Query 026761
Match_columns 233
No_of_seqs 243 out of 1505
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 12:20:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026761.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026761hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2785 C2H2-type Zn-finger pr 100.0 2.3E-49 4.9E-54 352.4 9.2 214 1-232 1-216 (390)
2 KOG2462 C2H2-type Zn-finger pr 99.6 3.5E-16 7.5E-21 135.3 3.8 81 2-93 160-242 (279)
3 KOG2462 C2H2-type Zn-finger pr 99.4 1E-13 2.2E-18 120.1 3.2 77 3-90 187-267 (279)
4 PTZ00448 hypothetical protein; 99.4 1.1E-13 2.3E-18 124.6 1.9 50 3-52 314-363 (373)
5 KOG3576 Ovo and related transc 99.3 1.9E-12 4.1E-17 108.0 2.9 75 3-88 117-195 (267)
6 KOG3608 Zn finger proteins [Ge 99.3 3.1E-12 6.6E-17 114.2 4.3 155 2-225 236-399 (467)
7 KOG3623 Homeobox transcription 99.1 2E-11 4.2E-16 117.1 1.3 74 3-87 894-971 (1007)
8 KOG3623 Homeobox transcription 99.0 5.5E-11 1.2E-15 114.1 1.5 79 3-92 240-335 (1007)
9 PF12756 zf-C2H2_2: C2H2 type 98.7 3.7E-09 7.9E-14 78.2 0.1 49 184-232 1-49 (100)
10 KOG1074 Transcriptional repres 98.6 1.2E-08 2.6E-13 99.6 1.7 25 183-207 880-904 (958)
11 PF13465 zf-H2C2_2: Zinc-finge 98.6 3.6E-08 7.7E-13 56.4 2.0 26 53-78 1-26 (26)
12 PHA00733 hypothetical protein 98.5 1.1E-07 2.4E-12 75.1 4.7 75 2-89 39-122 (128)
13 KOG1074 Transcriptional repres 98.5 2.2E-08 4.9E-13 97.7 -0.3 57 26-93 352-408 (958)
14 KOG3576 Ovo and related transc 98.4 8.3E-08 1.8E-12 80.4 2.1 79 2-91 144-237 (267)
15 KOG2482 Predicted C2H2-type Zn 98.4 7E-08 1.5E-12 86.1 1.7 48 183-233 280-327 (423)
16 KOG2505 Ankyrin repeat protein 98.3 1.7E-07 3.6E-12 87.4 0.5 48 3-50 66-113 (591)
17 PF12756 zf-C2H2_2: C2H2 type 98.3 4.6E-07 9.9E-12 66.9 2.3 78 5-94 1-78 (100)
18 PHA02768 hypothetical protein; 98.2 1.1E-06 2.5E-11 58.9 2.1 26 55-82 22-47 (55)
19 PF12171 zf-C2H2_jaz: Zinc-fin 98.1 7.9E-07 1.7E-11 51.1 0.8 26 67-92 2-27 (27)
20 PF12874 zf-met: Zinc-finger o 98.1 1.5E-06 3.2E-11 48.8 1.9 25 67-91 1-25 (25)
21 PHA00733 hypothetical protein 98.1 5.9E-06 1.3E-10 65.2 4.7 27 183-209 100-126 (128)
22 KOG3993 Transcription factor ( 98.0 1.7E-06 3.7E-11 79.3 1.1 29 66-94 356-384 (500)
23 PHA00732 hypothetical protein 97.9 6.1E-06 1.3E-10 59.7 2.2 48 3-90 1-48 (79)
24 PF00096 zf-C2H2: Zinc finger, 97.9 9.2E-06 2E-10 44.6 2.0 23 67-89 1-23 (23)
25 smart00451 ZnF_U1 U1-like zinc 97.8 1.4E-05 2.9E-10 48.4 2.7 31 66-96 3-33 (35)
26 PHA02768 hypothetical protein; 97.7 1.1E-05 2.5E-10 54.1 1.2 36 3-38 5-42 (55)
27 KOG3608 Zn finger proteins [Ge 97.7 2.5E-05 5.5E-10 70.4 3.7 85 4-89 264-375 (467)
28 PLN03086 PRLI-interacting fact 97.7 3.3E-05 7.2E-10 74.3 4.7 61 3-77 453-515 (567)
29 PF13912 zf-C2H2_6: C2H2-type 97.5 4.8E-05 1E-09 43.3 1.5 25 66-90 1-25 (27)
30 PHA00616 hypothetical protein 97.5 4.2E-05 9.2E-10 49.0 1.1 25 66-90 1-25 (44)
31 PF13894 zf-C2H2_4: C2H2-type 97.5 8.4E-05 1.8E-09 40.5 2.2 23 67-89 1-23 (24)
32 PF12171 zf-C2H2_jaz: Zinc-fin 97.4 3.9E-05 8.5E-10 43.9 0.3 26 4-29 2-27 (27)
33 COG5189 SFP1 Putative transcri 97.4 3.8E-05 8.3E-10 68.4 -0.1 70 2-87 348-419 (423)
34 PLN03086 PRLI-interacting fact 97.3 0.00028 6E-09 68.0 5.2 80 2-88 477-562 (567)
35 smart00355 ZnF_C2H2 zinc finge 97.1 0.00042 9.2E-09 38.0 2.3 23 67-89 1-23 (26)
36 PF12874 zf-met: Zinc-finger o 97.0 0.00013 2.9E-09 40.7 -0.5 25 4-28 1-25 (25)
37 smart00451 ZnF_U1 U1-like zinc 97.0 0.00012 2.7E-09 44.0 -0.6 33 1-33 1-33 (35)
38 PF13912 zf-C2H2_6: C2H2-type 96.9 0.00028 6.2E-09 40.0 0.6 24 3-26 1-24 (27)
39 PHA00616 hypothetical protein 96.8 0.00016 3.5E-09 46.3 -1.1 23 3-25 1-23 (44)
40 PF00096 zf-C2H2: Zinc finger, 96.8 0.00026 5.7E-09 38.6 -0.3 22 4-25 1-22 (23)
41 KOG0717 Molecular chaperone (D 96.5 0.0013 2.9E-08 61.4 2.0 30 67-96 293-322 (508)
42 KOG1146 Homeobox protein [Gene 96.4 0.0013 2.9E-08 67.9 1.8 83 2-94 464-546 (1406)
43 KOG3993 Transcription factor ( 96.3 0.0013 2.8E-08 60.8 0.7 31 182-212 356-386 (500)
44 PF13894 zf-C2H2_4: C2H2-type 96.2 0.0011 2.3E-08 35.9 -0.1 22 4-25 1-22 (24)
45 PF05605 zf-Di19: Drought indu 95.9 0.013 2.8E-07 39.0 3.8 23 65-89 30-52 (54)
46 PHA00732 hypothetical protein 95.4 0.01 2.3E-07 42.8 2.1 23 66-88 1-23 (79)
47 smart00355 ZnF_C2H2 zinc finge 94.9 0.011 2.4E-07 32.1 0.8 22 4-25 1-22 (26)
48 PF13909 zf-H2C2_5: C2H2-type 94.4 0.019 4.2E-07 31.5 1.0 23 184-207 2-24 (24)
49 PRK04860 hypothetical protein; 94.2 0.029 6.2E-07 45.9 2.0 28 52-79 129-156 (160)
50 KOG2482 Predicted C2H2-type Zn 94.2 0.033 7.2E-07 50.4 2.5 53 180-232 142-195 (423)
51 KOG3408 U1-like Zn-finger-cont 94.0 0.03 6.5E-07 43.4 1.7 36 63-98 54-89 (129)
52 PF13913 zf-C2HC_2: zinc-finge 93.8 0.054 1.2E-06 30.4 2.1 21 67-88 3-23 (25)
53 PF13909 zf-H2C2_5: C2H2-type 93.4 0.078 1.7E-06 29.0 2.2 22 67-89 1-22 (24)
54 PF09237 GAGA: GAGA factor; I 92.7 0.11 2.4E-06 34.4 2.4 29 62-90 20-48 (54)
55 PLN02748 tRNA dimethylallyltra 91.7 0.11 2.3E-06 49.6 2.2 33 65-97 417-450 (468)
56 PF12013 DUF3505: Protein of u 90.8 0.57 1.2E-05 35.4 5.0 27 181-207 79-109 (109)
57 COG4049 Uncharacterized protei 90.0 0.17 3.6E-06 34.1 1.2 33 61-93 12-45 (65)
58 PF06220 zf-U1: U1 zinc finger 89.5 0.33 7.1E-06 30.1 2.2 31 66-96 3-35 (38)
59 PF05605 zf-Di19: Drought indu 89.3 0.36 7.7E-06 31.9 2.5 44 3-60 2-51 (54)
60 KOG3408 U1-like Zn-finger-cont 89.0 0.11 2.4E-06 40.4 -0.2 27 3-29 57-83 (129)
61 PF13465 zf-H2C2_2: Zinc-finge 87.4 0.35 7.5E-06 27.1 1.3 21 17-37 4-24 (26)
62 COG5236 Uncharacterized conser 87.3 0.57 1.2E-05 42.8 3.2 75 5-87 222-302 (493)
63 KOG2186 Cell growth-regulating 86.3 0.43 9.3E-06 41.7 1.8 34 53-88 17-50 (276)
64 PF09237 GAGA: GAGA factor; I 86.3 0.25 5.4E-06 32.7 0.3 23 3-25 24-46 (54)
65 KOG2231 Predicted E3 ubiquitin 86.0 0.39 8.4E-06 47.5 1.6 84 4-89 100-205 (669)
66 COG5112 UFD2 U1-like Zn-finger 83.8 0.44 9.6E-06 36.2 0.7 33 65-97 54-86 (126)
67 KOG1146 Homeobox protein [Gene 82.3 0.27 5.9E-06 51.6 -1.3 33 63-96 1326-1358(1406)
68 COG5236 Uncharacterized conser 81.8 0.44 9.5E-06 43.5 -0.0 84 4-91 152-245 (493)
69 smart00586 ZnF_DBF Zinc finger 80.9 0.95 2.1E-05 29.7 1.3 30 64-96 3-32 (49)
70 KOG2071 mRNA cleavage and poly 78.1 0.76 1.7E-05 44.6 0.3 28 2-29 417-446 (579)
71 PF07535 zf-DBF: DBF zinc fing 77.7 2.3 5E-05 27.8 2.4 29 65-96 4-32 (49)
72 KOG2893 Zn finger protein [Gen 76.2 1.1 2.3E-05 39.1 0.6 30 6-35 13-42 (341)
73 PF09986 DUF2225: Uncharacteri 75.2 0.67 1.4E-05 39.6 -0.9 34 2-35 4-37 (214)
74 PF06220 zf-U1: U1 zinc finger 74.7 0.65 1.4E-05 28.7 -0.8 31 1-31 1-33 (38)
75 smart00734 ZnF_Rad18 Rad18-lik 74.4 2.8 6.1E-05 23.6 1.9 19 68-87 3-21 (26)
76 COG5048 FOG: Zn-finger [Genera 74.1 1.1 2.4E-05 40.1 0.2 41 53-93 304-350 (467)
77 COG5189 SFP1 Putative transcri 74.0 1.5 3.3E-05 39.7 1.1 25 63-87 346-372 (423)
78 KOG2785 C2H2-type Zn-finger pr 73.2 2.6 5.6E-05 39.0 2.3 79 3-93 166-247 (390)
79 PF02892 zf-BED: BED zinc fing 72.0 3.2 7E-05 25.9 2.0 24 64-87 14-41 (45)
80 smart00614 ZnF_BED BED zinc fi 70.2 3 6.5E-05 27.0 1.5 22 67-88 19-45 (50)
81 KOG4173 Alpha-SNAP protein [In 69.2 2.3 5E-05 36.2 1.0 27 62-88 140-168 (253)
82 PTZ00448 hypothetical protein; 67.4 4.2 9.1E-05 37.5 2.4 31 66-96 314-344 (373)
83 PF05290 Baculo_IE-1: Baculovi 66.7 2.5 5.4E-05 33.5 0.7 50 27-81 80-136 (140)
84 COG5112 UFD2 U1-like Zn-finger 65.1 1.7 3.7E-05 33.1 -0.5 26 4-29 56-81 (126)
85 COG5188 PRP9 Splicing factor 3 64.3 3 6.5E-05 38.3 0.8 31 66-96 238-268 (470)
86 PF04959 ARS2: Arsenite-resist 64.2 4.6 0.0001 34.6 1.9 30 63-93 74-103 (214)
87 KOG4727 U1-like Zn-finger prot 63.9 4.2 9E-05 33.6 1.5 30 65-94 74-103 (193)
88 KOG0227 Splicing factor 3a, su 62.4 3.7 8.1E-05 34.5 1.0 35 60-96 49-83 (222)
89 COG5246 PRP11 Splicing factor 62.2 4.3 9.3E-05 33.9 1.3 34 61-96 50-83 (222)
90 KOG1994 Predicted RNA binding 61.0 4.2 9.1E-05 35.1 1.1 22 181-202 238-259 (268)
91 KOG2893 Zn finger protein [Gen 60.0 4.5 9.8E-05 35.3 1.1 40 47-91 20-60 (341)
92 KOG4364 Chromatin assembly fac 59.5 7.2 0.00016 38.7 2.5 17 129-145 518-534 (811)
93 PF08790 zf-LYAR: LYAR-type C2 59.5 1.7 3.6E-05 25.2 -1.1 19 67-86 1-19 (28)
94 PF05443 ROS_MUCR: ROS/MUCR tr 58.8 4.8 0.0001 31.9 1.0 23 67-92 73-95 (132)
95 KOG4167 Predicted DNA-binding 57.8 2.5 5.5E-05 42.1 -0.8 29 66-94 792-820 (907)
96 PF05443 ROS_MUCR: ROS/MUCR tr 57.1 4.7 0.0001 31.9 0.7 25 182-209 72-96 (132)
97 COG4957 Predicted transcriptio 54.7 7.1 0.00015 31.1 1.3 21 68-91 78-98 (148)
98 PRK00398 rpoP DNA-directed RNA 54.2 4.6 0.0001 25.6 0.2 29 1-35 1-29 (46)
99 PF14420 Clr5: Clr5 domain 52.5 7.6 0.00017 25.6 1.0 26 191-216 19-44 (54)
100 PF06524 NOA36: NOA36 protein; 52.0 14 0.0003 32.7 2.8 83 3-91 142-234 (314)
101 KOG0717 Molecular chaperone (D 51.2 3.1 6.7E-05 39.5 -1.4 28 4-31 293-320 (508)
102 KOG2231 Predicted E3 ubiquitin 49.8 16 0.00034 36.5 3.2 76 5-89 184-262 (669)
103 PF09630 DUF2024: Domain of un 47.9 4.6 0.0001 29.2 -0.6 31 179-211 49-79 (81)
104 PF14353 CpXC: CpXC protein 47.7 13 0.00028 28.7 1.8 25 65-89 37-61 (128)
105 PF13451 zf-trcl: Probable zin 47.6 3.8 8.3E-05 26.8 -1.0 24 2-25 3-26 (49)
106 COG1198 PriA Primosomal protei 46.4 12 0.00027 37.7 1.9 32 5-36 437-471 (730)
107 PRK07639 acyl carrier protein; 45.5 19 0.00041 26.0 2.3 41 191-231 39-83 (86)
108 COG1592 Rubrerythrin [Energy p 45.5 14 0.00031 30.4 1.8 12 62-73 145-156 (166)
109 smart00531 TFIIE Transcription 41.8 12 0.00025 29.9 0.8 12 65-76 122-133 (147)
110 KOG2272 Focal adhesion protein 41.7 9.5 0.00021 33.6 0.2 74 4-79 100-176 (332)
111 PF09986 DUF2225: Uncharacteri 41.0 12 0.00025 32.0 0.7 17 64-80 3-19 (214)
112 smart00834 CxxC_CXXC_SSSS Puta 39.4 13 0.00028 22.4 0.6 12 66-77 5-16 (41)
113 PRK14890 putative Zn-ribbon RN 39.2 15 0.00033 25.0 0.9 30 1-36 5-34 (59)
114 PF13821 DUF4187: Domain of un 38.7 17 0.00036 24.3 1.0 21 181-201 26-46 (55)
115 KOG2593 Transcription initiati 38.1 30 0.00065 32.6 2.9 24 59-82 121-144 (436)
116 PF12013 DUF3505: Protein of u 38.0 25 0.00053 26.4 2.0 24 66-89 80-107 (109)
117 PRK07117 acyl carrier protein; 37.5 28 0.00061 24.8 2.1 42 189-230 36-79 (79)
118 COG0533 QRI7 Metal-dependent p 37.5 31 0.00066 31.7 2.8 36 193-228 275-312 (342)
119 PF04810 zf-Sec23_Sec24: Sec23 36.9 11 0.00024 23.3 -0.1 37 3-41 2-38 (40)
120 KOG4167 Predicted DNA-binding 36.6 6.4 0.00014 39.4 -1.7 22 4-25 793-814 (907)
121 KOG2593 Transcription initiati 36.0 18 0.0004 34.0 1.2 34 2-35 127-161 (436)
122 cd00350 rubredoxin_like Rubred 35.4 18 0.0004 21.2 0.7 11 4-14 2-12 (33)
123 PF02177 APP_N: Amyloid A4 N-t 35.2 12 0.00026 28.3 -0.1 40 183-229 4-47 (102)
124 PRK04860 hypothetical protein; 34.3 23 0.00049 28.9 1.4 23 65-91 118-140 (160)
125 KOG3214 Uncharacterized Zn rib 34.0 7.4 0.00016 29.3 -1.4 48 182-233 23-71 (109)
126 PF09723 Zn-ribbon_8: Zinc rib 34.0 17 0.00038 22.6 0.5 12 66-77 5-16 (42)
127 smart00154 ZnF_AN1 AN1-like Zi 33.1 21 0.00045 22.0 0.7 14 66-79 12-25 (39)
128 PF10013 DUF2256: Uncharacteri 33.0 27 0.00058 22.1 1.2 16 68-83 10-25 (42)
129 PF10571 UPF0547: Uncharacteri 32.2 25 0.00053 19.8 0.9 10 68-77 16-25 (26)
130 COG4822 CbiK Cobalamin biosynt 31.8 33 0.00072 29.7 2.0 48 181-228 140-190 (265)
131 PF04988 AKAP95: A-kinase anch 31.5 31 0.00068 28.3 1.7 27 67-93 1-27 (165)
132 KOG3032 Uncharacterized conser 31.2 28 0.00061 30.3 1.5 29 67-96 36-64 (264)
133 KOG2837 Protein containing a U 30.2 5.9 0.00013 35.1 -2.8 28 66-93 25-52 (309)
134 cd00729 rubredoxin_SM Rubredox 30.0 37 0.0008 20.2 1.4 10 65-74 17-26 (34)
135 PF01428 zf-AN1: AN1-like Zinc 29.4 20 0.00044 22.3 0.2 15 65-79 12-26 (43)
136 TIGR02605 CxxC_CxxC_SSSS putat 28.7 24 0.00053 22.6 0.5 13 66-78 5-17 (52)
137 PF09845 DUF2072: Zn-ribbon co 28.6 25 0.00055 27.8 0.7 31 194-224 96-129 (131)
138 PF04780 DUF629: Protein of un 27.8 43 0.00093 32.1 2.2 24 66-89 57-80 (466)
139 PF14489 QueF: QueF-like prote 27.7 25 0.00055 25.3 0.5 18 209-227 10-27 (80)
140 COG1773 Rubredoxin [Energy pro 27.6 23 0.0005 23.7 0.3 15 1-15 1-15 (55)
141 COG5188 PRP9 Splicing factor 3 27.4 19 0.00041 33.2 -0.2 34 2-35 237-270 (470)
142 PF13719 zinc_ribbon_5: zinc-r 27.3 38 0.00082 20.5 1.2 14 5-18 4-17 (37)
143 smart00659 RPOLCX RNA polymera 27.1 31 0.00068 21.9 0.8 25 4-35 3-27 (44)
144 TIGR00595 priA primosomal prot 26.8 39 0.00084 32.6 1.8 32 5-36 215-249 (505)
145 PF12907 zf-met2: Zinc-binding 26.8 27 0.00058 21.8 0.5 26 67-92 2-30 (40)
146 PHA00626 hypothetical protein 26.7 31 0.00067 23.3 0.8 14 65-78 22-35 (59)
147 TIGR02098 MJ0042_CXXC MJ0042 f 26.3 32 0.00069 20.5 0.7 14 4-17 3-16 (38)
148 PRK00464 nrdR transcriptional 25.9 25 0.00055 28.5 0.3 16 66-81 28-43 (154)
149 COG2879 Uncharacterized small 25.6 50 0.0011 22.8 1.6 16 192-207 22-37 (65)
150 cd01396 MeCP2_MBD MeCP2, MBD1, 25.5 50 0.0011 23.5 1.7 25 66-90 28-52 (77)
151 PF15269 zf-C2H2_7: Zinc-finge 25.3 50 0.0011 21.3 1.5 24 66-89 20-43 (54)
152 COG4957 Predicted transcriptio 25.3 45 0.00096 26.6 1.5 53 4-59 77-133 (148)
153 KOG2636 Splicing factor 3a, su 25.2 58 0.0012 31.0 2.5 32 61-92 396-428 (497)
154 PF07754 DUF1610: Domain of un 24.9 35 0.00076 18.9 0.6 10 65-74 15-24 (24)
155 COG3677 Transposase and inacti 24.5 36 0.00078 26.7 0.9 19 63-81 50-68 (129)
156 PF10615 DUF2470: Protein of u 22.6 56 0.0012 23.2 1.5 27 194-229 9-35 (83)
157 PF04780 DUF629: Protein of un 22.5 57 0.0012 31.3 2.0 36 180-215 55-91 (466)
158 PF14968 CCDC84: Coiled coil p 22.3 55 0.0012 30.0 1.8 81 5-96 1-94 (336)
159 PF02591 DUF164: Putative zinc 21.8 50 0.0011 21.6 1.1 11 64-74 44-54 (56)
160 PF04423 Rad50_zn_hook: Rad50 21.8 34 0.00075 22.3 0.3 14 68-81 22-35 (54)
161 KOG2071 mRNA cleavage and poly 21.8 59 0.0013 32.0 1.9 30 63-92 415-444 (579)
162 PF09538 FYDLN_acid: Protein o 21.7 36 0.00077 26.0 0.4 14 67-80 10-23 (108)
163 PF11931 DUF3449: Domain of un 21.6 31 0.00067 29.2 0.0 31 3-33 101-132 (196)
164 PF11848 DUF3368: Domain of un 21.6 42 0.00092 21.4 0.6 20 194-214 20-39 (48)
165 PF08209 Sgf11: Sgf11 (transcr 21.0 60 0.0013 19.4 1.2 21 66-87 4-24 (33)
166 cd07977 TFIIE_beta_winged_heli 20.8 1.2E+02 0.0027 21.3 3.0 31 190-227 6-36 (75)
167 PF04959 ARS2: Arsenite-resist 20.6 26 0.00057 30.0 -0.6 9 28-36 78-86 (214)
168 PF13119 DUF3973: Domain of un 20.5 34 0.00073 21.3 0.0 8 205-212 22-29 (41)
169 PRK14873 primosome assembly pr 20.2 53 0.0011 32.9 1.3 32 5-36 385-419 (665)
170 PRK05580 primosome assembly pr 20.2 62 0.0013 32.4 1.8 33 4-36 382-417 (679)
No 1
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.3e-49 Score=352.37 Aligned_cols=214 Identities=41% Similarity=0.681 Sum_probs=152.1
