccccccccCchhhhhhhccccccCccccCccchhhh
Q psy12199 219 ECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLS 256 (597)
Q Consensus 219 ~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~ 256 (597)
.|+.||+.|... +..|..|+.||++|.
T Consensus 11 idPetg~KFYDL-----------NrdPiVsPytG~s~P 37 (129)
T COG4530 11 IDPETGKKFYDL-----------NRDPIVSPYTGKSYP 37 (129)
T ss_pred cCccccchhhcc-----------CCCccccCcccccch
Confidence 466666666542 345677777777773
No 171
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.86 E-value=33 Score=36.27 Aligned_cols=15 Identities=20% Similarity=0.616 Sum_probs=7.4
Q ss_pred cCCCccccccccccc
Q psy12199 212 HENVREYECEICKKK 226 (597)
Q Consensus 212 H~~~k~~~C~~C~~~ 226 (597)
|.......|..||..
T Consensus 235 h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 235 HKKEGKLRCHYCGYQ 249 (505)
T ss_pred ecCCCeEEcCCCcCc
Confidence 333444555555554
No 172
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=27.02 E-value=25 Score=20.22 Aligned_cols=17 Identities=35% Similarity=0.784 Sum_probs=8.0
Q ss_pred ccccccccccCchhhhhh
Q psy12199 219 ECEICKKKFINKSTLKEH 236 (597)
Q Consensus 219 ~C~~C~~~F~~~~~L~~H 236 (597)
.|-.|++.| .....+.|
T Consensus 2 sCiDC~~~F-~~~~y~~H 18 (28)
T PF08790_consen 2 SCIDCSKDF-DGDSYKSH 18 (28)
T ss_dssp EETTTTEEE-EGGGTTT-
T ss_pred eeecCCCCc-CcCCcCCC
Confidence 455566655 33444444
No 173
>KOG2272|consensus
Probab=26.92 E-value=28 Score=31.81 Aligned_cols=20 Identities=15% Similarity=0.522 Sum_probs=15.4
Q ss_pred CceecccCccccCChhhHHh
Q psy12199 418 KSVTCSVCEKAFSSKENCKA 437 (597)
Q Consensus 418 ~~~~C~~C~~~f~~~~~L~~ 437 (597)
.-|.|++|++..++...++.
T Consensus 98 ~CF~Cd~Cn~~Lad~gf~rn 117 (332)
T KOG2272|consen 98 ACFRCDLCNKHLADQGFYRN 117 (332)
T ss_pred ccchhHHHHHHHhhhhhHhh
Confidence 35899999998887766554
No 174
>KOG3408|consensus
Probab=26.40 E-value=42 Score=27.04 Aligned_cols=26 Identities=31% Similarity=0.617 Sum_probs=21.6
Q ss_pred ccCccccCccchhhhchHHHHHHHHh
Q psy12199 242 SVKPFKCEICGHYLSRASRLRAHLKA 267 (597)
Q Consensus 242 ~~~~~~C~~C~~~f~~~~~L~~H~~~ 267 (597)
|...|.|-.|.+.|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 44558899999999999999999864
No 175
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=26.04 E-value=24 Score=27.34 Aligned_cols=37 Identities=19% Similarity=0.565 Sum_probs=17.2
Q ss_pred cccccccccccccCchhhhhhhccccccCccccCccchhhh
Q psy12199 216 REYECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHYLS 256 (597)
Q Consensus 216 k~~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~f~ 256 (597)
+.|.|+.||..-...-.++.- .+.....|..||.+|.
