Query 048313
Match_columns 252
No_of_seqs 247 out of 1159
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 08:23:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048313.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048313hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3002 Zn finger protein [Gen 100.0 1.9E-45 4.1E-50 323.9 11.1 226 8-237 41-279 (299)
2 PF03145 Sina: Seven in absent 100.0 7.1E-33 1.5E-37 233.4 6.4 183 63-246 1-198 (198)
3 cd03829 Sina Seven in absentia 99.5 8.1E-15 1.8E-19 111.3 2.9 97 153-249 22-127 (127)
4 KOG0297 TNF receptor-associate 99.4 1.2E-13 2.6E-18 127.5 5.1 119 14-138 20-145 (391)
5 PF14835 zf-RING_6: zf-RING of 98.6 2E-08 4.4E-13 68.2 1.7 56 14-72 6-65 (65)
6 PF02176 zf-TRAF: TRAF-type zi 98.5 1E-07 2.2E-12 64.6 2.4 50 75-126 8-60 (60)
7 PF15227 zf-C3HC4_4: zinc fing 98.4 1.3E-07 2.8E-12 59.7 1.8 35 18-56 1-42 (42)
8 PF13923 zf-C3HC4_2: Zinc fing 98.4 1.4E-07 3.1E-12 58.4 1.9 36 18-56 1-39 (39)
9 smart00504 Ubox Modified RING 98.4 1.6E-07 3.5E-12 64.1 2.3 55 15-73 1-61 (63)
10 PLN03208 E3 ubiquitin-protein 98.3 1.9E-07 4.2E-12 77.4 2.0 44 14-61 17-79 (193)
11 PF13920 zf-C3HC4_3: Zinc fing 98.3 2.2E-07 4.8E-12 60.8 1.5 43 15-61 2-48 (50)
12 KOG0320 Predicted E3 ubiquitin 98.2 2.4E-07 5.1E-12 75.3 0.5 46 14-61 130-178 (187)
13 PF13639 zf-RING_2: Ring finge 98.2 6.2E-07 1.3E-11 57.0 1.4 40 17-57 2-44 (44)
14 TIGR00599 rad18 DNA repair pro 98.1 7.5E-07 1.6E-11 82.0 1.4 57 14-74 25-87 (397)
15 PF14634 zf-RING_5: zinc-RING 98.1 9.1E-07 2E-11 56.3 1.1 41 17-58 1-44 (44)
16 KOG0823 Predicted E3 ubiquitin 98.1 1.3E-06 2.8E-11 73.9 2.1 46 12-61 44-95 (230)
17 KOG0287 Postreplication repair 98.0 3.7E-07 7.9E-12 80.9 -2.5 58 14-75 22-85 (442)
18 COG5432 RAD18 RING-finger-cont 98.0 1.9E-06 4.2E-11 74.9 0.3 42 15-60 25-69 (391)
19 PF04564 U-box: U-box domain; 98.0 3.3E-06 7.2E-11 59.7 1.5 58 13-74 2-66 (73)
20 PF00097 zf-C3HC4: Zinc finger 97.9 6.1E-06 1.3E-10 51.4 2.1 36 18-56 1-41 (41)
21 PHA02929 N1R/p28-like protein; 97.9 4.9E-06 1.1E-10 71.7 1.6 46 14-61 173-227 (238)
22 cd00162 RING RING-finger (Real 97.8 1E-05 2.2E-10 50.5 1.8 40 17-59 1-44 (45)
23 KOG0317 Predicted E3 ubiquitin 97.7 8E-06 1.7E-10 71.2 -0.7 47 11-61 235-284 (293)
24 PF02176 zf-TRAF: TRAF-type zi 97.6 2E-05 4.4E-10 53.2 0.7 43 98-140 1-43 (60)
25 TIGR00570 cdk7 CDK-activating 97.5 3.8E-05 8.2E-10 68.3 1.8 47 14-61 2-54 (309)
26 PHA02926 zinc finger-like prot 97.4 3.7E-05 7.9E-10 64.9 -0.3 46 14-61 169-230 (242)
27 KOG2164 Predicted E3 ubiquitin 97.3 6.3E-05 1.4E-09 70.3 0.8 44 15-62 186-237 (513)
28 smart00184 RING Ring finger. E 97.3 0.0001 2.2E-09 44.2 1.4 35 18-56 1-39 (39)
29 PF13445 zf-RING_UBOX: RING-ty 97.2 0.0001 2.2E-09 46.6 0.8 30 18-49 1-31 (43)
30 COG5574 PEX10 RING-finger-cont 97.2 6.6E-05 1.4E-09 64.8 -0.1 45 13-61 213-262 (271)
31 PF12678 zf-rbx1: RING-H2 zinc 97.2 0.00054 1.2E-08 48.4 4.2 54 4-57 8-73 (73)
32 PLN03086 PRLI-interacting fact 97.0 0.00032 6.8E-09 67.4 2.2 52 74-129 405-456 (567)
33 KOG0978 E3 ubiquitin ligase in 97.0 0.00013 2.8E-09 71.3 -0.8 45 14-62 642-690 (698)
34 PLN03086 PRLI-interacting fact 97.0 0.00068 1.5E-08 65.2 4.1 116 11-138 403-544 (567)
35 KOG2177 Predicted E3 ubiquitin 96.9 0.00019 4.1E-09 62.5 -0.2 59 13-75 11-73 (386)
36 KOG0311 Predicted E3 ubiquitin 96.9 3.8E-05 8.3E-10 68.7 -4.9 46 15-63 43-92 (381)
37 COG5152 Uncharacterized conser 96.3 0.00094 2E-08 55.4 -0.3 55 16-74 197-256 (259)
38 PF14570 zf-RING_4: RING/Ubox 96.2 0.0017 3.7E-08 41.9 0.7 42 18-60 1-47 (48)
39 KOG4739 Uncharacterized protei 95.7 0.0069 1.5E-07 51.9 2.4 45 14-60 2-47 (233)
40 KOG2879 Predicted E3 ubiquitin 95.5 0.0093 2E-07 52.0 2.6 46 13-61 237-287 (298)
41 KOG1813 Predicted E3 ubiquitin 95.5 0.0074 1.6E-07 53.1 1.9 44 16-63 242-288 (313)
42 KOG4159 Predicted E3 ubiquitin 95.5 0.0037 8.1E-08 57.9 0.0 45 13-61 82-129 (398)
43 PF11789 zf-Nse: Zinc-finger o 95.4 0.005 1.1E-07 41.3 0.3 38 9-49 5-42 (57)
44 COG5175 MOT2 Transcriptional r 95.3 0.0037 8.1E-08 55.9 -0.5 52 7-60 7-63 (480)
45 COG5222 Uncharacterized conser 95.0 0.0076 1.7E-07 53.1 0.5 55 16-73 275-337 (427)
46 PF12861 zf-Apc11: Anaphase-pr 95.0 0.013 2.8E-07 42.4 1.5 42 18-61 35-82 (85)
47 KOG0802 E3 ubiquitin ligase [P 94.7 0.01 2.2E-07 57.5 0.4 42 15-60 291-340 (543)
48 KOG0824 Predicted E3 ubiquitin 94.3 0.017 3.6E-07 51.1 0.9 42 16-61 8-53 (324)
49 KOG4275 Predicted E3 ubiquitin 94.1 0.0098 2.1E-07 52.3 -0.9 41 15-60 300-341 (350)
50 KOG2660 Locus-specific chromos 94.0 0.0071 1.5E-07 54.0 -2.0 58 14-74 14-81 (331)
51 KOG4172 Predicted E3 ubiquitin 94.0 0.0039 8.5E-08 41.0 -2.7 42 16-61 8-54 (62)
52 KOG4265 Predicted E3 ubiquitin 93.9 0.023 5E-07 51.3 0.9 43 15-61 290-336 (349)
53 PF05290 Baculo_IE-1: Baculovi 93.9 0.02 4.4E-07 44.7 0.5 53 7-61 72-132 (140)
54 COG5540 RING-finger-containing 93.3 0.05 1.1E-06 48.2 2.0 45 16-61 324-372 (374)
55 PF14447 Prok-RING_4: Prokaryo 92.7 0.11 2.3E-06 34.4 2.4 41 17-61 9-50 (55)
56 PF11793 FANCL_C: FANCL C-term 92.3 0.038 8.3E-07 38.6 -0.1 47 15-61 2-66 (70)
57 KOG1785 Tyrosine kinase negati 92.2 0.025 5.4E-07 51.8 -1.4 45 13-61 367-416 (563)
58 PF05605 zf-Di19: Drought indu 92.2 0.12 2.5E-06 34.0 2.2 49 77-132 3-54 (54)
59 PF07800 DUF1644: Protein of u 91.9 0.1 2.2E-06 42.1 1.9 36 95-133 99-134 (162)
60 COG5236 Uncharacterized conser 91.6 0.049 1.1E-06 49.1 -0.2 110 12-133 58-179 (493)
61 PF07975 C1_4: TFIIH C1-like d 90.0 0.25 5.3E-06 32.3 2.0 38 17-57 1-50 (51)
62 KOG1002 Nucleotide excision re 90.0 0.087 1.9E-06 50.0 -0.2 46 12-61 533-586 (791)
63 COG2888 Predicted Zn-ribbon RN 89.7 0.34 7.5E-06 32.5 2.6 37 74-119 25-61 (61)
64 KOG4692 Predicted E3 ubiquitin 88.4 0.13 2.8E-06 46.6 -0.2 45 12-60 419-466 (489)
65 PF07191 zinc-ribbons_6: zinc- 88.0 0.22 4.8E-06 34.7 0.8 38 16-61 2-41 (70)
66 COG5219 Uncharacterized conser 87.5 0.11 2.4E-06 52.5 -1.3 46 16-61 1470-1523(1525)
67 KOG3039 Uncharacterized conser 86.9 0.35 7.6E-06 41.8 1.6 45 14-61 220-270 (303)
68 PF13909 zf-H2C2_5: C2H2-type 86.9 0.28 6E-06 26.4 0.6 23 108-132 2-24 (24)
69 KOG1571 Predicted E3 ubiquitin 86.4 0.28 6.1E-06 44.5 0.7 46 11-61 301-347 (355)
70 KOG2817 Predicted E3 ubiquitin 86.3 0.43 9.4E-06 43.9 1.9 44 14-58 333-382 (394)
71 PF04641 Rtf2: Rtf2 RING-finge 86.3 0.61 1.3E-05 40.9 2.8 49 13-61 111-161 (260)
72 PRK14890 putative Zn-ribbon RN 85.7 1.1 2.5E-05 30.0 3.2 37 74-119 23-59 (59)
73 KOG1039 Predicted E3 ubiquitin 85.4 0.41 8.8E-06 43.7 1.3 46 13-61 159-221 (344)
74 PF07800 DUF1644: Protein of u 84.8 0.7 1.5E-05 37.3 2.2 55 52-110 82-137 (162)
75 KOG4367 Predicted Zn-finger pr 84.5 0.28 6.1E-06 45.6 -0.2 30 14-47 3-32 (699)
76 KOG2932 E3 ubiquitin ligase in 83.8 0.7 1.5E-05 41.2 2.0 77 15-100 90-168 (389)
77 KOG0804 Cytoplasmic Zn-finger 83.5 0.44 9.6E-06 44.5 0.7 43 14-59 174-220 (493)
78 PF10571 UPF0547: Uncharacteri 83.1 0.47 1E-05 26.5 0.4 21 18-41 3-24 (26)
79 PF05605 zf-Di19: Drought indu 83.0 1 2.2E-05 29.5 2.1 28 107-136 3-30 (54)
80 COG5243 HRD1 HRD ubiquitin lig 83.0 0.6 1.3E-05 42.7 1.3 47 13-60 285-344 (491)
81 PF13913 zf-C2HC_2: zinc-finge 82.9 0.7 1.5E-05 25.4 1.1 22 77-102 3-24 (25)
82 KOG4185 Predicted E3 ubiquitin 82.6 1 2.2E-05 40.0 2.6 60 14-74 2-76 (296)
83 KOG0825 PHD Zn-finger protein 82.0 0.21 4.5E-06 49.6 -2.1 42 17-61 125-171 (1134)
84 KOG1812 Predicted E3 ubiquitin 81.5 0.42 9E-06 44.4 -0.3 33 14-49 145-180 (384)
85 PF04606 Ogr_Delta: Ogr/Delta- 79.4 2.5 5.3E-05 26.9 2.9 37 52-90 1-37 (47)
86 PF14446 Prok-RING_1: Prokaryo 78.5 1.3 2.9E-05 29.2 1.4 45 13-59 3-50 (54)
87 PHA00616 hypothetical protein 78.3 1.6 3.4E-05 27.6 1.7 33 106-140 1-34 (44)
88 PF14445 Prok-RING_2: Prokaryo 78.1 0.11 2.4E-06 33.6 -3.6 45 14-60 6-51 (57)
89 PRK11088 rrmA 23S rRNA methylt 77.8 1.3 2.7E-05 38.9 1.6 26 15-41 2-27 (272)
90 KOG1814 Predicted E3 ubiquitin 77.5 1.3 2.8E-05 41.0 1.6 102 14-119 183-322 (445)
91 PF10367 Vps39_2: Vacuolar sor 76.4 2.5 5.4E-05 31.2 2.7 36 9-47 73-108 (109)
92 PF02891 zf-MIZ: MIZ/SP-RING z 76.3 1.5 3.2E-05 28.4 1.2 41 16-59 3-50 (50)
93 PF10083 DUF2321: Uncharacteri 75.9 0.88 1.9E-05 36.6 0.0 22 40-61 29-50 (158)
94 KOG4628 Predicted E3 ubiquitin 75.5 2.2 4.7E-05 39.0 2.4 45 16-61 230-278 (348)
95 PF01363 FYVE: FYVE zinc finge 73.8 2.4 5.3E-05 28.9 1.8 36 12-48 6-42 (69)
96 KOG3800 Predicted E3 ubiquitin 73.6 1.6 3.4E-05 38.7 1.0 43 17-60 2-50 (300)
97 COG1645 Uncharacterized Zn-fin 73.1 2 4.4E-05 33.6 1.4 23 16-46 29-51 (131)
98 PF06906 DUF1272: Protein of u 71.3 3.3 7.2E-05 27.5 1.9 45 17-61 7-52 (57)
99 KOG1001 Helicase-like transcri 70.8 1.4 3E-05 43.9 0.0 40 16-60 455-499 (674)
100 KOG3161 Predicted E3 ubiquitin 70.8 0.64 1.4E-05 45.3 -2.2 40 14-54 10-51 (861)
101 PF08209 Sgf11: Sgf11 (transcr 70.0 4 8.7E-05 24.1 1.9 25 75-103 3-27 (33)
102 COG3813 Uncharacterized protei 69.8 2.8 6.1E-05 29.3 1.4 29 33-61 23-52 (84)
103 PF05253 zf-U11-48K: U11-48K-l 69.5 4.4 9.5E-05 22.6 1.9 24 77-103 3-26 (27)
104 TIGR00622 ssl1 transcription f 69.2 4.7 0.0001 30.8 2.6 38 17-57 57-110 (112)
105 smart00647 IBR In Between Ring 69.2 4.3 9.4E-05 26.8 2.3 37 14-50 17-59 (64)
106 COG5194 APC11 Component of SCF 68.9 3 6.4E-05 29.8 1.4 51 10-63 15-83 (88)
107 KOG0828 Predicted E3 ubiquitin 68.5 1.4 3E-05 41.9 -0.5 45 16-61 572-634 (636)
108 KOG0826 Predicted E3 ubiquitin 67.3 2.5 5.4E-05 38.1 0.9 45 13-60 298-345 (357)
109 COG5109 Uncharacterized conser 66.3 3.5 7.6E-05 37.0 1.6 35 14-49 335-369 (396)
110 smart00064 FYVE Protein presen 65.2 2.8 6.1E-05 28.5 0.7 36 12-48 7-43 (68)
111 COG4306 Uncharacterized protei 65.0 2.8 6E-05 32.6 0.7 49 41-95 30-83 (160)
112 PF06677 Auto_anti-p27: Sjogre 63.0 6.5 0.00014 24.4 1.9 23 16-45 18-40 (41)
113 PRK04023 DNA polymerase II lar 62.9 5.1 0.00011 41.4 2.2 47 10-61 621-674 (1121)
114 KOG3002 Zn finger protein [Gen 62.8 3.6 7.7E-05 36.9 1.0 75 51-129 49-131 (299)
115 PF13894 zf-C2H2_4: C2H2-type 62.8 4 8.8E-05 20.9 0.9 22 108-131 2-24 (24)
116 KOG1645 RING-finger-containing 61.7 3 6.4E-05 38.7 0.3 41 16-59 5-54 (463)
117 KOG2231 Predicted E3 ubiquitin 61.7 4.8 0.0001 39.9 1.8 41 17-61 2-52 (669)
118 smart00734 ZnF_Rad18 Rad18-lik 61.4 4.4 9.6E-05 22.4 0.9 17 86-102 7-23 (26)
119 PRK00420 hypothetical protein; 60.8 5.7 0.00012 30.3 1.7 26 16-48 24-49 (112)
120 PF00412 LIM: LIM domain; Int 60.3 4.5 9.9E-05 26.2 1.0 32 14-48 25-56 (58)
121 KOG2462 C2H2-type Zn-finger pr 59.2 7.8 0.00017 34.2 2.4 12 14-25 129-140 (279)
122 KOG4621 Uncharacterized conser 58.5 4.6 0.0001 31.6 0.9 34 6-43 72-106 (167)
123 PRK09678 DNA-binding transcrip 58.4 9.7 0.00021 26.7 2.4 45 52-98 3-47 (72)
124 PF12660 zf-TFIIIC: Putative z 58.1 6.6 0.00014 29.2 1.6 43 17-60 16-65 (99)
125 KOG3579 Predicted E3 ubiquitin 56.9 6.4 0.00014 34.9 1.5 32 14-48 267-301 (352)
126 PF04216 FdhE: Protein involve 56.4 5.3 0.00012 35.5 1.0 72 16-94 173-252 (290)
127 PRK14714 DNA polymerase II lar 56.1 12 0.00027 39.6 3.7 47 10-61 662-720 (1337)
128 cd00065 FYVE FYVE domain; Zinc 55.8 5.5 0.00012 25.9 0.8 32 16-48 3-35 (57)
129 KOG3039 Uncharacterized conser 55.3 4.5 9.8E-05 35.1 0.4 28 17-48 45-72 (303)
130 PF01428 zf-AN1: AN1-like Zinc 54.7 14 0.00031 22.8 2.5 33 18-54 1-36 (43)
131 KOG1100 Predicted E3 ubiquitin 54.4 9.6 0.00021 32.3 2.2 38 18-60 161-199 (207)
132 PF10426 zf-RAG1: Recombinatio 54.4 11 0.00024 21.7 1.7 22 107-128 3-24 (30)
133 smart00154 ZnF_AN1 AN1-like Zi 52.8 11 0.00023 23.1 1.6 33 18-54 1-35 (39)
134 KOG3608 Zn finger proteins [Ge 52.7 9 0.0002 35.1 1.8 113 13-132 205-346 (467)
135 PF15616 TerY-C: TerY-C metal 51.8 13 0.00027 29.3 2.3 39 16-61 78-116 (131)
136 PF01485 IBR: IBR domain; Int 51.0 7.5 0.00016 25.6 0.8 39 11-49 14-58 (64)
137 KOG4362 Transcriptional regula 50.2 3.7 8E-05 40.7 -1.1 43 14-60 20-68 (684)
138 cd00350 rubredoxin_like Rubred 50.0 16 0.00034 21.3 2.0 9 51-59 18-26 (33)
139 KOG0297 TNF receptor-associate 49.5 11 0.00023 35.2 1.9 49 75-128 113-162 (391)
140 KOG2462 C2H2-type Zn-finger pr 49.1 7.7 0.00017 34.2 0.8 104 13-133 159-269 (279)
141 cd00729 rubredoxin_SM Rubredox 48.6 21 0.00045 21.0 2.4 9 51-59 19-27 (34)
142 KOG1734 Predicted RING-contain 48.5 4.2 9.1E-05 35.8 -0.9 49 13-61 222-281 (328)
143 PF01286 XPA_N: XPA protein N- 48.4 9.7 0.00021 22.6 0.9 31 14-47 2-32 (34)
144 PF08882 Acetone_carb_G: Aceto 48.1 10 0.00023 28.8 1.3 29 8-44 8-36 (112)
145 PF12773 DZR: Double zinc ribb 47.5 14 0.0003 23.4 1.7 7 53-59 32-38 (50)
146 PF03145 Sina: Seven in absent 47.4 18 0.00039 30.1 2.8 47 56-102 24-70 (198)
147 PRK14559 putative protein seri 47.3 13 0.00028 37.0 2.2 43 16-61 2-52 (645)
148 TIGR01562 FdhE formate dehydro 46.4 13 0.00028 33.5 1.8 41 16-59 185-233 (305)
149 PF10235 Cript: Microtubule-as 45.7 13 0.00027 27.3 1.4 36 17-62 46-81 (90)
150 KOG2807 RNA polymerase II tran 44.8 15 0.00033 33.2 2.0 17 29-45 342-359 (378)
151 smart00301 DM Doublesex DNA-bi 44.7 8.7 0.00019 25.4 0.4 40 86-127 8-47 (54)
152 PF02318 FYVE_2: FYVE-type zin 43.2 20 0.00042 27.4 2.2 44 15-58 54-102 (118)
153 PF00096 zf-C2H2: Zinc finger, 42.2 9.3 0.0002 19.8 0.2 20 108-129 2-22 (23)
154 PRK14892 putative transcriptio 42.1 16 0.00035 27.2 1.5 32 13-47 19-50 (99)
155 PF14319 Zn_Tnp_IS91: Transpos 41.7 22 0.00048 26.9 2.3 25 32-59 42-69 (111)
156 KOG2272 Focal adhesion protein 41.6 13 0.00028 32.5 1.0 44 14-61 162-206 (332)
157 COG1198 PriA Primosomal protei 39.9 28 0.00062 35.1 3.3 22 41-64 437-458 (730)
158 TIGR00595 priA primosomal prot 39.9 21 0.00045 34.4 2.3 23 37-59 238-262 (505)
159 COG4647 AcxC Acetone carboxyla 39.6 13 0.00029 29.0 0.8 43 32-81 70-114 (165)
160 KOG2068 MOT2 transcription fac 39.4 21 0.00046 32.3 2.1 46 16-61 250-298 (327)
161 COG4357 Zinc finger domain con 38.6 20 0.00044 26.5 1.5 22 40-61 63-91 (105)
162 PRK11827 hypothetical protein; 38.1 23 0.0005 23.9 1.6 12 14-25 7-18 (60)
163 COG1198 PriA Primosomal protei 38.1 21 0.00045 36.1 2.0 38 16-59 445-484 (730)
164 PRK03564 formate dehydrogenase 37.8 28 0.0006 31.4 2.6 41 15-58 187-234 (309)
165 PRK14873 primosome assembly pr 37.8 27 0.00058 35.0 2.7 39 15-59 392-431 (665)
166 PF03833 PolC_DP2: DNA polymer 37.4 11 0.00024 38.3 0.0 48 9-61 649-703 (900)
167 PF09538 FYDLN_acid: Protein o 36.7 19 0.00042 27.3 1.2 21 40-60 10-36 (108)
168 KOG3268 Predicted E3 ubiquitin 35.1 16 0.00035 30.2 0.6 46 16-61 166-228 (234)
169 PRK05580 primosome assembly pr 34.9 27 0.00059 35.0 2.3 23 37-59 406-430 (679)
170 PLN02189 cellulose synthase 34.6 29 0.00063 36.3 2.4 45 17-61 36-87 (1040)
171 KOG0827 Predicted E3 ubiquitin 34.3 13 0.00028 34.4 -0.0 39 16-57 5-52 (465)
172 PF08792 A2L_zn_ribbon: A2L zi 34.2 49 0.0011 19.4 2.4 27 14-46 2-28 (33)
173 PF00751 DM: DM DNA binding do 34.0 9.8 0.00021 24.4 -0.6 28 89-118 11-38 (47)
174 PF14569 zf-UDP: Zinc-binding 33.9 18 0.00039 25.7 0.6 49 13-61 7-62 (80)
175 PF13248 zf-ribbon_3: zinc-rib 33.9 19 0.0004 19.7 0.6 6 52-57 18-23 (26)
176 PF10272 Tmpp129: Putative tra 32.7 20 0.00043 33.0 0.9 30 31-60 305-350 (358)
177 COG1592 Rubrerythrin [Energy p 32.4 34 0.00074 28.0 2.1 24 32-59 134-158 (166)
178 PRK11823 DNA repair protein Ra 32.2 28 0.00061 33.0 1.8 25 30-59 5-30 (446)
179 TIGR00416 sms DNA repair prote 32.2 26 0.00055 33.4 1.5 25 30-59 5-30 (454)
180 PLN02195 cellulose synthase A 32.2 35 0.00076 35.5 2.6 51 11-61 2-59 (977)
181 PF12756 zf-C2H2_2: C2H2 type 31.8 25 0.00055 24.9 1.2 34 98-133 42-77 (100)
182 PLN02436 cellulose synthase A 31.6 38 0.00083 35.6 2.7 45 17-61 38-89 (1094)
183 PLN02638 cellulose synthase A 31.2 40 0.00087 35.4 2.8 48 14-61 16-70 (1079)
184 KOG0712 Molecular chaperone (D 31.1 4.2E+02 0.0091 24.3 9.5 80 37-132 125-213 (337)
185 COG2835 Uncharacterized conser 29.8 50 0.0011 22.3 2.1 28 13-46 6-33 (60)
186 PF03107 C1_2: C1 domain; Int 29.6 53 0.0011 18.5 2.0 17 17-36 2-19 (30)
187 COG3809 Uncharacterized protei 29.1 32 0.0007 24.5 1.2 45 16-77 2-46 (88)
188 PF03966 Trm112p: Trm112p-like 28.9 46 0.00099 22.6 2.0 13 13-25 5-17 (68)
189 PF11781 RRN7: RNA polymerase 28.7 37 0.00081 20.3 1.3 24 16-46 9-32 (36)
190 PF09297 zf-NADH-PPase: NADH p 28.7 14 0.00031 21.2 -0.5 10 39-48 3-12 (32)
191 COG5220 TFB3 Cdk activating ki 28.6 12 0.00027 32.3 -1.1 42 15-59 10-62 (314)
192 PLN02400 cellulose synthase 28.3 48 0.001 34.9 2.8 45 17-61 38-89 (1085)
193 PF01754 zf-A20: A20-like zinc 26.6 50 0.0011 18.2 1.5 15 106-121 1-15 (25)
194 PF03854 zf-P11: P-11 zinc fin 26.4 17 0.00038 23.3 -0.4 40 17-61 4-46 (50)
195 PF05502 Dynactin_p62: Dynacti 26.2 56 0.0012 31.4 2.7 36 51-90 53-96 (483)
196 PRK11595 DNA utilization prote 25.8 39 0.00085 28.7 1.5 35 17-60 7-44 (227)
197 PF13717 zinc_ribbon_4: zinc-r 25.7 97 0.0021 18.3 2.8 10 16-25 3-12 (36)
198 PF08273 Prim_Zn_Ribbon: Zinc- 25.5 51 0.0011 20.3 1.5 27 16-45 4-32 (40)
199 PF05883 Baculo_RING: Baculovi 25.5 23 0.00049 27.9 -0.1 35 15-49 26-65 (134)
200 KOG0006 E3 ubiquitin-protein l 25.4 63 0.0014 29.3 2.7 32 12-47 218-251 (446)
201 TIGR02300 FYDLN_acid conserved 25.3 41 0.00089 26.3 1.3 10 51-60 27-36 (129)
202 KOG2114 Vacuolar assembly/sort 25.3 35 0.00076 34.8 1.2 41 16-59 841-881 (933)
203 cd03445 Thioesterase_II_repeat 25.0 2E+02 0.0044 20.7 5.0 31 177-207 42-73 (94)
204 PF09237 GAGA: GAGA factor; I 24.8 39 0.00085 22.1 0.9 28 104-133 22-50 (54)
205 PF08271 TF_Zn_Ribbon: TFIIB z 24.6 67 0.0014 19.6 2.0 27 16-47 1-27 (43)
206 PF14353 CpXC: CpXC protein 24.5 67 0.0014 24.6 2.4 10 52-61 3-12 (128)
207 PF13912 zf-C2H2_6: C2H2-type 24.5 41 0.00088 18.0 0.9 24 107-132 2-26 (27)
208 PF06750 DiS_P_DiS: Bacterial 24.2 51 0.0011 24.1 1.6 24 38-61 32-69 (92)
209 PF14599 zinc_ribbon_6: Zinc-r 24.0 31 0.00068 23.3 0.4 29 30-58 21-56 (61)
210 PRK00398 rpoP DNA-directed RNA 23.8 22 0.00048 22.2 -0.3 11 51-61 22-32 (46)
211 TIGR02098 MJ0042_CXXC MJ0042 f 23.7 43 0.00093 19.7 1.0 6 53-58 5-10 (38)
212 KOG3576 Ovo and related transc 23.5 21 0.00046 30.3 -0.6 115 9-135 111-240 (267)
213 smart00661 RPOL9 RNA polymeras 23.5 43 0.00094 21.1 1.0 8 18-25 3-10 (52)
214 PF13834 DUF4193: Domain of un 23.4 55 0.0012 24.4 1.6 38 6-45 61-98 (99)
215 COG5151 SSL1 RNA polymerase II 23.4 1.1E+02 0.0023 27.8 3.7 88 3-104 296-415 (421)
216 PF03119 DNA_ligase_ZBD: NAD-d 22.9 64 0.0014 18.1 1.5 9 17-25 1-9 (28)
217 PF03604 DNA_RNApol_7kD: DNA d 22.9 41 0.00089 19.6 0.7 8 17-24 2-9 (32)
218 smart00132 LIM Zinc-binding do 22.4 1.1E+02 0.0024 17.2 2.6 9 17-25 1-9 (39)
219 KOG1842 FYVE finger-containing 22.4 13 0.00029 34.9 -2.1 38 8-48 173-213 (505)
220 KOG1493 Anaphase-promoting com 21.4 10 0.00022 26.9 -2.5 23 38-60 52-80 (84)
221 TIGR00373 conserved hypothetic 21.3 44 0.00094 27.0 0.8 13 51-63 129-141 (158)
222 PF13008 zf-Paramyx-P: Zinc-bi 21.0 73 0.0016 20.4 1.6 26 17-45 15-43 (47)
223 PHA03096 p28-like protein; Pro 21.0 30 0.00066 30.8 -0.2 33 16-49 179-216 (284)
224 PF09788 Tmemb_55A: Transmembr 20.8 78 0.0017 27.7 2.3 11 15-25 65-75 (256)
225 PF12013 DUF3505: Protein of u 20.5 66 0.0014 23.9 1.6 26 107-132 81-109 (109)
226 KOG3183 Predicted Zn-finger pr 20.2 68 0.0015 27.8 1.8 52 17-72 10-77 (250)
227 PRK12286 rpmF 50S ribosomal pr 20.1 82 0.0018 20.9 1.8 11 15-25 27-37 (57)
No 1
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=100.00 E-value=1.9e-45 Score=323.95 Aligned_cols=226 Identities=32% Similarity=0.631 Sum_probs=197.6
Q ss_pred EEEEeCCeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCc
Q 048313 8 HFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCK 87 (252)
Q Consensus 8 ~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~ 87 (252)
++..++++|+||+|++.+ .+||+||.+||++|++|..++.++||.||.+++..|+++||++++++.++|+|..+||+
T Consensus 41 ~~~~~~~lleCPvC~~~l---~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~ 117 (299)
T KOG3002|consen 41 VTLLDLDLLDCPVCFNPL---SPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCT 117 (299)
T ss_pred ccccchhhccCchhhccC---cccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCc
Confidence 356788999999999999 99999999999999999988889999999999999999999999999999999999999
Q ss_pred eeeccchHHhHhhhCcccCcCCCCC--CCCcccChhhHhhHhhcccCCCCe-----eEEeCcEEEEEEecc---CcEEEE
Q 048313 88 EKMSYSKKYDHGKACHHARCSCPLA--ACNFVGSFNQIYQHFRGVHKHAAE-----EFVYDKVLRITLSVH---HDLIFL 157 (252)
Q Consensus 88 ~~~~~~~~~~H~~~C~~~p~~CP~~--gC~~~g~~~~L~~Hl~~~H~~~~~-----~~~y~~~~~~~l~~~---~~~~vl 157 (252)
+.++|.+..+||+.|.|+|+.||.+ .|+|.|..++|..|+...|+..+. .+.+.......+... ..+.+.
