Query psy4409
Match_columns 305
No_of_seqs 196 out of 2193
Neff 10.5
Searched_HMMs 46136
Date Sat Aug 17 00:47:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4409.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4409hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462|consensus 100.0 4.9E-29 1.1E-33 195.3 6.8 134 74-225 129-265 (279)
2 KOG2462|consensus 99.9 8.6E-28 1.9E-32 188.4 3.6 137 102-257 129-265 (279)
3 KOG1074|consensus 99.9 2.3E-27 4.9E-32 209.9 4.4 85 75-165 605-692 (958)
4 KOG3608|consensus 99.9 1.9E-24 4.2E-29 174.0 6.6 211 13-255 134-372 (467)
5 KOG3608|consensus 99.9 2E-23 4.4E-28 168.1 7.6 190 14-230 178-379 (467)
6 KOG3623|consensus 99.8 4.9E-22 1.1E-26 173.7 3.1 110 12-126 209-332 (1007)
7 KOG1074|consensus 99.8 5.8E-22 1.3E-26 175.9 2.6 54 75-128 353-406 (958)
8 KOG3576|consensus 99.7 1.3E-17 2.8E-22 124.8 4.1 127 10-203 114-240 (267)
9 KOG3576|consensus 99.7 7.4E-18 1.6E-22 126.1 1.8 115 138-263 115-240 (267)
10 KOG3623|consensus 99.6 5.4E-16 1.2E-20 136.3 1.5 119 76-225 211-331 (1007)
11 PLN03086 PRLI-interacting fact 99.3 3.7E-12 7.9E-17 112.9 8.6 102 104-228 454-565 (567)
12 PLN03086 PRLI-interacting fact 99.1 1.5E-10 3.3E-15 102.8 6.8 130 76-239 408-549 (567)
13 PHA00733 hypothetical protein 99.1 1.4E-10 3.1E-15 84.1 4.9 84 139-228 39-124 (128)
14 PHA00733 hypothetical protein 99.0 3.2E-10 6.8E-15 82.3 4.8 52 76-129 74-125 (128)
15 PHA02768 hypothetical protein; 99.0 2E-10 4.3E-15 68.4 1.7 43 175-219 5-47 (55)
16 KOG3993|consensus 99.0 1.3E-10 2.8E-15 97.0 0.7 52 76-127 268-319 (500)
17 KOG3993|consensus 98.9 2E-10 4.4E-15 95.9 -0.8 178 12-229 266-484 (500)
18 PHA02768 hypothetical protein; 98.8 2.1E-09 4.6E-14 64.0 1.8 42 76-119 6-47 (55)
19 PF13465 zf-H2C2_2: Zinc-finge 98.7 7.9E-09 1.7E-13 52.6 1.8 26 190-215 1-26 (26)
20 PHA00616 hypothetical protein 98.7 9.2E-09 2E-13 58.2 2.0 34 203-236 1-34 (44)
21 PF13465 zf-H2C2_2: Zinc-finge 98.6 4.1E-08 9E-13 49.9 2.6 26 90-115 1-26 (26)
22 PHA00616 hypothetical protein 98.4 1E-07 2.2E-12 54.0 1.6 39 175-213 1-39 (44)
23 PHA00732 hypothetical protein 98.3 5.7E-07 1.2E-11 59.1 2.4 47 175-227 1-48 (79)
24 PF05605 zf-Di19: Drought indu 98.3 1.6E-06 3.6E-11 52.8 4.3 51 175-228 2-54 (54)
25 PHA00732 hypothetical protein 98.1 2.2E-06 4.8E-11 56.3 2.4 44 76-125 2-46 (79)
26 PF05605 zf-Di19: Drought indu 98.1 7.2E-06 1.6E-10 50.0 4.5 49 76-127 3-53 (54)
27 PF00096 zf-C2H2: Zinc finger, 98.0 2.2E-06 4.8E-11 42.3 0.8 23 14-36 1-23 (23)
28 PF00096 zf-C2H2: Zinc finger, 98.0 3.4E-06 7.5E-11 41.6 1.4 22 204-225 1-22 (23)
29 PF12756 zf-C2H2_2: C2H2 type 97.9 5.4E-06 1.2E-10 58.0 2.2 26 15-40 1-26 (100)
30 PF13894 zf-C2H2_4: C2H2-type 97.9 6E-06 1.3E-10 41.1 1.8 24 204-227 1-24 (24)
31 PF13894 zf-C2H2_4: C2H2-type 97.9 6.2E-06 1.3E-10 41.0 1.4 24 14-37 1-24 (24)
32 PF13912 zf-C2H2_6: C2H2-type 97.8 1.1E-05 2.4E-10 41.5 1.2 26 13-38 1-26 (27)
33 COG5236 Uncharacterized conser 97.7 0.00015 3.1E-09 59.9 7.5 99 87-230 200-308 (493)
34 PF12756 zf-C2H2_2: C2H2 type 97.6 4.6E-05 9.9E-10 53.2 3.0 25 105-129 1-25 (100)
35 COG5189 SFP1 Putative transcri 97.6 2.8E-05 6.1E-10 63.3 1.7 27 11-37 347-375 (423)
36 PF13912 zf-C2H2_6: C2H2-type 97.6 3.3E-05 7.1E-10 39.6 1.3 25 203-227 1-25 (27)
37 COG5189 SFP1 Putative transcri 97.5 1.3E-05 2.9E-10 65.1 -1.0 29 100-128 346-376 (423)
38 PF06524 NOA36: NOA36 protein; 97.2 0.00038 8.3E-09 55.2 4.0 91 99-226 138-232 (314)
39 KOG1146|consensus 97.1 0.0002 4.4E-09 69.1 2.0 158 78-258 439-641 (1406)
40 KOG2231|consensus 97.1 0.0016 3.4E-08 59.7 7.2 118 23-162 124-260 (669)
41 PF13909 zf-H2C2_5: C2H2-type 97.1 0.0003 6.4E-09 34.9 1.3 24 204-228 1-24 (24)
42 KOG2231|consensus 97.1 0.0012 2.6E-08 60.4 5.9 101 86-207 125-240 (669)
43 smart00355 ZnF_C2H2 zinc finge 97.0 0.00056 1.2E-08 34.3 1.9 24 14-37 1-24 (26)
44 PF09237 GAGA: GAGA factor; I 96.9 0.0008 1.7E-08 39.1 2.2 29 202-230 23-51 (54)
45 PF13909 zf-H2C2_5: C2H2-type 96.9 0.00048 1E-08 34.1 1.1 24 14-38 1-24 (24)
46 smart00355 ZnF_C2H2 zinc finge 96.9 0.00081 1.8E-08 33.7 2.0 23 204-226 1-23 (26)
47 KOG2785|consensus 96.8 0.0017 3.6E-08 54.8 4.3 52 174-225 165-242 (390)
48 PF12874 zf-met: Zinc-finger o 96.8 0.00051 1.1E-08 34.3 0.8 23 14-36 1-23 (25)
49 PF09237 GAGA: GAGA factor; I 96.7 0.0017 3.6E-08 37.8 2.7 31 173-203 22-52 (54)
50 KOG2482|consensus 96.7 0.0012 2.7E-08 54.5 3.1 189 13-224 144-355 (423)
51 PF12874 zf-met: Zinc-finger o 96.6 0.00095 2.1E-08 33.3 1.0 22 204-225 1-22 (25)
52 PF12171 zf-C2H2_jaz: Zinc-fin 96.5 0.0015 3.3E-08 33.3 1.5 23 13-35 1-23 (27)
53 PRK04860 hypothetical protein; 96.4 0.0014 3E-08 49.6 1.3 39 174-216 118-156 (160)
54 KOG1146|consensus 96.3 0.0034 7.4E-08 61.1 3.5 110 8-126 460-612 (1406)
55 KOG2482|consensus 96.1 0.049 1.1E-06 45.4 8.8 56 204-263 280-362 (423)
56 PRK04860 hypothetical protein; 95.8 0.0077 1.7E-07 45.5 2.6 38 75-116 119-156 (160)
57 PF12171 zf-C2H2_jaz: Zinc-fin 95.5 0.0027 5.9E-08 32.3 -0.4 21 204-224 2-22 (27)
58 PF06524 NOA36: NOA36 protein; 95.5 0.024 5.1E-07 45.4 4.5 66 174-241 141-219 (314)
59 PF13913 zf-C2HC_2: zinc-finge 95.3 0.015 3.3E-07 28.9 1.8 22 13-35 2-23 (25)
60 KOG4173|consensus 95.2 0.023 4.9E-07 43.8 3.4 80 140-229 79-172 (253)
61 KOG2893|consensus 95.0 0.006 1.3E-07 48.0 -0.1 43 14-94 11-53 (341)
62 PF13913 zf-C2HC_2: zinc-finge 95.0 0.018 4E-07 28.6 1.7 19 205-224 4-22 (25)
63 KOG2893|consensus 94.8 0.008 1.7E-07 47.3 0.1 25 174-198 33-58 (341)
64 COG5236 Uncharacterized conser 94.8 0.011 2.3E-07 49.2 0.7 133 104-257 152-303 (493)
65 smart00451 ZnF_U1 U1-like zinc 94.6 0.025 5.5E-07 30.6 1.8 24 12-35 2-25 (35)
66 COG4049 Uncharacterized protei 94.2 0.018 3.9E-07 34.1 0.5 35 6-40 10-44 (65)
67 smart00451 ZnF_U1 U1-like zinc 93.8 0.042 9.1E-07 29.8 1.6 22 203-224 3-24 (35)
68 COG4049 Uncharacterized protei 93.8 0.032 6.8E-07 33.1 1.1 30 199-228 13-42 (65)
69 KOG2785|consensus 93.8 0.11 2.3E-06 44.3 4.5 52 75-126 166-243 (390)
70 PF12013 DUF3505: Protein of u 92.9 0.18 4E-06 35.6 4.1 25 204-228 81-109 (109)
71 cd00350 rubredoxin_like Rubred 92.9 0.059 1.3E-06 28.9 1.1 9 202-210 16-24 (33)
72 PF12013 DUF3505: Protein of u 92.6 0.57 1.2E-05 33.1 6.3 25 176-200 81-109 (109)
73 COG5048 FOG: Zn-finger [Genera 91.9 0.029 6.2E-07 50.2 -1.3 152 75-237 289-452 (467)
74 KOG4173|consensus 91.3 0.07 1.5E-06 41.2 0.4 54 76-129 107-172 (253)
75 COG5048 FOG: Zn-finger [Genera 88.8 0.19 4.1E-06 44.9 1.1 66 174-239 288-359 (467)
76 PF09538 FYDLN_acid: Protein o 88.4 0.33 7.2E-06 34.1 1.9 30 176-216 10-39 (108)
77 TIGR00622 ssl1 transcription f 88.2 0.66 1.4E-05 32.6 3.2 48 177-226 57-104 (112)
78 PF09538 FYDLN_acid: Protein o 88.0 0.34 7.3E-06 34.0 1.7 30 76-116 10-39 (108)
79 PF13719 zinc_ribbon_5: zinc-r 87.5 0.53 1.1E-05 25.9 2.0 34 76-114 3-36 (37)
80 TIGR02098 MJ0042_CXXC MJ0042 f 87.3 0.46 1E-05 26.2 1.7 34 76-114 3-36 (38)
81 PF13717 zinc_ribbon_4: zinc-r 86.9 0.61 1.3E-05 25.5 2.0 33 76-113 3-35 (36)
82 cd00729 rubredoxin_SM Rubredox 86.3 0.4 8.7E-06 25.8 1.0 7 204-210 19-25 (34)
83 KOG2186|consensus 85.9 0.53 1.2E-05 37.8 1.9 46 76-124 4-49 (276)
84 PF10571 UPF0547: Uncharacteri 85.5 0.62 1.3E-05 23.3 1.4 11 176-186 15-25 (26)
85 PF09986 DUF2225: Uncharacteri 84.9 0.16 3.5E-06 40.7 -1.4 43 174-216 4-61 (214)
86 PF09986 DUF2225: Uncharacteri 84.4 0.25 5.4E-06 39.6 -0.5 25 11-35 3-27 (214)
87 KOG1280|consensus 84.2 0.67 1.5E-05 39.0 1.9 36 203-238 79-116 (381)
88 smart00659 RPOLCX RNA polymera 83.8 0.85 1.8E-05 26.2 1.7 27 76-113 3-29 (44)
89 TIGR00622 ssl1 transcription f 83.1 2.5 5.4E-05 29.8 4.0 48 76-125 56-103 (112)
90 COG1592 Rubrerythrin [Energy p 83.0 0.74 1.6E-05 35.0 1.5 24 175-211 134-157 (166)
91 PRK00398 rpoP DNA-directed RNA 82.5 0.61 1.3E-05 27.1 0.8 29 76-114 4-32 (46)
92 COG2888 Predicted Zn-ribbon RN 82.4 0.82 1.8E-05 27.8 1.3 32 102-147 26-57 (61)
93 TIGR02300 FYDLN_acid conserved 81.0 1.1 2.3E-05 32.2 1.6 30 176-216 10-39 (129)
94 smart00734 ZnF_Rad18 Rad18-lik 80.9 1.4 3.1E-05 22.0 1.7 20 14-34 2-21 (26)
95 PF02892 zf-BED: BED zinc fing 79.9 1.4 2.9E-05 25.3 1.7 21 204-224 17-41 (45)
96 PF04959 ARS2: Arsenite-resist 79.8 0.64 1.4E-05 37.0 0.3 27 203-229 77-103 (214)
97 KOG2272|consensus 79.4 0.94 2E-05 36.4 1.1 49 66-116 128-176 (332)
98 KOG2807|consensus 78.9 4.4 9.6E-05 34.1 4.8 25 202-226 344-368 (378)
99 PF04959 ARS2: Arsenite-resist 78.4 0.62 1.4E-05 37.1 -0.2 31 10-40 74-104 (214)
100 PF05443 ROS_MUCR: ROS/MUCR tr 78.2 1.2 2.6E-05 32.5 1.3 24 204-230 73-96 (132)
101 COG1997 RPL43A Ribosomal prote 77.4 0.7 1.5E-05 30.5 -0.1 32 174-215 34-65 (89)
102 PRK00464 nrdR transcriptional 77.2 0.37 8E-06 36.2 -1.6 16 204-219 29-44 (154)
103 TIGR02605 CxxC_CxxC_SSSS putat 77.1 0.6 1.3E-05 27.9 -0.5 29 76-111 6-34 (52)
104 TIGR02300 FYDLN_acid conserved 77.0 1.6 3.4E-05 31.3 1.5 30 76-116 10-39 (129)
105 PF02176 zf-TRAF: TRAF-type zi 76.8 1.1 2.3E-05 27.6 0.6 40 174-214 8-53 (60)
106 TIGR00373 conserved hypothetic 76.2 1.4 3E-05 33.5 1.1 16 76-91 110-125 (158)
107 smart00531 TFIIE Transcription 75.7 2.8 6.1E-05 31.4 2.7 14 102-115 98-111 (147)
108 KOG2807|consensus 74.5 5 0.00011 33.8 4.0 20 174-193 289-308 (378)
109 PRK06266 transcription initiat 74.3 1.4 3E-05 34.2 0.8 15 103-117 117-131 (178)
110 KOG2186|consensus 74.1 1.7 3.8E-05 35.0 1.3 50 140-199 3-52 (276)
111 TIGR00373 conserved hypothetic 74.1 3.4 7.5E-05 31.3 2.8 30 174-212 108-137 (158)
112 smart00834 CxxC_CXXC_SSSS Puta 73.9 0.78 1.7E-05 25.7 -0.5 29 76-111 6-34 (41)
113 smart00531 TFIIE Transcription 73.6 3.1 6.6E-05 31.2 2.5 36 174-213 98-133 (147)
114 COG5151 SSL1 RNA polymerase II 73.3 3.3 7.3E-05 34.4 2.7 47 76-125 363-410 (421)
115 PF09723 Zn-ribbon_8: Zinc rib 73.0 0.68 1.5E-05 26.3 -0.9 13 175-187 5-17 (42)
116 PF03604 DNA_RNApol_7kD: DNA d 72.8 1.8 3.9E-05 22.9 0.7 27 76-113 1-27 (32)
117 COG1592 Rubrerythrin [Energy p 72.6 2.3 5E-05 32.3 1.6 22 76-110 135-156 (166)
118 PRK14890 putative Zn-ribbon RN 72.3 1.8 4E-05 26.4 0.8 14 103-116 25-38 (59)
119 smart00614 ZnF_BED BED zinc fi 71.2 2.8 6.1E-05 24.7 1.4 10 177-186 20-29 (50)
120 PF15269 zf-C2H2_7: Zinc-finge 70.8 4.5 9.7E-05 23.0 2.0 24 174-197 19-42 (54)
121 PF02176 zf-TRAF: TRAF-type zi 70.4 1.8 4E-05 26.5 0.5 40 76-116 10-55 (60)
122 KOG1280|consensus 70.0 4.6 9.9E-05 34.3 2.9 39 102-147 78-116 (381)
123 PRK06266 transcription initiat 68.9 4.2 9.2E-05 31.5 2.4 31 174-213 116-146 (178)
124 COG1996 RPC10 DNA-directed RNA 68.8 2.9 6.2E-05 24.6 1.0 29 75-113 6-34 (49)
125 PF07754 DUF1610: Domain of un 68.6 2.5 5.4E-05 20.7 0.7 11 11-21 14-24 (24)
126 PF05443 ROS_MUCR: ROS/MUCR tr 67.6 2.7 5.9E-05 30.7 1.0 27 11-40 70-96 (132)
127 PF12907 zf-met2: Zinc-binding 67.4 5.6 0.00012 22.3 2.0 27 204-230 2-31 (40)
128 COG1198 PriA Primosomal protei 66.7 1.7 3.8E-05 41.3 -0.2 13 174-186 443-455 (730)
129 KOG2071|consensus 66.5 5.5 0.00012 36.5 2.8 26 174-199 417-442 (579)
130 PF14353 CpXC: CpXC protein 66.1 7.1 0.00015 28.4 3.0 47 76-123 2-58 (128)
131 PRK04023 DNA polymerase II lar 65.8 7.3 0.00016 38.2 3.6 12 175-186 663-674 (1121)
132 PF08274 PhnA_Zn_Ribbon: PhnA 65.7 2 4.4E-05 22.3 0.0 9 203-211 19-27 (30)
133 KOG2071|consensus 63.3 5.2 0.00011 36.7 2.1 30 11-40 416-445 (579)
134 COG5151 SSL1 RNA polymerase II 62.9 8.1 0.00018 32.3 2.9 25 202-226 387-411 (421)
135 PHA00626 hypothetical protein 62.4 4 8.6E-05 24.5 0.8 17 11-27 21-37 (59)
136 PRK09678 DNA-binding transcrip 61.9 1.8 3.8E-05 27.9 -0.8 12 204-215 28-41 (72)
137 COG5188 PRP9 Splicing factor 3 61.7 14 0.0003 31.6 4.1 24 12-35 237-260 (470)
138 PF13240 zinc_ribbon_2: zinc-r 59.4 3.8 8.1E-05 19.8 0.3 6 178-183 16-21 (23)
139 KOG2593|consensus 59.1 8 0.00017 34.0 2.5 37 174-213 127-163 (436)
140 PRK04023 DNA polymerase II lar 57.8 12 0.00025 36.9 3.4 8 140-147 626-633 (1121)
141 KOG2593|consensus 56.1 8.5 0.00018 33.9 2.1 34 76-112 129-162 (436)
142 PF13453 zf-TFIIB: Transcripti 55.8 5.1 0.00011 22.5 0.5 17 204-220 20-36 (41)
143 PF09845 DUF2072: Zn-ribbon co 54.3 34 0.00074 24.9 4.6 15 203-217 1-15 (131)
144 COG1571 Predicted DNA-binding 53.5 7.9 0.00017 34.2 1.5 30 177-217 352-381 (421)
145 PF13878 zf-C2H2_3: zinc-finge 52.4 14 0.00031 20.7 2.0 24 76-99 14-39 (41)
146 PF13451 zf-trcl: Probable zin 52.3 10 0.00022 22.3 1.4 20 101-120 2-21 (49)
147 COG1655 Uncharacterized protei 50.7 3.6 7.8E-05 32.8 -0.8 39 174-212 18-71 (267)
148 COG3357 Predicted transcriptio 50.3 12 0.00026 25.1 1.6 14 174-187 57-70 (97)
149 smart00154 ZnF_AN1 AN1-like Zi 50.1 8.6 0.00019 21.4 0.8 13 13-25 12-24 (39)
150 PF14446 Prok-RING_1: Prokaryo 49.7 8 0.00017 23.3 0.7 26 177-214 7-32 (54)
151 COG4530 Uncharacterized protei 49.2 11 0.00024 26.1 1.4 28 76-114 10-37 (129)
152 PF04780 DUF629: Protein of un 49.0 10 0.00022 34.1 1.5 28 202-229 56-83 (466)
153 PRK03824 hypA hydrogenase nick 48.5 6 0.00013 29.1 0.1 14 75-88 70-83 (135)
154 PF13824 zf-Mss51: Zinc-finger 48.2 13 0.00028 22.5 1.4 11 203-213 14-24 (55)
155 PRK00432 30S ribosomal protein 47.0 8.2 0.00018 22.8 0.5 11 203-213 37-47 (50)
156 TIGR00595 priA primosomal prot 46.7 6.9 0.00015 36.0 0.2 12 174-185 221-232 (505)
157 COG4957 Predicted transcriptio 45.6 9.4 0.0002 27.7 0.7 22 204-228 77-98 (148)
158 COG4888 Uncharacterized Zn rib 45.5 3.5 7.5E-05 28.1 -1.4 37 174-214 21-57 (104)
159 PF05290 Baculo_IE-1: Baculovi 45.0 17 0.00036 26.4 1.8 12 174-185 79-90 (140)
160 KOG4118|consensus 44.9 17 0.00037 22.6 1.6 30 204-233 39-68 (74)
161 KOG4167|consensus 44.4 5 0.00011 37.6 -1.0 26 175-200 792-817 (907)
162 PTZ00255 60S ribosomal protein 43.6 13 0.00029 25.0 1.1 11 203-213 54-64 (90)
163 PRK12380 hydrogenase nickel in 43.5 13 0.00028 26.4 1.1 11 176-186 71-81 (113)
164 KOG3408|consensus 43.4 12 0.00027 26.5 0.9 28 10-37 54-81 (129)
165 KOG4167|consensus 43.3 3.9 8.5E-05 38.3 -1.9 30 11-40 790-819 (907)
166 PF01780 Ribosomal_L37ae: Ribo 43.2 14 0.0003 24.9 1.2 8 140-147 35-42 (90)
167 TIGR00100 hypA hydrogenase nic 42.8 11 0.00023 27.0 0.6 11 176-186 71-81 (115)
168 PF05191 ADK_lid: Adenylate ki 41.9 4.4 9.5E-05 22.1 -1.1 10 177-186 3-12 (36)
169 PF11789 zf-Nse: Zinc-finger o 41.6 19 0.0004 22.0 1.5 31 202-236 23-53 (57)
170 PF08209 Sgf11: Sgf11 (transcr 40.4 17 0.00038 19.3 1.0 23 12-35 3-25 (33)
171 KOG3408|consensus 39.9 20 0.00044 25.5 1.6 27 100-126 54-80 (129)
172 KOG2907|consensus 39.1 11 0.00024 26.4 0.2 31 76-116 8-38 (116)
173 PF07282 OrfB_Zn_ribbon: Putat 39.0 22 0.00047 22.4 1.6 28 76-113 29-56 (69)
174 TIGR01562 FdhE formate dehydro 38.9 25 0.00055 29.9 2.3 25 174-212 209-233 (305)
175 TIGR00280 L37a ribosomal prote 38.4 15 0.00033 24.8 0.8 10 204-213 54-63 (91)
176 KOG0978|consensus 38.2 6.6 0.00014 37.1 -1.3 17 174-190 677-693 (698)
177 KOG1842|consensus 37.9 21 0.00045 31.6 1.7 26 203-228 15-40 (505)
178 PF01428 zf-AN1: AN1-like Zinc 37.8 10 0.00022 21.5 -0.1 14 12-25 12-25 (43)
179 COG3364 Zn-ribbon containing p 37.8 39 0.00084 23.3 2.6 14 203-216 2-15 (112)
180 PRK00420 hypothetical protein; 37.4 16 0.00034 25.9 0.7 13 174-186 39-51 (112)
181 PRK14873 primosome assembly pr 37.3 11 0.00023 36.0 -0.1 13 174-186 391-403 (665)
182 PRK05580 primosome assembly pr 37.3 8.7 0.00019 36.8 -0.7 12 174-185 389-400 (679)
183 PRK10220 hypothetical protein; 36.9 20 0.00044 25.0 1.2 30 177-217 5-34 (111)
184 COG3091 SprT Zn-dependent meta 36.8 15 0.00032 27.4 0.6 34 174-212 116-149 (156)
185 PF10276 zf-CHCC: Zinc-finger 36.2 12 0.00027 20.9 0.1 12 12-23 28-39 (40)
186 PRK00564 hypA hydrogenase nick 36.2 20 0.00043 25.7 1.1 11 176-186 72-82 (117)
187 PF04423 Rad50_zn_hook: Rad50 36.0 12 0.00027 22.3 0.1 13 15-27 22-34 (54)
188 PF14311 DUF4379: Domain of un 36.0 26 0.00056 21.0 1.5 13 176-188 29-41 (55)
189 TIGR00686 phnA alkylphosphonat 36.0 19 0.00041 25.1 0.9 29 177-216 4-32 (109)
190 PF12760 Zn_Tnp_IS1595: Transp 35.8 25 0.00053 20.2 1.3 9 202-210 36-44 (46)
191 PRK03564 formate dehydrogenase 35.6 23 0.00049 30.2 1.5 24 174-211 211-234 (309)
192 KOG0717|consensus 35.2 19 0.00042 32.1 1.1 22 204-225 293-314 (508)
193 KOG2636|consensus 35.0 28 0.00061 30.9 2.0 28 197-224 395-423 (497)
194 COG1773 Rubredoxin [Energy pro 34.8 16 0.00034 22.1 0.4 14 12-25 2-15 (55)
195 PF01363 FYVE: FYVE zinc finge 34.2 25 0.00054 22.1 1.3 29 76-116 10-38 (69)
196 smart00440 ZnF_C2C2 C2C2 Zinc 34.1 5 0.00011 22.5 -1.8 10 104-113 29-38 (40)
197 PF04780 DUF629: Protein of un 34.1 33 0.00072 31.0 2.4 29 103-131 57-85 (466)
198 PRK14714 DNA polymerase II lar 33.8 31 0.00066 35.2 2.3 8 140-147 667-674 (1337)
199 PRK03681 hypA hydrogenase nick 33.7 22 0.00048 25.3 1.0 11 176-186 71-81 (114)
200 COG1198 PriA Primosomal protei 33.3 14 0.00031 35.4 0.0 12 101-112 473-484 (730)
201 PRK03976 rpl37ae 50S ribosomal 33.2 20 0.00043 24.2 0.7 10 204-213 55-64 (90)
202 COG0068 HypF Hydrogenase matur 33.0 6.1 0.00013 37.2 -2.3 56 76-147 124-180 (750)
203 KOG1842|consensus 32.9 20 0.00044 31.7 0.9 29 12-40 14-42 (505)
204 COG4391 Uncharacterized protei 32.0 18 0.00039 22.3 0.3 14 11-24 46-59 (62)
205 KOG3214|consensus 30.3 15 0.00032 25.1 -0.3 17 201-217 45-61 (109)
206 KOG4317|consensus 30.0 15 0.00033 30.8 -0.3 19 76-94 20-38 (383)
207 PF07649 C1_3: C1-like domain; 30.0 25 0.00053 18.0 0.6 11 174-184 14-24 (30)
208 TIGR03826 YvyF flagellar opero 29.9 47 0.001 24.5 2.2 34 173-223 79-112 (137)
209 PF10013 DUF2256: Uncharacteri 29.8 38 0.00081 19.2 1.3 17 14-30 9-25 (42)
210 PF07975 C1_4: TFIIH C1-like d 29.8 24 0.00052 21.0 0.6 25 12-36 20-44 (51)
211 KOG4377|consensus 29.6 27 0.0006 30.6 1.1 129 17-198 277-426 (480)
212 PF12773 DZR: Double zinc ribb 29.4 43 0.00093 19.4 1.7 8 178-185 15-22 (50)
213 COG4896 Uncharacterized protei 29.1 36 0.00078 20.9 1.2 41 76-116 3-44 (68)
214 KOG0717|consensus 29.0 31 0.00066 30.9 1.3 22 176-197 293-314 (508)
215 COG2331 Uncharacterized protei 28.7 18 0.00038 23.4 -0.1 33 174-213 11-43 (82)
216 KOG2636|consensus 28.5 40 0.00086 30.0 1.9 29 97-125 395-424 (497)
217 COG3677 Transposase and inacti 28.5 30 0.00065 25.2 1.0 18 9-26 49-66 (129)
218 PF08790 zf-LYAR: LYAR-type C2 28.4 14 0.0003 18.9 -0.5 9 177-185 2-10 (28)
219 smart00064 FYVE Protein presen 28.2 31 0.00066 21.6 0.9 10 177-186 12-21 (68)
220 PRK12496 hypothetical protein; 28.1 36 0.00078 26.0 1.4 28 175-214 127-154 (164)
221 PF14205 Cys_rich_KTR: Cystein 27.9 18 0.00039 21.7 -0.2 11 174-184 27-37 (55)
222 cd00065 FYVE FYVE domain; Zinc 27.8 44 0.00096 19.9 1.6 29 76-116 3-31 (57)
223 COG1645 Uncharacterized Zn-fin 27.7 24 0.00052 25.7 0.4 11 175-185 44-54 (131)
224 PF04216 FdhE: Protein involve 27.7 5.9 0.00013 33.5 -3.2 50 174-238 196-245 (290)
225 cd00730 rubredoxin Rubredoxin; 27.7 29 0.00062 20.6 0.6 13 13-25 1-13 (50)
226 PF10263 SprT-like: SprT-like 27.1 17 0.00038 27.3 -0.5 33 174-214 122-154 (157)
227 PF06220 zf-U1: U1 zinc finger 27.0 55 0.0012 18.0 1.7 22 12-33 2-25 (38)
228 COG1594 RPB9 DNA-directed RNA 26.1 13 0.00028 26.4 -1.2 14 103-116 22-35 (113)
229 KOG0320|consensus 26.0 39 0.00084 26.0 1.2 19 9-27 127-145 (187)
230 PF13248 zf-ribbon_3: zinc-rib 25.8 44 0.00096 16.5 1.1 6 142-147 4-9 (26)
231 PF07295 DUF1451: Protein of u 25.6 18 0.0004 27.0 -0.5 41 63-114 101-141 (146)
232 PF00301 Rubredoxin: Rubredoxi 25.5 21 0.00046 20.8 -0.2 13 13-25 1-13 (47)
233 PF01155 HypA: Hydrogenase exp 25.0 42 0.0009 23.8 1.2 8 176-183 87-94 (113)
234 KOG4124|consensus 24.5 24 0.00051 30.2 -0.1 22 101-123 211-232 (442)
235 COG1571 Predicted DNA-binding 24.5 48 0.001 29.5 1.7 32 76-118 351-382 (421)
236 PTZ00448 hypothetical protein; 24.4 50 0.0011 28.7 1.8 23 13-35 314-336 (373)
237 PHA02998 RNA polymerase subuni 24.1 12 0.00025 28.7 -1.8 11 204-214 172-182 (195)