T Consensus 21 k~FtCp~Cghe~vs~ctvkk~----~~~g~~~Cg~CGls~e 57 (104)
T COG4888 21 KTFTCPRCGHEKVSSCTVKKT----VNIGTAVCGNCGLSFE 57 (104)
T ss_pred ceEecCccCCeeeeEEEEEec----CceeEEEcccCcceEE
Confidence 446666666544433332211 1222345666666553
No 176
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=26.03 E-value=35 Score=27.59 Aligned_cols=11 Identities=18% Similarity=0.356 Sum_probs=7.0
Q ss_pred eecCcCccccC
Q psy12199 549 LACEKCDVKFT 559 (597)
Q Consensus 549 ~~C~~C~~~F~ 559 (597)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 66777766553
No 177
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=26.03 E-value=33 Score=21.55 Aligned_cols=13 Identities=23% Similarity=0.565 Sum_probs=11.3
Q ss_pred eeecCcCccccCC
Q psy12199 548 ILACEKCDVKFTH 560 (597)
Q Consensus 548 ~~~C~~C~~~F~~ 560 (597)
||+|..|+..|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 8999999999964
No 178
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.00 E-value=33 Score=25.99 Aligned_cols=13 Identities=31% Similarity=0.907 Sum_probs=6.5
Q ss_pred ccccCccchhhhc
Q psy12199 245 PFKCEICGHYLSR 257 (597)
Q Consensus 245 ~~~C~~C~~~f~~ 257 (597)
|-.|..||+.|..
T Consensus 58 Pa~CkkCGfef~~ 70 (97)
T COG3357 58 PARCKKCGFEFRD 70 (97)
T ss_pred ChhhcccCccccc
Confidence 4455555555543
No 179
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.77 E-value=35 Score=21.63 Aligned_cols=16 Identities=31% Similarity=0.468 Sum_probs=6.8
Q ss_pred cccCccchhhhchHHH
Q psy12199 246 FKCEICGHYLSRASRL 261 (597)
Q Consensus 246 ~~C~~C~~~f~~~~~L 261 (597)
+.|+.|+-.+.....|
T Consensus 20 d~C~~C~G~W~d~~el 35 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGEL 35 (41)
T ss_pred EECCCCCeEEccHHHH
Confidence 3444444444443333
No 180
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.61 E-value=34 Score=27.82 Aligned_cols=11 Identities=27% Similarity=0.818 Sum_probs=6.9
Q ss_pred eecCcCccccC
Q psy12199 549 LACEKCDVKFT 559 (597)
Q Consensus 549 ~~C~~C~~~F~ 559 (597)
+.|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 56666666554
No 181
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.37 E-value=27 Score=31.61 Aligned_cols=39 Identities=21% Similarity=0.351 Sum_probs=22.2
Q ss_pred cccccccccccccCchhhhhhhccccccC---------------ccccCccchh
Q psy12199 216 REYECEICKKKFINKSTLKEHSVSHMSVK---------------PFKCEICGHY 254 (597)
Q Consensus 216 k~~~C~~C~~~F~~~~~L~~H~~~H~~~~---------------~~~C~~C~~~ 254 (597)
+.+.||+|+..|....-+..-.|+-.|+- ...||.|+++
T Consensus 18 k~ieCPvC~tkFkkeev~tgsiRiiagDld~~lkygninP~fY~VvvCP~C~yA 71 (267)
T COG1655 18 KTIECPVCNTKFKKEEVKTGSIRIIAGDLDFFLKYGNINPYFYDVVVCPICYYA 71 (267)
T ss_pred ceeccCcccchhhhhheeccceeEecccccceeeccccCCceeEEEEcchhhHH
Confidence 44667777777766554444444333321 2468999764
No 182
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=25.29 E-value=13 Score=32.84 Aligned_cols=12 Identities=17% Similarity=0.246 Sum_probs=6.0
Q ss_pred ccCCcChhccCC
Q psy12199 496 YQCDVCFKEFRS 507 (597)
Q Consensus 496 y~C~~C~~~F~~ 507 (597)
+.|..||++++.
