Query 015675
Match_columns 403
No_of_seqs 158 out of 189
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 08:31:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015675.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015675hhsearch_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 98.5 9.5E-08 2.1E-12 64.6 3.4 33 152-184 2-34 (35)
2 smart00451 ZnF_U1 U1-like zinc 98.5 1E-07 2.2E-12 64.4 2.9 31 2-32 4-34 (35)
3 PF12874 zf-met: Zinc-finger o 98.4 1.2E-07 2.6E-12 60.3 2.5 25 154-178 1-25 (25)
4 PF12874 zf-met: Zinc-finger o 98.3 4.6E-07 1E-11 57.6 2.0 25 2-26 1-25 (25)
5 PF12171 zf-C2H2_jaz: Zinc-fin 98.0 2.4E-06 5.3E-11 55.9 1.8 27 153-179 1-27 (27)
6 COG5188 PRP9 Splicing factor 3 97.9 6.2E-06 1.3E-10 84.0 3.7 35 151-185 372-407 (470)
7 PF12171 zf-C2H2_jaz: Zinc-fin 97.9 5.1E-06 1.1E-10 54.4 1.7 26 2-27 2-27 (27)
8 PF06220 zf-U1: U1 zinc finger 97.3 0.00017 3.7E-09 51.8 3.0 31 2-32 4-36 (38)
9 KOG4727 U1-like Zn-finger prot 97.3 0.00013 2.9E-09 68.2 2.8 35 150-184 72-106 (193)
10 PF06220 zf-U1: U1 zinc finger 97.0 0.00051 1.1E-08 49.4 2.8 32 153-184 3-36 (38)
11 PF11931 DUF3449: Domain of un 96.8 0.00027 5.8E-09 66.8 0.0 34 152-185 100-134 (196)
12 KOG4727 U1-like Zn-finger prot 96.4 0.0016 3.4E-08 61.2 2.1 33 2-34 76-108 (193)
13 KOG3408 U1-like Zn-finger-cont 95.7 0.0069 1.5E-07 54.2 2.4 37 150-186 54-90 (129)
14 KOG3408 U1-like Zn-finger-cont 95.6 0.0063 1.4E-07 54.5 1.9 35 2-36 58-92 (129)
15 KOG0717 Molecular chaperone (D 95.6 0.0079 1.7E-07 63.5 2.7 34 2-35 293-326 (508)
16 KOG0227 Splicing factor 3a, su 95.4 0.0079 1.7E-07 57.6 1.7 37 149-185 49-85 (222)
17 PLN02748 tRNA dimethylallyltra 95.3 0.012 2.5E-07 61.9 2.8 35 152-186 417-452 (468)
18 KOG0150 Spliceosomal protein F 94.3 0.024 5.3E-07 57.3 2.1 32 2-33 11-43 (336)
19 PF13894 zf-C2H2_4: C2H2-type 94.3 0.037 8.1E-07 33.4 2.1 21 154-174 1-21 (24)
20 KOG3454 U1 snRNP-specific prot 94.1 0.032 6.8E-07 52.0 2.2 32 2-33 4-37 (165)
21 KOG2636 Splicing factor 3a, su 94.0 0.024 5.2E-07 59.7 1.5 35 151-185 399-434 (497)
22 smart00586 ZnF_DBF Zinc finger 94.0 0.024 5.3E-07 43.3 1.1 25 2-29 6-30 (49)
23 KOG3032 Uncharacterized conser 93.6 0.14 3.1E-06 50.3 5.8 34 1-35 35-68 (264)
24 PF00096 zf-C2H2: Zinc finger, 93.3 0.07 1.5E-06 33.0 2.2 22 154-175 1-22 (23)
25 KOG0717 Molecular chaperone (D 93.0 0.06 1.3E-06 57.1 2.5 33 154-186 293-325 (508)
26 PF07535 zf-DBF: DBF zinc fing 93.0 0.059 1.3E-06 41.1 1.7 26 2-30 6-31 (49)
27 KOG2785 C2H2-type Zn-finger pr 92.8 0.1 2.2E-06 54.1 3.6 35 152-186 67-101 (390)
28 KOG3792 Transcription factor N 92.5 0.045 9.7E-07 60.4 0.7 32 154-185 236-267 (816)
29 PF13912 zf-C2H2_6: C2H2-type 92.5 0.1 2.3E-06 33.4 2.1 22 153-174 1-22 (27)
30 COG5246 PRP11 Splicing factor 92.2 0.084 1.8E-06 50.5 2.1 36 150-185 50-85 (222)
31 PF12756 zf-C2H2_2: C2H2 type 91.9 0.097 2.1E-06 41.0 1.8 31 153-183 50-80 (100)
32 KOG0227 Splicing factor 3a, su 91.8 0.092 2E-06 50.5 1.9 35 2-36 54-88 (222)
33 smart00586 ZnF_DBF Zinc finger 91.6 0.084 1.8E-06 40.4 1.1 30 153-185 5-34 (49)
34 KOG3032 Uncharacterized conser 91.4 0.21 4.6E-06 49.2 3.8 35 151-186 33-67 (264)
35 COG5246 PRP11 Splicing factor 91.4 0.12 2.6E-06 49.5 2.1 36 2-37 54-89 (222)
36 KOG3792 Transcription factor N 91.2 0.2 4.4E-06 55.5 3.9 35 150-184 356-390 (816)
37 PF07535 zf-DBF: DBF zinc fing 91.1 0.13 2.8E-06 39.3 1.6 29 153-184 5-33 (49)
38 KOG3454 U1 snRNP-specific prot 90.9 0.13 2.9E-06 48.0 1.9 33 153-185 3-37 (165)
39 COG5112 UFD2 U1-like Zn-finger 90.4 0.13 2.9E-06 45.6 1.3 35 2-36 56-90 (126)
40 smart00355 ZnF_C2H2 zinc finge 89.3 0.29 6.3E-06 29.5 1.9 23 154-178 1-23 (26)
41 PF12756 zf-C2H2_2: C2H2 type 89.0 0.16 3.5E-06 39.8 0.7 30 2-31 51-80 (100)
42 KOG4722 Zn-finger protein [Gen 88.7 0.22 4.8E-06 52.8 1.7 35 151-185 491-525 (672)
43 PF13912 zf-C2H2_6: C2H2-type 88.4 0.3 6.5E-06 31.3 1.6 22 1-22 1-22 (27)
44 PF13894 zf-C2H2_4: C2H2-type 88.1 0.32 7E-06 29.2 1.5 21 2-22 1-21 (24)
45 COG5112 UFD2 U1-like Zn-finger 87.1 0.43 9.3E-06 42.5 2.3 38 150-187 52-89 (126)
46 COG5188 PRP9 Splicing factor 3 86.6 0.36 7.9E-06 50.2 1.8 33 153-185 238-270 (470)
47 PF14968 CCDC84: Coiled coil p 85.0 0.17 3.6E-06 51.7 -1.6 41 145-185 50-96 (336)
48 smart00355 ZnF_C2H2 zinc finge 84.5 0.91 2E-05 27.2 2.2 21 2-22 1-21 (26)
49 PF00096 zf-C2H2: Zinc finger, 83.6 0.76 1.6E-05 28.3 1.6 21 2-22 1-21 (23)
50 PTZ00448 hypothetical protein; 78.4 1.6 3.4E-05 45.4 2.7 33 153-185 314-346 (373)
51 KOG0150 Spliceosomal protein F 76.1 1.5 3.3E-05 44.8 1.8 34 152-185 9-43 (336)
52 KOG4722 Zn-finger protein [Gen 75.8 1.8 3.8E-05 46.4 2.2 33 3-35 495-527 (672)
53 KOG1146 Homeobox protein [Gene 74.4 4.9 0.00011 47.7 5.4 35 2-36 519-553 (1406)
54 PF13909 zf-H2C2_5: C2H2-type 72.8 3.1 6.8E-05 26.1 2.0 21 154-175 1-21 (24)
55 COG5136 U1 snRNP-specific prot 71.1 1.4 3.1E-05 41.6 0.3 31 2-32 4-36 (188)
56 PF14968 CCDC84: Coiled coil p 69.2 2.1 4.6E-05 43.9 0.9 30 3-35 1-30 (336)
57 COG5136 U1 snRNP-specific prot 66.9 1.8 3.9E-05 41.0 -0.1 31 153-183 3-35 (188)
58 PTZ00448 hypothetical protein; 63.7 6.3 0.00014 41.2 3.1 34 2-35 315-348 (373)
59 PHA02768 hypothetical protein; 59.9 5.4 0.00012 31.4 1.5 31 152-184 4-34 (55)
60 PHA00616 hypothetical protein 59.2 5.5 0.00012 30.1 1.3 21 153-173 1-21 (44)
61 KOG2837 Protein containing a U 53.9 2.3 5E-05 43.0 -1.8 36 152-187 24-59 (309)
62 PF11931 DUF3449: Domain of un 53.8 4.3 9.3E-05 38.9 0.0 35 2-36 102-137 (196)
63 KOG2462 C2H2-type Zn-finger pr 49.4 12 0.00025 38.0 2.2 39 134-178 202-240 (279)
64 KOG3576 Ovo and related transc 48.5 8.5 0.00018 38.1 1.1 47 150-196 170-219 (267)
65 KOG1074 Transcriptional repres 48.5 6.2 0.00014 45.1 0.2 30 150-179 630-659 (958)
66 PF04988 AKAP95: A-kinase anch 47.4 17 0.00037 34.3 2.8 32 2-33 1-32 (165)
67 PF04988 AKAP95: A-kinase anch 47.3 15 0.00032 34.7 2.4 35 154-188 1-35 (165)
68 PF12907 zf-met2: Zinc-binding 46.7 9.7 0.00021 28.2 0.9 26 2-28 2-30 (40)
69 PHA00732 hypothetical protein 45.6 15 0.00032 30.3 1.9 22 153-174 1-22 (79)
70 KOG2785 C2H2-type Zn-finger pr 45.0 14 0.00031 38.8 2.2 49 152-200 2-50 (390)
71 PF03194 LUC7: LUC7 N_terminus 44.3 10 0.00022 37.2 0.9 40 1-40 190-232 (254)
72 KOG3623 Homeobox transcription 44.3 10 0.00022 43.2 1.0 45 150-194 306-350 (1007)
73 PHA00616 hypothetical protein 44.1 14 0.0003 28.0 1.4 21 1-21 1-21 (44)
74 KOG2893 Zn finger protein [Gen 41.1 11 0.00025 37.9 0.7 23 2-24 11-33 (341)
75 smart00734 ZnF_Rad18 Rad18-lik 40.9 23 0.0005 23.6 1.9 21 1-22 1-21 (26)
76 PF13913 zf-C2HC_2: zinc-finge 40.9 23 0.0005 23.3 1.9 20 1-21 2-21 (25)
77 PF09237 GAGA: GAGA factor; I 38.2 20 0.00044 28.3 1.5 21 2-22 25-45 (54)
78 PF03194 LUC7: LUC7 N_terminus 37.6 17 0.00037 35.7 1.3 30 153-182 190-222 (254)
79 KOG2384 Major histocompatibili 36.1 14 0.00031 36.1 0.5 35 150-185 81-115 (223)
80 PF13465 zf-H2C2_2: Zinc-finge 35.5 25 0.00053 22.9 1.4 14 151-164 12-25 (26)
81 KOG2505 Ankyrin repeat protein 35.2 33 0.00071 37.7 3.0 34 2-35 67-100 (591)
82 KOG2505 Ankyrin repeat protein 34.6 32 0.00069 37.8 2.8 71 153-223 66-146 (591)
83 PF12907 zf-met2: Zinc-binding 33.1 20 0.00044 26.6 0.8 26 154-180 2-30 (40)
84 KOG2893 Zn finger protein [Gen 31.9 23 0.00051 35.8 1.2 40 154-197 11-50 (341)
85 KOG0796 Spliceosome subunit [R 30.5 24 0.00052 36.4 1.1 40 1-40 186-228 (319)
86 PF09237 GAGA: GAGA factor; I 28.8 42 0.00091 26.6 1.9 22 153-174 24-45 (54)
