Query 024438
Match_columns 267
No_of_seqs 145 out of 671
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 04:36:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024438.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024438hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00451 ZnF_U1 U1-like zinc 98.7 1E-08 2.2E-13 66.0 2.4 32 209-240 3-34 (35)
2 PF12874 zf-met: Zinc-finger o 98.6 1.7E-08 3.7E-13 60.6 2.2 25 210-234 1-25 (25)
3 smart00451 ZnF_U1 U1-like zinc 98.5 4.7E-08 1E-12 62.8 2.6 33 134-166 2-34 (35)
4 PF12171 zf-C2H2_jaz: Zinc-fin 98.5 7E-08 1.5E-12 59.4 1.9 26 210-235 2-27 (27)
5 PF12874 zf-met: Zinc-finger o 98.5 8.4E-08 1.8E-12 57.5 2.2 25 136-160 1-25 (25)
6 KOG2785 C2H2-type Zn-finger pr 98.4 1.6E-07 3.6E-12 90.2 4.5 97 134-243 2-102 (390)
7 KOG3792 Transcription factor N 98.3 2.1E-07 4.6E-12 95.0 2.4 157 15-246 115-275 (816)
8 PF12171 zf-C2H2_jaz: Zinc-fin 98.1 1.1E-06 2.5E-11 54.0 1.5 27 135-161 1-27 (27)
9 PF06220 zf-U1: U1 zinc finger 97.7 2.8E-05 6E-10 52.1 3.1 33 209-241 3-37 (38)
10 KOG3408 U1-like Zn-finger-cont 97.7 2.1E-05 4.6E-10 65.2 2.3 45 207-252 55-99 (129)
11 PF12756 zf-C2H2_2: C2H2 type 97.7 1.1E-05 2.3E-10 61.5 0.4 79 138-239 2-80 (100)
12 KOG4727 U1-like Zn-finger prot 97.5 5.5E-05 1.2E-09 66.2 3.0 37 206-242 72-108 (193)
13 PF06220 zf-U1: U1 zinc finger 97.5 0.00011 2.4E-09 49.3 2.9 33 134-166 2-36 (38)
14 KOG4727 U1-like Zn-finger prot 97.1 0.00032 6.9E-09 61.5 2.3 36 134-169 74-109 (193)
15 PF14968 CCDC84: Coiled coil p 97.0 0.00054 1.2E-08 65.7 3.7 97 137-250 1-105 (336)
16 KOG0717 Molecular chaperone (D 96.9 0.00046 1E-08 68.4 2.3 36 209-244 292-327 (508)
17 KOG3454 U1 snRNP-specific prot 96.5 0.0013 2.7E-08 57.2 1.6 31 209-239 3-35 (165)
18 PLN02748 tRNA dimethylallyltra 96.4 0.0023 5E-08 63.9 3.2 37 208-244 417-454 (468)
19 KOG3792 Transcription factor N 96.1 0.00078 1.7E-08 69.6 -1.8 35 134-168 234-268 (816)
20 COG5188 PRP9 Splicing factor 3 95.6 0.0057 1.2E-07 59.2 1.7 37 133-169 236-272 (470)
21 smart00586 ZnF_DBF Zinc finger 95.1 0.009 2E-07 42.4 1.0 28 209-239 5-32 (49)
22 PF04988 AKAP95: A-kinase anch 95.1 0.066 1.4E-06 46.7 6.4 99 136-244 1-127 (165)
23 smart00586 ZnF_DBF Zinc finger 95.0 0.01 2.2E-07 42.1 1.0 30 133-165 3-32 (49)
24 KOG0150 Spliceosomal protein F 94.9 0.015 3.3E-07 55.2 2.2 34 208-241 9-43 (336)
25 PF07535 zf-DBF: DBF zinc fing 94.9 0.015 3.3E-07 41.2 1.6 28 209-239 5-32 (49)
26 PLN02748 tRNA dimethylallyltra 94.8 0.021 4.6E-07 57.1 3.1 38 131-168 414-452 (468)
27 COG5112 UFD2 U1-like Zn-finger 94.7 0.015 3.3E-07 47.7 1.3 43 208-251 54-96 (126)
28 PF13894 zf-C2H2_4: C2H2-type 94.7 0.021 4.6E-07 32.5 1.6 21 210-230 1-21 (24)
29 PF00096 zf-C2H2: Zinc finger, 94.6 0.021 4.5E-07 33.1 1.6 22 210-231 1-22 (23)
30 KOG3408 U1-like Zn-finger-cont 94.6 0.019 4.2E-07 47.9 1.8 37 134-170 56-92 (129)
31 KOG0227 Splicing factor 3a, su 94.5 0.019 4.1E-07 51.4 1.8 36 207-242 51-86 (222)
32 PF07535 zf-DBF: DBF zinc fing 94.4 0.025 5.5E-07 40.0 1.8 30 133-165 3-32 (49)
33 PF13912 zf-C2H2_6: C2H2-type 94.4 0.03 6.4E-07 33.7 1.9 22 210-231 2-23 (27)
34 PTZ00448 hypothetical protein; 94.2 0.035 7.7E-07 53.9 2.9 36 135-170 314-349 (373)
35 KOG3576 Ovo and related transc 93.9 0.069 1.5E-06 48.7 3.9 99 130-246 112-213 (267)
36 KOG0717 Molecular chaperone (D 93.8 0.029 6.4E-07 55.9 1.6 33 136-168 293-325 (508)
37 COG5188 PRP9 Splicing factor 3 93.5 0.029 6.2E-07 54.5 0.9 36 207-242 236-271 (470)
38 PF13894 zf-C2H2_4: C2H2-type 93.5 0.061 1.3E-06 30.5 2.0 21 136-156 1-21 (24)
39 KOG0227 Splicing factor 3a, su 93.0 0.056 1.2E-06 48.5 1.8 36 133-168 51-86 (222)
40 KOG3454 U1 snRNP-specific prot 92.9 0.057 1.2E-06 47.1 1.7 35 134-168 2-38 (165)
41 PF13912 zf-C2H2_6: C2H2-type 92.9 0.096 2.1E-06 31.4 2.2 21 136-156 2-22 (27)
42 KOG3032 Uncharacterized conser 92.8 0.08 1.7E-06 48.7 2.7 35 207-242 33-67 (264)
43 KOG1146 Homeobox protein [Gene 92.6 0.11 2.5E-06 57.3 3.9 92 134-246 464-555 (1406)
44 PF12756 zf-C2H2_2: C2H2 type 92.6 0.057 1.2E-06 40.8 1.2 35 131-165 46-80 (100)
45 KOG0150 Spliceosomal protein F 92.5 0.061 1.3E-06 51.2 1.6 37 132-168 7-44 (336)
46 PF00096 zf-C2H2: Zinc finger, 91.9 0.13 2.9E-06 29.6 2.0 21 136-156 1-21 (23)
47 COG5246 PRP11 Splicing factor 91.6 0.13 2.7E-06 46.0 2.4 35 207-241 51-85 (222)
48 smart00355 ZnF_C2H2 zinc finge 91.6 0.13 2.9E-06 29.3 1.7 21 210-230 1-21 (26)
49 KOG4722 Zn-finger protein [Gen 90.8 0.14 3E-06 51.0 2.0 35 209-243 493-527 (672)
50 COG5246 PRP11 Splicing factor 90.3 0.19 4.1E-06 44.9 2.2 38 132-169 50-87 (222)
51 KOG3576 Ovo and related transc 90.1 0.24 5.1E-06 45.2 2.7 22 209-230 212-233 (267)
52 PTZ00448 hypothetical protein; 89.6 0.24 5.2E-06 48.3 2.5 39 208-246 313-351 (373)
53 KOG1074 Transcriptional repres 88.8 0.33 7.2E-06 51.7 3.0 62 129-236 599-660 (958)
54 KOG2462 C2H2-type Zn-finger pr 88.5 6.7 0.00014 37.1 11.1 25 207-231 213-237 (279)
55 KOG1146 Homeobox protein [Gene 87.3 0.38 8.3E-06 53.3 2.5 97 130-237 513-617 (1406)
56 COG5136 U1 snRNP-specific prot 87.0 0.19 4.2E-06 44.0 0.1 31 209-239 3-35 (188)
57 PF11931 DUF3449: Domain of un 86.7 0.2 4.3E-06 45.0 0.0 38 207-244 99-137 (196)
58 KOG3608 Zn finger proteins [Ge 86.7 0.39 8.4E-06 46.9 1.9 23 134-156 236-258 (467)
59 smart00355 ZnF_C2H2 zinc finge 86.3 0.48 1E-05 26.8 1.5 21 136-156 1-21 (26)
60 KOG3032 Uncharacterized conser 86.1 0.59 1.3E-05 43.2 2.7 37 131-168 31-67 (264)
61 KOG2837 Protein containing a U 85.9 0.19 4E-06 47.4 -0.7 34 209-242 25-58 (309)
62 COG5112 UFD2 U1-like Zn-finger 85.2 0.42 9.2E-06 39.3 1.2 37 134-170 54-90 (126)
63 KOG4722 Zn-finger protein [Gen 84.9 0.44 9.6E-06 47.5 1.4 35 134-168 492-526 (672)
64 PHA00732 hypothetical protein 84.1 0.94 2E-05 34.9 2.6 21 136-156 2-22 (79)
65 KOG2505 Ankyrin repeat protein 84.0 0.64 1.4E-05 47.2 2.0 37 134-170 65-101 (591)
66 PHA00733 hypothetical protein 83.9 1.5 3.2E-05 36.5 3.9 22 209-230 99-120 (128)
67 PF04988 AKAP95: A-kinase anch 83.1 1.3 2.8E-05 38.8 3.4 30 210-239 1-30 (165)
68 KOG3623 Homeobox transcription 81.5 0.59 1.3E-05 49.4 0.8 100 130-235 235-335 (1007)
69 KOG3993 Transcription factor ( 81.3 0.74 1.6E-05 45.9 1.3 27 205-231 352-378 (500)
70 KOG2462 C2H2-type Zn-finger pr 80.6 0.64 1.4E-05 43.8 0.6 81 133-231 185-265 (279)
71 KOG1074 Transcriptional repres 80.3 0.33 7.3E-06 51.6 -1.5 56 134-231 632-690 (958)
72 COG5136 U1 snRNP-specific prot 80.0 0.52 1.1E-05 41.3 -0.2 36 134-169 2-39 (188)
73 KOG3608 Zn finger proteins [Ge 78.3 0.74 1.6E-05 45.1 0.3 103 130-238 258-380 (467)
74 PHA02768 hypothetical protein; 77.7 0.83 1.8E-05 33.2 0.3 46 209-257 5-50 (55)
75 KOG2893 Zn finger protein [Gen 77.4 1.1 2.4E-05 41.8 1.1 29 128-157 4-32 (341)
76 KOG2837 Protein containing a U 77.1 0.45 9.8E-06 44.8 -1.5 36 134-169 24-59 (309)
77 PF13909 zf-H2C2_5: C2H2-type 75.6 2 4.3E-05 25.0 1.5 20 210-230 1-20 (24)
78 PF11931 DUF3449: Domain of un 75.1 0.93 2E-05 40.7 0.0 54 116-170 79-137 (196)
79 KOG2785 C2H2-type Zn-finger pr 75.1 2.8 6E-05 41.2 3.2 38 209-246 3-40 (390)
80 KOG3993 Transcription factor ( 74.6 0.62 1.4E-05 46.4 -1.3 53 132-230 264-316 (500)
81 PHA00733 hypothetical protein 73.4 1.4 3.1E-05 36.6 0.7 60 131-231 36-95 (128)
82 PF12907 zf-met2: Zinc-binding 70.9 2.1 4.4E-05 29.2 0.9 26 136-162 2-30 (40)
83 PHA00616 hypothetical protein 65.3 3.3 7.1E-05 28.8 1.0 21 210-230 2-22 (44)
84 PF04959 ARS2: Arsenite-resist 64.2 4.5 9.9E-05 36.8 2.0 39 207-246 75-113 (214)
85 PF09237 GAGA: GAGA factor; I 61.7 7.5 0.00016 28.1 2.3 27 130-156 19-45 (54)
86 PF13913 zf-C2HC_2: zinc-finge 61.0 6.5 0.00014 23.7 1.6 20 210-230 3-22 (25)
87 PHA00732 hypothetical protein 58.2 6.7 0.00015 30.1 1.7 22 210-231 2-23 (79)
88 PF12907 zf-met2: Zinc-binding 57.9 4.6 9.9E-05 27.5 0.6 23 210-232 2-27 (40)
89 KOG2505 Ankyrin repeat protein 56.5 9.5 0.00021 39.0 2.9 36 208-243 65-100 (591)
90 PF14968 CCDC84: Coiled coil p 55.6 6.3 0.00014 38.2 1.4 38 131-168 54-97 (336)
91 PF05605 zf-Di19: Drought indu 55.5 7.8 0.00017 27.1 1.6 21 135-156 2-22 (54)
92 PF12013 DUF3505: Protein of u 54.8 6.6 0.00014 31.2 1.2 91 133-231 9-106 (109)
93 PF09237 GAGA: GAGA factor; I 52.1 11 0.00025 27.2 1.9 23 208-230 23-45 (54)
94 PF03194 LUC7: LUC7 N_terminus 49.5 7.4 0.00016 36.0 0.8 29 133-161 188-219 (254)
95 COG5200 LUC7 U1 snRNP componen 48.3 13 0.00027 34.3 2.1 41 209-249 185-234 (258)
96 PHA02768 hypothetical protein; 48.0 11 0.00025 27.3 1.4 26 134-161 4-29 (55)
97 KOG3623 Homeobox transcription 44.1 52 0.0011 35.5 6.0 76 133-230 892-971 (1007)
98 COG5067 DBF4 Protein kinase es 44.1 6.8 0.00015 38.9 -0.3 29 208-239 421-449 (468)
99 smart00734 ZnF_Rad18 Rad18-lik 40.9 19 0.00042 21.9 1.5 20 210-230 2-21 (26)
100 PF13465 zf-H2C2_2: Zinc-finge 37.1 22 0.00047 21.3 1.3 14 208-221 13-26 (26)
101 PF05477 SURF2: Surfeit locus 36.2 72 0.0016 29.7 5.1 89 134-243 24-114 (244)
102 PF03194 LUC7: LUC7 N_terminus 36.0 15 0.00033 34.0 0.6 29 208-236 189-220 (254)
103 KOG2384 Major histocompatibili 35.5 9.9 0.00022 34.6 -0.6 35 207-242 82-116 (223)
104 COG5067 DBF4 Protein kinase es 33.4 15 0.00033 36.6 0.2 33 130-165 417-449 (468)
105 KOG2636 Splicing factor 3a, su 32.4 17 0.00038 36.6 0.5 36 207-242 399-435 (497)
106 KOG0796 Spliceosome subunit [R 32.2 25 0.00054 33.9 1.5 31 208-238 185-218 (319)