Q ss_pred CCCCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhh--cCCCCccccCCCCCccCC
Q 026761 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK--NATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~--h~~~k~~~C~~C~K~F~s 78 (233)
|..|+|++|.+.|.+...||.||+|+|||||||||||++|||+.+.|..++.+....... ..++.++.|.+|+|+|.+
T Consensus 1 st~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~c~k~~~s 80 (390)
T KOG2785|consen 1 STGFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEACNKSFAS 80 (390)
T ss_pred CCcceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHHhhccccC
Confidence 678999999999999999999999999999999999999999999999996555433332 456778999999999999
Q ss_pred hHHHHHHHhhhhhhhhhhcCCCchhhhhhhccCCCCcCCCCCCCccccCCCCCCCCCcccccCCcchhhhhhhccccccC
Q 026761 79 SKALAQHLNSRSHIMRASQGTSNEEKEKVIIKPIPLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSLTNL 158 (233)
Q Consensus 79 ~~~l~~H~~s~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~ 158 (233)
.+++.+|++|++|+.+.++.....+.+.+.++..+.+.++ .... ..+++..|-|.+.++-. + ...
T Consensus 81 ~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~----~l~~----~~e~e~~~~E~~~~~d~------~-~e~ 145 (390)
T KOG2785|consen 81 PKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPS----NLQN----KGESELKWYEVDSDEDS------S-EEE 145 (390)
T ss_pred hhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCcc----cccc----CCCcccchhhccccccc------c-hhh
Confidence 9999999999999998776544333222332222211110 0110 01233444444332100 0 000
Q ss_pred CCCCCCCCCCcccCCCCCCCCCCCCcccCCCCCCCCHHHHHHHhhhhcccccCCcccccCHHHHHHHHhccccC
Q 026761 159 NVGSPADDDLEEDDDDGAFEEFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVPS 232 (233)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~~~~i~~~~ClfC~~~~~~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eKI~~ 232 (233)
+..+ ..++.+++...+. +..|++||||++.+.+++.|++||.+.|||||||++||+|+.|||.|||+||+.
T Consensus 146 ~~dd--~~Edi~~d~~~e~-e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~ 216 (390)
T KOG2785|consen 146 EEDD--EEEDIEEDGDDED-ELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGI 216 (390)
T ss_pred ccCc--chhhhhhccchhc-ccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhcc
Confidence 0000 0011111111222 334599999999999999999999999999999999999999999999999985
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.61 E-value=3.5e-16 Score=135.34 Aligned_cols=81 Identities=17% Similarity=0.372 Sum_probs=71.2
Q ss_pred CCCCcccchhccCCchhhhhhcccc--ceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCCh
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKSD--WHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSS 79 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks~--~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~ 79 (233)
+.|.|..|+|+|.+...|++|++++ +|.|++|||.|.- .=.|+-|.|+|||||||.|..|+|+|+-+
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR-----------PWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR-----------PWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccc-----------hHHhhcccccccCCCCccCCcccchhcch
Confidence 4588999999999999999999996 5999999998653 12578899999999999999999999999
Q ss_pred HHHHHHHhhhhhhh
Q 026761 80 KALAQHLNSRSHIM 93 (233)
Q Consensus 80 ~~l~~H~~s~~hk~ 93 (233)
++|+.|+++|.+.+
T Consensus 229 SNLRAHmQTHS~~K 242 (279)
T KOG2462|consen 229 SNLRAHMQTHSDVK 242 (279)
T ss_pred HHHHHHHHhhcCCc
Confidence 99999999998754
No 3
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.41 E-value=1e-13 Score=120.10 Aligned_cols=77 Identities=19% Similarity=0.309 Sum_probs=66.9
Q ss_pred CCCcccchhccCCchhhhhhccc----cceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS----DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks----~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s 78 (233)
++.|..|||+|...=.|+-|+|+ +||.|..|+|. |+.| ++|+.|+++|.+.|+|+|..|+|+|+.
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kA----------FADR-SNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKA----------FADR-SNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCcccch----------hcch-HHHHHHHHhhcCCccccCcchhhHHHH
Confidence 67899999999988766666665 67888888886 6667 999999999999999999999999999
Q ss_pred hHHHHHHHhhhh
Q 026761 79 SKALAQHLNSRS 90 (233)
Q Consensus 79 ~~~l~~H~~s~~ 90 (233)
++.|.+|..+--
T Consensus 256 ~SyLnKH~ES~C 267 (279)
T KOG2462|consen 256 KSYLNKHSESAC 267 (279)
T ss_pred HHHHHHhhhhcc
Confidence 999999987744
No 4
>PTZ00448 hypothetical protein; Provisional
Probab=99.38 E-value=1.1e-13 Score=124.59 Aligned_cols=50 Identities=36% Similarity=0.663 Sum_probs=47.5
Q ss_pred CCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHH
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQA 52 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~ 52 (233)
.|+|++|+.+|.+...||.||||||||||||||++||||++.++|..++.
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl~gLppvse~eF~~~i~ 363 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNARKMEPISEEEFLELQQ 363 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHHHHHhcCCCCCCHHHHHHHHh
Confidence 58999999999999999999999999999999999999999999997744
No 5
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.27 E-value=1.9e-12 Score=107.97 Aligned_cols=75 Identities=24% Similarity=0.448 Sum_probs=66.7
Q ss_pred CCCcccchhccCCchhhhhhcccc----ceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSD----WHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~----~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s 78 (233)
.|+|..|++.|.-...|.+|++-+ .|-|..|+|-|+. +| .|++|.|+|+|.+||+|..|+|+|.+
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kch~~vkr~lct~cgkgfnd------tf-----dlkrh~rthtgvrpykc~~c~kaftq 185 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFND------TF-----DLKRHTRTHTGVRPYKCSLCEKAFTQ 185 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhhccHHHHHHHhhccCcccc------hh-----hhhhhhccccCccccchhhhhHHHHh
Confidence 489999999999999999999874 4889999998665 33 57899999999999999999999999
Q ss_pred hHHHHHHHhh
Q 026761 79 SKALAQHLNS 88 (233)
Q Consensus 79 ~~~l~~H~~s 88 (233)
.-+|..|++.
T Consensus 186 rcsleshl~k 195 (267)
T KOG3576|consen 186 RCSLESHLKK 195 (267)
T ss_pred hccHHHHHHH
Confidence 9999999874
No 6
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.27 E-value=3.1e-12 Score=114.16 Aligned_cols=155 Identities=17% Similarity=0.287 Sum_probs=113.7
Q ss_pred CCCCcccchhccCCchhhhhhcccc--ceecCccccccCCCCccHHHHHHHHHHHHHHHhh-cCCCCccccCCCCCccCC
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKSD--WHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK-NATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks~--~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~-h~~~k~~~C~~C~K~F~s 78 (233)
.+|.|..|.|.|.+...|+.|+..+ -++|.||.-..++ .+.|.+|++. |...|||+|+.|.+.|.+
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~-----------~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~ 304 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSS-----------ASSLTTHIRYRHSKDKPFKCDECDTRCVR 304 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCC-----------hHHHHHHHHhhhccCCCccccchhhhhcc
Confidence 4799999999999999999999885 3889999988777 5789999997 899999999999999999
Q ss_pred hHHHHHHHhhhhhhhhhhcCCCchhhhhh--hccCCCCcCCCCCCCccccCCCCCCCCCcccccCCcchhhhhhhccccc
Q 026761 79 SKALAQHLNSRSHIMRASQGTSNEEKEKV--IIKPIPLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSLT 156 (233)
Q Consensus 79 ~~~l~~H~~s~~hk~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~ 156 (233)
.+.|.+|+..|.-..-.-...+=.....+ .+... +-++.
T Consensus 305 esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H-------------------------~~evh-------------- 345 (467)
T KOG3608|consen 305 ESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRH-------------------------FLEVH-------------- 345 (467)
T ss_pred HHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHH-------------------------HHHhc--------------
Confidence 99999999976611100000000000000 00000 00000
Q ss_pred cCCCCCCCCCCCcccCCCCCCCCCCCCcccCCCCCCCCHHHHHHHhhhhcccccCCc----ccccCHHHHHHH
Q 026761 157 NLNVGSPADDDLEEDDDDGAFEEFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDV----EYLKDPKGLLTY 225 (233)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~ClfC~~~~~~~~~~~~HM~~~h~ffIP~~----~ylvDl~GLl~Y 225 (233)
+.. .-++..|--|++.+.+-..+-.|.++.|||-||-- -|-+|-.|+++-
T Consensus 346 ------------------Eg~-np~~Y~CH~Cdr~ft~G~~L~~HL~kkH~f~~PsGh~RFtYk~~edG~mRL 399 (467)
T KOG3608|consen 346 ------------------EGN-NPILYACHCCDRFFTSGKSLSAHLMKKHGFRLPSGHKRFTYKVDEDGFMRL 399 (467)
T ss_pred ------------------cCC-CCCceeeecchhhhccchhHHHHHHHhhcccCCCCCCceeeeeccCceeee
Confidence 000 12578999999999999999999999999999986 588999998753
No 7
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.10 E-value=2e-11 Score=117.11 Aligned_cols=74 Identities=20% Similarity=0.417 Sum_probs=65.5
Q ss_pred CCCcccchhccCCchhhhhhccc----cceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS----DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks----~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s 78 (233)
+|-|..|.|+|.-.+.|-+|.-. .+|.|-+|.|. |..| -.|..|+|.|+|+|||+|+-|+|.|+.
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYEHsGqRPyqC~iCkKA----------FKHK-HHLtEHkRLHSGEKPfQCdKClKRFSH 962 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYEHSGQRPYQCIICKKA----------FKHK-HHLTEHKRLHSGEKPFQCDKCLKRFSH 962 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhhhcCCCCcccchhhHh----------hhhh-hhhhhhhhhccCCCcchhhhhhhhccc
Confidence 59999999999988888777644 57888888775 6666 789999999999999999999999999
Q ss_pred hHHHHHHHh
Q 026761 79 SKALAQHLN 87 (233)
Q Consensus 79 ~~~l~~H~~ 87 (233)
..+|.+||+
T Consensus 963 SGSYSQHMN 971 (1007)
T KOG3623|consen 963 SGSYSQHMN 971 (1007)
T ss_pred ccchHhhhc
Confidence 999999997
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.04 E-value=5.5e-11 Score=114.07 Aligned_cols=79 Identities=18% Similarity=0.346 Sum_probs=70.3
Q ss_pred CCCcccchhccCCchhhhhhcccc-----------------ceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSD-----------------WHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPM 65 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~-----------------~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k 65 (233)
-|.|..|..+|..+..|-+||.++ -|+|..|+|. |.-| -.|+.|.|+|+|+|
T Consensus 240 nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKA----------FKfK-HHLKEHlRIHSGEK 308 (1007)
T KOG3623|consen 240 NFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKA----------FKFK-HHLKEHLRIHSGEK 308 (1007)
T ss_pred CCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchh----------hhhH-HHHHhhheeecCCC
Confidence 488999999999999999999863 2788888886 4444 68999999999999
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHI 92 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk 92 (233)
||.|+-|+|.|+...+|..|+-|||=.
T Consensus 309 PfeCpnCkKRFSHSGSySSHmSSKKCI 335 (1007)
T KOG3623|consen 309 PFECPNCKKRFSHSGSYSSHMSSKKCI 335 (1007)
T ss_pred CcCCcccccccccCCcccccccccchh
Confidence 999999999999999999999999876
No 9
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.68 E-value=3.7e-09 Score=78.21 Aligned_cols=49 Identities=45% Similarity=0.842 Sum_probs=0.4
Q ss_pred cccCCCCCCCCHHHHHHHhhhhcccccCCcccccCHHHHHHHHhccccC
Q 026761 184 CCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVPS 232 (233)
Q Consensus 184 ~ClfC~~~~~~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eKI~~ 232 (233)
+|+||+..++++..++.||...|||.||+..+|+|+.+|+.|+..+|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~ 49 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKE 49 (100)
T ss_dssp ------------------------------------------------S
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCC
Confidence 5999999999999999999999999999999999999999999998864
No 10
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.61 E-value=1.2e-08 Score=99.58 Aligned_cols=25 Identities=20% Similarity=0.448 Sum_probs=17.1
Q ss_pred CcccCCCCCCCCHHHHHHHhhhhcc
Q 026761 183 ACCFMCDLPHDAIENCMVHMHKCHG 207 (233)
Q Consensus 183 ~~ClfC~~~~~~~~~~~~HM~~~h~ 207 (233)
..|--|+..|.+-.++-.||+++-|
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg 904 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTG 904 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCC
Confidence 4577777777777777777776555
No 11
>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=98.56 E-value=3.6e-08 Score=56.42 Aligned_cols=26 Identities=23% Similarity=0.618 Sum_probs=23.8
Q ss_pred HHHHHHhhcCCCCccccCCCCCccCC
Q 026761 53 ALAQEKNKNATPMTYSCGLCGKGYRS 78 (233)
Q Consensus 53 ~l~~h~~~h~~~k~~~C~~C~K~F~s 78 (233)
+|..|+++|+|++||.|+.|+|+|.+
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 47899999999999999999999974
No 12
>PHA00733 hypothetical protein
Probab=98.53 E-value=1.1e-07 Score=75.05 Aligned_cols=75 Identities=15% Similarity=0.127 Sum_probs=59.6
Q ss_pred CCCCcccchhccCCchhhhh------hccc---cceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCC
Q 026761 2 PGLTCNSCNREFNDDAEQKL------HYKS---DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLC 72 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~------H~ks---~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C 72 (233)
+++.|..|.+.|.++..|+. |+.+ .+|.|+.|++.+.. ...|..|++.| ..+|.|.+|
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~kPy~C~~Cgk~Fss-----------~s~L~~H~r~h--~~~~~C~~C 105 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYKLLTSKAVSPYVCPLCLMPFSS-----------SVSLKQHIRYT--EHSKVCPVC 105 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHhhcccCCCCCccCCCCCCcCCC-----------HHHHHHHHhcC--CcCccCCCC
Confidence 45789999999988865544 4443 36899999997554 37888998876 357999999
Q ss_pred CCccCChHHHHHHHhhh
Q 026761 73 GKGYRSSKALAQHLNSR 89 (233)
Q Consensus 73 ~K~F~s~~~l~~H~~s~ 89 (233)
+|.|....+|..|+..+
T Consensus 106 gK~F~~~~sL~~H~~~~ 122 (128)
T PHA00733 106 GKEFRNTDSTLDHVCKK 122 (128)
T ss_pred CCccCCHHHHHHHHHHh
Confidence 99999999999998754
No 13
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.48 E-value=2.2e-08 Score=97.70 Aligned_cols=57 Identities=19% Similarity=0.374 Sum_probs=51.1
Q ss_pred cceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCChHHHHHHHhhhhhhh
Q 026761 26 DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (233)
Q Consensus 26 ~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~ 93 (233)
..|+|-+|.||+|- -+.|+.|.|+|||++||+|++||.+|+++.+|+.|...|+-+.
