Query 020332
Match_columns 327
No_of_seqs 264 out of 1740
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 08:54:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020332.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020332hhsearch_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 2.5E-66 5.3E-71 491.0 13.5 280 1-301 1-284 (390)
2 PF12756 zf-C2H2_2: C2H2 type 99.7 1.4E-18 3.1E-23 137.6 3.0 99 184-287 1-100 (100)
3 KOG2482 Predicted C2H2-type Zn 99.6 2E-16 4.3E-21 148.9 5.6 207 4-266 145-364 (423)
4 KOG2462 C2H2-type Zn-finger pr 99.5 2E-14 4.3E-19 132.8 2.8 137 2-258 129-265 (279)
5 PTZ00448 hypothetical protein; 99.5 2.1E-14 4.6E-19 137.6 2.9 50 3-52 314-363 (373)
6 KOG2482 Predicted C2H2-type Zn 99.3 2.5E-12 5.5E-17 121.5 3.8 93 181-283 143-236 (423)
7 KOG2462 C2H2-type Zn-finger pr 99.2 2.3E-12 5E-17 119.2 2.3 80 2-90 160-239 (279)
8 KOG1074 Transcriptional repres 99.1 3.2E-11 6.9E-16 124.8 4.2 55 179-259 602-656 (958)
9 KOG3608 Zn finger proteins [Ge 99.0 2.7E-10 5.9E-15 108.4 4.3 172 3-268 207-384 (467)
10 KOG3576 Ovo and related transc 98.8 1.4E-09 3.1E-14 96.8 1.0 81 3-90 117-197 (267)
11 KOG1074 Transcriptional repres 98.7 6.8E-09 1.5E-13 107.8 4.3 54 183-264 880-933 (958)
12 KOG2505 Ankyrin repeat protein 98.6 1.5E-08 3.3E-13 100.3 1.7 49 3-51 66-114 (591)
13 KOG3608 Zn finger proteins [Ge 98.5 7.7E-08 1.7E-12 91.9 5.1 75 182-259 263-344 (467)
14 KOG3623 Homeobox transcription 98.4 6.3E-08 1.4E-12 99.5 0.8 55 180-260 279-333 (1007)
15 KOG3576 Ovo and related transc 98.4 1.3E-07 2.9E-12 84.4 1.6 28 64-91 115-142 (267)
16 PF12756 zf-C2H2_2: C2H2 type 98.4 2.1E-07 4.6E-12 73.2 2.6 78 5-94 1-78 (100)
17 KOG3623 Homeobox transcription 98.3 1.4E-07 3.1E-12 96.9 1.4 74 3-87 894-971 (1007)
18 PHA00733 hypothetical protein 98.1 2.5E-06 5.5E-11 71.9 3.9 25 183-207 100-124 (128)
19 PHA02768 hypothetical protein; 98.1 1.1E-06 2.5E-11 62.9 0.8 43 3-82 5-47 (55)
20 PF12171 zf-C2H2_jaz: Zinc-fin 97.9 3.2E-06 6.9E-11 51.8 0.7 27 66-92 1-27 (27)
21 PF12874 zf-met: Zinc-finger o 97.9 9E-06 1.9E-10 48.6 2.1 25 67-91 1-25 (25)
22 PF13465 zf-H2C2_2: Zinc-finge 97.8 1.3E-05 2.9E-10 48.7 2.2 25 54-78 2-26 (26)
23 PHA00733 hypothetical protein 97.8 2.1E-05 4.5E-10 66.3 3.7 80 2-91 39-124 (128)
24 PHA00732 hypothetical protein 97.7 1.7E-05 3.6E-10 61.4 2.1 49 3-91 1-49 (79)
25 PHA02768 hypothetical protein; 97.6 2.5E-05 5.5E-10 56.0 1.6 44 181-252 4-47 (55)
26 KOG3993 Transcription factor ( 97.6 0.00015 3.2E-09 71.3 6.4 87 3-94 295-384 (500)
27 PHA00732 hypothetical protein 97.5 7.3E-05 1.6E-09 57.8 3.1 47 182-259 1-47 (79)
28 smart00451 ZnF_U1 U1-like zinc 97.5 8.6E-05 1.9E-09 47.8 2.6 30 66-95 3-32 (35)
29 PLN03086 PRLI-interacting fact 97.4 0.0002 4.3E-09 73.8 5.1 50 181-258 503-562 (567)
30 smart00451 ZnF_U1 U1-like zinc 97.2 8.2E-05 1.8E-09 47.9 0.3 34 1-34 1-34 (35)
31 PF00096 zf-C2H2: Zinc finger, 97.2 0.00024 5.2E-09 41.4 2.1 22 67-88 1-22 (23)
32 PF12171 zf-C2H2_jaz: Zinc-fin 97.0 0.00033 7.2E-09 42.7 1.1 25 4-28 2-26 (27)
33 PHA00616 hypothetical protein 96.9 0.00026 5.6E-09 48.5 0.4 27 182-208 1-27 (44)
34 PF13894 zf-C2H2_4: C2H2-type 96.8 0.001 2.3E-08 38.4 2.3 23 67-89 1-23 (24)
35 PF13912 zf-C2H2_6: C2H2-type 96.7 0.0011 2.4E-08 40.2 1.8 24 66-89 1-24 (27)
36 PHA00616 hypothetical protein 96.7 0.00026 5.7E-09 48.5 -1.2 24 3-26 1-24 (44)
37 PF05605 zf-Di19: Drought indu 96.6 0.0017 3.6E-08 46.3 2.8 51 3-89 2-52 (54)
38 KOG3993 Transcription factor ( 96.6 0.00064 1.4E-08 66.8 0.6 27 182-208 356-382 (500)
39 PF13912 zf-C2H2_6: C2H2-type 96.6 0.00089 1.9E-08 40.5 0.9 24 3-26 1-24 (27)
40 PF13894 zf-C2H2_4: C2H2-type 96.5 0.00092 2E-08 38.7 0.5 24 183-206 1-24 (24)
41 PF12874 zf-met: Zinc-finger o 96.5 0.00074 1.6E-08 40.1 0.0 24 4-27 1-24 (25)
42 COG5189 SFP1 Putative transcri 96.3 0.00086 1.9E-08 63.9 -0.4 69 2-87 348-419 (423)
43 PF00096 zf-C2H2: Zinc finger, 96.2 0.0025 5.3E-08 37.0 1.3 22 234-258 1-22 (23)
44 KOG3408 U1-like Zn-finger-cont 96.0 0.0024 5.2E-08 52.8 0.6 84 15-98 3-89 (129)
45 KOG0717 Molecular chaperone (D 95.9 0.004 8.6E-08 62.2 1.9 30 67-96 293-322 (508)
46 KOG1146 Homeobox protein [Gene 95.8 0.011 2.5E-07 65.4 5.0 82 3-94 465-546 (1406)
47 PF05605 zf-Di19: Drought indu 95.8 0.012 2.5E-07 42.0 3.4 51 182-259 2-52 (54)
48 smart00355 ZnF_C2H2 zinc finge 95.4 0.011 2.4E-07 34.3 1.9 21 67-87 1-21 (26)
49 PF13465 zf-H2C2_2: Zinc-finge 95.4 0.008 1.7E-07 36.4 1.3 26 197-248 1-26 (26)
50 PF13909 zf-H2C2_5: C2H2-type 94.7 0.01 2.2E-07 34.9 0.2 24 183-207 1-24 (24)
51 PLN03086 PRLI-interacting fact 93.2 0.18 3.9E-06 52.3 6.2 73 182-258 453-536 (567)
52 KOG2785 C2H2-type Zn-finger pr 92.7 0.097 2.1E-06 51.3 3.2 80 3-94 166-248 (390)
53 PF12013 DUF3505: Protein of u 92.6 0.23 5.1E-06 40.2 5.0 28 180-207 78-109 (109)
54 smart00355 ZnF_C2H2 zinc finge 92.4 0.13 2.7E-06 29.6 2.3 22 234-258 1-22 (26)
55 KOG3408 U1-like Zn-finger-cont 92.3 0.047 1E-06 45.3 0.4 36 2-41 56-91 (129)
56 KOG2231 Predicted E3 ubiquitin 91.5 0.19 4.1E-06 52.9 3.9 72 183-258 116-204 (669)
57 PF09237 GAGA: GAGA factor; I 91.5 0.081 1.8E-06 37.4 0.8 28 180-207 22-49 (54)
58 PF09237 GAGA: GAGA factor; I 90.2 0.28 6.2E-06 34.7 2.6 31 62-92 20-50 (54)
59 PF13913 zf-C2HC_2: zinc-finge 89.3 0.29 6.3E-06 29.3 1.8 21 67-88 3-23 (25)
60 PF13909 zf-H2C2_5: C2H2-type 88.7 0.42 9.1E-06 27.8 2.3 22 67-89 1-22 (24)
61 KOG4173 Alpha-SNAP protein [In 88.7 0.18 3.9E-06 45.7 0.9 63 5-93 108-172 (253)
62 COG5236 Uncharacterized conser 88.2 0.47 1E-05 46.2 3.4 73 184-259 222-304 (493)
63 COG5188 PRP9 Splicing factor 3 88.2 0.53 1.2E-05 45.9 3.7 36 2-37 237-272 (470)
64 PLN02748 tRNA dimethylallyltra 87.6 0.29 6.4E-06 49.8 1.8 32 65-96 417-449 (468)
65 PF12013 DUF3505: Protein of u 87.4 0.41 8.8E-06 38.8 2.2 76 180-259 9-107 (109)
66 PF13913 zf-C2HC_2: zinc-finge 87.3 0.3 6.5E-06 29.3 1.0 22 3-25 2-23 (25)
67 PF06220 zf-U1: U1 zinc finger 87.1 0.44 9.6E-06 31.6 1.8 30 66-95 3-34 (38)
68 COG5236 Uncharacterized conser 86.4 0.26 5.5E-06 47.9 0.5 76 183-262 152-245 (493)
69 KOG0717 Molecular chaperone (D 84.9 1.6 3.5E-05 44.1 5.2 29 4-32 293-321 (508)
70 KOG2231 Predicted E3 ubiquitin 84.9 1 2.2E-05 47.6 4.1 69 184-257 184-260 (669)
71 COG5112 UFD2 U1-like Zn-finger 84.3 0.41 9E-06 38.9 0.7 34 64-97 53-86 (126)
72 KOG2893 Zn finger protein [Gen 83.5 0.28 6.1E-06 45.4 -0.6 43 5-86 12-54 (341)
73 COG5189 SFP1 Putative transcri 82.4 0.36 7.8E-06 46.4 -0.4 66 181-257 348-419 (423)
74 PF13821 DUF4187: Domain of un 81.0 1.5 3.2E-05 31.5 2.5 30 218-253 15-44 (55)
75 PF06220 zf-U1: U1 zinc finger 80.9 0.61 1.3E-05 30.9 0.4 34 1-34 1-36 (38)
76 COG4049 Uncharacterized protei 80.5 0.91 2E-05 32.7 1.2 27 62-88 13-39 (65)
77 KOG1146 Homeobox protein [Gene 80.4 0.63 1.4E-05 52.2 0.5 29 67-95 1329-1357(1406)
78 smart00586 ZnF_DBF Zinc finger 80.3 0.89 1.9E-05 31.9 1.1 27 64-93 3-29 (49)
79 PF09986 DUF2225: Uncharacteri 77.9 0.78 1.7E-05 41.9 0.3 57 3-79 5-61 (214)
80 PF04988 AKAP95: A-kinase anch 71.6 6 0.00013 34.7 4.1 90 4-94 1-120 (165)
81 COG5112 UFD2 U1-like Zn-finger 71.3 1.1 2.4E-05 36.4 -0.4 34 3-40 55-88 (126)
82 PF07535 zf-DBF: DBF zinc fing 71.0 2.9 6.3E-05 29.4 1.7 28 65-95 4-31 (49)
83 KOG4173 Alpha-SNAP protein [In 68.4 2.1 4.6E-05 38.9 0.7 63 182-260 106-170 (253)
84 COG5188 PRP9 Splicing factor 3 67.8 2.5 5.4E-05 41.3 1.1 32 65-96 237-268 (470)
85 KOG4727 U1-like Zn-finger prot 65.3 3.7 8E-05 36.2 1.6 30 65-94 74-103 (193)
86 PF02892 zf-BED: BED zinc fing 65.1 5.7 0.00012 26.5 2.2 25 64-88 14-42 (45)
87 KOG2893 Zn finger protein [Gen 63.7 1.7 3.8E-05 40.3 -0.8 22 185-206 13-34 (341)
88 KOG2186 Cell growth-regulating 63.4 3.9 8.5E-05 38.3 1.4 48 1-86 1-48 (276)
89 PF05443 ROS_MUCR: ROS/MUCR tr 61.0 3 6.4E-05 35.4 0.2 24 182-208 72-95 (132)
90 smart00734 ZnF_Rad18 Rad18-lik 61.0 6.6 0.00014 23.7 1.7 19 68-87 3-21 (26)
91 PF09538 FYDLN_acid: Protein o 59.6 5.5 0.00012 32.6 1.5 15 65-79 25-39 (108)
92 PF04959 ARS2: Arsenite-resist 58.1 8.3 0.00018 35.4 2.6 29 63-91 74-102 (214)
93 PRK04860 hypothetical protein; 56.8 5.8 0.00012 34.7 1.3 38 181-248 118-155 (160)
94 PRK04860 hypothetical protein; 54.9 7.9 0.00017 33.9 1.8 27 53-79 130-156 (160)
95 PTZ00448 hypothetical protein; 54.0 8.1 0.00018 38.1 1.9 31 66-96 314-344 (373)
96 KOG1994 Predicted RNA binding 52.9 9.3 0.0002 35.3 2.0 32 218-255 227-258 (268)
97 COG4049 Uncharacterized protei 52.2 4.2 9.2E-05 29.4 -0.2 29 182-210 17-45 (65)
98 PF05443 ROS_MUCR: ROS/MUCR tr 49.2 11 0.00023 32.1 1.7 39 234-288 73-111 (132)
99 PF08790 zf-LYAR: LYAR-type C2 48.9 5 0.00011 24.9 -0.3 20 4-24 1-20 (28)
100 smart00614 ZnF_BED BED zinc fi 48.4 13 0.00029 25.6 1.8 23 66-88 18-45 (50)
101 PF15269 zf-C2H2_7: Zinc-finge 46.0 11 0.00023 26.1 1.0 21 183-203 21-41 (54)
102 COG5246 PRP11 Splicing factor 46.0 12 0.00026 33.5 1.5 31 66-96 53-83 (222)
103 KOG0227 Splicing factor 3a, su 44.5 10 0.00022 34.2 0.8 31 66-96 53-83 (222)
104 COG5048 FOG: Zn-finger [Genera 43.9 8.2 0.00018 36.9 0.2 58 3-93 289-350 (467)
105 PF14353 CpXC: CpXC protein 42.5 16 0.00035 30.2 1.8 22 65-86 37-58 (128)
106 COG4957 Predicted transcriptio 40.4 15 0.00032 31.3 1.2 25 182-209 76-100 (148)
107 PF12907 zf-met2: Zinc-binding 40.1 12 0.00026 25.1 0.5 27 67-93 2-31 (40)
108 PF11931 DUF3449: Domain of un 39.3 9.9 0.00021 34.4 0.0 29 65-93 100-129 (196)
109 KOG1994 Predicted RNA binding 37.1 12 0.00027 34.5 0.3 21 181-201 238-258 (268)
110 PF04780 DUF629: Protein of un 36.2 18 0.00039 36.9 1.3 33 181-213 56-89 (466)
111 PF04988 AKAP95: A-kinase anch 36.1 21 0.00046 31.3 1.5 27 67-93 1-27 (165)
112 KOG2837 Protein containing a U 35.3 5 0.00011 38.0 -2.6 28 66-93 25-52 (309)
113 KOG2636 Splicing factor 3a, su 34.5 29 0.00063 35.2 2.4 29 65-93 400-429 (497)
114 PF13878 zf-C2H2_3: zinc-finge 34.2 16 0.00036 24.4 0.4 23 3-25 13-37 (41)
115 PF04959 ARS2: Arsenite-resist 34.2 23 0.00049 32.5 1.5 42 233-283 77-118 (214)
116 PF04780 DUF629: Protein of un 32.9 29 0.00064 35.5 2.2 26 65-90 56-81 (466)
117 PRK00464 nrdR transcriptional 32.4 12 0.00025 32.6 -0.7 21 233-256 28-48 (154)
118 KOG2636 Splicing factor 3a, su 32.2 18 0.00039 36.6 0.6 37 3-41 401-438 (497)
119 KOG4167 Predicted DNA-binding 31.8 8.7 0.00019 41.1 -1.8 25 3-29 792-816 (907)
120 PF09986 DUF2225: Uncharacteri 29.8 23 0.0005 32.3 0.8 16 65-80 4-19 (214)
121 TIGR00244 transcriptional regu 29.2 16 0.00034 31.6 -0.4 20 232-254 27-46 (147)
122 KOG1842 FYVE finger-containing 28.7 37 0.0008 34.4 2.0 29 2-31 14-42 (505)
123 KOG4167 Predicted DNA-binding 28.2 15 0.00033 39.3 -0.8 30 65-94 791-820 (907)
124 PF11931 DUF3449: Domain of un 25.9 23 0.00049 32.1 0.0 36 3-40 101-137 (196)
125 KOG3032 Uncharacterized conser 25.5 42 0.00092 31.2 1.7 29 65-94 34-62 (264)
126 KOG2071 mRNA cleavage and poly 25.3 28 0.00062 36.4 0.6 28 2-29 417-446 (579)
127 COG1327 Predicted transcriptio 24.8 40 0.00087 29.3 1.3 32 233-267 28-62 (156)
128 TIGR02098 MJ0042_CXXC MJ0042 f 24.6 49 0.0011 21.2 1.4 12 66-77 25-36 (38)
129 KOG3288 OTU-like cysteine prot 24.4 1E+02 0.0023 29.1 4.0 33 61-93 271-303 (307)
130 PF10571 UPF0547: Uncharacteri 24.0 45 0.00097 20.1 1.0 12 182-193 14-25 (26)
131 KOG4727 U1-like Zn-finger prot 23.9 27 0.00059 30.9 0.1 49 1-50 73-121 (193)
132 KOG2593 Transcription initiati 22.9 68 0.0015 32.4 2.7 22 62-83 124-145 (436)
133 PF04423 Rad50_zn_hook: Rad50 22.6 49 0.0011 23.1 1.2 14 68-81 22-35 (54)
134 PF06524 NOA36: NOA36 protein; 22.5 1.5E+02 0.0033 28.2 4.7 28 64-93 207-234 (314)
135 PF02148 zf-UBP: Zn-finger in 21.9 30 0.00065 25.0 -0.0 31 233-263 11-41 (63)
136 COG4957 Predicted transcriptio 21.2 71 0.0015 27.3 2.1 39 234-288 77-115 (148)
137 KOG2186 Cell growth-regulating 20.9 48 0.001 31.3 1.1 46 183-257 4-49 (276)
138 COG2888 Predicted Zn-ribbon RN 20.5 55 0.0012 24.0 1.1 15 229-243 46-60 (61)
139 PF14968 CCDC84: Coiled coil p 20.3 69 0.0015 31.4 2.1 81 5-96 1-94 (336)
No 1
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.5e-66 Score=491.01 Aligned_cols=280 Identities=42% Similarity=0.703 Sum_probs=217.3
Q ss_pred CCCccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhh--cCCCCeeecCCcCCcccC
Q 020332 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK--NATPMTYSCGLCGKGYRS 78 (327)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~--h~~~~~~~C~~C~K~F~s 78 (327)
|+.|+|++|.+.|.+.+.||.||+|||||||||||||++|||+.+.|+.++.+.+..+.. ..++.++.|.+|+|+|.+
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 788999999999999999999999999999999999999999999999998666554333 346788999999999999
Q ss_pred hHHHHHHHhhhhhhhhhccCCChhhhhhhhccCCCCcCCCCCCCccccCCCCCCCCccccccCCcchhhhhhhccccccc
Q 020332 79 SKALAQHLNSRSHIMRASQGTSNEEKEKVIIKPIPLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSLTNL 158 (327)
Q Consensus 79 ~~~l~~Hl~skkHk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~e~~e~~~~~~~~~~~~~~~~~~ 158 (327)
.+++.+||.||+|+.+.++.....+.+.+.+++++...++ ... .-.+++..|.|++..+.. + .+.
