Query 026210
Match_columns 241
No_of_seqs 298 out of 3442
Neff 9.9
Searched_HMMs 46136
Date Fri Mar 29 05:04:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026210.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026210hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 100.0 1.8E-28 3.9E-33 189.7 7.8 135 33-189 127-266 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.9 1.7E-24 3.7E-29 167.7 7.7 114 60-192 126-241 (279)
3 KOG3576 Ovo and related transc 99.9 9.1E-22 2E-26 145.5 7.5 117 58-194 111-240 (267)
4 KOG1074 Transcriptional repres 99.7 1.1E-19 2.3E-24 158.8 -0.3 80 105-191 605-693 (958)
5 KOG1074 Transcriptional repres 99.7 1.6E-18 3.4E-23 151.6 4.3 60 141-200 880-941 (958)
6 KOG3623 Homeobox transcription 99.7 1.6E-17 3.5E-22 143.3 4.2 111 64-192 210-335 (1007)
7 KOG3608 Zn finger proteins [Ge 99.6 5.1E-17 1.1E-21 129.8 0.5 147 42-195 185-350 (467)
8 KOG3623 Homeobox transcription 99.6 2E-16 4.2E-21 136.7 1.4 78 103-187 892-971 (1007)
9 KOG3608 Zn finger proteins [Ge 99.6 1.2E-15 2.7E-20 121.9 3.8 154 39-200 210-386 (467)
10 KOG3576 Ovo and related transc 99.5 1.4E-15 3E-20 112.9 1.2 110 33-162 114-234 (267)
11 PLN03086 PRLI-interacting fact 99.4 4.6E-13 9.9E-18 116.2 7.8 105 62-192 451-566 (567)
12 PHA00733 hypothetical protein 99.3 2.1E-12 4.6E-17 92.2 4.1 82 102-192 37-125 (128)
13 PHA00733 hypothetical protein 99.1 5.3E-11 1.1E-15 85.1 3.9 96 50-164 26-124 (128)
14 PHA02768 hypothetical protein; 99.1 6.6E-11 1.4E-15 70.1 2.1 42 141-183 6-48 (55)
15 KOG3993 Transcription factor ( 99.0 4.8E-11 1E-15 98.0 -1.7 151 35-192 266-484 (500)
16 PHA02768 hypothetical protein; 98.8 1.3E-09 2.9E-14 64.6 1.1 44 105-157 5-48 (55)
17 PF13465 zf-H2C2_2: Zinc-finge 98.8 2.9E-09 6.4E-14 54.0 1.4 26 127-152 1-26 (26)
18 PLN03086 PRLI-interacting fact 98.8 1.1E-08 2.4E-13 89.2 5.5 113 64-189 407-537 (567)
19 KOG3993 Transcription factor ( 98.7 5.8E-09 1.3E-13 86.0 1.8 113 64-196 267-386 (500)
20 PHA00732 hypothetical protein 98.4 1.6E-07 3.4E-12 61.1 2.2 45 105-162 1-46 (79)
21 PHA00616 hypothetical protein 98.4 1.3E-07 2.9E-12 53.4 1.5 32 140-171 1-33 (44)
22 PF13465 zf-H2C2_2: Zinc-finge 98.4 1.9E-07 4E-12 47.3 1.7 24 155-178 1-26 (26)
23 PHA00616 hypothetical protein 98.3 2.9E-07 6.3E-12 52.0 1.2 34 64-110 1-34 (44)
24 PHA00732 hypothetical protein 98.2 1.8E-06 3.9E-11 56.1 3.1 49 64-137 1-49 (79)
25 PF05605 zf-Di19: Drought indu 98.1 5.6E-06 1.2E-10 49.9 3.6 47 141-190 3-53 (54)
26 PF00096 zf-C2H2: Zinc finger, 98.0 2.5E-06 5.4E-11 41.8 1.4 23 65-87 1-23 (23)
27 COG5189 SFP1 Putative transcri 98.0 1.9E-06 4.1E-11 69.0 0.8 51 137-187 346-419 (423)
28 PF00096 zf-C2H2: Zinc finger, 97.9 8.5E-06 1.8E-10 39.8 2.3 21 141-161 1-21 (23)
29 PF05605 zf-Di19: Drought indu 97.8 1.9E-05 4.2E-10 47.5 3.3 23 64-87 2-24 (54)
30 COG5189 SFP1 Putative transcri 97.8 4.8E-06 1E-10 66.7 0.4 56 102-162 346-420 (423)
31 PF13894 zf-C2H2_4: C2H2-type 97.7 1.6E-05 3.5E-10 39.1 1.5 22 168-189 1-23 (24)
32 PF13912 zf-C2H2_6: C2H2-type 97.7 1.5E-05 3.2E-10 40.7 0.9 24 167-190 1-25 (27)
33 PF13912 zf-C2H2_6: C2H2-type 97.7 2.9E-05 6.3E-10 39.5 1.8 25 64-88 1-25 (27)
34 PF13894 zf-C2H2_4: C2H2-type 97.7 2.6E-05 5.7E-10 38.3 1.5 24 65-88 1-24 (24)
35 PF12756 zf-C2H2_2: C2H2 type 97.6 3.9E-05 8.4E-10 52.4 2.6 72 66-162 1-72 (100)
36 PF12756 zf-C2H2_2: C2H2 type 97.5 4.8E-05 1E-09 51.9 1.9 73 107-190 1-74 (100)
37 KOG2231 Predicted E3 ubiquitin 97.3 0.00023 5.1E-09 63.5 4.1 40 119-162 189-234 (669)
38 PF09237 GAGA: GAGA factor; I 97.2 0.00048 1E-08 39.9 2.8 31 137-167 21-52 (54)
39 smart00355 ZnF_C2H2 zinc finge 97.1 0.00033 7.1E-09 34.8 1.7 24 65-88 1-24 (26)
40 smart00355 ZnF_C2H2 zinc finge 97.0 0.00037 7.9E-09 34.6 1.6 23 168-190 1-24 (26)
41 KOG1146 Homeobox protein [Gene 97.0 0.0013 2.9E-08 62.4 5.5 66 61-133 462-539 (1406)
42 PF09237 GAGA: GAGA factor; I 96.8 0.00089 1.9E-08 38.8 2.1 29 60-88 20-48 (54)
43 PF12874 zf-met: Zinc-finger o 96.8 0.00071 1.5E-08 33.5 1.3 23 65-87 1-23 (25)
44 PF13909 zf-H2C2_5: C2H2-type 96.7 0.00091 2E-08 32.8 1.2 22 168-190 1-23 (24)
45 PRK04860 hypothetical protein; 96.5 0.0011 2.4E-08 49.2 1.2 38 139-180 118-157 (160)
46 PRK04860 hypothetical protein; 96.5 0.0018 4E-08 48.1 2.3 40 104-154 118-157 (160)
47 PF12874 zf-met: Zinc-finger o 96.4 0.0023 5.1E-08 31.6 1.6 22 141-162 1-22 (25)
48 PF12171 zf-C2H2_jaz: Zinc-fin 96.4 0.0013 2.9E-08 33.3 0.7 22 65-86 2-23 (27)
49 COG5236 Uncharacterized conser 96.3 0.0035 7.5E-08 51.3 3.1 119 64-196 151-311 (493)
50 KOG4173 Alpha-SNAP protein [In 96.3 0.0014 3.1E-08 49.5 0.8 83 102-192 76-172 (253)
51 PF13909 zf-H2C2_5: C2H2-type 95.9 0.0087 1.9E-07 29.2 2.3 21 141-162 1-21 (24)
52 PF12171 zf-C2H2_jaz: Zinc-fin 95.6 0.0027 5.9E-08 32.1 -0.3 21 141-161 2-22 (27)
53 KOG2231 Predicted E3 ubiquitin 95.0 0.086 1.9E-06 47.7 7.0 103 66-190 184-301 (669)
54 COG5048 FOG: Zn-finger [Genera 94.6 0.021 4.5E-07 49.2 2.2 61 63-143 288-354 (467)
55 COG5236 Uncharacterized conser 94.6 0.12 2.6E-06 42.6 6.2 66 124-189 200-274 (493)
56 COG5048 FOG: Zn-finger [Genera 94.4 0.026 5.6E-07 48.6 2.2 53 36-88 289-347 (467)
57 KOG2482 Predicted C2H2-type Zn 94.4 0.058 1.3E-06 44.3 4.0 50 141-190 280-358 (423)
58 PF13913 zf-C2HC_2: zinc-finge 94.2 0.037 8E-07 27.4 1.6 21 65-86 3-23 (25)
59 PF13913 zf-C2HC_2: zinc-finge 94.2 0.044 9.5E-07 27.1 1.9 19 142-161 4-22 (25)
60 smart00451 ZnF_U1 U1-like zinc 94.1 0.039 8.6E-07 29.5 1.8 23 64-86 3-25 (35)
61 KOG1146 Homeobox protein [Gene 93.8 0.031 6.7E-07 53.6 1.6 78 102-189 462-541 (1406)
62 smart00451 ZnF_U1 U1-like zinc 93.8 0.044 9.5E-07 29.3 1.6 22 167-188 3-25 (35)
63 KOG2893 Zn finger protein [Gen 93.7 0.016 3.5E-07 45.0 -0.3 43 107-160 12-54 (341)
64 KOG2785 C2H2-type Zn-finger pr 93.3 0.14 3E-06 42.8 4.5 48 141-188 167-242 (390)
65 KOG2893 Zn finger protein [Gen 93.1 0.028 6.1E-07 43.7 0.2 45 138-186 9-54 (341)
66 PF12013 DUF3505: Protein of u 93.1 0.16 3.5E-06 35.2 4.0 25 167-191 80-109 (109)
67 KOG4377 Zn-finger protein [Gen 93.1 0.17 3.7E-06 42.7 4.6 120 63-193 270-430 (480)
68 COG4049 Uncharacterized protei 92.6 0.042 9.2E-07 32.4 0.3 30 135-164 12-42 (65)
69 KOG2186 Cell growth-regulating 92.5 0.1 2.3E-06 41.1 2.5 47 141-189 4-51 (276)
70 COG4049 Uncharacterized protei 92.4 0.081 1.8E-06 31.3 1.4 29 163-191 13-42 (65)
71 KOG2482 Predicted C2H2-type Zn 92.0 0.22 4.9E-06 41.0 3.9 53 140-192 195-305 (423)
72 KOG4173 Alpha-SNAP protein [In 90.4 0.1 2.2E-06 39.8 0.5 79 62-163 77-170 (253)
73 PF12013 DUF3505: Protein of u 87.2 0.98 2.1E-05 31.2 3.7 24 141-164 81-109 (109)
74 PF09538 FYDLN_acid: Protein o 85.0 0.55 1.2E-05 32.4 1.5 29 141-179 10-39 (108)
75 COG1997 RPL43A Ribosomal prote 82.8 0.82 1.8E-05 29.9 1.5 35 102-153 32-66 (89)
76 PF05443 ROS_MUCR: ROS/MUCR tr 82.7 0.82 1.8E-05 32.8 1.6 19 172-193 78-96 (132)
77 cd00350 rubredoxin_like Rubred 81.5 0.83 1.8E-05 24.1 1.0 10 139-148 16-25 (33)
78 PF02892 zf-BED: BED zinc fing 81.2 1.7 3.7E-05 24.5 2.3 25 137-161 13-41 (45)
79 KOG2675 Adenylate cyclase-asso 80.8 4.1 8.9E-05 35.1 5.3 13 180-192 197-209 (480)
80 PF04959 ARS2: Arsenite-resist 80.7 0.85 1.8E-05 35.6 1.2 30 137-166 74-104 (214)
81 PF09986 DUF2225: Uncharacteri 78.3 0.49 1.1E-05 37.1 -0.8 12 168-179 49-61 (214)
82 smart00614 ZnF_BED BED zinc fi 78.0 1.7 3.6E-05 25.4 1.7 14 140-153 18-31 (50)
83 KOG4167 Predicted DNA-binding 76.9 2.4 5.1E-05 38.9 2.9 27 62-88 790-816 (907)
84 PF05443 ROS_MUCR: ROS/MUCR tr 76.5 2.3 5.1E-05 30.5 2.3 27 60-89 68-94 (132)
85 PF13717 zinc_ribbon_4: zinc-r 75.2 2.7 5.8E-05 22.7 1.8 12 142-153 4-15 (36)
86 TIGR02300 FYDLN_acid conserved 75.0 1.9 4.1E-05 30.5 1.5 29 141-179 10-39 (129)
87 cd00729 rubredoxin_SM Rubredox 74.8 2.2 4.7E-05 22.7 1.4 10 139-148 17-26 (34)
88 smart00531 TFIIE Transcription 73.2 3.2 6.9E-05 30.4 2.4 36 138-176 97-133 (147)
89 TIGR00622 ssl1 transcription f 72.7 3.7 8.1E-05 28.5 2.5 80 103-190 13-105 (112)
90 PRK00464 nrdR transcriptional 72.5 1.8 3.9E-05 32.0 1.0 17 140-156 28-44 (154)
91 TIGR00373 conserved hypothetic 71.4 4.1 8.9E-05 30.3 2.7 31 137-175 106-137 (158)
92 KOG4167 Predicted DNA-binding 69.6 1.5 3.3E-05 40.0 0.1 24 140-163 792-815 (907)
93 PRK06266 transcription initiat 68.9 4.9 0.00011 30.6 2.6 33 138-178 115-148 (178)
94 PF09845 DUF2072: Zn-ribbon co 68.6 2.3 5.1E-05 30.2 0.8 15 64-78 1-15 (131)
95 smart00734 ZnF_Rad18 Rad18-lik 68.5 4.2 9E-05 20.2 1.5 20 65-85 2-21 (26)
96 COG1996 RPC10 DNA-directed RNA 68.3 3 6.5E-05 24.2 1.1 11 140-150 6-16 (49)
97 PF09538 FYDLN_acid: Protein o 68.0 3.8 8.2E-05 28.3 1.7 32 104-153 8-39 (108)
98 COG3091 SprT Zn-dependent meta 67.4 2.9 6.3E-05 30.6 1.1 33 138-175 115-149 (156)
99 COG1592 Rubrerythrin [Energy p 65.9 3.7 7.9E-05 30.7 1.4 25 104-148 133-157 (166)
100 PF15269 zf-C2H2_7: Zinc-finge 65.5 4.9 0.00011 22.7 1.5 22 141-162 21-42 (54)
101 smart00659 RPOLCX RNA polymera 65.5 5.1 0.00011 22.7 1.6 12 139-150 18-29 (44)
102 PF09986 DUF2225: Uncharacteri 64.9 2.8 6E-05 32.9 0.6 44 103-153 3-61 (214)
103 COG4957 Predicted transcriptio 64.7 3.8 8.2E-05 29.2 1.2 24 169-195 78-102 (148)
104 TIGR02098 MJ0042_CXXC MJ0042 f 64.3 3.4 7.3E-05 22.4 0.8 15 65-79 3-17 (38)
105 PF03604 DNA_RNApol_7kD: DNA d 63.6 5.9 0.00013 20.8 1.5 11 140-150 17-27 (32)
106 PRK09678 DNA-binding transcrip 63.2 3.5 7.7E-05 26.2 0.8 39 141-180 2-43 (72)
107 smart00531 TFIIE Transcription 62.7 5.4 0.00012 29.2 1.8 40 102-152 96-135 (147)
108 KOG2071 mRNA cleavage and poly 62.5 6.8 0.00015 35.1 2.6 28 61-88 415-442 (579)
109 PF13719 zinc_ribbon_5: zinc-r 61.4 7.6 0.00017 21.0 1.8 11 140-150 25-35 (37)
110 KOG2186 Cell growth-regulating 60.8 5.5 0.00012 31.7 1.6 48 105-162 3-50 (276)
111 PRK14890 putative Zn-ribbon RN 60.2 9.9 0.00022 23.0 2.3 9 166-174 47-56 (59)
112 KOG2593 Transcription initiati 59.7 7.9 0.00017 33.3 2.5 34 137-173 125-160 (436)
113 PF04959 ARS2: Arsenite-resist 58.9 5.7 0.00012 31.1 1.4 30 164-193 74-104 (214)
114 COG2888 Predicted Zn-ribbon RN 58.5 9.4 0.0002 23.1 1.9 31 63-111 26-56 (61)
115 TIGR00373 conserved hypothetic 58.4 9.1 0.0002 28.4 2.4 35 102-152 106-140 (158)
116 TIGR00622 ssl1 transcription f 57.5 21 0.00045 24.8 3.8 89 63-163 14-104 (112)
117 PF01780 Ribosomal_L37ae: Ribo 57.3 4.9 0.00011 26.7 0.7 32 104-152 34-65 (90)
118 KOG3408 U1-like Zn-finger-cont 57.1 7.4 0.00016 27.3 1.5 24 139-162 56-79 (129)
119 PF10571 UPF0547: Uncharacteri 57.1 5 0.00011 19.9 0.5 11 65-75 15-25 (26)
120 KOG3408 U1-like Zn-finger-cont 56.9 6.1 0.00013 27.6 1.1 26 61-86 54-79 (129)
121 PF14353 CpXC: CpXC protein 55.8 11 0.00023 26.8 2.4 18 141-158 39-56 (128)
122 PRK06266 transcription initiat 55.5 6.3 0.00014 29.9 1.1 35 102-152 114-148 (178)
123 KOG2785 C2H2-type Zn-finger pr 55.0 14 0.00031 31.3 3.2 51 105-162 166-242 (390)
124 COG1571 Predicted DNA-binding 54.4 7.2 0.00016 33.7 1.4 29 142-180 352-381 (421)
125 KOG1924 RhoA GTPase effector D 52.2 31 0.00067 32.4 5.0 11 143-153 439-449 (1102)
126 TIGR02605 CxxC_CxxC_SSSS putat 52.0 4.5 9.7E-05 23.6 -0.1 9 140-148 26-34 (52)
127 TIGR00280 L37a ribosomal prote 52.0 7.8 0.00017 25.8 1.0 14 140-153 53-66 (91)
128 smart00834 CxxC_CXXC_SSSS Puta 50.5 6.2 0.00013 21.5 0.3 15 64-78 5-19 (41)
129 KOG3362 Predicted BBOX Zn-fing 50.3 5.2 0.00011 28.9 -0.0 22 167-188 129-151 (156)
130 PRK00398 rpoP DNA-directed RNA 50.0 13 0.00027 21.1 1.6 12 140-151 21-32 (46)
131 PF09723 Zn-ribbon_8: Zinc rib 49.1 8.5 0.00018 21.5 0.7 10 139-148 25-34 (42)
132 PF04810 zf-Sec23_Sec24: Sec23 48.2 11 0.00025 20.7 1.2 22 129-150 13-34 (40)
133 PHA00626 hypothetical protein 48.0 9 0.0002 22.9 0.7 14 166-179 22-36 (59)
134 KOG4124 Putative transcription 47.9 3.7 7.9E-05 34.3 -1.2 28 59-87 208-236 (442)
135 COG4957 Predicted transcriptio 47.8 29 0.00063 24.9 3.3 24 63-89 75-98 (148)
136 PF02176 zf-TRAF: TRAF-type zi 47.5 8.4 0.00018 23.0 0.6 27 126-152 24-54 (60)
137 PF05191 ADK_lid: Adenylate ki 46.9 8.3 0.00018 20.8 0.4 14 139-152 20-33 (36)
138 PRK03976 rpl37ae 50S ribosomal 46.8 10 0.00023 25.2 1.0 13 140-152 54-66 (90)
139 PF13878 zf-C2H2_3: zinc-finge 46.5 16 0.00035 20.3 1.6 25 64-88 13-39 (41)
140 PF09963 DUF2197: Uncharacteri 45.9 11 0.00023 22.6 0.9 10 142-151 4-13 (56)
141 KOG2807 RNA polymerase II tran 44.6 34 0.00074 28.5 3.8 53 138-190 288-369 (378)
142 PF07754 DUF1610: Domain of un 44.6 8.8 0.00019 18.7 0.3 10 63-72 15-24 (24)
143 PF01363 FYVE: FYVE zinc finge 44.2 11 0.00024 23.3 0.8 12 139-150 24-35 (69)
144 KOG4124 Putative transcription 44.0 18 0.0004 30.3 2.2 25 61-85 346-372 (442)
145 COG3357 Predicted transcriptio 42.6 15 0.00033 24.3 1.2 15 62-76 56-70 (97)
146 PF06524 NOA36: NOA36 protein; 42.5 11 0.00023 30.3 0.6 18 166-183 208-226 (314)
147 smart00154 ZnF_AN1 AN1-like Zi 42.5 11 0.00024 20.7 0.5 14 64-77 12-25 (39)
148 COG1198 PriA Primosomal protei 42.0 9.1 0.0002 35.8 0.2 11 66-76 437-447 (730)
149 PRK04351 hypothetical protein; 41.5 12 0.00027 27.4 0.8 33 139-178 111-144 (149)
150 PRK00432 30S ribosomal protein 41.2 17 0.00037 21.2 1.2 12 139-150 36-47 (50)
151 PRK03824 hypA hydrogenase nick 41.0 9.5 0.00021 27.5 0.1 15 139-153 69-83 (135)
152 TIGR01206 lysW lysine biosynth 40.6 12 0.00027 22.2 0.5 10 141-150 23-32 (54)
153 COG2331 Uncharacterized protei 40.5 11 0.00025 24.0 0.4 20 62-85 10-29 (82)
154 cd00924 Cyt_c_Oxidase_Vb Cytoc 40.3 13 0.00029 25.1 0.7 21 132-153 72-92 (97)
155 PTZ00255 60S ribosomal protein 40.2 19 0.0004 24.0 1.4 15 139-153 53-67 (90)
156 COG5151 SSL1 RNA polymerase II 39.9 29 0.00063 28.7 2.7 25 139-163 387-411 (421)
157 PF15135 UPF0515: Uncharacteri 39.7 24 0.00052 28.2 2.1 8 104-111 111-118 (278)
158 PF05290 Baculo_IE-1: Baculovi 39.2 32 0.0007 24.6 2.5 18 61-78 77-94 (140)
159 PF09416 UPF1_Zn_bind: RNA hel 38.7 44 0.00095 24.6 3.2 38 138-175 12-69 (152)
160 KOG2907 RNA polymerase I trans 38.7 21 0.00046 24.7 1.5 12 167-178 102-114 (116)
161 cd00065 FYVE FYVE domain; Zinc 38.7 19 0.00041 21.2 1.2 10 141-150 19-28 (57)
162 PF04780 DUF629: Protein of un 37.9 24 0.00053 31.1 2.1 25 139-163 56-81 (466)
163 PF08274 PhnA_Zn_Ribbon: PhnA 37.2 18 0.00038 18.7 0.7 11 139-149 18-28 (30)
164 COG4530 Uncharacterized protei 36.7 21 0.00045 24.6 1.2 15 138-152 24-38 (129)
165 COG4888 Uncharacterized Zn rib 36.1 11 0.00025 25.4 -0.1 12 141-152 47-58 (104)
166 PF11494 Ta0938: Ta0938; Inte 35.9 15 0.00032 24.7 0.4 36 138-178 12-49 (105)
167 COG1656 Uncharacterized conser 35.8 41 0.00088 25.1 2.7 21 139-159 129-149 (165)
168 COG1773 Rubredoxin [Energy pro 35.6 17 0.00037 21.7 0.6 15 140-154 3-17 (55)
169 PRK04023 DNA polymerase II lar 35.5 40 0.00086 32.7 3.2 11 63-73 625-635 (1121)
170 KOG2807 RNA polymerase II tran 35.5 42 0.00091 28.0 3.0 25 139-163 344-368 (378)
171 smart00064 FYVE Protein presen 35.5 22 0.00048 21.9 1.2 11 141-151 27-37 (68)
172 PLN03238 probable histone acet 35.4 31 0.00066 28.3 2.2 24 139-162 47-70 (290)
173 smart00440 ZnF_C2C2 C2C2 Zinc 35.4 15 0.00033 20.2 0.4 10 141-150 29-38 (40)
174 KOG2071 mRNA cleavage and poly 35.2 22 0.00047 32.1 1.4 28 164-191 415-443 (579)
175 COG1327 Predicted transcriptio 34.7 17 0.00036 26.7 0.6 14 140-153 28-41 (156)
176 TIGR00595 priA primosomal prot 34.5 14 0.0003 33.1 0.2 9 140-148 253-261 (505)
177 TIGR00244 transcriptional regu 34.4 18 0.00038 26.5 0.6 16 140-155 28-43 (147)
178 PF10263 SprT-like: SprT-like 34.3 11 0.00025 27.6 -0.4 32 139-177 122-154 (157)
179 PF07975 C1_4: TFIIH C1-like d 34.2 11 0.00024 22.1 -0.3 27 62-88 19-45 (51)
180 PF08790 zf-LYAR: LYAR-type C2 33.5 12 0.00026 18.9 -0.2 9 142-150 2-10 (28)
181 PF13451 zf-trcl: Probable zin 33.5 21 0.00047 20.7 0.8 18 138-155 2-19 (49)
182 KOG3507 DNA-directed RNA polym 33.2 25 0.00054 21.2 1.0 15 139-153 36-50 (62)
183 smart00731 SprT SprT homologue 33.1 16 0.00035 26.6 0.3 32 140-177 112-144 (146)
184 PRK14873 primosome assembly pr 33.0 13 0.00029 34.4 -0.2 9 140-148 422-430 (665)
185 COG1594 RPB9 DNA-directed RNA 32.5 12 0.00025 26.2 -0.5 16 62-77 20-35 (113)
186 PRK12380 hydrogenase nickel in 32.4 25 0.00054 24.5 1.1 12 141-152 71-82 (113)
187 KOG2593 Transcription initiati 32.2 20 0.00043 31.0 0.7 38 102-149 125-162 (436)
188 PRK14873 primosome assembly pr 31.8 33 0.00072 31.9 2.1 28 133-175 403-431 (665)
189 KOG0320 Predicted E3 ubiquitin 31.0 18 0.00039 27.3 0.2 15 99-113 125-139 (187)
190 COG1198 PriA Primosomal protei 31.0 33 0.00071 32.3 1.9 28 134-175 456-484 (730)
191 COG3677 Transposase and inacti 30.7 23 0.00049 25.4 0.7 17 137-153 50-66 (129)
192 PF11781 RRN7: RNA polymerase 30.6 32 0.00068 18.5 1.1 7 141-147 26-32 (36)
193 PF01096 TFIIS_C: Transcriptio 30.5 11 0.00023 20.7 -0.8 11 140-150 28-38 (39)
194 KOG0717 Molecular chaperone (D 30.4 33 0.0007 30.1 1.7 38 141-190 293-332 (508)
195 PF07295 DUF1451: Protein of u 30.3 37 0.0008 24.9 1.7 9 141-149 113-121 (146)
196 PF03811 Zn_Tnp_IS1: InsA N-te 30.0 29 0.00062 18.7 0.9 19 128-146 17-35 (36)
197 PF10013 DUF2256: Uncharacteri 29.7 48 0.001 18.6 1.7 16 66-81 10-25 (42)
198 PF12662 cEGF: Complement Clr- 29.3 30 0.00064 16.8 0.8 12 168-179 2-13 (24)
199 PF01428 zf-AN1: AN1-like Zinc 29.3 22 0.00047 19.9 0.3 15 139-153 12-26 (43)
200 KOG1280 Uncharacterized conser 28.9 19 0.00041 30.2 0.0 23 140-162 79-101 (381)
201 COG3364 Zn-ribbon containing p 28.1 34 0.00074 23.2 1.1 16 64-79 2-17 (112)
202 PF06220 zf-U1: U1 zinc finger 27.8 44 0.00096 18.2 1.4 23 63-85 2-26 (38)
203 PTZ00448 hypothetical protein; 27.1 40 0.00087 28.7 1.6 23 140-162 314-336 (373)
204 PRK00564 hypA hydrogenase nick 27.0 33 0.00073 24.0 1.0 13 140-152 71-83 (117)
205 PF11789 zf-Nse: Zinc-finger o 26.9 33 0.00071 20.6 0.8 35 62-113 22-56 (57)
206 PF06397 Desulfoferrod_N: Desu 26.8 29 0.00062 18.8 0.5 12 139-150 5-16 (36)
207 PF12907 zf-met2: Zinc-binding 26.6 34 0.00073 19.0 0.8 22 141-162 2-26 (40)
208 PLN02294 cytochrome c oxidase 26.6 31 0.00066 25.9 0.8 17 61-77 138-154 (174)
209 PF07282 OrfB_Zn_ribbon: Putat 26.4 54 0.0012 20.2 1.8 15 138-152 44-58 (69)
210 KOG4727 U1-like Zn-finger prot 26.1 42 0.00091 25.2 1.4 24 62-85 73-96 (193)
211 KOG2636 Splicing factor 3a, su 25.9 46 0.001 29.0 1.8 29 134-162 395-424 (497)
212 TIGR00100 hypA hydrogenase nic 25.8 33 0.00071 24.0 0.8 12 141-152 71-82 (115)
213 TIGR00515 accD acetyl-CoA carb 25.6 47 0.001 27.3 1.8 12 140-151 26-37 (285)
214 PF01155 HypA: Hydrogenase exp 25.1 25 0.00054 24.4 0.1 14 140-153 70-83 (113)
215 PF11672 DUF3268: Protein of u 24.9 25 0.00055 24.0 0.1 8 141-148 32-39 (102)
216 PF07150 DUF1390: Protein of u 24.7 20 0.00043 28.4 -0.5 19 140-159 7-25 (229)
217 PF01286 XPA_N: XPA protein N- 24.7 28 0.00061 18.5 0.2 14 65-78 4-17 (34)
218 PF14446 Prok-RING_1: Prokaryo 24.7 57 0.0012 19.4 1.5 13 138-150 19-31 (54)
219 KOG0978 E3 ubiquitin ligase in 24.7 30 0.00064 32.1 0.5 21 165-185 676-697 (698)
220 PTZ00064 histone acetyltransfe 24.6 47 0.001 29.6 1.6 26 165-190 278-304 (552)
221 PF10276 zf-CHCC: Zinc-finger 24.5 45 0.00097 18.5 1.0 12 139-150 28-39 (40)
222 PF04423 Rad50_zn_hook: Rad50 24.4 27 0.00058 20.6 0.1 13 66-78 22-34 (54)
223 PF05495 zf-CHY: CHY zinc fing 24.4 13 0.00027 23.5 -1.4 38 130-174 31-69 (71)
224 PLN00104 MYST -like histone ac 24.3 44 0.00095 29.4 1.4 28 164-191 195-223 (450)
225 KOG1842 FYVE finger-containing 23.9 42 0.00091 29.3 1.2 23 140-162 15-37 (505)
226 PTZ00448 hypothetical protein; 23.7 51 0.0011 28.0 1.7 24 63-86 313-336 (373)
227 PF13240 zinc_ribbon_2: zinc-r 23.6 45 0.00098 15.8 0.8 6 143-148 16-21 (23)
228 CHL00174 accD acetyl-CoA carbo 23.5 57 0.0012 27.0 1.9 13 140-152 38-50 (296)
229 PF13453 zf-TFIIB: Transcripti 23.4 70 0.0015 17.5 1.7 21 138-158 17-37 (41)
230 KOG2932 E3 ubiquitin ligase in 23.3 69 0.0015 26.6 2.3 16 172-187 153-168 (389)
231 KOG1994 Predicted RNA binding 23.1 47 0.001 26.2 1.2 22 139-160 238-259 (268)