T Consensus 352 ~khkCr~CakvfgS-----------~SaLqiHlRSHTGERPfqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 352 FKHKCRFCAKVFGS-----------DSALQIHLRSHTGERPFQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred ccchhhhhHhhcCc-----------hhhhhhhhhccCCCCCeeecccccccccccceeeeeeeccccC
Confidence 35999999999876 5789999999999999999999999999999999998876543
No 14
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.44 E-value=8.3e-08 Score=80.43 Aligned_cols=79 Identities=24% Similarity=0.391 Sum_probs=63.6
Q ss_pred CCCCcccchhccCCchhhhhhccc----cceecCccccccCCCCccHHHHHHHHHHHHHHHhh-cC----------CCCc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKS----DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK-NA----------TPMT 66 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks----~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~-h~----------~~k~ 66 (233)
+.|-|..||+.|.+.-.|++|+++ .+|+||+|.|. |.++ ..|..|.+. |. ..+.
T Consensus 144 kr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~ka----------ftqr-csleshl~kvhgv~~~yaykerr~kl 212 (267)
T KOG3576|consen 144 KRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKA----------FTQR-CSLESHLKKVHGVQHQYAYKERRAKL 212 (267)
T ss_pred HHHHHhhccCcccchhhhhhhhccccCccccchhhhhHH----------HHhh-ccHHHHHHHHcCchHHHHHHHhhhhe
Confidence 346799999999999999999988 57999999996 6666 566666543 32 3467
Q ss_pred cccCCCCCccCChHHHHHHHhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~h 91 (233)
|.|..||.+-.....|..|++.+.-
T Consensus 213 ~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 213 YVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred eeecccCCCCCChhHHHHHHHhcCC
Confidence 9999999999999999999988753
No 15
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=98.44 E-value=7e-08 Score=86.14 Aligned_cols=48 Identities=19% Similarity=0.322 Sum_probs=37.0
Q ss_pred CcccCCCCCCCCHHHHHHHhhhhcccccCCcccccCHHHHHHHHhccccCC
Q 026761 183 ACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVPSF 233 (233)
Q Consensus 183 ~~ClfC~~~~~~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eKI~~~ 233 (233)
..||||.+...++..+.+||...|-|-|--. +---||-.|...||.+|
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki---~sd~~Ln~YqrvrviNy 327 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKI---QSDYSLNFYQRVRVINY 327 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhh---ccccccchhhhhhHHHH
Confidence 6899999999999999999999999866442 22235666777666654
No 16
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=98.29 E-value=1.7e-07 Score=87.41 Aligned_cols=48 Identities=44% Similarity=0.799 Sum_probs=44.9
Q ss_pred CCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHH
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLAR 50 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k 50 (233)
..+|++|...|.+...||.||++||||.|+||++.++|+++.+.|...
T Consensus 66 ~~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~~~~ils~edFe~i 113 (591)
T KOG2505|consen 66 SDQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLRGKPILSEEDFEGI 113 (591)
T ss_pred cccccccCCccccHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHh
Confidence 357999999999999999999999999999999999999999999754
No 17
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.26 E-value=4.6e-07 Score=66.86 Aligned_cols=78 Identities=24% Similarity=0.494 Sum_probs=26.1
Q ss_pred CcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCChHHHHH
Q 026761 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKALAQ 84 (233)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~l~~ 84 (233)
.|..|+..|.+...+..||... |..++-... . +... ..+..+.+. .....+.|..|++.|.+...|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~-H~~~~~~~~-~--------l~~~-~~~~~~~~~-~~~~~~~C~~C~~~f~s~~~l~~ 68 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKK-HGFDIPDQK-Y--------LVDP-NRLLNYLRK-KVKESFRCPYCNKTFRSREALQE 68 (100)
T ss_dssp ------------------------------------------------------------SSEEBSSSS-EESSHHHHHH
T ss_pred Cccccccccccccccccccccc-ccccccccc-c--------cccc-ccccccccc-ccCCCCCCCccCCCCcCHHHHHH
Confidence 4999999999999999999874 544332110 0 1111 122222221 12236999999999999999999
Q ss_pred HHhhhhhhhh
Q 026761 85 HLNSRSHIMR 94 (233)
Q Consensus 85 H~~s~~hk~~ 94 (233)
|++++.|+.+
T Consensus 69 Hm~~~~H~~~ 78 (100)
T PF12756_consen 69 HMRSKHHKKR 78 (100)
T ss_dssp HHHHTTTTC-
T ss_pred HHcCccCCCc
Confidence 9999999774
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.15 E-value=1.1e-06 Score=58.90 Aligned_cols=26 Identities=8% Similarity=0.034 Sum_probs=16.9
Q ss_pred HHHHhhcCCCCccccCCCCCccCChHHH
Q 026761 55 AQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (233)
Q Consensus 55 ~~h~~~h~~~k~~~C~~C~K~F~s~~~l 82 (233)
..|+++|+ ++|+|..|+|.|...+.|
T Consensus 22 ~~H~r~H~--k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 22 ITHLRKHN--TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred HHHHHhcC--CcccCCcccceeccccee
Confidence 33344444 577888888888876654
No 19
>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=98.13 E-value=7.9e-07 Score=51.12 Aligned_cols=26 Identities=35% Similarity=0.732 Sum_probs=25.0
Q ss_pred cccCCCCCccCChHHHHHHHhhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSHI 92 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~hk 92 (233)
|.|.+|+|.|.+...|.+|++|++||
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CCcccCCCCcCCHHHHHHHHccCCCC
Confidence 78999999999999999999999996
No 20
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.12 E-value=1.5e-06 Score=48.83 Aligned_cols=25 Identities=40% Similarity=0.929 Sum_probs=24.1
Q ss_pred cccCCCCCccCChHHHHHHHhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~h 91 (233)
|.|.+|++.|++...|..|+++++|
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence 6799999999999999999999998
No 21
>PHA00733 hypothetical protein
Probab=98.05 E-value=5.9e-06 Score=65.18 Aligned_cols=27 Identities=19% Similarity=0.407 Sum_probs=24.5
Q ss_pred CcccCCCCCCCCHHHHHHHhhhhcccc
Q 026761 183 ACCFMCDLPHDAIENCMVHMHKCHGFF 209 (233)
Q Consensus 183 ~~ClfC~~~~~~~~~~~~HM~~~h~ff 209 (233)
..|-.|+..+.....+..||.+.|+.-
T Consensus 100 ~~C~~CgK~F~~~~sL~~H~~~~h~~~ 126 (128)
T PHA00733 100 KVCPVCGKEFRNTDSTLDHVCKKHNIC 126 (128)
T ss_pred ccCCCCCCccCCHHHHHHHHHHhcCcc
Confidence 469999999999999999999999853
No 22
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.01 E-value=1.7e-06 Score=79.31 Aligned_cols=29 Identities=28% Similarity=0.537 Sum_probs=25.9
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~~ 94 (233)
-|.|.+|+|+|+++..|+.|+.+|.-...
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlthq~~~~ 384 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTHQRAPL 384 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhhhcccc
Confidence 59999999999999999999999876654
No 23
>PHA00732 hypothetical protein
Probab=97.90 E-value=6.1e-06 Score=59.73 Aligned_cols=48 Identities=27% Similarity=0.462 Sum_probs=33.9
Q ss_pred CCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCChHHH
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~l 82 (233)
||.|..|++.|.+...|+.|++.. |+ ++.|..|||+|. .+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~----------------------------------H~---~~~C~~CgKsF~---~l 40 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRN----------------------------------HT---LTKCPVCNKSYR---RL 40 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcc----------------------------------cC---CCccCCCCCEeC---Ch
Confidence 578888888888777777776531 22 246999999997 36
Q ss_pred HHHHhhhh
Q 026761 83 AQHLNSRS 90 (233)
Q Consensus 83 ~~H~~s~~ 90 (233)
..|.+++.
T Consensus 41 ~~H~~~~~ 48 (79)
T PHA00732 41 NQHFYSQY 48 (79)
T ss_pred hhhhcccC
Confidence 77876654
No 24
>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=97.86 E-value=9.2e-06 Score=44.56 Aligned_cols=23 Identities=35% Similarity=0.925 Sum_probs=21.5
Q ss_pred cccCCCCCccCChHHHHHHHhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
|.|..|++.|.++..|.+|++.|
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 68999999999999999999974
No 25
>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=97.85 E-value=1.4e-05 Score=48.35 Aligned_cols=31 Identities=19% Similarity=0.525 Sum_probs=28.4
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
+|.|.+|++.|.+..++.+|+++++|+.+..
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~ 33 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVK 33 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChHHHHHHHH
Confidence 5889999999999999999999999998654
No 26
>PHA02768 hypothetical protein; Provisional
Probab=97.74 E-value=1.1e-05 Score=54.11 Aligned_cols=36 Identities=11% Similarity=0.275 Sum_probs=31.8
Q ss_pred CCCcccchhccCCchhhhhhccccc--eecCccccccC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDW--HRYNLKRKVAG 38 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~--hryNlkrkv~~ 38 (233)
.|.|..||+.|...++|..|+++++ ++|-.|+|++.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~ 42 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISL 42 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcCCcccCCcccceec
Confidence 5899999999999999999999976 67788888754
No 27
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=97.73 E-value=2.5e-05 Score=70.43 Aligned_cols=85 Identities=14% Similarity=0.262 Sum_probs=52.5
Q ss_pred CCcccchhccCCchhhhhhccc-----cceecCcccccc-------------CCCCccHHH------HHHHHHHHHHHHh
Q 026761 4 LTCNSCNREFNDDAEQKLHYKS-----DWHRYNLKRKVA-------------GVPGVTEAL------FLARQAALAQEKN 59 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks-----~~hryNlkrkv~-------------~l~p~~~~~------F~~k~~~l~~h~~ 59 (233)
|+|..|..+...++.|+.|++. ++++|.-|.+.+ ..+.+.|+. |... .++.+|.+
T Consensus 264 ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~-~q~~~H~~ 342 (467)
T KOG3608|consen 264 YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTY-TQMRRHFL 342 (467)
T ss_pred ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHH-HHHHHHHH
Confidence 5555555555555555555543 345555554321 122223322 2222 56778877
Q ss_pred h-cCC--CCccccCCCCCccCChHHHHHHHhhh
Q 026761 60 K-NAT--PMTYSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 60 ~-h~~--~k~~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
. |.| +.+|.|-.|.|.|.+-++|..|++.+
T Consensus 343 evhEg~np~~Y~CH~Cdr~ft~G~~L~~HL~kk 375 (467)
T KOG3608|consen 343 EVHEGNNPILYACHCCDRFFTSGKSLSAHLMKK 375 (467)
T ss_pred HhccCCCCCceeeecchhhhccchhHHHHHHHh
Confidence 6 544 45799999999999999999999754
No 28
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.73 E-value=3.3e-05 Score=74.30 Aligned_cols=61 Identities=18% Similarity=0.394 Sum_probs=41.9
Q ss_pred CCCcccchhccCCchhhhhhccc--cceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS--DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYR 77 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks--~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~ 77 (233)
.+.|..|+..|. ...+..|++. .++.|. |++.+ .+ ..|..|+++|...+++.|..|++.|.
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~Cp-Cg~~~-----------~R-~~L~~H~~thCp~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCP-CGVVL-----------EK-EQMVQHQASTCPLRLITCRFCGDMVQ 515 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcCCCccCC-CCCCc-----------ch-hHHHhhhhccCCCCceeCCCCCCccc
Confidence 467888888885 4567777775 334566 65431 22 57778888788888888888888874
No 29
>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=97.51 E-value=4.8e-05 Score=43.31 Aligned_cols=25 Identities=36% Similarity=0.721 Sum_probs=23.1
Q ss_pred ccccCCCCCccCChHHHHHHHhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRS 90 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~ 90 (233)
||.|..|++.|.+...|..|++.|.
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 6899999999999999999998774
No 30
>PHA00616 hypothetical protein
Probab=97.49 E-value=4.2e-05 Score=49.01 Aligned_cols=25 Identities=36% Similarity=0.636 Sum_probs=23.1
Q ss_pred ccccCCCCCccCChHHHHHHHhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRS 90 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~ 90 (233)
||+|..||+.|..++.|..|+++|.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h 25 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH 25 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc
Confidence 6899999999999999999998764
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=97.48 E-value=8.4e-05 Score=40.46 Aligned_cols=23 Identities=39% Similarity=1.002 Sum_probs=19.7
Q ss_pred cccCCCCCccCChHHHHHHHhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
|.|++|++.|.+...|..|++++
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 68999999999999999999876
No 32
>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=97.42 E-value=3.9e-05 Score=43.94 Aligned_cols=26 Identities=31% Similarity=0.744 Sum_probs=24.3
Q ss_pred CCcccchhccCCchhhhhhcccccee
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWHR 29 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~hr 29 (233)
|.|..|++.|.+...++.|+++++|+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CCcccCCCCcCCHHHHHHHHccCCCC
Confidence 88999999999999999999998774
No 33
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.37 E-value=3.8e-05 Score=68.38 Aligned_cols=70 Identities=23% Similarity=0.444 Sum_probs=53.1
Q ss_pred CCCCccc--chhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCCh
Q 026761 2 PGLTCNS--CNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSS 79 (233)
Q Consensus 2 ~~f~C~~--C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~ 79 (233)
+||+|.. |.|++.+...|+.|+.-- -||.+-.- .-.|++-..|. ...|||.|.+|+|.|...
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhG--H~~~~~~~-~p~p~~~~~F~-------------~~~KPYrCevC~KRYKNl 411 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHG--HQNQKLHE-NPSPEKMNIFS-------------AKDKPYRCEVCDKRYKNL 411 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhcc--ccCcccCC-CCCcccccccc-------------ccCCceeccccchhhccC
Confidence 7899988 999999999999999762 24544332 11255455552 357999999999999999
Q ss_pred HHHHHHHh
Q 026761 80 KALAQHLN 87 (233)
Q Consensus 80 ~~l~~H~~ 87 (233)
+.|+-|..
T Consensus 412 NGLKYHr~ 419 (423)
T COG5189 412 NGLKYHRK 419 (423)
T ss_pred ccceeccc
Confidence 99998864
No 34
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.34 E-value=0.00028 Score=68.04 Aligned_cols=80 Identities=14% Similarity=0.237 Sum_probs=59.3
Q ss_pred CCCCcccchhccCCchhhhhhccc----cceecCccccccC--CCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKS----DWHRYNLKRKVAG--VPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKG 75 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks----~~hryNlkrkv~~--l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~ 75 (233)
.++.|. ||..| ....|..|..+ .++.|..|++.+. .++.+ |..+...|..|..+. |.+++.|..|||.
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d---~~d~~s~Lt~HE~~C-G~rt~~C~~Cgk~ 550 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMD---VRDRLRGMSEHESIC-GSRTAPCDSCGRS 550 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccc---hhhhhhhHHHHHHhc-CCcceEccccCCe
Confidence 478999 99765 56788888765 6789999998753 12222 222457889999985 8999999999999
Q ss_pred cCChHHHHHHHhh
Q 026761 76 YRSSKALAQHLNS 88 (233)
Q Consensus 76 F~s~~~l~~H~~s 88 (233)
|..+ .+..|+..
T Consensus 551 Vrlr-dm~~H~~~ 562 (567)
T PLN03086 551 VMLK-EMDIHQIA 562 (567)
T ss_pred eeeh-hHHHHHHH
Confidence 9764 47777654
No 35
>smart00355 ZnF_C2H2 zinc finger.
Probab=97.10 E-value=0.00042 Score=38.02 Aligned_cols=23 Identities=39% Similarity=0.895 Sum_probs=21.0
Q ss_pred cccCCCCCccCChHHHHHHHhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
|.|..|++.|.+...|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57999999999999999999854
No 36
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.00 E-value=0.00013 Score=40.68 Aligned_cols=25 Identities=28% Similarity=0.728 Sum_probs=22.5
Q ss_pred CCcccchhccCCchhhhhhccccce
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWH 28 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~h 28 (233)
|.|..|++.|.+...++.|++++.|
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~H 25 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKKH 25 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence 6899999999999999999998543
No 37
>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=96.99 E-value=0.00012 Score=44.05 Aligned_cols=33 Identities=33% Similarity=0.634 Sum_probs=28.5
Q ss_pred CCCCCcccchhccCCchhhhhhccccceecCcc
Q 026761 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLK 33 (233)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlk 33 (233)
+.+|.|..|++.|.+...++.|+++..|+-++.
T Consensus 1 ~~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~ 33 (35)
T smart00451 1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVK 33 (35)
T ss_pred CcCeEccccCCccCCHHHHHHHHChHHHHHHHH
Confidence 357999999999999999999999988865543
No 38
>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=96.93 E-value=0.00028 Score=40.03 Aligned_cols=24 Identities=21% Similarity=0.580 Sum_probs=22.3
Q ss_pred CCCcccchhccCCchhhhhhcccc
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSD 26 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~ 26 (233)
||+|..|++.|.+...|..|++.+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCCccCCccCChhHHHHHhHHh
Confidence 689999999999999999999874
No 39
>PHA00616 hypothetical protein
Probab=96.84 E-value=0.00016 Score=46.33 Aligned_cols=23 Identities=26% Similarity=0.352 Sum_probs=17.0
Q ss_pred CCCcccchhccCCchhhhhhccc
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks 25 (233)
||+|..||+.|...+.+++|+++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~ 23 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLS 23 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHH
Confidence 57888888888777777776655
No 40
>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=96.80 E-value=0.00026 Score=38.62 Aligned_cols=22 Identities=23% Similarity=0.641 Sum_probs=20.5
Q ss_pred CCcccchhccCCchhhhhhccc
Q 026761 4 LTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks 25 (233)
|+|..|++.|.+...|+.|++.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhH
Confidence 6899999999999999999975
No 41
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0013 Score=61.43 Aligned_cols=30 Identities=33% Similarity=0.628 Sum_probs=27.6
Q ss_pred cccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
+.|.+|+|+|.+.+++.+|.+|++|+++++
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~ 322 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVA 322 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHH
Confidence 679999999999999999999999998644
No 42
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.45 E-value=0.0013 Score=67.91 Aligned_cols=83 Identities=19% Similarity=0.259 Sum_probs=57.9
Q ss_pred CCCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCCCccCChHH
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKA 81 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~ 81 (233)
+.|.|..|+-.|+....|-.|||+..+.-+. +. |..+... ..+.+-..--.+.++|.|..|..++..+..