238 KOG4364|consensus 24.1 87 0.0019 29.6 3.2 26 234-259 487-512 (811)
239 COG0068 HypF Hydrogenase matur 23.8 17 0.00036 34.4 -1.2 56 177-239 125-181 (750)
240 PLN02748 tRNA dimethylallyltra 23.7 54 0.0012 29.9 1.9 26 11-36 416-442 (468)
241 PTZ00448 hypothetical protein; 23.7 55 0.0012 28.5 1.9 25 103-127 314-338 (373)
242 PF11931 DUF3449: Domain of un 23.5 27 0.00058 27.5 0.0 23 140-162 101-123 (196)
243 PRK00762 hypA hydrogenase nick 23.4 28 0.0006 25.2 0.1 10 176-186 71-80 (124)
244 PF14255 Cys_rich_CPXG: Cystei 22.5 33 0.00072 20.5 0.3 10 205-214 2-11 (52)
245 COG1998 RPS31 Ribosomal protei 22.3 31 0.00068 20.2 0.1 10 203-212 37-46 (51)
246 PF01927 Mut7-C: Mut7-C RNAse 22.3 42 0.00092 25.0 0.9 11 203-213 124-134 (147)
247 COG5188 PRP9 Splicing factor 3 21.9 50 0.0011 28.4 1.3 29 7-35 368-397 (470)
248 PF09963 DUF2197: Uncharacteri 21.9 32 0.00069 20.9 0.1 11 202-212 30-40 (56)
249 cd00924 Cyt_c_Oxidase_Vb Cytoc 21.8 19 0.00042 24.7 -0.9 18 196-214 73-90 (97)
250 PF02591 DUF164: Putative zinc 21.5 69 0.0015 19.2 1.6 33 76-112 23-55 (56)
251 KOG3002|consensus 21.3 1.5E+02 0.0032 25.3 4.0 76 76-164 81-162 (299)
252 KOG0402|consensus 21.0 51 0.0011 21.7 0.9 30 76-115 37-66 (92)
253 TIGR01206 lysW lysine biosynth 20.7 45 0.00098 20.1 0.6 12 13-24 2-13 (54)
254 PF07800 DUF1644: Protein of u 20.6 1.6E+02 0.0034 22.3 3.5 54 75-130 80-135 (162)
255 PF04438 zf-HIT: HIT zinc fing 20.4 38 0.00082 17.5 0.2 16 11-26 11-26 (30)
256 PF14447 Prok-RING_4: Prokaryo 20.4 57 0.0012 19.7 1.0 16 10-25 36-51 (55)
257 COG5152 Uncharacterized conser 20.3 37 0.00081 26.5 0.2 15 174-188 195-209 (259)
No 1
>KOG2462|consensus
Probab=99.95 E-value=4.9e-29 Score=195.33 Aligned_cols=134 Identities=23% Similarity=0.527 Sum_probs=126.9
Q ss_pred CCcccCCCCccCCCcHHHHHHHHhhCC---CCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccc
Q psy4409 74 FNFTCLVCDYHSPRSIDMRRHIRRHTG---EKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPL 150 (305)
Q Consensus 74 ~~~~C~~C~~~f~~~~~l~~H~~~h~~---~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~ 150 (305)
..|+|..|++.+.+.+.|.+|.++|.. .+.|.|++|++.|.+...|..|+++ |.. ++.|.+|| +.
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirT-H~l----------~c~C~iCG-Ka 196 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRT-HTL----------PCECGICG-KA 196 (279)
T ss_pred CceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhc-cCC----------Cccccccc-cc
Confidence 359999999999999999999999965 5779999999999999999999999 665 89999999 99
Q ss_pred hhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHh
Q psy4409 151 YNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKD 225 (305)
Q Consensus 151 ~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 225 (305)
|.....|+.|+++|+|+ +||.|+.|+++|...++|+.||++|.+.|+|+|..|++.|..++.|.+|...
T Consensus 197 FSRPWLLQGHiRTHTGE------KPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 197 FSRPWLLQGHIRTHTGE------KPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccchHHhhcccccccCC------CCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
Confidence 99999999999999999 9999999999999999999999999999999999999999999999999875
No 2
>KOG2462|consensus
Probab=99.94 E-value=8.6e-28 Score=188.37 Aligned_cols=137 Identities=20% Similarity=0.450 Sum_probs=126.6
Q ss_pred CCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCcccCCC
Q psy4409 102 KPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVC 181 (305)
Q Consensus 102 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C 181 (305)
..|+|+.|++.|.+..+|.+|.++ |.. ..+...+.|+.|+ +.+.+..+|..|+++|. .+++|.+|
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~-H~~-----~~s~ka~~C~~C~-K~YvSmpALkMHirTH~--------l~c~C~iC 193 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQT-HRS-----LDSKKAFSCKYCG-KVYVSMPALKMHIRTHT--------LPCECGIC 193 (279)
T ss_pred Cceeccccccccccccccchhhcc-ccc-----ccccccccCCCCC-ceeeehHHHhhHhhccC--------CCcccccc
Confidence 459999999999999999999999 554 3445589999999 99999999999999988 56899999
Q ss_pred cccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHhcCCccccCCCCCCCCCCceeeecCCcccccee
Q psy4409 182 PYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKDQHSYDSFRSSTKKPGKYGVLIVKGSNISTMRV 257 (305)
Q Consensus 182 ~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~c~~c~~~~~~~~~~~~~~~~h~~~ 257 (305)
|+.|...+.|+-|+|+|+|+|||.|+.|++.|..++.|+.||++|-+.++|.|..|++ +|...+.|..|...
T Consensus 194 GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~K----sFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 194 GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGK----SFALKSYLNKHSES 265 (279)
T ss_pred cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhh----HHHHHHHHHHhhhh
Confidence 9999999999999999999999999999999999999999999999999999999966 89999999998754
No 3
>KOG1074|consensus
Probab=99.93 E-value=2.3e-27 Score=209.86 Aligned_cols=85 Identities=27% Similarity=0.563 Sum_probs=71.5
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccC---CCCccch
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCT---FCRDPLY 151 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~---~C~~~~~ 151 (305)
+.+|-+|-++....+.|+.|+++|+|++||+|.+||+.|.++.+|+.||.. |.... .--..+.|+ +|- +-|
T Consensus 605 PNqCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~v-Hka~p----~~R~q~ScP~~~ic~-~kf 678 (958)
T KOG1074|consen 605 PNQCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSV-HKAKP----PARVQFSCPSTFICQ-KKF 678 (958)
T ss_pred ccceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccc-cccCc----cccccccCCchhhhc-ccc
Confidence 488999999999999999999999999999999999999999999999998 54421 112467788 887 777
Q ss_pred hcHHHHHHHHhhhc
Q psy4409 152 NDLKILLQHTKNCK 165 (305)
Q Consensus 152 ~~~~~l~~h~~~~~ 165 (305)
...-.|..|++.|.
T Consensus 679 tn~V~lpQhIriH~ 692 (958)
T KOG1074|consen 679 TNAVTLPQHIRIHL 692 (958)
T ss_pred cccccccceEEeec
Confidence 77777777777765
No 4
>KOG3608|consensus
Probab=99.90 E-value=1.9e-24 Score=173.98 Aligned_cols=211 Identities=18% Similarity=0.375 Sum_probs=151.0
Q ss_pred cccCC--CCCCcCcChHHHHhhhhhccccc-------------------cceeeehhhhccchHHHHHhhhccCCCCCCC
Q psy4409 13 PYTCY--FCNFKSAHMSSINNHLKIKHLEK-------------------IQCRYSILKLQSHEESLVQHAKRCSYVPRPN 71 (305)
Q Consensus 13 ~~~C~--~C~~~f~~~~~l~~H~~~h~~~~-------------------~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~ 71 (305)
-|.|. .|+..|.+...|..|+..|..-. ..|-+.+.++ ..|++|+ +.|.+++.
T Consensus 134 ~f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~Ct~~~~~k----~~LreH~-r~Hs~eKv- 207 (467)
T KOG3608|consen 134 NFRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMCTKHMGNK----YRLREHI-RTHSNEKV- 207 (467)
T ss_pred hhccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhhhhhhccH----HHHHHHH-HhcCCCeE-
Confidence 35665 48888888888888876665321 1234444455 7888887 67777766
Q ss_pred CCCCcccCCCCccCCCcHHHHHHHHhh--CCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCcc
Q psy4409 72 IQFNFTCLVCDYHSPRSIDMRRHIRRH--TGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDP 149 (305)
Q Consensus 72 ~~~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~ 149 (305)
..|+.||..|.+...|-.|++.. ....+|.|..|.+.|.+...|..|+.. |.. .|+|+.|+ .
T Consensus 208 ----vACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~r-Hvn----------~ykCplCd-m 271 (467)
T KOG3608|consen 208 ----VACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVR-HVN----------CYKCPLCD-M 271 (467)
T ss_pred ----EecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHH-hhh----------cccccccc-c
Confidence 78888888888888888887643 345678888888888888888888877 554 77888887 7
Q ss_pred chhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCcc--chhhcCChHHHHHHHHhcC
Q psy4409 150 LYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGF--CSLKFSRRDNLRRHLKDQH 227 (305)
Q Consensus 150 ~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~hh 227 (305)
....++.|..|++..+.. .+||+|..|...|.+.+.|..|..+|. +..|+|.. |..+|.++.+|++|++.+|
T Consensus 272 tc~~~ssL~~H~r~rHs~-----dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evh 345 (467)
T KOG3608|consen 272 TCSSASSLTTHIRYRHSK-----DKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVH 345 (467)
T ss_pred CCCChHHHHHHHHhhhcc-----CCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhc
Confidence 777888888887654432 378888888888888888888888777 55688877 8888888888888888777
Q ss_pred -C--ccccCCCCCCCCCCceeeecCCccccc
Q psy4409 228 -S--YDSFRSSTKKPGKYGVLIVKGSNISTM 255 (305)
Q Consensus 228 -~--~~~~~c~~c~~~~~~~~~~~~~~~~h~ 255 (305)
+ ..+|.|..|.. .|..-.+|..|+
T Consensus 346 Eg~np~~Y~CH~Cdr----~ft~G~~L~~HL 372 (467)
T KOG3608|consen 346 EGNNPILYACHCCDR----FFTSGKSLSAHL 372 (467)
T ss_pred cCCCCCceeeecchh----hhccchhHHHHH
Confidence 3 33678888865 344444444444
No 5
>KOG3608|consensus
Probab=99.89 E-value=2e-23 Score=168.13 Aligned_cols=190 Identities=24% Similarity=0.454 Sum_probs=162.0
Q ss_pred ccCC--CCCCcCcChHHHHhhhhhccccc----cceeeehhhhccchHHHHHhhhccCC-CCCCCCCCCcccCCCCccCC
Q psy4409 14 YTCY--FCNFKSAHMSSINNHLKIKHLEK----IQCRYSILKLQSHEESLVQHAKRCSY-VPRPNIQFNFTCLVCDYHSP 86 (305)
Q Consensus 14 ~~C~--~C~~~f~~~~~l~~H~~~h~~~~----~~c~~~~~~~~~~~~~l~~h~~~~h~-~~~~~~~~~~~C~~C~~~f~ 86 (305)
+.|. .|.+.|.+++.|+.|++.|.+++ +.|+..|.+. ..|..|.++-.. ... +|.|..|.+.|.
T Consensus 178 ~~C~W~~Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~----tkl~DH~rRqt~l~~n-----~fqC~~C~KrFa 248 (467)
T KOG3608|consen 178 TMCNWAMCTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTK----TKLFDHLRRQTELNTN-----SFQCAQCFKRFA 248 (467)
T ss_pred eeccchhhhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccc----cHHHHHHHhhhhhcCC-----chHHHHHHHHHh
Confidence 5665 48888888888888888888888 6788888887 777777654332 222 399999999999
Q ss_pred CcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcC
Q psy4409 87 RSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKG 166 (305)
Q Consensus 87 ~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~ 166 (305)
+...|..|+..|. .-|+|+.|..+....+.|..|++..|.. ..+|+|..|+ ..+.....|..|...|..
T Consensus 249 TeklL~~Hv~rHv--n~ykCplCdmtc~~~ssL~~H~r~rHs~--------dkpfKCd~Cd-~~c~~esdL~kH~~~HS~ 317 (467)
T KOG3608|consen 249 TEKLLKSHVVRHV--NCYKCPLCDMTCSSASSLTTHIRYRHSK--------DKPFKCDECD-TRCVRESDLAKHVQVHSK 317 (467)
T ss_pred HHHHHHHHHHHhh--hcccccccccCCCChHHHHHHHHhhhcc--------CCCccccchh-hhhccHHHHHHHHHhccc
Confidence 9999999999986 5699999999999999999999998764 3499999999 999999999999998885
Q ss_pred ccccCCCCCcccCC--CcccccCcHHHHHHHHHhC-CC--CCccCccchhhcCChHHHHHHHHhcCCcc
Q psy4409 167 AFRENDSYRYVCMV--CPYHCRQNESMKRHLRKHT-KD--KPYECGFCSLKFSRRDNLRRHLKDQHSYD 230 (305)
Q Consensus 167 ~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~-~~--~~~~C~~C~~~f~~~~~l~~H~~~hh~~~ 230 (305)
-.|.|.. |...|++...|++|++.++ |. .+|.|-.|.+.|++=..|..|+.+.|+.+
T Consensus 318 -------~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~ 379 (467)
T KOG3608|consen 318 -------TVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRFFTSGKSLSAHLMKKHGFR 379 (467)
T ss_pred -------cceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhhhccchhHHHHHHHhhccc
Confidence 4789998 9999999999999988654 54 45999999999999999999999988753
No 6
>KOG3623|consensus
Probab=99.84 E-value=4.9e-22 Score=173.71 Aligned_cols=110 Identities=25% Similarity=0.536 Sum_probs=90.3
Q ss_pred CcccCCCCCCcCcChHHHHhhhhhccccc------cceeeehhhhccchHHHHHhhhccCCCCCCC--------CCCCcc
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKIKHLEK------IQCRYSILKLQSHEESLVQHAKRCSYVPRPN--------IQFNFT 77 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~------~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~--------~~~~~~ 77 (305)
....|++|.+.+.....|..|++-.|... ..|..+|..+ ..|-+|+ ..|....+. .-..|+
T Consensus 209 qlltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyR----tQLErhm-~~hkpg~dqa~sltqsa~lRKFK 283 (1007)
T KOG3623|consen 209 QLLTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYR----TQLERHM-QLHKPGGDQAISLTQSALLRKFK 283 (1007)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhH----HHHHHHH-HhhcCCCcccccccchhhhcccc
Confidence 34678889888888888888887776655 5677888888 8888888 555433322 123499
Q ss_pred cCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHh
Q psy4409 78 CLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIK 126 (305)
Q Consensus 78 C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~ 126 (305)
|..|++.|..+-.|+.|+++|.|++||.|+-|+++|.....+..||...
T Consensus 284 CtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 284 CTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSK 332 (1007)
T ss_pred ccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCccccccccc
Confidence 9999999999999999999999999999999999999999999998764
No 7
>KOG1074|consensus
Probab=99.84 E-value=5.8e-22 Score=175.93 Aligned_cols=54 Identities=30% Similarity=0.640 Sum_probs=50.9
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhcC
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHT 128 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~ 128 (305)
..+|.+|.+.|.+.+.|+.|++.|+|++||+|.+||.+|.++.+|+.|...|+.
T Consensus 353 khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e 406 (958)
T KOG1074|consen 353 KHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHRE 406 (958)
T ss_pred cchhhhhHhhcCchhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccc
Confidence 378999999999999999999999999999999999999999999999988643
No 8
>KOG3576|consensus
Probab=99.69 E-value=1.3e-17 Score=124.84 Aligned_cols=127 Identities=31% Similarity=0.598 Sum_probs=101.4
Q ss_pred CCCcccCCCCCCcCcChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCCcH
Q psy4409 10 GEKPYTCYFCNFKSAHMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPRSI 89 (305)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~~~ 89 (305)
+...|.|.+|++.|.-...|.+|++-|.. +++ |-|..||+.|....
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~------------------vkr----------------~lct~cgkgfndtf 159 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSD------------------VKR----------------HLCTFCGKGFNDTF 159 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccH------------------HHH----------------HHHhhccCcccchh
Confidence 45679999999999999999999976643 222 67899999999999
Q ss_pred HHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcCccc
Q psy4409 90 DMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKGAFR 169 (305)
Q Consensus 90 ~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~ 169 (305)
+|+.|+++|+|.+||+|..|++.|...-.|..|++..|... ..+.. .
T Consensus 160 dlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~------------------~~yay---------------k 206 (267)
T KOG3576|consen 160 DLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQ------------------HQYAY---------------K 206 (267)
T ss_pred hhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCch------------------HHHHH---------------H
Confidence 99999999999999999999999999999999999877651 11111 1
Q ss_pred cCCCCCcccCCCcccccCcHHHHHHHHHhCCCCC
Q psy4409 170 ENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKP 203 (305)
Q Consensus 170 ~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 203 (305)
+...+.|.|..||..-.....+..|+..|+...|
T Consensus 207 err~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 207 ERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 1122678888888888888888888888776544
No 9
>KOG3576|consensus
Probab=99.68 E-value=7.4e-18 Score=126.10 Aligned_cols=115 Identities=23% Similarity=0.415 Sum_probs=90.1
Q ss_pred cCccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChH
Q psy4409 138 STRIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRD 217 (305)
Q Consensus 138 ~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 217 (305)
...|.|.+|+ +.|.....|..|++.|... +++.|..||++|...-.|++|+++|+|.+||+|..|++.|+.+-
T Consensus 115 ~d~ftCrvCg-K~F~lQRmlnrh~kch~~v------kr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrc 187 (267)
T KOG3576|consen 115 QDSFTCRVCG-KKFGLQRMLNRHLKCHSDV------KRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRC 187 (267)
T ss_pred CCeeeeehhh-hhhhHHHHHHHHhhhccHH------HHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhc
Confidence 3456677776 6666666666676666665 78889999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCC-----------ccccCCCCCCCCCCceeeecCCccccceecCCCCC
Q psy4409 218 NLRRHLKDQHS-----------YDSFRSSTKKPGKYGVLIVKGSNISTMRVTSPSSQ 263 (305)
Q Consensus 218 ~l~~H~~~hh~-----------~~~~~c~~c~~~~~~~~~~~~~~~~h~~~~~~~~~ 263 (305)
.|..|+++.|+ .+.|.|..|+. +.........|+..+.|.+.
T Consensus 188 sleshl~kvhgv~~~yaykerr~kl~vcedcg~----t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 188 SLESHLKKVHGVQHQYAYKERRAKLYVCEDCGY----TSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred cHHHHHHHHcCchHHHHHHHhhhheeeecccCC----CCCChhHHHHHHHhcCCCCH
Confidence 99999998887 35788999876 33455566777777777653
No 10
>KOG3623|consensus
Probab=99.57 E-value=5.4e-16 Score=136.34 Aligned_cols=119 Identities=24% Similarity=0.511 Sum_probs=95.1
Q ss_pred cccCCCCccCCCcHHHHHHHHhhC--CCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHT--GEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYND 153 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~--~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~ 153 (305)
.+|++|.+.+.....|+.|+...+ .+..|.|..|.++|..+..|.+||.+|-.+... -....
T Consensus 211 ltcpycdrgykrltslkeHikyrhekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dq----------------a~slt 274 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRHEKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQ----------------AISLT 274 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHhhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcc----------------ccccc
Confidence 789999999999999999987543 345699999999999999999999995332100 00000
Q ss_pred HHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHh
Q psy4409 154 LKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKD 225 (305)
Q Consensus 154 ~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 225 (305)
.. ...+.|+|..||++|+.+-.|+.|+|+|.|+|||.|+-|++.|+....+..||..
T Consensus 275 qs---------------a~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 275 QS---------------ALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred ch---------------hhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 00 1127799999999999999999999999999999999999999999999999864
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.34 E-value=3.7e-12 Score=112.92 Aligned_cols=102 Identities=18% Similarity=0.376 Sum_probs=69.7
Q ss_pred eeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCcccCCCcc
Q psy4409 104 FKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPY 183 (305)
Q Consensus 104 ~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~ 183 (305)
+.|+.|++.|. ...|..|+..+| . ++.|+ |+ ..+ ....|..|+..+... +++.|+.|++
T Consensus 454 ~~C~~Cgk~f~-~s~LekH~~~~H-k----------pv~Cp-Cg-~~~-~R~~L~~H~~thCp~------Kpi~C~fC~~ 512 (567)
T PLN03086 454 VHCEKCGQAFQ-QGEMEKHMKVFH-E----------PLQCP-CG-VVL-EKEQMVQHQASTCPL------RLITCRFCGD 512 (567)
T ss_pred ccCCCCCCccc-hHHHHHHHHhcC-C----------CccCC-CC-CCc-chhHHHhhhhccCCC------CceeCCCCCC
Confidence 46777777774 456777777744 2 66777 77 443 456777777666665 7788888888
Q ss_pred ccc----------CcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHhcCC
Q psy4409 184 HCR----------QNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 184 ~f~----------~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
.|. ....|..|..+. |.+++.|..||+.|.. ..|..|+...|.
