Query 021796
Match_columns 307
No_of_seqs 290 out of 1715
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:45:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021796.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021796hhsearch_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 5.1E-53 1.1E-57 386.6 15.1 257 50-307 41-298 (299)
2 PF03145 Sina: Seven in absent 100.0 9.4E-44 2E-48 311.6 13.3 198 102-299 1-198 (198)
3 cd03829 Sina Seven in absentia 100.0 6.8E-39 1.5E-43 250.8 3.2 125 175-302 2-127 (127)
4 KOG0297 TNF receptor-associate 99.3 4.2E-12 9.2E-17 122.0 6.7 118 53-175 17-141 (391)
5 KOG0287 Postreplication repair 98.7 2.9E-09 6.3E-14 97.4 0.2 72 43-115 9-86 (442)
6 PF15227 zf-C3HC4_4: zinc fing 98.6 1.9E-08 4.1E-13 65.9 2.3 35 60-95 1-42 (42)
7 TIGR00599 rad18 DNA repair pro 98.6 2E-08 4.4E-13 95.9 3.4 67 47-114 16-88 (397)
8 PF14835 zf-RING_6: zf-RING of 98.6 9.7E-09 2.1E-13 72.3 0.3 59 53-111 3-65 (65)
9 PLN03208 E3 ubiquitin-protein 98.6 3.6E-08 7.8E-13 84.9 3.7 48 53-101 14-80 (193)
10 smart00504 Ubox Modified RING 98.6 7.9E-08 1.7E-12 68.2 4.2 55 57-112 1-61 (63)
11 KOG0320 Predicted E3 ubiquitin 98.5 5.9E-08 1.3E-12 81.7 3.2 46 55-101 129-179 (187)
12 KOG0823 Predicted E3 ubiquitin 98.5 9.7E-08 2.1E-12 83.7 4.5 48 53-101 43-96 (230)
13 PF13920 zf-C3HC4_3: Zinc fing 98.4 2.1E-07 4.6E-12 63.2 2.4 43 57-100 2-48 (50)
14 PF13923 zf-C3HC4_2: Zinc fing 98.4 2.5E-07 5.4E-12 59.5 2.4 36 60-95 1-39 (39)
15 COG5432 RAD18 RING-finger-cont 98.3 3.3E-07 7.2E-12 82.5 1.9 57 44-101 12-71 (391)
16 PF04564 U-box: U-box domain; 98.2 1.4E-06 3E-11 64.1 3.6 59 55-114 2-67 (73)
17 PF02176 zf-TRAF: TRAF-type zi 98.2 9.2E-07 2E-11 62.2 2.1 55 111-167 5-60 (60)
18 PF14634 zf-RING_5: zinc-RING 98.1 1.3E-06 2.8E-11 57.7 1.7 38 59-97 1-44 (44)
19 PF13639 zf-RING_2: Ring finge 98.1 1.3E-06 2.9E-11 57.6 1.7 38 59-96 2-44 (44)
20 PHA02929 N1R/p28-like protein; 98.1 2E-06 4.2E-11 77.1 2.3 47 55-101 172-228 (238)
21 KOG0317 Predicted E3 ubiquitin 98.1 1.9E-06 4.1E-11 77.8 2.2 47 54-101 236-285 (293)
22 PF00097 zf-C3HC4: Zinc finger 98.0 2.8E-06 6.1E-11 55.0 2.0 36 60-95 1-41 (41)
23 cd00162 RING RING-finger (Real 97.8 1.3E-05 2.8E-10 52.0 2.3 41 59-99 1-45 (45)
24 PHA02926 zinc finger-like prot 97.8 8.1E-06 1.8E-10 71.4 1.0 48 53-101 166-231 (242)
25 KOG2164 Predicted E3 ubiquitin 97.8 1E-05 2.2E-10 78.5 1.7 44 57-101 186-237 (513)
26 PF13445 zf-RING_UBOX: RING-ty 97.7 1.3E-05 2.9E-10 52.6 1.4 28 60-89 1-32 (43)
27 COG5574 PEX10 RING-finger-cont 97.6 1.6E-05 3.6E-10 71.0 0.6 46 55-101 213-263 (271)
28 KOG2177 Predicted E3 ubiquitin 97.5 3.3E-05 7.1E-10 70.2 1.7 68 51-119 7-78 (386)
29 smart00184 RING Ring finger. E 97.5 5.5E-05 1.2E-09 47.1 2.1 35 60-95 1-39 (39)
30 KOG0311 Predicted E3 ubiquitin 97.5 7.2E-06 1.6E-10 76.0 -3.9 65 50-114 36-108 (381)
31 KOG0978 E3 ubiquitin ligase in 97.3 5.6E-05 1.2E-09 76.6 -0.1 51 51-102 637-691 (698)
32 TIGR00570 cdk7 CDK-activating 97.2 0.00024 5.2E-09 65.7 3.6 45 57-101 3-55 (309)
33 PF07800 DUF1644: Protein of u 97.0 0.0012 2.6E-08 55.0 5.2 29 144-174 106-134 (162)
34 PLN03086 PRLI-interacting fact 97.0 0.00045 9.9E-09 69.0 2.8 110 52-171 402-537 (567)
35 COG5152 Uncharacterized conser 96.7 0.0008 1.7E-08 57.9 1.7 58 55-113 194-256 (259)
36 KOG2879 Predicted E3 ubiquitin 96.7 0.0019 4.2E-08 58.3 4.2 46 55-100 237-287 (298)
37 PF12678 zf-rbx1: RING-H2 zinc 96.7 0.0013 2.9E-08 48.2 2.6 38 59-96 21-73 (73)
38 KOG4159 Predicted E3 ubiquitin 96.6 0.00091 2E-08 64.3 1.9 48 53-101 80-130 (398)
39 PLN03086 PRLI-interacting fact 96.4 0.0056 1.2E-07 61.3 6.1 37 133-173 529-565 (567)
40 PF14570 zf-RING_4: RING/Ubox 96.1 0.0032 7E-08 42.1 1.6 40 60-99 1-47 (48)
41 KOG1813 Predicted E3 ubiquitin 96.1 0.0036 7.8E-08 57.1 2.4 49 55-104 239-290 (313)
42 COG5222 Uncharacterized conser 95.9 0.0039 8.5E-08 56.9 1.6 40 58-97 275-318 (427)
43 PF12861 zf-Apc11: Anaphase-pr 95.8 0.0058 1.3E-07 45.9 2.1 42 59-100 34-82 (85)
44 KOG2660 Locus-specific chromos 95.8 0.0024 5.3E-08 59.1 -0.1 50 52-101 10-62 (331)
45 PF02176 zf-TRAF: TRAF-type zi 95.6 0.0065 1.4E-07 42.3 1.6 38 137-176 1-38 (60)
46 PF11789 zf-Nse: Zinc-finger o 95.4 0.0092 2E-07 41.6 1.8 35 55-89 9-43 (57)
47 COG5175 MOT2 Transcriptional r 95.3 0.0068 1.5E-07 56.3 0.9 47 54-101 12-65 (480)
48 KOG0824 Predicted E3 ubiquitin 95.1 0.0092 2E-07 54.7 1.3 44 57-101 7-54 (324)
49 KOG0802 E3 ubiquitin ligase [P 95.0 0.0087 1.9E-07 60.4 0.9 44 55-99 289-340 (543)
50 KOG4275 Predicted E3 ubiquitin 94.5 0.009 1.9E-07 54.4 -0.3 41 57-99 300-341 (350)
51 PF11793 FANCL_C: FANCL C-term 94.4 0.012 2.7E-07 42.7 0.2 45 57-101 2-67 (70)
52 KOG4265 Predicted E3 ubiquitin 94.4 0.022 4.9E-07 53.4 1.9 46 55-101 288-337 (349)
53 KOG4172 Predicted E3 ubiquitin 94.3 0.0055 1.2E-07 41.8 -1.6 42 58-100 8-54 (62)
54 KOG4739 Uncharacterized protei 94.3 0.024 5.1E-07 50.6 1.8 43 58-100 4-48 (233)
55 PF14447 Prok-RING_4: Prokaryo 94.1 0.044 9.4E-07 37.6 2.4 44 57-101 7-51 (55)
56 KOG1785 Tyrosine kinase negati 93.6 0.022 4.7E-07 54.1 0.3 42 59-101 371-417 (563)
57 KOG4367 Predicted Zn-finger pr 93.2 0.039 8.5E-07 52.9 1.3 34 55-89 2-35 (699)
58 KOG1002 Nucleotide excision re 92.7 0.04 8.7E-07 54.1 0.6 49 52-101 531-587 (791)
59 KOG4692 Predicted E3 ubiquitin 92.2 0.049 1.1E-06 51.0 0.5 44 56-100 421-467 (489)
60 COG5540 RING-finger-containing 91.4 0.13 2.8E-06 47.4 2.2 45 56-100 322-372 (374)
61 KOG1571 Predicted E3 ubiquitin 91.2 0.11 2.5E-06 48.8 1.8 46 53-100 301-347 (355)
62 KOG0804 Cytoplasmic Zn-finger 90.9 0.14 2.9E-06 49.6 2.0 48 53-100 171-222 (493)
63 PF05290 Baculo_IE-1: Baculovi 90.8 0.13 2.8E-06 41.8 1.5 46 56-101 79-133 (140)
64 PF05605 zf-Di19: Drought indu 90.0 0.32 7E-06 33.2 2.8 49 116-173 3-54 (54)
65 KOG1039 Predicted E3 ubiquitin 90.0 0.14 3.1E-06 48.5 1.3 47 55-101 159-222 (344)
66 KOG4628 Predicted E3 ubiquitin 89.9 0.2 4.4E-06 47.4 2.2 44 58-101 230-279 (348)
67 COG5236 Uncharacterized conser 89.5 0.19 4E-06 47.1 1.6 44 54-98 58-106 (493)
68 PF10571 UPF0547: Uncharacteri 88.8 0.19 4.1E-06 29.1 0.7 22 59-80 2-24 (26)
69 COG5243 HRD1 HRD ubiquitin lig 88.7 0.27 5.8E-06 46.5 2.1 45 55-100 285-345 (491)
70 KOG2932 E3 ubiquitin ligase in 88.6 0.4 8.6E-06 44.4 3.0 71 51-128 83-156 (389)
71 PF04641 Rtf2: Rtf2 RING-finge 87.5 0.79 1.7E-05 41.8 4.4 49 53-101 109-162 (260)
72 PF07975 C1_4: TFIIH C1-like d 87.4 0.44 9.6E-06 32.3 2.0 37 60-96 2-50 (51)
73 KOG2817 Predicted E3 ubiquitin 87.0 0.42 9.2E-06 45.6 2.3 45 52-97 329-382 (394)
74 KOG3039 Uncharacterized conser 86.9 0.36 7.7E-06 43.3 1.7 46 56-101 220-271 (303)
75 KOG1814 Predicted E3 ubiquitin 86.7 0.41 8.9E-06 45.9 2.0 103 54-160 181-322 (445)
76 KOG0825 PHD Zn-finger protein 86.6 0.2 4.3E-06 51.6 -0.1 45 57-101 123-172 (1134)
77 COG5219 Uncharacterized conser 85.9 0.18 4E-06 52.9 -0.7 48 54-101 1466-1524(1525)
78 KOG1645 RING-finger-containing 85.8 0.34 7.5E-06 46.4 1.0 43 58-100 5-56 (463)
79 PF07191 zinc-ribbons_6: zinc- 85.6 0.22 4.8E-06 36.0 -0.3 38 58-100 2-41 (70)
80 PF13913 zf-C2HC_2: zinc-finge 85.5 0.55 1.2E-05 26.8 1.4 23 116-142 3-25 (25)
81 PF13909 zf-H2C2_5: C2H2-type 84.8 0.49 1.1E-05 26.4 1.0 24 146-173 1-24 (24)
82 KOG3161 Predicted E3 ubiquitin 83.9 0.21 4.5E-06 50.4 -1.4 44 52-97 6-54 (861)
83 KOG0826 Predicted E3 ubiquitin 82.7 1.4 2.9E-05 41.2 3.5 45 55-99 298-345 (357)
84 KOG4185 Predicted E3 ubiquitin 82.4 1.2 2.5E-05 41.3 3.0 42 57-99 3-54 (296)
85 KOG1001 Helicase-like transcri 79.7 0.66 1.4E-05 48.0 0.4 41 58-100 455-500 (674)
86 PF02891 zf-MIZ: MIZ/SP-RING z 79.5 1.1 2.5E-05 30.1 1.4 42 57-98 2-50 (50)
87 PF05605 zf-Di19: Drought indu 75.0 2.7 5.9E-05 28.5 2.3 28 145-176 2-29 (54)
88 KOG2231 Predicted E3 ubiquitin 74.8 1.4 3E-05 45.3 1.1 42 59-101 2-53 (669)
89 COG3813 Uncharacterized protei 74.7 2.2 4.9E-05 30.9 1.9 38 72-109 23-61 (84)
90 COG2888 Predicted Zn-ribbon RN 74.5 2.1 4.6E-05 29.8 1.6 36 113-160 25-61 (61)
91 COG5194 APC11 Component of SCF 74.2 1.7 3.6E-05 32.2 1.1 26 76-101 54-82 (88)
92 KOG2462 C2H2-type Zn-finger pr 73.7 1.6 3.4E-05 39.9 1.1 101 55-175 159-270 (279)
93 KOG3608 Zn finger proteins [Ge 72.7 3.8 8.1E-05 38.8 3.3 113 55-173 205-346 (467)
94 KOG1734 Predicted RING-contain 71.8 1.1 2.5E-05 40.7 -0.3 46 55-100 222-281 (328)
95 KOG1100 Predicted E3 ubiquitin 71.2 2.8 6E-05 37.0 2.1 39 60-100 161-200 (207)
96 PF10083 DUF2321: Uncharacteri 71.0 1.7 3.7E-05 36.3 0.6 24 78-101 28-51 (158)
97 PRK11088 rrmA 23S rRNA methylt 70.7 2.4 5.1E-05 38.7 1.6 24 57-80 2-27 (272)
98 KOG2462 C2H2-type Zn-finger pr 70.1 19 0.00041 33.1 7.1 109 53-170 126-237 (279)
99 COG5109 Uncharacterized conser 68.6 4.1 8.8E-05 38.0 2.6 47 50-97 329-384 (396)
100 KOG3800 Predicted E3 ubiquitin 68.5 2.8 6.1E-05 38.6 1.5 42 59-100 2-51 (300)
101 PF12660 zf-TFIIIC: Putative z 68.1 1.9 4.2E-05 33.4 0.3 42 58-100 15-66 (99)
102 PF14446 Prok-RING_1: Prokaryo 68.1 4.6 0.0001 27.7 2.1 40 58-98 6-50 (54)
103 PF10367 Vps39_2: Vacuolar sor 67.9 3.7 8E-05 31.5 1.9 32 55-86 76-108 (109)
104 PRK04023 DNA polymerase II lar 67.7 4.3 9.4E-05 43.5 2.9 45 55-101 624-675 (1121)
105 smart00647 IBR In Between Ring 67.0 3.7 8E-05 28.3 1.6 31 59-89 20-59 (64)
106 KOG3002 Zn finger protein [Gen 66.9 3.1 6.8E-05 38.8 1.5 77 90-170 49-131 (299)
107 TIGR00622 ssl1 transcription f 65.2 7 0.00015 31.0 3.0 38 59-96 57-110 (112)
108 KOG4362 Transcriptional regula 63.8 1.6 3.5E-05 44.8 -1.1 46 53-99 17-68 (684)
109 PRK14890 putative Zn-ribbon RN 62.7 5.5 0.00012 27.8 1.7 36 113-160 23-59 (59)
110 PF06906 DUF1272: Protein of u 62.1 8 0.00017 26.7 2.4 42 60-101 8-53 (57)
111 PF03145 Sina: Seven in absent 61.6 6.9 0.00015 34.0 2.6 48 95-142 24-71 (198)
112 KOG3268 Predicted E3 ubiquitin 61.0 6.3 0.00014 33.7 2.2 56 46-101 137-229 (234)
113 PF04216 FdhE: Protein involve 60.7 2.9 6.4E-05 38.7 0.1 42 57-98 172-220 (290)
114 PRK14714 DNA polymerase II lar 60.3 8.2 0.00018 42.5 3.3 43 57-101 667-721 (1337)
115 KOG0297 TNF receptor-associate 59.1 12 0.00027 36.2 4.1 35 114-151 113-148 (391)
116 KOG3039 Uncharacterized conser 59.0 6.2 0.00013 35.6 1.8 33 55-88 41-73 (303)
117 COG4306 Uncharacterized protei 58.6 4.7 0.0001 32.5 1.0 21 80-100 30-50 (160)
118 KOG2807 RNA polymerase II tran 58.2 7.3 0.00016 36.5 2.2 38 60-97 333-375 (378)
119 PF08209 Sgf11: Sgf11 (transcr 57.3 6.3 0.00014 24.2 1.1 25 114-142 3-27 (33)
120 TIGR01562 FdhE formate dehydro 56.9 5.7 0.00012 37.2 1.4 42 56-97 183-232 (305)
121 KOG3896 Dynactin, subunit p62 55.9 8 0.00017 36.4 2.1 76 52-132 19-118 (449)
122 smart00154 ZnF_AN1 AN1-like Zi 55.4 9 0.00019 24.3 1.7 23 60-83 1-25 (39)
123 KOG3576 Ovo and related transc 55.2 13 0.00028 32.7 3.1 113 53-175 113-239 (267)
124 PF04606 Ogr_Delta: Ogr/Delta- 55.2 5.4 0.00012 26.3 0.7 38 91-130 1-38 (47)
125 KOG2114 Vacuolar assembly/sort 55.0 6.2 0.00013 41.4 1.3 47 52-98 835-881 (933)
126 KOG3579 Predicted E3 ubiquitin 54.1 21 0.00045 32.9 4.4 34 55-88 266-302 (352)
127 PF01363 FYVE: FYVE zinc finge 53.8 9.2 0.0002 27.0 1.7 31 57-87 9-42 (69)
128 PF05502 Dynactin_p62: Dynacti 52.5 7.2 0.00016 38.9 1.3 36 90-129 53-96 (483)
129 KOG3113 Uncharacterized conser 51.8 19 0.00042 32.6 3.7 48 54-101 108-159 (293)
130 PF01485 IBR: IBR domain; Int 51.8 8 0.00017 26.5 1.2 32 58-89 19-59 (64)
131 PF15616 TerY-C: TerY-C metal 51.7 7.1 0.00015 31.9 1.0 45 52-100 72-116 (131)
132 PF13894 zf-C2H2_4: C2H2-type 51.2 9.8 0.00021 20.2 1.2 22 147-172 2-24 (24)
133 PRK03564 formate dehydrogenase 50.3 9.1 0.0002 35.9 1.6 42 56-97 186-234 (309)
134 PF10235 Cript: Microtubule-as 50.1 9.4 0.0002 29.1 1.3 36 59-101 46-81 (90)
135 COG4647 AcxC Acetone carboxyla 50.0 7.6 0.00016 31.5 0.9 20 62-82 62-81 (165)
136 KOG0828 Predicted E3 ubiquitin 49.5 5.1 0.00011 39.6 -0.3 46 55-100 569-634 (636)
137 PHA00616 hypothetical protein 49.3 26 0.00056 23.0 3.1 27 145-175 1-28 (44)
138 KOG0006 E3 ubiquitin-protein l 48.4 16 0.00035 34.2 2.8 65 54-129 218-283 (446)
139 KOG2930 SCF ubiquitin ligase, 47.6 3.1 6.7E-05 32.4 -1.6 43 57-99 46-107 (114)
140 KOG1812 Predicted E3 ubiquitin 46.2 8.8 0.00019 37.1 0.8 33 56-88 305-341 (384)
141 PRK00420 hypothetical protein; 45.9 12 0.00026 29.8 1.3 25 58-86 24-48 (112)
142 PF01428 zf-AN1: AN1-like Zinc 44.3 21 0.00045 23.0 2.1 33 60-93 1-36 (43)
143 PF05253 zf-U11-48K: U11-48K-l 43.9 12 0.00025 21.7 0.8 24 116-142 3-26 (27)
144 smart00744 RINGv The RING-vari 43.0 17 0.00036 24.2 1.6 38 59-96 1-49 (49)
145 PF08882 Acetone_carb_G: Aceto 41.7 14 0.00031 29.1 1.2 12 71-82 24-35 (112)
146 KOG0827 Predicted E3 ubiquitin 41.6 11 0.00024 36.2 0.7 38 58-97 5-53 (465)
147 KOG1812 Predicted E3 ubiquitin 41.1 12 0.00026 36.3 0.8 33 56-88 145-180 (384)
148 PRK14892 putative transcriptio 40.9 20 0.00044 27.8 1.9 33 51-84 15-48 (99)
149 COG3809 Uncharacterized protei 40.8 21 0.00046 26.4 1.9 46 58-117 2-47 (88)
150 PRK09678 DNA-binding transcrip 40.7 17 0.00036 26.5 1.4 44 91-136 3-46 (72)
151 PF12756 zf-C2H2_2: C2H2 type 39.8 21 0.00046 26.4 2.0 36 135-174 40-77 (100)
152 COG1645 Uncharacterized Zn-fin 39.5 13 0.00029 30.2 0.8 23 58-85 29-51 (131)
153 smart00734 ZnF_Rad18 Rad18-lik 39.4 17 0.00037 20.9 1.0 17 125-141 7-23 (26)
154 KOG2068 MOT2 transcription fac 38.8 22 0.00047 33.5 2.1 43 58-100 250-298 (327)
155 PF10272 Tmpp129: Putative tra 38.6 18 0.00038 34.7 1.6 30 71-100 306-351 (358)
156 PF03854 zf-P11: P-11 zinc fin 38.0 12 0.00026 25.0 0.2 40 60-101 5-47 (50)
157 PF14569 zf-UDP: Zinc-binding 37.4 19 0.00042 26.5 1.3 43 58-100 10-62 (80)
158 cd00065 FYVE FYVE domain; Zinc 36.7 19 0.00041 24.2 1.1 30 59-88 4-36 (57)
159 PF13240 zinc_ribbon_2: zinc-r 36.3 13 0.00027 20.8 0.1 9 60-68 2-10 (23)
160 PF00096 zf-C2H2: Zinc finger, 35.4 17 0.00037 19.5 0.6 20 147-170 2-22 (23)
161 PHA03096 p28-like protein; Pro 35.2 14 0.0003 34.2 0.3 40 58-97 179-231 (284)
162 PLN02189 cellulose synthase 34.8 26 0.00057 38.0 2.2 42 59-100 36-87 (1040)
163 smart00064 FYVE Protein presen 34.4 24 0.00052 24.7 1.4 31 58-88 11-44 (68)
164 PF00412 LIM: LIM domain; Int 33.0 34 0.00073 22.8 1.9 32 55-87 24-56 (58)
165 PF14445 Prok-RING_2: Prokaryo 32.4 3.9 8.4E-05 27.6 -2.8 43 56-98 6-50 (57)
166 PF06677 Auto_anti-p27: Sjogre 32.1 23 0.00049 22.8 0.8 22 59-84 19-40 (41)
167 smart00301 DM Doublesex DNA-bi 31.7 20 0.00043 24.6 0.5 34 130-167 13-46 (54)
168 COG4357 Zinc finger domain con 30.8 35 0.00076 26.3 1.8 23 79-101 63-92 (105)
169 KOG1940 Zn-finger protein [Gen 30.5 25 0.00053 32.5 1.1 62 57-120 158-228 (276)
170 smart00661 RPOL9 RNA polymeras 30.3 31 0.00066 22.7 1.3 12 59-70 2-13 (52)
171 PF14205 Cys_rich_KTR: Cystein 30.3 38 0.00082 23.3 1.7 8 59-66 6-13 (55)
172 KOG3608 Zn finger proteins [Ge 30.0 23 0.00049 33.8 0.8 14 237-250 382-395 (467)
173 KOG1941 Acetylcholine receptor 30.0 12 0.00026 36.1 -1.1 42 56-97 364-413 (518)
174 KOG1493 Anaphase-promoting com 29.4 8.7 0.00019 28.3 -1.6 25 76-100 51-81 (84)
175 PLN02436 cellulose synthase A 28.6 39 0.00083 36.9 2.3 42 59-100 38-89 (1094)
176 KOG2272 Focal adhesion protein 28.0 22 0.00047 32.3 0.3 45 55-100 161-206 (332)
177 PF12773 DZR: Double zinc ribb 27.6 47 0.001 21.7 1.8 8 91-98 31-38 (50)
178 smart00132 LIM Zinc-binding do 27.6 63 0.0014 19.1 2.3 35 59-99 1-37 (39)
179 cd00350 rubredoxin_like Rubred 27.6 46 0.00099 20.1 1.6 9 90-98 18-26 (33)
180 COG1592 Rubrerythrin [Energy p 27.5 40 0.00086 28.7 1.7 11 57-67 134-144 (166)
181 PRK14559 putative protein seri 27.4 36 0.00078 35.3 1.8 11 90-100 42-52 (645)
182 PF03833 PolC_DP2: DNA polymer 27.1 21 0.00045 37.8 0.0 45 55-101 653-704 (900)
183 PF13248 zf-ribbon_3: zinc-rib 26.4 23 0.0005 20.1 0.1 7 59-65 4-10 (26)
184 PF09788 Tmemb_55A: Transmembr 26.4 1.4E+02 0.0031 27.2 5.1 30 55-86 63-93 (256)
185 cd00729 rubredoxin_SM Rubredox 26.0 49 0.0011 20.2 1.5 9 90-98 19-27 (34)
186 PLN02195 cellulose synthase A 24.9 54 0.0012 35.5 2.6 42 59-100 8-59 (977)
187 PF02318 FYVE_2: FYVE-type zin 24.8 54 0.0012 25.9 2.0 31 57-87 54-88 (118)
188 PF13834 DUF4193: Domain of un 24.7 52 0.0011 25.5 1.8 32 53-84 66-98 (99)
189 KOG0298 DEAD box-containing he 24.5 15 0.00032 40.5 -1.7 48 51-100 1147-1199(1394)
190 PLN02638 cellulose synthase A 24.2 53 0.0012 35.9 2.3 42 59-100 19-70 (1079)
191 PF13912 zf-C2H2_6: C2H2-type 23.9 56 0.0012 18.1 1.5 25 145-173 1-26 (27)
192 PHA02862 5L protein; Provision 23.8 43 0.00094 27.8 1.3 42 59-100 4-53 (156)
193 KOG2813 Predicted molecular ch 23.7 75 0.0016 30.0 2.9 44 51-98 211-254 (406)
194 PRK12286 rpmF 50S ribosomal pr 23.1 65 0.0014 22.3 1.9 17 53-69 23-39 (57)
195 PF08271 TF_Zn_Ribbon: TFIIB z 23.1 64 0.0014 20.5 1.8 26 58-85 1-26 (43)
196 TIGR01031 rpmF_bact ribosomal 23.0 64 0.0014 22.1 1.8 16 54-69 23-38 (55)
197 KOG1815 Predicted E3 ubiquitin 22.9 38 0.00082 33.4 0.9 83 60-146 166-257 (444)
198 KOG2857 Predicted MYND Zn-fing 22.5 53 0.0012 27.1 1.5 31 74-105 2-33 (157)
199 TIGR00416 sms DNA repair prote 22.2 46 0.00099 32.9 1.4 24 70-98 6-30 (454)
200 PRK11823 DNA repair protein Ra 21.9 52 0.0011 32.5 1.6 24 70-98 6-30 (446)
201 PF02148 zf-UBP: Zn-finger in 21.7 72 0.0016 22.1 1.9 22 60-82 1-23 (63)
202 PF11781 RRN7: RNA polymerase 21.6 47 0.001 20.7 0.8 23 58-84 9-31 (36)
203 KOG3183 Predicted Zn-finger pr 21.6 69 0.0015 28.9 2.2 52 59-111 10-77 (250)
204 PHA02825 LAP/PHD finger-like p 21.1 70 0.0015 27.0 2.0 45 56-100 7-59 (162)
205 PF14353 CpXC: CpXC protein 20.9 69 0.0015 25.5 1.9 10 91-100 3-12 (128)
206 KOG1356 Putative transcription 20.9 43 0.00094 35.4 0.9 32 57-88 229-261 (889)
207 PF09297 zf-NADH-PPase: NADH p 20.8 24 0.00051 21.1 -0.6 10 78-87 3-12 (32)
208 PRK11827 hypothetical protein; 20.8 53 0.0012 23.0 1.1 30 52-84 3-32 (60)
209 COG1198 PriA Primosomal protei 20.2 78 0.0017 33.4 2.6 41 56-98 434-484 (730)
210 PLN02400 cellulose synthase 20.0 68 0.0015 35.1 2.1 42 59-100 38-89 (1085)
No 1
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=100.00 E-value=5.1e-53 Score=386.58 Aligned_cols=257 Identities=46% Similarity=0.823 Sum_probs=242.1
Q ss_pred CccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCCcccchhHHHHhhccccccccccCCcceee
Q 021796 50 SNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIF 129 (307)
Q Consensus 50 ~~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~ 129 (307)
......++|+||||++.+.+||+||.+||+.|++|..++.+.||.|+.+++++|+++||++++++.++|+|+.+||++++
T Consensus 41 ~~~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~e~~~vpC~~~~~GC~~~~ 120 (299)
T KOG3002|consen 41 VTLLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVAEAVLVPCKNAKLGCTKSF 120 (299)