107 KOG1994 Predicted RNA binding 31.7 25 0.00054 32.7 1.3 25 135-159 239-263 (268)
108 KOG2482 Predicted C2H2-type Zn 28.9 19 0.00041 35.4 0.0 30 208-237 194-223 (423)
109 KOG2893 Zn finger protein [Gen 26.6 25 0.00055 33.0 0.5 23 209-231 10-32 (341)
110 KOG0796 Spliceosome subunit [R 25.7 33 0.00071 33.2 1.0 29 134-162 185-216 (319)
No 1
>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=98.69 E-value=1e-08 Score=65.95 Aligned_cols=32 Identities=31% Similarity=0.582 Sum_probs=30.5
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHH
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVIT 240 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkk 240 (267)
.++|++|++.|++...+.+|++|++|++++++
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred CeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 58999999999999999999999999999875
No 2
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.64 E-value=1.7e-08 Score=60.56 Aligned_cols=25 Identities=32% Similarity=0.728 Sum_probs=24.3
Q ss_pred cccccceeeeCCHHHHHHhhcchhH
Q 024438 210 RVCTVCNIACNGQEAFNDHLSGKKH 234 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~GKKH 234 (267)
|+|++|++.|+++.+|++|++|+||
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 6899999999999999999999999
No 3
>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=98.55 E-value=4.7e-08 Score=62.79 Aligned_cols=33 Identities=27% Similarity=0.608 Sum_probs=30.8
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHh
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQN 166 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~ 166 (267)
..++|++|++.|++...+++|+.|++|++++++
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 358999999999999999999999999999875
No 4
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=98.48 E-value=7e-08 Score=59.42 Aligned_cols=26 Identities=23% Similarity=0.572 Sum_probs=25.4
Q ss_pred cccccceeeeCCHHHHHHhhcchhHH
Q 024438 210 RVCTVCNIACNGQEAFNDHLSGKKHA 235 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~GKKHk 235 (267)
|+|.+|++.|+++.+|++|++|++|+
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~sk~Hk 27 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKSKKHK 27 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred CCcccCCCCcCCHHHHHHHHccCCCC
Confidence 89999999999999999999999997
No 5
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.48 E-value=8.4e-08 Score=57.51 Aligned_cols=25 Identities=32% Similarity=0.731 Sum_probs=24.4
Q ss_pred cccccceeeeCCHHHHHHHhCCchh
Q 024438 136 VRCVVCNIDCNSKDVFQKHISGKKH 160 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~GKKH 160 (267)
|+|+||++.|+++..|++|+.|++|
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 6899999999999999999999998
No 6
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=98.44 E-value=1.6e-07 Score=90.16 Aligned_cols=97 Identities=22% Similarity=0.340 Sum_probs=70.5
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHh----hhcCCCccccc
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQK----LLNGGAAVDSV 209 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqk----lle~~~~~~~~ 209 (267)
..+.|.-|+|.|.+....+.||...+|+.||++......+.. .+.+..+-.. ..+........
T Consensus 2 t~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPIt-------------aE~F~~k~~s~~~~~~~~~e~~~~~ 68 (390)
T KOG2785|consen 2 TGFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPIT-------------AEEFNEKVLSDDSEKEENLEEAESV 68 (390)
T ss_pred CcceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcC-------------HHHHhHHHhhhhhhhhhhhhhcccc
Confidence 357899999999999999999999999999999765532210 1111110000 00000122457
Q ss_pred cccccceeeeCCHHHHHHhhcchhHHHHHHHHhh
Q 024438 210 RVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLS 243 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~ 243 (267)
++|.+|+..|-|+..+.+||++|+|+.++.+...
T Consensus 69 ~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r 102 (390)
T KOG2785|consen 69 VYCEACNKSFASPKAHENHLKSKKHVENLSNHQR 102 (390)
T ss_pred eehHHhhccccChhhHHHHHHHhhcchhhhhhhc
Confidence 9999999999999999999999999999997653
No 7
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=98.33 E-value=2.1e-07 Score=94.99 Aligned_cols=157 Identities=23% Similarity=0.371 Sum_probs=101.2
Q ss_pred ecccCCCCCCCCCCCCCCCCCcccccCCCCCCCCCCCCCCcCCCCCCccccCCCCCCcccccCCCcchhhhhhhhcCCcc
Q 024438 15 YLSNHPTIPNPNPSSYFSYPQPAVHHAEPAIYPPGIDPDADSGSHPSTHVGIENQIPTQYYVDPNAVSVAWVTWQAGSLT 94 (267)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~a~~~~~~~~~~ 94 (267)
|.-|-|+-.-+-..+|..|+| +|+.|++.|+++- || +++.|- |.-..++|- ..
T Consensus 115 ~~~nlp~q~a~~~~~~y~~d~-sV~~AA~~~~~~~---------ep----~~~lqs-------P~~r~e~~~---~~--- 167 (816)
T KOG3792|consen 115 VADNLPIQLAPATPNYYGYDQ-SVYNAASMIVNTK---------EP----GIPLQS-------PNGRAENEK---QR--- 167 (816)
T ss_pred cCCCCcccccccCCcccchhH-Hhhhhhhhhcccc---------CC----CCcCCC-------CCCccchhc---cc---
Confidence 344555555566788999998 9999999988753 23 222222 221111221 11
Q ss_pred cCCCccccccccCCCCCCcccCccCCCccccCCC-CCCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCcc
Q 024438 95 YENGSLPSTSLNSSGDSYATSQPLVNNVTQSIPT-QSKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAA 173 (267)
Q Consensus 95 ~~~~~~~~~~~~s~~~~~st~~p~~~~~~~~~Pk-~pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~ 173 (267)
.+-.+|... +.++ -..|| .+...+..+|++|++.|++.+....|+.|.||+++-- .
T Consensus 168 ----~~~a~s~~d-----------ppd~-ldR~K~~~~laqL~~~kw~k~~a~G~qs~re~lr~~r~l~krv--p----- 224 (816)
T KOG3792|consen 168 ----KMEATSVKD-----------PPDV-LDRPKAPPRLAQLHYCKWCKISAAGPQTYREHLRGQKHLKKEV--P----- 224 (816)
T ss_pred ----CccccCCCC-----------chhh-cccccCchHHHHhhhhHHHHHhccccHHHHHHHHHHHHHHhcc--C-----
Confidence 222222211 1111 23344 3777889999999999999999999999999988731 0
Q ss_pred ccccccccCCCCCCChhHHHHHHHhhhcCCCccccccccccceeeeCCHHHHHHhhcchhHHHHHH---HHhhhcC
Q 024438 174 TLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVI---TLLSSLA 246 (267)
Q Consensus 174 ~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvk---kl~~~~~ 246 (267)
.| |+. ..-...+.|+.|.++||+...+-.||++.+|.+..+ +++..+.
T Consensus 225 -----t~--~~~------------------kgw~~el~cEksi~tcs~pd~~g~alRrv~ec~~skL~~k~G~gi~ 275 (816)
T KOG3792|consen 225 -----TN--GPL------------------KGWPLELHCEKSIVTCSGPDAYGAALRRVKECKVSKLHKKLGKGIP 275 (816)
T ss_pred -----CC--CCc------------------ccchHHHHHHHhhccccCccchHHHHHHHHHhhhhcccccCCCCCC
Confidence 11 110 000125889999999999999999999999999877 4444443
No 8
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=98.12 E-value=1.1e-06 Score=53.97 Aligned_cols=27 Identities=26% Similarity=0.545 Sum_probs=25.3
Q ss_pred CcccccceeeeCCHHHHHHHhCCchhH
Q 024438 135 PVRCVVCNIDCNSKDVFQKHISGKKHL 161 (267)
Q Consensus 135 ~~~C~LCnVsctS~~~l~sH~~GKKHq 161 (267)
.|+|.+|+..|+++.++++|+.|++|+
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 389999999999999999999999996
No 9
>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=97.74 E-value=2.8e-05 Score=52.13 Aligned_cols=33 Identities=21% Similarity=0.294 Sum_probs=21.3
Q ss_pred ccccccceeee--CCHHHHHHhhcchhHHHHHHHH
Q 024438 209 VRVCTVCNIAC--NGQEAFNDHLSGKKHAAQVITL 241 (267)
Q Consensus 209 ~~~C~lCnVsc--nSe~~~~sHL~GKKHkkkvkkl 241 (267)
.+||+.|++.+ ++...-+.|.+|+||++++++.
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~~ 37 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKRY 37 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT--THHHHHHHHH
T ss_pred CeecccccceecCCChHHHHHhhccHHHHHHHHHh
Confidence 69999999999 5556779999999999999863
No 10
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=97.68 E-value=2.1e-05 Score=65.21 Aligned_cols=45 Identities=20% Similarity=0.299 Sum_probs=39.6
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcCCCCCCC
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLAFSLIDS 252 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~~s~~~~ 252 (267)
...|||-.|...|-++.+|..|++||.|+++||++. +.++|+.+.
T Consensus 55 ~GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~-~~PySQeeA 99 (129)
T KOG3408|consen 55 GGQFYCIECARYFIDAKALKTHFKTKVHKRRVKELR-EVPYSQEEA 99 (129)
T ss_pred CceeehhhhhhhhcchHHHHHHHhccHHHHHHHhcc-cCCccHHHH
Confidence 458999999999999999999999999999999987 566676653
No 11
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=97.68 E-value=1.1e-05 Score=61.48 Aligned_cols=79 Identities=25% Similarity=0.449 Sum_probs=26.9
Q ss_pred cccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccccccccccee
Q 024438 138 CVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVCTVCNI 217 (267)
Q Consensus 138 C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C~lCnV 217 (267)
|.+|+..|++...+..|+. +.|.-.+.....-.. ..+ . .+.... .....+.|.+|+.
T Consensus 2 C~~C~~~f~~~~~l~~H~~-~~H~~~~~~~~~l~~--------~~~-~------~~~~~~-------~~~~~~~C~~C~~ 58 (100)
T PF12756_consen 2 CLFCDESFSSVDDLLQHMK-KKHGFDIPDQKYLVD--------PNR-L------LNYLRK-------KVKESFRCPYCNK 58 (100)
T ss_dssp ----------------------------------------------------------------------SSEEBSSSS-
T ss_pred ccccccccccccccccccc-ccccccccccccccc--------ccc-c------cccccc-------ccCCCCCCCccCC
Confidence 9999999999999999994 777766552111100 000 0 000000 1122599999999
Q ss_pred eeCCHHHHHHhhcchhHHHHHH
Q 024438 218 ACNGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 218 scnSe~~~~sHL~GKKHkkkvk 239 (267)
.|.+...+..||+++.|++...