87 KOG1146 Homeobox protein [Gene 28.4 52 0.0011 39.7 3.4 35 151-185 516-550 (1406)
88 PHA02768 hypothetical protein; 26.7 42 0.0009 26.5 1.6 24 2-27 6-29 (55)
89 PHA00732 hypothetical protein 23.6 62 0.0013 26.7 2.2 21 2-22 2-22 (79)
90 PHA00733 hypothetical protein 23.3 60 0.0013 28.7 2.1 23 152-174 72-94 (128)
91 PF04959 ARS2: Arsenite-resist 23.1 35 0.00075 33.2 0.7 51 152-203 76-126 (214)
92 KOG3608 Zn finger proteins [Ge 20.5 55 0.0012 34.8 1.5 27 150-176 260-286 (467)
93 COG4049 Uncharacterized protei 20.4 59 0.0013 26.4 1.3 25 150-174 14-38 (65)
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=98.51 E-value=9.5e-08 Score=64.58 Aligned_cols=33 Identities=42% Similarity=0.767 Sum_probs=30.9
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhh
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~ 184 (403)
..|+|++||+.|++...+.+|++|+||..++++
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 369999999999999999999999999999975
No 2
>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=98.48 E-value=1e-07 Score=64.42 Aligned_cols=31 Identities=35% Similarity=0.740 Sum_probs=29.5
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRT 32 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~ 32 (403)
++|++|+++|++...+.+|+.||+|++++++
T Consensus 4 ~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~ 34 (35)
T smart00451 4 FYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34 (35)
T ss_pred eEccccCCccCCHHHHHHHHChHHHHHHHHc
Confidence 6899999999999999999999999999875
No 3
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.45 E-value=1.2e-07 Score=60.29 Aligned_cols=25 Identities=36% Similarity=0.731 Sum_probs=24.5
Q ss_pred eecccCcccccCHHHHHHhhchhhH
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKH 178 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKH 178 (403)
|+|++|++.|+++.+|.+|++|+||
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 7999999999999999999999999
No 4
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=98.26 E-value=4.6e-07 Score=57.57 Aligned_cols=25 Identities=28% Similarity=0.679 Sum_probs=24.2
Q ss_pred cccccCccccCCHHHHHHHhchhHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRH 26 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKH 26 (403)
++|.+|++.|+++..|++|++||+|
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 5899999999999999999999999
No 5
>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=98.03 E-value=2.4e-06 Score=55.92 Aligned_cols=27 Identities=26% Similarity=0.545 Sum_probs=25.2
Q ss_pred ceecccCcccccCHHHHHHhhchhhHH
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHL 179 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHq 179 (403)
.|+|.+|++.|+++.+|.+|++|++|+
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 489999999999999999999999995
No 6
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=97.94 E-value=6.2e-06 Score=83.95 Aligned_cols=35 Identities=26% Similarity=0.514 Sum_probs=32.9
Q ss_pred CCceecccC-cccccCHHHHHHhhchhhHHHhhhhh
Q 015675 151 VIPLICELC-NVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 151 ~~~~~CeIC-NV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
..-|.|+|| |.++++...|..|+.-.+|...|+++
T Consensus 372 d~ef~CEICgNyvy~GR~~FdrHF~E~rHiygl~cl 407 (470)
T COG5188 372 DIEFECEICGNYVYYGRDRFDRHFEEDRHIYGLECL 407 (470)
T ss_pred CcceeeeecccccccchHHHHhhhhhhhhhhheeec
Confidence 357999999 79999999999999999999999998
No 7
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=97.92 E-value=5.1e-06 Score=54.41 Aligned_cols=26 Identities=31% Similarity=0.617 Sum_probs=25.3
Q ss_pred cccccCccccCCHHHHHHHhchhHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHK 27 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHk 27 (403)
++|.+|+..|+++..|++|+.||+||
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 69999999999999999999999997
No 8
>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=97.35 E-value=0.00017 Score=51.84 Aligned_cols=31 Identities=29% Similarity=0.673 Sum_probs=20.9
Q ss_pred cccccCcccc--CCHHHHHHHhchhHHHHHHHH
Q 015675 2 AWCELCRVDC--NTLEILEQHKNGKRHKRNLRT 32 (403)
Q Consensus 2 ~~C~LCqV~c--nS~~vl~~Hl~GKKHkknl~~ 32 (403)
.||+.|++++ +++.+=.+|..|++|+.|++.
T Consensus 4 yyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 4 YYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp -B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred eecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence 6999999999 677888999999999999875
No 9
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=97.33 E-value=0.00013 Score=68.22 Aligned_cols=35 Identities=26% Similarity=0.487 Sum_probs=32.1
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhh
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~ 184 (403)
..+.|+|.|||-.+....+|..|+|||||+.+|--
T Consensus 72 q~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgm 106 (193)
T KOG4727|consen 72 QKGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGM 106 (193)
T ss_pred ccCceeeeecceeehhhHHHHHHhccHHHHHHHhh
Confidence 45789999999999999999999999999999843
No 10
>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=97.04 E-value=0.00051 Score=49.39 Aligned_cols=32 Identities=34% Similarity=0.526 Sum_probs=21.1
Q ss_pred ceecccCcccc--cCHHHHHHhhchhhHHHhhhh
Q 015675 153 PLICELCNVKC--ESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 153 ~~~CeICNV~c--nSe~~y~sHL~GKKHqkkLK~ 184 (403)
.|+|+.|++.+ ++...-..|..|+||+.++++
T Consensus 3 ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~ 36 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR 36 (38)
T ss_dssp S-B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred CeecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence 59999999999 566777999999999999975
No 11
>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=96.85 E-value=0.00027 Score=66.84 Aligned_cols=34 Identities=21% Similarity=0.543 Sum_probs=0.0
Q ss_pred CceecccC-cccccCHHHHHHhhchhhHHHhhhhh
Q 015675 152 IPLICELC-NVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 152 ~~~~CeIC-NV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
..|.|+|| |.+|.+..+|..||+..||+..||+|
T Consensus 100 ~ey~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcL 134 (196)
T PF11931_consen 100 VEYKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCL 134 (196)
T ss_dssp -----------------------------------
T ss_pred CeeeeEeCCCcceecHHHHHHhcChhHHHccChhc
Confidence 47999999 99999999999999999999999999
No 12
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=96.44 E-value=0.0016 Score=61.25 Aligned_cols=33 Identities=30% Similarity=0.578 Sum_probs=30.3
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHA 34 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~ 34 (403)
+||.||+-.|--...|..|++||+|++|+.-+-
T Consensus 76 yyCdVCdcvvKDSinflDHiNgKkHqrnlgmsm 108 (193)
T KOG4727|consen 76 YYCDVCDCVVKDSINFLDHINGKKHQRNLGMSM 108 (193)
T ss_pred eeeeecceeehhhHHHHHHhccHHHHHHHhhhh
Confidence 799999999999999999999999999987653
No 13
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=95.70 E-value=0.0069 Score=54.18 Aligned_cols=37 Identities=22% Similarity=0.291 Sum_probs=35.5
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhhhc
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRFH 186 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~ 186 (403)
+.+.|+|-.|...|-++.+|..|+.+|.|.++||.+.