T Consensus 513 ~v~~g~~~~d~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~Vrl-rdm~~H~~~~h~ 565 (567)
T PLN03086 513 MVQAGGSAMDVRDRLRGMSEHESIC-GSRTAPCDSCGRSVML-KEMDIHQIAVHQ 565 (567)
T ss_pred ccccCccccchhhhhhhHHHHHHhc-CCcceEccccCCeeee-hhHHHHHHHhhc
Confidence 774 134777887774 7788888888877754 567777766554
No 12
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.10 E-value=1.5e-10 Score=102.83 Aligned_cols=130 Identities=15% Similarity=0.258 Sum_probs=101.2
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCc--CcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNF--CFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYND 153 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~ 153 (305)
-.|+.|...... ..|..|.... ....-.|+. |+..|... .+.. .+.|+.|+ ..|.
T Consensus 408 V~C~NC~~~i~l-~~l~lHe~~C-~r~~V~Cp~~~Cg~v~~r~-el~~------------------H~~C~~Cg-k~f~- 464 (567)
T PLN03086 408 VECRNCKHYIPS-RSIALHEAYC-SRHNVVCPHDGCGIVLRVE-EAKN------------------HVHCEKCG-QAFQ- 464 (567)
T ss_pred EECCCCCCccch-hHHHHHHhhC-CCcceeCCcccccceeecc-cccc------------------CccCCCCC-Cccc-
Confidence 479999987654 6666887543 345567984 99988322 2222 45699999 7775
Q ss_pred HHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcC----------ChHHHHHHH
Q psy4409 154 LKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFS----------RRDNLRRHL 223 (305)
Q Consensus 154 ~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~----------~~~~l~~H~ 223 (305)
...|..|...++ .++.|+ ||..+ ....|..|+.+|.+.+++.|++|++.|. ..+.|..|.
T Consensus 465 ~s~LekH~~~~H--------kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE 534 (567)
T PLN03086 465 QGEMEKHMKVFH--------EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHE 534 (567)
T ss_pred hHHHHHHHHhcC--------CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHH
Confidence 577999999875 578999 99765 6789999999999999999999999995 246899998
Q ss_pred HhcCCccccCCCCCCC
Q psy4409 224 KDQHSYDSFRSSTKKP 239 (305)
Q Consensus 224 ~~hh~~~~~~c~~c~~ 239 (305)
.. .+.+++.|..|+.
T Consensus 535 ~~-CG~rt~~C~~Cgk 549 (567)
T PLN03086 535 SI-CGSRTAPCDSCGR 549 (567)
T ss_pred Hh-cCCcceEccccCC
Confidence 87 5889999999965
No 13
>PHA00733 hypothetical protein
Probab=99.08 E-value=1.4e-10 Score=84.14 Aligned_cols=84 Identities=20% Similarity=0.392 Sum_probs=61.7
Q ss_pred CccccCCCCccchhcHHHHHHH--HhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCCh
Q psy4409 139 TRIYCTFCRDPLYNDLKILLQH--TKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRR 216 (305)
Q Consensus 139 ~~~~C~~C~~~~~~~~~~l~~h--~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 216 (305)
.++.|.+|. ..+.....|..+ +..+. ...+.++|.|+.|++.|.+...|..|++.| ..+|.|..|++.|...
T Consensus 39 ~~~~~~~~~-~~~~~~~~l~~~~~l~~~~---~~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~ 112 (128)
T PHA00733 39 KRLIRAVVK-TLIYNPQLLDESSYLYKLL---TSKAVSPYVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNT 112 (128)
T ss_pred hhHHHHHHh-hhccChhhhcchHHHHhhc---ccCCCCCccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCH
Confidence 355666665 555554444444 11111 111237899999999999999999999976 3579999999999999
Q ss_pred HHHHHHHHhcCC
Q psy4409 217 DNLRRHLKDQHS 228 (305)
Q Consensus 217 ~~l~~H~~~hh~ 228 (305)
..|..|+...|+
T Consensus 113 ~sL~~H~~~~h~ 124 (128)
T PHA00733 113 DSTLDHVCKKHN 124 (128)
T ss_pred HHHHHHHHHhcC
Confidence 999999998887
No 14
>PHA00733 hypothetical protein
Probab=99.03 E-value=3.2e-10 Score=82.32 Aligned_cols=52 Identities=27% Similarity=0.492 Sum_probs=36.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhcCc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHTR 129 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~ 129 (305)
|.|..|++.|.+...|..|++.+ ..+|.|+.|++.|.....|..|+...|..
T Consensus 74 y~C~~Cgk~Fss~s~L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 74 YVCPLCLMPFSSSVSLKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred ccCCCCCCcCCCHHHHHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcCc
Confidence 77777777777777777777654 24577777777777777777777766643
No 15
>PHA02768 hypothetical protein; Provisional
Probab=98.98 E-value=2e-10 Score=68.43 Aligned_cols=43 Identities=28% Similarity=0.427 Sum_probs=34.5
Q ss_pred CcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHH
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNL 219 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 219 (305)
-|.|+.||+.|...+.|..|+++|+ ++|+|..|++.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 4678888888888888888888887 678888888888776655
No 16
>KOG3993|consensus
Probab=98.97 E-value=1.3e-10 Score=97.01 Aligned_cols=52 Identities=17% Similarity=0.427 Sum_probs=46.9
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHHhc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRIKH 127 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H 127 (305)
|.|+.|...|.....|.+|.--.+-...|+|+.|+++|.-..+|..|.++|-
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHK 319 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHK 319 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccC
Confidence 9999999999999999999865555567999999999999999999999943
No 17
>KOG3993|consensus
Probab=98.89 E-value=2e-10 Score=95.85 Aligned_cols=178 Identities=16% Similarity=0.232 Sum_probs=118.2
Q ss_pred CcccCCCCCCcCcChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCCcHHH
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPRSIDM 91 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l 91 (305)
.-|.|..|...|.....|..|. ..-..|+ .|+|+.|+|+|....+|
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHr---------------------C~RIV~v-------------EYrCPEC~KVFsCPANL 311 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHR---------------------CPRIVHV-------------EYRCPECDKVFSCPANL 311 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhcc---------------------CCeeEEe-------------eecCCcccccccCchhh
Confidence 3589999999999999999996 2211222 19999999999999999
Q ss_pred HHHHHhhCC---------------------------------CCCeeCCcCcccccChHHHHHHHHHhcCccccccc---
Q psy4409 92 RRHIRRHTG---------------------------------EKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDK--- 135 (305)
Q Consensus 92 ~~H~~~h~~---------------------------------~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~--- 135 (305)
..|++.|.. +..|.|.+|++.|..+..|+.|+.+||........
T Consensus 312 ASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~ 391 (500)
T KOG3993|consen 312 ASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPK 391 (500)
T ss_pred hhhhcccCCchhhhhcCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccC
Confidence 999998831 12489999999999999999999996654221100
Q ss_pred -----cCcCccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccch
Q psy4409 136 -----QESTRIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCS 210 (305)
Q Consensus 136 -----~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 210 (305)
.....+.|..|. ..+.....--.+.. +-........|+.|+..+.++..--.+.+.-.....|.|.+|.
T Consensus 392 f~~s~~~~l~~~~~~~a-~h~~a~~~~g~~vl-----~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~ 465 (500)
T KOG3993|consen 392 FLLSRVIPLMHFNQAVA-THSSASDSHGDEVL-----YVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCP 465 (500)
T ss_pred cchhhcccccccccccc-ccccccccccccee-----eeeccccccCCCCCCCCcccCCCCCccccccchhhccccccch
Confidence 000112233333 11111110000000 0011112356888888887766555555555556679999999
Q ss_pred hhcCChHHHHHHHHhcCCc
Q psy4409 211 LKFSRRDNLRRHLKDQHSY 229 (305)
Q Consensus 211 ~~f~~~~~l~~H~~~hh~~ 229 (305)
..|.+...|.+|+..-|..
T Consensus 466 atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 466 ATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred HhhhcCcchHhHhhhcChH
Confidence 9999999999999887753
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.80 E-value=2.1e-09 Score=64.04 Aligned_cols=42 Identities=19% Similarity=0.389 Sum_probs=37.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSL 119 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l 119 (305)
|.|+.||+.|.....|..|+++|. ++|+|..|++.|...+.|
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC--CcccCCcccceeccccee
Confidence 899999999999999999999988 689999999999876654
No 19
>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=98.71 E-value=7.9e-09 Score=52.62 Aligned_cols=26 Identities=46% Similarity=1.140 Sum_probs=22.7
Q ss_pred HHHHHHHHhCCCCCccCccchhhcCC
Q psy4409 190 SMKRHLRKHTKDKPYECGFCSLKFSR 215 (305)
Q Consensus 190 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 215 (305)
+|..|+++|++++||.|++|++.|.+
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 47889999999999999999998864
No 20
>PHA00616 hypothetical protein
Probab=98.69 E-value=9.2e-09 Score=58.24 Aligned_cols=34 Identities=21% Similarity=0.407 Sum_probs=28.7
Q ss_pred CccCccchhhcCChHHHHHHHHhcCCccccCCCC
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLKDQHSYDSFRSST 236 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~c~~ 236 (305)
||+|+.||+.|..++.|..|+++||+++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 5788888888888888888888888888887764
No 21
>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=98.60 E-value=4.1e-08 Score=49.94 Aligned_cols=26 Identities=54% Similarity=1.255 Sum_probs=23.5
Q ss_pred HHHHHHHhhCCCCCeeCCcCcccccC
Q psy4409 90 DMRRHIRRHTGEKPFKCNFCFQCFTQ 115 (305)
Q Consensus 90 ~l~~H~~~h~~~~~~~C~~C~~~f~~ 115 (305)
+|..|+++|.+++||.|+.|++.|.+
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 48899999999999999999999964
No 22
>PHA00616 hypothetical protein
Probab=98.43 E-value=1e-07 Score=53.99 Aligned_cols=39 Identities=21% Similarity=0.392 Sum_probs=34.0
Q ss_pred CcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhc
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKF 213 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 213 (305)
||+|+.||+.|...+.|..|++.|++++++.|++=-..|
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 589999999999999999999999999999987644444
No 23
>PHA00732 hypothetical protein
Probab=98.26 E-value=5.7e-07 Score=59.12 Aligned_cols=47 Identities=26% Similarity=0.595 Sum_probs=36.9
Q ss_pred CcccCCCcccccCcHHHHHHHHH-hCCCCCccCccchhhcCChHHHHHHHHhcC
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRK-HTKDKPYECGFCSLKFSRRDNLRRHLKDQH 227 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~hh 227 (305)
||.|..|++.|.+...|..|++. |. ++.|+.|++.|. .|..|+..+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~~~ 48 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYSQY 48 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---ChhhhhcccC
Confidence 47899999999999999999884 54 358999999997 4777875443
No 24
>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=98.26 E-value=1.6e-06 Score=52.85 Aligned_cols=51 Identities=33% Similarity=0.626 Sum_probs=36.9
Q ss_pred CcccCCCcccccCcHHHHHHHHH-hCCC-CCccCccchhhcCChHHHHHHHHhcCC
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRK-HTKD-KPYECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
.|.||.|++. .+...|..|... |..+ +.+.||+|...+. ..|..|+..+|+
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNSQHR 54 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHHhcC
Confidence 4778888884 456788888554 5543 4688999988655 488888887764
No 25
>PHA00732 hypothetical protein
Probab=98.09 E-value=2.2e-06 Score=56.33 Aligned_cols=44 Identities=30% Similarity=0.729 Sum_probs=37.0
Q ss_pred cccCCCCccCCCcHHHHHHHHh-hCCCCCeeCCcCcccccChHHHHHHHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRR-HTGEKPFKCNFCFQCFTQNVSLQTHIRI 125 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~-h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 125 (305)
|.|..|++.|.+...|+.|++. |. ++.|+.|++.|. .|..|+.+
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 8899999999999999999984 54 358999999997 47778765
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=98.08 E-value=7.2e-06 Score=50.01 Aligned_cols=49 Identities=29% Similarity=0.509 Sum_probs=33.9
Q ss_pred cccCCCCccCCCcHHHHHHHHh-hCCC-CCeeCCcCcccccChHHHHHHHHHhc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRR-HTGE-KPFKCNFCFQCFTQNVSLQTHIRIKH 127 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~-h~~~-~~~~C~~C~~~f~~~~~l~~H~~~~H 127 (305)
|.|++|++ ..+...|..|... |..+ +.+.||+|...+. ..|..|+...|
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 78888888 4556778888664 4432 4688888887644 37777877755
No 27
>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=97.99 E-value=2.2e-06 Score=42.27 Aligned_cols=23 Identities=22% Similarity=0.571 Sum_probs=21.4
Q ss_pred ccCCCCCCcCcChHHHHhhhhhc
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIK 36 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h 36 (305)
|.|+.|++.|.+...|..|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999873
No 28
>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=97.98 E-value=3.4e-06 Score=41.56 Aligned_cols=22 Identities=41% Similarity=1.035 Sum_probs=13.1
Q ss_pred ccCccchhhcCChHHHHHHHHh
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKD 225 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (305)
|.|++|++.|.++..|..|++.
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 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.93 E-value=5.4e-06 Score=57.96 Aligned_cols=26 Identities=27% Similarity=0.525 Sum_probs=0.0
Q ss_pred cCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 15 TCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 15 ~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
.|.+|+..|.+...|..|+...|+..
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 49999999999999999998777643
No 30
>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=97.93 E-value=6e-06 Score=41.08 Aligned_cols=24 Identities=29% Similarity=0.933 Sum_probs=15.5
Q ss_pred ccCccchhhcCChHHHHHHHHhcC
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQH 227 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh 227 (305)
|.|++|++.|.++..|..|+..+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 567777777777777777776654
No 31
>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=97.89 E-value=6.2e-06 Score=41.04 Aligned_cols=24 Identities=21% Similarity=0.582 Sum_probs=20.5
Q ss_pred ccCCCCCCcCcChHHHHhhhhhcc
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIKH 37 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h~ 37 (305)
|.|++|++.|.+...|+.|++++|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999998875
No 32
>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=97.77 E-value=1.1e-05 Score=41.45 Aligned_cols=26 Identities=19% Similarity=0.466 Sum_probs=24.0
Q ss_pred cccCCCCCCcCcChHHHHhhhhhccc
Q psy4409 13 PYTCYFCNFKSAHMSSINNHLKIKHL 38 (305)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 38 (305)
||.|..|++.|.+...|..|++.|+.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhcC
Confidence 68999999999999999999988764
No 33
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.72 E-value=0.00015 Score=59.92 Aligned_cols=99 Identities=27% Similarity=0.500 Sum_probs=61.2
Q ss_pred CcHHHHHHHHhhCCCCC----eeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHh
Q psy4409 87 RSIDMRRHIRRHTGEKP----FKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTK 162 (305)
Q Consensus 87 ~~~~l~~H~~~h~~~~~----~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~ 162 (305)
+...|+.|...-..+.- -.|..|+..|.+-..|..|++..|.. |.+|+ .+-
T Consensus 200 ~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~-------------ChICD-~v~----------- 254 (493)
T COG5236 200 RSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEA-------------CHICD-MVG----------- 254 (493)
T ss_pred ecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhhhh-------------hhhhh-ccC-----------
Confidence 34556666543222212 35888888888888888888876544 77776 221
Q ss_pred hhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCcc--ch----hhcCChHHHHHHHHhcCCcc
Q psy4409 163 NCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGF--CS----LKFSRRDNLRRHLKDQHSYD 230 (305)
Q Consensus 163 ~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~----~~f~~~~~l~~H~~~hh~~~ 230 (305)
+.-..-|++...|..|.+.-+ |.|.+ |. ..|.....|..|+..-|+..
T Consensus 255 ----------------p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~ 308 (493)
T COG5236 255 ----------------PIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYVFPYHTELLEHLTRFHKVN 308 (493)
T ss_pred ----------------ccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEEeccHHHHHHHHHHHhhcc
Confidence 122234777788888865422 55543 32 36888889999998877743
No 34
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.62 E-value=4.6e-05 Score=53.19 Aligned_cols=25 Identities=32% Similarity=0.618 Sum_probs=0.0
Q ss_pred eCCcCcccccChHHHHHHHHHhcCc
Q psy4409 105 KCNFCFQCFTQNVSLQTHIRIKHTR 129 (305)
Q Consensus 105 ~C~~C~~~f~~~~~l~~H~~~~H~~ 129 (305)
.|.+|+..|.+...|..|+...|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~ 25 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGF 25 (100)
T ss_dssp -------------------------
T ss_pred Ccccccccccccccccccccccccc
Confidence 3777888887777788887776654
No 35
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.59 E-value=2.8e-05 Score=63.27 Aligned_cols=27 Identities=33% Similarity=0.647 Sum_probs=23.5
Q ss_pred CCcccCCC--CCCcCcChHHHHhhhhhcc
Q psy4409 11 EKPYTCYF--CNFKSAHMSSINNHLKIKH 37 (305)
Q Consensus 11 ~~~~~C~~--C~~~f~~~~~l~~H~~~h~ 37 (305)
+|||+||+ |+|.|.....|.-|+..-|
T Consensus 347 ~KpykCpV~gC~K~YknqnGLKYH~lhGH 375 (423)
T COG5189 347 GKPYKCPVEGCNKKYKNQNGLKYHMLHGH 375 (423)
T ss_pred CceecCCCCCchhhhccccchhhhhhccc
Confidence 59999998 9999999999999985444
No 36
>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=97.58 E-value=3.3e-05 Score=39.65 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=15.3
Q ss_pred CccCccchhhcCChHHHHHHHHhcC
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLKDQH 227 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~hh 227 (305)
||.|..|++.|.+...|..|++.|+
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 3566666666666666666665544
No 37
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.52 E-value=1.3e-05 Score=65.08 Aligned_cols=29 Identities=28% Similarity=0.616 Sum_probs=25.0
Q ss_pred CCCCeeCCc--CcccccChHHHHHHHHHhcC
Q psy4409 100 GEKPFKCNF--CFQCFTQNVSLQTHIRIKHT 128 (305)
Q Consensus 100 ~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~ 128 (305)
+++||+|++ |.+.|.++..|+.|+.--|.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~ 376 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQ 376 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhcccc
Confidence 358999998 99999999999999986553
No 38
>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=97.23 E-value=0.00038 Score=55.18 Aligned_cols=91 Identities=25% Similarity=0.484 Sum_probs=57.6
Q ss_pred CCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCccc
Q psy4409 99 TGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVC 178 (305)
Q Consensus 99 ~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C 178 (305)
+|.+.|+|.+|... .-...-..|+.. -.. .+...|.|..|. ++ ..|.|
T Consensus 138 hGGrif~CsfC~~f-lCEDDQFEHQAs-CQv------Le~E~~KC~SCN-rl-----------------------Gq~sC 185 (314)
T PF06524_consen 138 HGGRIFKCSFCDNF-LCEDDQFEHQAS-CQV------LESETFKCQSCN-RL-----------------------GQYSC 185 (314)
T ss_pred CCCeEEEeecCCCe-eeccchhhhhhh-hhh------hhcccccccccc-cc-----------------------cchhh
Confidence 56778999999854 333344456554 222 233488888887 33 45677
Q ss_pred CCCcccccCcHHHHHHHHH----hCCCCCccCccchhhcCChHHHHHHHHhc
Q psy4409 179 MVCPYHCRQNESMKRHLRK----HTKDKPYECGFCSLKFSRRDNLRRHLKDQ 226 (305)
Q Consensus 179 ~~C~~~f~~~~~l~~H~~~----h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 226 (305)
..|..-|-. .|.+. -...++++||.||........|..-.++|
T Consensus 186 LRCK~cfCd-----dHvrrKg~ky~k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 186 LRCKICFCD-----DHVRRKGFKYEKGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred hheeeeehh-----hhhhhcccccccCCCCCCCCCCCcccccccceeeeecc
Confidence 777666653 45443 12347899999999988877776555443
No 39
>KOG1146|consensus
Probab=97.14 E-value=0.0002 Score=69.12 Aligned_cols=158 Identities=20% Similarity=0.289 Sum_probs=99.4
Q ss_pred cCCCCccCCCcHHHHHHHH-hhCCCCCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHH
Q psy4409 78 CLVCDYHSPRSIDMRRHIR-RHTGEKPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKI 156 (305)
Q Consensus 78 C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~ 156 (305)
|.-|+..+.+...+.-|+. .+.-.+.++|+.|+..|.....|..||+.+|.... . ..| ..
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~------~-----~~c--------~~ 499 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQ------S-----AYC--------KA 499 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccc------h-----hHh--------Hh
Confidence 3445555555555555544 34445889999999999999999999999876410 0 111 12
Q ss_pred HHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHH--hC-----------------------------------
Q psy4409 157 LLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRK--HT----------------------------------- 199 (305)
Q Consensus 157 l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~--h~----------------------------------- 199 (305)
...|.+.-.+........+|.|..|...+....+|..|++. |.
T Consensus 500 gq~~~~~arg~~~~~~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~a 579 (1406)
T KOG1146|consen 500 GQNHPRLARGEVYRCPGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSA 579 (1406)
T ss_pred ccccccccccccccCCCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCC
Confidence 22333333334444455789999999999999999999864 21
Q ss_pred C------CCCccCccchhhcCChHHHHHHHHh-cCCccccCCCCCCCCCCceeeecCCccccceec
Q psy4409 200 K------DKPYECGFCSLKFSRRDNLRRHLKD-QHSYDSFRSSTKKPGKYGVLIVKGSNISTMRVT 258 (305)
Q Consensus 200 ~------~~~~~C~~C~~~f~~~~~l~~H~~~-hh~~~~~~c~~c~~~~~~~~~~~~~~~~h~~~~ 258 (305)
+ ...|.|.+|+..-.-...|+-|+.. +|...|-.+..+.- .+.....+..+.+.+
T Consensus 580 gs~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~p~~~Lq~~i----t~~l~~~~~~~~~lp 641 (1406)
T KOG1146|consen 580 GSSGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSPPSLVLQQNI----TSSLASLLGGQGRLP 641 (1406)
T ss_pred CCCCCCCCCCcchhhhcchhhhhhccccccccCCCCCChHHHhhhcc----hhhccccccCcCCCC
Confidence 0 1138999999888888888888874 44433344444322 333444444444444
No 40
>KOG2231|consensus
Probab=97.11 E-value=0.0016 Score=59.66 Aligned_cols=118 Identities=19% Similarity=0.278 Sum_probs=73.1
Q ss_pred CcChHHHHhhhhhccccc-----------cceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCCcHHH
Q psy4409 23 SAHMSSINNHLKIKHLEK-----------IQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPRSIDM 91 (305)
Q Consensus 23 f~~~~~l~~H~~~h~~~~-----------~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l 91 (305)
|.+...|..|+...|... ..+.....+. ..|..|+......... -..--.|..|...|.....|
T Consensus 124 ~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~----~el~~h~~~gd~d~~s-~rGhp~C~~C~~~fld~~el 198 (669)
T KOG2231|consen 124 FKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTR----AELNLHLMFGDPDDES-CRGHPLCKFCHERFLDDDEL 198 (669)
T ss_pred hhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehH----HHHHHHHhcCCCcccc-ccCCccchhhhhhhccHHHH
Confidence 347788999996666543 1222222233 6777787655442211 11125788999999999999
Q ss_pred HHHHHhhCCCCCeeCCcC------cccccChHHHHHHHHHhcCccccccccCcCccccC--CCCccchhcHHHHHHHHh
Q psy4409 92 RRHIRRHTGEKPFKCNFC------FQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCT--FCRDPLYNDLKILLQHTK 162 (305)
Q Consensus 92 ~~H~~~h~~~~~~~C~~C------~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~--~C~~~~~~~~~~l~~h~~ 162 (305)
..|++.++ |.|.+| +..|.....|..|.+..|. .|. .|..+.|.....+..+++
T Consensus 199 ~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~~Hf-------------lCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 199 YRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRKGHF-------------LCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred HHhhccce----eheeecCcccccchhcccchHHHHHhhhcCc-------------cccccccccceeeehhHHHHHHH
Confidence 99988765 556555 4456667889999888654 365 566455554444444444
No 41
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=97.07 E-value=0.0003 Score=34.86 Aligned_cols=24 Identities=50% Similarity=0.992 Sum_probs=14.8
Q ss_pred ccCccchhhcCChHHHHHHHHhcCC
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
|+|+.|+.... +..|.+|++.+|+
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 56777776666 6677777776653
No 42
>KOG2231|consensus
Probab=97.06 E-value=0.0012 Score=60.42 Aligned_cols=101 Identities=18% Similarity=0.413 Sum_probs=58.7
Q ss_pred CCcHHHHHHHHhhCCCCCeeCCcC---------cccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHH
Q psy4409 86 PRSIDMRRHIRRHTGEKPFKCNFC---------FQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKI 156 (305)
Q Consensus 86 ~~~~~l~~H~~~h~~~~~~~C~~C---------~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~ 156 (305)
.+...|+.|+..-+. .+.|.+| .....+...|..|+..--.. + ..-...-.|..|. ..|.....
T Consensus 125 ~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d---~-~s~rGhp~C~~C~-~~fld~~e 197 (669)
T KOG2231|consen 125 KSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPD---D-ESCRGHPLCKFCH-ERFLDDDE 197 (669)
T ss_pred hHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCc---c-ccccCCccchhhh-hhhccHHH
Confidence 367778888753221 2233322 22334456677776552110 1 1112245788888 77777788
Q ss_pred HHHHHhhhcCccccCCCCCcccCCC------cccccCcHHHHHHHHHhCCCCCccCc
Q psy4409 157 LLQHTKNCKGAFRENDSYRYVCMVC------PYHCRQNESMKRHLRKHTKDKPYECG 207 (305)
Q Consensus 157 l~~h~~~~~~~~~~~~~~~~~C~~C------~~~f~~~~~l~~H~~~h~~~~~~~C~ 207 (305)
|..|++..+. .|..| +..|.....|..|.+.++ |.|.