T ss_pred ccccchhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHHHhceecccccccCCceee
Confidence 55667899999999999999999999999999999988889999999999999999999999999999999999999999
Q ss_pred cccchHHHHHhCCCcCccCCCCCCCCccccChhhHHHHhhccCCCCcccCceeEEEEeecccccccccceEEEEEeecCc
Q 021796 130 PYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDHKVDMHDGSTFNHRYVKANALEIENATWMLTVFNCFGR 209 (307)
Q Consensus 130 ~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 209 (307)
+|.+...||+.|.|+|+.||.+|..|+|+|.+++|..|++..|+.++..+..+++.|..+++..++..+|++.+..++++
T Consensus 121 ~Y~~~~~HE~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~~hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 200 (299)
T KOG3002|consen 121 PYGEKSKHEKVCEFRPCSCPVPGAECKYTGSYKDLYAHLNDTHKSDIITLTGFDFVFVATDENLLGAATWTLKTSVCFGR 200 (299)
T ss_pred ccccccccccccccCCcCCCCCcccCCccCcHHHHHHHHHhhChhhhhhccccceecccCCccccccchhheeeeecCcE
Confidence 99999999999999999999999999999999999999999999888777778889999999888899998777779999
Q ss_pred eEEEEEeeeeeCCc-cEEEEEEEEeCChhhccCcEEEEEEecCCceEEEeeecceeeccccccccCCCeeEEcCccccee
Q 021796 210 HFCLHFEAFHLGMA-PVYMAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIPRSIRDSHKRVRDSQDGLIIQRNLALFF 288 (307)
Q Consensus 210 ~F~l~~~~~~~~~~-~~~~~~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~~si~~~~~~~~~~~d~l~i~~~~~~~~ 288 (307)
.|++.+..+..+.. ++|+++++++|.+++|++|+|+|++.+++++|+|++.|+++++.+...++..|||+||.+++++|
T Consensus 201 ~~~~~~~~q~~~~~~~~y~tv~~i~~~~~e~~~fsy~L~~~~~~~klt~~s~~~s~~~kvs~~~p~~dfm~ip~~~~~~~ 280 (299)
T KOG3002|consen 201 EFGLLFEVQCFREPHGVYVTVNRIAPSAPEAGEFSYSLALGGSGRKLTWQSPPRSIIQKVSKVRPEDDFMLIPRSLLCLF 280 (299)
T ss_pred EEeeeeeehhhcCCCceEEEeehhccCCCcccccceeeecCCCCceEeecCCcceeecccceeccCCCceeccHHHhhcc
Confidence 99999998887554 89999999999999999999999999999999999999999999998999999999999999999
Q ss_pred cCCCeEEEEEEEEEEeccC
Q 021796 289 SGGDRQELKLKVAGRIWKE 307 (307)
Q Consensus 289 ~~~~~~~l~~~i~~~~~~~ 307 (307)
+.++ ++|.|..++++|.+
T Consensus 281 ~~~~-~~l~i~~~~~~~~~ 298 (299)
T KOG3002|consen 281 SLLK-MELKIRVTGRVQEE 298 (299)
T ss_pred cccC-Cceeeccchhhhcc
Confidence 8776 48999999999975
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=100.00 E-value=9.4e-44 Score=311.63 Aligned_cols=198 Identities=41% Similarity=0.817 Sum_probs=152.7
Q ss_pred ccchhHHHHhhccccccccccCCcceeecccchHHHHHhCCCcCccCCCCCCCCccccChhhHHHHhhccCCCCcccCce
Q 021796 102 IRCLALEKVAESLELPCRYQIWGCQDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDHKVDMHDGST 181 (307)
Q Consensus 102 ~~~~~le~~~~~l~~~C~n~~~GC~~~~~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~~~~~g~~ 181 (307)
+||++||++++++++||+|+.+||++.++|.++.+||++|+|+|+.||.++.+|+|+|+.++|..|+..+|.+.+..+..
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 48999999999999999999999999999999999999999999999997778999999999999999999998876667
Q ss_pred eEEEEeecccccccccceEEEEEeecCceEEEEEeeeeeCCccEEEEEEEEeCChhhccCcEEEEEEecCCceEEEeeec
Q 021796 182 FNHRYVKANALEIENATWMLTVFNCFGRHFCLHFEAFHLGMAPVYMAFLRFMGDEEEARQFSYSLEVGGNGRKLTWQGIP 261 (307)
Q Consensus 182 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~F~l~~~~~~~~~~~~~~~~v~~iG~~~~a~~f~Y~l~~~~~~r~l~~~s~~ 261 (307)
+.++|..+++...+...|+++.++|||++|+|+++.+......+|+++++++|++++|.+|+|+|++.+++|+|+||++|
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 77889888777667788987666999999999998887656689999999999999999999999999999999999999
Q ss_pred ceeeccccccccCCCeeEEcCcccceecCCCeEEEEEE
Q 021796 262 RSIRDSHKRVRDSQDGLIIQRNLALFFSGGDRQELKLK 299 (307)
Q Consensus 262 ~si~~~~~~~~~~~d~l~i~~~~~~~~~~~~~~~l~~~ 299 (307)
+|++++.+.++++.|||++..+++++|+++++|.|+|+
T Consensus 161 ~si~~~~~~~~~~~d~li~~~~~~~~f~~~~~L~~~v~ 198 (198)
T PF03145_consen 161 RSIREDIDDAIESRDCLIINENAAQFFSEDGNLRYRVT 198 (198)
T ss_dssp EETTT-SHHHHHCT-SEEEEHHHHHHHECTTEEEEEEE
T ss_pred cchhhhHHhhccCCcEEEEchHHHHhcCCCCeEEEEeC
Confidence 99999999999999999999999999999998666654
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=100.00 E-value=6.8e-39 Score=250.76 Aligned_cols=125 Identities=32% Similarity=0.607 Sum_probs=118.3
Q ss_pred CcccCceeEEEEeecccccccccceEEEEEeecCceEEEEEeeeee-CCccEEEEEEEEeCChhhccCcEEEEEEecCCc
Q 021796 175 DMHDGSTFNHRYVKANALEIENATWMLTVFNCFGRHFCLHFEAFHL-GMAPVYMAFLRFMGDEEEARQFSYSLEVGGNGR 253 (307)
Q Consensus 175 ~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~F~l~~~~~~~-~~~~~~~~~v~~iG~~~~a~~f~Y~l~~~~~~r 253 (307)
++++|+ +++|+++|+++++ +.|++++++|||++|+|+++++++ +.+++|+|++|+||+..+|.+|+|+||+.+|+|
T Consensus 2 ~~~~G~--di~fl~t~~~~~~-a~~w~mv~sCfG~~F~L~~Ek~~l~~~~~~y~A~~~~iG~~~eA~nf~Y~Lel~~n~R 78 (127)
T cd03829 2 TTLQGE--DIVFLATDINLPG-ATDWVMMQSCFGHHFMLVLEKQELYEGHQQFFAFVQLIGTEKQAENFTYRLELNGNRR 78 (127)
T ss_pred ccccCc--cEEEEecCCCCcc-ceeeeehhhhcCceEEEEEehhhhcCCcHHHHHHHHHHcCHhHHhcceEEEEEcCCCc
Confidence 467788 6689999999888 566677999999999999999999 778999999999999999999999999999999
Q ss_pred eEEEeeecceeeccccccccCCCeeEEcCcccceecCCCeEEEEEEEEE
Q 021796 254 KLTWQGIPRSIRDSHKRVRDSQDGLIIQRNLALFFSGGDRQELKLKVAG 302 (307)
Q Consensus 254 ~l~~~s~~~si~~~~~~~~~~~d~l~i~~~~~~~~~~~~~~~l~~~i~~ 302 (307)
||+||++||||||++.+++++.|||+|++++|+||++||+++|+|+|||
T Consensus 79 kL~we~~PRSIrds~~~~~~~~D~Lii~~~~A~~Fs~~g~l~l~v~It~ 127 (127)
T cd03829 79 RLTWEATPRSIREGHASVIDNSDCLVFDTSIAQLFSENGNLGINVTISG 127 (127)
T ss_pred EEEeecCCccHHHhhHHHhhcCcceEEechHhhhccCCCccEEEEEecC
Confidence 9999999999999999999999999999999999999999999999986
No 4
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=99.29 E-value=4.2e-12 Score=121.95 Aligned_cols=118 Identities=27% Similarity=0.572 Sum_probs=104.0
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCcc----cchhHHHHhhccccccccccCCc
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGNI----RCLALEKVAESLELPCRYQIWGC 125 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~~----~~~~le~~~~~l~~~C~n~~~GC 125 (307)
.+..++.||+|..++.+|+..-.|||.||..|+..+. ..||.|+..+... ....+.+.+.++.+.|.++..||
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~~~~~~~~~~~~~l~i~c~~~~~GC 96 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEELPVPRALRRELLKLPIRCIFASRGC 96 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhccCchHHHHHHHHhcccccccCCCCc
Confidence 3788899999999999997634899999999998874 6899998887652 24677888999999999999999
Q ss_pred ceeecccchHHHHHhCCCcCccCCCCCCCCccccChhhHHHHhhccCCCC
Q 021796 126 QDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDHKVD 175 (307)
Q Consensus 126 ~~~~~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~~ 175 (307)
.|.+....+..|+..| .+..||+. |+..+.+.++.+|++.++...
T Consensus 97 ~~~~~l~~~~~Hl~~c--~~~~C~~~---C~~~~~~~d~~~hl~~~C~~~ 141 (391)
T KOG0297|consen 97 RADLELEALQGHLSTC--DPLKCPHR---CGVQVPRDDLEDHLEAECPRR 141 (391)
T ss_pred cccccHHHHHhHhccC--CcccCccc---cccccchHHHHHHHhcccccc
Confidence 9999999999999999 99999983 999999999999998877643
No 5
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.70 E-value=2.9e-09 Score=97.41 Aligned_cols=72 Identities=26% Similarity=0.557 Sum_probs=59.1
Q ss_pred CCCCCCCCccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc---ccchhHHHHhhccc
Q 021796 43 SGNLGTTSNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN---IRCLALEKVAESLE 115 (307)
Q Consensus 43 ~~~~~~~~~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~---~~~~~le~~~~~l~ 115 (307)
.....+++...++++|.|-||+++|+.|+.+ +|||.||+-|+.+.. ..||.|+.++.. ..|+.++.+++++.
T Consensus 9 w~~tsipslk~lD~lLRC~IC~eyf~ip~it-pCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~~ 86 (442)
T KOG0287|consen 9 WPPTSIPSLKTLDDLLRCGICFEYFNIPMIT-PCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRILDEIVKSLN 86 (442)
T ss_pred CCCccCchhhhhHHHHHHhHHHHHhcCceec-cccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHHHHHHHHHH
Confidence 3445567888999999999999999999998 899999999998874 889999998876 34566666666543
No 6
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.62 E-value=1.9e-08 Score=65.86 Aligned_cols=35 Identities=46% Similarity=1.220 Sum_probs=27.2
Q ss_pred eccccCCCCCCeeecCCCceechhchhhhc-------CCCCCC
Q 021796 60 CPVCLNLMYPPIYQCPNGHTLCSSCKARVR-------TGCPTC 95 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-------~~CP~C 95 (307)
||||++++++|+.. +|||+||..|+.++. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l-~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL-PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc-CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999988 999999999998873 357765
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.62 E-value=2e-08 Score=95.90 Aligned_cols=67 Identities=27% Similarity=0.529 Sum_probs=55.1
Q ss_pred CCCCccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc---ccchhHHHHhhcc
Q 021796 47 GTTSNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN---IRCLALEKVAESL 114 (307)
Q Consensus 47 ~~~~~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~---~~~~~le~~~~~l 114 (307)
..+....+...+.|+||.+++..|+.+ +|||.||..|+..+. ..||.|+..+.. .+|..++++++.+
T Consensus 16 ~~~~l~~Le~~l~C~IC~d~~~~Pvit-pCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 16 PIPSLYPLDTSLRCHICKDFFDVPVLT-SCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWLVSEIVESF 88 (397)
T ss_pred CcccccccccccCCCcCchhhhCccCC-CCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchHHHHHHHHH
Confidence 445567889999999999999999877 999999999998763 579999998765 4677777776654
No 8
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.59 E-value=9.7e-09 Score=72.26 Aligned_cols=59 Identities=25% Similarity=0.582 Sum_probs=31.4
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhh-cCCCCCCcccCCc---ccchhHHHHh
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARV-RTGCPTCRHELGN---IRCLALEKVA 111 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~-~~~CP~Cr~~~~~---~~~~~le~~~ 111 (307)
.+++.+.|++|.++|+.|+..-.|.|+||+.|+... ...||+|..|.-. ..|+.++.++
T Consensus 3 ~le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~Paw~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 3 RLEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTPAWIQDIQINRQLDSMI 65 (65)
T ss_dssp HHHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B-S-SS----HHHHHHH
T ss_pred HHHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCChHHHHHHHhhhhhhccC
Confidence 346788999999999999765489999999999875 3679999998643 4566666553
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.59 E-value=3.6e-08 Score=84.85 Aligned_cols=48 Identities=25% Similarity=0.728 Sum_probs=41.0
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhc-------------------CCCCCCcccCCc
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-------------------TGCPTCRHELGN 101 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-------------------~~CP~Cr~~~~~ 101 (307)
+..+.++||||++.+++|+.+ .|||+||..|+.+|. ..||.|+.+++.
T Consensus 14 ~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCCCcEEc-CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 345578999999999999887 899999999998762 479999998864
No 10
>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=98.55 E-value=7.9e-08 Score=68.20 Aligned_cols=55 Identities=25% Similarity=0.404 Sum_probs=46.0
Q ss_pred eeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc---ccchhHHHHhh
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN---IRCLALEKVAE 112 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~---~~~~~le~~~~ 112 (307)
.+.||||++++.+|+.. +|||+||..|+.++. ..||.|+.+++. .++..+.+.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~-~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVIL-PSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEEC-CCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeCHHHHHHHH
Confidence 36899999999999887 899999999999873 689999999864 56777766654
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=5.9e-08 Score=81.67 Aligned_cols=46 Identities=33% Similarity=0.868 Sum_probs=37.8
Q ss_pred CCeeeeccccCCCCC--CeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYP--PIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~--Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
...+.||||++.+.. |+-+ .|||+||+.|+.... ..||+|++.++.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVST-KCGHVFCSQCIKDALKNTNKCPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhcccccc-ccchhHHHHHHHHHHHhCCCCCCcccccch
Confidence 456999999999854 4445 899999999998763 899999987764
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=9.7e-08 Score=83.72 Aligned_cols=48 Identities=27% Similarity=0.690 Sum_probs=42.9
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhc------CCCCCCcccCCc
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR------TGCPTCRHELGN 101 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~~~~~ 101 (307)
.....|+|.||++..++||++ .|||+||..|+.+|. ..||+|+..++.
T Consensus 43 ~~~~~FdCNICLd~akdPVvT-lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVT-LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCCceeeeeeccccCCCEEe-ecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 346789999999999999999 699999999999994 679999998775
No 13
>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=98.37 E-value=2.1e-07 Score=63.16 Aligned_cols=43 Identities=33% Similarity=0.837 Sum_probs=37.1
Q ss_pred eeeeccccCCCCCCeeecCCCce-echhchhhhc---CCCCCCcccCC
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHT-LCSSCKARVR---TGCPTCRHELG 100 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~-~C~~C~~~~~---~~CP~Cr~~~~ 100 (307)
+..|+||++...++++. +|||. ||..|..++. ..||.||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~-pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLL-PCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEE-TTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEe-CCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 46899999999999888 99999 9999999883 89999999875
No 14
>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=98.36 E-value=2.5e-07 Score=59.49 Aligned_cols=36 Identities=36% Similarity=1.083 Sum_probs=29.1
Q ss_pred eccccCCCCCCeeecCCCceechhchhhhc---CCCCCC
Q 021796 60 CPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTC 95 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~C 95 (307)
||||.+.+.+|+..-+|||+||..|+.++. ..||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 899999999996555999999999998873 678876
No 15
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.27 E-value=3.3e-07 Score=82.50 Aligned_cols=57 Identities=28% Similarity=0.545 Sum_probs=49.7
Q ss_pred CCCCCCCccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 44 GNLGTTSNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 44 ~~~~~~~~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
....++++..+...+.|.||.+.++.|+.+ +|||.||+-||.+.. ..||.||.+...
T Consensus 12 ~~T~IPSL~~LDs~lrC~IC~~~i~ip~~T-tCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 12 NQTKIPSLKGLDSMLRCRICDCRISIPCET-TCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred ccccCcchhcchhHHHhhhhhheeecceec-ccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 345667888999999999999999999888 999999999998874 789999997643
No 16
>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=98.20 E-value=1.4e-06 Score=64.08 Aligned_cols=59 Identities=31% Similarity=0.401 Sum_probs=45.3
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc----CCCCCCcccCCc---ccchhHHHHhhcc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR----TGCPTCRHELGN---IRCLALEKVAESL 114 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~~---~~~~~le~~~~~l 114 (307)
.+.|.|||++++|.+||.. ++||+|+..++.++. ..||.|+.++.. .+|.+|.+.++.+
T Consensus 2 P~~f~CpIt~~lM~dPVi~-~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVIL-PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEE-TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeC-CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence 4678999999999999988 899999999999885 559999999876 5788888777654
No 17
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=98.17 E-value=9.2e-07 Score=62.17 Aligned_cols=55 Identities=25% Similarity=0.476 Sum_probs=39.8
Q ss_pred hhccccccccccCCcceeecccchHHHHH-hCCCcCccCCCCCCCCccccChhhHHHH
Q 021796 111 AESLELPCRYQIWGCQDIFPYYSKLKHEK-NCNYRPYNCPYAGAECSVTGDIPLLVRH 167 (307)
Q Consensus 111 ~~~l~~~C~n~~~GC~~~~~~~~~~~He~-~C~~~p~~Cp~~g~~C~~~g~~~~l~~H 167 (307)
.....++|+| .||...++..++.+|.+ +|+++++.||+...+|++.+.+.+|..|
T Consensus 5 C~~~~v~C~~--~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 5 CPFRPVPCPN--GCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp STTSEEE-TT----S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred CCCCEeeCCC--CCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 4556799997 46788899999999988 9999999999976779999999999887
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.11 E-value=1.3e-06 Score=57.73 Aligned_cols=38 Identities=29% Similarity=0.907 Sum_probs=31.6
Q ss_pred eeccccCCC---CCCeeecCCCceechhchhhhc---CCCCCCcc
Q 021796 59 ECPVCLNLM---YPPIYQCPNGHTLCSSCKARVR---TGCPTCRH 97 (307)
Q Consensus 59 ~CpiC~~~l---~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~ 97 (307)
+|++|++.+ ..|+++ +|||+||..|+.+.. ..||.|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 589999999 345555 899999999999875 68999974
No 19
>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=98.11 E-value=1.3e-06 Score=57.56 Aligned_cols=38 Identities=37% Similarity=0.886 Sum_probs=31.0
Q ss_pred eeccccCCCC--CCeeecCCCceechhchhhhc---CCCCCCc
Q 021796 59 ECPVCLNLMY--PPIYQCPNGHTLCSSCKARVR---TGCPTCR 96 (307)
Q Consensus 59 ~CpiC~~~l~--~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr 96 (307)
+|+||++.+. ..+...+|||.||..|+.+|. ..||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999994 445555899999999999884 8899996
No 20
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.05 E-value=2e-06 Score=77.07 Aligned_cols=47 Identities=26% Similarity=0.646 Sum_probs=37.8
Q ss_pred CCeeeeccccCCCCCC-e------eecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPP-I------YQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~P-i------~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
.+..+|+||++.+..+ + ...+|||.||..|+.+|. ..||.||.++..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 4467999999987653 1 233799999999999884 789999998775
No 21
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=1.9e-06 Score=77.85 Aligned_cols=47 Identities=30% Similarity=0.653 Sum_probs=41.2
Q ss_pred CCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 54 VHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
.+....|.+|++....|--+ +|||+||.+|+..|. ..||.||..+..