T Consensus 54 G~GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~ 90 (129)
T KOG3408|consen 54 GGGQFYCIECARYFIDAKALKTHFKTKVHKRRVKELR 90 (129)
T ss_pred CCceeehhhhhhhhcchHHHHHHHhccHHHHHHHhcc
Confidence 6789999999999999999999999999999999996
No 14
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=95.63 E-value=0.0063 Score=54.47 Aligned_cols=35 Identities=23% Similarity=0.372 Sum_probs=33.2
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHADL 36 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~~ 36 (403)
+||-.|.--|.+..+|..|+.+|.||++|..|++.
T Consensus 58 fyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~~~ 92 (129)
T KOG3408|consen 58 FYCIECARYFIDAKALKTHFKTKVHKRRVKELREV 92 (129)
T ss_pred eehhhhhhhhcchHHHHHHHhccHHHHHHHhcccC
Confidence 79999999999999999999999999999999864
No 15
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0079 Score=63.48 Aligned_cols=34 Identities=26% Similarity=0.579 Sum_probs=32.4
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
+||.+|+.+|-|.-++..|.+.|+|++||+.|..
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLrq 326 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVAELRQ 326 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999963
No 16
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=95.37 E-value=0.0079 Score=57.55 Aligned_cols=37 Identities=27% Similarity=0.402 Sum_probs=33.7
Q ss_pred CCCCceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 149 KGVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 149 ~~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
.+.++|.|.+|+-.-+++..|..|.+||||+.+|-+.
T Consensus 49 Nh~G~yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarr 85 (222)
T KOG0227|consen 49 NHLGKYECKLCLTLHNNEGSYLAHTQGKKHQTNLARR 85 (222)
T ss_pred ccCcceeehhhhhhhcchhhhhhhhccchhhHHHHHH
Confidence 3678999999999999999999999999999998665
No 17
>PLN02748 tRNA dimethylallyltransferase
Probab=95.29 E-value=0.012 Score=61.93 Aligned_cols=35 Identities=23% Similarity=0.500 Sum_probs=32.2
Q ss_pred CceecccCcc-cccCHHHHHHhhchhhHHHhhhhhc
Q 015675 152 IPLICELCNV-KCESQVVFDSHLVGKKHLANVKRFH 186 (403)
Q Consensus 152 ~~~~CeICNV-~cnSe~~y~sHL~GKKHqkkLK~l~ 186 (403)
..|.|++|+. .+.++...+.|++|++|.+++|...
T Consensus 417 ~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~ 452 (468)
T PLN02748 417 TQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLK 452 (468)
T ss_pred ccccccCCCCcccCCHHHHHHHhcchHHHHHHhHHH
Confidence 5788999997 8999999999999999999998774
No 18
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=94.30 E-value=0.024 Score=57.31 Aligned_cols=32 Identities=28% Similarity=0.666 Sum_probs=28.3
Q ss_pred cccccCcccc-CCHHHHHHHhchhHHHHHHHHh
Q 015675 2 AWCELCRVDC-NTLEILEQHKNGKRHKRNLRTH 33 (403)
Q Consensus 2 ~~C~LCqV~c-nS~~vl~~Hl~GKKHkknl~~L 33 (403)
.||.+|++|+ +++..-+.|-+||||+.||.+.
T Consensus 11 kfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kr 43 (336)
T KOG0150|consen 11 KFCDYCKIWIKDNPASVRFHERGKRHKENVAKR 43 (336)
T ss_pred hhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHH
Confidence 5899999998 5778888999999999999764
No 19
>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=94.25 E-value=0.037 Score=33.41 Aligned_cols=21 Identities=19% Similarity=0.529 Sum_probs=17.8
Q ss_pred eecccCcccccCHHHHHHhhc
Q 015675 154 LICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~ 174 (403)
|.|++|+..|.+...|..|+.
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 789999999999999999985
No 20
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=94.08 E-value=0.032 Score=52.00 Aligned_cols=32 Identities=25% Similarity=0.665 Sum_probs=27.8
Q ss_pred cccccCccc--cCCHHHHHHHhchhHHHHHHHHh
Q 015675 2 AWCELCRVD--CNTLEILEQHKNGKRHKRNLRTH 33 (403)
Q Consensus 2 ~~C~LCqV~--cnS~~vl~~Hl~GKKHkknl~~L 33 (403)
+||+.|+.. =+|.+|=.+|+.|+||++|++--
T Consensus 4 YyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~Y 37 (165)
T KOG3454|consen 4 YYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKDY 37 (165)
T ss_pred chhhhhhhhhhcccHHHHHhhhhhHHHHHHHHHH
Confidence 689999954 46999999999999999998753
No 21
>KOG2636 consensus Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=94.03 E-value=0.024 Score=59.71 Aligned_cols=35 Identities=26% Similarity=0.509 Sum_probs=33.1
Q ss_pred CCceecccC-cccccCHHHHHHhhchhhHHHhhhhh
Q 015675 151 VIPLICELC-NVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 151 ~~~~~CeIC-NV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
...|.|+|| |-++++...|+.|++-++|+..||++
T Consensus 399 ~~ey~CEICGNy~Y~GrkaF~RHF~EwRH~hGmrCL 434 (497)
T KOG2636|consen 399 DIEYNCEICGNYVYKGRKAFDRHFNEWRHAHGMRCL 434 (497)
T ss_pred CcccceeeccCccccCcHHHHHHhHHHHHhhcceec
Confidence 357999999 79999999999999999999999998
No 22
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=94.01 E-value=0.024 Score=43.34 Aligned_cols=25 Identities=36% Similarity=0.700 Sum_probs=22.5
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRN 29 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkkn 29 (403)
.||+.|.+.|. .|..|+.+++|++=
T Consensus 6 GYCE~Cr~kfd---~l~~Hi~s~~Hr~F 30 (49)
T smart00586 6 GYCENCREKYD---DLETHLLSEKHRRF 30 (49)
T ss_pred cccccHhHHHh---hHHHHhccHHHHHH
Confidence 59999999997 78999999999973
No 23
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.56 E-value=0.14 Score=50.34 Aligned_cols=34 Identities=21% Similarity=0.488 Sum_probs=31.3
Q ss_pred CcccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 1 MAWCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 1 ~~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
.+.|.||++-.- +.....|.+||+|+-++..|..
T Consensus 35 ql~C~vCn~piK-p~lW~vHvnsKkHre~id~lKs 68 (264)
T KOG3032|consen 35 QLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSLKS 68 (264)
T ss_pred CeeEEEecCccc-HHHHHHHhccHHHHHHHHHHHh
Confidence 367999999999 9999999999999999999973
No 24
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=93.32 E-value=0.07 Score=33.01 Aligned_cols=22 Identities=18% Similarity=0.455 Sum_probs=20.4
Q ss_pred eecccCcccccCHHHHHHhhch
Q 015675 154 LICELCNVKCESQVVFDSHLVG 175 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~G 175 (403)
|.|.+|+..|.+...|..|+.-
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 7899999999999999999864
No 25
>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=93.04 E-value=0.06 Score=57.08 Aligned_cols=33 Identities=33% Similarity=0.550 Sum_probs=31.8
Q ss_pred eecccCcccccCHHHHHHhhchhhHHHhhhhhc
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKHLANVKRFH 186 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~ 186 (403)
++|-+||.+|.|+.++.-|-+.|||..+|..+-
T Consensus 293 lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLr 325 (508)
T KOG0717|consen 293 LYCVVCNKSFKSEKQLKNHENSKKHKENVAELR 325 (508)
T ss_pred eEEeeccccccchHHHHhhHHHHHHHHHHHHHH
Confidence 999999999999999999999999999998884
No 26
>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=92.96 E-value=0.059 Score=41.13 Aligned_cols=26 Identities=35% Similarity=0.769 Sum_probs=22.9
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNL 30 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl 30 (403)
.||+.|.+.|. .|..|+.+++|++=.