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~-~~--------c~~gq~~-~~~arg~~~~~~~~p~~C~~C~~stttng~ 533 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQS-AY--------CKAGQNH-PRLARGEVYRCPGKPYPCRACNYSTTTNGN 533 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccch-hH--------hHhcccc-ccccccccccCCCCcccceeeeeeeecchH
Confidence 4588999999999999999999996543332 11 0001000 111111111235689999999999999999
Q ss_pred HHHHHhhhhhhhh
Q 026761 82 LAQHLNSRSHIMR 94 (233)
Q Consensus 82 l~~H~~s~~hk~~ 94 (233)
|.+|+.|-+|+.+
T Consensus 534 LsihlqS~~h~~~ 546 (1406)
T KOG1146|consen 534 LSIHLQSDLHRNE 546 (1406)
T ss_pred HHHHHHHHhhHHH
Confidence 9999999999875
No 43
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=96.31 E-value=0.0013 Score=60.84 Aligned_cols=31 Identities=10% Similarity=0.059 Sum_probs=26.9
Q ss_pred CCcccCCCCCCCCHHHHHHHhhhhcccccCC
Q 026761 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPD 212 (233)
Q Consensus 182 ~~~ClfC~~~~~~~~~~~~HM~~~h~ffIP~ 212 (233)
.+.|-.|++.|..-..+-+|...+|-.-.+.
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlthq~~~~~k 386 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTHQRAPLAK 386 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhhhccccch
Confidence 6789999999999999999998888765555
No 44
>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=96.24 E-value=0.0011 Score=35.93 Aligned_cols=22 Identities=23% Similarity=0.729 Sum_probs=18.4
Q ss_pred CCcccchhccCCchhhhhhccc
Q 026761 4 LTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks 25 (233)
|.|..|++.|.+...++.|+++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~ 22 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRT 22 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHh
Confidence 6899999999999999999876
No 45
>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=95.86 E-value=0.013 Score=38.97 Aligned_cols=23 Identities=30% Similarity=0.606 Sum_probs=18.3
Q ss_pred CccccCCCCCccCChHHHHHHHhhh
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
+.+.|++|...+. ..|..|++++
T Consensus 30 ~~v~CPiC~~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 30 KNVVCPICSSRVT--DNLIRHLNSQ 52 (54)
T ss_pred CCccCCCchhhhh--hHHHHHHHHh
Confidence 4689999998765 4889998864
No 46
>PHA00732 hypothetical protein
Probab=95.38 E-value=0.01 Score=42.84 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=21.5
Q ss_pred ccccCCCCCccCChHHHHHHHhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNS 88 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s 88 (233)
||.|..||+.|.+..+|..|++.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~ 23 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARR 23 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhc
Confidence 68999999999999999999985
No 47
>smart00355 ZnF_C2H2 zinc finger.
Probab=94.89 E-value=0.011 Score=32.08 Aligned_cols=22 Identities=23% Similarity=0.637 Sum_probs=19.9
Q ss_pred CCcccchhccCCchhhhhhccc
Q 026761 4 LTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks 25 (233)
|.|..|+++|.+...+..|++.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHH
Confidence 6899999999999999999874
No 48
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.39 E-value=0.019 Score=31.48 Aligned_cols=23 Identities=22% Similarity=0.413 Sum_probs=19.2
Q ss_pred cccCCCCCCCCHHHHHHHhhhhcc
Q 026761 184 CCFMCDLPHDAIENCMVHMHKCHG 207 (233)
Q Consensus 184 ~ClfC~~~~~~~~~~~~HM~~~h~ 207 (233)
.|-+|++.+. ...+.+||.++||
T Consensus 2 ~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 2 KCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp E-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCcCC-HHHHHHHHHhhCc
Confidence 6999999998 8899999999986
No 49
>PRK04860 hypothetical protein; Provisional
Probab=94.23 E-value=0.029 Score=45.94 Aligned_cols=28 Identities=14% Similarity=0.313 Sum_probs=24.6
Q ss_pred HHHHHHHhhcCCCCccccCCCCCccCCh
Q 026761 52 AALAQEKNKNATPMTYSCGLCGKGYRSS 79 (233)
Q Consensus 52 ~~l~~h~~~h~~~k~~~C~~C~K~F~s~ 79 (233)
..+..|.++|+++++|.|..|++.|...
T Consensus 129 ~~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 129 LTVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred CHHHHHHHHhcCCccEECCCCCceeEEe
Confidence 4678999999999999999999998643
No 50
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=94.18 E-value=0.033 Score=50.45 Aligned_cols=53 Identities=19% Similarity=0.258 Sum_probs=46.6
Q ss_pred CCCCcccCCCCCC-CCHHHHHHHhhhhcccccCCcccccCHHHHHHHHhccccC
Q 026761 180 FDPACCFMCDLPH-DAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVPS 232 (233)
Q Consensus 180 i~~~~ClfC~~~~-~~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eKI~~ 232 (233)
+-..+||||+... ......+.||...|||-|=-.+-||-+.-||.-|.+|.-+
T Consensus 142 ~fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~r 195 (423)
T KOG2482|consen 142 IFSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLER 195 (423)
T ss_pred eeeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHhh
Confidence 3457899998865 6789999999999999999999999999999999988754
No 51
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=94.03 E-value=0.03 Score=43.44 Aligned_cols=36 Identities=22% Similarity=0.388 Sum_probs=31.8
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhhhhhhhhhcC
Q 026761 63 TPMTYSCGLCGKGYRSSKALAQHLNSRSHIMRASQG 98 (233)
Q Consensus 63 ~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~~~ 98 (233)
|.-.|.|-.|-+-|.+...|..|.+++.||.|++..
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l 89 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTKVHKRRVKEL 89 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhccHHHHHHHhc
Confidence 334589999999999999999999999999987754
No 52
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=93.84 E-value=0.054 Score=30.39 Aligned_cols=21 Identities=24% Similarity=0.725 Sum_probs=17.4
Q ss_pred cccCCCCCccCChHHHHHHHhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNS 88 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s 88 (233)
..|..||++| ...+|..|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 4699999999 66779999864
No 53
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=93.38 E-value=0.078 Score=28.96 Aligned_cols=22 Identities=27% Similarity=0.610 Sum_probs=17.6
Q ss_pred cccCCCCCccCChHHHHHHHhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
|+|..|..... ...|.+|++.+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~ 22 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRH 22 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhh
Confidence 68999998887 88999999875
No 54
>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=92.70 E-value=0.11 Score=34.37 Aligned_cols=29 Identities=31% Similarity=0.616 Sum_probs=20.6
Q ss_pred CCCCccccCCCCCccCChHHHHHHHhhhh
Q 026761 62 ATPMTYSCGLCGKGYRSSKALAQHLNSRS 90 (233)
Q Consensus 62 ~~~k~~~C~~C~K~F~s~~~l~~H~~s~~ 90 (233)
..+.|-.|++|+..+.+..+|++|+.++.
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 45678899999999999999999997654
No 55
>PLN02748 tRNA dimethylallyltransferase
Probab=91.71 E-value=0.11 Score=49.58 Aligned_cols=33 Identities=30% Similarity=0.596 Sum_probs=29.4
Q ss_pred CccccCCCCC-ccCChHHHHHHHhhhhhhhhhhc
Q 026761 65 MTYSCGLCGK-GYRSSKALAQHLNSRSHIMRASQ 97 (233)
Q Consensus 65 k~~~C~~C~K-~F~s~~~l~~H~~s~~hk~~~~~ 97 (233)
+.|.|.+|++ .+........|++|++|+.+.+.
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~ 450 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQR 450 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchHHHHHHhH
Confidence 5688999998 79999999999999999987553
No 56
>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=90.79 E-value=0.57 Score=35.42 Aligned_cols=27 Identities=26% Similarity=0.351 Sum_probs=25.1
Q ss_pred CCCcc----cCCCCCCCCHHHHHHHhhhhcc
Q 026761 181 DPACC----FMCDLPHDAIENCMVHMHKCHG 207 (233)
Q Consensus 181 ~~~~C----lfC~~~~~~~~~~~~HM~~~h~ 207 (233)
+-..| ..|++...+...+-+|++..||
T Consensus 79 ~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 79 DGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 55789 9999999999999999999997
No 57
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=89.98 E-value=0.17 Score=34.11 Aligned_cols=33 Identities=18% Similarity=0.429 Sum_probs=27.9
Q ss_pred cCCCCccccCCCCCccCChHHHHHHH-hhhhhhh
Q 026761 61 NATPMTYSCGLCGKGYRSSKALAQHL-NSRSHIM 93 (233)
Q Consensus 61 h~~~k~~~C~~C~K~F~s~~~l~~H~-~s~~hk~ 93 (233)
..|+.-+.|+-||+-|..+.+|.+|+ ++|.|+.
T Consensus 12 RDGE~~lrCPRC~~~FR~~K~Y~RHVNKaH~~~~ 45 (65)
T COG4049 12 RDGEEFLRCPRCGMVFRRRKDYIRHVNKAHGWLF 45 (65)
T ss_pred cCCceeeeCCchhHHHHHhHHHHHHhhHHhhhhh
Confidence 35777889999999999999999997 5666665
No 58
>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=89.50 E-value=0.33 Score=30.05 Aligned_cols=31 Identities=23% Similarity=0.343 Sum_probs=17.7
Q ss_pred ccccCCCCCccC-C-hHHHHHHHhhhhhhhhhh
Q 026761 66 TYSCGLCGKGYR-S-SKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 66 ~~~C~~C~K~F~-s-~~~l~~H~~s~~hk~~~~ 96 (233)
.|-|+.|.+.|. . .+.-.+|.+..+|+.+..
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~ 35 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHERGWKHKENVK 35 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT--THHHHHHH
T ss_pred CeecccccceecCCChHHHHHhhccHHHHHHHH
Confidence 478999999993 3 345699999999998643
No 59
>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=89.33 E-value=0.36 Score=31.94 Aligned_cols=44 Identities=16% Similarity=0.278 Sum_probs=29.3
Q ss_pred CCCcccchhccCCchhhhhhcccc------ceecCccccccCCCCccHHHHHHHHHHHHHHHhh
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSD------WHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK 60 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~------~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~ 60 (233)
.|+|..|++.| +...|..|.... .++|.+|.. .+. .+|..|+..
T Consensus 2 ~f~CP~C~~~~-~~~~L~~H~~~~H~~~~~~v~CPiC~~----------~~~---~~l~~Hl~~ 51 (54)
T PF05605_consen 2 SFTCPYCGKGF-SESSLVEHCEDEHRSESKNVVCPICSS----------RVT---DNLIRHLNS 51 (54)
T ss_pred CcCCCCCCCcc-CHHHHHHHHHhHCcCCCCCccCCCchh----------hhh---hHHHHHHHH
Confidence 59999999954 567788887763 245555543 122 367778765
No 60
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=89.04 E-value=0.11 Score=40.36 Aligned_cols=27 Identities=33% Similarity=0.644 Sum_probs=25.1
Q ss_pred CCCcccchhccCCchhhhhhcccccee
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHR 29 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hr 29 (233)
.|.|..|.+-|.+...+..|++++.|+
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~ktK~HK 83 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKTKVHK 83 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhccHHH
Confidence 489999999999999999999999883
No 61
>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=87.40 E-value=0.35 Score=27.14 Aligned_cols=21 Identities=10% Similarity=-0.091 Sum_probs=16.2
Q ss_pred hhhhhhccccceecCcccccc
Q 026761 17 AEQKLHYKSDWHRYNLKRKVA 37 (233)
Q Consensus 17 ~~lr~H~ks~~hryNlkrkv~ 37 (233)
.+++.|.+..+|.|+.|++.|
T Consensus 4 ~H~~~H~~~k~~~C~~C~k~F 24 (26)
T PF13465_consen 4 RHMRTHTGEKPYKCPYCGKSF 24 (26)
T ss_dssp HHHHHHSSSSSEEESSSSEEE
T ss_pred HHhhhcCCCCCCCCCCCcCee
Confidence 356677777889999998865
No 62
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.34 E-value=0.57 Score=42.81 Aligned_cols=75 Identities=24% Similarity=0.425 Sum_probs=56.8
Q ss_pred CcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCC--C--CC--ccCC
Q 026761 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGL--C--GK--GYRS 78 (233)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~--C--~K--~F~s 78 (233)
.|..|.+.|.+.+.|+.|++...-+|-+|.+|. |++..-|..- .+|..|-+. ..|-|.+ | || .|..
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~---p~~~QYFK~Y-~~Le~HF~~----~hy~ct~qtc~~~k~~vf~~ 293 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHEACHICDMVG---PIRYQYFKSY-EDLEAHFRN----AHYCCTFQTCRVGKCYVFPY 293 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhhhhhhhhccC---ccchhhhhCH-HHHHHHhhc----CceEEEEEEEecCcEEEecc
Confidence 499999999999999999999988899999986 6777777655 677777654 1254542 4 33 3777
Q ss_pred hHHHHHHHh
Q 026761 79 SKALAQHLN 87 (233)
Q Consensus 79 ~~~l~~H~~ 87 (233)
.-.|..|+.
T Consensus 294 ~~el~~h~~ 302 (493)
T COG5236 294 HTELLEHLT 302 (493)
T ss_pred HHHHHHHHH
Confidence 777888863
No 63
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=86.35 E-value=0.43 Score=41.69 Aligned_cols=34 Identities=18% Similarity=0.416 Sum_probs=23.6
Q ss_pred HHHHHHhhcCCCCccccCCCCCccCChHHHHHHHhh
Q 026761 53 ALAQEKNKNATPMTYSCGLCGKGYRSSKALAQHLNS 88 (233)
Q Consensus 53 ~l~~h~~~h~~~k~~~C~~C~K~F~s~~~l~~H~~s 88 (233)
.+.+|+..-.+ .-|.|-.||+.|.. -+|.+|..=
T Consensus 17 ~vekH~srCrn-~~fSCIDC~k~F~~-~sYknH~kC 50 (276)
T KOG2186|consen 17 QVEKHMSRCRN-AYFSCIDCGKTFER-VSYKNHTKC 50 (276)
T ss_pred chHHHHHhccC-CeeEEeeccccccc-chhhhhhhh
Confidence 34455554333 56899999999987 678888653
No 64
>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=86.32 E-value=0.25 Score=32.69 Aligned_cols=23 Identities=17% Similarity=0.367 Sum_probs=14.7
Q ss_pred CCCcccchhccCCchhhhhhccc
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks 25 (233)
|-+|..|+..+.....||+|+..
T Consensus 24 PatCP~C~a~~~~srnLrRHle~ 46 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLEI 46 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHHH
T ss_pred CCCCCcchhhccchhhHHHHHHH
Confidence 56788888888888888888755
No 65
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.00 E-value=0.39 Score=47.45 Aligned_cols=84 Identities=19% Similarity=0.293 Sum_probs=44.2
Q ss_pred CCcccchhccC---------------Cchhhhhhccc--cceecCccccccCCCCccHHHHHHHHHHHHHHHhh-cCCCC
Q 026761 4 LTCNSCNREFN---------------DDAEQKLHYKS--DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK-NATPM 65 (233)
Q Consensus 4 f~C~~C~~~F~---------------~~~~lr~H~ks--~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~-h~~~k 65 (233)
+.|..|+..|. +...|+.||.. +.|-|.+|-....+--+.-..|.+ ..|..|+.. ..+++
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~--~el~~h~~~gd~d~~ 177 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTR--AELNLHLMFGDPDDE 177 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehH--HHHHHHHhcCCCccc
Confidence 56777777773 66789999976 446677774332210011112221 355555543 11111
Q ss_pred c----cccCCCCCccCChHHHHHHHhhh
Q 026761 66 T----YSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 66 ~----~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
. =.|..|...|-....|.+|++..
T Consensus 178 s~rGhp~C~~C~~~fld~~el~rH~~~~ 205 (669)
T KOG2231|consen 178 SCRGHPLCKFCHERFLDDDELYRHLRFD 205 (669)
T ss_pred cccCCccchhhhhhhccHHHHHHhhccc
Confidence 1 13666666666666666666643
No 66
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=83.84 E-value=0.44 Score=36.23 Aligned_cols=33 Identities=27% Similarity=0.407 Sum_probs=29.7
Q ss_pred CccccCCCCCccCChHHHHHHHhhhhhhhhhhc
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMRASQ 97 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~~ 97 (233)
-.|.|-.|.+-|-+..+|..|.+++-|+.|+..
T Consensus 54 GqhYCieCaryf~t~~aL~~HkkgkvHkRR~Ke 86 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKGKVHKRRAKE 86 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhccchhHHHHHH
Confidence 347899999999999999999999999998664
No 67
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=82.31 E-value=0.27 Score=51.55 Aligned_cols=33 Identities=21% Similarity=0.271 Sum_probs=28.0
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 63 TPMTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 63 ~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
.-..| |..|...|+...+|..|+++-.|+.+..
T Consensus 1326 d~~~~-c~~c~~~~~~~~alqihm~~~~~~~kt~ 1358 (1406)
T KOG1146|consen 1326 DCTYH-CLACEVLLSGREALQIHMRSSAHRRKTA 1358 (1406)
T ss_pred ccccc-chHHHhhcchhHHHHHHHHHhhhcccCC
Confidence 33456 9999999999999999999999987533
No 68
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.81 E-value=0.44 Score=43.51 Aligned_cols=84 Identities=21% Similarity=0.278 Sum_probs=55.5
Q ss_pred CCccc--chhccCCchhhhhhcccccee--cCccccccCCCCccH--HHHHHHHHHHHHHHhhcC---CCCcc-ccCCCC
Q 026761 4 LTCNS--CNREFNDDAEQKLHYKSDWHR--YNLKRKVAGVPGVTE--ALFLARQAALAQEKNKNA---TPMTY-SCGLCG 73 (233)
Q Consensus 4 f~C~~--C~~~F~~~~~lr~H~ks~~hr--yNlkrkv~~l~p~~~--~~F~~k~~~l~~h~~~h~---~~k~~-~C~~C~ 73 (233)
|.|.. |.+.-..-..|+.|++.+.|+ |.+|-+ ...-|.+ ..|.+ ..|..|+..-. |-+.+ .|..|+
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H~~~~C~~C~~--nKk~F~~E~~lF~~--~~Lr~H~~~G~~e~GFKGHP~C~FC~ 227 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIG--NKKDFWNEIRLFRS--STLRDHKNGGLEEEGFKGHPLCIFCK 227 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhc--CcccCccceeeeec--ccccccccCCccccCcCCCchhhhcc
Confidence 45543 555555566799999997655 777744 2233333 33553 37777876522 22322 599999
Q ss_pred CccCChHHHHHHHhhhhh
Q 026761 74 KGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 74 K~F~s~~~l~~H~~s~~h 91 (233)
+.|..-.-|..|+|-+.-
T Consensus 228 ~~FYdDDEL~~HcR~~HE 245 (493)
T COG5236 228 IYFYDDDELRRHCRLRHE 245 (493)
T ss_pred ceecChHHHHHHHHhhhh
Confidence 999999999999987653
No 69
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=80.95 E-value=0.95 Score=29.67 Aligned_cols=30 Identities=30% Similarity=0.365 Sum_probs=24.6
Q ss_pred CCccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 64 PMTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 64 ~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
.+|-.|..|.-.|. .|..|+.|.+|+.-+.