T Consensus 59 ~f~s~~~l~~Hm~~~~H~~~~~ 80 (100)
T PF12756_consen 59 TFRSREALQEHMRSKHHKKRNS 80 (100)
T ss_dssp EESSHHHHHHHHHHTTTTC-S-
T ss_pred CCcCHHHHHHHHcCccCCCccc
Confidence 9999999999999999998654
No 12
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=97.55 E-value=5.5e-05 Score=66.18 Aligned_cols=37 Identities=27% Similarity=0.484 Sum_probs=33.5
Q ss_pred cccccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 206 VDSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 206 ~~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
....|||.+|++.+..-.+|-.|++||+|+.++..++
T Consensus 72 q~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgmsm 108 (193)
T KOG4727|consen 72 QKGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGMSM 108 (193)
T ss_pred ccCceeeeecceeehhhHHHHHHhccHHHHHHHhhhh
Confidence 4568999999999999999999999999999997554
No 13
>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=97.46 E-value=0.00011 Score=49.27 Aligned_cols=33 Identities=24% Similarity=0.382 Sum_probs=20.8
Q ss_pred CCcccccceeee--CCHHHHHHHhCCchhHHHHHh
Q 024438 134 QPVRCVVCNIDC--NSKDVFQKHISGKKHLRNLQN 166 (267)
Q Consensus 134 ~~~~C~LCnVsc--tS~~~l~sH~~GKKHqknlk~ 166 (267)
..+||+.|++.+ ++...-+.|..|.+|+.++++
T Consensus 2 ~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 2 PRYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp -S-B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred cCeecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence 468999999999 455667999999999999876
No 14
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=97.06 E-value=0.00032 Score=61.49 Aligned_cols=36 Identities=36% Similarity=0.504 Sum_probs=33.2
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHN 169 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~ 169 (267)
--|||.||+..+-...+|..|++||+|+.|+.....
T Consensus 74 ~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgmsm~ 109 (193)
T KOG4727|consen 74 GGYYCDVCDCVVKDSINFLDHINGKKHQRNLGMSMR 109 (193)
T ss_pred CceeeeecceeehhhHHHHHHhccHHHHHHHhhhhc
Confidence 569999999999999999999999999999998553
No 15
>PF14968 CCDC84: Coiled coil protein 84
Probab=97.03 E-value=0.00054 Score=65.72 Aligned_cols=97 Identities=16% Similarity=0.268 Sum_probs=61.8
Q ss_pred ccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHH--HHHHhhhcCCCcccccccccc
Q 024438 137 RCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELE--MKRQKLLNGGAAVDSVRVCTV 214 (267)
Q Consensus 137 ~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~e--vkkqklle~~~~~~~~~~C~l 214 (267)
||.||+.+... -+-|..+++|+++|..+...-.. +. .|.. ++.-.++.........|||-.
T Consensus 1 yC~vCr~~h~~---gr~H~Y~~~Hq~~L~~~L~rf~~--Kl------------~d~R~~lk~p~v~~~~~~~~~~fWC~f 63 (336)
T PF14968_consen 1 YCEVCRRNHDQ---GRRHVYSPKHQKSLSAFLSRFRS--KL------------SDARFFLKKPSVLRYDPEHRNRFWCVF 63 (336)
T ss_pred CcchhhCcccc---cCCCccCHHHHHHHHHHHHHHHH--HH------------HHHHHHHhCCccCCCCccccceeEeeC
Confidence 79999997765 88999999999999986432100 00 0000 000000011123456899999
Q ss_pred ceeeeCCH------HHHHHhhcchhHHHHHHHHhhhcCCCCC
Q 024438 215 CNIACNGQ------EAFNDHLSGKKHAAQVITLLSSLAFSLI 250 (267)
Q Consensus 215 CnVscnSe------~~~~sHL~GKKHkkkvkkl~~~~~~s~~ 250 (267)
|+....-- ..+-.||.+..|++++++.--+.+...|
T Consensus 64 C~~ev~~~~s~~~~~~ai~HLaS~eH~k~vk~F~w~~g~~~d 105 (336)
T PF14968_consen 64 CDCEVREHDSSFACGGAIEHLASPEHRKNVKKFWWKNGADMD 105 (336)
T ss_pred ccchhhhccchhhhccHHhhcCCHHHHHHHHHHHHHcCCCcc
Confidence 99877533 3677999999999999987655553333
No 16
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00046 Score=68.38 Aligned_cols=36 Identities=31% Similarity=0.550 Sum_probs=32.7
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhh
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSS 244 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~ 244 (267)
.++|-+||.+|.|+.+|..|.++|||+++|.+|-.+
T Consensus 292 ~lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLrqe 327 (508)
T KOG0717|consen 292 VLYCVVCNKSFKSEKQLKNHENSKKHKENVAELRQE 327 (508)
T ss_pred ceEEeeccccccchHHHHhhHHHHHHHHHHHHHHHH
Confidence 499999999999999999999999999999866443
No 17
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=96.49 E-value=0.0013 Score=57.25 Aligned_cols=31 Identities=23% Similarity=0.415 Sum_probs=27.8
Q ss_pred ccccccceeee--CCHHHHHHhhcchhHHHHHH
Q 024438 209 VRVCTVCNIAC--NGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 209 ~~~C~lCnVsc--nSe~~~~sHL~GKKHkkkvk 239 (267)
+|||+-|+... .|..+-+.|+.|+||+++++
T Consensus 3 RYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk 35 (165)
T KOG3454|consen 3 RYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVK 35 (165)
T ss_pred cchhhhhhhhhhcccHHHHHhhhhhHHHHHHHH
Confidence 69999999776 46789999999999999998
No 18
>PLN02748 tRNA dimethylallyltransferase
Probab=96.41 E-value=0.0023 Score=63.91 Aligned_cols=37 Identities=24% Similarity=0.502 Sum_probs=32.9
Q ss_pred ccccccccee-eeCCHHHHHHhhcchhHHHHHHHHhhh
Q 024438 208 SVRVCTVCNI-ACNGQEAFNDHLSGKKHAAQVITLLSS 244 (267)
Q Consensus 208 ~~~~C~lCnV-scnSe~~~~sHL~GKKHkkkvkkl~~~ 244 (267)
..|.|++|+. .++.+.+.+.|++|++|+++++++.++
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~k~ 454 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLKQK 454 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchHHHHHHhHHHhh
Confidence 4678999997 899999999999999999999977553
No 19
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=96.14 E-value=0.00078 Score=69.57 Aligned_cols=35 Identities=11% Similarity=0.280 Sum_probs=31.8
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
..+.|++|-++|++.+.+-.|+.+-+|.+..+...
T Consensus 234 ~el~cEksi~tcs~pd~~g~alRrv~ec~~skL~~ 268 (816)
T KOG3792|consen 234 LELHCEKSIVTCSGPDAYGAALRRVKECKVSKLHK 268 (816)
T ss_pred HHHHHHHhhccccCccchHHHHHHHHHhhhhcccc
Confidence 56889999999999999999999999998887754
No 20
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=95.61 E-value=0.0057 Score=59.16 Aligned_cols=37 Identities=30% Similarity=0.620 Sum_probs=32.7
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcC
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHN 169 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~ 169 (267)
...+||.+|+-.|....+|+.|+.||.|.++.+..+.
T Consensus 236 ~~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~ 272 (470)
T COG5188 236 FPKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEE 272 (470)
T ss_pred ccceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhH
Confidence 4578999999999999999999999999998776543
No 21
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=95.11 E-value=0.009 Score=42.36 Aligned_cols=28 Identities=21% Similarity=0.366 Sum_probs=24.7
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHH
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvk 239 (267)
.-||+.|.+.|. .|+.|+.|++|++-++
T Consensus 5 ~GYCE~Cr~kfd---~l~~Hi~s~~Hr~FA~ 32 (49)
T smart00586 5 PGYCENCREKYD---DLETHLLSEKHRRFAE 32 (49)
T ss_pred CcccccHhHHHh---hHHHHhccHHHHHHHc
Confidence 579999999997 7899999999998654
No 22
>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=95.08 E-value=0.066 Score=46.70 Aligned_cols=99 Identities=21% Similarity=0.333 Sum_probs=64.1
Q ss_pred cccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCcc-c---c------c------c---ccccCCC--C------CCC
Q 024438 136 VRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAA-T---L------K------R---SCNTINK--V------SLP 188 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~-~---~------k------~---s~Nt~G~--~------~aP 188 (267)
|.|.+|+...-.+.+.+.|+.++-|+..++.++..... + + + + ..+..+. . ..-
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i~tkl~k~~~dFLqEy~~nk~KKt~~r~~~~~~~~~~~~~ie~D~~~gi 80 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYIQTKLPKKTMDFLQEYMVNKFKKTESRRQQLENSSEASKQIEQDVMEGI 80 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHHHhcCChHHHHHHHHHHHhhHHHHHHHHHHHHHhhhcccccccchhhhc
Confidence 67999999999999999999999999999988543211 0 0 0 0 0000000 0 000
Q ss_pred hhHHHHHHHhhhcCCCccccccccccceeeeCC-HHHHHHhhcchhHHHHHHHHhhh
Q 024438 189 SQELEMKRQKLLNGGAAVDSVRVCTVCNIACNG-QEAFNDHLSGKKHAAQVITLLSS 244 (267)
Q Consensus 189 ~ed~evkkqklle~~~~~~~~~~C~lCnVscnS-e~~~~sHL~GKKHkkkvkkl~~~ 244 (267)
+++.-+.+ -...+|..|++.... ...++.|+.+.-|.++-+...++
T Consensus 81 g~ehfm~K----------VEa~hCsACd~~IP~~~~~vQ~Hl~S~~H~~Nrr~~~eq 127 (165)
T PF04988_consen 81 GQEHFMKK----------VEAAHCSACDVFIPMQHSSVQKHLKSQDHNKNRRAMMEQ 127 (165)
T ss_pred CHHHHHHH----------HHHhhhhHhhhhccCcHHHHHHHhccHHHHhhHHHHHHH
Confidence 11111111 135799999998855 56889999999999987754443
No 23
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=95.02 E-value=0.01 Score=42.10 Aligned_cols=30 Identities=23% Similarity=0.433 Sum_probs=25.5
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHHHHH
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQ 165 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk 165 (267)
.+..||++|.+.|. .|+.|+.+++|++=.+
T Consensus 3 ~k~GYCE~Cr~kfd---~l~~Hi~s~~Hr~FA~ 32 (49)
T smart00586 3 KKPGYCENCREKYD---DLETHLLSEKHRRFAE 32 (49)
T ss_pred CCCcccccHhHHHh---hHHHHhccHHHHHHHc
Confidence 45789999999987 6889999999997644
No 24
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=94.92 E-value=0.015 Score=55.22 Aligned_cols=34 Identities=24% Similarity=0.444 Sum_probs=29.7
Q ss_pred cccccccceeee-CCHHHHHHhhcchhHHHHHHHH
Q 024438 208 SVRVCTVCNIAC-NGQEAFNDHLSGKKHAAQVITL 241 (267)
Q Consensus 208 ~~~~C~lCnVsc-nSe~~~~sHL~GKKHkkkvkkl 241 (267)
...||+.|+|++ ++....+.|-+|+||+.+|++.
T Consensus 9 ~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kr 43 (336)
T KOG0150|consen 9 PKKFCDYCKIWIKDNPASVRFHERGKRHKENVAKR 43 (336)
T ss_pred cchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHH
Confidence 368999999999 6677889999999999999743
No 25
>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=94.86 E-value=0.015 Score=41.16 Aligned_cols=28 Identities=18% Similarity=0.482 Sum_probs=24.6
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHH
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvk 239 (267)
.-||+.|.+.|. .|+.|+.+++|++-+.
T Consensus 5 ~GYCE~C~~ky~---~l~~Hi~s~~Hr~FA~ 32 (49)
T PF07535_consen 5 PGYCENCRVKYD---DLEEHIQSEKHRKFAE 32 (49)
T ss_pred CccCccccchhh---hHHHHhCCHHHHHHHc
Confidence 579999999997 5899999999998653
No 26
>PLN02748 tRNA dimethylallyltransferase
Probab=94.83 E-value=0.021 Score=57.13 Aligned_cols=38 Identities=16% Similarity=0.359 Sum_probs=33.4
Q ss_pred CCCCCccccccee-eeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 131 KVIQPVRCVVCNI-DCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 131 K~~~~~~C~LCnV-sctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
+.-..+.|++|+. .+.++.+-+.|+.|++|++++++..