232 PF12760 Zn_Tnp_IS1595: Transp 22.9 1.1E+02 0.0023 17.2 2.5 11 138-148 35-45 (46)
233 PF09332 Mcm10: Mcm10 replicat 22.6 27 0.00058 29.5 -0.1 14 139-152 284-297 (344)
234 KOG0402 60S ribosomal protein 22.5 41 0.00089 21.9 0.7 11 141-151 55-65 (92)
235 PRK03681 hypA hydrogenase nick 22.5 50 0.0011 23.0 1.2 12 141-152 71-82 (114)
236 PF08209 Sgf11: Sgf11 (transcr 22.1 79 0.0017 16.7 1.6 22 168-190 5-27 (33)
237 PF08792 A2L_zn_ribbon: A2L zi 22.0 71 0.0015 16.8 1.5 12 140-151 21-32 (33)
238 PF07800 DUF1644: Protein of u 22.0 2.6E+02 0.0057 20.8 4.8 23 63-88 28-50 (162)
239 PF02748 PyrI_C: Aspartate car 21.9 38 0.00083 19.9 0.4 18 59-76 30-47 (52)
240 KOG2932 E3 ubiquitin ligase in 21.5 1.4E+02 0.003 24.9 3.6 27 138-164 142-172 (389)
241 PF04606 Ogr_Delta: Ogr/Delta- 21.5 23 0.00051 20.2 -0.5 6 146-151 33-38 (47)
242 PF00301 Rubredoxin: Rubredoxi 21.5 49 0.0011 19.0 0.8 15 140-154 1-15 (47)
243 COG1675 TFA1 Transcription ini 21.4 59 0.0013 24.7 1.4 10 141-150 133-142 (176)
244 PF01927 Mut7-C: Mut7-C RNAse 21.3 65 0.0014 23.5 1.7 21 138-158 122-142 (147)
245 PLN02748 tRNA dimethylallyltra 21.3 61 0.0013 28.8 1.8 26 62-87 416-442 (468)
246 KOG0717 Molecular chaperone (D 21.1 53 0.0012 28.9 1.3 21 168-188 293-314 (508)
247 COG5188 PRP9 Splicing factor 3 21.0 65 0.0014 27.2 1.7 29 134-162 368-397 (470)
248 PTZ00303 phosphatidylinositol 20.9 41 0.00089 31.7 0.6 13 65-77 461-473 (1374)
249 cd00730 rubredoxin Rubredoxin; 20.9 40 0.00088 19.7 0.4 13 141-153 2-14 (50)
250 COG5112 UFD2 U1-like Zn-finger 20.7 53 0.0012 22.5 1.0 24 139-162 54-77 (126)
251 KOG0782 Predicted diacylglycer 20.2 22 0.00048 32.0 -1.2 12 142-153 255-266 (1004)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.95 E-value=1.8e-28 Score=189.68 Aligned_cols=135 Identities=24% Similarity=0.426 Sum_probs=122.4
Q ss_pred CccccCCCCCCCCCCCccccccCccccC---CCCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCC
Q 026210 33 PTQKKKRNLPGMPDPDSEVIALSPKTLL---ATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCP 109 (241)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~ 109 (241)
...+..+..++........|..|.++|- ..+.+.|++|||.|.....|+.|+++|. -++.|.
T Consensus 127 ~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~---------------l~c~C~ 191 (279)
T KOG2462|consen 127 KHPRYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHT---------------LPCECG 191 (279)
T ss_pred cCCceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccC---------------CCcccc
Confidence 3455577788888888888999988775 4678999999999999999999999996 678999
Q ss_pred CCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHHh-CCcceecC-CCCCcCCcchHHHHHH
Q 026210 110 ESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKTC-GTREYKCD-CGTIFSRRDSFITHRA 187 (241)
Q Consensus 110 ~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~-~~k~~~C~-C~k~f~~~~~L~~H~~ 187 (241)
+| |+.|...+-|+.|+++|||||||.|..|+|.|..+++|+.||++| +.|.|.|. |+|.|...+-|.+|..
T Consensus 192 iC-------GKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~E 264 (279)
T KOG2462|consen 192 IC-------GKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSE 264 (279)
T ss_pred cc-------cccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhh
Confidence 99 999999999999999999999999999999999999999999995 78999999 9999999999999987
Q ss_pred hc
Q 026210 188 FC 189 (241)
Q Consensus 188 ~~ 189 (241)
.-
T Consensus 265 S~ 266 (279)
T KOG2462|consen 265 SA 266 (279)
T ss_pred hc
Confidence 53
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.91 E-value=1.7e-24 Score=167.67 Aligned_cols=114 Identities=22% Similarity=0.509 Sum_probs=104.5
Q ss_pred CCCCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCc
Q 026210 60 LATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEK 139 (241)
Q Consensus 60 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek 139 (241)
.....|+|..||+.+.+.++|.+|.++|..- ..++.+.|.+| ++.|.....|+.|+++|+ -
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~----------~s~ka~~C~~C-------~K~YvSmpALkMHirTH~--l 186 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQTHRSL----------DSKKAFSCKYC-------GKVYVSMPALKMHIRTHT--L 186 (279)
T ss_pred ccCCceeccccccccccccccchhhcccccc----------cccccccCCCC-------CceeeehHHHhhHhhccC--C
Confidence 3556899999999999999999999999621 14678999999 999999999999999997 6
Q ss_pred eeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcchHHHHHHhccCc
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
+++|.+|||.|.+...|+.|+|+ +|||||.|. |+|.|...++|+.||++|..+
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~ 241 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDV 241 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCC
Confidence 79999999999999999999999 799999999 999999999999999999764
No 3
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.86 E-value=9.1e-22 Score=145.52 Aligned_cols=117 Identities=24% Similarity=0.560 Sum_probs=107.4
Q ss_pred ccCCCCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccC
Q 026210 58 TLLATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHG 137 (241)
Q Consensus 58 ~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ 137 (241)
+......|.|.+|+|.|.....|.+|++.|. ..+.|.|..| ++.|.+...|++|+++|+|
T Consensus 111 sssd~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~c-------gkgfndtfdlkrh~rthtg 170 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTFC-------GKGFNDTFDLKRHTRTHTG 170 (267)
T ss_pred CCCCCCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhhc-------cCcccchhhhhhhhccccC
Confidence 3345678999999999999999999999998 7789999999 9999999999999999999
Q ss_pred CceeecccccccccchhhHHHHHHH-hC-----------CcceecC-CCCCcCCcchHHHHHHhccCchh
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKT-CG-----------TREYKCD-CGTIFSRRDSFITHRAFCDALAE 194 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~-~~-----------~k~~~C~-C~k~f~~~~~L~~H~~~~~~~~~ 194 (241)
.+||+|..|+|.|.++-.|..|.+. || +|.|.|+ ||..-.....+..|++.||....
T Consensus 171 vrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 171 VRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred ccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCCCCH
Confidence 9999999999999999999999987 75 4779999 99999999999999999997543
No 4
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.75 E-value=1.1e-19 Score=158.78 Aligned_cols=80 Identities=21% Similarity=0.503 Sum_probs=73.1
Q ss_pred cccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHHhCCcc-----eecC----CCCC
Q 026210 105 VYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTRE-----YKCD----CGTI 175 (241)
Q Consensus 105 ~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~-----~~C~----C~k~ 175 (241)
+.+|-+| .+.+.-.+.|+.|.++|+|||||+|.+||+.|.++.+|+.||-.|..++ |.|. |-+.
T Consensus 605 PNqCiiC-------~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R~q~ScP~~~ic~~k 677 (958)
T KOG1074|consen 605 PNQCIIC-------LRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKPPARVQFSCPSTFICQKK 677 (958)
T ss_pred ccceeee-------eecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCccccccccCCchhhhccc
Confidence 4689999 9999999999999999999999999999999999999999999986654 7774 8899
Q ss_pred cCCcchHHHHHHhccC
Q 026210 176 FSRRDSFITHRAFCDA 191 (241)
Q Consensus 176 f~~~~~L~~H~~~~~~ 191 (241)
|...-.|..|+++|.+
T Consensus 678 ftn~V~lpQhIriH~~ 693 (958)
T KOG1074|consen 678 FTNAVTLPQHIRIHLG 693 (958)
T ss_pred ccccccccceEEeecC
Confidence 9999999999999974
No 5
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.73 E-value=1.6e-18 Score=151.62 Aligned_cols=60 Identities=23% Similarity=0.500 Sum_probs=54.5
Q ss_pred eecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcchHHHHHHhccCchhhhcccC
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRDSFITHRAFCDALAEESARTR 200 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~~~~~~~~~ 200 (241)
..|.+||+.|...+.|..|+++ +|+|+|.|. |++.|..+..|+.||.+|+-....+.++.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg~KPF~C~fC~~aFttrgnLKvHMgtH~w~q~~srrG~ 941 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTGPKPFFCHFCEEAFTTRGNLKVHMGTHMWVQPPSRRGP 941 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCCCCCccchhhhhhhhhhhhhhhhhccccccCCCccCCC
Confidence 4699999999999999999999 699999999 99999999999999999998866666533
No 6
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.68 E-value=1.6e-17 Score=143.29 Aligned_cols=111 Identities=21% Similarity=0.520 Sum_probs=98.8
Q ss_pred CccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhcccc-------
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKH------- 136 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~------- 136 (241)
...|.+|.+.+.+...|+.|++..+. ..+.-|.|..| ...|.+...|.+||.+|.
T Consensus 210 lltcpycdrgykrltslkeHikyrhe-----------kne~nfsC~lC-------sytFAyRtQLErhm~~hkpg~dqa~ 271 (1007)
T KOG3623|consen 210 LLTCPYCDRGYKRLTSLKEHIKYRHE-----------KNEPNFSCMLC-------SYTFAYRTQLERHMQLHKPGGDQAI 271 (1007)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHh-----------hCCCCCcchhh-------hhhhhhHHHHHHHHHhhcCCCcccc
Confidence 47899999999999999999886541 14567899999 999999999999999885
Q ss_pred ------CCceeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcchHHHHHHhccCc
Q 026210 137 ------GEKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 137 ------~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
+.|.|+|.+|||.|..+..|+.|+|+ .|||||.|. |+|+|....++..||-....+
T Consensus 272 sltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSSKKCI 335 (1007)
T KOG3623|consen 272 SLTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSSKKCI 335 (1007)
T ss_pred cccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccccchh
Confidence 24789999999999999999999999 599999999 999999999999999876655
No 7
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.62 E-value=5.1e-17 Score=129.78 Aligned_cols=147 Identities=16% Similarity=0.256 Sum_probs=114.7
Q ss_pred CCCCCCCccccccCccccCCCCCccccccccccCChhHHHHHhhhcCC----Cchhhhcch-----------hhhcCccc
Q 026210 42 PGMPDPDSEVIALSPKTLLATNRFVCEICNKGFQRDQNLQLHRRGHNL----PWKLKQRNS-----------KEVRKKVY 106 (241)
Q Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~----~~~~~~~~~-----------~~~~~~~~ 106 (241)
+.....+...+..|.++|.+++...|+.||..|.+...|-.|++..+. ++.|..... .......|
T Consensus 185 Ct~~~~~k~~LreH~r~Hs~eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~y 264 (467)
T KOG3608|consen 185 CTKHMGNKYRLREHIRTHSNEKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCY 264 (467)
T ss_pred hhhhhccHHHHHHHHHhcCCCeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcc
Confidence 344556777888999999999999999999999999999999876652 222322111 11234678
Q ss_pred cCCCCCcccCCCCCcCCChhhHhhhhcc-ccCCceeecccccccccchhhHHHHHHHhCCcceecC---CCCCcCCcchH
Q 026210 107 VCPESTCVHHNPARALGDLTGIKKHFSR-KHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD---CGTIFSRRDSF 182 (241)
Q Consensus 107 ~C~~C~c~~~~~~~~f~~~~~l~~H~~~-h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~---C~k~f~~~~~L 182 (241)
+|+.| .......+.|..|++. |...|||+|+.|++.|.+.+.|.+|..+|.+-.|.|+ |...|++...|
T Consensus 265 kCplC-------dmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~ 337 (467)
T KOG3608|consen 265 KCPLC-------DMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQM 337 (467)
T ss_pred ccccc-------ccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHH
Confidence 88888 7888888888888774 6678899999999999999999999888887889995 99999999999
Q ss_pred HHHHHhccCchhh
Q 026210 183 ITHRAFCDALAEE 195 (241)
Q Consensus 183 ~~H~~~~~~~~~~ 195 (241)
++|++.+|....+
T Consensus 338 ~~H~~evhEg~np 350 (467)
T KOG3608|consen 338 RRHFLEVHEGNNP 350 (467)
T ss_pred HHHHHHhccCCCC
Confidence 9998888754443
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.60 E-value=2e-16 Score=136.73 Aligned_cols=78 Identities=23% Similarity=0.602 Sum_probs=50.5
Q ss_pred CccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcc
Q 026210 103 KKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRD 180 (241)
Q Consensus 103 ~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~ 180 (241)
...|.|+.| ++.|...+.|.+|.--|+|.|||+|.+|.|.|..+..|..|+|. .|||||.|+ |+|+|....
T Consensus 892 ~gmyaCDqC-------DK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHSG 964 (1007)
T KOG3623|consen 892 DGMYACDQC-------DKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHSG 964 (1007)
T ss_pred cccchHHHH-------HHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhccccc
Confidence 455666666 66666666666666666666666666666666666666666666 366666666 666666666
Q ss_pred hHHHHHH
Q 026210 181 SFITHRA 187 (241)
Q Consensus 181 ~L~~H~~ 187 (241)
++..||.
T Consensus 965 SYSQHMN 971 (1007)
T KOG3623|consen 965 SYSQHMN 971 (1007)
T ss_pred chHhhhc
Confidence 6666654
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.57 E-value=1.2e-15 Score=121.94 Aligned_cols=154 Identities=21% Similarity=0.307 Sum_probs=120.6
Q ss_pred CCCCCCCCCCccccccCc--cccCCCCCccccccccccCChhHHHHHhhhcCCCchhhhc--------------chhhhc
Q 026210 39 RNLPGMPDPDSEVIALSP--KTLLATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQR--------------NSKEVR 102 (241)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~--------------~~~~~~ 102 (241)
+..++.-+.....+..|. ++....++|.|.+|.|.|.+...|+.|+..|...++|... .-.+..
T Consensus 210 Cp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~ 289 (467)
T KOG3608|consen 210 CPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSK 289 (467)
T ss_pred cchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhcc
Confidence 344444444555555553 3455667899999999999999999998888654443211 112346
Q ss_pred CccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeeccc--ccccccchhhHHHHHHH-h-C--CcceecC-CCCC
Q 026210 103 KKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCER--CSKKYAVQSDWKAHMKT-C-G--TREYKCD-CGTI 175 (241)
Q Consensus 103 ~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~--C~k~f~~~~~L~~H~~~-~-~--~k~~~C~-C~k~ 175 (241)
.++|+|+.| .+.|...+.|.+|..+|. +-.|.|.. |...|....+|++|++. | | .-+|.|- |++.
T Consensus 290 dkpfKCd~C-------d~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~np~~Y~CH~Cdr~ 361 (467)
T KOG3608|consen 290 DKPFKCDEC-------DTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNNPILYACHCCDRF 361 (467)
T ss_pred CCCccccch-------hhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHHHHHHHHHHHhccCCCCCceeeecchhh
Confidence 799999999 999999999999999998 78899988 99999999999999998 6 3 3579999 9999
Q ss_pred cCCcchHHHHHHhccCchhhhcccC
Q 026210 176 FSRRDSFITHRAFCDALAEESARTR 200 (241)
Q Consensus 176 f~~~~~L~~H~~~~~~~~~~~~~~~ 200 (241)
|.+-.+|..|++..|+..-++.-.+
T Consensus 362 ft~G~~L~~HL~kkH~f~~PsGh~R 386 (467)
T KOG3608|consen 362 FTSGKSLSAHLMKKHGFRLPSGHKR 386 (467)
T ss_pred hccchhHHHHHHHhhcccCCCCCCc
Confidence 9999999999999998876665433
No 10
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.54 E-value=1.4e-15 Score=112.94 Aligned_cols=110 Identities=23% Similarity=0.410 Sum_probs=99.4
Q ss_pred CccccCCCCCCCCCCCccccccCccccCCCCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCC
Q 026210 33 PTQKKKRNLPGMPDPDSEVIALSPKTLLATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPEST 112 (241)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~ 112 (241)
......+..|+..+.-...+.+|.+-|...+.|-|..||+.|.+...|++|+++|+ +-++|+|..|
T Consensus 114 d~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rtht-------------gvrpykc~~c- 179 (267)
T KOG3576|consen 114 DQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHT-------------GVRPYKCSLC- 179 (267)
T ss_pred CCCeeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhcccc-------------Cccccchhhh-
Confidence 34555778888888888889999999999999999999999999999999999999 8999999999
Q ss_pred cccCCCCCcCCChhhHhhhhccccC-----------CceeecccccccccchhhHHHHHHH
Q 026210 113 CVHHNPARALGDLTGIKKHFSRKHG-----------EKKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 113 c~~~~~~~~f~~~~~l~~H~~~h~~-----------ek~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
++.|.+...|..|.+.-+| +|.|.|+.||.+-.....+..|++.
T Consensus 180 ------~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~ 234 (267)
T KOG3576|consen 180 ------EKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKL 234 (267)
T ss_pred ------hHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHh
Confidence 9999999999999875443 5789999999999999999999998
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.41 E-value=4.6e-13 Score=116.18 Aligned_cols=105 Identities=21% Similarity=0.444 Sum_probs=90.0
Q ss_pred CCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCcee
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKY 141 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~ 141 (241)
++.+.|+.|++.|. ...|..|++.|+ +++.|+ | ++.+ ....|..|+.+|..++++
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H---------------kpv~Cp-C-------g~~~-~R~~L~~H~~thCp~Kpi 505 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH---------------EPLQCP-C-------GVVL-EKEQMVQHQASTCPLRLI 505 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC---------------CCccCC-C-------CCCc-chhHHHhhhhccCCCCce
Confidence 45678999999996 678999999875 679999 8 7655 668999999999999999
Q ss_pred ecccccccccc----------hhhHHHHHHHhCCcceecC-CCCCcCCcchHHHHHHhccCc
Q 026210 142 KCERCSKKYAV----------QSDWKAHMKTCGTREYKCD-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 142 ~C~~C~k~f~~----------~~~L~~H~~~~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
.|..|++.|.. ...|..|+..+|.+++.|. |++.|+.+ .|..|+...|..
T Consensus 506 ~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~~ 566 (567)
T PLN03086 506 TCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQK 566 (567)
T ss_pred eCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhcC
Confidence 99999999952 4589999999999999999 99999765 689999887753
No 12
>PHA00733 hypothetical protein
Probab=99.30 E-value=2.1e-12 Score=92.23 Aligned_cols=82 Identities=16% Similarity=0.310 Sum_probs=68.0
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhh------hhccccCCceeecccccccccchhhHHHHHHHhCCcceecC-CCC
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKK------HFSRKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGT 174 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~------H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k 174 (241)
..+.+.|.+| ...|.....|.. |+. +.++++|.|..||+.|.....|..|++.+ +.+|.|. |++
T Consensus 37 ~~~~~~~~~~-------~~~~~~~~~l~~~~~l~~~~~-~~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK 107 (128)
T PHA00733 37 EQKRLIRAVV-------KTLIYNPQLLDESSYLYKLLT-SKAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGK 107 (128)
T ss_pred hhhhHHHHHH-------hhhccChhhhcchHHHHhhcc-cCCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCC
Confidence 4678899998 666665554444 433 34589999999999999999999999975 4679999 999
Q ss_pred CcCCcchHHHHHHhccCc
Q 026210 175 IFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 175 ~f~~~~~L~~H~~~~~~~ 192 (241)
.|.....|.+|+...|++
T Consensus 108 ~F~~~~sL~~H~~~~h~~ 125 (128)
T PHA00733 108 EFRNTDSTLDHVCKKHNI 125 (128)
T ss_pred ccCCHHHHHHHHHHhcCc
Confidence 999999999999999875
No 13
>PHA00733 hypothetical protein
Probab=99.12 E-value=5.3e-11 Score=85.06 Aligned_cols=96 Identities=16% Similarity=0.187 Sum_probs=75.5
Q ss_pred cccccCccccCCCCCccccccccccCChhHHHHH--hhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhh
Q 026210 50 EVIALSPKTLLATNRFVCEICNKGFQRDQNLQLH--RRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTG 127 (241)
Q Consensus 50 ~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H--~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~ 127 (241)
+.+..........+++.|.+|.+.|.....|..| ++.|. .....++|.|..| ++.|.....