T Consensus 118 ~~~~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (299)
T KOG3002|consen 118 KSFPYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVC 197 (299)
T ss_pred eeeccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeec
Confidence 9999999999999999999999999 899999999999999999999886 344443332222222 233444
Q ss_pred EEeeCCcEEEEecCCCCcccEEEEEeecCC--CCCCeEEEEEEeeCCCeEEEeeeeeeecc-cccCCCCCcceeEEcCcc
Q 048313 158 QEEKNGDLFILNNSTEPHGYRISVNCIAPP--CKGGIVYSIVAKSGGAAYKFNSCTKSIQN-WDENNPPSVASLLVPSDF 234 (252)
Q Consensus 158 ~~~~~~~lFll~~~~~~~g~~vsv~cIgp~--~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~-~~~~~~~~~~fL~VP~~~ 234 (252)
.+..++.+|.++...++.|.+++|++|.|. ++++|+|+|.+.+++++|+||+.+.++.+ ++ ...|..+||+||.++
T Consensus 198 ~~~~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs-~~~p~~dfm~ip~~~ 276 (299)
T KOG3002|consen 198 FGREFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVS-KVRPEDDFMLIPRSL 276 (299)
T ss_pred CcEEEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccc-eeccCCCceeccHHH
Confidence 566788899999999999999999999987 99999999999999999999999988654 33 257999999999987
Q ss_pred cCC
Q 048313 235 FGS 237 (252)
Q Consensus 235 l~~ 237 (252)
+..
T Consensus 277 ~~~ 279 (299)
T KOG3002|consen 277 LCL 279 (299)
T ss_pred hhc
Confidence 754
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=99.97 E-value=7.1e-33 Score=233.40 Aligned_cols=183 Identities=28% Similarity=0.485 Sum_probs=116.9
Q ss_pred cchhHHHhheeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCC--CCCCcccChhhHhhHhhcccCCCCeeEEe
Q 048313 63 SRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPL--AACNFVGSFNQIYQHFRGVHKHAAEEFVY 140 (252)
Q Consensus 63 ~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~--~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y 140 (252)
.||++||++++++++||+|+.+||++.++|.++.+||++|+|+|+.||. .+|+|.|+.++|..|+...|.|.+....+
T Consensus 1 iR~~alE~v~~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H~~~~~~~~~ 80 (198)
T PF03145_consen 1 IRNRALEKVAESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKHSWNVTDNGT 80 (198)
T ss_dssp --------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHTTTSEEEESS
T ss_pred CCcHHHHHHHhhceecCCCCCCCCcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHCCCccccCcc
Confidence 4899999999999999999999999999999999999999999999999 78999999999999999999998765332
Q ss_pred Cc-EEEEEEeccC--cEEEEEE-eeCCcEEEEecCC-C--CcccEE-EEEeecCC-CCCCeEEEEEEeeCCCeEEEeeee
Q 048313 141 DK-VLRITLSVHH--DLIFLQE-EKNGDLFILNNST-E--PHGYRI-SVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCT 211 (252)
Q Consensus 141 ~~-~~~~~l~~~~--~~~vl~~-~~~~~lFll~~~~-~--~~g~~v-sv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~ 211 (252)
.. .+........ ...+++. +++|.+|+|++.. + ..+.++ .|++||+. +|++|+|+|++.+++++|.||+.+
T Consensus 81 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~F~l~~~~~~~~~~~v~~~~v~~~G~~~~a~~f~Yel~~~~~~rkl~~~~~p 160 (198)
T PF03145_consen 81 FSISFLHSDINSVESPDWVLVQFSCFGKLFLLYVQKFELEGNAVYFAVVCYIGPAEEASNFSYELEVRSNGRKLTWQSFP 160 (198)
T ss_dssp -EEEEEECTTT-SSSEEEEEEE-EETTEEEEEEEEEEEEETEEEEEEEEEESS-HHHHTTEEEEEEEEETTEEEEEEE--
T ss_pred ceEEEeeecccccCCceEEEeecccCCccEEEEEEEEccCCceEEEEEEEEccCchhhhceEEEEEEecCCcEEEEEEcC
Confidence 11 1211111111 2233333 7899999999642 2 333444 45677888 999999999999999999999999
Q ss_pred eeecccccCC-CCCcceeEEcC---cccCCCCceeEEEE
Q 048313 212 KSIQNWDENN-PPSVASLLVPS---DFFGSYGQLNLEVR 246 (252)
Q Consensus 212 ~~i~~~~~~~-~~~~~fL~VP~---~~l~~~~~l~l~V~ 246 (252)
.++++ +.+. ..+.++|++.. .+|.++|.|.++|+
T Consensus 161 ~si~~-~~~~~~~~~d~li~~~~~~~~f~~~~~L~~~v~ 198 (198)
T PF03145_consen 161 RSIRE-DIDDAIESRDCLIINENAAQFFSEDGNLRYRVT 198 (198)
T ss_dssp EETTT--SHHHHHCT-SEEEEHHHHHHHECTTEEEEEEE
T ss_pred cchhh-hHHhhccCCcEEEEchHHHHhcCCCCeEEEEeC
Confidence 99986 3332 34556777765 57888899999886
No 3
>cd03829 Sina Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins that function as E3 ubiquitin ligases, acting either as single proteins or as a part of multiprotein complexes. Sina is expressed in many cells in the developing eye but is essential specifically for R7 photoreceptor cell development. Sina cooperates with Phyllopod (Phyl), Ebi and the E2 ubiquitin-conjugating enzyme Ubcd1 to catalyze the ubiquitination and subsequent degradation of Tramtrack (Ttk88); Ttk88 is a transcriptional repressor that blocks photoreceptor differentiation. Similarly, the mammalian homologue Siah1 cooperates with SIP (Siah-interacting protein), Ebi and the adaptor protein Skp1, to target beta-catenin for ubiquitination and degradation via a p53-dependent mechanism. SINAT5 targets NAC1 for ubiquitin-medi
Probab=99.50 E-value=8.1e-15 Score=111.33 Aligned_cols=97 Identities=14% Similarity=0.205 Sum_probs=82.4
Q ss_pred cEEEEEEeeCCcEEEEecCCCCc-c----cEEEEEeecCC-CCCCeEEEEEEeeCCCeEEEeeeeeeecccccCCCCCcc
Q 048313 153 DLIFLQEEKNGDLFILNNSTEPH-G----YRISVNCIAPP-CKGGIVYSIVAKSGGAAYKFNSCTKSIQNWDENNPPSVA 226 (252)
Q Consensus 153 ~~~vl~~~~~~~lFll~~~~~~~-g----~~vsv~cIgp~-~a~~f~Y~l~~~~~~~~l~~~s~~~~i~~~~~~~~~~~~ 226 (252)
.+.+.+..+.|+.|+|..++..+ | .+..|+.||+. +|.+|+|.|++.+++|+|+||++|+||++.......+.|
T Consensus 22 ~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~RkL~we~~PRSIrds~~~~~~~~D 101 (127)
T cd03829 22 TDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRRRLTWEATPRSIREGHASVIDNSD 101 (127)
T ss_pred eeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCcEEEeecCCccHHHhhHHHhhcCc
Confidence 45566668999999999876655 2 47788999999 999999999999999999999999999984444477889
Q ss_pred eeEEcC---cccCCCCceeEEEEEec
Q 048313 227 SLLVPS---DFFGSYGQLNLEVRIQH 249 (252)
Q Consensus 227 fL~VP~---~~l~~~~~l~l~V~I~~ 249 (252)
+|++.. .+|+++|.+.|+|+|+.
T Consensus 102 ~Lii~~~~A~~Fs~~g~l~l~v~It~ 127 (127)
T cd03829 102 CLVFDTSIAQLFSENGNLGINVTISG 127 (127)
T ss_pred ceEEechHhhhccCCCccEEEEEecC
Confidence 999996 48899999999999963
No 4
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.42 E-value=1.2e-13 Score=127.47 Aligned_cols=119 Identities=22% Similarity=0.450 Sum_probs=104.1
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc----chhHHHhheeeeEeeccccCCCC
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS----RSIAMEKVLESIQVTCENEDHGC 86 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~----r~~~le~~~~~l~v~C~~~~~GC 86 (252)
++|.|++|..++ .+|+....|||.||..|+.++ ...||.|+..+... ...++.+.+.++.+.|.+...||
T Consensus 20 ~~l~C~~C~~vl---~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC 96 (391)
T KOG0297|consen 20 ENLLCPICMSVL---RDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGC 96 (391)
T ss_pred ccccCccccccc---cCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCc
Confidence 459999999999 999753479999999999885 36899999886532 34778999999999999999999
Q ss_pred ceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeE
Q 048313 87 KEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEF 138 (252)
Q Consensus 87 ~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~ 138 (252)
.|.+.+..++.|+..| .+.+||+. |+..+.++++.+|++.++.......
T Consensus 97 ~~~~~l~~~~~Hl~~c--~~~~C~~~-C~~~~~~~d~~~hl~~~C~~~~~~c 145 (391)
T KOG0297|consen 97 RADLELEALQGHLSTC--DPLKCPHR-CGVQVPRDDLEDHLEAECPRRSLKC 145 (391)
T ss_pred cccccHHHHHhHhccC--CcccCccc-cccccchHHHHHHHhcccccccccc
Confidence 9999999999999999 88999985 9999999999999988888766543
No 5
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.59 E-value=2e-08 Score=68.18 Aligned_cols=56 Identities=25% Similarity=0.568 Sum_probs=29.2
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhh-hcCCCCCCCcCCc---ccchhHHHhhe
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE-LMNKCPSCRLPIG---HSRSIAMEKVL 72 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~-~~~~CP~Cr~~~~---~~r~~~le~~~ 72 (252)
+.|.|++|...| +.|+..-.|.|+||+.|+.. +...||+|+.|.- ...|+.++.+|
T Consensus 6 ~lLrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 6 ELLRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp HTTS-SSS-S-----SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred HhcCCcHHHHHh---cCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence 357899999999 99987668999999999976 4568999999852 34566666553
No 6
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.46 E-value=1e-07 Score=64.65 Aligned_cols=50 Identities=24% Similarity=0.487 Sum_probs=38.1
Q ss_pred eEeeccccCCCCceeeccchHHhHhh-hCcccCcCCCCC--CCCcccChhhHhhH
Q 048313 75 IQVTCENEDHGCKEKMSYSKKYDHGK-ACHHARCSCPLA--ACNFVGSFNQIYQH 126 (252)
Q Consensus 75 l~v~C~~~~~GC~~~~~~~~~~~H~~-~C~~~p~~CP~~--gC~~~g~~~~L~~H 126 (252)
..++|+|. ||...+...++.+|++ +|+++++.||+. ||++++.+.+|.+|
T Consensus 8 ~~v~C~~~--cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 8 RPVPCPNG--CCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp SEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CEeeCCCC--CcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 46899985 7778899999999999 999999999994 99999999999988
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.40 E-value=1.3e-07 Score=59.68 Aligned_cols=35 Identities=34% Similarity=0.693 Sum_probs=26.7
Q ss_pred ecCCcccccCCCCceEEccCCceecccChhhhc-------CCCCCC
Q 048313 18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-------NKCPSC 56 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-------~~CP~C 56 (252)
||||.++| +.|+.. .|||.||.+|+.++. ..||.|
T Consensus 1 CpiC~~~~---~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF---KDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB----SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh---CCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 999875 899999999998851 257776
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.40 E-value=1.4e-07 Score=58.41 Aligned_cols=36 Identities=31% Similarity=0.654 Sum_probs=29.7
Q ss_pred ecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCC
Q 048313 18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSC 56 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~C 56 (252)
|+||.+.+ ..|+....|||+||..|+.++ ..+||.|
T Consensus 1 C~iC~~~~---~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDEL---RDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB----SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcc---cCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999 999777789999999999875 3688887
No 9
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.39 E-value=1.6e-07 Score=64.07 Aligned_cols=55 Identities=16% Similarity=0.199 Sum_probs=45.0
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhhee
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLE 73 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~ 73 (252)
.|.||||.+++ ..|+.. .+||+||..|+.++ ...||.|++++. ..++..+++.++
T Consensus 1 ~~~Cpi~~~~~---~~Pv~~-~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVM---KDPVIL-PSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcC---CCCEEC-CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHH
Confidence 37899999999 999864 89999999999875 468999999885 346777777654
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.34 E-value=1.9e-07 Score=77.41 Aligned_cols=44 Identities=25% Similarity=0.525 Sum_probs=38.0
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh-------------------cCCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-------------------MNKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-------------------~~~CP~Cr~~~~ 61 (252)
+.+.|+||.+.+ ++|+.. .|||.||..|+.+| ..+||.||.++.
T Consensus 17 ~~~~CpICld~~---~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQV---RDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcC---CCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 669999999999 999874 89999999999864 147999999875
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.32 E-value=2.2e-07 Score=60.77 Aligned_cols=43 Identities=37% Similarity=0.674 Sum_probs=36.2
Q ss_pred eeeecCCcccccCCCCceEEccCCce-ecccChhhh---cCCCCCCCcCCc
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
...|+||.+.. ..+++. +|||. +|..|..++ ...||+||.++.
T Consensus 2 ~~~C~iC~~~~---~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENP---RDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSB---SSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccC---CceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 46899999999 888876 89999 999999987 379999999875
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=2.4e-07 Score=75.26 Aligned_cols=46 Identities=30% Similarity=0.655 Sum_probs=36.2
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
..+.||||+...-. +.| +-..|||+||+.|+... ..+||+|++.++
T Consensus 130 ~~~~CPiCl~~~se-k~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 130 GTYKCPICLDSVSE-KVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cccCCCceecchhh-ccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 45899999999832 344 33589999999999874 479999998765
No 13
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.19 E-value=6.2e-07 Score=56.99 Aligned_cols=40 Identities=33% Similarity=0.575 Sum_probs=31.8
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCC
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCR 57 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr 57 (252)
.|+||.+.+.+ ...+....|||.||.+|+.++ ..+||+||
T Consensus 2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 59999999943 345566789999999999886 47999996
No 14
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.14 E-value=7.5e-07 Score=82.00 Aligned_cols=57 Identities=28% Similarity=0.479 Sum_probs=44.6
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheee
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLES 74 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~ 74 (252)
+.+.|+||.+.+ ..|+. -.|||.||..|+..+ ...||.|+..+. ..+|.+++++++.
T Consensus 25 ~~l~C~IC~d~~---~~Pvi-tpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~ 87 (397)
T TIGR00599 25 TSLRCHICKDFF---DVPVL-TSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVES 87 (397)
T ss_pred cccCCCcCchhh---hCccC-CCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHH
Confidence 458999999999 99986 489999999999864 257999999875 2356666665553
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.12 E-value=9.1e-07 Score=56.29 Aligned_cols=41 Identities=37% Similarity=0.745 Sum_probs=32.1
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRL 58 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~ 58 (252)
+|++|++.+-++.+| +.-+|||+||..|+.++. ..||+|++
T Consensus 1 ~C~~C~~~~~~~~~~-~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRP-RLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCe-EEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 589999988332345 445899999999999874 58999985
No 16
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.3e-06 Score=73.88 Aligned_cols=46 Identities=22% Similarity=0.515 Sum_probs=40.4
Q ss_pred eCCeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCcCCc
Q 048313 12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRLPIG 61 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~~~~ 61 (252)
|-..|+|.||++.. ++||.+ .|||+||=.|+.+|. ..||+|+..++
T Consensus 44 ~~~~FdCNICLd~a---kdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA---KDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeecccc---CCCEEe-ecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 56679999999999 999986 699999999999872 57899998875
No 17
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.04 E-value=3.7e-07 Score=80.88 Aligned_cols=58 Identities=21% Similarity=0.579 Sum_probs=45.8
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc---ccchhHHHhheeee
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG---HSRSIAMEKVLESI 75 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~---~~r~~~le~~~~~l 75 (252)
+.|.|.||++.| +.|+.. +|||.||+-|+.+. +..||.|+.++. ...|+.++.++.++
T Consensus 22 ~lLRC~IC~eyf---~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 22 DLLRCGICFEYF---NIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred HHHHHhHHHHHh---cCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 568899999999 999886 79999999999874 479999998875 23355566655543
No 18
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.95 E-value=1.9e-06 Score=74.94 Aligned_cols=42 Identities=26% Similarity=0.516 Sum_probs=36.7
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPI 60 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~ 60 (252)
.+.|-||...+ +.|+.+ +|||.||+-|+... ++.||.||.+.
T Consensus 25 ~lrC~IC~~~i---~ip~~T-tCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 25 MLRCRICDCRI---SIPCET-TCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHHhhhhhhee---ecceec-ccccchhHHHHHHHhcCCCCCccccccH
Confidence 47899999999 999764 89999999999874 47899999875
No 19
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=97.95 E-value=3.3e-06 Score=59.70 Aligned_cols=58 Identities=17% Similarity=0.133 Sum_probs=43.2
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc---ccchhHHHhheee
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG---HSRSIAMEKVLES 74 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~---~~r~~~le~~~~~ 74 (252)
++.|.|||+.++| .+|+.. .+||+|+.+++.++ ...||.++.++. ..+|.+|.+.|+.
T Consensus 2 P~~f~CpIt~~lM---~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~ 66 (73)
T PF04564_consen 2 PDEFLCPITGELM---RDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEE 66 (73)
T ss_dssp SGGGB-TTTSSB----SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHH
T ss_pred CcccCCcCcCcHh---hCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHH
Confidence 5789999999999 999975 89999999999985 256999999876 4578888777654
No 20
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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 C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=97.92 E-value=6.1e-06 Score=51.39 Aligned_cols=36 Identities=33% Similarity=0.635 Sum_probs=30.6
Q ss_pred ecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCC
Q 048313 18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSC 56 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~C 56 (252)
|+||.+++ ..|+..-+|||.||..|+.++ ...||.|
T Consensus 1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999 899866689999999999875 2468876
No 21
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.89 E-value=4.9e-06 Score=71.72 Aligned_cols=46 Identities=24% Similarity=0.464 Sum_probs=35.6
Q ss_pred CeeeecCCcccccCCCCce------EEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSV------AECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi------~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
+..+|+||.+.+. .+++ ....|||.||..|+.++ ...||.||.++.
T Consensus 173 ~~~eC~ICle~~~--~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVY--DKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccc--cCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 4578999999872 2221 33479999999999886 378999999875
No 22
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=97.81 E-value=1e-05 Score=50.47 Aligned_cols=40 Identities=35% Similarity=0.744 Sum_probs=33.2
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcC
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLP 59 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~ 59 (252)
.|+||.+.+ ..++..-.|||.||..|+.++ ...||.|+..
T Consensus 1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 489999999 788776559999999999864 3579999875
No 23
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=8e-06 Score=71.18 Aligned_cols=47 Identities=26% Similarity=0.516 Sum_probs=39.4
Q ss_pred EeCCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 11 LCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 11 ~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
++....+|.+|.+.. ..|-- .+|||+||-+|+..| ...||.||..+.
T Consensus 235 i~~a~~kC~LCLe~~---~~pSa-TpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 235 IPEATRKCSLCLENR---SNPSA-TPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCCCceEEEecCC---CCCCc-CcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 345568999999999 89964 379999999999987 367999999765
No 24
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=97.58 E-value=2e-05 Score=53.18 Aligned_cols=43 Identities=19% Similarity=0.388 Sum_probs=34.6
Q ss_pred HhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCCCCeeEEe
Q 048313 98 HGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKHAAEEFVY 140 (252)
Q Consensus 98 H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~~~~y 140 (252)
|+++|+++++.||+.+|.....+.+|.+|+..++....+...|
T Consensus 1 H~~~C~~~~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~ 43 (60)
T PF02176_consen 1 HEEECPFRPVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPY 43 (60)
T ss_dssp HHTTSTTSEEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS
T ss_pred CcccCCCCEeeCCCCCcccceeHHHHHHHHHccCCCCcEECCC
Confidence 8889999999999877877789999999999999998877766
No 25
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.53 E-value=3.8e-05 Score=68.30 Aligned_cols=47 Identities=23% Similarity=0.383 Sum_probs=33.8
Q ss_pred CeeeecCCcccccCCCCce--EEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSV--AECGNGHIVCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi--~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
+...||+|..--+. .+-+ +.-.|||.||.+|+..+ ...||.|+.++.