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----NLQ----NKGESELKWYEVDSDEDS------S-EEE 145 (390)
T ss_pred hhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCcc----ccc----cCCCcccchhhccccccc------c-hhh
Confidence 9999999999999998777554333333344444432211 000 011245566555543100 0 000
Q ss_pred CCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccc
Q 020332 159 NVGSPADDDLEEDDDDGAFEEFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLY 238 (327)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~ 238 (327)
... +..+|+ +++.....+..|..||||++.+++++.++.||..+||||||+.+||+|+.|||.||++||+.++.||+
T Consensus 146 ~~d--d~~Edi-~~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~ 222 (390)
T KOG2785|consen 146 EED--DEEEDI-EEDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLF 222 (390)
T ss_pred ccC--cchhhh-hhccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEE
Confidence 000 111111 11111223456699999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcccCCHHHHHHHHHhcCCcccCCCCCChhHHHhhhhhccccCCCC--CCcceeeccCCCh
Q 020332 239 CNDRCHPFNSLEAVRKHMEAKRHCKIHFGDGDDEEEAELEEFYDYSSRSL--SSKFIFLFCFLFP 301 (327)
Q Consensus 239 C~~~gk~F~s~~~l~~HM~~k~Hcki~~~~~~~e~~~e~~~fYd~~~sy~--~~~~~~~~~~~~~ 301 (327)
||..|+.|+|++++|+||++|+||+|+| ++ |+++||++|||||+||+ ++++.+..+++.+
T Consensus 223 CN~~~~~f~sleavr~HM~~K~HCkl~y-d~--ee~~El~efYDfsssY~d~~~~~~~~~~e~~~ 284 (390)
T KOG2785|consen 223 CNELGRPFSSLEAVRAHMRDKGHCKLPY-DG--EERLELAEFYDFSSSYPDIAENQDPDSAEEDP 284 (390)
T ss_pred eccccCcccccHHHHHHHhhccCcccCC-Ch--HHHhhhhhhhcCcccccCcccCCCCcchhcCC
Confidence 9999999999999999999999999999 54 88999999999999998 5666666555555
No 2
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=99.73 E-value=1.4e-18 Score=137.57 Aligned_cols=99 Identities=44% Similarity=0.797 Sum_probs=27.9
Q ss_pred CCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhcCCcc
Q 020332 184 CCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAKRHCK 263 (327)
Q Consensus 184 ~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hck 263 (327)
+|++|+..|+++..++.||...|++.+|....+++..+++.|+..++...+.|.+|+ +.|.+..+|+.||+.++|.+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H~~~~~~~~~l~~~~~~~~~~~~~~~~~~~C~~C~---~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKHGFDIPDQKYLVDPNRLLNYLRKKVKESFRCPYCN---KTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp ------------------------------------------------SSEEBSSSS----EESSHHHHHHHHHHTTTTC
T ss_pred CccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCccC---CCCcCHHHHHHHHcCccCCC
Confidence 599999999999999999999999999999999999999999999988779999997 99999999999999999999
Q ss_pred cCCCCCChhHHHhhhhhccc-cCCC
Q 020332 264 IHFGDGDDEEEAELEEFYDY-SSRS 287 (327)
Q Consensus 264 i~~~~~~~e~~~e~~~fYd~-~~sy 287 (327)
+.++.+ ....++..||+| +.+|
T Consensus 78 ~~~~~~--~~~~~~~~~y~~~~~~~ 100 (100)
T PF12756_consen 78 RNSESE--ESWEEFEKFYDFWSNDY 100 (100)
T ss_dssp -S-----------------------
T ss_pred cccccc--cccccccccccccccCC
Confidence 988653 567899999999 6665
No 3
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=99.63 E-value=2e-16 Score=148.93 Aligned_cols=207 Identities=22% Similarity=0.346 Sum_probs=143.4
Q ss_pred ccccccccccC-ChHHHhccccccccccchhhhhcCCC--CccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChH
Q 020332 4 LTCNSCNREFN-DDAEQKLHYKSDWHRYNLKRKVAGVP--GVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSK 80 (327)
Q Consensus 4 f~C~~C~~~F~-~~~~lr~H~ksdwHryNlKRkva~lp--pv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~ 80 (327)
..|..|+..+. +++....|+-.. |..|+ |+| .|.+.+|...+.. .-..+.|..|.|.|+.++
T Consensus 145 lqClFCn~e~lgnRs~~l~Hlf~~-H~lni-----GlpDniVyvnelLehLke---------kL~r~~CLyCekifrdkn 209 (423)
T KOG2482|consen 145 LQCLFCNNEGLGNRSEILEHLFHV-HGLNI-----GLPDNIVYVNELLEHLKE---------KLERLRCLYCEKIFRDKN 209 (423)
T ss_pred eEEEEecchhcccHHHHHHHHHHH-hhhcc-----CCCcceeeHHHHHHHHHH---------HHhhheeeeeccccCCcH
Confidence 46999999987 788899997754 77887 877 6666666654321 113678999999999999
Q ss_pred HHHHHHhhhhhhhh-hccCC-ChhhhhhhhccCC---CCcCCCCCCCccccCCCCCCCCccccccCCcchhhhhhhcccc
Q 020332 81 ALAQHLNSRSHIMR-ASQGT-SNEEKEKVIIKPI---PLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSL 155 (327)
Q Consensus 81 ~l~~Hl~skkHk~~-~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~d~~~~~e~~e~~~~~~~~~~~~~~~ 155 (327)
+|+.|||.|.|++. +++.. ++. .++..+ .++....+.-..+. .++..+.+++|.+|.+++.
T Consensus 210 tLkeHMrkK~HrrinPknreYDkf----yiINY~ev~ks~t~~~~e~dret-~~d~~E~D~~wsDw~ed~a--------- 275 (423)
T KOG2482|consen 210 TLKEHMRKKRHRRINPKNREYDKF----YIINYLEVGKSWTIVHSEDDRET-NEDINETDDTWSDWNEDDA--------- 275 (423)
T ss_pred HHHHHHHhccCcccCCCccccceE----EEEeHhhcCCccchhhhhhhhhh-hccccccccchhhhhcCCC---------
Confidence 99999999999884 33332 111 122111 01100000000011 1233445566766543220
Q ss_pred cccCCCCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCChhhhhhhhhhcccCCCCCc--c---cccChHHHHHHhhhhc
Q 020332 156 TNLNVGSPADDDLEEDDDDGAFEEFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDV--E---YLKDPKGLLTYLGLKV 230 (327)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~--~---~l~d~~gLl~yl~~ki 230 (327)
+-....|+||.....++..|.+||...|.|.+-.. + .+++...+++|++.+.
T Consensus 276 -----------------------~a~~v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~ 332 (423)
T KOG2482|consen 276 -----------------------EALSVVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQK 332 (423)
T ss_pred -----------------------CccceEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHh
Confidence 01126899999999999999999999999988555 2 3578899999999887
Q ss_pred cCCccccccCCCCcccCCHHHHHHHHHhcCCcccCC
Q 020332 231 KRDFMCLYCNDRCHPFNSLEAVRKHMEAKRHCKIHF 266 (327)
Q Consensus 231 ~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hcki~~ 266 (327)
.. -.|-.|. -.|.+..+|+.||....|-.|-.
T Consensus 333 ~~-~~c~~cd---~~F~~e~~l~~hm~e~k~l~i~p 364 (423)
T KOG2482|consen 333 KK-SRCAECD---LSFWKEPGLLIHMVEDKHLSILP 364 (423)
T ss_pred hc-ccccccc---ccccCcchhhhhccccccccccC
Confidence 64 5899997 79999999999999988877764
No 4
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.46 E-value=2e-14 Score=132.76 Aligned_cols=137 Identities=21% Similarity=0.453 Sum_probs=103.4
Q ss_pred CCccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHH
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKA 81 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~ 81 (327)
..|.|..||+.+.+...|-+|.++ ||--.-++.... ++.-.+|+.. -+|+-|.++|+ -++.|.+|||.|.....
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~--H~~~~s~ka~~C-~~C~K~YvSm-pALkMHirTH~--l~c~C~iCGKaFSRPWL 202 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQT--HRSLDSKKAFSC-KYCGKVYVSM-PALKMHIRTHT--LPCECGICGKAFSRPWL 202 (279)
T ss_pred Cceeccccccccccccccchhhcc--cccccccccccC-CCCCceeeeh-HHHhhHhhccC--CCcccccccccccchHH
Confidence 358999999999999999999999 753322222221 2222244443 46777777765 47788888888888888
Q ss_pred HHHHHhhhhhhhhhccCCChhhhhhhhccCCCCcCCCCCCCccccCCCCCCCCccccccCCcchhhhhhhcccccccCCC
Q 020332 82 LAQHLNSRSHIMRASQGTSNEEKEKVIIKPIPLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSLTNLNVG 161 (327)
Q Consensus 82 l~~Hl~skkHk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~e~~e~~~~~~~~~~~~~~~~~~~~~ 161 (327)
|+.|+|++..
T Consensus 203 LQGHiRTHTG---------------------------------------------------------------------- 212 (279)
T KOG2462|consen 203 LQGHIRTHTG---------------------------------------------------------------------- 212 (279)
T ss_pred hhcccccccC----------------------------------------------------------------------
Confidence 8888875221
Q ss_pred CCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCC
Q 020332 162 SPADDDLEEDDDDGAFEEFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCND 241 (327)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~ 241 (327)
.+|+.|..|++.|.+.++|..||.+|-+ .| .|+|..|+
T Consensus 213 ------------------EKPF~C~hC~kAFADRSNLRAHmQTHS~--------------------~K---~~qC~~C~- 250 (279)
T KOG2462|consen 213 ------------------EKPFSCPHCGKAFADRSNLRAHMQTHSD--------------------VK---KHQCPRCG- 250 (279)
T ss_pred ------------------CCCccCCcccchhcchHHHHHHHHhhcC--------------------Cc---cccCcchh-
Confidence 2589999999999999999999998543 33 69999996
Q ss_pred CCcccCCHHHHHHHHHh
Q 020332 242 RCHPFNSLEAVRKHMEA 258 (327)
Q Consensus 242 ~gk~F~s~~~l~~HM~~ 258 (327)
|+|.-.+.|.+|...
T Consensus 251 --KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 251 --KSFALKSYLNKHSES 265 (279)
T ss_pred --hHHHHHHHHHHhhhh
Confidence 999999999999875
No 5
>PTZ00448 hypothetical protein; Provisional
Probab=99.46 E-value=2.1e-14 Score=137.64 Aligned_cols=50 Identities=36% Similarity=0.663 Sum_probs=47.9
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQA 52 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~ 52 (327)
.|+|++|+..|.+...+|.||||||||||||||++|||||+.++|..++.
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 58999999999999999999999999999999999999999999998864
No 6
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=99.27 E-value=2.5e-12 Score=121.46 Aligned_cols=93 Identities=26% Similarity=0.477 Sum_probs=86.0
Q ss_pred CCCCCCCCCCCC-CChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhc
Q 020332 181 DPACCFMCDLPH-DAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 181 ~p~~ClfC~~~f-~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k 259 (327)
-..+|+||+..+ ...+..+.||...||+.|.-++.+|....||.+|.+++. .++|+||. |.|..+..|+.|||.|
T Consensus 143 fslqClFCn~e~lgnRs~~l~Hlf~~H~lniGlpDniVyvnelLehLkekL~-r~~CLyCe---kifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 143 FSLQCLFCNNEGLGNRSEILEHLFHVHGLNIGLPDNIVYVNELLEHLKEKLE-RLRCLYCE---KIFRDKNTLKEHMRKK 218 (423)
T ss_pred eeeEEEEecchhcccHHHHHHHHHHHhhhccCCCcceeeHHHHHHHHHHHHh-hheeeeec---cccCCcHHHHHHHHhc
Confidence 456899999988 688999999999999999999999999999999999987 47999997 9999999999999999
Q ss_pred CCcccCCCCCChhHHHhhhhhccc
Q 020332 260 RHCKIHFGDGDDEEEAELEEFYDY 283 (327)
Q Consensus 260 ~Hcki~~~~~~~e~~~e~~~fYd~ 283 (327)
+|.+|+... .||++||-.
T Consensus 219 ~HrrinPkn------reYDkfyiI 236 (423)
T KOG2482|consen 219 RHRRINPKN------REYDKFYII 236 (423)
T ss_pred cCcccCCCc------cccceEEEE
Confidence 999999865 699999976
No 7
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.24 E-value=2.3e-12 Score=119.17 Aligned_cols=80 Identities=20% Similarity=0.448 Sum_probs=66.2
Q ss_pred CCccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHH
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKA 81 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~ 81 (327)
..|.|.+|++.|.+...|+.|+|| |..-.++-++|. .|-+- =.|+.|.++||||+||.|..|+|.|..++.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirT--H~l~c~C~iCGK------aFSRP-WLLQGHiRTHTGEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRT--HTLPCECGICGK------AFSRP-WLLQGHIRTHTGEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhc--cCCCcccccccc------cccch-HHhhcccccccCCCCccCCcccchhcchHH
Confidence 468999999999999999999999 755555555553 34432 257889999999999999999999999999
Q ss_pred HHHHHhhhh
Q 020332 82 LAQHLNSRS 90 (327)
Q Consensus 82 l~~Hl~skk 90 (327)
|+.||+++.
T Consensus 231 LRAHmQTHS 239 (279)
T KOG2462|consen 231 LRAHMQTHS 239 (279)
T ss_pred HHHHHHhhc
Confidence 999998643
No 8
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.13 E-value=3.2e-11 Score=124.78 Aligned_cols=55 Identities=22% Similarity=0.490 Sum_probs=48.1
Q ss_pred CCCCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHh
Q 020332 179 EFDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEA 258 (327)
Q Consensus 179 ~~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~ 258 (327)
.-+|.+|.+|-+..+-.+.|.-|.++|.| ++ +|+|..|+ +.|.++.+|+.||..
T Consensus 602 ~TdPNqCiiC~rVlSC~saLqmHyrtHtG--------------------ER---PFkCKiCg---RAFtTkGNLkaH~~v 655 (958)
T KOG1074|consen 602 RTDPNQCIICLRVLSCPSALQMHYRTHTG--------------------ER---PFKCKICG---RAFTTKGNLKAHMSV 655 (958)
T ss_pred cCCccceeeeeecccchhhhhhhhhcccC--------------------cC---cccccccc---chhccccchhhcccc
Confidence 34789999999999999999999998655 54 89999996 999999999999976
Q ss_pred c
Q 020332 259 K 259 (327)
Q Consensus 259 k 259 (327)
+
T Consensus 656 H 656 (958)
T KOG1074|consen 656 H 656 (958)
T ss_pred c
Confidence 4
No 9
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.00 E-value=2.7e-10 Score=108.41 Aligned_cols=172 Identities=17% Similarity=0.249 Sum_probs=113.2
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHH---HHHHHHhhhcCCCCeeecCCcCCcccCh
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQ---AALAQEKNKNATPMTYSCGLCGKGYRSS 79 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~---~~l~~~~~~h~~~~~~~C~~C~K~F~s~ 79 (327)
...|..||.-|.+...|-.|.+... .....|+-|.....+. ..|..|...|. ..|+|+.|..+..+.