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~----------~~~~~kPy~C~~C-------gk~Fss~s~ 88 (128)
T PHA00733 26 EELKRYHSLTPEQKRLIRAVVKTLIYNPQLLDESSYLYKLL----------TSKAVSPYVCPLC-------LMPFSSSVS 88 (128)
T ss_pred HHhhhhhcCChhhhhHHHHHHhhhccChhhhcchHHHHhhc----------ccCCCCCccCCCC-------CCcCCCHHH
Confidence 3444444444567899999999999887777665 22221 0015789999999 999999999
Q ss_pred HhhhhccccCCceeecccccccccchhhHHHHHHH-hC
Q 026210 128 IKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKT-CG 164 (241)
Q Consensus 128 l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~-~~ 164 (241)
|..|++.| +.+|.|.+|++.|.....|..|+.. |+
T Consensus 89 L~~H~r~h--~~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 89 LKQHIRYT--EHSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred HHHHHhcC--CcCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 99999987 4579999999999999999999998 75
No 14
>PHA02768 hypothetical protein; Provisional
Probab=99.07 E-value=6.6e-11 Score=70.10 Aligned_cols=42 Identities=24% Similarity=0.559 Sum_probs=32.2
Q ss_pred eecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCcchHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRRDSFI 183 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~~~L~ 183 (241)
|.|++||+.|.+.+.|..|+++|. ++|+|. |++.|.+.+.|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r~H~-k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLRKHN-TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred cCcchhCCeeccHHHHHHHHHhcC-CcccCCcccceecccceeE
Confidence 678888888888888888888865 677887 888887776654
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.97 E-value=4.8e-11 Score=97.99 Aligned_cols=151 Identities=15% Similarity=0.178 Sum_probs=110.3
Q ss_pred cccCCCCCCCCCCCccccccCccccCCCCCccccccccccCChhHHHHHhhhcCCCchhh--------hc----------
Q 026210 35 QKKKRNLPGMPDPDSEVIALSPKTLLATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLK--------QR---------- 96 (241)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~--------~~---------- 96 (241)
.+.-|++|.....|.-.+..|...-.-.--|+|++|+|.|+...||..|.|+|....... +.
T Consensus 266 GdyiCqLCK~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~rae~~ea 345 (500)
T KOG3993|consen 266 GDYICQLCKEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVETRAEVQEA 345 (500)
T ss_pred HHHHHHHHHHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhhhhhhhhc
Confidence 334557777777888888888776666667999999999999999999999996221111 00
Q ss_pred --chhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCc-----------------------------------
Q 026210 97 --NSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEK----------------------------------- 139 (241)
Q Consensus 97 --~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek----------------------------------- 139 (241)
.........|.|.+| ++.|.....|++|+.+|...-
T Consensus 346 ~rsg~dss~gi~~C~~C-------~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~a~h~~a~~~~g 418 (500)
T KOG3993|consen 346 ERSGDDSSSGIFSCHTC-------GKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAVATHSSASDSHG 418 (500)
T ss_pred cccCCcccCceeecHHh-------hhhhHHHHHHHHhHHhhhccccchhcccCcchhhcccccccccccccccccccccc
Confidence 111123347999999 999999999999988875210
Q ss_pred -----------eeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcchHHHHHHhccCc
Q 026210 140 -----------KYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 140 -----------~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
...|..|+-.+..+..--.|.+. +-+..|.|. |.-.|.....|.+|+...|..
T Consensus 419 ~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky~~atfyss~~ltrhin~~Hps 484 (500)
T KOG3993|consen 419 DEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKYCPATFYSSPGLTRHINKCHPS 484 (500)
T ss_pred cceeeeeccccccCCCCCCCCcccCCCCCccccccchhhccccccchHhhhcCcchHhHhhhcChH
Confidence 01356666666666555555555 566779999 999999999999999998854
No 16
>PHA02768 hypothetical protein; Provisional
Probab=98.81 E-value=1.3e-09 Score=64.58 Aligned_cols=44 Identities=14% Similarity=0.317 Sum_probs=40.1
Q ss_pred cccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHH
Q 026210 105 VYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWK 157 (241)
Q Consensus 105 ~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~ 157 (241)
-|.|++| ++.|.....|..|+++|+ ++|+|..|++.|.+.+.|.
T Consensus 5 ~y~C~~C-------GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPIC-------GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcchh-------CCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 4799999 999999999999999998 7899999999999887653
No 17
>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=98.77 E-value=2.9e-09 Score=53.98 Aligned_cols=26 Identities=35% Similarity=0.875 Sum_probs=21.2
Q ss_pred hHhhhhccccCCceeecccccccccc
Q 026210 127 GIKKHFSRKHGEKKYKCERCSKKYAV 152 (241)
Q Consensus 127 ~l~~H~~~h~~ek~~~C~~C~k~f~~ 152 (241)
+|..|+++|+++++|.|.+|++.|.+
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 47788888888888888888888863
No 18
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.76 E-value=1.1e-08 Score=89.23 Aligned_cols=113 Identities=19% Similarity=0.364 Sum_probs=81.8
Q ss_pred CccccccccccCChhHHHHHhhhcCC-Cc-----hhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccC
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHNL-PW-----KLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHG 137 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~~-~~-----~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ 137 (241)
.-.|..|.+.... .+|..|...-.. .. .|.........++.+.|..| ++.|. ...|..|+..|+
T Consensus 407 ~V~C~NC~~~i~l-~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~C-------gk~f~-~s~LekH~~~~H- 476 (567)
T PLN03086 407 TVECRNCKHYIPS-RSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKC-------GQAFQ-QGEMEKHMKVFH- 476 (567)
T ss_pred eEECCCCCCccch-hHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCC-------CCccc-hHHHHHHHHhcC-
Confidence 3468888876544 556777643220 01 12222223335677899999 88885 678999999986
Q ss_pred CceeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCC----------cchHHHHHHhc
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSR----------RDSFITHRAFC 189 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~----------~~~L~~H~~~~ 189 (241)
+++.|. ||+.| .+..|..|+++ ..++++.|. |++.|.. .+.|..|...+
T Consensus 477 -kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 477 -EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred -CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc
Confidence 789999 99765 66899999988 689999999 9999952 35788998875
No 19
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.69 E-value=5.8e-09 Score=85.97 Aligned_cols=113 Identities=14% Similarity=0.340 Sum_probs=75.7
Q ss_pred CccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceee-
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYK- 142 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~- 142 (241)
-|.|..|...|.+...|.+|.-... ....|+|++| ++.|.-..+|..|.++|.-..--.
T Consensus 267 dyiCqLCK~kYeD~F~LAQHrC~RI-------------V~vEYrCPEC-------~KVFsCPANLASHRRWHKPR~eaa~ 326 (500)
T KOG3993|consen 267 DYICQLCKEKYEDAFALAQHRCPRI-------------VHVEYRCPEC-------DKVFSCPANLASHRRWHKPRPEAAK 326 (500)
T ss_pred HHHHHHHHHhhhhHHHHhhccCCee-------------EEeeecCCcc-------cccccCchhhhhhhcccCCchhhhh
Confidence 4899999999999999999965443 4567999999 999999999999999996321100
Q ss_pred cc-cc-cccccchhhHHHHHHH---hCCcceecC-CCCCcCCcchHHHHHHhccCchhhh
Q 026210 143 CE-RC-SKKYAVQSDWKAHMKT---CGTREYKCD-CGTIFSRRDSFITHRAFCDALAEES 196 (241)
Q Consensus 143 C~-~C-~k~f~~~~~L~~H~~~---~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~~~~~ 196 (241)
-. .= .+.-......+.-.|. ..+..|.|. |+|.|++...|++|+.+|+......
T Consensus 327 a~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k 386 (500)
T KOG3993|consen 327 AGSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAK 386 (500)
T ss_pred cCCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccch
Confidence 00 00 0000011111111111 123479999 9999999999999999887654443
No 20
>PHA00732 hypothetical protein
Probab=98.40 E-value=1.6e-07 Score=61.06 Aligned_cols=45 Identities=27% Similarity=0.508 Sum_probs=27.4
Q ss_pred cccCCCCCcccCCCCCcCCChhhHhhhhcc-ccCCceeecccccccccchhhHHHHHHH
Q 026210 105 VYVCPESTCVHHNPARALGDLTGIKKHFSR-KHGEKKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 105 ~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~-h~~ek~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
+|.|..| ++.|.....|..|++. |.+ +.|..||+.|. .|..|+++
T Consensus 1 py~C~~C-------gk~F~s~s~Lk~H~r~~H~~---~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPIC-------GFTTVTLFALKQHARRNHTL---TKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCCC-------CCccCCHHHHHHHhhcccCC---CccCCCCCEeC---Chhhhhcc
Confidence 3566666 6666666666666663 432 46666666665 35566654
No 21
>PHA00616 hypothetical protein
Probab=98.40 E-value=1.3e-07 Score=53.35 Aligned_cols=32 Identities=16% Similarity=0.428 Sum_probs=22.1
Q ss_pred eeecccccccccchhhHHHHHHH-hCCcceecC
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD 171 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~ 171 (241)
+|.|..||+.|..++.|..|++. ||++++.|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~~~~~~~ 33 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQNKLTLE 33 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCCCcccee
Confidence 46677777777777777777776 677766664
No 22
>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=98.38 E-value=1.9e-07 Score=47.30 Aligned_cols=24 Identities=46% Similarity=1.041 Sum_probs=21.5
Q ss_pred hHHHHHHH-hCCcceecC-CCCCcCC
Q 026210 155 DWKAHMKT-CGTREYKCD-CGTIFSR 178 (241)
Q Consensus 155 ~L~~H~~~-~~~k~~~C~-C~k~f~~ 178 (241)
+|.+|+++ +|+|+|.|+ |++.|.+
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 58899999 699999999 9999964
No 23
>PHA00616 hypothetical protein
Probab=98.28 E-value=2.9e-07 Score=51.96 Aligned_cols=34 Identities=12% Similarity=0.252 Sum_probs=30.6
Q ss_pred CccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCC
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPE 110 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~ 110 (241)
+|+|..||+.|....+|..|++.|+ +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h-------------g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH-------------KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc-------------CCCccceeE
Confidence 5899999999999999999999999 778887754
No 24
>PHA00732 hypothetical protein
Probab=98.16 E-value=1.8e-06 Score=56.13 Aligned_cols=49 Identities=22% Similarity=0.429 Sum_probs=40.0
Q ss_pred CccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccC
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHG 137 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ 137 (241)
+|.|..||+.|.+..+|..|++.++ . .+.|+.| ++.|. .|..|..++..
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H-------------~--~~~C~~C-------gKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNH-------------T--LTKCPVC-------NKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhccc-------------C--CCccCCC-------CCEeC---ChhhhhcccCC
Confidence 5899999999999999999998533 1 2579999 89987 57888876654
No 25
>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=98.06 E-value=5.6e-06 Score=49.91 Aligned_cols=47 Identities=19% Similarity=0.440 Sum_probs=27.8
Q ss_pred eecccccccccchhhHHHHHHH-hC--CcceecC-CCCCcCCcchHHHHHHhcc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT-CG--TREYKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~-~~--~k~~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
|.|++|++. .....|..|... |. .+.+.|. |...+.. +|..|+..+|
T Consensus 3 f~CP~C~~~-~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~~--~l~~Hl~~~H 53 (54)
T PF05605_consen 3 FTCPYCGKG-FSESSLVEHCEDEHRSESKNVVCPICSSRVTD--NLIRHLNSQH 53 (54)
T ss_pred cCCCCCCCc-cCHHHHHHHHHhHCcCCCCCccCCCchhhhhh--HHHHHHHHhc
Confidence 566666663 334566666665 52 2456666 6665442 6667766655
No 26
>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=98.03 E-value=2.5e-06 Score=41.79 Aligned_cols=23 Identities=43% Similarity=0.908 Sum_probs=21.4
Q ss_pred ccccccccccCChhHHHHHhhhc
Q 026210 65 FVCEICNKGFQRDQNLQLHRRGH 87 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~h 87 (241)
|.|+.|++.|....+|..|++.|
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 78999999999999999999864
No 27
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.99 E-value=1.9e-06 Score=68.97 Aligned_cols=51 Identities=33% Similarity=0.692 Sum_probs=43.7
Q ss_pred CCceeeccc--ccccccchhhHHHHHHH-h-------------------CCcceecC-CCCCcCCcchHHHHHH
Q 026210 137 GEKKYKCER--CSKKYAVQSDWKAHMKT-C-------------------GTREYKCD-CGTIFSRRDSFITHRA 187 (241)
Q Consensus 137 ~ek~~~C~~--C~k~f~~~~~L~~H~~~-~-------------------~~k~~~C~-C~k~f~~~~~L~~H~~ 187 (241)
++|||+|.+ |.|.|.....|+.|+.. | ..|||+|+ |+|+|.....|+-|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 468999976 99999999999999876 5 24899999 9999999999998865
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=97.93 E-value=8.5e-06 Score=39.84 Aligned_cols=21 Identities=43% Similarity=0.964 Sum_probs=10.9
Q ss_pred eecccccccccchhhHHHHHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMK 161 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~ 161 (241)
|.|..|++.|.+...|..|++
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 345555555555555555554
No 29
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=97.84 E-value=1.9e-05 Score=47.53 Aligned_cols=23 Identities=30% Similarity=0.641 Sum_probs=13.8
Q ss_pred CccccccccccCChhHHHHHhhhc
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGH 87 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h 87 (241)
.|.|++|++. .+...|..|....
T Consensus 2 ~f~CP~C~~~-~~~~~L~~H~~~~ 24 (54)
T PF05605_consen 2 SFTCPYCGKG-FSESSLVEHCEDE 24 (54)
T ss_pred CcCCCCCCCc-cCHHHHHHHHHhH
Confidence 4667777773 3455677775443
No 30
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.82 E-value=4.8e-06 Score=66.68 Aligned_cols=56 Identities=34% Similarity=0.686 Sum_probs=48.3
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhcccc-------------------CCceeecccccccccchhhHHHHHHH
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKH-------------------GEKKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~-------------------~ek~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
.+++|+|++-+| .+.|.....|+-|++.-+ ..|||+|++|+|+|.....|+.|+..
T Consensus 346 d~KpykCpV~gC-----~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~H 420 (423)
T COG5189 346 DGKPYKCPVEGC-----NKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRKH 420 (423)
T ss_pred cCceecCCCCCc-----hhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceecccc
Confidence 459999999988 999999999999986422 24899999999999999999998764
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=97.75 E-value=1.6e-05 Score=39.09 Aligned_cols=22 Identities=23% Similarity=0.661 Sum_probs=9.9
Q ss_pred eecC-CCCCcCCcchHHHHHHhc
Q 026210 168 YKCD-CGTIFSRRDSFITHRAFC 189 (241)
Q Consensus 168 ~~C~-C~k~f~~~~~L~~H~~~~ 189 (241)
|.|+ |++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 3454 555555555555555444
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=97.69 E-value=1.5e-05 Score=40.66 Aligned_cols=24 Identities=29% Similarity=0.671 Sum_probs=14.9
Q ss_pred ceecC-CCCCcCCcchHHHHHHhcc
Q 026210 167 EYKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 167 ~~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
+|.|. |++.|.+...|..|++.|+
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 35666 6666666666666666554
No 33
>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=97.66 E-value=2.9e-05 Score=39.53 Aligned_cols=25 Identities=36% Similarity=0.711 Sum_probs=23.3
Q ss_pred CccccccccccCChhHHHHHhhhcC
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
+|.|..|++.|.....|..|++.|.
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 5899999999999999999998875
No 34
>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=97.66 E-value=2.6e-05 Score=38.29 Aligned_cols=24 Identities=42% Similarity=0.901 Sum_probs=20.1
Q ss_pred ccccccccccCChhHHHHHhhhcC
Q 026210 65 FVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
|.|++|++.|.+...|..|++.|+
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 689999999999999999998763
No 35
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.63 E-value=3.9e-05 Score=52.35 Aligned_cols=72 Identities=18% Similarity=0.459 Sum_probs=18.1
Q ss_pred cccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeeccc
Q 026210 66 VCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCER 145 (241)
Q Consensus 66 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~ 145 (241)
+|..|+..|.....|..|+...+ +-. .. . ...+.....+..+.+... ...+.|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H-------------~~~-~~--~--------~~~l~~~~~~~~~~~~~~-~~~~~C~~ 55 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKH-------------GFD-IP--D--------QKYLVDPNRLLNYLRKKV-KESFRCPY 55 (100)
T ss_dssp -------------------------------------------------------------------------SSEEBSS
T ss_pred Ccccccccccccccccccccccc-------------ccc-cc--c--------cccccccccccccccccc-CCCCCCCc
Confidence 48888888888888888886544 111 00 0 111112222333332221 22578888
Q ss_pred ccccccchhhHHHHHHH
Q 026210 146 CSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 146 C~k~f~~~~~L~~H~~~ 162 (241)
|++.|.....|..|++.
T Consensus 56 C~~~f~s~~~l~~Hm~~ 72 (100)
T PF12756_consen 56 CNKTFRSREALQEHMRS 72 (100)
T ss_dssp SS-EESSHHHHHHHHHH
T ss_pred cCCCCcCHHHHHHHHcC
Confidence 88888888888888876
No 36
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.53 E-value=4.8e-05 Score=51.89 Aligned_cols=73 Identities=15% Similarity=0.293 Sum_probs=21.7
Q ss_pred cCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCcchHHHH
Q 026210 107 VCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRRDSFITH 185 (241)
Q Consensus 107 ~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~~~L~~H 185 (241)
+|..| +..|.....|..|+...++...- ....+.....+..+.+..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~C-------~~~f~~~~~l~~H~~~~H~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLFC-------DESFSSVDDLLQHMKKKHGFDIP----DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Ccccc-------ccccccccccccccccccccccc----cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 47888 88999999999999776653211 11222244444445444333479999 99999999999999
Q ss_pred HHhcc
Q 026210 186 RAFCD 190 (241)
Q Consensus 186 ~~~~~ 190 (241)
++.++
T Consensus 70 m~~~~ 74 (100)
T PF12756_consen 70 MRSKH 74 (100)
T ss_dssp HHHTT
T ss_pred HcCcc
Confidence 99763
No 37
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00023 Score=63.49 Aligned_cols=40 Identities=20% Similarity=0.370 Sum_probs=25.2
Q ss_pred CCcCCChhhHhhhhccccCCceeecccc------cccccchhhHHHHHHH
Q 026210 119 ARALGDLTGIKKHFSRKHGEKKYKCERC------SKKYAVQSDWKAHMKT 162 (241)
Q Consensus 119 ~~~f~~~~~l~~H~~~h~~ek~~~C~~C------~k~f~~~~~L~~H~~~ 162 (241)
...|.....|.+|++.++ |.|..| +..|.....|..|.+.
T Consensus 189 ~~~fld~~el~rH~~~~h----~~chfC~~~~~~neyy~~~~dLe~HfR~ 234 (669)
T KOG2231|consen 189 HERFLDDDELYRHLRFDH----EFCHFCDYKTGQNEYYNDYDDLEEHFRK 234 (669)
T ss_pred hhhhccHHHHHHhhccce----eheeecCcccccchhcccchHHHHHhhh
Confidence 666666667777766554 445555 3456666777777776
No 38
>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=97.15 E-value=0.00048 Score=39.85 Aligned_cols=31 Identities=13% Similarity=0.294 Sum_probs=21.2
Q ss_pred CCceeecccccccccchhhHHHHHHH-hCCcc
Q 026210 137 GEKKYKCERCSKKYAVQSDWKAHMKT-CGTRE 167 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~ 167 (241)
.+.|-.|.+|+..+.+..+|++|+.. |+.||
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 46788999999999999999999987 87765
No 39
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.10 E-value=0.00033 Score=34.78 Aligned_cols=24 Identities=33% Similarity=0.670 Sum_probs=21.9
Q ss_pred ccccccccccCChhHHHHHhhhcC
Q 026210 65 FVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
|.|..|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 689999999999999999998764
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.05 E-value=0.00037 Score=34.61 Aligned_cols=23 Identities=26% Similarity=0.787 Sum_probs=16.6
Q ss_pred eecC-CCCCcCCcchHHHHHHhcc
Q 026210 168 YKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 168 ~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
|.|. |++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 5677 7777777777777777543
No 41
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.98 E-value=0.0013 Score=62.39 Aligned_cols=66 Identities=17% Similarity=0.231 Sum_probs=40.2
Q ss_pred CCCCccccccccccCChhHHHHHhhhcCCCchhhh------------cchhhhcCccccCCCCCcccCCCCCcCCChhhH
Q 026210 61 ATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQ------------RNSKEVRKKVYVCPESTCVHHNPARALGDLTGI 128 (241)
Q Consensus 61 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~------------~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l 128 (241)
-.+.|+|+.|+..|.....|..|||.-+....... ........++|.|..| ...+.....|
T Consensus 462 ~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p~~C~~C-------~~stttng~L 534 (1406)
T KOG1146|consen 462 FFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKPYPCRAC-------NYSTTTNGNL 534 (1406)
T ss_pred ccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCcccceee-------eeeeecchHH
Confidence 34788999999999999999999987331110000 0011123456666666 6666666666
Q ss_pred hhhhc
Q 026210 129 KKHFS 133 (241)
Q Consensus 129 ~~H~~ 133 (241)
..|+.
T Consensus 535 sihlq 539 (1406)
T KOG1146|consen 535 SIHLQ 539 (1406)
T ss_pred HHHHH
Confidence 66654
No 42
>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=96.84 E-value=0.00089 Score=38.78 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=21.2
Q ss_pred CCCCCccccccccccCChhHHHHHhhhcC
Q 026210 60 LATNRFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 60 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
..+.|..|++|+..+.+..+|++|+..++
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H 48 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRH 48 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHh
Confidence 35678999999999999999999998776
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.80 E-value=0.00071 Score=33.55 Aligned_cols=23 Identities=43% Similarity=0.980 Sum_probs=21.1
Q ss_pred ccccccccccCChhHHHHHhhhc
Q 026210 65 FVCEICNKGFQRDQNLQLHRRGH 87 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~h 87 (241)
|.|..|++.|.+...|..|++.+
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 67999999999999999999764
No 44
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=96.67 E-value=0.00091 Score=32.83 Aligned_cols=22 Identities=27% Similarity=0.502 Sum_probs=11.1
Q ss_pred eecC-CCCCcCCcchHHHHHHhcc
Q 026210 168 YKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 168 ~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
|.|. |+.... ...|.+|++.+|
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 4555 555555 555556655554
No 45
>PRK04860 hypothetical protein; Provisional
Probab=96.50 E-value=0.0011 Score=49.18 Aligned_cols=38 Identities=26% Similarity=0.687 Sum_probs=29.1
Q ss_pred ceeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCcc
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRRD 180 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~~ 180 (241)
-+|.|. |++ ....+.+|.++ .++++|.|. |+..|....
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 368887 887 56677888888 577888888 888876543
No 46
>PRK04860 hypothetical protein; Provisional
Probab=96.48 E-value=0.0018 Score=48.05 Aligned_cols=40 Identities=23% Similarity=0.558 Sum_probs=34.3
Q ss_pred ccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchh
Q 026210 104 KVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQS 154 (241)
Q Consensus 104 ~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~ 154 (241)
-+|.|. | +. ....+.+|.++|+++++|.|..|+..|....
T Consensus 118 ~~Y~C~-C-------~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 118 FPYRCK-C-------QE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEcC-C-------CC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 479997 8 65 5677899999999999999999999987654
No 47
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.39 E-value=0.0023 Score=31.61 Aligned_cols=22 Identities=18% Similarity=0.812 Sum_probs=13.2
Q ss_pred eecccccccccchhhHHHHHHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
|.|.+|++.|.....|..|++.
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 4566666666666666666553
No 48
>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=96.37 E-value=0.0013 Score=33.27 Aligned_cols=22 Identities=32% Similarity=0.827 Sum_probs=20.4
Q ss_pred ccccccccccCChhHHHHHhhh
Q 026210 65 FVCEICNKGFQRDQNLQLHRRG 86 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~ 86 (241)
|.|..|++.|.+...|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 7899999999999999999875
No 49
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.33 E-value=0.0035 Score=51.29 Aligned_cols=119 Identities=18% Similarity=0.349 Sum_probs=69.1
Q ss_pred Cccccc--cccccCChhHHHHHhhhcCCCchhhhc----------------------chhhh---c-CccccCCCCCccc
Q 026210 64 RFVCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQR----------------------NSKEV---R-KKVYVCPESTCVH 115 (241)
Q Consensus 64 ~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~~----------------------~~~~~---~-~~~~~C~~C~c~~ 115 (241)
.|.|+. |.........|+.|.+..+...-|... ..... | +..=.|.+|
T Consensus 151 ~F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C~FC---- 226 (493)
T COG5236 151 SFKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFC---- 226 (493)
T ss_pred HhcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhc----
Confidence 377875 777666678899998775422221110 00000 0 112256666
Q ss_pred CCCCCcCCChhhHhhhhccccCCceeeccccc-------ccccchhhHHHHHHHhCCcceecC---CC----CCcCCcch
Q 026210 116 HNPARALGDLTGIKKHFSRKHGEKKYKCERCS-------KKYAVQSDWKAHMKTCGTREYKCD---CG----TIFSRRDS 181 (241)
Q Consensus 116 ~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~-------k~f~~~~~L~~H~~~~~~k~~~C~---C~----k~f~~~~~ 181 (241)
...|-....|..|++..+ | .|.+|+ +.|..-.+|..|.+. -.|.|. |. ..|.+...