T Consensus 2 d~~~CP~Ck~~~y~-np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYR-NPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCcc-CcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 45789999983211 4432 33369999999999984 358999998764
No 26
>PHA02926 zinc finger-like protein; Provisional
Probab=97.37 E-value=3.7e-05 Score=64.91 Aligned_cols=46 Identities=22% Similarity=0.438 Sum_probs=34.8
Q ss_pred CeeeecCCcccccCCC-------CceEEccCCceecccChhhhc---------CCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTL-------LSVAECGNGHIVCNRCCIELM---------NKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~-------~Pi~qc~~GH~~C~~C~~~~~---------~~CP~Cr~~~~ 61 (252)
+..+|+||.+..++ + .++. -.|+|.||-.|+.+|. ..||.||..+.
T Consensus 169 kE~eCgICmE~I~e-K~~~~eRrFGIL-~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYS-KRLENDRYFGLL-DSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCcccccc-cccccccccccc-CCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 45789999998743 2 1233 3799999999999874 23999999875
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=6.3e-05 Score=70.33 Aligned_cols=44 Identities=30% Similarity=0.637 Sum_probs=36.4
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhhh--------cCCCCCCCcCCcc
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--------MNKCPSCRLPIGH 62 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--------~~~CP~Cr~~~~~ 62 (252)
...||||+++. .-|..+ .|||+||..|+-.. ...||.|+..+..
T Consensus 186 ~~~CPICL~~~---~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPP---SVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCC---Cccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 68899999998 777765 69999999998652 2589999998764
No 28
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.32 E-value=0.0001 Score=44.15 Aligned_cols=35 Identities=31% Similarity=0.672 Sum_probs=28.9
Q ss_pred ecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCC
Q 048313 18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSC 56 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~C 56 (252)
|+||.+.. ..++.. .|||.||..|+.++ ...||.|
T Consensus 1 C~iC~~~~---~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999998 888765 89999999999864 2568876
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.24 E-value=0.0001 Score=46.58 Aligned_cols=30 Identities=27% Similarity=0.482 Sum_probs=18.4
Q ss_pred ecCCcccccC-CCCceEEccCCceecccChhhh
Q 048313 18 CFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL 49 (252)
Q Consensus 18 C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~ 49 (252)
||||.+ +.+ +.+|+.. .|||+||..|+.++
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l 31 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKL 31 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHH
Confidence 899999 622 3448876 69999999999986
No 30
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=6.6e-05 Score=64.76 Aligned_cols=45 Identities=22% Similarity=0.542 Sum_probs=37.2
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhh-hc----CCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE-LM----NKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~-~~----~~CP~Cr~~~~ 61 (252)
...+.|++|.+.. ..|... .|||+||-.|+.. +. ..||.||....
T Consensus 213 ~~d~kC~lC~e~~---~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 213 LADYKCFLCLEEP---EVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccceeeeeccc---CCcccc-cccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 4578999999999 899764 7999999999876 42 46999998653
No 31
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=97.20 E-value=0.00054 Score=48.36 Aligned_cols=54 Identities=22% Similarity=0.279 Sum_probs=39.1
Q ss_pred eeEEEEEEeCCeeeecCCcccccC---------CCCceEEccCCceecccChhhh---cCCCCCCC
Q 048313 4 FCVCHFVLCTTVLHCFISFSSFIF---------TLLSVAECGNGHIVCNRCCIEL---MNKCPSCR 57 (252)
Q Consensus 4 ~~~~~~~~~~~~l~C~iC~~~l~~---------~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr 57 (252)
..|.....|.+.-.|.||.+.+.| +.-++..-.|||.|-..|+.++ ...||+||
T Consensus 8 ~~v~~~~~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 8 NAVALWSWDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp EEEEEEEESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred EEEEEEeecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 345566677666679999999944 1234555469999999999985 47899997
No 32
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.03 E-value=0.00032 Score=67.45 Aligned_cols=52 Identities=23% Similarity=0.431 Sum_probs=46.2
Q ss_pred eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhc
Q 048313 74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRG 129 (252)
Q Consensus 74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~ 129 (252)
.-.+.|+| |.|.++..++..|+..|.|..+.||..||+....+.++.+|+..
T Consensus 405 ~~~V~C~N----C~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C 456 (567)
T PLN03086 405 VDTVECRN----CKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHC 456 (567)
T ss_pred CCeEECCC----CCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccC
Confidence 34678998 99999999999999999999999998789988888888888743
No 33
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.00013 Score=71.26 Aligned_cols=45 Identities=27% Similarity=0.666 Sum_probs=38.0
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCcc
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGH 62 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~ 62 (252)
..|.||+|..-. ++-+.. .|||.||..|+.+. +.+||.|..+||.
T Consensus 642 ~~LkCs~Cn~R~---Kd~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRW---KDAVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCch---hhHHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 468999999777 777664 89999999999874 4799999999874
No 34
>PLN03086 PRLI-interacting factor K; Provisional
Probab=97.00 E-value=0.00068 Score=65.22 Aligned_cols=116 Identities=14% Similarity=0.265 Sum_probs=65.1
Q ss_pred EeCCeeeecCCcccccCCCCceE-----EccCCceecc--cChhhh-------cCCCCCCCcCCcccchhHHHhheeeeE
Q 048313 11 LCTTVLHCFISFSSFIFTLLSVA-----ECGNGHIVCN--RCCIEL-------MNKCPSCRLPIGHSRSIAMEKVLESIQ 76 (252)
Q Consensus 11 ~~~~~l~C~iC~~~l~~~~~Pi~-----qc~~GH~~C~--~C~~~~-------~~~CP~Cr~~~~~~r~~~le~~~~~l~ 76 (252)
.+.+...|+.|.... ..--+ .|.---+.|. .|...+ ...|+.|...+.. ....-...+-...
T Consensus 403 ~~~~~V~C~NC~~~i---~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~-s~LekH~~~~Hkp 478 (567)
T PLN03086 403 MDVDTVECRNCKHYI---PSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQ-GEMEKHMKVFHEP 478 (567)
T ss_pred CCCCeEECCCCCCcc---chhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccch-HHHHHHHHhcCCC
Confidence 356677899998766 22111 2333333443 243322 1468888776642 1111111111345
Q ss_pred eeccccCCCCceeeccchHHhHhh-hCcccCcCCCCCCCCcccCh-----------hhHhhHhhcccCCCCeeE
Q 048313 77 VTCENEDHGCKEKMSYSKKYDHGK-ACHHARCSCPLAACNFVGSF-----------NQIYQHFRGVHKHAAEEF 138 (252)
Q Consensus 77 v~C~~~~~GC~~~~~~~~~~~H~~-~C~~~p~~CP~~gC~~~g~~-----------~~L~~Hl~~~H~~~~~~~ 138 (252)
+.|+ |+..+...++..|.. .|+.+|+.|++ |+....+ ..|..|... |......+
T Consensus 479 v~Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f--C~~~v~~g~~~~d~~d~~s~Lt~HE~~-CG~rt~~C 544 (567)
T PLN03086 479 LQCP-----CGVVLEKEQMVQHQASTCPLRLITCRF--CGDMVQAGGSAMDVRDRLRGMSEHESI-CGSRTAPC 544 (567)
T ss_pred ccCC-----CCCCcchhHHHhhhhccCCCCceeCCC--CCCccccCccccchhhhhhhHHHHHHh-cCCcceEc
Confidence 6776 766777777888866 68888888876 8776642 367778766 33333333
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00019 Score=62.49 Aligned_cols=59 Identities=25% Similarity=0.508 Sum_probs=42.4
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCcCC-cccchhHHHhheeee
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRLPI-GHSRSIAMEKVLESI 75 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~-~~~r~~~le~~~~~l 75 (252)
.+.+.||||.+.+ ..|.. =.|||.||..|+..+. ..||.||... ...+|..+.+++..+
T Consensus 11 ~~~~~C~iC~~~~---~~p~~-l~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~ 73 (386)
T KOG2177|consen 11 QEELTCPICLEYF---REPVL-LPCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERL 73 (386)
T ss_pred cccccChhhHHHh---hcCcc-ccccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHH
Confidence 4679999999999 88843 3699999999999864 6899999411 122455555544443
No 36
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=3.8e-05 Score=68.68 Aligned_cols=46 Identities=24% Similarity=0.438 Sum_probs=38.2
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCccc
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIGHS 63 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~~~ 63 (252)
.+.||||+..+ +..+..=.|+|.||..|+-+. .+.||.||+.+...
T Consensus 43 ~v~c~icl~ll---k~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 43 QVICPICLSLL---KKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhccHHHHHHH---HhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 37899999999 887765569999999999874 37899999987643
No 37
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.27 E-value=0.00094 Score=55.42 Aligned_cols=55 Identities=22% Similarity=0.385 Sum_probs=41.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc--ccchhHHHhheee
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG--HSRSIAMEKVLES 74 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~--~~r~~~le~~~~~ 74 (252)
|.|.||.+-+ +.||.. .|||.||+.|..+- ...|-+|....- ..-...+++++.+
T Consensus 197 F~C~iCKkdy---~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~~ 256 (259)
T COG5152 197 FLCGICKKDY---ESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLNK 256 (259)
T ss_pred eeehhchhhc---cchhhh-hcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHhh
Confidence 7899999999 999875 89999999997653 368999988652 2223445665543
No 38
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.23 E-value=0.0017 Score=41.85 Aligned_cols=42 Identities=26% Similarity=0.613 Sum_probs=21.0
Q ss_pred ecCCcccccC-CCCceEEccCCceecccChhhh----cCCCCCCCcCC
Q 048313 18 CFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPI 60 (252)
Q Consensus 18 C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~ 60 (252)
||+|.+.+ | +..-++-|+||.-+|..|+.++ .+.||.||++.
T Consensus 1 cp~C~e~~-d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEEL-DETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B---CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccc-ccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78898888 4 2223445999999999998875 36899999864
No 39
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.70 E-value=0.0069 Score=51.93 Aligned_cols=45 Identities=22% Similarity=0.438 Sum_probs=36.6
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhhcC-CCCCCCcCC
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMN-KCPSCRLPI 60 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~-~CP~Cr~~~ 60 (252)
+-.+|..|+.-- +..|.|...|+|+||..|.....+ .||.|++++
T Consensus 2 ~~VhCn~C~~~~--~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~i 47 (233)
T KOG4739|consen 2 DFVHCNKCFRFP--SQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSI 47 (233)
T ss_pred ceEEeccccccC--CCCceeeeechhhhhhhhcccCCcccccccccee
Confidence 456899888754 277888888999999999876544 999999986
No 40
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0093 Score=51.98 Aligned_cols=46 Identities=22% Similarity=0.349 Sum_probs=36.9
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~~ 61 (252)
.+.-+||+|.++. ..|...=.|||++|.-|+.+. .-.||.|.++..
T Consensus 237 t~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCC---CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4557899999999 888665459999999999873 248999998753
No 41
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.0074 Score=53.11 Aligned_cols=44 Identities=30% Similarity=0.594 Sum_probs=36.8
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS 63 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~ 63 (252)
+.|-||.+++ ..||.. .|||.||..|-.+. ...|++|.+.+...
T Consensus 242 f~c~icr~~f---~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 242 FKCFICRKYF---YRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred cccccccccc---ccchhh-cCCceeehhhhccccccCCcceecccccccc
Confidence 5799999999 999875 89999999997653 26899999987533
No 42
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.49 E-value=0.0037 Score=57.87 Aligned_cols=45 Identities=22% Similarity=0.490 Sum_probs=39.4
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
.+.|.|.||...+ .+|+.. +|||.+|..|+.+. ...||.||.++.
T Consensus 82 ~sef~c~vc~~~l---~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRAL---YPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhc---CCCccc-cccccccHHHHHHHhccCCCCcccccccc
Confidence 6779999999999 999886 99999999998774 368999999874
No 43
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.37 E-value=0.005 Score=41.33 Aligned_cols=38 Identities=21% Similarity=0.232 Sum_probs=25.3
Q ss_pred EEEeCCeeeecCCcccccCCCCceEEccCCceecccChhhh
Q 048313 9 FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL 49 (252)
Q Consensus 9 ~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~ 49 (252)
+.-..-.+.|||-..++ ..|+..-.|||+|-+..+..+
T Consensus 5 i~~~~~~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~ 42 (57)
T PF11789_consen 5 IEGGTISLKCPITLQPF---EDPVKSKKCGHTFEKEAILQY 42 (57)
T ss_dssp --SSB--SB-TTTSSB----SSEEEESSS--EEEHHHHHHH
T ss_pred EeccEeccCCCCcCChh---hCCcCcCCCCCeecHHHHHHH
Confidence 33345568999999999 999987679999999888775
No 44
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.34 E-value=0.0037 Score=55.89 Aligned_cols=52 Identities=21% Similarity=0.411 Sum_probs=40.3
Q ss_pred EEEEEeCCeeeecCCcccccC-CCCceEEccCCceecccChhhh----cCCCCCCCcCC
Q 048313 7 CHFVLCTTVLHCFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPI 60 (252)
Q Consensus 7 ~~~~~~~~~l~C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~ 60 (252)
|+-..|-+++ ||.|.+++ | +..-.+-|+||-.+|.-|+..+ .++||.||...
T Consensus 7 i~~sedeed~-cplcie~m-ditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 7 IHNSEDEEDY-CPLCIEPM-DITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred cccccccccc-Cccccccc-ccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 4456677777 99999998 3 2334567999999999999864 58999999754
No 45
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.01 E-value=0.0076 Score=53.10 Aligned_cols=55 Identities=24% Similarity=0.454 Sum_probs=41.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcC-C---cccchhHHHhhee
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLP-I---GHSRSIAMEKVLE 73 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~-~---~~~r~~~le~~~~ 73 (252)
|.||.|...| +.|+.+-.|||.||..|+... ...||.|... + +..++...++.++
T Consensus 275 LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE 337 (427)
T COG5222 275 LKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVE 337 (427)
T ss_pred ccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhccCccHHHHHHHH
Confidence 8999999999 999887448999999999863 3689999763 2 2445554444443
No 46
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=94.98 E-value=0.013 Score=42.44 Aligned_cols=42 Identities=19% Similarity=0.226 Sum_probs=30.7
Q ss_pred ecCCcccccCCCCceEEccCCceecccChhhh------cCCCCCCCcCCc
Q 048313 18 CFISFSSFIFTLLSVAECGNGHIVCNRCCIEL------MNKCPSCRLPIG 61 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~------~~~CP~Cr~~~~ 61 (252)
||.|..|- | .-|+....|+|.|=..|+.++ ++.||.||++..
T Consensus 35 Cp~Ck~Pg-d-~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 35 CPDCKFPG-D-DCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCccCCC-C-CCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 45555444 1 336677789999999999885 378999999754
No 47
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.01 Score=57.49 Aligned_cols=42 Identities=24% Similarity=0.494 Sum_probs=34.9
Q ss_pred eeeecCCcccccCCCC-----ceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313 15 VLHCFISFSSFIFTLL-----SVAECGNGHIVCNRCCIEL---MNKCPSCRLPI 60 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~-----Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~ 60 (252)
.-.|+||.+.| .. |... .|||+|+..|+.+| +..||+||..+
T Consensus 291 ~~~C~IC~e~l---~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 291 DELCIICLEEL---HSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred CCeeeeechhh---cccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 56899999999 55 5555 78999999999886 48999999944
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.33 E-value=0.017 Score=51.10 Aligned_cols=42 Identities=26% Similarity=0.482 Sum_probs=35.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
-+|+||+.-. .-|+.. .|+|.||.-|+.-. ...|++||.++.
T Consensus 8 ~eC~IC~nt~---n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 8 KECLICYNTG---NCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred CcceeeeccC---CcCccc-cccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 4799999998 788764 79999999999863 256999999885
No 49
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.14 E-value=0.0098 Score=52.27 Aligned_cols=41 Identities=32% Similarity=0.610 Sum_probs=35.2
Q ss_pred eeeecCCcccccCCCCceEEccCCc-eecccChhhhcCCCCCCCcCC
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGH-IVCNRCCIELMNKCPSCRLPI 60 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH-~~C~~C~~~~~~~CP~Cr~~~ 60 (252)
...|.||+... .+-++. +||| +.|..|-.++ +.||+||+.+
T Consensus 300 ~~LC~ICmDaP---~DCvfL-eCGHmVtCt~CGkrm-~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFL-ECGHMVTCTKCGKRM-NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCC---cceEEe-ecCcEEeehhhcccc-ccCchHHHHH
Confidence 46799999999 777776 8999 6899999888 6999999865
No 50
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.05 E-value=0.0071 Score=53.99 Aligned_cols=58 Identities=14% Similarity=0.405 Sum_probs=42.4
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCccc-------chhHHHhheee
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIGHS-------RSIAMEKVLES 74 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~~~-------r~~~le~~~~~ 74 (252)
....|.+|..+| .++...-.|=|.||.+|+-+. ...||.|...+... .++.|+.++.+
T Consensus 14 ~~itC~LC~GYl---iDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyK 81 (331)
T KOG2660|consen 14 PHITCRLCGGYL---IDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYK 81 (331)
T ss_pred cceehhhcccee---ecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHH
Confidence 446899999999 666655578999999999773 47899999876532 24555555444
No 51
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.02 E-value=0.0039 Score=40.99 Aligned_cols=42 Identities=36% Similarity=0.712 Sum_probs=31.2
Q ss_pred eeecCCcccccCCCCceEEccCCce-ecccChhhh----cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
-+|-||++-. .+.+.. .|||. .|..|-.++ .+.||+||.++.
T Consensus 8 dECTICye~p---vdsVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHP---VDSVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCc---chHHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4799999877 455543 57995 899996553 478999998864
No 52
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.88 E-value=0.023 Score=51.31 Aligned_cols=43 Identities=35% Similarity=0.672 Sum_probs=36.3
Q ss_pred eeeecCCcccccCCCCceEEccCCce-ecccChhhh---cCCCCCCCcCCc
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHI-VCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~-~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
--+|-||..-. ++-+.. +|.|. .|+.|-..+ .++||+||.++.
T Consensus 290 gkeCVIClse~---rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSES---RDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCeeEEEecCC---cceEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 46899999988 777665 89995 999998876 378999999875
No 53
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.86 E-value=0.02 Score=44.67 Aligned_cols=53 Identities=26% Similarity=0.531 Sum_probs=39.2
Q ss_pred EEEEEeCCeeeecCCcccccCC--CCceEEccCCceecccChhhh------cCCCCCCCcCCc
Q 048313 7 CHFVLCTTVLHCFISFSSFIFT--LLSVAECGNGHIVCNRCCIEL------MNKCPSCRLPIG 61 (252)
Q Consensus 7 ~~~~~~~~~l~C~iC~~~l~~~--~~Pi~qc~~GH~~C~~C~~~~------~~~CP~Cr~~~~ 61 (252)
+-+..|+..++|.||.+.-.|+ ..|- .| ||-.+|..|...+ .+.||+|+..+.
T Consensus 72 mnvF~d~~lYeCnIC~etS~ee~FLKPn-eC-CgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 72 MNVFLDPKLYECNICKETSAEERFLKPN-EC-CGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred heeecCCCceeccCcccccchhhcCCcc-cc-cchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 3445678999999999987331 1231 33 7999999998874 379999998764
No 54
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.31 E-value=0.05 Score=48.19 Aligned_cols=45 Identities=31% Similarity=0.474 Sum_probs=36.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh----cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
.+|.||.+-++- .+-+..-+|.|.|=.+|+++| .++||+||.++.
T Consensus 324 veCaICms~fiK-~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSNFIK-NDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhhhcc-cceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 689999988743 344555679999999999997 379999999864
No 55
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=92.71 E-value=0.11 Score=34.44 Aligned_cols=41 Identities=29% Similarity=0.541 Sum_probs=28.1
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~ 61 (252)
.|-.|...- ++.++. +|||++|..|+.-. -+-||.|..++.
T Consensus 9 ~~~~~~~~~--~~~~~~--pCgH~I~~~~f~~~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 9 PCVFCGFVG--TKGTVL--PCGHLICDNCFPGERYNGCPFCGTPFE 50 (55)
T ss_pred eEEEccccc--cccccc--cccceeeccccChhhccCCCCCCCccc
Confidence 344455443 133433 68999999998754 278999999875
No 56
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=92.29 E-value=0.038 Score=38.57 Aligned_cols=47 Identities=28% Similarity=0.480 Sum_probs=18.6
Q ss_pred eeeecCCccccc-CCCCceEEcc---CCceecccChhhh--------------cCCCCCCCcCCc
Q 048313 15 VLHCFISFSSFI-FTLLSVAECG---NGHIVCNRCCIEL--------------MNKCPSCRLPIG 61 (252)
Q Consensus 15 ~l~C~iC~~~l~-~~~~Pi~qc~---~GH~~C~~C~~~~--------------~~~CP~Cr~~~~ 61 (252)
.++|+||+..+. +...|...|. |+..|=..|+.++ .+.||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999874 2244667774 6666666777664 145888888765
No 57
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=92.19 E-value=0.025 Score=51.83 Aligned_cols=45 Identities=27% Similarity=0.446 Sum_probs=34.9
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhhc-----CCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-----NKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-----~~CP~Cr~~~~ 61 (252)
...-.|.||.+-= ++- ..=+|||+.|..|+..|+ +.||.||..+.
T Consensus 367 sTFeLCKICaend---Kdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 367 STFELCKICAEND---KDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred chHHHHHHhhccC---CCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 3334599999887 663 333799999999999874 57999998874
No 58
>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=92.15 E-value=0.12 Score=34.05 Aligned_cols=49 Identities=24% Similarity=0.535 Sum_probs=33.7
Q ss_pred eeccccCCCCceeeccchHHhHhhhCc---ccCcCCCCCCCCcccChhhHhhHhhcccC
Q 048313 77 VTCENEDHGCKEKMSYSKKYDHGKACH---HARCSCPLAACNFVGSFNQIYQHFRGVHK 132 (252)
Q Consensus 77 v~C~~~~~GC~~~~~~~~~~~H~~~C~---~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~ 132 (252)
+.||+ |++.+....+..|...-- -..+.||. |.... ..+|..|+...|.
T Consensus 3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~~-~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI--CSSRV-TDNLIRHLNSQHR 54 (54)
T ss_pred cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC--chhhh-hhHHHHHHHHhcC
Confidence 56887 777777777777764321 23578986 87653 4589999988774
No 59
>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=91.93 E-value=0.1 Score=42.08 Aligned_cols=36 Identities=22% Similarity=0.515 Sum_probs=29.0
Q ss_pred HHhHhhhCcccCcCCCCCCCCcccChhhHhhHhhcccCC
Q 048313 95 KYDHGKACHHARCSCPLAACNFVGSFNQIYQHFRGVHKH 133 (252)
Q Consensus 95 ~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~~~H~~ 133 (252)
.+.|++ -.+-.|+..+|.|.|.+.+|..|.+.+|..
T Consensus 99 AR~~LN---~K~RsC~~e~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 99 ARRFLN---AKKRSCSQESCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred HHHHhc---cCCccCcccccccccCHHHHHHHHHhhCCC
Confidence 444543 355678888999999999999999999985
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.62 E-value=0.049 Score=49.10 Aligned_cols=110 Identities=20% Similarity=0.395 Sum_probs=63.1
Q ss_pred eCCeeeecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCCCcCCcc---cc--hhHHHhheeeeEeec-c
Q 048313 12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPIGH---SR--SIAMEKVLESIQVTC-E 80 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~~~---~r--~~~le~~~~~l~v~C-~ 80 (252)
|-+.-.|.||..-+ .-.-. -+|||..|..|--++ +..||.||..... +. ...+.. ...-| .
T Consensus 58 DEen~~C~ICA~~~---TYs~~-~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~fT~~~~~DI~D----~~~~k~~ 129 (493)
T COG5236 58 DEENMNCQICAGST---TYSAR-YPCGHQICHACAVRLRALYMQKGCPLCRTETEAVVFTASSPADITD----RRQWKGR 129 (493)
T ss_pred ccccceeEEecCCc---eEEEe-ccCCchHHHHHHHHHHHHHhccCCCccccccceEEEecCCCCcchh----Hhhhccc
Confidence 55667899999888 32212 269999999997764 4789999986431 11 111110 00011 2
Q ss_pred ccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCccc-ChhhHhhHhhcccCC
Q 048313 81 NEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVG-SFNQIYQHFRGVHKH 133 (252)
Q Consensus 81 ~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~ 133 (252)
+.+.| +.|.+-..-++.=..-...||...|..+- ...+|..|++.+|..
T Consensus 130 ~EK~G----I~y~~E~v~~E~~~LL~F~CP~skc~~~C~~~k~lk~H~K~~H~~ 179 (493)
T COG5236 130 EEKVG----IFYEGEDVRDEMEDLLSFKCPKSKCHRRCGSLKELKKHYKAQHGF 179 (493)
T ss_pred cccee----eeecchHHHHHHHHHHHhcCCchhhhhhhhhHHHHHHHHHhhcCc
Confidence 22222 34444333333333344678877544332 368999999998874
No 61
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=89.96 E-value=0.25 Score=32.31 Aligned_cols=38 Identities=29% Similarity=0.643 Sum_probs=21.3
Q ss_pred eecCCcccccCCCC--------ceEEcc-CCceecccChh---hhcCCCCCCC
Q 048313 17 HCFISFSSFIFTLL--------SVAECG-NGHIVCNRCCI---ELMNKCPSCR 57 (252)
Q Consensus 17 ~C~iC~~~l~~~~~--------Pi~qc~-~GH~~C~~C~~---~~~~~CP~Cr 57 (252)
.|--|..++ .. ..|+|+ |++.||-.|=. .....||-|.