T Consensus 44 ~~C~~CgYR~~D 55 (201)
T COG1779 44 GVCERCGYRSTD 55 (201)
T ss_pred EEccccCCcccc
Confidence 445555555443
No 183
>KOG1701|consensus
Probab=25.05 E-value=16 Score=36.40 Aligned_cols=19 Identities=26% Similarity=0.639 Sum_probs=13.4
Q ss_pred cCeeecCCCcccccchhhh
Q psy12199 329 VQYFLCELCDKTSIHYTYL 347 (597)
Q Consensus 329 ~~~~~C~~C~~~f~~~~~L 347 (597)
..-|.|..|++...-.+..
T Consensus 300 v~CFtC~~C~r~L~Gq~FY 318 (468)
T KOG1701|consen 300 VQCFTCRTCRRQLAGQSFY 318 (468)
T ss_pred ccceehHhhhhhhcccccc
Confidence 3558999998876665554
No 184
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=24.94 E-value=39 Score=21.68 Aligned_cols=12 Identities=33% Similarity=0.739 Sum_probs=7.4
Q ss_pred ccccCCCCccee
Q psy12199 577 TLKCQLCNVVVL 588 (597)
Q Consensus 577 ~~~C~~C~~~f~ 588 (597)
-+.|..||....
T Consensus 19 ~~vC~~CG~Vl~ 30 (43)
T PF08271_consen 19 ELVCPNCGLVLE 30 (43)
T ss_dssp EEEETTT-BBEE
T ss_pred eEECCCCCCEee
Confidence 467888877654
No 185
>KOG0402|consensus
Probab=24.83 E-value=36 Score=25.21 Aligned_cols=32 Identities=19% Similarity=0.532 Sum_probs=17.0
Q ss_pred cCCCCCCcCccccCChHHHHHHHHHhhccceeecCcCccccC
Q psy12199 518 HDNFSCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFT 559 (597)
Q Consensus 518 H~~~~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~ 559 (597)
|..|.|++||+.-..+. ..--+.|..|.+.|.
T Consensus 34 haky~CsfCGK~~vKR~----------AvGiW~C~~C~kv~a 65 (92)
T KOG0402|consen 34 HAKYTCSFCGKKTVKRK----------AVGIWKCGSCKKVVA 65 (92)
T ss_pred hhhhhhhhcchhhhhhh----------ceeEEecCCccceec
Confidence 45677777776422111 223466777766653
No 186
>KOG4124|consensus
Probab=24.64 E-value=27 Score=33.73 Aligned_cols=69 Identities=33% Similarity=0.630 Sum_probs=0.0
Q ss_pred cCceeccc--CccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecccccccccchhhHHHH
Q psy12199 417 VKSVTCSV--CEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCEICSKTYTVEGSLLTH 487 (597)
Q Consensus 417 ~~~~~C~~--C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~~C~~~f~~~~~L~~H 487 (597)
.++|+|.+ |.+.+.+...|..|.. |+.-.+..-......+........|+|+|++|.+++.....|.-|
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~--~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~ 417 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKL--HGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYH 417 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccc--cCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCce
No 187
>KOG2807|consensus
Probab=24.49 E-value=1.6e+02 Score=28.50 Aligned_cols=91 Identities=14% Similarity=0.200 Sum_probs=50.3
Q ss_pred cCeeecCCCcccccchhhhHhHhhhcccCCCCCCCCCCCCcCccCCCCHHHHHHHHHHhcCCCCCCCCCCCccc--cCCC
Q psy12199 329 VQYFLCELCDKTSIHYTYLCLHKKLKHSNLTYGGESPVCEPCNLTFKNEWQYLVHNRAVHELPPEPNSGAGSVL--QNNP 406 (597)
Q Consensus 329 ~~~~~C~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~~H~~~~~~~~~~~~~~--~~~~ 406 (597)
...|.|+.|+... -.-+..|++|+.+......|.+-.. |..+-.+-....... ....