T Consensus 227 ---~~~FYdDDEL~~HcR~~H-E---~ChICD~v~p~~~QYFK~Y~~Le~HF~~---~hy~ct~qtc~~~k~~vf~~~~e 296 (493)
T COG5236 227 ---KIYFYDDDELRRHCRLRH-E---ACHICDMVGPIRYQYFKSYEDLEAHFRN---AHYCCTFQTCRVGKCYVFPYHTE 296 (493)
T ss_pred ---cceecChHHHHHHHHhhh-h---hhhhhhccCccchhhhhCHHHHHHHhhc---CceEEEEEEEecCcEEEeccHHH
Confidence 666666677777766544 2 344443 246666677777665 125662 54 45888889
Q ss_pred HHHHHHhccCchhhh
Q 026210 182 FITHRAFCDALAEES 196 (241)
Q Consensus 182 L~~H~~~~~~~~~~~ 196 (241)
|..|+..-|+.....
T Consensus 297 l~~h~~~~h~~~~~~ 311 (493)
T COG5236 297 LLEHLTRFHKVNARL 311 (493)
T ss_pred HHHHHHHHhhccccc
Confidence 999988877765443
No 50
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.29 E-value=0.0014 Score=49.51 Aligned_cols=83 Identities=20% Similarity=0.500 Sum_probs=67.8
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHH-h----------CCcceec
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKT-C----------GTREYKC 170 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~-~----------~~k~~~C 170 (241)
....|.|++-+| .+.|.....+..|..+-++ -.|.+|.+.|.+...|..|+.. | |.-.|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 345688999888 7888888877788765555 4899999999999999999875 5 5567999
Q ss_pred --C-CCCCcCCcchHHHHHHhccCc
Q 026210 171 --D-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 171 --~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
+ |+..|.+...-+.|+-..|+.
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk~ 172 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHKY 172 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhccC
Confidence 4 999999999999998877653
No 51
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=95.91 E-value=0.0087 Score=29.21 Aligned_cols=21 Identities=43% Similarity=0.842 Sum_probs=14.5
Q ss_pred eecccccccccchhhHHHHHHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
|+|..|+.... ...|..|++.
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 67788887776 7778888776
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=95.58 E-value=0.0027 Score=32.09 Aligned_cols=21 Identities=33% Similarity=0.860 Sum_probs=10.3
Q ss_pred eecccccccccchhhHHHHHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMK 161 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~ 161 (241)
|.|..|++.|.+...|..|++
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 345555555555555544443
No 53
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.02 E-value=0.086 Score=47.67 Aligned_cols=103 Identities=22% Similarity=0.420 Sum_probs=57.6
Q ss_pred cccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecc-
Q 026210 66 VCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCE- 144 (241)
Q Consensus 66 ~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~- 144 (241)
.|..|...|.+...|..|++.+ .|.|..|.- -.....-|.....|..|.+.+| |.|.
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~-----------------h~~chfC~~-~~~~neyy~~~~dLe~HfR~~H----flCE~ 241 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFD-----------------HEFCHFCDY-KTGQNEYYNDYDDLEEHFRKGH----FLCEE 241 (669)
T ss_pred cchhhhhhhccHHHHHHhhccc-----------------eeheeecCc-ccccchhcccchHHHHHhhhcC----ccccc
Confidence 3555555555555555555544 356666620 0001667888889999988766 7786
Q ss_pred -ccc-ccccchhhHHHHHH-----HhCCcceecC------C-CCCcCCcchHHHHHHhcc
Q 026210 145 -RCS-KKYAVQSDWKAHMK-----TCGTREYKCD------C-GTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 145 -~C~-k~f~~~~~L~~H~~-----~~~~k~~~C~------C-~k~f~~~~~L~~H~~~~~ 190 (241)
.|- +.|.....+..|++ ...++-|.|. + ...|.....+..|.++-+
T Consensus 242 ~~C~~~~f~~~~~~ei~lk~~~~~~~~e~~~~~~~~r~Gr~s~~~r~~~~~~~~~~~~~~ 301 (669)
T KOG2231|consen 242 EFCRTKKFYVAFELEIELKAHNRFIQHEKCYICRPSRPGRPSSRYRGPYRRLESHFRVSD 301 (669)
T ss_pred cccccceeeehhHHHHHHHhhccccchheeccCCcccCCCCcccccCCcccccccccccc
Confidence 563 44554445555555 3345666662 1 133444445556655544
No 54
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.62 E-value=0.021 Score=49.17 Aligned_cols=61 Identities=23% Similarity=0.374 Sum_probs=49.4
Q ss_pred CCccccccccccCChhHHHHHhh--hcCCCchhhhcchhhhcC--ccccCC--CCCcccCCCCCcCCChhhHhhhhcccc
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRR--GHNLPWKLKQRNSKEVRK--KVYVCP--ESTCVHHNPARALGDLTGIKKHFSRKH 136 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~--~h~~~~~~~~~~~~~~~~--~~~~C~--~C~c~~~~~~~~f~~~~~l~~H~~~h~ 136 (241)
.++.|..|...|.....|..|.+ .|. .+ +++.|. .| ++.|.....+..|...|+
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-------------~~~~~~~~~p~~~~-------~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-------------GESLKPFSCPYSLC-------GKLFSRNDALKRHILLHT 347 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-------------cccCCceeeeccCC-------CccccccccccCCccccc
Confidence 46888899999999999999988 677 66 788888 67 888888888888888888
Q ss_pred CCceeec
Q 026210 137 GEKKYKC 143 (241)
Q Consensus 137 ~ek~~~C 143 (241)
+.+++.|
T Consensus 348 ~~~~~~~ 354 (467)
T COG5048 348 SISPAKE 354 (467)
T ss_pred CCCcccc
Confidence 6655444
No 55
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.60 E-value=0.12 Score=42.62 Aligned_cols=66 Identities=15% Similarity=0.236 Sum_probs=48.6
Q ss_pred ChhhHhhhhccccCCc----eeecccccccccchhhHHHHHHHhCCcceecC-CC----CCcCCcchHHHHHHhc
Q 026210 124 DLTGIKKHFSRKHGEK----KYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CG----TIFSRRDSFITHRAFC 189 (241)
Q Consensus 124 ~~~~l~~H~~~h~~ek----~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~----k~f~~~~~L~~H~~~~ 189 (241)
....|..|...-..+. .-.|..|.+.|..-+.|.+|+|...|+-|.|+ =+ .-|.....|-+|.+.-
T Consensus 200 ~~~~Lr~H~~~G~~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~ 274 (493)
T COG5236 200 RSSTLRDHKNGGLEEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNA 274 (493)
T ss_pred ecccccccccCCccccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcC
Confidence 4556777765433332 23699999999999999999999446767775 33 3488889999998764
No 56
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=94.40 E-value=0.026 Score=48.62 Aligned_cols=53 Identities=21% Similarity=0.291 Sum_probs=45.6
Q ss_pred ccCCCCCCCCCCCccccccCcc--ccCCC--CCcccc--ccccccCChhHHHHHhhhcC
Q 026210 36 KKKRNLPGMPDPDSEVIALSPK--TLLAT--NRFVCE--ICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~--~~~~C~--~C~~~f~~~~~L~~H~~~h~ 88 (241)
...+..+.........+..+.. .|..+ +++.|. .|++.|.....+..|...|.
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 347 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHT 347 (467)
T ss_pred CCCCccccCCccccccccccccccccccccCCceeeeccCCCccccccccccCCccccc
Confidence 4556667777777788888888 79999 999999 79999999999999999887
No 57
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=94.38 E-value=0.058 Score=44.28 Aligned_cols=50 Identities=20% Similarity=0.354 Sum_probs=40.7
Q ss_pred eecccccccccchhhHHHHHHH-hC---------------------------CcceecC-CCCCcCCcchHHHHHHhcc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT-CG---------------------------TREYKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~-~~---------------------------~k~~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
.+|-.|.....+...|..||+. |. .+.-.|. |.-.|-....|..||.-+.
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~cd~~F~~e~~l~~hm~e~k 358 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAECDLSFWKEPGLLIHMVEDK 358 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhccccccccccccCcchhhhhccccc
Confidence 5899999999889999999987 62 1123477 9999999999999997654
No 58
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.20 E-value=0.037 Score=27.37 Aligned_cols=21 Identities=29% Similarity=0.680 Sum_probs=17.1
Q ss_pred ccccccccccCChhHHHHHhhh
Q 026210 65 FVCEICNKGFQRDQNLQLHRRG 86 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~~ 86 (241)
..|+.||+.| ....|..|+.+
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 55779999753
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=94.16 E-value=0.044 Score=27.11 Aligned_cols=19 Identities=26% Similarity=0.632 Sum_probs=9.5
Q ss_pred ecccccccccchhhHHHHHH
Q 026210 142 KCERCSKKYAVQSDWKAHMK 161 (241)
Q Consensus 142 ~C~~C~k~f~~~~~L~~H~~ 161 (241)
.|..||+.| ..+.|.+|+.
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHH
Confidence 455555555 3444555543
No 60
>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=94.07 E-value=0.039 Score=29.50 Aligned_cols=23 Identities=30% Similarity=0.821 Sum_probs=20.8
Q ss_pred CccccccccccCChhHHHHHhhh
Q 026210 64 RFVCEICNKGFQRDQNLQLHRRG 86 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~L~~H~~~ 86 (241)
+|.|++|++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 58899999999999999999865
No 61
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=93.80 E-value=0.031 Score=53.61 Aligned_cols=78 Identities=17% Similarity=0.233 Sum_probs=51.0
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHH-hCCcceecC-CCCCcCCc
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTIFSRR 179 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~f~~~ 179 (241)
..+.|.|+.| ++.|.....|..||+..+-+-.- .+|. .+...-.+.+-... .+.++|.|. |...|..+
T Consensus 462 ~~kt~~cpkc-------~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttn 531 (1406)
T KOG1146|consen 462 FFKTLKCPKC-------NWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTN 531 (1406)
T ss_pred ccccccCCcc-------chhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCCCCcccceeeeeeeecc
Confidence 4578899999 88999999999998874432111 2221 11111111110111 356899999 99999999
Q ss_pred chHHHHHHhc
Q 026210 180 DSFITHRAFC 189 (241)
Q Consensus 180 ~~L~~H~~~~ 189 (241)
..|.+|++..
T Consensus 532 g~LsihlqS~ 541 (1406)
T KOG1146|consen 532 GNLSIHLQSD 541 (1406)
T ss_pred hHHHHHHHHH
Confidence 9999999875
No 62
>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=93.75 E-value=0.044 Score=29.32 Aligned_cols=22 Identities=23% Similarity=0.436 Sum_probs=16.8
Q ss_pred ceecC-CCCCcCCcchHHHHHHh
Q 026210 167 EYKCD-CGTIFSRRDSFITHRAF 188 (241)
Q Consensus 167 ~~~C~-C~k~f~~~~~L~~H~~~ 188 (241)
+|.|+ |++.|.....+..|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 47788 88888877788888765
No 63
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=93.72 E-value=0.016 Score=45.04 Aligned_cols=43 Identities=26% Similarity=0.386 Sum_probs=35.3
Q ss_pred cCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHH
Q 026210 107 VCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHM 160 (241)
Q Consensus 107 ~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~ 160 (241)
-|.+| .+.|.....|..|++. |.|+|.+|.|.+.+--.|..|-
T Consensus 12 wcwyc-------nrefddekiliqhqka----khfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 12 WCWYC-------NREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred eeeec-------ccccchhhhhhhhhhh----ccceeeeehhhhccCCCceeeh
Confidence 38888 8999999999988875 4499999999888877777763
No 64
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=93.34 E-value=0.14 Score=42.81 Aligned_cols=48 Identities=25% Similarity=0.342 Sum_probs=41.2
Q ss_pred eecccccccccchhhHHHHHHH-hCC-----------------------cceecC-CC---CCcCCcchHHHHHHh
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT-CGT-----------------------REYKCD-CG---TIFSRRDSFITHRAF 188 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~-~~~-----------------------k~~~C~-C~---k~f~~~~~L~~H~~~ 188 (241)
-.|..|++.|..-.....||.. ||- .-|.|- |+ +.|......+.||..
T Consensus 167 t~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~ 242 (390)
T KOG2785|consen 167 TDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRD 242 (390)
T ss_pred cceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhh
Confidence 4599999999999999999988 752 337898 99 999999999999976
No 65
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=93.15 E-value=0.028 Score=43.73 Aligned_cols=45 Identities=20% Similarity=0.514 Sum_probs=36.2
Q ss_pred CceeecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCcchHHHHH
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRRDSFITHR 186 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~~~L~~H~ 186 (241)
.|+| |.+|.+.|.....|..|++. |.|+|. |-|..-+--.|..|-
T Consensus 9 ~kpw-cwycnrefddekiliqhqka---khfkchichkkl~sgpglsihc 54 (341)
T KOG2893|consen 9 DKPW-CWYCNREFDDEKILIQHQKA---KHFKCHICHKKLFSGPGLSIHC 54 (341)
T ss_pred CCce-eeecccccchhhhhhhhhhh---ccceeeeehhhhccCCCceeeh
Confidence 4454 88999999999999999986 669999 998866666666663
No 66
>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=93.13 E-value=0.16 Score=35.19 Aligned_cols=25 Identities=24% Similarity=0.541 Sum_probs=22.6
Q ss_pred ceec----C-CCCCcCCcchHHHHHHhccC
Q 026210 167 EYKC----D-CGTIFSRRDSFITHRAFCDA 191 (241)
Q Consensus 167 ~~~C----~-C~k~f~~~~~L~~H~~~~~~ 191 (241)
-|.| . |++.+.+...|++|++.+|+
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 3899 8 99999999999999999885
No 67
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=93.08 E-value=0.17 Score=42.69 Aligned_cols=120 Identities=14% Similarity=0.277 Sum_probs=70.3
Q ss_pred CCccc--cccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCC--
Q 026210 63 NRFVC--EICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGE-- 138 (241)
Q Consensus 63 ~~~~C--~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~e-- 138 (241)
.-|.| +.|+..+..+..+.+|.++|........ -....-...|.|..-+| .+ .-+.+..|...|+..
T Consensus 270 Ehyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~-dgf~rfs~syhC~~~~C-----~k---sTsdV~~h~nFht~~~n 340 (480)
T KOG4377|consen 270 EHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLI-DGFHRFSNSYHCTGQIC-----EK---STSDVLLHDNFHTDKRN 340 (480)
T ss_pred hhhcccCccccccccchhhhHHHHHHHhhcccccc-cchhhcCccchhhhccc-----Cc---ccccccccCcccccccc
Confidence 34667 3588888888889999988852111100 00111223466655444 55 334556676666532
Q ss_pred -----ceeecccccccccchhhHHHHHHHh---------CC--------------------cceecC---CCCCcCCcch
Q 026210 139 -----KKYKCERCSKKYAVQSDWKAHMKTC---------GT--------------------REYKCD---CGTIFSRRDS 181 (241)
Q Consensus 139 -----k~~~C~~C~k~f~~~~~L~~H~~~~---------~~--------------------k~~~C~---C~k~f~~~~~ 181 (241)
..|.|..||-++..+ ...|...| |- .-|.|. |+..|...+.
T Consensus 341 ~GfrrthfhC~r~gCTdtfK--~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sq 418 (480)
T KOG4377|consen 341 NGFRRTHFHCQRIGCTDTFK--DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQ 418 (480)
T ss_pred CceecceeEEeccCCccccc--cccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhh
Confidence 357888877333333 22232212 11 115564 9999999999
Q ss_pred HHHHHHhccCch
Q 026210 182 FITHRAFCDALA 193 (241)
Q Consensus 182 L~~H~~~~~~~~ 193 (241)
+..|.+.|.++.
T Consensus 419 m~shkrkheRqe 430 (480)
T KOG4377|consen 419 MASHKRKHERQE 430 (480)
T ss_pred hhhhhhhhhhhh
Confidence 999999998873
No 68
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.55 E-value=0.042 Score=32.43 Aligned_cols=30 Identities=27% Similarity=0.693 Sum_probs=21.9
Q ss_pred ccCCceeecccccccccchhhHHHHHHH-hC
Q 026210 135 KHGEKKYKCERCSKKYAVQSDWKAHMKT-CG 164 (241)
Q Consensus 135 h~~ek~~~C~~C~k~f~~~~~L~~H~~~-~~ 164 (241)
--||.-+.|+.||+.|....+..+|... |+
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 3466677788888888777777777776 65
No 69
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.46 E-value=0.1 Score=41.06 Aligned_cols=47 Identities=26% Similarity=0.651 Sum_probs=25.6
Q ss_pred eecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCcchHHHHHHhc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRRDSFITHRAFC 189 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~~~L~~H~~~~ 189 (241)
|.|.+||-...- ..+.+|+......-|.|- |++.|-+ .+++.|..-.
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~kCI 51 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTKCI 51 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhccCCeeEEeeccccccc-chhhhhhhhc
Confidence 556666655433 345556666222556666 6666655 4555565433
No 70
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=92.41 E-value=0.081 Score=31.27 Aligned_cols=29 Identities=31% Similarity=0.710 Sum_probs=22.1
Q ss_pred hCCcceecC-CCCCcCCcchHHHHHHhccC
Q 026210 163 CGTREYKCD-CGTIFSRRDSFITHRAFCDA 191 (241)
Q Consensus 163 ~~~k~~~C~-C~k~f~~~~~L~~H~~~~~~ 191 (241)
-||--+.|. |+..|++..++.+|....|+
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~ 42 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNKAHG 42 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhHHhh
Confidence 377778888 88888888888888776654
No 71
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=91.99 E-value=0.22 Score=40.99 Aligned_cols=53 Identities=17% Similarity=0.431 Sum_probs=41.8
Q ss_pred eeecccccccccchhhHHHHHHH--hCC----------------------------------------------------
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT--CGT---------------------------------------------------- 165 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~--~~~---------------------------------------------------- 165 (241)
.+.|-.|.+.|..+..|+.||+. |..
T Consensus 195 r~~CLyCekifrdkntLkeHMrkK~HrrinPknreYDkfyiINY~ev~ks~t~~~~e~dret~~d~~E~D~~wsDw~ed~ 274 (423)
T KOG2482|consen 195 RLRCLYCEKIFRDKNTLKEHMRKKRHRRINPKNREYDKFYIINYLEVGKSWTIVHSEDDRETNEDINETDDTWSDWNEDD 274 (423)
T ss_pred hheeeeeccccCCcHHHHHHHHhccCcccCCCccccceEEEEeHhhcCCccchhhhhhhhhhhccccccccchhhhhcCC
Confidence 37899999999999999999986 420
Q ss_pred -cc--eecC-CCCCcCCcchHHHHHHhccCc
Q 026210 166 -RE--YKCD-CGTIFSRRDSFITHRAFCDAL 192 (241)
Q Consensus 166 -k~--~~C~-C~k~f~~~~~L~~H~~~~~~~ 192 (241)
.+ ..|- |....-+...|..||+..|..
T Consensus 275 a~a~~v~CLfC~~~~en~~~l~eHmk~vHe~ 305 (423)
T KOG2482|consen 275 AEALSVVCLFCTNFYENPVFLFEHMKIVHEF 305 (423)
T ss_pred CCccceEEEeeccchhhHHHHHHHHHHHHHh
Confidence 01 3688 998888888999999988764
No 72
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.44 E-value=0.1 Score=39.83 Aligned_cols=79 Identities=25% Similarity=0.508 Sum_probs=61.8
Q ss_pred CCCccccc--cccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhcccc---
Q 026210 62 TNRFVCEI--CNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKH--- 136 (241)
Q Consensus 62 ~~~~~C~~--C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~--- 136 (241)
...|.|.+ |-+.|.....+..|..+.+ +. .|.+| .+.|.+...|..|+.-.+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h-------------~~---sCs~C-------~r~~Pt~hLLd~HI~E~HDs~ 133 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLH-------------GN---SCSFC-------KRAFPTGHLLDAHILEWHDSL 133 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcc-------------cc---hhHHH-------HHhCCchhhhhHHHHHHHHHH
Confidence 45678876 8888888887777765543 22 68888 999999999999976432
Q ss_pred -------CCceeec--ccccccccchhhHHHHHHH-h
Q 026210 137 -------GEKKYKC--ERCSKKYAVQSDWKAHMKT-C 163 (241)
Q Consensus 137 -------~ek~~~C--~~C~k~f~~~~~L~~H~~~-~ 163 (241)
|.-.|.| ..|+..|.+...-+.|+.. |
T Consensus 134 Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 134 FQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 5567999 4599999999999999987 6
No 73
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.24 E-value=0.98 Score=31.23 Aligned_cols=24 Identities=21% Similarity=0.588 Sum_probs=22.2
Q ss_pred eec----ccccccccchhhHHHHHHH-hC
Q 026210 141 YKC----ERCSKKYAVQSDWKAHMKT-CG 164 (241)
Q Consensus 141 ~~C----~~C~k~f~~~~~L~~H~~~-~~ 164 (241)
|.| ..|+..+.+...+..|++. ||
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 789 9999999999999999998 64
No 74
>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=85.01 E-value=0.55 Score=32.44 Aligned_cols=29 Identities=28% Similarity=0.634 Sum_probs=16.6
Q ss_pred eecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRR 179 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~ 179 (241)
..|..||++|.-. +..|-.|. ||..|.-.
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 4566666666553 22556666 66666544
No 75
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=82.77 E-value=0.82 Score=29.93 Aligned_cols=35 Identities=29% Similarity=0.574 Sum_probs=22.8
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccch
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQ 153 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~ 153 (241)
....|.|+.| ++. .+.+.-+| -|.|..||..|.--
T Consensus 32 ~~~~~~Cp~C-------~~~--------~VkR~a~G--IW~C~kCg~~fAGg 66 (89)
T COG1997 32 QRAKHVCPFC-------GRT--------TVKRIATG--IWKCRKCGAKFAGG 66 (89)
T ss_pred HhcCCcCCCC-------CCc--------ceeeeccC--eEEcCCCCCeeccc
Confidence 3457889988 542 23444444 48899998888644
No 76
>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=82.65 E-value=0.82 Score=32.80 Aligned_cols=19 Identities=26% Similarity=0.490 Sum_probs=7.1
Q ss_pred CCCCcCCcchHHHHHHhccCch
Q 026210 172 CGTIFSRRDSFITHRAFCDALA 193 (241)
Q Consensus 172 C~k~f~~~~~L~~H~~~~~~~~ 193 (241)
||+.|.. |++|++.||++.
T Consensus 78 cGk~~k~---LkrHL~~~~glt 96 (132)
T PF05443_consen 78 CGKKFKT---LKRHLRTHHGLT 96 (132)
T ss_dssp T--EESB---HHHHHHHTT-S-
T ss_pred CCcccch---HHHHHHHccCCC
Confidence 4444432 355555555443
No 77
>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=81.54 E-value=0.83 Score=24.13 Aligned_cols=10 Identities=20% Similarity=0.730 Sum_probs=6.9
Q ss_pred ceeecccccc
Q 026210 139 KKYKCERCSK 148 (241)
Q Consensus 139 k~~~C~~C~k 148 (241)
.++.|.+||.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 5677777764
No 78
>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=81.24 E-value=1.7 Score=24.53 Aligned_cols=25 Identities=40% Similarity=0.658 Sum_probs=12.2
Q ss_pred CCceeecccccccccch----hhHHHHHH
Q 026210 137 GEKKYKCERCSKKYAVQ----SDWKAHMK 161 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~----~~L~~H~~ 161 (241)
+.....|..|++.+... +.|.+|++
T Consensus 13 ~~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 13 DKKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp CSS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred CcCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 34556777777766653 55555553
No 79
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=80.84 E-value=4.1 Score=35.05 Aligned_cols=13 Identities=0% Similarity=-0.335 Sum_probs=9.7
Q ss_pred chHHHHHHhccCc
Q 026210 180 DSFITHRAFCDAL 192 (241)
Q Consensus 180 ~~L~~H~~~~~~~ 192 (241)
..|+.-.+.||..
T Consensus 197 ~eL~~YVk~hhtT 209 (480)
T KOG2675|consen 197 LELQAYVKEHHTT 209 (480)
T ss_pred HHHHHHHHHhccc
Confidence 3588888888764
No 80
>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=80.68 E-value=0.85 Score=35.63 Aligned_cols=30 Identities=20% Similarity=0.423 Sum_probs=22.5
Q ss_pred CCceeecccccccccchhhHHHHHHH-hCCc
Q 026210 137 GEKKYKCERCSKKYAVQSDWKAHMKT-CGTR 166 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k 166 (241)
.+..|.|..|+|.|.-......|+.. |.++
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 45679999999999999999999988 7553
No 81
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=78.27 E-value=0.49 Score=37.09 Aligned_cols=12 Identities=25% Similarity=0.675 Sum_probs=7.3
Q ss_pred eecC-CCCCcCCc
Q 026210 168 YKCD-CGTIFSRR 179 (241)
Q Consensus 168 ~~C~-C~k~f~~~ 179 (241)
..|+ ||.+|...
T Consensus 49 ~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 49 WVCPHCGYAAFEE 61 (214)
T ss_pred EECCCCCCccccc
Confidence 3577 77766543
No 82
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=78.03 E-value=1.7 Score=25.35 Aligned_cols=14 Identities=36% Similarity=0.766 Sum_probs=8.2
Q ss_pred eeecccccccccch
Q 026210 140 KYKCERCSKKYAVQ 153 (241)
Q Consensus 140 ~~~C~~C~k~f~~~ 153 (241)
.-.|..|++.+...