T Consensus 236 ~~a~~kC~LCLe~~~~pSaT-pCGHiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSAT-PCGHIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred CCCCCceEEEecCCCCCCcC-cCcchHHHHHHHHHHccccCCCcccccCCC
Confidence 46678999999999999766 899999999999983 779999998764
No 22
>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=98.03 E-value=2.8e-06 Score=54.97 Aligned_cols=36 Identities=36% Similarity=1.017 Sum_probs=30.2
Q ss_pred eccccCCCCCCeeecCCCceechhchhhhc-----CCCCCC
Q 021796 60 CPVCLNLMYPPIYQCPNGHTLCSSCKARVR-----TGCPTC 95 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-----~~CP~C 95 (307)
|+||.+.+..|+..-+|||.||..|+.++. ..||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999998444999999999998873 567766
No 23
>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=1.3e-05 Score=51.97 Aligned_cols=41 Identities=39% Similarity=0.987 Sum_probs=33.5
Q ss_pred eeccccCCCCCCeeecCCCceechhchhhhc----CCCCCCcccC
Q 021796 59 ECPVCLNLMYPPIYQCPNGHTLCSSCKARVR----TGCPTCRHEL 99 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~ 99 (307)
.|+||.+.+..++..-.|||.||..|+.++. ..||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999997776664599999999998663 5799998753
No 24
>PHA02926 zinc finger-like protein; Provisional
Probab=97.76 E-value=8.1e-06 Score=71.38 Aligned_cols=48 Identities=27% Similarity=0.724 Sum_probs=37.6
Q ss_pred CCCCeeeeccccCCCCC---------CeeecCCCceechhchhhhc---------CCCCCCcccCCc
Q 021796 53 DVHELLECPVCLNLMYP---------PIYQCPNGHTLCSSCKARVR---------TGCPTCRHELGN 101 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~---------Pi~~C~cGH~~C~~C~~~~~---------~~CP~Cr~~~~~ 101 (307)
...++.+|+||++.... ++.. +|+|.||..|+.+|. ..||.||..+..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~-~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLD-SCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccC-CCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 34557899999998643 3444 799999999999985 239999998765
No 25
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=1e-05 Score=78.45 Aligned_cols=44 Identities=30% Similarity=0.782 Sum_probs=38.9
Q ss_pred eeeeccccCCCCCCeeecCCCceechhchhhhc--------CCCCCCcccCCc
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR--------TGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~--------~~CP~Cr~~~~~ 101 (307)
...||||+++..-|+.+ .|||+||..|+.+.. ..||.|+..+..
T Consensus 186 ~~~CPICL~~~~~p~~t-~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT-NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccccc-ccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 78999999999999888 799999999988752 789999998765
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.73 E-value=1.3e-05 Score=52.55 Aligned_cols=28 Identities=32% Similarity=1.019 Sum_probs=18.7
Q ss_pred eccccCCCCC----CeeecCCCceechhchhhhc
Q 021796 60 CPVCLNLMYP----PIYQCPNGHTLCSSCKARVR 89 (307)
Q Consensus 60 CpiC~~~l~~----Pi~~C~cGH~~C~~C~~~~~ 89 (307)
||||.+ +.. |+.. +|||+||..|+.++.
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~ 32 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLS 32 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHH
Confidence 899999 777 8888 799999999998873
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=1.6e-05 Score=71.04 Aligned_cols=46 Identities=30% Similarity=0.555 Sum_probs=39.6
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhh-hc----CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKAR-VR----TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~-~~----~~CP~Cr~~~~~ 101 (307)
..++.|++|.+....|..+ +|||+||..|+.. |. ..||.||.....
T Consensus 213 ~~d~kC~lC~e~~~~ps~t-~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT-PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCcccc-cccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 6789999999999999887 9999999999887 42 569999986543
No 28
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.54 E-value=3.3e-05 Score=70.21 Aligned_cols=68 Identities=31% Similarity=0.639 Sum_probs=51.7
Q ss_pred ccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc-ccchhHHHHhhccccccc
Q 021796 51 NNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN-IRCLALEKVAESLELPCR 119 (307)
Q Consensus 51 ~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~-~~~~~le~~~~~l~~~C~ 119 (307)
...+.+.+.||||++.+..|... +|||.||..|+..+. ..||.||..... .+|..+.+++..+.....
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l-~C~H~~c~~C~~~~~~~~~~Cp~cr~~~~~~~~n~~l~~~~~~~~~~~~ 78 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLL-PCGHNFCRACLTRSWEGPLSCPVCRPPSRNLRPNVLLANLVERLRQLRL 78 (386)
T ss_pred hhhccccccChhhHHHhhcCccc-cccchHhHHHHHHhcCCCcCCcccCCchhccCccHHHHHHHHHHHhcCC
Confidence 34567899999999999999655 799999999999875 789999952111 356777777776654443
No 29
>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=97.52 E-value=5.5e-05 Score=47.14 Aligned_cols=35 Identities=43% Similarity=1.106 Sum_probs=29.6
Q ss_pred eccccCCCCCCeeecCCCceechhchhhhc----CCCCCC
Q 021796 60 CPVCLNLMYPPIYQCPNGHTLCSSCKARVR----TGCPTC 95 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~----~~CP~C 95 (307)
|+||++....++.. +|||.||..|+.++. ..||.|
T Consensus 1 C~iC~~~~~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999998888777 899999999998762 568876
No 30
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=7.2e-06 Score=76.00 Aligned_cols=65 Identities=23% Similarity=0.477 Sum_probs=50.6
Q ss_pred CccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc----CCCCCCcccCCccc----chhHHHHhhcc
Q 021796 50 SNNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR----TGCPTCRHELGNIR----CLALEKVAESL 114 (307)
Q Consensus 50 ~~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~~~~----~~~le~~~~~l 114 (307)
.+..+...+.||||+++++..+.+-.|+|.||..|+.+.. +.||+||+.+...| +.....++..+
T Consensus 36 ~l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis~i 108 (381)
T KOG0311|consen 36 DLAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDPNFDALISKI 108 (381)
T ss_pred cHHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCccHHHHHHHH
Confidence 3566788999999999999887776799999999998763 88999999887633 33445555443
No 31
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=5.6e-05 Score=76.60 Aligned_cols=51 Identities=27% Similarity=0.662 Sum_probs=43.6
Q ss_pred ccCCCCeeeeccccCCCCCCeeecCCCceechhchhhh----cCCCCCCcccCCcc
Q 021796 51 NNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARV----RTGCPTCRHELGNI 102 (307)
Q Consensus 51 ~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~----~~~CP~Cr~~~~~~ 102 (307)
+......|.||+|..-.++-|.. .|||.||..|+.+. ..+||.|..+|+..
T Consensus 637 lk~yK~~LkCs~Cn~R~Kd~vI~-kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 637 LKEYKELLKCSVCNTRWKDAVIT-KCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred HHHHHhceeCCCccCchhhHHHH-hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 34567899999999888888877 89999999999876 38999999998863
No 32
>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=97.25 E-value=0.00024 Score=65.70 Aligned_cols=45 Identities=33% Similarity=0.686 Sum_probs=33.6
Q ss_pred eeeeccccC--CCCCCe--eecCCCceechhchhhhc----CCCCCCcccCCc
Q 021796 57 LLECPVCLN--LMYPPI--YQCPNGHTLCSSCKARVR----TGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~--~l~~Pi--~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~~ 101 (307)
...||+|.. ++.+-+ +.-.|||.||.+|+..+. ..||.|+.++..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 357999999 444331 332699999999999862 679999987654
No 33
>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=97.03 E-value=0.0012 Score=54.98 Aligned_cols=29 Identities=24% Similarity=0.582 Sum_probs=24.0
Q ss_pred cCccCCCCCCCCccccChhhHHHHhhccCCC
Q 021796 144 RPYNCPYAGAECSVTGDIPLLVRHLKNDHKV 174 (307)
Q Consensus 144 ~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~ 174 (307)
.+-.|+.. .|.|.|.+.+|.+|.+..|..
T Consensus 106 K~RsC~~e--~C~F~GtY~eLrKHar~~HP~ 134 (162)
T PF07800_consen 106 KKRSCSQE--SCSFSGTYSELRKHARSEHPS 134 (162)
T ss_pred CCccCccc--ccccccCHHHHHHHHHhhCCC
Confidence 34456663 599999999999999999984
No 34
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.98 E-value=0.00045 Score=69.00 Aligned_cols=110 Identities=17% Similarity=0.377 Sum_probs=69.5
Q ss_pred cCCCCeeeeccccCCCCCCee-----ecCCCceechh--chhhh-------cCCCCCCcccCCcccchhHHHHhhccccc
Q 021796 52 NDVHELLECPVCLNLMYPPIY-----QCPNGHTLCSS--CKARV-------RTGCPTCRHELGNIRCLALEKVAESLELP 117 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~-----~C~cGH~~C~~--C~~~~-------~~~CP~Cr~~~~~~~~~~le~~~~~l~~~ 117 (307)
+...+...|+.|......--+ .|...-+.|.. |.... +..|+.|...+....-..+.+.. ...+.
T Consensus 402 s~~~~~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f~~s~LekH~~~~-Hkpv~ 480 (567)
T PLN03086 402 SMDVDTVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAKNHVHCEKCGQAFQQGEMEKHMKVF-HEPLQ 480 (567)
T ss_pred cCCCCeEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccccCccCCCCCCccchHHHHHHHHhc-CCCcc
Confidence 344667789999887643211 24333344432 43222 25799998877542222333333 46778
Q ss_pred cccccCCcceeecccchHHHHH-hCCCcCccCCCCCCCCccccC-----------hhhHHHHhhcc
Q 021796 118 CRYQIWGCQDIFPYYSKLKHEK-NCNYRPYNCPYAGAECSVTGD-----------IPLLVRHLKND 171 (307)
Q Consensus 118 C~n~~~GC~~~~~~~~~~~He~-~C~~~p~~Cp~~g~~C~~~g~-----------~~~l~~Hl~~~ 171 (307)
|+ |...+...++..|.. .|+.+++.|++ |+.... ...|..|....
T Consensus 481 Cp-----Cg~~~~R~~L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~C 537 (567)
T PLN03086 481 CP-----CGVVLEKEQMVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESIC 537 (567)
T ss_pred CC-----CCCCcchhHHHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHhc
Confidence 87 777778888889965 79999999998 665553 34788887763
No 35
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.69 E-value=0.0008 Score=57.86 Aligned_cols=58 Identities=22% Similarity=0.450 Sum_probs=42.8
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhh---cCCCCCCcccCCc--ccchhHHHHhhc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARV---RTGCPTCRHELGN--IRCLALEKVAES 113 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~---~~~CP~Cr~~~~~--~~~~~le~~~~~ 113 (307)
.-.|.|-||.+-+..||.+ .|||.||+.|..+- ...|-.|.+..-. .....+++++.+
T Consensus 194 ~IPF~C~iCKkdy~spvvt-~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL~~ 256 (259)
T COG5152 194 KIPFLCGICKKDYESPVVT-ECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKMLNK 256 (259)
T ss_pred CCceeehhchhhccchhhh-hcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHHhh
Confidence 3457899999999999988 99999999997654 2678888775322 233445666543
No 36
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.0019 Score=58.25 Aligned_cols=46 Identities=33% Similarity=0.579 Sum_probs=37.4
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc-----CCCCCCcccCC
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-----TGCPTCRHELG 100 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-----~~CP~Cr~~~~ 100 (307)
....+||+|.+....|...-.|||++|..|+..-. ..||.|..+.-
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 55679999999999996553599999999998653 48999987643
No 37
>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=96.68 E-value=0.0013 Score=48.16 Aligned_cols=38 Identities=32% Similarity=0.746 Sum_probs=29.5
Q ss_pred eeccccCCCCCC------------eeecCCCceechhchhhhc---CCCCCCc
Q 021796 59 ECPVCLNLMYPP------------IYQCPNGHTLCSSCKARVR---TGCPTCR 96 (307)
Q Consensus 59 ~CpiC~~~l~~P------------i~~C~cGH~~C~~C~~~~~---~~CP~Cr 96 (307)
.|.||++.+.+| +..-.|||.|-..|+.+|. ..||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 399999999443 2322699999999999884 7899997
No 38
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00091 Score=64.33 Aligned_cols=48 Identities=42% Similarity=0.978 Sum_probs=42.3
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
.+.+.|.|.||...+.+|+.+ +|||.+|..|+.+.. ..||.||.++..
T Consensus 80 ~~~sef~c~vc~~~l~~pv~t-pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYPPVVT-PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCCCccc-cccccccHHHHHHHhccCCCCccccccccc
Confidence 448899999999999999998 999999999977753 789999998764
No 39
>PLN03086 PRLI-interacting factor K; Provisional
Probab=96.44 E-value=0.0056 Score=61.34 Aligned_cols=37 Identities=22% Similarity=0.310 Sum_probs=18.8
Q ss_pred chHHHHHhCCCcCccCCCCCCCCccccChhhHHHHhhccCC
Q 021796 133 SKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDHK 173 (307)
Q Consensus 133 ~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~ 173 (307)
.+..|+..|.-+++.|.. |+......+|..|+..-|.
T Consensus 529 ~Lt~HE~~CG~rt~~C~~----Cgk~Vrlrdm~~H~~~~h~ 565 (567)
T PLN03086 529 GMSEHESICGSRTAPCDS----CGRSVMLKEMDIHQIAVHQ 565 (567)
T ss_pred hHHHHHHhcCCcceEccc----cCCeeeehhHHHHHHHhhc
Confidence 445555555555555532 4444455555555555443
No 40
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.10 E-value=0.0032 Score=42.09 Aligned_cols=40 Identities=30% Similarity=0.850 Sum_probs=20.7
Q ss_pred eccccCCCCC---CeeecCCCceechhchhhhc----CCCCCCcccC
Q 021796 60 CPVCLNLMYP---PIYQCPNGHTLCSSCKARVR----TGCPTCRHEL 99 (307)
Q Consensus 60 CpiC~~~l~~---Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~ 99 (307)
||+|.+.+.. -++-|+||..+|..|..++. ..||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7888888721 24569999999999987764 7899999874
No 41
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.0036 Score=57.10 Aligned_cols=49 Identities=20% Similarity=0.528 Sum_probs=40.2
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCcccc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGNIRC 104 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~~~~ 104 (307)
.--+.|-||.+++..||.+ .|||.||..|..+.. ..|.+|.+.+-..-|
T Consensus 239 ~~Pf~c~icr~~f~~pVvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~ 290 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRPVVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFN 290 (313)
T ss_pred cCCccccccccccccchhh-cCCceeehhhhccccccCCcceecccccccccc
Confidence 4456799999999999988 999999999977653 679999987655434
No 42
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.86 E-value=0.0039 Score=56.87 Aligned_cols=40 Identities=35% Similarity=0.859 Sum_probs=35.4
Q ss_pred eeeccccCCCCCCeeecCCCceechhchhhhc----CCCCCCcc
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCKARVR----TGCPTCRH 97 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~ 97 (307)
|.||.|..+++.|+.+-.|||.||..|+...+ ..||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 89999999999998884599999999998653 88999976
No 43
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=95.83 E-value=0.0058 Score=45.88 Aligned_cols=42 Identities=24% Similarity=0.445 Sum_probs=33.1
Q ss_pred eeccccCCCCC-CeeecCCCceechhchhhhc------CCCCCCcccCC
Q 021796 59 ECPVCLNLMYP-PIYQCPNGHTLCSSCKARVR------TGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l~~-Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~~~~ 100 (307)
.||.|..+-.+ |+....|+|.|-..|+.++. ..||.||++..
T Consensus 34 ~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 34 CCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 46667666543 66677899999999999883 78999999764
No 44
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.76 E-value=0.0024 Score=59.06 Aligned_cols=50 Identities=22% Similarity=0.512 Sum_probs=41.8
Q ss_pred cCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
.++.....|++|..+|.++...-.|=|+||.+|+.+.. +.||.|...+..
T Consensus 10 ~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred hhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 45567889999999999996555799999999998763 899999887654
No 45
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=95.60 E-value=0.0065 Score=42.31 Aligned_cols=38 Identities=32% Similarity=0.571 Sum_probs=29.8
Q ss_pred HHHhCCCcCccCCCCCCCCccccChhhHHHHhhccCCCCc
Q 021796 137 HEKNCNYRPYNCPYAGAECSVTGDIPLLVRHLKNDHKVDM 176 (307)
Q Consensus 137 He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~~~ 176 (307)
|+++|+++++.||+.+ |.-...+.+|.+|+........
T Consensus 1 H~~~C~~~~v~C~~~c--c~~~i~r~~l~~H~~~~C~~~~ 38 (60)
T PF02176_consen 1 HEEECPFRPVPCPNGC--CNEMIPRKELDDHLENECPKRP 38 (60)
T ss_dssp HHTTSTTSEEE-TT----S-BEEECCCHHHHHHTTSTTSE
T ss_pred CcccCCCCEeeCCCCC--cccceeHHHHHHHHHccCCCCc
Confidence 8889999999999843 6666889999999998887653
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.41 E-value=0.0092 Score=41.55 Aligned_cols=35 Identities=23% Similarity=0.340 Sum_probs=24.8
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR 89 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~ 89 (307)
...+.||+.+.++.+||..-.|||+|....+.++.
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i 43 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYI 43 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHH
Confidence 44679999999999998865799999998887763
No 47
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.26 E-value=0.0068 Score=56.27 Aligned_cols=47 Identities=32% Similarity=0.874 Sum_probs=37.1
Q ss_pred CCCeeeeccccCCCCC---CeeecCCCceechhchhhhc----CCCCCCcccCCc
Q 021796 54 VHELLECPVCLNLMYP---PIYQCPNGHTLCSSCKARVR----TGCPTCRHELGN 101 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~---Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~~ 101 (307)
.++++ ||+|.+++-. -.+-|+||..+|..|...+. .+||.||.....
T Consensus 12 deed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 12 DEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 34445 9999999843 35679999999999987663 899999987654
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.12 E-value=0.0092 Score=54.66 Aligned_cols=44 Identities=25% Similarity=0.539 Sum_probs=37.5
Q ss_pred eeeeccccCCCCCCeeecCCCceechhchhhh----cCCCCCCcccCCc
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHTLCSSCKARV----RTGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~----~~~CP~Cr~~~~~ 101 (307)
.-+|+||+.-..-|+.. .|+|.||.-|+.-. ...|++||.++..
T Consensus 7 ~~eC~IC~nt~n~Pv~l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNL-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCcCccc-cccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 44899999999999877 89999999998755 2669999999864
No 49
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.00 E-value=0.0087 Score=60.36 Aligned_cols=44 Identities=34% Similarity=0.606 Sum_probs=37.5
Q ss_pred CCeeeeccccCCCCC-----CeeecCCCceechhchhhhc---CCCCCCcccC
Q 021796 55 HELLECPVCLNLMYP-----PIYQCPNGHTLCSSCKARVR---TGCPTCRHEL 99 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~-----Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~ 99 (307)
.....|+||.+.+.. |... +|||+|+..|+.+|. ..||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 446789999999987 6566 899999999999883 8999999943
No 50
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.53 E-value=0.009 Score=54.45 Aligned_cols=41 Identities=27% Similarity=0.778 Sum_probs=36.2
Q ss_pred eeeeccccCCCCCCeeecCCCc-eechhchhhhcCCCCCCcccC
Q 021796 57 LLECPVCLNLMYPPIYQCPNGH-TLCSSCKARVRTGCPTCRHEL 99 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH-~~C~~C~~~~~~~CP~Cr~~~ 99 (307)
...|.||++...+=++. +||| +.|..|-.++ +.||.||+.+
T Consensus 300 ~~LC~ICmDaP~DCvfL-eCGHmVtCt~CGkrm-~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFL-ECGHMVTCTKCGKRM-NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcceEEe-ecCcEEeehhhcccc-ccCchHHHHH
Confidence 67799999999999998 9999 6899998776 7999999865
No 51
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=94.38 E-value=0.012 Score=42.66 Aligned_cols=45 Identities=24% Similarity=0.531 Sum_probs=20.5
Q ss_pred eeeeccccCCCC----CCeeec---CCCceechhchhhhc--------------CCCCCCcccCCc
Q 021796 57 LLECPVCLNLMY----PPIYQC---PNGHTLCSSCKARVR--------------TGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~----~Pi~~C---~cGH~~C~~C~~~~~--------------~~CP~Cr~~~~~ 101 (307)
.++|+||+..+. .|...| .|+..|=..|+.+|. ..||.|+.+++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 468999999864 366777 488888888988872 459999887653
No 52
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.37 E-value=0.022 Score=53.38 Aligned_cols=46 Identities=33% Similarity=0.757 Sum_probs=39.2
Q ss_pred CCeeeeccccCCCCCCeeecCCCce-echhchhhhc---CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHT-LCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~-~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
.+--+|-||+.-.++-+.. +|.|+ .|+.|...+. ++||.||+++..
T Consensus 288 ~~gkeCVIClse~rdt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEe-cchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 4456899999999998888 99995 9999988774 889999998753
No 53
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.35 E-value=0.0055 Score=41.75 Aligned_cols=42 Identities=29% Similarity=0.750 Sum_probs=34.1
Q ss_pred eeeccccCCCCCCeeecCCCce-echhchhhh----cCCCCCCcccCC
Q 021796 58 LECPVCLNLMYPPIYQCPNGHT-LCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~-~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
-+|.||.+-..+.|.- .|||. .|..|-.++ ...||.||.++.