T Consensus 198 l~rH~~~~h~----------~chfC~~~~~~neyy~~~~dLe~HfR~~H----flCE 240 (669)
T KOG2231|consen 198 LYRHLRFDHE----------FCHFCDYKTGQNEYYNDYDDLEEHFRKGH----FLCE 240 (669)
T ss_pred HHHhhcccee----------heeecCcccccchhcccchHHHHHhhhcC----cccc
Confidence 8888776543 46666 345667788888877765 5666
No 43
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.97 E-value=0.00056 Score=34.32 Aligned_cols=24 Identities=21% Similarity=0.455 Sum_probs=21.6
Q ss_pred ccCCCCCCcCcChHHHHhhhhhcc
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIKH 37 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h~ 37 (305)
|.|+.|++.|.+...|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999998653
No 44
>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=96.89 E-value=0.0008 Score=39.12 Aligned_cols=29 Identities=34% Similarity=0.646 Sum_probs=13.3
Q ss_pred CCccCccchhhcCChHHHHHHHHhcCCcc
Q psy4409 202 KPYECGFCSLKFSRRDNLRRHLKDQHSYD 230 (305)
Q Consensus 202 ~~~~C~~C~~~f~~~~~l~~H~~~hh~~~ 230 (305)
.|-.||+|+..+.+...|++|+...|+.+
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle~~H~~k 51 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLEIRHFKK 51 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHHHHTTTS
T ss_pred CCCCCCcchhhccchhhHHHHHHHHhccc
Confidence 44555555555555555555555555543
No 45
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.88 E-value=0.00048 Score=34.09 Aligned_cols=24 Identities=33% Similarity=0.793 Sum_probs=19.7
Q ss_pred ccCCCCCCcCcChHHHHhhhhhccc
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIKHL 38 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h~~ 38 (305)
|.|+.|++... ...|..|++.+|+
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 9999999998764
No 46
>smart00355 ZnF_C2H2 zinc finger.
Probab=96.88 E-value=0.00081 Score=33.69 Aligned_cols=23 Identities=26% Similarity=0.752 Sum_probs=17.3
Q ss_pred ccCccchhhcCChHHHHHHHHhc
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQ 226 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~h 226 (305)
|.|..|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 56777888888888888887744
No 47
>KOG2785|consensus
Probab=96.80 E-value=0.0017 Score=54.81 Aligned_cols=52 Identities=25% Similarity=0.491 Sum_probs=44.5
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCC-----------------------CCccCccch---hhcCChHHHHHHHHh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKD-----------------------KPYECGFCS---LKFSRRDNLRRHLKD 225 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~-----------------------~~~~C~~C~---~~f~~~~~l~~H~~~ 225 (305)
.|-.|..|+..+.+...-..||..+++- .-+.|-.|+ +.|.+....+.||..
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 4578999999999999999999988762 127899999 999999999999973
No 48
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.80 E-value=0.00051 Score=34.35 Aligned_cols=23 Identities=30% Similarity=0.611 Sum_probs=21.0
Q ss_pred ccCCCCCCcCcChHHHHhhhhhc
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIK 36 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h 36 (305)
|.|.+|++.|.+...|..|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 68999999999999999999754
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=96.74 E-value=0.0017 Score=37.82 Aligned_cols=31 Identities=29% Similarity=0.523 Sum_probs=22.3
Q ss_pred CCCcccCCCcccccCcHHHHHHHHHhCCCCC
Q psy4409 173 SYRYVCMVCPYHCRQNESMKRHLRKHTKDKP 203 (305)
Q Consensus 173 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~ 203 (305)
..|-.|++|+..+....+|++|+.+.++.+|
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 3678999999999999999999998887765
No 50
>KOG2482|consensus
Probab=96.74 E-value=0.0012 Score=54.50 Aligned_cols=189 Identities=22% Similarity=0.369 Sum_probs=94.3
Q ss_pred cccCCCCCCcCc-ChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCCcHHH
Q psy4409 13 PYTCYFCNFKSA-HMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPRSIDM 91 (305)
Q Consensus 13 ~~~C~~C~~~f~-~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l 91 (305)
-..|-.|+..+. .++.+..|+-..|+-...-.-..... ..|..|....-. .+.|-+|.+.|+.+..|
T Consensus 144 slqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyv----nelLehLkekL~--------r~~CLyCekifrdkntL 211 (423)
T KOG2482|consen 144 SLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYV----NELLEHLKEKLE--------RLRCLYCEKIFRDKNTL 211 (423)
T ss_pred eeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeH----HHHHHHHHHHHh--------hheeeeeccccCCcHHH
Confidence 457888987654 45566777765555442222222222 445555422111 28999999999999999
Q ss_pred HHHHHh--hCCCCC--------eeCCc--CcccccC-hHHHHHHHHHh--cCccc------cccccCcCccccCCCCccc
Q psy4409 92 RRHIRR--HTGEKP--------FKCNF--CFQCFTQ-NVSLQTHIRIK--HTRLF------GQDKQESTRIYCTFCRDPL 150 (305)
Q Consensus 92 ~~H~~~--h~~~~~--------~~C~~--C~~~f~~-~~~l~~H~~~~--H~~~~------~~~~~~~~~~~C~~C~~~~ 150 (305)
+.||+. |-...| |.=.+ =|++..- .+.+. +.+. +..-. .+.........|-+|. .+
T Consensus 212 keHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~d--ret~~d~~E~D~~wsDw~ed~a~a~~v~CLfC~-~~ 288 (423)
T KOG2482|consen 212 KEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDD--RETNEDINETDDTWSDWNEDDAEALSVVCLFCT-NF 288 (423)
T ss_pred HHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhh--hhhhccccccccchhhhhcCCCCccceEEEeec-cc
Confidence 999974 432222 22221 1222111 11111 1110 11000 0001122236899998 88
Q ss_pred hhcHHHHHHHHhhhcCc-cccCCCCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHH
Q psy4409 151 YNDLKILLQHTKNCKGA-FRENDSYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLK 224 (305)
Q Consensus 151 ~~~~~~l~~h~~~~~~~-~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 224 (305)
..+...|..|++..+.- +.... .. =+.-|-..--+.+-.|. ....-.|..|...|-....|+.||.
T Consensus 289 ~en~~~l~eHmk~vHe~Dl~Ki~-sd-----~~Ln~YqrvrviNyiRk--q~~~~~c~~cd~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 289 YENPVFLFEHMKIVHEFDLLKIQ-SD-----YSLNFYQRVRVINYIRK--QKKKSRCAECDLSFWKEPGLLIHMV 355 (423)
T ss_pred hhhHHHHHHHHHHHHHhhHHhhc-cc-----cccchhhhhhHHHHHHH--HhhccccccccccccCcchhhhhcc
Confidence 88888999998875542 10000 00 00111111111222111 1122467777788888888888875
No 51
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.62 E-value=0.00095 Score=33.35 Aligned_cols=22 Identities=36% Similarity=0.928 Sum_probs=14.0
Q ss_pred ccCccchhhcCChHHHHHHHHh
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKD 225 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (305)
|.|.+|+..|.+...|..|++.
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 4566666666666666666653
No 52
>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=96.54 E-value=0.0015 Score=33.31 Aligned_cols=23 Identities=17% Similarity=0.427 Sum_probs=20.7
Q ss_pred cccCCCCCCcCcChHHHHhhhhh
Q psy4409 13 PYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
.|.|..|++.|.+...|..|++.
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCCcccCCCCcCCHHHHHHHHcc
Confidence 38899999999999999999965
No 53
>PRK04860 hypothetical protein; Provisional
Probab=96.43 E-value=0.0014 Score=49.57 Aligned_cols=39 Identities=23% Similarity=0.571 Sum_probs=31.8
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCCh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRR 216 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 216 (305)
.+|.|. |+. ....+..|.++|.+.++|.|..|+..|...
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 568887 887 667788899999998899999998887654
No 54
>KOG1146|consensus
Probab=96.30 E-value=0.0034 Score=61.09 Aligned_cols=110 Identities=20% Similarity=0.353 Sum_probs=74.5
Q ss_pred ccCCCcccCCCCCCcCcChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCC
Q psy4409 8 HSGEKPYTCYFCNFKSAHMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPR 87 (305)
Q Consensus 8 h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~ 87 (305)
|.-.+.|+|+.|+..|.....|..|+|..|.+... .+-.. ...|.+..-........++|.|..|...+..
T Consensus 460 ~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~---~~c~~------gq~~~~~arg~~~~~~~~p~~C~~C~~sttt 530 (1406)
T KOG1146|consen 460 HSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQS---AYCKA------GQNHPRLARGEVYRCPGKPYPCRACNYSTTT 530 (1406)
T ss_pred ecccccccCCccchhhhhHHHhhhcccccccccch---hHhHh------ccccccccccccccCCCCcccceeeeeeeec
Confidence 44458899999999999999999999997766522 11111 1111111110011122235999999999999
Q ss_pred cHHHHHHHHh--hC-----------------------------------C------CCCeeCCcCcccccChHHHHHHHH
Q psy4409 88 SIDMRRHIRR--HT-----------------------------------G------EKPFKCNFCFQCFTQNVSLQTHIR 124 (305)
Q Consensus 88 ~~~l~~H~~~--h~-----------------------------------~------~~~~~C~~C~~~f~~~~~l~~H~~ 124 (305)
...|.+|+.. |. + .-.+.|.+|++...-...|+.||.
T Consensus 531 ng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag~~~~ags~~pktkP~~~C~vc~yetniarnlrihmt 610 (1406)
T KOG1146|consen 531 NGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAGLGPSAGSSGPKTKPSWRCEVCSYETNIARNLRIHMT 610 (1406)
T ss_pred chHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCcccccCCCCCCCCCCCCCCCcchhhhcchhhhhhccccccc
Confidence 9999999853 20 0 113789999999888888998887
Q ss_pred Hh
Q psy4409 125 IK 126 (305)
Q Consensus 125 ~~ 126 (305)
.-
T Consensus 611 ss 612 (1406)
T KOG1146|consen 611 AS 612 (1406)
T ss_pred cC
Confidence 64
No 55
>KOG2482|consensus
Probab=96.13 E-value=0.049 Score=45.41 Aligned_cols=56 Identities=18% Similarity=0.153 Sum_probs=41.1
Q ss_pred ccCccchhhcCChHHHHHHHHhcCCc---------------------------cccCCCCCCCCCCceeeecCCccccce
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQHSY---------------------------DSFRSSTKKPGKYGVLIVKGSNISTMR 256 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh~~---------------------------~~~~c~~c~~~~~~~~~~~~~~~~h~~ 256 (305)
..|-.|....-+...|..||...|.- ..-.|-.|. ..|.....|..||.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd----~~F~~e~~l~~hm~ 355 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECD----LSFWKEPGLLIHMV 355 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhcccccccc----ccccCcchhhhhcc
Confidence 47889998888889999999988841 123455554 27888999999997
Q ss_pred ecCCCCC
Q psy4409 257 VTSPSSQ 263 (305)
Q Consensus 257 ~~~~~~~ 263 (305)
.+.+-+.
T Consensus 356 e~k~l~i 362 (423)
T KOG2482|consen 356 EDKHLSI 362 (423)
T ss_pred ccccccc
Confidence 6665443
No 56
>PRK04860 hypothetical protein; Provisional
Probab=95.78 E-value=0.0077 Score=45.55 Aligned_cols=38 Identities=26% Similarity=0.645 Sum_probs=31.8
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
+|.|. |+. ....++.|.++|.++++|.|..|+..|...
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 58997 887 667888999999999999999999887654
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=95.53 E-value=0.0027 Score=32.35 Aligned_cols=21 Identities=33% Similarity=0.825 Sum_probs=13.1
Q ss_pred ccCccchhhcCChHHHHHHHH
Q psy4409 204 YECGFCSLKFSRRDNLRRHLK 224 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~ 224 (305)
|.|..|++.|.+...|..|++
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~ 22 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMK 22 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTT
T ss_pred CCcccCCCCcCCHHHHHHHHc
Confidence 456666666666666666654
No 58
>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=95.51 E-value=0.024 Score=45.37 Aligned_cols=66 Identities=12% Similarity=0.323 Sum_probs=32.4
Q ss_pred CCcccCCCcccccCcHHHHHHHHHh--CCCCCccCccchhhcCChHHHH-------HHHHhc----CCccccCCCCCCCC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKH--TKDKPYECGFCSLKFSRRDNLR-------RHLKDQ----HSYDSFRSSTKKPG 240 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h--~~~~~~~C~~C~~~f~~~~~l~-------~H~~~h----h~~~~~~c~~c~~~ 240 (305)
+.|+|.+|....---..| .|+-.- -....|+|..|++ +...+-|+ .|+++. -..+++.|+.|+..
T Consensus 141 rif~CsfC~~flCEDDQF-EHQAsCQvLe~E~~KC~SCNr-lGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKCg~e 218 (314)
T PF06524_consen 141 RIFKCSFCDNFLCEDDQF-EHQASCQVLESETFKCQSCNR-LGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKCGYE 218 (314)
T ss_pred eEEEeecCCCeeeccchh-hhhhhhhhhhccccccccccc-ccchhhhheeeeehhhhhhhcccccccCCCCCCCCCCCc
Confidence 677777776543322222 343221 1122355555553 22223232 455432 23478999999874
Q ss_pred C
Q psy4409 241 K 241 (305)
Q Consensus 241 ~ 241 (305)
.
T Consensus 219 t 219 (314)
T PF06524_consen 219 T 219 (314)
T ss_pred c
Confidence 4
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.28 E-value=0.015 Score=28.94 Aligned_cols=22 Identities=27% Similarity=0.443 Sum_probs=18.2
Q ss_pred cccCCCCCCcCcChHHHHhhhhh
Q psy4409 13 PYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
...|+.||+.| ....|..|+..
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHh
Confidence 35799999999 67889999754
No 60
>KOG4173|consensus
Probab=95.21 E-value=0.023 Score=43.76 Aligned_cols=80 Identities=21% Similarity=0.519 Sum_probs=55.0
Q ss_pred ccccCC--CCccchhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHH-h---------CCCCCccCc
Q psy4409 140 RIYCTF--CRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRK-H---------TKDKPYECG 207 (305)
Q Consensus 140 ~~~C~~--C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~ 207 (305)
.+.|++ |. .++.+......|...-++. .|..|.+.|.+.-.|..|+.- | .|..-|+|-
T Consensus 79 ~~~cqvagc~-~~~d~lD~~E~hY~~~h~~---------sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~Cl 148 (253)
T KOG4173|consen 79 AFACQVAGCC-QVFDALDDYEHHYHTLHGN---------SCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCL 148 (253)
T ss_pred cccccccchH-HHHhhhhhHHHhhhhcccc---------hhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHH
Confidence 445544 44 5555555566666554444 577777788777777777542 2 344458996
Q ss_pred c--chhhcCChHHHHHHHHhcCCc
Q psy4409 208 F--CSLKFSRRDNLRRHLKDQHSY 229 (305)
Q Consensus 208 ~--C~~~f~~~~~l~~H~~~hh~~ 229 (305)
+ |+..|.+...-..|+...|..
T Consensus 149 vEgCt~KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 149 VEGCTEKFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred HHhhhhhhhhhhhhhhHHHHhccC
Confidence 6 999999999999999887764
No 61
>KOG2893|consensus
Probab=95.05 E-value=0.006 Score=47.95 Aligned_cols=43 Identities=26% Similarity=0.512 Sum_probs=33.5
Q ss_pred ccCCCCCCcCcChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCCCCccCCCcHHHHH
Q psy4409 14 YTCYFCNFKSAHMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLVCDYHSPRSIDMRR 93 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~ 93 (305)
=+|.+|++.|....-|..|++..| |+|.+|.+.+-+--.|..
T Consensus 11 pwcwycnrefddekiliqhqkakh--------------------------------------fkchichkkl~sgpglsi 52 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAKH--------------------------------------FKCHICHKKLFSGPGLSI 52 (341)
T ss_pred ceeeecccccchhhhhhhhhhhcc--------------------------------------ceeeeehhhhccCCCcee
Confidence 469999999999888888875544 888899877666666666
Q ss_pred H
Q psy4409 94 H 94 (305)
Q Consensus 94 H 94 (305)
|
T Consensus 53 h 53 (341)
T KOG2893|consen 53 H 53 (341)
T ss_pred e
Confidence 6
No 62
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=95.03 E-value=0.018 Score=28.63 Aligned_cols=19 Identities=42% Similarity=0.845 Sum_probs=12.0
Q ss_pred cCccchhhcCChHHHHHHHH
Q psy4409 205 ECGFCSLKFSRRDNLRRHLK 224 (305)
Q Consensus 205 ~C~~C~~~f~~~~~l~~H~~ 224 (305)
+|++||+.| ....|..|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 566666666 5566666654
No 63
>KOG2893|consensus
Probab=94.82 E-value=0.008 Score=47.28 Aligned_cols=25 Identities=16% Similarity=0.467 Sum_probs=11.6
Q ss_pred CCcccCCCcccccCcHHHHHH-HHHh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRH-LRKH 198 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H-~~~h 198 (305)
+.|+|.+|.+.+.+-..|..| |++|
T Consensus 33 khfkchichkkl~sgpglsihcmqvh 58 (341)
T KOG2893|consen 33 KHFKCHICHKKLFSGPGLSIHCMQVH 58 (341)
T ss_pred ccceeeeehhhhccCCCceeehhhhh
Confidence 444555555444444444444 4443
No 64
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.78 E-value=0.011 Score=49.23 Aligned_cols=133 Identities=20% Similarity=0.413 Sum_probs=86.6
Q ss_pred eeCCc--CcccccChHHHHHHHHHhcCccccccccCcCccccCCCC--ccch------hcHHHHHHHHhhhcCccccCCC
Q psy4409 104 FKCNF--CFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCR--DPLY------NDLKILLQHTKNCKGAFRENDS 173 (305)
Q Consensus 104 ~~C~~--C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~--~~~~------~~~~~l~~h~~~~~~~~~~~~~ 173 (305)
|.|+. |..+......|..|.+..|. .+-|.+|- ++.| .+...|..|...-..+ ..-.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~-----------~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e-~GFK- 218 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHG-----------FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEE-EGFK- 218 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcC-----------cEEhHhhhcCcccCccceeeeecccccccccCCccc-cCcC-
Confidence 78876 77777777788999888765 45566663 1122 2234455554321111 0000
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchh-------hcCChHHHHHHHHhcCCccccCCC--CCCCCCCce
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSL-------KFSRRDNLRRHLKDQHSYDSFRSS--TKKPGKYGV 244 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~-------~f~~~~~l~~H~~~hh~~~~~~c~--~c~~~~~~~ 244 (305)
.--.|..|...|-.-..|..|++.-+. .|-+|.+ -|.+..+|..|.+.-| |.|. .|-.++...
T Consensus 219 GHP~C~FC~~~FYdDDEL~~HcR~~HE----~ChICD~v~p~~~QYFK~Y~~Le~HF~~~h----y~ct~qtc~~~k~~v 290 (493)
T COG5236 219 GHPLCIFCKIYFYDDDELRRHCRLRHE----ACHICDMVGPIRYQYFKSYEDLEAHFRNAH----YCCTFQTCRVGKCYV 290 (493)
T ss_pred CCchhhhccceecChHHHHHHHHhhhh----hhhhhhccCccchhhhhCHHHHHHHhhcCc----eEEEEEEEecCcEEE
Confidence 123799999999999999999987442 5666654 4888889999987543 5554 355577777
Q ss_pred eeecCCcccccee
Q psy4409 245 LIVKGSNISTMRV 257 (305)
Q Consensus 245 ~~~~~~~~~h~~~ 257 (305)
|.....|+.|+..
T Consensus 291 f~~~~el~~h~~~ 303 (493)
T COG5236 291 FPYHTELLEHLTR 303 (493)
T ss_pred eccHHHHHHHHHH
Confidence 8888888888753
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=94.63 E-value=0.025 Score=30.65 Aligned_cols=24 Identities=29% Similarity=0.506 Sum_probs=21.4
Q ss_pred CcccCCCCCCcCcChHHHHhhhhh
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
.+|.|.+|++.|.+...+..|++.
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHCh
Confidence 368999999999999999999855
No 66
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=94.16 E-value=0.018 Score=34.09 Aligned_cols=35 Identities=20% Similarity=0.239 Sum_probs=30.0
Q ss_pred ccccCCCcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 6 RKHSGEKPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 6 ~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
+...|+-.+.||-|+..|.....+..|+..-|+..
T Consensus 10 ~~RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~~ 44 (65)
T COG4049 10 RDRDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGWL 44 (65)
T ss_pred eccCCceeeeCCchhHHHHHhHHHHHHhhHHhhhh
Confidence 44568889999999999999999999998777654
No 67
>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=93.82 E-value=0.042 Score=29.75 Aligned_cols=22 Identities=27% Similarity=0.727 Sum_probs=17.3
Q ss_pred CccCccchhhcCChHHHHHHHH
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLK 224 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~ 224 (305)
+|.|.+|+..|.+...+..|+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~ 24 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLK 24 (35)
T ss_pred CeEccccCCccCCHHHHHHHHC
Confidence 4778888888888888888875
No 68
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=93.79 E-value=0.032 Score=33.09 Aligned_cols=30 Identities=27% Similarity=0.618 Sum_probs=21.5
Q ss_pred CCCCCccCccchhhcCChHHHHHHHHhcCC
Q psy4409 199 TKDKPYECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 199 ~~~~~~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
.|+-.+.||.|+..|.......+|....|+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 345567777777777777777777776665
No 69
>KOG2785|consensus
Probab=93.75 E-value=0.11 Score=44.32 Aligned_cols=52 Identities=29% Similarity=0.509 Sum_probs=41.9
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCC-----------------------CeeCCcCc---ccccChHHHHHHHHHh
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEK-----------------------PFKCNFCF---QCFTQNVSLQTHIRIK 126 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~-----------------------~~~C~~C~---~~f~~~~~l~~H~~~~ 126 (305)
|-.|-.|++.|.+...-..||..++|-. -|.|-.|+ +.|.+....+.||...
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K 243 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDK 243 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhc
Confidence 3778889999999999999998777632 16788888 8888888888998763
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=92.93 E-value=0.18 Score=35.60 Aligned_cols=25 Identities=24% Similarity=0.743 Sum_probs=23.2
Q ss_pred ccC----ccchhhcCChHHHHHHHHhcCC
Q psy4409 204 YEC----GFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 204 ~~C----~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
|.| +.|+..+.+...+++|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 9999999999999999998885
No 71
>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=92.86 E-value=0.059 Score=28.87 Aligned_cols=9 Identities=33% Similarity=1.158 Sum_probs=4.6
Q ss_pred CCccCccch
Q psy4409 202 KPYECGFCS 210 (305)
Q Consensus 202 ~~~~C~~C~ 210 (305)
.++.||.|+
T Consensus 16 ~~~~CP~Cg 24 (33)
T cd00350 16 APWVCPVCG 24 (33)
T ss_pred CCCcCcCCC
Confidence 445555554
No 72
>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=92.60 E-value=0.57 Score=33.07 Aligned_cols=25 Identities=36% Similarity=0.776 Sum_probs=22.6
Q ss_pred ccc----CCCcccccCcHHHHHHHHHhCC
Q psy4409 176 YVC----MVCPYHCRQNESMKRHLRKHTK 200 (305)
Q Consensus 176 ~~C----~~C~~~f~~~~~l~~H~~~h~~ 200 (305)
|.| ..|+..+.+...+..|++.++|
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 889 9999999999999999988664
No 73
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=91.94 E-value=0.029 Score=50.18 Aligned_cols=152 Identities=21% Similarity=0.309 Sum_probs=97.6
Q ss_pred CcccCCCCccCCCcHHHHHHHH--hhCCC--CCeeCC--cCcccccChHHHHHHHHHhcCccccccccCcCccccCC--C
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIR--RHTGE--KPFKCN--FCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTF--C 146 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~--C 146 (305)
.+.|..|...|.....|..|.. .|.++ +++.|+ .|++.|.....+..|...+.... .+.+.. +
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~ 359 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS---------PAKEKLLNS 359 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCC---------ccccccccC
Confidence 5899999999999999999999 89999 999999 79999999999999998843321 122211 1
Q ss_pred CccchhcHHHHHHHHhhhcCccccCCCCCcccCC--CcccccCcHHHHHHHHHhCCCC--CccCccchhhcCChHHHHHH
Q psy4409 147 RDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMV--CPYHCRQNESMKRHLRKHTKDK--PYECGFCSLKFSRRDNLRRH 222 (305)
Q Consensus 147 ~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~--~~~C~~C~~~f~~~~~l~~H 222 (305)
. ..+.....-..+....... .......+.+.. |...+.....+..|...|.... .+.+..|.+.|.....+..|
T Consensus 360 ~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 (467)
T COG5048 360 S-SKFSPLLNNEPPQSLQQYK-DLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPH 437 (467)
T ss_pred c-cccccccCCCCccchhhcc-CccCCccccccccchhhhhccccccccccccccccCCcCCCCCcchhhccCccccccc
Confidence 1 1111100000000000000 000112233332 6666677777777776666655 46677899999999999999
Q ss_pred HHhcCCccccCCCCC
Q psy4409 223 LKDQHSYDSFRSSTK 237 (305)
Q Consensus 223 ~~~hh~~~~~~c~~c 237 (305)
++.+....++-|..+
T Consensus 438 ~~~~~~~~~~~~~~~ 452 (467)
T COG5048 438 KKIHTNHAPLLCSIL 452 (467)
T ss_pred ccccccCCceeeccc
Confidence 888887776666554
No 74
>KOG4173|consensus
Probab=91.30 E-value=0.07 Score=41.17 Aligned_cols=54 Identities=22% Similarity=0.459 Sum_probs=32.9
Q ss_pred cccCCCCccCCCcHHHHHHHHh-h---------CCCCCeeCCc--CcccccChHHHHHHHHHhcCc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRR-H---------TGEKPFKCNF--CFQCFTQNVSLQTHIRIKHTR 129 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~ 129 (305)
-.|..|.+.|.+.-.|..|+.. | -|...|.|-+ |+..|.+...-..|+-..|..
T Consensus 107 ~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 107 NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhccC
Confidence 4566677777766666666642 2 1334466644 777777776666776665543
No 75
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=88.75 E-value=0.19 Score=44.88 Aligned_cols=66 Identities=27% Similarity=0.546 Sum_probs=59.8
Q ss_pred CCcccCCCcccccCcHHHHHHHH--HhCCC--CCccCc--cchhhcCChHHHHHHHHhcCCccccCCCCCCC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLR--KHTKD--KPYECG--FCSLKFSRRDNLRRHLKDQHSYDSFRSSTKKP 239 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~--~h~~~--~~~~C~--~C~~~f~~~~~l~~H~~~hh~~~~~~c~~c~~ 239 (305)
.++.|..|...|.....|..|.+ .|.++ +++.|+ .|++.|.....+..|...|.+..++.+.....