T Consensus 1 ~CfgC~~~~---~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 1 YCFGCQKPF---PDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp EETTTTEE----TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCccCCCCC---CCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 366788888 44 469998 89999999932 2237999884
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=89.95 E-value=0.087 Score=50.02 Aligned_cols=46 Identities=17% Similarity=0.383 Sum_probs=38.0
Q ss_pred eCCeeeecCCcccccCCCCceEEccCCceecccChhhh--------cCCCCCCCcCCc
Q 048313 12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--------MNKCPSCRLPIG 61 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--------~~~CP~Cr~~~~ 61 (252)
+.....|.+|.++. +++|. ..|-|.||.-|+... .-.||+|..++.
T Consensus 533 nk~~~~C~lc~d~a---ed~i~-s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPA---EDYIE-SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChh---hhhHh-hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 45668999999999 99975 489999999999652 358999998764
No 63
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=89.75 E-value=0.34 Score=32.47 Aligned_cols=37 Identities=27% Similarity=0.572 Sum_probs=24.9
Q ss_pred eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccC
Q 048313 74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGS 119 (252)
Q Consensus 74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~ 119 (252)
...++||| |++.+.+.-..--+. -.+|.||. |+|+|+
T Consensus 25 ~v~F~CPn----CGe~~I~Rc~~CRk~---g~~Y~Cp~--CGF~GP 61 (61)
T COG2888 25 AVKFPCPN----CGEVEIYRCAKCRKL---GNPYRCPK--CGFEGP 61 (61)
T ss_pred eeEeeCCC----CCceeeehhhhHHHc---CCceECCC--cCccCC
Confidence 45789998 887666655432221 36789985 999884
No 64
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.45 E-value=0.13 Score=46.60 Aligned_cols=45 Identities=18% Similarity=0.391 Sum_probs=35.9
Q ss_pred eCCeeeecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCcCC
Q 048313 12 CTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRLPI 60 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~ 60 (252)
|.++-.||||+--- -..+++ +|||.-|+.|+.+.. +.|-.|+..+
T Consensus 419 ~sEd~lCpICyA~p---i~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 419 DSEDNLCPICYAGP---INAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred CcccccCcceeccc---chhhcc-CCCCchHHHHHHHHHhcCCeeeEeccee
Confidence 56677899998766 577887 999999999999852 5677787754
No 65
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=88.03 E-value=0.22 Score=34.65 Aligned_cols=38 Identities=24% Similarity=0.544 Sum_probs=23.6
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh--cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL--MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~--~~~CP~Cr~~~~ 61 (252)
+.||.|..+| .+ ..|+..|..|-... ...||.|..++.
T Consensus 2 ~~CP~C~~~L---~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQEL---EW-----QGGHYHCEACQKDYKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBE---EE-----ETTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred CcCCCCCCcc---EE-----eCCEEECccccccceecccCCCcccHHH
Confidence 6899999999 32 34899999998763 378999999875
No 66
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.48 E-value=0.11 Score=52.54 Aligned_cols=46 Identities=26% Similarity=0.490 Sum_probs=34.9
Q ss_pred eeecCCccccc--CCCCceEEcc-CCceecccChhhh-----cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFI--FTLLSVAECG-NGHIVCNRCCIEL-----MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~--~~~~Pi~qc~-~GH~~C~~C~~~~-----~~~CP~Cr~~~~ 61 (252)
=+|+||+.++- |.+-|-..|. |-|-|=.+|+-|| ..+||.||..++
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 36999999881 1224666776 8888888998887 378999998764
No 67
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.93 E-value=0.35 Score=41.77 Aligned_cols=45 Identities=18% Similarity=0.318 Sum_probs=35.9
Q ss_pred CeeeecCCcccccCCCCce---EEccCCceecccChhhhc---CCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSV---AECGNGHIVCNRCCIELM---NKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi---~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~~ 61 (252)
..+.||+|...| ...+ +.-++||++|..|.+++. ..||+|..++.
T Consensus 220 ~ryiCpvtrd~L---tNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTL---TNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhh---cCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 569999999999 5432 333689999999999973 57999988875
No 68
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=86.87 E-value=0.28 Score=26.38 Aligned_cols=23 Identities=26% Similarity=0.703 Sum_probs=17.4
Q ss_pred CCCCCCCCcccChhhHhhHhhcccC
Q 048313 108 SCPLAACNFVGSFNQIYQHFRGVHK 132 (252)
Q Consensus 108 ~CP~~gC~~~g~~~~L~~Hl~~~H~ 132 (252)
.|+. |+|.....+|..|++..|.
T Consensus 2 ~C~~--C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 2 KCPH--CSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp E-SS--SS-EESHHHHHHHHHHHHS
T ss_pred CCCC--CCCcCCHHHHHHHHHhhCc
Confidence 5764 9999888999999988774
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.37 E-value=0.28 Score=44.51 Aligned_cols=46 Identities=26% Similarity=0.503 Sum_probs=33.7
Q ss_pred EeCCeeeecCCcccccCCCCceEEccCCceec-ccChhhhcCCCCCCCcCCc
Q 048313 11 LCTTVLHCFISFSSFIFTLLSVAECGNGHIVC-NRCCIELMNKCPSCRLPIG 61 (252)
Q Consensus 11 ~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C-~~C~~~~~~~CP~Cr~~~~ 61 (252)
.++....|.||.+-. ++-++. +|||+-| -.|...+ .+||+||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~---~~~~fv-pcGh~ccct~cs~~l-~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEP---KSAVFV-PCGHVCCCTLCSKHL-PQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCc---cceeee-cCCcEEEchHHHhhC-CCCchhHHHHH
Confidence 345567899999988 787776 8999865 2333344 67999998764
No 70
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.32 E-value=0.43 Score=43.87 Aligned_cols=44 Identities=20% Similarity=0.283 Sum_probs=34.3
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhhc------CCCCCCCc
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM------NKCPSCRL 58 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~------~~CP~Cr~ 58 (252)
..|.|||=.+---|+.||+.. .|||+++..=+.++. -+||.|-.
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 568999988877777889765 899999999888863 35666644
No 71
>PF04641 Rtf2: Rtf2 RING-finger
Probab=86.30 E-value=0.61 Score=40.90 Aligned_cols=49 Identities=22% Similarity=0.290 Sum_probs=37.3
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhhc--CCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM--NKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~--~~CP~Cr~~~~ 61 (252)
...|.|||....|-+...=++.=+|||+|+..++..+. ..||.|..++.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFT 161 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCccc
Confidence 56799999999992211123444699999999999884 47999999976
No 72
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=85.73 E-value=1.1 Score=29.99 Aligned_cols=37 Identities=27% Similarity=0.670 Sum_probs=22.5
Q ss_pred eeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCCCCCcccC
Q 048313 74 SIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLAACNFVGS 119 (252)
Q Consensus 74 ~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~ 119 (252)
...+.||| |++.+.+.-.+--+ .-.+|.||. |+|+|+
T Consensus 23 ~~~F~CPn----CG~~~I~RC~~CRk---~~~~Y~CP~--CGF~GP 59 (59)
T PRK14890 23 AVKFLCPN----CGEVIIYRCEKCRK---QSNPYTCPK--CGFEGP 59 (59)
T ss_pred cCEeeCCC----CCCeeEeechhHHh---cCCceECCC--CCCcCc
Confidence 35678887 77763333222111 236789985 999884
No 73
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.42 E-value=0.41 Score=43.71 Aligned_cols=46 Identities=22% Similarity=0.434 Sum_probs=34.6
Q ss_pred CCeeeecCCcccccCCCCce-----E--EccCCceecccChhhhc----------CCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTLLSV-----A--ECGNGHIVCNRCCIELM----------NKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi-----~--qc~~GH~~C~~C~~~~~----------~~CP~Cr~~~~ 61 (252)
.....|.||.+..++ +. + .-.|-|.||..|+.+|. ..||.||.+..
T Consensus 159 s~~k~CGICme~i~e---k~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINE---KAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccc---cchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 345789999999843 33 2 12578999999998863 57999998765
No 74
>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=84.78 E-value=0.7 Score=37.33 Aligned_cols=55 Identities=24% Similarity=0.521 Sum_probs=43.4
Q ss_pred CCCCCCcCC-cccchhHHHhheeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCC
Q 048313 52 KCPSCRLPI-GHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCP 110 (252)
Q Consensus 52 ~CP~Cr~~~-~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP 110 (252)
.||.||..+ +.+-....++.++.-+=.|... +|...++|.++++|.+. --|..-|
T Consensus 82 ~CPLCRG~V~GWtvve~AR~~LN~K~RsC~~e--~C~F~GtY~eLrKHar~--~HP~~rP 137 (162)
T PF07800_consen 82 ACPLCRGEVKGWTVVEPARRFLNAKKRSCSQE--SCSFSGTYSELRKHARS--EHPSARP 137 (162)
T ss_pred cCccccCceeceEEchHHHHHhccCCccCccc--ccccccCHHHHHHHHHh--hCCCCCC
Confidence 599999986 4555566788888888899865 99999999999999874 2344444
No 75
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=84.51 E-value=0.28 Score=45.63 Aligned_cols=30 Identities=20% Similarity=0.345 Sum_probs=27.1
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCI 47 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~ 47 (252)
+.|.||||...+ +.||.. +|||..|..|-.
T Consensus 3 eelkc~vc~~f~---~epiil-~c~h~lc~~ca~ 32 (699)
T KOG4367|consen 3 EELKCPVCGSFY---REPIIL-PCSHNLCQACAR 32 (699)
T ss_pred ccccCceehhhc---cCceEe-ecccHHHHHHHH
Confidence 569999999999 999987 899999999964
No 76
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=83.76 E-value=0.7 Score=41.24 Aligned_cols=77 Identities=19% Similarity=0.313 Sum_probs=51.7
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCcee-ecc
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEK-MSY 92 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~-~~~ 92 (252)
+-.|.-|..++ ..-=..=.|-|+||-.|-..- .+.||.|..++ .-+|+....-.+-|. ...||..+ +.-
T Consensus 90 VHfCd~Cd~PI---~IYGRmIPCkHvFCl~CAr~~~dK~Cp~C~d~V-----qrIeq~~~g~iFmC~-~~~GC~RTyLsq 160 (389)
T KOG2932|consen 90 VHFCDRCDFPI---AIYGRMIPCKHVFCLECARSDSDKICPLCDDRV-----QRIEQIMMGGIFMCA-APHGCLRTYLSQ 160 (389)
T ss_pred eEeecccCCcc---eeeecccccchhhhhhhhhcCccccCcCcccHH-----HHHHHhcccceEEee-cchhHHHHHhhH
Confidence 34588888877 432223468999999996432 36899998754 345555555556677 56788864 566
Q ss_pred chHHhHhh
Q 048313 93 SKKYDHGK 100 (252)
Q Consensus 93 ~~~~~H~~ 100 (252)
.|++.|..
T Consensus 161 rDlqAHIn 168 (389)
T KOG2932|consen 161 RDLQAHIN 168 (389)
T ss_pred HHHHHHhh
Confidence 77777764
No 77
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=83.48 E-value=0.44 Score=44.47 Aligned_cols=43 Identities=19% Similarity=0.363 Sum_probs=34.1
Q ss_pred CeeeecCCcccccCCCCce---EEccCCceecccChhhhc-CCCCCCCcC
Q 048313 14 TVLHCFISFSSFIFTLLSV---AECGNGHIVCNRCCIELM-NKCPSCRLP 59 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi---~qc~~GH~~C~~C~~~~~-~~CP~Cr~~ 59 (252)
++-.||+|++-| .+.+ ..-.|.|.|=.+|..+|. ..||+||--
T Consensus 174 ELPTCpVCLERM---D~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~ 220 (493)
T KOG0804|consen 174 ELPTCPVCLERM---DSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYC 220 (493)
T ss_pred cCCCcchhHhhc---CccccceeeeecccccchHHHhhcccCcChhhhhh
Confidence 445799999999 4433 555689999999999974 689999864
No 78
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=83.09 E-value=0.47 Score=26.48 Aligned_cols=21 Identities=19% Similarity=0.050 Sum_probs=10.2
Q ss_pred ecCCcccccCCCCceEEcc-CCcee
Q 048313 18 CFISFSSFIFTLLSVAECG-NGHIV 41 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~-~GH~~ 41 (252)
||.|...+ ..-...|+ |||.|
T Consensus 3 CP~C~~~V---~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 3 CPECGAEV---PESAKFCPHCGYDF 24 (26)
T ss_pred CCCCcCCc---hhhcCcCCCCCCCC
Confidence 56665555 33333454 55543
No 79
>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=82.98 E-value=1 Score=29.53 Aligned_cols=28 Identities=21% Similarity=0.445 Sum_probs=24.0
Q ss_pred cCCCCCCCCcccChhhHhhHhhcccCCCCe
Q 048313 107 CSCPLAACNFVGSFNQIYQHFRGVHKHAAE 136 (252)
Q Consensus 107 ~~CP~~gC~~~g~~~~L~~Hl~~~H~~~~~ 136 (252)
+.||+ |+...+..+|..|+...|.....
T Consensus 3 f~CP~--C~~~~~~~~L~~H~~~~H~~~~~ 30 (54)
T PF05605_consen 3 FTCPY--CGKGFSESSLVEHCEDEHRSESK 30 (54)
T ss_pred cCCCC--CCCccCHHHHHHHHHhHCcCCCC
Confidence 68997 99877889999999999997654
No 80
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=82.96 E-value=0.6 Score=42.70 Aligned_cols=47 Identities=23% Similarity=0.518 Sum_probs=34.0
Q ss_pred CCeeeecCCcccccCC----------CCceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313 13 TTVLHCFISFSSFIFT----------LLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPI 60 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~----------~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~ 60 (252)
.++-.|.||.+-++.+ ..|-.. +|||++=-.|...| ++.||+||.|+
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcc
Confidence 3456799999886430 113333 78999988998776 58999999994
No 81
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=82.90 E-value=0.7 Score=25.41 Aligned_cols=22 Identities=32% Similarity=0.653 Sum_probs=14.8
Q ss_pred eeccccCCCCceeeccchHHhHhhhC
Q 048313 77 VTCENEDHGCKEKMSYSKKYDHGKAC 102 (252)
Q Consensus 77 v~C~~~~~GC~~~~~~~~~~~H~~~C 102 (252)
++|++ |+.++....+..|+..|
T Consensus 3 ~~C~~----CgR~F~~~~l~~H~~~C 24 (25)
T PF13913_consen 3 VPCPI----CGRKFNPDRLEKHEKIC 24 (25)
T ss_pred CcCCC----CCCEECHHHHHHHHHhc
Confidence 45664 77777777777777666
No 82
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.57 E-value=1 Score=40.01 Aligned_cols=60 Identities=22% Similarity=0.476 Sum_probs=39.5
Q ss_pred CeeeecCCcccccC---CCCceEEccCCceecccChhhhc----CCCCCCCcCCc--------ccchhHHHhheee
Q 048313 14 TVLHCFISFSSFIF---TLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG--------HSRSIAMEKVLES 74 (252)
Q Consensus 14 ~~l~C~iC~~~l~~---~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~--------~~r~~~le~~~~~ 74 (252)
..+.|-||.+.+-. ...|-.- .|||.+|..|..++. ..||.||.+.. ..+|.++-+.+..
T Consensus 2 ~~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~~~~~~~l~kNf~ll~~~~~ 76 (296)
T KOG4185|consen 2 SFPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETTEIPDGDVKSLQKNFALLQAIEH 76 (296)
T ss_pred CCCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcccCCchhHhhhhhhHHHHHHHHH
Confidence 45789999887621 1223222 489999999999863 46999999842 2345555555544
No 83
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.03 E-value=0.21 Score=49.60 Aligned_cols=42 Identities=21% Similarity=0.331 Sum_probs=31.0
Q ss_pred eecCCcccccC--CCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 17 HCFISFSSFIF--TLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~--~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
.||+|..-..| ...+ =.|+|.||..|+..| .+.||+||..+.
T Consensus 125 ~CP~Ci~s~~DqL~~~~---k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESE---KHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhHHHHHHHHHhhccc---cccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 58899877644 1112 147999999999876 379999998764
No 84
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.49 E-value=0.42 Score=44.41 Aligned_cols=33 Identities=21% Similarity=0.303 Sum_probs=22.2
Q ss_pred CeeeecCCc-ccccCCCCce--EEccCCceecccChhhh
Q 048313 14 TVLHCFISF-SSFIFTLLSV--AECGNGHIVCNRCCIEL 49 (252)
Q Consensus 14 ~~l~C~iC~-~~l~~~~~Pi--~qc~~GH~~C~~C~~~~ 49 (252)
....|.||. +.. ...- +...|||.||..|+.+.
T Consensus 145 ~~~~C~iC~~e~~---~~~~~f~~~~C~H~fC~~C~k~~ 180 (384)
T KOG1812|consen 145 PKEECGICFVEDP---EAEDMFSVLKCGHRFCKDCVKQH 180 (384)
T ss_pred ccccCccCccccc---cHhhhHHHhcccchhhhHHhHHH
Confidence 356899999 333 2211 22458999999999863
No 85
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=79.44 E-value=2.5 Score=26.93 Aligned_cols=37 Identities=19% Similarity=0.533 Sum_probs=28.9
Q ss_pred CCCCCCcCCcccchhHHHhheeeeEeeccccCCCCceee
Q 048313 52 KCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKM 90 (252)
Q Consensus 52 ~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~ 90 (252)
.||.|..+........+...+.++-..|.|.+ |++.+
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~--Cg~tf 37 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPE--CGHTF 37 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCc--CCCEE
Confidence 59999988765667778888999999999984 55443
No 86
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=78.49 E-value=1.3 Score=29.21 Aligned_cols=45 Identities=16% Similarity=0.201 Sum_probs=32.2
Q ss_pred CCeeeecCCcccccCCCCceEEcc-CCceecccChhhhcCCCCC--CCcC
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIELMNKCPS--CRLP 59 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~~~CP~--Cr~~ 59 (252)
...-.|++|.+.+.+ .+.+.+|+ ||-..=+.|+.+. +.|-. |..+
T Consensus 3 ~~~~~C~~Cg~~~~~-~dDiVvCp~CgapyHR~C~~~~-g~C~~~~c~~~ 50 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKD-GDDIVVCPECGAPYHRDCWEKA-GGCINYSCGTG 50 (54)
T ss_pred ccCccChhhCCcccC-CCCEEECCCCCCcccHHHHhhC-CceEeccCCCC
Confidence 345679999999955 57788887 8866667788776 56655 5544
No 87
>PHA00616 hypothetical protein
Probab=78.33 E-value=1.6 Score=27.61 Aligned_cols=33 Identities=21% Similarity=0.378 Sum_probs=25.8
Q ss_pred CcCCCCCCCCccc-ChhhHhhHhhcccCCCCeeEEe
Q 048313 106 RCSCPLAACNFVG-SFNQIYQHFRGVHKHAAEEFVY 140 (252)
Q Consensus 106 p~~CP~~gC~~~g-~~~~L~~Hl~~~H~~~~~~~~y 140 (252)
|+.||. ||... .+.+|..|+...|.....+..|
T Consensus 1 pYqC~~--CG~~F~~~s~l~~H~r~~hg~~~~~~~~ 34 (44)
T PHA00616 1 MYQCLR--CGGIFRKKKEVIEHLLSVHKQNKLTLEY 34 (44)
T ss_pred CCccch--hhHHHhhHHHHHHHHHHhcCCCccceeE
Confidence 568874 88776 4689999999999987665544
No 88
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=78.07 E-value=0.11 Score=33.55 Aligned_cols=45 Identities=27% Similarity=0.521 Sum_probs=32.5
Q ss_pred CeeeecCCcccccCCCCceEEcc-CCceecccChhhhcCCCCCCCcCC
Q 048313 14 TVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIELMNKCPSCRLPI 60 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~~~CP~Cr~~~ 60 (252)
+.+.|..|.... +..-..||. ||...|++|+..--..|-.|...+
T Consensus 6 sry~CDLCn~~~--p~~~LRQCvlCGRWaC~sCW~deYY~CksC~Gii 51 (57)
T PF14445_consen 6 SRYSCDLCNSSH--PISELRQCVLCGRWACNSCWQDEYYTCKSCNGII 51 (57)
T ss_pred hhHhHHhhcccC--cHHHHHHHhhhchhhhhhhhhhhHhHHHhhhchh
Confidence 346788888765 234568998 999999999986445677776543
No 89
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=77.77 E-value=1.3 Score=38.90 Aligned_cols=26 Identities=12% Similarity=0.231 Sum_probs=20.0
Q ss_pred eeeecCCcccccCCCCceEEccCCcee
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIV 41 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~ 41 (252)
.|.||+|..+|.- .+..+.|.+||.|
T Consensus 2 ~~~CP~C~~~l~~-~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTL-EENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhc-CCCEEEcCCCCCC
Confidence 3789999999922 2455789999986
No 90
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.49 E-value=1.3 Score=41.02 Aligned_cols=102 Identities=22% Similarity=0.451 Sum_probs=58.9
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh-----------cCCCCCCCcCCcc--------------cc--hh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----------MNKCPSCRLPIGH--------------SR--SI 66 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----------~~~CP~Cr~~~~~--------------~r--~~ 66 (252)
.+++|.||++-..+ ..-++.-+|+|+||.+|...- .-+||-+..+-.. .| ..
T Consensus 183 slf~C~ICf~e~~G-~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe~l 261 (445)
T KOG1814|consen 183 SLFDCCICFEEQMG-QHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYEKL 261 (445)
T ss_pred hcccceeeehhhcC-cceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHHHH
Confidence 56899999988743 223333489999999998652 1478865443110 11 12
Q ss_pred HHHhheeeeE--eeccccCCCCceeeccchHHhHhhh---CcccCcC-CCC-----CCCCcccC
Q 048313 67 AMEKVLESIQ--VTCENEDHGCKEKMSYSKKYDHGKA---CHHARCS-CPL-----AACNFVGS 119 (252)
Q Consensus 67 ~le~~~~~l~--v~C~~~~~GC~~~~~~~~~~~H~~~---C~~~p~~-CP~-----~gC~~~g~ 119 (252)
.+++-++.+. +.||++ -|..-. ..+...-... |.|+-|. |.. ..|++++.
T Consensus 262 ~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 262 MLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 2444455554 899986 566555 4444444444 4454331 332 24887764
No 91
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=76.44 E-value=2.5 Score=31.19 Aligned_cols=36 Identities=17% Similarity=0.233 Sum_probs=26.0
Q ss_pred EEEeCCeeeecCCcccccCCCCceEEccCCceecccChh
Q 048313 9 FVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCI 47 (252)
Q Consensus 9 ~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~ 47 (252)
+.++.+. .|++|.+.+. ..++..-+|||++-..|..
T Consensus 73 v~i~~~~-~C~vC~k~l~--~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 73 VVITEST-KCSVCGKPLG--NSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EEECCCC-CccCcCCcCC--CceEEEeCCCeEEeccccc
Confidence 3455444 3999999992 3555566899999998875
No 92
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=76.30 E-value=1.5 Score=28.41 Aligned_cols=41 Identities=32% Similarity=0.529 Sum_probs=21.6
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh-------cCCCCCCCcC
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-------MNKCPSCRLP 59 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-------~~~CP~Cr~~ 59 (252)
|.||+-...+ ..|+.--.|-|.-|-+=..-+ ..+||+|.++
T Consensus 3 L~CPls~~~i---~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI---RIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB----SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE---EeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 7899999999 999998779998653321111 2479999864
No 93
>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=75.90 E-value=0.88 Score=36.60 Aligned_cols=22 Identities=32% Similarity=0.990 Sum_probs=18.8
Q ss_pred eecccChhhhcCCCCCCCcCCc
Q 048313 40 IVCNRCCIELMNKCPSCRLPIG 61 (252)
Q Consensus 40 ~~C~~C~~~~~~~CP~Cr~~~~ 61 (252)
-||..|-.+.-..||.|..++.
T Consensus 29 ~fC~kCG~~tI~~Cp~C~~~Ir 50 (158)
T PF10083_consen 29 KFCSKCGAKTITSCPNCSTPIR 50 (158)
T ss_pred HHHHHhhHHHHHHCcCCCCCCC
Confidence 3899998886679999999885
No 94
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.50 E-value=2.2 Score=39.01 Aligned_cols=45 Identities=18% Similarity=0.262 Sum_probs=35.3
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhhc----CCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM----NKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~----~~CP~Cr~~~~ 61 (252)
..|.||.+-+.+ .+-+..=+|+|.|=..|+.+|- ..||+|+..+.
T Consensus 230 ~~CaIClEdY~~-GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEK-GDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeeccccc-CCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 489999998844 4455555799999999999872 45999998764
No 95
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=73.76 E-value=2.4 Score=28.91 Aligned_cols=36 Identities=22% Similarity=0.557 Sum_probs=18.0
Q ss_pred eCCeeeecCCcccccCCCCceEEcc-CCceecccChhh
Q 048313 12 CTTVLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIE 48 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~ 48 (252)
|.+.-.|.+|...+-- ..--..|. ||++||+.|...
