Query 042258
Match_columns 152
No_of_seqs 143 out of 1664
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 04:28:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042258hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 8.6E-17 1.9E-21 126.6 5.7 81 68-151 203-284 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 1.2E-16 2.7E-21 90.9 1.6 44 97-141 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 1.3E-13 2.9E-18 104.2 3.9 67 80-146 157-228 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.4 3.1E-13 6.7E-18 84.9 4.1 46 96-141 19-73 (73)
5 COG5540 RING-finger-containing 99.4 2.5E-13 5.5E-18 104.3 3.8 53 93-146 320-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 3.3E-12 7.3E-17 100.6 2.1 51 94-145 285-345 (491)
7 PLN03208 E3 ubiquitin-protein 99.2 3.5E-11 7.5E-16 87.9 4.8 49 95-147 17-81 (193)
8 PF13920 zf-C3HC4_3: Zinc fing 99.2 2.4E-11 5.2E-16 70.8 3.3 46 96-145 2-48 (50)
9 KOG0317 Predicted E3 ubiquitin 99.2 5.1E-11 1.1E-15 91.1 5.8 48 96-147 239-286 (293)
10 PF12861 zf-Apc11: Anaphase-pr 99.2 2.5E-11 5.4E-16 77.4 3.4 51 95-145 20-82 (85)
11 cd00162 RING RING-finger (Real 99.1 7.4E-11 1.6E-15 66.2 3.8 44 98-144 1-45 (45)
12 PF13923 zf-C3HC4_2: Zinc fing 99.1 7.5E-11 1.6E-15 65.2 3.3 39 99-140 1-39 (39)
13 KOG0320 Predicted E3 ubiquitin 99.1 6.2E-11 1.3E-15 84.9 3.5 51 96-148 131-181 (187)
14 KOG0823 Predicted E3 ubiquitin 99.1 6.4E-11 1.4E-15 88.1 3.5 53 94-150 45-100 (230)
15 PHA02926 zinc finger-like prot 99.1 8.2E-11 1.8E-15 87.2 3.3 53 93-145 167-230 (242)
16 PF14634 zf-RING_5: zinc-RING 99.0 5.1E-10 1.1E-14 63.4 3.4 44 98-142 1-44 (44)
17 PF15227 zf-C3HC4_4: zinc fing 98.9 5.8E-10 1.2E-14 62.6 2.7 38 99-140 1-42 (42)
18 KOG0802 E3 ubiquitin ligase [P 98.9 3E-10 6.4E-15 95.8 1.8 53 94-147 289-343 (543)
19 PF00097 zf-C3HC4: Zinc finger 98.9 1.2E-09 2.6E-14 60.8 2.5 39 99-140 1-41 (41)
20 smart00504 Ubox Modified RING 98.8 5E-09 1.1E-13 63.5 4.0 46 97-146 2-47 (63)
21 smart00184 RING Ring finger. E 98.8 4.3E-09 9.3E-14 56.9 3.2 38 99-140 1-39 (39)
22 COG5194 APC11 Component of SCF 98.8 5.4E-09 1.2E-13 65.3 3.2 29 116-144 52-80 (88)
23 TIGR00599 rad18 DNA repair pro 98.7 8E-09 1.7E-13 83.5 4.0 49 94-146 24-72 (397)
24 KOG1493 Anaphase-promoting com 98.7 3.6E-09 7.8E-14 65.6 -0.2 50 96-145 20-81 (84)
25 KOG0828 Predicted E3 ubiquitin 98.6 9.4E-09 2E-13 83.8 1.7 49 97-146 572-635 (636)
26 KOG1734 Predicted RING-contain 98.6 9E-09 2E-13 78.3 0.5 50 95-145 223-281 (328)
27 COG5219 Uncharacterized conser 98.6 2E-08 4.3E-13 87.3 1.5 53 93-145 1466-1523(1525)
28 COG5574 PEX10 RING-finger-cont 98.5 3.3E-08 7.1E-13 75.0 2.1 48 96-147 215-264 (271)
29 PF11793 FANCL_C: FANCL C-term 98.5 1.3E-08 2.8E-13 63.4 -0.9 52 97-148 3-69 (70)
30 smart00744 RINGv The RING-vari 98.5 1.1E-07 2.4E-12 55.0 3.0 42 98-141 1-49 (49)
31 TIGR00570 cdk7 CDK-activating 98.4 1.8E-07 3.9E-12 73.2 4.0 50 97-147 4-56 (309)
32 KOG0287 Postreplication repair 98.4 7.3E-08 1.6E-12 75.6 1.7 47 97-147 24-70 (442)
33 KOG0804 Cytoplasmic Zn-finger 98.4 1.4E-07 2.9E-12 76.4 2.4 47 96-145 175-222 (493)
34 COG5432 RAD18 RING-finger-cont 98.4 1.7E-07 3.7E-12 72.2 2.5 47 96-146 25-71 (391)
35 PF13445 zf-RING_UBOX: RING-ty 98.4 2.5E-07 5.3E-12 52.0 2.5 38 99-138 1-43 (43)
36 KOG4265 Predicted E3 ubiquitin 98.4 2.3E-07 5.1E-12 73.2 2.9 54 94-151 288-342 (349)
37 KOG2164 Predicted E3 ubiquitin 98.3 3.7E-07 7.9E-12 75.0 2.7 47 96-146 186-237 (513)
38 PF04564 U-box: U-box domain; 98.3 5.8E-07 1.3E-11 56.3 3.0 49 95-147 3-52 (73)
39 KOG2930 SCF ubiquitin ligase, 98.3 6.8E-07 1.5E-11 58.6 2.6 47 97-143 47-106 (114)
40 KOG0827 Predicted E3 ubiquitin 98.2 5.9E-07 1.3E-11 71.6 2.5 50 96-145 4-56 (465)
41 PF14835 zf-RING_6: zf-RING of 98.2 2.4E-07 5.3E-12 55.9 -0.1 43 97-144 8-50 (65)
42 KOG2177 Predicted E3 ubiquitin 98.2 7.8E-07 1.7E-11 68.2 2.1 44 95-142 12-55 (386)
43 KOG1645 RING-finger-containing 98.1 2.9E-06 6.4E-11 68.1 3.2 48 96-143 4-54 (463)
44 KOG0311 Predicted E3 ubiquitin 98.1 4.8E-07 1E-11 71.3 -1.4 54 95-151 42-96 (381)
45 KOG0978 E3 ubiquitin ligase in 98.0 2.6E-06 5.6E-11 72.9 1.1 49 95-147 642-691 (698)
46 KOG4172 Predicted E3 ubiquitin 97.9 2E-06 4.3E-11 50.1 -0.1 46 97-146 8-55 (62)
47 KOG0825 PHD Zn-finger protein 97.9 1.9E-06 4.2E-11 74.0 -0.4 50 97-147 124-173 (1134)
48 KOG0824 Predicted E3 ubiquitin 97.7 1.6E-05 3.4E-10 61.7 2.1 50 96-149 7-57 (324)
49 KOG1039 Predicted E3 ubiquitin 97.7 1.8E-05 4E-10 63.1 2.0 51 94-144 159-220 (344)
50 KOG4445 Uncharacterized conser 97.7 1.4E-05 3E-10 62.0 0.9 51 95-146 114-187 (368)
51 KOG4159 Predicted E3 ubiquitin 97.7 2.6E-05 5.5E-10 63.4 2.4 51 93-147 81-131 (398)
52 KOG0297 TNF receptor-associate 97.6 3.8E-05 8.3E-10 62.6 3.0 54 94-150 19-72 (391)
53 KOG1785 Tyrosine kinase negati 97.6 1.9E-05 4.2E-10 63.5 1.1 50 97-150 370-421 (563)
54 PF11789 zf-Nse: Zinc-finger o 97.4 8.6E-05 1.9E-09 44.2 1.8 41 96-139 11-53 (57)
55 KOG1941 Acetylcholine receptor 97.4 5.5E-05 1.2E-09 60.7 0.8 44 97-141 366-412 (518)
56 KOG1428 Inhibitor of type V ad 97.3 0.00013 2.9E-09 66.7 2.9 65 80-145 3470-3544(3738)
57 KOG4692 Predicted E3 ubiquitin 97.2 0.00041 9E-09 55.2 4.3 48 94-145 420-467 (489)
58 KOG2660 Locus-specific chromos 97.2 7.8E-05 1.7E-09 58.5 -0.3 50 95-147 14-63 (331)
59 PF14570 zf-RING_4: RING/Ubox 97.2 0.00036 7.7E-09 39.9 2.4 45 99-144 1-47 (48)
60 COG5152 Uncharacterized conser 97.1 0.00016 3.5E-09 53.2 0.8 50 97-150 197-246 (259)
61 PHA02862 5L protein; Provision 97.0 0.00061 1.3E-08 47.7 2.7 43 97-144 3-52 (156)
62 KOG3039 Uncharacterized conser 96.9 0.00095 2.1E-08 50.7 3.2 54 95-148 220-273 (303)
63 KOG1952 Transcription factor N 96.8 0.00049 1.1E-08 60.0 1.6 48 96-143 191-245 (950)
64 KOG3970 Predicted E3 ubiquitin 96.8 0.0015 3.2E-08 49.1 3.5 51 96-148 50-108 (299)
65 COG5236 Uncharacterized conser 96.8 0.0023 5E-08 50.9 4.6 58 82-143 47-106 (493)
66 PF05883 Baculo_RING: Baculovi 96.8 0.00089 1.9E-08 46.4 2.0 36 97-133 27-68 (134)
67 KOG2879 Predicted E3 ubiquitin 96.7 0.0022 4.7E-08 49.4 4.0 49 94-145 237-287 (298)
68 KOG1813 Predicted E3 ubiquitin 96.7 0.00072 1.6E-08 52.5 1.1 48 97-148 242-289 (313)
69 KOG3268 Predicted E3 ubiquitin 96.5 0.0016 3.4E-08 47.2 2.2 51 98-148 167-231 (234)
70 PF10367 Vps39_2: Vacuolar sor 96.5 0.0011 2.3E-08 43.9 1.2 34 93-128 75-108 (109)
71 PF08746 zf-RING-like: RING-li 96.5 0.0021 4.5E-08 36.0 1.9 41 99-140 1-43 (43)
72 PF10272 Tmpp129: Putative tra 96.4 0.011 2.5E-07 47.5 6.4 28 118-145 311-351 (358)
73 KOG1571 Predicted E3 ubiquitin 96.4 0.0016 3.5E-08 51.8 1.5 50 92-148 301-350 (355)
74 PF12906 RINGv: RING-variant d 96.4 0.0024 5.1E-08 36.4 1.7 40 99-140 1-47 (47)
75 PHA02825 LAP/PHD finger-like p 96.3 0.0045 9.7E-08 44.1 3.3 45 95-144 7-58 (162)
76 PHA03096 p28-like protein; Pro 96.3 0.0023 5E-08 50.0 1.8 37 97-133 179-219 (284)
77 KOG1002 Nucleotide excision re 96.2 0.0017 3.8E-08 54.2 1.0 48 94-145 534-586 (791)
78 KOG0801 Predicted E3 ubiquitin 96.2 0.0018 4E-08 46.2 0.7 27 97-124 178-204 (205)
79 KOG4739 Uncharacterized protei 96.0 0.003 6.6E-08 47.8 1.4 43 98-144 5-47 (233)
80 PF04641 Rtf2: Rtf2 RING-finge 95.9 0.031 6.6E-07 43.2 6.5 53 94-147 111-163 (260)
81 PF14446 Prok-RING_1: Prokaryo 95.8 0.015 3.2E-07 34.1 3.3 34 96-129 5-38 (54)
82 KOG0827 Predicted E3 ubiquitin 95.8 0.00041 8.8E-09 55.8 -4.5 51 97-148 197-248 (465)
83 COG5222 Uncharacterized conser 95.8 0.022 4.9E-07 44.6 5.1 43 97-142 275-318 (427)
84 PF03854 zf-P11: P-11 zinc fin 95.7 0.0038 8.1E-08 35.4 0.6 31 118-148 18-49 (50)
85 KOG0826 Predicted E3 ubiquitin 95.7 0.018 3.8E-07 45.6 4.4 46 95-143 299-344 (357)
86 KOG4185 Predicted E3 ubiquitin 95.6 0.0078 1.7E-07 47.1 2.3 47 97-144 4-54 (296)
87 KOG1814 Predicted E3 ubiquitin 95.5 0.0084 1.8E-07 48.7 2.2 45 97-142 185-237 (445)
88 KOG4275 Predicted E3 ubiquitin 95.5 0.0017 3.6E-08 50.5 -1.8 43 96-146 300-343 (350)
89 PF14447 Prok-RING_4: Prokaryo 95.4 0.0069 1.5E-07 35.5 1.0 44 97-146 8-51 (55)
90 KOG1940 Zn-finger protein [Gen 95.1 0.013 2.9E-07 45.5 2.1 45 97-142 159-204 (276)
91 KOG2114 Vacuolar assembly/sort 94.9 0.0091 2E-07 52.4 0.6 43 97-145 841-883 (933)
92 KOG3002 Zn finger protein [Gen 94.8 0.018 4E-07 45.4 2.1 41 97-145 49-91 (299)
93 KOG2817 Predicted E3 ubiquitin 94.3 0.061 1.3E-06 43.6 3.9 49 93-142 331-382 (394)
94 KOG2034 Vacuolar sorting prote 94.2 0.022 4.8E-07 50.3 1.3 37 94-132 815-851 (911)
95 KOG3053 Uncharacterized conser 94.0 0.025 5.4E-07 43.3 1.1 49 95-144 19-81 (293)
96 PF05290 Baculo_IE-1: Baculovi 93.9 0.045 9.7E-07 37.9 2.2 54 95-148 79-135 (140)
97 KOG1001 Helicase-like transcri 93.8 0.025 5.3E-07 49.4 0.9 46 97-147 455-502 (674)
98 KOG0309 Conserved WD40 repeat- 93.6 0.042 9.1E-07 48.0 2.0 24 116-139 1046-1069(1081)
99 KOG3800 Predicted E3 ubiquitin 93.4 0.076 1.6E-06 41.4 2.8 49 98-147 2-53 (300)
100 COG5175 MOT2 Transcriptional r 93.1 0.071 1.5E-06 42.6 2.3 49 97-146 15-65 (480)
101 KOG0298 DEAD box-containing he 92.8 0.035 7.7E-07 50.9 0.3 44 96-142 1153-1196(1394)
102 KOG1100 Predicted E3 ubiquitin 92.6 0.062 1.3E-06 40.2 1.3 44 99-150 161-205 (207)
103 PF07800 DUF1644: Protein of u 92.5 0.13 2.8E-06 36.8 2.8 35 96-131 2-46 (162)
104 KOG3899 Uncharacterized conser 92.3 0.079 1.7E-06 41.5 1.6 28 118-145 325-365 (381)
105 COG5183 SSM4 Protein involved 92.0 0.13 2.9E-06 45.4 2.9 48 96-145 12-66 (1175)
106 KOG2932 E3 ubiquitin ligase in 91.5 0.071 1.5E-06 42.0 0.6 44 97-145 91-134 (389)
107 PF07975 C1_4: TFIIH C1-like d 89.7 0.33 7.2E-06 28.1 2.2 43 99-141 2-50 (51)
108 KOG4718 Non-SMC (structural ma 89.7 0.19 4.2E-06 37.5 1.5 42 97-141 182-223 (235)
109 COG5220 TFB3 Cdk activating ki 86.9 0.32 6.9E-06 37.2 1.1 47 96-142 10-61 (314)
110 KOG3161 Predicted E3 ubiquitin 86.7 0.23 5E-06 42.9 0.4 43 97-142 12-54 (861)
111 KOG1812 Predicted E3 ubiquitin 86.7 0.25 5.4E-06 40.4 0.6 37 96-133 146-183 (384)
112 KOG1609 Protein involved in mR 86.5 0.69 1.5E-05 36.1 2.9 47 97-144 79-133 (323)
113 KOG4367 Predicted Zn-finger pr 86.4 0.41 8.8E-06 39.7 1.6 34 95-132 3-36 (699)
114 KOG4362 Transcriptional regula 86.0 0.21 4.5E-06 43.5 -0.3 46 97-146 22-70 (684)
115 KOG0269 WD40 repeat-containing 85.4 1 2.2E-05 39.6 3.6 41 97-139 780-820 (839)
116 COG5109 Uncharacterized conser 84.6 1.3 2.8E-05 35.3 3.5 61 80-141 320-383 (396)
117 smart00249 PHD PHD zinc finger 84.0 0.86 1.9E-05 24.6 1.8 31 98-129 1-31 (47)
118 PF13901 DUF4206: Domain of un 83.6 1 2.2E-05 33.5 2.5 40 97-142 153-197 (202)
119 TIGR00622 ssl1 transcription f 82.9 2.2 4.8E-05 28.8 3.6 46 97-142 56-111 (112)
120 KOG0825 PHD Zn-finger protein 82.8 0.81 1.8E-05 40.6 1.9 48 97-144 97-153 (1134)
121 PF06844 DUF1244: Protein of u 82.1 0.87 1.9E-05 27.7 1.3 11 122-132 12-22 (68)
122 KOG0802 E3 ubiquitin ligase [P 82.0 1.3 2.9E-05 37.8 2.9 44 97-148 480-523 (543)
123 PF10571 UPF0547: Uncharacteri 81.4 1 2.2E-05 22.3 1.2 23 98-122 2-24 (26)
124 PF13719 zinc_ribbon_5: zinc-r 80.5 1.1 2.4E-05 23.9 1.3 26 98-123 4-36 (37)
125 PF00628 PHD: PHD-finger; Int 79.6 0.96 2.1E-05 25.5 0.9 43 98-141 1-49 (51)
126 smart00132 LIM Zinc-binding do 79.2 2.4 5.2E-05 21.8 2.4 37 99-145 2-38 (39)
127 PF14569 zf-UDP: Zinc-binding 78.0 3.9 8.5E-05 25.7 3.3 51 95-145 8-62 (80)
128 PF02891 zf-MIZ: MIZ/SP-RING z 77.8 3.1 6.8E-05 23.7 2.7 43 97-143 3-50 (50)
129 KOG2068 MOT2 transcription fac 77.7 2.3 4.9E-05 34.0 2.8 51 97-148 250-301 (327)
130 PF13717 zinc_ribbon_4: zinc-r 76.6 2.1 4.6E-05 22.7 1.6 26 98-123 4-36 (36)
131 KOG1829 Uncharacterized conser 76.1 0.92 2E-05 39.0 0.2 28 111-141 530-557 (580)
132 PLN02189 cellulose synthase 75.4 3.6 7.9E-05 37.7 3.7 51 95-145 33-87 (1040)
133 KOG1815 Predicted E3 ubiquitin 72.9 1.9 4.2E-05 35.9 1.4 36 95-133 69-104 (444)
134 KOG3113 Uncharacterized conser 72.3 4.2 9.1E-05 31.4 2.9 49 97-147 112-160 (293)
135 KOG2807 RNA polymerase II tran 72.2 4.6 0.0001 32.3 3.2 46 97-143 331-376 (378)
136 PLN02436 cellulose synthase A 72.0 4.9 0.00011 37.1 3.7 51 95-145 35-89 (1094)
137 PF14311 DUF4379: Domain of un 69.9 3.8 8.3E-05 23.7 1.8 27 113-140 29-55 (55)
138 PF14169 YdjO: Cold-inducible 69.7 2.7 5.8E-05 25.1 1.1 15 134-148 39-53 (59)
139 KOG1812 Predicted E3 ubiquitin 69.6 2.9 6.4E-05 34.2 1.7 43 97-140 307-351 (384)
140 PF01363 FYVE: FYVE zinc finge 69.3 1.9 4.2E-05 25.9 0.5 35 96-130 9-43 (69)
141 PF00412 LIM: LIM domain; Int 68.9 3.9 8.4E-05 23.4 1.7 21 118-146 18-38 (58)
142 cd00065 FYVE FYVE domain; Zinc 67.6 4.8 0.0001 23.1 1.9 36 97-132 3-38 (57)
143 KOG3005 GIY-YIG type nuclease 65.6 9.1 0.0002 29.8 3.5 48 97-144 183-242 (276)
144 PLN02195 cellulose synthase A 65.4 11 0.00025 34.5 4.5 52 95-146 5-60 (977)