T Consensus 8 dECTICye~pvdsVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 5899999998888665 68994 899997665 378999999864
No 54
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.30 E-value=0.024 Score=50.56 Aligned_cols=43 Identities=21% Similarity=0.697 Sum_probs=33.9
Q ss_pred eeeccccCCC-CCCeeecCCCceechhchhhhcC-CCCCCcccCC
Q 021796 58 LECPVCLNLM-YPPIYQCPNGHTLCSSCKARVRT-GCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l-~~Pi~~C~cGH~~C~~C~~~~~~-~CP~Cr~~~~ 100 (307)
..|..|+.-- ..|.+...|+|+||..|...... .||.|++++.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPDVCPLCKKSIR 48 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCccccccccceee
Confidence 4688777654 56767668999999999876654 9999999864
No 55
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.08 E-value=0.044 Score=37.62 Aligned_cols=44 Identities=27% Similarity=0.566 Sum_probs=32.9
Q ss_pred eeeeccccCCCCCCeeecCCCceechhchhhhc-CCCCCCcccCCc
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-TGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-~~CP~Cr~~~~~ 101 (307)
...|-.|...-...+.. +|||++|..|..-.. +-||.|..++..
T Consensus 7 ~~~~~~~~~~~~~~~~~-pCgH~I~~~~f~~~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVL-PCGHLICDNCFPGERYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEccccccccccc-cccceeeccccChhhccCCCCCCCcccC
Confidence 44566677775555555 899999999986543 889999998753
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=93.63 E-value=0.022 Score=54.10 Aligned_cols=42 Identities=36% Similarity=0.742 Sum_probs=35.2
Q ss_pred eeccccCCCCCCeeecCCCceechhchhhhc-----CCCCCCcccCCc
Q 021796 59 ECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-----TGCPTCRHELGN 101 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-----~~CP~Cr~~~~~ 101 (307)
.|-||-+--++--.. +|||+.|..|+..|. ..||.||..+..
T Consensus 371 LCKICaendKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAENDKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccCCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 499999988775455 899999999999884 789999998754
No 57
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.19 E-value=0.039 Score=52.94 Aligned_cols=34 Identities=38% Similarity=0.851 Sum_probs=30.5
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR 89 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~ 89 (307)
++.|.||||...+++||.. +|||.+|..|.....
T Consensus 2 eeelkc~vc~~f~~epiil-~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIIL-PCSHNLCQACARNIL 35 (699)
T ss_pred cccccCceehhhccCceEe-ecccHHHHHHHHhhc
Confidence 5689999999999999998 999999999987653
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=92.69 E-value=0.04 Score=54.09 Aligned_cols=49 Identities=22% Similarity=0.478 Sum_probs=41.2
Q ss_pred cCCCCeeeeccccCCCCCCeeecCCCceechhchhhhc--------CCCCCCcccCCc
Q 021796 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR--------TGCPTCRHELGN 101 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~--------~~CP~Cr~~~~~ 101 (307)
.+-.....|.+|.++..+++.. .|.|.||.-|+.+.. ..||.|..+++.
T Consensus 531 ~enk~~~~C~lc~d~aed~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAEDYIES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred ccccCceeecccCChhhhhHhh-hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 3446778999999999999877 999999999997652 689999888764
No 59
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.20 E-value=0.049 Score=50.98 Aligned_cols=44 Identities=23% Similarity=0.531 Sum_probs=36.9
Q ss_pred CeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCC
Q 021796 56 ELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELG 100 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~ 100 (307)
++-.||||+--....+++ +|+|.-|+.|+.+.. +.|-.|+..+.
T Consensus 421 Ed~lCpICyA~pi~Avf~-PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFA-PCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred ccccCcceecccchhhcc-CCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 455799999988888998 999999999999885 66778877654
No 60
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.36 E-value=0.13 Score=47.39 Aligned_cols=45 Identities=22% Similarity=0.603 Sum_probs=35.7
Q ss_pred CeeeeccccCCCC--CCeeecCCCceechhchhhhc----CCCCCCcccCC
Q 021796 56 ELLECPVCLNLMY--PPIYQCPNGHTLCSSCKARVR----TGCPTCRHELG 100 (307)
Q Consensus 56 ~~l~CpiC~~~l~--~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~ 100 (307)
.-.+|.||.+-+. +-+..-+|.|.|=..|+.+|. ..||+||.++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 3479999999874 223333899999999999994 79999998764
No 61
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.20 E-value=0.11 Score=48.81 Aligned_cols=46 Identities=28% Similarity=0.733 Sum_probs=35.4
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceech-hchhhhcCCCCCCcccCC
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCS-SCKARVRTGCPTCRHELG 100 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~-~C~~~~~~~CP~Cr~~~~ 100 (307)
++.....|-||.+-.++.++. +|||+-|. .|. +....||.||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fv-pcGh~ccct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFV-PCGHVCCCTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeee-cCCcEEEchHHH-hhCCCCchhHHHHH
Confidence 445667899999999999888 99998762 233 33477999999764
No 62
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=90.93 E-value=0.14 Score=49.58 Aligned_cols=48 Identities=31% Similarity=0.618 Sum_probs=38.4
Q ss_pred CCCCeeeeccccCCCCCCe---eecCCCceechhchhhhc-CCCCCCcccCC
Q 021796 53 DVHELLECPVCLNLMYPPI---YQCPNGHTLCSSCKARVR-TGCPTCRHELG 100 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi---~~C~cGH~~C~~C~~~~~-~~CP~Cr~~~~ 100 (307)
.+.++-+||||++-|-+-+ .+-.|.|.|=..|..+|. ..||+||.-..
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcC
Confidence 4466779999999997654 554799999999999985 78999987543
No 63
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=90.79 E-value=0.13 Score=41.78 Aligned_cols=46 Identities=26% Similarity=0.704 Sum_probs=36.3
Q ss_pred CeeeeccccCCCCCCeeecC---CCceechhchhhh------cCCCCCCcccCCc
Q 021796 56 ELLECPVCLNLMYPPIYQCP---NGHTLCSSCKARV------RTGCPTCRHELGN 101 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~C~---cGH~~C~~C~~~~------~~~CP~Cr~~~~~ 101 (307)
.+++|.||.+.-.+.-+.=+ ||-.+|..|...+ ...||.|+..+..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 78999999998766544311 8999999997765 3889999998754
No 64
>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=90.00 E-value=0.32 Score=33.17 Aligned_cols=49 Identities=31% Similarity=0.622 Sum_probs=31.1
Q ss_pred cccccccCCcceeecccchHHHHHh--CC-CcCccCCCCCCCCccccChhhHHHHhhccCC
Q 021796 116 LPCRYQIWGCQDIFPYYSKLKHEKN--CN-YRPYNCPYAGAECSVTGDIPLLVRHLKNDHK 173 (307)
Q Consensus 116 ~~C~n~~~GC~~~~~~~~~~~He~~--C~-~~p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~ 173 (307)
+.||+ |...+....|..|..+ .. -..+.||. |... ...+|..|+...|.
T Consensus 3 f~CP~----C~~~~~~~~L~~H~~~~H~~~~~~v~CPi----C~~~-~~~~l~~Hl~~~H~ 54 (54)
T PF05605_consen 3 FTCPY----CGKGFSESSLVEHCEDEHRSESKNVVCPI----CSSR-VTDNLIRHLNSQHR 54 (54)
T ss_pred cCCCC----CCCccCHHHHHHHHHhHCcCCCCCccCCC----chhh-hhhHHHHHHHHhcC
Confidence 56777 6666666677777443 22 23578887 5443 33588888888774
No 65
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.98 E-value=0.14 Score=48.48 Aligned_cols=47 Identities=23% Similarity=0.586 Sum_probs=38.1
Q ss_pred CCeeeeccccCCCCCCe-----e--ecCCCceechhchhhhc----------CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPPI-----Y--QCPNGHTLCSSCKARVR----------TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi-----~--~C~cGH~~C~~C~~~~~----------~~CP~Cr~~~~~ 101 (307)
.+...|-||++....+. + .-.|.|.||..|+.+|. ..||.||.....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 45778999999997765 3 12699999999999984 689999997654
No 66
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.90 E-value=0.2 Score=47.36 Aligned_cols=44 Identities=23% Similarity=0.517 Sum_probs=34.9
Q ss_pred eeeccccCCCCCC--eeecCCCceechhchhhhc----CCCCCCcccCCc
Q 021796 58 LECPVCLNLMYPP--IYQCPNGHTLCSSCKARVR----TGCPTCRHELGN 101 (307)
Q Consensus 58 l~CpiC~~~l~~P--i~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~~ 101 (307)
..|.||+|-+.+= +..=+|.|.|=..|+..|. ..||+|++.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 6999999998643 3322899999999999994 559999997643
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.51 E-value=0.19 Score=47.12 Aligned_cols=44 Identities=36% Similarity=0.873 Sum_probs=35.6
Q ss_pred CCCeeeeccccCCCCCCeeecCCCceechhchhhhc-----CCCCCCccc
Q 021796 54 VHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-----TGCPTCRHE 98 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-----~~CP~Cr~~ 98 (307)
..+.-.|-||-+-+.-.-.. +|+|..|.-|..++. ..||.||..
T Consensus 58 DEen~~C~ICA~~~TYs~~~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 58 DEENMNCQICAGSTTYSARY-PCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccceeEEecCCceEEEec-cCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 35667799999988755455 899999999987763 889999986
No 68
>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=88.76 E-value=0.19 Score=29.15 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=15.1
Q ss_pred eeccccCCCCCCeeecC-CCcee
Q 021796 59 ECPVCLNLMYPPIYQCP-NGHTL 80 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~-cGH~~ 80 (307)
.||.|...+..-...|+ |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 47888877765556666 77765
No 69
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=88.71 E-value=0.27 Score=46.54 Aligned_cols=45 Identities=29% Similarity=0.598 Sum_probs=35.0
Q ss_pred CCeeeeccccCCC-CCC------------eeecCCCceechhchhhhc---CCCCCCcccCC
Q 021796 55 HELLECPVCLNLM-YPP------------IYQCPNGHTLCSSCKARVR---TGCPTCRHELG 100 (307)
Q Consensus 55 ~~~l~CpiC~~~l-~~P------------i~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~ 100 (307)
.++-.|-||.+-+ .+| -.. +|||.+=-.|...|. ..||.||.++.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCccc
Confidence 3456899999984 333 333 799999999998883 89999999953
No 70
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=88.56 E-value=0.4 Score=44.36 Aligned_cols=71 Identities=18% Similarity=0.367 Sum_probs=46.5
Q ss_pred ccCCCC-eeeeccccCCCCCC-eeecCCCceechhchhhh-cCCCCCCcccCCcccchhHHHHhhccccccccccCCcce
Q 021796 51 NNDVHE-LLECPVCLNLMYPP-IYQCPNGHTLCSSCKARV-RTGCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQD 127 (307)
Q Consensus 51 ~~~~~~-~l~CpiC~~~l~~P-i~~C~cGH~~C~~C~~~~-~~~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~ 127 (307)
...+.. ..-|--|..++..= -+. +|.|+||..|...- .+.||.|..++ ..+|.....-.+-|. ...||..
T Consensus 83 ek~l~p~VHfCd~Cd~PI~IYGRmI-PCkHvFCl~CAr~~~dK~Cp~C~d~V-----qrIeq~~~g~iFmC~-~~~GC~R 155 (389)
T KOG2932|consen 83 EKQLGPRVHFCDRCDFPIAIYGRMI-PCKHVFCLECARSDSDKICPLCDDRV-----QRIEQIMMGGIFMCA-APHGCLR 155 (389)
T ss_pred ccccCcceEeecccCCcceeeeccc-ccchhhhhhhhhcCccccCcCcccHH-----HHHHHhcccceEEee-cchhHHH
Confidence 334433 56688898877532 123 79999999997543 26899996643 456666666667777 4567765
Q ss_pred e
Q 021796 128 I 128 (307)
Q Consensus 128 ~ 128 (307)
+
T Consensus 156 T 156 (389)
T KOG2932|consen 156 T 156 (389)
T ss_pred H
Confidence 3
No 71
>PF04641 Rtf2: Rtf2 RING-finger
Probab=87.53 E-value=0.79 Score=41.83 Aligned_cols=49 Identities=18% Similarity=0.447 Sum_probs=39.6
Q ss_pred CCCCeeeeccccCCCCCC---eeecCCCceechhchhhhc--CCCCCCcccCCc
Q 021796 53 DVHELLECPVCLNLMYPP---IYQCPNGHTLCSSCKARVR--TGCPTCRHELGN 101 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~P---i~~C~cGH~~C~~C~~~~~--~~CP~Cr~~~~~ 101 (307)
.-...+.|||....|..- ++.-+|||+|+..++.++. ..||.|..++..
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELKKSKKCPVCGKPFTE 162 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhcccccccccCCcccc
Confidence 347789999999999542 3444899999999999885 479999999875
No 72
>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=87.41 E-value=0.44 Score=32.32 Aligned_cols=37 Identities=27% Similarity=0.788 Sum_probs=19.0
Q ss_pred eccccCCCCC--------CeeecC-CCceechhchh---hhcCCCCCCc
Q 021796 60 CPVCLNLMYP--------PIYQCP-NGHTLCSSCKA---RVRTGCPTCR 96 (307)
Q Consensus 60 CpiC~~~l~~--------Pi~~C~-cGH~~C~~C~~---~~~~~CP~Cr 96 (307)
|--|...+.. ..++|+ |++.||..|-. +.+..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 4456666554 357775 89999999933 3347899884
No 73
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.99 E-value=0.42 Score=45.60 Aligned_cols=45 Identities=27% Similarity=0.572 Sum_probs=35.6
Q ss_pred cCCCCeeeeccccCCC---CCCeeecCCCceechhchhhhc------CCCCCCcc
Q 021796 52 NDVHELLECPVCLNLM---YPPIYQCPNGHTLCSSCKARVR------TGCPTCRH 97 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l---~~Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~ 97 (307)
....+.|.|||=.+.- .||+.. .|||++|..-+.++. .+||+|-.
T Consensus 329 ~~fHSvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 329 YHFHSVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ccccceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 3568899999977765 578887 899999998888772 57888844
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.92 E-value=0.36 Score=43.27 Aligned_cols=46 Identities=20% Similarity=0.372 Sum_probs=37.3
Q ss_pred CeeeeccccCCCCCCe---eecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 56 ELLECPVCLNLMYPPI---YQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi---~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
..+.||+|.+.|...+ +.-++||+||..|.+++. ..||+|..++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 6789999999997642 222799999999999884 679999888764
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.71 E-value=0.41 Score=45.92 Aligned_cols=103 Identities=22% Similarity=0.419 Sum_probs=60.5
Q ss_pred CCCeeeeccccCCCCCC---eeecCCCceechhchhhhc-----------CCCCCCccc--CCc---c-----------c
Q 021796 54 VHELLECPVCLNLMYPP---IYQCPNGHTLCSSCKARVR-----------TGCPTCRHE--LGN---I-----------R 103 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~P---i~~C~cGH~~C~~C~~~~~-----------~~CP~Cr~~--~~~---~-----------~ 103 (307)
...++.|.||++-..-. +++ +|+|+||..|..... -+||.+..+ ... + .
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe 259 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYE 259 (445)
T ss_pred HhhcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHH
Confidence 36789999999987653 455 899999999986541 568865443 211 0 1
Q ss_pred chhHHHHhhccc--cccccccCCcceeecccchHHHHHhC---CCcCc-cCCCC---CCCCccccC
Q 021796 104 CLALEKVAESLE--LPCRYQIWGCQDIFPYYSKLKHEKNC---NYRPY-NCPYA---GAECSVTGD 160 (307)
Q Consensus 104 ~~~le~~~~~l~--~~C~n~~~GC~~~~~~~~~~~He~~C---~~~p~-~Cp~~---g~~C~~~g~ 160 (307)
...+++.+..+. ++||++ -|..-. ..+...-...| .|+-| .|-.. +..|++.+.
T Consensus 260 ~l~lqk~l~~msdv~yCPr~--~Cq~p~-~~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~ 322 (445)
T KOG1814|consen 260 KLMLQKTLELMSDVVYCPRA--CCQLPV-KQDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAE 322 (445)
T ss_pred HHHHHHHHHhhcccccCChh--hccCcc-ccCchhhhhhhccCccHHHHHHHHhhcCCCcccCchH
Confidence 223444555554 899996 365443 33334444444 44432 13221 345888765
No 76
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=86.56 E-value=0.2 Score=51.57 Aligned_cols=45 Identities=27% Similarity=0.584 Sum_probs=32.8
Q ss_pred eeeeccccCCCCCCeee--cCCCceechhchhhh---cCCCCCCcccCCc
Q 021796 57 LLECPVCLNLMYPPIYQ--CPNGHTLCSSCKARV---RTGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~--C~cGH~~C~~C~~~~---~~~CP~Cr~~~~~ 101 (307)
.-.||+|..-..+-... -.|+|.||..|+..| ...||.||..+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 34588887665443211 258999999999887 3899999998753
No 77
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.93 E-value=0.18 Score=52.87 Aligned_cols=48 Identities=25% Similarity=0.640 Sum_probs=38.0
Q ss_pred CCCeeeeccccCCCC-----CCeeecC-CCceechhchhhh-----cCCCCCCcccCCc
Q 021796 54 VHELLECPVCLNLMY-----PPIYQCP-NGHTLCSSCKARV-----RTGCPTCRHELGN 101 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~-----~Pi~~C~-cGH~~C~~C~~~~-----~~~CP~Cr~~~~~ 101 (307)
....-+|+||..++. -|-..|+ |.|-|=..|+-+| .++||.||..++.
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 345668999999874 4656774 8999999999998 3889999987753
No 78
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.78 E-value=0.34 Score=46.36 Aligned_cols=43 Identities=26% Similarity=0.557 Sum_probs=35.4
Q ss_pred eeeccccCCCCCCeeec----CCCceechhchhhhc-----CCCCCCcccCC
Q 021796 58 LECPVCLNLMYPPIYQC----PNGHTLCSSCKARVR-----TGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C----~cGH~~C~~C~~~~~-----~~CP~Cr~~~~ 100 (307)
-.||+|++-..-|.-.| .|||.|=+.|+++|. ..||.|.....
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 37999999988775544 699999999999984 67999987654
No 79
>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=85.57 E-value=0.22 Score=36.01 Aligned_cols=38 Identities=29% Similarity=0.697 Sum_probs=23.3
Q ss_pred eeeccccCCCCCCeeecCCCceechhchhhh--cCCCCCCcccCC
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCKARV--RTGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~--~~~CP~Cr~~~~ 100 (307)
+.||.|...|.. ..|+..|..|.... ...||.|.+++.
T Consensus 2 ~~CP~C~~~L~~-----~~~~~~C~~C~~~~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEW-----QGGHYHCEACQKDYKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEE-----ETTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEE-----eCCEEECccccccceecccCCCcccHHH
Confidence 689999998653 34899999997765 378999998865
No 80
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=85.48 E-value=0.55 Score=26.84 Aligned_cols=23 Identities=39% Similarity=0.696 Sum_probs=18.3
Q ss_pred cccccccCCcceeecccchHHHHHhCC
Q 021796 116 LPCRYQIWGCQDIFPYYSKLKHEKNCN 142 (307)
Q Consensus 116 ~~C~n~~~GC~~~~~~~~~~~He~~C~ 142 (307)
++|++ |..++....+..|++.|.
T Consensus 3 ~~C~~----CgR~F~~~~l~~H~~~C~ 25 (25)
T PF13913_consen 3 VPCPI----CGRKFNPDRLEKHEKICK 25 (25)
T ss_pred CcCCC----CCCEECHHHHHHHHHhcC
Confidence 56776 888888888888888874
No 81
>PF13909 zf-H2C2_5: C2H2-type zinc-finger domain; PDB: 1X5W_A.
Probab=84.76 E-value=0.49 Score=26.38 Aligned_cols=24 Identities=46% Similarity=0.841 Sum_probs=17.8
Q ss_pred ccCCCCCCCCccccChhhHHHHhhccCC
Q 021796 146 YNCPYAGAECSVTGDIPLLVRHLKNDHK 173 (307)
Q Consensus 146 ~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~ 173 (307)
+.|+. |+|......|..|++..|.
T Consensus 1 y~C~~----C~y~t~~~~l~~H~~~~H~ 24 (24)
T PF13909_consen 1 YKCPH----CSYSTSKSNLKRHLKRHHP 24 (24)
T ss_dssp EE-SS----SS-EESHHHHHHHHHHHHS
T ss_pred CCCCC----CCCcCCHHHHHHHHHhhCc
Confidence 46776 8888888899999988774
No 82
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.94 E-value=0.21 Score=50.35 Aligned_cols=44 Identities=34% Similarity=0.748 Sum_probs=34.6
Q ss_pred cCCCCeeeeccccCCC----CCCeeecCCCceechhchhhhc-CCCCCCcc
Q 021796 52 NDVHELLECPVCLNLM----YPPIYQCPNGHTLCSSCKARVR-TGCPTCRH 97 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l----~~Pi~~C~cGH~~C~~C~~~~~-~~CP~Cr~ 97 (307)
..|...+.|+||+..+ ..|+.. .|||+.|..|...+. ..|| |..
T Consensus 6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~lyn~scp-~~~ 54 (861)
T KOG3161|consen 6 LKWVLLLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLLYNASCP-TKR 54 (861)
T ss_pred hhhHHHhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhHhhccCC-CCc
Confidence 4677889999997665 467776 799999999998874 6788 443
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=82.72 E-value=1.4 Score=41.25 Aligned_cols=45 Identities=24% Similarity=0.437 Sum_probs=34.7
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccC
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHEL 99 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~ 99 (307)
.+.-.||+|..-...|...-.-|-+||..|+.... ++||+-..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 45557999999998884432569999999998763 8899766554
No 84
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.37 E-value=1.2 Score=41.28 Aligned_cols=42 Identities=31% Similarity=0.717 Sum_probs=31.8
Q ss_pred eeeeccccCCCC------CCeeecCCCceechhchhhhc----CCCCCCcccC
Q 021796 57 LLECPVCLNLMY------PPIYQCPNGHTLCSSCKARVR----TGCPTCRHEL 99 (307)
Q Consensus 57 ~l~CpiC~~~l~------~Pi~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~ 99 (307)
.+.|-||.+.+. .|-.. .|||.+|..|..++. ..||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 457888887764 34223 499999999999884 6689999984
No 85
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=79.68 E-value=0.66 Score=48.02 Aligned_cols=41 Identities=27% Similarity=0.671 Sum_probs=33.9
Q ss_pred eeeccccCCCCCCeeecCCCceechhchhhhc-----CCCCCCcccCC
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-----TGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-----~~CP~Cr~~~~ 100 (307)
+.|++|.+ ...++.+ .|||.+|..|+.+.. ..||.|+..+.
T Consensus 455 ~~c~ic~~-~~~~~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-cccceee-cccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 89999999 7777777 999999999998763 46999977543
No 86
>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=79.48 E-value=1.1 Score=30.11 Aligned_cols=42 Identities=21% Similarity=0.504 Sum_probs=22.3
Q ss_pred eeeeccccCCCCCCeeecCCCceechhchhhh-------cCCCCCCccc
Q 021796 57 LLECPVCLNLMYPPIYQCPNGHTLCSSCKARV-------RTGCPTCRHE 98 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~-------~~~CP~Cr~~ 98 (307)
.|.||+-...+..|+.--.|.|.-|-+=..=+ .-.||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 47899999999999988789999875421111 1469999764
No 87
>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=75.00 E-value=2.7 Score=28.50 Aligned_cols=28 Identities=29% Similarity=0.718 Sum_probs=22.6
Q ss_pred CccCCCCCCCCccccChhhHHHHhhccCCCCc
Q 021796 145 PYNCPYAGAECSVTGDIPLLVRHLKNDHKVDM 176 (307)
Q Consensus 145 p~~Cp~~g~~C~~~g~~~~l~~Hl~~~H~~~~ 176 (307)
.+.||+ |+...+...|..|+...|....