T Consensus 207 vvACp~Cg~~F~~~tkl~DH~rRqt--------~l~~n~fqC~~C~KrFaTeklL~~Hv~rHv--n~ykCplCdmtc~~~ 276 (467)
T KOG3608|consen 207 VVACPHCGELFRTKTKLFDHLRRQT--------ELNTNSFQCAQCFKRFATEKLLKSHVVRHV--NCYKCPLCDMTCSSA 276 (467)
T ss_pred EEecchHHHHhccccHHHHHHHhhh--------hhcCCchHHHHHHHHHhHHHHHHHHHHHhh--hcccccccccCCCCh
Confidence 3579999999999999999877521 2233467666433332 35677776653 478999999999999
Q ss_pred HHHHHHHhhhhhhhhhccCCChhhhhhhhccCCCCcCCCCCCCccccCCCCCCCCccccccCCcchhhhhhhcccccccC
Q 020332 80 KALAQHLNSRSHIMRASQGTSNEEKEKVIIKPIPLRDVNKPPRKREANNEESEDSDDEWEEVGPDEVLVSEATNSLTNLN 159 (327)
Q Consensus 80 ~~l~~Hl~skkHk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~e~~e~~~~~~~~~~~~~~~~~~~ 159 (327)
+.|.+||+-+.-+.++-+-. ..+. .-+.+.++.-+- +-.
T Consensus 277 ssL~~H~r~rHs~dkpfKCd---~Cd~--------------------------------~c~~esdL~kH~--~~H---- 315 (467)
T KOG3608|consen 277 SSLTTHIRYRHSKDKPFKCD---ECDT--------------------------------RCVRESDLAKHV--QVH---- 315 (467)
T ss_pred HHHHHHHHhhhccCCCcccc---chhh--------------------------------hhccHHHHHHHH--Hhc----
Confidence 99999998765443111000 0000 000001111000 000
Q ss_pred CCCCCCCCCccCCCCCCCCCCCCCCCCC--CCCCCCChhhhhhhhhhcc-cCCCCCcccccChHHHHHHhhhhccCCccc
Q 020332 160 VGSPADDDLEEDDDDGAFEEFDPACCFM--CDLPHDAIENCMVHMHKCH-GFFIPDVEYLKDPKGLLTYLGLKVKRDFMC 236 (327)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~p~~Clf--C~~~f~s~~~l~~HM~~~H-~f~ip~~~~l~d~~gLl~yl~~ki~~~~~C 236 (327)
.-..|.|.+ |...+.+...+..||..+| |+. -.+|.|
T Consensus 316 -------------------S~~~y~C~h~~C~~s~r~~~q~~~H~~evhEg~n---------------------p~~Y~C 355 (467)
T KOG3608|consen 316 -------------------SKTVYQCEHPDCHYSVRTYTQMRRHFLEVHEGNN---------------------PILYAC 355 (467)
T ss_pred -------------------cccceecCCCCCcHHHHHHHHHHHHHHHhccCCC---------------------CCceee
Confidence 013578888 9999999999999999888 532 126899
Q ss_pred cccCCCCcccCCHHHHHHHHHhcCCcccCCCC
Q 020332 237 LYCNDRCHPFNSLEAVRKHMEAKRHCKIHFGD 268 (327)
Q Consensus 237 l~C~~~gk~F~s~~~l~~HM~~k~Hcki~~~~ 268 (327)
-.|+ |.|.+-.+|-.|++.|.-.+|||+-
T Consensus 356 H~Cd---r~ft~G~~L~~HL~kkH~f~~PsGh 384 (467)
T KOG3608|consen 356 HCCD---RFFTSGKSLSAHLMKKHGFRLPSGH 384 (467)
T ss_pred ecch---hhhccchhHHHHHHHhhcccCCCCC
Confidence 9998 9999999999999988778888864
No 10
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.79 E-value=1.4e-09 Score=96.80 Aligned_cols=81 Identities=23% Similarity=0.441 Sum_probs=65.5
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l 82 (327)
.|+|..|++.|.-...|..|++- | -.+||-++... -.-|+... .|+.|.++|++-+||+|..|+|.|..+-.|
T Consensus 117 ~ftCrvCgK~F~lQRmlnrh~kc--h-~~vkr~lct~c---gkgfndtf-dlkrh~rthtgvrpykc~~c~kaftqrcsl 189 (267)
T KOG3576|consen 117 SFTCRVCGKKFGLQRMLNRHLKC--H-SDVKRHLCTFC---GKGFNDTF-DLKRHTRTHTGVRPYKCSLCEKAFTQRCSL 189 (267)
T ss_pred eeeeehhhhhhhHHHHHHHHhhh--c-cHHHHHHHhhc---cCcccchh-hhhhhhccccCccccchhhhhHHHHhhccH
Confidence 58999999999999999999998 5 35666544321 12455553 478999999999999999999999999999
Q ss_pred HHHHhhhh
Q 020332 83 AQHLNSRS 90 (327)
Q Consensus 83 ~~Hl~skk 90 (327)
..|++.-.
T Consensus 190 eshl~kvh 197 (267)
T KOG3576|consen 190 ESHLKKVH 197 (267)
T ss_pred HHHHHHHc
Confidence 99997543
No 11
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=98.74 E-value=6.8e-09 Score=107.84 Aligned_cols=54 Identities=24% Similarity=0.577 Sum_probs=46.8
Q ss_pred CCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhcCCc
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAKRHC 262 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hc 262 (327)
..|-.|++.|++..+|..||++|-| +| +|.|-.|+ +.|..+..|+.||.. |.
T Consensus 880 h~C~vCgk~FsSSsALqiH~rTHtg--------------------~K---PF~C~fC~---~aFttrgnLKvHMgt--H~ 931 (958)
T KOG1074|consen 880 HVCNVCGKQFSSSAALEIHMRTHTG--------------------PK---PFFCHFCE---EAFTTRGNLKVHMGT--HM 931 (958)
T ss_pred hhhccchhcccchHHHHHhhhcCCC--------------------CC---Cccchhhh---hhhhhhhhhhhhhcc--cc
Confidence 5699999999999999999998554 45 79999996 999999999999993 55
Q ss_pred cc
Q 020332 263 KI 264 (327)
Q Consensus 263 ki 264 (327)
+.
T Consensus 932 w~ 933 (958)
T KOG1074|consen 932 WV 933 (958)
T ss_pred cc
Confidence 44
No 12
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=98.59 E-value=1.5e-08 Score=100.32 Aligned_cols=49 Identities=43% Similarity=0.770 Sum_probs=45.8
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQ 51 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~ 51 (327)
...|.+|+..|.+...|+.||++||||+|+||++.|+|+++.+.|....
T Consensus 66 ~~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~~~~ils~edFe~i~ 114 (591)
T KOG2505|consen 66 SDQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLRGKPILSEEDFEGII 114 (591)
T ss_pred cccccccCCccccHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHhh
Confidence 3579999999999999999999999999999999999999999998653
No 13
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=98.55 E-value=7.7e-08 Score=91.93 Aligned_cols=75 Identities=16% Similarity=0.247 Sum_probs=60.4
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCCCCc-----ccccChHHHHHHhhhhccCCccccc--cCCCCcccCCHHHHHH
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPDV-----EYLKDPKGLLTYLGLKVKRDFMCLY--CNDRCHPFNSLEAVRK 254 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~-----~~l~d~~gLl~yl~~ki~~~~~Cl~--C~~~gk~F~s~~~l~~ 254 (327)
-++|+.|+.+.+..++|..||+..|+-..|.. ..++....|-+|+...-..-|.|.. |. .+|.+...++.
T Consensus 263 ~ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~---~s~r~~~q~~~ 339 (467)
T KOG3608|consen 263 CYKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCH---YSVRTYTQMRR 339 (467)
T ss_pred cccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCc---HHHHHHHHHHH
Confidence 46899999999999999999998898777666 2357888888887544344689987 97 78899999999
Q ss_pred HHHhc
Q 020332 255 HMEAK 259 (327)
Q Consensus 255 HM~~k 259 (327)
||+..
T Consensus 340 H~~ev 344 (467)
T KOG3608|consen 340 HFLEV 344 (467)
T ss_pred HHHHh
Confidence 99964
No 14
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.41 E-value=6.3e-08 Score=99.46 Aligned_cols=55 Identities=22% Similarity=0.395 Sum_probs=48.4
Q ss_pred CCCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhc
Q 020332 180 FDPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 180 ~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k 259 (327)
+.-++|..||+.|.-.-.|.+|.++|-| +| +|.|..|. |.|+...+.-.||..|
T Consensus 279 lRKFKCtECgKAFKfKHHLKEHlRIHSG--------------------EK---PfeCpnCk---KRFSHSGSySSHmSSK 332 (1007)
T KOG3623|consen 279 LRKFKCTECGKAFKFKHHLKEHLRIHSG--------------------EK---PFECPNCK---KRFSHSGSYSSHMSSK 332 (1007)
T ss_pred hccccccccchhhhhHHHHHhhheeecC--------------------CC---CcCCcccc---cccccCCccccccccc
Confidence 3568999999999999999999998554 66 89999996 9999999999999987
Q ss_pred C
Q 020332 260 R 260 (327)
Q Consensus 260 ~ 260 (327)
.
T Consensus 333 K 333 (1007)
T KOG3623|consen 333 K 333 (1007)
T ss_pred c
Confidence 3
No 15
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=98.36 E-value=1.3e-07 Score=84.36 Aligned_cols=28 Identities=29% Similarity=0.725 Sum_probs=23.8
Q ss_pred CCeeecCCcCCcccChHHHHHHHhhhhh
Q 020332 64 PMTYSCGLCGKGYRSSKALAQHLNSRSH 91 (327)
Q Consensus 64 ~~~~~C~~C~K~F~s~~~l~~Hl~skkH 91 (327)
...|.|.+|+|.|.-+..|.+||+-+..
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~ 142 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSD 142 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccH
Confidence 4579999999999999999999976443
No 16
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=98.36 E-value=2.1e-07 Score=73.24 Aligned_cols=78 Identities=24% Similarity=0.516 Sum_probs=26.2
Q ss_pred cccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHHHH
Q 020332 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKALAQ 84 (327)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l~~ 84 (327)
.|..|+..|.+...+..||+.. |..++... ..+... ..+....+. .....+.|.+|++.|.+..+|..
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~-H~~~~~~~---------~~l~~~-~~~~~~~~~-~~~~~~~C~~C~~~f~s~~~l~~ 68 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKK-HGFDIPDQ---------KYLVDP-NRLLNYLRK-KVKESFRCPYCNKTFRSREALQE 68 (100)
T ss_dssp ------------------------------------------------------------SSEEBSSSS-EESSHHHHHH
T ss_pred Cccccccccccccccccccccc-cccccccc---------cccccc-ccccccccc-ccCCCCCCCccCCCCcCHHHHHH
Confidence 4999999999999999999876 76554210 011111 111111111 12236999999999999999999
Q ss_pred HHhhhhhhhh
Q 020332 85 HLNSRSHIMR 94 (327)
Q Consensus 85 Hl~skkHk~~ 94 (327)
||+++.|..+
T Consensus 69 Hm~~~~H~~~ 78 (100)
T PF12756_consen 69 HMRSKHHKKR 78 (100)
T ss_dssp HHHHTTTTC-
T ss_pred HHcCccCCCc
Confidence 9999999873
No 17
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=98.34 E-value=1.4e-07 Score=96.86 Aligned_cols=74 Identities=22% Similarity=0.448 Sum_probs=64.4
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHH----HHHHHHHHHHHHhhhcCCCCeeecCCcCCcccC
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEA----LFLARQAALAQEKNKNATPMTYSCGLCGKGYRS 78 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~----~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s 78 (327)
.|.|+.|.+.|...+.|-+|--- | .|..|.-|. .|..| --|.+|++.|.|++||.|+-|+|+|..
T Consensus 894 myaCDqCDK~FqKqSSLaRHKYE--H--------sGqRPyqC~iCkKAFKHK-HHLtEHkRLHSGEKPfQCdKClKRFSH 962 (1007)
T KOG3623|consen 894 MYACDQCDKAFQKQSSLARHKYE--H--------SGQRPYQCIICKKAFKHK-HHLTEHKRLHSGEKPFQCDKCLKRFSH 962 (1007)
T ss_pred cchHHHHHHHHHhhHHHHHhhhh--h--------cCCCCcccchhhHhhhhh-hhhhhhhhhccCCCcchhhhhhhhccc
Confidence 59999999999999999888555 5 488888777 46555 368899999999999999999999999
Q ss_pred hHHHHHHHh
Q 020332 79 SKALAQHLN 87 (327)
Q Consensus 79 ~~~l~~Hl~ 87 (327)
.+.|.+||+
T Consensus 963 SGSYSQHMN 971 (1007)
T KOG3623|consen 963 SGSYSQHMN 971 (1007)
T ss_pred ccchHhhhc
Confidence 999999995
No 18
>PHA00733 hypothetical protein
Probab=98.11 E-value=2.5e-06 Score=71.86 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=23.3
Q ss_pred CCCCCCCCCCCChhhhhhhhhhccc
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCHG 207 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H~ 207 (327)
+.|..|++.|.....|..|+.+.|+
T Consensus 100 ~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 100 KVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred ccCCCCCCccCCHHHHHHHHHHhcC
Confidence 5799999999999999999999997
No 19
>PHA02768 hypothetical protein; Provisional
Probab=98.06 E-value=1.1e-06 Score=62.89 Aligned_cols=43 Identities=14% Similarity=0.300 Sum_probs=37.0
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l 82 (327)
+|.|..||+.|...+.|+.||++ |. ++|+|..|+|.|...+.|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~--H~-----------------------------------k~~kc~~C~k~f~~~s~l 47 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK--HN-----------------------------------TNLKLSNCKRISLRTGEY 47 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh--cC-----------------------------------CcccCCcccceeccccee
Confidence 68999999999999999999999 41 377899999999866554
No 20
>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=97.91 E-value=3.2e-06 Score=51.82 Aligned_cols=27 Identities=33% Similarity=0.705 Sum_probs=25.0
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhh
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHI 92 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk 92 (327)
.|.|.+|++.|.+..++.+|+++++|+
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CCCcccCCCCcCCHHHHHHHHccCCCC
Confidence 378999999999999999999999996
No 21
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=97.86 E-value=9e-06 Score=48.62 Aligned_cols=25 Identities=40% Similarity=0.929 Sum_probs=24.0
Q ss_pred eecCCcCCcccChHHHHHHHhhhhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSRSH 91 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~skkH 91 (327)
|.|.+|++.|.+..+|+.|+++++|
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 6899999999999999999999987
No 22
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=97.80 E-value=1.3e-05 Score=48.74 Aligned_cols=25 Identities=24% Similarity=0.647 Sum_probs=22.5
Q ss_pred HHHHhhhcCCCCeeecCCcCCcccC
Q 020332 54 LAQEKNKNATPMTYSCGLCGKGYRS 78 (327)
Q Consensus 54 l~~~~~~h~~~~~~~C~~C~K~F~s 78 (327)
|..|+++|+++++|.|+.|+|+|.+
T Consensus 2 l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 2 LRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHSSSSSEEESSSSEEESS
T ss_pred HHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 6778889999999999999999974
No 23
>PHA00733 hypothetical protein
Probab=97.78 E-value=2.1e-05 Score=66.33 Aligned_cols=80 Identities=14% Similarity=0.170 Sum_probs=54.3
Q ss_pred CCccccccccccCChHHHhcc--ccccccccchhhhhcCCCCccHH----HHHHHHHHHHHHhhhcCCCCeeecCCcCCc
Q 020332 2 PGLTCNSCNREFNDDAEQKLH--YKSDWHRYNLKRKVAGVPGVTEA----LFLARQAALAQEKNKNATPMTYSCGLCGKG 75 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H--~ksdwHryNlKRkva~lppv~~~----~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~ 75 (327)
.++.|..|...|.++..|+.| ++. |. ...+..|+.|+ .|..+ ..|.+|++.| ..+|.|.+|+|.
T Consensus 39 ~~~~~~~~~~~~~~~~~l~~~~~l~~--~~-----~~~~~kPy~C~~Cgk~Fss~-s~L~~H~r~h--~~~~~C~~CgK~ 108 (128)
T PHA00733 39 KRLIRAVVKTLIYNPQLLDESSYLYK--LL-----TSKAVSPYVCPLCLMPFSSS-VSLKQHIRYT--EHSKVCPVCGKE 108 (128)
T ss_pred hhHHHHHHhhhccChhhhcchHHHHh--hc-----ccCCCCCccCCCCCCcCCCH-HHHHHHHhcC--CcCccCCCCCCc
Confidence 357799999999988888877 222 10 11123444444 24433 4567777754 346899999999
Q ss_pred ccChHHHHHHHhhhhh
Q 020332 76 YRSSKALAQHLNSRSH 91 (327)
Q Consensus 76 F~s~~~l~~Hl~skkH 91 (327)
|.....|..|+..+..
T Consensus 109 F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 109 FRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCCHHHHHHHHHHhcC
Confidence 9999999999887543
No 24
>PHA00732 hypothetical protein
Probab=97.73 E-value=1.7e-05 Score=61.38 Aligned_cols=49 Identities=29% Similarity=0.480 Sum_probs=39.9
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l 82 (327)
||.|..|++.|.+...|+.|++.. | .++.|+.|+++|. .+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~-H------------------------------------~~~~C~~CgKsF~---~l 40 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRN-H------------------------------------TLTKCPVCNKSYR---RL 40 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcc-c------------------------------------CCCccCCCCCEeC---Ch
Confidence 689999999999999999999852 3 1347999999998 47
Q ss_pred HHHHhhhhh
Q 020332 83 AQHLNSRSH 91 (327)
Q Consensus 83 ~~Hl~skkH 91 (327)
..|+++|..