T Consensus 6 d~~~~~C~~C~~~F~~-~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 6 DSEASNCMICGKKFSL-FRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GGG-SB-TTT--B-BS-SS-EEE-TTT--EEECCCS-E
T ss_pred CCCCCcCcCcCCcCCC-ceeeEccCCCCCEECCchhCC
Confidence 3455679999988711 22336787 999999999865
No 96
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=73.58 E-value=1.6 Score=38.67 Aligned_cols=43 Identities=19% Similarity=0.434 Sum_probs=30.0
Q ss_pred eecCCcccccCCCCce--EEccCCceecccChhhh----cCCCCCCCcCC
Q 048313 17 HCFISFSSFIFTLLSV--AECGNGHIVCNRCCIEL----MNKCPSCRLPI 60 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi--~qc~~GH~~C~~C~~~~----~~~CP~Cr~~~ 60 (252)
.||+|..--+- .|.+ +.-.|||..|.+|...+ ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~-np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYL-NPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceec-CccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48888643211 3333 23369999999999986 47899998765
No 97
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=73.08 E-value=2 Score=33.64 Aligned_cols=23 Identities=22% Similarity=0.519 Sum_probs=19.2
Q ss_pred eeecCCcccccCCCCceEEccCCceecccCh
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCC 46 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~ 46 (252)
.+||.|..|| |+ ..|-+||..|-
T Consensus 29 ~hCp~Cg~PL-------F~-KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPL-------FR-KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCcc-------ee-eCCeEECCCCC
Confidence 4799999999 56 78999888876
No 98
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=71.33 E-value=3.3 Score=27.47 Aligned_cols=45 Identities=16% Similarity=0.307 Sum_probs=31.1
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh-cCCCCCCCcCCc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-~~~CP~Cr~~~~ 61 (252)
.|-.|...|--....-+.|+-.-.||..|.+.+ .+.||.|...+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCcCCCCccc
Confidence 366676666111112366776679999999886 789999998764
No 99
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=70.79 E-value=1.4 Score=43.93 Aligned_cols=40 Identities=25% Similarity=0.465 Sum_probs=32.7
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh-----cCCCCCCCcCC
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPI 60 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~ 60 (252)
+.|++|.+ . ..++.. .|||.+|..|+.+. ...||.||..+
T Consensus 455 ~~c~ic~~-~---~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-c---ccceee-cccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999999 7 777664 89999999999874 24799998754
No 100
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.77 E-value=0.64 Score=45.34 Aligned_cols=40 Identities=33% Similarity=0.668 Sum_probs=29.2
Q ss_pred CeeeecCCcccccC-CCCceEEccCCceecccChhhh-cCCCC
Q 048313 14 TVLHCFISFSSFIF-TLLSVAECGNGHIVCNRCCIEL-MNKCP 54 (252)
Q Consensus 14 ~~l~C~iC~~~l~~-~~~Pi~qc~~GH~~C~~C~~~~-~~~CP 54 (252)
+.|.|+||...+.- ...|+.- .|||+.|+.|.+++ ...||
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYNASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhhccCC
Confidence 46889999655422 2346654 68999999999997 36788
No 101
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=69.96 E-value=4 Score=24.11 Aligned_cols=25 Identities=28% Similarity=0.478 Sum_probs=18.0
Q ss_pred eEeeccccCCCCceeeccchHHhHhhhCc
Q 048313 75 IQVTCENEDHGCKEKMSYSKKYDHGKACH 103 (252)
Q Consensus 75 l~v~C~~~~~GC~~~~~~~~~~~H~~~C~ 103 (252)
..+.|+| |+..+.-.....|++.|.
T Consensus 3 ~~~~C~n----C~R~v~a~RfA~HLekCm 27 (33)
T PF08209_consen 3 PYVECPN----CGRPVAASRFAPHLEKCM 27 (33)
T ss_dssp -EEE-TT----TSSEEEGGGHHHHHHHHT
T ss_pred CeEECCC----CcCCcchhhhHHHHHHHH
Confidence 4567886 888888888888888774
No 102
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.83 E-value=2.8 Score=29.28 Aligned_cols=29 Identities=24% Similarity=0.553 Sum_probs=24.3
Q ss_pred EEccCCceecccChh-hhcCCCCCCCcCCc
Q 048313 33 AECGNGHIVCNRCCI-ELMNKCPSCRLPIG 61 (252)
Q Consensus 33 ~qc~~GH~~C~~C~~-~~~~~CP~Cr~~~~ 61 (252)
..|+-.+.||..|.+ ++.+.||.|...+.
T Consensus 23 ~ICtfEcTFCadCae~~l~g~CPnCGGelv 52 (84)
T COG3813 23 RICTFECTFCADCAENRLHGLCPNCGGELV 52 (84)
T ss_pred eEEEEeeehhHhHHHHhhcCcCCCCCchhh
Confidence 457778899999988 57789999998765
No 103
>PF05253 zf-U11-48K: U11-48K-like CHHC zinc finger; InterPro: IPR022776 This zinc binding domain [] has four conserved zinc chelating residues in a CHHC pattern. This domain is predicted to have an RNA-binding function []. ; PDB: 2VY5_A 2VY4_A.
Probab=69.48 E-value=4.4 Score=22.62 Aligned_cols=24 Identities=25% Similarity=0.396 Sum_probs=16.7
Q ss_pred eeccccCCCCceeeccchHHhHhhhCc
Q 048313 77 VTCENEDHGCKEKMSYSKKYDHGKACH 103 (252)
Q Consensus 77 v~C~~~~~GC~~~~~~~~~~~H~~~C~ 103 (252)
+.|||. =.-.++..+++.|+..|+
T Consensus 3 v~CPyn---~~H~v~~~~l~~Hi~~C~ 26 (27)
T PF05253_consen 3 VRCPYN---PSHRVPASELQKHIKKCP 26 (27)
T ss_dssp EE-TTT---SS-EEEGGGHHHHHHHHH
T ss_pred eeCCCC---CCcCcCHHHHHHHHHHcC
Confidence 578874 567788888888888775
No 104
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.21 E-value=4.7 Score=30.78 Aligned_cols=38 Identities=24% Similarity=0.586 Sum_probs=23.3
Q ss_pred eecCCcccccCCCCc------------eEEcc-CCceecccChhh---hcCCCCCCC
Q 048313 17 HCFISFSSFIFTLLS------------VAECG-NGHIVCNRCCIE---LMNKCPSCR 57 (252)
Q Consensus 17 ~C~iC~~~l~~~~~P------------i~qc~-~GH~~C~~C~~~---~~~~CP~Cr 57 (252)
.|-.|..++ ..+ .|+|+ |++.||-.|=.- ...+||-|.
T Consensus 57 ~C~~C~~~f---~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPF---PKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCC---CCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 477777766 321 36676 777777777332 125777774
No 105
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=69.16 E-value=4.3 Score=26.80 Aligned_cols=37 Identities=22% Similarity=0.350 Sum_probs=26.4
Q ss_pred Ceeeec--CCcccccCC---CCceEEc-cCCceecccChhhhc
Q 048313 14 TVLHCF--ISFSSFIFT---LLSVAEC-GNGHIVCNRCCIELM 50 (252)
Q Consensus 14 ~~l~C~--iC~~~l~~~---~~Pi~qc-~~GH~~C~~C~~~~~ 50 (252)
+.--|| -|..++.-+ ..+..+| .||+.||..|...+.
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 444588 887766321 3557889 699999999987763
No 106
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=68.89 E-value=3 Score=29.80 Aligned_cols=51 Identities=18% Similarity=0.259 Sum_probs=34.7
Q ss_pred EEeCCeeeecCCcccccCCCCceEEccC---------------CceecccChhhh---cCCCCCCCcCCccc
Q 048313 10 VLCTTVLHCFISFSSFIFTLLSVAECGN---------------GHIVCNRCCIEL---MNKCPSCRLPIGHS 63 (252)
Q Consensus 10 ~~~~~~l~C~iC~~~l~~~~~Pi~qc~~---------------GH~~C~~C~~~~---~~~CP~Cr~~~~~~ 63 (252)
+-|...-.|.||...++ .+-.+|+. .|.|=.-|+.++ ++.||.++++....
T Consensus 15 swdi~id~CaICRnhim---~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 15 SWDIPIDVCAICRNHIM---GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred ecccccchhhhhhcccc---CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 44555667999998884 43344444 466667788775 47899999986543
No 107
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.52 E-value=1.4 Score=41.85 Aligned_cols=45 Identities=27% Similarity=0.520 Sum_probs=31.4
Q ss_pred eeecCCcccccC---CCCc-----------eEEccCCceecccChhhhcC----CCCCCCcCCc
Q 048313 16 LHCFISFSSFIF---TLLS-----------VAECGNGHIVCNRCCIELMN----KCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~---~~~P-----------i~qc~~GH~~C~~C~~~~~~----~CP~Cr~~~~ 61 (252)
-+|+||..+. | +..| -...+|.|+|=..|..++.. .||+||.++.
T Consensus 572 ~dC~ICMt~I-~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 572 NDCVICMTPI-DLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred ccceEecccc-ceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 4799998775 2 0011 01236889999999998743 7999999874
No 108
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=67.29 E-value=2.5 Score=38.11 Aligned_cols=45 Identities=16% Similarity=0.324 Sum_probs=34.2
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCC
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPI 60 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~ 60 (252)
++.-.||+|.+-- ..|...-..|-+||-+|+.+. .+.||+=..|.
T Consensus 298 ~~~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 4455799999988 788664457999999999873 37899855543
No 109
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=66.26 E-value=3.5 Score=37.03 Aligned_cols=35 Identities=14% Similarity=0.120 Sum_probs=26.5
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL 49 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~ 49 (252)
..|.||+=.+.-.||.||+.. .|||++=..=...+
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~L 369 (396)
T COG5109 335 SLFICPVLKELCTDENPPVML-ECGHVISKEALSVL 369 (396)
T ss_pred ceeeccccHhhhcccCCCeee-eccceeeHHHHHHH
Confidence 568999988888888889766 89998755544443
No 110
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.98 E-value=2.8 Score=32.58 Aligned_cols=49 Identities=24% Similarity=0.667 Sum_probs=29.3
Q ss_pred ecccChhhhcCCCCCCCcCCcccchhHHHhhee-----eeEeeccccCCCCceeeccchH
Q 048313 41 VCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLE-----SIQVTCENEDHGCKEKMSYSKK 95 (252)
Q Consensus 41 ~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~-----~l~v~C~~~~~GC~~~~~~~~~ 95 (252)
||+.|-+..--+||.|..++. -+..+|.+++ +..-.|-| |+...++.+.
T Consensus 30 fcskcgeati~qcp~csasir--gd~~vegvlglg~dye~psfchn----cgs~fpwter 83 (160)
T COG4306 30 FCSKCGEATITQCPICSASIR--GDYYVEGVLGLGGDYEPPSFCHN----CGSRFPWTER 83 (160)
T ss_pred HHhhhchHHHhcCCccCCccc--ccceeeeeeccCCCCCCcchhhc----CCCCCCcHHH
Confidence 799997764468999998874 1233343332 12334554 6666665543
No 112
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=62.97 E-value=6.5 Score=24.39 Aligned_cols=23 Identities=26% Similarity=0.496 Sum_probs=16.8
Q ss_pred eeecCCcccccCCCCceEEccCCceecccC
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRC 45 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C 45 (252)
-.||.|..|| ++-..|..+|-.|
T Consensus 18 ~~Cp~C~~PL-------~~~k~g~~~Cv~C 40 (41)
T PF06677_consen 18 EHCPDCGTPL-------MRDKDGKIYCVSC 40 (41)
T ss_pred CccCCCCCee-------EEecCCCEECCCC
Confidence 3699998877 3335788888777
No 113
>PRK04023 DNA polymerase II large subunit; Validated
Probab=62.91 E-value=5.1 Score=41.40 Aligned_cols=47 Identities=21% Similarity=0.382 Sum_probs=35.7
Q ss_pred EEeCCeeeecCCcccccCCCCceEEcc-CCc-----eecccChhhhc-CCCCCCCcCCc
Q 048313 10 VLCTTVLHCFISFSSFIFTLLSVAECG-NGH-----IVCNRCCIELM-NKCPSCRLPIG 61 (252)
Q Consensus 10 ~~~~~~l~C~iC~~~l~~~~~Pi~qc~-~GH-----~~C~~C~~~~~-~~CP~Cr~~~~ 61 (252)
.++...-.||-|.... . .+.|+ ||. .+|..|..... ..||.|.....
T Consensus 621 eVEVg~RfCpsCG~~t---~--~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 621 EVEIGRRKCPSCGKET---F--YRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPT 674 (1121)
T ss_pred eecccCccCCCCCCcC---C--cccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCC
Confidence 4556667899999887 2 36798 884 59999977653 67999988764
No 114
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=62.82 E-value=3.6 Score=36.95 Aligned_cols=75 Identities=16% Similarity=0.326 Sum_probs=51.0
Q ss_pred CCCCCCCcCCc---ccch---hHHHhheeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCCCC--CCCcccChhh
Q 048313 51 NKCPSCRLPIG---HSRS---IAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCPLA--ACNFVGSFNQ 122 (252)
Q Consensus 51 ~~CP~Cr~~~~---~~r~---~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP~~--gC~~~g~~~~ 122 (252)
..||+|...+. ...+ .+-..=-.++...||. |...++..--..=|+.+.-..++||+. ||.+.+++..
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~----Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~~Y~~ 124 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPT----CRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSFPYGE 124 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhhhhcccCCc----cccccccHHHHHHHHHHHhceecccccccCCceeecccc
Confidence 47999998774 1111 2222222255667885 888888443334456888999999987 8999998877
Q ss_pred HhhHhhc
Q 048313 123 IYQHFRG 129 (252)
Q Consensus 123 L~~Hl~~ 129 (252)
=..|.+.
T Consensus 125 ~~~HE~~ 131 (299)
T KOG3002|consen 125 KSKHEKV 131 (299)
T ss_pred ccccccc
Confidence 7888764
No 115
>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=62.80 E-value=4 Score=20.95 Aligned_cols=22 Identities=36% Similarity=0.680 Sum_probs=14.6
Q ss_pred CCCCCCCCccc-ChhhHhhHhhccc
Q 048313 108 SCPLAACNFVG-SFNQIYQHFRGVH 131 (252)
Q Consensus 108 ~CP~~gC~~~g-~~~~L~~Hl~~~H 131 (252)
.|+. |+... .+.+|..|+...|
T Consensus 2 ~C~~--C~~~~~~~~~l~~H~~~~H 24 (24)
T PF13894_consen 2 QCPI--CGKSFRSKSELRQHMRTHH 24 (24)
T ss_dssp E-SS--TS-EESSHHHHHHHHHHHS
T ss_pred CCcC--CCCcCCcHHHHHHHHHhhC
Confidence 4664 77776 4688999988765
No 116
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.69 E-value=3 Score=38.72 Aligned_cols=41 Identities=22% Similarity=0.487 Sum_probs=31.4
Q ss_pred eeecCCcccccCCCCceEEc----cCCceecccChhhhc-----CCCCCCCcC
Q 048313 16 LHCFISFSSFIFTLLSVAEC----GNGHIVCNRCCIELM-----NKCPSCRLP 59 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc----~~GH~~C~~C~~~~~-----~~CP~Cr~~ 59 (252)
-.||||+... .-|.-.| .|||.|=+.|+++|. ..||.|...
T Consensus 5 ~tcpiclds~---~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 5 TTCPICLDSY---TTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred ccCceeeeee---eecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 5799999877 5554222 479999999999862 579999865
No 117
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.69 E-value=4.8 Score=39.86 Aligned_cols=41 Identities=34% Similarity=0.633 Sum_probs=31.1
Q ss_pred eecCCcccccCCCCceEEccCCc-eecccChhhhc---------CCCCCCCcCCc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGH-IVCNRCCIELM---------NKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH-~~C~~C~~~~~---------~~CP~Cr~~~~ 61 (252)
.|+||..-. .-+.+- .||| .+|.+|..++. ..||.|+..+.
T Consensus 2 ~c~ic~~s~---~~~~~~-s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSP---DFVGRG-SCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCc---cccccc-cccccccchhhhhhhhhhcccccccccCccccccee
Confidence 488888877 666664 7999 89999988752 35699998654
No 118
>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=61.39 E-value=4.4 Score=22.44 Aligned_cols=17 Identities=18% Similarity=0.385 Sum_probs=8.9
Q ss_pred CceeeccchHHhHhhhC
Q 048313 86 CKEKMSYSKKYDHGKAC 102 (252)
Q Consensus 86 C~~~~~~~~~~~H~~~C 102 (252)
|.+.++...+.+|.+.|
T Consensus 7 C~~~v~~~~in~HLD~C 23 (26)
T smart00734 7 CFREVPENLINSHLDSC 23 (26)
T ss_pred CcCcccHHHHHHHHHHh
Confidence 55555555555555544
No 119
>PRK00420 hypothetical protein; Validated
Probab=60.81 E-value=5.7 Score=30.33 Aligned_cols=26 Identities=23% Similarity=0.330 Sum_probs=17.9
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhh
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE 48 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~ 48 (252)
-.||+|..+| +.=..|+.+|..|-..
T Consensus 24 ~~CP~Cg~pL-------f~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 24 KHCPVCGLPL-------FELKDGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCCcc-------eecCCCceECCCCCCe
Confidence 5799999988 2225688776666553
No 120
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=60.35 E-value=4.5 Score=26.19 Aligned_cols=32 Identities=13% Similarity=0.168 Sum_probs=20.0
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE 48 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~ 48 (252)
+=|.|..|...| .+.-+.-..|.++|..|..+
T Consensus 25 ~Cf~C~~C~~~l---~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPL---NDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBT---TTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCcc---CCCeeEeECCEEECHHHHhh
Confidence 446677777777 44333335777777777654
No 121
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=59.18 E-value=7.8 Score=34.18 Aligned_cols=12 Identities=17% Similarity=0.168 Sum_probs=6.9
Q ss_pred CeeeecCCcccc
Q 048313 14 TVLHCFISFSSF 25 (252)
Q Consensus 14 ~~l~C~iC~~~l 25 (252)
..+.|+-|...+
T Consensus 129 ~r~~c~eCgk~y 140 (279)
T KOG2462|consen 129 PRYKCPECGKSY 140 (279)
T ss_pred Cceecccccccc
Confidence 345666666555
No 122
>KOG4621 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.50 E-value=4.6 Score=31.58 Aligned_cols=34 Identities=21% Similarity=0.352 Sum_probs=25.8
Q ss_pred EEEEEEeCCeeeecCCcccccCCCCceEEccCCc-eecc
Q 048313 6 VCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGH-IVCN 43 (252)
Q Consensus 6 ~~~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH-~~C~ 43 (252)
+-+..+|.+.|.|..|.+|+ +.-.+. ++|| -||+
T Consensus 72 iAIaLVdq~~Lhcdlceepl---k~ccfs-pnghhcfcr 106 (167)
T KOG4621|consen 72 IAIALVDQDKLHCDLCEEPL---KSCCFS-PNGHHCFCR 106 (167)
T ss_pred EEEEEecCCceehHHHHhHH---HHhccC-CCCcccccc
Confidence 44667899999999999999 766553 6786 4554
No 123
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=58.35 E-value=9.7 Score=26.70 Aligned_cols=45 Identities=16% Similarity=0.335 Sum_probs=29.6
Q ss_pred CCCCCCcCCcccchhHHHhheeeeEeeccccCCCCceeeccchHHhH
Q 048313 52 KCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDH 98 (252)
Q Consensus 52 ~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H 98 (252)
.||.|+........+.+...+..+.-.|.|. .|+..+...+--.|
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~--eCg~tF~t~es~s~ 47 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNV--NCSATFITYESVQR 47 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCC--CCCCEEEEEEEEEE
Confidence 6999988764444566666677888889987 45555544443333
No 124
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=58.12 E-value=6.6 Score=29.23 Aligned_cols=43 Identities=33% Similarity=0.696 Sum_probs=15.3
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh-------cCCCCCCCcCC
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-------MNKCPSCRLPI 60 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-------~~~CP~Cr~~~ 60 (252)
.|++|..++-....-..+|.+||.+ .+|.... ...|+.|....
T Consensus 16 ~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 16 KCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp -------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EE
T ss_pred cccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEE
Confidence 5999999762213346889999986 5554432 15799998754
No 125
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.89 E-value=6.4 Score=34.90 Aligned_cols=32 Identities=22% Similarity=0.479 Sum_probs=25.4
Q ss_pred CeeeecCCcccccCCCCc-eEEcc--CCceecccChhh
Q 048313 14 TVLHCFISFSSFIFTLLS-VAECG--NGHIVCNRCCIE 48 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~P-i~qc~--~GH~~C~~C~~~ 48 (252)
+-|.|-+|.+-| .+- ..||. ..|-||-.|-..
T Consensus 267 apLcCTLC~ERL---EDTHFVQCPSVp~HKFCFPCSRe 301 (352)
T KOG3579|consen 267 APLCCTLCHERL---EDTHFVQCPSVPSHKFCFPCSRE 301 (352)
T ss_pred Cceeehhhhhhh---ccCceeecCCCcccceecccCHH
Confidence 449999999999 554 46887 699999999543
No 126
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=56.43 E-value=5.3 Score=35.48 Aligned_cols=72 Identities=25% Similarity=0.355 Sum_probs=30.7
Q ss_pred eeecCCcccccCCCCceEEccC--C--ceecccChhhhc---CCCCCCCcCCcccch-hHHHhheeeeEeeccccCCCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGN--G--HIVCNRCCIELM---NKCPSCRLPIGHSRS-IAMEKVLESIQVTCENEDHGCK 87 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~--G--H~~C~~C~~~~~---~~CP~Cr~~~~~~r~-~~le~~~~~l~v~C~~~~~GC~ 87 (252)
-.||+|...- .--+..=.. | +.+|+-|-..|. ..||.|...-...-. ...+..-..---.|. -|+
T Consensus 173 g~CPvCGs~P---~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~~e~~~~~rve~C~----~C~ 245 (290)
T PF04216_consen 173 GYCPVCGSPP---VLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFTVEGEPAYRVEVCE----SCG 245 (290)
T ss_dssp SS-TTT---E---EEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EEE--------SEEEEEET----TTT
T ss_pred CcCCCCCCcC---ceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcceeeEecCCCCcEEEEECC----ccc
Confidence 4799999865 333333223 5 579999988863 689999875321111 112222222223576 488
Q ss_pred eeeccch
Q 048313 88 EKMSYSK 94 (252)
Q Consensus 88 ~~~~~~~ 94 (252)
..++.-+
T Consensus 246 ~YlK~vd 252 (290)
T PF04216_consen 246 SYLKTVD 252 (290)
T ss_dssp EEEEEEE
T ss_pred chHHHHh
Confidence 7776555
No 127
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=56.13 E-value=12 Score=39.62 Aligned_cols=47 Identities=21% Similarity=0.454 Sum_probs=34.6
Q ss_pred EEeCCeeeecCCcccccCCCCceEEcc-CCce-----ecccChhhhc-C-----CCCCCCcCCc
Q 048313 10 VLCTTVLHCFISFSSFIFTLLSVAECG-NGHI-----VCNRCCIELM-N-----KCPSCRLPIG 61 (252)
Q Consensus 10 ~~~~~~l~C~iC~~~l~~~~~Pi~qc~-~GH~-----~C~~C~~~~~-~-----~CP~Cr~~~~ 61 (252)
.++...+.||-|.... .. ..|+ ||.. .|..|-.++. . .||.|..++.
T Consensus 662 eVEV~~rkCPkCG~~t---~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 662 EVEVGRRRCPSCGTET---YE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEEEEEEECCCCCCcc---cc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 3455678999999977 33 2587 9965 5999988752 2 7999998764
No 128
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=55.79 E-value=5.5 Score=25.89 Aligned_cols=32 Identities=22% Similarity=0.519 Sum_probs=21.6
Q ss_pred eeecCCcccccCCCCceEEcc-CCceecccChhh
Q 048313 16 LHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIE 48 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~ 48 (252)
-.|.+|...|-- ...-..|. ||+++|..|...
T Consensus 3 ~~C~~C~~~F~~-~~rk~~Cr~Cg~~~C~~C~~~ 35 (57)
T cd00065 3 SSCMGCGKPFTL-TRRRHHCRNCGRIFCSKCSSN 35 (57)
T ss_pred CcCcccCccccC-CccccccCcCcCCcChHHcCC
Confidence 358888776611 12235676 899999999775
No 129
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.28 E-value=4.5 Score=35.11 Aligned_cols=28 Identities=14% Similarity=0.252 Sum_probs=24.8
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhh
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIE 48 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~ 48 (252)
.|..|++|. .+|+. |..||+||..|+-.
T Consensus 45 cCsLtLqPc---~dPvi-t~~GylfdrEaILe 72 (303)
T KOG3039|consen 45 CCSLTLQPC---RDPVI-TPDGYLFDREAILE 72 (303)
T ss_pred eeeeecccc---cCCcc-CCCCeeeeHHHHHH
Confidence 589999999 99976 68999999999865
No 130
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=54.74 E-value=14 Score=22.82 Aligned_cols=33 Identities=18% Similarity=0.402 Sum_probs=18.8
Q ss_pred ecC--CcccccCCCCceEEcc-CCceecccChhhhcCCCC
Q 048313 18 CFI--SFSSFIFTLLSVAECG-NGHIVCNRCCIELMNKCP 54 (252)
Q Consensus 18 C~i--C~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~~~CP 54 (252)
|.. |.... .-| +.|. ||..||..=+..-...|+
T Consensus 1 C~~~~C~~~~---~~~-~~C~~C~~~FC~~Hr~~e~H~C~ 36 (43)
T PF01428_consen 1 CSFPGCKKKD---FLP-FKCKHCGKSFCLKHRLPEDHNCS 36 (43)
T ss_dssp -SSTTT--BC---TSH-EE-TTTS-EE-TTTHSTTTCT-S
T ss_pred CccCcCcCcc---CCC-eECCCCCcccCccccCccccCCc
Confidence 445 88877 666 5798 999999988776545665
No 131
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.36 E-value=9.6 Score=32.33 Aligned_cols=38 Identities=29% Similarity=0.433 Sum_probs=27.3
Q ss_pred ecCCcccccCCCCceEEccCCc-eecccChhhhcCCCCCCCcCC
Q 048313 18 CFISFSSFIFTLLSVAECGNGH-IVCNRCCIELMNKCPSCRLPI 60 (252)
Q Consensus 18 C~iC~~~l~~~~~Pi~qc~~GH-~~C~~C~~~~~~~CP~Cr~~~ 60 (252)
|-.|.+-- .. +..=+|.| ..|..|-..+ ..||+|+.+.
T Consensus 161 Cr~C~~~~---~~-VlllPCrHl~lC~~C~~~~-~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGERE---AT-VLLLPCRHLCLCGICDESL-RICPICRSPK 199 (207)
T ss_pred ceecCcCC---ce-EEeecccceEecccccccC-ccCCCCcChh
Confidence 77777654 33 33336777 6999998764 6899999864
No 132
>PF10426 zf-RAG1: Recombination-activating protein 1 zinc-finger domain; InterPro: IPR019485 During lymphocyte development, the genes encoding immunoglobulins and T-cell receptors are assembled from variable (V), diversity (D), and joining (J) gene segments. This combinatorial process, known as V(D)J recombination, allows the generation of an enormous range of binding specificities from a limited amount of genetic information. The V(D)J recombination-activating proteins 1 and 2 (RAG1 and RAG2) form a complex that initiates this process by binding to the conserved recombination signal sequences (RSS) and introducing a double-strand break between the RSS and the adjacent coding segment. These breaks are generated in two steps, nicking of one strand (hydrolysis), followed by hairpin formation (transesterification). RAG1/2 has also been shown to function as a transposase in vitro, and to possess RSS-independent endonuclease activity (end processing) and hairpin opening. RAG1 alone can bind to RSS but stable, efficient binding requires RAG2. All known catalytic activities require the presence of both proteins. For more information see []. Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc-finger domain found in the RAG1 protein. The structure contains the characteristic two-stranded beta-sheet and alpha-helix of a classical zinc-finger. The domain binds one zinc and, in complex with an adjacent RING-type zinc finger domain, helps to stabilise the whole of the dimerisation region of recombination activating protein 1 (RAG1) []. The function of the whole is to bind double-stranded DNA. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0016881 acid-amino acid ligase activity; PDB: 1RMD_A.