T Consensus 2 ~f~CP~----C~~~~~~~~L~~H~~~~H~~~~ 29 (54)
T PF05605_consen 2 SFTCPY----CGKGFSESSLVEHCEDEHRSES 29 (54)
T ss_pred CcCCCC----CCCccCHHHHHHHHHhHCcCCC
Confidence 478999 6565677899999999999653
No 88
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.78 E-value=1.4 Score=45.27 Aligned_cols=42 Identities=31% Similarity=0.721 Sum_probs=32.4
Q ss_pred eeccccCCCCCCeeecCCCc-eechhchhhhc---------CCCCCCcccCCc
Q 021796 59 ECPVCLNLMYPPIYQCPNGH-TLCSSCKARVR---------TGCPTCRHELGN 101 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cGH-~~C~~C~~~~~---------~~CP~Cr~~~~~ 101 (307)
.|+||-.-+.-+..- .||| .+|..|..++. +.||.|+..+..
T Consensus 2 ~c~ic~~s~~~~~~~-s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRG-SCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccc-cccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 488888877777666 8999 99999988763 456899886543
No 89
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.72 E-value=2.2 Score=30.88 Aligned_cols=38 Identities=29% Similarity=0.539 Sum_probs=28.2
Q ss_pred eecCCCceechhchh-hhcCCCCCCcccCCcccchhHHH
Q 021796 72 YQCPNGHTLCSSCKA-RVRTGCPTCRHELGNIRCLALEK 109 (307)
Q Consensus 72 ~~C~cGH~~C~~C~~-~~~~~CP~Cr~~~~~~~~~~le~ 109 (307)
..|.-.+.||..|.+ ++...||.|...+...+-+...+
T Consensus 23 ~ICtfEcTFCadCae~~l~g~CPnCGGelv~RP~RPaa~ 61 (84)
T COG3813 23 RICTFECTFCADCAENRLHGLCPNCGGELVARPIRPAAK 61 (84)
T ss_pred eEEEEeeehhHhHHHHhhcCcCCCCCchhhcCcCChHHH
Confidence 456778899999988 45689999999887644444333
No 90
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=74.52 E-value=2.1 Score=29.83 Aligned_cols=36 Identities=31% Similarity=0.820 Sum_probs=21.3
Q ss_pred ccccccccccCCcceeeccc-chHHHHHhCCCcCccCCCCCCCCccccC
Q 021796 113 SLELPCRYQIWGCQDIFPYY-SKLKHEKNCNYRPYNCPYAGAECSVTGD 160 (307)
Q Consensus 113 ~l~~~C~n~~~GC~~~~~~~-~~~~He~~C~~~p~~Cp~~g~~C~~~g~ 160 (307)
...++||| |...+-++ +.-.- .-.+|.||. |+|.|+
T Consensus 25 ~v~F~CPn----CGe~~I~Rc~~CRk----~g~~Y~Cp~----CGF~GP 61 (61)
T COG2888 25 AVKFPCPN----CGEVEIYRCAKCRK----LGNPYRCPK----CGFEGP 61 (61)
T ss_pred eeEeeCCC----CCceeeehhhhHHH----cCCceECCC----cCccCC
Confidence 35788888 77433332 22111 126899986 888874
No 91
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=74.16 E-value=1.7 Score=32.21 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=22.2
Q ss_pred CCceechhchhhhc---CCCCCCcccCCc
Q 021796 76 NGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 76 cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
|.|.|=..|+.++. +.||.++++...
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 88999999999984 889999997653
No 92
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=73.70 E-value=1.6 Score=39.91 Aligned_cols=101 Identities=17% Similarity=0.358 Sum_probs=62.9
Q ss_pred CCeeeeccccCCCC-CCeeecCCCceechhchhhhcCCCCCCcccCCc-------ccchhHHHHhhccccccccccCCcc
Q 021796 55 HELLECPVCLNLMY-PPIYQCPNGHTLCSSCKARVRTGCPTCRHELGN-------IRCLALEKVAESLELPCRYQIWGCQ 126 (307)
Q Consensus 55 ~~~l~CpiC~~~l~-~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~-------~~~~~le~~~~~l~~~C~n~~~GC~ 126 (307)
...+.|++|...+. -|-+. .|+.= ..+.-.|+.|.+.|.. +|.. ...-++.|+. |.
T Consensus 159 ~ka~~C~~C~K~YvSmpALk---MHirT----H~l~c~C~iCGKaFSRPWLLQGHiRTH-----TGEKPF~C~h----C~ 222 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALK---MHIRT----HTLPCECGICGKAFSRPWLLQGHIRTH-----TGEKPFSCPH----CG 222 (279)
T ss_pred cccccCCCCCceeeehHHHh---hHhhc----cCCCcccccccccccchHHhhcccccc-----cCCCCccCCc----cc
Confidence 66788999998764 33221 23220 0112468888887652 2222 2234677775 66
Q ss_pred eee-cccchHHHHHh-CCCcCccCCCCCCCCccccCh-hhHHHHhhccCCCC
Q 021796 127 DIF-PYYSKLKHEKN-CNYRPYNCPYAGAECSVTGDI-PLLVRHLKNDHKVD 175 (307)
Q Consensus 127 ~~~-~~~~~~~He~~-C~~~p~~Cp~~g~~C~~~g~~-~~l~~Hl~~~H~~~ 175 (307)
..| .+.+|+.|..+ =...++.|+. |+...++ ..|..|+...+...
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~----C~KsFsl~SyLnKH~ES~C~~~ 270 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPR----CGKSFALKSYLNKHSESACLKY 270 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcc----hhhHHHHHHHHHHhhhhccccc
Confidence 555 45678899765 5667899986 7777765 57778888777643
No 93
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=72.66 E-value=3.8 Score=38.84 Aligned_cols=113 Identities=19% Similarity=0.386 Sum_probs=73.3
Q ss_pred CCeeeeccccCCCCCCee-------ec--CCCceechhchhhhc---------------CCCCCCcccCCc---ccchhH
Q 021796 55 HELLECPVCLNLMYPPIY-------QC--PNGHTLCSSCKARVR---------------TGCPTCRHELGN---IRCLAL 107 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~-------~C--~cGH~~C~~C~~~~~---------------~~CP~Cr~~~~~---~~~~~l 107 (307)
...+-||-|.+++..-.. |- .-.|..|+.|..+.. .+||.|....+. .++..+
T Consensus 205 eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~~ssL~~H~r 284 (467)
T KOG3608|consen 205 EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSSASSLTTHIR 284 (467)
T ss_pred CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCChHHHHHHHH
Confidence 578889999998864211 10 134778999976541 679999877654 233333
Q ss_pred HHHhhccccccccccCCccee-ecccchHHHHHhCCCcCccCCCCCCCCccccC-hhhHHHHhhccCC
Q 021796 108 EKVAESLELPCRYQIWGCQDI-FPYYSKLKHEKNCNYRPYNCPYAGAECSVTGD-IPLLVRHLKNDHK 173 (307)
Q Consensus 108 e~~~~~l~~~C~n~~~GC~~~-~~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~-~~~l~~Hl~~~H~ 173 (307)
-+-.++-.+.|.- |... +...++..|...=.-..|.|..+ .|.+... +.+|..|++..|.
T Consensus 285 ~rHs~dkpfKCd~----Cd~~c~~esdL~kH~~~HS~~~y~C~h~--~C~~s~r~~~q~~~H~~evhE 346 (467)
T KOG3608|consen 285 YRHSKDKPFKCDE----CDTRCVRESDLAKHVQVHSKTVYQCEHP--DCHYSVRTYTQMRRHFLEVHE 346 (467)
T ss_pred hhhccCCCccccc----hhhhhccHHHHHHHHHhccccceecCCC--CCcHHHHHHHHHHHHHHHhcc
Confidence 3334455666654 4332 34567888877555567788874 4877654 5789999998885
No 94
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.76 E-value=1.1 Score=40.68 Aligned_cols=46 Identities=20% Similarity=0.477 Sum_probs=34.7
Q ss_pred CCeeeeccccCCCCCCe---------eecCCCceechhchhhh-----cCCCCCCcccCC
Q 021796 55 HELLECPVCLNLMYPPI---------YQCPNGHTLCSSCKARV-----RTGCPTCRHELG 100 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi---------~~C~cGH~~C~~C~~~~-----~~~CP~Cr~~~~ 100 (307)
.++-.|.+|.+-+...+ ++=+|+|+|=..|+.-| ...||.|++.+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 34457999998875433 34479999999999877 388999998754
No 95
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.24 E-value=2.8 Score=37.01 Aligned_cols=39 Identities=28% Similarity=0.600 Sum_probs=30.2
Q ss_pred eccccCCCCCCeeecCCCc-eechhchhhhcCCCCCCcccCC
Q 021796 60 CPVCLNLMYPPIYQCPNGH-TLCSSCKARVRTGCPTCRHELG 100 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH-~~C~~C~~~~~~~CP~Cr~~~~ 100 (307)
|-.|.+--..-+.. +|.| .+|..|-.. ...||.|+.+..
T Consensus 161 Cr~C~~~~~~Vlll-PCrHl~lC~~C~~~-~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLL-PCRHLCLCGICDES-LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEee-cccceEeccccccc-CccCCCCcChhh
Confidence 99998876664555 7887 799999865 478999988654
No 96
>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=70.98 E-value=1.7 Score=36.34 Aligned_cols=24 Identities=33% Similarity=0.897 Sum_probs=20.0
Q ss_pred ceechhchhhhcCCCCCCcccCCc
Q 021796 78 HTLCSSCKARVRTGCPTCRHELGN 101 (307)
Q Consensus 78 H~~C~~C~~~~~~~CP~Cr~~~~~ 101 (307)
+-||..|-.+....||.|..+|..
T Consensus 28 ~~fC~kCG~~tI~~Cp~C~~~IrG 51 (158)
T PF10083_consen 28 EKFCSKCGAKTITSCPNCSTPIRG 51 (158)
T ss_pred HHHHHHhhHHHHHHCcCCCCCCCC
Confidence 348999988888999999998753
No 97
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=70.70 E-value=2.4 Score=38.70 Aligned_cols=24 Identities=25% Similarity=0.786 Sum_probs=19.9
Q ss_pred eeeeccccCCCC--CCeeecCCCcee
Q 021796 57 LLECPVCLNLMY--PPIYQCPNGHTL 80 (307)
Q Consensus 57 ~l~CpiC~~~l~--~Pi~~C~cGH~~ 80 (307)
.|.||+|..+|. ..-..|.+||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999995 446789999987
No 98
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=70.12 E-value=19 Score=33.07 Aligned_cols=109 Identities=19% Similarity=0.360 Sum_probs=65.1
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCCcccchhHHHHhhccccccccccCCcceeeccc
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIFPYY 132 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~~~~ 132 (307)
.....+.|+-|+..+..-.-.-.-...-|.. -.+....|++|.+.......+.|-.....+...|.. |...+.+-
T Consensus 126 ~~~~r~~c~eCgk~ysT~snLsrHkQ~H~~~-~s~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~i----CGKaFSRP 200 (279)
T KOG2462|consen 126 AKHPRYKCPECGKSYSTSSNLSRHKQTHRSL-DSKKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGI----CGKAFSRP 200 (279)
T ss_pred ccCCceeccccccccccccccchhhcccccc-cccccccCCCCCceeeehHHHhhHhhccCCCccccc----ccccccch
Confidence 3466788888888775431100000011110 012237899998877766677776667777777776 77666543
Q ss_pred c-hHHHHHh-CCCcCccCCCCCCCCccc-cChhhHHHHhhc
Q 021796 133 S-KLKHEKN-CNYRPYNCPYAGAECSVT-GDIPLLVRHLKN 170 (307)
Q Consensus 133 ~-~~~He~~-C~~~p~~Cp~~g~~C~~~-g~~~~l~~Hl~~ 170 (307)
= |..|.++ =--.|+.||. |+.. ..+.+|..|++.
T Consensus 201 WLLQGHiRTHTGEKPF~C~h----C~kAFADRSNLRAHmQT 237 (279)
T KOG2462|consen 201 WLLQGHIRTHTGEKPFSCPH----CGKAFADRSNLRAHMQT 237 (279)
T ss_pred HHhhcccccccCCCCccCCc----ccchhcchHHHHHHHHh
Confidence 2 2344332 2236999997 5544 468999999985
No 99
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=68.62 E-value=4.1 Score=37.98 Aligned_cols=47 Identities=28% Similarity=0.612 Sum_probs=34.8
Q ss_pred CccCCCCeeeeccccCCC---CCCeeecCCCceechhchhhhc------CCCCCCcc
Q 021796 50 SNNDVHELLECPVCLNLM---YPPIYQCPNGHTLCSSCKARVR------TGCPTCRH 97 (307)
Q Consensus 50 ~~~~~~~~l~CpiC~~~l---~~Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~ 97 (307)
........|.||+=.+.- .+|+.. .|||++-..-..++. .+||+|-.
T Consensus 329 ~~~hfHs~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 329 KGRHFHSLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred CcccccceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 344678999999977765 477777 899999776665552 67888843
No 100
>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=68.53 E-value=2.8 Score=38.56 Aligned_cols=42 Identities=36% Similarity=0.762 Sum_probs=30.4
Q ss_pred eeccccCCC-CCC-e--eecCCCceechhchhhhc----CCCCCCcccCC
Q 021796 59 ECPVCLNLM-YPP-I--YQCPNGHTLCSSCKARVR----TGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l-~~P-i--~~C~cGH~~C~~C~~~~~----~~CP~Cr~~~~ 100 (307)
.||+|..-. ..| + +.-+|||..|.+|...+. ..||.|...+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 488887542 344 2 223799999999998873 78999988653
No 101
>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=68.13 E-value=1.9 Score=33.39 Aligned_cols=42 Identities=29% Similarity=0.602 Sum_probs=15.3
Q ss_pred eeeccccCCC--CCC-eeecCCCceechhchhhh-------cCCCCCCcccCC
Q 021796 58 LECPVCLNLM--YPP-IYQCPNGHTLCSSCKARV-------RTGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l--~~P-i~~C~cGH~~C~~C~~~~-------~~~CP~Cr~~~~ 100 (307)
-.|++|...+ .++ +.+|..||.+ .+|.... ...|+.|...+-
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~l 66 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRAL 66 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EEE
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEEe
Confidence 4799999976 344 5789999997 4454333 267999987643
No 102
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=68.10 E-value=4.6 Score=27.70 Aligned_cols=40 Identities=30% Similarity=0.691 Sum_probs=28.6
Q ss_pred eeeccccCCC--CCCeeecC-CCceechhchhhhcCCCCC--Cccc
Q 021796 58 LECPVCLNLM--YPPIYQCP-NGHTLCSSCKARVRTGCPT--CRHE 98 (307)
Q Consensus 58 l~CpiC~~~l--~~Pi~~C~-cGH~~C~~C~~~~~~~CP~--Cr~~ 98 (307)
-.|++|.+.+ .+.+.+|+ ||-..=..|..+. ..|-. |..+
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~-g~C~~~~c~~~ 50 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA-GGCINYSCGTG 50 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhC-CceEeccCCCC
Confidence 4799999999 67788885 8876666777664 55654 5443
No 103
>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=67.86 E-value=3.7 Score=31.46 Aligned_cols=32 Identities=28% Similarity=0.481 Sum_probs=24.9
Q ss_pred CCeeeeccccCCCCCC-eeecCCCceechhchh
Q 021796 55 HELLECPVCLNLMYPP-IYQCPNGHTLCSSCKA 86 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~P-i~~C~cGH~~C~~C~~ 86 (307)
.+.-.|++|...+..+ +...+|||++-..|..
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 4455699999999755 4556899999988864
No 104
>PRK04023 DNA polymerase II large subunit; Validated
Probab=67.74 E-value=4.3 Score=43.48 Aligned_cols=45 Identities=27% Similarity=0.573 Sum_probs=34.5
Q ss_pred CCeeeeccccCCCCCCeeecC-CCc-----eechhchhhhc-CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPPIYQCP-NGH-----TLCSSCKARVR-TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~-cGH-----~~C~~C~~~~~-~~CP~Cr~~~~~ 101 (307)
.....||.|.... +.+.|+ ||. .+|..|..... ..||.|......
T Consensus 624 Vg~RfCpsCG~~t--~~frCP~CG~~Te~i~fCP~CG~~~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 624 IGRRKCPSCGKET--FYRRCPFCGTHTEPVYRCPRCGIEVEEDECEKCGREPTP 675 (1121)
T ss_pred ccCccCCCCCCcC--CcccCCCCCCCCCcceeCccccCcCCCCcCCCCCCCCCc
Confidence 4556899999986 446887 985 59999976653 679999987654
No 105
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=66.99 E-value=3.7 Score=28.26 Aligned_cols=31 Identities=26% Similarity=0.541 Sum_probs=22.0
Q ss_pred eec--cccCCC------CCCeeec-CCCceechhchhhhc
Q 021796 59 ECP--VCLNLM------YPPIYQC-PNGHTLCSSCKARVR 89 (307)
Q Consensus 59 ~Cp--iC~~~l------~~Pi~~C-~cGH~~C~~C~~~~~ 89 (307)
-|| -|..++ ..+..+| .||+.||..|...++
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 466 565543 2346788 799999999987764
No 106
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=66.91 E-value=3.1 Score=38.79 Aligned_cols=77 Identities=19% Similarity=0.190 Sum_probs=54.0
Q ss_pred CCCCCCcccCCc---ccc---hhHHHHhhccccccccccCCcceeecccchHHHHHhCCCcCccCCCCCCCCccccChhh
Q 021796 90 TGCPTCRHELGN---IRC---LALEKVAESLELPCRYQIWGCQDIFPYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPL 163 (307)
Q Consensus 90 ~~CP~Cr~~~~~---~~~---~~le~~~~~l~~~C~n~~~GC~~~~~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~ 163 (307)
.-||.|...+.. ..+ .+-..-..++...||. |...++...-..=|+.+.-..++||+...+|.+.+++.+
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 467777776654 111 2222333367788886 888888554445588999999999999888999999876
Q ss_pred HHHHhhc
Q 021796 164 LVRHLKN 170 (307)
Q Consensus 164 l~~Hl~~ 170 (307)
-..|.+.
T Consensus 125 ~~~HE~~ 131 (299)
T KOG3002|consen 125 KSKHEKV 131 (299)
T ss_pred ccccccc
Confidence 6666554
No 107
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=65.16 E-value=7 Score=31.00 Aligned_cols=38 Identities=26% Similarity=0.659 Sum_probs=27.5
Q ss_pred eeccccCCCCCC------------eeecC-CCceechhchh---hhcCCCCCCc
Q 021796 59 ECPVCLNLMYPP------------IYQCP-NGHTLCSSCKA---RVRTGCPTCR 96 (307)
Q Consensus 59 ~CpiC~~~l~~P------------i~~C~-cGH~~C~~C~~---~~~~~CP~Cr 96 (307)
.|-.|...+..+ .++|+ |.+.||.+|-. +....||.|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 488888877543 36674 89999999943 3347899885
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=63.81 E-value=1.6 Score=44.82 Aligned_cols=46 Identities=24% Similarity=0.684 Sum_probs=37.7
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhc------CCCCCCcccC
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR------TGCPTCRHEL 99 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~~~ 99 (307)
.....++||||+.....|+.. .|-|.||..|+.... ..||+|+..+
T Consensus 17 ~~~k~lEc~ic~~~~~~p~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 17 AMQKILECPICLEHVKEPSLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred HHhhhccCCceeEEeeccchh-hhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 346678999999999999777 899999999987652 5799998654
No 109
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=62.72 E-value=5.5 Score=27.79 Aligned_cols=36 Identities=25% Similarity=0.740 Sum_probs=21.3
Q ss_pred ccccccccccCCccee-ecccchHHHHHhCCCcCccCCCCCCCCccccC
Q 021796 113 SLELPCRYQIWGCQDI-FPYYSKLKHEKNCNYRPYNCPYAGAECSVTGD 160 (307)
Q Consensus 113 ~l~~~C~n~~~GC~~~-~~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~ 160 (307)
...++||| |... +.+...=.- ...+|.||. |+|+|+
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 35677887 6655 333221111 137899996 889874
No 110
>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=62.09 E-value=8 Score=26.67 Aligned_cols=42 Identities=31% Similarity=0.738 Sum_probs=29.8
Q ss_pred eccccCCCCCC---eeecCCCceechhchhhh-cCCCCCCcccCCc
Q 021796 60 CPVCLNLMYPP---IYQCPNGHTLCSSCKARV-RTGCPTCRHELGN 101 (307)
Q Consensus 60 CpiC~~~l~~P---i~~C~cGH~~C~~C~~~~-~~~CP~Cr~~~~~ 101 (307)
|--|..-|.+- -+.|+-.-+||..|.... .+.||.|...+..
T Consensus 8 CE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~~CPNCgGelv~ 53 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYICSFECTFCADCAETMLNGVCPNCGGELVR 53 (57)
T ss_pred ccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcCcCcCCCCcccc
Confidence 44555554321 355666679999999887 6899999987754
No 111
>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=61.61 E-value=6.9 Score=33.97 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=32.6
Q ss_pred CcccCCcccchhHHHHhhccccccccccCCcceeecccchHHHHHhCC
Q 021796 95 CRHELGNIRCLALEKVAESLELPCRYQIWGCQDIFPYYSKLKHEKNCN 142 (307)
Q Consensus 95 Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~~~~~~~~He~~C~ 142 (307)
|...+....-..+|+.+.--+..||....||.|...+.++..|....-
T Consensus 24 C~~~~~~~~~~~HE~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~~H 71 (198)
T PF03145_consen 24 CTETFPYSEKREHEEECPFRPCSCPFPGSGCDWQGSYKELLDHLRDKH 71 (198)
T ss_dssp ---EE-GGGHHHHHHT-TTSEEE-SSSSTT---EEECCCHHHHHHHHT
T ss_pred CcccccccChhhHhccCCCcCCcCCCCCCCccccCCHHHHHHHHHHHC
Confidence 666666666678899999999999997789999999999999977643
No 112
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.02 E-value=6.3 Score=33.73 Aligned_cols=56 Identities=21% Similarity=0.430 Sum_probs=34.9
Q ss_pred CCCCCccCCCCeeeeccccCCCC--------------------CCeeec---CCCceechhchhhhc-------------
Q 021796 46 LGTTSNNDVHELLECPVCLNLMY--------------------PPIYQC---PNGHTLCSSCKARVR------------- 89 (307)
Q Consensus 46 ~~~~~~~~~~~~l~CpiC~~~l~--------------------~Pi~~C---~cGH~~C~~C~~~~~------------- 89 (307)
+.....+++.+.++|-+|...+. .|=++| +||..|=+-|+..|.
T Consensus 137 Pe~~~led~kd~lE~df~a~a~Lekdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdii 216 (234)
T KOG3268|consen 137 PEGLQLEDDKDQLECDFCAAAFLEKDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDII 216 (234)
T ss_pred ccccccccccceeeeCccHHHhcCcchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeee
Confidence 33344555566666666544332 233445 478777777888773
Q ss_pred -CCCCCCcccCCc
Q 021796 90 -TGCPTCRHELGN 101 (307)
Q Consensus 90 -~~CP~Cr~~~~~ 101 (307)
..||+|..|+.-
T Consensus 217 FGeCPYCS~Pial 229 (234)
T KOG3268|consen 217 FGECPYCSDPIAL 229 (234)
T ss_pred eccCCCCCCccee
Confidence 679999988753
No 113
>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=60.69 E-value=2.9 Score=38.65 Aligned_cols=42 Identities=29% Similarity=0.547 Sum_probs=21.2
Q ss_pred eeeeccccCCCCCCeeecCC--C--ceechhchhhhc---CCCCCCccc
Q 021796 57 LLECPVCLNLMYPPIYQCPN--G--HTLCSSCKARVR---TGCPTCRHE 98 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~c--G--H~~C~~C~~~~~---~~CP~Cr~~ 98 (307)
.-.||||+....--++.=.- | +.+|+.|-..|. ..||.|...