T Consensus 6 GYCE~C~~ky~---~l~~Hi~s~~Hr~FA 31 (49)
T PF07535_consen 6 GYCENCRVKYD---DLEEHIQSEKHRKFA 31 (49)
T ss_pred ccCccccchhh---hHHHHhCCHHHHHHH
Confidence 59999999998 599999999999743
No 27
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=92.78 E-value=0.1 Score=54.11 Aligned_cols=35 Identities=31% Similarity=0.555 Sum_probs=32.1
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhhhc
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKRFH 186 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~ 186 (403)
..++|++||..+.|...+..|+..+||..++.++.
T Consensus 67 ~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~ 101 (390)
T KOG2785|consen 67 SVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQ 101 (390)
T ss_pred cceehHHhhccccChhhHHHHHHHhhcchhhhhhh
Confidence 46899999999999999999999999999997763
No 28
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=92.50 E-value=0.045 Score=60.42 Aligned_cols=32 Identities=25% Similarity=0.303 Sum_probs=30.4
Q ss_pred eecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
|+|+.|.++|++..-|..|+.+.+|.+..|..
T Consensus 236 l~cEksi~tcs~pd~~g~alRrv~ec~~skL~ 267 (816)
T KOG3792|consen 236 LHCEKSIVTCSGPDAYGAALRRVKECKVSKLH 267 (816)
T ss_pred HHHHHhhccccCccchHHHHHHHHHhhhhccc
Confidence 59999999999999999999999999998876
No 29
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=92.46 E-value=0.1 Score=33.42 Aligned_cols=22 Identities=23% Similarity=0.478 Sum_probs=20.4
Q ss_pred ceecccCcccccCHHHHHHhhc
Q 015675 153 PLICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~ 174 (403)
.|.|.+|+..|.+...|..|+.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHC
T ss_pred CCCCCccCCccCChhHHHHHhH
Confidence 4899999999999999999984
No 30
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=92.22 E-value=0.084 Score=50.50 Aligned_cols=36 Identities=31% Similarity=0.464 Sum_probs=32.6
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
+.+.|.|.+|+-.-.++..|..|..||||+.++-+.
T Consensus 50 h~Gk~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~rr 85 (222)
T COG5246 50 HTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRR 85 (222)
T ss_pred CCCcEEeeeeccccccHHHHHHhhccchhhhhHHHH
Confidence 567999999999999999999999999999887554
No 31
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=91.93 E-value=0.097 Score=41.03 Aligned_cols=31 Identities=23% Similarity=0.453 Sum_probs=26.3
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhh
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVK 183 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK 183 (403)
.|.|.+|+..|.+...|..||+.+.|.+...
T Consensus 50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~ 80 (100)
T PF12756_consen 50 SFRCPYCNKTFRSREALQEHMRSKHHKKRNS 80 (100)
T ss_dssp SEEBSSSS-EESSHHHHHHHHHHTTTTC-S-
T ss_pred CCCCCccCCCCcCHHHHHHHHcCccCCCccc
Confidence 5899999999999999999999999988653
No 32
>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=91.84 E-value=0.092 Score=50.47 Aligned_cols=35 Identities=31% Similarity=0.423 Sum_probs=31.7
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHADL 36 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~~ 36 (403)
+-|.||.---+++..+..|..||||+.||.+-...
T Consensus 54 yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarraa~ 88 (222)
T KOG0227|consen 54 YECKLCLTLHNNEGSYLAHTQGKKHQTNLARRAAK 88 (222)
T ss_pred eeehhhhhhhcchhhhhhhhccchhhHHHHHHHHH
Confidence 46999999999999999999999999999887553
No 33
>smart00586 ZnF_DBF Zinc finger in DBF-like proteins.
Probab=91.61 E-value=0.084 Score=40.45 Aligned_cols=30 Identities=30% Similarity=0.538 Sum_probs=25.0
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
+-+||+|.+.|. .|..|+.++||++=.+..
T Consensus 5 ~GYCE~Cr~kfd---~l~~Hi~s~~Hr~FA~~~ 34 (49)
T smart00586 5 PGYCENCREKYD---DLETHLLSEKHRRFAENN 34 (49)
T ss_pred CcccccHhHHHh---hHHHHhccHHHHHHHcCc
Confidence 349999999987 799999999998766443
No 34
>KOG3032 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.39 E-value=0.21 Score=49.23 Aligned_cols=35 Identities=29% Similarity=0.601 Sum_probs=31.7
Q ss_pred CCceecccCcccccCHHHHHHhhchhhHHHhhhhhc
Q 015675 151 VIPLICELCNVKCESQVVFDSHLVGKKHLANVKRFH 186 (403)
Q Consensus 151 ~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~ 186 (403)
.+.+.|-+||+-.. +.....|.+||||...+-.+.
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 46899999999999 999999999999998887764
No 35
>COG5246 PRP11 Splicing factor 3a, subunit 2 [RNA processing and modification]
Probab=91.38 E-value=0.12 Score=49.50 Aligned_cols=36 Identities=28% Similarity=0.463 Sum_probs=32.6
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHADLQ 37 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~~~ 37 (403)
+.|.||+-.--+.+.+..|..||||+.|+.+..+.+
T Consensus 54 ~vC~LC~T~H~~e~Sy~~H~~GKKH~~n~~rrs~ek 89 (222)
T COG5246 54 YVCLLCKTKHLTEMSYVKHREGKKHKENSSRRSEEK 89 (222)
T ss_pred EEeeeeccccccHHHHHHhhccchhhhhHHHHHHHh
Confidence 579999999999999999999999999999886643
No 36
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=91.15 E-value=0.2 Score=55.48 Aligned_cols=35 Identities=26% Similarity=0.567 Sum_probs=31.0
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhh
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~ 184 (403)
....|+|.+|+-.|+....-..|++|+||.-..|+
T Consensus 356 K~~~f~cKlcdckf~d~nak~mhl~grRhrLQYk~ 390 (816)
T KOG3792|consen 356 KLLRFHCKLCDCKFNDPNAKEMHLKGRRHRLQYKQ 390 (816)
T ss_pred chHhhhhhhhcCCCCCcchHHhhhhcccccceecc
Confidence 35689999999999999999999999999777663
No 37
>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=91.10 E-value=0.13 Score=39.32 Aligned_cols=29 Identities=31% Similarity=0.589 Sum_probs=24.6
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhhh
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~ 184 (403)
+-+||.|.+.|. .|..|+.+.+|++=+..
T Consensus 5 ~GYCE~C~~ky~---~l~~Hi~s~~Hr~FA~~ 33 (49)
T PF07535_consen 5 PGYCENCRVKYD---DLEEHIQSEKHRKFAEN 33 (49)
T ss_pred CccCccccchhh---hHHHHhCCHHHHHHHcC
Confidence 349999999998 69999999999876643
No 38
>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]
Probab=90.91 E-value=0.13 Score=47.96 Aligned_cols=33 Identities=33% Similarity=0.575 Sum_probs=28.2
Q ss_pred ceecccCccccc--CHHHHHHhhchhhHHHhhhhh
Q 015675 153 PLICELCNVKCE--SQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 153 ~~~CeICNV~cn--Se~~y~sHL~GKKHqkkLK~l 185 (403)
.|+|+-|+...+ |-.+=..|..|+||.+++|-.
T Consensus 3 RYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk~Y 37 (165)
T KOG3454|consen 3 RYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVKDY 37 (165)
T ss_pred cchhhhhhhhhhcccHHHHHhhhhhHHHHHHHHHH
Confidence 599999996654 678899999999999998754
No 39
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=90.36 E-value=0.13 Score=45.56 Aligned_cols=35 Identities=31% Similarity=0.487 Sum_probs=33.2
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHADL 36 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~~ 36 (403)
.||--|..-|.+..+|..|+.||-|++.+..|++.
T Consensus 56 hYCieCaryf~t~~aL~~HkkgkvHkRR~KelRev 90 (126)
T COG5112 56 HYCIECARYFITEKALMEHKKGKVHKRRAKELREV 90 (126)
T ss_pred eeeehhHHHHHHHHHHHHHhccchhHHHHHHHhcC
Confidence 59999999999999999999999999999999885
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=89.31 E-value=0.29 Score=29.45 Aligned_cols=23 Identities=22% Similarity=0.481 Sum_probs=20.8
Q ss_pred eecccCcccccCHHHHHHhhchhhH
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKH 178 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKH 178 (403)
|.|..|+..|.+...|..|+. .|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~--~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR--TH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH--Hh
Confidence 579999999999999999987 55
No 41
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=88.97 E-value=0.16 Score=39.80 Aligned_cols=30 Identities=27% Similarity=0.493 Sum_probs=25.3
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLR 31 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~ 31 (403)
+.|.+|+..|.+...|..|+..+.|++...