Probab=54.36 E-value=11 Score=21.74 Aligned_cols=22 Identities=23% Similarity=0.563 Sum_probs=9.4
Q ss_pred cCCCCCCCCcccChhhHhhHhh
Q 048313 107 CSCPLAACNFVGSFNQIYQHFR 128 (252)
Q Consensus 107 ~~CP~~gC~~~g~~~~L~~Hl~ 128 (252)
++||..+|+.......-..|++
T Consensus 3 vrCPvkdC~EEv~lgKY~~H~s 24 (30)
T PF10426_consen 3 VRCPVKDCDEEVSLGKYSHHLS 24 (30)
T ss_dssp EE--STT---EEEHHHHHHHHH
T ss_pred cccccccCcchhhhhhhccccc
Confidence 3566666666655555555554
No 133
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=52.82 E-value=11 Score=23.07 Aligned_cols=33 Identities=21% Similarity=0.546 Sum_probs=19.6
Q ss_pred ecCCcccccCCCC-ceEEcc-CCceecccChhhhcCCCC
Q 048313 18 CFISFSSFIFTLL-SVAECG-NGHIVCNRCCIELMNKCP 54 (252)
Q Consensus 18 C~iC~~~l~~~~~-Pi~qc~-~GH~~C~~C~~~~~~~CP 54 (252)
|.+|.... .- | +.|. ||..||..=+..-...|+
T Consensus 1 C~~C~~~~---~l~~-f~C~~C~~~FC~~HR~~e~H~C~ 35 (39)
T smart00154 1 CHFCRKKV---GLTG-FKCRHCGNLFCGEHRLPEDHDCP 35 (39)
T ss_pred CcccCCcc---cccC-eECCccCCccccccCCccccCCc
Confidence 55676554 33 6 6788 899998764433223443
No 134
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=52.71 E-value=9 Score=35.08 Aligned_cols=113 Identities=18% Similarity=0.410 Sum_probs=74.9
Q ss_pred CCeeeecCCcccccCCCCce-------EEcc--CCceecccChhhh---------------cCCCCCCCcCCccc---ch
Q 048313 13 TTVLHCFISFSSFIFTLLSV-------AECG--NGHIVCNRCCIEL---------------MNKCPSCRLPIGHS---RS 65 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi-------~qc~--~GH~~C~~C~~~~---------------~~~CP~Cr~~~~~~---r~ 65 (252)
-..+-||-|.+.+ ..-. .|.. -.|..|+.|..+. ..+||.|....+.. ++
T Consensus 205 eKvvACp~Cg~~F---~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~ 281 (467)
T KOG3608|consen 205 EKVVACPHCGELF---RTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTT 281 (467)
T ss_pred CeEEecchHHHHh---ccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHH
Confidence 3457799998877 3210 1211 2367788887642 15899998876522 33
Q ss_pred hHHHhheeeeEeeccccCCCCcee-eccchHHhHhhhCcccCcCCCCCCCCccc-ChhhHhhHhhcccC
Q 048313 66 IAMEKVLESIQVTCENEDHGCKEK-MSYSKKYDHGKACHHARCSCPLAACNFVG-SFNQIYQHFRGVHK 132 (252)
Q Consensus 66 ~~le~~~~~l~v~C~~~~~GC~~~-~~~~~~~~H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~H~ 132 (252)
..+-+-...-.+.|.- |... +...++..|...=.-.-+.|..+.|.+.. ++..|..|+...|.
T Consensus 282 H~r~rHs~dkpfKCd~----Cd~~c~~esdL~kH~~~HS~~~y~C~h~~C~~s~r~~~q~~~H~~evhE 346 (467)
T KOG3608|consen 282 HIRYRHSKDKPFKCDE----CDTRCVRESDLAKHVQVHSKTVYQCEHPDCHYSVRTYTQMRRHFLEVHE 346 (467)
T ss_pred HHHhhhccCCCccccc----hhhhhccHHHHHHHHHhccccceecCCCCCcHHHHHHHHHHHHHHHhcc
Confidence 3444455566677763 6554 56788899987434455789888898877 46889999999884
No 135
>PF15616 TerY-C: TerY-C metal binding domain
Probab=51.83 E-value=13 Score=29.28 Aligned_cols=39 Identities=23% Similarity=0.362 Sum_probs=28.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~ 61 (252)
--||-|.... - +..|.||+++|-.=-. ...||.|.....
T Consensus 78 PgCP~CGn~~---~--fa~C~CGkl~Ci~g~~--~~~CPwCg~~g~ 116 (131)
T PF15616_consen 78 PGCPHCGNQY---A--FAVCGCGKLFCIDGEG--EVTCPWCGNEGS 116 (131)
T ss_pred CCCCCCcChh---c--EEEecCCCEEEeCCCC--CEECCCCCCeee
Confidence 4699999875 2 4679999999843322 258999988653
No 136
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=51.01 E-value=7.5 Score=25.57 Aligned_cols=39 Identities=13% Similarity=0.125 Sum_probs=20.6
Q ss_pred EeCCeeeecC--CcccccC-CCCc--eEEcc-CCceecccChhhh
Q 048313 11 LCTTVLHCFI--SFSSFIF-TLLS--VAECG-NGHIVCNRCCIEL 49 (252)
Q Consensus 11 ~~~~~l~C~i--C~~~l~~-~~~P--i~qc~-~GH~~C~~C~~~~ 49 (252)
.+.+.--||. |..++.- .... ..+|. ||+.||..|...+
T Consensus 14 ~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 14 SDPNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp S---CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 4445557988 9887732 1112 26798 9999999998765
No 137
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=50.23 E-value=3.7 Score=40.70 Aligned_cols=43 Identities=23% Similarity=0.410 Sum_probs=34.6
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhh------cCCCCCCCcCC
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL------MNKCPSCRLPI 60 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~------~~~CP~Cr~~~ 60 (252)
-.++||||.... ..|+.. .|-|.||..|+... ...||+|+..+
T Consensus 20 k~lEc~ic~~~~---~~p~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHV---KEPSLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEe---eccchh-hhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 347899999999 888654 78999999999864 25799998654
No 138
>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=50.04 E-value=16 Score=21.27 Aligned_cols=9 Identities=44% Similarity=1.099 Sum_probs=6.8
Q ss_pred CCCCCCCcC
Q 048313 51 NKCPSCRLP 59 (252)
Q Consensus 51 ~~CP~Cr~~ 59 (252)
..||+|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 589988764
No 139
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=49.55 E-value=11 Score=35.23 Aligned_cols=49 Identities=16% Similarity=0.301 Sum_probs=36.7
Q ss_pred eEeeccccCCCCceeeccchHHhHh-hhCcccCcCCCCCCCCcccChhhHhhHhh
Q 048313 75 IQVTCENEDHGCKEKMSYSKKYDHG-KACHHARCSCPLAACNFVGSFNQIYQHFR 128 (252)
Q Consensus 75 l~v~C~~~~~GC~~~~~~~~~~~H~-~~C~~~p~~CP~~gC~~~g~~~~L~~Hl~ 128 (252)
-.++|+| +|...+...++.+|. +.|+++...|...++.. ...++..|..
T Consensus 113 ~~~~C~~---~C~~~~~~~d~~~hl~~~C~~~~~~c~~~~~~~--~~~~~~~h~~ 162 (391)
T KOG0297|consen 113 DPLKCPH---RCGVQVPRDDLEDHLEAECPRRSLKCSLCQSDS--ILILLEAHEE 162 (391)
T ss_pred CcccCcc---ccccccchHHHHHHHhcccccccccchhhcCcc--chhhhhhcCC
Confidence 4678998 499999999999997 58999999988744443 3355555554
No 140
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=49.11 E-value=7.7 Score=34.20 Aligned_cols=104 Identities=14% Similarity=0.298 Sum_probs=65.6
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhHHHhhe----eeeEeeccccCCCCce
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVL----ESIQVTCENEDHGCKE 88 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~----~~l~v~C~~~~~GC~~ 88 (252)
...+.|++|..... .-|-+ -.|+- -..+.-.|++|.+.+. |...|+.=| ++-.+.|+. |..
T Consensus 159 ~ka~~C~~C~K~Yv--SmpAL---kMHir----TH~l~c~C~iCGKaFS--RPWLLQGHiRTHTGEKPF~C~h----C~k 223 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYV--SMPAL---KMHIR----THTLPCECGICGKAFS--RPWLLQGHIRTHTGEKPFSCPH----CGK 223 (279)
T ss_pred cccccCCCCCceee--ehHHH---hhHhh----ccCCCccccccccccc--chHHhhcccccccCCCCccCCc----ccc
Confidence 55688999988761 22322 13421 0013457999988764 444444433 344677774 777
Q ss_pred ee-ccchHHhHhhh-CcccCcCCCCCCCCcccChh-hHhhHhhcccCC
Q 048313 89 KM-SYSKKYDHGKA-CHHARCSCPLAACNFVGSFN-QIYQHFRGVHKH 133 (252)
Q Consensus 89 ~~-~~~~~~~H~~~-C~~~p~~CP~~gC~~~g~~~-~L~~Hl~~~H~~ 133 (252)
.+ -..+|+.|+.+ =...++.|+ .|+...+++ -|..|++..+..
T Consensus 224 AFADRSNLRAHmQTHS~~K~~qC~--~C~KsFsl~SyLnKH~ES~C~~ 269 (279)
T KOG2462|consen 224 AFADRSNLRAHMQTHSDVKKHQCP--RCGKSFALKSYLNKHSESACLK 269 (279)
T ss_pred hhcchHHHHHHHHhhcCCccccCc--chhhHHHHHHHHHHhhhhcccc
Confidence 65 47789999874 356678897 599888754 456788877664
No 141
>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=48.64 E-value=21 Score=21.02 Aligned_cols=9 Identities=56% Similarity=1.416 Sum_probs=6.8
Q ss_pred CCCCCCCcC
Q 048313 51 NKCPSCRLP 59 (252)
Q Consensus 51 ~~CP~Cr~~ 59 (252)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 578888764
No 142
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.49 E-value=4.2 Score=35.77 Aligned_cols=49 Identities=12% Similarity=0.265 Sum_probs=35.7
Q ss_pred CCeeeecCCcccccCCC------CceEEccCCceecccChhhh-----cCCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFIFTL------LSVAECGNGHIVCNRCCIEL-----MNKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~------~Pi~qc~~GH~~C~~C~~~~-----~~~CP~Cr~~~~ 61 (252)
.++-.|.+|.+-+.++. ..+++=.|+|+|=..|+.-+ .+.||.|++.+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 34567999998874311 13466679999988888764 378999998765
No 143
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=48.42 E-value=9.7 Score=22.65 Aligned_cols=31 Identities=19% Similarity=0.176 Sum_probs=15.5
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCI 47 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~ 47 (252)
+...|--|.+++ .+.-+.-.-++.+|..|+.
T Consensus 2 ~~~~C~eC~~~f---~dSyL~~~F~~~VCD~CRD 32 (34)
T PF01286_consen 2 DYPKCDECGKPF---MDSYLLNNFDLPVCDKCRD 32 (34)
T ss_dssp S-EE-TTT--EE---S-SSCCCCTS-S--TTT-S
T ss_pred CCchHhHhCCHH---HHHHHHHhCCccccccccC
Confidence 456899999999 5554443568888888875
No 144
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=48.11 E-value=10 Score=28.75 Aligned_cols=29 Identities=21% Similarity=0.319 Sum_probs=18.4
Q ss_pred EEEEeCCeeeecCCcccccCCCCceEEccCCceeccc
Q 048313 8 HFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNR 44 (252)
Q Consensus 8 ~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~ 44 (252)
++-++++.+.|.. .- -+.+|.|||.||..
T Consensus 8 ~lpL~~~l~i~~~---~~-----k~vkc~CGh~f~d~ 36 (112)
T PF08882_consen 8 LLPLGPHLWIVQK---KD-----KVVKCDCGHEFCDA 36 (112)
T ss_pred EecCCCcEEEEEe---cC-----ceeeccCCCeecCh
Confidence 3445555555542 11 26789999999875
No 145
>PF12773 DZR: Double zinc ribbon
Probab=47.55 E-value=14 Score=23.35 Aligned_cols=7 Identities=43% Similarity=1.369 Sum_probs=3.4
Q ss_pred CCCCCcC
Q 048313 53 CPSCRLP 59 (252)
Q Consensus 53 CP~Cr~~ 59 (252)
||.|...
T Consensus 32 C~~Cg~~ 38 (50)
T PF12773_consen 32 CPNCGAE 38 (50)
T ss_pred CcCCcCC
Confidence 5555443
No 146
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=47.41 E-value=18 Score=30.05 Aligned_cols=47 Identities=21% Similarity=0.261 Sum_probs=28.0
Q ss_pred CCcCCcccchhHHHhheeeeEeeccccCCCCceeeccchHHhHhhhC
Q 048313 56 CRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMSYSKKYDHGKAC 102 (252)
Q Consensus 56 Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C 102 (252)
|...+.+..-..=|+.-.-.+..||....||.|.+.+.++.+|...-
T Consensus 24 C~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~ 70 (198)
T PF03145_consen 24 CTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDK 70 (198)
T ss_dssp ---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHH
T ss_pred CcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHH
Confidence 55554444444445566667789998667999999999999999863
No 147
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=47.30 E-value=13 Score=37.02 Aligned_cols=43 Identities=26% Similarity=0.454 Sum_probs=21.9
Q ss_pred eeecCCcccccCCCCceEEcc-CCc----eecccChhhhc---CCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECG-NGH----IVCNRCCIELM---NKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~-~GH----~~C~~C~~~~~---~~CP~Cr~~~~ 61 (252)
..||-|.... .+--..|. ||. ..|..|-..+. ..||.|..+++
T Consensus 2 ~~Cp~Cg~~n---~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 2 LICPQCQFEN---PNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCcC---CCCCccccccCCCCCCCcCCCCCCCCCcccccccccCCccc
Confidence 3577777665 22222243 443 24555554431 45666666544
No 148
>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=46.44 E-value=13 Score=33.52 Aligned_cols=41 Identities=24% Similarity=0.417 Sum_probs=28.0
Q ss_pred eeecCCcccccCCCCceEEc---cCC--ceecccChhhhc---CCCCCCCcC
Q 048313 16 LHCFISFSSFIFTLLSVAEC---GNG--HIVCNRCCIELM---NKCPSCRLP 59 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc---~~G--H~~C~~C~~~~~---~~CP~Cr~~ 59 (252)
-.||+|...- .--+..= ..| +..|+-|-..|. .+||.|...
T Consensus 185 ~~CPvCGs~P---~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 185 TLCPACGSPP---VASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CcCCCCCChh---hhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 3799999865 3322221 245 579999988873 689999763
No 149
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=45.69 E-value=13 Score=27.31 Aligned_cols=36 Identities=22% Similarity=0.455 Sum_probs=26.6
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGH 62 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~ 62 (252)
.|.+|..-+ . ..||.+|..|--+- +.|..|...+..
T Consensus 46 ~C~~CK~~v---~------q~g~~YCq~CAYkk-GiCamCGKki~d 81 (90)
T PF10235_consen 46 KCKICKTKV---H------QPGAKYCQTCAYKK-GICAMCGKKILD 81 (90)
T ss_pred ccccccccc---c------cCCCccChhhhccc-CcccccCCeecc
Confidence 466666655 2 24889999997766 799999988743
No 150
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=44.81 E-value=15 Score=33.21 Aligned_cols=17 Identities=18% Similarity=0.477 Sum_probs=8.9
Q ss_pred CCceEEcc-CCceecccC
Q 048313 29 LLSVAECG-NGHIVCNRC 45 (252)
Q Consensus 29 ~~Pi~qc~-~GH~~C~~C 45 (252)
..+.|+|. |-+.||..|
T Consensus 342 ~~~~y~C~~Ck~~FCldC 359 (378)
T KOG2807|consen 342 SSGRYRCESCKNVFCLDC 359 (378)
T ss_pred CCCcEEchhccceeeccc
Confidence 34445554 555555555
No 151
>smart00301 DM Doublesex DNA-binding motif.
Probab=44.74 E-value=8.7 Score=25.36 Aligned_cols=40 Identities=18% Similarity=0.413 Sum_probs=30.0
Q ss_pred CceeeccchHHhHhhhCcccCcCCCCCCCCcccChhhHhhHh
Q 048313 86 CKEKMSYSKKYDHGKACHHARCSCPLAACNFVGSFNQIYQHF 127 (252)
Q Consensus 86 C~~~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g~~~~L~~Hl 127 (252)
|........++.|-..|+|+.+.|+ .|.....+..+....
T Consensus 8 CrnHg~~~~lKGHKr~C~~r~C~C~--kC~Li~~Rq~vma~q 47 (54)
T smart00301 8 CENHGVKVPLKGHKPECPFRDCECE--KCTLVEKRRALMALQ 47 (54)
T ss_pred HhcCCCeeccCCcCCCCCCCCCcCC--CCcChHHHHHHHHHH
Confidence 4445556678899999999999997 498877766665543
No 152
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=43.15 E-value=20 Score=27.41 Aligned_cols=44 Identities=25% Similarity=0.411 Sum_probs=26.4
Q ss_pred eeeecCCcccccCCCCceEEcc-CCceecccChhhhc----CCCCCCCc
Q 048313 15 VLHCFISFSSFIFTLLSVAECG-NGHIVCNRCCIELM----NKCPSCRL 58 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~~----~~CP~Cr~ 58 (252)
.-.|.+|..+|-....+-..|. |+|.+|+.|..... ..|.+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 3479999886411022335676 99999999976531 24766654
No 153
>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=42.17 E-value=9.3 Score=19.76 Aligned_cols=20 Identities=30% Similarity=0.580 Sum_probs=12.6
Q ss_pred CCCCCCCCccc-ChhhHhhHhhc
Q 048313 108 SCPLAACNFVG-SFNQIYQHFRG 129 (252)
Q Consensus 108 ~CP~~gC~~~g-~~~~L~~Hl~~ 129 (252)
.|| .|+... .+.+|..|++.
T Consensus 2 ~C~--~C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCP--ICGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EET--TTTEEESSHHHHHHHHHH
T ss_pred CCC--CCCCccCCHHHHHHHHhH
Confidence 455 376665 35677777765
No 154
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=42.07 E-value=16 Score=27.21 Aligned_cols=32 Identities=16% Similarity=0.359 Sum_probs=17.7
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccChh
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCI 47 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~ 47 (252)
+..+.||.|.+... .-|+-. .-+|+.|..|-.
T Consensus 19 pt~f~CP~Cge~~v--~v~~~k-~~~h~~C~~CG~ 50 (99)
T PRK14892 19 PKIFECPRCGKVSI--SVKIKK-NIAIITCGNCGL 50 (99)
T ss_pred CcEeECCCCCCeEe--eeecCC-CcceEECCCCCC
Confidence 46788999985430 223322 245666666643
No 155
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=41.66 E-value=22 Score=26.92 Aligned_cols=25 Identities=44% Similarity=0.901 Sum_probs=17.5
Q ss_pred eEEcc-CCc--eecccChhhhcCCCCCCCcC
Q 048313 32 VAECG-NGH--IVCNRCCIELMNKCPSCRLP 59 (252)
Q Consensus 32 i~qc~-~GH--~~C~~C~~~~~~~CP~Cr~~ 59 (252)
.+.|+ ||| .+..+|..+ .||.|...
T Consensus 42 ~~~C~~Cg~~~~~~~SCk~R---~CP~C~~~ 69 (111)
T PF14319_consen 42 RYRCEDCGHEKIVYNSCKNR---HCPSCQAK 69 (111)
T ss_pred eeecCCCCceEEecCcccCc---CCCCCCCh
Confidence 46676 665 577788774 68988764
No 156
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=41.57 E-value=13 Score=32.51 Aligned_cols=44 Identities=25% Similarity=0.485 Sum_probs=29.0
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccChhhhc-CCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM-NKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~-~~CP~Cr~~~~ 61 (252)
..+.|..|...| ...-.. -.|-++|-+|..+.. +.|-.|+.+|.
T Consensus 162 yHFkCt~C~keL---~sdaRe-vk~eLyClrChD~mgipiCgaC~rpIe 206 (332)
T KOG2272|consen 162 YHFKCTTCGKEL---TSDARE-VKGELYCLRCHDKMGIPICGACRRPIE 206 (332)
T ss_pred cceecccccccc---cchhhh-hccceeccccccccCCcccccccCchH
Confidence 456778887777 444332 467888888888752 45555676664
No 157
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=39.94 E-value=28 Score=35.15 Aligned_cols=22 Identities=27% Similarity=0.898 Sum_probs=13.0
Q ss_pred ecccChhhhcCCCCCCCcCCcccc
Q 048313 41 VCNRCCIELMNKCPSCRLPIGHSR 64 (252)
Q Consensus 41 ~C~~C~~~~~~~CP~Cr~~~~~~r 64 (252)
.|..|-.. ..||.|..++++.+
T Consensus 437 ~C~~Cg~v--~~Cp~Cd~~lt~H~ 458 (730)
T COG1198 437 LCRDCGYI--AECPNCDSPLTLHK 458 (730)
T ss_pred ecccCCCc--ccCCCCCcceEEec
Confidence 44444332 47888888876443
No 158
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.91 E-value=21 Score=34.45 Aligned_cols=23 Identities=26% Similarity=0.852 Sum_probs=16.7
Q ss_pred CCceecccChhh--hcCCCCCCCcC
Q 048313 37 NGHIVCNRCCIE--LMNKCPSCRLP 59 (252)
Q Consensus 37 ~GH~~C~~C~~~--~~~~CP~Cr~~ 59 (252)
.+...|..|-.+ ....||.|...
T Consensus 238 ~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 238 EGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred CCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 345788889655 34789999875
No 159
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.59 E-value=13 Score=29.00 Aligned_cols=43 Identities=12% Similarity=0.053 Sum_probs=23.5
Q ss_pred eEEccCCceecccChhhhcCCCCCCCcCCcccchh--HHHhheeeeEeeccc
Q 048313 32 VAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSI--AMEKVLESIQVTCEN 81 (252)
Q Consensus 32 i~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~--~le~~~~~l~v~C~~ 81 (252)
+..|+|||.||..=.+ +.- ...-+.|+. .|+.+.-+..++=++
T Consensus 70 v~rcecghsf~d~r~n-wkl------~a~i~vrdtee~lreiyp~s~ipdp~ 114 (165)
T COG4647 70 VIRCECGHSFGDYREN-WKL------HANIYVRDTEEKLREIYPKSDIPDPQ 114 (165)
T ss_pred EEEEeccccccChhhC-cee------eeEEEEcchHHHHHHhCcccCCCCch
Confidence 6789999999864322 110 000133443 466666666666554
No 160
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=39.40 E-value=21 Score=32.29 Aligned_cols=46 Identities=26% Similarity=0.587 Sum_probs=34.3
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
-.||+|.+++..+..+..-|+||+..|-.|...+ ...||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 3699999987332344455889999999998875 379999998753
No 161
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=38.64 E-value=20 Score=26.53 Aligned_cols=22 Identities=36% Similarity=0.940 Sum_probs=18.0
Q ss_pred eecccChhhh-------cCCCCCCCcCCc
Q 048313 40 IVCNRCCIEL-------MNKCPSCRLPIG 61 (252)
Q Consensus 40 ~~C~~C~~~~-------~~~CP~Cr~~~~ 61 (252)
++|+-|+..+ ...||.|+.+++
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 7899998875 268999999886
No 162
>PRK11827 hypothetical protein; Provisional
Probab=38.12 E-value=23 Score=23.89 Aligned_cols=12 Identities=8% Similarity=0.426 Sum_probs=10.4
Q ss_pred CeeeecCCcccc
Q 048313 14 TVLHCFISFSSF 25 (252)
Q Consensus 14 ~~l~C~iC~~~l 25 (252)
+.|.||+|...|
T Consensus 7 eILaCP~ckg~L 18 (60)
T PRK11827 7 EIIACPVCNGKL 18 (60)
T ss_pred hheECCCCCCcC
Confidence 568899999988
No 163
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=38.10 E-value=21 Score=36.08 Aligned_cols=38 Identities=21% Similarity=0.528 Sum_probs=25.0
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhh--hcCCCCCCCcC
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE--LMNKCPSCRLP 59 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~--~~~~CP~Cr~~ 59 (252)
+.||.|..+| .+.=..|...|.-|-.. ....||.|...
T Consensus 445 ~~Cp~Cd~~l------t~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSPL------TLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcce------EEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 4555555555 23223467899999654 45799999987
No 164
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=37.83 E-value=28 Score=31.44 Aligned_cols=41 Identities=29% Similarity=0.455 Sum_probs=28.2
Q ss_pred eeeecCCcccccCCCCceEE--ccCC--ceecccChhhhc---CCCCCCCc
Q 048313 15 VLHCFISFSSFIFTLLSVAE--CGNG--HIVCNRCCIELM---NKCPSCRL 58 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~q--c~~G--H~~C~~C~~~~~---~~CP~Cr~ 58 (252)
.-.||+|...- .--+.. -..| +..|+-|-..|. .+||.|..
T Consensus 187 ~~~CPvCGs~P---~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMP---VSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcc---hhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45799999865 333321 1345 578999988873 68999985
No 165
>PRK14873 primosome assembly protein PriA; Provisional
Probab=37.78 E-value=27 Score=34.98 Aligned_cols=39 Identities=18% Similarity=0.332 Sum_probs=22.5
Q ss_pred eeeecCCcccccCCCCceEEccCCceecccChhh-hcCCCCCCCcC
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIE-LMNKCPSCRLP 59 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~-~~~~CP~Cr~~ 59 (252)
...|+.|.-+| . +.=..+...|..|-.. ....||.|...