T Consensus 18 ~a~C~~C~~~l~~~ 31 (50)
T smart00614 18 RAKCKYCGKKLSRS 31 (50)
T ss_pred EEEecCCCCEeeeC
Confidence 34566666666544
No 83
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=76.93 E-value=2.4 Score=38.86 Aligned_cols=27 Identities=30% Similarity=0.518 Sum_probs=24.8
Q ss_pred CCCccccccccccCChhHHHHHhhhcC
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
...|.|.+|+|.|.....+..||+.|.
T Consensus 790 ~giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 790 TGIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred CceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 456999999999999999999999996
No 84
>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=76.46 E-value=2.3 Score=30.50 Aligned_cols=27 Identities=30% Similarity=0.615 Sum_probs=17.3
Q ss_pred CCCCCccccccccccCChhHHHHHhhhcCC
Q 026210 60 LATNRFVCEICNKGFQRDQNLQLHRRGHNL 89 (241)
Q Consensus 60 ~~~~~~~C~~C~~~f~~~~~L~~H~~~h~~ 89 (241)
....-..|-+||+.|.. |++|++.|++
T Consensus 68 I~~d~i~clecGk~~k~---LkrHL~~~~g 94 (132)
T PF05443_consen 68 ITPDYIICLECGKKFKT---LKRHLRTHHG 94 (132)
T ss_dssp B-SS-EE-TBT--EESB---HHHHHHHTT-
T ss_pred cccCeeEEccCCcccch---HHHHHHHccC
Confidence 34566789999999966 6999999974
No 85
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=75.21 E-value=2.7 Score=22.70 Aligned_cols=12 Identities=33% Similarity=1.046 Sum_probs=5.8
Q ss_pred ecccccccccch
Q 026210 142 KCERCSKKYAVQ 153 (241)
Q Consensus 142 ~C~~C~k~f~~~ 153 (241)
.|+.|+..|.-.
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 445555554444
No 86
>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=75.01 E-value=1.9 Score=30.46 Aligned_cols=29 Identities=17% Similarity=0.230 Sum_probs=16.4
Q ss_pred eecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRR 179 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~ 179 (241)
+.|..||++|... +..|..|. ||..|.-.
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 4566666666543 23556666 66666444
No 87
>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=74.76 E-value=2.2 Score=22.71 Aligned_cols=10 Identities=30% Similarity=0.654 Sum_probs=5.7
Q ss_pred ceeecccccc
Q 026210 139 KKYKCERCSK 148 (241)
Q Consensus 139 k~~~C~~C~k 148 (241)
.|..|.+||.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 3456666654
No 88
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.19 E-value=3.2 Score=30.43 Aligned_cols=36 Identities=25% Similarity=0.588 Sum_probs=18.8
Q ss_pred CceeecccccccccchhhHHHHHHHhCCcceecC-CCCCc
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIF 176 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f 176 (241)
..-|.|+.|+..|.....+.. .....-|.|+ ||...
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~---~d~~~~f~Cp~Cg~~l 133 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL---LDMDGTFTCPRCGEEL 133 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh---cCCCCcEECCCCCCEE
Confidence 345777777777665433221 0112337777 77553
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=72.71 E-value=3.7 Score=28.47 Aligned_cols=80 Identities=15% Similarity=0.251 Sum_probs=48.4
Q ss_pred CccccCCCCCcccCCCCCcCCChhhHhhhhcccc-----CC-------ceeecccccccccchhhHHHHHHHhCCcceec
Q 026210 103 KKVYVCPESTCVHHNPARALGDLTGIKKHFSRKH-----GE-------KKYKCERCSKKYAVQSDWKAHMKTCGTREYKC 170 (241)
Q Consensus 103 ~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~-----~e-------k~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C 170 (241)
+-|-.|+.| +-..-...+|.+-...-- .| ....|-.|.+.|........- .......|.|
T Consensus 13 ~LP~~CpiC-------gLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~-~~~~~~~y~C 84 (112)
T TIGR00622 13 ELPVECPIC-------GLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD-ELKDSHRYVC 84 (112)
T ss_pred CCCCcCCcC-------CCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc-ccccccceeC
Confidence 345678888 666655555554321100 01 112488999999865321100 0123457999
Q ss_pred C-CCCCcCCcchHHHHHHhcc
Q 026210 171 D-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 171 ~-C~k~f~~~~~L~~H~~~~~ 190 (241)
. |...|-..-+.-.|...|.
T Consensus 85 ~~C~~~FC~dCD~fiHe~Lh~ 105 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHESLHC 105 (112)
T ss_pred CCCCCccccccchhhhhhccC
Confidence 9 9999999888888887764
No 90
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=72.47 E-value=1.8 Score=31.99 Aligned_cols=17 Identities=18% Similarity=0.558 Sum_probs=11.6
Q ss_pred eeecccccccccchhhH
Q 026210 140 KYKCERCSKKYAVQSDW 156 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L 156 (241)
.+.|..||++|..-..+
T Consensus 28 ~~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 28 RRECLACGKRFTTFERV 44 (154)
T ss_pred eeeccccCCcceEeEec
Confidence 37788888887765443
No 91
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=71.36 E-value=4.1 Score=30.28 Aligned_cols=31 Identities=13% Similarity=0.577 Sum_probs=19.7
Q ss_pred CCceeecccccccccchhhHHHHHHHhCCcceecC-CCCC
Q 026210 137 GEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTI 175 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~ 175 (241)
+..-|.|+.|+..|..-..+. .-|.|+ ||..
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~ 137 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAM 137 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCE
Confidence 344577777777777666654 257777 7755
No 92
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=69.59 E-value=1.5 Score=40.00 Aligned_cols=24 Identities=33% Similarity=0.614 Sum_probs=21.9
Q ss_pred eeecccccccccchhhHHHHHHHh
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKTC 163 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~~ 163 (241)
-|.|..|+|.|.....+..||++|
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~H 815 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTH 815 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHH
Confidence 499999999999999999999886
No 93
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=68.85 E-value=4.9 Score=30.55 Aligned_cols=33 Identities=15% Similarity=0.678 Sum_probs=22.6
Q ss_pred CceeecccccccccchhhHHHHHHHhCCcceecC-CCCCcCC
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSR 178 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~ 178 (241)
..-|.|+.|+..|..-..+. .-|.|+ ||.....
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCee
Confidence 34578888888887776653 358888 8866443
No 94
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=68.55 E-value=2.3 Score=30.24 Aligned_cols=15 Identities=20% Similarity=0.596 Sum_probs=13.1
Q ss_pred CccccccccccCChh
Q 026210 64 RFVCEICNKGFQRDQ 78 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~ 78 (241)
|++|..||+.|.+-+
T Consensus 1 PH~Ct~Cg~~f~dgs 15 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGS 15 (131)
T ss_pred CcccCcCCCCcCCCc
Confidence 579999999998865
No 95
>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=68.54 E-value=4.2 Score=20.16 Aligned_cols=20 Identities=15% Similarity=0.459 Sum_probs=15.9
Q ss_pred ccccccccccCChhHHHHHhh
Q 026210 65 FVCEICNKGFQRDQNLQLHRR 85 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~L~~H~~ 85 (241)
..|+.|++.+ ....+..|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3699999998 6677888865
No 96
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=68.34 E-value=3 Score=24.25 Aligned_cols=11 Identities=45% Similarity=1.304 Sum_probs=6.0
Q ss_pred eeecccccccc
Q 026210 140 KYKCERCSKKY 150 (241)
Q Consensus 140 ~~~C~~C~k~f 150 (241)
.|+|..||+.|
T Consensus 6 ~Y~C~~Cg~~~ 16 (49)
T COG1996 6 EYKCARCGREV 16 (49)
T ss_pred EEEhhhcCCee
Confidence 35555555555
No 97
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=67.97 E-value=3.8 Score=28.35 Aligned_cols=32 Identities=19% Similarity=0.558 Sum_probs=24.1
Q ss_pred ccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccch
Q 026210 104 KVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQ 153 (241)
Q Consensus 104 ~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~ 153 (241)
....|+.| |..|-.. +..|..|.+||..|.-.
T Consensus 8 tKR~Cp~C-------G~kFYDL-----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSC-------GAKFYDL-----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCC-------cchhccC-----------CCCCccCCCCCCccCcc
Confidence 34589999 7777432 24688999999999876
No 98
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=67.44 E-value=2.9 Score=30.55 Aligned_cols=33 Identities=30% Similarity=0.836 Sum_probs=22.6
Q ss_pred CceeecccccccccchhhHHHHHHH-hCCcceecC-CCCC
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CGTI 175 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~k~ 175 (241)
.-+|.|. |+..|.+. .+|-.. -|+ .|.|. |+-.
T Consensus 115 ~~~Y~C~-C~q~~l~~---RRhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 115 TYPYRCQ-CQQHYLRI---RRHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred ceeEEee-cCCccchh---hhcccccccc-eEEeccCCce
Confidence 3468998 99887665 344444 465 89998 8754
No 99
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=65.93 E-value=3.7 Score=30.73 Aligned_cols=25 Identities=36% Similarity=0.744 Sum_probs=18.4
Q ss_pred ccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccc
Q 026210 104 KVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSK 148 (241)
Q Consensus 104 ~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k 148 (241)
+.|.|++| |. ++-|+-|.+|++||.
T Consensus 133 ~~~vC~vC-------Gy-------------~~~ge~P~~CPiCga 157 (166)
T COG1592 133 KVWVCPVC-------GY-------------THEGEAPEVCPICGA 157 (166)
T ss_pred CEEEcCCC-------CC-------------cccCCCCCcCCCCCC
Confidence 37888888 54 345678888888884
No 100
>PF15269 zf-C2H2_7: Zinc-finger
Probab=65.50 E-value=4.9 Score=22.71 Aligned_cols=22 Identities=36% Similarity=0.569 Sum_probs=18.6
Q ss_pred eecccccccccchhhHHHHHHH
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
|+|-+|..+...++.|-.||+.
T Consensus 21 ykcfqcpftc~~kshl~nhmky 42 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMKY 42 (54)
T ss_pred ceeecCCcccchHHHHHHHHHH
Confidence 6788888888888888888875
No 101
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=65.47 E-value=5.1 Score=22.73 Aligned_cols=12 Identities=17% Similarity=0.681 Sum_probs=6.7
Q ss_pred ceeecccccccc
Q 026210 139 KKYKCERCSKKY 150 (241)
Q Consensus 139 k~~~C~~C~k~f 150 (241)
.+.+|..||...
T Consensus 18 ~~irC~~CG~rI 29 (44)
T smart00659 18 DVVRCRECGYRI 29 (44)
T ss_pred CceECCCCCceE
Confidence 346666666543
No 102
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=64.86 E-value=2.8 Score=32.90 Aligned_cols=44 Identities=14% Similarity=0.256 Sum_probs=28.7
Q ss_pred CccccCCCCCcccCCCCCcCCChhhHhhhhccc---c-------CCc-----eeecccccccccch
Q 026210 103 KKVYVCPESTCVHHNPARALGDLTGIKKHFSRK---H-------GEK-----KYKCERCSKKYAVQ 153 (241)
Q Consensus 103 ~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h---~-------~ek-----~~~C~~C~k~f~~~ 153 (241)
.+.+.|++| +..|....-.....+.- + +.. .+.|+.||.+|...
T Consensus 3 ~k~~~CPvC-------~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVC-------GKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCC-------CCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 356789999 88887765444444321 1 122 35899999987754
No 103
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=64.71 E-value=3.8 Score=29.24 Aligned_cols=24 Identities=25% Similarity=0.296 Sum_probs=12.7
Q ss_pred ecC-CCCCcCCcchHHHHHHhccCchhh
Q 026210 169 KCD-CGTIFSRRDSFITHRAFCDALAEE 195 (241)
Q Consensus 169 ~C~-C~k~f~~~~~L~~H~~~~~~~~~~ 195 (241)
.|- +||.|. +|++|+.+|+++..+
T Consensus 78 icLEDGkkfK---SLKRHL~t~~gmTPd 102 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYGLTPD 102 (148)
T ss_pred EEeccCcchH---HHHHHHhcccCCCHH
Confidence 354 555553 356666666655433
No 104
>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=64.30 E-value=3.4 Score=22.36 Aligned_cols=15 Identities=20% Similarity=0.576 Sum_probs=11.8
Q ss_pred ccccccccccCChhH
Q 026210 65 FVCEICNKGFQRDQN 79 (241)
Q Consensus 65 ~~C~~C~~~f~~~~~ 79 (241)
+.|+.|+..|.-...
T Consensus 3 ~~CP~C~~~~~v~~~ 17 (38)
T TIGR02098 3 IQCPNCKTSFRVVDS 17 (38)
T ss_pred EECCCCCCEEEeCHH
Confidence 579999998876654
No 105
>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=63.63 E-value=5.9 Score=20.78 Aligned_cols=11 Identities=18% Similarity=0.827 Sum_probs=5.5
Q ss_pred eeecccccccc
Q 026210 140 KYKCERCSKKY 150 (241)
Q Consensus 140 ~~~C~~C~k~f 150 (241)
+.+|..||...
T Consensus 17 ~irC~~CG~RI 27 (32)
T PF03604_consen 17 PIRCPECGHRI 27 (32)
T ss_dssp TSSBSSSS-SE
T ss_pred cEECCcCCCeE
Confidence 35666666543
No 106
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=63.16 E-value=3.5 Score=26.17 Aligned_cols=39 Identities=15% Similarity=0.421 Sum_probs=18.5
Q ss_pred eecccccccccchhhHHHHHHHhCCcceecC---CCCCcCCcc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTCGTREYKCD---CGTIFSRRD 180 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~---C~k~f~~~~ 180 (241)
+.|..||..-.-...-..+.. ..++-|.|. ||.+|....
T Consensus 2 m~CP~Cg~~a~irtSr~~s~~-~~~~Y~qC~N~eCg~tF~t~e 43 (72)
T PRK09678 2 FHCPLCQHAAHARTSRYITDT-TKERYHQCQNVNCSATFITYE 43 (72)
T ss_pred ccCCCCCCccEEEEChhcChh-hheeeeecCCCCCCCEEEEEE
Confidence 456666654322222111111 234566773 777776654
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=62.68 E-value=5.4 Score=29.22 Aligned_cols=40 Identities=18% Similarity=0.473 Sum_probs=27.1
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccc
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAV 152 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~ 152 (241)
....|.|+.| +..|.....+.. . .. ...|.|+.||.....
T Consensus 96 ~~~~Y~Cp~C-------~~~y~~~ea~~~-~--d~-~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 96 NNAYYKCPNC-------QSKYTFLEANQL-L--DM-DGTFTCPRCGEELEE 135 (147)
T ss_pred CCcEEECcCC-------CCEeeHHHHHHh-c--CC-CCcEECCCCCCEEEE
Confidence 5678999999 888876544332 1 11 334999999987643
No 108
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=62.55 E-value=6.8 Score=35.14 Aligned_cols=28 Identities=18% Similarity=0.347 Sum_probs=24.1
Q ss_pred CCCCccccccccccCChhHHHHHhhhcC
Q 026210 61 ATNRFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 61 ~~~~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
...+-.|..||..|.+......||..|.
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~ 442 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHD 442 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhh
Confidence 3457889999999999999988888885
No 109
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.35 E-value=7.6 Score=20.99 Aligned_cols=11 Identities=27% Similarity=1.041 Sum_probs=5.7
Q ss_pred eeecccccccc
Q 026210 140 KYKCERCSKKY 150 (241)
Q Consensus 140 ~~~C~~C~k~f 150 (241)
..+|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 45555555544
No 110
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=60.82 E-value=5.5 Score=31.72 Aligned_cols=48 Identities=23% Similarity=0.542 Sum_probs=36.4
Q ss_pred cccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccchhhHHHHHHH
Q 026210 105 VYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 105 ~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
.|.|..| +.... ...+.+|+-.=++ .-|.|-.|++.|.+ .....|..-
T Consensus 3 ~FtCnvC-------gEsvK-Kp~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 3 FFTCNVC-------GESVK-KPQVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred EEehhhh-------hhhcc-ccchHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 4789999 66554 3456778877666 67999999999999 666778653
No 111
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=60.22 E-value=9.9 Score=23.01 Aligned_cols=9 Identities=44% Similarity=1.272 Sum_probs=5.9
Q ss_pred cceecC-CCC
Q 026210 166 REYKCD-CGT 174 (241)
Q Consensus 166 k~~~C~-C~k 174 (241)
.+|.|. ||.
T Consensus 47 ~~Y~CP~CGF 56 (59)
T PRK14890 47 NPYTCPKCGF 56 (59)
T ss_pred CceECCCCCC
Confidence 567776 764
No 112
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=59.70 E-value=7.9 Score=33.35 Aligned_cols=34 Identities=32% Similarity=0.746 Sum_probs=21.4
Q ss_pred CCceeecccccccccchhhHHHHHHH-hCCcceecC-CC
Q 026210 137 GEKKYKCERCSKKYAVQSDWKAHMKT-CGTREYKCD-CG 173 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~~~L~~H~~~-~~~k~~~C~-C~ 173 (241)
...-|.|..|.+.|.....+. .. -..-.|.|. |+
T Consensus 125 ~~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ 160 (436)
T KOG2593|consen 125 NVAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCG 160 (436)
T ss_pred ccccccCCccccchhhhHHHH---hhcccCceEEEecCC
Confidence 345688888888877765543 22 223567887 76
No 113
>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=58.93 E-value=5.7 Score=31.10 Aligned_cols=30 Identities=17% Similarity=0.393 Sum_probs=23.0
Q ss_pred CCcceecC-CCCCcCCcchHHHHHHhccCch
Q 026210 164 GTREYKCD-CGTIFSRRDSFITHRAFCDALA 193 (241)
Q Consensus 164 ~~k~~~C~-C~k~f~~~~~L~~H~~~~~~~~ 193 (241)
.+..|.|. |+|.|.-..-.++|+...|...
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 45679999 9999999999999999877643
No 114
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=58.53 E-value=9.4 Score=23.11 Aligned_cols=31 Identities=23% Similarity=0.368 Sum_probs=19.1
Q ss_pred CCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCC
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPES 111 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C 111 (241)
-.|.|+.||+.--....-- |. ...+|.|+.|
T Consensus 26 v~F~CPnCGe~~I~Rc~~C---Rk---------------~g~~Y~Cp~C 56 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKC---RK---------------LGNPYRCPKC 56 (61)
T ss_pred eEeeCCCCCceeeehhhhH---HH---------------cCCceECCCc
Confidence 3688999996543333211 11 3478899888
No 115
>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=58.38 E-value=9.1 Score=28.43 Aligned_cols=35 Identities=14% Similarity=0.480 Sum_probs=27.1
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccc
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAV 152 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~ 152 (241)
...-|.|+.| +..|+....+. .-|.|+.||.....
T Consensus 106 ~~~~Y~Cp~c-------~~r~tf~eA~~---------~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 106 NNMFFICPNM-------CVRFTFNEAME---------LNFTCPRCGAMLDY 140 (158)
T ss_pred CCCeEECCCC-------CcEeeHHHHHH---------cCCcCCCCCCEeee
Confidence 5678999999 88887777664 25999999976543
No 116
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.50 E-value=21 Score=24.85 Aligned_cols=89 Identities=17% Similarity=0.239 Sum_probs=51.2
Q ss_pred CCccccccccccCChhHHHHHhhhcCC-C-chhhhcchhhhcCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCce
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRRGHNL-P-WKLKQRNSKEVRKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKK 140 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~~h~~-~-~~~~~~~~~~~~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~ 140 (241)
-|..|+.||-..-....|.+- .|+. + ..+... ..........|--| ...|........- .-.....
T Consensus 14 LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~ev-~~~~~~~~~~C~~C-------~~~f~~~~~~~~~--~~~~~~~ 81 (112)
T TIGR00622 14 LPVECPICGLTLILSTHLARS--YHHLFPLKAFQEI-PLEEYNGSRFCFGC-------QGPFPKPPVSPFD--ELKDSHR 81 (112)
T ss_pred CCCcCCcCCCEEeccchHHHh--hhccCCCcccccc-cccccCCCCcccCc-------CCCCCCccccccc--ccccccc
Confidence 467899999999888888754 2331 1 111110 00001112247666 6666543211100 0122446
Q ss_pred eecccccccccchhhHHHHHHHh
Q 026210 141 YKCERCSKKYAVQSDWKAHMKTC 163 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~~ 163 (241)
|.|..|...|-..-++-.|...|
T Consensus 82 y~C~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 82 YVCAVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred eeCCCCCCccccccchhhhhhcc
Confidence 99999999999888888887665
No 117
>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=57.25 E-value=4.9 Score=26.68 Aligned_cols=32 Identities=31% Similarity=0.663 Sum_probs=18.8
Q ss_pred ccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccc
Q 026210 104 KVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAV 152 (241)
Q Consensus 104 ~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~ 152 (241)
..|.|++| ++.- -.+.-.|. |.|..|++.|.-
T Consensus 34 ~ky~Cp~C-------gk~~--------vkR~a~GI--W~C~~C~~~~AG 65 (90)
T PF01780_consen 34 AKYTCPFC-------GKTS--------VKRVATGI--WKCKKCGKKFAG 65 (90)
T ss_dssp S-BEESSS-------SSSE--------EEEEETTE--EEETTTTEEEE-
T ss_pred CCCcCCCC-------CCce--------eEEeeeEE--eecCCCCCEEeC
Confidence 56888888 4421 12233443 888888888763
No 118
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=57.11 E-value=7.4 Score=27.26 Aligned_cols=24 Identities=25% Similarity=0.600 Sum_probs=19.5
Q ss_pred ceeecccccccccchhhHHHHHHH
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
-.|.|-.|.+-|.....|..|.++
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhc
Confidence 457888888888888888888876
No 119
>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=57.05 E-value=5 Score=19.92 Aligned_cols=11 Identities=27% Similarity=0.733 Sum_probs=9.0
Q ss_pred ccccccccccC
Q 026210 65 FVCEICNKGFQ 75 (241)
Q Consensus 65 ~~C~~C~~~f~ 75 (241)
-.|+.||..|.
T Consensus 15 ~~Cp~CG~~F~ 25 (26)
T PF10571_consen 15 KFCPHCGYDFE 25 (26)
T ss_pred CcCCCCCCCCc
Confidence 36999999885
No 120
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=56.94 E-value=6.1 Score=27.64 Aligned_cols=26 Identities=23% Similarity=0.482 Sum_probs=23.2
Q ss_pred CCCCccccccccccCChhHHHHHhhh
Q 026210 61 ATNRFVCEICNKGFQRDQNLQLHRRG 86 (241)
Q Consensus 61 ~~~~~~C~~C~~~f~~~~~L~~H~~~ 86 (241)
+...|-|-+|.+-|.+...|..|.++
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~kt 79 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKT 79 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhc
Confidence 45679999999999999999999875
No 121
>PF14353 CpXC: CpXC protein
Probab=55.85 E-value=11 Score=26.78 Aligned_cols=18 Identities=17% Similarity=0.595 Sum_probs=9.3
Q ss_pred eecccccccccchhhHHH
Q 026210 141 YKCERCSKKYAVQSDWKA 158 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~ 158 (241)
|.|+.||..|.-...+..
T Consensus 39 ~~CP~Cg~~~~~~~p~lY 56 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPLLY 56 (128)
T ss_pred EECCCCCCceecCCCEEE
Confidence 555555555554444433
No 122
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=55.49 E-value=6.3 Score=29.94 Aligned_cols=35 Identities=11% Similarity=0.427 Sum_probs=26.3
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeecccccccccc
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKKYAV 152 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~f~~ 152 (241)
...-|.|+.| +..|+....+. .-|.|+.||.....
T Consensus 114 ~~~~Y~Cp~C-------~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNC-------HIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCC-------CcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 4578999999 78887766543 35999999976543
No 123
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=54.96 E-value=14 Score=31.28 Aligned_cols=51 Identities=22% Similarity=0.365 Sum_probs=43.1
Q ss_pred cccCCCCCcccCCCCCcCCChhhHhhhhccccCC-----------------------ceeeccccc---ccccchhhHHH
Q 026210 105 VYVCPESTCVHHNPARALGDLTGIKKHFSRKHGE-----------------------KKYKCERCS---KKYAVQSDWKA 158 (241)
Q Consensus 105 ~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~e-----------------------k~~~C~~C~---k~f~~~~~L~~ 158 (241)
|-.|-.| +..+.....-..||..++|- .-|.|..|. +.|.+......
T Consensus 166 Pt~CLfC-------~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~ 238 (390)
T KOG2785|consen 166 PTDCLFC-------DKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRA 238 (390)
T ss_pred Ccceeec-------CCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHH
Confidence 4578888 88899999999999988852 237899998 99999999999
Q ss_pred HHHH
Q 026210 159 HMKT 162 (241)
Q Consensus 159 H~~~ 162 (241)
||..
T Consensus 239 HM~~ 242 (390)
T KOG2785|consen 239 HMRD 242 (390)
T ss_pred HHhh
Confidence 9997
No 124
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=54.36 E-value=7.2 Score=33.69 Aligned_cols=29 Identities=28% Similarity=0.736 Sum_probs=22.4
Q ss_pred ecccccccccchhhHHHHHHHhCCcceecC-CCCCcCCcc
Q 026210 142 KCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSRRD 180 (241)
Q Consensus 142 ~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~~~ 180 (241)
.|..||.+..+ .|.+-|+|. |++.+....
