Query 008103
Match_columns 577
No_of_seqs 387 out of 2917
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 19:29:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008103.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008103hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2462 C2H2-type Zn-finger pr 99.9 3.9E-23 8.5E-28 206.7 5.2 136 3-174 128-265 (279)
2 KOG2462 C2H2-type Zn-finger pr 99.8 1.2E-20 2.6E-25 189.0 4.8 108 3-132 159-268 (279)
3 KOG3576 Ovo and related transc 99.6 7.1E-17 1.5E-21 155.2 2.8 110 3-132 115-237 (267)
4 KOG3608 Zn finger proteins [Ge 99.5 4.5E-15 9.7E-20 152.5 6.1 161 2-183 204-383 (467)
5 KOG3608 Zn finger proteins [Ge 99.5 6.2E-15 1.3E-19 151.4 4.9 173 6-186 135-324 (467)
6 KOG1074 Transcriptional repres 99.4 4.8E-14 1E-18 157.6 4.0 85 83-180 607-696 (958)
7 KOG3576 Ovo and related transc 99.4 4.7E-14 1E-18 135.9 1.9 122 43-178 114-238 (267)
8 KOG3623 Homeobox transcription 99.4 7.5E-14 1.6E-18 153.7 1.3 106 6-129 211-331 (1007)
9 KOG1074 Transcriptional repres 99.4 4.3E-13 9.3E-18 150.1 5.0 105 3-127 603-729 (958)
10 KOG3623 Homeobox transcription 99.3 3.7E-13 8E-18 148.3 1.4 79 43-128 891-971 (1007)
11 PLN03086 PRLI-interacting fact 99.0 3.7E-10 7.9E-15 125.5 7.7 104 3-132 451-565 (567)
12 PHA00733 hypothetical protein 98.9 1.4E-09 3.1E-14 100.0 4.3 84 43-135 37-127 (128)
13 PLN03086 PRLI-interacting fact 98.8 1E-08 2.2E-13 114.3 9.6 137 6-174 408-562 (567)
14 PHA00733 hypothetical protein 98.7 7E-09 1.5E-13 95.5 3.9 85 2-105 37-124 (128)
15 KOG3993 Transcription factor ( 98.3 2E-07 4.3E-12 98.8 2.8 83 45-134 266-383 (500)
16 KOG3993 Transcription factor ( 98.3 7.9E-08 1.7E-12 101.7 -0.7 153 6-179 268-485 (500)
17 PF13465 zf-H2C2_2: Zinc-finge 98.2 7.7E-07 1.7E-11 59.5 1.6 26 68-93 1-26 (26)
18 PHA02768 hypothetical protein; 98.2 9E-07 2E-11 69.5 1.9 44 46-98 5-48 (55)
19 PHA02768 hypothetical protein; 98.1 2E-06 4.3E-11 67.6 2.7 46 3-70 3-48 (55)
20 COG5189 SFP1 Putative transcri 98.0 2.1E-06 4.6E-11 88.2 1.9 29 42-75 345-373 (423)
21 COG5189 SFP1 Putative transcri 97.8 6E-06 1.3E-10 85.0 0.1 51 78-128 346-419 (423)
22 PHA00616 hypothetical protein 97.6 2.3E-05 5E-10 58.9 1.5 34 5-51 1-34 (44)
23 PHA00732 hypothetical protein 97.4 9.8E-05 2.1E-09 62.6 3.2 49 5-78 1-49 (79)
24 PF00096 zf-C2H2: Zinc finger, 97.2 0.00016 3.5E-09 46.4 1.5 23 6-28 1-23 (23)
25 PHA00616 hypothetical protein 97.2 0.00012 2.7E-09 55.0 0.8 39 46-91 1-39 (44)
26 KOG2231 Predicted E3 ubiquitin 97.1 0.00058 1.3E-08 77.7 5.2 114 6-136 100-241 (669)
27 PHA00732 hypothetical protein 97.1 0.00042 9.2E-09 58.7 3.0 45 46-103 1-46 (79)
28 PF05605 zf-Di19: Drought indu 97.0 0.00087 1.9E-08 52.5 3.9 52 5-77 2-53 (54)
29 PF12756 zf-C2H2_2: C2H2 type 96.8 0.00052 1.1E-08 58.7 1.5 23 7-29 1-23 (100)
30 PF13465 zf-H2C2_2: Zinc-finge 96.8 0.00068 1.5E-08 45.3 1.6 25 20-64 1-25 (26)
31 PF05605 zf-Di19: Drought indu 96.7 0.0012 2.7E-08 51.6 3.1 47 47-103 3-51 (54)
32 PF13894 zf-C2H2_4: C2H2-type 96.7 0.00089 1.9E-08 42.6 1.8 24 6-29 1-24 (24)
33 COG5048 FOG: Zn-finger [Genera 96.7 0.00059 1.3E-08 71.9 1.4 139 4-175 288-441 (467)
34 PF13912 zf-C2H2_6: C2H2-type 96.6 0.00099 2.1E-08 44.4 1.5 25 5-29 1-25 (27)
35 PF00096 zf-C2H2: Zinc finger, 96.6 0.0013 2.8E-08 42.1 2.0 22 109-130 1-23 (23)
36 COG5236 Uncharacterized conser 96.4 0.005 1.1E-07 64.6 5.9 138 6-177 152-306 (493)
37 PF13894 zf-C2H2_4: C2H2-type 96.0 0.0058 1.2E-07 38.7 2.3 22 109-130 1-23 (24)
38 PF13912 zf-C2H2_6: C2H2-type 96.0 0.0029 6.2E-08 42.1 0.9 24 108-131 1-25 (27)
39 KOG1146 Homeobox protein [Gene 95.9 0.0054 1.2E-07 73.7 3.5 77 43-129 462-540 (1406)
40 smart00355 ZnF_C2H2 zinc finge 95.8 0.0071 1.5E-07 38.7 2.2 24 6-29 1-24 (26)
41 PF12756 zf-C2H2_2: C2H2 type 95.6 0.0077 1.7E-07 51.4 2.5 72 48-130 1-73 (100)
42 PF09237 GAGA: GAGA factor; I 95.0 0.0099 2.1E-07 46.1 1.0 31 78-108 21-52 (54)
43 PF12874 zf-met: Zinc-finger o 94.5 0.017 3.7E-07 37.6 1.1 23 6-28 1-23 (25)
44 smart00355 ZnF_C2H2 zinc finge 93.9 0.043 9.4E-07 34.9 2.1 22 109-130 1-23 (26)
45 KOG2231 Predicted E3 ubiquitin 93.9 0.05 1.1E-06 62.4 4.0 110 62-173 123-260 (669)
46 PRK04860 hypothetical protein; 93.8 0.035 7.6E-07 53.3 2.0 35 81-119 119-155 (160)
47 COG5048 FOG: Zn-finger [Genera 93.7 0.027 5.9E-07 59.3 1.3 115 4-123 320-461 (467)
48 PRK04860 hypothetical protein; 93.4 0.029 6.3E-07 53.8 0.7 41 44-95 117-157 (160)
49 COG5236 Uncharacterized conser 93.3 0.047 1E-06 57.5 2.1 80 46-132 151-245 (493)
50 PF12171 zf-C2H2_jaz: Zinc-fin 92.2 0.038 8.2E-07 37.0 -0.2 24 5-28 1-24 (27)
51 PF09237 GAGA: GAGA factor; I 92.1 0.085 1.8E-06 41.0 1.6 33 42-81 20-52 (54)
52 KOG2482 Predicted C2H2-type Zn 91.7 0.3 6.4E-06 51.7 5.5 66 109-175 280-357 (423)
53 KOG4124 Putative transcription 91.6 0.032 6.9E-07 58.8 -1.6 49 79-127 347-418 (442)
54 PF12171 zf-C2H2_jaz: Zinc-fin 90.8 0.15 3.2E-06 34.1 1.6 22 82-103 2-23 (27)
55 PF12874 zf-met: Zinc-finger o 90.1 0.12 2.7E-06 33.5 0.7 21 82-102 1-21 (25)
56 PF13909 zf-H2C2_5: C2H2-type 90.0 0.15 3.3E-06 32.9 1.1 23 6-29 1-23 (24)
57 KOG4173 Alpha-SNAP protein [In 89.9 0.087 1.9E-06 52.0 -0.2 82 43-132 76-171 (253)
58 PF13909 zf-H2C2_5: C2H2-type 89.9 0.27 5.9E-06 31.7 2.2 22 109-131 1-23 (24)
59 KOG1146 Homeobox protein [Gene 89.5 0.18 4E-06 61.2 2.0 90 84-174 439-540 (1406)
60 KOG2785 C2H2-type Zn-finger pr 88.4 0.5 1.1E-05 50.8 4.1 163 5-175 3-243 (390)
61 smart00451 ZnF_U1 U1-like zinc 88.3 0.31 6.6E-06 34.1 1.7 25 4-28 2-26 (35)
62 KOG4124 Putative transcription 87.1 0.18 3.8E-06 53.4 -0.2 55 44-103 347-420 (442)
63 KOG2482 Predicted C2H2-type Zn 85.1 0.75 1.6E-05 48.8 3.2 25 4-28 194-218 (423)
64 PF13913 zf-C2HC_2: zinc-finge 83.5 0.88 1.9E-05 30.2 1.9 20 110-130 4-24 (25)
65 PF13913 zf-C2HC_2: zinc-finge 83.2 0.97 2.1E-05 29.9 2.0 21 6-27 3-23 (25)
66 KOG2785 C2H2-type Zn-finger pr 81.0 1.6 3.4E-05 47.1 3.7 53 80-132 165-247 (390)
67 smart00451 ZnF_U1 U1-like zinc 79.8 1 2.2E-05 31.4 1.3 23 81-103 3-25 (35)
68 PF09986 DUF2225: Uncharacteri 77.2 1.2 2.5E-05 44.8 1.3 42 79-120 3-61 (214)
69 KOG2071 mRNA cleavage and poly 73.5 2 4.2E-05 48.8 2.0 38 3-41 416-453 (579)
70 KOG2893 Zn finger protein [Gen 71.1 1.6 3.6E-05 44.2 0.6 37 60-100 17-53 (341)
71 KOG2893 Zn finger protein [Gen 69.2 1.6 3.5E-05 44.2 0.1 42 8-73 13-54 (341)
72 KOG1280 Uncharacterized conser 67.9 2.8 6.1E-05 44.7 1.6 33 78-110 76-109 (381)
73 PRK00464 nrdR transcriptional 66.9 2.6 5.6E-05 40.3 1.0 16 82-97 29-44 (154)
74 COG4049 Uncharacterized protei 65.4 1.9 4.1E-05 34.3 -0.2 24 105-128 14-38 (65)
75 PF09538 FYDLN_acid: Protein o 64.9 4 8.6E-05 36.8 1.7 15 80-94 25-39 (108)
76 PF04959 ARS2: Arsenite-resist 64.0 2 4.2E-05 43.3 -0.4 31 104-134 73-104 (214)
77 PF05290 Baculo_IE-1: Baculovi 64.0 3.5 7.6E-05 38.4 1.2 8 44-51 78-85 (140)
78 KOG4377 Zn-finger protein [Gen 62.7 14 0.00031 40.4 5.6 125 41-178 266-429 (480)
79 KOG2186 Cell growth-regulating 62.4 4.4 9.5E-05 41.6 1.7 46 81-128 3-49 (276)
80 COG4049 Uncharacterized protei 62.1 3.6 7.7E-05 32.8 0.8 28 2-29 14-41 (65)
81 KOG4173 Alpha-SNAP protein [In 59.1 3.2 7E-05 41.3 0.1 79 3-104 77-170 (253)
82 PF12013 DUF3505: Protein of u 58.2 11 0.00024 33.4 3.4 24 109-132 81-109 (109)
83 KOG4377 Zn-finger protein [Gen 56.0 8.8 0.00019 41.9 2.7 120 4-132 270-428 (480)
84 TIGR02300 FYDLN_acid conserved 52.7 8.6 0.00019 35.6 1.8 14 107-120 25-39 (129)
85 PF02892 zf-BED: BED zinc fing 52.5 10 0.00022 27.9 1.9 25 3-27 14-42 (45)
86 PF09538 FYDLN_acid: Protein o 48.6 11 0.00025 33.9 1.9 30 81-120 9-39 (108)
87 PF12013 DUF3505: Protein of u 48.3 31 0.00067 30.6 4.6 24 82-105 81-109 (109)
88 KOG4167 Predicted DNA-binding 47.4 4.9 0.00011 46.7 -0.9 26 4-29 791-816 (907)
89 cd00350 rubredoxin_like Rubred 47.2 13 0.00027 26.2 1.5 10 80-89 16-25 (33)
90 smart00531 TFIIE Transcription 46.7 20 0.00043 33.8 3.3 37 79-118 97-134 (147)
91 TIGR00622 ssl1 transcription f 44.1 38 0.00082 30.8 4.5 89 3-103 13-103 (112)
92 COG1997 RPL43A Ribosomal prote 43.3 11 0.00024 32.7 0.9 11 82-92 54-64 (89)
93 KOG2593 Transcription initiati 42.0 22 0.00047 39.3 3.0 35 79-116 126-162 (436)
94 TIGR00373 conserved hypothetic 39.2 23 0.00051 33.8 2.5 32 78-117 106-138 (158)
95 COG1997 RPL43A Ribosomal prote 39.2 20 0.00044 31.1 1.8 31 80-119 34-65 (89)
96 smart00614 ZnF_BED BED zinc fi 38.3 19 0.00042 27.5 1.5 23 6-28 19-47 (50)
97 TIGR02098 MJ0042_CXXC MJ0042 f 37.6 24 0.00051 25.2 1.8 10 82-91 26-35 (38)
98 PRK06266 transcription initiat 37.5 23 0.0005 34.6 2.3 34 78-119 114-148 (178)
99 PRK03564 formate dehydrogenase 37.0 26 0.00056 37.3 2.6 33 82-118 227-263 (309)
100 TIGR02300 FYDLN_acid conserved 36.6 22 0.00047 33.0 1.8 35 46-98 9-43 (129)
101 TIGR00622 ssl1 transcription f 36.5 45 0.00099 30.3 3.8 79 44-130 13-104 (112)
102 COG1592 Rubrerythrin [Energy p 36.4 19 0.00041 34.9 1.4 11 78-88 146-156 (166)
103 KOG4407 Predicted Rho GTPase-a 36.3 14 0.0003 45.7 0.6 11 220-230 318-328 (1973)
104 PF05443 ROS_MUCR: ROS/MUCR tr 36.3 21 0.00045 33.4 1.6 24 3-29 70-93 (132)
105 COG5151 SSL1 RNA polymerase II 36.2 38 0.00082 35.9 3.6 87 80-175 321-411 (421)
106 KOG3648 Golgi apparatus protei 35.4 13 0.00029 42.7 0.2 6 223-228 65-70 (1179)
107 PF13717 zinc_ribbon_4: zinc-r 35.1 33 0.00071 24.7 2.1 13 83-95 4-16 (36)
108 PF02166 Androgen_recep: Andro 34.2 13 0.00029 39.6 0.0 7 253-259 80-86 (423)
109 COG1592 Rubrerythrin [Energy p 32.8 27 0.00058 33.9 1.8 23 81-115 134-157 (166)
110 smart00734 ZnF_Rad18 Rad18-lik 32.7 35 0.00076 22.8 1.8 21 6-27 2-22 (26)
111 PF09986 DUF2225: Uncharacteri 32.6 14 0.00031 37.0 -0.1 44 44-94 3-61 (214)
112 PF04959 ARS2: Arsenite-resist 31.2 23 0.00049 35.8 1.1 30 78-107 74-104 (214)
113 PF07800 DUF1644: Protein of u 29.1 25 0.00055 33.8 0.9 22 164-185 120-141 (162)
114 KOG2807 RNA polymerase II tran 29.0 1.1E+02 0.0025 32.7 5.7 52 79-130 288-368 (378)
115 PF02176 zf-TRAF: TRAF-type zi 28.3 33 0.00071 26.7 1.3 19 68-86 25-43 (60)
116 PF06524 NOA36: NOA36 protein; 28.2 18 0.0004 37.3 -0.1 26 105-130 206-232 (314)
117 KOG3002 Zn finger protein [Gen 27.8 31 0.00067 36.6 1.4 81 79-179 78-166 (299)
118 KOG0801 Predicted E3 ubiquitin 26.9 18 0.00039 34.9 -0.5 37 68-108 128-164 (205)
119 PRK00464 nrdR transcriptional 26.1 20 0.00044 34.3 -0.3 43 82-124 1-45 (154)
120 smart00440 ZnF_C2C2 C2C2 Zinc 25.7 34 0.00074 25.2 0.9 10 108-117 28-38 (40)
121 COG3357 Predicted transcriptio 25.7 31 0.00066 30.3 0.7 14 80-93 57-70 (97)
122 COG4530 Uncharacterized protei 25.3 35 0.00076 30.9 1.1 13 79-91 24-36 (129)
123 PRK09678 DNA-binding transcrip 24.8 32 0.0007 28.8 0.7 7 113-119 35-41 (72)
124 COG4957 Predicted transcriptio 24.8 31 0.00068 32.3 0.7 21 6-29 77-97 (148)
125 KOG2932 E3 ubiquitin ligase in 24.6 2E+02 0.0043 30.8 6.5 26 104-129 140-169 (389)
126 PTZ00255 60S ribosomal protein 24.1 41 0.00088 29.5 1.2 12 107-118 53-65 (90)
127 KOG3408 U1-like Zn-finger-cont 23.7 39 0.00084 31.2 1.1 24 5-28 57-80 (129)
128 COG4896 Uncharacterized protei 23.4 55 0.0012 26.7 1.7 35 5-54 2-37 (68)
129 smart00531 TFIIE Transcription 23.1 49 0.0011 31.1 1.7 41 41-92 94-134 (147)
130 KOG2186 Cell growth-regulating 23.1 45 0.00098 34.5 1.5 54 6-82 4-57 (276)
131 TIGR00280 L37a ribosomal prote 22.7 43 0.00092 29.4 1.1 11 107-117 52-63 (91)
132 COG0068 HypF Hydrogenase matur 22.7 22 0.00049 41.6 -0.8 65 44-116 116-182 (750)
133 TIGR01562 FdhE formate dehydro 22.4 84 0.0018 33.5 3.4 9 82-90 225-233 (305)
134 PRK14873 primosome assembly pr 22.3 60 0.0013 38.2 2.5 14 76-89 405-418 (665)
135 PF02748 PyrI_C: Aspartate car 22.2 35 0.00076 26.7 0.4 44 46-95 6-49 (52)
136 COG1198 PriA Primosomal protei 22.2 25 0.00053 41.7 -0.6 48 7-90 437-484 (730)
137 PF15135 UPF0515: Uncharacteri 22.0 1.1E+02 0.0025 31.6 4.1 36 81-120 132-168 (278)
138 COG3091 SprT Zn-dependent meta 21.7 51 0.0011 31.6 1.4 32 80-116 116-149 (156)
139 KOG0320 Predicted E3 ubiquitin 21.7 70 0.0015 31.5 2.4 11 41-51 126-136 (187)
140 TIGR00373 conserved hypothetic 21.3 51 0.0011 31.5 1.4 36 41-92 104-139 (158)
141 COG5151 SSL1 RNA polymerase II 21.1 69 0.0015 34.1 2.4 44 84-130 365-411 (421)
142 PF01780 Ribosomal_L37ae: Ribo 21.0 36 0.00077 29.8 0.3 9 81-89 35-43 (90)
143 PF10083 DUF2321: Uncharacteri 21.0 62 0.0013 31.1 1.9 43 82-124 40-85 (158)
144 PF01096 TFIIS_C: Transcriptio 20.7 23 0.00049 25.9 -0.8 9 109-117 29-38 (39)
145 PF13719 zinc_ribbon_5: zinc-r 20.3 75 0.0016 22.9 1.8 11 81-91 25-35 (37)
146 cd00729 rubredoxin_SM Rubredox 20.2 70 0.0015 22.7 1.6 10 80-89 17-26 (34)
147 PRK06266 transcription initiat 20.1 58 0.0013 31.8 1.5 36 42-93 113-148 (178)
No 1
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.87 E-value=3.9e-23 Score=206.74 Aligned_cols=136 Identities=18% Similarity=0.399 Sum_probs=126.4
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW 82 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy 82 (577)
..+|+|.+|+|.|.+..+|.+|+.+|. .-..++.+.|+. | +|.|.....|+.|+|+|+ -++
T Consensus 128 ~~r~~c~eCgk~ysT~snLsrHkQ~H~----------~~~s~ka~~C~~--C-----~K~YvSmpALkMHirTH~--l~c 188 (279)
T KOG2462|consen 128 HPRYKCPECGKSYSTSSNLSRHKQTHR----------SLDSKKAFSCKY--C-----GKVYVSMPALKMHIRTHT--LPC 188 (279)
T ss_pred CCceeccccccccccccccchhhcccc----------cccccccccCCC--C-----CceeeehHHHhhHhhccC--CCc
Confidence 357999999999999999999999995 334578899999 9 999999999999999997 689
Q ss_pred ccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCChhHHHHHHHHhccchhhhccCCCCcccccCcccccCccccc
Q 008103 83 KCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYASTNNMAL 160 (577)
Q Consensus 83 kC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~~~~~~y~c~~~C~~ 160 (577)
+|.+|+|.|.+.-.|+.|+|+ +|||||.|. |+|.|..+++|+.|+++| ...+.|.|.. |.|
T Consensus 189 ~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTH----------------S~~K~~qC~~-C~K 251 (279)
T KOG2462|consen 189 ECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTH----------------SDVKKHQCPR-CGK 251 (279)
T ss_pred ccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhh----------------cCCccccCcc-hhh
Confidence 999999999999999999999 999999999 999999999999999999 6778999999 999
Q ss_pred cccccchhhhhhhh
Q 008103 161 GLSQVGPQLSSIKD 174 (577)
Q Consensus 161 ~fs~~ssl~~H~k~ 174 (577)
.|+.++.|.+|...