T Consensus 414 ~~~~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~ 452 (468)
T PLN02748 414 ELWTQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLK 452 (468)
T ss_pred cccccccccCCCCcccCCHHHHHHHhcchHHHHHHhHHH
Confidence 3446778999998 8999999999999999999999754
No 27
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=94.68 E-value=0.015 Score=47.66 Aligned_cols=43 Identities=21% Similarity=0.348 Sum_probs=36.7
Q ss_pred cccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcCCCCCC
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLAFSLID 251 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~~s~~~ 251 (267)
..+||.-|...|-++..|..|.+|+-|++.++.+.+ .++++++
T Consensus 54 GqhYCieCaryf~t~~aL~~HkkgkvHkRR~KelRe-vpytQe~ 96 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKGKVHKRRAKELRE-VPYTQED 96 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhccchhHHHHHHHhc-CcchhHH
Confidence 479999999999999999999999999999998754 4445544
No 28
>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=94.66 E-value=0.021 Score=32.51 Aligned_cols=21 Identities=14% Similarity=0.545 Sum_probs=17.4
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
|.|.+|+..|++...|+.|++
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHH
Confidence 579999999999999999985
No 29
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=94.65 E-value=0.021 Score=33.07 Aligned_cols=22 Identities=14% Similarity=0.517 Sum_probs=20.0
Q ss_pred cccccceeeeCCHHHHHHhhcc
Q 024438 210 RVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~G 231 (267)
|.|..|+..|++...|+.|++-
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 5699999999999999999864
No 30
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=94.61 E-value=0.019 Score=47.90 Aligned_cols=37 Identities=16% Similarity=0.319 Sum_probs=34.6
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNP 170 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~ 170 (267)
..|||=.|.--|.+...++.|+.||.|+++++.+...
T Consensus 56 GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~~~ 92 (129)
T KOG3408|consen 56 GQFYCIECARYFIDAKALKTHFKTKVHKRRVKELREV 92 (129)
T ss_pred ceeehhhhhhhhcchHHHHHHHhccHHHHHHHhcccC
Confidence 5799999999999999999999999999999998743
No 31
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=94.53 E-value=0.019 Score=51.40 Aligned_cols=36 Identities=22% Similarity=0.373 Sum_probs=32.2
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
...|-|.+|+-.-+++..+..|..||||+.+|.+..
T Consensus 51 ~G~yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarra 86 (222)
T KOG0227|consen 51 LGKYECKLCLTLHNNEGSYLAHTQGKKHQTNLARRA 86 (222)
T ss_pred CcceeehhhhhhhcchhhhhhhhccchhhHHHHHHH
Confidence 347999999999999999999999999999987543
No 32
>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=94.43 E-value=0.025 Score=40.05 Aligned_cols=30 Identities=23% Similarity=0.564 Sum_probs=25.4
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHHHHH
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQ 165 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk 165 (267)
.+.-||+.|.+.+.+ |+.|+.+++|++=..
T Consensus 3 ~k~GYCE~C~~ky~~---l~~Hi~s~~Hr~FA~ 32 (49)
T PF07535_consen 3 KKPGYCENCRVKYDD---LEEHIQSEKHRKFAE 32 (49)
T ss_pred CCCccCccccchhhh---HHHHhCCHHHHHHHc
Confidence 356799999999984 899999999997643
No 33
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=94.41 E-value=0.03 Score=33.68 Aligned_cols=22 Identities=18% Similarity=0.388 Sum_probs=20.2
Q ss_pred cccccceeeeCCHHHHHHhhcc
Q 024438 210 RVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~G 231 (267)
+.|..|+..|.+...|..|++-
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~ 23 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRS 23 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCT
T ss_pred CCCCccCCccCChhHHHHHhHH
Confidence 6899999999999999999853
No 34
>PTZ00448 hypothetical protein; Provisional
Probab=94.17 E-value=0.035 Score=53.92 Aligned_cols=36 Identities=22% Similarity=0.442 Sum_probs=33.4
Q ss_pred CcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCC
Q 024438 135 PVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNP 170 (267)
Q Consensus 135 ~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~ 170 (267)
.+.|..|++.|.+....+.||...+|+.||++...+
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl~g 349 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNARK 349 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHHHHHhcC
Confidence 588999999999999999999999999999997655
No 35
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=93.87 E-value=0.069 Score=48.66 Aligned_cols=99 Identities=16% Similarity=0.261 Sum_probs=61.1
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCccccc
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSV 209 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~ 209 (267)
.+....|.|.||...|.=+..+..|+.-..-.++ -+-. -.|.-..-+ +..|+--- ....-..
T Consensus 112 ssd~d~ftCrvCgK~F~lQRmlnrh~kch~~vkr--~lct-----------~cgkgfndt--fdlkrh~r---thtgvrp 173 (267)
T KOG3576|consen 112 SSDQDSFTCRVCGKKFGLQRMLNRHLKCHSDVKR--HLCT-----------FCGKGFNDT--FDLKRHTR---THTGVRP 173 (267)
T ss_pred CCCCCeeeeehhhhhhhHHHHHHHHhhhccHHHH--HHHh-----------hccCcccch--hhhhhhhc---cccCccc
Confidence 4456789999999999999999999854322221 1111 111111111 11111000 0112347
Q ss_pred cccccceeeeCCHHHHHHhhc---chhHHHHHHHHhhhcC
Q 024438 210 RVCTVCNIACNGQEAFNDHLS---GKKHAAQVITLLSSLA 246 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~---GKKHkkkvkkl~~~~~ 246 (267)
|.|++|++.|+-.-.|++||+ |..|+-..++..+++-
T Consensus 174 ykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~ 213 (267)
T KOG3576|consen 174 YKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLY 213 (267)
T ss_pred cchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhhee
Confidence 999999999999999999986 7888887776655444
No 36
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=93.83 E-value=0.029 Score=55.94 Aligned_cols=33 Identities=33% Similarity=0.599 Sum_probs=31.6
Q ss_pred cccccceeeeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 136 VRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
+||-+|+.+|-|+.++..|-.+|||+++|..+.
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLr 325 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVAELR 325 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999864
No 37
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=93.48 E-value=0.029 Score=54.47 Aligned_cols=36 Identities=22% Similarity=0.329 Sum_probs=32.1
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
...+||..|+..|...++|+.|+.||.|.+..++..
T Consensus 236 ~~~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~ 271 (470)
T COG5188 236 FPKVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKE 271 (470)
T ss_pred ccceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhh
Confidence 457999999999999999999999999999887543
No 38
>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=93.48 E-value=0.061 Score=30.53 Aligned_cols=21 Identities=24% Similarity=0.659 Sum_probs=17.4
Q ss_pred cccccceeeeCCHHHHHHHhC
Q 024438 136 VRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~ 156 (267)
|.|.+|+..|.+...++.|+.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~ 21 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMR 21 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHH
Confidence 579999999999999999974
No 39
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=92.96 E-value=0.056 Score=48.49 Aligned_cols=36 Identities=28% Similarity=0.503 Sum_probs=32.8
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
...+-|.||..--+++..+..|..||||+.||.+..
T Consensus 51 ~G~yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarra 86 (222)
T KOG0227|consen 51 LGKYECKLCLTLHNNEGSYLAHTQGKKHQTNLARRA 86 (222)
T ss_pred CcceeehhhhhhhcchhhhhhhhccchhhHHHHHHH
Confidence 456889999999999999999999999999998854
No 40
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=92.86 E-value=0.057 Score=47.09 Aligned_cols=35 Identities=26% Similarity=0.417 Sum_probs=29.7
Q ss_pred CCcccccceeee--CCHHHHHHHhCCchhHHHHHhhc
Q 024438 134 QPVRCVVCNIDC--NSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 134 ~~~~C~LCnVsc--tS~~~l~sH~~GKKHqknlk~l~ 168 (267)
..+||+-|++.+ .|..+-++|+.|+||++|++...
T Consensus 2 pRYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~YY 38 (165)
T KOG3454|consen 2 PRYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKDYY 38 (165)
T ss_pred CcchhhhhhhhhhcccHHHHHhhhhhHHHHHHHHHHH
Confidence 468999999655 47889999999999999998843
No 41
>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=92.86 E-value=0.096 Score=31.40 Aligned_cols=21 Identities=19% Similarity=0.417 Sum_probs=19.7
Q ss_pred cccccceeeeCCHHHHHHHhC
Q 024438 136 VRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~ 156 (267)
+.|.+|+..|.+...|..|..
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHC
T ss_pred CCCCccCCccCChhHHHHHhH
Confidence 679999999999999999993
No 42
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.83 E-value=0.08 Score=48.73 Aligned_cols=35 Identities=29% Similarity=0.561 Sum_probs=31.9
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
.....|.+||+-.. +.....|++||+|+.++.+|-
T Consensus 33 sgql~C~vCn~piK-p~lW~vHvnsKkHre~id~lK 67 (264)
T KOG3032|consen 33 SGQLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSLK 67 (264)
T ss_pred CCCeeEEEecCccc-HHHHHHHhccHHHHHHHHHHH
Confidence 34789999999999 999999999999999998775
No 43
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=92.61 E-value=0.11 Score=57.26 Aligned_cols=92 Identities=12% Similarity=0.176 Sum_probs=67.0
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCccccccccc
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVCT 213 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C~ 213 (267)
+.+.|..|+..+.-++.|..|++.|-|.-+.......+... .+..|. . .+.....+.|.
T Consensus 464 kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~----~~arg~--------------~---~~~~~~p~~C~ 522 (1406)
T KOG1146|consen 464 KTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHP----RLARGE--------------V---YRCPGKPYPCR 522 (1406)
T ss_pred ccccCCccchhhhhHHHhhhcccccccccchhHhHhccccc----cccccc--------------c---ccCCCCcccce
Confidence 67889999999999999999999999987763322221000 000000 0 11223478999
Q ss_pred cceeeeCCHHHHHHhhcchhHHHHHHHHhhhcC
Q 024438 214 VCNIACNGQEAFNDHLSGKKHAAQVITLLSSLA 246 (267)
Q Consensus 214 lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~ 246 (267)
.|+++++....+-.||++-+|+.+++.+++..+
T Consensus 523 ~C~~stttng~LsihlqS~~h~~~lee~~~~~g 555 (1406)
T KOG1146|consen 523 ACNYSTTTNGNLSIHLQSDLHRNELEEAEENAG 555 (1406)
T ss_pred eeeeeeecchHHHHHHHHHhhHHHHHHHHhccc
Confidence 999999999999999999999999887766444
No 44
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=92.56 E-value=0.057 Score=40.75 Aligned_cols=35 Identities=31% Similarity=0.599 Sum_probs=27.1
Q ss_pred CCCCCcccccceeeeCCHHHHHHHhCCchhHHHHH
Q 024438 131 KVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQ 165 (267)
Q Consensus 131 K~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk 165 (267)
+....+.|.+|+..|.+...++.|+..+.|++...
T Consensus 46 ~~~~~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~ 80 (100)
T PF12756_consen 46 KVKESFRCPYCNKTFRSREALQEHMRSKHHKKRNS 80 (100)
T ss_dssp ---SSEEBSSSS-EESSHHHHHHHHHHTTTTC-S-
T ss_pred ccCCCCCCCccCCCCcCHHHHHHHHcCccCCCccc
Confidence 33347999999999999999999999999988644
No 45
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=92.54 E-value=0.061 Score=51.23 Aligned_cols=37 Identities=22% Similarity=0.293 Sum_probs=31.0
Q ss_pred CCCCcccccceeeeC-CHHHHHHHhCCchhHHHHHhhc
Q 024438 132 VIQPVRCVVCNIDCN-SKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 132 ~~~~~~C~LCnVsct-S~~~l~sH~~GKKHqknlk~l~ 168 (267)
-....||++|+|++. +...-+.|-.|++|+.+|.+..
T Consensus 7 S~~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kri 44 (336)
T KOG0150|consen 7 SQPKKFCDYCKIWIKDNPASVRFHERGKRHKENVAKRI 44 (336)
T ss_pred hccchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHHH
Confidence 345679999999985 5777899999999999998843
No 46
>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=91.95 E-value=0.13 Score=29.60 Aligned_cols=21 Identities=24% Similarity=0.683 Sum_probs=19.3
Q ss_pred cccccceeeeCCHHHHHHHhC
Q 024438 136 VRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~ 156 (267)
|.|.+|+..|.+...|+.|+.
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~ 21 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMR 21 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHh
Confidence 569999999999999999985
No 47
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=91.64 E-value=0.13 Score=46.02 Aligned_cols=35 Identities=23% Similarity=0.387 Sum_probs=31.7
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHH
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITL 241 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl 241 (267)
...|.|.+|+-.--++..+..|+.||||+.++.+.
T Consensus 51 ~Gk~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~rr 85 (222)
T COG5246 51 TGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRR 85 (222)
T ss_pred CCcEEeeeeccccccHHHHHHhhccchhhhhHHHH
Confidence 45799999999999999999999999999998755
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=91.56 E-value=0.13 Score=29.25 Aligned_cols=21 Identities=19% Similarity=0.547 Sum_probs=19.3
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
+.|..|+..|++...|..|++
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 469999999999999999987
No 49
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=90.82 E-value=0.14 Score=51.03 Aligned_cols=35 Identities=26% Similarity=0.565 Sum_probs=31.4
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHHHhh
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLS 243 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~ 243 (267)
..-|.+|||...|+.-|-+|++|+||+..|+.+..
T Consensus 493 kkqcslcnvlissevylfshvkgrkhqqal~e~~~ 527 (672)
T KOG4722|consen 493 KKQCSLCNVLISSEVYLFSHVKGRKHQQALNELLL 527 (672)
T ss_pred hhccchhhhhhhhhhhhhhhhcchhHHHHHHHHhc
Confidence 45699999999999999999999999999997643
No 50
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=90.26 E-value=0.19 Score=44.91 Aligned_cols=38 Identities=24% Similarity=0.411 Sum_probs=33.9
Q ss_pred CCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcC
Q 024438 132 VIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHN 169 (267)
Q Consensus 132 ~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~ 169 (267)
....+-|.||+..--++..+..|..||||+.|+.+.+.