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 69999977444 355589999 999988764
No 125
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=52.20 E-value=31 Score=32.43 Aligned_cols=11 Identities=0% Similarity=0.042 Sum_probs=4.6
Q ss_pred cccccccccch
Q 026210 143 CERCSKKYAVQ 153 (241)
Q Consensus 143 C~~C~k~f~~~ 153 (241)
|..|+-.|.++
T Consensus 439 r~~~DPdf~yr 449 (1102)
T KOG1924|consen 439 RTGMDPDFKYR 449 (1102)
T ss_pred cCCCCCCcchh
Confidence 34444444443
No 126
>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=52.02 E-value=4.5 Score=23.61 Aligned_cols=9 Identities=22% Similarity=0.667 Sum_probs=5.0
Q ss_pred eeecccccc
Q 026210 140 KYKCERCSK 148 (241)
Q Consensus 140 ~~~C~~C~k 148 (241)
...|..||.
T Consensus 26 ~~~CP~Cg~ 34 (52)
T TIGR02605 26 LATCPECGG 34 (52)
T ss_pred CCCCCCCCC
Confidence 345666664
No 127
>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=52.01 E-value=7.8 Score=25.78 Aligned_cols=14 Identities=29% Similarity=0.823 Sum_probs=10.2
Q ss_pred eeecccccccccch
Q 026210 140 KYKCERCSKKYAVQ 153 (241)
Q Consensus 140 ~~~C~~C~k~f~~~ 153 (241)
.|.|..|++.|.--
T Consensus 53 IW~C~~C~~~~AGG 66 (91)
T TIGR00280 53 IWTCRKCGAKFAGG 66 (91)
T ss_pred EEEcCCCCCEEeCC
Confidence 48888888877643
No 128
>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=50.45 E-value=6.2 Score=21.54 Aligned_cols=15 Identities=33% Similarity=0.702 Sum_probs=11.9
Q ss_pred CccccccccccCChh
Q 026210 64 RFVCEICNKGFQRDQ 78 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~ 78 (241)
.|+|..||..|....
T Consensus 5 ~y~C~~Cg~~fe~~~ 19 (41)
T smart00834 5 EYRCEDCGHTFEVLQ 19 (41)
T ss_pred EEEcCCCCCEEEEEE
Confidence 489999999986544
No 129
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=50.35 E-value=5.2 Score=28.87 Aligned_cols=22 Identities=32% Similarity=0.689 Sum_probs=16.2
Q ss_pred ceecC-CCCCcCCcchHHHHHHh
Q 026210 167 EYKCD-CGTIFSRRDSFITHRAF 188 (241)
Q Consensus 167 ~~~C~-C~k~f~~~~~L~~H~~~ 188 (241)
.|.|. ||-.+....-|..|..+
T Consensus 129 ~ysC~~CG~kyCsv~C~~~HneT 151 (156)
T KOG3362|consen 129 KYSCVNCGTKYCSVRCLKTHNET 151 (156)
T ss_pred hhHHHhcCCceeechhhhhcccc
Confidence 46787 88888887777777653
No 130
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=49.95 E-value=13 Score=21.14 Aligned_cols=12 Identities=17% Similarity=0.564 Sum_probs=6.7
Q ss_pred eeeccccccccc
Q 026210 140 KYKCERCSKKYA 151 (241)
Q Consensus 140 ~~~C~~C~k~f~ 151 (241)
.+.|..||..+.
T Consensus 21 ~~~Cp~CG~~~~ 32 (46)
T PRK00398 21 GVRCPYCGYRIL 32 (46)
T ss_pred ceECCCCCCeEE
Confidence 456666665443
No 131
>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=49.10 E-value=8.5 Score=21.46 Aligned_cols=10 Identities=20% Similarity=0.720 Sum_probs=5.7
Q ss_pred ceeecccccc
Q 026210 139 KKYKCERCSK 148 (241)
Q Consensus 139 k~~~C~~C~k 148 (241)
....|..||.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 4456666664
No 132
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 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. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=48.23 E-value=11 Score=20.68 Aligned_cols=22 Identities=23% Similarity=0.475 Sum_probs=12.6
Q ss_pred hhhhccccCCceeecccccccc
Q 026210 129 KKHFSRKHGEKKYKCERCSKKY 150 (241)
Q Consensus 129 ~~H~~~h~~ek~~~C~~C~k~f 150 (241)
.-......+.+.|.|..|+..-
T Consensus 13 Np~~~~~~~~~~w~C~~C~~~N 34 (40)
T PF04810_consen 13 NPFCQFDDGGKTWICNFCGTKN 34 (40)
T ss_dssp -TTSEEETTTTEEEETTT--EE
T ss_pred CCcceEcCCCCEEECcCCCCcC
Confidence 3344555566778999988653
No 133
>PHA00626 hypothetical protein
Probab=48.03 E-value=9 Score=22.86 Aligned_cols=14 Identities=36% Similarity=0.721 Sum_probs=10.4
Q ss_pred cceecC-CCCCcCCc
Q 026210 166 REYKCD-CGTIFSRR 179 (241)
Q Consensus 166 k~~~C~-C~k~f~~~ 179 (241)
..|.|. ||+.|...
T Consensus 22 nrYkCkdCGY~ft~~ 36 (59)
T PHA00626 22 DDYVCCDCGYNDSKD 36 (59)
T ss_pred cceEcCCCCCeechh
Confidence 568888 88888653
No 134
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=47.92 E-value=3.7 Score=34.26 Aligned_cols=28 Identities=7% Similarity=-0.213 Sum_probs=20.8
Q ss_pred cCCCCCccccccccccCChhHHHHH-hhhc
Q 026210 59 LLATNRFVCEICNKGFQRDQNLQLH-RRGH 87 (241)
Q Consensus 59 ~~~~~~~~C~~C~~~f~~~~~L~~H-~~~h 87 (241)
.+..++|+| .|++.+.+...|+.| +..|
T Consensus 208 ~t~~~p~k~-~~~~~~~T~~~l~~HS~N~~ 236 (442)
T KOG4124|consen 208 ETTGTPKKM-PESLVMDTSSPLSDHSMNID 236 (442)
T ss_pred ccccCCccC-cccccccccchhhhccccCC
Confidence 344568888 589999999988888 3434
No 135
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=47.77 E-value=29 Score=24.87 Aligned_cols=24 Identities=25% Similarity=0.351 Sum_probs=19.9
Q ss_pred CCccccccccccCChhHHHHHhhhcCC
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRRGHNL 89 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~~h~~ 89 (241)
.-..|-++|+.|. .|++|+.+|.+
T Consensus 75 D~IicLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 75 DYIICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred CeEEEeccCcchH---HHHHHHhcccC
Confidence 4567999999995 59999999873
No 136
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=47.55 E-value=8.4 Score=23.04 Aligned_cols=27 Identities=11% Similarity=0.413 Sum_probs=12.6
Q ss_pred hhHhhhhccccCCceeeccc----ccccccc
Q 026210 126 TGIKKHFSRKHGEKKYKCER----CSKKYAV 152 (241)
Q Consensus 126 ~~l~~H~~~h~~ek~~~C~~----C~k~f~~ 152 (241)
..|..|....-..++..|.. |...+..
T Consensus 24 ~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~ 54 (60)
T PF02176_consen 24 KELDDHLENECPKRPVPCPYSPYGCKERVPR 54 (60)
T ss_dssp CCHHHHHHTTSTTSEEE-SS----S--EEEH
T ss_pred HHHHHHHHccCCCCcEECCCCCCCCCCccch
Confidence 34555555444455555655 5555444
No 137
>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=46.94 E-value=8.3 Score=20.80 Aligned_cols=14 Identities=14% Similarity=0.451 Sum_probs=7.1
Q ss_pred ceeecccccccccc
Q 026210 139 KKYKCERCSKKYAV 152 (241)
Q Consensus 139 k~~~C~~C~k~f~~ 152 (241)
..-.|..||-.+.+
T Consensus 20 ~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 20 VEGVCDNCGGELVQ 33 (36)
T ss_dssp STTBCTTTTEBEBE
T ss_pred CCCccCCCCCeeEe
Confidence 33456666654433
No 138
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=46.80 E-value=10 Score=25.16 Aligned_cols=13 Identities=31% Similarity=0.940 Sum_probs=9.7
Q ss_pred eeecccccccccc
Q 026210 140 KYKCERCSKKYAV 152 (241)
Q Consensus 140 ~~~C~~C~k~f~~ 152 (241)
.|.|..|++.|.-
T Consensus 54 IW~C~~C~~~~AG 66 (90)
T PRK03976 54 IWECRKCGAKFAG 66 (90)
T ss_pred EEEcCCCCCEEeC
Confidence 4788888887764
No 139
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=46.51 E-value=16 Score=20.29 Aligned_cols=25 Identities=20% Similarity=0.539 Sum_probs=18.2
Q ss_pred CccccccccccCCh--hHHHHHhhhcC
Q 026210 64 RFVCEICNKGFQRD--QNLQLHRRGHN 88 (241)
Q Consensus 64 ~~~C~~C~~~f~~~--~~L~~H~~~h~ 88 (241)
.-.|..||..|... ..-..|.+.|.
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~yH~ 39 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKYHD 39 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHHHh
Confidence 35899999998663 55677777663
No 140
>PF09963 DUF2197: Uncharacterized protein conserved in bacteria (DUF2197); InterPro: IPR019241 This family represents various hypothetical bacterial proteins with no known function.
Probab=45.94 E-value=11 Score=22.63 Aligned_cols=10 Identities=50% Similarity=0.850 Sum_probs=5.4
Q ss_pred eccccccccc
Q 026210 142 KCERCSKKYA 151 (241)
Q Consensus 142 ~C~~C~k~f~ 151 (241)
+|-.|++.+.
T Consensus 4 kC~lCdk~~~ 13 (56)
T PF09963_consen 4 KCILCDKKEE 13 (56)
T ss_pred EEEecCCEEE
Confidence 4555665544
No 141
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=44.63 E-value=34 Score=28.50 Aligned_cols=53 Identities=15% Similarity=0.428 Sum_probs=35.9
Q ss_pred CceeecccccccccchhhHHHHHHH----------------------------hCCcceecC-CCCCcCCcchHHHHHHh
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKT----------------------------CGTREYKCD-CGTIFSRRDSFITHRAF 188 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~----------------------------~~~k~~~C~-C~k~f~~~~~L~~H~~~ 188 (241)
.-|..|.+|+-......+|.+-.+. .+.-.|.|. |...|.-.-+.-.|-..
T Consensus 288 sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhh
Confidence 4567788888887777777653221 011348888 99999888777778766
Q ss_pred cc
Q 026210 189 CD 190 (241)
Q Consensus 189 ~~ 190 (241)
|-
T Consensus 368 h~ 369 (378)
T KOG2807|consen 368 HN 369 (378)
T ss_pred hc
Confidence 64
No 142
>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=44.62 E-value=8.8 Score=18.68 Aligned_cols=10 Identities=30% Similarity=0.630 Sum_probs=8.3
Q ss_pred CCcccccccc
Q 026210 63 NRFVCEICNK 72 (241)
Q Consensus 63 ~~~~C~~C~~ 72 (241)
..|.|+.||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4799999985
No 143
>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=44.16 E-value=11 Score=23.32 Aligned_cols=12 Identities=17% Similarity=0.772 Sum_probs=3.9
Q ss_pred ceeecccccccc
Q 026210 139 KKYKCERCSKKY 150 (241)
Q Consensus 139 k~~~C~~C~k~f 150 (241)
+.+.|..||..|
T Consensus 24 rrhhCr~CG~~v 35 (69)
T PF01363_consen 24 RRHHCRNCGRVV 35 (69)
T ss_dssp -EEE-TTT--EE
T ss_pred eeEccCCCCCEE
Confidence 334555555444
No 144
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=43.97 E-value=18 Score=30.32 Aligned_cols=25 Identities=20% Similarity=0.744 Sum_probs=20.0
Q ss_pred CCCCccccc--cccccCChhHHHHHhh
Q 026210 61 ATNRFVCEI--CNKGFQRDQNLQLHRR 85 (241)
Q Consensus 61 ~~~~~~C~~--C~~~f~~~~~L~~H~~ 85 (241)
-.++|+|.+ |.+.+.....|+.|..
T Consensus 346 ~~~~~~~~vp~~~~~~~n~ng~~~~~~ 372 (442)
T KOG4124|consen 346 VDKPYKCPVPNCDKAYKNQNGLKYHKL 372 (442)
T ss_pred ecCCCCCCCCcchhhcccCcceeeccc
Confidence 457899965 9999998888888754
No 145
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=42.58 E-value=15 Score=24.29 Aligned_cols=15 Identities=20% Similarity=0.483 Sum_probs=12.2
Q ss_pred CCCccccccccccCC
Q 026210 62 TNRFVCEICNKGFQR 76 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~ 76 (241)
.+|-.|..||..|.+
T Consensus 56 v~Pa~CkkCGfef~~ 70 (97)
T COG3357 56 VRPARCKKCGFEFRD 70 (97)
T ss_pred ecChhhcccCccccc
Confidence 357789999999976
No 146
>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=42.51 E-value=11 Score=30.29 Aligned_cols=18 Identities=17% Similarity=0.456 Sum_probs=9.3
Q ss_pred cceecC-CCCCcCCcchHH
Q 026210 166 REYKCD-CGTIFSRRDSFI 183 (241)
Q Consensus 166 k~~~C~-C~k~f~~~~~L~ 183 (241)
+++.|. |+........|.
T Consensus 208 k~~PCPKCg~et~eTkdLS 226 (314)
T PF06524_consen 208 KPIPCPKCGYETQETKDLS 226 (314)
T ss_pred CCCCCCCCCCcccccccce
Confidence 556666 665544444443
No 147
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=42.49 E-value=11 Score=20.69 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=12.1
Q ss_pred CccccccccccCCh
Q 026210 64 RFVCEICNKGFQRD 77 (241)
Q Consensus 64 ~~~C~~C~~~f~~~ 77 (241)
+|+|..|++.|-..
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 79999999999654
No 148
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=42.03 E-value=9.1 Score=35.77 Aligned_cols=11 Identities=18% Similarity=0.377 Sum_probs=5.8
Q ss_pred cccccccccCC
Q 026210 66 VCEICNKGFQR 76 (241)
Q Consensus 66 ~C~~C~~~f~~ 76 (241)
.|..||..|..
T Consensus 437 ~C~~Cg~v~~C 447 (730)
T COG1198 437 LCRDCGYIAEC 447 (730)
T ss_pred ecccCCCcccC
Confidence 36666655533
No 149
>PRK04351 hypothetical protein; Provisional
Probab=41.51 E-value=12 Score=27.44 Aligned_cols=33 Identities=24% Similarity=0.763 Sum_probs=22.6
Q ss_pred ceeecccccccccchhhHHHHHHHhCCcceecC-CCCCcCC
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFSR 178 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~~ 178 (241)
-.|.|..||..+.+. +.+....|.|. |+-.+..
T Consensus 111 y~Y~C~~Cg~~~~r~-------Rr~n~~~yrCg~C~g~L~~ 144 (149)
T PRK04351 111 YLYECQSCGQQYLRK-------RRINTKRYRCGKCRGKLKL 144 (149)
T ss_pred EEEECCCCCCEeeee-------eecCCCcEEeCCCCcEeee
Confidence 358898898776542 22456789998 9876543
No 150
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=41.20 E-value=17 Score=21.23 Aligned_cols=12 Identities=17% Similarity=0.792 Sum_probs=7.6
Q ss_pred ceeecccccccc
Q 026210 139 KKYKCERCSKKY 150 (241)
Q Consensus 139 k~~~C~~C~k~f 150 (241)
..|.|..||..+
T Consensus 36 ~r~~C~~Cgyt~ 47 (50)
T PRK00432 36 DRWHCGKCGYTE 47 (50)
T ss_pred CcEECCCcCCEE
Confidence 346777777654
No 151
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=41.03 E-value=9.5 Score=27.53 Aligned_cols=15 Identities=20% Similarity=0.793 Sum_probs=8.8
Q ss_pred ceeecccccccccch
Q 026210 139 KKYKCERCSKKYAVQ 153 (241)
Q Consensus 139 k~~~C~~C~k~f~~~ 153 (241)
..|.|..||..|...
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 346666666666543
No 152
>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=40.58 E-value=12 Score=22.24 Aligned_cols=10 Identities=20% Similarity=0.803 Sum_probs=5.0
Q ss_pred eecccccccc
Q 026210 141 YKCERCSKKY 150 (241)
Q Consensus 141 ~~C~~C~k~f 150 (241)
..|..||..|
T Consensus 23 V~Cp~CGael 32 (54)
T TIGR01206 23 VICDECGAEL 32 (54)
T ss_pred EeCCCCCCEE
Confidence 4555555443
No 153
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.54 E-value=11 Score=23.97 Aligned_cols=20 Identities=20% Similarity=0.496 Sum_probs=14.8
Q ss_pred CCCccccccccccCChhHHHHHhh
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRR 85 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~ 85 (241)
.-.|+|..||..| .+.+||.
T Consensus 10 tY~Y~c~~cg~~~----dvvq~~~ 29 (82)
T COG2331 10 TYSYECTECGNRF----DVVQAMT 29 (82)
T ss_pred ceEEeecccchHH----HHHHhcc
Confidence 3469999999876 5666665
No 154
>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=40.26 E-value=13 Score=25.11 Aligned_cols=21 Identities=19% Similarity=0.555 Sum_probs=15.9
Q ss_pred hccccCCceeecccccccccch
Q 026210 132 FSRKHGEKKYKCERCSKKYAVQ 153 (241)
Q Consensus 132 ~~~h~~ek~~~C~~C~k~f~~~ 153 (241)
+..+.+ ++++|..||..|.-.
T Consensus 72 ~~l~~g-~~~rC~eCG~~fkL~ 92 (97)
T cd00924 72 MWLEKG-KPKRCPECGHVFKLV 92 (97)
T ss_pred EEEeCC-CceeCCCCCcEEEEE
Confidence 455666 789999999988653
No 155
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=40.23 E-value=19 Score=23.98 Aligned_cols=15 Identities=27% Similarity=0.605 Sum_probs=10.7
Q ss_pred ceeecccccccccch
Q 026210 139 KKYKCERCSKKYAVQ 153 (241)
Q Consensus 139 k~~~C~~C~k~f~~~ 153 (241)
-.|.|..|++.|.--
T Consensus 53 GIW~C~~C~~~~AGG 67 (90)
T PTZ00255 53 GIWRCKGCKKTVAGG 67 (90)
T ss_pred EEEEcCCCCCEEeCC
Confidence 358888888877643
No 156
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=39.92 E-value=29 Score=28.69 Aligned_cols=25 Identities=24% Similarity=0.543 Sum_probs=17.2
Q ss_pred ceeecccccccccchhhHHHHHHHh
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKTC 163 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~~ 163 (241)
-.|.|..|...|-.--+.-.|...|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred cceechhhhhhhhhhhHHHHHHHHh
Confidence 3477777777777776666666554
No 157
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=39.74 E-value=24 Score=28.15 Aligned_cols=8 Identities=13% Similarity=0.775 Sum_probs=5.7
Q ss_pred ccccCCCC
Q 026210 104 KVYVCPES 111 (241)
Q Consensus 104 ~~~~C~~C 111 (241)
+-|.|..|
T Consensus 111 rqFaC~~C 118 (278)
T PF15135_consen 111 RQFACSSC 118 (278)
T ss_pred eeeecccc
Confidence 56777777
No 158
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=39.20 E-value=32 Score=24.64 Aligned_cols=18 Identities=17% Similarity=0.593 Sum_probs=12.4
Q ss_pred CCCCccccccccccCChh
Q 026210 61 ATNRFVCEICNKGFQRDQ 78 (241)
Q Consensus 61 ~~~~~~C~~C~~~f~~~~ 78 (241)
..+.|+|.+|..+.....
T Consensus 77 d~~lYeCnIC~etS~ee~ 94 (140)
T PF05290_consen 77 DPKLYECNICKETSAEER 94 (140)
T ss_pred CCCceeccCcccccchhh
Confidence 347789999987665543
No 159
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=38.73 E-value=44 Score=24.64 Aligned_cols=38 Identities=26% Similarity=0.542 Sum_probs=17.6
Q ss_pred Cceeeccccccccc------chhhHHHHHHH--h-----------CCcceecC-CCCC
Q 026210 138 EKKYKCERCSKKYA------VQSDWKAHMKT--C-----------GTREYKCD-CGTI 175 (241)
Q Consensus 138 ek~~~C~~C~k~f~------~~~~L~~H~~~--~-----------~~k~~~C~-C~k~ 175 (241)
.--.+|..|+|.|- ..+.+..|+.. | |+-.++|- ||-+
T Consensus 12 ~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 12 SCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp CCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred ccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 44567777877774 34566667654 3 23456776 7643
No 160
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=38.67 E-value=21 Score=24.69 Aligned_cols=12 Identities=33% Similarity=0.836 Sum_probs=8.5
Q ss_pred ceecC-CCCCcCC
Q 026210 167 EYKCD-CGTIFSR 178 (241)
Q Consensus 167 ~~~C~-C~k~f~~ 178 (241)
-|.|. |++.|..
T Consensus 102 FYTC~kC~~k~~e 114 (116)
T KOG2907|consen 102 FYTCPKCKYKFTE 114 (116)
T ss_pred EEEcCccceeeec
Confidence 47787 8877754
No 161
>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=38.65 E-value=19 Score=21.18 Aligned_cols=10 Identities=20% Similarity=0.939 Sum_probs=4.4
Q ss_pred eecccccccc
Q 026210 141 YKCERCSKKY 150 (241)
Q Consensus 141 ~~C~~C~k~f 150 (241)
+.|..||+.|
T Consensus 19 ~~Cr~Cg~~~ 28 (57)
T cd00065 19 HHCRNCGRIF 28 (57)
T ss_pred cccCcCcCCc
Confidence 3444444443
No 162
>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=37.85 E-value=24 Score=31.06 Aligned_cols=25 Identities=32% Similarity=0.656 Sum_probs=21.9
Q ss_pred ceeecccccccccchhhHHHHHHH-h
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKT-C 163 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~-~ 163 (241)
+-|.|..|.+.|.....+..|+.. |
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhh
Confidence 347899999999999999999987 7
No 163
>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=37.24 E-value=18 Score=18.67 Aligned_cols=11 Identities=18% Similarity=0.682 Sum_probs=6.1
Q ss_pred ceeeccccccc
Q 026210 139 KKYKCERCSKK 149 (241)
Q Consensus 139 k~~~C~~C~k~ 149 (241)
..|.|..|+..
T Consensus 18 ~~~vCp~C~~e 28 (30)
T PF08274_consen 18 ELLVCPECGHE 28 (30)
T ss_dssp SSEEETTTTEE
T ss_pred CEEeCCccccc
Confidence 34666666543
No 164
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.74 E-value=21 Score=24.56 Aligned_cols=15 Identities=13% Similarity=0.113 Sum_probs=10.1
Q ss_pred Cceeecccccccccc
Q 026210 138 EKKYKCERCSKKYAV 152 (241)
Q Consensus 138 ek~~~C~~C~k~f~~ 152 (241)
..|..|.+||+.|..
T Consensus 24 rdPiVsPytG~s~P~ 38 (129)
T COG4530 24 RDPIVSPYTGKSYPR 38 (129)
T ss_pred CCccccCcccccchH
Confidence 456777777777744
No 165
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=36.15 E-value=11 Score=25.39 Aligned_cols=12 Identities=17% Similarity=0.614 Sum_probs=7.7
Q ss_pred eecccccccccc
Q 026210 141 YKCERCSKKYAV 152 (241)
Q Consensus 141 ~~C~~C~k~f~~ 152 (241)
..|..||..|..
T Consensus 47 ~~Cg~CGls~e~ 58 (104)
T COG4888 47 AVCGNCGLSFEC 58 (104)
T ss_pred EEcccCcceEEE
Confidence 567777766643
No 166
>PF11494 Ta0938: Ta0938; InterPro: IPR021585 Ta0938 is a protein of unknown function however the structure has been determined. The protein has a novel fold and a putative Zn-binding motif. The structure has two different parts, one region contains a beta sheet flanked by two alpha helices and the other contains a bundle of loops which contain all cysteines in the protein. ; PDB: 2FQH_A.
Probab=35.89 E-value=15 Score=24.65 Aligned_cols=36 Identities=25% Similarity=0.564 Sum_probs=10.9
Q ss_pred CceeecccccccccchhhHHHHHHHhCCcceec-C-CCCCcCC
Q 026210 138 EKKYKCERCSKKYAVQSDWKAHMKTCGTREYKC-D-CGTIFSR 178 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C-~-C~k~f~~ 178 (241)
.|.-.|..||+.+..- +...-|+|.|.| + |-+.|.+
T Consensus 12 ~ke~~CalCG~tWg~~-----y~Ev~G~rLfFCCd~ca~EF~n 49 (105)
T PF11494_consen 12 TKEMGCALCGATWGDY-----YEEVDGERLFFCCDDCAKEFKN 49 (105)
T ss_dssp SGGGS-SS---S---S-----S-B-TT--BSSS--SSSS-TTS
T ss_pred cccccccccCCcHHHH-----HHhhcCCEEEEEcHHHHHHHHH
Confidence 3444566666554422 223345554433 4 6666654
No 167
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=35.77 E-value=41 Score=25.14 Aligned_cols=21 Identities=33% Similarity=0.860 Sum_probs=14.7
Q ss_pred ceeecccccccccchhhHHHH
Q 026210 139 KKYKCERCSKKYAVQSDWKAH 159 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H 159 (241)
.-|.|..||+.|..-+++..=
T Consensus 129 ~f~~C~~CgkiYW~GsHw~~m 149 (165)
T COG1656 129 EFYRCPKCGKIYWKGSHWRRM 149 (165)
T ss_pred ceeECCCCcccccCchHHHHH
Confidence 456788888888877666543
No 168
>COG1773 Rubredoxin [Energy production and conversion]
Probab=35.55 E-value=17 Score=21.70 Aligned_cols=15 Identities=20% Similarity=0.773 Sum_probs=11.6
Q ss_pred eeecccccccccchh
Q 026210 140 KYKCERCSKKYAVQS 154 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~ 154 (241)
.|+|..||..|.-..