T Consensus 274 ~~Gy~CP~Ckakv-------------------CsLP~eCpiC~ltLVss~hLARSyh--hL~PL~~F~Eip~~~~~~~~~ 332 (378)
T KOG2807|consen 274 GGGYFCPQCKAKV-------------------CSLPIECPICSLTLVSSPHLARSYH--HLFPLKPFVEIPETEYNGSRF 332 (378)
T ss_pred cCceeCCcccCee-------------------ecCCccCCccceeEecchHHHHHHH--hhcCCcchhhccccccCCCcc
Confidence 4569999997542 1223389999999998888876543 322211100000000 0000
Q ss_pred CCCcccccCccCceecccCccccCChhhHHhHhh
Q psy12199 407 YPPLRKAKQHVKSVTCSVCEKAFSSKENCKAHYT 440 (597)
Q Consensus 407 ~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~ 440 (597)
--.-.........|.|..|...|-.--+...|..
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHes 366 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCDVFIHES 366 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccchHHHHhh
Confidence 0000112233356999999999988777777765
No 188
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=24.30 E-value=30 Score=29.40 Aligned_cols=8 Identities=38% Similarity=1.120 Sum_probs=4.5
Q ss_pred cccChhhh
Q psy12199 158 HECRECGS 165 (597)
Q Consensus 158 ~~C~~C~~ 165 (597)
|.|..||.
T Consensus 113 l~C~~Cg~ 120 (146)
T PF07295_consen 113 LVCENCGH 120 (146)
T ss_pred EecccCCC
Confidence 55555554
No 189
>KOG4377|consensus
Probab=24.06 E-value=26 Score=34.62 Aligned_cols=102 Identities=23% Similarity=0.447 Sum_probs=67.6
Q ss_pred ceec--ccccccccchhhHHHHHHhccCc-------------cccCCc--ChhccCCcHHHHHHhhhcC----------C
Q psy12199 468 PYTC--EICSKTYTVEGSLLTHYDMHSGE-------------FYQCDV--CFKEFRSSVTLRNHTRRHD----------N 520 (597)
Q Consensus 468 ~~~C--~~C~~~f~~~~~L~~H~~~H~~e-------------~y~C~~--C~~~F~~~~~L~~H~~~H~----------~ 520 (597)
-|.| +.|+..+-.+..+.+|..+|... -|.|.. |.+ +.+....|-.-|+ .
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~~~n~Gfrrth 347 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTDKRNNGFRRTH 347 (480)
T ss_pred hhcccCccccccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccccccCceecce
Confidence 4666 45988888899999999998532 256754 887 4455566665554 3
Q ss_pred CCCCcCc--cccCChHHHHHHHHHhhccc------------------------eeec--CcCccccCChhHHHhhhcccC
Q psy12199 521 FSCDECS--VECQDLNALRMHTLREHGYK------------------------ILAC--EKCDVKFTHKALLAEHINTKH 572 (597)
Q Consensus 521 ~~C~~C~--~~f~~~~~L~~H~~~h~~~k------------------------~~~C--~~C~~~F~~~~~L~~H~~~~H 572 (597)
|.|..|| ..|.....-..|.+.+.++. -|-| ..|+..|..-+.+..|.+. |
T Consensus 348 fhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrk-h 426 (480)
T KOG4377|consen 348 FHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRK-H 426 (480)
T ss_pred eEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhhhhhhh-h
Confidence 6788877 55554333334443333321 1556 4699999999999999987 6
Q ss_pred C
Q psy12199 573 N 573 (597)
Q Consensus 573 ~ 573 (597)
.
T Consensus 427 e 427 (480)
T KOG4377|consen 427 E 427 (480)
T ss_pred h
Confidence 3
No 190
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=23.32 E-value=14 Score=23.24 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=4.8
Q ss_pred cccccccccc
Q psy12199 218 YECEICKKKF 227 (597)
Q Consensus 218 ~~C~~C~~~F 227 (597)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 4555555443
No 191
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=22.87 E-value=55 Score=22.29 Aligned_cols=27 Identities=22% Similarity=0.445 Sum_probs=15.4
Q ss_pred CCCcCccccCChHHHHHHHHHhhccceeecCcCccccCC
Q psy12199 522 SCDECSVECQDLNALRMHTLREHGYKILACEKCDVKFTH 560 (597)
Q Consensus 522 ~C~~C~~~f~~~~~L~~H~~~h~~~k~~~C~~C~~~F~~ 560 (597)
.|..|++.|.. ..+.+.|..||+.|-.