T Consensus 3 ~k~GYCE~Cr~kfd---~l~~Hi~s~~Hr~FA~ 32 (49)
T smart00586 3 KKPGYCENCREKYD---DLETHLLSEKHRRFAE 32 (49)
T ss_pred CCCcccccHhHHHh---hHHHHhccHHHHHHHc
Confidence 46667999999996 6889999999987443
No 70
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=78.12 E-value=0.76 Score=44.58 Aligned_cols=28 Identities=39% Similarity=0.857 Sum_probs=23.0
Q ss_pred CCCCcccchhccCCchhhhhhccc--ccee
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKS--DWHR 29 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks--~~hr 29 (233)
.|-.|..||+.|.+....+.||.. +||+
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H~dwh~ 446 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIHDDWHR 446 (579)
T ss_pred CcchhcccccccccchhhhhHhhhhhhhhh
Confidence 356899999999999988888865 5764
No 71
>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 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. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding
Probab=77.73 E-value=2.3 Score=27.83 Aligned_cols=29 Identities=28% Similarity=0.402 Sum_probs=23.8
Q ss_pred CccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
++-.|..|.-.|. .|..|+.|.+|+.-+.
T Consensus 4 k~GYCE~C~~ky~---~l~~Hi~s~~Hr~FA~ 32 (49)
T PF07535_consen 4 KPGYCENCRVKYD---DLEEHIQSEKHRKFAE 32 (49)
T ss_pred CCccCccccchhh---hHHHHhCCHHHHHHHc
Confidence 4556999999996 5899999999988544
No 72
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=76.15 E-value=1.1 Score=39.11 Aligned_cols=30 Identities=33% Similarity=0.592 Sum_probs=26.8
Q ss_pred cccchhccCCchhhhhhccccceecCcccc
Q 026761 6 CNSCNREFNDDAEQKLHYKSDWHRYNLKRK 35 (233)
Q Consensus 6 C~~C~~~F~~~~~lr~H~ks~~hryNlkrk 35 (233)
|-.|++.|.+...|-+|.+.+.|+|.+|-|
T Consensus 13 cwycnrefddekiliqhqkakhfkchichk 42 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKHFKCHICHK 42 (341)
T ss_pred eeecccccchhhhhhhhhhhccceeeeehh
Confidence 889999999999999999998889998865
No 73
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=75.20 E-value=0.67 Score=39.59 Aligned_cols=34 Identities=15% Similarity=0.319 Sum_probs=22.0
Q ss_pred CCCCcccchhccCCchhhhhhccccceecCcccc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRK 35 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrk 35 (233)
+.++|..|+..|.+........+....-.++|.+
T Consensus 4 k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~ 37 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPR 37 (214)
T ss_pred CceECCCCCCeeeeeEEEcCCceEeeecCCCccc
Confidence 4679999999999886655555443233444444
No 74
>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=74.66 E-value=0.65 Score=28.70 Aligned_cols=31 Identities=29% Similarity=0.536 Sum_probs=14.6
Q ss_pred CCCCCcccchhccC-Cc-hhhhhhccccceecC
Q 026761 1 MPGLTCNSCNREFN-DD-AEQKLHYKSDWHRYN 31 (233)
Q Consensus 1 ~~~f~C~~C~~~F~-~~-~~lr~H~ks~~hryN 31 (233)
|+.|-|..|.+.|. +. ..-+.|.+.--|+-|
T Consensus 1 m~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~n 33 (38)
T PF06220_consen 1 MPRYYCDYCKKYLTHDSPSIRKQHERGWKHKEN 33 (38)
T ss_dssp --S-B-TTT--B-S--SHHHHHHHT--THHHHH
T ss_pred CcCeecccccceecCCChHHHHHhhccHHHHHH
Confidence 78899999999993 44 455888887656433
No 75
>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=74.37 E-value=2.8 Score=23.61 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=15.7
Q ss_pred ccCCCCCccCChHHHHHHHh
Q 026761 68 SCGLCGKGYRSSKALAQHLN 87 (233)
Q Consensus 68 ~C~~C~K~F~s~~~l~~H~~ 87 (233)
.|++|++.+ ....+..|+-
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 699999999 6677888875
No 76
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=74.10 E-value=1.1 Score=40.12 Aligned_cols=41 Identities=27% Similarity=0.530 Sum_probs=33.5
Q ss_pred HHHHHHh--hcCCC--CccccC--CCCCccCChHHHHHHHhhhhhhh
Q 026761 53 ALAQEKN--KNATP--MTYSCG--LCGKGYRSSKALAQHLNSRSHIM 93 (233)
Q Consensus 53 ~l~~h~~--~h~~~--k~~~C~--~C~K~F~s~~~l~~H~~s~~hk~ 93 (233)
.|..|.+ .|+++ +++.|. .|++.|.+...+..|...|....
T Consensus 304 ~l~~~~~~~~h~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (467)
T COG5048 304 PLTRHLRSVNHSGESLKPFSCPYSLCGKLFSRNDALKRHILLHTSIS 350 (467)
T ss_pred cccccccccccccccCCceeeeccCCCccccccccccCCcccccCCC
Confidence 4455555 57888 899999 89999999999999998887655
No 77
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=74.00 E-value=1.5 Score=39.66 Aligned_cols=25 Identities=28% Similarity=0.684 Sum_probs=22.5
Q ss_pred CCCccccCC--CCCccCChHHHHHHHh
Q 026761 63 TPMTYSCGL--CGKGYRSSKALAQHLN 87 (233)
Q Consensus 63 ~~k~~~C~~--C~K~F~s~~~l~~H~~ 87 (233)
++|||+|++ |.|+|.+++.|+-|+.
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~l 372 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHML 372 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhh
Confidence 459999998 9999999999999975
No 78
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=73.20 E-value=2.6 Score=38.97 Aligned_cols=79 Identities=18% Similarity=0.367 Sum_probs=50.5
Q ss_pred CCCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccCCCC---CccCCh
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCG---KGYRSS 79 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~~C~---K~F~s~ 79 (233)
|-.|..|++.|.+...-..||..+ |- |-+|=+ .+..-..-|-.-+.- --...|.|-.|+ +.|.+.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~-Hg-------ffIPdr---eYL~D~~GLl~YLge-KV~~~~~CL~CN~~~~~f~sl 233 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKE-HG-------FFIPDR---EYLTDEKGLLKYLGE-KVGIGFICLFCNELGRPFSSL 233 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhc-cC-------CcCCch---HhhhchhHHHHHHHH-HhccCceEEEeccccCccccc
Confidence 346999999999999999999875 31 222211 111101111111111 012457788888 999999
Q ss_pred HHHHHHHhhhhhhh
Q 026761 80 KALAQHLNSRSHIM 93 (233)
Q Consensus 80 ~~l~~H~~s~~hk~ 93 (233)
.+.+.||..|.|=.
T Consensus 234 eavr~HM~~K~HCk 247 (390)
T KOG2785|consen 234 EAVRAHMRDKGHCK 247 (390)
T ss_pred HHHHHHHhhccCcc
Confidence 99999999999954
No 79
>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=72.05 E-value=3.2 Score=25.90 Aligned_cols=24 Identities=33% Similarity=0.589 Sum_probs=15.3
Q ss_pred CCccccCCCCCccCCh----HHHHHHHh
Q 026761 64 PMTYSCGLCGKGYRSS----KALAQHLN 87 (233)
Q Consensus 64 ~k~~~C~~C~K~F~s~----~~l~~H~~ 87 (233)
....+|..|++.+... +.|.+|++
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~ 41 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLK 41 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhh
Confidence 4456899999998764 67899984
No 80
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=70.16 E-value=3 Score=26.98 Aligned_cols=22 Identities=36% Similarity=0.684 Sum_probs=17.5
Q ss_pred cccCCCCCccCCh-----HHHHHHHhh
Q 026761 67 YSCGLCGKGYRSS-----KALAQHLNS 88 (233)
Q Consensus 67 ~~C~~C~K~F~s~-----~~l~~H~~s 88 (233)
-.|..|++.++.. ++|.+|++.
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 3699999988655 689999985
No 81
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.24 E-value=2.3 Score=36.25 Aligned_cols=27 Identities=19% Similarity=0.493 Sum_probs=21.5
Q ss_pred CCCCccccCC--CCCccCChHHHHHHHhh
Q 026761 62 ATPMTYSCGL--CGKGYRSSKALAQHLNS 88 (233)
Q Consensus 62 ~~~k~~~C~~--C~K~F~s~~~l~~H~~s 88 (233)
.|.-.|+|-+ |+-.|.+...-..|+..
T Consensus 140 RG~dMy~ClvEgCt~KFkT~r~RkdH~I~ 168 (253)
T KOG4173|consen 140 RGQDMYQCLVEGCTEKFKTSRDRKDHMIR 168 (253)
T ss_pred cCccHHHHHHHhhhhhhhhhhhhhhHHHH
Confidence 3556799975 99999999988888754
No 82
>PTZ00448 hypothetical protein; Provisional
Probab=67.36 E-value=4.2 Score=37.52 Aligned_cols=31 Identities=26% Similarity=0.418 Sum_probs=28.3
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
.|.|..|+-.|.+....+.|.+|=-|+.+.+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLK 344 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNTK 344 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHHH
Confidence 5889999999999999999999999998655
No 83
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=66.69 E-value=2.5 Score=33.53 Aligned_cols=50 Identities=18% Similarity=0.209 Sum_probs=27.7
Q ss_pred ceecCccccccC----CCCccHHHHH---HHHHHHHHHHhhcCCCCccccCCCCCccCChHH
Q 026761 27 WHRYNLKRKVAG----VPGVTEALFL---ARQAALAQEKNKNATPMTYSCGLCGKGYRSSKA 81 (233)
Q Consensus 27 ~hryNlkrkv~~----l~p~~~~~F~---~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~ 81 (233)
.|.||+|+-+.. |+|=.|=.|. .=-.+|=+|-..|. .|++|.-+|.+.+.
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~yp-----vCPvCkTSFKss~~ 136 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYP-----VCPVCKTSFKSSSS 136 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCC-----CCCccccccccccc
Confidence 477777776532 3343321121 11234445544432 59999999998754
No 84
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=65.13 E-value=1.7 Score=33.12 Aligned_cols=26 Identities=27% Similarity=0.425 Sum_probs=24.3
Q ss_pred CCcccchhccCCchhhhhhcccccee
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWHR 29 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~hr 29 (233)
|.|..|.+-|.+...|..|.+..+|+
T Consensus 56 hYCieCaryf~t~~aL~~HkkgkvHk 81 (126)
T COG5112 56 HYCIECARYFITEKALMEHKKGKVHK 81 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhccchhH
Confidence 78999999999999999999999884
No 85
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=64.31 E-value=3 Score=38.29 Aligned_cols=31 Identities=26% Similarity=0.561 Sum_probs=27.3
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
.+.|..|++-|....-+..|+.++.|.....
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~ 268 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHLEGKRHCKEGQ 268 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHHhhhhhhhhhh
Confidence 4689999999999999999999999987433
No 86
>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=64.17 E-value=4.6 Score=34.59 Aligned_cols=30 Identities=23% Similarity=0.552 Sum_probs=22.2
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhhhhhh
Q 026761 63 TPMTYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (233)
Q Consensus 63 ~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~ 93 (233)
++..|.|.+|+|.|.-..-...|+.. ||-+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~n-KH~e 103 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFN-KHPE 103 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHH-H-HH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhh-cCHH
Confidence 45579999999999999999999876 4443
No 87
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=63.94 E-value=4.2 Score=33.64 Aligned_cols=30 Identities=23% Similarity=0.471 Sum_probs=27.6
Q ss_pred CccccCCCCCccCChHHHHHHHhhhhhhhh
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~ 94 (233)
-.|.|.+|.=.|.-.-+|.-|++-++|..+
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiNgKkHqrn 103 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHINGKKHQRN 103 (193)
T ss_pred CceeeeecceeehhhHHHHHHhccHHHHHH
Confidence 359999999999999999999999999875
No 88
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=62.42 E-value=3.7 Score=34.52 Aligned_cols=35 Identities=17% Similarity=0.336 Sum_probs=30.1
Q ss_pred hcCCCCccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 60 KNATPMTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 60 ~h~~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
.|.| .|.|.+|...-.+.+++..|..-+||+.+.+
T Consensus 49 Nh~G--~yeCkLClT~H~ne~Syl~HtqGKKHq~Nla 83 (222)
T KOG0227|consen 49 NHLG--KYECKLCLTLHNNEGSYLAHTQGKKHQTNLA 83 (222)
T ss_pred ccCc--ceeehhhhhhhcchhhhhhhhccchhhHHHH
Confidence 3554 4899999999999999999999999998644
No 89
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=62.19 E-value=4.3 Score=33.93 Aligned_cols=34 Identities=21% Similarity=0.394 Sum_probs=29.6
Q ss_pred cCCCCccccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 61 NATPMTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 61 h~~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
|+| .|.|.+|...-.+.+++..|..-+||+.+.+
T Consensus 50 h~G--k~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~ 83 (222)
T COG5246 50 HTG--KYVCLLCKTKHLTEMSYVKHREGKKHKENSS 83 (222)
T ss_pred CCC--cEEeeeeccccccHHHHHHhhccchhhhhHH
Confidence 554 3899999999999999999999999998644
No 90
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=60.99 E-value=4.2 Score=35.13 Aligned_cols=22 Identities=23% Similarity=0.537 Sum_probs=19.7
Q ss_pred CCCcccCCCCCCCCHHHHHHHh
Q 026761 181 DPACCFMCDLPHDAIENCMVHM 202 (233)
Q Consensus 181 ~~~~ClfC~~~~~~~~~~~~HM 202 (233)
....|+|||..+.+-++++.|=
T Consensus 238 eh~YC~fCG~~y~~~edl~ehC 259 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEHC 259 (268)
T ss_pred cceEEEEeccccCCHHHHHHhC
Confidence 4678999999999999999984
No 91
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=59.96 E-value=4.5 Score=35.29 Aligned_cols=40 Identities=23% Similarity=0.424 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHhhcCCCCccccCCCCCccCChHHHHHH-Hhhhhh
Q 026761 47 FLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKALAQH-LNSRSH 91 (233)
Q Consensus 47 F~~k~~~l~~h~~~h~~~k~~~C~~C~K~F~s~~~l~~H-~~s~~h 91 (233)
|... ..|.+|+.. |.|+|.+|.|...+--.|..| +..||.
T Consensus 20 fdde-kiliqhqka----khfkchichkkl~sgpglsihcmqvhke 60 (341)
T KOG2893|consen 20 FDDE-KILIQHQKA----KHFKCHICHKKLFSGPGLSIHCMQVHKE 60 (341)
T ss_pred cchh-hhhhhhhhh----ccceeeeehhhhccCCCceeehhhhhhh
Confidence 4433 456666653 569999999998888888888 455554
No 92
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=59.50 E-value=7.2 Score=38.66 Aligned_cols=17 Identities=53% Similarity=0.906 Sum_probs=12.0
Q ss_pred CCCCCCCcccccCCcch
Q 026761 129 EESEDSDDEWEEVGPDE 145 (233)
Q Consensus 129 ~~~~~~~~~~~~~~~~e 145 (233)
+.+.|+++|||+-.++|
T Consensus 518 DYEVdSDeEWEEEepGE 534 (811)
T KOG4364|consen 518 DYEVDSDEEWEEEEPGE 534 (811)
T ss_pred cccccCcccccccCCCc
Confidence 45668888998866554
No 93
>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=59.47 E-value=1.7 Score=25.16 Aligned_cols=19 Identities=26% Similarity=0.660 Sum_probs=13.0
Q ss_pred cccCCCCCccCChHHHHHHH
Q 026761 67 YSCGLCGKGYRSSKALAQHL 86 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~ 86 (233)
|.|-.|++.| ....++.|.
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEE-EGGGTTT--
T ss_pred CeeecCCCCc-CcCCcCCCC
Confidence 5799999999 555566664
No 94
>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=58.83 E-value=4.8 Score=31.90 Aligned_cols=23 Identities=30% Similarity=0.725 Sum_probs=15.4
Q ss_pred cccCCCCCccCChHHHHHHHhhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSHI 92 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~hk 92 (233)
-.|-+|||.|.+ |.+|+++|.-.
T Consensus 73 i~clecGk~~k~---LkrHL~~~~gl 95 (132)
T PF05443_consen 73 IICLECGKKFKT---LKRHLRTHHGL 95 (132)
T ss_dssp EE-TBT--EESB---HHHHHHHTT-S
T ss_pred eEEccCCcccch---HHHHHHHccCC
Confidence 479999999976 58999998443
No 95
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=57.80 E-value=2.5 Score=42.14 Aligned_cols=29 Identities=21% Similarity=0.479 Sum_probs=26.2
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~~ 94 (233)
-|-|.+|+|-|-.-+++..||++|.-+++
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~Hr~q~~ 820 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKTHRQQEE 820 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 38899999999999999999999987774
No 96
>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=57.08 E-value=4.7 Score=31.95 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=16.9
Q ss_pred CCcccCCCCCCCCHHHHHHHhhhhcccc
Q 026761 182 PACCFMCDLPHDAIENCMVHMHKCHGFF 209 (233)
Q Consensus 182 ~~~ClfC~~~~~~~~~~~~HM~~~h~ff 209 (233)
-..||-||+.+.++ -+|.+.+||+.