T Consensus 51 ~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~ 80 (100)
T PF12756_consen 51 FRCPYCNKTFRSREALQEHMRSKHHKKRNS 80 (100)
T ss_dssp EEBSSSS-EESSHHHHHHHHHHTTTTC-S-
T ss_pred CCCCccCCCCcCHHHHHHHHcCccCCCccc
Confidence 579999999999999999999999997544
No 42
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=88.74 E-value=0.22 Score=52.85 Aligned_cols=35 Identities=34% Similarity=0.533 Sum_probs=32.0
Q ss_pred CCceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 151 VIPLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 151 ~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
.+...|.+|||...|++-|-+|..|+||+..|+.+
T Consensus 491 erkkqcslcnvlissevylfshvkgrkhqqal~e~ 525 (672)
T KOG4722|consen 491 ERKKQCSLCNVLISSEVYLFSHVKGRKHQQALNEL 525 (672)
T ss_pred HhhhccchhhhhhhhhhhhhhhhcchhHHHHHHHH
Confidence 34678999999999999999999999999999876
No 43
>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=88.39 E-value=0.3 Score=31.26 Aligned_cols=22 Identities=27% Similarity=0.483 Sum_probs=19.9
Q ss_pred CcccccCccccCCHHHHHHHhc
Q 015675 1 MAWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 1 ~~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
++.|.+|+..|.+...|..|..
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~ 22 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKR 22 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHC
T ss_pred CCCCCccCCccCChhHHHHHhH
Confidence 3679999999999999999983
No 44
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=88.14 E-value=0.32 Score=29.20 Aligned_cols=21 Identities=24% Similarity=0.422 Sum_probs=17.1
Q ss_pred cccccCccccCCHHHHHHHhc
Q 015675 2 AWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
+.|.+|...|.+...|..|+.
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 369999999999999999974
No 45
>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]
Probab=87.14 E-value=0.43 Score=42.45 Aligned_cols=38 Identities=21% Similarity=0.273 Sum_probs=35.1
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhhhcC
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRFHG 187 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g 187 (403)
+.+.++|=-|...|-++.+|-.|..|+-|..++|.+-+
T Consensus 52 GlGqhYCieCaryf~t~~aL~~HkkgkvHkRR~KelRe 89 (126)
T COG5112 52 GLGQHYCIECARYFITEKALMEHKKGKVHKRRAKELRE 89 (126)
T ss_pred CCceeeeehhHHHHHHHHHHHHHhccchhHHHHHHHhc
Confidence 66789999999999999999999999999999999844
No 46
>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]
Probab=86.60 E-value=0.36 Score=50.20 Aligned_cols=33 Identities=27% Similarity=0.481 Sum_probs=30.2
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
.++|..|...|....+|..|+.||.|-+..+.-
T Consensus 238 ~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~ 270 (470)
T COG5188 238 KVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGK 270 (470)
T ss_pred ceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhh
Confidence 689999999999999999999999998887554
No 47
>PF14968 CCDC84: Coiled coil protein 84
Probab=84.97 E-value=0.17 Score=51.70 Aligned_cols=41 Identities=24% Similarity=0.398 Sum_probs=32.1
Q ss_pred CCCCCCCCceecccCcccccCH------HHHHHhhchhhHHHhhhhh
Q 015675 145 PPKPKGVIPLICELCNVKCESQ------VVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 145 pp~~~~~~~~~CeICNV~cnSe------~~y~sHL~GKKHqkkLK~l 185 (403)
.+.......|||-.|+....-- ..+..||.+.-|+++|+.+
T Consensus 50 ~~~~~~~~~fWC~fC~~ev~~~~s~~~~~~ai~HLaS~eH~k~vk~F 96 (336)
T PF14968_consen 50 RYDPEHRNRFWCVFCDCEVREHDSSFACGGAIEHLASPEHRKNVKKF 96 (336)
T ss_pred CCCccccceeEeeCccchhhhccchhhhccHHhhcCCHHHHHHHHHH
Confidence 3445567899999997666533 3567899999999999998
No 48
>smart00355 ZnF_C2H2 zinc finger.
Probab=84.47 E-value=0.91 Score=27.23 Aligned_cols=21 Identities=19% Similarity=0.333 Sum_probs=19.3
Q ss_pred cccccCccccCCHHHHHHHhc
Q 015675 2 AWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
+.|..|...|.+...|..|..
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~ 21 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMR 21 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHH
Confidence 369999999999999999986
No 49
>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=83.62 E-value=0.76 Score=28.31 Aligned_cols=21 Identities=19% Similarity=0.412 Sum_probs=19.2
Q ss_pred cccccCccccCCHHHHHHHhc
Q 015675 2 AWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
+.|.+|...|.+...|..|..
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 369999999999999999975
No 50
>PTZ00448 hypothetical protein; Provisional
Probab=78.41 E-value=1.6 Score=45.44 Aligned_cols=33 Identities=30% Similarity=0.557 Sum_probs=31.8
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
.|.|..|++.|.+...+..|+..-=|.++||+.
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRk 346 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRN 346 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHHHHH
Confidence 689999999999999999999999999999987
No 51
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=76.12 E-value=1.5 Score=44.79 Aligned_cols=34 Identities=24% Similarity=0.433 Sum_probs=28.8
Q ss_pred CceecccCcccc-cCHHHHHHhhchhhHHHhhhhh
Q 015675 152 IPLICELCNVKC-ESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 152 ~~~~CeICNV~c-nSe~~y~sHL~GKKHqkkLK~l 185 (403)
..++|++|.|++ +....-..|=.|++|+.+|.+.
T Consensus 9 ~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~Kr 43 (336)
T KOG0150|consen 9 PKKFCDYCKIWIKDNPASVRFHERGKRHKENVAKR 43 (336)
T ss_pred cchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHHH
Confidence 368999999887 5678888999999999998654
No 52
>KOG4722 consensus Zn-finger protein [General function prediction only]
Probab=75.83 E-value=1.8 Score=46.37 Aligned_cols=33 Identities=27% Similarity=0.438 Sum_probs=29.2
Q ss_pred ccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 3 WCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 3 ~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
-|+||+|-..|..-|-+|..|+||+.-|..+..
T Consensus 495 qcslcnvlissevylfshvkgrkhqqal~e~~~ 527 (672)
T KOG4722|consen 495 QCSLCNVLISSEVYLFSHVKGRKHQQALNELLL 527 (672)
T ss_pred ccchhhhhhhhhhhhhhhhcchhHHHHHHHHhc
Confidence 599999999999999999999999976666544
No 53
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=74.43 E-value=4.9 Score=47.70 Aligned_cols=35 Identities=20% Similarity=0.281 Sum_probs=31.5
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHADL 36 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~~ 36 (403)
+.|..|++++++...|-.|+.--+|+.+++...+.
T Consensus 519 ~~C~~C~~stttng~LsihlqS~~h~~~lee~~~~ 553 (1406)
T KOG1146|consen 519 YPCRACNYSTTTNGNLSIHLQSDLHRNELEEAEEN 553 (1406)
T ss_pred ccceeeeeeeecchHHHHHHHHHhhHHHHHHHHhc
Confidence 46999999999999999999999999997777664
No 54
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=72.77 E-value=3.1 Score=26.08 Aligned_cols=21 Identities=19% Similarity=0.414 Sum_probs=16.6
Q ss_pred eecccCcccccCHHHHHHhhch
Q 015675 154 LICELCNVKCESQVVFDSHLVG 175 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~G 175 (403)
|.|..|+-.++ +..|..|+.-
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~ 21 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKR 21 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHh
Confidence 78999999988 9999999853
No 55
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=71.14 E-value=1.4 Score=41.56 Aligned_cols=31 Identities=23% Similarity=0.444 Sum_probs=26.3
Q ss_pred cccccCccccC--CHHHHHHHhchhHHHHHHHH
Q 015675 2 AWCELCRVDCN--TLEILEQHKNGKRHKRNLRT 32 (403)
Q Consensus 2 ~~C~LCqV~cn--S~~vl~~Hl~GKKHkknl~~ 32 (403)
++|+.|+++.+ +.++-..|+.|++|-.+.+.
T Consensus 4 Y~CeyC~~~LthD~lsvRk~H~~G~~H~~~~~d 36 (188)
T COG5136 4 YFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKD 36 (188)
T ss_pred hHHHHHHHHHhccHHHHHHHhhhhHHHHHHHHH
Confidence 58999999885 67888999999999877643
No 56
>PF14968 CCDC84: Coiled coil protein 84
Probab=69.21 E-value=2.1 Score=43.90 Aligned_cols=30 Identities=23% Similarity=0.621 Sum_probs=26.7
Q ss_pred ccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 3 WCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 3 ~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
||.||+.++.. -+-|..+++|+++|+.+..