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 35899999986655444222 3 689999998884 789999764
No 114
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=60.27 E-value=8.2 Score=42.47 Aligned_cols=43 Identities=37% Similarity=0.866 Sum_probs=32.4
Q ss_pred eeeeccccCCCCCCeeecC-CCce-----echhchhhhc------CCCCCCcccCCc
Q 021796 57 LLECPVCLNLMYPPIYQCP-NGHT-----LCSSCKARVR------TGCPTCRHELGN 101 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~-cGH~-----~C~~C~~~~~------~~CP~Cr~~~~~ 101 (307)
.+.||-|...... ..|+ ||.. .|..|-.+.. ..||.|..++..
T Consensus 667 ~rkCPkCG~~t~~--~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 667 RRRCPSCGTETYE--NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEECCCCCCcccc--ccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 4899999997644 3676 9966 4999977652 379999988654
No 115
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=59.09 E-value=12 Score=36.21 Aligned_cols=35 Identities=23% Similarity=0.425 Sum_probs=30.6
Q ss_pred cccccccccCCcceeecccchHHHH-HhCCCcCccCCCC
Q 021796 114 LELPCRYQIWGCQDIFPYYSKLKHE-KNCNYRPYNCPYA 151 (307)
Q Consensus 114 l~~~C~n~~~GC~~~~~~~~~~~He-~~C~~~p~~Cp~~ 151 (307)
-.+.|+|. |...++..++.+|. .+|+++...|...
T Consensus 113 ~~~~C~~~---C~~~~~~~d~~~hl~~~C~~~~~~c~~~ 148 (391)
T KOG0297|consen 113 DPLKCPHR---CGVQVPRDDLEDHLEAECPRRSLKCSLC 148 (391)
T ss_pred CcccCccc---cccccchHHHHHHHhcccccccccchhh
Confidence 47899984 99999999999995 7899999999874
No 116
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.02 E-value=6.2 Score=35.57 Aligned_cols=33 Identities=15% Similarity=0.259 Sum_probs=27.3
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhh
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARV 88 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~ 88 (307)
..--.|.+|+++..+||.+ +-||+||..||.+.
T Consensus 41 K~FdcCsLtLqPc~dPvit-~~GylfdrEaILe~ 73 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVIT-PDGYLFDREAILEY 73 (303)
T ss_pred CCcceeeeecccccCCccC-CCCeeeeHHHHHHH
Confidence 3344589999999999765 99999999998764
No 117
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=58.65 E-value=4.7 Score=32.49 Aligned_cols=21 Identities=33% Similarity=0.884 Sum_probs=17.7
Q ss_pred echhchhhhcCCCCCCcccCC
Q 021796 80 LCSSCKARVRTGCPTCRHELG 100 (307)
Q Consensus 80 ~C~~C~~~~~~~CP~Cr~~~~ 100 (307)
||+.|-......||.|..++.
T Consensus 30 fcskcgeati~qcp~csasir 50 (160)
T COG4306 30 FCSKCGEATITQCPICSASIR 50 (160)
T ss_pred HHhhhchHHHhcCCccCCccc
Confidence 899998777789999988764
No 118
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=58.23 E-value=7.3 Score=36.52 Aligned_cols=38 Identities=26% Similarity=0.780 Sum_probs=23.2
Q ss_pred eccccCC-CCCCeeecC-CCceechhchhhh---cCCCCCCcc
Q 021796 60 CPVCLNL-MYPPIYQCP-NGHTLCSSCKARV---RTGCPTCRH 97 (307)
Q Consensus 60 CpiC~~~-l~~Pi~~C~-cGH~~C~~C~~~~---~~~CP~Cr~ 97 (307)
|-.|+.- +..+.++|. |.+.||..|-.-+ ...||.|..
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 7777433 345567774 7777877773322 366777753
No 119
>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=57.34 E-value=6.3 Score=24.19 Aligned_cols=25 Identities=16% Similarity=0.250 Sum_probs=16.4
Q ss_pred cccccccccCCcceeecccchHHHHHhCC
Q 021796 114 LELPCRYQIWGCQDIFPYYSKLKHEKNCN 142 (307)
Q Consensus 114 l~~~C~n~~~GC~~~~~~~~~~~He~~C~ 142 (307)
..+.|+| |...+.-..+..|++.|.
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 3466776 777777777777777664
No 120
>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=56.94 E-value=5.7 Score=37.16 Aligned_cols=42 Identities=21% Similarity=0.493 Sum_probs=29.6
Q ss_pred CeeeeccccCCCCCCeeec---CCC--ceechhchhhhc---CCCCCCcc
Q 021796 56 ELLECPVCLNLMYPPIYQC---PNG--HTLCSSCKARVR---TGCPTCRH 97 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~C---~cG--H~~C~~C~~~~~---~~CP~Cr~ 97 (307)
..-.||||+....-.+..= .-| +..|+.|-.+|. ..||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3458999999865443321 234 689999988884 77999965
No 121
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=55.86 E-value=8 Score=36.41 Aligned_cols=76 Identities=21% Similarity=0.462 Sum_probs=46.5
Q ss_pred cCCCCeeeeccccCCCCCC-eeecCCCceechhchhhhc--------------CCCCCCcccCCcc---------cchhH
Q 021796 52 NDVHELLECPVCLNLMYPP-IYQCPNGHTLCSSCKARVR--------------TGCPTCRHELGNI---------RCLAL 107 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~P-i~~C~cGH~~C~~C~~~~~--------------~~CP~Cr~~~~~~---------~~~~l 107 (307)
..+.+++-|..|.++-..- +.. .-..+||.+|++... .-||.|...++.. .+.+-
T Consensus 19 ~pl~~L~FCRyC~klrc~~Cv~h-EvdshfCp~CLEn~ps~EArlKKn~CAnCfDCP~C~htLSaRa~~~stq~p~dpak 97 (449)
T KOG3896|consen 19 RPLPDLVFCRYCFKLRCDDCVLH-EVDSHFCPRCLENSPSPEARLKKNKCANCFDCPKCAHTLSARAENDSTQLPDDPAK 97 (449)
T ss_pred ccccceeeeeccccccccccccc-ccccccchhhccCCCchHHHhhhccccccccCcchhhhhhhhcccccccCCCChhh
Confidence 4467788898888865432 111 234579999987652 5588898876541 12222
Q ss_pred HHHhhccccccccccCCcceeeccc
Q 021796 108 EKVAESLELPCRYQIWGCQDIFPYY 132 (307)
Q Consensus 108 e~~~~~l~~~C~n~~~GC~~~~~~~ 132 (307)
..+-..+.+.|.+ |.|+-.--
T Consensus 98 tt~kk~yYL~C~~----CRWtsRdv 118 (449)
T KOG3896|consen 98 TTMKKNYYLVCQY----CRWTSRDV 118 (449)
T ss_pred hhhhheeEEeeee----eecccccc
Confidence 3334456778887 77765433
No 122
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=55.37 E-value=9 Score=24.32 Aligned_cols=23 Identities=22% Similarity=0.699 Sum_probs=15.9
Q ss_pred eccccCCCCC-CeeecC-CCceechh
Q 021796 60 CPVCLNLMYP-PIYQCP-NGHTLCSS 83 (307)
Q Consensus 60 CpiC~~~l~~-Pi~~C~-cGH~~C~~ 83 (307)
|.+|.....- | +.|. |+..||..
T Consensus 1 C~~C~~~~~l~~-f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLTG-FKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCcccccC-eECCccCCccccc
Confidence 5567765544 6 6788 99999863
No 123
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=55.24 E-value=13 Score=32.74 Aligned_cols=113 Identities=22% Similarity=0.344 Sum_probs=60.7
Q ss_pred CCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCCcccchhHHHHhhccccccccccCCcceeecc-
Q 021796 53 DVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIFPY- 131 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~~~- 131 (307)
.-.+.+.|.+|..-|.-.-+ -+.|+-|.+=+.+ ..|..|.+.+... ..+.+-...-.--=||+-.-|...++.
T Consensus 113 sd~d~ftCrvCgK~F~lQRm--lnrh~kch~~vkr--~lct~cgkgfndt--fdlkrh~rthtgvrpykc~~c~kaftqr 186 (267)
T KOG3576|consen 113 SDQDSFTCRVCGKKFGLQRM--LNRHLKCHSDVKR--HLCTFCGKGFNDT--FDLKRHTRTHTGVRPYKCSLCEKAFTQR 186 (267)
T ss_pred CCCCeeeeehhhhhhhHHHH--HHHHhhhccHHHH--HHHhhccCcccch--hhhhhhhccccCccccchhhhhHHHHhh
Confidence 33788999999998864311 2567776554444 3577887765431 111111111000012222225444432
Q ss_pred cchHHHHHh-------C-----CCcCccCCCCCCCCccccCh-hhHHHHhhccCCCC
Q 021796 132 YSKLKHEKN-------C-----NYRPYNCPYAGAECSVTGDI-PLLVRHLKNDHKVD 175 (307)
Q Consensus 132 ~~~~~He~~-------C-----~~~p~~Cp~~g~~C~~~g~~-~~l~~Hl~~~H~~~ 175 (307)
..++.|.+. - .-..+-|. +|++++.+ +..+.|++..|...
T Consensus 187 csleshl~kvhgv~~~yaykerr~kl~vce----dcg~t~~~~e~~~~h~~~~hp~S 239 (267)
T KOG3576|consen 187 CSLESHLKKVHGVQHQYAYKERRAKLYVCE----DCGYTSERPEVYYLHLKLHHPFS 239 (267)
T ss_pred ccHHHHHHHHcCchHHHHHHHhhhheeeec----ccCCCCCChhHHHHHHHhcCCCC
Confidence 345555421 1 11346675 48888775 66789999999864
No 124
>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=55.21 E-value=5.4 Score=26.35 Aligned_cols=38 Identities=21% Similarity=0.423 Sum_probs=27.9
Q ss_pred CCCCCcccCCcccchhHHHHhhccccccccccCCcceeec
Q 021796 91 GCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIFP 130 (307)
Q Consensus 91 ~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~~ 130 (307)
.||.|...........+.+.+..+...|.|.. |..++.
T Consensus 1 ~CP~Cg~~a~ir~S~~~s~~~~~~Y~qC~N~~--Cg~tfv 38 (47)
T PF04606_consen 1 RCPHCGSKARIRTSRQLSPLTRELYCQCTNPE--CGHTFV 38 (47)
T ss_pred CcCCCCCeeEEEEchhhCcceEEEEEEECCCc--CCCEEE
Confidence 49999887765556677778888999999965 554443
No 125
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.97 E-value=6.2 Score=41.44 Aligned_cols=47 Identities=21% Similarity=0.554 Sum_probs=38.0
Q ss_pred cCCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCccc
Q 021796 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHE 98 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~ 98 (307)
..+-..-.|..|.-.|.-|+..=.|||.+=..|.+.....||.|+..
T Consensus 835 a~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~~~~~CP~C~~e 881 (933)
T KOG2114|consen 835 AQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLEDKEDKCPKCLPE 881 (933)
T ss_pred cceeeeeeecccCCccccceeeeecccHHHHHhhccCcccCCccchh
Confidence 34455678999999999885443799999999998666899999773
No 126
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.15 E-value=21 Score=32.95 Aligned_cols=34 Identities=26% Similarity=0.672 Sum_probs=27.4
Q ss_pred CCeeeeccccCCCCCC-eeecC--CCceechhchhhh
Q 021796 55 HELLECPVCLNLMYPP-IYQCP--NGHTLCSSCKARV 88 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~P-i~~C~--cGH~~C~~C~~~~ 88 (307)
...|.|-+|.+-|.+- ..||+ ..|-||..|-.+.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSRes 302 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRES 302 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHH
Confidence 3459999999999877 56886 6899999996553
No 127
>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=53.78 E-value=9.2 Score=27.03 Aligned_cols=31 Identities=26% Similarity=0.609 Sum_probs=15.1
Q ss_pred eeeeccccCCCCC--CeeecC-CCceechhchhh
Q 021796 57 LLECPVCLNLMYP--PIYQCP-NGHTLCSSCKAR 87 (307)
Q Consensus 57 ~l~CpiC~~~l~~--Pi~~C~-cGH~~C~~C~~~ 87 (307)
.-.|.+|...|.- --..|. ||++||..|...
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 3479999988732 234564 999999999754
No 128
>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=52.48 E-value=7.2 Score=38.91 Aligned_cols=36 Identities=22% Similarity=0.408 Sum_probs=20.7
Q ss_pred CCCCCCcccCCcccch--------hHHHHhhccccccccccCCcceee
Q 021796 90 TGCPTCRHELGNIRCL--------ALEKVAESLELPCRYQIWGCQDIF 129 (307)
Q Consensus 90 ~~CP~Cr~~~~~~~~~--------~le~~~~~l~~~C~n~~~GC~~~~ 129 (307)
..||.|..++...... .-...-..+.+.|.| |.|.-
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 5699999887642111 011112346678887 88843
No 129
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.78 E-value=19 Score=32.61 Aligned_cols=48 Identities=17% Similarity=0.279 Sum_probs=37.3
Q ss_pred CCCeeeeccccCCCCCCeeec---CCCceechhchhhhc-CCCCCCcccCCc
Q 021796 54 VHELLECPVCLNLMYPPIYQC---PNGHTLCSSCKARVR-TGCPTCRHELGN 101 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~Pi~~C---~cGH~~C~~C~~~~~-~~CP~Cr~~~~~ 101 (307)
-...|.|||=...|..-...| .|||+|-..-+.++. ..|+.|...+..
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeikas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKASVCHVCGAAYQE 159 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhhhccccccCCcccc
Confidence 367899999999887653333 599999877776664 789999998764
No 130
>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=51.77 E-value=8 Score=26.46 Aligned_cols=32 Identities=28% Similarity=0.664 Sum_probs=19.2
Q ss_pred eeecc--ccCCCCCC------eeecC-CCceechhchhhhc
Q 021796 58 LECPV--CLNLMYPP------IYQCP-NGHTLCSSCKARVR 89 (307)
Q Consensus 58 l~Cpi--C~~~l~~P------i~~C~-cGH~~C~~C~~~~~ 89 (307)
..||- |..++... .++|+ |++.||..|...++
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H 59 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWH 59 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESC
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccC
Confidence 47887 88876422 26788 99999999987653
No 131
>PF15616 TerY-C: TerY-C metal binding domain
Probab=51.72 E-value=7.1 Score=31.87 Aligned_cols=45 Identities=24% Similarity=0.495 Sum_probs=32.2
Q ss_pred cCCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCC
Q 021796 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELG 100 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~ 100 (307)
+++...--||-|....-- ..|.||+++|-.=-. ...||.|.+...
T Consensus 72 seL~g~PgCP~CGn~~~f--a~C~CGkl~Ci~g~~--~~~CPwCg~~g~ 116 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYAF--AVCGCGKLFCIDGEG--EVTCPWCGNEGS 116 (131)
T ss_pred HHhcCCCCCCCCcChhcE--EEecCCCEEEeCCCC--CEECCCCCCeee
Confidence 445555789999997654 578999999743211 368999988654
No 132
>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=51.25 E-value=9.8 Score=20.19 Aligned_cols=22 Identities=27% Similarity=0.659 Sum_probs=14.2
Q ss_pred cCCCCCCCCcccc-ChhhHHHHhhccC
Q 021796 147 NCPYAGAECSVTG-DIPLLVRHLKNDH 172 (307)
Q Consensus 147 ~Cp~~g~~C~~~g-~~~~l~~Hl~~~H 172 (307)
.|+. |+... ...+|..|++..|
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 5665 66554 4578999988766
No 133
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=50.30 E-value=9.1 Score=35.89 Aligned_cols=42 Identities=24% Similarity=0.617 Sum_probs=29.7
Q ss_pred CeeeeccccCCCCCCeee--cCCC--ceechhchhhhc---CCCCCCcc
Q 021796 56 ELLECPVCLNLMYPPIYQ--CPNG--HTLCSSCKARVR---TGCPTCRH 97 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~--C~cG--H~~C~~C~~~~~---~~CP~Cr~ 97 (307)
..-.||+|+....-.+.. -.-| +..|+.|-.+|. ..||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 467899999986544321 0234 688999988884 77999965
No 134
>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=50.07 E-value=9.4 Score=29.07 Aligned_cols=36 Identities=19% Similarity=0.637 Sum_probs=28.4
Q ss_pred eeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCCc
Q 021796 59 ECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELGN 101 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~ 101 (307)
.|-+|..-+.. -||.+|..|.-+. ..|..|...+..
T Consensus 46 ~C~~CK~~v~q------~g~~YCq~CAYkk-GiCamCGKki~d 81 (90)
T PF10235_consen 46 KCKICKTKVHQ------PGAKYCQTCAYKK-GICAMCGKKILD 81 (90)
T ss_pred ccccccccccc------CCCccChhhhccc-CcccccCCeecc
Confidence 68888875442 4899999998775 799999998754
No 135
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=50.04 E-value=7.6 Score=31.48 Aligned_cols=20 Identities=20% Similarity=0.607 Sum_probs=14.9
Q ss_pred cccCCCCCCeeecCCCceech
Q 021796 62 VCLNLMYPPIYQCPNGHTLCS 82 (307)
Q Consensus 62 iC~~~l~~Pi~~C~cGH~~C~ 82 (307)
||...-+. +..|+|||.||.
T Consensus 62 i~qs~~~r-v~rcecghsf~d 81 (165)
T COG4647 62 ICQSAQKR-VIRCECGHSFGD 81 (165)
T ss_pred EEeccccc-EEEEeccccccC
Confidence 45555555 778999999975
No 136
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.53 E-value=5.1 Score=39.58 Aligned_cols=46 Identities=22% Similarity=0.477 Sum_probs=33.7
Q ss_pred CCeeeeccccCCCCC-----C-----------eeecCCCceechhchhhhcC----CCCCCcccCC
Q 021796 55 HELLECPVCLNLMYP-----P-----------IYQCPNGHTLCSSCKARVRT----GCPTCRHELG 100 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~-----P-----------i~~C~cGH~~C~~C~~~~~~----~CP~Cr~~~~ 100 (307)
...-.|+||...+.- | ....+|.|+|=..|+.+|.. .||.||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 456689999876521 1 01127999999999999853 7999999864
No 137
>PHA00616 hypothetical protein
Probab=49.28 E-value=26 Score=22.98 Aligned_cols=27 Identities=26% Similarity=0.401 Sum_probs=20.8
Q ss_pred CccCCCCCCCCcccc-ChhhHHHHhhccCCCC
Q 021796 145 PYNCPYAGAECSVTG-DIPLLVRHLKNDHKVD 175 (307)
Q Consensus 145 p~~Cp~~g~~C~~~g-~~~~l~~Hl~~~H~~~ 175 (307)
|+.||. |+... ..++|..|++..|..+
T Consensus 1 pYqC~~----CG~~F~~~s~l~~H~r~~hg~~ 28 (44)
T PHA00616 1 MYQCLR----CGGIFRKKKEVIEHLLSVHKQN 28 (44)
T ss_pred CCccch----hhHHHhhHHHHHHHHHHhcCCC
Confidence 578886 65554 4589999999999864
No 138
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=48.37 E-value=16 Score=34.15 Aligned_cols=65 Identities=23% Similarity=0.582 Sum_probs=40.3
Q ss_pred CCCeeeeccccCCCCCC-eeecCCCceechhchhhhcCCCCCCcccCCcccchhHHHHhhccccccccccCCcceee
Q 021796 54 VHELLECPVCLNLMYPP-IYQCPNGHTLCSSCKARVRTGCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIF 129 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~P-i~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~ 129 (307)
-.....|-.|.++-.+- +++|.-.|+.|..|..- +|+..++...- +..---.+.+||+ .||.-++
T Consensus 218 N~~ni~C~~Ctdv~~~vlvf~Cns~HvtC~dCFr~------yc~~Rl~~rqf--~~~p~~gyslpc~---agc~~s~ 283 (446)
T KOG0006|consen 218 NSRNITCITCTDVRSPVLVFQCNSRHVTCLDCFRL------YCVTRLNDRQF--VHDPQLGYSLPCV---AGCPNSL 283 (446)
T ss_pred ccccceeEEecCCccceEEEecCCceeehHHhhhh------Hhhhccccccc--ccCcccccccccc---CCCchHH
Confidence 35667899999876543 56777779999999853 46555543110 0011124667887 4887643
No 139
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=47.57 E-value=3.1 Score=32.35 Aligned_cols=43 Identities=23% Similarity=0.486 Sum_probs=30.8
Q ss_pred eeeeccccCCCCCCeeec----------------CCCceechhchhhhc---CCCCCCcccC
Q 021796 57 LLECPVCLNLMYPPIYQC----------------PNGHTLCSSCKARVR---TGCPTCRHEL 99 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C----------------~cGH~~C~~C~~~~~---~~CP~Cr~~~ 99 (307)
.-.|.||..-+-++-+.| .|.|.|=..|+.++. +.||+|.++-
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 345888877665443333 388988888999884 8899998753
No 140
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.15 E-value=8.8 Score=37.12 Aligned_cols=33 Identities=24% Similarity=0.601 Sum_probs=24.4
Q ss_pred CeeeeccccCCCCC----CeeecCCCceechhchhhh
Q 021796 56 ELLECPVCLNLMYP----PIYQCPNGHTLCSSCKARV 88 (307)
Q Consensus 56 ~~l~CpiC~~~l~~----Pi~~C~cGH~~C~~C~~~~ 88 (307)
.-..||.|.-.+.- -.++|.|||-||..|...+
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~ 341 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDW 341 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcch
Confidence 35679999887632 2467889999999998655
No 141
>PRK00420 hypothetical protein; Validated
Probab=45.88 E-value=12 Score=29.75 Aligned_cols=25 Identities=24% Similarity=0.616 Sum_probs=17.4
Q ss_pred eeeccccCCCCCCeeecCCCceechhchh
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCKA 86 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~ 86 (307)
-.||+|..++..- ..|..+|..|-.