145 PLN02638 cellulose synthase A 64.4 9.4 0.0002 35.3 3.9 51 95-145 16-70 (1079)
146 PF04423 Rad50_zn_hook: Rad50 64.2 2.3 5E-05 24.5 0.1 13 135-147 21-33 (54)
147 KOG2066 Vacuolar assembly/sort 64.0 2.8 6.1E-05 37.2 0.6 42 97-140 785-830 (846)
148 PF11023 DUF2614: Protein of u 63.8 9.1 0.0002 25.8 2.8 30 114-149 71-100 (114)
149 PF10083 DUF2321: Uncharacteri 63.1 2.5 5.5E-05 30.1 0.1 47 101-150 9-55 (158)
150 PF10497 zf-4CXXC_R1: Zinc-fin 61.7 14 0.0003 24.5 3.5 47 96-142 7-69 (105)
151 PLN02915 cellulose synthase A 61.2 13 0.00027 34.4 4.1 51 95-145 14-68 (1044)
152 PF06906 DUF1272: Protein of u 61.1 18 0.00039 21.3 3.4 45 97-146 6-53 (57)
153 smart00064 FYVE Protein presen 60.5 9.2 0.0002 22.8 2.3 36 97-132 11-46 (68)
154 KOG3842 Adaptor protein Pellin 60.4 12 0.00027 29.9 3.5 29 117-145 377-414 (429)
155 PF06750 DiS_P_DiS: Bacterial 59.7 6.2 0.00013 25.6 1.5 38 96-146 33-70 (92)
156 PF07649 C1_3: C1-like domain; 59.1 10 0.00022 18.9 2.0 29 98-127 2-30 (30)
157 PF05605 zf-Di19: Drought indu 58.4 0.73 1.6E-05 26.7 -2.8 39 97-146 3-43 (54)
158 COG3492 Uncharacterized protei 57.8 5.3 0.00012 25.9 0.9 12 122-133 43-54 (104)
159 PLN02400 cellulose synthase 56.1 10 0.00023 35.1 2.8 51 95-145 35-89 (1085)
160 PLN02248 cellulose synthase-li 55.3 19 0.00042 33.6 4.2 48 96-144 124-176 (1135)
161 PF04216 FdhE: Protein involve 54.2 1.4 2.9E-05 34.6 -2.8 46 97-143 173-220 (290)
162 PHA02610 uvsY.-2 hypothetical 53.9 4 8.6E-05 23.6 -0.1 17 135-151 2-18 (53)
163 KOG2113 Predicted RNA binding 52.6 15 0.00032 29.4 2.8 49 96-150 343-392 (394)
164 cd00350 rubredoxin_like Rubred 52.4 7.5 0.00016 20.0 0.8 19 118-142 7-25 (33)
165 PF13832 zf-HC5HC2H_2: PHD-zin 48.4 15 0.00033 24.1 2.0 32 96-130 55-88 (110)
166 smart00647 IBR In Between Ring 47.7 5 0.00011 23.4 -0.4 19 112-130 40-58 (64)
167 PF09538 FYDLN_acid: Protein o 47.5 16 0.00035 24.4 2.0 29 97-125 10-39 (108)
168 KOG2231 Predicted E3 ubiquitin 45.7 19 0.0004 31.8 2.6 46 98-147 2-54 (669)
169 PF09723 Zn-ribbon_8: Zinc rib 44.5 3.9 8.5E-05 22.4 -1.1 25 117-142 10-34 (42)
170 PRK11088 rrmA 23S rRNA methylt 44.0 16 0.00034 28.1 1.8 26 97-123 3-28 (272)
171 COG4306 Uncharacterized protei 43.8 9.3 0.0002 26.4 0.4 27 121-150 29-55 (160)
172 KOG3579 Predicted E3 ubiquitin 43.7 17 0.00036 28.7 1.8 48 97-145 269-328 (352)
173 KOG3039 Uncharacterized conser 43.6 19 0.00042 27.8 2.1 32 97-132 44-75 (303)
174 KOG2041 WD40 repeat protein [G 43.4 19 0.00041 32.2 2.3 47 95-145 1130-1185(1189)
175 PF10886 DUF2685: Protein of u 43.0 7.4 0.00016 22.7 -0.1 16 136-151 3-18 (54)
176 PF07282 OrfB_Zn_ribbon: Putat 42.8 21 0.00047 21.2 1.9 33 97-129 29-63 (69)
177 COG1545 Predicted nucleic-acid 41.8 16 0.00036 25.5 1.4 23 114-144 31-53 (140)
178 KOG2979 Protein involved in DN 41.2 16 0.00034 28.4 1.3 40 97-139 177-218 (262)
179 PF07227 DUF1423: Protein of u 40.8 20 0.00044 29.9 2.0 33 97-130 129-164 (446)
180 PF07191 zinc-ribbons_6: zinc- 40.4 7.6 0.00016 24.0 -0.4 39 98-145 3-41 (70)
181 PRK11827 hypothetical protein; 40.1 9.7 0.00021 22.7 0.0 19 129-147 3-21 (60)
182 PF13771 zf-HC5HC2H: PHD-like 39.7 23 0.0005 22.2 1.8 31 97-129 37-68 (90)
183 PF09943 DUF2175: Uncharacteri 38.9 30 0.00064 22.9 2.2 33 98-132 4-36 (101)
184 KOG4443 Putative transcription 38.6 15 0.00033 32.1 1.0 46 97-142 19-70 (694)
185 smart00734 ZnF_Rad18 Rad18-lik 38.0 17 0.00036 17.7 0.7 9 136-144 3-11 (26)
186 PF13240 zinc_ribbon_2: zinc-r 37.1 5.1 0.00011 19.0 -1.2 8 99-106 2-9 (23)
187 PF09889 DUF2116: Uncharacteri 36.5 24 0.00052 21.0 1.3 15 133-147 2-16 (59)
188 PF02318 FYVE_2: FYVE-type zin 36.4 22 0.00048 23.9 1.4 34 95-129 53-88 (118)
189 COG5627 MMS21 DNA repair prote 35.3 19 0.00041 27.6 1.0 40 97-139 190-231 (275)
190 PF03119 DNA_ligase_ZBD: NAD-d 35.0 12 0.00026 18.6 -0.1 11 136-146 1-11 (28)
191 PF09237 GAGA: GAGA factor; I 34.5 10 0.00022 22.0 -0.5 8 97-104 25-32 (54)
192 KOG1729 FYVE finger containing 34.2 6.8 0.00015 30.9 -1.6 36 97-133 215-250 (288)
193 PF03107 C1_2: C1 domain; Int 33.8 26 0.00056 17.5 1.0 28 98-126 2-29 (30)
194 TIGR01562 FdhE formate dehydro 33.7 10 0.00022 30.2 -0.8 46 97-143 185-233 (305)
195 KOG1538 Uncharacterized conser 33.4 22 0.00047 31.7 1.1 34 113-146 1045-1078(1081)
196 PF06677 Auto_anti-p27: Sjogre 33.1 28 0.0006 19.1 1.1 18 129-146 12-29 (41)
197 TIGR00686 phnA alkylphosphonat 32.7 29 0.00063 23.3 1.4 26 98-123 4-30 (109)
198 PF10235 Cript: Microtubule-as 32.5 31 0.00067 22.4 1.5 37 97-146 45-81 (90)
199 KOG1245 Chromatin remodeling c 32.4 17 0.00038 34.8 0.4 49 95-144 1107-1159(1404)
200 KOG4323 Polycomb-like PHD Zn-f 32.3 41 0.00088 28.4 2.5 47 96-142 168-223 (464)
201 KOG4451 Uncharacterized conser 31.4 31 0.00068 26.4 1.5 24 122-145 251-274 (286)
202 PRK01343 zinc-binding protein; 31.2 35 0.00077 20.1 1.4 10 135-144 10-19 (57)
203 PRK04023 DNA polymerase II lar 31.0 32 0.0007 31.9 1.8 46 97-148 627-677 (1121)
204 KOG0956 PHD finger protein AF1 31.0 23 0.0005 31.4 0.9 47 96-143 117-180 (900)
205 PF06937 EURL: EURL protein; 31.0 50 0.0011 25.8 2.6 48 97-146 31-80 (285)
206 PF12773 DZR: Double zinc ribb 30.4 54 0.0012 18.1 2.2 14 134-147 29-42 (50)
207 PF10146 zf-C4H2: Zinc finger- 30.2 38 0.00082 25.8 1.9 22 123-144 197-218 (230)
208 COG3813 Uncharacterized protei 29.9 43 0.00094 20.8 1.7 26 119-146 28-53 (84)
209 COG2835 Uncharacterized conser 29.8 25 0.00054 21.0 0.6 11 135-145 9-19 (60)
210 PRK10220 hypothetical protein; 29.5 43 0.00093 22.5 1.8 26 98-123 5-31 (111)
211 COG4068 Uncharacterized protei 29.0 35 0.00076 20.3 1.2 14 134-147 8-21 (64)
212 PRK03564 formate dehydrogenase 28.2 16 0.00035 29.1 -0.5 46 96-142 187-234 (309)
213 TIGR02300 FYDLN_acid conserved 27.6 42 0.00092 23.2 1.6 29 97-125 10-39 (129)
214 KOG1244 Predicted transcriptio 27.6 8.4 0.00018 30.2 -2.0 48 97-145 282-333 (336)
215 TIGR00627 tfb4 transcription f 27.5 48 0.001 26.0 2.1 9 135-143 270-278 (279)
216 PF08274 PhnA_Zn_Ribbon: PhnA 27.2 30 0.00066 17.6 0.6 25 98-122 4-29 (30)
217 PF11682 DUF3279: Protein of u 26.7 41 0.00088 23.3 1.4 21 118-147 103-123 (128)
218 KOG2169 Zn-finger transcriptio 26.3 47 0.001 29.2 2.0 40 97-144 307-355 (636)
219 PRK05978 hypothetical protein; 26.0 41 0.00089 23.9 1.3 22 119-145 42-63 (148)
220 PF00130 C1_1: Phorbol esters/ 25.2 46 0.00099 18.5 1.2 33 96-129 11-45 (53)
221 PF13453 zf-TFIIB: Transcripti 25.0 33 0.00072 18.3 0.6 10 136-145 1-10 (41)
222 KOG3799 Rab3 effector RIM1 and 24.6 22 0.00047 24.9 -0.3 40 95-142 64-115 (169)
223 PF05191 ADK_lid: Adenylate ki 24.5 36 0.00079 17.9 0.6 31 114-146 3-33 (36)
224 KOG4218 Nuclear hormone recept 24.2 33 0.00071 28.0 0.6 48 95-143 14-76 (475)
225 PF03966 Trm112p: Trm112p-like 24.1 53 0.0011 19.7 1.4 9 114-122 55-63 (68)
226 smart00109 C1 Protein kinase C 23.8 71 0.0015 17.0 1.9 32 97-129 12-44 (49)
227 smart00531 TFIIE Transcription 23.2 83 0.0018 21.9 2.5 13 134-146 123-135 (147)
228 PRK02935 hypothetical protein; 22.8 1.1E+02 0.0024 20.4 2.8 17 131-147 83-99 (110)
229 PF04710 Pellino: Pellino; In 22.8 28 0.00061 28.7 0.0 49 96-145 328-401 (416)
230 KOG0824 Predicted E3 ubiquitin 22.6 27 0.00058 27.8 -0.2 45 97-144 106-150 (324)
231 PF05502 Dynactin_p62: Dynacti 22.4 47 0.001 28.2 1.3 12 97-108 27-38 (483)
232 COG2816 NPY1 NTP pyrophosphohy 21.8 21 0.00045 28.1 -0.9 29 119-147 110-142 (279)
233 KOG3726 Uncharacterized conser 21.7 49 0.0011 29.3 1.2 40 97-141 655-696 (717)
234 TIGR02098 MJ0042_CXXC MJ0042 f 21.6 89 0.0019 16.1 1.9 10 98-107 4-13 (38)
235 COG0675 Transposase and inacti 21.3 91 0.002 24.0 2.6 28 96-126 309-336 (364)
236 PRK14714 DNA polymerase II lar 21.1 42 0.00091 31.9 0.7 34 113-147 668-705 (1337)
237 PF15353 HECA: Headcase protei 21.0 62 0.0013 21.6 1.3 13 118-130 40-52 (107)
238 COG4847 Uncharacterized protei 20.7 1.4E+02 0.003 19.6 2.8 35 97-133 7-41 (103)
239 PRK00420 hypothetical protein; 20.5 80 0.0017 21.3 1.8 10 135-144 41-50 (112)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=8.6e-17 Score=126.56 Aligned_cols=81 Identities=33% Similarity=0.818 Sum_probs=67.4
Q ss_pred CCCCCCCCccccCCCceeecCCCCCCCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCC-CCCCCcCccCcc
Q 042258 68 ETQGLCPQELPVSLPQMSYKNGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHR-LNCPVCRNPLCR 146 (152)
Q Consensus 68 ~~~~~~~~~i~~~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~CR~~l~~ 146 (152)
...++.+..+. ++|..++......... ..|+||+++|..|++++.|| |+|.||..||++||... ..||+||.++.+
T Consensus 203 ~~~r~~k~~l~-~~p~~~f~~~~~~~~~-~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 203 RRNRLIKRLLK-KLPVRTFTKGDDEDAT-DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhHHHHHh-hCCcEEeccccccCCC-ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 44556666677 9999999877744443 68999999999999999999 99999999999999876 559999999988
Q ss_pred CCCCC
Q 042258 147 NLELD 151 (152)
Q Consensus 147 ~~~~~ 151 (152)
....+
T Consensus 280 ~~~~~ 284 (348)
T KOG4628|consen 280 DSGSE 284 (348)
T ss_pred CCCCC
Confidence 76653
No 2
>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=99.62 E-value=1.2e-16 Score=90.91 Aligned_cols=44 Identities=50% Similarity=1.308 Sum_probs=40.0
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
.+|+||++++..++.+..++ |||.||.+|+.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 36999999998888889998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.41 E-value=1.3e-13 Score=104.20 Aligned_cols=67 Identities=31% Similarity=0.831 Sum_probs=49.2
Q ss_pred CCCceeecCCCC-CCCCCccCccccccccCCC----eeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 80 SLPQMSYKNGET-EMTSNTDCAICLDDFIEGE----TCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 80 ~lp~~~~~~~~~-~~~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
.+|.....-... ....+.+|+||++.+.+++ ....+++|+|.||..||.+|+..+.+||+||.++..
T Consensus 157 ~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 157 TIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred hcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 666665432221 2234588999999986543 123555699999999999999999999999998763
No 4
>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=99.40 E-value=3.1e-13 Score=84.92 Aligned_cols=46 Identities=46% Similarity=1.097 Sum_probs=35.4
Q ss_pred CccCccccccccCC---------CeeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 96 NTDCAICLDDFIEG---------ETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 96 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
+..|+||++.+.+. +-...+++|||.||..||.+||..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 35699999999432 12233444999999999999999999999998
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=2.5e-13 Score=104.27 Aligned_cols=53 Identities=38% Similarity=1.028 Sum_probs=47.5
Q ss_pred CCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCcc
Q 042258 93 MTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLCR 146 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~~ 146 (152)
...+-+|+|||+.|..++.++++| |+|.||..|+.+|+. -+..||+||.+++.
T Consensus 320 a~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 345578999999998888999999 999999999999998 57889999999875
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=3.3e-12 Score=100.56 Aligned_cols=51 Identities=43% Similarity=1.184 Sum_probs=42.4
Q ss_pred CCCccCccccccccCCC----------eeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 94 TSNTDCAICLDDFIEGE----------TCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
.++..|.||++++-... ....+| |||.+|.+|+..|++++.+||.||.++.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 45578999999953321 346788 9999999999999999999999999854
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.17 E-value=3.5e-11 Score=87.92 Aligned_cols=49 Identities=33% Similarity=0.826 Sum_probs=39.8
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC----------------CCCCCCcCccCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH----------------RLNCPVCRNPLCRN 147 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----------------~~~CP~CR~~l~~~ 147 (152)
+..+|+||++.+.++ ..++ |||.||..||.+|+.. ...||+||+++...
T Consensus 17 ~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 17 GDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 457899999998554 5566 9999999999999852 35799999998654
No 8
>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=99.17 E-value=2.4e-11 Score=70.77 Aligned_cols=46 Identities=33% Similarity=0.959 Sum_probs=38.3
Q ss_pred CccCccccccccCCCeeeecCCCCcc-ccHHhHHHHHhCCCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHI-FHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
+..|.||++... ....+| |||. |+..|+..|+.+...||+||+++.