T Consensus 252 sFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 252 SFALKSYLNKHSES 265 (279)
T ss_pred HHHHHHHHHHhhhh
Confidence 99999999999753
No 2
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=99.81 E-value=1.2e-20 Score=189.00 Aligned_cols=108 Identities=26% Similarity=0.529 Sum_probs=101.9
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW 82 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy 82 (577)
.+-+.|++|+|.|.+.-.|+.|+|+|+ -+++|.+ | +|.|...=.|+-|+|+|||||||
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~---------------l~c~C~i--C-----GKaFSRPWLLQGHiRTHTGEKPF 216 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHT---------------LPCECGI--C-----GKAFSRPWLLQGHIRTHTGEKPF 216 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccC---------------CCccccc--c-----cccccchHHhhcccccccCCCCc
Confidence 577999999999999999999999996 5788999 8 99999999999999999999999
Q ss_pred ccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCChhHHHHHHHHhcc
Q 008103 83 KCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 83 kC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~ 132 (577)
.|..|+|.|..+++|+.|+++ .+.|+|.|. |+|.|.+++.|.+|...-|-
T Consensus 217 ~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES~C~ 268 (279)
T KOG2462|consen 217 SCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSESACL 268 (279)
T ss_pred cCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhhccc
Confidence 999999999999999999999 678999999 99999999999999887644
No 3
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.63 E-value=7.1e-17 Score=155.17 Aligned_cols=110 Identities=27% Similarity=0.612 Sum_probs=102.8
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW 82 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy 82 (577)
...|.|.+|+|.|.-...|.+|++.|. ..+.|.|.. | +|.|.+.-.|++|+|+|++.+||
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~-------------~vkr~lct~--c-----gkgfndtfdlkrh~rthtgvrpy 174 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHS-------------DVKRHLCTF--C-----GKGFNDTFDLKRHTRTHTGVRPY 174 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhcc-------------HHHHHHHhh--c-----cCcccchhhhhhhhccccCcccc
Confidence 356899999999999999999999996 778899999 9 99999999999999999999999
Q ss_pred ccCcCCCcccchhhhhhhccc-cC-----------CceeecC-CCCCcCChhHHHHHHHHhcc
Q 008103 83 KCEKCSKRYAVQSDWKAHSKT-CG-----------TREYRCD-CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 83 kC~~C~K~F~sks~L~~H~r~-hg-----------eKpy~C~-Cgk~F~~~s~L~~H~r~h~~ 132 (577)
+|..|+|.|..+..|..|.+. |+ +|.|.|+ |+..-.+...+..|++.|++
T Consensus 175 kc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~hp 237 (267)
T KOG3576|consen 175 KCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLHHP 237 (267)
T ss_pred chhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhcCC
Confidence 999999999999999999887 74 4789999 99999999999999999865
No 4
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.55 E-value=4.5e-15 Score=152.49 Aligned_cols=161 Identities=18% Similarity=0.320 Sum_probs=94.2
Q ss_pred CCCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcc
Q 008103 2 ATNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKK 81 (577)
Q Consensus 2 ~~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKp 81 (577)
+||...|+.|++-|.++..|-.|.+.-+ .....+|.|.. | .|+|.++..|+.|++.|- .-
T Consensus 204 ~eKvvACp~Cg~~F~~~tkl~DH~rRqt-----------~l~~n~fqC~~--C-----~KrFaTeklL~~Hv~rHv--n~ 263 (467)
T KOG3608|consen 204 NEKVVACPHCGELFRTKTKLFDHLRRQT-----------ELNTNSFQCAQ--C-----FKRFATEKLLKSHVVRHV--NC 263 (467)
T ss_pred CCeEEecchHHHHhccccHHHHHHHhhh-----------hhcCCchHHHH--H-----HHHHhHHHHHHHHHHHhh--hc
Confidence 5666777777777777777777766543 12344666666 6 666666666666666663 34
Q ss_pred cccCcCCCcccchhhhhhhccc-c-CCceeecC-CCCCcCChhHHHHHHHHhcc--------chhhhccCCCCccc----
Q 008103 82 WKCEKCSKRYAVQSDWKAHSKT-C-GTREYRCD-CGTLFSRRDSFITHRAFCDA--------LAQESARHQPSLSA---- 146 (577)
Q Consensus 82 ykC~~C~K~F~sks~L~~H~r~-h-geKpy~C~-Cgk~F~~~s~L~~H~r~h~~--------~~~~s~~~~~~l~~---- 146 (577)
|+|+.|+.+....+.|.+|++. | .+|||+|+ |.+.|.+.++|.+|..+|.+ .|.++++....+..
T Consensus 264 ykCplCdmtc~~~ssL~~H~r~rHs~dkpfKCd~Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~e 343 (467)
T KOG3608|consen 264 YKCPLCDMTCSSASSLTTHIRYRHSKDKPFKCDECDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLE 343 (467)
T ss_pred ccccccccCCCChHHHHHHHHhhhccCCCccccchhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHH
Confidence 6666666666666666666665 3 34666666 66666666666666665521 12222222111111
Q ss_pred ----ccCcccccCccccccccccchhhhhhhhhcCCCCCcc
Q 008103 147 ----IGSHLYASTNNMALGLSQVGPQLSSIKDHHQTNQSGD 183 (577)
Q Consensus 147 ----~~~~~y~c~~~C~~~fs~~ssl~~H~k~hh~~~kp~~ 183 (577)
...-+|.|-. |++.|..-.+|-.|+++.|.=.-|+.
T Consensus 344 vhEg~np~~Y~CH~-Cdr~ft~G~~L~~HL~kkH~f~~PsG 383 (467)
T KOG3608|consen 344 VHEGNNPILYACHC-CDRFFTSGKSLSAHLMKKHGFRLPSG 383 (467)
T ss_pred hccCCCCCceeeec-chhhhccchhHHHHHHHhhcccCCCC
Confidence 2233577766 77777777777777766655444443
No 5
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=99.52 E-value=6.2e-15 Score=151.45 Aligned_cols=173 Identities=18% Similarity=0.312 Sum_probs=132.0
Q ss_pred ccc--cccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccc
Q 008103 6 FIC--EVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWK 83 (577)
Q Consensus 6 y~C--~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpyk 83 (577)
|.| +.|+..|.+...|..|+..|..-....+.......+..+.|.|..| -+.|.+++.|++|++.|++||-..
T Consensus 135 f~C~WedCe~~F~s~~ef~dHV~~H~l~ceyd~~~~~~D~~pv~~C~W~~C-----t~~~~~k~~LreH~r~Hs~eKvvA 209 (467)
T KOG3608|consen 135 FRCGWEDCEREFVSIVEFQDHVVKHALFCEYDIQKTPEDERPVTMCNWAMC-----TKHMGNKYRLREHIRTHSNEKVVA 209 (467)
T ss_pred hccChhhcCCcccCHHHHHHHHHHhhhhhhhhhhhCCCCCCceeeccchhh-----hhhhccHHHHHHHHHhcCCCeEEe
Confidence 556 6799999999999999998863212221222222345689999888 899999999999999999999999
Q ss_pred cCcCCCcccchhhhhhhccc---cCCceeecC-CCCCcCChhHHHHHHHHh-----ccchhhhccCCCCccc------cc
Q 008103 84 CEKCSKRYAVQSDWKAHSKT---CGTREYRCD-CGTLFSRRDSFITHRAFC-----DALAQESARHQPSLSA------IG 148 (577)
Q Consensus 84 C~~C~K~F~sks~L~~H~r~---hgeKpy~C~-Cgk~F~~~s~L~~H~r~h-----~~~~~~s~~~~~~l~~------~~ 148 (577)
|+.|+..|.++..|-.|.+. -...+|.|. |.|+|.++..|+.|++.| |+.|+..+.....|.. ..
T Consensus 210 Cp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r~rHs~ 289 (467)
T KOG3608|consen 210 CPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIRYRHSK 289 (467)
T ss_pred cchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHHhhhcc
Confidence 99999999999999999887 356799999 999999999999999977 5555555554444332 45
Q ss_pred CcccccCccccccccccchhhhhhhhhcCCCCCccccc
Q 008103 149 SHLYASTNNMALGLSQVGPQLSSIKDHHQTNQSGDILC 186 (577)
Q Consensus 149 ~~~y~c~~~C~~~fs~~ssl~~H~k~hh~~~kp~~c~~ 186 (577)
.++++|.. |++.|...+.|.+|...|. +.-|.|..
T Consensus 290 dkpfKCd~-Cd~~c~~esdL~kH~~~HS--~~~y~C~h 324 (467)
T KOG3608|consen 290 DKPFKCDE-CDTRCVRESDLAKHVQVHS--KTVYQCEH 324 (467)
T ss_pred CCCccccc-hhhhhccHHHHHHHHHhcc--ccceecCC
Confidence 66677776 7777777777777776552 33455555
No 6
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.44 E-value=4.8e-14 Score=157.59 Aligned_cols=85 Identities=18% Similarity=0.352 Sum_probs=63.3
Q ss_pred ccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCChhHHHHHHHHhccchhhhccCCCCcccccCcccccC---cc
Q 008103 83 KCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLYAST---NN 157 (577)
Q Consensus 83 kC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~~~~~~y~c~---~~ 157 (577)
+|-+|.++..-++.|+.|.|+ +|||||+|+ |++.|.++-.|+.|+-+|.... --.-.+.|. +
T Consensus 607 qCiiC~rVlSC~saLqmHyrtHtGERPFkCKiCgRAFtTkGNLkaH~~vHka~p------------~~R~q~ScP~~~i- 673 (958)
T KOG1074|consen 607 QCIICLRVLSCPSALQMHYRTHTGERPFKCKICGRAFTTKGNLKAHMSVHKAKP------------PARVQFSCPSTFI- 673 (958)
T ss_pred ceeeeeecccchhhhhhhhhcccCcCccccccccchhccccchhhcccccccCc------------cccccccCCchhh-
Confidence 388888888888888888888 788899998 9999988888888888883211 011244555 5
Q ss_pred ccccccccchhhhhhhhhcCCCC
Q 008103 158 MALGLSQVGPQLSSIKDHHQTNQ 180 (577)
Q Consensus 158 C~~~fs~~ssl~~H~k~hh~~~k 180 (577)
|-+-|...-.|-.|+++|.....
T Consensus 674 c~~kftn~V~lpQhIriH~~~~~ 696 (958)
T KOG1074|consen 674 CQKKFTNAVTLPQHIRIHLGGQI 696 (958)
T ss_pred hcccccccccccceEEeecCCCC
Confidence 77778887778888888764433
No 7
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=99.42 E-value=4.7e-14 Score=135.88 Aligned_cols=122 Identities=22% Similarity=0.423 Sum_probs=107.8
Q ss_pred cCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCCh
Q 008103 43 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRR 120 (577)
Q Consensus 43 ~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~ 120 (577)
+...|.|.+ | +|.|....-|.+|++.|...|.|-|..|+|.|...-+|++|+|+ ++.|||+|. |+|.|..+
T Consensus 114 d~d~ftCrv--C-----gK~F~lQRmlnrh~kch~~vkr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqr 186 (267)
T KOG3576|consen 114 DQDSFTCRV--C-----GKKFGLQRMLNRHLKCHSDVKRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQR 186 (267)
T ss_pred CCCeeeeeh--h-----hhhhhHHHHHHHHhhhccHHHHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhh
Confidence 456799999 9 99999999999999999999999999999999999999999999 899999999 99999999
Q ss_pred hHHHHHHHHhccc-hhhhccCCCCcccccCcccccCccccccccccchhhhhhhhhcCC
Q 008103 121 DSFITHRAFCDAL-AQESARHQPSLSAIGSHLYASTNNMALGLSQVGPQLSSIKDHHQT 178 (577)
Q Consensus 121 s~L~~H~r~h~~~-~~~s~~~~~~l~~~~~~~y~c~~~C~~~fs~~ssl~~H~k~hh~~ 178 (577)
-+|..|.+..|.. .++..+. ...++|.|++ |+..-.....+..|++.||+.
T Consensus 187 csleshl~kvhgv~~~yayke------rr~kl~vced-cg~t~~~~e~~~~h~~~~hp~ 238 (267)
T KOG3576|consen 187 CSLESHLKKVHGVQHQYAYKE------RRAKLYVCED-CGYTSERPEVYYLHLKLHHPF 238 (267)
T ss_pred ccHHHHHHHHcCchHHHHHHH------hhhheeeecc-cCCCCCChhHHHHHHHhcCCC
Confidence 9999999865553 3344333 5678999999 999888888889999988664
No 8
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.39 E-value=7.5e-14 Score=153.70 Aligned_cols=106 Identities=25% Similarity=0.587 Sum_probs=95.6
Q ss_pred ccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccC-------
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG------- 78 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htg------- 78 (577)
..|+.|.+.+++...|+.|++..+ ...+.-|.|.. | .+.|.++..|.+|+.+|.-
T Consensus 211 ltcpycdrgykrltslkeHikyrh-----------ekne~nfsC~l--C-----sytFAyRtQLErhm~~hkpg~dqa~s 272 (1007)
T KOG3623|consen 211 LTCPYCDRGYKRLTSLKEHIKYRH-----------EKNEPNFSCML--C-----SYTFAYRTQLERHMQLHKPGGDQAIS 272 (1007)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHH-----------hhCCCCCcchh--h-----hhhhhhHHHHHHHHHhhcCCCccccc
Confidence 579999999999999999988643 24567789999 9 9999999999999998862
Q ss_pred ------CcccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCChhHHHHHHHH
Q 008103 79 ------EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRAF 129 (577)
Q Consensus 79 ------eKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~s~L~~H~r~ 129 (577)
.++|||.+|+|.|+.+.+|+.|+|+ .|||||.|+ |.|+|...-++..|+-.
T Consensus 273 ltqsa~lRKFKCtECgKAFKfKHHLKEHlRIHSGEKPfeCpnCkKRFSHSGSySSHmSS 331 (1007)
T KOG3623|consen 273 LTQSALLRKFKCTECGKAFKFKHHLKEHLRIHSGEKPFECPNCKKRFSHSGSYSSHMSS 331 (1007)
T ss_pred ccchhhhccccccccchhhhhHHHHHhhheeecCCCCcCCcccccccccCCcccccccc
Confidence 4789999999999999999999999 799999999 99999999999999864
No 9
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=99.36 E-value=4.3e-13 Score=150.12 Aligned_cols=105 Identities=24% Similarity=0.470 Sum_probs=86.0
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCc--
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK-- 80 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeK-- 80 (577)
+.|-+|.+|-|+...++.|+.|.|+|+ +|+||+|.+ | +|+|.++.+|+.|+.+|.-..
T Consensus 603 TdPNqCiiC~rVlSC~saLqmHyrtHt-------------GERPFkCKi--C-----gRAFtTkGNLkaH~~vHka~p~~ 662 (958)
T KOG1074|consen 603 TDPNQCIICLRVLSCPSALQMHYRTHT-------------GERPFKCKI--C-----GRAFTTKGNLKAHMSVHKAKPPA 662 (958)
T ss_pred CCccceeeeeecccchhhhhhhhhccc-------------CcCcccccc--c-----cchhccccchhhcccccccCccc
Confidence 456789999999999999999999997 999999999 9 999999999999999997543
Q ss_pred --ccccC---cCCCcccchhhhhhhccccC-----------Cce---eecC-CCCCcCChhHHHHHH
Q 008103 81 --KWKCE---KCSKRYAVQSDWKAHSKTCG-----------TRE---YRCD-CGTLFSRRDSFITHR 127 (577)
Q Consensus 81 --pykC~---~C~K~F~sks~L~~H~r~hg-----------eKp---y~C~-Cgk~F~~~s~L~~H~ 127 (577)
+|.|+ +|-+.|...-.|..|+++|- +.. -.|. |.|.|.....+..++
T Consensus 663 R~q~ScP~~~ic~~kftn~V~lpQhIriH~~~~~s~g~~a~e~~~~adq~~~~qk~~~~a~~f~~~~ 729 (958)
T KOG1074|consen 663 RVQFSCPSTFICQKKFTNAVTLPQHIRIHLGGQISNGGTAAEGILAADQCSSCQKTFSDARSFSQQI 729 (958)
T ss_pred cccccCCchhhhcccccccccccceEEeecCCCCCCCcccccccchhcccchhhhcccccccchhhh
Confidence 47899 99999999999999999842 111 2466 777776655555553
No 10
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=99.31 E-value=3.7e-13 Score=148.30 Aligned_cols=79 Identities=23% Similarity=0.639 Sum_probs=69.1
Q ss_pred cCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCCh
Q 008103 43 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRR 120 (577)
Q Consensus 43 ~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~ 120 (577)
.+..|.|+. | .|.|...+.|.+|...|+|.+||+|.+|.|.|+.+.+|+.|+|. .|||||.|+ |+|+|...
T Consensus 891 e~gmyaCDq--C-----DK~FqKqSSLaRHKYEHsGqRPyqC~iCkKAFKHKHHLtEHkRLHSGEKPfQCdKClKRFSHS 963 (1007)
T KOG3623|consen 891 EDGMYACDQ--C-----DKAFQKQSSLARHKYEHSGQRPYQCIICKKAFKHKHHLTEHKRLHSGEKPFQCDKCLKRFSHS 963 (1007)
T ss_pred ccccchHHH--H-----HHHHHhhHHHHHhhhhhcCCCCcccchhhHhhhhhhhhhhhhhhccCCCcchhhhhhhhcccc
Confidence 557788888 8 88888888888998889999999999999999999999999888 788999998 99999888
Q ss_pred hHHHHHHH
Q 008103 121 DSFITHRA 128 (577)
Q Consensus 121 s~L~~H~r 128 (577)
-++..||.
T Consensus 964 GSYSQHMN 971 (1007)
T KOG3623|consen 964 GSYSQHMN 971 (1007)
T ss_pred cchHhhhc
Confidence 88888875
No 11
>PLN03086 PRLI-interacting factor K; Provisional
Probab=99.03 E-value=3.7e-10 Score=125.53 Aligned_cols=104 Identities=22% Similarity=0.491 Sum_probs=87.6
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW 82 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy 82 (577)
++.+.|+.|++.|. ...|..|+++|+ ++|.|+ | ++.+ .+..|..|+.+|..+|++
T Consensus 451 ~~H~~C~~Cgk~f~-~s~LekH~~~~H---------------kpv~Cp---C-----g~~~-~R~~L~~H~~thCp~Kpi 505 (567)
T PLN03086 451 KNHVHCEKCGQAFQ-QGEMEKHMKVFH---------------EPLQCP---C-----GVVL-EKEQMVQHQASTCPLRLI 505 (567)
T ss_pred ccCccCCCCCCccc-hHHHHHHHHhcC---------------CCccCC---C-----CCCc-chhHHHhhhhccCCCCce
Confidence 46789999999996 678999999874 678997 7 7654 678999999999999999
Q ss_pred ccCcCCCccc----------chhhhhhhccccCCceeecC-CCCCcCChhHHHHHHHHhcc
Q 008103 83 KCEKCSKRYA----------VQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 83 kC~~C~K~F~----------sks~L~~H~r~hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~ 132 (577)
.|++|++.|. ....|+.|..+++.+++.|. |++.|..+ .+..|+..+|.
T Consensus 506 ~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~C~~Cgk~Vrlr-dm~~H~~~~h~ 565 (567)
T PLN03086 506 TCRFCGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAPCDSCGRSVMLK-EMDIHQIAVHQ 565 (567)
T ss_pred eCCCCCCccccCccccchhhhhhhHHHHHHhcCCcceEccccCCeeeeh-hHHHHHHHhhc
Confidence 9999999985 24589999999999999999 99999776 47888876643
No 12
>PHA00733 hypothetical protein
Probab=98.88 E-value=1.4e-09 Score=100.01 Aligned_cols=84 Identities=14% Similarity=0.271 Sum_probs=70.1
Q ss_pred cCceeeCCCCCccCCCCCCccCChhhHHhH------hhhccCCcccccCcCCCcccchhhhhhhccccCCceeecC-CCC
Q 008103 43 KRKVYLCPEPTCVHHDPSRALGDLTGIKKH------YSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGT 115 (577)
Q Consensus 43 ~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H------~r~HtgeKpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk 115 (577)
..+++.|.+ | .+.|.....|..| +.. +.++||+|++|++.|.....|..|++.+ +++|.|+ |++
T Consensus 37 ~~~~~~~~~--~-----~~~~~~~~~l~~~~~l~~~~~~-~~~kPy~C~~Cgk~Fss~s~L~~H~r~h-~~~~~C~~CgK 107 (128)
T PHA00733 37 EQKRLIRAV--V-----KTLIYNPQLLDESSYLYKLLTS-KAVSPYVCPLCLMPFSSSVSLKQHIRYT-EHSKVCPVCGK 107 (128)
T ss_pred hhhhHHHHH--H-----hhhccChhhhcchHHHHhhccc-CCCCCccCCCCCCcCCCHHHHHHHHhcC-CcCccCCCCCC
Confidence 568899999 8 6666665555444 333 4589999999999999999999999975 5689999 999
Q ss_pred CcCChhHHHHHHHHhccchh
Q 008103 116 LFSRRDSFITHRAFCDALAQ 135 (577)
Q Consensus 116 ~F~~~s~L~~H~r~h~~~~~ 135 (577)
.|.....|.+|++..|.+|.