T Consensus 4 ~C~~C~~~F~~------------~~rk~~Cr~Cg~~~C~ 30 (57)
T cd00065 4 SCMGCGKPFTL------------TRRRHHCRNCGRIFCS 30 (57)
T ss_pred cCcccCccccC------------CccccccCcCcCCcCh
Confidence 46666666653 2344566666666543
No 192
>KOG2807|consensus
Probab=22.83 E-value=1.1e+02 Score=29.50 Aligned_cols=23 Identities=17% Similarity=0.512 Sum_probs=19.2
Q ss_pred CceecccCccccCChhhHHhHhh
Q psy12199 418 KSVTCSVCEKAFSSKENCKAHYT 440 (597)
Q Consensus 418 ~~~~C~~C~~~f~~~~~L~~H~~ 440 (597)
-|..|++|+-+..+...|.+-+.
T Consensus 289 LP~eCpiC~ltLVss~hLARSyh 311 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLARSYH 311 (378)
T ss_pred CCccCCccceeEecchHHHHHHH
Confidence 46789999999999888887654
No 193
>KOG4377|consensus
Probab=22.56 E-value=32 Score=34.09 Aligned_cols=112 Identities=20% Similarity=0.418 Sum_probs=67.6
Q ss_pred ceec--ccCccccCChhhHHhHhhhccCCCCCCCCCCCCCcchhhhhcCCCceecc--cccccccchhhHHHHHHhccCc
Q psy12199 419 SVTC--SVCEKAFSSKENCKAHYTRQHGNKEPKEPKSGEGLPALEQLLKMKPYTCE--ICSKTYTVEGSLLTHYDMHSGE 494 (597)
Q Consensus 419 ~~~C--~~C~~~f~~~~~L~~H~~~~h~~~~~~~~~~~~~~~~~~~~~~~k~~~C~--~C~~~f~~~~~L~~H~~~H~~e 494 (597)
-|.| +.|+..+-.+..+.+|+. +|..... .--.+|...+ ..|.|. +|.+ +-++...|-.-|+..
T Consensus 271 hyhcl~e~C~ykr~~k~DvirH~~-~hkkrdn---sL~dgf~rfs-----~syhC~~~~C~k---sTsdV~~h~nFht~~ 338 (480)
T KOG4377|consen 271 HYHCLNEYCFYKRGQKNDVIRHVE-IHKKRDN---SLIDGFHRFS-----NSYHCTGQICEK---STSDVLLHDNFHTDK 338 (480)
T ss_pred hhcccCccccccccchhhhHHHHH-HHhhccc---ccccchhhcC-----ccchhhhcccCc---ccccccccCcccccc
Confidence 4666 369888888999999988 4433211 1111122111 226774 5888 556777787777654
Q ss_pred --------cccCCcChhccCCcHHHHHHhhhcC-------------------------------CCCCCc--CccccCCh
Q psy12199 495 --------FYQCDVCFKEFRSSVTLRNHTRRHD-------------------------------NFSCDE--CSVECQDL 533 (597)
Q Consensus 495 --------~y~C~~C~~~F~~~~~L~~H~~~H~-------------------------------~~~C~~--C~~~f~~~ 533 (597)
-|.|..||-++..+ ...|...|- .|-|.. |+.++.+.