T Consensus 2 ~~~C~iC~~~~~---~~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR---DVVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS---SEEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCC---ceEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 357999999863 456777 9999 999999999999999999999875
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=5.1e-11 Score=91.13 Aligned_cols=48 Identities=31% Similarity=0.902 Sum_probs=42.0
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
...|.+|++..+++ ..+| |||+||..||..|...+..||+||.+...+
T Consensus 239 ~~kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 239 TRKCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 37899999987554 5677 999999999999999999999999987654
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.16 E-value=2.5e-11 Score=77.42 Aligned_cols=51 Identities=37% Similarity=0.912 Sum_probs=38.8
Q ss_pred CCccCccccccccC--------CCe-eeecCCCCccccHHhHHHHHhC---CCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFIE--------GET-CKSFPECNHIFHLHCIDQWLKH---RLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~~--------~~~-~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~l~ 145 (152)
.++.|.||...|.. ++. ..+..+|+|.||..||.+|+.+ +..||+||++..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 35779999888853 122 2334469999999999999986 578999999764
No 11
>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=99.12 E-value=7.4e-11 Score=66.22 Aligned_cols=44 Identities=48% Similarity=1.278 Sum_probs=35.7
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHhC-CCCCCCcCccC
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPL 144 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l 144 (152)
+|+||++.+. +.....+ |||.||..|+..|+.. +..||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999982 2333444 9999999999999997 78899999864
No 12
>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=99.11 E-value=7.5e-11 Score=65.17 Aligned_cols=39 Identities=41% Similarity=1.078 Sum_probs=31.7
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 140 (152)
|+||++.+.+ .+..++ |||.||..|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 7999998855 234565 99999999999999999999998
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=6.2e-11 Score=84.91 Aligned_cols=51 Identities=33% Similarity=0.750 Sum_probs=42.4
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
...|+|||+.+..... +-.+|||+||+.||...+++...||+||+.+..+.
T Consensus 131 ~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 3889999999865432 33459999999999999999999999999877654
No 14
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=6.4e-11 Score=88.14 Aligned_cols=53 Identities=32% Similarity=0.708 Sum_probs=42.5
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC---CCCCCCcCccCccCCCC
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH---RLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~l~~~~~~ 150 (152)
....+|.||++.-+++ +++. |||.||..||.+||.. ++.||+||..+..+..|
T Consensus 45 ~~~FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCceeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence 3448999999986444 5566 9999999999999985 56799999998776543
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.08 E-value=8.2e-11 Score=87.20 Aligned_cols=53 Identities=32% Similarity=0.849 Sum_probs=40.3
Q ss_pred CCCCccCccccccccCC-----CeeeecCCCCccccHHhHHHHHhCC------CCCCCcCccCc
Q 042258 93 MTSNTDCAICLDDFIEG-----ETCKSFPECNHIFHLHCIDQWLKHR------LNCPVCRNPLC 145 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~~-----~~~~~l~~C~H~fh~~Ci~~wl~~~------~~CP~CR~~l~ 145 (152)
.+.+.+|+||++..-.. .....+++|+|.||..||..|.+.+ .+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 34458899999986322 2235677799999999999998753 45999998764
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.98 E-value=5.1e-10 Score=63.42 Aligned_cols=44 Identities=30% Similarity=0.865 Sum_probs=37.0
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
.|++|++.+........++ |||.|+..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4999999995545566676 9999999999999866789999985
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.95 E-value=5.8e-10 Score=62.58 Aligned_cols=38 Identities=42% Similarity=1.042 Sum_probs=28.7
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHhCC----CCCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHR----LNCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~C 140 (152)
|+||++.|.++ ..++ |||.|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999554 7787 99999999999999763 469987
No 18
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=3e-10 Score=95.78 Aligned_cols=53 Identities=38% Similarity=0.947 Sum_probs=44.7
Q ss_pred CCCccCccccccccCCCe--eeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 94 TSNTDCAICLDDFIEGET--CKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~--~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
..+..|+||++.+..+.+ ...++ |+|.||..|+..|++.+.+||.||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 345789999999977544 56788 999999999999999999999999955443
No 19
>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=98.88 E-value=1.2e-09 Score=60.79 Aligned_cols=39 Identities=38% Similarity=1.114 Sum_probs=32.5
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHh--CCCCCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK--HRLNCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~C 140 (152)
|+||++.+..+. ..++ |||.||..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 789999985542 3566 999999999999998 56789998
No 20
>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=98.82 E-value=5e-09 Score=63.51 Aligned_cols=46 Identities=24% Similarity=0.473 Sum_probs=39.9
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
..|+||.+.+.++ ..++ |||.|++.||.+|+..+..||+|+.++..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 3699999998765 5566 99999999999999998999999998854
No 21
>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=98.82 E-value=4.3e-09 Score=56.90 Aligned_cols=38 Identities=42% Similarity=1.161 Sum_probs=31.7
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHh-CCCCCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~C 140 (152)
|+||++.. .....++ |+|.||..|+..|+. .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78998883 4456677 999999999999998 67779987
No 22
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.78 E-value=5.4e-09 Score=65.33 Aligned_cols=29 Identities=45% Similarity=0.956 Sum_probs=26.6
Q ss_pred CCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 116 PECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 116 ~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
..|+|.||..||.+||.++..||++|++.
T Consensus 52 G~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 52 GVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred EecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 34999999999999999999999999864
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.74 E-value=8e-09 Score=83.53 Aligned_cols=49 Identities=31% Similarity=0.613 Sum_probs=41.5
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
.....|+||.+.|... ..++ |||.||..||..|+.....||+||..+..
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 3447899999999654 4566 99999999999999998899999998764
No 24
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=3.6e-09 Score=65.57 Aligned_cols=50 Identities=36% Similarity=0.827 Sum_probs=36.0
Q ss_pred CccCccccccccC--------CCe-eeecCCCCccccHHhHHHHHhC---CCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIE--------GET-CKSFPECNHIFHLHCIDQWLKH---RLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~--------~~~-~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~l~ 145 (152)
+++|.||.-.|.. ++. ..++..|.|.||..||.+|+.. +..||+||+...
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3578888877743 122 1233459999999999999975 567999998653
No 25
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=9.4e-09 Score=83.84 Aligned_cols=49 Identities=43% Similarity=0.973 Sum_probs=38.6
Q ss_pred ccCccccccccCC---C-----------eeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEG---E-----------TCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~---~-----------~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~ 146 (152)
.+|+|||....-. . ....+| |+|+||..|+.+|+.+ +-.||+||.+|+.
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 6899999987321 1 123346 9999999999999996 4599999999874
No 26
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=9e-09 Score=78.28 Aligned_cols=50 Identities=30% Similarity=0.778 Sum_probs=40.2
Q ss_pred CCccCccccccccCCC-------eeeecCCCCccccHHhHHHHH--hCCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFIEGE-------TCKSFPECNHIFHLHCIDQWL--KHRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~-------~~~~l~~C~H~fh~~Ci~~wl--~~~~~CP~CR~~l~ 145 (152)
++..|++|-..+.... +.-.+. |+|.||..||..|- .++.+||.|+..+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3467999998886544 455677 99999999999995 46889999998653
No 27
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.56 E-value=2e-08 Score=87.29 Aligned_cols=53 Identities=30% Similarity=0.839 Sum_probs=40.7
Q ss_pred CCCCccCccccccccC-CCe--eeecCCCCccccHHhHHHHHhC--CCCCCCcCccCc
Q 042258 93 MTSNTDCAICLDDFIE-GET--CKSFPECNHIFHLHCIDQWLKH--RLNCPVCRNPLC 145 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~-~~~--~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~l~ 145 (152)
.++.++|+||+.-+.. +.. -...+.|.|.||..|+.+|++. +++||+||.+++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 3455899999988852 111 1245569999999999999986 678999998875
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.3e-08 Score=75.05 Aligned_cols=48 Identities=31% Similarity=0.872 Sum_probs=39.2
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHH-HHhCCCC-CCCcCccCccC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQ-WLKHRLN-CPVCRNPLCRN 147 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~-CP~CR~~l~~~ 147 (152)
+..|+||++..... ..++ |||+||..||.. |-..+.. ||+||+...-+
T Consensus 215 d~kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 215 DYKCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 47899999987443 5677 999999999999 9776665 99999976544
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.51 E-value=1.3e-08 Score=63.36 Aligned_cols=52 Identities=31% Similarity=0.838 Sum_probs=25.5
Q ss_pred ccCcccccccc-CCCe-eeec--CCCCccccHHhHHHHHhC-----------CCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFI-EGET-CKSF--PECNHIFHLHCIDQWLKH-----------RLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~-~~~~-~~~l--~~C~H~fh~~Ci~~wl~~-----------~~~CP~CR~~l~~~~ 148 (152)
.+|.||++... +++. .... ++|+..||..|+.+||.. ...||.|++++.-++
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~~ 69 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWSF 69 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGGG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEec
Confidence 57999999875 3322 1222 369999999999999963 134999999886543
No 30
>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=98.50 E-value=1.1e-07 Score=55.02 Aligned_cols=42 Identities=26% Similarity=0.822 Sum_probs=32.1
Q ss_pred cCccccccccCCCeeeecCCCC-----ccccHHhHHHHHhC--CCCCCCcC
Q 042258 98 DCAICLDDFIEGETCKSFPECN-----HIFHLHCIDQWLKH--RLNCPVCR 141 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~CR 141 (152)
.|-||++. .+++.....| |. |.+|.+|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~~-~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE-GDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC-CCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 38899983 3344445677 85 88999999999965 45899995
No 31
>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=98.45 E-value=1.8e-07 Score=73.16 Aligned_cols=50 Identities=24% Similarity=0.507 Sum_probs=36.5
Q ss_pred ccCccccccc-cCCC-eeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCccC
Q 042258 97 TDCAICLDDF-IEGE-TCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLCRN 147 (152)
Q Consensus 97 ~~C~IC~~~~-~~~~-~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~~~ 147 (152)
..||+|...- ..+. .....+ |||.||..|+...+. ....||.|+.++...
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 5799999852 2322 223334 999999999999654 467899999887664
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.44 E-value=7.3e-08 Score=75.59 Aligned_cols=47 Identities=30% Similarity=0.720 Sum_probs=41.5
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
..|.||.+.|..+ ..+| |+|.||.-||...|..+..||.|+.++..+
T Consensus 24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTES 70 (442)
T ss_pred HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccchh
Confidence 7899999999665 5566 999999999999999999999999887653
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.41 E-value=1.4e-07 Score=76.37 Aligned_cols=47 Identities=32% Similarity=0.796 Sum_probs=38.9
Q ss_pred CccCccccccccCCC-eeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIEGE-TCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
-.+|++|++.+.... .+.... |.|.||..|+.+| ...+||+||.-..
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred CCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 378999999996643 445556 9999999999999 7789999998655
No 34
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.39 E-value=1.7e-07 Score=72.16 Aligned_cols=47 Identities=32% Similarity=0.620 Sum_probs=40.5
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
-..|-||.+.++.+ ..++ |||.||.-||...|.++.-||+||.+...
T Consensus 25 ~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 25 MLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred HHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 36799999998665 4455 99999999999999999999999987654
No 35
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.39 E-value=2.5e-07 Score=52.02 Aligned_cols=38 Identities=34% Similarity=0.915 Sum_probs=22.2
Q ss_pred CccccccccCCC-eeeecCCCCccccHHhHHHHHhCC----CCCC
Q 042258 99 CAICLDDFIEGE-TCKSFPECNHIFHLHCIDQWLKHR----LNCP 138 (152)
Q Consensus 99 C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP 138 (152)
|+||.+ +.+.+ ....|+ |||.|+.+|+.+++.++ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75544 356788 99999999999998843 3566
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=2.3e-07 Score=73.19 Aligned_cols=54 Identities=31% Similarity=0.730 Sum_probs=45.1
Q ss_pred CCCccCccccccccCCCeeeecCCCCcc-ccHHhHHHHHhCCCCCCCcCccCccCCCCC
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHI-FHLHCIDQWLKHRLNCPVCRNPLCRNLELD 151 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~~ 151 (152)
.++.+|.||+++-+ ....|| |.|. .|..|.....-.+..||+||.++.+.++|-
T Consensus 288 ~~gkeCVIClse~r---dt~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~i~ 342 (349)
T KOG4265|consen 288 ESGKECVICLSESR---DTVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELLEIY 342 (349)
T ss_pred cCCCeeEEEecCCc---ceEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhheec
Confidence 34589999999874 457888 9995 899999997667888999999999988874
No 37
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3.7e-07 Score=75.03 Aligned_cols=47 Identities=32% Similarity=0.695 Sum_probs=37.3
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-----CCCCCCcCccCcc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-----RLNCPVCRNPLCR 146 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~CR~~l~~ 146 (152)
+..||||+++...+ ..+. |||+||..||-+.+.. ...||+||..+..
T Consensus 186 ~~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 57899999987554 3344 9999999999888764 4679999987754
No 38
>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=98.30 E-value=5.8e-07 Score=56.29 Aligned_cols=49 Identities=22% Similarity=0.457 Sum_probs=37.6
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCRN 147 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~~ 147 (152)
....|+|+.+-+.++ ..++ +||.|.+.||..|+.. ...||.|+.++...
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 446799999999654 6677 9999999999999998 88999999988764
No 39
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=6.8e-07 Score=58.64 Aligned_cols=47 Identities=40% Similarity=0.985 Sum_probs=35.8
Q ss_pred ccCccccccccC-------C-----Ce-eeecCCCCccccHHhHHHHHhCCCCCCCcCcc
Q 042258 97 TDCAICLDDFIE-------G-----ET-CKSFPECNHIFHLHCIDQWLKHRLNCPVCRNP 143 (152)
Q Consensus 97 ~~C~IC~~~~~~-------~-----~~-~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 143 (152)
..|+||...+-+ + +. ...=..|+|.||..||.+||+++..||+|.++
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 679999876622 1 11 12223499999999999999999999999875
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=5.9e-07 Score=71.60 Aligned_cols=50 Identities=32% Similarity=0.838 Sum_probs=37.6
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhC---CCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH---RLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~l~ 145 (152)
...|.||.+-+.....+.....|||+||..|+.+|+.. +..||.|+-.+.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 45799995555455555555569999999999999986 368999994433
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.21 E-value=2.4e-07 Score=55.90 Aligned_cols=43 Identities=37% Similarity=0.869 Sum_probs=22.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
..|++|.+.++.+ ..+..|.|+||+.||..-+. ..||+|+.+.
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 5699999998554 44566999999999988544 3599999875
No 42
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=7.8e-07 Score=68.22 Aligned_cols=44 Identities=39% Similarity=0.868 Sum_probs=38.1
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
....|+||++.|..+ ..++ |+|.||..|+..+......||.||.
T Consensus 12 ~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 447899999999877 6677 9999999999999886678999993
No 43
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=2.9e-06 Score=68.09 Aligned_cols=48 Identities=35% Similarity=0.994 Sum_probs=38.4
Q ss_pred CccCccccccccC-CCeeeecCCCCccccHHhHHHHHhC--CCCCCCcCcc
Q 042258 96 NTDCAICLDDFIE-GETCKSFPECNHIFHLHCIDQWLKH--RLNCPVCRNP 143 (152)
Q Consensus 96 ~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~ 143 (152)
+.+|+||++++.. ++...+.+.|||.|...||.+||.+ ...||.|..+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 4689999999964 4555555569999999999999964 4569999764
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=4.8e-07 Score=71.34 Aligned_cols=54 Identities=31% Similarity=0.613 Sum_probs=44.3
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCccCCCCC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCRNLELD 151 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~~~~~~ 151 (152)
....|+||++-++. .++.+.|.|.||..||..-++. .+.||.||+.+.++.++.
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr 96 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLR 96 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCC
Confidence 44679999998844 3566779999999999998875 789999999998876653
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=2.6e-06 Score=72.95 Aligned_cols=49 Identities=20% Similarity=0.666 Sum_probs=40.1
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCRN 147 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~~ 147 (152)
.-..|+.|-..+++. ++++|+|.||..|+.+-+.. +..||.|.+++..+
T Consensus 642 ~~LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred hceeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 336899999887653 45569999999999999985 77899999988654
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=2e-06 Score=50.10 Aligned_cols=46 Identities=26% Similarity=0.698 Sum_probs=34.5
Q ss_pred ccCccccccccCCCeeeecCCCCcc-ccHHhHHHHHh-CCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHI-FHLHCIDQWLK-HRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~-~~~~CP~CR~~l~~ 146 (152)
.+|.||++.-.+. ++-.|||+ +|-+|..+..+ .+..||+||+++..
T Consensus 8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 7899999886443 33349996 78889655444 68899999998753
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.91 E-value=1.9e-06 Score=73.96 Aligned_cols=50 Identities=22% Similarity=0.478 Sum_probs=40.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
..|++|+..+.++......+ |+|.||..|+..|-+.-.+||+||..+.+-
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 56888888776654433444 999999999999999999999999987654
No 48
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=1.6e-05 Score=61.71 Aligned_cols=50 Identities=28% Similarity=0.610 Sum_probs=40.5
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCccCCC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCRNLE 149 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~~~~ 149 (152)
..+|+||+....-+ ..++ |+|.||--||..-..+ ..+|++||.++..++.
T Consensus 7 ~~eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 7 KKECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CCcceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 36799999876444 5566 9999999999987766 5569999999988764
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.8e-05 Score=63.11 Aligned_cols=51 Identities=37% Similarity=0.959 Sum_probs=38.8
Q ss_pred CCCccCccccccccCCC----eeeecCCCCccccHHhHHHHHh--C-----CCCCCCcCccC
Q 042258 94 TSNTDCAICLDDFIEGE----TCKSFPECNHIFHLHCIDQWLK--H-----RLNCPVCRNPL 144 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl~--~-----~~~CP~CR~~l 144 (152)
..+.+|.||++..-... ....+|+|.|.||..||..|-. . ++.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34578999999875432 1234577999999999999973 3 57899999754
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.67 E-value=1.4e-05 Score=62.03 Aligned_cols=51 Identities=31% Similarity=0.790 Sum_probs=42.0
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-----------------------CCCCCCcCccCcc
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-----------------------RLNCPVCRNPLCR 146 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----------------------~~~CP~CR~~l~~ 146 (152)
..-.|.||+-.|.++....+++ |.|.||..|+.+.|.. ...||+||..+..
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 3357999999999988888888 9999999999988731 2349999998754
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=2.6e-05 Score=63.45 Aligned_cols=51 Identities=31% Similarity=0.791 Sum_probs=43.0
Q ss_pred CCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 93 MTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
...+.+|.||+.-+..+ +.+| |||.||..||.+-+.....||.||.++...