T Consensus 108 ~F~~~~sL~~H~~~~h~~~~ 127 (128)
T PHA00733 108 EFRNTDSTLDHVCKKHNICV 127 (128)
T ss_pred ccCCHHHHHHHHHHhcCccc
Confidence 99999999999999988774
No 13
>PLN03086 PRLI-interacting factor K; Provisional
Probab=98.83 E-value=1e-08 Score=114.26 Aligned_cols=137 Identities=17% Similarity=0.303 Sum_probs=100.9
Q ss_pred ccccccccccCChHHHHHHHHhcCC-Ccc-----ccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCC
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHNL-PWK-----LKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE 79 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~~-p~~-----~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htge 79 (577)
-.|+-|.+... ...|..|...... ... |....+....++.+.|+. | ++.|. ...|++|+++|+
T Consensus 408 V~C~NC~~~i~-l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~--C-----gk~f~-~s~LekH~~~~H-- 476 (567)
T PLN03086 408 VECRNCKHYIP-SRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEK--C-----GQAFQ-QGEMEKHMKVFH-- 476 (567)
T ss_pred EECCCCCCccc-hhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCC--C-----CCccc-hHHHHHHHHhcC--
Confidence 46999988655 4667789866542 111 333445555677889999 8 88885 678999999985
Q ss_pred cccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCC----------hhHHHHHHHHhccchhhhccCCCCcccc
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSR----------RDSFITHRAFCDALAQESARHQPSLSAI 147 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~----------~s~L~~H~r~h~~~~~~s~~~~~~l~~~ 147 (577)
++|.|+ |++.+ .+..|..|+++ +.+|++.|. |++.|.. .+.|..|..+|
T Consensus 477 kpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~~v~~g~~~~d~~d~~s~Lt~HE~~C----------------- 537 (567)
T PLN03086 477 EPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGDMVQAGGSAMDVRDRLRGMSEHESIC----------------- 537 (567)
T ss_pred CCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCCccccCccccchhhhhhhHHHHHHhc-----------------
Confidence 889999 99765 66899999988 889999999 9999952 45788888876
Q ss_pred cCcccccCccccccccccchhhhhhhh
Q 008103 148 GSHLYASTNNMALGLSQVGPQLSSIKD 174 (577)
Q Consensus 148 ~~~~y~c~~~C~~~fs~~ssl~~H~k~ 174 (577)
+.+++.|.. |++.+.... +..|+..
T Consensus 538 G~rt~~C~~-Cgk~Vrlrd-m~~H~~~ 562 (567)
T PLN03086 538 GSRTAPCDS-CGRSVMLKE-MDIHQIA 562 (567)
T ss_pred CCcceEccc-cCCeeeehh-HHHHHHH
Confidence 566788866 887765543 3455543
No 14
>PHA00733 hypothetical protein
Probab=98.73 E-value=7e-09 Score=95.48 Aligned_cols=85 Identities=20% Similarity=0.258 Sum_probs=72.1
Q ss_pred CCCcccccccccccCChHHHHHH--HHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCC
Q 008103 2 ATNRFICEVCNKGFQREQNLQLH--RRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE 79 (577)
Q Consensus 2 ~~kpy~C~~CgK~F~~~s~L~~H--~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htge 79 (577)
+.++++|.+|.+.|.....|..| ++.|. .. ..+++|.|+. | ++.|.....|..|++.| +
T Consensus 37 ~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~---------~~-~~~kPy~C~~--C-----gk~Fss~s~L~~H~r~h--~ 97 (128)
T PHA00733 37 EQKRLIRAVVKTLIYNPQLLDESSYLYKLL---------TS-KAVSPYVCPL--C-----LMPFSSSVSLKQHIRYT--E 97 (128)
T ss_pred hhhhHHHHHHhhhccChhhhcchHHHHhhc---------cc-CCCCCccCCC--C-----CCcCCCHHHHHHHHhcC--C
Confidence 35789999999999998888887 33331 12 3578999999 9 99999999999999987 4
Q ss_pred cccccCcCCCcccchhhhhhhccc-cC
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKT-CG 105 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~-hg 105 (577)
++|+|++|++.|.....|.+|++. |+
T Consensus 98 ~~~~C~~CgK~F~~~~sL~~H~~~~h~ 124 (128)
T PHA00733 98 HSKVCPVCGKEFRNTDSTLDHVCKKHN 124 (128)
T ss_pred cCccCCCCCCccCCHHHHHHHHHHhcC
Confidence 689999999999999999999987 64
No 15
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.35 E-value=2e-07 Score=98.81 Aligned_cols=83 Identities=18% Similarity=0.476 Sum_probs=69.7
Q ss_pred ceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccccCC------------------
Q 008103 45 KVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGT------------------ 106 (577)
Q Consensus 45 kpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~hge------------------ 106 (577)
.-|.|.. | ...|.+.-.|.+|...-.-...|+|++|+|+|.-..+|..|.|||.-
T Consensus 266 GdyiCqL--C-----K~kYeD~F~LAQHrC~RIV~vEYrCPEC~KVFsCPANLASHRRWHKPR~eaa~a~~~P~k~~~~~ 338 (500)
T KOG3993|consen 266 GDYICQL--C-----KEKYEDAFALAQHRCPRIVHVEYRCPECDKVFSCPANLASHRRWHKPRPEAAKAGSPPPKQAVET 338 (500)
T ss_pred HHHHHHH--H-----HHhhhhHHHHhhccCCeeEEeeecCCcccccccCchhhhhhhcccCCchhhhhcCCCChhhhhhh
Confidence 3489999 8 88999999999997654444459999999999999999999998621
Q ss_pred ----------------ceeecC-CCCCcCChhHHHHHHHHhccch
Q 008103 107 ----------------REYRCD-CGTLFSRRDSFITHRAFCDALA 134 (577)
Q Consensus 107 ----------------Kpy~C~-Cgk~F~~~s~L~~H~r~h~~~~ 134 (577)
-.|.|. |+|.|++...|++|+.+|+...
T Consensus 339 rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~ 383 (500)
T KOG3993|consen 339 RAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAP 383 (500)
T ss_pred hhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccc
Confidence 138999 9999999999999999996643
No 16
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=98.33 E-value=7.9e-08 Score=101.74 Aligned_cols=153 Identities=18% Similarity=0.278 Sum_probs=104.0
Q ss_pred ccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccC-------
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG------- 78 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htg------- 78 (577)
|+|..|...|.+...|.+|+-... -..-|+|++ | +|.|....+|..|.|+|.-
T Consensus 268 yiCqLCK~kYeD~F~LAQHrC~RI-------------V~vEYrCPE--C-----~KVFsCPANLASHRRWHKPR~eaa~a 327 (500)
T KOG3993|consen 268 YICQLCKEKYEDAFALAQHRCPRI-------------VHVEYRCPE--C-----DKVFSCPANLASHRRWHKPRPEAAKA 327 (500)
T ss_pred HHHHHHHHhhhhHHHHhhccCCee-------------EEeeecCCc--c-----cccccCchhhhhhhcccCCchhhhhc
Confidence 899999999999999999864321 235699999 9 9999999999999999852
Q ss_pred -C-------------------------cccccCcCCCcccchhhhhhhccccCCce------------------eecC-C
Q 008103 79 -E-------------------------KKWKCEKCSKRYAVQSDWKAHSKTCGTRE------------------YRCD-C 113 (577)
Q Consensus 79 -e-------------------------KpykC~~C~K~F~sks~L~~H~r~hgeKp------------------y~C~-C 113 (577)
. --|.|.+|+|.|.++..|++|+.+|.+++ +.|+ |
T Consensus 328 ~~~P~k~~~~~rae~~ea~rsg~dss~gi~~C~~C~KkFrRqAYLrKHqlthq~~~~~k~~a~~f~~s~~~~l~~~~~~~ 407 (500)
T KOG3993|consen 328 GSPPPKQAVETRAEVQEAERSGDDSSSGIFSCHTCGKKFRRQAYLRKHQLTHQRAPLAKEKAPKFLLSRVIPLMHFNQAV 407 (500)
T ss_pred CCCChhhhhhhhhhhhhccccCCcccCceeecHHhhhhhHHHHHHHHhHHhhhccccchhcccCcchhhccccccccccc
Confidence 1 13889999999999999999987742211 3455 6
Q ss_pred CCCcCChhHHHHHHHHh-----ccchhhhccC---CCCc-----ccccCcccccCccccccccccchhhhhhhhhcCCC
Q 008103 114 GTLFSRRDSFITHRAFC-----DALAQESARH---QPSL-----SAIGSHLYASTNNMALGLSQVGPQLSSIKDHHQTN 179 (577)
Q Consensus 114 gk~F~~~s~L~~H~r~h-----~~~~~~s~~~---~~~l-----~~~~~~~y~c~~~C~~~fs~~ssl~~H~k~hh~~~ 179 (577)
...+...+.--.|..++ +..+.+.... .... ..+..+.+.|++ |.-.|...-.|.+|+.+-|..+
T Consensus 408 a~h~~a~~~~g~~vl~~a~sael~~pp~~~~ppsss~~sgg~~rlg~~~q~f~~ky-~~atfyss~~ltrhin~~Hpse 485 (500)
T KOG3993|consen 408 ATHSSASDSHGDEVLYVAGSAELELPPYDGSPPSSSGSSGGYGRLGIAEQGFTCKY-CPATFYSSPGLTRHINKCHPSE 485 (500)
T ss_pred ccccccccccccceeeeeccccccCCCCCCCCcccCCCCCccccccchhhcccccc-chHhhhcCcchHhHhhhcChHH
Confidence 66665554433333332 1111111111 0000 014456788886 8888888888888887765544
No 17
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=98.17 E-value=7.7e-07 Score=59.53 Aligned_cols=26 Identities=31% Similarity=0.797 Sum_probs=23.6
Q ss_pred hHHhHhhhccCCcccccCcCCCcccc
Q 008103 68 GIKKHYSRKHGEKKWKCEKCSKRYAV 93 (577)
Q Consensus 68 ~Lk~H~r~HtgeKpykC~~C~K~F~s 93 (577)
+|++|+++|+++|||+|++|++.|..
T Consensus 1 ~l~~H~~~H~~~k~~~C~~C~k~F~~ 26 (26)
T PF13465_consen 1 NLRRHMRTHTGEKPYKCPYCGKSFSN 26 (26)
T ss_dssp HHHHHHHHHSSSSSEEESSSSEEESS
T ss_pred CHHHHhhhcCCCCCCCCCCCcCeeCc
Confidence 48899999999999999999999863
No 18
>PHA02768 hypothetical protein; Provisional
Probab=98.16 E-value=9e-07 Score=69.48 Aligned_cols=44 Identities=16% Similarity=0.376 Sum_probs=34.6
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhh
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWK 98 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~ 98 (577)
-|.|+. | +|.|.....|.+|+++|+ |+|+|..|+|.|.+.+.|.
T Consensus 5 ~y~C~~--C-----GK~Fs~~~~L~~H~r~H~--k~~kc~~C~k~f~~~s~l~ 48 (55)
T PHA02768 5 GYECPI--C-----GEIYIKRKSMITHLRKHN--TNLKLSNCKRISLRTGEYI 48 (55)
T ss_pred ccCcch--h-----CCeeccHHHHHHHHHhcC--CcccCCcccceecccceeE
Confidence 367888 7 888888888888888887 6788888888887776664
No 19
>PHA02768 hypothetical protein; Provisional
Probab=98.09 E-value=2e-06 Score=67.56 Aligned_cols=46 Identities=17% Similarity=0.317 Sum_probs=40.1
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHH
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIK 70 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk 70 (577)
---|+|++|+|.|.+..+|..|+++|+ ++|+|.. | +|.|...+.|.
T Consensus 3 ~~~y~C~~CGK~Fs~~~~L~~H~r~H~---------------k~~kc~~--C-----~k~f~~~s~l~ 48 (55)
T PHA02768 3 LLGYECPICGEIYIKRKSMITHLRKHN---------------TNLKLSN--C-----KRISLRTGEYI 48 (55)
T ss_pred ccccCcchhCCeeccHHHHHHHHHhcC---------------CcccCCc--c-----cceecccceeE
Confidence 346999999999999999999999995 5899998 8 99998777654
No 20
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=98.01 E-value=2.1e-06 Score=88.20 Aligned_cols=29 Identities=28% Similarity=0.575 Sum_probs=24.4
Q ss_pred ccCceeeCCCCCccCCCCCCccCChhhHHhHhhh
Q 008103 42 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSR 75 (577)
Q Consensus 42 ~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~ 75 (577)
.++|||+|++++| .|.|+....|+.|+..
T Consensus 345 ~d~KpykCpV~gC-----~K~YknqnGLKYH~lh 373 (423)
T COG5189 345 KDGKPYKCPVEGC-----NKKYKNQNGLKYHMLH 373 (423)
T ss_pred ecCceecCCCCCc-----hhhhccccchhhhhhc
Confidence 3468999999888 8999999999998764
No 21
>COG5189 SFP1 Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
Probab=97.76 E-value=6e-06 Score=85.01 Aligned_cols=51 Identities=29% Similarity=0.643 Sum_probs=45.5
Q ss_pred CCcccccCc--CCCcccchhhhhhhccc-c-------------------CCceeecC-CCCCcCChhHHHHHHH
Q 008103 78 GEKKWKCEK--CSKRYAVQSDWKAHSKT-C-------------------GTREYRCD-CGTLFSRRDSFITHRA 128 (577)
Q Consensus 78 geKpykC~~--C~K~F~sks~L~~H~r~-h-------------------geKpy~C~-Cgk~F~~~s~L~~H~r 128 (577)
++|||+|++ |+|.|+....|+.|+.. | ..|||+|+ |+|+|+...-|+.|++
T Consensus 346 d~KpykCpV~gC~K~YknqnGLKYH~lhGH~~~~~~~~p~p~~~~~F~~~~KPYrCevC~KRYKNlNGLKYHr~ 419 (423)
T COG5189 346 DGKPYKCPVEGCNKKYKNQNGLKYHMLHGHQNQKLHENPSPEKMNIFSAKDKPYRCEVCDKRYKNLNGLKYHRK 419 (423)
T ss_pred cCceecCCCCCchhhhccccchhhhhhccccCcccCCCCCccccccccccCCceeccccchhhccCccceeccc
Confidence 359999988 99999999999999876 5 34999999 9999999999998875
No 22
>PHA00616 hypothetical protein
Probab=97.62 E-value=2.3e-05 Score=58.88 Aligned_cols=34 Identities=15% Similarity=0.251 Sum_probs=30.9
Q ss_pred cccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCC
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPE 51 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~ 51 (577)
||+|+.||+.|..++.|.+|++.|+ +++++.|+.
T Consensus 1 pYqC~~CG~~F~~~s~l~~H~r~~h-------------g~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLRCGGIFRKKKEVIEHLLSVH-------------KQNKLTLEY 34 (44)
T ss_pred CCccchhhHHHhhHHHHHHHHHHhc-------------CCCccceeE
Confidence 7999999999999999999999997 778888764
No 23
>PHA00732 hypothetical protein
Probab=97.45 E-value=9.8e-05 Score=62.58 Aligned_cols=49 Identities=20% Similarity=0.500 Sum_probs=32.5
Q ss_pred cccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccC
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHG 78 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htg 78 (577)
||+|++|++.|.+...|+.|++.++ .++.|+. | ++.|. .|..|++.+.+
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H---------------~~~~C~~--C-----gKsF~---~l~~H~~~~~~ 49 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNH---------------TLTKCPV--C-----NKSYR---RLNQHFYSQYD 49 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhccc---------------CCCccCC--C-----CCEeC---ChhhhhcccCC
Confidence 5778888888888888887776432 1246777 7 77776 46677765543
No 24
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=97.21 E-value=0.00016 Score=46.35 Aligned_cols=23 Identities=39% Similarity=0.899 Sum_probs=21.7
Q ss_pred ccccccccccCChHHHHHHHHhc
Q 008103 6 FICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H 28 (577)
|+|++|++.|.++..|+.|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 78999999999999999999875
No 25
>PHA00616 hypothetical protein
Probab=97.18 E-value=0.00012 Score=54.99 Aligned_cols=39 Identities=18% Similarity=0.334 Sum_probs=30.9
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcc
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRY 91 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F 91 (577)
||+|+. | ++.|..++.|.+|++.|++++++.|++--..|
T Consensus 1 pYqC~~--C-----G~~F~~~s~l~~H~r~~hg~~~~~~~~~y~~f 39 (44)
T PHA00616 1 MYQCLR--C-----GGIFRKKKEVIEHLLSVHKQNKLTLEYFYIYF 39 (44)
T ss_pred CCccch--h-----hHHHhhHHHHHHHHHHhcCCCccceeEEEEEE
Confidence 578888 8 88888888888888888888888887643333
No 26
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.08 E-value=0.00058 Score=77.66 Aligned_cols=114 Identities=21% Similarity=0.372 Sum_probs=75.3
Q ss_pred cccccccccc---------------CChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCC----CCCCccCCh
Q 008103 6 FICEVCNKGF---------------QREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHH----DPSRALGDL 66 (577)
Q Consensus 6 y~C~~CgK~F---------------~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~----~~~k~F~~~ 66 (577)
+.|.+|.+.| .....|+.|+..-+ +.+.|.+ |.+. .+.+..-+.
T Consensus 100 ~~C~~C~~~~~~~~~~~~~~~c~~~~s~~~Lk~H~~~~H---------------~~~~c~l--C~~~~kif~~e~k~Yt~ 162 (669)
T KOG2231|consen 100 HSCHICDRRFRALYNKKECLHCTEFKSVENLKNHMRDQH---------------KLHLCSL--CLQNLKIFINERKLYTR 162 (669)
T ss_pred hhcCccccchhhhcccCCCccccchhHHHHHHHHHHHhh---------------hhhcccc--ccccceeeeeeeehehH
Confidence 4567776666 37788999985433 3344555 3211 112334456
Q ss_pred hhHHhHhhhcc-CCc----ccccCcCCCcccchhhhhhhccccCCceeecC----CCCCcCChhHHHHHHHHhccchhh
Q 008103 67 TGIKKHYSRKH-GEK----KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD----CGTLFSRRDSFITHRAFCDALAQE 136 (577)
Q Consensus 67 s~Lk~H~r~Ht-geK----pykC~~C~K~F~sks~L~~H~r~hgeKpy~C~----Cgk~F~~~s~L~~H~r~h~~~~~~ 136 (577)
..|..|+..-. +++ .-.|..|...|.....|.+|++.+.+-.+.|+ |...|...+.|..|-|..|.+|.+
T Consensus 163 ~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~HflCE~ 241 (669)
T KOG2231|consen 163 AELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFLCEE 241 (669)
T ss_pred HHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHHhhccceeheeecCcccccchhcccchHHHHHhhhcCccccc
Confidence 67778876422 222 24699999999999999999998434444552 667889999999999988776653
No 27
>PHA00732 hypothetical protein
Probab=97.06 E-value=0.00042 Score=58.73 Aligned_cols=45 Identities=29% Similarity=0.562 Sum_probs=32.9
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhh-ccCCcccccCcCCCcccchhhhhhhccc
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSR-KHGEKKWKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~-HtgeKpykC~~C~K~F~sks~L~~H~r~ 103 (577)
||.|+. | ++.|.....|++|++. |. +++|++|++.|. .|..|.++
T Consensus 1 py~C~~--C-----gk~F~s~s~Lk~H~r~~H~---~~~C~~CgKsF~---~l~~H~~~ 46 (79)
T PHA00732 1 MFKCPI--C-----GFTTVTLFALKQHARRNHT---LTKCPVCNKSYR---RLNQHFYS 46 (79)
T ss_pred CccCCC--C-----CCccCCHHHHHHHhhcccC---CCccCCCCCEeC---Chhhhhcc
Confidence 467777 7 8888888888888874 54 357888888886 46677755
No 28
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.98 E-value=0.00087 Score=52.48 Aligned_cols=52 Identities=27% Similarity=0.520 Sum_probs=32.8
Q ss_pred cccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhcc
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH 77 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Ht 77 (577)
-|.|+.|++ ..+...|..|....+. ...+.+.||+ | .+.+. .+|.+|+..++
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~-----------~~~~~v~CPi--C-----~~~~~--~~l~~Hl~~~H 53 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHR-----------SESKNVVCPI--C-----SSRVT--DNLIRHLNSQH 53 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCc-----------CCCCCccCCC--c-----hhhhh--hHHHHHHHHhc
Confidence 478888888 4556778888665431 1335678888 7 44433 36777776654
No 29
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=96.81 E-value=0.00052 Score=58.74 Aligned_cols=23 Identities=22% Similarity=0.564 Sum_probs=0.0
Q ss_pred cccccccccCChHHHHHHHHhcC
Q 008103 7 ICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 7 ~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
+|..|+..|.+...|..|+...+
T Consensus 1 ~C~~C~~~f~~~~~l~~H~~~~H 23 (100)
T PF12756_consen 1 QCLFCDESFSSVDDLLQHMKKKH 23 (100)
T ss_dssp -----------------------
T ss_pred Ccccccccccccccccccccccc
Confidence 58888888888888888876543
No 30
>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=96.79 E-value=0.00068 Score=45.29 Aligned_cols=25 Identities=40% Similarity=0.832 Sum_probs=22.1
Q ss_pred HHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccC
Q 008103 20 NLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALG 64 (577)
Q Consensus 20 ~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~ 64 (577)
+|.+|+++|+ +++||+|+. | ++.|.
T Consensus 1 ~l~~H~~~H~-------------~~k~~~C~~--C-----~k~F~ 25 (26)
T PF13465_consen 1 NLRRHMRTHT-------------GEKPYKCPY--C-----GKSFS 25 (26)
T ss_dssp HHHHHHHHHS-------------SSSSEEESS--S-----SEEES
T ss_pred CHHHHhhhcC-------------CCCCCCCCC--C-----cCeeC
Confidence 5889999986 999999999 9 88886
No 31
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=96.75 E-value=0.0012 Score=51.61 Aligned_cols=47 Identities=23% Similarity=0.500 Sum_probs=24.6
Q ss_pred eeCCCCCccCCCCCCccCChhhHHhHhhhc-cCC-cccccCcCCCcccchhhhhhhccc
Q 008103 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRK-HGE-KKWKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 47 y~C~~~~C~~~~~~k~F~~~s~Lk~H~r~H-tge-KpykC~~C~K~F~sks~L~~H~r~ 103 (577)
|.||+ | ++ ..+...|.+|.... ..+ +.+.|++|.+.+. .+|..|++.