T Consensus 50 h~Gk~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~rrs~ 87 (222)
T COG5246 50 HTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRRSE 87 (222)
T ss_pred CCCcEEeeeeccccccHHHHHHhhccchhhhhHHHHHH
Confidence 34578999999999999999999999999999988743
No 51
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=90.06 E-value=0.24 Score=45.25 Aligned_cols=22 Identities=27% Similarity=0.561 Sum_probs=19.6
Q ss_pred ccccccceeeeCCHHHHHHhhc
Q 024438 209 VRVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~ 230 (267)
.|.|+-|+-.-..+..+..|++
T Consensus 212 l~vcedcg~t~~~~e~~~~h~~ 233 (267)
T KOG3576|consen 212 LYVCEDCGYTSERPEVYYLHLK 233 (267)
T ss_pred eeeecccCCCCCChhHHHHHHH
Confidence 6889999988888889999987
No 52
>PTZ00448 hypothetical protein; Provisional
Probab=89.63 E-value=0.24 Score=48.28 Aligned_cols=39 Identities=21% Similarity=0.378 Sum_probs=35.4
Q ss_pred cccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcC
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLA 246 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~ 246 (267)
..+.|..|++.|.+....+.|+++--|+-+||+....++
T Consensus 313 ~~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl~gLp 351 (373)
T PTZ00448 313 NMLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNARKME 351 (373)
T ss_pred CCccccccccccCCHHHHHHHhhhhHHHHHHHHHhcCCC
Confidence 368899999999999999999999999999998776665
No 53
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=88.76 E-value=0.33 Score=51.65 Aligned_cols=62 Identities=21% Similarity=0.432 Sum_probs=47.1
Q ss_pred CCCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccc
Q 024438 129 QSKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDS 208 (267)
Q Consensus 129 ~pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~ 208 (267)
..|.....-|=||.-.+..+..|+.||.- | . | ..
T Consensus 599 ~~~~TdPNqCiiC~rVlSC~saLqmHyrt--H--------t-------------G-----------------------ER 632 (958)
T KOG1074|consen 599 ENKRTDPNQCIICLRVLSCPSALQMHYRT--H--------T-------------G-----------------------ER 632 (958)
T ss_pred ccccCCccceeeeeecccchhhhhhhhhc--c--------c-------------C-----------------------cC
Confidence 35666778899999999999999999952 1 0 1 12
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHH
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAA 236 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkk 236 (267)
.|.|+||+..|+....|+.||-+-|-+-
T Consensus 633 PFkCKiCgRAFtTkGNLkaH~~vHka~p 660 (958)
T KOG1074|consen 633 PFKCKICGRAFTTKGNLKAHMSVHKAKP 660 (958)
T ss_pred ccccccccchhccccchhhcccccccCc
Confidence 5888888888888888888887755433
No 54
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=88.47 E-value=6.7 Score=37.09 Aligned_cols=25 Identities=16% Similarity=0.387 Sum_probs=21.9
Q ss_pred ccccccccceeeeCCHHHHHHhhcc
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~G 231 (267)
...|-|..|++.|-....|++|++-
T Consensus 213 EKPF~C~hC~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 213 EKPFSCPHCGKAFADRSNLRAHMQT 237 (279)
T ss_pred CCCccCCcccchhcchHHHHHHHHh
Confidence 4579999999999999999999873
No 55
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=87.28 E-value=0.38 Score=53.35 Aligned_cols=97 Identities=15% Similarity=0.295 Sum_probs=66.4
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCc---cccccc----ccc-CCCCCCChhHHHHHHHhhhc
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSA---ATLKRS----CNT-INKVSLPSQELEMKRQKLLN 201 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~---~~~k~s----~Nt-~G~~~aP~ed~evkkqklle 201 (267)
.-....+-|.+|+++++....+-.|+...+|+.+++....... ...-+. ++. .| ...+...
T Consensus 513 ~~~~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~~g~~v~~~~~~v~s~~P~~ag-~~~~ags---------- 581 (1406)
T KOG1146|consen 513 RCPGKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEENAGEQVRLLPASVTSAVPEEAG-LGPSAGS---------- 581 (1406)
T ss_pred cCCCCcccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhccccchhhhhhhhcccCccccc-CCCCCCC----------
Confidence 3445678999999999999999999999999999887654321 000000 000 00 0000000
Q ss_pred CCCccccccccccceeeeCCHHHHHHhhcchhHHHH
Q 024438 202 GGAAVDSVRVCTVCNIACNGQEAFNDHLSGKKHAAQ 237 (267)
Q Consensus 202 ~~~~~~~~~~C~lCnVscnSe~~~~sHL~GKKHkkk 237 (267)
.+......|.|++|+-.-|=...++.|+..-+|...
T Consensus 582 ~~pktkP~~~C~vc~yetniarnlrihmtss~~s~~ 617 (1406)
T KOG1146|consen 582 SGPKTKPSWRCEVCSYETNIARNLRIHMTASPSSSP 617 (1406)
T ss_pred CCCCCCCCcchhhhcchhhhhhccccccccCCCCCC
Confidence 001234579999999999999999999999999887
No 56
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=87.00 E-value=0.19 Score=43.96 Aligned_cols=31 Identities=23% Similarity=0.292 Sum_probs=27.3
Q ss_pred ccccccceeeeCCH--HHHHHhhcchhHHHHHH
Q 024438 209 VRVCTVCNIACNGQ--EAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 209 ~~~C~lCnVscnSe--~~~~sHL~GKKHkkkvk 239 (267)
+|+|+-|++.++.. .+-++|+.|++|..+.+
T Consensus 3 RY~CeyC~~~LthD~lsvRk~H~~G~~H~~~~~ 35 (188)
T COG5136 3 RYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRK 35 (188)
T ss_pred chHHHHHHHHHhccHHHHHHHhhhhHHHHHHHH
Confidence 69999999998655 57899999999999886
No 57
>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=86.74 E-value=0.2 Score=44.96 Aligned_cols=38 Identities=26% Similarity=0.457 Sum_probs=0.0
Q ss_pred ccccccccc-eeeeCCHHHHHHhhcchhHHHHHHHHhhh
Q 024438 207 DSVRVCTVC-NIACNGQEAFNDHLSGKKHAAQVITLLSS 244 (267)
Q Consensus 207 ~~~~~C~lC-nVscnSe~~~~sHL~GKKHkkkvkkl~~~ 244 (267)
+..|.|+|| |.++....+|+.|+...||..-++.|+-.
T Consensus 99 ~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI~ 137 (196)
T PF11931_consen 99 GVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGIP 137 (196)
T ss_dssp ---------------------------------------
T ss_pred CCeeeeEeCCCcceecHHHHHHhcChhHHHccChhcCCC
Confidence 568999999 68899999999999999999999988653
No 58
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=86.73 E-value=0.39 Score=46.94 Aligned_cols=23 Identities=13% Similarity=0.499 Sum_probs=18.1
Q ss_pred CCcccccceeeeCCHHHHHHHhC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~ 156 (267)
+.|-|..|...|..+..|.+|..
T Consensus 236 n~fqC~~C~KrFaTeklL~~Hv~ 258 (467)
T KOG3608|consen 236 NSFQCAQCFKRFATEKLLKSHVV 258 (467)
T ss_pred CchHHHHHHHHHhHHHHHHHHHH
Confidence 46778888888888888888863
No 59
>smart00355 ZnF_C2H2 zinc finger.
Probab=86.27 E-value=0.48 Score=26.78 Aligned_cols=21 Identities=29% Similarity=0.592 Sum_probs=19.3
Q ss_pred cccccceeeeCCHHHHHHHhC
Q 024438 136 VRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~ 156 (267)
+.|..|+..|.+...++.|+.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 469999999999999999986
No 60
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.13 E-value=0.59 Score=43.17 Aligned_cols=37 Identities=22% Similarity=0.495 Sum_probs=33.3
Q ss_pred CCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 131 KVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 131 K~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
+......|-|||+-.- +..-..|..||+|+.++..+.
T Consensus 31 n~sgql~C~vCn~piK-p~lW~vHvnsKkHre~id~lK 67 (264)
T KOG3032|consen 31 NESGQLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSLK 67 (264)
T ss_pred CCCCCeeEEEecCccc-HHHHHHHhccHHHHHHHHHHH
Confidence 4456788999999999 999999999999999999876
No 61
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=85.87 E-value=0.19 Score=47.36 Aligned_cols=34 Identities=21% Similarity=0.539 Sum_probs=31.4
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
+|||.+|+..|+.+.-|+.|..+--|++++....
T Consensus 25 RwyCqmCQkQcrDeNGFkCH~~SeSHqRql~~~~ 58 (309)
T KOG2837|consen 25 RWYCQMCQKQCRDENGFKCHTMSESHQRQLLLFA 58 (309)
T ss_pred HHHHHHHHHHhccccccccccCCHHHHHHHHHHH
Confidence 7999999999999999999999999999887443
No 62
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=85.17 E-value=0.42 Score=39.32 Aligned_cols=37 Identities=19% Similarity=0.325 Sum_probs=34.4
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNP 170 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~ 170 (267)
..+||=-|.--|-++..|..|..|+-|+++++.+.+.
T Consensus 54 GqhYCieCaryf~t~~aL~~HkkgkvHkRR~KelRev 90 (126)
T COG5112 54 GQHYCIECARYFITEKALMEHKKGKVHKRRAKELREV 90 (126)
T ss_pred ceeeeehhHHHHHHHHHHHHHhccchhHHHHHHHhcC
Confidence 5799999999999999999999999999999998754
No 63
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=84.90 E-value=0.44 Score=47.55 Aligned_cols=35 Identities=26% Similarity=0.529 Sum_probs=31.6
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhc
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~ 168 (267)
...-|.+|||-.+|+.-+-+|..|+||++.|..+.
T Consensus 492 rkkqcslcnvlissevylfshvkgrkhqqal~e~~ 526 (672)
T KOG4722|consen 492 RKKQCSLCNVLISSEVYLFSHVKGRKHQQALNELL 526 (672)
T ss_pred hhhccchhhhhhhhhhhhhhhhcchhHHHHHHHHh
Confidence 34569999999999999999999999999999854
No 64
>PHA00732 hypothetical protein
Probab=84.14 E-value=0.94 Score=34.86 Aligned_cols=21 Identities=14% Similarity=0.490 Sum_probs=18.8
Q ss_pred cccccceeeeCCHHHHHHHhC
Q 024438 136 VRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 136 ~~C~LCnVsctS~~~l~sH~~ 156 (267)
+.|.+|+..|++...++.|..
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhh
Confidence 569999999999999999865
No 65
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=84.01 E-value=0.64 Score=47.19 Aligned_cols=37 Identities=19% Similarity=0.321 Sum_probs=34.0
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNP 170 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~ 170 (267)
..|+|..|++.|-+.+....||...+|+-|+++....
T Consensus 65 d~~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~~ 101 (591)
T KOG2505|consen 65 DSDQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLRG 101 (591)
T ss_pred ccccccccCCccccHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6799999999999999999999999999999985544
No 66
>PHA00733 hypothetical protein
Probab=83.93 E-value=1.5 Score=36.55 Aligned_cols=22 Identities=27% Similarity=0.622 Sum_probs=19.6
Q ss_pred ccccccceeeeCCHHHHHHhhc
Q 024438 209 VRVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~ 230 (267)
.+.|.+|...|.....|..|+.
T Consensus 99 ~~~C~~CgK~F~~~~sL~~H~~ 120 (128)
T PHA00733 99 SKVCPVCGKEFRNTDSTLDHVC 120 (128)
T ss_pred CccCCCCCCccCCHHHHHHHHH
Confidence 5899999999999999999853
No 67
>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=83.13 E-value=1.3 Score=38.76 Aligned_cols=30 Identities=20% Similarity=0.438 Sum_probs=27.2
Q ss_pred cccccceeeeCCHHHHHHhhcchhHHHHHH
Q 024438 210 RVCTVCNIACNGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~GKKHkkkvk 239 (267)
|.|.+|+...--+..++.||.|+-|++.++
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~ 30 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLK 30 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHH
Confidence 679999988888999999999999997765
No 68
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=81.48 E-value=0.59 Score=49.37 Aligned_cols=100 Identities=17% Similarity=0.253 Sum_probs=56.3
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHH-HhhhcCCCcccc
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKR-QKLLNGGAAVDS 208 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkk-qklle~~~~~~~ 208 (267)
.|....|.|.+|-.+|....+|+.|+.-.+=-.-...-.......-|-.|--+|.+..= .+..|. .++ .+...