T Consensus 1 yC~vCr~~h~~---gr~H~Y~~~Hq~~L~~~L~ 30 (336)
T PF14968_consen 1 YCEVCRRNHDQ---GRRHVYSPKHQKSLSAFLS 30 (336)
T ss_pred CcchhhCcccc---cCCCccCHHHHHHHHHHHH
Confidence 89999999877 8899999999999988744
No 57
>COG5136 U1 snRNP-specific protein C [RNA processing and modification]
Probab=66.86 E-value=1.8 Score=40.99 Aligned_cols=31 Identities=32% Similarity=0.349 Sum_probs=25.6
Q ss_pred ceecccCcccccC--HHHHHHhhchhhHHHhhh
Q 015675 153 PLICELCNVKCES--QVVFDSHLVGKKHLANVK 183 (403)
Q Consensus 153 ~~~CeICNV~cnS--e~~y~sHL~GKKHqkkLK 183 (403)
.|+|+.|++.++. -.+-..|..|++|..+.+
T Consensus 3 RY~CeyC~~~LthD~lsvRk~H~~G~~H~~~~~ 35 (188)
T COG5136 3 RYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRK 35 (188)
T ss_pred chHHHHHHHHHhccHHHHHHHhhhhHHHHHHHH
Confidence 5899999998874 567789999999976653
No 58
>PTZ00448 hypothetical protein; Provisional
Probab=63.71 E-value=6.3 Score=41.18 Aligned_cols=34 Identities=21% Similarity=0.367 Sum_probs=31.3
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
+.|..|++.|.+....+.||..==|+-||.+...
T Consensus 315 ~tC~~C~v~F~~~~~qR~H~KSDwHrYNLKRkl~ 348 (373)
T PTZ00448 315 LLCRKCNIQLMDHNAFKQHYRSEWHIFNTKRNAR 348 (373)
T ss_pred ccccccccccCCHHHHHHHhhhhHHHHHHHHHhc
Confidence 5699999999999999999999999999998644
No 59
>PHA02768 hypothetical protein; Provisional
Probab=59.93 E-value=5.4 Score=31.36 Aligned_cols=31 Identities=26% Similarity=0.395 Sum_probs=25.1
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhh
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKR 184 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~ 184 (403)
..|.|+.|+..|.....|..|+. +|.+..|+
T Consensus 4 ~~y~C~~CGK~Fs~~~~L~~H~r--~H~k~~kc 34 (55)
T PHA02768 4 LGYECPICGEIYIKRKSMITHLR--KHNTNLKL 34 (55)
T ss_pred cccCcchhCCeeccHHHHHHHHH--hcCCcccC
Confidence 36899999999999999999985 47744443
No 60
>PHA00616 hypothetical protein
Probab=59.21 E-value=5.5 Score=30.10 Aligned_cols=21 Identities=19% Similarity=0.205 Sum_probs=19.7
Q ss_pred ceecccCcccccCHHHHHHhh
Q 015675 153 PLICELCNVKCESQVVFDSHL 173 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL 173 (403)
.|.|..|+..|.....|..|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~ 21 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHL 21 (44)
T ss_pred CCccchhhHHHhhHHHHHHHH
Confidence 478999999999999999998
No 61
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=53.86 E-value=2.3 Score=42.99 Aligned_cols=36 Identities=19% Similarity=0.524 Sum_probs=32.4
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhhhcC
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKRFHG 187 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g 187 (403)
..|+|.+|...|+.+.-|..|....-|++.+-....
T Consensus 24 lRwyCqmCQkQcrDeNGFkCH~~SeSHqRql~~~~~ 59 (309)
T KOG2837|consen 24 LRWYCQMCQKQCRDENGFKCHTMSESHQRQLLLFAL 59 (309)
T ss_pred HHHHHHHHHHHhccccccccccCCHHHHHHHHHHHh
Confidence 368999999999999999999999999999976643
No 62
>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=53.81 E-value=4.3 Score=38.93 Aligned_cols=35 Identities=26% Similarity=0.334 Sum_probs=0.0
Q ss_pred cccccCc-cccCCHHHHHHHhchhHHHHHHHHhhhh
Q 015675 2 AWCELCR-VDCNTLEILEQHKNGKRHKRNLRTHADL 36 (403)
Q Consensus 2 ~~C~LCq-V~cnS~~vl~~Hl~GKKHkknl~~L~~~ 36 (403)
+.|+||. .++-...+|+.|++..||..-|+.|...
T Consensus 102 y~CEICGN~~Y~GrkaFekHF~E~rH~~GlrcLGI~ 137 (196)
T PF11931_consen 102 YKCEICGNQSYKGRKAFEKHFQEWRHAYGLRCLGIP 137 (196)
T ss_dssp ------------------------------------
T ss_pred eeeEeCCCcceecHHHHHHhcChhHHHccChhcCCC
Confidence 6899995 6666999999999999999999999775
No 63
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=49.43 E-value=12 Score=37.96 Aligned_cols=39 Identities=18% Similarity=0.351 Sum_probs=31.2
Q ss_pred ecCCCCCCCCCCCCCCCCCceecccCcccccCHHHHHHhhchhhH
Q 015675 134 TNEGGPRRPIEPPKPKGVIPLICELCNVKCESQVVFDSHLVGKKH 178 (403)
Q Consensus 134 l~eG~~~~s~epp~~~~~~~~~CeICNV~cnSe~~y~sHL~GKKH 178 (403)
|++|..++. +++.+|.|..|+..|-.+..|.+|++=--+
T Consensus 202 LLQGHiRTH------TGEKPF~C~hC~kAFADRSNLRAHmQTHS~ 240 (279)
T KOG2462|consen 202 LLQGHIRTH------TGEKPFSCPHCGKAFADRSNLRAHMQTHSD 240 (279)
T ss_pred Hhhcccccc------cCCCCccCCcccchhcchHHHHHHHHhhcC
Confidence 678766554 367799999999999999999999975433
No 64
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=48.50 E-value=8.5 Score=38.05 Aligned_cols=47 Identities=26% Similarity=0.449 Sum_probs=36.5
Q ss_pred CCCceecccCcccccCHHHHHHhhc---hhhHHHhhhhhcCCcccccccc
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLV---GKKHLANVKRFHGHRALYGEAA 196 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~---GKKHqkkLK~l~g~~~~~~p~g 196 (403)
++++|.|.+|+..|+-.-.|.+|+. |..|++..|....+.-.-..-|
T Consensus 170 gvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg 219 (267)
T KOG3576|consen 170 GVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCG 219 (267)
T ss_pred CccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccC
Confidence 5779999999999999999999985 7778888777655544444333
No 65
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=48.48 E-value=6.2 Score=45.09 Aligned_cols=30 Identities=20% Similarity=0.450 Sum_probs=26.6
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHH
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHL 179 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHq 179 (403)
+.+.|.|+||.--|+++-.|..||.+-|-.
T Consensus 630 GERPFkCKiCgRAFtTkGNLkaH~~vHka~ 659 (958)
T KOG1074|consen 630 GERPFKCKICGRAFTTKGNLKAHMSVHKAK 659 (958)
T ss_pred CcCccccccccchhccccchhhcccccccC
Confidence 567999999999999999999999987543
No 66
>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=47.37 E-value=17 Score=34.33 Aligned_cols=32 Identities=25% Similarity=0.415 Sum_probs=29.7
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTH 33 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L 33 (403)
+.|.+|+.----...++.|+.++-|+--++-+
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i 32 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYI 32 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHH
Confidence 58999999999999999999999999888777
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=47.34 E-value=15 Score=34.75 Aligned_cols=35 Identities=20% Similarity=0.435 Sum_probs=31.6
Q ss_pred eecccCcccccCHHHHHHhhchhhHHHhhhhhcCC
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKHLANVKRFHGH 188 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~ 188 (403)
|.|.+|.....-+..+..||.++=|+..++-+..+
T Consensus 1 F~Cs~CKfrtf~~~ei~~HleS~~H~E~~~~i~tk 35 (165)
T PF04988_consen 1 FTCSFCKFRTFEEKEIEKHLESKFHKETLKYIQTK 35 (165)
T ss_pred CccceeeeecccHHHHHHHHccchHHHHHHHHHhc
Confidence 68999999999999999999999999999888444
No 68
>PF12907 zf-met2: Zinc-binding
Probab=46.68 E-value=9.7 Score=28.23 Aligned_cols=26 Identities=27% Similarity=0.667 Sum_probs=21.4
Q ss_pred cccccCc---cccCCHHHHHHHhchhHHHH
Q 015675 2 AWCELCR---VDCNTLEILEQHKNGKRHKR 28 (403)
Q Consensus 2 ~~C~LCq---V~cnS~~vl~~Hl~GKKHkk 28 (403)
+.|.||. +...+..+|.+|+..| |-|
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 5799999 7888999999999765 444
No 69
>PHA00732 hypothetical protein
Probab=45.57 E-value=15 Score=30.26 Aligned_cols=22 Identities=14% Similarity=0.404 Sum_probs=20.2
Q ss_pred ceecccCcccccCHHHHHHhhc
Q 015675 153 PLICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~ 174 (403)
.|.|++|+..|++...|..|+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r 22 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHAR 22 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhh
Confidence 3789999999999999999986
No 70
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=44.96 E-value=14 Score=38.79 Aligned_cols=49 Identities=18% Similarity=0.222 Sum_probs=40.0
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhhhcCCccccccccccCC
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKRFHGHRALYGEAALQSL 200 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~~~~~~p~glq~~ 200 (403)
..|.|.-|+|.|.+...-..|+..-=|..+||+--...|..+.-..++.