T Consensus 3 f~CP~--C-----~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~--~~l~~Hl~~ 51 (54)
T PF05605_consen 3 FTCPY--C-----GK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT--DNLIRHLNS 51 (54)
T ss_pred cCCCC--C-----CC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh--hHHHHHHHH
Confidence 56666 6 55 34455666665543 222 3466666665433 255555544
No 32
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=96.72 E-value=0.00089 Score=42.56 Aligned_cols=24 Identities=38% Similarity=0.893 Sum_probs=20.4
Q ss_pred ccccccccccCChHHHHHHHHhcC
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
|+|++|++.|.++..|+.|+++|+
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHHS
T ss_pred CCCcCCCCcCCcHHHHHHHHHhhC
Confidence 789999999999999999999873
No 33
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=96.72 E-value=0.00059 Score=71.90 Aligned_cols=139 Identities=17% Similarity=0.198 Sum_probs=85.0
Q ss_pred CcccccccccccCChHHHHHHHH--hcCCCccccccccccccC--ceeeCCCCCccCCCCCCccCChhhHHhHhhhccCC
Q 008103 4 NRFICEVCNKGFQREQNLQLHRR--GHNLPWKLKQKTTKEVKR--KVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE 79 (577)
Q Consensus 4 kpy~C~~CgK~F~~~s~L~~H~r--~H~~p~~~~~h~~~~~~e--kpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htge 79 (577)
.++.|..|.+.|.+...|.+|.+ .|. .+ +++.|++..| .+.|.....++.|..+|+..
T Consensus 288 ~~~~~~~~~~~~s~~~~l~~~~~~~~h~-------------~~~~~~~~~p~~~~-----~~~~~~~~~~~~~~~~~~~~ 349 (467)
T COG5048 288 LPIKSKQCNISFSRSSPLTRHLRSVNHS-------------GESLKPFSCPYSLC-----GKLFSRNDALKRHILLHTSI 349 (467)
T ss_pred cCCCCccccCCccccccccccccccccc-------------cccCCceeeeccCC-----CccccccccccCCcccccCC
Confidence 36777788888888888877777 554 55 7777773226 78888888888888888777
Q ss_pred cccccCc--CCCcccchhhhh----hh-ccc-cCCceeecC---CCCCcCChhHHHHHHHHhccchhhhccCCCCccccc
Q 008103 80 KKWKCEK--CSKRYAVQSDWK----AH-SKT-CGTREYRCD---CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIG 148 (577)
Q Consensus 80 KpykC~~--C~K~F~sks~L~----~H-~r~-hgeKpy~C~---Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~~~ 148 (577)
++++|.. |.+.+.....-. .+ ... ...+.+.|. |-+.+.+...+..|...+.. ..
T Consensus 350 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~ 415 (467)
T COG5048 350 SPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSCIRNFKRDSNLSLHIITHLS--------------FR 415 (467)
T ss_pred CccccccccCccccccccCCCCccchhhccCccCCccccccccchhhhhccccccccccccccc--------------cC
Confidence 7776644 444444433311 11 111 445566665 66666666666666555521 11
Q ss_pred CcccccCccccccccccchhhhhhhhh
Q 008103 149 SHLYASTNNMALGLSQVGPQLSSIKDH 175 (577)
Q Consensus 149 ~~~y~c~~~C~~~fs~~ssl~~H~k~h 175 (577)
...+.+.. |.+.+...-.+..|++.+
T Consensus 416 ~~~~~~~~-~~~~~~~~~~~~~~~~~~ 441 (467)
T COG5048 416 PYNCKNPP-CSKSFNRHYNLIPHKKIH 441 (467)
T ss_pred CcCCCCCc-chhhccCccccccccccc
Confidence 22333334 667777777777776665
No 34
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=96.63 E-value=0.00099 Score=44.37 Aligned_cols=25 Identities=36% Similarity=0.727 Sum_probs=23.6
Q ss_pred cccccccccccCChHHHHHHHHhcC
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
||+|.+|++.|.+...|..|++.|.
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 6999999999999999999999884
No 35
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=96.62 E-value=0.0013 Score=42.12 Aligned_cols=22 Identities=32% Similarity=0.748 Sum_probs=15.0
Q ss_pred eecC-CCCCcCChhHHHHHHHHh
Q 008103 109 YRCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 109 y~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
|.|+ |++.|.++..|.+|++.|
T Consensus 1 y~C~~C~~~f~~~~~l~~H~~~H 23 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNLKRHMRRH 23 (23)
T ss_dssp EEETTTTEEESSHHHHHHHHHHH
T ss_pred CCCCCCCCccCCHHHHHHHHhHC
Confidence 5676 777777777777776653
No 36
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.44 E-value=0.005 Score=64.56 Aligned_cols=138 Identities=14% Similarity=0.280 Sum_probs=73.0
Q ss_pred ccccc--cccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCcc------CChhhHHhHhhhcc
Q 008103 6 FICEV--CNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRAL------GDLTGIKKHYSRKH 77 (577)
Q Consensus 6 y~C~~--CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F------~~~s~Lk~H~r~Ht 77 (577)
|.|+. |.........|+.|.+..+ ..+.|.+ |+.+ .+.| -++..|..|...-.
T Consensus 152 F~CP~skc~~~C~~~k~lk~H~K~~H---------------~~~~C~~--C~~n--Kk~F~~E~~lF~~~~Lr~H~~~G~ 212 (493)
T COG5236 152 FKCPKSKCHRRCGSLKELKKHYKAQH---------------GFVLCSE--CIGN--KKDFWNEIRLFRSSTLRDHKNGGL 212 (493)
T ss_pred hcCCchhhhhhhhhHHHHHHHHHhhc---------------CcEEhHh--hhcC--cccCccceeeeecccccccccCCc
Confidence 66765 6666666677777877643 2344544 4211 1222 23445555554433
Q ss_pred CCccc----ccCcCCCcccchhhhhhhccccCCceeecC-C----CCCcCChhHHHHHHHHhccchhhhccCCCCccccc
Q 008103 78 GEKKW----KCEKCSKRYAVQSDWKAHSKTCGTREYRCD-C----GTLFSRRDSFITHRAFCDALAQESARHQPSLSAIG 148 (577)
Q Consensus 78 geKpy----kC~~C~K~F~sks~L~~H~r~hgeKpy~C~-C----gk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~~~ 148 (577)
.+.-| .|..|.+.|..-..|.+|.|.-.|+.|.|+ - ..-|.....|.+|.+.-|-.|.
T Consensus 213 ~e~GFKGHP~C~FC~~~FYdDDEL~~HcR~~HE~ChICD~v~p~~~QYFK~Y~~Le~HF~~~hy~ct------------- 279 (493)
T COG5236 213 EEEGFKGHPLCIFCKIYFYDDDELRRHCRLRHEACHICDMVGPIRYQYFKSYEDLEAHFRNAHYCCT------------- 279 (493)
T ss_pred cccCcCCCchhhhccceecChHHHHHHHHhhhhhhhhhhccCccchhhhhCHHHHHHHhhcCceEEE-------------
Confidence 33222 377777777777777777776445666665 2 2336666677777653322111
Q ss_pred CcccccCccccccccccchhhhhhhhhcC
Q 008103 149 SHLYASTNNMALGLSQVGPQLSSIKDHHQ 177 (577)
Q Consensus 149 ~~~y~c~~~C~~~fs~~ssl~~H~k~hh~ 177 (577)
.-.|.++--..|.....|+.|+...|.
T Consensus 280 --~qtc~~~k~~vf~~~~el~~h~~~~h~ 306 (493)
T COG5236 280 --FQTCRVGKCYVFPYHTELLEHLTRFHK 306 (493)
T ss_pred --EEEEecCcEEEeccHHHHHHHHHHHhh
Confidence 001112122346667777888766554
No 37
>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=95.97 E-value=0.0058 Score=38.72 Aligned_cols=22 Identities=23% Similarity=0.656 Sum_probs=13.4
Q ss_pred eecC-CCCCcCChhHHHHHHHHh
Q 008103 109 YRCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 109 y~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
|.|+ |++.|.++..|.+|++.|
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~~~~ 23 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHMRTH 23 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHHHhh
Confidence 5666 777777777777776655
No 38
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=95.96 E-value=0.0029 Score=42.11 Aligned_cols=24 Identities=29% Similarity=0.650 Sum_probs=16.2
Q ss_pred eeecC-CCCCcCChhHHHHHHHHhc
Q 008103 108 EYRCD-CGTLFSRRDSFITHRAFCD 131 (577)
Q Consensus 108 py~C~-Cgk~F~~~s~L~~H~r~h~ 131 (577)
||.|+ |++.|.....|.+|++.|+
T Consensus 1 ~~~C~~C~~~F~~~~~l~~H~~~h~ 25 (27)
T PF13912_consen 1 PFECDECGKTFSSLSALREHKRSHC 25 (27)
T ss_dssp SEEETTTTEEESSHHHHHHHHCTTT
T ss_pred CCCCCccCCccCChhHHHHHhHHhc
Confidence 46676 7777777777777766654
No 39
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=95.92 E-value=0.0054 Score=73.70 Aligned_cols=77 Identities=18% Similarity=0.294 Sum_probs=51.5
Q ss_pred cCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCCh
Q 008103 43 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRR 120 (577)
Q Consensus 43 ~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~~ 120 (577)
..+.|+|+. | .+.|++...|..|+|..+-+-.- .+|. .+.....+.+=... .+.++|.|+ |...+..+
T Consensus 462 ~~kt~~cpk--c-----~~~yk~a~~L~vhmRskhp~~~~--~~c~-~gq~~~~~arg~~~~~~~~p~~C~~C~~stttn 531 (1406)
T KOG1146|consen 462 FFKTLKCPK--C-----NWHYKLAQTLGVHMRSKHPESQS--AYCK-AGQNHPRLARGEVYRCPGKPYPCRACNYSTTTN 531 (1406)
T ss_pred ccccccCCc--c-----chhhhhHHHhhhcccccccccch--hHhH-hccccccccccccccCCCCcccceeeeeeeecc
Confidence 448899999 8 89999999999999975533211 3331 11111111111111 566899999 99999999
Q ss_pred hHHHHHHHH
Q 008103 121 DSFITHRAF 129 (577)
Q Consensus 121 s~L~~H~r~ 129 (577)
-.|.+|+..
T Consensus 532 g~LsihlqS 540 (1406)
T KOG1146|consen 532 GNLSIHLQS 540 (1406)
T ss_pred hHHHHHHHH
Confidence 999999874
No 40
>smart00355 ZnF_C2H2 zinc finger.
Probab=95.77 E-value=0.0071 Score=38.70 Aligned_cols=24 Identities=33% Similarity=0.685 Sum_probs=22.3
Q ss_pred ccccccccccCChHHHHHHHHhcC
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
|+|.+|++.|.....|..|++.|.
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H~ 24 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTHX 24 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHhc
Confidence 789999999999999999999774
No 41
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=95.62 E-value=0.0077 Score=51.43 Aligned_cols=72 Identities=18% Similarity=0.340 Sum_probs=21.1
Q ss_pred eCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCChhHHHHH
Q 008103 48 LCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITH 126 (577)
Q Consensus 48 ~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~~s~L~~H 126 (577)
+|.. | +..|.....|..|+...++-.. . ..+.+.....+..+.+..-...+.|. |++.|.....|..|
T Consensus 1 ~C~~--C-----~~~f~~~~~l~~H~~~~H~~~~---~-~~~~l~~~~~~~~~~~~~~~~~~~C~~C~~~f~s~~~l~~H 69 (100)
T PF12756_consen 1 QCLF--C-----DESFSSVDDLLQHMKKKHGFDI---P-DQKYLVDPNRLLNYLRKKVKESFRCPYCNKTFRSREALQEH 69 (100)
T ss_dssp -----------------------------------------------------------SSEEBSSSS-EESSHHHHHHH
T ss_pred Cccc--c-----cccccccccccccccccccccc---c-cccccccccccccccccccCCCCCCCccCCCCcCHHHHHHH
Confidence 3777 7 8999999999999987665321 1 11222233444444444333479999 99999999999999
Q ss_pred HHHh
Q 008103 127 RAFC 130 (577)
Q Consensus 127 ~r~h 130 (577)
++.+
T Consensus 70 m~~~ 73 (100)
T PF12756_consen 70 MRSK 73 (100)
T ss_dssp HHHT
T ss_pred HcCc
Confidence 9975
No 42
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=95.00 E-value=0.0099 Score=46.07 Aligned_cols=31 Identities=13% Similarity=0.226 Sum_probs=17.0
Q ss_pred CCcccccCcCCCcccchhhhhhhccc-cCCce
Q 008103 78 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTRE 108 (577)
Q Consensus 78 geKpykC~~C~K~F~sks~L~~H~r~-hgeKp 108 (577)
.++|-.|++|+..+.+..+|++|+++ |+.||
T Consensus 21 S~~PatCP~C~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 21 SEQPATCPICGAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TS--EE-TTT--EESSHHHHHHHHHHHTTTS-
T ss_pred cCCCCCCCcchhhccchhhHHHHHHHHhcccC
Confidence 35666777777777777777777766 66654
No 43
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=94.52 E-value=0.017 Score=37.60 Aligned_cols=23 Identities=43% Similarity=0.986 Sum_probs=21.4
Q ss_pred ccccccccccCChHHHHHHHHhc
Q 008103 6 FICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H 28 (577)
|.|++|++.|.++..|+.|++.+
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~s~ 23 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLRSK 23 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHTTH
T ss_pred CCCCCCCCCcCCHHHHHHHHCcC
Confidence 78999999999999999999865
No 44
>smart00355 ZnF_C2H2 zinc finger.
Probab=93.94 E-value=0.043 Score=34.91 Aligned_cols=22 Identities=32% Similarity=0.825 Sum_probs=17.4
Q ss_pred eecC-CCCCcCChhHHHHHHHHh
Q 008103 109 YRCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 109 y~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
|.|. |++.|.....|..|++.|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 5687 888888888888888765
No 45
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.94 E-value=0.05 Score=62.37 Aligned_cols=110 Identities=13% Similarity=0.208 Sum_probs=65.0
Q ss_pred ccCChhhHHhHhhhccCCcccccCcC---------CCcccchhhhhhhccc--cCCce----eecC-CCCCcCChhHHHH
Q 008103 62 ALGDLTGIKKHYSRKHGEKKWKCEKC---------SKRYAVQSDWKAHSKT--CGTRE----YRCD-CGTLFSRRDSFIT 125 (577)
Q Consensus 62 ~F~~~s~Lk~H~r~HtgeKpykC~~C---------~K~F~sks~L~~H~r~--hgeKp----y~C~-Cgk~F~~~s~L~~ 125 (577)
.|...-.|+.|++..++ .+.|.+| .....++..|..|+.. .+++- -.|. |...|.....|.+
T Consensus 123 ~~~s~~~Lk~H~~~~H~--~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd~d~~s~rGhp~C~~C~~~fld~~el~r 200 (669)
T KOG2231|consen 123 EFKSVENLKNHMRDQHK--LHLCSLCLQNLKIFINERKLYTRAELNLHLMFGDPDDESCRGHPLCKFCHERFLDDDELYR 200 (669)
T ss_pred chhHHHHHHHHHHHhhh--hhccccccccceeeeeeeehehHHHHHHHHhcCCCccccccCCccchhhhhhhccHHHHHH
Confidence 34477889999964332 3566554 2223456678888876 43322 3589 9999999999999
Q ss_pred HHHHhccchhhh---------ccCCCCccc-ccCcccccCcc-cccc-ccccchhhhhhh
Q 008103 126 HRAFCDALAQES---------ARHQPSLSA-IGSHLYASTNN-MALG-LSQVGPQLSSIK 173 (577)
Q Consensus 126 H~r~h~~~~~~s---------~~~~~~l~~-~~~~~y~c~~~-C~~~-fs~~ssl~~H~k 173 (577)
|++++|..|... +..-..|.. .....|.|.+. |... |...-.+..+++
T Consensus 201 H~~~~h~~chfC~~~~~~neyy~~~~dLe~HfR~~HflCE~~~C~~~~f~~~~~~ei~lk 260 (669)
T KOG2231|consen 201 HLRFDHEFCHFCDYKTGQNEYYNDYDDLEEHFRKGHFLCEEEFCRTKKFYVAFELEIELK 260 (669)
T ss_pred hhccceeheeecCcccccchhcccchHHHHHhhhcCccccccccccceeeehhHHHHHHH
Confidence 999765443332 122222222 45567888742 4332 333334445555
No 46
>PRK04860 hypothetical protein; Provisional
Probab=93.79 E-value=0.035 Score=53.28 Aligned_cols=35 Identities=29% Similarity=0.757 Sum_probs=17.7
Q ss_pred ccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCCcCC
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSR 119 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~F~~ 119 (577)
+|+|. |++ ....+.+|.++ .++++|.|. |++.|..
T Consensus 119 ~Y~C~-C~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~ 155 (160)
T PRK04860 119 PYRCK-CQE---HQLTVRRHNRVVRGEAVYRCRRCGETLVF 155 (160)
T ss_pred EEEcC-CCC---eeCHHHHHHHHhcCCccEECCCCCceeEE
Confidence 35554 554 33444555555 455555555 5555543
No 47
>COG5048 FOG: Zn-finger [General function prediction only]
Probab=93.72 E-value=0.027 Score=59.29 Aligned_cols=115 Identities=20% Similarity=0.250 Sum_probs=69.2
Q ss_pred Cccccc--ccccccCChHHHHHHHHhcCCCccccc----------------------cccccccCceeeCCCCCccCCCC
Q 008103 4 NRFICE--VCNKGFQREQNLQLHRRGHNLPWKLKQ----------------------KTTKEVKRKVYLCPEPTCVHHDP 59 (577)
Q Consensus 4 kpy~C~--~CgK~F~~~s~L~~H~r~H~~p~~~~~----------------------h~~~~~~ekpy~C~~~~C~~~~~ 59 (577)
+|+.|+ .|++.|.+...+..|...|......+. ........+.+.|....|
T Consensus 320 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 394 (467)
T COG5048 320 KPFSCPYSLCGKLFSRNDALKRHILLHTSISPAKEKLLNSSSKFSPLLNNEPPQSLQQYKDLKNDKKSETLSNSC----- 394 (467)
T ss_pred CceeeeccCCCccccccccccCCcccccCCCccccccccCccccccccCCCCccchhhccCccCCccccccccch-----
Confidence 899999 799999999999999999972211100 001111233444444444
Q ss_pred CCccCChhhHHhHhhhccCCc--ccccCcCCCcccchhhhhhhccccCC-ceeecCCCCCcCChhHH
Q 008103 60 SRALGDLTGIKKHYSRKHGEK--KWKCEKCSKRYAVQSDWKAHSKTCGT-REYRCDCGTLFSRRDSF 123 (577)
Q Consensus 60 ~k~F~~~s~Lk~H~r~HtgeK--pykC~~C~K~F~sks~L~~H~r~hge-Kpy~C~Cgk~F~~~s~L 123 (577)
.+.+.....+..|...|...+ .++|..|.+.|.....+..|++.+.. .++.|.+-+.|.....+
T Consensus 395 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 461 (467)
T COG5048 395 IRNFKRDSNLSLHIITHLSFRPYNCKNPPCSKSFNRHYNLIPHKKIHTNHAPLLCSILKSFRRDLDL 461 (467)
T ss_pred hhhhccccccccccccccccCCcCCCCCcchhhccCcccccccccccccCCceeeccccccchhhhh
Confidence 566666666666666666555 34455677777777777777777333 34444444444444433
No 48
>PRK04860 hypothetical protein; Provisional
Probab=93.36 E-value=0.029 Score=53.81 Aligned_cols=41 Identities=20% Similarity=0.602 Sum_probs=33.9
Q ss_pred CceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchh
Q 008103 44 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQS 95 (577)
Q Consensus 44 ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks 95 (577)
.-+|.|. | ++ ....+.+|.++|+++++|+|..|++.|....
T Consensus 117 ~~~Y~C~---C-----~~---~~~~~rrH~ri~~g~~~YrC~~C~~~l~~~~ 157 (160)
T PRK04860 117 TFPYRCK---C-----QE---HQLTVRRHNRVVRGEAVYRCRRCGETLVFKG 157 (160)
T ss_pred EEEEEcC---C-----CC---eeCHHHHHHHHhcCCccEECCCCCceeEEec
Confidence 3579995 7 55 6677899999999999999999999887654
No 49
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.25 E-value=0.047 Score=57.54 Aligned_cols=80 Identities=28% Similarity=0.591 Sum_probs=59.5
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCC---Ccc------cchhhhhhhccc-cCCcee----ec
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCS---KRY------AVQSDWKAHSKT-CGTREY----RC 111 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~---K~F------~sks~L~~H~r~-hgeKpy----~C 111 (577)
.|.||...| ..+......|+.|.+..++ .+-|.+|- |.| .++..|..|... -.+.-| .|
T Consensus 151 ~F~CP~skc-----~~~C~~~k~lk~H~K~~H~--~~~C~~C~~nKk~F~~E~~lF~~~~Lr~H~~~G~~e~GFKGHP~C 223 (493)
T COG5236 151 SFKCPKSKC-----HRRCGSLKELKKHYKAQHG--FVLCSECIGNKKDFWNEIRLFRSSTLRDHKNGGLEEEGFKGHPLC 223 (493)
T ss_pred HhcCCchhh-----hhhhhhHHHHHHHHHhhcC--cEEhHhhhcCcccCccceeeeecccccccccCCccccCcCCCchh
Confidence 478998777 7788888999999998665 36777762 334 456677778776 322222 59
Q ss_pred C-CCCCcCChhHHHHHHHHhcc
Q 008103 112 D-CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 112 ~-Cgk~F~~~s~L~~H~r~h~~ 132 (577)
. |.+.|..-++|.+|+|..|.
T Consensus 224 ~FC~~~FYdDDEL~~HcR~~HE 245 (493)
T COG5236 224 IFCKIYFYDDDELRRHCRLRHE 245 (493)
T ss_pred hhccceecChHHHHHHHHhhhh
Confidence 9 99999999999999997644
No 50
>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=92.20 E-value=0.038 Score=36.97 Aligned_cols=24 Identities=33% Similarity=0.818 Sum_probs=20.9
Q ss_pred cccccccccccCChHHHHHHHHhc
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H 28 (577)
.|.|.+|++.|.+...|+.|++..