T Consensus 41 ~~H~~~~~~ 49 (79)
T PHA00732 41 NQHFYSQYD 49 (79)
T ss_pred hhhhcccCC
Confidence 788876654
No 25
>PHA02768 hypothetical protein; Provisional
Probab=97.62 E-value=2.5e-05 Score=55.99 Aligned_cols=44 Identities=11% Similarity=0.091 Sum_probs=36.8
Q ss_pred CCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHH
Q 020332 181 DPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAV 252 (327)
Q Consensus 181 ~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l 252 (327)
-.+.|..||+.|+..+.|..||++|+ .+++|..|+ |.|...+.|
T Consensus 4 ~~y~C~~CGK~Fs~~~~L~~H~r~H~-------------------------k~~kc~~C~---k~f~~~s~l 47 (55)
T PHA02768 4 LGYECPICGEIYIKRKSMITHLRKHN-------------------------TNLKLSNCK---RISLRTGEY 47 (55)
T ss_pred cccCcchhCCeeccHHHHHHHHHhcC-------------------------CcccCCccc---ceeccccee
Confidence 35789999999999999999999854 168999996 888866554
No 26
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=97.56 E-value=0.00015 Score=71.27 Aligned_cols=87 Identities=26% Similarity=0.482 Sum_probs=57.1
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHH-hhh--cCCCCeeecCCcCCcccCh
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQE-KNK--NATPMTYSCGLCGKGYRSS 79 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~-~~~--h~~~~~~~C~~C~K~F~s~ 79 (327)
.|.|..|++.|+-+..|-.|.| ||.-.=---.++-+|-... -..+ .+.++ .+. ......|.|.+|+|+|+++
T Consensus 295 EYrCPEC~KVFsCPANLASHRR--WHKPR~eaa~a~~~P~k~~-~~~r--ae~~ea~rsg~dss~gi~~C~~C~KkFrRq 369 (500)
T KOG3993|consen 295 EYRCPECDKVFSCPANLASHRR--WHKPRPEAAKAGSPPPKQA-VETR--AEVQEAERSGDDSSSGIFSCHTCGKKFRRQ 369 (500)
T ss_pred eecCCcccccccCchhhhhhhc--ccCCchhhhhcCCCChhhh-hhhh--hhhhhccccCCcccCceeecHHhhhhhHHH
Confidence 4899999999999999999987 7864322222355553221 1111 12222 111 1233479999999999999
Q ss_pred HHHHHHHhhhhhhhh
Q 020332 80 KALAQHLNSRSHIMR 94 (327)
Q Consensus 80 ~~l~~Hl~skkHk~~ 94 (327)
.-|+.|+.++.-...
T Consensus 370 AYLrKHqlthq~~~~ 384 (500)
T KOG3993|consen 370 AYLRKHQLTHQRAPL 384 (500)
T ss_pred HHHHHhHHhhhcccc
Confidence 999999877655443
No 27
>PHA00732 hypothetical protein
Probab=97.52 E-value=7.3e-05 Score=57.81 Aligned_cols=47 Identities=17% Similarity=0.373 Sum_probs=39.1
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhc
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k 259 (327)
|+.|..|++.|.+...|..||+.+|. ++.|..|+ +.|. .+..|++.|
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~-------------------------~~~C~~Cg---KsF~---~l~~H~~~~ 47 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHT-------------------------LTKCPVCN---KSYR---RLNQHFYSQ 47 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccC-------------------------CCccCCCC---CEeC---Chhhhhccc
Confidence 57899999999999999999986553 35899997 8888 467898665
No 28
>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=97.48 E-value=8.6e-05 Score=47.78 Aligned_cols=30 Identities=20% Similarity=0.542 Sum_probs=27.7
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhhhhh
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRA 95 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~ 95 (327)
+|.|++|++.|.+..++.+|+++++|+.+.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~ 32 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChHHHHHHH
Confidence 688999999999999999999999998854
No 29
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.38 E-value=0.0002 Score=73.77 Aligned_cols=50 Identities=20% Similarity=0.264 Sum_probs=34.2
Q ss_pred CCCCCCCCCCCCC----------ChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHH
Q 020332 181 DPACCFMCDLPHD----------AIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLE 250 (327)
Q Consensus 181 ~p~~ClfC~~~f~----------s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~ 250 (327)
.|+.|.||+..+. ..+.+..|+.. +| . ..+.|..|| +.|. +.
T Consensus 503 Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG--------------------~---rt~~C~~Cg---k~Vr-lr 554 (567)
T PLN03086 503 RLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESI-CG--------------------S---RTAPCDSCG---RSVM-LK 554 (567)
T ss_pred CceeCCCCCCccccCccccchhhhhhhHHHHHHh-cC--------------------C---cceEccccC---Ceee-eh
Confidence 4678999999884 13466677664 34 2 367999996 6554 45
Q ss_pred HHHHHHHh
Q 020332 251 AVRKHMEA 258 (327)
Q Consensus 251 ~l~~HM~~ 258 (327)
.+..|+..
T Consensus 555 dm~~H~~~ 562 (567)
T PLN03086 555 EMDIHQIA 562 (567)
T ss_pred hHHHHHHH
Confidence 57788775
No 30
>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=97.24 E-value=8.2e-05 Score=47.90 Aligned_cols=34 Identities=32% Similarity=0.642 Sum_probs=30.8
Q ss_pred CCCccccccccccCChHHHhccccccccccchhh
Q 020332 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKR 34 (327)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKR 34 (327)
+.+|.|..|++.|.+...++.|+++..|+.|+++
T Consensus 1 ~~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred CcCeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 4689999999999999999999999999887765
No 31
>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=97.20 E-value=0.00024 Score=41.43 Aligned_cols=22 Identities=36% Similarity=0.958 Sum_probs=20.9
Q ss_pred eecCCcCCcccChHHHHHHHhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNS 88 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~s 88 (327)
|.|+.|++.|.+...|.+|++.
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 7899999999999999999986
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=96.96 E-value=0.00033 Score=42.74 Aligned_cols=25 Identities=32% Similarity=0.737 Sum_probs=23.7
Q ss_pred ccccccccccCChHHHhcccccccc
Q 020332 4 LTCNSCNREFNDDAEQKLHYKSDWH 28 (327)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ksdwH 28 (327)
|.|..|++.|.+...++.|+++..|
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk~H 26 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSKKH 26 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSHHH
T ss_pred CCcccCCCCcCCHHHHHHHHccCCC
Confidence 7899999999999999999999766
No 33
>PHA00616 hypothetical protein
Probab=96.93 E-value=0.00026 Score=48.51 Aligned_cols=27 Identities=15% Similarity=0.230 Sum_probs=25.4
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccC
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGF 208 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f 208 (327)
|++|+.||+.|...+.+..|+++|||-
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhcCC
Confidence 689999999999999999999999984
No 34
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.80 E-value=0.001 Score=38.42 Aligned_cols=23 Identities=39% Similarity=1.002 Sum_probs=19.2
Q ss_pred eecCCcCCcccChHHHHHHHhhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSR 89 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~sk 89 (327)
|.|++|++.|.+...|..|++..
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 68999999999999999999864
No 35
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.68 E-value=0.0011 Score=40.16 Aligned_cols=24 Identities=38% Similarity=0.750 Sum_probs=22.0
Q ss_pred eeecCCcCCcccChHHHHHHHhhh
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSR 89 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~sk 89 (327)
+|.|..|++.|.+..+|..|++..
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 589999999999999999999764
No 36
>PHA00616 hypothetical protein
Probab=96.65 E-value=0.00026 Score=48.47 Aligned_cols=24 Identities=25% Similarity=0.297 Sum_probs=22.7
Q ss_pred CccccccccccCChHHHhcccccc
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSD 26 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksd 26 (327)
||+|..||+.|.....++.|++++
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~ 24 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSV 24 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHh
Confidence 699999999999999999999985
No 37
>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=96.62 E-value=0.0017 Score=46.31 Aligned_cols=51 Identities=27% Similarity=0.612 Sum_probs=38.9
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l 82 (327)
.|+|+.|++.| +...|..|.... |+. ..+.+.|++|...+. ..|
T Consensus 2 ~f~CP~C~~~~-~~~~L~~H~~~~-H~~--------------------------------~~~~v~CPiC~~~~~--~~l 45 (54)
T PF05605_consen 2 SFTCPYCGKGF-SESSLVEHCEDE-HRS--------------------------------ESKNVVCPICSSRVT--DNL 45 (54)
T ss_pred CcCCCCCCCcc-CHHHHHHHHHhH-CcC--------------------------------CCCCccCCCchhhhh--hHH
Confidence 59999999954 578899998875 531 234689999998655 488
Q ss_pred HHHHhhh
Q 020332 83 AQHLNSR 89 (327)
Q Consensus 83 ~~Hl~sk 89 (327)
..||.+.
T Consensus 46 ~~Hl~~~ 52 (54)
T PF05605_consen 46 IRHLNSQ 52 (54)
T ss_pred HHHHHHh
Confidence 9999764
No 38
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=96.59 E-value=0.00064 Score=66.85 Aligned_cols=27 Identities=11% Similarity=0.070 Sum_probs=24.2
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccC
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGF 208 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f 208 (327)
.+.|..|++.|....-|.+|...||--
T Consensus 356 i~~C~~C~KkFrRqAYLrKHqlthq~~ 382 (500)
T KOG3993|consen 356 IFSCHTCGKKFRRQAYLRKHQLTHQRA 382 (500)
T ss_pred eeecHHhhhhhHHHHHHHHhHHhhhcc
Confidence 678999999999999999998888753
No 39
>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=96.56 E-value=0.00089 Score=40.54 Aligned_cols=24 Identities=21% Similarity=0.580 Sum_probs=22.6
Q ss_pred CccccccccccCChHHHhcccccc
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSD 26 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksd 26 (327)
||.|..|++.|.+...|..|++.+
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 689999999999999999999984
No 40
>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=96.46 E-value=0.00092 Score=38.66 Aligned_cols=24 Identities=21% Similarity=0.364 Sum_probs=20.2
Q ss_pred CCCCCCCCCCCChhhhhhhhhhcc
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCH 206 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H 206 (327)
+.|.+|+..|.+...+..||..+|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 469999999999999999999876
No 41
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=96.46 E-value=0.00074 Score=40.14 Aligned_cols=24 Identities=25% Similarity=0.675 Sum_probs=22.0
Q ss_pred ccccccccccCChHHHhccccccc
Q 020332 4 LTCNSCNREFNDDAEQKLHYKSDW 27 (327)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ksdw 27 (327)
|.|..|++.|.+...++.|+++..
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~~ 24 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSKK 24 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTHH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcCC
Confidence 689999999999999999999843
No 42
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=96.31 E-value=0.00086 Score=63.85 Aligned_cols=69 Identities=25% Similarity=0.506 Sum_probs=50.3
Q ss_pred CCccccc--cccccCChHHHhccccccccccchhhhhcCC-CCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccC
Q 020332 2 PGLTCNS--CNREFNDDAEQKLHYKSDWHRYNLKRKVAGV-PGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRS 78 (327)
Q Consensus 2 ~~f~C~~--C~~~F~~~~~lr~H~ksdwHryNlKRkva~l-ppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s 78 (327)
.||+|.+ |.+.+.+...|+.|+.-- |. |-| ...- .|+.-..|.. ..+||+|++|+|+|+.
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhG-H~-~~~--~~~~p~p~~~~~F~~-------------~~KPYrCevC~KRYKN 410 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHG-HQ-NQK--LHENPSPEKMNIFSA-------------KDKPYRCEVCDKRYKN 410 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhcc-cc-Ccc--cCCCCCccccccccc-------------cCCceeccccchhhcc
Confidence 5899975 999999999999999864 31 111 1111 2444445643 3589999999999999
Q ss_pred hHHHHHHHh
Q 020332 79 SKALAQHLN 87 (327)
Q Consensus 79 ~~~l~~Hl~ 87 (327)
.+.|+-|..
T Consensus 411 lNGLKYHr~ 419 (423)
T COG5189 411 LNGLKYHRK 419 (423)
T ss_pred Cccceeccc
Confidence 999988863
No 43
>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=96.21 E-value=0.0025 Score=37.05 Aligned_cols=22 Identities=27% Similarity=0.762 Sum_probs=20.3
Q ss_pred ccccccCCCCcccCCHHHHHHHHHh
Q 020332 234 FMCLYCNDRCHPFNSLEAVRKHMEA 258 (327)
Q Consensus 234 ~~Cl~C~~~gk~F~s~~~l~~HM~~ 258 (327)
|+|..|+ +.|.+...|+.||+.
T Consensus 1 y~C~~C~---~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 1 YKCPICG---KSFSSKSNLKRHMRR 22 (23)
T ss_dssp EEETTTT---EEESSHHHHHHHHHH
T ss_pred CCCCCCC---CccCCHHHHHHHHhH
Confidence 5799997 999999999999985
No 44
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=95.96 E-value=0.0024 Score=52.75 Aligned_cols=84 Identities=24% Similarity=0.292 Sum_probs=52.5
Q ss_pred ChHHHhccccccccccchhhhhcC--CCCccHHHHHHHHHHHHHHhhh-cCCCCeeecCCcCCcccChHHHHHHHhhhhh
Q 020332 15 DDAEQKLHYKSDWHRYNLKRKVAG--VPGVTEALFLARQAALAQEKNK-NATPMTYSCGLCGKGYRSSKALAQHLNSRSH 91 (327)
Q Consensus 15 ~~~~lr~H~ksdwHryNlKRkva~--lppv~~~~F~~k~~~l~~~~~~-h~~~~~~~C~~C~K~F~s~~~l~~Hl~skkH 91 (327)
..+.-+.|.+++-||-|.-|.-+. |..|..+.=..+...|.+.... --|--.|.|..|.+-|.+..+|+.|.++|.|
T Consensus 3 ~~s~r~k~~~~~~hr~~r~r~~~r~dLDqi~~dl~~~~~kll~~~~D~dlPG~GqfyCi~CaRyFi~~~~l~~H~ktK~H 82 (129)
T KOG3408|consen 3 MVSVRRKHHRSNRHRINRTRGRARKDLDQIDEDLETQKGKLLNQEIDPDLPGGGQFYCIECARYFIDAKALKTHFKTKVH 82 (129)
T ss_pred ccccccccccchhHHHHhhhccCcccccccccccccccchhhcCcCCCCCCCCceeehhhhhhhhcchHHHHHHHhccHH
Confidence 445566788888888776655544 3333332111111111111100 0134579999999999999999999999999
Q ss_pred hhhhccC
Q 020332 92 IMRASQG 98 (327)
Q Consensus 92 k~~~~~~ 98 (327)
|.|+++.
T Consensus 83 KrRvK~l 89 (129)
T KOG3408|consen 83 KRRVKEL 89 (129)
T ss_pred HHHHHhc
Confidence 9986643
No 45
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=95.88 E-value=0.004 Score=62.15 Aligned_cols=30 Identities=33% Similarity=0.628 Sum_probs=27.9
Q ss_pred eecCCcCCcccChHHHHHHHhhhhhhhhhc
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
+.|.+|+|+|++.+++++|..||+|+.+.+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~ 322 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVA 322 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHH
Confidence 889999999999999999999999998643
No 46
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.78 E-value=0.011 Score=65.36 Aligned_cols=82 Identities=22% Similarity=0.306 Sum_probs=60.1
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHH
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKAL 82 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l 82 (327)
.|.|..|+..|.....|-.|||+.+|-.+..+-.++.+-. .+++-...-.+-.+|.|..|.-++.+...|
T Consensus 465 t~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~----------~~arg~~~~~~~~p~~C~~C~~stttng~L 534 (1406)
T KOG1146|consen 465 TLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHP----------RLARGEVYRCPGKPYPCRACNYSTTTNGNL 534 (1406)
T ss_pred cccCCccchhhhhHHHhhhcccccccccchhHhHhccccc----------cccccccccCCCCcccceeeeeeeecchHH
Confidence 5899999999999999999999987766653333332210 011101111245789999999999999999
Q ss_pred HHHHhhhhhhhh
Q 020332 83 AQHLNSRSHIMR 94 (327)
Q Consensus 83 ~~Hl~skkHk~~ 94 (327)
..||.+-+|+.+
T Consensus 535 sihlqS~~h~~~ 546 (1406)
T KOG1146|consen 535 SIHLQSDLHRNE 546 (1406)
T ss_pred HHHHHHHhhHHH
Confidence 999999999874
No 47
>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=95.77 E-value=0.012 Score=41.95 Aligned_cols=51 Identities=14% Similarity=0.346 Sum_probs=38.1
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHHhc
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~~k 259 (327)
.+.|+||++ .-+...|..|....|.. +. ..+.|..|. ..+. ..|..||...
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~-------------------~~--~~v~CPiC~---~~~~--~~l~~Hl~~~ 52 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRS-------------------ES--KNVVCPICS---SRVT--DNLIRHLNSQ 52 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcC-------------------CC--CCccCCCch---hhhh--hHHHHHHHHh
Confidence 468999999 56789999998888852 11 247999996 4333 4899999853
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.43 E-value=0.011 Score=34.35 Aligned_cols=21 Identities=43% Similarity=0.947 Sum_probs=19.8
Q ss_pred eecCCcCCcccChHHHHHHHh
Q 020332 67 YSCGLCGKGYRSSKALAQHLN 87 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~ 87 (327)
|.|..|++.|.+...|..|++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 579999999999999999998
No 49
>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=95.43 E-value=0.008 Score=36.38 Aligned_cols=26 Identities=35% Similarity=0.727 Sum_probs=19.9
Q ss_pred hhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCC
Q 020332 197 NCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNS 248 (327)
Q Consensus 197 ~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s 248 (327)
+|..||++|.| ++ +|.|..|+ +.|.+
T Consensus 1 ~l~~H~~~H~~--------------------~k---~~~C~~C~---k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTG--------------------EK---PYKCPYCG---KSFSN 26 (26)
T ss_dssp HHHHHHHHHSS--------------------SS---SEEESSSS---EEESS
T ss_pred CHHHHhhhcCC--------------------CC---CCCCCCCc---CeeCc
Confidence 46789987554 44 89999997 88864
No 50
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=94.66 E-value=0.01 Score=34.94 Aligned_cols=24 Identities=21% Similarity=0.365 Sum_probs=19.4
Q ss_pred CCCCCCCCCCCChhhhhhhhhhccc
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCHG 207 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H~ 207 (327)
++|.+|+.... ...+.+||..+|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHHS
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhCc
Confidence 47999999998 8899999999885
No 51
>PLN03086 PRLI-interacting factor K; Provisional
Probab=93.18 E-value=0.18 Score=52.34 Aligned_cols=73 Identities=14% Similarity=0.225 Sum_probs=50.0
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhc-cCCccccccCCCCcccC----------CHH
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKV-KRDFMCLYCNDRCHPFN----------SLE 250 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki-~~~~~Cl~C~~~gk~F~----------s~~ 250 (327)
...|.+|+..|. ...+..||..+|.-+.+..........|..|+...- ..++.|.+|+ +.|. ...