T Consensus 72 ~i~clecGk~~k~L---krHL~~~~glt 96 (132)
T PF05443_consen 72 YIICLECGKKFKTL---KRHLRTHHGLT 96 (132)
T ss_dssp -EE-TBT--EESBH---HHHHHHTT-S-
T ss_pred eeEEccCCcccchH---HHHHHHccCCC
Confidence 45799999999887 89999999976
No 97
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=54.73 E-value=7.1 Score=31.07 Aligned_cols=21 Identities=29% Similarity=0.498 Sum_probs=17.7
Q ss_pred ccCCCCCccCChHHHHHHHhhhhh
Q 026761 68 SCGLCGKGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 68 ~C~~C~K~F~s~~~l~~H~~s~~h 91 (233)
.|-.|||.|. +|++|+.+|--
T Consensus 78 icLEDGkkfK---SLKRHL~t~~g 98 (148)
T COG4957 78 ICLEDGKKFK---SLKRHLTTHYG 98 (148)
T ss_pred EEeccCcchH---HHHHHHhcccC
Confidence 6999999995 58899998753
No 98
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=54.20 E-value=4.6 Score=25.61 Aligned_cols=29 Identities=24% Similarity=0.284 Sum_probs=19.8
Q ss_pred CCCCCcccchhccCCchhhhhhccccceecCcccc
Q 026761 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRK 35 (233)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrk 35 (233)
|..|.|..||..|.-...-. ..+|+.|+-
T Consensus 1 ~~~y~C~~CG~~~~~~~~~~------~~~Cp~CG~ 29 (46)
T PRK00398 1 MAEYKCARCGREVELDEYGT------GVRCPYCGY 29 (46)
T ss_pred CCEEECCCCCCEEEECCCCC------ceECCCCCC
Confidence 67789999998886443211 467777765
No 99
>PF14420 Clr5: Clr5 domain
Probab=52.46 E-value=7.6 Score=25.64 Aligned_cols=26 Identities=27% Similarity=0.436 Sum_probs=21.4
Q ss_pred CCCCHHHHHHHhhhhcccccCCcccc
Q 026761 191 PHDAIENCMVHMHKCHGFFIPDVEYL 216 (233)
Q Consensus 191 ~~~~~~~~~~HM~~~h~ffIP~~~yl 216 (233)
..-++.+...+|...|||..-.+.|-
T Consensus 19 e~~tl~~v~~~M~~~~~F~at~rqy~ 44 (54)
T PF14420_consen 19 ENKTLEEVMEIMKEEHGFKATKRQYK 44 (54)
T ss_pred CCCcHHHHHHHHHHHhCCCcCHHHHH
Confidence 45688999999999999998766553
No 100
>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=52.03 E-value=14 Score=32.73 Aligned_cols=83 Identities=16% Similarity=0.212 Sum_probs=44.9
Q ss_pred CCCcccchhccCCchhhhhhccc------cceecCccccccCCCCccHHHHHHHHHHHHHHHhh----cCCCCccccCCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKS------DWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK----NATPMTYSCGLC 72 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks------~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~----h~~~k~~~C~~C 72 (233)
.|+|..|+. |-=...|-.|..+ +-++|--|-|+ |+ ++|-.+.. .--..|.+. -...+++.|+-|
T Consensus 142 if~CsfC~~-flCEDDQFEHQAsCQvLe~E~~KC~SCNrl-Gq--~sCLRCK~--cfCddHvrrKg~ky~k~k~~PCPKC 215 (314)
T PF06524_consen 142 IFKCSFCDN-FLCEDDQFEHQASCQVLESETFKCQSCNRL-GQ--YSCLRCKI--CFCDDHVRRKGFKYEKGKPIPCPKC 215 (314)
T ss_pred EEEeecCCC-eeeccchhhhhhhhhhhhcccccccccccc-cc--hhhhheee--eehhhhhhhcccccccCCCCCCCCC
Confidence 477777754 4334455555544 45666666554 21 22211110 000123332 233478899999
Q ss_pred CCccCChHHHHHHHhhhhh
Q 026761 73 GKGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 73 ~K~F~s~~~l~~H~~s~~h 91 (233)
|........|..-.|+|+.
T Consensus 216 g~et~eTkdLSmStR~hky 234 (314)
T PF06524_consen 216 GYETQETKDLSMSTRSHKY 234 (314)
T ss_pred CCcccccccceeeeecchh
Confidence 9888777777766666665
No 101
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=51.16 E-value=3.1 Score=39.49 Aligned_cols=28 Identities=36% Similarity=0.627 Sum_probs=25.0
Q ss_pred CCcccchhccCCchhhhhhccccceecC
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWHRYN 31 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~hryN 31 (233)
+.|..|+++|.+...+..|..++-|+=|
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHken 320 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKEN 320 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHH
Confidence 6799999999999999999999888543
No 102
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.76 E-value=16 Score=36.46 Aligned_cols=76 Identities=21% Similarity=0.381 Sum_probs=50.5
Q ss_pred CcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCCCCccccC--CCC-CccCChHH
Q 026761 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCG--LCG-KGYRSSKA 81 (233)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~~k~~~C~--~C~-K~F~s~~~ 81 (233)
.|..|...|-....+..|++.+.+-|-+|.+.-+ .- +|-.....|..|-+.+ .|.|. .|. +.|.....
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~----~n-eyy~~~~dLe~HfR~~----HflCE~~~C~~~~f~~~~~ 254 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTG----QN-EYYNDYDDLEEHFRKG----HFLCEEEFCRTKKFYVAFE 254 (669)
T ss_pred cchhhhhhhccHHHHHHhhccceeheeecCcccc----cc-hhcccchHHHHHhhhc----CccccccccccceeeehhH
Confidence 5899999999999999999998777888865311 11 2333336777787652 37777 564 44555545
Q ss_pred HHHHHhhh
Q 026761 82 LAQHLNSR 89 (233)
Q Consensus 82 l~~H~~s~ 89 (233)
+..|++-|
T Consensus 255 ~ei~lk~~ 262 (669)
T KOG2231|consen 255 LEIELKAH 262 (669)
T ss_pred HHHHHHhh
Confidence 55555533
No 103
>PF09630 DUF2024: Domain of unknown function (DUF2024); InterPro: IPR018592 This protein of 86 residues is expressed in bacteria. It consists of two alpha helices and four beta strands. Its function is unknown.; PDB: 2HFQ_A.
Probab=47.87 E-value=4.6 Score=29.23 Aligned_cols=31 Identities=19% Similarity=0.359 Sum_probs=18.0
Q ss_pred CCCCCcccCCCCCCCCHHHHHHHhhhhcccccC
Q 026761 179 EFDPACCFMCDLPHDAIENCMVHMHKCHGFFIP 211 (233)
Q Consensus 179 ~i~~~~ClfC~~~~~~~~~~~~HM~~~h~ffIP 211 (233)
.+....|-||.-. .....++=--..|||||=
T Consensus 49 ~vt~~eC~FCHse--~A~~ev~~~I~~~Gy~I~ 79 (81)
T PF09630_consen 49 DVTQKECRFCHSE--EAPPEVEQAIKQQGYFII 79 (81)
T ss_dssp ---TTTEEEEEEE--E--HHHHHHHHHHSEEEE
T ss_pred ccccccCcccccc--cCCHHHHHHHHHCCeEEE
Confidence 4677899999543 334444444558999983
No 104
>PF14353 CpXC: CpXC protein
Probab=47.69 E-value=13 Score=28.73 Aligned_cols=25 Identities=24% Similarity=0.618 Sum_probs=18.5
Q ss_pred CccccCCCCCccCChHHHHHHHhhh
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
..|.|+.||+.|.-...+.-|-..+
T Consensus 37 ~~~~CP~Cg~~~~~~~p~lY~D~~~ 61 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPLLYHDPEK 61 (128)
T ss_pred CEEECCCCCCceecCCCEEEEcCCC
Confidence 4689999999998766666665554
No 105
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=47.60 E-value=3.8 Score=26.83 Aligned_cols=24 Identities=33% Similarity=0.598 Sum_probs=17.3
Q ss_pred CCCCcccchhccCCchhhhhhccc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks 25 (233)
++++|..||..|.-.......|..
T Consensus 3 k~l~C~dCg~~FvfTa~EQ~fy~e 26 (49)
T PF13451_consen 3 KTLTCKDCGAEFVFTAGEQKFYAE 26 (49)
T ss_pred eeEEcccCCCeEEEehhHHHHHHh
Confidence 468999999999876655554443
No 106
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=46.36 E-value=12 Score=37.73 Aligned_cols=32 Identities=16% Similarity=0.155 Sum_probs=22.9
Q ss_pred CcccchhccCCc---hhhhhhccccceecCccccc
Q 026761 5 TCNSCNREFNDD---AEQKLHYKSDWHRYNLKRKV 36 (233)
Q Consensus 5 ~C~~C~~~F~~~---~~lr~H~ks~~hryNlkrkv 36 (233)
.|..||-.|.=+ ..+..|..+.--+|..|++.
T Consensus 437 ~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~ 471 (730)
T COG1198 437 LCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQ 471 (730)
T ss_pred ecccCCCcccCCCCCcceEEecCCCeeEeCCCCCC
Confidence 477777776544 35788888877778888774
No 107
>PRK07639 acyl carrier protein; Provisional
Probab=45.52 E-value=19 Score=26.05 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHhhhhcccccCCcc----cccCHHHHHHHHhcccc
Q 026761 191 PHDAIENCMVHMHKCHGFFIPDVE----YLKDPKGLLTYLGLKVP 231 (233)
Q Consensus 191 ~~~~~~~~~~HM~~~h~ffIP~~~----ylvDl~GLl~YL~eKI~ 231 (233)
-|-.+-.++.+....+|+-||+.+ .+.-+..|+.|+..+..
T Consensus 39 DSld~velv~~lE~~fgi~i~d~~~~~~~~~Tv~~l~~~i~~~~~ 83 (86)
T PRK07639 39 DSVMMLQLIVYIEMDVKLCVPEDEVDPKAFLTVGSLLDFMEELQP 83 (86)
T ss_pred ChHHHHHHHHHHHHHHCCccCHHHccHHHhCCHHHHHHHHHHhhc
Confidence 455677899999999999999885 48899999999988764
No 108
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=45.51 E-value=14 Score=30.39 Aligned_cols=12 Identities=25% Similarity=0.692 Sum_probs=7.6
Q ss_pred CCCCccccCCCC
Q 026761 62 ATPMTYSCGLCG 73 (233)
Q Consensus 62 ~~~k~~~C~~C~ 73 (233)
.|+-|-.|++||
T Consensus 145 ~ge~P~~CPiCg 156 (166)
T COG1592 145 EGEAPEVCPICG 156 (166)
T ss_pred cCCCCCcCCCCC
Confidence 345566677776
No 109
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=41.78 E-value=12 Score=29.92 Aligned_cols=12 Identities=33% Similarity=0.883 Sum_probs=8.9
Q ss_pred CccccCCCCCcc
Q 026761 65 MTYSCGLCGKGY 76 (233)
Q Consensus 65 k~~~C~~C~K~F 76 (233)
..|.|+.||...
T Consensus 122 ~~f~Cp~Cg~~l 133 (147)
T smart00531 122 GTFTCPRCGEEL 133 (147)
T ss_pred CcEECCCCCCEE
Confidence 348888888775
No 110
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=41.72 E-value=9.5 Score=33.59 Aligned_cols=74 Identities=22% Similarity=0.340 Sum_probs=46.2
Q ss_pred CCcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhcCC---CCccccCCCCCccCCh
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNAT---PMTYSCGLCGKGYRSS 79 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h~~---~k~~~C~~C~K~F~s~ 79 (233)
|+|..|++...+...+|.--+.=-+.||.+.|..+..-+.|..+-..... ++++-... .-.|+|..|||...+-
T Consensus 100 F~Cd~Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~--~~l~fr~d~yH~yHFkCt~C~keL~sd 176 (332)
T KOG2272|consen 100 FRCDLCNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDE--QPLTFRGDPYHPYHFKCTTCGKELTSD 176 (332)
T ss_pred chhHHHHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhhhccc--ccccccCCCCCccceecccccccccch
Confidence 88999999888887766554443466888877777666666555433111 22222111 1246999999987664
No 111
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=41.02 E-value=12 Score=31.98 Aligned_cols=17 Identities=29% Similarity=0.854 Sum_probs=13.9
Q ss_pred CCccccCCCCCccCChH
Q 026761 64 PMTYSCGLCGKGYRSSK 80 (233)
Q Consensus 64 ~k~~~C~~C~K~F~s~~ 80 (233)
++...|++|++.|.++.
T Consensus 3 ~k~~~CPvC~~~F~~~~ 19 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKK 19 (214)
T ss_pred CCceECCCCCCeeeeeE
Confidence 35678999999998764
No 112
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=39.35 E-value=13 Score=22.43 Aligned_cols=12 Identities=33% Similarity=1.035 Sum_probs=9.3
Q ss_pred ccccCCCCCccC
Q 026761 66 TYSCGLCGKGYR 77 (233)
Q Consensus 66 ~~~C~~C~K~F~ 77 (233)
.|+|..||+.|.
T Consensus 5 ~y~C~~Cg~~fe 16 (41)
T smart00834 5 EYRCEDCGHTFE 16 (41)
T ss_pred EEEcCCCCCEEE
Confidence 478888888874
No 113
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=39.21 E-value=15 Score=24.97 Aligned_cols=30 Identities=20% Similarity=0.148 Sum_probs=18.1
Q ss_pred CCCCCcccchhccCCchhhhhhccccceecCccccc
Q 026761 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKV 36 (233)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv 36 (233)
|.+..|.+|++...-.. +. -.|.|.-|+.+
T Consensus 5 ~~~~~CtSCg~~i~~~~----~~--~~F~CPnCG~~ 34 (59)
T PRK14890 5 MEPPKCTSCGIEIAPRE----KA--VKFLCPNCGEV 34 (59)
T ss_pred ccCccccCCCCcccCCC----cc--CEeeCCCCCCe
Confidence 35668999987654222 11 23677777764
No 114
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=38.75 E-value=17 Score=24.31 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=17.3
Q ss_pred CCCcccCCCCCCCCHHHHHHH
Q 026761 181 DPACCFMCDLPHDAIENCMVH 201 (233)
Q Consensus 181 ~~~~ClfC~~~~~~~~~~~~H 201 (233)
.-.-|+|||....+.+++..+
T Consensus 26 ~~~YC~~Cg~~Y~d~~dL~~~ 46 (55)
T PF13821_consen 26 EHNYCFWCGTKYDDEEDLERN 46 (55)
T ss_pred hCceeeeeCCccCCHHHHHhC
Confidence 356799999999999887754
No 115
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=38.06 E-value=30 Score=32.65 Aligned_cols=24 Identities=33% Similarity=0.585 Sum_probs=16.6
Q ss_pred hhcCCCCccccCCCCCccCChHHH
Q 026761 59 NKNATPMTYSCGLCGKGYRSSKAL 82 (233)
Q Consensus 59 ~~h~~~k~~~C~~C~K~F~s~~~l 82 (233)
+-.+....|.|+.|+|+|++.-++
T Consensus 121 ~d~t~~~~Y~Cp~C~kkyt~Lea~ 144 (436)
T KOG2593|consen 121 RDDTNVAGYVCPNCQKKYTSLEAL 144 (436)
T ss_pred hhccccccccCCccccchhhhHHH
Confidence 334566678888888888775543
No 116
>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=37.96 E-value=25 Score=26.36 Aligned_cols=24 Identities=33% Similarity=0.621 Sum_probs=21.9
Q ss_pred cccc----CCCCCccCChHHHHHHHhhh
Q 026761 66 TYSC----GLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 66 ~~~C----~~C~K~F~s~~~l~~H~~s~ 89 (233)
.|.| ..|+....+..++.+|.+.+
T Consensus 80 G~~C~~~~~~C~y~~~~~~~m~~H~~~~ 107 (109)
T PF12013_consen 80 GYRCQCDPPHCGYITRSKKTMRKHWRKE 107 (109)
T ss_pred CeeeecCCCCCCcEeccHHHHHHHHHHh
Confidence 4899 99999999999999999874
No 117
>PRK07117 acyl carrier protein; Validated
Probab=37.54 E-value=28 Score=24.79 Aligned_cols=42 Identities=19% Similarity=0.139 Sum_probs=35.2
Q ss_pred CCCCCCHHHHHHHhhhhcccccCCccc--ccCHHHHHHHHhccc
Q 026761 189 DLPHDAIENCMVHMHKCHGFFIPDVEY--LKDPKGLLTYLGLKV 230 (233)
Q Consensus 189 ~~~~~~~~~~~~HM~~~h~ffIP~~~y--lvDl~GLl~YL~eKI 230 (233)
|-.|-.+-+.+.......|+-||+.++ +..+.+++.|+..++
T Consensus 36 g~DSlD~veiv~~led~f~i~I~~~~~~~i~Tv~d~v~~i~~~~ 79 (79)
T PRK07117 36 GANSMDRAEIVIMTLESLSLKIPLVEFAGAKNIGELADLLYAKL 79 (79)
T ss_pred CCChHHHHHHHHHHHHHHCCccCHHHHHhcCCHHHHHHHHHHhC
Confidence 445666778888889999999999876 799999999998764
No 118
>COG0533 QRI7 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=37.46 E-value=31 Score=31.72 Aligned_cols=36 Identities=28% Similarity=0.576 Sum_probs=29.7
Q ss_pred CCHHHHHHHhhhhcc--cccCCcccccCHHHHHHHHhc
Q 026761 193 DAIENCMVHMHKCHG--FFIPDVEYLKDPKGLLTYLGL 228 (233)
Q Consensus 193 ~~~~~~~~HM~~~h~--ffIP~~~ylvDl~GLl~YL~e 228 (233)
..+-+.+..|-..+| ||||..+||.|=-..|.|+|-
T Consensus 275 ~~LR~~l~~~~~~~g~~~~~p~~~lCtDNaaMIA~ag~ 312 (342)
T COG0533 275 SRLREMLEEMCKERGAEVYIPPLELCTDNAAMIAYAGL 312 (342)
T ss_pred HHHHHHHHHHHHhcCCEEEcCChHhccchHHHHHHHHH
Confidence 456677778887898 999999999998888887764
No 119
>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=36.87 E-value=11 Score=23.28 Aligned_cols=37 Identities=14% Similarity=0.141 Sum_probs=15.4
Q ss_pred CCCcccchhccCCchhhhhhccccceecCccccccCCCC
Q 026761 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPG 41 (233)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p 41 (233)
|.+|..|+-.+.--..+... ..-.+||+|+..-.+|+
T Consensus 2 p~rC~~C~aylNp~~~~~~~--~~~w~C~~C~~~N~lp~ 38 (40)
T PF04810_consen 2 PVRCRRCRAYLNPFCQFDDG--GKTWICNFCGTKNPLPP 38 (40)
T ss_dssp S-B-TTT--BS-TTSEEETT--TTEEEETTT--EEE--G
T ss_pred ccccCCCCCEECCcceEcCC--CCEEECcCCCCcCCCCC
Confidence 56788886544333332222 22368999988655543
No 120
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=36.57 E-value=6.4 Score=39.43 Aligned_cols=22 Identities=23% Similarity=0.588 Sum_probs=14.6
Q ss_pred CCcccchhccCCchhhhhhccc
Q 026761 4 LTCNSCNREFNDDAEQKLHYKS 25 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks 25 (233)
|.|..|++.|.-...+..|||+
T Consensus 793 FpCreC~kvF~KiKSrNAHMK~ 814 (907)
T KOG4167|consen 793 FPCRECGKVFFKIKSRNAHMKT 814 (907)
T ss_pred eehHHHHHHHHHHhhhhHHHHH
Confidence 6666666666666666666666
No 121
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=36.01 E-value=18 Score=34.04 Aligned_cols=34 Identities=12% Similarity=0.269 Sum_probs=27.1
Q ss_pred CCCCcccchhccCCchhhhhhc-cccceecCcccc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHY-KSDWHRYNLKRK 35 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~-ks~~hryNlkrk 35 (233)
..|.|..|++.|.....++.=- -+..|+|+.|+-
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~g 161 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGG 161 (436)
T ss_pred ccccCCccccchhhhHHHHhhcccCceEEEecCCC
Confidence 3599999999999998876643 345699999975
No 122
>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=35.40 E-value=18 Score=21.24 Aligned_cols=11 Identities=18% Similarity=0.736 Sum_probs=6.3
Q ss_pred CCcccchhccC
Q 026761 4 LTCNSCNREFN 14 (233)
Q Consensus 4 f~C~~C~~~F~ 14 (233)
|.|..||-.+.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 45666665554
No 123
>PF02177 APP_N: Amyloid A4 N-terminal heparin-binding; InterPro: IPR015849 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. This entry represents a heparin-binding domain found at the N-terminal of the extracellular domain, which is itself found at the N-terminal of amyloidogenic glycoproteins such as amyloid-beta precursor protein (APP, or A4). The core of the heparin-binding domain has an unusual disulphide-rich fold, consisting of a beta-x-alpha-beta-loop-beta topology []. More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein [].; GO: 0005488 binding, 0016021 integral to membrane; PDB: 3KTM_E 1MWP_A 2FKL_A 1OWT_A.