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNS 359 (467)
T ss_pred cCCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCcccccCCCccccccccC
Confidence 36899999999999999999999 89999 999999 79999999999999999999988877776544
No 76
>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=88.39 E-value=0.33 Score=34.06 Aligned_cols=30 Identities=20% Similarity=0.467 Sum_probs=22.1
Q ss_pred cccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCCh
Q psy4409 176 YVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRR 216 (305)
Q Consensus 176 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 216 (305)
..|+.||..|... +..|..||+||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 4788888888653 34677888888888654
No 77
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=88.22 E-value=0.66 Score=32.58 Aligned_cols=48 Identities=15% Similarity=0.237 Sum_probs=27.1
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHhc
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKDQ 226 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~h 226 (305)
.|--|...|........ ..-.....|+|+.|...|----++..|...|
T Consensus 57 ~C~~C~~~f~~~~~~~~--~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPF--DELKDSHRYVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred cccCcCCCCCCcccccc--cccccccceeCCCCCCccccccchhhhhhcc
Confidence 47777777765431110 0011234577777777777766777776544
No 78
>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=87.99 E-value=0.34 Score=34.02 Aligned_cols=30 Identities=23% Similarity=0.408 Sum_probs=19.3
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
..|+.||+.|-.. +..|..|++||..|.-.
T Consensus 10 R~Cp~CG~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccC-----------CCCCccCCCCCCccCcc
Confidence 6677777776432 23566777777776554
No 79
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=87.50 E-value=0.53 Score=25.89 Aligned_cols=34 Identities=24% Similarity=0.446 Sum_probs=20.8
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFT 114 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 114 (305)
..|+.|+..|.-..+- .-.+....+|+.|+..|.
T Consensus 3 i~CP~C~~~f~v~~~~-----l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDK-----LPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred EECCCCCceEEcCHHH-----cccCCcEEECCCCCcEee
Confidence 5677787777655441 223344677777777663
No 80
>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=87.31 E-value=0.46 Score=26.20 Aligned_cols=34 Identities=12% Similarity=0.221 Sum_probs=20.0
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFT 114 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 114 (305)
+.|+.|+..|.-..+.. ......+.|+.|+..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~-----~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQL-----GANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHc-----CCCCCEEECCCCCCEEE
Confidence 67778877776554421 11122467777777663
No 81
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=86.94 E-value=0.61 Score=25.48 Aligned_cols=33 Identities=18% Similarity=0.382 Sum_probs=20.3
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCF 113 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 113 (305)
..|+.|+..|.-..+. +-......+|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~-----ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEK-----IPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHH-----CCCCCcEEECCCCCCEe
Confidence 5677777777655542 22233457777777766
No 82
>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=86.32 E-value=0.4 Score=25.80 Aligned_cols=7 Identities=29% Similarity=1.013 Sum_probs=3.2
Q ss_pred ccCccch
Q psy4409 204 YECGFCS 210 (305)
Q Consensus 204 ~~C~~C~ 210 (305)
..||+|+
T Consensus 19 ~~CP~Cg 25 (34)
T cd00729 19 EKCPICG 25 (34)
T ss_pred CcCcCCC
Confidence 3444444
No 83
>KOG2186|consensus
Probab=85.86 E-value=0.53 Score=37.81 Aligned_cols=46 Identities=30% Similarity=0.618 Sum_probs=36.6
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIR 124 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~ 124 (305)
|.|..||....- ..+..|+...++ .-|.|-.|++.|.. ..+..|..
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccC-CeeEEeeccccccc-chhhhhhh
Confidence 899999988765 456669988777 67999999999988 55666754
No 84
>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=85.50 E-value=0.62 Score=23.35 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=7.1
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 35777777664
No 85
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.87 E-value=0.16 Score=40.68 Aligned_cols=43 Identities=16% Similarity=0.401 Sum_probs=27.8
Q ss_pred CCcccCCCcccccCcHHHHHHHHH-h---------CCCCC-----ccCccchhhcCCh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRK-H---------TKDKP-----YECGFCSLKFSRR 216 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~-h---------~~~~~-----~~C~~C~~~f~~~ 216 (305)
+.+.||+|+..|.+...+....++ . .+..| ..||.||.+|...
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 557888888888876555444432 1 11222 5799999887654
No 86
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=84.42 E-value=0.25 Score=39.59 Aligned_cols=25 Identities=16% Similarity=0.370 Sum_probs=19.0
Q ss_pred CCcccCCCCCCcCcChHHHHhhhhh
Q psy4409 11 EKPYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
++.+.||+|+..|.+..-.....+.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~ 27 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRV 27 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceE
Confidence 4678999999999987655555543
No 87
>KOG1280|consensus
Probab=84.19 E-value=0.67 Score=39.03 Aligned_cols=36 Identities=17% Similarity=0.307 Sum_probs=25.9
Q ss_pred CccCccchhhcCChHHHHHHHHhcCCcccc--CCCCCC
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLKDQHSYDSF--RSSTKK 238 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~--~c~~c~ 238 (305)
-|.|++|+..=.+...|..|....|.+.++ .|++|.
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~~icp~c~ 116 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLSQHPEASTSVICPLCA 116 (381)
T ss_pred cccCCcccccccchhHHHHHhhhcCcccCcceeeeccc
Confidence 478888887766777888888888877653 355554
No 88
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=83.83 E-value=0.85 Score=26.20 Aligned_cols=27 Identities=15% Similarity=0.401 Sum_probs=18.6
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCF 113 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 113 (305)
|.|..||..|... ...+..|+.||..-
T Consensus 3 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~rI 29 (44)
T smart00659 3 YICGECGRENEIK-----------SKDVVRCRECGYRI 29 (44)
T ss_pred EECCCCCCEeecC-----------CCCceECCCCCceE
Confidence 8888888877643 23567788887654
No 89
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.06 E-value=2.5 Score=29.78 Aligned_cols=48 Identities=15% Similarity=0.334 Sum_probs=30.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHHHHHHHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHIRI 125 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 125 (305)
..|--|...|....... ...-.....|.|+.|...|-..-.+..|...
T Consensus 56 ~~C~~C~~~f~~~~~~~--~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSP--FDELKDSHRYVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred CcccCcCCCCCCccccc--ccccccccceeCCCCCCccccccchhhhhhc
Confidence 45888888887543111 0001223468888888888888777888777
No 90
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=83.00 E-value=0.74 Score=34.98 Aligned_cols=24 Identities=33% Similarity=0.830 Sum_probs=17.5
Q ss_pred CcccCCCcccccCcHHHHHHHHHhCCCCCccCccchh
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSL 211 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 211 (305)
-|.|++||..+ -++.|-+||+||.
T Consensus 134 ~~vC~vCGy~~-------------~ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTH-------------EGEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCcc-------------cCCCCCcCCCCCC
Confidence 57888887654 3467788888883
No 91
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=82.46 E-value=0.61 Score=27.07 Aligned_cols=29 Identities=14% Similarity=0.384 Sum_probs=19.7
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFT 114 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 114 (305)
|.|+.||..|..... ...+.|+.||..+.
T Consensus 4 y~C~~CG~~~~~~~~----------~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 4 YKCARCGREVELDEY----------GTGVRCPYCGYRIL 32 (46)
T ss_pred EECCCCCCEEEECCC----------CCceECCCCCCeEE
Confidence 888888887654222 12578888887654
No 92
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=82.37 E-value=0.82 Score=27.79 Aligned_cols=32 Identities=16% Similarity=0.245 Sum_probs=19.3
Q ss_pred CCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCC
Q psy4409 102 KPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCR 147 (305)
Q Consensus 102 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~ 147 (305)
..|.|+.||..-..+..--+- +.. +|.|+.||
T Consensus 26 v~F~CPnCGe~~I~Rc~~CRk----~g~----------~Y~Cp~CG 57 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKCRK----LGN----------PYRCPKCG 57 (61)
T ss_pred eEeeCCCCCceeeehhhhHHH----cCC----------ceECCCcC
Confidence 357888888666555433221 222 78888887
No 93
>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=81.00 E-value=1.1 Score=32.15 Aligned_cols=30 Identities=10% Similarity=0.178 Sum_probs=22.9
Q ss_pred cccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCCh
Q psy4409 176 YVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRR 216 (305)
Q Consensus 176 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 216 (305)
..|+.||..|... +..|..||+||..|.-.
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 4799999888652 34678999999888655
No 94
>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=80.86 E-value=1.4 Score=22.00 Aligned_cols=20 Identities=30% Similarity=0.463 Sum_probs=15.7
Q ss_pred ccCCCCCCcCcChHHHHhhhh
Q psy4409 14 YTCYFCNFKSAHMSSINNHLK 34 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~~H~~ 34 (305)
..||+|++.+ ....+..|+-
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 4699999998 5677778873
No 95
>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=79.95 E-value=1.4 Score=25.31 Aligned_cols=21 Identities=38% Similarity=0.803 Sum_probs=8.8
Q ss_pred ccCccchhhcCC----hHHHHHHHH
Q psy4409 204 YECGFCSLKFSR----RDNLRRHLK 224 (305)
Q Consensus 204 ~~C~~C~~~f~~----~~~l~~H~~ 224 (305)
..|.+|++.+.. .+.|.+|++
T Consensus 17 a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 17 AKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp EEETTTTEE-----SSTHHHHHHHH
T ss_pred EEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 445555544433 245555553
No 96
>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=79.83 E-value=0.64 Score=37.00 Aligned_cols=27 Identities=22% Similarity=0.623 Sum_probs=16.4
Q ss_pred CccCccchhhcCChHHHHHHHHhcCCc
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLKDQHSY 229 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~hh~~ 229 (305)
.|.|+.|+|.|.-..-+++|+...|.+
T Consensus 77 K~~C~lc~KlFkg~eFV~KHI~nKH~e 103 (214)
T PF04959_consen 77 KWRCPLCGKLFKGPEFVRKHIFNKHPE 103 (214)
T ss_dssp EEEE-SSS-EESSHHHHHHHHHHH-HH
T ss_pred EECCCCCCcccCChHHHHHHHhhcCHH
Confidence 467777777777777777777766654
No 97
>KOG2272|consensus
Probab=79.41 E-value=0.94 Score=36.35 Aligned_cols=49 Identities=16% Similarity=0.265 Sum_probs=23.6
Q ss_pred CCCCCCCCCCcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 66 YVPRPNIQFNFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 66 ~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
..+++.+...|.|+.|...... ..|. -+...-..--|+|..|++...+-
T Consensus 128 ~k~Ka~~~g~YvC~KCh~~iD~-~~l~-fr~d~yH~yHFkCt~C~keL~sd 176 (332)
T KOG2272|consen 128 QKEKAKGRGRYVCQKCHAHIDE-QPLT-FRGDPYHPYHFKCTTCGKELTSD 176 (332)
T ss_pred hhhcccccceeehhhhhhhccc-cccc-ccCCCCCccceecccccccccch
Confidence 3334444445888888654332 1111 00000001237888888876553
No 98
>KOG2807|consensus
Probab=78.89 E-value=4.4 Score=34.06 Aligned_cols=25 Identities=20% Similarity=0.285 Sum_probs=15.1
Q ss_pred CCccCccchhhcCChHHHHHHHHhc
Q psy4409 202 KPYECGFCSLKFSRRDNLRRHLKDQ 226 (305)
Q Consensus 202 ~~~~C~~C~~~f~~~~~l~~H~~~h 226 (305)
..|+|+.|...|-.--....|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 3466666666666666666665443
No 99
>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=78.40 E-value=0.62 Score=37.07 Aligned_cols=31 Identities=26% Similarity=0.382 Sum_probs=24.9
Q ss_pred CCCcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 10 GEKPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
.+..|.|+.|+|.|.....+++||..-|.+.
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 4567999999999999999999999988765
No 100
>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=78.16 E-value=1.2 Score=32.46 Aligned_cols=24 Identities=38% Similarity=0.714 Sum_probs=13.6
Q ss_pred ccCccchhhcCChHHHHHHHHhcCCcc
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQHSYD 230 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh~~~ 230 (305)
..|-+||+.|.. |.+|+..|||-.
T Consensus 73 i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred eEEccCCcccch---HHHHHHHccCCC
Confidence 567777877765 577877777743
No 101
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=77.41 E-value=0.7 Score=30.55 Aligned_cols=32 Identities=25% Similarity=0.481 Sum_probs=18.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSR 215 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 215 (305)
..|.|+.|++.- +.++ +...|.|..|+..|.-
T Consensus 34 ~~~~Cp~C~~~~--------VkR~--a~GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRTT--------VKRI--ATGIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCcc--------eeee--ccCeEEcCCCCCeecc
Confidence 356777777651 1222 2244777777777753
No 102
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=77.21 E-value=0.37 Score=36.22 Aligned_cols=16 Identities=25% Similarity=0.604 Sum_probs=9.8
Q ss_pred ccCccchhhcCChHHH
Q psy4409 204 YECGFCSLKFSRRDNL 219 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l 219 (305)
++|+.||+.|.+...+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 6666677666655443
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=77.13 E-value=0.6 Score=27.85 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=16.7
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQ 111 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 111 (305)
|.|..|+..|.....+.. ..+-.|+.|+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-------~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-------DPLATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEEEecCC-------CCCCCCCCCCC
Confidence 777777777764322111 23455777775
No 104
>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=76.96 E-value=1.6 Score=31.33 Aligned_cols=30 Identities=10% Similarity=0.078 Sum_probs=16.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
..|+.||+.|-. .+..|..|++||..|.-.
T Consensus 10 r~Cp~cg~kFYD-----------Lnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYD-----------LNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccc-----------cCCCCccCCCcCCccCcc
Confidence 566666666633 123556666666665433
No 105
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=76.77 E-value=1.1 Score=27.60 Aligned_cols=40 Identities=18% Similarity=0.478 Sum_probs=23.3
Q ss_pred CCcccCC--CcccccCcHHHHHHHHHhCCCCCccCcc----chhhcC
Q psy4409 174 YRYVCMV--CPYHCRQNESMKRHLRKHTKDKPYECGF----CSLKFS 214 (305)
Q Consensus 174 ~~~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~ 214 (305)
.+..|+. |...+. ...|..|.......++..|++ |+..+.
T Consensus 8 ~~v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~ 53 (60)
T PF02176_consen 8 RPVPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVP 53 (60)
T ss_dssp SEEE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEE
T ss_pred CEeeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccc
Confidence 4567777 444343 557778887666667778888 877764
No 106
>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=76.16 E-value=1.4 Score=33.50 Aligned_cols=16 Identities=19% Similarity=0.108 Sum_probs=8.0
Q ss_pred cccCCCCccCCCcHHH
Q psy4409 76 FTCLVCDYHSPRSIDM 91 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l 91 (305)
|.|+.|+..|+....+
T Consensus 110 Y~Cp~c~~r~tf~eA~ 125 (158)
T TIGR00373 110 FICPNMCVRFTFNEAM 125 (158)
T ss_pred EECCCCCcEeeHHHHH
Confidence 5555555555444443
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=75.73 E-value=2.8 Score=31.39 Aligned_cols=14 Identities=29% Similarity=0.562 Sum_probs=7.5
Q ss_pred CCeeCCcCcccccC
Q psy4409 102 KPFKCNFCFQCFTQ 115 (305)
Q Consensus 102 ~~~~C~~C~~~f~~ 115 (305)
..|.|+.|+..|..
T Consensus 98 ~~Y~Cp~C~~~y~~ 111 (147)
T smart00531 98 AYYKCPNCQSKYTF 111 (147)
T ss_pred cEEECcCCCCEeeH
Confidence 34555555555553
No 108
>KOG2807|consensus
Probab=74.46 E-value=5 Score=33.79 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=15.3
Q ss_pred CCcccCCCcccccCcHHHHH
Q psy4409 174 YRYVCMVCPYHCRQNESMKR 193 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~ 193 (305)
.|..|++|+........|.+
T Consensus 289 LP~eCpiC~ltLVss~hLAR 308 (378)
T KOG2807|consen 289 LPIECPICSLTLVSSPHLAR 308 (378)
T ss_pred CCccCCccceeEecchHHHH
Confidence 67788888888877776654
No 109
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=74.28 E-value=1.4 Score=34.18 Aligned_cols=15 Identities=33% Similarity=0.487 Sum_probs=7.1
Q ss_pred CeeCCcCcccccChH
Q psy4409 103 PFKCNFCFQCFTQNV 117 (305)
Q Consensus 103 ~~~C~~C~~~f~~~~ 117 (305)
-|.|+.|+..|....
T Consensus 117 ~Y~Cp~C~~rytf~e 131 (178)
T PRK06266 117 FFFCPNCHIRFTFDE 131 (178)
T ss_pred EEECCCCCcEEeHHH
Confidence 345555555544443
No 110
>KOG2186|consensus
Probab=74.08 E-value=1.7 Score=34.99 Aligned_cols=50 Identities=22% Similarity=0.433 Sum_probs=25.9
Q ss_pred ccccCCCCccchhcHHHHHHHHhhhcCccccCCCCCcccCCCcccccCcHHHHHHHHHhC
Q psy4409 140 RIYCTFCRDPLYNDLKILLQHTKNCKGAFRENDSYRYVCMVCPYHCRQNESMKRHLRKHT 199 (305)
Q Consensus 140 ~~~C~~C~~~~~~~~~~l~~h~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 199 (305)
.|.|..|| .... ...+..|+..+++. .|.|-.|+..|.. ..+..|..--+
T Consensus 3 ~FtCnvCg-EsvK-Kp~vekH~srCrn~-------~fSCIDC~k~F~~-~sYknH~kCIT 52 (276)
T KOG2186|consen 3 FFTCNVCG-ESVK-KPQVEKHMSRCRNA-------YFSCIDCGKTFER-VSYKNHTKCIT 52 (276)
T ss_pred EEehhhhh-hhcc-ccchHHHHHhccCC-------eeEEeeccccccc-chhhhhhhhcc
Confidence 45666666 2222 23344465555553 4566666666655 44555544333
No 111
>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=74.07 E-value=3.4 Score=31.34 Aligned_cols=30 Identities=20% Similarity=0.396 Sum_probs=16.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLK 212 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 212 (305)
.-|.|+.|+..|+...++. .-|.||.||..
T Consensus 108 ~~Y~Cp~c~~r~tf~eA~~---------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 108 MFFICPNMCVRFTFNEAME---------LNFTCPRCGAM 137 (158)
T ss_pred CeEECCCCCcEeeHHHHHH---------cCCcCCCCCCE
Confidence 3456666666665544442 13566666654
No 112
>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=73.90 E-value=0.78 Score=25.67 Aligned_cols=29 Identities=14% Similarity=0.266 Sum_probs=16.7
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQ 111 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 111 (305)
|.|..||..|....... ......|+.||.
T Consensus 6 y~C~~Cg~~fe~~~~~~-------~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKIS-------DDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecC-------CCCCCCCCCCCC
Confidence 77777777765433321 134456777775
No 113
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.60 E-value=3.1 Score=31.18 Aligned_cols=36 Identities=19% Similarity=0.363 Sum_probs=20.0
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhc
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKF 213 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 213 (305)
.-|.|+.|+..|.....+.. .. ....|.||.||...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~---~d-~~~~f~Cp~Cg~~l 133 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQL---LD-MDGTFTCPRCGEEL 133 (147)
T ss_pred cEEECcCCCCEeeHHHHHHh---cC-CCCcEECCCCCCEE
Confidence 45777777777764333221 01 13337777777654
No 114
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=73.26 E-value=3.3 Score=34.45 Aligned_cols=47 Identities=19% Similarity=0.442 Sum_probs=27.2
Q ss_pred cccCCCCccCCCcHHHHHHHH-hhCCCCCeeCCcCcccccChHHHHHHHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIR-RHTGEKPFKCNFCFQCFTQNVSLQTHIRI 125 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~-~h~~~~~~~C~~C~~~f~~~~~l~~H~~~ 125 (305)
-.|-.|.-.|+.... |.. .-.....|.|+.|...|..--....|...
T Consensus 363 ~~Cf~CQ~~fp~~~~---~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~L 410 (421)
T COG5151 363 THCFVCQGPFPKPPV---SPFDESTSSGRYQCELCKSTFCSDCDVFIHETL 410 (421)
T ss_pred ccceeccCCCCCCCC---CcccccccccceechhhhhhhhhhhHHHHHHHH
Confidence 457777766664322 110 01112347788888777777777777766
No 115
>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=73.02 E-value=0.68 Score=26.29 Aligned_cols=13 Identities=23% Similarity=0.514 Sum_probs=7.3
Q ss_pred CcccCCCcccccC
Q psy4409 175 RYVCMVCPYHCRQ 187 (305)
Q Consensus 175 ~~~C~~C~~~f~~ 187 (305)
.|.|..||..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (42)
T PF09723_consen 5 EYRCEECGHEFEV 17 (42)
T ss_pred EEEeCCCCCEEEE
Confidence 3556666655543
No 116
>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=72.77 E-value=1.8 Score=22.91 Aligned_cols=27 Identities=19% Similarity=0.474 Sum_probs=14.7
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCF 113 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 113 (305)
|.|..|+..+... ...+..|+.||...
T Consensus 1 Y~C~~Cg~~~~~~-----------~~~~irC~~CG~RI 27 (32)
T PF03604_consen 1 YICGECGAEVELK-----------PGDPIRCPECGHRI 27 (32)
T ss_dssp EBESSSSSSE-BS-----------TSSTSSBSSSS-SE
T ss_pred CCCCcCCCeeEcC-----------CCCcEECCcCCCeE
Confidence 5677777765521 12346777777654
No 117
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=72.64 E-value=2.3 Score=32.35 Aligned_cols=22 Identities=45% Similarity=1.073 Sum_probs=13.7
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCF 110 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~ 110 (305)
|.|++||.. +-++-|-.||+||
T Consensus 135 ~vC~vCGy~-------------~~ge~P~~CPiCg 156 (166)
T COG1592 135 WVCPVCGYT-------------HEGEAPEVCPICG 156 (166)
T ss_pred EEcCCCCCc-------------ccCCCCCcCCCCC
Confidence 777777653 2345566677776
No 118
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=72.33 E-value=1.8 Score=26.37 Aligned_cols=14 Identities=21% Similarity=0.448 Sum_probs=8.5
Q ss_pred CeeCCcCcccccCh
Q psy4409 103 PFKCNFCFQCFTQN 116 (305)
Q Consensus 103 ~~~C~~C~~~f~~~ 116 (305)
.|.|+.||.....+
T Consensus 25 ~F~CPnCG~~~I~R 38 (59)
T PRK14890 25 KFLCPNCGEVIIYR 38 (59)
T ss_pred EeeCCCCCCeeEee
Confidence 47777777664333
No 119
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=71.24 E-value=2.8 Score=24.73 Aligned_cols=10 Identities=20% Similarity=0.467 Sum_probs=5.0
Q ss_pred ccCCCccccc
Q psy4409 177 VCMVCPYHCR 186 (305)
Q Consensus 177 ~C~~C~~~f~ 186 (305)
.|..|++.+.
T Consensus 20 ~C~~C~~~l~ 29 (50)
T smart00614 20 KCKYCGKKLS 29 (50)
T ss_pred EecCCCCEee
Confidence 4555555543
No 120
>PF15269 zf-C2H2_7: Zinc-finger
Probab=70.77 E-value=4.5 Score=22.96 Aligned_cols=24 Identities=25% Similarity=1.011 Sum_probs=16.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHH
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRK 197 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~ 197 (305)
..|+|-.|.....-++.|.+||+.
T Consensus 19 ~~ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 19 FKYKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ccceeecCCcccchHHHHHHHHHH
Confidence 446777777777777777777653
No 121
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=70.42 E-value=1.8 Score=26.51 Aligned_cols=40 Identities=18% Similarity=0.585 Sum_probs=24.3
Q ss_pred cccCC--CCccCCCcHHHHHHHHhhCCCCCeeCCc----CcccccCh
Q psy4409 76 FTCLV--CDYHSPRSIDMRRHIRRHTGEKPFKCNF----CFQCFTQN 116 (305)
Q Consensus 76 ~~C~~--C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~ 116 (305)
..|+. |...+. ...|..|+...-..++..|++ |+..+...
T Consensus 10 v~C~~~cc~~~i~-r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~ 55 (60)
T PF02176_consen 10 VPCPNGCCNEMIP-RKELDDHLENECPKRPVPCPYSPYGCKERVPRE 55 (60)
T ss_dssp EE-TT--S-BEEE-CCCHHHHHHTTSTTSEEE-SS----S--EEEHH
T ss_pred eeCCCCCccccee-HHHHHHHHHccCCCCcEECCCCCCCCCCccchh
Confidence 67777 444344 568888888777777888888 88776544
No 122
>KOG1280|consensus
Probab=70.04 E-value=4.6 Score=34.27 Aligned_cols=39 Identities=26% Similarity=0.570 Sum_probs=30.6
Q ss_pred CCeeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCC
Q psy4409 102 KPFKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCR 147 (305)
Q Consensus 102 ~~~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~ 147 (305)
..|.|++|+..=.+...|..|....|... .....|+.|.
T Consensus 78 qSftCPyC~~~Gfte~~f~~Hv~s~Hpda-------~~~~icp~c~ 116 (381)
T KOG1280|consen 78 QSFTCPYCGIMGFTERQFGTHVLSQHPEA-------STSVICPLCA 116 (381)
T ss_pred ccccCCcccccccchhHHHHHhhhcCccc-------Ccceeeeccc
Confidence 36899999999889999999999888651 1355677776
No 123
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=68.91 E-value=4.2 Score=31.52 Aligned_cols=31 Identities=19% Similarity=0.502 Sum_probs=15.9
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhc
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKF 213 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 213 (305)
.-|.|+.|+..|+....+. .-|.||.||...
T Consensus 116 ~~Y~Cp~C~~rytf~eA~~---------~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDEAME---------YGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHHHhh---------cCCcCCCCCCCC
Confidence 3456666666555444331 235666665543
No 124
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=68.78 E-value=2.9 Score=24.57 Aligned_cols=29 Identities=14% Similarity=0.511 Sum_probs=17.8
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccc
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCF 113 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 113 (305)
.|.|..|++.|.... ......|+.||...