T Consensus 1 q~~C~~C~k~f~~~~~~~~H~~sk 24 (27)
T PF12171_consen 1 QFYCDACDKYFSSENQLKQHMKSK 24 (27)
T ss_dssp -CBBTTTTBBBSSHHHHHCCTTSH
T ss_pred CCCcccCCCCcCCHHHHHHHHccC
Confidence 378999999999999999998753
No 51
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=92.10 E-value=0.085 Score=41.03 Aligned_cols=33 Identities=18% Similarity=0.436 Sum_probs=24.8
Q ss_pred ccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcc
Q 008103 42 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKK 81 (577)
Q Consensus 42 ~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKp 81 (577)
..+.|..|++ | +..+....+|++|+.++++.||
T Consensus 20 ~S~~PatCP~--C-----~a~~~~srnLrRHle~~H~~k~ 52 (54)
T PF09237_consen 20 QSEQPATCPI--C-----GAVIRQSRNLRRHLEIRHFKKP 52 (54)
T ss_dssp TTS--EE-TT--T-------EESSHHHHHHHHHHHTTTS-
T ss_pred ccCCCCCCCc--c-----hhhccchhhHHHHHHHHhcccC
Confidence 5788999999 9 9999999999999999888776
No 52
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=91.66 E-value=0.3 Score=51.68 Aligned_cols=66 Identities=11% Similarity=0.114 Sum_probs=43.9
Q ss_pred eecC-CCCCcCChhHHHHHHHHhccchhhhccCCCCccc-----------ccCcccccCccccccccccchhhhhhhhh
Q 008103 109 YRCD-CGTLFSRRDSFITHRAFCDALAQESARHQPSLSA-----------IGSHLYASTNNMALGLSQVGPQLSSIKDH 175 (577)
Q Consensus 109 y~C~-Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~-----------~~~~~y~c~~~C~~~fs~~ssl~~H~k~h 175 (577)
.+|- |...+-+...|..|++..|..--........|.- ...+..+|-. |...|-....|+.||-.+
T Consensus 280 v~CLfC~~~~en~~~l~eHmk~vHe~Dl~Ki~sd~~Ln~YqrvrviNyiRkq~~~~~c~~-cd~~F~~e~~l~~hm~e~ 357 (423)
T KOG2482|consen 280 VVCLFCTNFYENPVFLFEHMKIVHEFDLLKIQSDYSLNFYQRVRVINYIRKQKKKSRCAE-CDLSFWKEPGLLIHMVED 357 (423)
T ss_pred eEEEeeccchhhHHHHHHHHHHHHHhhHHhhccccccchhhhhhHHHHHHHHhhcccccc-ccccccCcchhhhhcccc
Confidence 4799 9999999999999999765533322222222211 2234456666 888888888888887644
No 53
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=91.61 E-value=0.032 Score=58.84 Aligned_cols=49 Identities=31% Similarity=0.688 Sum_probs=31.6
Q ss_pred CcccccCc--CCCcccchhhhhhhccc-c-------------------CCceeecC-CCCCcCChhHHHHHH
Q 008103 79 EKKWKCEK--CSKRYAVQSDWKAHSKT-C-------------------GTREYRCD-CGTLFSRRDSFITHR 127 (577)
Q Consensus 79 eKpykC~~--C~K~F~sks~L~~H~r~-h-------------------geKpy~C~-Cgk~F~~~s~L~~H~ 127 (577)
+|+|+|.+ |+|.++....|+.|... | ..|+|+|+ |.|+++....|+-|+
T Consensus 347 ~~~~~~~vp~~~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~ 418 (442)
T KOG4124|consen 347 DKPYKCPVPNCDKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHR 418 (442)
T ss_pred cCCCCCCCCcchhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCcee
Confidence 35677755 77777777777776654 3 13667777 777776655555443
No 54
>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=90.78 E-value=0.15 Score=34.05 Aligned_cols=22 Identities=27% Similarity=0.742 Sum_probs=17.9
Q ss_pred cccCcCCCcccchhhhhhhccc
Q 008103 82 WKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 82 ykC~~C~K~F~sks~L~~H~r~ 103 (577)
|.|++|++.|.....|..|++.
T Consensus 2 ~~C~~C~k~f~~~~~~~~H~~s 23 (27)
T PF12171_consen 2 FYCDACDKYFSSENQLKQHMKS 23 (27)
T ss_dssp CBBTTTTBBBSSHHHHHCCTTS
T ss_pred CCcccCCCCcCCHHHHHHHHcc
Confidence 6788888888888888888775
No 55
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=90.07 E-value=0.12 Score=33.48 Aligned_cols=21 Identities=19% Similarity=0.725 Sum_probs=11.0
Q ss_pred cccCcCCCcccchhhhhhhcc
Q 008103 82 WKCEKCSKRYAVQSDWKAHSK 102 (577)
Q Consensus 82 ykC~~C~K~F~sks~L~~H~r 102 (577)
|.|++|++.|.....|+.|++
T Consensus 1 ~~C~~C~~~f~s~~~~~~H~~ 21 (25)
T PF12874_consen 1 FYCDICNKSFSSENSLRQHLR 21 (25)
T ss_dssp EEETTTTEEESSHHHHHHHHT
T ss_pred CCCCCCCCCcCCHHHHHHHHC
Confidence 345555555555555555544
No 56
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=90.02 E-value=0.15 Score=32.92 Aligned_cols=23 Identities=26% Similarity=0.608 Sum_probs=18.8
Q ss_pred ccccccccccCChHHHHHHHHhcC
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
|+|+.|..... +..|.+|++.|+
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 78999999988 999999999864
No 57
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.94 E-value=0.087 Score=52.03 Aligned_cols=82 Identities=21% Similarity=0.443 Sum_probs=66.5
Q ss_pred cCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhhccc-c----------CCceeec
Q 008103 43 KRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-C----------GTREYRC 111 (577)
Q Consensus 43 ~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~-h----------geKpy~C 111 (577)
....+.|++-+| ...|.....+..|..+-++ -.|.+|.+.|.+...|..|+.. | |.-.|.|
T Consensus 76 ~~~~~~cqvagc-----~~~~d~lD~~E~hY~~~h~---~sCs~C~r~~Pt~hLLd~HI~E~HDs~Fqa~veRG~dMy~C 147 (253)
T KOG4173|consen 76 RVPAFACQVAGC-----CQVFDALDDYEHHYHTLHG---NSCSFCKRAFPTGHLLDAHILEWHDSLFQALVERGQDMYQC 147 (253)
T ss_pred ccccccccccch-----HHHHhhhhhHHHhhhhccc---chhHHHHHhCCchhhhhHHHHHHHHHHHHHHHHcCccHHHH
Confidence 346688999888 8999988888888866544 3899999999999999999876 5 3345999
Q ss_pred C---CCCCcCChhHHHHHHHHhcc
Q 008103 112 D---CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 112 ~---Cgk~F~~~s~L~~H~r~h~~ 132 (577)
- |+..|.+....++|+-..|+
T Consensus 148 lvEgCt~KFkT~r~RkdH~I~~Hk 171 (253)
T KOG4173|consen 148 LVEGCTEKFKTSRDRKDHMIRMHK 171 (253)
T ss_pred HHHhhhhhhhhhhhhhhHHHHhcc
Confidence 4 99999999999999864433
No 58
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=89.85 E-value=0.27 Score=31.69 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=12.7
Q ss_pred eecC-CCCCcCChhHHHHHHHHhc
Q 008103 109 YRCD-CGTLFSRRDSFITHRAFCD 131 (577)
Q Consensus 109 y~C~-Cgk~F~~~s~L~~H~r~h~ 131 (577)
|+|+ |..... +..|.+|++.++
T Consensus 1 y~C~~C~y~t~-~~~l~~H~~~~H 23 (24)
T PF13909_consen 1 YKCPHCSYSTS-KSNLKRHLKRHH 23 (24)
T ss_dssp EE-SSSS-EES-HHHHHHHHHHHH
T ss_pred CCCCCCCCcCC-HHHHHHHHHhhC
Confidence 5666 666665 666677766654
No 59
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=89.50 E-value=0.18 Score=61.17 Aligned_cols=90 Identities=9% Similarity=0.102 Sum_probs=64.3
Q ss_pred cCcCCCcccchhhhhhhccc--cCCceeecC-CCCCcCChhHHHHHHHHhccchhh--------hccCCC-CcccccCcc
Q 008103 84 CEKCSKRYAVQSDWKAHSKT--CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQE--------SARHQP-SLSAIGSHL 151 (577)
Q Consensus 84 C~~C~K~F~sks~L~~H~r~--hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~~~~~--------s~~~~~-~l~~~~~~~ 151 (577)
|..|+..+.++..+..|++. ...|.|+|+ |...|+....|..|+|..|..-.. .++... ....-..++
T Consensus 439 ~~~~e~~~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~~arg~~~~~~~~p 518 (1406)
T KOG1146|consen 439 LTKAEPLLESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPRLARGEVYRCPGKP 518 (1406)
T ss_pred ccchhhhhhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccccccccccccCCCCc
Confidence 45566777777777777776 455899999 999999999999999974332211 111111 111145678
Q ss_pred cccCccccccccccchhhhhhhh
Q 008103 152 YASTNNMALGLSQVGPQLSSIKD 174 (577)
Q Consensus 152 y~c~~~C~~~fs~~ssl~~H~k~ 174 (577)
|.|.. |...++..+.|..|++.
T Consensus 519 ~~C~~-C~~stttng~LsihlqS 540 (1406)
T KOG1146|consen 519 YPCRA-CNYSTTTNGNLSIHLQS 540 (1406)
T ss_pred cccee-eeeeeecchHHHHHHHH
Confidence 99988 99999999999999874
No 60
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=88.36 E-value=0.5 Score=50.75 Aligned_cols=163 Identities=14% Similarity=0.222 Sum_probs=97.1
Q ss_pred cccccccccccCChHHHHHHHHhcCCCcccccc----------------------cc--ccccCceeeCCCCCccCCCCC
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGHNLPWKLKQK----------------------TT--KEVKRKVYLCPEPTCVHHDPS 60 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h----------------------~~--~~~~ekpy~C~~~~C~~~~~~ 60 (577)
-|+|.-|...|.+...-+.|.++-.-.|.+++. .. ....+.++.|.. | .
T Consensus 3 ~ftC~tC~v~F~~ad~Qr~HyKSdWHRYNLKRkVA~lPPItaE~F~~k~~s~~~~~~~~~e~~~~~~~c~~--c-----~ 75 (390)
T KOG2785|consen 3 GFTCNTCNVEFDDADEQRAHYKSDWHRYNLKRKVASLPPITAEEFNEKVLSDDSEKEENLEEAESVVYCEA--C-----N 75 (390)
T ss_pred cceeeceeeeeccHHHHHHHhhhhHHHhhHHhHhhcCCCcCHHHHhHHHhhhhhhhhhhhhhcccceehHH--h-----h
Confidence 389999999999999999999875422222210 11 134567899999 9 9
Q ss_pred CccCChhhHHhHhhhccC-----------------Ccccc-------------cCcCCCcccchhhhhhhccc-------
Q 008103 61 RALGDLTGIKKHYSRKHG-----------------EKKWK-------------CEKCSKRYAVQSDWKAHSKT------- 103 (577)
Q Consensus 61 k~F~~~s~Lk~H~r~Htg-----------------eKpyk-------------C~~C~K~F~sks~L~~H~r~------- 103 (577)
|.|........|+..... ++.+. |..|-..+........+...
T Consensus 76 k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l~~~~e~e~~~~E~~~~~d~~~e~~~dd~~Edi~ 155 (390)
T KOG2785|consen 76 KSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNLQNKGESELKWYEVDSDEDSSEEEEEDDEEEDIE 155 (390)
T ss_pred ccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCccccccCCCcccchhhcccccccchhhccCcchhhhh
Confidence 999998888888753211 11222 33333333332222222221
Q ss_pred ------cCCceeecC-CCCCcCChhHHHHHHHHhccchhhhc---cCCCC-cccccCc--c-cccCcccc---ccccccc
Q 008103 104 ------CGTREYRCD-CGTLFSRRDSFITHRAFCDALAQESA---RHQPS-LSAIGSH--L-YASTNNMA---LGLSQVG 166 (577)
Q Consensus 104 ------hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~~~~~s~---~~~~~-l~~~~~~--~-y~c~~~C~---~~fs~~s 166 (577)
-..-|-.|- |.+.|..-..-.+||..+|.....-. ..... +..++.+ . +.|-. |. ..|....
T Consensus 156 ~d~~~e~e~~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~-CN~~~~~f~sle 234 (390)
T KOG2785|consen 156 EDGDDEDELIPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLF-CNELGRPFSSLE 234 (390)
T ss_pred hccchhcccCCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEE-eccccCcccccH
Confidence 112456788 99999999999999998877322111 11111 2223332 2 33333 66 6777777
Q ss_pred hhhhhhhhh
Q 008103 167 PQLSSIKDH 175 (577)
Q Consensus 167 sl~~H~k~h 175 (577)
+-..||...
T Consensus 235 avr~HM~~K 243 (390)
T KOG2785|consen 235 AVRAHMRDK 243 (390)
T ss_pred HHHHHHhhc
Confidence 777888643
No 61
>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=88.30 E-value=0.31 Score=34.07 Aligned_cols=25 Identities=32% Similarity=0.773 Sum_probs=22.1
Q ss_pred CcccccccccccCChHHHHHHHHhc
Q 008103 4 NRFICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 4 kpy~C~~CgK~F~~~s~L~~H~r~H 28 (577)
.+|.|++|++.|.+...+..|++..
T Consensus 2 ~~~~C~~C~~~~~~~~~~~~H~~gk 26 (35)
T smart00451 2 GGFYCKLCNVTFTDEISVEAHLKGK 26 (35)
T ss_pred cCeEccccCCccCCHHHHHHHHChH
Confidence 3689999999999999999998764
No 62
>KOG4124 consensus Putative transcriptional repressor regulating G2/M transition [Transcription; Cell cycle control, cell division, chromosome partitioning]
Probab=87.07 E-value=0.18 Score=53.45 Aligned_cols=55 Identities=36% Similarity=0.721 Sum_probs=44.5
Q ss_pred CceeeCCCCCccCCCCCCccCChhhHHhHhhh---------------cc----CCcccccCcCCCcccchhhhhhhccc
Q 008103 44 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSR---------------KH----GEKKWKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 44 ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~---------------Ht----geKpykC~~C~K~F~sks~L~~H~r~ 103 (577)
.++|+|++|.| .+.++....|+.|... |+ ..|+|+|++|.|+++....|+.|...
T Consensus 347 ~~~~~~~vp~~-----~~~~~n~ng~~~~~~~~h~s~i~~~s~~~~ph~~~~~~nk~~r~~i~~~~~k~~~~l~~~~~~ 420 (442)
T KOG4124|consen 347 DKPYKCPVPNC-----DKAYKNQNGLKYHKLHGHCSPITTPTPAPIPHQGFVVENKPYRCEVCSKRYKNLNGLKYHRTH 420 (442)
T ss_pred cCCCCCCCCcc-----hhhcccCcceeeccccCcCCCCCCCCCCCCCcceeeeccCcccChhhhhhhccCCCCCceeeh
Confidence 58999999999 8999988888888643 22 25899999999999888878776654
No 63
>KOG2482 consensus Predicted C2H2-type Zn-finger protein [Transcription]
Probab=85.11 E-value=0.75 Score=48.77 Aligned_cols=25 Identities=32% Similarity=0.610 Sum_probs=22.5
Q ss_pred CcccccccccccCChHHHHHHHHhc
Q 008103 4 NRFICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 4 kpy~C~~CgK~F~~~s~L~~H~r~H 28 (577)
.+++|-.|.|.|+++.-|+.||+..
T Consensus 194 ~r~~CLyCekifrdkntLkeHMrkK 218 (423)
T KOG2482|consen 194 ERLRCLYCEKIFRDKNTLKEHMRKK 218 (423)
T ss_pred hhheeeeeccccCCcHHHHHHHHhc
Confidence 3688999999999999999999874
No 64
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=83.46 E-value=0.88 Score=30.15 Aligned_cols=20 Identities=35% Similarity=0.908 Sum_probs=12.9
Q ss_pred ecC-CCCCcCChhHHHHHHHHh
Q 008103 110 RCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 110 ~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
.|+ |++.| ..+.|.+|++++
T Consensus 4 ~C~~CgR~F-~~~~l~~H~~~C 24 (25)
T PF13913_consen 4 PCPICGRKF-NPDRLEKHEKIC 24 (25)
T ss_pred cCCCCCCEE-CHHHHHHHHHhc
Confidence 466 77777 556677776654
No 65
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=83.22 E-value=0.97 Score=29.94 Aligned_cols=21 Identities=24% Similarity=0.656 Sum_probs=18.2
Q ss_pred ccccccccccCChHHHHHHHHh
Q 008103 6 FICEVCNKGFQREQNLQLHRRG 27 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~ 27 (577)
.+|+.|++.| ....|.+|+++
T Consensus 3 ~~C~~CgR~F-~~~~l~~H~~~ 23 (25)
T PF13913_consen 3 VPCPICGRKF-NPDRLEKHEKI 23 (25)
T ss_pred CcCCCCCCEE-CHHHHHHHHHh
Confidence 5799999999 67889999875
No 66
>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]
Probab=80.99 E-value=1.6 Score=47.09 Aligned_cols=53 Identities=19% Similarity=0.213 Sum_probs=42.6
Q ss_pred cccccCcCCCcccchhhhhhhccc-cCC-----------------------ceeecC-CC---CCcCChhHHHHHHHH--
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKT-CGT-----------------------REYRCD-CG---TLFSRRDSFITHRAF-- 129 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~-hge-----------------------Kpy~C~-Cg---k~F~~~s~L~~H~r~-- 129 (577)
-|-.|-.|++.+.....-..||.. |+- +-|.|- |. +.|......+.||.-
T Consensus 165 ~Pt~CLfC~~~~k~~e~~~~HM~~~HgffIPdreYL~D~~GLl~YLgeKV~~~~~CL~CN~~~~~f~sleavr~HM~~K~ 244 (390)
T KOG2785|consen 165 IPTDCLFCDKKSKSLEENLKHMFKEHGFFIPDREYLTDEKGLLKYLGEKVGIGFICLFCNELGRPFSSLEAVRAHMRDKG 244 (390)
T ss_pred CCcceeecCCCcccHHHHHHHHhhccCCcCCchHhhhchhHHHHHHHHHhccCceEEEeccccCcccccHHHHHHHhhcc
Confidence 356799999999999998999988 641 237788 88 999999999999974
Q ss_pred hcc
Q 008103 130 CDA 132 (577)
Q Consensus 130 h~~ 132 (577)
||+
T Consensus 245 HCk 247 (390)
T KOG2785|consen 245 HCK 247 (390)
T ss_pred Ccc
Confidence 544
No 67
>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=79.81 E-value=1 Score=31.40 Aligned_cols=23 Identities=22% Similarity=0.460 Sum_probs=13.5
Q ss_pred ccccCcCCCcccchhhhhhhccc
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~ 103 (577)
+|.|++|++.|.....++.|++.
T Consensus 3 ~~~C~~C~~~~~~~~~~~~H~~g 25 (35)
T smart00451 3 GFYCKLCNVTFTDEISVEAHLKG 25 (35)
T ss_pred CeEccccCCccCCHHHHHHHHCh
Confidence 35566666666666666666553
No 68
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=77.19 E-value=1.2 Score=44.76 Aligned_cols=42 Identities=21% Similarity=0.508 Sum_probs=25.5
Q ss_pred CcccccCcCCCcccchhhhhhhccc-c----------CCce-----eecC-CCCCcCCh
Q 008103 79 EKKWKCEKCSKRYAVQSDWKAHSKT-C----------GTRE-----YRCD-CGTLFSRR 120 (577)
Q Consensus 79 eKpykC~~C~K~F~sks~L~~H~r~-h----------geKp-----y~C~-Cgk~F~~~ 120 (577)
+|.++|++|++.|..+.-+....|. . +..| ..|+ |+..|...
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 3566777777777766555544443 1 1222 4699 99887655
No 69
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=73.52 E-value=2 Score=48.83 Aligned_cols=38 Identities=21% Similarity=0.437 Sum_probs=28.7
Q ss_pred CCcccccccccccCChHHHHHHHHhcCCCcccccccccc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKE 41 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~ 41 (577)
.+|-+|..||+.|.+.....+||-.|. +|.++...+.+
T Consensus 416 ~~pnqC~~CG~R~~~~ee~sk~md~H~-dwh~r~n~~~r 453 (579)
T KOG2071|consen 416 DSPNQCKSCGLRFDDSEERSKHMDIHD-DWHRRKNTTIR 453 (579)
T ss_pred CCcchhcccccccccchhhhhHhhhhh-hhhhhhhhhcc
Confidence 357789999999999999999999985 44444333333
No 70
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=71.05 E-value=1.6 Score=44.17 Aligned_cols=37 Identities=24% Similarity=0.448 Sum_probs=24.7
Q ss_pred CCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhhhh
Q 008103 60 SRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAH 100 (577)
Q Consensus 60 ~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H 100 (577)
.+.|-+..-|..|++. |.|+|.+|.|...+--.|..|
T Consensus 17 nrefddekiliqhqka----khfkchichkkl~sgpglsih 53 (341)
T KOG2893|consen 17 NREFDDEKILIQHQKA----KHFKCHICHKKLFSGPGLSIH 53 (341)
T ss_pred ccccchhhhhhhhhhh----ccceeeeehhhhccCCCceee
Confidence 7888887777777664 348888887665554444444
No 71
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=69.20 E-value=1.6 Score=44.23 Aligned_cols=42 Identities=29% Similarity=0.597 Sum_probs=33.8
Q ss_pred ccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHh
Q 008103 8 CEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHY 73 (577)
Q Consensus 8 C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~ 73 (577)
|=.|++.|.++.-|..|++.. .|+|.+ | .|.+.+--.|..|.
T Consensus 13 cwycnrefddekiliqhqkak-----------------hfkchi--c-----hkkl~sgpglsihc 54 (341)
T KOG2893|consen 13 CWYCNREFDDEKILIQHQKAK-----------------HFKCHI--C-----HKKLFSGPGLSIHC 54 (341)
T ss_pred eeecccccchhhhhhhhhhhc-----------------cceeee--e-----hhhhccCCCceeeh
Confidence 889999999999999998764 489999 8 66666666666664
No 72
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=67.94 E-value=2.8 Score=44.68 Aligned_cols=33 Identities=9% Similarity=0.204 Sum_probs=25.1
Q ss_pred CCcccccCcCCCcccchhhhhhhccc-cCCceee
Q 008103 78 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYR 110 (577)
Q Consensus 78 geKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~ 110 (577)
.+.-|.|++|++.=.....|..|... |-+-++.