Probab=35.23 E-value=12 Score=28.34 Aligned_cols=40 Identities=28% Similarity=0.458 Sum_probs=26.2
Q ss_pred CcccCCCCCCCCHHHHHHHhhhhcccccCCcc----cccCHHHHHHHHhcc
Q 026761 183 ACCFMCDLPHDAIENCMVHMHKCHGFFIPDVE----YLKDPKGLLTYLGLK 229 (233)
Q Consensus 183 ~~ClfC~~~~~~~~~~~~HM~~~h~ffIP~~~----ylvDl~GLl~YL~eK 229 (233)
..=+|||+.. .||...-|-..||.. .+.|.+++|.|..+.
T Consensus 4 qVA~~Cg~~~-------~h~~~~~G~W~~Dp~~~~~C~~~k~eIL~YCrkv 47 (102)
T PF02177_consen 4 QVAMFCGKLN-------MHMNLQTGRWEPDPSGSASCLKDKEEILKYCRKV 47 (102)
T ss_dssp EEE--TTSB--------EEE-TTTSSEEE-TTS--B---SHHHHHHHHHHH
T ss_pred cEEEecCCcc-------eeccccCCceeeCCCCCccccCChHHHHHHHHHh
Confidence 3447888876 688888999999985 789999999998763
No 124
>PRK04860 hypothetical protein; Provisional
Probab=34.30 E-value=23 Score=28.93 Aligned_cols=23 Identities=17% Similarity=0.455 Sum_probs=18.3
Q ss_pred CccccCCCCCccCChHHHHHHHhhhhh
Q 026761 65 MTYSCGLCGKGYRSSKALAQHLNSRSH 91 (233)
Q Consensus 65 k~~~C~~C~K~F~s~~~l~~H~~s~~h 91 (233)
-+|.|. |++ ....+..|.+++.-
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g 140 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG 140 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC
Confidence 479998 998 56678899988764
No 125
>KOG3214 consensus Uncharacterized Zn ribbon-containing protein [Function unknown]
Probab=34.05 E-value=7.4 Score=29.32 Aligned_cols=48 Identities=13% Similarity=0.108 Sum_probs=24.9
Q ss_pred CCcccCCCCCCC-CHHHHHHHhhhhcccccCCcccccCHHHHHHHHhccccCC
Q 026761 182 PACCFMCDLPHD-AIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVPSF 233 (233)
Q Consensus 182 ~~~ClfC~~~~~-~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eKI~~~ 233 (233)
-+.||||+|... +..--.+||--.-+--|-.. .....|.||.+-|-.|
T Consensus 23 ~FnClfcnHek~v~~~~Dk~~~iG~~sC~iC~e----sFqt~it~LsepIDVY 71 (109)
T KOG3214|consen 23 QFNCLFCNHEKSVSCTLDKKHNIGKASCRICEE----SFQTTITALSEPIDVY 71 (109)
T ss_pred eeccCccccccceeeeehhhcCcceeeeeehhh----hhccchHhhccchHHH
Confidence 367999999763 11111233332222334443 4455677777766543
No 126
>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=34.02 E-value=17 Score=22.59 Aligned_cols=12 Identities=33% Similarity=1.077 Sum_probs=9.3
Q ss_pred ccccCCCCCccC
Q 026761 66 TYSCGLCGKGYR 77 (233)
Q Consensus 66 ~~~C~~C~K~F~ 77 (233)
.|+|..||..|-
T Consensus 5 ey~C~~Cg~~fe 16 (42)
T PF09723_consen 5 EYRCEECGHEFE 16 (42)
T ss_pred EEEeCCCCCEEE
Confidence 378888888875
No 127
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=33.11 E-value=21 Score=22.01 Aligned_cols=14 Identities=21% Similarity=0.731 Sum_probs=12.2
Q ss_pred ccccCCCCCccCCh
Q 026761 66 TYSCGLCGKGYRSS 79 (233)
Q Consensus 66 ~~~C~~C~K~F~s~ 79 (233)
||.|..|++.|-.+
T Consensus 12 ~f~C~~C~~~FC~~ 25 (39)
T smart00154 12 GFKCRHCGNLFCGE 25 (39)
T ss_pred CeECCccCCccccc
Confidence 89999999999754
No 128
>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=33.02 E-value=27 Score=22.11 Aligned_cols=16 Identities=31% Similarity=0.729 Sum_probs=13.0
Q ss_pred ccCCCCCccCChHHHH
Q 026761 68 SCGLCGKGYRSSKALA 83 (233)
Q Consensus 68 ~C~~C~K~F~s~~~l~ 83 (233)
.|.+||+.|+......
T Consensus 10 ~C~~C~rpf~WRKKW~ 25 (42)
T PF10013_consen 10 ICPVCGRPFTWRKKWA 25 (42)
T ss_pred cCcccCCcchHHHHHH
Confidence 5999999999876544
No 129
>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=32.16 E-value=25 Score=19.79 Aligned_cols=10 Identities=30% Similarity=0.893 Sum_probs=8.3
Q ss_pred ccCCCCCccC
Q 026761 68 SCGLCGKGYR 77 (233)
Q Consensus 68 ~C~~C~K~F~ 77 (233)
.|..||..|.
T Consensus 16 ~Cp~CG~~F~ 25 (26)
T PF10571_consen 16 FCPHCGYDFE 25 (26)
T ss_pred cCCCCCCCCc
Confidence 5999999885
No 130
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=31.85 E-value=33 Score=29.72 Aligned_cols=48 Identities=23% Similarity=0.235 Sum_probs=36.8
Q ss_pred CCCcccCCCCCCCCHHHHHHHhhhhccc---ccCCcccccCHHHHHHHHhc
Q 026761 181 DPACCFMCDLPHDAIENCMVHMHKCHGF---FIPDVEYLKDPKGLLTYLGL 228 (233)
Q Consensus 181 ~~~~ClfC~~~~~~~~~~~~HM~~~h~f---fIP~~~ylvDl~GLl~YL~e 228 (233)
-...|-=-.|.+.+...+|.||.+.||| ||--.+=--++..||.||..
T Consensus 140 ~vlmgHGt~h~s~~~YacLd~~~~~~~f~~v~v~~ve~yP~~d~vi~~l~~ 190 (265)
T COG4822 140 LVLMGHGTDHHSNAAYACLDHVLDEYGFDNVFVAAVEGYPLVDTVIEYLRK 190 (265)
T ss_pred EEEEecCCCccHHHHHHHHHHHHHhcCCCceEEEEecCCCcHHHHHHHHHH
Confidence 3455666677788899999999999998 55555555577889999863
No 131
>PF04988 AKAP95: A-kinase anchoring protein 95 (AKAP95); InterPro: IPR007071 A-kinase (or PKA)-anchoring protein AKAP95 is implicated in mitotic chromosome condensation by acting as a targeting molecule for the condensin complex. The protein contains two zinc fingers which are thought to mediate the binding of AKAP95 to DNA [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=31.50 E-value=31 Score=28.28 Aligned_cols=27 Identities=26% Similarity=0.548 Sum_probs=23.1
Q ss_pred cccCCCCCccCChHHHHHHHhhhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSHIM 93 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~hk~ 93 (233)
|.|..|...--....+..|+.|+-|++
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E 27 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKE 27 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHH
Confidence 679999876666778999999999987
No 132
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.20 E-value=28 Score=30.25 Aligned_cols=29 Identities=21% Similarity=0.415 Sum_probs=25.4
Q ss_pred cccCCCCCccCChHHHHHHHhhhhhhhhhh
Q 026761 67 YSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (233)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~H~~s~~hk~~~~ 96 (233)
..|.+|+--.. .+-+..|+.+++|+....
T Consensus 36 l~C~vCn~piK-p~lW~vHvnsKkHre~id 64 (264)
T KOG3032|consen 36 LVCRVCNVPIK-PSLWDVHVNSKKHREAID 64 (264)
T ss_pred eeEEEecCccc-HHHHHHHhccHHHHHHHH
Confidence 57999999888 888999999999998644
No 133
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=30.18 E-value=5.9 Score=35.11 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=26.1
Q ss_pred ccccCCCCCccCChHHHHHHHhhhhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~hk~ 93 (233)
.|.|..|.|.|+..|.++-|..|-.|..
T Consensus 25 RwyCqmCQkQcrDeNGFkCH~~SeSHqR 52 (309)
T KOG2837|consen 25 RWYCQMCQKQCRDENGFKCHTMSESHQR 52 (309)
T ss_pred HHHHHHHHHHhccccccccccCCHHHHH
Confidence 4789999999999999999999999976
No 134
>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=29.98 E-value=37 Score=20.20 Aligned_cols=10 Identities=30% Similarity=0.906 Sum_probs=7.2
Q ss_pred CccccCCCCC
Q 026761 65 MTYSCGLCGK 74 (233)
Q Consensus 65 k~~~C~~C~K 74 (233)
.|..|++||-
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567888875
No 135
>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=29.37 E-value=20 Score=22.34 Aligned_cols=15 Identities=27% Similarity=0.871 Sum_probs=10.0
Q ss_pred CccccCCCCCccCCh
Q 026761 65 MTYSCGLCGKGYRSS 79 (233)
Q Consensus 65 k~~~C~~C~K~F~s~ 79 (233)
.||.|..|++.|=.+
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 589999999999754
No 136
>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=28.66 E-value=24 Score=22.59 Aligned_cols=13 Identities=31% Similarity=0.997 Sum_probs=10.2
Q ss_pred ccccCCCCCccCC
Q 026761 66 TYSCGLCGKGYRS 78 (233)
Q Consensus 66 ~~~C~~C~K~F~s 78 (233)
-|+|..||..|..
T Consensus 5 ey~C~~Cg~~fe~ 17 (52)
T TIGR02605 5 EYRCTACGHRFEV 17 (52)
T ss_pred EEEeCCCCCEeEE
Confidence 3789999988863
No 137
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=28.62 E-value=25 Score=27.79 Aligned_cols=31 Identities=13% Similarity=0.224 Sum_probs=19.2
Q ss_pred CHHHHHHHhhhhcccccC---CcccccCHHHHHH
Q 026761 194 AIENCMVHMHKCHGFFIP---DVEYLKDPKGLLT 224 (233)
Q Consensus 194 ~~~~~~~HM~~~h~ffIP---~~~ylvDl~GLl~ 224 (233)
+.+-||.-+...-++.|- |-.|+|||.-+++
T Consensus 96 ~YElNL~~L~~r~e~Ii~l~eeG~Y~idlps~~k 129 (131)
T PF09845_consen 96 SYELNLEELLERDEIIIALQEEGRYVIDLPSMFK 129 (131)
T ss_pred eEEecHHHHhcCCceEEEecCCceEEEEChHhhh
Confidence 345566666555566555 3368888877653
No 138
>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=27.82 E-value=43 Score=32.10 Aligned_cols=24 Identities=17% Similarity=0.534 Sum_probs=21.3
Q ss_pred ccccCCCCCccCChHHHHHHHhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
=+.|..|.+.|.+...+..|+-..
T Consensus 57 FWiCp~CskkF~d~~~~~~H~~~e 80 (466)
T PF04780_consen 57 FWICPRCSKKFSDAESCLSHMEQE 80 (466)
T ss_pred EeeCCcccceeCCHHHHHHHHHHh
Confidence 468999999999999999999863
No 139
>PF14489 QueF: QueF-like protein; PDB: 3UXV_C 3RJB_A 3BP1_D 3RZP_B 3RJ4_A 3UXJ_C 3S19_D 3RZQ_B.
Probab=27.75 E-value=25 Score=25.35 Aligned_cols=18 Identities=39% Similarity=0.551 Sum_probs=12.5
Q ss_pred ccCCcccccCHHHHHHHHh
Q 026761 209 FIPDVEYLKDPKGLLTYLG 227 (233)
Q Consensus 209 fIP~~~ylvDl~GLl~YL~ 227 (233)
|+|+ +.+++++.|..||-
T Consensus 10 Y~p~-~~~vElkSLk~Yl~ 27 (80)
T PF14489_consen 10 YIPD-KKCVELKSLKLYLW 27 (80)
T ss_dssp EEEE-E--E-HHHHHHHHH
T ss_pred EECC-CcccCHHHHHHHHH
Confidence 5677 48899999999984
No 140
>COG1773 Rubredoxin [Energy production and conversion]
Probab=27.60 E-value=23 Score=23.75 Aligned_cols=15 Identities=20% Similarity=0.623 Sum_probs=9.3
Q ss_pred CCCCCcccchhccCC
Q 026761 1 MPGLTCNSCNREFND 15 (233)
Q Consensus 1 ~~~f~C~~C~~~F~~ 15 (233)
|+.|.|..||-.|.-
T Consensus 1 m~~~~C~~CG~vYd~ 15 (55)
T COG1773 1 MKRWRCSVCGYVYDP 15 (55)
T ss_pred CCceEecCCceEecc
Confidence 556667777666643
No 141
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=27.41 E-value=19 Score=33.23 Aligned_cols=34 Identities=26% Similarity=0.479 Sum_probs=28.7
Q ss_pred CCCCcccchhccCCchhhhhhccccceecCcccc
Q 026761 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRK 35 (233)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrk 35 (233)
+.+.|..|++-|........|...+.|.-+..|+
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~ 270 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGK 270 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhh
Confidence 3578999999999999999999998886666555
No 142
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=27.33 E-value=38 Score=20.46 Aligned_cols=14 Identities=29% Similarity=0.774 Sum_probs=8.6
Q ss_pred CcccchhccCCchh
Q 026761 5 TCNSCNREFNDDAE 18 (233)
Q Consensus 5 ~C~~C~~~F~~~~~ 18 (233)
+|..|+..|.-...
T Consensus 4 ~CP~C~~~f~v~~~ 17 (37)
T PF13719_consen 4 TCPNCQTRFRVPDD 17 (37)
T ss_pred ECCCCCceEEcCHH
Confidence 56677766665544
No 143
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=27.09 E-value=31 Score=21.85 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=16.0
Q ss_pred CCcccchhccCCchhhhhhccccceecCcccc
Q 026761 4 LTCNSCNREFNDDAEQKLHYKSDWHRYNLKRK 35 (233)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ks~~hryNlkrk 35 (233)
|.|..||..|... ..+.-+|+.|+.
T Consensus 3 Y~C~~Cg~~~~~~-------~~~~irC~~CG~ 27 (44)
T smart00659 3 YICGECGRENEIK-------SKDVVRCRECGY 27 (44)
T ss_pred EECCCCCCEeecC-------CCCceECCCCCc
Confidence 7788888877643 234456666653
No 144
>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=26.76 E-value=39 Score=32.57 Aligned_cols=32 Identities=19% Similarity=0.160 Sum_probs=21.6
Q ss_pred CcccchhccCCc---hhhhhhccccceecCccccc
Q 026761 5 TCNSCNREFNDD---AEQKLHYKSDWHRYNLKRKV 36 (233)
Q Consensus 5 ~C~~C~~~F~~~---~~lr~H~ks~~hryNlkrkv 36 (233)
.|..||....=. ..|..|.....-+|..|+..
T Consensus 215 ~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~ 249 (505)
T TIGR00595 215 LCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQ 249 (505)
T ss_pred EhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCc
Confidence 466666665433 35778877777778888775
No 145
>PF12907 zf-met2: Zinc-binding
Probab=26.76 E-value=27 Score=21.84 Aligned_cols=26 Identities=15% Similarity=0.488 Sum_probs=17.5
Q ss_pred cccCCCCCcc---CChHHHHHHHhhhhhh
Q 026761 67 YSCGLCGKGY---RSSKALAQHLNSRSHI 92 (233)
Q Consensus 67 ~~C~~C~K~F---~s~~~l~~H~~s~~hk 92 (233)
+.|.+|.-+| .+...|..|..++.-|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK 30 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPK 30 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCC
Confidence 5688888554 3456688888775544
No 146
>PHA00626 hypothetical protein
Probab=26.68 E-value=31 Score=23.28 Aligned_cols=14 Identities=29% Similarity=0.544 Sum_probs=11.8
Q ss_pred CccccCCCCCccCC
Q 026761 65 MTYSCGLCGKGYRS 78 (233)
Q Consensus 65 k~~~C~~C~K~F~s 78 (233)
..|.|..||..|+.
T Consensus 22 nrYkCkdCGY~ft~ 35 (59)
T PHA00626 22 DDYVCCDCGYNDSK 35 (59)
T ss_pred cceEcCCCCCeech
Confidence 46999999999963
No 147
>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=26.31 E-value=32 Score=20.53 Aligned_cols=14 Identities=21% Similarity=0.662 Sum_probs=7.5
Q ss_pred CCcccchhccCCch
Q 026761 4 LTCNSCNREFNDDA 17 (233)
Q Consensus 4 f~C~~C~~~F~~~~ 17 (233)
++|..|+..|.-..