T Consensus 81 ~~sef~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVEL 131 (398)
T ss_pred ccchhhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCcccccccccc
Confidence 35568899998888444 6677 999999999999888889999999998864
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.63 E-value=3.8e-05 Score=62.59 Aligned_cols=54 Identities=31% Similarity=0.650 Sum_probs=44.3
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
..+..|++|+..+.++-. .. .|||.||..|+.+|+..+..||.|+.++....++
T Consensus 19 ~~~l~C~~C~~vl~~p~~--~~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQ--TT-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCccccccccCCCC--CC-CCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 455789999999977622 13 4999999999999999999999999988766544
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.62 E-value=1.9e-05 Score=63.48 Aligned_cols=50 Identities=26% Similarity=0.691 Sum_probs=39.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCCcCccCccCCCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~l~~~~~~ 150 (152)
.-|.||-+.- ..+..-| |||..|..|+..|-.. ..+||.||.++.-...|
T Consensus 370 eLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 6799998763 4456667 9999999999999754 57899999988654443
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.42 E-value=8.6e-05 Score=44.20 Aligned_cols=41 Identities=29% Similarity=0.626 Sum_probs=26.7
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPV 139 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~ 139 (152)
...|+|.+..|.++ ....+|||.|-++.|.+++++ ...||+
T Consensus 11 ~~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 37899999998654 333359999999999999944 556998
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.38 E-value=5.5e-05 Score=60.72 Aligned_cols=44 Identities=36% Similarity=0.926 Sum_probs=36.8
Q ss_pred ccCccccccccC-CCeeeecCCCCccccHHhHHHHHhC--CCCCCCcC
Q 042258 97 TDCAICLDDFIE-GETCKSFPECNHIFHLHCIDQWLKH--RLNCPVCR 141 (152)
Q Consensus 97 ~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR 141 (152)
..|..|-+.+-- ++....+| |.|+||..|+...|.+ ..+||.||
T Consensus 366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 679999887743 45677888 9999999999999976 56899998
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.35 E-value=0.00013 Score=66.70 Aligned_cols=65 Identities=29% Similarity=0.786 Sum_probs=51.0
Q ss_pred CCCceeecCCCCCCCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCC----------CCCCCcCccCc
Q 042258 80 SLPQMSYKNGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHR----------LNCPVCRNPLC 145 (152)
Q Consensus 80 ~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----------~~CP~CR~~l~ 145 (152)
-||-+.-.+.......+..|.||..+-......+.+. |+|+||..|...-|.++ -+||+|+.++-
T Consensus 3470 CLPCl~Cdks~tkQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3470 CLPCLHCDKSATKQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccccccChhhhhcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 6777776665555566788999998876667788898 99999999998877652 46999998763
No 57
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00041 Score=55.19 Aligned_cols=48 Identities=27% Similarity=0.562 Sum_probs=39.5
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
+++..|+||+..-... ...| |+|.=|..||.+.+.+.+.|=.|++.+.
T Consensus 420 sEd~lCpICyA~pi~A---vf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA---VFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchh---hccC-CCCchHHHHHHHHHhcCCeeeEecceee
Confidence 4557899998764332 4556 9999999999999999999999998665
No 58
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.18 E-value=7.8e-05 Score=58.54 Aligned_cols=50 Identities=28% Similarity=0.688 Sum_probs=40.9
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
...+|.+|-..|.+... ...|-|.||+.||.+.|.....||.|...+-..
T Consensus 14 ~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 44789999999977533 334999999999999999999999998766443
No 59
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.17 E-value=0.00036 Score=39.92 Aligned_cols=45 Identities=24% Similarity=0.633 Sum_probs=22.6
Q ss_pred CccccccccC-CCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccC
Q 042258 99 CAICLDDFIE-GETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPL 144 (152)
Q Consensus 99 C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l 144 (152)
|++|.+++.. +....-.+ ||+.++..|...-+. ....||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999843 23334455 899999999888776 478899999863
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.11 E-value=0.00016 Score=53.15 Aligned_cols=50 Identities=22% Similarity=0.419 Sum_probs=41.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
..|.||.+.|..+ ++.. |||.||..|...-++....|-+|-+...-.+-|
T Consensus 197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V 246 (259)
T COG5152 197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKATYGRFWV 246 (259)
T ss_pred eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhhccceeH
Confidence 4799999999654 5565 999999999999889999999998876655443
No 61
>PHA02862 5L protein; Provisional
Probab=97.00 E-value=0.00061 Score=47.66 Aligned_cols=43 Identities=26% Similarity=0.716 Sum_probs=32.4
Q ss_pred ccCccccccccCCCeeeecCCCC-----ccccHHhHHHHHhC--CCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECN-----HIFHLHCIDQWLKH--RLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~CR~~l 144 (152)
..|=||.++-.++ ..| |+ ...|.+|+.+|+.. +..|++|+.+.
T Consensus 3 diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 5699999885332 234 54 47999999999975 56799999865
No 62
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.89 E-value=0.00095 Score=50.70 Aligned_cols=54 Identities=17% Similarity=0.423 Sum_probs=48.3
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
....|++|.+.+.+.-.+..|.+|||+|+.+|+.+.++....||+|-.++.+.-
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 347899999999988888888889999999999999999999999999887653
No 63
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.84 E-value=0.00049 Score=60.01 Aligned_cols=48 Identities=31% Similarity=0.874 Sum_probs=39.9
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCC-------CCCCCcCcc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHR-------LNCPVCRNP 143 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-------~~CP~CR~~ 143 (152)
..+|.||++.+...+.+.....|-|+||..||.+|-+.. =.||.|...
T Consensus 191 ~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 191 KYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred ceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 389999999998888877777799999999999997641 249999843
No 64
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.0015 Score=49.06 Aligned_cols=51 Identities=25% Similarity=0.813 Sum_probs=41.2
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--------CCCCCCcCccCccCC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--------RLNCPVCRNPLCRNL 148 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~~l~~~~ 148 (152)
...|..|-..+..++.++ +- |-|.||-+|+..|-.. ...||.|..++....
T Consensus 50 ~pNC~LC~t~La~gdt~R-Lv-CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~ 108 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTR-LV-CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPI 108 (299)
T ss_pred CCCCceeCCccccCccee-eh-hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCc
Confidence 356999999998877655 55 9999999999999753 456999999887654
No 65
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.77 E-value=0.0023 Score=50.93 Aligned_cols=58 Identities=24% Similarity=0.636 Sum_probs=41.3
Q ss_pred CceeecCCCCCCCCCccCccccccccCCCeeeecCCCCccccHHhHHHH--HhCCCCCCCcCcc
Q 042258 82 PQMSYKNGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQW--LKHRLNCPVCRNP 143 (152)
Q Consensus 82 p~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w--l~~~~~CP~CR~~ 143 (152)
|............++..|.||-+.+ .....+| |+|..|-.|..+. |.+++.||+||.+
T Consensus 47 PnlttsSaddtDEen~~C~ICA~~~---TYs~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 47 PNLTTSSADDTDEENMNCQICAGST---TYSARYP-CGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred CccccccccccccccceeEEecCCc---eEEEecc-CCchHHHHHHHHHHHHHhccCCCccccc
Confidence 3333333333344557899998776 3446677 9999999997664 5679999999985
No 66
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.75 E-value=0.00089 Score=46.41 Aligned_cols=36 Identities=19% Similarity=0.580 Sum_probs=29.4
Q ss_pred ccCccccccccCCCeeeecCCCC------ccccHHhHHHHHhC
Q 042258 97 TDCAICLDDFIEGETCKSFPECN------HIFHLHCIDQWLKH 133 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~------H~fh~~Ci~~wl~~ 133 (152)
.+|.||++.+.+.++++..+ || |+||.+|+.+|-+.
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred eeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHhh
Confidence 57999999998856677666 65 88999999999443
No 67
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.0022 Score=49.43 Aligned_cols=49 Identities=27% Similarity=0.615 Sum_probs=36.1
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCCcCccCc
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPVCRNPLC 145 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~l~ 145 (152)
..+.+|++|-+.--.+ -...+|+|+||-.|+..-... +.+||.|-.+..
T Consensus 237 t~~~~C~~Cg~~PtiP---~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP---HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCC---eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3457899997764222 233349999999999987654 578999988765
No 68
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.65 E-value=0.00072 Score=52.51 Aligned_cols=48 Identities=23% Similarity=0.427 Sum_probs=40.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..|-||...|..+ ++.. |+|.||..|...-++....|++|.+..-..+
T Consensus 242 f~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~ 289 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHGSF 289 (313)
T ss_pred ccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccccc
Confidence 5699999999665 4554 9999999999998889999999998765443
No 69
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.0016 Score=47.24 Aligned_cols=51 Identities=27% Similarity=0.769 Sum_probs=33.9
Q ss_pred cCccccccccCCC---eeeecCCCCccccHHhHHHHHhC-----------CCCCCCcCccCccCC
Q 042258 98 DCAICLDDFIEGE---TCKSFPECNHIFHLHCIDQWLKH-----------RLNCPVCRNPLCRNL 148 (152)
Q Consensus 98 ~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~-----------~~~CP~CR~~l~~~~ 148 (152)
.|.||+..-.+|. .+..-..||..||.-|+..||+. -..||.|..++.-++
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 4666655433331 11222249999999999999974 134999999887654
No 70
>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=96.53 E-value=0.0011 Score=43.94 Aligned_cols=34 Identities=32% Similarity=0.826 Sum_probs=27.0
Q ss_pred CCCCccCccccccccCCCeeeecCCCCccccHHhHH
Q 042258 93 MTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCID 128 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~ 128 (152)
...+..|++|-..+.. ......| |||.||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 3445779999999866 4556677 99999999975
No 71
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.47 E-value=0.0021 Score=35.97 Aligned_cols=41 Identities=32% Similarity=0.920 Sum_probs=23.7
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHhCCC--CCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRL--NCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~C 140 (152)
|.+|.+-.-.|....... |+-.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667777766665544334 999999999999998755 79987
No 72
>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=96.39 E-value=0.011 Score=47.54 Aligned_cols=28 Identities=32% Similarity=1.181 Sum_probs=22.4
Q ss_pred CCccccHHhHHHHHhC-------------CCCCCCcCccCc
Q 042258 118 CNHIFHLHCIDQWLKH-------------RLNCPVCRNPLC 145 (152)
Q Consensus 118 C~H~fh~~Ci~~wl~~-------------~~~CP~CR~~l~ 145 (152)
|.-++|.+|+.+|+.. +-.||+||+++.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 5667899999999853 345999999864
No 73
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0016 Score=51.84 Aligned_cols=50 Identities=32% Similarity=0.636 Sum_probs=34.6
Q ss_pred CCCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 92 EMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 92 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..+....|.||+++..+ ...+| |||.-| |..-- +...+||+||..+...+
T Consensus 301 ~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~~~~ 350 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIRLVR 350 (355)
T ss_pred ccCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHHHHH
Confidence 34455789999998744 56788 999866 54432 23445999999876543
No 74
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.35 E-value=0.0024 Score=36.44 Aligned_cols=40 Identities=33% Similarity=0.903 Sum_probs=26.0
Q ss_pred CccccccccCCCeeeecCCCC-----ccccHHhHHHHHh--CCCCCCCc
Q 042258 99 CAICLDDFIEGETCKSFPECN-----HIFHLHCIDQWLK--HRLNCPVC 140 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~C 140 (152)
|-||++.-.+.+ ....| |+ ...|.+|+.+|+. .+..|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678988865544 23445 64 2789999999998 45679887
No 75
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.30 E-value=0.0045 Score=44.11 Aligned_cols=45 Identities=29% Similarity=0.834 Sum_probs=33.2
Q ss_pred CCccCccccccccCCCeeeecCCCCc-----cccHHhHHHHHhC--CCCCCCcCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNH-----IFHLHCIDQWLKH--RLNCPVCRNPL 144 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~--~~~CP~CR~~l 144 (152)
.+..|-||.++-.+ . ..| |.. ..|.+|+.+|+.. ..+|+.|+++.
T Consensus 7 ~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 44789999888432 2 234 654 5699999999985 56799999864
No 76
>PHA03096 p28-like protein; Provisional
Probab=96.26 E-value=0.0023 Score=50.04 Aligned_cols=37 Identities=27% Similarity=0.702 Sum_probs=29.3
Q ss_pred ccCccccccccCC----CeeeecCCCCccccHHhHHHHHhC
Q 042258 97 TDCAICLDDFIEG----ETCKSFPECNHIFHLHCIDQWLKH 133 (152)
Q Consensus 97 ~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~ 133 (152)
..|.||++..... ..-..++.|.|.||..|+..|...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 5799999987542 234567889999999999999764
No 77
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.23 E-value=0.0017 Score=54.25 Aligned_cols=48 Identities=27% Similarity=0.730 Sum_probs=36.4
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-----CCCCCCcCccCc
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-----RLNCPVCRNPLC 145 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~CR~~l~ 145 (152)
.+..+|.+|.+.-++ .+... |.|.||+.|+..+... +-+||.|...|.
T Consensus 534 k~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 344789999887533 35555 9999999999888753 578999987664
No 78
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.16 E-value=0.0018 Score=46.20 Aligned_cols=27 Identities=41% Similarity=0.978 Sum_probs=25.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccH
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHL 124 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~ 124 (152)
-+|.||++++..++.+..|| |-.+||+
T Consensus 178 GECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 178 GECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred CcEEEEhhhccCCCceeccc-eEEEeec
Confidence 68999999999999999999 9999996
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.03 E-value=0.003 Score=47.79 Aligned_cols=43 Identities=21% Similarity=0.559 Sum_probs=29.8
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
.|.-|...-. +.....+. |+|+||..|...- ....||+|++++
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSI 47 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Ccccccccccee
Confidence 3666765544 44545555 9999999997662 223899999974
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.92 E-value=0.031 Score=43.23 Aligned_cols=53 Identities=19% Similarity=0.481 Sum_probs=41.3
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
.....|||...+|........+-+|||+|...++..- .....||+|-.++...
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccC
Confidence 3448899999999655556666559999999999996 3366799999887643
No 81
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.80 E-value=0.015 Score=34.05 Aligned_cols=34 Identities=26% Similarity=0.771 Sum_probs=29.5
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHH
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~ 129 (152)
+..|++|-+.|..++.+.+.|.||-.+|+.|-.+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4679999999998888888999999999999544
No 82
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.00041 Score=55.76 Aligned_cols=51 Identities=25% Similarity=0.643 Sum_probs=44.1
Q ss_pred ccCccccccccCC-CeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFIEG-ETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..|+||...++.. +.+..+. |||.+|..|+.+||.+...||-|+++|....
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 6799999998765 5566676 9999999999999999999999999987653
No 83
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.76 E-value=0.022 Score=44.62 Aligned_cols=43 Identities=28% Similarity=0.623 Sum_probs=34.7
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~ 142 (152)
..|+.|..-+.+. ..++.|+|.||.+||..-|. ....||.|.+
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799998877554 34567999999999997765 5678999976
No 84
>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=95.72 E-value=0.0038 Score=35.41 Aligned_cols=31 Identities=32% Similarity=0.890 Sum_probs=22.6
Q ss_pred C-CccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 118 C-NHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 118 C-~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
| .|..|..|+...+..+..||+|..+|+.++
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtki 49 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPTKI 49 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE----S
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcccc
Confidence 5 599999999999999999999999999875
No 85
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.018 Score=45.59 Aligned_cols=46 Identities=22% Similarity=0.486 Sum_probs=36.4
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCcc
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNP 143 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 143 (152)
....|++|+....++ .++.--|-+||-.|+.+.+.+.+.||+=..+
T Consensus 299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 348899999987554 2333269999999999999999999986544
No 86
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.65 E-value=0.0078 Score=47.11 Aligned_cols=47 Identities=28% Similarity=0.804 Sum_probs=37.4
Q ss_pred ccCccccccccCCC--e-eeecCCCCccccHHhHHHHHhC-CCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGE--T-CKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~--~-~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l 144 (152)
..|-||-++|+..+ . .+.+ +|||.++..|+.+.+.. ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 57999999998753 3 3445 49999999999998876 45799999873
No 87
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0084 Score=48.71 Aligned_cols=45 Identities=29% Similarity=0.783 Sum_probs=34.0
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--------CCCCCCcCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--------RLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~ 142 (152)
..|.||+++.....-...+| |+|+||+.|+...+.. .-.||-+.-
T Consensus 185 f~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 68999999964445556677 9999999999998753 334776543
No 88
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.0017 Score=50.54 Aligned_cols=43 Identities=33% Similarity=0.796 Sum_probs=32.7
Q ss_pred CccCccccccccCCCeeeecCCCCcc-ccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHI-FHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
+.-|.||++.- ..+..|+ |||. -|..|... -..||+||+.+.+
T Consensus 300 ~~LC~ICmDaP---~DCvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLE-CGHMVTCTKCGKR----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCC---cceEEee-cCcEEeehhhccc----cccCchHHHHHHH
Confidence 46799999875 5677888 9995 56777655 3489999987754
No 89
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.42 E-value=0.0069 Score=35.50 Aligned_cols=44 Identities=23% Similarity=0.508 Sum_probs=30.4
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
..|..|...- ..-..+| |||+.+..|-.-+ +-+.||.|-+++..
T Consensus 8 ~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 8 QPCVFCGFVG---TKGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEF 51 (55)
T ss_pred eeEEEccccc---ccccccc-ccceeeccccChh--hccCCCCCCCcccC
Confidence 3466565442 2225566 9999999996554 67889999988754
No 90
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.15 E-value=0.013 Score=45.52 Aligned_cols=45 Identities=22% Similarity=0.703 Sum_probs=36.7
Q ss_pred ccCccccccccCCCe-eeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 97 TDCAICLDDFIEGET-CKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
..|+||.+.+-.... +..++ |||..|..|...-...+-.||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 449999988866544 44565 9999999999998877899999988
No 91
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.88 E-value=0.0091 Score=52.44 Aligned_cols=43 Identities=28% Similarity=0.716 Sum_probs=33.4
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
..|..|-..+.-+ ..... |||.||..|+. .+...||-|+.++-
T Consensus 841 skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhhh
Confidence 6899998887443 23344 99999999998 57788999988543
No 92
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.84 E-value=0.018 Score=45.36 Aligned_cols=41 Identities=29% Similarity=0.797 Sum_probs=33.2
Q ss_pred ccCccccccccCCCeeeecCCC--CccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 97 TDCAICLDDFIEGETCKSFPEC--NHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C--~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
.+||||.+.+..+ ... | ||..|..|-.+ .+..||.||-++.