T Consensus 76 ~~qSftCPyC~~~Gfte~~f~~Hv~s~Hpda~~~ 109 (381)
T KOG1280|consen 76 DPQSFTCPYCGIMGFTERQFGTHVLSQHPEASTS 109 (381)
T ss_pred ccccccCCcccccccchhHHHHHhhhcCcccCcc
Confidence 34578999999888888888888877 7665443
No 73
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=66.86 E-value=2.6 Score=40.34 Aligned_cols=16 Identities=25% Similarity=0.586 Sum_probs=9.3
Q ss_pred cccCcCCCcccchhhh
Q 008103 82 WKCEKCSKRYAVQSDW 97 (577)
Q Consensus 82 ykC~~C~K~F~sks~L 97 (577)
++|+.|+++|.....+
T Consensus 29 ~~c~~c~~~f~~~e~~ 44 (154)
T PRK00464 29 RECLACGKRFTTFERV 44 (154)
T ss_pred eeccccCCcceEeEec
Confidence 5666666666554433
No 74
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=65.42 E-value=1.9 Score=34.25 Aligned_cols=24 Identities=42% Similarity=0.938 Sum_probs=11.1
Q ss_pred CCceeecC-CCCCcCChhHHHHHHH
Q 008103 105 GTREYRCD-CGTLFSRRDSFITHRA 128 (577)
Q Consensus 105 geKpy~C~-Cgk~F~~~s~L~~H~r 128 (577)
+|--++|+ |+..|.+..++.+|..
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVN 38 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVN 38 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhh
Confidence 33444444 4444444444444443
No 75
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=64.86 E-value=4 Score=36.81 Aligned_cols=15 Identities=20% Similarity=0.629 Sum_probs=7.6
Q ss_pred cccccCcCCCcccch
Q 008103 80 KKWKCEKCSKRYAVQ 94 (577)
Q Consensus 80 KpykC~~C~K~F~sk 94 (577)
.|..|++|+..|...
T Consensus 25 ~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 25 DPIVCPKCGTEFPPE 39 (108)
T ss_pred CCccCCCCCCccCcc
Confidence 445555555555443
No 76
>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=64.01 E-value=2 Score=43.30 Aligned_cols=31 Identities=23% Similarity=0.383 Sum_probs=22.0
Q ss_pred cCCceeecC-CCCCcCChhHHHHHHHHhccch
Q 008103 104 CGTREYRCD-CGTLFSRRDSFITHRAFCDALA 134 (577)
Q Consensus 104 hgeKpy~C~-Cgk~F~~~s~L~~H~r~h~~~~ 134 (577)
..+..|.|. |+|.|.-..-.++|++..|...
T Consensus 73 ~~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 73 EDEDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SSSEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred HcCCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 355679999 9999999999999988766543
No 77
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=63.99 E-value=3.5 Score=38.42 Aligned_cols=8 Identities=38% Similarity=0.708 Sum_probs=4.6
Q ss_pred CceeeCCC
Q 008103 44 RKVYLCPE 51 (577)
Q Consensus 44 ekpy~C~~ 51 (577)
.+.|+|.+
T Consensus 78 ~~lYeCnI 85 (140)
T PF05290_consen 78 PKLYECNI 85 (140)
T ss_pred CCceeccC
Confidence 35566666
No 78
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=62.71 E-value=14 Score=40.36 Aligned_cols=125 Identities=18% Similarity=0.310 Sum_probs=70.7
Q ss_pred cccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCc------------ccccC--cCCCcccchhhhhhhccccCC
Q 008103 41 EVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK------------KWKCE--KCSKRYAVQSDWKAHSKTCGT 106 (577)
Q Consensus 41 ~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeK------------pykC~--~C~K~F~sks~L~~H~r~hge 106 (577)
...+..|.|-.+.| ...+..+..+.+|..+|...+ -|.|. .|.| +-+++..|-..|.+
T Consensus 266 e~~rEhyhcl~e~C-----~ykr~~k~DvirH~~~hkkrdnsL~dgf~rfs~syhC~~~~C~k---sTsdV~~h~nFht~ 337 (480)
T KOG4377|consen 266 EAGREHYHCLNEYC-----FYKRGQKNDVIRHVEIHKKRDNSLIDGFHRFSNSYHCTGQICEK---STSDVLLHDNFHTD 337 (480)
T ss_pred eccchhhcccCccc-----cccccchhhhHHHHHHHhhcccccccchhhcCccchhhhcccCc---ccccccccCccccc
Confidence 34667789988888 666666999999999886532 25674 4888 34445555444333
Q ss_pred c--------eeecC-CC--CCcCChhHHHHHHHHhccchhhhccCCCCccc-------------ccCcccccC-cccccc
Q 008103 107 R--------EYRCD-CG--TLFSRRDSFITHRAFCDALAQESARHQPSLSA-------------IGSHLYAST-NNMALG 161 (577)
Q Consensus 107 K--------py~C~-Cg--k~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~-------------~~~~~y~c~-~~C~~~ 161 (577)
+ -|.|. |+ ..|. ..+|+..|-+.......-...+.+ +-.+ +-|. ..|...
T Consensus 338 ~~n~GfrrthfhC~r~gCTdtfK----~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnh-fhc~r~Gc~~t 412 (480)
T KOG4377|consen 338 KRNNGFRRTHFHCQRIGCTDTFK----DSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNH-FHCDRLGCEAT 412 (480)
T ss_pred cccCceecceeEEeccCCccccc----cccccccccCcchhhhhhhhhhhccccCCccCcccccceee-eeecccCCceE
Confidence 2 36786 44 5565 445666552211111111000111 1111 2222 357788
Q ss_pred ccccchhhhhhhhhcCC
Q 008103 162 LSQVGPQLSSIKDHHQT 178 (577)
Q Consensus 162 fs~~ssl~~H~k~hh~~ 178 (577)
+...++...|-++|...
T Consensus 413 l~s~sqm~shkrkheRq 429 (480)
T KOG4377|consen 413 LYSVSQMASHKRKHERQ 429 (480)
T ss_pred EEehhhhhhhhhhhhhh
Confidence 88889999998888443
No 79
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=62.42 E-value=4.4 Score=41.57 Aligned_cols=46 Identities=24% Similarity=0.619 Sum_probs=31.4
Q ss_pred ccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCChhHHHHHHH
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRRDSFITHRA 128 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~~s~L~~H~r 128 (577)
.|.|.+|+.... +-.+.+|+..|...-|.|- |++.|-+ .+++.|.+
T Consensus 3 ~FtCnvCgEsvK-Kp~vekH~srCrn~~fSCIDC~k~F~~-~sYknH~k 49 (276)
T KOG2186|consen 3 FFTCNVCGESVK-KPQVEKHMSRCRNAYFSCIDCGKTFER-VSYKNHTK 49 (276)
T ss_pred EEehhhhhhhcc-ccchHHHHHhccCCeeEEeeccccccc-chhhhhhh
Confidence 367888876654 3456668777444678887 8888877 56677754
No 80
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=62.08 E-value=3.6 Score=32.77 Aligned_cols=28 Identities=18% Similarity=0.367 Sum_probs=24.0
Q ss_pred CCCcccccccccccCChHHHHHHHHhcC
Q 008103 2 ATNRFICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 2 ~~kpy~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
+|.-++|+-|++.|.+...+.+|...-+
T Consensus 14 GE~~lrCPRC~~~FR~~K~Y~RHVNKaH 41 (65)
T COG4049 14 GEEFLRCPRCGMVFRRRKDYIRHVNKAH 41 (65)
T ss_pred CceeeeCCchhHHHHHhHHHHHHhhHHh
Confidence 5667899999999999999999986543
No 81
>KOG4173 consensus Alpha-SNAP protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.14 E-value=3.2 Score=41.32 Aligned_cols=79 Identities=23% Similarity=0.461 Sum_probs=58.9
Q ss_pred CCcccccc--cccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhcc---
Q 008103 3 TNRFICEV--CNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKH--- 77 (577)
Q Consensus 3 ~kpy~C~~--CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Ht--- 77 (577)
.+.|.|.+ |-+.|.....+..|-.+-+ .-.|.+ | .|.|.+...|..|+...+
T Consensus 77 ~~~~~cqvagc~~~~d~lD~~E~hY~~~h----------------~~sCs~--C-----~r~~Pt~hLLd~HI~E~HDs~ 133 (253)
T KOG4173|consen 77 VPAFACQVAGCCQVFDALDDYEHHYHTLH----------------GNSCSF--C-----KRAFPTGHLLDAHILEWHDSL 133 (253)
T ss_pred cccccccccchHHHHhhhhhHHHhhhhcc----------------cchhHH--H-----HHhCCchhhhhHHHHHHHHHH
Confidence 45678887 7777877777666654322 246888 8 899999999999986533
Q ss_pred -------CCcccccC--cCCCcccchhhhhhhccc-c
Q 008103 78 -------GEKKWKCE--KCSKRYAVQSDWKAHSKT-C 104 (577)
Q Consensus 78 -------geKpykC~--~C~K~F~sks~L~~H~r~-h 104 (577)
|..-|.|- .|...|.....-+.|+-. |
T Consensus 134 Fqa~veRG~dMy~ClvEgCt~KFkT~r~RkdH~I~~H 170 (253)
T KOG4173|consen 134 FQALVERGQDMYQCLVEGCTEKFKTSRDRKDHMIRMH 170 (253)
T ss_pred HHHHHHcCccHHHHHHHhhhhhhhhhhhhhhHHHHhc
Confidence 34458994 499999999999999876 5
No 82
>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=58.21 E-value=11 Score=33.39 Aligned_cols=24 Identities=25% Similarity=0.585 Sum_probs=21.6
Q ss_pred eec----C-CCCCcCChhHHHHHHHHhcc
Q 008103 109 YRC----D-CGTLFSRRDSFITHRAFCDA 132 (577)
Q Consensus 109 y~C----~-Cgk~F~~~s~L~~H~r~h~~ 132 (577)
|.| . |+..+.....+++|.+.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 899 7 99999999999999998753
No 83
>KOG4377 consensus Zn-finger protein [General function prediction only]
Probab=55.95 E-value=8.8 Score=41.92 Aligned_cols=120 Identities=14% Similarity=0.305 Sum_probs=70.6
Q ss_pred Ccccc--cccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCC--
Q 008103 4 NRFIC--EVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGE-- 79 (577)
Q Consensus 4 kpy~C--~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~Htge-- 79 (577)
.-|.| +.|...+-.+..+.+|...|-+......+ ..+.-...|.|....| .| ..+....|-.-|+..
T Consensus 270 Ehyhcl~e~C~ykr~~k~DvirH~~~hkkrdnsL~d-gf~rfs~syhC~~~~C-----~k---sTsdV~~h~nFht~~~n 340 (480)
T KOG4377|consen 270 EHYHCLNEYCFYKRGQKNDVIRHVEIHKKRDNSLID-GFHRFSNSYHCTGQIC-----EK---STSDVLLHDNFHTDKRN 340 (480)
T ss_pred hhhcccCccccccccchhhhHHHHHHHhhccccccc-chhhcCccchhhhccc-----Cc---ccccccccCcccccccc
Confidence 34777 46998877799999999988521111110 0111223367766556 77 445566676666532
Q ss_pred -----cccccCcCC--Ccccchhhhhhhccc-cCC------------------------ceeecC---CCCCcCChhHHH
Q 008103 80 -----KKWKCEKCS--KRYAVQSDWKAHSKT-CGT------------------------REYRCD---CGTLFSRRDSFI 124 (577)
Q Consensus 80 -----KpykC~~C~--K~F~sks~L~~H~r~-hge------------------------Kpy~C~---Cgk~F~~~s~L~ 124 (577)
.-|.|..|+ ..|+...+-..|.+- ..+ .-|.|. |+..|...+...
T Consensus 341 ~GfrrthfhC~r~gCTdtfK~~khk~yh~kdda~~~dGfkkf~k~e~cay~gCkys~~cnhfhc~r~Gc~~tl~s~sqm~ 420 (480)
T KOG4377|consen 341 NGFRRTHFHCQRIGCTDTFKDSKHKPYHYKDDAGEIDGFKKFFKDENCAYTGCKYSGICNHFHCDRLGCEATLYSVSQMA 420 (480)
T ss_pred CceecceeEEeccCCccccccccccccccCcchhhhhhhhhhhccccCCccCcccccceeeeeecccCCceEEEehhhhh
Confidence 236676655 555543333333332 110 115565 999999999999
Q ss_pred HHHHHhcc
Q 008103 125 THRAFCDA 132 (577)
Q Consensus 125 ~H~r~h~~ 132 (577)
.|.|.|..
T Consensus 421 shkrkheR 428 (480)
T KOG4377|consen 421 SHKRKHER 428 (480)
T ss_pred hhhhhhhh
Confidence 99988843
No 84
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=52.73 E-value=8.6 Score=35.62 Aligned_cols=14 Identities=21% Similarity=0.257 Sum_probs=7.0
Q ss_pred ceeecC-CCCCcCCh
Q 008103 107 REYRCD-CGTLFSRR 120 (577)
Q Consensus 107 Kpy~C~-Cgk~F~~~ 120 (577)
.|..|+ |+..|...
T Consensus 25 ~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 25 RPAVSPYTGEQFPPE 39 (129)
T ss_pred CCccCCCcCCccCcc
Confidence 445555 55555443
No 85
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=52.52 E-value=10 Score=27.94 Aligned_cols=25 Identities=24% Similarity=0.483 Sum_probs=16.8
Q ss_pred CCcccccccccccCCh----HHHHHHHHh
Q 008103 3 TNRFICEVCNKGFQRE----QNLQLHRRG 27 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~----s~L~~H~r~ 27 (577)
++..+|..|++.+... ..|.+|++.
T Consensus 14 ~~~a~C~~C~~~~~~~~~~ts~l~~HL~~ 42 (45)
T PF02892_consen 14 KKKAKCKYCGKVIKYSSGGTSNLKRHLKK 42 (45)
T ss_dssp SS-EEETTTTEE-----SSTHHHHHHHHH
T ss_pred cCeEEeCCCCeEEeeCCCcHHHHHHhhhh
Confidence 5667899999998875 789999843
No 86
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=48.64 E-value=11 Score=33.89 Aligned_cols=30 Identities=27% Similarity=0.644 Sum_probs=24.5
Q ss_pred ccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCCh
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRR 120 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~~ 120 (577)
+..|+.|+++|.-. ...|..|+ ||..|.-.
T Consensus 9 KR~Cp~CG~kFYDL----------nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDL----------NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccC----------CCCCccCCCCCCccCcc
Confidence 46899999999653 24788999 99999876
No 87
>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=48.30 E-value=31 Score=30.55 Aligned_cols=24 Identities=17% Similarity=0.501 Sum_probs=19.8
Q ss_pred ccc----CcCCCcccchhhhhhhccc-cC
Q 008103 82 WKC----EKCSKRYAVQSDWKAHSKT-CG 105 (577)
Q Consensus 82 ykC----~~C~K~F~sks~L~~H~r~-hg 105 (577)
|.| ..|.+.+.+...+.+|.+. |+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 788 8888888888888888876 53
No 88
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=47.36 E-value=4.9 Score=46.69 Aligned_cols=26 Identities=27% Similarity=0.520 Sum_probs=24.1
Q ss_pred CcccccccccccCChHHHHHHHHhcC
Q 008103 4 NRFICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 4 kpy~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
--|.|.+|+|+|.....+..||++|.
T Consensus 791 giFpCreC~kvF~KiKSrNAHMK~Hr 816 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAHMKTHR 816 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHHHHHHH
Confidence 45999999999999999999999995
No 89
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=47.20 E-value=13 Score=26.18 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=7.1
Q ss_pred cccccCcCCC
Q 008103 80 KKWKCEKCSK 89 (577)
Q Consensus 80 KpykC~~C~K 89 (577)
.+++|++|+.
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 5778888764
No 90
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=46.72 E-value=20 Score=33.76 Aligned_cols=37 Identities=19% Similarity=0.530 Sum_probs=23.8
Q ss_pred CcccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcC
Q 008103 79 EKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFS 118 (577)
Q Consensus 79 eKpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~ 118 (577)
..-|.|+.|++.|.....+.. . ..+..|.|+ |+....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~-~--d~~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQL-L--DMDGTFTCPRCGEELE 134 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHh-c--CCCCcEECCCCCCEEE
Confidence 446889999988886554432 0 113448898 987653
No 91
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=44.14 E-value=38 Score=30.82 Aligned_cols=89 Identities=16% Similarity=0.289 Sum_probs=42.2
Q ss_pred CCcccccccccccCChHHHHHHHHhcC-CCcc-ccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCc
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHN-LPWK-LKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEK 80 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~-~p~~-~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeK 80 (577)
+-|-+|++|+-......+|.+- .|+ -|.+ +.+ ...........|-- | .+.|.......+-. -....
T Consensus 13 ~LP~~CpiCgLtLVss~HLARS--yHHLfPl~~f~e-v~~~~~~~~~~C~~--C-----~~~f~~~~~~~~~~--~~~~~ 80 (112)
T TIGR00622 13 ELPVECPICGLTLILSTHLARS--YHHLFPLKAFQE-IPLEEYNGSRFCFG--C-----QGPFPKPPVSPFDE--LKDSH 80 (112)
T ss_pred CCCCcCCcCCCEEeccchHHHh--hhccCCCccccc-ccccccCCCCcccC--c-----CCCCCCcccccccc--ccccc
Confidence 3477888888887777777654 333 1111 110 00000111123554 5 66665432111000 11123
Q ss_pred ccccCcCCCcccchhhhhhhccc
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKT 103 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~ 103 (577)
.|+|+.|.+.|-..-++-.|...
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~L 103 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESL 103 (112)
T ss_pred ceeCCCCCCccccccchhhhhhc
Confidence 46777777777666666555544
No 92
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=43.27 E-value=11 Score=32.65 Aligned_cols=11 Identities=55% Similarity=1.639 Sum_probs=5.6
Q ss_pred cccCcCCCccc
Q 008103 82 WKCEKCSKRYA 92 (577)
Q Consensus 82 ykC~~C~K~F~ 92 (577)
|+|..|+..|.
T Consensus 54 W~C~kCg~~fA 64 (89)
T COG1997 54 WKCRKCGAKFA 64 (89)
T ss_pred EEcCCCCCeec
Confidence 55555555543
No 93
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=42.02 E-value=22 Score=39.29 Aligned_cols=35 Identities=26% Similarity=0.649 Sum_probs=24.6
Q ss_pred CcccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCC
Q 008103 79 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTL 116 (577)
Q Consensus 79 eKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~ 116 (577)
..-|+|+.|.+.|.....+. .. ..+-.|.|. |+-.
T Consensus 126 ~~~Y~Cp~C~kkyt~Lea~~---L~~~~~~~F~C~~C~ge 162 (436)
T KOG2593|consen 126 VAGYVCPNCQKKYTSLEALQ---LLDNETGEFHCENCGGE 162 (436)
T ss_pred cccccCCccccchhhhHHHH---hhcccCceEEEecCCCc
Confidence 45699999999998776654 22 345678888 8654
No 94
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=39.21 E-value=23 Score=33.82 Aligned_cols=32 Identities=16% Similarity=0.590 Sum_probs=23.0
Q ss_pred CCcccccCcCCCcccchhhhhhhccccCCceeecC-CCCCc
Q 008103 78 GEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLF 117 (577)
Q Consensus 78 geKpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F 117 (577)
...-|.|+.|+.+|.....+. .-|.|+ |+...
T Consensus 106 ~~~~Y~Cp~c~~r~tf~eA~~--------~~F~Cp~Cg~~L 138 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFNEAME--------LNFTCPRCGAML 138 (158)
T ss_pred CCCeEECCCCCcEeeHHHHHH--------cCCcCCCCCCEe
Confidence 345688888888887777664 358888 88764
No 95
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=39.19 E-value=20 Score=31.13 Aligned_cols=31 Identities=26% Similarity=0.685 Sum_probs=22.3
Q ss_pred cccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCC
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 119 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~ 119 (577)
.+|.|+.|++. . +.| -...-+.|. |+..|.-
T Consensus 34 ~~~~Cp~C~~~-~-------VkR-~a~GIW~C~kCg~~fAG 65 (89)
T COG1997 34 AKHVCPFCGRT-T-------VKR-IATGIWKCRKCGAKFAG 65 (89)
T ss_pred cCCcCCCCCCc-c-------eee-eccCeEEcCCCCCeecc
Confidence 46999999875 1 223 345679999 9999864
No 96
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=38.33 E-value=19 Score=27.46 Aligned_cols=23 Identities=39% Similarity=0.710 Sum_probs=19.2
Q ss_pred ccccccccccCCh-----HHHHHHHH-hc
Q 008103 6 FICEVCNKGFQRE-----QNLQLHRR-GH 28 (577)
Q Consensus 6 y~C~~CgK~F~~~-----s~L~~H~r-~H 28 (577)
-+|..|++.+... +.|.+|++ .|
T Consensus 19 a~C~~C~~~l~~~~~~gTs~L~rHl~~~h 47 (50)
T smart00614 19 AKCKYCGKKLSRSSKGGTSNLRRHLRRKH 47 (50)
T ss_pred EEecCCCCEeeeCCCCCcHHHHHHHHhHC
Confidence 5699999999776 59999998 55
No 97
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=37.60 E-value=24 Score=25.20 Aligned_cols=10 Identities=30% Similarity=0.953 Sum_probs=4.8
Q ss_pred cccCcCCCcc
Q 008103 82 WKCEKCSKRY 91 (577)
Q Consensus 82 ykC~~C~K~F 91 (577)
.+|+.|+..|
T Consensus 26 v~C~~C~~~~ 35 (38)
T TIGR02098 26 VRCGKCGHVW 35 (38)
T ss_pred EECCCCCCEE
Confidence 4455555444
No 98
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=37.51 E-value=23 Score=34.58 Aligned_cols=34 Identities=21% Similarity=0.694 Sum_probs=25.2
Q ss_pred CCcccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCC
Q 008103 78 GEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSR 119 (577)
Q Consensus 78 geKpykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~ 119 (577)
...-|.|+.|+++|.....+. .-|.|+ |+.....