T Consensus 235 ekne~nfsC~lCsytFAyRtQLErhm~~hkpg~dqa~sltqsa~lRKFKCtECgKAFKf--KHHLKEHlRI----HSGEK 308 (1007)
T KOG3623|consen 235 EKNEPNFSCMLCSYTFAYRTQLERHMQLHKPGGDQAISLTQSALLRKFKCTECGKAFKF--KHHLKEHLRI----HSGEK 308 (1007)
T ss_pred hhCCCCCcchhhhhhhhhHHHHHHHHHhhcCCCcccccccchhhhccccccccchhhhh--HHHHHhhhee----ecCCC
Confidence 55666788999999999999999888643210000000000000001112223321100 001111 112 12245
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHH
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHA 235 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHk 235 (267)
.|-|.-|++.|..-..|-+|+.+||=.
T Consensus 309 PfeCpnCkKRFSHSGSySSHmSSKKCI 335 (1007)
T KOG3623|consen 309 PFECPNCKKRFSHSGSYSSHMSSKKCI 335 (1007)
T ss_pred CcCCcccccccccCCcccccccccchh
Confidence 799999999999999999999999977
No 69
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=81.33 E-value=0.74 Score=45.85 Aligned_cols=27 Identities=15% Similarity=0.292 Sum_probs=22.2
Q ss_pred ccccccccccceeeeCCHHHHHHhhcc
Q 024438 205 AVDSVRVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 205 ~~~~~~~C~lCnVscnSe~~~~sHL~G 231 (267)
+.+..|-|.+|...|..+..|+-|...
T Consensus 352 ss~gi~~C~~C~KkFrRqAYLrKHqlt 378 (500)
T KOG3993|consen 352 SSSGIFSCHTCGKKFRRQAYLRKHQLT 378 (500)
T ss_pred ccCceeecHHhhhhhHHHHHHHHhHHh
Confidence 345689999999999999999888543
No 70
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=80.59 E-value=0.64 Score=43.76 Aligned_cols=81 Identities=19% Similarity=0.273 Sum_probs=47.3
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccccccc
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVC 212 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C 212 (267)
....-|.||+..|..+..|+-|++.-- ++ ++. +|...|...+---++..--| .......|-|
T Consensus 185 ~l~c~C~iCGKaFSRPWLLQGHiRTHT---------GE-KPF---~C~hC~kAFADRSNLRAHmQ-----THS~~K~~qC 246 (279)
T KOG2462|consen 185 TLPCECGICGKAFSRPWLLQGHIRTHT---------GE-KPF---SCPHCGKAFADRSNLRAHMQ-----THSDVKKHQC 246 (279)
T ss_pred CCCcccccccccccchHHhhccccccc---------CC-CCc---cCCcccchhcchHHHHHHHH-----hhcCCccccC
Confidence 457889999999999999999986321 11 111 12222211111001100000 1122347999
Q ss_pred ccceeeeCCHHHHHHhhcc
Q 024438 213 TVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 213 ~lCnVscnSe~~~~sHL~G 231 (267)
..|.++|.-..-|..|+.+
T Consensus 247 ~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 247 PRCGKSFALKSYLNKHSES 265 (279)
T ss_pred cchhhHHHHHHHHHHhhhh
Confidence 9999999888888877654
No 71
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=80.26 E-value=0.33 Score=51.63 Aligned_cols=56 Identities=18% Similarity=0.409 Sum_probs=44.0
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCccccccccc
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVCT 213 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C~ 213 (267)
+.|.|+||+-.|+.+-.|++||.+.|=+--++ ..+-|-
T Consensus 632 RPFkCKiCgRAFtTkGNLkaH~~vHka~p~~R------------------------------------------~q~ScP 669 (958)
T KOG1074|consen 632 RPFKCKICGRAFTTKGNLKAHMSVHKAKPPAR------------------------------------------VQFSCP 669 (958)
T ss_pred CccccccccchhccccchhhcccccccCcccc------------------------------------------ccccCC
Confidence 57999999999999999999998854322211 246677
Q ss_pred ---cceeeeCCHHHHHHhhcc
Q 024438 214 ---VCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 214 ---lCnVscnSe~~~~sHL~G 231 (267)
||...|+....+.+|+++
T Consensus 670 ~~~ic~~kftn~V~lpQhIri 690 (958)
T KOG1074|consen 670 STFICQKKFTNAVTLPQHIRI 690 (958)
T ss_pred chhhhcccccccccccceEEe
Confidence 888888888888888775
No 72
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=79.98 E-value=0.52 Score=41.35 Aligned_cols=36 Identities=22% Similarity=0.169 Sum_probs=29.5
Q ss_pred CCcccccceeeeCC--HHHHHHHhCCchhHHHHHhhcC
Q 024438 134 QPVRCVVCNIDCNS--KDVFQKHISGKKHLRNLQNQHN 169 (267)
Q Consensus 134 ~~~~C~LCnVsctS--~~~l~sH~~GKKHqknlk~l~~ 169 (267)
..++|+-|++.++. ..+-++|..|++|..+.+...+
T Consensus 2 pRY~CeyC~~~LthD~lsvRk~H~~G~~H~~~~~dYY~ 39 (188)
T COG5136 2 PRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKDYYM 39 (188)
T ss_pred cchHHHHHHHHHhccHHHHHHHhhhhHHHHHHHHHHHH
Confidence 45899999998874 5677999999999988877543
No 73
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=78.30 E-value=0.74 Score=45.05 Aligned_cols=103 Identities=19% Similarity=0.401 Sum_probs=55.9
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCC-C-c-----ccc-c----cccccCCCCCCChhHHHH--H
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNP-S-A-----ATL-K----RSCNTINKVSLPSQELEM--K 195 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~-~-~-----~~~-k----~s~Nt~G~~~aP~ed~ev--k 195 (267)
-....-+.|.+|+++|.+.+.|..|+.-| |.+ -+-+.-. . . ..+ + .| .++..-+-|.-.+.+ +
T Consensus 258 ~rHvn~ykCplCdmtc~~~ssL~~H~r~r-Hs~-dkpfKCd~Cd~~c~~esdL~kH~~~HS-~~~y~C~h~~C~~s~r~~ 334 (467)
T KOG3608|consen 258 VRHVNCYKCPLCDMTCSSASSLTTHIRYR-HSK-DKPFKCDECDTRCVRESDLAKHVQVHS-KTVYQCEHPDCHYSVRTY 334 (467)
T ss_pred HHhhhcccccccccCCCChHHHHHHHHhh-hcc-CCCccccchhhhhccHHHHHHHHHhcc-ccceecCCCCCcHHHHHH
Confidence 34567789999999999999999998754 332 1111100 0 0 000 0 00 000001111111111 1
Q ss_pred H------HhhhcCCCccccccccccceeeeCCHHHHHHhhcchhHHHHH
Q 024438 196 R------QKLLNGGAAVDSVRVCTVCNIACNGQEAFNDHLSGKKHAAQV 238 (267)
Q Consensus 196 k------qklle~~~~~~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkv 238 (267)
. +++.|+ .....|-|.+|+..|++-..|-.||. |||+-++
T Consensus 335 ~q~~~H~~evhEg--~np~~Y~CH~Cdr~ft~G~~L~~HL~-kkH~f~~ 380 (467)
T KOG3608|consen 335 TQMRRHFLEVHEG--NNPILYACHCCDRFFTSGKSLSAHLM-KKHGFRL 380 (467)
T ss_pred HHHHHHHHHhccC--CCCCceeeecchhhhccchhHHHHHH-HhhcccC
Confidence 1 112122 23457889999999999999999986 5666544
No 74
>PHA02768 hypothetical protein; Provisional
Probab=77.68 E-value=0.83 Score=33.17 Aligned_cols=46 Identities=11% Similarity=0.124 Sum_probs=31.1
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcCCCCCCCceeee
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLAFSLIDSHLMLV 257 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~~s~~~~~~~~v 257 (267)
.|.|+.|+..|+..+.|..|++- |.+..+-..=...|+ ..+.+|-|
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~--H~k~~kc~~C~k~f~-~~s~l~~~ 50 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRK--HNTNLKLSNCKRISL-RTGEYIEI 50 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHh--cCCcccCCcccceec-ccceeEEE
Confidence 58999999999999999999875 774333222222333 45666655
No 75
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=77.43 E-value=1.1 Score=41.84 Aligned_cols=29 Identities=21% Similarity=0.449 Sum_probs=21.7
Q ss_pred CCCCCCCCcccccceeeeCCHHHHHHHhCC
Q 024438 128 TQSKVIQPVRCVVCNIDCNSKDVFQKHISG 157 (267)
Q Consensus 128 k~pK~~~~~~C~LCnVsctS~~~l~sH~~G 157 (267)
|+.|+.+ -||.-||-.|..+..|.+|..-
T Consensus 4 kkkk~~k-pwcwycnrefddekiliqhqka 32 (341)
T KOG2893|consen 4 KKKKVDK-PWCWYCNREFDDEKILIQHQKA 32 (341)
T ss_pred cccccCC-ceeeecccccchhhhhhhhhhh
Confidence 3344444 4599999999999999988543
No 76
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=77.15 E-value=0.45 Score=44.84 Aligned_cols=36 Identities=22% Similarity=0.393 Sum_probs=33.1
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcC
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHN 169 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~ 169 (267)
..|||..|+-.|..+-.|+.|....-|++.+.....
T Consensus 24 lRwyCqmCQkQcrDeNGFkCH~~SeSHqRql~~~~~ 59 (309)
T KOG2837|consen 24 LRWYCQMCQKQCRDENGFKCHTMSESHQRQLLLFAL 59 (309)
T ss_pred HHHHHHHHHHHhccccccccccCCHHHHHHHHHHHh
Confidence 479999999999999999999999999999988654
No 77
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=75.62 E-value=2 Score=25.01 Aligned_cols=20 Identities=20% Similarity=0.556 Sum_probs=15.7
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
|.|..|+-..+ +..|..|++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~ 20 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLK 20 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHH
Confidence 56999998888 999999975
No 78
>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=75.12 E-value=0.93 Score=40.73 Aligned_cols=54 Identities=22% Similarity=0.405 Sum_probs=0.0
Q ss_pred CccCCCccccCC----CCCCCCCCcccccce-eeeCCHHHHHHHhCCchhHHHHHhhcCC
Q 024438 116 QPLVNNVTQSIP----TQSKVIQPVRCVVCN-IDCNSKDVFQKHISGKKHLRNLQNQHNP 170 (267)
Q Consensus 116 ~p~~~~~~~~~P----k~pK~~~~~~C~LCn-VsctS~~~l~sH~~GKKHqknlk~l~~~ 170 (267)
.|.+.+ ..++| |-.-....|.|+||. .+..+...|+.|+...+|+.-|+.+.-+
T Consensus 79 lPLG~D-GkPIPyWLYKLhGL~~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI~ 137 (196)
T PF11931_consen 79 LPLGWD-GKPIPYWLYKLHGLGVEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGIP 137 (196)
T ss_dssp ------------------------------------------------------------
T ss_pred CCCCCC-CCcccHHHHHHhCCCCeeeeEeCCCcceecHHHHHHhcChhHHHccChhcCCC
Confidence 344433 24566 335566789999997 7888999999999999999999987654
No 79
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=75.10 E-value=2.8 Score=41.24 Aligned_cols=38 Identities=18% Similarity=0.348 Sum_probs=33.8
Q ss_pred ccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcC
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLA 246 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~ 246 (267)
.|.|..|+|.|.+...-+.|+++--|+-+||+.-.+++
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lP 40 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLP 40 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCC
Confidence 58899999999999999999999999999997655444
No 80
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=74.61 E-value=0.62 Score=46.36 Aligned_cols=53 Identities=17% Similarity=0.289 Sum_probs=40.9
Q ss_pred CCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCccccccc
Q 024438 132 VIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRV 211 (267)
Q Consensus 132 ~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~ 211 (267)
+..++.|.||++.+.+.-.|.+|- +-++ ....|.