T Consensus 49 leCPvC~~~l~~P----i~Q-C~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP----IFQ-CDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred ccCchhhccCccc----cee-cCCCcEehhhhhhh---hcccCCccccccc
Confidence 7899999998665 333 5 79999999764 4788999999886
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.28 E-value=0.061 Score=43.61 Aligned_cols=49 Identities=16% Similarity=0.406 Sum_probs=37.8
Q ss_pred CCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhCC---CCCCCcCc
Q 042258 93 MTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHR---LNCPVCRN 142 (152)
Q Consensus 93 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~CR~ 142 (152)
-.+...|||=.+.-.+......+. |||+..++-+.+..++. ..||.|=.
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred ccceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 344578999877766655667787 99999999999987763 46999943
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.15 E-value=0.022 Score=50.31 Aligned_cols=37 Identities=24% Similarity=0.607 Sum_probs=29.3
Q ss_pred CCCccCccccccccCCCeeeecCCCCccccHHhHHHHHh
Q 042258 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK 132 (152)
Q Consensus 94 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 132 (152)
..++.|.+|...+... .-...| |||.||++|+.+-..
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHHH
Confidence 4557899999888664 445677 999999999988753
No 95
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.95 E-value=0.025 Score=43.35 Aligned_cols=49 Identities=22% Similarity=0.710 Sum_probs=35.0
Q ss_pred CCccCccccccccCCCee-eecCCC-----CccccHHhHHHHHhCC--------CCCCCcCccC
Q 042258 95 SNTDCAICLDDFIEGETC-KSFPEC-----NHIFHLHCIDQWLKHR--------LNCPVCRNPL 144 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~-~~l~~C-----~H~fh~~Ci~~wl~~~--------~~CP~CR~~l 144 (152)
.+.-|-||+..-++.... .+.| | .|..|..|+..|+..+ -+||.|+++.
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 446799999876554322 3445 6 4889999999999642 3499999864
No 96
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.92 E-value=0.045 Score=37.91 Aligned_cols=54 Identities=22% Similarity=0.385 Sum_probs=37.0
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHh---CCCCCCCcCccCccCC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK---HRLNCPVCRNPLCRNL 148 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~---~~~~CP~CR~~l~~~~ 148 (152)
.-.+|.||.+.-.+..-+.--.-||-..|..|-....+ ....||+|++.+.++-
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 34789999887544332222223899999998655444 3788999999887653
No 97
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.81 E-value=0.025 Score=49.36 Aligned_cols=46 Identities=30% Similarity=0.688 Sum_probs=35.8
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCCcCccCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPVCRNPLCRN 147 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~CR~~l~~~ 147 (152)
..|.+|++ .+.....+ |+|.||..|+.+-+.. ...||.||..+..+
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 68999998 24445566 9999999999888764 34699999876543
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=93.61 E-value=0.042 Score=48.02 Aligned_cols=24 Identities=29% Similarity=0.844 Sum_probs=21.6
Q ss_pred CCCCccccHHhHHHHHhCCCCCCC
Q 042258 116 PECNHIFHLHCIDQWLKHRLNCPV 139 (152)
Q Consensus 116 ~~C~H~fh~~Ci~~wl~~~~~CP~ 139 (152)
..|+|..|..|...|+++...||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 349999999999999999999984
No 99
>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=93.38 E-value=0.076 Score=41.41 Aligned_cols=49 Identities=24% Similarity=0.525 Sum_probs=34.6
Q ss_pred cCccccccc-cCCCe-eeecCCCCccccHHhHHHHHhC-CCCCCCcCccCccC
Q 042258 98 DCAICLDDF-IEGET-CKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCRN 147 (152)
Q Consensus 98 ~C~IC~~~~-~~~~~-~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~~ 147 (152)
.|++|...- -.++- ..+-+ |+|..|.+|+..-+.. ...||.|...+..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhhhc
Confidence 488886543 33332 22334 9999999999998865 66899998766543
No 100
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.09 E-value=0.071 Score=42.59 Aligned_cols=49 Identities=18% Similarity=0.507 Sum_probs=35.6
Q ss_pred ccCccccccccCCC-eeeecCCCCccccHHhHHHHHhC-CCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGE-TCKSFPECNHIFHLHCIDQWLKH-RLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~CR~~l~~ 146 (152)
.-|+.|++++...+ ...-.+ ||...|..|-..--++ +..||.||+...+
T Consensus 15 d~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred ccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 45999999997544 344566 9999999995553333 7889999986543
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.76 E-value=0.035 Score=50.91 Aligned_cols=44 Identities=30% Similarity=0.671 Sum_probs=36.2
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
...|.||.+.+..... ... |||.+|..|...|+..+..||.|+.
T Consensus 1153 ~~~c~ic~dil~~~~~--I~~-cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGG--IAG-CGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHhcCC--eee-echhHhhhHHHHHHHHhccCcchhh
Confidence 3579999999864322 233 9999999999999999999999974
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.56 E-value=0.062 Score=40.24 Aligned_cols=44 Identities=30% Similarity=0.696 Sum_probs=31.9
Q ss_pred CccccccccCCCeeeecCCCCc-cccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 99 CAICLDDFIEGETCKSFPECNH-IFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
|-.|-+. +..+..+| |.| .+|..|-.. -..||+|+....+.+.|
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s~~~v 205 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTSSVEV 205 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhceeec
Confidence 7777654 35577788 998 577888654 35599999988776654
No 103
>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=92.51 E-value=0.13 Score=36.77 Aligned_cols=35 Identities=26% Similarity=0.819 Sum_probs=22.2
Q ss_pred CccCccccccccCC---------CeeeecCCCCc-cccHHhHHHHH
Q 042258 96 NTDCAICLDDFIEG---------ETCKSFPECNH-IFHLHCIDQWL 131 (152)
Q Consensus 96 ~~~C~IC~~~~~~~---------~~~~~l~~C~H-~fh~~Ci~~wl 131 (152)
+-.|+|||+.--+. .+++-.. |+. .-|.+|+++.-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpym-c~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYM-CDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccc-cCCccchhHHHHHHH
Confidence 35799999886443 1223233 554 45889999974
No 104
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.28 E-value=0.079 Score=41.47 Aligned_cols=28 Identities=29% Similarity=0.890 Sum_probs=22.8
Q ss_pred CCccccHHhHHHHHhC-------------CCCCCCcCccCc
Q 042258 118 CNHIFHLHCIDQWLKH-------------RLNCPVCRNPLC 145 (152)
Q Consensus 118 C~H~fh~~Ci~~wl~~-------------~~~CP~CR~~l~ 145 (152)
|...+|.+|+.+|+.. +-+||+||+++.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 6778999999999742 567999999864
No 105
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.05 E-value=0.13 Score=45.37 Aligned_cols=48 Identities=23% Similarity=0.644 Sum_probs=34.9
Q ss_pred CccCccccccccCCCeeeecCCCCc-----cccHHhHHHHHhC--CCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNH-----IFHLHCIDQWLKH--RLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~--~~~CP~CR~~l~ 145 (152)
...|-||..+=..+ .....| |.. ..|.+|+.+|+.. ...|-+|+++..
T Consensus 12 ~~~CRICr~e~~~d-~pLfhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 12 KRSCRICRTEDIRD-DPLFHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred chhceeecCCCCCC-CcCccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 37899998875333 334445 653 5899999999985 556999998653
No 106
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.46 E-value=0.071 Score=42.03 Aligned_cols=44 Identities=25% Similarity=0.605 Sum_probs=30.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
-.|.-|-..+.. .-+..| |.|+||.+|... ...+.||.|-.++.
T Consensus 91 HfCd~Cd~PI~I--YGRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCccee--eecccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 457777555422 124566 999999999765 34678999977654
No 107
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=89.75 E-value=0.33 Score=28.08 Aligned_cols=43 Identities=28% Similarity=0.623 Sum_probs=22.5
Q ss_pred CccccccccCC------CeeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 99 CAICLDDFIEG------ETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 99 C~IC~~~~~~~------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
|.-|...|..+ ...-..++|++.|+.+|=.--=..-..||-|-
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 55566666553 23456778999999999554323456799884
No 108
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=89.71 E-value=0.19 Score=37.52 Aligned_cols=42 Identities=33% Similarity=0.773 Sum_probs=35.4
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
..|.+|..-...+ +....||-.+|..|+...++....||.|.
T Consensus 182 k~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchh
Confidence 6899999887665 33445999999999999999999999994
No 109
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.85 E-value=0.32 Score=37.16 Aligned_cols=47 Identities=26% Similarity=0.670 Sum_probs=34.3
Q ss_pred CccCccccccc-cCCC-eeeecCCCCccccHHhHHHHHhC-CCCCC--CcCc
Q 042258 96 NTDCAICLDDF-IEGE-TCKSFPECNHIFHLHCIDQWLKH-RLNCP--VCRN 142 (152)
Q Consensus 96 ~~~C~IC~~~~-~~~~-~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP--~CR~ 142 (152)
+..||+|..+- ..++ ....-|.|-|.+|.+|+++-+.. ...|| -|.+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 35799997653 3333 34455669999999999998876 56799 7754
No 110
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.75 E-value=0.23 Score=42.87 Aligned_cols=43 Identities=26% Similarity=0.567 Sum_probs=31.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
..|.||+..|-.....-+.+.|||..|+.|+..- -+.+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 5699999888665544444459999999999886 355677 443
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.71 E-value=0.25 Score=40.39 Aligned_cols=37 Identities=24% Similarity=0.618 Sum_probs=27.0
Q ss_pred CccCccccccccCC-CeeeecCCCCccccHHhHHHHHhC
Q 042258 96 NTDCAICLDDFIEG-ETCKSFPECNHIFHLHCIDQWLKH 133 (152)
Q Consensus 96 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~ 133 (152)
..+|.||..+.... +... ..+|+|.||.+|..+.+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence 47899999555443 3334 4459999999999988763
No 112
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.48 E-value=0.69 Score=36.14 Aligned_cols=47 Identities=23% Similarity=0.718 Sum_probs=33.3
Q ss_pred ccCccccccccCCCe-eeecCCCC-----ccccHHhHHHHHh--CCCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGET-CKSFPECN-----HIFHLHCIDQWLK--HRLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~-~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~CR~~l 144 (152)
..|-||..+...... ....| |. +..|+.|+..|+. +...|..|....
T Consensus 79 ~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 79 PICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 679999987643221 23344 64 4689999999998 567799997744
No 113
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=86.36 E-value=0.41 Score=39.67 Aligned_cols=34 Identities=24% Similarity=0.532 Sum_probs=27.8
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHh
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK 132 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 132 (152)
+...|+||..-|.++ +.+| |+|..|..|...-+.
T Consensus 3 eelkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREP---IILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence 346799999988554 8898 999999999886554
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=86.00 E-value=0.21 Score=43.46 Aligned_cols=46 Identities=28% Similarity=0.826 Sum_probs=35.6
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC---CCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH---RLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR~~l~~ 146 (152)
.+|+||...+..+ .+.+|.|.|+..|+..-+.. ...||+|+..+..
T Consensus 22 lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 22 LECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred ccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 6799999998775 34459999999998776653 5679999876543
No 115
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=85.38 E-value=1 Score=39.64 Aligned_cols=41 Identities=20% Similarity=0.398 Sum_probs=29.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPV 139 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~ 139 (152)
..|.+|-..+ .|..+. .+.|||.-|..|+.+|+...+.||.
T Consensus 780 ~~CtVC~~vi-~G~~~~-c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVI-RGVDVW-CQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeeccee-eeeEee-cccccccccHHHHHHHHhcCCCCcc
Confidence 3577775554 222323 3459999999999999998887766
No 116
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.59 E-value=1.3 Score=35.28 Aligned_cols=61 Identities=15% Similarity=0.302 Sum_probs=38.2
Q ss_pred CCCceeecCCCCCCCCCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC---CCCCCCcC
Q 042258 80 SLPQMSYKNGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH---RLNCPVCR 141 (152)
Q Consensus 80 ~lp~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~CR 141 (152)
.||-...........+-..||+=.+.--+......+. |||+.-.+-++...++ +..||.|-
T Consensus 320 eLP~eIklp~~~hfHs~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 320 ELPMEIKLPKGRHFHSLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred CCceEEecCCcccccceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4444444333333344477988655433323344555 9999999999997665 45699994
No 117
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.57 E-value=1 Score=33.53 Aligned_cols=40 Identities=35% Similarity=0.871 Sum_probs=28.2
Q ss_pred ccCcccccc-----ccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 97 TDCAICLDD-----FIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
..|-+|-+. |+. +.+...++|+..||..|.. +..||-|.+
T Consensus 153 fiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 567788642 111 3566777899999999955 277999954
No 119
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=82.85 E-value=2.2 Score=28.82 Aligned_cols=46 Identities=20% Similarity=0.356 Sum_probs=34.6
Q ss_pred ccCccccccccCC----------CeeeecCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 97 TDCAICLDDFIEG----------ETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
..|--|...|..+ ...-..++|++.|+.+|=..+-..-..||.|..
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 4699999988542 122346679999999998887677778999963
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.76 E-value=0.81 Score=40.59 Aligned_cols=48 Identities=6% Similarity=0.113 Sum_probs=33.7
Q ss_pred ccCccccccccCCC---eeeecCCCCccccHHhHHHHHhC------CCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGE---TCKSFPECNHIFHLHCIDQWLKH------RLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~------~~~CP~CR~~l 144 (152)
..|.+|..+++.+. ...-+..|+|.+|-.||..|... +-.|++|..-+
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 56888888777632 22223349999999999999864 44588887644
No 121
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=82.07 E-value=0.87 Score=27.68 Aligned_cols=11 Identities=27% Similarity=1.147 Sum_probs=8.4
Q ss_pred ccHHhHHHHHh
Q 042258 122 FHLHCIDQWLK 132 (152)
Q Consensus 122 fh~~Ci~~wl~ 132 (152)
||++|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999985
No 122
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.97 E-value=1.3 Score=37.77 Aligned_cols=44 Identities=30% Similarity=0.836 Sum_probs=35.1
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..|.+|+... ..+..+ |. |..|+.+|+..+..||+|+..+..+.
T Consensus 480 ~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 480 DVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred CcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccc
Confidence 6799998887 224455 77 99999999999999999988766544
No 123
>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=81.38 E-value=1 Score=22.25 Aligned_cols=23 Identities=30% Similarity=0.596 Sum_probs=12.5
Q ss_pred cCccccccccCCCeeeecCCCCccc
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIF 122 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~f 122 (152)
.|+-|....... ....|-|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 466666665332 23445577766
No 124
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=80.47 E-value=1.1 Score=23.91 Aligned_cols=26 Identities=27% Similarity=0.696 Sum_probs=16.8
Q ss_pred cCccccccccCCCe-------eeecCCCCcccc
Q 042258 98 DCAICLDDFIEGET-------CKSFPECNHIFH 123 (152)
Q Consensus 98 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh 123 (152)
+|+-|...|..++. -...+.|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 58888888855332 234556888874
No 125
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=79.61 E-value=0.96 Score=25.52 Aligned_cols=43 Identities=26% Similarity=0.604 Sum_probs=28.7
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHh------CCCCCCCcC
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK------HRLNCPVCR 141 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~------~~~~CP~CR 141 (152)
.|.||... ..++..+.-..|+..||..|+..=.. ..-.||.|+
T Consensus 1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 38889884 34445566667999999999776432 134577664
No 126
>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=79.22 E-value=2.4 Score=21.85 Aligned_cols=37 Identities=30% Similarity=0.691 Sum_probs=23.4
Q ss_pred CccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 99 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
|..|.+.+..++.... . =+..||..| ..|..|+.+|.
T Consensus 2 C~~C~~~i~~~~~~~~-~-~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLR-A-LGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEE-e-CCccccccC--------CCCcccCCcCc
Confidence 7778777755423222 2 467788876 56777877663
No 127
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=77.97 E-value=3.9 Score=25.73 Aligned_cols=51 Identities=27% Similarity=0.475 Sum_probs=20.8
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~ 145 (152)
....|.||-+..- +++-......|+--.|+.|..-=.+ .++.||.|+++..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3467999988873 3333333344888899999765444 4788999997654
No 128
>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=77.84 E-value=3.1 Score=23.73 Aligned_cols=43 Identities=19% Similarity=0.638 Sum_probs=17.9
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC-----CCCCCCcCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH-----RLNCPVCRNP 143 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~CR~~ 143 (152)
..|++....+..+ ++... |.|.-+ .=+..|+.. .-.||+|+++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~C-FDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQC-FDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS---EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-Ccccce-ECHHHHHHHhhccCCeECcCCcCc
Confidence 3588877776443 34444 999733 224455542 3359999864
No 129
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=77.67 E-value=2.3 Score=33.97 Aligned_cols=51 Identities=29% Similarity=0.630 Sum_probs=36.7
Q ss_pred ccCccccccccCCC-eeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFIEGE-TCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..|+||.+.....+ ...-.+ |++..|..|...-...+.+||.||++...++
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccccCc
Confidence 68999998873332 222334 7888888887777777899999998766554
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=76.58 E-value=2.1 Score=22.71 Aligned_cols=26 Identities=19% Similarity=0.584 Sum_probs=16.4
Q ss_pred cCccccccccCCCe-------eeecCCCCcccc
Q 042258 98 DCAICLDDFIEGET-------CKSFPECNHIFH 123 (152)
Q Consensus 98 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh 123 (152)
+|+-|...|..++. -...++|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 58888888755332 233456888874
No 131
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=76.07 E-value=0.92 Score=38.98 Aligned_cols=28 Identities=25% Similarity=0.775 Sum_probs=20.4
Q ss_pred eeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 111 TCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 111 ~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
.++....|+++||..|... .+.-||-|-
T Consensus 530 ~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 530 NTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 3444555999999999554 566699994
No 132
>PLN02189 cellulose synthase
Probab=75.41 E-value=3.6 Score=37.74 Aligned_cols=51 Identities=24% Similarity=0.508 Sum_probs=37.0
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~ 145 (152)
.+..|.||-++.. +|+.-.....|+--.|+.|.+-=-+ .++.||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4468999999874 3455555566888899999854322 3788999998655
No 133
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.93 E-value=1.9 Score=35.86 Aligned_cols=36 Identities=22% Similarity=0.621 Sum_probs=28.3
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH 133 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 133 (152)
....|.||.+.+.. ....+. |||.|+..|....+.+
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred ccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 34679999999855 344555 9999999999998864
No 134
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.32 E-value=4.2 Score=31.43 Aligned_cols=49 Identities=12% Similarity=0.236 Sum_probs=36.3
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
..|+|---++........+-.|||+|-..-+.+- ..+.|++|.+....+
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 6799877776554444455559999999888775 578899998876543
No 135
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=72.25 E-value=4.6 Score=32.32 Aligned_cols=46 Identities=22% Similarity=0.520 Sum_probs=32.0
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNP 143 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 143 (152)
..|-.|.++...... .....|.+.||.+|=.--=..=..||.|..+
T Consensus 331 ~~Cf~C~~~~~~~~~-y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 331 RFCFACQGELLSSGR-YRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred cceeeeccccCCCCc-EEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 569999777655444 3455699999999965533344679999743
No 136
>PLN02436 cellulose synthase A
Probab=71.95 E-value=4.9 Score=37.05 Aligned_cols=51 Identities=25% Similarity=0.573 Sum_probs=36.9
Q ss_pred CCccCccccccc---cCCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDF---IEGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~---~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~ 145 (152)
....|.||-++. .+|+--.....|+--.|+.|.+-=.+ .++.||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 346899999986 34555555556888899999854322 3788999998655
No 137
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=69.86 E-value=3.8 Score=23.65 Aligned_cols=27 Identities=26% Similarity=0.677 Sum_probs=16.8
Q ss_pred eecCCCCccccHHhHHHHHhCCCCCCCc
Q 042258 113 KSFPECNHIFHLHCIDQWLKHRLNCPVC 140 (152)
Q Consensus 113 ~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 140 (152)
-..+.|||.|-..=-.+ ......||.|
T Consensus 29 W~C~~Cgh~w~~~v~~R-~~~~~~CP~C 55 (55)
T PF14311_consen 29 WKCPKCGHEWKASVNDR-TRRGKGCPYC 55 (55)
T ss_pred EECCCCCCeeEccHhhh-ccCCCCCCCC
Confidence 34556888776543333 2567789988
No 138
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=69.72 E-value=2.7 Score=25.07 Aligned_cols=15 Identities=27% Similarity=0.915 Sum_probs=12.1
Q ss_pred CCCCCCcCccCccCC
Q 042258 134 RLNCPVCRNPLCRNL 148 (152)
Q Consensus 134 ~~~CP~CR~~l~~~~ 148 (152)
...||+|..++.+..