T Consensus 114 ~~~~Y~Cp~C~~rytf~eA~~--------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFDEAME--------YGFRCPQCGEMLEE 148 (178)
T ss_pred CCCEEECCCCCcEEeHHHHhh--------cCCcCCCCCCCCee
Confidence 345689999998888777653 368999 9886544
No 99
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=36.96 E-value=26 Score=37.33 Aligned_cols=33 Identities=24% Similarity=0.598 Sum_probs=16.2
Q ss_pred cccCcCCCcccchhhhhhhccc---cCCceeecC-CCCCcC
Q 008103 82 WKCEKCSKRYAVQSDWKAHSKT---CGTREYRCD-CGTLFS 118 (577)
Q Consensus 82 ykC~~C~K~F~sks~L~~H~r~---hgeKpy~C~-Cgk~F~ 118 (577)
.+|..|+.. ..|..+... -..|-..|+ |+.-.+
T Consensus 227 ~~C~~Cg~~----~~l~y~~~~~~~~~~r~e~C~~C~~YlK 263 (309)
T PRK03564 227 VKCSNCEQS----GKLHYWSLDSEQAAVKAESCGDCGTYLK 263 (309)
T ss_pred ccCCCCCCC----CceeeeeecCCCcceEeeecccccccce
Confidence 578888752 223221111 123567787 765443
No 100
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=36.64 E-value=22 Score=33.03 Aligned_cols=35 Identities=14% Similarity=0.295 Sum_probs=26.5
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchhhhh
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWK 98 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~ 98 (577)
...|+. | +++|..+. ..|..|++|+..|.....++
T Consensus 9 Kr~Cp~--c-----g~kFYDLn-----------k~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPN--T-----GSKFYDLN-----------RRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCC--c-----CccccccC-----------CCCccCCCcCCccCcchhhc
Confidence 468988 8 99987652 46899999999987664443
No 101
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.54 E-value=45 Score=30.33 Aligned_cols=79 Identities=18% Similarity=0.305 Sum_probs=48.7
Q ss_pred CceeeCCCCCccCCCCCCccCChhhHHhHhhhc-----cCCcc-------cccCcCCCcccchhhhhhhccccCCceeec
Q 008103 44 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRK-----HGEKK-------WKCEKCSKRYAVQSDWKAHSKTCGTREYRC 111 (577)
Q Consensus 44 ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~H-----tgeKp-------ykC~~C~K~F~sks~L~~H~r~hgeKpy~C 111 (577)
+-|-+|+. | +-......+|.|-..-- -.|.+ ..|--|.+.|........- +......|+|
T Consensus 13 ~LP~~Cpi--C-----gLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~-~~~~~~~y~C 84 (112)
T TIGR00622 13 ELPVECPI--C-----GLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD-ELKDSHRYVC 84 (112)
T ss_pred CCCCcCCc--C-----CCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc-ccccccceeC
Confidence 45677888 7 77777666666542110 01111 2388899888764321100 0134567999
Q ss_pred C-CCCCcCChhHHHHHHHHh
Q 008103 112 D-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 112 ~-Cgk~F~~~s~L~~H~r~h 130 (577)
+ |.+.|-..-+.-.|...|
T Consensus 85 ~~C~~~FC~dCD~fiHe~Lh 104 (112)
T TIGR00622 85 AVCKNVFCVDCDVFVHESLH 104 (112)
T ss_pred CCCCCccccccchhhhhhcc
Confidence 9 999998888888887766
No 102
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=36.39 E-value=19 Score=34.95 Aligned_cols=11 Identities=36% Similarity=0.728 Sum_probs=5.9
Q ss_pred CCcccccCcCC
Q 008103 78 GEKKWKCEKCS 88 (577)
Q Consensus 78 geKpykC~~C~ 88 (577)
++.|.+|++|+
T Consensus 146 ge~P~~CPiCg 156 (166)
T COG1592 146 GEAPEVCPICG 156 (166)
T ss_pred CCCCCcCCCCC
Confidence 35555555554
No 103
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=36.35 E-value=14 Score=45.71 Aligned_cols=11 Identities=45% Similarity=0.833 Sum_probs=5.1
Q ss_pred CCccccccchh
Q 008103 220 STPFFMQESNQ 230 (577)
Q Consensus 220 ss~~~~qqqqQ 230 (577)
+.|++.+||||
T Consensus 318 S~P~~~~~~Q~ 328 (1973)
T KOG4407|consen 318 SQPFYPQQQQQ 328 (1973)
T ss_pred cccCchhhhhh
Confidence 34555544433
No 104
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=36.30 E-value=21 Score=33.37 Aligned_cols=24 Identities=38% Similarity=0.729 Sum_probs=0.0
Q ss_pred CCcccccccccccCChHHHHHHHHhcC
Q 008103 3 TNRFICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 3 ~kpy~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
+.-..|-+|||.|+. |++|++.|+
T Consensus 70 ~d~i~clecGk~~k~---LkrHL~~~~ 93 (132)
T PF05443_consen 70 PDYIICLECGKKFKT---LKRHLRTHH 93 (132)
T ss_dssp SS-EE-TBT--EESB---HHHHHHHTT
T ss_pred cCeeEEccCCcccch---HHHHHHHcc
No 105
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=36.25 E-value=38 Score=35.94 Aligned_cols=87 Identities=9% Similarity=0.031 Sum_probs=44.7
Q ss_pred cccccCcCCCcccchhhhhhhccc-cCCceeecCCCCCcCChhHHHHHHHHhccchhhhccCCCCccc---ccCcccccC
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCDCGTLFSRRDSFITHRAFCDALAQESARHQPSLSA---IGSHLYAST 155 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~---~~~~~y~c~ 155 (577)
-|..|+.|.-......+|.+-.+. ---|+|. .+..-.+-+.+||-.|+-.+...+..+- +....|.|.
T Consensus 321 LPi~CP~Csl~LilsthLarSyhhL~PLk~f~--------E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce 392 (421)
T COG5151 321 LPISCPICSLQLILSTHLARSYHHLYPLKPFV--------EKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCE 392 (421)
T ss_pred CCccCcchhHHHHHHHHHHHHHHhhccCcccc--------cccCCCCCCCccceeccCCCCCCCCCcccccccccceech
Confidence 467888887766655555432211 1112221 1111111122345555555544333222 556689998
Q ss_pred ccccccccccchhhhhhhhh
Q 008103 156 NNMALGLSQVGPQLSSIKDH 175 (577)
Q Consensus 156 ~~C~~~fs~~ssl~~H~k~h 175 (577)
. |...|...-+...|..-|
T Consensus 393 ~-CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 393 L-CKSTFCSDCDVFIHETLH 411 (421)
T ss_pred h-hhhhhhhhhHHHHHHHHh
Confidence 8 888887766666665554
No 106
>KOG3648 consensus Golgi apparatus protein (cysteine-rich fibroblast growth factor receptor) [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.41 E-value=13 Score=42.70 Aligned_cols=6 Identities=33% Similarity=0.407 Sum_probs=2.3
Q ss_pred cccccc
Q 008103 223 FFMQES 228 (577)
Q Consensus 223 ~~~qqq 228 (577)
.++|..
T Consensus 65 ~~~~~~ 70 (1179)
T KOG3648|consen 65 QLLQSS 70 (1179)
T ss_pred HHHHHH
Confidence 334433
No 107
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=35.06 E-value=33 Score=24.70 Aligned_cols=13 Identities=23% Similarity=0.979 Sum_probs=6.2
Q ss_pred ccCcCCCcccchh
Q 008103 83 KCEKCSKRYAVQS 95 (577)
Q Consensus 83 kC~~C~K~F~sks 95 (577)
.|+.|.+.|.-.+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 4555555554443
No 108
>PF02166 Androgen_recep: Androgen receptor; InterPro: IPR001103 Steroid or nuclear hormone receptors (NRs) constitute an important super-family of transcription regulators that are involved in diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. Members include the steroid hormone receptors and receptors for thyroid hormone, retinoids and 1,25-dihydroxy-vitamin D3. The proteins function as dimeric molecules in the nucleus to regulate the transcription of target genes in a ligand-responsive manner [, ]. NRs are extremely important in medical research, a large number of them being implicated in diseases such as cancer, diabetes and hormone resistance syndromes. Many do not yet have a defined ligand and are accordingly termed "orphan" receptors. More than 300 NRs have been described to date and a new system has recently been introduced in an attempt to rationalise the increasingly complex set of names used to describe superfamily members. The androgen receptor (AR) consists of 3 functional and structural domains: an N-terminal (modulatory) domain; a DNA binding domain (IPR001628 from INTERPRO) that mediates specific binding to target DNA sequences (ligand-responsive elements); and a hormone binding domain. The N-terminal domain (NTD) is unique to the androgen receptors and spans approximately the first 530 residues; the highly-conserved DNA-binding domain is smaller (around 65 residues) and occupies the central portion of the protein; and the hormone ligand binding domain (LBD) lies at the receptor C terminus. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components; hormone binding greatly increases receptor affinity. The LBDs of steroid hormone receptors fold into 12 helices that form a ligand-binding pocket. When an agonist is bound, helix 12 folds over the pocket to enclose the ligand []. When an antagonist is unbound, helix 12 is positioned away from the pocket in a way that interferes with the binding of coactivators to a groove in the hormone-binding domain formed after ligand binding. In AR, ligand binding that induces folding of helix 12 to overlie the pocket discloses a groove that binds a region of the NTD. Coactivator molecules can also bind to this groove, but the predominant site for coactivator binding to AR is in the NTD. AR ligand resides in a pocket and primarily contacts helices 4, 5, and 10. The DNA-binding region includes eight cysteine residues that form two coordination complexes, each composed of four cysteines and a Zn2+ ion. These two zinc fingers form the structure that binds to the major groove of DNA. The second zinc finger stabilises the binding complex by hydrophobic interactions with the first finger and contributes to specificity of receptor DNA binding. It is also necessary for receptor dimerisation that occurs during DNA binding Defects in the androgen receptor cause testicular feminisation syndrome, androgen insensibility syndrome (AIS) [, ]. AIS may be complete (CAIS), where external genitalia are phenotypically female; partial (PAIS), where genitalia are substantively ambiguous; or mild (MAIS), where external genitalia are normal male, or nearly so. Defects in the receptor also cause X-linked spinal and bulbar muscular atrophy (also known as Kennedy's disease).; GO: 0003677 DNA binding, 0004882 androgen receptor activity, 0005496 steroid binding, 0006355 regulation of transcription, DNA-dependent, 0030521 androgen receptor signaling pathway, 0005634 nucleus; PDB: 1XOW_B 2Q7K_B 2Q7I_B.
Probab=34.20 E-value=13 Score=39.59 Aligned_cols=7 Identities=14% Similarity=0.662 Sum_probs=0.0
Q ss_pred ccCcccc
Q 008103 253 GLMQFAD 259 (577)
Q Consensus 253 ~lmql~~ 259 (577)
|.+-|.+
T Consensus 80 gylalee 86 (423)
T PF02166_consen 80 GYLALEE 86 (423)
T ss_dssp -------
T ss_pred ccccccc
Confidence 5555554
No 109
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.83 E-value=27 Score=33.92 Aligned_cols=23 Identities=30% Similarity=0.836 Sum_probs=18.5
Q ss_pred ccccCcCCCcccchhhhhhhccccCCceeecC-CCC
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGT 115 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk 115 (577)
-|+|++|+..+. ++-|-+|+ |+.
T Consensus 134 ~~vC~vCGy~~~------------ge~P~~CPiCga 157 (166)
T COG1592 134 VWVCPVCGYTHE------------GEAPEVCPICGA 157 (166)
T ss_pred EEEcCCCCCccc------------CCCCCcCCCCCC
Confidence 599999997653 46788999 984
No 110
>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=32.66 E-value=35 Score=22.83 Aligned_cols=21 Identities=24% Similarity=0.457 Sum_probs=16.7
Q ss_pred ccccccccccCChHHHHHHHHh
Q 008103 6 FICEVCNKGFQREQNLQLHRRG 27 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~ 27 (577)
..|++|++.+ ....+..|...
T Consensus 2 v~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 2 VQCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred CcCCCCcCcc-cHHHHHHHHHH
Confidence 4799999998 66778888753
No 111
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=32.64 E-value=14 Score=37.03 Aligned_cols=44 Identities=16% Similarity=0.366 Sum_probs=29.8
Q ss_pred CceeeCCCCCccCCCCCCccCChhhHHhHhhh---ccC-------Ccc-----cccCcCCCcccch
Q 008103 44 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSR---KHG-------EKK-----WKCEKCSKRYAVQ 94 (577)
Q Consensus 44 ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~---Htg-------eKp-----ykC~~C~K~F~sk 94 (577)
++.+.||+ | ++.|..+.-.....+. .++ ..| +.|+.|+..|...
T Consensus 3 ~k~~~CPv--C-----~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~~Y~V~vCP~CgyA~~~~ 61 (214)
T PF09986_consen 3 DKKITCPV--C-----GKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPLFYEVWVCPHCGYAAFEE 61 (214)
T ss_pred CCceECCC--C-----CCeeeeeEEEcCCceEeeecCCCccccCCCCCeeeeEEECCCCCCccccc
Confidence 46689999 9 9999887665555543 111 122 6799999887644
No 112
>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=31.18 E-value=23 Score=35.80 Aligned_cols=30 Identities=23% Similarity=0.488 Sum_probs=23.2
Q ss_pred CCcccccCcCCCcccchhhhhhhccc-cCCc
Q 008103 78 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTR 107 (577)
Q Consensus 78 geKpykC~~C~K~F~sks~L~~H~r~-hgeK 107 (577)
.+.+|.|..|+|.|.-..-+++|+.. |.|+
T Consensus 74 ~~~K~~C~lc~KlFkg~eFV~KHI~nKH~e~ 104 (214)
T PF04959_consen 74 DEDKWRCPLCGKLFKGPEFVRKHIFNKHPEK 104 (214)
T ss_dssp SSEEEEE-SSS-EESSHHHHHHHHHHH-HHH
T ss_pred cCCEECCCCCCcccCChHHHHHHHhhcCHHH
Confidence 45679999999999999999999988 8775
No 113
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=29.12 E-value=25 Score=33.79 Aligned_cols=22 Identities=5% Similarity=0.135 Sum_probs=13.2
Q ss_pred ccchhhhhhhhhcCCCCCcccc
Q 008103 164 QVGPQLSSIKDHHQTNQSGDIL 185 (577)
Q Consensus 164 ~~ssl~~H~k~hh~~~kp~~c~ 185 (577)
+...|.+|.|..|+..+|.+++
T Consensus 120 tY~eLrKHar~~HP~~rP~~vD 141 (162)
T PF07800_consen 120 TYSELRKHARSEHPSARPSEVD 141 (162)
T ss_pred CHHHHHHHHHhhCCCCCCccCC
Confidence 3456666766666666655543
No 114
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=28.98 E-value=1.1e+02 Score=32.73 Aligned_cols=52 Identities=17% Similarity=0.413 Sum_probs=30.7
Q ss_pred CcccccCcCCCcccchhhhhhhccc------c----------------------CCceeecC-CCCCcCChhHHHHHHHH
Q 008103 79 EKKWKCEKCSKRYAVQSDWKAHSKT------C----------------------GTREYRCD-CGTLFSRRDSFITHRAF 129 (577)
Q Consensus 79 eKpykC~~C~K~F~sks~L~~H~r~------h----------------------geKpy~C~-Cgk~F~~~s~L~~H~r~ 129 (577)
+-|..|++|+-+.....+|.+-.+- . ..-.|.|+ |...|-.--+.-.|...
T Consensus 288 sLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesL 367 (378)
T KOG2807|consen 288 SLPIECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESL 367 (378)
T ss_pred cCCccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccchHHHHhhh
Confidence 4467777777777666666542210 0 11236777 77777776666666665
Q ss_pred h
Q 008103 130 C 130 (577)
Q Consensus 130 h 130 (577)
|
T Consensus 368 h 368 (378)
T KOG2807|consen 368 H 368 (378)
T ss_pred h
Confidence 5
No 115
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=28.35 E-value=33 Score=26.65 Aligned_cols=19 Identities=11% Similarity=0.296 Sum_probs=7.9
Q ss_pred hHHhHhhhccCCcccccCc
Q 008103 68 GIKKHYSRKHGEKKWKCEK 86 (577)
Q Consensus 68 ~Lk~H~r~HtgeKpykC~~ 86 (577)
.|..|+...=..++..|.+
T Consensus 25 ~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 25 ELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp CHHHHHHTTSTTSEEE-SS
T ss_pred HHHHHHHccCCCCcEECCC
Confidence 4444444333334444444
No 116
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=28.25 E-value=18 Score=37.34 Aligned_cols=26 Identities=12% Similarity=0.211 Sum_probs=15.8
Q ss_pred CCceeecC-CCCCcCChhHHHHHHHHh
Q 008103 105 GTREYRCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 105 geKpy~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
..+++.|+ |+........|..-.|.|
T Consensus 206 k~k~~PCPKCg~et~eTkdLSmStR~h 232 (314)
T PF06524_consen 206 KGKPIPCPKCGYETQETKDLSMSTRSH 232 (314)
T ss_pred cCCCCCCCCCCCcccccccceeeeecc
Confidence 34778888 887766665554433333
No 117
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=27.80 E-value=31 Score=36.56 Aligned_cols=81 Identities=12% Similarity=0.176 Sum_probs=0.0
Q ss_pred CcccccCcCCCcccchhhhhhhccc-cCCceeecC-----CCCCcCChhHHHHHHHHhccchhhhccCCCCcccccCccc
Q 008103 79 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-----CGTLFSRRDSFITHRAFCDALAQESARHQPSLSAIGSHLY 152 (577)
Q Consensus 79 eKpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-----Cgk~F~~~s~L~~H~r~h~~~~~~s~~~~~~l~~~~~~~y 152 (577)
+++.+|+.|...+. .-..+++.. .....+.|+ |.+.|.+... .+|.+.+ .- .+|
T Consensus 78 ~~~~~CP~Cr~~~g--~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~~-~~HE~~C----------------~f-~~~ 137 (299)
T KOG3002|consen 78 KVSNKCPTCRLPIG--NIRCRAMEKVAEAVLVPCKNAKLGCTKSFPYGEK-SKHEKVC----------------EF-RPC 137 (299)
T ss_pred hhcccCCccccccc--cHHHHHHHHHHHhceecccccccCCceeeccccc-ccccccc----------------cc-CCc
Q ss_pred ccCcc--ccccccccchhhhhhhhhcCCC
Q 008103 153 ASTNN--MALGLSQVGPQLSSIKDHHQTN 179 (577)
Q Consensus 153 ~c~~~--C~~~fs~~ssl~~H~k~hh~~~ 179 (577)
.|+.. -.+--.....+..|++.-|+.+
T Consensus 138 ~CP~p~~~C~~~G~~~~l~~H~~~~hk~~ 166 (299)
T KOG3002|consen 138 SCPVPGAECKYTGSYKDLYAHLNDTHKSD 166 (299)
T ss_pred CCCCCcccCCccCcHHHHHHHHHhhChhh
No 118
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.89 E-value=18 Score=34.91 Aligned_cols=37 Identities=27% Similarity=0.435 Sum_probs=25.0
Q ss_pred hHHhHhhhccCCcccccCcCCCcccchhhhhhhccccCCce
Q 008103 68 GIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTRE 108 (577)
Q Consensus 68 ~Lk~H~r~HtgeKpykC~~C~K~F~sks~L~~H~r~hgeKp 108 (577)
.|..|+..|.+ +||++|.|.. -..+...|+..+-.||
T Consensus 128 slP~hi~~~~g---~KCPvC~K~V-~sDd~e~HlvMCLtkP 164 (205)
T KOG0801|consen 128 SLPVHIMDHSG---MKCPVCHKVV-PSDDAEIHLVMCLTKP 164 (205)
T ss_pred ccceeeeccCC---ccCCcccccc-CCCcceEEEEEEeccc
Confidence 45566666665 7899998854 4556777777655554
No 119
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=26.06 E-value=20 Score=34.28 Aligned_cols=43 Identities=19% Similarity=0.346 Sum_probs=23.6
Q ss_pred cccCcCCCcccc-hhhhhhhccccCCceeecC-CCCCcCChhHHH
Q 008103 82 WKCEKCSKRYAV-QSDWKAHSKTCGTREYRCD-CGTLFSRRDSFI 124 (577)
Q Consensus 82 ykC~~C~K~F~s-ks~L~~H~r~hgeKpy~C~-Cgk~F~~~s~L~ 124 (577)
++|++|+..+.. .+..-.-....-.+.|.|+ |++.|.....+.
T Consensus 1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~e~~~ 45 (154)
T PRK00464 1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTFERVE 45 (154)
T ss_pred CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEeEecc
Confidence 478999865521 1111000011223458999 999998876544
No 120
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=25.68 E-value=34 Score=25.16 Aligned_cols=10 Identities=40% Similarity=1.085 Sum_probs=5.4
Q ss_pred eeecC-CCCCc
Q 008103 108 EYRCD-CGTLF 117 (577)
Q Consensus 108 py~C~-Cgk~F 117 (577)
-|.|. |+..|
T Consensus 28 fy~C~~C~~~w 38 (40)
T smart00440 28 FYVCTKCGHRW 38 (40)
T ss_pred EEEeCCCCCEe
Confidence 35565 65554
No 121
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=25.67 E-value=31 Score=30.27 Aligned_cols=14 Identities=21% Similarity=0.660 Sum_probs=8.4
Q ss_pred cccccCcCCCcccc
Q 008103 80 KKWKCEKCSKRYAV 93 (577)
Q Consensus 80 KpykC~~C~K~F~s 93 (577)
+|-+|..|++.|..