T Consensus 339 ~n~GfrrthfhC~r~gCTdtfK--~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~ 416 (480)
T KOG4377|consen 339 RNNGFRRTHFHCQRIGCTDTFK--DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSV 416 (480)
T ss_pred ccCceecceeEEeccCCccccc--cccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEeh
Confidence 26788777333333 334443331 133543 88999999
Q ss_pred HHHHHHHHHhh
Q psy12199 534 NALRMHTLREH 544 (597)
Q Consensus 534 ~~L~~H~~~h~ 544 (597)
+++..|.+.|-
T Consensus 417 sqm~shkrkhe 427 (480)
T KOG4377|consen 417 SQMASHKRKHE 427 (480)
T ss_pred hhhhhhhhhhh
Confidence 99999887764
No 194
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=22.50 E-value=39 Score=22.65 Aligned_cols=9 Identities=22% Similarity=0.708 Sum_probs=4.2
Q ss_pred cccCCCCcc
Q psy12199 578 LKCQLCNVV 586 (597)
Q Consensus 578 ~~C~~C~~~ 586 (597)
+.|..||+.
T Consensus 38 ~~C~~Cgyt 46 (50)
T PRK00432 38 WHCGKCGYT 46 (50)
T ss_pred EECCCcCCE
Confidence 444444443
No 195
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.44 E-value=88 Score=20.78 Aligned_cols=11 Identities=18% Similarity=0.483 Sum_probs=5.5
Q ss_pred cccCCCCccee
Q psy12199 578 LKCQLCNVVVL 588 (597)
Q Consensus 578 ~~C~~C~~~f~ 588 (597)
|.|+.||+.+.
T Consensus 21 ~vC~~Cg~~~~ 31 (52)
T smart00661 21 FVCRKCGYEEP 31 (52)
T ss_pred EECCcCCCeEE
Confidence 44555555444
No 196
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=22.32 E-value=58 Score=26.78 Aligned_cols=24 Identities=29% Similarity=0.342 Sum_probs=20.1
Q ss_pred ceecccccccccchhhHHHHHHhccCc
Q psy12199 468 PYTCEICSKTYTVEGSLLTHYDMHSGE 494 (597)
Q Consensus 468 ~~~C~~C~~~f~~~~~L~~H~~~H~~e 494 (597)
-..|-++|+.|. +|++|+.+|.|-
T Consensus 76 ~IicLEDGkkfK---SLKRHL~t~~gm 99 (148)
T COG4957 76 YIICLEDGKKFK---SLKRHLTTHYGL 99 (148)
T ss_pred eEEEeccCcchH---HHHHHHhcccCC
Confidence 368999999995 699999998774
No 197
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=22.03 E-value=37 Score=21.81 Aligned_cols=12 Identities=25% Similarity=0.764 Sum_probs=6.9
Q ss_pred cccccCCCCcce
Q psy12199 576 VTLKCQLCNVVV 587 (597)
Q Consensus 576 ~~~~C~~C~~~f 587 (597)
.||+|..|+..|
T Consensus 12 ~~~~C~~C~~~F 23 (43)
T PF01428_consen 12 LPFKCKHCGKSF 23 (43)
T ss_dssp SHEE-TTTS-EE
T ss_pred CCeECCCCCccc
Confidence 467777777766
No 198
>PRK05580 primosome assembly protein PriA; Validated
Probab=21.32 E-value=52 Score=36.40 Aligned_cols=12 Identities=25% Similarity=0.653 Sum_probs=6.3
Q ss_pred Cccccccccccc
Q psy12199 215 VREYECEICKKK 226 (597)
Q Consensus 215 ~k~~~C~~C~~~ 226 (597)
.....|..||..
T Consensus 406 ~~~l~Ch~Cg~~ 417 (679)
T PRK05580 406 QRRLRCHHCGYQ 417 (679)
T ss_pred CCeEECCCCcCC
Confidence 344555666554
No 199
>COG1773 Rubredoxin [Energy production and conversion]
Probab=20.90 E-value=44 Score=22.86 Aligned_cols=12 Identities=25% Similarity=0.678 Sum_probs=7.9
Q ss_pred ccccCCCCccee
Q psy12199 577 TLKCQLCNVVVL 588 (597)
Q Consensus 577 ~~~C~~C~~~f~ 588 (597)
.|+|..||+.|.