T Consensus 3 ~~~C~~CG~vYd~e~ 17 (55)
T COG1773 3 RWRCSVCGYVYDPEK 17 (55)
T ss_pred ceEecCCceEecccc
Confidence 588999998886543
No 169
>PRK04023 DNA polymerase II large subunit; Validated
Probab=35.53 E-value=40 Score=32.72 Aligned_cols=11 Identities=36% Similarity=0.718 Sum_probs=6.9
Q ss_pred CCccccccccc
Q 026210 63 NRFVCEICNKG 73 (241)
Q Consensus 63 ~~~~C~~C~~~ 73 (241)
....|+.||..
T Consensus 625 g~RfCpsCG~~ 635 (1121)
T PRK04023 625 GRRKCPSCGKE 635 (1121)
T ss_pred cCccCCCCCCc
Confidence 34567777765
No 170
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=35.52 E-value=42 Score=28.00 Aligned_cols=25 Identities=24% Similarity=0.608 Sum_probs=18.2
Q ss_pred ceeecccccccccchhhHHHHHHHh
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKTC 163 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~~ 163 (241)
-.|.|..|...|-.--+.-.|...|
T Consensus 344 ~~y~C~~Ck~~FCldCDv~iHesLh 368 (378)
T KOG2807|consen 344 GRYRCESCKNVFCLDCDVFIHESLH 368 (378)
T ss_pred CcEEchhccceeeccchHHHHhhhh
Confidence 3488888888887777777776654
No 171
>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 PLN03238 probable histone acetyltransferase MYST; Provisional
Probab=35.44 E-value=31 Score=28.32 Aligned_cols=24 Identities=29% Similarity=0.491 Sum_probs=12.3
Q ss_pred ceeecccccccccchhhHHHHHHH
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
.-|.|+.|-+-|.....|.+|+..
T Consensus 47 ~lyiCe~Clky~~~~~~l~~H~~~ 70 (290)
T PLN03238 47 KLYICEYCLKYMRKKKSLLRHLAK 70 (290)
T ss_pred eEEEcCCCcchhCCHHHHHHHHHh
Confidence 345555555555555555555443
No 173
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=35.40 E-value=15 Score=20.21 Aligned_cols=10 Identities=30% Similarity=1.315 Sum_probs=5.6
Q ss_pred eecccccccc
Q 026210 141 YKCERCSKKY 150 (241)
Q Consensus 141 ~~C~~C~k~f 150 (241)
|.|..|+..|
T Consensus 29 y~C~~C~~~w 38 (40)
T smart00440 29 YVCTKCGHRW 38 (40)
T ss_pred EEeCCCCCEe
Confidence 5565565544
No 174
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=35.25 E-value=22 Score=32.11 Aligned_cols=28 Identities=21% Similarity=0.451 Sum_probs=20.6
Q ss_pred CCcceecC-CCCCcCCcchHHHHHHhccC
Q 026210 164 GTREYKCD-CGTIFSRRDSFITHRAFCDA 191 (241)
Q Consensus 164 ~~k~~~C~-C~k~f~~~~~L~~H~~~~~~ 191 (241)
..++-.|. ||.+|.......+||..|..
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~d 443 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDD 443 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhh
Confidence 34567788 88888888877777777743
No 175
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=34.69 E-value=17 Score=26.66 Aligned_cols=14 Identities=14% Similarity=0.717 Sum_probs=8.9
Q ss_pred eeecccccccccch
Q 026210 140 KYKCERCSKKYAVQ 153 (241)
Q Consensus 140 ~~~C~~C~k~f~~~ 153 (241)
.-.|..||..|.+.
T Consensus 28 RReC~~C~~RFTTf 41 (156)
T COG1327 28 RRECLECGERFTTF 41 (156)
T ss_pred hhcccccccccchh
Confidence 34677777776654
No 176
>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=34.51 E-value=14 Score=33.10 Aligned_cols=9 Identities=22% Similarity=0.811 Sum_probs=4.7
Q ss_pred eeecccccc
Q 026210 140 KYKCERCSK 148 (241)
Q Consensus 140 ~~~C~~C~k 148 (241)
+..|..||.
T Consensus 253 ~~~Cp~C~s 261 (505)
T TIGR00595 253 PKTCPQCGS 261 (505)
T ss_pred CCCCCCCCC
Confidence 445555553
No 177
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=34.40 E-value=18 Score=26.49 Aligned_cols=16 Identities=13% Similarity=0.613 Sum_probs=10.5
Q ss_pred eeecccccccccchhh
Q 026210 140 KYKCERCSKKYAVQSD 155 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~ 155 (241)
.-.|..||+.|++-..
T Consensus 28 RReC~~C~~RFTTyEr 43 (147)
T TIGR00244 28 RRECLECHERFTTFER 43 (147)
T ss_pred cccCCccCCccceeee
Confidence 3567777777776543
No 178
>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=34.33 E-value=11 Score=27.55 Aligned_cols=32 Identities=25% Similarity=0.866 Sum_probs=20.9
Q ss_pred ceeecccccccccchhhHHHHHHHhCCcceecC-CCCCcC
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFS 177 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~ 177 (241)
-.|.|..|+..+.... +. ....|.|. |+-.|.
T Consensus 122 ~~~~C~~C~~~~~r~~------~~-~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKRHR------RS-KRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeeeec------cc-chhhEECCCCCCEEE
Confidence 3588999998775442 22 23458898 886654
No 179
>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=34.24 E-value=11 Score=22.13 Aligned_cols=27 Identities=30% Similarity=0.631 Sum_probs=16.5
Q ss_pred CCCccccccccccCChhHHHHHhhhcC
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
...|.|+.|...|-..-.+-.|...|.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH~ 45 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLHN 45 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-S
T ss_pred CCeEECCCCCCccccCcChhhhccccC
Confidence 457999999999998888887776664
No 180
>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=33.54 E-value=12 Score=18.93 Aligned_cols=9 Identities=44% Similarity=1.150 Sum_probs=4.1
Q ss_pred ecccccccc
Q 026210 142 KCERCSKKY 150 (241)
Q Consensus 142 ~C~~C~k~f 150 (241)
.|-.|++.|
T Consensus 2 sCiDC~~~F 10 (28)
T PF08790_consen 2 SCIDCSKDF 10 (28)
T ss_dssp EETTTTEEE
T ss_pred eeecCCCCc
Confidence 344444444
No 181
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=33.48 E-value=21 Score=20.74 Aligned_cols=18 Identities=17% Similarity=0.698 Sum_probs=13.5
Q ss_pred Cceeecccccccccchhh
Q 026210 138 EKKYKCERCSKKYAVQSD 155 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~ 155 (241)
++.+.|..||..|.....
T Consensus 2 Dk~l~C~dCg~~FvfTa~ 19 (49)
T PF13451_consen 2 DKTLTCKDCGAEFVFTAG 19 (49)
T ss_pred CeeEEcccCCCeEEEehh
Confidence 467889999988876544
No 182
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=33.25 E-value=25 Score=21.22 Aligned_cols=15 Identities=13% Similarity=0.536 Sum_probs=10.2
Q ss_pred ceeecccccccccch
Q 026210 139 KKYKCERCSKKYAVQ 153 (241)
Q Consensus 139 k~~~C~~C~k~f~~~ 153 (241)
..+.|..||.....+
T Consensus 36 D~irCReCG~RIlyK 50 (62)
T KOG3507|consen 36 DVIRCRECGYRILYK 50 (62)
T ss_pred CcEehhhcchHHHHH
Confidence 357888888765554
No 183
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=33.06 E-value=16 Score=26.58 Aligned_cols=32 Identities=25% Similarity=0.807 Sum_probs=19.0
Q ss_pred eeecccccccccchhhHHHHHHHhCCcceecC-CCCCcC
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTIFS 177 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~f~ 177 (241)
.|.|..|+..+.+ +.+......|.|. |+-.|.
T Consensus 112 ~y~C~~C~~~~~~------~rr~~~~~~y~C~~C~g~l~ 144 (146)
T smart00731 112 PYRCTGCGQRYLR------VRRSNNVSRYRCGKCGGKLI 144 (146)
T ss_pred EEECCCCCCCCce------EccccCcceEEcCCCCCEEE
Confidence 5788888876642 2222122668887 876553
No 184
>PRK14873 primosome assembly protein PriA; Provisional
Probab=33.03 E-value=13 Score=34.41 Aligned_cols=9 Identities=33% Similarity=1.294 Sum_probs=4.2
Q ss_pred eeecccccc
Q 026210 140 KYKCERCSK 148 (241)
Q Consensus 140 ~~~C~~C~k 148 (241)
++.|..||.
T Consensus 422 p~~Cp~Cgs 430 (665)
T PRK14873 422 DWRCPRCGS 430 (665)
T ss_pred CccCCCCcC
Confidence 344555543
No 185
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=32.50 E-value=12 Score=26.17 Aligned_cols=16 Identities=19% Similarity=0.499 Sum_probs=10.7
Q ss_pred CCCccccccccccCCh
Q 026210 62 TNRFVCEICNKGFQRD 77 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~ 77 (241)
...+.|.-||..+...
T Consensus 20 ~~~l~C~kCgye~~~~ 35 (113)
T COG1594 20 GGKLVCRKCGYEEEAS 35 (113)
T ss_pred CcEEECCCCCcchhcc
Confidence 3467788888766554
No 186
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=32.35 E-value=25 Score=24.48 Aligned_cols=12 Identities=25% Similarity=0.465 Sum_probs=7.0
Q ss_pred eecccccccccc
Q 026210 141 YKCERCSKKYAV 152 (241)
Q Consensus 141 ~~C~~C~k~f~~ 152 (241)
+.|..||..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (113)
T PRK12380 71 AWCWDCSQVVEI 82 (113)
T ss_pred EEcccCCCEEec
Confidence 556666655544
No 187
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.23 E-value=20 Score=31.03 Aligned_cols=38 Identities=21% Similarity=0.580 Sum_probs=26.4
Q ss_pred cCccccCCCCCcccCCCCCcCCChhhHhhhhccccCCceeeccccccc
Q 026210 102 RKKVYVCPESTCVHHNPARALGDLTGIKKHFSRKHGEKKYKCERCSKK 149 (241)
Q Consensus 102 ~~~~~~C~~C~c~~~~~~~~f~~~~~l~~H~~~h~~ek~~~C~~C~k~ 149 (241)
....|.|+.| .+.|.....++ ..-...--|.|..|+-.
T Consensus 125 ~~~~Y~Cp~C-------~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 125 NVAGYVCPNC-------QKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred ccccccCCcc-------ccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 4577999999 88887765443 33333345999999743
No 188
>PRK14873 primosome assembly protein PriA; Provisional
Probab=31.81 E-value=33 Score=31.92 Aligned_cols=28 Identities=18% Similarity=0.667 Sum_probs=19.4
Q ss_pred ccccCCceeecccccccccchhhHHHHHHHhCCcceecC-CCCC
Q 026210 133 SRKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTI 175 (241)
Q Consensus 133 ~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~ 175 (241)
..|.......|..||.. ..+..|. |+..
T Consensus 403 ~~h~~~~~l~Ch~CG~~---------------~~p~~Cp~Cgs~ 431 (665)
T PRK14873 403 GLPSAGGTPRCRWCGRA---------------APDWRCPRCGSD 431 (665)
T ss_pred eEecCCCeeECCCCcCC---------------CcCccCCCCcCC
Confidence 34555667899999953 1366899 9865
No 189
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.04 E-value=18 Score=27.31 Aligned_cols=15 Identities=20% Similarity=0.346 Sum_probs=10.3
Q ss_pred hhhcCccccCCCCCc
Q 026210 99 KEVRKKVYVCPESTC 113 (241)
Q Consensus 99 ~~~~~~~~~C~~C~c 113 (241)
.+..+..|.|++|.+
T Consensus 125 ~~~~~~~~~CPiCl~ 139 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLD 139 (187)
T ss_pred ccccccccCCCceec
Confidence 334566799999943
No 190
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.99 E-value=33 Score=32.25 Aligned_cols=28 Identities=18% Similarity=0.553 Sum_probs=17.3
Q ss_pred cccCCceeecccccccccchhhHHHHHHHhCCcceecC-CCCC
Q 026210 134 RKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGTI 175 (241)
Q Consensus 134 ~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k~ 175 (241)
.|.......|..||.. ...|..|. ||-.
T Consensus 456 ~H~~~~~L~CH~Cg~~--------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 456 LHKATGQLRCHYCGYQ--------------EPIPQSCPECGSE 484 (730)
T ss_pred EecCCCeeEeCCCCCC--------------CCCCCCCCCCCCC
Confidence 3444455778888754 23567787 8754
No 191
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=30.68 E-value=23 Score=25.36 Aligned_cols=17 Identities=35% Similarity=1.128 Sum_probs=12.6
Q ss_pred CCceeecccccccccch
Q 026210 137 GEKKYKCERCSKKYAVQ 153 (241)
Q Consensus 137 ~ek~~~C~~C~k~f~~~ 153 (241)
+...|+|..|++.|...
T Consensus 50 ~~qRyrC~~C~~tf~~~ 66 (129)
T COG3677 50 GHQRYKCKSCGSTFTVE 66 (129)
T ss_pred cccccccCCcCcceeee
Confidence 35568888888888754
No 192
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=30.58 E-value=32 Score=18.52 Aligned_cols=7 Identities=57% Similarity=1.735 Sum_probs=3.0
Q ss_pred eeccccc
Q 026210 141 YKCERCS 147 (241)
Q Consensus 141 ~~C~~C~ 147 (241)
|.|..||
T Consensus 26 ~yC~~cG 32 (36)
T PF11781_consen 26 YYCDRCG 32 (36)
T ss_pred EEhhhCc
Confidence 4444444
No 193
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=30.50 E-value=11 Score=20.69 Aligned_cols=11 Identities=27% Similarity=0.936 Sum_probs=7.1
Q ss_pred eeecccccccc
Q 026210 140 KYKCERCSKKY 150 (241)
Q Consensus 140 ~~~C~~C~k~f 150 (241)
-|.|..||..|
T Consensus 28 fy~C~~C~~~w 38 (39)
T PF01096_consen 28 FYVCCNCGHRW 38 (39)
T ss_dssp EEEESSSTEEE
T ss_pred EEEeCCCCCee
Confidence 36777777655
No 194
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=30.35 E-value=33 Score=30.12 Aligned_cols=38 Identities=13% Similarity=0.229 Sum_probs=29.6
Q ss_pred eecccccccccchhhHHHHHHH--hCCcceecCCCCCcCCcchHHHHHHhcc
Q 026210 141 YKCERCSKKYAVQSDWKAHMKT--CGTREYKCDCGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 141 ~~C~~C~k~f~~~~~L~~H~~~--~~~k~~~C~C~k~f~~~~~L~~H~~~~~ 190 (241)
+.|.+|.|.|.+..+|..|... |.+ ....|+.+|.-+.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHke------------nv~eLrqemEEEe 332 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKE------------NVAELRQEMEEEE 332 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHH------------HHHHHHHHHHHhh
Confidence 7899999999999999999887 643 2345667776653
No 195
>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=30.28 E-value=37 Score=24.90 Aligned_cols=9 Identities=33% Similarity=1.014 Sum_probs=6.1
Q ss_pred eeccccccc
Q 026210 141 YKCERCSKK 149 (241)
Q Consensus 141 ~~C~~C~k~ 149 (241)
|.|..||..
T Consensus 113 l~C~~Cg~~ 121 (146)
T PF07295_consen 113 LVCENCGHE 121 (146)
T ss_pred EecccCCCE
Confidence 677777754
No 196
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=29.96 E-value=29 Score=18.72 Aligned_cols=19 Identities=32% Similarity=0.880 Sum_probs=11.9
Q ss_pred HhhhhccccCCceeecccc
Q 026210 128 IKKHFSRKHGEKKYKCERC 146 (241)
Q Consensus 128 l~~H~~~h~~ek~~~C~~C 146 (241)
+.+|-+...|...|.|..|
T Consensus 17 v~k~G~~~~G~qryrC~~C 35 (36)
T PF03811_consen 17 VKKNGKSPSGHQRYRCKDC 35 (36)
T ss_pred ceeCCCCCCCCEeEecCcC
Confidence 4455555666666777766
No 197
>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=29.72 E-value=48 Score=18.56 Aligned_cols=16 Identities=19% Similarity=0.765 Sum_probs=12.8
Q ss_pred cccccccccCChhHHH
Q 026210 66 VCEICNKGFQRDQNLQ 81 (241)
Q Consensus 66 ~C~~C~~~f~~~~~L~ 81 (241)
.|..||+.|.......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 4999999998776554
No 198
>PF12662 cEGF: Complement Clr-like EGF-like
Probab=29.32 E-value=30 Score=16.79 Aligned_cols=12 Identities=25% Similarity=0.786 Sum_probs=9.0
Q ss_pred eecCCCCCcCCc
Q 026210 168 YKCDCGTIFSRR 179 (241)
Q Consensus 168 ~~C~C~k~f~~~ 179 (241)
|.|.|...|...
T Consensus 2 y~C~C~~Gy~l~ 13 (24)
T PF12662_consen 2 YTCSCPPGYQLS 13 (24)
T ss_pred EEeeCCCCCcCC
Confidence 788888888643
No 199
>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=29.30 E-value=22 Score=19.86 Aligned_cols=15 Identities=27% Similarity=0.955 Sum_probs=9.3
Q ss_pred ceeecccccccccch
Q 026210 139 KKYKCERCSKKYAVQ 153 (241)
Q Consensus 139 k~~~C~~C~k~f~~~ 153 (241)
-+|.|..|++.|-..
T Consensus 12 ~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLK 26 (43)
T ss_dssp SHEE-TTTS-EE-TT
T ss_pred CCeECCCCCcccCcc
Confidence 468899998888765
No 200
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=28.92 E-value=19 Score=30.21 Aligned_cols=23 Identities=13% Similarity=0.423 Sum_probs=10.8
Q ss_pred eeecccccccccchhhHHHHHHH
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
-|.|.+|++.=.+...|..|...
T Consensus 79 SftCPyC~~~Gfte~~f~~Hv~s 101 (381)
T KOG1280|consen 79 SFTCPYCGIMGFTERQFGTHVLS 101 (381)
T ss_pred cccCCcccccccchhHHHHHhhh
Confidence 34455555444444444444444
No 201
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=28.15 E-value=34 Score=23.21 Aligned_cols=16 Identities=19% Similarity=0.524 Sum_probs=13.2
Q ss_pred CccccccccccCChhH
Q 026210 64 RFVCEICNKGFQRDQN 79 (241)
Q Consensus 64 ~~~C~~C~~~f~~~~~ 79 (241)
++.|..||..|.+-..
T Consensus 2 pH~CtrCG~vf~~g~~ 17 (112)
T COG3364 2 PHQCTRCGEVFDDGSE 17 (112)
T ss_pred CceecccccccccccH
Confidence 6789999999988543
No 202
>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=27.75 E-value=44 Score=18.16 Aligned_cols=23 Identities=26% Similarity=0.717 Sum_probs=9.5
Q ss_pred CCccccccccccC-ChhHH-HHHhh
Q 026210 63 NRFVCEICNKGFQ-RDQNL-QLHRR 85 (241)
Q Consensus 63 ~~~~C~~C~~~f~-~~~~L-~~H~~ 85 (241)
+.|-|+.|..-|. +.... +.|.+
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~ 26 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHER 26 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT-
T ss_pred cCeecccccceecCCChHHHHHhhc
Confidence 4588999999993 44333 55643
No 203
>PTZ00448 hypothetical protein; Provisional
Probab=27.12 E-value=40 Score=28.66 Aligned_cols=23 Identities=17% Similarity=0.547 Sum_probs=20.9
Q ss_pred eeecccccccccchhhHHHHHHH
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
.|.|..|+..|......+.|+++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CccccccccccCCHHHHHHHhhh
Confidence 58899999999988999999987
No 204
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.03 E-value=33 Score=24.00 Aligned_cols=13 Identities=23% Similarity=0.777 Sum_probs=7.5
Q ss_pred eeecccccccccc
Q 026210 140 KYKCERCSKKYAV 152 (241)
Q Consensus 140 ~~~C~~C~k~f~~ 152 (241)
.+.|..||..|..
T Consensus 71 ~~~C~~Cg~~~~~ 83 (117)
T PRK00564 71 ELECKDCSHVFKP 83 (117)
T ss_pred EEEhhhCCCcccc
Confidence 3566666655544
No 205
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=26.88 E-value=33 Score=20.61 Aligned_cols=35 Identities=17% Similarity=0.464 Sum_probs=19.9
Q ss_pred CCCccccccccccCChhHHHHHhhhcCCCchhhhcchhhhcCccccCCCCCc
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLKQRNSKEVRKKVYVCPESTC 113 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~~h~~~~~~~~~~~~~~~~~~~~C~~C~c 113 (241)
+.|++...|+..|.... +..+++ ..+...|++-||
T Consensus 22 ~~PV~s~~C~H~fek~a-I~~~i~----------------~~~~~~CPv~GC 56 (57)
T PF11789_consen 22 EDPVKSKKCGHTFEKEA-ILQYIQ----------------RNGSKRCPVAGC 56 (57)
T ss_dssp SSEEEESSS--EEEHHH-HHHHCT----------------TTS-EE-SCCC-
T ss_pred hCCcCcCCCCCeecHHH-HHHHHH----------------hcCCCCCCCCCC
Confidence 46777888999997754 444542 456678988655
No 206
>PF06397 Desulfoferrod_N: Desulfoferrodoxin, N-terminal domain; InterPro: IPR004462 This domain is found as essentially the full length of desulforedoxin, a 37-residue homodimeric non-haem iron protein. It is also found as the N-terminal domain of desulfoferrodoxin (rbo), a homodimeric non-haem iron protein with 2 Fe atoms per monomer in different oxidation states. This domain binds the ferric rather than the ferrous Fe of desulfoferrodoxin. Neelaredoxin, a monomeric blue non-haem iron protein, lacks this domain.; GO: 0005506 iron ion binding; PDB: 1DFX_A 1VZI_B 2JI2_D 1VZH_B 2JI3_C 2JI1_C 1VZG_A 1CFW_A 2LK5_B 1DHG_B ....
Probab=26.77 E-value=29 Score=18.77 Aligned_cols=12 Identities=42% Similarity=0.946 Sum_probs=6.2
Q ss_pred ceeecccccccc
Q 026210 139 KKYKCERCSKKY 150 (241)
Q Consensus 139 k~~~C~~C~k~f 150 (241)
+-|+|..||...
T Consensus 5 ~~YkC~~CGniV 16 (36)
T PF06397_consen 5 EFYKCEHCGNIV 16 (36)
T ss_dssp EEEE-TTT--EE
T ss_pred cEEEccCCCCEE
Confidence 457888888654
No 207
>PF12907 zf-met2: Zinc-binding
Probab=26.58 E-value=34 Score=18.98 Aligned_cols=22 Identities=18% Similarity=0.533 Sum_probs=11.5
Q ss_pred eeccccccccc---chhhHHHHHHH
Q 026210 141 YKCERCSKKYA---VQSDWKAHMKT 162 (241)
Q Consensus 141 ~~C~~C~k~f~---~~~~L~~H~~~ 162 (241)
+.|.+|-..|. +...|..|...
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~en 26 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAEN 26 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHc
Confidence 45666664443 33446666555
No 208
>PLN02294 cytochrome c oxidase subunit Vb
Probab=26.56 E-value=31 Score=25.91 Aligned_cols=17 Identities=24% Similarity=0.725 Sum_probs=13.4
Q ss_pred CCCCccccccccccCCh
Q 026210 61 ATNRFVCEICNKGFQRD 77 (241)
Q Consensus 61 ~~~~~~C~~C~~~f~~~ 77 (241)
..+++.|.+||..|.-.
T Consensus 138 kGkp~RCpeCG~~fkL~ 154 (174)
T PLN02294 138 KGKSFECPVCTQYFELE 154 (174)
T ss_pred CCCceeCCCCCCEEEEE
Confidence 45689999999998543
No 209
>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=26.39 E-value=54 Score=20.17 Aligned_cols=15 Identities=13% Similarity=0.534 Sum_probs=9.5
Q ss_pred Cceeecccccccccc
Q 026210 138 EKKYKCERCSKKYAV 152 (241)
Q Consensus 138 ek~~~C~~C~k~f~~ 152 (241)
.+.|.|..||..+.+
T Consensus 44 ~r~~~C~~Cg~~~~r 58 (69)
T PF07282_consen 44 GRVFTCPNCGFEMDR 58 (69)
T ss_pred cceEEcCCCCCEECc
Confidence 456777777766443
No 210
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=26.10 E-value=42 Score=25.16 Aligned_cols=24 Identities=17% Similarity=0.451 Sum_probs=21.5
Q ss_pred CCCccccccccccCChhHHHHHhh
Q 026210 62 TNRFVCEICNKGFQRDQNLQLHRR 85 (241)
Q Consensus 62 ~~~~~C~~C~~~f~~~~~L~~H~~ 85 (241)
...|-|.+|+-+|.+..++..|+.