T Consensus 24 ~~CP~Cg~pLf~l----k~g~~~Cp~Cg~ 48 (112)
T PRK00420 24 KHCPVCGLPLFEL----KDGEVVCPVHGK 48 (112)
T ss_pred CCCCCCCCcceec----CCCceECCCCCC
Confidence 4799999877642 457887666643
No 142
>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=44.31 E-value=21 Score=22.97 Aligned_cols=33 Identities=21% Similarity=0.732 Sum_probs=17.0
Q ss_pred ecc--ccCCCCCCeeecC-CCceechhchhhhcCCCC
Q 021796 60 CPV--CLNLMYPPIYQCP-NGHTLCSSCKARVRTGCP 93 (307)
Q Consensus 60 Cpi--C~~~l~~Pi~~C~-cGH~~C~~C~~~~~~~CP 93 (307)
|.+ |.....-| +.|. |+..||..=+..-.-.|+
T Consensus 1 C~~~~C~~~~~~~-~~C~~C~~~FC~~Hr~~e~H~C~ 36 (43)
T PF01428_consen 1 CSFPGCKKKDFLP-FKCKHCGKSFCLKHRLPEDHNCS 36 (43)
T ss_dssp -SSTTT--BCTSH-EE-TTTS-EE-TTTHSTTTCT-S
T ss_pred CccCcCcCccCCC-eECCCCCcccCccccCccccCCc
Confidence 445 88877777 5687 999999876554333443
No 143
>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=43.87 E-value=12 Score=21.70 Aligned_cols=24 Identities=29% Similarity=0.505 Sum_probs=14.4
Q ss_pred cccccccCCcceeecccchHHHHHhCC
Q 021796 116 LPCRYQIWGCQDIFPYYSKLKHEKNCN 142 (307)
Q Consensus 116 ~~C~n~~~GC~~~~~~~~~~~He~~C~ 142 (307)
+.|||. -.-.++..++..|...|+
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 456663 345677777777777764
No 144
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=42.97 E-value=17 Score=24.21 Aligned_cols=38 Identities=21% Similarity=0.538 Sum_probs=23.8
Q ss_pred eeccccC--CCCCCee-ecCCC---ceechhchhhhc-----CCCCCCc
Q 021796 59 ECPVCLN--LMYPPIY-QCPNG---HTLCSSCKARVR-----TGCPTCR 96 (307)
Q Consensus 59 ~CpiC~~--~l~~Pi~-~C~cG---H~~C~~C~~~~~-----~~CP~Cr 96 (307)
.|.||++ .-..|+. -|.|. |.+=..|+.+|. ..||.|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3788886 2234432 24442 677788998884 4788884
No 145
>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=41.74 E-value=14 Score=29.11 Aligned_cols=12 Identities=33% Similarity=1.082 Sum_probs=10.7
Q ss_pred eeecCCCceech
Q 021796 71 IYQCPNGHTLCS 82 (307)
Q Consensus 71 i~~C~cGH~~C~ 82 (307)
+.+|.|||.||.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 788999999986
No 146
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.60 E-value=11 Score=36.15 Aligned_cols=38 Identities=32% Similarity=0.742 Sum_probs=27.4
Q ss_pred eeeccccCCCC-----CCeeecCCCceechhchhhhc------CCCCCCcc
Q 021796 58 LECPVCLNLMY-----PPIYQCPNGHTLCSSCKARVR------TGCPTCRH 97 (307)
Q Consensus 58 l~CpiC~~~l~-----~Pi~~C~cGH~~C~~C~~~~~------~~CP~Cr~ 97 (307)
..|.||-+..- .||. .|||+|=..|+.+|- ..||.|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~--~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIG--TCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCcccccccccc--chhhHHHHHHHHHHHccCCccCCCCceee
Confidence 47999954431 2332 389999999999983 47999983
No 147
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.11 E-value=12 Score=36.26 Aligned_cols=33 Identities=21% Similarity=0.411 Sum_probs=22.9
Q ss_pred Ceeeecccc-CCCCCCe--eecCCCceechhchhhh
Q 021796 56 ELLECPVCL-NLMYPPI--YQCPNGHTLCSSCKARV 88 (307)
Q Consensus 56 ~~l~CpiC~-~~l~~Pi--~~C~cGH~~C~~C~~~~ 88 (307)
....|.+|. +...... ....|+|.||..|..+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ 180 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQH 180 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHH
Confidence 466899999 4433311 12369999999998765
No 148
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=40.86 E-value=20 Score=27.77 Aligned_cols=33 Identities=21% Similarity=0.540 Sum_probs=19.4
Q ss_pred ccCCCCeeeeccccCCCC-CCeeecCCCceechhc
Q 021796 51 NNDVHELLECPVCLNLMY-PPIYQCPNGHTLCSSC 84 (307)
Q Consensus 51 ~~~~~~~l~CpiC~~~l~-~Pi~~C~cGH~~C~~C 84 (307)
...+...+.||.|.+... .++-. .-+|+.|..|
T Consensus 15 k~klpt~f~CP~Cge~~v~v~~~k-~~~h~~C~~C 48 (99)
T PRK14892 15 KPKLPKIFECPRCGKVSISVKIKK-NIAIITCGNC 48 (99)
T ss_pred ccCCCcEeECCCCCCeEeeeecCC-CcceEECCCC
Confidence 456678999999996422 22222 2345555544
No 149
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.76 E-value=21 Score=26.38 Aligned_cols=46 Identities=28% Similarity=0.560 Sum_probs=27.4
Q ss_pred eeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCcccCCcccchhHHHHhhccccc
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHELGNIRCLALEKVAESLELP 117 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~~~~~~~~le~~~~~l~~~ 117 (307)
+.||+|.--|...+.+ |--+ ..||.||.-- ..--.++|+++...+|
T Consensus 2 llCP~C~v~l~~~~rs---~vEi---------D~CPrCrGVW--LDrGELdKli~r~r~p 47 (88)
T COG3809 2 LLCPICGVELVMSVRS---GVEI---------DYCPRCRGVW--LDRGELDKLIERSRYP 47 (88)
T ss_pred cccCcCCceeeeeeec---Ccee---------eeCCccccEe--ecchhHHHHHHHhcCC
Confidence 5688888777654332 2211 5688887742 1233577888776643
No 150
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=40.67 E-value=17 Score=26.51 Aligned_cols=44 Identities=18% Similarity=0.424 Sum_probs=27.6
Q ss_pred CCCCCcccCCcccchhHHHHhhccccccccccCCcceeecccchHH
Q 021796 91 GCPTCRHELGNIRCLALEKVAESLELPCRYQIWGCQDIFPYYSKLK 136 (307)
Q Consensus 91 ~CP~Cr~~~~~~~~~~le~~~~~l~~~C~n~~~GC~~~~~~~~~~~ 136 (307)
.||.|+...-....+.+...+......|.|-. |..++...+-..
T Consensus 3 ~CP~Cg~~a~irtSr~~s~~~~~~Y~qC~N~e--Cg~tF~t~es~s 46 (72)
T PRK09678 3 HCPLCQHAAHARTSRYITDTTKERYHQCQNVN--CSATFITYESVQ 46 (72)
T ss_pred cCCCCCCccEEEEChhcChhhheeeeecCCCC--CCCEEEEEEEEE
Confidence 69999887643444555555777788888754 555554444333
No 151
>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A.
Probab=39.76 E-value=21 Score=26.37 Aligned_cols=36 Identities=28% Similarity=0.528 Sum_probs=19.6
Q ss_pred HHHHHhCCCcCccCCCCCCCCcccc-ChhhHHHHhhcc-CCC
Q 021796 135 LKHEKNCNYRPYNCPYAGAECSVTG-DIPLLVRHLKND-HKV 174 (307)
Q Consensus 135 ~~He~~C~~~p~~Cp~~g~~C~~~g-~~~~l~~Hl~~~-H~~ 174 (307)
..+...-......|+. |+... +...|..|++.. |..
T Consensus 40 ~~~~~~~~~~~~~C~~----C~~~f~s~~~l~~Hm~~~~H~~ 77 (100)
T PF12756_consen 40 LNYLRKKVKESFRCPY----CNKTFRSREALQEHMRSKHHKK 77 (100)
T ss_dssp ---------SSEEBSS----SS-EESSHHHHHHHHHHTTTTC
T ss_pred ccccccccCCCCCCCc----cCCCCcCHHHHHHHHcCccCCC
Confidence 3444444445788988 55444 678999999975 553
No 152
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=39.48 E-value=13 Score=30.24 Aligned_cols=23 Identities=26% Similarity=0.868 Sum_probs=17.2
Q ss_pred eeeccccCCCCCCeeecCCCceechhch
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCK 85 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~ 85 (307)
..||.|+-+|.. .-|-+||..|-
T Consensus 29 ~hCp~Cg~PLF~-----KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPLFR-----KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCccee-----eCCeEECCCCC
Confidence 479999987654 56899876664
No 153
>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=39.44 E-value=17 Score=20.87 Aligned_cols=17 Identities=24% Similarity=0.364 Sum_probs=6.4
Q ss_pred cceeecccchHHHHHhC
Q 021796 125 CQDIFPYYSKLKHEKNC 141 (307)
Q Consensus 125 C~~~~~~~~~~~He~~C 141 (307)
|.+.++......|...|
T Consensus 7 C~~~v~~~~in~HLD~C 23 (26)
T smart00734 7 CFREVPENLINSHLDSC 23 (26)
T ss_pred CcCcccHHHHHHHHHHh
Confidence 33333333333444333
No 154
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=38.83 E-value=22 Score=33.50 Aligned_cols=43 Identities=30% Similarity=0.842 Sum_probs=33.8
Q ss_pred eeeccccCCC---CCCeeecCCCceechhchhhh---cCCCCCCcccCC
Q 021796 58 LECPVCLNLM---YPPIYQCPNGHTLCSSCKARV---RTGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l---~~Pi~~C~cGH~~C~~C~~~~---~~~CP~Cr~~~~ 100 (307)
-.||+|.+++ ..+..-|+||+..|..|.... ...||.|+++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 4799999976 334556899999999998766 388999997654
No 155
>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=38.60 E-value=18 Score=34.69 Aligned_cols=30 Identities=30% Similarity=0.626 Sum_probs=22.2
Q ss_pred eeecCCCceechhchhhhc----------------CCCCCCcccCC
Q 021796 71 IYQCPNGHTLCSSCKARVR----------------TGCPTCRHELG 100 (307)
Q Consensus 71 i~~C~cGH~~C~~C~~~~~----------------~~CP~Cr~~~~ 100 (307)
-.+|-|.=..|-+|..+|- -.||+||.++.
T Consensus 306 C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 306 CQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred CccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 3456677788889988871 56889988764
No 156
>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=38.03 E-value=12 Score=24.95 Aligned_cols=40 Identities=28% Similarity=0.693 Sum_probs=21.2
Q ss_pred eccccCCCCCCeeecCCCceechhchhhhc---CCCCCCcccCCc
Q 021796 60 CPVCLNLMYPPIYQCPNGHTLCSSCKARVR---TGCPTCRHELGN 101 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~~ 101 (307)
|-.|--.-+. ...| -.|-.|..|+..+. ..||.|..++..
T Consensus 5 CKsCWf~~k~-Li~C-~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 5 CKSCWFANKG-LIKC-SDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp --SS-S--SS-EEE--SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ChhhhhcCCC-eeee-cchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 4444433333 2343 36999999998774 789999987653
No 157
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=37.41 E-value=19 Score=26.54 Aligned_cols=43 Identities=19% Similarity=0.532 Sum_probs=16.7
Q ss_pred eeeccccCCCC-----CCeeec-CCCceechhchhhh----cCCCCCCcccCC
Q 021796 58 LECPVCLNLMY-----PPIYQC-PNGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 58 l~CpiC~~~l~-----~Pi~~C-~cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
-.|.||.+-+- .+..-| .|+-.+|..|.+-- ...||.|+.++.
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46999998762 344445 48888999997532 378999998764
No 158
>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=36.72 E-value=19 Score=24.20 Aligned_cols=30 Identities=23% Similarity=0.522 Sum_probs=19.9
Q ss_pred eeccccCCCCC--Ceeec-CCCceechhchhhh
Q 021796 59 ECPVCLNLMYP--PIYQC-PNGHTLCSSCKARV 88 (307)
Q Consensus 59 ~CpiC~~~l~~--Pi~~C-~cGH~~C~~C~~~~ 88 (307)
.|+.|...|.. .-..| .||++||..|....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 57788766532 22345 48999999997643
No 159
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=36.26 E-value=13 Score=20.78 Aligned_cols=9 Identities=33% Similarity=0.766 Sum_probs=4.1
Q ss_pred eccccCCCC
Q 021796 60 CPVCLNLMY 68 (307)
Q Consensus 60 CpiC~~~l~ 68 (307)
||.|...+.
T Consensus 2 Cp~CG~~~~ 10 (23)
T PF13240_consen 2 CPNCGAEIE 10 (23)
T ss_pred CcccCCCCC
Confidence 444444443
No 160
>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=35.42 E-value=17 Score=19.46 Aligned_cols=20 Identities=30% Similarity=0.672 Sum_probs=13.0
Q ss_pred cCCCCCCCCccccC-hhhHHHHhhc
Q 021796 147 NCPYAGAECSVTGD-IPLLVRHLKN 170 (307)
Q Consensus 147 ~Cp~~g~~C~~~g~-~~~l~~Hl~~ 170 (307)
.||. |+.... ..+|..|++.
T Consensus 2 ~C~~----C~~~f~~~~~l~~H~~~ 22 (23)
T PF00096_consen 2 KCPI----CGKSFSSKSNLKRHMRR 22 (23)
T ss_dssp EETT----TTEEESSHHHHHHHHHH
T ss_pred CCCC----CCCccCCHHHHHHHHhH
Confidence 4664 665554 4688888765
No 161
>PHA03096 p28-like protein; Provisional
Probab=35.21 E-value=14 Score=34.24 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=27.6
Q ss_pred eeeccccCCCCC-Cee------ecCCCceechhchhhhc------CCCCCCcc
Q 021796 58 LECPVCLNLMYP-PIY------QCPNGHTLCSSCKARVR------TGCPTCRH 97 (307)
Q Consensus 58 l~CpiC~~~l~~-Pi~------~C~cGH~~C~~C~~~~~------~~CP~Cr~ 97 (307)
-.|.||.+.... +.. .-.|-|.||..|+..|. ..||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 579999998642 111 12699999999999873 44555544
No 162
>PLN02189 cellulose synthase
Probab=34.81 E-value=26 Score=38.02 Aligned_cols=42 Identities=21% Similarity=0.643 Sum_probs=32.9
Q ss_pred eeccccCCCC-----CCeeecC-CCceechhchhhh----cCCCCCCcccCC
Q 021796 59 ECPVCLNLMY-----PPIYQCP-NGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l~-----~Pi~~C~-cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
.|.||.+-+- +|..-|. ||--+|..|.+-- ...||.|++...
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 7999999863 4556675 9999999998533 378999998764
No 163
>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 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=33.00 E-value=34 Score=22.81 Aligned_cols=32 Identities=22% Similarity=0.651 Sum_probs=22.4
Q ss_pred CCeeeeccccCCCCCC-eeecCCCceechhchhh
Q 021796 55 HELLECPVCLNLMYPP-IYQCPNGHTLCSSCKAR 87 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~P-i~~C~cGH~~C~~C~~~ 87 (307)
.+=|.|..|...+.+. .+. ..|..+|..|..+
T Consensus 24 ~~Cf~C~~C~~~l~~~~~~~-~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 24 PECFKCSKCGKPLNDGDFYE-KDGKPYCKDCYQK 56 (58)
T ss_dssp TTTSBETTTTCBTTTSSEEE-ETTEEEEHHHHHH
T ss_pred ccccccCCCCCccCCCeeEe-ECCEEECHHHHhh
Confidence 3457788888888765 344 6778888888654
No 165
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=32.43 E-value=3.9 Score=27.56 Aligned_cols=43 Identities=23% Similarity=0.475 Sum_probs=31.0
Q ss_pred CeeeeccccCCCCCC-eeecC-CCceechhchhhhcCCCCCCccc
Q 021796 56 ELLECPVCLNLMYPP-IYQCP-NGHTLCSSCKARVRTGCPTCRHE 98 (307)
Q Consensus 56 ~~l~CpiC~~~l~~P-i~~C~-cGH~~C~~C~~~~~~~CP~Cr~~ 98 (307)
..+.|..|....... ..||. ||.-.|.+|.......|..|..-
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~deYY~CksC~Gi 50 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQDEYYTCKSCNGI 50 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhhHhHHHhhhch
Confidence 356788888776432 56774 99999999998765667777553
No 166
>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=32.13 E-value=23 Score=22.84 Aligned_cols=22 Identities=32% Similarity=0.800 Sum_probs=15.0
Q ss_pred eeccccCCCCCCeeecCCCceechhc
Q 021796 59 ECPVCLNLMYPPIYQCPNGHTLCSSC 84 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cGH~~C~~C 84 (307)
.||.|.-++.. -..|..+|-.|
T Consensus 19 ~Cp~C~~PL~~----~k~g~~~Cv~C 40 (41)
T PF06677_consen 19 HCPDCGTPLMR----DKDGKIYCVSC 40 (41)
T ss_pred ccCCCCCeeEE----ecCCCEECCCC
Confidence 69999665543 25678887766
No 167
>smart00301 DM Doublesex DNA-binding motif.
Probab=31.70 E-value=20 Score=24.62 Aligned_cols=34 Identities=18% Similarity=0.390 Sum_probs=26.1
Q ss_pred cccchHHHHHhCCCcCccCCCCCCCCccccChhhHHHH
Q 021796 130 PYYSKLKHEKNCNYRPYNCPYAGAECSVTGDIPLLVRH 167 (307)
Q Consensus 130 ~~~~~~~He~~C~~~p~~Cp~~g~~C~~~g~~~~l~~H 167 (307)
....++.|-..|+|+.+.|+- |.....+..++..
T Consensus 13 ~~~~lKGHKr~C~~r~C~C~k----C~Li~~Rq~vma~ 46 (54)
T smart00301 13 VKVPLKGHKPECPFRDCECEK----CTLVEKRRALMAL 46 (54)
T ss_pred CeeccCCcCCCCCCCCCcCCC----CcChHHHHHHHHH
Confidence 345677899999999999975 8777776666554
No 168
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=30.79 E-value=35 Score=26.26 Aligned_cols=23 Identities=22% Similarity=0.820 Sum_probs=17.2
Q ss_pred eechhchhhhc-------CCCCCCcccCCc
Q 021796 79 TLCSSCKARVR-------TGCPTCRHELGN 101 (307)
Q Consensus 79 ~~C~~C~~~~~-------~~CP~Cr~~~~~ 101 (307)
++|..|+..+. ..||.|+.++..
T Consensus 63 iiCGvC~~~LT~~EY~~~~~Cp~C~spFNp 92 (105)
T COG4357 63 IICGVCRKLLTRAEYGMCGSCPYCQSPFNP 92 (105)
T ss_pred EEhhhhhhhhhHHHHhhcCCCCCcCCCCCc
Confidence 67888876652 779999988764
No 169
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=30.52 E-value=25 Score=32.47 Aligned_cols=62 Identities=24% Similarity=0.533 Sum_probs=42.9
Q ss_pred eeeeccccCCCCC----CeeecCCCceechhchhhh---cCCCCCCcccCCc--ccchhHHHHhhcccccccc
Q 021796 57 LLECPVCLNLMYP----PIYQCPNGHTLCSSCKARV---RTGCPTCRHELGN--IRCLALEKVAESLELPCRY 120 (307)
Q Consensus 57 ~l~CpiC~~~l~~----Pi~~C~cGH~~C~~C~~~~---~~~CP~Cr~~~~~--~~~~~le~~~~~l~~~C~n 120 (307)
...||+|.+.+.. |... .|||..=..|.+.. .-.||.|.. +.. .-.+.+++++....+|=+|
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~-~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y 228 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVL-KCGHYMHSRCFEEMICEGYTCPICSK-PGDMSHYFRKLDKELAGSPMPEEY 228 (276)
T ss_pred cCCCchhHHHhccccccCCcc-CcccchHHHHHHHHhccCCCCCcccc-hHHHHHHHHHHHHHHhcCCCCchh
Confidence 3449999998743 3333 69997767777665 278999999 554 3456678888887776443
No 170
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=30.32 E-value=31 Score=22.72 Aligned_cols=12 Identities=42% Similarity=1.007 Sum_probs=8.6
Q ss_pred eeccccCCCCCC
Q 021796 59 ECPVCLNLMYPP 70 (307)
Q Consensus 59 ~CpiC~~~l~~P 70 (307)
-||-|..++..+
T Consensus 2 FCp~Cg~~l~~~ 13 (52)
T smart00661 2 FCPKCGNMLIPK 13 (52)
T ss_pred CCCCCCCccccc
Confidence 378888877654
No 171
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=30.27 E-value=38 Score=23.26 Aligned_cols=8 Identities=50% Similarity=1.173 Sum_probs=3.7
Q ss_pred eeccccCC
Q 021796 59 ECPVCLNL 66 (307)
Q Consensus 59 ~CpiC~~~ 66 (307)
.||+|..-
T Consensus 6 ~CP~CgnK 13 (55)
T PF14205_consen 6 LCPICGNK 13 (55)
T ss_pred ECCCCCCc
Confidence 45555443
No 172
>KOG3608 consensus Zn finger proteins [General function prediction only]
Probab=30.04 E-value=23 Score=33.77 Aligned_cols=14 Identities=21% Similarity=0.679 Sum_probs=9.8
Q ss_pred hhccCcEEEEEEec
Q 021796 237 EEARQFSYSLEVGG 250 (307)
Q Consensus 237 ~~a~~f~Y~l~~~~ 250 (307)
+.-+.|+|+....|
T Consensus 382 sGh~RFtYk~~edG 395 (467)
T KOG3608|consen 382 SGHKRFTYKVDEDG 395 (467)
T ss_pred CCCCceeeeeccCc
Confidence 44568999986644
No 173
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=30.01 E-value=12 Score=36.06 Aligned_cols=42 Identities=26% Similarity=0.579 Sum_probs=31.8
Q ss_pred CeeeeccccCCC--CCCeeec-CCCceechhchhhhc-----CCCCCCcc
Q 021796 56 ELLECPVCLNLM--YPPIYQC-PNGHTLCSSCKARVR-----TGCPTCRH 97 (307)
Q Consensus 56 ~~l~CpiC~~~l--~~Pi~~C-~cGH~~C~~C~~~~~-----~~CP~Cr~ 97 (307)
-.|.|-.|++.+ ++--.|. +|.|+|=..|..++. ..||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 457899999986 3333332 699999999988652 78999984
No 174
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.42 E-value=8.7 Score=28.26 Aligned_cols=25 Identities=24% Similarity=0.535 Sum_probs=20.6
Q ss_pred CCceechhchhhhc------CCCCCCcccCC
Q 021796 76 NGHTLCSSCKARVR------TGCPTCRHELG 100 (307)
Q Consensus 76 cGH~~C~~C~~~~~------~~CP~Cr~~~~ 100 (307)
|.|.|=..|+.++. ..||.||+...
T Consensus 51 C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 51 CLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 78888888998884 77999998754
No 175
>PLN02436 cellulose synthase A
Probab=28.62 E-value=39 Score=36.92 Aligned_cols=42 Identities=21% Similarity=0.696 Sum_probs=32.8
Q ss_pred eeccccCCC-----CCCeeecC-CCceechhchhhh----cCCCCCCcccCC
Q 021796 59 ECPVCLNLM-----YPPIYQCP-NGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l-----~~Pi~~C~-cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
.|.||.+-+ -+|..-|. ||--+|..|.+-- ...||.|++...
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 799999986 24656674 9999999998543 378999998764
No 176
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=27.95 E-value=22 Score=32.26 Aligned_cols=45 Identities=18% Similarity=0.499 Sum_probs=32.8
Q ss_pred CCeeeeccccCCCCCCeeecCCCceechhchhhhc-CCCCCCcccCC
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVR-TGCPTCRHELG 100 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~-~~CP~Cr~~~~ 100 (307)
..-+.|..|...|..--.. -.|.++|..|..+.. ..|-.|+.+|.
T Consensus 161 ~yHFkCt~C~keL~sdaRe-vk~eLyClrChD~mgipiCgaC~rpIe 206 (332)
T KOG2272|consen 161 PYHFKCTTCGKELTSDARE-VKGELYCLRCHDKMGIPICGACRRPIE 206 (332)
T ss_pred ccceecccccccccchhhh-hccceeccccccccCCcccccccCchH
Confidence 4567888888888765444 578899999988763 55666777765
No 177
>PF12773 DZR: Double zinc ribbon
Probab=27.60 E-value=47 Score=21.67 Aligned_cols=8 Identities=50% Similarity=1.182 Sum_probs=3.7
Q ss_pred CCCCCccc
Q 021796 91 GCPTCRHE 98 (307)
Q Consensus 91 ~CP~Cr~~ 98 (307)
.||.|...
T Consensus 31 ~C~~Cg~~ 38 (50)
T PF12773_consen 31 ICPNCGAE 38 (50)
T ss_pred CCcCCcCC
Confidence 35555443
No 178
>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=27.58 E-value=63 Score=19.13 Aligned_cols=35 Identities=20% Similarity=0.521 Sum_probs=19.3
Q ss_pred eeccccCCCCC--CeeecCCCceechhchhhhcCCCCCCcccC
Q 021796 59 ECPVCLNLMYP--PIYQCPNGHTLCSSCKARVRTGCPTCRHEL 99 (307)
Q Consensus 59 ~CpiC~~~l~~--Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~~ 99 (307)
.|..|.+.+.+ .++. .-+..+-..| ..|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~~-~~~~~~H~~C-----f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLR-ALGKVWHPEC-----FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEE-eCCccccccC-----CCCcccCCcC
Confidence 37778887766 3333 3445554444 3466666554
No 179
>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=27.56 E-value=46 Score=20.06 Aligned_cols=9 Identities=33% Similarity=0.796 Sum_probs=6.5
Q ss_pred CCCCCCccc
Q 021796 90 TGCPTCRHE 98 (307)
Q Consensus 90 ~~CP~Cr~~ 98 (307)
..||.|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 578888664
No 180
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=27.52 E-value=40 Score=28.72 Aligned_cols=11 Identities=36% Similarity=0.751 Sum_probs=7.2
Q ss_pred eeeeccccCCC
Q 021796 57 LLECPVCLNLM 67 (307)
Q Consensus 57 ~l~CpiC~~~l 67 (307)
.+.||+|+.+.