T Consensus 264 ~iGdyiCqLCK~kYeD~F~LAQHr--------C~RI--------------------------------------V~vEYr 297 (500)
T KOG3993|consen 264 VIGDYICQLCKEKYEDAFALAQHR--------CPRI--------------------------------------VHVEYR 297 (500)
T ss_pred cHHHHHHHHHHHhhhhHHHHhhcc--------CCee--------------------------------------EEeeec
Confidence 345699999999988887777762 2211 012599
Q ss_pred cccceeeeCCHHHHHHhhc
Q 024438 212 CTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 212 C~lCnVscnSe~~~~sHL~ 230 (267)
|.-|++.||.+..|.+|-+
T Consensus 298 CPEC~KVFsCPANLASHRR 316 (500)
T KOG3993|consen 298 CPECDKVFSCPANLASHRR 316 (500)
T ss_pred CCcccccccCchhhhhhhc
Confidence 9999999999999999976
No 81
>PHA00733 hypothetical protein
Probab=73.36 E-value=1.4 Score=36.61 Aligned_cols=60 Identities=13% Similarity=0.142 Sum_probs=42.3
Q ss_pred CCCCCcccccceeeeCCHHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccccc
Q 024438 131 KVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVR 210 (267)
Q Consensus 131 K~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~ 210 (267)
+..+...|.||+..+.....+..|-.=.+|. .. .....|
T Consensus 36 ~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~-------~~----------------------------------~~~kPy 74 (128)
T PHA00733 36 PEQKRLIRAVVKTLIYNPQLLDESSYLYKLL-------TS----------------------------------KAVSPY 74 (128)
T ss_pred hhhhhHHHHHHhhhccChhhhcchHHHHhhc-------cc----------------------------------CCCCCc
Confidence 3456778999998888887777764422221 00 001258
Q ss_pred ccccceeeeCCHHHHHHhhcc
Q 024438 211 VCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 211 ~C~lCnVscnSe~~~~sHL~G 231 (267)
.|+.|...|.+...|..|.+-
T Consensus 75 ~C~~Cgk~Fss~s~L~~H~r~ 95 (128)
T PHA00733 75 VCPLCLMPFSSSVSLKQHIRY 95 (128)
T ss_pred cCCCCCCcCCCHHHHHHHHhc
Confidence 899999999999999999873
No 82
>PF12907 zf-met2: Zinc-binding
Probab=70.85 E-value=2.1 Score=29.20 Aligned_cols=26 Identities=19% Similarity=0.626 Sum_probs=21.7
Q ss_pred cccccce---eeeCCHHHHHHHhCCchhHH
Q 024438 136 VRCVVCN---IDCNSKDVFQKHISGKKHLR 162 (267)
Q Consensus 136 ~~C~LCn---VsctS~~~l~sH~~GKKHqk 162 (267)
..|.||. +..+++.+|++|+..| |-|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enK-HpK 30 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENK-HPK 30 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHcc-CCC
Confidence 4699999 8899999999999865 443
No 83
>PHA00616 hypothetical protein
Probab=65.33 E-value=3.3 Score=28.78 Aligned_cols=21 Identities=19% Similarity=0.327 Sum_probs=19.4
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
+-|..|+..|.....|..|++
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r 22 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLL 22 (44)
T ss_pred CccchhhHHHhhHHHHHHHHH
Confidence 679999999999999999983
No 84
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=64.21 E-value=4.5 Score=36.77 Aligned_cols=39 Identities=21% Similarity=0.417 Sum_probs=30.2
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHhhhcC
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLSSLA 246 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~~~~ 246 (267)
...|.|.+|.+.|..+.=..-|+. .||.++|+.+.+++.
T Consensus 75 ~~K~~C~lc~KlFkg~eFV~KHI~-nKH~e~ve~~~~ev~ 113 (214)
T PF04959_consen 75 EDKWRCPLCGKLFKGPEFVRKHIF-NKHPEKVEEVKKEVE 113 (214)
T ss_dssp SEEEEE-SSS-EESSHHHHHHHHH-HH-HHHHHHHHHHHH
T ss_pred CCEECCCCCCcccCChHHHHHHHh-hcCHHHHHHHHHHHH
Confidence 457999999999999999999987 589999987766553
No 85
>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=61.71 E-value=7.5 Score=28.11 Aligned_cols=27 Identities=22% Similarity=0.536 Sum_probs=18.9
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhC
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~ 156 (267)
.+..+...|.+|+..+.+...|+-|+.
T Consensus 19 ~~S~~PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 19 SQSEQPATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp CTTS--EE-TTT--EESSHHHHHHHHH
T ss_pred hccCCCCCCCcchhhccchhhHHHHHH
Confidence 455677899999999999999999984
No 86
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=60.98 E-value=6.5 Score=23.73 Aligned_cols=20 Identities=15% Similarity=0.471 Sum_probs=16.1
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
.-|.+|+..| .++.++.|++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHH
Confidence 5699999999 5777887754
No 87
>PHA00732 hypothetical protein
Probab=58.20 E-value=6.7 Score=30.12 Aligned_cols=22 Identities=18% Similarity=0.360 Sum_probs=19.8
Q ss_pred cccccceeeeCCHHHHHHhhcc
Q 024438 210 RVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~G 231 (267)
|.|+.|+..|++...++.|++.
T Consensus 2 y~C~~Cgk~F~s~s~Lk~H~r~ 23 (79)
T PHA00732 2 FKCPICGFTTVTLFALKQHARR 23 (79)
T ss_pred ccCCCCCCccCCHHHHHHHhhc
Confidence 6799999999999999999863
No 88
>PF12907 zf-met2: Zinc-binding
Probab=57.89 E-value=4.6 Score=27.52 Aligned_cols=23 Identities=17% Similarity=0.652 Sum_probs=19.5
Q ss_pred cccccce---eeeCCHHHHHHhhcch
Q 024438 210 RVCTVCN---IACNGQEAFNDHLSGK 232 (267)
Q Consensus 210 ~~C~lCn---VscnSe~~~~sHL~GK 232 (267)
+.|.||. +...++.+|++|...|
T Consensus 2 i~C~iC~qtF~~t~~~~~L~eH~enK 27 (40)
T PF12907_consen 2 IICKICRQTFMQTTNEPQLKEHAENK 27 (40)
T ss_pred cCcHHhhHHHHhcCCHHHHHHHHHcc
Confidence 5699999 7778899999998764
No 89
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=56.47 E-value=9.5 Score=39.05 Aligned_cols=36 Identities=17% Similarity=0.349 Sum_probs=32.6
Q ss_pred cccccccceeeeCCHHHHHHhhcchhHHHHHHHHhh
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLLS 243 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~~ 243 (267)
..+.|..|++.|-|-.....|+++--|+-++++...
T Consensus 65 d~~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~ 100 (591)
T KOG2505|consen 65 DSDQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLR 100 (591)
T ss_pred ccccccccCCccccHHHHHHHHHHHHHHHHHHHHhc
Confidence 478999999999999999999999999999986544
No 90
>PF14968 CCDC84: Coiled coil protein 84
Probab=55.64 E-value=6.3 Score=38.22 Aligned_cols=38 Identities=16% Similarity=0.372 Sum_probs=32.3
Q ss_pred CCCCCcccccceeeeCCH------HHHHHHhCCchhHHHHHhhc
Q 024438 131 KVIQPVRCVVCNIDCNSK------DVFQKHISGKKHLRNLQNQH 168 (267)
Q Consensus 131 K~~~~~~C~LCnVsctS~------~~l~sH~~GKKHqknlk~l~ 168 (267)
.....|+|..|+...... ..+..|+.+..|++++++..
T Consensus 54 ~~~~~fWC~fC~~ev~~~~s~~~~~~ai~HLaS~eH~k~vk~F~ 97 (336)
T PF14968_consen 54 EHRNRFWCVFCDCEVREHDSSFACGGAIEHLASPEHRKNVKKFW 97 (336)
T ss_pred cccceeEeeCccchhhhccchhhhccHHhhcCCHHHHHHHHHHH
Confidence 455678999999887766 57899999999999999963
No 91
>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=55.46 E-value=7.8 Score=27.11 Aligned_cols=21 Identities=19% Similarity=0.371 Sum_probs=16.7
Q ss_pred CcccccceeeeCCHHHHHHHhC
Q 024438 135 PVRCVVCNIDCNSKDVFQKHIS 156 (267)
Q Consensus 135 ~~~C~LCnVsctS~~~l~sH~~ 156 (267)
.|.|..|+. --+...|..|..
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~ 22 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCE 22 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHH
Confidence 578999999 566788888864
No 92
>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=54.78 E-value=6.6 Score=31.16 Aligned_cols=91 Identities=11% Similarity=0.234 Sum_probs=49.4
Q ss_pred CCCcccccceeeeCCHHHHHHHhCCchhHH-HHHh--hcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCccccc
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHISGKKHLR-NLQN--QHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSV 209 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~GKKHqk-nlk~--l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~ 209 (267)
-+.+.|..|+....- .....|+..+-|.. ..+. +..........-.+. .+...|.. ....+++- ..-..
T Consensus 9 ~~vlIC~~C~~av~~-~~v~~HL~~~H~~~~~~~~~~i~~~~~~~~~l~~~~-~~~~~p~~-----~~~Pi~gL-p~~~G 80 (109)
T PF12013_consen 9 YRVLICRQCQYAVQP-SEVESHLRKRHHILKSQERQRIVEAIRQWPDLLPDP-DDLQIPPD-----PSPPIPGL-PVYDG 80 (109)
T ss_pred CCEEEeCCCCcccCc-hHHHHHHHHhcccccHHHHHHHHHHHHhhhhcccCc-cccCCCCC-----CCCcCCCC-CCCCC
Confidence 456889999987776 89999999887654 2211 111000000000000 00000000 00011111 11246
Q ss_pred ccc----ccceeeeCCHHHHHHhhcc
Q 024438 210 RVC----TVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 210 ~~C----~lCnVscnSe~~~~sHL~G 231 (267)
|.| ..|.-.+.+...|..|++-
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~ 106 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRK 106 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHH
Confidence 999 9999999999999999864
No 93
>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=52.11 E-value=11 Score=27.21 Aligned_cols=23 Identities=17% Similarity=0.499 Sum_probs=16.5
Q ss_pred cccccccceeeeCCHHHHHHhhc
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~ 230 (267)
..-.|.+|+..+.+...|+.||.
T Consensus 23 ~PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 23 QPATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp --EE-TTT--EESSHHHHHHHHH
T ss_pred CCCCCCcchhhccchhhHHHHHH
Confidence 46789999999999999999974
No 94
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=49.48 E-value=7.4 Score=36.05 Aligned_cols=29 Identities=28% Similarity=0.504 Sum_probs=22.7
Q ss_pred CCCcccccceeee---CCHHHHHHHhCCchhH
Q 024438 133 IQPVRCVVCNIDC---NSKDVFQKHISGKKHL 161 (267)
Q Consensus 133 ~~~~~C~LCnVsc---tS~~~l~sH~~GKKHq 161 (267)
.+.-.|+||.+-. .+..-+..|+.||.|.
T Consensus 188 qkl~VCeVCGA~Ls~~D~d~RladH~~GK~Hl 219 (254)
T PF03194_consen 188 QKLEVCEVCGAFLSVGDNDRRLADHFGGKQHL 219 (254)
T ss_pred cCccchhhhhhHHhccchHHHHHHHhccchhh
Confidence 3567899999544 4556799999999995
No 95
>COG5200 LUC7 U1 snRNP component, mediates U1 snRNP association with cap-binding complex [RNA processing and modification]
Probab=48.29 E-value=13 Score=34.31 Aligned_cols=41 Identities=27% Similarity=0.559 Sum_probs=29.4
Q ss_pred ccccccceeee---CCHHHHHHhhcchhHHHHH------HHHhhhcCCCC
Q 024438 209 VRVCTVCNIAC---NGQEAFNDHLSGKKHAAQV------ITLLSSLAFSL 249 (267)
Q Consensus 209 ~~~C~lCnVsc---nSe~~~~sHL~GKKHkkkv------kkl~~~~~~s~ 249 (267)
.-.|.||.+.. .+..-+..|++||-|+--+ ..|.+..+.|.
T Consensus 185 lqvC~iCgayLsrlDtdrrladHf~GklHlGy~~~R~dl~~llk~~~~sr 234 (258)
T COG5200 185 LQVCGICGAYLSRLDTDRRLADHFNGKLHLGYLLVRSDLADLLKKFGISR 234 (258)
T ss_pred hhhhhhhhhHHHhcchhhHHHHHhccchhhhHHHHHHHHHHHHHHhccch
Confidence 56799999876 5567899999999997533 35555544333
No 96
>PHA02768 hypothetical protein; Provisional
Probab=47.98 E-value=11 Score=27.28 Aligned_cols=26 Identities=15% Similarity=0.304 Sum_probs=22.2
Q ss_pred CCcccccceeeeCCHHHHHHHhCCchhH
Q 024438 134 QPVRCVVCNIDCNSKDVFQKHISGKKHL 161 (267)
Q Consensus 134 ~~~~C~LCnVsctS~~~l~sH~~GKKHq 161 (267)
..+-|+.|+..|+..+.|..|+.- |.
T Consensus 4 ~~y~C~~CGK~Fs~~~~L~~H~r~--H~ 29 (55)
T PHA02768 4 LGYECPICGEIYIKRKSMITHLRK--HN 29 (55)
T ss_pred cccCcchhCCeeccHHHHHHHHHh--cC
Confidence 357899999999999999999864 55
No 97
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=44.12 E-value=52 Score=35.46 Aligned_cols=76 Identities=13% Similarity=0.262 Sum_probs=45.0
Q ss_pred CCCcccccceeeeCCHHHHHHHhC---Cch-hHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccc
Q 024438 133 IQPVRCVVCNIDCNSKDVFQKHIS---GKK-HLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDS 208 (267)
Q Consensus 133 ~~~~~C~LCnVsctS~~~l~sH~~---GKK-Hqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~ 208 (267)
...+-|++|+..|.-...|.-|.. |+| |+ |..+-.+... .-+-+.-.+|. +...