T Consensus 3 ~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 3 IQCPNCKTSFRVVD 16 (38)
T ss_pred EECCCCCCEEEeCH
Confidence 45666666554443
No 148
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=25.86 E-value=25 Score=28.51 Aligned_cols=16 Identities=25% Similarity=0.596 Sum_probs=12.9
Q ss_pred ccccCCCCCccCChHH
Q 026761 66 TYSCGLCGKGYRSSKA 81 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~ 81 (233)
.++|+-||++|.+--.
T Consensus 28 ~~~c~~c~~~f~~~e~ 43 (154)
T PRK00464 28 RRECLACGKRFTTFER 43 (154)
T ss_pred eeeccccCCcceEeEe
Confidence 3889999999987543
No 149
>COG2879 Uncharacterized small protein [Function unknown]
Probab=25.55 E-value=50 Score=22.78 Aligned_cols=16 Identities=31% Similarity=0.370 Sum_probs=13.6
Q ss_pred CCCHHHHHHHhhhhcc
Q 026761 192 HDAIENCMVHMHKCHG 207 (233)
Q Consensus 192 ~~~~~~~~~HM~~~h~ 207 (233)
.++.+.-|+||+++|-
T Consensus 22 vpdYdnYVehmr~~hP 37 (65)
T COG2879 22 VPDYDNYVEHMRKKHP 37 (65)
T ss_pred CCcHHHHHHHHHHhCc
Confidence 3577899999999996
No 150
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=25.45 E-value=50 Score=23.47 Aligned_cols=25 Identities=32% Similarity=0.440 Sum_probs=21.9
Q ss_pred ccccCCCCCccCChHHHHHHHhhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSRS 90 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~~ 90 (233)
.|....|||.|+++..+.+++..+.
T Consensus 28 vyY~sP~Gkk~RS~~ev~~yL~~~~ 52 (77)
T cd01396 28 VYYISPTGKKFRSKVELARYLEKNG 52 (77)
T ss_pred EEEECCCCCEEECHHHHHHHHHhCC
Confidence 4778889999999999999998764
No 151
>PF15269 zf-C2H2_7: Zinc-finger
Probab=25.32 E-value=50 Score=21.31 Aligned_cols=24 Identities=21% Similarity=0.383 Sum_probs=19.7
Q ss_pred ccccCCCCCccCChHHHHHHHhhh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLNSR 89 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~s~ 89 (233)
.|+|-.|-.+...++.|-+|++-.
T Consensus 20 ~ykcfqcpftc~~kshl~nhmky~ 43 (54)
T PF15269_consen 20 KYKCFQCPFTCNEKSHLFNHMKYS 43 (54)
T ss_pred cceeecCCcccchHHHHHHHHHHH
Confidence 368999988888899999998753
No 152
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=25.32 E-value=45 Score=26.64 Aligned_cols=53 Identities=21% Similarity=0.357 Sum_probs=28.8
Q ss_pred CCcccchhccCCc-hhhhhhccccceecCccccccCCC---CccHHHHHHHHHHHHHHHh
Q 026761 4 LTCNSCNREFNDD-AEQKLHYKSDWHRYNLKRKVAGVP---GVTEALFLARQAALAQEKN 59 (233)
Q Consensus 4 f~C~~C~~~F~~~-~~lr~H~ks~~hryNlkrkv~~l~---p~~~~~F~~k~~~l~~h~~ 59 (233)
..|..||+.|.+. .+|+.|+.--+-.|.-|. +|| |..+-.+....++|...+.
T Consensus 77 IicLEDGkkfKSLKRHL~t~~gmTPd~YR~KW---~LP~dYPMvAPnYAa~RS~LAK~mG 133 (148)
T COG4957 77 IICLEDGKKFKSLKRHLTTHYGLTPDEYRAKW---GLPPDYPMVAPNYAAARSQLAKAMG 133 (148)
T ss_pred EEEeccCcchHHHHHHHhcccCCCHHHHHHhc---CCCCCCCccchHHHHHHHHHHHHhC
Confidence 3599999999853 344444433222232222 343 4455556655467765543
No 153
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=25.19 E-value=58 Score=31.04 Aligned_cols=32 Identities=31% Similarity=0.749 Sum_probs=25.0
Q ss_pred cCCCCccccCCCC-CccCChHHHHHHHhhhhhh
Q 026761 61 NATPMTYSCGLCG-KGYRSSKALAQHLNSRSHI 92 (233)
Q Consensus 61 h~~~k~~~C~~C~-K~F~s~~~l~~H~~s~~hk 92 (233)
|.=...|.|.+|| +++.-..++.+|-.--.|.
T Consensus 396 HGL~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~ 428 (497)
T KOG2636|consen 396 HGLDIEYNCEICGNYVYKGRKAFDRHFNEWRHA 428 (497)
T ss_pred cCCCcccceeeccCccccCcHHHHHHhHHHHHh
Confidence 3334568999999 9999999999997655554
No 154
>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=24.94 E-value=35 Score=18.93 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=8.0
Q ss_pred CccccCCCCC
Q 026761 65 MTYSCGLCGK 74 (233)
Q Consensus 65 k~~~C~~C~K 74 (233)
.+|.|+-||+
T Consensus 15 v~f~CPnCG~ 24 (24)
T PF07754_consen 15 VPFPCPNCGF 24 (24)
T ss_pred ceEeCCCCCC
Confidence 4689999985
No 155
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=24.53 E-value=36 Score=26.70 Aligned_cols=19 Identities=21% Similarity=0.608 Sum_probs=15.0
Q ss_pred CCCccccCCCCCccCChHH
Q 026761 63 TPMTYSCGLCGKGYRSSKA 81 (233)
Q Consensus 63 ~~k~~~C~~C~K~F~s~~~ 81 (233)
+...|.|..|+++|.-...
T Consensus 50 ~~qRyrC~~C~~tf~~~~~ 68 (129)
T COG3677 50 GHQRYKCKSCGSTFTVETG 68 (129)
T ss_pred cccccccCCcCcceeeecc
Confidence 3556999999999986654
No 156
>PF10615 DUF2470: Protein of unknown function (DUF2470); InterPro: IPR019595 This entry represents a putative haem-iron utilisation family of proteins, as many members are annotated as being pyridoxamine 5'-phosphate oxidase-related, FMN-binding; however the function of this domain is not known. ; PDB: 3GAS_D 3SWJ_A 2ARZ_B.
Probab=22.64 E-value=56 Score=23.17 Aligned_cols=27 Identities=26% Similarity=0.177 Sum_probs=19.3
Q ss_pred CHHHHHHHhhhhcccccCCcccccCHHHHHHHHhcc
Q 026761 194 AIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLK 229 (233)
Q Consensus 194 ~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~eK 229 (233)
.....+.||...|. + ++..++.+++..
T Consensus 9 ~~~~ii~HMN~DH~----d-----~l~~~~~~~~~~ 35 (83)
T PF10615_consen 9 AAARIIEHMNDDHA----D-----DLLLYARHYGGV 35 (83)
T ss_dssp HHHHHHHHHHHH-H----H-----HHHHHHHHHHT-
T ss_pred HHHHHHHHHHHhHH----H-----HHHHHHHhcCCC
Confidence 45789999999999 5 777777765543
No 157
>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=22.50 E-value=57 Score=31.27 Aligned_cols=36 Identities=22% Similarity=0.439 Sum_probs=27.4
Q ss_pred CCCCcccCCCCCCCCHHHHHHHhhhhc-ccccCCccc
Q 026761 180 FDPACCFMCDLPHDAIENCMVHMHKCH-GFFIPDVEY 215 (233)
Q Consensus 180 i~~~~ClfC~~~~~~~~~~~~HM~~~h-~ffIP~~~y 215 (233)
+.--.|-+|...+.+.++++.||...| +=+.|..+.
T Consensus 55 WrFWiCp~CskkF~d~~~~~~H~~~eH~~~l~P~lqs 91 (466)
T PF04780_consen 55 WRFWICPRCSKKFSDAESCLSHMEQEHPAGLKPKLQS 91 (466)
T ss_pred eeEeeCCcccceeCCHHHHHHHHHHhhhhhcChhhhh
Confidence 344579999999999999999998666 445565543
No 158
>PF14968 CCDC84: Coiled coil protein 84
Probab=22.32 E-value=55 Score=30.03 Aligned_cols=81 Identities=20% Similarity=0.279 Sum_probs=45.7
Q ss_pred CcccchhccCCchhhhhhccccceecCccccccCCCCccHHHHHHHHHHHHHHHhhc-------CCCCccccCCCCCccC
Q 026761 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKN-------ATPMTYSCGLCGKGYR 77 (233)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ks~~hryNlkrkv~~l~p~~~~~F~~k~~~l~~h~~~h-------~~~k~~~C~~C~K~F~ 77 (233)
.|..|.+.... =|.|.-+.-|+-+|.. -..-|..|+..++.-+... .....|=|..|+..-.
T Consensus 1 yC~vCr~~h~~---gr~H~Y~~~Hq~~L~~--------~L~rf~~Kl~d~R~~lk~p~v~~~~~~~~~~fWC~fC~~ev~ 69 (336)
T PF14968_consen 1 YCEVCRRNHDQ---GRRHVYSPKHQKSLSA--------FLSRFRSKLSDARFFLKKPSVLRYDPEHRNRFWCVFCDCEVR 69 (336)
T ss_pred CcchhhCcccc---cCCCccCHHHHHHHHH--------HHHHHHHHHHHHHHHHhCCccCCCCccccceeEeeCccchhh
Confidence 38888765432 3444443333322211 1234666655554433321 2234466999997766
Q ss_pred Ch------HHHHHHHhhhhhhhhhh
Q 026761 78 SS------KALAQHLNSRSHIMRAS 96 (233)
Q Consensus 78 s~------~~l~~H~~s~~hk~~~~ 96 (233)
.. ..+..||.|--|+.+..
T Consensus 70 ~~~s~~~~~~ai~HLaS~eH~k~vk 94 (336)
T PF14968_consen 70 EHDSSFACGGAIEHLASPEHRKNVK 94 (336)
T ss_pred hccchhhhccHHhhcCCHHHHHHHH
Confidence 54 46789999999987644
No 159
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=21.85 E-value=50 Score=21.63 Aligned_cols=11 Identities=27% Similarity=0.622 Sum_probs=6.8
Q ss_pred CCccccCCCCC
Q 026761 64 PMTYSCGLCGK 74 (233)
Q Consensus 64 ~k~~~C~~C~K 74 (233)
+....|+.||+
T Consensus 44 ~~i~~Cp~CgR 54 (56)
T PF02591_consen 44 DEIVFCPNCGR 54 (56)
T ss_pred CCeEECcCCCc
Confidence 44456777775
No 160
>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=21.76 E-value=34 Score=22.26 Aligned_cols=14 Identities=29% Similarity=0.793 Sum_probs=7.8
Q ss_pred ccCCCCCccCChHH
Q 026761 68 SCGLCGKGYRSSKA 81 (233)
Q Consensus 68 ~C~~C~K~F~s~~~ 81 (233)
.|++|++.|.....
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 79999999986543
No 161
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=21.75 E-value=59 Score=31.95 Aligned_cols=30 Identities=17% Similarity=0.426 Sum_probs=25.0
Q ss_pred CCCccccCCCCCccCChHHHHHHHhhhhhh
Q 026761 63 TPMTYSCGLCGKGYRSSKALAQHLNSRSHI 92 (233)
Q Consensus 63 ~~k~~~C~~C~K~F~s~~~l~~H~~s~~hk 92 (233)
..+|.+|..||+.|........|+..|--+
T Consensus 415 ~~~pnqC~~CG~R~~~~ee~sk~md~H~dw 444 (579)
T KOG2071|consen 415 KDSPNQCKSCGLRFDDSEERSKHMDIHDDW 444 (579)
T ss_pred cCCcchhcccccccccchhhhhHhhhhhhh
Confidence 456789999999999999999998877533
No 162
>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=21.67 E-value=36 Score=25.97 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=11.4
Q ss_pred cccCCCCCccCChH
Q 026761 67 YSCGLCGKGYRSSK 80 (233)
Q Consensus 67 ~~C~~C~K~F~s~~ 80 (233)
..|..||+.|+-.+
T Consensus 10 R~Cp~CG~kFYDLn 23 (108)
T PF09538_consen 10 RTCPSCGAKFYDLN 23 (108)
T ss_pred ccCCCCcchhccCC
Confidence 46999999998764
No 163
>PF11931 DUF3449: Domain of unknown function (DUF3449); InterPro: IPR024598 This presumed domain is functionally uncharacterised. It has two conserved sequence motifs: PIP and CEICG and contains a zinc-finger of the C2H2-type.; PDB: 4DGW_A.
Probab=21.58 E-value=31 Score=29.20 Aligned_cols=31 Identities=19% Similarity=0.543 Sum_probs=0.0
Q ss_pred CCCcccchh-ccCCchhhhhhccccceecCcc
Q 026761 3 GLTCNSCNR-EFNDDAEQKLHYKSDWHRYNLK 33 (233)
Q Consensus 3 ~f~C~~C~~-~F~~~~~lr~H~ks~~hryNlk 33 (233)
.|+|.+||- +|.-+....+|+..--|.+-|+
T Consensus 101 ey~CEICGN~~Y~GrkaFekHF~E~rH~~Glr 132 (196)
T PF11931_consen 101 EYKCEICGNQSYKGRKAFEKHFQEWRHAYGLR 132 (196)
T ss_dssp --------------------------------
T ss_pred eeeeEeCCCcceecHHHHHHhcChhHHHccCh
Confidence 489999965 4557788899998866765553
No 164
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=21.56 E-value=42 Score=21.43 Aligned_cols=20 Identities=15% Similarity=0.220 Sum_probs=16.6
Q ss_pred CHHHHHHHhhhhcccccCCcc
Q 026761 194 AIENCMVHMHKCHGFFIPDVE 214 (233)
Q Consensus 194 ~~~~~~~HM~~~h~ffIP~~~ 214 (233)
++...+.=| ...||+||+..
T Consensus 20 ~~~~~l~~l-~~~g~~is~~l 39 (48)
T PF11848_consen 20 EVKPLLDRL-QQAGFRISPKL 39 (48)
T ss_pred hHHHHHHHH-HHcCcccCHHH
Confidence 567788889 79999999853
No 165
>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=21.05 E-value=60 Score=19.37 Aligned_cols=21 Identities=29% Similarity=0.593 Sum_probs=14.5
Q ss_pred ccccCCCCCccCChHHHHHHHh
Q 026761 66 TYSCGLCGKGYRSSKALAQHLN 87 (233)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~H~~ 87 (233)
.+.|..|++.+. .+.|..|+.
T Consensus 4 ~~~C~nC~R~v~-a~RfA~HLe 24 (33)
T PF08209_consen 4 YVECPNCGRPVA-ASRFAPHLE 24 (33)
T ss_dssp EEE-TTTSSEEE-GGGHHHHHH
T ss_pred eEECCCCcCCcc-hhhhHHHHH
Confidence 468999999875 355777764
No 166
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=20.83 E-value=1.2e+02 Score=21.34 Aligned_cols=31 Identities=23% Similarity=0.277 Sum_probs=24.1
Q ss_pred CCCCCHHHHHHHhhhhcccccCCcccccCHHHHHHHHh
Q 026761 190 LPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLG 227 (233)
Q Consensus 190 ~~~~~~~~~~~HM~~~h~ffIP~~~ylvDl~GLl~YL~ 227 (233)
+.+..+...++||+..|. -| +-++-+|.||+
T Consensus 6 ~~~t~l~~aV~ymK~r~~--~P-----lt~~EIl~~ls 36 (75)
T cd07977 6 HVFTQLAKIVDYMKKRHQ--HP-----LTLDEILDYLS 36 (75)
T ss_pred chhhhHHHHHHHHHhcCC--CC-----ccHHHHHHHHh
Confidence 456778899999998886 34 36788888887
No 167
>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=20.63 E-value=26 Score=29.99 Aligned_cols=9 Identities=33% Similarity=0.287 Sum_probs=4.2
Q ss_pred eecCccccc
Q 026761 28 HRYNLKRKV 36 (233)
Q Consensus 28 hryNlkrkv 36 (233)
|+|.+|.|.
T Consensus 78 ~~C~lc~Kl 86 (214)
T PF04959_consen 78 WRCPLCGKL 86 (214)
T ss_dssp EEE-SSS-E
T ss_pred ECCCCCCcc
Confidence 566666654
No 168
>PF13119 DUF3973: Domain of unknown function (DUF3973)
Probab=20.51 E-value=34 Score=21.33 Aligned_cols=8 Identities=38% Similarity=0.821 Sum_probs=5.6
Q ss_pred hcccccCC
Q 026761 205 CHGFFIPD 212 (233)
Q Consensus 205 ~h~ffIP~ 212 (233)
.+||||--
T Consensus 22 ~ngfYIdP 29 (41)
T PF13119_consen 22 KNGFYIDP 29 (41)
T ss_pred hCceeecc
Confidence 67888843
No 169
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.24 E-value=53 Score=32.93 Aligned_cols=32 Identities=13% Similarity=0.146 Sum_probs=20.9
Q ss_pred CcccchhccCCc---hhhhhhccccceecCccccc
Q 026761 5 TCNSCNREFNDD---AEQKLHYKSDWHRYNLKRKV 36 (233)
Q Consensus 5 ~C~~C~~~F~~~---~~lr~H~ks~~hryNlkrkv 36 (233)
.|..||..+.=. ..|..|.....-+|..|+..
T Consensus 385 ~C~~Cg~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~ 419 (665)
T PRK14873 385 ACARCRTPARCRHCTGPLGLPSAGGTPRCRWCGRA 419 (665)
T ss_pred EhhhCcCeeECCCCCCceeEecCCCeeECCCCcCC
Confidence 577776666533 35677776666678888763
No 170
>PRK05580 primosome assembly protein PriA; Validated
Probab=20.21 E-value=62 Score=32.39 Aligned_cols=33 Identities=21% Similarity=0.170 Sum_probs=19.7
Q ss_pred CCcccchhccCCc---hhhhhhccccceecCccccc
Q 026761 4 LTCNSCNREFNDD---AEQKLHYKSDWHRYNLKRKV 36 (233)
Q Consensus 4 f~C~~C~~~F~~~---~~lr~H~ks~~hryNlkrkv 36 (233)
..|..||..+.=. ..|..|.....-+|..|+..
T Consensus 382 ~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~ 417 (679)
T PRK05580 382 LLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQ 417 (679)
T ss_pred eEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCC
Confidence 3466666655332 35667766655667777764
Done!