T Consensus 6 ~Y~C~~Cg~~~~~~~----------~~~~irCp~Cg~rI 34 (49)
T COG1996 6 EYKCARCGREVELDQ----------ETRGIRCPYCGSRI 34 (49)
T ss_pred EEEhhhcCCeeehhh----------ccCceeCCCCCcEE
Confidence 388888888772111 13456788887653
No 125
>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=68.59 E-value=2.5 Score=20.68 Aligned_cols=11 Identities=36% Similarity=1.068 Sum_probs=8.9
Q ss_pred CCcccCCCCCC
Q psy4409 11 EKPYTCYFCNF 21 (305)
Q Consensus 11 ~~~~~C~~C~~ 21 (305)
--+|.||.||+
T Consensus 14 ~v~f~CPnCG~ 24 (24)
T PF07754_consen 14 AVPFPCPNCGF 24 (24)
T ss_pred CceEeCCCCCC
Confidence 35799999985
No 126
>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=67.62 E-value=2.7 Score=30.68 Aligned_cols=27 Identities=22% Similarity=0.335 Sum_probs=17.8
Q ss_pred CCcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 11 EKPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
...-.|-+||+.|.. |.+|++.||+..
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT-S-
T ss_pred cCeeEEccCCcccch---HHHHHHHccCCC
Confidence 445789999999996 699999998865
No 127
>PF12907 zf-met2: Zinc-binding
Probab=67.41 E-value=5.6 Score=22.28 Aligned_cols=27 Identities=22% Similarity=0.621 Sum_probs=18.2
Q ss_pred ccCccchhhc---CChHHHHHHHHhcCCcc
Q psy4409 204 YECGFCSLKF---SRRDNLRRHLKDQHSYD 230 (305)
Q Consensus 204 ~~C~~C~~~f---~~~~~l~~H~~~hh~~~ 230 (305)
+.|.+|-..| .+...|..|....|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 5788888544 44567888887666543
No 128
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=66.67 E-value=1.7 Score=41.33 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=8.2
Q ss_pred CCcccCCCccccc
Q psy4409 174 YRYVCMVCPYHCR 186 (305)
Q Consensus 174 ~~~~C~~C~~~f~ 186 (305)
..+.|+.|+..+.
T Consensus 443 ~v~~Cp~Cd~~lt 455 (730)
T COG1198 443 YIAECPNCDSPLT 455 (730)
T ss_pred CcccCCCCCcceE
Confidence 4567777775543
No 129
>KOG2071|consensus
Probab=66.48 E-value=5.5 Score=36.52 Aligned_cols=26 Identities=19% Similarity=0.410 Sum_probs=20.7
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHT 199 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~ 199 (305)
.+-.|..||..|........||..|.
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred CcchhcccccccccchhhhhHhhhhh
Confidence 45778888888888888888887763
No 130
>PF14353 CpXC: CpXC protein
Probab=66.11 E-value=7.1 Score=28.36 Aligned_cols=47 Identities=21% Similarity=0.300 Sum_probs=26.5
Q ss_pred cccCCCCccCCCcHH----------HHHHHHhhCCCCCeeCCcCcccccChHHHHHHH
Q psy4409 76 FTCLVCDYHSPRSID----------MRRHIRRHTGEKPFKCNFCFQCFTQNVSLQTHI 123 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~----------l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 123 (305)
.+|+.|+..|..... |+.=+. -..-..|.|+.||..|.-...+..|-
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il-~g~l~~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKIL-DGSLFSFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH-cCCcCEEECCCCCCceecCCCEEEEc
Confidence 578888887763322 221111 11124578888888886655555443
No 131
>PRK04023 DNA polymerase II large subunit; Validated
Probab=65.82 E-value=7.3 Score=38.23 Aligned_cols=12 Identities=17% Similarity=0.243 Sum_probs=6.9
Q ss_pred CcccCCCccccc
Q psy4409 175 RYVCMVCPYHCR 186 (305)
Q Consensus 175 ~~~C~~C~~~f~ 186 (305)
++.|+.||....
T Consensus 663 ~y~CPKCG~El~ 674 (1121)
T PRK04023 663 EDECEKCGREPT 674 (1121)
T ss_pred CCcCCCCCCCCC
Confidence 455666665544
No 132
>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=65.69 E-value=2 Score=22.32 Aligned_cols=9 Identities=22% Similarity=0.438 Sum_probs=4.4
Q ss_pred CccCccchh
Q psy4409 203 PYECGFCSL 211 (305)
Q Consensus 203 ~~~C~~C~~ 211 (305)
.|.|+.|+.
T Consensus 19 ~~vCp~C~~ 27 (30)
T PF08274_consen 19 LLVCPECGH 27 (30)
T ss_dssp SEEETTTTE
T ss_pred EEeCCcccc
Confidence 355555543
No 133
>KOG2071|consensus
Probab=63.26 E-value=5.2 Score=36.66 Aligned_cols=30 Identities=17% Similarity=0.384 Sum_probs=25.5
Q ss_pred CCcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 11 EKPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
..+-.|..||.+|........||..|....
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~dwh 445 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHDDWH 445 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhhhhh
Confidence 467889999999999999999988877544
No 134
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=62.90 E-value=8.1 Score=32.29 Aligned_cols=25 Identities=20% Similarity=0.429 Sum_probs=17.8
Q ss_pred CCccCccchhhcCChHHHHHHHHhc
Q psy4409 202 KPYECGFCSLKFSRRDNLRRHLKDQ 226 (305)
Q Consensus 202 ~~~~C~~C~~~f~~~~~l~~H~~~h 226 (305)
..|+|+.|...|-.--...-|...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 3478888888887777777776554
No 135
>PHA00626 hypothetical protein
Probab=62.39 E-value=4 Score=24.52 Aligned_cols=17 Identities=18% Similarity=0.636 Sum_probs=14.0
Q ss_pred CCcccCCCCCCcCcChH
Q psy4409 11 EKPYTCYFCNFKSAHMS 27 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~~ 27 (305)
...|+|+.||+.|+..+
T Consensus 21 snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CcceEcCCCCCeechhh
Confidence 46799999999998643
No 136
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=61.95 E-value=1.8 Score=27.88 Aligned_cols=12 Identities=33% Similarity=0.681 Sum_probs=5.9
Q ss_pred ccCc--cchhhcCC
Q psy4409 204 YECG--FCSLKFSR 215 (305)
Q Consensus 204 ~~C~--~C~~~f~~ 215 (305)
++|. .||..|..
T Consensus 28 ~qC~N~eCg~tF~t 41 (72)
T PRK09678 28 HQCQNVNCSATFIT 41 (72)
T ss_pred eecCCCCCCCEEEE
Confidence 4554 45555543
No 137
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=61.69 E-value=14 Score=31.56 Aligned_cols=24 Identities=17% Similarity=0.232 Sum_probs=20.6
Q ss_pred CcccCCCCCCcCcChHHHHhhhhh
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
..+-|+.|++-|.+...+..|+..
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~g 260 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEG 260 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhh
Confidence 457899999999999999999754
No 138
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=59.37 E-value=3.8 Score=19.79 Aligned_cols=6 Identities=33% Similarity=0.827 Sum_probs=2.8
Q ss_pred cCCCcc
Q psy4409 178 CMVCPY 183 (305)
Q Consensus 178 C~~C~~ 183 (305)
|+.||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444443
No 139
>KOG2593|consensus
Probab=59.15 E-value=8 Score=34.01 Aligned_cols=37 Identities=19% Similarity=0.453 Sum_probs=21.8
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhc
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKF 213 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 213 (305)
.-|.|+.|.+.|.....++. .-.....|.|..|+-..
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~gel 163 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGEL 163 (436)
T ss_pred ccccCCccccchhhhHHHHh---hcccCceEEEecCCCch
Confidence 45778888877765444322 22233457777776443
No 140
>PRK04023 DNA polymerase II large subunit; Validated
Probab=57.82 E-value=12 Score=36.94 Aligned_cols=8 Identities=38% Similarity=0.812 Sum_probs=5.0
Q ss_pred ccccCCCC
Q psy4409 140 RIYCTFCR 147 (305)
Q Consensus 140 ~~~C~~C~ 147 (305)
...|+.||
T Consensus 626 ~RfCpsCG 633 (1121)
T PRK04023 626 RRKCPSCG 633 (1121)
T ss_pred CccCCCCC
Confidence 45666666
No 141
>KOG2593|consensus
Probab=56.06 E-value=8.5 Score=33.87 Aligned_cols=34 Identities=15% Similarity=0.329 Sum_probs=15.0
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQC 112 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 112 (305)
|.|+.|.+.|.....++- .-.....|.|..|+..
T Consensus 129 Y~Cp~C~kkyt~Lea~~L---~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 129 YVCPNCQKKYTSLEALQL---LDNETGEFHCENCGGE 162 (436)
T ss_pred ccCCccccchhhhHHHHh---hcccCceEEEecCCCc
Confidence 555555555544333321 1111234555555543
No 142
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=55.80 E-value=5.1 Score=22.45 Aligned_cols=17 Identities=18% Similarity=0.258 Sum_probs=9.1
Q ss_pred ccCccchhhcCChHHHH
Q psy4409 204 YECGFCSLKFSRRDNLR 220 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~ 220 (305)
+.|+.|+-.+-...+|.
T Consensus 20 d~C~~C~G~W~d~~el~ 36 (41)
T PF13453_consen 20 DVCPSCGGIWFDAGELE 36 (41)
T ss_pred EECCCCCeEEccHHHHH
Confidence 45555555555555443
No 143
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=54.28 E-value=34 Score=24.87 Aligned_cols=15 Identities=27% Similarity=0.636 Sum_probs=10.7
Q ss_pred CccCccchhhcCChH
Q psy4409 203 PYECGFCSLKFSRRD 217 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~ 217 (305)
|++|..||+.|..-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 467888888887644
No 144
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=53.48 E-value=7.9 Score=34.18 Aligned_cols=30 Identities=17% Similarity=0.412 Sum_probs=22.9
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChH
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRD 217 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 217 (305)
.|+.||....+ .|.+-|+|+.||..+....
T Consensus 352 ~Cp~Cg~~m~S-----------~G~~g~rC~kCg~~~~~~~ 381 (421)
T COG1571 352 VCPRCGGRMKS-----------AGRNGFRCKKCGTRARETL 381 (421)
T ss_pred CCCccCCchhh-----------cCCCCcccccccccCCccc
Confidence 79999987665 3444799999999887653
No 145
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=52.45 E-value=14 Score=20.73 Aligned_cols=24 Identities=25% Similarity=0.404 Sum_probs=17.4
Q ss_pred cccCCCCccCC--CcHHHHHHHHhhC
Q psy4409 76 FTCLVCDYHSP--RSIDMRRHIRRHT 99 (305)
Q Consensus 76 ~~C~~C~~~f~--~~~~l~~H~~~h~ 99 (305)
-+|+.||+.|. ...+-..|.+.|.
T Consensus 14 ~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 14 TTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred cCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 68999998876 4556677776663
No 146
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=52.26 E-value=10 Score=22.34 Aligned_cols=20 Identities=25% Similarity=0.406 Sum_probs=13.4
Q ss_pred CCCeeCCcCcccccChHHHH
Q psy4409 101 EKPFKCNFCFQCFTQNVSLQ 120 (305)
Q Consensus 101 ~~~~~C~~C~~~f~~~~~l~ 120 (305)
++++.|..||..|.....=+
T Consensus 2 Dk~l~C~dCg~~FvfTa~EQ 21 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAGEQ 21 (49)
T ss_pred CeeEEcccCCCeEEEehhHH
Confidence 45677888888877655433
No 147
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.74 E-value=3.6 Score=32.76 Aligned_cols=39 Identities=23% Similarity=0.464 Sum_probs=23.0
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCC----------CC-----ccCccchhh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKD----------KP-----YECGFCSLK 212 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~----------~~-----~~C~~C~~~ 212 (305)
..+.||+|+..|.....+..-.++-.++ -| +.||.|+..
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 4567888888877655443333333322 11 579999865
No 148
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=50.33 E-value=12 Score=25.10 Aligned_cols=14 Identities=21% Similarity=0.517 Sum_probs=8.8
Q ss_pred CCcccCCCcccccC
Q psy4409 174 YRYVCMVCPYHCRQ 187 (305)
Q Consensus 174 ~~~~C~~C~~~f~~ 187 (305)
.|-.|..||..|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 34567777777664
No 149
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=50.07 E-value=8.6 Score=21.35 Aligned_cols=13 Identities=15% Similarity=0.416 Sum_probs=11.6
Q ss_pred cccCCCCCCcCcC
Q psy4409 13 PYTCYFCNFKSAH 25 (305)
Q Consensus 13 ~~~C~~C~~~f~~ 25 (305)
||.|..|++.|=.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 8999999999874
No 150
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=49.65 E-value=8 Score=23.26 Aligned_cols=26 Identities=23% Similarity=0.533 Sum_probs=14.6
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcC
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFS 214 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 214 (305)
.|..||..|.. ++....|+.|+..+.
T Consensus 7 ~C~~Cg~~~~~------------~dDiVvCp~CgapyH 32 (54)
T PF14446_consen 7 KCPVCGKKFKD------------GDDIVVCPECGAPYH 32 (54)
T ss_pred cChhhCCcccC------------CCCEEECCCCCCccc
Confidence 56666666642 233456666665553
No 151
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.24 E-value=11 Score=26.13 Aligned_cols=28 Identities=4% Similarity=-0.081 Sum_probs=21.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFT 114 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 114 (305)
-.|+.|++.|-. .+..|..|++||++|.
T Consensus 10 ridPetg~KFYD-----------LNrdPiVsPytG~s~P 37 (129)
T COG4530 10 RIDPETGKKFYD-----------LNRDPIVSPYTGKSYP 37 (129)
T ss_pred ccCccccchhhc-----------cCCCccccCcccccch
Confidence 578889888854 2357888999999983
No 152
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=48.96 E-value=10 Score=34.13 Aligned_cols=28 Identities=29% Similarity=0.555 Sum_probs=23.8
Q ss_pred CCccCccchhhcCChHHHHHHHHhcCCc
Q psy4409 202 KPYECGFCSLKFSRRDNLRRHLKDQHSY 229 (305)
Q Consensus 202 ~~~~C~~C~~~f~~~~~l~~H~~~hh~~ 229 (305)
+.+.|+.|.+.|.....+..|+...|..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~ 83 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPA 83 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhh
Confidence 4588999999999999999999876653
No 153
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=48.53 E-value=6 Score=29.12 Aligned_cols=14 Identities=14% Similarity=0.301 Sum_probs=9.9
Q ss_pred CcccCCCCccCCCc
Q psy4409 75 NFTCLVCDYHSPRS 88 (305)
Q Consensus 75 ~~~C~~C~~~f~~~ 88 (305)
.+.|..||..|...
T Consensus 70 ~~~C~~CG~~~~~~ 83 (135)
T PRK03824 70 VLKCRNCGNEWSLK 83 (135)
T ss_pred EEECCCCCCEEecc
Confidence 37888888777653
No 154
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=48.20 E-value=13 Score=22.46 Aligned_cols=11 Identities=27% Similarity=0.760 Sum_probs=5.2
Q ss_pred CccCccchhhc
Q psy4409 203 PYECGFCSLKF 213 (305)
Q Consensus 203 ~~~C~~C~~~f 213 (305)
.|.|+.||..+
T Consensus 14 ~~~Cp~cGipt 24 (55)
T PF13824_consen 14 NFECPDCGIPT 24 (55)
T ss_pred CCcCCCCCCcC
Confidence 34555555443
No 155
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=46.97 E-value=8.2 Score=22.83 Aligned_cols=11 Identities=27% Similarity=0.803 Sum_probs=5.9
Q ss_pred CccCccchhhc
Q psy4409 203 PYECGFCSLKF 213 (305)
Q Consensus 203 ~~~C~~C~~~f 213 (305)
.+.|..||..+
T Consensus 37 r~~C~~Cgyt~ 47 (50)
T PRK00432 37 RWHCGKCGYTE 47 (50)
T ss_pred cEECCCcCCEE
Confidence 45566665543
No 156
>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=46.72 E-value=6.9 Score=35.98 Aligned_cols=12 Identities=25% Similarity=0.564 Sum_probs=7.0
Q ss_pred CCcccCCCcccc
Q psy4409 174 YRYVCMVCPYHC 185 (305)
Q Consensus 174 ~~~~C~~C~~~f 185 (305)
....|+.|+-..
T Consensus 221 ~~~~C~~C~~~l 232 (505)
T TIGR00595 221 YILCCPNCDVSL 232 (505)
T ss_pred CccCCCCCCCce
Confidence 455677776443
No 157
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=45.62 E-value=9.4 Score=27.65 Aligned_cols=22 Identities=32% Similarity=0.410 Sum_probs=13.0
Q ss_pred ccCccchhhcCChHHHHHHHHhcCC
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
..|-.+|+.|. .|.+|+.+|++
T Consensus 77 IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 77 IICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEEeccCcchH---HHHHHHhcccC
Confidence 45666666663 36666666665
No 158
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=45.47 E-value=3.5 Score=28.14 Aligned_cols=37 Identities=24% Similarity=0.457 Sum_probs=17.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFS 214 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 214 (305)
+.|.|+.|+..-...-.+. .-.......|..||..|.
T Consensus 21 k~FtCp~Cghe~vs~ctvk----k~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 21 KTFTCPRCGHEKVSSCTVK----KTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred ceEecCccCCeeeeEEEEE----ecCceeEEEcccCcceEE
Confidence 4566666665543322211 011122356777776663
No 159
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=45.00 E-value=17 Score=26.44 Aligned_cols=12 Identities=25% Similarity=0.611 Sum_probs=5.9
Q ss_pred CCcccCCCcccc
Q psy4409 174 YRYVCMVCPYHC 185 (305)
Q Consensus 174 ~~~~C~~C~~~f 185 (305)
+-|.|.+|..+.
T Consensus 79 ~lYeCnIC~etS 90 (140)
T PF05290_consen 79 KLYECNICKETS 90 (140)
T ss_pred CceeccCccccc
Confidence 345555555443
No 160
>KOG4118|consensus
Probab=44.94 E-value=17 Score=22.60 Aligned_cols=30 Identities=13% Similarity=0.582 Sum_probs=23.3
Q ss_pred ccCccchhhcCChHHHHHHHHhcCCccccC
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKDQHSYDSFR 233 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~ 233 (305)
|.|.+|--.......+..|....|...++.
T Consensus 39 ~kCtVC~~~mpdpktfkqhfe~kHpk~~~P 68 (74)
T KOG4118|consen 39 HKCTVCMVQMPDPKTFKQHFENKHPKEPLP 68 (74)
T ss_pred hhhHhhHhhCCCCchHHHHHhhcCCCCCCC
Confidence 788888888888888888888877765543
No 161
>KOG4167|consensus
Probab=44.43 E-value=5 Score=37.63 Aligned_cols=26 Identities=19% Similarity=0.387 Sum_probs=23.8
Q ss_pred CcccCCCcccccCcHHHHHHHHHhCC
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRKHTK 200 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~h~~ 200 (305)
.|.|..|++.|....++..||+.|.-
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~ 817 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQ 817 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHH
Confidence 49999999999999999999999964
No 162
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=43.56 E-value=13 Score=24.99 Aligned_cols=11 Identities=18% Similarity=0.510 Sum_probs=5.4
Q ss_pred CccCccchhhc
Q psy4409 203 PYECGFCSLKF 213 (305)
Q Consensus 203 ~~~C~~C~~~f 213 (305)
.|.|..|++.|
T Consensus 54 IW~C~~C~~~~ 64 (90)
T PTZ00255 54 IWRCKGCKKTV 64 (90)
T ss_pred EEEcCCCCCEE
Confidence 34555555444
No 163
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=43.54 E-value=13 Score=26.45 Aligned_cols=11 Identities=18% Similarity=0.347 Sum_probs=6.7
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (113)
T PRK12380 71 AWCWDCSQVVE 81 (113)
T ss_pred EEcccCCCEEe
Confidence 56666665554
No 164
>KOG3408|consensus
Probab=43.43 E-value=12 Score=26.54 Aligned_cols=28 Identities=21% Similarity=0.402 Sum_probs=24.2
Q ss_pred CCCcccCCCCCCcCcChHHHHhhhhhcc
Q psy4409 10 GEKPYTCYFCNFKSAHMSSINNHLKIKH 37 (305)
Q Consensus 10 ~~~~~~C~~C~~~f~~~~~l~~H~~~h~ 37 (305)
|-..|.|-.|.+-|.+...|..|.++..
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK~ 81 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTKV 81 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhccH
Confidence 4567999999999999999999987643
No 165
>KOG4167|consensus
Probab=43.28 E-value=3.9 Score=38.28 Aligned_cols=30 Identities=20% Similarity=0.328 Sum_probs=26.2
Q ss_pred CCcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 11 EKPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
...|.|..|++.|.....+..||++|....
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr~q~ 819 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHRQQE 819 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHHHHH
Confidence 356999999999999999999999987543
No 166
>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=43.24 E-value=14 Score=24.92 Aligned_cols=8 Identities=38% Similarity=1.215 Sum_probs=3.6
Q ss_pred ccccCCCC
Q psy4409 140 RIYCTFCR 147 (305)
Q Consensus 140 ~~~C~~C~ 147 (305)
.|.|++|+
T Consensus 35 ky~Cp~Cg 42 (90)
T PF01780_consen 35 KYTCPFCG 42 (90)
T ss_dssp -BEESSSS
T ss_pred CCcCCCCC
Confidence 44555555
No 167
>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=42.81 E-value=11 Score=26.96 Aligned_cols=11 Identities=18% Similarity=0.413 Sum_probs=6.3
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (115)
T TIGR00100 71 CECEDCSEEVS 81 (115)
T ss_pred EEcccCCCEEe
Confidence 55666665554
No 168
>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=41.93 E-value=4.4 Score=22.11 Aligned_cols=10 Identities=20% Similarity=0.550 Sum_probs=5.8
Q ss_pred ccCCCccccc
Q psy4409 177 VCMVCPYHCR 186 (305)
Q Consensus 177 ~C~~C~~~f~ 186 (305)
.|+.||..|.
T Consensus 3 ~C~~Cg~~Yh 12 (36)
T PF05191_consen 3 ICPKCGRIYH 12 (36)
T ss_dssp EETTTTEEEE
T ss_pred CcCCCCCccc
Confidence 4666666654
No 169
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=41.62 E-value=19 Score=21.99 Aligned_cols=31 Identities=16% Similarity=0.354 Sum_probs=12.3
Q ss_pred CCccCccchhhcCChHHHHHHHHhcCCccccCCCC
Q psy4409 202 KPYECGFCSLKFSRRDNLRRHLKDQHSYDSFRSST 236 (305)
Q Consensus 202 ~~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~c~~ 236 (305)
.|+....|+..|. +..+...+ ......+|+.
T Consensus 23 ~PV~s~~C~H~fe-k~aI~~~i---~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFE-KEAILQYI---QRNGSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEE-HHHHHHHC---TTTS-EE-SC
T ss_pred CCcCcCCCCCeec-HHHHHHHH---HhcCCCCCCC
Confidence 3455555666663 34444444 1223445554
No 170
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=40.43 E-value=17 Score=19.34 Aligned_cols=23 Identities=26% Similarity=0.293 Sum_probs=16.0
Q ss_pred CcccCCCCCCcCcChHHHHhhhhh
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
..|.|+.|++.+. ...+..|+..
T Consensus 3 ~~~~C~nC~R~v~-a~RfA~HLek 25 (33)
T PF08209_consen 3 PYVECPNCGRPVA-ASRFAPHLEK 25 (33)
T ss_dssp -EEE-TTTSSEEE-GGGHHHHHHH
T ss_pred CeEECCCCcCCcc-hhhhHHHHHH
Confidence 3588999999766 4677888754
No 171
>KOG3408|consensus
Probab=39.91 E-value=20 Score=25.50 Aligned_cols=27 Identities=33% Similarity=0.631 Sum_probs=21.5
Q ss_pred CCCCeeCCcCcccccChHHHHHHHHHh
Q psy4409 100 GEKPFKCNFCFQCFTQNVSLQTHIRIK 126 (305)
Q Consensus 100 ~~~~~~C~~C~~~f~~~~~l~~H~~~~ 126 (305)
|...|-|-.|.+-|.+...|..|.++.
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhcc
Confidence 344588999999999999999888763
No 172
>KOG2907|consensus
Probab=39.07 E-value=11 Score=26.39 Aligned_cols=31 Identities=13% Similarity=0.185 Sum_probs=18.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
-.|..||-....++. ...+.|..|+..|.-.
T Consensus 8 ~FC~~CG~ll~~~~~----------~~~~~C~~Ck~~~~v~ 38 (116)
T KOG2907|consen 8 DFCSDCGSLLEEPSA----------QSTVLCIRCKIEYPVS 38 (116)
T ss_pred chhhhhhhhcccccc----------cCceEeccccccCCHH
Confidence 567777765443322 2345588888777554
No 173
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=38.96 E-value=22 Score=22.43 Aligned_cols=28 Identities=21% Similarity=0.452 Sum_probs=17.2
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCF 113 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 113 (305)
-.|+.||..... -...+.|.|+.||..+
T Consensus 29 q~C~~CG~~~~~----------~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 29 QTCPRCGHRNKK----------RRSGRVFTCPNCGFEM 56 (69)
T ss_pred cCccCccccccc----------ccccceEEcCCCCCEE
Confidence 457777765443 2234567888887664
No 174
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=38.93 E-value=25 Score=29.88 Aligned_cols=25 Identities=16% Similarity=0.451 Sum_probs=18.7
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLK 212 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 212 (305)
+...|..|+..+.. ....|+.||..