T Consensus 453 H~~C~~Cgk~f~-~s~LekH~~~~Hkpv~CpCg~~~~R~~L~~H~~thCp~Kpi~C~fC~---~~v~~g~~~~d~~d~~s 528 (567)
T PLN03086 453 HVHCEKCGQAFQ-QGEMEKHMKVFHEPLQCPCGVVLEKEQMVQHQASTCPLRLITCRFCG---DMVQAGGSAMDVRDRLR 528 (567)
T ss_pred CccCCCCCCccc-hHHHHHHHHhcCCCccCCCCCCcchhHHHhhhhccCCCCceeCCCCC---CccccCccccchhhhhh
Confidence 457999999996 678899999888544443323446677777764221 2478999997 6663 245
Q ss_pred HHHHHHHh
Q 020332 251 AVRKHMEA 258 (327)
Q Consensus 251 ~l~~HM~~ 258 (327)
.|..|+..
T Consensus 529 ~Lt~HE~~ 536 (567)
T PLN03086 529 GMSEHESI 536 (567)
T ss_pred hHHHHHHh
Confidence 78888875
No 52
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=92.66 E-value=0.097 Score=51.28 Aligned_cols=80 Identities=18% Similarity=0.393 Sum_probs=53.3
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcC---CcccCh
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCG---KGYRSS 79 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~---K~F~s~ 79 (327)
|--|..|+..|.+-..-..||..+ |-+= +|-+ ++..-..-|..=... .....|.|..|+ +.|.+.
T Consensus 166 Pt~CLfC~~~~k~~e~~~~HM~~~-Hgff-------IPdr---eYL~D~~GLl~YLge-KV~~~~~CL~CN~~~~~f~sl 233 (390)
T KOG2785|consen 166 PTDCLFCDKKSKSLEENLKHMFKE-HGFF-------IPDR---EYLTDEKGLLKYLGE-KVGIGFICLFCNELGRPFSSL 233 (390)
T ss_pred CcceeecCCCcccHHHHHHHHhhc-cCCc-------CCch---HhhhchhHHHHHHHH-HhccCceEEEeccccCccccc
Confidence 457999999999999999999987 5322 2211 111111111000000 022568899998 999999
Q ss_pred HHHHHHHhhhhhhhh
Q 020332 80 KALAQHLNSRSHIMR 94 (327)
Q Consensus 80 ~~l~~Hl~skkHk~~ 94 (327)
.+.+.||..|.|-+.
T Consensus 234 eavr~HM~~K~HCkl 248 (390)
T KOG2785|consen 234 EAVRAHMRDKGHCKL 248 (390)
T ss_pred HHHHHHHhhccCccc
Confidence 999999999999763
No 53
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=92.64 E-value=0.23 Score=40.23 Aligned_cols=28 Identities=25% Similarity=0.399 Sum_probs=25.5
Q ss_pred CCCCCC----CCCCCCCCChhhhhhhhhhccc
Q 020332 180 FDPACC----FMCDLPHDAIENCMVHMHKCHG 207 (327)
Q Consensus 180 ~~p~~C----lfC~~~f~s~~~l~~HM~~~H~ 207 (327)
.+.+.| ..|++...+...+..|++.+||
T Consensus 78 ~~G~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 78 YDGYRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred CCCeeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 356889 9999999999999999999996
No 54
>smart00355 ZnF_C2H2 zinc finger.
Probab=92.36 E-value=0.13 Score=29.61 Aligned_cols=22 Identities=32% Similarity=0.729 Sum_probs=19.8
Q ss_pred ccccccCCCCcccCCHHHHHHHHHh
Q 020332 234 FMCLYCNDRCHPFNSLEAVRKHMEA 258 (327)
Q Consensus 234 ~~Cl~C~~~gk~F~s~~~l~~HM~~ 258 (327)
+.|..|+ +.|.+...|+.||+.
T Consensus 1 ~~C~~C~---~~f~~~~~l~~H~~~ 22 (26)
T smart00355 1 YRCPECG---KVFKSKSALKEHMRT 22 (26)
T ss_pred CCCCCCc---chhCCHHHHHHHHHH
Confidence 5799997 999999999999983
No 55
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=92.26 E-value=0.047 Score=45.26 Aligned_cols=36 Identities=33% Similarity=0.563 Sum_probs=31.7
Q ss_pred CCccccccccccCChHHHhccccccccccchhhhhcCCCC
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPG 41 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lpp 41 (327)
..|.|..|.+-|.+...|+.|+|+..| |||+..|.+
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ktK~H----KrRvK~l~~ 91 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKTKVH----KRRVKELRE 91 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhccHH----HHHHHhccc
Confidence 458999999999999999999999988 788877753
No 56
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.48 E-value=0.19 Score=52.92 Aligned_cols=72 Identities=21% Similarity=0.357 Sum_probs=54.4
Q ss_pred CCCCCCCCCCCChhhhhhhhhhcccCCCCCc-----c------cccChHHHHHHhh-----hhccCC-ccccccCCCCcc
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCHGFFIPDV-----E------YLKDPKGLLTYLG-----LKVKRD-FMCLYCNDRCHP 245 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~-----~------~l~d~~gLl~yl~-----~ki~~~-~~Cl~C~~~gk~ 245 (327)
..|++| ..|.++..|..||...|.++.+.. + .++....|+.|+. ++...+ ..|.+|. ..
T Consensus 116 ~~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~---~~ 191 (669)
T KOG2231|consen 116 KECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCH---ER 191 (669)
T ss_pred CCCccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhh---hh
Confidence 468888 788899999999988898887554 1 2467778888863 222223 5899997 78
Q ss_pred cCCHHHHHHHHHh
Q 020332 246 FNSLEAVRKHMEA 258 (327)
Q Consensus 246 F~s~~~l~~HM~~ 258 (327)
|-....|+.||+-
T Consensus 192 fld~~el~rH~~~ 204 (669)
T KOG2231|consen 192 FLDDDELYRHLRF 204 (669)
T ss_pred hccHHHHHHhhcc
Confidence 8889999999984
No 57
>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=91.46 E-value=0.081 Score=37.39 Aligned_cols=28 Identities=25% Similarity=0.305 Sum_probs=21.2
Q ss_pred CCCCCCCCCCCCCCChhhhhhhhhhccc
Q 020332 180 FDPACCFMCDLPHDAIENCMVHMHKCHG 207 (327)
Q Consensus 180 ~~p~~ClfC~~~f~s~~~l~~HM~~~H~ 207 (327)
..|..|+.|+..+.+..+|..||...|+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle~~H~ 49 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLEIRHF 49 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHHHHTT
T ss_pred CCCCCCCcchhhccchhhHHHHHHHHhc
Confidence 3578999999999999999999999886
No 58
>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=90.24 E-value=0.28 Score=34.69 Aligned_cols=31 Identities=29% Similarity=0.553 Sum_probs=21.8
Q ss_pred CCCCeeecCCcCCcccChHHHHHHHhhhhhh
Q 020332 62 ATPMTYSCGLCGKGYRSSKALAQHLNSRSHI 92 (327)
Q Consensus 62 ~~~~~~~C~~C~K~F~s~~~l~~Hl~skkHk 92 (327)
....+-.|++|+..+.+...|++||.....+
T Consensus 20 ~S~~PatCP~C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 20 QSEQPATCPICGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp TTS--EE-TTT--EESSHHHHHHHHHHHTTT
T ss_pred ccCCCCCCCcchhhccchhhHHHHHHHHhcc
Confidence 3567889999999999999999999876543
No 59
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=89.30 E-value=0.29 Score=29.34 Aligned_cols=21 Identities=24% Similarity=0.725 Sum_probs=17.1
Q ss_pred eecCCcCCcccChHHHHHHHhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNS 88 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~s 88 (327)
..|+.||++| ....|..|++.
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 3699999999 66788899753
No 60
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=88.75 E-value=0.42 Score=27.83 Aligned_cols=22 Identities=27% Similarity=0.610 Sum_probs=17.2
Q ss_pred eecCCcCCcccChHHHHHHHhhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSR 89 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~sk 89 (327)
|.|+.|....+ ...|.+|++.+
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 88999999764
No 61
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.71 E-value=0.18 Score=45.66 Aligned_cols=63 Identities=25% Similarity=0.546 Sum_probs=47.9
Q ss_pred cccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeec--CCcCCcccChHHH
Q 020332 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSC--GLCGKGYRSSKAL 82 (327)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C--~~C~K~F~s~~~l 82 (327)
.|..|.+.|++..+|-.|+- +||- ..|..+++ -|..-|.| +-|+-.|++..+-
T Consensus 108 sCs~C~r~~Pt~hLLd~HI~-E~HD---------------s~Fqa~ve---------RG~dMy~ClvEgCt~KFkT~r~R 162 (253)
T KOG4173|consen 108 SCSFCKRAFPTGHLLDAHIL-EWHD---------------SLFQALVE---------RGQDMYQCLVEGCTEKFKTSRDR 162 (253)
T ss_pred hhHHHHHhCCchhhhhHHHH-HHHH---------------HHHHHHHH---------cCccHHHHHHHhhhhhhhhhhhh
Confidence 79999999999999999975 6881 13444432 14557888 6799999999999
Q ss_pred HHHHhhhhhhh
Q 020332 83 AQHLNSRSHIM 93 (327)
Q Consensus 83 ~~Hl~skkHk~ 93 (327)
+.||.. +||.
T Consensus 163 kdH~I~-~Hk~ 172 (253)
T KOG4173|consen 163 KDHMIR-MHKY 172 (253)
T ss_pred hhHHHH-hccC
Confidence 999965 5554
No 62
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.18 E-value=0.47 Score=46.16 Aligned_cols=73 Identities=19% Similarity=0.370 Sum_probs=57.0
Q ss_pred CCCCCCCCCCChhhhhhhhhhcc-cCCCCCc------ccccChHHHHHHhhhhccCCcccc--cc-CCCCcccCCHHHHH
Q 020332 184 CCFMCDLPHDAIENCMVHMHKCH-GFFIPDV------EYLKDPKGLLTYLGLKVKRDFMCL--YC-NDRCHPFNSLEAVR 253 (327)
Q Consensus 184 ~ClfC~~~f~s~~~l~~HM~~~H-~f~ip~~------~~l~d~~gLl~yl~~ki~~~~~Cl--~C-~~~gk~F~s~~~l~ 253 (327)
.|.||...|=+-.+|..||+..| .-+|++. +|+.+...|-.|...- .|.|. .| ..+..+|...-.|+
T Consensus 222 ~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~---hy~ct~qtc~~~k~~vf~~~~el~ 298 (493)
T COG5236 222 LCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNA---HYCCTFQTCRVGKCYVFPYHTELL 298 (493)
T ss_pred hhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcC---ceEEEEEEEecCcEEEeccHHHHH
Confidence 79999999999999999999988 4566555 7899999999887433 46663 35 22236899999999
Q ss_pred HHHHhc
Q 020332 254 KHMEAK 259 (327)
Q Consensus 254 ~HM~~k 259 (327)
.|+..-
T Consensus 299 ~h~~~~ 304 (493)
T COG5236 299 EHLTRF 304 (493)
T ss_pred HHHHHH
Confidence 998753
No 63
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=88.18 E-value=0.53 Score=45.85 Aligned_cols=36 Identities=25% Similarity=0.435 Sum_probs=31.3
Q ss_pred CCccccccccccCChHHHhccccccccccchhhhhc
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVA 37 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva 37 (327)
+.+.|..|++-|.....+..|.....|..|-+++..
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~ 272 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEE 272 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhH
Confidence 467899999999999999999999999888766644
No 64
>PLN02748 tRNA dimethylallyltransferase
Probab=87.62 E-value=0.29 Score=49.85 Aligned_cols=32 Identities=31% Similarity=0.598 Sum_probs=28.8
Q ss_pred CeeecCCcCC-cccChHHHHHHHhhhhhhhhhc
Q 020332 65 MTYSCGLCGK-GYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 65 ~~~~C~~C~K-~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
+.|.|++|++ .+........|+++++|+.+.+
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~ 449 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQ 449 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchHHHHHHh
Confidence 5689999997 7999999999999999998644
No 65
>PF12013 DUF3505: Protein of unknown function (DUF3505); InterPro: IPR022698 This family of proteins is functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 247 to 1018 amino acids in length. This region contains two segments that are likely to be C2H2 zinc binding domains.
Probab=87.44 E-value=0.41 Score=38.80 Aligned_cols=76 Identities=22% Similarity=0.387 Sum_probs=46.9
Q ss_pred CCCCCCCCCCCCCCChhhhhhhhhhcccCCCCC-c----ccccChHHHHHH-------------h-hhhccCCccc----
Q 020332 180 FDPACCFMCDLPHDAIENCMVHMHKCHGFFIPD-V----EYLKDPKGLLTY-------------L-GLKVKRDFMC---- 236 (327)
Q Consensus 180 ~~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~-~----~~l~d~~gLl~y-------------l-~~ki~~~~~C---- 236 (327)
.....|..|...... +++..|++..|.-.... . +.+....+|+.. + +..+..++.|
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~~~~~~p~~~~~Pi~gLp~~~G~~C~~~~ 87 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDPDDLQIPPDPSPPIPGLPVYDGYRCQCDP 87 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCccccCCCCCCCCcCCCCCCCCCeeeecCC
Confidence 345679999988765 88999999666422111 0 000001111000 0 1233468999
Q ss_pred cccCCCCcccCCHHHHHHHHHhc
Q 020332 237 LYCNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 237 l~C~~~gk~F~s~~~l~~HM~~k 259 (327)
..|+ ....+...++.|++.+
T Consensus 88 ~~C~---y~~~~~~~m~~H~~~~ 107 (109)
T PF12013_consen 88 PHCG---YITRSKKTMRKHWRKE 107 (109)
T ss_pred CCCC---cEeccHHHHHHHHHHh
Confidence 9997 7889999999999975
No 66
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=87.31 E-value=0.3 Score=29.29 Aligned_cols=22 Identities=27% Similarity=0.530 Sum_probs=18.4
Q ss_pred CccccccccccCChHHHhccccc
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKS 25 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ks 25 (327)
...|..||+.| .++.+..|++.
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHHHh
Confidence 46899999999 78888888764
No 67
>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=87.14 E-value=0.44 Score=31.56 Aligned_cols=30 Identities=27% Similarity=0.371 Sum_probs=17.4
Q ss_pred eeecCCcCCcc--cChHHHHHHHhhhhhhhhh
Q 020332 66 TYSCGLCGKGY--RSSKALAQHLNSRSHIMRA 95 (327)
Q Consensus 66 ~~~C~~C~K~F--~s~~~l~~Hl~skkHk~~~ 95 (327)
.|.|+.|++-| .+...-++|.+..+|+.+.
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv 34 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHERGWKHKENV 34 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT--THHHHHH
T ss_pred CeecccccceecCCChHHHHHhhccHHHHHHH
Confidence 58899999999 3345669999999999853
No 68
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.44 E-value=0.26 Score=47.92 Aligned_cols=76 Identities=22% Similarity=0.392 Sum_probs=56.1
Q ss_pred CCC--CCCCCCCCChhhhhhhhhhcccCCCCCcc-----------cccChHHHHHHh--hhh---ccCCccccccCCCCc
Q 020332 183 ACC--FMCDLPHDAIENCMVHMHKCHGFFIPDVE-----------YLKDPKGLLTYL--GLK---VKRDFMCLYCNDRCH 244 (327)
Q Consensus 183 ~~C--lfC~~~f~s~~~l~~HM~~~H~f~ip~~~-----------~l~d~~gLl~yl--~~k---i~~~~~Cl~C~~~gk 244 (327)
+.| .-|..+...+..|..|.+..|+++|++.. .|....+|.+|- |.. .....+|.+|+ +
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~---~ 228 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQHGFVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLCIFCK---I 228 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhcCcEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchhhhcc---c
Confidence 445 34677778899999999999999997761 245667777763 111 11234899998 8
Q ss_pred ccCCHHHHHHHHHhcCCc
Q 020332 245 PFNSLEAVRKHMEAKRHC 262 (327)
Q Consensus 245 ~F~s~~~l~~HM~~k~Hc 262 (327)
.|-+-..|..|||.+ |-
T Consensus 229 ~FYdDDEL~~HcR~~-HE 245 (493)
T COG5236 229 YFYDDDELRRHCRLR-HE 245 (493)
T ss_pred eecChHHHHHHHHhh-hh
Confidence 999999999999986 54
No 69
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=84.89 E-value=1.6 Score=44.11 Aligned_cols=29 Identities=34% Similarity=0.626 Sum_probs=27.0
Q ss_pred ccccccccccCChHHHhccccccccccch
Q 020332 4 LTCNSCNREFNDDAEQKLHYKSDWHRYNL 32 (327)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ksdwHryNl 32 (327)
+.|.+|+++|.+...++.|..|.-|+-|+
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv 321 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENV 321 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHH
Confidence 78999999999999999999999998775
No 70
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.86 E-value=1 Score=47.59 Aligned_cols=69 Identities=20% Similarity=0.342 Sum_probs=50.9
Q ss_pred CCCCCCCCCCChhhhhhhhhhcccCCC-CC-c----ccccChHHHHHHhhhhccCCcccc--ccCCCCcccCCHHHHHHH
Q 020332 184 CCFMCDLPHDAIENCMVHMHKCHGFFI-PD-V----EYLKDPKGLLTYLGLKVKRDFMCL--YCNDRCHPFNSLEAVRKH 255 (327)
Q Consensus 184 ~ClfC~~~f~s~~~l~~HM~~~H~f~i-p~-~----~~l~d~~gLl~yl~~ki~~~~~Cl--~C~~~gk~F~s~~~l~~H 255 (327)
.|.||...|-...++..||+..|-|-+ ++ . +|.-+..+|-.|.++. .|.|- .|. ++.|...-.+..|
T Consensus 184 ~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~---HflCE~~~C~--~~~f~~~~~~ei~ 258 (669)
T KOG2231|consen 184 LCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKG---HFLCEEEFCR--TKKFYVAFELEIE 258 (669)
T ss_pred cchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhc---Cccccccccc--cceeeehhHHHHH
Confidence 699999999999999999998885432 32 1 4566788888887766 57897 886 4666666555555
Q ss_pred HH
Q 020332 256 ME 257 (327)
Q Consensus 256 M~ 257 (327)
|+
T Consensus 259 lk 260 (669)
T KOG2231|consen 259 LK 260 (669)
T ss_pred HH
Confidence 55
No 71
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=84.30 E-value=0.41 Score=38.86 Aligned_cols=34 Identities=26% Similarity=0.373 Sum_probs=30.5
Q ss_pred CCeeecCCcCCcccChHHHHHHHhhhhhhhhhcc
Q 020332 64 PMTYSCGLCGKGYRSSKALAQHLNSRSHIMRASQ 97 (327)
Q Consensus 64 ~~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~~ 97 (327)
--.+.|..|.+-|-+..+|..|.+++-|+.|+.+
T Consensus 53 lGqhYCieCaryf~t~~aL~~HkkgkvHkRR~Ke 86 (126)
T COG5112 53 LGQHYCIECARYFITEKALMEHKKGKVHKRRAKE 86 (126)
T ss_pred CceeeeehhHHHHHHHHHHHHHhccchhHHHHHH
Confidence 3468999999999999999999999999997664
No 72
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=83.53 E-value=0.28 Score=45.38 Aligned_cols=43 Identities=35% Similarity=0.609 Sum_probs=33.9
Q ss_pred cccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChHHHHH
Q 020332 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSKALAQ 84 (327)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~~l~~ 84 (327)
-|..|++.|.+...|..|.|. +-|+|.+|-|...+--.|.-
T Consensus 12 wcwycnrefddekiliqhqka---------------------------------------khfkchichkkl~sgpglsi 52 (341)
T KOG2893|consen 12 WCWYCNREFDDEKILIQHQKA---------------------------------------KHFKCHICHKKLFSGPGLSI 52 (341)
T ss_pred eeeecccccchhhhhhhhhhh---------------------------------------ccceeeeehhhhccCCCcee
Confidence 488999999888888887765 34789999888777777777
Q ss_pred HH
Q 020332 85 HL 86 (327)
Q Consensus 85 Hl 86 (327)
|.