T Consensus 134 ~~vC~vCGy~~ 144 (166)
T COG1592 134 VWVCPVCGYTH 144 (166)
T ss_pred EEEcCCCCCcc
Confidence 67777775544
No 181
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.42 E-value=36 Score=35.30 Aligned_cols=11 Identities=45% Similarity=1.132 Sum_probs=6.3
Q ss_pred CCCCCCcccCC
Q 021796 90 TGCPTCRHELG 100 (307)
Q Consensus 90 ~~CP~Cr~~~~ 100 (307)
..||.|..+++
T Consensus 42 ~fC~~CG~~~~ 52 (645)
T PRK14559 42 AHCPNCGAETG 52 (645)
T ss_pred ccccccCCccc
Confidence 45666666544
No 182
>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=27.12 E-value=21 Score=37.83 Aligned_cols=45 Identities=29% Similarity=0.741 Sum_probs=0.0
Q ss_pred CCeeeeccccCCCCCCeeecC-CCce-----echhchhhhc-CCCCCCcccCCc
Q 021796 55 HELLECPVCLNLMYPPIYQCP-NGHT-----LCSSCKARVR-TGCPTCRHELGN 101 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~-cGH~-----~C~~C~~~~~-~~CP~Cr~~~~~ 101 (307)
.....||-|...-.. ..|+ ||-. +|..|..+.. ..||.|......
T Consensus 653 i~~r~Cp~Cg~~t~~--~~Cp~CG~~T~~~~~Cp~C~~~~~~~~C~~C~~~~~~ 704 (900)
T PF03833_consen 653 IGRRRCPKCGKETFY--NRCPECGSHTEPVYVCPDCGIEVEEDECPKCGRETTS 704 (900)
T ss_dssp ------------------------------------------------------
T ss_pred eecccCcccCCcchh--hcCcccCCccccceeccccccccCccccccccccCcc
Confidence 345789999998554 3674 8744 8999987663 789999887543
No 183
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=26.41 E-value=23 Score=20.14 Aligned_cols=7 Identities=43% Similarity=0.942 Sum_probs=3.6
Q ss_pred eeccccC
Q 021796 59 ECPVCLN 65 (307)
Q Consensus 59 ~CpiC~~ 65 (307)
.||.|..
T Consensus 4 ~Cp~Cg~ 10 (26)
T PF13248_consen 4 FCPNCGA 10 (26)
T ss_pred CCcccCC
Confidence 3555555
No 184
>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=26.39 E-value=1.4e+02 Score=27.16 Aligned_cols=30 Identities=27% Similarity=0.531 Sum_probs=16.6
Q ss_pred CCeeeeccccCCCCCCeeecCCCc-eechhchh
Q 021796 55 HELLECPVCLNLMYPPIYQCPNGH-TLCSSCKA 86 (307)
Q Consensus 55 ~~~l~CpiC~~~l~~Pi~~C~cGH-~~C~~C~~ 86 (307)
.....|.+|..++...-. .-.| +-|..|-+
T Consensus 63 ~p~v~CrVCq~~I~i~gk--~~QhVVkC~~CnE 93 (256)
T PF09788_consen 63 APVVTCRVCQSLIDIEGK--MHQHVVKCSVCNE 93 (256)
T ss_pred CceEEeecCCceecccCc--cceeeEECCCCCc
Confidence 356778888887754411 1234 34555543
No 185
>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=26.03 E-value=49 Score=20.21 Aligned_cols=9 Identities=33% Similarity=0.981 Sum_probs=6.7
Q ss_pred CCCCCCccc
Q 021796 90 TGCPTCRHE 98 (307)
Q Consensus 90 ~~CP~Cr~~ 98 (307)
..||.|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 578888764
No 186
>PLN02195 cellulose synthase A
Probab=24.88 E-value=54 Score=35.46 Aligned_cols=42 Identities=21% Similarity=0.481 Sum_probs=32.2
Q ss_pred eeccccCCC-----CCCeeec-CCCceechhchhhh----cCCCCCCcccCC
Q 021796 59 ECPVCLNLM-----YPPIYQC-PNGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l-----~~Pi~~C-~cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
.|.||.+-+ -+|..-| .||--+|..|.+-- ...||.|+....
T Consensus 8 ~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred cceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 699999865 2565566 59999999997532 378999999876
No 187
>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=24.84 E-value=54 Score=25.95 Aligned_cols=31 Identities=19% Similarity=0.374 Sum_probs=19.1
Q ss_pred eeeeccccCCCC---CCeeec-CCCceechhchhh
Q 021796 57 LLECPVCLNLMY---PPIYQC-PNGHTLCSSCKAR 87 (307)
Q Consensus 57 ~l~CpiC~~~l~---~Pi~~C-~cGH~~C~~C~~~ 87 (307)
.-.|..|..+|. .+=..| .|+|.+|+.|...
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 348999988652 222445 4888888888654
No 188
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=24.68 E-value=52 Score=25.49 Aligned_cols=32 Identities=16% Similarity=0.562 Sum_probs=23.2
Q ss_pred CCCCeeeeccccCCCCCC-eeecCCCceechhc
Q 021796 53 DVHELLECPVCLNLMYPP-IYQCPNGHTLCSSC 84 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~P-i~~C~cGH~~C~~C 84 (307)
.-.+.|.|..|+.+-... +-.-..|+.+|..|
T Consensus 66 ~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 66 KQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 347899999999987543 22214689999988
No 189
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=24.46 E-value=15 Score=40.54 Aligned_cols=48 Identities=25% Similarity=0.627 Sum_probs=36.7
Q ss_pred ccCCCCeeeeccccCCCCCC--eeecCCCceechhchhhhc---CCCCCCcccCC
Q 021796 51 NNDVHELLECPVCLNLMYPP--IYQCPNGHTLCSSCKARVR---TGCPTCRHELG 100 (307)
Q Consensus 51 ~~~~~~~l~CpiC~~~l~~P--i~~C~cGH~~C~~C~~~~~---~~CP~Cr~~~~ 100 (307)
..++.....|++|.+++..- |. .|||.+|.+|...+. ..||.|+...+
T Consensus 1147 ~~~~~~~~~c~ic~dil~~~~~I~--~cgh~~c~~c~~~~l~~~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRNQGGIA--GCGHEPCCRCDELWLYASSRCPICKSIKG 1199 (1394)
T ss_pred HHHhhcccchHHHHHHHHhcCCee--eechhHhhhHHHHHHHHhccCcchhhhhh
Confidence 34456667999999999732 44 589999999988773 78999986543
No 190
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=24.18 E-value=53 Score=35.91 Aligned_cols=42 Identities=21% Similarity=0.672 Sum_probs=32.1
Q ss_pred eeccccCCCC-----CCeeec-CCCceechhchhhh----cCCCCCCcccCC
Q 021796 59 ECPVCLNLMY-----PPIYQC-PNGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l~-----~Pi~~C-~cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
.|.||.+-+- +|..-| .||--+|..|.+-- ...||.|+..+.
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 7999999852 455556 58999999997532 378999998764
No 191
>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=23.86 E-value=56 Score=18.11 Aligned_cols=25 Identities=24% Similarity=0.545 Sum_probs=16.7
Q ss_pred CccCCCCCCCCcccc-ChhhHHHHhhccCC
Q 021796 145 PYNCPYAGAECSVTG-DIPLLVRHLKNDHK 173 (307)
Q Consensus 145 p~~Cp~~g~~C~~~g-~~~~l~~Hl~~~H~ 173 (307)
|+.|.. |+-.. ...+|..|.+..|+
T Consensus 1 ~~~C~~----C~~~F~~~~~l~~H~~~h~~ 26 (27)
T PF13912_consen 1 PFECDE----CGKTFSSLSALREHKRSHCS 26 (27)
T ss_dssp SEEETT----TTEEESSHHHHHHHHCTTTT
T ss_pred CCCCCc----cCCccCChhHHHHHhHHhcC
Confidence 456765 55543 56899999977654
No 192
>PHA02862 5L protein; Provisional
Probab=23.81 E-value=43 Score=27.83 Aligned_cols=42 Identities=14% Similarity=0.336 Sum_probs=29.1
Q ss_pred eeccccCCCCCCeeecCCC---ceechhchhhhc-----CCCCCCcccCC
Q 021796 59 ECPVCLNLMYPPIYQCPNG---HTLCSSCKARVR-----TGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l~~Pi~~C~cG---H~~C~~C~~~~~-----~~CP~Cr~~~~ 100 (307)
.|-||++.-.+.+.-|.|. ..+=..|+.+|. ..|+.|+.++.
T Consensus 4 iCWIC~~~~~e~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 4 ICWICNDVCDERNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred EEEEecCcCCCCcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 5888888766555567662 245567888873 67888888764
No 193
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=23.75 E-value=75 Score=29.97 Aligned_cols=44 Identities=27% Similarity=0.593 Sum_probs=28.4
Q ss_pred ccCCCCeeeeccccCCCCCCeeecCCCceechhchhhhcCCCCCCccc
Q 021796 51 NNDVHELLECPVCLNLMYPPIYQCPNGHTLCSSCKARVRTGCPTCRHE 98 (307)
Q Consensus 51 ~~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C~~~~~~~CP~Cr~~ 98 (307)
.........|+.|..+..+-+- .|..|..|..+-...||+|+..
T Consensus 211 ~y~~~~~m~c~sc~G~~~~k~g----t~~~C~~C~G~G~~~C~tC~gr 254 (406)
T KOG2813|consen 211 SYGIGTPMHCMSCTGVPPPKIG----THDLCYMCHGRGIKECHTCKGR 254 (406)
T ss_pred ccccCcceecccccCCCCCCCC----ccchhhhccCCCcccCCcccCC
Confidence 3455667889999985444333 3777777766655666666553
No 194
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=23.09 E-value=65 Score=22.27 Aligned_cols=17 Identities=35% Similarity=0.723 Sum_probs=12.5
Q ss_pred CCCCeeeeccccCCCCC
Q 021796 53 DVHELLECPVCLNLMYP 69 (307)
Q Consensus 53 ~~~~~l~CpiC~~~l~~ 69 (307)
....+..||.|.++..+
T Consensus 23 ~~~~l~~C~~CG~~~~~ 39 (57)
T PRK12286 23 KAPGLVECPNCGEPKLP 39 (57)
T ss_pred cCCcceECCCCCCccCC
Confidence 34667789999997664
No 195
>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=23.08 E-value=64 Score=20.54 Aligned_cols=26 Identities=23% Similarity=0.752 Sum_probs=14.4
Q ss_pred eeeccccCCCCCCeeecCCCceechhch
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSCK 85 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C~ 85 (307)
+.||.|.... -+.--..|-.+|..|-
T Consensus 1 m~Cp~Cg~~~--~~~D~~~g~~vC~~CG 26 (43)
T PF08271_consen 1 MKCPNCGSKE--IVFDPERGELVCPNCG 26 (43)
T ss_dssp ESBTTTSSSE--EEEETTTTEEEETTT-
T ss_pred CCCcCCcCCc--eEEcCCCCeEECCCCC
Confidence 3588887743 1222245677777773
No 196
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=22.98 E-value=64 Score=22.10 Aligned_cols=16 Identities=31% Similarity=0.748 Sum_probs=11.7
Q ss_pred CCCeeeeccccCCCCC
Q 021796 54 VHELLECPVCLNLMYP 69 (307)
Q Consensus 54 ~~~~l~CpiC~~~l~~ 69 (307)
...+..||.|.++..+
T Consensus 23 ~p~l~~C~~cG~~~~~ 38 (55)
T TIGR01031 23 APTLVVCPNCGEFKLP 38 (55)
T ss_pred CCcceECCCCCCcccC
Confidence 3567789999996554
No 197
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.87 E-value=38 Score=33.38 Aligned_cols=83 Identities=17% Similarity=0.300 Sum_probs=0.0
Q ss_pred eccccC--CCCCCeeecCCCceechhchhhhc--CCCCCCcccCCc-ccchhHHHHhhccccccccccCCcceeecccch
Q 021796 60 CPVCLN--LMYPPIYQCPNGHTLCSSCKARVR--TGCPTCRHELGN-IRCLALEKVAESLELPCRYQIWGCQDIFPYYSK 134 (307)
Q Consensus 60 CpiC~~--~l~~Pi~~C~cGH~~C~~C~~~~~--~~CP~Cr~~~~~-~~~~~le~~~~~l~~~C~n~~~GC~~~~~~~~~ 134 (307)
|+..-. ....+-+.|.|||.||..|...++ ..|+....-+.. ...-...+-+..-..+||. |...+.-.+.
T Consensus 166 C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~----c~~~iek~~g 241 (444)
T KOG1815|consen 166 CGLAVKFGSLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPK----CKVPIEKDGG 241 (444)
T ss_pred CCceeeccCCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCC----cccchhccCC
Q ss_pred HHH--HHh--CCCcCc
Q 021796 135 LKH--EKN--CNYRPY 146 (307)
Q Consensus 135 ~~H--e~~--C~~~p~ 146 (307)
-.| -+. |.+..+
T Consensus 242 c~~~~~~~~~c~~~FC 257 (444)
T KOG1815|consen 242 CNHMTCKSASCKHEFC 257 (444)
T ss_pred ccccccccCCcCCeec
No 198
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=22.47 E-value=53 Score=27.13 Aligned_cols=31 Identities=26% Similarity=0.731 Sum_probs=20.1
Q ss_pred cCCCceechhchhhh-cCCCCCCcccCCcccch
Q 021796 74 CPNGHTLCSSCKARV-RTGCPTCRHELGNIRCL 105 (307)
Q Consensus 74 C~cGH~~C~~C~~~~-~~~CP~Cr~~~~~~~~~ 105 (307)
|.| -+.|.-|.... ..+||.|+.|.....+.
T Consensus 2 ~kc-t~tC~ic~e~~~KYKCpkC~vPYCSl~Cf 33 (157)
T KOG2857|consen 2 CKC-TTTCVICLESEIKYKCPKCSVPYCSLPCF 33 (157)
T ss_pred Ccc-eeeehhhhcchhhccCCCCCCccccchhh
Confidence 445 56777777644 46788888877654443
No 199
>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=22.23 E-value=46 Score=32.95 Aligned_cols=24 Identities=21% Similarity=0.577 Sum_probs=15.8
Q ss_pred CeeecC-CCceechhchhhhcCCCCCCccc
Q 021796 70 PIYQCP-NGHTLCSSCKARVRTGCPTCRHE 98 (307)
Q Consensus 70 Pi~~C~-cGH~~C~~C~~~~~~~CP~Cr~~ 98 (307)
+.++|. ||+.. .+|..+||.|+.-
T Consensus 6 ~~y~C~~Cg~~~-----~~~~g~Cp~C~~w 30 (454)
T TIGR00416 6 SKFVCQHCGADS-----PKWQGKCPACHAW 30 (454)
T ss_pred CeEECCcCCCCC-----ccccEECcCCCCc
Confidence 345663 66654 4666889999774
No 200
>PRK11823 DNA repair protein RadA; Provisional
Probab=21.94 E-value=52 Score=32.48 Aligned_cols=24 Identities=25% Similarity=0.545 Sum_probs=15.1
Q ss_pred CeeecC-CCceechhchhhhcCCCCCCccc
Q 021796 70 PIYQCP-NGHTLCSSCKARVRTGCPTCRHE 98 (307)
Q Consensus 70 Pi~~C~-cGH~~C~~C~~~~~~~CP~Cr~~ 98 (307)
+.|.|+ ||+.. .+|..+||.|+.-
T Consensus 6 ~~y~C~~Cg~~~-----~~~~g~Cp~C~~w 30 (446)
T PRK11823 6 TAYVCQECGAES-----PKWLGRCPECGAW 30 (446)
T ss_pred CeEECCcCCCCC-----cccCeeCcCCCCc
Confidence 345553 66654 4666788888764
No 201
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=21.67 E-value=72 Score=22.13 Aligned_cols=22 Identities=27% Similarity=0.714 Sum_probs=12.7
Q ss_pred eccccCCCCCCeeec-CCCceech
Q 021796 60 CPVCLNLMYPPIYQC-PNGHTLCS 82 (307)
Q Consensus 60 CpiC~~~l~~Pi~~C-~cGH~~C~ 82 (307)
|..|... ...+..| .||+++|.
T Consensus 1 C~~C~~~-~~~lw~CL~Cg~~~C~ 23 (63)
T PF02148_consen 1 CSVCGST-NSNLWLCLTCGYVGCG 23 (63)
T ss_dssp -SSSHTC-SSSEEEETTTS-EEET
T ss_pred CCCCCCc-CCceEEeCCCCccccc
Confidence 5566655 3445666 58888876
No 202
>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=21.61 E-value=47 Score=20.66 Aligned_cols=23 Identities=30% Similarity=0.808 Sum_probs=14.3
Q ss_pred eeeccccCCCCCCeeecCCCceechhc
Q 021796 58 LECPVCLNLMYPPIYQCPNGHTLCSSC 84 (307)
Q Consensus 58 l~CpiC~~~l~~Pi~~C~cGH~~C~~C 84 (307)
..|++|...+..+ .-|..+|..|
T Consensus 9 ~~C~~C~~~~~~~----~dG~~yC~~c 31 (36)
T PF11781_consen 9 EPCPVCGSRWFYS----DDGFYYCDRC 31 (36)
T ss_pred CcCCCCCCeEeEc----cCCEEEhhhC
Confidence 4599999984332 4455555555
No 203
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=21.59 E-value=69 Score=28.86 Aligned_cols=52 Identities=25% Similarity=0.623 Sum_probs=34.8
Q ss_pred eec--cccCCCCCCeeecC-CCceechh--------chhhh-----cCCCCCCcccCCcccchhHHHHh
Q 021796 59 ECP--VCLNLMYPPIYQCP-NGHTLCSS--------CKARV-----RTGCPTCRHELGNIRCLALEKVA 111 (307)
Q Consensus 59 ~Cp--iC~~~l~~Pi~~C~-cGH~~C~~--------C~~~~-----~~~CP~Cr~~~~~~~~~~le~~~ 111 (307)
.|. .|..+=.=| +.|. |+++||.. |-.-. ...||.|..++...+..+..+++
T Consensus 10 HCs~~~CkqlDFLP-f~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~~de~~~~~v 77 (250)
T KOG3183|consen 10 HCSVPYCKQLDFLP-FKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTKKDEAPDKVV 77 (250)
T ss_pred ccCcchhhhccccc-eeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCCCCcchhhhh
Confidence 455 688886667 5564 99999985 32111 27899999988776665555544
No 204
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=21.10 E-value=70 Score=27.04 Aligned_cols=45 Identities=13% Similarity=0.239 Sum_probs=29.3
Q ss_pred CeeeeccccCCCCCCeeecCCCc---eechhchhhhc-----CCCCCCcccCC
Q 021796 56 ELLECPVCLNLMYPPIYQCPNGH---TLCSSCKARVR-----TGCPTCRHELG 100 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~C~cGH---~~C~~C~~~~~-----~~CP~Cr~~~~ 100 (307)
..-.|-||.+--.+-..-|.|.. .+=.+|+.+|. ..|+.|+.++.
T Consensus 7 ~~~~CRIC~~~~~~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEYDVVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCeeEecCCCCCCccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 34489999887643334466643 33456888773 67888887654
No 205
>PF14353 CpXC: CpXC protein
Probab=20.93 E-value=69 Score=25.51 Aligned_cols=10 Identities=50% Similarity=1.298 Sum_probs=6.9
Q ss_pred CCCCCcccCC
Q 021796 91 GCPTCRHELG 100 (307)
Q Consensus 91 ~CP~Cr~~~~ 100 (307)
.||.|+..+.
T Consensus 3 tCP~C~~~~~ 12 (128)
T PF14353_consen 3 TCPHCGHEFE 12 (128)
T ss_pred CCCCCCCeeE
Confidence 5788877654
No 206
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.91 E-value=43 Score=35.43 Aligned_cols=32 Identities=22% Similarity=0.634 Sum_probs=25.8
Q ss_pred eeeeccccCCCCCCeeecC-CCceechhchhhh
Q 021796 57 LLECPVCLNLMYPPIYQCP-NGHTLCSSCKARV 88 (307)
Q Consensus 57 ~l~CpiC~~~l~~Pi~~C~-cGH~~C~~C~~~~ 88 (307)
.-.|..|..-+..=...|+ ||+.+|-.|...+
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~ 261 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKW 261 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhc
Confidence 3468999998886556675 9999999998877
No 207
>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=20.78 E-value=24 Score=21.10 Aligned_cols=10 Identities=40% Similarity=1.046 Sum_probs=3.7
Q ss_pred ceechhchhh
Q 021796 78 HTLCSSCKAR 87 (307)
Q Consensus 78 H~~C~~C~~~ 87 (307)
|.||..|-.+
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 4555555443
No 208
>PRK11827 hypothetical protein; Provisional
Probab=20.77 E-value=53 Score=23.02 Aligned_cols=30 Identities=23% Similarity=0.583 Sum_probs=19.0
Q ss_pred cCCCCeeeeccccCCCCCCeeecCCCceechhc
Q 021796 52 NDVHELLECPVCLNLMYPPIYQCPNGHTLCSSC 84 (307)
Q Consensus 52 ~~~~~~l~CpiC~~~l~~Pi~~C~cGH~~C~~C 84 (307)
..+.+.+-||+|...+..- . .-..+.|..|
T Consensus 3 ~~LLeILaCP~ckg~L~~~--~-~~~~Lic~~~ 32 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN--Q-EKQELICKLD 32 (60)
T ss_pred hHHHhheECCCCCCcCeEc--C-CCCeEECCcc
Confidence 4567889999999887521 1 2234555555
No 209
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=20.15 E-value=78 Score=33.38 Aligned_cols=41 Identities=32% Similarity=0.723 Sum_probs=28.4
Q ss_pred CeeeeccccCCCCCCeeec--------CCCceechhchhhh--cCCCCCCccc
Q 021796 56 ELLECPVCLNLMYPPIYQC--------PNGHTLCSSCKARV--RTGCPTCRHE 98 (307)
Q Consensus 56 ~~l~CpiC~~~l~~Pi~~C--------~cGH~~C~~C~~~~--~~~CP~Cr~~ 98 (307)
..+.|..|..++.-| .| .-+.+.|..|-.+. ...||.|...
T Consensus 434 ~~l~C~~Cg~v~~Cp--~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 434 PLLLCRDCGYIAECP--NCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ceeecccCCCcccCC--CCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 456677777776655 23 24678888886553 4889999886
No 210
>PLN02400 cellulose synthase
Probab=20.02 E-value=68 Score=35.13 Aligned_cols=42 Identities=19% Similarity=0.563 Sum_probs=31.8
Q ss_pred eeccccCCCC-----CCeeec-CCCceechhchhhh----cCCCCCCcccCC
Q 021796 59 ECPVCLNLMY-----PPIYQC-PNGHTLCSSCKARV----RTGCPTCRHELG 100 (307)
Q Consensus 59 ~CpiC~~~l~-----~Pi~~C-~cGH~~C~~C~~~~----~~~CP~Cr~~~~ 100 (307)
.|.||.+-+- +|..-| .|+--+|..|.+-- ...||.|+....
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 7999999852 355556 48999999997522 378999998764
Done!