T Consensus 57 ~Pa~CkkCGfef~~ 70 (97)
T COG3357 57 RPARCKKCGFEFRD 70 (97)
T ss_pred cChhhcccCccccc
Confidence 45566666666654
No 122
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.31 E-value=35 Score=30.92 Aligned_cols=13 Identities=15% Similarity=0.130 Sum_probs=7.2
Q ss_pred CcccccCcCCCcc
Q 008103 79 EKKWKCEKCSKRY 91 (577)
Q Consensus 79 eKpykC~~C~K~F 91 (577)
..|..|++|+|.|
T Consensus 24 rdPiVsPytG~s~ 36 (129)
T COG4530 24 RDPIVSPYTGKSY 36 (129)
T ss_pred CCccccCcccccc
Confidence 3455555555555
No 123
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=24.85 E-value=32 Score=28.84 Aligned_cols=7 Identities=29% Similarity=0.771 Sum_probs=3.4
Q ss_pred CCCCcCC
Q 008103 113 CGTLFSR 119 (577)
Q Consensus 113 Cgk~F~~ 119 (577)
|+..|..
T Consensus 35 Cg~tF~t 41 (72)
T PRK09678 35 CSATFIT 41 (72)
T ss_pred CCCEEEE
Confidence 5555543
No 124
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=24.79 E-value=31 Score=32.32 Aligned_cols=21 Identities=33% Similarity=0.474 Sum_probs=18.3
Q ss_pred ccccccccccCChHHHHHHHHhcC
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHN 29 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~ 29 (577)
..|-+|||.|++ |++|+.+|.
T Consensus 77 IicLEDGkkfKS---LKRHL~t~~ 97 (148)
T COG4957 77 IICLEDGKKFKS---LKRHLTTHY 97 (148)
T ss_pred EEEeccCcchHH---HHHHHhccc
Confidence 469999999975 999999987
No 125
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.63 E-value=2e+02 Score=30.79 Aligned_cols=26 Identities=12% Similarity=0.250 Sum_probs=21.7
Q ss_pred cCCceeecC----CCCCcCChhHHHHHHHH
Q 008103 104 CGTREYRCD----CGTLFSRRDSFITHRAF 129 (577)
Q Consensus 104 hgeKpy~C~----Cgk~F~~~s~L~~H~r~ 129 (577)
.-+-.|.|. |.+.|..+.+|..|+.-
T Consensus 140 ~~g~iFmC~~~~GC~RTyLsqrDlqAHInh 169 (389)
T KOG2932|consen 140 MMGGIFMCAAPHGCLRTYLSQRDLQAHINH 169 (389)
T ss_pred cccceEEeecchhHHHHHhhHHHHHHHhhh
Confidence 345679995 99999999999999864
No 126
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=24.09 E-value=41 Score=29.47 Aligned_cols=12 Identities=25% Similarity=0.764 Sum_probs=6.4
Q ss_pred ceeecC-CCCCcC
Q 008103 107 REYRCD-CGTLFS 118 (577)
Q Consensus 107 Kpy~C~-Cgk~F~ 118 (577)
-.+.|. |++.|.
T Consensus 53 GIW~C~~C~~~~A 65 (90)
T PTZ00255 53 GIWRCKGCKKTVA 65 (90)
T ss_pred EEEEcCCCCCEEe
Confidence 445555 555543
No 127
>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]
Probab=23.72 E-value=39 Score=31.17 Aligned_cols=24 Identities=25% Similarity=0.553 Sum_probs=21.9
Q ss_pred cccccccccccCChHHHHHHHHhc
Q 008103 5 RFICEVCNKGFQREQNLQLHRRGH 28 (577)
Q Consensus 5 py~C~~CgK~F~~~s~L~~H~r~H 28 (577)
.|-|-+|.+-|.+...|+.|.++.
T Consensus 57 qfyCi~CaRyFi~~~~l~~H~ktK 80 (129)
T KOG3408|consen 57 QFYCIECARYFIDAKALKTHFKTK 80 (129)
T ss_pred eeehhhhhhhhcchHHHHHHHhcc
Confidence 478999999999999999999874
No 128
>COG4896 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.43 E-value=55 Score=26.68 Aligned_cols=35 Identities=23% Similarity=0.652 Sum_probs=25.2
Q ss_pred cccccccccc-cCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCc
Q 008103 5 RFICEVCNKG-FQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTC 54 (577)
Q Consensus 5 py~C~~CgK~-F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C 54 (577)
..+|.+|++. |.+...+..-+... ...+.|.|++ |
T Consensus 2 ~vkCiiCd~v~~iD~rt~~tKrLrN-------------~PIrtymC~e--C 37 (68)
T COG4896 2 NVKCIICDRVDEIDNRTFKTKRLRN-------------KPIRTYMCPE--C 37 (68)
T ss_pred CceEEEecceeeecchhHHHHHhhC-------------CCceeEechh--h
Confidence 3579999975 77777766655443 2567899999 8
No 129
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.09 E-value=49 Score=31.09 Aligned_cols=41 Identities=20% Similarity=0.529 Sum_probs=27.6
Q ss_pred cccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCccc
Q 008103 41 EVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYA 92 (577)
Q Consensus 41 ~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~ 92 (577)
......|.||. | ++.|.....+.. .+. +..|.|+.|+....
T Consensus 94 e~~~~~Y~Cp~--C-----~~~y~~~ea~~~---~d~-~~~f~Cp~Cg~~l~ 134 (147)
T smart00531 94 ETNNAYYKCPN--C-----QSKYTFLEANQL---LDM-DGTFTCPRCGEELE 134 (147)
T ss_pred ccCCcEEECcC--C-----CCEeeHHHHHHh---cCC-CCcEECCCCCCEEE
Confidence 34567899998 8 888886544332 111 34499999998764
No 130
>KOG2186 consensus Cell growth-regulating nucleolar protein [Cell cycle control, cell division, chromosome partitioning]
Probab=23.05 E-value=45 Score=34.46 Aligned_cols=54 Identities=19% Similarity=0.524 Sum_probs=35.0
Q ss_pred ccccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc
Q 008103 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW 82 (577)
Q Consensus 6 y~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy 82 (577)
|.|.+|+..... ..|.+|+...+ ...|.|-. | ++.|.. ..++.|...-+....|
T Consensus 4 FtCnvCgEsvKK-p~vekH~srCr--------------n~~fSCID--C-----~k~F~~-~sYknH~kCITEaQKY 57 (276)
T KOG2186|consen 4 FTCNVCGESVKK-PQVEKHMSRCR--------------NAYFSCID--C-----GKTFER-VSYKNHTKCITEAQKY 57 (276)
T ss_pred Eehhhhhhhccc-cchHHHHHhcc--------------CCeeEEee--c-----cccccc-chhhhhhhhcchHHHh
Confidence 678888887654 45666876653 25567766 6 888877 5667776655543333
No 131
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=22.69 E-value=43 Score=29.41 Aligned_cols=11 Identities=36% Similarity=1.059 Sum_probs=6.1
Q ss_pred ceeecC-CCCCc
Q 008103 107 REYRCD-CGTLF 117 (577)
Q Consensus 107 Kpy~C~-Cgk~F 117 (577)
-.+.|. |++.|
T Consensus 52 GIW~C~~C~~~~ 63 (91)
T TIGR00280 52 GIWTCRKCGAKF 63 (91)
T ss_pred EEEEcCCCCCEE
Confidence 445565 65554
No 132
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=22.65 E-value=22 Score=41.56 Aligned_cols=65 Identities=18% Similarity=0.434 Sum_probs=36.0
Q ss_pred CceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCccc-ccCcCCCcccchhhhhhhccccCCceeecC-CCCC
Q 008103 44 RKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKW-KCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTL 116 (577)
Q Consensus 44 ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpy-kC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~ 116 (577)
.+.|.-|.-+| ..|+-+|+-...|-.- |.+|.-+.| -|+.|.+.|....+-+-|. .|..|+ |+-.
T Consensus 116 ~rrY~YPF~~C--T~CGPRfTIi~alPYD-R~nTsM~~F~lC~~C~~EY~dP~nRRfHA-----Qp~aCp~CGP~ 182 (750)
T COG0068 116 SRRYLYPFINC--TNCGPRFTIIEALPYD-RENTSMADFPLCPFCDKEYKDPLNRRFHA-----QPIACPKCGPH 182 (750)
T ss_pred Ccceecccccc--CCCCcceeeeccCCCC-cccCccccCcCCHHHHHHhcCcccccccc-----ccccCcccCCC
Confidence 34454444333 3447777655544433 223333344 4888888877776654443 356688 8764
No 133
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.40 E-value=84 Score=33.47 Aligned_cols=9 Identities=33% Similarity=0.948 Sum_probs=6.7
Q ss_pred cccCcCCCc
Q 008103 82 WKCEKCSKR 90 (577)
Q Consensus 82 ykC~~C~K~ 90 (577)
.+|..|+..
T Consensus 225 ~~C~~Cg~~ 233 (305)
T TIGR01562 225 VKCSHCEES 233 (305)
T ss_pred ccCCCCCCC
Confidence 578888863
No 134
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.31 E-value=60 Score=38.18 Aligned_cols=14 Identities=14% Similarity=0.444 Sum_probs=8.9
Q ss_pred ccCCcccccCcCCC
Q 008103 76 KHGEKKWKCEKCSK 89 (577)
Q Consensus 76 HtgeKpykC~~C~K 89 (577)
|...+..+|.+|++
T Consensus 405 h~~~~~l~Ch~CG~ 418 (665)
T PRK14873 405 PSAGGTPRCRWCGR 418 (665)
T ss_pred ecCCCeeECCCCcC
Confidence 33445677888875
No 135
>PF02748 PyrI_C: Aspartate carbamoyltransferase regulatory chain, metal binding domain; InterPro: IPR020542 Aspartate carbamoyltransferase (aspartate transcarbamylase, ATCase) 2.1.3.2 from EC is an allosteric enzyme that plays a central role in the regulation of the pyrimidine pathway in bacteria. The holoenzyme is a dodecamer composed of six catalytic chains, each with an active site, and six regulatory chains lacking catalytic activity []. The catalytic subunits exist as a dimer of catalytic trimers, (c3)2, while the regulatory subunits exist as a trimer of regulatory dimers, (r2)3, therefore the complete holoenzyme can be represented as (c3)2(r2)3. The association of the catalytic subunits c3 with the regulatory subunits r2 is responsible for the establishment of positive co-operativity between catalytic sites for the binding of aspartate and it dictates the pattern of allosteric response toward nucleotide effectors. ATCase from Escherichia coli is the most extensively studied allosteric enzyme []. The crystal structure of the T-state, the T-state with CTP bound, the R-state with N-phosphonacetyl-L-aspartate (PALA) bound, and the R-state with phosphonoacetamide plus malonate bound have been used in interpreting kinetic and mutational studies. A high-resolution structure of E. coli ATCase in the presence of PALA (a bisubstrate analog) allows a detailed description of the binding at the active site of the enzyme and allows a detailed model of the tetrahedral intermediate to be constructed. The entire regulatory chain has been traced showing that the N-terminal regions of the regulatory chains R1 and R6 are located in close proximity to each other and to the regulatory site. This portion of the molecule may be involved in the observed asymmetry between the regulatory binding sites as well as in the heterotropic response of the enzyme []. The C-terminal domain of the regulatory chains have a rubredoxin-like zinc-bound fold. ATCase from Enterobacter agglomerans (Erwinia herbicola) (Pantoea agglomerans) differs from the other investigated enterobacterial ATCases by its absence of homotropic co-operativity toward the substrate aspartate and its lack of response to ATP which is an allosteric effector (activator) of this family of enzymes. Nevertheless, the E. herbicola ATCase has the same quaternary structure, two trimers of catalytic chains with three dimers of regulatory chains, (c3)2(r2)3, as other enterobacterial ATCases and shows extensive primary structure conservation []. This entry represents the C-terminal domain.; PDB: 2YWW_B 1SKU_D 1Q95_L 8ATC_B 3AT1_D 1RAI_D 4E2F_D 1NBE_B 6AT1_B 2FZC_D ....
Probab=22.23 E-value=35 Score=26.74 Aligned_cols=44 Identities=20% Similarity=0.557 Sum_probs=20.8
Q ss_pred eeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccchh
Q 008103 46 VYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQS 95 (577)
Q Consensus 46 py~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~sks 95 (577)
..+|+-|.|..+... .-..+ + .........|+|.+|++.|....
T Consensus 6 vl~C~Np~CITn~~E-~v~~~--F---~v~~~~~~~~rC~YCe~~~~~~e 49 (52)
T PF02748_consen 6 VLKCPNPNCITNSNE-PVESR--F---YVIDKEPIKLRCHYCERIITEDE 49 (52)
T ss_dssp SSE-SSTTBTTT-TS-SS--E--E---EEEETTTCEEEETTT--EEEHHH
T ss_pred EEEcCCCCcccCCCC-CCCce--E---EEEeCCCCEEEeeCCCCEecccE
Confidence 468888888433000 00000 0 01334556789999988876543
No 136
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=22.21 E-value=25 Score=41.71 Aligned_cols=48 Identities=15% Similarity=0.297 Sum_probs=28.5
Q ss_pred cccccccccCChHHHHHHHHhcCCCccccccccccccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCc
Q 008103 7 ICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEK 86 (577)
Q Consensus 7 ~C~~CgK~F~~~s~L~~H~r~H~~p~~~~~h~~~~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~ 86 (577)
.|..|+..+.... |...+.-|...+...|.+ | ++ ....|..|+.
T Consensus 437 ~C~~Cg~v~~Cp~--------------Cd~~lt~H~~~~~L~CH~--C-----g~---------------~~~~p~~Cp~ 480 (730)
T COG1198 437 LCRDCGYIAECPN--------------CDSPLTLHKATGQLRCHY--C-----GY---------------QEPIPQSCPE 480 (730)
T ss_pred ecccCCCcccCCC--------------CCcceEEecCCCeeEeCC--C-----CC---------------CCCCCCCCCC
Confidence 4777777665432 122223334556677887 7 42 2456888999
Q ss_pred CCCc
Q 008103 87 CSKR 90 (577)
Q Consensus 87 C~K~ 90 (577)
|+..
T Consensus 481 Cgs~ 484 (730)
T COG1198 481 CGSE 484 (730)
T ss_pred CCCC
Confidence 9854
No 137
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=22.03 E-value=1.1e+02 Score=31.56 Aligned_cols=36 Identities=33% Similarity=0.656 Sum_probs=23.8
Q ss_pred ccccCcCCCcccchhhhhhhccccCCceeecC-CCCCcCCh
Q 008103 81 KWKCEKCSKRYAVQSDWKAHSKTCGTREYRCD-CGTLFSRR 120 (577)
Q Consensus 81 pykC~~C~K~F~sks~L~~H~r~hgeKpy~C~-Cgk~F~~~ 120 (577)
--+|..|.+.|--.-. -+..|.-.|.|. |+..|.-.
T Consensus 132 VSRCr~C~~rYDPVP~----dkmwG~aef~C~~C~h~F~G~ 168 (278)
T PF15135_consen 132 VSRCRKCRKRYDPVPC----DKMWGIAEFHCPKCRHNFRGF 168 (278)
T ss_pred cccccccccccCCCcc----ccccceeeeecccccccchhh
Confidence 3578888887754321 112566779998 99998754
No 138
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.69 E-value=51 Score=31.60 Aligned_cols=32 Identities=31% Similarity=0.848 Sum_probs=20.4
Q ss_pred cccccCcCCCcccchhhhhhhccc-cCCceeecC-CCCC
Q 008103 80 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTL 116 (577)
Q Consensus 80 KpykC~~C~K~F~sks~L~~H~r~-hgeKpy~C~-Cgk~ 116 (577)
-+|.|. |...|.++. +|-+. -|+ .|.|. |+-.
T Consensus 116 ~~Y~C~-C~q~~l~~R---Rhn~~~~g~-~YrC~~C~gk 149 (156)
T COG3091 116 YPYRCQ-CQQHYLRIR---RHNTVRRGE-VYRCGKCGGK 149 (156)
T ss_pred eeEEee-cCCccchhh---hcccccccc-eEEeccCCce
Confidence 468888 887766543 34344 455 78888 8643
No 139
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.68 E-value=70 Score=31.50 Aligned_cols=11 Identities=36% Similarity=0.600 Sum_probs=7.9
Q ss_pred cccCceeeCCC
Q 008103 41 EVKRKVYLCPE 51 (577)
Q Consensus 41 ~~~ekpy~C~~ 51 (577)
+..+..|+|++
T Consensus 126 ~~~~~~~~CPi 136 (187)
T KOG0320|consen 126 LRKEGTYKCPI 136 (187)
T ss_pred cccccccCCCc
Confidence 34556699999
No 140
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=21.25 E-value=51 Score=31.53 Aligned_cols=36 Identities=14% Similarity=0.473 Sum_probs=27.7
Q ss_pred cccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCccc
Q 008103 41 EVKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYA 92 (577)
Q Consensus 41 ~~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~ 92 (577)
.....-|.|+. | .++|+....+. .-|.|+.|+....
T Consensus 104 e~~~~~Y~Cp~--c-----~~r~tf~eA~~---------~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 104 ETNNMFFICPN--M-----CVRFTFNEAME---------LNFTCPRCGAMLD 139 (158)
T ss_pred ccCCCeEECCC--C-----CcEeeHHHHHH---------cCCcCCCCCCEee
Confidence 34567899998 8 88888777764 2599999997653
No 141
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=21.13 E-value=69 Score=34.10 Aligned_cols=44 Identities=16% Similarity=0.482 Sum_probs=30.9
Q ss_pred cCcCCCcccchhhhhhhccc--cCCceeecC-CCCCcCChhHHHHHHHHh
Q 008103 84 CEKCSKRYAVQSDWKAHSKT--CGTREYRCD-CGTLFSRRDSFITHRAFC 130 (577)
Q Consensus 84 C~~C~K~F~sks~L~~H~r~--hgeKpy~C~-Cgk~F~~~s~L~~H~r~h 130 (577)
|-.|--.|.... .|.-- +....|.|+ |...|-..-..-.|...|
T Consensus 365 Cf~CQ~~fp~~~---~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh 411 (421)
T COG5151 365 CFVCQGPFPKPP---VSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLH 411 (421)
T ss_pred ceeccCCCCCCC---CCcccccccccceechhhhhhhhhhhHHHHHHHHh
Confidence 777877776432 22221 345679999 999999888888887766
No 142
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=21.02 E-value=36 Score=29.82 Aligned_cols=9 Identities=44% Similarity=1.117 Sum_probs=4.5
Q ss_pred ccccCcCCC
Q 008103 81 KWKCEKCSK 89 (577)
Q Consensus 81 pykC~~C~K 89 (577)
+|.|+.|++
T Consensus 35 ky~Cp~Cgk 43 (90)
T PF01780_consen 35 KYTCPFCGK 43 (90)
T ss_dssp -BEESSSSS
T ss_pred CCcCCCCCC
Confidence 355555554
No 143
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.95 E-value=62 Score=31.11 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=26.9
Q ss_pred cccCcCCCcccchhhhhhhccc--cCCceeecC-CCCCcCChhHHH
Q 008103 82 WKCEKCSKRYAVQSDWKAHSKT--CGTREYRCD-CGTLFSRRDSFI 124 (577)
Q Consensus 82 ykC~~C~K~F~sks~L~~H~r~--hgeKpy~C~-Cgk~F~~~s~L~ 124 (577)
-+|+.|+....-..+...=.-. +-+.|..|. ||+.|++.....
T Consensus 40 ~~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPWt~~~L 85 (158)
T PF10083_consen 40 TSCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPWTENAL 85 (158)
T ss_pred HHCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCchHHHHH
Confidence 3688887655544333222222 456899999 999999965443
No 144
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=20.75 E-value=23 Score=25.92 Aligned_cols=9 Identities=44% Similarity=1.231 Sum_probs=5.2
Q ss_pred eecC-CCCCc
Q 008103 109 YRCD-CGTLF 117 (577)
Q Consensus 109 y~C~-Cgk~F 117 (577)
|.|. |++.|
T Consensus 29 y~C~~C~~~w 38 (39)
T PF01096_consen 29 YVCCNCGHRW 38 (39)
T ss_dssp EEESSSTEEE
T ss_pred EEeCCCCCee
Confidence 6665 66554
No 145
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.28 E-value=75 Score=22.87 Aligned_cols=11 Identities=36% Similarity=1.002 Sum_probs=5.7
Q ss_pred ccccCcCCCcc
Q 008103 81 KWKCEKCSKRY 91 (577)
Q Consensus 81 pykC~~C~K~F 91 (577)
..+|..|+..|
T Consensus 25 ~vrC~~C~~~f 35 (37)
T PF13719_consen 25 KVRCPKCGHVF 35 (37)
T ss_pred EEECCCCCcEe
Confidence 45555555444
No 146
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.21 E-value=70 Score=22.72 Aligned_cols=10 Identities=30% Similarity=0.611 Sum_probs=6.3
Q ss_pred cccccCcCCC
Q 008103 80 KKWKCEKCSK 89 (577)
Q Consensus 80 KpykC~~C~K 89 (577)
.|.+|++|+.
T Consensus 17 ~p~~CP~Cg~ 26 (34)
T cd00729 17 APEKCPICGA 26 (34)
T ss_pred CCCcCcCCCC
Confidence 4567777763
No 147
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=20.10 E-value=58 Score=31.84 Aligned_cols=36 Identities=14% Similarity=0.509 Sum_probs=27.1
Q ss_pred ccCceeeCCCCCccCCCCCCccCChhhHHhHhhhccCCcccccCcCCCcccc
Q 008103 42 VKRKVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAV 93 (577)
Q Consensus 42 ~~ekpy~C~~~~C~~~~~~k~F~~~s~Lk~H~r~HtgeKpykC~~C~K~F~s 93 (577)
....-|.|+. | ++.|.....+. .-|.|+.|+.....
T Consensus 113 ~~~~~Y~Cp~--C-----~~rytf~eA~~---------~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 113 ENNMFFFCPN--C-----HIRFTFDEAME---------YGFRCPQCGEMLEE 148 (178)
T ss_pred cCCCEEECCC--C-----CcEEeHHHHhh---------cCCcCCCCCCCCee
Confidence 3557899998 8 88888776653 35999999976543
Done!