T Consensus 209 RyL~CslC~teW~~--------------~R~~C~~Cg~~ 233 (305)
T TIGR01562 209 RYLSCSLCATEWHY--------------VRVKCSHCEES 233 (305)
T ss_pred eEEEcCCCCCcccc--------------cCccCCCCCCC
Confidence 67889999977643 33589999964
No 175
>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=38.38 E-value=15 Score=24.76 Aligned_cols=10 Identities=40% Similarity=1.069 Sum_probs=4.7
Q ss_pred ccCccchhhc
Q psy4409 204 YECGFCSLKF 213 (305)
Q Consensus 204 ~~C~~C~~~f 213 (305)
|.|..|++.|
T Consensus 54 W~C~~C~~~~ 63 (91)
T TIGR00280 54 WTCRKCGAKF 63 (91)
T ss_pred EEcCCCCCEE
Confidence 4444444444
No 176
>KOG0978|consensus
Probab=38.22 E-value=6.6 Score=37.07 Aligned_cols=17 Identities=18% Similarity=0.290 Sum_probs=11.2
Q ss_pred CCcccCCCcccccCcHH
Q psy4409 174 YRYVCMVCPYHCRQNES 190 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~ 190 (305)
+.-+||.|+.+|.....
T Consensus 677 RqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 677 RQRKCPKCNAAFGANDV 693 (698)
T ss_pred hcCCCCCCCCCCCcccc
Confidence 44578888888875443
No 177
>KOG1842|consensus
Probab=37.94 E-value=21 Score=31.64 Aligned_cols=26 Identities=27% Similarity=0.548 Sum_probs=18.8
Q ss_pred CccCccchhhcCChHHHHHHHHhcCC
Q psy4409 203 PYECGFCSLKFSRRDNLRRHLKDQHS 228 (305)
Q Consensus 203 ~~~C~~C~~~f~~~~~l~~H~~~hh~ 228 (305)
.|.||+|...|.+...|..|+..-|.
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~eH~ 40 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDVEHF 40 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhhhcc
Confidence 46777777777777777777776665
No 178
>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=37.84 E-value=10 Score=21.52 Aligned_cols=14 Identities=21% Similarity=0.584 Sum_probs=9.3
Q ss_pred CcccCCCCCCcCcC
Q psy4409 12 KPYTCYFCNFKSAH 25 (305)
Q Consensus 12 ~~~~C~~C~~~f~~ 25 (305)
-||.|+.|+..|=.
T Consensus 12 ~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 12 LPFKCKHCGKSFCL 25 (43)
T ss_dssp SHEE-TTTS-EE-T
T ss_pred CCeECCCCCcccCc
Confidence 58999999998864
No 179
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=37.83 E-value=39 Score=23.26 Aligned_cols=14 Identities=29% Similarity=0.664 Sum_probs=10.1
Q ss_pred CccCccchhhcCCh
Q psy4409 203 PYECGFCSLKFSRR 216 (305)
Q Consensus 203 ~~~C~~C~~~f~~~ 216 (305)
|.+|..||..|..-
T Consensus 2 pH~CtrCG~vf~~g 15 (112)
T COG3364 2 PHQCTRCGEVFDDG 15 (112)
T ss_pred Cceecccccccccc
Confidence 46777888888763
No 180
>PRK00420 hypothetical protein; Validated
Probab=37.42 E-value=16 Score=25.91 Aligned_cols=13 Identities=23% Similarity=0.036 Sum_probs=7.3
Q ss_pred CCcccCCCccccc
Q psy4409 174 YRYVCMVCPYHCR 186 (305)
Q Consensus 174 ~~~~C~~C~~~f~ 186 (305)
....|+.||....
T Consensus 39 g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 39 GEVVCPVHGKVYI 51 (112)
T ss_pred CceECCCCCCeee
Confidence 3456666666544
No 181
>PRK14873 primosome assembly protein PriA; Provisional
Probab=37.34 E-value=11 Score=35.99 Aligned_cols=13 Identities=15% Similarity=0.125 Sum_probs=7.9
Q ss_pred CCcccCCCccccc
Q psy4409 174 YRYVCMVCPYHCR 186 (305)
Q Consensus 174 ~~~~C~~C~~~f~ 186 (305)
....|+.|+-...
T Consensus 391 ~~~~C~~C~~~L~ 403 (665)
T PRK14873 391 TPARCRHCTGPLG 403 (665)
T ss_pred CeeECCCCCCcee
Confidence 5566777765544
No 182
>PRK05580 primosome assembly protein PriA; Validated
Probab=37.34 E-value=8.7 Score=36.80 Aligned_cols=12 Identities=17% Similarity=0.334 Sum_probs=6.8
Q ss_pred CCcccCCCcccc
Q psy4409 174 YRYVCMVCPYHC 185 (305)
Q Consensus 174 ~~~~C~~C~~~f 185 (305)
....|+.|+..+
T Consensus 389 ~~~~C~~C~~~l 400 (679)
T PRK05580 389 WVAECPHCDASL 400 (679)
T ss_pred CccCCCCCCCce
Confidence 445666666544
No 183
>PRK10220 hypothetical protein; Provisional
Probab=36.89 E-value=20 Score=25.00 Aligned_cols=30 Identities=17% Similarity=0.462 Sum_probs=21.1
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChH
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRD 217 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~ 217 (305)
.||.|...|.+. ....|.|+.|+..+....
T Consensus 5 ~CP~C~seytY~-----------d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 5 HCPKCNSEYTYE-----------DNGMYICPECAHEWNDAE 34 (111)
T ss_pred cCCCCCCcceEc-----------CCCeEECCcccCcCCccc
Confidence 588888877653 223588999988886543
No 184
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=36.84 E-value=15 Score=27.40 Aligned_cols=34 Identities=35% Similarity=0.757 Sum_probs=17.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLK 212 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 212 (305)
.+|.|. |+..|.+. ++|-.+-.|+ .|.|..|+..
T Consensus 116 ~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 456666 66655432 2333333344 5666666543
No 185
>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 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 short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.
Probab=36.21 E-value=12 Score=20.93 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=10.3
Q ss_pred CcccCCCCCCcC
Q psy4409 12 KPYTCYFCNFKS 23 (305)
Q Consensus 12 ~~~~C~~C~~~f 23 (305)
++-.|++|+..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 468999999887
No 186
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.20 E-value=20 Score=25.67 Aligned_cols=11 Identities=18% Similarity=0.452 Sum_probs=6.9
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
+.|..||..|.
T Consensus 72 ~~C~~Cg~~~~ 82 (117)
T PRK00564 72 LECKDCSHVFK 82 (117)
T ss_pred EEhhhCCCccc
Confidence 56666665554
No 187
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=36.02 E-value=12 Score=22.35 Aligned_cols=13 Identities=15% Similarity=0.355 Sum_probs=7.3
Q ss_pred cCCCCCCcCcChH
Q psy4409 15 TCYFCNFKSAHMS 27 (305)
Q Consensus 15 ~C~~C~~~f~~~~ 27 (305)
.||+|++.|....
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 8999999998654
No 188
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.01 E-value=26 Score=21.01 Aligned_cols=13 Identities=15% Similarity=0.521 Sum_probs=8.1
Q ss_pred cccCCCcccccCc
Q psy4409 176 YVCMVCPYHCRQN 188 (305)
Q Consensus 176 ~~C~~C~~~f~~~ 188 (305)
++|+.||..|...
T Consensus 29 W~C~~Cgh~w~~~ 41 (55)
T PF14311_consen 29 WKCPKCGHEWKAS 41 (55)
T ss_pred EECCCCCCeeEcc
Confidence 5677776666544
No 189
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=35.98 E-value=19 Score=25.10 Aligned_cols=29 Identities=14% Similarity=0.394 Sum_probs=20.7
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCCh
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRR 216 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 216 (305)
.||.|+..|.+. ....|.||.|+..+...
T Consensus 4 ~CP~C~seytY~-----------dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYH-----------DGTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEe-----------cCCeeECcccccccccc
Confidence 588888877753 22348899998888654
No 190
>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=35.81 E-value=25 Score=20.24 Aligned_cols=9 Identities=33% Similarity=0.947 Sum_probs=4.9
Q ss_pred CCccCccch
Q psy4409 202 KPYECGFCS 210 (305)
Q Consensus 202 ~~~~C~~C~ 210 (305)
..|+|..|+
T Consensus 36 ~~~~C~~C~ 44 (46)
T PF12760_consen 36 GRYRCKACR 44 (46)
T ss_pred CeEECCCCC
Confidence 445665554
No 191
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=35.63 E-value=23 Score=30.20 Aligned_cols=24 Identities=17% Similarity=0.411 Sum_probs=18.2
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchh
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSL 211 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~ 211 (305)
+...|..|+..+.. ....|+.||.
T Consensus 211 RyL~CslC~teW~~--------------~R~~C~~Cg~ 234 (309)
T PRK03564 211 RYLHCNLCESEWHV--------------VRVKCSNCEQ 234 (309)
T ss_pred eEEEcCCCCCcccc--------------cCccCCCCCC
Confidence 67889999977643 3358999995
No 192
>KOG0717|consensus
Probab=35.16 E-value=19 Score=32.09 Aligned_cols=22 Identities=23% Similarity=0.546 Sum_probs=19.5
Q ss_pred ccCccchhhcCChHHHHHHHHh
Q psy4409 204 YECGFCSLKFSRRDNLRRHLKD 225 (305)
Q Consensus 204 ~~C~~C~~~f~~~~~l~~H~~~ 225 (305)
+.|.+|++.|.+..+|..|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899999999999999999863
No 193
>KOG2636|consensus
Probab=35.05 E-value=28 Score=30.89 Aligned_cols=28 Identities=29% Similarity=0.687 Sum_probs=23.4
Q ss_pred HhCCCCCccCccch-hhcCChHHHHHHHH
Q psy4409 197 KHTKDKPYECGFCS-LKFSRRDNLRRHLK 224 (305)
Q Consensus 197 ~h~~~~~~~C~~C~-~~f~~~~~l~~H~~ 224 (305)
.|.-...|.|.+|| +++..+.++.+|..
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~ 423 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFN 423 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhH
Confidence 45556779999999 89999999999975
No 194
>COG1773 Rubredoxin [Energy production and conversion]
Probab=34.81 E-value=16 Score=22.10 Aligned_cols=14 Identities=21% Similarity=0.664 Sum_probs=10.8
Q ss_pred CcccCCCCCCcCcC
Q psy4409 12 KPYTCYFCNFKSAH 25 (305)
Q Consensus 12 ~~~~C~~C~~~f~~ 25 (305)
+.|+|..||..|.-
T Consensus 2 ~~~~C~~CG~vYd~ 15 (55)
T COG1773 2 KRWRCSVCGYVYDP 15 (55)
T ss_pred CceEecCCceEecc
Confidence 36888889888774
No 195
>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=34.15 E-value=25 Score=22.14 Aligned_cols=29 Identities=14% Similarity=0.407 Sum_probs=13.5
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
-.|..|++.|.. -.+.+.|..||..|-..
T Consensus 10 ~~C~~C~~~F~~------------~~rrhhCr~CG~~vC~~ 38 (69)
T PF01363_consen 10 SNCMICGKKFSL------------FRRRHHCRNCGRVVCSS 38 (69)
T ss_dssp SB-TTT--B-BS------------SS-EEE-TTT--EEECC
T ss_pred CcCcCcCCcCCC------------ceeeEccCCCCCEECCc
Confidence 578888888853 13456788888777543
No 196
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=34.11 E-value=5 Score=22.46 Aligned_cols=10 Identities=20% Similarity=0.700 Sum_probs=5.6
Q ss_pred eeCCcCcccc
Q psy4409 104 FKCNFCFQCF 113 (305)
Q Consensus 104 ~~C~~C~~~f 113 (305)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5566665544
No 197
>PF04780 DUF629: Protein of unknown function (DUF629); InterPro: IPR006865 This domain represents a region of several plant proteins of unknown function. A C2H2 zinc finger is predicted in this region in some family members, but the spacing between the cysteine residues is not conserved throughout the family.
Probab=34.07 E-value=33 Score=31.00 Aligned_cols=29 Identities=21% Similarity=0.364 Sum_probs=24.5
Q ss_pred CeeCCcCcccccChHHHHHHHHHhcCccc
Q psy4409 103 PFKCNFCFQCFTQNVSLQTHIRIKHTRLF 131 (305)
Q Consensus 103 ~~~C~~C~~~f~~~~~l~~H~~~~H~~~~ 131 (305)
-+.|+.|++.|.....+..|+...|.+..
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~eH~~~l 85 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQEHPAGL 85 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHhhhhhc
Confidence 36799999999999999999998887644
No 198
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=33.80 E-value=31 Score=35.16 Aligned_cols=8 Identities=38% Similarity=0.825 Sum_probs=5.9
Q ss_pred ccccCCCC
Q psy4409 140 RIYCTFCR 147 (305)
Q Consensus 140 ~~~C~~C~ 147 (305)
.+.|+.||
T Consensus 667 ~rkCPkCG 674 (1337)
T PRK14714 667 RRRCPSCG 674 (1337)
T ss_pred EEECCCCC
Confidence 46788887
No 199
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=33.75 E-value=22 Score=25.29 Aligned_cols=11 Identities=18% Similarity=0.413 Sum_probs=6.7
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
..|..|+..|.
T Consensus 71 ~~C~~Cg~~~~ 81 (114)
T PRK03681 71 CWCETCQQYVT 81 (114)
T ss_pred EEcccCCCeee
Confidence 56666665554
No 200
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=33.30 E-value=14 Score=35.45 Aligned_cols=12 Identities=25% Similarity=0.354 Sum_probs=7.6
Q ss_pred CCCeeCCcCccc
Q psy4409 101 EKPFKCNFCFQC 112 (305)
Q Consensus 101 ~~~~~C~~C~~~ 112 (305)
..|..|+.||..
T Consensus 473 ~~p~~Cp~Cgs~ 484 (730)
T COG1198 473 PIPQSCPECGSE 484 (730)
T ss_pred CCCCCCCCCCCC
Confidence 356667777655
No 201
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=33.15 E-value=20 Score=24.19 Aligned_cols=10 Identities=50% Similarity=1.192 Sum_probs=4.7
Q ss_pred ccCccchhhc
Q psy4409 204 YECGFCSLKF 213 (305)
Q Consensus 204 ~~C~~C~~~f 213 (305)
|.|..|++.|
T Consensus 55 W~C~~C~~~~ 64 (90)
T PRK03976 55 WECRKCGAKF 64 (90)
T ss_pred EEcCCCCCEE
Confidence 4444444444
No 202
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=32.97 E-value=6.1 Score=37.19 Aligned_cols=56 Identities=20% Similarity=0.403 Sum_probs=35.3
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCe-eCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCC
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPF-KCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCR 147 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~-~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~ 147 (305)
..|..||=.|+....|---+. .+....| .|+.|.+.|.+...-+.|. . +.-|+.||
T Consensus 124 ~~CT~CGPRfTIi~alPYDR~-nTsM~~F~lC~~C~~EY~dP~nRRfHA-----Q----------p~aCp~CG 180 (750)
T COG0068 124 INCTNCGPRFTIIEALPYDRE-NTSMADFPLCPFCDKEYKDPLNRRFHA-----Q----------PIACPKCG 180 (750)
T ss_pred cccCCCCcceeeeccCCCCcc-cCccccCcCCHHHHHHhcCcccccccc-----c----------cccCcccC
Confidence 358888877776555433222 1222223 5899998888877655443 2 67799999
No 203
>KOG1842|consensus
Probab=32.92 E-value=20 Score=31.73 Aligned_cols=29 Identities=28% Similarity=0.755 Sum_probs=26.2
Q ss_pred CcccCCCCCCcCcChHHHHhhhhhccccc
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKIKHLEK 40 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~ 40 (305)
.-|.||+|...|.+...|..|+-..|.+.
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~eH~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVEHFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhhcccc
Confidence 56999999999999999999998888765
No 204
>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.04 E-value=18 Score=22.31 Aligned_cols=14 Identities=21% Similarity=0.591 Sum_probs=11.0
Q ss_pred CCcccCCCCCCcCc
Q psy4409 11 EKPYTCYFCNFKSA 24 (305)
Q Consensus 11 ~~~~~C~~C~~~f~ 24 (305)
+..-.||+|+.+|+
T Consensus 46 ~gev~CPYC~t~y~ 59 (62)
T COG4391 46 EGEVVCPYCSTRYR 59 (62)
T ss_pred CCcEecCccccEEE
Confidence 34567999999886
No 205
>KOG3214|consensus
Probab=30.26 E-value=15 Score=25.12 Aligned_cols=17 Identities=18% Similarity=0.315 Sum_probs=12.4
Q ss_pred CCCccCccchhhcCChH
Q psy4409 201 DKPYECGFCSLKFSRRD 217 (305)
Q Consensus 201 ~~~~~C~~C~~~f~~~~ 217 (305)
.....|.+|+..|...-
T Consensus 45 iG~~sC~iC~esFqt~i 61 (109)
T KOG3214|consen 45 IGKASCRICEESFQTTI 61 (109)
T ss_pred cceeeeeehhhhhccch
Confidence 44568999998887643
No 206
>KOG4317|consensus
Probab=30.02 E-value=15 Score=30.79 Aligned_cols=19 Identities=26% Similarity=0.436 Sum_probs=13.6
Q ss_pred cccCCCCccCCCcHHHHHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRH 94 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H 94 (305)
|+|+-|+..+-+..-++.|
T Consensus 20 YtCPRCn~~YCsl~CYr~h 38 (383)
T KOG4317|consen 20 YTCPRCNLLYCSLKCYRNH 38 (383)
T ss_pred ccCCCCCccceeeeeecCC
Confidence 8888888777766655554
No 207
>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=30.02 E-value=25 Score=18.00 Aligned_cols=11 Identities=27% Similarity=0.945 Sum_probs=4.2
Q ss_pred CCcccCCCccc
Q psy4409 174 YRYVCMVCPYH 184 (305)
Q Consensus 174 ~~~~C~~C~~~ 184 (305)
..|.|..|+..
T Consensus 14 ~~Y~C~~Cdf~ 24 (30)
T PF07649_consen 14 WFYRCSECDFD 24 (30)
T ss_dssp -EEE-TTT---
T ss_pred ceEECccCCCc
Confidence 45677777654
No 208
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=29.86 E-value=47 Score=24.53 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=20.9
Q ss_pred CCCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHH
Q psy4409 173 SYRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHL 223 (305)
Q Consensus 173 ~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~ 223 (305)
...|.|..||....+ | --|+.|...+. ..|....
T Consensus 79 nl~~~CE~CG~~I~~------------G---r~C~~C~~~l~--~~l~~~~ 112 (137)
T TIGR03826 79 NLGYPCERCGTSIRE------------G---RLCDSCAGELK--RQLSAGE 112 (137)
T ss_pred CCcCcccccCCcCCC------------C---CccHHHHHHHH--HHHHHHh
Confidence 356889999977542 2 36777776653 3444433
No 209
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=29.84 E-value=38 Score=19.16 Aligned_cols=17 Identities=12% Similarity=0.145 Sum_probs=13.3
Q ss_pred ccCCCCCCcCcChHHHH
Q psy4409 14 YTCYFCNFKSAHMSSIN 30 (305)
Q Consensus 14 ~~C~~C~~~f~~~~~l~ 30 (305)
=.|++|++.|+-.....
T Consensus 9 K~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 9 KICPVCGRPFTWRKKWA 25 (42)
T ss_pred CcCcccCCcchHHHHHH
Confidence 36999999998766554
No 210
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=29.77 E-value=24 Score=20.97 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=15.1
Q ss_pred CcccCCCCCCcCcChHHHHhhhhhc
Q psy4409 12 KPYTCYFCNFKSAHMSSINNHLKIK 36 (305)
Q Consensus 12 ~~~~C~~C~~~f~~~~~l~~H~~~h 36 (305)
..|+|+.|+..|=-.-++-.|...|
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~LH 44 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETLH 44 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS-
T ss_pred CeEECCCCCCccccCcChhhhcccc
Confidence 5799999999998877777776554
No 211
>KOG4377|consensus
Probab=29.60 E-value=27 Score=30.57 Aligned_cols=129 Identities=22% Similarity=0.309 Sum_probs=0.0
Q ss_pred CCCCCcCcChHHHHhhhhhccccccceeeehhhhccchHHHHHhhhccCCCCCCCCCCCcccCC--CCccCCCcHHHHHH
Q psy4409 17 YFCNFKSAHMSSINNHLKIKHLEKIQCRYSILKLQSHEESLVQHAKRCSYVPRPNIQFNFTCLV--CDYHSPRSIDMRRH 94 (305)
Q Consensus 17 ~~C~~~f~~~~~l~~H~~~h~~~~~~c~~~~~~~~~~~~~l~~h~~~~h~~~~~~~~~~~~C~~--C~~~f~~~~~l~~H 94 (305)
+.|+..+-.+..+.+|.++|.... ..|..-..+.... |.|-. |++ +.++...|
T Consensus 277 e~C~ykr~~k~DvirH~~~hkkrd--------------nsL~dgf~rfs~s--------yhC~~~~C~k---sTsdV~~h 331 (480)
T KOG4377|consen 277 EYCFYKRGQKNDVIRHVEIHKKRD--------------NSLIDGFHRFSNS--------YHCTGQICEK---STSDVLLH 331 (480)
T ss_pred ccccccccchhhhHHHHHHHhhcc--------------cccccchhhcCcc--------chhhhcccCc---cccccccc
Q ss_pred HHhhCCCCC-------eeCCcCcccccChHHHHHHHHHhcCccccccccCcCccccCCCCccchhcHHHHHHHHhhhcCc
Q psy4409 95 IRRHTGEKP-------FKCNFCFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFCRDPLYNDLKILLQHTKNCKGA 167 (305)
Q Consensus 95 ~~~h~~~~~-------~~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C~~~~~~~~~~l~~h~~~~~~~ 167 (305)
-..|+.... |.|.-|+=++..+ ...|...|-.....+...-..-|.-..|.
T Consensus 332 ~nFht~~~n~GfrrthfhC~r~gCTdtfK--~~khk~yh~kdda~~~dGfkkf~k~e~ca-------------------- 389 (480)
T KOG4377|consen 332 DNFHTDKRNNGFRRTHFHCQRIGCTDTFK--DSKHKPYHYKDDAGEIDGFKKFFKDENCA-------------------- 389 (480)
T ss_pred CccccccccCceecceeEEeccCCccccc--cccccccccCcchhhhhhhhhhhccccCC--------------------
Q ss_pred cccCCCCC----------cccCC--CcccccCcHHHHHHHHHh
Q psy4409 168 FRENDSYR----------YVCMV--CPYHCRQNESMKRHLRKH 198 (305)
Q Consensus 168 ~~~~~~~~----------~~C~~--C~~~f~~~~~l~~H~~~h 198 (305)
.+ +-|.. |+..|.+.+.+..|.+.|
T Consensus 390 ------y~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~shkrkh 426 (480)
T KOG4377|consen 390 ------YTGCKYSGICNHFHCDRLGCEATLYSVSQMASHKRKH 426 (480)
T ss_pred ------ccCcccccceeeeeecccCCceEEEehhhhhhhhhhh
No 212
>PF12773 DZR: Double zinc ribbon
Probab=29.43 E-value=43 Score=19.42 Aligned_cols=8 Identities=25% Similarity=0.521 Sum_probs=3.4
Q ss_pred cCCCcccc
Q psy4409 178 CMVCPYHC 185 (305)
Q Consensus 178 C~~C~~~f 185 (305)
|+.||..+
T Consensus 15 C~~CG~~l 22 (50)
T PF12773_consen 15 CPHCGTPL 22 (50)
T ss_pred ChhhcCCh
Confidence 44444433
No 213
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.09 E-value=36 Score=20.92 Aligned_cols=41 Identities=15% Similarity=0.383 Sum_probs=24.3
Q ss_pred cccCCCCcc-CCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYH-SPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~-f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
-+|.+|.+. |.....+..-+..-...+.|.|+.|.-+...+
T Consensus 3 vkCiiCd~v~~iD~rt~~tKrLrN~PIrtymC~eC~~Rva~k 44 (68)
T COG4896 3 VKCIICDRVDEIDNRTFKTKRLRNKPIRTYMCPECEHRVAIK 44 (68)
T ss_pred ceEEEecceeeecchhHHHHHhhCCCceeEechhhHhhhchh
Confidence 467777743 44444454444444456678888887665444
No 214
>KOG0717|consensus
Probab=28.98 E-value=31 Score=30.90 Aligned_cols=22 Identities=23% Similarity=0.576 Sum_probs=20.6
Q ss_pred cccCCCcccccCcHHHHHHHHH
Q psy4409 176 YVCMVCPYHCRQNESMKRHLRK 197 (305)
Q Consensus 176 ~~C~~C~~~f~~~~~l~~H~~~ 197 (305)
+.|.+|.+.|.+...|.+|...
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 8999999999999999999765
No 215
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.71 E-value=18 Score=23.37 Aligned_cols=33 Identities=24% Similarity=0.564 Sum_probs=19.1
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhc
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKF 213 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f 213 (305)
..|.|..|+..|.- ..+| ..+..-.|+.|+..|
T Consensus 11 Y~Y~c~~cg~~~dv----vq~~---~ddplt~ce~c~a~~ 43 (82)
T COG2331 11 YSYECTECGNRFDV----VQAM---TDDPLTTCEECGARL 43 (82)
T ss_pred eEEeecccchHHHH----HHhc---ccCccccChhhChHH
Confidence 45778888866642 2222 233335788888654
No 216
>KOG2636|consensus
Probab=28.53 E-value=40 Score=30.00 Aligned_cols=29 Identities=14% Similarity=0.386 Sum_probs=22.8
Q ss_pred hhCCCCCeeCCcCc-ccccChHHHHHHHHH
Q psy4409 97 RHTGEKPFKCNFCF-QCFTQNVSLQTHIRI 125 (305)
Q Consensus 97 ~h~~~~~~~C~~C~-~~f~~~~~l~~H~~~ 125 (305)
.|.-...|.|.+|| ++|.....+.+|...
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhHH
Confidence 44456679999999 888888899988754
No 217
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.50 E-value=30 Score=25.24 Aligned_cols=18 Identities=22% Similarity=0.462 Sum_probs=14.7
Q ss_pred cCCCcccCCCCCCcCcCh
Q psy4409 9 SGEKPYTCYFCNFKSAHM 26 (305)
Q Consensus 9 ~~~~~~~C~~C~~~f~~~ 26 (305)
.+...|+|+.|++.|...