T Consensus 53 hc 54 (341)
T KOG2893|consen 53 HC 54 (341)
T ss_pred eh
Confidence 74
No 73
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=82.37 E-value=0.36 Score=46.43 Aligned_cols=66 Identities=20% Similarity=0.388 Sum_probs=45.6
Q ss_pred CCCCC--CCCCCCCCChhhhhhhhhhcccCCC----CCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHH
Q 020332 181 DPACC--FMCDLPHDAIENCMVHMHKCHGFFI----PDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRK 254 (327)
Q Consensus 181 ~p~~C--lfC~~~f~s~~~l~~HM~~~H~f~i----p~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~ 254 (327)
.||+| .-|++.+.+..-|.-||..-|-.-+ |.++. .-.|.. + ..+|+|..|+ |.++++..|+-
T Consensus 348 KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~------~~~F~~-~-~KPYrCevC~---KRYKNlNGLKY 416 (423)
T COG5189 348 KPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEK------MNIFSA-K-DKPYRCEVCD---KRYKNLNGLKY 416 (423)
T ss_pred ceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccc------cccccc-c-CCceeccccc---hhhccCcccee
Confidence 78999 5699999999999999963331111 22211 111111 1 2499999997 99999999998
Q ss_pred HHH
Q 020332 255 HME 257 (327)
Q Consensus 255 HM~ 257 (327)
|..
T Consensus 417 Hr~ 419 (423)
T COG5189 417 HRK 419 (423)
T ss_pred ccc
Confidence 864
No 74
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=81.00 E-value=1.5 Score=31.50 Aligned_cols=30 Identities=23% Similarity=0.575 Sum_probs=24.1
Q ss_pred ChHHHHHHhhhhccCCccccccCCCCcccCCHHHHH
Q 020332 218 DPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVR 253 (327)
Q Consensus 218 d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~ 253 (327)
.+..|+.||+.+ .+-|.||+ ..|.+...|.
T Consensus 15 ~L~~l~~YLR~~---~~YC~~Cg---~~Y~d~~dL~ 44 (55)
T PF13821_consen 15 RLDKLLSYLREE---HNYCFWCG---TKYDDEEDLE 44 (55)
T ss_pred HHHHHHHHHHhh---CceeeeeC---CccCCHHHHH
Confidence 356788899877 47899996 8899988775
No 75
>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=80.87 E-value=0.61 Score=30.89 Aligned_cols=34 Identities=32% Similarity=0.579 Sum_probs=17.7
Q ss_pred CCCcccccccccc-CC-hHHHhccccccccccchhh
Q 020332 1 MPGLTCNSCNREF-ND-DAEQKLHYKSDWHRYNLKR 34 (327)
Q Consensus 1 ~~~f~C~~C~~~F-~~-~~~lr~H~ksdwHryNlKR 34 (327)
|+.|-|..|++.| .+ +..-+.|-+.--|+-|.++
T Consensus 1 m~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 1 MPRYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp --S-B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred CcCeecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence 7889999999999 34 4666999888767766654
No 76
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=80.45 E-value=0.91 Score=32.74 Aligned_cols=27 Identities=26% Similarity=0.488 Sum_probs=24.3
Q ss_pred CCCCeeecCCcCCcccChHHHHHHHhh
Q 020332 62 ATPMTYSCGLCGKGYRSSKALAQHLNS 88 (327)
Q Consensus 62 ~~~~~~~C~~C~K~F~s~~~l~~Hl~s 88 (327)
.++..+.|+-|++-|+.+..|.+|.+.
T Consensus 13 DGE~~lrCPRC~~~FR~~K~Y~RHVNK 39 (65)
T COG4049 13 DGEEFLRCPRCGMVFRRRKDYIRHVNK 39 (65)
T ss_pred CCceeeeCCchhHHHHHhHHHHHHhhH
Confidence 477889999999999999999999864
No 77
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=80.38 E-value=0.63 Score=52.21 Aligned_cols=29 Identities=28% Similarity=0.472 Sum_probs=26.2
Q ss_pred eecCCcCCcccChHHHHHHHhhhhhhhhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSRSHIMRA 95 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~skkHk~~~ 95 (327)
|.|.+|...|..+.+|+.||++-.|+.++
T Consensus 1329 ~~c~~c~~~~~~~~alqihm~~~~~~~kt 1357 (1406)
T KOG1146|consen 1329 YHCLACEVLLSGREALQIHMRSSAHRRKT 1357 (1406)
T ss_pred ccchHHHhhcchhHHHHHHHHHhhhcccC
Confidence 44999999999999999999999998853
No 78
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=80.30 E-value=0.89 Score=31.93 Aligned_cols=27 Identities=30% Similarity=0.412 Sum_probs=23.2
Q ss_pred CCeeecCCcCCcccChHHHHHHHhhhhhhh
Q 020332 64 PMTYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 64 ~~~~~C~~C~K~F~s~~~l~~Hl~skkHk~ 93 (327)
.++-.|+.|...|. .|..|+.|++|+.
T Consensus 3 ~k~GYCE~Cr~kfd---~l~~Hi~s~~Hr~ 29 (49)
T smart00586 3 KKPGYCENCREKYD---DLETHLLSEKHRR 29 (49)
T ss_pred CCCcccccHhHHHh---hHHHHhccHHHHH
Confidence 45668999999997 5789999999987
No 79
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.92 E-value=0.78 Score=41.93 Aligned_cols=57 Identities=18% Similarity=0.332 Sum_probs=38.1
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccCh
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSS 79 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~ 79 (327)
..+|+.|+..|..........|....-+.++.+..+..|+-- ....|+.||-.|...
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y--------------------~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFY--------------------EVWVCPHCGYAAFEE 61 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeee--------------------eEEECCCCCCccccc
Confidence 578999999999887777776654333445555555544411 246899999876543
No 80
>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=71.58 E-value=6 Score=34.67 Aligned_cols=90 Identities=22% Similarity=0.379 Sum_probs=60.3
Q ss_pred ccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHH-------HHH-----HHHHHhh-hcC--------
Q 020332 4 LTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLA-------RQA-----ALAQEKN-KNA-------- 62 (327)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~-------k~~-----~l~~~~~-~h~-------- 62 (327)
|+|..|..+--.......|+.|..|+--|+.--..+|-.+.+ |.. +.. .+..+.. ...
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i~tkl~k~~~d-FLqEy~~nk~KKt~~r~~~~~~~~~~~~~ie~D~~~g 79 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYIQTKLPKKTMD-FLQEYMVNKFKKTESRRQQLENSSEASKQIEQDVMEG 79 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHHHhcCChHHHH-HHHHHHHhhHHHHHHHHHHHHHhhhcccccccchhhh
Confidence 799999998889999999999999999998887777766554 221 111 1111100 000
Q ss_pred -C-------CCeeecCCcCCcc-cChHHHHHHHhhhhhhhh
Q 020332 63 -T-------PMTYSCGLCGKGY-RSSKALAQHLNSRSHIMR 94 (327)
Q Consensus 63 -~-------~~~~~C~~C~K~F-~s~~~l~~Hl~skkHk~~ 94 (327)
+ --...|..|.-=- .....++.|+.|..|..+
T Consensus 80 ig~ehfm~KVEa~hCsACd~~IP~~~~~vQ~Hl~S~~H~~N 120 (165)
T PF04988_consen 80 IGQEHFMKKVEAAHCSACDVFIPMQHSSVQKHLKSQDHNKN 120 (165)
T ss_pred cCHHHHHHHHHHhhhhHhhhhccCcHHHHHHHhccHHHHhh
Confidence 0 0124799997433 346778999999999764
No 81
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=71.34 E-value=1.1 Score=36.41 Aligned_cols=34 Identities=26% Similarity=0.391 Sum_probs=30.0
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCC
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVP 40 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lp 40 (327)
.|.|..|.+.|.+...|..|.+...| |||+.++.
T Consensus 55 qhYCieCaryf~t~~aL~~HkkgkvH----kRR~KelR 88 (126)
T COG5112 55 QHYCIECARYFITEKALMEHKKGKVH----KRRAKELR 88 (126)
T ss_pred eeeeehhHHHHHHHHHHHHHhccchh----HHHHHHHh
Confidence 47899999999999999999999988 67777765
No 82
>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=71.03 E-value=2.9 Score=29.35 Aligned_cols=28 Identities=29% Similarity=0.414 Sum_probs=23.2
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhhhhhhh
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMRA 95 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~ 95 (327)
++-.|+.|...|. .|..|+.|++|+.=+
T Consensus 4 k~GYCE~C~~ky~---~l~~Hi~s~~Hr~FA 31 (49)
T PF07535_consen 4 KPGYCENCRVKYD---DLEEHIQSEKHRKFA 31 (49)
T ss_pred CCccCccccchhh---hHHHHhCCHHHHHHH
Confidence 4557999999997 588999999998743
No 83
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.37 E-value=2.1 Score=38.89 Aligned_cols=63 Identities=19% Similarity=0.343 Sum_probs=46.1
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccc--cCCCCcccCCHHHHHHHHHhc
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLY--CNDRCHPFNSLEAVRKHMEAK 259 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~--C~~~gk~F~s~~~l~~HM~~k 259 (327)
...|.||.+.|++--.|-.|....|. .|..-+-++-..-|+|+. |+ -.|++..+-+.||.++
T Consensus 106 ~~sCs~C~r~~Pt~hLLd~HI~E~HD-------------s~Fqa~veRG~dMy~ClvEgCt---~KFkT~r~RkdH~I~~ 169 (253)
T KOG4173|consen 106 GNSCSFCKRAFPTGHLLDAHILEWHD-------------SLFQALVERGQDMYQCLVEGCT---EKFKTSRDRKDHMIRM 169 (253)
T ss_pred cchhHHHHHhCCchhhhhHHHHHHHH-------------HHHHHHHHcCccHHHHHHHhhh---hhhhhhhhhhhHHHHh
Confidence 44899999999999999999888884 112222222123478965 85 7899999999999987
Q ss_pred C
Q 020332 260 R 260 (327)
Q Consensus 260 ~ 260 (327)
+
T Consensus 170 H 170 (253)
T KOG4173|consen 170 H 170 (253)
T ss_pred c
Confidence 4
No 84
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=67.83 E-value=2.5 Score=41.34 Aligned_cols=32 Identities=25% Similarity=0.518 Sum_probs=28.1
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhhhhhhhc
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
..+.|..|++-|.+.+.+..|+.+|.|.+..+
T Consensus 237 ~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~ 268 (470)
T COG5188 237 PKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQ 268 (470)
T ss_pred cceeeHhhhhHhhhhHHHHHHHhhhhhhhhhh
Confidence 35789999999999999999999999987533
No 85
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=65.34 E-value=3.7 Score=36.24 Aligned_cols=30 Identities=23% Similarity=0.471 Sum_probs=27.6
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhhhhhh
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~ 94 (327)
.-|.|.+|.-.|...-+|..|++-|+|..+
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiNgKkHqrn 103 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHINGKKHQRN 103 (193)
T ss_pred CceeeeecceeehhhHHHHHHhccHHHHHH
Confidence 469999999999999999999999999874
No 86
>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=65.14 E-value=5.7 Score=26.53 Aligned_cols=25 Identities=32% Similarity=0.567 Sum_probs=16.4
Q ss_pred CCeeecCCcCCcccCh----HHHHHHHhh
Q 020332 64 PMTYSCGLCGKGYRSS----KALAQHLNS 88 (327)
Q Consensus 64 ~~~~~C~~C~K~F~s~----~~l~~Hl~s 88 (327)
.....|..|++.+... +.|.+||+.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 4567999999998764 679999954
No 87
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=63.68 E-value=1.7 Score=40.31 Aligned_cols=22 Identities=23% Similarity=0.513 Sum_probs=20.1
Q ss_pred CCCCCCCCCChhhhhhhhhhcc
Q 020332 185 CFMCDLPHDAIENCMVHMHKCH 206 (327)
Q Consensus 185 ClfC~~~f~s~~~l~~HM~~~H 206 (327)
|-+|++.|....-|++|.+..|
T Consensus 13 cwycnrefddekiliqhqkakh 34 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAKH 34 (341)
T ss_pred eeecccccchhhhhhhhhhhcc
Confidence 9999999999999999988665
No 88
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=63.36 E-value=3.9 Score=38.28 Aligned_cols=48 Identities=27% Similarity=0.508 Sum_probs=35.8
Q ss_pred CCCccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCCCeeecCCcCCcccChH
Q 020332 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATPMTYSCGLCGKGYRSSK 80 (327)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~~~~~C~~C~K~F~s~~ 80 (327)
|=-|+|+.||-....+..=+ ||-.- + + ..|.|.-|++.|.. .
T Consensus 1 MV~FtCnvCgEsvKKp~vek-H~srC----------------------------------r-n-~~fSCIDC~k~F~~-~ 42 (276)
T KOG2186|consen 1 MVFFTCNVCGESVKKPQVEK-HMSRC----------------------------------R-N-AYFSCIDCGKTFER-V 42 (276)
T ss_pred CeEEehhhhhhhccccchHH-HHHhc----------------------------------c-C-CeeEEeeccccccc-c
Confidence 55699999999877655444 54431 1 1 57999999999988 7
Q ss_pred HHHHHH
Q 020332 81 ALAQHL 86 (327)
Q Consensus 81 ~l~~Hl 86 (327)
.|++|.
T Consensus 43 sYknH~ 48 (276)
T KOG2186|consen 43 SYKNHT 48 (276)
T ss_pred hhhhhh
Confidence 899996
No 89
>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=61.04 E-value=3 Score=35.40 Aligned_cols=24 Identities=21% Similarity=0.537 Sum_probs=16.2
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccC
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGF 208 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f 208 (327)
-..|+.||+.|.++ ..|...|||.
T Consensus 72 ~i~clecGk~~k~L---krHL~~~~gl 95 (132)
T PF05443_consen 72 YIICLECGKKFKTL---KRHLRTHHGL 95 (132)
T ss_dssp -EE-TBT--EESBH---HHHHHHTT-S
T ss_pred eeEEccCCcccchH---HHHHHHccCC
Confidence 46799999999765 8999999995
No 90
>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=60.95 E-value=6.6 Score=23.69 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=15.9
Q ss_pred ecCCcCCcccChHHHHHHHh
Q 020332 68 SCGLCGKGYRSSKALAQHLN 87 (327)
Q Consensus 68 ~C~~C~K~F~s~~~l~~Hl~ 87 (327)
.|++|++.+ +...+..|+.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 699999998 6678888875
No 91
>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=59.56 E-value=5.5 Score=32.60 Aligned_cols=15 Identities=20% Similarity=0.565 Sum_probs=12.0
Q ss_pred CeeecCCcCCcccCh
Q 020332 65 MTYSCGLCGKGYRSS 79 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~ 79 (327)
.|-.|+.||..|.-.