T Consensus 3 ~~~C~~CG~vYd 14 (55)
T COG1773 3 RWRCSVCGYVYD 14 (55)
T ss_pred ceEecCCceEec
Confidence 367777777663
No 200
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=20.71 E-value=26 Score=22.12 Aligned_cols=10 Identities=30% Similarity=1.082 Sum_probs=5.0
Q ss_pred cccccccccc
Q psy12199 218 YECEICKKKF 227 (597)
Q Consensus 218 ~~C~~C~~~F 227 (597)
|.|..|+..+
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5555555443
No 202
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=20.59 E-value=74 Score=36.97 Aligned_cols=11 Identities=18% Similarity=0.839 Sum_probs=6.5
Q ss_pred eeecCcCcccc
Q psy12199 548 ILACEKCDVKF 558 (597)
Q Consensus 548 ~~~C~~C~~~F 558 (597)
+|.|+.||...
T Consensus 692 vy~CPsCGaev 702 (1337)
T PRK14714 692 VYVCPDCGAEV 702 (1337)
T ss_pred ceeCccCCCcc
Confidence 45666666653
No 203
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.44 E-value=49 Score=26.94 Aligned_cols=11 Identities=36% Similarity=0.987 Sum_probs=7.3
Q ss_pred eecCcCccccC
Q psy12199 549 LACEKCDVKFT 559 (597)
Q Consensus 549 ~~C~~C~~~F~ 559 (597)
+.|..|+..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 66777776664
No 204
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=20.30 E-value=22 Score=31.86 Aligned_cols=38 Identities=16% Similarity=0.191 Sum_probs=25.0
Q ss_pred ecccccccccchhhHHHHHHhccCc----cccCCcChhccCCc
Q psy12199 470 TCEICSKTYTVEGSLLTHYDMHSGE----FYQCDVCFKEFRSS 508 (597)
Q Consensus 470 ~C~~C~~~f~~~~~L~~H~~~H~~e----~y~C~~C~~~F~~~ 508 (597)
.|+.||........+..+ --+-++ .|.|+.||+....-
T Consensus 2 ~Cp~C~~~~~~~~~~~~~-IP~F~evii~sf~C~~CGyr~~ev 43 (192)
T TIGR00310 2 DCPSCGGECETVMKTVND-IPYFGEVLETSTICEHCGYRSNDV 43 (192)
T ss_pred cCCCCCCCCEEEEEEEcC-CCCcceEEEEEEECCCCCCcccee
Confidence 488888766665555554 344555 58888888876543
No 205
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.09 E-value=76 Score=17.23 Aligned_cols=8 Identities=25% Similarity=0.870 Sum_probs=5.5
Q ss_pred CCCcCccC
Q psy12199 366 VCEPCNLT 373 (597)
Q Consensus 366 ~C~~C~~~ 373 (597)
.|+.||..
T Consensus 15 fC~~CG~~ 22 (23)
T PF13240_consen 15 FCPNCGTP 22 (23)
T ss_pred chhhhCCc
Confidence 57777764
No 206
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.02 E-value=74 Score=33.70 Aligned_cols=27 Identities=22% Similarity=0.529 Sum_probs=16.2
Q ss_pred cccccccccccCchhhhhhhccccccCccccCccchh
Q psy12199 218 YECEICKKKFINKSTLKEHSVSHMSVKPFKCEICGHY 254 (597)
Q Consensus 218 ~~C~~C~~~F~~~~~L~~H~~~H~~~~~~~C~~C~~~ 254 (597)
..|+.|+-. +..|.......|..||..
T Consensus 223 ~~C~~C~~~----------l~~h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 223 LCCPNCDVS----------LTYHKKEGKLRCHYCGYQ 249 (505)
T ss_pred cCCCCCCCc----------eEEecCCCeEEcCCCcCc
Confidence 678888754 223334445667777655
Done!