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 577999999887654
No 139
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.56 E-value=2.9 Score=34.22 Aligned_cols=43 Identities=26% Similarity=0.549 Sum_probs=31.4
Q ss_pred ccCccccccccCCC--eeeecCCCCccccHHhHHHHHhCCCCCCCc
Q 042258 97 TDCAICLDDFIEGE--TCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140 (152)
Q Consensus 97 ~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 140 (152)
..|+.|.-.+.-.+ ...+.. |||.|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 67898877664333 334566 99999999999998777766444
No 140
>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=69.33 E-value=1.9 Score=25.94 Aligned_cols=35 Identities=20% Similarity=0.425 Sum_probs=17.3
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHH
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQW 130 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w 130 (152)
...|.+|...|.--..--....||++|+..|....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 36799999999653322334459999999997654
No 141
>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=68.94 E-value=3.9 Score=23.38 Aligned_cols=21 Identities=29% Similarity=0.858 Sum_probs=10.5
Q ss_pred CCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 118 CNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 118 C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
-+..||.+| ..|-.|+++|..
T Consensus 18 ~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 18 MGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp TTEEEETTT--------SBETTTTCBTTT
T ss_pred CCcEEEccc--------cccCCCCCccCC
Confidence 445555544 345555555443
No 142
>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=67.59 E-value=4.8 Score=23.06 Aligned_cols=36 Identities=19% Similarity=0.441 Sum_probs=24.6
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHh
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK 132 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 132 (152)
..|.+|...|.....-.....||++|+.+|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 468899888855332223345999999999776543
No 143
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=65.61 E-value=9.1 Score=29.81 Aligned_cols=48 Identities=27% Similarity=0.738 Sum_probs=33.8
Q ss_pred ccCccccccccCCCeeee---cCCCCccccHHhHHHHHhC---------CCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGETCKS---FPECNHIFHLHCIDQWLKH---------RLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~---l~~C~H~fh~~Ci~~wl~~---------~~~CP~CR~~l 144 (152)
.+|-+|..++.+.+..+. -+.|+-.+|..|+..-+.. ...||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 589999999954443222 2348889999999984432 45699998854
No 144
>PLN02195 cellulose synthase A
Probab=65.40 E-value=11 Score=34.48 Aligned_cols=52 Identities=23% Similarity=0.457 Sum_probs=36.6
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHHH-hCCCCCCCcCccCcc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQWL-KHRLNCPVCRNPLCR 146 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~CR~~l~~ 146 (152)
....|.||-+... +|+.-.....|+--.|+.|.+-=- ..++.||.|++...+
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 4467999988774 344445555688889999974322 237889999987763
No 145
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=64.44 E-value=9.4 Score=35.33 Aligned_cols=51 Identities=22% Similarity=0.445 Sum_probs=36.1
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHH-HhCCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQW-LKHRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w-l~~~~~CP~CR~~l~ 145 (152)
.+..|.||-++.. +|+--.....|+--.|+.|.+-= -..++.||.|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3468999998873 34544555558888999997432 234788999998654
No 146
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=64.15 E-value=2.3 Score=24.51 Aligned_cols=13 Identities=38% Similarity=0.902 Sum_probs=6.7
Q ss_pred CCCCCcCccCccC
Q 042258 135 LNCPVCRNPLCRN 147 (152)
Q Consensus 135 ~~CP~CR~~l~~~ 147 (152)
..||+|.++|...
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3899999988653
No 147
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.03 E-value=2.8 Score=37.20 Aligned_cols=42 Identities=19% Similarity=0.595 Sum_probs=29.1
Q ss_pred ccCccccccccCC----CeeeecCCCCccccHHhHHHHHhCCCCCCCc
Q 042258 97 TDCAICLDDFIEG----ETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140 (152)
Q Consensus 97 ~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 140 (152)
..|.-|.+..... ..+.++- |||+||..|+..-..++. |-.|
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 5788898877532 3456676 999999999877654443 4444
No 148
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=63.77 E-value=9.1 Score=25.82 Aligned_cols=30 Identities=23% Similarity=0.503 Sum_probs=18.8
Q ss_pred ecCCCCccccHHhHHHHHhCCCCCCCcCccCccCCC
Q 042258 114 SFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNLE 149 (152)
Q Consensus 114 ~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~ 149 (152)
..|.|++.- +-+.+...|+.|++++.-+-.
T Consensus 71 ~CP~C~K~T------KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 71 ECPNCGKQT------KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred ECCCCCChH------hhhchhhccCcCCCcCccCch
Confidence 345566632 234556679999998875543
No 149
>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=63.12 E-value=2.5 Score=30.14 Aligned_cols=47 Identities=23% Similarity=0.546 Sum_probs=29.0
Q ss_pred cccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 101 ICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 101 IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
||+..=...+....-|.=.+.||..|..+- ...||.|.+++.-..-+
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~t---I~~Cp~C~~~IrG~y~v 55 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKT---ITSCPNCSTPIRGDYHV 55 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHH---HHHCcCCCCCCCCceec
Confidence 455443333333333334567999998884 56799999988755444
No 150
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=61.74 E-value=14 Score=24.54 Aligned_cols=47 Identities=21% Similarity=0.501 Sum_probs=28.4
Q ss_pred CccCccccccccCCCeee----ecCCC---CccccHHhHHHHHhC---------CCCCCCcCc
Q 042258 96 NTDCAICLDDFIEGETCK----SFPEC---NHIFHLHCIDQWLKH---------RLNCPVCRN 142 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~----~l~~C---~H~fh~~Ci~~wl~~---------~~~CP~CR~ 142 (152)
+..|-.|...-.+....- ..+.| .=.||..|+..++.. .-.||.||.
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 356777766433211100 12346 667999999988753 345999975
No 151
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=61.25 E-value=13 Score=34.42 Aligned_cols=51 Identities=18% Similarity=0.408 Sum_probs=36.4
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHHHh-CCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQWLK-HRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~CR~~l~ 145 (152)
+...|.||-++.. +|+.-.....|+--.|+.|.+-=.+ .++.||.|++...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4478999998874 3454455555888899999854332 3788999998765
No 152
>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=61.09 E-value=18 Score=21.31 Aligned_cols=45 Identities=27% Similarity=0.612 Sum_probs=30.6
Q ss_pred ccCccccccccCCC-eeeecCCCC--ccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGE-TCKSFPECN--HIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~-~~~~l~~C~--H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
..|-.|-.++..+. .... |. ..||.+|...-| +..||.|--+|..
T Consensus 6 pnCE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 34666777765433 2222 44 469999999875 7889999887754
No 153
>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 KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=60.44 E-value=12 Score=29.94 Aligned_cols=29 Identities=24% Similarity=0.737 Sum_probs=23.0
Q ss_pred CCCccccHHhHHHHHhC---------CCCCCCcCccCc
Q 042258 117 ECNHIFHLHCIDQWLKH---------RLNCPVCRNPLC 145 (152)
Q Consensus 117 ~C~H~fh~~Ci~~wl~~---------~~~CP~CR~~l~ 145 (152)
+|||+--..-..-|.+. +..||.|-+.|.
T Consensus 377 PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 377 PCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred CcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 49999888888889763 456999977664
No 155
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=59.72 E-value=6.2 Score=25.57 Aligned_cols=38 Identities=24% Similarity=0.453 Sum_probs=29.0
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
...|+-|...+.--+. .| +-.|+-.+..|..|+++++.
T Consensus 33 rS~C~~C~~~L~~~~l---IP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDL---IP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCccccc---ch----------HHHHHHhCCCCcccCCCCCh
Confidence 4679988888755433 34 56699999999999998864
No 156
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=59.15 E-value=10 Score=18.94 Aligned_cols=29 Identities=21% Similarity=0.407 Sum_probs=10.1
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhH
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCI 127 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci 127 (152)
.|.+|.+.... ...-.-+.|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47888777654 233334459999999885
No 157
>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=58.44 E-value=0.73 Score=26.67 Aligned_cols=39 Identities=28% Similarity=0.720 Sum_probs=20.8
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHh--CCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK--HRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~CR~~l~~ 146 (152)
..||.|-+.+... .| +.| |...-.. +.-.||+|.+.+..
T Consensus 3 f~CP~C~~~~~~~----~L--~~H-----~~~~H~~~~~~v~CPiC~~~~~~ 43 (54)
T PF05605_consen 3 FTCPYCGKGFSES----SL--VEH-----CEDEHRSESKNVVCPICSSRVTD 43 (54)
T ss_pred cCCCCCCCccCHH----HH--HHH-----HHhHCcCCCCCccCCCchhhhhh
Confidence 5699998865432 22 223 2222111 24569999876543
No 158
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.83 E-value=5.3 Score=25.91 Aligned_cols=12 Identities=25% Similarity=1.041 Sum_probs=10.7
Q ss_pred ccHHhHHHHHhC
Q 042258 122 FHLHCIDQWLKH 133 (152)
Q Consensus 122 fh~~Ci~~wl~~ 133 (152)
||++|+..|.+.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999863
No 159
>PLN02400 cellulose synthase
Probab=56.10 E-value=10 Score=35.07 Aligned_cols=51 Identities=24% Similarity=0.450 Sum_probs=35.7
Q ss_pred CCccCcccccccc---CCCeeeecCCCCccccHHhHHHH-HhCCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFI---EGETCKSFPECNHIFHLHCIDQW-LKHRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~w-l~~~~~CP~CR~~l~ 145 (152)
.+..|.||-++.- +|+--.....|+--.|+.|.+-= -..++.||.|++...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3468999998874 34544555558888999997421 123788999998755
No 160
>PLN02248 cellulose synthase-like protein
Probab=55.29 E-value=19 Score=33.55 Aligned_cols=48 Identities=25% Similarity=0.574 Sum_probs=32.9
Q ss_pred CccCcc--ccccccC---CCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 96 NTDCAI--CLDDFIE---GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 96 ~~~C~I--C~~~~~~---~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
+..|.+ |-..... ++.+.-.. |++..|++|..--+.....||-|+.+.
T Consensus 124 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 124 GSSCAMPGCDGKVMRDERGEDLLPCE-CGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred CCcccccCcccccccccccccCCccc-ccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 355655 5433321 23333344 788999999999899999999998765
No 161
>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=54.18 E-value=1.4 Score=34.58 Aligned_cols=46 Identities=20% Similarity=0.413 Sum_probs=20.4
Q ss_pred ccCccccccccCCCeeeecC--CCCccccHHhHHHHHhCCCCCCCcCcc
Q 042258 97 TDCAICLDDFIEGETCKSFP--ECNHIFHLHCIDQWLKHRLNCPVCRNP 143 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 143 (152)
..||+|-..-..+. +..-. +-.|.+|.-|-..|-..+..||.|-..
T Consensus 173 g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 173 GYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 57999976642211 11110 124678888888897788899999654
No 162
>PHA02610 uvsY.-2 hypothetical protein; Provisional
Probab=53.92 E-value=4 Score=23.56 Aligned_cols=17 Identities=29% Similarity=0.774 Sum_probs=12.8
Q ss_pred CCCCCcCccCccCCCCC
Q 042258 135 LNCPVCRNPLCRNLELD 151 (152)
Q Consensus 135 ~~CP~CR~~l~~~~~~~ 151 (152)
..|++|+.++-..+.++
T Consensus 2 ~iCvvCK~Pi~~al~v~ 18 (53)
T PHA02610 2 KICVVCKQPIEKALVVE 18 (53)
T ss_pred ceeeeeCCchhhceEEe
Confidence 35889999887776665
No 163
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=52.56 E-value=15 Score=29.44 Aligned_cols=49 Identities=4% Similarity=-0.137 Sum_probs=34.1
Q ss_pred CccCccccccccCCCeeeecCCCCc-cccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNH-IFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
..+|..|-..+... .-.+ |+| .|+.+|.. +....+||.|.......+.|
T Consensus 343 ~~~~~~~~~~~~st---~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~~~~~~i 392 (394)
T KOG2113|consen 343 SLKGTSAGFGLLST---IWSG-GNMNLSPGSLAS--ASASPTSSTCDHNDHTLVPI 392 (394)
T ss_pred hcccccccCceeee---Eeec-CCcccChhhhhh--cccCCccccccccceeeeec
Confidence 36788886655332 2334 998 58888987 56788999999877655543
No 164
>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=52.43 E-value=7.5 Score=20.01 Aligned_cols=19 Identities=32% Similarity=0.707 Sum_probs=11.3
Q ss_pred CCccccHHhHHHHHhCCCCCCCcCc
Q 042258 118 CNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 118 C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
|||++-..- ....||.|.+
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~ 25 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGA 25 (33)
T ss_pred CCCEECCCc------CCCcCcCCCC
Confidence 666554322 3457888865
No 165
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=48.36 E-value=15 Score=24.08 Aligned_cols=32 Identities=31% Similarity=0.746 Sum_probs=21.6
Q ss_pred CccCccccccccCCCeeeec--CCCCccccHHhHHHH
Q 042258 96 NTDCAICLDDFIEGETCKSF--PECNHIFHLHCIDQW 130 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l--~~C~H~fh~~Ci~~w 130 (152)
...|.||.... |. .+.. +.|...||..|....
T Consensus 55 ~~~C~iC~~~~--G~-~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSG--GA-CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCC--ce-eEEcCCCCCCcCCCHHHHHHC
Confidence 46799998872 21 2222 238889999998763
No 166
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=47.70 E-value=5 Score=23.35 Aligned_cols=19 Identities=26% Similarity=0.779 Sum_probs=14.8
Q ss_pred eeecCCCCccccHHhHHHH
Q 042258 112 CKSFPECNHIFHLHCIDQW 130 (152)
Q Consensus 112 ~~~l~~C~H~fh~~Ci~~w 130 (152)
....+.|+|.|+..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3455559999999998887
No 167
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=47.50 E-value=16 Score=24.45 Aligned_cols=29 Identities=21% Similarity=0.488 Sum_probs=22.0
Q ss_pred ccCccccccccC-CCeeeecCCCCccccHH
Q 042258 97 TDCAICLDDFIE-GETCKSFPECNHIFHLH 125 (152)
Q Consensus 97 ~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~ 125 (152)
..|+-|-..|-+ +...++.|+||..|...
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 579999888854 34557788899988876
No 168
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.66 E-value=19 Score=31.78 Aligned_cols=46 Identities=26% Similarity=0.474 Sum_probs=32.9
Q ss_pred cCccccccccCCCeeeecCCCCc-cccHHhHHHHHh--C----CCCCCCcCccCccC
Q 042258 98 DCAICLDDFIEGETCKSFPECNH-IFHLHCIDQWLK--H----RLNCPVCRNPLCRN 147 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~--~----~~~CP~CR~~l~~~ 147 (152)
.|+||-..+.- . ...+||| ..+..|..+... + ...||+||..+-.+
T Consensus 2 ~c~ic~~s~~~---~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDF---V-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCccc---c-ccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 48999877632 2 3445999 999999888642 2 55689999866544
No 169
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=44.50 E-value=3.9 Score=22.36 Aligned_cols=25 Identities=28% Similarity=0.581 Sum_probs=13.8
Q ss_pred CCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 117 ECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 117 ~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
+|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47776654221110 23556999988
No 170
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=44.00 E-value=16 Score=28.09 Aligned_cols=26 Identities=27% Similarity=0.511 Sum_probs=19.2
Q ss_pred ccCccccccccCCCeeeecCCCCcccc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFH 123 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh 123 (152)
..||+|...+...+.....+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 36999999997555555666 689884
No 171
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.82 E-value=9.3 Score=26.41 Aligned_cols=27 Identities=19% Similarity=0.545 Sum_probs=17.4
Q ss_pred cccHHhHHHHHhCCCCCCCcCccCccCCCC
Q 042258 121 IFHLHCIDQWLKHRLNCPVCRNPLCRNLEL 150 (152)
Q Consensus 121 ~fh~~Ci~~wl~~~~~CP~CR~~l~~~~~~ 150 (152)
.||..|... +...||.|.+++.-+.-|
T Consensus 29 afcskcgea---ti~qcp~csasirgd~~v 55 (160)
T COG4306 29 AFCSKCGEA---TITQCPICSASIRGDYYV 55 (160)
T ss_pred HHHhhhchH---HHhcCCccCCccccccee
Confidence 477777665 345688888877655443
No 172
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.73 E-value=17 Score=28.74 Aligned_cols=48 Identities=19% Similarity=0.488 Sum_probs=33.3
Q ss_pred ccCccccccccCCCeeeecCC-CCccccHHhHHHHHhCC-----------CCCCCcCccCc
Q 042258 97 TDCAICLDDFIEGETCKSFPE-CNHIFHLHCIDQWLKHR-----------LNCPVCRNPLC 145 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~-C~H~fh~~Ci~~wl~~~-----------~~CP~CR~~l~ 145 (152)
..|.+|.+.+++...+. .|. =.|.||-.|-.+-++.+ ..||+--.+++
T Consensus 269 LcCTLC~ERLEDTHFVQ-CPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vP 328 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQ-CPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVP 328 (352)
T ss_pred eeehhhhhhhccCceee-cCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCccc
Confidence 78999999997754432 221 37999999988887642 34776655544
No 173
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.55 E-value=19 Score=27.84 Aligned_cols=32 Identities=16% Similarity=0.273 Sum_probs=26.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHh
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK 132 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 132 (152)
.-|..|+..+.++ ...+ =||+|+++||.+.+.