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 356799999999765
No 92
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=58.11 E-value=8.3 Score=35.38 Aligned_cols=29 Identities=21% Similarity=0.570 Sum_probs=22.6
Q ss_pred CCCeeecCCcCCcccChHHHHHHHhhhhh
Q 020332 63 TPMTYSCGLCGKGYRSSKALAQHLNSRSH 91 (327)
Q Consensus 63 ~~~~~~C~~C~K~F~s~~~l~~Hl~skkH 91 (327)
.+..|.|.+|+|-|+-..=...|+..|+-
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~ 102 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHP 102 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-H
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCH
Confidence 45679999999999999999999987554
No 93
>PRK04860 hypothetical protein; Provisional
Probab=56.77 E-value=5.8 Score=34.72 Aligned_cols=38 Identities=18% Similarity=0.281 Sum_probs=27.9
Q ss_pred CCCCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCC
Q 020332 181 DPACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNS 248 (327)
Q Consensus 181 ~p~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s 248 (327)
-+|.|. |+. ....+..|++.+-| ++ +|.|..|+ +.|.-
T Consensus 118 ~~Y~C~-C~~---~~~~~rrH~ri~~g--------------------~~---~YrC~~C~---~~l~~ 155 (160)
T PRK04860 118 FPYRCK-CQE---HQLTVRRHNRVVRG--------------------EA---VYRCRRCG---ETLVF 155 (160)
T ss_pred EEEEcC-CCC---eeCHHHHHHHHhcC--------------------Cc---cEECCCCC---ceeEE
Confidence 379998 998 56777889887543 22 69999997 55543
No 94
>PRK04860 hypothetical protein; Provisional
Probab=54.91 E-value=7.9 Score=33.85 Aligned_cols=27 Identities=15% Similarity=0.340 Sum_probs=22.2
Q ss_pred HHHHHhhhcCCCCeeecCCcCCcccCh
Q 020332 53 ALAQEKNKNATPMTYSCGLCGKGYRSS 79 (327)
Q Consensus 53 ~l~~~~~~h~~~~~~~C~~C~K~F~s~ 79 (327)
.+..|.++|+++++|.|..|++.|.-.
T Consensus 130 ~~rrH~ri~~g~~~YrC~~C~~~l~~~ 156 (160)
T PRK04860 130 TVRRHNRVVRGEAVYRCRRCGETLVFK 156 (160)
T ss_pred HHHHHHHHhcCCccEECCCCCceeEEe
Confidence 457788888888999999999887643
No 95
>PTZ00448 hypothetical protein; Provisional
Probab=54.02 E-value=8.1 Score=38.14 Aligned_cols=31 Identities=26% Similarity=0.418 Sum_probs=28.1
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhhhhhc
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
.|.|..|+-.|.+....+.|++|-.|+.+.+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLK 344 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNTK 344 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHHH
Confidence 5889999999999999999999999988544
No 96
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=52.88 E-value=9.3 Score=35.31 Aligned_cols=32 Identities=16% Similarity=0.520 Sum_probs=26.4
Q ss_pred ChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHH
Q 020332 218 DPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKH 255 (327)
Q Consensus 218 d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~H 255 (327)
++..+..||+.- .|-|++|| -.|++.++|..|
T Consensus 227 ~lt~in~~LR~e---h~YC~fCG---~~y~~~edl~eh 258 (268)
T KOG1994|consen 227 RLTKINIFLRSE---HYYCFFCG---IKYKDEEDLYEH 258 (268)
T ss_pred HHHHHHHHHhcc---ceEEEEec---cccCCHHHHHHh
Confidence 667788888755 58899996 889999999866
No 97
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=52.16 E-value=4.2 Score=29.36 Aligned_cols=29 Identities=21% Similarity=0.496 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCCC
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFFI 210 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~i 210 (327)
...|+-||..|.....+..|..+.||.-+
T Consensus 17 ~lrCPRC~~~FR~~K~Y~RHVNKaH~~~~ 45 (65)
T COG4049 17 FLRCPRCGMVFRRRKDYIRHVNKAHGWLF 45 (65)
T ss_pred eeeCCchhHHHHHhHHHHHHhhHHhhhhh
Confidence 46899999999999999999999998433
No 98
>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=49.18 E-value=11 Score=32.06 Aligned_cols=39 Identities=18% Similarity=0.495 Sum_probs=25.3
Q ss_pred ccccccCCCCcccCCHHHHHHHHHhcCCcccCCCCCChhHHHhhhhhccccCCCC
Q 020332 234 FMCLYCNDRCHPFNSLEAVRKHMEAKRHCKIHFGDGDDEEEAELEEFYDYSSRSL 288 (327)
Q Consensus 234 ~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hcki~~~~~~~e~~~e~~~fYd~~~sy~ 288 (327)
-.|+.|| |.|+++ +.|.+.+ -.|. ..||-.=|.+.+.|+
T Consensus 73 i~clecG---k~~k~L---krHL~~~--~glt--------p~eYR~kwGlp~dyp 111 (132)
T PF05443_consen 73 IICLECG---KKFKTL---KRHLRTH--HGLT--------PEEYRAKWGLPKDYP 111 (132)
T ss_dssp EE-TBT-----EESBH---HHHHHHT--T-S---------HHHHHHHTT-GGG--
T ss_pred eEEccCC---cccchH---HHHHHHc--cCCC--------HHHHHHHhCcCCCCc
Confidence 4899996 999998 6899864 2353 368999999988887
No 99
>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=48.90 E-value=5 Score=24.88 Aligned_cols=20 Identities=30% Similarity=0.763 Sum_probs=13.9
Q ss_pred ccccccccccCChHHHhcccc
Q 020332 4 LTCNSCNREFNDDAEQKLHYK 24 (327)
Q Consensus 4 f~C~~C~~~F~~~~~lr~H~k 24 (327)
|+|.-|++.| .....+.|-+
T Consensus 1 ~sCiDC~~~F-~~~~y~~Ht~ 20 (28)
T PF08790_consen 1 FSCIDCSKDF-DGDSYKSHTS 20 (28)
T ss_dssp EEETTTTEEE-EGGGTTT---
T ss_pred CeeecCCCCc-CcCCcCCCCc
Confidence 6899999999 5566666643
No 100
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=48.37 E-value=13 Score=25.61 Aligned_cols=23 Identities=35% Similarity=0.651 Sum_probs=18.6
Q ss_pred eeecCCcCCcccCh-----HHHHHHHhh
Q 020332 66 TYSCGLCGKGYRSS-----KALAQHLNS 88 (327)
Q Consensus 66 ~~~C~~C~K~F~s~-----~~l~~Hl~s 88 (327)
.-.|..|++.+... +.|.+||+.
T Consensus 18 ~a~C~~C~~~l~~~~~~gTs~L~rHl~~ 45 (50)
T smart00614 18 RAKCKYCGKKLSRSSKGGTSNLRRHLRR 45 (50)
T ss_pred EEEecCCCCEeeeCCCCCcHHHHHHHHh
Confidence 45899999998654 689999986
No 101
>PF15269 zf-C2H2_7: Zinc-finger
Probab=46.00 E-value=11 Score=26.09 Aligned_cols=21 Identities=24% Similarity=0.547 Sum_probs=19.6
Q ss_pred CCCCCCCCCCCChhhhhhhhh
Q 020332 183 ACCFMCDLPHDAIENCMVHMH 203 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~ 203 (327)
++|..|+.+....+.|..||.
T Consensus 21 ykcfqcpftc~~kshl~nhmk 41 (54)
T PF15269_consen 21 YKCFQCPFTCNEKSHLFNHMK 41 (54)
T ss_pred ceeecCCcccchHHHHHHHHH
Confidence 789999999999999999996
No 102
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=45.98 E-value=12 Score=33.50 Aligned_cols=31 Identities=23% Similarity=0.425 Sum_probs=28.3
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhhhhhc
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
.|.|..|...-.+.+++..|+.-|||+.+.+
T Consensus 53 k~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~ 83 (222)
T COG5246 53 KYVCLLCKTKHLTEMSYVKHREGKKHKENSS 83 (222)
T ss_pred cEEeeeeccccccHHHHHHhhccchhhhhHH
Confidence 6899999999999999999999999998643
No 103
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=44.47 E-value=10 Score=34.19 Aligned_cols=31 Identities=19% Similarity=0.382 Sum_probs=28.3
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhhhhhc
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHIMRAS 96 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk~~~~ 96 (327)
.|.|..|...-.+.+++..|..-|||..+.+
T Consensus 53 ~yeCkLClT~H~ne~Syl~HtqGKKHq~Nla 83 (222)
T KOG0227|consen 53 KYECKLCLTLHNNEGSYLAHTQGKKHQTNLA 83 (222)
T ss_pred ceeehhhhhhhcchhhhhhhhccchhhHHHH
Confidence 6999999999999999999999999998643
No 104
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=43.88 E-value=8.2 Score=36.90 Aligned_cols=58 Identities=26% Similarity=0.510 Sum_probs=45.3
Q ss_pred CccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhhcCCC--CeeecC--CcCCcccC
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNKNATP--MTYSCG--LCGKGYRS 78 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~h~~~--~~~~C~--~C~K~F~s 78 (327)
++.|..|...|.....+..|++.. .|+++ +++.|. .|++.|..
T Consensus 289 ~~~~~~~~~~~s~~~~l~~~~~~~---------------------------------~h~~~~~~~~~~p~~~~~~~~~~ 335 (467)
T COG5048 289 PIKSKQCNISFSRSSPLTRHLRSV---------------------------------NHSGESLKPFSCPYSLCGKLFSR 335 (467)
T ss_pred CCCCccccCCcccccccccccccc---------------------------------ccccccCCceeeeccCCCccccc
Confidence 577888999999888888888841 12344 788999 89999999
Q ss_pred hHHHHHHHhhhhhhh
Q 020332 79 SKALAQHLNSRSHIM 93 (327)
Q Consensus 79 ~~~l~~Hl~skkHk~ 93 (327)
...+..|........
T Consensus 336 ~~~~~~~~~~~~~~~ 350 (467)
T COG5048 336 NDALKRHILLHTSIS 350 (467)
T ss_pred cccccCCcccccCCC
Confidence 999988887655544
No 105
>PF14353 CpXC: CpXC protein
Probab=42.51 E-value=16 Score=30.17 Aligned_cols=22 Identities=27% Similarity=0.671 Sum_probs=16.0
Q ss_pred CeeecCCcCCcccChHHHHHHH
Q 020332 65 MTYSCGLCGKGYRSSKALAQHL 86 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl 86 (327)
..|.|+.||+.|.-...+.-|-
T Consensus 37 ~~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 37 FSFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred CEEECCCCCCceecCCCEEEEc
Confidence 5799999999987654444443
No 106
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=40.44 E-value=15 Score=31.30 Aligned_cols=25 Identities=12% Similarity=0.126 Sum_probs=20.6
Q ss_pred CCCCCCCCCCCCChhhhhhhhhhcccCC
Q 020332 182 PACCFMCDLPHDAIENCMVHMHKCHGFF 209 (327)
Q Consensus 182 p~~ClfC~~~f~s~~~l~~HM~~~H~f~ 209 (327)
-..||.||+.| ..|..|..+|||+.
T Consensus 76 ~IicLEDGkkf---KSLKRHL~t~~gmT 100 (148)
T COG4957 76 YIICLEDGKKF---KSLKRHLTTHYGLT 100 (148)
T ss_pred eEEEeccCcch---HHHHHHHhcccCCC
Confidence 35799999999 56789999999863
No 107
>PF12907 zf-met2: Zinc-binding
Probab=40.15 E-value=12 Score=25.12 Aligned_cols=27 Identities=15% Similarity=0.443 Sum_probs=20.0
Q ss_pred eecCCcCCcc---cChHHHHHHHhhhhhhh
Q 020332 67 YSCGLCGKGY---RSSKALAQHLNSRSHIM 93 (327)
Q Consensus 67 ~~C~~C~K~F---~s~~~l~~Hl~skkHk~ 93 (327)
+.|.+|.-+| .+..+|+.|-.+|+-|.
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enKHpK~ 31 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENKHPKN 31 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHccCCCC
Confidence 5799998444 55678999998876553
No 108
>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=39.34 E-value=9.9 Score=34.41 Aligned_cols=29 Identities=31% Similarity=0.859 Sum_probs=0.0
Q ss_pred CeeecCCcC-CcccChHHHHHHHhhhhhhh
Q 020332 65 MTYSCGLCG-KGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 65 ~~~~C~~C~-K~F~s~~~l~~Hl~skkHk~ 93 (327)
..|.|+||| .+|.-+.++.+|..-.+|..
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekHF~E~rH~~ 129 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKHFQEWRHAY 129 (196)
T ss_dssp ------------------------------
T ss_pred CeeeeEeCCCcceecHHHHHHhcChhHHHc
Confidence 579999997 77889999999998888865
No 109
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=37.15 E-value=12 Score=34.49 Aligned_cols=21 Identities=24% Similarity=0.577 Sum_probs=18.8
Q ss_pred CCCCCCCCCCCCCChhhhhhh
Q 020332 181 DPACCFMCDLPHDAIENCMVH 201 (327)
Q Consensus 181 ~p~~ClfC~~~f~s~~~l~~H 201 (327)
.-+-|+|||..|.+.+.|+.|
T Consensus 238 eh~YC~fCG~~y~~~edl~eh 258 (268)
T KOG1994|consen 238 EHYYCFFCGIKYKDEEDLYEH 258 (268)
T ss_pred cceEEEEeccccCCHHHHHHh
Confidence 346799999999999999988
No 110
>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=36.16 E-value=18 Score=36.94 Aligned_cols=33 Identities=24% Similarity=0.444 Sum_probs=27.2
Q ss_pred CCCCCCCCCCCCCChhhhhhhhhhcc-cCCCCCc
Q 020332 181 DPACCFMCDLPHDAIENCMVHMHKCH-GFFIPDV 213 (327)
Q Consensus 181 ~p~~ClfC~~~f~s~~~l~~HM~~~H-~f~ip~~ 213 (327)
.-..|.+|.+.|.+...++.||...| +.+.|..
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH~~~l~P~l 89 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEHPAGLKPKL 89 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhhhhhcChhh
Confidence 34579999999999999999999878 5555655
No 111
>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=36.12 E-value=21 Score=31.32 Aligned_cols=27 Identities=26% Similarity=0.548 Sum_probs=23.1
Q ss_pred eecCCcCCcccChHHHHHHHhhhhhhh
Q 020332 67 YSCGLCGKGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 67 ~~C~~C~K~F~s~~~l~~Hl~skkHk~ 93 (327)
|.|.+|..+--....+..|+.|+-|+.
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E 27 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKE 27 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHH
Confidence 679999866666778999999999986
No 112
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=35.30 E-value=5 Score=37.97 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=26.5
Q ss_pred eeecCCcCCcccChHHHHHHHhhhhhhh
Q 020332 66 TYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 66 ~~~C~~C~K~F~s~~~l~~Hl~skkHk~ 93 (327)
.|.|..|.|.|+..|.++-|..|-.|..
T Consensus 25 RwyCqmCQkQcrDeNGFkCH~~SeSHqR 52 (309)
T KOG2837|consen 25 RWYCQMCQKQCRDENGFKCHTMSESHQR 52 (309)
T ss_pred HHHHHHHHHHhccccccccccCCHHHHH
Confidence 6889999999999999999999999976
No 113
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=34.51 E-value=29 Score=35.18 Aligned_cols=29 Identities=34% Similarity=0.815 Sum_probs=25.9
Q ss_pred CeeecCCcC-CcccChHHHHHHHhhhhhhh
Q 020332 65 MTYSCGLCG-KGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 65 ~~~~C~~C~-K~F~s~~~l~~Hl~skkHk~ 93 (327)
..|.|+||| +++.-+.++.+|..--.|..
T Consensus 400 ~ey~CEICGNy~Y~GrkaF~RHF~EwRH~h 429 (497)
T KOG2636|consen 400 IEYNCEICGNYVYKGRKAFDRHFNEWRHAH 429 (497)
T ss_pred cccceeeccCccccCcHHHHHHhHHHHHhh
Confidence 569999999 99999999999998877765
No 114
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=34.24 E-value=16 Score=24.39 Aligned_cols=23 Identities=30% Similarity=0.635 Sum_probs=19.1
Q ss_pred CccccccccccC--ChHHHhccccc
Q 020332 3 GLTCNSCNREFN--DDAEQKLHYKS 25 (327)
Q Consensus 3 ~f~C~~C~~~F~--~~~~lr~H~ks 25 (327)
.-+|..||..|. .+++-+.|.+-
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H~~y 37 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLHKKY 37 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHHHHH
Confidence 358999999998 68888888776
No 115
>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=34.19 E-value=23 Score=32.55 Aligned_cols=42 Identities=36% Similarity=0.617 Sum_probs=27.9
Q ss_pred CccccccCCCCcccCCHHHHHHHHHhcCCcccCCCCCChhHHHhhhhhccc
Q 020332 233 DFMCLYCNDRCHPFNSLEAVRKHMEAKRHCKIHFGDGDDEEEAELEEFYDY 283 (327)
Q Consensus 233 ~~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hcki~~~~~~~e~~~e~~~fYd~ 283 (327)
.+.|..|+ |.|+..+-|++|+..|+=-+| ++...|+.=|-.|
T Consensus 77 K~~C~lc~---KlFkg~eFV~KHI~nKH~e~v------e~~~~ev~~fnnY 118 (214)
T PF04959_consen 77 KWRCPLCG---KLFKGPEFVRKHIFNKHPEKV------EEVKKEVEYFNNY 118 (214)
T ss_dssp EEEE-SSS----EESSHHHHHHHHHHH-HHHH------HHHHHHHHHHHHH
T ss_pred EECCCCCC---cccCChHHHHHHHhhcCHHHH------HHHHHHHHHHHHH
Confidence 47999996 999999999999999843344 2334566533333
No 116
>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=32.94 E-value=29 Score=35.47 Aligned_cols=26 Identities=15% Similarity=0.469 Sum_probs=23.1
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhh
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRS 90 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skk 90 (327)
+-+.|+.|.+.|.+...+..|+..++
T Consensus 56 rFWiCp~CskkF~d~~~~~~H~~~eH 81 (466)
T PF04780_consen 56 RFWICPRCSKKFSDAESCLSHMEQEH 81 (466)
T ss_pred eEeeCCcccceeCCHHHHHHHHHHhh
Confidence 46899999999999999999998743
No 117
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=32.43 E-value=12 Score=32.64 Aligned_cols=21 Identities=29% Similarity=0.488 Sum_probs=15.7
Q ss_pred CccccccCCCCcccCCHHHHHHHH
Q 020332 233 DFMCLYCNDRCHPFNSLEAVRKHM 256 (327)
Q Consensus 233 ~~~Cl~C~~~gk~F~s~~~l~~HM 256 (327)
.++|..|| ++|.+.+.+..=|
T Consensus 28 ~~~c~~c~---~~f~~~e~~~~~~ 48 (154)
T PRK00464 28 RRECLACG---KRFTTFERVELVP 48 (154)
T ss_pred eeeccccC---CcceEeEeccCcc
Confidence 37999996 8888877665433
No 118
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=32.20 E-value=18 Score=36.58 Aligned_cols=37 Identities=16% Similarity=0.435 Sum_probs=31.0
Q ss_pred Cccccccc-cccCChHHHhccccccccccchhhhhcCCCC
Q 020332 3 GLTCNSCN-REFNDDAEQKLHYKSDWHRYNLKRKVAGVPG 41 (327)
Q Consensus 3 ~f~C~~C~-~~F~~~~~lr~H~ksdwHryNlKRkva~lpp 41 (327)
.|.|.+|| .++..+..+..|+.-.-|.|-|++ .|.||
T Consensus 401 ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrC--LGIpn 438 (497)
T KOG2636|consen 401 EYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRC--LGIPN 438 (497)
T ss_pred ccceeeccCccccCcHHHHHHhHHHHHhhccee--cCCCC
Confidence 58999999 889999999999997668887765 56664
No 119
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=31.78 E-value=8.7 Score=41.05 Aligned_cols=25 Identities=28% Similarity=0.600 Sum_probs=23.3
Q ss_pred CccccccccccCChHHHhccccccccc
Q 020332 3 GLTCNSCNREFNDDAEQKLHYKSDWHR 29 (327)
Q Consensus 3 ~f~C~~C~~~F~~~~~lr~H~ksdwHr 29 (327)
.|.|..|++.|.....+..|||+ ||
T Consensus 792 iFpCreC~kvF~KiKSrNAHMK~--Hr 816 (907)
T KOG4167|consen 792 IFPCRECGKVFFKIKSRNAHMKT--HR 816 (907)
T ss_pred eeehHHHHHHHHHHhhhhHHHHH--HH
Confidence 58999999999999999999999 75
No 120
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.81 E-value=23 Score=32.26 Aligned_cols=16 Identities=31% Similarity=0.922 Sum_probs=13.4
Q ss_pred CeeecCCcCCcccChH
Q 020332 65 MTYSCGLCGKGYRSSK 80 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~ 80 (327)
+...|++|++.|.+..