T Consensus 2 t~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k 50 (390)
T KOG2785|consen 2 TGFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEK 50 (390)
T ss_pred CcceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHH
Confidence 3689999999999999999999999999999998655555555444433
No 71
>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=44.35 E-value=10 Score=37.24 Aligned_cols=40 Identities=25% Similarity=0.438 Sum_probs=28.8
Q ss_pred CcccccCcccc---CCHHHHHHHhchhHHHHHHHHhhhhhccc
Q 015675 1 MAWCELCRVDC---NTLEILEQHKNGKRHKRNLRTHADLQNLN 40 (403)
Q Consensus 1 ~~~C~LCqV~c---nS~~vl~~Hl~GKKHkknl~~L~~~~k~~ 40 (403)
|..|+||.+.. .+..-+..|+.||-|.--+.--..+..+.
T Consensus 190 l~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~~IR~~l~el~ 232 (254)
T PF03194_consen 190 LEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYAKIREKLKELK 232 (254)
T ss_pred ccchhhhhhHHhccchHHHHHHHhccchhhhHHHHHHHHHHHH
Confidence 45799999655 55667899999999997665544444443
No 72
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=44.27 E-value=10 Score=43.19 Aligned_cols=45 Identities=24% Similarity=0.390 Sum_probs=35.3
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhhhcCCcccccc
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRFHGHRALYGE 194 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~~~~~~p 194 (403)
+...|-|.-|...|...-.|.+||..||=...+-.+--..++++.
T Consensus 306 GEKPfeCpnCkKRFSHSGSySSHmSSKKCIsli~vngr~R~~lKt 350 (1007)
T KOG3623|consen 306 GEKPFECPNCKKRFSHSGSYSSHMSSKKCISLILVNGRNRALLKT 350 (1007)
T ss_pred CCCCcCCcccccccccCCcccccccccchhhhhcccCcchhhhhh
Confidence 345799999999999999999999999987665555444555555
No 73
>PHA00616 hypothetical protein
Probab=44.09 E-value=14 Score=27.98 Aligned_cols=21 Identities=19% Similarity=0.161 Sum_probs=19.7
Q ss_pred CcccccCccccCCHHHHHHHh
Q 015675 1 MAWCELCRVDCNTLEILEQHK 21 (403)
Q Consensus 1 ~~~C~LCqV~cnS~~vl~~Hl 21 (403)
|.-|..|...|.....|..|+
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~ 21 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHL 21 (44)
T ss_pred CCccchhhHHHhhHHHHHHHH
Confidence 567999999999999999999
No 74
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=41.15 E-value=11 Score=37.93 Aligned_cols=23 Identities=35% Similarity=0.783 Sum_probs=20.7
Q ss_pred cccccCccccCCHHHHHHHhchh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGK 24 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GK 24 (403)
-||+.||..|+-+..|.+|-.-|
T Consensus 11 pwcwycnrefddekiliqhqkak 33 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAK 33 (341)
T ss_pred ceeeecccccchhhhhhhhhhhc
Confidence 49999999999999999997654
No 75
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=40.85 E-value=23 Score=23.60 Aligned_cols=21 Identities=14% Similarity=0.525 Sum_probs=18.2
Q ss_pred CcccccCccccCCHHHHHHHhc
Q 015675 1 MAWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 1 ~~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
|+-|.||+..+ +...+..|+.
T Consensus 1 ~v~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 1 LVQCPVCFREV-PENLINSHLD 21 (26)
T ss_pred CCcCCCCcCcc-cHHHHHHHHH
Confidence 57899999999 7788899986
No 76
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=40.85 E-value=23 Score=23.28 Aligned_cols=20 Identities=25% Similarity=0.579 Sum_probs=16.7
Q ss_pred CcccccCccccCCHHHHHHHh
Q 015675 1 MAWCELCRVDCNTLEILEQHK 21 (403)
Q Consensus 1 ~~~C~LCqV~cnS~~vl~~Hl 21 (403)
+.-|.+|+-.| .++.|..|.
T Consensus 2 l~~C~~CgR~F-~~~~l~~H~ 21 (25)
T PF13913_consen 2 LVPCPICGRKF-NPDRLEKHE 21 (25)
T ss_pred CCcCCCCCCEE-CHHHHHHHH
Confidence 46799999999 778888885
No 77
>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=38.19 E-value=20 Score=28.35 Aligned_cols=21 Identities=24% Similarity=0.411 Sum_probs=15.6
Q ss_pred cccccCccccCCHHHHHHHhc
Q 015675 2 AWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
..|.+|...|.+...|..|+.
T Consensus 25 atCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 25 ATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp EE-TTT--EESSHHHHHHHHH
T ss_pred CCCCcchhhccchhhHHHHHH
Confidence 369999999999999998873
No 78
>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=37.60 E-value=17 Score=35.66 Aligned_cols=30 Identities=27% Similarity=0.556 Sum_probs=22.6
Q ss_pred ceecccCcccc---cCHHHHHHhhchhhHHHhh
Q 015675 153 PLICELCNVKC---ESQVVFDSHLVGKKHLANV 182 (403)
Q Consensus 153 ~~~CeICNV~c---nSe~~y~sHL~GKKHqkkL 182 (403)
-..|+||.... .+..-+..||.||-|+--+
T Consensus 190 l~VCeVCGA~Ls~~D~d~RladH~~GK~HlGy~ 222 (254)
T PF03194_consen 190 LEVCEVCGAFLSVGDNDRRLADHFGGKQHLGYA 222 (254)
T ss_pred ccchhhhhhHHhccchHHHHHHHhccchhhhHH
Confidence 45899998554 4445699999999997543
No 79
>KOG2384 consensus Major histocompatibility complex protein BAT4, contains G-patch and ankyrin domains [General function prediction only]
Probab=36.14 E-value=14 Score=36.09 Aligned_cols=35 Identities=17% Similarity=0.438 Sum_probs=25.4
Q ss_pred CCCceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
....|+||+|++.+.- .--..|+..--|+-.++..
T Consensus 81 ~e~lfyCE~Cd~~ip~-~~~snH~tSttHllsl~~~ 115 (223)
T KOG2384|consen 81 DEALFYCEVCDIYIPN-SKKSNHFTSTTHLLSLQHI 115 (223)
T ss_pred CCccchhhhhhhhccC-CCCccchhhHHHHhhhccC
Confidence 3457999999998763 2223588889998887654
No 80
>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=35.46 E-value=25 Score=22.94 Aligned_cols=14 Identities=21% Similarity=0.529 Sum_probs=11.5
Q ss_pred CCceecccCccccc
Q 015675 151 VIPLICELCNVKCE 164 (403)
Q Consensus 151 ~~~~~CeICNV~cn 164 (403)
...|.|.+|+..|.
T Consensus 12 ~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 12 EKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSEEESSSSEEES
T ss_pred CCCCCCCCCcCeeC
Confidence 35799999998875
No 81
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=35.18 E-value=33 Score=37.68 Aligned_cols=34 Identities=15% Similarity=0.343 Sum_probs=30.5
Q ss_pred cccccCccccCCHHHHHHHhchhHHHHHHHHhhh
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHKRNLRTHAD 35 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHkknl~~L~~ 35 (403)
..|..|++.|-+......||.---|+-|+.+...