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiN 96 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHIN 96 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhc
Confidence 457899999999999999999975
No 211
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=25.91 E-value=46 Score=29.01 Aligned_cols=29 Identities=21% Similarity=0.472 Sum_probs=23.3
Q ss_pred cccCCceeeccccc-ccccchhhHHHHHHH
Q 026210 134 RKHGEKKYKCERCS-KKYAVQSDWKAHMKT 162 (241)
Q Consensus 134 ~h~~ek~~~C~~C~-k~f~~~~~L~~H~~~ 162 (241)
.|-=...|.|.+|| +++.-...+.+|..-
T Consensus 395 LHGL~~ey~CEICGNy~Y~GrkaF~RHF~E 424 (497)
T KOG2636|consen 395 LHGLDIEYNCEICGNYVYKGRKAFDRHFNE 424 (497)
T ss_pred hcCCCcccceeeccCccccCcHHHHHHhHH
Confidence 34445679999999 889999999999764
No 212
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=25.83 E-value=33 Score=23.97 Aligned_cols=12 Identities=33% Similarity=0.827 Sum_probs=6.4
Q ss_pred eecccccccccc
Q 026210 141 YKCERCSKKYAV 152 (241)
Q Consensus 141 ~~C~~C~k~f~~ 152 (241)
+.|..||..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (115)
T TIGR00100 71 CECEDCSEEVSP 82 (115)
T ss_pred EEcccCCCEEec
Confidence 455555555544
No 213
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=25.56 E-value=47 Score=27.34 Aligned_cols=12 Identities=25% Similarity=0.584 Sum_probs=5.7
Q ss_pred eeeccccccccc
Q 026210 140 KYKCERCSKKYA 151 (241)
Q Consensus 140 ~~~C~~C~k~f~ 151 (241)
..+|+.|+..+.
T Consensus 26 ~~~c~~c~~~~~ 37 (285)
T TIGR00515 26 WTKCPKCGQVLY 37 (285)
T ss_pred eeECCCCcchhh
Confidence 345555554433
No 214
>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=25.09 E-value=25 Score=24.44 Aligned_cols=14 Identities=14% Similarity=0.778 Sum_probs=8.4
Q ss_pred eeecccccccccch
Q 026210 140 KYKCERCSKKYAVQ 153 (241)
Q Consensus 140 ~~~C~~C~k~f~~~ 153 (241)
.+.|..||+.|.-.
T Consensus 70 ~~~C~~Cg~~~~~~ 83 (113)
T PF01155_consen 70 RARCRDCGHEFEPD 83 (113)
T ss_dssp EEEETTTS-EEECH
T ss_pred cEECCCCCCEEecC
Confidence 35677777776654
No 215
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=24.85 E-value=25 Score=24.01 Aligned_cols=8 Identities=38% Similarity=1.173 Sum_probs=4.6
Q ss_pred eecccccc
Q 026210 141 YKCERCSK 148 (241)
Q Consensus 141 ~~C~~C~k 148 (241)
|.|..|+.
T Consensus 32 y~C~~C~A 39 (102)
T PF11672_consen 32 YVCTPCDA 39 (102)
T ss_pred EECCCCCc
Confidence 56666653
No 216
>PF07150 DUF1390: Protein of unknown function (DUF1390); InterPro: IPR009820 This entry is represented by Paramecium bursaria Chlorella virus 1, A79R; it is a family of uncharacterised viral proteins.
Probab=24.74 E-value=20 Score=28.36 Aligned_cols=19 Identities=26% Similarity=0.562 Sum_probs=9.7
Q ss_pred eeecccccccccchhhHHHH
Q 026210 140 KYKCERCSKKYAVQSDWKAH 159 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H 159 (241)
-|.| .||.......+..+|
T Consensus 7 lY~C-~CGYkT~~~gnAsKH 25 (229)
T PF07150_consen 7 LYTC-GCGYKTTNKGNASKH 25 (229)
T ss_pred EEEe-cCCceecCCcccccc
Confidence 3555 355555555544444
No 217
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=24.74 E-value=28 Score=18.53 Aligned_cols=14 Identities=29% Similarity=0.572 Sum_probs=7.7
Q ss_pred ccccccccccCChh
Q 026210 65 FVCEICNKGFQRDQ 78 (241)
Q Consensus 65 ~~C~~C~~~f~~~~ 78 (241)
-.|..|++.|....
T Consensus 4 ~~C~eC~~~f~dSy 17 (34)
T PF01286_consen 4 PKCDECGKPFMDSY 17 (34)
T ss_dssp EE-TTT--EES-SS
T ss_pred chHhHhCCHHHHHH
Confidence 36999999998765
No 218
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=24.71 E-value=57 Score=19.42 Aligned_cols=13 Identities=23% Similarity=0.728 Sum_probs=7.1
Q ss_pred Cceeecccccccc
Q 026210 138 EKKYKCERCSKKY 150 (241)
Q Consensus 138 ek~~~C~~C~k~f 150 (241)
+--..|..|+..+
T Consensus 19 dDiVvCp~Cgapy 31 (54)
T PF14446_consen 19 DDIVVCPECGAPY 31 (54)
T ss_pred CCEEECCCCCCcc
Confidence 3345666666553
No 219
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=24.69 E-value=30 Score=32.15 Aligned_cols=21 Identities=38% Similarity=0.738 Sum_probs=14.6
Q ss_pred CcceecC-CCCCcCCcchHHHH
Q 026210 165 TREYKCD-CGTIFSRRDSFITH 185 (241)
Q Consensus 165 ~k~~~C~-C~k~f~~~~~L~~H 185 (241)
.|.-+|+ |+..|.-..-+..|
T Consensus 676 tRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 676 TRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred HhcCCCCCCCCCCCcccccccC
Confidence 3566888 99888876655444
No 220
>PTZ00064 histone acetyltransferase; Provisional
Probab=24.62 E-value=47 Score=29.56 Aligned_cols=26 Identities=27% Similarity=0.551 Sum_probs=19.5
Q ss_pred CcceecC-CCCCcCCcchHHHHHHhcc
Q 026210 165 TREYKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 165 ~k~~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
...|.|+ |-+-|.....|.+|+..+.
T Consensus 278 d~LYICEfCLkY~~s~~~l~rH~~~C~ 304 (552)
T PTZ00064 278 DTLHFCEYCLDFFCFEDELIRHLSRCQ 304 (552)
T ss_pred CeEEEccchhhhhCCHHHHHHHHhcCC
Confidence 3457888 8888888888888877654
No 221
>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=24.49 E-value=45 Score=18.48 Aligned_cols=12 Identities=25% Similarity=0.755 Sum_probs=9.5
Q ss_pred ceeecccccccc
Q 026210 139 KKYKCERCSKKY 150 (241)
Q Consensus 139 k~~~C~~C~k~f 150 (241)
+.-.|..||..|
T Consensus 28 ~~~~CpYCg~~y 39 (40)
T PF10276_consen 28 GPVVCPYCGTRY 39 (40)
T ss_dssp CEEEETTTTEEE
T ss_pred CeEECCCCCCEE
Confidence 467888888877
No 222
>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=24.37 E-value=27 Score=20.55 Aligned_cols=13 Identities=15% Similarity=0.871 Sum_probs=7.3
Q ss_pred cccccccccCChh
Q 026210 66 VCEICNKGFQRDQ 78 (241)
Q Consensus 66 ~C~~C~~~f~~~~ 78 (241)
.|++|++.|....
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 8999999997643
No 223
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=24.35 E-value=13 Score=23.54 Aligned_cols=38 Identities=26% Similarity=0.706 Sum_probs=15.7
Q ss_pred hhhccccCCceeecccccccccchhhHHHHHHHhCCcceecC-CCC
Q 026210 130 KHFSRKHGEKKYKCERCSKKYAVQSDWKAHMKTCGTREYKCD-CGT 174 (241)
Q Consensus 130 ~H~~~h~~ek~~~C~~C~k~f~~~~~L~~H~~~~~~k~~~C~-C~k 174 (241)
.|.......+...|..|+..+..... ..+ ..|.|. |+.
T Consensus 31 ~H~~~~~~~~~v~Cg~C~~~~~~~~~------~c~-~~~~C~~C~~ 69 (71)
T PF05495_consen 31 DHPFDRWPVKRVICGKCRTEQPIDEY------SCG-ADYFCPICGL 69 (71)
T ss_dssp SS---TTT--EEEETTT--EEES-SB------TT---SEEETTTTE
T ss_pred cCccccccccCeECCCCCCccChhhh------hcC-CCccCcCcCC
Confidence 44433334446777777776655433 111 456676 654
No 224
>PLN00104 MYST -like histone acetyltransferase; Provisional
Probab=24.27 E-value=44 Score=29.37 Aligned_cols=28 Identities=25% Similarity=0.641 Sum_probs=22.6
Q ss_pred CCcceecC-CCCCcCCcchHHHHHHhccC
Q 026210 164 GTREYKCD-CGTIFSRRDSFITHRAFCDA 191 (241)
Q Consensus 164 ~~k~~~C~-C~k~f~~~~~L~~H~~~~~~ 191 (241)
....|.|+ |-+-|.....|.+|+..+.-
T Consensus 195 ~~~lyiCe~Cl~y~~~~~~~~~H~~~C~~ 223 (450)
T PLN00104 195 CSKLYFCEFCLKFMKRKEQLQRHMKKCDL 223 (450)
T ss_pred CCeEEEchhhhhhhcCHHHHHHHHhcCCC
Confidence 34678999 99999999999999876643
No 225
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=23.87 E-value=42 Score=29.25 Aligned_cols=23 Identities=17% Similarity=0.375 Sum_probs=14.4
Q ss_pred eeecccccccccchhhHHHHHHH
Q 026210 140 KYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
-|.|++|.+-|...+.|..|...
T Consensus 15 gflCPiC~~dl~~~~~L~~H~d~ 37 (505)
T KOG1842|consen 15 GFLCPICLLDLPNLSALNDHLDV 37 (505)
T ss_pred cccCchHhhhhhhHHHHHHHHhh
Confidence 35666666666666666666655
No 226
>PTZ00448 hypothetical protein; Provisional
Probab=23.73 E-value=51 Score=28.04 Aligned_cols=24 Identities=25% Similarity=0.564 Sum_probs=21.2
Q ss_pred CCccccccccccCChhHHHHHhhh
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRRG 86 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~~ 86 (241)
..|.|..|+-.|.+....+.|++.
T Consensus 313 ~~~tC~~C~v~F~~~~~qR~H~KS 336 (373)
T PTZ00448 313 NMLLCRKCNIQLMDHNAFKQHYRS 336 (373)
T ss_pred CCccccccccccCCHHHHHHHhhh
Confidence 368899999999988999999876
No 227
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=23.56 E-value=45 Score=15.84 Aligned_cols=6 Identities=33% Similarity=1.292 Sum_probs=2.9
Q ss_pred cccccc
Q 026210 143 CERCSK 148 (241)
Q Consensus 143 C~~C~k 148 (241)
|..||.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444543
No 228
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=23.54 E-value=57 Score=27.02 Aligned_cols=13 Identities=23% Similarity=0.345 Sum_probs=6.5
Q ss_pred eeecccccccccc
Q 026210 140 KYKCERCSKKYAV 152 (241)
Q Consensus 140 ~~~C~~C~k~f~~ 152 (241)
+.+|+.|++.+..
T Consensus 38 w~kc~~C~~~~~~ 50 (296)
T CHL00174 38 WVQCENCYGLNYK 50 (296)
T ss_pred eeECCCccchhhH
Confidence 3455555554433
No 229
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=23.42 E-value=70 Score=17.49 Aligned_cols=21 Identities=10% Similarity=0.226 Sum_probs=14.1
Q ss_pred CceeecccccccccchhhHHH
Q 026210 138 EKKYKCERCSKKYAVQSDWKA 158 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~ 158 (241)
..-+.|..|+-.|.....|.+
T Consensus 17 ~~id~C~~C~G~W~d~~el~~ 37 (41)
T PF13453_consen 17 VEIDVCPSCGGIWFDAGELEK 37 (41)
T ss_pred EEEEECCCCCeEEccHHHHHH
Confidence 455678888777777666654
No 230
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=23.30 E-value=69 Score=26.58 Aligned_cols=16 Identities=13% Similarity=0.310 Sum_probs=7.8
Q ss_pred CCCCcCCcchHHHHHH
Q 026210 172 CGTIFSRRDSFITHRA 187 (241)
Q Consensus 172 C~k~f~~~~~L~~H~~ 187 (241)
|.++|..+..|..|+.
T Consensus 153 C~RTyLsqrDlqAHIn 168 (389)
T KOG2932|consen 153 CLRTYLSQRDLQAHIN 168 (389)
T ss_pred HHHHHhhHHHHHHHhh
Confidence 4455555545544443
No 231
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=23.13 E-value=47 Score=26.17 Aligned_cols=22 Identities=32% Similarity=0.581 Sum_probs=19.2
Q ss_pred ceeecccccccccchhhHHHHH
Q 026210 139 KKYKCERCSKKYAVQSDWKAHM 160 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~ 160 (241)
..|-|-+||..|.....|..|-
T Consensus 238 eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred cceEEEEeccccCCHHHHHHhC
Confidence 4699999999999999998873
No 232
>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=22.85 E-value=1.1e+02 Score=17.24 Aligned_cols=11 Identities=36% Similarity=1.183 Sum_probs=6.9
Q ss_pred Cceeecccccc
Q 026210 138 EKKYKCERCSK 148 (241)
Q Consensus 138 ek~~~C~~C~k 148 (241)
...|+|..|++
T Consensus 35 ~~~~~C~~C~~ 45 (46)
T PF12760_consen 35 RGRYRCKACRK 45 (46)
T ss_pred CCeEECCCCCC
Confidence 45577777754
No 233
>PF09332 Mcm10: Mcm10 replication factor; InterPro: IPR015411 Mcm10 is a eukaryotic DNA replication factor that regulates the stability and chromatin association of DNA polymerase alpha []. ; PDB: 2KWQ_A.
Probab=22.60 E-value=27 Score=29.53 Aligned_cols=14 Identities=21% Similarity=0.757 Sum_probs=5.4
Q ss_pred ceeecccccccccc
Q 026210 139 KKYKCERCSKKYAV 152 (241)
Q Consensus 139 k~~~C~~C~k~f~~ 152 (241)
+-|+|..|++.+..
T Consensus 284 RFFkC~~C~~Rt~s 297 (344)
T PF09332_consen 284 RFFKCKDCGNRTIS 297 (344)
T ss_dssp EEEE-T-TS-EEEE
T ss_pred eeEECCCCCCeeee
Confidence 34556555555433
No 234
>KOG0402 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=22.54 E-value=41 Score=21.89 Aligned_cols=11 Identities=45% Similarity=0.975 Sum_probs=6.5
Q ss_pred eeccccccccc
Q 026210 141 YKCERCSKKYA 151 (241)
Q Consensus 141 ~~C~~C~k~f~ 151 (241)
|.|..|.+.|.
T Consensus 55 W~C~~C~kv~a 65 (92)
T KOG0402|consen 55 WKCGSCKKVVA 65 (92)
T ss_pred EecCCccceec
Confidence 66666665554
No 235
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.45 E-value=50 Score=23.01 Aligned_cols=12 Identities=25% Similarity=0.648 Sum_probs=6.6
Q ss_pred eecccccccccc
Q 026210 141 YKCERCSKKYAV 152 (241)
Q Consensus 141 ~~C~~C~k~f~~ 152 (241)
+.|..||..|..
T Consensus 71 ~~C~~Cg~~~~~ 82 (114)
T PRK03681 71 CWCETCQQYVTL 82 (114)
T ss_pred EEcccCCCeeec
Confidence 556666654443
No 236
>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=22.07 E-value=79 Score=16.66 Aligned_cols=22 Identities=27% Similarity=0.643 Sum_probs=9.5
Q ss_pred eecC-CCCCcCCcchHHHHHHhcc
Q 026210 168 YKCD-CGTIFSRRDSFITHRAFCD 190 (241)
Q Consensus 168 ~~C~-C~k~f~~~~~L~~H~~~~~ 190 (241)
|.|. |++.+. .+.+..|+..+-
T Consensus 5 ~~C~nC~R~v~-a~RfA~HLekCm 27 (33)
T PF08209_consen 5 VECPNCGRPVA-ASRFAPHLEKCM 27 (33)
T ss_dssp EE-TTTSSEEE-GGGHHHHHHHHT
T ss_pred EECCCCcCCcc-hhhhHHHHHHHH
Confidence 4455 555432 233455555443
No 237
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=21.98 E-value=71 Score=16.76 Aligned_cols=12 Identities=17% Similarity=0.462 Sum_probs=7.1
Q ss_pred eeeccccccccc
Q 026210 140 KYKCERCSKKYA 151 (241)
Q Consensus 140 ~~~C~~C~k~f~ 151 (241)
-+.|..||..|.
T Consensus 21 ~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 21 YEVCIFCGSSFP 32 (33)
T ss_pred eEEcccCCcEee
Confidence 356666666553
No 238
>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=21.95 E-value=2.6e+02 Score=20.82 Aligned_cols=23 Identities=9% Similarity=0.509 Sum_probs=14.0
Q ss_pred CCccccccccccCChhHHHHHhhhcC
Q 026210 63 NRFVCEICNKGFQRDQNLQLHRRGHN 88 (241)
Q Consensus 63 ~~~~C~~C~~~f~~~~~L~~H~~~h~ 88 (241)
+|| .|+..|....-|.+-.+.+.
T Consensus 28 Rpy---mc~Ts~rhSNCLdqfkka~~ 50 (162)
T PF07800_consen 28 RPY---MCDTSYRHSNCLDQFKKAYG 50 (162)
T ss_pred ccc---ccCCccchhHHHHHHHHHhc
Confidence 555 45667766666666555554
No 239
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=21.90 E-value=38 Score=19.94 Aligned_cols=18 Identities=11% Similarity=0.318 Sum_probs=12.3
Q ss_pred cCCCCCccccccccccCC
Q 026210 59 LLATNRFVCEICNKGFQR 76 (241)
Q Consensus 59 ~~~~~~~~C~~C~~~f~~ 76 (241)
......|+|.+|++.|..
T Consensus 30 ~~~~~~~rC~YCe~~~~~ 47 (52)
T PF02748_consen 30 DKEPIKLRCHYCERIITE 47 (52)
T ss_dssp ETTTCEEEETTT--EEEH
T ss_pred eCCCCEEEeeCCCCEecc
Confidence 345678999999998854
No 240
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=21.53 E-value=1.4e+02 Score=24.93 Aligned_cols=27 Identities=30% Similarity=0.656 Sum_probs=21.7
Q ss_pred Cceeeccc---ccccccchhhHHHHHHH-hC
Q 026210 138 EKKYKCER---CSKKYAVQSDWKAHMKT-CG 164 (241)
Q Consensus 138 ek~~~C~~---C~k~f~~~~~L~~H~~~-~~ 164 (241)
+--|.|.. |.++|..+.+|..|+.. |+
T Consensus 142 g~iFmC~~~~GC~RTyLsqrDlqAHInhrH~ 172 (389)
T KOG2932|consen 142 GGIFMCAAPHGCLRTYLSQRDLQAHINHRHG 172 (389)
T ss_pred cceEEeecchhHHHHHhhHHHHHHHhhhhhc
Confidence 34688854 99999999999999887 64
No 241
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=21.47 E-value=23 Score=20.21 Aligned_cols=6 Identities=17% Similarity=0.988 Sum_probs=2.9
Q ss_pred cccccc
Q 026210 146 CSKKYA 151 (241)
Q Consensus 146 C~k~f~ 151 (241)
||..|.
T Consensus 33 Cg~tfv 38 (47)
T PF04606_consen 33 CGHTFV 38 (47)
T ss_pred CCCEEE
Confidence 555443
No 242
>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=21.47 E-value=49 Score=19.02 Aligned_cols=15 Identities=33% Similarity=0.824 Sum_probs=11.2
Q ss_pred eeecccccccccchh
Q 026210 140 KYKCERCSKKYAVQS 154 (241)
Q Consensus 140 ~~~C~~C~k~f~~~~ 154 (241)
.|.|.+||..|.-..
T Consensus 1 ky~C~~CgyvYd~~~ 15 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEK 15 (47)
T ss_dssp EEEETTTSBEEETTT
T ss_pred CcCCCCCCEEEcCCc
Confidence 378999998876553
No 243
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=21.42 E-value=59 Score=24.69 Aligned_cols=10 Identities=20% Similarity=1.082 Sum_probs=7.1
Q ss_pred eecccccccc
Q 026210 141 YKCERCSKKY 150 (241)
Q Consensus 141 ~~C~~C~k~f 150 (241)
|.|+.||-..
T Consensus 133 F~Cp~Cg~~L 142 (176)
T COG1675 133 FTCPKCGEDL 142 (176)
T ss_pred CCCCCCCchh
Confidence 7888887543
No 244
>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=21.33 E-value=65 Score=23.48 Aligned_cols=21 Identities=29% Similarity=0.803 Sum_probs=17.0
Q ss_pred CceeecccccccccchhhHHH
Q 026210 138 EKKYKCERCSKKYAVQSDWKA 158 (241)
Q Consensus 138 ek~~~C~~C~k~f~~~~~L~~ 158 (241)
+.-|.|..||+.|..-++..+
T Consensus 122 ~~f~~C~~C~kiyW~GsH~~~ 142 (147)
T PF01927_consen 122 DEFWRCPGCGKIYWEGSHWRR 142 (147)
T ss_pred CeEEECCCCCCEecccccHHH
Confidence 457899999999998876654
No 245
>PLN02748 tRNA dimethylallyltransferase
Probab=21.32 E-value=61 Score=28.80 Aligned_cols=26 Identities=23% Similarity=0.665 Sum_probs=22.5
Q ss_pred CCCcccccccc-ccCChhHHHHHhhhc
Q 026210 62 TNRFVCEICNK-GFQRDQNLQLHRRGH 87 (241)
Q Consensus 62 ~~~~~C~~C~~-~f~~~~~L~~H~~~h 87 (241)
.+.|.|+.|++ ++....+...|++..
T Consensus 416 ~~~~~Ce~C~~~~~~G~~eW~~Hlksr 442 (468)
T PLN02748 416 WTQYVCEACGNKVLRGAHEWEQHKQGR 442 (468)
T ss_pred cccccccCCCCcccCCHHHHHHHhcch
Confidence 57889999997 899999999998754
No 246
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=21.07 E-value=53 Score=28.85 Aligned_cols=21 Identities=19% Similarity=0.452 Sum_probs=19.2
Q ss_pred eecC-CCCCcCCcchHHHHHHh
Q 026210 168 YKCD-CGTIFSRRDSFITHRAF 188 (241)
Q Consensus 168 ~~C~-C~k~f~~~~~L~~H~~~ 188 (241)
+.|. |.|.|.+...|..|..+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnS 314 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENS 314 (508)
T ss_pred eEEeeccccccchHHHHhhHHH
Confidence 7899 99999999999999765
No 247
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=21.00 E-value=65 Score=27.24 Aligned_cols=29 Identities=17% Similarity=0.434 Sum_probs=23.2
Q ss_pred cccCCceeeccccc-ccccchhhHHHHHHH
Q 026210 134 RKHGEKKYKCERCS-KKYAVQSDWKAHMKT 162 (241)
Q Consensus 134 ~h~~ek~~~C~~C~-k~f~~~~~L~~H~~~ 162 (241)
.|.=.+-|.|.+|| +.+.-...+.+|..-
T Consensus 368 lhgLd~ef~CEICgNyvy~GR~~FdrHF~E 397 (470)
T COG5188 368 LHGLDIEFECEICGNYVYYGRDRFDRHFEE 397 (470)
T ss_pred hcCCCcceeeeecccccccchHHHHhhhhh
Confidence 34446779999999 788888888888765
No 248
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=20.91 E-value=41 Score=31.71 Aligned_cols=13 Identities=23% Similarity=0.506 Sum_probs=10.8
Q ss_pred ccccccccccCCh
Q 026210 65 FVCEICNKGFQRD 77 (241)
Q Consensus 65 ~~C~~C~~~f~~~ 77 (241)
-.|..|++.|...
T Consensus 461 dtC~~C~kkFfSl 473 (1374)
T PTZ00303 461 DSCPSCGRAFISL 473 (1374)
T ss_pred CcccCcCCccccc
Confidence 5699999999764
No 249
>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=20.89 E-value=40 Score=19.66 Aligned_cols=13 Identities=31% Similarity=0.812 Sum_probs=10.6
Q ss_pred eecccccccccch
Q 026210 141 YKCERCSKKYAVQ 153 (241)
Q Consensus 141 ~~C~~C~k~f~~~ 153 (241)
|+|..||..|.-.
T Consensus 2 y~C~~CgyiYd~~ 14 (50)
T cd00730 2 YECRICGYIYDPA 14 (50)
T ss_pred cCCCCCCeEECCC
Confidence 7899999888754
No 250
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=20.70 E-value=53 Score=22.45 Aligned_cols=24 Identities=17% Similarity=0.403 Sum_probs=20.8
Q ss_pred ceeecccccccccchhhHHHHHHH
Q 026210 139 KKYKCERCSKKYAVQSDWKAHMKT 162 (241)
Q Consensus 139 k~~~C~~C~k~f~~~~~L~~H~~~ 162 (241)
-.+-|-.|.+-|.+...|..|.+.
T Consensus 54 GqhYCieCaryf~t~~aL~~Hkkg 77 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKG 77 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhcc
Confidence 347899999999999999999875
No 251
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=20.16 E-value=22 Score=32.01 Aligned_cols=12 Identities=33% Similarity=0.952 Sum_probs=5.8
Q ss_pred ecccccccccch
Q 026210 142 KCERCSKKYAVQ 153 (241)
Q Consensus 142 ~C~~C~k~f~~~ 153 (241)
+|..|||.|.++
T Consensus 255 kC~~CgKgFQQK 266 (1004)
T KOG0782|consen 255 KCNTCGKGFQQK 266 (1004)
T ss_pred ccchhhhhhhhh
Confidence 455555554443
Done!