T Consensus 892 ~gmyaCDqCDK~FqKqSSLaRHKYEHsGqRPyq-----------------C~iCkKAFKH-KHHLtEHkRLH----SGEK 949 (1007)
T KOG3623|consen 892 DGMYACDQCDKAFQKQSSLARHKYEHSGQRPYQ-----------------CIICKKAFKH-KHHLTEHKRLH----SGEK 949 (1007)
T ss_pred cccchHHHHHHHHHhhHHHHHhhhhhcCCCCcc-----------------cchhhHhhhh-hhhhhhhhhhc----cCCC
Confidence 457999999999988888877643 221 11 1000000000 00001112232 2244
Q ss_pred ccccccceeeeCCHHHHHHhhc
Q 024438 209 VRVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~ 230 (267)
.|-|+-|.+.|..-..|-+||+
T Consensus 950 PfQCdKClKRFSHSGSYSQHMN 971 (1007)
T KOG3623|consen 950 PFQCDKCLKRFSHSGSYSQHMN 971 (1007)
T ss_pred cchhhhhhhhcccccchHhhhc
Confidence 7999999999999999999996
No 98
>COG5067 DBF4 Protein kinase essential for the initiation of DNA replication [DNA replication, recombination, and repair / Cell division and chromosome partitioning]
Probab=44.08 E-value=6.8 Score=38.93 Aligned_cols=29 Identities=17% Similarity=0.366 Sum_probs=24.5
Q ss_pred cccccccceeeeCCHHHHHHhhcchhHHHHHH
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLSGKKHAAQVI 239 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvk 239 (267)
..-||+-|...+. .|++|+.|+||++-.+
T Consensus 421 k~GYCENCreky~---~lE~Hi~s~~HrrFAE 449 (468)
T COG5067 421 KKGYCENCREKYE---SLEQHIVSEKHRRFAE 449 (468)
T ss_pred ccchhHHHHHHHH---HHHHHhhhhhhhhhhh
Confidence 3579999999885 6899999999998655
No 99
>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=40.87 E-value=19 Score=21.93 Aligned_cols=20 Identities=30% Similarity=0.552 Sum_probs=16.9
Q ss_pred cccccceeeeCCHHHHHHhhc
Q 024438 210 RVCTVCNIACNGQEAFNDHLS 230 (267)
Q Consensus 210 ~~C~lCnVscnSe~~~~sHL~ 230 (267)
.-|.+|+..+ ++..+.+|+.
T Consensus 2 v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHH
Confidence 3599999999 7789999986
No 100
>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=37.12 E-value=22 Score=21.30 Aligned_cols=14 Identities=14% Similarity=0.399 Sum_probs=11.7
Q ss_pred cccccccceeeeCC
Q 024438 208 SVRVCTVCNIACNG 221 (267)
Q Consensus 208 ~~~~C~lCnVscnS 221 (267)
..|.|+.|+..|.+
T Consensus 13 k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 13 KPYKCPYCGKSFSN 26 (26)
T ss_dssp SSEEESSSSEEESS
T ss_pred CCCCCCCCcCeeCc
Confidence 46999999999863
No 101
>PF05477 SURF2: Surfeit locus protein 2 (SURF2); InterPro: IPR008833 Surfeit locus protein 2 is part of a group of at least six sequence unrelated genes (Surf-1 to Surf-6). The six Surfeit genes have been classified as housekeeping genes, being expressed in all tissue types tested and not containing a TATA box in their promoter region. The exact function of SURF2 is unknown [].
Probab=36.18 E-value=72 Score=29.71 Aligned_cols=89 Identities=19% Similarity=0.275 Sum_probs=51.7
Q ss_pred CCcccccceeeeCC-HHHHHHHhCCchhHHHHHhhcCCCccccccccccCCCCCCChhHHHHHHHhhhcCCCcccccccc
Q 024438 134 QPVRCVVCNIDCNS-KDVFQKHISGKKHLRNLQNQHNPSAATLKRSCNTINKVSLPSQELEMKRQKLLNGGAAVDSVRVC 212 (267)
Q Consensus 134 ~~~~C~LCnVsctS-~~~l~sH~~GKKHqknlk~l~~~~~~~~k~s~Nt~G~~~aP~ed~evkkqklle~~~~~~~~~~C 212 (267)
..+.|.+=+=-+-. ...++.|..|||=++.++...... ..+. . | -++ ........+||
T Consensus 24 ~rvrC~lTGHEmp~~~~~l~~y~~gKKy~~l~~~~~~~d--~~~y-----e----P---------~iv-ps~~~~~~LfC 82 (244)
T PF05477_consen 24 GRVRCTLTGHEMPCRLDELQQYIRGKKYQRLIRAKPEFD--FSKY-----E----P---------HIV-PSTKNPHKLFC 82 (244)
T ss_pred CeEEEeecCcccCCCHHHHHHHhccHHHHHHHhcccCCC--hHhc-----C----C---------ccc-cccCCCceeEE
Confidence 35566665533332 678999999999985433211110 0000 0 0 000 00112335777
Q ss_pred ccceeee-CCHHHHHHhhcchhHHHHHHHHhh
Q 024438 213 TVCNIAC-NGQEAFNDHLSGKKHAAQVITLLS 243 (267)
Q Consensus 213 ~lCnVsc-nSe~~~~sHL~GKKHkkkvkkl~~ 243 (267)
.|=.... .++.....|++|||=++.|.+.++
T Consensus 83 kLT~~~iNk~pe~V~rHv~GKRf~kaLek~ee 114 (244)
T PF05477_consen 83 KLTGRHINKSPEHVERHVNGKRFQKALEKYEE 114 (244)
T ss_pred echHhHhccCHHHHHHHhhhHHHHHHHHHHHH
Confidence 7665555 467899999999999999987655
No 102
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=35.99 E-value=15 Score=34.02 Aligned_cols=29 Identities=31% Similarity=0.718 Sum_probs=23.2
Q ss_pred cccccccceeee---CCHHHHHHhhcchhHHH
Q 024438 208 SVRVCTVCNIAC---NGQEAFNDHLSGKKHAA 236 (267)
Q Consensus 208 ~~~~C~lCnVsc---nSe~~~~sHL~GKKHkk 236 (267)
....|+||+... .+..-+..|+.||-|.-
T Consensus 189 kl~VCeVCGA~Ls~~D~d~RladH~~GK~HlG 220 (254)
T PF03194_consen 189 KLEVCEVCGAFLSVGDNDRRLADHFGGKQHLG 220 (254)
T ss_pred CccchhhhhhHHhccchHHHHHHHhccchhhh
Confidence 457899999655 45567999999999975
No 103
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=35.48 E-value=9.9 Score=34.59 Aligned_cols=35 Identities=17% Similarity=0.416 Sum_probs=25.3
Q ss_pred ccccccccceeeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 207 DSVRVCTVCNIACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 207 ~~~~~C~lCnVscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
+..|||++|++.+.. +.--.|..+--|+..++...
T Consensus 82 e~lfyCE~Cd~~ip~-~~~snH~tSttHllsl~~~p 116 (223)
T KOG2384|consen 82 EALFYCEVCDIYIPN-SKKSNHFTSTTHLLSLQHIP 116 (223)
T ss_pred CccchhhhhhhhccC-CCCccchhhHHHHhhhccCC
Confidence 457999999999853 22345888888888877543
No 104
>COG5067 DBF4 Protein kinase essential for the initiation of DNA replication [DNA replication, recombination, and repair / Cell division and chromosome partitioning]
Probab=33.36 E-value=15 Score=36.60 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=26.5
Q ss_pred CCCCCCcccccceeeeCCHHHHHHHhCCchhHHHHH
Q 024438 130 SKVIQPVRCVVCNIDCNSKDVFQKHISGKKHLRNLQ 165 (267)
Q Consensus 130 pK~~~~~~C~LCnVsctS~~~l~sH~~GKKHqknlk 165 (267)
.+....-||+-|.+.+. .|++|+.|++|+.=.+
T Consensus 417 k~etk~GYCENCreky~---~lE~Hi~s~~HrrFAE 449 (468)
T COG5067 417 KKETKKGYCENCREKYE---SLEQHIVSEKHRRFAE 449 (468)
T ss_pred hhccccchhHHHHHHHH---HHHHHhhhhhhhhhhh
Confidence 44556699999999874 6899999999997544
No 105
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=32.40 E-value=17 Score=36.64 Aligned_cols=36 Identities=28% Similarity=0.518 Sum_probs=31.6
Q ss_pred ccccccccce-eeeCCHHHHHHhhcchhHHHHHHHHh
Q 024438 207 DSVRVCTVCN-IACNGQEAFNDHLSGKKHAAQVITLL 242 (267)
Q Consensus 207 ~~~~~C~lCn-VscnSe~~~~sHL~GKKHkkkvkkl~ 242 (267)
+..|.|+||+ -+.+....|+.|++-.||.--++-|+
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCLG 435 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCLG 435 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhHHHHHhhcceecC
Confidence 5679999996 99999999999999999998776554
No 106
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=32.16 E-value=25 Score=33.93 Aligned_cols=31 Identities=35% Similarity=0.699 Sum_probs=24.6
Q ss_pred cccccccceeee---CCHHHHHHhhcchhHHHHH
Q 024438 208 SVRVCTVCNIAC---NGQEAFNDHLSGKKHAAQV 238 (267)
Q Consensus 208 ~~~~C~lCnVsc---nSe~~~~sHL~GKKHkkkv 238 (267)
..-.|+||+..+ .+..-+..|+.||-|.--+
T Consensus 185 kl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~ 218 (319)
T KOG0796|consen 185 KLRVCEVCGAFLSVNDADRRLADHFGGKLHLGYV 218 (319)
T ss_pred hhhHHHhhhHHHhccchHHHHHHhhcchHHHHHH
Confidence 356799999765 5667899999999997643
No 107
>KOG1994 consensus Predicted RNA binding protein, contains G-patch and Zn-finger domains [RNA processing and modification]
Probab=31.73 E-value=25 Score=32.71 Aligned_cols=25 Identities=20% Similarity=0.513 Sum_probs=23.1
Q ss_pred CcccccceeeeCCHHHHHHHhCCch
Q 024438 135 PVRCVVCNIDCNSKDVFQKHISGKK 159 (267)
Q Consensus 135 ~~~C~LCnVsctS~~~l~sH~~GKK 159 (267)
.|||=.|++.+.++.+|..|.-|-.
T Consensus 239 h~YC~fCG~~y~~~edl~ehCPGvn 263 (268)
T KOG1994|consen 239 HYYCFFCGIKYKDEEDLYEHCPGVN 263 (268)
T ss_pred ceEEEEeccccCCHHHHHHhCCCCC
Confidence 4999999999999999999998864
No 108
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=28.87 E-value=19 Score=35.40 Aligned_cols=30 Identities=17% Similarity=0.412 Sum_probs=27.7
Q ss_pred cccccccceeeeCCHHHHHHhhcchhHHHH
Q 024438 208 SVRVCTVCNIACNGQEAFNDHLSGKKHAAQ 237 (267)
Q Consensus 208 ~~~~C~lCnVscnSe~~~~sHL~GKKHkkk 237 (267)
.++.|--|-+.|.....+..||+-|+|++.
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK~Hrri 223 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKKRHRRI 223 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhccCccc
Confidence 378999999999999999999999999973
No 109
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=26.60 E-value=25 Score=33.04 Aligned_cols=23 Identities=17% Similarity=0.339 Sum_probs=15.1
Q ss_pred ccccccceeeeCCHHHHHHhhcc
Q 024438 209 VRVCTVCNIACNGQEAFNDHLSG 231 (267)
Q Consensus 209 ~~~C~lCnVscnSe~~~~sHL~G 231 (267)
..||=-||..|..+..|.+|.+-
T Consensus 10 kpwcwycnrefddekiliqhqka 32 (341)
T KOG2893|consen 10 KPWCWYCNREFDDEKILIQHQKA 32 (341)
T ss_pred Cceeeecccccchhhhhhhhhhh
Confidence 45666777777777766666554
No 110
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=25.69 E-value=33 Score=33.15 Aligned_cols=29 Identities=28% Similarity=0.474 Sum_probs=23.0
Q ss_pred CCcccccceeee---CCHHHHHHHhCCchhHH
Q 024438 134 QPVRCVVCNIDC---NSKDVFQKHISGKKHLR 162 (267)
Q Consensus 134 ~~~~C~LCnVsc---tS~~~l~sH~~GKKHqk 162 (267)
+.-.|+||.+-+ .+..-+..|+.||-|.-
T Consensus 185 kl~VCeVCGa~L~~~D~d~RlaDHf~GKlHlG 216 (319)
T KOG0796|consen 185 KLRVCEVCGAFLSVNDADRRLADHFGGKLHLG 216 (319)
T ss_pred hhhHHHhhhHHHhccchHHHHHHhhcchHHHH
Confidence 456799999644 46777899999999964
Done!