T Consensus 67 ~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~ 100 (591)
T KOG2505|consen 67 DQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLR 100 (591)
T ss_pred ccccccCCccccHHHHHHHHHHHHHHHHHHHHhc
Confidence 4799999999999999999999999999876533
No 82
>KOG2505 consensus Ankyrin repeat protein [General function prediction only]
Probab=34.57 E-value=32 Score=37.80 Aligned_cols=71 Identities=21% Similarity=0.311 Sum_probs=52.8
Q ss_pred ceecccCcccccCHHHHHHhhchhhHHHhhhhhcCCccccccccccCCCCCCccc----------CccceeeccccCCCC
Q 015675 153 PLICELCNVKCESQVVFDSHLVGKKHLANVKRFHGHRALYGEAALQSLYPASFNS----------LSSSVITQVQQGVND 222 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~~~~~~p~glq~~~P~n~sa----------~s~~l~~q~qq~~~~ 222 (403)
.+.|..|++.|-+......|+..-=|.-++|+..-.+++++.--.-+++....++ .+...++|-++++.+
T Consensus 66 ~~~CstCq~~F~s~~eqr~HyksD~HR~N~Krkl~~~~ils~edFe~i~s~d~ssiSgsEde~~s~tsSdheq~ek~~dr 145 (591)
T KOG2505|consen 66 SDQCSTCQIPFGSRQEQREHYKSDWHRFNTKRKLRGKPILSEEDFEGIISSDLSSISGSEDEAESLTSSDHEQTEKGLDR 145 (591)
T ss_pred cccccccCCccccHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHhhhcccccccccccccccCCcchhHHHHHhhhh
Confidence 6789999999999999999999999999999987778888775555555443332 333444555555544
Q ss_pred c
Q 015675 223 P 223 (403)
Q Consensus 223 P 223 (403)
-
T Consensus 146 ~ 146 (591)
T KOG2505|consen 146 D 146 (591)
T ss_pred h
Confidence 3
No 83
>PF12907 zf-met2: Zinc-binding
Probab=33.13 E-value=20 Score=26.57 Aligned_cols=26 Identities=23% Similarity=0.621 Sum_probs=21.7
Q ss_pred eecccCc---ccccCHHHHHHhhchhhHHH
Q 015675 154 LICELCN---VKCESQVVFDSHLVGKKHLA 180 (403)
Q Consensus 154 ~~CeICN---V~cnSe~~y~sHL~GKKHqk 180 (403)
+.|.||- +...++.+|..|...| |-+
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 6899998 8888999999998764 644
No 84
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=31.91 E-value=23 Score=35.80 Aligned_cols=40 Identities=25% Similarity=0.439 Sum_probs=26.5
Q ss_pred eecccCcccccCHHHHHHhhchhhHHHhhhhhcCCccccccccc
Q 015675 154 LICELCNVKCESQVVFDSHLVGKKHLANVKRFHGHRALYGEAAL 197 (403)
Q Consensus 154 ~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~~~~~~p~gl 197 (403)
-||=.||..|..+..|.+|...| | +|+.--++-+|...||
T Consensus 11 pwcwycnrefddekiliqhqkak-h---fkchichkkl~sgpgl 50 (341)
T KOG2893|consen 11 PWCWYCNREFDDEKILIQHQKAK-H---FKCHICHKKLFSGPGL 50 (341)
T ss_pred ceeeecccccchhhhhhhhhhhc-c---ceeeeehhhhccCCCc
Confidence 39999999999999999997654 4 3443333444444443
No 85
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=30.46 E-value=24 Score=36.38 Aligned_cols=40 Identities=25% Similarity=0.373 Sum_probs=28.5
Q ss_pred CcccccCcccc---CCHHHHHHHhchhHHHHHHHHhhhhhccc
Q 015675 1 MAWCELCRVDC---NTLEILEQHKNGKRHKRNLRTHADLQNLN 40 (403)
Q Consensus 1 ~~~C~LCqV~c---nS~~vl~~Hl~GKKHkknl~~L~~~~k~~ 40 (403)
|-.|+||.+.. .+..=+..|+.||-|---+.--..+..+.
T Consensus 186 l~VCeVCGa~L~~~D~d~RlaDHf~GKlHlGy~~iR~~l~eLk 228 (319)
T KOG0796|consen 186 LRVCEVCGAFLSVNDADRRLADHFGGKLHLGYVLIREKLAELK 228 (319)
T ss_pred hhHHHhhhHHHhccchHHHHHHhhcchHHHHHHHHHHHHHHHH
Confidence 45799999865 56777899999999986655444333333
No 86
>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=28.76 E-value=42 Score=26.63 Aligned_cols=22 Identities=23% Similarity=0.531 Sum_probs=16.4
Q ss_pred ceecccCcccccCHHHHHHhhc
Q 015675 153 PLICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 153 ~~~CeICNV~cnSe~~y~sHL~ 174 (403)
+-.|.+|...|.+...|..||-
T Consensus 24 PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 24 PATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp -EE-TTT--EESSHHHHHHHHH
T ss_pred CCCCCcchhhccchhhHHHHHH
Confidence 4589999999999999999984
No 87
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=28.44 E-value=52 Score=39.71 Aligned_cols=35 Identities=20% Similarity=0.327 Sum_probs=32.5
Q ss_pred CCceecccCcccccCHHHHHHhhchhhHHHhhhhh
Q 015675 151 VIPLICELCNVKCESQVVFDSHLVGKKHLANVKRF 185 (403)
Q Consensus 151 ~~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l 185 (403)
...|.|..||+.++....+-.||..-+|..+++..
T Consensus 516 ~~p~~C~~C~~stttng~LsihlqS~~h~~~lee~ 550 (1406)
T KOG1146|consen 516 GKPYPCRACNYSTTTNGNLSIHLQSDLHRNELEEA 550 (1406)
T ss_pred CCcccceeeeeeeecchHHHHHHHHHhhHHHHHHH
Confidence 45899999999999999999999999999998776
No 88
>PHA02768 hypothetical protein; Provisional
Probab=26.67 E-value=42 Score=26.51 Aligned_cols=24 Identities=17% Similarity=0.278 Sum_probs=20.3
Q ss_pred cccccCccccCCHHHHHHHhchhHHH
Q 015675 2 AWCELCRVDCNTLEILEQHKNGKRHK 27 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~GKKHk 27 (403)
+.|+.|...|+..+.|..|.. +|.
T Consensus 6 y~C~~CGK~Fs~~~~L~~H~r--~H~ 29 (55)
T PHA02768 6 YECPICGEIYIKRKSMITHLR--KHN 29 (55)
T ss_pred cCcchhCCeeccHHHHHHHHH--hcC
Confidence 479999999999999988873 465
No 89
>PHA00732 hypothetical protein
Probab=23.62 E-value=62 Score=26.65 Aligned_cols=21 Identities=33% Similarity=0.501 Sum_probs=19.1
Q ss_pred cccccCccccCCHHHHHHHhc
Q 015675 2 AWCELCRVDCNTLEILEQHKN 22 (403)
Q Consensus 2 ~~C~LCqV~cnS~~vl~~Hl~ 22 (403)
+.|.+|...|++...|..|..
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 579999999999999999965
No 90
>PHA00733 hypothetical protein
Probab=23.27 E-value=60 Score=28.72 Aligned_cols=23 Identities=30% Similarity=0.683 Sum_probs=20.1
Q ss_pred CceecccCcccccCHHHHHHhhc
Q 015675 152 IPLICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~ 174 (403)
..|.|+.|...|.+...|..|+.
T Consensus 72 kPy~C~~Cgk~Fss~s~L~~H~r 94 (128)
T PHA00733 72 SPYVCPLCLMPFSSSVSLKQHIR 94 (128)
T ss_pred CCccCCCCCCcCCCHHHHHHHHh
Confidence 46899999999999999988876
No 91
>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=23.12 E-value=35 Score=33.15 Aligned_cols=51 Identities=18% Similarity=0.305 Sum_probs=32.8
Q ss_pred CceecccCcccccCHHHHHHhhchhhHHHhhhhhcCCccccccccccCCCCC
Q 015675 152 IPLICELCNVKCESQVVFDSHLVGKKHLANVKRFHGHRALYGEAALQSLYPA 203 (403)
Q Consensus 152 ~~~~CeICNV~cnSe~~y~sHL~GKKHqkkLK~l~g~~~~~~p~glq~~~P~ 203 (403)
..|.|.+|.+.|....=-..|+. +||...|........+|-.|=+-+..|.
T Consensus 76 ~K~~C~lc~KlFkg~eFV~KHI~-nKH~e~ve~~~~ev~~fnnY~~Dp~rp~ 126 (214)
T PF04959_consen 76 DKWRCPLCGKLFKGPEFVRKHIF-NKHPEKVEEVKKEVEYFNNYLLDPKRPQ 126 (214)
T ss_dssp EEEEE-SSS-EESSHHHHHHHHH-HH-HHHHHHHHHHHHHHHHH--------
T ss_pred CEECCCCCCcccCChHHHHHHHh-hcCHHHHHHHHHHHHHHHHHhcCcccCC
Confidence 47999999999999999999997 5799999877555556666555444443
No 92
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=20.49 E-value=55 Score=34.83 Aligned_cols=27 Identities=26% Similarity=0.557 Sum_probs=21.9
Q ss_pred CCCceecccCcccccCHHHHHHhhchh
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLVGK 176 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~GK 176 (403)
++..|.|.+|++.|.+...|..|+.=+
T Consensus 260 Hvn~ykCplCdmtc~~~ssL~~H~r~r 286 (467)
T KOG3608|consen 260 HVNCYKCPLCDMTCSSASSLTTHIRYR 286 (467)
T ss_pred hhhcccccccccCCCChHHHHHHHHhh
Confidence 456788999999999999988888643
No 93
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=20.42 E-value=59 Score=26.42 Aligned_cols=25 Identities=20% Similarity=0.313 Sum_probs=22.3
Q ss_pred CCCceecccCcccccCHHHHHHhhc
Q 015675 150 GVIPLICELCNVKCESQVVFDSHLV 174 (403)
Q Consensus 150 ~~~~~~CeICNV~cnSe~~y~sHL~ 174 (403)
+..-|.|..|++.|.-...|..|.+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhh
Confidence 4457899999999999999999987
Done!