T Consensus 44 dcCsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 44 DCCSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred ceeeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 5699999998765 4555 899999999998764
No 174
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=43.45 E-value=19 Score=32.25 Aligned_cols=47 Identities=28% Similarity=0.565 Sum_probs=30.8
Q ss_pred CCccCccccccccC----C-----CeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 95 SNTDCAICLDDFIE----G-----ETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 95 ~~~~C~IC~~~~~~----~-----~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
.+..|+-|...|-. | ......|.|.|..|..=|.+ ...||+|.....
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSMES 1185 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChhh
Confidence 34567777766622 2 12345667999888766544 588999987654
No 175
>PF10886 DUF2685: Protein of unknown function (DUF2685); InterPro: IPR024362 This is a family of uncharacterised bacteriophage proteins. Their function in unknown.
Probab=43.00 E-value=7.4 Score=22.70 Aligned_cols=16 Identities=31% Similarity=0.800 Sum_probs=11.3
Q ss_pred CCCCcCccCccCCCCC
Q 042258 136 NCPVCRNPLCRNLELD 151 (152)
Q Consensus 136 ~CP~CR~~l~~~~~~~ 151 (152)
.|.+|+.++.+...++
T Consensus 3 ~CvVCKqpi~~a~~v~ 18 (54)
T PF10886_consen 3 ICVVCKQPIDDALVVE 18 (54)
T ss_pred eeeeeCCccCcceEEE
Confidence 4788888887765554
No 176
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=42.81 E-value=21 Score=21.23 Aligned_cols=33 Identities=12% Similarity=0.243 Sum_probs=23.0
Q ss_pred ccCccccccccC--CCeeeecCCCCccccHHhHHH
Q 042258 97 TDCAICLDDFIE--GETCKSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 97 ~~C~IC~~~~~~--~~~~~~l~~C~H~fh~~Ci~~ 129 (152)
..|+.|-..... .......+.||+.+|++-...
T Consensus 29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA 63 (69)
T PF07282_consen 29 QTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNAA 63 (69)
T ss_pred cCccCcccccccccccceEEcCCCCCEECcHHHHH
Confidence 579999777665 334556667999888875443
No 177
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=41.81 E-value=16 Score=25.46 Aligned_cols=23 Identities=22% Similarity=0.670 Sum_probs=17.7
Q ss_pred ecCCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 114 SFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 114 ~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
..++|||.|+- -+..||.|.++.
T Consensus 31 kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEcC--------CcccCCCCCCCC
Confidence 45679998885 467799999874
No 178
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=41.22 E-value=16 Score=28.36 Aligned_cols=40 Identities=23% Similarity=0.422 Sum_probs=28.7
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPV 139 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~ 139 (152)
..|||=...+..+ ..-.+|||+|-++-|...+.. .-.||+
T Consensus 177 ~rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 5688865555443 334469999999999998876 445776
No 179
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=40.78 E-value=20 Score=29.93 Aligned_cols=33 Identities=27% Similarity=0.548 Sum_probs=23.0
Q ss_pred ccCccccccccCC---CeeeecCCCCccccHHhHHHH
Q 042258 97 TDCAICLDDFIEG---ETCKSFPECNHIFHLHCIDQW 130 (152)
Q Consensus 97 ~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~w 130 (152)
..|.||.. |... -..+....|||.-|.+|.-+-
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRH 164 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhccc
Confidence 56889965 5432 234556679999999996653
No 180
>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=40.45 E-value=7.6 Score=23.95 Aligned_cols=39 Identities=26% Similarity=0.538 Sum_probs=16.7
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
.||.|..++... =+|..|..|-.. +.....||-|..+|-
T Consensus 3 ~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 3 TCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred cCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHHH
Confidence 577777765332 144444444332 334556777776653
No 181
>PRK11827 hypothetical protein; Provisional
Probab=40.06 E-value=9.7 Score=22.75 Aligned_cols=19 Identities=37% Similarity=0.721 Sum_probs=13.8
Q ss_pred HHHhCCCCCCCcCccCccC
Q 042258 129 QWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 129 ~wl~~~~~CP~CR~~l~~~ 147 (152)
+||...-.||.|+.+|...
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4566667799999887643
No 182
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=39.70 E-value=23 Score=22.17 Aligned_cols=31 Identities=32% Similarity=0.741 Sum_probs=21.2
Q ss_pred ccCccccccccCCCee-eecCCCCccccHHhHHH
Q 042258 97 TDCAICLDDFIEGETC-KSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~-~~l~~C~H~fh~~Ci~~ 129 (152)
..|.+|.... |..+ -..+.|.-.||-.|...
T Consensus 37 ~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 5799998662 3221 12445999999999765
No 183
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=38.90 E-value=30 Score=22.94 Aligned_cols=33 Identities=21% Similarity=0.388 Sum_probs=26.6
Q ss_pred cCccccccccCCCeeeecCCCCccccHHhHHHHHh
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLK 132 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 132 (152)
.|.||-+++..|+....+.+ -..|..|+..=..
T Consensus 4 kC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred EEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 69999999999888777764 5699999877544
No 184
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=38.63 E-value=15 Score=32.10 Aligned_cols=46 Identities=24% Similarity=0.664 Sum_probs=28.4
Q ss_pred ccCccccccccCCCe-eeecCCCCccccHHhHHHHHhC-----CCCCCCcCc
Q 042258 97 TDCAICLDDFIEGET-CKSFPECNHIFHLHCIDQWLKH-----RLNCPVCRN 142 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~CR~ 142 (152)
.-|++|-..=+..+. ......|+-.+|..|+..|+.. .-.||-||.
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 446666443333222 2223348899999999999864 234887764
No 185
>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=37.96 E-value=17 Score=17.71 Aligned_cols=9 Identities=44% Similarity=1.224 Sum_probs=7.0
Q ss_pred CCCCcCccC
Q 042258 136 NCPVCRNPL 144 (152)
Q Consensus 136 ~CP~CR~~l 144 (152)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588887776
No 186
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=37.08 E-value=5.1 Score=19.02 Aligned_cols=8 Identities=25% Similarity=0.812 Sum_probs=3.3
Q ss_pred Cccccccc
Q 042258 99 CAICLDDF 106 (152)
Q Consensus 99 C~IC~~~~ 106 (152)
|+-|-.++
T Consensus 2 Cp~CG~~~ 9 (23)
T PF13240_consen 2 CPNCGAEI 9 (23)
T ss_pred CcccCCCC
Confidence 44444443
No 187
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=36.45 E-value=24 Score=20.96 Aligned_cols=15 Identities=33% Similarity=0.910 Sum_probs=11.5
Q ss_pred CCCCCCCcCccCccC
Q 042258 133 HRLNCPVCRNPLCRN 147 (152)
Q Consensus 133 ~~~~CP~CR~~l~~~ 147 (152)
.++.||+|-.+++.+
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 367899998888765
No 188
>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=36.40 E-value=22 Score=23.90 Aligned_cols=34 Identities=21% Similarity=0.302 Sum_probs=21.3
Q ss_pred CCccCcccccccc--CCCeeeecCCCCccccHHhHHH
Q 042258 95 SNTDCAICLDDFI--EGETCKSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 95 ~~~~C~IC~~~~~--~~~~~~~l~~C~H~fh~~Ci~~ 129 (152)
+...|.+|...|. .+... ....|+|.+|..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~-~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGR-VCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCE-EETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCC-cCCcCCccccCccCCc
Confidence 3467999988763 23333 3444999999998554
No 189
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=35.29 E-value=19 Score=27.62 Aligned_cols=40 Identities=25% Similarity=0.380 Sum_probs=29.1
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC--CCCCCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH--RLNCPV 139 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~ 139 (152)
..|+|=+..+..+ +...+|+|.|-.+-|...++. ...||.
T Consensus 190 nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 190 NRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred ccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 6799976665332 334469999999999999984 556764
No 190
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=35.04 E-value=12 Score=18.60 Aligned_cols=11 Identities=55% Similarity=1.286 Sum_probs=5.8
Q ss_pred CCCCcCccCcc
Q 042258 136 NCPVCRNPLCR 146 (152)
Q Consensus 136 ~CP~CR~~l~~ 146 (152)
.||.|.+++.+
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48888888763
No 191
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=34.52 E-value=10 Score=22.00 Aligned_cols=8 Identities=38% Similarity=0.966 Sum_probs=2.6
Q ss_pred ccCccccc
Q 042258 97 TDCAICLD 104 (152)
Q Consensus 97 ~~C~IC~~ 104 (152)
.+|++|..
T Consensus 25 atCP~C~a 32 (54)
T PF09237_consen 25 ATCPICGA 32 (54)
T ss_dssp EE-TTT--
T ss_pred CCCCcchh
Confidence 45555543
No 192
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=34.20 E-value=6.8 Score=30.87 Aligned_cols=36 Identities=25% Similarity=0.636 Sum_probs=27.7
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH 133 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 133 (152)
..|.+|++++..+....... |.-.||..|+-.|+.+
T Consensus 215 rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTT 250 (288)
T ss_pred eecHHHHHHHhcccccchhh-cccccccccccccccc
Confidence 48999999997644444444 6669999999999875
No 193
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=33.75 E-value=26 Score=17.49 Aligned_cols=28 Identities=21% Similarity=0.438 Sum_probs=16.4
Q ss_pred cCccccccccCCCeeeecCCCCccccHHh
Q 042258 98 DCAICLDDFIEGETCKSFPECNHIFHLHC 126 (152)
Q Consensus 98 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~C 126 (152)
.|.+|.+....... -....|+-.+|..|
T Consensus 2 ~C~~C~~~~~~~~~-Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYF-YHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEe-EEeCCCCCeEcCcc
Confidence 48888766543322 22244777777766
No 194
>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=33.68 E-value=10 Score=30.20 Aligned_cols=46 Identities=17% Similarity=0.398 Sum_probs=28.1
Q ss_pred ccCccccccccCCCeeee---cCCCCccccHHhHHHHHhCCCCCCCcCcc
Q 042258 97 TDCAICLDDFIEGETCKS---FPECNHIFHLHCIDQWLKHRLNCPVCRNP 143 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~---l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~ 143 (152)
..||+|-..-..+. +.. -..=.+..|.-|-..|-..+..||.|-..
T Consensus 185 ~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 185 TLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 58999976542110 011 01123566777888887778889999753
No 195
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=33.39 E-value=22 Score=31.66 Aligned_cols=34 Identities=24% Similarity=0.573 Sum_probs=23.7
Q ss_pred eecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 113 KSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 113 ~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
...|.|.-.||.+=..--.-.+..||.||+.--+
T Consensus 1045 t~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~dd 1078 (1081)
T KOG1538|consen 1045 TMCPSCFQMFHSEDFELLVLQKGHCPFCRTSKDD 1078 (1081)
T ss_pred hhCchHHhhhccchhhHHHHhcCCCCcccccccC
Confidence 3455677777776555555567899999987544
No 196
>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=33.11 E-value=28 Score=19.06 Aligned_cols=18 Identities=39% Similarity=0.912 Sum_probs=12.9
Q ss_pred HHHhCCCCCCCcCccCcc
Q 042258 129 QWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 129 ~wl~~~~~CP~CR~~l~~ 146 (152)
.|--...+||.|..++.+
T Consensus 12 G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 12 GWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred hHhHhcCccCCCCCeeEE
Confidence 344457789999888776
No 197
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=32.73 E-value=29 Score=23.26 Aligned_cols=26 Identities=19% Similarity=0.410 Sum_probs=15.8
Q ss_pred cCccccccccCC-CeeeecCCCCcccc
Q 042258 98 DCAICLDDFIEG-ETCKSFPECNHIFH 123 (152)
Q Consensus 98 ~C~IC~~~~~~~-~~~~~l~~C~H~fh 123 (152)
.||-|..+|--. ......|.|+|.+-
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccc
Confidence 589998887421 22345566777654
No 198
>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=32.47 E-value=31 Score=22.37 Aligned_cols=37 Identities=16% Similarity=0.477 Sum_probs=28.1
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
..|.||-....+ =||.||..|..+ ...|.+|=..+.+
T Consensus 45 ~~C~~CK~~v~q---------~g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 45 SKCKICKTKVHQ---------PGAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred cccccccccccc---------CCCccChhhhcc----cCcccccCCeecc
Confidence 579999776422 477899999766 6889999888754
No 199
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=32.35 E-value=17 Score=34.83 Aligned_cols=49 Identities=29% Similarity=0.547 Sum_probs=36.4
Q ss_pred CCccCccccccccCCCeeeecCCCCccccHHhHHHHHhC----CCCCCCcCccC
Q 042258 95 SNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH----RLNCPVCRNPL 144 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~CP~CR~~l 144 (152)
....|.+|.....+...+... .|.-.||..|+.+-+.. .=.||-||..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 346799999887664443333 48899999999998875 33599999764
No 200
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=32.33 E-value=41 Score=28.41 Aligned_cols=47 Identities=23% Similarity=0.585 Sum_probs=31.2
Q ss_pred CccCcccccccc-CCCeeeecCCCCccccHHhHHHHHhC--------CCCCCCcCc
Q 042258 96 NTDCAICLDDFI-EGETCKSFPECNHIFHLHCIDQWLKH--------RLNCPVCRN 142 (152)
Q Consensus 96 ~~~C~IC~~~~~-~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~CP~CR~ 142 (152)
+..|.+|+.--. ....+....+|+-.||..|-..-... ...|-+|+.
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 356999985432 23356666779999999997765432 233777765
No 201
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=31.42 E-value=31 Score=26.37 Aligned_cols=24 Identities=25% Similarity=0.555 Sum_probs=15.3
Q ss_pred ccHHhHHHHHhCCCCCCCcCccCc
Q 042258 122 FHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 122 fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
.|..|-.+--++-..||+|++.--
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccc
Confidence 344454444456789999987643
No 202
>PRK01343 zinc-binding protein; Provisional
Probab=31.19 E-value=35 Score=20.13 Aligned_cols=10 Identities=40% Similarity=1.029 Sum_probs=5.3
Q ss_pred CCCCCcCccC
Q 042258 135 LNCPVCRNPL 144 (152)
Q Consensus 135 ~~CP~CR~~l 144 (152)
..||.|+++.
T Consensus 10 ~~CP~C~k~~ 19 (57)
T PRK01343 10 RPCPECGKPS 19 (57)
T ss_pred CcCCCCCCcC
Confidence 3466665554
No 203
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.04 E-value=32 Score=31.88 Aligned_cols=46 Identities=15% Similarity=0.285 Sum_probs=31.3
Q ss_pred ccCccccccccCCCeeeecCCCCc-----cccHHhHHHHHhCCCCCCCcCccCccCC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNH-----IFHLHCIDQWLKHRLNCPVCRNPLCRNL 148 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~~~~CP~CR~~l~~~~ 148 (152)
..|+-|-... ....+|.||. .||..|-.. .....||-|..++....
T Consensus 627 RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 627 RKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPTPYS 677 (1121)
T ss_pred ccCCCCCCcC----CcccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCCccc
Confidence 6788887663 1235677884 589999333 34567999998876544
No 204
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=30.98 E-value=23 Score=31.43 Aligned_cols=47 Identities=23% Similarity=0.600 Sum_probs=30.5
Q ss_pred CccCccccccccCCC-e------eeecCCCCccccHHhHHHH----------HhCCCCCCCcCcc
Q 042258 96 NTDCAICLDDFIEGE-T------CKSFPECNHIFHLHCIDQW----------LKHRLNCPVCRNP 143 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~-~------~~~l~~C~H~fh~~Ci~~w----------l~~~~~CP~CR~~ 143 (152)
..+|-||-|.=+..+ . +-... |.-.||..|.... +++-+.|.+|+.-
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~-CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~H 180 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSG-CKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYH 180 (900)
T ss_pred cceeeeecccCCccccccccceeccccc-chhhhhhhHhhhhccceeccccccccceechhHHHH
Confidence 378999988743322 1 11222 7778999998875 1235679999763
No 205
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=30.96 E-value=50 Score=25.84 Aligned_cols=48 Identities=27% Similarity=0.541 Sum_probs=26.8
Q ss_pred ccCccccccccCCCeeeecC-CCCccccHHhHHHH-HhCCCCCCCcCccCcc
Q 042258 97 TDCAICLDDFIEGETCKSFP-ECNHIFHLHCIDQW-LKHRLNCPVCRNPLCR 146 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~w-l~~~~~CP~CR~~l~~ 146 (152)
..|.||++--..|-.-..|. .=.=.-|++|..+| +.-+..|| |+.+.+
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p--rsk~sk 80 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP--RSKLSK 80 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC--cccccc
Confidence 46888877654432111111 01114689999999 44577788 444443
No 206
>PF12773 DZR: Double zinc ribbon
Probab=30.36 E-value=54 Score=18.06 Aligned_cols=14 Identities=29% Similarity=0.505 Sum_probs=8.1
Q ss_pred CCCCCCcCccCccC
Q 042258 134 RLNCPVCRNPLCRN 147 (152)
Q Consensus 134 ~~~CP~CR~~l~~~ 147 (152)
...||.|.+.+...
T Consensus 29 ~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 29 KKICPNCGAENPPN 42 (50)
T ss_pred CCCCcCCcCCCcCC
Confidence 34577776665443
No 207
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 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 family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=30.24 E-value=38 Score=25.83 Aligned_cols=22 Identities=23% Similarity=0.552 Sum_probs=14.0
Q ss_pred cHHhHHHHHhCCCCCCCcCccC
Q 042258 123 HLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 123 h~~Ci~~wl~~~~~CP~CR~~l 144 (152)
|..|-..-=++-..||+|++.=
T Consensus 197 C~sC~qqIHRNAPiCPlCK~Ks 218 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKS 218 (230)
T ss_pred hHhHHHHHhcCCCCCccccccc
Confidence 3444444334678999998753
No 208
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.88 E-value=43 Score=20.81 Aligned_cols=26 Identities=23% Similarity=0.493 Sum_probs=20.0
Q ss_pred CccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 119 NHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 119 ~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
.|.||.+|...- -+..||.|--+|..