T Consensus 392 ~~~C~~C~~~L---~---~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 392 PARCRHCTGPL---G---LPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred eeECCCCCCce---e---EecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 34566666555 2 2212345678888443 34689999875
No 166
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=37.39 E-value=11 Score=38.33 Aligned_cols=48 Identities=23% Similarity=0.462 Sum_probs=0.0
Q ss_pred EEEeCCeeeecCCcccccCCCCceEEcc-CCc-----eecccChhhh-cCCCCCCCcCCc
Q 048313 9 FVLCTTVLHCFISFSSFIFTLLSVAECG-NGH-----IVCNRCCIEL-MNKCPSCRLPIG 61 (252)
Q Consensus 9 ~~~~~~~l~C~iC~~~l~~~~~Pi~qc~-~GH-----~~C~~C~~~~-~~~CP~Cr~~~~ 61 (252)
+.++.....||-|...- .. ..|+ ||- .+|..|.... ...||.|.....
T Consensus 649 i~vei~~r~Cp~Cg~~t---~~--~~Cp~CG~~T~~~~~Cp~C~~~~~~~~C~~C~~~~~ 703 (900)
T PF03833_consen 649 IEVEIGRRRCPKCGKET---FY--NRCPECGSHTEPVYVCPDCGIEVEEDECPKCGRETT 703 (900)
T ss_dssp ------------------------------------------------------------
T ss_pred eEEeeecccCcccCCcc---hh--hcCcccCCccccceeccccccccCccccccccccCc
Confidence 34566678899999876 22 3575 873 4899998876 368999987654
No 167
>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=36.67 E-value=19 Score=27.26 Aligned_cols=21 Identities=24% Similarity=0.665 Sum_probs=11.9
Q ss_pred eecccChhhh------cCCCCCCCcCC
Q 048313 40 IVCNRCCIEL------MNKCPSCRLPI 60 (252)
Q Consensus 40 ~~C~~C~~~~------~~~CP~Cr~~~ 60 (252)
+.|.+|-.+- .-.||.|...+
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCcc
Confidence 4555565542 13588887754
No 168
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.14 E-value=16 Score=30.19 Aligned_cols=46 Identities=22% Similarity=0.475 Sum_probs=26.8
Q ss_pred eeecCCcccccCCCCceEEcc---CCceecccChhhh--------------cCCCCCCCcCCc
Q 048313 16 LHCFISFSSFIFTLLSVAECG---NGHIVCNRCCIEL--------------MNKCPSCRLPIG 61 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~---~GH~~C~~C~~~~--------------~~~CP~Cr~~~~ 61 (252)
-.|.||+-.-+|-..|=+.|. ||..|=.-|+..| -+.||.|+.|+.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 346666655444233445564 4655555666543 157888888875
No 169
>PRK05580 primosome assembly protein PriA; Validated
Probab=34.94 E-value=27 Score=34.97 Aligned_cols=23 Identities=22% Similarity=0.775 Sum_probs=16.7
Q ss_pred CCceecccChhh--hcCCCCCCCcC
Q 048313 37 NGHIVCNRCCIE--LMNKCPSCRLP 59 (252)
Q Consensus 37 ~GH~~C~~C~~~--~~~~CP~Cr~~ 59 (252)
.+...|..|-.+ ....||.|...
T Consensus 406 ~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 406 QRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred CCeEECCCCcCCCCCCCCCCCCcCC
Confidence 345688899655 34689999775
No 170
>PLN02189 cellulose synthase
Probab=34.56 E-value=29 Score=36.29 Aligned_cols=45 Identities=22% Similarity=0.408 Sum_probs=33.3
Q ss_pred eecCCcccccC--CCCceEEcc-CCceecccChhhh----cCCCCCCCcCCc
Q 048313 17 HCFISFSSFIF--TLLSVAECG-NGHIVCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~--~~~Pi~qc~-~GH~~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
.|.||.+-+-- ...|..-|. ||--+|..|.+-- ++.||.|++...
T Consensus 36 ~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 36 VCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 89999987510 134666787 9999999998642 478999998753
No 171
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.29 E-value=13 Score=34.42 Aligned_cols=39 Identities=26% Similarity=0.486 Sum_probs=26.8
Q ss_pred eeecCCcccccC---CCCceEEccCCceecccChhhh-----c-CCCCCCC
Q 048313 16 LHCFISFSSFIF---TLLSVAECGNGHIVCNRCCIEL-----M-NKCPSCR 57 (252)
Q Consensus 16 l~C~iC~~~l~~---~~~Pi~qc~~GH~~C~~C~~~~-----~-~~CP~Cr 57 (252)
-.|.|| .-+++ +..||- .|||+|=..|...| . ..||.|+
T Consensus 5 A~C~Ic-~d~~p~~~~l~~i~--~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHIC-IDGRPNDHELGPIG--TCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEe-ccCCcccccccccc--chhhHHHHHHHHHHHccCCccCCCCcee
Confidence 368899 33412 223543 47999999999886 1 4799999
No 172
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=34.25 E-value=49 Score=19.39 Aligned_cols=27 Identities=15% Similarity=0.183 Sum_probs=17.0
Q ss_pred CeeeecCCcccccCCCCceEEccCCceecccCh
Q 048313 14 TVLHCFISFSSFIFTLLSVAECGNGHIVCNRCC 46 (252)
Q Consensus 14 ~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~ 46 (252)
+...|+.|...+ ++.-..+..+|..|-
T Consensus 2 ~~~~C~~C~~~~------i~~~~~~~~~C~~Cg 28 (33)
T PF08792_consen 2 NLKKCSKCGGNG------IVNKEDDYEVCIFCG 28 (33)
T ss_pred CceEcCCCCCCe------EEEecCCeEEcccCC
Confidence 345677887776 443356677776663
No 173
>PF00751 DM: DM DNA binding domain; InterPro: IPR001275 This domain was first discovered in the doublesex proteins of Drosophila melanogaster and is also seen in proteins from Caenorhabditis elegans []. In D. melanogaster the doublesex gene controls somatic sexual differentiation by producing alternatively spliced mRNAs encoding related sex-specific polypeptides []. These proteins are believed to function as transcription factors on downstream sex-determination genes, especially on neuroblast differentiation and yolk protein genes transcription [, ]. The DM domain binds DNA as a dimer, allowing the recognition of pseudopalindromic sequences [, , ]. The NMR analysis of the DSX DM domain [] revealed a novel zinc module containing 'intertwined' CCHC and HCCC zinc-binding sites. The recognition of the DNA requires the carboxy-terminal basic tail which contacts the minor groove of the target sequence.; GO: 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0007548 sex differentiation, 0005634 nucleus; PDB: 1LPV_A.
Probab=33.98 E-value=9.8 Score=24.36 Aligned_cols=28 Identities=18% Similarity=0.517 Sum_probs=15.4
Q ss_pred eeccchHHhHhhhCcccCcCCCCCCCCccc
Q 048313 89 KMSYSKKYDHGKACHHARCSCPLAACNFVG 118 (252)
Q Consensus 89 ~~~~~~~~~H~~~C~~~p~~CP~~gC~~~g 118 (252)
......++.|...|+|+.+.|. .|....
T Consensus 11 HG~~~~lKgHk~~C~~~~C~C~--kC~li~ 38 (47)
T PF00751_consen 11 HGVIVPLKGHKRYCPFRDCQCD--KCALIA 38 (47)
T ss_dssp TT---TTTT-GGG-TTTT--SH--HHHHHH
T ss_pred CCcccchhhhccccCcCCCcCC--CCcCcH
Confidence 3446678899999999999985 466443
No 174
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=33.93 E-value=18 Score=25.73 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=18.5
Q ss_pred CCeeeecCCccccc--CCCCceEEcc-CCceecccChhh----hcCCCCCCCcCCc
Q 048313 13 TTVLHCFISFSSFI--FTLLSVAECG-NGHIVCNRCCIE----LMNKCPSCRLPIG 61 (252)
Q Consensus 13 ~~~l~C~iC~~~l~--~~~~Pi~qc~-~GH~~C~~C~~~----~~~~CP~Cr~~~~ 61 (252)
++.-.|.||.+-+- ..-.+..-|. |+-.+|+.|.+- -...||.|+.+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 44567999987541 1133445565 788899999863 1368999998754
No 175
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=33.88 E-value=19 Score=19.75 Aligned_cols=6 Identities=50% Similarity=1.508 Sum_probs=2.5
Q ss_pred CCCCCC
Q 048313 52 KCPSCR 57 (252)
Q Consensus 52 ~CP~Cr 57 (252)
.||.|.
T Consensus 18 fC~~CG 23 (26)
T PF13248_consen 18 FCPNCG 23 (26)
T ss_pred cChhhC
Confidence 344443
No 176
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=32.75 E-value=20 Score=33.03 Aligned_cols=30 Identities=23% Similarity=0.590 Sum_probs=20.5
Q ss_pred ceEEccCCceecccChhhh----------------cCCCCCCCcCC
Q 048313 31 SVAECGNGHIVCNRCCIEL----------------MNKCPSCRLPI 60 (252)
Q Consensus 31 Pi~qc~~GH~~C~~C~~~~----------------~~~CP~Cr~~~ 60 (252)
+-.+|-|.=.-|-+|..++ ...||+||..+
T Consensus 305 ~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 305 PCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred CCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 4445556666788888875 13699999875
No 177
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=32.41 E-value=34 Score=27.99 Aligned_cols=24 Identities=33% Similarity=0.469 Sum_probs=14.7
Q ss_pred eEEcc-CCceecccChhhhcCCCCCCCcC
Q 048313 32 VAECG-NGHIVCNRCCIELMNKCPSCRLP 59 (252)
Q Consensus 32 i~qc~-~GH~~C~~C~~~~~~~CP~Cr~~ 59 (252)
++.|. |||+. .......||+|..+
T Consensus 134 ~~vC~vCGy~~----~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTH----EGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcc----cCCCCCcCCCCCCh
Confidence 56666 67642 22334689999865
No 178
>PRK11823 DNA repair protein RadA; Provisional
Probab=32.25 E-value=28 Score=32.96 Aligned_cols=25 Identities=20% Similarity=0.464 Sum_probs=15.7
Q ss_pred CceEEcc-CCceecccChhhhcCCCCCCCcC
Q 048313 30 LSVAECG-NGHIVCNRCCIELMNKCPSCRLP 59 (252)
Q Consensus 30 ~Pi~qc~-~GH~~C~~C~~~~~~~CP~Cr~~ 59 (252)
.+.|+|. ||+. -.+|..+||.|+..
T Consensus 5 ~~~y~C~~Cg~~-----~~~~~g~Cp~C~~w 30 (446)
T PRK11823 5 KTAYVCQECGAE-----SPKWLGRCPECGAW 30 (446)
T ss_pred CCeEECCcCCCC-----CcccCeeCcCCCCc
Confidence 4457775 6653 24566788888764
No 179
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=32.25 E-value=26 Score=33.36 Aligned_cols=25 Identities=28% Similarity=0.422 Sum_probs=16.5
Q ss_pred CceEEcc-CCceecccChhhhcCCCCCCCcC
Q 048313 30 LSVAECG-NGHIVCNRCCIELMNKCPSCRLP 59 (252)
Q Consensus 30 ~Pi~qc~-~GH~~C~~C~~~~~~~CP~Cr~~ 59 (252)
.+.|+|. ||+. -.+|..+||.|+..
T Consensus 5 ~~~y~C~~Cg~~-----~~~~~g~Cp~C~~w 30 (454)
T TIGR00416 5 KSKFVCQHCGAD-----SPKWQGKCPACHAW 30 (454)
T ss_pred CCeEECCcCCCC-----CccccEECcCCCCc
Confidence 4567776 6653 24566889999764
No 180
>PLN02195 cellulose synthase A
Probab=32.24 E-value=35 Score=35.47 Aligned_cols=51 Identities=14% Similarity=0.149 Sum_probs=36.1
Q ss_pred EeCCeeeecCCccccc-C-CCCceEEcc-CCceecccChhh----hcCCCCCCCcCCc
Q 048313 11 LCTTVLHCFISFSSFI-F-TLLSVAECG-NGHIVCNRCCIE----LMNKCPSCRLPIG 61 (252)
Q Consensus 11 ~~~~~l~C~iC~~~l~-~-~~~Pi~qc~-~GH~~C~~C~~~----~~~~CP~Cr~~~~ 61 (252)
|+...-.|.||.+-+- + ...|..-|. ||--+|+.|.+- -...||.|+.+..
T Consensus 2 ~~~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 2 MESGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CcCCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3445568999998440 0 135666786 999999999863 2368999998765
No 181
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=31.81 E-value=25 Score=24.89 Aligned_cols=34 Identities=26% Similarity=0.388 Sum_probs=19.9
Q ss_pred HhhhCcccCcCCCCCCCCccc-ChhhHhhHhhcc-cCC
Q 048313 98 HGKACHHARCSCPLAACNFVG-SFNQIYQHFRGV-HKH 133 (252)
Q Consensus 98 H~~~C~~~p~~CP~~gC~~~g-~~~~L~~Hl~~~-H~~ 133 (252)
+...-......|+. |+... +...|..|++.. |..
T Consensus 42 ~~~~~~~~~~~C~~--C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 42 YLRKKVKESFRCPY--CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp -------SSEEBSS--SS-EESSHHHHHHHHHHTTTTC
T ss_pred ccccccCCCCCCCc--cCCCCcCHHHHHHHHcCccCCC
Confidence 33333333678875 88776 689999999974 654
No 182
>PLN02436 cellulose synthase A
Probab=31.56 E-value=38 Score=35.59 Aligned_cols=45 Identities=20% Similarity=0.391 Sum_probs=33.3
Q ss_pred eecCCccccc--CCCCceEEcc-CCceecccChhhh----cCCCCCCCcCCc
Q 048313 17 HCFISFSSFI--FTLLSVAECG-NGHIVCNRCCIEL----MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~--~~~~Pi~qc~-~GH~~C~~C~~~~----~~~CP~Cr~~~~ 61 (252)
.|.||.+-+- ..-.|..-|. ||--+|..|.+-- ++.||.|++...
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 8999998640 0134666787 9999999998642 478999998753
No 183
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=31.16 E-value=40 Score=35.44 Aligned_cols=48 Identities=19% Similarity=0.292 Sum_probs=33.9
Q ss_pred CeeeecCCccccc--CCCCceEEcc-CCceecccChhh----hcCCCCCCCcCCc
Q 048313 14 TVLHCFISFSSFI--FTLLSVAECG-NGHIVCNRCCIE----LMNKCPSCRLPIG 61 (252)
Q Consensus 14 ~~l~C~iC~~~l~--~~~~Pi~qc~-~GH~~C~~C~~~----~~~~CP~Cr~~~~ 61 (252)
..-.|.||.+-+- ..-.|..-|. ||--+|+.|.+- -...||.|+.+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3347999988640 0134666786 999999999863 2478999998753
No 184
>KOG0712 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=31.05 E-value=4.2e+02 Score=24.29 Aligned_cols=80 Identities=20% Similarity=0.377 Sum_probs=46.1
Q ss_pred CCceecccChhhh-----cCCCCCCCcCCcccchhHHHh-heeeeEeeccccCCCCceeeccchHHhHhhhCcccCcCCC
Q 048313 37 NGHIVCNRCCIEL-----MNKCPSCRLPIGHSRSIAMEK-VLESIQVTCENEDHGCKEKMSYSKKYDHGKACHHARCSCP 110 (252)
Q Consensus 37 ~GH~~C~~C~~~~-----~~~CP~Cr~~~~~~r~~~le~-~~~~l~v~C~~~~~GC~~~~~~~~~~~H~~~C~~~p~~CP 110 (252)
.....|+.|-..- ...|+.|+..-...+-+.+.- ++.+....|. .|.-........+ .||
T Consensus 125 ~~~~iCs~C~GsGgksg~~~~C~~C~GsGv~~~~~~~gPg~~qs~q~~C~----~C~G~G~~~~~kd----------~C~ 190 (337)
T KOG0712|consen 125 SRNFICSKCSGSGGKSGSAPKCTTCRGSGVQTRTRQMGPGMVQSPQLVCD----SCNGSGETISLKD----------RCK 190 (337)
T ss_pred ccCccCCcCCCCCCCCCCCCCCCCCCCCCceeEEEeccccccccceeEec----cCCCccccccccc----------cCc
Confidence 4567899997653 257999998754444444444 5667777776 3555444322111 565
Q ss_pred CCCCCcc---cChhhHhhHhhcccC
Q 048313 111 LAACNFV---GSFNQIYQHFRGVHK 132 (252)
Q Consensus 111 ~~gC~~~---g~~~~L~~Hl~~~H~ 132 (252)
. |.-. -.++.|..|...-|.
T Consensus 191 ~--C~G~~~v~~kkil~v~V~~g~~ 213 (337)
T KOG0712|consen 191 T--CSGAKVVREKKILEVHVEPGMP 213 (337)
T ss_pred c--cccchhhhhhheeeccccCCCc
Confidence 3 5433 344566667665443
No 185
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=29.76 E-value=50 Score=22.30 Aligned_cols=28 Identities=18% Similarity=0.523 Sum_probs=17.3
Q ss_pred CCeeeecCCcccccCCCCceEEccCCceecccCh
Q 048313 13 TTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCC 46 (252)
Q Consensus 13 ~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~ 46 (252)
++.|-||+|..+| . +-=+.+-.+|..|.
T Consensus 6 LeiLaCP~~kg~L---~---~~~~~~~L~c~~~~ 33 (60)
T COG2835 6 LEILACPVCKGPL---V---YDEEKQELICPRCK 33 (60)
T ss_pred heeeeccCcCCcc---e---EeccCCEEEecccC
Confidence 3568899999988 2 22244555555553
No 186
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=29.63 E-value=53 Score=18.52 Aligned_cols=17 Identities=12% Similarity=0.122 Sum_probs=12.9
Q ss_pred eecCCcccccCCCCc-eEEcc
Q 048313 17 HCFISFSSFIFTLLS-VAECG 36 (252)
Q Consensus 17 ~C~iC~~~l~~~~~P-i~qc~ 36 (252)
.|.+|.+.+ ... .|.|.
T Consensus 2 ~C~~C~~~~---~~~~~Y~C~ 19 (30)
T PF03107_consen 2 WCDVCRRKI---DGFYFYHCS 19 (30)
T ss_pred CCCCCCCCc---CCCEeEEeC
Confidence 588888888 666 77775
No 187
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.09 E-value=32 Score=24.50 Aligned_cols=45 Identities=29% Similarity=0.473 Sum_probs=25.1
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcCCcccchhHHHhheeeeEe
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQV 77 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v 77 (252)
+.||+|.--| .....+ |- .+ ..||.||...- .--.++++|+...+
T Consensus 2 llCP~C~v~l---~~~~rs---~v--------Ei-D~CPrCrGVWL--DrGELdKli~r~r~ 46 (88)
T COG3809 2 LLCPICGVEL---VMSVRS---GV--------EI-DYCPRCRGVWL--DRGELDKLIERSRY 46 (88)
T ss_pred cccCcCCcee---eeeeec---Cc--------ee-eeCCccccEee--cchhHHHHHHHhcC
Confidence 5789998877 443322 21 11 57999987532 11235666655443
No 188
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=28.88 E-value=46 Score=22.65 Aligned_cols=13 Identities=15% Similarity=0.409 Sum_probs=8.8
Q ss_pred CCeeeecCCcccc
Q 048313 13 TTVLHCFISFSSF 25 (252)
Q Consensus 13 ~~~l~C~iC~~~l 25 (252)
.+.|.||.|..+|
T Consensus 5 lniL~Cp~ck~pL 17 (68)
T PF03966_consen 5 LNILACPVCKGPL 17 (68)
T ss_dssp CGTBB-TTTSSBE
T ss_pred HhhhcCCCCCCcc
Confidence 3567888888776
No 189
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=28.72 E-value=37 Score=20.29 Aligned_cols=24 Identities=25% Similarity=0.520 Sum_probs=15.4
Q ss_pred eeecCCcccccCCCCceEEccCCceecccCh
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCC 46 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~ 46 (252)
..|++|...+ +.-..|..+|..|-
T Consensus 9 ~~C~~C~~~~-------~~~~dG~~yC~~cG 32 (36)
T PF11781_consen 9 EPCPVCGSRW-------FYSDDGFYYCDRCG 32 (36)
T ss_pred CcCCCCCCeE-------eEccCCEEEhhhCc
Confidence 4599998886 22345666666554
No 190
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=28.70 E-value=14 Score=21.23 Aligned_cols=10 Identities=40% Similarity=0.949 Sum_probs=3.9
Q ss_pred ceecccChhh
Q 048313 39 HIVCNRCCIE 48 (252)
Q Consensus 39 H~~C~~C~~~ 48 (252)
|.||+.|-..
T Consensus 3 ~rfC~~CG~~ 12 (32)
T PF09297_consen 3 HRFCGRCGAP 12 (32)
T ss_dssp TSB-TTT--B
T ss_pred CcccCcCCcc
Confidence 4566666543
No 191
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=28.56 E-value=12 Score=32.34 Aligned_cols=42 Identities=19% Similarity=0.343 Sum_probs=29.5
Q ss_pred eeeecCCcc--cccCCCCce--EEcc-CCceecccChhhh----cCCCC--CCCcC
Q 048313 15 VLHCFISFS--SFIFTLLSV--AECG-NGHIVCNRCCIEL----MNKCP--SCRLP 59 (252)
Q Consensus 15 ~l~C~iC~~--~l~~~~~Pi--~qc~-~GH~~C~~C~~~~----~~~CP--~Cr~~ 59 (252)
.-.||+|.. .| .|-+ +.-+ |=|..|.+|..++ +..|| -|.+.
T Consensus 10 d~~CPvCksDrYL---nPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 10 DRRCPVCKSDRYL---NPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred cccCCcccccccc---CCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 347999975 34 4443 3333 7899999999986 46899 57654
No 192
>PLN02400 cellulose synthase
Probab=28.33 E-value=48 Score=34.90 Aligned_cols=45 Identities=22% Similarity=0.341 Sum_probs=32.6
Q ss_pred eecCCcccccC--CCCceEEcc-CCceecccChhh----hcCCCCCCCcCCc
Q 048313 17 HCFISFSSFIF--TLLSVAECG-NGHIVCNRCCIE----LMNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~--~~~Pi~qc~-~GH~~C~~C~~~----~~~~CP~Cr~~~~ 61 (252)
.|.||.+-+-- .-.|..-|. ||-.+|+.|.+- -.+.||.|+....
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 89999986400 134656776 899999999863 2368999998753
No 193
>PF01754 zf-A20: A20-like zinc finger; InterPro: IPR002653 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in A20. A20 is an inhibitor of cell death that inhibits NF-kappaB activation via the tumour necrosis factor receptor associated factor pathway []. The zinc finger domains appear to mediate self-association in A20. These fingers also mediate IL-1-induced NF-kappa B activation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding; PDB: 2FIF_F 2FID_B 2C7N_C 2C7M_A 2L00_A 2KZY_A 2EQG_A 2EQE_A 3OJ3_J 3OJ4_C ....
Probab=26.62 E-value=50 Score=18.16 Aligned_cols=15 Identities=33% Similarity=0.669 Sum_probs=9.2
Q ss_pred CcCCCCCCCCcccChh
Q 048313 106 RCSCPLAACNFVGSFN 121 (252)
Q Consensus 106 p~~CP~~gC~~~g~~~ 121 (252)
|..| .+||+|.|+.+
T Consensus 1 ~~~C-~~gCgf~Gs~~ 15 (25)
T PF01754_consen 1 PSLC-ANGCGFYGSPA 15 (25)
T ss_dssp SSB--TTTSSSB-BGG
T ss_pred CCcc-cCCCCCccccc
Confidence 3567 57999988754
No 194
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 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 RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=26.41 E-value=17 Score=23.31 Aligned_cols=40 Identities=23% Similarity=0.650 Sum_probs=22.0
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhh---cCCCCCCCcCCc
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL---MNKCPSCRLPIG 61 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~---~~~CP~Cr~~~~ 61 (252)
.|.-|-..- +. ...| ..|-.|-.|+..+ ...||+|..++.
T Consensus 4 nCKsCWf~~---k~-Li~C-~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 4 NCKSCWFAN---KG-LIKC-SDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp ---SS-S-----SS-EEE--SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred cChhhhhcC---CC-eeee-cchhHHHHHHHHHhccccCCCcccCcCc
Confidence 455554433 33 4455 5699999999875 478999998764
No 195
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=26.20 E-value=56 Score=31.40 Aligned_cols=36 Identities=19% Similarity=0.404 Sum_probs=20.5
Q ss_pred CCCCCCCcCCcccchh--------HHHhheeeeEeeccccCCCCceee
Q 048313 51 NKCPSCRLPIGHSRSI--------AMEKVLESIQVTCENEDHGCKEKM 90 (252)
Q Consensus 51 ~~CP~Cr~~~~~~r~~--------~le~~~~~l~v~C~~~~~GC~~~~ 90 (252)
..||.|..++...... .-...-...-+.|.| |.|..