T Consensus 4 k~~~CPvC~~~F~~~~ 19 (214)
T PF09986_consen 4 KKITCPVCGKEFKTKK 19 (214)
T ss_pred CceECCCCCCeeeeeE
Confidence 5679999999998764
No 121
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=29.19 E-value=16 Score=31.59 Aligned_cols=20 Identities=30% Similarity=0.610 Sum_probs=14.7
Q ss_pred CCccccccCCCCcccCCHHHHHH
Q 020332 232 RDFMCLYCNDRCHPFNSLEAVRK 254 (327)
Q Consensus 232 ~~~~Cl~C~~~gk~F~s~~~l~~ 254 (327)
..-.|+.|+ +.|++.+.+..
T Consensus 27 RRReC~~C~---~RFTTyErve~ 46 (147)
T TIGR00244 27 RRRECLECH---ERFTTFERAEL 46 (147)
T ss_pred ecccCCccC---Cccceeeeccc
Confidence 346999997 88887666553
No 122
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=28.69 E-value=37 Score=34.44 Aligned_cols=29 Identities=17% Similarity=0.339 Sum_probs=25.3
Q ss_pred CCccccccccccCChHHHhccccccccccc
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSDWHRYN 31 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksdwHryN 31 (327)
..|.|+.|...|.+-..|..|+-.+ |-.+
T Consensus 14 egflCPiC~~dl~~~~~L~~H~d~e-H~~e 42 (505)
T KOG1842|consen 14 EGFLCPICLLDLPNLSALNDHLDVE-HFEE 42 (505)
T ss_pred hcccCchHhhhhhhHHHHHHHHhhh-cccc
Confidence 3689999999999999999999988 6433
No 123
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=28.25 E-value=15 Score=39.31 Aligned_cols=30 Identities=20% Similarity=0.424 Sum_probs=26.3
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhhhhhh
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~ 94 (327)
..|.|..|+|.|...+.+..||+++.-+.+
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr~q~~ 820 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHRQQEE 820 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 469999999999999999999998777664
No 124
>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=25.88 E-value=23 Score=32.11 Aligned_cols=36 Identities=22% Similarity=0.610 Sum_probs=0.0
Q ss_pred Cccccccccc-cCChHHHhccccccccccchhhhhcCCC
Q 020332 3 GLTCNSCNRE-FNDDAEQKLHYKSDWHRYNLKRKVAGVP 40 (327)
Q Consensus 3 ~f~C~~C~~~-F~~~~~lr~H~ksdwHryNlKRkva~lp 40 (327)
.|+|.+||-. |..+..+..|+.-.-|.|-||+ .|+|
T Consensus 101 ey~CEICGN~~Y~GrkaFekHF~E~rH~~Glrc--LGI~ 137 (196)
T PF11931_consen 101 EYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRC--LGIP 137 (196)
T ss_dssp ---------------------------------------
T ss_pred eeeeEeCCCcceecHHHHHHhcChhHHHccChh--cCCC
Confidence 5899999864 4589999999998779998877 4554
No 125
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.47 E-value=42 Score=31.17 Aligned_cols=29 Identities=21% Similarity=0.378 Sum_probs=25.7
Q ss_pred CeeecCCcCCcccChHHHHHHHhhhhhhhh
Q 020332 65 MTYSCGLCGKGYRSSKALAQHLNSRSHIMR 94 (327)
Q Consensus 65 ~~~~C~~C~K~F~s~~~l~~Hl~skkHk~~ 94 (327)
....|.+|+-..+ .+.+..|+.+|+|+..
T Consensus 34 gql~C~vCn~piK-p~lW~vHvnsKkHre~ 62 (264)
T KOG3032|consen 34 GQLVCRVCNVPIK-PSLWDVHVNSKKHREA 62 (264)
T ss_pred CCeeEEEecCccc-HHHHHHHhccHHHHHH
Confidence 3679999998888 8899999999999874
No 126
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=25.26 E-value=28 Score=36.37 Aligned_cols=28 Identities=36% Similarity=0.806 Sum_probs=0.0
Q ss_pred CCccccccccccCChHHHhcccccc--ccc
Q 020332 2 PGLTCNSCNREFNDDAEQKLHYKSD--WHR 29 (327)
Q Consensus 2 ~~f~C~~C~~~F~~~~~lr~H~ksd--wHr 29 (327)
.+..|..||.+|.+......||-.+ ||+
T Consensus 417 ~pnqC~~CG~R~~~~ee~sk~md~H~dwh~ 446 (579)
T KOG2071|consen 417 SPNQCKSCGLRFDDSEERSKHMDIHDDWHR 446 (579)
T ss_pred CcchhcccccccccchhhhhHhhhhhhhhh
No 127
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=24.76 E-value=40 Score=29.29 Aligned_cols=32 Identities=22% Similarity=0.379 Sum_probs=20.5
Q ss_pred CccccccCCCCcccCCHHHHHHH---HHhcCCcccCCC
Q 020332 233 DFMCLYCNDRCHPFNSLEAVRKH---MEAKRHCKIHFG 267 (327)
Q Consensus 233 ~~~Cl~C~~~gk~F~s~~~l~~H---M~~k~Hcki~~~ 267 (327)
.-.|+.|+ +.|++.+.+.-- ...|.-.+-+|+
T Consensus 28 RReC~~C~---~RFTTfE~~El~~~~VvKkdg~Re~F~ 62 (156)
T COG1327 28 RRECLECG---ERFTTFERAELRPLIVVKKDGRREPFD 62 (156)
T ss_pred hhcccccc---cccchhheeeeccceEECcCCCcCCCC
Confidence 46999997 788887766544 223445555654
No 128
>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=24.62 E-value=49 Score=21.17 Aligned_cols=12 Identities=33% Similarity=0.902 Sum_probs=9.6
Q ss_pred eeecCCcCCccc
Q 020332 66 TYSCGLCGKGYR 77 (327)
Q Consensus 66 ~~~C~~C~K~F~ 77 (327)
...|..|+..|.
T Consensus 25 ~v~C~~C~~~~~ 36 (38)
T TIGR02098 25 KVRCGKCGHVWY 36 (38)
T ss_pred EEECCCCCCEEE
Confidence 568999998774
No 129
>KOG3288 consensus OTU-like cysteine protease [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=24.44 E-value=1e+02 Score=29.12 Aligned_cols=33 Identities=24% Similarity=0.513 Sum_probs=28.5
Q ss_pred cCCCCeeecCCcCCcccChHHHHHHHhhhhhhh
Q 020332 61 NATPMTYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 61 h~~~~~~~C~~C~K~F~s~~~l~~Hl~skkHk~ 93 (327)
.+.....+|.+|++++--+..-..|-+...|+.
T Consensus 271 dt~~ftlRC~~Cq~glvGq~ea~eHA~~TGH~n 303 (307)
T KOG3288|consen 271 DTAKFTLRCMVCQMGLVGQKEAAEHAKATGHVN 303 (307)
T ss_pred cccceEEEeeecccceeeHHHHHHHHHhcCCCc
Confidence 456788999999999999999999998888864
No 130
>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=23.98 E-value=45 Score=20.14 Aligned_cols=12 Identities=17% Similarity=0.528 Sum_probs=9.9
Q ss_pred CCCCCCCCCCCC
Q 020332 182 PACCFMCDLPHD 193 (327)
Q Consensus 182 p~~ClfC~~~f~ 193 (327)
...|..||+.|.
T Consensus 14 ~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 14 AKFCPHCGYDFE 25 (26)
T ss_pred cCcCCCCCCCCc
Confidence 457999999985
No 131
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=23.92 E-value=27 Score=30.93 Aligned_cols=49 Identities=20% Similarity=0.216 Sum_probs=34.4
Q ss_pred CCCccccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHH
Q 020332 1 MPGLTCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLAR 50 (327)
Q Consensus 1 ~~~f~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k 50 (327)
+.+|.|++|+..|.++-.+..|+--.-|.-||--.+-- |.++.+.-..+
T Consensus 73 ~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgmsm~v-erst~~qv~er 121 (193)
T KOG4727|consen 73 KGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGMSMRV-ERSTLDQVKER 121 (193)
T ss_pred cCceeeeecceeehhhHHHHHHhccHHHHHHHhhhhcc-hhhhHHHHHHH
Confidence 35799999999999999999999887787776433322 33344433333
No 132
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=22.91 E-value=68 Score=32.43 Aligned_cols=22 Identities=36% Similarity=0.590 Sum_probs=17.7
Q ss_pred CCCCeeecCCcCCcccChHHHH
Q 020332 62 ATPMTYSCGLCGKGYRSSKALA 83 (327)
Q Consensus 62 ~~~~~~~C~~C~K~F~s~~~l~ 83 (327)
+....|.|+.|+|+|++..+++
T Consensus 124 t~~~~Y~Cp~C~kkyt~Lea~~ 145 (436)
T KOG2593|consen 124 TNVAGYVCPNCQKKYTSLEALQ 145 (436)
T ss_pred cccccccCCccccchhhhHHHH
Confidence 4456799999999999887764
No 133
>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=22.58 E-value=49 Score=23.09 Aligned_cols=14 Identities=29% Similarity=0.793 Sum_probs=7.8
Q ss_pred ecCCcCCcccChHH
Q 020332 68 SCGLCGKGYRSSKA 81 (327)
Q Consensus 68 ~C~~C~K~F~s~~~ 81 (327)
.|++|++.|.....
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 89999999986543
No 134
>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=22.48 E-value=1.5e+02 Score=28.19 Aligned_cols=28 Identities=29% Similarity=0.520 Sum_probs=17.6
Q ss_pred CCeeecCCcCCcccChHHHHHHHhhhhhhh
Q 020332 64 PMTYSCGLCGKGYRSSKALAQHLNSRSHIM 93 (327)
Q Consensus 64 ~~~~~C~~C~K~F~s~~~l~~Hl~skkHk~ 93 (327)
.+++.|+-||........| -|..++|+-
T Consensus 207 ~k~~PCPKCg~et~eTkdL--SmStR~hky 234 (314)
T PF06524_consen 207 GKPIPCPKCGYETQETKDL--SMSTRSHKY 234 (314)
T ss_pred CCCCCCCCCCCcccccccc--eeeeecchh
Confidence 3678899998655444444 455666654
No 135
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=21.86 E-value=30 Score=25.01 Aligned_cols=31 Identities=23% Similarity=0.208 Sum_probs=18.1
Q ss_pred CccccccCCCCcccCCHHHHHHHHHhcCCcc
Q 020332 233 DFMCLYCNDRCHPFNSLEAVRKHMEAKRHCK 263 (327)
Q Consensus 233 ~~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hck 263 (327)
.+.|+.|+..|=.-.+....+.|.+..+|.-
T Consensus 11 lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l 41 (63)
T PF02148_consen 11 LWLCLTCGYVGCGRYSNGHALKHYKETGHPL 41 (63)
T ss_dssp EEEETTTS-EEETTTSTSHHHHHHHHHT--E
T ss_pred eEEeCCCCcccccCCcCcHHHHhhcccCCeE
Confidence 4789999632211122367778999888874
No 136
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=21.22 E-value=71 Score=27.28 Aligned_cols=39 Identities=15% Similarity=0.331 Sum_probs=28.7
Q ss_pred ccccccCCCCcccCCHHHHHHHHHhcCCcccCCCCCChhHHHhhhhhccccCCCC
Q 020332 234 FMCLYCNDRCHPFNSLEAVRKHMEAKRHCKIHFGDGDDEEEAELEEFYDYSSRSL 288 (327)
Q Consensus 234 ~~Cl~C~~~gk~F~s~~~l~~HM~~k~Hcki~~~~~~~e~~~e~~~fYd~~~sy~ 288 (327)
-.|+.|| |.|+| |+.|...+ -.|.. ++|..=|+....|+
T Consensus 77 IicLEDG---kkfKS---LKRHL~t~--~gmTP--------d~YR~KW~LP~dYP 115 (148)
T COG4957 77 IICLEDG---KKFKS---LKRHLTTH--YGLTP--------DEYRAKWGLPPDYP 115 (148)
T ss_pred EEEeccC---cchHH---HHHHHhcc--cCCCH--------HHHHHhcCCCCCCC
Confidence 3899996 88876 45898753 34432 47888999988887
No 137
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=20.92 E-value=48 Score=31.26 Aligned_cols=46 Identities=22% Similarity=0.561 Sum_probs=33.4
Q ss_pred CCCCCCCCCCCChhhhhhhhhhcccCCCCCcccccChHHHHHHhhhhccCCccccccCCCCcccCCHHHHHHHHH
Q 020332 183 ACCFMCDLPHDAIENCMVHMHKCHGFFIPDVEYLKDPKGLLTYLGLKVKRDFMCLYCNDRCHPFNSLEAVRKHME 257 (327)
Q Consensus 183 ~~ClfC~~~f~s~~~l~~HM~~~H~f~ip~~~~l~d~~gLl~yl~~ki~~~~~Cl~C~~~gk~F~s~~~l~~HM~ 257 (327)
+.|..||....-+. +-+||..-|| ..|.|+-|+ +.|.. ...+.|..
T Consensus 4 FtCnvCgEsvKKp~-vekH~srCrn------------------------~~fSCIDC~---k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 4 FTCNVCGESVKKPQ-VEKHMSRCRN------------------------AYFSCIDCG---KTFER-VSYKNHTK 49 (276)
T ss_pred Eehhhhhhhccccc-hHHHHHhccC------------------------CeeEEeecc---ccccc-chhhhhhh
Confidence 46999998876433 3359987665 257999997 99988 66667754
No 138
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.46 E-value=55 Score=23.99 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=11.1
Q ss_pred hccCCccccccCCCC
Q 020332 229 KVKRDFMCLYCNDRC 243 (327)
Q Consensus 229 ki~~~~~Cl~C~~~g 243 (327)
+.+.+|+|..||+.|
T Consensus 46 k~g~~Y~Cp~CGF~G 60 (61)
T COG2888 46 KLGNPYRCPKCGFEG 60 (61)
T ss_pred HcCCceECCCcCccC
Confidence 445689999998654
No 139
>PF14968 CCDC84: Coiled coil protein 84
Probab=20.27 E-value=69 Score=31.42 Aligned_cols=81 Identities=20% Similarity=0.288 Sum_probs=48.5
Q ss_pred cccccccccCChHHHhccccccccccchhhhhcCCCCccHHHHHHHHHHHHHHhhh-------cCCCCeeecCCcCCccc
Q 020332 5 TCNSCNREFNDDAEQKLHYKSDWHRYNLKRKVAGVPGVTEALFLARQAALAQEKNK-------NATPMTYSCGLCGKGYR 77 (327)
Q Consensus 5 ~C~~C~~~F~~~~~lr~H~ksdwHryNlKRkva~lppv~~~~F~~k~~~l~~~~~~-------h~~~~~~~C~~C~K~F~ 77 (327)
.|..|++.... =|.|.-+-=|+-+| .. ....|..++..++.-.+. ......|=|..|+..-.
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---GRRHVYSPKHQKSL----SA----FLSRFRSKLSDARFFLKKPSVLRYDPEHRNRFWCVFCDCEVR 69 (336)
T ss_pred CcchhhCcccc---cCCCccCHHHHHHH----HH----HHHHHHHHHHHHHHHHhCCccCCCCccccceeEeeCccchhh
Confidence 38899986543 56665444465444 22 133566666555333222 12234566999987665
Q ss_pred Ch------HHHHHHHhhhhhhhhhc
Q 020332 78 SS------KALAQHLNSRSHIMRAS 96 (327)
Q Consensus 78 s~------~~l~~Hl~skkHk~~~~ 96 (327)
.. ..+..||.+.-|+++..
T Consensus 70 ~~~s~~~~~~ai~HLaS~eH~k~vk 94 (336)
T PF14968_consen 70 EHDSSFACGGAIEHLASPEHRKNVK 94 (336)
T ss_pred hccchhhhccHHhhcCCHHHHHHHH
Confidence 54 45679999999988643
Done!