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhhc
Confidence 478999998864 36789999776653
No 209
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=29.75 E-value=25 Score=20.99 Aligned_cols=11 Identities=64% Similarity=1.585 Sum_probs=8.4
Q ss_pred CCCCCcCccCc
Q 042258 135 LNCPVCRNPLC 145 (152)
Q Consensus 135 ~~CP~CR~~l~ 145 (152)
-.||+||.+|.
T Consensus 9 LaCP~~kg~L~ 19 (60)
T COG2835 9 LACPVCKGPLV 19 (60)
T ss_pred eeccCcCCcce
Confidence 45999998864
No 210
>PRK10220 hypothetical protein; Provisional
Probab=29.48 E-value=43 Score=22.50 Aligned_cols=26 Identities=23% Similarity=0.609 Sum_probs=15.6
Q ss_pred cCccccccccCC-CeeeecCCCCcccc
Q 042258 98 DCAICLDDFIEG-ETCKSFPECNHIFH 123 (152)
Q Consensus 98 ~C~IC~~~~~~~-~~~~~l~~C~H~fh 123 (152)
.||-|-.+|--. ......|.|+|-+-
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcCC
Confidence 588898877422 22345566777553
No 211
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=29.01 E-value=35 Score=20.29 Aligned_cols=14 Identities=21% Similarity=0.603 Sum_probs=11.2
Q ss_pred CCCCCCcCccCccC
Q 042258 134 RLNCPVCRNPLCRN 147 (152)
Q Consensus 134 ~~~CP~CR~~l~~~ 147 (152)
++.||+|-+.++.+
T Consensus 8 H~HC~VCg~aIp~d 21 (64)
T COG4068 8 HRHCVVCGKAIPPD 21 (64)
T ss_pred CccccccCCcCCCc
Confidence 67799998888765
No 212
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=28.22 E-value=16 Score=29.12 Aligned_cols=46 Identities=15% Similarity=0.392 Sum_probs=28.4
Q ss_pred CccCccccccccCCCeeee--cCCCCccccHHhHHHHHhCCCCCCCcCc
Q 042258 96 NTDCAICLDDFIEGETCKS--FPECNHIFHLHCIDQWLKHRLNCPVCRN 142 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~--l~~C~H~fh~~Ci~~wl~~~~~CP~CR~ 142 (152)
...||+|-..-... -+.. -.+=.|..|.-|-..|-..+..||.|-.
T Consensus 187 ~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 46799997663221 0000 1112356777788888777888999975
No 213
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=27.64 E-value=42 Score=23.20 Aligned_cols=29 Identities=14% Similarity=0.125 Sum_probs=21.6
Q ss_pred ccCccccccccC-CCeeeecCCCCccccHH
Q 042258 97 TDCAICLDDFIE-GETCKSFPECNHIFHLH 125 (152)
Q Consensus 97 ~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~ 125 (152)
..|+-|-..|-+ +...++.|+||..|...
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 579999888854 34567788899888765
No 214
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=27.62 E-value=8.4 Score=30.17 Aligned_cols=48 Identities=19% Similarity=0.508 Sum_probs=33.4
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC----CCCCCCcCccCc
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH----RLNCPVCRNPLC 145 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~CP~CR~~l~ 145 (152)
..|.||-.. .+++.+.....|..-||..|+.+=+.. +-+|.+|-..+-
T Consensus 282 k~csicgts-enddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~ 333 (336)
T KOG1244|consen 282 KYCSICGTS-ENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELK 333 (336)
T ss_pred ceeccccCc-CCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHh
Confidence 457888655 334555666669999999999887654 456888865543
No 215
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.48 E-value=48 Score=26.03 Aligned_cols=9 Identities=22% Similarity=0.770 Sum_probs=6.6
Q ss_pred CCCCCcCcc
Q 042258 135 LNCPVCRNP 143 (152)
Q Consensus 135 ~~CP~CR~~ 143 (152)
..||.|.+.
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 578888765
No 216
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=27.19 E-value=30 Score=17.56 Aligned_cols=25 Identities=24% Similarity=0.680 Sum_probs=9.3
Q ss_pred cCccccccccC-CCeeeecCCCCccc
Q 042258 98 DCAICLDDFIE-GETCKSFPECNHIF 122 (152)
Q Consensus 98 ~C~IC~~~~~~-~~~~~~l~~C~H~f 122 (152)
.|+.|-.++.- +..+.+.|.|+|.+
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCcceeccCCEEeCCcccccC
Confidence 47777766532 22334455677753
No 217
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=26.66 E-value=41 Score=23.29 Aligned_cols=21 Identities=24% Similarity=0.645 Sum_probs=15.7
Q ss_pred CCccccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 118 CNHIFHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 118 C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
|++.||. .+.||.|+.-+++.
T Consensus 103 C~~~Y~G---------eK~C~~C~tGiYS~ 123 (128)
T PF11682_consen 103 CGNHYHG---------EKYCPKCGTGIYSI 123 (128)
T ss_pred CCCccCc---------CEecCCCCCcccce
Confidence 7777774 57799999877654
No 218
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=26.26 E-value=47 Score=29.21 Aligned_cols=40 Identities=20% Similarity=0.514 Sum_probs=21.8
Q ss_pred ccCccccccccCCCeeeecCCCCccccH--HhHHHHH--hC-----CCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHL--HCIDQWL--KH-----RLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~--~Ci~~wl--~~-----~~~CP~CR~~l 144 (152)
..|+|+...+. +| |.+..|+ .|.+.-+ .. .-.||+|.+..
T Consensus 307 L~CPl~~~Rm~-------~P-~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~ 355 (636)
T KOG2169|consen 307 LNCPLSKMRMS-------LP-ARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAA 355 (636)
T ss_pred ecCCcccceee-------cC-CcccccccceecchhhhHHhccCCCeeeCccCCccc
Confidence 66888776653 33 4444433 4544332 11 23499998754
No 219
>PRK05978 hypothetical protein; Provisional
Probab=26.01 E-value=41 Score=23.87 Aligned_cols=22 Identities=23% Similarity=0.610 Sum_probs=16.1
Q ss_pred CccccHHhHHHHHhCCCCCCCcCccCc
Q 042258 119 NHIFHLHCIDQWLKHRLNCPVCRNPLC 145 (152)
Q Consensus 119 ~H~fh~~Ci~~wl~~~~~CP~CR~~l~ 145 (152)
|+.|+ .+++-+..||.|-.++.
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~ 63 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFT 63 (148)
T ss_pred Ccccc-----cccccCCCccccCCccc
Confidence 36676 47778899999976653
No 220
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=25.17 E-value=46 Score=18.53 Aligned_cols=33 Identities=18% Similarity=0.469 Sum_probs=21.9
Q ss_pred CccCccccccc--cCCCeeeecCCCCccccHHhHHH
Q 042258 96 NTDCAICLDDF--IEGETCKSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 96 ~~~C~IC~~~~--~~~~~~~~l~~C~H~fh~~Ci~~ 129 (152)
...|.+|.+.+ ...+...-.. |+-..|..|+..
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 35799998887 3334444444 999999999765
No 221
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=24.99 E-value=33 Score=18.34 Aligned_cols=10 Identities=40% Similarity=0.979 Sum_probs=7.4
Q ss_pred CCCCcCccCc
Q 042258 136 NCPVCRNPLC 145 (152)
Q Consensus 136 ~CP~CR~~l~ 145 (152)
.||.|+..|.
T Consensus 1 ~CP~C~~~l~ 10 (41)
T PF13453_consen 1 KCPRCGTELE 10 (41)
T ss_pred CcCCCCcccc
Confidence 4899988654
No 222
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.58 E-value=22 Score=24.92 Aligned_cols=40 Identities=30% Similarity=0.774 Sum_probs=22.1
Q ss_pred CCccCcccccc-ccCCCeeeecCCCCcc-------ccHHhHHHHHhC-CC---CCCCcCc
Q 042258 95 SNTDCAICLDD-FIEGETCKSFPECNHI-------FHLHCIDQWLKH-RL---NCPVCRN 142 (152)
Q Consensus 95 ~~~~C~IC~~~-~~~~~~~~~l~~C~H~-------fh~~Ci~~wl~~-~~---~CP~CR~ 142 (152)
.+.+|.||... |.+| |||. ||..|..+.-.+ ++ .|-+|+.
T Consensus 64 ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 64 DDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred cCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 44789999754 4333 6664 455554443222 22 3777765
No 223
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=24.49 E-value=36 Score=17.93 Aligned_cols=31 Identities=26% Similarity=0.560 Sum_probs=19.2
Q ss_pred ecCCCCccccHHhHHHHHhCCCCCCCcCccCcc
Q 042258 114 SFPECNHIFHLHCIDQWLKHRLNCPVCRNPLCR 146 (152)
Q Consensus 114 ~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l~~ 146 (152)
..++||++||..=--+ .....|..|..+|.+
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELVQ 33 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEBE
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeEe
Confidence 4567999999421111 124669988887764
No 224
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=24.20 E-value=33 Score=27.95 Aligned_cols=48 Identities=23% Similarity=0.561 Sum_probs=24.8
Q ss_pred CCccCccccccccCCCeeeec--CCCCccccHH--------hHHHH---Hh--CCCCCCCcCcc
Q 042258 95 SNTDCAICLDDFIEGETCKSF--PECNHIFHLH--------CIDQW---LK--HRLNCPVCRNP 143 (152)
Q Consensus 95 ~~~~C~IC~~~~~~~~~~~~l--~~C~H~fh~~--------Ci~~w---l~--~~~~CP~CR~~ 143 (152)
.++-|++|-+..+. -....+ .+|.-.|.+. |...- +. .++.||.||..
T Consensus 14 l~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred cccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 34679999887633 332222 2344444432 22211 00 14679999974
No 225
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=24.09 E-value=53 Score=19.66 Aligned_cols=9 Identities=33% Similarity=0.870 Sum_probs=4.4
Q ss_pred ecCCCCccc
Q 042258 114 SFPECNHIF 122 (152)
Q Consensus 114 ~l~~C~H~f 122 (152)
..+.|+|.|
T Consensus 55 ~Cp~c~r~Y 63 (68)
T PF03966_consen 55 ICPECGREY 63 (68)
T ss_dssp EETTTTEEE
T ss_pred EcCCCCCEE
Confidence 344455554
No 226
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=23.80 E-value=71 Score=16.96 Aligned_cols=32 Identities=19% Similarity=0.475 Sum_probs=22.6
Q ss_pred ccCccccccccCCC-eeeecCCCCccccHHhHHH
Q 042258 97 TDCAICLDDFIEGE-TCKSFPECNHIFHLHCIDQ 129 (152)
Q Consensus 97 ~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~ 129 (152)
..|.+|.+.+.... ... ...|+=..|..|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~-C~~C~~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLR-CSWCKVKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcC-CCCCCchHHHHHHhh
Confidence 56999988876432 222 334888999999876
No 227
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=23.23 E-value=83 Score=21.94 Aligned_cols=13 Identities=31% Similarity=0.812 Sum_probs=9.8
Q ss_pred CCCCCCcCccCcc
Q 042258 134 RLNCPVCRNPLCR 146 (152)
Q Consensus 134 ~~~CP~CR~~l~~ 146 (152)
...||.|...|..
T Consensus 123 ~f~Cp~Cg~~l~~ 135 (147)
T smart00531 123 TFTCPRCGEELEE 135 (147)
T ss_pred cEECCCCCCEEEE
Confidence 3679999987743
No 228
>PRK02935 hypothetical protein; Provisional
Probab=22.84 E-value=1.1e+02 Score=20.44 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=10.9
Q ss_pred HhCCCCCCCcCccCccC
Q 042258 131 LKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 131 l~~~~~CP~CR~~l~~~ 147 (152)
+.+...|..|+.+|.-+
T Consensus 83 LGrvD~CM~C~~PLTLd 99 (110)
T PRK02935 83 LGRVDACMHCNQPLTLD 99 (110)
T ss_pred ccceeecCcCCCcCCcC
Confidence 34455688888877544
No 229
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=22.76 E-value=28 Score=28.72 Aligned_cols=49 Identities=27% Similarity=0.587 Sum_probs=0.0
Q ss_pred CccCccccccccC-----C--------C---eeeecCCCCccccHHhHHHHHhC---------CCCCCCcCccCc
Q 042258 96 NTDCAICLDDFIE-----G--------E---TCKSFPECNHIFHLHCIDQWLKH---------RLNCPVCRNPLC 145 (152)
Q Consensus 96 ~~~C~IC~~~~~~-----~--------~---~~~~l~~C~H~fh~~Ci~~wl~~---------~~~CP~CR~~l~ 145 (152)
..+|++|+..-.- + . .....| |||+--.....-|-+. +..||.|-.+|.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 5789999865311 0 0 112345 9999999999999653 356999988775
No 230
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.57 E-value=27 Score=27.81 Aligned_cols=45 Identities=24% Similarity=0.552 Sum_probs=35.2
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhCCCCCCCcCccC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR~~l 144 (152)
..|-+|...+..+.. -..|.|.|+..|...|.....-||.|+...
T Consensus 106 ~~~~~~~g~l~vpt~---~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 106 DICYICYGKLTVPTR---IQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred cceeeeeeeEEeccc---ccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 679999888755422 223999999999999999888899888644
No 231
>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=22.37 E-value=47 Score=28.15 Aligned_cols=12 Identities=25% Similarity=0.437 Sum_probs=7.1
Q ss_pred ccCccccccccC
Q 042258 97 TDCAICLDDFIE 108 (152)
Q Consensus 97 ~~C~IC~~~~~~ 108 (152)
..|+-|+.++..
T Consensus 27 ~yCp~CL~~~p~ 38 (483)
T PF05502_consen 27 YYCPNCLFEVPS 38 (483)
T ss_pred eECccccccCCh
Confidence 456666666543
No 232
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=21.81 E-value=21 Score=28.09 Aligned_cols=29 Identities=21% Similarity=0.366 Sum_probs=14.7
Q ss_pred CccccHHhHHHHHhC----CCCCCCcCccCccC
Q 042258 119 NHIFHLHCIDQWLKH----RLNCPVCRNPLCRN 147 (152)
Q Consensus 119 ~H~fh~~Ci~~wl~~----~~~CP~CR~~l~~~ 147 (152)
.|.||..|..+-..+ ...||.|+...+..
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR 142 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFPR 142 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCCC
Confidence 455555555443222 34477776655443
No 233
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.73 E-value=49 Score=29.27 Aligned_cols=40 Identities=23% Similarity=0.529 Sum_probs=27.1
Q ss_pred ccCccccccccCCC--eeeecCCCCccccHHhHHHHHhCCCCCCCcC
Q 042258 97 TDCAICLDDFIEGE--TCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141 (152)
Q Consensus 97 ~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~CR 141 (152)
..|.+|... ++.+ -++.+. |+..||..| |..-.+.||+|-
T Consensus 655 r~C~vcq~p-edse~~v~rt~~-C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLP-EDSETDVCRTTF-CYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHHhcCC-cCccccccCccc-cCCcchHhh---hhhhhccCcccC
Confidence 568888654 3322 234444 989888888 666788899993
No 234
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=21.64 E-value=89 Score=16.10 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=6.0
Q ss_pred cCcccccccc
Q 042258 98 DCAICLDDFI 107 (152)
Q Consensus 98 ~C~IC~~~~~ 107 (152)
+|+-|-..|.
T Consensus 4 ~CP~C~~~~~ 13 (38)
T TIGR02098 4 QCPNCKTSFR 13 (38)
T ss_pred ECCCCCCEEE
Confidence 4666666553
No 235
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.35 E-value=91 Score=24.03 Aligned_cols=28 Identities=14% Similarity=0.409 Sum_probs=19.7
Q ss_pred CccCccccccccCCCeeeecCCCCccccHHh
Q 042258 96 NTDCAICLDDFIEGETCKSFPECNHIFHLHC 126 (152)
Q Consensus 96 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~C 126 (152)
...|+.|-. +. ......+.||+.+|++=
T Consensus 309 S~~C~~cg~-~~--~r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 309 SKTCPCCGH-LS--GRLFKCPRCGFVHDRDV 336 (364)
T ss_pred cccccccCC-cc--ceeEECCCCCCeehhhH
Confidence 367999987 32 23345677999999883
No 236
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=21.07 E-value=42 Score=31.90 Aligned_cols=34 Identities=18% Similarity=0.400 Sum_probs=0.0
Q ss_pred eecCCCCcc----ccHHhHHHHHhCCCCCCCcCccCccC
Q 042258 113 KSFPECNHI----FHLHCIDQWLKHRLNCPVCRNPLCRN 147 (152)
Q Consensus 113 ~~l~~C~H~----fh~~Ci~~wl~~~~~CP~CR~~l~~~ 147 (152)
+.+|+||+. ||..|-.+ +.....||.|++++...
T Consensus 668 rkCPkCG~~t~~~fCP~CGs~-te~vy~CPsCGaev~~d 705 (1337)
T PRK14714 668 RRCPSCGTETYENRCPDCGTH-TEPVYVCPDCGAEVPPD 705 (1337)
T ss_pred EECCCCCCccccccCcccCCc-CCCceeCccCCCccCCC
No 237
>PF15353 HECA: Headcase protein family homologue
Probab=20.97 E-value=62 Score=21.63 Aligned_cols=13 Identities=23% Similarity=0.943 Sum_probs=12.1
Q ss_pred CCccccHHhHHHH
Q 042258 118 CNHIFHLHCIDQW 130 (152)
Q Consensus 118 C~H~fh~~Ci~~w 130 (152)
.++.+|.+|...|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 5889999999999
No 238
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.65 E-value=1.4e+02 Score=19.64 Aligned_cols=35 Identities=20% Similarity=0.430 Sum_probs=27.0
Q ss_pred ccCccccccccCCCeeeecCCCCccccHHhHHHHHhC
Q 042258 97 TDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKH 133 (152)
Q Consensus 97 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 133 (152)
..|.+|-+....|+.....+ .-..|-+|+..=.++
T Consensus 7 wkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~~ 41 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKRK 41 (103)
T ss_pred eeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHhc
Confidence 56999999999998877665 445899998775443
No 239
>PRK00420 hypothetical protein; Validated
Probab=20.54 E-value=80 Score=21.31 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=5.4
Q ss_pred CCCCCcCccC
Q 042258 135 LNCPVCRNPL 144 (152)
Q Consensus 135 ~~CP~CR~~l 144 (152)
..||.|-..+
T Consensus 41 ~~Cp~Cg~~~ 50 (112)
T PRK00420 41 VVCPVHGKVY 50 (112)
T ss_pred eECCCCCCee
Confidence 3466665543
Done!