T Consensus 53 f~CP~C~~~L~~~~~~~~~~~~~~~~~~~~~~~~l~C~~----C~Wss 96 (483)
T PF05502_consen 53 FDCPICFSPLSVRASDTPPSPPDPSSDSGGKPYYLSCSY----CRWSS 96 (483)
T ss_pred ccCCCCCCcceeEecccccccccccccCCCCCEEEECCC----ceeec
Confidence 4699999887522111 111122345678986 99863
No 196
>PRK11595 DNA utilization protein GntX; Provisional
Probab=25.82 E-value=39 Score=28.75 Aligned_cols=35 Identities=31% Similarity=0.719 Sum_probs=23.7
Q ss_pred eecCCcccccCCCCceEEccCCceecccChhhhc---CCCCCCCcCC
Q 048313 17 HCFISFSSFIFTLLSVAECGNGHIVCNRCCIELM---NKCPSCRLPI 60 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~---~~CP~Cr~~~ 60 (252)
.|.+|..++ ..+ ...+|..|..++. +.||.|..++
T Consensus 7 ~C~~C~~~~---~~~------~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPL---ALS------HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCcc---CCC------CCcccHHHHhhCCcccCcCccCCCcC
Confidence 488888776 322 2347999988753 5699998764
No 197
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=25.67 E-value=97 Score=18.34 Aligned_cols=10 Identities=10% Similarity=0.374 Sum_probs=6.6
Q ss_pred eeecCCcccc
Q 048313 16 LHCFISFSSF 25 (252)
Q Consensus 16 l~C~iC~~~l 25 (252)
+.||-|...+
T Consensus 3 i~Cp~C~~~y 12 (36)
T PF13717_consen 3 ITCPNCQAKY 12 (36)
T ss_pred EECCCCCCEE
Confidence 5677776655
No 198
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=25.54 E-value=51 Score=20.29 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=13.1
Q ss_pred eeecCCcccccCCCCceEEc--cCCceecccC
Q 048313 16 LHCFISFSSFIFTLLSVAEC--GNGHIVCNRC 45 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc--~~GH~~C~~C 45 (252)
--||+|..-- +--|+.= ..|+.+|..|
T Consensus 4 ~pCP~CGG~D---rFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 4 GPCPICGGKD---RFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp E--TTTT-TT---TEEEETT----S-EEETTT
T ss_pred CCCCCCcCcc---ccccCcCcccCCCEECCCC
Confidence 3589997644 3323310 2499999999
No 199
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=25.47 E-value=23 Score=27.94 Aligned_cols=35 Identities=20% Similarity=0.321 Sum_probs=23.7
Q ss_pred eeeecCCcccccCCCCceEEccCC-----ceecccChhhh
Q 048313 15 VLHCFISFSSFIFTLLSVAECGNG-----HIVCNRCCIEL 49 (252)
Q Consensus 15 ~l~C~iC~~~l~~~~~Pi~qc~~G-----H~~C~~C~~~~ 49 (252)
..+|.||++-+-+...-|.....| |.||..|..++
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 578999999872211233332333 78999999998
No 200
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=25.40 E-value=63 Score=29.32 Aligned_cols=32 Identities=19% Similarity=0.463 Sum_probs=24.3
Q ss_pred eCCeeeecCCcccccCCCCce--EEccCCceecccChh
Q 048313 12 CTTVLHCFISFSSFIFTLLSV--AECGNGHIVCNRCCI 47 (252)
Q Consensus 12 ~~~~l~C~iC~~~l~~~~~Pi--~qc~~GH~~C~~C~~ 47 (252)
+.....|-.|..+- +|| ++|...|+.|-.|..
T Consensus 218 N~~ni~C~~Ctdv~----~~vlvf~Cns~HvtC~dCFr 251 (446)
T KOG0006|consen 218 NSRNITCITCTDVR----SPVLVFQCNSRHVTCLDCFR 251 (446)
T ss_pred ccccceeEEecCCc----cceEEEecCCceeehHHhhh
Confidence 34456788888765 444 788889999999976
No 201
>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=25.30 E-value=41 Score=26.27 Aligned_cols=10 Identities=10% Similarity=0.013 Sum_probs=6.7
Q ss_pred CCCCCCCcCC
Q 048313 51 NKCPSCRLPI 60 (252)
Q Consensus 51 ~~CP~Cr~~~ 60 (252)
..||.|...+
T Consensus 27 ~vcP~cg~~~ 36 (129)
T TIGR02300 27 AVSPYTGEQF 36 (129)
T ss_pred ccCCCcCCcc
Confidence 4688887654
No 202
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.26 E-value=35 Score=34.81 Aligned_cols=41 Identities=22% Similarity=0.385 Sum_probs=34.3
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChhhhcCCCCCCCcC
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCIELMNKCPSCRLP 59 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~~~~CP~Cr~~ 59 (252)
=.|..|...| .-|...=.|||.+=..|.+.-...||.|+..
T Consensus 841 skCs~C~~~L---dlP~VhF~CgHsyHqhC~e~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTL---DLPFVHFLCGHSYHQHCLEDKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCcc---ccceeeeecccHHHHHhhccCcccCCccchh
Confidence 4799999999 8887655789999999998655799999873
No 203
>cd03445 Thioesterase_II_repeat2 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP) domains, respectively. TEII has two tandem asymmetric hot dog folds that are structurally similar to one found in PaaI thioesterase, 4-hydroxybenzoyl-CoA thioesterase (4HBT) and beta-hydroxydecanoyl-ACP dehydratase and thus, the TEII monomer is equivalent to the homodimeric form of the latter three enzymes. Human TEII is expressed in T cells and has been shown to bind the product of the HIV-1 Nef gene.
Probab=24.98 E-value=2e+02 Score=20.66 Aligned_cols=31 Identities=13% Similarity=0.196 Sum_probs=25.7
Q ss_pred cEEEEEeecCC-CCCCeEEEEEEeeCCCeEEE
Q 048313 177 YRISVNCIAPP-CKGGIVYSIVAKSGGAAYKF 207 (252)
Q Consensus 177 ~~vsv~cIgp~-~a~~f~Y~l~~~~~~~~l~~ 207 (252)
+.++..+++|. ......|+++.-.+||++..
T Consensus 42 ~s~~~~Fl~p~~~~~pv~~~v~~lr~GRs~~~ 73 (94)
T cd03445 42 HSLHSYFLRPGDPDQPIEYEVERLRDGRSFAT 73 (94)
T ss_pred EEEEEEecCCCCCCCCEEEEEEEEECCCcEEE
Confidence 47888999998 66789999999999997543
No 204
>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=24.77 E-value=39 Score=22.10 Aligned_cols=28 Identities=21% Similarity=0.446 Sum_probs=18.2
Q ss_pred ccCcCCCCCCCCcccC-hhhHhhHhhcccCC
Q 048313 104 HARCSCPLAACNFVGS-FNQIYQHFRGVHKH 133 (252)
Q Consensus 104 ~~p~~CP~~gC~~~g~-~~~L~~Hl~~~H~~ 133 (252)
..|-.||. |+...+ ..+|..|+...|..
T Consensus 22 ~~PatCP~--C~a~~~~srnLrRHle~~H~~ 50 (54)
T PF09237_consen 22 EQPATCPI--CGAVIRQSRNLRRHLEIRHFK 50 (54)
T ss_dssp S--EE-TT--T--EESSHHHHHHHHHHHTTT
T ss_pred CCCCCCCc--chhhccchhhHHHHHHHHhcc
Confidence 45668986 888774 68999999988874
No 205
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (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 seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=24.61 E-value=67 Score=19.65 Aligned_cols=27 Identities=26% Similarity=0.507 Sum_probs=15.0
Q ss_pred eeecCCcccccCCCCceEEccCCceecccChh
Q 048313 16 LHCFISFSSFIFTLLSVAECGNGHIVCNRCCI 47 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~ 47 (252)
+.||.|.... . ++-=..|-.+|..|-.
T Consensus 1 m~Cp~Cg~~~---~--~~D~~~g~~vC~~CG~ 27 (43)
T PF08271_consen 1 MKCPNCGSKE---I--VFDPERGELVCPNCGL 27 (43)
T ss_dssp ESBTTTSSSE---E--EEETTTTEEEETTT-B
T ss_pred CCCcCCcCCc---e--EEcCCCCeEECCCCCC
Confidence 4688887643 0 1222357777777744
No 206
>PF14353 CpXC: CpXC protein
Probab=24.54 E-value=67 Score=24.57 Aligned_cols=10 Identities=30% Similarity=0.909 Sum_probs=7.1
Q ss_pred CCCCCCcCCc
Q 048313 52 KCPSCRLPIG 61 (252)
Q Consensus 52 ~CP~Cr~~~~ 61 (252)
.||.|+..+.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5888887653
No 207
>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=24.52 E-value=41 Score=17.97 Aligned_cols=24 Identities=21% Similarity=0.321 Sum_probs=15.6
Q ss_pred cCCCCCCCCccc-ChhhHhhHhhcccC
Q 048313 107 CSCPLAACNFVG-SFNQIYQHFRGVHK 132 (252)
Q Consensus 107 ~~CP~~gC~~~g-~~~~L~~Hl~~~H~ 132 (252)
..|.. |+... ...+|..|.+..|+
T Consensus 2 ~~C~~--C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 2 FECDE--CGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp EEETT--TTEEESSHHHHHHHHCTTTT
T ss_pred CCCCc--cCCccCChhHHHHHhHHhcC
Confidence 45543 76655 46888899876553
No 208
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=24.23 E-value=51 Score=24.05 Aligned_cols=24 Identities=29% Similarity=0.648 Sum_probs=16.9
Q ss_pred CceecccChhhh--------------cCCCCCCCcCCc
Q 048313 38 GHIVCNRCCIEL--------------MNKCPSCRLPIG 61 (252)
Q Consensus 38 GH~~C~~C~~~~--------------~~~CP~Cr~~~~ 61 (252)
+...|..|..++ .++|..|++++.
T Consensus 32 ~rS~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CCCcCcCCCCcCcccccchHHHHHHhCCCCcccCCCCC
Confidence 456677776653 378999988875
No 209
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=23.99 E-value=31 Score=23.31 Aligned_cols=29 Identities=24% Similarity=0.436 Sum_probs=12.4
Q ss_pred CceEEccCCceecccChhhh-------cCCCCCCCc
Q 048313 30 LSVAECGNGHIVCNRCCIEL-------MNKCPSCRL 58 (252)
Q Consensus 30 ~Pi~qc~~GH~~C~~C~~~~-------~~~CP~Cr~ 58 (252)
||-|+-...++.|..|-.+- ..+|+.|+.
T Consensus 21 P~~Y~~~~v~IlCNDC~~~s~v~fH~lg~KC~~C~S 56 (61)
T PF14599_consen 21 PEEYRNKKVWILCNDCNAKSEVPFHFLGHKCSHCGS 56 (61)
T ss_dssp -------EEEEEESSS--EEEEE--TT----TTTS-
T ss_pred CHHHhCCEEEEECCCCCCccceeeeHhhhcCCCCCC
Confidence 44455345789999998762 368999975
No 210
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=23.75 E-value=22 Score=22.18 Aligned_cols=11 Identities=36% Similarity=0.815 Sum_probs=7.7
Q ss_pred CCCCCCCcCCc
Q 048313 51 NKCPSCRLPIG 61 (252)
Q Consensus 51 ~~CP~Cr~~~~ 61 (252)
..||.|+.++.
T Consensus 22 ~~Cp~CG~~~~ 32 (46)
T PRK00398 22 VRCPYCGYRIL 32 (46)
T ss_pred eECCCCCCeEE
Confidence 46888877654
No 211
>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=23.75 E-value=43 Score=19.75 Aligned_cols=6 Identities=50% Similarity=1.824 Sum_probs=2.7
Q ss_pred CCCCCc
Q 048313 53 CPSCRL 58 (252)
Q Consensus 53 CP~Cr~ 58 (252)
||.|..
T Consensus 5 CP~C~~ 10 (38)
T TIGR02098 5 CPNCKT 10 (38)
T ss_pred CCCCCC
Confidence 444444
No 212
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=23.51 E-value=21 Score=30.31 Aligned_cols=115 Identities=13% Similarity=0.206 Sum_probs=64.8
Q ss_pred EEEeCCeeeecCCcccccCCCCceEEc-cCCceecccChhhhcCCCCCCCcCCcccchhHHHhheeeeEeeccccCCCCc
Q 048313 9 FVLCTTVLHCFISFSSFIFTLLSVAEC-GNGHIVCNRCCIELMNKCPSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCK 87 (252)
Q Consensus 9 ~~~~~~~l~C~iC~~~l~~~~~Pi~qc-~~GH~~C~~C~~~~~~~CP~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~ 87 (252)
...|.+.+.|.+|.+-+ . +|= -+.|+-|.+=+.+ ..|..|.+.+..+ ..+.+-+..-.--=||+-.-|.
T Consensus 111 sssd~d~ftCrvCgK~F---~---lQRmlnrh~kch~~vkr--~lct~cgkgfndt--fdlkrh~rthtgvrpykc~~c~ 180 (267)
T KOG3576|consen 111 SSSDQDSFTCRVCGKKF---G---LQRMLNRHLKCHSDVKR--HLCTFCGKGFNDT--FDLKRHTRTHTGVRPYKCSLCE 180 (267)
T ss_pred CCCCCCeeeeehhhhhh---h---HHHHHHHHhhhccHHHH--HHHhhccCcccch--hhhhhhhccccCccccchhhhh
Confidence 34567788899998887 3 221 2677766554444 3688888766432 2333333322222233323466
Q ss_pred eeec-cchHHhHhhhC-----cc-------cCcCCCCCCCCcccC-hhhHhhHhhcccCCCC
Q 048313 88 EKMS-YSKKYDHGKAC-----HH-------ARCSCPLAACNFVGS-FNQIYQHFRGVHKHAA 135 (252)
Q Consensus 88 ~~~~-~~~~~~H~~~C-----~~-------~p~~CP~~gC~~~g~-~~~L~~Hl~~~H~~~~ 135 (252)
..++ .-.++.|.+.= .| ..+-|. .|+++.. .+....|++..|....
T Consensus 181 kaftqrcsleshl~kvhgv~~~yaykerr~kl~vce--dcg~t~~~~e~~~~h~~~~hp~Sp 240 (267)
T KOG3576|consen 181 KAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCE--DCGYTSERPEVYYLHLKLHHPFSP 240 (267)
T ss_pred HHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeec--ccCCCCCChhHHHHHHHhcCCCCH
Confidence 6544 34566665321 11 235575 4888875 4667889988888654
No 213
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=23.51 E-value=43 Score=21.08 Aligned_cols=8 Identities=13% Similarity=0.085 Sum_probs=6.5
Q ss_pred ecCCcccc
Q 048313 18 CFISFSSF 25 (252)
Q Consensus 18 C~iC~~~l 25 (252)
||-|...|
T Consensus 3 Cp~Cg~~l 10 (52)
T smart00661 3 CPKCGNML 10 (52)
T ss_pred CCCCCCcc
Confidence 78888877
No 214
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=23.41 E-value=55 Score=24.38 Aligned_cols=38 Identities=18% Similarity=0.289 Sum_probs=26.2
Q ss_pred EEEEEEeCCeeeecCCcccccCCCCceEEccCCceecccC
Q 048313 6 VCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRC 45 (252)
Q Consensus 6 ~~~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C 45 (252)
|-|+-...+.|.|..|+.+-- +.-+-.-..|+.+|..|
T Consensus 61 V~ViP~q~DEFTCssCFLV~H--RSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 61 VRVIPKQADEFTCSSCFLVHH--RSQLAREKDGQPICRDC 98 (99)
T ss_pred EEEecCCCCceeeeeeeeEec--hhhhccccCCCEecccc
Confidence 444555678899999999871 23332324799999988
No 215
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=23.36 E-value=1.1e+02 Score=27.81 Aligned_cols=88 Identities=20% Similarity=0.437 Sum_probs=61.5
Q ss_pred eeeEEEEEEeCCeeeecCCcccccCCCCceEEccCCceecccChhhh-----------------------------cCCC
Q 048313 3 FFCVCHFVLCTTVLHCFISFSSFIFTLLSVAECGNGHIVCNRCCIEL-----------------------------MNKC 53 (252)
Q Consensus 3 ~~~~~~~~~~~~~l~C~iC~~~l~~~~~Pi~qc~~GH~~C~~C~~~~-----------------------------~~~C 53 (252)
-||.|+......-+.||+|..-.- .-|+ .|+ .|-..+ ...|
T Consensus 296 s~CaCHs~~~~gGy~CP~CktkVC--sLPi-~CP-------~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~C 365 (421)
T COG5151 296 SVCACHSEVKGGGYECPVCKTKVC--SLPI-SCP-------ICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHC 365 (421)
T ss_pred cceeeeeeeccCceeCCcccceee--cCCc-cCc-------chhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccc
Confidence 378999999999999999976541 4454 244 332110 0249
Q ss_pred CCCCcCCcccchhHHHhheeeeEeeccccCCCCceeec-cchHHhHhh--hCcc
Q 048313 54 PSCRLPIGHSRSIAMEKVLESIQVTCENEDHGCKEKMS-YSKKYDHGK--ACHH 104 (252)
Q Consensus 54 P~Cr~~~~~~r~~~le~~~~~l~v~C~~~~~GC~~~~~-~~~~~~H~~--~C~~ 104 (252)
-.|..++...++....+...+.+..|+- |+..+. +-+.-.|+. .|.+
T Consensus 366 f~CQ~~fp~~~~~~~~~~~ss~rY~Ce~----CK~~FC~dCdvfiHe~Lh~C~g 415 (421)
T COG5151 366 FVCQGPFPKPPVSPFDESTSSGRYQCEL----CKSTFCSDCDVFIHETLHFCIG 415 (421)
T ss_pred eeccCCCCCCCCCcccccccccceechh----hhhhhhhhhHHHHHHHHhhCCC
Confidence 9999998877788888889999999984 877664 456777875 4543
No 216
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=22.89 E-value=64 Score=18.07 Aligned_cols=9 Identities=22% Similarity=0.360 Sum_probs=4.3
Q ss_pred eecCCcccc
Q 048313 17 HCFISFSSF 25 (252)
Q Consensus 17 ~C~iC~~~l 25 (252)
.||+|...+
T Consensus 1 ~CP~C~s~l 9 (28)
T PF03119_consen 1 TCPVCGSKL 9 (28)
T ss_dssp B-TTT--BE
T ss_pred CcCCCCCEe
Confidence 478887776
No 217
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=22.86 E-value=41 Score=19.62 Aligned_cols=8 Identities=13% Similarity=-0.097 Sum_probs=3.5
Q ss_pred eecCCccc
Q 048313 17 HCFISFSS 24 (252)
Q Consensus 17 ~C~iC~~~ 24 (252)
.|.-|...
T Consensus 2 ~C~~Cg~~ 9 (32)
T PF03604_consen 2 ICGECGAE 9 (32)
T ss_dssp BESSSSSS
T ss_pred CCCcCCCe
Confidence 34444443
No 218
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=22.39 E-value=1.1e+02 Score=17.25 Aligned_cols=9 Identities=11% Similarity=0.065 Sum_probs=6.8
Q ss_pred eecCCcccc
Q 048313 17 HCFISFSSF 25 (252)
Q Consensus 17 ~C~iC~~~l 25 (252)
.|..|.+++
T Consensus 1 ~C~~C~~~i 9 (39)
T smart00132 1 KCAGCGKPI 9 (39)
T ss_pred CccccCCcc
Confidence 377888887
No 219
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=22.37 E-value=13 Score=34.92 Aligned_cols=38 Identities=24% Similarity=0.449 Sum_probs=28.0
Q ss_pred EEEEeCCeeeecCCcccccCCCCce--EEcc-CCceecccChhh
Q 048313 8 HFVLCTTVLHCFISFSSFIFTLLSV--AECG-NGHIVCNRCCIE 48 (252)
Q Consensus 8 ~~~~~~~~l~C~iC~~~l~~~~~Pi--~qc~-~GH~~C~~C~~~ 48 (252)
.-.-|.++..||+|.+.+ .--- ..|. ||-+.|..|-.-
T Consensus 173 pW~DDs~V~~CP~Ca~~F---~l~rRrHHCRLCG~VmC~~C~k~ 213 (505)
T KOG1842|consen 173 PWLDDSSVQFCPECANSF---GLTRRRHHCRLCGRVMCRDCSKF 213 (505)
T ss_pred cccCCCcccccccccchh---hhHHHhhhhhhcchHHHHHHHHh
Confidence 344578889999999988 4322 3576 899999999764
No 220
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=21.37 E-value=10 Score=26.94 Aligned_cols=23 Identities=26% Similarity=0.654 Sum_probs=14.8
Q ss_pred CceecccChhhh------cCCCCCCCcCC
Q 048313 38 GHIVCNRCCIEL------MNKCPSCRLPI 60 (252)
Q Consensus 38 GH~~C~~C~~~~------~~~CP~Cr~~~ 60 (252)
-|.|=.-|+.++ +..||.||+..
T Consensus 52 ~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 52 LHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred HHHHHHHHHHHHhcCccccccCCcchhee
Confidence 355555666664 36788888764
No 221
>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=21.30 E-value=44 Score=26.97 Aligned_cols=13 Identities=23% Similarity=0.549 Sum_probs=9.7
Q ss_pred CCCCCCCcCCccc
Q 048313 51 NKCPSCRLPIGHS 63 (252)
Q Consensus 51 ~~CP~Cr~~~~~~ 63 (252)
..||.|...+...
T Consensus 129 F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 129 FTCPRCGAMLDYL 141 (158)
T ss_pred CcCCCCCCEeeec
Confidence 6889998887543
No 222
>PF13008 zf-Paramyx-P: Zinc-binding domain of Paramyxoviridae V protein; InterPro: IPR024279 The paramyxoviruses, which include such respiroviruses as para-influenzae and measles, produce phosphoproteins - protein P - that are integral to the polymerase transcription-replication complex. Protein P consists of two functionally distinct moieties, an N-terminal PNT, and a C-terminal PCT []. The P mRNA encodes a variety of proteins beyond P. Protein V consists of PNT fused to a C-terminal zinc-binding region. This conserved region consists of the two-zinc-binding section sandwiched between beta sheets 6 and 7 of the overall V protein. It is the binding of this core domain of V protein with the DDB1 protein (part of the ubiquitin-ligase complex) of eukaryotes which represents the key element of the virus-host protein interaction []. In the Henipavirus family, which includes Nipah and Hendra viruses, the V protein is able to block IFN (interferon) signalling by preventing IFN-induced STAT phosphorylation and nuclear translocation [].; GO: 0046872 metal ion binding; PDB: 2HYE_B 2B5L_D.
Probab=21.02 E-value=73 Score=20.39 Aligned_cols=26 Identities=19% Similarity=0.333 Sum_probs=10.5
Q ss_pred eecCCcccccCCCCce-EEccCCc--eecccC
Q 048313 17 HCFISFSSFIFTLLSV-AECGNGH--IVCNRC 45 (252)
Q Consensus 17 ~C~iC~~~l~~~~~Pi-~qc~~GH--~~C~~C 45 (252)
-=|+|.-+- ..|. +.|.||. ..|+.|
T Consensus 15 CNP~CspIt---~~p~r~~C~CG~CP~~C~~C 43 (47)
T PF13008_consen 15 CNPICSPIT---ATPRREKCTCGECPRICSLC 43 (47)
T ss_dssp EEETTS------SS-EEE--SSTTS-S--SSS
T ss_pred eCCcCcccc---cccEEeeEECCCCcchhhhh
Confidence 336777776 6666 4676775 344444
No 223
>PHA03096 p28-like protein; Provisional
Probab=21.01 E-value=30 Score=30.80 Aligned_cols=33 Identities=12% Similarity=-0.021 Sum_probs=23.1
Q ss_pred eeecCCcccccCCCCceE-----EccCCceecccChhhh
Q 048313 16 LHCFISFSSFIFTLLSVA-----ECGNGHIVCNRCCIEL 49 (252)
Q Consensus 16 l~C~iC~~~l~~~~~Pi~-----qc~~GH~~C~~C~~~~ 49 (252)
-.|.||.+...+ +++.- .-.|-|.||..|+..|
T Consensus 179 k~c~ic~e~~~~-k~~~~~~fgil~~c~h~fc~~ci~~w 216 (284)
T PHA03096 179 KICGICLENIKA-KYIIKKYYGILSEIKHEFNIFCIKIW 216 (284)
T ss_pred hhcccchhhhhh-hccccccccccccCCcHHHHHHHHHH
Confidence 469999998754 33321 1257799999999865
No 224
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=20.80 E-value=78 Score=27.69 Aligned_cols=11 Identities=27% Similarity=0.452 Sum_probs=5.6
Q ss_pred eeeecCCcccc
Q 048313 15 VLHCFISFSSF 25 (252)
Q Consensus 15 ~l~C~iC~~~l 25 (252)
...|.+|....
T Consensus 65 ~v~CrVCq~~I 75 (256)
T PF09788_consen 65 VVTCRVCQSLI 75 (256)
T ss_pred eEEeecCCcee
Confidence 34455555544
No 225
>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=20.46 E-value=66 Score=23.91 Aligned_cols=26 Identities=23% Similarity=0.570 Sum_probs=19.7
Q ss_pred cCC--CCCCCCccc-ChhhHhhHhhcccC
Q 048313 107 CSC--PLAACNFVG-SFNQIYQHFRGVHK 132 (252)
Q Consensus 107 ~~C--P~~gC~~~g-~~~~L~~Hl~~~H~ 132 (252)
+.| ...+|++.. +.+.|.+|++.+|+
T Consensus 81 ~~C~~~~~~C~y~~~~~~~m~~H~~~~Hg 109 (109)
T PF12013_consen 81 YRCQCDPPHCGYITRSKKTMRKHWRKEHG 109 (109)
T ss_pred eeeecCCCCCCcEeccHHHHHHHHHHhcC
Confidence 445 335788877 57899999999985
No 226
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=20.17 E-value=68 Score=27.82 Aligned_cols=52 Identities=25% Similarity=0.424 Sum_probs=34.3
Q ss_pred eec--CCcccccCCCCceEEcc-CCceecccChhhh-------------cCCCCCCCcCCcccchhHHHhhe
Q 048313 17 HCF--ISFSSFIFTLLSVAECG-NGHIVCNRCCIEL-------------MNKCPSCRLPIGHSRSIAMEKVL 72 (252)
Q Consensus 17 ~C~--iC~~~l~~~~~Pi~qc~-~GH~~C~~C~~~~-------------~~~CP~Cr~~~~~~r~~~le~~~ 72 (252)
+|. .|...= --| +.|. |+++||..=+..- ...||.|..++...+..+..+++
T Consensus 10 HCs~~~CkqlD---FLP-f~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~~de~~~~~v 77 (250)
T KOG3183|consen 10 HCSVPYCKQLD---FLP-FKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTKKDEAPDKVV 77 (250)
T ss_pred ccCcchhhhcc---ccc-eeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCCCCcchhhhh
Confidence 466 676654 456 5687 9999998654321 16799999988766665555543
No 227
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=20.12 E-value=82 Score=20.92 Aligned_cols=11 Identities=9% Similarity=0.036 Sum_probs=5.8
Q ss_pred eeeecCCcccc
Q 048313 15 VLHCFISFSSF 25 (252)
Q Consensus 15 ~l~C~iC~~~l 25 (252)
...||.|.++-
T Consensus 27 l~~C~~CG~~~ 37 (57)
T PRK12286 27 LVECPNCGEPK 37 (57)
T ss_pred ceECCCCCCcc
Confidence 34455555554
Done!