T Consensus 49 ~~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 49 RGHQRYKCKSCGSTFTVE 66 (129)
T ss_pred ccccccccCCcCcceeee
Confidence 346789999999999853
No 218
>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=28.40 E-value=14 Score=18.87 Aligned_cols=9 Identities=22% Similarity=0.722 Sum_probs=4.7
Q ss_pred ccCCCcccc
Q psy4409 177 VCMVCPYHC 185 (305)
Q Consensus 177 ~C~~C~~~f 185 (305)
.|..|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 355555555
No 219
>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 PRK12496 hypothetical protein; Provisional
Probab=28.09 E-value=36 Score=26.01 Aligned_cols=28 Identities=21% Similarity=0.441 Sum_probs=16.4
Q ss_pred CcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcC
Q psy4409 175 RYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFS 214 (305)
Q Consensus 175 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 214 (305)
.|.|.-|++.|... ...-.|++||....
T Consensus 127 ~~~C~gC~~~~~~~------------~~~~~C~~CG~~~~ 154 (164)
T PRK12496 127 RKVCKGCKKKYPED------------YPDDVCEICGSPVK 154 (164)
T ss_pred eEECCCCCccccCC------------CCCCcCCCCCChhh
Confidence 36788888777521 01125888886543
No 221
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=27.89 E-value=18 Score=21.70 Aligned_cols=11 Identities=18% Similarity=0.609 Sum_probs=6.7
Q ss_pred CCcccCCCccc
Q psy4409 174 YRYVCMVCPYH 184 (305)
Q Consensus 174 ~~~~C~~C~~~ 184 (305)
.|+-|+.|...
T Consensus 27 fPlyCpKCK~E 37 (55)
T PF14205_consen 27 FPLYCPKCKQE 37 (55)
T ss_pred ccccCCCCCce
Confidence 55667666544
No 222
>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=27.82 E-value=44 Score=19.92 Aligned_cols=29 Identities=17% Similarity=0.434 Sum_probs=18.6
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccCh
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQN 116 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~ 116 (305)
..|..|++.|.. ..+.+.|..||..|-..
T Consensus 3 ~~C~~C~~~F~~------------~~rk~~Cr~Cg~~~C~~ 31 (57)
T cd00065 3 SSCMGCGKPFTL------------TRRRHHCRNCGRIFCSK 31 (57)
T ss_pred CcCcccCccccC------------CccccccCcCcCCcChH
Confidence 457778877764 12346677777777653
No 223
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=27.73 E-value=24 Score=25.67 Aligned_cols=11 Identities=36% Similarity=0.824 Sum_probs=6.5
Q ss_pred CcccCCCcccc
Q psy4409 175 RYVCMVCPYHC 185 (305)
Q Consensus 175 ~~~C~~C~~~f 185 (305)
...|++|+..+
T Consensus 44 ~v~CPvC~~~~ 54 (131)
T COG1645 44 EVFCPVCGYRE 54 (131)
T ss_pred eEECCCCCceE
Confidence 45677777443
No 224
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=27.73 E-value=5.9 Score=33.48 Aligned_cols=50 Identities=12% Similarity=0.221 Sum_probs=22.1
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcCChHHHHHHHHhcCCccccCCCCCC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFSRRDNLRRHLKDQHSYDSFRSSTKK 238 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~c~~c~ 238 (305)
+...|..|+..+.. ....|+.||-.-...-.+.. ...--+.+.+.|..|+
T Consensus 196 R~L~Cs~C~t~W~~--------------~R~~Cp~Cg~~~~~~l~~~~-~e~~~~~rve~C~~C~ 245 (290)
T PF04216_consen 196 RYLHCSLCGTEWRF--------------VRIKCPYCGNTDHEKLEYFT-VEGEPAYRVEVCESCG 245 (290)
T ss_dssp EEEEETTT--EEE----------------TTS-TTT---SS-EEE---------SEEEEEETTTT
T ss_pred EEEEcCCCCCeeee--------------cCCCCcCCCCCCCcceeeEe-cCCCCcEEEEECCccc
Confidence 66789999977653 23589999977544322210 1112234456788884
No 225
>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=27.69 E-value=29 Score=20.56 Aligned_cols=13 Identities=23% Similarity=0.754 Sum_probs=10.0
Q ss_pred cccCCCCCCcCcC
Q psy4409 13 PYTCYFCNFKSAH 25 (305)
Q Consensus 13 ~~~C~~C~~~f~~ 25 (305)
.|+|..||..|.-
T Consensus 1 ~y~C~~CgyiYd~ 13 (50)
T cd00730 1 KYECRICGYIYDP 13 (50)
T ss_pred CcCCCCCCeEECC
Confidence 3788888888774
No 226
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=27.10 E-value=17 Score=27.27 Aligned_cols=33 Identities=36% Similarity=0.774 Sum_probs=18.5
Q ss_pred CCcccCCCcccccCcHHHHHHHHHhCCCCCccCccchhhcC
Q psy4409 174 YRYVCMVCPYHCRQNESMKRHLRKHTKDKPYECGFCSLKFS 214 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 214 (305)
..|.|..|+..+.. |.++ ....|.|+.|+..|.
T Consensus 122 ~~~~C~~C~~~~~r------~~~~--~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKR------HRRS--KRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeee------eccc--chhhEECCCCCCEEE
Confidence 45777777766643 2222 223377777775553
No 227
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=26.98 E-value=55 Score=18.01 Aligned_cols=22 Identities=23% Similarity=0.384 Sum_probs=9.3
Q ss_pred CcccCCCCCCcCc-Ch-HHHHhhh
Q psy4409 12 KPYTCYFCNFKSA-HM-SSINNHL 33 (305)
Q Consensus 12 ~~~~C~~C~~~f~-~~-~~l~~H~ 33 (305)
+.|-|.+|..-|. +. ..-..|.
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~ 25 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHE 25 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT
T ss_pred cCeecccccceecCCChHHHHHhh
Confidence 4689999999994 33 2335564
No 228
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=26.05 E-value=13 Score=26.39 Aligned_cols=14 Identities=14% Similarity=0.156 Sum_probs=9.6
Q ss_pred CeeCCcCcccccCh
Q psy4409 103 PFKCNFCFQCFTQN 116 (305)
Q Consensus 103 ~~~C~~C~~~f~~~ 116 (305)
.+.|..||+.+...
T Consensus 22 ~l~C~kCgye~~~~ 35 (113)
T COG1594 22 KLVCRKCGYEEEAS 35 (113)
T ss_pred EEECCCCCcchhcc
Confidence 57777777776554
No 229
>KOG0320|consensus
Probab=26.01 E-value=39 Score=26.03 Aligned_cols=19 Identities=21% Similarity=0.366 Sum_probs=13.8
Q ss_pred cCCCcccCCCCCCcCcChH
Q psy4409 9 SGEKPYTCYFCNFKSAHMS 27 (305)
Q Consensus 9 ~~~~~~~C~~C~~~f~~~~ 27 (305)
..+..|.||+|--.|..+.
T Consensus 127 ~~~~~~~CPiCl~~~sek~ 145 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKV 145 (187)
T ss_pred ccccccCCCceecchhhcc
Confidence 3456699999988877543
No 230
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.79 E-value=44 Score=16.45 Aligned_cols=6 Identities=33% Similarity=1.337 Sum_probs=3.7
Q ss_pred ccCCCC
Q psy4409 142 YCTFCR 147 (305)
Q Consensus 142 ~C~~C~ 147 (305)
.|+.||
T Consensus 4 ~Cp~Cg 9 (26)
T PF13248_consen 4 FCPNCG 9 (26)
T ss_pred CCcccC
Confidence 466666
No 231
>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=25.58 E-value=18 Score=26.97 Aligned_cols=41 Identities=15% Similarity=0.043 Sum_probs=23.2
Q ss_pred ccCCCCCCCCCCCcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccccc
Q psy4409 63 RCSYVPRPNIQFNFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFT 114 (305)
Q Consensus 63 ~~h~~~~~~~~~~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~ 114 (305)
..+.++.+ +.+.|.|..||....- .+ ....-.|+.|+...-
T Consensus 101 ~Y~sGE~~-g~G~l~C~~Cg~~~~~---------~~-~~~l~~Cp~C~~~~F 141 (146)
T PF07295_consen 101 VYHSGEVV-GPGTLVCENCGHEVEL---------TH-PERLPPCPKCGHTEF 141 (146)
T ss_pred CeecCcEe-cCceEecccCCCEEEe---------cC-CCcCCCCCCCCCCee
Confidence 33444332 4455889999865321 12 234567888886543
No 232
>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=25.49 E-value=21 Score=20.79 Aligned_cols=13 Identities=23% Similarity=0.710 Sum_probs=9.4
Q ss_pred cccCCCCCCcCcC
Q psy4409 13 PYTCYFCNFKSAH 25 (305)
Q Consensus 13 ~~~C~~C~~~f~~ 25 (305)
.|+|..|+..|.-
T Consensus 1 ky~C~~CgyvYd~ 13 (47)
T PF00301_consen 1 KYQCPVCGYVYDP 13 (47)
T ss_dssp EEEETTTSBEEET
T ss_pred CcCCCCCCEEEcC
Confidence 3678888887764
No 233
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=24.99 E-value=42 Score=23.81 Aligned_cols=8 Identities=25% Similarity=0.799 Sum_probs=3.1
Q ss_pred cccCCCcc
Q psy4409 176 YVCMVCPY 183 (305)
Q Consensus 176 ~~C~~C~~ 183 (305)
+.||.||.
T Consensus 87 ~~CP~Cgs 94 (113)
T PF01155_consen 87 FSCPRCGS 94 (113)
T ss_dssp HH-SSSSS
T ss_pred CCCcCCcC
Confidence 34444443
No 234
>KOG4124|consensus
Probab=24.48 E-value=24 Score=30.21 Aligned_cols=22 Identities=18% Similarity=0.122 Sum_probs=13.6
Q ss_pred CCCeeCCcCcccccChHHHHHHH
Q psy4409 101 EKPFKCNFCFQCFTQNVSLQTHI 123 (305)
Q Consensus 101 ~~~~~C~~C~~~f~~~~~l~~H~ 123 (305)
..||+|+ |++.+.+...|+.|.
T Consensus 211 ~~p~k~~-~~~~~~T~~~l~~HS 232 (442)
T KOG4124|consen 211 GTPKKMP-ESLVMDTSSPLSDHS 232 (442)
T ss_pred cCCccCc-ccccccccchhhhcc
Confidence 4566664 666666666666554
No 235
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=24.45 E-value=48 Score=29.49 Aligned_cols=32 Identities=19% Similarity=0.409 Sum_probs=21.9
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccChHH
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQNVS 118 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~~~~ 118 (305)
-.|+.||....+. |..-|+|+.|++.+.....
T Consensus 351 p~Cp~Cg~~m~S~-----------G~~g~rC~kCg~~~~~~~~ 382 (421)
T COG1571 351 PVCPRCGGRMKSA-----------GRNGFRCKKCGTRARETLI 382 (421)
T ss_pred CCCCccCCchhhc-----------CCCCcccccccccCCcccc
Confidence 4688888865543 2336888888888776543
No 236
>PTZ00448 hypothetical protein; Provisional
Probab=24.38 E-value=50 Score=28.71 Aligned_cols=23 Identities=17% Similarity=0.410 Sum_probs=21.3
Q ss_pred cccCCCCCCcCcChHHHHhhhhh
Q psy4409 13 PYTCYFCNFKSAHMSSINNHLKI 35 (305)
Q Consensus 13 ~~~C~~C~~~f~~~~~l~~H~~~ 35 (305)
.|.|..|+..|.+....+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 68899999999999999999976
No 237
>PHA02998 RNA polymerase subunit; Provisional
Probab=24.15 E-value=12 Score=28.68 Aligned_cols=11 Identities=27% Similarity=0.637 Sum_probs=6.9
Q ss_pred ccCccchhhcC
Q psy4409 204 YECGFCSLKFS 214 (305)
Q Consensus 204 ~~C~~C~~~f~ 214 (305)
|.|..||..|.
T Consensus 172 YkC~~CG~~wk 182 (195)
T PHA02998 172 HACRDCKKHFK 182 (195)
T ss_pred EEcCCCCCccC
Confidence 66666666654
No 238
>KOG4364|consensus
Probab=24.14 E-value=87 Score=29.59 Aligned_cols=26 Identities=27% Similarity=0.471 Sum_probs=18.6
Q ss_pred CCCCCCCCCceeeecCCccccceecC
Q psy4409 234 SSTKKPGKYGVLIVKGSNISTMRVTS 259 (305)
Q Consensus 234 c~~c~~~~~~~~~~~~~~~~h~~~~~ 259 (305)
|..|.|+.|+++...+.+.+-.+.-+
T Consensus 487 ~~NrRP~YyGTWrKKS~~VsarrPlA 512 (811)
T KOG4364|consen 487 DKNRRPGYYGTWRKKSQVVSARRPLA 512 (811)
T ss_pred ccccCCcccccccccccccccCCccc
Confidence 66677888888888887777554433
No 239
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=23.80 E-value=17 Score=34.45 Aligned_cols=56 Identities=21% Similarity=0.316 Sum_probs=27.6
Q ss_pred ccCCCcccccCcHHHHHHHHHhCCCC-CccCccchhhcCChHHHHHHHHhcCCccccCCCCCCC
Q psy4409 177 VCMVCPYHCRQNESMKRHLRKHTKDK-PYECGFCSLKFSRRDNLRRHLKDQHSYDSFRSSTKKP 239 (305)
Q Consensus 177 ~C~~C~~~f~~~~~l~~H~~~h~~~~-~~~C~~C~~~f~~~~~l~~H~~~hh~~~~~~c~~c~~ 239 (305)
.|..||-.|+-...|--- |..+... .-.|+.|.+.|..+..-+-|.+ +..|+.|+|
T Consensus 125 ~CT~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfHAQ------p~aCp~CGP 181 (750)
T COG0068 125 NCTNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFHAQ------PIACPKCGP 181 (750)
T ss_pred ccCCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCccccccccc------cccCcccCC
Confidence 355666666543332111 0111111 2346677776666666554442 456666665
No 240
>PLN02748 tRNA dimethylallyltransferase
Probab=23.72 E-value=54 Score=29.87 Aligned_cols=26 Identities=15% Similarity=0.202 Sum_probs=22.5
Q ss_pred CCcccCCCCCC-cCcChHHHHhhhhhc
Q psy4409 11 EKPYTCYFCNF-KSAHMSSINNHLKIK 36 (305)
Q Consensus 11 ~~~~~C~~C~~-~f~~~~~l~~H~~~h 36 (305)
-+.|.|.+|++ ++.....+..|++..
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlksr 442 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQGR 442 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhcch
Confidence 36799999998 899999999999653
No 241
>PTZ00448 hypothetical protein; Provisional
Probab=23.67 E-value=55 Score=28.48 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=21.9
Q ss_pred CeeCCcCcccccChHHHHHHHHHhc
Q psy4409 103 PFKCNFCFQCFTQNVSLQTHIRIKH 127 (305)
Q Consensus 103 ~~~C~~C~~~f~~~~~l~~H~~~~H 127 (305)
.|.|..|+..|.+....+.|+++.+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDw 338 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEW 338 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhH
Confidence 5889999999999999999998743
No 242
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=23.51 E-value=27 Score=27.51 Aligned_cols=23 Identities=22% Similarity=0.512 Sum_probs=0.0
Q ss_pred ccccCCCCccchhcHHHHHHHHh
Q psy4409 140 RIYCTFCRDPLYNDLKILLQHTK 162 (305)
Q Consensus 140 ~~~C~~C~~~~~~~~~~l~~h~~ 162 (305)
.|.|.+||+.++..+.++..|..
T Consensus 101 ey~CEICGN~~Y~GrkaFekHF~ 123 (196)
T PF11931_consen 101 EYKCEICGNQSYKGRKAFEKHFQ 123 (196)
T ss_dssp -----------------------
T ss_pred eeeeEeCCCcceecHHHHHHhcC
Confidence 68899999777777777776654
No 243
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.40 E-value=28 Score=25.21 Aligned_cols=10 Identities=30% Similarity=0.703 Sum_probs=4.8
Q ss_pred cccCCCccccc
Q psy4409 176 YVCMVCPYHCR 186 (305)
Q Consensus 176 ~~C~~C~~~f~ 186 (305)
+.| .|+..|.
T Consensus 71 ~~C-~Cg~~~~ 80 (124)
T PRK00762 71 IEC-ECGYEGV 80 (124)
T ss_pred EEe-eCcCccc
Confidence 445 5554443
No 244
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=22.50 E-value=33 Score=20.50 Aligned_cols=10 Identities=20% Similarity=0.879 Sum_probs=6.7
Q ss_pred cCccchhhcC
Q psy4409 205 ECGFCSLKFS 214 (305)
Q Consensus 205 ~C~~C~~~f~ 214 (305)
.||+||..+.
T Consensus 2 ~CPyCge~~~ 11 (52)
T PF14255_consen 2 QCPYCGEPIE 11 (52)
T ss_pred CCCCCCCeeE
Confidence 5777776664
No 245
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=22.34 E-value=31 Score=20.23 Aligned_cols=10 Identities=30% Similarity=0.999 Sum_probs=6.3
Q ss_pred CccCccchhh
Q psy4409 203 PYECGFCSLK 212 (305)
Q Consensus 203 ~~~C~~C~~~ 212 (305)
.|.|..||.+
T Consensus 37 R~~CGkCgyT 46 (51)
T COG1998 37 RWACGKCGYT 46 (51)
T ss_pred eeEeccccce
Confidence 4667777654
No 246
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=22.32 E-value=42 Score=25.02 Aligned_cols=11 Identities=18% Similarity=0.552 Sum_probs=6.4
Q ss_pred CccCccchhhc
Q psy4409 203 PYECGFCSLKF 213 (305)
Q Consensus 203 ~~~C~~C~~~f 213 (305)
.|.|+.||+.|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 45666666555
No 247
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.93 E-value=50 Score=28.38 Aligned_cols=29 Identities=14% Similarity=0.383 Sum_probs=23.7
Q ss_pred cccCCCcccCCCCC-CcCcChHHHHhhhhh
Q psy4409 7 KHSGEKPYTCYFCN-FKSAHMSSINNHLKI 35 (305)
Q Consensus 7 ~h~~~~~~~C~~C~-~~f~~~~~l~~H~~~ 35 (305)
.|.-.+.|.|.+|| +++..+..+.+|...
T Consensus 368 lhgLd~ef~CEICgNyvy~GR~~FdrHF~E 397 (470)
T COG5188 368 LHGLDIEFECEICGNYVYYGRDRFDRHFEE 397 (470)
T ss_pred hcCCCcceeeeecccccccchHHHHhhhhh
Confidence 34456789999998 899999999999744
No 248
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=21.90 E-value=32 Score=20.90 Aligned_cols=11 Identities=27% Similarity=0.779 Sum_probs=5.2
Q ss_pred CCccCccchhh
Q psy4409 202 KPYECGFCSLK 212 (305)
Q Consensus 202 ~~~~C~~C~~~ 212 (305)
..|.|..|...
T Consensus 30 ~tYmC~eC~~R 40 (56)
T PF09963_consen 30 HTYMCDECKER 40 (56)
T ss_pred cceeChhHHHH
Confidence 34555555433
No 249
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=21.82 E-value=19 Score=24.72 Aligned_cols=18 Identities=28% Similarity=0.486 Sum_probs=12.9
Q ss_pred HHhCCCCCccCccchhhcC
Q psy4409 196 RKHTKDKPYECGFCSLKFS 214 (305)
Q Consensus 196 ~~h~~~~~~~C~~C~~~f~ 214 (305)
..+.+ ++++|+.||..|.
T Consensus 73 ~l~~g-~~~rC~eCG~~fk 90 (97)
T cd00924 73 WLEKG-KPKRCPECGHVFK 90 (97)
T ss_pred EEeCC-CceeCCCCCcEEE
Confidence 34555 6788888888775
No 250
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=21.54 E-value=69 Score=19.23 Aligned_cols=33 Identities=21% Similarity=0.294 Sum_probs=19.4
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQC 112 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~ 112 (305)
-.|.-|+...+...... ...++....|+.|++.
T Consensus 23 ~~C~gC~~~l~~~~~~~----i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 23 GTCSGCHMELPPQELNE----IRKGDEIVFCPNCGRI 55 (56)
T ss_pred CccCCCCEEcCHHHHHH----HHcCCCeEECcCCCcc
Confidence 46777877665433222 2223566788888753
No 251
>KOG3002|consensus
Probab=21.29 E-value=1.5e+02 Score=25.26 Aligned_cols=76 Identities=14% Similarity=0.189 Sum_probs=43.0
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCc----CcccccChHHHHHHHHHhcCccccccccCcCccccCCC--Ccc
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNF----CFQCFTQNVSLQTHIRIKHTRLFGQDKQESTRIYCTFC--RDP 149 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~----C~~~f~~~~~l~~H~~~~H~~~~~~~~~~~~~~~C~~C--~~~ 149 (305)
..|+.|...+.....+. +..-.....+.|+. |.+.|..... .. |.. .....++.|+.= ...
T Consensus 81 ~~CP~Cr~~~g~~R~~a--mEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~-----HE~-----~C~f~~~~CP~p~~~C~ 147 (299)
T KOG3002|consen 81 NKCPTCRLPIGNIRCRA--MEKVAEAVLVPCKNAKLGCTKSFPYGEK-SK-----HEK-----VCEFRPCSCPVPGAECK 147 (299)
T ss_pred ccCCccccccccHHHHH--HHHHHHhceecccccccCCceeeccccc-cc-----ccc-----ccccCCcCCCCCcccCC
Confidence 78888988887554443 33333345677774 8888777655 22 322 233345555542 113
Q ss_pred chhcHHHHHHHHhhh
Q psy4409 150 LYNDLKILLQHTKNC 164 (305)
Q Consensus 150 ~~~~~~~l~~h~~~~ 164 (305)
.......+..|.+.-
T Consensus 148 ~~G~~~~l~~H~~~~ 162 (299)
T KOG3002|consen 148 YTGSYKDLYAHLNDT 162 (299)
T ss_pred ccCcHHHHHHHHHhh
Confidence 445566667776554
No 252
>KOG0402|consensus
Probab=21.04 E-value=51 Score=21.73 Aligned_cols=30 Identities=23% Similarity=0.636 Sum_probs=19.4
Q ss_pred cccCCCCccCCCcHHHHHHHHhhCCCCCeeCCcCcccccC
Q psy4409 76 FTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNFCFQCFTQ 115 (305)
Q Consensus 76 ~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~C~~~f~~ 115 (305)
|.|+.||+.-.. +. ....+.|..|.+.+..
T Consensus 37 y~CsfCGK~~vK--------R~--AvGiW~C~~C~kv~ag 66 (92)
T KOG0402|consen 37 YTCSFCGKKTVK--------RK--AVGIWKCGSCKKVVAG 66 (92)
T ss_pred hhhhhcchhhhh--------hh--ceeEEecCCccceecc
Confidence 999999874221 11 1245888888887754
No 253
>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=20.71 E-value=45 Score=20.11 Aligned_cols=12 Identities=17% Similarity=0.492 Sum_probs=8.8
Q ss_pred cccCCCCCCcCc
Q psy4409 13 PYTCYFCNFKSA 24 (305)
Q Consensus 13 ~~~C~~C~~~f~ 24 (305)
.|.||.|+..+.
T Consensus 2 ~~~CP~CG~~ie 13 (54)
T TIGR01206 2 QFECPDCGAEIE 13 (54)
T ss_pred ccCCCCCCCEEe
Confidence 468888888654
No 254
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=20.56 E-value=1.6e+02 Score=22.35 Aligned_cols=54 Identities=20% Similarity=0.330 Sum_probs=33.3
Q ss_pred CcccCCCCccCCCcHHHHHHHHhhCCCCCeeCCc--CcccccChHHHHHHHHHhcCcc
Q psy4409 75 NFTCLVCDYHSPRSIDMRRHIRRHTGEKPFKCNF--CFQCFTQNVSLQTHIRIKHTRL 130 (305)
Q Consensus 75 ~~~C~~C~~~f~~~~~l~~H~~~h~~~~~~~C~~--C~~~f~~~~~l~~H~~~~H~~~ 130 (305)
...|+.|--...-..-... .+.+.+.++-.|.. |... .+...|+.|.+..|+..
T Consensus 80 ~L~CPLCRG~V~GWtvve~-AR~~LN~K~RsC~~e~C~F~-GtY~eLrKHar~~HP~~ 135 (162)
T PF07800_consen 80 ELACPLCRGEVKGWTVVEP-ARRFLNAKKRSCSQESCSFS-GTYSELRKHARSEHPSA 135 (162)
T ss_pred cccCccccCceeceEEchH-HHHHhccCCccCcccccccc-cCHHHHHHHHHhhCCCC
Confidence 4899999644332222222 44455556666655 6643 44678999999999763
No 255
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=20.40 E-value=38 Score=17.54 Aligned_cols=16 Identities=19% Similarity=0.517 Sum_probs=9.4
Q ss_pred CCcccCCCCCCcCcCh
Q psy4409 11 EKPYTCYFCNFKSAHM 26 (305)
Q Consensus 11 ~~~~~C~~C~~~f~~~ 26 (305)
...|.|+.|+..+=+.
T Consensus 11 ~~kY~Cp~C~~~~CSl 26 (30)
T PF04438_consen 11 PAKYRCPRCGARYCSL 26 (30)
T ss_dssp EESEE-TTT--EESSH
T ss_pred CCEEECCCcCCceeCc
Confidence 4679999999876543
No 256
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=20.38 E-value=57 Score=19.72 Aligned_cols=16 Identities=31% Similarity=0.602 Sum_probs=12.2
Q ss_pred CCCcccCCCCCCcCcC
Q psy4409 10 GEKPYTCYFCNFKSAH 25 (305)
Q Consensus 10 ~~~~~~C~~C~~~f~~ 25 (305)
+++---||+|+..|..
T Consensus 36 ~~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 36 GERYNGCPFCGTPFEF 51 (55)
T ss_pred hhhccCCCCCCCcccC
Confidence 4555579999998865
No 257
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=20.34 E-value=37 Score=26.50 Aligned_cols=15 Identities=13% Similarity=0.552 Sum_probs=11.7
Q ss_pred CCcccCCCcccccCc
Q psy4409 174 YRYVCMVCPYHCRQN 188 (305)
Q Consensus 174 ~~~~C~~C~~~f~~~ 188 (305)
.||.|.+|.+.|.+.
T Consensus 195 IPF~C~iCKkdy~sp 209 (259)
T COG5152 195 IPFLCGICKKDYESP 209 (259)
T ss_pred Cceeehhchhhccch
Confidence 678899998887653
Done!